Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.04
Sequence: scaffold86
Parameters: 2 7 7 80 10 50 500
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 500
Length: 1697160
ACGTcount: A:0.30, C:0.15, G:0.15, T:0.30
Warning! 169504 characters in sequence are not A, C, G, or T
File 4 of 6
Found at i:691368 original size:22 final size:23
Alignment explanation
Indices: 691320--691368 Score: 64
Period size: 23 Copynumber: 2.2 Consensus size: 23
691310 CTTTAATATT
* *
691320 TTTCCTATCCTTTAAAATTTAAA
1 TTTCATATCCTTTAAAATTAAAA
*
691343 TTTCATATCGTTTAAAA-TAAAA
1 TTTCATATCCTTTAAAATTAAAA
691365 TTTC
1 TTTC
691369 TTATGCAAAT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
22 8 0.35
23 15 0.65
ACGTcount: A:0.37, C:0.14, G:0.02, T:0.47
Consensus pattern (23 bp):
TTTCATATCCTTTAAAATTAAAA
Found at i:691993 original size:15 final size:15
Alignment explanation
Indices: 691973--692002 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
691963 AAGGGTGTCC
691973 TCATCATCTTCTGAA
1 TCATCATCTTCTGAA
691988 TCATCATCTTCTGAA
1 TCATCATCTTCTGAA
692003 ATTGAGACGA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.27, C:0.27, G:0.07, T:0.40
Consensus pattern (15 bp):
TCATCATCTTCTGAA
Found at i:702567 original size:12 final size:12
Alignment explanation
Indices: 702547--702586 Score: 53
Period size: 12 Copynumber: 3.3 Consensus size: 12
702537 AACTGAAGTG
*
702547 GGACAGACAGAC
1 GGACGGACAGAC
702559 GGACGGACAGAC
1 GGACGGACAGAC
* *
702571 AGACGGACGGAC
1 GGACGGACAGAC
702583 GGAC
1 GGAC
702587 TGACGGACGC
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
12 24 1.00
ACGTcount: A:0.35, C:0.25, G:0.40, T:0.00
Consensus pattern (12 bp):
GGACGGACAGAC
Found at i:702568 original size:16 final size:16
Alignment explanation
Indices: 702547--702595 Score: 80
Period size: 16 Copynumber: 3.1 Consensus size: 16
702537 AACTGAAGTG
702547 GGACAGACAGACGGAC
1 GGACAGACAGACGGAC
702563 GGACAGACAGACGGAC
1 GGACAGACAGACGGAC
* *
702579 GGACGGACTGACGGAC
1 GGACAGACAGACGGAC
702595 G
1 G
702596 CAAAGGAAAG
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 31 1.00
ACGTcount: A:0.33, C:0.24, G:0.41, T:0.02
Consensus pattern (16 bp):
GGACAGACAGACGGAC
Found at i:702579 original size:4 final size:4
Alignment explanation
Indices: 702556--702595 Score: 53
Period size: 4 Copynumber: 10.0 Consensus size: 4
702546 GGGACAGACA
* * *
702556 GACG GACG GACA GACA GACG GACG GACG GACT GACG GACG
1 GACG GACG GACG GACG GACG GACG GACG GACG GACG GACG
702596 CAAAGGAAAG
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
4 32 1.00
ACGTcount: A:0.30, C:0.25, G:0.42, T:0.03
Consensus pattern (4 bp):
GACG
Found at i:707137 original size:43 final size:43
Alignment explanation
Indices: 707075--707860 Score: 587
Period size: 43 Copynumber: 18.4 Consensus size: 43
707065 GTGTAAATGG
* *
707075 GATAACCAATGGCTGTTTGCATTAGTTA-TAACGTGTAGATACT
1 GATAACCAATGACTATTTGCATTAGTTACT-ACGTGTAGATACT
* * *
707118 GATAACCAATGACTATTTGCATTAATAACTACGTGTAGATATT
1 GATAACCAATGACTATTTGCATTAGTTACTACGTGTAGATACT
* * * * *
707161 GATAATCAATTACTATTTGTATTATTTACTACGTGTAGATATT
1 GATAACCAATGACTATTTGCATTAGTTACTACGTGTAGATACT
* * *
707204 GATAATCAATGACTATTTGCATTAGTTATTACCTGTAGATACT
1 GATAACCAATGACTATTTGCATTAGTTACTACGTGTAGATACT
** * * * * * *
707247 GATAATTAATAAATATTTGCATTTGTTACTACACT-TAGACATT
1 GATAACCAATGACTATTTGCATTAGTTACTAC-GTGTAGATACT
* * * *
707290 GATGACCAATGAATATTTGAATTAGTTAATACGTGTAGATACT
1 GATAACCAATGACTATTTGCATTAGTTACTACGTGTAGATACT
*
707333 GATGACCAATGACTATTTGC---AG----TACGTGTAGATA-T
1 GATAACCAATGACTATTTGCATTAGTTACTACGTGTAGATACT
* ** *
707368 AGATAGCCAATGACTATCTGTATTAATTAGTTACTACGTGAAGATACT
1 -GATAACCAATGACTA--T-T-TGCATTAGTTACTACGTGTAGATACT
* * *
707416 GATAACCAACGACTATGTGCATTAGTTAATACGTGTAGATACATGTACT
1 GATAACCAATGACTATTTGCATTAGTTACTACGTGTAG----A--TACT
** * * * * *
707465 GATAATTAATAAATATTTGCATTTGTTACTACACT-TAGACACT
1 GATAACCAATGACTATTTGCATTAGTTACTAC-GTGTAGATACT
* * * ** *
707508 GATGACCAGTGACTATTTGAATTAGTTACTAAATGTACATGTAGGCGTT
1 GATAACCAATGACTATTTGCATTAGTTACTACGTGTAGA--TA--C--T
* * * * *
707557 GATTACTAATGACTATTTACATTAGTTACTACATGTAGACACT
1 GATAACCAATGACTATTTGCATTAGTTACTACGTGTAGATACT
* * * * ** * * *
707600 GGTAACTAATAATTATTTGCATTAGTTACTACACGTAAACACC
1 GATAACCAATGACTATTTGCATTAGTTACTACGTGTAGATACT
* * *
707643 GATAACCAATAACTATTTGAATTAGTTACTACGTGTAGACACT
1 GATAACCAATGACTATTTGCATTAGTTACTACGTGTAGATACT
* * *
707686 GATAACAAATGACTTTTTGC---AG-TA-TA--TGTAGACACT
1 GATAACCAATGACTATTTGCATTAGTTACTACGTGTAGATACT
* *
707722 GATAACCAATGACTATTT--A-CAG-TAC-A--TGTAGACACT
1 GATAACCAATGACTATTTGCATTAGTTACTACGTGTAGATACT
*
707758 GATTACCAATGACTATTTGCATTAGTTACTACGTGTAGATACT
1 GATAACCAATGACTATTTGCATTAGTTACTACGTGTAGATACT
*
707801 GATAACCAATTACTATTTGCATTAGTTACTACGTGTAGATACT
1 GATAACCAATGACTATTTGCATTAGTTACTACGTGTAGATACT
707844 GATAACCAATGACTATT
1 GATAACCAATGACTATT
707861 CGCTGCCATC
Statistics
Matches: 598, Mismatches: 105, Indels: 80
0.76 0.13 0.10
Matches are distributed among these distances:
35 1 0.00
36 83 0.14
38 4 0.01
39 5 0.01
40 8 0.01
41 1 0.00
42 2 0.00
43 394 0.66
44 3 0.01
45 4 0.01
47 27 0.05
48 1 0.00
49 64 0.11
50 1 0.00
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Consensus pattern (43 bp):
GATAACCAATGACTATTTGCATTAGTTACTACGTGTAGATACT
Found at i:707802 original size:115 final size:119
Alignment explanation
Indices: 707647--707860 Score: 310
Period size: 115 Copynumber: 1.8 Consensus size: 119
707637 AACACCGATA
*
707647 ACCAATAACTATTTGAATTAGTTACTACGTGTAGACACTGATAACAAATGACTTTTTGC-AG-TA
1 ACCAATAACTATTTGAATTAGTTACTACGTGTAGACACTGATAACAAATGACTATTTGCTAGTTA
707710 -TA-TGTAGACACTGATAACCAATGACTATTTACAGTACATGTAGACACTGATT
66 CTACTGTAGACACTGATAACCAATGACTATTTACAGTACATGTAGACACTGATT
* * * * *
707762 ACCAATGACTATTTGCATTAGTTACTACGTGTAGATACTGATAACCAATTACTATTTGCATTAGT
1 ACCAATAACTATTTGAATTAGTTACTACGTGTAGACACTGATAACAAATGACTATTTGC--TAGT
*
707827 TACTACGTGTAGATACTGATAACCAATGACTATT
64 TACTAC-TGTAGACACTGATAACCAATGACTATT
707861 CGCTGCCATC
Statistics
Matches: 85, Mismatches: 7, Indels: 7
0.86 0.07 0.07
Matches are distributed among these distances:
115 53 0.62
118 2 0.02
119 2 0.02
120 2 0.02
122 26 0.31
ACGTcount: A:0.35, C:0.17, G:0.14, T:0.34
Consensus pattern (119 bp):
ACCAATAACTATTTGAATTAGTTACTACGTGTAGACACTGATAACAAATGACTATTTGCTAGTTA
CTACTGTAGACACTGATAACCAATGACTATTTACAGTACATGTAGACACTGATT
Found at i:712626 original size:17 final size:17
Alignment explanation
Indices: 712600--712634 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
712590 CAAGTATCAT
712600 GGAAAACCCCTAGGTAA
1 GGAAAACCCCTAGGTAA
*
712617 GGAAAGCCCCTAGGTAA
1 GGAAAACCCCTAGGTAA
712634 G
1 G
712635 AATTATCTAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.37, C:0.23, G:0.29, T:0.11
Consensus pattern (17 bp):
GGAAAACCCCTAGGTAA
Found at i:725134 original size:38 final size:38
Alignment explanation
Indices: 725020--725147 Score: 195
Period size: 39 Copynumber: 3.3 Consensus size: 38
725010 AGCATCATCA
* *
725020 GTTATTGAGACTATTGTCTACAGGAGTATGTCCTGTAAT
1 GTTATTGAGACTATTGTCTA-AAGAGTATGTCCTGTTAT
725059 GTTATTGAGACTATTGTCTAAAAGAGTATGTCCTGTTAT
1 GTTATTGAGACTATTGTCT-AAAGAGTATGTCCTGTTAT
*
725098 GTTATTGAGACTATTGTCTATTA-AGTATGTCCTGTTAT
1 GTTATTGAGACTATTGTCTA-AAGAGTATGTCCTGTTAT
725136 GTTATTGAGACT
1 GTTATTGAGACT
725148 CTATTGCCTA
Statistics
Matches: 84, Mismatches: 3, Indels: 5
0.91 0.03 0.05
Matches are distributed among these distances:
38 28 0.33
39 55 0.65
40 1 0.01
ACGTcount: A:0.26, C:0.11, G:0.21, T:0.42
Consensus pattern (38 bp):
GTTATTGAGACTATTGTCTAAAGAGTATGTCCTGTTAT
Found at i:731602 original size:58 final size:58
Alignment explanation
Indices: 731540--731657 Score: 191
Period size: 58 Copynumber: 2.0 Consensus size: 58
731530 TACATTATCT
* *
731540 ACTTTCTTTCTTTTAATTTGCGTATACCGTTCAAAATTAGGATTCGAAATATGAATAA
1 ACTTTCTTTCTTTTAATTTACGTATACCGTTCAAAATTAAGATTCGAAATATGAATAA
* **
731598 ACTTTCTTTCTTTTAATTTACGTATACTGTTGTAAATTAAGATTCGAAATATGAATAA
1 ACTTTCTTTCTTTTAATTTACGTATACCGTTCAAAATTAAGATTCGAAATATGAATAA
731656 AC
1 AC
731658 AAAATATTTG
Statistics
Matches: 55, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
58 55 1.00
ACGTcount: A:0.34, C:0.13, G:0.11, T:0.42
Consensus pattern (58 bp):
ACTTTCTTTCTTTTAATTTACGTATACCGTTCAAAATTAAGATTCGAAATATGAATAA
Found at i:732831 original size:11 final size:11
Alignment explanation
Indices: 732815--732847 Score: 57
Period size: 11 Copynumber: 3.0 Consensus size: 11
732805 TTTAAAAGTT
732815 CATGTAAACTA
1 CATGTAAACTA
*
732826 CATGTAAAATA
1 CATGTAAACTA
732837 CATGTAAACTA
1 CATGTAAACTA
732848 TGTAAAACAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
11 20 1.00
ACGTcount: A:0.48, C:0.15, G:0.09, T:0.27
Consensus pattern (11 bp):
CATGTAAACTA
Found at i:732841 original size:22 final size:20
Alignment explanation
Indices: 732815--732854 Score: 62
Period size: 22 Copynumber: 1.9 Consensus size: 20
732805 TTTAAAAGTT
732815 CATGTAAACTACATGTAAAATA
1 CATGTAAACT--ATGTAAAATA
732837 CATGTAAACTATGTAAAA
1 CATGTAAACTATGTAAAA
732855 CAATAAAAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 8 0.44
22 10 0.56
ACGTcount: A:0.50, C:0.12, G:0.10, T:0.28
Consensus pattern (20 bp):
CATGTAAACTATGTAAAATA
Found at i:733641 original size:16 final size:16
Alignment explanation
Indices: 733620--733651 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
733610 TTTTTCTTCT
733620 TCAGTTTTCATTAACG
1 TCAGTTTTCATTAACG
733636 TCAGTTTTCATTAACG
1 TCAGTTTTCATTAACG
733652 GCTACATGTA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.25, C:0.19, G:0.12, T:0.44
Consensus pattern (16 bp):
TCAGTTTTCATTAACG
Found at i:744576 original size:10 final size:10
Alignment explanation
Indices: 744561--744586 Score: 52
Period size: 10 Copynumber: 2.6 Consensus size: 10
744551 TTTAAAATTC
744561 ATTTAATGAA
1 ATTTAATGAA
744571 ATTTAATGAA
1 ATTTAATGAA
744581 ATTTAA
1 ATTTAA
744587 CAACATATAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 16 1.00
ACGTcount: A:0.50, C:0.00, G:0.08, T:0.42
Consensus pattern (10 bp):
ATTTAATGAA
Found at i:751458 original size:17 final size:17
Alignment explanation
Indices: 751436--751468 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
751426 ATACATATGC
751436 ATATAT-TTATCAATATA
1 ATATATATTAT-AATATA
751453 ATATATATTATAATAT
1 ATATATATTATAATAT
751469 TATTGTCAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
17 11 0.73
18 4 0.27
ACGTcount: A:0.48, C:0.03, G:0.00, T:0.48
Consensus pattern (17 bp):
ATATATATTATAATATA
Found at i:753780 original size:4 final size:4
Alignment explanation
Indices: 753771--753837 Score: 116
Period size: 4 Copynumber: 16.8 Consensus size: 4
753761 TGTTATTACG
* *
753771 TATT TATT TATT TTTT TATT TATT TATT TATT TATT TATT TATT TTTT
1 TATT TATT TATT TATT TATT TATT TATT TATT TATT TATT TATT TATT
753819 TATT TATT TATT TATT TAT
1 TATT TATT TATT TATT TAT
753838 CTATCAGCTA
Statistics
Matches: 59, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
4 59 1.00
ACGTcount: A:0.22, C:0.00, G:0.00, T:0.78
Consensus pattern (4 bp):
TATT
Found at i:754427 original size:2 final size:2
Alignment explanation
Indices: 754420--754469 Score: 100
Period size: 2 Copynumber: 25.0 Consensus size: 2
754410 AATGGACAAA
754420 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
754462 TC TC TC TC
1 TC TC TC TC
754470 CCGTGCCTAA
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 48 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
TC
Found at i:761005 original size:4 final size:4
Alignment explanation
Indices: 760998--761167 Score: 227
Period size: 4 Copynumber: 42.8 Consensus size: 4
760988 CCCCCCCCCC
760998 TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA
1 TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA
761046 TAGA TAGCA -AGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA
1 TAGA TAG-A TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA
* * * * * * * * *
761094 TAGA TAGA TAGA TAGC TAGC TAGC TAGC TAGC TAGC TAGC TAGC TAGC
1 TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA
*
761142 TAGA TAGA TAGA TAGA TTGA T-GA TAG
1 TAGA TAGA TAGA TAGA TAGA TAGA TAG
761168 GTGAAGAATG
Statistics
Matches: 160, Mismatches: 3, Indels: 6
0.95 0.02 0.04
Matches are distributed among these distances:
3 4 0.03
4 155 0.97
5 1 0.01
ACGTcount: A:0.44, C:0.06, G:0.25, T:0.25
Consensus pattern (4 bp):
TAGA
Found at i:762224 original size:2 final size:2
Alignment explanation
Indices: 762217--762268 Score: 104
Period size: 2 Copynumber: 26.0 Consensus size: 2
762207 CCCTCAACGA
762217 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
762259 TC TC TC TC TC
1 TC TC TC TC TC
762269 AAAAACATGG
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 50 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
TC
Found at i:773991 original size:10 final size:11
Alignment explanation
Indices: 773971--773995 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
773961 AATCGGCTCG
773971 TTTCTTTTTTT
1 TTTCTTTTTTT
773982 TTTCTTTTTTT
1 TTTCTTTTTTT
773993 TTT
1 TTT
773996 GGAAGAAAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.00, C:0.08, G:0.00, T:0.92
Consensus pattern (11 bp):
TTTCTTTTTTT
Found at i:774857 original size:2 final size:2
Alignment explanation
Indices: 774850--774902 Score: 52
Period size: 2 Copynumber: 26.5 Consensus size: 2
774840 AAATTTGTTT
** ** **
774850 TA TA TA TA TA TA TA TA TA TA TA NN NN NN TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
774892 TA TA TA TA TA T
1 TA TA TA TA TA T
774903 CGATTTGAAC
Statistics
Matches: 47, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
2 47 1.00
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.45
Consensus pattern (2 bp):
TA
Found at i:778779 original size:2 final size:2
Alignment explanation
Indices: 778772--778821 Score: 100
Period size: 2 Copynumber: 25.0 Consensus size: 2
778762 TTAAAAGCAT
778772 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
778814 GA GA GA GA
1 GA GA GA GA
778822 TTTTCAGTCT
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 48 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
GA
Found at i:787811 original size:5 final size:5
Alignment explanation
Indices: 787792--787917 Score: 134
Period size: 5 Copynumber: 25.4 Consensus size: 5
787782 CTGTAAAGTG
* *
787792 CGAAA CGAAA TCGAAA CGAAA CGAAA TCG-AA CGAAA CGAAA CGAAA CCAAT
1 CGAAA CGAAA -CGAAA CGAAA CGAAA -CGAAA CGAAA CGAAA CGAAA CGAAA
* * *
787843 CGAAA CAAAA CGAAA CCAAT CGAAA CGAAA CGAAA TC-AAA CGAAA CGAAA
1 CGAAA CGAAA CGAAA CGAAA CGAAA CGAAA CGAAA -CGAAA CGAAA CGAAA
* *
787893 CCAAA C--AT CGAAA CGAAA CGAAA CG
1 CGAAA CGAAA CGAAA CGAAA CGAAA CG
787918 GAATTTAAAC
Statistics
Matches: 101, Mismatches: 13, Indels: 14
0.79 0.10 0.11
Matches are distributed among these distances:
3 2 0.02
4 3 0.03
5 88 0.87
6 8 0.08
ACGTcount: A:0.56, C:0.23, G:0.16, T:0.05
Consensus pattern (5 bp):
CGAAA
Found at i:796953 original size:88 final size:88
Alignment explanation
Indices: 796843--797272 Score: 745
Period size: 88 Copynumber: 4.9 Consensus size: 88
796833 CAGACTGCTT
* * *
796843 GGCAATCGGGCGCCAAATATGAATTCTAAATTTTGAATTGCGAACTCCGTTCTAGATAGAACGCT
1 GGCAATCGGGCCCCAAATATGAATTCTAAATTTTGAATTGCGAACTGCGTTCTAGATAGAACGCA
*
796908 GTTCACTATTCAATCACATATAA
66 GTTCACTATTCAATCGCATATAA
*
796931 GGCAATCGGGCCCCAAATATGAATTCTAGATTTTGAATTGCGAACTGCGTTCTAGATAGAACGCA
1 GGCAATCGGGCCCCAAATATGAATTCTAAATTTTGAATTGCGAACTGCGTTCTAGATAGAACGCA
* *
796996 GTTCACTATTCAATTGCATATAG
66 GTTCACTATTCAATCGCATATAA
* *
797019 GGCAATCGGGCCCCAAATATGCATTCTAAATTTTGAACTGCGAACTGCGTTCTAGATAGAACGCA
1 GGCAATCGGGCCCCAAATATGAATTCTAAATTTTGAATTGCGAACTGCGTTCTAGATAGAACGCA
* * *
797084 GTTC-TTATTCAATTGCATATAG
66 GTTCACTATTCAATCGCATATAA
797106 GGCAATCGGGCCCCAAATATGAATTCTAAATTTTGAATTGCGAACTGCGTTCTAGATAGAACGCA
1 GGCAATCGGGCCCCAAATATGAATTCTAAATTTTGAATTGCGAACTGCGTTCTAGATAGAACGCA
797171 GTTCACTATTCAATCGCATATAA
66 GTTCACTATTCAATCGCATATAA
