Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.04
Sequence: scaffold1009
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: 1861391
ACGTcount: A:0.29, C:0.15, G:0.15, T:0.29
Warning! 223269 characters in sequence are not A, C, G, or T
File 3 of 5
Found at i:441765 original size:11 final size:11
Alignment explanation
Indices: 441739--441780 Score: 57
Period size: 11 Copynumber: 3.6 Consensus size: 11
441729 ACTAAACCCC
441739 GGGTTTACTATCT
1 GGGTTTAC--TCT
441752 GGGTTTACTCT
1 GGGTTTACTCT
*
441763 GGGTTTACTCC
1 GGGTTTACTCT
441774 GGGTTTA
1 GGGTTTA
441781 TTAAAGTGGA
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
11 20 0.71
13 8 0.29
ACGTcount: A:0.12, C:0.17, G:0.29, T:0.43
Consensus pattern (11 bp):
GGGTTTACTCT
Found at i:441810 original size:11 final size:11
Alignment explanation
Indices: 441790--441840 Score: 50
Period size: 11 Copynumber: 4.5 Consensus size: 11
441780 ATTAAAGTGG
*
441790 ACCCAGAGTAA
1 ACCCAAAGTAA
441801 ACCCAAAGTAA
1 ACCCAAAGTAA
*
441812 ACCCAGAGTGAA
1 ACCCAAAGT-AA
441824 A-CCAGAGAGTAA
1 ACCCA-A-AGTAA
441836 ACCCA
1 ACCCA
441841 GTCAGAAGTA
Statistics
Matches: 33, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
11 21 0.64
12 6 0.18
13 6 0.18
ACGTcount: A:0.47, C:0.27, G:0.18, T:0.08
Consensus pattern (11 bp):
ACCCAAAGTAA
Found at i:441815 original size:22 final size:24
Alignment explanation
Indices: 441790--441841 Score: 74
Period size: 22 Copynumber: 2.2 Consensus size: 24
441780 ATTAAAGTGG
441790 ACCCAGAGT-AAACCCA-A-AGTAA
1 ACCCAGAGTGAAA-CCAGAGAGTAA
441812 ACCCAGAGTGAAACCAGAGAGTAA
1 ACCCAGAGTGAAACCAGAGAGTAA
441836 ACCCAG
1 ACCCAG
441842 TCAGAAGTAT
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
22 12 0.44
23 4 0.15
24 11 0.41
ACGTcount: A:0.46, C:0.27, G:0.19, T:0.08
Consensus pattern (24 bp):
ACCCAGAGTGAAACCAGAGAGTAA
Found at i:441944 original size:22 final size:22
Alignment explanation
Indices: 441899--441944 Score: 56
Period size: 22 Copynumber: 2.1 Consensus size: 22
441889 TACAATTTCC
* * *
441899 AAGTAAATCCCGAGTAAACTCA
1 AAGTAAACCCCCAGTAAACCCA
*
441921 AAGTAAACCCCCAGTAGACCCA
1 AAGTAAACCCCCAGTAAACCCA
441943 AA
1 AA
441945 TTTTCAAAAA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.46, C:0.28, G:0.13, T:0.13
Consensus pattern (22 bp):
AAGTAAACCCCCAGTAAACCCA
Found at i:468062 original size:16 final size:16
Alignment explanation
Indices: 468041--468073 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
468031 AGCAAATTAC
468041 ATTTTTTTGTGTCAAG
1 ATTTTTTTGTGTCAAG
468057 ATTTTTTTGTGTCAAG
1 ATTTTTTTGTGTCAAG
468073 A
1 A
468074 ATGCATCAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.21, C:0.06, G:0.18, T:0.55
Consensus pattern (16 bp):
ATTTTTTTGTGTCAAG
Found at i:469819 original size:18 final size:18
Alignment explanation
Indices: 469796--469850 Score: 61
Period size: 18 Copynumber: 3.4 Consensus size: 18
469786 AATCAATACA
469796 TAATCAATCAACCACCTG
1 TAATCAATCAACCACCTG
469814 TAATCAAT--A-CA----
1 TAATCAATCAACCACCTG
469825 TAATCAATCAACCACCTG
1 TAATCAATCAACCACCTG
469843 TAATCAAT
1 TAATCAAT
469851 ACATAATCAA
Statistics
Matches: 30, Mismatches: 0, Indels: 14
0.68 0.00 0.32
Matches are distributed among these distances:
11 8 0.27
13 1 0.03
14 2 0.07
15 2 0.07
16 1 0.03
18 16 0.53
ACGTcount: A:0.44, C:0.27, G:0.04, T:0.25
Consensus pattern (18 bp):
TAATCAATCAACCACCTG
Found at i:469887 original size:29 final size:29
Alignment explanation
Indices: 469749--469868 Score: 204
Period size: 29 Copynumber: 4.1 Consensus size: 29
469739 CTCCAAGTGT
* * * *
469749 CCACCTGTAGTCAATAAATAAACAGTCAA
1 CCACCTGTAATCAATACATAATCAATCAA
469778 CCACCTGTAATCAATACATAATCAATCAA
1 CCACCTGTAATCAATACATAATCAATCAA
469807 CCACCTGTAATCAATACATAATCAATCAA
1 CCACCTGTAATCAATACATAATCAATCAA
469836 CCACCTGTAATCAATACATAATCAATCAA
1 CCACCTGTAATCAATACATAATCAATCAA
469865 CCAC
1 CCAC
469869 ATCTGTACAA
Statistics
Matches: 87, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 87 1.00
ACGTcount: A:0.44, C:0.28, G:0.05, T:0.23
Consensus pattern (29 bp):
CCACCTGTAATCAATACATAATCAATCAA
Found at i:476450 original size:44 final size:44
Alignment explanation
Indices: 476387--476731 Score: 548
Period size: 44 Copynumber: 7.8 Consensus size: 44
476377 AGAACATCAG
*
476387 TTTAAGGTAGGTCAACCCAAGTAGACGAGTGTCATCAACTCCCC
1 TTTAAGGCAGGTCAACCCAAGTAGACGAGTGTCATCAACTCCCC
476431 TTTAAGGCAGGTCAACCCAAGTAGACGAGTGTCATCAACTCCCC
1 TTTAAGGCAGGTCAACCCAAGTAGACGAGTGTCATCAACTCCCC
* *
476475 TTTAAGGCAGGTCAACCAAAGTAGACGAGAGTCATCAACTCCCC
1 TTTAAGGCAGGTCAACCCAAGTAGACGAGTGTCATCAACTCCCC
*
476519 TTTAAGGCATGTCAACCCAAGTAGACGAGTGTCATCAACTCCCCC
1 TTTAAGGCAGGTCAACCCAAGTAGACGAGTGTCATCAACT-CCCC
476564 TTTAAGGCAGGTCAACCCAAGTAGACGAGTGTCATCAACTCCCCC
1 TTTAAGGCAGGTCAACCCAAGTAGACGAGTGTCATCAACT-CCCC
* *
476609 TTTAAGGCATGTCAACCCAAGTA-ATCAAGTGTCATCAACTCCCC
1 TTTAAGGCAGGTCAACCCAAGTAGA-CGAGTGTCATCAACTCCCC
* * *
476653 TTTAAGGCAGGTCAACCAAAGTAGATGAGAGTCATCAACTCCCC
1 TTTAAGGCAGGTCAACCCAAGTAGACGAGTGTCATCAACTCCCC
* * *
476697 TTTAAGGCAGGTCAACCCAAGAAGATGAGAGTCAT
1 TTTAAGGCAGGTCAACCCAAGTAGACGAGTGTCAT
476732 TGGATGGATA
Statistics
Matches: 282, Mismatches: 16, Indels: 6
0.93 0.05 0.02
Matches are distributed among these distances:
44 197 0.70
45 85 0.30
ACGTcount: A:0.32, C:0.28, G:0.20, T:0.21
Consensus pattern (44 bp):
TTTAAGGCAGGTCAACCCAAGTAGACGAGTGTCATCAACTCCCC
Found at i:476685 original size:178 final size:177
Alignment explanation
Indices: 476387--476731 Score: 593
Period size: 178 Copynumber: 1.9 Consensus size: 177
476377 AGAACATCAG
*
476387 TTTAAGGTAGGTCAACCCAAGTAGACGAGTGTCATCAACTCCCCTTTAAGGCAGGTCAACCCAAG
1 TTTAAGGCAGGTCAACCCAAGTAGACGAGTGTCATCAACTCCCCTTTAAGGCAGGTCAACCCAAG
*
476452 TAGACGAGTGTCATCAACTCCCCTTTAAGGCAGGTCAACCAAAGTAGACGAGAGTCATCAACTCC
66 TAGACAAGTGTCATCAACTCCCCTTTAAGGCAGGTCAACCAAAGTAGACGAGAGTCATCAACTCC
* * *
476517 CCTTTAAGGCATGTCAACCCAAGTAGACGAGTGTCATCAACTCCCCC
131 CCTTTAAGGCAGGTCAACCCAAGAAGACGAGAGTCATCAACTCCCCC
*
476564 TTTAAGGCAGGTCAACCCAAGTAGACGAGTGTCATCAACTCCCCCTTTAAGGCATGTCAACCCAA
1 TTTAAGGCAGGTCAACCCAAGTAGACGAGTGTCATCAACT-CCCCTTTAAGGCAGGTCAACCCAA
*
476629 GTA-ATCAAGTGTCATCAACTCCCCTTTAAGGCAGGTCAACCAAAGTAGATGAGAGTCATCAACT
65 GTAGA-CAAGTGTCATCAACTCCCCTTTAAGGCAGGTCAACCAAAGTAGACGAGAGTCATCAACT
*
476693 CCCCTTTAAGGCAGGTCAACCCAAGAAGATGAGAGTCAT
129 CCCCTTTAAGGCAGGTCAACCCAAGAAGACGAGAGTCAT
476732 TGGATGGATA
Statistics
Matches: 158, Mismatches: 8, Indels: 3
0.93 0.05 0.02
Matches are distributed among these distances:
177 40 0.25
178 118 0.75
ACGTcount: A:0.32, C:0.28, G:0.20, T:0.21
Consensus pattern (177 bp):
TTTAAGGCAGGTCAACCCAAGTAGACGAGTGTCATCAACTCCCCTTTAAGGCAGGTCAACCCAAG
TAGACAAGTGTCATCAACTCCCCTTTAAGGCAGGTCAACCAAAGTAGACGAGAGTCATCAACTCC
CCTTTAAGGCAGGTCAACCCAAGAAGACGAGAGTCATCAACTCCCCC
Found at i:477776 original size:12 final size:12
Alignment explanation
Indices: 477759--477783 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
477749 CAAAAGTAGG
477759 TTTGGTATGTAT
1 TTTGGTATGTAT
477771 TTTGGTATGTAT
1 TTTGGTATGTAT
477783 T
1 T
477784 CTAACATACC
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:0.16, C:0.00, G:0.24, T:0.60
Consensus pattern (12 bp):
TTTGGTATGTAT
Found at i:479829 original size:179 final size:178
Alignment explanation
Indices: 479529--479885 Score: 705
Period size: 179 Copynumber: 2.0 Consensus size: 178
479519 TTTGTTTTAA
479529 TGTAAAGTTACCCGCTAGTCTGGTTCTCGCTCCCGCCCAAAACAAAGTAAATATCGCAGTGGCGG
1 TGTAAAGTTACCCGCTAGTCTGGTTCTCGCTCCCGCCCAAAACAAAGTAAATATCGCAGTGGCGG
479594 GGGAACCAGTCTAAGCTACGCGCGCGCTCATTGGTCGATTAAATGCCAGCCGCCAATTTTCATAT
66 GGGAACCAGTCTAAGCTACGCGCGCGCTCATTGGTCGATTAAATGCCAGCCGCCAATTTTCATAT
479659 TCGATTCCGCCATGTTGTCTACCATCACAGATGACGGTGAAATGAATT
131 TCGATTCCGCCATGTTGTCTACCATCACAGATGACGGTGAAATGAATT
479707 NTGTAAAGTTACCCGCTAGTCTGGTTCTCGCTCCCGCCCAAAACAAAGTAAATATCGCAGTGGCG
1 -TGTAAAGTTACCCGCTAGTCTGGTTCTCGCTCCCGCCCAAAACAAAGTAAATATCGCAGTGGCG
479772 GGGGAACCAGTCTAAGCTACGCGCGCGCTCATTGGTCGATTAAATGCCAGCCGCCAATTTTCATA
65 GGGGAACCAGTCTAAGCTACGCGCGCGCTCATTGGTCGATTAAATGCCAGCCGCCAATTTTCATA
479837 TTCGATTCCGCCATGTTGTCTACCATCACAGATGACGGTGAAATGAATT
130 TTCGATTCCGCCATGTTGTCTACCATCACAGATGACGGTGAAATGAATT
479886 AAAAAGGGAA
Statistics
Matches: 178, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
179 178 1.00
ACGTcount: A:0.26, C:0.26, G:0.22, T:0.25
Consensus pattern (178 bp):
TGTAAAGTTACCCGCTAGTCTGGTTCTCGCTCCCGCCCAAAACAAAGTAAATATCGCAGTGGCGG
GGGAACCAGTCTAAGCTACGCGCGCGCTCATTGGTCGATTAAATGCCAGCCGCCAATTTTCATAT
TCGATTCCGCCATGTTGTCTACCATCACAGATGACGGTGAAATGAATT
Found at i:491469 original size:2 final size:2
Alignment explanation
Indices: 491464--491518 Score: 110
Period size: 2 Copynumber: 27.5 Consensus size: 2
491454 CCTCCCCCCT
491464 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
1 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
491506 CA CA CA CA CA CA C
1 CA CA CA CA CA CA C
491519 CTCTTTCAAG
Statistics
Matches: 53, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 53 1.00
ACGTcount: A:0.49, C:0.51, G:0.00, T:0.00
Consensus pattern (2 bp):
CA
Found at i:494040 original size:19 final size:19
Alignment explanation
Indices: 494003--494042 Score: 55
Period size: 19 Copynumber: 2.1 Consensus size: 19
493993 TGTAGGTGAA
*
494003 CTCTGAGGAAGTTTTATAT
1 CTCTGAGGAAGTTTAATAT
494022 CTCTGAGG-AGATTTAATAT
1 CTCTGAGGAAG-TTTAATAT
494041 CT
1 CT
494043 GTCTTGTAGA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 2 0.11
19 17 0.89
ACGTcount: A:0.28, C:0.12, G:0.20, T:0.40
Consensus pattern (19 bp):
CTCTGAGGAAGTTTAATAT
Found at i:496235 original size:20 final size:20
Alignment explanation
Indices: 496210--496254 Score: 72
Period size: 20 Copynumber: 2.2 Consensus size: 20
496200 GATACAGTAC
496210 ACCCAAACATACCAATACAT
1 ACCCAAACATACCAATACAT
*
496230 ACCCAAACATATCAATACAT
1 ACCCAAACATACCAATACAT
*
496250 GCCCA
1 ACCCA
496255 TACCATCACA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.47, C:0.36, G:0.02, T:0.16
Consensus pattern (20 bp):
ACCCAAACATACCAATACAT
Found at i:496324 original size:30 final size:30
Alignment explanation
Indices: 496288--496347 Score: 111
Period size: 30 Copynumber: 2.0 Consensus size: 30
496278 GGCAGTTAGG
*
496288 TATTCAGACAAACCTAGGCACAGCTCTACA
1 TATTCAGACAAACCAAGGCACAGCTCTACA
496318 TATTCAGACAAACCAAGGCACAGCTCTACA
1 TATTCAGACAAACCAAGGCACAGCTCTACA
496348 CACCAAGGCA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.38, C:0.30, G:0.13, T:0.18
Consensus pattern (30 bp):
TATTCAGACAAACCAAGGCACAGCTCTACA
Found at i:496354 original size:20 final size:20
Alignment explanation
Indices: 496329--496371 Score: 77
Period size: 20 Copynumber: 2.1 Consensus size: 20
496319 ATTCAGACAA
496329 ACCAAGGCACAGCTCTACAC
1 ACCAAGGCACAGCTCTACAC
*
496349 ACCAAGGCATAGCTCTACAC
1 ACCAAGGCACAGCTCTACAC
496369 ACC
1 ACC
496372 GTACATCCAG
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.35, C:0.40, G:0.14, T:0.12
Consensus pattern (20 bp):
ACCAAGGCACAGCTCTACAC
Found at i:497217 original size:37 final size:37
Alignment explanation
Indices: 497174--497278 Score: 192
Period size: 37 Copynumber: 2.8 Consensus size: 37
497164 GCTTGTGTAC
*
497174 TGAGGGGTTACCTGTATGTGGTGGCAGGGTAAGTTAT
1 TGAGGGGTTACCTGTATGTGGTGGTAGGGTAAGTTAT
*
497211 TGAGGGGTTACCTGTTTGTGGTGGTAGGGTAAGTTAT
1 TGAGGGGTTACCTGTATGTGGTGGTAGGGTAAGTTAT
497248 TGAGGGGTTACCTGTATGTGGTGGTAGGGTA
1 TGAGGGGTTACCTGTATGTGGTGGTAGGGTA
497279 CATGTAAATA
Statistics
Matches: 65, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
37 65 1.00
ACGTcount: A:0.17, C:0.07, G:0.42, T:0.34
Consensus pattern (37 bp):
TGAGGGGTTACCTGTATGTGGTGGTAGGGTAAGTTAT
Found at i:499067 original size:25 final size:23
Alignment explanation
Indices: 499034--499079 Score: 74
Period size: 24 Copynumber: 1.9 Consensus size: 23
499024 ACAACGCAGG
499034 AAATTATTTTTGTTATCTACCCAT
1 AAATTA-TTTTGTTATCTACCCAT
499058 AAATATATTTTGTTATCTACCC
1 AAAT-TATTTTGTTATCTACCC
499080 TAACTTAAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
24 19 0.90
25 2 0.10
ACGTcount: A:0.30, C:0.17, G:0.04, T:0.48
Consensus pattern (23 bp):
AAATTATTTTGTTATCTACCCAT
Found at i:510786 original size:11 final size:11
Alignment explanation
Indices: 510770--510808 Score: 51
Period size: 11 Copynumber: 3.5 Consensus size: 11
510760 CATTCAATCA
510770 ACTGAAATGTG
1 ACTGAAATGTG
* *
510781 ACTGAAAGGTT
1 ACTGAAATGTG
*
510792 ACTAAAATGTG
1 ACTGAAATGTG
510803 ACTGAA
1 ACTGAA
510809 TGGCATATCT
Statistics
Matches: 22, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
11 22 1.00
ACGTcount: A:0.41, C:0.10, G:0.23, T:0.26
Consensus pattern (11 bp):
ACTGAAATGTG
Found at i:510932 original size:19 final size:19
Alignment explanation
Indices: 510908--510944 Score: 74
Period size: 19 Copynumber: 1.9 Consensus size: 19
510898 CTTAGCAGGC
510908 AATAATGGGGAAGACAAAG
1 AATAATGGGGAAGACAAAG
510927 AATAATGGGGAAGACAAA
1 AATAATGGGGAAGACAAA
510945 TACATAAACG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.54, C:0.05, G:0.30, T:0.11
Consensus pattern (19 bp):
AATAATGGGGAAGACAAAG
Found at i:515261 original size:7 final size:7
Alignment explanation
Indices: 515249--515274 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
515239 TAAAGTTTTT
515249 TTGTGTA
1 TTGTGTA
515256 TTGTGTA
1 TTGTGTA
515263 TTGTGTA
1 TTGTGTA
515270 TTGTG
1 TTGTG
515275 CTGAAATATG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.12, C:0.00, G:0.31, T:0.58
Consensus pattern (7 bp):
TTGTGTA
Found at i:517036 original size:2 final size:2
Alignment explanation
Indices: 517031--517082 Score: 86
Period size: 2 Copynumber: 26.0 Consensus size: 2
517021 ATTTATTTAT
* *
517031 AG AG AG AG AG AG AG AG AG AG GG AG AG AG AG AG AG AG AG AG AA
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
517073 AG AG AG AG AG
1 AG AG AG AG AG
517083 TACATAATCA
Statistics
Matches: 46, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
2 46 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
AG
Found at i:517540 original size:18 final size:17
Alignment explanation
Indices: 517511--517565 Score: 74
Period size: 18 Copynumber: 3.1 Consensus size: 17
517501 TGTTGATCAA
517511 TCATTTAAAATTTCAGG
1 TCATTTAAAATTTCAGG
517528 TCATTTGAAAATTTCAGG
1 TCATTT-AAAATTTCAGG
* *
517546 TCAATTCAAATTCTCAGG
1 TCATTTAAAATT-TCAGG
517564 TC
1 TC
517566 TTTCATATTT
Statistics
Matches: 34, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
17 11 0.32
18 23 0.68
ACGTcount: A:0.33, C:0.16, G:0.13, T:0.38
Consensus pattern (17 bp):
TCATTTAAAATTTCAGG
Found at i:517570 original size:17 final size:17
Alignment explanation
Indices: 517511--517576 Score: 71
Period size: 18 Copynumber: 3.8 Consensus size: 17
517501 TGTTGATCAA
*
517511 TCATTTAAAATTTCAGG
1 TCATTTCAAATTTCAGG
*
517528 TCATTTGAAAATTTCAGG
1 TCATTT-CAAATTTCAGG
*
517546 TCAATTCAAATTCTCAGG
1 TCATTTCAAATT-TCAGG
*
517564 TC-TTTCATATTTC
1 TCATTTCAAATTTC
517577 TGCATGAATA
Statistics
Matches: 43, Mismatches: 4, Indels: 5
0.83 0.08 0.10
