Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr2
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: 50190067
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.32
Warning! 915496 characters in sequence are not A, C, G, or T
File 85 of 161
Found at i:26823991 original size:20 final size:19
Alignment explanation
Indices: 26823951--26823996 Score: 51
Period size: 19 Copynumber: 2.4 Consensus size: 19
26823941 GACCCCTGTA
*
26823951 GTTT-TGAAAATTTTCATT
1 GTTTCTGAAAAATTTCATT
26823969 GTTTTCTGAAAAATTT-ATAT
1 G-TTTCTGAAAAATTTCAT-T
26823989 GTTTCTGA
1 GTTTCTGA
26823997 TTTAGTCCCA
Statistics
Matches: 24, Mismatches: 1, Indels: 5
0.80 0.03 0.17
Matches are distributed among these distances:
18 1 0.04
19 12 0.50
20 11 0.46
ACGTcount: A:0.28, C:0.07, G:0.13, T:0.52
Consensus pattern (19 bp):
GTTTCTGAAAAATTTCATT
Found at i:26824984 original size:33 final size:33
Alignment explanation
Indices: 26824929--26825015 Score: 93
Period size: 33 Copynumber: 2.6 Consensus size: 33
26824919 TGGTCCAACC
** * * *
26824929 ATGGTCTTATGTTCATAGTGCCATAACCCAGTT
1 ATGGTCTTATCATCAGAATGCCATAACCCAGCT
* *
26824962 ATGGTCTTATCATCAGAATGCCATAGCCTAGCT
1 ATGGTCTTATCATCAGAATGCCATAACCCAGCT
* *
26824995 ATAGTCTTATCATCAGTATGC
1 ATGGTCTTATCATCAGAATGC
26825016 ATAGTGTAAC
Statistics
Matches: 45, Mismatches: 9, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
33 45 1.00
ACGTcount: A:0.26, C:0.22, G:0.17, T:0.34
Consensus pattern (33 bp):
ATGGTCTTATCATCAGAATGCCATAACCCAGCT
Found at i:26829516 original size:15 final size:16
Alignment explanation
Indices: 26829496--26829527 Score: 57
Period size: 15 Copynumber: 2.1 Consensus size: 16
26829486 AAATATTTTT
26829496 AAAAATAA-TTTAATA
1 AAAAATAATTTTAATA
26829511 AAAAATAATTTTAATA
1 AAAAATAATTTTAATA
26829527 A
1 A
26829528 TATGCTTATA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 8 0.50
16 8 0.50
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (16 bp):
AAAAATAATTTTAATA
Found at i:26830148 original size:235 final size:241
Alignment explanation
Indices: 26829739--26830452 Score: 635
Period size: 252 Copynumber: 3.0 Consensus size: 241
26829729 ATATATAACT
** * * * * * * **
26829739 ATTATTATAACATAGATTATAATGAAATATATAGTATTACATGATATTATAATGTTTAATCATCA
1 ATTATTATATTATAAATTATAATAAAAGATATAATATTACATGATACTATAATATTTAATCATTG
* * * *
26829804 ATGCATATGTAT--ACCATTAATATA-T-TATATGATAT-A-ATA-CT--CATTATATAATATAG
66 ATGCATATATATAAACTATTAATATATTATATATTATATGATATATATAGCATTATATAA-ATAG
* * **
26829860 TAGGAAAGCTAACTTTTTAAA-GTATGAAAAGTATAGGGACTTAGAATATATTTCAACTAGTATA
130 TAGGAAA-CTAAC-TTTCAAATGTATAAAAAGTATAGGGACTTAGAGCATATTTCAACTAGTATA
*
26829924 AAAATTAATAATGTATGATAATAATTGATATATAATGTAGTA-CTAT-T-
193 AAAATAAATAATGTATGATAATAATT-ATATATAATGTAGTATCTATATA
26829971 A-TA-T-TA-T-T-AA-TATAATAAAAGATATAATATTACATGATACTATAATATTTAATCATTG
1 ATTATTATATTATAAATTATAATAAAAGATATAATATTACATGATACTATAATATTTAATCATTG
* * *
26830029 ATGCATATATATAAATTATTAATATCTTATATATTATATGATATGATATAGCATTATATAAAGTT
66 ATGCATATATATAAACTATTAATATATTATATATTATATGATAT-ATATAGCATTATATAAA-TA
* * * *
26830094 GTAGGAGAACTAACTTTCAAATTTACAAAAAGTATAGGGACTTAGAGCATATTTCAGCCAGTATA
129 GTAGGA-AACTAACTTTCAAATGTATAAAAAGTATAGGGACTTAGAGCATATTTCAACTAGTATA
* * *
26830159 ATAATAAACAATAGTAT-ATAATAATTAATATATAATGTACTACTATTATCTATAATA
193 AAAATAAATAAT-GTATGATAATAATT-ATATATAATG------TAGTATCTAT-ATA
* * * *
26830216 ATTATTATATTATAAATTATAATAAAAGATATAGTATTTCATGATATTATAATCTTTAATCATTG
1 ATTATTATATTATAAATTATAATAAAAGATATAATATTACATGATACTATAATATTTAATCATTG
* * *
26830281 ATGCATATATATAAACTATTAATATATTATATACTATATAATATTATATAGCATTATATTATATA
66 ATGCATATATATAAACTATTAATATATTATATATTATATGATA-TATATAGCATTATA-TAAATA
* * * * ** * *
26830346 GTAGAAAAACTAATTTTCAAATGTATTAAAAGTTACATAGACTTAGAGCATATTGCAA-TCAATA
129 GTAG-GAAACTAACTTTCAAATGTATAAAAAG-TATAGGGACTTAGAGCATATTTCAACT-AGTA
* * *
26830410 TAATAATAAACAATAATATATGATAATAATTATATATTATGTA
191 TAA-AA-ATA-AATAATGTATGATAATAATTATATATAATGTA
26830453 TTGCTCTACT
Statistics
Matches: 386, Mismatches: 56, Indels: 63
0.76 0.11 0.12
Matches are distributed among these distances:
225 52 0.13
226 1 0.00
227 10 0.03
228 1 0.00
229 11 0.03
230 2 0.01
231 4 0.01
232 2 0.01
233 1 0.00
234 7 0.02
235 86 0.22
236 6 0.02
241 4 0.01
242 4 0.01
244 1 0.00
245 1 0.00
246 2 0.01
247 1 0.00
248 2 0.01
249 3 0.01
250 1 0.00
251 2 0.01
252 122 0.32
253 31 0.08
254 1 0.00
255 14 0.04
256 14 0.04
ACGTcount: A:0.45, C:0.07, G:0.09, T:0.39
Consensus pattern (241 bp):
ATTATTATATTATAAATTATAATAAAAGATATAATATTACATGATACTATAATATTTAATCATTG
ATGCATATATATAAACTATTAATATATTATATATTATATGATATATATAGCATTATATAAATAGT
AGGAAACTAACTTTCAAATGTATAAAAAGTATAGGGACTTAGAGCATATTTCAACTAGTATAAAA
ATAAATAATGTATGATAATAATTATATATAATGTAGTATCTATATA
Found at i:26830307 original size:17 final size:18
Alignment explanation
Indices: 26830285--26830330 Score: 58
Period size: 18 Copynumber: 2.5 Consensus size: 18
26830275 TCATTGATGC
26830285 ATATATATAAACTAT-TA
1 ATATATATAAACTATATA
*
26830302 ATATATTATATACTATATA
1 ATATA-TATAAACTATATA
26830321 ATATTATATA
1 ATA-TATATA
26830331 GCATTATATT
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
17 5 0.20
18 9 0.36
19 9 0.36
20 2 0.08
ACGTcount: A:0.50, C:0.04, G:0.00, T:0.46
Consensus pattern (18 bp):
ATATATATAAACTATATA
Found at i:26830339 original size:15 final size:17
Alignment explanation
Indices: 26830302--26830346 Score: 60
Period size: 17 Copynumber: 2.8 Consensus size: 17
26830292 TAAACTATTA
26830302 ATATATTATATA-CTAT
1 ATATATTATATAGCTAT
26830318 ATAATATTATATAGC-AT
1 AT-ATATTATATAGCTAT
26830335 -TATATTATATAG
1 ATATATTATATAG
26830347 TAGAAAAACT
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
15 11 0.41
16 3 0.11
17 12 0.44
18 1 0.04
ACGTcount: A:0.44, C:0.04, G:0.04, T:0.47
Consensus pattern (17 bp):
ATATATTATATAGCTAT
Found at i:26830755 original size:17 final size:17
Alignment explanation
Indices: 26830715--26830747 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
26830705 TACAAACAGT
26830715 ATAA-TAATAAATAATA
1 ATAATTAATAAATAATA
*
26830731 ATAATTAATAATTAATA
1 ATAATTAATAAATAATA
26830748 CTAGTTAAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 4 0.27
17 11 0.73
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (17 bp):
ATAATTAATAAATAATA
Found at i:26832462 original size:39 final size:40
Alignment explanation
Indices: 26832367--26832628 Score: 337
Period size: 39 Copynumber: 6.7 Consensus size: 40
26832357 TTGAATGATG
*
26832367 TCCGGGCTAAGTCCCGAAGGC--TTGTGCTA-AGTGAC-AAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-T-ACTAAT
*
26832405 ATCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 -TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGATACTAAT
26832446 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
26832485 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
* *
26832524 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
*
26832563 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGA-ATTACT-AT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-TACTAAT
* *
26832602 AACCGGGCTATGTCCCGAAGGCATTTG
1 -TCCGGGCTAAGTCCCGAAGGCATTTG
26832629 AACGAGGAGC
Statistics
Matches: 203, Mismatches: 11, Indels: 17
0.88 0.05 0.07
Matches are distributed among these distances:
39 132 0.65
40 59 0.29
41 11 0.05
42 1 0.00
ACGTcount: A:0.26, C:0.23, G:0.27, T:0.24
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
Found at i:26836490 original size:57 final size:58
Alignment explanation
Indices: 26836415--26836532 Score: 157
Period size: 57 Copynumber: 2.1 Consensus size: 58
26836405 CATTTTCAAA
* * *
26836415 TCATTTTCATTTTCGAGAAAACCACATTCATTTTCAAATGATT-CTATTTCTCTATTT
1 TCATTTTCATTTTCGAGAAAACCACAATAATTTTCAAATGATTCCTATTTCTCCATTT
* * * * *
26836472 TCATTTTTATTTTGGAGAAAACCATAATAATTTTCAAGTGTTTCCTATTTCTCCATTT
1 TCATTTTCATTTTCGAGAAAACCACAATAATTTTCAAATGATTCCTATTTCTCCATTT
26836530 TCA
1 TCA
26836533 CCATCTCTAT
Statistics
Matches: 52, Mismatches: 8, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
57 36 0.69
58 16 0.31
ACGTcount: A:0.28, C:0.18, G:0.07, T:0.47
Consensus pattern (58 bp):
TCATTTTCATTTTCGAGAAAACCACAATAATTTTCAAATGATTCCTATTTCTCCATTT
Found at i:26838652 original size:9 final size:9
Alignment explanation
Indices: 26838638--26838668 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
26838628 GTTAAACGAA
26838638 TCGAGTTAT
1 TCGAGTTAT
*
26838647 TCGAGTTAA
1 TCGAGTTAT
26838656 TCGAGTTAT
1 TCGAGTTAT
26838665 TCGA
1 TCGA
26838669 ATCAACTCAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.26, C:0.13, G:0.23, T:0.39
Consensus pattern (9 bp):
TCGAGTTAT
Found at i:26838737 original size:9 final size:9
Alignment explanation
Indices: 26838720--26838756 Score: 65
Period size: 9 Copynumber: 4.1 Consensus size: 9
26838710 TGAGTTTTCG
26838720 AATTCGAAT
1 AATTCGAAT
*
26838729 AACTCGAAT
1 AATTCGAAT
26838738 AATTCGAAT
1 AATTCGAAT
26838747 AATTCGAAT
1 AATTCGAAT
26838756 A
1 A
26838757 TCAAACTATA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
9 26 1.00
ACGTcount: A:0.46, C:0.14, G:0.11, T:0.30
Consensus pattern (9 bp):
AATTCGAAT
Found at i:26838839 original size:30 final size:31
Alignment explanation
Indices: 26838805--26838865 Score: 99
Period size: 30 Copynumber: 2.0 Consensus size: 31
26838795 AAACTTTTTT
26838805 ACTTT-TCCCTCAAAACTTTTACTCCT-TCCC
1 ACTTTCTCCC-CAAAACTTTTACTCCTCTCCC
26838835 ACTTTCTCCCCAAAACTTTTACTCCTCTCCC
1 ACTTTCTCCCCAAAACTTTTACTCCTCTCCC
26838866 CTCCCAACCC
Statistics
Matches: 29, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
30 21 0.72
31 8 0.28
ACGTcount: A:0.20, C:0.43, G:0.00, T:0.38
Consensus pattern (31 bp):
ACTTTCTCCCCAAAACTTTTACTCCTCTCCC
Found at i:26841134 original size:42 final size:42
Alignment explanation
Indices: 26841071--26841181 Score: 123
Period size: 42 Copynumber: 2.6 Consensus size: 42
26841061 CAAGTTTATA
* * *
26841071 CTTCGATTTATCCGATTATGCACTTACATGACAATATATTTG
1 CTTCGGTTTATCTGATAATGCACTTACATGACAATATATTTG
* * * *
26841113 CTTCGGTTTATCTGATGATGCACTTACGTGCCAGTATATTTG
1 CTTCGGTTTATCTGATAATGCACTTACATGACAATATATTTG
* ** *
26841155 TTTCGGTACATCTGATAAGGCACTTAC
1 CTTCGGTTTATCTGATAATGCACTTAC
26841182 GTGCCGGTAT
Statistics
Matches: 58, Mismatches: 11, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
42 58 1.00
ACGTcount: A:0.24, C:0.20, G:0.17, T:0.39
Consensus pattern (42 bp):
CTTCGGTTTATCTGATAATGCACTTACATGACAATATATTTG
Found at i:26841182 original size:42 final size:42
Alignment explanation
Indices: 26841090--26841199 Score: 123
Period size: 42 Copynumber: 2.6 Consensus size: 42
26841080 ATCCGATTAT
* * * ** * *
26841090 GCACTTACATGACAATATATTTGCTTCGGTTTATCTGATGAT
1 GCACTTACGTGCCAGTATATTTGCTTCGGTACATCTGATAAG
*
26841132 GCACTTACGTGCCAGTATATTTGTTTCGGTACATCTGATAAG
1 GCACTTACGTGCCAGTATATTTGCTTCGGTACATCTGATAAG
*
26841174 GCACTTACGTGCCGGTATGA-TTGCTT
1 GCACTTACGTGCCAGTAT-ATTTGCTT
26841200 AAGTTTATTT
Statistics
Matches: 57, Mismatches: 10, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
42 56 0.98
43 1 0.02
ACGTcount: A:0.23, C:0.19, G:0.21, T:0.37
Consensus pattern (42 bp):
GCACTTACGTGCCAGTATATTTGCTTCGGTACATCTGATAAG
Found at i:26850329 original size:19 final size:19
Alignment explanation
Indices: 26850305--26850342 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
26850295 CACACATAGT
*
26850305 CTGTTTTGAAAGTATAAAC
1 CTGTTTTAAAAGTATAAAC
26850324 CTGTTTTAAAAGTATAAAC
1 CTGTTTTAAAAGTATAAAC
26850343 TATCGTTGGT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.39, C:0.11, G:0.13, T:0.37
Consensus pattern (19 bp):
CTGTTTTAAAAGTATAAAC
Found at i:26857485 original size:106 final size:105
Alignment explanation
Indices: 26857294--26857488 Score: 264
Period size: 106 Copynumber: 1.8 Consensus size: 105
26857284 GATACAAGGT
*
26857294 TCCCGATTGGTTGTGATCCTGCATGTGTTGTGGACACACCACAACTCTGATGAGCATCCCAATAT
1 TCCCGATTGGTTGTGATCCTACATGTGTTGTGGACACACCACAACTCTGATGAGCATCCCAATAT
* * *
26857359 TTGGCTCTTATAAGCTTCCCGTTAATAGCTCTTTGGAGCA
66 ATGGCTCTCAGAAGCTTCCCGTTAATAGCTCTTTGGAGCA
** * * * * *
26857399 TCCCGATTTGGTTGTGATCCTACATGTGTTGTGGACACACCGTAGCTTTTATGAGCGTCCCGATA
1 TCCCGA-TTGGTTGTGATCCTACATGTGTTGTGGACACACCACAACTCTGATGAGCATCCCAATA
* *
26857464 TATGGCTCTCCGGAGCTTCCCGTTA
65 TATGGCTCTCAGAAGCTTCCCGTTA
26857489 TATGGTTCTT
Statistics
Matches: 76, Mismatches: 13, Indels: 1
0.84 0.14 0.01
Matches are distributed among these distances:
105 6 0.08
106 70 0.92
ACGTcount: A:0.19, C:0.25, G:0.23, T:0.33
Consensus pattern (105 bp):
TCCCGATTGGTTGTGATCCTACATGTGTTGTGGACACACCACAACTCTGATGAGCATCCCAATAT
ATGGCTCTCAGAAGCTTCCCGTTAATAGCTCTTTGGAGCA
Found at i:26857545 original size:25 final size:25
Alignment explanation
Indices: 26857476--26857661 Score: 111