797194 GGCAATCGGGCCCCAAATATGAATTCTAAATTTTGAATTGCGAACTGCGTTCTAGATAGAACGCA
1 GGCAATCGGGCCCCAAATATGAATTCTAAATTTTGAATTGCGAACTGCGTTCTAGATAGAACGCA
797259 GTTCACTATTCAAT
66 GTTCACTATTCAAT
797273 NNNNNNNNNN
Statistics
Matches: 325, Mismatches: 16, Indels: 2
0.95 0.05 0.01
Matches are distributed among these distances:
87 84 0.26
88 241 0.74
ACGTcount: A:0.32, C:0.20, G:0.19, T:0.29
Consensus pattern (88 bp):
GGCAATCGGGCCCCAAATATGAATTCTAAATTTTGAATTGCGAACTGCGTTCTAGATAGAACGCA
GTTCACTATTCAATCGCATATAA
Found at i:797158 original size:175 final size:176
Alignment explanation
Indices: 796843--797272 Score: 745
Period size: 175 Copynumber: 2.4 Consensus size: 176
796833 CAGACTGCTT
* * *
796843 GGCAATCGGGCGCCAAATATGAATTCTAAATTTTGAATTGCGAACTCCGTTCTAGATAGAACGCT
1 GGCAATCGGGCCCCAAATATGAATTCTAAATTTTGAATTGCGAACTGCGTTCTAGATAGAACGCA
*
796908 GTTCACTATTCAATCACATATAAGGCAATCGGGCCCCAAATATGAATTCTAGATTTTGAATTGCG
66 GTTCACTATTCAATCACATATAAGGCAATCGGGCCCCAAATATGAATTCTAAATTTTGAATTGCG
* *
796973 AACTGCGTTCTAGATAGAACGCAGTTCACTATTCAATTGCATATAG
131 AACTGCGTTCTAGATAGAACGCAGTTCACTATTCAATCGCATATAA
* *
797019 GGCAATCGGGCCCCAAATATGCATTCTAAATTTTGAACTGCGAACTGCGTTCTAGATAGAACGCA
1 GGCAATCGGGCCCCAAATATGAATTCTAAATTTTGAATTGCGAACTGCGTTCTAGATAGAACGCA
* ** *
797084 GTTC-TTATTCAATTGCATATAGGGCAATCGGGCCCCAAATATGAATTCTAAATTTTGAATTGCG
66 GTTCACTATTCAATCACATATAAGGCAATCGGGCCCCAAATATGAATTCTAAATTTTGAATTGCG
797148 AACTGCGTTCTAGATAGAACGCAGTTCACTATTCAATCGCATATAA
131 AACTGCGTTCTAGATAGAACGCAGTTCACTATTCAATCGCATATAA
797194 GGCAATCGGGCCCCAAATATGAATTCTAAATTTTGAATTGCGAACTGCGTTCTAGATAGAACGCA
1 GGCAATCGGGCCCCAAATATGAATTCTAAATTTTGAATTGCGAACTGCGTTCTAGATAGAACGCA
797259 GTTCACTATTCAAT
66 GTTCACTATTCAAT
797273 NNNNNNNNNN
Statistics
Matches: 238, Mismatches: 15, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
175 166 0.70
176 72 0.30
ACGTcount: A:0.32, C:0.20, G:0.19, T:0.29
Consensus pattern (176 bp):
GGCAATCGGGCCCCAAATATGAATTCTAAATTTTGAATTGCGAACTGCGTTCTAGATAGAACGCA
GTTCACTATTCAATCACATATAAGGCAATCGGGCCCCAAATATGAATTCTAAATTTTGAATTGCG
AACTGCGTTCTAGATAGAACGCAGTTCACTATTCAATCGCATATAA
Found at i:799595 original size:26 final size:26
Alignment explanation
Indices: 799559--799611 Score: 106
Period size: 26 Copynumber: 2.0 Consensus size: 26
799549 TATAGATAGA
799559 ACGCAGTTCACTATTCAATTGCATAT
1 ACGCAGTTCACTATTCAATTGCATAT
799585 ACGCAGTTCACTATTCAATTGCATAT
1 ACGCAGTTCACTATTCAATTGCATAT
799611 A
1 A
799612 AGGCAATCGG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.32, C:0.23, G:0.11, T:0.34
Consensus pattern (26 bp):
ACGCAGTTCACTATTCAATTGCATAT
Found at i:799706 original size:63 final size:63
Alignment explanation
Indices: 799607--799733 Score: 245
Period size: 63 Copynumber: 2.0 Consensus size: 63
799597 ATTCAATTGC
799607 ATATAAGGCAATCGGGCCCCAAATAGGAATTCTAAATTTTGAATTGCGAACTGCGTTATAGAT
1 ATATAAGGCAATCGGGCCCCAAATAGGAATTCTAAATTTTGAATTGCGAACTGCGTTATAGAT
*
799670 ATATAAGGCAATCGGGCCCCAAATAGGAATTCTAAATTTTGAATTGCGAACTGCGTTCTAGAT
1 ATATAAGGCAATCGGGCCCCAAATAGGAATTCTAAATTTTGAATTGCGAACTGCGTTATAGAT
799733 A
1 A
799734 GAACGCAGTT
Statistics
Matches: 63, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
63 63 1.00
ACGTcount: A:0.35, C:0.17, G:0.20, T:0.28
Consensus pattern (63 bp):
ATATAAGGCAATCGGGCCCCAAATAGGAATTCTAAATTTTGAATTGCGAACTGCGTTATAGAT
Found at i:799787 original size:89 final size:88
Alignment explanation
Indices: 799670--799846 Score: 345
Period size: 89 Copynumber: 2.0 Consensus size: 88
799660 CGTTATAGAT
799670 ATATAAGGCAATCGGGCCCCAAATAGGAATTCTAAATTTTGAATTGCGAACTGCGTTCTAGATAG
1 ATATAAGGCAATCGGGCCCCAAATAGGAATTCTAAATTTTGAATTGCGAACTGCGTTCTAGATAG
799735 AACGCAGTTCACTATTCAATTGC
66 AACGCAGTTCACTATTCAATTGC
799758 ATATAAGGCAATCGGGGCCCCAAATAGGAATTCTAAATTTTGAATTGCGAACTGCGTTCTAGATA
1 ATATAAGGCAATC-GGGCCCCAAATAGGAATTCTAAATTTTGAATTGCGAACTGCGTTCTAGATA
799823 GAACGCAGTTCACTATTCAATTGC
65 GAACGCAGTTCACTATTCAATTGC
799847 GAACTGCGTT
Statistics
Matches: 88, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
88 13 0.15
89 75 0.85
ACGTcount: A:0.33, C:0.19, G:0.20, T:0.28
Consensus pattern (88 bp):
ATATAAGGCAATCGGGCCCCAAATAGGAATTCTAAATTTTGAATTGCGAACTGCGTTCTAGATAG
AACGCAGTTCACTATTCAATTGC
Found at i:800614 original size:12 final size:12
Alignment explanation
Indices: 800597--800621 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
800587 AATCCCGATC
800597 ACCGTTCATCTT
1 ACCGTTCATCTT
800609 ACCGTTCATCTT
1 ACCGTTCATCTT
800621 A
1 A
800622 TAGGAGAAGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.20, C:0.32, G:0.08, T:0.40
Consensus pattern (12 bp):
ACCGTTCATCTT
Found at i:801205 original size:22 final size:22
Alignment explanation
Indices: 801175--801223 Score: 80
Period size: 22 Copynumber: 2.2 Consensus size: 22
801165 AGGTCGAGGT
* *
801175 GCGAGAGTGCGAAGTTGCGACG
1 GCGAAAGTGCGAAGGTGCGACG
801197 GCGAAAGTGCGAAGGTGCGACG
1 GCGAAAGTGCGAAGGTGCGACG
801219 GCGAA
1 GCGAA
801224 GAAGCGAAAG
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.27, C:0.18, G:0.45, T:0.10
Consensus pattern (22 bp):
GCGAAAGTGCGAAGGTGCGACG
Found at i:801215 original size:30 final size:29
Alignment explanation
Indices: 801197--801270 Score: 87
Period size: 30 Copynumber: 2.5 Consensus size: 29
801187 AGTTGCGACG
*
801197 GCGAAAGTGCGAAGGTGCGACGGCGAAGAA
1 GCGAAAGTGCGAAGGTGCGAAGGCGAAG-A
* * *
801227 GCGAAAGTGCGAAGATGCGACGGCGAAGC
1 GCGAAAGTGCGAAGGTGCGAAGGCGAAGA
801256 GCG-AAGATGCGAAGG
1 GCGAAAG-TGCGAAGG
801271 CGAAAGTGCG
Statistics
Matches: 40, Mismatches: 3, Indels: 3
0.87 0.07 0.07
Matches are distributed among these distances:
28 3 0.08
29 10 0.25
30 27 0.68
ACGTcount: A:0.32, C:0.18, G:0.43, T:0.07
Consensus pattern (29 bp):
GCGAAAGTGCGAAGGTGCGAAGGCGAAGA
Found at i:801230 original size:22 final size:22
Alignment explanation
Indices: 801183--801238 Score: 69
Period size: 22 Copynumber: 2.5 Consensus size: 22
801173 GTGCGAGAGT
* *
801183 GCGAAGTTGCGACGGCGAAAGT
1 GCGAAGGTGCGACGGCGAAAGA
801205 GCGAAGGTGCGACGGCG-AAGAA
1 GCGAAGGTGCGACGGCGAAAG-A
*
801227 GCGAAAGTGCGA
1 GCGAAGGTGCGA
801239 AGATGCGACG
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
21 3 0.10
22 27 0.90
ACGTcount: A:0.30, C:0.18, G:0.43, T:0.09
Consensus pattern (22 bp):
GCGAAGGTGCGACGGCGAAAGA
Found at i:801238 original size:8 final size:7
Alignment explanation
Indices: 801173--801297 Score: 80
Period size: 8 Copynumber: 17.1 Consensus size: 7
801163 TTAGGTCGAG
801173 GTGCGAGA
1 GTGCGA-A
801181 GTGCGAA
1 GTGCGAA
*
801188 GTTGCGAC
1 G-TGCGAA
801196 G-GCGAAA
1 GTGCG-AA
801203 GTGCGAA
1 GTGCGAA
*
801210 GGTGCGAC
1 -GTGCGAA
801218 G-GCGAA
1 GTGCGAA
*
801224 GAAGCGAAA
1 G-TGCG-AA
801233 GTGCGAA
1 GTGCGAA
*
801240 GATGCGAC
1 G-TGCGAA
801248 G-GCGAA
1 GTGCGAA
*
801254 GCGCGAA
1 GTGCGAA
801261 GATGCGAA
1 G-TGCGAA
801269 G-GCGAAA
1 GTGCG-AA
801276 GTGCGAA
1 GTGCGAA
801283 GTTGCGAA
1 G-TGCGAA
801291 G-GCGAA
1 GTGCGAA
801297 G
1 G
801298 AAGCGATACT
Statistics
Matches: 96, Mismatches: 8, Indels: 28
0.73 0.06 0.21
Matches are distributed among these distances:
6 22 0.23
7 22 0.23
8 49 0.51
9 3 0.03
ACGTcount: A:0.30, C:0.17, G:0.43, T:0.10
Consensus pattern (7 bp):
GTGCGAA
Found at i:801252 original size:22 final size:22
Alignment explanation
Indices: 801227--801296 Score: 106
Period size: 22 Copynumber: 3.2 Consensus size: 22
801217 CGGCGAAGAA
*
801227 GCGAAAGTGCGAAGATGCGACG
1 GCGAAAGTGCGAAGATGCGAAG
*
801249 GCG-AAGCGCGAAGATGCGAAG
1 GCGAAAGTGCGAAGATGCGAAG
*
801270 GCGAAAGTGCGAAGTTGCGAAG
1 GCGAAAGTGCGAAGATGCGAAG
801292 GCGAA
1 GCGAA
801297 GAAGCGATAC
Statistics
Matches: 43, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
21 19 0.44
22 24 0.56
ACGTcount: A:0.33, C:0.17, G:0.41, T:0.09
Consensus pattern (22 bp):
GCGAAAGTGCGAAGATGCGAAG
Found at i:801260 original size:21 final size:21
Alignment explanation
Indices: 801235--801297 Score: 90
Period size: 21 Copynumber: 3.0 Consensus size: 21
801225 AAGCGAAAGT
*
801235 GCGAAGATGCGACGGCGAAGC
1 GCGAAGATGCGAAGGCGAAGC
*
801256 GCGAAGATGCGAAGGCGAAAGT
1 GCGAAGATGCGAAGGCG-AAGC
*
801278 GCGAAGTTGCGAAGGCGAAG
1 GCGAAGATGCGAAGGCGAAG
801298 AAGCGATACT
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
21 19 0.50
22 19 0.50
ACGTcount: A:0.32, C:0.17, G:0.43, T:0.08
Consensus pattern (21 bp):
GCGAAGATGCGAAGGCGAAGC
Found at i:801303 original size:22 final size:22
Alignment explanation
Indices: 801235--801303 Score: 79
Period size: 22 Copynumber: 3.2 Consensus size: 22
801225 AAGCGAAAGT
* *
801235 GCGAAGATGCGACGGCGAAG-C
1 GCGAAGATGCGAAGGCGAAGAA
*
801256 GCGAAGATGCGAAGGCGAA-AGT
1 GCGAAGATGCGAAGGCGAAGA-A
*
801278 GCGAAGTTGCGAAGGCGAAGAA
1 GCGAAGATGCGAAGGCGAAGAA
801300 GCGA
1 GCGA
801304 TACTACTATC
Statistics
Matches: 41, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
21 18 0.44
22 22 0.54
23 1 0.02
ACGTcount: A:0.33, C:0.17, G:0.42, T:0.07
Consensus pattern (22 bp):
GCGAAGATGCGAAGGCGAAGAA
Found at i:801367 original size:22 final size:21
Alignment explanation
Indices: 801312--801373 Score: 70
Period size: 22 Copynumber: 2.8 Consensus size: 21
801302 GATACTACTA
*
801312 TCGCACCTTCGCCATCGCAACT
1 TCGCA-CTTCGCCTTCGCAACT
*
801334 TCGCACTCTCGCCTTCGCATCT
1 TCGCACT-TCGCCTTCGCAACT
*
801356 TCGCACATTCGCTTTCGC
1 TCGCAC-TTCGCCTTCGC
801374 CTTTTTATAA
Statistics
Matches: 35, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
21 2 0.06
22 32 0.91
23 1 0.03
ACGTcount: A:0.13, C:0.44, G:0.15, T:0.29
Consensus pattern (21 bp):
TCGCACTTCGCCTTCGCAACT
Found at i:823331 original size:15 final size:15
Alignment explanation
Indices: 823311--823342 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
823301 TTGATTTATA
823311 ATACAAAGAAATAAT
1 ATACAAAGAAATAAT
823326 ATACAAAGAAATAAT
1 ATACAAAGAAATAAT
823341 AT
1 AT
823343 TTGATTCTGG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.66, C:0.06, G:0.06, T:0.22
Consensus pattern (15 bp):
ATACAAAGAAATAAT
Found at i:827982 original size:6 final size:7
Alignment explanation
Indices: 827957--827981 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
827947 TTTTATATCT
827957 AAAAATA
1 AAAAATA
827964 AAAAATA
1 AAAAATA
827971 AAAAATA
1 AAAAATA
827978 AAAA
1 AAAA
827982 TTTGATCTAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.88, C:0.00, G:0.00, T:0.12
Consensus pattern (7 bp):
AAAAATA
Found at i:832995 original size:6 final size:7
Alignment explanation
Indices: 832970--832994 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
832960 TTTTATATCT
832970 AAAAATA
1 AAAAATA
832977 AAAAATA
1 AAAAATA
832984 AAAAATA
1 AAAAATA
832991 AAAA
1 AAAA
832995 TTTGATCTAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.88, C:0.00, G:0.00, T:0.12
Consensus pattern (7 bp):
AAAAATA
Found at i:836240 original size:18 final size:17
Alignment explanation
Indices: 836217--836270 Score: 54
Period size: 18 Copynumber: 3.1 Consensus size: 17
836207 CTAAATTAGG
836217 GGCCAGGCCAACTTTTGA
1 GGCCAGGCCAA-TTTTGA
* * * *
836235 GGCCAGACCAAAATATGG
1 GGCCAGGCC-AATTTTGA
836253 GGCCAGGCCAATTTTGA
1 GGCCAGGCCAATTTTGA
836270 G
1 G
836271 AACAAATGTG
Statistics
Matches: 27, Mismatches: 8, Indels: 3
0.71 0.21 0.08
Matches are distributed among these distances:
17 6 0.22
18 19 0.70
19 2 0.07
ACGTcount: A:0.28, C:0.24, G:0.30, T:0.19
Consensus pattern (17 bp):
GGCCAGGCCAATTTTGA
Found at i:836255 original size:36 final size:35
Alignment explanation
Indices: 836215--836308 Score: 103
Period size: 29 Copynumber: 2.8 Consensus size: 35
836205 GCCTAAATTA
836215 GGGGCCAGGCCAACTTTTGAGGCCAGACCAAAATAT
1 GGGGCCAGGCCAACTTTTGAGG-CAGACCAAAATAT
*
836251 GGGGCCAGGCCAA-TTTTGA-G-A-A-C-AAATGT
1 GGGGCCAGGCCAACTTTTGAGGCAGACCAAAATAT
*
836280 GAGGCCAGGCCAAC-TTTGAGGTCAGACCA
1 GGGGCCAGGCCAACTTTTGAGG-CAGACCA
836309 GGCCAATGGG
Statistics
Matches: 49, Mismatches: 2, Indels: 15
0.74 0.03 0.23
Matches are distributed among these distances:
29 22 0.45
30 2 0.04
31 1 0.02
32 2 0.04
33 1 0.02
34 2 0.04
35 6 0.12
36 13 0.27
ACGTcount: A:0.30, C:0.23, G:0.30, T:0.17
Consensus pattern (35 bp):
GGGGCCAGGCCAACTTTTGAGGCAGACCAAAATAT
Found at i:836332 original size:5 final size:5
Alignment explanation
Indices: 836318--836349 Score: 55
Period size: 5 Copynumber: 6.4 Consensus size: 5
836308 AGGCCAATGG
*
836318 GGCCA TGCCA GGCCA GGCCA GGCCA GGCCA GG
1 GGCCA GGCCA GGCCA GGCCA GGCCA GGCCA GG
836350 TTTTAGAGTA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
5 25 1.00
ACGTcount: A:0.19, C:0.38, G:0.41, T:0.03
Consensus pattern (5 bp):
GGCCA
Found at i:843510 original size:17 final size:17
Alignment explanation
Indices: 843488--843522 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
843478 GCACTGTTGC
843488 AACCACTATTGAAATAA
1 AACCACTATTGAAATAA
843505 AACCACTATTGAAATAA
1 AACCACTATTGAAATAA
843522 A
1 A
843523 TTATTTCAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.54, C:0.17, G:0.06, T:0.23
Consensus pattern (17 bp):
AACCACTATTGAAATAA
Found at i:843594 original size:17 final size:17
Alignment explanation
Indices: 843572--843606 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
843562 ATCGCTTTGC
843572 AACCACTATTGAAATAA
1 AACCACTATTGAAATAA
843589 AACCACTATTGAAATAA
1 AACCACTATTGAAATAA
843606 A
1 A
843607 TTATTTCAAN
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.54, C:0.17, G:0.06, T:0.23
Consensus pattern (17 bp):
AACCACTATTGAAATAA
Found at i:845517 original size:8 final size:8
Alignment explanation
Indices: 845517--845559 Score: 70
Period size: 8 Copynumber: 5.5 Consensus size: 8
845507 CAGACGGACA
845517 GACAGACG
1 GACAGACG
845525 GACAGACG
1 GACAGACG
*
845533 GACGGACG
1 GACAGACG
845541 GACAGACG
1 GACAGACG
845549 GAC-GACG
1 GACAGACG
845556 GACA
1 GACA
845560 AAAAGTGATC
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
7 7 0.22
8 25 0.78
ACGTcount: A:0.35, C:0.26, G:0.40, T:0.00
Consensus pattern (8 bp):
GACAGACG
Found at i:845542 original size:16 final size:15
Alignment explanation
Indices: 845509--845559 Score: 72
Period size: 16 Copynumber: 3.5 Consensus size: 15
845499 AAAGTTTACA
845509 GACGGACAGAC--A-
1 GACGGACAGACGGAC
845521 GACGGACAGACGGAC
1 GACGGACAGACGGAC
845536 GGACGGACAGACGGAC
1 -GACGGACAGACGGAC
845552 GACGGACA
1 GACGGACA
845560 AAAAGTGATC
Statistics
Matches: 35, Mismatches: 0, Indels: 5
0.88 0.00 0.12
Matches are distributed among these distances:
12 11 0.31
14 1 0.03
15 8 0.23
16 15 0.43
ACGTcount: A:0.35, C:0.25, G:0.39, T:0.00
Consensus pattern (15 bp):
GACGGACAGACGGAC
Found at i:845552 original size:4 final size:4
Alignment explanation
Indices: 845509--845558 Score: 57
Period size: 4 Copynumber: 12.8 Consensus size: 4
845499 AAAGTTTACA
* * * *
845509 GACG GACA GACA GACG GACA GACG GACG GACG GACA GACG GAC- GACG
1 GACG GACG GACG GACG GACG GACG GACG GACG GACG GACG GACG GACG
845556 GAC
1 GAC
845559 AAAAAGTGAT
Statistics
Matches: 39, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
3 3 0.08
4 36 0.92
ACGTcount: A:0.34, C:0.26, G:0.40, T:0.00
Consensus pattern (4 bp):
GACG
Found at i:845552 original size:12 final size:12
Alignment explanation
Indices: 845506--845551 Score: 74
Period size: 12 Copynumber: 3.8 Consensus size: 12
845496 TAAAAAGTTT
845506 ACAGACGGACAG
1 ACAGACGGACAG
845518 ACAGACGGACAG
1 ACAGACGGACAG
* *
845530 ACGGACGGACGG
1 ACAGACGGACAG
845542 ACAGACGGAC
1 ACAGACGGAC
845552 GACGGACAAA
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 31 1.00
ACGTcount: A:0.37, C:0.26, G:0.37, T:0.00
Consensus pattern (12 bp):
ACAGACGGACAG
Found at i:856049 original size:31 final size:31
Alignment explanation
Indices: 856014--856124 Score: 98
Period size: 31 Copynumber: 3.5 Consensus size: 31
856004 ATTATTCCTG
*
856014 GTACGACTTAACAAAATCCGAATGATTTAAA
1 GTACGACTTAACAAAATCCGAATGATTTTAA
* * ***
856045 GTACGATTTAACAAAAACCTTTTTGATTTTAA
1 GTACGACTTAACAAAATCC-GAATGATTTTAA
*
856077 GAACGACTTAACAAAAAAATCCGAATG-TGTTTAA
1 GTACGACTTAAC---AAAATCCGAATGAT-TTTAA
*
856111 GTACGAATTAACAA
1 GTACGACTTAACAA
856125 TTATTTTTGG
