Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: CP032248.1 Gossypioides kirkii chromosome KI_06
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 60359545
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 900 characters in sequence are not A, C, G, or T
File 97 of 193
Found at i:31281960 original size:6 final size:6
Alignment explanation
Indices: 31281949--31281986 Score: 51
Period size: 6 Copynumber: 6.5 Consensus size: 6
31281939 GATGGCTGTT
* *
31281949 GGATGA GGATGA GGATGA GGATGA GTAGGA -GATGA GGA
1 GGATGA GGATGA GGATGA GGATGA GGATGA GGATGA GGA
31281987 AGGTGGGGAG
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
5 3 0.11
6 24 0.89
ACGTcount: A:0.34, C:0.00, G:0.50, T:0.16
Consensus pattern (6 bp):
GGATGA
Found at i:31283431 original size:248 final size:248
Alignment explanation
Indices: 31282993--31283480 Score: 967
Period size: 248 Copynumber: 2.0 Consensus size: 248
31282983 ATTAACTTCC
31282993 TATCTATGATTATGCATATGCATAAAACAATCCTCTTTAAAGTATTACAAAATTCTAGAACTCTA
1 TATCTATGATTATGCATATGCATAAAACAATCCTCTTTAAAGTATTACAAAATTCTAGAACTCTA
*
31283058 CATTTGTATCGAAGTTCCTTTGCAGTTTCAGTCTTTTCATATGACAGGATTTGCTTTGATGCAAA
66 CATTTGTATCGAAGTTCCTTTGCAGTTTCAGTCCTTTCATATGACAGGATTTGCTTTGATGCAAA
31283123 CTATTTCAGATCAGTTCCAACATCAAGATAAACTGGAGATTTCGAGTTCCATGGAAATATGCTCA
131 CTATTTCAGATCAGTTCCAACATCAAGATAAACTGGAGATTTCGAGTTCCATGGAAATATGCTCA
31283188 CGATCTATAACGGTAAAGACAGAAACCAAGTCTAGGCTCTATAGTTACATTTG
196 CGATCTATAACGGTAAAGACAGAAACCAAGTCTAGGCTCTATAGTTACATTTG
31283241 TATCTATGATTATGCATATGCATAAAACAATCCTCTTTAAAGTATTACAAAATTCTAGAACTCTA
1 TATCTATGATTATGCATATGCATAAAACAATCCTCTTTAAAGTATTACAAAATTCTAGAACTCTA
31283306 CATTTGTATCGAAGTTCCTTTGCAGTTTCAGTCCTTTCATATGACAGGATTTGCTTTGATGCAAA
66 CATTTGTATCGAAGTTCCTTTGCAGTTTCAGTCCTTTCATATGACAGGATTTGCTTTGATGCAAA
31283371 CTATTTCAGATCAGTTCCAACATCAAGATAAACTGGAGATTTCGAGTTCCATGGAAATATGCTCA
131 CTATTTCAGATCAGTTCCAACATCAAGATAAACTGGAGATTTCGAGTTCCATGGAAATATGCTCA
31283436 CGATCTATAACGGTAAAGACAGAAACCAAGTCTAGGCTCTATAGT
196 CGATCTATAACGGTAAAGACAGAAACCAAGTCTAGGCTCTATAGT
31283481 GGTCTTTGGG
Statistics
Matches: 239, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
248 239 1.00
ACGTcount: A:0.33, C:0.18, G:0.15, T:0.33
Consensus pattern (248 bp):
TATCTATGATTATGCATATGCATAAAACAATCCTCTTTAAAGTATTACAAAATTCTAGAACTCTA
CATTTGTATCGAAGTTCCTTTGCAGTTTCAGTCCTTTCATATGACAGGATTTGCTTTGATGCAAA
CTATTTCAGATCAGTTCCAACATCAAGATAAACTGGAGATTTCGAGTTCCATGGAAATATGCTCA
CGATCTATAACGGTAAAGACAGAAACCAAGTCTAGGCTCTATAGTTACATTTG
Found at i:31306142 original size:82 final size:83
Alignment explanation
Indices: 31306055--31306210 Score: 192
Period size: 80 Copynumber: 1.9 Consensus size: 83
31306045 TTATAATATT
* * * * * *
31306055 AAATATGATTTTATTATTTTAATAGTTTATATTTTTATAA-TTTTTAAAAA-ATTAAAT-TAAAT
1 AAATATAATTTTA-T-TTTTAATAATTTAAAATTTTAAAATTTTTTAAAAAGATTAAATGAAAAT
31306117 TTTTATATTTTTAGTGGTTA
64 TTTTATATTTTTAGTGGTTA
* *
31306137 AAATATAATTTTATTTTTATTAATTTAAAATTTTAAAATTTTTTAAAAAGTTTAAATGAAAATTT
1 AAATATAATTTTATTTTTAATAATTTAAAATTTTAAAATTTTTTAAAAAGATTAAATGAAAATTT
*
31306202 TTTTATTTT
66 TTATATTTT
31306211 ATGTAGGGTT
Statistics
Matches: 62, Mismatches: 9, Indels: 5
0.82 0.12 0.07
Matches are distributed among these distances:
80 19 0.31
81 11 0.18
82 18 0.29
83 14 0.23
ACGTcount: A:0.40, C:0.00, G:0.04, T:0.56
Consensus pattern (83 bp):
AAATATAATTTTATTTTTAATAATTTAAAATTTTAAAATTTTTTAAAAAGATTAAATGAAAATTT
TTATATTTTTAGTGGTTA
Found at i:31306315 original size:15 final size:15
Alignment explanation
Indices: 31306292--31306325 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
31306282 AAACGGATAA
31306292 AATAATTATTTTTAT
1 AATAATTATTTTTAT
* *
31306307 AATAGTTATTTTTTT
1 AATAATTATTTTTAT
31306322 AATA
1 AATA
31306326 TATTGATGTG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.38, C:0.00, G:0.03, T:0.59
Consensus pattern (15 bp):
AATAATTATTTTTAT
Found at i:31306746 original size:23 final size:24
Alignment explanation
Indices: 31306720--31306764 Score: 56
Period size: 23 Copynumber: 1.9 Consensus size: 24
31306710 TTTTAAATGA
31306720 ATATGAATATAATTTAA-ATAATT
1 ATATGAATATAATTTAATATAATT
* * *
31306743 ATATTAATTTATTTTAATATAA
1 ATATGAATATAATTTAATATAA
31306765 ATAAATTTTC
Statistics
Matches: 18, Mismatches: 3, Indels: 1
0.82 0.14 0.05
Matches are distributed among these distances:
23 14 0.78
24 4 0.22
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (24 bp):
ATATGAATATAATTTAATATAATT
Found at i:31307199 original size:3 final size:3
Alignment explanation
Indices: 31307191--31307217 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
31307181 TTTAAATGTA
31307191 TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT
31307218 AAGGTCTTAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:31307407 original size:28 final size:27
Alignment explanation
Indices: 31307375--31307436 Score: 81
Period size: 28 Copynumber: 2.3 Consensus size: 27
31307365 AAAATTTTAC
*
31307375 AAATTAAATGATTTAAC-TATCGAAAAAG
1 AAATTAAATAATTTAACAT-TC-AAAAAG
*
31307403 AAATTAAGTAATTTAACATTCAAAAAG
1 AAATTAAATAATTTAACATTCAAAAAG
31307430 AAATTAA
1 AAATTAA
31307437 GTTATTTATC
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
27 13 0.42
28 17 0.55
29 1 0.03
ACGTcount: A:0.56, C:0.06, G:0.08, T:0.29
Consensus pattern (27 bp):
AAATTAAATAATTTAACATTCAAAAAG
Found at i:31307435 original size:27 final size:28
Alignment explanation
Indices: 31307375--31307444 Score: 90
Period size: 27 Copynumber: 2.5 Consensus size: 28
31307365 AAAATTTTAC
* *
31307375 AAATTAAATGATTTAACTATCGAAAAAG
1 AAATTAAGTAATTTAACTATCGAAAAAG
31307403 AAATTAAGTAATTTAAC-ATTC-AAAAAG
1 AAATTAAGTAATTTAACTA-TCGAAAAAG
*
31307430 AAATTAAGTTATTTA
1 AAATTAAGTAATTTA
31307445 TCTAATTTAA
Statistics
Matches: 38, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
27 21 0.55
28 17 0.45
ACGTcount: A:0.53, C:0.06, G:0.09, T:0.33
Consensus pattern (28 bp):
AAATTAAGTAATTTAACTATCGAAAAAG
Found at i:31352870 original size:14 final size:13
Alignment explanation
Indices: 31352845--31352869 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
31352835 AGCTATCCAA
31352845 GATTTGTTTTTTG
1 GATTTGTTTTTTG
31352858 GATTTGTTTTTT
1 GATTTGTTTTTT
31352870 TTCTAGACAT
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:0.08, C:0.00, G:0.20, T:0.72
Consensus pattern (13 bp):
GATTTGTTTTTTG
Found at i:31358108 original size:21 final size:21
Alignment explanation
Indices: 31358082--31358151 Score: 77
Period size: 21 Copynumber: 3.3 Consensus size: 21
31358072 TTTAGTCTCA
* * *
31358082 GTAGAAGTATGACTTGTTTCG
1 GTAGAACTATCACTTGTATCG
*
31358103 GTAGAACTATCATTTGTATCG
1 GTAGAACTATCACTTGTATCG
* *
31358124 GTAAAACTATCACTAGTATCG
1 GTAGAACTATCACTTGTATCG
*
31358145 ATAGAAC
1 GTAGAAC
31358152 ATCGAATTGA
Statistics
Matches: 40, Mismatches: 9, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
21 40 1.00
ACGTcount: A:0.33, C:0.14, G:0.20, T:0.33
Consensus pattern (21 bp):
GTAGAACTATCACTTGTATCG
Found at i:31360305 original size:2 final size:2
Alignment explanation
Indices: 31360298--31360323 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
31360288 TTTTCTTTCA
31360298 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
31360324 TATTTTTATT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:31368484 original size:50 final size:50
Alignment explanation
Indices: 31368416--31368938 Score: 484
Period size: 50 Copynumber: 10.5 Consensus size: 50
31368406 GATTGAGACT
* * * * *
31368416 GCAATGGCGAATCTGATACCCT-GAAGATAGTGATGGAAAAGGTTGAGGCC
1 GCAACGGCGAACCCGATACCTTAGAAGAT-GTGATGGGAAAGGTTGAGGCC
* *
31368466 GCAACGGCGAACCCGATACCTTAGAAGATGAGATGGGAAAGATTGAGGCC
1 GCAACGGCGAACCCGATACCTTAGAAGATGTGATGGGAAAGGTTGAGGCC
* * * *
31368516 GCAACGGTGAACTCGATACCTT-GAAGATGTTATGGGAAAGATTGAGGCC
1 GCAACGGCGAACCCGATACCTTAGAAGATGTGATGGGAAAGGTTGAGGCC
* * * * * *
31368565 GCAACGGTGAACCCGGTACCTTAGCAGATATAAAGGGAAAGGTTGAGGCC
1 GCAACGGCGAACCCGATACCTTAGAAGATGTGATGGGAAAGGTTGAGGCC
* * * * * * * *
31368615 ACAATGGGGAACCC-AGTACCTTAGAAGGTGAGTTAGGAAAGGTTTAGGCC
1 GCAACGGCGAACCCGA-TACCTTAGAAGATGTGATGGGAAAGGTTGAGGCC
* * * * * *
31368665 GCAATGACAAACCCGATACCTTAGAAGATGTTATGGGAAAGATTGAGGCT
1 GCAACGGCGAACCCGATACCTTAGAAGATGTGATGGGAAAGGTTGAGGCC
* * * * * * * * * *
31368715 GCAATGGTGAATCCGGTACCAT-CAAGACGCGAAGGGAAAGGTTAAGGCC
1 GCAACGGCGAACCCGATACCTTAGAAGATGTGATGGGAAAGGTTGAGGCC
* * * * *
31368764 GTAACGGCGAACCTGATACCTTAGTAGATGTGGTGGGAAAGGTTGAGGCA
1 GCAACGGCGAACCCGATACCTTAGAAGATGTGATGGGAAAGGTTGAGGCC
* * * *
31368814 GCAACGACGAACCCGGTACCTTAGAAGATGAGATGAGAAAGGTTGAGGCC
1 GCAACGGCGAACCCGATACCTTAGAAGATGTGATGGGAAAGGTTGAGGCC
* *
31368864 GCAACGGCGAACCC-AGTACCATA-AAGA-GATGAAGGGAAAGGTTGAGGCC
1 GCAACGGCGAACCCGA-TACCTTAGAAGATG-TGATGGGAAAGGTTGAGGCC
*
31368913 GCAACGACGAACCCGATACCTTAGAA
1 GCAACGGCGAACCCGATACCTTAGAA
31368939 AATAAGCTGG
Statistics
Matches: 375, Mismatches: 89, Indels: 18
0.78 0.18 0.04
Matches are distributed among these distances:
48 1 0.00
49 119 0.32
50 248 0.66
51 7 0.02
ACGTcount: A:0.33, C:0.19, G:0.31, T:0.17
Consensus pattern (50 bp):
GCAACGGCGAACCCGATACCTTAGAAGATGTGATGGGAAAGGTTGAGGCC
Found at i:31368682 original size:149 final size:148
Alignment explanation
Indices: 31368453--31368938 Score: 564
Period size: 149 Copynumber: 3.3 Consensus size: 148
31368443 TAGTGATGGA
*
31368453 AAAGGTTGAGGCCGCAACGGCGAACCCGATACCTTAGAAGATGAGATGGGAAAGATTGAGGCCGC
1 AAAGGTTGAGGCCGCAACGGCGAACCCGATACCTTAGAAGATGAGATGGGAAAGGTTGAGGCCGC
** *
31368518 AACGGTGAACTCGATACCTT-GAAGATGTTATGGGAAAGATTGAGGCCGCAACGGTGAACCCGGT
66 AACGACGAACCCGATACCTTAGAAGATGTTATGGGAAAGATTGAGGCCGCAACGGTGAACCCGGT
* *
31368582 ACCTTAGCAGATATAAAGGG
131 ACC-TA-CAGACATGAAGGG
* * * * * * *
31368602 AAAGGTTGAGGCCACAATGGGGAACCC-AGTACCTTAGAAGGTGAGTTAGGAAAGGTTTAGGCCG
1 AAAGGTTGAGGCCGCAACGGCGAACCCGA-TACCTTAGAAGATGAGATGGGAAAGGTTGAGGCCG
* * * * *
31368666 CAATGACAAACCCGATACCTTAGAAGATGTTATGGGAAAGATTGAGGCTGCAATGGTGAATCCGG
65 CAACGACGAACCCGATACCTTAGAAGATGTTATGGGAAAGATTGAGGCCGCAACGGTGAACCCGG
**
31368731 TACC-ATCAAGACGCGAAGGG
130 TACCTA-C-AGACATGAAGGG
* * * * * * *
31368751 AAAGGTTAAGGCCGTAACGGCGAACCTGATACCTTAGTAGATGTGGTGGGAAAGGTTGAGGCAGC
1 AAAGGTTGAGGCCGCAACGGCGAACCCGATACCTTAGAAGATGAGATGGGAAAGGTTGAGGCCGC
* ** * * * *
31368816 AACGACGAACCCGGTACCTTAGAAGATGAGATGAGAAAGGTTGAGGCCGCAACGGCGAACCCAGT
66 AACGACGAACCCGATACCTTAGAAGATGTTATGGGAAAGATTGAGGCCGCAACGGTGAACCCGGT
* *
31368881 ACCATAAAGAGATGAAGGG
131 ACC-TACAGACATGAAGGG
*
31368900 AAAGGTTGAGGCCGCAACGACGAACCCGATACCTTAGAA
1 AAAGGTTGAGGCCGCAACGGCGAACCCGATACCTTAGAA
31368939 AATAAGCTGG
Statistics
Matches: 276, Mismatches: 55, Indels: 12
0.80 0.16 0.03
Matches are distributed among these distances:
148 3 0.01
149 227 0.82
150 45 0.16
151 1 0.00
ACGTcount: A:0.33, C:0.19, G:0.31, T:0.17
Consensus pattern (148 bp):
AAAGGTTGAGGCCGCAACGGCGAACCCGATACCTTAGAAGATGAGATGGGAAAGGTTGAGGCCGC
AACGACGAACCCGATACCTTAGAAGATGTTATGGGAAAGATTGAGGCCGCAACGGTGAACCCGGT
ACCTACAGACATGAAGGG
Found at i:31368804 original size:199 final size:199
Alignment explanation
Indices: 31368453--31368932 Score: 513
Period size: 199 Copynumber: 2.4 Consensus size: 199
31368443 TAGTGATGGA
* *
31368453 AAAGGTTGAGGCCGCAACGGCGAACCCGATACCTTAGAAGATGAGATGGGAAAGATTGAGGCCGC
1 AAAGGTTGAGGCCGCAACGACAAACCCGATACCTTAGAAGATGAGATGGGAAAGATTGAGGCCGC
* * * ** * * * *
31368518 AACGGTGAACTCGATACCTTGAAGATGTTATGGGAAAGATTGAGGCCGCAACGGTGAACCCGGTA
66 AACGGTGAACTCGATACCATCAAGACGCGAAGGGAAAGATTAAGGCCGCAACGGCGAACCCGATA
* ** *
31368583 CCTTAGCAGATATAAAGGGAAAGGTTGAGGCCA-CAATGGGGAACCCAGTACCTTAGAAGGTGAG
131 CCTTAGCAGATATAAAGGGAAAGGTTGAGG-CAGCAACGACGAACCCAGTACCTTAGAAGATGAG
*
31368647 -TTAGG
195 ATGA-G
* * ** *
31368652 AAAGGTTTAGGCCGCAATGACAAACCCGATACCTTAGAAGATGTTATGGGAAAGATTGAGGCTGC
1 AAAGGTTGAGGCCGCAACGACAAACCCGATACCTTAGAAGATGAGATGGGAAAGATTGAGGCCGC
* * * * *
31368717 AATGGTGAA-TCCGGTACCATCAAGACGCGAAGGGAAAGGTTAAGGCCGTAACGGCGAACCTGAT
66 AACGGTGAACT-CGATACCATCAAGACGCGAAGGGAAAGATTAAGGCCGCAACGGCGAACCCGAT
* * *** *
31368781 ACCTTAGTAGATGTGGTGGGAAAGGTTGAGGCAGCAACGACGAACCCGGTACCTTAGAAGATGAG
130 ACCTTAGCAGATATAAAGGGAAAGGTTGAGGCAGCAACGACGAACCCAGTACCTTAGAAGATGAG
31368846 ATGAG
195 ATGAG
* * * * *
31368851 AAAGGTTGAGGCCGCAACGGCGAACCC-AGTACCATA-AAGA-GATGAAGGGAAAGGTTGAGGCC
1 AAAGGTTGAGGCCGCAACGACAAACCCGA-TACCTTAGAAGATGA-GATGGGAAAGATTGAGGCC
** *
31368913 GCAACGACGAACCCGATACC
64 GCAACGGTGAACTCGATACC
31368933 TTAGAAAATA
Statistics
Matches: 228, Mismatches: 47, Indels: 13
0.79 0.16 0.05
Matches are distributed among these distances:
197 1 0.00
198 37 0.16
199 188 0.82
200 2 0.01
ACGTcount: A:0.33, C:0.19, G:0.31, T:0.17
Consensus pattern (199 bp):
AAAGGTTGAGGCCGCAACGACAAACCCGATACCTTAGAAGATGAGATGGGAAAGATTGAGGCCGC
AACGGTGAACTCGATACCATCAAGACGCGAAGGGAAAGATTAAGGCCGCAACGGCGAACCCGATA
CCTTAGCAGATATAAAGGGAAAGGTTGAGGCAGCAACGACGAACCCAGTACCTTAGAAGATGAGA
TGAG
Found at i:31370007 original size:33 final size:33
Alignment explanation
Indices: 31369970--31370043 Score: 130
Period size: 33 Copynumber: 2.2 Consensus size: 33
31369960 TCTATACATT
*