Matches are distributed among these distances:
16 2 0.05
17 18 0.42
18 23 0.53
ACGTcount: A:0.30, C:0.17, G:0.11, T:0.42
Consensus pattern (17 bp):
TCATTTCAAATTTCAGG
Found at i:517711 original size:9 final size:9
Alignment explanation
Indices: 517697--517742 Score: 60
Period size: 9 Copynumber: 5.3 Consensus size: 9
517687 TTATATAAAA
517697 TTTCAGGTC
1 TTTCAGGTC
517706 TTTCAGGTC
1 TTTCAGGTC
517715 TTTCAGGTC
1 TTTCAGGTC
* *
517724 ATT-A-GTA
1 TTTCAGGTC
517731 TTTCAGGTC
1 TTTCAGGTC
517740 TTT
1 TTT
517743 AGTACGTCCC
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
7 4 0.13
8 2 0.06
9 25 0.81
ACGTcount: A:0.15, C:0.17, G:0.20, T:0.48
Consensus pattern (9 bp):
TTTCAGGTC
Found at i:517736 original size:16 final size:16
Alignment explanation
Indices: 517696--517746 Score: 66
Period size: 16 Copynumber: 3.1 Consensus size: 16
517686 TTTATATAAA
517696 ATTTCAGGTCTTTCAGGT
1 ATTTCAGGTCTTT-A-GT
* *
517714 CTTTCAGGTCATTAGT
1 ATTTCAGGTCTTTAGT
517730 ATTTCAGGTCTTTAGT
1 ATTTCAGGTCTTTAGT
517746 A
1 A
517747 CGTCCCCTGA
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
16 17 0.59
17 1 0.03
18 11 0.38
ACGTcount: A:0.20, C:0.16, G:0.20, T:0.45
Consensus pattern (16 bp):
ATTTCAGGTCTTTAGT
Found at i:522690 original size:165 final size:166
Alignment explanation
Indices: 522418--523211 Score: 1218
Period size: 165 Copynumber: 4.8 Consensus size: 166
522408 GTGAATATGC
* * * * * * * * *
522418 AAAATAAGCAAAGTCGACATTTAACAGAAAGCTGGCATCCGATTGGTACAGAAATATATTCCACA
1 AAAATAAACAAAGTCGTCATTTAACAGGAAGTTGACGTCCGATTGGTACAAAAATATATCCCACG
* * * *
522483 ATATAGCATGCCTAAACAAATAGTGTGTTAAAATTTCAAGCATCTGCGATAAACAGTTGCTGAGA
66 ATATGGCATGCCTATACAAATACTGTGTTAAAATTTCAAGCATCTGCGATAAATAGTTGCTGAGA
*
522548 AATCTTTGAGGAAAATTTGTTTGAAAATTTTGGCT-
131 AATCTTTGACGAAAATTTGTTTGAAAATTTTGGCTA
522583 AAAATAAACAAAGTAC-TCATTTAACAGGAAGTTGACGTCCGATTGGTACAAAAATATATCCCAC
1 AAAATAAACAAAGT-CGTCATTTAACAGGAAGTTGACGTCCGATTGGTACAAAAATATATCCCAC
* * * * *
522647 GATACGGCATGCCTAAACAAACACTGTGTAAAAATTTCAAGCATCTGCGATAAATAGCTGCTGAG
65 GATATGGCATGCCTATACAAATACTGTGTTAAAATTTCAAGCATCTGCGATAAATAGTTGCTGAG
522712 AAATCTTTGACGAAAATTTGTTTGAAAATTTTGGCTA
130 AAATCTTTGACGAAAATTTGTTTGAAAATTTTGGCTA
* * *
522749 AAAATAAACAAAGTCATCATTTCACAGGAAGTTTGACGTCCGATTGATACAAAAATATATCCCAC
1 AAAATAAACAAAGTCGTCATTTAACAGGAAG-TTGACGTCCGATTGGTACAAAAATATATCCCAC
* *
522814 AATATGGCATGCCTATACAAATAGTGTGTTAAAATTTCAAGCATCTGCGATAAATAGTTGCTGAG
65 GATATGGCATGCCTATACAAATACTGTGTTAAAATTTCAAGCATCTGCGATAAATAGTTGCTGAG
*
522879 AAATCTTTGACGGAAATTTGTTTGAAAATTTTGGCTA
130 AAATCTTTGACGAAAATTTGTTTGAAAATTTTGGCTA
* *
522916 AAAATAAACAAAGTCGTCATTAAACAGGAAGTTGACG-CCGATTGGTACAAAAATATATCCCAAG
1 AAAATAAACAAAGTCGTCATTTAACAGGAAGTTGACGTCCGATTGGTACAAAAATATATCCCACG
* * *
522980 ATATGGCATGCCTATACAGATATTGTG-TATAAATTTCAAGCATCTGCGATAAATAGCTGCTGAG
66 ATATGGCATGCCTATACAAATACTGTGTTA-AAATTTCAAGCATCTGCGATAAATAGTTGCTGAG
*
523044 AAATCTTTGACGAAAATTTGTTTGAAAATTTTGGTTAA
130 AAATCTTTGACGAAAATTTGTTTGAAAATTTTGGCT-A
* * *
523082 AAAATAAGCAAAGTCGTCATTTAACAGGAAGTTGACGTCTGATTGGTACAAAAAGATATCCCACG
1 AAAATAAACAAAGTCGTCATTTAACAGGAAGTTGACGTCCGATTGGTACAAAAATATATCCCACG
523147 ATATGGCATGCCTATACAAATACTGTGTTAAAATTTCAAGCATCTGCGATAAATAGTTGCTGAGA
66 ATATGGCATGCCTATACAAATACTGTGTTAAAATTTCAAGCATCTGCGATAAATAGTTGCTGAGA
523212 TAAATGCGAC
Statistics
Matches: 575, Mismatches: 46, Indels: 14
0.91 0.07 0.02
Matches are distributed among these distances:
164 2 0.00
165 263 0.46
166 71 0.12
167 237 0.41
168 2 0.00
ACGTcount: A:0.38, C:0.15, G:0.18, T:0.29
Consensus pattern (166 bp):
AAAATAAACAAAGTCGTCATTTAACAGGAAGTTGACGTCCGATTGGTACAAAAATATATCCCACG
ATATGGCATGCCTATACAAATACTGTGTTAAAATTTCAAGCATCTGCGATAAATAGTTGCTGAGA
AATCTTTGACGAAAATTTGTTTGAAAATTTTGGCTA
Found at i:523229 original size:332 final size:331
Alignment explanation
Indices: 522418--523211 Score: 1279
Period size: 332 Copynumber: 2.4 Consensus size: 331
522408 GTGAATATGC
* * * * * * *
522418 AAAATAAGCAAAGTCGACATTTAACAGAAAGCTGGCATCCGATTGGTACAGAAATATATTCCACA
1 AAAATAAGCAAAGTCGTCATTTAACAGGAAGTTGACGTCCGATTGGTACAAAAATATATCCCACA
* * *
522483 ATATAGCATGCCTAAACAAATAGTGTGTTAAAATTTCAAGCATCTGCGATAAACAGTTGCTGAGA
66 ATATGGCATGCCTATACAAATAGTGTGTTAAAATTTCAAGCATCTGCGATAAATAGTTGCTGAGA
*
522548 AATCTTTGA-GGAAAATTTGTTTGAAAATTTTGGCTAAAATAAACAAAGTACTCATTTAACAGGA
131 AATCTTTGACGG-AAATTTGTTTGAAAATTTTGGCTAAAATAAACAAAGTACTCATTAAACAGGA
*
522612 AGTTGACGTCCGATTGGTACAAAAATATATCCCACGATACGGCATGCCTAAACAAACACTGTGTA
195 AGTTGACGTCCGATTGGTACAAAAATATATCCCAAGATACGGCATGCCTAAACAAACACTGTGTA
522677 AAAATTTCAAGCATCTGCGATAAATAGCTGCTGAGAAATCTTTGACGAAAATTTGTTTGAAAATT
260 AAAATTTCAAGCATCTGCGATAAATAGCTGCTGAGAAATCTTTGACGAAAATTTGTTTGAAAATT
522742 TTGGCTA
325 TTGGCTA
* * * *
522749 AAAATAAACAAAGTCATCATTTCACAGGAAGTTTGACGTCCGATTGATACAAAAATATATCCCAC
1 AAAATAAGCAAAGTCGTCATTTAACAGGAAG-TTGACGTCCGATTGGTACAAAAATATATCCCAC
522814 AATATGGCATGCCTATACAAATAGTGTGTTAAAATTTCAAGCATCTGCGATAAATAGTTGCTGAG
65 AATATGGCATGCCTATACAAATAGTGTGTTAAAATTTCAAGCATCTGCGATAAATAGTTGCTGAG
522879 AAATCTTTGACGGAAATTTGTTTGAAAATTTTGGCTAAAAATAAACAAAGT-CGTCATTAAACAG
130 AAATCTTTGACGGAAATTTGTTTGAAAATTTTGGCT-AAAATAAACAAAGTAC-TCATTAAACAG
* * * * *
522943 GAAGTTGACG-CCGATTGGTACAAAAATATATCCCAAGATATGGCATGCCTATACAGATATTGTG
193 GAAGTTGACGTCCGATTGGTACAAAAATATATCCCAAGATACGGCATGCCTAAACAAACACTGTG
*
523007 TATAAATTTCAAGCATCTGCGATAAATAGCTGCTGAGAAATCTTTGACGAAAATTTGTTTGAAAA
258 TAAAAATTTCAAGCATCTGCGATAAATAGCTGCTGAGAAATCTTTGACGAAAATTTGTTTGAAAA
*
523072 TTTTGGTTAA
323 TTTTGGCT-A
* * *
523082 AAAATAAGCAAAGTCGTCATTTAACAGGAAGTTGACGTCTGATTGGTACAAAAAGATATCCCACG
1 AAAATAAGCAAAGTCGTCATTTAACAGGAAGTTGACGTCCGATTGGTACAAAAATATATCCCACA
*
523147 ATATGGCATGCCTATACAAATACTGTGTTAAAATTTCAAGCATCTGCGATAAATAGTTGCTGAGA
66 ATATGGCATGCCTATACAAATAGTGTGTTAAAATTTCAAGCATCTGCGATAAATAGTTGCTGAGA
523212 TAAATGCGAC
Statistics
Matches: 427, Mismatches: 31, Indels: 9
0.91 0.07 0.02
Matches are distributed among these distances:
331 26 0.06
332 336 0.79
333 65 0.15
ACGTcount: A:0.38, C:0.15, G:0.18, T:0.29
Consensus pattern (331 bp):
AAAATAAGCAAAGTCGTCATTTAACAGGAAGTTGACGTCCGATTGGTACAAAAATATATCCCACA
ATATGGCATGCCTATACAAATAGTGTGTTAAAATTTCAAGCATCTGCGATAAATAGTTGCTGAGA
AATCTTTGACGGAAATTTGTTTGAAAATTTTGGCTAAAATAAACAAAGTACTCATTAAACAGGAA
GTTGACGTCCGATTGGTACAAAAATATATCCCAAGATACGGCATGCCTAAACAAACACTGTGTAA
AAATTTCAAGCATCTGCGATAAATAGCTGCTGAGAAATCTTTGACGAAAATTTGTTTGAAAATTT
TGGCTA
Found at i:523245 original size:4 final size:4
Alignment explanation
Indices: 523236--523285 Score: 55
Period size: 4 Copynumber: 12.5 Consensus size: 4
523226 ATTTTTTGTT
* * * * *
523236 ACGG ACGG ACAG ACAG ACGG ACGG ACAG ACAG ACAG ACGG ACGG ACGG
1 ACGG ACGG ACGG ACGG ACGG ACGG ACGG ACGG ACGG ACGG ACGG ACGG
523284 AC
1 AC
523286 AGACAGACAC
Statistics
Matches: 42, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
4 42 1.00
ACGTcount: A:0.36, C:0.26, G:0.38, T:0.00
Consensus pattern (4 bp):
ACGG
Found at i:523261 original size:20 final size:20
Alignment explanation
Indices: 523236--523293 Score: 107
Period size: 20 Copynumber: 2.9 Consensus size: 20
523226 ATTTTTTGTT
523236 ACGGACGGACAGACAGACGG
1 ACGGACGGACAGACAGACGG
*
523256 ACGGACAGACAGACAGACGG
1 ACGGACGGACAGACAGACGG
523276 ACGGACGGACAGACAGAC
1 ACGGACGGACAGACAGAC
523294 ACACAAGGGT
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 36 1.00
ACGTcount: A:0.38, C:0.26, G:0.36, T:0.00
Consensus pattern (20 bp):
ACGGACGGACAGACAGACGG
Found at i:523270 original size:24 final size:24
Alignment explanation
Indices: 523243--523294 Score: 95
Period size: 24 Copynumber: 2.2 Consensus size: 24
523233 GTTACGGACG
523243 GACAGACAGACGGACGGACAGACA
1 GACAGACAGACGGACGGACAGACA
*
523267 GACAGACGGACGGACGGACAGACA
1 GACAGACAGACGGACGGACAGACA
523291 GACA
1 GACA
523295 CACAAGGGTA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.40, C:0.25, G:0.35, T:0.00
Consensus pattern (24 bp):
GACAGACAGACGGACGGACAGACA
Found at i:523289 original size:16 final size:16
Alignment explanation
Indices: 523236--523277 Score: 75
Period size: 16 Copynumber: 2.6 Consensus size: 16
523226 ATTTTTTGTT
523236 ACGGACGGACAGACAG
1 ACGGACGGACAGACAG
523252 ACGGACGGACAGACAG
1 ACGGACGGACAGACAG
*
523268 ACAGACGGAC
1 ACGGACGGAC
523278 GGACGGACAG
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 25 1.00
ACGTcount: A:0.38, C:0.26, G:0.36, T:0.00
Consensus pattern (16 bp):
ACGGACGGACAGACAG
Found at i:523290 original size:4 final size:4
Alignment explanation
Indices: 523243--523294 Score: 59
Period size: 4 Copynumber: 13.0 Consensus size: 4
523233 GTTACGGACG
* * * * *
523243 GACA GACA GACG GACG GACA GACA GACA GACG GACG GACG GACA GACA
1 GACA GACA GACA GACA GACA GACA GACA GACA GACA GACA GACA GACA
523291 GACA
1 GACA
523295 CACAAGGGTA
Statistics
Matches: 44, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
4 44 1.00
ACGTcount: A:0.40, C:0.25, G:0.35, T:0.00
Consensus pattern (4 bp):
GACA
Found at i:523928 original size:18 final size:18
Alignment explanation
Indices: 523905--523939 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
523895 ATACCATGGA
523905 CAATACAACAGAAAAAAT
1 CAATACAACAGAAAAAAT
*
523923 CAATACAAGAGAAAAAA
1 CAATACAACAGAAAAAA
523940 AGGAATTATA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.69, C:0.14, G:0.09, T:0.09
Consensus pattern (18 bp):
CAATACAACAGAAAAAAT
Found at i:527678 original size:17 final size:16
Alignment explanation
Indices: 527653--527687 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 16
527643 CTGGCGTGCG
527653 ACCAGTTCTCGCCGAGT
1 ACCAGTTCTCGCC-AGT
*
527670 ACCATTTCTCGCCAGT
1 ACCAGTTCTCGCCAGT
527686 AC
1 AC
527688 ATTGTAACGT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 5 0.29
17 12 0.71
ACGTcount: A:0.20, C:0.37, G:0.17, T:0.26
Consensus pattern (16 bp):
ACCAGTTCTCGCCAGT
Found at i:529185 original size:16 final size:17
Alignment explanation
Indices: 529154--529190 Score: 51
Period size: 16 Copynumber: 2.2 Consensus size: 17
529144 AATAGAGAAG
529154 AAAAATAGTAAGAATA-
1 AAAAATAGTAAGAATAC
529170 AAAAATA-TAAGAAATAC
1 AAAAATAGTAAG-AATAC
529187 AAAA
1 AAAA
529191 GGTCTTTCAC
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
15 4 0.21
16 11 0.58
17 4 0.21
ACGTcount: A:0.73, C:0.03, G:0.08, T:0.16
Consensus pattern (17 bp):
AAAAATAGTAAGAATAC
Found at i:529633 original size:19 final size:19
Alignment explanation
Indices: 529589--529644 Score: 76
Period size: 19 Copynumber: 2.9 Consensus size: 19
529579 GGTCAGCTGA
* *
529589 AAGTCACCAAGACACTTATT
1 AAGTCACCAAGACAC-AATG
*
529609 AAGTCACAAAGACACAATG
1 AAGTCACCAAGACACAATG
529628 AAGTCACCAAGACACAA
1 AAGTCACCAAGACACAA
529645 GCTACGGAAA
Statistics
Matches: 32, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
19 18 0.56
20 14 0.44
ACGTcount: A:0.48, C:0.25, G:0.12, T:0.14
Consensus pattern (19 bp):
AAGTCACCAAGACACAATG
Found at i:530619 original size:167 final size:167
Alignment explanation
Indices: 530343--530971 Score: 947
Period size: 166 Copynumber: 3.8 Consensus size: 167
530333 GTCACATTTA
* * *
530343 TCTCAGCAACTATTTATCGCAGATGCTTGAAATTTTAACACAGTGTTTGTTAAGGCATGCAATAT
1 TCTCAGCAACTATTTATCGCAGATGCTTGAAATTTTAACACAGTATTTGTTTAGGCATGCCATAT
530408 CGTGGGATATATTTTTGTACCAATCGGACGTCAACTTCCTGTTAAATGACGACTTTGCTTATTTT
66 CGTGGGATATATTTTTGTACCAATCGGACGTCAACTTCCTGTTAAATGACGACTTTGCTTATTTT
530473 TTAGCCAAAATTTTCAAACAAATTTTCGTCAAAGATT
131 TTAGCCAAAATTTTCAAACAAATTTTCGTCAAAGATT
* * * *
530510 TCTCAGCAACTGTTTATTGCAGATGCTTGAAATTTTAACACAATATTTGTATAGGCATGCCATAT
1 TCTCAGCAACTATTTATCGCAGATGCTTGAAATTTTAACACAGTATTTGTTTAGGCATGCCATAT
* ** *
530575 CGTGGTATATATTTTTGTACCAATCGGGTGTCAACTTCCTGTTAAATGACGACTTTGTTTA-TTT
66 CGTGGGATATATTTTTGTACCAATCGGACGTCAACTTCCTGTTAAATGACGACTTTGCTTATTTT
*
530639 TTAGCCAACATTTTCAAACAAATTTTCGTCAAAGATT
131 TTAGCCAAAATTTTCAAACAAATTTTCGTCAAAGATT
* ** *
530676 TCTCAGCAGCTATTTATCGCAGATGCTTGAAATTTTAACACTCTATTTGTTTTGGCATGCCATAT
1 TCTCAGCAACTATTTATCGCAGATGCTTGAAATTTTAACACAGTATTTGTTTAGGCATGCCATAT
* * * * *
530741 TGTGGGATATATTTTTGTATCAATCGGACGTCAACTTCCTGTTAAATAATGACTTTGTTTATTTT
66 CGTGGGATATATTTTTGTACCAATCGGACGTCAACTTCCTGTTAAATGACGACTTTGCTTATTTT
530806 TT-GCCAAAATTTTCAAACAAATTTTCGTCAAAGATT
131 TTAGCCAAAATTTTCAAACAAATTTTCGTCAAAGATT
* * * * *
530842 TCTCAGCAGCTATTTATCGGAGATGCTTGAAATTTTTACACAGTGTTTGTTTAGGCATGCTATAT
1 TCTCAGCAACTATTTATCGCAGATGCTTGAAATTTTAACACAGTATTTGTTTAGGCATGCCATAT
* * * * * * *
530907 TGTGGGATATATTTCTGTACCAATCGGATGCCAGCTTTCTGTTAAATGTCGACTTTGCTTATTTT
66 CGTGGGATATATTTTTGTACCAATCGGACGTCAACTTCCTGTTAAATGACGACTTTGCTTATTTT
530972 GCATATTCAC
Statistics
Matches: 417, Mismatches: 44, Indels: 3
0.90 0.09 0.01
Matches are distributed among these distances:
166 297 0.71
167 120 0.29
ACGTcount: A:0.28, C:0.17, G:0.16, T:0.40
Consensus pattern (167 bp):
TCTCAGCAACTATTTATCGCAGATGCTTGAAATTTTAACACAGTATTTGTTTAGGCATGCCATAT
CGTGGGATATATTTTTGTACCAATCGGACGTCAACTTCCTGTTAAATGACGACTTTGCTTATTTT
TTAGCCAAAATTTTCAAACAAATTTTCGTCAAAGATT
Found at i:531795 original size:2 final size:2
Alignment explanation
Indices: 531790--531820 Score: 55
Period size: 2 Copynumber: 16.0 Consensus size: 2
531780 GTATTGTCAG
531790 GA GA GA GA GA GA GA GA GA GA GA G- GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
531821 ATGAAACAAA
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 27 0.96
ACGTcount: A:0.48, C:0.00, G:0.52, T:0.00
Consensus pattern (2 bp):
GA
Found at i:532133 original size:12 final size:12
Alignment explanation
Indices: 532116--532146 Score: 62
Period size: 12 Copynumber: 2.6 Consensus size: 12
532106 TGTTGTCCGT
532116 CGTCCGTCTGTC
1 CGTCCGTCTGTC
532128 CGTCCGTCTGTC
1 CGTCCGTCTGTC
532140 CGTCCGT
1 CGTCCGT
532147 TCTCACGAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.00, C:0.42, G:0.26, T:0.32
Consensus pattern (12 bp):
CGTCCGTCTGTC
Found at i:533857 original size:21 final size:21
Alignment explanation
Indices: 533831--533971 Score: 129
Period size: 21 Copynumber: 6.7 Consensus size: 21
533821 TACAAGATAA
533831 ACGATAGGATAGGATTCACGC
1 ACGATAGGATAGGATTCACGC
* *
533852 ACGATAGGATAGCATTAACGC
1 ACGATAGGATAGGATTCACGC
* * * *
533873 ACGATAGAACAGTATACACGC
1 ACGATAGGATAGGATTCACGC
* *
533894 ACGAAAGGATAGGATTAACGC
1 ACGATAGGATAGGATTCACGC
* * * *
533915 ACGATAGAACAGTATACACGC
1 ACGATAGGATAGGATTCACGC
* * **
533936 ACGATATGATAGGATTGATAC
1 ACGATAGGATAGGATTCACGC
*
533957 ACGATAGGAAAGGAT
1 ACGATAGGATAGGAT
533972 AAACGATGTT
Statistics
Matches: 91, Mismatches: 29, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
21 91 1.00
ACGTcount: A:0.40, C:0.17, G:0.25, T:0.18
Consensus pattern (21 bp):
ACGATAGGATAGGATTCACGC
Found at i:533963 original size:42 final size:42
Alignment explanation
Indices: 533847--533951 Score: 183
Period size: 42 Copynumber: 2.5 Consensus size: 42
533837 GGATAGGATT
*
533847 CACGCACGATAGGATAGCATTAACGCACGATAGAACAGTATA
1 CACGCACGATAGGATAGGATTAACGCACGATAGAACAGTATA
*
533889 CACGCACGAAAGGATAGGATTAACGCACGATAGAACAGTATA
1 CACGCACGATAGGATAGGATTAACGCACGATAGAACAGTATA
*