Statistics
Matches: 61, Mismatches: 14, Indels: 10
0.72 0.16 0.12
Matches are distributed among these distances:
31 19 0.31
32 18 0.30
33 1 0.02
34 17 0.28
35 6 0.10
ACGTcount: A:0.44, C:0.14, G:0.13, T:0.29
Consensus pattern (31 bp):
GTACGACTTAACAAAATCCGAATGATTTTAA
Found at i:857496 original size:21 final size:21
Alignment explanation
Indices: 857457--857497 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
857447 AAAAATAAAG
*
857457 AAAAAGAAAAAAAATAATAAT
1 AAAAAGAAAAAAAAGAATAAT
* *
857478 AAAAAGAAACAATAGAATAA
1 AAAAAGAAAAAAAAGAATAA
857498 CAAGAGGGTC
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.78, C:0.02, G:0.07, T:0.12
Consensus pattern (21 bp):
AAAAAGAAAAAAAAGAATAAT
Found at i:857604 original size:62 final size:62
Alignment explanation
Indices: 857532--857774 Score: 477
Period size: 62 Copynumber: 3.9 Consensus size: 62
857522 GGAAGACCCT
857532 AAAAAAAGAAACCGTAGAAAAACAAAAGGGTCTTCCGTTGGAAACGGAAGACCCTAATAAGA
1 AAAAAAAGAAACCGTAGAAAAACAAAAGGGTCTTCCGTTGGAAACGGAAGACCCTAATAAGA
*
857594 AAAAAAAGAAACCGTAGAAAAACAAAAGGGTCTTCCGTTGAAAACGGAAGACCCTAATAAGA
1 AAAAAAAGAAACCGTAGAAAAACAAAAGGGTCTTCCGTTGGAAACGGAAGACCCTAATAAGA
857656 AAAAAAAGAAACCGTAGAAAAACAAAAGGGTCTTCCGTTGGAAACGGAAGACCCTAATAAGA
1 AAAAAAAGAAACCGTAGAAAAACAAAAGGGTCTTCCGTTGGAAACGGAAGACCCTAATAAGA
857718 AAAAAAAGAAACCGTAGAAAAACAAAAGGGTCTTCCGTTGGAAACGGAAGACCCTAA
1 AAAAAAAGAAACCGTAGAAAAACAAAAGGGTCTTCCGTTGGAAACGGAAGACCCTAA
857775 ATATTGGCGA
Statistics
Matches: 179, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
62 179 1.00
ACGTcount: A:0.50, C:0.16, G:0.21, T:0.13
Consensus pattern (62 bp):
AAAAAAAGAAACCGTAGAAAAACAAAAGGGTCTTCCGTTGGAAACGGAAGACCCTAATAAGA
Found at i:864903 original size:18 final size:17
Alignment explanation
Indices: 864876--864919 Score: 61
Period size: 18 Copynumber: 2.5 Consensus size: 17
864866 GGACGATGAT
864876 GATGCGATGGTGATATC
1 GATGCGATGGTGATATC
*
864893 GATGACGATGGTGATGTC
1 GATG-CGATGGTGATATC
864911 GATGGCGAT
1 GAT-GCGAT
864920 TTGATGGTGC
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
17 4 0.17
18 19 0.79
19 1 0.04
ACGTcount: A:0.23, C:0.11, G:0.39, T:0.27
Consensus pattern (17 bp):
GATGCGATGGTGATATC
Found at i:865098 original size:3 final size:3
Alignment explanation
Indices: 865092--865136 Score: 63
Period size: 3 Copynumber: 15.0 Consensus size: 3
865082 TGGTGTTGTA
* * *
865092 GAT GAT GAT GAT GAT GAT TAT GAT GAC GAT GGT GAT GAT GAT GAT
1 GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT
865137 TGTGGTGACG
Statistics
Matches: 36, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
3 36 1.00
ACGTcount: A:0.31, C:0.02, G:0.33, T:0.33
Consensus pattern (3 bp):
GAT
Found at i:866148 original size:20 final size:20
Alignment explanation
Indices: 866123--866190 Score: 93
Period size: 20 Copynumber: 3.4 Consensus size: 20
866113 ATTTGATCAC
*
866123 ATAATACAATATCATAATAT
1 ATAATACAATATCATATTAT
866143 ATAATACAATAT-AGTATTAT
1 ATAATACAATATCA-TATTAT
* *
866163 ATGATACAATATCATATTAC
1 ATAATACAATATCATATTAT
866183 ATAATACA
1 ATAATACA
866191 TCATAATATT
Statistics
Matches: 42, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
19 1 0.02
20 40 0.95
21 1 0.02
ACGTcount: A:0.51, C:0.10, G:0.03, T:0.35
Consensus pattern (20 bp):
ATAATACAATATCATATTAT
Found at i:866334 original size:15 final size:15
Alignment explanation
Indices: 866316--866363 Score: 51
Period size: 15 Copynumber: 3.1 Consensus size: 15
866306 ATATCATGTG
*
866316 ATATAGTAAAATATT
1 ATATAATAAAATATT
*
866331 ATATAATACAATATT
1 ATATAATAAAATATT
* *
866346 ATATTATACAAATTTT
1 ATATAATA-AAATATT
866362 AT
1 AT
866364 TATATGATAC
Statistics
Matches: 27, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
15 20 0.74
16 7 0.26
ACGTcount: A:0.50, C:0.04, G:0.02, T:0.44
Consensus pattern (15 bp):
ATATAATAAAATATT
Found at i:866366 original size:14 final size:15
Alignment explanation
Indices: 866325--866367 Score: 61
Period size: 15 Copynumber: 2.9 Consensus size: 15
866315 GATATAGTAA
*
866325 AATATTATATAATAC
1 AATATTATATTATAC
866340 AATATTATATTATAC
1 AATATTATATTATAC
*
866355 AA-ATTTTATTATA
1 AATATTATATTATA
866368 TGATACAAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
14 10 0.38
15 16 0.62
ACGTcount: A:0.49, C:0.05, G:0.00, T:0.47
Consensus pattern (15 bp):
AATATTATATTATAC
Found at i:866527 original size:48 final size:49
Alignment explanation
Indices: 866397--866547 Score: 162
Period size: 50 Copynumber: 3.1 Consensus size: 49
866387 ATTGAAATCG
*
866397 TATAATACAATTTCATGTGATATAATACTAGATTAAAGAAACCAATATCA
1 TATAATACAATTTCATGTGATATAATACTATA-TAAAGAAACCAATATCA
* * * * ** ** *
866447 TATAATACAATATCGTATGATATTATGTTATATAATA-TTA-CAATTTCA
1 TATAATACAATTTCATGTGATATAATACTATATAA-AGAAACCAATATCA
*
866495 TATAATACAATTTCATGTGATATAATACTATATTATAGAAACCAATATCA
1 TATAATACAATTTCATGTGATATAATACTATA-TAAAGAAACCAATATCA
866545 TAT
1 TAT
866548 TTTATAATAC
Statistics
Matches: 77, Mismatches: 20, Indels: 8
0.73 0.19 0.08
Matches are distributed among these distances:
48 34 0.44
49 7 0.09
50 36 0.47
ACGTcount: A:0.45, C:0.11, G:0.07, T:0.38
Consensus pattern (49 bp):
TATAATACAATTTCATGTGATATAATACTATATAAAGAAACCAATATCA
Found at i:866659 original size:20 final size:20
Alignment explanation
Indices: 866634--866672 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
866624 AATGTTACAA
*
866634 TATCATATTATACAATATTG
1 TATCATAATATACAATATTG
866654 TATCATAATATACAATATT
1 TATCATAATATACAATATT
866673 ATACATAACA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.44, C:0.10, G:0.03, T:0.44
Consensus pattern (20 bp):
TATCATAATATACAATATTG
Found at i:866805 original size:20 final size:20
Alignment explanation
Indices: 866768--866816 Score: 53
Period size: 20 Copynumber: 2.5 Consensus size: 20
866758 TATATTATAT
* *
866768 TGTATCATATTAAACAAAAG
1 TGTATCATATCAAACAAAAC
**
866788 TGTATCATATCATCCAAAAC
1 TGTATCATATCAAACAAAAC
*
866808 TATATCATA
1 TGTATCATA
866817 GGAATAATGT
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.45, C:0.16, G:0.06, T:0.33
Consensus pattern (20 bp):
TGTATCATATCAAACAAAAC
Found at i:867546 original size:19 final size:19
Alignment explanation
Indices: 867522--867563 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
867512 ATCAAAGGGC
*
867522 ACCTGCAACAAAAACTTTA
1 ACCTGCAACAAAAACCTTA
**
867541 ACCTGCTCCAAAAACCTTA
1 ACCTGCAACAAAAACCTTA
867560 ACCT
1 ACCT
867564 CCTCCAGCAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.40, C:0.33, G:0.05, T:0.21
Consensus pattern (19 bp):
ACCTGCAACAAAAACCTTA
Found at i:867568 original size:19 final size:19
Alignment explanation
Indices: 867530--867569 Score: 62
Period size: 19 Copynumber: 2.1 Consensus size: 19
867520 GCACCTGCAA
* *
867530 CAAAAACTTTAACCTGCTC
1 CAAAAACCTTAACCTCCTC
867549 CAAAAACCTTAACCTCCTC
1 CAAAAACCTTAACCTCCTC
867568 CA
1 CA
867570 GCATCTGAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.38, C:0.38, G:0.03, T:0.23
Consensus pattern (19 bp):
CAAAAACCTTAACCTCCTC
Found at i:867570 original size:177 final size:174
Alignment explanation
Indices: 867189--867604 Score: 516
Period size: 175 Copynumber: 2.4 Consensus size: 174
867179 TAAATATGTG
* * **
867189 ACCTGTTCCAAAAAACTCAACCTTATCCAGCATCCGAAACCTATGGCTCAGATTCAGCATTCAAG
1 ACCTGCTCC-AAAAACTTAACCTCCTCCAGCATCCGAAACCTATGGCTCAGATTCAGCATTCAAG
* ** * **
867254 CCTGTCAGGTGCATCAGTATCAAAAGATGACCATCCATGCAAGTTTGATGAAGTTGGACCAGTTG
65 CATGTCAGGTGCATCAGTATCAAAAGAACACCATCCACGCAAGTTTGATGAAGTTGGACCAGAAG
* ***
867319 TAACTAAGACATCATCATCAGAGGGCACCTGTTTCAAAAACTTTA
130 TAACTAAGACATCATCATCAAAGGGCACCTGCAACAAAAACTTTA
* *
867364 ACCAGCTCTTAAAAACTTAACCTCCTCCAGCATCCGAAACCTATGGCTCAGATTCAGCATTCAAG
1 ACCTGCTC-CAAAAACTTAACCTCCTCCAGCATCCGAAACCTATGGCTCAGATTCAGCATTCAAG
* * *
867429 CATGTCTGGTGCATCAGTATCATAAGACACACCATCCACGCAAGTTTGGTGAAGTTAGGACCAGA
65 CATGTCAGGTGCATCAGTATCAAAAGA-ACACCATCCACGCAAGTTTGATGAAGTT-GGACCAGA
*
867494 AGTAACTAAGATAT--TGCTATCAAAGGGCACCTGCAACAAAAACTTTA
128 AGTAACTAAGACATCAT-C-ATCAAAGGGCACCTGCAACAAAAACTTTA
* ** *
867541 ACCTGCTCCAAAAACCTTAACCTCCTCCAGCATCTGAAATTTA-GG-TCCAGATTCAGCATCCAA
1 ACCTGCTCCAAAAA-CTTAACCTCCTCCAGCATCCGAAACCTATGGCT-CAGATTCAGCATTCAA
867604 G
64 G
867605 TCGATAAGTA
Statistics
Matches: 208, Mismatches: 26, Indels: 13
0.84 0.11 0.05
Matches are distributed among these distances:
175 84 0.40
176 48 0.23
177 76 0.37
ACGTcount: A:0.33, C:0.26, G:0.16, T:0.24
Consensus pattern (174 bp):
ACCTGCTCCAAAAACTTAACCTCCTCCAGCATCCGAAACCTATGGCTCAGATTCAGCATTCAAGC
ATGTCAGGTGCATCAGTATCAAAAGAACACCATCCACGCAAGTTTGATGAAGTTGGACCAGAAGT
AACTAAGACATCATCATCAAAGGGCACCTGCAACAAAAACTTTA
Found at i:874316 original size:31 final size:31
Alignment explanation
Indices: 874280--874340 Score: 104
Period size: 31 Copynumber: 2.0 Consensus size: 31
874270 TTCTTTATGC
*
874280 TGTCAACAAAGGGAGACAATTCAGTGAGGAG
1 TGTCAACAAAGGGAGACAATACAGTGAGGAG
*
874311 TGTCAACAAAGGGAGACAATACATTGAGGA
1 TGTCAACAAAGGGAGACAATACAGTGAGGA
874341 AACTATGAAT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 28 1.00
ACGTcount: A:0.41, C:0.13, G:0.30, T:0.16
Consensus pattern (31 bp):
TGTCAACAAAGGGAGACAATACAGTGAGGAG
Found at i:876236 original size:61 final size:60
Alignment explanation
Indices: 876158--876349 Score: 251
Period size: 61 Copynumber: 3.2 Consensus size: 60
876148 TTTACAGTTG
*
876158 AGTATTGATGATGATATAGACTGCTGTGTACCCCTGATGACTGGGTATGATGATATAATTA
1 AGTATTGATGATGATATAGACTG-TGTGTACCCCTGATGACTGGGTATGATGATACAATTA
* * * * * *
876219 AGTATCGATGACGATATAGACTGTTGTGTATCCCTGATGACTGTGTTTGATGATACAGTTA
1 AGTATTGATGATGATATAGACTG-TGTGTACCCCTGATGACTGGGTATGATGATACAATTA
* * * *
876280 ACTATTAATGATGACATAGACT-TGTGTATCCCCTAATGACTGGGTATGATGATACAATTA
1 AGTATTGATGATGATATAGACTGTGTGTA-CCCCTGATGACTGGGTATGATGATACAATTA
876340 AGTATTGATG
1 AGTATTGATG
876350 TATCCCCCTT
Statistics
Matches: 110, Mismatches: 20, Indels: 3
0.83 0.15 0.02
Matches are distributed among these distances:
59 6 0.05
60 34 0.31
61 70 0.64
ACGTcount: A:0.30, C:0.12, G:0.23, T:0.35
Consensus pattern (60 bp):
AGTATTGATGATGATATAGACTGTGTGTACCCCTGATGACTGGGTATGATGATACAATTA
Found at i:879077 original size:141 final size:141
Alignment explanation
Indices: 878823--882223 Score: 4945
Period size: 141 Copynumber: 24.1 Consensus size: 141
878813 CAAAATGAGC
* *
878823 ATGTATATCATTGAATACTTATGTATCATCTATTCATGTACACAGTTATGTACATCATTGAGTAC
1 ATGTACATCATTGAATACTTACGTATCATCTATTCATGTACACAGTTATGTACATCATTGAGTAC
* * * ** ** *
878888 TTACGTATCATCAATTCATGTACACAGCTATGTATATCATTGAAAACTTGTGTATCGTCTATTCA
66 TTACGTATCATCTATTCATGTACACAGTTATGTACATCATTGAGTACTTACGTATCATCTATTCA
* * *
878953 CGTACATAGCT
131 TGTACACAGTT
* * *
878964 ATGTACATCATTGAGTACTTACGTATCATCTATTCATGTACACAGTTATATACATCATTGACTAC
1 ATGTACATCATTGAATACTTACGTATCATCTATTCATGTACACAGTTATGTACATCATTGAGTAC
** ** *
879029 TTACGTATCATCTATTCATGTACACAGTTATGTACATCATTGAAAACTTGTGTATCGTCTATTCA
66 TTACGTATCATCTATTCATGTACACAGTTATGTACATCATTGAGTACTTACGTATCATCTATTCA
**
879094 TGTACACAACT
131 TGTACACAGTT
* * *
879105 ATGTACATCATTGAGTACTTACGTATCATCTATTCATGTACACAGTTATATACATCATTGACTAC
1 ATGTACATCATTGAATACTTACGTATCATCTATTCATGTACACAGTTATGTACATCATTGAGTAC
*
879170 TTACGTATCATCTATTCATGTACACAGTTATGTACATCATTGACTACTTACGTATCATCTATTCA
66 TTACGTATCATCTATTCATGTACACAGTTATGTACATCATTGAGTACTTACGTATCATCTATTCA
879235 TGTACACAGTT
131 TGTACACAGTT
* ** * **
879246 ATGTACATCATTGAAAACTTGTGTATCGTCTATTCATGTACACAACTATGTACATCATTGAGTAC
1 ATGTACATCATTGAATACTTACGTATCATCTATTCATGTACACAGTTATGTACATCATTGAGTAC
879311 TTACGTATCATCTATTCATGTACACAGTTATGTACATCATTGAGTACTTACGTATCATCTATTCA
66 TTACGTATCATCTATTCATGTACACAGTTATGTACATCATTGAGTACTTACGTATCATCTATTCA
*
879376 TGTACACAGCT
131 TGTACACAGTT
* * * * **
879387 ATGTACATCATTGAAAACTTGTC-TATCATCTATTCATGTACATAGCTATGTACATCATTGAAAA
1 ATGTACATCATTGAATACTT-ACGTATCATCTATTCATGTACACAGTTATGTACATCATTGAGTA
** * *
879451 CTTGTGTATCGTCTATTCATGTACACAGCTATGTACATCATTGAGTACTTACGTATCATCTATTC
65 CTTACGTATCATCTATTCATGTACACAGTTATGTACATCATTGAGTACTTACGTATCATCTATTC
879516 ATGTACACAGTT
130 ATGTACACAGTT
* * **
879528 ATATACATCATTGACTACTTACGTATCATCTATTCATGTACACAGTTATGTACATCATTGAAAAC
1 ATGTACATCATTGAATACTTACGTATCATCTATTCATGTACACAGTTATGTACATCATTGAGTAC
** * ** *
879593 TTGTGTATCGTCTATTCATGTACACAACTATGTACATCATTGAGTACTTACGTATCATCTATTTA
66 TTACGTATCATCTATTCATGTACACAGTTATGTACATCATTGAGTACTTACGTATCATCTATTCA
879658 TGTACACAGTT
131 TGTACACAGTT
* * * *
879669 ATATACATCATTGACTACTTACGTATCATCTATTCATGTACACAGTTATATACATCATTGACTAC
1 ATGTACATCATTGAATACTTACGTATCATCTATTCATGTACACAGTTATGTACATCATTGAGTAC
** ** *
879734 TTACGTATCATCTATTCATGTACACAGTTATGTACATCATTGAAAACTTGTGTATCTTCTATTCA
66 TTACGTATCATCTATTCATGTACACAGTTATGTACATCATTGAGTACTTACGTATCATCTATTCA
**
879799 TGTACACAACT
131 TGTACACAGTT
* * *
879810 ATGTACATCATTGAGTACTTACGTATCATCTATTCATGTACACAGTTATATACATCATTGACTAC
1 ATGTACATCATTGAATACTTACGTATCATCTATTCATGTACACAGTTATGTACATCATTGAGTAC
*
879875 TTACGTATCATCTATTCATGTACACAGTTATGTACATCATTGACTACTTACGTATCATCTATTCA
66 TTACGTATCATCTATTCATGTACACAGTTATGTACATCATTGAGTACTTACGTATCATCTATTCA
879940 TGTACACAGTT
131 TGTACACAGTT
* ** * **
879951 ATGTACATCATTGAAAACTTGTGTATCGTCTATTCATGTACACAACTATGTACATCATTGAGTAC
1 ATGTACATCATTGAATACTTACGTATCATCTATTCATGTACACAGTTATGTACATCATTGAGTAC
*
880016 TTACGTATCATCTATTCATGTACACAGTTATGTACATCATTGACTACTTACGTATCATCTATTCA
66 TTACGTATCATCTATTCATGTACACAGTTATGTACATCATTGAGTACTTACGTATCATCTATTCA
880081 TGTACACAGTT
131 TGTACACAGTT
* ** * **
880092 ATGTACATCATTGAAAACTTGTGTATCGTCTATTCATGTACACAACTATGTACATCATTGAGTAC
1 ATGTACATCATTGAATACTTACGTATCATCTATTCATGTACACAGTTATGTACATCATTGAGTAC
*
880157 TTACGTATCATCTATTCATGTACACAGTTATGTACATCATTGACTACTTACGTATCATCTATTCA
66 TTACGTATCATCTATTCATGTACACAGTTATGTACATCATTGAGTACTTACGTATCATCTATTCA
880222 TGTACACAGTT
131 TGTACACAGTT
* ** * **
880233 ATGTACATCATTGAAAACTTGTGTATCGTCTATTCATGTACACAACTATGTACATCATTGAGTAC
1 ATGTACATCATTGAATACTTACGTATCATCTATTCATGTACACAGTTATGTACATCATTGAGTAC
880298 TTACGTATCATCTATTCATGTACACAGTTATGTACATCATTGAGTACTTACGTATCATCTATTCA
66 TTACGTATCATCTATTCATGTACACAGTTATGTACATCATTGAGTACTTACGTATCATCTATTCA
*
880363 TGTACACAGCT
131 TGTACACAGTT
* * * * **
880374 ATGTACATCATTGAAAACTTGTC-TATCATCTATTCATGTACATAGCTATGTACATCATTGAAAA
1 ATGTACATCATTGAATACTT-ACGTATCATCTATTCATGTACACAGTTATGTACATCATTGAGTA
** * *
880438 CTTGTGTATCGTCTATTCATGTACACAGCTATGTACATCATTGAGTACTTACGTATCATCTATTC
65 CTTACGTATCATCTATTCATGTACACAGTTATGTACATCATTGAGTACTTACGTATCATCTATTC
880503 ATGTACACAGTT
130 ATGTACACAGTT
* * **
880515 ATATACATCATTGACTACTTACGTATCATCTATTCATGTACACAGTTATGTACATCATTGAAAAC
1 ATGTACATCATTGAATACTTACGTATCATCTATTCATGTACACAGTTATGTACATCATTGAGTAC
** * **
880580 TTGTGTATCGTCTATTCATGTACACAACTATGTACATCATTGAGTACTTACGTATCATCTATTCA
66 TTACGTATCATCTATTCATGTACACAGTTATGTACATCATTGAGTACTTACGTATCATCTATTCA
880645 TGTACACAGTT
131 TGTACACAGTT
* * *
880656 ATATACATCATTGACTACTTACGTATCATCTATTCATGTACACAGTTATGTACATCATTGACTAC
1 ATGTACATCATTGAATACTTACGTATCATCTATTCATGTACACAGTTATGTACATCATTGAGTAC
** ** *
880721 TTACGTATCATCTATTCATGTACACAGTTATGTACATCATTGAAAACTTGTGTATCGTCTATTCA
66 TTACGTATCATCTATTCATGTACACAGTTATGTACATCATTGAGTACTTACGTATCATCTATTCA
**
880786 TGTACACAACT
131 TGTACACAGTT
*
880797 ATGTACATCATTGAGTACTTACGTATCATCTATTCATGTACACAGTTATGTACATCATTGAGTAC
1 ATGTACATCATTGAATACTTACGTATCATCTATTCATGTACACAGTTATGTACATCATTGAGTAC
** **
880862 TTACGTATCATCTATTCATGTACACAGTTATGTACATCATTGAAAACTTGTGTATCATCTATTCA
66 TTACGTATCATCTATTCATGTACACAGTTATGTACATCATTGAGTACTTACGTATCATCTATTCA
**
880927 TGTACACAACT
131 TGTACACAGTT
* * *
880938 ATGTACATCATTGAGTACTTACGTATCATCTATTCATGTACACAGTTATATACATCATTGACTAC
1 ATGTACATCATTGAATACTTACGTATCATCTATTCATGTACACAGTTATGTACATCATTGAGTAC
*
881003 TTACGTATCATCTATTCATGTACACAGTTATGTACATCATTGACTACTTACGTATCATCTATTCA
66 TTACGTATCATCTATTCATGTACACAGTTATGTACATCATTGAGTACTTACGTATCATCTATTCA
881068 TGTACACAGTT
131 TGTACACAGTT
* ** * **
881079 ATGTACATCATTGAAAACTTGTGTATCGTCTATTCATGTACACAACTATGTACATCATTGAGTAC
1 ATGTACATCATTGAATACTTACGTATCATCTATTCATGTACACAGTTATGTACATCATTGAGTAC
*
881144 TTACGTATCATCTATTCATGTACACAGTTATGTACATCATTGACTACTTACGTATCATCTATTCA
