Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167938.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_20, whole genome shotgun sequence
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: 19866354
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 74000 characters in sequence are not A, C, G, or T
File 32 of 100
Found at i:8929804 original size:21 final size:21
Alignment explanation
Indices: 8929775--8929818 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
8929765 TTTTTATAAG
*
8929775 ATGATACACAT-GAATTAATTT
1 ATGACACACATAG-ATTAATTT
8929796 ATGACACACATAGATTAATTT
1 ATGACACACATAGATTAATTT
8929817 AT
1 AT
8929819 AATGCTATTG
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 20 0.95
22 1 0.05
ACGTcount: A:0.43, C:0.11, G:0.09, T:0.36
Consensus pattern (21 bp):
ATGACACACATAGATTAATTT
Found at i:8930166 original size:23 final size:21
Alignment explanation
Indices: 8930140--8930182 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
8930130 ACTTATTTTT
8930140 TTATGTTATATCTTTTTCATTAC
1 TTATGTTA-AT-TTTTTCATTAC
* *
8930163 TTATTTTAATTTTTTTATTA
1 TTATGTTAATTTTTTCATTA
8930183 ATCACCTAAT
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
21 9 0.50
22 2 0.11
23 7 0.39
ACGTcount: A:0.23, C:0.07, G:0.02, T:0.67
Consensus pattern (21 bp):
TTATGTTAATTTTTTCATTAC
Found at i:8931215 original size:12 final size:12
Alignment explanation
Indices: 8931198--8931231 Score: 59
Period size: 12 Copynumber: 2.8 Consensus size: 12
8931188 TGTGCATGGA
8931198 CTAAAACAGACT
1 CTAAAACAGACT
*
8931210 CTAAAATAGACT
1 CTAAAACAGACT
8931222 CTAAAACAGA
1 CTAAAACAGA
8931232 TATGAAACAT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.53, C:0.21, G:0.09, T:0.18
Consensus pattern (12 bp):
CTAAAACAGACT
Found at i:8931669 original size:86 final size:87
Alignment explanation
Indices: 8931517--8931678 Score: 256
Period size: 86 Copynumber: 1.9 Consensus size: 87
8931507 ATATAAACAC
* *
8931517 ATTTGCTTCTTATATCTTGAAAAGCTTAAACCTTCTAAAAAAAAATCATCTTGTCAATATTGCAG
1 ATTTGCTTCTTATATCTTGAAAAGCTTAAACCTTCTAAAAAAAAATCATCTTGTCAATACTACAG
8931582 TCAACAATCACTTATAAAATAT
66 TCAACAATCACTTATAAAATAT
* * *
8931604 ATTTGCTTCTTATATCTT-AGGAAGTTTAAACCTTCT-AAAAAAAATCATCTTTTCAATACTACA
1 ATTTGCTTCTTATATCTTGA-AAAGCTTAAACCTTCTAAAAAAAAATCATCTTGTCAATACTACA
8931667 GTCAACAATCAC
65 GTCAACAATCAC
8931679 ATAGCAACAT
Statistics
Matches: 69, Mismatches: 5, Indels: 3
0.90 0.06 0.04
Matches are distributed among these distances:
86 37 0.54
87 32 0.46
ACGTcount: A:0.39, C:0.19, G:0.07, T:0.36
Consensus pattern (87 bp):
ATTTGCTTCTTATATCTTGAAAAGCTTAAACCTTCTAAAAAAAAATCATCTTGTCAATACTACAG
TCAACAATCACTTATAAAATAT
Found at i:8936620 original size:27 final size:27
Alignment explanation
Indices: 8936542--8936630 Score: 65
Period size: 27 Copynumber: 3.3 Consensus size: 27
8936532 CCTTTATACA
* *
8936542 AAAAAATTAATACTTTCAACTTTTCCTT
1 AAAAAATTGATACTTTCAACTTTT-TTT
** * *
8936570 AAAGCATTTTGA-AATTTTAA-TTTTTTT
1 AAA--AAATTGATACTTTCAACTTTTTTT
*
8936597 AAAAAATTGATACTTTCAACTTTTTCT
1 AAAAAATTGATACTTTCAACTTTTTTT
*
8936624 CAAAAAT
1 AAAAAAT
8936631 ACCTTTTTTA
Statistics
Matches: 45, Mismatches: 12, Indels: 9
0.68 0.18 0.14
Matches are distributed among these distances:
25 5 0.11
26 6 0.13
27 17 0.38
28 7 0.16
29 6 0.13
30 4 0.09
ACGTcount: A:0.39, C:0.12, G:0.03, T:0.45
Consensus pattern (27 bp):
AAAAAATTGATACTTTCAACTTTTTTT
Found at i:8936675 original size:59 final size:58
Alignment explanation
Indices: 8936597--8936863 Score: 299
Period size: 59 Copynumber: 4.6 Consensus size: 58
8936587 TAATTTTTTT
8936597 AAAAAATTGATACTTTCAACTTTTTCTCAAAAATACCTTTTTTAAAAATTTTATTTTCA
1 AAAAAATTGATACTTTCAACTTTTTCTCAAAAATACC-TTTTTAAAAATTTTATTTTCA
* * * ** *
8936656 AAAAAATTCATACTTTCAACTTTTTTTTCAAATATACCTTTTTTGAAATTTTCATTTTTA
1 AAAAAATTGATACTTTCAAC-TTTTTCTCAAAAATACCTTTTTAAAAATTTT-ATTTTCA
* * * ** *
8936716 AGAAAAATTGATATTTTTAACTTTTCCTC-AAAATTGCTTTTTAAAATTTTTATTTTCA
1 A-AAAAATTGATACTTTCAACTTTTTCTCAAAAATACCTTTTTAAAAATTTTATTTTCA
* * *
8936774 AAAAATATTAATACTTTCAACTTTTTCTCAAAAATACC-TTTTGAAAA-TTTATCTTCA
1 AAAAA-ATTGATACTTTCAACTTTTTCTCAAAAATACCTTTTTAAAAATTTTATTTTCA
* *
8936831 AGAAAAATTGATGCTTTCAA-TTTTTCTTAAAAA
1 A-AAAAATTGATACTTTCAACTTTTTCTCAAAAA
8936864 AGTTTCTCGA
Statistics
Matches: 172, Mismatches: 30, Indels: 15
0.79 0.14 0.07
Matches are distributed among these distances:
56 12 0.07
57 26 0.15
58 37 0.22
59 53 0.31
60 28 0.16
61 16 0.09
ACGTcount: A:0.37, C:0.13, G:0.03, T:0.46
Consensus pattern (58 bp):
AAAAAATTGATACTTTCAACTTTTTCTCAAAAATACCTTTTTAAAAATTTTATTTTCA
Found at i:8936771 original size:58 final size:57
Alignment explanation
Indices: 8936540--8936862 Score: 289
Period size: 60 Copynumber: 5.6 Consensus size: 57
8936530 TGCCTTTATA
* ** * * * *
8936540 CAAAAAAATTAATACTTTCAAC-TTTTC-CTTAA-AGCATTTTGAAATTTTAATTTTT
1 CAAAAAAATTGATACTTTCAACTTTTTCTCAAAATACCTTTTTAAAATTTTTA-TTTT
** *
8936595 TTAAAAAATTGATACTTTCAACTTTTTCTCAAAAATACCTTTTTTAAAAATTTTATTTT
1 CAAAAAAATTGATACTTTCAACTTTTTCTC-AAAATACC-TTTTTAAAATTTTTATTTT
* * * *
8936654 CAAAAAAATTCATACTTTCAACTTTTTTTTCAAATATACCTTTTTTGAAATTTTCATTTT
1 CAAAAAAATTGATACTTTCAAC-TTTTTCTCAAA-ATACC-TTTTTAAAATTTTTATTTT
* * * * **
8936714 TAAGAAAAATTGATATTTTTAACTTTTCCTCAAAATTGCTTTTTAAAATTTTTATTTT
1 CAA-AAAAATTGATACTTTCAACTTTTTCTCAAAATACCTTTTTAAAATTTTTATTTT
* * *
8936772 CAAAAAATATTAATACTTTCAACTTTTTCTCAAAAATACCTTTTGAAAA--TTTATCTT
1 CAAAAAA-ATTGATACTTTCAACTTTTTCTC-AAAATACCTTTTTAAAATTTTTATTTT
* *
8936829 CAAGAAAAATTGATGCTTTCAA-TTTTTCTTAAAA
1 CAA-AAAAATTGATACTTTCAACTTTTTCTCAAAA
8936863 AAGTTTCTCG
Statistics
Matches: 218, Mismatches: 39, Indels: 22
0.78 0.14 0.08
Matches are distributed among these distances:
55 23 0.11
56 12 0.06
57 27 0.12
58 44 0.20
59 45 0.21
60 51 0.23
61 16 0.07
ACGTcount: A:0.37, C:0.13, G:0.03, T:0.47
Consensus pattern (57 bp):
CAAAAAAATTGATACTTTCAACTTTTTCTCAAAATACCTTTTTAAAATTTTTATTTT
Found at i:8938351 original size:30 final size:30
Alignment explanation
Indices: 8938315--8938381 Score: 118
Period size: 30 Copynumber: 2.3 Consensus size: 30
8938305 TTGGGTGGTT
8938315 GCTGGTGGGATGGACAACAATAGGGAATTG
1 GCTGGTGGGATGGACAACAATAGGGAATTG
*
8938345 GCTGGTGGTATGGACAACAATAGGGAATTG
1 GCTGGTGGGATGGACAACAATAGGGAATTG
8938375 G-TGGTGG
1 GCTGGTGG
8938382 AAAAGTTGAT
Statistics
Matches: 36, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
29 6 0.17
30 30 0.83
ACGTcount: A:0.27, C:0.09, G:0.42, T:0.22
Consensus pattern (30 bp):
GCTGGTGGGATGGACAACAATAGGGAATTG
Found at i:8939622 original size:2 final size:2
Alignment explanation
Indices: 8939615--8939765 Score: 302
Period size: 2 Copynumber: 75.5 Consensus size: 2
8939605 CGGCGTTCAA
8939615 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
8939657 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
8939699 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
8939741 TG TG TG TG TG TG TG TG TG TG TG TG T
1 TG TG TG TG TG TG TG TG TG TG TG TG T
8939766 AAAATAGATT
Statistics
Matches: 149, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 149 1.00
ACGTcount: A:0.00, C:0.00, G:0.50, T:0.50
Consensus pattern (2 bp):
TG
Found at i:8940375 original size:37 final size:37
Alignment explanation
Indices: 8940334--8940406 Score: 137
Period size: 37 Copynumber: 2.0 Consensus size: 37
8940324 CACTTTTCAT
*
8940334 TTAGTATAAACATTATAATAAAATTAACACTTACATG
1 TTAGTATAAACATTATAATAAAAATAACACTTACATG
8940371 TTAGTATAAACATTATAATAAAAATAACACTTACAT
1 TTAGTATAAACATTATAATAAAAATAACACTTACAT
8940407 ATTAAAAATT
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 35 1.00