31369970 TATTATTTCAGCATACCATTAATATTGTTTATG
1 TATTATTTCAGCATACCATTAATACTGTTTATG
31370003 TATTATTTCAGCATACCATTAATACTGTTTATG
1 TATTATTTCAGCATACCATTAATACTGTTTATG
*
31370036 TTTTATTT
1 TATTATTT
31370044 ATTATTTCGA
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 39 1.00
ACGTcount: A:0.28, C:0.12, G:0.08, T:0.51
Consensus pattern (33 bp):
TATTATTTCAGCATACCATTAATACTGTTTATG
Found at i:31379866 original size:15 final size:15
Alignment explanation
Indices: 31379846--31379876 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
31379836 CGCGACAACA
31379846 AATGGGGATGTCGTG
1 AATGGGGATGTCGTG
*
31379861 AATGGGGATGTTGTG
1 AATGGGGATGTCGTG
31379876 A
1 A
31379877 CACCCCTACA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.23, C:0.03, G:0.45, T:0.29
Consensus pattern (15 bp):
AATGGGGATGTCGTG
Found at i:31380600 original size:106 final size:106
Alignment explanation
Indices: 31380415--31380627 Score: 417
Period size: 106 Copynumber: 2.0 Consensus size: 106
31380405 GAATTCTATC
31380415 TAGCATTAAAGGAAAGAGAAGCAACGAGACCATATTAAGAGATGCGATTGCATGTTACAGTCAAA
1 TAGCATTAAAGGAAAGAGAAGCAACGAGACCATATTAAGAGATGCGATTGCATGTTACAGTCAAA
31380480 AGGGGTAGATGTTTTGGTAACTGAAGGTCGTATTTGTCAAT
66 AGGGGTAGATGTTTTGGTAACTGAAGGTCGTATTTGTCAAT
*
31380521 TAGCATTAAAGGAAAGAGAAGCAACGAGACCATATTACGAGATGCGATTGCATGTTACAGTCAAA
1 TAGCATTAAAGGAAAGAGAAGCAACGAGACCATATTAAGAGATGCGATTGCATGTTACAGTCAAA
31380586 AGGGGTAGATGTTTTGGTAACTGAAGGTCGTATTTGTCAAT
66 AGGGGTAGATGTTTTGGTAACTGAAGGTCGTATTTGTCAAT
31380627 T
1 T
31380628 TTATGATGCT
Statistics
Matches: 106, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
106 106 1.00
ACGTcount: A:0.35, C:0.12, G:0.26, T:0.27
Consensus pattern (106 bp):
TAGCATTAAAGGAAAGAGAAGCAACGAGACCATATTAAGAGATGCGATTGCATGTTACAGTCAAA
AGGGGTAGATGTTTTGGTAACTGAAGGTCGTATTTGTCAAT
Found at i:31382809 original size:15 final size:17
Alignment explanation
Indices: 31382784--31382816 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
31382774 TGTTCAAGAG
31382784 TCGTCTTTTAT-TTTTT
1 TCGTCTTTTATATTTTT
31382800 TCGT-TTTTATATTTTT
1 TCGTCTTTTATATTTTT
31382816 T
1 T
31382817 TGCTTGAAGA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 6 0.38
16 10 0.62
ACGTcount: A:0.09, C:0.09, G:0.06, T:0.76
Consensus pattern (17 bp):
TCGTCTTTTATATTTTT
Found at i:31386071 original size:26 final size:26
Alignment explanation
Indices: 31386042--31386096 Score: 65
Period size: 26 Copynumber: 2.1 Consensus size: 26
31386032 ACAAATATCA
* *
31386042 ATTTCATATATTTATTTCATATAAAC
1 ATTTCATATAATAATTTCATATAAAC
* * *
31386068 ATTTCGTATAATAATTTTATCTAAAC
1 ATTTCATATAATAATTTCATATAAAC
31386094 ATT
1 ATT
31386097 ACATTTTACC
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.38, C:0.11, G:0.02, T:0.49
Consensus pattern (26 bp):
ATTTCATATAATAATTTCATATAAAC
Found at i:31386685 original size:45 final size:44
Alignment explanation
Indices: 31386618--31386737 Score: 134
Period size: 45 Copynumber: 2.7 Consensus size: 44
31386608 ATGGTTGAAG
* * *
31386618 GATGCCAAGGTGTCTTTTAACTATGGTCTTATTTATTCACGACT-T
1 GATGCCAA-GTGTCTTTCAACTATGGTCTTATTTATT-ACGAATAC
* **
31386663 GATGCCACAGTGTCTTTCAACTATAGTCTTATTTATTTTGAATAC
1 GATGCCA-AGTGTCTTTCAACTATGGTCTTATTTATTACGAATAC
*
31386708 AATGCCATAGTGTCTTTCAACTATGGTCTT
1 GATGCCA-AGTGTCTTTCAACTATGGTCTT
31386738 GATCATTTAT
Statistics
Matches: 64, Mismatches: 9, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
44 3 0.05
45 60 0.94
46 1 0.02
ACGTcount: A:0.24, C:0.18, G:0.16, T:0.42
Consensus pattern (44 bp):
GATGCCAAGTGTCTTTCAACTATGGTCTTATTTATTACGAATAC
Found at i:31390512 original size:20 final size:19
Alignment explanation
Indices: 31390488--31390593 Score: 70
Period size: 20 Copynumber: 5.3 Consensus size: 19
31390478 CACCGTAGTA
31390488 CAAACAGTGGCACCAAAGTG
1 CAAACAG-GGCACCAAAGTG
* *
31390508 TAAACAAGGGCACTAAAGTG
1 CAAAC-AGGGCACCAAAGTG
*
31390528 CAAATAGGGACACCGAAA-TG
1 CAAACAGGG-CACC-AAAGTG
* * * **
31390548 TAAATAGGGGCATCGTAGTG
1 CAAACA-GGGCACCAAAGTG
*
31390568 CAAACAGGGGCACCGAAGTG
1 CAAACA-GGGCACCAAAGTG
31390588 CAAACA
1 CAAACA
31390594 TACTAATCTA
Statistics
Matches: 68, Mismatches: 13, Indels: 10
0.75 0.14 0.11
Matches are distributed among these distances:
19 5 0.07
20 55 0.81
21 8 0.12
ACGTcount: A:0.41, C:0.20, G:0.27, T:0.12
Consensus pattern (19 bp):
CAAACAGGGCACCAAAGTG
Found at i:31390519 original size:40 final size:39
Alignment explanation
Indices: 31390475--31390593 Score: 105
Period size: 40 Copynumber: 3.0 Consensus size: 39
31390465 GTGCGTTTAG
*
31390475 GGGCACCGTAGTACAAACAGTGGCACCAAAGTGTAAACAA
1 GGGCACCGTAGTGCAAACAG-GGCACCAAAGTGTAAACAA
*** * * *
31390515 GGGCACTAAAGTGCAAATAGGGACACCGAAA-TGTAAATAG
1 GGGCACCGTAGTGCAAACAGGG-CACC-AAAGTGTAAACAA
* * *
31390555 GGGCATCGTAGTGCAAACAGGGGCACCGAAGTGCAAACA
1 GGGCACCGTAGTGCAAACA-GGGCACCAAAGTGTAAACA
31390594 TACTAATCTA
Statistics
Matches: 60, Mismatches: 15, Indels: 8
0.72 0.18 0.10
Matches are distributed among these distances:
39 4 0.07
40 50 0.83
41 6 0.10
ACGTcount: A:0.39, C:0.20, G:0.29, T:0.13
Consensus pattern (39 bp):
GGGCACCGTAGTGCAAACAGGGCACCAAAGTGTAAACAA
Found at i:31398683 original size:18 final size:19
Alignment explanation
Indices: 31398634--31398684 Score: 63
Period size: 18 Copynumber: 2.8 Consensus size: 19
31398624 GGGTGCTGTG
31398634 GAAG-AGGAAGAAG-AAGA
1 GAAGAAGGAAGAAGCAAGA
*
31398651 GAAGAAAGAAGAAGCAAGA
1 GAAGAAGGAAGAAGCAAGA
*
31398670 GAA-AAGGAAAAAGCA
1 GAAGAAGGAAGAAGCA
31398685 GAAGAATATG
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
17 4 0.14
18 18 0.62
19 7 0.24
ACGTcount: A:0.63, C:0.04, G:0.33, T:0.00
Consensus pattern (19 bp):
GAAGAAGGAAGAAGCAAGA
Found at i:31405049 original size:20 final size:20
Alignment explanation
Indices: 31405026--31405066 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
31405016 AATCACTGGT
31405026 AGTGTATCATTGTCACCAAG
1 AGTGTATCATTGTCACCAAG
31405046 AGTGTATCATTGTCACCAAG
1 AGTGTATCATTGTCACCAAG
31405066 A
1 A
31405067 AAAACATACT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.32, C:0.20, G:0.20, T:0.29
Consensus pattern (20 bp):
AGTGTATCATTGTCACCAAG
Found at i:31407367 original size:24 final size:22
Alignment explanation
Indices: 31407340--31407422 Score: 98
Period size: 24 Copynumber: 3.7 Consensus size: 22
31407330 CTTTTTTTTA
*
31407340 TTTTGGTTGTTATTTTGGTGTTG
1 TTTTTGTTGTTATTTT-GTGTTG
31407363 TTTTTGTTGTTAGTTTTGTTGTTG
1 TTTTTGTTGTTA-TTTTG-TGTTG
*
31407387 TTTTTGTTGCTATTTT-TGTTG
1 TTTTTGTTGTTATTTTGTGTTG
*
31407408 -TTTTGCTGTTATTTT
1 TTTTTGTTGTTATTTT
31407423 TGCTACTATT
Statistics
Matches: 54, Mismatches: 4, Indels: 7
0.83 0.06 0.11
Matches are distributed among these distances:
20 13 0.24
21 5 0.09
23 16 0.30
24 20 0.37
ACGTcount: A:0.05, C:0.02, G:0.23, T:0.70
Consensus pattern (22 bp):
TTTTTGTTGTTATTTTGTGTTG
Found at i:31407426 original size:12 final size:12
Alignment explanation
Indices: 31407337--31407409 Score: 85
Period size: 12 Copynumber: 6.2 Consensus size: 12
31407327 GTGCTTTTTT
*
31407337 TTATTTTGGTTG
1 TTATTTTTGTTG
*
31407349 TTA-TTTTGGTG
1 TTATTTTTGTTG
*
31407360 TTGTTTTTGTTG
1 TTATTTTTGTTG
*
31407372 TTAGTTTTGTTG
1 TTATTTTTGTTG
*
31407384 TTGTTTTTGTTG
1 TTATTTTTGTTG
*
31407396 CTATTTTTGTTG
1 TTATTTTTGTTG
31407408 TT
1 TT
31407410 TTGCTGTTAT
Statistics
Matches: 49, Mismatches: 11, Indels: 2
0.79 0.18 0.03
Matches are distributed among these distances:
11 8 0.16
12 41 0.84
ACGTcount: A:0.05, C:0.01, G:0.23, T:0.70
Consensus pattern (12 bp):
TTATTTTTGTTG
Found at i:31407432 original size:32 final size:32
Alignment explanation
Indices: 31407369--31407455 Score: 111
Period size: 32 Copynumber: 2.7 Consensus size: 32
31407359 GTTGTTTTTG
* * *
31407369 TTGTTAGTTTTGTTGTTGTTTTTGTTGCTATTT
1 TTGTT-GTTTTGTTGTTATTTTTGCTACTATTT
*
31407402 TTGTTGTTTTGCTGTTATTTTTGCTACTATTT
1 TTGTTGTTTTGTTGTTATTTTTGCTACTATTT
* *
31407434 TGGTTGTTTGGTTGTTATTTTT
1 TTGTTGTTTTGTTGTTATTTTT
31407456 ATGCTTTTTT
Statistics
Matches: 47, Mismatches: 7, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
32 42 0.89
33 5 0.11
ACGTcount: A:0.07, C:0.05, G:0.21, T:0.68
Consensus pattern (32 bp):
TTGTTGTTTTGTTGTTATTTTTGCTACTATTT
Found at i:31409060 original size:29 final size:29
Alignment explanation
Indices: 31408999--31409114 Score: 110
Period size: 30 Copynumber: 3.9 Consensus size: 29
31408989 AGAAATTTTG
* * *
31408999 TTTTAACCCTCGAACTTTCTAAAACTTCA-A
1 TTTTAACCCT-AAACTTTCCAAAAATT-ATA
*
31409029 TTTCAATCCC-AAACTTTCCAAAAATTATA
1 TTTTAA-CCCTAAACTTTCCAAAAATTATA
* *
31409058 TTTTAACCCTTTAACTTTCTAAAAATTATA
1 TTTTAACCC-TAAACTTTCCAAAAATTATA
*
31409088 TTTTGACCCTTAAACTTTCCAAAAATT
1 TTTTAACCC-TAAACTTTCCAAAAATT
31409115 GTGTTTTGAC
Statistics
Matches: 72, Mismatches: 10, Indels: 8
0.80 0.11 0.09
Matches are distributed among these distances:
28 4 0.06
29 19 0.26
30 46 0.64
31 3 0.04
ACGTcount: A:0.36, C:0.22, G:0.02, T:0.40
Consensus pattern (29 bp):
TTTTAACCCTAAACTTTCCAAAAATTATA
Found at i:31409122 original size:30 final size:30
Alignment explanation
Indices: 31409039--31409186 Score: 145
Period size: 30 Copynumber: 4.9 Consensus size: 30
31409029 TTTCAATCCC
*
31409039 AAACTTTCCAAAAATTATATTTTAACCCTT
1 AAACTTTCCAAAAATTATATTTTGACCCTT
* *
31409069 TAACTTTCTAAAAATTATATTTTGACCCTT
1 AAACTTTCCAAAAATTATATTTTGACCCTT
* * **
31409099 AAACTTTCCAAAAATTGTGTTTTGACCCCC
1 AAACTTTCCAAAAATTATATTTTGACCCTT
** * *
31409129 AAACTTTTTAAAACTT-TAATTTTGACCCTC
1 AAACTTTCCAAAAATTAT-ATTTTGACCCTT
* * * *
31409159 AAACCTTCTAAAAATCACATTTTGACCC
1 AAACTTTCCAAAAATTATATTTTGACCC
31409187 GAACTTTTTG
Statistics
Matches: 97, Mismatches: 19, Indels: 4
0.81 0.16 0.03
Matches are distributed among these distances:
29 1 0.01
30 96 0.99
ACGTcount: A:0.35, C:0.22, G:0.04, T:0.39
Consensus pattern (30 bp):
AAACTTTCCAAAAATTATATTTTGACCCTT
Found at i:31409134 original size:60 final size:60
Alignment explanation
Indices: 31408999--31409173 Score: 165
Period size: 60 Copynumber: 2.9 Consensus size: 60
31408989 AGAAATTTTG
* * * * ** *
31408999 TTTTAACCCTCGAACTTTCTAAAACTTCAATTTCAATCC-CAAACTTTCCAAAAATTATA
1 TTTTAACCCCCAAACTTTCTAAAAATTTAATTTTGACCCTCAAACTTTCCAAAAATTATA
*** * * *
31409058 TTTTAACCCTTTAACTTTCTAAAAA-TTATATTTTGACCCTTAAACTTTCCAAAAATTGTG
1 TTTTAACCCCCAAACTTTCTAAAAATTTA-ATTTTGACCCTCAAACTTTCCAAAAATTATA
* * * * *
31409118 TTTTGACCCCCAAACTTTTTAAAACTTTAATTTTGACCCTCAAACCTTCTAAAAAT
1 TTTTAACCCCCAAACTTTCTAAAAATTTAATTTTGACCCTCAAACTTTCCAAAAAT
31409174 CACATTTTGA
Statistics
Matches: 94, Mismatches: 19, Indels: 5
0.80 0.16 0.04
Matches are distributed among these distances:
58 2 0.02
59 29 0.31
60 60 0.64
61 3 0.03
ACGTcount: A:0.35, C:0.23, G:0.03, T:0.39
Consensus pattern (60 bp):
TTTTAACCCCCAAACTTTCTAAAAATTTAATTTTGACCCTCAAACTTTCCAAAAATTATA
Found at i:31413194 original size:15 final size:15
Alignment explanation
Indices: 31413170--31413208 Score: 71
Period size: 15 Copynumber: 2.7 Consensus size: 15
31413160 TACATTGCAT
31413170 ACAT-GCATTCATTC
1 ACATAGCATTCATTC
31413184 ACATAGCATTCATTC
1 ACATAGCATTCATTC
31413199 ACATAGCATT
1 ACATAGCATT
31413209 TTCATATTTT
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
14 4 0.17
15 20 0.83
ACGTcount: A:0.33, C:0.26, G:0.08, T:0.33
Consensus pattern (15 bp):
ACATAGCATTCATTC
Found at i:31420969 original size:264 final size:264
Alignment explanation
Indices: 31420494--31421011 Score: 1018
Period size: 264 Copynumber: 2.0 Consensus size: 264
31420484 TATAATGATC
* *
31420494 AAAGTACGTTACACCTTGAGGCATCGACAGAGTACTCCAAGCCTCCTAACACATATCAAGCTTAG
1 AAAGAACGTTACACCTTGAGGCATCGACAGAGTACTCCAAGCCTCCTAACACATATCAAGCTCAG
31420559 AGTGGGTCTCATCAAGTTTGCTCAGAAAGCTCATACATAGATATTTAGAACACCTTATTTTGTTT
66 AGTGGGTCTCATCAAGTTTGCTCAGAAAGCTCATACATAGATATTTAGAACACCTTATTTTGTTT
31420624 TAGTTCACTTTTTTACTCGGTAATTCTTTTTACGAATGTCTGCCATTTTTAATCTTTTCATTCAT
131 TAGTTCACTTTTTTACTCGGTAATTCTTTTTACGAATGTCTGCCATTTTTAATCTTTTCATTCAT
31420689 TCGAGCTTTGTCTCCAATAAAATTTAACTTCATTCACCTTATGGCTTTTTCCAAGCATTATCTCC
196 TCGAGCTTTGTCTCCAATAAAATTTAACTTCATTCACCTTATGGCTTTTTCCAAGCATTATCTCC
31420754 AATA
261 AATA
31420758 AAAGAACGTTACACCTTGAGGCATCGACAGAGTACTCCAAGCCTCCTAACACATATCAAGCTCAG
1 AAAGAACGTTACACCTTGAGGCATCGACAGAGTACTCCAAGCCTCCTAACACATATCAAGCTCAG
31420823 AGTGGGTCTCATCAAGTTTGCTCAGAAAGCTCATACATAGATATTTAGAACACCTTATTTTGTTT
66 AGTGGGTCTCATCAAGTTTGCTCAGAAAGCTCATACATAGATATTTAGAACACCTTATTTTGTTT
31420888 TAGTTCACTTTTTTACTCGGTAATTCTTTTTACGAATGTCTGCCATTTTTAATCTTTTCATTCAT
131 TAGTTCACTTTTTTACTCGGTAATTCTTTTTACGAATGTCTGCCATTTTTAATCTTTTCATTCAT
31420953 TCGAGCTTTGTCTCCAATAAAATTTAACTTCATTCACCTTATGGCTTTTTCCAAGCATT
196 TCGAGCTTTGTCTCCAATAAAATTTAACTTCATTCACCTTATGGCTTTTTCCAAGCATT
31421012 GTTGCATTAA
Statistics
Matches: 252, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
264 252 1.00
ACGTcount: A:0.28, C:0.22, G:0.13, T:0.37
Consensus pattern (264 bp):
AAAGAACGTTACACCTTGAGGCATCGACAGAGTACTCCAAGCCTCCTAACACATATCAAGCTCAG
AGTGGGTCTCATCAAGTTTGCTCAGAAAGCTCATACATAGATATTTAGAACACCTTATTTTGTTT
TAGTTCACTTTTTTACTCGGTAATTCTTTTTACGAATGTCTGCCATTTTTAATCTTTTCATTCAT