66 TTACGTATCATCTATTCATGTACACAGTTATGTACATCATTGAGTACTTACGTATCATCTATTCA
881209 TGTACACAGTT
131 TGTACACAGTT
* ** * **
881220 ATGTACATCATTGAAAACTTGTGTATCGTCTATTCATGTACACAACTATGTACATCATTGAGTAC
1 ATGTACATCATTGAATACTTACGTATCATCTATTCATGTACACAGTTATGTACATCATTGAGTAC
881285 TTACGTATCATCTATTCATGTACACAGTTATGTACATCATTGAGTACTTACGTATCATCTATTCA
66 TTACGTATCATCTATTCATGTACACAGTTATGTACATCATTGAGTACTTACGTATCATCTATTCA
*
881350 TGTACACAGCT
131 TGTACACAGTT
* * * * **
881361 ATGTACATCATTGAAAACTTGTC-TATCATCTATTCATGTACATAGCTATGTACATCATTGAAAA
1 ATGTACATCATTGAATACTT-ACGTATCATCTATTCATGTACACAGTTATGTACATCATTGAGTA
** * *
881425 CTTGTGTATCGTCTATTCATGTACACAGCTATGTACATCATTGAGTACTTACGTATCATCTATTC
65 CTTACGTATCATCTATTCATGTACACAGTTATGTACATCATTGAGTACTTACGTATCATCTATTC
881490 ATGTACACAGTT
130 ATGTACACAGTT
* * **
881502 ATATACATCATTGACTACTTACGTATCATCTATTCATGTACACAGTTATGTACATCATTGAAAAC
1 ATGTACATCATTGAATACTTACGTATCATCTATTCATGTACACAGTTATGTACATCATTGAGTAC
** * **
881567 TTGTGTATCGTCTATTCATGTACACAACTATGTACATCATTGAGTACTTACGTATCATCTATTCA
66 TTACGTATCATCTATTCATGTACACAGTTATGTACATCATTGAGTACTTACGTATCATCTATTCA
881632 TGTACACAGTT
131 TGTACACAGTT
* * **
881643 ATATACATCATTGACTACTTACGTATCATCTATTCATGTACACAGTTATGTACATCATTGAAAAC
1 ATGTACATCATTGAATACTTACGTATCATCTATTCATGTACACAGTTATGTACATCATTGAGTAC
** * **
881708 TTGTGTATCGTCTATTCATGTACACAACTATGTACATCATTGAGTACTTACGTATCATCTATTCA
66 TTACGTATCATCTATTCATGTACACAGTTATGTACATCATTGAGTACTTACGTATCATCTATTCA
881773 TGTACACAGTT
131 TGTACACAGTT
* * *
881784 ATATACATCATTGACTACTTACGTATCATCTATTCATGTACACAGTTATGTACATCATTGACTAC
1 ATGTACATCATTGAATACTTACGTATCATCTATTCATGTACACAGTTATGTACATCATTGAGTAC
** ** *
881849 TTACGTATCATCTATTCATGTACACAGTTATGTACATCATTGAAAACTTGTGTATCGTCTATTCA
66 TTACGTATCATCTATTCATGTACACAGTTATGTACATCATTGAGTACTTACGTATCATCTATTCA
**
881914 TGTACACAACT
131 TGTACACAGTT
*
881925 ATGTACATCATTGAGTACTTACGTATCATCTATTCATGTACACAGTTATGTACATCATTGAGTAC
1 ATGTACATCATTGAATACTTACGTATCATCTATTCATGTACACAGTTATGTACATCATTGAGTAC
* ** ** *
881990 TTACGTATCATCTATTCATGTACACAGCTATGTACATCATTGAAAACTTGTGTATCGTCTATTCA
66 TTACGTATCATCTATTCATGTACACAGTTATGTACATCATTGAGTACTTACGTATCATCTATTCA
882055 TGTACACAGTT
131 TGTACACAGTT
* ** * *
882066 ATGTACATCATTGAAAACTTGTGTATCGTCTATTCATGTACACAGCTATGTACATCATTGAGTAC
1 ATGTACATCATTGAATACTTACGTATCATCTATTCATGTACACAGTTATGTACATCATTGAGTAC
* ** * *
882131 TTACGTATCATCTACTCATGTACACAGTTACATACATCATTGAGTGCTTAGGTATCATCTATTCA
66 TTACGTATCATCTATTCATGTACACAGTTATGTACATCATTGAGTACTTACGTATCATCTATTCA
882196 TGTACACAGTT
131 TGTACACAGTT
* *
882207 ATGTATATCATTAAATA
1 ATGTACATCATTGAATA
882224 TCATCTGTAC
Statistics
Matches: 3055, Mismatches: 199, Indels: 12
0.94 0.06 0.00
Matches are distributed among these distances:
140 3 0.00
141 3052 1.00
ACGTcount: A:0.31, C:0.20, G:0.12, T:0.38
Consensus pattern (141 bp):
ATGTACATCATTGAATACTTACGTATCATCTATTCATGTACACAGTTATGTACATCATTGAGTAC
TTACGTATCATCTATTCATGTACACAGTTATGTACATCATTGAGTACTTACGTATCATCTATTCA
TGTACACAGTT
Found at i:879134 original size:21 final size:21
Alignment explanation
Indices: 879110--879228 Score: 55
Period size: 21 Copynumber: 5.2 Consensus size: 21
879100 CAACTATGTA
879110 CATCATTGAGTACTTACGTAT
1 CATCATTGAGTACTTACGTAT
*
879131 CATCTATTCATGTAC--ACAGTTATAT
1 CATC-ATTGA-GTACTTAC-G---TAT
*
879156 ACATCATTGACTACTTACGTAT
1 -CATCATTGAGTACTTACGTAT
* *
879178 CATCTATTCATGTACACAGTTATGTA-
1 CATC-ATTGA-GT--AC--TTACGTAT
*
879204 CATCATTGACTACTTACGTAT
1 CATCATTGAGTACTTACGTAT
879225 CATC
1 CATC
879229 TATTCATGTA
Statistics
Matches: 73, Mismatches: 9, Indels: 32
0.64 0.08 0.28
Matches are distributed among these distances:
20 6 0.08
21 14 0.19
22 14 0.19
23 5 0.07
24 4 0.05
25 14 0.19
26 10 0.14
27 6 0.08
ACGTcount: A:0.30, C:0.22, G:0.10, T:0.38
Consensus pattern (21 bp):
CATCATTGAGTACTTACGTAT
Found at i:879161 original size:188 final size:188
Alignment explanation
Indices: 878823--882223 Score: 4990
Period size: 188 Copynumber: 18.1 Consensus size: 188
878813 CAAAATGAGC
* * **
878823 ATGTATATCATTGAATACTTATGTATCATCTATTCATGTACACAGTTATGTACATCATTGAGTAC
1 ATGTACATCATTGAATACTTACGTATCATCTATTCATGTACACAGTTATGTACATCATTGAAAAC
* * ** ** *
878888 TTACGTATCATCAATTCATGTACACAGCTATGTATATCATTGAAAACTTGTGTATCGTCTATTCA
66 TTACGTATCATCTATTCATGTACACAGCTATGTACATCATTGAGTACTTACGTATCATCTATTCA
* * *
878953 CGTACATAGCTATGTACATCATTGAGTACTTACGTATCATCTATTCATGTACACAGTT
131 TGTACACAGTTATGTACATCATTGAGTACTTACGTATCATCTATTCATGTACACAGTT
* *
879011 ATATACATCATTGACTACTTACGTATCATCTATTCATGTACACAGTTATGTACATCATTGAAAAC
1 ATGTACATCATTGAATACTTACGTATCATCTATTCATGTACACAGTTATGTACATCATTGAAAAC
** * *
879076 TTGTGTATCGTCTATTCATGTACACAACTATGTACATCATTGAGTACTTACGTATCATCTATTCA
66 TTACGTATCATCTATTCATGTACACAGCTATGTACATCATTGAGTACTTACGTATCATCTATTCA
* *
879141 TGTACACAGTTATATACATCATTGACTACTTACGTATCATCTATTCATGTACACAGTT
131 TGTACACAGTTATGTACATCATTGAGTACTTACGTATCATCTATTCATGTACACAGTT
*
879199 ATGTACATCATTGACTACTTACGTATCATCTATTCATGTACACAGTTATGTACATCATTGAAAAC
1 ATGTACATCATTGAATACTTACGTATCATCTATTCATGTACACAGTTATGTACATCATTGAAAAC
** * *
879264 TTGTGTATCGTCTATTCATGTACACAACTATGTACATCATTGAGTACTTACGTATCATCTATTCA
66 TTACGTATCATCTATTCATGTACACAGCTATGTACATCATTGAGTACTTACGTATCATCTATTCA
*
879329 TGTACACAGTTATGTACATCATTGAGTACTTACGTATCATCTATTCATGTACACAGCT
131 TGTACACAGTTATGTACATCATTGAGTACTTACGTATCATCTATTCATGTACACAGTT
* * * *
879387 ATGTACATCATTGAAAACTTGTC-TATCATCTATTCATGTACATAGCTATGTACATCATTGAAAA
1 ATGTACATCATTGAATACTT-ACGTATCATCTATTCATGTACACAGTTATGTACATCATTGAAAA
** *
879451 CTTGTGTATCGTCTATTCATGTACACAGCTATGTACATCATTGAGTACTTACGTATCATCTATTC
65 CTTACGTATCATCTATTCATGTACACAGCTATGTACATCATTGAGTACTTACGTATCATCTATTC
* *
879516 ATGTACACAGTTATATACATCATTGACTACTTACGTATCATCTATTCATGTACACAGTT
130 ATGTACACAGTTATGTACATCATTGAGTACTTACGTATCATCTATTCATGTACACAGTT
* ** * ** **
879575 ATGTACATCATTGAAAACTTGTGTATCGTCTATTCATGTACACAACTATGTACATCATTGAGTAC
1 ATGTACATCATTGAATACTTACGTATCATCTATTCATGTACACAGTTATGTACATCATTGAAAAC
* * * *
879640 TTACGTATCATCTATTTATGTACACAGTTATATACATCATTGACTACTTACGTATCATCTATTCA
66 TTACGTATCATCTATTCATGTACACAGCTATGTACATCATTGAGTACTTACGTATCATCTATTCA
* *
879705 TGTACACAGTTATATACATCATTGACTACTTACGTATCATCTATTCATGTACACAGTT
131 TGTACACAGTTATGTACATCATTGAGTACTTACGTATCATCTATTCATGTACACAGTT
* ** * ** **
879763 ATGTACATCATTGAAAACTTGTGTATCTTCTATTCATGTACACAACTATGTACATCATTGAGTAC
1 ATGTACATCATTGAATACTTACGTATCATCTATTCATGTACACAGTTATGTACATCATTGAAAAC
* * *
879828 TTACGTATCATCTATTCATGTACACAGTTATATACATCATTGACTACTTACGTATCATCTATTCA
66 TTACGTATCATCTATTCATGTACACAGCTATGTACATCATTGAGTACTTACGTATCATCTATTCA
*
879893 TGTACACAGTTATGTACATCATTGACTACTTACGTATCATCTATTCATGTACACAGTT
131 TGTACACAGTTATGTACATCATTGAGTACTTACGTATCATCTATTCATGTACACAGTT
* ** * ** **
879951 ATGTACATCATTGAAAACTTGTGTATCGTCTATTCATGTACACAACTATGTACATCATTGAGTAC
1 ATGTACATCATTGAATACTTACGTATCATCTATTCATGTACACAGTTATGTACATCATTGAAAAC
* *
880016 TTACGTATCATCTATTCATGTACACAGTTATGTACATCATTGACTACTTACGTATCATCTATTCA
66 TTACGTATCATCTATTCATGTACACAGCTATGTACATCATTGAGTACTTACGTATCATCTATTCA
** ** * **
880081 TGTACACAGTTATGTACATCATTGAAAACTTGTGTATCGTCTATTCATGTACACAACT
131 TGTACACAGTTATGTACATCATTGAGTACTTACGTATCATCTATTCATGTACACAGTT
* **
880139 ATGTACATCATTGAGTACTTACGTATCATCTATTCATGTACACAGTTATGTACATCATTGACTAC
1 ATGTACATCATTGAATACTTACGTATCATCTATTCATGTACACAGTTATGTACATCATTGAAAAC
* ** ** *
880204 TTACGTATCATCTATTCATGTACACAGTTATGTACATCATTGAAAACTTGTGTATCGTCTATTCA
66 TTACGTATCATCTATTCATGTACACAGCTATGTACATCATTGAGTACTTACGTATCATCTATTCA
**
880269 TGTACACAACTATGTACATCATTGAGTACTTACGTATCATCTATTCATGTACACAGTT
131 TGTACACAGTTATGTACATCATTGAGTACTTACGTATCATCTATTCATGTACACAGTT
* *
880327 ATGTACATCATTGAGTACTTACGTATCATCTATTCATGTACACAGCTATGTACATCATTGAAAAC
1 ATGTACATCATTGAATACTTACGTATCATCTATTCATGTACACAGTTATGTACATCATTGAAAAC
* * ** ** *
880392 TTGTC-TATCATCTATTCATGTACATAGCTATGTACATCATTGAAAACTTGTGTATCGTCTATTC
66 TT-ACGTATCATCTATTCATGTACACAGCTATGTACATCATTGAGTACTTACGTATCATCTATTC
*
880456 ATGTACACAGCTATGTACATCATTGAGTACTTACGTATCATCTATTCATGTACACAGTT
130 ATGTACACAGTTATGTACATCATTGAGTACTTACGTATCATCTATTCATGTACACAGTT
* *
880515 ATATACATCATTGACTACTTACGTATCATCTATTCATGTACACAGTTATGTACATCATTGAAAAC
1 ATGTACATCATTGAATACTTACGTATCATCTATTCATGTACACAGTTATGTACATCATTGAAAAC
** * *
880580 TTGTGTATCGTCTATTCATGTACACAACTATGTACATCATTGAGTACTTACGTATCATCTATTCA
66 TTACGTATCATCTATTCATGTACACAGCTATGTACATCATTGAGTACTTACGTATCATCTATTCA
* *
880645 TGTACACAGTTATATACATCATTGACTACTTACGTATCATCTATTCATGTACACAGTT
131 TGTACACAGTTATGTACATCATTGAGTACTTACGTATCATCTATTCATGTACACAGTT
*
880703 ATGTACATCATTGACTACTTACGTATCATCTATTCATGTACACAGTTATGTACATCATTGAAAAC
1 ATGTACATCATTGAATACTTACGTATCATCTATTCATGTACACAGTTATGTACATCATTGAAAAC
** * *
880768 TTGTGTATCGTCTATTCATGTACACAACTATGTACATCATTGAGTACTTACGTATCATCTATTCA
66 TTACGTATCATCTATTCATGTACACAGCTATGTACATCATTGAGTACTTACGTATCATCTATTCA
880833 TGTACACAGTTATGTACATCATTGAGTACTTACGTATCATCTATTCATGTACACAGTT
131 TGTACACAGTTATGTACATCATTGAGTACTTACGTATCATCTATTCATGTACACAGTT
* ** ** **
880891 ATGTACATCATTGAAAACTTGTGTATCATCTATTCATGTACACAACTATGTACATCATTGAGTAC
1 ATGTACATCATTGAATACTTACGTATCATCTATTCATGTACACAGTTATGTACATCATTGAAAAC
* * *
880956 TTACGTATCATCTATTCATGTACACAGTTATATACATCATTGACTACTTACGTATCATCTATTCA
66 TTACGTATCATCTATTCATGTACACAGCTATGTACATCATTGAGTACTTACGTATCATCTATTCA
*
881021 TGTACACAGTTATGTACATCATTGACTACTTACGTATCATCTATTCATGTACACAGTT
131 TGTACACAGTTATGTACATCATTGAGTACTTACGTATCATCTATTCATGTACACAGTT
* ** * ** **
881079 ATGTACATCATTGAAAACTTGTGTATCGTCTATTCATGTACACAACTATGTACATCATTGAGTAC
1 ATGTACATCATTGAATACTTACGTATCATCTATTCATGTACACAGTTATGTACATCATTGAAAAC
* *
881144 TTACGTATCATCTATTCATGTACACAGTTATGTACATCATTGACTACTTACGTATCATCTATTCA
66 TTACGTATCATCTATTCATGTACACAGCTATGTACATCATTGAGTACTTACGTATCATCTATTCA
** ** * **
881209 TGTACACAGTTATGTACATCATTGAAAACTTGTGTATCGTCTATTCATGTACACAACT
131 TGTACACAGTTATGTACATCATTGAGTACTTACGTATCATCTATTCATGTACACAGTT
* **
881267 ATGTACATCATTGAGTACTTACGTATCATCTATTCATGTACACAGTTATGTACATCATTGAGTAC
1 ATGTACATCATTGAATACTTACGTATCATCTATTCATGTACACAGTTATGTACATCATTGAAAAC
** *
881332 TTACGTATCATCTATTCATGTACACAGCTATGTACATCATTGAAAACTTGTC-TATCATCTATTC
66 TTACGTATCATCTATTCATGTACACAGCTATGTACATCATTGAGTACTT-ACGTATCATCTATTC
* * ** ** * *
881396 ATGTACATAGCTATGTACATCATTGAAAACTTGTGTATCGTCTATTCATGTACACAGCT
130 ATGTACACAGTTATGTACATCATTGAGTACTTACGTATCATCTATTCATGTACACAGTT
* * **
881455 ATGTACATCATTGAGTACTTACGTATCATCTATTCATGTACACAGTTATATACATCATTGACTAC
1 ATGTACATCATTGAATACTTACGTATCATCTATTCATGTACACAGTTATGTACATCATTGAAAAC
* ** ** *
881520 TTACGTATCATCTATTCATGTACACAGTTATGTACATCATTGAAAACTTGTGTATCGTCTATTCA
66 TTACGTATCATCTATTCATGTACACAGCTATGTACATCATTGAGTACTTACGTATCATCTATTCA
**
881585 TGTACACAACTATGTACATCATTGAGTACTTACGTATCATCTATTCATGTACACAGTT
131 TGTACACAGTTATGTACATCATTGAGTACTTACGTATCATCTATTCATGTACACAGTT
* *
881643 ATATACATCATTGACTACTTACGTATCATCTATTCATGTACACAGTTATGTACATCATTGAAAAC
1 ATGTACATCATTGAATACTTACGTATCATCTATTCATGTACACAGTTATGTACATCATTGAAAAC
** * *
881708 TTGTGTATCGTCTATTCATGTACACAACTATGTACATCATTGAGTACTTACGTATCATCTATTCA
66 TTACGTATCATCTATTCATGTACACAGCTATGTACATCATTGAGTACTTACGTATCATCTATTCA
* *
881773 TGTACACAGTTATATACATCATTGACTACTTACGTATCATCTATTCATGTACACAGTT
131 TGTACACAGTTATGTACATCATTGAGTACTTACGTATCATCTATTCATGTACACAGTT
*
881831 ATGTACATCATTGACTACTTACGTATCATCTATTCATGTACACAGTTATGTACATCATTGAAAAC
1 ATGTACATCATTGAATACTTACGTATCATCTATTCATGTACACAGTTATGTACATCATTGAAAAC
** * *
881896 TTGTGTATCGTCTATTCATGTACACAACTATGTACATCATTGAGTACTTACGTATCATCTATTCA
66 TTACGTATCATCTATTCATGTACACAGCTATGTACATCATTGAGTACTTACGTATCATCTATTCA
*
881961 TGTACACAGTTATGTACATCATTGAGTACTTACGTATCATCTATTCATGTACACAGCT
131 TGTACACAGTTATGTACATCATTGAGTACTTACGTATCATCTATTCATGTACACAGTT
* ** *
882019 ATGTACATCATTGAAAACTTGTGTATCGTCTATTCATGTACACAGTTATGTACATCATTGAAAAC
1 ATGTACATCATTGAATACTTACGTATCATCTATTCATGTACACAGTTATGTACATCATTGAAAAC
** * *
882084 TTGTGTATCGTCTATTCATGTACACAGCTATGTACATCATTGAGTACTTACGTATCATCTACTCA
66 TTACGTATCATCTATTCATGTACACAGCTATGTACATCATTGAGTACTTACGTATCATCTATTCA
** * *
882149 TGTACACAGTTACATACATCATTGAGTGCTTAGGTATCATCTATTCATGTACACAGTT
131 TGTACACAGTTATGTACATCATTGAGTACTTACGTATCATCTATTCATGTACACAGTT
* *
882207 ATGTATATCATTAAATA
1 ATGTACATCATTGAATA
882224 TCATCTGTAC
Statistics
Matches: 3007, Mismatches: 200, Indels: 12
0.93 0.06 0.00
Matches are distributed among these distances:
188 3004 1.00
189 3 0.00
ACGTcount: A:0.31, C:0.20, G:0.12, T:0.38
Consensus pattern (188 bp):
ATGTACATCATTGAATACTTACGTATCATCTATTCATGTACACAGTTATGTACATCATTGAAAAC
TTACGTATCATCTATTCATGTACACAGCTATGTACATCATTGAGTACTTACGTATCATCTATTCA
TGTACACAGTTATGTACATCATTGAGTACTTACGTATCATCTATTCATGTACACAGTT
Found at i:879427 original size:329 final size:329
Alignment explanation
Indices: 878823--882218 Score: 5810
Period size: 329 Copynumber: 10.3 Consensus size: 329
878813 CAAAATGAGC
* * * *
878823 ATGTATATCATTGAATACTTATGTATCATCTATTCATGTACACAGTTATGTACATCATTGAGTAC
1 ATGTACATCATTGAGTACTTACGTATCATCTATTCATGTACACAGTTATGTACATCATTGACTAC
* * *
878888 TTACGTATCATCAATTCATGTACACAGCTATGTATATCATTGAAAACTTGTGTATCGTCTATTCA
66 TTACGTATCATCTATTCATGTACACAGTTATGTACATCATTGAAAACTTGTGTATCGTCTATTCA
* * *
878953 CGTACATAGCTATGTACATCATTGAGTACTTACGTATCATCTATTCATGTACACAGTTATATACA
131 TGTACACAACTATGTACATCATTGAGTACTTACGTATCATCTATTCATGTACACAGTTATATACA
*
879018 TCATTGACTACTTACGTATCATCTATTCATGTACACAGTTATGTACATCATTGAAAACTTGTGTA
196 TCATTGACTACTTACGTATCATCTATTCATGTACACAGTTATGTACATCATTGAAAACTTGTCTA
* * ** ** *
879083 TCGTCTATTCATGTACACAACTATGTACATCATTGAGTACTTACGTATCATCTATTCATGTACAC
261 TCATCTATTCATGTACACAGCTATGTACATCATTGAAAACTTGTGTATCGTCTATTCATGTACAC
*
879148 AGTT
326 AGCT
* *
879152 ATATACATCATTGACTACTTACGTATCATCTATTCATGTACACAGTTATGTACATCATTGACTAC
1 ATGTACATCATTGAGTACTTACGTATCATCTATTCATGTACACAGTTATGTACATCATTGACTAC
879217 TTACGTATCATCTATTCATGTACACAGTTATGTACATCATTGAAAACTTGTGTATCGTCTATTCA
66 TTACGTATCATCTATTCATGTACACAGTTATGTACATCATTGAAAACTTGTGTATCGTCTATTCA
*
879282 TGTACACAACTATGTACATCATTGAGTACTTACGTATCATCTATTCATGTACACAGTTATGTACA
131 TGTACACAACTATGTACATCATTGAGTACTTACGTATCATCTATTCATGTACACAGTTATATACA
* *
879347 TCATTGAGTACTTACGTATCATCTATTCATGTACACAGCTATGTACATCATTGAAAACTTGTCTA
196 TCATTGACTACTTACGTATCATCTATTCATGTACACAGTTATGTACATCATTGAAAACTTGTCTA
*
879412 TCATCTATTCATGTACATAGCTATGTACATCATTGAAAACTTGTGTATCGTCTATTCATGTACAC
261 TCATCTATTCATGTACACAGCTATGTACATCATTGAAAACTTGTGTATCGTCTATTCATGTACAC
879477 AGCT
326 AGCT
*
879481 ATGTACATCATTGAGTACTTACGTATCATCTATTCATGTACACAGTTATATACATCATTGACTAC
1 ATGTACATCATTGAGTACTTACGTATCATCTATTCATGTACACAGTTATGTACATCATTGACTAC
879546 TTACGTATCATCTATTCATGTACACAGTTATGTACATCATTGAAAACTTGTGTATCGTCTATTCA
66 TTACGTATCATCTATTCATGTACACAGTTATGTACATCATTGAAAACTTGTGTATCGTCTATTCA
*
879611 TGTACACAACTATGTACATCATTGAGTACTTACGTATCATCTATTTATGTACACAGTTATATACA
131 TGTACACAACTATGTACATCATTGAGTACTTACGTATCATCTATTCATGTACACAGTTATATACA
* ** *
879676 TCATTGACTACTTACGTATCATCTATTCATGTACACAGTTATATACATCATTGACTACTT-ACGT
196 TCATTGACTACTTACGTATCATCTATTCATGTACACAGTTATGTACATCATTGAAAACTTGTC-T
* *
879740 ATCATCTATTCATGTACACAGTTATGTACATCATTGAAAACTTGTGTATCTTCTATTCATGTACA
260 ATCATCTATTCATGTACACAGCTATGTACATCATTGAAAACTTGTGTATCGTCTATTCATGTACA
*
879805 CAACT
325 CAGCT
*
879810 ATGTACATCATTGAGTACTTACGTATCATCTATTCATGTACACAGTTATATACATCATTGACTAC
1 ATGTACATCATTGAGTACTTACGTATCATCTATTCATGTACACAGTTATGTACATCATTGACTAC
** ** *
879875 TTACGTATCATCTATTCATGTACACAGTTATGTACATCATTGACTACTTACGTATCATCTATTCA
66 TTACGTATCATCTATTCATGTACACAGTTATGTACATCATTGAAAACTTGTGTATCGTCTATTCA
** ** ** * ** *
879940 TGTACACAGTTATGTACATCATTGAAAACTTGTGTATCGTCTATTCATGTACACAACTATGTACA
131 TGTACACAACTATGTACATCATTGAGTACTTACGTATCATCTATTCATGTACACAGTTATATACA
* ** *
880005 TCATTGAGTACTTACGTATCATCTATTCATGTACACAGTTATGTACATCATTGACTACTT-ACGT
196 TCATTGACTACTTACGTATCATCTATTCATGTACACAGTTATGTACATCATTGAAAACTTGTC-T
*
880069 ATCATCTATTCATGTACACAGTTATGTACATCATTGAAAACTTGTGTATCGTCTATTCATGTACA
260 ATCATCTATTCATGTACACAGCTATGTACATCATTGAAAACTTGTGTATCGTCTATTCATGTACA
*
880134 CAACT
325 CAGCT
880139 ATGTACATCATTGAGTACTTACGTATCATCTATTCATGTACACAGTTATGTACATCATTGACTAC
1 ATGTACATCATTGAGTACTTACGTATCATCTATTCATGTACACAGTTATGTACATCATTGACTAC