Period size: 25 Copynumber: 7.6 Consensus size: 25
26857466 TGGCTCTCCG
* * *
26857476 GAGCTTCCCG-TTATATGGTTCTTAC
1 GAGCTTCCCGATAAT-TGGATCTTAT
* *
26857501 GAGCTT-CCTATTA-TGGATCTTAT
1 GAGCTTCCCGATAATTGGATCTTAT
*
26857524 GAGCTTTCCGATAATTGGATCTT-T
1 GAGCTTCCCGATAATTGGATCTTAT
* * * *
26857548 GGTGTTTCCCGATAACTGGCTCTTAT
1 -GAGCTTCCCGATAATTGGATCTTAT
* * *
26857574 GAGCTTCTCGATTAA-TAGCTCTCTA-
1 GAGCTTCCCGA-TAATTGGATCT-TAT
26857599 GAGCTTCCCGAT-ATTGGATCGTT-T
1 GAGCTTCCCGATAATTGGATC-TTAT
* * *
26857623 GAACTTCCCGAT-ATTGGCTCGTAT
1 GAGCTTCCCGATAATTGGATCTTAT
*
26857647 GAGCTTCCCGTTAAT
1 GAGCTTCCCGATAAT
26857662 GGCTCTCCGG
Statistics
Matches: 127, Mismatches: 22, Indels: 24
0.73 0.13 0.14
Matches are distributed among these distances:
23 16 0.13
24 43 0.34
25 62 0.49
26 6 0.05
ACGTcount: A:0.19, C:0.22, G:0.20, T:0.38
Consensus pattern (25 bp):
GAGCTTCCCGATAATTGGATCTTAT
Found at i:26857664 original size:24 final size:24
Alignment explanation
Indices: 26857553--26857717 Score: 91
Period size: 24 Copynumber: 6.7 Consensus size: 24
26857543 TCTTTGGTGT
* *
26857553 TTCCCGATAACTGGCTCTTATGAGC
1 TTCCCGTTAA-TGGCTCGTATGAGC
* * *
26857578 TTCTCGATTAATAGCTC-TCTAGAGC
1 TTCCCG-TTAATGGCTCGTAT-GAGC
* * * * *
26857603 TTCCCGATATTGGATCGTTTGAAC
1 TTCCCGTTAATGGCTCGTATGAGC
* *
26857627 TTCCCGATATTGGCTCGTATGAGC
1 TTCCCGTTAATGGCTCGTATGAGC
**
26857651 TTCCCGTTAATGGCTC-TCCGGAGC
1 TTCCCGTTAATGGCTCGT-ATGAGC
* * **
26857675 TTCCTGTTACATGGATCACATGAGC
1 TTCCCGTTA-ATGGCTCGTATGAGC
*
26857700 TTCCTGTTATATGGCTCG
1 TTCCCGTTA-ATGGCTCG
26857718 AAATAGCTTC
Statistics
Matches: 108, Mismatches: 26, Indels: 12
0.74 0.18 0.08
Matches are distributed among these distances:
23 1 0.01
24 58 0.54
25 46 0.43
26 3 0.03
ACGTcount: A:0.19, C:0.25, G:0.21, T:0.35
Consensus pattern (24 bp):
TTCCCGTTAATGGCTCGTATGAGC
Found at i:26857699 original size:25 final size:24
Alignment explanation
Indices: 26857645--26857713 Score: 75
Period size: 25 Copynumber: 2.8 Consensus size: 24
26857635 ATTGGCTCGT
* * *
26857645 ATGAGCTTCCCGTTAATGGCTCTC
1 ATGAGCTTCCTGTTAATGGATCAC
**
26857669 CGGAGCTTCCTGTTACATGGATCAC
1 ATGAGCTTCCTGTTA-ATGGATCAC
26857694 ATGAGCTTCCTGTTATATGG
1 ATGAGCTTCCTGTTA-ATGG
26857714 CTCGAAATAG
Statistics
Matches: 36, Mismatches: 8, Indels: 1
0.80 0.18 0.02
Matches are distributed among these distances:
24 12 0.33
25 24 0.67
ACGTcount: A:0.19, C:0.25, G:0.23, T:0.33
Consensus pattern (24 bp):
ATGAGCTTCCTGTTAATGGATCAC
Found at i:26857703 original size:73 final size:73
Alignment explanation
Indices: 26857553--26857717 Score: 161
Period size: 73 Copynumber: 2.2 Consensus size: 73
26857543 TCTTTGGTGT
* * * * *
26857553 TTCCCGATAACTGGCTCTTATGAGCTTCTCGATTAATAGCTCTCTAGAGCTTCCCGATATTGGAT
1 TTCCCGAT-ATTGGCTCGTATGAGCTTCCCGATTAATAGCTCTCCAGAGCTTCCCGATAATGGAT
***
26857618 CGTTTGAAC
65 CACATGAAC
* * * *
26857627 TTCCCGATATTGGCTCGTATGAGCTTCCCG-TTAATGGCTCTCCGGAGCTTCCTGTTACATGGAT
1 TTCCCGATATTGGCTCGTATGAGCTTCCCGATTAATAGCTCTCCAGAGCTTCCCGATA-ATGGAT
*
26857691 CACATGAGC
65 CACATGAAC
* *
26857700 TTCCTGTTATATGGCTCG
1 TTCCCGATAT-TGGCTCG
26857718 AAATAGCTTC
Statistics
Matches: 74, Mismatches: 15, Indels: 4
0.80 0.16 0.04
Matches are distributed among these distances:
72 22 0.30
73 37 0.50
74 15 0.20
ACGTcount: A:0.19, C:0.25, G:0.21, T:0.35
Consensus pattern (73 bp):
TTCCCGATATTGGCTCGTATGAGCTTCCCGATTAATAGCTCTCCAGAGCTTCCCGATAATGGATC
ACATGAAC
Found at i:26857725 original size:25 final size:25
Alignment explanation
Indices: 26857671--26857738 Score: 75
Period size: 25 Copynumber: 2.7 Consensus size: 25
26857661 TGGCTCTCCG
*
26857671 GAGCTTCCTGTTACATGGATCACAT
1 GAGCTTCCTGTTACATGGATCAAAT
* *
26857696 GAGCTTCCTGTTATATGGCTCGAAAT
1 GAGCTTCCTGTTACATGGATC-AAAT
*
26857722 -AGCTTCTTGTTTACATG
1 GAGCTTCCTG-TTACATG
26857739 TTTTCAAGAG
Statistics
Matches: 36, Mismatches: 5, Indels: 3
0.82 0.11 0.07
Matches are distributed among these distances:
25 27 0.75
26 9 0.25
ACGTcount: A:0.22, C:0.21, G:0.21, T:0.37
Consensus pattern (25 bp):
GAGCTTCCTGTTACATGGATCAAAT
Found at i:26860689 original size:39 final size:40
Alignment explanation
Indices: 26860594--26860855 Score: 337
Period size: 39 Copynumber: 6.7 Consensus size: 40
26860584 TTGAATGATG
*
26860594 TCCGGGCTAAGTCCCGAAGGC--TTGTGCTA-AGTGAC-AAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-T-ACTAAT
*
26860632 ATCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 -TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGATACTAAT
26860673 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
26860712 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
* *
26860751 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
*
26860790 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGA-ATTACT-AT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-TACTAAT
* *
26860829 AACCGGGCTATGTCCCGAAGGCATTTG
1 -TCCGGGCTAAGTCCCGAAGGCATTTG
26860856 AACGAGGAGC
Statistics
Matches: 203, Mismatches: 11, Indels: 17
0.88 0.05 0.07
Matches are distributed among these distances:
39 132 0.65
40 59 0.29
41 11 0.05
42 1 0.00
ACGTcount: A:0.26, C:0.23, G:0.27, T:0.24
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
Found at i:26870553 original size:70 final size:70
Alignment explanation
Indices: 26870440--26870578 Score: 242
Period size: 70 Copynumber: 2.0 Consensus size: 70
26870430 CTTTCCCCTA
26870440 ATTCAAGTCCGGTTGATTCTTTTCTTGATCTAAATAGTAATTTAACTCAATTAAGTATTCCAAAT
1 ATTCAAGTCCGGTTGATTCTTTTCTTGATCTAAATAGTAATTTAACTCAATTAAGTATTCCAAAT
26870505 AGTCG
66 AGTCG
** * *
26870510 ATTCAAGTTTGGTTGATTCTTTTCTTGATCTAAATAGTAATTTAGCTTAATTAAGTATTCCAAAT
1 ATTCAAGTCCGGTTGATTCTTTTCTTGATCTAAATAGTAATTTAACTCAATTAAGTATTCCAAAT
26870575 AGTC
66 AGTC
26870579 AAAAATCATT
Statistics
Matches: 65, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
70 65 1.00
ACGTcount: A:0.31, C:0.14, G:0.13, T:0.42
Consensus pattern (70 bp):
ATTCAAGTCCGGTTGATTCTTTTCTTGATCTAAATAGTAATTTAACTCAATTAAGTATTCCAAAT
AGTCG
Found at i:26875065 original size:3 final size:3
Alignment explanation
Indices: 26875059--26875102 Score: 88
Period size: 3 Copynumber: 14.7 Consensus size: 3
26875049 ATTAACCTAA
26875059 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AA
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AA
26875103 AAGTTGGAAC
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 41 1.00
ACGTcount: A:0.68, C:0.00, G:0.32, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:26877700 original size:2 final size:2
Alignment explanation
Indices: 26877693--26877725 Score: 57
Period size: 2 Copynumber: 16.5 Consensus size: 2
26877683 GTCATAATAT
*
26877693 AC AC AC AC AC AC AC AC AC AC AC AC AA AC AC AC A
1 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC A
26877726 TTATATGTTA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.55, C:0.45, G:0.00, T:0.00
Consensus pattern (2 bp):
AC
Found at i:26884262 original size:24 final size:25
Alignment explanation
Indices: 26884201--26884313 Score: 111
Period size: 25 Copynumber: 4.6 Consensus size: 25
26884191 ATGAGCTGTA
*
26884201 AACGGTAAGCTCCTCCGAGCTAAAT
1 AACGGTAAGCTCATCCGAGCTAAAT
* *
26884226 AACAGTAAGCTCATCTGAGCTAAAT
1 AACGGTAAGCTCATCCGAGCTAAAT
* * * *
26884251 AA-GGTAAGCTCATACGAGTTGAGT
1 AACGGTAAGCTCATCCGAGCTAAAT
* * * *
26884275 AATGGTAAGCTCATACGAGCTGAGT
1 AACGGTAAGCTCATCCGAGCTAAAT
*
26884300 ATCGGTAAGCTCAT
1 AACGGTAAGCTCAT
26884314 AATAGTTGAA
Statistics
Matches: 75, Mismatches: 12, Indels: 2
0.84 0.13 0.02
Matches are distributed among these distances:
24 18 0.24
25 57 0.76
ACGTcount: A:0.34, C:0.19, G:0.23, T:0.24
Consensus pattern (25 bp):
AACGGTAAGCTCATCCGAGCTAAAT
Found at i:26884473 original size:19 final size:22
Alignment explanation
Indices: 26884440--26884490 Score: 63
Period size: 20 Copynumber: 2.4 Consensus size: 22
26884430 TGATGATTAC
*
26884440 ACAATTCACAAACATA-TAAT-T
1 ACAATTTA-AAACATATTAATGT
26884461 -CAATTTAAAACATATTAATGT
1 ACAATTTAAAACATATTAATGT
26884482 ACAATTTAA
1 ACAATTTAA
26884491 TTACATGAAC
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
19 7 0.27
20 10 0.38
21 1 0.04
22 8 0.31
ACGTcount: A:0.51, C:0.14, G:0.02, T:0.33
Consensus pattern (22 bp):
ACAATTTAAAACATATTAATGT
Found at i:26884489 original size:22 final size:20
Alignment explanation
Indices: 26884449--26884490 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 20
26884439 CACAATTCAC
26884449 AAACATATAATT-CAATTTA
1 AAACATATAATTACAATTTA
26884468 AAACATATTAATGTACAATTTA
1 AAACATA-TAAT-TACAATTTA
26884490 A
1 A
26884491 TTACATGAAC
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
19 7 0.35
20 4 0.20
21 1 0.05
22 8 0.40
ACGTcount: A:0.52, C:0.10, G:0.02, T:0.36
Consensus pattern (20 bp):
AAACATATAATTACAATTTA
Found at i:26886757 original size:27 final size:27
Alignment explanation
Indices: 26886717--26887144 Score: 446
Period size: 27 Copynumber: 15.9 Consensus size: 27
26886707 ATCTGCACCA
26886717 AAATA-CCCTCATAGGGTAAAATGACCG
1 AAATACCCCT-ATAGGGTAAAATGACCG
*
26886744 AAATACCCCTATAGGATAAAATGACCG
1 AAATACCCCTATAGGGTAAAATGACCG
*
26886771 AAATA-CCCTCATAGGGTAAAATAACCG
1 AAATACCCCT-ATAGGGTAAAATGACCG
* *
26886798 AAATA-CCCTATAGGTTAAAATGACTG
1 AAATACCCCTATAGGGTAAAATGACCG
*
26886824 AATTA-CCCTCATAGGGTAAAATGACCG
1 AAATACCCCT-ATAGGGTAAAATGACCG
* * *
26886851 AATTACCCCCATAGGGTAAAATGATCG
1 AAATACCCCTATAGGGTAAAATGACCG
* * * *
26886878 AATTACCCCCATAAGGTAAAATGATC-
1 AAATACCCCTATAGGGTAAAATGACCG
* *
26886904 AAATTACCCCTATAGGGTAAAATAATCG
1 AAA-TACCCCTATAGGGTAAAATGACCG
* ***
26886932 AAATACCCCCATAAAATAAAATGACCG
1 AAATACCCCTATAGGGTAAAATGACCG
* *
26886959 AAATACCCCCATAGGGTAAAATGATCG
1 AAATACCCCTATAGGGTAAAATGACCG
26886986 AAATA-CCCTCATAGGGTAAAATGACC-
1 AAATACCCCT-ATAGGGTAAAATGACCG
26887012 AAATTA-CCCTCATAGGGT-AAATGACCG
1 AAA-TACCCCT-ATAGGGTAAAATGACCG
* *
26887039 AATTACCTCC-ATAAGGTAAAATGACCG
1 AAATACC-CCTATAGGGTAAAATGACCG
* * * * *
26887066 AATTACCCCCATAAGGTGAAATAACCG
1 AAATACCCCTATAGGGTAAAATGACCG
*
26887093 AAATACCCCTATAGGGTAAAATGATCG
1 AAATACCCCTATAGGGTAAAATGACCG
26887120 AAATACCTCC-ATAGGGTAAAATGAC
1 AAATACC-CCTATAGGGTAAAATGAC
26887145 TGTTAAACCC
Statistics
Matches: 348, Mismatches: 39, Indels: 28
0.84 0.09 0.07
Matches are distributed among these distances:
26 52 0.15
27 282 0.81
28 14 0.04
ACGTcount: A:0.42, C:0.22, G:0.16, T:0.21
Consensus pattern (27 bp):
AAATACCCCTATAGGGTAAAATGACCG
Found at i:26886799 original size:54 final size:54
Alignment explanation
Indices: 26886717--26887144 Score: 494
Period size: 54 Copynumber: 8.0 Consensus size: 54
26886707 ATCTGCACCA
*
26886717 AAATACCCTCATAGGGTAAAATGACCGAAATACCCCTATAGGATAAAATGACCG
1 AAATACCCTCATAGGGTAAAATGACCGAAATACCCCTATAGGGTAAAATGACCG
* * *
26886771 AAATACCCTCATAGGGTAAAATAACCGAAATA-CCCTATAGGTTAAAATGACTG
1 AAATACCCTCATAGGGTAAAATGACCGAAATACCCCTATAGGGTAAAATGACCG
* * * *
26886824 AATTACCCTCATAGGGTAAAATGACCGAATTACCCCCATAGGGTAAAATGATCG
1 AAATACCCTCATAGGGTAAAATGACCGAAATACCCCTATAGGGTAAAATGACCG
* * * * * *
26886878 AATTACCCCCATAAGGTAAAATGATC-AAATTACCCCTATAGGGTAAAATAATCG
1 AAATACCCTCATAGGGTAAAATGACCGAAA-TACCCCTATAGGGTAAAATGACCG
* *** * *
26886932 AAATACCCCCATAAAATAAAATGACCGAAATACCCCCATAGGGTAAAATGATCG
1 AAATACCCTCATAGGGTAAAATGACCGAAATACCCCTATAGGGTAAAATGACCG
26886986 AAATACCCTCATAGGGTAAAATGACC-AAATTA-CCCTCATAGGGT-AAATGACCG
1 AAATACCCTCATAGGGTAAAATGACCGAAA-TACCCCT-ATAGGGTAAAATGACCG
* * * * * * *
26887039 AATTA-CCTCCATAAGGTAAAATGACCGAATTACCCCCATAAGGTGAAATAACCG
1 AAATACCCT-CATAGGGTAAAATGACCGAAATACCCCTATAGGGTAAAATGACCG
*
26887093 AAATACCC-CTATAGGGTAAAATGATCGAAATACCTCC-ATAGGGTAAAATGAC
1 AAATACCCTC-ATAGGGTAAAATGACCGAAATACC-CCTATAGGGTAAAATGAC
26887145 TGTTAAACCC
Statistics
Matches: 321, Mismatches: 41, Indels: 24
0.83 0.11 0.06
Matches are distributed among these distances:
52 3 0.01
53 93 0.29
54 218 0.68
55 7 0.02
ACGTcount: A:0.42, C:0.22, G:0.16, T:0.21
Consensus pattern (54 bp):
AAATACCCTCATAGGGTAAAATGACCGAAATACCCCTATAGGGTAAAATGACCG
Found at i:26887142 original size:188 final size:186
Alignment explanation
Indices: 26886717--26887144 Score: 626
Period size: 188 Copynumber: 2.3 Consensus size: 186
26886707 ATCTGCACCA
* *
26886717 AAATA-CCCTCATAGGGTAAAATGACCGAAATACCCCTATAGGATAAAATGACCGAAATACCCTC
1 AAATACCCCT-ATAGGGTAAAATGATCGAAATACCCC-ATAGGATAAAATGACCGAAATACCCCC
* **
26886781 ATAGGGTAAAATAACCGAAATACCCTATAGGTTAAAATGACTGAATTACCCTCATAGGGTAAAAT
64 ATAGGGTAAAATAACCGAAATACCCTATAGGGTAAAATGACCAAATTACCCTCATAGGGTAAAAT
* * * *
26886846 GACCGAATTACCCCCATAGGGTAAAATGATCGAATTACCCCCATAAGGTAAAATGATC
129 GACCGAATTACCCCCATAAGGTAAAATGACCGAATTACCCCCATAAGGTAAAATAACC
* **
26886904 AAATTACCCCTATAGGGTAAAATAATCGAAATACCCCCATAAAATAAAATGACCGAAATACCCCC