TCGAGCTTTGTCTCCAATAAAATTTAACTTCATTCACCTTATGGCTTTTTCCAAGCATTATCTCC
AATA
Found at i:31421479 original size:77 final size:77
Alignment explanation
Indices: 31421387--31422611 Score: 1565
Period size: 77 Copynumber: 15.9 Consensus size: 77
31421377 ATTTCACAGG
* * * *
31421387 TCTCTTACCCCGATCATGGGACAGATCGAAGCATCCAATCTCTTACCCTAATCAAAGGGCAGATT
1 TCTCTTACCCCGATCATGGGGCAGATTGAAGCATCCAATCTTTTACCCTAATCAGAGGGCAGATT
* **
31421452 TAAGACAGGCAA
66 GAAGACAACCAA
*
31421464 TCTCTTACCCTGATCATGGGGCAGATTGAAGCATCCAATCTTTTACCCTAATCAGAGGGCAGATT
1 TCTCTTACCCCGATCATGGGGCAGATTGAAGCATCCAATCTTTTACCCTAATCAGAGGGCAGATT
31421529 GAAGACAACCAA
66 GAAGACAACCAA
* * * *
31421541 TCTCTTACCCCGATCATGGGGCATATTGAAGCATCCAATCTTTTACCTTAATTAGAGGGTAGATT
1 TCTCTTACCCCGATCATGGGGCAGATTGAAGCATCCAATCTTTTACCCTAATCAGAGGGCAGATT
**
31421606 GAAGACATGCAA
66 GAAGACAACCAA
* * * * *
31421618 TCTTTTACACCGATCAT-GGGCATATTGAAGCATCCAATCTTTTACCTTAATCAGAAGGCAGATT
1 TCTCTTACCCCGATCATGGGGCAGATTGAAGCATCCAATCTTTTACCCTAATCAGAGGGCAGATT
**
31421682 GAAGACATGCAA
66 GAAGACAACCAA
* ** * * * * *
31421694 TCTCTTACCCCCATCATGGGGCAGATTGAAGCATTAAATGTTTTACCTTAATCAAAAGGAAGATT
1 TCTCTTACCCCGATCATGGGGCAGATTGAAGCATCCAATCTTTTACCCTAATCAGAGGGCAGATT
*
31421759 GAAGACACTCCAA
66 GAAGACA-ACCAA
* * *
31421772 TCTCTTACCCCGATCATGGGGTAGATTGAAGCATCCAATCTTTTACCCTAATTAGAGGACAGATT
1 TCTCTTACCCCGATCATGGGGCAGATTGAAGCATCCAATCTTTTACCCTAATCAGAGGGCAGATT
31421837 GAAGACAACCAA
66 GAAGACAACCAA
*
31421849 TCTCTTACCCCGATCATGGGGCAGATTAAAGCATCCAATCTTTTACCCTAATCAGAGGGCAGATT
1 TCTCTTACCCCGATCATGGGGCAGATTGAAGCATCCAATCTTTTACCCTAATCAGAGGGCAGATT
**
31421914 GAAGACAGGCAA
66 GAAGACAACCAA
* * *
31421926 TCTCTTAACCCGATCATGGAGCAGATTGAAGCATCCAATCTTTTACCCTAATCAGAGGGTAGATT
1 TCTCTTACCCCGATCATGGGGCAGATTGAAGCATCCAATCTTTTACCCTAATCAGAGGGCAGATT
31421991 GAAGACAACCAA
66 GAAGACAACCAA
* * * *
31422003 TCTCTTACCCTGATCATGAGGCCGATTGAAGCATCCAATCTTTTACCCAAATCAGAGGGCAGATT
1 TCTCTTACCCCGATCATGGGGCAGATTGAAGCATCCAATCTTTTACCCTAATCAGAGGGCAGATT
31422068 GAAGACAACCAA
66 GAAGACAACCAA
* * *
31422080 TCTCTTACCCCGATCATAGGGCCGATTGAAGCATCCAATCTTTTACCCAAATCAGAGGGCAGATT
1 TCTCTTACCCCGATCATGGGGCAGATTGAAGCATCCAATCTTTTACCCTAATCAGAGGGCAGATT
31422145 GAAGACAACCAA
66 GAAGACAACCAA
* * * * * *
31422157 TCTCTTACCCCAATCATAGGGCCGATTGAAGCATCCAATCTTTTACCTTAATTAGAGGGTAGATT
1 TCTCTTACCCCGATCATGGGGCAGATTGAAGCATCCAATCTTTTACCCTAATCAGAGGGCAGATT
* **
31422222 CAAGACATGCAA
66 GAAGACAACCAA
* * * * *
31422234 TCTCTTACCCCAATCATGGCGTAGATTGAAGCATCCAATCTTTTACCTTAATCAGAAGGCAGATT
1 TCTCTTACCCCGATCATGGGGCAGATTGAAGCATCCAATCTTTTACCCTAATCAGAGGGCAGATT
**
31422299 GAAGACATGCAA
66 GAAGACAACCAA
** * * *
31422311 TCTCTTACCATGATCATGGGGCAGATTGAAGCATCCAATCTTTTACCTTAATCAGAAGGCAAATT
1 TCTCTTACCCCGATCATGGGGCAGATTGAAGCATCCAATCTTTTACCCTAATCAGAGGGCAGATT
* **
31422376 AAAGACATGCAA
66 GAAGACAACCAA
* ** * * * *
31422388 TCTCTTACCTCGATCATAAGGCAGATTAAAGCATCCAATCTTTTACCTTAATCAGAAGGTAGATT
1 TCTCTTACCCCGATCATGGGGCAGATTGAAGCATCCAATCTTTTACCCTAATCAGAGGGCAGATT
31422453 GAAGAC-ACGTCAA
66 GAAGACAAC--CAA
* * * * * *
31422466 TCTCTTACCTCGATCATGGGGCAGATTGCAGCACCCAATCTTTTACCTTAGTCAGAAGGCAGATT
1 TCTCTTACCCCGATCATGGGGCAGATTGAAGCATCCAATCTTTTACCCTAATCAGAGGGCAGATT
31422531 GAAGACACACCAA
66 GAAGACA-ACCAA
** * * * * * *
31422544 TCTCTTACCTTGATCATGGGGCAGATTGAAACACCCAAACTCTTACCCTCAT-TGAGGAGCAGAT
1 TCTCTTACCCCGATCATGGGGCAGATTGAAGCATCCAATCTTTTACCCTAATCAGAGG-GCAGAT
31422608 TGAA
65 TGAA
31422612 AACGCCATTC
Statistics
Matches: 1027, Mismatches: 114, Indels: 13
0.89 0.10 0.01
Matches are distributed among these distances:
76 70 0.07
77 766 0.75
78 189 0.18
80 2 0.00
ACGTcount: A:0.32, C:0.24, G:0.18, T:0.26
Consensus pattern (77 bp):
TCTCTTACCCCGATCATGGGGCAGATTGAAGCATCCAATCTTTTACCCTAATCAGAGGGCAGATT
GAAGACAACCAA
Found at i:31422606 original size:38 final size:38
Alignment explanation
Indices: 31422523--31422612 Score: 103
Period size: 38 Copynumber: 2.3 Consensus size: 38
31422513 TTAGTCAGAA
* * *
31422523 GGCAGATTGAAGACACACCAATCTCTTACCTTGATCATGG
1 GGCAGATTGAA-ACACACCAAACTCTTACCCTCAT-ATGG
31422563 GGCAGATTGAAACAC-CCAAACTCTTACCCTCAT-TGAG
1 GGCAGATTGAAACACACCAAACTCTTACCCTCATATG-G
31422600 GAGCAGATTGAAA
1 G-GCAGATTGAAA
31422613 ACGCCATTCG
Statistics
Matches: 45, Mismatches: 3, Indels: 6
0.83 0.06 0.11
Matches are distributed among these distances:
36 2 0.04
37 2 0.04
38 26 0.58
39 4 0.09
40 11 0.24
ACGTcount: A:0.33, C:0.24, G:0.20, T:0.22
Consensus pattern (38 bp):
GGCAGATTGAAACACACCAAACTCTTACCCTCATATGG
Found at i:31424202 original size:60 final size:60
Alignment explanation
Indices: 31424082--31424230 Score: 189
Period size: 60 Copynumber: 2.5 Consensus size: 60
31424072 TTTTATTTAG
* *
31424082 AAATTTTATTTTAACCCTCAAAC--TCCAAAACTTCGATTTCGACCCCTGAACTTTCCAA
1 AAATTATATTTTAACCCTCAAACTTTCCAAAACTTCGATTTCGACCCCTGAACCTTCCAA
* * *
31424140 AAATTATATTTTAACCCTCAAACTTTCCAAAACTTTGATTTTGA-CCCTCGAACCTTCTAA
1 AAATTATATTTTAACCCTCAAACTTTCCAAAACTTCGATTTCGACCCCT-GAACCTTCCAA
* * *
31424200 AAATCATATTTTGACCCT-AAACTTTCTAAAA
1 AAATTATATTTTAACCCTCAAACTTTCCAAAA
31424231 GTTACATTTT
Statistics
Matches: 80, Mismatches: 8, Indels: 5
0.86 0.09 0.05
Matches are distributed among these distances:
58 22 0.28
59 16 0.20
60 42 0.52
ACGTcount: A:0.35, C:0.26, G:0.05, T:0.35
Consensus pattern (60 bp):
AAATTATATTTTAACCCTCAAACTTTCCAAAACTTCGATTTCGACCCCTGAACCTTCCAA
Found at i:31424248 original size:60 final size:61
Alignment explanation
Indices: 31424088--31424277 Score: 178
Period size: 60 Copynumber: 3.2 Consensus size: 61
31424078 TTAGAAATTT
** * *
31424088 TATTTTAACCCTCAAAC--TCCAAAACTT-CGATTTCGACCCCT-GAACTTTCCAAAAATTA
1 TATTTTAACCCTCAAACTTTCCAAAACTTAC-ATTTTAACCCCTCGAACCTTCCAAAAATCA
** * *
31424146 TATTTTAACCCTCAAACTTTCCAAAACTTTGATTTTGA-CCCTCGAACCTTCTAAAAATCA
1 TATTTTAACCCTCAAACTTTCCAAAACTTACATTTTAACCCCTCGAACCTTCCAAAAATCA
* * * * * **
31424206 TATTTTGACCCT-AAACTTTCTAAAAGTTACATTTTAACCCCTCAAACTTTCCAAATTTACA
1 TATTTTAACCCTCAAACTTTCCAAAACTTACATTTTAACCCCTCGAACCTTCCAAAAAT-CA
31424267 T-TTTTAACCCT
1 TATTTTAACCCT
31424278 ATTTTTATTT
Statistics
Matches: 109, Mismatches: 17, Indels: 10
0.80 0.12 0.07
Matches are distributed among these distances:
58 17 0.16
59 24 0.22
60 65 0.60
61 3 0.03
ACGTcount: A:0.33, C:0.27, G:0.04, T:0.36
Consensus pattern (61 bp):
TATTTTAACCCTCAAACTTTCCAAAACTTACATTTTAACCCCTCGAACCTTCCAAAAATCA
Found at i:31424256 original size:31 final size:30
Alignment explanation
Indices: 31424089--31424277 Score: 138
Period size: 30 Copynumber: 6.4 Consensus size: 30
31424079 TAGAAATTTT
*
31424089 ATTTTAACCCTCAAAC--TCCAAAACTT-C
1 ATTTTAACCCTCAAACTTTCCAAAAATTAC
** * *
31424116 GATTTCGACCC-CTGAACTTTCCAAAAATTAT
1 -ATTTTAACCCTC-AAACTTTCCAAAAATTAC
* **
31424147 ATTTTAACCCTCAAACTTTCCAAAACTTTG
1 ATTTTAACCCTCAAACTTTCCAAAAATTAC
* * * * * *
31424177 ATTTTGACCCTCGAACCTTCTAAAAATCAT
1 ATTTTAACCCTCAAACTTTCCAAAAATTAC
* * *
31424207 ATTTTGACCCT-AAACTTTCTAAAAGTTAC
1 ATTTTAACCCTCAAACTTTCCAAAAATTAC
*
31424236 ATTTTAACCCCTCAAACTTTCC-AAATTTAC
1 ATTTTAA-CCCTCAAACTTTCCAAAAATTAC
31424266 ATTTTTAACCCT
1 A-TTTTAACCCT
31424278 ATTTTTATTT
Statistics
Matches: 126, Mismatches: 27, Indels: 14
0.75 0.16 0.08
Matches are distributed among these distances:
27 1 0.01
28 11 0.09
29 19 0.15
30 80 0.63
31 15 0.12
ACGTcount: A:0.33, C:0.27, G:0.04, T:0.35
Consensus pattern (30 bp):
ATTTTAACCCTCAAACTTTCCAAAAATTAC
Found at i:31435846 original size:77 final size:77
Alignment explanation
Indices: 31435717--31436441 Score: 986
Period size: 77 Copynumber: 9.4 Consensus size: 77
31435707 ATTTCACAAG
* * * * *
31435717 TCTCTTACCCCGACCATGGTGCAGATCGAAGCATCCAACCTTTTACCTTAATCAGAGGGCAGATT
1 TCTCTTACCCCGATCATGGGGCAAATTGAAGCATCCAATCTTTTACCTTAATCAGAGGGCAGATT
*
31435782 GAAGACAGGCAA
66 GAAGACATGCAA
* * *
31435794 TCTCTTACCCCGATCATGAGGCAAATTGAAGCATTCAATCTTTTACCCTAATCAGAGGGCAGATT
1 TCTCTTACCCCGATCATGGGGCAAATTGAAGCATCCAATCTTTTACCTTAATCAGAGGGCAGATT
**
31435859 GAAGACAACCAA
66 GAAGACATGCAA
* * * **
31435871 TCTCTTACCCCGATCATGGGGCAAATTGAAGCATCCAATCTCTTACCTTAATAAAAGGATAGATT
1 TCTCTTACCCCGATCATGGGGCAAATTGAAGCATCCAATCTTTTACCTTAATCAGAGGGCAGATT
31435936 GAAGACATGCAA
66 GAAGACATGCAA
** * ** * * *
31435948 TCTCTTACCCCGATCATGGGGCCGATTGAAGCATCAAATCTTTTACCCCAATCAAAGTGTAGATT
1 TCTCTTACCCCGATCATGGGGCAAATTGAAGCATCCAATCTTTTACCTTAATCAGAGGGCAGATT
**
31436013 GAAGACAACCAA
66 GAAGACATGCAA
* *
31436025 TCTCTTACCCCGATCATGGGG-ACGATTGAAGCATCCAATCTTTTACCTTAATCAGAGGGTAGAT
1 TCTCTTACCCCGATCATGGGGCA-AATTGAAGCATCCAATCTTTTACCTTAATCAGAGGGCAGAT
31436089 TGAAGACATGCAA
65 TGAAGACATGCAA
** *
31436102 TCTCTTACCTTGATCATGGGGCAAATTGAAGCATCCAATCTTTTACCTTAATCAGAAGGCAGATT
1 TCTCTTACCCCGATCATGGGGCAAATTGAAGCATCCAATCTTTTACCTTAATCAGAGGGCAGATT
31436167 GAAGACATGCAA
66 GAAGACATGCAA
* * * *
31436179 TCTCTTACCCCGACCATGGGGTAGATTGAAGCATCCAATCTTTTACCTTAATCAGAAGGCAGATT
1 TCTCTTACCCCGATCATGGGGCAAATTGAAGCATCCAATCTTTTACCTTAATCAGAGGGCAGATT
*
31436244 AAAGACATGCAA
66 GAAGACATGCAA
* * * *
31436256 TCTCTTACCTCGATCATGAGGCAGAA-TGAAGCATCCAATCTTTTACCTTAATCAGAAGGTAGAT
1 TCTCTTACCCCGATCATGGGGCA-AATTGAAGCATCCAATCTTTTACCTTAATCAGAGGGCAGAT
*
31436320 TGAAGACACGCCAA
65 TGAAGACATG-CAA
* * *
31436334 TCTCTTACCCCGATCATGGGGCAGATTGAAGCACCCAATCTTTTACCTTAATCAGAAGGCAGATT
1 TCTCTTACCCCGATCATGGGGCAAATTGAAGCATCCAATCTTTTACCTTAATCAGAGGGCAGATT
**
31436399 GAAGACACACCAA
66 GAAGACA-TGCAA
31436412 TCTCTTACCCCGATCATGGGGCAAATTGAA
1 TCTCTTACCCCGATCATGGGGCAAATTGAA
31436442 ACACCCAAAC
Statistics
Matches: 576, Mismatches: 66, Indels: 11
0.88 0.10 0.02
Matches are distributed among these distances:
77 474 0.82
78 102 0.18
ACGTcount: A:0.32, C:0.24, G:0.18, T:0.25
Consensus pattern (77 bp):
TCTCTTACCCCGATCATGGGGCAAATTGAAGCATCCAATCTTTTACCTTAATCAGAGGGCAGATT
GAAGACATGCAA
Found at i:31436478 original size:38 final size:38
Alignment explanation
Indices: 31436316--31436480 Score: 115
Period size: 38 Copynumber: 4.2 Consensus size: 38
31436306 ATCAGAAGGT
* *
31436316 AGATTGAAGACACGCCAATCTCTTACCCCGATCATGGGGC
1 AGATTGAA-ACACACCAAACTCTTACCCCGAT-ATGGGGC
* * * *** *
31436356 AGATTGAAGCAC-CCAATCTTTTACCTTAATCA-GAAGGC
1 AGATTGAAACACACCAAACTCTTACCCCGAT-ATG-GGGC
*
31436394 AGATTGAAGACACACCAATCTCTTACCCCGATCATGGGGC
1 AGATTGAA-ACACACCAAACTCTTACCCCGAT-ATGGGGC
*
31436434 AAATTGAAACAC-CCAAACTCTTACCCTC-AT-TGAGGAGC
1 AGATTGAAACACACCAAACTCTTACCC-CGATATG-GG-GC
31436472 AGATTGAAA
1 AGATTGAAA
31436481 ACGCAATTCG
Statistics
Matches: 103, Mismatches: 15, Indels: 16
0.77 0.11 0.12
Matches are distributed among these distances:
36 2 0.02
37 3 0.03
38 52 0.50
39 11 0.11
40 34 0.33
41 1 0.01
ACGTcount: A:0.33, C:0.27, G:0.18, T:0.22
Consensus pattern (38 bp):
AGATTGAAACACACCAAACTCTTACCCCGATATGGGGC
Found at i:31438030 original size:30 final size:30
Alignment explanation
Indices: 31437945--31438135 Score: 172
Period size: 30 Copynumber: 6.3 Consensus size: 30
31437935 AGAAATTTTG
* * *
31437945 TTTTAACCCTCGAACTTTCCAAAACTT-TGA
1 TTTTGACCCTCTAACTTTCCAAAAATTAT-A
* * * **
31437975 TTTCGACCCCCCAAACTTTTTAAAAATTATA
1 TTTTGA-CCCTCTAACTTTCCAAAAATTATA
*
31438006 TTTTGACCCTTTAACTTTCCAAAAATTATA
1 TTTTGACCCTCTAACTTTCCAAAAATTATA
* *
31438036 TTTTGACCCTCGAACTTTCCAAAAATTATG
1 TTTTGACCCTCTAACTTTCCAAAAATTATA
* *
31438066 TTTTTACCCTCTAACTTTCCAAAACTT-TGA
1 TTTTGACCCTCTAACTTTCCAAAAATTAT-A
* * *
31438096 TTTTGACCCTCGAACCTTT-TAAAAATCATA
1 TTTTGACCCTCTAA-CTTTCCAAAAATTATA
*
31438126 TTTTAACCCT
1 TTTTGACCCT
31438136 AAATTTTCTA
Statistics
Matches: 130, Mismatches: 26, Indels: 10
0.78 0.16 0.06
Matches are distributed among these distances:
29 1 0.01
30 101 0.78
31 27 0.21
32 1 0.01
ACGTcount: A:0.31, C:0.25, G:0.05, T:0.39
Consensus pattern (30 bp):
TTTTGACCCTCTAACTTTCCAAAAATTATA
Found at i:31438081 original size:60 final size:60
Alignment explanation
Indices: 31437937--31438135 Score: 222
Period size: 60 Copynumber: 3.3 Consensus size: 60
31437927 TTTTATTTAG
* * * * * **
31437937 AAATTTTGTTTTAACCCTCGAACTTTCCAAAACTTTGATTTCGACCCCCCAAACTTTTTAA
1 AAATTATGTTTTAACCCTCTAACTTTCCAAAACTTTGATTTTGA-CCCTCGAACTTTCCAA
* * * *
31437998 AAATTATATTTTGACCCTTTAACTTTCCAAAAATTAT-ATTTTGACCCTCGAACTTTCCAA
1 AAATTATGTTTTAACCCTCTAACTTTCCAAAACTT-TGATTTTGACCCTCGAACTTTCCAA
* *
31438058 AAATTATGTTTTTACCCTCTAACTTTCCAAAACTTTGATTTTGACCCTCGAACCTTT-TAA
1 AAATTATGTTTTAACCCTCTAACTTTCCAAAACTTTGATTTTGACCCTCGAA-CTTTCCAA
* *
31438118 AAATCATATTTTAACCCT
1 AAATTATGTTTTAACCCT
31438136 AAATTTTCTA
Statistics
Matches: 116, Mismatches: 19, Indels: 7
0.82 0.13 0.05
Matches are distributed among these distances:
59 1 0.01
60 75 0.65
61 39 0.34
62 1 0.01
ACGTcount: A:0.31, C:0.24, G:0.06, T:0.40
Consensus pattern (60 bp):
AAATTATGTTTTAACCCTCTAACTTTCCAAAACTTTGATTTTGACCCTCGAACTTTCCAA
Found at i:31439375 original size:36 final size:36
Alignment explanation
Indices: 31439335--31439418 Score: 134
Period size: 36 Copynumber: 2.3 Consensus size: 36
31439325 ACTTCTATAA
31439335 TTCGGGTC-GAGCTTAGACAAAATTTTAGACCCATTT
1 TTCGGGTCAG-GCTTAGACAAAATTTTAGACCCATTT
*
31439371 TTCGGGTCAGGCTTAGACAAAATTTTAGGCCCATTT
1 TTCGGGTCAGGCTTAGACAAAATTTTAGACCCATTT
*
31439407 TTCAGGTCAGGC
1 TTCGGGTCAGGC
