Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A03
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: 105315579
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1369460 characters in sequence are not A, C, G, or T
File 176 of 325
Found at i:57167174 original size:2 final size:2
Alignment explanation
Indices: 57167167--57167194 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
57167157 GTACTCATGA
57167167 CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT
57167195 TTATCTCTGG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
CT
Found at i:57170127 original size:92 final size:93
Alignment explanation
Indices: 57169955--57170129 Score: 228
Period size: 94 Copynumber: 1.9 Consensus size: 93
57169945 ATTTGTGTGA
* * * * *
57169955 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCACATTATGAGAGCCAGTGTAAGACCATGTT
1 GCTAATGTAAGACATGTCTGGGACATGCATAGGCCACATGAT-AGAGCCAGTGTAAAACCATGTC
*
57170020 TAGGACATGGTATCGGCATTGAGACGAGT
65 TAGGACATGGCATCGGCATTGAGACGAGT
* * *
57170049 GCTAATGTAAGACATGTCTGGGACATGCATAGGCTACGA-GAT-GTGTCAGTGTAAAACCATGTC
1 GCTAATGTAAGACATGTCTGGGACATGCATAGGCCAC-ATGATAGAGCCAGTGTAAAACCATGTC
*
57170112 TGGGACATGGCATCGGCA
65 TAGGACATGGCATCGGCA
57170130 CGGTTATGTG
Statistics
Matches: 70, Mismatches: 10, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
92 33 0.47
94 36 0.51
95 1 0.01
ACGTcount: A:0.28, C:0.18, G:0.30, T:0.24
Consensus pattern (93 bp):
GCTAATGTAAGACATGTCTGGGACATGCATAGGCCACATGATAGAGCCAGTGTAAAACCATGTCT
AGGACATGGCATCGGCATTGAGACGAGT
Found at i:57170307 original size:27 final size:27
Alignment explanation
Indices: 57170277--57170358 Score: 164
Period size: 27 Copynumber: 3.0 Consensus size: 27
57170267 GTTTCGAATG
57170277 GTTCAACGGTGAGAGTTTTAAATTTAA
1 GTTCAACGGTGAGAGTTTTAAATTTAA
57170304 GTTCAACGGTGAGAGTTTTAAATTTAA
1 GTTCAACGGTGAGAGTTTTAAATTTAA
57170331 GTTCAACGGTGAGAGTTTTAAATTTAA
1 GTTCAACGGTGAGAGTTTTAAATTTAA
57170358 G
1 G
57170359 CTAATGAGAA
Statistics
Matches: 55, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 55 1.00
ACGTcount: A:0.33, C:0.07, G:0.23, T:0.37
Consensus pattern (27 bp):
GTTCAACGGTGAGAGTTTTAAATTTAA
Found at i:57173244 original size:23 final size:24
Alignment explanation
Indices: 57173197--57173252 Score: 78
Period size: 23 Copynumber: 2.4 Consensus size: 24
57173187 TCAGCTCGGA
57173197 AGAGCTTACCATTTTCAGCTCAAT
1 AGAGCTTACCATTTTCAGCTCAAT
* * *
57173221 AGAGCTTATCGTTTT-AGCTTAAT
1 AGAGCTTACCATTTTCAGCTCAAT
57173244 AGAGCTTAC
1 AGAGCTTAC
57173253 TGTTATCAGC
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
23 15 0.54
24 13 0.46
ACGTcount: A:0.29, C:0.20, G:0.16, T:0.36
Consensus pattern (24 bp):
AGAGCTTACCATTTTCAGCTCAAT
Found at i:57176561 original size:28 final size:28
Alignment explanation
Indices: 57176527--57176584 Score: 107
Period size: 28 Copynumber: 2.1 Consensus size: 28
57176517 AGAGAAGTCA
*
57176527 AATTGGGTATTGAGTTAATATCGAGAAC
1 AATTGGGTATTGAGTTAATACCGAGAAC
57176555 AATTGGGTATTGAGTTAATACCGAGAAC
1 AATTGGGTATTGAGTTAATACCGAGAAC
57176583 AA
1 AA
57176585 CTCTGATATC
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.38, C:0.09, G:0.24, T:0.29
Consensus pattern (28 bp):
AATTGGGTATTGAGTTAATACCGAGAAC
Found at i:57180691 original size:24 final size:24
Alignment explanation
Indices: 57180615--57180726 Score: 103
Period size: 24 Copynumber: 4.8 Consensus size: 24
57180605 GACTCACCAT
57180615 AGCTC-ATATGAGCTTACTG-TTTC
1 AGCTCAATA-GAGCTTACTGTTTTC
*
57180638 AGCTCGAA-AGAGCTTAC--TATTC
1 AGCTC-AATAGAGCTTACTGTTTTC
57180660 AG-TACAATAGAGCTTACTGTTTTC
1 AGCT-CAATAGAGCTTACTGTTTTC
*
57180684 AGCTCAATAGAGCTTACTGTTATC
1 AGCTCAATAGAGCTTACTGTTTTC
*
57180708 AACTC-ATGAAGAGCTTACT
1 AGCTCAAT--AGAGCTTACT
57180727 CGCCATGTCT
Statistics
Matches: 75, Mismatches: 4, Indels: 18
0.77 0.04 0.19
Matches are distributed among these distances:
21 3 0.04
22 15 0.20
23 15 0.20
24 30 0.40
25 12 0.16
ACGTcount: A:0.29, C:0.21, G:0.17, T:0.33
Consensus pattern (24 bp):
AGCTCAATAGAGCTTACTGTTTTC
Found at i:57187668 original size:43 final size:43
Alignment explanation
Indices: 57187606--57187711 Score: 124
Period size: 43 Copynumber: 2.5 Consensus size: 43
57187596 AATAGGACAG
* * * *
57187606 GGTCTTACTCTTAAACACATAT-TGATGCCAACATCCCAGACGT
1 GGTCTTACACGTAATCACATATCT-ATGCCAACATCCCAAACGT
* *
57187649 TGTCTTACACGTAATCACATATCTATGCCAACGTCCCAAACGT
1 GGTCTTACACGTAATCACATATCTATGCCAACATCCCAAACGT
* *
57187692 GGCCTTTCACGTAATCACAT
1 GGTCTTACACGTAATCACAT
57187712 GTCTCATATA
Statistics
Matches: 53, Mismatches: 9, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
43 52 0.98
44 1 0.02
ACGTcount: A:0.29, C:0.29, G:0.13, T:0.28
Consensus pattern (43 bp):
GGTCTTACACGTAATCACATATCTATGCCAACATCCCAAACGT
Found at i:57190489 original size:30 final size:30
Alignment explanation
Indices: 57190430--57190489 Score: 75
Period size: 30 Copynumber: 2.0 Consensus size: 30
57190420 ATTTACGGGC
* * *
57190430 CTAGGGGTAAAATCGTAATTTGGTGAAAGT
1 CTAGGGGAAAAATCGTAATTTAGTCAAAGT
* *
57190460 CTAGGGGAAAAATGGTCATTTAGTCAAAGT
1 CTAGGGGAAAAATCGTAATTTAGTCAAAGT
57190490 ATAAATTATG
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.35, C:0.08, G:0.28, T:0.28
Consensus pattern (30 bp):
CTAGGGGAAAAATCGTAATTTAGTCAAAGT
Found at i:57192154 original size:27 final size:27
Alignment explanation
Indices: 57192123--57192300 Score: 169
Period size: 27 Copynumber: 6.6 Consensus size: 27
57192113 ATATTAAGTC
* *
57192123 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAATCAACT
* * *
57192150 TGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
* *
57192177 CACACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAATC-AACT
** ** *
57192205 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAATCAACT
* **
57192232 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAATCAACT
* * *
57192259 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
57192286 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
57192301 GTACAATTTA
Statistics
Matches: 125, Mismatches: 23, Indels: 6
0.81 0.15 0.04
Matches are distributed among these distances:
27 102 0.82
28 23 0.18
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.28
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAATCAACT
Found at i:57192283 original size:54 final size:55
Alignment explanation
Indices: 57192123--57192300 Score: 191
Period size: 54 Copynumber: 3.3 Consensus size: 55
57192113 ATATTAAGTC
* * * * * * *
57192123 CGCACACTCAGTGCTATATAATC-AACTTGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAACTCGCACACTTAGTGCAACATAGTCAAAT
* ** * *
57192177 CACACACTTAGTGCTACATAGTCAAACTCGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAACTCGCACACTTAGTGCAACATAGTCAAAT
* **
57192232 CGCACACTTAGTGC-ATCATATTC-ATTTCGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTA-CATAGTCAAACTCGCACACTTAGTGCAACATAGTCAAAT
57192286 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
57192301 GTACAATTTA
Statistics
Matches: 102, Mismatches: 19, Indels: 5
0.81 0.15 0.04
Matches are distributed among these distances:
54 59 0.58
55 43 0.42
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.28
Consensus pattern (55 bp):
CGCACACTTAGTGCTACATAGTCAAACTCGCACACTTAGTGCAACATAGTCAAAT
Found at i:57196211 original size:50 final size:50
Alignment explanation
Indices: 57196096--57196325 Score: 222
Period size: 50 Copynumber: 4.7 Consensus size: 50
57196086 TGATATGTGT
* *
57196096 GCTAGTGTAAGA-CATGTCTGGGACAT-GCATCGG-C-C-ACATTATGAGA
1 GCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGAGAGT-TGAGA
* * * * *
57196142 CCCAGTGTAAAACCATGTCTGGGACATGGCATTGGCCTCGAGAGTTGAAA
1 GCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGAGAGTTGAGA
* * * * *
57196192 GCTTGTGTAAGACCATGTCTGGGACATGGTATCGGCATCGACAGATGAGA
1 GCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGAGAGTTGAGA
* * * * *
57196242 GCCAGTGTAAGACCTTGTTTGGGACATGGCATCAGTCTC-AGTA-TGTGAGA
1 GCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGAG-AGT-TGAGA
*
57196292 GCTAGTGTAAGACCATGTTTGGGACATGGCATCG
1 GCTAGTGTAAGACCATGTCTGGGACATGGCATCG
57196326 ACTTTGATGT
Statistics
Matches: 147, Mismatches: 30, Indels: 10
0.79 0.16 0.05
Matches are distributed among these distances:
46 9 0.06
47 14 0.10
48 6 0.04
49 2 0.01
50 113 0.77
51 3 0.02
ACGTcount: A:0.26, C:0.19, G:0.30, T:0.25
Consensus pattern (50 bp):
GCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGAGAGTTGAGA
Found at i:57196251 original size:100 final size:98
Alignment explanation
Indices: 57196096--57196325 Score: 272
Period size: 100 Copynumber: 2.3 Consensus size: 98
57196086 TGATATGTGT
*
57196096 GCTAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCACATTATGAGACCCAGTGTAAAACCATG
1 GCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCACATGATGAGACCCAGTGTAAAACCATG
**
57196159 TCTGGGACATGGCATTGGCCTCGAG-A-GTTGAAA
66 TCTGGGACATGGCATCAGCCTC-AGTATG-TGAAA
* * * *
57196192 GCTTGTGTAAGACCATGTCTGGGACATGGTATCGGCATCGACA-GATGAGAGCCAGTGTAAGACC
1 GCTAGTGTAAGACCATGTCTGGGACATGGCATCGGC--C-ACATGATGAGACCCAGTGTAAAACC
* * * *
57196256 TTGTTTGGGACATGGCATCAGTCTCAGTATGTGAGA
63 ATGTCTGGGACATGGCATCAGCCTCAGTATGTGAAA
*
57196292 GCTAGTGTAAGACCATGTTTGGGACATGGCATCG
1 GCTAGTGTAAGACCATGTCTGGGACATGGCATCG
57196326 ACTTTGATGT
Statistics
Matches: 113, Mismatches: 14, Indels: 10
0.82 0.10 0.07
Matches are distributed among these distances:
96 11 0.10
97 14 0.12
98 7 0.06
99 2 0.02
100 75 0.66
101 4 0.04
ACGTcount: A:0.26, C:0.19, G:0.30, T:0.25
Consensus pattern (98 bp):
GCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCACATGATGAGACCCAGTGTAAAACCATG
TCTGGGACATGGCATCAGCCTCAGTATGTGAAA
Found at i:57196340 original size:100 final size:99
Alignment explanation
Indices: 57196096--57196368 Score: 265
Period size: 100 Copynumber: 2.8 Consensus size: 99
57196086 TGATATGTGT
* * * *
57196096 GCTAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCACAT-TATGAGACCCAGTGTAAAACCAT
1 GCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCTAGATGTATGAGAGCCAGTGTAAGACCAT
**
57196158 GTCTGGGACATGGCATTGGCCTCGAGAGTTGAAA
66 GTCTGGGACATGGCATCAGCCTCGAGAGTTGAAA
* * * *
57196192 GCTTGTGTAAGACCATGTCTGGGACATGGTATCGGCATCGACAG-ATGAGAGCCAGTGTAAGACC
1 GCTAGTGTAAGACCATGTCTGGGACATGGCATCGGC-TAGA-TGTATGAGAGCCAGTGTAAGACC
* * * *
57196256 TTGTTTGGGACATGGCATCAGTCTC-AGTA-TGTGAGA
64 ATGTCTGGGACATGGCATCAGCCTCGAG-AGT-TGAAA
* * * * *
57196292 GCTAGTGTAAGACCATGTTTGGGACATGGCATCGACTTTGATGTAT--GAGCCAGTATAAGACAA
1 GCTAGTGTAAGACCATGTCTGGGACATGGCATCGGC-TAGATGTATGAGAGCCAGTGTAAGACCA
*
57196355 TGTCTGGGATATGG
65 TGTCTGGGACATGG
57196369 TGTCTGTATC
Statistics
Matches: 143, Mismatches: 26, Indels: 14
0.78 0.14 0.08
Matches are distributed among these distances:
96 11 0.08
97 14 0.10
98 33 0.23
99 5 0.03
100 80 0.56
ACGTcount: A:0.27, C:0.18, G:0.30, T:0.26
Consensus pattern (99 bp):
GCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCTAGATGTATGAGAGCCAGTGTAAGACCAT
GTCTGGGACATGGCATCAGCCTCGAGAGTTGAAA
Found at i:57201918 original size:19 final size:20
Alignment explanation
Indices: 57201894--57201934 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 20
57201884 GCGACCATAC
*
57201894 GTCCT-ACCCACACGGGTGT
1 GTCCTAACCCACACGGGCGT
*
57201913 GTCCTAAGCCACACGGGCGT
1 GTCCTAACCCACACGGGCGT
57201933 GT
1 GT
57201935 GATCCCTATT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
19 5 0.26
20 14 0.74
ACGTcount: A:0.17, C:0.34, G:0.29, T:0.20
Consensus pattern (20 bp):
GTCCTAACCCACACGGGCGT
Found at i:57204201 original size:40 final size:40
Alignment explanation
Indices: 57204137--57204220 Score: 105
Period size: 40 Copynumber: 2.1 Consensus size: 40
57204127 AAAATCGAAT
* * * * *
57204137 AGATTGAGTATTAGCGGCGTTTTTATCAAAGCGCCGCTAA
1 AGATCGAGCATTAGCGACATTTTTAACAAAGCGCCGCTAA
**
57204177 AGATCGAGCATTAGCGACATTTTTAAGGAAGCGCCGCTAA
1 AGATCGAGCATTAGCGACATTTTTAACAAAGCGCCGCTAA
57204217 AGAT
1 AGAT
57204221 TGACCTATAG
Statistics
Matches: 37, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
40 37 1.00
ACGTcount: A:0.31, C:0.18, G:0.25, T:0.26
Consensus pattern (40 bp):
AGATCGAGCATTAGCGACATTTTTAACAAAGCGCCGCTAA
Found at i:57205125 original size:21 final size:21
Alignment explanation
Indices: 57205101--57205168 Score: 66
Period size: 21 Copynumber: 3.2 Consensus size: 21
57205091 TCTGTAGTTG
*
57205101 TAAATCATAAACTA-TAAACCT
1 TAAATCCTAAA-TATTAAACCT
*
57205122 TAAACCCTAAATATTAAACCT
1 TAAATCCTAAATATTAAACCT
* * *
57205143 TGAATCCTAAATCATAAAACCC
1 TAAATCCTAAAT-ATTAAACCT
57205165 TAAA
1 TAAA