1 AAA-TACCCCTATAGGGTAAAATGATCGAAATA-CCCCATAGGATAAAATGACCGAAATACCCCC
* *
26886969 ATAGGGTAAAATGATCGAAATACCCTCATAGGGTAAAATGACCAAATTACCCTCATAGGGT-AAA
64 ATAGGGTAAAATAACCGAAATACCCT-ATAGGGTAAAATGACCAAATTACCCTCATAGGGTAAAA
* *
26887033 TGACCGAATTACCTCCATAAGGTAAAATGACCGAATTACCCCCATAAGGTGAAATAACC
128 TGACCGAATTACCCCCATAAGGTAAAATGACCGAATTACCCCCATAAGGTAAAATAACC
*
26887092 GAAATACCCCTATAGGGTAAAATGATCGAAATACCTCCATAGGGTAAAATGAC
1 -AAATACCCCTATAGGGTAAAATGATCGAAATACC-CCATAGGATAAAATGAC
26887145 TGTTAAACCC
Statistics
Matches: 215, Mismatches: 20, Indels: 11
0.87 0.08 0.04
Matches are distributed among these distances:
187 5 0.02
188 168 0.78
189 42 0.20
ACGTcount: A:0.42, C:0.22, G:0.16, T:0.21
Consensus pattern (186 bp):
AAATACCCCTATAGGGTAAAATGATCGAAATACCCCATAGGATAAAATGACCGAAATACCCCCAT
AGGGTAAAATAACCGAAATACCCTATAGGGTAAAATGACCAAATTACCCTCATAGGGTAAAATGA
CCGAATTACCCCCATAAGGTAAAATGACCGAATTACCCCCATAAGGTAAAATAACC
Found at i:26887549 original size:28 final size:28
Alignment explanation
Indices: 26887509--26887597 Score: 153
Period size: 28 Copynumber: 3.2 Consensus size: 28
26887499 ACTATACCGA
26887509 TACTGTATTGGGCTAAGGCCCACATTGT
1 TACTGTATTGGGCTAAGGCCCACATTGT
26887537 TACTGTATTGGGCTAAGGCCCACATTGT
1 TACTGTATTGGGCTAAGGCCCACATTGT
* *
26887565 TACTGTATTGGGCTAAGGTCCACACTG-
1 TACTGTATTGGGCTAAGGCCCACATTGT
26887592 TACTGT
1 TACTGT
26887598 TACTGAATAG
Statistics
Matches: 59, Mismatches: 2, Indels: 1
0.95 0.03 0.02
Matches are distributed among these distances:
27 6 0.10
28 53 0.90
ACGTcount: A:0.21, C:0.21, G:0.25, T:0.33
Consensus pattern (28 bp):
TACTGTATTGGGCTAAGGCCCACATTGT
Found at i:26887611 original size:33 final size:33
Alignment explanation
Indices: 26887534--26887625 Score: 86
Period size: 28 Copynumber: 2.9 Consensus size: 33
26887524 AGGCCCACAT
* *
26887534 TGTTACTGTATTGGGCTAAGGCCCACA---T--
1 TGTTACTGAATAGGGCTAAGGCCCACACTGTAC
* * *
26887562 TGTTACTGTATTGGGCTAAGGTCCACACTGTAC
1 TGTTACTGAATAGGGCTAAGGCCCACACTGTAC
* *
26887595 TGTTACTGAATAGGGCTCAGGCCCAGACTGT
1 TGTTACTGAATAGGGCTAAGGCCCACACTGT
26887626 CACTACTTGT
Statistics
Matches: 53, Mismatches: 6, Indels: 5
0.83 0.09 0.08
Matches are distributed among these distances:
28 26 0.49
31 1 0.02
33 26 0.49
ACGTcount: A:0.22, C:0.22, G:0.26, T:0.30
Consensus pattern (33 bp):
TGTTACTGAATAGGGCTAAGGCCCACACTGTAC
Found at i:26889878 original size:18 final size:19
Alignment explanation
Indices: 26889855--26889890 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
26889845 TATGTATGAA
26889855 ATATGTTT-GAATTAATTT
1 ATATGTTTAGAATTAATTT
*
26889873 ATATGTTTAGATTTAATT
1 ATATGTTTAGAATTAATT
26889891 AAGATTTAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 8 0.50
19 8 0.50
ACGTcount: A:0.33, C:0.00, G:0.11, T:0.56
Consensus pattern (19 bp):
ATATGTTTAGAATTAATTT
Found at i:26892287 original size:24 final size:24
Alignment explanation
Indices: 26892276--26892325 Score: 100
Period size: 24 Copynumber: 2.1 Consensus size: 24
26892266 ATTTTGTCCC
26892276 TATCTCAATATTCAATTTCAACCA
1 TATCTCAATATTCAATTTCAACCA
26892300 TATCTCAATATTCAATTTCAACCA
1 TATCTCAATATTCAATTTCAACCA
26892324 TA
1 TA
26892326 CCATTTGAAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.38, C:0.24, G:0.00, T:0.38
Consensus pattern (24 bp):
TATCTCAATATTCAATTTCAACCA
Found at i:26902756 original size:45 final size:45
Alignment explanation
Indices: 26902668--26902783 Score: 128
Period size: 45 Copynumber: 2.6 Consensus size: 45
26902658 CTACGCGTAC
*
26902668 CGGGTACCATTGATTATAAAGGTGGTTGTTGTGTGCTATTTCCAT
1 CGGGTACCATTGATTATAAAGGTGGTTGTTATGTGCTATTTCCAT
* * *
26902713 CGGGTACTATTGATTATGAAGGTGGTT-TCTATGTGCTGA-TTCCAC
1 CGGGTACCATTGATTATAAAGGTGGTTGT-TATGTGCT-ATTTCCAT
* * * *
26902758 CGAGTATCATTGACTATAAGGGTGGT
1 CGGGTACCATTGATTATAAAGGTGGT
26902784 GCTATGTTCT
Statistics
Matches: 59, Mismatches: 10, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
44 1 0.02
45 57 0.97
46 1 0.02
ACGTcount: A:0.22, C:0.14, G:0.28, T:0.37
Consensus pattern (45 bp):
CGGGTACCATTGATTATAAAGGTGGTTGTTATGTGCTATTTCCAT
Found at i:26905161 original size:21 final size:21
Alignment explanation
Indices: 26905137--26905178 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
26905127 TTTATCAAGA
26905137 TAAATATTA-TAAATTTAATAC
1 TAAATATTATTAAA-TTAATAC
*
26905158 TAAATCTTATTAAATTAATAC
1 TAAATATTATTAAATTAATAC
26905179 AATATTTATC
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 15 0.79
22 4 0.21
ACGTcount: A:0.50, C:0.07, G:0.00, T:0.43
Consensus pattern (21 bp):
TAAATATTATTAAATTAATAC
Found at i:26906283 original size:50 final size:47
Alignment explanation
Indices: 26906224--26906410 Score: 239
Period size: 50 Copynumber: 3.9 Consensus size: 47
26906214 GGCAGTGAGT
*
26906224 GTGCCAGTGTAAGACCATGTCTGGGACATGGCATCAGCACAGATTGAGGA
1 GTGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCAC-GA--GAGGA
* *
26906274 GTGCTAGTGTAAGACCATGTCTGGGACATGGCATTGGCACGGACAGAGGA
1 GTGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCAC-G--AGAGGA
* * * * *
26906324 GAGTCAGTGTAAGACCATGTCTAGGACATGGCATCGGCTCGAGATGA
1 GTGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCACGAGAGGA
*
26906371 GTGCCAGTGTAAGACCTTGTCTGGGACATGGCATCGGCAC
1 GTGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCAC
26906411 CGATATGTGA
Statistics
Matches: 119, Mismatches: 16, Indels: 7
0.84 0.11 0.05
Matches are distributed among these distances:
47 40 0.34
49 1 0.01
50 77 0.65
52 1 0.01
ACGTcount: A:0.26, C:0.20, G:0.33, T:0.21
Consensus pattern (47 bp):
GTGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCACGAGAGGA
Found at i:26906404 original size:97 final size:99
Alignment explanation
Indices: 26906228--26906410 Score: 280
Period size: 97 Copynumber: 1.9 Consensus size: 99
26906218 GTGAGTGTGC
* *
26906228 CAGTGTAAGACCATGTCTGGGACATGGCATCAGCACAGATTGAGGAGTGCTAGTGTAAGACCATG
1 CAGTGTAAGACCATGTCTAGGACATGGCATCAGCACAGA-TGAGGAGTGCCAGTGTAAGACCATG
*
26906293 TCTGGGACATGGCATTGGCACGGACAGAGGAGAGT
65 TCTGGGACATGGCATCGGCACGGACAGAGGAGAGT
* * * *
26906328 CAGTGTAAGACCATGTCTAGGACATGGCATCGGCTC-GA-GATGAGTGCCAGTGTAAGACCTTGT
1 CAGTGTAAGACCATGTCTAGGACATGGCATCAGCACAGATGAGGAGTGCCAGTGTAAGACCATGT
26906391 CTGGGACATGGCATCGGCAC
66 CTGGGACATGGCATCGGCAC
26906411 CGATATGTGA
Statistics
Matches: 76, Mismatches: 7, Indels: 3
0.88 0.08 0.03
Matches are distributed among these distances:
97 41 0.54
99 2 0.03
100 33 0.43
ACGTcount: A:0.26, C:0.20, G:0.33, T:0.21
Consensus pattern (99 bp):
CAGTGTAAGACCATGTCTAGGACATGGCATCAGCACAGATGAGGAGTGCCAGTGTAAGACCATGT
CTGGGACATGGCATCGGCACGGACAGAGGAGAGT
Found at i:26911963 original size:19 final size:19
Alignment explanation
Indices: 26911939--26911977 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
26911929 TTCAACAAAA
26911939 CTAAATCACAAAATAATTG
1 CTAAATCACAAAATAATTG
26911958 CTAAATCACAAAATAATTG
1 CTAAATCACAAAATAATTG
26911977 C
1 C
26911978 AACTCTTAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.51, C:0.18, G:0.05, T:0.26
Consensus pattern (19 bp):
CTAAATCACAAAATAATTG
Found at i:26917913 original size:37 final size:37
Alignment explanation
Indices: 26917861--26917941 Score: 126
Period size: 37 Copynumber: 2.2 Consensus size: 37
26917851 CCCTGTCTAG
* *
26917861 CCCTACACTCTTGTGGGGATTAAATCGATCCACCCAT
1 CCCTACACTCCTGTGGGGATTAAATCGACCCACCCAT
*
26917898 CCCTACACTCCTGTGGGGATTAGATCGACCCACCCAT
1 CCCTACACTCCTGTGGGGATTAAATCGACCCACCCAT
*
26917935 ACCTACA
1 CCCTACA
26917942 TGCGGCACTA
Statistics
Matches: 40, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
37 40 1.00
ACGTcount: A:0.25, C:0.36, G:0.16, T:0.23
Consensus pattern (37 bp):
CCCTACACTCCTGTGGGGATTAAATCGACCCACCCAT
Found at i:26918158 original size:26 final size:27
Alignment explanation
Indices: 26918123--26918175 Score: 90
Period size: 26 Copynumber: 2.0 Consensus size: 27
26918113 ACCATAGCAC
26918123 AAATCAGTCATTTACCCTCGAGGGGCA
1 AAATCAGTCATTTACCCTCGAGGGGCA
*
26918150 AAAT-AGTCATTTACCCTCTAGGGGCA
1 AAATCAGTCATTTACCCTCGAGGGGCA
26918176 TTACGGTCAT
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
26 21 0.84
27 4 0.16
ACGTcount: A:0.30, C:0.25, G:0.21, T:0.25
Consensus pattern (27 bp):
AAATCAGTCATTTACCCTCGAGGGGCA
Found at i:26920242 original size:24 final size:23
Alignment explanation
Indices: 26920196--26920244 Score: 62
Period size: 24 Copynumber: 2.1 Consensus size: 23
26920186 AATAAAAAGG
**
26920196 ATATTTATACTAACAAATGCTAA
1 ATATTTATACTAACAAAAACTAA
*
26920219 ATATATTATACTAATAAAAACTAA
1 ATAT-TTATACTAACAAAAACTAA
26920243 AT
1 AT
26920245 CTTCTAAAAA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
23 4 0.18
24 18 0.82
ACGTcount: A:0.53, C:0.10, G:0.02, T:0.35
Consensus pattern (23 bp):
ATATTTATACTAACAAAAACTAA
Found at i:26924498 original size:25 final size:24
Alignment explanation
Indices: 26924470--26924518 Score: 64
Period size: 24 Copynumber: 2.1 Consensus size: 24
26924460 AATAACAAGG
* *
26924470 ATAT-TTATTCTAATAAATGCTAA
1 ATATATTATACTAATAAAAGCTAA
*
26924493 ATATATTATACTTATAAAAGCTAA
1 ATATATTATACTAATAAAAGCTAA
26924517 AT
1 AT
26924519 CTTCTAGACG
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
23 4 0.18
24 18 0.82
ACGTcount: A:0.47, C:0.08, G:0.04, T:0.41
Consensus pattern (24 bp):
ATATATTATACTAATAAAAGCTAA
Found at i:26924855 original size:22 final size:22
Alignment explanation
Indices: 26924830--26924878 Score: 98
Period size: 22 Copynumber: 2.2 Consensus size: 22
26924820 TTTCATGGTA
26924830 TTATTCAATTAGGCAATGGATT
1 TTATTCAATTAGGCAATGGATT
26924852 TTATTCAATTAGGCAATGGATT
1 TTATTCAATTAGGCAATGGATT
26924874 TTATT
1 TTATT
26924879 GTTGATTCTC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 27 1.00
ACGTcount: A:0.31, C:0.08, G:0.16, T:0.45
Consensus pattern (22 bp):
TTATTCAATTAGGCAATGGATT
Found at i:26936481 original size:17 final size:17
Alignment explanation
Indices: 26936459--26936491 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
26936449 GTTAGTGCAC
*
26936459 ATTGTCATTGCATTTTT
1 ATTGTCATTACATTTTT
26936476 ATTGTCATTACATTTT
1 ATTGTCATTACATTTT
26936492 ACTGTTAGTG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.21, C:0.12, G:0.09, T:0.58
Consensus pattern (17 bp):
ATTGTCATTACATTTTT
Found at i:26947643 original size:10 final size:9
Alignment explanation
Indices: 26947573--26947651 Score: 56
Period size: 9 Copynumber: 8.7 Consensus size: 9
26947563 CTTCCCTATT
26947573 TTTATTTTA
1 TTTATTTTA
26947582 TTTA-TTTA
1 TTTATTTTA
*
26947590 GTTA-TTTA
1 TTTATTTTA
* * *
26947598 ATTAATTAA
1 TTTATTTTA
26947607 TTTATTTCT-
1 TTTATTT-TA
*
26947616 TTTATTCTA
1 TTTATTTTA
26947625 GCTTTATTTTA
1 --TTTATTTTA
26947636 TATTATTTTA
1 T-TTATTTTA
26947646 TTTATT
1 TTTATT
26947652 CTAGTTAGTA
Statistics
Matches: 56, Mismatches: 8, Indels: 12
0.74 0.11 0.16
Matches are distributed among these distances:
8 15 0.27
9 24 0.43
10 9 0.16
11 8 0.14
ACGTcount: A:0.25, C:0.04, G:0.03, T:0.68
Consensus pattern (9 bp):
TTTATTTTA
Found at i:26947868 original size:3 final size:3
Alignment explanation
Indices: 26947862--26947932 Score: 63
Period size: 3 Copynumber: 23.7 Consensus size: 3
26947852 TTTTATTCTG
* * *
26947862 TTA TTA TTC TTA TTA TTA TTA TTT TCTA TTA TTA TTC TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA T-TA TTA TTA TTA TTA TTA TTA
* * * *
26947908 TT- TTC TTA GTC TTA GTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TT
26947933 TTTTGTATTT
Statistics
Matches: 53, Mismatches: 13, Indels: 4
0.76 0.19 0.06
Matches are distributed among these distances:
2 2 0.04
3 49 0.92
4 2 0.04
ACGTcount: A:0.24, C:0.07, G:0.03, T:0.66
Consensus pattern (3 bp):
TTA
Found at i:26947892 original size:25 final size:25
Alignment explanation
Indices: 26947863--26947934 Score: 94
Period size: 25 Copynumber: 3.0 Consensus size: 25
26947853 TTTATTCTGT
26947863 TATTATTCTTATTATTATTATTTTC
1 TATTATTCTTATTATTATTATTTTC
* *
26947888 TATTATTATTCTTATTATTATTTTC
1 TATTATTCTTATTATTATTATTTTC
* *
26947913 --TTAGTCTTAGTATTATTATTTT
1 TATTATTCTTATTATTATTATTTT
26947935 TTGTATTTTC
Statistics
Matches: 41, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
23 18 0.44
25 23 0.56
ACGTcount: A:0.24, C:0.07, G:0.03, T:0.67
Consensus pattern (25 bp):
TATTATTCTTATTATTATTATTTTC
Found at i:26947906 original size:48 final size:46
Alignment explanation
Indices: 26947854--26947949 Score: 113
Period size: 48 Copynumber: 2.0 Consensus size: 46
26947844 ATTACTTTTT
* * *
26947854 TTATTCTGTTATTATTCTTATTATTATTATTTTCTAT-TATTATTCTTA
1 TTATTATGTTATTAGTCTTAGTATTATTATTTT-T-TGTATT-TTCTTA
* *
26947902 TTATTATTTTCTTAGTCTTAGTATTATTATTTTTTGTATTTTCTTA
1 TTATTATGTTATTAGTCTTAGTATTATTATTTTTTGTATTTTCTTA
26947948 TT
1 TT
26947950 GCTTCTTTCA
Statistics
Matches: 42, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