533931 CACGCACGATATGATAGGATT
1 CACGCACGATAGGATAGGATT
533952 GATACACGAT
Statistics
Matches: 59, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
42 59 1.00
ACGTcount: A:0.40, C:0.20, G:0.23, T:0.17
Consensus pattern (42 bp):
CACGCACGATAGGATAGGATTAACGCACGATAGAACAGTATA
Found at i:534689 original size:16 final size:16
Alignment explanation
Indices: 534668--534706 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
534658 GTCAAGTCGT
* *
534668 ACCCAACCCGACTCGC
1 ACCCAAACCAACTCGC
*
534684 ACCCAAACCAACTCGT
1 ACCCAAACCAACTCGC
534700 ACCCAAA
1 ACCCAAA
534707 TGGTCAGGAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.36, C:0.49, G:0.08, T:0.08
Consensus pattern (16 bp):
ACCCAAACCAACTCGC
Found at i:535175 original size:16 final size:16
Alignment explanation
Indices: 535156--535198 Score: 50
Period size: 16 Copynumber: 2.7 Consensus size: 16
535146 TACTCAAATA
*
535156 TTTGGGTACGAGTTGG
1 TTTGGGTACGAGTCGG
* *
535172 TTTGGGTGCAAGTCGG
1 TTTGGGTACGAGTCGG
*
535188 GTTGGGTACGA
1 TTTGGGTACGA
535199 CTTGACTTGA
Statistics
Matches: 21, Mismatches: 6, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.14, C:0.09, G:0.44, T:0.33
Consensus pattern (16 bp):
TTTGGGTACGAGTCGG
Found at i:535516 original size:21 final size:21
Alignment explanation
Indices: 535492--535625 Score: 94
Period size: 21 Copynumber: 6.4 Consensus size: 21
535482 CGATAAACCT
535492 GATAGGATTAACGCACGATAG
1 GATAGGATTAACGCACGATAG
535513 GATAGGATTAACGCAC-ACTAG
1 GATAGGATTAACGCACGA-TAG
* * * *
535534 AACAGTA-TACATGCACGATAG
1 GATAGGATTA-ACGCACGATAG
*
535555 GATAGAATTAACGCACGATAG
1 GATAGGATTAACGCACGATAG
* * * **
535576 AACAGTA-TACACGCACGATTT
1 GATAGGATTA-ACGCACGATAG
* ** *
535597 GATAGGATTGATACACGATAC
1 GATAGGATTAACGCACGATAG
535618 GATAGGAT
1 GATAGGAT
535626 AGGATTGTAA
Statistics
Matches: 86, Mismatches: 21, Indels: 12
0.72 0.18 0.10
Matches are distributed among these distances:
20 5 0.06
21 77 0.90
22 4 0.05
ACGTcount: A:0.40, C:0.16, G:0.23, T:0.21
Consensus pattern (21 bp):
GATAGGATTAACGCACGATAG
Found at i:535551 original size:42 final size:42
Alignment explanation
Indices: 535502--535605 Score: 156
Period size: 42 Copynumber: 2.5 Consensus size: 42
535492 GATAGGATTA
535502 ACGCACGATAGGATAGGATTAACGCAC-ACTAGAACAGTATAC
1 ACGCACGATAGGATAGGATTAACGCACGA-TAGAACAGTATAC
* *
535544 ATGCACGATAGGATAGAATTAACGCACGATAGAACAGTATAC
1 ACGCACGATAGGATAGGATTAACGCACGATAGAACAGTATAC
**
535586 ACGCACGATTTGATAGGATT
1 ACGCACGATAGGATAGGATT
535606 GATACACGAT
Statistics
Matches: 55, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
42 54 0.98
43 1 0.02
ACGTcount: A:0.39, C:0.18, G:0.22, T:0.20
Consensus pattern (42 bp):
ACGCACGATAGGATAGGATTAACGCACGATAGAACAGTATAC
Found at i:545936 original size:5 final size:5
Alignment explanation
Indices: 545928--545979 Score: 59
Period size: 5 Copynumber: 10.2 Consensus size: 5
545918 TCGTTTTTAG
* * * *
545928 GTTTC GTTTC GTTTG GATTC GTTTC CTTTC GTTTC GTTTC GATTTT GTTTC
1 GTTTC GTTTC GTTTC GTTTC GTTTC GTTTC GTTTC GTTTC G-TTTC GTTTC
545979 G
1 G
545980 CACTTTACAG
Statistics
Matches: 38, Mismatches: 8, Indels: 2
0.79 0.17 0.04
Matches are distributed among these distances:
5 34 0.89
6 4 0.11
ACGTcount: A:0.04, C:0.17, G:0.21, T:0.58
Consensus pattern (5 bp):
GTTTC
Found at i:551327 original size:16 final size:16
Alignment explanation
Indices: 551306--551338 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
551296 TTTTGTAGCT
551306 TTGTTCTGTTTAATTA
1 TTGTTCTGTTTAATTA
*
551322 TTGTTCTGTTTAGTTA
1 TTGTTCTGTTTAATTA
551338 T
1 T
551339 AATATCTTAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.15, C:0.06, G:0.15, T:0.64
Consensus pattern (16 bp):
TTGTTCTGTTTAATTA
Found at i:556945 original size:13 final size:13
Alignment explanation
Indices: 556914--556954 Score: 50
Period size: 13 Copynumber: 3.2 Consensus size: 13
556904 TTCATGCAAA
556914 AAACAACAACAA-
1 AAACAACAACAAT
*
556926 ATTACAACAACAAT
1 A-AACAACAACAAT
556940 AAACAA-AACAAT
1 AAACAACAACAAT
556952 AAA
1 AAA
556955 ACAAACAAGA
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
12 10 0.40
13 14 0.56
14 1 0.04
ACGTcount: A:0.71, C:0.20, G:0.00, T:0.10
Consensus pattern (13 bp):
AAACAACAACAAT
Found at i:556973 original size:19 final size:17
Alignment explanation
Indices: 556940--556974 Score: 52
Period size: 19 Copynumber: 1.9 Consensus size: 17
556930 CAACAACAAT
556940 AAACAAAACAATAAAAC
1 AAACAAAACAATAAAAC
556957 AAACAAGAACAAATAAAA
1 AAACAA-AAC-AATAAAA
556975 GAAAAAACAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 6 0.38
18 3 0.19
19 7 0.44
ACGTcount: A:0.77, C:0.14, G:0.03, T:0.06
Consensus pattern (17 bp):
AAACAAAACAATAAAAC
Found at i:577974 original size:31 final size:31
Alignment explanation
Indices: 577939--577999 Score: 122
Period size: 31 Copynumber: 2.0 Consensus size: 31
577929 GCATAAGAAG
577939 AATGGGCAAAGAGAGATAACTGCTGAGAATA
1 AATGGGCAAAGAGAGATAACTGCTGAGAATA
577970 AATGGGCAAAGAGAGATAACTGCTGAGAAT
1 AATGGGCAAAGAGAGATAACTGCTGAGAAT
578000 GTTACCATTG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.44, C:0.10, G:0.30, T:0.16
Consensus pattern (31 bp):
AATGGGCAAAGAGAGATAACTGCTGAGAATA
Found at i:580985 original size:18 final size:18
Alignment explanation
Indices: 580962--580998 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
580952 ACAGCCCTAA
580962 AGATAGTGATCATGGAAC
1 AGATAGTGATCATGGAAC
580980 AGATAGTGATCATGGAAC
1 AGATAGTGATCATGGAAC
580998 A
1 A
580999 TACATTTCAG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.41, C:0.11, G:0.27, T:0.22
Consensus pattern (18 bp):
AGATAGTGATCATGGAAC
Found at i:581608 original size:14 final size:14
Alignment explanation
Indices: 581589--581616 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
581579 ATATACGGTA
581589 TCACACCGATAGTC
1 TCACACCGATAGTC
581603 TCACACCGATAGTC
1 TCACACCGATAGTC
581617 GACCAATCAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.29, C:0.36, G:0.14, T:0.21
Consensus pattern (14 bp):
TCACACCGATAGTC
Found at i:588096 original size:21 final size:21
Alignment explanation
Indices: 588072--588127 Score: 60
Period size: 21 Copynumber: 2.7 Consensus size: 21
588062 TATGGTTATG
588072 ATTTAAATGATATGCTATACT
1 ATTTAAATGATATGCTATACT
** *
588093 ATTTTGAGGATATGCTATACT
1 ATTTAAATGATATGCTATACT
*
588114 A-ATACAATGATATG
1 ATTTA-AATGATATG
588128 GTATGAAACT
Statistics
Matches: 27, Mismatches: 7, Indels: 2
0.75 0.19 0.06
Matches are distributed among these distances:
20 1 0.04
21 26 0.96
ACGTcount: A:0.38, C:0.09, G:0.14, T:0.39
Consensus pattern (21 bp):
ATTTAAATGATATGCTATACT
Found at i:610226 original size:166 final size:166
Alignment explanation
Indices: 609952--610276 Score: 578
Period size: 166 Copynumber: 2.0 Consensus size: 166
609942 NNNNNNNNNN
*
609952 ATATAGAATAAATCTTTAAAAATCTTCTTCTCAGAAACTAAACAGCCAGGAAAGCTGAAACTTGT
1 ATATAGAATAAATCTTTAAAAATCTTCTTCTCAGAAACTAAACAGCCAGGAAAACTGAAACTTGT
*
610017 GTGGAAGCATCCTCAGGTAGTGTAGATTCAAAGTTGTGAAAATCATGACCCCCGGGGGTAGGGTG
66 GTGGAAGCATCCTCAGGTAGTGTAGATTCAAAGTTGTGAAAATCATAACCCCCGGGGGTAGGGTG
* *
610082 GGGCCACAATGGGGGGTCGAAGTTTTACATAGGAAT
131 GGGCCACAATGGGGGGGCAAAGTTTTACATAGGAAT
*
610118 ATATAGAGTAAATCTTTAAAAATCTTCTTCTCAGAAACTAAACAGCCAGGAAAACTGAAACTTGT
1 ATATAGAATAAATCTTTAAAAATCTTCTTCTCAGAAACTAAACAGCCAGGAAAACTGAAACTTGT
* * *
610183 GTGGAAGCATCCTCAGGTAGTGTAGATTCAAAGTTGTGAAAATCATAACCCCTGGGGTTAGGTTG
66 GTGGAAGCATCCTCAGGTAGTGTAGATTCAAAGTTGTGAAAATCATAACCCCCGGGGGTAGGGTG
610248 GGGCCACAATGGGGGGGCAAAGTTTTACA
131 GGGCCACAATGGGGGGGCAAAGTTTTACA
610277 NNNNNNNNNN
Statistics
Matches: 151, Mismatches: 8, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
166 151 1.00
ACGTcount: A:0.34, C:0.16, G:0.25, T:0.25
Consensus pattern (166 bp):
ATATAGAATAAATCTTTAAAAATCTTCTTCTCAGAAACTAAACAGCCAGGAAAACTGAAACTTGT
GTGGAAGCATCCTCAGGTAGTGTAGATTCAAAGTTGTGAAAATCATAACCCCCGGGGGTAGGGTG
GGGCCACAATGGGGGGGCAAAGTTTTACATAGGAAT
Found at i:612583 original size:15 final size:15
Alignment explanation
Indices: 612565--612599 Score: 52
Period size: 16 Copynumber: 2.3 Consensus size: 15
612555 GCATTGCTAA
*
612565 AAATATTAGTTTCAC
1 AAATACTAGTTTCAC
612580 AAATTACTAGTTTCAC
1 AAA-TACTAGTTTCAC
612596 AAAT
1 AAAT
612600 TACCGGGTAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
15 4 0.22
16 14 0.78
ACGTcount: A:0.43, C:0.14, G:0.06, T:0.37
Consensus pattern (15 bp):
AAATACTAGTTTCAC
Found at i:612592 original size:16 final size:16
Alignment explanation
Indices: 612571--612602 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
612561 CTAAAAATAT
612571 TAGTTTCACAAATTAC
1 TAGTTTCACAAATTAC
612587 TAGTTTCACAAATTAC
1 TAGTTTCACAAATTAC
612603 CGGGTATATT
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:0.38, C:0.19, G:0.06, T:0.38
Consensus pattern (16 bp):
TAGTTTCACAAATTAC
Found at i:615077 original size:328 final size:327
Alignment explanation
Indices: 614480--615136 Score: 1305
Period size: 328 Copynumber: 2.0 Consensus size: 327
614470 TGCCTGCCTC
614480 TTAGCTAACGCCTTCCTCTGCACCTTCCCAAGAAGGAATGCACGAGGAAAGTCTGCAGAATATTA
1 TTAGCTAACGCCTTCCTCTGCACCTTCCCAAGAAGGAATGCACGAGGAAAGTCTGCAGAATATTA
614545 TAATTATCCTTCAATCAATTTCAATAGGTGAAGATTTTTGGTCTTATCGCAATTTTACAGTATTT
66 TAATTATCCTTCAATCAATTTCAATAGGTGAAGATTTTTGGTCTTATCGCAATTTTACAGTATTT
614610 GAATAATTAATTTGTTGAATGTATTATATATATGTTAACTGTATTCTCAAATTACAAGACATCAA
131 GAATAATTAATTTGTTGAATGTATTATATATATGTTAACTGTATTCTCAAATTACAAGACATCAA
614675 TCATTAGCAACCAAAGACATTTTGTAATGAGATTGATTTATTTATGTGTCAGTTTGAAGGAAACA
196 TCATTAGCAACCAAAGACATTTTGTAATGAGATTGATTTATTTATGTGTCAGTTTGAAGGAAACA
614740 ATTTCAACTACACAGGTACAGAGGTTTGTTGACTAAATAGCCAGACATTGTAATGATGGTATTGT
261 ATTTCAACTACACAGGTACAGAGGTTTGTTGACTAAATAGCCAGACATTGTAATGATGGTATTGT
614805 CT
326 CT
614807 NTTAGCTAACGCCTTCCTCTGCACCTTCCCAAGAAGGAATGCACGAGGAAAGTCTGCAGAATATT
1 -TTAGCTAACGCCTTCCTCTGCACCTTCCCAAGAAGGAATGCACGAGGAAAGTCTGCAGAATATT
614872 ATAATTATCCTTCAATCAATTTCAATAGGTGAAGATTTTTGGTCTTATCGCAATTTTACAGTATT
65 ATAATTATCCTTCAATCAATTTCAATAGGTGAAGATTTTTGGTCTTATCGCAATTTTACAGTATT
614937 TGAATAATTAATTTGTTGAATGTATTATATATATGTTAACTGTATTCTCAAATTACAAGACATCA
130 TGAATAATTAATTTGTTGAATGTATTATATATATGTTAACTGTATTCTCAAATTACAAGACATCA
615002 ATCATTAGCAACCAAAGACATTTTGTAATGAGATTGATTTATTTATGTGTCAGTTTGAAGGAAAC
195 ATCATTAGCAACCAAAGACATTTTGTAATGAGATTGATTTATTTATGTGTCAGTTTGAAGGAAAC
615067 AATTTCAACTACACAGGTACAGAGGTTTGTTGACTAAATAGCCAGACATTGTAATGATGGTATTG
260 AATTTCAACTACACAGGTACAGAGGTTTGTTGACTAAATAGCCAGACATTGTAATGATGGTATTG
615132 TCT
325 TCT
615135 TT
1 TT
615137 CTATTTCAGT
Statistics
Matches: 329, Mismatches: 0, Indels: 1
1.00 0.00 0.00
Matches are distributed among these distances:
327 2 0.01
328 327 0.99
ACGTcount: A:0.33, C:0.15, G:0.16, T:0.35
Consensus pattern (327 bp):
TTAGCTAACGCCTTCCTCTGCACCTTCCCAAGAAGGAATGCACGAGGAAAGTCTGCAGAATATTA
TAATTATCCTTCAATCAATTTCAATAGGTGAAGATTTTTGGTCTTATCGCAATTTTACAGTATTT
GAATAATTAATTTGTTGAATGTATTATATATATGTTAACTGTATTCTCAAATTACAAGACATCAA
TCATTAGCAACCAAAGACATTTTGTAATGAGATTGATTTATTTATGTGTCAGTTTGAAGGAAACA
ATTTCAACTACACAGGTACAGAGGTTTGTTGACTAAATAGCCAGACATTGTAATGATGGTATTGT
CT
Found at i:615263 original size:37 final size:37
Alignment explanation
Indices: 615206--615573 Score: 556
Period size: 37 Copynumber: 9.9 Consensus size: 37
615196 AGTGCATCTT
* * *
615206 TAATTACTTTAGACGGGTCACAACAGCGAGTGAGTAG
1 TAATTACTTTAGACGCGTCACAACAGTGAGTAAGTAG
* * *
615243 TAATTACTGTAGATGCGTCACAACAGTGAGTAAATAG
1 TAATTACTTTAGACGCGTCACAACAGTGAGTAAGTAG
* * *
615280 TAATTACTGTAGATGCGTCACAAGAGTGAGTAAGTAG
1 TAATTACTTTAGACGCGTCACAACAGTGAGTAAGTAG
*
615317 TAATAACTTTAGACGCGTCACAACAGTGAGTAAGTAG
1 TAATTACTTTAGACGCGTCACAACAGTGAGTAAGTAG
* *
615354 TAATAACTTTAGATGCGTCACAACAGTGAGTAAGTAG
1 TAATTACTTTAGACGCGTCACAACAGTGAGTAAGTAG
* *
615391 TAATTACTTTAGATGCGTCACAAGAGTGAGTAAGTAG
1 TAATTACTTTAGACGCGTCACAACAGTGAGTAAGTAG
*
615428 TAATTACTTTAGATGCGTCACAACAGTGAGTAAGTAG
1 TAATTACTTTAGACGCGTCACAACAGTGAGTAAGTAG
* *
615465 TAATAACTTTAGACACGTCACAACAGTGAGTAAGTAG
1 TAATTACTTTAGACGCGTCACAACAGTGAGTAAGTAG
* *
615502 TAATTACTTTAGACACATCACAACAGTGAGTAAGTAG
1 TAATTACTTTAGACGCGTCACAACAGTGAGTAAGTAG
*
615539 TAATTACTTTAGACGCGTCACAACAGCGAGTAAGT
1 TAATTACTTTAGACGCGTCACAACAGTGAGTAAGT
615574 CAGCCTTATT
Statistics
Matches: 307, Mismatches: 24, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
37 307 1.00
ACGTcount: A:0.37, C:0.15, G:0.22, T:0.27
Consensus pattern (37 bp):
TAATTACTTTAGACGCGTCACAACAGTGAGTAAGTAG
Found at i:622089 original size:162 final size:161
Alignment explanation
Indices: 621554--622128 Score: 622
Period size: 162 Copynumber: 3.6 Consensus size: 161
621544 TCAAATATTA
* * * * *
621554 AACTTGATCTAAATATTATTATTATAAACCTGTATACTAAATATTATTTCAATAAGTGCATCCTA
1 AACTTGATCTAAATATTATTATGATAAACCTGTAAACTAAATTTTATTTCAATATGTGCAGCCTA
* * * *
621619 TGCGAAGAAAATGAACGGAAACTGTAAATAAATGGAATTTTTCTACGTCCAAGGGGCATAATTCT
66 TGCAAAGAAAATGAACGGAAACTGCAAATAAATGGAATTTTTTTACATCCAAGGGGCATAATTCT
* * *
621684 GTCAAAAATTGCCCTCGATTGTACCAAAAATCG
131 GTCAAAAATTG--CTTGATTGTACCCAAATTCG
* * * * * * *
621717 AAC-----CTAGATATTAATATGATAAACCTGTAAACTACATTTTATTTCATTATGTTCAGTCTC
1 AACTTGATCTAAATATTATTATGATAAACCTGTAAACTAAATTTTATTTCAATATGTGCAGCCTA
* * * * ***
621777 TGCAAAGAAAATGAACGGAAACTTCAAATAATTGGAAATTTTCTAAGTCAAGTCCAAGACACATA
66 TGCAAAGAAAATGAACGGAAACTGCAAATAAATGG-AATTTTTTTA--C-A-TCCAAGGGGCATA
* * ***
621842 ACTCTGTCAAAAAATGCTTGATCAAACCCAAAATT-G
126 ATTCTGTCAAAAATTGCTTGATTGTACCC-AAATTCG
* * * * * **
621878 AAATCGATCTAAATATTATTATGATAAACCTGTATACCAAATCTTATTTCAATATGTGCATTCTA
1 AACTTGATCTAAATATTATTATGATAAACCTGTAAACTAAATTTTATTTCAATATGTGCAGCCTA
*
621943 TGCAAAGAAAATGAACGGAAACTGCAAATAAATGGATTTTTTTTTACATCCAAGGGGCATAATTC
66 TGCAAAGAAAATGAACGGAAACTGCAAATAAATGGA-ATTTTTTTACATCCAAGGGGCATAATTC
622008 TGTCAAAAATTGCTTGATTGTACCCAAATTCG
130 TGTCAAAAATTGCTTGATTGTACCCAAATTCG
** * * *
622040 AACTTGATCTAGTTATTATTATGATAAACCTGTAAACTACATTTTATTTCAATATGTTCAGCCTC
1 AACTTGATCTAAATATTATTATGATAAACCTGTAAACTAAATTTTATTTCAATATGTGCAGCCTA
*
622105 TGCGAAGAAAATGAACGGAAACTG
66 TGCAAAGAAAATGAACGGAAACTG
622129 TTGGTGGACC
Statistics
Matches: 331, Mismatches: 68, Indels: 27
0.78 0.16 0.06
Matches are distributed among these distances:
158 76 0.23
159 7 0.02
161 17 0.05
162 115 0.35
163 28 0.08
164 1 0.00
165 1 0.00
166 86 0.26
ACGTcount: A:0.39, C:0.16, G:0.13, T:0.32
Consensus pattern (161 bp):
AACTTGATCTAAATATTATTATGATAAACCTGTAAACTAAATTTTATTTCAATATGTGCAGCCTA
TGCAAAGAAAATGAACGGAAACTGCAAATAAATGGAATTTTTTTACATCCAAGGGGCATAATTCT
GTCAAAAATTGCTTGATTGTACCCAAATTCG
Found at i:622269 original size:2 final size:2
Alignment explanation
Indices: 622220--622251 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
622210 TAATTATAAC
622220 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
622252 TACCTTCATT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
GA
Found at i:627737 original size:21 final size:21
Alignment explanation
Indices: 627711--627780 Score: 61
Period size: 21 Copynumber: 3.3 Consensus size: 21
627701 GTGCGAGAAA