31439419 CGGACCAAGG
Statistics
Matches: 45, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
36 44 0.98
37 1 0.02
ACGTcount: A:0.25, C:0.20, G:0.23, T:0.32
Consensus pattern (36 bp):
TTCGGGTCAGGCTTAGACAAAATTTTAGACCCATTT
Found at i:31451795 original size:101 final size:101
Alignment explanation
Indices: 31451620--31451824 Score: 347
Period size: 101 Copynumber: 2.0 Consensus size: 101
31451610 ACAGCAACAG
* * * *
31451620 AAGGATTGCATGTCTGCAGGATATGCTTAATCCTAAAGTAGAAATAAGATTTATCTAGGATGCAA
1 AAGGATAGCATGTCTGCAGGATATGCTCAATCCTAAAGTAGAAAAAAGATTCATCTAGGATGCAA
31451685 GATACTCTTCCCAACATAATGCATGAAACTAGAACT
66 GATACTCTTCCCAACATAATGCATGAAACTAGAACT
* *
31451721 AAGGATAGCATGTCTGCAGGATATGCTCAATCCTTAAGTAGAAAAAATATTCATCTAGGATGCAA
1 AAGGATAGCATGTCTGCAGGATATGCTCAATCCTAAAGTAGAAAAAAGATTCATCTAGGATGCAA
*
31451786 GATACTCTTCCCAACATAATGCATGACACTAGAACT
66 GATACTCTTCCCAACATAATGCATGAAACTAGAACT
31451822 AAG
1 AAG
31451825 AATAAGATCA
Statistics
Matches: 97, Mismatches: 7, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
101 97 1.00
ACGTcount: A:0.38, C:0.18, G:0.18, T:0.26
Consensus pattern (101 bp):
AAGGATAGCATGTCTGCAGGATATGCTCAATCCTAAAGTAGAAAAAAGATTCATCTAGGATGCAA
GATACTCTTCCCAACATAATGCATGAAACTAGAACT
Found at i:31457816 original size:16 final size:16
Alignment explanation
Indices: 31457769--31457827 Score: 50
Period size: 16 Copynumber: 3.7 Consensus size: 16
31457759 CCTAGGATTT
*
31457769 TAAAAATTTATT-ATA
1 TAAAAATTTATTAACA
* *
31457784 TAATAATATA-TATACA
1 TAAAAATTTATTA-ACA
31457800 TAAAAATTTATTAACA
1 TAAAAATTTATTAACA
*
31457816 TGAAAATATTAT
1 TAAAAAT-TTAT
31457828 AAATTTATAC
Statistics
Matches: 34, Mismatches: 6, Indels: 6
0.74 0.13 0.13
Matches are distributed among these distances:
14 1 0.03
15 8 0.24
16 19 0.56
17 6 0.18
ACGTcount: A:0.54, C:0.03, G:0.02, T:0.41
Consensus pattern (16 bp):
TAAAAATTTATTAACA
Found at i:31458437 original size:13 final size:13
Alignment explanation
Indices: 31458419--31458443 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
31458409 AATTTTAATT
31458419 AATTATTAAAAAA
1 AATTATTAAAAAA
31458432 AATTATTAAAAA
1 AATTATTAAAAA
31458444 TCGTAAAATA
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:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (13 bp):
AATTATTAAAAAA
Found at i:31458460 original size:10 final size:10
Alignment explanation
Indices: 31458385--31458567 Score: 71
Period size: 10 Copynumber: 18.8 Consensus size: 10
31458375 TAATAAAAAA
31458385 TATAAAA-AT
1 TATAAAATAT
* *
31458394 TATAAAAAAA
1 TATAAAATAT
* *
31458404 TATTAAATTT
1 TATAAAATAT
* *
31458414 TAATTAATTAT
1 T-ATAAAATAT
* *
31458425 TAAAAAAAAT
1 TATAAAATAT
31458435 TATTAAAA-AT
1 TA-TAAAATAT
**
31458445 CGTAAAATAT
1 TATAAAATAT
31458455 TATAAAA-AT
1 TATAAAATAT
* *
31458464 TGTAAAATTT
1 TATAAAATAT
31458474 TATAAAA-AT
1 TATAAAATAT
** *
31458483 GGTAAAAAAT
1 TATAAAATAT
31458493 TATAAAATA-
1 TATAAAATAT
*
31458502 TA-GAAATA-
1 TATAAAATAT
*
31458510 TAGAAAATATT
1 TATAAAATA-T
*
31458521 TATAAAATTT
1 TATAAAATAT
*
31458531 TATAAAGTCA-
1 TATAAAAT-AT
31458541 TA-AGAAA-AT
1 TATA-AAATAT
*
31458550 TATAAAATAA
1 TATAAAATAT
31458560 TATAAAAT
1 TATAAAAT
31458568 TCGTAAAAAA
Statistics
Matches: 127, Mismatches: 33, Indels: 27
0.68 0.18 0.14
Matches are distributed among these distances:
8 8 0.06
9 39 0.31
10 61 0.48
11 19 0.15
ACGTcount: A:0.60, C:0.01, G:0.04, T:0.35
Consensus pattern (10 bp):
TATAAAATAT
Found at i:31458460 original size:19 final size:19
Alignment explanation
Indices: 31458428--31458499 Score: 90
Period size: 19 Copynumber: 3.7 Consensus size: 19
31458418 TAATTATTAA
31458428 AAAAAATTATTAAAAATCGT
1 AAAAAATTA-TAAAAATCGT
* *
31458448 AAAATATTATAAAAATTGT
1 AAAAAATTATAAAAATCGT
** *
31458467 AAAATTTTATAAAAATGGT
1 AAAAAATTATAAAAATCGT
31458486 AAAAAATTATAAAA
1 AAAAAATTATAAAA
31458500 TATAGAAATA
Statistics
Matches: 46, Mismatches: 6, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
19 38 0.83
20 8 0.17
ACGTcount: A:0.61, C:0.01, G:0.06, T:0.32
Consensus pattern (19 bp):
AAAAAATTATAAAAATCGT
Found at i:31458499 original size:9 final size:9
Alignment explanation
Indices: 31458370--31458591 Score: 58
Period size: 9 Copynumber: 23.0 Consensus size: 9
31458360 GACATATGAC
*
31458370 AAAAATAAT
1 AAAAATTAT
*
31458379 AAAAAATAT
1 AAAAATTAT
31458388 AAAAATTAT
1 AAAAATTAT
*
31458397 AAAAA-AAT
1 AAAAATTAT
* *
31458405 ATTAAATTTT
1 A-AAAATTAT
*
31458415 AATTAATTATTAAA
1 AA--AA--ATT-AT
31458429 AAAAATTATT
1 AAAAATTA-T
**
31458439 AAAAATCGT
1 AAAAATTAT
31458448 AAAATATTAT
1 AAAA-ATTAT
*
31458458 AAAAATTGT
1 AAAAATTAT
*
31458467 AAAATTTTAT
1 AAAA-ATTAT
31458477 AAAAATGGTA-
1 AAAAAT--TAT
31458487 AAAAATTAT
1 AAAAATTAT
31458496 -AAAA-TAT
1 AAAAATTAT
*
31458503 AGAAA-TAT
1 AAAAATTAT
*
31458511 AGAAAATATTT
1 A-AAAAT-TAT
*
31458522 ATAAAATTTT
1 A-AAAATTAT
* *
31458532 ATAAAGTCAT
1 A-AAAATTAT
31458542 AAGAAAATTAT
1 -A-AAAATTAT
*
31458553 AAAATAATAT
1 AAAA-ATTAT
* *
31458563 AAAATTCGTAA
1 AAAAAT--TAT
31458574 AAAAATTAT
1 AAAAATTAT
*
31458583 AAAATTTAT
1 AAAAATTAT
31458592 CGTACTAAAA
Statistics
Matches: 156, Mismatches: 36, Indels: 42
0.67 0.15 0.18
Matches are distributed among these distances:
7 3 0.02
8 16 0.10
9 54 0.35
10 50 0.32
11 26 0.17
12 2 0.01
13 3 0.02
14 2 0.01
ACGTcount: A:0.61, C:0.01, G:0.04, T:0.34
Consensus pattern (9 bp):
AAAAATTAT
Found at i:31458556 original size:29 final size:30
Alignment explanation
Indices: 31458458--31458589 Score: 98
Period size: 29 Copynumber: 4.5 Consensus size: 30
31458448 AAAATATTAT
* * **
31458458 AAAAATTGTAAAATTTTATAAAAATGGT-A
1 AAAAATTATAAAATTTTATAAAAGTCATAA
31458487 AAAAATTATAAAA---TATAGAAA-T-ATAGA
1 AAAAATTATAAAATTTTATA-AAAGTCATA-A
*
31458514 AAATATTTATAAAATTTTAT-AAAGTCATAA
1 AAA-AATTATAAAATTTTATAAAAGTCATAA
* ** * *
31458544 GAAAATTATAAAATAATATAAAATTCGTAA
1 AAAAATTATAAAATTTTATAAAAGTCATAA
31458574 AAAAATTATAAAATTT
1 AAAAATTATAAAATTT
31458590 ATCGTACTAA
Statistics
Matches: 81, Mismatches: 12, Indels: 19
0.72 0.11 0.17
Matches are distributed among these distances:
25 1 0.01
26 5 0.06
27 7 0.09
28 9 0.11
29 28 0.35
30 25 0.31
31 6 0.07
ACGTcount: A:0.59, C:0.02, G:0.06, T:0.33
Consensus pattern (30 bp):
AAAAATTATAAAATTTTATAAAAGTCATAA
Found at i:31458586 original size:10 final size:10
Alignment explanation
Indices: 31458370--31458499 Score: 61
Period size: 10 Copynumber: 13.3 Consensus size: 10
31458360 GACATATGAC
*
31458370 AAAAATAATA
1 AAAAATTATA
31458380 AAAAA-TAT-
1 AAAAATTATA
31458388 AAAAATTATA
1 AAAAATTATA
* *
31458398 AAAAAATATT
1 AAAAATTATA
** *
31458408 AAATTTTAATT
1 AAAAATT-ATA
** *
31458419 AATTATTAAA
1 AAAAATTATA
*
31458429 AAAAATTATT
1 AAAAATTATA
**
31458439 AAAAATCGTA
1 AAAAATTATA
*
31458449 AAATATTAT-
1 AAAAATTATA
*
31458458 AAAAATTGTA
1 AAAAATTATA
**
31458468 AAATTTTAT-
1 AAAAATTATA
**
31458477 AAAAATGGTA
1 AAAAATTATA
31458487 AAAAATTATA
1 AAAAATTATA
31458497 AAA
1 AAA
31458500 TATAGAAATA
Statistics
Matches: 84, Mismatches: 31, Indels: 10
0.67 0.25 0.08
Matches are distributed among these distances:
8 5 0.06
9 17 0.20
10 54 0.64
11 8 0.10
ACGTcount: A:0.63, C:0.01, G:0.03, T:0.33
Consensus pattern (10 bp):
AAAAATTATA
Found at i:31462300 original size:43 final size:43
Alignment explanation
Indices: 31462233--31462526 Score: 372
Period size: 43 Copynumber: 6.8 Consensus size: 43
31462223 GTGAATTCTT
** *
31462233 AATGGAAGACTTATGTCTTTGTTAGAGCATAATATTGTTTATA
1 AATGGAAGACTTATGTCTCGGTTAGAGCATAAGATTGTTTATA
*
31462276 AATGGAAGACTTATGTCTCGGTTAGAGCATAAAATTGTTTATA
1 AATGGAAGACTTATGTCTCGGTTAGAGCATAAGATTGTTTATA
* *
31462319 AATTGAAGACTTATGTCTCTGTTAGAGCATAAGATTGTTTATA
1 AATGGAAGACTTATGTCTCGGTTAGAGCATAAGATTGTTTATA
*
31462362 AATGGAAGGCTTATGTCTCGGTTAGAGCATAAGATTGTTTATA
1 AATGGAAGACTTATGTCTCGGTTAGAGCATAAGATTGTTTATA
* ** * *
31462405 AATGGAAGAACATATGTCTCGACTAGAGCATAAGATTATTTGTA
1 AATGGAAG-ACTTATGTCTCGGTTAGAGCATAAGATTGTTTATA
* ** * **
31462449 AATGGAAGAACATATGTCTCGACTAGAGCATAAGATTATTGGTA
1 AATGGAAG-ACTTATGTCTCGGTTAGAGCATAAGATTGTTTATA
** *
31462493 AATGGAAGAACTTATAACTCGGATAGAGCATAAG
1 AATGGAAG-ACTTATGTCTCGGTTAGAGCATAAG
31462527 GTTAATTCAG
Statistics
Matches: 229, Mismatches: 21, Indels: 1
0.91 0.08 0.00
Matches are distributed among these distances:
43 128 0.56
44 101 0.44
ACGTcount: A:0.36, C:0.10, G:0.21, T:0.33
Consensus pattern (43 bp):
AATGGAAGACTTATGTCTCGGTTAGAGCATAAGATTGTTTATA
Found at i:31462968 original size:18 final size:18
Alignment explanation
Indices: 31462926--31462961 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
31462916 TGAAACCATG
31462926 AATATTTGGTATGTTTGC
1 AATATTTGGTATGTTTGC
31462944 AATATTTGGTATGTTTGC
1 AATATTTGGTATGTTTGC
31462962 TTTATTTCCA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.22, C:0.06, G:0.22, T:0.50
Consensus pattern (18 bp):
AATATTTGGTATGTTTGC
Found at i:31465228 original size:30 final size:29
Alignment explanation
Indices: 31465161--31465424 Score: 187
Period size: 30 Copynumber: 8.8 Consensus size: 29
31465151 AGAATTTGGG
* **
31465161 GTTAAAATGTAATTTTGGAAAATACGAGG-
1 GTTAAAATGTAATTTTGGAAAGT-TTAGGT
*
31465190 GTTAAAATGTAATTTGTGGAAGGTTTAGGT
1 GTTAAAATGTAATTT-TGGAAAGTTTAGGT
31465220 GTCT-AAATGTAATTTTTGGAAAGTTTAAGGT
1 GT-TAAAATGTAA-TTTTGGAAAGTTT-AGGT
*
31465251 -TTAAAATGTAATTTTGGGAAAGTTTAGGG
1 GTTAAAATGTAATTTT-GGAAAGTTTAGGT
* * *
31465280 GTTAAAATGAAATTTTGGAAAAGAGTAAGG-
1 GTTAAAATGTAATTTTGG-AAAG-TTTAGGT
* * *
31465310 GTAAAAATGTAATTTTGGAAAAGTTAAGGG
1 GTTAAAATGTAATTTTGG-AAAGTTTAGGT
* * * * *
31465340 GTAAAAATGAAATTTTAGAGAAGTTTTGGG
1 GTTAAAATGTAATTTTGGA-AAGTTTAGGT
* * *
31465370 GTCAAAATGAAATTTTAGAGAAGTTTGAGG-
1 GTTAAAATGTAATTTTGGA-AAGTTT-AGGT
* *
31465400 GTCAAAATGAAATTTTGGAATAGTT
1 GTTAAAATGTAATTTTGGAA-AGTT
31465425 CAAAGGCTCT
Statistics
Matches: 202, Mismatches: 19, Indels: 27
0.81 0.08 0.11
Matches are distributed among these distances:
29 35 0.17
30 153 0.76
31 14 0.07
ACGTcount: A:0.39, C:0.02, G:0.26, T:0.34
Consensus pattern (29 bp):
GTTAAAATGTAATTTTGGAAAGTTTAGGT
Found at i:31465257 original size:60 final size:58
Alignment explanation
Indices: 31465158--31465419 Score: 224
Period size: 60 Copynumber: 4.4 Consensus size: 58
31465148 TAGAGAATTT
* ** *
31465158 GGGGTTAAAATGTAATTTTGGAAAATACGAGGGTTAAAATGTAATTTGTGGAAGGTTTA
1 GGGGTTAAAATGTAATTTTGGAAAGTATAAGGGTTAAAATGTAATTT-TGGAAAGTTTA
* * *
31465217 GGTGTCT-AAATGTAATTTTTGGAAAGTTTAAGGTTTAAAATGTAATTTTGGGAAAGTTTA
1 GGGGT-TAAAATGTAA-TTTTGGAAAGTATAAGGGTTAAAATGTAATTTT-GGAAAGTTTA
* * *
31465277 GGGGTTAAAATGAAATTTTGGAAAAG-AGTAAGGGTAAAAATGTAATTTTGGAAAAGTTAA
1 GGGGTTAAAATGTAATTTTGG-AAAGTA-TAAGGGTTAAAATGTAATTTTGG-AAAGTTTA
* * * * ** * * *
31465337 GGGGTAAAAATGAAATTTTAGAGAAGTTTTGGGGTCAAAATGAAATTTTAGAGAAGTTT-
1 GGGGTTAAAATGTAATTTTGGA-AAGTATAAGGGTTAAAATGTAATTTTGGA-AAGTTTA
* *
31465396 GAGGGTCAAAATGAAATTTTGGAA
1 G-GGGTTAAAATGTAATTTTGGAA
31465420 TAGTTCAAAG
Statistics
Matches: 168, Mismatches: 24, Indels: 22
0.79 0.11 0.10
Matches are distributed among these distances:
59 26 0.15
60 142 0.85
ACGTcount: A:0.39, C:0.02, G:0.27, T:0.33
Consensus pattern (58 bp):
GGGGTTAAAATGTAATTTTGGAAAGTATAAGGGTTAAAATGTAATTTTGGAAAGTTTA
Found at i:31465401 original size:90 final size:89
Alignment explanation
Indices: 31465224--31465424 Score: 226
Period size: 90 Copynumber: 2.2 Consensus size: 89
31465214 TTAGGTGTCT
* * * * *
31465224 AAATGTAATTTTTGG-AAAGTTTAAGGTTTAAAATGTAATTTTGGGAAAGTTTAGGGGTTAAAAT
1 AAATGTAA-TTTTGGAAAAG-TTAAGGGTAAAAATGAAATTTTGAGAAAGTTTAGGGGTCAAAAT
*
31465288 GAAATTTTGGAAAAGAGTAAGGGTAA
64 GAAATTTTAGAAAAGAGTAAGGGTAA
*
31465314 AAATGTAATTTTGGAAAAGTTAAGGGGTAAAAATGAAATTTT-AGAGAAGTTTTGGGGTCAAAAT
1 AAATGTAATTTTGGAAAAGTTAA-GGGTAAAAATGAAATTTTGAGA-AAGTTTAGGGGTCAAAAT
* ** * *
31465378 GAAATTTTAGAGAAGTTTGAGGGTCA
64 GAAATTTTAGAAAAGAGTAAGGGTAA
* *
31465404 AAATGAAATTTTGGAATAGTT
1 AAATGTAATTTTGGAAAAGTT
31465425 CAAAGGCTCT
Statistics
Matches: 94, Mismatches: 14, Indels: 6
0.82 0.12 0.05
Matches are distributed among these distances:
89 12 0.13
90 82 0.87
ACGTcount: A:0.40, C:0.01, G:0.25, T:0.33
Consensus pattern (89 bp):
AAATGTAATTTTGGAAAAGTTAAGGGTAAAAATGAAATTTTGAGAAAGTTTAGGGGTCAAAATGA
AATTTTAGAAAAGAGTAAGGGTAA
Found at i:31466186 original size:39 final size:39
Alignment explanation
Indices: 31466135--31466886 Score: 432
Period size: 39 Copynumber: 19.0 Consensus size: 39
31466125 AAGATTAGAT
* *
31466135 GATGGCTTCAATCTGCCCCATGTTCGGGGTAAGAGATTG
1 GATGGTTTCAATCTGCCCCATGATCGGGGTAAGAGATTG
* * *
31466174 GATGGTTTCAATCTGCCTCATGATCAGGGTAAGAGATTT
1 GATGGTTTCAATCTGCCCCATGATCGGGGTAAGAGATTG
** * *
31466213 GACAGTTTTAATCTGCCCCATGATCGGGGTAATAGATTGG
1 GATGGTTTCAATCTGCCCCATGATCGGGGTAAGAGATT-G
* * ** *
31466253 ATGATGGCTTCAATCTACCTTATGATCGGGGTAAGAGCTTG
1 --GATGGTTTCAATCTGCCCCATGATCGGGGTAAGAGATTG
* * * * * * *
31466294 GATGATCGCTGCAATCTACCTCATGATCGAGGCAAAAGATTG
1 GATG---GTTTCAATCTGCCCCATGATCGGGGTAAGAGATTG
31466336 GATGATGTTTTCAATCTGCCCCATGATCGGGGTAAGAGATTGG
1 GATG--G-TTTCAATCTGCCCCATGATCGGGGTAAGAGATT-G
* * * *
31466379 ATGATGGTTGCAATCTGCCTCATGATCGGGGTAAGCG-TTCA