57205169 CTATAGATAG
Statistics
Matches: 38, Mismatches: 7, Indels: 3
0.79 0.15 0.06
Matches are distributed among these distances:
20 2 0.05
21 26 0.68
22 10 0.26
ACGTcount: A:0.50, C:0.22, G:0.01, T:0.26
Consensus pattern (21 bp):
TAAATCCTAAATATTAAACCT
Found at i:57205296 original size:21 final size:21
Alignment explanation
Indices: 57205262--57205318 Score: 69
Period size: 21 Copynumber: 2.7 Consensus size: 21
57205252 TTATAAAGCG
*
57205262 TCTTAAAACTATAAACCCTAAA
1 TCTT-AAACCATAAACCCTAAA
*
57205284 TCTTAAACCATAAGCCCTAAA
1 TCTTAAACCATAAACCCTAAA
**
57205305 TCCAAAACCATAAA
1 TCTTAAACCATAAA
57205319 ACCTTAAACT
Statistics
Matches: 30, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
21 26 0.87
22 4 0.13
ACGTcount: A:0.49, C:0.26, G:0.02, T:0.23
Consensus pattern (21 bp):
TCTTAAACCATAAACCCTAAA
Found at i:57209673 original size:48 final size:48
Alignment explanation
Indices: 57209612--57209987 Score: 653
Period size: 48 Copynumber: 7.8 Consensus size: 48
57209602 ATATATGTGC
* *
57209612 GTGGTAAAGCCGAATGGCTAGTGTGAAATATATATGAGATATGTATAT
1 GTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATAT
57209660 GTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATAT
1 GTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATAT
57209708 GTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATAT
1 GTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATAT
*
57209756 GTGGTAAAGCCGAATGGCTAAAGTGAAATATGTATGAGATATGTATAT
1 GTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATAT
* *
57209804 GTGGTAAAGCCGAATGGCTAGTGTGAAATATATATGAGATATGTATAT
1 GTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATAT
*
57209852 GTGGTAAAGCCAAATGGCTAATGTGAAATATGTATGAGATATGTATAT
1 GTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATAT
* *
57209900 GTGGTAAAGCCAAATGGCTAGTGTGAAATATGTATGAGATATGTATAT
1 GTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATAT
* * *
57209948 GTGGTAAAGCGGAATGGCTAGTGTGAAATATGTAGGAGAT
1 GTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGAT
57209988 GTGTGTATAT
Statistics
Matches: 315, Mismatches: 13, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
48 315 1.00
ACGTcount: A:0.36, C:0.06, G:0.28, T:0.30
Consensus pattern (48 bp):
GTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATAT
Found at i:57210178 original size:37 final size:37
Alignment explanation
Indices: 57210128--57210233 Score: 194
Period size: 37 Copynumber: 2.9 Consensus size: 37
57210118 GGAAATATAT
57210128 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
*
57210165 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
*
57210202 TCCGGGTAAGACCCGATAACTACGTGTGGAGA
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGA
57210234 CTAGTCGAGC
Statistics
Matches: 67, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 67 1.00
ACGTcount: A:0.25, C:0.20, G:0.32, T:0.24
Consensus pattern (37 bp):
TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
Found at i:57213548 original size:19 final size:18
Alignment explanation
Indices: 57213524--57213639 Score: 65
Period size: 19 Copynumber: 5.9 Consensus size: 18
57213514 CAATTTTATT
57213524 TTAATTAATATAATTTGGA
1 TTAATTAATATAATTT-GA
* *
57213543 TTAATTTATTTAAATATT-A
1 TTAATTAATAT-AAT-TTGA
*
57213562 TTTAATTAATTTAATTTGGA
1 -TTAATTAATATAATTT-GA
57213582 TTAATTAATAATATAATTTAGA
1 TTAA-T--TAATATAATTT-GA
* *
57213604 TTAATTTATTTAAATATT-A
1 TTAATTAATAT-AAT-TTGA
57213623 TTAAATTAATATAATTT
1 TT-AATTAATATAATTT
57213640 TTATAAATAT
Statistics
Matches: 77, Mismatches: 9, Indels: 23
0.71 0.08 0.21
Matches are distributed among these distances:
18 4 0.05
19 27 0.35
20 25 0.32
21 5 0.06
22 16 0.21
ACGTcount: A:0.43, C:0.00, G:0.04, T:0.53
Consensus pattern (18 bp):
TTAATTAATATAATTTGA
Found at i:57213555 original size:24 final size:24
Alignment explanation
Indices: 57213523--57213577 Score: 67
Period size: 24 Copynumber: 2.3 Consensus size: 24
57213513 TCAATTTTAT
*
57213523 TTTAATT-AATATAATTTGGATTAA
1 TTTAATTAAATATAATTT-AATTAA
* *
57213547 TTTATTTAAATATTATTTAATTAA
1 TTTAATTAAATATAATTTAATTAA
57213571 TTTAATT
1 TTTAATT
57213578 TGGATTAATT
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
24 17 0.65
25 9 0.35
ACGTcount: A:0.40, C:0.00, G:0.04, T:0.56
Consensus pattern (24 bp):
TTTAATTAAATATAATTTAATTAA
Found at i:57213598 original size:22 final size:23
Alignment explanation
Indices: 57213558--57213609 Score: 70
Period size: 22 Copynumber: 2.3 Consensus size: 23
57213548 TTATTTAAAT
* * *
57213558 ATTATTTAATTAATTTAATTTGG
1 ATTAATTAATTAATATAATTTAG
57213581 ATTAATTAA-TAATATAATTTAG
1 ATTAATTAATTAATATAATTTAG
57213603 ATTAATT
1 ATTAATT
57213610 TATTTAAATA
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
22 18 0.69
23 8 0.31
ACGTcount: A:0.42, C:0.00, G:0.06, T:0.52
Consensus pattern (23 bp):
ATTAATTAATTAATATAATTTAG
Found at i:57213606 original size:61 final size:62
Alignment explanation
Indices: 57213524--57213639 Score: 198
Period size: 61 Copynumber: 1.9 Consensus size: 62
57213514 CAATTTTATT
* * *
57213524 TTAATTAATATAATTTGGATTAATTTATTTAAATATTATTTAATTAATTTAATTTGGATTAA
1 TTAATTAATATAATTTAGATTAATTTATTTAAATATTATTAAATTAATATAATTTGGATTAA
57213586 TTAA-TAATATAATTTAGATTAATTTATTTAAATATTATTAAATTAATATAATTT
1 TTAATTAATATAATTTAGATTAATTTATTTAAATATTATTAAATTAATATAATTT
57213640 TTATAAATAT
Statistics
Matches: 51, Mismatches: 3, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
61 47 0.92
62 4 0.08
ACGTcount: A:0.43, C:0.00, G:0.04, T:0.53
Consensus pattern (62 bp):
TTAATTAATATAATTTAGATTAATTTATTTAAATATTATTAAATTAATATAATTTGGATTAA
Found at i:57213658 original size:29 final size:28
Alignment explanation
Indices: 57213544--57213671 Score: 114
Period size: 29 Copynumber: 4.3 Consensus size: 28
57213534 TAATTTGGAT
*
57213544 TAATTTATTTAAATATTATTTAATTAATT
1 TAATTT-TTTAAATATTATTTAATTAATA
* * * *
57213573 TAATTTGGATTAATTAATAATATAATTTAGAT-
1 TAATTT--TTTAAAT-ATTATTTAA-TTA-ATA
*
57213605 TAATTTATTTAAATATTATTAAATTAATA
1 TAATTT-TTTAAATATTATTTAATTAATA
*
57213634 TAATTTTTATAAATATTATTTAATTAAAA
1 TAATTTTT-TAAATATTATTTAATTAATA
57213663 TAATTTTTT
1 TAATTTTTT
57213672 TTCCATGTGA
Statistics
Matches: 80, Mismatches: 13, Indels: 13
0.75 0.12 0.12
Matches are distributed among these distances:
28 5 0.06
29 41 0.51
30 11 0.14
31 12 0.15
32 9 0.11
33 2 0.03
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (28 bp):
TAATTTTTTAAATATTATTTAATTAATA
Found at i:57213661 original size:15 final size:15
Alignment explanation
Indices: 57213546--57213661 Score: 55
Period size: 15 Copynumber: 7.7 Consensus size: 15
57213536 ATTTGGATTA
*
57213546 ATTTATTTAAATATT
1 ATTTAATTAAATATT
57213561 ATTTAATT-AAT-TT
1 ATTTAATTAAATATT
* * *
57213574 AATTTGGATTAATTAATA
1 -ATTT-AATTAAAT-ATT
* * *
57213592 ATATAATTTAGAT-TA
1 ATTTAA-TTAAATATT
*
57213607 ATTTATTTAAATATT
1 ATTTAATTAAATATT
*
57213622 ATTAAATTAATATAATT
1 ATTTAATTAA-AT-ATT
57213639 -TTT-A-TAAATATT
1 ATTTAATTAAATATT
57213651 ATTTAATTAAA
1 ATTTAATTAAA
57213662 ATAATTTTTT
Statistics
Matches: 74, Mismatches: 15, Indels: 24
0.65 0.13 0.21
Matches are distributed among these distances:
12 3 0.04
13 7 0.09
14 16 0.22
15 30 0.41
16 7 0.09
17 10 0.14
18 1 0.01
ACGTcount: A:0.45, C:0.00, G:0.03, T:0.53
Consensus pattern (15 bp):
ATTTAATTAAATATT
Found at i:57213959 original size:9 final size:9
Alignment explanation
Indices: 57213942--57214243 Score: 306
Period size: 9 Copynumber: 34.7 Consensus size: 9
57213932 TATATACTTG
57213942 AACTTACAT
1 AACTTACAT
*
57213951 AACTCACAT
1 AACTTACAT
*
57213960 GACTTACAT
1 AACTTACAT
57213969 AACTTACAT
1 AACTTACAT
57213978 AACTTACAT
1 AACTTACAT
**
57213987 AACACACAT
1 AACTTACAT
*
57213996 AACTCACAT
1 AACTTACAT
*
57214005 AACATACAT
1 AACTTACAT
*
57214014 AACTTATAT
1 AACTTACAT
57214023 AACTTACAT
1 AACTTACAT
57214032 AACTTACAT
1 AACTTACAT
*
57214041 AACTCACAT
1 AACTTACAT
57214050 AAC-T---T
1 AACTTACAT
57214055 -ACTTACAT
1 AACTTACAT
*
57214063 AACTCACAT
1 AACTTACAT
57214072 AACTTACAT
1 AACTTACAT
*
57214081 AACTTATAT
1 AACTTACAT
57214090 AACTTACAT
1 AACTTACAT
*
57214099 AACTTGCAT
1 AACTTACAT
*
57214108 AACTCACAT
1 AACTTACAT
57214117 AACTTACAT
1 AACTTACAT
57214126 AACTT--AT
1 AACTTACAT
*
57214133 -ATTTACAT
1 AACTTACAT
57214141 AACTTACAT
1 AACTTACAT
*
57214150 AACTCACAT
1 AACTTACAT
* *
57214159 AACTCAAAT
1 AACTTACAT
57214168 AACTTAC-T
1 AACTTACAT
57214176 GAACTTACAT
1 -AACTTACAT
*
57214186 AATTTACAT
1 AACTTACAT
57214195 AACTTACAT
1 AACTTACAT
57214204 AA--TACAT
1 AACTTACAT
* *
57214211 AAATATATAT
1 AACT-TACAT
57214221 AA--TATCAT
1 AACTTA-CAT
*
57214229 AACTTGCAT
1 AACTTACAT
57214238 AACTTA
1 AACTTA
57214244 ATTAGAGTTA
Statistics
Matches: 243, Mismatches: 34, Indels: 32
0.79 0.11 0.10
Matches are distributed among these distances:
4 2 0.01
5 2 0.01
6 3 0.01
7 11 0.05
8 8 0.03
9 209 0.86
10 8 0.03
ACGTcount: A:0.45, C:0.22, G:0.01, T:0.32
Consensus pattern (9 bp):
AACTTACAT
Found at i:57214061 original size:22 final size:22
Alignment explanation
Indices: 57214033--57214078 Score: 92
Period size: 22 Copynumber: 2.1 Consensus size: 22
57214023 AACTTACATA
57214033 ACTTACATAACTCACATAACTT
1 ACTTACATAACTCACATAACTT
57214055 ACTTACATAACTCACATAACTT
1 ACTTACATAACTCACATAACTT
57214077 AC
1 AC
57214079 ATAACTTATA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.41, C:0.28, G:0.00, T:0.30
Consensus pattern (22 bp):
ACTTACATAACTCACATAACTT
Found at i:57222187 original size:92 final size:92
Alignment explanation
Indices: 57222076--57222244 Score: 295
Period size: 92 Copynumber: 1.8 Consensus size: 92
57222066 GCCCCTAAGT
* *
57222076 GAACTCGGACTCAACTCAACGAGCT-GGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCAT-AGTGAACTCGGACTCAACTCAA
57222140 CGAGTTCGGATGCCTAGTTACATCTCAC
65 CGAGTTCGGATGCCTAGTTACATCTCAC
*
57222168 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAGTGAACTCGGACTCAACTCAAC
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAGTGAACTCGGACTCAACTCAAC
57222233 GAGTTCGGATGC
66 GAGTTCGGATGC
57222245 TCAACCATCC
Statistics
Matches: 73, Mismatches: 3, Indels: 2
0.94 0.04 0.03
Matches are distributed among these distances:
92 59 0.81
93 14 0.19
ACGTcount: A:0.28, C:0.29, G:0.22, T:0.21
Consensus pattern (92 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAGTGAACTCGGACTCAACTCAAC
GAGTTCGGATGCCTAGTTACATCTCAC
Found at i:57222241 original size:45 final size:46
Alignment explanation
Indices: 57222071--57222241 Score: 201
Period size: 45 Copynumber: 3.7 Consensus size: 46
57222061 AACCCGCCCC
* * *
57222071 TAAGTGAACTCGGACTCAACTCAACGAGCT-GGGCGTTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
*
57222116 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT-C-
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCATCCA
* *
57222164 TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
57222209 T-AGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
57222242 TGCTCAACCA
Statistics
Matches: 108, Mismatches: 8, Indels: 20
0.79 0.06 0.15
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 3 0.03
45 59 0.55
46 2 0.02
47 29 0.27
48 2 0.02
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.29, C:0.28, G:0.22, T:0.22
Consensus pattern (46 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
Found at i:57222697 original size:30 final size:30
Alignment explanation
Indices: 57222663--57222722 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
57222653 ATTTAATACG
57222663 AACTTTGGAAAAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
* * *
57222693 AACTTTTGCATAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
57222723 GGCTCAGGAA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.30, C:0.25, G:0.08, T:0.37
Consensus pattern (30 bp):
AACTTTGGAAAAATTACACTTTTGCCCCTA
Found at i:57224784 original size:30 final size:30
Alignment explanation
Indices: 57224749--57224808 Score: 95
Period size: 30 Copynumber: 2.0 Consensus size: 30
57224739 CAAGAAAAAT
*
57224749 GAATAAAGAAATCCA-AGATAGAGAAACCCA
1 GAATAAAGAAATCCAGA-ATAAAGAAACCCA
57224779 GAATAAAGAAATCCAGAATAAAGAAACCCA
1 GAATAAAGAAATCCAGAATAAAGAAACCCA
57224809 AGATACGATA
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
30 27 0.96
31 1 0.04
ACGTcount: A:0.58, C:0.17, G:0.15, T:0.10
Consensus pattern (30 bp):
GAATAAAGAAATCCAGAATAAAGAAACCCA
Found at i:57224788 original size:15 final size:15
Alignment explanation
Indices: 57224749--57224808 Score: 77
Period size: 15 Copynumber: 4.0 Consensus size: 15
57224739 CAAGAAAAAT
*
