Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.04
Sequence: scaffold1423
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: 1072665
ACGTcount: A:0.30, C:0.15, G:0.15, T:0.29
Warning! 119513 characters in sequence are not A, C, G, or T
File 4 of 3
Found at i:834973 original size:22 final size:22
Alignment explanation
Indices: 834872--834973 Score: 66
Period size: 22 Copynumber: 4.5 Consensus size: 22
834862 GATTTTTTAA
*
834872 TGGCTTAAAGGTGGCTTAAAGG
1 TGGCTTAAAGGTGACTTAAAGG
* *
834894 TAGCTTAAAGGTGGCTTAAAGAAG
1 TGGCTTAAAGGTGACTTAAAG--G
* *
834918 TTTGGAC--ATAGG-GACCTTAAAGT
1 --TGG-CTTAAAGGTGA-CTTAAAGG
*
834941 TGTCCTTAAAGGTGACTTAAAGG
1 TG-GCTTAAAGGTGACTTAAAGG
834964 TGGCTTAAAG
1 TGGCTTAAAG
834974 ATAGTCTTTA
Statistics
Matches: 61, Mismatches: 9, Indels: 20
0.68 0.10 0.22
Matches are distributed among these distances:
21 3 0.05
22 27 0.44
23 13 0.21
24 4 0.07
25 11 0.18
26 2 0.03
27 1 0.02
ACGTcount: A:0.31, C:0.11, G:0.29, T:0.28
Consensus pattern (22 bp):
TGGCTTAAAGGTGACTTAAAGG
Found at i:835081 original size:11 final size:11
Alignment explanation
Indices: 835064--835103 Score: 55
Period size: 11 Copynumber: 3.7 Consensus size: 11
835054 TTAAAGATCG
835064 TCTTTAAGCTA
1 TCTTTAAGCTA
*
835075 CCTTTAAGC-A
1 TCTTTAAGCTA
*
835085 TCTTTCAGCTA
1 TCTTTAAGCTA
835096 TCTTTAAG
1 TCTTTAAG
835104 GAGAACTTAA
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
10 8 0.33
11 16 0.67
ACGTcount: A:0.25, C:0.23, G:0.10, T:0.42
Consensus pattern (11 bp):
TCTTTAAGCTA
Found at i:835094 original size:21 final size:21
Alignment explanation
Indices: 835064--835103 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
835054 TTAAAGATCG
835064 TCTTTAAGCTACCTTTAAGCA
1 TCTTTAAGCTACCTTTAAGCA
* *
835085 TCTTTCAGCTATCTTTAAG
1 TCTTTAAGCTACCTTTAAG
835104 GAGAACTTAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.25, C:0.23, G:0.10, T:0.42
Consensus pattern (21 bp):
TCTTTAAGCTACCTTTAAGCA
Found at i:843504 original size:2 final size:2
Alignment explanation
Indices: 843497--843540 Score: 88
Period size: 2 Copynumber: 22.0 Consensus size: 2
843487 NNNNNNNNNN
843497 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
843539 TC
1 TC
843541 AGATTAATAT
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 42 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
TC
Found at i:845267 original size:12 final size:12
Alignment explanation
Indices: 845250--845275 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
845240 GAAAGATCCA
845250 TTTGATTGAAAC
1 TTTGATTGAAAC
845262 TTTGATTGAAAC
1 TTTGATTGAAAC
845274 TT
1 TT
845276 ACACCAATAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.31, C:0.08, G:0.15, T:0.46
Consensus pattern (12 bp):
TTTGATTGAAAC
Found at i:850754 original size:18 final size:17
Alignment explanation
Indices: 850731--850845 Score: 65
Period size: 13 Copynumber: 7.1 Consensus size: 17
850721 TCCTTAACAG
850731 TTATACATAGCCTCAAA
1 TTATACATAGCCTCAAA
*
850748 TT-T--ATA-CCTTAACA
1 TTATACATAGCCTCAA-A
850762 GTTATACATAGCCTCAAA
1 -TTATACATAGCCTCAAA
*
850780 TT-T--ATA-CCTTAACA
1 TTATACATAGCCTCAA-A
850794 GTTATACATAGCCTCAAA
1 -TTATACATAGCCTCAAA
*
850812 TT-T--ATA-CCTTAACA
1 TTATACATAGCCTCAA-A
850826 GTTATACATAGCCTCAAA
1 -TTATACATAGCCTCAAA
850844 TT
1 TT
850846 TTAAAGAAAT
Statistics
Matches: 74, Mismatches: 6, Indels: 36
0.64 0.05 0.31
Matches are distributed among these distances:
13 15 0.20
14 12 0.16
15 6 0.08
16 6 0.08
17 8 0.11
18 12 0.16
19 15 0.20
ACGTcount: A:0.37, C:0.22, G:0.06, T:0.35
Consensus pattern (17 bp):
TTATACATAGCCTCAAA
Found at i:850763 original size:32 final size:32
Alignment explanation
Indices: 850722--850846 Score: 250
Period size: 32 Copynumber: 3.9 Consensus size: 32
850712 TTTGATCACT
850722 CCTTAACAGTTATACATAGCCTCAAATTTATA
1 CCTTAACAGTTATACATAGCCTCAAATTTATA
850754 CCTTAACAGTTATACATAGCCTCAAATTTATA
1 CCTTAACAGTTATACATAGCCTCAAATTTATA
850786 CCTTAACAGTTATACATAGCCTCAAATTTATA
1 CCTTAACAGTTATACATAGCCTCAAATTTATA
850818 CCTTAACAGTTATACATAGCCTCAAATTT
1 CCTTAACAGTTATACATAGCCTCAAATTT
850847 TAAAGAAATT
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 93 1.00
ACGTcount: A:0.37, C:0.22, G:0.06, T:0.34
Consensus pattern (32 bp):
CCTTAACAGTTATACATAGCCTCAAATTTATA
Found at i:859636 original size:13 final size:13
Alignment explanation
Indices: 859618--859642 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
859608 AACTACATTC
859618 AATTACCATTACA
1 AATTACCATTACA
859631 AATTACCATTAC
1 AATTACCATTAC
859643 CCCGTCCCTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.44, C:0.24, G:0.00, T:0.32
Consensus pattern (13 bp):
AATTACCATTACA
Found at i:861310 original size:76 final size:76
Alignment explanation
Indices: 861214--861356 Score: 241
Period size: 76 Copynumber: 1.9 Consensus size: 76
861204 TATGACCTCA
* *
861214 ATGAATTCAACATGTACGTTTTCGTGAATAAAATCAAATTATCTATCTGAAACCATCTTGTTTCA
1 ATGAATTCAAAATGTACGTTTTCGCGAATAAAATCAAATTATCTATCTGAAACCATCTTGTTTCA
861279 ATGACAATGTC
66 ATGACAATGTC
* * *
861290 ATGAATTCAAAATTTACGTTTTCGCGAATAAAATCAAATTATCTATGTGAAACCGTCTTGTTTCA
1 ATGAATTCAAAATGTACGTTTTCGCGAATAAAATCAAATTATCTATCTGAAACCATCTTGTTTCA
861355 AT
66 AT
861357 TCAGTACATT
Statistics
Matches: 62, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
76 62 1.00
ACGTcount: A:0.36, C:0.16, G:0.12, T:0.36
Consensus pattern (76 bp):
ATGAATTCAAAATGTACGTTTTCGCGAATAAAATCAAATTATCTATCTGAAACCATCTTGTTTCA
ATGACAATGTC
Found at i:864059 original size:32 final size:32
Alignment explanation
Indices: 863983--864079 Score: 104
Period size: 32 Copynumber: 3.0 Consensus size: 32
863973 TCATATGTCA
* *
863983 GTACACATGTATATTTAGCCATGTGTTGTACAT
1 GTACACATGTATA-TTAGACATATGTTGTACAT
*** *
864016 GTACGGGTGTATATTAGATATATGTTGTACAT
1 GTACACATGTATATTAGACATATGTTGTACAT
* *
864048 GTACACATGTATATTTGGACATGTGTTGTACA
1 GTACACATGTATA-TTAGACATATGTTGTACA
864080 CATGTATATT
Statistics
Matches: 51, Mismatches: 12, Indels: 2
0.78 0.18 0.03
Matches are distributed among these distances:
32 26 0.51
33 25 0.49
ACGTcount: A:0.28, C:0.11, G:0.22, T:0.39
Consensus pattern (32 bp):
GTACACATGTATATTAGACATATGTTGTACAT
Found at i:864077 original size:27 final size:27
Alignment explanation
Indices: 864047--864101 Score: 92
Period size: 27 Copynumber: 2.0 Consensus size: 27
864037 ATGTTGTACA
*
864047 TGTACACATGTATATTTGGACATGTGT
1 TGTACACATGTATATTTAGACATGTGT
*
864074 TGTACACATGTATATTTAGACATTTGT
1 TGTACACATGTATATTTAGACATGTGT
864101 T
1 T
864102 TTCAATCAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.27, C:0.11, G:0.18, T:0.44
Consensus pattern (27 bp):
TGTACACATGTATATTTAGACATGTGT
Found at i:867582 original size:5 final size:5
Alignment explanation
Indices: 867572--867622 Score: 68
Period size: 5 Copynumber: 10.2 Consensus size: 5
867562 TCTAATATAG
* *
867572 TGTTT TGTTT TATTT TGTTT TGTTT TG-TT TGCTT TGTTTT TGTTT TGTTT
1 TGTTT TGTTT TGTTT TGTTT TGTTT TGTTT TGTTT TG-TTT TGTTT TGTTT
867622 T
1 T
867623 TTGTTTATTT
Statistics
Matches: 41, Mismatches: 3, Indels: 4
0.85 0.06 0.08
Matches are distributed among these distances:
4 4 0.10
5 33 0.80
6 4 0.10
ACGTcount: A:0.02, C:0.02, G:0.18, T:0.78
Consensus pattern (5 bp):
TGTTT
Found at i:867592 original size:15 final size:15
Alignment explanation
Indices: 867572--867634 Score: 65
Period size: 15 Copynumber: 4.1 Consensus size: 15
867562 TCTAATATAG
867572 TGTTTTGTTTTATTT
1 TGTTTTGTTTTATTT
*
867587 TGTTTTGTTTT-GTT
1 TGTTTTGTTTTATTT
* *
867601 TGCTTTGTTTTTGTTT
1 TGTTTTG-TTTTATTT
*
867617 TGTTTTTTGTTTATTT
1 TGTTTTGT-TTTATTT
867633 TG
1 TG
867635 AATTGTGAAA
Statistics
Matches: 39, Mismatches: 6, Indels: 5
0.78 0.12 0.10
Matches are distributed among these distances:
14 8 0.21
15 16 0.41
16 15 0.38
ACGTcount: A:0.03, C:0.02, G:0.17, T:0.78
Consensus pattern (15 bp):
TGTTTTGTTTTATTT
Found at i:869139 original size:21 final size:21
Alignment explanation
Indices: 869121--869341 Score: 327
Period size: 21 Copynumber: 10.5 Consensus size: 21
869111 GCCCATCATC
* *
869121 GGTAAAATATCCACTATCATT
1 GGTAAGATATCCACTATCAGT
* *
869142 GGTGATATATCCACTATCAGT
1 GGTAAGATATCCACTATCAGT
*
869163 GGTGATG-TATCCACTATCAGT
1 GGT-AAGATATCCACTATCAGT
869184 GGTAAGATATCCACTATCAGT
1 GGTAAGATATCCACTATCAGT
869205 GGTAAGATATCCACTATCAGT
1 GGTAAGATATCCACTATCAGT
*
869226 GATAAGATATCCACTATCAGT
1 GGTAAGATATCCACTATCAGT
869247 GGTAAGATATCCACTATCAGT
1 GGTAAGATATCCACTATCAGT
* *
869268 GATAAGATATCGACTATCAGT
1 GGTAAGATATCCACTATCAGT
*
869289 GATAAGATATCCACTATCAGT
1 GGTAAGATATCCACTATCAGT
*
869310 GATAAGATATCCACTATCAGT
1 GGTAAGATATCCACTATCAGT
*
869331 GATAAGATATC
1 GGTAAGATATC
869342 NNNNNNNNNN
Statistics
Matches: 186, Mismatches: 12, Indels: 4
0.92 0.06 0.02
Matches are distributed among these distances:
20 2 0.01
21 184 0.99
ACGTcount: A:0.35, C:0.18, G:0.17, T:0.30
Consensus pattern (21 bp):
GGTAAGATATCCACTATCAGT
Found at i:870033 original size:21 final size:21
Alignment explanation
Indices: 870015--870206 Score: 287
Period size: 21 Copynumber: 9.1 Consensus size: 21
870005 GCCCATCATC
* *
870015 GGTAAAATATCCACTATCATT
1 GGTAAGATATCCACTATCAGT
* *
870036 GGTGATATATCCACTATCAGT
1 GGTAAGATATCCACTATCAGT
*
870057 GGTGATG-TATCCACTATCAGT
1 GGT-AAGATATCCACTATCAGT
870078 GGTAAGATATCCACTATCAGT
1 GGTAAGATATCCACTATCAGT
870099 GGTAAGATATCCACTATCAGT
1 GGTAAGATATCCACTATCAGT
*
870120 GATAAGATATCCACTATCAGT
1 GGTAAGATATCCACTATCAGT
870141 GGTAAGATATCCACTATCAGT
1 GGTAAGATATCCACTATCAGT
*
870162 GATAAGATATCCACTATCAGT
1 GGTAAGATATCCACTATCAGT
* *
870183 GATAAGATATCGACTATCAGT
1 GGTAAGATATCCACTATCAGT
870204 GGT
1 GGT
870207 GATGTATTTG
Statistics
Matches: 157, Mismatches: 12, Indels: 4
0.91 0.07 0.02
Matches are distributed among these distances:
20 2 0.01
21 155 0.99
ACGTcount: A:0.33, C:0.18, G:0.18, T:0.30
Consensus pattern (21 bp):
GGTAAGATATCCACTATCAGT
Found at i:870314 original size:21 final size:21
Alignment explanation
Indices: 870288--870365 Score: 86
Period size: 21 Copynumber: 3.6 Consensus size: 21
870278 AAAGGCAATC
870288 ATTGGTAAGATATCAGAGACT
1 ATTGGTAAGATATCAGAGACT
* *
870309 ATTGGTAAGATAT-AAAGGCAAT
1 ATTGGTAAGATATCAGA-G-ACT
*
870331 CACTGGTAAGATATCAGAGACT
1 -ATTGGTAAGATATCAGAGACT
*
870353 ATTGGTGAGATAT
1 ATTGGTAAGATAT
870366 AAAAAACTAA
Statistics
Matches: 46, Mismatches: 7, Indels: 8
0.75 0.11 0.13
Matches are distributed among these distances:
20 2 0.04
21 25 0.54
22 4 0.09
23 13 0.28
24 2 0.04
ACGTcount: A:0.38, C:0.09, G:0.24, T:0.28
Consensus pattern (21 bp):
ATTGGTAAGATATCAGAGACT
Found at i:870344 original size:23 final size:23
Alignment explanation
Indices: 870269--870344 Score: 86
Period size: 23 Copynumber: 3.4 Consensus size: 23
870259 ATAATTAGTT
*
870269 GTAAGATACAAAGGCAATCATTG
1 GTAAGATATAAAGGCAATCATTG
* *
870292 GTAAGATAT-CAGAG-ACT-ATTG
1 GTAAGATATAAAG-GCAATCATTG
*
870313 GTAAGATATAAAGGCAATCACTG
1 GTAAGATATAAAGGCAATCATTG
870336 GTAAGATAT
1 GTAAGATAT
870345 CAGAGACTAT
Statistics
Matches: 43, Mismatches: 6, Indels: 8
0.75 0.11 0.14
Matches are distributed among these distances:
21 14 0.33
22 8 0.19
23 21 0.49
ACGTcount: A:0.42, C:0.11, G:0.22, T:0.25
Consensus pattern (23 bp):
GTAAGATATAAAGGCAATCATTG
Found at i:870365 original size:44 final size:44
Alignment explanation
Indices: 870269--870368 Score: 173
Period size: 44 Copynumber: 2.3 Consensus size: 44
870259 ATAATTAGTT
* *
870269 GTAAGATACAAAGGCAATCATTGGTAAGATATCAGAGACTATTG
1 GTAAGATATAAAGGCAATCACTGGTAAGATATCAGAGACTATTG
870313 GTAAGATATAAAGGCAATCACTGGTAAGATATCAGAGACTATTG
1 GTAAGATATAAAGGCAATCACTGGTAAGATATCAGAGACTATTG
*
870357 GTGAGATATAAA
1 GTAAGATATAAA
870369 AAACTAATGG
Statistics
Matches: 53, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
44 53 1.00
ACGTcount: A:0.42, C:0.10, G:0.23, T:0.25
Consensus pattern (44 bp):
GTAAGATATAAAGGCAATCACTGGTAAGATATCAGAGACTATTG
Found at i:875658 original size:23 final size:23
Alignment explanation
Indices: 875632--875677 Score: 92
Period size: 23 Copynumber: 2.0 Consensus size: 23
875622 TTTTTCATCA
875632 GCCATTATTATGCACAATGAGAC
1 GCCATTATTATGCACAATGAGAC
875655 GCCATTATTATGCACAATGAGAC
1 GCCATTATTATGCACAATGAGAC
875678 AATGATGTAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.35, C:0.22, G:0.17, T:0.26
Consensus pattern (23 bp):
GCCATTATTATGCACAATGAGAC
Found at i:876251 original size:18 final size:18
Alignment explanation
Indices: 876213--876271 Score: 73
Period size: 18 Copynumber: 3.3 Consensus size: 18
876203 CTTTTCCACA
**
876213 GACAATATAGTTTTAACT
1 GACAATATAGTTCCAACT
*
876231 GACAATATAGTTCCAAGT
1 GACAATATAGTTCCAACT
* *
876249 GACAAAATAGCTCCAACT
1 GACAATATAGTTCCAACT
876267 GACAA
1 GACAA
876272 GCCAGCTCTA
Statistics
Matches: 35, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
18 35 1.00
ACGTcount: A:0.42, C:0.19, G:0.14, T:0.25
Consensus pattern (18 bp):
GACAATATAGTTCCAACT
Found at i:876966 original size:2 final size:2
Alignment explanation
Indices: 876959--877010 Score: 90
Period size: 2 Copynumber: 27.0 Consensus size: 2
876949 CAGATTGCAT
876959 GA GA GA GA GA GA GA -A GA GA GA GA GA -A 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
876999 GA GA GA GA GA GA
1 GA GA GA GA GA GA
877011 ATATAAGTTC
Statistics
Matches: 48, Mismatches: 0, Indels: 4
0.92 0.00 0.08
Matches are distributed among these distances:
1 2 0.04
2 46 0.96
ACGTcount: A:0.52, C:0.00, G:0.48, T:0.00
Consensus pattern (2 bp):
GA
Found at i:891612 original size:51 final size:46
Alignment explanation
Indices: 891299--891615 Score: 272
Period size: 47 Copynumber: 6.7 Consensus size: 46
891289 TTTTAATTTA
* ** *
891299 ATTACTTGGGCTAGGTACACTCCAGATGAGTAAACCCCACCC-TTC
1 ATTACTTGGGCTAGGTACACTCCGGATGAGTATCCCCCCCCCTTTC
*
891344 ATCTATACTTGGGCTAGGTACACTCCGGATGAGTGATCCCCCCCTCCCACCTCTC
1 A--T-TACTTGGGCTAGGTACACTCCGGATGAGT-AT---CCCC-CCC-CCTTTC
* * *
891399 AATT-CTTGGGCTTGGTACACTCCAGATGAG-A--ACCCCCCCTTT-
1 -ATTACTTGGGCTAGGTACACTCCGGATGAGTATCCCCCCCCCTTTC
*
891441 ACTACTTGGGCTAGGTACACTCCGGATGAGTAATCCCCCCTCCCTTT-
1 ATTACTTGGGCTAGGTACACTCCGGATGAGT-ATCCCCCC-CCCTTTC
* *
891488 ACTACTTGGGCTAGGTACACTCCGGATGA-TAACCCCCCCCCTTTC
1 ATTACTTGGGCTAGGTACACTCCGGATGAGTATCCCCCCCCCTTTC
* * ** *
891533 ATTACTTGAGTTAGGTATTCTCCAGATGAGTATTTCCTCCTCCCACCTTTC
1 ATTACTTGGGCTAGGTACACTCCGGATGAGTA--TCC-CC-CCC-CCTTTC
*
891584 ATTACTTGGGCTAGGTACACCCCGGATGAGTA
1 ATTACTTGGGCTAGGTACACTCCGGATGAGTA
891616 CAGGTAATCC
Statistics
Matches: 221, Mismatches: 27, Indels: 42
0.76 0.09 0.14
Matches are distributed among these distances:
41 2 0.01
42 24 0.11
43 4 0.02
44 10 0.05
45 33 0.15
46 7 0.03
47 36 0.16
48 30 0.14
49 3 0.01
50 4 0.02
51 32 0.14
52 27 0.12
53 3 0.01
54 3 0.01
55 2 0.01
56 1 0.00
ACGTcount: A:0.21, C:0.32, G:0.19, T:0.28
Consensus pattern (46 bp):
ATTACTTGGGCTAGGTACACTCCGGATGAGTATCCCCCCCCCTTTC
Found at i:894307 original size:2 final size:2
Alignment explanation
Indices: 894302--894354 Score: 106
Period size: 2 Copynumber: 26.5 Consensus size: 2
894292 GTGTGTGTGT
894302 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
894344 GA GA GA GA GA G
1 GA GA GA GA GA G
894355 CGCGCAAATA
Statistics
Matches: 51, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 51 1.00
ACGTcount: A:0.49, C:0.00, G:0.51, T:0.00
Consensus pattern (2 bp):
GA
Found at i:899323 original size:21 final size:21
Alignment explanation