1 --GATGGTTTCAATCTGCCCCATGATCGGGGTAAGAGATT-G
* * * * *
31466420 GATGATTGCAATCTACCTCATGATTGGGGTAAGAGATTG
1 GATGGTTTCAATCTGCCCCATGATCGGGGTAAGAGATTG
* ** * * * * *
31466459 GCTAACTGT-GATCTACCTCATGATCGGGGTAAGAGATCG
1 GAT-GGTTTCAATCTGCCCCATGATCGGGGTAAGAGATTG
* * * * *
31466498 AATGGTTGCAATCTTCCTCATGATCAGGGTAAGAGATTG
1 GATGGTTTCAATCTGCCCCATGATCGGGGTAAGAGATTG
* * * * *
31466537 GCTGATTGT-GATCTACCCCATGATCGGGGTAAGAGATTA
1 GATGGTT-TCAATCTGCCCCATGATCGGGGTAAGAGATTG
*
31466576 GATGCTTGT-AATCTGCCCCATGATCGGGGTAAGAGATTG
1 GATGGTT-TCAATCTGCCCCATGATCGGGGTAAGAGATTG
* * * * ** * * **
31466615 GCTGACTGT-GATCTTTCACACGATCGGGGTAAGAGACCG
1 GATG-GTTTCAATCTGCCCCATGATCGGGGTAAGAGATTG
* * * * * * *
31466654 AATGATTACGATCTGCCCCACG-TTGAGGTAAGAGATT-
1 GATGGTTTCAATCTGCCCCATGATCGGGGTAAGAGATTG
* * * **
31466691 GACTGACTGT-GATCTGCCCCATGATCGGGGTAAGAGATCA
1 GA-TG-GTTTCAATCTGCCCCATGATCGGGGTAAGAGATTG
* *
31466731 GAT-GATTGATATCTAG-CCCATGATCGGGGTAAGAGATT-
1 GATGGTTTCA-ATCT-GCCCCATGATCGGGGTAAGAGATTG
* * * * * **
31466769 GAGTGACTGT-GATTTACCCCATGATCGGGGTAAGAGATCA
1 GA-TG-GTTTCAATCTGCCCCATGATCGGGGTAAGAGATTG
* * **
31466809 GATGGTTACAATTTGCCCCATGATCGGGGTAAGAGATCA
1 GATGGTTTCAATCTGCCCCATGATCGGGGTAAGAGATTG
*
31466848 GATGGTTGT-AATCTGCCTCATGATCGGGGTAAGAGATTG
1 GATGGTT-TCAATCTGCCCCATGATCGGGGTAAGAGATTG
31466887 ACTAACTATG
Statistics
Matches: 554, Mismatches: 129, Indels: 60
0.75 0.17 0.08
Matches are distributed among these distances:
37 2 0.00
38 30 0.05
39 386 0.70
40 10 0.02
41 5 0.01
42 115 0.21
43 2 0.00
45 4 0.01
ACGTcount: A:0.26, C:0.18, G:0.28, T:0.28
Consensus pattern (39 bp):
GATGGTTTCAATCTGCCCCATGATCGGGGTAAGAGATTG
Found at i:31466251 original size:78 final size:77
Alignment explanation
Indices: 31466144--31466886 Score: 510
Period size: 78 Copynumber: 9.4 Consensus size: 77
31466134 TGATGGCTTC
* * *
31466144 AATCTGCCCCATGTTCGGGGTAAGAGATTGGATGGTTTCAATCTGCCTCATGATCAGGGTAAGAG
1 AATCTGCCCCATGATCGGGGTAAGAGATTGGATGGTTTCAATCTGCCCCATGATCGGGGTAAGAG
* * *
31466209 ATTTGACAGTTTT
66 A-TTGACTGCTGT
* * * **
31466222 AATCTGCCCCATGATCGGGGTAATAGATTGGATGATGGCTTCAATCTACCTTATGATCGGGGTAA
1 AATCTGCCCCATGATCGGGGTAAGAGATT-G--GATGGTTTCAATCTGCCCCATGATCGGGGTAA
* * *
31466287 GAGCTTGGATGATCGCTGC
63 GAGATT-GA--CT-GCTGT
* * * * *
31466306 AATCTACCTCATGATCGAGGCAAAAGATTGGATGATGTTTTCAATCTGCCCCATGATCGGGGTAA
1 AATCTGCCCCATGATCGGGGTAAGAGATTGGATG--G-TTTCAATCTGCCCCATGATCGGGGTAA
*
31466371 GAGATTGGA-TGATGGTT
63 GAGATT-GACTGCT-G-T
* * * * * * * *
31466388 GCAATCTGCCTCATGATCGGGGTAAGCG-TTCAGATGATTGCAATCTACCTCATGATTGGGGTAA
1 --AATCTGCCCCATGATCGGGGTAAGAGATT-GGATGGTTTCAATCTGCCCCATGATCGGGGTAA
* *
31466452 GAGATTGGCTAACTGT
63 GAGATTGACT-GCTGT
* * * * * * * * *
31466468 GATCTACCTCATGATCGGGGTAAGAGATCGAATGGTTGCAATCTTCCTCATGATCAGGGTAAGAG
1 AATCTGCCCCATGATCGGGGTAAGAGATTGGATGGTTTCAATCTGCCCCATGATCGGGGTAAGAG
* *
31466533 ATTGGCTGATTGT
66 ATTGACTG-CTGT
* * * *
31466546 GATCTACCCCATGATCGGGGTAAGAGATTAGATGCTTGT-AATCTGCCCCATGATCGGGGTAAGA
1 AATCTGCCCCATGATCGGGGTAAGAGATTGGATGGTT-TCAATCTGCCCCATGATCGGGGTAAGA
*
31466610 GATTGGCTGACTGT
65 GATTGACTG-CTGT
* ** * * ** * * * * * * *
31466624 GATCTTTCACACGATCGGGGTAAGAGACCGAATGATTACGATCTGCCCCACG-TTGAGGTAAGAG
1 AATCTGCCCCATGATCGGGGTAAGAGATTGGATGGTTTCAATCTGCCCCATGATCGGGGTAAGAG
31466688 ATTGACTGACTGT
66 ATTGACTG-CTGT
* ** * *
31466701 GATCTGCCCCATGATCGGGGTAAGAGATCAGAT-GATTGATATCTAG-CCCATGATCGGGGTAAG
1 AATCTGCCCCATGATCGGGGTAAGAGATTGGATGGTTTCA-ATCT-GCCCCATGATCGGGGTAAG
*
31466764 AGATTGAGTGACTGT
64 AGATTGACTG-CTGT
* * * ** * *
31466779 GATTTACCCCATGATCGGGGTAAGAGATCAGATGGTTACAATTTGCCCCATGATCGGGGTAAGAG
1 AATCTGCCCCATGATCGGGGTAAGAGATTGGATGGTTTCAATCTGCCCCATGATCGGGGTAAGAG
* *
31466844 ATCAGA-TGGTTGT
66 AT-TGACT-GCTGT
*
31466857 AATCTGCCTCATGATCGGGGTAAGAGATTG
1 AATCTGCCCCATGATCGGGGTAAGAGATTG
31466887 ACTAACTATG
Statistics
Matches: 532, Mismatches: 105, Indels: 56
0.77 0.15 0.08
Matches are distributed among these distances:
76 1 0.00
77 58 0.11
78 302 0.57
79 8 0.02
80 6 0.01
81 70 0.13
82 1 0.00
83 4 0.01
84 82 0.15
ACGTcount: A:0.26, C:0.18, G:0.28, T:0.28
Consensus pattern (77 bp):
AATCTGCCCCATGATCGGGGTAAGAGATTGGATGGTTTCAATCTGCCCCATGATCGGGGTAAGAG
ATTGACTGCTGT
Found at i:31466886 original size:117 final size:117
Alignment explanation
Indices: 31466135--31466887 Score: 503
Period size: 117 Copynumber: 6.3 Consensus size: 117
31466125 AAGATTAGAT
* * * * * * *
31466135 GATGGCTT-CAATCTGCCCCATGTTCGGGGTAAGAGATTG-GATGGTTTCAATCTGCCTCATGAT
1 GATGG-TTGCAATCTGCCTCATGATCGGGGTAAGAGATTGAGATGATTGCGATCTACCCCATGAT
* * ** * ** * *
31466198 CAGGGTAAGAGATTTGACAGTTTTAATCTGCCCCATGATCGGGGTAATAGATTGGA
65 CGGGGTAAGAGA-TAGATGGCTACAATCTGCCCCATGATCGGGGTAAGAGA-T-CA
* * * * *
31466254 TGATGGCTT-CAATCTACCTTATGATCGGGGTAAGAGCTTG-GATGATCGCTGCAATCTACCTCA
1 -GATGG-TTGCAATCTGCCTCATGATCGGGGTAAGAGATTGAGATGAT---TGCGATCTACCCCA
* * * ** * *
31466317 TGATCGAGGCAAAAGATTGGATGATGTTTTCAATCTGCCCCATGATCGGGGTAAGAGATTGGA
61 TGATCGGGGTAAGAGA-T--A-GATGGCTACAATCTGCCCCATGATCGGGGTAAGAGA-T-CA
* * * *
31466380 TGATGGTTGCAATCTGCCTCATGATCGGGGTAAGCG-TTCAGATGATTGCAATCTACCTCATGAT
1 -GATGGTTGCAATCTGCCTCATGATCGGGGTAAGAGATTGAGATGATTGCGATCTACCCCATGAT
* * * *
31466444 TGGGGTAAGAGAT---TGGCTAACTGTGATCTACCTCATGATCGGGGTAAGAGATC-
65 CGGGGTAAGAGATAGATGGCT-AC---AATCTGCCCCATGATCGGGGTAAGAGATCA
* * * *
31466497 GAATGGTTGCAATCTTCCTCATGATCAGGGTAAGAGATTG-GCTGATTGTGATCTACCCCATGAT
1 G-ATGGTTGCAATCTGCCTCATGATCGGGGTAAGAGATTGAGATGATTGCGATCTACCCCATGAT
** **
31466561 CGGGGTAAGAGATTAGAT-GCTTGTAATCTGCCCCATGATCGGGGTAAGAGATTG
65 CGGGGTAAGAGA-TAGATGGC-TACAATCTGCCCCATGATCGGGGTAAGAGATCA
* ** ** ** * * ** * * * *
31466615 GCTGACTGTGATCTTTCACACGATCGGGGTAAGAGACCGA-ATGATTACGATCTGCCCCACG-TT
1 GATGGTTGCAATCTGCCTCATGATCGGGGTAAGAGATTGAGATGATTGCGATCTACCCCATGATC
* * * ***
31466678 GAGGTAAGAGATTGACTGACTGTGATCTGCCCCATGATCGGGGTAAGAGATCA
66 GGGGTAAGAGATAGA-TGGCTACAATCTGCCCCATGATCGGGGTAAGAGATCA
* * * *
31466731 GATGATTG-ATATCTAGCC-CATGATCGGGGTAAGAGATTGAG-TGACTGTGATTTACCCCATGA
1 GATGGTTGCA-ATCT-GCCTCATGATCGGGGTAAGAGATTGAGATGATTGCGATCTACCCCATGA
* *
31466793 TCGGGGTAAGAGATCAGATGGTTACAATTTGCCCCATGATCGGGGTAAGAGATCA
64 TCGGGGTAAGAGAT-AGATGGCTACAATCTGCCCCATGATCGGGGTAAGAGATCA
*
31466848 GATGGTTGTAATCTGCCTCATGATCGGGGTAAGAGATTGA
1 GATGGTTGCAATCTGCCTCATGATCGGGGTAAGAGATTGA
31466888 CTAACTATGA
Statistics
Matches: 508, Mismatches: 95, Indels: 63
0.76 0.14 0.09
Matches are distributed among these distances:
115 3 0.01
116 92 0.18
117 209 0.41
118 7 0.01
119 1 0.00
120 65 0.13
121 2 0.00
122 1 0.00
123 52 0.10
125 4 0.01
126 72 0.14
ACGTcount: A:0.26, C:0.18, G:0.28, T:0.28
Consensus pattern (117 bp):
GATGGTTGCAATCTGCCTCATGATCGGGGTAAGAGATTGAGATGATTGCGATCTACCCCATGATC
GGGGTAAGAGATAGATGGCTACAATCTGCCCCATGATCGGGGTAAGAGATCA
Found at i:31468936 original size:18 final size:18
Alignment explanation
Indices: 31468900--31468946 Score: 51
Period size: 18 Copynumber: 2.6 Consensus size: 18
31468890 TCATCTTGAC
* *
31468900 TTTTTTGCTTCTTTTCTT
1 TTTTTTTCTTCTTTCCTT
31468918 TATTTTTTCTT-TTTCCTT
1 T-TTTTTTCTTCTTTCCTT
31468936 TTGTTTTTCTT
1 TT-TTTTTCTT
31468947 GGGTTTCAAG
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
17 1 0.04
18 16 0.64
19 8 0.32
ACGTcount: A:0.02, C:0.15, G:0.04, T:0.79
Consensus pattern (18 bp):
TTTTTTTCTTCTTTCCTT
Found at i:31472517 original size:16 final size:16
Alignment explanation
Indices: 31472496--31472535 Score: 55
Period size: 16 Copynumber: 2.5 Consensus size: 16
31472486 TACGAATGTG
31472496 TAAATAATAGCAAA-AT
1 TAAATAATA-CAAAGAT
31472512 TAAATAATACAAAGAT
1 TAAATAATACAAAGAT
*
31472528 GAAATAAT
1 TAAATAAT
31472536 TAAGCAGATA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 4 0.18
16 18 0.82
ACGTcount: A:0.62, C:0.05, G:0.07, T:0.25
Consensus pattern (16 bp):
TAAATAATACAAAGAT
Found at i:31472548 original size:16 final size:16
Alignment explanation
Indices: 31472524--31472566 Score: 77
Period size: 16 Copynumber: 2.6 Consensus size: 16
31472514 AATAATACAA
31472524 AGATGAAATAATTAAGC
1 AGAT-AAATAATTAAGC
31472541 AGATAAATAATTAAGC
1 AGATAAATAATTAAGC
31472557 AGATAAATAA
1 AGATAAATAA
31472567 ATACACAAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
16 22 0.85
17 4 0.15
ACGTcount: A:0.58, C:0.05, G:0.14, T:0.23
Consensus pattern (16 bp):
AGATAAATAATTAAGC
Found at i:31472817 original size:30 final size:30
Alignment explanation
Indices: 31472722--31472856 Score: 139
Period size: 30 Copynumber: 4.5 Consensus size: 30
31472712 AAAGGGGTCG
* * * *
31472722 AAAAATTAAGTTTTGGAAAAGATTGAGGGT
1 AAAAATGAAATTTTGGAGAAGTTTGAGGGT
* *
31472752 AAAAATGTAATTTTAGAGAAG-TT-AGGGTAT
1 AAAAATGAAATTTTGGAGAAGTTTGAGGG--T
31472782 AAAAATGAAATTTTGGAGAAGTTTGAGGGT
1 AAAAATGAAATTTTGGAGAAGTTTGAGGGT
* *
31472812 CAAAATGAAATTTTGGTGAAGTTTGAGGGT
1 AAAAATGAAATTTTGGAGAAGTTTGAGGGT
* * *
31472842 TAAGATAAAATTTTG
1 AAAAATGAAATTTTG
31472857 AAAGAGTTCA
Statistics
Matches: 89, Mismatches: 12, Indels: 8
0.82 0.11 0.07
Matches are distributed among these distances:
28 4 0.04
29 2 0.02
30 77 0.87
31 2 0.02
32 4 0.04
ACGTcount: A:0.41, C:0.01, G:0.26, T:0.33
Consensus pattern (30 bp):
AAAAATGAAATTTTGGAGAAGTTTGAGGGT
Found at i:31472817 original size:60 final size:60
Alignment explanation
Indices: 31472722--31472834 Score: 154
Period size: 60 Copynumber: 1.9 Consensus size: 60
31472712 AAAGGGGTCG
* * *
31472722 AAAAATTAAGTTTTGGAAAAGATTGAGGGTAAAAATGTAATTTTAGAGAAGTTAGGGTAT
1 AAAAATGAAATTTTGGAAAAGATTGAGGGTAAAAATGAAATTTTAGAGAAGTTAGGGTAT
* * * * *
31472782 AAAAATGAAATTTTGGAGAAGTTTGAGGGTCAAAATGAAATTTTGGTGAAGTT
1 AAAAATGAAATTTTGGAAAAGATTGAGGGTAAAAATGAAATTTTAGAGAAGTT
31472835 TGAGGGTTAA
Statistics
Matches: 45, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
60 45 1.00
ACGTcount: A:0.42, C:0.01, G:0.26, T:0.32
Consensus pattern (60 bp):
AAAAATGAAATTTTGGAAAAGATTGAGGGTAAAAATGAAATTTTAGAGAAGTTAGGGTAT
Found at i:31479159 original size:12 final size:12
Alignment explanation
Indices: 31479142--31479174 Score: 66
Period size: 12 Copynumber: 2.8 Consensus size: 12
31479132 CTAGAAATTA
31479142 TTGAACAACTAG
1 TTGAACAACTAG
31479154 TTGAACAACTAG
1 TTGAACAACTAG
31479166 TTGAACAAC
1 TTGAACAAC
31479175 ATGATTGACA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.42, C:0.18, G:0.15, T:0.24
Consensus pattern (12 bp):
TTGAACAACTAG
Found at i:31482667 original size:36 final size:36
Alignment explanation
Indices: 31482618--31482726 Score: 161
Period size: 36 Copynumber: 3.1 Consensus size: 36
31482608 GGTAACAGGC
*
31482618 ATGACCTTTGGGTCAACAGGGAGTAAAATGAGCATA
1 ATGACCTTTGGGTCAACAAGGAGTAAAATGAGCATA
* *
31482654 ATGACCTTCGGGTCAACAAGGAGTAAAATGAGCATC
1 ATGACCTTTGGGTCAACAAGGAGTAAAATGAGCATA
*
31482690 ATGACCTTTGGGTCAAC-TGGAGTAAAATGA--ATA
1 ATGACCTTTGGGTCAACAAGGAGTAAAATGAGCATA
31482723 ATGA
1 ATGA
31482727 ACATTGAAGT
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
33 6 0.09
35 12 0.18
36 49 0.73
ACGTcount: A:0.37, C:0.15, G:0.26, T:0.23
Consensus pattern (36 bp):
ATGACCTTTGGGTCAACAAGGAGTAAAATGAGCATA
Found at i:31483420 original size:21 final size:21
Alignment explanation
Indices: 31483396--31483450 Score: 74
Period size: 21 Copynumber: 2.6 Consensus size: 21
31483386 TAGAAGTAAG
* *
31483396 ACTTGTTTCGGTAGAAGAGTC
1 ACTTGTATCGGTAGAACAGTC
* *
31483417 ACTTGTATCGATAGAACCGTC
1 ACTTGTATCGGTAGAACAGTC
31483438 ACTTGTATCGGTA
1 ACTTGTATCGGTA
31483451 AAAGTCTGCA
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 29 1.00
ACGTcount: A:0.25, C:0.18, G:0.24, T:0.33
Consensus pattern (21 bp):
ACTTGTATCGGTAGAACAGTC
Found at i:31483796 original size:40 final size:40
Alignment explanation
Indices: 31483728--31483839 Score: 154
Period size: 40 Copynumber: 2.8 Consensus size: 40
31483718 ACACTAAGAG
* *
31483728 CCGGGGAATAAATTCAAGCTTCGGCTTAGCAATCTA-AAA
1 CCGGTGAATAAATTCAAGCTTCGGCTTAGCAAACTACAAA
* * * *
31483767 GCTGGTGAATAAATTCAAGTTTCGACTTAGCAAACTACGAA
1 -CCGGTGAATAAATTCAAGCTTCGGCTTAGCAAACTACAAA
31483808 CCGGTGAATAAATTCAAGCTTCGGCTTAGCAA
1 CCGGTGAATAAATTCAAGCTTCGGCTTAGCAA
31483840 GCTATGAGCC
Statistics
Matches: 62, Mismatches: 9, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
40 60 0.97
41 2 0.03
ACGTcount: A:0.35, C:0.20, G:0.21, T:0.25
Consensus pattern (40 bp):
CCGGTGAATAAATTCAAGCTTCGGCTTAGCAAACTACAAA
Found at i:31483856 original size:40 final size:40
Alignment explanation
Indices: 31483720--31483856 Score: 150
Period size: 40 Copynumber: 3.4 Consensus size: 40
31483710 TTGGTGTTAC
* *
31483720 ACTAAGAGCCGGGGAATAAATTCAAGCTTCGGCTTAGCAA
1 ACTAAGAGCCTGTGAATAAATTCAAGCTTCGGCTTAGCAA
* * * *
31483760 TCTAAAAG-CTGGTGAATAAATTCAAGTTTCGACTTAGCAA
1 ACTAAGAGCCT-GTGAATAAATTCAAGCTTCGGCTTAGCAA
* * *
31483800 ACTACGAACCGGTGAATAAATTCAAGCTTCGGCTTAGCAA
1 ACTAAGAGCCTGTGAATAAATTCAAGCTTCGGCTTAGCAA
* * *
31483840 GCTATGAGCCTTTGAAT
1 ACTAAGAGCCTGTGAAT
31483857 GGATTAGTAA
Statistics
Matches: 77, Mismatches: 18, Indels: 4
0.78 0.18 0.04
Matches are distributed among these distances:
39 1 0.01
40 75 0.97
41 1 0.01
ACGTcount: A:0.34, C:0.19, G:0.21, T:0.26
Consensus pattern (40 bp):
ACTAAGAGCCTGTGAATAAATTCAAGCTTCGGCTTAGCAA