ACGTcount: A:0.51, C:0.11, G:0.04, T:0.34
Consensus pattern (37 bp):
TTAGTATAAACATTATAATAAAAATAACACTTACATG
Found at i:8945281 original size:125 final size:125
Alignment explanation
Indices: 8945059--8945308 Score: 455
Period size: 125 Copynumber: 2.0 Consensus size: 125
8945049 TTATTTATTG
* *
8945059 ATAAGGGAAATTACATGGGTCACAATCCAACGGCCCAAAACAAAATTAAAAGGAAAAAAAAAAGC
1 ATAAGGGAAATTACATGGATCACAATCCAAAGGCCCAAAACAAAATTAAAAGGAAAAAAAAAAGC
*
8945124 CAACAATTCATAATTTTGTCAATCCAGGCAAAGTATCTAACAAAGAACACACAGCAAAAT
66 CAACAATTCATAATTTTGTCAATCCAGGCAAAGTACCTAACAAAGAACACACAGCAAAAT
8945184 ATAAGGGAAATTACATGGATCACAATCCAAAGGCCCAAAACAAAATTAAAAGGAAAAAAAAAAGC
1 ATAAGGGAAATTACATGGATCACAATCCAAAGGCCCAAAACAAAATTAAAAGGAAAAAAAAAAGC
* *
8945249 CAACAATTTATAATTTTGTCAATCCATGCAAAGTACCTAACAAAGAACACACAGCAAAAT
66 CAACAATTCATAATTTTGTCAATCCAGGCAAAGTACCTAACAAAGAACACACAGCAAAAT
8945309 TCCCCTTCCT
Statistics
Matches: 120, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
125 120 1.00
ACGTcount: A:0.51, C:0.19, G:0.13, T:0.17
Consensus pattern (125 bp):
ATAAGGGAAATTACATGGATCACAATCCAAAGGCCCAAAACAAAATTAAAAGGAAAAAAAAAAGC
CAACAATTCATAATTTTGTCAATCCAGGCAAAGTACCTAACAAAGAACACACAGCAAAAT
Found at i:8947503 original size:51 final size:51
Alignment explanation
Indices: 8947430--8947528 Score: 189
Period size: 51 Copynumber: 1.9 Consensus size: 51
8947420 TTCACTGTCC
*
8947430 TTTAAGTCAATTGCAATTCGAAGGAGCTCATCATTAAACAAGTGAAAACCT
1 TTTAAGTCAATTGCAATTCGAAGGAGCACATCATTAAACAAGTGAAAACCT
8947481 TTTAAGTCAATTGCAATTCGAAGGAGCACATCATTAAACAAGTGAAAA
1 TTTAAGTCAATTGCAATTCGAAGGAGCACATCATTAAACAAGTGAAAA
8947529 ATATTATTCT
Statistics
Matches: 47, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
51 47 1.00
ACGTcount: A:0.41, C:0.16, G:0.16, T:0.26
Consensus pattern (51 bp):
TTTAAGTCAATTGCAATTCGAAGGAGCACATCATTAAACAAGTGAAAACCT
Found at i:8947589 original size:18 final size:18
Alignment explanation
Indices: 8947566--8947600 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
8947556 CCACAATACA
8947566 ATAGAAATTAATTTAACC
1 ATAGAAATTAATTTAACC
8947584 ATAGAAATTAATTTAAC
1 ATAGAAATTAATTTAAC
8947601 TAGAAGGATG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.51, C:0.09, G:0.06, T:0.34
Consensus pattern (18 bp):
ATAGAAATTAATTTAACC
Found at i:8954366 original size:14 final size:15
Alignment explanation
Indices: 8954338--8954366 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
8954328 TTTATAAAAT
8954338 TTAAAATATTTATTA
1 TTAAAATATTTATTA
8954353 TTAAAATA-TTATTA
1 TTAAAATATTTATTA
8954367 AATATTTAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 6 0.43
15 8 0.57
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (15 bp):
TTAAAATATTTATTA
Found at i:8955296 original size:35 final size:35
Alignment explanation
Indices: 8955245--8955321 Score: 91
Period size: 35 Copynumber: 2.2 Consensus size: 35
8955235 GTTTAATTAT
* * * * **
8955245 ATATGTGAAGTCAGTTGTAAGTTTATGCTTAAAAA
1 ATATTTGAAGTAAGTTGTAAGCTTATACCAAAAAA
*
8955280 ATATTTGAAGTAAGTTGTAGGCTTATACCAAAAAA
1 ATATTTGAAGTAAGTTGTAAGCTTATACCAAAAAA
8955315 ATATTTG
1 ATATTTG
8955322 GTTTATATAT
Statistics
Matches: 35, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
35 35 1.00
ACGTcount: A:0.39, C:0.06, G:0.18, T:0.36
Consensus pattern (35 bp):
ATATTTGAAGTAAGTTGTAAGCTTATACCAAAAAA
Found at i:8960191 original size:26 final size:26
Alignment explanation
Indices: 8960158--8960234 Score: 77
Period size: 26 Copynumber: 3.0 Consensus size: 26
8960148 TCTCGAACAA
8960158 TTTTTAAAAAAATTATTGAAGGTATT
1 TTTTTAAAAAAATTATTGAAGGTATT
* * *
8960184 TTTTTAAAAAAAATACCTTCAA--TAGT
1 TTTTTAAAAAAATTA--TTGAAGGTATT
* *
8960210 TTTGTACAAAAATTATTGAAGGTAT
1 TTTTTAAAAAAATTATTGAAGGTAT
8960235 ATAATGCAAA
Statistics
Matches: 39, Mismatches: 8, Indels: 8
0.71 0.15 0.15
Matches are distributed among these distances:
24 4 0.10
26 31 0.79
28 4 0.10
ACGTcount: A:0.43, C:0.05, G:0.10, T:0.42
Consensus pattern (26 bp):
TTTTTAAAAAAATTATTGAAGGTATT
Found at i:8960392 original size:13 final size:13
Alignment explanation
Indices: 8960367--8960400 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
8960357 GGCTATTATG
*
8960367 CAAAAAATGCCTT
1 CAAAAAATACCTT
*
8960380 CAATAAATACCTT
1 CAAAAAATACCTT
8960393 CAAAAAAT
1 CAAAAAAT
8960401 TATAGCTAAT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.53, C:0.21, G:0.03, T:0.24
Consensus pattern (13 bp):
CAAAAAATACCTT
Found at i:8960414 original size:364 final size:369
Alignment explanation
Indices: 8959739--8960464 Score: 1020
Period size: 364 Copynumber: 2.0 Consensus size: 369
8959729 ACTTTCTTAA
* *
8959739 AATATTGAAGGCATTTTCTACTAAAAGATGCATTTAATAGTCCCAAACAATTTTTATAAGAAAAT
1 AATATTAAAGGCATTTTCTACTAAAAGATGCATTTAATAATCCCAAACAATTTTTATAAGAAAAT
** * * * *
8959804 TATTGAAAGTATTTTTTTCTCAACAAATGCCTTCAATAATTTTGTACAAAAATTGTTAAAGGCGT
66 TATTGAAAGTATTTTTTTCAAAAAAAATACCTTCAATAATTTTGTACAAAAATTATTAAAGGCAT
* ** *
8959869 ATAATGCAAAAAAACACCTTTAATAATTTTCTCTTAAAAATTGGTGTGAATTATTAAAGGCGTCT
131 ATAATGCAAAAAAACACCTTCAATAATTTTCTCTTAAAAATTGGAATGAATTATTAAAGACGTCT
* *
8959934 TTAGTAGAAAATTACCTTCACTAATATTCACTTGATAAAAATGGAGTGAATTATTGAAGGTGTAT
196 TTAGTAAAAAATTACCTTCACTAATATTCACTTAATAAAAATGGAGTGAATTATTGAAGGTGTAT
* *
8959999 TATACAAAAAATACCTTCAATAAATTCTTTCAAAAAATTATAGTGAATTAGTGAAAGCGT-TTTT
261 TATACAAAAAATACCTTCAATAAATACCTTCAAAAAATTATAGTGAATTAGTG-AAG-GTATTTT
* *
8960063 CTAGA-ATAAATGCCTTCAATAATGCCCTTAAAATTTTATTAGTAG
324 CTAGACATAAACGCCTTCAATAATCCCCTTAAAATTTTATTAGTAG
* * * * *
8960108 AATATTAAAGGTATTTTCTATTAAAAGATGCCTTTAATAATCTCGAACAATTTTTA-AA-AAAAT
1 AATATTAAAGGCATTTTCTACTAAAAGATGCATTTAATAATCCCAAACAATTTTTATAAGAAAAT
* * * *
8960171 TATTGAAGGTATTTTTTT-AAAAAAAATACCTTCAATAGTTTTGTACAAAAATTATTGAAGGTAT
66 TATTGAAAGTATTTTTTTCAAAAAAAATACCTTCAATAATTTTGTACAAAAATTATTAAAGGCAT
* * *
8960235 ATAATGC-AAAATATACCTTCAATAATTTTCTCTTAAAAATTGGAATGAATTATTAAAGACGTTT
131 ATAATGCAAAAAAACACCTTCAATAATTTTCTCTTAAAAATTGGAATGAATTATTAAAGACGTCT
* *
8960299 TTAGTAAAAAATTACCTTTACTGATATTCAC-TAATAAAAATGGAGTGAATTATTGAAGG-GCTA
196 TTAGTAAAAAATTACCTTCACTAATATTCACTTAATAAAAATGGAGTGAATTATTGAAGGTG-TA
* *
8960362 TTATGCAAAAAATGCCTTCAATAAATACCTTCAAAAAATTATAGCT-AATTAGTGAAGGTATTTT
260 TTATACAAAAAATACCTTCAATAAATACCTTCAAAAAATTATAG-TGAATTAGTGAAGGTATTTT
* * *
8960426 TTTGACATAAACGCTTTCAATAATCCCCTTAAAATTTTA
324 CTAGACATAAACGCCTTCAATAATCCCCTTAAAATTTTA
8960465 CTATGAGATT
Statistics
Matches: 316, Mismatches: 37, Indels: 13
0.86 0.10 0.04
Matches are distributed among these distances:
362 2 0.01
363 11 0.03
364 107 0.34
365 79 0.25
366 44 0.14
367 22 0.07
368 2 0.01
369 49 0.16
ACGTcount: A:0.41, C:0.11, G:0.11, T:0.37
Consensus pattern (369 bp):
AATATTAAAGGCATTTTCTACTAAAAGATGCATTTAATAATCCCAAACAATTTTTATAAGAAAAT
TATTGAAAGTATTTTTTTCAAAAAAAATACCTTCAATAATTTTGTACAAAAATTATTAAAGGCAT
ATAATGCAAAAAAACACCTTCAATAATTTTCTCTTAAAAATTGGAATGAATTATTAAAGACGTCT
TTAGTAAAAAATTACCTTCACTAATATTCACTTAATAAAAATGGAGTGAATTATTGAAGGTGTAT
TATACAAAAAATACCTTCAATAAATACCTTCAAAAAATTATAGTGAATTAGTGAAGGTATTTTCT
AGACATAAACGCCTTCAATAATCCCCTTAAAATTTTATTAGTAG
Found at i:8962857 original size:21 final size:21
Alignment explanation
Indices: 8962809--8962851 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
8962799 GGCATCATAT
*
8962809 TACTTAAGTTGATGATATTGA
1 TACTCAAGTTGATGATATTGA
* *
8962830 TACTCAAGTTGGTGATCTTGA
1 TACTCAAGTTGATGATATTGA
8962851 T
1 T
8962852 GTTCAAAGTG
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.28, C:0.09, G:0.21, T:0.42
Consensus pattern (21 bp):
TACTCAAGTTGATGATATTGA
Found at i:8972008 original size:68 final size:68
Alignment explanation
Indices: 8971915--8972050 Score: 263