Indices: 899297--899340 Score: 79
Period size: 21 Copynumber: 2.1 Consensus size: 21
899287 GACTACAGAC
899297 CATGAACCAAACAATGATGTT
1 CATGAACCAAACAATGATGTT
*
899318 CATGAACCAACCAATGATGTT
1 CATGAACCAAACAATGATGTT
899339 CA
1 CA
899341 CAGCCATATA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.41, C:0.23, G:0.14, T:0.23
Consensus pattern (21 bp):
CATGAACCAAACAATGATGTT
Found at i:899425 original size:21 final size:21
Alignment explanation
Indices: 899383--899426 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 21
899373 GGATACAGAC
*
899383 CATGAACCAAACAATGATGTT
1 CATGAACCAAACAATGACGTT
* *
899404 CATGAACCAACCACTGACGTT
1 CATGAACCAAACAATGACGTT
899425 CA
1 CA
899427 CAGCCATATA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.39, C:0.27, G:0.14, T:0.20
Consensus pattern (21 bp):
CATGAACCAAACAATGACGTT
Found at i:899501 original size:21 final size:21
Alignment explanation
Indices: 899475--899539 Score: 121
Period size: 21 Copynumber: 3.1 Consensus size: 21
899465 GACTACAGAC
899475 CATGAACCAAACAATGATGTT
1 CATGAACCAAACAATGATGTT
899496 CATGAACCAAACAATGATGTT
1 CATGAACCAAACAATGATGTT
*
899517 CATGAACCAACCAATGATGTT
1 CATGAACCAAACAATGATGTT
899538 CA
1 CA
899540 CAGCCATACA
Statistics
Matches: 43, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
21 43 1.00
ACGTcount: A:0.42, C:0.22, G:0.14, T:0.23
Consensus pattern (21 bp):
CATGAACCAAACAATGATGTT
Found at i:899502 original size:92 final size:91
Alignment explanation
Indices: 899262--899518 Score: 373
Period size: 86 Copynumber: 2.8 Consensus size: 91
899252 TAGTCAGTCA
*
899262 GTAACAGTAAACGATAAATAAGCTAGACTACAGACCATGAACCAAACAATGATGTTCATGAACCA
1 GTAACAGT--ACGGTAAATAAGCTAGACTACAGACCATGAACCAAACAATGATGTTCATGAACCA
* *
899327 ACCAATGATGTTCACAGCCATATATCCT
64 ACCAATGACGTTCACAGCCATATACCCT
*
899355 GTAAC---A--GTAAATAAGCTTGGA-TACAGACCATGAACCAAACAATGATGTTCATGAACCAA
1 GTAACAGTACGGTAAATAAGC-TAGACTACAGACCATGAACCAAACAATGATGTTCATGAACCAA
*
899414 CCACTGACGTTCACAGCCATATACCCT
65 CCAATGACGTTCACAGCCATATACCCT
899441 GTAACAGTACCGGTAAATAAGCTAGACTACAGACCATGAACCAAACAATGATGTTCATGAACCAA
1 GTAACAGTA-CGGTAAATAAGCTAGACTACAGACCATGAACCAAACAATGATGTTCATGAACCAA
* *
899506 ACAATGATGTTCA
65 CCAATGACGTTCA
899519 TGAACCAACC
Statistics
Matches: 147, Mismatches: 9, Indels: 17
0.85 0.05 0.10
Matches are distributed among these distances:
86 76 0.52
87 3 0.02
88 1 0.01
89 1 0.01
91 3 0.02
92 58 0.39
93 5 0.03
ACGTcount: A:0.41, C:0.23, G:0.15, T:0.21
Consensus pattern (91 bp):
GTAACAGTACGGTAAATAAGCTAGACTACAGACCATGAACCAAACAATGATGTTCATGAACCAAC
CAATGACGTTCACAGCCATATACCCT
Found at i:899624 original size:21 final size:21
Alignment explanation
Indices: 899582--899625 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 21
899572 GGATACAGAC
*
899582 CATGAACCAAACAATGATGTT
1 CATGAACCAAACAATGACGTT
* *
899603 CATGAACCAACCACTGACGTT
1 CATGAACCAAACAATGACGTT
899624 CA
1 CA
899626 CAGCCATATA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.39, C:0.27, G:0.14, T:0.20
Consensus pattern (21 bp):
CATGAACCAAACAATGACGTT
Found at i:899637 original size:199 final size:199
Alignment explanation
Indices: 899297--899907 Score: 1065
Period size: 199 Copynumber: 3.1 Consensus size: 199
899287 GACTACAGAC
899297 CATGAACCAAACAATGATGTTCATGAACCAACCAATGATGTTCACAGCCATATATCCTGTAACAG
1 CATGAACCAAACAATGATGTTCATGAACCAACCAATGATGTTCACAGCCATATATCCTGTAACAG
899362 TAAATAAGCTTGGATACAGACCATGAACCAAACAATGATGTTCATGAACCAACCACTGACGTTCA
66 TAAATAAGCTTGGATACAGACCATGAACCAAACAATGATGTTCATGAACCAACCACTGACGTTCA
899427 CAGCCATATACCCTGTAACAGTACCGGTAAATAAGCTAGACTACAGACCATGAACCAAACAATGA
131 CAGCCATATACCCTGTAACAGTACCGGTAAATAAGCTAGACTACAGACCATGAACCAAACAATGA
899492 TGTT
196 TGTT
*
899496 CATGAACCAAACAATGATGTTCATGAACCAACCAATGATGTTCACAGCCATACATCCTGTAACAG
1 CATGAACCAAACAATGATGTTCATGAACCAACCAATGATGTTCACAGCCATATATCCTGTAACAG
899561 TAAATAAGCTTGGATACAGACCATGAACCAAACAATGATGTTCATGAACCAACCACTGACGTTCA
66 TAAATAAGCTTGGATACAGACCATGAACCAAACAATGATGTTCATGAACCAACCACTGACGTTCA
899626 CAGCCATATACCCTGTAACAGTACCGGTAAATAAGCTAGACTACAGACCATGAACCAAACAATGA
131 CAGCCATATACCCTGTAACAGTACCGGTAAATAAGCTAGACTACAGACCATGAACCAAACAATGA
899691 TGTT
196 TGTT
*
899695 CATGAACCAACCAATGATGTTCATGAACCAACCAATGATGTTCACAGCCATATATCCTGTAACAG
1 CATGAACCAAACAATGATGTTCATGAACCAACCAATGATGTTCACAGCCATATATCCTGTAACAG
* * * *
899760 TAAATAAACTTGGATACAGATCATGAACCAAACAATGATGTTCATGAACCAACCAATGATGTTCA
66 TAAATAAGCTTGGATACAGACCATGAACCAAACAATGATGTTCATGAACCAACCACTGACGTTCA
* * * **
899825 CAGCCATATACCCTATGACA-T-----TAAATAAGCTTGGA-TACAGACCATGAACCAAACAAAA
131 CAGCCATATACCCTGTAACAGTACCGGTAAATAAGC-TAGACTACAGACCATGAACCAAACAATG
899883 ATGTT
195 ATGTT
899888 CATGAACCAAACAATGATGT
1 CATGAACCAAACAATGATGT
899908 ACACAGCCAT
Statistics
Matches: 398, Mismatches: 13, Indels: 8
0.95 0.03 0.02
Matches are distributed among these distances:
193 54 0.14
194 3 0.01
198 1 0.00
199 340 0.85
ACGTcount: A:0.40, C:0.24, G:0.15, T:0.22
Consensus pattern (199 bp):
CATGAACCAAACAATGATGTTCATGAACCAACCAATGATGTTCACAGCCATATATCCTGTAACAG
TAAATAAGCTTGGATACAGACCATGAACCAAACAATGATGTTCATGAACCAACCACTGACGTTCA
CAGCCATATACCCTGTAACAGTACCGGTAAATAAGCTAGACTACAGACCATGAACCAAACAATGA
TGTT
Found at i:899641 original size:86 final size:88
Alignment explanation
Indices: 899496--899717 Score: 333
Period size: 86 Copynumber: 2.5 Consensus size: 88
899486 CAATGATGTT
*
899496 CATGAACCAAACAATGATGTTCATGAACCAACCAATGATGTTCACAGCCATACATCCTGTAAC-A
1 CATGAACCAAACAATGATGTTCATGAACCAACCAATGATGTTCACAGCCATACACCCTGTAACAA
*
899560 -GTAAATAAGCTTGGA-TACAGAC
66 CGTAAATAAGC-TAGACTACAGAC
* * *
899582 CATGAACCAAACAATGATGTTCATGAACCAACCACTGACGTTCACAGCCATATACCCTGTAACAG
1 CATGAACCAAACAATGATGTTCATGAACCAACCAATGATGTTCACAGCCATACACCCTGTAACA-
899647 TACCGGTAAATAAGCTAGACTACAGAC
65 -A-C-GTAAATAAGCTAGACTACAGAC
899674 CATGAACCAAACAATGATGTTCATGAACCAACCAATGATGTTCA
1 CATGAACCAAACAATGATGTTCATGAACCAACCAATGATGTTCA
899718 TGAACCAACC
Statistics
Matches: 122, Mismatches: 7, Indels: 8
0.89 0.05 0.06
Matches are distributed among these distances:
86 59 0.48
89 1 0.01
91 3 0.02
92 59 0.48
ACGTcount: A:0.39, C:0.25, G:0.15, T:0.21
Consensus pattern (88 bp):
CATGAACCAAACAATGATGTTCATGAACCAACCAATGATGTTCACAGCCATACACCCTGTAACAA
CGTAAATAAGCTAGACTACAGAC
Found at i:899700 original size:21 final size:21
Alignment explanation
Indices: 899674--899738 Score: 121
Period size: 21 Copynumber: 3.1 Consensus size: 21
899664 GACTACAGAC
*
899674 CATGAACCAAACAATGATGTT
1 CATGAACCAACCAATGATGTT
899695 CATGAACCAACCAATGATGTT
1 CATGAACCAACCAATGATGTT
899716 CATGAACCAACCAATGATGTT
1 CATGAACCAACCAATGATGTT
899737 CA
1 CA
899739 CAGCCATATA
Statistics
Matches: 43, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
21 43 1.00
ACGTcount: A:0.40, C:0.23, G:0.14, T:0.23
Consensus pattern (21 bp):
CATGAACCAACCAATGATGTT
Found at i:899804 original size:21 final size:21
Alignment explanation
Indices: 899780--899824 Score: 81
Period size: 21 Copynumber: 2.1 Consensus size: 21
899770 TGGATACAGA
899780 TCATGAACCAAACAATGATGT
1 TCATGAACCAAACAATGATGT
*
899801 TCATGAACCAACCAATGATGT
1 TCATGAACCAAACAATGATGT
899822 TCA
1 TCA
899825 CAGCCATATA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.40, C:0.22, G:0.13, T:0.24
Consensus pattern (21 bp):
TCATGAACCAAACAATGATGT
Found at i:899817 original size:107 final size:109
Alignment explanation
Indices: 899582--899824 Score: 357
Period size: 107 Copynumber: 2.2 Consensus size: 109
899572 GGATACAGAC
* *
899582 CATGAACCAAACAATGATGTTCATGAACCAACCACTGACGTTCACAGCCATATACCCTGTAACAG
1 CATGAACCAACCAATGATGTTCATGAACCAACCAATGACGTTCACAGCCATATACCCTGTAACA-
*
899647 TACCGGTAAATAAGCTAGACTACAGACCATGAACCAAACAATGATGTT
65 -A-C-GTAAATAAACTAGACTACAGACCATGAACCAAACAATGATGTT
* *
899695 CATGAACCAACCAATGATGTTCATGAACCAACCAATGATGTTCACAGCCATATATCCTGTAAC-A
1 CATGAACCAACCAATGATGTTCATGAACCAACCAATGACGTTCACAGCCATATACCCTGTAACAA
* *
899759 -GTAAATAAACTTGGA-TACAGATCATGAACCAAACAATGATGTT
66 CGTAAATAAAC-TAGACTACAGACCATGAACCAAACAATGATGTT
899802 CATGAACCAACCAATGATGTTCA
1 CATGAACCAACCAATGATGTTCA
899825 CAGCCATATA
Statistics
Matches: 122, Mismatches: 7, Indels: 8
0.89 0.05 0.06
Matches are distributed among these distances:
107 59 0.48
108 3 0.02
110 1 0.01
113 59 0.48
ACGTcount: A:0.40, C:0.24, G:0.14, T:0.22
Consensus pattern (109 bp):
CATGAACCAACCAATGATGTTCATGAACCAACCAATGACGTTCACAGCCATATACCCTGTAACAA
CGTAAATAAACTAGACTACAGACCATGAACCAAACAATGATGTT
Found at i:899850 original size:86 final size:86
Alignment explanation
Indices: 899694--899921 Score: 357
Period size: 86 Copynumber: 2.7 Consensus size: 86
899684 ACAATGATGT
* * *
899694 TCATGAACCAACCAATGATGTTCATGAACCAACCAATGATGTTCACAGCCATATATCCTGTAACA
1 TCATGAACCAAACAATGATGTTCATGAACCAACCAATGATGTTCACAGCCATATACCCTATAACA
899759 GTAAATAAACTTGGATACAGA
66 GTAAATAAACTTGGATACAGA
*
899780 TCATGAACCAAACAATGATGTTCATGAACCAACCAATGATGTTCACAGCCATATACCCTATGACA
1 TCATGAACCAAACAATGATGTTCATGAACCAACCAATGATGTTCACAGCCATATACCCTATAACA
* *
899845 TTAAATAAGCTTGGATACAGA
66 GTAAATAAACTTGGATACAGA
* ** * *
899866 CCATGAACCAAACAAAAATGTTCATGAACCAAACAATGATGTACACAGCCATATAC
1 TCATGAACCAAACAATGATGTTCATGAACCAACCAATGATGTTCACAGCCATATAC
899922 ATGTACCTTG
Statistics
Matches: 131, Mismatches: 11, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
86 131 1.00
ACGTcount: A:0.41, C:0.23, G:0.13, T:0.23
Consensus pattern (86 bp):
TCATGAACCAAACAATGATGTTCATGAACCAACCAATGATGTTCACAGCCATATACCCTATAACA
GTAAATAAACTTGGATACAGA
Found at i:900249 original size:18 final size:18
Alignment explanation
Indices: 900226--900302 Score: 140
Period size: 18 Copynumber: 4.4 Consensus size: 18
900216 TTTCCTTAAG
900226 AAGTAAACAGGTATGTAA
1 AAGTAAACAGGTATGTAA
900244 AAGTAAACAGGTATGTAA
1 AAGTAAACAGGTATGTAA
900262 AAGT-AA-AGGTATGTAA
1 AAGTAAACAGGTATGTAA
900278 AAGTAAACAGGTATGTAA
1 AAGTAAACAGGTATGTAA
900296 AAGTAAA
1 AAGTAAA
900303 ATGAACTGTG
Statistics
Matches: 57, Mismatches: 0, Indels: 4
0.93 0.00 0.07
Matches are distributed among these distances:
16 14 0.25
17 4 0.07
18 39 0.68
ACGTcount: A:0.52, C:0.04, G:0.22, T:0.22
Consensus pattern (18 bp):
AAGTAAACAGGTATGTAA
Found at i:900274 original size:34 final size:34
Alignment explanation
Indices: 900234--900302 Score: 138
Period size: 34 Copynumber: 2.0 Consensus size: 34
900224 AGAAGTAAAC
900234 AGGTATGTAAAAGTAAACAGGTATGTAAAAGTAA
1 AGGTATGTAAAAGTAAACAGGTATGTAAAAGTAA
900268 AGGTATGTAAAAGTAAACAGGTATGTAAAAGTAA
1 AGGTATGTAAAAGTAAACAGGTATGTAAAAGTAA
900302 A
1 A
900303 ATGAACTGTG
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 35 1.00
ACGTcount: A:0.51, C:0.03, G:0.23, T:0.23
Consensus pattern (34 bp):
AGGTATGTAAAAGTAAACAGGTATGTAAAAGTAA
Found at i:907122 original size:17 final size:19
Alignment explanation
Indices: 907096--907136 Score: 50
Period size: 17 Copynumber: 2.2 Consensus size: 19
907086 TTTAAATGTT
907096 TTGTTAAATT-GTT-TATA
1 TTGTTAAATTCGTTGTATA
*
907113 TTGTTTAATTCGGTTGTATA
1 TTGTTAAATTC-GTTGTATA
907133 TTGT
1 TTGT
907137 CGTAGCTCAG
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
17 9 0.45
19 3 0.15
20 8 0.40
ACGTcount: A:0.22, C:0.02, G:0.17, T:0.59
Consensus pattern (19 bp):
TTGTTAAATTCGTTGTATA
Found at i:908458 original size:55 final size:55
Alignment explanation
Indices: 908392--908733 Score: 265
Period size: 55 Copynumber: 6.3 Consensus size: 55
908382 GCTAAGGCTT
*
908392 TACTCATCTAACCCTGGAGACAAGTTGTACAGACTTAGATATAAACAAAAGACCC
1 TACTCATCTAACCCTGGAGACAAGTTGTACAGACTTAGATATAAACATAAGACCC
* * * * * * **
908447 TACTCATCTAACCCCGCAGATAAG-T-T----A-TT-G-TACAGACTATAAGGCTT
1 TACTCATCTAACCCTGGAGACAAGTTGTACAGACTTAGATATAAAC-ATAAGACCC
* ** * * *
908494 TATTCATCTAACCCCAGTGACAAGTTGTTGTACAGACTTAGGTATAAATATAAGACCC
1 TACTCATCTAACCCTGGAGACAA---GTTGTACAGACTTAGATATAAACATAAGACCC
* * * *
908552 TACACATCTAATCCC-GGAGACAAGTTGTTGTACAGACTAAGATATAAATATAAGGCCC
1 TACTCATCTAA-CCCTGGAGACAA---GTTGTACAGACTTAGATATAAACATAAGACCC
* * * *
908610 CATTCATCTAACCCTGGAGACAAGTTGTACAGACTAAGATATAAACAAAAGACCC
1 TACTCATCTAACCCTGGAGACAAGTTGTACAGACTTAGATATAAACATAAGACCC
* * * **
908665 CACTCATCTAACCCAT-GAGACAAGTTGTACAGACTTAGATAAAAATATAAGACTT
1 TACTCATCTAACCC-TGGAGACAAGTTGTACAGACTTAGATATAAACATAAGACCC
*
908720 TACTCGTCTAACCC
1 TACTCATCTAACCC
908734 ATTTTATTGT
Statistics
Matches: 229, Mismatches: 42, Indels: 32
0.76 0.14 0.11
Matches are distributed among these distances:
46 5 0.02
47 24 0.10
48 2 0.01
49 1 0.00
50 1 0.00
51 1 0.00
52 1 0.00
53 1 0.00
54 1 0.00
55 108 0.47
56 2 0.01
57 5 0.02
58 70 0.31
59 7 0.03
ACGTcount: A:0.37, C:0.23, G:0.15, T:0.25
Consensus pattern (55 bp):
TACTCATCTAACCCTGGAGACAAGTTGTACAGACTTAGATATAAACATAAGACCC
Found at i:908554 original size:105 final size:102
Alignment explanation
Indices: 908362--908590 Score: 282
Period size: 105 Copynumber: 2.2 Consensus size: 102
908352 GTCTAGCTCT
* * * **
908362 GCAGACAAGTTGTTGTACTGGC--TAAGGCTTTACTCATCTAACCCTGGAGACAAGTTGTACAGA
1 GCAGACAAGTTATTGTACAGACTATAAGGCTTTACTCATCTAACCCCAGAGACAAGTTGTACAGA
*
908425 CTTAGATATAAACAAAAGACCCTACTCATCTAACCCC
66 CTTAGATATAAACAAAAGACCCTACACATCTAACCCC
* * *
908462 GCAGATAAGTTATTGTACAGACTATAAGGCTTTATTCATCTAACCCCAGTGACAAGTTGTTGTAC
1 GCAGACAAGTTATTGTACAGACTATAAGGCTTTACTCATCTAACCCCAGAGACAA---GTTGTAC
* * * *
908527 AGACTTAGGTATAAATATAAGACCCTACACATCTAATCCC
63 AGACTTAGATATAAACAAAAGACCCTACACATCTAACCCC
* *
908567 GGAGACAAGTTGTTGTACAGACTA
1 GCAGACAAGTTATTGTACAGACTA
908591 AGATATAAAT
Statistics
Matches: 108, Mismatches: 16, Indels: 5
0.84 0.12 0.04
Matches are distributed among these distances:
100 18 0.17
102 27 0.25
105 63 0.58
ACGTcount: A:0.34, C:0.22, G:0.17, T:0.27
Consensus pattern (102 bp):
GCAGACAAGTTATTGTACAGACTATAAGGCTTTACTCATCTAACCCCAGAGACAAGTTGTACAGA
CTTAGATATAAACAAAAGACCCTACACATCTAACCCC
Found at i:910220 original size:19 final size:21
Alignment explanation
Indices: 910182--910225 Score: 65
Period size: 19 Copynumber: 2.2 Consensus size: 21
910172 TTTATTTGTG
910182 TTTTTTCAAGTCAACTTAAAA
1 TTTTTTCAAGTCAACTTAAAA
*
910203 TTTTTTCAA-TTAAC-TAAAA
1 TTTTTTCAAGTCAACTTAAAA
910222 TTTT
1 TTTT
910226 CCTTTTTTGA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 9 0.41
20 4 0.18
21 9 0.41
ACGTcount: A:0.36, C:0.11, G:0.02, T:0.50
Consensus pattern (21 bp):
TTTTTTCAAGTCAACTTAAAA
Found at i:912448 original size:18 final size:18
Alignment explanation
Indices: 912425--912990 Score: 733
Period size: 18 Copynumber: 31.8 Consensus size: 18
912415 CTGGAACACT
912425 TACTGTAACACAGACATA
1 TACTGTAACACAGACATA
912443 TACTGTAACACAGACATA
1 TACTGTAACACAGACATA
912461 TACTGTAACACAGACATA
1 TACTGTAACACAGACATA
912479 TACTGT-A-ACAGACATA
1 TACTGTAACACAGACATA
912495 TACTGTAACACAGACATA
1 TACTGTAACACAGACATA
912513 TACTGTAACACAGACACT-
1 TACTGTAACACAGACA-TA
912531 TACTGTAACACAGACATA
1 TACTGTAACACAGACATA
912549 TACTGTAACACAGACACT-
1 TACTGTAACACAGACA-TA
912567 TACTGTAACACAGACACT-
1 TACTGTAACACAGACA-TA
912585 TACTGTAACACAGACATA
1 TACTGTAACACAGACATA
912603 TACTGTAACACAGACATA
1 TACTGTAACACAGACATA
912621 TACTGTAACACAGACATA
1 TACTGTAACACAGACATA
912639 TACTGTAACACAGACACT-
1 TACTGTAACACAGACA-TA
912657 TACTGTAACACAGACATA
1 TACTGTAACACAGACATA
912675 TACTGTAACACAGACATA
1 TACTGTAACACAGACATA
912693 TACTGTAACACAGACACT-
1 TACTGTAACACAGACA-TA
912711 TACTGTAACACAGACATA
1 TACTGTAACACAGACATA
912729 TACTGTAACACAGACACT-
1 TACTGTAACACAGACA-TA
912747 TACTGTAACACAGACATA
1 TACTGTAACACAGACATA
912765 TACTGTAACACAGACATA