627711 CGTTTCGAGTAAACCGTTTAG
1 CGTTTCGAGTAAACCGTTTAG
* * * **
627732 CGTTTCGTGTGAATCGTGAAG
1 CGTTTCGAGTAAACCGTTTAG
**
627753 CACTTC-ATGTAAACCGTTTAG
1 CGTTTCGA-GTAAACCGTTTAG
627774 CGTTTCG
1 CGTTTCG
627781 GGCAAAGCGT
Statistics
Matches: 33, Mismatches: 14, Indels: 3
0.66 0.28 0.06
Matches are distributed among these distances:
21 33 1.00
ACGTcount: A:0.21, C:0.20, G:0.24, T:0.34
Consensus pattern (21 bp):
CGTTTCGAGTAAACCGTTTAG
Found at i:630481 original size:31 final size:31
Alignment explanation
Indices: 630372--630701 Score: 213
Period size: 31 Copynumber: 10.6 Consensus size: 31
630362 ACCACACCAT
* *
630372 CACACTACAACACAGCTAATAACACAACAAC
1 CACACCACAACACAGGTAATAACACAACAAC
* ** * ** *
630403 TACAATACCATGCAGGTAATTACCACAACAAC
1 CACACCACAACACAGGTAA-TAACACAACAAC
* ** * *
630435 AACA-CAGTGATACAGGTATTAACACAACAAC
1 CACACCA-CAACACAGGTAATAACACAACAAC
* * *
630466 CACACCACGACACAGGTAATAACCACAATAAT
1 CACACCACAACACAGGTAATAA-CACAACAAC
* * *
630498 CACACCACAATAC-TGTAAT-A-ATAACAAC
1 CACACCACAACACAGGTAATAACACAACAAC
* *
630526 CACACCACCACACAGGTAATAGCTACAACAAC
1 CACACCACAACACAGGTAATAAC-ACAACAAC
** * * *
630558 CTTAACACAACAAATGTAATAACACAACAAC
1 CACACCACAACACAGGTAATAACACAACAAC
* * * * * *
630589 TATACTACCATACAGGTAATTACCACAACAA-
1 CACACCACAACACAGGTAA-TAACACAACAAC
* *
630620 CACCACCACCACATAGGTAATAACACAACAAC
1 CA-CACCACAACACAGGTAATAACACAACAAC
* *
630652 CACACC-CTGATACAGGTAATAACACAACAAC
1 CACACCAC-AACACAGGTAATAACACAACAAC
*
630683 TACACCACAACACAGGTAA
1 CACACCACAACACAGGTAA
630702 AAACCTAGTA
Statistics
Matches: 227, Mismatches: 59, Indels: 26
0.73 0.19 0.08
Matches are distributed among these distances:
28 16 0.07
29 5 0.02
30 2 0.01
31 113 0.50
32 91 0.40
ACGTcount: A:0.48, C:0.31, G:0.08, T:0.14
Consensus pattern (31 bp):
CACACCACAACACAGGTAATAACACAACAAC
Found at i:630482 original size:63 final size:60
Alignment explanation
Indices: 630378--630701 Score: 219
Period size: 63 Copynumber: 5.2 Consensus size: 60
630368 CCATCACACT
* * ** **
630378 ACAACACAGCTAATAACACAACAACTACAATACCATGCAGGTAATTACCACAACAACAAC
1 ACAACACAGGTAATAACACAACAACCACACCACCACACAGGTAATTACCACAACAACAAC
* * * * *
630438 ACAGTGATACAGGTATTAACACAACAACCACACCACGACACAGGTAATAACCACAATAATCACAC
1 ACA---ACACAGGTAATAACACAACAACCACACCACCACACAGGTAATTACCACAACAA-CA-A-
630503 C
60 C
* * * *
630504 ACAATAC-TGTAAT-A-ATAACAACCACACCACCACACAGGTAA-TAGCTACAACAACCTTAAC
1 ACAACACAGGTAATAACACAACAACCACACCACCACACAGGTAATTA-CCACAACAA-C--AAC
* * * * * *
630564 ACAACAAATGTAATAACACAACAACTATACTACCATACAGGTAATTACCACAACAACACCACC
1 ACAACACAGGTAATAACACAACAACCACACCACCACACAGGTAATTACCACAACAACA--A-C
* * * * *
630627 ACCACATAGGTAATAACACAACAACCACACC-CTGATACAGGTAA-TAACACAACAACTACACC
1 ACAACACAGGTAATAACACAACAACCACACCAC-CACACAGGTAATTACCACAACAAC-A-A-C
630689 ACAACACAGGTAA
1 ACAACACAGGTAA
630702 AAACCTAGTA
Statistics
Matches: 209, Mismatches: 37, Indels: 34
0.75 0.13 0.12
Matches are distributed among these distances:
59 1 0.00
60 43 0.21
61 8 0.04
62 35 0.17
63 113 0.54
64 4 0.02
65 1 0.00
66 4 0.02
ACGTcount: A:0.48, C:0.30, G:0.08, T:0.14
Consensus pattern (60 bp):
ACAACACAGGTAATAACACAACAACCACACCACCACACAGGTAATTACCACAACAACAAC
Found at i:631043 original size:21 final size:21
Alignment explanation
Indices: 631014--631060 Score: 85
Period size: 21 Copynumber: 2.2 Consensus size: 21
631004 GATTTAAATG
*
631014 TATCGGGATAGGATATTATGC
1 TATCAGGATAGGATATTATGC
631035 TATCAGGATAGGATATTATGC
1 TATCAGGATAGGATATTATGC
631056 TATCA
1 TATCA
631061 ATCATGACTA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.32, C:0.11, G:0.23, T:0.34
Consensus pattern (21 bp):
TATCAGGATAGGATATTATGC
Found at i:642368 original size:46 final size:45
Alignment explanation
Indices: 642209--642377 Score: 169
Period size: 46 Copynumber: 3.7 Consensus size: 45
642199 CCCTTTGTAC
* *
642209 TGACTACTGTCTACTCCTTATAGTGGCTACTGTCTGCCACTTAAAT
1 TGACTACTGTCTTC-CCTTATAGTGGCTACTGTCTGCCACTTATAT
* * * * * *
642255 TGACTACTGTCTGTCACTTAAATTGACTACTGTCTTCC-CTTCATAC
1 TGACTACTGTCT-TCCCTTATAGTGGCTACTGTCTGCCACTT-ATAT
* * * *
642301 TGACTATTGTCTACTTCTCATAGTGGCTACTGTCTGCCACTTATAT
1 TGACTACTGTCTTC-CCTTATAGTGGCTACTGTCTGCCACTTATAT
*
642347 TGACTACTGTCTTCCCTTCATACTGGCTACT
1 TGACTACTGTCTTCCCTT-ATAGTGGCTACT
642378 ACTGGGTTCT
Statistics
Matches: 96, Mismatches: 22, Indels: 10
0.75 0.17 0.08
Matches are distributed among these distances:
45 6 0.06
46 86 0.90
47 4 0.04
ACGTcount: A:0.20, C:0.27, G:0.14, T:0.39
Consensus pattern (45 bp):
TGACTACTGTCTTCCCTTATAGTGGCTACTGTCTGCCACTTATAT
Found at i:642376 original size:23 final size:22
Alignment explanation
Indices: 642206--642377 Score: 119
Period size: 23 Copynumber: 7.5 Consensus size: 22
642196 CTACCCTTTG
*
642206 TACTGACTACTGTCTACTCCTTA
1 TACTGACTACTGTCTTC-CCTTA
* * *
642229 TAGTGGCTACTGTCTGCCACTTA
1 TACTGACTACTGTCTTCC-CTTA
* * *
642252 AATTGACTACTGTCTGTCACTTA
1 TACTGACTACTGTCT-TCCCTTA
* *
642275 AATTGACTACTGTCTTCCCTTCA
1 TACTGACTACTGTCTTCCCTT-A
* * * *
642298 TACTGACTATTGTCTACTTCTCA
1 TACTGACTACTGTCTTC-CCTTA
* * *
642321 TAGTGGCTACTGTCTGCCACTTA
1 TACTGACTACTGTCTTCC-CTTA
*
642344 TATTGACTACTGTCTTCCCTTCA
1 TACTGACTACTGTCTTCCCTT-A
*
642367 TACTGGCTACT
1 TACTGACTACT
642378 ACTGGGTTCT
Statistics
Matches: 117, Mismatches: 26, Indels: 12
0.75 0.17 0.08
Matches are distributed among these distances:
22 9 0.08
23 105 0.90
24 3 0.03
ACGTcount: A:0.20, C:0.27, G:0.13, T:0.39
Consensus pattern (22 bp):
TACTGACTACTGTCTTCCCTTA
Found at i:642439 original size:15 final size:16
Alignment explanation
Indices: 642419--642454 Score: 56
Period size: 16 Copynumber: 2.3 Consensus size: 16
642409 CTGTCTTTCT
642419 CTACT-CTTATACTGG
1 CTACTCCTTATACTGG
642434 CTACTCCTTATACTGG
1 CTACTCCTTATACTGG
*
642450 GTACT
1 CTACT
642455 GTCTACTCCT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 5 0.26
16 14 0.74
ACGTcount: A:0.19, C:0.28, G:0.14, T:0.39
Consensus pattern (16 bp):
CTACTCCTTATACTGG
Found at i:642454 original size:23 final size:23
Alignment explanation
Indices: 642428--642719 Score: 331
Period size: 23 Copynumber: 12.8 Consensus size: 23
642418 TCTACTCTTA
*
642428 TACTGGCTACTCCTTATACTGGG
1 TACTGTCTACTCCTTATACTGGG
642451 TACTGTCTACTCCTTATACTGGG
1 TACTGTCTACTCCTTATACTGGG
642474 TACTGTCTACTCCTTATACTGGG
1 TACTGTCTACTCCTTATACTGGG
642497 TACTGTCTACTCCTTATACTGGG
1 TACTGTCTACTCCTTATACTGGG
*
642520 TACTGTCTACTCCTTATACTGGT
1 TACTGTCTACTCCTTATACTGGG
* *
642543 TACTATCTACTCCTTATACTAGG
1 TACTGTCTACTCCTTATACTGGG
642566 TACTGTCTACTCCTTATACTGGG
1 TACTGTCTACTCCTTATACTGGG
* * *
642589 TACTGTCTATTCCTTATAGTGGC
1 TACTGTCTACTCCTTATACTGGG
* * ***
642612 TACTGTATAC-CATTATACTTAC
1 TACTGTCTACTCCTTATACTGGG
* *
642634 TACTGTCTAC-CACTTATATTGGC
1 TACTGTCTACTC-CTTATACTGGG
* * *
642657 CACTGTCTTCT-CTTCATACTGGC
1 TACTGTCTACTCCTT-ATACTGGG
* * ***
642680 CACTGTCTAC-CATTATACTAAC
1 TACTGTCTACTCCTTATACTGGG
*
642702 TACAGTCTACTCCTTATA
1 TACTGTCTACTCCTTATA
642720 TATGTACTCA
Statistics
Matches: 233, Mismatches: 31, Indels: 10
0.85 0.11 0.04
Matches are distributed among these distances:
22 35 0.15
23 198 0.85
ACGTcount: A:0.21, C:0.27, G:0.13, T:0.39
Consensus pattern (23 bp):
TACTGTCTACTCCTTATACTGGG
Found at i:643020 original size:16 final size:16
Alignment explanation
Indices: 642999--643029 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
642989 ATGGTTTATC
*
642999 CCTTATACTGTCTACT
1 CCTTATACTGACTACT
643015 CCTTATACTGACTAC
1 CCTTATACTGACTAC
643030 AGTATACTTT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.23, C:0.32, G:0.06, T:0.39
Consensus pattern (16 bp):
CCTTATACTGACTACT
Found at i:643106 original size:15 final size:16
Alignment explanation
Indices: 643086--643121 Score: 65
Period size: 15 Copynumber: 2.3 Consensus size: 16
643076 TTACACTGCC
643086 TACTGTCTAC-CCTTA
1 TACTGTCTACTCCTTA
643101 TACTGTCTACTCCTTA
1 TACTGTCTACTCCTTA
643117 TACTG
1 TACTG
643122 ACTATAGTAT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
15 10 0.50
16 10 0.50
ACGTcount: A:0.19, C:0.31, G:0.08, T:0.42
Consensus pattern (16 bp):
TACTGTCTACTCCTTA
Found at i:643196 original size:36 final size:36
Alignment explanation
Indices: 643101--643180 Score: 151
Period size: 36 Copynumber: 2.2 Consensus size: 36
643091 TCTACCCTTA
*
643101 TACTGTCTACTCCTTATACTGACTATAGTATACTTT
1 TACTGTCTACTCCTAATACTGACTATAGTATACTTT
643137 TACTGTCTACTCCTAATACTGACTATAGTATACTTT
1 TACTGTCTACTCCTAATACTGACTATAGTATACTTT
643173 TACTGTCT
1 TACTGTCT
643181 TTCACTAATA
Statistics
Matches: 43, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
36 43 1.00
ACGTcount: A:0.25, C:0.23, G:0.09, T:0.44
Consensus pattern (36 bp):
TACTGTCTACTCCTAATACTGACTATAGTATACTTT
Found at i:643237 original size:22 final size:23
Alignment explanation
Indices: 643199--643244 Score: 67
Period size: 22 Copynumber: 2.0 Consensus size: 23
643189 TATTGACTTA
643199 TGTCTACTCATTATACTGCCTAC
1 TGTCTACTCATTATACTGCCTAC
* *
643222 TGTCTAC-CCTTATACTGTCTAC
1 TGTCTACTCATTATACTGCCTAC
643244 T
1 T
643245 CCTTATACTG
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
22 14 0.67
23 7 0.33
ACGTcount: A:0.20, C:0.30, G:0.09, T:0.41
Consensus pattern (23 bp):
TGTCTACTCATTATACTGCCTAC
Found at i:643239 original size:15 final size:16
Alignment explanation
Indices: 643219--643254 Score: 65
Period size: 15 Copynumber: 2.3 Consensus size: 16
643209 TTATACTGCC
643219 TACTGTCTAC-CCTTA
1 TACTGTCTACTCCTTA
643234 TACTGTCTACTCCTTA
1 TACTGTCTACTCCTTA
643250 TACTG
1 TACTG
643255 ACTATAGTAT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
15 10 0.50
16 10 0.50
ACGTcount: A:0.19, C:0.31, G:0.08, T:0.42
Consensus pattern (16 bp):
TACTGTCTACTCCTTA
Found at i:643242 original size:133 final size:133
Alignment explanation
Indices: 643004--643526 Score: 604
Period size: 133 Copynumber: 3.8 Consensus size: 133
642994 TTATCCCTTA
643004 TACTGTCTACTCCTTATACTGACTACAGTATACTTTTACTGTCTTTCACTAATATTGACTTATGT
1 TACTGTCTACTCCTTATACTGACTACAGTATACTTTTACTGTCTTTCACTAATATTGACTTATGT
* *
643069 CTACTCATTACACTGCCTACTGTCTACCCTTATACTGTCTACTCCTTATACTGACTATAGTATAC
66 CTACTCATTATACTGCCTACTGTCTACCATTATACTGTCTACTCCTTATACTGACTATAGTATAC
643134 TTT
131 TTT
* *
643137 TACTGTCTACTCCTAATACTGACTATAGTATACTTTTACTGTCTTTCACTAATATTGACTTATGT
1 TACTGTCTACTCCTTATACTGACTACAGTATACTTTTACTGTCTTTCACTAATATTGACTTATGT
*
643202 CTACTCATTATACTGCCTACTGTCTACCCTTATACTGTCTACTCCTTATACTGACTATAGTATAC
66 CTACTCATTATACTGCCTACTGTCTACCATTATACTGTCTACTCCTTATACTGACTATAGTATAC
643267 TTT
131 TTT
* *
643270 TACTGTCTACTCCTTATACTGACTATAGTATACTTTTACTGTCTACTC-CTTATACTGACTATAG
1 TACTGTCTACTCCTTATACTGACTACAGTATACTTTTACTGTCT-TTCAC-TA-A-T-A-T-T-G
* * * * ** * * *
643334 TATACTTTTACTGTCT-TTCACTAATATTGACTTTTGTATACTTATTATACTATCTAC-CCTTAT
58 ---AC--TTA-TGTCTACTCA-TTATACTGCCTACTGTCTAC-CATTATACTGTCTACTCCTTAT
* ** *
643397 ACTGTCTACTCCTTATACTGACT
115 ACTGACTA-T-AGTATACT--TT
* * * * *
643420 T-CAGTCTACTCCCTCTACTGACTACAGTTTACTTTTACTGTCTTTCACTCATATTGACTTATGT
1 TACTGTCTACTCCTTATACTGACTACAGTATACTTTTACTGTCTTTCACTAATATTGACTTATGT
*
643484 CTACTCATTATACTGTCTACTGTCTACCATTATACTGTCTACT
66 CTACTCATTATACTGCCTACTGTCTACCATTATACTGTCTACT
643527 GTCTACCATT
Statistics
Matches: 332, Mismatches: 35, Indels: 43
0.81 0.09 0.10
Matches are distributed among these distances:
133 174 0.52
134 4 0.01
135 14 0.04
136 20 0.06
137 7 0.02
138 1 0.00
139 3 0.01
140 1 0.00
142 1 0.00
143 3 0.01
144 1 0.00
145 7 0.02
146 33 0.10
147 14 0.04
148 9 0.03
149 38 0.11
150 2 0.01
ACGTcount: A:0.24, C:0.25, G:0.08, T:0.43
Consensus pattern (133 bp):
TACTGTCTACTCCTTATACTGACTACAGTATACTTTTACTGTCTTTCACTAATATTGACTTATGT
CTACTCATTATACTGCCTACTGTCTACCATTATACTGTCTACTCCTTATACTGACTATAGTATAC
TTT
Found at i:643289 original size:169 final size:162
Alignment explanation
Indices: 643101--643419 Score: 539
Period size: 169 Copynumber: 1.9 Consensus size: 162
643091 TCTACCCTTA
643101 TACTGTCTACTCCTTATACTGACTATAGTATACTTTTACTGTCTACTCCTAATACTGACTATAGT
1 TACTGTCTACTCCTTATACTGACTATAGTATACTTTTACTGTCTACTCCTAATACTGACTATAGT
*
643166 ATACTTTTACTGTCTTTCACTAATATTGACTTATGTCTACTCATTATACTGCCTACTGTCTACCC
66 ATACTTTTACTGTCTTTCACTAATATTGACTTATGTATACTCATTATA----CTA---TCTACCC
643231 TTATACTGTCTACTCCTTATACTGACTATAGTATACTTT
124 TTATACTGTCTACTCCTTATACTGACTATAGTATACTTT
*
643270 TACTGTCTACTCCTTATACTGACTATAGTATACTTTTACTGTCTACTCCTTATACTGACTATAGT
1 TACTGTCTACTCCTTATACTGACTATAGTATACTTTTACTGTCTACTCCTAATACTGACTATAGT
* *
643335 ATACTTTTACTGTCTTTCACTAATATTGACTTTTGTATACTTATTATACTATCTACCCTTATACT
66 ATACTTTTACTGTCTTTCACTAATATTGACTTATGTATACTCATTATACTATCTACCCTTATACT
643400 GTCTACTCCTTATACTGACT
131 GTCTACTCCTTATACTGACT
643420 TCAGTCTACT
Statistics
Matches: 146, Mismatches: 4, Indels: 7
0.93 0.03 0.04
Matches are distributed among these distances:
162 34 0.23
165 3 0.02
169 109 0.75
ACGTcount: A:0.25, C:0.23, G:0.08, T:0.44
Consensus pattern (162 bp):
TACTGTCTACTCCTTATACTGACTATAGTATACTTTTACTGTCTACTCCTAATACTGACTATAGT
ATACTTTTACTGTCTTTCACTAATATTGACTTATGTATACTCATTATACTATCTACCCTTATACT
GTCTACTCCTTATACTGACTATAGTATACTTT
Found at i:643365 original size:72 final size:75
Alignment explanation
Indices: 643231--643400 Score: 242
Period size: 72 Copynumber: 2.3 Consensus size: 75
643221 CTGTCTACCC
*
643231 TTATACTGTCTACTCCTTATACTGACTATAGTATACTTTTACTGTCTACTCCTTATACTGACTAT
1 TTATACTGTCTACTCCTTATACTGACTATAGTATACTTTTACTGTCTACTCCTAATACTGACTAT
643296 AGTATAC-T-
66 AGTATACTTA
* * *
643304 TT-TACTGTCTACTCCTTATACTGACTATAGTATACTTTTACTGTCT-TTCACTAATATTGACTT
1 TTATACTGTCTACTCCTTATACTGACTATAGTATACTTTTACTGTCTACTC-CTAATACTGACTA
*
643367 TTGTATACTTA
65 TAGTATACTTA
*
643378 TTATACTATCTAC-CCTTATACTG
1 TTATACTGTCTACTCCTTATACTG
643401 TCTACTCCTT
Statistics
Matches: 87, Mismatches: 6, Indels: 7
0.87 0.06 0.07
Matches are distributed among these distances:
71 2 0.02
72 61 0.70
73 3 0.03
74 12 0.14
75 9 0.10
ACGTcount: A:0.25, C:0.21, G:0.08, T:0.46
Consensus pattern (75 bp):
TTATACTGTCTACTCCTTATACTGACTATAGTATACTTTTACTGTCTACTCCTAATACTGACTAT
AGTATACTTA
Found at i:643376 original size:36 final size:36
Alignment explanation
Indices: 643234--643349 Score: 232
Period size: 36 Copynumber: 3.2 Consensus size: 36
643224 TCTACCCTTA
643234 TACTGTCTACTCCTTATACTGACTATAGTATACTTT
1 TACTGTCTACTCCTTATACTGACTATAGTATACTTT
643270 TACTGTCTACTCCTTATACTGACTATAGTATACTTT
1 TACTGTCTACTCCTTATACTGACTATAGTATACTTT
643306 TACTGTCTACTCCTTATACTGACTATAGTATACTTT
1 TACTGTCTACTCCTTATACTGACTATAGTATACTTT
643342 TACTGTCT
1 TACTGTCT
643350 TTCACTAATA
Statistics
Matches: 80, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 80 1.00
ACGTcount: A:0.24, C:0.22, G:0.09, T:0.45
Consensus pattern (36 bp):
TACTGTCTACTCCTTATACTGACTATAGTATACTTT
Found at i:643412 original size:16 final size:15
Alignment explanation
Indices: 643378--643416 Score: 60
Period size: 15 Copynumber: 2.5 Consensus size: 15
643368 TGTATACTTA
*
643378 TTATACTATCTACCC
1 TTATACTGTCTACCC
643393 TTATACTGTCTACTCC
1 TTATACTGTCTAC-CC
643409 TTATACTG
1 TTATACTG
643417 ACTTCAGTCT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
15 12 0.55