46 9 0.21
47 5 0.12
48 28 0.67
ACGTcount: A:0.21, C:0.07, G:0.04, T:0.68
Consensus pattern (46 bp):
TTATTATGTTATTAGTCTTAGTATTATTATTTTTTGTATTTTCTTA
Found at i:26949366 original size:24 final size:25
Alignment explanation
Indices: 26949336--26949392 Score: 73
Period size: 27 Copynumber: 2.3 Consensus size: 25
26949326 TTTTATTTGC
26949336 TTTTCTTTTTA-TG-TCTATTTTTA
1 TTTTCTTTTTAGTGTTCTATTTTTA
*
26949359 TTATTCTTTTTAGTTGTTTTATTTTTA
1 TT-TTCTTTTTAG-TGTTCTATTTTTA
26949386 TTTTCTT
1 TTTTCTT
26949393 AGACTTATTT
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
23 2 0.07
24 9 0.31
26 7 0.24
27 11 0.38
ACGTcount: A:0.12, C:0.07, G:0.05, T:0.75
Consensus pattern (25 bp):
TTTTCTTTTTAGTGTTCTATTTTTA
Found at i:26953582 original size:15 final size:17
Alignment explanation
Indices: 26953560--26953598 Score: 55
Period size: 15 Copynumber: 2.4 Consensus size: 17
26953550 TGTTCTAGAT
26953560 TAGAAAAGA-AAAA-AA
1 TAGAAAAGATAAAAGAA
*
26953575 TTGAAAAGATAAAAGAA
1 TAGAAAAGATAAAAGAA
26953592 TAGAAAA
1 TAGAAAA
26953599 AAATTTATTT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
15 8 0.40
16 4 0.20
17 8 0.40
ACGTcount: A:0.72, C:0.00, G:0.15, T:0.13
Consensus pattern (17 bp):
TAGAAAAGATAAAAGAA
Found at i:26957662 original size:7 final size:7
Alignment explanation
Indices: 26957629--26957671 Score: 50
Period size: 7 Copynumber: 6.0 Consensus size: 7
26957619 GCCTGTACCA
26957629 TAAACCC
1 TAAACCC
*
26957636 TAAAACC
1 TAAACCC
*
26957643 TAAAACAC
1 T-AAACCC
26957651 TAAACCC
1 TAAACCC
26957658 TAAACCC
1 TAAACCC
*
26957665 CAAACCC
1 TAAACCC
26957672 CCTTTGTGAC
Statistics
Matches: 30, Mismatches: 5, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
7 25 0.83
8 5 0.17
ACGTcount: A:0.49, C:0.40, G:0.00, T:0.12
Consensus pattern (7 bp):
TAAACCC
Found at i:26968219 original size:20 final size:21
Alignment explanation
Indices: 26968194--26968233 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 21
26968184 GTTAGCGAAA
26968194 AAATATAAATAT-AAATAAAC
1 AAATATAAATATAAAATAAAC
**
26968214 AAATATGTATATAAAATAAA
1 AAATATAAATATAAAATAAA
26968234 ATAAATATTT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 10 0.59
21 7 0.41
ACGTcount: A:0.68, C:0.03, G:0.03, T:0.28
Consensus pattern (21 bp):
AAATATAAATATAAAATAAAC
Found at i:26974478 original size:50 final size:50
Alignment explanation
Indices: 26974363--26974555 Score: 224
Period size: 50 Copynumber: 3.8 Consensus size: 50
26974353 AATAATAACA
* * ** **
26974363 TGCCAAAGGCATGTCCCAGACATGGTCTTACATGGGATTTTCTCAAATCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGA-CCTCTCATCTCGG
* ** *
26974414 TGCCCATGCCATGTCCCAGACATGGTCTTACGGGGGACCTCTCATCTGGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
* * * *
26974464 TGCCAATGCTATGTCCCAAACATAGTCTTACATGGGACCTCTCATCTTGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
** *
26974514 TGCCAACACCATGTCCTAGACATGGTCTTACATGGGACCTCT
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCT
26974556 TTACCCAAAT
Statistics
Matches: 119, Mismatches: 23, Indels: 1
0.83 0.16 0.01
Matches are distributed among these distances:
50 87 0.73
51 32 0.27
ACGTcount: A:0.22, C:0.28, G:0.22, T:0.27
Consensus pattern (50 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
Found at i:26978235 original size:192 final size:192
Alignment explanation
Indices: 26977904--26978292 Score: 762
Period size: 192 Copynumber: 2.0 Consensus size: 192
26977894 GCTGAGATTT
26977904 TACT-CGGATCTACCCTGGTGCCTTCTGCAGATACAATATGTCCAAGAAAACCCACCTCTCGAAG
1 TACTACGGATCTACCCTGGTGCCTTCTGCAGATACAATATGTCCAAGAAAACCCACCTCTCGAAG
*
26977968 CCAAAATTCACATTTACTGAATTTAGCATAAAGCTTCTTTTCATGCAGAATTTGCAACACTATTC
66 CCAAAATTCACATTTACTGAATTTAGCATAAAGCTTCTTTTCACGCAGAATTTGCAACACTATTC
26978033 TCAAAATGTTCTACATGCTCATTTTCATCTCGAGAATAGACTAAAATATCATCAATGAAAAC
131 TCAAAATGTTCTACATGCTCATTTTCATCTCGAGAATAGACTAAAATATCATCAATGAAAAC
26978095 TACTACGGATCTACCCTGGTGCCTTCTGCAGATACAATATGTCCAAGAAAACCCACCTCTCGAAG
1 TACTACGGATCTACCCTGGTGCCTTCTGCAGATACAATATGTCCAAGAAAACCCACCTCTCGAAG
26978160 CCAAAATTCACATTTACTGAATTTAGCATAAAGCTTCTTTTCACGCAGAATTTGCAACACTATTC
66 CCAAAATTCACATTTACTGAATTTAGCATAAAGCTTCTTTTCACGCAGAATTTGCAACACTATTC
26978225 TCAAAATGTTCTACATGCTCATTTTCATCTCGAGAATAGACTAAAATATCATCAATGAAAAC
131 TCAAAATGTTCTACATGCTCATTTTCATCTCGAGAATAGACTAAAATATCATCAATGAAAAC
26978287 TACTAC
1 TACTAC
26978293 AAACTTGTCT
Statistics
Matches: 196, Mismatches: 1, Indels: 1
0.99 0.01 0.01
Matches are distributed among these distances:
191 4 0.02
192 192 0.98
ACGTcount: A:0.34, C:0.24, G:0.12, T:0.30
Consensus pattern (192 bp):
TACTACGGATCTACCCTGGTGCCTTCTGCAGATACAATATGTCCAAGAAAACCCACCTCTCGAAG
CCAAAATTCACATTTACTGAATTTAGCATAAAGCTTCTTTTCACGCAGAATTTGCAACACTATTC
TCAAAATGTTCTACATGCTCATTTTCATCTCGAGAATAGACTAAAATATCATCAATGAAAAC
Found at i:26978988 original size:21 final size:21
Alignment explanation
Indices: 26978947--26978988 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
26978937 CTGAAAACAC
*
26978947 ATCAGATAATTCCTATGTCTG
1 ATCAGATAATTCCCATGTCTG
26978968 ATCAGATAATTCTCCAT-TCTG
1 ATCAGATAATTC-CCATGTCTG
26978989 GCACTTCAGC
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 16 0.84
22 3 0.16
ACGTcount: A:0.29, C:0.21, G:0.12, T:0.38
Consensus pattern (21 bp):
ATCAGATAATTCCCATGTCTG
Found at i:26982452 original size:405 final size:405
Alignment explanation
Indices: 26981701--26982511 Score: 1622
Period size: 405 Copynumber: 2.0 Consensus size: 405
26981691 TTATTCTTCT
26981701 CCTGTTGAAACATTGAGTATCAATTGATAATATAGCAAGTTCTTAACTCTTATAACTCATCTGAG
1 CCTGTTGAAACATTGAGTATCAATTGATAATATAGCAAGTTCTTAACTCTTATAACTCATCTGAG
26981766 CTTGTCATTTATGCTTTTAAATGAACTTTCATTCACATGATTCGTTAACTAGCCCGTTGAGCCAC
66 CTTGTCATTTATGCTTTTAAATGAACTTTCATTCACATGATTCGTTAACTAGCCCGTTGAGCCAC
26981831 GTTGGAATAAAAAGGATACTTGTGTCTATTTTATTTTCCAAGGTGCGAAGGGTCGATGTAATTGA
131 GTTGGAATAAAAAGGATACTTGTGTCTATTTTATTTTCCAAGGTGCGAAGGGTCGATGTAATTGA
26981896 GAAAGAAGCGCTCTAGCTCTCACTTGAAGTACAGGAAGGATAATGGATTACTCCTATATATATAT
196 GAAAGAAGCGCTCTAGCTCTCACTTGAAGTACAGGAAGGATAATGGATTACTCCTATATATATAT
26981961 CCTATGAATTTCATTTTGCATCGGAAACTATTCTAGGGTCTTTTTTGATAATAACATGCCAAAGC
261 CCTATGAATTTCATTTTGCATCGGAAACTATTCTAGGGTCTTTTTTGATAATAACATGCCAAAGC
26982026 CATGTCCCAGACATGGTCTTACATGGGATGTTCTCATATCGGTGCCCATGCCATGTCCCAGACAT
326 CATGTCCCAGACATGGTCTTACATGGGATGTTCTCATATCGGTGCCCATGCCATGTCCCAGACAT
26982091 GGTCTTACGGGGGAC
391 GGTCTTACGGGGGAC
26982106 CCTGTTGAAACATTGAGTATCAATTGATAATATAGCAAGTTCTTAACTCTTATAACTCATCTGAG
1 CCTGTTGAAACATTGAGTATCAATTGATAATATAGCAAGTTCTTAACTCTTATAACTCATCTGAG
26982171 CTTGTCATTTATGCTTTTAAATGAACTTTCATTCACATGATTCGTTAACTAGCCCGTTGAGCCAC
66 CTTGTCATTTATGCTTTTAAATGAACTTTCATTCACATGATTCGTTAACTAGCCCGTTGAGCCAC
26982236 GTTGGAATAAAAAGGATACTTGTGTCTATTTTATTTTCCAAGGTGCGAAGGGTCGATGTAATTGA
131 GTTGGAATAAAAAGGATACTTGTGTCTATTTTATTTTCCAAGGTGCGAAGGGTCGATGTAATTGA
26982301 GAAAGAAGCGCTCTAGCTCTCACTTGAAGTACAGGAAGGATAATGGATTACTCCTATATATATAT
196 GAAAGAAGCGCTCTAGCTCTCACTTGAAGTACAGGAAGGATAATGGATTACTCCTATATATATAT
26982366 CCTATGAATTTCATTTTGCATCGGAAACTATTCTAGGGTCTTTTTTGATAATAACATGCCAAAGC
261 CCTATGAATTTCATTTTGCATCGGAAACTATTCTAGGGTCTTTTTTGATAATAACATGCCAAAGC
26982431 CATGTCCCAGACATGGTCTTACATGGGATGTTCTCATATCGGTGCCCATGCCATGTCCCAGACAT
326 CATGTCCCAGACATGGTCTTACATGGGATGTTCTCATATCGGTGCCCATGCCATGTCCCAGACAT
26982496 GGTCTTACGGGGGAC
391 GGTCTTACGGGGGAC
26982511 C
1 C
26982512 ACTCATCTCA
Statistics
Matches: 406, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
405 406 1.00
ACGTcount: A:0.28, C:0.19, G:0.19, T:0.33
Consensus pattern (405 bp):
CCTGTTGAAACATTGAGTATCAATTGATAATATAGCAAGTTCTTAACTCTTATAACTCATCTGAG
CTTGTCATTTATGCTTTTAAATGAACTTTCATTCACATGATTCGTTAACTAGCCCGTTGAGCCAC
GTTGGAATAAAAAGGATACTTGTGTCTATTTTATTTTCCAAGGTGCGAAGGGTCGATGTAATTGA
GAAAGAAGCGCTCTAGCTCTCACTTGAAGTACAGGAAGGATAATGGATTACTCCTATATATATAT
CCTATGAATTTCATTTTGCATCGGAAACTATTCTAGGGTCTTTTTTGATAATAACATGCCAAAGC
CATGTCCCAGACATGGTCTTACATGGGATGTTCTCATATCGGTGCCCATGCCATGTCCCAGACAT
GGTCTTACGGGGGAC
Found at i:26982605 original size:50 final size:50
Alignment explanation
Indices: 26982422--26982614 Score: 233
Period size: 50 Copynumber: 3.8 Consensus size: 50
26982412 GATAATAACA
* ** *
26982422 TGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTTCTCATATCGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGA-CCTCTCATCTCGG
* * ** * *
26982473 TGCCCATGCCATGTCCCAGACATGGTCTTACGGGGGACCACTCATCTCAG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
* * * * **
26982523 TGCCAACACCATGTCTCAAACATGGTATTACATAAGACCTCTCATCTCGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
26982573 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCT
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCT
26982615 TTACCCAAAT
Statistics
Matches: 115, Mismatches: 27, Indels: 1
0.80 0.19 0.01
Matches are distributed among these distances:
50 82 0.71
51 33 0.29
ACGTcount: A:0.24, C:0.31, G:0.21, T:0.25
Consensus pattern (50 bp):
TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
Found at i:26982984 original size:29 final size:28
Alignment explanation
Indices: 26982952--26983020 Score: 84
Period size: 30 Copynumber: 2.4 Consensus size: 28
26982942 CCTCGACTCT
26982952 AACTTTAGAAAATTATGATTTTGCCCCTA
1 AACTTTAGAAAATTATGATTTTGCCCC-A
* * *
26982981 AACTTTTACATAATTATGCTTTTGCCCCA
1 AAC-TTTAGAAAATTATGATTTTGCCCCA
*
26983010 AAGTTTAGAAA
1 AACTTTAGAAA
26983021 TTAAACTTCA
Statistics
Matches: 33, Mismatches: 6, Indels: 3
0.79 0.14 0.07
Matches are distributed among these distances:
28 6 0.18
29 6 0.18
30 21 0.64
ACGTcount: A:0.35, C:0.17, G:0.10, T:0.38
Consensus pattern (28 bp):
AACTTTAGAAAATTATGATTTTGCCCCA
Found at i:26984263 original size:26 final size:26
Alignment explanation
Indices: 26984228--26984277 Score: 82
Period size: 26 Copynumber: 1.9 Consensus size: 26
26984218 CCCATACACC
* *
26984228 AATATTGCAGCATAGCTGCCAGTAAT
1 AATATCGCAGCAGAGCTGCCAGTAAT
26984254 AATATCGCAGCAGAGCTGCCAGTA
1 AATATCGCAGCAGAGCTGCCAGTA
26984278 CAGTATATGT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 22 1.00
ACGTcount: A:0.34, C:0.22, G:0.22, T:0.22
Consensus pattern (26 bp):
AATATCGCAGCAGAGCTGCCAGTAAT
Found at i:26984508 original size:26 final size:26
Alignment explanation
Indices: 26984479--26984631 Score: 171
Period size: 26 Copynumber: 5.9 Consensus size: 26
26984469 ACGGTCATCC
* * *
26984479 TACCCTTCGGGGGTATTTGGGTAATT
1 TACCCATCGAGGGTATTTCGGTAATT
* *
26984505 TACCCATCGAGGGTATGTCGATAATT
1 TACCCATCGAGGGTATTTCGGTAATT
*
26984531 TACCCATCAAGGGTATTTCGGTAATT
1 TACCCATCGAGGGTATTTCGGTAATT
* **
26984557 TACCCATCGAGGTTATTTTAGTAATT
1 TACCCATCGAGGGTATTTCGGTAATT
* * *
26984583 TACCCATCGACGTTATTTCGATAATT
1 TACCCATCGAGGGTATTTCGGTAATT
* * *
26984609 TAACCATCGAAGGTATTTTGGTA
1 TACCCATCGAGGGTATTTCGGTA
26984632 CAGTTAACGA
Statistics
Matches: 106, Mismatches: 21, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
26 106 1.00
ACGTcount: A:0.25, C:0.18, G:0.20, T:0.37
Consensus pattern (26 bp):
TACCCATCGAGGGTATTTCGGTAATT
Found at i:26989938 original size:20 final size:21
Alignment explanation
Indices: 26989900--26989939 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 21
26989890 ATGAAGTCGG
* *
26989900 GACTTTCTAGTGGGGAAAATT
1 GACTTTCTACTGGGAAAAATT
26989921 GACTTTCT-CTGGGAAAAAT
1 GACTTTCTACTGGGAAAAAT
26989940 CCAAAATCGA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 9 0.53
21 8 0.47
ACGTcount: A:0.30, C:0.12, G:0.25, T:0.33
Consensus pattern (21 bp):
GACTTTCTACTGGGAAAAATT
Found at i:26994447 original size:26 final size:26
Alignment explanation
Indices: 26994413--26994462 Score: 75
Period size: 26 Copynumber: 1.9 Consensus size: 26
26994403 CCATTTCGAA
26994413 TATCAAATTCA-TCTCATAAATTTTCT
1 TATCAAATTCATTC-CATAAATTTTCT
*
26994439 TATCCAATTCATTCCATAAATTTT
1 TATCAAATTCATTCCATAAATTTT
26994463 AATAATTTTC
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
26 20 0.91
27 2 0.09
ACGTcount: A:0.34, C:0.20, G:0.00, T:0.46
Consensus pattern (26 bp):
TATCAAATTCATTCCATAAATTTTCT
Found at i:26998327 original size:27 final size:27
Alignment explanation
Indices: 26998297--26998489 Score: 241
Period size: 27 Copynumber: 7.2 Consensus size: 27
26998287 GGAATATAAT
*
26998297 AGTCATTTTACCCTATGGTGGTATTTC
1 AGTCATTTTACCCTATGGGGGTATTTC
26998324 AGTCATTTTACCCTATGGGGGTATTTC
1 AGTCATTTTACCCTATGGGGGTATTTC
*
26998351 -GATCATTCTACCCTAT-GGGGTATTTC
1 AG-TCATTTTACCCTATGGGGGTATTTC
26998377 -GTTCATTTTACCCTATGGGGGTATTTC
1 AG-TCATTTTACCCTATGGGGGTATTTC
* * * *
26998404 AATTATTTTAACTTATGGGGGTATTTC
1 AGTCATTTTACCCTATGGGGGTATTTC
* *
26998431 GGTCATTCTACCCTAT-GGGGTATTTC
1 AGTCATTTTACCCTATGGGGGTATTTC
* * *
26998457 GGTTATTTTACCCTATGGGGGTATTTT