57224749 GAATAAAGAAATCCA
1 GAATAAAGAAACCCA
*
57224764 -AGATAGAGAAACCCA
1 GA-ATAAAGAAACCCA
*
57224779 GAATAAAGAAATCCA
1 GAATAAAGAAACCCA
57224794 GAATAAAGAAACCCA
1 GAATAAAGAAACCCA
57224809 AGATACGATA
Statistics
Matches: 38, Mismatches: 5, Indels: 4
0.81 0.11 0.09
Matches are distributed among these distances:
14 1 0.03
15 36 0.95
16 1 0.03
ACGTcount: A:0.58, C:0.17, G:0.15, T:0.10
Consensus pattern (15 bp):
GAATAAAGAAACCCA
Found at i:57229529 original size:20 final size:19
Alignment explanation
Indices: 57229506--57229552 Score: 58
Period size: 21 Copynumber: 2.4 Consensus size: 19
57229496 TATTTCTTAA
57229506 AATTAAAACTCAATTCTACC
1 AATTAAAACTCAATTC-ACC
* *
57229526 AATTCAAAACTCCATTCAGC
1 AATT-AAAACTCAATTCACC
57229546 AATTAAA
1 AATTAAA
57229553 CATGAATTAC
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
19 3 0.12
20 10 0.42
21 11 0.46
ACGTcount: A:0.47, C:0.23, G:0.02, T:0.28
Consensus pattern (19 bp):
AATTAAAACTCAATTCACC
Found at i:57231100 original size:27 final size:28
Alignment explanation
Indices: 57230921--57231100 Score: 129
Period size: 27 Copynumber: 6.6 Consensus size: 28
57230911 TTAGTTTACC
*
57230921 AAATTACCAAAATACCC-CTAATTTGTA
1 AAATTACCAAAATACCCTCTGATTTGTA
*
57230948 AAATTACCAAAATACCC-CTGATTTGTG
1 AAATTACCAAAATACCCTCTGATTTGTA
** **
57230975 AAATTACTGAAATACCCTC-GACCTGTA
1 AAATTACCAAAATACCCTCTGATTTGTA
*** *
57231002 AAATTATTGAAATACCCT-TGACTTGTA
1 AAATTACCAAAATACCCTCTGATTTGTA
* * **
57231029 AATTTACCAAAGTACCC-CTGATTTACA
1 AAATTACCAAAATACCCTCTGATTTGTA
* **** **
57231056 GAATTACCGTTTTACCCTC-GATTTACA
1 AAATTACCAAAATACCCTCTGATTTGTA
57231083 AAATTACCAAAATACCCT
1 AAATTACCAAAATACCCT
57231101 TGTAGGGTAG
Statistics
Matches: 121, Mismatches: 28, Indels: 8
0.77 0.18 0.05
Matches are distributed among these distances:
27 119 0.98
28 2 0.02
ACGTcount: A:0.38, C:0.23, G:0.08, T:0.31
Consensus pattern (28 bp):
AAATTACCAAAATACCCTCTGATTTGTA
Found at i:57231117 original size:27 final size:27
Alignment explanation
Indices: 57231087--57231221 Score: 173
Period size: 27 Copynumber: 5.0 Consensus size: 27
57231077 TTTACAAAAT
*
57231087 TACCAAAATACCCTTGTAGGGTAGAAA
1 TACCGAAATACCCTTGTAGGGTAGAAA
*
57231114 TACCGAAATACCCTTGTAAGGTAGAAA
1 TACCGAAATACCCTTGTAGGGTAGAAA
* *
57231141 TACCGAAATACCCCTGTAGGGTAGAAT
1 TACCGAAATACCCTTGTAGGGTAGAAA
* * * *
57231168 TACTGAAATACCCCTATAGGGTAGAAT
1 TACCGAAATACCCTTGTAGGGTAGAAA
* *
57231195 TACCGAGATACCCTTGTGGGGTA-AAA
1 TACCGAAATACCCTTGTAGGGTAGAAA
57231221 T
1 T
57231222 TACCATTTTA
Statistics
Matches: 95, Mismatches: 13, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
26 3 0.03
27 92 0.97
ACGTcount: A:0.36, C:0.19, G:0.21, T:0.24
Consensus pattern (27 bp):
TACCGAAATACCCTTGTAGGGTAGAAA
Found at i:57231522 original size:26 final size:27
Alignment explanation
Indices: 57231493--57231552 Score: 68
Period size: 27 Copynumber: 2.3 Consensus size: 27
57231483 CCACATATAT
*
57231493 ATATCTGT-TCTGGTGGCCTAGCCACA
1 ATATCTGTATCTGGTGACCTAGCCACA
* * * *
57231519 ATATTTGTATCTGGTGACTTCGTCACA
1 ATATCTGTATCTGGTGACCTAGCCACA
57231546 ATATCTG
1 ATATCTG
57231553 GCAGCCTCAC
Statistics
Matches: 27, Mismatches: 6, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
26 7 0.26
27 20 0.74
ACGTcount: A:0.22, C:0.22, G:0.20, T:0.37
Consensus pattern (27 bp):
ATATCTGTATCTGGTGACCTAGCCACA
Found at i:57231703 original size:6 final size:6
Alignment explanation
Indices: 57231675--57231758 Score: 57
Period size: 6 Copynumber: 13.7 Consensus size: 6
57231665 ATTCGCATTT
* * * *
57231675 TGATTT TGATTC TG-TTAC TTGATAC TGATTC TGATTC TGATTT TG-TCACC
1 TGATTC TGATTC TGATT-C -TGATTC TGATTC TGATTC TGATTC TGAT--TC
*
57231725 TAATTC TGATTC TGATTC TGATTC T-AGTTC TGAT
1 TGATTC TGATTC TGATTC TGATTC TGA-TTC TGAT
57231759 AATGTTTCTT
Statistics
Matches: 61, Mismatches: 9, Indels: 16
0.71 0.10 0.19
Matches are distributed among these distances:
5 4 0.07
6 50 0.82
7 5 0.08
8 2 0.03
ACGTcount: A:0.19, C:0.15, G:0.15, T:0.50
Consensus pattern (6 bp):
TGATTC
Found at i:57231716 original size:31 final size:30
Alignment explanation
Indices: 57231675--57231774 Score: 94
Period size: 31 Copynumber: 3.3 Consensus size: 30
57231665 ATTCGCATTT
*
57231675 TGATTTTGATTCTGTTACTTGATACTGATTC
1 TGATTCTGATTCTGTTAC-TGATACTGATTC
* * * *
57231706 TGATTCTGATTTTGTCACCTAATTCTGATTC
1 TGATTCTGATTCTGTTA-CTGATACTGATTC
* *
57231737 TGATTCTGATTCTAGTT-CTGATAATGTTTC
1 TGATTCTGATTCT-GTTACTGATACTGATTC
*
57231767 TTATTCTG
1 TGATTCTG
57231775 TAATGGGTTA
Statistics
Matches: 55, Mismatches: 12, Indels: 5
0.76 0.17 0.07
Matches are distributed among these distances:
30 16 0.29
31 36 0.65
32 3 0.05
ACGTcount: A:0.19, C:0.15, G:0.15, T:0.51
Consensus pattern (30 bp):
TGATTCTGATTCTGTTACTGATACTGATTC
Found at i:57233730 original size:27 final size:27
Alignment explanation
Indices: 57233699--57233757 Score: 84
Period size: 27 Copynumber: 2.2 Consensus size: 27
57233689 TAGAATACTT
*
57233699 TAGTTTACCAAATTACCAAAATACCCC
1 TAGTTTACAAAATTACCAAAATACCCC
**
57233726 TAGTTTGTAAAATTACCAAAATACCCC
1 TAGTTTACAAAATTACCAAAATACCCC
57233753 T-GTTT
1 TAGTTT
57233758 TGTGAAATTA
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
26 4 0.14
27 25 0.86
ACGTcount: A:0.37, C:0.24, G:0.07, T:0.32
Consensus pattern (27 bp):
TAGTTTACAAAATTACCAAAATACCCC
Found at i:57233759 original size:27 final size:27
Alignment explanation
Indices: 57233708--57233886 Score: 139
Period size: 27 Copynumber: 6.6 Consensus size: 27
57233698 TTAGTTTACC
57233708 AAATTACCAAAATACCCCT-AGTTTGTA
1 AAATTACCAAAATACCCCTGA-TTTGTA
* *
57233735 AAATTACCAAAATACCCCTGTTTTGTG
1 AAATTACCAAAATACCCCTGATTTGTA
** **
57233762 AAATTACTGAAATA-CCCTCGACCTGTA
1 AAATTACCAAAATACCCCT-GATTTGTA
** * *
57233789 AAATTATTAAAATACCCTTGACTTGTA
1 AAATTACCAAAATACCCCTGATTTGTA
* *
57233816 AAATTACCAAAGTACCCCTGATTTATA
1 AAATTACCAAAATACCCCTGATTTGTA
* *** **
57233843 GAATTACCATTTTA-CCCTCGATTTACA
1 AAATTACCAAAATACCCCT-GATTTGTA
*
57233870 AAATTACCGAAATACCC
1 AAATTACCAAAATACCC
57233887 TTGTAGGGTA
Statistics
Matches: 119, Mismatches: 28, Indels: 9
0.76 0.18 0.06
Matches are distributed among these distances:
26 8 0.07
27 106 0.89
28 5 0.04
ACGTcount: A:0.38, C:0.23, G:0.08, T:0.31
Consensus pattern (27 bp):
AAATTACCAAAATACCCCTGATTTGTA
Found at i:57233899 original size:27 final size:27
Alignment explanation
Indices: 57233869--57234012 Score: 139
Period size: 27 Copynumber: 5.3 Consensus size: 27
57233859 CTCGATTTAC
57233869 AAAATTACCGAAATACCCTTGTAGGGT
1 AAAATTACCGAAATACCCTTGTAGGGT
* *
57233896 AAAAATACCGAACTACCCTTGTAGGGT
1 AAAATTACCGAAATACCCTTGTAGGGT
* *
57233923 AGAAA-TACCAAAATACCCCTGTAGGGT
1 A-AAATTACCGAAATACCCTTGTAGGGT
* ** * *
57233950 AGAATTATTGAAATACCCCTATAGGGT
1 AAAATTACCGAAATACCCTTGTAGGGT
* * *
57233977 AGAATTACC-AAGATACCTTTGTGGGGT
1 AAAATTACCGAA-ATACCCTTGTAGGGT
*
57234004 GAAATTACC
1 AAAATTACC
57234013 ATTTTACCCT
Statistics
Matches: 96, Mismatches: 18, Indels: 6
0.80 0.15 0.05
Matches are distributed among these distances:
26 4 0.04
27 89 0.93
28 3 0.03
ACGTcount: A:0.37, C:0.19, G:0.19, T:0.25
Consensus pattern (27 bp):
AAAATTACCGAAATACCCTTGTAGGGT
Found at i:57234317 original size:27 final size:26
Alignment explanation
Indices: 57234279--57234338 Score: 66
Period size: 27 Copynumber: 2.3 Consensus size: 26
57234269 CCACATATAT
* *
57234279 ATATTTGTTCTGGTGGCCTAGCCACA
1 ATATCTGTTCTGGTGACCTAGCCACA
* * *
57234305 ATATCTGTATCTGGTGACTTCGTCACA
1 ATATCTGT-TCTGGTGACCTAGCCACA
57234332 ATATCTG
1 ATATCTG
57234339 GTAGCCTCAC
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
26 7 0.25
27 21 0.75
ACGTcount: A:0.22, C:0.22, G:0.20, T:0.37
Consensus pattern (26 bp):
ATATCTGTTCTGGTGACCTAGCCACA
Found at i:57234502 original size:31 final size:31
Alignment explanation
Indices: 57234457--57234535 Score: 106
Period size: 31 Copynumber: 2.5 Consensus size: 31
57234447 TTGCATTCAC
* *
57234457 ATTCTGATTTTGATTCTGTTACCTAATAT-TG
1 ATTCTGATTCTGATTCTGTCACCTAAT-TCTG
* *
57234488 ATTTTGATTCTGATTCTGTCACCTGATTCTG
1 ATTCTGATTCTGATTCTGTCACCTAATTCTG
57234519 ATTCTGATTCTGATTCT
1 ATTCTGATTCTGATTCT
57234536 AGTTCTGATA
Statistics
Matches: 42, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
30 1 0.02
31 41 0.98
ACGTcount: A:0.19, C:0.16, G:0.14, T:0.51
Consensus pattern (31 bp):
ATTCTGATTCTGATTCTGTCACCTAATTCTG
Found at i:57234503 original size:6 final size:6
Alignment explanation
Indices: 57234486--57234544 Score: 59
Period size: 6 Copynumber: 9.7 Consensus size: 6
57234476 TACCTAATAT
* *
57234486 TGATTT TGATTC TGATTC TG-TCACC TGATTC TGATTC TGATTC TGATTC
1 TGATTC TGATTC TGATTC TGAT--TC TGATTC TGATTC TGATTC TGATTC
57234535 T-AGTTC TGAT
1 TGA-TTC TGAT
57234545 AATGTTTCTT
Statistics
Matches: 45, Mismatches: 3, Indels: 10
0.78 0.05 0.17
Matches are distributed among these distances:
5 2 0.04
6 38 0.84
7 4 0.09
8 1 0.02
ACGTcount: A:0.17, C:0.17, G:0.17, T:0.49
Consensus pattern (6 bp):
TGATTC
Found at i:57236422 original size:37 final size:37
Alignment explanation
Indices: 57236372--57236450 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
57236362 TTATTACGAA
* * *
57236372 GTCTTACCCGGACATAATCTCCACACGAAGTTATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
*
57236409 GTCTTACCCGGACAAAATCCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
57236446 GTCTT
1 GTCTT
57236451 TAGAGCTCAG
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.25, C:0.32, G:0.19, T:0.24
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
Found at i:57236642 original size:47 final size:47
Alignment explanation
Indices: 57236568--57237111 Score: 1001
Period size: 47 Copynumber: 11.7 Consensus size: 47
57236558 GCCCTTCGGG
* *
57236568 ACTTATCACATTCATCACATTGGCCATTAGGCCCTATCACATATATAC
1 ACTT-TCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
57236616 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
1 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
57236663 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
1 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
*
57236710 ACTTTCACATTCATCA-ATCGGCCATTAGGCATTATCACATATATAC
1 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
57236756 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
1 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
57236803 ACTTTCACATTCATCACATCGGCCATTA-G--TTATCACATATATAC
1 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
*
57236847 ACTTTCACATTCATCACATCGGCCATTAGGCATTATCACATATATAC
1 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
57236894 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
1 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
57236941 ACTTTCACATTCATCACATCGGCCATTAGG-CTTATCACATATATA-
1 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
57236986 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
1 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
57237033 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
1 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
57237080 ACTTTCACATTCATCACATCGGCCATTAGGCC
1 ACTTTCACATTCATCACATCGGCCATTAGGCC
57237112 ATACTATCAT
Statistics
Matches: 485, Mismatches: 5, Indels: 13
0.96 0.01 0.03
Matches are distributed among these distances:
44 43 0.09
45 31 0.06
46 76 0.16
47 331 0.68
48 4 0.01
ACGTcount: A:0.30, C:0.29, G:0.09, T:0.32
Consensus pattern (47 bp):
ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
Found at i:57236979 original size:231 final size:232
Alignment explanation
Indices: 57236568--57237110 Score: 993
Period size: 231 Copynumber: 2.3 Consensus size: 232
57236558 GCCCTTCGGG
* *
57236568 ACTTATCACATTCATCACATTGGCCATTAGGCCCTATCACATATATACACTTTCACATTCATCAC
1 ACTT-TCACATTCATCACATCGGCCATTAGG-CTTATCACATATATACACTTTCACATTCATCAC
*
57236633 ATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTA
64 ATCGGCCATTAGGCATTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTA
57236698 TCACATATATACACTTTCACATTCATCAATCGGCCATTAGGCATTATCACATATATACACTTTCA
129 TCACATATATACACTTTCACATTCATCAATCGGCCATTAGGCATTATCACATATATA-ACTTTCA
57236763 CATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
193 CATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
57236803 ACTTTCACATTCATCACATCGGCCATTA-G-TTATCACATATATACACTTTCACATTCATCACAT
1 ACTTTCACATTCATCACATCGGCCATTAGGCTTATCACATATATACACTTTCACATTCATCACAT
57236866 CGGCCATTAGGCATTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATC
66 CGGCCATTAGGCATTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATC
57236931 ACATATATACACTTTCACATTCATCACATCGGCCATTAGGC-TTATCACATATATAACTTTCACA
131 ACATATATACACTTTCACATTCATCA-ATCGGCCATTAGGCATTATCACATATATAACTTTCACA
57236995 TTCATCACATCGGCCATTAGGCCTTATCACATATATAC
195 TTCATCACATCGGCCATTAGGCCTTATCACATATATAC
57237033 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACA
1 ACTTTCACATTCATCACATCGGCCATTAGG-CTTATCACATATATACACTTTCACATTCATCACA
57237098 TCGGCCATTAGGC
65 TCGGCCATTAGGC
57237111 CATACTATCA
Statistics
Matches: 301, Mismatches: 3, Indels: 10
0.96 0.01 0.03
Matches are distributed among these distances:
230 75 0.25
231 138 0.46
232 14 0.05
233 47 0.16
234 23 0.08
235 4 0.01
ACGTcount: A:0.30, C:0.29, G:0.09, T:0.32
Consensus pattern (232 bp):
ACTTTCACATTCATCACATCGGCCATTAGGCTTATCACATATATACACTTTCACATTCATCACAT
CGGCCATTAGGCATTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATC
ACATATATACACTTTCACATTCATCAATCGGCCATTAGGCATTATCACATATATAACTTTCACAT
TCATCACATCGGCCATTAGGCCTTATCACATATATAC
Found at i:57240807 original size:40 final size:40
Alignment explanation
Indices: 57240523--57240861 Score: 366
Period size: 40 Copynumber: 8.5 Consensus size: 40
57240513 AGCATGATTA
* * * *
57240523 CTCTTCGGGACCTAGCCCGGATATAACACCAGCACGAATG
1 CTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAATG
* * * *
57240563 CTCTTTGGG-TTTAGCACGGATATA-CACTAGCACGAATG
1 CTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAATG
* *
57240601 CTCTTCGGAACTTAGCCCGCATACATCACTAGCACGAATG
1 CTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAATG
* * *
57240641 CTCCTCGGGACTTAGCCCGGATATATCACTAGCATGAATG
1 CTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAATG
* *
57240681 CTCTTCGGAACTTAGCCCGGATACATCACTAGCATGAATG
1 CTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAATG
* *
57240721 CTCTTCGGGACTTAGCCCGGATACATCGCTAGCATGAATG
1 CTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAATG
** * * *
57240761 CTCTTCGGGACTTAGCCCGGATTTAGTAACTCGCACCAATG
1 CTCTTCGGGACTTAGCCCGGATACA-TCACTAGCACGAATG
* ** *
57240802 C-CTTC-GGATCTTAGTCCGGATATGGTCACTTAGCAC-AAAG
1 CTCTTCGGGA-CTTAGCCCGGATA-CATCAC-TAGCACGAATG
57240842 C-CTTCGGGACTTAGCCCGGA
1 CTCTTCGGGACTTAGCCCGGA
57240862 CATCATTCGA
Statistics
Matches: 256, Mismatches: 36, Indels: 14
0.84 0.12 0.05
Matches are distributed among these distances:
38 20 0.08
39 26 0.10
40 191 0.75
41 19 0.07
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.24
Consensus pattern (40 bp):
CTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAATG
Found at i:57241208 original size:29 final size:29
Alignment explanation
Indices: 57241169--57241247 Score: 106
Period size: 29 Copynumber: 2.7 Consensus size: 29
57241159 CTTAATAATC
*
57241169 AACCACGCACACTTAGTGCCATGTACTTT-A
1 AACC-CGCACACTTAGTGCCATGCA-TTTCA
*
57241199 AACTCGCACACTTAGTGCCATGCATTTCA
1 AACCCGCACACTTAGTGCCATGCATTTCA
*
57241228 AGCCCGCACACTTAGTGCCA
1 AACCCGCACACTTAGTGCCA
57241248 ATCTCACAAC
Statistics
Matches: 44, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
28 3 0.07
29 38 0.86
30 3 0.07
ACGTcount: A:0.28, C:0.33, G:0.15, T:0.24
Consensus pattern (29 bp):
AACCCGCACACTTAGTGCCATGCATTTCA
Found at i:57243202 original size:37 final size:37
Alignment explanation
Indices: 57243152--57243230 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
57243142 TTATTACGAA
* * *
57243152 GTCTTACCCGGACATAATCTCCACACGAAGTTATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
*
57243189 GTCTTACCCGGACAAAATCCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
57243226 GTCTT
1 GTCTT
57243231 TAGAGCTCGG
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.25, C:0.32, G:0.19, T:0.24
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
Found at i:57243459 original size:47 final size:47
Alignment explanation
Indices: 57243348--57243851 Score: 956
Period size: 47 Copynumber: 10.7 Consensus size: 47
57243338 GCCCTTCGGG
* *
57243348 ACTTATCACATTCATCACATTGGCCATTAGGCCCTATCACATATATATAC
1 ACTT-TCACATTCATCACATCGGCCATTAGGCCTTATCAC--ATATATAC
57243398 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
1 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
57243445 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
1 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
57243492 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
1 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
57243539 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
1 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
57243586 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
1 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
57243633 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
1 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
57243680 ACTTTCACATTCATCACATCGGCCATTAGG-CTTATCACATATATAC
1 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
57243726 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
1 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
57243773 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
1 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
57243820 ACTTTCACATTCATCACATCGGCCATTAGGCC
1 ACTTTCACATTCATCACATCGGCCATTAGGCC
57243852 ATACTATCAT
Statistics
Matches: 451, Mismatches: 2, Indels: 5
0.98 0.00 0.01
Matches are distributed among these distances:
46 46 0.10
47 368 0.82
49 33 0.07
50 4 0.01
ACGTcount: A:0.30, C:0.30, G:0.09, T:0.32
Consensus pattern (47 bp):
ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
Found at i:57247722 original size:26 final size:26
Alignment explanation
Indices: 57247686--57247738 Score: 97
Period size: 26 Copynumber: 2.0 Consensus size: 26
57247676 TGTTTCTTCC
57247686 ACATGAAAATAGATTCATTAATATTA
1 ACATGAAAATAGATTCATTAATATTA
*
57247712 ACATTAAAATAGATTCATTAATATTA
1 ACATGAAAATAGATTCATTAATATTA
57247738 A
1 A
57247739 GTTACATATT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.51, C:0.08, G:0.06, T:0.36
Consensus pattern (26 bp):
ACATGAAAATAGATTCATTAATATTA
Found at i:57248549 original size:46 final size:45
Alignment explanation
Indices: 57248482--57248649 Score: 157
Period size: 46 Copynumber: 3.6 Consensus size: 45
57248472 GCCCATAAGC
*
57248482 GAACTCAGACTCAACTCAACGAGCTCGGGCGTTCGCATCCAGAAGT
1 GAACTCAGACTCAACTCAACGAGCTCGGACGTTCGCATCCA-AAGT
* * *
57248528 GAACTCAGACTCAACTCAACGAGCTCAGATGCCTAGTT-ACATCTC--A-C
1 GAACTCAGACTCAACTCAACGAGCTC-G--GAC--GTTCGCATC-CAAAGT
* *
57248575 GAACTCAGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGT
1 GAACTCAGACTCAACTCAACGAGCTCGGACGTTCGCATCCA-AAGT
*
57248621 GAACTC-GAACTCAACTCAACGAGTTCGGA
1 GAACTCAG-ACTCAACTCAACGAGCTCGGA
57248650 TGCCCAAATA
Statistics
Matches: 102, Mismatches: 8, Indels: 24
0.76 0.06 0.18
Matches are distributed among these distances:
42 3 0.03
43 4 0.04
44 2 0.02
45 2 0.02
46 54 0.53
47 26 0.25
48 1 0.01
49 2 0.02
50 4 0.04
51 4 0.04
ACGTcount: A:0.32, C:0.30, G:0.19, T:0.20
Consensus pattern (45 bp):
GAACTCAGACTCAACTCAACGAGCTCGGACGTTCGCATCCAAAGT
Found at i:57248591 original size:93 final size:93
Alignment explanation
Indices: 57248481--57248653 Score: 276
Period size: 93 Copynumber: 1.9 Consensus size: 93
57248471 CGCCCATAAG
* *
57248481 CGAACTCAGACTCAACTCAACGAGCTCGGGCGTTCGCATCCAGAAGTGAACTC-AGACTCAACTC
1 CGAACTCAGACTCAACTCAACGAGCTCGGACATTCGCATCCAGAAGTGAACTCGA-ACTCAACTC
57248545 AACGAGCTCAGATGCCTAGTTACATCTCA
65 AACGAGCTCAGATGCCTAGTTACATCTCA
* *
57248574 CGAACTCAGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGAACTCAACTCA
1 CGAACTCAGACTCAACTCAACGAGCTCGGACATTCGCATCCAGAAGTGAACTCGAACTCAACTCA
* *
57248639 ACGAGTTCGGATGCC
66 ACGAGCTCAGATGCC
57248654 CAAATATCCG
Statistics
Matches: 73, Mismatches: 6, Indels: 2
0.90 0.07 0.02
Matches are distributed among these distances:
93 72 0.99
94 1 0.01
ACGTcount: A:0.31, C:0.31, G:0.19, T:0.20
Consensus pattern (93 bp):
CGAACTCAGACTCAACTCAACGAGCTCGGACATTCGCATCCAGAAGTGAACTCGAACTCAACTCA
ACGAGCTCAGATGCCTAGTTACATCTCA
Found at i:57252061 original size:16 final size:16
Alignment explanation
Indices: 57252040--57252072 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
57252030 TGAGGATCCC
57252040 AATGCTCACTTAGCAA
1 AATGCTCACTTAGCAA
57252056 AATGCTCACTTAGCAA
1 AATGCTCACTTAGCAA
57252072 A
1 A
57252073 CTTCTTAGAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.39, C:0.24, G:0.12, T:0.24
Consensus pattern (16 bp):
AATGCTCACTTAGCAA
Found at i:57256550 original size:34 final size:34
Alignment explanation
Indices: 57256507--57256572 Score: 132
Period size: 34 Copynumber: 1.9 Consensus size: 34
57256497 TGGTGAATTT
57256507 GATGCTCCTAATGCCTTAATTTCATGTTTTATTC
1 GATGCTCCTAATGCCTTAATTTCATGTTTTATTC
57256541 GATGCTCCTAATGCCTTAATTTCATGTTTTAT
1 GATGCTCCTAATGCCTTAATTTCATGTTTTAT
57256573 ACTTAGGAGA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 32 1.00
ACGTcount: A:0.21, C:0.20, G:0.12, T:0.47
Consensus pattern (34 bp):
GATGCTCCTAATGCCTTAATTTCATGTTTTATTC
Found at i:57267226 original size:17 final size:18
Alignment explanation
Indices: 57267199--57267244 Score: 60
Period size: 18 Copynumber: 2.7 Consensus size: 18
57267189 AATACAACCC
57267199 AAAAT-AAAAAAT-AAAA
1 AAAATAAAAAAATGAAAA
*
57267215 AAAATAAAAAAATGAAGA
1 AAAATAAAAAAATGAAAA
*
57267233 AAAAGAAAAAAA
1 AAAATAAAAAAA
57267245 CCTAACCTCT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
16 5 0.19
17 7 0.27
18 14 0.54
ACGTcount: A:0.85, C:0.00, G:0.07, T:0.09
Consensus pattern (18 bp):
AAAATAAAAAAATGAAAA
Found at i:57268429 original size:19 final size:19
Alignment explanation
Indices: 57268405--57268442 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
57268395 TTGAGATTGC
57268405 CAACCTATTTGCCTGAAAT
1 CAACCTATTTGCCTGAAAT
57268424 CAACCTATTTGCCTGAAAT
1 CAACCTATTTGCCTGAAAT
57268443 TATTTATTTC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.32, C:0.26, G:0.11, T:0.32
Consensus pattern (19 bp):
CAACCTATTTGCCTGAAAT
Found at i:57268536 original size:6 final size:7
Alignment explanation
Indices: 57268518--57268543 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
57268508 CACTCCCTTT
57268518 TAAAAAA
1 TAAAAAA
57268525 TAAAAAA
1 TAAAAAA
57268532 TAAAAAA
1 TAAAAAA
57268539 TAAAA
1 TAAAA
57268544 TTTCAAAGCG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.85, C:0.00, G:0.00, T:0.15
Consensus pattern (7 bp):
TAAAAAA
Found at i:57269824 original size:65 final size:65
Alignment explanation
Indices: 57269743--57269900 Score: 316
Period size: 65 Copynumber: 2.4 Consensus size: 65
57269733 AAACTATGCT
57269743 TTCGTGAGGTTTTCACCTCCGCATGGGCTAGGGGATCGCTTCCGGAATACATCCGTACTTATGTC
1 TTCGTGAGGTTTTCACCTCCGCATGGGCTAGGGGATCGCTTCCGGAATACATCCGTACTTATGTC
57269808 TTCGTGAGGTTTTCACCTCCGCATGGGCTAGGGGATCGCTTCCGGAATACATCCGTACTTATGTC
1 TTCGTGAGGTTTTCACCTCCGCATGGGCTAGGGGATCGCTTCCGGAATACATCCGTACTTATGTC
57269873 TTCGTGAGGTTTTCACCTCCGCATGGGC
1 TTCGTGAGGTTTTCACCTCCGCATGGGC
57269901 ATAAGGAAAT
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
65 93 1.00
ACGTcount: A:0.16, C:0.27, G:0.27, T:0.31
Consensus pattern (65 bp):
TTCGTGAGGTTTTCACCTCCGCATGGGCTAGGGGATCGCTTCCGGAATACATCCGTACTTATGTC
Found at i:57270633 original size:24 final size:24
Alignment explanation
Indices: 57270606--57270659 Score: 65
Period size: 24 Copynumber: 2.2 Consensus size: 24
57270596 TTTCTTTCCT
*
57270606 TTGCATT-CATCCCATGCATTTGCA
1 TTGCATTGCATCACATGCA-TTGCA
**
57270630 TTGCATTGCATCATGTGCATTGCA
1 TTGCATTGCATCACATGCATTGCA
57270654 TTGCAT
1 TTGCAT
57270660 CATTTGCATT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
24 18 0.69
25 8 0.31
ACGTcount: A:0.20, C:0.24, G:0.17, T:0.39
Consensus pattern (24 bp):
TTGCATTGCATCACATGCATTGCA
Found at i:57270648 original size:19 final size:19
Alignment explanation
Indices: 57270626--57270669 Score: 79
Period size: 19 Copynumber: 2.3 Consensus size: 19
57270616 CCCATGCATT
57270626 TGCATTGCATTGCATCATG
1 TGCATTGCATTGCATCATG
*
57270645 TGCATTGCATTGCATCATT
1 TGCATTGCATTGCATCATG
57270664 TGCATT
1 TGCATT
57270670 AGATTTTCCC
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 24 1.00
ACGTcount: A:0.20, C:0.20, G:0.18, T:0.41
Consensus pattern (19 bp):
TGCATTGCATTGCATCATG
Found at i:57274803 original size:88 final size:87
Alignment explanation
Indices: 57274654--57274877 Score: 324
Period size: 88 Copynumber: 2.6 Consensus size: 87
57274644 AGCTGAAGAT
** * *
57274654 ATCCAAGATGATTTGGCATCTCAATATCAGGCGGGGAGTAGATCGAAGACATAGCTAATTTGGCT
1 ATCCAAGATGATTTGGCATCTCTGTATCAGGCGGGG-GCAGATCGAAGACATAACTAATTTGGCT
*
57274719 TTCACGTGTTTACGTTAAAGCAG
65 TTCACGTGTTTACGTTAAAGCAA
*