Found at i:31488517 original size:44 final size:44
Alignment explanation
Indices: 31488437--31488523 Score: 113
Period size: 44 Copynumber: 2.0 Consensus size: 44
31488427 CATAAAAAAT
* * *
31488437 CAAAACAACAAAAACAGCAACCAAAACAACAGCAAAAATAACAA
1 CAAAACAACAAAAACAGAAACAAAAACAACAACAAAAATAACAA
* *
31488481 CAAAACAACAAAAATAGAAACAAAAATAGA-AACAAAAATAACA
1 CAAAACAACAAAAACAGAAACAAAAACA-ACAACAAAAATAACA
31488524 GTAAAAAGCA
Statistics
Matches: 37, Mismatches: 5, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
44 36 0.97
45 1 0.03
ACGTcount: A:0.71, C:0.20, G:0.05, T:0.05
Consensus pattern (44 bp):
CAAAACAACAAAAACAGAAACAAAAACAACAACAAAAATAACAA
Found at i:31488519 original size:12 final size:12
Alignment explanation
Indices: 31488487--31488520 Score: 68
Period size: 12 Copynumber: 2.8 Consensus size: 12
31488477 ACAACAAAAC
31488487 AACAAAAATAGA
1 AACAAAAATAGA
31488499 AACAAAAATAGA
1 AACAAAAATAGA
31488511 AACAAAAATA
1 AACAAAAATA
31488521 ACAGTAAAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 22 1.00
ACGTcount: A:0.76, C:0.09, G:0.06, T:0.09
Consensus pattern (12 bp):
AACAAAAATAGA
Found at i:31488555 original size:20 final size:20
Alignment explanation
Indices: 31488520--31488591 Score: 76
Period size: 20 Copynumber: 3.6 Consensus size: 20
31488510 AAACAAAAAT
31488520 AACAGT-AAAAAG-CATCAA
1 AACAGTAAAAAAGACATCAA
31488538 AACAGTAAAAAAGACATCAA
1 AACAGTAAAAAAGACATCAA
** * *
31488558 AACAACAAAAAACAGCAACCAA
1 AACAGTAAAAAAGA-C-ATCAA
31488580 AACAGTAAAAAA
1 AACAGTAAAAAA
31488592 AAACCAAAAC
Statistics
Matches: 44, Mismatches: 6, Indels: 4
0.81 0.11 0.07
Matches are distributed among these distances:
18 6 0.14
19 6 0.14
20 17 0.39
21 1 0.02
22 14 0.32
ACGTcount: A:0.67, C:0.18, G:0.08, T:0.07
Consensus pattern (20 bp):
AACAGTAAAAAAGACATCAA
Found at i:31488580 original size:22 final size:19
Alignment explanation
Indices: 31488555--31488606 Score: 59
Period size: 22 Copynumber: 2.6 Consensus size: 19
31488545 AAAAAGACAT
31488555 CAAAACAACAAAAAACAGCAAC
1 CAAAACAACAAAAAA-A--AAC
**
31488577 CAAAACAGTAAAAAAAAAC
1 CAAAACAACAAAAAAAAAC
31488596 CAAAACAACAA
1 CAAAACAACAA
31488607 TACAATTTTT
Statistics
Matches: 26, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
19 12 0.46
21 1 0.04
22 13 0.50
ACGTcount: A:0.71, C:0.23, G:0.04, T:0.02
Consensus pattern (19 bp):
CAAAACAACAAAAAAAAAC
Found at i:31488596 original size:19 final size:20
Alignment explanation
Indices: 31488535--31488602 Score: 66
Period size: 20 Copynumber: 3.4 Consensus size: 20
31488525 TAAAAAGCAT
* * *
31488535 CAAAACAGTAAAAAAGACAT
1 CAAAACAGTAAAAAACAAAC
**
31488555 CAAAACAACAAAAAACAGCAAC
1 CAAAACAGTAAAAAACA--AAC
31488577 CAAAACAGTAAAAAA-AAAC
1 CAAAACAGTAAAAAACAAAC
31488596 CAAAACA
1 CAAAACA
31488603 ACAATACAAT
Statistics
Matches: 39, Mismatches: 7, Indels: 5
0.76 0.14 0.10
Matches are distributed among these distances:
19 10 0.26
20 14 0.36
21 1 0.03
22 14 0.36
ACGTcount: A:0.69, C:0.21, G:0.06, T:0.04
Consensus pattern (20 bp):
CAAAACAGTAAAAAACAAAC
Found at i:31489188 original size:68 final size:68
Alignment explanation
Indices: 31489104--31489237 Score: 268
Period size: 68 Copynumber: 2.0 Consensus size: 68
31489094 GAAGGAACTT
31489104 CTTCAGAGGTATCAGACTCTTCTTCATTCGCAGATACATTTTCAGTAGCATTATTTCCAATAGAA
1 CTTCAGAGGTATCAGACTCTTCTTCATTCGCAGATACATTTTCAGTAGCATTATTTCCAATAGAA
31489169 TTC
66 TTC
31489172 CTTCAGAGGTATCAGACTCTTCTTCATTCGCAGATACATTTTCAGTAGCATTATTTCCAATAGAA
1 CTTCAGAGGTATCAGACTCTTCTTCATTCGCAGATACATTTTCAGTAGCATTATTTCCAATAGAA
31489237 T
66 T
31489238 GGATAGGATC
Statistics
Matches: 66, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
68 66 1.00
ACGTcount: A:0.28, C:0.22, G:0.13, T:0.37
Consensus pattern (68 bp):
CTTCAGAGGTATCAGACTCTTCTTCATTCGCAGATACATTTTCAGTAGCATTATTTCCAATAGAA
TTC
Found at i:31493155 original size:24 final size:23
Alignment explanation
Indices: 31493111--31493184 Score: 85
Period size: 24 Copynumber: 3.0 Consensus size: 23
31493101 TCAGCGTTAT
*
31493111 ACCTTTCATTTCTCTTGACTTTTC
1 ACCTTTCATTTCT-TTAACTTTTC
*
31493135 ACCTTTTATCTTCTTTAACTTTTC
1 ACCTTTCAT-TTCTTTAACTTTTC
*
31493159 ACCTTTCATTTTCCTTAAACTTTTC
1 ACCTTTCA-TTT-CTTTAACTTTTC
31493184 A
1 A
31493185 TTTCTTTTAA
Statistics
Matches: 43, Mismatches: 4, Indels: 5
0.83 0.08 0.10
Matches are distributed among these distances:
24 26 0.60
25 17 0.40
ACGTcount: A:0.18, C:0.27, G:0.01, T:0.54
Consensus pattern (23 bp):
ACCTTTCATTTCTTTAACTTTTC
Found at i:31497726 original size:33 final size:32
Alignment explanation
Indices: 31497687--31497791 Score: 117
Period size: 33 Copynumber: 3.2 Consensus size: 32
31497677 AAATATAAAA
31497687 ATAAAATATTTGAAATATTTAATATAATTTAAT
1 ATAAAATATTT-AAATATTTAATATAATTTAAT
* * *
31497720 ATAAAATATTT-TAT-TTTAAAATATAGTTTAAA
1 ATAAAATATTTAAATATTT--AATATAATTTAAT
31497752 AT-AAATATTTTAAATATTTTAATATAATTTAAT
1 ATAAAATA-TTTAAATA-TTTAATATAATTTAAT
31497785 ATAAAAT
1 ATAAAAT
31497792 TATATTAAGA
Statistics
Matches: 59, Mismatches: 6, Indels: 13
0.76 0.08 0.17
Matches are distributed among these distances:
30 3 0.05
31 7 0.12
32 16 0.27
33 26 0.44
34 4 0.07
35 3 0.05
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.47
Consensus pattern (32 bp):
ATAAAATATTTAAATATTTAATATAATTTAAT
Found at i:31497842 original size:14 final size:14
Alignment explanation
Indices: 31497819--31497900 Score: 53
Period size: 14 Copynumber: 5.7 Consensus size: 14
31497809 TAAATTATAT
*
31497819 ATTATTTTTATTAA
1 ATTATATTTATTAA
*
31497833 ATTATATTTAAT-A
1 ATTATATTTATTAA
31497846 A-TA-ATTATATTAA
1 ATTATATT-TATTAA
* * *
31497859 AATATGATTAAATTATTT
1 ATTAT-ATT-TATTA--A
31497877 ATTATATTTATTAA
1 ATTATATTTATTAA
31497891 ATTATATTTA
1 ATTATATTTA
31497901 ATAATAATAA
Statistics
Matches: 53, Mismatches: 8, Indels: 14
0.71 0.11 0.19
Matches are distributed among these distances:
11 3 0.06
12 5 0.09
13 4 0.08
14 22 0.42
16 12 0.23
17 3 0.06
18 4 0.08
ACGTcount: A:0.44, C:0.00, G:0.01, T:0.55
Consensus pattern (14 bp):
ATTATATTTATTAA
Found at i:31497851 original size:16 final size:16
Alignment explanation
Indices: 31497832--31497908 Score: 53
Period size: 16 Copynumber: 5.2 Consensus size: 16
31497822 ATTTTTATTA
31497832 AATTATATTTAATAAT
1 AATTATATTTAATAAT
31497848 AATTATA-TTAA-AAT
1 AATTATATTTAATAAT
*
31497862 ATGATTA-AATT-AT--T
1 A--ATTATATTTAATAAT
* *
31497876 TATTATATTT-ATTA-
1 AATTATATTTAATAAT
31497890 AATTATATTTAATAAT
1 AATTATATTTAATAAT
31497906 AAT
1 AAT
31497909 AACAATAGTC
Statistics
Matches: 48, Mismatches: 4, Indels: 18
0.69 0.06 0.26
Matches are distributed among these distances:
12 4 0.08
13 5 0.10
14 14 0.29
15 9 0.19
16 16 0.33
ACGTcount: A:0.48, C:0.00, G:0.01, T:0.51
Consensus pattern (16 bp):
AATTATATTTAATAAT
Found at i:31497852 original size:21 final size:21
Alignment explanation
Indices: 31497788--31497908 Score: 69
Period size: 21 Copynumber: 6.0 Consensus size: 21
31497778 ATTTAATATA
*
31497788 AAATTATA-TTAAGAATATTATT
1 AAATTATATTTAATAATA--ATT
** *
31497810 AAATTATATATT-ATTTTTATT
1 AAATTATAT-TTAATAATAATT
31497831 AAATTATATTTAATAATAATT
1 AAATTATATTTAATAATAATT
* *
31497852 ATATTA-A---AAT-ATGATT
1 AAATTATATTTAATAATAATT
* * *
31497868 AAATTAT-TTATTATATTTATT
1 AAATTATATT-TAATAATAATT
31497889 AAATTATATTTAATAATAAT
1 AAATTATATTTAATAATAAT
31497909 AACAATAGTC
Statistics
Matches: 73, Mismatches: 16, Indels: 21
0.66 0.15 0.19
Matches are distributed among these distances:
16 10 0.14
17 3 0.04
20 5 0.07
21 41 0.56
22 10 0.14
23 2 0.03
24 2 0.03
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (21 bp):
AAATTATATTTAATAATAATT
Found at i:31497856 original size:26 final size:26
Alignment explanation
Indices: 31497730--31497908 Score: 82
Period size: 26 Copynumber: 7.0 Consensus size: 26
31497720 ATAAAATATT
* *
31497730 TTATTTTAAAATATAGTTTAA-AATAA
1 TTATATTAAATTATA-TTTAATAATAA
* *
31497756 ATATTTTAAA-TAT-TTTAAT-ATAA
1 TTATATTAAATTATATTTAATAATAA
* *
31497779 TTTAATATAAAATTATA-TTAAGAAT-A
1 -TT-ATATTAAATTATATTTAATAATAA
31497805 -T-TATTAAATTATATATT-AT--T--
1 TTATATTAAATTATAT-TTAATAATAA
31497825 TT-TATTAAATTATATTTAATAATAA
1 TTATATTAAATTATATTTAATAATAA
* *
31497850 TTATATTAAAATATGATTAAATTATTTATTATA
1 TTATATTAAATTAT-ATTTAA-TA---A-TA-A
31497883 TT-TATTAAATTATATTTAATAATAA
1 TTATATTAAATTATATTTAATAATAA
31497908 T
1 T
31497909 AACAATAGTC
Statistics
Matches: 120, Mismatches: 11, Indels: 45
0.68 0.06 0.26
Matches are distributed among these distances:
20 2 0.02
21 17 0.14
22 11 0.09
23 11 0.09
24 4 0.03
25 13 0.11
26 29 0.24
27 8 0.07
28 2 0.02
30 2 0.02
31 6 0.05
32 12 0.10
33 3 0.03
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (26 bp):
TTATATTAAATTATATTTAATAATAA
Found at i:31497870 original size:58 final size:59
Alignment explanation
Indices: 31497778--31497908 Score: 210
Period size: 58 Copynumber: 2.2 Consensus size: 59
31497768 TTTTAATATA
* * *
31497778 ATTTAATATAAAATTATATTAAGAATATTATTAAATTATATATTATTTTTATTAAATTAT
1 ATTTAATA-ATAATTATATTAAGAATATGATTAAATTATATATTATATTTATTAAATTAT
*
31497838 ATTTAATAATAATTATATTAA-AATATGATTAAATTATTTATTATATTTATTAAATTAT
1 ATTTAATAATAATTATATTAAGAATATGATTAAATTATATATTATATTTATTAAATTAT
31497896 ATTTAATAATAAT
1 ATTTAATAATAAT
31497909 AACAATAGTC
Statistics
Matches: 67, Mismatches: 4, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
58 47 0.70
59 12 0.18
60 8 0.12
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (59 bp):
ATTTAATAATAATTATATTAAGAATATGATTAAATTATATATTATATTTATTAAATTAT
Found at i:31498084 original size:16 final size:16
Alignment explanation
Indices: 31498063--31498109 Score: 67
Period size: 16 Copynumber: 2.9 Consensus size: 16
31498053 TGAATTACTG
31498063 ATTACAACTCTATTCA
1 ATTACAACTCTATTCA
*
31498079 ATTACAACTCTATTCC
1 ATTACAACTCTATTCA
* *
31498095 ATTAAAATTCTATTC
1 ATTACAACTCTATTC
31498110 CATTCTAGTA
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 28 1.00
ACGTcount: A:0.36, C:0.23, G:0.00, T:0.40
Consensus pattern (16 bp):
ATTACAACTCTATTCA
Found at i:31508979 original size:24 final size:24
Alignment explanation
Indices: 31508963--31509013 Score: 84
Period size: 24 Copynumber: 2.1 Consensus size: 24
31508953 AGTTTGACTT
*
31508963 AAACAAATAAATAGAGTTTAATTG
1 AAACAAATAAACAGAGTTTAATTG
*
31508987 AAACAAATAAACAGAGTTTAAATG
1 AAACAAATAAACAGAGTTTAATTG
31509011 AAA
1 AAA
31509014 GATTATTTCT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.59, C:0.06, G:0.12, T:0.24
Consensus pattern (24 bp):
AAACAAATAAACAGAGTTTAATTG
Found at i:31532336 original size:24 final size:25
Alignment explanation
Indices: 31532306--31532377 Score: 85
Period size: 25 Copynumber: 2.9 Consensus size: 25
31532296 GGTTAAACTC
31532306 TGTCTGGGCTCGTAAGAGCTAAACA
1 TGTCTGGGCTCGTAAGAGCTAAACA
* **
31532331 T-TCTGGGCTCGTGTA-AGCTAAAGT
1 TGTCTGGGCTCGT-AAGAGCTAAACA
*
31532355 TGTCTGGGCTCGTATGAGCTAAA
1 TGTCTGGGCTCGTAAGAGCTAAA
31532378 TTTCTGGAAG
Statistics
Matches: 39, Mismatches: 5, Indels: 6
0.78 0.10 0.12
Matches are distributed among these distances:
24 19 0.49
25 20 0.51
ACGTcount: A:0.24, C:0.18, G:0.29, T:0.29
Consensus pattern (25 bp):
TGTCTGGGCTCGTAAGAGCTAAACA
Found at i:31532366 original size:25 final size:22
Alignment explanation
Indices: 31532308--31532384 Score: 73
Period size: 24 Copynumber: 3.2 Consensus size: 22
31532298 TTAAACTCTG
* *
31532308 TCTGGGCTCGTAAGAGCTAAACAT
1 TCTGGGCTCGTTA-AGCTAAA-TT
31532332 TCTGGGCTCGTGTAAGCTAAAGTT
1 TCTGGGCTCGT-TAAGCTAAA-TT
*
31532356 GTCTGGGCTCGTATGAGCTAAATT
1 -TCTGGGCTCGT-TAAGCTAAATT
31532380 TCTGG
1 TCTGG
31532385 AAGACTCAGT
Statistics
Matches: 46, Mismatches: 5, Indels: 5
0.82 0.09 0.09
Matches are distributed among these distances:
23 5 0.11
24 21 0.46
25 20 0.43
ACGTcount: A:0.22, C:0.18, G:0.29, T:0.31
Consensus pattern (22 bp):
TCTGGGCTCGTTAAGCTAAATT
Found at i:31537542 original size:28 final size:28
Alignment explanation
Indices: 31537511--31537643 Score: 130
Period size: 28 Copynumber: 4.8 Consensus size: 28
31537501 GTAAGCAGAC
*
31537511 CAAAGCTATACCCGAGCCATAAACAAG-T
1 CAAAGCTATACCCGAGCTATAAA-AAGAT
* * * *
31537539 CAAACCTCTACTCGAGCTATAAATAGAT
1 CAAAGCTATACCCGAGCTATAAAAAGAT
*
31537567 CAAATG-TATACCCGAGCTAT-AATAGAT
1 CAAA-GCTATACCCGAGCTATAAAAAGAT
* *
31537594 CAAAGCTTTACCCGAGCTATAAACATG-T
1 CAAAGCTATACCCGAGCTATAAA-AAGAT
*
31537622 CAAAGCTCTACCCGAGCTATAA
1 CAAAGCTATACCCGAGCTATAA
31537644 GCAGAGTATC
Statistics
Matches: 88, Mismatches: 12, Indels: 10
0.80 0.11 0.09
Matches are distributed among these distances:
26 1 0.01
27 26 0.30
28 60 0.68
29 1 0.01
ACGTcount: A:0.39, C:0.26, G:0.14, T:0.22
Consensus pattern (28 bp):
CAAAGCTATACCCGAGCTATAAAAAGAT
Found at i:31541785 original size:188 final size:187
Alignment explanation
Indices: 31541437--31541803 Score: 680
Period size: 188 Copynumber: 2.0 Consensus size: 187
31541427 GTTTATTTAG
31541437 AATCTGAAACGAGCAGATTTTGTCATGTCATCTTGACATCGAAAGAGTCCTCATTGGGATATGGT
1 AATCTGAAACGAGCAGATTTTGTCATGTCATCTTGACATCGAAAGAGTCCTCATTGGGATATGGT
31541502 GACAATTTTGTCTTTTTTCTATAATTACTGTCTAACCAGACACTGTTGCAACTTGTAGAATGTAT