16 10 0.45
ACGTcount: A:0.23, C:0.28, G:0.05, T:0.44
Consensus pattern (15 bp):
TTATACTGTCTACCC
Found at i:643426 original size:23 final size:23
Alignment explanation
Indices: 643400--643452 Score: 70
Period size: 23 Copynumber: 2.3 Consensus size: 23
643390 CCCTTATACT
* *
643400 GTCTACTCCTTATACTGACTTCA
1 GTCTACTCCCTATACTGACTACA
*
643423 GTCTACTCCCTCTACTGACTACA
1 GTCTACTCCCTATACTGACTACA
*
643446 GTTTACT
1 GTCTACT
643453 TTTACTGTCT
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
23 26 1.00
ACGTcount: A:0.21, C:0.32, G:0.09, T:0.38
Consensus pattern (23 bp):
GTCTACTCCCTATACTGACTACA
Found at i:643498 original size:59 final size:58
Alignment explanation
Indices: 643309--643503 Score: 161
Period size: 59 Copynumber: 3.4 Consensus size: 58
643299 ATACTTTTAC
* * *
643309 TGTCTACTCCTTATACTGACTATAGTATACTTTTACTGTCTTTCACTAATATTGACTTT
1 TGTCTACTCATTATACTGACTACAGT-TACTTTTACTGTCTTTCACTAATATTGACTTA
* * * * * * *
643368 TGTATACTTATTATACT-ATCTAC----CCTTATACTGTCTACTC-CTTATACTGACTTCA
1 TGTCTACTCATTATACTGA-CTACAGTTACTTTTACTGTCT-TTCACTAATATTGACTT-A
** * *
643423 -GTCTACTCCCTCTACTGACTACAGTTTACTTTTACTGTCTTTCACTCATATTGACTTA
1 TGTCTACTCATTATACTGACTACAG-TTACTTTTACTGTCTTTCACTAATATTGACTTA
*
643481 TGTCTACTCATTATACTGTCTAC
1 TGTCTACTCATTATACTGACTAC
643504 TGTCTACCAT
Statistics
Matches: 101, Mismatches: 24, Indels: 22
0.69 0.16 0.15
Matches are distributed among these distances:
54 37 0.37
55 3 0.03
58 4 0.04
59 57 0.56
ACGTcount: A:0.23, C:0.25, G:0.08, T:0.45
Consensus pattern (58 bp):
TGTCTACTCATTATACTGACTACAGTTACTTTTACTGTCTTTCACTAATATTGACTTA
Found at i:643517 original size:22 final size:22
Alignment explanation
Indices: 643481--643548 Score: 127
Period size: 22 Copynumber: 3.0 Consensus size: 22
643471 TATTGACTTA
643481 TGTCTACTCATTATACTGTCTAC
1 TGTCTAC-CATTATACTGTCTAC
643504 TGTCTACCATTATACTGTCTAC
1 TGTCTACCATTATACTGTCTAC
643526 TGTCTACCATTATACTGTCTAC
1 TGTCTACCATTATACTGTCTAC
643548 T
1 T
643549 CCTGCTGCTG
Statistics
Matches: 45, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
22 38 0.84
23 7 0.16
ACGTcount: A:0.22, C:0.26, G:0.09, T:0.43
Consensus pattern (22 bp):
TGTCTACCATTATACTGTCTAC
Found at i:652562 original size:163 final size:161
Alignment explanation
Indices: 652291--652960 Score: 828
Period size: 163 Copynumber: 4.1 Consensus size: 161
652281 GGTCCACCAA
* * * * * *
652291 CAGTTTCCGTTCATTTTCTTTGCA-AGGGATGAACATATTGAAACGAAATTTAGTATACAGGTTT
1 CAGTTTCCGCTCATTTTCTTCGGAGA-GGATGAACATATTGAAATGAAATTTGGTATACAGGTGT
* * * *
652355 ATTATGATAATATCTAGGTCAAGTTCGATACTGGGTATGATCGAGCAATTTTCGACAGAGTTATG
65 ATCATGATAATATCTAGGTCAAGTTTGATATTGGGTACGATCGAGCAATTTTCGACAGAGTTATG
652420 GCCCTTGGACGTAAAAAAATTCCAGGTATTTG
130 GCCCTTGGACGTAAAAAAATTCCAGGTATTTG
* *
652452 CAGTTTCCGCTCATTTTCTTCGGAGAGGATGAACATATATTGAAATGAAATTTGGTGTACATGTG
1 CAGTTTCCGCTCATTTTCTTCGGAGAGGATGAAC--ATATTGAAATGAAATTTGGTATACAGGTG
*
652517 TATCATGATAATATCTAGGTCATGTTTGATATTGGGTACGATCGAGCAATTTTCGACAGAGTTAT
64 TATCATGATAATATCTAGGTCAAGTTTGATATTGGGTACGATCGAGCAATTTTCGACAGAGTTAT
*
652582 GGCCCTTGGACGTAAAAAAAAATTCCAGGTATTTA
129 GGCCCTTGGACGT--AAAAAAATTCCAGGTATTTG
* *
652617 CAGTTTCCGCTCATTTTCTTAGGAGAGGATGAACATATTGAAATGAAATTTGGTATACGGGTGTA
1 CAGTTTCCGCTCATTTTCTTCGGAGAGGATGAACATATTGAAATGAAATTTGGTATACAGGTGTA
* * * * * *
652682 TCATGATAATATTTAGGTCAAGTTTGATATTGGGTACGGTCAAGCAATATTCAACAGAATTATGG
66 TCATGATAATATCTAGGTCAAGTTTGATATTGGGTACGATCGAGCAATTTTCGACAGAGTTATGG
** * *
652747 CCCTTGGATATAGAAAAATTCCAGTTATTTG
131 CCCTTGGACGTAAAAAAATTCCAGGTATTTG
* * * * *
652778 CAGTTTCTGCTCATTTTCTTCGCG-GAGGGTGCATATATT-AATATGAAATTTGGTATACAGGTT
1 CAGTTTCCGCTCATTTTCTTCG-GAGAGGATGAACATATTGAA-ATGAAATTTGGTATACAGGTG
* * * * * *
652841 TATC-TAAGTAATATCTAGGTCAAGTTTGATTTTGGATATGATAGAGCAATTTCCGACAGAGTTA
64 TATCATGA-TAATATCTAGGTCAAGTTTGATATTGGGTACGATCGAGCAATTTTCGACAGAGTTA
* **
652905 TGCGGCTCCTTGGACTTAAAAAAA-TCCAAATATTTG
128 T--GGC-CCTTGGACGTAAAAAAATTCCAGGTATTTG
* *
652941 CAGTTTACGTTCATTTTCTT
1 CAGTTTCCGCTCATTTTCTT
652961 TGTGGATGTT
Statistics
Matches: 441, Mismatches: 57, Indels: 20
0.85 0.11 0.04
Matches are distributed among these distances:
160 4 0.01
161 147 0.33
162 2 0.00
163 222 0.50
164 14 0.03
165 52 0.12
ACGTcount: A:0.30, C:0.14, G:0.21, T:0.35
Consensus pattern (161 bp):
CAGTTTCCGCTCATTTTCTTCGGAGAGGATGAACATATTGAAATGAAATTTGGTATACAGGTGTA
TCATGATAATATCTAGGTCAAGTTTGATATTGGGTACGATCGAGCAATTTTCGACAGAGTTATGG
CCCTTGGACGTAAAAAAATTCCAGGTATTTG
Found at i:676224 original size:1 final size:1
Alignment explanation
Indices: 676218--676246 Score: 58
Period size: 1 Copynumber: 29.0 Consensus size: 1
676208 ACCACACCAA
676218 TTTTTTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTT
676247 GGGGGGGGGG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 28 1.00
ACGTcount: A:0.00, C:0.00, G:0.00, T:1.00
Consensus pattern (1 bp):
T
Found at i:684271 original size:2 final size:2
Alignment explanation
Indices: 684264--684341 Score: 133
Period size: 2 Copynumber: 40.0 Consensus size: 2
684254 ATATACTAAT
684264 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
*
684306 -A GA AA GA G- 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
684342 AACTGTTATA
Statistics
Matches: 72, Mismatches: 2, Indels: 4
0.92 0.03 0.05
Matches are distributed among these distances:
1 2 0.03
2 70 0.97
ACGTcount: A:0.51, C:0.00, G:0.49, T:0.00
Consensus pattern (2 bp):
GA
Found at i:688567 original size:48 final size:48
Alignment explanation
Indices: 688481--688576 Score: 113
Period size: 48 Copynumber: 2.0 Consensus size: 48
688471 AAATATTATG
* * * * *
688481 AATTACCAGTAACACTAATTTCTGTCAAACTAATACCATAGTTAACAA
1 AATTACCAGCAAAACTAATTTCTATCAAACTAACACCATAGTAAACAA
* *
688529 AATTACCAGCAAAACTAATTGTC-ATCAACCTAACACCATGGTAAACAA
1 AATTACCAGCAAAACTAATT-TCTATCAAACTAACACCATAGTAAACAA
688577 GTTAAAGCTA
Statistics
Matches: 40, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
48 38 0.95
49 2 0.05
ACGTcount: A:0.45, C:0.23, G:0.07, T:0.25
Consensus pattern (48 bp):
AATTACCAGCAAAACTAATTTCTATCAAACTAACACCATAGTAAACAA
Found at i:689207 original size:35 final size:33
Alignment explanation
Indices: 689191--689564 Score: 324
Period size: 35 Copynumber: 10.6 Consensus size: 33
689181 CCTGAAGATT
689191 ACTGCTCACAACTGACTATTAGACATCACTAAATC
1 ACTGCTCACAACTGACTATTAGACA-C-CTAAATC
* *
689226 ACTGCTCAAAACTGACTATTATACACCAGTAAATC
1 ACTGCTCACAACTGACTATTAGACACC--TAAATC
689261 ACTGCTCACAACTGACTATTAGACACCACTAAATC
1 ACTGCTCACAACTGACTATTAGACA-C-CTAAATC
* *
689296 ACTGCTCACAACTGANATGCTA-AAAACACC--AATGC
1 ACTGCTCACAACTG--A--CTATTAGACACCTAAAT-C
*** * ** * *
689331 TTACAAATATACAGA-TGACTACCAAACACCTGAAGATT
1 --ACTGCT-CACA-ACTGACTATTAGACACCT-AA-ATC
689369 ACTGCTCACAACTGACTATTAGACATCACTAAATC
1 ACTGCTCACAACTGACTATTAGACA-C-CTAAATC
* *
689404 ACTGCTCAAAACTGACTATTATACACCAGTAAATC
1 ACTGCTCACAACTGACTATTAGACACC--TAAATC
689439 ACTGCTCACAACTGACTATTAGACACCACTAAATC
1 ACTGCTCACAACTGACTATTAGACA-C-CTAAATC
689474 ACTGCTCACAACTGACTATTAGACACCACTAAATC
1 ACTGCTCACAACTGACTATTAGACA-C-CTAAATC
*
689509 ACTGCTCTCAACTGACTATTAGACACCACTAAATC
1 ACTGCTCACAACTGACTATTAGACA-C-CTAAATC
* *
689544 ACTGCTCTCAACTAACTATTA
1 ACTGCTCACAACTGACTATTA
689565 TCTCTTTCAA
Statistics
Matches: 288, Mismatches: 26, Indels: 50
0.79 0.07 0.14
Matches are distributed among these distances:
33 2 0.01
34 9 0.03
35 242 0.84
36 10 0.03
37 9 0.03
38 10 0.03
39 6 0.02
ACGTcount: A:0.38, C:0.28, G:0.09, T:0.24
Consensus pattern (33 bp):
ACTGCTCACAACTGACTATTAGACACCTAAATC
Found at i:689281 original size:70 final size:70
Alignment explanation
Indices: 689191--689564 Score: 418
Period size: 70 Copynumber: 5.3 Consensus size: 70
689181 CCTGAAGATT
* * * *
689191 ACTGCTCACAACTGACTATTAGACATCACTAAATCACTGCTCAAAACTGACTATTATACACCAGT
1 ACTGCTCACAACTGACTATTAGACACCACTAAATCACTGCTCACAACTGACTATTAGACACCACT
689256 AAATC
66 AAATC
* * *
689261 ACTGCTCACAACTGACTATTAGACACCACTAAATCACTGCTCACAACTGA-NATGCTA-AAAACA
1 ACTGCTCACAACTGACTATTAGACACCACTAAATCACTGCTCACAACTGACTAT--TAGACACCA
*
689324 C-CAATGC
64 CTAAAT-C
*** * ** * *
689331 TTACAAATATACAGA-TGACTACCAAACA-C-CTGAAGATTACTGCTCACAACTGACTATTAGAC
1 --ACTGCT-CACA-ACTGACTATTAGACACCACT-AA-ATCACTGCTCACAACTGACTATTAGAC
*
689393 ATCACTAAATC
60 ACCACTAAATC
* * *
689404 ACTGCTCAAAACTGACTATTATACACCAGTAAATCACTGCTCACAACTGACTATTAGACACCACT
1 ACTGCTCACAACTGACTATTAGACACCACTAAATCACTGCTCACAACTGACTATTAGACACCACT
689469 AAATC
66 AAATC
*
689474 ACTGCTCACAACTGACTATTAGACACCACTAAATCACTGCTCTCAACTGACTATTAGACACCACT
1 ACTGCTCACAACTGACTATTAGACACCACTAAATCACTGCTCACAACTGACTATTAGACACCACT
689539 AAATC
66 AAATC
* *
689544 ACTGCTCTCAACTAACTATTA
1 ACTGCTCACAACTGACTATTA
689565 TCTCTTTCAA
Statistics
Matches: 253, Mismatches: 36, Indels: 30
0.79 0.11 0.09
Matches are distributed among these distances:
69 6 0.02
70 186 0.74
71 10 0.04
72 9 0.04
73 36 0.14
74 6 0.02
ACGTcount: A:0.38, C:0.28, G:0.09, T:0.24
Consensus pattern (70 bp):
ACTGCTCACAACTGACTATTAGACACCACTAAATCACTGCTCACAACTGACTATTAGACACCACT
AAATC
Found at i:689433 original size:178 final size:177
Alignment explanation
Indices: 689134--689488 Score: 701
Period size: 178 Copynumber: 2.0 Consensus size: 177
689124 TATCAGTTGG
689134 ATGCTAAAAACACCAATGCTTACAAATATACAGATGACTACCAAACACCTGAAGATTACTGCTCA
1 ATGCTAAAAACACCAATGCTTACAAATATACAGATGACTACCAAACACCTGAAGATTACTGCTCA
689199 CAACTGACTATTAGACATCACTAAATCACTGCTCAAAACTGACTATTATACACCAGTAAATCACT
66 CAACTGACTATTAGACATCACTAAATCACTGCTCAAAACTGACTATTATACACCAGTAAATCACT
689264 GCTCACAACTGACTATTAGACACCACTAAATCACTGCTCACAACTGA
131 GCTCACAACTGACTATTAGACACCACTAAATCACTGCTCACAACTGA
689311 NATGCTAAAAACACCAATGCTTACAAATATACAGATGACTACCAAACACCTGAAGATTACTGCTC
1 -ATGCTAAAAACACCAATGCTTACAAATATACAGATGACTACCAAACACCTGAAGATTACTGCTC
689376 ACAACTGACTATTAGACATCACTAAATCACTGCTCAAAACTGACTATTATACACCAGTAAATCAC
65 ACAACTGACTATTAGACATCACTAAATCACTGCTCAAAACTGACTATTATACACCAGTAAATCAC
689441 TGCTCACAACTGACTATTAGACACCACTAAATCACTGCTCACAACTGA
130 TGCTCACAACTGACTATTAGACACCACTAAATCACTGCTCACAACTGA
689489 CTATTAGACA
Statistics
Matches: 177, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
178 177 1.00
ACGTcount: A:0.40, C:0.27, G:0.10, T:0.23
Consensus pattern (177 bp):
ATGCTAAAAACACCAATGCTTACAAATATACAGATGACTACCAAACACCTGAAGATTACTGCTCA
CAACTGACTATTAGACATCACTAAATCACTGCTCAAAACTGACTATTATACACCAGTAAATCACT
GCTCACAACTGACTATTAGACACCACTAAATCACTGCTCACAACTGA
Found at i:690151 original size:35 final size:35
Alignment explanation
Indices: 690102--690822 Score: 682
Period size: 35 Copynumber: 20.5 Consensus size: 35
690092 TACACCCCTG
* *
690102 GACACCACTAAATCACTGCTCTCAACCAATTATTA
1 GACACCACTAAATCACTGCTCTCAACTAACTATTA
* *
690137 GACACTACTCAATCACTGCTCTCAACTAACT-TTA
1 GACACCACTAAATCACTGCTCTCAACTAACTATTA
* * *
690171 GACACAACTCAATCACTGCTCTCAACTGACTATTA
1 GACACCACTAAATCACTGCTCTCAACTAACTATTA
* * *
690206 GACACCACTCAATCACTGCTCTCAACTGACTCTTA
1 GACACCACTAAATCACTGCTCTCAACTAACTATTA
** ** *
690241 GACACCACCCAATCACTGCTCTTTACTAACTGTTA
1 GACACCACTAAATCACTGCTCTCAACTAACTATTA
* * **
690276 GGCAACACTAAATCACTGCTGTGCTCTCAACTAACTGCTA
1 GACACCACTAAATCA---C--TGCTCTCAACTAACTATTA
* * * *
690316 GATACAACTTAATCAATGCTCTCAACTAA-TATTTA
1 GACACCACTAAATCACTGCTCTCAACTAACTA-TTA
* **
690351 GACACAACTAAATCACTGCTCTCAAC-CGCTATTA
1 GACACCACTAAATCACTGCTCTCAACTAACTATTA
*
690385 GACACCACTAAATCACTGCTCTCAACTGACTATTA
1 GACACCACTAAATCACTGCTCTCAACTAACTATTA
*
690420 GACACCACTAAATCACTGCTCTCAACTGACTATTA
1 GACACCACTAAATCACTGCTCTCAACTAACTATTA
* *
690455 GACACCACTAAATCACTGCTCTTAACTAACTATTT
1 GACACCACTAAATCACTGCTCTCAACTAACTATTA
* *
690490 GACACCAGTAAATCACTGCTCTCAACTAACTGTTA
1 GACACCACTAAATCACTGCTCTCAACTAACTATTA
* * *
690525 TG-CACAACTACATCATTGCTCT----TAACTATTA
1 -GACACCACTAAATCACTGCTCTCAACTAACTATTA
*
690556 GACACCA-T---TCA-TAGCTTTCAACTAAC-ATTTA
1 GACACCACTAAATCACT-GCTCTCAACTAACTA-TTA
*
690587 GACACCACTAAATCACTGCTCTCAACTGACTATTA
1 GACACCACTAAATCACTGCTCTCAACTAACTATTA
* * *
690622 GACACCACTTAATTACTGCTCTCAACTAACTAATA
1 GACACCACTAAATCACTGCTCTCAACTAACTATTA
** *
690657 GACAAAACTAAATCACTGCTCTCAACT-ATTA-TA
1 GACACCACTAAATCACTGCTCTCAACTAACTATTA
* * *
690690 GACACCACTAAATCATTGCTTTCAATTATAACTATATTA
1 GACACCACTAAATCACTGCTCTCAA--CTAAC--TATTA
* * *
690729 GACACCTGGCCACAATCACTGCTCTCAACTCACTATTA
1 GACACC--ACTA-AATCACTGCTCTCAACTAACTATTA
* * * *
690767 GTCACCACTATAAATCTCTGCTCTTAACAAACTATTA
1 GACACCAC--TAAATCACTGCTCTCAACTAACTATTA
*
690804 GACACCACTATATCACTGC
1 GACACCACTAAATCACTGC
690823 ACTATATTTT
Statistics
Matches: 569, Mismatches: 83, Indels: 68
0.79 0.12 0.09
Matches are distributed among these distances:
26 1 0.00
27 7 0.01
30 3 0.01
31 26 0.05
32 1 0.00
33 23 0.04
34 64 0.11
35 345 0.61
36 5 0.01
37 28 0.05
38 14 0.02
39 8 0.01
40 29 0.05
41 2 0.00
42 13 0.02
ACGTcount: A:0.34, C:0.30, G:0.08, T:0.28
Consensus pattern (35 bp):
GACACCACTAAATCACTGCTCTCAACTAACTATTA
Found at i:690423 original size:179 final size:179
Alignment explanation
Indices: 690147--690822 Score: 554
Period size: 179 Copynumber: 3.8 Consensus size: 179
690137 GACACTACTC
* * * *
690147 AATCACTGCTCTCAACTAACTTTAGACACAACTCAATCACTGCTCTCAACTGACTATTAGACACC
1 AATCAATGCTCTCAACTAAATTTAGACACAACTAAATCACTGCTCTCAACCGACTATTAGACACC
* * * ** *
690212 ACTCAATCACTGCTCTCAACTGACTCTTAGACACCACCCAATCACTGCTCTTTACTAACTGTTAG
66 ACTAAATCACTGCTCTCAACTGACTATTAGACACCACCAAATCACTGCTCTCAACTAACTATTAG
*
690277 GCAACACTAAATCACTGCTGTGCTCTCAACTAACTGCTAGATACAACTT
131 ACAACACTAAATCACTGCTGTGCTCTCAACTAACTGCTAGATACAACTT
690326 AATCAATGCTCTCAACTAATATTTAGACACAACTAAATCACTGCTCTCAACCG-CTATTAGACAC
1 AATCAATGCTCTCAACTAA-ATTTAGACACAACTAAATCACTGCTCTCAACCGACTATTAGACAC
* *
690390 CACTAAATCACTGCTCTCAACTGACTATTAGACACCACTAAATCACTGCTCTCAACTGACTATTA
65 CACTAAATCACTGCTCTCAACTGACTATTAGACACCACCAAATCACTGCTCTCAACTAACTATTA
* ** * * * * *
690455 GACACCACTAAATCACTGC--T-CT-T-AACTAACTATTTGACACCAGTA
130 GACAACACTAAATCACTGCTGTGCTCTCAACTAACTGCTAGATACAACTT
* * * * *
690500 AATCACTGCTCTCAACTAACTGTTATG-CACAACTACATCATTGCTCT-TA---ACTATTAGACA
1 AATCAATGCTCTCAACTAAAT-TTA-GACACAACTAAATCACTGCTCTCAACCGACTATTAGACA
* * * *
690560 CCA-T---TCA-TAGCTTTCAACTAAC-ATTTAGACACCACTAAATCACTGCTCTCAACTGACTA
64 CCACTAAATCACT-GCTCTCAACTGACTA-TTAGACACCACCAAATCACTGCTCTCAACTAACTA
* * * ** * * *
690619 TTAGACACCACTTAAT---TAC--TGCTCTCAACTAACTAATAGACAAAACTA
127 TTAGACAACACTAAATCACTGCTGTGCTCTCAACTAACTGCTAGATACAACTT
* * * * ***
690667 AATCACTGCTCTCAACT--ATTATAGACACCACTAAATCATTGCTTTCAATTATAACTATATTAG
1 AATCAATGCTCTCAACTAAATT-TAGACACAACTAAATCACTGCTCTCAA--CCGAC--TATTAG
* * * * * * *
690730 ACACCTGGCCACAATCACTGCTCTCAACTCACTATTAGTCACCACTATAAATCTCTGCTCTTAAC
61 ACACC--ACTA-AATCACTGCTCTCAACTGACTATTAGACACCAC--CAAATCACTGCTCTCAAC
* * *
690795 AAACTATTAGACACCACTATATCACTGC
121 TAACTATTAGACAACACTAAATCACTGC
690823 ACTATATTTT
Statistics
Matches: 412, Mismatches: 52, Indels: 60
0.79 0.10 0.11
Matches are distributed among these distances:
164 5 0.01
165 22 0.05
166 4 0.01
167 98 0.24
170 1 0.00
171 15 0.04
173 13 0.03
174 54 0.13
175 2 0.00
176 2 0.00
177 1 0.00
179 103 0.25
180 54 0.13