57274742 ATCCAAGATGATTTGGCATCTCTGTATCAGGCAGGGGGCAGATCGAAGACATAACTGATTTGGCT
1 ATCCAAGATGATTTGGCATCTCTGTATCAGGC-GGGGGCAGATCGAAGACATAACTAATTTGGCT
*
57274807 TTCACGTGTTTACGTTGAAGCAA
65 TTCACGTGTTTACGTTAAAGCAA
* * *
57274830 ATCCAAGATGATTTGGCATTTCTGTAGC-GGCGGAGAGCAGATCGAAGA
1 ATCCAAGATGATTTGGCATCTCTGTATCAGGCGG-GGGCAGATCGAAGA
57274878 TAACATATTT
Statistics
Matches: 124, Mismatches: 10, Indels: 5
0.89 0.07 0.04
Matches are distributed among these distances:
86 2 0.02
87 16 0.13
88 102 0.82
89 4 0.03
ACGTcount: A:0.29, C:0.17, G:0.27, T:0.27
Consensus pattern (87 bp):
ATCCAAGATGATTTGGCATCTCTGTATCAGGCGGGGGCAGATCGAAGACATAACTAATTTGGCTT
TCACGTGTTTACGTTAAAGCAA
Found at i:57274898 original size:44 final size:44
Alignment explanation
Indices: 57274839--57275473 Score: 857
Period size: 44 Copynumber: 14.4 Consensus size: 44
57274829 AATCCAAGAT
* *
57274839 GATTTGGCATTTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
1 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
* * ** *
57274883 TATTTGGCGTCTCTGTAGCGGCGGGGAGCAGATAAAAGATAATA
1 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
* * *
57274927 GATTTGGCGTCTCTGTAGCAGTGGGGAGCAGATCGAAGATAACA
1 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
* * *
57274971 GATTTGGCATCTTTGTAGCGGTGGAGAGCAGATCGAAGATAACAGACAGCA
1 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGAT-----A-A-CA
* * * * *
57275022 GATTTAGCGTCTCTGTAGCGGCAGTGAGAAGATCGAAGATAGCA
1 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
* * *
57275066 GATTTGGCGTCTCTGTAGCGGCAGAGAGCAGATCGTAGATAGCA
1 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
57275110 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
1 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
* ****
57275154 GATTTGGCATCTCTGTAGCGATAAAGAGCAGATCGAAGATAACA
1 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
*
57275198 GATTTGACGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
1 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
*
57275242 GATTTGGCGTCTCTATAGCGGCGGAGAGCAGATCGAAGAT----
1 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
*
57275282 GATTTGGCATCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
1 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
* * *
57275326 GATTTGGCATCTCTGTAGCGGCGGAGAGCAGATCAAAGGTAACA
1 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
* *
57275370 GATTTGGCGTCTCTGTAG-GGCAGAGAGCAGATCAAAGATAACA
1 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
*
57275413 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGTAGATAACA
1 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
57275457 GATTTGGCGTCTCTGTA
1 GATTTGGCGTCTCTGTA
57275474 TTAGACGGGG
Statistics
Matches: 524, Mismatches: 55, Indels: 24
0.87 0.09 0.04
Matches are distributed among these distances:
40 38 0.07
43 41 0.08
44 407 0.78
46 1 0.00
49 1 0.00
50 1 0.00
51 35 0.07
ACGTcount: A:0.29, C:0.17, G:0.32, T:0.23
Consensus pattern (44 bp):
GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
Found at i:57275784 original size:15 final size:17
Alignment explanation
Indices: 57275764--57275806 Score: 63
Period size: 15 Copynumber: 2.6 Consensus size: 17
57275754 AATACAACCC
57275764 AAAATAAAAAAT-AA-A
1 AAAATAAAAAATGAAGA
57275779 AAAATAAAAAATGAAGA
1 AAAATAAAAAATGAAGA
*
57275796 AAAAGAAAAAA
1 AAAATAAAAAA
57275807 ACCTAACCTC
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
15 12 0.48
16 2 0.08
17 11 0.44
ACGTcount: A:0.84, C:0.00, G:0.07, T:0.09
Consensus pattern (17 bp):
AAAATAAAAAATGAAGA
Found at i:57277940 original size:21 final size:21
Alignment explanation
Indices: 57277911--57277953 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 21
57277901 GCCTATTTTC
*
57277911 TCATATTTTCA-TAGACCAAAA
1 TCATATTTT-AGTAAACCAAAA
*
57277932 TCATGTTTTAGTAAACCAAAA
1 TCATATTTTAGTAAACCAAAA
57277953 T
1 T
57277954 GTTTTATTAA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
20 1 0.05
21 18 0.95
ACGTcount: A:0.42, C:0.16, G:0.07, T:0.35
Consensus pattern (21 bp):
TCATATTTTAGTAAACCAAAA
Found at i:57282920 original size:48 final size:48
Alignment explanation
Indices: 57282863--57282984 Score: 140
Period size: 48 Copynumber: 2.5 Consensus size: 48
57282853 ACGACATGTG
* * *
57282863 AGTATTGAGATCTCGTATAAGACCATATCTGGGATATGGA-ATTGGCATC
1 AGTA-TGAGATCCCATATAAGACCATACCTGGGATAT-GACATTGGCATC
* * *
57282912 AGTATGAGACCCCATGTAAGACCATACCTGGGATATGACATTGGTATC
1 AGTATGAGATCCCATATAAGACCATACCTGGGATATGACATTGGCATC
*
57282960 -GATATGAGGTCCCATATAAGACCAT
1 AG-TATGAGATCCCATATAAGACCAT
57282985 GTTTGGGACA
Statistics
Matches: 62, Mismatches: 9, Indels: 5
0.82 0.12 0.07
Matches are distributed among these distances:
47 3 0.05
48 55 0.89
49 4 0.06
ACGTcount: A:0.32, C:0.18, G:0.23, T:0.27
Consensus pattern (48 bp):
AGTATGAGATCCCATATAAGACCATACCTGGGATATGACATTGGCATC
Found at i:57283069 original size:42 final size:42
Alignment explanation
Indices: 57283010--57283244 Score: 183
Period size: 42 Copynumber: 5.5 Consensus size: 42
57283000 TTGACACCGT
* * * *
57283010 TATGAGACTTCATGTAAGACCATGTCTTGGACATGGCTTTGA
1 TATGAGATTTCGTGTAAGACCATGTCTTGGACATGGCATCGA
* *
57283052 TATGATATTTCGTGTAAGACCATGT-TTGGGACATGGCATCTA
1 TATGAGATTTCGTGTAAGACCATGTCTT-GGACATGGCATCGA
* * * *
57283094 TATGAGATTCCGTGTAACACCATAG-C-TGGGCTATTGGCATCGG
1 TATGAGATTTCGTGTAAGACCAT-GTCTTGGAC-A-TGGCATCGA
* * * * *
57283137 TATGATATTACATGTAAGACCATGTCTAGGACATGGCATCGT
1 TATGAGATTTCGTGTAAGACCATGTCTTGGACATGGCATCGA
* * *
57283179 TATGAGATTTCGTCTAAGACCATAG-C-TGGGCTATTGGCTTCGA
1 TATGAGATTTCGTGTAAGACCAT-GTCTTGGAC-A-TGGCATCGA
* * *
57283222 TATGAGATTACATGTAGGACCAT
1 TATGAGATTTCGTGTAAGACCAT
57283245 ATTCGTGATA
Statistics
Matches: 152, Mismatches: 31, Indels: 19
0.75 0.15 0.09
Matches are distributed among these distances:
41 8 0.05
42 85 0.56
43 56 0.37
44 3 0.02
ACGTcount: A:0.27, C:0.17, G:0.24, T:0.32
Consensus pattern (42 bp):
TATGAGATTTCGTGTAAGACCATGTCTTGGACATGGCATCGA
Found at i:57283141 original size:43 final size:43
Alignment explanation
Indices: 57283050--57283245 Score: 170
Period size: 43 Copynumber: 4.6 Consensus size: 43
57283040 ACATGGCTTT
* * *
57283050 GATATGATATTTCGTGTAAGACCAT-GTTTGGGAC-A-TGGCATC
1 GATATGAGATTACGTGTAAGACCATAG-CTGGG-CTATTGGCATC
* * *
57283092 TATATGAGATTCCGTGTAACACCATAGCTGGGCTATTGGCATC
1 GATATGAGATTACGTGTAAGACCATAGCTGGGCTATTGGCATC
* * * *
57283135 GGTATGATATTACATGTAAGACCAT-GTCTAGGAC-A-TGGCATC
1 GATATGAGATTACGTGTAAGACCATAG-CT-GGGCTATTGGCATC
* * * *
57283177 GTTATGAGATTTCGTCTAAGACCATAGCTGGGCTATTGGCTTC
1 GATATGAGATTACGTGTAAGACCATAGCTGGGCTATTGGCATC
* *
57283220 GATATGAGATTACATGTAGGACCATA
1 GATATGAGATTACGTGTAAGACCATA
57283246 TTCGTGATAT
Statistics
Matches: 122, Mismatches: 24, Indels: 15
0.76 0.15 0.09
Matches are distributed among these distances:
41 4 0.03
42 57 0.47
43 58 0.48
44 3 0.02
ACGTcount: A:0.28, C:0.17, G:0.24, T:0.31
Consensus pattern (43 bp):
GATATGAGATTACGTGTAAGACCATAGCTGGGCTATTGGCATC
Found at i:57283172 original size:85 final size:85
Alignment explanation
Indices: 57283050--57283244 Score: 275
Period size: 85 Copynumber: 2.3 Consensus size: 85
57283040 ACATGGCTTT
* * * * *
57283050 GATATGATATTTCGTGTAAGACCATGTTTGGGACATGGCATC-TATATGAGATTCCGTGTAACAC
1 GATATGATATTACATGTAAGACCATGTCTAGGACATGGCATCGT-TATGAGATTCCGTCTAACAC
57283114 CATAGCTGGGCTATTGGCATC
65 CATAGCTGGGCTATTGGCATC
* * *
57283135 GGTATGATATTACATGTAAGACCATGTCTAGGACATGGCATCGTTATGAGATTTCGTCTAAGACC
1 GATATGATATTACATGTAAGACCATGTCTAGGACATGGCATCGTTATGAGATTCCGTCTAACACC
*
57283200 ATAGCTGGGCTATTGGCTTC
66 ATAGCTGGGCTATTGGCATC
* *
57283220 GATATGAGATTACATGTAGGACCAT
1 GATATGATATTACATGTAAGACCAT
57283245 ATTCGTGATA
Statistics
Matches: 97, Mismatches: 12, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
85 96 0.99
86 1 0.01
ACGTcount: A:0.27, C:0.17, G:0.25, T:0.31
Consensus pattern (85 bp):
GATATGATATTACATGTAAGACCATGTCTAGGACATGGCATCGTTATGAGATTCCGTCTAACACC
ATAGCTGGGCTATTGGCATC
Found at i:57286494 original size:47 final size:47
Alignment explanation
Indices: 57286420--57286547 Score: 147
Period size: 46 Copynumber: 2.7 Consensus size: 47
57286410 GGATAGTTGA
* * * * *
57286420 GCATCCGAACTCGTTGAGTTGAATCCGAGTTC-GTGA-GATGTAACTAG
1 GCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTGACGATGCAA--AC
*
57286467 GCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTACGGATGCAAAC
1 GCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTGAC-GATGCAAAC
57286515 GC--CCGAGCTCGTTGAGTTGAGTCCGAGTTCACT
1 GCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACT
57286548 TATGGGCGGG
Statistics
Matches: 72, Mismatches: 6, Indels: 7
0.85 0.07 0.08
Matches are distributed among these distances:
46 31 0.43
47 30 0.42
48 5 0.07
50 6 0.08
ACGTcount: A:0.22, C:0.23, G:0.28, T:0.27
Consensus pattern (47 bp):
GCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTGACGATGCAAAC
Found at i:57289185 original size:47 final size:47
Alignment explanation
Indices: 57289119--57289273 Score: 165
Period size: 47 Copynumber: 3.3 Consensus size: 47
57289109 TTTGTATGCA
*
57289119 AGTGTAAGACCATGTCTGGGACATGGCATCGGCATTGAGACGAGGGCT
1 AGTGTAAGACCATGTCTGGGACATGGCATCGACATTGAGACGA-GGCT
* * *
57289167 AGTGTAAGA-CATGTCTGGGACAT-GCATCAGCCATATTATGA-GA-GCC
1 AGTGTAAGACCATGTCTGGGACATGGCATC-GACAT-TGA-GACGAGGCT
* *
57289213 AGTGTAAGACCATGTATGAGACATGGCATCGACATTGAGACGAGAGCT
1 AGTGTAAGACCATGTCTGGGACATGGCATCGACATTGAGACGAG-GCT
**
57289261 AGTACAAGACCAT
1 AGTGTAAGACCAT
57289274 AGTTGAACTA
Statistics
Matches: 89, Mismatches: 10, Indels: 16
0.77 0.09 0.14
Matches are distributed among these distances:
45 2 0.02
46 20 0.22
47 34 0.38
48 31 0.35
49 2 0.02
ACGTcount: A:0.31, C:0.19, G:0.29, T:0.21
Consensus pattern (47 bp):
AGTGTAAGACCATGTCTGGGACATGGCATCGACATTGAGACGAGGCT
Found at i:57299817 original size:22 final size:22
Alignment explanation
Indices: 57299766--57299874 Score: 137
Period size: 22 Copynumber: 4.9 Consensus size: 22
57299756 GCTTACTGTT
* **
57299766 TTCAGCTCATTAGAGCTTATCAT
1 TTCAGCTCAATAGAGCTTA-CCG
57299789 TTCAGCTCAATAGAGCTTACCG
1 TTCAGCTCAATAGAGCTTACCG
*
57299811 TTCAGCTCGATAGAGCTTACCG
1 TTCAGCTCAATAGAGCTTACCG
*
57299833 TTCAGCTCGATAGAGCTTACCG
1 TTCAGCTCAATAGAGCTTACCG
* *
57299855 TTTCAGCACAATAGAACTTA
1 -TTCAGCTCAATAGAGCTTA
57299875 TTGTTCATCA
Statistics
Matches: 78, Mismatches: 7, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
22 44 0.56
23 34 0.44
ACGTcount: A:0.28, C:0.25, G:0.17, T:0.30
Consensus pattern (22 bp):
TTCAGCTCAATAGAGCTTACCG
Found at i:57299881 original size:45 final size:45
Alignment explanation
Indices: 57299747--57299881 Score: 148
Period size: 45 Copynumber: 3.0 Consensus size: 45
57299737 GAAATATCAT
* * *
57299747 CTCGAAAGAGCTTACTGTTTTCAGCTCATTAGAGCTTATCAT-TTCAG
1 CTCGATAGAGCTTACCG-TTTCAGCTCAATAGAGCTTAT--TGTTCAG
* * **
57299794 CTCAATAGAGCTTACCG-TTCAGCTCGATAGAGCTTACCGTTCAG
1 CTCGATAGAGCTTACCGTTTCAGCTCAATAGAGCTTATTGTTCAG
* *
57299838 CTCGATAGAGCTTACCGTTTCAGCACAATAGAACTTATTGTTCA
1 CTCGATAGAGCTTACCGTTTCAGCTCAATAGAGCTTATTGTTCA
57299882 TCAGCTCATG
Statistics
Matches: 73, Mismatches: 13, Indels: 6
0.79 0.14 0.07
Matches are distributed among these distances:
44 21 0.29
45 38 0.52
47 14 0.19
ACGTcount: A:0.27, C:0.24, G:0.18, T:0.32
Consensus pattern (45 bp):
CTCGATAGAGCTTACCGTTTCAGCTCAATAGAGCTTATTGTTCAG
Found at i:57299881 original size:67 final size:68
Alignment explanation
Indices: 57299747--57299874 Score: 170
Period size: 67 Copynumber: 1.9 Consensus size: 68
57299737 GAAATATCAT
* * * *
57299747 CTCGAAAGAGCTTACTGTTTTCAGCTCATTAGAGCTTATCATTTCAGCTCAATAGAGCTTACCGT
1 CTCGAAAGAGCTTACCG-TTTCAGCTCATTAGAGCTTACCATTTCAGCACAATAGAACTTACCGT
57299812 TCAG
65 TCAG
* *
57299816 CTCGATAGAGCTTACCG-TTCAGCTCGA-TAGAGCTTACCGTTTCAGCACAATAGAACTTA
1 CTCGAAAGAGCTTACCGTTTCAGCTC-ATTAGAGCTTACCATTTCAGCACAATAGAACTTA
57299875 TTGTTCATCA
Statistics
Matches: 52, Mismatches: 6, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
67 36 0.69
68 1 0.02
69 15 0.29
ACGTcount: A:0.27, C:0.24, G:0.18, T:0.30
Consensus pattern (68 bp):
CTCGAAAGAGCTTACCGTTTCAGCTCATTAGAGCTTACCATTTCAGCACAATAGAACTTACCGTT
CAG
Found at i:57304422 original size:19 final size:20
Alignment explanation
Indices: 57304395--57304434 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 20
57304385 CAAGTCATTA
57304395 TCATATCATCTCAAGA-TTT
1 TCATATCATCTCAAGAGTTT
* *
57304414 TCATGTCATGTCAAGAGTTT
1 TCATATCATCTCAAGAGTTT
57304434 T
1 T
57304435 GTATCCGTTG
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 14 0.78
20 4 0.22