66 GACAATTTTGTCTTTTTTCTATAATTACTGTCTAACCAGACACTGTTGCAACTTGTAGAATGTAT
* *
31541567 AGGTTGTCGAATTTTTACCCTTTCATCAACACTAGATCTCTATGAGATATTATTCAA
131 AGGTTGTCGAATTTTTACCCTTTCATCAACACTAGATCTCCACGAGATATTATTCAA
*
31541624 AATCTGAAACGAGCAGATTTTTTCATGTCATCTTGACATCGAAAGAGTCCTCATTGGGATATGGT
1 AATCTGAAACGAGCAGATTTTGTCATGTCATCTTGACATCGAAAGAGTCCTCATTGGGATATGGT
*
31541689 GACAATTTTGTCTTTTTTTCTATAATTACTGTCTGACCAGACACTGTTGCAACTTGTAGAATGTA
66 GACAATTTTGTC-TTTTTTCTATAATTACTGTCTAACCAGACACTGTTGCAACTTGTAGAATGTA
*
31541754 TAGGTTGTCGAATTTTTGCCCTTTCATCAACACTAGATCTCCACGAGATA
130 TAGGTTGTCGAATTTTTACCCTTTCATCAACACTAGATCTCCACGAGATA
31541804 CTTAGGTCGT
Statistics
Matches: 174, Mismatches: 5, Indels: 1
0.97 0.03 0.01
Matches are distributed among these distances:
187 76 0.44
188 98 0.56
ACGTcount: A:0.28, C:0.18, G:0.17, T:0.37
Consensus pattern (187 bp):
AATCTGAAACGAGCAGATTTTGTCATGTCATCTTGACATCGAAAGAGTCCTCATTGGGATATGGT
GACAATTTTGTCTTTTTTCTATAATTACTGTCTAACCAGACACTGTTGCAACTTGTAGAATGTAT
AGGTTGTCGAATTTTTACCCTTTCATCAACACTAGATCTCCACGAGATATTATTCAA
Found at i:31546069 original size:21 final size:22
Alignment explanation
Indices: 31546025--31546080 Score: 80
Period size: 21 Copynumber: 2.6 Consensus size: 22
31546015 GAGTTTTTTA
*
31546025 GTATCGGTAG-AGAGTAAGACTT
1 GTATCGGTAGAAGAGT-ACACTT
31546047 GTATCGGTAGAAGAGT-CACTT
1 GTATCGGTAGAAGAGTACACTT
31546068 GTATCGGTAGAAG
1 GTATCGGTAGAAG
31546081 TCTGCATTAT
Statistics
Matches: 32, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
21 17 0.53
22 10 0.31
23 5 0.16
ACGTcount: A:0.30, C:0.11, G:0.32, T:0.27
Consensus pattern (22 bp):
GTATCGGTAGAAGAGTACACTT
Found at i:31547283 original size:26 final size:26
Alignment explanation
Indices: 31547254--31547310 Score: 71
Period size: 26 Copynumber: 2.2 Consensus size: 26
31547244 TGCCTCTTTT
*
31547254 AAAAA-ATATAAAATGTAATAGAATAA
1 AAAAACATATAAAA-GTAATAAAATAA
**
31547280 AAAAACATATACTAGTAATAAAATAA
1 AAAAACATATAAAAGTAATAAAATAA
31547306 AAAAA
1 AAAAA
31547311 TTGAGGCCCC
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
26 21 0.78
27 6 0.22
ACGTcount: A:0.70, C:0.04, G:0.05, T:0.21
Consensus pattern (26 bp):
AAAAACATATAAAAGTAATAAAATAA
Found at i:31550748 original size:4 final size:4
Alignment explanation
Indices: 31550733--31550766 Score: 50
Period size: 4 Copynumber: 8.5 Consensus size: 4
31550723 AGATGCATGA
* *
31550733 AAAT AGAT AAAT AAAT AAAT AAAT GAAT AAAT AA
1 AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AA
31550767 TTTAAGTAAA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
4 26 1.00
ACGTcount: A:0.71, C:0.00, G:0.06, T:0.24
Consensus pattern (4 bp):
AAAT
Found at i:31554641 original size:233 final size:233
Alignment explanation
Indices: 31554234--31554699 Score: 860
Period size: 233 Copynumber: 2.0 Consensus size: 233
31554224 GGGAGAGTAA
*
31554234 ATTGAGATCCTTTGACTCTTCTATTACCGTCACTTTTGTCTCCCAAGATGTTGGAAGACTATTTA
1 ATTGAGATCCTTTGACTCTTCTATTACCGTCACTTTTGGCTCCCAAGATGTTGGAAGACTATTTA
*
31554299 ACATCTTCTTCACCATCTTCTTGTTGGGATAGATCTTCCCAAGGGCTTTGAGACCATTGATAATG
66 ACATCTTCTTCACCATCTCCTTGTTGGGATAGATCTTCCCAAGGGCTTTGAGACCATTGATAATG
*
31554364 TTGGTGAAGTGATCGGACATCTCCTTGATTCTTTCCTTCGGTTTTGCCTTAAAAAATTCATAATC
131 TTGGTGAAGTGATCGGACATCTCCTTGATTCCTTCCTTCGGTTTTGCCTTAAAAAATTCATAATC
31554429 AAAGGTGAGAAGACTTATCTTTGATTCCTTGACTCTAC
196 AAAGGTGAGAAGACTTATCTTTGATTCCTTGACTCTAC
* *
31554467 ATTGAGATCCTTTGACTCTTCTATTGCCGTCATTTTTGGCTCCCAAGATGTTGGAAGACTATTTA
1 ATTGAGATCCTTTGACTCTTCTATTACCGTCACTTTTGGCTCCCAAGATGTTGGAAGACTATTTA
*
31554532 ACATCTTCTTCACCATCTCCTTGTTGGGATAGATCTTCTCAAGGGCTTTGAGACCATTGATAATG
66 ACATCTTCTTCACCATCTCCTTGTTGGGATAGATCTTCCCAAGGGCTTTGAGACCATTGATAATG
* *
31554597 TTGGTGAAGTGATCGGACATCTCTTTGATTCCTTCCTTCGGTTTTGCCTTAAATAATTCATAATC
131 TTGGTGAAGTGATCGGACATCTCCTTGATTCCTTCCTTCGGTTTTGCCTTAAAAAATTCATAATC
31554662 AAAGGTGAGAAGACTTATCTTTGATTCCTTGACTCTAC
196 AAAGGTGAGAAGACTTATCTTTGATTCCTTGACTCTAC
31554700 TTGTTCCTTC
Statistics
Matches: 225, Mismatches: 8, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
233 225 1.00
ACGTcount: A:0.24, C:0.21, G:0.18, T:0.38
Consensus pattern (233 bp):
ATTGAGATCCTTTGACTCTTCTATTACCGTCACTTTTGGCTCCCAAGATGTTGGAAGACTATTTA
ACATCTTCTTCACCATCTCCTTGTTGGGATAGATCTTCCCAAGGGCTTTGAGACCATTGATAATG
TTGGTGAAGTGATCGGACATCTCCTTGATTCCTTCCTTCGGTTTTGCCTTAAAAAATTCATAATC
AAAGGTGAGAAGACTTATCTTTGATTCCTTGACTCTAC
Found at i:31557576 original size:15 final size:15
Alignment explanation
Indices: 31557542--31557583 Score: 50
Period size: 15 Copynumber: 2.8 Consensus size: 15
31557532 ATTAGGCATG
*
31557542 AAAATAAAT-GACAA
1 AAAATAAATAAACAA
31557556 ATAAATAAATAAACAA
1 A-AAATAAATAAACAA
*
31557572 AAAATCAATAAA
1 AAAATAAATAAA
31557584 TTAAATGTGA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
14 1 0.04
15 18 0.75
16 5 0.21
ACGTcount: A:0.74, C:0.07, G:0.02, T:0.17
Consensus pattern (15 bp):
AAAATAAATAAACAA
Found at i:31558107 original size:18 final size:20
Alignment explanation
Indices: 31558080--31558119 Score: 66
Period size: 19 Copynumber: 2.1 Consensus size: 20
31558070 CTGTTAGGTT
31558080 TTTTTATTTTTA-TTTGAAG
1 TTTTTATTTTTATTTTGAAG
31558099 TTTTT-TTTTTATTTTGAAG
1 TTTTTATTTTTATTTTGAAG
31558118 TT
1 TT
31558120 GTATAAAAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
18 6 0.30
19 14 0.70
ACGTcount: A:0.17, C:0.00, G:0.10, T:0.72
Consensus pattern (20 bp):
TTTTTATTTTTATTTTGAAG
Found at i:31558880 original size:15 final size:17
Alignment explanation
Indices: 31558846--31558884 Score: 55
Period size: 15 Copynumber: 2.4 Consensus size: 17
31558836 TGAATTTGCG
31558846 AAATATAATTATATTAAT
1 AAAT-TAATTATATTAAT
31558864 AAATTAATT-TA-TAAT
1 AAATTAATTATATTAAT
31558879 AAATTA
1 AAATTA
31558885 TTAAAAATAT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
15 10 0.48
16 2 0.10
17 5 0.24
18 4 0.19
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (17 bp):
AAATTAATTATATTAAT
Found at i:31568653 original size:21 final size:21
Alignment explanation
Indices: 31568619--31568678 Score: 66
Period size: 21 Copynumber: 2.9 Consensus size: 21
31568609 AACAGTGCAG
* *
31568619 ACTTCTATCAATACAAGTGAC
1 ACTTCTACCGATACAAGTGAC
* *
31568640 AGTTCTACCGATACAAGAGAC
1 ACTTCTACCGATACAAGTGAC
* *
31568661 TCTTCTACCGAAACAAGT
1 ACTTCTACCGATACAAGT
31568679 CATCCATCTA
Statistics
Matches: 31, Mismatches: 8, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
21 31 1.00
ACGTcount: A:0.37, C:0.25, G:0.13, T:0.25
Consensus pattern (21 bp):
ACTTCTACCGATACAAGTGAC
Found at i:31570064 original size:22 final size:22
Alignment explanation
Indices: 31570022--31570064 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 22
31570012 TCATTAAGCT
* *
31570022 TTAATTAACTCCTTTTTTAATC
1 TTAATTAACACCTTTTATAATC
31570044 TTAATTAA-ACCTATTTATAAT
1 TTAATTAACACCT-TTTATAAT
31570065 TATTTTGACT
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
21 3 0.17
22 15 0.83
ACGTcount: A:0.35, C:0.14, G:0.00, T:0.51
Consensus pattern (22 bp):
TTAATTAACACCTTTTATAATC
Found at i:31577828 original size:17 final size:17
Alignment explanation
Indices: 31577808--31577846 Score: 53
Period size: 17 Copynumber: 2.3 Consensus size: 17
31577798 TGAAGAAATG
*
31577808 AGAA-AAAAGGAGAAGGA
1 AGAAGAAAAGAAG-AGGA
31577825 AGAAGAAAAGAAGAGGA
1 AGAAGAAAAGAAGAGGA
31577842 AGAAG
1 AGAAG
31577847 CCAAGGTAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
17 13 0.65
18 7 0.35
ACGTcount: A:0.64, C:0.00, G:0.36, T:0.00
Consensus pattern (17 bp):
AGAAGAAAAGAAGAGGA
Found at i:31581362 original size:18 final size:19
Alignment explanation
Indices: 31581327--31581362 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
31581317 TTTCTTAGAT
31581327 TTAGGTTTCATGTATTTTC
1 TTAGGTTTCATGTATTTTC
*
31581346 TTAGGTTT-ATTTATTTT
1 TTAGGTTTCATGTATTTT
31581363 ATCTTTTCGT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 8 0.50
19 8 0.50
ACGTcount: A:0.17, C:0.06, G:0.14, T:0.64
Consensus pattern (19 bp):
TTAGGTTTCATGTATTTTC
Found at i:31591162 original size:20 final size:20
Alignment explanation
Indices: 31591106--31591168 Score: 60
Period size: 20 Copynumber: 3.2 Consensus size: 20
31591096 GCGTGAATCT
*
31591106 ATTTTGACTTGTTTGAAAA-A
1 ATTTTGACATGTTT-AAAATA
*
31591126 ATTTTGA-A-GTGTTAAAATG
1 ATTTTGACATGT-TTAAAATA
*
31591145 ATTTTGACATGTTTAAAATC
1 ATTTTGACATGTTTAAAATA
31591165 ATTT
1 ATTT
31591169 GAACTTGATT
Statistics
Matches: 36, Mismatches: 3, Indels: 8
0.77 0.06 0.17
Matches are distributed among these distances:
18 6 0.17
19 9 0.25
20 19 0.53
21 2 0.06
ACGTcount: A:0.35, C:0.05, G:0.14, T:0.46
Consensus pattern (20 bp):
ATTTTGACATGTTTAAAATA
Found at i:31621623 original size:20 final size:21
Alignment explanation
Indices: 31621576--31621623 Score: 53
Period size: 20 Copynumber: 2.3 Consensus size: 21
31621566 CTTTTGATTG
*
31621576 ATGTTTGCCATTTTTTGACCG
1 ATGTTTGCCATTTTTTGACCA
** *
31621597 ACATTTGCTA-TTTTTGACCA
1 ATGTTTGCCATTTTTTGACCA
31621617 ATGTTTG
1 ATGTTTG
31621624 TAATCTTGGC
Statistics
Matches: 21, Mismatches: 6, Indels: 1
0.75 0.21 0.04
Matches are distributed among these distances:
20 14 0.67
21 7 0.33
ACGTcount: A:0.19, C:0.17, G:0.17, T:0.48
Consensus pattern (21 bp):
ATGTTTGCCATTTTTTGACCA
Found at i:31622494 original size:98 final size:100
Alignment explanation
Indices: 31622353--31622742 Score: 369
Period size: 98 Copynumber: 3.9 Consensus size: 100
31622343 GAGGGGTTAG
** * * * * * * * *
31622353 ATTGAAGCCGTGAAGACGAATTTTGTACCCTTAAAGCTATAGAGGGGTAAATTGAAGCCGCGAAG
1 ATTGAAGCCGCAAAGGCGAATCTTATACCCCTAAAGCTATAGAGGAGCAGATTGAAGCCGCAAAG
* *
31622418 GCTTATCTTATA-CCCTAAAGCTGTAGAGGGACAG
66 GCTAATCTTATACCCCTAAAGCTGTAGAGGGACAA
* * * * *
31622452 ATTGAA-CTGCAAAGGCGAATCTTATACCCCTAAAGTTGTAGAGGAGCATATTGAAGCCGTAAAG
1 ATTGAAGCCGCAAAGGCGAATCTTATACCCCTAAAGCTATAGAGGAGCAGATTGAAGCCGCAAAG
* * * * *
31622516 G-TGAATCTTATACTCTTAAACCTGTAGAGGG-TAT
66 GCT-AATCTTATACCCCTAAAGCTGTAGAGGGACAA
* * * * *
31622550 ATTGAAGCCGCAAAAGTGAA-ATTACACCCCTAAAGCTGTAGAGG-GACAGATTGAAGCCGCAAA
1 ATTGAAGCCGCAAAGGCGAATCTTATACCCCTAAAGCTATAGAGGAG-CAGATTGAAGCCGCAAA
* ** *
31622613 GGCGAATCTTATACCCCTAAAATTGTAGAGAGACAA
65 GGCTAATCTTATACCCCTAAAGCTGTAGAGGGACAA
* ** * * *
31622649 ATTAAAGCCGCAAAGATGAATCTTATACCCCTAAAGCTATAGAGGAGCCGATTGAAGCCGTAGAG
1 ATTGAAGCCGCAAAGGCGAATCTTATACCCCTAAAGCTATAGAGGAGCAGATTGAAGCCGCAAAG
* *
31622714 ACAAATCTTATACCCCTAAAGCTGTAGAG
66 GCTAATCTTATACCCCTAAAGCTGTAGAG
31622743 ATGTAGATTG
Statistics
Matches: 234, Mismatches: 49, Indels: 15
0.79 0.16 0.05
Matches are distributed among these distances:
97 2 0.01
98 121 0.52
99 49 0.21
100 61 0.26
101 1 0.00
ACGTcount: A:0.36, C:0.19, G:0.23, T:0.23
Consensus pattern (100 bp):
ATTGAAGCCGCAAAGGCGAATCTTATACCCCTAAAGCTATAGAGGAGCAGATTGAAGCCGCAAAG
GCTAATCTTATACCCCTAAAGCTGTAGAGGGACAA
Found at i:31622692 original size:148 final size:147
Alignment explanation
Indices: 31622378--31622693 Score: 429
Period size: 148 Copynumber: 2.1 Consensus size: 147
31622368 ACGAATTTTG
* * * ** *
31622378 TACCCTTAAAGCTATAGAGGGGTAAATTGAAGCCGCGAAGGCTTATCTTATACCCTAAAGCTGTA
1 TACCCTTAAAGCTATAGA-GGGTAAATTGAAGCCGCAAAAGCTGAAATTACACCCTAAAGCTGTA
* * * *
31622443 GAGGGACAGATTGAACTGCAAAGGCGAATCTTATACCCCTAAAGTTGTAGAGGAGCATATTGAAG
65 GAGGGACAGATTGAACCGCAAAGGCGAATCTTATACCCCTAAAATTGTAGAGGAGCAAATTAAAG
* *
31622508 CCGTAAAGGTGAATCTTA
130 CCGCAAAGATGAATCTTA
* * * *
31622526 TACTCTTAAACCTGTAGAGGGTATATTGAAGCCGCAAAAG-TGAAATTACACCCCTAAAGCTGTA
1 TACCCTTAAAGCTATAGAGGGTAAATTGAAGCCGCAAAAGCTGAAATTACA-CCCTAAAGCTGTA
31622590 GAGGGACAGATTGAAGCCGCAAAGGCGAATCTTATACCCCTAAAATTGTAGA-GAGACAAATTAA
65 GAGGGACAGATTGAA-CCGCAAAGGCGAATCTTATACCCCTAAAATTGTAGAGGAG-CAAATTAA
31622654 AGCCGCAAAGATGAATCTTA
128 AGCCGCAAAGATGAATCTTA
*
31622674 TACCCCTAAAGCTATAGAGG
1 TACCCTTAAAGCTATAGAGG
31622694 AGCCGATTGA
Statistics
Matches: 145, Mismatches: 20, Indels: 6
0.85 0.12 0.04
Matches are distributed among these distances:
146 6 0.04
147 50 0.34
148 89 0.61
ACGTcount: A:0.36, C:0.19, G:0.22, T:0.23
Consensus pattern (147 bp):
TACCCTTAAAGCTATAGAGGGTAAATTGAAGCCGCAAAAGCTGAAATTACACCCTAAAGCTGTAG
AGGGACAGATTGAACCGCAAAGGCGAATCTTATACCCCTAAAATTGTAGAGGAGCAAATTAAAGC
CGCAAAGATGAATCTTA
Found at i:31622752 original size:50 final size:50
Alignment explanation
Indices: 31622351--31622754 Score: 338
Period size: 50 Copynumber: 8.2 Consensus size: 50
31622341 TAGAGGGGTT
** * * * * * * *
31622351 AGATTGAAGCCGTGAAGACGAATTTTGTACCCTTAAAGCTATAGAGGGGT
1 AGATTGAAGCCGCAAAGGCGAATCTTATACCCCTAAAGCTGTAGAGAGGC
* * **
31622401 AAATTGAAGCCGCGAAGGCTTATCTTATA-CCCTAAAGCTGTAGAG-GGAC
1 AGATTGAAGCCGCAAAGGCGAATCTTATACCCCTAAAGCTGTAGAGAGG-C
* *
31622450 AGATTGAA-CTGCAAAGGCGAATCTTATACCCCTAAAGTTGTAGAG-GAGC
1 AGATTGAAGCCGCAAAGGCGAATCTTATACCCCTAAAGCTGTAGAGAG-GC
* * * * * * *
31622499 ATATTGAAGCCGTAAAGGTGAATCTTATACTCTTAAACCTGTAGAG-GGT
1 AGATTGAAGCCGCAAAGGCGAATCTTATACCCCTAAAGCTGTAGAGAGGC
* * * * *
31622548 ATATTGAAGCCGCAAAAGTGAA-ATTACACCCCTAAAGCTGTAGAG-GGAC
1 AGATTGAAGCCGCAAAGGCGAATCTTATACCCCTAAAGCTGTAGAGAGG-C
** *
31622597 AGATTGAAGCCGCAAAGGCGAATCTTATACCCCTAAAATTGTAGAGAGAC