Period size: 68 Copynumber: 2.0 Consensus size: 68
8971905 GTTACTAAAA
*
8971915 AGAATTATATATATTACTCCTCCTTATTTTTGTTACGTGAAAAATAATTTTATTGTTAAGCATTG
1 AGAATTATATATATTACTCCTCCTTATTTTTGTTACATGAAAAATAATTTTATTGTTAAGCATTG
8971980 AAT
66 AAT
8971983 AGAATTATATATATTACTCCTCCTTATTTTTGTTACATGAAAAATAATTTTATTGTTAAGCATTG
1 AGAATTATATATATTACTCCTCCTTATTTTTGTTACATGAAAAATAATTTTATTGTTAAGCATTG
8972048 AAT
66 AAT
8972051 TTGTGCATAT
Statistics
Matches: 67, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
68 67 1.00
ACGTcount: A:0.35, C:0.10, G:0.10, T:0.46
Consensus pattern (68 bp):
AGAATTATATATATTACTCCTCCTTATTTTTGTTACATGAAAAATAATTTTATTGTTAAGCATTG
AAT
Found at i:8972207 original size:48 final size:49
Alignment explanation
Indices: 8972155--8972339 Score: 157
Period size: 48 Copynumber: 3.8 Consensus size: 49
8972145 ACTATTTCCC
* *
8972155 TATTTTTTTAGAGATCAC-CCCATTACTTATTCCTTTTAATAATTTTTT
1 TATTTTTTAAGAGATCACTCCCATTACATATTCCTTTTAATAATTTTTT
* * * * *
8972203 TATTTTTTAAGGAAAT-ACTCCAATTACCTATTCTTTTTAATAATTTTTC
1 TATTTTTTAA-GAGATCACTCCCATTACATATTCCTTTTAATAATTTTTT
* * * *
8972252 TATTTTTTAAG-GAAACACTTCC-TTACATATTCCTTTTAATAGTTTTCT
1 TATTTTTTAAGAG-ATCACTCCCATTACATATTCCTTTTAATAATTTTTT
* * * * *
8972300 T-TTTTTTAGGAAAAT-ACTACCATTACCTATTCTTTTTAAT
1 TATTTTTTAAG-AGATCACTCCCATTACATATTCCTTTTAAT
8972340 TTTTTCAATA
Statistics
Matches: 109, Mismatches: 21, Indels: 14
0.76 0.15 0.10
Matches are distributed among these distances:
47 13 0.12
48 52 0.48
49 44 0.40
ACGTcount: A:0.28, C:0.16, G:0.05, T:0.51
Consensus pattern (49 bp):
TATTTTTTAAGAGATCACTCCCATTACATATTCCTTTTAATAATTTTTT
Found at i:8972235 original size:49 final size:48
Alignment explanation
Indices: 8972174--8972339 Score: 203
Period size: 49 Copynumber: 3.4 Consensus size: 48
8972164 AGAGATCACC
*
8972174 CCATTACTTATTCCTTTTAATAATTTTTTTATTTTTTAAGGAAATACT
1 CCATTACCTATTCCTTTTAATAATTTTTTTATTTTTTAAGGAAATACT
* * *
8972222 CCAATTACCTATTCTTTTTAATAATTTTTCTATTTTTTAAGGAAACACTT
1 CC-ATTACCTATTCCTTTTAATAATTTTTTTATTTTTTAAGGAAATAC-T
* * *
8972272 CC-TTACATATTCCTTTTAATAGTTTTCTT-TTTTTT-AGGAAAATACT
1 CCATTACCTATTCCTTTTAATAATTTTTTTATTTTTTAAGG-AAATACT
*
8972318 ACCATTACCTATTCTTTTTAAT
1 -CCATTACCTATTCCTTTTAAT
8972340 TTTTTCAATA
Statistics
Matches: 101, Mismatches: 12, Indels: 10
0.82 0.10 0.08
Matches are distributed among these distances:
46 4 0.04
47 13 0.13
48 40 0.40
49 41 0.41
50 3 0.03
ACGTcount: A:0.28, C:0.16, G:0.04, T:0.52
Consensus pattern (48 bp):
CCATTACCTATTCCTTTTAATAATTTTTTTATTTTTTAAGGAAATACT
Found at i:8972332 original size:96 final size:95
Alignment explanation
Indices: 8972177--8972362 Score: 261
Period size: 96 Copynumber: 1.9 Consensus size: 95
8972167 GATCACCCCA
* *
8972177 TTACTTATTCCTTTTAATAATTTTTTTATTTTTTAAGGAAATACTCCAATTACCTATTCTTTTTA
1 TTACATATTCCTTTTAATAATTTTCTTATTTTTTAAGGAAATACTCCAATTACCTATTCTTTTTA
* * *
8972242 ATAATTTTTCTATTTTTTAAGGAAACACTTCC
66 AT--TTTTTCAATATTTTAAAGAAACACTTCC
*
8972274 TTACATATTCCTTTTAATAGTTTTCTT-TTTTTT-AGGAAAATACTACC-ATTACCTATTCTTTT
1 TTACATATTCCTTTTAATAATTTTCTTATTTTTTAAGG-AAATACT-CCAATTACCTATTCTTTT
8972336 TAATTTTTTCAATATTTTAAAGAAACA
64 TAATTTTTTCAATATTTTAAAGAAACA
8972363 TTCTCATTAT
Statistics
Matches: 81, Mismatches: 6, Indels: 7
0.86 0.06 0.07
Matches are distributed among these distances:
94 20 0.25
95 3 0.04
96 32 0.40
97 26 0.32
ACGTcount: A:0.30, C:0.14, G:0.04, T:0.52
Consensus pattern (95 bp):
TTACATATTCCTTTTAATAATTTTCTTATTTTTTAAGGAAATACTCCAATTACCTATTCTTTTTA
ATTTTTTCAATATTTTAAAGAAACACTTCC
Found at i:8972371 original size:47 final size:47
Alignment explanation
Indices: 8972175--8972371 Score: 161
Period size: 48 Copynumber: 4.1 Consensus size: 47
8972165 GAGATCACCC
* * * * *
8972175 CATTACTTATTCCTTTTAATAATTTTTTTATTTTTTAAGGAAATACTC-
1 CATTACCTATTCTTTTTAAT-A-TTTTTCATTTTTTAAGGAAACATTCT
8972223 CAATTACCTATTCTTTTTAATAATTTTTCTATTTTTTAAGGAAACACTTC-
1 C-ATTACCTATTCTTTTTAAT-ATTTTTC-ATTTTTTAAGGAAACA-TTCT
* * * * * *
8972273 C-TTACATATTCCTTTTAATAGTTTTCTTTTTTTTAGGAAA-ATACT
1 CATTACCTATTCTTTTTAATATTTTTCATTTTTTAAGGAAACATTCT
* *
8972318 ACCATTACCTATTCTTTTTAAT-TTTTTCAATATTTTAAAGAAACATTCT
1 --CATTACCTATTCTTTTTAATATTTTTC-ATTTTTTAAGGAAACATTCT
8972367 CATTA
1 CATTA
8972372 TTTGTTCATC
Statistics
Matches: 121, Mismatches: 19, Indels: 19
0.76 0.12 0.12
Matches are distributed among these distances:
44 2 0.02
45 1 0.01
46 12 0.10
47 17 0.14
48 48 0.40
49 38 0.31
50 3 0.02
ACGTcount: A:0.30, C:0.15, G:0.04, T:0.51
Consensus pattern (47 bp):
CATTACCTATTCTTTTTAATATTTTTCATTTTTTAAGGAAACATTCT
Found at i:8972644 original size:19 final size:19
Alignment explanation
Indices: 8972620--8972656 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
8972610 AAAAATTAAA
*
8972620 ATATATATTTTTTATTTTC
1 ATATATATATTTTATTTTC
8972639 ATATATATATTTTATTTT
1 ATATATATATTTTATTTT
8972657 TACCCTTTCA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.30, C:0.03, G:0.00, T:0.68
Consensus pattern (19 bp):
ATATATATATTTTATTTTC
Found at i:8976184 original size:7 final size:7
Alignment explanation
Indices: 8976167--8976206 Score: 53
Period size: 7 Copynumber: 5.6 Consensus size: 7
8976157 GTTTTAAAAT
8976167 ATATAAAA
1 ATAT-AAA
8976175 ATATAAA
1 ATATAAA
*
8976182 ATAAAAA
1 ATATAAA
8976189 ATATAAA
1 ATATAAA
*
8976196 ATAAAAA
1 ATATAAA
8976203 ATAT
1 ATAT
8976207 TTTTGAGAAA
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
7 24 0.86
8 4 0.14
ACGTcount: A:0.75, C:0.00, G:0.00, T:0.25
Consensus pattern (7 bp):
ATATAAA
Found at i:8976190 original size:14 final size:14
Alignment explanation
Indices: 8976171--8976206 Score: 72
Period size: 14 Copynumber: 2.6 Consensus size: 14
8976161 TAAAATATAT
8976171 AAAAATATAAAATA
1 AAAAATATAAAATA
8976185 AAAAATATAAAATA
1 AAAAATATAAAATA
8976199 AAAAATAT
1 AAAAATAT
8976207 TTTTGAGAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.78, C:0.00, G:0.00, T:0.22
Consensus pattern (14 bp):
AAAAATATAAAATA
Found at i:8976192 original size:22 final size:21
Alignment explanation
Indices: 8976161--8976205 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
8976151 AATGAAGTTT
* *
8976161 TAAAATATATAAAAATATAAAA
1 TAAAAAATAT-AAAATAAAAAA
8976183 TAAAAAATATAAAATAAAAAA
1 TAAAAAATATAAAATAAAAAA
8976204 TA
1 TA
8976206 TTTTTGAGAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 12 0.57
22 9 0.43
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (21 bp):
TAAAAAATATAAAATAAAAAA
Found at i:8976335 original size:118 final size:118
Alignment explanation
Indices: 8976198--8976412 Score: 319
Period size: 118 Copynumber: 1.8 Consensus size: 118
8976188 AATATAAAAT
***
8976198 AAAAAATATTTTTGAGAAAAAGTTGAAAGTATCAATTTTTCTTGAAAAT-AAGCTTTCTAA-AAA
1 AAAAAATATTTTTGAGAAAAAGTTGAAAGTATCAATTTTTCTTGAAAATAAAG--TAAAAACAAA
*
8976261 ATATTTTTGAGAAAAAGTTGAAAGTATCAATTTTCCTTGAAAATAAGCTTTCAAA
64 ACATTTTTGAGAAAAAGTTGAAAGTATCAATTTTCCTTGAAAATAAGCTTTCAAA
*
8976316 AAAAAATATTTTT-AGGAAAAAGTTGAAAGTATCAATTTTTCTTGAAATTAAAGTAAAAACAAAA
1 AAAAAATATTTTTGA-GAAAAAGTTGAAAGTATCAATTTTTCTTGAAAATAAAGTAAAAACAAAA
* *
8976380 CATTTTTGGGGAAAAGTTGAAAGTATCAATTTT
65 CATTTTTGAGAAAAAGTTGAAAGTATCAATTTT
8976413 TCTAGCACAA
Statistics
Matches: 87, Mismatches: 7, Indels: 6
0.87 0.07 0.06
Matches are distributed among these distances:
117 4 0.05
118 80 0.92
119 3 0.03
ACGTcount: A:0.46, C:0.07, G:0.13, T:0.35
Consensus pattern (118 bp):
AAAAAATATTTTTGAGAAAAAGTTGAAAGTATCAATTTTTCTTGAAAATAAAGTAAAAACAAAAC
ATTTTTGAGAAAAAGTTGAAAGTATCAATTTTCCTTGAAAATAAGCTTTCAAA
Found at i:8976349 original size:60 final size:60
Alignment explanation
Indices: 8976198--8976415 Score: 306