1 AGTCATTTTACCCTATGGGGGTATTTC
26998484 AGTCAT
1 AGTCAT
26998490 AATAGTGTAA
Statistics
Matches: 143, Mismatches: 19, Indels: 8
0.84 0.11 0.05
Matches are distributed among these distances:
26 49 0.34
27 94 0.66
ACGTcount: A:0.19, C:0.17, G:0.21, T:0.43
Consensus pattern (27 bp):
AGTCATTTTACCCTATGGGGGTATTTC
Found at i:26998394 original size:80 final size:81
Alignment explanation
Indices: 26998299--26998489 Score: 305
Period size: 80 Copynumber: 2.4 Consensus size: 81
26998289 AATATAATAG
* *
26998299 TCATTTTACCCTATGGTGGTATTTCAGTCATTTTACCCTATGGGGGTATTTCGATCATTCTACCC
1 TCATTTTACCCTATGGGGGTATTTCAGTCATTTTAACCTATGGGGGTATTTCGATCATTCTACCC
26998364 TATGGGGTATTTC-GT
66 TATGGGGTATTTCGGT
* * * *
26998379 TCATTTTACCCTATGGGGGTATTTCAATTATTTTAACTTATGGGGGTATTTCGGTCATTCTACCC
1 TCATTTTACCCTATGGGGGTATTTCAGTCATTTTAACCTATGGGGGTATTTCGATCATTCTACCC
26998444 TATGGGGTATTTCGGT
66 TATGGGGTATTTCGGT
*
26998460 T-ATTTTACCCTATGGGGGTATTTTAGTCAT
1 TCATTTTACCCTATGGGGGTATTTCAGTCAT
26998490 AATAGTGTAA
Statistics
Matches: 101, Mismatches: 9, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
80 98 0.97
81 3 0.03
ACGTcount: A:0.18, C:0.17, G:0.21, T:0.43
Consensus pattern (81 bp):
TCATTTTACCCTATGGGGGTATTTCAGTCATTTTAACCTATGGGGGTATTTCGATCATTCTACCC
TATGGGGTATTTCGGT
Found at i:26998489 original size:53 final size:54
Alignment explanation
Indices: 26998301--26998489 Score: 258
Period size: 53 Copynumber: 3.5 Consensus size: 54
26998291 TATAATAGTC
* *
26998301 ATTTTACCCTATGGTGGTATTTCAGTCATTTTACCCTATGGGGGTATTTCGATC
1 ATTTTACCCTATGGGGGTATTTCAGTCATTTTACCCTATGGGGGTATTTCGATT
* *
26998355 ATTCTACCCTAT-GGGGTATTTC-GTTCATTTTACCCTATGGGGGTATTTCAATT
1 ATTTTACCCTATGGGGGTATTTCAG-TCATTTTACCCTATGGGGGTATTTCGATT
* * * * *
26998408 ATTTTAACTTATGGGGGTATTTCGGTCATTCTACCCTAT-GGGGTATTTCGGTT
1 ATTTTACCCTATGGGGGTATTTCAGTCATTTTACCCTATGGGGGTATTTCGATT
*
26998461 ATTTTACCCTATGGGGGTATTTTAGTCAT
1 ATTTTACCCTATGGGGGTATTTCAGTCAT
26998490 AATAGTGTAA
Statistics
Matches: 118, Mismatches: 14, Indels: 7
0.85 0.10 0.05
Matches are distributed among these distances:
52 1 0.01
53 82 0.69
54 34 0.29
55 1 0.01
ACGTcount: A:0.19, C:0.17, G:0.21, T:0.43
Consensus pattern (54 bp):
ATTTTACCCTATGGGGGTATTTCAGTCATTTTACCCTATGGGGGTATTTCGATT
Found at i:27004792 original size:15 final size:15
Alignment explanation
Indices: 27004767--27004801 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 15
27004757 GACTCTATTT
*
27004767 TAATT-ATATTAGGA
1 TAATTAATATTAAGA
27004781 TAATTAATATTAAGA
1 TAATTAATATTAAGA
27004796 TAATTA
1 TAATTA
27004802 TTAAGGATTA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 5 0.26
15 14 0.74
ACGTcount: A:0.49, C:0.00, G:0.09, T:0.43
Consensus pattern (15 bp):
TAATTAATATTAAGA
Found at i:27007707 original size:16 final size:16
Alignment explanation
Indices: 27007677--27007711 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 16
27007667 GTATTGAATT
27007677 AAAAAAATTCAAAAAA
1 AAAAAAATTCAAAAAA
27007693 AAAAGAAATTCAAAAAA
1 AAAA-AAATTCAAAAAA
27007710 AA
1 AA
27007712 TCAAAAAAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
16 4 0.22
17 14 0.78
ACGTcount: A:0.80, C:0.06, G:0.03, T:0.11
Consensus pattern (16 bp):
AAAAAAATTCAAAAAA
Found at i:27008840 original size:29 final size:28
Alignment explanation
Indices: 27008827--27008880 Score: 85
Period size: 28 Copynumber: 2.0 Consensus size: 28
27008817 AAATGTGATC
27008827 AAGAAAAGAAAATTGAAAAAGAGAGTGA
1 AAGAAAAGAAAATTGAAAAAGAGAGTGA
*
27008855 AAGAAAAGAAAA-TGAGAAAGA-AGTGA
1 AAGAAAAGAAAATTGAAAAAGAGAGTGA
27008881 GTGTCATCGA
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
26 5 0.20
27 8 0.32
28 12 0.48
ACGTcount: A:0.65, C:0.00, G:0.26, T:0.09
Consensus pattern (28 bp):
AAGAAAAGAAAATTGAAAAAGAGAGTGA
Found at i:27014873 original size:5 final size:5
Alignment explanation
Indices: 27014850--27014915 Score: 71
Period size: 5 Copynumber: 12.4 Consensus size: 5
27014840 GCAACCCAAT
27014850 TTTTA TTTTTA TTTATTA TTTTA TTTTA TTTTA TTTT- TTTTA TTTATTA
1 TTTTA -TTTTA -TT-TTA TTTTA TTTTA TTTTA TTTTA TTTTA -TT-TTA
*
27014899 CTTTA TTTTA TTTTA TT
1 TTTTA TTTTA TTTTA TT
27014916 ATTTATTACT
Statistics
Matches: 54, Mismatches: 2, Indels: 9
0.83 0.03 0.14
Matches are distributed among these distances:
4 4 0.07
5 31 0.57
6 13 0.24
7 6 0.11
ACGTcount: A:0.20, C:0.02, G:0.00, T:0.79
Consensus pattern (5 bp):
TTTTA
Found at i:27014873 original size:18 final size:17
Alignment explanation
Indices: 27014850--27014919 Score: 92
Period size: 18 Copynumber: 4.2 Consensus size: 17
27014840 GCAACCCAAT
27014850 TTTTATTTTTATTTATTA
1 TTTTA-TTTTATTTATTA
27014868 TTTTATTTTA-TT-TTA
1 TTTTATTTTATTTATTA
27014883 TTTT-TTTTATTTATTA
1 TTTTATTTTATTTATTA
*
27014899 CTTTATTTTATTTTATTA
1 TTTTATTTTA-TTTATTA
27014917 TTT
1 TTT
27014920 ATTACTTATT
Statistics
Matches: 46, Mismatches: 2, Indels: 8
0.82 0.04 0.14
Matches are distributed among these distances:
14 5 0.11
15 9 0.20
16 8 0.17
17 10 0.22
18 14 0.30
ACGTcount: A:0.20, C:0.01, G:0.00, T:0.79
Consensus pattern (17 bp):
TTTTATTTTATTTATTA
Found at i:27014893 original size:31 final size:32
Alignment explanation
Indices: 27014855--27014929 Score: 116
Period size: 31 Copynumber: 2.4 Consensus size: 32
27014845 CCAATTTTTA
*
27014855 TTTTTATTTATTATTTTATTTTATTTTATT-T
1 TTTTTATTTATTACTTTATTTTATTTTATTAT
27014886 TTTTTATTTATTACTTTATTTTATTTTATTAT
1 TTTTTATTTATTACTTTATTTTATTTTATTAT
* *
27014918 TTATTACTTATT
1 TTTTTATTTATT
27014930 TGGATATTAA
Statistics
Matches: 40, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
31 29 0.73
32 11 0.28
ACGTcount: A:0.21, C:0.03, G:0.00, T:0.76
Consensus pattern (32 bp):
TTTTTATTTATTACTTTATTTTATTTTATTAT
Found at i:27015030 original size:17 final size:17
Alignment explanation
Indices: 27014986--27015024 Score: 78
Period size: 17 Copynumber: 2.3 Consensus size: 17
27014976 AAAATACGAA
27014986 GAAAAAGGAACAGCTAG
1 GAAAAAGGAACAGCTAG
27015003 GAAAAAGGAACAGCTAG
1 GAAAAAGGAACAGCTAG
27015020 GAAAA
1 GAAAA
27015025 GTGAACCAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 22 1.00
ACGTcount: A:0.56, C:0.10, G:0.28, T:0.05
Consensus pattern (17 bp):
GAAAAAGGAACAGCTAG
Found at i:27016407 original size:50 final size:50
Alignment explanation
Indices: 27016326--27016569 Score: 244
Period size: 50 Copynumber: 4.9 Consensus size: 50
27016316 CATTGAGAAT
* * * *
27016326 ATGAGAGGTCTCATGTAAGACCATGTTTGGGACATGGCGTTGGCACCAAG
1 ATGAAAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCAAG
* *
27016376 ATGAAAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAG
1 ATGAAAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCAAG
* * * * * *
27016426 ATGAGAGGTCTCC-CGTAAGACCATGTCTAGGACATGGCATGGGCACCGAT
1 ATGAAAGGTC-CCATGTAAGACCATGTCTGGGACATGGCATTGGCACCAAG
* * * * **
27016476 ATGAGAA-ATCTCATGTAAGACCATATCTGGGATATGGCATTGGCAGTACA-
1 ATGA-AAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCA-AG
** *
27016526 A-GAAACATCCCATGTAAGACCATGTCTGGGACATGGCTTTGGCA
1 ATGAAAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA
27016570 TGTTATTATC
Statistics
Matches: 164, Mismatches: 25, Indels: 11
0.82 0.12 0.05
Matches are distributed among these distances:
48 2 0.01
49 37 0.23
50 121 0.74
51 4 0.02
ACGTcount: A:0.28, C:0.20, G:0.29, T:0.23
Consensus pattern (50 bp):
ATGAAAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCAAG
Found at i:27016460 original size:100 final size:103
Alignment explanation
Indices: 27016281--27016520 Score: 272
Period size: 100 Copynumber: 2.3 Consensus size: 103
27016271 AATGAGATCA
* * * *
27016281 CATGTAAGACCATGTCTAGGACATGGCATTGCCATCATTGAGAATATGAGAGGTCTCATGTAAGA
1 CATGTAAGACCATGTCTGGGACATGGCATTGGCATCA-CGAG-A-ATGAGAGGTCTCACGTAAGA
* * * * *
27016346 CCATGTTTGGGACATGGCGTTGGCACCAAGATGA-AAGGTCC
63 CCATGTCTAGGACATGGCATGGGCACCAAGATGAGAA-ATCC
* *
27016387 CATGTAAGACCATGTCTGGGACATGGCGTTGGCA-C-CGAG-ATGAGAGGTCTCCCGTAAGACCA
1 CATGTAAGACCATGTCTGGGACATGGCATTGGCATCACGAGAATGAGAGGTCTCACGTAAGACCA
* * *
27016449 TGTCTAGGACATGGCATGGGCACCGATATGAGAAATCT
66 TGTCTAGGACATGGCATGGGCACCAAGATGAGAAATCC
* *
27016487 CATGTAAGACCATATCTGGGATATGGCATTGGCA
1 CATGTAAGACCATGTCTGGGACATGGCATTGGCA
27016521 GTACAAGAAA
Statistics
Matches: 116, Mismatches: 17, Indels: 8
0.82 0.12 0.06
Matches are distributed among these distances:
100 79 0.68
101 2 0.02
103 3 0.03
105 1 0.01
106 31 0.27
ACGTcount: A:0.28, C:0.20, G:0.28, T:0.23
Consensus pattern (103 bp):
CATGTAAGACCATGTCTGGGACATGGCATTGGCATCACGAGAATGAGAGGTCTCACGTAAGACCA
TGTCTAGGACATGGCATGGGCACCAAGATGAGAAATCC
Found at i:27020796 original size:56 final size:55
Alignment explanation
Indices: 27020705--27020853 Score: 228
Period size: 56 Copynumber: 2.7 Consensus size: 55
27020695 GGGAATGAGA
*
27020705 TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCATTG-AGATTATCAGAGG
1 TCCCATGTAAGACCATGTCT-GGACATGGCGTTGGCATCATTGAAG-TTATCAGAGG
*
27020761 TCCCATGTAAGACCATGTCTGCGACATGGCGTTGGCATCATTGAAGTTATGAGAGG
1 TCCCATGTAAGACCATGTCTG-GACATGGCGTTGGCATCATTGAAGTTATCAGAGG
*
27020817 TCCCATGTAAGATCATGTCTAGGACATGGCGTTGGCA
1 TCCCATGTAAGACCATGTCT-GGACATGGCGTTGGCA
27020854 CCGAGATGAG
Statistics
Matches: 87, Mismatches: 3, Indels: 6
0.91 0.03 0.06
Matches are distributed among these distances:
55 1 0.01
56 83 0.95
57 3 0.03
ACGTcount: A:0.26, C:0.20, G:0.28, T:0.27
Consensus pattern (55 bp):
TCCCATGTAAGACCATGTCTGGACATGGCGTTGGCATCATTGAAGTTATCAGAGG
Found at i:27020884 original size:50 final size:49
Alignment explanation
Indices: 27020705--27020938 Score: 189
Period size: 56 Copynumber: 4.4 Consensus size: 49
27020695 GGGAATGAGA
* * * *
27020705 TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCATTGAGATTATCAGAGG
1 TCCCATGTAAGACCATGTCT-GGACATGGCGTTGGCA-C--CGAG---ATGAGAAG
* *
27020761 TCCCATGTAAGACCATGTCTGCGACATGGCGTTGGCATCATTGAAGTTATGAGAGG
1 TCCCATGTAAGACCATGTCTG-GACATGGCGTTGGCA-C--CG-AG--ATGAGAAG
*
27020817 TCCCATGTAAGATCATGTCTAGGACATGGCGTTGGCACCGAGATGAGAAG
1 TCCCATGTAAGACCATGTCT-GGACATGGCGTTGGCACCGAGATGAGAAG
** * * * * *
27020867 TCCCCCGTAAGACCATGTTTGGGACATGGCATGGGCACCGATATGAGAAC
1 TCCCATGTAAGACCATGTCT-GGACATGGCGTTGGCACCGAGATGAGAAG
*
27020917 TCCCATGTAAGACCATATCTGG
1 TCCCATGTAAGACCATGTCTGG
27020939 TATTTTTTAT
Statistics
Matches: 157, Mismatches: 18, Indels: 13
0.84 0.10 0.07
Matches are distributed among these distances:
49 2 0.01
50 64 0.41
52 2 0.01
53 1 0.01
55 2 0.01
56 83 0.53
57 3 0.02
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.24
Consensus pattern (49 bp):
TCCCATGTAAGACCATGTCTGGACATGGCGTTGGCACCGAGATGAGAAG
Found at i:27021171 original size:56 final size:56
Alignment explanation
Indices: 27021110--27021308 Score: 241
Period size: 56 Copynumber: 3.7 Consensus size: 56
27021100 GGGAATGAGA
27021110 TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCATTGAGATTATGAGAGG
1 TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCATTGAGATTATGAGAGG
* *
27021166 TCCCATGTAAGACCATGTCTGCGACATGGCGTTGGCATCATTGA-AGTTATGAGAGG
1 TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCATTGAGA-TTATGAGAGG
* * * * *
27021222 TCCCATGTAAGATCATGTCTAGGACATGGCGTTGGCA-C--CGAG---ATGAGAAG
1 TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCATTGAGATTATGAGAGG
** * *
27021272 TCCCCCGTAAGACCATGTTTGGGACATGGCATGGGCA
1 TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA
27021309 CCGATATGAG
Statistics
Matches: 127, Mismatches: 14, Indels: 10
0.84 0.09 0.07
Matches are distributed among these distances:
50 37 0.29
53 2 0.02
55 2 0.02
56 86 0.68
ACGTcount: A:0.26, C:0.21, G:0.29, T:0.25
Consensus pattern (56 bp):
TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCATTGAGATTATGAGAGG
Found at i:27021289 original size:50 final size:53
Alignment explanation
Indices: 27021110--27021343 Score: 237
Period size: 56 Copynumber: 4.4 Consensus size: 53
27021100 GGGAATGAGA
* *
27021110 TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCATTGAGATTATGAGAGG
1 TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCA-CGAG--TATGAGAAG
* * * *
27021166 TCCCATGTAAGACCATGTCTGCGACATGGCGTTGGCATCATTGAAGTTATGAGAGG
1 TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCA-CG-AG-TATGAGAAG
* * *
27021222 TCCCATGTAAGATCATGTCTAGGACATGGCGTTGGCA-C-CGAG-ATGAGAAG
1 TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCACGAGTATGAGAAG
** * * *
27021272 TCCCCCGTAAGACCATGTTTGGGACATGGCATGGGCA-C-CGA-TATGAGAAC
1 TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCACGAGTATGAGAAG
*
27021322 TCCCATGTAAGACCATATCTGG
1 TCCCATGTAAGACCATGTCTGG
27021344 TATTTTTTAT
Statistics
Matches: 157, Mismatches: 19, Indels: 10
0.84 0.10 0.05
Matches are distributed among these distances:
50 66 0.42
52 2 0.01
53 1 0.01
55 1 0.01
56 85 0.54