1 AGATTGAAGCCGCAAAGGCGAATCTTATACCCCTAAAGCTGTAGAGAGGC
* * ** *
31622647 AAATTAAAGCCGCAAAGATGAATCTTATACCCCTAAAGCTATAGAG-GAGC
1 AGATTGAAGCCGCAAAGGCGAATCTTATACCCCTAAAGCTGTAGAGAG-GC
* * * * * * *
31622697 CGATTGAAGCCGTAGAGACAAATCTTATACCCCTAAAGCTGTAGAGATGT
1 AGATTGAAGCCGCAAAGGCGAATCTTATACCCCTAAAGCTGTAGAGAGGC
31622747 AGATTGAA
1 AGATTGAA
31622755 TGAGATTGGT
Statistics
Matches: 285, Mismatches: 60, Indels: 18
0.79 0.17 0.05
Matches are distributed among these distances:
48 38 0.13
49 86 0.30
50 160 0.56
51 1 0.00
ACGTcount: A:0.36, C:0.18, G:0.23, T:0.23
Consensus pattern (50 bp):
AGATTGAAGCCGCAAAGGCGAATCTTATACCCCTAAAGCTGTAGAGAGGC
Found at i:31623422 original size:30 final size:30
Alignment explanation
Indices: 31623382--31623445 Score: 78
Period size: 33 Copynumber: 2.1 Consensus size: 30
31623372 ACAAAAAAGG
31623382 AAAGAAATCGAA-ATA-AAAAAAAGATTGTA
1 AAAGAAATCGAATA-AGAAAAAAAGATTGTA
31623411 AAAGAAAATCGAATCAAGGAAAAAAAGATTGTA
1 AAAG-AAATCGAAT-AA-GAAAAAAAGATTGTA
31623444 AA
1 AA
31623446 TTTGTGTATA
Statistics
Matches: 30, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
29 4 0.13
30 8 0.27
31 1 0.03
32 1 0.03
33 16 0.53
ACGTcount: A:0.64, C:0.05, G:0.16, T:0.16
Consensus pattern (30 bp):
AAAGAAATCGAATAAGAAAAAAAGATTGTA
Found at i:31624630 original size:20 final size:20
Alignment explanation
Indices: 31624552--31624636 Score: 59
Period size: 20 Copynumber: 4.2 Consensus size: 20
31624542 GCCTGGAGCT
* *
31624552 ATTTTGACTTGTTTGAAAAAC
1 ATTTTGACATGTTT-AAAATC
*
31624573 ATTTTGA-A-GTGTTAAAATG
1 ATTTTGACATGT-TTAAAATC
* * * *
31624592 AATTTGACTTAG-TTCAAATT
1 ATTTTGACAT-GTTTAAAATC
31624612 ATTTTGACATGTTTAAAATC
1 ATTTTGACATGTTTAAAATC
31624632 ATTTT
1 ATTTT
31624637 AACTTGATTT
Statistics
Matches: 48, Mismatches: 11, Indels: 11
0.69 0.16 0.16
Matches are distributed among these distances:
19 13 0.27
20 27 0.56
21 7 0.15
22 1 0.02
ACGTcount: A:0.34, C:0.07, G:0.13, T:0.46
Consensus pattern (20 bp):
ATTTTGACATGTTTAAAATC
Found at i:31624848 original size:21 final size:22
Alignment explanation
Indices: 31624817--31624858 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 22
31624807 CTTCCTTTTA
*
31624817 TGAAACTAACGTAAACATATTT
1 TGAAACTAACGGAAACATATTT
31624839 TGAAA-TAACGGAAACATATT
1 TGAAACTAACGGAAACATATT
31624859 AGAAAGATAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 14 0.74
22 5 0.26
ACGTcount: A:0.48, C:0.12, G:0.12, T:0.29
Consensus pattern (22 bp):
TGAAACTAACGGAAACATATTT
Found at i:31636042 original size:18 final size:18
Alignment explanation
Indices: 31636019--31636062 Score: 61
Period size: 18 Copynumber: 2.4 Consensus size: 18
31636009 GTAAGCTGAA
*
31636019 GAAGAAGAAAAAGACCTT
1 GAAGAAGAAAAAGACCCT
*
31636037 GAAGAAGAAGAAGACCCT
1 GAAGAAGAAAAAGACCCT
*
31636055 GAGGAAGA
1 GAAGAAGA
31636063 TCCTGTGGAA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.52, C:0.11, G:0.30, T:0.07
Consensus pattern (18 bp):
GAAGAAGAAAAAGACCCT
Found at i:31640148 original size:16 final size:16
Alignment explanation
Indices: 31640104--31640151 Score: 51
Period size: 18 Copynumber: 2.8 Consensus size: 16
31640094 TTATCATAAT
* *
31640104 TTTTTTCTTCTTTTTCT
1 TTTTTTCTT-TTTCTCA
31640121 TTTTCTTCCTTTTTCTCA
1 TTTT-TT-CTTTTTCTCA
31640139 TTTTTTCTTTTTC
1 TTTTTTCTTTTTC
31640152 AAGTGACTGA
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
16 7 0.26
17 6 0.22
18 11 0.41
19 3 0.11
ACGTcount: A:0.02, C:0.21, G:0.00, T:0.77
Consensus pattern (16 bp):
TTTTTTCTTTTTCTCA
Found at i:31644774 original size:23 final size:22
Alignment explanation
Indices: 31644743--31644786 Score: 61
Period size: 23 Copynumber: 2.0 Consensus size: 22
31644733 AAAGAAATAA
*
31644743 AATTAACCCAATTTAATTAATT
1 AATTAACCCAAATTAATTAATT
*
31644765 AATTCAACCCAAATTATTTAAT
1 AATT-AACCCAAATTAATTAAT
31644787 GAAATATTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 4 0.21
23 15 0.79
ACGTcount: A:0.45, C:0.16, G:0.00, T:0.39
Consensus pattern (22 bp):
AATTAACCCAAATTAATTAATT
Found at i:31650216 original size:102 final size:102
Alignment explanation
Indices: 31650040--31650243 Score: 399
Period size: 102 Copynumber: 2.0 Consensus size: 102
31650030 CAACTACTTG
31650040 ATTTTCGACACCTTTTCTGTCTTGGATCTCAAGGTCAAATTCTTGGAGTAAGAGTATCCAATGAA
1 ATTTTCGACACCTTTTCTGTCTTGGATCTCAAGGTCAAATTCTTGGAGTAAGAGTATCCAATGAA
31650105 TTAGCCTCGATTTCGCATCTTTCTTCGTGAGCAAGTA
66 TTAGCCTCGATTTCGCATCTTTCTTCGTGAGCAAGTA
*
31650142 ATTTTTGACACCTTTTCTGTCTTGGATCTCAAGGTCAAATTCTTGGAGTAAGAGTATCCAATGAA
1 ATTTTCGACACCTTTTCTGTCTTGGATCTCAAGGTCAAATTCTTGGAGTAAGAGTATCCAATGAA
31650207 TTAGCCTCGATTTCGCATCTTTCTTCGTGAGCAAGTA
66 TTAGCCTCGATTTCGCATCTTTCTTCGTGAGCAAGTA
31650244 TTTAACGGCC
Statistics
Matches: 101, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
102 101 1.00
ACGTcount: A:0.25, C:0.20, G:0.19, T:0.37
Consensus pattern (102 bp):
ATTTTCGACACCTTTTCTGTCTTGGATCTCAAGGTCAAATTCTTGGAGTAAGAGTATCCAATGAA
TTAGCCTCGATTTCGCATCTTTCTTCGTGAGCAAGTA
Found at i:31655856 original size:23 final size:22
Alignment explanation
Indices: 31655825--31655868 Score: 61
Period size: 23 Copynumber: 2.0 Consensus size: 22
31655815 AAAGAAATAA
*
31655825 AATTAACCCAATTTAATTAATT
1 AATTAACCCAAATTAATTAATT
*
31655847 AATTCAACCCAAATTATTTAAT
1 AATT-AACCCAAATTAATTAAT
31655869 GAAATATTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 4 0.21
23 15 0.79
ACGTcount: A:0.45, C:0.16, G:0.00, T:0.39
Consensus pattern (22 bp):
AATTAACCCAAATTAATTAATT
Found at i:31664342 original size:13 final size:13
Alignment explanation
Indices: 31664310--31664348 Score: 51
Period size: 13 Copynumber: 2.8 Consensus size: 13
31664300 TAGCTTTAAC
*
31664310 TTAGATTAATTTAGT
1 TTAGATTAA--TACT
31664325 TTAGATTAATACT
1 TTAGATTAATACT
31664338 TTAGATTAATA
1 TTAGATTAATA
31664349 TCCTTCACAA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
13 14 0.61
15 9 0.39
ACGTcount: A:0.38, C:0.03, G:0.10, T:0.49
Consensus pattern (13 bp):
TTAGATTAATACT
Found at i:31670417 original size:24 final size:24
Alignment explanation
Indices: 31670373--31670421 Score: 66
Period size: 24 Copynumber: 2.0 Consensus size: 24
31670363 TTTTGATCTC
31670373 TCTTTCCTCTCCTCTTCTCCTAAT
1 TCTTTCCTCTCCTCTTCTCCTAAT
31670397 TCTTT-CTCTCCTTCCTT-TCCTAAT
1 TCTTTCCTCTCC-T-CTTCTCCTAAT
31670421 T
1 T
31670422 TCCTCTCTAG
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
23 6 0.26
24 14 0.61
25 3 0.13
ACGTcount: A:0.08, C:0.39, G:0.00, T:0.53
Consensus pattern (24 bp):
TCTTTCCTCTCCTCTTCTCCTAAT
Found at i:31677626 original size:25 final size:25
Alignment explanation
Indices: 31677598--31677650 Score: 61
Period size: 25 Copynumber: 2.1 Consensus size: 25
31677588 ATAATATAAA
*
31677598 AAATAATTATATTAAGAATATTATT
1 AAATAATTATAATAAGAATATTATT
* * * *
31677623 AAATTATTTTAATAATAATTTTATT
1 AAATAATTATAATAAGAATATTATT
31677648 AAA
1 AAA
31677651 ATTTAATAAC
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.47
Consensus pattern (25 bp):
AAATAATTATAATAAGAATATTATT
Found at i:31678057 original size:6 final size:6
Alignment explanation
Indices: 31678038--31678071 Score: 59
Period size: 6 Copynumber: 5.7 Consensus size: 6
31678028 TAGTTTTCCT
*
31678038 TATCTA TATTTA TATCTA TATCTA TATCTA TATC
1 TATCTA TATCTA TATCTA TATCTA TATCTA TATC
31678072 GTAAATAGAG
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
6 26 1.00
ACGTcount: A:0.32, C:0.15, G:0.00, T:0.53
Consensus pattern (6 bp):
TATCTA
Found at i:31678575 original size:26 final size:26
Alignment explanation
Indices: 31678514--31678576 Score: 67
Period size: 26 Copynumber: 2.5 Consensus size: 26
31678504 ACCTGAAAAA
*
31678514 AAATTGAAAAT-TTTATTTAAATTTT
1 AAATTAAAAATATTTATTTAAATTTT
** *
31678539 AAATTTTAAATATTTATTTACCA-TTT
1 AAATTAAAAATATTTATTTA-AATTTT
31678565 AAATTAAAAATA
1 AAATTAAAAATA
31678577 AAATGTATTT
Statistics
Matches: 31, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
25 9 0.29
26 21 0.68
27 1 0.03
ACGTcount: A:0.48, C:0.03, G:0.02, T:0.48
Consensus pattern (26 bp):
AAATTAAAAATATTTATTTAAATTTT
Found at i:31680489 original size:17 final size:17
Alignment explanation
Indices: 31680467--31680525 Score: 75
Period size: 17 Copynumber: 3.5 Consensus size: 17
31680457 AATTTAATTT
*
31680467 TAAATTTAAATTTATAA
1 TAAATTTAAATTTAAAA
*
31680484 TAAATTTAAATTCAAAA
1 TAAATTTAAATTTAAAA
*
31680501 TAAATCT-AATTTAAAA
1 TAAATTTAAATTTAAAA
31680517 CTAAATTTA
1 -TAAATTTA
31680526 TCTCATTGGG
Statistics
Matches: 35, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
16 8 0.23
17 27 0.77
ACGTcount: A:0.54, C:0.05, G:0.00, T:0.41
Consensus pattern (17 bp):
TAAATTTAAATTTAAAA
Found at i:31680963 original size:37 final size:37
Alignment explanation
Indices: 31680913--31681009 Score: 160
Period size: 37 Copynumber: 2.6 Consensus size: 37
31680903 TTTTAATTCG
*
31680913 CTTCTCTAGATCTCCTCAGGAAGACGAATTTGGTCCA
1 CTTCTCTGGATCTCCTCAGGAAGACGAATTTGGTCCA
31680950 CTTCTCTGGATCTCCTCAGGAAGACGAATTTGGTCCA
1 CTTCTCTGGATCTCCTCAGGAAGACGAATTTGGTCCA
*
31680987 CTTCTCTGTG-TCTCATCAGGAAG
1 CTTCTCTG-GATCTCCTCAGGAAG
31681010 CTAACCTTTT
Statistics
Matches: 57, Mismatches: 2, Indels: 2
0.93 0.03 0.03
Matches are distributed among these distances:
37 56 0.98
38 1 0.02
ACGTcount: A:0.22, C:0.27, G:0.21, T:0.31
Consensus pattern (37 bp):
CTTCTCTGGATCTCCTCAGGAAGACGAATTTGGTCCA
Found at i:31681299 original size:200 final size:200
Alignment explanation
Indices: 31680950--31681738 Score: 1174
Period size: 200 Copynumber: 3.9 Consensus size: 200
31680940 ATTTGGTCCA
*
31680950 CTTCTCTGGATCTCCTCAGGAAGACGAATTTGGTCCACTTCTCTGTGTCTCATCAGGAAGCTAAC
1 CTTCTCTGGATCTCCTCAGGAAGACGAATTTGGTCCACTTCTCTGTATCTCATCAGGAAGCTAAC
* * * * * *
31681015 CTTTTTATTGCTTT-GACCTGCTTCTCAGTATCTCATCAGGGAGCTGGGTTCGAAGATTTGCTCG
66 CATTTTATTG-TTTCGACCTGCTTCTCAGTGTCTCATCAGGAAGCTGAGTACGAAGATTGGCTCG
*
31681079 CGTTGAGCGTTGAGTTGGTATTCCTCTCTGTATCTCATCAGGAAGATGACCGCCTCTG-TTGTTT
130 TGTTGAGCGTTGAGTTGGTATTCCTCTCTGTATCTCATCAGGAAGATGACCGCCTC-GCTTGTTT
31681143 TAATTTG
194 TAATTTG
* * * * *
31681150 CTTCTTTGGATCTCCTCAGGAAGACAAATTTGGTCCACTTCTCTGTACCTCATCCGGAACCTAAC
1 CTTCTCTGGATCTCCTCAGGAAGACGAATTTGGTCCACTTCTCTGTATCTCATCAGGAAGCTAAC
*
31681215 CATTTTATTGTTTCGACCTGCTTCTCAGTGTCTCATCAGGAAGCTGAGTACGAAGATTTGCTCGC
66 CATTTTATTGTTTCGACCTGCTTCTCAGTGTCTCATCAGGAAGCTGAGTACGAAGATTGGCTCG-
* * * * *
31681280 T-TTGAGCGTTGATTTGGTATTCTTCTCTGTGTCTCATCAGGAAGATGACCGCCTCGTTTGTTTC
130 TGTTGAGCGTTGAGTTGGTATTCCTCTCTGTATCTCATCAGGAAGATGACCGCCTCGCTTGTTTT
*
31681344 AATTCG
195 AATTTG
* *
31681350 TTTCTCTGGATCTCCTCAGGAAGACGAATTTGGTCCACTTCTCTCTGTGTCTCATCAGGAAGCTA
1 CTTCTCTGGATCTCCTCAGGAAGACGAATTTGGTCCAC-T-TCTCTGTATCTCATCAGGAAGCTA
* * * ** *
31681415 ACCTTTTTATTGCTTCGACTTGCTTCTCAGTGTCTCATCAGGAAGCTGACCAC--AGCTTGGCTC
64 ACCATTTTATTGTTTCGACCTGCTTCTCAGTGTCTCATCAGGAAGCTGAGTACGAAGATTGGCTC
* *
31681478 GTGTTGTGCGTTGAGTTGGTATTCCTCTCTGTATCTCATTAGGAAGATGACCGCCTCGCTTGTTT
129 GTGTTGAGCGTTGAGTTGGTATTCCTCTCTGTATCTCATCAGGAAGATGACCGCCTCGCTTGTTT
31681543 TAATTTG
194 TAATTTG
* * *
31681550 CTTCTCTAGATCTCCTCAGGAAGACGAATTTGGTCCACTTCTCTGTATCTTACCAGGAAGCTAAC
1 CTTCTCTGGATCTCCTCAGGAAGACGAATTTGGTCCACTTCTCTGTATCTCATCAGGAAGCTAAC
*
31681615 CATTTTATTGTTTCGACCTGCTTCTCAGTGTCTCATCAGGAAGCTGGGTACGAAGATTGGCTCGT
66 CATTTTATTGTTTCGACCTGCTTCTCAGTGTCTCATCAGGAAGCTGAGTACGAAGATTGGCTCGT
*
31681680 GTTGAGCGTTGAGTTGGTATTCTTTCTCTGTATCTCATCAGGAAGATGACCGCCTCGCT
131 GTTGAGCGTTGAGTTGGTATTC-CTCTCTGTATCTCATCAGGAAGATGACCGCCTCGCT
31681739 GTCTTGTTAA
Statistics
Matches: 526, Mismatches: 54, Indels: 17
0.88 0.09 0.03
Matches are distributed among these distances:
198 68 0.13
199 6 0.01
200 349 0.66
201 35 0.07
202 68 0.13
ACGTcount: A:0.19, C:0.24, G:0.22, T:0.36
Consensus pattern (200 bp):
CTTCTCTGGATCTCCTCAGGAAGACGAATTTGGTCCACTTCTCTGTATCTCATCAGGAAGCTAAC
CATTTTATTGTTTCGACCTGCTTCTCAGTGTCTCATCAGGAAGCTGAGTACGAAGATTGGCTCGT
GTTGAGCGTTGAGTTGGTATTCCTCTCTGTATCTCATCAGGAAGATGACCGCCTCGCTTGTTTTA
ATTTG
Found at i:31693964 original size:59 final size:59
Alignment explanation
Indices: 31693919--31694180 Score: 348
Period size: 59 Copynumber: 4.4 Consensus size: 59
31693909 GGGAAAATTT
* * *
31693919 AGGGTTAAAAATGGGATTTTGGAAGGTTCAAGGGTAAAATGGTAATTTTTGGTAAAATC
1 AGGGTTAAAAATGGGATTTTGGAAAGCTCAAGGGTAAAATGGTAATTTTTGGTGAAATC
* * * *
31693978 GGGGTTAAAAAT-AGAGTTTTGGAAAGTTCAAGGATAAAATGGTAATTTTTGGTGAAATC
1 AGGGTTAAAAATGGGA-TTTTGGAAAGCTCAAGGGTAAAATGGTAATTTTTGGTGAAATC
* *
31694037 -GAGGTTAAAAATGGAATTTTGGAAAGCTCGAGGGTAAAATGGTAATTTTTGGTGAAATC
1 AG-GGTTAAAAATGGGATTTTGGAAAGCTCAAGGGTAAAATGGTAATTTTTGGTGAAATC
* * * **
31694096 AAGGTCAAAAATGGAATTTTGGAAAGCTCGGGGGTAAAATGGTAATTTTTGGTGAAATC
1 AGGGTTAAAAATGGGATTTTGGAAAGCTCAAGGGTAAAATGGTAATTTTTGGTGAAATC
* *
31694155 AGGATCAAAAATGGGATTTTGGAAAG
1 AGGGTTAAAAATGGGATTTTGGAAAG
31694181 TTTTGGGGTC
Statistics
Matches: 183, Mismatches: 16, Indels: 8
0.88 0.08 0.04
Matches are distributed among these distances:
58 3 0.02
59 179 0.98
60 1 0.01
ACGTcount: A:0.37, C:0.05, G:0.29, T:0.30
Consensus pattern (59 bp):
AGGGTTAAAAATGGGATTTTGGAAAGCTCAAGGGTAAAATGGTAATTTTTGGTGAAATC
Done.