Period size: 58 Copynumber: 3.7 Consensus size: 60
8976188 AATATAAAAT
*
8976198 AAAAAATATTTTTGAGAAAAAGTTGAAAGTATCAATTTTTCTTGAAAATAAGCTTTC--T
1 AAAAAATATTTTTGAGAAAAAGTTGAAAGTATCAATTTTTCTTGAAAATAAGCTTTCAAA
*
8976256 AAAAAATATTTTTGAGAAAAAGTTGAAAGTATCAATTTTCCTTGAAAATAAGCTTTCAAA
1 AAAAAATATTTTTGAGAAAAAGTTGAAAGTATCAATTTTTCTTGAAAATAAGCTTTCAAA
*
8976316 AAAAAATATTTTT-AGGAAAAAGTTGAAAGTATCAATTTTTCTTGAAATTAAAG---T-AAA
1 AAAAAATATTTTTGA-GAAAAAGTTGAAAGTATCAATTTTTCTTGAAAAT-AAGCTTTCAAA
* * *
8976373 AACAAAACATTTTTGGGGAAAAGTTGAAAGTATCAATTTTTCT
1 AA-AAAATATTTTTGAGAAAAAGTTGAAAGTATCAATTTTTCT
8976416 AGCACAAAAG
Statistics
Matches: 147, Mismatches: 7, Indels: 12
0.89 0.04 0.07
Matches are distributed among these distances:
57 5 0.03
58 93 0.63
59 1 0.01
60 45 0.31
61 3 0.02
ACGTcount: A:0.45, C:0.07, G:0.13, T:0.35
Consensus pattern (60 bp):
AAAAAATATTTTTGAGAAAAAGTTGAAAGTATCAATTTTTCTTGAAAATAAGCTTTCAAA
Found at i:8981260 original size:8 final size:8
Alignment explanation
Indices: 8981239--8981301 Score: 58
Period size: 8 Copynumber: 7.6 Consensus size: 8
8981229 AAAGAAGATG
8981239 ATGAAAAA
1 ATGAAAAA
8981247 AT--AAAA
1 ATGAAAAA
8981253 ATGAAAAA
1 ATGAAAAA
8981261 ATGGAAAAAAA
1 AT-G--AAAAA
*
8981272 AGGAAAAA
1 ATGAAAAA
8981280 ATGAAAAAA
1 ATG-AAAAA
*
8981289 ATGAGAAA
1 ATGAAAAA
8981297 ATGAA
1 ATGAA
8981302 GAGAAAAGAT
Statistics
Matches: 45, Mismatches: 4, Indels: 12
0.74 0.07 0.20
Matches are distributed among these distances:
6 6 0.13
8 23 0.51
9 9 0.20
10 1 0.02
11 6 0.13
ACGTcount: A:0.73, C:0.00, G:0.16, T:0.11
Consensus pattern (8 bp):
ATGAAAAA
Found at i:8981271 original size:10 final size:10
Alignment explanation
Indices: 8981256--8981297 Score: 52
Period size: 9 Copynumber: 4.3 Consensus size: 10
8981246 AATAAAAATG
8981256 AAAAAATGGA
1 AAAAAATGGA
*
8981266 AAAAAAAGG-
1 AAAAAATGGA
8981275 AAAAAAT-GA
1 AAAAAATGGA
8981284 AAAAAATGAGA
1 AAAAAATG-GA
8981295 AAA
1 AAA
8981298 TGAAGAGAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
8 1 0.04
9 13 0.48
10 8 0.30
11 5 0.19
ACGTcount: A:0.76, C:0.00, G:0.17, T:0.07
Consensus pattern (10 bp):
AAAAAATGGA
Found at i:8981277 original size:19 final size:18
Alignment explanation
Indices: 8981249--8981289 Score: 64
Period size: 19 Copynumber: 2.2 Consensus size: 18
8981239 ATGAAAAAAT
*
8981249 AAAAATGAAAAAATGGAAA
1 AAAAAGGAAAAAAT-GAAA
8981268 AAAAAGGAAAAAATGAAA
1 AAAAAGGAAAAAATGAAA
8981286 AAAA
1 AAAA
8981290 TGAGAAAATG
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
18 8 0.38
19 13 0.62
ACGTcount: A:0.78, C:0.00, G:0.15, T:0.07
Consensus pattern (18 bp):
AAAAAGGAAAAAATGAAA
Found at i:8981308 original size:19 final size:17
Alignment explanation
Indices: 8981249--8981301 Score: 70
Period size: 17 Copynumber: 3.0 Consensus size: 17
8981239 ATGAAAAAAT
8981249 AAAAATGAAAAAATGGAAA
1 AAAAATGAAAAAAT-G-AA
*
8981268 AAAAAGGAAAAAATGAA
1 AAAAATGAAAAAATGAA
*
8981285 AAAAATGAGAAAATGAA
1 AAAAATGAAAAAATGAA
8981302 GAGAAAAGAT
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
17 17 0.55
18 1 0.03
19 13 0.42
ACGTcount: A:0.74, C:0.00, G:0.17, T:0.09
Consensus pattern (17 bp):
AAAAATGAAAAAATGAA
Found at i:8982763 original size:43 final size:42
Alignment explanation
Indices: 8982714--8982819 Score: 124
Period size: 43 Copynumber: 2.5 Consensus size: 42
8982704 ACCTTTGAAC
*
8982714 TCAAATGAGAAGCTTTGAATTTTTGGATGTGAATCTCCAAAAT
1 TCAAATGAGAAGCTTTGAATTTTTGGATATGAAT-TCCAAAAT
* **
8982757 TCAAATGAAAAGCTTT-AGATTTTTGGATATGAATTCCAAGTT
1 TCAAATGAGAAGCTTTGA-ATTTTTGGATATGAATTCCAAAAT
*
8982799 TGCCAAATGAGAACCTTTGAA
1 T--CAAATGAGAAGCTTTGAA
8982820 AAGCCTTGAA
Statistics
Matches: 53, Mismatches: 6, Indels: 7
0.80 0.09 0.11
Matches are distributed among these distances:
42 8 0.15
43 30 0.57
44 14 0.26
45 1 0.02
ACGTcount: A:0.36, C:0.12, G:0.18, T:0.34
Consensus pattern (42 bp):
TCAAATGAGAAGCTTTGAATTTTTGGATATGAATTCCAAAAT
Found at i:8983161 original size:41 final size:41
Alignment explanation
Indices: 8983092--8983249 Score: 176
Period size: 41 Copynumber: 3.8 Consensus size: 41
8983082 GTCAATGAGT
* *
8983092 AATTTATTTTTCCAAAGTTTCGTT--GCCTCTGTTTAGATGAGC
1 AATTTATTTTT-CAAAG-TT-GTTGAGCCTCTGATTAGAGGAGC
** * *
8983134 AATTTGCTTTTCAAAGTTGTGGTGCCTCTGATTAGAGGAGC
1 AATTTATTTTTCAAAGTTGTTGAGCCTCTGATTAGAGGAGC
* ** *
8983175 CATTTATTTTTCTAAAGTCATTGAGCCTCTAATTAGAGGAGC
1 AATTTATTTTTC-AAAGTTGTTGAGCCTCTGATTAGAGGAGC
8983217 AATTTATTTTTCAAAGTTGTTGAGCCTCTGATT
1 AATTTATTTTTCAAAGTTGTTGAGCCTCTGATT
8983250 TTAAAGTCGT
Statistics
Matches: 96, Mismatches: 17, Indels: 7
0.80 0.14 0.06
Matches are distributed among these distances:
39 2 0.02
40 2 0.02
41 48 0.50
42 44 0.46
ACGTcount: A:0.24, C:0.15, G:0.19, T:0.42
Consensus pattern (41 bp):
AATTTATTTTTCAAAGTTGTTGAGCCTCTGATTAGAGGAGC
Found at i:8983261 original size:23 final size:24
Alignment explanation
Indices: 8983224--8983271 Score: 80
Period size: 23 Copynumber: 2.0 Consensus size: 24
8983214 AGCAATTTAT
*
8983224 TTTTCAAAGTTGTTGAGCCTCTGA
1 TTTTCAAAGTCGTTGAGCCTCTGA
8983248 TTTT-AAAGTCGTTGAGCCTCTGA
1 TTTTCAAAGTCGTTGAGCCTCTGA
8983271 T
1 T
8983272 AAGAGGAGCC
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
23 19 0.83
24 4 0.17
ACGTcount: A:0.21, C:0.17, G:0.21, T:0.42
Consensus pattern (24 bp):
TTTTCAAAGTCGTTGAGCCTCTGA
Found at i:8983266 original size:64 final size:65
Alignment explanation
Indices: 8983187--8983314 Score: 204
Period size: 64 Copynumber: 2.0 Consensus size: 65
8983177 TTTATTTTTC
* *
8983187 TAAAGTCATTGAGCCTCTAATTAGAGGAGCAATTTATTTTTC-AAAGTTGTTGAGCCTCTGATTT
1 TAAAGTCATTGAGCCTCTAATAAGAGGAGCAATTTATTTTTCTAAAGTTGTTGAACCTCTGATTT
* * *
8983251 TAAAGTCGTTGAGCCTCTGATAAGAGGAGCCATTTATTTTTCTAAAGTTGTTGAACCTCTGATT
1 TAAAGTCATTGAGCCTCTAATAAGAGGAGCAATTTATTTTTCTAAAGTTGTTGAACCTCTGATT
8983315 AGAGGAGCCA
Statistics
Matches: 58, Mismatches: 5, Indels: 1
0.91 0.08 0.02
Matches are distributed among these distances:
64 38 0.66
65 20 0.34
ACGTcount: A:0.27, C:0.15, G:0.20, T:0.38
Consensus pattern (65 bp):
TAAAGTCATTGAGCCTCTAATAAGAGGAGCAATTTATTTTTCTAAAGTTGTTGAACCTCTGATTT
Found at i:8983331 original size:106 final size:107
Alignment explanation
Indices: 8983157--8983356 Score: 330
Period size: 106 Copynumber: 1.9 Consensus size: 107
8983147 AAGTTGTGGT
* *
8983157 GCCTCTGATTAGAGGAGCCATTTATTTTTCTAAAGTCATTGAGCCTCTAATTAGAGGAGCAATTT
1 GCCTCTGATAAGAGGAGCCATTTATTTTTCTAAAGTCATTGAACCTCTAATTAGAGGAGCAATTT
*
8983222 ATTTTTC-AAAGTTGTTGAGCCTCTGATTTTAAAGTCGTTGA
66 ATTTTTCAAAAGTCGTTGAGCCTCTGATTTTAAAGTCGTTGA
** * *
8983263 GCCTCTGATAAGAGGAGCCATTTATTTTTCTAAAGTTGTTGAACCTCTGATTAGAGGAGCCATTT
1 GCCTCTGATAAGAGGAGCCATTTATTTTTCTAAAGTCATTGAACCTCTAATTAGAGGAGCAATTT
8983328 ATTTTTCAAAAGTCGTTGAGCCTCTGATT
66 ATTTTTCAAAAGTCGTTGAGCCTCTGATT
8983357 ATAGGAGCCA
Statistics
Matches: 86, Mismatches: 7, Indels: 1
0.91 0.07 0.01
Matches are distributed among these distances:
106 66 0.77
107 20 0.23
ACGTcount: A:0.26, C:0.16, G:0.20, T:0.38
Consensus pattern (107 bp):
GCCTCTGATAAGAGGAGCCATTTATTTTTCTAAAGTCATTGAACCTCTAATTAGAGGAGCAATTT
ATTTTTCAAAAGTCGTTGAGCCTCTGATTTTAAAGTCGTTGA
Found at i:8983395 original size:41 final size:41
Alignment explanation
Indices: 8983248--8983612 Score: 475
Period size: 42 Copynumber: 8.8 Consensus size: 41
8983238 GAGCCTCTGA
*
8983248 TTTT-AAAGTCGTTGAGCCTCTGATAAGAGGAGCCATTTAT
1 TTTTCAAAGTCGTTGAGCCTCTGATTAGAGGAGCCATTTAT
* *
8983288 TTTTCTAAAGTTGTTGAACCTCTGATTAGAGGAGCCATTTAT
1 TTTTC-AAAGTCGTTGAGCCTCTGATTAGAGGAGCCATTTAT
* *
8983330 TTTTCAAAAGTCGTTGAGCCTCTGATTATAGGAGCCATTTGT
1 TTTTC-AAAGTCGTTGAGCCTCTGATTAGAGGAGCCATTTAT
* *
8983372 TTCTCAAAGTCGTTGAGCTTCTGATTAGAGGAG-C-TTTATT