1 TACTGTAACACAGACATA
912783 TACTGTAACACAGACACT-
1 TACTGTAACACAGACA-TA
912801 TACTGTAACACAGACATA
1 TACTGTAACACAGACATA
* *
912819 TACTGTAACATAGAC-TCT
1 TACTGTAACACAGACAT-A
*
912837 TACTGTAACACAGAC-TCT
1 TACTGTAACACAGACAT-A
*
912855 TACTGTAACACAGAC-TC
1 TACTGTAACACAGACATA
* * * ***
912872 T-CT-CAA-ATA-CCCGG
1 TACTGTAACACAGACATA
* *
912886 TACTGAAATACATGTAC-T-
1 TACTGTAACACA-G-ACATA
912904 TACTGTAACACAGACACT-
1 TACTGTAACACAGACA-TA
912922 TACTGTAACACAGACACT-
1 TACTGTAACACAGACA-TA
*
912940 TACTGTAACACGGACATA
1 TACTGTAACACAGACATA
*
912958 TACTGTAACACAGAC-TCT
1 TACTGTAACACAGACAT-A
912976 TACTGTAACACAGAC
1 TACTGTAACACAGAC
912991 TCTCTCAAAT
Statistics
Matches: 504, Mismatches: 18, Indels: 52
0.88 0.03 0.09
Matches are distributed among these distances:
13 1 0.00
14 3 0.01
15 4 0.01
16 21 0.04
17 15 0.03
18 453 0.90
19 6 0.01
20 1 0.00
ACGTcount: A:0.41, C:0.25, G:0.11, T:0.23
Consensus pattern (18 bp):
TACTGTAACACAGACATA
Found at i:913104 original size:18 final size:18
Alignment explanation
Indices: 913081--913264 Score: 83
Period size: 18 Copynumber: 10.1 Consensus size: 18
913071 GACTTCTGGA
*
913081 ACACTTAATGTTACACAG
1 ACACTTAATGTAACACAG
* *
913099 ACACTTACTGTAACATAG
1 ACACTTAATGTAACACAG
*
913117 ACA--T--TGTAACACAAA
1 ACACTTAATGTAACAC-AG
* * *
913132 AAACTTACTGTAACATAG
1 ACACTTAATGTAACACAG
* *
913150 ACACTTACTGTAACATAG
1 ACACTTAATGTAACACAG
* * *
913168 ACATTTACTGTAACATAG
1 ACACTTAATGTAACACAG
* *
913186 ACTCTCTCGATTATGGT-ACTA-AA
1 ACACT-T--A--AT-GTAAC-ACAG
* *
913209 ATACTTACTGTAACACAG
1 ACACTTAATGTAACACAG
**
913227 ACACTTTCTGTAACACAG
1 ACACTTAATGTAACACAG
*
913245 ACACTTACTGTAACACAG
1 ACACTTAATGTAACACAG
913263 AC
1 AC
913265 TCTCTCCATT
Statistics
Matches: 131, Mismatches: 21, Indels: 28
0.73 0.12 0.16
Matches are distributed among these distances:
14 7 0.05
15 3 0.02
16 1 0.01
17 4 0.03
18 95 0.73
19 8 0.06
20 1 0.01
21 1 0.01
22 1 0.01
23 7 0.05
24 3 0.02
ACGTcount: A:0.39, C:0.22, G:0.11, T:0.28
Consensus pattern (18 bp):
ACACTTAATGTAACACAG
Found at i:913258 original size:36 final size:36
Alignment explanation
Indices: 912420--913398 Score: 745
Period size: 36 Copynumber: 27.1 Consensus size: 36
912410 ATTTACTGGA
912420 ACACTTACTGTAACACAGACA-TATACTGTAACACAG
1 ACACTTACTGTAACACAGACACT-TACTGTAACACAG
912456 ACA-TATACTGTAACACAGACA-TATACTGT-A-ACAG
1 ACACT-TACTGTAACACAGACACT-TACTGTAACACAG
912490 ACA-TATACTGTAACACAGACA-TATACTGTAACACAG
1 ACACT-TACTGTAACACAGACACT-TACTGTAACACAG
912526 ACACTTACTGTAACACAGACA-TATACTGTAACACAG
1 ACACTTACTGTAACACAGACACT-TACTGTAACACAG
912562 ACACTTACTGTAACACAGACACTTACTGTAACACAG
1 ACACTTACTGTAACACAGACACTTACTGTAACACAG
912598 ACA-TATACTGTAACACAGACA-TATACTGTAACACAG
1 ACACT-TACTGTAACACAGACACT-TACTGTAACACAG
912634 ACA-TATACTGTAACACAGACACTTACTGTAACACAG
1 ACACT-TACTGTAACACAGACACTTACTGTAACACAG
912670 ACA-TATACTGTAACACAGACA-TATACTGTAACACAG
1 ACACT-TACTGTAACACAGACACT-TACTGTAACACAG
912706 ACACTTACTGTAACACAGACA-TATACTGTAACACAG
1 ACACTTACTGTAACACAGACACT-TACTGTAACACAG
912742 ACACTTACTGTAACACAGACA-TATACTGTAACACAG
1 ACACTTACTGTAACACAGACACT-TACTGTAACACAG
912778 ACA-TATACTGTAACACAGACACTTACTGTAACACAG
1 ACACT-TACTGTAACACAGACACTTACTGTAACACAG
* *
912814 ACA-TATACTGTAACATAGACTCTTACTGTAACACAG
1 ACACT-TACTGTAACACAGACACTTACTGTAACACAG
* * * *
912850 ACTCTTACTGTAACACAG--AC-T-CTCT--CAAAT
1 ACACTTACTGTAACACAGACACTTACTGTAACACAG
* * * * *
912880 ACCCGGTACTGAAATACATG-TACTTACTGTAACACAG
1 ACAC-TTACTGTAACACA-GACACTTACTGTAACACAG
*
912917 ACACTTACTGTAACACAGACACTTACTGTAACACGG
1 ACACTTACTGTAACACAGACACTTACTGTAACACAG
*
912953 ACA-TATACTGTAACACAGACTCTTACTGTAACACAG
1 ACACT-TACTGTAACACAGACACTTACTGTAACACAG
* * * *
912989 ACTCTCTCAAATACTGAAATACATG-TACTTACTGTAACACAG
1 A--CACT----TACTGTAACACA-GACACTTACTGTAACACAG
* *
913031 ACACTTACTGTAA-ACTATA-A---ACTGCAACACAG
1 ACACTTACTGTAACAC-AGACACTTACTGTAACACAG
* ** * *
913063 ACTCTCTAGACT-T--C-TGGAACACTTAATGTTACACAG
1 ACACT-T--ACTGTAACACAG-ACACTTACTGTAACACAG
* *
913099 ACACTTACTGTAACATAGACA--T--TGTAACACAAA
1 ACACTTACTGTAACACAGACACTTACTGTAACAC-AG
* * *
913132 AAACTTACTGTAACATAGACACTTACTGTAACATAG
1 ACACTTACTGTAACACAGACACTTACTGTAACACAG
* * * * *
913168 ACATTTACTGTAACATAGACTCTCTCGATTATGGT-ACTA-AA
1 ACACTTACTGTAACACAGACACT-T--A--CT-GTAAC-ACAG
* *
913209 ATACTTACTGTAACACAGACACTTTCTGTAACACAG
1 ACACTTACTGTAACACAGACACTTACTGTAACACAG
* ** ** *
913245 ACACTTACTGTAACACAGACTC-T-CTCCATTACTG
1 ACACTTACTGTAACACAGACACTTACTGTAACACAG
* * *
913279 A-A-ATACTATTACACAGACACTTACTGTAACACAG
1 ACACTTACTGTAACACAGACACTTACTGTAACACAG
*
913313 A-ATTTCTTGATTACTGTAACAGAGACACTTACTGTAACACAG
1 ACA---C----TTACTGTAACACAGACACTTACTGTAACACAG
* *
913355 AATTTCTAGATTACTGTAACAGAGACACTTACTGTAACACAG
1 -A---C-A-CTTACTGTAACACAGACACTTACTGTAACACAG
913397 AC
1 AC
913399 TCTCTAGATT
Statistics
Matches: 789, Mismatches: 80, Indels: 146
0.78 0.08 0.14
Matches are distributed among these distances:
30 6 0.01
31 10 0.01
32 41 0.05
33 31 0.04
34 53 0.07
35 24 0.03
36 477 0.60
37 22 0.03
38 2 0.00
39 2 0.00
40 4 0.01
41 24 0.03
42 90 0.11
43 2 0.00
48 1 0.00
ACGTcount: A:0.39, C:0.24, G:0.11, T:0.25
Consensus pattern (36 bp):
ACACTTACTGTAACACAGACACTTACTGTAACACAG
Found at i:913265 original size:77 final size:77
Alignment explanation
Indices: 913129--913275 Score: 231
Period size: 77 Copynumber: 1.9 Consensus size: 77
913119 ATTGTAACAC
* * * *
913129 AAAAAACTTACTGTAACATAGACACTTACTGTAACATAGACATTTACTGTAACATAGACTCTCTC
1 AAAAAACTTACTGTAACACAGACACTTACTGTAACACAGACACTTACTGTAACACAGACTCTCTC
*
913194 GATTATGGTACT
66 CATTATGGTACT
* *
913206 AAAATACTTACTGTAACACAGACACTTTCTGTAACACAGACACTTACTGTAACACAGACTCTCTC
1 AAAAAACTTACTGTAACACAGACACTTACTGTAACACAGACACTTACTGTAACACAGACTCTCTC
913271 CATTA
66 CATTA
913276 CTGAAATACT
Statistics
Matches: 63, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
77 63 1.00
ACGTcount: A:0.37, C:0.23, G:0.10, T:0.29
Consensus pattern (77 bp):
AAAAAACTTACTGTAACACAGACACTTACTGTAACACAGACACTTACTGTAACACAGACTCTCTC
CATTATGGTACT
Found at i:913310 original size:18 final size:18
Alignment explanation
Indices: 913289--913398 Score: 69
Period size: 18 Copynumber: 5.4 Consensus size: 18
913279 AAATACTATT
913289 ACACAGACACTTACTGTA
1 ACACAGACACTTACTGTA
913307 ACACAGA-ATTTCTTGATTACTGTA
1 ACACAGACA---C-T--T-ACTGTA
*
913331 ACAGAGACACTTACTGTA
1 ACACAGACACTTACTGTA
*
913349 ACACAGAATTTCTAGATTACTGTA
1 ACACAG-A---C-A-CTTACTGTA
*
913373 ACAGAGACACTTACTGTA
1 ACACAGACACTTACTGTA
913391 ACACAGAC
1 ACACAGAC
913399 TCTCTAGATT
Statistics
Matches: 72, Mismatches: 6, Indels: 28
0.68 0.06 0.26
Matches are distributed among these distances:
17 1 0.01
18 33 0.46
19 3 0.04
20 2 0.03
21 2 0.03
22 2 0.03
23 3 0.04
24 25 0.35
25 1 0.01
ACGTcount: A:0.38, C:0.22, G:0.14, T:0.26
Consensus pattern (18 bp):
ACACAGACACTTACTGTA
Found at i:913328 original size:24 final size:23
Alignment explanation
Indices: 913299--913375 Score: 76
Period size: 24 Copynumber: 3.5 Consensus size: 23
913289 ACACAGACAC
913299 TTACTGTAACACAGAATTTCTTGA
1 TTACTGTAACACAGAATTTC-TGA
*
913323 TTACTGTAACAGAG-A---C--A
1 TTACTGTAACACAGAATTTCTGA
913340 CTTACTGTAACACAGAATTTCTAGA
1 -TTACTGTAACACAGAATTTCT-GA
913365 TTACTGTAACA
1 TTACTGTAACA
913376 GAGACACTTA
Statistics
Matches: 43, Mismatches: 2, Indels: 16
0.70 0.03 0.26
Matches are distributed among these distances:
17 1 0.02
18 13 0.30
19 1 0.02
20 1 0.02
22 1 0.02
23 1 0.02
24 24 0.56
25 1 0.02
ACGTcount: A:0.36, C:0.18, G:0.13, T:0.32
Consensus pattern (23 bp):
TTACTGTAACACAGAATTTCTGA
Found at i:913348 original size:42 final size:42
Alignment explanation
Indices: 913293--913417 Score: 214
Period size: 42 Copynumber: 3.0 Consensus size: 42
913283 ACTATTACAC
*
913293 AGACACTTACTGTAACACAGAATTTCTTGATTACTGTAACAG
1 AGACACTTACTGTAACACAGAATTTCTAGATTACTGTAACAG
913335 AGACACTTACTGTAACACAGAATTTCTAGATTACTGTAACAG
1 AGACACTTACTGTAACACAGAATTTCTAGATTACTGTAACAG
* * *
913377 AGACACTTACTGTAACACAGACTCTCTAGATTACTGGAACA
1 AGACACTTACTGTAACACAGAATTTCTAGATTACTGTAACA
913418 TTTCAGTGCC
Statistics
Matches: 79, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
42 79 1.00
ACGTcount: A:0.37, C:0.21, G:0.14, T:0.28
Consensus pattern (42 bp):
AGACACTTACTGTAACACAGAATTTCTAGATTACTGTAACAG
Found at i:913560 original size:26 final size:26
Alignment explanation
Indices: 913524--913573 Score: 82
Period size: 26 Copynumber: 1.9 Consensus size: 26
913514 ACATTGAAAG
913524 ATGTAAAAATCTAGGTCCTCCCTGCA
1 ATGTAAAAATCTAGGTCCTCCCTGCA
* *
913550 ATGTACAAATCTAGGTCTTCCCTG
1 ATGTAAAAATCTAGGTCCTCCCTG
913574 TTATTTACCA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 22 1.00
ACGTcount: A:0.28, C:0.26, G:0.16, T:0.30
Consensus pattern (26 bp):
ATGTAAAAATCTAGGTCCTCCCTGCA
Found at i:914816 original size:30 final size:30
Alignment explanation
Indices: 914780--914840 Score: 122
Period size: 30 Copynumber: 2.0 Consensus size: 30
914770 TGTCTAGAAT
914780 GAACAAAATTGAATATAAAATAAAACAAAA
1 GAACAAAATTGAATATAAAATAAAACAAAA
914810 GAACAAAATTGAATATAAAATAAAACAAAA
1 GAACAAAATTGAATATAAAATAAAACAAAA
914840 G
1 G
914841 TTATAACCGT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.69, C:0.07, G:0.08, T:0.16
Consensus pattern (30 bp):
GAACAAAATTGAATATAAAATAAAACAAAA
Found at i:916184 original size:183 final size:180
Alignment explanation
Indices: 915698--916232 Score: 803
Period size: 183 Copynumber: 3.0 Consensus size: 180
915688 GTACCCTCAA
915698 GCAATATTTTGCCAAAAAATGACTAAGTTCAAAAGCT-AGTATTTTTTTCATAAATTATTGGAAA
1 GCAATATTTTGCCAAAAAATGACTAAGTTCAAAAGCTGA-TATTTTTTTCATAAATTATTGGAAA
* *
915762 TCAAAATCCTAGTAATATGCACACCTCTGATATAAGTACAATTGATCTGCAAAAGAAAAACTTCC
65 TCAAAATCCTAGTAATATGCACACCTCTGATATATGTACAATTGATCTGCAAAAGAACAACTTCC
* *
915827 TATCTAGATAACTGTAGGAGGAGTTATCCGT---ATGAGGGTACCCTATAT
130 TATCTTGAAAACTGTAGGAGGAGTTATCCGTACAATGAGGGTACCCTATAT
* *
915875 GCAATATTTTGCCAAAAAATGACTAAGTTCAAAAGCTGGTATTTTTTTCATAAA-TATCGGAAAT
1 GCAATATTTTGCCAAAAAATGACTAAGTTCAAAAGCTGATATTTTTTTCATAAATTATTGGAAAT
* *
915939 CAAAATCCTAGTAATATGCACACCTCTGATATATGTACGATTAATCTGCAAAAGAACAACTTCCT
66 CAAAATCCTAGTAATATGCACACCTCTGATATATGTACAATTGATCTGCAAAAGAACAACTTCCT
* * * *
916004 ATCTTGAGATCTGTAGGA-AAGGTTATCCATACAATGAGGGTACCCTATAT
131 ATCTTGAAAACTGTAGGAGGA-GTTATCCGTACAATGAGGGTACCCTATAT
* * * *
916054 GCAATATTTTCCCTAAAAATGACTAAGTTCAAAAGCTGATATTTTTTTTTTTATAAATTATTGTA
1 GCAATATTTTGCCAAAAAATGACTAAGTTCAAAAGCTGATA---TTTTTTTCATAAATTATTGGA
* * *
916119 AATCAAAATCCTAGCAAGATGCACACCTCTGATATATGTACAATTGATCTGCAAAAGAGCAACTT
63 AATCAAAATCCTAGTAATATGCACACCTCTGATATATGTACAATTGATCTGCAAAAGAACAACTT
*
916184 CCTATCTTGAAAACTGTAGGAGGAGTTATCTGTACAATGAGGGTACCCT
128 CCTATCTTGAAAACTGTAGGAGGAGTTATCCGTACAATGAGGGTACCCT
916233 TTTGGCAGCC
Statistics
Matches: 321, Mismatches: 27, Indels: 14
0.89 0.07 0.04
Matches are distributed among these distances:
175 1 0.00
176 93 0.29
177 52 0.16
179 55 0.17
182 12 0.04
183 107 0.33
184 1 0.00
ACGTcount: A:0.37, C:0.17, G:0.15, T:0.32
Consensus pattern (180 bp):
GCAATATTTTGCCAAAAAATGACTAAGTTCAAAAGCTGATATTTTTTTCATAAATTATTGGAAAT
CAAAATCCTAGTAATATGCACACCTCTGATATATGTACAATTGATCTGCAAAAGAACAACTTCCT
ATCTTGAAAACTGTAGGAGGAGTTATCCGTACAATGAGGGTACCCTATAT
Found at i:921743 original size:200 final size:200
Alignment explanation
Indices: 921400--921799 Score: 800
Period size: 200 Copynumber: 2.0 Consensus size: 200
921390 TGAATTAAAT
921400 GATCTATTTCCTCAATCACAGATTTAAATTTGAAATATGTACAAATAATATCCCCCGGTTCTCTG
1 GATCTATTTCCTCAATCACAGATTTAAATTTGAAATATGTACAAATAATATCCCCCGGTTCTCTG
921465 TGGCGCACGCACTTCAAACTACGATTGCGTATGCGCTGCTCGGAGACAGGAGCGCACGCGCCGTT
66 TGGCGCACGCACTTCAAACTACGATTGCGTATGCGCTGCTCGGAGACAGGAGCGCACGCGCCGTT
921530 CCGGGACTGTAGCGTACTAACTACAGTCAACAAGCCAATTTGTATATTTATTACTCCAAATATAC
131 CCGGGACTGTAGCGTACTAACTACAGTCAACAAGCCAATTTGTATATTTATTACTCCAAATATAC
921595 ACCTA
196 ACCTA
921600 GATCTATTTCCTCAATCACAGATTTAAATTTGAAATATGTACAAATAATATCCCCCGGTTCTCTG
1 GATCTATTTCCTCAATCACAGATTTAAATTTGAAATATGTACAAATAATATCCCCCGGTTCTCTG
921665 TGGCGCACGCACTTCAAACTACGATTGCGTATGCGCTGCTCGGAGACAGGAGCGCACGCGCCGTT
66 TGGCGCACGCACTTCAAACTACGATTGCGTATGCGCTGCTCGGAGACAGGAGCGCACGCGCCGTT
921730 CCGGGACTGTAGCGTACTAACTACAGTCAACAAGCCAATTTGTATATTTATTACTCCAAATATAC
131 CCGGGACTGTAGCGTACTAACTACAGTCAACAAGCCAATTTGTATATTTATTACTCCAAATATAC
921795 ACCTA
196 ACCTA
921800 TAGTCTCGAA
Statistics
Matches: 200, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
200 200 1.00
ACGTcount: A:0.29, C:0.26, G:0.18, T:0.28
Consensus pattern (200 bp):
GATCTATTTCCTCAATCACAGATTTAAATTTGAAATATGTACAAATAATATCCCCCGGTTCTCTG
TGGCGCACGCACTTCAAACTACGATTGCGTATGCGCTGCTCGGAGACAGGAGCGCACGCGCCGTT
CCGGGACTGTAGCGTACTAACTACAGTCAACAAGCCAATTTGTATATTTATTACTCCAAATATAC
ACCTA
Found at i:922140 original size:2 final size:2
Alignment explanation
Indices: 922133--922233 Score: 202
Period size: 2 Copynumber: 50.5 Consensus size: 2
922123 ACAAAACTCA
922133 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
922175 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
922217 CT CT CT CT CT CT CT CT C
1 CT CT CT CT CT CT CT CT C
922234 ATATTTTCCG
Statistics
Matches: 99, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 99 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
CT
Found at i:923230 original size:2 final size:2
Alignment explanation
Indices: 923223--923281 Score: 118
Period size: 2 Copynumber: 29.5 Consensus size: 2
923213 CAGTTGAATA
923223 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
923265 TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC T
923282 TATATTGATC
Statistics
Matches: 57, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 57 1.00
ACGTcount: A:0.00, C:0.49, G:0.00, T:0.51
Consensus pattern (2 bp):
TC
Found at i:923529 original size:15 final size:16
Alignment explanation
Indices: 923509--923539 Score: 55
Period size: 15 Copynumber: 2.0 Consensus size: 16
923499 CTCTATTTTC
923509 TTTCTTTAA-TTTCTT
1 TTTCTTTAACTTTCTT
923524 TTTCTTTAACTTTCTT
1 TTTCTTTAACTTTCTT
923540 GCTATATATA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 9 0.60
16 6 0.40
ACGTcount: A:0.13, C:0.16, G:0.00, T:0.71
Consensus pattern (16 bp):
TTTCTTTAACTTTCTT
Found at i:925039 original size:28 final size:28
Alignment explanation
Indices: 925007--925061 Score: 92
Period size: 28 Copynumber: 2.0 Consensus size: 28
924997 GTGCCCTCGA
*
925007 GGTCGCTCTGTGGGGCGGGGCCCGTGGG
1 GGTCGCTCTGTGGGGCAGGGCCCGTGGG
*
925035 GGTCGCTCTGTGGGGCAGGGCGCGTGG
1 GGTCGCTCTGTGGGGCAGGGCCCGTGG
925062 TGGGCCTTTA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
28 25 1.00
ACGTcount: A:0.02, C:0.24, G:0.56, T:0.18
Consensus pattern (28 bp):
GGTCGCTCTGTGGGGCAGGGCCCGTGGG
Found at i:926588 original size:2 final size:2
Alignment explanation
Indices: 926581--926624 Score: 63
Period size: 2 Copynumber: 22.5 Consensus size: 2
926571 AAGATATTAT
* *
926581 GA GA GA GA GA GA GA GA GA AA GA AA GA GA GA GA GA G- 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
926622 GA G
1 GA G
926625 CTTAATCTCA
Statistics
Matches: 37, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
1 1 0.03
2 36 0.97
ACGTcount: A:0.52, C:0.00, G:0.48, T:0.00
Consensus pattern (2 bp):
GA
Found at i:928864 original size:36 final size:36
Alignment explanation
Indices: 928817--928926 Score: 220
Period size: 36 Copynumber: 3.1 Consensus size: 36
928807 TACTGACAAA