880204 TTACGTATCATCTATTCATGTACACAGTTATGTACATCATTGAAAACTTGTGTATCGTCTATTCA
66 TTACGTATCATCTATTCATGTACACAGTTATGTACATCATTGAAAACTTGTGTATCGTCTATTCA
*
880269 TGTACACAACTATGTACATCATTGAGTACTTACGTATCATCTATTCATGTACACAGTTATGTACA
131 TGTACACAACTATGTACATCATTGAGTACTTACGTATCATCTATTCATGTACACAGTTATATACA
* *
880334 TCATTGAGTACTTACGTATCATCTATTCATGTACACAGCTATGTACATCATTGAAAACTTGTCTA
196 TCATTGACTACTTACGTATCATCTATTCATGTACACAGTTATGTACATCATTGAAAACTTGTCTA
*
880399 TCATCTATTCATGTACATAGCTATGTACATCATTGAAAACTTGTGTATCGTCTATTCATGTACAC
261 TCATCTATTCATGTACACAGCTATGTACATCATTGAAAACTTGTGTATCGTCTATTCATGTACAC
880464 AGCT
326 AGCT
*
880468 ATGTACATCATTGAGTACTTACGTATCATCTATTCATGTACACAGTTATATACATCATTGACTAC
1 ATGTACATCATTGAGTACTTACGTATCATCTATTCATGTACACAGTTATGTACATCATTGACTAC
880533 TTACGTATCATCTATTCATGTACACAGTTATGTACATCATTGAAAACTTGTGTATCGTCTATTCA
66 TTACGTATCATCTATTCATGTACACAGTTATGTACATCATTGAAAACTTGTGTATCGTCTATTCA
880598 TGTACACAACTATGTACATCATTGAGTACTTACGTATCATCTATTCATGTACACAGTTATATACA
131 TGTACACAACTATGTACATCATTGAGTACTTACGTATCATCTATTCATGTACACAGTTATATACA
** *
880663 TCATTGACTACTTACGTATCATCTATTCATGTACACAGTTATGTACATCATTGACTACTT-ACGT
196 TCATTGACTACTTACGTATCATCTATTCATGTACACAGTTATGTACATCATTGAAAACTTGTC-T
*
880727 ATCATCTATTCATGTACACAGTTATGTACATCATTGAAAACTTGTGTATCGTCTATTCATGTACA
260 ATCATCTATTCATGTACACAGCTATGTACATCATTGAAAACTTGTGTATCGTCTATTCATGTACA
*
880792 CAACT
325 CAGCT
*
880797 ATGTACATCATTGAGTACTTACGTATCATCTATTCATGTACACAGTTATGTACATCATTGAGTAC
1 ATGTACATCATTGAGTACTTACGTATCATCTATTCATGTACACAGTTATGTACATCATTGACTAC
*
880862 TTACGTATCATCTATTCATGTACACAGTTATGTACATCATTGAAAACTTGTGTATCATCTATTCA
66 TTACGTATCATCTATTCATGTACACAGTTATGTACATCATTGAAAACTTGTGTATCGTCTATTCA
880927 TGTACACAACTATGTACATCATTGAGTACTTACGTATCATCTATTCATGTACACAGTTATATACA
131 TGTACACAACTATGTACATCATTGAGTACTTACGTATCATCTATTCATGTACACAGTTATATACA
** *
880992 TCATTGACTACTTACGTATCATCTATTCATGTACACAGTTATGTACATCATTGACTACTT-ACGT
196 TCATTGACTACTTACGTATCATCTATTCATGTACACAGTTATGTACATCATTGAAAACTTGTC-T
*
881056 ATCATCTATTCATGTACACAGTTATGTACATCATTGAAAACTTGTGTATCGTCTATTCATGTACA
260 ATCATCTATTCATGTACACAGCTATGTACATCATTGAAAACTTGTGTATCGTCTATTCATGTACA
*
881121 CAACT
325 CAGCT
881126 ATGTACATCATTGAGTACTTACGTATCATCTATTCATGTACACAGTTATGTACATCATTGACTAC
1 ATGTACATCATTGAGTACTTACGTATCATCTATTCATGTACACAGTTATGTACATCATTGACTAC
881191 TTACGTATCATCTATTCATGTACACAGTTATGTACATCATTGAAAACTTGTGTATCGTCTATTCA
66 TTACGTATCATCTATTCATGTACACAGTTATGTACATCATTGAAAACTTGTGTATCGTCTATTCA
*
881256 TGTACACAACTATGTACATCATTGAGTACTTACGTATCATCTATTCATGTACACAGTTATGTACA
131 TGTACACAACTATGTACATCATTGAGTACTTACGTATCATCTATTCATGTACACAGTTATATACA
* *
881321 TCATTGAGTACTTACGTATCATCTATTCATGTACACAGCTATGTACATCATTGAAAACTTGTCTA
196 TCATTGACTACTTACGTATCATCTATTCATGTACACAGTTATGTACATCATTGAAAACTTGTCTA
*
881386 TCATCTATTCATGTACATAGCTATGTACATCATTGAAAACTTGTGTATCGTCTATTCATGTACAC
261 TCATCTATTCATGTACACAGCTATGTACATCATTGAAAACTTGTGTATCGTCTATTCATGTACAC
881451 AGCT
326 AGCT
*
881455 ATGTACATCATTGAGTACTTACGTATCATCTATTCATGTACACAGTTATATACATCATTGACTAC
1 ATGTACATCATTGAGTACTTACGTATCATCTATTCATGTACACAGTTATGTACATCATTGACTAC
881520 TTACGTATCATCTATTCATGTACACAGTTATGTACATCATTGAAAACTTGTGTATCGTCTATTCA
66 TTACGTATCATCTATTCATGTACACAGTTATGTACATCATTGAAAACTTGTGTATCGTCTATTCA
881585 TGTACACAACTATGTACATCATTGAGTACTTACGTATCATCTATTCATGTACACAGTTATATACA
131 TGTACACAACTATGTACATCATTGAGTACTTACGTATCATCTATTCATGTACACAGTTATATACA
*
881650 TCATTGACTACTTACGTATCATCTATTCATGTACACAGTTATGTACATCATTGAAAACTTGTGTA
196 TCATTGACTACTTACGTATCATCTATTCATGTACACAGTTATGTACATCATTGAAAACTTGTCTA
* * ** ** *
881715 TCGTCTATTCATGTACACAACTATGTACATCATTGAGTACTTACGTATCATCTATTCATGTACAC
261 TCATCTATTCATGTACACAGCTATGTACATCATTGAAAACTTGTGTATCGTCTATTCATGTACAC
*
881780 AGTT
326 AGCT
* *
881784 ATATACATCATTGACTACTTACGTATCATCTATTCATGTACACAGTTATGTACATCATTGACTAC
1 ATGTACATCATTGAGTACTTACGTATCATCTATTCATGTACACAGTTATGTACATCATTGACTAC
881849 TTACGTATCATCTATTCATGTACACAGTTATGTACATCATTGAAAACTTGTGTATCGTCTATTCA
66 TTACGTATCATCTATTCATGTACACAGTTATGTACATCATTGAAAACTTGTGTATCGTCTATTCA
*
881914 TGTACACAACTATGTACATCATTGAGTACTTACGTATCATCTATTCATGTACACAGTTATGTACA
131 TGTACACAACTATGTACATCATTGAGTACTTACGTATCATCTATTCATGTACACAGTTATATACA
* * *
881979 TCATTGAGTACTTACGTATCATCTATTCATGTACACAGCTATGTACATCATTGAAAACTTGTGTA
196 TCATTGACTACTTACGTATCATCTATTCATGTACACAGTTATGTACATCATTGAAAACTTGTCTA
* *
882044 TCGTCTATTCATGTACACAGTTATGTACATCATTGAAAACTTGTGTATCGTCTATTCATGTACAC
261 TCATCTATTCATGTACACAGCTATGTACATCATTGAAAACTTGTGTATCGTCTATTCATGTACAC
882109 AGCT
326 AGCT
* ** * *
882113 ATGTACATCATTGAGTACTTACGTATCATCTACTCATGTACACAGTTACATACATCATTGAGTGC
1 ATGTACATCATTGAGTACTTACGTATCATCTATTCATGTACACAGTTATGTACATCATTGACTAC
* *
882178 TTAGGTATCATCTATTCATGTACACAGTTATGTATATCATT
66 TTACGTATCATCTATTCATGTACACAGTTATGTACATCATT
882219 AAATATCATC
Statistics
Matches: 2922, Mismatches: 141, Indels: 8
0.95 0.05 0.00
Matches are distributed among these distances:
328 2 0.00
329 2918 1.00
330 2 0.00
ACGTcount: A:0.31, C:0.20, G:0.12, T:0.38
Consensus pattern (329 bp):
ATGTACATCATTGAGTACTTACGTATCATCTATTCATGTACACAGTTATGTACATCATTGACTAC
TTACGTATCATCTATTCATGTACACAGTTATGTACATCATTGAAAACTTGTGTATCGTCTATTCA
TGTACACAACTATGTACATCATTGAGTACTTACGTATCATCTATTCATGTACACAGTTATATACA
TCATTGACTACTTACGTATCATCTATTCATGTACACAGTTATGTACATCATTGAAAACTTGTCTA
TCATCTATTCATGTACACAGCTATGTACATCATTGAAAACTTGTGTATCGTCTATTCATGTACAC
AGCT
Found at i:879745 original size:21 final size:21
Alignment explanation
Indices: 879674--879745 Score: 51
Period size: 21 Copynumber: 3.2 Consensus size: 21
879664 CAGTTATATA
879674 CATCATTGACTACTTACGTAT
1 CATCATTGACTACTTACGTAT
879695 CATCTATTCATGTAC-ACAGTTA--TAT
1 CATC-A-T--TG-ACTAC--TTACGTAT
879720 ACATCATTGACTACTTACGTAT
1 -CATCATTGACTACTTACGTAT
879742 CATC
1 CATC
879746 TATTCATGTA
Statistics
Matches: 40, Mismatches: 0, Indels: 22
0.65 0.00 0.35
Matches are distributed among these distances:
20 3 0.08
21 10 0.25
22 8 0.20
23 1 0.03
24 1 0.03
25 8 0.20
26 6 0.15
27 3 0.08
ACGTcount: A:0.31, C:0.24, G:0.08, T:0.38
Consensus pattern (21 bp):
CATCATTGACTACTTACGTAT
Found at i:879839 original size:21 final size:21
Alignment explanation
Indices: 879815--879933 Score: 55
Period size: 21 Copynumber: 5.2 Consensus size: 21
879805 CAACTATGTA
879815 CATCATTGAGTACTTACGTAT
1 CATCATTGAGTACTTACGTAT
*
879836 CATCTATTCATGTAC--ACAGTTATAT
1 CATC-ATTGA-GTACTTAC-G---TAT
*
879861 ACATCATTGACTACTTACGTAT
1 -CATCATTGAGTACTTACGTAT
* *
879883 CATCTATTCATGTACACAGTTATGTA-
1 CATC-ATTGA-GT--AC--TTACGTAT
*
879909 CATCATTGACTACTTACGTAT
1 CATCATTGAGTACTTACGTAT
879930 CATC
1 CATC
879934 TATTCATGTA
Statistics
Matches: 73, Mismatches: 9, Indels: 32
0.64 0.08 0.28
Matches are distributed among these distances:
20 6 0.08
21 14 0.19
22 14 0.19
23 5 0.07
24 4 0.05
25 14 0.19
26 10 0.14
27 6 0.08
ACGTcount: A:0.30, C:0.22, G:0.10, T:0.38
Consensus pattern (21 bp):
CATCATTGAGTACTTACGTAT
Found at i:880027 original size:21 final size:21
Alignment explanation
Indices: 880003--880074 Score: 56
Period size: 21 Copynumber: 3.2 Consensus size: 21
879993 CAACTATGTA
880003 CATCATTGAGTACTTACGTAT
1 CATCATTGAGTACTTACGTAT
* *
880024 CATCTATTCATGTACACAGTTATGTA-
1 CATC-ATTGA-GT--AC--TTACGTAT
*
880050 CATCATTGACTACTTACGTAT
1 CATCATTGAGTACTTACGTAT
880071 CATC
1 CATC
880075 TATTCATGTA
Statistics
Matches: 39, Mismatches: 5, Indels: 14
0.67 0.09 0.24
Matches are distributed among these distances:
20 6 0.15
21 8 0.21
22 6 0.15
23 2 0.05
24 1 0.03
25 6 0.15
26 4 0.10
27 6 0.15
ACGTcount: A:0.29, C:0.22, G:0.11, T:0.38
Consensus pattern (21 bp):
CATCATTGAGTACTTACGTAT
Found at i:880168 original size:21 final size:21
Alignment explanation
Indices: 880144--880215 Score: 56
Period size: 21 Copynumber: 3.2 Consensus size: 21
880134 CAACTATGTA
880144 CATCATTGAGTACTTACGTAT
1 CATCATTGAGTACTTACGTAT
* *
880165 CATCTATTCATGTACACAGTTATGTA-
1 CATC-ATTGA-GT--AC--TTACGTAT
*
880191 CATCATTGACTACTTACGTAT
1 CATCATTGAGTACTTACGTAT
880212 CATC
1 CATC
880216 TATTCATGTA
Statistics
Matches: 39, Mismatches: 5, Indels: 14
0.67 0.09 0.24
Matches are distributed among these distances:
20 6 0.15
21 8 0.21
22 6 0.15
23 2 0.05
24 1 0.03
25 6 0.15
26 4 0.10
27 6 0.15
ACGTcount: A:0.29, C:0.22, G:0.11, T:0.38
Consensus pattern (21 bp):
CATCATTGAGTACTTACGTAT
Found at i:880638 original size:21 final size:21
Alignment explanation
Indices: 880614--880732 Score: 55
Period size: 21 Copynumber: 5.2 Consensus size: 21
880604 CAACTATGTA
880614 CATCATTGAGTACTTACGTAT
1 CATCATTGAGTACTTACGTAT
*
880635 CATCTATTCATGTAC--ACAGTTATAT
1 CATC-ATTGA-GTACTTAC-G---TAT
*
880660 ACATCATTGACTACTTACGTAT
1 -CATCATTGAGTACTTACGTAT
* *
880682 CATCTATTCATGTACACAGTTATGTA-
1 CATC-ATTGA-GT--AC--TTACGTAT
*
880708 CATCATTGACTACTTACGTAT
1 CATCATTGAGTACTTACGTAT
880729 CATC
1 CATC
880733 TATTCATGTA
Statistics
Matches: 73, Mismatches: 9, Indels: 32
0.64 0.08 0.28
Matches are distributed among these distances:
20 6 0.08
21 14 0.19
22 14 0.19
23 5 0.07
24 4 0.05
25 14 0.19
26 10 0.14
27 6 0.08
ACGTcount: A:0.30, C:0.22, G:0.10, T:0.38
Consensus pattern (21 bp):
CATCATTGAGTACTTACGTAT
Found at i:880967 original size:21 final size:21
Alignment explanation
Indices: 880943--881061 Score: 55
Period size: 21 Copynumber: 5.2 Consensus size: 21
880933 CAACTATGTA
880943 CATCATTGAGTACTTACGTAT
1 CATCATTGAGTACTTACGTAT
*
880964 CATCTATTCATGTAC--ACAGTTATAT
1 CATC-ATTGA-GTACTTAC-G---TAT
*
880989 ACATCATTGACTACTTACGTAT
1 -CATCATTGAGTACTTACGTAT
* *
881011 CATCTATTCATGTACACAGTTATGTA-
1 CATC-ATTGA-GT--AC--TTACGTAT
*
881037 CATCATTGACTACTTACGTAT
1 CATCATTGAGTACTTACGTAT
881058 CATC
1 CATC
881062 TATTCATGTA
Statistics
Matches: 73, Mismatches: 9, Indels: 32
0.64 0.08 0.28
Matches are distributed among these distances:
20 6 0.08
21 14 0.19
22 14 0.19
23 5 0.07
24 4 0.05
25 14 0.19
26 10 0.14
27 6 0.08
ACGTcount: A:0.30, C:0.22, G:0.10, T:0.38
Consensus pattern (21 bp):
CATCATTGAGTACTTACGTAT
Found at i:881155 original size:21 final size:21
Alignment explanation
Indices: 881131--881202 Score: 56
Period size: 21 Copynumber: 3.2 Consensus size: 21
881121 CAACTATGTA
881131 CATCATTGAGTACTTACGTAT
1 CATCATTGAGTACTTACGTAT
* *
881152 CATCTATTCATGTACACAGTTATGTA-
1 CATC-ATTGA-GT--AC--TTACGTAT
*
881178 CATCATTGACTACTTACGTAT
1 CATCATTGAGTACTTACGTAT
881199 CATC
1 CATC
881203 TATTCATGTA
Statistics
Matches: 39, Mismatches: 5, Indels: 14
0.67 0.09 0.24
Matches are distributed among these distances:
20 6 0.15
21 8 0.21
22 6 0.15
23 2 0.05
24 1 0.03
25 6 0.15
26 4 0.10
27 6 0.15
ACGTcount: A:0.29, C:0.22, G:0.11, T:0.38
Consensus pattern (21 bp):
CATCATTGAGTACTTACGTAT
Found at i:881766 original size:21 final size:21
Alignment explanation
Indices: 881742--881860 Score: 55
Period size: 21 Copynumber: 5.2 Consensus size: 21
881732 CAACTATGTA
881742 CATCATTGAGTACTTACGTAT
1 CATCATTGAGTACTTACGTAT
*
881763 CATCTATTCATGTAC--ACAGTTATAT
1 CATC-ATTGA-GTACTTAC-G---TAT
*
881788 ACATCATTGACTACTTACGTAT
1 -CATCATTGAGTACTTACGTAT
* *
881810 CATCTATTCATGTACACAGTTATGTA-
1 CATC-ATTGA-GT--AC--TTACGTAT
*
881836 CATCATTGACTACTTACGTAT
1 CATCATTGAGTACTTACGTAT
881857 CATC
1 CATC
881861 TATTCATGTA
Statistics
Matches: 73, Mismatches: 9, Indels: 32
0.64 0.08 0.28
Matches are distributed among these distances:
20 6 0.08
21 14 0.19
22 14 0.19
23 5 0.07
24 4 0.05
25 14 0.19
26 10 0.14
27 6 0.08
ACGTcount: A:0.30, C:0.22, G:0.10, T:0.38
Consensus pattern (21 bp):
CATCATTGAGTACTTACGTAT
Found at i:884931 original size:71 final size:71
Alignment explanation
Indices: 884772--885479 Score: 679
Period size: 71 Copynumber: 10.2 Consensus size: 71
884762 AAGACATGTA
* * *
884772 CACACTTATACAACAATACACAACTTAATCATAGGACTAGCTGTAAGGTGCCCCCTCTCTGAGGC
1 CACACTTATACAACAATACATAACTTAATCATAGGTCTAGCTGTAAGGTG-CCCCTCCCTGAGGC
884837 CTATACT
65 CTATACT
* * * * * *
884844 CAAACTTATACAACAATACACAATTTAATCATAGGTCTAGCGGTAAAGTACCCCTCCCTGAGGCC
1 CACACTTATACAACAATACATAACTTAATCATAGGTCTAGCTGTAAGGTGCCCCTCCCTGAGGCC
884909 TATACT
66 TATACT
*
884915 CACACTTATACAACAATACATAACTT-ATCCATAGGTCTA----T---CTGCCCCTCCCTGAGGC
1 CACACTTATACAACAATACATAACTTAAT-CATAGGTCTAGCTGTAAGGTGCCCCTCCCTGAGGC
884972 CTATACT
65 CTATACT
* * * * * * * * *
884979 CAGACTGATACACCAAAACAAAACTTATTCATAGGTCTAGCTGCAAGGTGACTCTCCCTGAGGCC
1 CACACTTATACAACAATACATAACTTAATCATAGGTCTAGCTGTAAGGTGCCCCTCCCTGAGGCC
885044 TATACT
66 TATACT
* * * * *
885050 CATACTTCTACATCAATACATAACTTATTCATAGGTCTAGCTGTAATGTGCCCCTCCCTGAGGCC
1 CACACTTATACAACAATACATAACTTAATCATAGGTCTAGCTGTAAGGTGCCCCTCCCTGAGGCC
*
885115 TATAGT
66 TATACT
* * * *
885121 CAAACATATACAACAATATATAACTT-ATCCATAGGTCTAGCTGTAAGGTACCCCGGCCCTCCCT
1 CACACTTATACAACAATACATAACTTAAT-CATAGGTCTAGCTGTAAGGT-----GCCCCTCCCT
885185 GAGGCCTATACT
60 GAGGCCTATACT
* *
885197 CCCACTTATACAACAATACATAACTTAATCATAGGTCTA----T---CTGCCCCTCCCTGAGGCC
1 CACACTTATACAACAATACATAACTTAATCATAGGTCTAGCTGTAAGGTGCCCCTCCCTGAGGCC
885255 TATACT
66 TATACT
* ** ** * * * * *
885261 CAAACTTATACAACAACGCACGACTTATTCATAGGTGTAGCTGTACGGTGCCCCTCCCAGAAGCC
1 CACACTTATACAACAATACATAACTTAATCATAGGTCTAGCTGTAAGGTGCCCCTCCCTGAGGCC
*
885326 TATACC
66 TATACT
** * * **
885332 CTTACTTAT---ACAATACATAA-TTATTCATAGGTCTAGCTGTAAGATGCCCCTTTCTGAGGCC
1 CACACTTATACAACAATACATAACTTAATCATAGGTCTAGCTGTAAGGTGCCCCTCCCTGAGGCC
*
885393 TTTA-T
66 TATACT
* * * *
885398 -ACACATATACAACAATATATAACTT-ATCCATAGGTCTAGCTGTAAGGTGCCCCTCTCTGGGGC
1 CACACTTATACAACAATACATAACTTAAT-CATAGGTCTAGCTGTAAGGTGCCCCTCCCTGAGGC
*
885461 CTCTACT
65 CTATACT
*
885468 CACACTGATACA
1 CACACTTATACA
885480 CCAACTGAAA
Statistics
Matches: 520, Mismatches: 86, Indels: 61
0.78 0.13 0.09
Matches are distributed among these distances:
64 105 0.20
65 6 0.01
67 38 0.07
68 19 0.04
69 39 0.08
70 4 0.01
71 210 0.40
72 45 0.09
76 52 0.10
77 2 0.00
ACGTcount: A:0.31, C:0.28, G:0.14, T:0.27
Consensus pattern (71 bp):
CACACTTATACAACAATACATAACTTAATCATAGGTCTAGCTGTAAGGTGCCCCTCCCTGAGGCC
TATACT
Found at i:885036 original size:135 final size:135
Alignment explanation
Indices: 884823--885479 Score: 635
Period size: 135 Copynumber: 4.8 Consensus size: 135
884813 TGTAAGGTGC
* * * *
884823 CCCCTCTCTGAGGCCTATACTCAAACTTATACAACAATACACAATTTAATCATAGGTCTAGCGGT
1 CCCCTCCCTGAGGCCTATACTCAAACTTATACAACAATACACAACTTATTCATAGGTCTAGCTGT
* *
884888 AAAGT-ACCCCTCCCTGAGGCCTATACTCACACTTATACAACAATACATAACTTATCCATAGGTC
66 AAGGTGA-CCCTCCCTGAGGCCTATACTCACACTTATACAACAATACATAACTTATTCATAGGTC
884952 TATCTG
130 TATCTG
* * * * * *
884958 CCCCTCCCTGAGGCCTATACTCAGACTGATACACCAAAACAAAACTTATTCATAGGTCTAGCTGC
1 CCCCTCCCTGAGGCCTATACTCAAACTTATACAACAATACACAACTTATTCATAGGTCTAGCTGT
* * * *
885023 AAGGTGACTCTCCCTGAGGCCTATACTCATACTTCTACATCAATACATAACTTATTCATAGGTCT
66 AAGGTGACCCTCCCTGAGGCCTATACTCACACTTATACAACAATACATAACTTATTCATAGG--T
*
885088 AGCTGTAATGTG
129 --C--T-ATCTG
* * * * *
885100 CCCCTCCCTGAGGCCTATAGTCAAACATATACAACAATATATAACTTATCCATAGGTCTAGCTGT
1 CCCCTCCCTGAGGCCTATACTCAAACTTATACAACAATACACAACTTATTCATAGGTCTAGCTGT
* * *
885165 AAGGTACCCCGGCCCTCCCTGAGGCCTATACTCCCACTTATACAACAATACATAACTTAATCATA
66 AAGGT-----GACCCTCCCTGAGGCCTATACTCACACTTATACAACAATACATAACTTATTCATA
885230 GGTCTATCTG
126 GGTCTATCTG
** * *
885240 CCCCTCCCTGAGGCCTATACTCAAACTTATACAACAACGCACGACTTATTCATAGGTGTAGCTGT
1 CCCCTCCCTGAGGCCTATACTCAAACTTATACAACAATACACAACTTATTCATAGGTCTAGCTGT
* * * * * **
885305 ACGGTGCCCCTCCCAGAAGCCTATACCCTTACTTAT---ACAATACATAA-TTATTCATAGGTCT
66 AAGGTGACCCTCCCTGAGGCCTATACTCACACTTATACAACAATACATAACTTATTCATAGGTCT
*
885366 AGCTGTAAGATG
131 A----T---CTG
** * * * * * *
885378 CCCCTTTCTGAGGCCTTTA-T-ACACATATACAACAATATATAACTTATCCATAGGTCTAGCTGT
1 CCCCTCCCTGAGGCCTATACTCAAACTTATACAACAATACACAACTTATTCATAGGTCTAGCTGT
* * * * *
885441 AAGGTGCCCCTCTCTGGGGCCTCTACTCACACTGATACA
66 AAGGTGACCCTCCCTGAGGCCTATACTCACACTTATACA
885480 CCAACTGAAA
Statistics
Matches: 424, Mismatches: 75, Indels: 42
0.78 0.14 0.08
Matches are distributed among these distances:
131 14 0.03
132 11 0.03
135 135 0.32
136 61 0.14
137 2 0.00
138 18 0.04
139 1 0.00
140 64 0.15
141 2 0.00
142 64 0.15
143 1 0.00
145 1 0.00
147 50 0.12