1 TTTTCAAAGTCGTTGAGCCTCTGATTAGAGGAGCCATTTA-T
* **
8983412 CATTTTCAAAGTCGTTGAGCCTCTGATTAGAAGAGTAATTTAT
1 --TTTTCAAAGTCGTTGAGCCTCTGATTAGAGGAGCCATTTAT
* *
8983455 TTTTCAAAGTCGTTGAGCCTTTGATTAGATGAGCCATTTAT
1 TTTTCAAAGTCGTTGAGCCTCTGATTAGAGGAGCCATTTAT
* *
8983496 TTTTCAAAGTCGTTGAGCGTTTGATTAGAGGAGCCATTTAT
1 TTTTCAAAGTCGTTGAGCCTCTGATTAGAGGAGCCATTTAT
* *
8983537 TTTTCAAAAGTCGTTGAGCCTCTGATTAGAGAAGCCATTTGT
1 TTTTC-AAAGTCGTTGAGCCTCTGATTAGAGGAGCCATTTAT
* * * *
8983579 TTCTCAAAGTCGTTAAACCTCTGCTTAGAGGAGC
1 TTTTCAAAGTCGTTGAGCCTCTGATTAGAGGAGC
8983613 TTTGATCAAA
Statistics
Matches: 286, Mismatches: 31, Indels: 15
0.86 0.09 0.05
Matches are distributed among these distances:
39 3 0.01
40 6 0.02
41 132 0.46
42 140 0.49
43 1 0.00
44 4 0.01
ACGTcount: A:0.26, C:0.16, G:0.21, T:0.38
Consensus pattern (41 bp):
TTTTCAAAGTCGTTGAGCCTCTGATTAGAGGAGCCATTTAT
Found at i:8983432 original size:83 final size:83
Alignment explanation
Indices: 8983248--8983612 Score: 470
Period size: 83 Copynumber: 4.4 Consensus size: 83
8983238 GAGCCTCTGA
* * * *
8983248 TTTT-AAAGTCGTTGAGCCTCTGATAAGAGGAGCCATTTATTTTTCTAAAGTTGTTGAACCTCTG
1 TTTTCAAAGTCGTTGAGCCTCTGATTAGAGGAGCCATTTATTTTTCAAAAGTCGTTGAGCCTCTG
8983312 ATTAGAGGAGCCATTTAT
66 ATTAGAGGAGCCATTTAT
* * * *
8983330 TTTTCAAAAGTCGTTGAGCCTCTGATTATAGGAGCCATTTGTTTCTC-AAAGTCGTTGAGCTTCT
1 TTTTC-AAAGTCGTTGAGCCTCTGATTAGAGGAGCCATTTATTTTTCAAAAGTCGTTGAGCCTCT
8983394 GATTAGAGGAG-C-TTTATT
65 GATTAGAGGAGCCATTTA-T
* ** *
8983412 CATTTTCAAAGTCGTTGAGCCTCTGATTAGAAGAGTAATTTATTTTTC-AAAGTCGTTGAGCCTT
1 --TTTTCAAAGTCGTTGAGCCTCTGATTAGAGGAGCCATTTATTTTTCAAAAGTCGTTGAGCCTC
*
8983476 TGATTAGATGAGCCATTTAT
64 TGATTAGAGGAGCCATTTAT
* *
8983496 TTTTCAAAGTCGTTGAGCGTTTGATTAGAGGAGCCATTTATTTTTCAAAAGTCGTTGAGCCTCTG
1 TTTTCAAAGTCGTTGAGCCTCTGATTAGAGGAGCCATTTATTTTTCAAAAGTCGTTGAGCCTCTG
* *
8983561 ATTAGAGAAGCCATTTGT
66 ATTAGAGGAGCCATTTAT
* * * *
8983579 TTCTCAAAGTCGTTAAACCTCTGCTTAGAGGAGC
1 TTTTCAAAGTCGTTGAGCCTCTGATTAGAGGAGC
8983613 TTTGATCAAA
Statistics
Matches: 244, Mismatches: 31, Indels: 15
0.84 0.11 0.05
Matches are distributed among these distances:
81 4 0.02
82 47 0.19
83 145 0.59
84 44 0.18
85 4 0.02
ACGTcount: A:0.26, C:0.16, G:0.21, T:0.38
Consensus pattern (83 bp):
TTTTCAAAGTCGTTGAGCCTCTGATTAGAGGAGCCATTTATTTTTCAAAAGTCGTTGAGCCTCTG
ATTAGAGGAGCCATTTAT
Found at i:8983652 original size:5 final size:5
Alignment explanation
Indices: 8983631--8983681 Score: 54
Period size: 5 Copynumber: 10.6 Consensus size: 5
8983621 AAATTTTAAC
* *
8983631 AAACA AAA-A AAATA AAACA AAACA AAACA AAA-A AAAGA AGAA-A AAACA
1 AAACA AAACA AAACA AAACA AAACA AAACA AAACA AAACA A-AACA AAACA
8983679 AAA
1 AAA
8983682 AAAGAAAGTG
Statistics
Matches: 41, Mismatches: 1, Indels: 8
0.82 0.02 0.16
Matches are distributed among these distances:
4 10 0.24
5 29 0.71
6 2 0.05
ACGTcount: A:0.84, C:0.10, G:0.04, T:0.02
Consensus pattern (5 bp):
AAACA
Found at i:8983653 original size:19 final size:19
Alignment explanation
Indices: 8983631--8983684 Score: 67
Period size: 19 Copynumber: 2.8 Consensus size: 19
8983621 AAATTTTAAC
8983631 AAACAAAA-AAAATAAAACA
1 AAACAAAACAAAA-AAAACA
*
8983650 AAACAAAACAAAAAAAAGA
1 AAACAAAACAAAAAAAACA
8983669 AGAA-AAAACAAAAAAA
1 A-AACAAAACAAAAAAA
8983685 GAAAGTGTCA
Statistics
Matches: 32, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
19 26 0.81
20 6 0.19
ACGTcount: A:0.85, C:0.09, G:0.04, T:0.02
Consensus pattern (19 bp):
AAACAAAACAAAAAAAACA
Found at i:8983658 original size:24 final size:24
Alignment explanation
Indices: 8983631--8983681 Score: 77
Period size: 24 Copynumber: 2.1 Consensus size: 24
8983621 AAATTTTAAC
*
8983631 AAACAAAAAAAATAA-AACAAAACA
1 AAACAAAAAAAAGAAGAA-AAAACA
8983655 AAACAAAAAAAAGAAGAAAAAACA
1 AAACAAAAAAAAGAAGAAAAAACA
8983679 AAA
1 AAA
8983682 AAAGAAAGTG
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
24 23 0.92
25 2 0.08
ACGTcount: A:0.84, C:0.10, G:0.04, T:0.02
Consensus pattern (24 bp):
AAACAAAAAAAAGAAGAAAAAACA
Found at i:8986341 original size:58 final size:58
Alignment explanation
Indices: 8986272--8986658 Score: 437
Period size: 58 Copynumber: 6.7 Consensus size: 58
8986262 AAATATAAAA
8986272 TAAAAAATATTTTTGAGAAAAAGTTGAAAGTATCAA-TTTTCTTTGAAAATAAGCTTTC
1 TAAAAAATATTTTTGAGAAAAAGTTGAAAGTATCAATTTTTC-TTGAAAATAAGCTTTC
* * *
8986330 TAAAAAATATTTTTGAGGAAAAGTTAAAAGTATCAATTTTTCTTGAAAATAAGTTTTTTC
1 TAAAAAATATTTTTGAGAAAAAGTTGAAAGTATCAATTTTTCTTGAAAATAAG--CTTTC
*
8986390 T-AAAAATATTTTTGAGACAAAGTTGAAAGTATCAATTTTTCTTGAAAATAAGCTTTC
1 TAAAAAATATTTTTGAGAAAAAGTTGAAAGTATCAATTTTTCTTGAAAATAAGCTTTC
8986447 TAAAAAATATTTTTG-G--AAA----AAA-TATCAATTTTTCTTGAAAATAAGCTTTTC
1 TAAAAAATATTTTTGAGAAAAAGTTGAAAGTATCAATTTTTCTTGAAAATAAGC-TTTC
* *
8986498 AAAAAAAATATTTTT-AGAGAAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAG-TTT-
1 -TAAAAAATATTTTTGAGA-AAAAGTTGAAAGTATCAATTTTTCTTGAAAATAAGCTTTC
* * * * *
8986555 TCAAAAATGGATTTTTGAGGAAAAGTTGAAAATATCAATTTTT-TTCGAAATTAAAG-TTTAAA
1 TAAAAAAT--ATTTTTGAGAAAAAGTTGAAAGTATCAATTTTTCTT-GAAAAT-AAGCTTT--C
*
8986617 AAAAAAATATTTTTG-GAGAAAAGTTGAAAGTATCAATTTTTC
1 TAAAAAATATTTTTGAGA-AAAAGTTGAAAGTATCAATTTTTC
8986659 CTGCGCAAAA
Statistics
Matches: 285, Mismatches: 19, Indels: 47
0.81 0.05 0.13
Matches are distributed among these distances:
50 24 0.08
51 7 0.02
52 14 0.05
55 6 0.02
56 6 0.02
57 8 0.03
58 93 0.33
59 65 0.23
60 56 0.20
62 6 0.02
ACGTcount: A:0.44, C:0.06, G:0.12, T:0.39
Consensus pattern (58 bp):
TAAAAAATATTTTTGAGAAAAAGTTGAAAGTATCAATTTTTCTTGAAAATAAGCTTTC
Found at i:8986599 original size:60 final size:60
Alignment explanation
Indices: 8986465--8986658 Score: 220
Period size: 60 Copynumber: 3.3 Consensus size: 60
8986455 ATTTTTGGAA
* *
8986465 AAAATATCAATTTTTCTTGAAAATAAGCTTTTCAAAAAAAATATTTTTAGAGAAAAGTTG
1 AAAATATCAATTTTTCTTAAAAATAAGCTTTTCAAAAAAAATATTTTGAGAGAAAAGTTG
* **
8986525 AAAGTATCAATTTTTCTTAAAAATAAG-TTTTCAAAAATGGAT-TTTTGAG-GAAAAGTTG
1 AAAATATCAATTTTTCTTAAAAATAAGCTTTTCAAAAA-AAATATTTTGAGAGAAAAGTTG
* * **
8986583 AAAATATCAATTTTT-TTCGAAATTAAAG-TTTAAAAAAAAAATATTTTTG-GAGAAAAGTTG
1 AAAATATCAATTTTTCTT-AAAAAT-AAGCTTTTCAAAAAAAATA-TTTTGAGAGAAAAGTTG
*
8986643 AAAGTATCAATTTTTC
1 AAAATATCAATTTTTC
8986659 CTGCGCAAAA
Statistics
Matches: 114, Mismatches: 13, Indels: 13
0.81 0.09 0.09
Matches are distributed among these distances:
57 2 0.02
58 29 0.25
59 28 0.25
60 55 0.48
ACGTcount: A:0.45, C:0.06, G:0.12, T:0.38
Consensus pattern (60 bp):
AAAATATCAATTTTTCTTAAAAATAAGCTTTTCAAAAAAAATATTTTGAGAGAAAAGTTG
Found at i:8993378 original size:23 final size:23
Alignment explanation
Indices: 8993335--8993408 Score: 55
Period size: 23 Copynumber: 3.1 Consensus size: 23
8993325 ATTTATATTC
*
8993335 TATTATATGGT-TAACATATATTTT
1 TATT-TATGGTATAA-AAATATTTT
8993359 TATTTATGGTATAAAAATATGTTAAT
1 TATTTATGGTATAAAAATAT-TT--T
*
8993385 T-TTTATGTTATCAAAAAT-TTTT
1 TATTTATGGTAT-AAAAATATTTT
8993407 TA
1 TA
8993409 ATGAAAAAGA
Statistics
Matches: 42, Mismatches: 2, Indels: 13
0.74 0.04 0.23
Matches are distributed among these distances:
22 2 0.05
23 11 0.26
24 11 0.26
25 10 0.24
26 8 0.19
ACGTcount: A:0.36, C:0.03, G:0.08, T:0.53
Consensus pattern (23 bp):
TATTTATGGTATAAAAATATTTT
Found at i:8999895 original size:14 final size:14
Alignment explanation
Indices: 8999876--8999904 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
8999866 TAACTTGAGA
8999876 TCCATGAGTTTAGT
1 TCCATGAGTTTAGT
8999890 TCCATGAGTTTAGT
1 TCCATGAGTTTAGT
8999904 T
1 T
8999905 GTGAGGTTAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.21, C:0.14, G:0.21, T:0.45
Consensus pattern (14 bp):
TCCATGAGTTTAGT