57 2 0.01
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.24
Consensus pattern (53 bp):
TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCACGAGTATGAGAAG
Found at i:27021293 original size:405 final size:405
Alignment explanation
Indices: 27020537--27021748 Score: 2343
Period size: 405 Copynumber: 3.0 Consensus size: 405
27020527 AGATGTAATA
* * *
27020537 TTTTGATAATTATTATTAATGCTGTTATTTTTCAGAAATTATGTATTTATTTCATGAAAATATCT
1 TTTTTATAATTATTATTAATGCTGTTATTTTTCAGTAATTATGTATTTATTTCATCAAAATATCT
*
27020602 AATGTTGACTTAAGTATGAGGTGACAAAGAATCAATGATAAAAGCCCCGTTGCAACATTGGGAAT
66 AATGTTGACTTAAGTATGAGGTGACAAAGAATCAATGATAAAAGCCCCATTGCAACATTGGGAAT
*
27020667 GTATCGAATACAAATGTCATGACATTAAGGGAATGAGATCCCATGTAAGACCATGTCTGGGACAT
131 GTATCGAATACAAATGTCTTGACATTAAGGGAATGAGATCCCATGTAAGACCATGTCTGGGACAT
*
27020732 GGCATTGGCATCATTGAGATTATCAGAGGTCCCATGTAAGACCATGTCTGCGACATGGCGTTGGC
196 GGCATTGGCATCATTGAGATTATGAGAGGTCCCATGTAAGACCATGTCTGCGACATGGCGTTGGC
27020797 ATCATTGAAGTTATGAGAGGTCCCATGTAAGATCATGTCTAGGACATGGCGTTGGCACCGAGATG
261 ATCATTGAAGTTATGAGAGGTCCCATGTAAGATCATGTCTAGGACATGGCGTTGGCACCGAGATG
27020862 AGAAGTCCCCCGTAAGACCATGTTTGGGACATGGCATGGGCACCGATATGAGAACTCCCATGTAA
326 AGAAGTCCCCCGTAAGACCATGTTTGGGACATGGCATGGGCACCGATATGAGAACTCCCATGTAA
27020927 GACCATATCTGGTAT
391 GACCATATCTGGTAT
27020942 TTTTTATAATTATTATTAATGCTGTTATTTTTCAGTAATTATGTATTTATTTCATCAAAATATCT
1 TTTTTATAATTATTATTAATGCTGTTATTTTTCAGTAATTATGTATTTATTTCATCAAAATATCT
27021007 AATGTTGACTTAAGTATGAGGTGACAAAGAATCAATGATAAAAGCCCCATTGCAACATTGGGAAT
66 AATGTTGACTTAAGTATGAGGTGACAAAGAATCAATGATAAAAGCCCCATTGCAACATTGGGAAT
27021072 GTATCGAATACAAATGTCTTGACATTAAGGGAATGAGATCCCATGTAAGACCATGTCTGGGACAT
131 GTATCGAATACAAATGTCTTGACATTAAGGGAATGAGATCCCATGTAAGACCATGTCTGGGACAT
27021137 GGCATTGGCATCATTGAGATTATGAGAGGTCCCATGTAAGACCATGTCTGCGACATGGCGTTGGC
196 GGCATTGGCATCATTGAGATTATGAGAGGTCCCATGTAAGACCATGTCTGCGACATGGCGTTGGC
27021202 ATCATTGAAGTTATGAGAGGTCCCATGTAAGATCATGTCTAGGACATGGCGTTGGCACCGAGATG
261 ATCATTGAAGTTATGAGAGGTCCCATGTAAGATCATGTCTAGGACATGGCGTTGGCACCGAGATG
27021267 AGAAGTCCCCCGTAAGACCATGTTTGGGACATGGCATGGGCACCGATATGAGAACTCCCATGTAA
326 AGAAGTCCCCCGTAAGACCATGTTTGGGACATGGCATGGGCACCGATATGAGAACTCCCATGTAA
27021332 GACCATATCTGGTAT
391 GACCATATCTGGTAT
27021347 TTTTTATAATTATTATTAATGCTGTTATTTTTCAGTAATTATGTATTTATTTCATCAAAATATCT
1 TTTTTATAATTATTATTAATGCTGTTATTTTTCAGTAATTATGTATTTATTTCATCAAAATATCT
27021412 AATGTTGACTTAAGTATGAGGTGACAAAGAATCAATGATAAAAGCCCCATTGCAACATTGGGAAT
66 AATGTTGACTTAAGTATGAGGTGACAAAGAATCAATGATAAAAGCCCCATTGCAACATTGGGAAT
27021477 GTATCGAATACAAATGTCTTGACATTAAGGGAATGAGATCCCATGTAAGACCATGTCTGGGACAT
131 GTATCGAATACAAATGTCTTGACATTAAGGGAATGAGATCCCATGTAAGACCATGTCTGGGACAT
27021542 GGCATTGGCATCATTGAGATTATGAGAGGTCCCATGTAAGACCATGTCTGCGACATGGCGTTGGC
196 GGCATTGGCATCATTGAGATTATGAGAGGTCCCATGTAAGACCATGTCTGCGACATGGCGTTGGC
27021607 ATCATTGAAGTTATGAGAGGTCCCATGTAAGATCATGTCTAGGACATGGCGTTGGCACCGAGATG
261 ATCATTGAAGTTATGAGAGGTCCCATGTAAGATCATGTCTAGGACATGGCGTTGGCACCGAGATG
* * *
27021672 AGAGGTCCCTCGTAAGACCATGTTTGGGACTTGGCATGGGCACCGATATGAGAACTCCCATGTAA
326 AGAAGTCCCCCGTAAGACCATGTTTGGGACATGGCATGGGCACCGATATGAGAACTCCCATGTAA
27021737 GACCATATCTGG
391 GACCATATCTGG
27021749 GATATGGCAT
Statistics
Matches: 798, Mismatches: 9, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
405 798 1.00
ACGTcount: A:0.31, C:0.17, G:0.23, T:0.30
Consensus pattern (405 bp):
TTTTTATAATTATTATTAATGCTGTTATTTTTCAGTAATTATGTATTTATTTCATCAAAATATCT
AATGTTGACTTAAGTATGAGGTGACAAAGAATCAATGATAAAAGCCCCATTGCAACATTGGGAAT
GTATCGAATACAAATGTCTTGACATTAAGGGAATGAGATCCCATGTAAGACCATGTCTGGGACAT
GGCATTGGCATCATTGAGATTATGAGAGGTCCCATGTAAGACCATGTCTGCGACATGGCGTTGGC
ATCATTGAAGTTATGAGAGGTCCCATGTAAGATCATGTCTAGGACATGGCGTTGGCACCGAGATG
AGAAGTCCCCCGTAAGACCATGTTTGGGACATGGCATGGGCACCGATATGAGAACTCCCATGTAA
GACCATATCTGGTAT
Found at i:27021677 original size:50 final size:53
Alignment explanation
Indices: 27021515--27021813 Score: 262
Period size: 56 Copynumber: 5.7 Consensus size: 53
27021505 GGGAATGAGA
*
27021515 TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCATTGAGATTATGAGAGG
1 TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCA-CGAG--TATGAGAGG
* * *
27021571 TCCCATGTAAGACCATGTCTGCGACATGGCGTTGGCATCATTGAAGTTATGAGAGG
1 TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCA-CG-AG-TATGAGAGG
* * *
27021627 TCCCATGTAAGATCATGTCTAGGACATGGCGTTGGCA-C-CGAG-ATGAGAGG
1 TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCACGAGTATGAGAGG
* * * **
27021677 TCCC-TCGTAAGACCATGTTTGGGACTTGGCATGGGCA-C-CGA-TATGAGAAC
1 TCCCAT-GTAAGACCATGTCTGGGACATGGCATTGGCATCACGAGTATGAGAGG
* * * * **
27021727 TCCCATGTAAGACCATATCTGGGATATGGCATTGTCAGT-AC-A--A-GAAACA
1 TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA-TCACGAGTATGAGAGG
* *
27021776 TCCCATGTAAGACCAAGTCTGGGACATGGCTTTGGCAT
1 TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCAT
27021814 GTTATTATCA
Statistics
Matches: 208, Mismatches: 28, Indels: 22
0.81 0.11 0.09
Matches are distributed among these distances:
48 1 0.00
49 36 0.17
50 77 0.37
51 2 0.01
52 3 0.01
53 1 0.00
55 1 0.00
56 85 0.41
57 2 0.01
ACGTcount: A:0.27, C:0.21, G:0.27, T:0.25
Consensus pattern (53 bp):
TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCACGAGTATGAGAGG
Found at i:27024905 original size:15 final size:15
Alignment explanation
Indices: 27024880--27024914 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 15
27024870 GACTCTATTT
*
27024880 TAATT-ATATTAGGA
1 TAATTAATATTAAGA
27024894 TAATTAATATTAAGA
1 TAATTAATATTAAGA
27024909 TAATTA
1 TAATTA
27024915 TTAAGGATTA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 5 0.26
15 14 0.74
ACGTcount: A:0.49, C:0.00, G:0.09, T:0.43
Consensus pattern (15 bp):
TAATTAATATTAAGA
Found at i:27034389 original size:10 final size:11
Alignment explanation
Indices: 27034363--27034388 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
27034353 TATTTTTAAA
27034363 AAAAATATTTT
1 AAAAATATTTT
27034374 AAAAATATTTT
1 AAAAATATTTT
27034385 AAAA
1 AAAA
27034389 TTAAAAAATA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (11 bp):
AAAAATATTTT
Found at i:27047781 original size:22 final size:22
Alignment explanation
Indices: 27047750--27047816 Score: 73
Period size: 22 Copynumber: 3.0 Consensus size: 22
27047740 TGCACTAATG
27047750 AACAGAGAGCACTAAAGTGCTA
1 AACAGAGAGCACTAAAGTGCTA
* * *
27047772 TATAGAGAGCAC-AGATGTGCTA
1 AACAGAGAGCACTA-AAGTGCTA
* *
27047794 AACAGAGAGCACTGACGTGCTA
1 AACAGAGAGCACTAAAGTGCTA
27047816 A
1 A
27047817 TAATCAGAAA
Statistics
Matches: 36, Mismatches: 7, Indels: 4
0.77 0.15 0.09
Matches are distributed among these distances:
21 1 0.03
22 35 0.97
ACGTcount: A:0.40, C:0.18, G:0.25, T:0.16
Consensus pattern (22 bp):
AACAGAGAGCACTAAAGTGCTA
Found at i:27055240 original size:27 final size:27
Alignment explanation
Indices: 27055037--27055235 Score: 191
Period size: 27 Copynumber: 7.4 Consensus size: 27
27055027 ACCTAAAAAT
*
27055037 AGGGTAAAATGACCGAAATACCCCCAA
1 AGGGTAAAATGACCGAAATACCCCCAG
**
27055064 AGGGTAAAATGACAAAAATACCCCCAG
1 AGGGTAAAATGACCGAAATACCCCCAG
* *
27055091 AGGGTAAAATGACCGAAATACCCCTAT
1 AGGGTAAAATGACCGAAATACCCCCAG
* * *
27055118 AGGGTAAAACGACCGAAATATCCTCAG
1 AGGGTAAAATGACCGAAATACCCCCAG
* * * **
27055145 AAGGTAAAATGACTGAAATAACCTTAG
1 AGGGTAAAATGACCGAAATACCCCCAG
* ** *
27055172 AGTGTAAAGCGACCGAAATACCCCCAA
1 AGGGTAAAATGACCGAAATACCCCCAG
** * * * *
27055199 AGGGTAAGTTGACTGAAATAGCCTCAT
1 AGGGTAAAATGACCGAAATACCCCCAG
27055226 AGGGTAAAAT
1 AGGGTAAAAT
27055236 AACTGTTATA
Statistics
Matches: 136, Mismatches: 36, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
27 136 1.00
ACGTcount: A:0.43, C:0.20, G:0.21, T:0.17
Consensus pattern (27 bp):
AGGGTAAAATGACCGAAATACCCCCAG
Found at i:27056468 original size:27 final size:27
Alignment explanation
Indices: 27056438--27056516 Score: 115
Period size: 27 Copynumber: 2.9 Consensus size: 27
27056428 AAAATAACTA
* *
27056438 AAATACCCCCATAGGGTATAATGATCG
1 AAATACCCCCATAGGGTAAAATGACCG
27056465 AAATACCCCCATAGGGTAAAATGACCG
1 AAATACCCCCATAGGGTAAAATGACCG
*
27056492 AAATACCCCTATTA-GGTAAAATGAC
1 AAATACCCCCA-TAGGGTAAAATGAC
27056517 TATTATACCC
Statistics
Matches: 48, Mismatches: 3, Indels: 2
0.91 0.06 0.04
Matches are distributed among these distances:
27 46 0.96
28 2 0.04
ACGTcount: A:0.41, C:0.23, G:0.16, T:0.20
Consensus pattern (27 bp):
AAATACCCCCATAGGGTAAAATGACCG
Found at i:27060182 original size:3 final size:3
Alignment explanation
Indices: 27060176--27060217 Score: 84
Period size: 3 Copynumber: 14.0 Consensus size: 3
27060166 CAACAACAAC
27060176 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
27060218 GAAACATTCA
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 39 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:27064475 original size:27 final size:27
Alignment explanation
Indices: 27064435--27064632 Score: 154
Period size: 27 Copynumber: 7.4 Consensus size: 27
27064425 CTAATATTTA
* *
27064435 TAAAATAACTGTAATAACCCTATAGGG
1 TAAAATGACCGTAATAACCCTATAGGG
* *
27064462 TAAAATAACCGTAATACCCCTATAGGG
1 TAAAATGACCGTAATAACCCTATAGGG
* * *
27064489 TAAAATGACC-AAAAAACCCCCATAGGG
1 TAAAATGACCGTAATAA-CCCTATAGGG
* * *
27064516 TAAAATGACCGTGAT-GCCTCTGTAGGG
1 TAAAATGACCGTAATAACC-CTATAGGG
*
27064543 TAAAATAACCGTAAT-ACCCTCATAGGG
1 TAAAATGACCGTAATAACCCT-ATAGGG
* * * * * *
27064570 TTAAATGATCGAAATATCCCTGTAAGG
1 TAAAATGACCGTAATAACCCTATAGGG
* *
27064597 TAAAATGACCGTAAT-GCCTCTAGAGGG
1 TAAAATGACCGTAATAACC-CTATAGGG
27064624 T-AAATGACC
1 TAAAATGACC
27064633 ATTTTACCTT
Statistics
Matches: 134, Mismatches: 31, Indels: 13
0.75 0.17 0.07
Matches are distributed among these distances:
26 17 0.13
27 112 0.84
28 5 0.04
ACGTcount: A:0.39, C:0.20, G:0.19, T:0.23
Consensus pattern (27 bp):
TAAAATGACCGTAATAACCCTATAGGG
Found at i:27064570 original size:81 final size:82
Alignment explanation
Indices: 27064457--27064627 Score: 231
Period size: 81 Copynumber: 2.1 Consensus size: 82
27064447 AATAACCCTA
*
27064457 TAGGGTAAAATAACCGTAATACCCCTATAGGGTAAAATGACCAAAAAACCCCCATAGGGTAAAAT
1 TAGGGTAAAATAACCGTAATACCCCTATAGGGTAAAATGACCAAAAAACCCCCATAAGGTAAAAT
*
27064522 GACCGTGATGCCTCT-G
66 GACCGTAATGCCTCTAG
* * * * * **
27064538 TAGGGTAAAATAACCGTAATA-CCCTCATAGGGTTAAATGATCGAAATATCCCTGTAAGGTAAAA
1 TAGGGTAAAATAACCGTAATACCCCT-ATAGGGTAAAATGACCAAAAAACCCCCATAAGGTAAAA
27064602 TGACCGTAATGCCTCTAG
65 TGACCGTAATGCCTCTAG
27064620 -AGGGTAAA
1 TAGGGTAAA
27064628 TGACCATTTT
Statistics
Matches: 79, Mismatches: 9, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
80 4 0.05
81 74 0.94
82 1 0.01
ACGTcount: A:0.38, C:0.19, G:0.20, T:0.22
Consensus pattern (82 bp):
TAGGGTAAAATAACCGTAATACCCCTATAGGGTAAAATGACCAAAAAACCCCCATAAGGTAAAAT
GACCGTAATGCCTCTAG
Found at i:27064608 original size:54 final size:54
Alignment explanation
Indices: 27064435--27064632 Score: 186
Period size: 54 Copynumber: 3.7 Consensus size: 54
27064425 CTAATATTTA
* * *
27064435 TAAAATAACTGTAATAACCCT-ATAGGGTAAAATAACCGTAATACCCCTATAGGG
1 TAAAATAACCGTAAT-ACCCTCATAGGGTAAAATGACCGTAATACCCCTGTAGGG
* ** * * * * *
27064489 TAAAATGACCAAAAAACCCCCATAGGGTAAAATGACCGTGATGCCTCTGTAGGG
1 TAAAATAACCGTAATACCCTCATAGGGTAAAATGACCGTAATACCCCTGTAGGG
* * * * *
27064543 TAAAATAACCGTAATACCCTCATAGGGTTAAATGATCGAAATATCCCTGTAAGG
1 TAAAATAACCGTAATACCCTCATAGGGTAAAATGACCGTAATACCCCTGTAGGG
* * *
27064597 TAAAATGACCGTAAT-GCCTCTAGAGGGT-AAATGACC
1 TAAAATAACCGTAATACCCTC-ATAGGGTAAAATGACC
27064633 ATTTTACCTT
Statistics
Matches: 114, Mismatches: 28, Indels: 5
0.78 0.19 0.03
Matches are distributed among these distances:
53 15 0.13
54 99 0.87
ACGTcount: A:0.39, C:0.20, G:0.19, T:0.23
Consensus pattern (54 bp):
TAAAATAACCGTAATACCCTCATAGGGTAAAATGACCGTAATACCCCTGTAGGG
Found at i:27066061 original size:27 final size:27
Alignment explanation
Indices: 27066031--27066342 Score: 345
Period size: 27 Copynumber: 11.6 Consensus size: 27
27066021 AGAGCCAAAA
*
27066031 ATAGGGTAAAATGACCGAAATACCCTC
1 ATAGGGTAAAATGACCGAAATACCCCC
* *
27066058 ATAGGGTAACATGATCGAAATACCCCC
1 ATAGGGTAAAATGACCGAAATACCCCC
* * * *
27066085 AGAGAGTAAAATGACTGAAATGCCCCC
1 ATAGGGTAAAATGACCGAAATACCCCC
* *
27066112 ATAGGGTAAAATAACCTAAATACCCCC
1 ATAGGGTAAAATGACCGAAATACCCCC
** **
27066139 ATAGGGTAAAACAATAGAAATACCCCC
1 ATAGGGTAAAATGACCGAAATACCCCC
*
27066166 ATAGGATAAAATGACCGAAATACCCCC
1 ATAGGGTAAAATGACCGAAATACCCCC
* * *
27066193 ATAGGGTAAAACGATCGAAATAACCCC
1 ATAGGGTAAAATGACCGAAATACCCCC
* *
27066220 ATAGGATAAAATGACCAAAATACCCCC
1 ATAGGGTAAAATGACCGAAATACCCCC
*
27066247 AAAGGGTAAAATGACCGAAATACCCCC
1 ATAGGGTAAAATGACCGAAATACCCCC
* ** *
27066274 ATAGGGTAAATTGATTGAAATACCCTC
1 ATAGGGTAAAATGACCGAAATACCCCC
* * * *
27066301 ATAAGGTAAAATAATCAAAATACCCCC