928817 GTAACAGCCATTGTGGGGGGACAGACATGTTCTGAT
1 GTAACAGCCATTGTGGGGGGACAGACATGTTCTGAT
928853 GTAACAGCCATTGTGGGGGGACAGACATGTTCTGAT
1 GTAACAGCCATTGTGGGGGGACAGACATGTTCTGAT
928889 GTAACAGCCATTGTGGGGGGACAGACATGTTCTGAT
1 GTAACAGCCATTGTGGGGGGACAGACATGTTCTGAT
928925 GT
1 GT
928927 GTGAGTTCTG
Statistics
Matches: 74, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 74 1.00
ACGTcount: A:0.25, C:0.16, G:0.34, T:0.25
Consensus pattern (36 bp):
GTAACAGCCATTGTGGGGGGACAGACATGTTCTGAT
Found at i:929529 original size:7 final size:7
Alignment explanation
Indices: 929515--929559 Score: 63
Period size: 7 Copynumber: 6.4 Consensus size: 7
929505 CTTCGTCCGT
929515 CGTCGTG
1 CGTCGTG
*
929522 CGTTGTG
1 CGTCGTG
929529 CGTCGTG
1 CGTCGTG
929536 CGTCGTG
1 CGTCGTG
*
929543 CGTTGTG
1 CGTCGTG
*
929550 TGTCGTG
1 CGTCGTG
929557 CGT
1 CGT
929560 TAACAATTTT
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
7 32 1.00
ACGTcount: A:0.00, C:0.22, G:0.42, T:0.36
Consensus pattern (7 bp):
CGTCGTG
Found at i:929539 original size:21 final size:21
Alignment explanation
Indices: 929515--929559 Score: 81
Period size: 21 Copynumber: 2.1 Consensus size: 21
929505 CTTCGTCCGT
929515 CGTCGTGCGTTGTGCGTCGTG
1 CGTCGTGCGTTGTGCGTCGTG
*
929536 CGTCGTGCGTTGTGTGTCGTG
1 CGTCGTGCGTTGTGCGTCGTG
929557 CGT
1 CGT
929560 TAACAATTTT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.00, C:0.22, G:0.42, T:0.36
Consensus pattern (21 bp):
CGTCGTGCGTTGTGCGTCGTG
Found at i:930009 original size:169 final size:168
Alignment explanation
Indices: 929764--930088 Score: 551
Period size: 169 Copynumber: 1.9 Consensus size: 168
929754 CATGTGAGGA
* * * *
929764 AAAAACTGAATGCATGGTAATGATGTCCATGAGGCCCTCTACCAAAATTGTGAAATTTATGGCCC
1 AAAAACTAAATGCATGGTAATGATGTCCATGAAGCCCTCTACCAAAATTGTGAAATTCATGACCC
* *
929829 CTGGGTCAGGGGTTCTGGCTCTAGGGTGGGGCCAATATGGCCATATAGTAAAAATGTATTAAAAT
66 CTGGGTCAGGGGTTCAGGCTCTAGGGTGGGGCCAATATGGCCAAATAGTAAAAATGTATT-AAAT
*
929894 CTTAGAAAATCTTCTTCTCTACTCCCATATATATTTGTT
130 CTAAGAAAATCTTCTTCTCTACTCCCATATATATTTGTT
* **
929933 AAAAACTAAATGCATGGTTATGATGTCCATGAAGCCCTCTACCTTAATTGTGAAATTCATGACCC
1 AAAAACTAAATGCATGGTAATGATGTCCATGAAGCCCTCTACCAAAATTGTGAAATTCATGACCC
929998 CTGGGTCAGGGGTTCAGGCTCTAGGGTGGGGCCAATATGGCCAAATAGTAAAAATGTATTAAATC
66 CTGGGTCAGGGGTTCAGGCTCTAGGGTGGGGCCAATATGGCCAAATAGTAAAAATGTATTAAATC
930063 TAAGAAAATCTTCTTCTCTACTCCCA
131 TAAGAAAATCTTCTTCTCTACTCCCA
930089 CANNNNNNNN
Statistics
Matches: 146, Mismatches: 10, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
168 30 0.21
169 116 0.79
ACGTcount: A:0.30, C:0.19, G:0.20, T:0.30
Consensus pattern (168 bp):
AAAAACTAAATGCATGGTAATGATGTCCATGAAGCCCTCTACCAAAATTGTGAAATTCATGACCC
CTGGGTCAGGGGTTCAGGCTCTAGGGTGGGGCCAATATGGCCAAATAGTAAAAATGTATTAAATC
TAAGAAAATCTTCTTCTCTACTCCCATATATATTTGTT
Found at i:934462 original size:161 final size:161
Alignment explanation
Indices: 934200--934635 Score: 585
Period size: 161 Copynumber: 2.7 Consensus size: 161
934190 GTTTCTGTTC
*
934200 ATTTTCTTTGCAAAGGATAAACATATTGAAATGAAATTTGGTATACAGGTTTTTCATGATAATAT
1 ATTTTCTTTGCAAAGGATAAACATATTGAAATGAAATTTGGTATACA-GTTTATCATGATAATAT
* *
934265 CTAGGTCAAGTTCGATATTGGGTACGATCTAGCAATTTTCGACAGAGTTATGGCCCTTGGACTTA
65 CTAGGTCAAGTTCGATATTGGGTACGATCGAGCAATTTTCGACAAAGTTATGGCCCTTGGACTT-
934330 AAAAAATTCGAGTTATTTGCAGTTT-C-CACTT
129 AAAAAATTCGAGTTATTTGCAGTTTCCTCACTT
* * * * *
934361 ATTTTCTTCGCATAGGATAAACATATTGAAATGAAATTTAGTATACAGATTTATCTTGATAATAC
1 ATTTTCTTTGCAAAGGATAAACATATTGAAATGAAATTTGGTATACAG-TTTATCATGATAATAT
* *
934426 CTAGGTCAAGTTCAATATTGGGTTCGATCGAGCAATTTTCGACAAAGTTATGGCCCTTGGACTTA
65 CTAGGTCAAGTTCGATATTGGGTACGATCGAGCAATTTTCGACAAAGTTATGGCCCTTGGACTTA
* * *
934491 GAAAATTTGAGTTATTTGCAGTTTCCGCTCATTT
130 AAAAATTCGAGTTATTTGCAGTTT-C-CTCACTT
* * * * *
934525 TTTTTTTTTGCAGAGGATAAACATATTGTAAT---ATTTGGTATACATGTTTATCATGATAATTT
1 ATTTTCTTTGCAAAGGATAAACATATTGAAATGAAATTTGGTATACA-GTTTATCATGATAATAT
* * * *
934587 CTAGGTCAAGTTTGATATTGGGTACGATGGAGCAATTTCCAACAAAGTT
65 CTAGGTCAAGTTCGATATTGGGTACGATCGAGCAATTTTCGACAAAGTT
934636 GGACTCAGAA
Statistics
Matches: 241, Mismatches: 28, Indels: 12
0.86 0.10 0.04
Matches are distributed among these distances:
160 24 0.10
161 184 0.76
162 1 0.00
163 1 0.00
164 31 0.13
ACGTcount: A:0.31, C:0.13, G:0.18, T:0.38
Consensus pattern (161 bp):
ATTTTCTTTGCAAAGGATAAACATATTGAAATGAAATTTGGTATACAGTTTATCATGATAATATC
TAGGTCAAGTTCGATATTGGGTACGATCGAGCAATTTTCGACAAAGTTATGGCCCTTGGACTTAA
AAAATTCGAGTTATTTGCAGTTTCCTCACTT
Found at i:934857 original size:13 final size:13
Alignment explanation
Indices: 934834--934865 Score: 55
Period size: 13 Copynumber: 2.4 Consensus size: 13
934824 GTTTTATATT
934834 TGTTGTTTTGTTTG
1 TGTT-TTTTGTTTG
934848 TGTTTTTTGTTTG
1 TGTTTTTTGTTTG
934861 TGTTT
1 TGTTT
934866 ATAATTGTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
13 14 0.78
14 4 0.22
ACGTcount: A:0.00, C:0.00, G:0.25, T:0.75
Consensus pattern (13 bp):
TGTTTTTTGTTTG
Found at i:934969 original size:78 final size:78
Alignment explanation
Indices: 934867--935317 Score: 672
Period size: 78 Copynumber: 5.9 Consensus size: 78
934857 TTTGTGTTTA
* * * *
934867 TAATTGTTTATGTTGTTATGTTGTTTACAGAAGGAGAAGATGAGGACA-AAATTTTGGCGACCGA
1 TAATTG-TT-TGTTGTTTTGTTGTTTACAGAAGGAGAAGATGAGGACATAGA-GTGGGCGACCGA
934931 GGTCCTGACATTGAGT
63 GGTCCTGACATTGAGT
*
934947 TAATTGTTTGTTGTTTTGTTGTTTGCAGAAGGAGAAGATGAGGACATAGAGTGGGCGACCGAGGT
1 TAATTGTTTGTTGTTTTGTTGTTTACAGAAGGAGAAGATGAGGACATAGAGTGGGCGACCGAGGT
*
935012 CTTGACATTGAGT
66 CCTGACATTGAGT
*
935025 TAA-------TTG-TTTGTTGTTTACAGAAGGAGAAGATGAGGACATAGAGTGGGCGACTGAGGT
1 TAATTGTTTGTTGTTTTGTTGTTTACAGAAGGAGAAGATGAGGACATAGAGTGGGCGACCGAGGT
935082 CCTGACATTGAGT
66 CCTGACATTGAGT
* * * *
935095 TAATTTTTTGTTGTTTTGTTGTTTGCAGAAGGAGAAGATGAGGACATAGAGTGGGCAACTGAGGT
1 TAATTGTTTGTTGTTTTGTTGTTTACAGAAGGAGAAGATGAGGACATAGAGTGGGCGACCGAGGT
935160 CCTGACATTGAGT
66 CCTGACATTGAGT
* *
935173 TAATTGTTTGTTG-TTTGTTGTTTGCAGAAGGAGAAGATGAGGACATAGAGTGGGCGACTGAGGT
1 TAATTGTTTGTTGTTTTGTTGTTTACAGAAGGAGAAGATGAGGACATAGAGTGGGCGACCGAGGT
935237 CCTGACATTGAGT
66 CCTGACATTGAGT
935250 TAATTGTTTGTT-TTTATGTTGTTTACAGAAGGAGAAGATGAGGACATAGAGTGGGCGACCGAGG
1 TAATTGTTTGTTGTTT-TGTTGTTTACAGAAGGAGAAGATGAGGACATAGAGTGGGCGACCGAGG
935314 TCCT
65 TCCT
935318 TACAGAGGCT
Statistics
Matches: 345, Mismatches: 15, Indels: 24
0.90 0.04 0.06
Matches are distributed among these distances:
70 64 0.19
71 3 0.01
77 80 0.23
78 188 0.54
79 4 0.01
80 6 0.02
ACGTcount: A:0.26, C:0.10, G:0.31, T:0.33
Consensus pattern (78 bp):
TAATTGTTTGTTGTTTTGTTGTTTACAGAAGGAGAAGATGAGGACATAGAGTGGGCGACCGAGGT
CCTGACATTGAGT
Found at i:935244 original size:155 final size:155
Alignment explanation
Indices: 934867--935317 Score: 704
Period size: 148 Copynumber: 2.9 Consensus size: 155
934857 TTTGTGTTTA
* * * *
934867 TAATTGTTTATGTTGTTATGTTGTTTACAGAAGGAGAAGATGAGGACA-AAATTTTGGCGACCGA
1 TAATTG-TT-TGTTGTT-TGTTGTTTACAGAAGGAGAAGATGAGGACATAGA-GTGGGCGACTGA
934931 GGTCCTGACATTGAGTTAATTGTTTGTTGTTTTGTTGTTTGCAGAAGGAGAAGATGAGGACATAG
62 GGTCCTGACATTGAGTTAATTGTTTGTTGTTTTGTTGTTTGCAGAAGGAGAAGATGAGGACATAG
*
934996 AGTGGGCGACCGAGGTCTTGACATTGAGT
127 AGTGGGCGACCGAGGTCCTGACATTGAGT
935025 TAA-------TTGTTTGTTGTTTACAGAAGGAGAAGATGAGGACATAGAGTGGGCGACTGAGGTC
1 TAATTGTTTGTTGTTTGTTGTTTACAGAAGGAGAAGATGAGGACATAGAGTGGGCGACTGAGGTC
*
935083 CTGACATTGAGTTAATTTTTTGTTGTTTTGTTGTTTGCAGAAGGAGAAGATGAGGACATAGAGTG
66 CTGACATTGAGTTAATTGTTTGTTGTTTTGTTGTTTGCAGAAGGAGAAGATGAGGACATAGAGTG
* *
935148 GGCAACTGAGGTCCTGACATTGAGT
131 GGCGACCGAGGTCCTGACATTGAGT
*
935173 TAATTGTTTGTTGTTTGTTGTTTGCAGAAGGAGAAGATGAGGACATAGAGTGGGCGACTGAGGTC
1 TAATTGTTTGTTGTTTGTTGTTTACAGAAGGAGAAGATGAGGACATAGAGTGGGCGACTGAGGTC
*
935238 CTGACATTGAGTTAATTGTTTGTT-TTTATGTTGTTTACAGAAGGAGAAGATGAGGACATAGAGT
66 CTGACATTGAGTTAATTGTTTGTTGTTT-TGTTGTTTGCAGAAGGAGAAGATGAGGACATAGAGT
935302 GGGCGACCGAGGTCCT
130 GGGCGACCGAGGTCCT
935318 TACAGAGGCT
Statistics
Matches: 271, Mismatches: 13, Indels: 21
0.89 0.04 0.07
Matches are distributed among these distances:
148 132 0.49
149 7 0.03
154 3 0.01
155 126 0.46
158 3 0.01
ACGTcount: A:0.26, C:0.10, G:0.31, T:0.33
Consensus pattern (155 bp):
TAATTGTTTGTTGTTTGTTGTTTACAGAAGGAGAAGATGAGGACATAGAGTGGGCGACTGAGGTC
CTGACATTGAGTTAATTGTTTGTTGTTTTGTTGTTTGCAGAAGGAGAAGATGAGGACATAGAGTG
GGCGACCGAGGTCCTGACATTGAGT
Found at i:936893 original size:19 final size:19
Alignment explanation
Indices: 936855--936893 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
936845 AATATGTGTT
*
936855 AGATATGTAAATACTTATA
1 AGATATGTAAATACTGATA
936874 AGATATGT-AATACTAGATA
1 AGATATGTAAATACT-GATA
936893 A
1 A
936894 TATGGATCAG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 6 0.33
19 12 0.67
ACGTcount: A:0.49, C:0.05, G:0.13, T:0.33
Consensus pattern (19 bp):
AGATATGTAAATACTGATA
Found at i:938372 original size:20 final size:20
Alignment explanation
Indices: 937730--938363 Score: 878
Period size: 20 Copynumber: 31.6 Consensus size: 20
937720 GTGTTAGTTT
* *
937730 TCTGTAAACATTGTAATGTG
1 TCTGTACACATTGTAATGTA
*
937750 TCTGTACACATTGTGATGTA
1 TCTGTACACATTGTAATGTA
* * *
937770 TCTGTTCCCATTGTGATGTA
1 TCTGTACACATTGTAATGTA
*
937790 TCTGTACACATTGTGATGTA
1 TCTGTACACATTGTAATGTA
*
937810 TCTGTACACATTGTAATGTG
1 TCTGTACACATTGTAATGTA
* *
937830 TCTGT-CACATCGTGATGTA
1 TCTGTACACATTGTAATGTA
*
937849 TCTGTACACATTGTAATGTG
1 TCTGTACACATTGTAATGTA
*
937869 TCTGTACACATTGTAATGTG
1 TCTGTACACATTGTAATGTA
*
937889 TCTGTACACATTGTAATGTG
1 TCTGTACACATTGTAATGTA
*
937909 TCTGTACACGTTGTAATGTA
1 TCTGTACACATTGTAATGTA
*
937929 TCTGTACACATTGTTATGTA
1 TCTGTACACATTGTAATGTA
*
937949 TCTGTACACATTGTGATGTA
1 TCTGTACACATTGTAATGTA
* *
937969 TCTGTATACACACTGTAATGTG
1 TCTG--TACACATTGTAATGTA
*
937991 TCTGTACACATTGTAATGTG
1 TCTGTACACATTGTAATGTA
938011 TCTGTACACATTGTAATGTA
1 TCTGTACACATTGTAATGTA
*
938031 TCTGTACACATTGTGATGTA
1 TCTGTACACATTGTAATGTA
* *
938051 TCTGTATACACACTGTAATGTG
1 TCTG--TACACATTGTAATGTA
*
938073 TCTGTACACATTGTAATGTG
1 TCTGTACACATTGTAATGTA
* *
938093 TCTGTACACAATGTGATGTA
1 TCTGTACACATTGTAATGTA
* *
938113 TATGTATACACATTGTAATGTG
1 TCTG--TACACATTGTAATGTA
*
938135 TCTGTACACATTGAAATGTA
1 TCTGTACACATTGTAATGTA
*
938155 TCTGTACACATTGTAATGTG
1 TCTGTACACATTGTAATGTA
938175 TCTGTACACATTGTAATGTA
1 TCTGTACACATTGTAATGTA
938195 TCTGTACACATTGTAATGTA
1 TCTGTACACATTGTAATGTA
*
938215 TCTGTACACATTGTAATTTA
1 TCTGTACACATTGTAATGTA
*
938235 TCTGTACACATTGAAATGTA
1 TCTGTACACATTGTAATGTA
*
938255 TTTGTACACATTGTAATGTA
1 TCTGTACACATTGTAATGTA
*
938275 TCTGTACACATTGTGATGTA
1 TCTGTACACATTGTAATGTA
*
938295 -CAG-ACACATTGTAATGTA
1 TCTGTACACATTGTAATGTA
*
938313 TCTGTACACATTGTAATGTG
1 TCTGTACACATTGTAATGTA
938333 TCTGTACACATTGTAATGTA
1 TCTGTACACATTGTAATGTA
938353 TCTGTACACAT
1 TCTGTACACAT
938364 CGTGATGTAA
Statistics
Matches: 550, Mismatches: 55, Indels: 18
0.88 0.09 0.03
Matches are distributed among these distances:
18 14 0.03
19 20 0.04
20 466 0.85
22 50 0.09
ACGTcount: A:0.27, C:0.15, G:0.18, T:0.39
Consensus pattern (20 bp):
TCTGTACACATTGTAATGTA
Found at i:939700 original size:38 final size:38
Alignment explanation
Indices: 939601--941133 Score: 1244
Period size: 38 Copynumber: 40.1 Consensus size: 38
939591 CACTGTAGAG
*
939601 TAAGCCTACTTATGGGTTGGAGAGACACTGTAGGAC-A
1 TAAGCCTACTTATGGGTTGGATAGACACTGTAGGACAA
*
939638 TAAGCTTACTT-TGGGTTGGATAGACACTGTAGGACAA
1 TAAGCCTACTTATGGGTTGGATAGACACTGTAGGACAA
* * *
939675 TAAGTCAACTTATGGGTTGAATAGACACTGTAGGACAA
1 TAAGCCTACTTATGGGTTGGATAGACACTGTAGGACAA
* *
939713 TTAA-CTTAC-TATGGGTTGGATAGACACTGTATGACAA
1 -TAAGCCTACTTATGGGTTGGATAGACACTGTAGGACAA
* * * *
939750 TAAGTCAACTTGTGGGTTTGATAGACACTGTAGGACAA
1 TAAGCCTACTTATGGGTTGGATAGACACTGTAGGACAA
* * * * * *
939788 TAAGCATACTTTTTGGGTTGGAGAGGCACTCATATAAGACAA
1 TAAGCCTAC-TTATGGGTTGGATA-G-ACAC-TGTAGGACAA
* *
939830 TAAGCCTACTTATGGGTTGGATAGACACAGTGGGACAA
1 TAAGCCTACTTATGGGTTGGATAGACACTGTAGGACAA
* * *
939868 TTAGCCTACTTATGGGTTGGAAAGCCACTGTAGGACAA
1 TAAGCCTACTTATGGGTTGGATAGACACTGTAGGACAA
* *
939906 TAAGACTACTTATGGGTTTGATAGACACTGTAGGACAA
1 TAAGCCTACTTATGGGTTGGATAGACACTGTAGGACAA
* * ** * * *
939944 TAGGCCTA-ATATTCGTTGAGAGACACACATGTAGTACAA
1 TAAGCCTACTTATGGGTTG-GATAGACAC-TGTAGGACAA
* *** *
939983 TTATTATACTTATGGGTTGGATAGACACTGTAAGACAA
1 TAAGCCTACTTATGGGTTGGATAGACACTGTAGGACAA
* * * *
940021 TAAGCCTACTTATGGTTTGGATAGGCATGTTTGTAGGTCAA
1 TAAGCCTACTTATGGGTTGGATAGACA---CTGTAGGACAA
* * * *
940062 TAGGTCTACTTATGAGTTGGATAAACACTGTAGGACAA
1 TAAGCCTACTTATGGGTTGGATAGACACTGTAGGACAA
* * * * *
940100 TAAGTCTAATTATTGGTTTGATAGACACTGTAGGACAT
1 TAAGCCTACTTATGGGTTGGATAGACACTGTAGGACAA
*
940138 TAAGCCTACTCATGGGTTGGATAGACACTGTAGGACAA
1 TAAGCCTACTTATGGGTTGGATAGACACTGTAGGACAA
* *
940176 -AATGCCTACTTATGAGTTGGATAGACATTCATGTAGGACAT
1 TAA-GCCTACTTATGGGTTGGATAGACA--C-TGTAGGACAA
* *** * * *
940217 TTATTATACTTATGGGTTTGATAGACATTGTAAGACAA
1 TAAGCCTACTTATGGGTTGGATAGACACTGTAGGACAA
*
940255 TAAGCCTACTCATGGGTTGGATAGACACTGTAGGACAA
1 TAAGCCTACTTATGGGTTGGATAGACACTGTAGGACAA
* * * **
940293 AAAGCCTTCTTATGGGTTTGATAGACACTGCGGGACAA
1 TAAGCCTACTTATGGGTTGGATAGACACTGTAGGACAA
* * *
940331 TATGCCTTCTCATGGGTTGGATAGACACTGTAGGACAA
1 TAAGCCTACTTATGGGTTGGATAGACACTGTAGGACAA
940369 TAAGCCTA-TTCATGGGTTGGATAGACACTGTAGGACAA
1 TAAGCCTACTT-ATGGGTTGGATAGACACTGTAGGACAA
* * * * *
940407 AAAGCCTTCTTATGGGTTTGATAGACATTGTTGGACAA
1 TAAGCCTACTTATGGGTTGGATAGACACTGTAGGACAA
* **
940445 TAAGCCTACTTATTGGTTGGATAGACACTGT--GATTA
1 TAAGCCTACTTATGGGTTGGATAGACACTGTAGGACAA
** ** * * * *
940481 TAAGCCTTTTTATAGCCTAGG-TTGAGACTGTAGGACAC
1 TAAGCCTACTTAT-GGGTTGGATAGACACTGTAGGACAA
* * *
940519 CAAGCCTACTTATTGGTTGAATAGACACTGTAGGACAA
1 TAAGCCTACTTATGGGTTGGATAGACACTGTAGGACAA
* * *
940557 TAAGCTTACTAATGGGTTGGATA-ATCACTGTATGACAA
1 TAAGCCTACTTATGGGTTGGATAGA-CACTGTAGGACAA
* * **
940595 TTAGCATACTTATTAGTTGGATTA-ACACTGTAGGACAA
1 TAAGCCTACTTATGGGTTGGA-TAGACACTGTAGGACAA
* * * *
940633 TAAGTCAACTTATGGGTTGGCA-AGACACTCATGTGGGATAA
1 TAAGCCTACTTATGGGTTGG-ATAGACA--C-TGTAGGACAA
* * *
940674 TATA-CCTACTTTTTGGTTGAATAGACACTGTAGGACAA
1 TA-AGCCTACTTATGGGTTGGATAGACACTGTAGGACAA
* **
940712 TAAGCCTAATTATGGGTTGGATAGACACTGT--GATTA
1 TAAGCCTACTTATGGGTTGGATAGACACTGTAGGACAA
** ** * * * *
940748 TAAGCCTTTTTATAGCCTAGG-TTGAGACTGTAGGACAC
1 TAAGCCTACTTAT-GGGTTGGATAGACACTGTAGGACAA
* * *
940786 CAAGCCTACTTATTGGTTGAATAGACACTGTAGGACAA
1 TAAGCCTACTTATGGGTTGGATAGACACTGTAGGACAA
* * *
940824 TAAGCTTACTAATGGGTTGGATA-ATCACTGTATGACAA
1 TAAGCCTACTTATGGGTTGGATAGA-CACTGTAGGACAA
* * * **
940862 TTAGCATACTAATTAGTTGGATTA-ACACTGTAGGACAA
1 TAAGCCTACTTATGGGTTGGA-TAGACACTGTAGGACAA
* * *
940900 TAAGTCAACTTATGGGTTGGCA-AGACACTCATGTAGGATAA
1 TAAGCCTACTTATGGGTTGG-ATAGACA--C-TGTAGGACAA
* * * *
940941 TATGCCTACTTTTTGGTTGAATAGACACTGTAGGACAA
1 TAAGCCTACTTATGGGTTGGATAGACACTGTAGGACAA
* * **
940979 TAAGCCTAATTATGGGTTGGATAGGCACTGT--GATTA
1 TAAGCCTACTTATGGGTTGGATAGACACTGTAGGACAA
* ** * * * *
941015 TAAGCCT-TTTCATAGCCTAGG-TTGAGACTCTAGGACAA
1 TAAGCCTACTT-AT-GGGTTGGATAGACACTGTAGGACAA
* * * *
941053 CAAGCCTACTTATTGGTTGAATTGACACTGTAGGACAA
1 TAAGCCTACTTATGGGTTGGATAGACACTGTAGGACAA
** * * *
941091 TAAATCAACTTATGGTTTGGAAAGACACT-TAAGGACAA
1 TAAGCCTACTTATGGGTTGGATAGACACTGT-AGGACAA
941129 TAAGC
1 TAAGC
941134 TTATTTATTG
Statistics
Matches: 1159, Mismatches: 282, Indels: 109
0.75 0.18 0.07
Matches are distributed among these distances:
35 2 0.00
36 88 0.08
37 79 0.07
38 782 0.67