181 2 0.00
182 34 0.08
185 2 0.00
ACGTcount: A:0.34, C:0.29, G:0.08, T:0.28
Consensus pattern (179 bp):
AATCAATGCTCTCAACTAAATTTAGACACAACTAAATCACTGCTCTCAACCGACTATTAGACACC
ACTAAATCACTGCTCTCAACTGACTATTAGACACCACCAAATCACTGCTCTCAACTAACTATTAG
ACAACACTAAATCACTGCTGTGCTCTCAACTAACTGCTAGATACAACTT
Found at i:690504 original size:214 final size:209
Alignment explanation
Indices: 690112--690710 Score: 690
Period size: 214 Copynumber: 2.9 Consensus size: 209
690102 GACACCACTA
*
690112 AATCACTGCTCTCAACCAAT-TATTAGACACTACTCAATCACTGCTCTCAACTAACT-TTAGACA
1 AATCAATGCTCTCAA-CAATAT-TTAGACAC-ACT-AATCACTGCTCTCAACTAACTATTAGACA
* * * *
690175 CAACTCAATCACTGCTCTCAACTGACTATTAGACACCACTCAATCACTGCTCTCAACTGACTCTT
62 CCACTAAATCACTGCTCTCAACTGACTATTAGACACCACTAAATCACTGCTCTCAACTGACTATT
** * * * *
690240 AGACACCACCCAATCACTGCTCTTTACTAACTGTTAGGCAACACTAAATCACTGCTGTGCTCTCA
127 AGACACCACTAAATCACTGCTCTTAACTAACTATTAGACACCACTAAATCA-TGCT-TGCTCTCA
*
690305 ACTAACTGCTA-GATACAACTT
190 ACTAACTGCTATG-CACAAC-T
**
690326 AATCAATGCTCTCAACTAATATTTAGACACAACTAAATCACTGCTCTCAAC-CGCTATTAGACAC
1 AATCAATGCTCTCAAC-AATATTTAGACAC-ACT-AATCACTGCTCTCAACTAACTATTAGACAC
690390 CACTAAATCACTGCTCTCAACTGACTATTAGACACCACTAAATCACTGCTCTCAACTGACTATTA
63 CACTAAATCACTGCTCTCAACTGACTATTAGACACCACTAAATCACTGCTCTCAACTGACTATTA
* *
690455 GACACCACTAAATCACTGCTCTTAACTAACTATTTGACACCAGTAAATCA--C-TGCTCTCAACT
128 GACACCACTAAATCACTGCTCTTAACTAACTATTAGACACCACTAAATCATGCTTGCTCTCAACT
*
690517 AACTGTTATGCACAACT
193 AACTGCTATGCACAACT
* * * *
690534 ACATCATTGCTCTTAAC--TA-TTAGACAC-C-ATTCA-TAGCTTTCAACTAAC-ATTTAGACAC
1 A-ATCAATGCTCTCAACAATATTTAGACACACTAATCACT-GCTCTCAACTAACTA-TTAGACAC
* * * *
690592 CACTAAATCACTGCTCTCAACTGACTATTAGACACCACTTAATTACTGCTCTCAACTAACTAATA
63 CACTAAATCACTGCTCTCAACTGACTATTAGACACCACTAAATCACTGCTCTCAACTGACTATTA
** * *
690657 GACAAAACTAAATCACTGCTCTCAACT-ATTA-TAGACACCACTAAATCATTGCTT
128 GACACCACTAAATCACTGCTCTTAACTAACTATTAGACACCACTAAATCA-TGCTT
690711 TCAATTATAA
Statistics
Matches: 338, Mismatches: 35, Indels: 34
0.83 0.09 0.08
Matches are distributed among these distances:
200 16 0.05
201 16 0.05
202 94 0.28
203 2 0.01
204 1 0.00
205 8 0.02
206 2 0.01
208 2 0.01
209 36 0.11
210 1 0.00
211 1 0.00
213 3 0.01
214 155 0.46
215 1 0.00
ACGTcount: A:0.34, C:0.30, G:0.08, T:0.28
Consensus pattern (209 bp):
AATCAATGCTCTCAACAATATTTAGACACACTAATCACTGCTCTCAACTAACTATTAGACACCAC
TAAATCACTGCTCTCAACTGACTATTAGACACCACTAAATCACTGCTCTCAACTGACTATTAGAC
ACCACTAAATCACTGCTCTTAACTAACTATTAGACACCACTAAATCATGCTTGCTCTCAACTAAC
TGCTATGCACAACT
Found at i:690619 original size:132 final size:134
Alignment explanation
Indices: 690108--690822 Score: 444
Period size: 132 Copynumber: 5.1 Consensus size: 134
690098 CCTGGACACC
* * * *
690108 ACTAAATCACTGCTCTCAACCAATTATTAGACACTACTCAATCACTGCTCTCAACTAAC-TTTAG
1 ACTAAATCACTGCTCTCAA-CTATTA-TAGACACCATTC-AT-A--GCTTTCAACTAACATTTAG
* * * * *
690172 ACACAACTCAATCACTGCTCTCAACTGACTATTAGACACCACTCAATCACTGCTCTCAACTGACT
60 ACACCACTAAATCACTGCTCTCAACTAACTATTAGACACCACTAAATCACTGCTCTCAACTAACT
** **
690237 CTTAGACACC
125 AATAGACAAA
** * * * *
690247 ACCCAATCACTGCTCTTTACTAACTGTTA-GGCAACACTAAATCACT-GCTGTGCTCTCAACTAA
1 ACTAAATCACTGCTC--T-C-AACTATTATAG--ACAC-CATTCA-TAGC--T--T-TCAACTAA
* * * * * *
690310 C-TGCTAGATACAACTTAATCAATGCTCTCAACTAA-TATTTAGACACAACTAAATCACTGCTCT
53 CAT-TTAGACACCACTAAATCACTGCTCTCAACTAACTA-TTAGACACCACTAAATCACTGCTCT
** * **
690373 CAAC-CGCTATTAGACACC
116 CAACTAACTAATAGACAAA
* * *
690391 ACTAAATCACTGCTCTCAACTGACTATTAGACACCACTAAATCACT-GCTCTCAACTGAC-TATT
1 ACTAAATCACTGCTCTCAACT-ATTA-TAGACACCA-T---TCA-TAGCTTTCAACTAACAT-TT
* * *
690454 AGACACCACTAAATCACTGCTCTTAACTAACTATTTGACACCAGTAAATCACTGCTCTCAACTAA
58 AGACACCACTAAATCACTGCTCTCAACTAACTATTAGACACCACTAAATCACTGCTCTCAACTAA
** *
690519 CTGTTATG-CACA
123 CTAATA-GACAAA
* * *
690531 ACTACATCATTGCTCTTAACTA-T-TAGACACCATTCATAGCTTTCAACTAACATTTAGACACCA
1 ACTAAATCACTGCTCTCAACTATTATAGACACCATTCATAGCTTTCAACTAACATTTAGACACCA
* * *
690594 CTAAATCACTGCTCTCAACTGACTATTAGACACCACTTAATTACTGCTCTCAACTAACTAATAGA
66 CTAAATCACTGCTCTCAACTAACTATTAGACACCACTAAATCACTGCTCTCAACTAACTAATAGA
690659 CAAA
131 CAAA
* *
690663 ACTAAATCACTGCTCTCAACTATTATAGACACCACTAAATCATTGCTTTCAATTATAACTATATT
1 ACTAAATCACTGCTCTCAACTATTATAGACACCA-T---TCATAGCTTTCAA--CTAAC-AT-TT
* * * * * *
690728 AGACACCTGGCCACAATCACTGCTCTCAACTCACTATTAGTCACCACTATAAATCTCTGCTCTTA
58 AGACACC--ACTA-AATCACTGCTCTCAACTAACTATTAGACACCAC--TAAATCACTGCTCTCA
* * **
690793 ACAAACTATTAGACACC
118 ACTAACTAATAGACAAA
*
690810 ACTATATCACTGC
1 ACTAAATCACTGC
690823 ACTATATTTT
Statistics
Matches: 460, Mismatches: 73, Indels: 78
0.75 0.12 0.13
Matches are distributed among these distances:
131 2 0.00
132 101 0.22
133 2 0.00
134 9 0.02
135 2 0.00
136 9 0.02
138 13 0.03
139 77 0.17
140 38 0.08
141 12 0.03
142 21 0.05
143 7 0.02
144 45 0.10
145 85 0.18
147 37 0.08
ACGTcount: A:0.34, C:0.30, G:0.08, T:0.28
Consensus pattern (134 bp):
ACTAAATCACTGCTCTCAACTATTATAGACACCATTCATAGCTTTCAACTAACATTTAGACACCA
CTAAATCACTGCTCTCAACTAACTATTAGACACCACTAAATCACTGCTCTCAACTAACTAATAGA
CAAA
Found at i:693824 original size:19 final size:19
Alignment explanation
Indices: 693800--693838 Score: 69
Period size: 19 Copynumber: 2.1 Consensus size: 19
693790 TTTAAATTCC
*
693800 TTACATAAATTAACAGCGA
1 TTACATAAATTAAAAGCGA
693819 TTACATAAATTAAAAGCGA
1 TTACATAAATTAAAAGCGA
693838 T
1 T
693839 ATCCAACACT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.49, C:0.13, G:0.10, T:0.28
Consensus pattern (19 bp):
TTACATAAATTAAAAGCGA
Found at i:694824 original size:52 final size:52
Alignment explanation
Indices: 694737--694843 Score: 153
Period size: 52 Copynumber: 2.1 Consensus size: 52
694727 CTGCTGATGA
* * * *
694737 TATTGAGTTATAGATGATTTGCTTTTAGAAAGTTTCATTTCAAAATAATGTC
1 TATTGAGTTATAGATGAATTGCATTAAAAAAGTTTCATTTCAAAATAATGTC
*
694789 TATTGAGTTATAGATGAATTG-ATTAAAAAAGGTTTCATTTGAAAATAATGTC
1 TATTGAGTTATAGATGAATTGCATTAAAAAA-GTTTCATTTCAAAATAATGTC
694841 TAT
1 TAT
694844 GCATCTGTTG
Statistics
Matches: 49, Mismatches: 5, Indels: 2
0.88 0.09 0.04
Matches are distributed among these distances:
51 6 0.12
52 43 0.88
ACGTcount: A:0.36, C:0.06, G:0.16, T:0.42
Consensus pattern (52 bp):
TATTGAGTTATAGATGAATTGCATTAAAAAAGTTTCATTTCAAAATAATGTC
Found at i:696623 original size:15 final size:17
Alignment explanation
Indices: 696603--696636 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
696593 GTACATAATA
696603 ATAGGGT-T-AGAATTT
1 ATAGGGTATAAGAATTT
696618 ATAGGGTATAAGAATTT
1 ATAGGGTATAAGAATTT
696635 AT
1 AT
696637 CACTCCTCTA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 7 0.41
16 1 0.06
17 9 0.53
ACGTcount: A:0.38, C:0.00, G:0.24, T:0.38
Consensus pattern (17 bp):
ATAGGGTATAAGAATTT
Found at i:700666 original size:2 final size:2
Alignment explanation
Indices: 700659--700697 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
700649 ATGTTTTTAC
700659 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
700698 TATCTCTCTC
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.51, C:0.00, G:0.49, T:0.00
Consensus pattern (2 bp):
AG
Found at i:703893 original size:32 final size:32
Alignment explanation
Indices: 703852--703917 Score: 96
Period size: 32 Copynumber: 2.1 Consensus size: 32
703842 CTCTTCCCTT
* *
703852 AGCAAGACCCCATGGTCATCTTACCTGTACAA
1 AGCAAGACCCAATAGTCATCTTACCTGTACAA
* *
703884 AGCATGACCCAATAGTCATTTTACCTGTACAA
1 AGCAAGACCCAATAGTCATCTTACCTGTACAA
703916 AG
1 AG
703918 TATAGACAAA
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.33, C:0.27, G:0.15, T:0.24
Consensus pattern (32 bp):
AGCAAGACCCAATAGTCATCTTACCTGTACAA
Found at i:704913 original size:34 final size:34
Alignment explanation
Indices: 704875--704948 Score: 130
Period size: 34 Copynumber: 2.2 Consensus size: 34
704865 TTTATAGCTG
* *
704875 ATTAAAGTAGTGATATCATTTTCAGAAAGTTATA
1 ATTAAAGAAGTGATATCATTTTCAGAAAGCTATA
704909 ATTAAAGAAGTGATATCATTTTCAGAAAGCTATA
1 ATTAAAGAAGTGATATCATTTTCAGAAAGCTATA
704943 ATTAAA
1 ATTAAA
704949 TTGTTATCAT
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
34 38 1.00
ACGTcount: A:0.45, C:0.07, G:0.14, T:0.35
Consensus pattern (34 bp):
ATTAAAGAAGTGATATCATTTTCAGAAAGCTATA
Found at i:705643 original size:35 final size:35
Alignment explanation
Indices: 705596--705665 Score: 122
Period size: 35 Copynumber: 2.0 Consensus size: 35
705586 ATTCTGGAGG
705596 TGAGTTTGAGCAAAATGTTCCTAGTAATTTATGTT
1 TGAGTTTGAGCAAAATGTTCCTAGTAATTTATGTT
* *
705631 TGAGTTTTAGCAAAATGTTCCTAGTAATTTGTGTT
1 TGAGTTTGAGCAAAATGTTCCTAGTAATTTATGTT
705666 CCATGCTGTA
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
35 33 1.00
ACGTcount: A:0.27, C:0.09, G:0.20, T:0.44
Consensus pattern (35 bp):
TGAGTTTGAGCAAAATGTTCCTAGTAATTTATGTT
Found at i:707624 original size:34 final size:34
Alignment explanation
Indices: 707497--707604 Score: 207
Period size: 34 Copynumber: 3.2 Consensus size: 34
707487 AGATGNGCTG
707497 ATTAAAGAAGTGATATCATTTTCAGAAAGTTATA
1 ATTAAAGAAGTGATATCATTTTCAGAAAGTTATA
707531 ATTAAAGAAGTGATATCATTTTCAGAAAGTTATA
1 ATTAAAGAAGTGATATCATTTTCAGAAAGTTATA
*
707565 ATTAAAGAAGTGATATCATTTTCAGAAAGCTATA
1 ATTAAAGAAGTGATATCATTTTCAGAAAGTTATA
707599 ATTAAA
1 ATTAAA
707605 TTATCATAAT
Statistics
Matches: 73, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
34 73 1.00
ACGTcount: A:0.45, C:0.06, G:0.14, T:0.34
Consensus pattern (34 bp):
ATTAAAGAAGTGATATCATTTTCAGAAAGTTATA
Found at i:708293 original size:35 final size:35
Alignment explanation
Indices: 708247--708351 Score: 183
Period size: 35 Copynumber: 3.0 Consensus size: 35
708237 ATTCTGGAGG
*
708247 TGAGTTTGAGCAAAATGTTCCGAGTAATTTGTGTT
1 TGAGTTTGAGCAAAATGTTCCTAGTAATTTGTGTT
*
708282 TGAGTTTGAGCAAAATGTTCCTAGTAATTTATGTT
1 TGAGTTTGAGCAAAATGTTCCTAGTAATTTGTGTT
*
708317 TGAGTTTTAGCAAAATGTTCCTAGTAATTTGTGTT
1 TGAGTTTGAGCAAAATGTTCCTAGTAATTTGTGTT
708352 CCATGCTGTA
Statistics
Matches: 66, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
35 66 1.00
ACGTcount: A:0.27, C:0.09, G:0.22, T:0.43
Consensus pattern (35 bp):
TGAGTTTGAGCAAAATGTTCCTAGTAATTTGTGTT
Found at i:710995 original size:32 final size:32
Alignment explanation
Indices: 710954--711176 Score: 403
Period size: 32 Copynumber: 7.0 Consensus size: 32
710944 CTTGTAAAGA
*
710954 TTGCCATTGGTCAGGATATTCTGATTCTGTGG
1 TTGCCATTGGTCTGGATATTCTGATTCTGTGG
710986 TTGCCATTGGTCTGGATATTCTGATTCTGTGG
1 TTGCCATTGGTCTGGATATTCTGATTCTGTGG
711018 TTGCCATTGGTCTGGATATTCTGATTCTGTGG
1 TTGCCATTGGTCTGGATATTCTGATTCTGTGG
711050 TTGCCATTGGTCTGGATATTCTGATAT-TGTGG
1 TTGCCATTGGTCTGGATATTCTGAT-TCTGTGG
711082 TTGCCATTGGTCTGGATATTCTGATTCTGTGG
1 TTGCCATTGGTCTGGATATTCTGATTCTGTGG
711114 TTGCCATTGGTCTGGATATTCTGATTCTGTGG
1 TTGCCATTGGTCTGGATATTCTGATTCTGTGG
* *
711146 TTGCCATTGGTCTAGATATTCTGATTATGTG
1 TTGCCATTGGTCTGGATATTCTGATTCTGTG
711177 TGGTAAATGA
Statistics
Matches: 186, Mismatches: 3, Indels: 4
0.96 0.02 0.02
Matches are distributed among these distances:
31 1 0.01
32 184 0.99
33 1 0.01
ACGTcount: A:0.14, C:0.15, G:0.27, T:0.43
Consensus pattern (32 bp):
TTGCCATTGGTCTGGATATTCTGATTCTGTGG
Found at i:714509 original size:6 final size:6
Alignment explanation
Indices: 714498--714543 Score: 60
Period size: 6 Copynumber: 8.0 Consensus size: 6
714488 GGTTACAAAA
* *
714498 TAGGGT TAGGGT T-GGGT TTGGGT TAGGGT TA-GTT TAGGGT TAGGGT
1 TAGGGT TAGGGT TAGGGT TAGGGT TAGGGT TAGGGT TAGGGT TAGGGT
714544 AACCATTGTA
Statistics
Matches: 35, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
5 9 0.26
6 26 0.74
ACGTcount: A:0.13, C:0.00, G:0.48, T:0.39
Consensus pattern (6 bp):
TAGGGT
Found at i:714520 original size:11 final size:12
Alignment explanation
Indices: 714498--714543 Score: 60
Period size: 11 Copynumber: 4.0 Consensus size: 12
714488 GGTTACAAAA
714498 TAGGGTTAGGGT
1 TAGGGTTAGGGT
*
714510 T-GGGTTTGGGT
1 TAGGGTTAGGGT
*
714521 TAGGGTTA-GTT
1 TAGGGTTAGGGT
714532 TAGGGTTAGGGT
1 TAGGGTTAGGGT
714544 AACCATTGTA
Statistics
Matches: 28, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
11 20 0.71
12 8 0.29
ACGTcount: A:0.13, C:0.00, G:0.48, T:0.39
Consensus pattern (12 bp):
TAGGGTTAGGGT
Found at i:714522 original size:17 final size:17
Alignment explanation
Indices: 714498--714543 Score: 67
Period size: 17 Copynumber: 2.7 Consensus size: 17
714488 GGTTACAAAA
*
714498 TAGGGTTAGGGTTGGGTT
1 TAGGGTTAGGGTT-AGTT
714516 T-GGGTTAGGGTTAGTT
1 TAGGGTTAGGGTTAGTT
714532 TAGGGTTAGGGT
1 TAGGGTTAGGGT
714544 AACCATTGTA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
16 4 0.15
17 21 0.81
18 1 0.04
ACGTcount: A:0.13, C:0.00, G:0.48, T:0.39
Consensus pattern (17 bp):
TAGGGTTAGGGTTAGTT
Found at i:716373 original size:34 final size:34
Alignment explanation
Indices: 716328--716691 Score: 457
Period size: 34 Copynumber: 10.6 Consensus size: 34
716318 AAAGCAGGTG
716328 AGTGTAACAGTGTTTACCTGTCTAAT-ACCTGTAA
1 AGTGTAACAGTGTTTACCTGTCT-ATCACCTGTAA
*
716362 AATGTAACAGTGTTTACCTGTCTAAT-ACCTGTAA
1 AGTGTAACAGTGTTTACCTGTCT-ATCACCTGTAA
*
716396 AATGTAACAGTGTTTACCTGTCTATCACCTGTAA
1 AGTGTAACAGTGTTTACCTGTCTATCACCTGTAA
* *
716430 AATGTAACAGTGTTAACCTGTCTAATACATGTACCTGTAA
1 AGTGTAACAGTGTTTACCTGTCT-AT-C----ACCTGTAA
* * **
716470 AGTGTAACAGTGTTTACCTGTGTATCACCTTTTC
1 AGTGTAACAGTGTTTACCTGTCTATCACCTGTAA
*
716504 AGTGTAACAGTGTTTACCTGTCTAAT-ACCTGTAG
1 AGTGTAACAGTGTTTACCTGTCT-ATCACCTGTAA
*
716538 AGTGTAACAGTGTTTACCTGTCTATCAACTGTAA
1 AGTGTAACAGTGTTTACCTGTCTATCACCTGTAA
* **
716572 AGTGTAACAGTGGTTACCTAACTATCACCTGTAA
1 AGTGTAACAGTGTTTACCTGTCTATCACCTGTAA
* * *
716606 AGTGTTACAGTATTTACCTGTCTATCACCTGCAA
1 AGTGTAACAGTGTTTACCTGTCTATCACCTGTAA
* *
716640 AGTGTAACAGAGTTTACTTGTCTATCACCT-TAA
1 AGTGTAACAGTGTTTACCTGTCTATCACCTGTAA
716673 AGTGTAACAGTGTTTACCT
1 AGTGTAACAGTGTTTACCT
716692 ATCACCTATA
Statistics
Matches: 290, Mismatches: 31, Indels: 19
0.85 0.09 0.06
Matches are distributed among these distances:
33 23 0.08
34 231 0.80
35 4 0.01
36 1 0.00
38 1 0.00
39 2 0.01
40 28 0.10
ACGTcount: A:0.29, C:0.19, G:0.17, T:0.35
Consensus pattern (34 bp):
AGTGTAACAGTGTTTACCTGTCTATCACCTGTAA
Found at i:716523 original size:142 final size:136
Alignment explanation
Indices: 716328--716691 Score: 475
Period size: 142 Copynumber: 2.6 Consensus size: 136
716318 AAAGCAGGTG
*
716328 AGTGTAACAGTGTTTACCTGTCTAAT-ACCTGTAAAATGTAACAGTGTTTACCTGTCTAATACCT
1 AGTGTAACAGTGTTTACCTGTCT-ATCACCTGTAAAGTGTAACAGTGTTTACCTGTCTAATACCT
* * **
716392 GTAAAATGTAACAGTGTTTACCTGTCTATCACCTGTAAAATGTAACAGT-GTTAACCTGTCTAAT
65 GTAAAGTGTAACAGTGTTTACCTGTCTATCAACTGTAAAATGTAACAGTGGTT-ACCTAACT-AT
716456 ACATGTACCTGTAA
128 -C----ACCTGTAA
* * **
716470 AGTGTAACAGTGTTTACCTGTGTATCACCTTTTCAGTGTAACAGTGTTTACCTGTCTAATACCTG
1 AGTGTAACAGTGTTTACCTGTCTATCACCTGTAAAGTGTAACAGTGTTTACCTGTCTAATACCTG
* *
716535 TAGAGTGTAACAGTGTTTACCTGTCTATCAACTGTAAAGTGTAACAGTGGTTACCTAACTATCAC
66 TAAAGTGTAACAGTGTTTACCTGTCTATCAACTGTAAAATGTAACAGTGGTTACCTAACTATCAC
716600 CTGTAA
131 CTGTAA
* * * * *
716606 AGTGTTACAGTATTTACCTGTCTATCACCTGCAAAGTGTAACAGAGTTTACTTGTCT-ATCACCT
1 AGTGTAACAGTGTTTACCTGTCTATCACCTGTAAAGTGTAACAGTGTTTACCTGTCTAAT-ACCT