ACGTcount: A:0.30, C:0.29, G:0.14, T:0.28
Consensus pattern (135 bp):
CCCCTCCCTGAGGCCTATACTCAAACTTATACAACAATACACAACTTATTCATAGGTCTAGCTGT
AAGGTGACCCTCCCTGAGGCCTATACTCACACTTATACAACAATACATAACTTATTCATAGGTCT
ATCTG
Found at i:885287 original size:64 final size:64
Alignment explanation
Indices: 885177--885296 Score: 177
Period size: 64 Copynumber: 1.9 Consensus size: 64
885167 GGTACCCCGG
** * *
885177 CCCTCCCTGAGGCCTATACTCCCACTTATACAACAATACATAACTTAATCATAGGTCTATCTGC
1 CCCTCCCTGAGGCCTATACTCAAACTTATACAACAACACACAACTTAATCATAGGTCTATCTGC
* * *
885241 CCCTCCCTGAGGCCTATACTCAAACTTATACAACAACGCACGACTTATTCATAGGT
1 CCCTCCCTGAGGCCTATACTCAAACTTATACAACAACACACAACTTAATCATAGGT
885297 GTAGCTGTAC
Statistics
Matches: 49, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
64 49 1.00
ACGTcount: A:0.30, C:0.33, G:0.11, T:0.27
Consensus pattern (64 bp):
CCCTCCCTGAGGCCTATACTCAAACTTATACAACAACACACAACTTAATCATAGGTCTATCTGC
Found at i:885289 original size:282 final size:276
Alignment explanation
Indices: 884784--885479 Score: 883
Period size: 282 Copynumber: 2.5 Consensus size: 276
884774 CACTTATACA
* * *
884784 ACAATACACAACTTAATCATAGGACTAGCTGTAAGGTGCCCCCTCTCTGAGGCCTATACTCAAAC
1 ACAATACATAACTTATTCATAGGTCTAGCTGTAA-GTG-CCCCTCTCTGAGGCCTATA-TCAAAC
* * * * * *
884849 TTATACAACAATACACAATTTAAT-CATAGGTCTAGCGGTAAAGTA---CCCCTCCCTGAGGCCT
63 ATATACAACAATATATAACTT-ATCCATAGGTCTAGCTGTAAGGTACCCCCCCTCCCTGAGGCCT
884910 ATACTCACACTTATACAACAATACATAACTTATCCATAGGTCTATCTGCCCCTCCCTGAGGCCTA
127 ATACTCACACTTATACAACAATACATAACTTATCCATAGGTCTATCTGCCCCTCCCTGAGGCCTA
* * * *
884975 TACTCAGACTGATACACCAAAACAAAACTTATTCATAGGTCTAGCTGCAAGGTGACTCTCCCTGA
192 TACTCAAACTGATACAACAAAACAAAACTTATTCATAGGTCTAGCTGCAAGGTGACCCTCCCAGA
* *
885040 GGCCTATACTCATACTTCTAC
257 AGCCTATACCCATACTT-TAC
*
885061 ATCAATACATAACTTATTCATAGGTCTAGCTGTAATGTGCCCCTCCCTGAGGCCTATAGTCAAAC
1 A-CAATACATAACTTATTCATAGGTCTAGCTGTAA-GTGCCCCTCTCTGAGGCCTATA-TCAAAC
885126 ATATACAACAATATATAACTTATCCATAGGTCTAGCTGTAAGGTACCCCGGCCCTCCCTGAGGCC
63 ATATACAACAATATATAACTTATCCATAGGTCTAGCTGTAAGGTACCCC--CCCTCCCTGAGGCC
*
885191 TATACTCCCACTTATACAACAATACATAACTTAAT-CATAGGTCTATCTGCCCCTCCCTGAGGCC
126 TATACTCACACTTATACAACAATACATAACTT-ATCCATAGGTCTATCTGCCCCTCCCTGAGGCC
* ** ** * * * *
885255 TATACTCAAACTTATACAACAACGCACGACTTATTCATAGGTGTAGCTGTACGGTGCCCCTCCCA
190 TATACTCAAACTGATACAACAAAACAAAACTTATTCATAGGTCTAGCTGCAAGGTGACCCTCCCA
* *
885320 GAAGCCTATACCCTTAC-TTAT
255 GAAGCCTATACCCATACTTTAC
* * *
885341 ACAATACATAA-TTATTCATAGGTCTAGCTGTAAGATGCCCCTTTCTGAGGCCTTTAT-ACACAT
1 ACAATACATAACTTATTCATAGGTCTAGCTGTAAG-TGCCCCTCTCTGAGGCCTATATCAAACAT
* * * *
885404 ATACAACAATATATAACTTATCCATAGGTCTAGCTGTAAGGT---GCCCCTCTCTGGGGCCTCTA
65 ATACAACAATATATAACTTATCCATAGGTCTAGCTGTAAGGTACCCCCCCTCCCTGAGGCCTATA
*
885466 CTCACACTGATACA
130 CTCACACTTATACA
885480 CCAACTGAAA
Statistics
Matches: 370, Mismatches: 40, Indels: 24
0.85 0.09 0.06
Matches are distributed among these distances:
271 27 0.07
273 1 0.00
276 49 0.13
277 63 0.17
278 73 0.20
279 10 0.03
280 4 0.01
281 1 0.00
282 140 0.38
283 2 0.01
ACGTcount: A:0.30, C:0.28, G:0.14, T:0.27
Consensus pattern (276 bp):
ACAATACATAACTTATTCATAGGTCTAGCTGTAAGTGCCCCTCTCTGAGGCCTATATCAAACATA
TACAACAATATATAACTTATCCATAGGTCTAGCTGTAAGGTACCCCCCCTCCCTGAGGCCTATAC
TCACACTTATACAACAATACATAACTTATCCATAGGTCTATCTGCCCCTCCCTGAGGCCTATACT
CAAACTGATACAACAAAACAAAACTTATTCATAGGTCTAGCTGCAAGGTGACCCTCCCAGAAGCC
TATACCCATACTTTAC
Found at i:885344 original size:211 final size:210
Alignment explanation
Indices: 884772--885374 Score: 525
Period size: 206 Copynumber: 2.9 Consensus size: 210
884762 AAGACATGTA
* * * * * * *
884772 CACACTTATACAACAATACACAACTTAATCATAGGACTAGCTGTAAGGTGCCCCCTCTCTGAGGC
1 CACACTGATACAACAAAACAAAACTTAATCATAGGTCTA-CTG-CA--TG-ACCCTCCCTGAGGC
* * * * * *
884837 CTATACTCAAACTTATACAACAATACACAATTTAATCATAGGTCTAGCGGTAAAGTACCCCTCCC
61 CTATACTCAAACTTATACAACAACACACAACTTATTCATAGGTCTAGCTGTAAGGTGCCCCTCCC
* * * * * *
884902 TGAGGCCTATACTCACACTTATACAACAATACATAACTTATCCATAGGTCTA--TCT---G----
126 AGAAGCCTATACCCAAAC--ATA-TACAATACATAA-TTATCCATAGGTCTAGCTGTAAGGTACC
884958 -C--CCCTCCCTGAGGCCTATACT
187 CCGGCCCTCCCTGAGGCCTATACT
* * * *
884979 CAGACTGATACACCAAAACAAAACTTATTCATAGGTCTAGCTGCAAGGTGACTCTCCCTGAGGCC
1 CACACTGATACAACAAAACAAAACTTAATCATAGGTCTA-CTGC-A--TGACCCTCCCTGAGGCC
* * * * * * *
885044 TATACTCATACTTCTACATCAATACATAACTTATTCATAGGTCTAGCTGTAATGTGCCCCTCCCT
62 TATACTCAAACTTATACAACAACACACAACTTATTCATAGGTCTAGCTGTAAGGTGCCCCTCCCA
* ** *
885109 GAGGCCTATAGTCAAACATATACAACAATATATAACTTATCCATAGGTCTAGCTGTAAGGTACCC
127 GAAGCCTATACCCAAACATAT---ACAATACATAA-TTATCCATAGGTCTAGCTGTAAGGTACCC
885174 CGGCCCTCCCTGAGGCCTATACT
188 CGGCCCTCCCTGAGGCCTATACT
* * * * *
885197 CCCACTTATACAACAATACATAACTTAATCATAGGTCTA-T-C-TGCCCCTCCCTGAGGCCTATA
1 CACACTGATACAACAAAACAAAACTTAATCATAGGTCTACTGCATGACCCTCCCTGAGGCCTATA
* * * *
885259 CTCAAACTTATACAACAACGCACGACTTATTCATAGGTGTAGCTGTACGGTGCCCCTCCCAGAAG
66 CTCAAACTTATACAACAACACACAACTTATTCATAGGTCTAGCTGTAAGGTGCCCCTCCCAGAAG
** * *
885324 CCTATACCCTTACTTATACAATACATAATTATTCATAGGTCTAGCTGTAAG
131 CCTATACCCAAACATATACAATACATAATTATCCATAGGTCTAGCTGTAAG
885375 ATGCCCCTTT
Statistics
Matches: 327, Mismatches: 53, Indels: 32
0.79 0.13 0.08
Matches are distributed among these distances:
204 3 0.01
206 109 0.33
207 63 0.19
208 12 0.04
211 85 0.26
215 1 0.00
216 2 0.01
218 52 0.16
ACGTcount: A:0.31, C:0.28, G:0.13, T:0.27
Consensus pattern (210 bp):
CACACTGATACAACAAAACAAAACTTAATCATAGGTCTACTGCATGACCCTCCCTGAGGCCTATA
CTCAAACTTATACAACAACACACAACTTATTCATAGGTCTAGCTGTAAGGTGCCCCTCCCAGAAG
CCTATACCCAAACATATACAATACATAATTATCCATAGGTCTAGCTGTAAGGTACCCCGGCCCTC
CCTGAGGCCTATACT
Found at i:889812 original size:22 final size:22
Alignment explanation
Indices: 889779--889857 Score: 124
Period size: 22 Copynumber: 3.6 Consensus size: 22
889769 CAGAAGCTTG
889779 ACAAAT-GCCTGCAGTTGATGA
1 ACAAATAGCCTGCAGTTGATGA
889800 ACAAATAGCCTGCAGTTGATGA
1 ACAAATAGCCTGCAGTTGATGA
* **
889822 ACAAATAGCCTGTAGTTGAAAA
1 ACAAATAGCCTGCAGTTGATGA
889844 ACAAATAGCCTGCA
1 ACAAATAGCCTGCA
889858 ACAAATAGCC
Statistics
Matches: 53, Mismatches: 4, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
21 6 0.11
22 47 0.89
ACGTcount: A:0.39, C:0.19, G:0.20, T:0.22
Consensus pattern (22 bp):
ACAAATAGCCTGCAGTTGATGA
Found at i:889839 original size:44 final size:44
Alignment explanation
Indices: 889779--890381 Score: 602
Period size: 44 Copynumber: 13.8 Consensus size: 44
889769 CAGAAGCTTG
889779 ACAAAT-GCCTGCAGTTGATGAACAAATAGCCTGCAGTTGATGA
1 ACAAATAGCCTGCAGTTGATGAACAAATAGCCTGCAGTTGATGA
* **
889822 ACAAATAGCCTGTAGTTGAAAAACAAATAGCCTGC--------A
1 ACAAATAGCCTGCAGTTGATGAACAAATAGCCTGCAGTTGATGA
*
889858 ACAAATAGCCTGCAGTTAATGAACAAATAGCCTGCAGTTGATGA
1 ACAAATAGCCTGCAGTTGATGAACAAATAGCCTGCAGTTGATGA
* *
889902 ACAAATAGCCAGCAGTTGATGAACAAAGAGCCTGCAGTTGATGA
1 ACAAATAGCCTGCAGTTGATGAACAAATAGCCTGCAGTTGATGA
*
889946 ACAAATAGCCTGTAG-T--TGAACAAATAGCCTGCAGTTG-TGGA
1 ACAAATAGCCTGCAGTTGATGAACAAATAGCCTGCAGTTGAT-GA
889987 AC-AATAGCCTGCAGTTGCAGTTGATGAACAAATAGCCTGCAGTTG-TGGA
1 ACAAATAG-C--C---TGCAGTTGATGAACAAATAGCCTGCAGTTGAT-GA
* *
890036 AC-AATAGCCTGCAGTTGCAGTTGATGAACAAATAGACAGCAGTTG-TAGA
1 ACAAATAG-C--C---TGCAGTTGATGAACAAATAGCCTGCAGTTGAT-GA
* ** * *
890085 ACAAATCGCCTAAAGTTGATGAACAAAAAAGCCTGCAGTTAATGA
1 ACAAATAGCCTGCAGTTGATGAAC-AAATAGCCTGCAGTTGATGA
* *
890130 ACAAATAGCCTGTAGTTGATAAACAAATAGCCTGCAGTTGATGA
1 ACAAATAGCCTGCAGTTGATGAACAAATAGCCTGCAGTTGATGA
*
890174 ACAAATAGCCTGCAGTTG-TAGAAC-AATATCCTGCAGTTGATGA
1 ACAAATAGCCTGCAGTTGAT-GAACAAATAGCCTGCAGTTGATGA
* * * **
890217 ACAAATAGACAGCAGTTG-TAGAACAAATCGCCTAAAGTTGATGA
1 ACAAATAGCCTGCAGTTGAT-GAACAAATAGCCTGCAGTTGATGA
* * * *
890261 ACAAAAAAGCCTGCAGTTAATGAACAAATAGCCTGTAGTTGATAA
1 AC-AAATAGCCTGCAGTTGATGAACAAATAGCCTGCAGTTGATGA
* * *
890306 ACAAATAGCCTGCAGTTGATAAACAAATAGACAGCAGTTG-TAGA
1 ACAAATAGCCTGCAGTTGATGAACAAATAGCCTGCAGTTGAT-GA
*
890350 AC-AATATCCTGCAGTTGATGAACAAATAGCCT
1 ACAAATAGCCTGCAGTTGATGAACAAATAGCCT
890382 ACTGGTACAG
Statistics
Matches: 475, Mismatches: 58, Indels: 54
0.81 0.10 0.09
Matches are distributed among these distances:
36 32 0.07
40 6 0.01
41 25 0.05
43 76 0.16
44 182 0.38
45 68 0.14
46 6 0.01
47 2 0.00
49 74 0.16
50 4 0.01
ACGTcount: A:0.39, C:0.18, G:0.21, T:0.22
Consensus pattern (44 bp):
ACAAATAGCCTGCAGTTGATGAACAAATAGCCTGCAGTTGATGA
Found at i:889862 original size:14 final size:14
Alignment explanation
Indices: 889843--889871 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
889833 GTAGTTGAAA
889843 AACAAATAGCCTGC
1 AACAAATAGCCTGC
889857 AACAAATAGCCTGC
1 AACAAATAGCCTGC
889871 A
1 A
889872 GTTAATGAAC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.45, C:0.28, G:0.14, T:0.14
Consensus pattern (14 bp):
AACAAATAGCCTGC
Found at i:889868 original size:36 final size:36
Alignment explanation
Indices: 889821--889893 Score: 112
Period size: 36 Copynumber: 2.0 Consensus size: 36
889811 GCAGTTGATG
*
889821 AACAAATAGCCTGTAGTTGAA-AAACAAATAGCCTGC
1 AACAAATAGCCTGCAGTT-AATAAACAAATAGCCTGC
*
889857 AACAAATAGCCTGCAGTTAATGAACAAATAGCCTGC
1 AACAAATAGCCTGCAGTTAATAAACAAATAGCCTGC
889893 A
1 A
889894 GTTGATGAAC
Statistics
Matches: 34, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
35 2 0.06
36 32 0.94
ACGTcount: A:0.44, C:0.21, G:0.16, T:0.19
Consensus pattern (36 bp):
AACAAATAGCCTGCAGTTAATAAACAAATAGCCTGC
Found at i:889885 original size:22 final size:22
Alignment explanation
Indices: 889857--890381 Score: 536
Period size: 22 Copynumber: 23.5 Consensus size: 22
889847 AATAGCCTGC
*
889857 AACAAATAGCCTGCAGTTAATG
1 AACAAATAGCCTGCAGTTGATG
889879 AACAAATAGCCTGCAGTTGATG
1 AACAAATAGCCTGCAGTTGATG
*
889901 AACAAATAGCCAGCAGTTGATG
1 AACAAATAGCCTGCAGTTGATG
*
889923 AACAAAGAGCCTGCAGTTGATG
1 AACAAATAGCCTGCAGTTGATG
*
889945 AACAAATAGCCTGTAG-T--TG
1 AACAAATAGCCTGCAGTTGATG
889964 AACAAATAGCCTGCAGTTG-TGG
1 AACAAATAGCCTGCAGTTGAT-G
889986 AAC-AATAGCCTGCAGTTGCAGTTGATG
1 AACAAATAG-C--C---TGCAGTTGATG
890013 AACAAATAGCCTGCAGTTG-TGG
1 AACAAATAGCCTGCAGTTGAT-G
890035 AAC-AATAGCCTGCAGTTGCAGTTGATG
1 AACAAATAG-C--C---TGCAGTTGATG
* *
890062 AACAAATAGACAGCAGTTG-TAG
1 AACAAATAGCCTGCAGTTGAT-G
* **
890084 AACAAATCGCCTAAAGTTGATG
1 AACAAATAGCCTGCAGTTGATG
* *
890106 AACAAAAAAGCCTGCAGTTAATG
1 AAC-AAATAGCCTGCAGTTGATG
* *
890129 AACAAATAGCCTGTAGTTGATA
1 AACAAATAGCCTGCAGTTGATG
890151 AACAAATAGCCTGCAGTTGATG
1 AACAAATAGCCTGCAGTTGATG
890173 AACAAATAGCCTGCAGTTG-TAG
1 AACAAATAGCCTGCAGTTGAT-G
*
890195 AAC-AATATCCTGCAGTTGATG
1 AACAAATAGCCTGCAGTTGATG
* *
890216 AACAAATAGACAGCAGTTG-TAG
1 AACAAATAGCCTGCAGTTGAT-G
* **
890238 AACAAATCGCCTAAAGTTGATG
1 AACAAATAGCCTGCAGTTGATG
* *
890260 AACAAAAAAGCCTGCAGTTAATG
1 AAC-AAATAGCCTGCAGTTGATG
* *
890283 AACAAATAGCCTGTAGTTGATA
1 AACAAATAGCCTGCAGTTGATG
*
890305 AACAAATAGCCTGCAGTTGATA
1 AACAAATAGCCTGCAGTTGATG
* *
890327 AACAAATAGACAGCAGTTG-TAG
1 AACAAATAGCCTGCAGTTGAT-G
*
890349 AAC-AATATCCTGCAGTTGATG
1 AACAAATAGCCTGCAGTTGATG
890370 AACAAATAGCCT
1 AACAAATAGCCT
890382 ACTGGTACAG
Statistics
Matches: 420, Mismatches: 51, Indels: 64
0.79 0.10 0.12
Matches are distributed among these distances:
19 17 0.04
20 1 0.00
21 51 0.12
22 274 0.65
23 36 0.09
24 2 0.00
25 2 0.00
27 25 0.06
28 12 0.03
ACGTcount: A:0.39, C:0.17, G:0.21, T:0.22
Consensus pattern (22 bp):
AACAAATAGCCTGCAGTTGATG
Found at i:889919 original size:80 final size:79
Alignment explanation
Indices: 889779--889937 Score: 255
Period size: 80 Copynumber: 2.0 Consensus size: 79
889769 CAGAAGCTTG
* * *
889779 ACAAATGCCTGCAGTTGATGAACAAATAGCCTGCAGTTGATGAACAAATAGCCTGTAGTTGAAAA
1 ACAAATGCCTGCAGTTAATGAACAAATAGCCTGCAGTTGATGAACAAATAGCCAGCAGTTGAAAA
*
889844 ACAAATAGCCTGCA
66 ACAAAGAGCCTGCA
**
889858 ACAAATAGCCTGCAGTTAATGAACAAATAGCCTGCAGTTGATGAACAAATAGCCAGCAGTTGATG
1 ACAAAT-GCCTGCAGTTAATGAACAAATAGCCTGCAGTTGATGAACAAATAGCCAGCAGTTGAAA
889923 AACAAAGAGCCTGCA
65 AACAAAGAGCCTGCA
889938 GTTGATGAAC
Statistics
Matches: 73, Mismatches: 6, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
79 6 0.08
80 67 0.92
ACGTcount: A:0.40, C:0.19, G:0.21, T:0.20
Consensus pattern (79 bp):
ACAAATGCCTGCAGTTAATGAACAAATAGCCTGCAGTTGATGAACAAATAGCCAGCAGTTGAAAA
ACAAAGAGCCTGCA
Found at i:890015 original size:27 final size:27
Alignment explanation
Indices: 889975--890080 Score: 118
Period size: 28 Copynumber: 4.1 Consensus size: 27
889965 ACAAATAGCC
889975 TGCAGTTGTGGAAC-AATAGCCTGCAGT
1 TGCAGTTGT-GAACAAATAGCCTGCAGT
890002 TGCAGTTGATGAACAAATAGCCTGCAGT
1 TGCAGTTG-TGAACAAATAGCCTGCAGT
890030 T---G-TG-GAAC-AATAGCCTGCAGT
1 TGCAGTTGTGAACAAATAGCCTGCAGT
* *
890051 TGCAGTTGATGAACAAATAGACAGCAGT
1 TGCAGTTG-TGAACAAATAGCCTGCAGT
890079 TG
1 TG
890081 TAGAACAAAT
Statistics
Matches: 68, Mismatches: 2, Indels: 17
0.78 0.02 0.20
Matches are distributed among these distances:
21 14 0.21
22 4 0.06
24 3 0.04
25 3 0.04
27 16 0.24
28 28 0.41
ACGTcount: A:0.31, C:0.17, G:0.27, T:0.25
Consensus pattern (27 bp):
TGCAGTTGTGAACAAATAGCCTGCAGT
Found at i:890288 original size:154 final size:153
Alignment explanation
Indices: 889791--890378 Score: 738
Period size: 154 Copynumber: 3.8 Consensus size: 153
889781 AAATGCCTGC
* * *
889791 AGTTGATGAACAAATAGCCTGCAGTTGATGAACAAATAGCCTGTAGTTGAAAAACAAATAGCCTG
1 AGTTGATGAACAAAAAGCCTGCAGTTAATGAACAAATAGCCTGTAGTTGATAAACAAATAGCCTG
* * *
889856 C--------AACAAATAGCCTGCAGTT-AATGAACAAATAGCCTGCAGTTGATGAACAAATAGCC
66 CAGTTGATGAACAAATAGCCTGCAGTTGTA-GAAC-AATATCCTGCAGTTGATGAACAAATAGAC
** **
889912 AGCAGTTG-ATGAACAAAGAGCCTGC
129 AGCAGTTGTA-GAACAAATCGCCTAA
* * * *
889937 AGTTGATGAACAAATAGCCTGTAG-T--TGAACAAATAGCCTGCAGTTG-TGGAAC-AATAGCCT
1 AGTTGATGAACAAAAAGCCTGCAGTTAATGAACAAATAGCCTGTAGTTGAT-AAACAAATAG-C-
* *
889997 GCAGTTGCAGTTGATGAACAAATAGCCTGCAGTTGTGGAACAATAGCCTGCAGTTGCAGTTGATG
63 -C---TGCAGTTGATGAACAAATAGCCTGCAGTTGTAGAACAATA---T-C--CTGCAGTTGATG
890062 AACAAATAGACAGCAGTTGTAGAACAAATCGCCTAA
118 AACAAATAGACAGCAGTTGTAGAACAAATCGCCTAA
890098 AGTTGATGAACAAAAAAGCCTGCAGTTAATGAACAAATAGCCTGTAGTTGATAAACAAATAGCCT
1 AGTTGATGAAC-AAAAAGCCTGCAGTTAATGAACAAATAGCCTGTAGTTGATAAACAAATAGCCT
890163 GCAGTTGATGAACAAATAGCCTGCAGTTGTAGAACAATATCCTGCAGTTGATGAACAAATAGACA
65 GCAGTTGATGAACAAATAGCCTGCAGTTGTAGAACAATATCCTGCAGTTGATGAACAAATAGACA
890228 GCAGTTGTAGAACAAATCGCCTAA
130 GCAGTTGTAGAACAAATCGCCTAA
890252 AGTTGATGAACAAAAAAGCCTGCAGTTAATGAACAAATAGCCTGTAGTTGATAAACAAATAGCCT
1 AGTTGATGAAC-AAAAAGCCTGCAGTTAATGAACAAATAGCCTGTAGTTGATAAACAAATAGCCT
* * *
890317 GCAGTTGATAAACAAATAGACAGCAGTTGTAGAACAATATCCTGCAGTTGATGAACAAATAG
65 GCAGTTGATGAACAAATAGCCTGCAGTTGTAGAACAATATCCTGCAGTTGATGAACAAATAG
890379 CCTACTGGTA
Statistics
Matches: 391, Mismatches: 22, Indels: 50
0.84 0.05 0.11
Matches are distributed among these distances:
142 5 0.01
143 24 0.06
145 2 0.01
146 23 0.06
148 3 0.01
154 171 0.44
155 4 0.01
156 23 0.06
157 1 0.00
159 1 0.00
160 39 0.10
161 51 0.13
162 12 0.03
163 2 0.01
165 24 0.06
166 6 0.02
ACGTcount: A:0.39, C:0.17, G:0.21, T:0.22
Consensus pattern (153 bp):
AGTTGATGAACAAAAAGCCTGCAGTTAATGAACAAATAGCCTGTAGTTGATAAACAAATAGCCTG
CAGTTGATGAACAAATAGCCTGCAGTTGTAGAACAATATCCTGCAGTTGATGAACAAATAGACAG
CAGTTGTAGAACAAATCGCCTAA
Found at i:894782 original size:42 final size:42
Alignment explanation
Indices: 894730--894853 Score: 248
Period size: 42 Copynumber: 3.0 Consensus size: 42
894720 TTTAAATCTT
894730 AATGTTTTCATCTGTTATTTGTTAATTGTATTCAATGTTAAA
1 AATGTTTTCATCTGTTATTTGTTAATTGTATTCAATGTTAAA
894772 AATGTTTTCATCTGTTATTTGTTAATTGTATTCAATGTTAAA
1 AATGTTTTCATCTGTTATTTGTTAATTGTATTCAATGTTAAA
894814 AATGTTTTCATCTGTTATTTGTTAATTGTATTCAATGTTA
1 AATGTTTTCATCTGTTATTTGTTAATTGTATTCAATGTTA
894854 TAAAGGGTAC
Statistics
Matches: 82, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
42 82 1.00
ACGTcount: A:0.27, C:0.07, G:0.12, T:0.53
Consensus pattern (42 bp):
AATGTTTTCATCTGTTATTTGTTAATTGTATTCAATGTTAAA
Found at i:897071 original size:30 final size:30
Alignment explanation
Indices: 897030--897128 Score: 126
Period size: 30 Copynumber: 3.1 Consensus size: 30
897020 TTTGAGGGTG