Found at i:9000629 original size:1 final size:1
Alignment explanation
Indices: 9000595--9000620 Score: 52
Period size: 1 Copynumber: 26.0 Consensus size: 1
9000585 TGCACGTCTG
9000595 TTTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTT
9000621 CAGTTTTTTG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 25 1.00
ACGTcount: A:0.00, C:0.00, G:0.00, T:1.00
Consensus pattern (1 bp):
T
Found at i:9000929 original size:24 final size:24
Alignment explanation
Indices: 9000902--9000957 Score: 60
Period size: 24 Copynumber: 2.3 Consensus size: 24
9000892 AATTTTTTTA
9000902 TTTTTATTAAAT-TTATTTATATAT
1 TTTTTATT-AATGTTATTTATATAT
* ** *
9000926 TTTTTAATCGTGTTATTTTTATAT
1 TTTTTATTAATGTTATTTATATAT
9000950 TTTTTATT
1 TTTTTATT
9000958 CATATAAGTA
Statistics
Matches: 26, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
23 1 0.04
24 25 0.96
ACGTcount: A:0.25, C:0.02, G:0.04, T:0.70
Consensus pattern (24 bp):
TTTTTATTAATGTTATTTATATAT
Found at i:9002162 original size:18 final size:20
Alignment explanation
Indices: 9002139--9002181 Score: 72
Period size: 18 Copynumber: 2.2 Consensus size: 20
9002129 TCTGAAATTA
9002139 ATAAAATATTA-TTTTA-AT
1 ATAAAATATTATTTTTAGAT
9002157 ATAAAATATTATTTTTAGAT
1 ATAAAATATTATTTTTAGAT
9002177 ATAAA
1 ATAAA
9002182 TATAAAATTA
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
18 11 0.48
19 5 0.22
20 7 0.30
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.47
Consensus pattern (20 bp):
ATAAAATATTATTTTTAGAT
Found at i:9004229 original size:2 final size:2
Alignment explanation
Indices: 9004222--9004251 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
9004212 TGTATGTATG
9004222 TA TA TA TA TA -A TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
9004252 GAATGATGGA
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 26 0.96
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:9006585 original size:122 final size:121
Alignment explanation
Indices: 9006428--9006667 Score: 322
Period size: 122 Copynumber: 2.0 Consensus size: 121
9006418 TTATTACTTT
* * ** * *
9006428 ATAATTCATATCAATAAATATGATACATAATTTTTTATTTTTATTAAATTTACATATAATTTTTA
1 ATAATTCACATCAATAAATATGATACATAATTTTTTATCTTTACCAAATTTACATAAAATATTTA
* * *
9006493 TCAAAATTTTAAATCATATT-ATTTTTTATTTTTTTCATATAATTTTTATATCATATC
66 TCAAAATTTTAAATCATATTAATTATATA-TTTTTT-ATATAATTTTAATATCATATC
*
9006550 ATAATTCGCATCAATAAATAT-ATAACATAATTTTTTATCTTTACCAAATTTACATAAAATATTT
1 ATAATTCACATCAATAAATATGAT-ACATAATTTTTTATCTTTACCAAATTTACATAAAATATTT
* * *
9006614 ATTAAAATTTTAAATTATATTAATTATATATTTTTTATATTATTTTAATATCAT
65 ATCAAAATTTTAAATCATATTAATTATATATTTTTTATATAATTTTAATATCAT
9006668 GTCACATAAG
Statistics
Matches: 103, Mismatches: 13, Indels: 5
0.85 0.11 0.04
Matches are distributed among these distances:
121 18 0.17
122 79 0.77
123 6 0.06
ACGTcount: A:0.40, C:0.07, G:0.01, T:0.52
Consensus pattern (121 bp):
ATAATTCACATCAATAAATATGATACATAATTTTTTATCTTTACCAAATTTACATAAAATATTTA
TCAAAATTTTAAATCATATTAATTATATATTTTTTATATAATTTTAATATCATATC
Found at i:9008240 original size:12 final size:12
Alignment explanation
Indices: 9008218--9008251 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
9008208 ATATATATAA
9008218 TATTCTTTTTATC
1 TATT-TTTTTATC
*
9008231 TCTTTTTTTATC
1 TATTTTTTTATC
9008243 TATTTTTTT
1 TATTTTTTT
9008252 TAAATATCCA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
12 16 0.84
13 3 0.16
ACGTcount: A:0.12, C:0.12, G:0.00, T:0.76
Consensus pattern (12 bp):
TATTTTTTTATC
Found at i:9008313 original size:22 final size:22
Alignment explanation
Indices: 9008288--9008332 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 22
9008278 ATTTAACATC
*
9008288 TAAAACTCTTATTTTTAT-ATTT
1 TAAAACTATT-TTTTTATAATTT
*
9008310 TAAAATTATTTTTTTATAATTT
1 TAAAACTATTTTTTTATAATTT
9008332 T
1 T
9008333 TTACTATTTG
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
21 7 0.35
22 13 0.65
ACGTcount: A:0.33, C:0.04, G:0.00, T:0.62
Consensus pattern (22 bp):
TAAAACTATTTTTTTATAATTT
Found at i:9009464 original size:26 final size:25
Alignment explanation
Indices: 9009422--9009480 Score: 59
Period size: 25 Copynumber: 2.4 Consensus size: 25
9009412 TATTTTTTAA
*
9009422 TTAT-TTTTTTAGGATATGTCAAAAT
1 TTATATTTTTTAGAATAT-TCAAAAT
*
9009447 TATATATTTTTTA-AATATTTAAAAT
1 T-TATATTTTTTAGAATATTCAAAAT
*
9009472 TTTTATTTT
1 TTATATTTT
9009481 GTATATTTTA
Statistics
Matches: 29, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
24 7 0.24
25 8 0.28
26 7 0.24
27 7 0.24
ACGTcount: A:0.34, C:0.02, G:0.05, T:0.59
Consensus pattern (25 bp):
TTATATTTTTTAGAATATTCAAAAT
Found at i:9009500 original size:22 final size:24
Alignment explanation
Indices: 9009442--9009502 Score: 72
Period size: 24 Copynumber: 2.6 Consensus size: 24
9009432 AGGATATGTC
*
9009442 AAAATTATATATTTTTTAAATATTT
1 AAAATT-TATATTTTGTAAATATTT
* *
9009467 AAAATTTTTATTTTGTATAT-TTT
1 AAAATTTATATTTTGTAAATATTT
9009490 AAAA-TTATATTTT
1 AAAATTTATATTTT
9009503 AATTTTTTTA
Statistics
Matches: 32, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
22 8 0.25
23 7 0.22
24 11 0.34
25 6 0.19
ACGTcount: A:0.39, C:0.00, G:0.02, T:0.59
Consensus pattern (24 bp):
AAAATTTATATTTTGTAAATATTT
Found at i:9009500 original size:35 final size:36
Alignment explanation
Indices: 9009464--9009533 Score: 88
Period size: 36 Copynumber: 1.9 Consensus size: 36
9009454 TTTTTAAATA
* *
9009464 TTTAAAATTTTTATTTTGT-ATATTTTAAAATTATAT
1 TTTAAAATTTTTATTTTCTGATA-TTAAAAATTATAT
**
9009500 TTTAATTTTTTTATTTTCTGATATTAAAAATTAT
1 TTTAAAATTTTTATTTTCTGATATTAAAAATTAT
9009534 GTAACTTTAA
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
36 26 0.90
37 3 0.10
ACGTcount: A:0.34, C:0.01, G:0.03, T:0.61
Consensus pattern (36 bp):
TTTAAAATTTTTATTTTCTGATATTAAAAATTATAT
Found at i:9012107 original size:27 final size:27
Alignment explanation
Indices: 9012076--9012143 Score: 86
Period size: 27 Copynumber: 2.5 Consensus size: 27
9012066 CCCATTTTAT
9012076 TAAATTTTATAAA-AGTTAAATAAGTAA
1 TAAATTTTATAAATA-TTAAATAAGTAA
*
9012103 TAAATTTTATAAATATTAAATAATTAA
1 TAAATTTTATAAATATTAAATAAGTAA
*
9012130 -AATTTTTATTAAAT
1 TAAATTTTA-TAAAT
9012144 TTTCATTTTA
Statistics
Matches: 37, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
26 7 0.19
27 29 0.78
28 1 0.03
ACGTcount: A:0.53, C:0.00, G:0.03, T:0.44
Consensus pattern (27 bp):
TAAATTTTATAAATATTAAATAAGTAA
Found at i:9017702 original size:14 final size:15
Alignment explanation
Indices: 9017683--9017713 Score: 55
Period size: 14 Copynumber: 2.1 Consensus size: 15
9017673 GAAAATTTTT
9017683 ATGAAATTTTT-AAA
1 ATGAAATTTTTGAAA
9017697 ATGAAATTTTTGAAA
1 ATGAAATTTTTGAAA
9017712 AT
1 AT
9017714 TTTTAAAATA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 11 0.69
15 5 0.31
ACGTcount: A:0.48, C:0.00, G:0.10, T:0.42
Consensus pattern (15 bp):
ATGAAATTTTTGAAA
Found at i:9017716 original size:23 final size:24
Alignment explanation
Indices: 9017679--9017726 Score: 73
Period size: 24 Copynumber: 2.0 Consensus size: 24
9017669 AGACGAAAAT
9017679 TTTTATG-AAATTTTTAAAATGAAA
1 TTTTATGAAAATTTTTAAAAT-AAA
9017703 TTTT-TGAAAATTTTTAAAATAAA
1 TTTTATGAAAATTTTTAAAATAAA
9017726 T
1 T
9017727 GATTTAATAA
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
23 6 0.26
24 17 0.74
ACGTcount: A:0.46, C:0.00, G:0.06, T:0.48
Consensus pattern (24 bp):
TTTTATGAAAATTTTTAAAATAAA
Found at i:9017792 original size:22 final size:23
Alignment explanation
Indices: 9017751--9017794 Score: 65
Period size: 22 Copynumber: 2.0 Consensus size: 23
9017741 TTTAATAAAA
9017751 AATTTAAATTGATAAATTAATAG
1 AATTTAAATTGATAAATTAATAG
9017774 AATTT-AATGTGA-AAATTAATA
1 AATTTAAAT-TGATAAATTAATA