39 50 0.04
40 14 0.01
41 126 0.11
42 18 0.02
ACGTcount: A:0.32, C:0.15, G:0.23, T:0.30
Consensus pattern (38 bp):
TAAGCCTACTTATGGGTTGGATAGACACTGTAGGACAA
Found at i:940188 original size:155 final size:154
Alignment explanation
Indices: 939601--941009 Score: 1033
Period size: 155 Copynumber: 9.2 Consensus size: 154
939591 CACTGTAGAG
* * *
939601 TAAGCCTACTTATGGGTTGGAGAGACACTGTAGGAC-ATAAGCTTACTT-TGGGTTGGATAGACA
1 TAAGTCTACTTATGGGTTGGATAGACACTGTAGGACAATAAGCCTACTTATGGGTTGGATAGACA
* * * *
939664 CTGTAGGACAATAAGTCAACTTATGGGTTGAATAGACACTGTAGGACAATTAA--CTTAC-TATG
66 CTGTAGGACAATAAGCCTACTTATGGGTTGGATAGACACTGTAGGACAA--AATGCCTACTTATG
* *
939726 GGTTGGATAGACA--CTGTATGACAA
129 GGTTGGATAGACATTATGTAGGACAA
* * * * * *
939750 TAAGTCAACTTGTGGGTTTGATAGACACTGTAGGACAATAAGCATACTTTTTGGGTTGGAGAGGC
1 TAAGTCTACTTATGGGTTGGATAGACACTGTAGGACAATAAGCCTAC-TTATGGGTTGGATA-G-
* * * * * *
939815 ACTCATATAAGACAATAAGCCTACTTATGGGTTGGATAGACACAGTGGGAC-AATTAGCCTACTT
63 ACAC-TGTAGGACAATAAGCCTACTTATGGGTTGGATAGACACTGTAGGACAAAAT-GCCTACTT
* * *
939879 ATGGGTTGGAAAGCCA--CTGTAGGACAA
126 ATGGGTTGGATAGACATTATGTAGGACAA
* * * * ** * *
939906 TAAGACTACTTATGGGTTTGATAGACACTGTAGGACAATAGGCCTA-ATATTCGTTGAGAGACAC
1 TAAGTCTACTTATGGGTTGGATAGACACTGTAGGACAATAAGCCTACTTATGGGTTG-GATAGAC
* * *** *
939970 ACATGTAGTACAATTATTATACTTATGGGTTGGATAGACACTGTAAGACAATAA-GCCTACTTAT
65 AC-TGTAGGACAATAAGCCTACTTATGGGTTGGATAGACACTGTAGGACAA-AATGCCTACTTAT
* * * *
940034 GGTTTGGATAGGCATGTTTGTAGGTCAA
128 GGGTTGGATAGACAT-TATGTAGGACAA
* * * * * * *
940062 TAGGTCTACTTATGAGTTGGATAAACACTGTAGGACAATAAGTCTAATTATTGGTTTGATAGACA
1 TAAGTCTACTTATGGGTTGGATAGACACTGTAGGACAATAAGCCTACTTATGGGTTGGATAGACA
* * *
940127 CTGTAGGACATTAAGCCTACTCATGGGTTGGATAGACACTGTAGGACAAAATGCCTACTTATGAG
66 CTGTAGGACAATAAGCCTACTTATGGGTTGGATAGACACTGTAGGACAAAATGCCTACTTATGGG
*
940192 TTGGATAGACATTCATGTAGGACAT
131 TTGGATAGACATT-ATGTAGGACAA
* * * * * * *
940217 TTATTATACTTATGGGTTTGATAGACATTGTAAGACAATAAGCCTACTCATGGGTTGGATAGACA
1 TAAGTCTACTTATGGGTTGGATAGACACTGTAGGACAATAAGCCTACTTATGGGTTGGATAGACA
* * * ** * * *
940282 CTGTAGGACAAAAAGCCTTCTTATGGGTTTGATAGACACTGCGGGACAATATGCCTTCTCATGGG
66 CTGTAGGACAATAAGCCTACTTATGGGTTGGATAGACACTGTAGGACAAAATGCCTACTTATGGG
*
940347 TTGGATAGACA--CTGTAGGACAA
131 TTGGATAGACATTATGTAGGACAA
* * * *
940369 TAAGCCTA-TTCATGGGTTGGATAGACACTGTAGGACAAAAAGCCTTCTTATGGGTTTGATAGAC
1 TAAGTCTACTT-ATGGGTTGGATAGACACTGTAGGACAATAAGCCTACTTATGGGTTGGATAGAC
* * * * * **
940433 ATTGTTGGACAATAAGCCTACTTATTGGTTGGATAGACACTGT--GATTATAA-GCCTTTTTATA
65 ACTGTAGGACAATAAGCCTACTTATGGGTTGGATAGACACTGTAGGA-CAAAATGCCTACTTAT-
** * * *
940495 GCCTAGGTTGAGAC----TGTAGGACAC
128 GGGTTGGAT-AGACATTATGTAGGACAA
* * * * * *
940519 CAAGCCTACTTATTGGTTGAATAGACACTGTAGGACAATAAGCTTACTAATGGGTTGGATA-ATC
1 TAAGTCTACTTATGGGTTGGATAGACACTGTAGGACAATAAGCCTACTTATGGGTTGGATAGA-C
* * * ** * *
940583 ACTGTATGACAATTAGCATACTTATTAGTTGGATTA-ACACTGTAGGACAATAA-GTCAACTTAT
65 ACTGTAGGACAATAAGCCTACTTATGGGTTGGA-TAGACACTGTAGGACAA-AATGCCTACTTAT
* * *
940646 GGGTTGGCA-AGACACTCATGTGGGATAA
128 GGGTTGG-ATAGACA-TTATGTAGGACAA
* * * * *
940674 TATA-CCTACTTTTTGGTTGAATAGACACTGTAGGACAATAAGCCTAATTATGGGTTGGATAGAC
1 TA-AGTCTACTTATGGGTTGGATAGACACTGTAGGACAATAAGCCTACTTATGGGTTGGATAGAC
** ** ** * * * *
940738 ACTGT--GATTATAAGCCTTTTTATAGCCTAGG-TTGAGACTGTAGGACACCAA-GCCTACTTAT
65 ACTGTAGGACAATAAGCCTACTTAT-GGGTTGGATAGACACTGTAGGACA-AAATGCCTACTTAT
* * *
940799 TGGTTGAATAGACA--CTGTAGGACAA
128 GGGTTGGATAGACATTATGTAGGACAA
* * * * * **
940824 TAAG-CTTACTAATGGGTTGGATA-ATCACTGTATGACAATTAGCATACTAATTAGTTGGATTA-
1 TAAGTC-TACTTATGGGTTGGATAGA-CACTGTAGGACAATAAGCCTACTTATGGGTTGGA-TAG
* * * *
940886 ACACTGTAGGACAATAAGTCAACTTATGGGTTGGCA-AGACACTCATGTAGGATAATATGCCTAC
63 ACACTGTAGGACAATAAGCCTACTTATGGGTTGG-ATAGACA--C-TGTAGGACAAAATGCCTAC
* * * *
940950 TTTTTGGTTGAATAGACA--CTGTAGGACAA
124 TTATGGGTTGGATAGACATTATGTAGGACAA
* * *
940979 TAAGCCTAATTATGGGTTGGATAGGCACTGT
1 TAAGTCTACTTATGGGTTGGATAGACACTGT
941010 GATTATAAGC
Statistics
Matches: 996, Mismatches: 209, Indels: 104
0.76 0.16 0.08
Matches are distributed among these distances:
149 35 0.04
150 174 0.17
151 26 0.03
152 137 0.14
153 106 0.11
154 19 0.02
155 368 0.37
156 124 0.12
157 7 0.01
ACGTcount: A:0.32, C:0.15, G:0.24, T:0.30
Consensus pattern (154 bp):
TAAGTCTACTTATGGGTTGGATAGACACTGTAGGACAATAAGCCTACTTATGGGTTGGATAGACA
CTGTAGGACAATAAGCCTACTTATGGGTTGGATAGACACTGTAGGACAAAATGCCTACTTATGGG
TTGGATAGACATTATGTAGGACAA
Found at i:940779 original size:267 final size:267
Alignment explanation
Indices: 940256--941093 Score: 1230
Period size: 267 Copynumber: 3.1 Consensus size: 267
940246 GTAAGACAAT
* * * * * *
940256 AAGCCTACTCATGGGTTGGATAGACACTGTAGGACAAAAAGCCTT-CTTATGGGTTTGATAGA-C
1 AAGCCTACTTATTGGTTGAATAGACACTGTAGGACAATAAG-CTTACTAATGGGTTGGATA-ATC
*** * * * ** * *
940319 ACTGCGGGACAA-TATGCCTTCTCATGGGTTGGA-TAGACACTGTAGGACAATAAGCCTA-TTCA
64 ACTGTATGACAATTA-GCATACTAATTAGTTGGATTA-ACACTGTAGGACAATAAGTCAACTT-A
* * * * * * *
940381 TGGGTTGG-ATAGACA--C-TGTAGGACAA-AAAGCCTTCTTATGGGTTTG-ATAGACATTGTTG
126 TGGGTTGGCA-AGACACTCATGTAGGATAATATA-CCTACTTTTTGG-TTGAATAGACACTGTAG
* *
940440 GACAATAAGCCTACTTATTGGTTGGATAGACACTGTGATTATAAGCCTTTTTATAGCCTAGGTTG
188 GACAATAAGCCTAATTATGGGTTGGATAGACACTGTGATTATAAGCCTTTTTATAGCCTAGGTTG
940505 AGACTGTAGGACACC
253 AGACTGTAGGACACC
940520 AAGCCTACTTATTGGTTGAATAGACACTGTAGGACAATAAGCTTACTAATGGGTTGGATAATCAC
1 AAGCCTACTTATTGGTTGAATAGACACTGTAGGACAATAAGCTTACTAATGGGTTGGATAATCAC
*
940585 TGTATGACAATTAGCATACTTATTAGTTGGATTAACACTGTAGGACAATAAGTCAACTTATGGGT
66 TGTATGACAATTAGCATACTAATTAGTTGGATTAACACTGTAGGACAATAAGTCAACTTATGGGT
*
940650 TGGCAAGACACTCATGTGGGATAATATACCTACTTTTTGGTTGAATAGACACTGTAGGACAATAA
131 TGGCAAGACACTCATGTAGGATAATATACCTACTTTTTGGTTGAATAGACACTGTAGGACAATAA
940715 GCCTAATTATGGGTTGGATAGACACTGTGATTATAAGCCTTTTTATAGCCTAGGTTGAGACTGTA
196 GCCTAATTATGGGTTGGATAGACACTGTGATTATAAGCCTTTTTATAGCCTAGGTTGAGACTGTA
940780 GGACACC
261 GGACACC
940787 AAGCCTACTTATTGGTTGAATAGACACTGTAGGACAATAAGCTTACTAATGGGTTGGATAATCAC
1 AAGCCTACTTATTGGTTGAATAGACACTGTAGGACAATAAGCTTACTAATGGGTTGGATAATCAC
940852 TGTATGACAATTAGCATACTAATTAGTTGGATTAACACTGTAGGACAATAAGTCAACTTATGGGT
66 TGTATGACAATTAGCATACTAATTAGTTGGATTAACACTGTAGGACAATAAGTCAACTTATGGGT
*
940917 TGGCAAGACACTCATGTAGGATAATATGCCTACTTTTTGGTTGAATAGACACTGTAGGACAATAA
131 TGGCAAGACACTCATGTAGGATAATATACCTACTTTTTGGTTGAATAGACACTGTAGGACAATAA
* * *
940982 GCCTAATTATGGGTTGGATAGGCACTGTGATTATAAGCCTTTTCATAGCCTAGGTTGAGACTCTA
196 GCCTAATTATGGGTTGGATAGACACTGTGATTATAAGCCTTTTTATAGCCTAGGTTGAGACTGTA
*
941047 GGACAAC
261 GGACACC
*
941054 AAGCCTACTTATTGGTTGAATTGACACTGTAGGACAATAA
1 AAGCCTACTTATTGGTTGAATAGACACTGTAGGACAATAA
941094 ATCAACTTAT
Statistics
Matches: 529, Mismatches: 34, Indels: 19
0.91 0.06 0.03
Matches are distributed among these distances:
263 4 0.01
264 107 0.20
265 7 0.01
266 4 0.01
267 405 0.77
268 2 0.00
ACGTcount: A:0.31, C:0.16, G:0.23, T:0.30
Consensus pattern (267 bp):
AAGCCTACTTATTGGTTGAATAGACACTGTAGGACAATAAGCTTACTAATGGGTTGGATAATCAC
TGTATGACAATTAGCATACTAATTAGTTGGATTAACACTGTAGGACAATAAGTCAACTTATGGGT
TGGCAAGACACTCATGTAGGATAATATACCTACTTTTTGGTTGAATAGACACTGTAGGACAATAA
GCCTAATTATGGGTTGGATAGACACTGTGATTATAAGCCTTTTTATAGCCTAGGTTGAGACTGTA
GGACACC
Found at i:945272 original size:15 final size:15
Alignment explanation
Indices: 945252--945285 Score: 59
Period size: 15 Copynumber: 2.3 Consensus size: 15
945242 GCGTGATCAA
945252 ATCTTTCATGGTTTC
1 ATCTTTCATGGTTTC
*
945267 ATCTTTCATTGTTTC
1 ATCTTTCATGGTTTC
945282 ATCT
1 ATCT
945286 CATTTCACTA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.15, C:0.21, G:0.09, T:0.56
Consensus pattern (15 bp):
ATCTTTCATGGTTTC
Found at i:950697 original size:25 final size:25
Alignment explanation
Indices: 950659--950890 Score: 353
Period size: 25 Copynumber: 9.4 Consensus size: 25
950649 GAATCTGTCC
950659 TCTATTTATCATCAGTGTGAACGAG
1 TCTATTTATCATCAGTGTGAACGAG
*
950684 TCTGTTTATCATCAGTGTGAACGAG
1 TCTATTTATCATCAGTGTGAACGAG
*
950709 TCTATTTATCATCACTGTGAACGAG
1 TCTATTTATCATCAGTGTGAACGAG
*
950734 TCTATTTATCATCACTGTGAACGAG
1 TCTATTTATCATCAGTGTGAACGAG
*
950759 TCTATTTATCATCACTGTGAACGAG
1 TCTATTTATCATCAGTGTGAACGAG
*
950784 TCTATTTATCATCACTGTGAACGAG
1 TCTATTTATCATCAGTGTGAACGAG
*
950809 TCTATTTATCATCAGTGTGAACAAG
1 TCTATTTATCATCAGTGTGAACGAG
950834 TCTA--TATCATCAGTGTGAACGAG
1 TCTATTTATCATCAGTGTGAACGAG
* *
950857 TCTATTTAT-AGTAAGTGTGAACAAG
1 TCTATTTATCA-TCAGTGTGAACGAG
*
950882 ACTATTTAT
1 TCTATTTAT
950891 AGTAAGTGTG
Statistics
Matches: 195, Mismatches: 9, Indels: 6
0.93 0.04 0.03
Matches are distributed among these distances:
23 22 0.11
24 1 0.01
25 172 0.88
ACGTcount: A:0.29, C:0.17, G:0.18, T:0.36
Consensus pattern (25 bp):
TCTATTTATCATCAGTGTGAACGAG
Found at i:950891 original size:25 final size:25
Alignment explanation
Indices: 950659--950929 Score: 184
Period size: 25 Copynumber: 10.9 Consensus size: 25
950649 GAATCTGTCC
* *
950659 TCTATTTATCA-TCAGTGTGAACGAG
1 TCTATTTAT-AGTAAGTGTGAACAAG
* * *
950684 TCTGTTTATCA-TCAGTGTGAACGAG
1 TCTATTTAT-AGTAAGTGTGAACAAG
* * *
950709 TCTATTTATCA-TCACTGTGAACGAG
1 TCTATTTAT-AGTAAGTGTGAACAAG
* * *
950734 TCTATTTATCA-TCACTGTGAACGAG
1 TCTATTTAT-AGTAAGTGTGAACAAG
* * *
950759 TCTATTTATCA-TCACTGTGAACGAG
1 TCTATTTAT-AGTAAGTGTGAACAAG
* * *
950784 TCTATTTATCA-TCACTGTGAACGAG
1 TCTATTTAT-AGTAAGTGTGAACAAG
*
950809 TCTATTTATCA-TCAGTGTGAACAAG
1 TCTATTTAT-AGTAAGTGTGAACAAG
* *
950834 TCTA--TATCA-TCAGTGTGAACGAG
1 TCTATTTAT-AGTAAGTGTGAACAAG
950857 TCTATTTATAGTAAGTGTGAACAAG
1 TCTATTTATAGTAAGTGTGAACAAG
* *
950882 ACTATTTATAGTAAGTGTGAATAAG
1 TCTATTTATAGTAAGTGTGAACAAG
* *
950907 ACTATTTGTAGTAAGTGTGAACA
1 TCTATTTATAGTAAGTGTGAACA
950930 GGTTTGAAGT
Statistics
Matches: 231, Mismatches: 12, Indels: 6
0.93 0.05 0.02
Matches are distributed among these distances:
23 22 0.10
24 1 0.00
25 208 0.90
ACGTcount: A:0.31, C:0.15, G:0.19, T:0.35
Consensus pattern (25 bp):
TCTATTTATAGTAAGTGTGAACAAG
Found at i:950924 original size:98 final size:99
Alignment explanation
Indices: 950659--950929 Score: 262
Period size: 98 Copynumber: 2.7 Consensus size: 99
950649 GAATCTGTCC
* * * * * * * * * * *
950659 TCTATTTATCATCAGTGTGAACGAGTCTGTTTATCATCAGTGTGAACGAGTCTATTTATCATCAC
1 TCTATTTATCATAACTGTGAACAAGACTATTTATCATAACTGTGAACAAGACTATTTATCATAAG
*
950724 TGTGAACGAGTCTATTTATCATCACTGTGAACGAG
66 TGTGAACAAGTCTA-TTATCATCACTGTGAACGAG
* * * * * * *
950759 TCTATTTATCATCACTGTGAACGAGTCTATTTATCATCACTGTGAACGAGTCTATTTATCATCAG
1 TCTATTTATCATAACTGTGAACAAGACTATTTATCATAACTGTGAACAAGACTATTTATCATAAG
*
950824 TGTGAACAAGTCTA-TATCATCAGTGTGAACGAG
66 TGTGAACAAGTCTATTATCATCACTGTGAACGAG
* * * *
950857 TCTATTTAT-AGTAAGTGTGAACAAGACTATTTAT-AGTAAGTGTGAATAAGACTATTTGT-AGT
1 TCTATTTATCA-TAACTGTGAACAAGACTATTTATCA-TAACTGTGAACAAGACTATTTATCA-T
950919 AAGTGTGAACA
63 AAGTGTGAACA
950930 GGTTTGAAGT
Statistics
Matches: 151, Mismatches: 17, Indels: 8
0.86 0.10 0.05
Matches are distributed among these distances:
97 3 0.02
98 74 0.49
100 74 0.49
ACGTcount: A:0.31, C:0.15, G:0.19, T:0.35
Consensus pattern (99 bp):
TCTATTTATCATAACTGTGAACAAGACTATTTATCATAACTGTGAACAAGACTATTTATCATAAG
TGTGAACAAGTCTATTATCATCACTGTGAACGAG
Found at i:953450 original size:28 final size:28
Alignment explanation
Indices: 953386--953469 Score: 82
Period size: 28 Copynumber: 3.0 Consensus size: 28
953376 GGTCGTCATG
* *
953386 GCTTGGTAAATGCAAGTATCAGGTTTAA
1 GCTTGGTTAATGCAAGTACCAGGTTTAA
* * *
953414 GCATAGTTAATGCAAGTGCCAGAGTTT-A
1 GCTTGGTTAATGCAAGTACCAG-GTTTAA
* *
953442 GCTTGGTTAATGCAATTACC-GGTATAA
1 GCTTGGTTAATGCAAGTACCAGGTTTAA
953469 G
1 G
953470 GTTTTTAGCT
Statistics
Matches: 44, Mismatches: 10, Indels: 5
0.75 0.17 0.08
Matches are distributed among these distances:
26 3 0.07
27 3 0.07
28 34 0.77
29 4 0.09
ACGTcount: A:0.31, C:0.13, G:0.25, T:0.31
Consensus pattern (28 bp):
GCTTGGTTAATGCAAGTACCAGGTTTAA
Found at i:953701 original size:66 final size:65
Alignment explanation
Indices: 953500--953718 Score: 230
Period size: 66 Copynumber: 3.4 Consensus size: 65
953490 AAGTATTAGA
* * * *
953500 TTTTAGCTTGGTTAATGCAAGTATTGGGTTCTATTTTGGTTAATGCAAGTACATACATGTAAAAG
1 TTTTAGCTTGGTTAATGCAAGTATCGGGTTCTATCTTAGTTAATGCAAGTACATAC-TGTATAAG
953565 G
65 G
* * * * * * * *
953566 CTTTAGCTTAGTTAATGCAAATATCAGGTTATAGCTTAATTAATGCAAGTGC--A-TGTATAAGG
1 TTTTAGCTTGGTTAATGCAAGTATCGGGTTCTATCTTAGTTAATGCAAGTACATACTGTATAAGG
* * *
953628 TTTTAGCTTGGTTAATGCAAGTGTCGGGTTCCATCTCT-GTTAATGCAAGTACATACCTGTATAC
1 TTTTAGCTTGGTTAATGCAAGTATCGGGTTCTATCT-TAGTTAATGCAAGTACATA-CTGTATAA
953692 GG
64 GG
**
953694 TTTTAGCTTGGCGAATGCAAGTATC
1 TTTTAGCTTGGTTAATGCAAGTATC
953719 AGTGTTTAGC
Statistics
Matches: 122, Mismatches: 26, Indels: 10
0.77 0.16 0.06
Matches are distributed among these distances:
62 48 0.39
63 1 0.01
64 2 0.02
66 71 0.58
ACGTcount: A:0.28, C:0.13, G:0.22, T:0.37
Consensus pattern (65 bp):
TTTTAGCTTGGTTAATGCAAGTATCGGGTTCTATCTTAGTTAATGCAAGTACATACTGTATAAGG
Found at i:953840 original size:28 final size:28
Alignment explanation
Indices: 953708--953839 Score: 103
Period size: 28 Copynumber: 4.8 Consensus size: 28
953698 AGCTTGGCGA
*
953708 ATGCAAGTATCA-GTGTTTAGC-TAGGTTT
1 ATGCAAGTATAAGGT-TTTAGCTTA-GTTT
* * * *
953736 TTGCAAGCATAAGGTTTAAGCTTAGTTA
1 ATGCAAGTATAAGGTTTTAGCTTAGTTT
** * * *
953764 ATGCCTGTATACGGCTTTGGCTTAGTTT
1 ATGCAAGTATAAGGTTTTAGCTTAGTTT
* *
953792 AT---AGTATCAGGTTTTAGCTTTGTTT
1 ATGCAAGTATAAGGTTTTAGCTTAGTTT
953817 ATGCAAGTATAAGGTTTTAGCTT
1 ATGCAAGTATAAGGTTTTAGCTT
953840 TTTTTATATT
Statistics
Matches: 78, Mismatches: 21, Indels: 10
0.72 0.19 0.09
Matches are distributed among these distances:
25 19 0.24
28 55 0.71
29 4 0.05
ACGTcount: A:0.24, C:0.11, G:0.23, T:0.42
Consensus pattern (28 bp):
ATGCAAGTATAAGGTTTTAGCTTAGTTT
Found at i:955595 original size:28 final size:28
Alignment explanation
Indices: 955384--955595 Score: 133
Period size: 28 Copynumber: 7.4 Consensus size: 28
955374 GCAGCTTAAA
* *
955384 TGGTTAAGGCAAGTATCGGGTTTTAGCT
1 TGGTTAATGCAAGTATCAGGTTTTAGCT
* * *
955412 GGGTTAATGCAAATATCAGACTTTT-GCT
1 TGGTTAATGCAAGTATCAG-GTTTTAGCT
* * *
955440 TAGTCAATGCAAGTATCAGGATTTACATGTAGGT
1 TGGTTAATGCAAGTATCAGG--TT---T-TAGCT
* * * * **
955474 TGGTAAATGCAACTTTTATTTTTTAGCT
1 TGGTTAATGCAAGTATCAGGTTTTAGCT
*
955502 TGTTTAATGC-AGTATCAGGTTTTAGCT
1 TGGTTAATGCAAGTATCAGGTTTTAGCT
* * * * *
955529 TTGTTAATGCAAGAATCGGGCTTTA-AT
1 TGGTTAATGCAAGTATCAGGTTTTAGCT
*
955556 TGGTTCATGCAAGTATCAGGTTTTAGCT
1 TGGTTAATGCAAGTATCAGGTTTTAGCT
**
955584 TGGCAAATGCAA
1 TGGTTAATGCAA
955596 AGTAGGAGGG
Statistics
Matches: 133, Mismatches: 41, Indels: 20
0.69 0.21 0.10
Matches are distributed among these distances:
27 41 0.31
28 66 0.50
29 7 0.05
32 3 0.02
33 1 0.01
34 15 0.11
ACGTcount: A:0.27, C:0.12, G:0.23, T:0.38
Consensus pattern (28 bp):
TGGTTAATGCAAGTATCAGGTTTTAGCT
Found at i:956584 original size:28 final size:28
Alignment explanation
Indices: 956544--956635 Score: 91
Period size: 28 Copynumber: 3.3 Consensus size: 28
956534 AAGTATTGGG
* *
956544 TTTAGCTTGGTAAAT-ATAAGTTTCAGAT
1 TTTAGCTTGGTAAATGAT-AGTATAAGAT
* *
956572 TTTAGCTTGGTAAATGCTAGTATAAGGT
1 TTTAGCTTGGTAAATGATAGTATAAGAT
*
956600 TTTAGCTTGGTAAATTCA-AGTATAAGACT
1 TTTAGCTTGGTAAA-TGATAGTATAAGA-T
956629 TTT-GCTT
1 TTTAGCTT
956636 CGTTAAAGAT
Statistics
Matches: 54, Mismatches: 7, Indels: 6
0.81 0.10 0.09
Matches are distributed among these distances:
28 48 0.89
29 6 0.11
ACGTcount: A:0.29, C:0.09, G:0.20, T:0.42
Consensus pattern (28 bp):
TTTAGCTTGGTAAATGATAGTATAAGAT
Found at i:958617 original size:48 final size:48
Alignment explanation
Indices: 958306--958616 Score: 173
Period size: 48 Copynumber: 6.4 Consensus size: 48
958296 AGATCATGAG
*
958306 CAAAGCCATACAGGACATGCAATGGCTTCTAGAAAAA-GTAAGTCAATTGAATA
1 CAAAGCCATACAGGACATGCAATGGCTTCTA-AAAAAGGTAAGTC-----AACA
** * *
958359 CAAAGTAATACAGGACATGCAATGGCTTCTAGAAAAGGTAAGTCAATA
1 CAAAGCCATACAGGACATGCAATGGCTTCTAAAAAAGGTAAGTCAACA
* * * * * ** *** * * *
958407 CTAAGCCAGAAAGGACATACAGTTACTTCTTCCAAAGCTATGTCAATA
1 CAAAGCCATACAGGACATGCAATGGCTTCTAAAAAAGGTAAGTCAACA
* * * * **
958455 AAAAGCCAGACATGG-CATGCAGTGG-TAAC-AACAAAAGGTAAGTCAATG
1 CAAAGCCATACA-GGACATGCAATGGCT-TCTAA-AAAAGGTAAGTCAACA
* * * * * * *
958503 CATACCCATACAGGGCATGCAGTGACTTCTACCAAAA-GTATGTCAACA
1 CAAAGCCATACAGGACATGCAATGGCTTCTA-AAAAAGGTAAGTCAACA
* * * *
958551 CAAAGCAAAACAGAACATACAATGGCTTCTAAAAAAGGTAAGTCAACA
1 CAAAGCCATACAGGACATGCAATGGCTTCTAAAAAAGGTAAGTCAACA
*
958599 CTAAGCCATACAGGACAT
1 CAAAGCCATACAGGACAT
958617 ATGCAGTGAC
Statistics
Matches: 194, Mismatches: 55, Indels: 23
0.71 0.20 0.08
Matches are distributed among these distances:
47 7 0.04
48 139 0.72
49 8 0.04
52 4 0.02
53 36 0.19
ACGTcount: A:0.42, C:0.20, G:0.18, T:0.19
Consensus pattern (48 bp):
CAAAGCCATACAGGACATGCAATGGCTTCTAAAAAAGGTAAGTCAACA
Found at i:959139 original size:138 final size:138
Alignment explanation
Indices: 958890--960209 Score: 808
Period size: 138 Copynumber: 9.3 Consensus size: 138
958880 CATCAATACA
** *
958890 GTAATAGGATAATACGTGTCTACACAGTGTAATAGGATAACATGTGTCTACACAGTGTAATAGGA
1 GTAATAGGATAATGTGTATCTACACAGTGTAATAGGATAACATGTGTCTACACAGTGTAAT-GGA
** * * **
958955 TAACATGTGTCTACACAGTGTAATAGGATAACATGTATTTACACAGTGTAATAGGATAACATG-T
65 TAATGTGTGTCTACACAGTGTAATAGGATAACGTGTATCTACACAGTGTAATAGGATAATGTGAT
*
959019 CTACACAGT
130 CTACACAAT
959028 GTAATAGGATAATGTGTATCTACACAGTGTAATAGGATAACATGTGTCTACACAGTGTAATGTGA
1 GTAATAGGATAATGTGTATCTACACAGTGTAATAGGATAACATGTGTCTACACAGTGTAATG-GA
* * * * * ** * ** *
959093 TTATGTGTATATATACAGTGTAAAAGGATAGTGTGTATCTATACAGTAAAATAGGATAAAGTGTA
65 TAATGTGTGTCTACACAGTGTAATAGGATAACGTGTATCTACACAGTGTAATAGGATAATGTG-A
**
959158 TCTTTTAC--T
129 TC-TACACAAT
* * * * ** * ** * *
959167 GTAAAAGAATAATGTGTATCTAAACAGTG-AAGTAGGATTATGTGTATCTGTACAGTGTTATAGA
1 GTAATAGGATAATGTGTATCTACACAGTGTAA-TAGGATAACATGTGTCTACACAGTGTAATGGA
* * ** * * *
959231 T-TTATGTGT-TATGCAGTGTAAAAAGG-TAATGTGTATCTATACAGTGTAATAGGATAATGTGT
65 TAATGTGTGTCTACACAGTGT-AATAGGATAACGTGTATCTACACAGTGTAATAGGATAATGTG-
*
959293 ATCTATACAAT
128 ATCTACACAAT
* * ** * * *
959304 GAAATAGGATAATTTGTATCTACACAGTGTAATAGGATAATGTGTATCTACACAATGTAACAGGA
1 GTAATAGGATAATGTGTATCTACACAGTGTAATAGGATAACATGTGTCTACACAGTGTAA-TGGA
**
959369 TAACATGTGTCTACACAGTGTAATAGGATAACGTG--TCTACACAGTGTAATAGGATAATGTGTA
65 TAATGTGTGTCTACACAGTGTAATAGGATAACGTGTATCTACACAGTGTAATAGGATAATGTG-A
*
959432 TCTACACAGT
129 TCTACACAAT
* * * *
959442 GTAATAAGATAATGTGTATCTACACAATGTAATAGGATATC--GTGTCTACACAGTGTAACAGGA
1 GTAATAGGATAATGTGTATCTACACAGTGTAATAGGATAACATGTGTCTACACAGTGTAA-TGGA
* ** * *
959505 TAATGTGTATCTACACAGTGTAATAGGATAACACGTGTCTACCCAGTGTAATAGGATAATGTGTA
65 TAATGTGTGTCTACACAGTGTAATAGGATAACGTGTATCTACACAGTGTAATAGGATAATGTG-A
959570 TCTACACAAT
129 TCTACACAAT
** * *
959580 GTAATAGGATAACATGTATTTACACAATGTAATAGGATAACATGTGTCTACACAGTGTAATAGGA
1 GTAATAGGATAATGTGTATCTACACAGTGTAATAGGATAACATGTGTCTACACAGTGTAAT-GGA
* *
959645 TAATGTGTGTCTACACAGTGTAATAGGATAATCTGTGTAAGTTATTTTTATTTAAACAGTGTAAT
65 TAATGTGTGTCTACACAGTGTAATAGGATAA-C---GT--G-------TATCTACACAGTGTAAT
** * *
959710 -GTGATTGTGTGTATATATACAGTGTATATACAGT
117 AG-GATAATGTG---ATCTAC-----A----CAAT
* * * ** * ** * ** *
959744 GTAAAAGGATAGTGTGTATCTATACAGTAAAATAGGATAA-AGTGTATCTTTTACTGTAAAAT-A
1 GTAATAGGATAATGTGTATCTACACAGTGTAATAGGATAACA-TGTGTC-TACACAGTGTAATGG
* * * * * * *
959807 ATAATGTGTATCTAAACAGTGAAGTAGGATTATGTGTATTTATGTGTATTTATACAGTGTTATA-
64 ATAATGTGTGTCTACACAGT---GTA--A-TA-G-G-A-TAACGTGTATCTACACAGTGTAATAG
* ** *
959871 GATTTATGTG-T-TATGCAGT
119 GA-TAATGTGATCTACACAAT
* * ** * *
959890 GTAAAAAGG-TAATGTGTATCTATACAGTGTAATAGGATAATGTGTATCTATACAGTGTAATAGG
1 GT-AATAGGATAATGTGTATCTACACAGTGTAATAGGATAACATGTGTCTACACAGTGTAAT-GG
* * * * *
959954 ATAATGTGTATCTATACAGTGAAATAGGATAATGTGTATCTATACAGTGTAATAGGATAATGTGT
64 ATAATGTGTGTCTACACAGTGTAATAGGATAACGTGTATCTACACAGTGTAATAGGATAATGTG-
** *
960019 ATCTGTACAGT
128 ATCTACACAAT
* * * * * * ** *
960030 GAAATAAGATAATGTTTATCTATACAATGAAATAGGAT-A-ATGTGAATCTGTACAGTGAAATAG
1 GTAATAGGATAATGTGTATCTACACAGTGTAATAGGATAACATGTG--TCTACACAGTGTAAT-G
* ** * * * ** *
960093 GATAATGTGTATCTGTACGGTGAAATAGGATAATGTGTATCTGTACAGTGAAATAGGATAATGTG
63 GATAATGTGTGTCTACACAGTGTAATAGGATAACGTGTATCTACACAGTGTAATAGGATAATGTG
*
960158 TATCTATACAAT
128 -ATCTACACAAT
* * *
960170 GAAATAGGATAATGTGTATCTATACAGTGAAATAGGATAA
1 GTAATAGGATAATGTGTATCTACACAGTGTAATAGGATAA
960210 TGCGTAGATA
Statistics
Matches: 958, Mismatches: 155, Indels: 135
0.77 0.12 0.11
Matches are distributed among these distances:
135 4 0.00
136 94 0.10
137 88 0.09
138 265 0.28
139 67 0.07
140 221 0.23
141 7 0.01
142 1 0.00
144 2 0.00
145 9 0.01
146 41 0.04
147 25 0.03
152 1 0.00
153 20 0.02
155 8 0.01
156 1 0.00
159 2 0.00
160 22 0.02
163 19 0.02
164 39 0.04
165 8 0.01
166 3 0.00
167 1 0.00
168 1 0.00
169 4 0.00
170 1 0.00
171 1 0.00
172 1 0.00
173 2 0.00
ACGTcount: A:0.37, C:0.09, G:0.21, T:0.33
Consensus pattern (138 bp):
GTAATAGGATAATGTGTATCTACACAGTGTAATAGGATAACATGTGTCTACACAGTGTAATGGAT
AATGTGTGTCTACACAGTGTAATAGGATAACGTGTATCTACACAGTGTAATAGGATAATGTGATC
TACACAAT
Found at i:959183 original size:55 final size:55
Alignment explanation
Indices: 959111--959215 Score: 147
Period size: 55 Copynumber: 1.9 Consensus size: 55
959101 ATATATACAG
* * *
959111 TGTAAAAGGATAGTGTGTATCTATACAGTAAAATAGGATAAAGTGTATCTTTTAC
1 TGTAAAAGAATAATGTGTATCTAAACAGTAAAATAGGATAAAGTGTATCTTTTAC
* * * *
959166 TGTAAAAGAATAATGTGTATCTAAACAGTGAAGTAGGATTATGTGTATCT
1 TGTAAAAGAATAATGTGTATCTAAACAGTAAAATAGGATAAAGTGTATCT
959216 GTACAGTGTT
Statistics
Matches: 43, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
55 43 1.00
ACGTcount: A:0.38, C:0.07, G:0.21, T:0.34
Consensus pattern (55 bp):
TGTAAAAGAATAATGTGTATCTAAACAGTAAAATAGGATAAAGTGTATCTTTTAC
Found at i:960211 original size:28 final size:28
Alignment explanation
Indices: 958890--960340 Score: 1006
Period size: 28 Copynumber: 51.2 Consensus size: 28
958880 CATCAATACA
** * *
958890 GTAATAGGATAATACGTGTCTACACAGT
1 GTAATAGGATAATGTGTATCTATACAGT
** * *
958918 GTAATAGGATAACATGTGTCTACACAGT
1 GTAATAGGATAATGTGTATCTATACAGT
** * *
958946 GTAATAGGATAACATGTGTCTACACAGT
1 GTAATAGGATAATGTGTATCTATACAGT
** * *
958974 GTAATAGGATAACATGTATTTACACAGT
1 GTAATAGGATAATGTGTATCTATACAGT
** *
959002 GTAATAGGATAACATG--TCTACACAGT
1 GTAATAGGATAATGTGTATCTATACAGT
*
959028 GTAATAGGATAATGTGTATCTACACAGT
1 GTAATAGGATAATGTGTATCTATACAGT
** * *
959056 GTAATAGGATAACATGTGTCTACACAGT
1 GTAATAGGATAATGTGTATCTATACAGT
* *
959084 GTAAT-GTGATTATGTGTATATATACAGT
1 GTAATAG-GATAATGTGTATCTATACAGT
* *
959112 GTAAAAGGATAGTGTGTATCTATACAGT
1 GTAATAGGATAATGTGTATCTATACAGT
** * *
959140 AAAATAGGATAAAGTGTATCTTTTAC--T
1 GTAATAGGATAATGTGTATC-TATACAGT
* * *
959167 GTAAAAGAATAATGTGTATCTAAACAGT
1 GTAATAGGATAATGTGTATCTATACAGT
* *
959195 G-AAGTAGGATTATGTGTATCTGTACAGT
1 GTAA-TAGGATAATGTGTATCTATACAGT
* * *
959223 GTTATA-GATTTATGTG--T-TATGCAGT
1 GTAATAGGA-TAATGTGTATCTATACAGT
*
959248 GTAAAAAGG-TAATGTGTATCTATACAGT
1 GT-AATAGGATAATGTGTATCTATACAGT
*
959276 GTAATAGGATAATGTGTATCTATACAAT
1 GTAATAGGATAATGTGTATCTATACAGT
* * *
959304 GAAATAGGATAATTTGTATCTACACAGT
1 GTAATAGGATAATGTGTATCTATACAGT
* *
959332 GTAATAGGATAATGTGTATCTACACAAT
1 GTAATAGGATAATGTGTATCTATACAGT
* ** * *
959360 GTAACAGGATAACATGTGTCTACACAGT
1 GTAATAGGATAATGTGTATCTATACAGT
* *
959388 GTAATAGGATAACGTG--TCTACACAGT
1 GTAATAGGATAATGTGTATCTATACAGT
*
959414 GTAATAGGATAATGTGTATCTACACAGT
1 GTAATAGGATAATGTGTATCTATACAGT
* * *
959442 GTAATAAGATAATGTGTATCTACACAAT
1 GTAATAGGATAATGTGTATCTATACAGT
*
959470 GTAATAGGAT-ATCGTG--TCTACACAGT
1 GTAATAGGATAAT-GTGTATCTATACAGT
* *
959496 GTAACAGGATAATGTGTATCTACACAGT
1 GTAATAGGATAATGTGTATCTATACAGT
*** * **
959524 GTAATAGGATAACACGTGTCTACCCAGT
1 GTAATAGGATAATGTGTATCTATACAGT
* *
959552 GTAATAGGATAATGTGTATCTACACAAT
1 GTAATAGGATAATGTGTATCTATACAGT
** * * *
959580 GTAATAGGATAACATGTATTTACACAAT
1 GTAATAGGATAATGTGTATCTATACAGT
** * *
959608 GTAATAGGATAACATGTGTCTACACAGT
1 GTAATAGGATAATGTGTATCTATACAGT
* *
959636 GTAATAGGATAATGTGTGTCTACACAGT
1 GTAATAGGATAATGTGTATCTATACAGT
**
959664 GTAATAGGATAATCTGTGTAAGT-TATTTTTA-T
1 GTAATAGGATAA--TGTGT-A-TCTA--TACAGT
* * * *
959696 TTAAACAGTGTAATGTGATTGTGTGTATATATACAGT
1 GT-AATAG-G--A--T-A--ATGTGTATCTATACAGT
* * * * * **
959733 GTATATACAGTGTAAAAGGATAGTGTGTATCTATACA
1 GTA-AT--AG-G--ATA--AT-GTGTATCTATACAGT
* *
959770 GTAAAATAGGATAAAGTGTATCTTTTAC--T
1 GTAA--TAGGATAATGTGTATC-TATACAGT
* ** *
959799 GTAAAATAATAATGTGTATCTAAACAGT
1 GTAATAGGATAATGTGTATCTATACAGT
* *
959827 G-AAGTAGGATTATGTGTAT-T-TA-TGT
1 GTAA-TAGGATAATGTGTATCTATACAGT
* * *
959852 GTATTTATACAGTGTTATAGATTTATGTGT-TATGCAGT
1 GTA---AT--AG-G--ATA-A--TGTGTATCTATACAGT
*
959890 GTAAAAAGG-TAATGTGTATCTATACAGT
1 GT-AATAGGATAATGTGTATCTATACAGT
959918 GTAATAGGATAATGTGTATCTATACAGT
1 GTAATAGGATAATGTGTATCTATACAGT
959946 GTAATAGGATAATGTGTATCTATACAGT
1 GTAATAGGATAATGTGTATCTATACAGT
*
959974 GAAATAGGATAATGTGTATCTATACAGT
1 GTAATAGGATAATGTGTATCTATACAGT
*
960002 GTAATAGGATAATGTGTATCTGTACAGT
1 GTAATAGGATAATGTGTATCTATACAGT
* * * *
960030 GAAATAAGATAATGTTTATCTATACAAT
1 GTAATAGGATAATGTGTATCTATACAGT
* * *
960058 GAAATAGGATAATGTGAATCTGTACAGT
1 GTAATAGGATAATGTGTATCTATACAGT
* * *
960086 GAAATAGGATAATGTGTATCTGTACGGT
1 GTAATAGGATAATGTGTATCTATACAGT
* *
960114 GAAATAGGATAATGTGTATCTGTACAGT
1 GTAATAGGATAATGTGTATCTATACAGT
* *
960142 GAAATAGGATAATGTGTATCTATACAAT
1 GTAATAGGATAATGTGTATCTATACAGT
*
960170 GAAATAGGATAATGTGTATCTATACAGT
1 GTAATAGGATAATGTGTATCTATACAGT
* * **
960198 GAAATAGGATAATGCGTAGATATACAGT
1 GTAATAGGATAATGTGTATCTATACAGT
* * *
960226 ATAATA-GATTTATGTG--TC-ATGCAGT
1 GTAATAGGA-TAATGTGTATCTATACAGT
* *
960251 GTAATAGAATAATGTGTATCTATAGAGT
1 GTAATAGGATAATGTGTATCTATACAGT
** *
960279 CAAAAAGG---ATGTGTATCTATGAACAGT
1 GTAATAGGATAATGTGTATCTAT--ACAGT
* *
960306 GAAATGGGATAATGTGTATCTATACAGT
1 GTAATAGGATAATGTGTATCTATACAGT
960334 GTAATAG
1 GTAATAG
960341 TATATAAATA
Statistics
Matches: 1167, Mismatches: 180, Indels: 152
0.78 0.12 0.10
Matches are distributed among these distances:
25 46 0.04
26 81 0.07
27 70 0.06
28 850 0.73
29 12 0.01
30 26 0.02
31 7 0.01
32 3 0.00
33 10 0.01
34 4 0.00
35 1 0.00
36 16 0.01
37 18 0.02
38 9 0.01
39 14 0.01
ACGTcount: A:0.37, C:0.09, G:0.21, T:0.33
Consensus pattern (28 bp):
GTAATAGGATAATGTGTATCTATACAGT
Found at i:960968 original size:25 final size:25
Alignment explanation
Indices: 960939--961035 Score: 122
Period size: 25 Copynumber: 3.8 Consensus size: 25
960929 ACGTGTTGCT
960939 ATACAGTGTAATAGGATAATGTGTG
1 ATACAGTGTAATAGGATAATGTGTG
*
960964 ATACATTGTAATAGGATAATGTGTG
1 ATACAGTGTAATAGGATAATGTGTG
* * * *
960989 ATACATTGTAAAAGAATAATGTGTATCT
1 ATACAGTGTAATAGGATAATGTG--T-G
961017 ATACAGTGTAATAGGATAA
1 ATACAGTGTAATAGGATAA
961036 CGTATATATA
Statistics
Matches: 62, Mismatches: 7, Indels: 3
0.86 0.10 0.04
Matches are distributed among these distances:
25 45 0.73
27 1 0.02
28 16 0.26
ACGTcount: A:0.40, C:0.05, G:0.22, T:0.33
Consensus pattern (25 bp):
ATACAGTGTAATAGGATAATGTGTG
Found at i:961052 original size:32 final size:32
Alignment explanation
Indices: 961012--961099 Score: 158
Period size: 32 Copynumber: 2.8 Consensus size: 32
961002 GAATAATGTG
961012 TATCTATACAGTGTAATAGGATAACGTATATA
1 TATCTATACAGTGTAATAGGATAACGTATATA
961044 TATCTATACAGTGTAATAGGATAACGTATATA
1 TATCTATACAGTGTAATAGGATAACGTATATA
* *
961076 TATCTATACAGTATAATGGGATAA
1 TATCTATACAGTGTAATAGGATAA
961100 ATTGTATCTC
Statistics
Matches: 54, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
32 54 1.00
ACGTcount: A:0.41, C:0.09, G:0.16, T:0.34
Consensus pattern (32 bp):
TATCTATACAGTGTAATAGGATAACGTATATA
Found at i:968649 original size:31 final size:31
Alignment explanation
Indices: 968624--968857 Score: 432
Period size: 31 Copynumber: 7.5 Consensus size: 31
968614 TATCGATAAA
*
968624 ACAACCTGTTACAGAATGTAATATCGATACG
1 ACAACCTGTTACAGAATGTAATATCAATACG
968655 ACAACCTGTTACAGAATGTAATATCAATACG
1 ACAACCTGTTACAGAATGTAATATCAATACG
*
968686 ACAACCTGTTACAGAATGTAATATCGATACG
1 ACAACCTGTTACAGAATGTAATATCAATACG
968717 ACAACCTGTTACAGAATGTAATATCAATACG
1 ACAACCTGTTACAGAATGTAATATCAATACG
*
968748 ACAACCTGTTACAGAATGTAATATCGATACG
1 ACAACCTGTTACAGAATGTAATATCAATACG
*
968779 ACAACATGTTACAGAATGTAATATCAATACG
1 ACAACCTGTTACAGAATGTAATATCAATACG
968810 ACAACCTGTTACAGAATGTAATATCAATACG
1 ACAACCTGTTACAGAATGTAATATCAATACG
968841 ACAACCTGTTACAGAAT
1 ACAACCTGTTACAGAAT
968858 CAAATGTACC
Statistics
Matches: 196, Mismatches: 7, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 196 1.00
ACGTcount: A:0.41, C:0.19, G:0.14, T:0.26
Consensus pattern (31 bp):
ACAACCTGTTACAGAATGTAATATCAATACG
Found at i:969197 original size:41 final size:41
Alignment explanation
Indices: 969140--969469 Score: 624
Period size: 41 Copynumber: 8.0 Consensus size: 41
969130 GAGCTCAATG
969140 CATACAACAACCAATTGACATAGGATTTAATTATCCTTTAC
1 CATACAACAACCAATTGACATAGGATTTAATTATCCTTTAC
969181 CATACAACAACCAATTGACATAGGATTTAATTATCCTTTAC
1 CATACAACAACCAATTGACATAGGATTTAATTATCCTTTAC
969222 CATACAACAACCAATTGACATAGGATTTAATTATCCTTTAC
1 CATACAACAACCAATTGACATAGGATTTAATTATCCTTTAC
969263 CATACAACAACCAATTGACATAGGATTTAATTATCCTTTAC
1 CATACAACAACCAATTGACATAGGATTTAATTATCCTTTAC
*
969304 CATTCAACAACCAATTGACATAGGATTTAATTATCCTTTAC
1 CATACAACAACCAATTGACATAGGATTTAATTATCCTTTAC
969345 CATACAACAACCAATTGACATAGGATTTAATTATCCTTTAC
1 CATACAACAACCAATTGACATAGGATTTAATTATCCTTTAC
*
969386 CATACAACAACCAATTGACATAGGATGTAATTATCCTTTAC
1 CATACAACAACCAATTGACATAGGATTTAATTATCCTTTAC
* *
969427 CATACAACAACCAATTGACATAGGATGTAAATATCCTTTAC
1 CATACAACAACCAATTGACATAGGATTTAATTATCCTTTAC
969468 CA
1 CA
969470 GGTAGGGGGC
Statistics
Matches: 285, Mismatches: 4, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
41 285 1.00
ACGTcount: A:0.39, C:0.22, G:0.08, T:0.31
Consensus pattern (41 bp):
CATACAACAACCAATTGACATAGGATTTAATTATCCTTTAC
Found at i:970241 original size:31 final size:32
Alignment explanation
Indices: 970183--970247 Score: 114
Period size: 32 Copynumber: 2.1 Consensus size: 32
970173 CATGTAATTT
970183 ATACAAAAATACAAACCTTAAAAAAGACGTTA
1 ATACAAAAATACAAACCTTAAAAAAGACGTTA
*
970215 ATACATAAATACAAACCTT-AAAAAGACGTTA
1 ATACAAAAATACAAACCTTAAAAAAGACGTTA
970246 AT
1 AT
970248 TCATGACGCG
Statistics
Matches: 32, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
31 14 0.44
32 18 0.56
ACGTcount: A:0.57, C:0.15, G:0.06, T:0.22
Consensus pattern (32 bp):
ATACAAAAATACAAACCTTAAAAAAGACGTTA
Found at i:972786 original size:34 final size:34
Alignment explanation
Indices: 972743--972902 Score: 205
Period size: 34 Copynumber: 4.7 Consensus size: 34
972733 CGTCATCCTT
*
972743 AACTTGATTTTGGAGTCGATTATTTCTTAATTAC
1 AACTTGATTTTGGAGTTGATTATTTCTTAATTAC
* * **
972777 AACTTGATTTT-GAGATGATTATTTCTTACTTTT
1 AACTTGATTTTGGAGTTGATTATTTCTTAATTAC
* * *