716670 -TAAAGTGTAACAGTGTTTACCT
65 GTAAAGTGTAACAGTGTTTACCT
716692 ATCACCTATA
Statistics
Matches: 198, Mismatches: 21, Indels: 13
0.85 0.09 0.06
Matches are distributed among these distances:
135 23 0.12
136 60 0.30
140 1 0.01
141 4 0.02
142 107 0.54
143 3 0.02
ACGTcount: A:0.29, C:0.19, G:0.17, T:0.35
Consensus pattern (136 bp):
AGTGTAACAGTGTTTACCTGTCTATCACCTGTAAAGTGTAACAGTGTTTACCTGTCTAATACCTG
TAAAGTGTAACAGTGTTTACCTGTCTATCAACTGTAAAATGTAACAGTGGTTACCTAACTATCAC
CTGTAA
Found at i:729715 original size:33 final size:33
Alignment explanation
Indices: 729673--729763 Score: 130
Period size: 33 Copynumber: 2.8 Consensus size: 33
729663 AGCAGTCAAC
* *
729673 TGTCACTAATGTATGTGTACACGGAA-TTGTATT
1 TGTCACTAATGTATGTGTACAC-AAACTTGTAAT
*
729706 TGTCACTAATGTTTGTGTACACAAACTTGTAAT
1 TGTCACTAATGTATGTGTACACAAACTTGTAAT
*
729739 TGTCACTAATGTATGGGTACACAAA
1 TGTCACTAATGTATGTGTACACAAA
729764 AATACAATAG
Statistics
Matches: 52, Mismatches: 5, Indels: 2
0.88 0.08 0.03
Matches are distributed among these distances:
32 2 0.04
33 50 0.96
ACGTcount: A:0.31, C:0.14, G:0.19, T:0.36
Consensus pattern (33 bp):
TGTCACTAATGTATGTGTACACAAACTTGTAAT
Found at i:732283 original size:70 final size:70
Alignment explanation
Indices: 732193--732372 Score: 245
Period size: 70 Copynumber: 2.6 Consensus size: 70
732183 ATACTTCCTA
* *
732193 AACAGTACCTGTAGACATTAGTTCTTGTGGTTTGTCAGTTACATATACTTACTGACAACA-TTAT
1 AACAGTACCTGTAGACATTAGTTCTTGTGGTTTGTCAGTTACAAATACTTACTGACAACAGTT-C
732257 TACCTG
65 TACCTG
* * * *
732263 CACAGTACCTATAGACATTAGTTCTTGTAGTTTCTCAGTTACAAATACTTACTGACAACAGTTCT
1 AACAGTACCTGTAGACATTAGTTCTTGTGGTTTGTCAGTTACAAATACTTACTGACAACAGTTCT
732328 ACCTG
66 ACCTG
* * * * *
732333 AACAGCACATGTAGATATTAGTTCTTGTGATCTGTCAGTT
1 AACAGTACCTGTAGACATTAGTTCTTGTGGTTTGTCAGTT
732373 CTTGTGGTTT
Statistics
Matches: 94, Mismatches: 15, Indels: 2
0.85 0.14 0.02
Matches are distributed among these distances:
70 92 0.98
71 2 0.02
ACGTcount: A:0.29, C:0.19, G:0.16, T:0.36
Consensus pattern (70 bp):
AACAGTACCTGTAGACATTAGTTCTTGTGGTTTGTCAGTTACAAATACTTACTGACAACAGTTCT
ACCTG
Found at i:732374 original size:17 final size:17
Alignment explanation
Indices: 732352--732389 Score: 58
Period size: 17 Copynumber: 2.2 Consensus size: 17
732342 TGTAGATATT
732352 AGTTCTTGTGATCTGTC
1 AGTTCTTGTGATCTGTC
* *
732369 AGTTCTTGTGGTTTGTC
1 AGTTCTTGTGATCTGTC
732386 AGTT
1 AGTT
732390 TTCTGTACCT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.11, C:0.13, G:0.26, T:0.50
Consensus pattern (17 bp):
AGTTCTTGTGATCTGTC
Found at i:732585 original size:94 final size:94
Alignment explanation
Indices: 732415--732585 Score: 261
Period size: 94 Copynumber: 1.8 Consensus size: 94
732405 CAAACAGAAC
*
732415 TACCTGAACAATACCTGTAGACTTTAGTTCTTGTAATTTGTCAGTTATATGAACGTACTGACAAA
1 TACCTGAACAATACCTGAAGACTTTAGTTCTTGTAATTTGTCAGTTATATGAACGTACTGACAAA
* **
732480 CATTACTACCTGCACAGTGCAAACTGTAA
66 CAGTAAAACCTGCACAGTGCAAACTGTAA
* * * * *
732509 TACCTGAACAATACCTGAAGACTTTAGTTCTTGTGATTTGTCAGTTATCTGTATGTACTGACAAG
1 TACCTGAACAATACCTGAAGACTTTAGTTCTTGTAATTTGTCAGTTATATGAACGTACTGACAAA
732574 CAGTAAAACCTG
66 CAGTAAAACCTG
732586 AACTGTACCT
Statistics
Matches: 68, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
94 68 1.00
ACGTcount: A:0.32, C:0.19, G:0.16, T:0.33
Consensus pattern (94 bp):
TACCTGAACAATACCTGAAGACTTTAGTTCTTGTAATTTGTCAGTTATATGAACGTACTGACAAA
CAGTAAAACCTGCACAGTGCAAACTGTAA
Found at i:732626 original size:71 final size:70
Alignment explanation
Indices: 732499--733342 Score: 862
Period size: 71 Copynumber: 12.0 Consensus size: 70
732489 CTGCACAGTG
* * * * * * *
732499 CAAACTGTAATACCTGAACAATACCTGAAGACTTTAGTTCTTGTGATTTGTCAGTTATCTGTATG
1 CAAACAGTAAAACCTGAACAGTACCTGTAGAC-ATAGTTCTTGTGGTTTGTCAGTTATCTGTACG
732564 TACTGA
65 TACTGA
* * *
732570 CAAGCAGTAAAACCTGAACTGTACCTGTAGACAGTAGTTCTTGTGGTTTGTCAGTTATATGTACG
1 CAAACAGTAAAACCTGAACAGTACCTGTAGACA-TAGTTCTTGTGGTTTGTCAGTTATCTGTACG
732635 TACTGA
65 TACTGA
* ** * ** * * *
732641 CAAAC-CTGACTACCTAAACAAAACCTGTTGACTTTAGTTCTTGTGATTTGTCA---A--T-TA-
1 CAAACAGT-AAAACCTGAACAGTACCTGTAGAC-ATAGTTCTTGTGGTTTGTCAGTTATCTGTAC
*
732698 -TACTGC
64 GTACTGA
* ** * ***
732704 CAAACACTATTACCTGCACAGTACAAATAGACATAAGTTCTTGTGGTTTGTCAGTTATCTGTACG
1 CAAACAGTAAAACCTGAACAGTACCTGTAGACAT-AGTTCTTGTGGTTTGTCAGTTATCTGTACG
732769 TACTGA
65 TACTGA
* **
732775 AAAACAGTAAAACCTGAACAGTATTTGTAGACATAAGTTCTTGTGGTTTGTCAGTTATCTGTACG
1 CAAACAGTAAAACCTGAACAGTACCTGTAGACAT-AGTTCTTGTGGTTTGTCAGTTATCTGTACG
732840 TACTGA
65 TACTGA
* **
732846 AAAACAGTAAAACCTGAACAGTATTTGTAGACATAAGTTCTTGTGGTTTGTCAGTTATCTGTACG
1 CAAACAGTAAAACCTGAACAGTACCTGTAGACAT-AGTTCTTGTGGTTTGTCAGTTATCTGTACG
732911 TACTGA
65 TACTGA
* ** *
732917 AAAACAGTAAAACCTGAACAGTATTTGTAGACATAAGTTCTTGTGGTTTGTCAGTTATCTGTACC
1 CAAACAGTAAAACCTGAACAGTACCTGTAGACAT-AGTTCTTGTGGTTTGTCAGTTATCTGTACG
732982 TACTGA
65 TACTGA
** * * * *
732988 CAAACAGTACTACCTGAACTGTACCTGTAGACTTTAGTTCTTGTGATTTGTCAGTTATCTGTATG
1 CAAACAGTAAAACCTGAACAGTACCTGTAGAC-ATAGTTCTTGTGGTTTGTCAGTTATCTGTACG
733053 TACTGA
65 TACTGA
* * * * * *
733059 CAAACAGTAAAATCTGCACTGTACATGTAGCCTTTATAGTTCTTGTGATTTGTCAGTTATCTGTA
1 CAAACAGTAAAACCTGAACAGTACCTGTAGAC---ATAGTTCTTGTGGTTTGTCAGTTATCTGTA
*
733124 TGTACTGA
63 CGTACTGA
* * *
733132 CAAACAGTAAAACCTGAACAGTACCTGTAGACTTTAGCTCTTGTGGTTTGTTAGTTATCTGTACG
1 CAAACAGTAAAACCTGAACAGTACCTGTAGAC-ATAGTTCTTGTGGTTTGTCAGTTATCTGTACG
733197 TACTGA
65 TACTGA
*** * ***
733203 CAAACAGTTCTACCTGAACAGTATCTGTATTTATAGTTCTTGTGGTTTGTCAGTTATCTGTACGT
1 CAAACAGTAAAACCTGAACAGTACCTGTAGACATAGTTCTTGTGGTTTGTCAGTTATCTGTACGT
733268 ACTGA
66 ACTGA
** * ** * * *
733273 CAAACAGTACTACCTAAACAGTATATGTAGACAACAG-TCAATGTGGTTTGTCAGTTATATGTAC
1 CAAACAGTAAAACCTGAACAGTACCTGTAGAC-ATAGTTC-TTGTGGTTTGTCAGTTATCTGTAC
*
733337 ATACTG
64 GTACTG
733343 CATGTATGTA
Statistics
Matches: 664, Mismatches: 91, Indels: 36
0.84 0.12 0.05
Matches are distributed among these distances:
62 1 0.00
63 42 0.06
64 2 0.00
65 2 0.00
66 2 0.00
68 2 0.00
69 2 0.00
70 64 0.10
71 481 0.72
72 1 0.00
73 65 0.10
ACGTcount: A:0.30, C:0.17, G:0.18, T:0.35
Consensus pattern (70 bp):
CAAACAGTAAAACCTGAACAGTACCTGTAGACATAGTTCTTGTGGTTTGTCAGTTATCTGTACGT
ACTGA
Found at i:732895 original size:142 final size:142
Alignment explanation
Indices: 732499--735337 Score: 1589
Period size: 142 Copynumber: 19.9 Consensus size: 142
732489 CTGCACAGTG
* * * * * * * *
732499 CAAACTGTAATACCTGAACAATACCTGAAGACTTTAGTTCTTGTGATTTGTCAGTTATCTGTATG
1 CAAACAGTACTACCTGAACAGTATCTGTAGACATTAGTTCTTGTGGTTTGTCAGTTATCTGTACG
* ** * * *
732564 TACTGACAAGCAGTAAAACCTGAACTGTACCTGTAGACAGTAGTTCTTGTGGTTTGTCAGTTATA
66 TACTGACAAACAGTACTACCTGAACAGTACCTGTAGACATTAGTTCTTGTGGTTTGTCAGTTATC
732629 TGTACGTACTGA
131 TGTACGTACTGA
* * ** * * * *
732641 CAAAC-CTGACTACCTAAACAAAACCTGTTGACTTTAGTTCTTGTGATTTGTCA---A--T-TA-
1 CAAACAGT-ACTACCTGAACAGTATCTGTAGACATTAGTTCTTGTGGTTTGTCAGTTATCTGTAC
* * * * *** *
732698 -TACTGCCAAACACTATTACCTGCACAGTACAAATAGACATAAGTTCTTGTGGTTTGTCAGTTAT
65 GTACTGACAAACAGTACTACCTGAACAGTACCTGTAGACATTAGTTCTTGTGGTTTGTCAGTTAT
732762 CTGTACGTACTGA
130 CTGTACGTACTGA
* ** * *
732775 AAAACAGTAAAACCTGAACAGTATTTGTAGACATAAGTTCTTGTGGTTTGTCAGTTATCTGTACG
1 CAAACAGTACTACCTGAACAGTATCTGTAGACATTAGTTCTTGTGGTTTGTCAGTTATCTGTACG
* ** ** *
732840 TACTGAAAAACAGTAAAACCTGAACAGTATTTGTAGACATAAGTTCTTGTGGTTTGTCAGTTATC
66 TACTGACAAACAGTACTACCTGAACAGTACCTGTAGACATTAGTTCTTGTGGTTTGTCAGTTATC
732905 TGTACGTACTGA
131 TGTACGTACTGA
* ** * * *
732917 AAAACAGTAAAACCTGAACAGTATTTGTAGACATAAGTTCTTGTGGTTTGTCAGTTATCTGTACC
1 CAAACAGTACTACCTGAACAGTATCTGTAGACATTAGTTCTTGTGGTTTGTCAGTTATCTGTACG
* * *
732982 TACTGACAAACAGTACTACCTGAACTGTACCTGTAGACTTTAGTTCTTGTGATTTGTCAGTTATC
66 TACTGACAAACAGTACTACCTGAACAGTACCTGTAGACATTAGTTCTTGTGGTTTGTCAGTTATC
*
733047 TGTATGTACTGA
131 TGTACGTACTGA
** * * * * * *
733059 CAAACAGTAAAATCTGCACTGTA-CATGTAGCCTTTATAGTTCTTGTGATTTGTCAGTTATCTGT
1 CAAACAGTACTACCTGAACAGTATC-TGTAGAC-AT-TAGTTCTTGTGGTTTGTCAGTTATCTGT
* ** * * *
733123 ATGTACTGACAAACAGTAAAACCTGAACAGTACCTGTAGACTTTAGCTCTTGTGGTTTGTTAGTT
63 ACGTACTGACAAACAGTACTACCTGAACAGTACCTGTAGACATTAGTTCTTGTGGTTTGTCAGTT
733188 ATCTGTACGTACTGA
128 ATCTGTACGTACTGA
* ***
733203 CAAACAGTTCTACCTGAACAGTATCTGTATTTA-TAGTTCTTGTGGTTTGTCAGTTATCTGTACG
1 CAAACAGTACTACCTGAACAGTATCTGTAGACATTAGTTCTTGTGGTTTGTCAGTTATCTGTACG
* ** ** *
733267 TACTGACAAACAGTACTACCTAAACAGTATATGTAGACAACAG-TCAATGTGGTTTGTCAGTTAT
66 TACTGACAAACAGTACTACCTGAACAGTACCTGTAGACATTAGTTC-TTGTGGTTTGTC------
*
733331 ATGTACATACTGCATGTATGTACTGA
124 A-GT---TA-T-C-TGTACGTACTGA
* * *
733357 AAAACAGTGCTACCTGAACAGTATCTGTAGACATTAGTTCTTGTGGTTTGTCAGTTATATGTACG
1 CAAACAGTACTACCTGAACAGTATCTGTAGACATTAGTTCTTGTGGTTTGTCAGTTATCTGTACG
* * * * * **
733422 TACTGACAAACAGTAATACCTGAACAATACCTTGTATAAATTAGGTCTTGTTATTTGTCAGTTA-
66 TACTGACAAACAGTACTACCTGAACAGTACC-TGTAGACATTAGTTCTTGTGGTTTGTCAGTTAT
733486 CATGTACGTACTGGA
130 C-TGTACGTACT-GA
* * * *
733501 -AAACAGTAGTACCTGAACAATATCTGTAGACTTTAGTTCTTGTGATTTGTCAGTTATCTGTACG
1 CAAACAGTACTACCTGAACAGTATCTGTAGACATTAGTTCTTGTGGTTTGTCAGTTATCTGTACG
* * * ** * *
733565 TACTGACAAACAGTTCTTCCTGAACAGTATCTGTAGTTA-TAGTTCTTGTGGTTTATCAGTTCT-
66 TACTGACAAACAGTACTACCTGAACAGTACCTGTAGACATTAGTTCTTGTGGTTTGTCAGTTATC
* * *
733628 TGT-GGT-TTGT
131 TGTACGTACTGA
* * * * * * * * * *
733638 CAGTTATCTGTACCT-TCTGACAAACA-AAACTACCTAAACAATACGTGTAGACTT-T-ATTTCT
1 CA---AACAGTA-CTACCTG---AACAGTATCT--GTAGACATTA-GT-T---CTTGTGGTTTGT
* ** * * * * * *
733699 -TGTGGTTTGT-CAGT--T-AAATGAAC-GTACTGA-C-AAACATTAATACCTGCACAGTACCTA
52 CAGTTATCTGTAC-GTACTGACA--AACAGTACT-ACCTGAAC---AGTACCTG--TAG-ACAT-
* * * * * *
733756 TAG-ACATAAGT-TTTTGT-GGTTTGTCAGTTATCTGTACGTACTGA
106 TAGTTC-T-TGTGGTTTGTCAG-TTATCTG-TA-C-G----TACTGA
* ** * * *
733800 CAAACAGTACTACCTGAACAGTATTTGCGGACATAAGCTCTTATGGTTTGTCAGTTATCTGTACG
1 CAAACAGTACTACCTGAACAGTATCTGTAGACATTAGTTCTTGTGGTTTGTCAGTTATCTGTACG
** * * * *
733865 TACTGACAAACAGTACTACCTGAACAGTATTTGCAGACATAAGCTCTTGTGGTTTTTCAGTTATC
66 TACTGACAAACAGTACTACCTGAACAGTACCTGTAGACATTAGTTCTTGTGGTTTGTCAGTTATC
733930 TGTACGTACTGA
131 TGTACGTACTGA
* * *
733942 CAAACAGTACTACCTGAACAGTATTTGCAGACATTAGTTCTTGTGGTTTGTCAGTTATATGTACG
1 CAAACAGTACTACCTGAACAGTATCTGTAGACATTAGTTCTTGTGGTTTGTCAGTTATCTGTACG
* * * *
734007 TACTGACAAAAAGTTCTACCTGAACTGTACCTGTAGACATTAGTTCTTGTAGTTTGTCAGTTATC
66 TACTGACAAACAGTACTACCTGAACAGTACCTGTAGACATTAGTTCTTGTGGTTTGTCAGTTATC
734072 TGTACGTACTGA
131 TGTACGTACTGA
* * * * *
734084 CAAACAGTACTACCTGAACAATACCTGTAGACATTAGTTCTTGTAGTTTGTCAGTTATATGTATG
1 CAAACAGTACTACCTGAACAGTATCTGTAGACATTAGTTCTTGTGGTTTGTCAGTTATCTGTACG
* * ** * * * ** *
734149 GAGTGACAAACAGTACTACCAAAACAGTATCTATAAACAACAG-TCAATGTGGTTTGTCAATAAT
66 TACTGACAAACAGTACTACCTGAACAGTACCTGTAGACATTAGTTC-TTGTGGTTTGTC------
* *
734213 ATATGAACGTACTGCTGTATGTACTGA
124 --A-G---TTA-T-CTGTACGTACTGA
* * * *
734240 CAAACAGTGCTACCTGAACAGTATCTGTAGACA--ACGGTCAATGTGGTTTGTCAGTTATATGTA
1 CAAACAGTACTACCTGAACAGTATCTGTAGACATTA-GTTC-TTGTGGTTTGTCAGTTATCTGTA
* * * * * *
734303 --TA-T-----AC--T-CTACCTGAGCAATACCTATTGACATTTGTTCTTGTGGTTTGTCATTTA
64 CGTACTGACAAACAGTACTACCTGAACAGTACCTGTAGACATTAGTTCTTGTGGTTTGTCAGTTA
734357 TCTGTACGTACTGA
129 TCTGTACGTACTGA
** ** *
734371 CAAACAGTTTTACCTGAACAGTATCTGTAGTTA-TGGTTCTTGTGGTTTGTCAGTTATCTGTACG
1 CAAACAGTACTACCTGAACAGTATCTGTAGACATTAGTTCTTGTGGTTTGTCAGTTATCTGTACG
* * * * ** *
734435 TACTGACAAACAGTAGTACCTAAACAGTATCTTTAGACAACAG-TCAATGTGGTTTGTCAGTTAT
66 TACTGACAAACAGTACTACCTGAACAGTACCTGTAGACATTAGTTC-TTGTGGTTTGTC------
*
734499 ATGTACGTACTGCATGTATGTACTGA
124 A-GT---TA-T-C-TGTACGTACTGA
* * * * *
734525 CAAACAGGT-CTAGCTGAACAGTACCTATACACATTAGTTCTTGTGGTTTGTCAGTTA-CATATA
1 CAAACA-GTACTACCTGAACAGTATCTGTAGACATTAGTTCTTGTGGTTTGTCAGTTATC-TGTA
* * * * * * * *
734588 CTTACTGACAAAAAGTTCTACCCGAATAGTACATGTAGACATTAGTTGTTGTGGTTTGTAAGTTA
64 CGTACTGACAAACAGTACTACCTGAACAGTACCTGTAGACATTAGTTCTTGTGGTTTGTCAGTTA
* *
734653 TATGTATGTACTGA
129 TCTGTACGTACTGA
* * * * * ** * *
734667 CAAACGGTTCTACCTGAACAGTATTTGTAGACATTACTTCCTT-TTGTGCGTTAGTTATATGTAC
1 CAAACAGTACTACCTGAACAGTATCTGTAGACATTAGTT-CTTGTGGTTTGTCAGTTATCTGTAC
** * * * * *
734731 GTTTTGACAAACAGTCCTACCTGAACAATACCTATAGACATTAGTTTTTGTGGTTTGTAAGTTAA
65 GTACTGACAAACAGTACTACCTGAACAGTACCTGTAGACATTAGTTCTTGTGGTTTGTCAGTT-A
* * *
734796 ACGGTAC-AATCTG-
129 TCTGTACGTA-CTGA
* ** * * ***
734809 --AACAG---TACCTGTAGACATTAGGTCT-T-GTTATTTG-TC-AGAT-ACATGT-ACG-TA-C
1 CAAACAGTACTACCTG-A-ACAGTA--TCTGTAGACATTAGTTCTTG-TGGTTTGTCA-GTTATC
* * * *
734861 TGACAAACAGTACT-ACATGAACAGTAC-A--TG--TAG-ACAT-TAGTTC-TT-GTGGT-TTGT
60 TG---TAC-GTACTGACA--AACAGTACTACCTGAACAGTACCTGTAG-ACATTAGT--TCTTGT
* * ** *
734915 CAG-TTAT-ACG-TA-CTG-ACAAACAGTA
116 -GGTTTGTCA-GTTATCTGTACGTACTG-A
* * * *
734940 -AAAC--T---A----AACAGTATTTGTAGACATTAGTTCTTGTGGTTTATCAGTTATATGGACG
1 CAAACAGTACTACCTGAACAGTATCTGTAGACATTAGTTCTTGTGGTTTGTCAGTTATCTGTACG
* *
734995 TACTGACAAACAGTACTACCTGAACAGTATCTGTAGACATTAGTTCTTGTGGTTTGTCACTTA--
66 TACTGACAAACAGTACTACCTGAACAGTACCTGTAGACATTAGTTCTTGTGGTTTGTCAGTTATC
** *
735058 --TACGTTTTGT
131 TGTACGTACTGA
* * * *
735068 CAAACAGTA-AAACTGAACAGTATTTGTAGACGTTAGTTCTTGTGGTTTGTCAGTTA----TACG
1 CAAACAGTACTACCTGAACAGTATCTGTAGACATTAGTTCTTGTGGTTTGTCAGTTATCTGTACG
** ** * * *
735128 TACTGACAAACAGTAAAACCTGAACAGTATTTGTAGATATTGGTTCTTGTGGTTTGTCAGTTATA
66 TACTGACAAACAGTACTACCTGAACAGTACCTGTAGACATTAGTTCTTGTGGTTTGTCAGTTATC
735193 TGTACGTACTGA
131 TGTACGTACTGA
* * ** * *
735205 CAAACAGAACTACCTGAACAGTATCTGTAGACATTAGCTCCCGTGGTTTGTCAGTTATATGAACG
1 CAAACAGTACTACCTGAACAGTATCTGTAGACATTAGTTCTTGTGGTTTGTCAGTTATCTGTACG
* * * *
735270 TACTTAAAAACAGTTCTACCTGAACAGTATCTGTAGACATTAGTTCTTGTGGTTTGTCAGTTATC
66 TACTGACAAACAGTACTACCTGAACAGTACCTGTAGACATTAGTTCTTGTGGTTTGTCAGTTATC
735335 TGT
131 TGT
735338 TATATATGCC
Statistics
Matches: 2076, Mismatches: 416, Indels: 410
0.72 0.14 0.14
Matches are distributed among these distances:
122 2 0.00
123 9 0.00
124 16 0.01
125 9 0.00
126 6 0.00
127 3 0.00
128 4 0.00
129 16 0.01
130 38 0.02
131 51 0.02
132 10 0.00
133 77 0.04
134 108 0.05
135 4 0.00
136 5 0.00
137 70 0.03
138 52 0.03
139 17 0.01
140 22 0.01
141 136 0.07
142 677 0.33
143 109 0.05
144 130 0.06
145 44 0.02
146 12 0.01
147 18 0.01
148 16 0.01
149 18 0.01
150 13 0.01
151 11 0.01
152 17 0.01
153 20 0.01
154 85 0.04
155 141 0.07
156 90 0.04
157 5 0.00
158 2 0.00
159 8 0.00
161 1 0.00
162 4 0.00
ACGTcount: A:0.29, C:0.17, G:0.19, T:0.35
Consensus pattern (142 bp):
CAAACAGTACTACCTGAACAGTATCTGTAGACATTAGTTCTTGTGGTTTGTCAGTTATCTGTACG
TACTGACAAACAGTACTACCTGAACAGTACCTGTAGACATTAGTTCTTGTGGTTTGTCAGTTATC
TGTACGTACTGA
Found at i:733005 original size:213 final size:213
Alignment explanation
Indices: 732499--735337 Score: 2354
Period size: 213 Copynumber: 13.3 Consensus size: 213
732489 CTGCACAGTG
* * * ** * * * *
732499 CAAACTGTAATACCTGAACAATACCTGAAGACTTTAGTTCTTGTGATTTGTCAGTTATCTGTATG
1 CAAACAGTACTACCTGAACAGTATTTGTAGACATTAGTTCTTGTGGTTTGTCAGTTATCTGTACG
* ** * * *
732564 TACTGACAAGCAGTAAAACCTGAACTGTACCTGTAGACAGTAGTTCTTGTGGTTTGTCAGTTATA