ACGTcount: A:0.28, C:0.17, G:0.12, T:0.42
Consensus pattern (20 bp):
TCATATCATCTCAAGAGTTT
Found at i:57311111 original size:25 final size:27
Alignment explanation
Indices: 57311082--57311143 Score: 67
Period size: 25 Copynumber: 2.4 Consensus size: 27
57311072 TTTTACTATA
57311082 TTTATTATTACG-GATATTT-T-AAATT
1 TTTATTATTA-GAGATATTTATAAAATT
* *
57311107 TTTATGATTAGATATATTTATAAAATT
1 TTTATTATTAGAGATATTTATAAAATT
*
57311134 ATTATTATTA
1 TTTATTATTA
57311144 TTAGATAAAA
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
24 1 0.03
25 15 0.50
26 1 0.03
27 13 0.43
ACGTcount: A:0.37, C:0.02, G:0.06, T:0.55
Consensus pattern (27 bp):
TTTATTATTAGAGATATTTATAAAATT
Found at i:57311981 original size:19 final size:19
Alignment explanation
Indices: 57311957--57312014 Score: 53
Period size: 25 Copynumber: 2.7 Consensus size: 19
57311947 AATCAGAATT
*
57311957 AGAATCAAAATTAGGTGAC
1 AGAATCAAAATTAGGTAAC
57311976 AGAATCAGAATCAGTATCAGGTAAC
1 AGAATCA-AA--A-T-T-AGGTAAC
57312001 AGAATCAAAATTAG
1 AGAATCAAAATTAG
57312015 AATCTGTATC
Statistics
Matches: 32, Mismatches: 1, Indels: 12
0.71 0.02 0.27
Matches are distributed among these distances:
19 9 0.28
20 3 0.09
21 1 0.03
22 2 0.06
23 1 0.03
24 3 0.09
25 13 0.41
ACGTcount: A:0.48, C:0.12, G:0.19, T:0.21
Consensus pattern (19 bp):
AGAATCAAAATTAGGTAAC
Found at i:57311997 original size:25 final size:25
Alignment explanation
Indices: 57311950--57312007 Score: 71
Period size: 25 Copynumber: 2.3 Consensus size: 25
57311940 GAACTAGAAT
* * *
57311950 CAGAATTAGAATCAAAATTAGGTGA
1 CAGAATCAGAATCAAAATCAGGTAA
**
57311975 CAGAATCAGAATCAGTATCAGGTAA
1 CAGAATCAGAATCAAAATCAGGTAA
57312000 CAGAATCA
1 CAGAATCA
57312008 AAATTAGAAT
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
25 28 1.00
ACGTcount: A:0.47, C:0.14, G:0.19, T:0.21
Consensus pattern (25 bp):
CAGAATCAGAATCAAAATCAGGTAA
Found at i:57312024 original size:31 final size:31
Alignment explanation
Indices: 57311982--57312041 Score: 102
Period size: 31 Copynumber: 1.9 Consensus size: 31
57311972 TGACAGAATC
57311982 AGAATCAGTATCAGGTAACAGAATCAAAATT
1 AGAATCAGTATCAGGTAACAGAATCAAAATT
* *
57312013 AGAATCTGTATCATGTAACAGAATCAAAA
1 AGAATCAGTATCAGGTAACAGAATCAAAA
57312042 ATCAGAATGT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 27 1.00
ACGTcount: A:0.48, C:0.13, G:0.15, T:0.23
Consensus pattern (31 bp):
AGAATCAGTATCAGGTAACAGAATCAAAATT
Found at i:57312229 original size:27 final size:26
Alignment explanation
Indices: 57312186--57312287 Score: 89
Period size: 27 Copynumber: 3.8 Consensus size: 26
57312176 GCTCAGTTAT
*
57312186 CAGATATTGTGACAGAGTCACCAGATA
1 CAGATATTGTGACAGAGCCACCAGA-A
*
57312213 CAGATATTGTTG-TAGAGCCACCAGAA
1 CAGATATTG-TGACAGAGCCACCAGAA
* * *
57312239 TAGATATTTGTGGCATAGCCACCAGAAA
1 CAGATA-TTGTGACAGAGCCACCAG-AA
* * *
57312267 CAGATAATGTGGCAAAGCCAC
1 CAGATATTGTGACAGAGCCAC
57312288 TTAACAGAAT
Statistics
Matches: 63, Mismatches: 8, Indels: 8
0.80 0.10 0.10
Matches are distributed among these distances:
26 8 0.13
27 46 0.73
28 9 0.14
ACGTcount: A:0.36, C:0.20, G:0.23, T:0.22
Consensus pattern (26 bp):
CAGATATTGTGACAGAGCCACCAGAA
Found at i:57312993 original size:27 final size:27
Alignment explanation
Indices: 57312937--57313399 Score: 556
Period size: 27 Copynumber: 17.2 Consensus size: 27
57312927 AAGGCAAAAT
* * * *
57312937 GGTAATTTTACCCCACA-AGGTATCTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* * *
57312963 AGTAATT-TCACCCTATAGGGGTATTTT
1 GGTAATTCT-ACCCTACAGGGGTATTTC
* *
57312990 AGTAATTCTACCCTATAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
57313017 GGTAATTCTACGCTACAGGGGTATTAC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
57313044 GATAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
57313071 GGTAACTCTACCCTATAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* * * *
57313098 GATAATTCTGCCCTACAAGGGTATTCC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
57313125 GATAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
57313152 AGTAATTTTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
57313179 GGTAATTCTACCCTACAGGGGTATTCC
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
57313206 GGTAATTCTACCCCACAGGGGTATTCC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
57313233 GATAATTCTACCCTACAGGGGTA-TTC
1 GGTAATTCTACCCTACAGGGGTATTTC
57313259 TGGTAATTCTACCCTACAGGGGTA-TTC
1 -GGTAATTCTACCCTACAGGGGTATTTC
*
57313286 TAGTAATTCTACCCTACAGGGGTATTTC
1 -GGTAATTCTACCCTACAGGGGTATTTC
* *
57313314 GGTAATTCTACCCTATAGGGGTAATTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* * *
57313341 GGTAATTTTGCCCTATAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* * *
57313368 AGTAATTTTGCCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
57313395 TGTAA
1 GGTAA
57313400 CACCCTGAAT
Statistics
Matches: 385, Mismatches: 47, Indels: 9
0.87 0.11 0.02
Matches are distributed among these distances:
25 1 0.00
26 14 0.04
27 366 0.95
28 4 0.01
ACGTcount: A:0.25, C:0.21, G:0.21, T:0.34
Consensus pattern (27 bp):
GGTAATTCTACCCTACAGGGGTATTTC
Found at i:57314514 original size:27 final size:27
Alignment explanation
Indices: 57314392--57314624 Score: 136
Period size: 27 Copynumber: 8.6 Consensus size: 27
57314382 TTAGTTTACC
* * * **
57314392 AATTACTAAAATGCCCTCGACTTGTAA
1 AATTACCAAAATACCCTCGATTTACAA
* *
57314419 AATTACCAAAGTACTCC-CGATTTACAG
1 AATTACCAAAATAC-CCTCGATTTACAA
*** * *
57314446 AATTACCATTTTACCCTC-AGTTTATAG
1 AATTACCAAAATACCCTCGA-TTTACAA
* ***
57314473 AATTACTATTTTACCCTCGATTTACAA
1 AATTACCAAAATACCCTCGATTTACAA
* *
57314500 AATTACCAAAATACCC-CTAGTTTGCAA
1 AATTACCAAAATACCCTCGA-TTTACAA
* *
57314527 AATTACCCAAAATATCCCTAG-TTTGCAA
1 AATTA-CCAAAATA-CCCTCGATTTACAA
* **
57314555 AATTACCAAAATACCC-CTGGTTTGTAA
1 AATTACCAAAATACCCTC-GATTTACAA
*
57314582 AATTACCAAAATACCCAT-GGTTTACAA
1 AATTACCAAAATACCC-TCGATTTACAA
*
57314609 AATTACTAAAATACCC
1 AATTACCAAAATACCC
57314625 CTGTAGGGTA
Statistics
Matches: 167, Mismatches: 27, Indels: 24
0.77 0.12 0.11
Matches are distributed among these distances:
26 9 0.05
27 132 0.79
28 23 0.14
29 3 0.02
ACGTcount: A:0.38, C:0.24, G:0.08, T:0.30
Consensus pattern (27 bp):
AATTACCAAAATACCCTCGATTTACAA
Found at i:57314522 original size:54 final size:54
Alignment explanation
Indices: 57314413--57314651 Score: 209
Period size: 54 Copynumber: 4.4 Consensus size: 54
57314403 TGCCCTCGAC
* * ***
57314413 TTGTAAAATTACCAAAGTACTCC-CGATTTACAGAATTACCATTTTA-CCCTCAGT
1 TTGTAAAATTACCAAAATAC-CCTCGATTTACAAAATTACCAAAATACCCCT-AGT
* * * ***
57314467 TTATAGAATTACTATTTTACCCTCGATTTACAAAATTACCAAAATACCCCTAGT
1 TTGTAAAATTACCAAAATACCCTCGATTTACAAAATTACCAAAATACCCCTAGT
* * * *
57314521 TTGCAAAATTACCCAAAATATCCCTAG-TTTGCAAAATTACCAAAATACCCCTGGT
1 TTGTAAAATTA-CCAAAATA-CCCTCGATTTACAAAATTACCAAAATACCCCTAGT
* *
57314576 TTGTAAAATTACCAAAATACCCAT-GGTTTACAAAATTACTAAAATACCCCT-GT
1 TTGTAAAATTACCAAAATACCC-TCGATTTACAAAATTACCAAAATACCCCTAGT
** *
57314629 AGGGTAAAATTACCGAAATACCC
1 -TTGTAAAATTACCAAAATACCC
57314652 CTGTAAGGTA
Statistics
Matches: 152, Mismatches: 26, Indels: 14
0.79 0.14 0.07
Matches are distributed among these distances:
53 8 0.05
54 95 0.62
55 44 0.29
56 5 0.03
ACGTcount: A:0.38, C:0.23, G:0.09, T:0.30
Consensus pattern (54 bp):
TTGTAAAATTACCAAAATACCCTCGATTTACAAAATTACCAAAATACCCCTAGT
Found at i:57314537 original size:28 final size:27
Alignment explanation
Indices: 57314497--57314653 Score: 190
Period size: 27 Copynumber: 5.8 Consensus size: 27
57314487 CCTCGATTTA
57314497 CAAAATTACCAAAATACCCCTAGTTTG
1 CAAAATTACCAAAATACCCCTAGTTTG
*
57314524 CAAAATTACCCAAAATATCCCTAGTTTG
1 CAAAATTA-CCAAAATACCCCTAGTTTG
*
57314552 CAAAATTACCAAAATACCCCTGGTTTG
1 CAAAATTACCAAAATACCCCTAGTTTG
* * * *
57314579 TAAAATTACCAAAATACCCATGGTTTA
1 CAAAATTACCAAAATACCCCTAGTTTG
* **
57314606 CAAAATTACTAAAATACCCCT-GTAGGG
1 CAAAATTACCAAAATACCCCTAGT-TTG
* *
57314633 TAAAATTACCGAAATACCCCT
1 CAAAATTACCAAAATACCCCT
57314654 GTAAGGTAGA
Statistics
Matches: 113, Mismatches: 15, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
26 2 0.02
27 85 0.75
28 26 0.23
ACGTcount: A:0.41, C:0.24, G:0.09, T:0.26
Consensus pattern (27 bp):
CAAAATTACCAAAATACCCCTAGTTTG
Found at i:57314567 original size:55 final size:54
Alignment explanation
Indices: 57314493--57314626 Score: 198
Period size: 55 Copynumber: 2.5 Consensus size: 54
57314483 TTACCCTCGA
57314493 TTTACAAAATTACCAAAATACCCCTAGTTTGCAAAATTACCCAAAATATCCC-TAG
1 TTTACAAAATTACCAAAATACCCCTAGTTTGCAAAATTA-CCAAAATA-CCCATAG
* * * *
57314548 TTTGCAAAATTACCAAAATACCCCTGGTTTGTAAAATTACCAAAATACCCATGG
1 TTTACAAAATTACCAAAATACCCCTAGTTTGCAAAATTACCAAAATACCCATAG
*
57314602 TTTACAAAATTACTAAAATACCCCT
1 TTTACAAAATTACCAAAATACCCCT
57314627 GTAGGGTAAA
Statistics
Matches: 72, Mismatches: 6, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
53 3 0.04
54 33 0.46
55 36 0.50
ACGTcount: A:0.41, C:0.24, G:0.07, T:0.28
Consensus pattern (54 bp):
TTTACAAAATTACCAAAATACCCCTAGTTTGCAAAATTACCAAAATACCCATAG
Found at i:57317001 original size:46 final size:48
Alignment explanation
Indices: 57316950--57317080 Score: 157
Period size: 46 Copynumber: 2.8 Consensus size: 48
57316940 ATGGTTGAGC
57316950 ATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T-G
1 ATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG-GAACTAG
* * *
57316997 -TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGG
1 ATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGGAACTA-G
*
57317042 CATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 -ATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
57317081 GCGGGTTACA
Statistics
Matches: 70, Mismatches: 6, Indels: 13
0.79 0.07 0.15
Matches are distributed among these distances:
42 2 0.03
43 5 0.07
45 3 0.04
46 29 0.41
47 28 0.40
48 2 0.03
50 1 0.01
ACGTcount: A:0.21, C:0.20, G:0.29, T:0.30
Consensus pattern (48 bp):
ATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGGAACTAG
Found at i:57319231 original size:27 final size:27
Alignment explanation
Indices: 57319193--57319285 Score: 107
Period size: 27 Copynumber: 3.4 Consensus size: 27
57319183 TACAATTCCA
*
57319193 GTAAATTTACAAACTAGGGGTATTTTG
1 GTAATTTTACAAACTAGGGGTATTTTG
*
57319220 GTAATTTTACAAACTAGGGGTAATTTG
1 GTAATTTTACAAACTAGGGGTATTTTG
* ** **
57319247 GTAATTCTATCCTAC-AGGGGTATTTCA
1 GTAATTTTA-CAAACTAGGGGTATTTTG
57319274 GTAATTTTACAA
1 GTAATTTTACAA
57319286 TCAAGGGTAA
Statistics
Matches: 54, Mismatches: 11, Indels: 3
0.79 0.16 0.04
Matches are distributed among these distances:
26 1 0.02
27 50 0.93
28 3 0.06
ACGTcount: A:0.32, C:0.11, G:0.19, T:0.38
Consensus pattern (27 bp):
GTAATTTTACAAACTAGGGGTATTTTG
Found at i:57319359 original size:54 final size:54
Alignment explanation
Indices: 57319284--57319448 Score: 213
Period size: 54 Copynumber: 3.1 Consensus size: 54
57319274 GTAATTTTAC
** * *
57319284 AATCAAGGGTAAAACGGTAATTTTGTAAATTTAGGGTAAAATGGTAATTTTGTA
1 AATCAAGGGTAAAACGGTAATTTTGTAAATCGAGGGTAAAATGGTAATTCTATA
* * * *
57319338 AATCAAGGGTAAAACGATAATTCTATAAATCGAGGGTAAAATAGTAATTCTATA
1 AATCAAGGGTAAAACGGTAATTTTGTAAATCGAGGGTAAAATGGTAATTCTATA
** * * *
57319392 AATTGAGGGTAAAATGGTAATTTTGTAAATCGAGGGTGAAACGGTAATTCTATA
1 AATCAAGGGTAAAACGGTAATTTTGTAAATCGAGGGTAAAATGGTAATTCTATA
57319446 AAT
1 AAT
57319449 AGAAGGTAAA
Statistics
Matches: 94, Mismatches: 17, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
54 94 1.00
ACGTcount: A:0.41, C:0.06, G:0.21, T:0.32
Consensus pattern (54 bp):
AATCAAGGGTAAAACGGTAATTTTGTAAATCGAGGGTAAAATGGTAATTCTATA
Found at i:57319394 original size:81 final size:81
Alignment explanation
Indices: 57319284--57319481 Score: 279
Period size: 81 Copynumber: 2.4 Consensus size: 81
57319274 GTAATTTTAC
* ** * * *
57319284 AATCAAGGGTAAAACGGTAATTTTGTAAATTTAGGGTAAAATGGTAATTTTGTAAATCAAGGGTA
1 AATCGAGGGTAAAATAGTAATTCTATAAATTGAGGGTAAAATGGTAATTTTGTAAATCAAGGGTA
57319349 AAACGATAATTCTATA
66 AAACGATAATTCTATA
* *
57319365 AATCGAGGGTAAAATAGTAATTCTATAAATTGAGGGTAAAATGGTAATTTTGTAAATCGAGGGTG
1 AATCGAGGGTAAAATAGTAATTCTATAAATTGAGGGTAAAATGGTAATTTTGTAAATCAAGGGTA
*
57319430 AAACGGTAATTCTATA
66 AAACGATAATTCTATA
* * * *
57319446 AATAGAAGGTAAAATAGTAATTCTACAAATCGAGGG
1 AATCGAGGGTAAAATAGTAATTCTATAAATTGAGGG
57319482 CATTTTAGTA
Statistics
Matches: 104, Mismatches: 13, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
81 104 1.00
ACGTcount: A:0.42, C:0.07, G:0.22, T:0.30
Consensus pattern (81 bp):
AATCGAGGGTAAAATAGTAATTCTATAAATTGAGGGTAAAATGGTAATTTTGTAAATCAAGGGTA
AAACGATAATTCTATA
Found at i:57319457 original size:54 final size:54