972810 AACTTTATTTTTGAGTTTATTATTTCTTAATTAC
1 AACTTGATTTTGGAGTTGATTATTTCTTAATTAC
* * * *
972844 AACTTGAATTTGGCGTTGACTATTTCTTACTTAC
1 AACTTGATTTTGGAGTTGATTATTTCTTAATTAC
972878 AACTTGATTTTGGAGTTGATTATTT
1 AACTTGATTTTGGAGTTGATTATTT
972903 GCTGTCGCCA
Statistics
Matches: 104, Mismatches: 21, Indels: 2
0.82 0.17 0.02
Matches are distributed among these distances:
33 27 0.26
34 77 0.74
ACGTcount: A:0.25, C:0.11, G:0.13, T:0.51
Consensus pattern (34 bp):
AACTTGATTTTGGAGTTGATTATTTCTTAATTAC
Found at i:972849 original size:67 final size:68
Alignment explanation
Indices: 972741--972902 Score: 227
Period size: 68 Copynumber: 2.4 Consensus size: 68
972731 AACGTCATCC
* * *
972741 TTAACTTGATTTTGGAGTCGATTATTTCTTAATTACAACTTG-ATTTTGAGATGATTATTTCTTA
1 TTAACTTGATTTTGGAGTTGATTATTTCTTAATTACAACTTGAATTTGGAGATGACTATTTCTTA
972805 CTT
66 CTT
* * * * *
972808 TTAACTTTATTTTTGAGTTTATTATTTCTTAATTACAACTTGAATTTGGCGTTGACTATTTCTTA
1 TTAACTTGATTTTGGAGTTGATTATTTCTTAATTACAACTTGAATTTGGAGATGACTATTTCTTA
972873 CTT
66 CTT
**
972876 ACAACTTGATTTTGGAGTTGATTATTT
1 TTAACTTGATTTTGGAGTTGATTATTT
972903 GCTGTCGCCA
Statistics
Matches: 81, Mismatches: 13, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
67 38 0.47
68 43 0.53
ACGTcount: A:0.25, C:0.10, G:0.13, T:0.52
Consensus pattern (68 bp):
TTAACTTGATTTTGGAGTTGATTATTTCTTAATTACAACTTGAATTTGGAGATGACTATTTCTTA
CTT
Found at i:974009 original size:20 final size:20
Alignment explanation
Indices: 973986--974031 Score: 92
Period size: 20 Copynumber: 2.3 Consensus size: 20
973976 TTACATGTAA
973986 ATATAATGCTGGACTTGTGG
1 ATATAATGCTGGACTTGTGG
974006 ATATAATGCTGGACTTGTGG
1 ATATAATGCTGGACTTGTGG
974026 ATATAA
1 ATATAA
974032 GGTTATATAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.30, C:0.09, G:0.26, T:0.35
Consensus pattern (20 bp):
ATATAATGCTGGACTTGTGG
Found at i:974206 original size:20 final size:20
Alignment explanation
Indices: 974183--974244 Score: 72
Period size: 20 Copynumber: 3.1 Consensus size: 20
974173 ACAATTGAAA
974183 ATAATGCTTAACTTGTGGAT
1 ATAATGCTTAACTTGTGGAT
* *
974203 ATAAAGC-TAGACATGTGGAT
1 ATAATGCTTA-ACTTGTGGAT
**
974223 ATAATGCTGGACTTGTGGAT
1 ATAATGCTTAACTTGTGGAT
974243 AT
1 AT
974245 TAGGCTAAAC
Statistics
Matches: 34, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
19 2 0.06
20 32 0.94
ACGTcount: A:0.32, C:0.10, G:0.24, T:0.34
Consensus pattern (20 bp):
ATAATGCTTAACTTGTGGAT
Found at i:974238 original size:40 final size:40
Alignment explanation
Indices: 974183--974290 Score: 112
Period size: 40 Copynumber: 2.7 Consensus size: 40
974173 ACAATTGAAA
* **
974183 ATAATGCTTA-ACTTGTGGATATAAAGCTAGACATG-TGGAT
1 ATAATGC-TAGACTTGTGGATATAAAGCTAAAC-TGACAGAT
* * *
974223 ATAATGCTGGACTTGTGGATATTAGGCTAAACTGACAGAT
1 ATAATGCTAGACTTGTGGATATAAAGCTAAACTGACAGAT
* *
974263 ATAATGTTAGACTTTTGGATATAAAGCT
1 ATAATGCTAGACTTGTGGATATAAAGCT
974291 GAATAAAATG
Statistics
Matches: 55, Mismatches: 11, Indels: 4
0.79 0.16 0.06
Matches are distributed among these distances:
39 3 0.05
40 52 0.95
ACGTcount: A:0.34, C:0.10, G:0.22, T:0.33
Consensus pattern (40 bp):
ATAATGCTAGACTTGTGGATATAAAGCTAAACTGACAGAT
Found at i:974398 original size:20 final size:20
Alignment explanation
Indices: 974373--974492 Score: 116
Period size: 20 Copynumber: 6.0 Consensus size: 20
974363 TTAGAAATAG
*
974373 TGCTTGACTTGTGGATATTA
1 TGCTTGACTTGTGGATATAA
974393 TGCTTGACTTGTGGATATAA
1 TGCTTGACTTGTGGATATAA
* * *
974413 TGCTGGGCTTGTTGATATAA
1 TGCTTGACTTGTGGATATAA
* *
974433 AGCTAGACTTGTGGATATAA
1 TGCTTGACTTGTGGATATAA
* *
974453 TAC-TGAACTTGTAGATATAA
1 TGCTTG-ACTTGTGGATATAA
* ** *
974473 GGCGCGACTTCTGGATATAA
1 TGCTTGACTTGTGGATATAA
974493 ATTAAAGTTA
Statistics
Matches: 81, Mismatches: 17, Indels: 4
0.79 0.17 0.04
Matches are distributed among these distances:
19 1 0.01
20 79 0.98
21 1 0.01
ACGTcount: A:0.28, C:0.12, G:0.25, T:0.36
Consensus pattern (20 bp):
TGCTTGACTTGTGGATATAA
Found at i:974490 original size:60 final size:60
Alignment explanation
Indices: 974378--974493 Score: 137
Period size: 60 Copynumber: 1.9 Consensus size: 60
974368 AATAGTGCTT
* * * * * * *
974378 GACTTGTGGATATTATGCTTGACTTGTGGATATAATGCTGGGCTTGTTGATATAAAGCTA
1 GACTTGTGGATATAATACTTGACTTGTAGATATAAGGCTGGACTTCTGGATATAAAGCTA
974438 GACTTGTGGATATAATAC-TGAACTTGTAGATATAAGGC-GCGACTTCTGGATATAAA
1 GACTTGTGGATATAATACTTG-ACTTGTAGATATAAGGCTG-GACTTCTGGATATAAA
974494 TTAAAGTTAG
Statistics
Matches: 47, Mismatches: 7, Indels: 4
0.81 0.12 0.07
Matches are distributed among these distances:
59 3 0.06
60 44 0.94
ACGTcount: A:0.29, C:0.11, G:0.25, T:0.34
Consensus pattern (60 bp):
GACTTGTGGATATAATACTTGACTTGTAGATATAAGGCTGGACTTCTGGATATAAAGCTA
Found at i:974692 original size:20 final size:20
Alignment explanation
Indices: 974669--974708 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
974659 TATTAATCTA
*
974669 GACTTATGGATATAATGTTG
1 GACTTATGGATAAAATGTTG
*
974689 GACTTGTGGATAAAATGTTG
1 GACTTATGGATAAAATGTTG
974709 TGTGTAGACC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.30, C:0.05, G:0.28, T:0.38
Consensus pattern (20 bp):
GACTTATGGATAAAATGTTG
Found at i:976830 original size:31 final size:31
Alignment explanation
Indices: 976795--976865 Score: 108
Period size: 31 Copynumber: 2.3 Consensus size: 31
976785 TTTGATTACA
*
976795 TTGAGGGCGTTCGCTAG-GATTACTTATAGAT
1 TTGAGGGCGTTCGC-AGCGATTACTTACAGAT
976826 TTGAGGGCGTTCGCAGCGATTACTTACAGAT
1 TTGAGGGCGTTCGCAGCGATTACTTACAGAT
*
976857 TTGATGGCG
1 TTGAGGGCG
976866 CTGAGGGCGT
Statistics
Matches: 37, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
30 2 0.05
31 35 0.95
ACGTcount: A:0.21, C:0.15, G:0.31, T:0.32
Consensus pattern (31 bp):
TTGAGGGCGTTCGCAGCGATTACTTACAGAT
Found at i:977473 original size:45 final size:45
Alignment explanation
Indices: 977397--977750 Score: 528
Period size: 45 Copynumber: 7.9 Consensus size: 45
977387 TTTAAAATAA
* *
977397 CATGTCTGTGTAAGGTGTCTTTGTCATTGTCATAAGTCAGATGTT
1 CATGTCTGTGTTAGGTGTCTTTGTGATTGTCATAAGTCAGATGTT
* * * * *
977442 TAGGTATTTGTTAGGTGTCTTTGTGATTGTCATAAGTCATATGTT
1 CATGTCTGTGTTAGGTGTCTTTGTGATTGTCATAAGTCAGATGTT
* * *
977487 TAGGTCTGTGTTAGGTGTCTTTGTGATTGTCATAAGTTAGATGTT
1 CATGTCTGTGTTAGGTGTCTTTGTGATTGTCATAAGTCAGATGTT
* *
977532 CATGTCTGTGTAAGGTGTCTTTGTGATTGTCATAAGTCAGGTGTT
1 CATGTCTGTGTTAGGTGTCTTTGTGATTGTCATAAGTCAGATGTT
* *
977577 CATGTCTGTGATAGGTGTCTTTGTGATTGTCATAAGTTAGATGTT
1 CATGTCTGTGTTAGGTGTCTTTGTGATTGTCATAAGTCAGATGTT
*
977622 CATGTCTGTGTAAGGTGTCTTTGTGATTGTCATAAGTCAGATGTT
1 CATGTCTGTGTTAGGTGTCTTTGTGATTGTCATAAGTCAGATGTT
* * * *
977667 TAGGTATGTGTTAGGTGTCTTTGTGATTGTCATAAGTTAGATGTT
1 CATGTCTGTGTTAGGTGTCTTTGTGATTGTCATAAGTCAGATGTT
*
977712 CATGTCTGTGTAAGGTGTCTTTGTGATTGTCATAAGTCA
1 CATGTCTGTGTTAGGTGTCTTTGTGATTGTCATAAGTCA
977751 TATCATATCA
Statistics
Matches: 276, Mismatches: 33, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
45 276 1.00
ACGTcount: A:0.19, C:0.09, G:0.27, T:0.44
Consensus pattern (45 bp):
CATGTCTGTGTTAGGTGTCTTTGTGATTGTCATAAGTCAGATGTT
Found at i:977925 original size:2 final size:2
Alignment explanation
Indices: 977915--977955 Score: 73
Period size: 2 Copynumber: 20.5 Consensus size: 2
977905 ATTTTTTATT
*
977915 GA GA AA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA G
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA G
977956 GGCTCTAGAA
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 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):
GA
Found at i:982597 original size:11 final size:11
Alignment explanation
Indices: 982581--982617 Score: 56
Period size: 11 Copynumber: 3.4 Consensus size: 11
982571 ATATTGTGTA
982581 TTTTCAATTAC
1 TTTTCAATTAC
982592 TTTTCAATTAC
1 TTTTCAATTAC
* *
982603 ATCTCAATTAC
1 TTTTCAATTAC
982614 TTTT
1 TTTT
982618 TTCCAAGTTT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
11 22 1.00
ACGTcount: A:0.27, C:0.19, G:0.00, T:0.54
Consensus pattern (11 bp):
TTTTCAATTAC
Found at i:999722 original size:26 final size:26
Alignment explanation
Indices: 999682--999904 Score: 374
Period size: 26 Copynumber: 8.6 Consensus size: 26
999672 NNNNNNNNNN
999682 AGAGATAACAGGTGATACACAGACTC
1 AGAGATAACAGGTGATACACAGACTC
*
999708 AGAAATAACAGGTGATACACAGACTC
1 AGAGATAACAGGTGATACACAGACTC
* *
999734 ACAGATAAAAGGTGATACACAGACTC
1 AGAGATAACAGGTGATACACAGACTC
*
999760 AGAAATAACAGGTGATACACAGACTC
1 AGAGATAACAGGTGATACACAGACTC
999786 AGAGATAACAGGTGATACACAGACTC
1 AGAGATAACAGGTGATACACAGACTC
*
999812 AGAAATAACAGGTGATACACAGACTC
1 AGAGATAACAGGTGATACACAGACTC
999838 AGAGATAACAGGTGATACACAGACTC
1 AGAGATAACAGGTGATACACAGACTC
* *
999864 ACAGATAAAAGGTGATACACAGACTC
1 AGAGATAACAGGTGATACACAGACTC
*
999890 ACAGATAACAGGTGA
1 AGAGATAACAGGTGA
999905 AAGGGCAGAC
Statistics
Matches: 184, Mismatches: 13, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 184 1.00
ACGTcount: A:0.45, C:0.19, G:0.21, T:0.15
Consensus pattern (26 bp):
AGAGATAACAGGTGATACACAGACTC
Found at i:1002380 original size:26 final size:26
Alignment explanation
Indices: 1002351--1002565 Score: 331
Period size: 26 Copynumber: 8.2 Consensus size: 26
1002341 ACACTGAGAG
*
1002351 ATAACAGGTGAAACACAGACTCAGAA
1 ATAACAGGTGATACACAGACTCAGAA
* **
1002377 ATAACAGGTGAAAGGGCAGACTCAGAA
1 ATAACAGGTGATA-CACAGACTCAGAA
*
1002404 ATAACAGGTGATACACAGACTCAGAG
1 ATAACAGGTGATACACAGACTCAGAA
1002430 ATAACAGGTGATACACAGACTCAGAA
1 ATAACAGGTGATACACAGACTCAGAA
1002456 ATAACAGGTGATACACAGACTCAGAA
1 ATAACAGGTGATACACAGACTCAGAA
* *
1002482 ATAACAGGTGATACACAGACTCACAG
1 ATAACAGGTGATACACAGACTCAGAA
* *
1002508 ATAACAGGTGATACACAGACTCACAG
1 ATAACAGGTGATACACAGACTCAGAA
*
1002534 ATAACAGGTGATACACAGACTCACAA
1 ATAACAGGTGATACACAGACTCAGAA
1002560 ATAACA
1 ATAACA
1002566 AATGAAAGGG
Statistics
Matches: 178, Mismatches: 10, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
26 155 0.87
27 23 0.13
ACGTcount: A:0.46, C:0.20, G:0.20, T:0.14
Consensus pattern (26 bp):
ATAACAGGTGATACACAGACTCAGAA
Found at i:1010355 original size:23 final size:23
Alignment explanation
Indices: 1010329--1010403 Score: 64
Period size: 23 Copynumber: 3.2 Consensus size: 23
1010319 ATTGACCTGT
*
1010329 TGTTTACAGGAGTAAACTATAAG
1 TGTTTACAGGAGTAAACTACAAG
** *
1010352 TGTTCT-CATTAG-AACACTGACACAT
1 TGTT-TACAGGAGTAA-ACT-ACA-AG
1010377 TGTTTACAGGAGTAAACTACAAG
1 TGTTTACAGGAGTAAACTACAAG
1010400 TGTT
1 TGTT
1010404 CTCATTAGAA
Statistics
Matches: 39, Mismatches: 7, Indels: 12
0.67 0.12 0.21
Matches are distributed among these distances:
22 2 0.05
23 16 0.41
24 7 0.18
25 12 0.31
26 2 0.05
ACGTcount: A:0.35, C:0.15, G:0.19, T:0.32
Consensus pattern (23 bp):
TGTTTACAGGAGTAAACTACAAG
Found at i:1010380 original size:48 final size:48
Alignment explanation
Indices: 1010237--1010434 Score: 292
Period size: 48 Copynumber: 4.1 Consensus size: 48
1010227 TCTCATTTGG
* * *
1010237 TTACAAGAGTAAACTAAAAGTGTTCTCATAAGAACATTGACCTATTGT
1 TTACAGGAGTAAACTACAAGTGTTCTCATTAGAACATTGACCTATTGT
*
1010285 TTACAGGAGTAAACTACAAGT-TTCTCATTAGAACATTGACCTGTTGT
1 TTACAGGAGTAAACTACAAGTGTTCTCATTAGAACATTGACCTATTGT
* *
1010332 TTACAGGAGTAAACTATAAGTGTTCTCATTAGAACACTGACAC-ATTGT
1 TTACAGGAGTAAACTACAAGTGTTCTCATTAGAACATTGAC-CTATTGT
** *
1010380 TTACAGGAGTAAACTACAAGTGTTCTCATTAGAACATTGAATTGTTGT
1 TTACAGGAGTAAACTACAAGTGTTCTCATTAGAACATTGACCTATTGT
1010428 TTACAGG
1 TTACAGG
1010435 TGTTGGTGTG
Statistics
Matches: 135, Mismatches: 12, Indels: 6
0.88 0.08 0.04
Matches are distributed among these distances:
47 44 0.33
48 90 0.67
49 1 0.01
ACGTcount: A:0.35, C:0.15, G:0.17, T:0.33
Consensus pattern (48 bp):
TTACAGGAGTAAACTACAAGTGTTCTCATTAGAACATTGACCTATTGT
Found at i:1010400 original size:95 final size:96
Alignment explanation
Indices: 1010237--1010434 Score: 319
Period size: 95 Copynumber: 2.1 Consensus size: 96
1010227 TCTCATTTGG
* *
1010237 TTACAAGAGTAAACTAAAAGTGTTCTCATAAGAACATTGACCTATTGTTTACAGGAGTAAACTAC
1 TTACAGGAGTAAACTAAAAGTGTTCTCATAAGAACACTGACCTATTGTTTACAGGAGTAAACTAC
*
1010302 AAGT-TTCTCATTAGAACATTGACCTGTTGT
66 AAGTGTTCTCATTAGAACATTGAACTGTTGT
* *
1010332 TTACAGGAGTAAACTATAAGTGTTCTCATTAGAACACTGACAC-ATTGTTTACAGGAGTAAACTA
1 TTACAGGAGTAAACTAAAAGTGTTCTCATAAGAACACTGAC-CTATTGTTTACAGGAGTAAACTA
*
1010396 CAAGTGTTCTCATTAGAACATTGAATTGTTGT
65 CAAGTGTTCTCATTAGAACATTGAACTGTTGT
1010428 TTACAGG
1 TTACAGG
1010435 TGTTGGTGTG
Statistics
Matches: 95, Mismatches: 6, Indels: 3
0.91 0.06 0.03
Matches are distributed among these distances:
95 63 0.66
96 32 0.34
ACGTcount: A:0.35, C:0.15, G:0.17, T:0.33
Consensus pattern (96 bp):
TTACAGGAGTAAACTAAAAGTGTTCTCATAAGAACACTGACCTATTGTTTACAGGAGTAAACTAC
AAGTGTTCTCATTAGAACATTGAACTGTTGT
Found at i:1015511 original size:48 final size:49
Alignment explanation
Indices: 1015455--1015621 Score: 189
Period size: 48 Copynumber: 3.5 Consensus size: 49
1015445 GGACAGAGTA
* *
1015455 TAGAACATTGAACTGTTGTTTACAAAG-GTAAACTACAAGTGTTCCCAT
1 TAGAACATTGAACTGTTGTTTACAAGGAGTAAACTACAAGTGTTCTCAT
*
1015503 TAGAACATTGAACTGTTGTTTAC-AGGAGTAAACTATAAGT-TTCTCAT
1 TAGAACATTGAACTGTTGTTTACAAGGAGTAAACTACAAGTGTTCTCAT
* * * * ** * * *
1015550 AAGAAAACTGACCCATTGTTTA-TAGGAGTAAACTACAAATGTTCTAAT
1 TAGAACATTGAACTGTTGTTTACAAGGAGTAAACTACAAGTGTTCTCAT
*
1015598 TAGAACATTGAACTGTTTTTTACA
1 TAGAACATTGAACTGTTGTTTACA
1015622 GGTGTTGGTG
Statistics
Matches: 95, Mismatches: 20, Indels: 7
0.78 0.16 0.06
Matches are distributed among these distances:
47 39 0.41
48 56 0.59
ACGTcount: A:0.37, C:0.14, G:0.16, T:0.34
Consensus pattern (49 bp):
TAGAACATTGAACTGTTGTTTACAAGGAGTAAACTACAAGTGTTCTCAT
Found at i:1016862 original size:62 final size:62
Alignment explanation
Indices: 1016718--1018661 Score: 2991
Period size: 62 Copynumber: 31.4 Consensus size: 62
1016708 GAATGCTGGT
* * * * *
1016718 AAGTCACAAATATATGTC-AGTGTCTGTGAGAGTGGGCTTATATAGGAGGGAATTAATGCAAGC
1 AAGTCACTAATATATGTCAAG-ATCTGTTAGAGTGGGCTTATATA-GAGGGGATAAATGCAAGC
* * **
1016781 TAGTCACTAATATATGTCAAGATCTGTTAGAGTGGGCTTATATGGAGAAGATAAATGCAAGC
1 AAGTCACTAATATATGTCAAGATCTGTTAGAGTGGGCTTATATAGAGGGGATAAATGCAAGC
* * *
1016843 AAGTCACTAATATATGTCAAGATCTGTAAGATTGGGCTTATATAGAGAGGATAAATGCAAGC
1 AAGTCACTAATATATGTCAAGATCTGTTAGAGTGGGCTTATATAGAGGGGATAAATGCAAGC
* * *
1016905 AAGTAACTAATGTATGTCAAGATCTGTTAGAGTGGGTTTATATAGAGGGGATAAATGCAAGC
1 AAGTCACTAATATATGTCAAGATCTGTTAGAGTGGGCTTATATAGAGGGGATAAATGCAAGC
* * *
1016967 TAGTCACTAATATATGTCAAGATCTGTAAGAATGGGCTTATATAGAGGGGATAAATGCAAGC
1 AAGTCACTAATATATGTCAAGATCTGTTAGAGTGGGCTTATATAGAGGGGATAAATGCAAGC
* * *
1017029 AAGTCACTTATATATGTCAAGATCTGTAAGAATGGGCTTATATAGAGGGGATAAATGCAAGC
1 AAGTCACTAATATATGTCAAGATCTGTTAGAGTGGGCTTATATAGAGGGGATAAATGCAAGC
* * * *
1017091 AAGTCACTAATATATGTCAAAATCTGTGAGAGTAGGCTTATATAGAGAGGATAAATGCAAGC
1 AAGTCACTAATATATGTCAAGATCTGTTAGAGTGGGCTTATATAGAGGGGATAAATGCAAGC
* * *
1017153 TAGTCACTAATGTATGTCAAGATCTGTTAGAGTGGGCTTATATAG-GGAAGATAAATGCAAGC
1 AAGTCACTAATATATGTCAAGATCTGTTAGAGTGGGCTTATATAGAGG-GGATAAATGCAAGC
*
1017215 AAGTCACTAATATATGTCAAGATCTGTTAGAGTGGGCTTATATAGAGAGGATAAATGCAAGC
1 AAGTCACTAATATATGTCAAGATCTGTTAGAGTGGGCTTATATAGAGGGGATAAATGCAAGC
* * * *
1017277 AAGTCACTAATATATGTCAAGATATGTCAGAGAGGGATTATATAGAGGGGATAAATGCAAGC
1 AAGTCACTAATATATGTCAAGATCTGTTAGAGTGGGCTTATATAGAGGGGATAAATGCAAGC
* * **
1017339 AAGTCACTAATTTATGTCAAGATATGTTAGAGTGGGCTTATATAGAGGGGATTGATGCAAGC
1 AAGTCACTAATATATGTCAAGATCTGTTAGAGTGGGCTTATATAGAGGGGATAAATGCAAGC
* *
1017401 AAGTCACTAATGTATGTCAAGATCTGTTAGAGTGGGCTTATATAGAGGGGATTAATGCAAGC