66 TACTGACAAACAGTACTACCTGAACAGTACCTGTAGACATTAGTTCTTGTGGTTTGTCAGTTATC
* * ** * * * *
732629 TGTACGTACTGACAAAC-CTGACTACCTAAACAAAACCTGTTGACTTTAGTTCTTGTGATTTGTC
131 TGTACGTACTGACAAACAGT-ACTACCTGAACAGTATCTGTAGACATTAGTTCTTGTGGTTTGTC
*
732693 A---A--T-TA--TACTGC
195 AGTTATCTGTACGTACTGA
* * * **** *
732704 CAAACACTATTACCTGCACAGTACAAATAGACATAAGTTCTTGTGGTTTGTCAGTTATCTGTACG
1 CAAACAGTACTACCTGAACAGTATTTGTAGACATTAGTTCTTGTGGTTTGTCAGTTATCTGTACG
* ** ** *
732769 TACTGAAAAACAGTAAAACCTGAACAGTATTTGTAGACATAAGTTCTTGTGGTTTGTCAGTTATC
66 TACTGACAAACAGTACTACCTGAACAGTACCTGTAGACATTAGTTCTTGTGGTTTGTCAGTTATC
* ** * *
732834 TGTACGTACTGAAAAACAGTAAAACCTGAACAGTATTTGTAGACATAAGTTCTTGTGGTTTGTCA
131 TGTACGTACTGACAAACAGTACTACCTGAACAGTATCTGTAGACATTAGTTCTTGTGGTTTGTCA
732899 GTTATCTGTACGTACTGA
196 GTTATCTGTACGTACTGA
* ** * *
732917 AAAACAGTAAAACCTGAACAGTATTTGTAGACATAAGTTCTTGTGGTTTGTCAGTTATCTGTACC
1 CAAACAGTACTACCTGAACAGTATTTGTAGACATTAGTTCTTGTGGTTTGTCAGTTATCTGTACG
* * *
732982 TACTGACAAACAGTACTACCTGAACTGTACCTGTAGACTTTAGTTCTTGTGATTTGTCAGTTATC
66 TACTGACAAACAGTACTACCTGAACAGTACCTGTAGACATTAGTTCTTGTGGTTTGTCAGTTATC
* ** * * * * * *
733047 TGTATGTACTGACAAACAGTAAAATCTGCACTGTA-CATGTAGCCTTTATAGTTCTTGTGATTTG
131 TGTACGTACTGACAAACAGTACTACCTGAACAGTATC-TGTAGAC-AT-TAGTTCTTGTGGTTTG
*
733111 TCAGTTATCTGTATGTACTGA
193 TCAGTTATCTGTACGTACTGA
** ** * * *
733132 CAAACAGTAAAACCTGAACAGTACCTGTAGACTTTAGCTCTTGTGGTTTGTTAGTTATCTGTACG
1 CAAACAGTACTACCTGAACAGTATTTGTAGACATTAGTTCTTGTGGTTTGTCAGTTATCTGTACG
* * ***
733197 TACTGACAAACAGTTCTACCTGAACAGTATCTGTATTTA-TAGTTCTTGTGGTTTGTCAGTTATC
66 TACTGACAAACAGTACTACCTGAACAGTACCTGTAGACATTAGTTCTTGTGGTTTGTCAGTTATC
* * ** *
733261 TGTACGTACTGACAAACAGTACTACCTAAACAGTATATGTAGACAACAG-TCAATGTGGTTTGTC
131 TGTACGTACTGACAAACAGTACTACCTGAACAGTATCTGTAGACATTAGTTC-TTGTGGTTTGTC
*
733325 AGTTATATGTACATACTGCATGTATGTACTGA
195 ------A-GT---TA-T-C-TGTACGTACTGA
* * * *
733357 AAAACAGTGCTACCTGAACAGTATCTGTAGACATTAGTTCTTGTGGTTTGTCAGTTATATGTACG
1 CAAACAGTACTACCTGAACAGTATTTGTAGACATTAGTTCTTGTGGTTTGTCAGTTATCTGTACG
* * * * * **
733422 TACTGACAAACAGTAATACCTGAACAATACCTTGTATAAATTAGGTCTTGTTATTTGTCAGTTA-
66 TACTGACAAACAGTACTACCTGAACAGTACC-TGTAGACATTAGTTCTTGTGGTTTGTCAGTTAT
* * * *
733486 CATGTACGTACTGGA-AAACAGTAGTACCTGAACAATATCTGTAGACTTTAGTTCTTGTGATTTG
130 C-TGTACGTACT-GACAAACAGTACTACCTGAACAGTATCTGTAGACATTAGTTCTTGTGGTTTG
733550 TCAGTTATCTGTACGTACTGA
193 TCAGTTATCTGTACGTACTGA
* * * *
733571 CAAACAGTTCTTCCTGAACAGTATCTGTAGTTATAGTTCTTGTGGTTTATCAGTTCTTGTGGTTT
1 CAAACAGTACTACCTGAACAGTAT-T-T-G---TAG-AC---------ATTAGTTCTTGTGGTTT
* * ** * * * * *
733636 GTCAGTTATCTGTACCTTCTGACAAACAAAACTACCTAAACAATACGTGTAGACTTTATTTCTTG
50 GTCAGTTATCTGTACGTACTGACAAACAGTACTACCTGAACAGTACCTGTAGACATTAGTTCTTG
** * * * * * * *
733701 TGGTTTGTCAGTTAAATGAACGTACTGACAAACATTAATACCTGCACAGTACCTATAGACATAAG
115 TGGTTTGTCAGTTATCTGTACGTACTGACAAACAGTACTACCTGAACAGTATCTGTAGACATTAG
*
733766 TTTTTGTGGTTTGTCAGTTATCTGTACGTACTGA
180 TTCTTGTGGTTTGTCAGTTATCTGTACGTACTGA
** * * *
733800 CAAACAGTACTACCTGAACAGTATTTGCGGACATAAGCTCTTATGGTTTGTCAGTTATCTGTACG
1 CAAACAGTACTACCTGAACAGTATTTGTAGACATTAGTTCTTGTGGTTTGTCAGTTATCTGTACG
** * * * *
733865 TACTGACAAACAGTACTACCTGAACAGTATTTGCAGACATAAGCTCTTGTGGTTTTTCAGTTATC
66 TACTGACAAACAGTACTACCTGAACAGTACCTGTAGACATTAGTTCTTGTGGTTTGTCAGTTATC
* *
733930 TGTACGTACTGACAAACAGTACTACCTGAACAGTATTTGCAGACATTAGTTCTTGTGGTTTGTCA
131 TGTACGTACTGACAAACAGTACTACCTGAACAGTATCTGTAGACATTAGTTCTTGTGGTTTGTCA
*
733995 GTTATATGTACGTACTGA
196 GTTATCTGTACGTACTGA
* * * ** *
734013 CAAAAAGTTCTACCTGAACTGTACCTGTAGACATTAGTTCTTGTAGTTTGTCAGTTATCTGTACG
1 CAAACAGTACTACCTGAACAGTATTTGTAGACATTAGTTCTTGTGGTTTGTCAGTTATCTGTACG
* * *
734078 TACTGACAAACAGTACTACCTGAACAATACCTGTAGACATTAGTTCTTGTAGTTTGTCAGTTATA
66 TACTGACAAACAGTACTACCTGAACAGTACCTGTAGACATTAGTTCTTGTGGTTTGTCAGTTATC
* * * ** * * ** *
734143 TGTATGGAGTGACAAACAGTACTACCAAAACAGTATCTATAAACAACAG-TCAATGTGGTTTGTC
131 TGTACGTACTGACAAACAGTACTACCTGAACAGTATCTGTAGACATTAGTTC-TTGTGGTTTGTC
* *
734207 AATAATATATGAACGTACTGCTGTATGTACTGA
195 --------A-G---TTA-T-CTGTACGTACTGA
* * * * *
734240 CAAACAGTGCTACCTGAACAGTATCTGTAGACA--ACGGTCAATGTGGTTTGTCAGTTATATGTA
1 CAAACAGTACTACCTGAACAGTATTTGTAGACATTA-GTTC-TTGTGGTTTGTCAGTTATCTGTA
* * * * * *
734303 --TA-T-----AC--T-CTACCTGAGCAATACCTATTGACATTTGTTCTTGTGGTTTGTCATTTA
64 CGTACTGACAAACAGTACTACCTGAACAGTACCTGTAGACATTAGTTCTTGTGGTTTGTCAGTTA
** ** *
734357 TCTGTACGTACTGACAAACAGTTTTACCTGAACAGTATCTGTAGTTA-TGGTTCTTGTGGTTTGT
129 TCTGTACGTACTGACAAACAGTACTACCTGAACAGTATCTGTAGACATTAGTTCTTGTGGTTTGT
734421 CAGTTATCTGTACGTACTGA
194 CAGTTATCTGTACGTACTGA
* * ** *
734441 CAAACAGTAGTACCTAAACAGTATCTT-TAGACAACAG-TCAATGTGGTTTGTCAGTTATATGTA
1 CAAACAGTACTACCTGAACAGTAT-TTGTAGACATTAGTTC-TTGTGGTTTGTC------A-GT-
* * * *
734504 CGTACTGCATGTATGTACTGACAAACAGGT-CTAGCTGAACAGTACCTATACACATTAGTTCTTG
56 --TA-T-C-TGTACGTACTGACAAACA-GTACTACCTGAACAGTACCTGTAGACATTAGTTCTTG
* * * * * *
734568 TGGTTTGTCAGTTA-CATATACTTACTGACAAAAAGTTCTACCCGAATAGTA-CATGTAGACATT
115 TGGTTTGTCAGTTATC-TGTACGTACTGACAAACAGTACTACCTGAACAGTATC-TGTAGACATT
* * * *
734631 AGTTGTTGTGGTTTGTAAGTTATATGTATGTACTGA
178 AGTTCTTGTGGTTTGTCAGTTATCTGTACGTACTGA
* * * * ** * *
734667 CAAACGGTTCTACCTGAACAGTATTTGTAGACATTACTTCCTT-TTGTGCGTTAGTTATATGTAC
1 CAAACAGTACTACCTGAACAGTATTTGTAGACATTAGTT-CTTGTGGTTTGTCAGTTATCTGTAC
** * * *
734731 GTTTTGACAAACAGTCCTACCTGAACAATACCTATAGACATTAGTT-TT-T-G--TG---G-T-T
65 GTACTGACAAACAGTACTACCTGAACAGTACCTGTAGACATTAGTTCTTGTGGTTTGTCAGTTAT
* * * * * * **
734786 -TGTAAGT--T---AAACGGTACAATCTGAACAGTACCTGTAGACATTAGGTCTTGTTATTTGTC
130 CTGTACGTACTGACAAACAGTACTACCTGAACAGTATCTGTAGACATTAGTTCTTGTGGTTTGTC
*
734845 AGATA-CATGTACGTACTGA
195 AGTTATC-TGTACGTACTGA
* **
734864 CAAACAGTACTACATGAACAGTACATGTAGACATTAGTTCTTGTGGTTTGTCAGTTA----TACG
1 CAAACAGTACTACCTGAACAGTATTTGTAGACATTAGTTCTTGTGGTTTGTCAGTTATCTGTACG
* * * ** * *
734925 TACTGACAAACAGTA-AAACTAAACAGTATTTGTAGACATTAGTTCTTGTGGTTTATCAGTTATA
66 TACTGACAAACAGTACTACCTGAACAGTACCTGTAGACATTAGTTCTTGTGGTTTGTCAGTTATC
*
734989 TGGACGTACTGACAAACAGTACTACCTGAACAGTATCTGTAGACATTAGTTCTTGTGGTTTGTCA
131 TGTACGTACTGACAAACAGTACTACCTGAACAGTATCTGTAGACATTAGTTCTTGTGGTTTGTCA
* ** *
735054 CTTA----TACGTTTTGT
196 GTTATCTGTACGTACTGA
* * *
735068 CAAACAGTA-AAACTGAACAGTATTTGTAGACGTTAGTTCTTGTGGTTTGTCAGTTA----TACG
1 CAAACAGTACTACCTGAACAGTATTTGTAGACATTAGTTCTTGTGGTTTGTCAGTTATCTGTACG
** ** * * *
735128 TACTGACAAACAGTAAAACCTGAACAGTATTTGTAGATATTGGTTCTTGTGGTTTGTCAGTTATA
66 TACTGACAAACAGTACTACCTGAACAGTACCTGTAGACATTAGTTCTTGTGGTTTGTCAGTTATC
* * **
735193 TGTACGTACTGACAAACAGAACTACCTGAACAGTATCTGTAGACATTAGCTCCCGTGGTTTGTCA
131 TGTACGTACTGACAAACAGTACTACCTGAACAGTATCTGTAGACATTAGTTCTTGTGGTTTGTCA
* * *
735258 GTTATATGAACGTACTTA
196 GTTATCTGTACGTACTGA
* * *
735276 AAAACAGTTCTACCTGAACAGTATCTGTAGACATTAGTTCTTGTGGTTTGTCAGTTATCTGT
1 CAAACAGTACTACCTGAACAGTATTTGTAGACATTAGTTCTTGTGGTTTGTCAGTTATCTGT
735338 TATATATGCC
Statistics
Matches: 2120, Mismatches: 382, Indels: 256
0.77 0.14 0.09
Matches are distributed among these distances:
192 22 0.01
193 18 0.01
194 1 0.00
195 1 0.00
196 3 0.00
197 96 0.05
198 1 0.00
200 2 0.00
201 55 0.03
202 8 0.00
203 68 0.03
204 124 0.06
205 161 0.08
206 2 0.00
207 2 0.00
208 64 0.03
209 43 0.02
210 2 0.00
211 7 0.00
212 19 0.01
213 505 0.24
214 95 0.04
215 137 0.06
216 85 0.04
217 5 0.00
218 1 0.00
219 6 0.00
220 6 0.00
221 3 0.00
222 6 0.00
223 2 0.00
224 4 0.00
225 179 0.08
226 76 0.04
227 132 0.06
228 8 0.00
229 116 0.05
230 55 0.03
ACGTcount: A:0.29, C:0.17, G:0.19, T:0.35
Consensus pattern (213 bp):
CAAACAGTACTACCTGAACAGTATTTGTAGACATTAGTTCTTGTGGTTTGTCAGTTATCTGTACG
TACTGACAAACAGTACTACCTGAACAGTACCTGTAGACATTAGTTCTTGTGGTTTGTCAGTTATC
TGTACGTACTGACAAACAGTACTACCTGAACAGTATCTGTAGACATTAGTTCTTGTGGTTTGTCA
GTTATCTGTACGTACTGA
Found at i:733362 original size:84 final size:84
Alignment explanation
Indices: 733261--733426 Score: 235
Period size: 84 Copynumber: 2.0 Consensus size: 84
733251 GTCAGTTATC
*
733261 TGTACGTACTGACAAACAGTACTACCTAAACAGTATATGTAGACAACAG-TCAATGTGGTTTGTC
1 TGTACGTACTGAAAAACAGTACTACCTAAACAGTATATGTAGACAACAGTTC-ATGTGGTTTGTC
733325 AGTTATATGTACATACTGCA
65 AGTTATATGTACATACTGCA
* * * * ** *
733345 TGTATGTACTGAAAAACAGTGCTACCTGAACAGTATCTGTAGACATTAGTTCTTGTGGTTTGTCA
1 TGTACGTACTGAAAAACAGTACTACCTAAACAGTATATGTAGACAACAGTTCATGTGGTTTGTCA
*
733410 GTTATATGTACGTACTG
66 GTTATATGTACATACTG
733427 ACAAACAGTA
Statistics
Matches: 72, Mismatches: 9, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
84 70 0.97
85 2 0.03
ACGTcount: A:0.31, C:0.16, G:0.20, T:0.33
Consensus pattern (84 bp):
TGTACGTACTGAAAAACAGTACTACCTAAACAGTATATGTAGACAACAGTTCATGTGGTTTGTCA
GTTATATGTACATACTGCA
Found at i:733419 original size:71 final size:71
Alignment explanation
Indices: 733344--734510 Score: 470
Period size: 71 Copynumber: 16.2 Consensus size: 71
733334 TACATACTGC
* * *
733344 ATGTATGTACTGAAAAACAGTGCTACCTGAACAGTATCTGTAGACATTAGTTCTTGTGGTTTGTC
1 ATGTACGTACTGAAAAACAGTGCTACCTGAACAATATCTGTAGACATTAGTTCTTGTGATTTGTC
733409 AGTTAT
66 AGTTAT
* ** * * * * *
733415 ATGTACGTACTGACAAACAGTAATACCTGAACAATACCTTGTATAAATTAGGTCTTGTTATTTGT
1 ATGTACGTACTGAAAAACAGTGCTACCTGAACAATATC-TGTAGACATTAGTTCTTGTGATTTGT
*
733480 CAGTTAC
65 CAGTTAT
* *
733487 ATGTACGTACTGGAAAACAGTAG-TACCTGAACAATATCTGTAGACTTTAGTTCTTGTGATTTGT
1 ATGTACGTACTGAAAAACAGT-GCTACCTGAACAATATCTGTAGACATTAGTTCTTGTGATTTGT
733551 CAGTTAT
65 CAGTTAT
* * * * * ** * *
733558 CTGTACGTACTGACAAACAGTTCTTCCTGAACAGTATCTGTAGTTA-TAGTTCTTGTGGTTTATC
1 ATGTACGTACTGAAAAACAGTGCTACCTGAACAATATCTGTAGACATTAGTTCTTGTGATTTGTC
*
733622 AGTTCT
66 AGTTAT
* * ** * * * * * * * *
733628 -TGT-GGT-TTGTCAGTTATCTGTACCT-TCTGACAAACAA-AACTACCTAAACAATACGTGTAG
1 ATGTACGTACTG--A-AAAACAGT-GCTACCTG---AACAATATCT--GTAGACATTA-GT-T--
*
733688 ACTT-T-ATTTCTTGT-GGTT-T
53 -CTTGTGA--T-TTGTCAGTTAT
* ** * * * ** * * * * * *
733707 GTCAGTTAAATGAACGTACTGACAAACATTAATACCTGCACAGTACCTATAGACATAAGTTTTTG
1 AT--G-TACGT-AC-----TGAAAAACAGTGCTACCTGAACAATATCTGTAGACATTAGTTCTTG
*
733772 TGGTTTGTCAGTTAT
57 TGATTTGTCAGTTAT
* * * * * ** * * * *
733787 CTGTACGTACTGACAAACAGTACTACCTGAACAGTATTTGCGGACATAAGCTCTTATGGTTTGTC
1 ATGTACGTACTGAAAAACAGTGCTACCTGAACAATATCTGTAGACATTAGTTCTTGTGATTTGTC
733852 AGTTAT
66 AGTTAT
* * * * * * * * * *
733858 CTGTACGTACTGACAAACAGTACTACCTGAACAGTATTTGCAGACATAAGCTCTTGTGGTTTTTC
1 ATGTACGTACTGAAAAACAGTGCTACCTGAACAATATCTGTAGACATTAGTTCTTGTGATTTGTC
733923 AGTTAT
66 AGTTAT
* * * * * * *
733929 CTGTACGTACTGACAAACAGTACTACCTGAACAGTATTTGCAGACATTAGTTCTTGTGGTTTGTC
1 ATGTACGTACTGAAAAACAGTGCTACCTGAACAATATCTGTAGACATTAGTTCTTGTGATTTGTC
733994 AGTTAT
66 AGTTAT
* ** *
734000 ATGTACGTACTGACAAAA-AGTTCTACCTGAACTGTACCTGTAGACATTAGTTCTTGT-AGTTTG
1 ATGTACGTACTGA-AAAACAGTGCTACCTGAACAATATCTGTAGACATTAGTTCTTGTGA-TTTG
734063 TCAGTTAT
64 TCAGTTAT
* * * *
734071 CTGTACGTACTGACAAACAGTACTACCTGAACAATACCTGTAGACATTAGTTCTTGT-AGTTTGT
1 ATGTACGTACTGAAAAACAGTGCTACCTGAACAATATCTGTAGACATTAGTTCTTGTGA-TTTGT
734135 CAGTTAT
65 CAGTTAT
* * * * * ** * * * ** * *
734142 ATGTATGGAGTGACAAACAGTACTACCAAAACAGTATCTATAAACAACAG-TCAATGTGGTTTGT
1 ATGTACGTACTGAAAAACAGTGCTACCTGAACAATATCTGTAGACATTAGTTC-TTGTGATTTGT
*
734206 CAATAATAT
65 CAGT--TAT
* * *
734215 ATGAACGTACTGCTGTATGTACTGACAAACAGTGCTACCTGAACAGTATCTGTAGACA--ACGGT
1 AT----GTA---C-----GTACTGAAAAACAGTGCTACCTGAACAATATCTGTAGACATTA-GTT
* *
734278 CAATGTGGTTTGTCAGTTAT
53 C-TTGTGATTTGTCAGTTAT
* * * * * *
734298 ATGTA--TA-T-----AC--T-CTACCTGAGCAATACCTATTGACATTTGTTCTTGTGGTTTGTC
1 ATGTACGTACTGAAAAACAGTGCTACCTGAACAATATCTGTAGACATTAGTTCTTGTGATTTGTC
*
734352 ATTTAT
66 AGTTAT
* * ** * ** * *
734358 CTGTACGTACTGACAAACAGTTTTACCTGAACAGTATCTGTAGTTA-TGGTTCTTGTGGTTTGTC
1 ATGTACGTACTGAAAAACAGTGCTACCTGAACAATATCTGTAGACATTAGTTCTTGTGATTTGTC
734422 AGTTAT
66 AGTTAT
* * * * * ** * *
734428 CTGTACGTACTGACAAACAGTAG-TACCTAAACAGTATCTTTAGACAACAG-TCAATGTGGTTTG
1 ATGTACGTACTGAAAAACAGT-GCTACCTGAACAATATCTGTAGACATTAGTTC-TTGTGATTTG
734491 TCAGTTAT
64 TCAGTTAT
734499 ATGTACGTACTG
1 ATGTACGTACTG
734511 CATGTATGTA
Statistics
Matches: 861, Mismatches: 159, Indels: 152
0.73 0.14 0.13
Matches are distributed among these distances:
60 39 0.05
61 4 0.00
62 2 0.00
63 3 0.00
67 2 0.00
68 5 0.01
69 6 0.01
70 98 0.11
71 497 0.58
72 66 0.08
73 9 0.01
74 3 0.00
75 2 0.00
76 3 0.00
77 7 0.01
78 5 0.01
79 11 0.01
80 11 0.01
81 3 0.00
82 2 0.00
83 9 0.01
84 8 0.01
85 53 0.06
86 3 0.00
87 1 0.00
88 6 0.01
89 1 0.00
91 2 0.00
ACGTcount: A:0.29, C:0.17, G:0.19, T:0.35
Consensus pattern (71 bp):
ATGTACGTACTGAAAAACAGTGCTACCTGAACAATATCTGTAGACATTAGTTCTTGTGATTTGTC
AGTTAT
Found at i:733627 original size:17 final size:17
Alignment explanation
Indices: 733601--733642 Score: 68
Period size: 17 Copynumber: 2.5 Consensus size: 17
733591 GTATCTGTAG
733601 TTAT-AGTTCTTGTGGT
1 TTATCAGTTCTTGTGGT
733617 TTATCAGTTCTTGTGGT
1 TTATCAGTTCTTGTGGT
*
733634 TTGTCAGTT
1 TTATCAGTT
733643 ATCTGTACCT
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
16 4 0.17
17 20 0.83
ACGTcount: A:0.12, C:0.10, G:0.24, T:0.55
Consensus pattern (17 bp):
TTATCAGTTCTTGTGGT
Found at i:733687 original size:87 final size:87
Alignment explanation
Indices: 733535--733713 Score: 218
Period size: 87 Copynumber: 2.0 Consensus size: 87
733525 TGTAGACTTT
* *** * * *
733535 AGTTCTTGTGATTTGTCAGTTATCTGTACGTACTGACAAACAGTTCTTCCTGAACAGTATCTGTA
1 AGTTCTTGTGATTTGTCAGTTATCTGTACCTACTGACAAACAAAACTACCTAAACAATATCTGTA
733600 G-TTATAGTTCTTGTGGTTTATC
66 GATT-TAGTTCTTGTGGTTTATC
* *
733622 AGTTCTTGTGGTTTGTCAGTTATCTGTACCTTCTGACAAACAAAACTACCTAAACAATA-CGTGT
1 AGTTCTTGTGATTTGTCAGTTATCTGTACCTACTGACAAACAAAACTACCTAAACAATATC-TGT
* *
733686 AGACTTTATTTCTTGTGGTTTGTC
65 AGA-TTTAGTTCTTGTGGTTTATC
733710 AGTT
1 AGTT
733714 AAATGAACGT
Statistics
Matches: 78, Mismatches: 11, Indels: 5
0.83 0.12 0.05
Matches are distributed among these distances:
86 1 0.01
87 55 0.71
88 20 0.26
89 2 0.03
ACGTcount: A:0.23, C:0.17, G:0.18, T:0.41
Consensus pattern (87 bp):
AGTTCTTGTGATTTGTCAGTTATCTGTACCTACTGACAAACAAAACTACCTAAACAATATCTGTA
GATTTAGTTCTTGTGGTTTATC
Found at i:734455 original size:70 final size:71
Alignment explanation
Indices: 734336--734510 Score: 228
Period size: 70 Copynumber: 2.5 Consensus size: 71
734326 ATTGACATTT
* ** *
734336 GTTCTTGTGGTTTGTCATTTATCTGTACGTACTGACAAACAGTTTTACCTGAACAGTATCTGTAG
1 GTTCTTGTGGTTTGTCAGTTATCTGTACGTACTGACAAACAGTAGTACCTAAACAGTATCTGTAG
** **
734401 -TTATG
66 ACAACA
*
734406 GTTCTTGTGGTTTGTCAGTTATCTGTACGTACTGACAAACAGTAGTACCTAAACAGTATCTTTAG
1 GTTCTTGTGGTTTGTCAGTTATCTGTACGTACTGACAAACAGTAGTACCTAAACAGTATCTGTAG
734471 ACAACA
66 ACAACA
* *
734477 G-TCAATGTGGTTTGTCAGTTATATGTACGTACTG
1 GTTC-TTGTGGTTTGTCAGTTATCTGTACGTACTG
734511 CATGTATGTA
Statistics
Matches: 92, Mismatches: 11, Indels: 3
0.87 0.10 0.03
Matches are distributed among these distances:
70 62 0.67
71 30 0.33
ACGTcount: A:0.25, C:0.16, G:0.21, T:0.38
Consensus pattern (71 bp):
GTTCTTGTGGTTTGTCAGTTATCTGTACGTACTGACAAACAGTAGTACCTAAACAGTATCTGTAG
ACAACA
Done.