1 ATAGGGTAAAATGACCGAAATACCCCC
* * *
27066328 AAAGTGTAACATGAC
1 ATAGGGTAAAATGAC
27066343 TGTTATACTC
Statistics
Matches: 232, Mismatches: 53, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
27 232 1.00
ACGTcount: A:0.44, C:0.23, G:0.16, T:0.17
Consensus pattern (27 bp):
ATAGGGTAAAATGACCGAAATACCCCC
Found at i:27070808 original size:149 final size:148
Alignment explanation
Indices: 27070543--27070854 Score: 441
Period size: 149 Copynumber: 2.1 Consensus size: 148
27070533 AAAGTTTTCA
** *
27070543 TTTTTTTTTAAAAAGAGAAAGTTTAGATTTTTAAAATAAAAATTTGTCTTTTGTCATATTAAAGG
1 TTTTTTTAAAAAAAGAGAAAGTTTAGATTTTAAAAATAAAAATTTGTCTTTTGTCATATTAAAGG
*
27070608 AAAAGTTTAAAATTAAAAAAAAATGTTTTAATCTTTTTCAACTATTTCGAAATAAAGTTTTGATT
66 AAAAGTTTAAAATTAAAAAAAAATGTTTTAATCTTTTTCAACTATTTCGAAATAAAATTTTGATT
*
27070673 TTTAAGAAAAATAGTTA-
131 TTTAAGAAAAATAGTGAC
* *
27070690 TATTTTTTAAAAAAAGAGAAAGTTTAGATTTTAAAAATAAAAATTTGTTTTTTAGTCATTTTAAA
1 T-TTTTTTAAAAAAAGAGAAAGTTTAGATTTTAAAAATAAAAATTTGTCTTTT-GTCATATTAAA
* * * **
27070755 GGAAAA-TTTAAATTTTTTAAAACAAA-GTTTTGGTCTTTTTCAACTATTTCGAAATAAAATTTT
64 GGAAAAGTTTAAA--ATTAAAAAAAAATGTTTTAATCTTTTTCAACTATTTCGAAATAAAATTTT
*
27070818 GATTTTTAAGAAAAGTAGTGAC
127 GATTTTTAAGAAAAATAGTGAC
27070840 TTTTTTTAAAGAAAA
1 TTTTTTTAAA-AAAA
27070855 TTTTGATTTT
Statistics
Matches: 146, Mismatches: 13, Indels: 9
0.87 0.08 0.05
Matches are distributed among these distances:
147 1 0.01
148 53 0.36
149 78 0.53
150 14 0.10
ACGTcount: A:0.42, C:0.04, G:0.11, T:0.43
Consensus pattern (148 bp):
TTTTTTTAAAAAAAGAGAAAGTTTAGATTTTAAAAATAAAAATTTGTCTTTTGTCATATTAAAGG
AAAAGTTTAAAATTAAAAAAAAATGTTTTAATCTTTTTCAACTATTTCGAAATAAAATTTTGATT
TTTAAGAAAAATAGTGAC
Found at i:27071784 original size:27 final size:27
Alignment explanation
Indices: 27071751--27071839 Score: 160
Period size: 27 Copynumber: 3.3 Consensus size: 27
27071741 TAAGTAAGTG
*
27071751 TTACATTTTAATGAAACCATAATGTTT
1 TTACATTTTAATGAAACCATAAGGTTT
27071778 TTACATTTTAATGAAACCATAAGGTTT
1 TTACATTTTAATGAAACCATAAGGTTT
*
27071805 TTACATTTTAAGGAAACCATAAGGTTT
1 TTACATTTTAATGAAACCATAAGGTTT
27071832 TTACATTT
1 TTACATTT
27071840 GAATTTAGGT
Statistics
Matches: 60, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
27 60 1.00
ACGTcount: A:0.36, C:0.11, G:0.10, T:0.43
Consensus pattern (27 bp):
TTACATTTTAATGAAACCATAAGGTTT
Found at i:27073721 original size:15 final size:17
Alignment explanation
Indices: 27073678--27073715 Score: 58
Period size: 17 Copynumber: 2.2 Consensus size: 17
27073668 GAATGGATTA
* *
27073678 TTATATTGAACGAACTG
1 TTATATTGTATGAACTG
27073695 TTATATTGTATGAACTG
1 TTATATTGTATGAACTG
27073712 TTAT
1 TTAT
27073716 TTTATGCGAA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.32, C:0.08, G:0.16, T:0.45
Consensus pattern (17 bp):
TTATATTGTATGAACTG
Found at i:27073726 original size:17 final size:18
Alignment explanation
Indices: 27073678--27073728 Score: 56
Period size: 17 Copynumber: 3.0 Consensus size: 18
27073668 GAATGGATTA
*
27073678 TTATATTG-AACGAACTG
1 TTATATTGTATCGAACTG
27073695 TTATATTGTAT-GAACTG
1 TTATATTGTATCGAACTG
27073712 TTAT-TT-TATGCGAACTG
1 TTATATTGTAT-CGAACTG
27073729 CCTATTCTAT
Statistics
Matches: 30, Mismatches: 1, Indels: 6
0.81 0.03 0.16
Matches are distributed among these distances:
15 3 0.10
16 2 0.07
17 24 0.80
18 1 0.03
ACGTcount: A:0.29, C:0.10, G:0.18, T:0.43
Consensus pattern (18 bp):
TTATATTGTATCGAACTG
Found at i:27089961 original size:50 final size:50
Alignment explanation
Indices: 27089850--27090146 Score: 222
Period size: 50 Copynumber: 5.8 Consensus size: 50
27089840 ATTTGGATAA
* *
27089850 AGAGATCCCATGTAAGACCATGTTTGGGACATGGCATTGGCATCATTGAAGTTATG
1 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA-C---CAAG--ATG
* * *
27089906 AGAGGTCCCATGTAAGACCATGTCTGGGACATAGCGTTGGCACCAAGATG
1 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCAAGATG
* ** * * * *
27089956 AGAGGTCCCCCGTAAGACCATGTCTGAGACATGGCATTGGTACCGATATG
1 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCAAGATG
* * * * * *
27090006 AGA-ACTCCCATGTAAGACCGTATCTGGGATATGGCATGGGCACCGATATG
1 AGAGA-TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCAAGATG
* * * * * * ** *
27090056 AGA-ACACCCATGTAAGACCATATCTGAGATATTGCTTTGGCA-GTACATG
1 AGAGA-TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCAAGATG
* * * *
27090105 AAACATCTCATGTAAGACCATGTCTGGGACATGGCTTTGGCA
1 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA
27090147 TGTTATTATC
Statistics
Matches: 201, Mismatches: 38, Indels: 11
0.80 0.15 0.04
Matches are distributed among these distances:
49 37 0.18
50 122 0.61
52 3 0.01
55 1 0.00
56 38 0.19
ACGTcount: A:0.29, C:0.21, G:0.26, T:0.24
Consensus pattern (50 bp):
AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCAAGATG
Found at i:27097979 original size:22 final size:22
Alignment explanation
Indices: 27097953--27097997 Score: 90
Period size: 22 Copynumber: 2.0 Consensus size: 22
27097943 AGTGAGACAG
27097953 TAGGGACACCTACTACAGAGAC
1 TAGGGACACCTACTACAGAGAC
27097975 TAGGGACACCTACTACAGAGAC
1 TAGGGACACCTACTACAGAGAC
27097997 T
1 T
27097998 GAGTCCTAGT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.36, C:0.27, G:0.22, T:0.16
Consensus pattern (22 bp):
TAGGGACACCTACTACAGAGAC
Found at i:27101120 original size:80 final size:80
Alignment explanation
Indices: 27100976--27101123 Score: 188
Period size: 80 Copynumber: 1.9 Consensus size: 80
27100966 GGTTTGTTAG
* * * * * ** **
27100976 CCGAGTTGCAAGTTAAGCTAACTTGGATTGATCAGATTCGGGGTAAATAATTGTTGGATGACTCT
1 CCGAGTTGCAAGTTAAGCTAACATAGATTGATCAAATTCGAGGTAAATAATTATTAAAAAACTCT
27101041 CTGGTTGTTCGGGTT
66 CTGGTTGTTCGGGTT
* * *
27101056 CCGAGTTGCAAGTTAAGTTGACATAGATTGATCAAATTTGAGGTAAATAATTATTAAAAAACTCT
1 CCGAGTTGCAAGTTAAGCTAACATAGATTGATCAAATTCGAGGTAAATAATTATTAAAAAACTCT
27101121 CTG
66 CTG
27101124 ATTCTTCGAG
Statistics
Matches: 56, Mismatches: 12, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
80 56 1.00
ACGTcount: A:0.30, C:0.13, G:0.24, T:0.34
Consensus pattern (80 bp):
CCGAGTTGCAAGTTAAGCTAACATAGATTGATCAAATTCGAGGTAAATAATTATTAAAAAACTCT
CTGGTTGTTCGGGTT
Found at i:27105855 original size:50 final size:50
Alignment explanation
Indices: 27105757--27105862 Score: 124
Period size: 50 Copynumber: 2.1 Consensus size: 50
27105747 TATTAAGGTT
* * *
27105757 ATGAGAGGTCCCACATAAGACCATGTCTGGGACATGGCGGTGGTACCGAG
1 ATGAGAGGTCCCACATAAAACCATGTCTGGGACATAGCGGTGGCACCGAG
* * * * *
27105807 ATGAGAGGTCCCCCGTAAAACCGTGTCTGGGACATAGC-ATGGGCACCGAT
1 ATGAGAGGTCCCACATAAAACCATGTCTGGGACATAGCGGT-GGCACCGAG
27105857 ATGAGA
1 ATGAGA
27105863 ACTCTCATGT
Statistics
Matches: 47, Mismatches: 8, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
49 1 0.02
50 46 0.98
ACGTcount: A:0.27, C:0.23, G:0.32, T:0.18
Consensus pattern (50 bp):
ATGAGAGGTCCCACATAAAACCATGTCTGGGACATAGCGGTGGCACCGAG
Found at i:27108018 original size:173 final size:173
Alignment explanation
Indices: 27107729--27108077 Score: 698
Period size: 173 Copynumber: 2.0 Consensus size: 173
27107719 CTGTTAGACC
27107729 TCTACCCCCTCATGATTCTCCGATCCCTTATGTAGCTCCTCCAGTCACAGGTACAGTTATAAGAG
1 TCTACCCCCTCATGATTCTCCGATCCCTTATGTAGCTCCTCCAGTCACAGGTACAGTTATAAGAG
27107794 AAAGGCCACCAGTTGATAAGATCAGAAAACAAGGGGCTGAAGATTTTTGGGCTACTAAAGATGAT
66 AAAGGCCACCAGTTGATAAGATCAGAAAACAAGGGGCTGAAGATTTTTGGGCTACTAAAGATGAT
27107859 GATGCAGAGAGAGCAGAATTTTGGCTCGAGAATACTATCAGAG
131 GATGCAGAGAGAGCAGAATTTTGGCTCGAGAATACTATCAGAG
27107902 TCTACCCCCTCATGATTCTCCGATCCCTTATGTAGCTCCTCCAGTCACAGGTACAGTTATAAGAG
1 TCTACCCCCTCATGATTCTCCGATCCCTTATGTAGCTCCTCCAGTCACAGGTACAGTTATAAGAG
27107967 AAAGGCCACCAGTTGATAAGATCAGAAAACAAGGGGCTGAAGATTTTTGGGCTACTAAAGATGAT
66 AAAGGCCACCAGTTGATAAGATCAGAAAACAAGGGGCTGAAGATTTTTGGGCTACTAAAGATGAT
27108032 GATGCAGAGAGAGCAGAATTTTGGCTCGAGAATACTATCAGAG
131 GATGCAGAGAGAGCAGAATTTTGGCTCGAGAATACTATCAGAG
27108075 TCT
1 TCT
27108078 TTGATGAGTT
Statistics
Matches: 176, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
173 176 1.00
ACGTcount: A:0.32, C:0.21, G:0.23, T:0.25
Consensus pattern (173 bp):
TCTACCCCCTCATGATTCTCCGATCCCTTATGTAGCTCCTCCAGTCACAGGTACAGTTATAAGAG
AAAGGCCACCAGTTGATAAGATCAGAAAACAAGGGGCTGAAGATTTTTGGGCTACTAAAGATGAT
GATGCAGAGAGAGCAGAATTTTGGCTCGAGAATACTATCAGAG
Found at i:27113772 original size:21 final size:21
Alignment explanation
Indices: 27113754--27113804 Score: 59
Period size: 21 Copynumber: 2.4 Consensus size: 21
27113744 TACTAATATT
*
27113754 AACACTAATAATGATAATAAA
1 AACAATAATAATGATAATAAA
27113775 AACAATAATAAT-ATGAATAATA
1 AACAATAATAATGAT-AATAA-A
*
27113797 ACCAATAA
1 AACAATAA
27113805 ACAAAACTAA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
20 2 0.08
21 16 0.62
22 8 0.31
ACGTcount: A:0.63, C:0.10, G:0.04, T:0.24
Consensus pattern (21 bp):
AACAATAATAATGATAATAAA
Found at i:27114110 original size:12 final size:12
Alignment explanation
Indices: 27114093--27114122 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
27114083 GACTCATGGA
27114093 GAAAGGAGATGT
1 GAAAGGAGATGT
*
27114105 GAAAGGTGATGT
1 GAAAGGAGATGT
27114117 GAAAGG
1 GAAAGG
27114123 GAGACAGAGG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.40, C:0.00, G:0.43, T:0.17
Consensus pattern (12 bp):
GAAAGGAGATGT
Found at i:27124763 original size:61 final size:61
Alignment explanation
Indices: 27124688--27124808 Score: 233
Period size: 61 Copynumber: 2.0 Consensus size: 61
27124678 TCTTAATCTT
*
27124688 CAAGCCTCCATGGTTGGTTTCATGTGAAAGAATACTCTTGAATTAGAATTTGATGTGATAA
1 CAAGCCTCCATGGTTGGTTTCATGTGAAAGAATACTCTTGAATTAAAATTTGATGTGATAA
27124749 CAAGCCTCCATGGTTGGTTTCATGTGAAAGAATACTCTTGAATTAAAATTTGATGTGATA
1 CAAGCCTCCATGGTTGGTTTCATGTGAAAGAATACTCTTGAATTAAAATTTGATGTGATA
27124809 TCTCACATTT
Statistics
Matches: 59, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
61 59 1.00
ACGTcount: A:0.31, C:0.13, G:0.21, T:0.35
Consensus pattern (61 bp):
CAAGCCTCCATGGTTGGTTTCATGTGAAAGAATACTCTTGAATTAAAATTTGATGTGATAA
Found at i:27124775 original size:30 final size:29
Alignment explanation
Indices: 27124688--27124777 Score: 74
Period size: 30 Copynumber: 3.0 Consensus size: 29
27124678 TCTTAATCTT
27124688 CAAGCCTCCATGGTTGGTTTCATGTGAAA
1 CAAGCCTCCATGGTTGGTTTCATGTGAAA
* ** * * * *
27124717 GAATACT-CTTGAATTAGAATTTGATGTGATAA
1 CAAGCCTCCATG-GTT-G-GTTTCATGTGA-AA
27124749 CAAGCCTCCATGGTTGGTTTCATGTGAAA
1 CAAGCCTCCATGGTTGGTTTCATGTGAAA
27124778 GAATACTCTT
Statistics
Matches: 42, Mismatches: 14, Indels: 10
0.64 0.21 0.15
Matches are distributed among these distances:
28 3 0.07
29 8 0.19
30 10 0.24
31 10 0.24
32 8 0.19
33 3 0.07
ACGTcount: A:0.29, C:0.16, G:0.22, T:0.33
Consensus pattern (29 bp):
CAAGCCTCCATGGTTGGTTTCATGTGAAA
Found at i:27127115 original size:24 final size:24
Alignment explanation
Indices: 27127070--27127117 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
27127060 TTTTATTTAT
**
27127070 ATAAAACTATAATTTGGACTAATA
1 ATAAAACTATAATTTACACTAATA
* *
27127094 ATAAAGCTATAATTTACTCTAATA
1 ATAAAACTATAATTTACACTAATA
27127118 TGATCTTATA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.48, C:0.10, G:0.06, T:0.35
Consensus pattern (24 bp):
ATAAAACTATAATTTACACTAATA
Found at i:27155755 original size:20 final size:21
Alignment explanation
Indices: 27155727--27155765 Score: 71
Period size: 20 Copynumber: 1.9 Consensus size: 21
27155717 AAGTATTTTT
27155727 ATTATTTTTTAATATTTTACA
1 ATTATTTTTTAATATTTTACA
27155748 ATTA-TTTTTAATATTTTA
1 ATTATTTTTTAATATTTTA
27155766 TAAATTTTAT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 14 0.78
21 4 0.22
ACGTcount: A:0.33, C:0.03, G:0.00, T:0.64
Consensus pattern (21 bp):
ATTATTTTTTAATATTTTACA
Found at i:27155771 original size:21 final size:21
Alignment explanation
Indices: 27155727--27155771 Score: 65
Period size: 20 Copynumber: 2.1 Consensus size: 21
27155717 AAGTATTTTT
*
27155727 ATTATTTTTTAATATTTTACA
1 ATTATTTTTTAATATTTTAAA
27155748 ATTA-TTTTTAATATTTTATAA
1 ATTATTTTTTAATATTTTA-AA
27155769 ATT
1 ATT
27155772 TTATAAATTT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 14 0.64
21 8 0.36
ACGTcount: A:0.36, C:0.02, G:0.00, T:0.62
Consensus pattern (21 bp):
ATTATTTTTTAATATTTTAAA
Found at i:27155999 original size:21 final size:22
Alignment explanation
Indices: 27155975--27156017 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
27155965 ACATTTCGTT
27155975 TAGTGAA-TAAATAAAATTTAA
1 TAGTGAAGTAAATAAAATTTAA
* *
27155996 TAGTGAAGTAATTAGAATTTAA
1 TAGTGAAGTAAATAAAATTTAA
27156018 AATTCACCTA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
21 7 0.37
22 12 0.63
ACGTcount: A:0.51, C:0.00, G:0.14, T:0.35
Consensus pattern (22 bp):
TAGTGAAGTAAATAAAATTTAA
Found at i:27162885 original size:27 final size:27
Alignment explanation
Indices: 27162846--27163390 Score: 449