1 AAGTCACTAATATATGTCAAGATCTGTTAGAGTGGGCTTATATAGAGGGGATAAATGCAAGC
*
1017463 AAGTCACTAATATATGTCAAGATCTGTTAGAGTGGGCTTATATAGAGGGGATTAATGCAAGC
1 AAGTCACTAATATATGTCAAGATCTGTTAGAGTGGGCTTATATAGAGGGGATAAATGCAAGC
* * *
1017525 AAGTCACTAATGTATGTCAAGATCTGGTAGAGTGGGCTTATATAG-GGGGATTAATGCAAGC
1 AAGTCACTAATATATGTCAAGATCTGTTAGAGTGGGCTTATATAGAGGGGATAAATGCAAGC
* * *
1017586 AAGTCACTAATATATGTCAGGATCTGTTAGAGTGGGCTTAT-TAAGGGGGGATTAATGCAAGC
1 AAGTCACTAATATATGTCAAGATCTGTTAGAGTGGGCTTATAT-AGAGGGGATAAATGCAAGC
* * *
1017648 AAGTCACTAATATATGTCAAGATCTGTGAGAGTGGGCTTATATAGAGGGAATTAATGCAAGC
1 AAGTCACTAATATATGTCAAGATCTGTTAGAGTGGGCTTATATAGAGGGGATAAATGCAAGC
*
1017710 AAGTCACTAATGTATGTCAAGATCTGTTAGAGTGGGCTTATATAGAGGGGATAAATGCAAGC
1 AAGTCACTAATATATGTCAAGATCTGTTAGAGTGGGCTTATATAGAGGGGATAAATGCAAGC
* * * *
1017772 AAGTCACTAATTTATGTCAAGATCTGTTAGAGTAGGCTTTTATAGAGAGGATAAATGCAAGC
1 AAGTCACTAATATATGTCAAGATCTGTTAGAGTGGGCTTATATAGAGGGGATAAATGCAAGC
* * *
1017834 AAGTAACTAATCA-ATGTCAAGATCTGTGAGAGTGGGCTAATATAGAGGGGATAAATGCAAGC
1 AAGTCACTAAT-ATATGTCAAGATCTGTTAGAGTGGGCTTATATAGAGGGGATAAATGCAAGC
* * *
1017896 AAGTCACTAATTTATGTCAAGATGTGTTAGAGTGGGCTTATATAGAGAGGATAAATGCAAGC
1 AAGTCACTAATATATGTCAAGATCTGTTAGAGTGGGCTTATATAGAGGGGATAAATGCAAGC
*
1017958 AAGTCACTAATATATGTCAAGATCTGTTAGAGTGGGCTTATATAGAGAGGATAAATGCAAGC
1 AAGTCACTAATATATGTCAAGATCTGTTAGAGTGGGCTTATATAGAGGGGATAAATGCAAGC
* * * *
1018020 TAGTCACTAATATATTTCAAGATGTGTTAGAGTGGGCTTATATAGAGAGGATAAATGCAAGC
1 AAGTCACTAATATATGTCAAGATCTGTTAGAGTGGGCTTATATAGAGGGGATAAATGCAAGC
* * *
1018082 AAGTCACTAATATATGTCAAGATATGTCAGAGAGGGCTTATATAGAGGGGATAAATGCAAGC
1 AAGTCACTAATATATGTCAAGATCTGTTAGAGTGGGCTTATATAGAGGGGATAAATGCAAGC
* * * *
1018144 TAGTCACTAATATATTTCAAGATCTGTTAGACTGGGCTTATATAGAGAGGATAAATGCAAGC
1 AAGTCACTAATATATGTCAAGATCTGTTAGAGTGGGCTTATATAGAGGGGATAAATGCAAGC
* * *
1018206 AAGGCACTAATATATATCAAAATCTGTTAGAGTGGGCTTATATAGAGGGGATAAATGCAAGC
1 AAGTCACTAATATATGTCAAGATCTGTTAGAGTGGGCTTATATAGAGGGGATAAATGCAAGC
* * * * *
1018268 TAGTCACTAATATATGTCAAGATTTGTTAGAGAGGGCTTATATATAGAGGATAAATGCAAGC
1 AAGTCACTAATATATGTCAAGATCTGTTAGAGTGGGCTTATATAGAGGGGATAAATGCAAGC
*
1018330 AAGTCACTAATATATGTCAAGATGTGTTAGAGT-GGCTTATATAGAGGGGATAAATGCAAGC
1 AAGTCACTAATATATGTCAAGATCTGTTAGAGTGGGCTTATATAGAGGGGATAAATGCAAGC
* * *
1018391 AAGTCACTAATATATGTCAAGATGTGTTAGAGTGGGCTTATATAGAGGGAATTAATGCAAGC
1 AAGTCACTAATATATGTCAAGATCTGTTAGAGTGGGCTTATATAGAGGGGATAAATGCAAGC
* *
1018453 AAGTCACTAATATATGTCAAGATCTGTTAGAATGGGCTTATATAGAGAGGATAAATGCAAGC
1 AAGTCACTAATATATGTCAAGATCTGTTAGAGTGGGCTTATATAGAGGGGATAAATGCAAGC
* * *
1018515 AAGTCACTAATATATGTCAAGATATGTCAGAGAGGGCTTATATAGAGGGGATAAATGCAAGC
1 AAGTCACTAATATATGTCAAGATCTGTTAGAGTGGGCTTATATAGAGGGGATAAATGCAAGC
*
1018577 AAGTCACTAATATATGTCAAGATGTGTTAGAGTGGGCTTATATAGAGGGGATAAATGCAAGC
1 AAGTCACTAATATATGTCAAGATCTGTTAGAGTGGGCTTATATAGAGGGGATAAATGCAAGC
1018639 AAGTCACTAATATATGTCAAGAT
1 AAGTCACTAATATATGTCAAGAT
1018662 NNNNNNNNNN
Statistics
Matches: 1730, Mismatches: 142, Indels: 19
0.91 0.08 0.01
Matches are distributed among these distances:
60 1 0.00
61 116 0.07
62 1573 0.91
63 38 0.02
64 2 0.00
ACGTcount: A:0.36, C:0.11, G:0.25, T:0.28
Consensus pattern (62 bp):
AAGTCACTAATATATGTCAAGATCTGTTAGAGTGGGCTTATATAGAGGGGATAAATGCAAGC
Found at i:1017237 original size:33 final size:33
Alignment explanation
Indices: 1017200--1017300 Score: 77
Period size: 33 Copynumber: 3.2 Consensus size: 33
1017190 TTATATAGGG
1017200 AAGATAAATGCAAGCAAGTCACTAATATATGTC
1 AAGATAAATGCAAGCAAGTCACTAATATATGTC
* ** ** * **
1017233 AAGAT--CTGTTAG--AGTGGGCTTATATA-GAG
1 AAGATAAATGCAAGCAAGT-CACTAATATATGTC
*
1017262 AGGATAAATGCAAGCAAGTCACTAATATATGTC
1 AAGATAAATGCAAGCAAGTCACTAATATATGTC
1017295 AAGATA
1 AAGATA
1017301 TGTCAGAGAG
Statistics
Matches: 44, Mismatches: 18, Indels: 12
0.59 0.24 0.16
Matches are distributed among these distances:
29 8 0.18
30 7 0.16
31 8 0.18
32 7 0.16
33 14 0.32
ACGTcount: A:0.42, C:0.12, G:0.21, T:0.26
Consensus pattern (33 bp):
AAGATAAATGCAAGCAAGTCACTAATATATGTC
Found at i:1020878 original size:35 final size:35
Alignment explanation
Indices: 1020838--1021990 Score: 1285
Period size: 35 Copynumber: 33.5 Consensus size: 35
1020828 TACTACCTTT
*
1020838 TACTCCTCTAATGTATCACAGTGCCCACTTA-CTGG
1 TACTCCTCTAATGTATCATAGTGCCCAC-TACCTGG
*
1020873 TACTCCTCTAATGTATCATAGTGTCCACTACCTGG
1 TACTCCTCTAATGTATCATAGTGCCCACTACCTGG
*
1020908 TACTCCTCTAATGTATCATAGTGCCCACTACCTAG
1 TACTCCTCTAATGTATCATAGTGCCCACTACCTGG
* * *
1020943 TACTCATGTAATGTATCATAGTGCCCACTATCTGG
1 TACTCCTCTAATGTATCATAGTGCCCACTACCTGG
*
1020978 TACTCCTC-------T-A-AGTGCCAACTACCTGG
1 TACTCCTCTAATGTATCATAGTGCCCACTACCTGG
* * * * *
1021004 TGCTCCTCTAGTGTATCATAATGCCAACTACCTTG
1 TACTCCTCTAATGTATCATAGTGCCCACTACCTGG
* * *
1021039 TACTTCTCTAATGTATCATAGTGTCAACTACCTGG
1 TACTCCTCTAATGTATCATAGTGCCCACTACCTGG
* *
1021074 TACTCCTCTAATGTATCATAGCGCCCACTACATGG
1 TACTCCTCTAATGTATCATAGTGCCCACTACCTGG
* * * * *
1021109 TACTCCTCTATTATAT-ATTAGTGTCTACTACCTTG
1 TACTCCTCTAATGTATCA-TAGTGCCCACTACCTGG
**
1021144 TACTCCTCTAATGTATCATAGTGCCCACTACCTTT
1 TACTCCTCTAATGTATCATAGTGCCCACTACCTGG
* *
1021179 TACTCCTCTAATATATCATAGTGCCCACTACCTTG
1 TACTCCTCTAATGTATCATAGTGCCCACTACCTGG
* *
1021214 TACTTCTCTAATGTATCATAGTGTCCACTACCTGG
1 TACTCCTCTAATGTATCATAGTGCCCACTACCTGG
*
1021249 TGCTCCTCTAATGTATCATAGTGCCCACTACCTGG
1 TACTCCTCTAATGTATCATAGTGCCCACTACCTGG
* * * *
1021284 TACTCCTCTAATATATCATAGTGGCTATTACCTGG
1 TACTCCTCTAATGTATCATAGTGCCCACTACCTGG
1021319 TACTCCTCTTAA-GTATCAGT-GTGCCCACTACCTGG
1 TACTCCTC-TAATGTATCA-TAGTGCCCACTACCTGG
* *
1021354 TACTCCTCTAATATATCATAGTACCCACTACCTGG
1 TACTCCTCTAATGTATCATAGTGCCCACTACCTGG
*
1021389 TACTCCTCTAATGTATCATAGTGCCCACTACCTAG
1 TACTCCTCTAATGTATCATAGTGCCCACTACCTGG
* * *
1021424 TACTCATGTAATGTATCATAGTGCCCACTATCTGG
1 TACTCCTCTAATGTATCATAGTGCCCACTACCTGG
1021459 TACTCCTC-------T-A-AGTGCCCACTACCTGG
1 TACTCCTCTAATGTATCATAGTGCCCACTACCTGG
* * * * *
1021485 TGCTCCTTTAGTGTATCATAATGCCCACTACCTTG
1 TACTCCTCTAATGTATCATAGTGCCCACTACCTGG
* *
1021520 TACTTCTCTAATGTATCATAGTGTCCACTACCTGG
1 TACTCCTCTAATGTATCATAGTGCCCACTACCTGG
* **
1021555 TACTCCTCTAATGTATCATAGCGCCCACTACAGGG
1 TACTCCTCTAATGTATCATAGTGCCCACTACCTGG
* * ** * *
1021590 TACTTCTCTAATATAT-ATTAAAGTCTACTACCTGG
1 TACTCCTCTAATGTATCA-TAGTGCCCACTACCTGG
** *
1021625 TACTCCTCTAATGTATCATAAAGCCCACTACCTTG
1 TACTCCTCTAATGTATCATAGTGCCCACTACCTGG
* * * *
1021660 TACTTCTTTAATGAATCATAGTGTCCACTACCTGG
1 TACTCCTCTAATGTATCATAGTGCCCACTACCTGG
* *
1021695 TGCTCCTCTAATGTATCATAGAGCCCACTACCTGG
1 TACTCCTCTAATGTATCATAGTGCCCACTACCTGG
* * * *
1021730 TACTCCTCTAATATATCATAGTGGCTATTACCTGG
1 TACTCCTCTAATGTATCATAGTGCCCACTACCTGG
* * *
1021765 TATTCCTTTAAAGTATCAGT-GTGCCCACTACCTGG
1 TACTCCTCTAATGTATCA-TAGTGCCCACTACCTGG
* * *
1021800 TACTCCTCTACTGTATCATAGTACCCACCACCTGG
1 TACTCCTCTAATGTATCATAGTGCCCACTACCTGG
* *
1021835 TATTCCTCTAATGTATCATAGTGCCTACTACCTGG
1 TACTCCTCTAATGTATCATAGTGCCCACTACCTGG
* * *
1021870 TACTCCTCTAATATATCATAGTGGCTACTACCTGG
1 TACTCCTCTAATGTATCATAGTGCCCACTACCTGG
* * *
1021905 TACTCCTATAATGTAACATATTGCCCACTACCTGG
1 TACTCCTCTAATGTATCATAGTGCCCACTACCTGG
* * *
1021940 TGCTCCGT-TAATGCATCATAGTGCCCACTACCTAG
1 TACTCC-TCTAATGTATCATAGTGCCCACTACCTGG
* *
1021975 TACTCCTTTTATGTAT
1 TACTCCTCTAATGTAT
1021991 TTAGTATAAT
Statistics
Matches: 936, Mismatches: 151, Indels: 62
0.81 0.13 0.05
Matches are distributed among these distances:
26 42 0.04
27 2 0.00
28 2 0.00
33 2 0.00
34 12 0.01
35 868 0.93
36 8 0.01
ACGTcount: A:0.24, C:0.28, G:0.14, T:0.34
Consensus pattern (35 bp):
TACTCCTCTAATGTATCATAGTGCCCACTACCTGG
Found at i:1020998 original size:26 final size:26
Alignment explanation
Indices: 1020962--1021013 Score: 77
Period size: 26 Copynumber: 2.0 Consensus size: 26
1020952 AATGTATCAT
* *
1020962 AGTGCCCACTATCTGGTACTCCTCTA
1 AGTGCCAACTACCTGGTACTCCTCTA
*
1020988 AGTGCCAACTACCTGGTGCTCCTCTA
1 AGTGCCAACTACCTGGTACTCCTCTA
1021014 GTGTATCATA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.19, C:0.35, G:0.17, T:0.29
Consensus pattern (26 bp):
AGTGCCAACTACCTGGTACTCCTCTA
Found at i:1025038 original size:23 final size:23
Alignment explanation
Indices: 1025008--1025058 Score: 102
Period size: 23 Copynumber: 2.2 Consensus size: 23
1024998 TTAATGCAGC
1025008 AAACACGACCGAAAATGAAACAA
1 AAACACGACCGAAAATGAAACAA
1025031 AAACACGACCGAAAATGAAACAA
1 AAACACGACCGAAAATGAAACAA
1025054 AAACA
1 AAACA
1025059 AAAGTTGTGT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 28 1.00
ACGTcount: A:0.63, C:0.22, G:0.12, T:0.04
Consensus pattern (23 bp):
AAACACGACCGAAAATGAAACAA
Found at i:1026782 original size:23 final size:20
Alignment explanation
Indices: 1026740--1026783 Score: 52
Period size: 20 Copynumber: 2.0 Consensus size: 20
1026730 GTTTTATATG
*
1026740 TTATTGTATTAAAAAATGTA
1 TTATTGTATAAAAAAATGTA
1026760 TTATTGTATCAAATAAAATTGTA
1 TTATTGTAT-AAA-AAAA-TGTA
1026783 T
1 T
1026784 CATATGATAA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
20 9 0.45
21 2 0.10
22 4 0.20
23 5 0.25
ACGTcount: A:0.43, C:0.02, G:0.09, T:0.45
Consensus pattern (20 bp):
TTATTGTATAAAAAAATGTA
Found at i:1032543 original size:21 final size:21
Alignment explanation
Indices: 1032517--1032567 Score: 68
Period size: 21 Copynumber: 2.4 Consensus size: 21
1032507 ATGTTAAATA
*
1032517 GTTCGTGTAACGTG-GGTGATC
1 GTTCGTGTAACCTGCGG-GATC
1032538 GTTCGTGTAACCTGCGGGATC
1 GTTCGTGTAACCTGCGGGATC
*
1032559 GTGCGTGTA
1 GTTCGTGTA
1032568 TCAGGAAAAT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
21 25 0.93
22 2 0.07
ACGTcount: A:0.14, C:0.18, G:0.37, T:0.31
Consensus pattern (21 bp):
GTTCGTGTAACCTGCGGGATC
Found at i:1033572 original size:21 final size:20
Alignment explanation
Indices: 1033546--1033584 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 20
1033536 CAGTAAGTTA
1033546 GTGATCGTCCGTGTATCGTGC
1 GTGATCGTCCGTG-ATCGTGC
*
1033567 GTGATCGTGCGTGATCGT
1 GTGATCGTCCGTGATCGT
1033585 TCCTGTATCA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 5 0.29
21 12 0.71
ACGTcount: A:0.10, C:0.21, G:0.36, T:0.33
Consensus pattern (20 bp):
GTGATCGTCCGTGATCGTGC
Found at i:1033575 original size:10 final size:10
Alignment explanation
Indices: 1033546--1033584 Score: 60
Period size: 10 Copynumber: 3.8 Consensus size: 10
1033536 CAGTAAGTTA
*
1033546 GTGATCGTCC
1 GTGATCGTGC
1033556 GTGTATCGTGC
1 GTG-ATCGTGC
1033567 GTGATCGTGC
1 GTGATCGTGC
1033577 GTGATCGT
1 GTGATCGT
1033585 TCCTGTATCA
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
10 18 0.67
11 9 0.33
ACGTcount: A:0.10, C:0.21, G:0.36, T:0.33
Consensus pattern (10 bp):
GTGATCGTGC
Found at i:1045199 original size:36 final size:36
Alignment explanation
Indices: 1045152--1045515 Score: 521
Period size: 36 Copynumber: 10.1 Consensus size: 36
1045142 GGTGGTGCAT
*
1045152 TTAAATATGTAGGTGTTTTTGTAGTAATACCGAGGA
1 TTAAATATGTAGGTGTCTTTGTAGTAATACCGAGGA
* * *
1045188 TTAAAAATGTAGGTGACTTTGTAGTAATACCGATGA
1 TTAAATATGTAGGTGTCTTTGTAGTAATACCGAGGA
* * *
1045224 TTAACTATGTAGGTGTCCTTGTAGTAATGCCGAGGA
1 TTAAATATGTAGGTGTCTTTGTAGTAATACCGAGGA
* *
1045260 TTAAATATATAGGTGTCTTTGTAGTAATACCGATGA
1 TTAAATATGTAGGTGTCTTTGTAGTAATACCGAGGA
* *
1045296 TTAAATATGTAAGTGTCTTTGTAGTAATACCCAGGA
1 TTAAATATGTAGGTGTCTTTGTAGTAATACCGAGGA
* * * *
1045332 TTAAATATATAGGTTTCTTTCTAGTAATACCAAGGA
1 TTAAATATGTAGGTGTCTTTGTAGTAATACCGAGGA
*
1045368 TTAAATATGTAAGTGTCTTTGTAGTAATACCGAGGA
1 TTAAATATGTAGGTGTCTTTGTAGTAATACCGAGGA
*
1045404 TTAAATATTTAGGTGTCTTTGTAGTAATACCGAGGA
1 TTAAATATGTAGGTGTCTTTGTAGTAATACCGAGGA
* *
1045440 TTAAATATGTAAGCGTCTTTGTAGTAATACCGAGGA
1 TTAAATATGTAGGTGTCTTTGTAGTAATACCGAGGA
* * * *
1045476 TTTAATAAGTAGGTATCTTTGTAGTAATACCGAGGT
1 TTAAATATGTAGGTGTCTTTGTAGTAATACCGAGGA
1045512 TTAA
1 TTAA
1045516 GAAATGAATT
Statistics
Matches: 287, Mismatches: 41, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
36 287 1.00
ACGTcount: A:0.32, C:0.09, G:0.21, T:0.37
Consensus pattern (36 bp):
TTAAATATGTAGGTGTCTTTGTAGTAATACCGAGGA
Found at i:1045648 original size:22 final size:22
Alignment explanation
Indices: 1045621--1045760 Score: 253
Period size: 22 Copynumber: 6.4 Consensus size: 22
1045611 CGAAGTTTGA
*
1045621 ATTATTTCAGTCTGTGTATATT
1 ATTATTTCAGACTGTGTATATT
*
1045643 ATTATTTCAGGCTGTGTATATT
1 ATTATTTCAGACTGTGTATATT
1045665 ATTATTTCAGACTGTGTATATT
1 ATTATTTCAGACTGTGTATATT
1045687 ATTATTTCAGACTGTGTATATT
1 ATTATTTCAGACTGTGTATATT
1045709 ATTATTTCAGACTGTGTATATT
1 ATTATTTCAGACTGTGTATATT
*
1045731 ATTATTTCAGTCTGTGTATATT
1 ATTATTTCAGACTGTGTATATT
1045753 ATTATTTC
1 ATTATTTC
1045761 TTCGTTTTAA
Statistics
Matches: 115, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
22 115 1.00
ACGTcount: A:0.25, C:0.09, G:0.14, T:0.52
Consensus pattern (22 bp):
ATTATTTCAGACTGTGTATATT
Found at i:1046876 original size:2 final size:2
Alignment explanation
Indices: 1046871--1046898 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
1046861 TGGAGACAGT
1046871 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
1046899 TATTATGGGA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
GA
Found at i:1054710 original size:12 final size:12
Alignment explanation
Indices: 1054680--1054744 Score: 58
Period size: 12 Copynumber: 5.4 Consensus size: 12
1054670 AATCGAAGTG
*
1054680 GGACAGACAGAC
1 GGACGGACAGAC
* *
1054692 AGACGGACGGAC
1 GGACGGACAGAC
1054704 GGACGGACAGAC
1 GGACGGACAGAC
** *
1054716 AAACGGACAAAC
1 GGACGGACAGAC
* *
1054728 GTACGGACTGAC
1 GGACGGACAGAC
1054740 GGACG
1 GGACG
1054745 CAGAGGAAAG
Statistics
Matches: 40, Mismatches: 13, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
12 40 1.00
ACGTcount: A:0.37, C:0.25, G:0.35, T:0.03
Consensus pattern (12 bp):
GGACGGACAGAC
Found at i:1061594 original size:35 final size:35
Alignment explanation
Indices: 1061555--1061705 Score: 159
Period size: 35 Copynumber: 4.4 Consensus size: 35
1061545 TTAAACCTGA
*
1061555 TGTCAACCCAGGTTCCATTCCTTAAATCCCGATGG
1 TGTCAACCCGGGTTCCATTCCTTAAATCCCGATGG
**
1061590 TGTCAACCCGGGAACCATTCCTTAAATCCCGATGG
1 TGTCAACCCGGGTTCCATTCCTTAAATCCCGATGG
* *
1061625 TGTCAACCCGGGAATT--ACTCTTTAAATCCCGATGG
1 TGTCAACCCGGG--TTCCATTCCTTAAATCCCGATGG
** * * *
1061660 TGTCAACCCGGGAGCCATT-ATT-AA-CCCGACGA
1 TGTCAACCCGGGTTCCATTCCTTAAATCCCGATGG
1061692 TGTCAACCCGGGTT
1 TGTCAACCCGGGTT
1061706 TCTTAAGTAC
Statistics
Matches: 97, Mismatches: 15, Indels: 11
0.79 0.12 0.09
Matches are distributed among these distances:
32 18 0.19
33 2 0.02
34 2 0.02
35 75 0.77
ACGTcount: A:0.25, C:0.30, G:0.21, T:0.25
Consensus pattern (35 bp):
TGTCAACCCGGGTTCCATTCCTTAAATCCCGATGG
Found at i:1061656 original size:70 final size:67
Alignment explanation
Indices: 1061576--1061703 Score: 193
Period size: 70 Copynumber: 1.9 Consensus size: 67
1061566 GTTCCATTCC
* * *
1061576 TTAAATCCCGATGGTGTCAACCCGGGAACCATTCCTTAAATCCCGATGGTGTCAACCCGGGAATT
1 TTAAATCCCGATGGTGTCAACCCGGGAACCATT-ATT-AA-CCCGACGATGTCAACCCGGGAATT
1061641 ACTCT
63 ACTCT
*
1061646 TTAAATCCCGATGGTGTCAACCCGGGAGCCATTATTAACCCGACGATGTCAACCCGGG
1 TTAAATCCCGATGGTGTCAACCCGGGAACCATTATTAACCCGACGATGTCAACCCGGG
1061704 TTTCTTAAGT
Statistics
Matches: 54, Mismatches: 4, Indels: 3
0.89 0.07 0.05
Matches are distributed among these distances:
67 18 0.33
68 2 0.04
69 2 0.04
70 32 0.59
ACGTcount: A:0.26, C:0.29, G:0.22, T:0.23
Consensus pattern (67 bp):
TTAAATCCCGATGGTGTCAACCCGGGAACCATTATTAACCCGACGATGTCAACCCGGGAATTACT
CT
Done.