*
897030 TGGAGGACTGGGGCTGTGTATAACCAATGC
1 TGGATGACTGGGGCTGTGTATAACCAATGC
897060 TGGATGACTGGGGCTGTGTATAACCAATGCTGTGTGC
1 TGGATGACTGGGGCTGTGTATAACCAA-------TGC
897097 TGGATGACTGGGGCTGTGTATAACCAATGC
1 TGGATGACTGGGGCTGTGTATAACCAATGC
897127 TG
1 TG
897129 TGTGCTGGAT
Statistics
Matches: 61, Mismatches: 1, Indels: 14
0.80 0.01 0.18
Matches are distributed among these distances:
30 31 0.51
37 30 0.49
ACGTcount: A:0.21, C:0.16, G:0.35, T:0.27
Consensus pattern (30 bp):
TGGATGACTGGGGCTGTGTATAACCAATGC
Found at i:897107 original size:37 final size:37
Alignment explanation
Indices: 897057--897194 Score: 231
Period size: 37 Copynumber: 3.7 Consensus size: 37
897047 GTATAACCAA
897057 TGCTGGATGACTGGGGCTGTGTATAACCAATGCTGTG
1 TGCTGGATGACTGGGGCTGTGTATAACCAATGCTGTG
897094 TGCTGGATGACTGGGGCTGTGTATAACCAATGCTGTG
1 TGCTGGATGACTGGGGCTGTGTATAACCAATGCTGTG
** * * *
897131 TGCTGGATGACTGGGGCTGAATATTACCAGTGCTGTA
1 TGCTGGATGACTGGGGCTGTGTATAACCAATGCTGTG
897168 TGCTGGATGACTGGGGCTGTGTATAAC
1 TGCTGGATGACTGGGGCTGTGTATAAC
897195 NGGCTGTACT
Statistics
Matches: 93, Mismatches: 8, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
37 93 1.00
ACGTcount: A:0.20, C:0.16, G:0.35, T:0.30
Consensus pattern (37 bp):
TGCTGGATGACTGGGGCTGTGTATAACCAATGCTGTG
Found at i:897228 original size:93 final size:92
Alignment explanation
Indices: 897110--897287 Score: 284
Period size: 93 Copynumber: 1.9 Consensus size: 92
897100 ATGACTGGGG
* *
897110 CTGTGTATAACCAATGCTGTGTGCTGGATGACTGGGGCTGAATATTACCAGTGCTGTATGCTGGA
1 CTGTATATAACCAATGCTGTGTGCTGGATGACTGGGGCTGAATATAACCAGTGCTGTATGCTGGA
897175 TGACTGGGGCTGTGTATAACNGGCTGTA
66 TGACTGGGGCTGTGTATAAC-GGCTGTA
* * ** *
897203 CTGTATATAAGCAGTGCTGTGTGCTGGATGACTGGGGCTGTGTATAACCAGTGCTGTGTGCTGGA
1 CTGTATATAACCAATGCTGTGTGCTGGATGACTGGGGCTGAATATAACCAGTGCTGTATGCTGGA
897268 TGACTGGGGCTGTGTATAAC
66 TGACTGGGGCTGTGTATAAC
897288 CAGTGCTGTG
Statistics
Matches: 78, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
93 78 1.00
ACGTcount: A:0.20, C:0.16, G:0.34, T:0.30
Consensus pattern (92 bp):
CTGTATATAACCAATGCTGTGTGCTGGATGACTGGGGCTGAATATAACCAGTGCTGTATGCTGGA
TGACTGGGGCTGTGTATAACGGCTGTA
Found at i:897255 original size:37 final size:37
Alignment explanation
Indices: 897203--897700 Score: 718
Period size: 37 Copynumber: 13.7 Consensus size: 37
897193 ACNGGCTGTA
* *
897203 CTGTATATAAGCAGTGCTGTGTGCTGGATGACTGGGG
1 CTGTGTATAACCAGTGCTGTGTGCTGGATGACTGGGG
897240 CTGTGTATAACCAGTGCTGTGTGCTGGATGACTGGGG
1 CTGTGTATAACCAGTGCTGTGTGCTGGATGACTGGGG
897277 CTGTGTATAACCAGTGCTGTGTGCTGGATGACTGGGG
1 CTGTGTATAACCAGTGCTGTGTGCTGGATGACTGGGG
897314 CTGTGTATAACCAGTGCTGTGTGCTGGATGACTGGGG
1 CTGTGTATAACCAGTGCTGTGTGCTGGATGACTGGGG
897351 CTGTGTATAACCAGTGCTGTGTGCTGGATGACTGGGG
1 CTGTGTATAACCAGTGCTGTGTGCTGGATGACTGGGG
897388 CTGTGTATAACCAGTGCTGTGTGCTGGATGACTGGGG
1 CTGTGTATAACCAGTGCTGTGTGCTGGATGACTGGGG
*
897425 CTGTATATAACCAGTGCTGTGCT-CT---TGACTGGGG
1 CTGTGTATAACCAGTGCTGTG-TGCTGGATGACTGGGG
*
897459 CTGTATATAAGGTAACCAGTGCTGTGTGCTGGATGACT-GGG
1 CTG--TGT-A--TAACCAGTGCTGTGTGCTGGATGACTGGGG
**
897500 -AATG---AACCAGTGCTGTGTGCTGGATGACTGGGG
1 CTGTGTATAACCAGTGCTGTGTGCTGGATGACTGGGG
*
897533 CTGTGTATAACCAGTGCTTTGTGCTGGATGACTGGGG
1 CTGTGTATAACCAGTGCTGTGTGCTGGATGACTGGGG
** *
897570 CTGTAAATAACCAGTGCTGTGTGCTGGATGACTGGAG
1 CTGTGTATAACCAGTGCTGTGTGCTGGATGACTGGGG
*
897607 CTGTGTATAACCAGTGCTTTGTGCTGGATGACTGGGG
1 CTGTGTATAACCAGTGCTGTGTGCTGGATGACTGGGG
*
897644 C--TG---AACCAGTGCTGTGTGCTGGATGACTGGGA
1 CTGTGTATAACCAGTGCTGTGTGCTGGATGACTGGGG
* *
897676 TTGTATATAACCAGTGCTGTGTGCT
1 CTGTGTATAACCAGTGCTGTGTGCT
897701 TACCTCTGAT
Statistics
Matches: 420, Mismatches: 21, Indels: 40
0.87 0.04 0.08
Matches are distributed among these distances:
32 52 0.12
33 3 0.01
34 15 0.04
35 2 0.00
36 3 0.01
37 318 0.76
38 3 0.01
39 16 0.04
41 3 0.01
42 5 0.01
ACGTcount: A:0.18, C:0.16, G:0.36, T:0.30
Consensus pattern (37 bp):
CTGTGTATAACCAGTGCTGTGTGCTGGATGACTGGGG
Found at i:897311 original size:130 final size:129
Alignment explanation
Indices: 897073--897324 Score: 423
Period size: 130 Copynumber: 1.9 Consensus size: 129
897063 ATGACTGGGG
*
897073 CTGTGTATAACCAATGCTGTGTGCTGGATGACTGGGGCTGTGTATAACCAATGCTGTGTGCTGGA
1 CTGTATATAACCAATGCTGTGTGCTGGATGACTGGGGCTGTGTATAACCAATGCTGTGTGCTGGA
*
897138 TGACTGGGGCTGAATATTACCAGTGCTGTATGCTGGATGACTGGGGCTGTGTATAACNGGCTGTA
66 TGACTGGGGCTGAATATAACCAGTGCTGTATGCTGGATGACTGGGGCTGTGTATAAC-GGCTGTA
* * *
897203 CTGTATATAAGCAGTGCTGTGTGCTGGATGACTGGGGCTGTGTATAACCAGTGCTGTGTGCTGGA
1 CTGTATATAACCAATGCTGTGTGCTGGATGACTGGGGCTGTGTATAACCAATGCTGTGTGCTGGA
** *
897268 TGACTGGGGCTGTGTATAACCAGTGCTGTGTGCTGGATGACTGGGGCTGTGTATAAC
66 TGACTGGGGCTGAATATAACCAGTGCTGTATGCTGGATGACTGGGGCTGTGTATAAC
897325 CAGTGCTGTG
Statistics
Matches: 114, Mismatches: 8, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
130 114 1.00
ACGTcount: A:0.19, C:0.16, G:0.35, T:0.30
Consensus pattern (129 bp):
CTGTATATAACCAATGCTGTGTGCTGGATGACTGGGGCTGTGTATAACCAATGCTGTGTGCTGGA
TGACTGGGGCTGAATATAACCAGTGCTGTATGCTGGATGACTGGGGCTGTGTATAACGGCTGTA
Found at i:897333 original size:167 final size:166
Alignment explanation
Indices: 897057--897361 Score: 547
Period size: 167 Copynumber: 1.8 Consensus size: 166
897047 GTATAACCAA
897057 TGCTGGATGACTGGGGCTGTGTATAACCAATGCTGTGTGCTGGATGACTGGGGCTGTGTATAACC
1 TGCTGGATGACTGGGGCTGTGTATAACCAATGCTGTGTGCTGGATGACTGGGGCTGTGTATAACC
*
897122 AATGCTGTGTGCTGGATGACTGGGGCTGAATATTACCAGTGCTGTATGCTGGATGACTGGGGCTG
66 AATGCTGTGTGCTGGATGACTGGGGCTGAATATAACCAGTGCTGTATGCTGGATGACTGGGGCTG
897187 TGTATAACNGGCTGTACTGTATATAAGCAGTGCTGTG
131 TGTATAAC-GGCTGTACTGTATATAAGCAGTGCTGTG
*
897224 TGCTGGATGACTGGGGCTGTGTATAACCAGTGCTGTGTGCTGGATGACTGGGGCTGTGTATAACC
1 TGCTGGATGACTGGGGCTGTGTATAACCAATGCTGTGTGCTGGATGACTGGGGCTGTGTATAACC
* ** *
897289 AGTGCTGTGTGCTGGATGACTGGGGCTGTGTATAACCAGTGCTGTGTGCTGGATGACTGGGGCTG
66 AATGCTGTGTGCTGGATGACTGGGGCTGAATATAACCAGTGCTGTATGCTGGATGACTGGGGCTG
897354 TGTATAAC
131 TGTATAAC
897362 CAGTGCTGTG
Statistics
Matches: 132, Mismatches: 6, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
167 132 1.00
ACGTcount: A:0.18, C:0.16, G:0.36, T:0.30
Consensus pattern (166 bp):
TGCTGGATGACTGGGGCTGTGTATAACCAATGCTGTGTGCTGGATGACTGGGGCTGTGTATAACC
AATGCTGTGTGCTGGATGACTGGGGCTGAATATAACCAGTGCTGTATGCTGGATGACTGGGGCTG
TGTATAACGGCTGTACTGTATATAAGCAGTGCTGTG
Found at i:897519 original size:219 final size:222
Alignment explanation
Indices: 897247--897646 Score: 698
Period size: 219 Copynumber: 1.8 Consensus size: 222
897237 GGGCTGTGTA
**
897247 TAACCAGTGCTGTGTGCTGGATGACTGGGGCTGTGTATAACCAGTGCTGTGTGCTGGATGACTGG
1 TAACCAGTGCTGTGTGCTGGATGACTGGGGCAATG--TAACCAGTGCTGTGTGCTGGATGACTGG
**
897312 GGCTGTGTATAACCAGTGCTGTGTGCTGGATGACTGGGGCTGTGTATAACCAGTGCTGTGTGCTG
64 GGCTGTGTATAACCAGTGCTGTGTGCTGGATGACTGGGGCTGTAAATAACCAGTGCTGTGTGCTG
*
897377 GATGACTGGGGCTGTGTATAACCAGTGCTGTGTGCTGGATGACTGGGGCTGTATATAACCAGTGC
129 GATGACTGGAGCTGTGTATAACCAGTGCTGTGTGCTGGATGACTGGGGCTGTATATAACCAGTGC
897442 TGTGCTCTTGACTGGGGCTGTATATAAGG
194 TGTGCTCTTGACTGGGGCTGTATATAAGG
897471 TAACCAGTGCTGTGTGCTGGATGACT-GGG-AATG-AACCAGTGCTGTGTGCTGGATGACTGGGG
1 TAACCAGTGCTGTGTGCTGGATGACTGGGGCAATGTAACCAGTGCTGTGTGCTGGATGACTGGGG
*
897533 CTGTGTATAACCAGTGCTTTGTGCTGGATGACTGGGGCTGTAAATAACCAGTGCTGTGTGCTGGA
66 CTGTGTATAACCAGTGCTGTGTGCTGGATGACTGGGGCTGTAAATAACCAGTGCTGTGTGCTGGA
*
897598 TGACTGGAGCTGTGTATAACCAGTGCTTTGTGCTGGATGACTGGGGCTG
131 TGACTGGAGCTGTGTATAACCAGTGCTGTGTGCTGGATGACTGGGGCTG
897647 AACCAGTGCT
Statistics
Matches: 169, Mismatches: 7, Indels: 5
0.93 0.04 0.03
Matches are distributed among these distances:
219 138 0.82
222 2 0.01
223 3 0.02
224 26 0.15
ACGTcount: A:0.18, C:0.17, G:0.36, T:0.29
Consensus pattern (222 bp):
TAACCAGTGCTGTGTGCTGGATGACTGGGGCAATGTAACCAGTGCTGTGTGCTGGATGACTGGGG
CTGTGTATAACCAGTGCTGTGTGCTGGATGACTGGGGCTGTAAATAACCAGTGCTGTGTGCTGGA
TGACTGGAGCTGTGTATAACCAGTGCTGTGTGCTGGATGACTGGGGCTGTATATAACCAGTGCTG
TGCTCTTGACTGGGGCTGTATATAAGG
Found at i:899460 original size:72 final size:67
Alignment explanation
Indices: 899347--899483 Score: 229
Period size: 72 Copynumber: 2.0 Consensus size: 67
899337 TTAGCCAGGT
899347 CAGCACCATCCAGATAATTAATGGTGATTGTACACTGTATAATGAAGTCATATCAGTCAGATCAT
1 CAGCACCATCCAGATAATTAATGGTGATTGTACACTGTATAATGAAGTCATATCAGTCAGATCAT
899412 GA
66 GA
899414 CAGCACCATCCAGATAATTATACTGCCGGTGATTGTACACTGTATAATGAAGTCATATCAGTCAG
1 CAGCACCATCCAGATAATTA-A-T---GGTGATTGTACACTGTATAATGAAGTCATATCAGTCAG
899479 ATCAT
61 ATCAT
899484 CATCAATATT
Statistics
Matches: 65, Mismatches: 0, Indels: 5
0.93 0.00 0.07
Matches are distributed among these distances:
67 20 0.31
68 1 0.02
69 1 0.02
72 43 0.66
ACGTcount: A:0.34, C:0.20, G:0.18, T:0.28
Consensus pattern (67 bp):
CAGCACCATCCAGATAATTAATGGTGATTGTACACTGTATAATGAAGTCATATCAGTCAGATCAT
GA
Found at i:908845 original size:18 final size:18
Alignment explanation
Indices: 908818--908853 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
908808 GCTCAGTGGG
*
908818 TGAACTCTTTAGCTCAGT
1 TGAACCCTTTAGCTCAGT
908836 TGAACCCTTTAGCTCAGT
1 TGAACCCTTTAGCTCAGT
908854 CAGTAGAGCG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.22, C:0.25, G:0.17, T:0.36
Consensus pattern (18 bp):
TGAACCCTTTAGCTCAGT
Found at i:912261 original size:76 final size:76
Alignment explanation
Indices: 912130--912504 Score: 687
Period size: 76 Copynumber: 4.9 Consensus size: 76
912120 GATATGCTGG
* *
912130 GGATATTGGTAATAGAAGCACTCCTTCTTCAAGTCCTGACTGATTGTTACCAAGGAAGTTGTGGG
1 GGATGTTGGTAATAGAAGCACTCCTTCTTCAAGTCCTGACTCATTGTTACCAAGGAAGTTGTGGG
912195 ATCACCTTGTA
66 ATCACCTTGTA
912206 GGATGTTGGTAATAGAAGCACTCCTTCTTCAAGTCCTGACTCATTGTTACCAAGGAAGTTGTGGG
1 GGATGTTGGTAATAGAAGCACTCCTTCTTCAAGTCCTGACTCATTGTTACCAAGGAAGTTGTGGG
* *
912271 ATCACCTTTTG
66 ATCACCTTGTA
*
912282 GGATGTTGGTAATAGAAGCACTCCTTCTTCAAGTCCTGACTCATTGTTACCAAAGAAGTTGTGGG
1 GGATGTTGGTAATAGAAGCACTCCTTCTTCAAGTCCTGACTCATTGTTACCAAGGAAGTTGTGGG
912347 ATCACCTTGTA
66 ATCACCTTGTA
*
912358 GGATGTTGGTAATAGAAGCACTCCTTCTTCAAGTCCTGACTCATTGTTACCAAAGAAGTTGTGGG
1 GGATGTTGGTAATAGAAGCACTCCTTCTTCAAGTCCTGACTCATTGTTACCAAGGAAGTTGTGGG
912423 ATCACCTTGTA
66 ATCACCTTGTA
*
912434 GGATGTTGGTAATAGAAGCACTCATTCTTCAAGTCCTGACTCATTGTTACCAAGGAAGTTGTGGG
1 GGATGTTGGTAATAGAAGCACTCCTTCTTCAAGTCCTGACTCATTGTTACCAAGGAAGTTGTGGG
912499 ATCACC
66 ATCACC
912505 CTTTTTTACC
Statistics
Matches: 290, Mismatches: 9, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
76 290 1.00
ACGTcount: A:0.26, C:0.19, G:0.23, T:0.31
Consensus pattern (76 bp):
GGATGTTGGTAATAGAAGCACTCCTTCTTCAAGTCCTGACTCATTGTTACCAAGGAAGTTGTGGG
ATCACCTTGTA
Found at i:916255 original size:20 final size:20
Alignment explanation
Indices: 916203--916263 Score: 88
Period size: 20 Copynumber: 3.0 Consensus size: 20
916193 ATTTATAACA
* *
916203 ATTCGTAAATTC-CCAAATC
1 ATTCGTAAATTCTCTAATTC
916222 TATTCGTAAATTCTCTAATTC
1 -ATTCGTAAATTCTCTAATTC
916243 ATTCGTAAATTCTCTAATTC
1 ATTCGTAAATTCTCTAATTC
916263 A
1 A
916264 ATATTAGATA
Statistics
Matches: 38, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
20 33 0.87
21 5 0.13
ACGTcount: A:0.33, C:0.21, G:0.05, T:0.41
Consensus pattern (20 bp):
ATTCGTAAATTCTCTAATTC
Found at i:918743 original size:2 final size:2
Alignment explanation
Indices: 918736--918780 Score: 90
Period size: 2 Copynumber: 22.5 Consensus size: 2
918726 NNNNNNNNNN
918736 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
918778 AG A
1 AG A
918781 TATTGTACTT
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 43 1.00
ACGTcount: A:0.51, C:0.00, G:0.49, T:0.00
Consensus pattern (2 bp):
AG
Found at i:921004 original size:34 final size:34
Alignment explanation
Indices: 920906--921021 Score: 139
Period size: 34 Copynumber: 3.4 Consensus size: 34
920896 TTGTAGGATA
* * **
920906 ACCCTAGATCAATTGATAAAGAACTTATATCGTT
1 ACCCTAGTTCAATTAATAAAGAACTTATAGAGTT
*
920940 ACCCTAGATT--A-TAGAGAAAGAACTTATAGAGTT
1 ACCCTAG-TTCAATTA-ATAAAGAACTTATAGAGTT
*
920973 ACCCTAGTTCAATTAATAAAGAACTTGTAGAGTT
1 ACCCTAGTTCAATTAATAAAGAACTTATAGAGTT
921007 ACCCTAGTTCAATTA
1 ACCCTAGTTCAATTA
921022 GAACCATTTT
Statistics
Matches: 70, Mismatches: 7, Indels: 10
0.80 0.08 0.11
Matches are distributed among these distances:
32 3 0.04
33 24 0.34
34 40 0.57
35 3 0.04
ACGTcount: A:0.39, C:0.16, G:0.14, T:0.31
Consensus pattern (34 bp):
ACCCTAGTTCAATTAATAAAGAACTTATAGAGTT
Found at i:921316 original size:34 final size:34
Alignment explanation
Indices: 921271--921536 Score: 383
Period size: 34 Copynumber: 7.8 Consensus size: 34
921261 AAAAAGGTTC
* * *
921271 TAATAAAGAACTTGAAGAGTTACCCTAATTAAAT
1 TAATAAAGAACTTGTAGAGTTACCCTAGTTCAAT
* *
921305 TCATAAAGAACTTGTAGAGTTACCCTAATTCAAT
1 TAATAAAGAACTTGTAGAGTTACCCTAGTTCAAT
921339 TAATAAAGAACTTGTAGAGTTACCCTAGTTCAAT
1 TAATAAAGAACTTGTAGAGTTACCCTAGTTCAAT
921373 TAATAAAGAACTTGTAGAGTTACCCTAGTTCAAT
1 TAATAAAGAACTTGTAGAGTTACCCTAGTTCAAT
* *
921407 TAATAAAGAACTTGTCGAGTTACCCTAGTTCAAC
1 TAATAAAGAACTTGTAGAGTTACCCTAGTTCAAT
*
921441 TAATAAAGAACTTGTCGAGTTACCCTAGTTCAAT
1 TAATAAAGAACTTGTAGAGTTACCCTAGTTCAAT
* * *
921475 TAATAAAGAACTTGTCGAGTTACCCTA-TAACAAC
1 TAATAAAGAACTTGTAGAGTTACCCTAGT-TCAAT
* *
921509 TGATATAA-AACTTGTAGATTTACCCTAG
1 TAATA-AAGAACTTGTAGAGTTACCCTAG
921537 ATCCGCGATG
Statistics
Matches: 216, Mismatches: 13, Indels: 5
0.92 0.06 0.02
Matches are distributed among these distances:
33 1 0.00
34 213 0.99
35 2 0.01
ACGTcount: A:0.39, C:0.17, G:0.14, T:0.31
Consensus pattern (34 bp):
TAATAAAGAACTTGTAGAGTTACCCTAGTTCAAT
Found at i:921723 original size:17 final size:17
Alignment explanation
Indices: 921698--921735 Score: 67
Period size: 17 Copynumber: 2.2 Consensus size: 17
921688 CTCTGTAAAT
*
921698 GTACGTCACAAAGATTA
1 GTACATCACAAAGATTA
921715 GTACATCACAAAGATTA
1 GTACATCACAAAGATTA
921732 GTAC
1 GTAC
921736 CGTATATACT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.42, C:0.18, G:0.16, T:0.24
Consensus pattern (17 bp):
GTACATCACAAAGATTA
Found at i:923412 original size:66 final size:64
Alignment explanation
Indices: 923295--923420 Score: 153
Period size: 66 Copynumber: 1.9 Consensus size: 64
923285 ATAACGACAC
* * * *
923295 CTGTCTACCTCTTACTCCCCCAAAAACCCTTAGTAAGCTCCAAGACTATATCCAATATAAACAT
1 CTGTCTACCTCTCACTCCCCCAAAAACCCTTAGTAAGCTCCAACACAATATCAAATATAAACAT
* ** * *
923359 CTGTCTATCTCTCACTCCCCCATACACTCCCTTGGTAAGCTCCTACACAATATCAAATATAA
1 CTGTCTACCTCTCACTCCCCCA-A-AAACCCTTAGTAAGCTCCAACACAATATCAAATATAA
923421 CCCAAGCGTC
Statistics
Matches: 51, Mismatches: 9, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
64 20 0.39
65 1 0.02
66 30 0.59
ACGTcount: A:0.32, C:0.34, G:0.06, T:0.28
Consensus pattern (64 bp):
CTGTCTACCTCTCACTCCCCCAAAAACCCTTAGTAAGCTCCAACACAATATCAAATATAAACAT
Found at i:924341 original size:20 final size:20
Alignment explanation
Indices: 924316--926105 Score: 2466
Period size: 20 Copynumber: 90.5 Consensus size: 20
924306 ACAGTGAGGG
*
924316 TCAGTGTGTGTCAAAACATC
1 TCAGTGTGTGTCACAACATC
*
924336 TCAGTGTGTGTCACTACATC
1 TCAGTGTGTGTCACAACATC
*
924356 TCAGTGTGTGTCACTACATC
1 TCAGTGTGTGTCACAACATC
*
924376 TCAGTGTGTGTCACAATATC
1 TCAGTGTGTGTCACAACATC
*
924396 TCAGTGTGTGTCACTACATC
1 TCAGTGTGTGTCACAACATC
* *
924416 TCGGTGTGCGTCACAACATC
1 TCAGTGTGTGTCACAACATC
* * **
924436 TCGGTGTGTGTCAC-TCAGA
1 TCAGTGTGTGTCACAACATC
*
924455 TCAGTGTGTGTCACTACATC
1 TCAGTGTGTGTCACAACATC
* *
924475 TCAGTGTGCGTCACAACATT
1 TCAGTGTGTGTCACAACATC
*
924495 TCAGTGTGTGTCACAATATC
1 TCAGTGTGTGTCACAACATC
* *
924515 TCAGTGTGTGTCACTACATA
1 TCAGTGTGTGTCACAACATC
*
924535 TCAGTGTGTGTCACTACATC
1 TCAGTGTGTGTCACAACATC
* *
924555 TCAGTGTGCGTCACAACATT
1 TCAGTGTGTGTCACAACATC
* *
924575 TCAGTGTGCGTCACAATATC
1 TCAGTGTGTGTCACAACATC
* *
924595 TCAGTGTGTGTCACTACATA
1 TCAGTGTGTGTCACAACATC
*
924615 TCAGTGTGTGTCACGACATC
1 TCAGTGTGTGTCACAACATC
924635 TCAGTGTGT-T-ACAACATC
1 TCAGTGTGTGTCACAACATC
*
924653 TCAGTGTGT-T-ACAACATA
1 TCAGTGTGTGTCACAACATC
* *
924671 TCAGTGTATGTCACTACATC
1 TCAGTGTGTGTCACAACATC
*
924691 TCAGTGTGTGTCACTACATC
1 TCAGTGTGTGTCACAACATC
*
924711 TCAGTGTGTGTCACTACATC