9017795 ATTTATAAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
22 12 0.60
23 8 0.40
ACGTcount: A:0.52, C:0.00, G:0.09, T:0.39
Consensus pattern (23 bp):
AATTTAAATTGATAAATTAATAG
Found at i:9017876 original size:24 final size:23
Alignment explanation
Indices: 9017845--9017897 Score: 63
Period size: 23 Copynumber: 2.3 Consensus size: 23
9017835 ATTTAATTGA
9017845 TATTTATTTAATAATAAAAAT-TT
1 TATTTATTT-ATAATAAAAATGTT
* *
9017868 TATTATATTTTTATTAAAAATGTT
1 TATT-TATTTATAATAAAAATGTT
9017892 TATTTA
1 TATTTA
9017898 AAAAAATATA
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
23 15 0.58
24 11 0.42
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.57
Consensus pattern (23 bp):
TATTTATTTATAATAAAAATGTT
Found at i:9018617 original size:21 final size:19
Alignment explanation
Indices: 9018593--9018635 Score: 59
Period size: 21 Copynumber: 2.2 Consensus size: 19
9018583 AAAAAATGAA
*
9018593 TTATTAAATATTTAAATAATT
1 TTATTAAA-AATTAAA-AATT
9018614 TTATTAAAAATTAAAAATT
1 TTATTAAAAATTAAAAATT
9018633 TTA
1 TTA
9018636 AGATGCATTA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 7 0.33
20 6 0.29
21 8 0.38
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (19 bp):
TTATTAAAAATTAAAAATT
Found at i:9020009 original size:5 final size:5
Alignment explanation
Indices: 9019995--9020037 Score: 52
Period size: 5 Copynumber: 8.6 Consensus size: 5
9019985 ACACGTGACA
* *
9019995 TTTTG GTTTG TTTTG TTTTG TTTT- TTTTT TTTTG TTGTTG TTT
1 TTTTG TTTTG TTTTG TTTTG TTTTG TTTTG TTTTG TT-TTG TTT
9020038 ATATCTTCCA
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
4 4 0.12
5 24 0.73
6 5 0.15
ACGTcount: A:0.00, C:0.00, G:0.19, T:0.81
Consensus pattern (5 bp):
TTTTG
Found at i:9020022 original size:14 final size:15
Alignment explanation
Indices: 9019995--9020037 Score: 52
Period size: 14 Copynumber: 2.9 Consensus size: 15
9019985 ACACGTGACA
*
9019995 TTTTGGTTTGTTTTG
1 TTTTGTTTTGTTTTG
*
9020010 TTTTGTTTT-TTTTT
1 TTTTGTTTTGTTTTG
9020024 TTTTGTTGTTGTTT
1 TTTTGTT-TTGTTT
9020038 ATATCTTCCA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
14 11 0.46
15 10 0.42
16 3 0.12
ACGTcount: A:0.00, C:0.00, G:0.19, T:0.81
Consensus pattern (15 bp):
TTTTGTTTTGTTTTG
Found at i:9022069 original size:22 final size:23
Alignment explanation
Indices: 9022028--9022071 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 23
9022018 GTTTGACAGA
*
9022028 AAATTAATTGATTAATGAAAAAC
1 AAATTAATTGATCAATGAAAAAC
9022051 AAATTAATT-ATCAATGAAAAA
1 AAATTAATTGATCAATGAAAAA
9022072 TGATATCATT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
22 11 0.55
23 9 0.45
ACGTcount: A:0.59, C:0.05, G:0.07, T:0.30
Consensus pattern (23 bp):
AAATTAATTGATCAATGAAAAAC
Found at i:9022233 original size:30 final size:28
Alignment explanation
Indices: 9022181--9022498 Score: 139
Period size: 28 Copynumber: 11.2 Consensus size: 28
9022171 AATTCTACTT
*
9022181 ATAAATAATATTA-TATTATAATATATTA
1 ATAAA-AATATTATTAATATAATATATTA
*
9022209 ATAAACAGTATTATTTAATATAATATATTA
1 ATAAA-AATATTA-TTAATATAATATATTA
*
9022239 ATAAAAATATTAATAA-ATAATATATTA
1 ATAAAAATATTATTAATATAATATATTA
* * *
9022266 ATAAATATTATTATAAATA-AATATATGCGA
1 ATAAA-AATATTATTAATATAATATAT--TA
* * *
9022296 AT-ATATTAATATTAATA-AATAATATTA
1 ATAAAAATATTATTAATATAAT-ATATTA
** * *
9022323 ATATTAATA-AATAAATCATAATATATTA
1 ATAAAAATATTATTAAT-ATAATATATTA
* *
9022351 AT-ATAATA-TATCAATA-AATAATATT-
1 ATAAAAATATTATTAATATAAT-ATATTA
* *
9022376 AT-AATATATTAATAA-ATAATATA-TA
1 ATAAAAATATTATTAATATAATATATTA
9022401 A-AAAAATTATTAATTTAAT-TAATAAATATT-
1 ATAAAAA-TATT-A-TTAATATAAT--ATATTA
* * *
9022431 ACAATAATA-TATGAATAAATAAGATATTATTA
1 ATAAAAATATTATTAAT--AT-A-ATA-TATTA
9022463 ATAAATAATATACTATTAATATAATATATTA
1 ATAAA-AATAT--TATTAATATAATATATTA
9022494 ATAAA
1 ATAAA
9022499 TAACATTAAG
Statistics
Matches: 225, Mismatches: 31, Indels: 65
0.70 0.10 0.20
Matches are distributed among these distances:
24 1 0.00
25 17 0.08
26 17 0.08
27 39 0.17
28 64 0.28
29 16 0.07
30 30 0.13
31 20 0.09
32 8 0.04
33 5 0.02
34 2 0.01
36 6 0.03
ACGTcount: A:0.56, C:0.02, G:0.02, T:0.40
Consensus pattern (28 bp):
ATAAAAATATTATTAATATAATATATTA
Found at i:9022309 original size:6 final size:6
Alignment explanation
Indices: 9022298--9022331 Score: 50
Period size: 6 Copynumber: 5.5 Consensus size: 6
9022288 ATATGCGAAT
*
9022298 ATATTA ATATTA ATAAATA ATATTA ATATTA ATA
1 ATATTA ATATTA AT-ATTA ATATTA ATATTA ATA
9022332 AATAAATCAT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
6 20 0.80
7 5 0.20
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (6 bp):
ATATTA
Found at i:9022346 original size:47 final size:47
Alignment explanation
Indices: 9022300--9022397 Score: 62
Period size: 50 Copynumber: 2.0 Consensus size: 47
9022290 ATGCGAATAT
*
9022300 ATTAATATTAATAAAT-AAT-ATTAATATTAATAA-ATAAATCATAAT-AT
1 ATTAATATTAATAAATAAATCA-TAATA-TAATAATATTAAT-A-AATAAT
* * *
9022347 ATTAATATAATATATCAATAAATAATATTATAAT-ATATTAATAAATAAT
1 ATTAATAT--TA-ATAAATAAATCATAATATAATAATATTAATAAATAAT
9022396 AT
1 AT
9022398 ATAAAAAAAT
Statistics
Matches: 41, Mismatches: 3, Indels: 12
0.73 0.05 0.21
Matches are distributed among these distances:
47 8 0.20
48 3 0.07
49 8 0.20
50 14 0.34
51 7 0.17
52 1 0.02
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.41
Consensus pattern (47 bp):
ATTAATATTAATAAATAAATCATAATATAATAATATTAATAAATAAT
Found at i:9022358 original size:23 final size:23
Alignment explanation
Indices: 9022295--9022381 Score: 88
Period size: 23 Copynumber: 3.7 Consensus size: 23
9022285 AATATATGCG
*
9022295 AATATATTAATATTAATAAATAAT
1 AATATATTAATA-TAATAAATCAT
*
9022319 ATTAATATTAATA-AATAAATCAT
1 AAT-ATATTAATATAATAAATCAT
*
9022342 AATATATTAATATAATATATCAAT
1 AATATATTAATATAATAAATC-AT
* *
9022366 AA-ATAATATTATAATA
1 AATATATTAATATAATA
9022382 TATTAATAAA
Statistics
Matches: 54, Mismatches: 6, Indels: 7
0.81 0.09 0.10
Matches are distributed among these distances:
22 9 0.17
23 30 0.56
24 6 0.11
25 9 0.17
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.40
Consensus pattern (23 bp):
AATATATTAATATAATAAATCAT
Found at i:9022382 original size:23 final size:23
Alignment explanation
Indices: 9022321--9022401 Score: 85
Period size: 23 Copynumber: 3.5 Consensus size: 23
9022311 TAAATAATAT
*
9022321 TAATATTAATAAATAAATC-ATAATA
1 TAATATT-AT-AATATATCAATAA-A
* *
9022346 TATTAATATAATATATCAATAAA
1 TAATATTATAATATATCAATAAA
*
9022369 TAATATTATAATATATTAATAAA
1 TAATATTATAATATATCAATAAA
9022392 TAATA-TATAA
1 TAATATTATAA
9022402 AAAAATTATT
Statistics
Matches: 49, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
22 5 0.10
23 33 0.67
24 6 0.12
25 5 0.10
ACGTcount: A:0.58, C:0.02, G:0.00, T:0.40
Consensus pattern (23 bp):
TAATATTATAATATATCAATAAA
Found at i:9022425 original size:58 final size:56
Alignment explanation
Indices: 9022295--9022541 Score: 153
Period size: 58 Copynumber: 4.5 Consensus size: 56
9022285 AATATATGCG
* * *
9022295 AATATATTAATATTAATAAATAATAT-T-A-ATATTAATAAATAAATCATAATATATT
1 AATATAAT-ATATTAATAAATAATATATAATATATTAATAAATAAAT-ATAAAAAATT
*
9022350 AATATAATATATCAATAAATAATATTATAATATATTAATAAATAATATATAAAAAAATT
1 AATATAATATATTAATAAATAATA-TATAATATATTAATAAATAA-ATAT-AAAAAATT
* * * * * **
9022409 -AT-TAATTTAATTAATAAATATTACAATAATATATGAATAAATAAGATATTATTAA-T
1 AATATAATAT-ATTAATAAATAATA-TATAATATATTAATAAATAA-ATATAAAAAATT
* *
9022465 AA-ATAATATACT-AT---T-A-ATATAATATATTAATAAATAACAT-TAAGAAATAAT
1 AATATAATATATTAATAAATAATATATAATATATTAATAAATAA-ATATAA-AAA-ATT
* * *
9022516 ATTATAAGATATGAATAAATAATATA
1 AATATAATATATTAATAAATAATATA
9022542 AAGAATAATA
Statistics
Matches: 146, Mismatches: 27, Indels: 35