Alignment explanation
Indices: 57319289--57319481 Score: 208
Period size: 54 Copynumber: 3.6 Consensus size: 54
57319279 TTTACAATCA
* * ** * *
57319289 AGGGTAAAACGGTAATTTTGTAAATTTAGGGTAAAATGGTAATTTTGTAAATCA-
1 AGGGTAAAACGGTAATTCTATAAATCGAGGGTAAAATGGTAATTCTATAAAT-AG
* * *
57319343 AGGGTAAAACGATAATTCTATAAATCGAGGGTAAAATAGTAATTCTATAAATTG
1 AGGGTAAAACGGTAATTCTATAAATCGAGGGTAAAATGGTAATTCTATAAATAG
* * * * *
57319397 AGGGTAAAATGGTAATTTTGTAAATCGAGGGTGAAACGGTAATTCTATAAATAG
1 AGGGTAAAACGGTAATTCTATAAATCGAGGGTAAAATGGTAATTCTATAAATAG
* ** *
57319451 AAGGTAAAATAGTAATTCTACAAATCGAGGG
1 AGGGTAAAACGGTAATTCTATAAATCGAGGG
57319482 CATTTTAGTA
Statistics
Matches: 116, Mismatches: 22, Indels: 2
0.83 0.16 0.01
Matches are distributed among these distances:
54 116 1.00
ACGTcount: A:0.41, C:0.06, G:0.22, T:0.30
Consensus pattern (54 bp):
AGGGTAAAACGGTAATTCTATAAATCGAGGGTAAAATGGTAATTCTATAAATAG
Found at i:57319465 original size:27 final size:27
Alignment explanation
Indices: 57319284--57319481 Score: 182
Period size: 27 Copynumber: 7.3 Consensus size: 27
57319274 GTAATTTTAC
* ** * *
57319284 AATCAAGGGTAAAACGGTAATTTTGTA
1 AATCGAGGGTAAAATAGTAATTCTATA
** * * *
57319311 AATTTAGGGTAAAATGGTAATTTTGTA
1 AATCGAGGGTAAAATAGTAATTCTATA
* *
57319338 AATCAAGGGTAAAA-CGATAATTCTATA
1 AATCGAGGGTAAAATAG-TAATTCTATA
57319365 AATCGAGGGTAAAATAGTAATTCTATA
1 AATCGAGGGTAAAATAGTAATTCTATA
* * * *
57319392 AATTGAGGGTAAAATGGTAATTTTGTA
1 AATCGAGGGTAAAATAGTAATTCTATA
* **
57319419 AATCGAGGGTGAAACGGTAATTCTATA
1 AATCGAGGGTAAAATAGTAATTCTATA
* * *
57319446 AATAGAAGGTAAAATAGTAATTCTACA
1 AATCGAGGGTAAAATAGTAATTCTATA
57319473 AATCGAGGG
1 AATCGAGGG
57319482 CATTTTAGTA
Statistics
Matches: 142, Mismatches: 27, Indels: 4
0.82 0.16 0.02
Matches are distributed among these distances:
26 1 0.01
27 140 0.99
28 1 0.01
ACGTcount: A:0.42, C:0.07, G:0.22, T:0.30
Consensus pattern (27 bp):
AATCGAGGGTAAAATAGTAATTCTATA
Found at i:57319493 original size:54 final size:53
Alignment explanation
Indices: 57319355--57319501 Score: 145
Period size: 54 Copynumber: 2.7 Consensus size: 53
57319345 GGTAAAACGA
* * * *
57319355 TAATTCTATAAATCGAGGGTAAAATAGTAATTCTATAAATTGAGGGTAAAATGG
1 TAATTCTATAAATCGAGGG-ATAATAGTAATTCTATAAATAGAAGGTAAAATAG
* *
57319409 TAATTTTGTAAATCGAGGG-TGAA-ACGGTAATTCTATAAATAGAAGGTAAAATAG
1 TAATTCTATAAATCGAGGGAT-AATA--GTAATTCTATAAATAGAAGGTAAAATAG
* ** *
57319463 TAATTCTACAAATCGAGGGCATTTTAGTAATTTTATAAA
1 TAATTCTATAAATCGAGGG-ATAATAGTAATTCTATAAA
57319502 CCAATGGTAT
Statistics
Matches: 75, Mismatches: 12, Indels: 12
0.76 0.12 0.12
Matches are distributed among these distances:
52 1 0.01
53 2 0.03
54 70 0.93
56 2 0.03
ACGTcount: A:0.41, C:0.07, G:0.19, T:0.33
Consensus pattern (53 bp):
TAATTCTATAAATCGAGGGATAATAGTAATTCTATAAATAGAAGGTAAAATAG
Found at i:57319493 original size:81 final size:81
Alignment explanation
Indices: 57319316--57319510 Score: 237
Period size: 81 Copynumber: 2.4 Consensus size: 81
57319306 TTGTAAATTT
* * * *
57319316 AGGGTAAAATGGTAATTTTGTAAATCAAGGGTAAAACGATAATTCTATAAATCGAGGGTAAAATA
1 AGGGCAAAATAGTAATTTTGTAAATCAAGGGTAAAACGATAATTCTATAAATAGAAGGTAAAATA
* *
57319381 GTAATTCTATAAATTG
66 GTAATTCTACAAATCG
* * * * *
57319397 AGGGTAAAATGGTAATTTTGTAAATCGAGGGTGAAACGGTAATTCTATAAATAGAAGGTAAAATA
1 AGGGCAAAATAGTAATTTTGTAAATCAAGGGTAAAACGATAATTCTATAAATAGAAGGTAAAATA
57319462 GTAATTCTACAAATCG
66 GTAATTCTACAAATCG
*** * * *
57319478 AGGGCATTTTAGTAATTTTATAAACCAATGGTA
1 AGGGCAAAATAGTAATTTTGTAAATCAAGGGTA
57319511 TTTCTATAAT
Statistics
Matches: 97, Mismatches: 17, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
81 97 1.00
ACGTcount: A:0.42, C:0.07, G:0.21, T:0.31
Consensus pattern (81 bp):
AGGGCAAAATAGTAATTTTGTAAATCAAGGGTAAAACGATAATTCTATAAATAGAAGGTAAAATA
GTAATTCTACAAATCG
Found at i:57319521 original size:54 final size:54
Alignment explanation
Indices: 57319463--57319686 Score: 209
Period size: 54 Copynumber: 4.1 Consensus size: 54
57319453 GGTAAAATAG
* * * *
57319463 TAATTCTACAAATCGAGGGCATTTTAGTAATTTTATAAACCAATGGTATTTCT-A
1 TAATTTTACAAATCGAGGGTATTTTGGTAATTTTATAAACCAGTGGTATTT-TGA
* * ** * * * *
57319517 TAATTTTTAGAATGTTAAGGGTATTTTTGTAATTTTATAAATCAGGGGTATTTTGG
1 TAA-TTTTACAA-ATCGAGGGTATTTTGGTAATTTTATAAACCAGTGGTATTTTGA
* * * *
57319573 TAATTTTACAAATTGAGGGTATTTCGGTAATTTCACAAACCAGTGGTATTTTGA
1 TAATTTTACAAATCGAGGGTATTTTGGTAATTTTATAAACCAGTGGTATTTTGA
* * * * *
57319627 TAATTTTACAAA-CCAGGGGTATTTTGGTAATTTTACAATCCAGGGGTATTTTGG
1 TAATTTTACAAATCGA-GGGTATTTTGGTAATTTTATAAACCAGTGGTATTTTGA
57319681 TAATTT
1 TAATTT
57319687 GGTAAACTAA
Statistics
Matches: 138, Mismatches: 28, Indels: 8
0.79 0.16 0.05
Matches are distributed among these distances:
53 1 0.01
54 88 0.64
55 14 0.10
56 35 0.25
ACGTcount: A:0.31, C:0.09, G:0.18, T:0.42
Consensus pattern (54 bp):
TAATTTTACAAATCGAGGGTATTTTGGTAATTTTATAAACCAGTGGTATTTTGA
Found at i:57319575 original size:27 final size:27
Alignment explanation
Indices: 57319535--57319686 Score: 191
Period size: 27 Copynumber: 5.6 Consensus size: 27
57319525 AGAATGTTAA
* *
57319535 GGGTATTTTTGTAATTTTATAAATCAG
1 GGGTATTTTGGTAATTTTACAAATCAG
*
57319562 GGGTATTTTGGTAATTTTACAAAT-TG
1 GGGTATTTTGGTAATTTTACAAATCAG
* * *
57319588 AGGGTATTTCGGTAATTTCACAAACCAG
1 -GGGTATTTTGGTAATTTTACAAATCAG
* * *
57319616 TGGTATTTTGATAATTTTACAAACCAG
1 GGGTATTTTGGTAATTTTACAAATCAG
57319643 GGGTATTTTGGTAATTTTAC-AATCCAG
1 GGGTATTTTGGTAATTTTACAAAT-CAG
57319670 GGGTATTTTGGTAATTT
1 GGGTATTTTGGTAATTT
57319687 GGTAAACTAA
Statistics
Matches: 108, Mismatches: 14, Indels: 6
0.84 0.11 0.05
Matches are distributed among these distances:
26 3 0.03
27 104 0.96
28 1 0.01
ACGTcount: A:0.28, C:0.09, G:0.21, T:0.42
Consensus pattern (27 bp):
GGGTATTTTGGTAATTTTACAAATCAG
Found at i:57319651 original size:81 final size:81
Alignment explanation
Indices: 57319536--57319686 Score: 225
Period size: 81 Copynumber: 1.9 Consensus size: 81
57319526 GAATGTTAAG
* * **
57319536 GGTATTTTTGTAATTTTATAAATCAGGGGTATTTTGGTAATTTTACAAATTGA-GGGTATTTCGG
1 GGTATTTTTGTAATTTTACAAACCAGGGGTATTTTGGTAATTTTAC-AATCCAGGGGTATTTCGG
57319600 TAATTTCACAAACCAGT
65 TAATTTCACAAACCAGT
*
57319617 GGTA-TTTTGATAATTTTACAAACCAGGGGTATTTTGGTAATTTTACAATCCAGGGGTATTTTGG
1 GGTATTTTTG-TAATTTTACAAACCAGGGGTATTTTGGTAATTTTACAATCCAGGGGTATTTCGG
57319681 TAATTT
65 TAATTT
57319687 GGTAAACTAA
Statistics
Matches: 63, Mismatches: 5, Indels: 4
0.88 0.07 0.06
Matches are distributed among these distances:
80 9 0.14
81 54 0.86
ACGTcount: A:0.28, C:0.09, G:0.21, T:0.42
Consensus pattern (81 bp):
GGTATTTTTGTAATTTTACAAACCAGGGGTATTTTGGTAATTTTACAATCCAGGGGTATTTCGGT
AATTTCACAAACCAGT
Found at i:57321616 original size:18 final size:18
Alignment explanation
Indices: 57321583--57321634 Score: 54
Period size: 18 Copynumber: 2.9 Consensus size: 18
57321573 GGCTTTAACC
57321583 CATTA-CAGAATAAGAAA
1 CATTATCAGAATAAGAAA
*
57321600 CATTATCAGAACT-AGAAT
1 CATTATCAGAA-TAAGAAA
* *
57321618 CATAATCAGAATCAGAA
1 CATTATCAGAATAAGAA
57321635 TTAGGTGACA
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
17 6 0.20
18 23 0.77
19 1 0.03
ACGTcount: A:0.52, C:0.15, G:0.12, T:0.21
Consensus pattern (18 bp):
CATTATCAGAATAAGAAA
Found at i:57321624 original size:6 final size:6
Alignment explanation
Indices: 57321604--57321694 Score: 53
Period size: 6 Copynumber: 14.8 Consensus size: 6
57321594 AAGAAACATT
* * *
57321604 ATCAGA A-CTAGA ATCATA ATCAGA ATCAGA ATTAG- GTGACAGA ATCAGA
1 ATCAGA ATC-AGA ATCAGA ATCAGA ATCAGA ATCAGA AT--CAGA ATCAGA
* * * *
57321653 ATCAGT ATTAGGTA A-CAGA ATCAAA ATCAGA ATCAGT ATCAG
1 ATCAGA ATCA-G-A ATCAGA ATCAGA ATCAGA ATCAGA ATCAG
57321695 GTAAAAGAAT
Statistics
Matches: 64, Mismatches: 13, Indels: 16
0.69 0.14 0.17
Matches are distributed among these distances:
5 4 0.06
6 53 0.83
7 5 0.08
8 2 0.03
ACGTcount: A:0.46, C:0.14, G:0.18, T:0.22
Consensus pattern (6 bp):
ATCAGA
Found at i:57321648 original size:31 final size:30
Alignment explanation
Indices: 57321613--57321708 Score: 103
Period size: 31 Copynumber: 3.3 Consensus size: 30
57321603 TATCAGAACT
* *
57321613 AGAATCATAATCAGAATCAGAATTAGGTGAC
1 AGAATCA-AATCAGAATCAGTATTAGGTAAC
57321644 AG-----AATCAGAATCAGTATTAGGTAAC
1 AGAATCAAATCAGAATCAGTATTAGGTAAC
* *
57321669 AGAATCAAAATCAGAATCAGTATCAGGTAAA
1 AGAATC-AAATCAGAATCAGTATTAGGTAAC
57321700 AGAATCAAA
1 AGAATCAAA
57321709 AATTAGAATG
Statistics
Matches: 55, Mismatches: 4, Indels: 13
0.76 0.06 0.18
Matches are distributed among these distances:
25 23 0.42
30 3 0.05
31 29 0.53
ACGTcount: A:0.49, C:0.12, G:0.18, T:0.21
Consensus pattern (30 bp):
AGAATCAAATCAGAATCAGTATTAGGTAAC
Found at i:57321652 original size:25 final size:25
Alignment explanation
Indices: 57321621--57321685 Score: 103
Period size: 25 Copynumber: 2.6 Consensus size: 25
57321611 CTAGAATCAT
*
57321621 AATCAGAATCAGAATTAGGTGACAG
1 AATCAGAATCAGAATTAGGTAACAG
*
57321646 AATCAGAATCAGTATTAGGTAACAG
1 AATCAGAATCAGAATTAGGTAACAG
*
57321671 AATCAAAATCAGAAT
1 AATCAGAATCAGAAT
57321686 CAGTATCAGG
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
25 36 1.00
ACGTcount: A:0.48, C:0.12, G:0.18, T:0.22
Consensus pattern (25 bp):
AATCAGAATCAGAATTAGGTAACAG
Found at i:57321709 original size:31 final size:31
Alignment explanation
Indices: 57321646--57321709 Score: 110
Period size: 31 Copynumber: 2.1 Consensus size: 31
57321636 TAGGTGACAG
* *
57321646 AATCAGAATCAGTATTAGGTAACAGAATCAA
1 AATCAGAATCAGTATCAGGTAAAAGAATCAA
57321677 AATCAGAATCAGTATCAGGTAAAAGAATCAA
1 AATCAGAATCAGTATCAGGTAAAAGAATCAA
57321708 AA
1 AA
57321710 ATTAGAATGT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.52, C:0.12, G:0.16, T:0.20
Consensus pattern (31 bp):
AATCAGAATCAGTATCAGGTAAAAGAATCAA
Found at i:57321896 original size:27 final size:26
Alignment explanation
Indices: 57321854--57321910 Score: 87
Period size: 27 Copynumber: 2.2 Consensus size: 26
57321844 GCTCAGTTAT
*
57321854 CAGATATTGTGACAGAGTCACCAGATA
1 CAGATATTGTGACAGAGCCACCAGA-A
*
57321881 CAGATATTGTGGCAGAGCCACCAGAA
1 CAGATATTGTGACAGAGCCACCAGAA
57321907 CAGA
1 CAGA
57321911 CATAGCCACC
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
26 5 0.18
27 23 0.82
ACGTcount: A:0.37, C:0.21, G:0.25, T:0.18
Consensus pattern (26 bp):
CAGATATTGTGACAGAGCCACCAGAA
Found at i:57322652 original size:27 final size:27
Alignment explanation
Indices: 57322620--57323059 Score: 573
Period size: 27 Copynumber: 16.3 Consensus size: 27
57322610 CAAGGTATCA
*
57322620 CGGTAATT-TCACCCTATAGGGGTATTT
1 CGGTAATTCT-ACCCTACAGGGGTATTT
** *
57322647 TAGTAATTCTACCCTATAGGGGTATTT
1 CGGTAATTCTACCCTACAGGGGTATTT
*
57322674 CGGTAATTCTACCCTACAGGGGTATTG
1 CGGTAATTCTACCCTACAGGGGTATTT
*
57322701 CGATAATTCTACCCTACAGGGGTATTT
1 CGGTAATTCTACCCTACAGGGGTATTT
*
57322728 CGGTAACTCTACCCTACAGGGGTATTT
1 CGGTAATTCTACCCTACAGGGGTATTT
* *
57322755 CGATAATTCTACCCTACAGGGGTATTC
1 CGGTAATTCTACCCTACAGGGGTATTT
* *
57322782 CAGTAATTCTACCCTACAGAGGTATTT
1 CGGTAATTCTACCCTACAGGGGTATTT
*
57322809 CAGTAATTCTACCCTACAGGGGTATTT
1 CGGTAATTCTACCCTACAGGGGTATTT
57322836 CGGTAATTCTACCCTACAGGGGTATTT
1 CGGTAATTCTACCCTACAGGGGTATTT
* *
57322863 TGGTAATTCTACCCTACAGGGGTATTC
1 CGGTAATTCTACCCTACAGGGGTATTT
*
57322890 CGGTAATTCTACCCCACAGGGGTA-TT
1 CGGTAATTCTACCCTACAGGGGTATTT
*
57322916 CTGGTAATTCTACCTTACAGGGGTATTT
1 C-GGTAATTCTACCCTACAGGGGTATTT
57322944 CGGTAATTCTACCCTACAGGGGTATTT
1 CGGTAATTCTACCCTACAGGGGTATTT
* * **
57322971 CGATAATTTTA-CAAACTAGGGGTATTT
1 CGGTAATTCTACCCTAC-AGGGGTATTT
* * **
57322998 TGGTAATTTTA-CAAACTAGGGGTATTT
1 CGGTAATTCTACCCTAC-AGGGGTATTT
* *
57323025 TGGTAATTCTATCCTACAGGGGTATTT
1 CGGTAATTCTACCCTACAGGGGTATTT
*
57323052 CAGTAATT
1 CGGTAATT
57323060 TCACAATCGA
Statistics
Matches: 370, Mismatches: 38, Indels: 10
0.89 0.09 0.02
Matches are distributed among these distances:
26 5 0.01
27 358 0.97
28 7 0.02
ACGTcount: A:0.25, C:0.20, G:0.21, T:0.35
Consensus pattern (27 bp):
CGGTAATTCTACCCTACAGGGGTATTT
Found at i:57323098 original size:27 final size:27
Alignment explanation
Indices: 57323064--57323238 Score: 199
Period size: 27 Copynumber: 6.5 Consensus size: 27
57323054 GTAATTTCAC
*
57323064 AATCGAGGGTAAAACAGTAATTTTGTA
1 AATCGAGGGTAAAACAGTAATTTTATA
* ** *
57323091 AATTGAGGGTAAAATGGTAATTTTGTA
1 AATCGAGGGTAAAACAGTAATTTTATA
* *
57323118 AATCGAGGGTAAAATAGTAATTCTATA
1 AATCGAGGGTAAAACAGTAATTTTATA
* *
57323145 AATCGAGGGTAAAATAGTAATTCTATA
1 AATCGAGGGTAAAACAGTAATTTTATA
* *
57323172 AATCGAGGGTAAAACGGTAATTTTGTA
1 AATCGAGGGTAAAACAGTAATTTTATA
* * * *
57323199 AATCGAAGGTGAAACGGTAATTATATA
1 AATCGAGGGTAAAACAGTAATTTTATA