1 TCAGTGTGTGTCACAACATC
*
924731 TCAGTGTGT-T-ACAACATA
1 TCAGTGTGTGTCACAACATC
* *
924749 TCAGTGTATGTCACTACATC
1 TCAGTGTGTGTCACAACATC
*
924769 TCAGTGTGTGTCACTACATC
1 TCAGTGTGTGTCACAACATC
*
924789 TCAGTGTGTGTCACTACATC
1 TCAGTGTGTGTCACAACATC
*
924809 TCA--GTGTGTCACTACATC
1 TCAGTGTGTGTCACAACATC
924827 TCAGTGTGT-T-ACAACATC
1 TCAGTGTGTGTCACAACATC
924845 TCAGTGTGTGT--C-ACATC
1 TCAGTGTGTGTCACAACATC
*
924862 TCAGTGTGTGTCACAGCATC
1 TCAGTGTGTGTCACAACATC
*
924882 TCAGTGTGTGTCACAATATC
1 TCAGTGTGTGTCACAACATC
*
924902 TCAGTGTGTGTCACAACATA
1 TCAGTGTGTGTCACAACATC
*
924922 TCAGTGTGTGTCACAATATC
1 TCAGTGTGTGTCACAACATC
*
924942 TCAGTGTGTGTCACAACATA
1 TCAGTGTGTGTCACAACATC
*
924962 TCAGTGTGTGTCACAATATC
1 TCAGTGTGTGTCACAACATC
*
924982 TCAGTGTGTGTCACTACATC
1 TCAGTGTGTGTCACAACATC
* *
925002 TCAGTGTGCGTCACAACATA
1 TCAGTGTGTGTCACAACATC
*
925022 TCAGTGTGTGTCACAATATC
1 TCAGTGTGTGTCACAACATC
*
925042 TCAGTGTGTGTCACAACATA
1 TCAGTGTGTGTCACAACATC
* *
925062 TCAGTGTATGTCACTACATC
1 TCAGTGTGTGTCACAACATC
*
925082 TCAGTGTGTGTCACAACATT
1 TCAGTGTGTGTCACAACATC
* *
925102 TCAGTGTGCGTCACAATATC
1 TCAGTGTGTGTCACAACATC
* *
925122 TCAGTGTGTGTCACTACATA
1 TCAGTGTGTGTCACAACATC
* *
925142 TTAGTGTGTGTCACTACATC
1 TCAGTGTGTGTCACAACATC
* *
925162 TCAGTGTGCGTCACAACATT
1 TCAGTGTGTGTCACAACATC
*
925182 TCAGTGTGTGTCACAATATC
1 TCAGTGTGTGTCACAACATC
*
925202 TCAGTGTGTGTCACAACATA
1 TCAGTGTGTGTCACAACATC
*
925222 TCAGTGTGTGTCACTACATC
1 TCAGTGTGTGTCACAACATC
*
925242 TCAGTGTGTGTCACTACATC
1 TCAGTGTGTGTCACAACATC
* *
925262 TCAGTGTGTGTCACTACATA
1 TCAGTGTGTGTCACAACATC
*
925282 TCAGTGTGTGTCACGACATC
1 TCAGTGTGTGTCACAACATC
*
925302 TCAGTGTGTGTCACTACATC
1 TCAGTGTGTGTCACAACATC
*
925322 TCAGTGTGTGTCACTACATC
1 TCAGTGTGTGTCACAACATC
*
925342 TCAGTGTGTGTCACTACATC
1 TCAGTGTGTGTCACAACATC
*
925362 TCAGTGTGTGTCACAATATC
1 TCAGTGTGTGTCACAACATC
*
925382 TCAGTGTGTGTCACAACATA
1 TCAGTGTGTGTCACAACATC
* *
925402 TCAGTGTGTGTCACAATATA
1 TCAGTGTGTGTCACAACATC
*
925422 TCAGTGTGTGTCACAACATA
1 TCAGTGTGTGTCACAACATC
*
925442 TCAGTGTGTGTCACAATATC
1 TCAGTGTGTGTCACAACATC
*
925462 TCAGTGTGTGTCACTACATC
1 TCAGTGTGTGTCACAACATC
*
925482 TCAGTGTGTGTCACAACATA
1 TCAGTGTGTGTCACAACATC
*
925502 TCAGTGTGTGTCACAATATC
1 TCAGTGTGTGTCACAACATC
*
925522 TCAGTGTGTGTCACAACATA
1 TCAGTGTGTGTCACAACATC
*
925542 TCAGTGTGTGTCACAATATC
1 TCAGTGTGTGTCACAACATC
925562 TCAGTGTGTGTCACAACATC
1 TCAGTGTGTGTCACAACATC
*
925582 TCAGTGTGTGTCACAACATA
1 TCAGTGTGTGTCACAACATC
*
925602 TCAGTGTGTGTCACAATATC
1 TCAGTGTGTGTCACAACATC
*
925622 TCAGTGTGTGTCACTACATC
1 TCAGTGTGTGTCACAACATC
*
925642 TCAGTGTGTGTCACAACATA
1 TCAGTGTGTGTCACAACATC
*
925662 TCAGTGTGTGTCACAATATC
1 TCAGTGTGTGTCACAACATC
925682 TCAGTGTGTGTCACAACATC
1 TCAGTGTGTGTCACAACATC
*
925702 TCAGTGTGTGTCACTACATC
1 TCAGTGTGTGTCACAACATC
*
925722 TCAGTGTGTGTCACAACATA
1 TCAGTGTGTGTCACAACATC
*
925742 TCAGTGTGTGTCACAATATC
1 TCAGTGTGTGTCACAACATC
*
925762 TCAGTGTGTGTCACAACATA
1 TCAGTGTGTGTCACAACATC
*
925782 TCAGTGTGTGTCACAATATC
1 TCAGTGTGTGTCACAACATC
*
925802 TCAGTGTGTGTCACTACATC
1 TCAGTGTGTGTCACAACATC
*
925822 TCAGTGTGTGTCACTACATC
1 TCAGTGTGTGTCACAACATC
*
925842 TCAGTGTGTGTCACTACATC
1 TCAGTGTGTGTCACAACATC
*
925862 TCAGTGTGTGTCACAATATC
1 TCAGTGTGTGTCACAACATC
* *
925882 TCAGTGTGTGTCACTATATC
1 TCAGTGTGTGTCACAACATC
* *
925902 TCGGT-TGTGTTACAACATC
1 TCAGTGTGTGTCACAACATC
**
925921 TCAGTGTGTGTCATGACATC
1 TCAGTGTGTGTCACAACATC
*
925941 TCAGTGTGTGGCACAACATC
1 TCAGTGTGTGTCACAACATC
* *
925961 TGAGTGTGTGTCACTACATC
1 TCAGTGTGTGTCACAACATC
* *
925981 TCAGTGTGTGTCACTACATA
1 TCAGTGTGTGTCACAACATC
*
926001 TCAGTGTGTGTCACGACATC
1 TCAGTGTGTGTCACAACATC
926021 TCAGTGTGT-T-ACAACATC
1 TCAGTGTGTGTCACAACATC
*
926039 TCAGTGTGT-T-ACAACATA
1 TCAGTGTGTGTCACAACATC
* *
926057 TCAGTGTATGTCACTACATC
1 TCAGTGTGTGTCACAACATC
*
926077 TCAGTGTGTGTCACTACATC
1 TCAGTGTGTGTCACAACATC
926097 TCAGTGTGT
1 TCAGTGTGT
926106 ACATAGATAA
Statistics
Matches: 1587, Mismatches: 169, Indels: 28
0.89 0.09 0.02
Matches are distributed among these distances:
17 16 0.01
18 113 0.07
19 39 0.02
20 1419 0.89
ACGTcount: A:0.24, C:0.22, G:0.20, T:0.33
Consensus pattern (20 bp):
TCAGTGTGTGTCACAACATC
Found at i:936075 original size:180 final size:180
Alignment explanation
Indices: 935773--936125 Score: 528
Period size: 180 Copynumber: 2.0 Consensus size: 180
935763 AAAGTACCTC
* *
935773 ATATGCAATATTTTGCTAAAAAAAGACTAAGTTCAAAAGCTGGTATTTTTTTCATAAATAATCAG
1 ATATGCAATATTTTGCTAAAAAAAGACTAACTTCAAAAGCTGGTATTTTTTTCACAAATAATCAG
* *
935838 AAATAAAAATCCTAAAAATGTTCACACCTCTGATACATGTACAATTAATCTGCAAAAGAACAACT
66 AAATAAAAATCCTAAAAATATGCACACCTCTGATACATGTACAATTAATCTGCAAAAGAACAACT
* * *
935903 TTTTATCTAT-AAAACTGTAGGAATAGTTATCCGTACAATGAGGTAACCCT
131 TCTTATCT-TGAAAACTGTAAGAAGAGTTATCCGTACAATGAGGTAACCCT
** *
935953 ATATGCAATATTTTGCTAAAAATTGACTAACTTCAAAAGCTGGTATTTTTTTCACAAATTATCAG
1 ATATGCAATATTTTGCTAAAAAAAGACTAACTTCAAAAGCTGGTATTTTTTTCACAAATAATCAG
* * ** * * *
936018 TAATCAAAATCCTAGCAATATGCACACCTCTGATATATGTATAATTGATCTGCAAAAGAACAACT
66 AAATAAAAATCCTAAAAATATGCACACCTCTGATACATGTACAATTAATCTGCAAAAGAACAACT
*
936083 TCTTATCTTGAAAACTGTAAGAGGAGTTATCCGTACAATGAGG
131 TCTTATCTTGAAAACTGTAAGAAGAGTTATCCGTACAATGAGG
936126 GTACGCTATA
Statistics
Matches: 154, Mismatches: 18, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
179 1 0.01
180 153 0.99
ACGTcount: A:0.40, C:0.16, G:0.13, T:0.32
Consensus pattern (180 bp):
ATATGCAATATTTTGCTAAAAAAAGACTAACTTCAAAAGCTGGTATTTTTTTCACAAATAATCAG
AAATAAAAATCCTAAAAATATGCACACCTCTGATACATGTACAATTAATCTGCAAAAGAACAACT
TCTTATCTTGAAAACTGTAAGAAGAGTTATCCGTACAATGAGGTAACCCT
Found at i:936627 original size:180 final size:180
Alignment explanation
Indices: 936210--936774 Score: 927
Period size: 180 Copynumber: 3.1 Consensus size: 180
936200 TACAAGCAAT
* * * * *
936210 TTTTTTTCATAAATTATC-AGTAACCAAACTCCTAGCAATAAGCACACCTCTGATATATGTATAA
1 TTTTTTTCATAAATTATCGA-AAATCAAAATCCTAGCAATATGCATACCTCTGATATATGTATAA
* * * * *
936274 CTGATCTGCAAAAGAAAAATTTCCTATCTTGAGAACTGTAGGAGGAGTTATCCGTACAATGAGGG
65 CTGATCTGCAAAAGAACAACTTCCTATTTTGAAAACTGTAGGAGGACTTATCCGTACAATGAGGG
*
936339 TACCCTATATGCAATATTTTGCC-AAAAATGACTAAGTTCAAAAGCTGGTA
130 TACCCTATATGCAATATTTTGCCAAAAAATGACAAAGTTCAAAAGCTGGTA
* * *
936389 TTTTTTTCATAAATTATCGAAAATCAAAATCCTAACAATATGCATACCTCTGATATATGTGTAAT
1 TTTTTTTCATAAATTATCGAAAATCAAAATCCTAGCAATATGCATACCTCTGATATATGTATAAC
*
936454 TGATCTGCAAAAGAACAACTTCCTGTTTTGAAAACTGTAGGAGGACTTATCCGTACAATGAGGGT
66 TGATCTGCAAAAGAACAACTTCCTATTTTGAAAACTGTAGGAGGACTTATCCGTACAATGAGGGT
936519 ACCCTATATGCAATATTTTGCCAAAAAATGACAAAGTTCAAAAGCTGGTA
131 ACCCTATATGCAATATTTTGCCAAAAAATGACAAAGTTCAAAAGCTGGTA
936569 TTTTTTTCATAAATTATCGAAAATCAAAATCCTAGCAATATGCATACCTCTGATATATGTATAAC
1 TTTTTTTCATAAATTATCGAAAATCAAAATCCTAGCAATATGCATACCTCTGATATATGTATAAC
936634 TGATCTGCAAAAGAACAACTTCCTATTTTGAAAACTGTAGGAGGACTTATCCGTACAATGAGGGT
66 TGATCTGCAAAAGAACAACTTCCTATTTTGAAAACTGTAGGAGGACTTATCCGTACAATGAGGGT
*
936699 ACCCTATATGCAATATTTTGCCAAAAAATGACCAAGTTCAAAAGCTGGTA
131 ACCCTATATGCAATATTTTGCCAAAAAATGACAAAGTTCAAAAGCTGGTA
*
936749 TTTTGTTTTCCATAAATTATCAAAAA
1 -TTT-TTTT-CATAAATTATCGAAAA
936775 AAAAATTTTT
Statistics
Matches: 360, Mismatches: 21, Indels: 6
0.93 0.05 0.02
Matches are distributed among these distances:
179 136 0.38
180 202 0.56
181 3 0.01
182 4 0.01
183 15 0.04
ACGTcount: A:0.37, C:0.17, G:0.15, T:0.31
Consensus pattern (180 bp):
TTTTTTTCATAAATTATCGAAAATCAAAATCCTAGCAATATGCATACCTCTGATATATGTATAAC
TGATCTGCAAAAGAACAACTTCCTATTTTGAAAACTGTAGGAGGACTTATCCGTACAATGAGGGT
ACCCTATATGCAATATTTTGCCAAAAAATGACAAAGTTCAAAAGCTGGTA
Found at i:939053 original size:21 final size:21
Alignment explanation
Indices: 939027--939066 Score: 64
Period size: 21 Copynumber: 1.9 Consensus size: 21
939017 AAGCATGATC
939027 ACATGCTAACAATT-CTTAACA
1 ACATGCTAA-AATTACTTAACA
939048 ACATGCTAAAATTACTTAA
1 ACATGCTAAAATTACTTAA
939067 ACAGGCTGTT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 4 0.22
21 14 0.78
ACGTcount: A:0.45, C:0.20, G:0.05, T:0.30
Consensus pattern (21 bp):
ACATGCTAAAATTACTTAACA
Found at i:939336 original size:20 final size:21
Alignment explanation
Indices: 939311--939353 Score: 70
Period size: 20 Copynumber: 2.1 Consensus size: 21
939301 GAAGTTATAT
*
939311 TGAAGTGTCTGTGCAAA-GTG
1 TGAAGTGTCAGTGCAAAGGTG
939331 TGAAGTGTCAGTGCAAAGGTG
1 TGAAGTGTCAGTGCAAAGGTG
939352 TG
1 TG
939354 TTGTGCCATC
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
20 16 0.76
21 5 0.24
ACGTcount: A:0.26, C:0.09, G:0.37, T:0.28
Consensus pattern (21 bp):
TGAAGTGTCAGTGCAAAGGTG
Found at i:944517 original size:31 final size:31
Alignment explanation
Indices: 944476--944957 Score: 528
Period size: 31 Copynumber: 15.6 Consensus size: 31
944466 AACAAGCCTT
* *
944476 GCACTGACAGAACTTCAAATAGCATGTCGTC
1 GCACTAACAGAACTTCACATAGCATGTCGTC
944507 GCACTAACAGAACTTCACATAGCATGTCGTC
1 GCACTAACAGAACTTCACATAGCATGTCGTC
*
944538 GCACTAACAGAACATCACATAGCATGTCGTC
1 GCACTAACAGAACTTCACATAGCATGTCGTC
*
944569 GCACTAACAGAACTTCCCATAGCATGTCG-C
1 GCACTAACAGAACTTCACATAGCATGTCGTC
** * *
944599 AGCTGTTAACAGAACTTCACAAAGCATGTCGCC
1 -GC-ACTAACAGAACTTCACATAGCATGTCGTC
* * * *
944632 ACACTAAAAGAACTTCACATAACATGTCGCC
1 GCACTAACAGAACTTCACATAGCATGTCGTC
* * * *
944663 ACACTAAAAGAACTTCACATAACATGTCGTT
1 GCACTAACAGAACTTCACATAGCATGTCGTC
* * *
944694 ACACTAACAGAACTTCACATAGTATGTCGTT
1 GCACTAACAGAACTTCACATAGCATGTCGTC
* *
944725 G-ACTAACAGAACTTCACATAGCATGTTGTT
1 GCACTAACAGAACTTCACATAGCATGTCGTC
* *
944755 GCACTAACAGAACTTCACATAACATGTCGTT
1 GCACTAACAGAACTTCACATAGCATGTCGTC
* *
944786 GCACTAAAAGAACTTCACATAGCATGAT-GTA
1 GCACTAACAGAACTTCACATAGCATG-TCGTC
* * * *
944817 GCACTAACAGAACTTCATAAAGCATGTCTTT
1 GCACTAACAGAACTTCACATAGCATGTCGTC
* * * *
944848 TCACTAACA-AATCATCACACAACATGT--T-
1 GCACTAACAGAA-CTTCACATAGCATGTCGTC
* *
944876 GCACTACCAGAACTTCACATAGCATGTTGTC
1 GCACTAACAGAACTTCACATAGCATGTCGTC
* **
944907 GCACTAAAATTACTTCACATAGCATGTCGTC
1 GCACTAACAGAACTTCACATAGCATGTCGTC
*
944938 GCACAAACAGAACTTCACAT
1 GCACTAACAGAACTTCACAT
944958 TATATATATA
Statistics
Matches: 388, Mismatches: 52, Indels: 22
0.84 0.11 0.05
Matches are distributed among these distances:
28 19 0.05
29 3 0.01
30 33 0.09
31 307 0.79
32 25 0.06
33 1 0.00
ACGTcount: A:0.36, C:0.26, G:0.14, T:0.24
Consensus pattern (31 bp):
GCACTAACAGAACTTCACATAGCATGTCGTC
Found at i:944791 original size:123 final size:124
Alignment explanation
Indices: 944482--944957 Score: 536
Period size: 123 Copynumber: 3.9 Consensus size: 124
944472 CCTTGCACTG
* * *
944482 ACAGAACTTCAAATAGCATGTCGTCGCACTAACAGAACTTCACATAGCATGTCGTCGCACTAACA
1 ACAGAACTTCACATAGCATGTCGTCGCACTAACAGAACTTCACATAACATGTCGTCGCACTAAAA
* * * * *
944547 GAACATCACATAGCATGTCGTCGCACTAACAGAACTTCCCATAGCATGTCGCAGCTG-TTA
66 GAACTTCACATAGCATGTCGTCACACTAACAGAACTTCACATAGCATGT--CAGTTGACTA
* * * * * *
944607 ACAGAACTTCACAAAGCATGTCGCCACACTAAAAGAACTTCACATAACATGTCGCCACACTAAAA
1 ACAGAACTTCACATAGCATGTCGTCGCACTAACAGAACTTCACATAACATGTCGTCGCACTAAAA
* * *
944672 GAACTTCACATAACATGTCGTTACACTAACAGAACTTCACATAGTATGTC-GTTGACTA
66 GAACTTCACATAGCATGTCGTCACACTAACAGAACTTCACATAGCATGTCAGTTGACTA
* * *
944730 ACAGAACTTCACATAGCATGTTGTTGCACTAACAGAACTTCACATAACATGTCGTTGCACTAAAA
1 ACAGAACTTCACATAGCATGTCGTCGCACTAACAGAACTTCACATAACATGTCGTCGCACTAAAA
* * ** *
944795 GAACTTCACATAGCATGAT-GT-AGCACTAACAGAACTTCATAAAGCATGTCTTTTCACTA
66 GAACTTCACATAGCATG-TCGTCA-CACTAACAGAACTTCACATAGCATGTCAGTTGACTA
* * * * * *
944854 ACA-AATCATCACACAACATGT--T-GCACTACCAGAACTTCACATAGCATGTTGTCGCACTAAA
1 ACAGAA-CTTCACATAGCATGTCGTCGCACTAACAGAACTTCACATAACATGTCGTCGCACTAAA
** * *
944915 ATTACTTCACATAGCATGTCGTCGCACAAACAGAACTTCACAT
65 AGAACTTCACATAGCATGTCGTCACACTAACAGAACTTCACAT
944958 TATATATATA
Statistics
Matches: 299, Mismatches: 45, Indels: 18
0.83 0.12 0.05
Matches are distributed among these distances:
120 1 0.00
121 69 0.23
122 5 0.02
123 103 0.34
124 22 0.07
125 99 0.33
ACGTcount: A:0.36, C:0.26, G:0.14, T:0.24
Consensus pattern (124 bp):
ACAGAACTTCACATAGCATGTCGTCGCACTAACAGAACTTCACATAACATGTCGTCGCACTAAAA
GAACTTCACATAGCATGTCGTCACACTAACAGAACTTCACATAGCATGTCAGTTGACTA
Found at i:945318 original size:31 final size:31
Alignment explanation
Indices: 945283--945369 Score: 92
Period size: 28 Copynumber: 2.9 Consensus size: 31
945273 CATCATATGG
*
945283 CATGTTGTCGCACTTACAAAACTTCACAAAA
1 CATGTTGTCGCACTTACAGAACTTCACAAAA
*
945314 CATG-T-T-GCAC-TACCAGAACTTCACATAA
1 CATGTTGTCGCACTTA-CAGAACTTCACAAAA
* * *
945342 CACGTCGTCGCACTAACAGAACTTCACA
1 CATGTTGTCGCACTTACAGAACTTCACA
945370 TAGCATGTCG
Statistics
Matches: 46, Mismatches: 5, Indels: 10
0.75 0.08 0.16
Matches are distributed among these distances:
27 2 0.04
28 20 0.43
29 1 0.02
30 2 0.04
31 20 0.43
32 1 0.02
ACGTcount: A:0.36, C:0.30, G:0.11, T:0.23
Consensus pattern (31 bp):
CATGTTGTCGCACTTACAGAACTTCACAAAA
Found at i:945370 original size:31 final size:31
Alignment explanation
Indices: 945289--945380 Score: 100
Period size: 31 Copynumber: 3.1 Consensus size: 31
945279 ATGGCATGTT
* * *
945289 GTCGCACTTACAAAACTTCACA-AA-ACAT-
1 GTCGCACTAACAGAACTTCACATAACACGTC
* *
945317 GTTGCACTACCAGAACTTCACATAACACGTC
1 GTCGCACTAACAGAACTTCACATAACACGTC
* *
945348 GTCGCACTAACAGAACTTCACATAGCATGTC
1 GTCGCACTAACAGAACTTCACATAACACGTC
945379 GT
1 GT
945381 TTTCAAATAA
Statistics
Matches: 52, Mismatches: 9, Indels: 3
0.81 0.14 0.05
Matches are distributed among these distances:
28 18 0.35
29 2 0.04
30 3 0.06
31 29 0.56
ACGTcount: A:0.35, C:0.29, G:0.13, T:0.23
Consensus pattern (31 bp):
GTCGCACTAACAGAACTTCACATAACACGTC
Found at i:947881 original size:21 final size:21
Alignment explanation
Indices: 947855--947922 Score: 109
Period size: 21 Copynumber: 3.2 Consensus size: 21
947845 GCAAGAAACT
*
947855 TTTCGTGTTAACCGTTTAGCG
1 TTTCGTGTAAACCGTTTAGCG
* *
947876 TTTCGTGTGAATCGTTTAGCG
1 TTTCGTGTAAACCGTTTAGCG
947897 TTTCGTGTAAACCGTTTAGCG
1 TTTCGTGTAAACCGTTTAGCG
947918 TTTCG
1 TTTCG
947923 GACAAAGCGT
Statistics
Matches: 43, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 43 1.00
ACGTcount: A:0.15, C:0.18, G:0.25, T:0.43
Consensus pattern (21 bp):
TTTCGTGTAAACCGTTTAGCG
Found at i:951668 original size:23 final size:22
Alignment explanation
Indices: 951627--951669 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
951617 TCATAATATT
*
951627 ATGTAATGGGTTCACAAAATAC
1 ATGTAATGGGTTCAAAAAATAC
*
951649 ATGTAATGGGTTTTAAAAAAT
1 ATGTAATGGG-TTCAAAAAAT
951670 CAATGATGAT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 10 0.56
23 8 0.44
ACGTcount: A:0.42, C:0.07, G:0.19, T:0.33
Consensus pattern (22 bp):
ATGTAATGGGTTCAAAAAATAC
Found at i:956507 original size:39 final size:39
Alignment explanation
Indices: 956462--956557 Score: 138
Period size: 39 Copynumber: 2.5 Consensus size: 39
956452 TGATATTTAT
* * * **
956462 AATCAATTACCAGTACCTGTTCTACTGCCATACAGTGCA
1 AATCAATCACCAGTAACTGTTCTACTGCCACACAGTAAA
956501 AATCAATCACCAGTAACTGTTCTACTGCCACACAGTAAA
1 AATCAATCACCAGTAACTGTTCTACTGCCACACAGTAAA
*
956540 AACCAATCACCAGTAACT
1 AATCAATCACCAGTAACT
956558 CGATGTTCTA
Statistics
Matches: 51, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
39 51 1.00
ACGTcount: A:0.36, C:0.29, G:0.10, T:0.24
Consensus pattern (39 bp):
AATCAATCACCAGTAACTGTTCTACTGCCACACAGTAAA
Found at i:956590 original size:43 final size:39
Alignment explanation
Indices: 956500--956630 Score: 138
Period size: 39 Copynumber: 3.3 Consensus size: 39
956490 CATACAGTGC
* * * *
956500 AAATCAATCACCAGTAACTGTTCTACTG-CCACACAGTAA
1 AAATCAATCACCAGTAACTGTTCTACTGTCTA-AAACTTA
*
956539 AAACCAATCACCAGTAACTCGATGTTCTACTGTCTAAAACTTA
1 AAATCAATCACCAGTAA--C--TGTTCTACTGTCTAAAACTTA
** *
956582 AAATCAATCATTAGTAACTGTTCTACTGTCTAAACCTTA
1 AAATCAATCACCAGTAACTGTTCTACTGTCTAAAACTTA
956621 AAATCAATCA
1 AAATCAATCA
956631 TTAGTGACAG
Statistics
Matches: 78, Mismatches: 9, Indels: 10
0.80 0.09 0.10
Matches are distributed among these distances:
39 46 0.59
41 2 0.03
43 28 0.36
44 2 0.03
ACGTcount: A:0.39, C:0.24, G:0.08, T:0.28
Consensus pattern (39 bp):
AAATCAATCACCAGTAACTGTTCTACTGTCTAAAACTTA
Done.