Period size: 27 Copynumber: 20.2 Consensus size: 27
27162836 GTAATGGGAC
*
27162846 TAAAATGACCGAAATACCCCCGAAGGG
1 TAAAATGATCGAAATACCCCCGAAGGG
*
27162873 TAAAATGATCGAAATACCCTCGAAGGG
1 TAAAATGATCGAAATACCCCCGAAGGG
* *
27162900 TAAAATGATTGAAATACCCTCGAAGGG
1 TAAAATGATCGAAATACCCCCGAAGGG
** * * **
27162927 TAAAATGGCCGAAATATCGCTAAAGGG
1 TAAAATGATCGAAATACCCCCGAAGGG
27162954 TAAAATGATCGAAATACCCCCGAAGGG
1 TAAAATGATCGAAATACCCCCGAAGGG
* *
27162981 TAAAATGACCAAAATACCCCCGAAGGG
1 TAAAATGATCGAAATACCCCCGAAGGG
* * * ** *
27163008 TATAATTATCGAAATGCCCTTGAAGGA
1 TAAAATGATCGAAATACCCCCGAAGGG
* * ***
27163035 TAAAATGACCGAAATATCCTTAAAGGG
1 TAAAATGATCGAAATACCCCCGAAGGG
* ** *
27163062 TAAAATGATCGAAATACTCTTGAATGG
1 TAAAATGATCGAAATACCCCCGAAGGG
*
27163089 TAAAATGATCGAAATA-CCCTGAAGGG
1 TAAAATGATCGAAATACCCCCGAAGGG
* * *
27163115 TAAATTGACCGAAAGACCCCCGAAGGG
1 TAAAATGATCGAAATACCCCCGAAGGG
* * **
27163142 TAAAACT-ATCAAAATAACCCTAAAGGG
1 TAAAA-TGATCGAAATACCCCCGAAGGG
* * *
27163169 TAAAATGA-CTAAAATACCCTCAAAGGG
1 TAAAATGATC-GAAATACCCCCGAAGGG
* **
27163196 TAAAATGATCAAAATACCCTTGAAGGG
1 TAAAATGATCGAAATACCCCCGAAGGG
*
27163223 TAAAATGA-CTAAAGTA-CCCCGAAGGG
1 TAAAATGATCGAAA-TACCCCCGAAGGG
* * * *
27163249 TAAAATGATCAAAATACCCCCAAAAGA
1 TAAAATGATCGAAATACCCCCGAAGGG
* * *
27163276 TAAAATTA-CTGAAATACCCCTGAAGGA
1 TAAAATGATC-GAAATACCCCCGAAGGG
* **
27163303 TAAAATTATCGAAATACCCCTAAAGGG
1 TAAAATGATCGAAATACCCCCGAAGGG
* ***
27163330 TAAAATTATCGAAAT-CTCCTTAAAGGG
1 TAAAATGATCGAAATAC-CCCCGAAGGG
* *
27163357 TAAAATTA-CTAAAATACCCCCGAAGGGG
1 TAAAATGATC-GAAATACCCCCGAA-GGG
27163385 TAAAAT
1 TAAAAT
27163391 TACCGACATA
Statistics
Matches: 427, Mismatches: 77, Indels: 27
0.80 0.15 0.05
Matches are distributed among these distances:
26 47 0.11
27 367 0.86
28 13 0.03
ACGTcount: A:0.43, C:0.18, G:0.19, T:0.20
Consensus pattern (27 bp):
TAAAATGATCGAAATACCCCCGAAGGG
Found at i:27163858 original size:28 final size:28
Alignment explanation
Indices: 27163818--27163904 Score: 104
Period size: 28 Copynumber: 3.1 Consensus size: 28
27163808 ACTGTAATGT
* *
27163818 TACTGTATTGGGTTGAGGCCCACACTGA
1 TACTATATTGGGTTAAGGCCCACACTGA
* *
27163846 TACTATATTGGGTTAAGTCCCACAGTGA
1 TACTATATTGGGTTAAGGCCCACACTGA
* * *
27163874 TACTAAATTGGGCTAAGGCCCTCACTG-
1 TACTATATTGGGTTAAGGCCCACACTGA
27163901 TACT
1 TACT
27163905 GTCACTGAAT
Statistics
Matches: 50, Mismatches: 9, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
27 4 0.08
28 46 0.92
ACGTcount: A:0.25, C:0.22, G:0.23, T:0.30
Consensus pattern (28 bp):
TACTATATTGGGTTAAGGCCCACACTGA
Found at i:27170901 original size:27 final size:26
Alignment explanation
Indices: 27170863--27171353 Score: 426
Period size: 27 Copynumber: 18.3 Consensus size: 26
27170853 GTATTGGGCC
*
27170863 TAAAATGTCCGAAATACCTCCGAAGGG
1 TAAAATGACCGAAATACC-CCGAAGGG
*
27170890 TAAAATGACCGAAATACCCTCGAAGAG
1 TAAAATGACCGAAATACCC-CGAAGGG
* * * * *
27170917 TAAAATTACCAAAATGCCCTTGAAAGG
1 TAAAATGACCGAAATACCC-CGAAGGG
* *
27170944 TAAAATGATCGAAATACACTCGAAGGG
1 TAAAATGACCGAAATAC-CCCGAAGGG
* *
27170971 TAAAATGATCGAAATACCTTCGAAGGG
1 TAAAATGACCGAAATACC-CCGAAGGG
**
27170998 TAAAATGACCGAAATACCTTGAAGGG
1 TAAAATGACCGAAATACCCCGAAGGG
27171024 TAAAATGACCGAAATACCCTCGAAGGG
1 TAAAATGACCGAAATACCC-CGAAGGG
* * ** *
27171051 TAAAATGTCTGAAATATCCTTGAAAGG
1 TAAAATGACCGAAATA-CCCCGAAGGG
* * *
27171078 TAAAATTACCAAAATACCCTCGAAGGT
1 TAAAATGACCGAAATACCC-CGAAGGG
27171105 TAAAATGACCGAAATACCCTCGAAGGG
1 TAAAATGACCGAAATACCC-CGAAGGG
**
27171132 TAAAATGATTGAAATACCCTCGAAGGG
1 TAAAATGACCGAAATACCC-CGAAGGG
**
27171159 TAAAATGACTAAAATA-CCCGAAGGG
1 TAAAATGACCGAAATACCCCGAAGGG
* *
27171184 TAAAATGACCAAAATACCCCTGAATGG
1 TAAAATGACCGAAATACCCC-GAAGGG
* * **
27171211 TAAAATTACCAAAATATCCCTAAAGGG
1 TAAAATGACCGAAATA-CCCCGAAGGG
* * * * *
27171238 TAAAATTATCAAAATATCTCTGAAGGG
1 TAAAATGACCGAAATA-CCCCGAAGGG
* * *
27171265 TAAAATTACCAAAATACCCTTGAAGGG
1 TAAAATGACCGAAATACCC-CGAAGGG
* * *
27171292 TAAAATTACCGAAATACCCTCTAAGGA
1 TAAAATGACCGAAATACCC-CGAAGGG
* *
27171319 TAAAATTACCGAAATACCCCCATAGGG
1 TAAAATGACCGAAATACCCCGA-AGGG
*
27171346 TGAAATGA
1 TAAAATGA
27171354 TCTTTATACC
Statistics
Matches: 395, Mismatches: 58, Indels: 22
0.83 0.12 0.05
Matches are distributed among these distances:
25 22 0.06
26 38 0.10
27 329 0.83
28 6 0.02
ACGTcount: A:0.43, C:0.18, G:0.18, T:0.21
Consensus pattern (26 bp):
TAAAATGACCGAAATACCCCGAAGGG
Found at i:27171334 original size:81 final size:80
Alignment explanation
Indices: 27170863--27171337 Score: 553
Period size: 81 Copynumber: 5.9 Consensus size: 80
27170853 GTATTGGGCC
* *
27170863 TAAAATGTCCGAAATA-CCTCCGAAGGGTAAAATGACCGAAATACCCTCGAAGAGTAAAATTACC
1 TAAAATGACCGAAATACCCT-CGAAGGGTAAAATGACCGAAATACCCTCGAAGGGTAAAATTACC
* *
27170927 AAAATGCCCTTGAAAGG
65 AAAATACCC-TGAAGGG
* * * * * *
27170944 TAAAATGATCGAAATACACTCGAAGGGTAAAATGATCGAAATACCTTCGAAGGGTAAAATGACCG
1 TAAAATGACCGAAATACCCTCGAAGGGTAAAATGACCGAAATACCCTCGAAGGGTAAAATTACCA
*
27171009 AAATACCTTGAAGGG
66 AAATACCCTGAAGGG
* * * * *
27171024 TAAAATGACCGAAATACCCTCGAAGGGTAAAATGTCTGAAATATCCTTGAAAGGTAAAATTACCA
1 TAAAATGACCGAAATACCCTCGAAGGGTAAAATGACCGAAATACCCTCGAAGGGTAAAATTACCA
*
27171089 AAATACCCTCGAAGGT
66 AAATACCCT-GAAGGG
** * *
27171105 TAAAATGACCGAAATACCCTCGAAGGGTAAAATGATTGAAATACCCTCGAAGGGTAAAATGACTA
1 TAAAATGACCGAAATACCCTCGAAGGGTAAAATGACCGAAATACCCTCGAAGGGTAAAATTACCA
27171170 AAATACCC-GAAGGG
66 AAATACCCTGAAGGG
* * * * * *
27171184 TAAAATGACCAAAATACCC-CTGAATGGTAAAATTACCAAAATATCCCT-AAAGGGTAAAATTAT
1 TAAAATGACCGAAATACCCTC-GAAGGGTAAAATGACCGAAATA-CCCTCGAAGGGTAAAATTAC
*
27171247 CAAAATATCTCTGAAGGG
64 CAAAATA-CCCTGAAGGG
* * * * * * *
27171265 TAAAATTACCAAAATACCCTTGAAGGGTAAAATTACCGAAATACCCTCTAAGGATAAAATTACCG
1 TAAAATGACCGAAATACCCTCGAAGGGTAAAATGACCGAAATACCCTCGAAGGGTAAAATTACCA
27171330 AAATACCC
66 AAATACCC
27171338 CCATAGGGTG
Statistics
Matches: 334, Mismatches: 52, Indels: 17
0.83 0.13 0.04
Matches are distributed among these distances:
78 1 0.00
79 58 0.17
80 80 0.24
81 193 0.58
82 2 0.01
ACGTcount: A:0.43, C:0.19, G:0.17, T:0.21
Consensus pattern (80 bp):
TAAAATGACCGAAATACCCTCGAAGGGTAAAATGACCGAAATACCCTCGAAGGGTAAAATTACCA
AAATACCCTGAAGGG
Found at i:27175064 original size:20 final size:21
Alignment explanation
Indices: 27175028--27175066 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
27175018 TTAGTATCAT
27175028 TTTTAAGAAAGGTATCGATTA
1 TTTTAAGAAAGGTATCGATTA
*
27175049 TTTTCAGAAA-GTATCGAT
1 TTTTAAGAAAGGTATCGAT
27175067 ACCAAAAAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 8 0.47
21 9 0.53
ACGTcount: A:0.36, C:0.08, G:0.18, T:0.38
Consensus pattern (21 bp):
TTTTAAGAAAGGTATCGATTA
Found at i:27175269 original size:20 final size:21
Alignment explanation
Indices: 27175212--27175299 Score: 80
Period size: 20 Copynumber: 4.4 Consensus size: 21
27175202 AGCAATTCTG
* *
27175212 ACTTGTTTGAAAATCATTTTG
1 ACTTGATTGAAAATCATTTTC
* *
27175233 A-TGTG-TT-AAAATGATTTTA
1 ACT-TGATTGAAAATCATTTTC
27175252 ACTTGATTG-AAATCATTTTC
1 ACTTGATTGAAAATCATTTTC
27175272 ACTTGGA--GAAAATCATTTTC
1 ACTT-GATTGAAAATCATTTTC
27175292 ACTTGATT
1 ACTTGATT
27175300 TTAAAATTGT
Statistics
Matches: 55, Mismatches: 4, Indels: 16
0.73 0.05 0.21
Matches are distributed among these distances:
19 16 0.29
20 34 0.62
21 5 0.09
ACGTcount: A:0.32, C:0.10, G:0.14, T:0.44
Consensus pattern (21 bp):
ACTTGATTGAAAATCATTTTC
Found at i:27177118 original size:40 final size:40
Alignment explanation
Indices: 27177057--27177150 Score: 109
Period size: 40 Copynumber: 2.3 Consensus size: 40
27177047 CTTTAAATGT
*
27177057 AAGGGTTGCTAAGTGCAGATTCCCCGAATCATTGATGAAA
1 AAGGGTTGCTAAGCGCAGATTCCCCGAATCATTGATGAAA
* * * *
27177097 AAGGGTTGCTATGCGTC-GATTCCCCGTATCATTGATTATA
1 AAGGGTTGCTAAGCG-CAGATTCCCCGAATCATTGATGAAA
*
27177137 AGGTGGTTGCTAAG
1 AAG-GGTTGCTAAG
27177151 TGCTAATTCC
Statistics
Matches: 45, Mismatches: 7, Indels: 3
0.82 0.13 0.05
Matches are distributed among these distances:
40 35 0.78
41 10 0.22
ACGTcount: A:0.27, C:0.17, G:0.27, T:0.30
Consensus pattern (40 bp):
AAGGGTTGCTAAGCGCAGATTCCCCGAATCATTGATGAAA
Found at i:27177316 original size:83 final size:84
Alignment explanation
Indices: 27177060--27177415 Score: 506
Period size: 84 Copynumber: 4.3 Consensus size: 84
27177050 TAAATGTAAG
* ** * * * *
27177060 GGTTGCTAAGTGCAGATTCC-CCGAATCATTGATGA-AAAA-GGGTTGCTATGCG-TCGATTCCC
1 GGTTGCTAAGTGCTGATTCCACCGTGTCCTTGATTATAAAAGGGGTTGTTATGTGCT-GATTCCC
27177121 CGTATCATTGATTATAAGGT
65 CGTATCATTGATTATAAGGT
* * * *
27177141 GGTTGCTAAGTGCTAATTCCACCATGTCCTTGATTGTAAAAGGGGTTGTGATGTGCTGATTCCCC
1 GGTTGCTAAGTGCTGATTCCACCGTGTCCTTGATTATAAAAGGGGTTGTTATGTGCTGATTCCCC
27177206 GTATCATTGATTATAAGGT
66 GTATCATTGATTATAAGGT
*
27177225 GGTTGCTAAGTGCTGATTCCACCGTGTACTTGATT-TAAAAGGGGTTGTTATGTGCTGATTCCCC
1 GGTTGCTAAGTGCTGATTCCACCGTGTCCTTGATTATAAAAGGGGTTGTTATGTGCTGATTCCCC
27177289 GTATCATTGATTATAAGGT
66 GTATCATTGATTATAAGGT
* * * *
27177308 GGTTGCTAAGTGCTGATTCCACTGTATCCTTGATTATGAAAGGGGTTGCTATGTGCTGATTCCCC
1 GGTTGCTAAGTGCTGATTCCACCGTGTCCTTGATTATAAAAGGGGTTGTTATGTGCTGATTCCCC
* *
27177373 GTATTATTGGTTATAAGGT
66 GTATCATTGATTATAAGGT
27177392 GGTTGCTAAGTGCTGATTCCACCG
1 GGTTGCTAAGTGCTGATTCCACCG
27177416 GGATCCTTTG
Statistics
Matches: 247, Mismatches: 23, Indels: 7
0.89 0.08 0.03
Matches are distributed among these distances:
81 18 0.07
82 9 0.04
83 83 0.34
84 136 0.55
85 1 0.00
ACGTcount: A:0.22, C:0.17, G:0.26, T:0.35
Consensus pattern (84 bp):
GGTTGCTAAGTGCTGATTCCACCGTGTCCTTGATTATAAAAGGGGTTGTTATGTGCTGATTCCCC
GTATCATTGATTATAAGGT
Found at i:27177390 original size:167 final size:167
Alignment explanation
Indices: 27177114--27177415 Score: 516
Period size: 167 Copynumber: 1.8 Consensus size: 167
27177104 GCTATGCGTC
* *
27177114 GATTCCCCGTATCATTGATTATAAGGTGGTTGCTAAGTGCTAATTCCACCATGTCCTTGATTGTA
1 GATTCCCCGTATCATTGATTATAAGGTGGTTGCTAAGTGCTAATTCCACCATATCCTTGATTATA
27177179 AAAGGGGTTGTGATGTGCTGATTCCCCGTATCATTGATTATAAGGTGGTTGCTAAGTGCTGATTC
66 AAAGGGGTTGTGATGTGCTGATTCCCCGTATCATTGATTATAAGGTGGTTGCTAAGTGCTGATTC
27177244 CACCGTGTACTTGATTTAAAAGGGGTTGTTATGTGCT
131 CACCGTGTACTTGATTTAAAAGGGGTTGTTATGTGCT
* ** *
27177281 GATTCCCCGTATCATTGATTATAAGGTGGTTGCTAAGTGCTGATTCCACTGTATCCTTGATTATG
1 GATTCCCCGTATCATTGATTATAAGGTGGTTGCTAAGTGCTAATTCCACCATATCCTTGATTATA
* *
27177346 AAAGGGGTTGCT-ATGTGCTGATTCCCCGTATTATTGGTTATAAGGTGGTTGCTAAGTGCTGATT
66 AAAGGGGTTG-TGATGTGCTGATTCCCCGTATCATTGATTATAAGGTGGTTGCTAAGTGCTGATT
27177410 CCACCG
130 CCACCG
27177416 GGATCCTTTG
Statistics
Matches: 126, Mismatches: 8, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
167 125 0.99
168 1 0.01
ACGTcount: A:0.22, C:0.17, G:0.25, T:0.36
Consensus pattern (167 bp):
GATTCCCCGTATCATTGATTATAAGGTGGTTGCTAAGTGCTAATTCCACCATATCCTTGATTATA
AAAGGGGTTGTGATGTGCTGATTCCCCGTATCATTGATTATAAGGTGGTTGCTAAGTGCTGATTC
CACCGTGTACTTGATTTAAAAGGGGTTGTTATGTGCT
Found at i:27177442 original size:44 final size:44
Alignment explanation
Indices: 27177128--27177459 Score: 247
Period size: 41 Copynumber: 7.8 Consensus size: 44
27177118 CCCCGTATCA
* * * *
27177128 TTGATTATAAGGTGGTTGCTAAGTGCTAATTCCACC-ATGTCC-
1 TTGATTATGAGGTGGTTGCTAAGTGCTGATTCCACCGGTATCCT
** * *
27177170 TTGATTGTAAAAGG-GGTTG-TGATGTGCTGATTCC-CC-GTAT-CA
1 TTGA-T-TATGAGGTGGTTGCT-AAGTGCTGATTCCACCGGTATCCT
*
27177212 TTGATTATAAGGTGGTTGCTAAGTGCTGATTCCACCGTGTA--C-
1 TTGATTATGAGGTGGTTGCTAAGTGCTGATTCCACCG-GTATCCT
** * * *
27177254 TTGATTTAAAAGG-GGTTGTTATGTGCTGATTCC-CC-GTAT-CA
1 TTGA-TTATGAGGTGGTTGCTAAGTGCTGATTCCACCGGTATCCT
* *
27177295 TTGATTATAAGGTGGTTGCTAAGTGCTGATTCCA-CTGTATCC-
1 TTGATTATGAGGTGGTTGCTAAGTGCTGATTCCACCGGTATCCT
*
27177337 TTGATTATGAAAGG-GGTTGCTATGTGCTGATTCC-CC-GTAT--T
1 TTGATTATG--AGGTGGTTGCTAAGTGCTGATTCCACCGGTATCCT
* * *
27177378 ATTGGTTATAAGGTGGTTGCTAAGTGCTGATTCCACCGGGATCCT
1 -TTGATTATGAGGTGGTTGCTAAGTGCTGATTCCACCGGTATCCT
**
27177423 TTGAACATGAGGTGGTTGCTAAGTGCTGATTCCACCG
1 TTGATTATGAGGTGGTTGCTAAGTGCTGATTCCACCG
27177460 TGTAACGGTT
Statistics
Matches: 241, Mismatches: 23, Indels: 50
0.77 0.07 0.16
Matches are distributed among these distances:
39 3 0.01
40 17 0.07
41 63 0.26
42 63 0.26
43 49 0.20
44 45 0.19
45 1 0.00
ACGTcount: A:0.21, C:0.17, G:0.26, T:0.36
Consensus pattern (44 bp):
TTGATTATGAGGTGGTTGCTAAGTGCTGATTCCACCGGTATCCT
Found at i:27183031 original size:19 final size:20
Alignment explanation
Indices: 27182998--27183035 Score: 69
Period size: 19 Copynumber: 1.9 Consensus size: 20
27182988 ATTCTACTAC
27182998 TAAATTTCTTTTTTTAAAAT
1 TAAATTTCTTTTTTTAAAAT
27183018 TAAATTTC-TTTTTTAAAA
1 TAAATTTCTTTTTTTAAAA
27183036 ACTCGATAAG
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 10 0.56
20 8 0.44
ACGTcount: A:0.37, C:0.05, G:0.00, T:0.58
Consensus pattern (20 bp):
TAAATTTCTTTTTTTAAAAT
Done.