*
57323226 AAT-AAGGGTAAAA
1 AATCGAGGGTAAAA
57323239 TGGTAATTCT
Statistics
Matches: 130, Mismatches: 18, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
26 7 0.05
27 123 0.95
ACGTcount: A:0.43, C:0.06, G:0.22, T:0.29
Consensus pattern (27 bp):
AATCGAGGGTAAAACAGTAATTTTATA
Found at i:57323137 original size:54 final size:54
Alignment explanation
Indices: 57323064--57323238 Score: 226
Period size: 54 Copynumber: 3.3 Consensus size: 54
57323054 GTAATTTCAC
* * *
57323064 AATCGAGGGTAAAACAGTAATTTTGTAAATTGAGGGTAAAATGGTAATTTTGTA
1 AATCGAGGGTAAAACAGTAATTTTGTAAATCGAGGGTAAAATGGTAATTATATA
* * * * *
57323118 AATCGAGGGTAAAATAGTAATTCTATAAATCGAGGGTAAAATAGTAATTCTATA
1 AATCGAGGGTAAAACAGTAATTTTGTAAATCGAGGGTAAAATGGTAATTATATA
* * * *
57323172 AATCGAGGGTAAAACGGTAATTTTGTAAATCGAAGGTGAAACGGTAATTATATA
1 AATCGAGGGTAAAACAGTAATTTTGTAAATCGAGGGTAAAATGGTAATTATATA
*
57323226 AAT-AAGGGTAAAA
1 AATCGAGGGTAAAA
57323239 TGGTAATTCT
Statistics
Matches: 104, Mismatches: 17, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
53 9 0.09
54 95 0.91
ACGTcount: A:0.43, C:0.06, G:0.22, T:0.29
Consensus pattern (54 bp):
AATCGAGGGTAAAACAGTAATTTTGTAAATCGAGGGTAAAATGGTAATTATATA
Found at i:57323174 original size:81 final size:81
Alignment explanation
Indices: 57323064--57323260 Score: 261
Period size: 81 Copynumber: 2.4 Consensus size: 81
57323054 GTAATTTCAC
* * * * *
57323064 AATCGAGGGTAAAACAGTAATTTTGTAAATTGAGGGTAAAATGGTAATTTTGTAAATCGAGGGTA
1 AATCGAGGGTAAAATAGTAATTCTATAAATTGAGGGTAAAACGGTAATTTTGTAAATCGAAGGTA
* *
57323129 AAATAGTAATTCTATA
66 AAACAGTAATTATATA
* *
57323145 AATCGAGGGTAAAATAGTAATTCTATAAATCGAGGGTAAAACGGTAATTTTGTAAATCGAAGGTG
1 AATCGAGGGTAAAATAGTAATTCTATAAATTGAGGGTAAAACGGTAATTTTGTAAATCGAAGGTA
*
57323210 AAACGGTAATTATATA
66 AAACAGTAATTATATA
* * * *
57323226 AAT-AAGGGTAAAATGGTAATTCTACAAATTAAGGG
1 AATCGAGGGTAAAATAGTAATTCTATAAATTGAGGG
57323261 CATTTTAGTA
Statistics
Matches: 101, Mismatches: 15, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
80 27 0.27
81 74 0.73
ACGTcount: A:0.42, C:0.06, G:0.22, T:0.29
Consensus pattern (81 bp):
AATCGAGGGTAAAATAGTAATTCTATAAATTGAGGGTAAAACGGTAATTTTGTAAATCGAAGGTA
AAACAGTAATTATATA
Found at i:57323321 original size:29 final size:28
Alignment explanation
Indices: 57323248--57323597 Score: 119
Period size: 27 Copynumber: 13.0 Consensus size: 28
57323238 ATGGTAATTC
* *
57323248 TACAAATTAAGGGCATTT-TAGTAA-TTT
1 TACAAATCAAGGGTATTTCT-GTAATTTT
* * *
57323275 T-CTAAACCAATGGTATTTCTATAATTTT
1 TAC-AAATCAAGGGTATTTCTGTAATTTT
*
57323303 TAGAAAGTCAAGGGTATTTCTGTAATTTTT
1 TACAAA-TCAAGGGTATTTCTGTAA-TTTT
*
57323333 TCACAAA-CTAGTGGTATTT-TGGTAA-TTT
1 T-ACAAATCAAG-GGTATTTCT-GTAATTTT
* * *
57323361 TACAAACCAGGGGTATTTCTATAATTTT
1 TACAAATCAAGGGTATTTCTGTAATTTT
* * *
57323389 TAGAAAGTCAAGGATATTTTTGTAATTTT
1 TACAAA-TCAAGGGTATTTCTGTAATTTT
*
57323418 GT--AAATC-AGGG-------GTATT-TT
1 -TACAAATCAAGGGTATTTCTGTAATTTT
** *
57323436 TACAAATTGAGGGTATTTCGGTAA-TTT
1 TACAAATCAAGGGTATTTCTGTAATTTT
* *
57323463 CACAAA-CCAGTGGTATTT-TGATAA-TTT
1 TACAAATCAAG-GGTATTTCTG-TAATTTT
* *
57323490 TACAAACCAGGGGTATTT-TGGTAA-TTT
1 TACAAATCAAGGGTATTTCT-GTAATTTT
* *
57323517 TACAAACCAGGGGTATTT-TGGTAA-TTT
1 TACAAATCAAGGGTATTTCT-GTAATTTT
*
57323544 TATAAA-CAAAGGGTATTT-TAGTAA-TTT
1 TACAAATC-AAGGGTATTTCT-GTAATTTT
* *
57323571 TACAAACCAGGGGTATTT-TGGTAATTT
1 TACAAATCAAGGGTATTTCT-GTAATTT
57323598 GGTAAACCAA
Statistics
Matches: 254, Mismatches: 37, Indels: 63
0.72 0.10 0.18
Matches are distributed among these distances:
17 1 0.00
18 2 0.01
19 8 0.03
20 4 0.02
26 8 0.03
27 142 0.56
28 32 0.13
29 36 0.14
30 17 0.07
31 4 0.02
ACGTcount: A:0.32, C:0.09, G:0.18, T:0.41
Consensus pattern (28 bp):
TACAAATCAAGGGTATTTCTGTAATTTT
Found at i:57323375 original size:27 final size:27
Alignment explanation
Indices: 57323330--57323597 Score: 232
Period size: 27 Copynumber: 10.1 Consensus size: 27
57323320 TTCTGTAATT
* *
57323330 TTTTCACAAACTAGTGGTATTTTGGTAA
1 TTTT-ACAAACCAGGGGTATTTTGGTAA
*
57323358 TTTTACAAACCAGGGGTATTTCT-ATAA
1 TTTTACAAACCAGGGGTATTT-TGGTAA
* * * * *
57323385 TTTTTAGAAAGTCAAGGATATTTTTGTAA
1 -TTTTACAAA-CCAGGGGTATTTTGGTAA
** *
57323414 TTTTGTAAATCAGGGGTA------T--
1 TTTTACAAACCAGGGGTATTTTGGTAA
** *
57323433 TTTTACAAATTGAG-GGTATTTCGGTAA
1 TTTTACAAA-CCAGGGGTATTTTGGTAA
* * *
57323460 TTTCACAAACCAGTGGTATTTTGATAA
1 TTTTACAAACCAGGGGTATTTTGGTAA
57323487 TTTTACAAACCAGGGGTATTTTGGTAA
1 TTTTACAAACCAGGGGTATTTTGGTAA
57323514 TTTTACAAACCAGGGGTATTTTGGTAA
1 TTTTACAAACCAGGGGTATTTTGGTAA
* * * *
57323541 TTTTATAAACAAAGGGTATTTTAGTAA
1 TTTTACAAACCAGGGGTATTTTGGTAA
57323568 TTTTACAAACCAGGGGTATTTTGGTAA
1 TTTTACAAACCAGGGGTATTTTGGTAA
57323595 TTT
1 TTT
57323598 GGTAAACCAA
Statistics
Matches: 195, Mismatches: 31, Indels: 29
0.76 0.12 0.11
Matches are distributed among these distances:
19 11 0.06
20 3 0.02
21 1 0.01
25 1 0.01
26 2 0.01
27 144 0.74
28 21 0.11
29 12 0.06
ACGTcount: A:0.31, C:0.09, G:0.19, T:0.40
Consensus pattern (27 bp):
TTTTACAAACCAGGGGTATTTTGGTAA
Found at i:57325239 original size:5 final size:5
Alignment explanation
Indices: 57325221--57325252 Score: 55
Period size: 5 Copynumber: 6.2 Consensus size: 5
57325211 GGATTCATTT
57325221 TTTTC TTCTTC TTTTC TTTTC TTTTC TTTTC T
1 TTTTC TT-TTC TTTTC TTTTC TTTTC TTTTC T
57325253 CTTCATCTAC
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
5 21 0.81
6 5 0.19
ACGTcount: A:0.00, C:0.22, G:0.00, T:0.78
Consensus pattern (5 bp):
TTTTC
Found at i:57325249 original size:15 final size:16
Alignment explanation
Indices: 57325221--57325276 Score: 62
Period size: 15 Copynumber: 3.6 Consensus size: 16
57325211 GGATTCATTT
57325221 TTTTCTTCTTCTTTTC
1 TTTTCTTCTTCTTTTC
57325237 TTTTCTT-TTCTTTTC
1 TTTTCTTCTTCTTTTC
* * *
57325252 TCTTCATCTAC-TTTC
1 TTTTCTTCTTCTTTTC
*
57325267 TCTTCTTCTT
1 TTTTCTTCTT
57325277 TTCCCGCATA
Statistics
Matches: 34, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
15 25 0.74
16 9 0.26
ACGTcount: A:0.04, C:0.27, G:0.00, T:0.70
Consensus pattern (16 bp):
TTTTCTTCTTCTTTTC
Found at i:57329033 original size:45 final size:44
Alignment explanation
Indices: 57328868--57329025 Score: 190
Period size: 45 Copynumber: 3.5 Consensus size: 44
57328858 TTCCATTATT
* ** *
57328868 AACTCGGACCAACTCAACGAGCTCAGATGCTCGCATCCATAATG
1 AACTCGGACCAACTCAACGAGCTCAGATGCTCACATATATCATG
* * *
57328912 AACTTGGACCAACTCAACGAGCTCAGATGCTTCACATATACCACG
1 AACTCGGACCAACTCAACGAGCTCAGATGC-TCACATATATCATG
** * * *
57328957 AACTTAGACCAACTCAACAAGTTCAGATTTCTCACATATATCATG
1 AACTCGGACCAACTCAACGAGCTCAGA-TGCTCACATATATCATG
57329002 AACTCGGACCAACTCAACGAGCTC
1 AACTCGGACCAACTCAACGAGCTC
57329026 GAATTTCTTA
Statistics
Matches: 95, Mismatches: 17, Indels: 3
0.83 0.15 0.03
Matches are distributed among these distances:
44 29 0.31
45 64 0.67
46 2 0.02
ACGTcount: A:0.34, C:0.30, G:0.15, T:0.21
Consensus pattern (44 bp):
AACTCGGACCAACTCAACGAGCTCAGATGCTCACATATATCATG
Found at i:57332775 original size:28 final size:28
Alignment explanation
Indices: 57332707--57332795 Score: 137
Period size: 27 Copynumber: 3.2 Consensus size: 28
57332697 GAGGAAGCGT
*
57332707 TCTGGTGGCTCTACCACAAATATCT-TA
1 TCTGGTGGCTCTGCCACAAATATCTGTA
*
57332734 TCTGGTGGCTCTGCCACAAATATCTGTT
1 TCTGGTGGCTCTGCCACAAATATCTGTA
*
57332762 TTTGGTGGCTCTGCCAC-AATATCTGTA
1 TCTGGTGGCTCTGCCACAAATATCTGTA
57332789 TCTGGTG
1 TCTGGTG
57332796 ACTTTGTCAC
Statistics
Matches: 56, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
27 39 0.70
28 17 0.30
ACGTcount: A:0.19, C:0.24, G:0.21, T:0.36
Consensus pattern (28 bp):
TCTGGTGGCTCTGCCACAAATATCTGTA
Found at i:57332806 original size:27 final size:27
Alignment explanation
Indices: 57332707--57332819 Score: 131
Period size: 27 Copynumber: 4.2 Consensus size: 27
57332697 GAGGAAGCGT
*
57332707 TCTGGTGGCTCTACCACAAATATCT-TA
1 TCTGGTGGCTCTGCCAC-AATATCTGTA
*
57332734 TCTGGTGGCTCTGCCACAAATATCTGTT
1 TCTGGTGGCTCTGCCAC-AATATCTGTA
*
57332762 TTTGGTGGCTCTGCCACAATATCTGTA
1 TCTGGTGGCTCTGCCACAATATCTGTA
* * * *
57332789 TCTGGTGACTTTGTCACAATATTTGT-
1 TCTGGTGGCTCTGCCACAATATCTGTA
57332815 TCTGG
1 TCTGG
57332820 CAGCCATGCT
Statistics
Matches: 76, Mismatches: 9, Indels: 3
0.86 0.10 0.03
Matches are distributed among these distances:
26 5 0.07
27 54 0.71
28 17 0.22
ACGTcount: A:0.19, C:0.22, G:0.20, T:0.38
Consensus pattern (27 bp):
TCTGGTGGCTCTGCCACAATATCTGTA
Found at i:57332807 original size:55 final size:54
Alignment explanation
Indices: 57332709--57332815 Score: 144
Period size: 55 Copynumber: 2.0 Consensus size: 54
57332699 GGAAGCGTTC
*
57332709 TGGTGGCTCTACCACAAATATCTTATCTGGTGGCTCTGCCACAAATATCTGTTTT
1 TGGTGGCTCTACCACAAATATCTTATCTGGTGACTCTGCCAC-AATATCTGTTTT
* * * *
57332764 TGGTGGCTCTGCCAC-AATATCTGTATCTGGTGACTTTGTCACAATATTTGTT
1 TGGTGGCTCTACCACAAATATCT-TATCTGGTGACTCTGCCACAATATCTGTT
57332816 CTGGCAGCCA
Statistics
Matches: 46, Mismatches: 5, Indels: 3
0.85 0.09 0.06
Matches are distributed among these distances:
54 16 0.35
55 30 0.65
ACGTcount: A:0.21, C:0.21, G:0.20, T:0.38
Consensus pattern (54 bp):
TGGTGGCTCTACCACAAATATCTTATCTGGTGACTCTGCCACAATATCTGTTTT
Found at i:57340439 original size:26 final size:27
Alignment explanation
Indices: 57340387--57340450 Score: 94
Period size: 26 Copynumber: 2.4 Consensus size: 27
57340377 ATTTACTAAA
* *
57340387 ATACCCCTAAGTATGAATATTACCATT
1 ATACCCCTAGGTATGAAAATTACCATT
*
57340414 ATACCCCTAGGTGT-AAAATTACCATT
1 ATACCCCTAGGTATGAAAATTACCATT
57340440 ATACCCCTAGG
1 ATACCCCTAGG
57340451 GTTAATTTTG
Statistics
Matches: 34, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
26 22 0.65
27 12 0.35
ACGTcount: A:0.34, C:0.25, G:0.11, T:0.30
Consensus pattern (27 bp):
ATACCCCTAGGTATGAAAATTACCATT
Found at i:57340626 original size:28 final size:28
Alignment explanation
Indices: 57340554--57340647 Score: 120
Period size: 27 Copynumber: 3.4 Consensus size: 28
57340544 GACGAAGCGT
57340554 TCTGGTGGCTCTGCCACAAATATCTG-A
1 TCTGGTGGCTCTGCCACAAATATCTGTA
* * *
57340581 TCTAGTGGCTCTACCACAAATATCTGTT
1 TCTGGTGGCTCTGCCACAAATATCTGTA
* *
57340609 TTTGGTGGCTCTGGCAC-AATATCTGTA
1 TCTGGTGGCTCTGCCACAAATATCTGTA
*
57340636 TCTGGTGACTCT
1 TCTGGTGGCTCT
57340648 ATCATAATAT
Statistics
Matches: 56, Mismatches: 10, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
27 43 0.77
28 13 0.23
ACGTcount: A:0.20, C:0.23, G:0.21, T:0.35
Consensus pattern (28 bp):
TCTGGTGGCTCTGCCACAAATATCTGTA
Found at i:57340629 original size:27 final size:28
Alignment explanation
Indices: 57340554--57340666 Score: 117
Period size: 27 Copynumber: 4.2 Consensus size: 28
57340544 GACGAAGCGT
*
57340554 TCTGGTGGCTCTGCCACAAATATCTG-A
1 TCTGGTGGCTCTACCACAAATATCTGTA
* *
57340581 TCTAGTGGCTCTACCACAAATATCTGTT
1 TCTGGTGGCTCTACCACAAATATCTGTA
* **
57340609 TTTGGTGGCTCTGGCAC-AATATCTGTA
1 TCTGGTGGCTCTACCACAAATATCTGTA
* * *
57340636 TCTGGTGACTCTATCA-TAATATCTGT-
1 TCTGGTGGCTCTACCACAAATATCTGTA
57340662 TCTGG
1 TCTGG
57340667 CAGTCATGCT
Statistics
Matches: 72, Mismatches: 12, Indels: 5
0.81 0.13 0.06
Matches are distributed among these distances:
26 5 0.07
27 54 0.75
28 13 0.18
ACGTcount: A:0.21, C:0.22, G:0.20, T:0.36
Consensus pattern (28 bp):
TCTGGTGGCTCTACCACAAATATCTGTA
Found at i:57340660 original size:54 final size:55
Alignment explanation
Indices: 57340556--57340662 Score: 146
Period size: 55 Copynumber: 2.0 Consensus size: 55
57340546 CGAAGCGTTC
*
57340556 TGGTGGCTCTGCCACAAATATCTGATCTAGTGGCTCTACCACAAATATCTGTTTT
1 TGGTGGCTCTGCCACAAATATCTGATCTAGTGACTCTACCACAAATATCTGTTTT
* * * *
57340611 TGGTGGCTCTGGCAC-AATATCTGTATCTGGTGACTCTATCA-TAATATCTGTT
1 TGGTGGCTCTGCCACAAATATCTG-ATCTAGTGACTCTACCACAAATATCTGTT
57340663 CTGGCAGTCA
Statistics
Matches: 46, Mismatches: 5, Indels: 3
0.85 0.09 0.06
Matches are distributed among these distances:
54 18 0.39
55 28 0.61
ACGTcount: A:0.22, C:0.21, G:0.20, T:0.36
Consensus pattern (55 bp):
TGGTGGCTCTGCCACAAATATCTGATCTAGTGACTCTACCACAAATATCTGTTTT
Found at i:57342424 original size:30 final size:31
Alignment explanation
Indices: 57342381--57342453 Score: 96
Period size: 30 Copynumber: 2.4 Consensus size: 31
57342371 GAGATGACAT
* * *
57342381 GAAAACCATGATAAAGAAGTCCAAGACA-AA
1 GAAATCCAAGATAAAGAAATCCAAGACACAA
*
57342411 GAAATCCAAGATAAAGAAATCCAAGATACAA
1 GAAATCCAAGATAAAGAAATCCAAGACACAA
57342442 -AAATCCAAGATA
1 GAAATCCAAGATA
57342454 CAATATCATA
Statistics
Matches: 38, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
30 36 0.95
31 2 0.05
ACGTcount: A:0.58, C:0.16, G:0.14, T:0.12
Consensus pattern (31 bp):
GAAATCCAAGATAAAGAAATCCAAGACACAA
Done.