0.70 0.13 0.17
Matches are distributed among these distances:
48 2 0.01
49 21 0.14
50 2 0.01
51 2 0.01
52 8 0.05
53 2 0.01
54 15 0.10
55 10 0.07
56 5 0.03
57 16 0.11
58 55 0.38
59 8 0.05
ACGTcount: A:0.57, C:0.02, G:0.02, T:0.38
Consensus pattern (56 bp):
AATATAATATATTAATAAATAATATATAATATATTAATAAATAAATATAAAAAATT
Found at i:9022506 original size:13 final size:13
Alignment explanation
Indices: 9022181--9022540 Score: 160
Period size: 13 Copynumber: 27.8 Consensus size: 13
9022171 AATTCTACTT
9022181 ATAAATAATATTA
1 ATAAATAATATTA
9022194 TATTATAAT-ATATTA
1 -A-TA-AATAATATTA
*
9022209 ATAAACAGTATTATTTA
1 AT-AA-A-TAATA-TTA
9022226 ATATAAT-ATATTA
1 ATA-AATAATATTA
9022239 ATAAA-AATATTA
1 ATAAATAATATTA
9022251 ATAAATAATATATTA
1 ATAAAT-A-ATATTA
*
9022266 ATAAATATTATT-
1 ATAAATAATATTA
9022278 ATAAATAAATATATGCGA
1 ATAAAT-AATAT-T---A
*
9022296 ATATATTAATATTA
1 ATA-AATAATATTA
9022310 ATAAATAATATTA
1 ATAAATAATATTA
*
9022323 ATATTAATAA-ATAA
1 ATA--AATAATATTA
9022337 ATCATAAT-ATATTA
1 AT-A-AATAATATTA
*
9022351 ATATAAT-ATATCA
1 ATA-AATAATATTA
9022364 ATAAATAATATT-
1 ATAAATAATATTA
9022376 AT-AAT-ATATTA
1 ATAAATAATATTA
9022387 ATAAATAATA-T-
1 ATAAATAATATTA
*
9022398 ATAAA-AAAATTA
1 ATAAATAATATTA
* * *
9022410 TTAATTTA-ATTA
1 ATAAATAATATTA
* *
9022422 ATAAATATTA-CA
1 ATAAATAATATTA
*
9022434 AT-AAT-ATATGA
1 ATAAATAATATTA
9022445 ATAAATAAGATATT-
1 ATAAAT-A-ATATTA
*
9022459 ATTAATAA-A-TA
1 ATAAATAATATTA
*
9022470 AT--ATACTATTA
1 ATAAATAATATTA
9022481 ATATAAT-ATATTA
1 ATA-AATAATATTA
*
9022494 ATAAATAACATTA
1 ATAAATAATATTA
*
9022507 AGAAATAATATT-
1 ATAAATAATATTA
* *
9022519 AT-AA-GATATGA
1 ATAAATAATATTA
9022530 ATAAATAATAT
1 ATAAATAATAT
9022541 AAAGAATAAT
Statistics
Matches: 268, Mismatches: 32, Indels: 93
0.68 0.08 0.24
Matches are distributed among these distances:
9 3 0.01
10 16 0.06
11 28 0.10
12 52 0.19
13 79 0.29
14 34 0.13
15 32 0.12
16 7 0.03
17 7 0.03
18 8 0.03
19 2 0.01
ACGTcount: A:0.56, C:0.02, G:0.02, T:0.39
Consensus pattern (13 bp):
ATAAATAATATTA
Found at i:9022533 original size:36 final size:35
Alignment explanation
Indices: 9022482--9022551 Score: 95
Period size: 36 Copynumber: 2.0 Consensus size: 35
9022472 ATACTATTAA
* * *
9022482 TATAATATATTAATAAATAACATTAAGAAATAATAT
1 TATAAGATATGAATAAATAACATAAAG-AATAATAT
*
9022518 TATAAGATATGAATAAATAATATAAAGAATAATA
1 TATAAGATATGAATAAATAACATAAAGAATAATA
9022552 AATAGTTTTA
Statistics
Matches: 30, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
35 7 0.23
36 23 0.77
ACGTcount: A:0.60, C:0.01, G:0.06, T:0.33
Consensus pattern (35 bp):
TATAAGATATGAATAAATAACATAAAGAATAATAT
Found at i:9022551 original size:19 final size:23
Alignment explanation
Indices: 9022509--9022555 Score: 66
Period size: 19 Copynumber: 2.2 Consensus size: 23
9022499 TAACATTAAG
9022509 AAATAATATTATAAGATATGAAT
1 AAATAATATTATAAGATATGAAT
9022532 AAATAATA-TA-AAGA-AT-AAT
1 AAATAATATTATAAGATATGAAT
9022551 AAATA
1 AAATA
9022556 GTTTTATTTT
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
19 8 0.33
20 2 0.08
21 4 0.17
22 2 0.08
23 8 0.33
ACGTcount: A:0.64, C:0.00, G:0.06, T:0.30
Consensus pattern (23 bp):
AAATAATATTATAAGATATGAAT
Found at i:9022594 original size:20 final size:20
Alignment explanation
Indices: 9022572--9022639 Score: 65
Period size: 19 Copynumber: 3.6 Consensus size: 20
9022562 TTTTAAGTAT
*
9022572 TTTTTATATT-AATATTATA
1 TTTTAATATTAAATATTATA
9022591 TTTTAATATTAAATATTAT-
1 TTTTAATATTAAATATTATA
* *
9022610 TATTAAAATATAAATA-T-T-
1 TTTTAATAT-TAAATATTATA
9022628 TTTTAATATTAA
1 TTTTAATATTAA
9022640 TAATTTTAAT
Statistics
Matches: 42, Mismatches: 5, Indels: 6
0.79 0.09 0.11
Matches are distributed among these distances:
17 3 0.07
18 8 0.19
19 17 0.40
20 14 0.33
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (20 bp):
TTTTAATATTAAATATTATA
Found at i:9022642 original size:20 final size:19
Alignment explanation
Indices: 9022569--9022638 Score: 51
Period size: 18 Copynumber: 3.8 Consensus size: 19
9022559 TTATTTTAAG
*
9022569 TATTTTTT-ATATTA-ATAT
1 TATTTTTTAATATTATA-AA
*
9022587 TATATTTTAATA-T-TAAA
1 TATTTTTTAATATTATAAA
*
9022604 TATTATTATTAA-AATATAAA
1 TATT-TT-TTAATATTATAAA
9022624 TATTTTTTAATATTA
1 TATTTTTTAATATTA
9022639 ATAATTTTAA
Statistics
Matches: 41, Mismatches: 4, Indels: 13
0.71 0.07 0.22
Matches are distributed among these distances:
17 4 0.10
18 16 0.39
19 13 0.32
20 8 0.20
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (19 bp):
TATTTTTTAATATTATAAA
Found at i:9022657 original size:16 final size:16
Alignment explanation
Indices: 9022590--9022693 Score: 69
Period size: 16 Copynumber: 6.6 Consensus size: 16
9022580 TTAATATTAT
*
9022590 ATTTTAATATTAAATA
1 ATTTTAATAATAAATA
*
9022606 TTATTATTAAAATATAAATA
1 --ATT-TTAATA-ATAAATA
* *
9022626 TTTTTTAAT-ATTAATA
1 -ATTTTAATAATAAATA
9022642 ATTTTAATAATAAATA
1 ATTTTAATAATAAATA
9022658 A-TTT--TAAT--AT-
1 ATTTTAATAATAAATA
9022668 ATTTTAATAATAAATA
1 ATTTTAATAATAAATA
9022684 ATTTTTAATA
1 A-TTTTAATA
9022694 TTTTAATAGT
Statistics
Matches: 69, Mismatches: 7, Indels: 21
0.71 0.07 0.22
Matches are distributed among these distances:
10 1 0.01
11 5 0.07
13 8 0.12
15 12 0.17
16 14 0.20
17 8 0.12
18 7 0.10
19 8 0.12
20 6 0.09
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (16 bp):
ATTTTAATAATAAATA
Found at i:9022659 original size:25 final size:25
Alignment explanation
Indices: 9022631--9022701 Score: 108
Period size: 25 Copynumber: 2.8 Consensus size: 25
9022621 AAATATTTTT
*
9022631 TAATATTAATAATTTTAATAATAAA
1 TAATTTTAATAATTTTAATAATAAA
9022656 TAATTTTAATATATTTTAATAATAAA
1 TAATTTTAATA-ATTTTAATAATAAA
9022682 TAATTTTTAAT-ATTTTAATA
1 TAA-TTTTAATAATTTTAATA
9022702 GTTATACTAA
Statistics
Matches: 43, Mismatches: 1, Indels: 4
0.90 0.02 0.08
Matches are distributed among these distances:
25 19 0.44
26 17 0.40
27 7 0.16
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (25 bp):
TAATTTTAATAATTTTAATAATAAA
Found at i:9022671 original size:10 final size:9
Alignment explanation
Indices: 9022631--9022701 Score: 62
Period size: 9 Copynumber: 8.2 Consensus size: 9
9022621 AAATATTTTT
*
9022631 TAATATTAA
1 TAATTTTAA
9022640 TAATTTTAA
1 TAATTTTAA
*
9022649 TAA--TAAA
1 TAATTTTAA
9022656 TAATTTTAA
1 TAATTTTAA
9022665 TATATTTTAA
1 TA-ATTTTAA
*
9022675 TAA--TAAA
1 TAATTTTAA
9022682 TAATTTTTAA
1 TAA-TTTTAA
9022692 T-ATTTTAA
1 TAATTTTAA
9022700 TA
1 TA
9022702 GTTATACTAA
Statistics
Matches: 50, Mismatches: 5, Indels: 14
0.72 0.07 0.20
Matches are distributed among these distances:
7 12 0.24
8 7 0.14
9 18 0.36
10 13 0.26
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (9 bp):
TAATTTTAA
Found at i:9022677 original size:26 final size:26
Alignment explanation
Indices: 9022631--9022701 Score: 110
Period size: 26 Copynumber: 2.8 Consensus size: 26
9022621 AAATATTTTT
*
9022631 TAATATTAATA-ATTTTAATAATAAA
1 TAATTTTAATATATTTTAATAATAAA
9022656 TAATTTTAATATATTTTAATAATAAA
1 TAATTTTAATATATTTTAATAATAAA
*
9022682 TAATTTTTA-ATATTTTAATA
1 TAATTTTAATATATTTTAATA
9022702 GTTATACTAA
Statistics
Matches: 43, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
25 21 0.49
26 22 0.51
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (26 bp):
TAATTTTAATATATTTTAATAATAAA
Found at i:9030924 original size:15 final size:15
Alignment explanation
Indices: 9030904--9030934 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
9030894 ACAATTTCGA
9030904 AATTCAAAGGTTCAC
1 AATTCAAAGGTTCAC
*
9030919 AATTCAAAGTTTCAC
1 AATTCAAAGGTTCAC
9030934 A
1 A
9030935 CGAACTCAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.42, C:0.19, G:0.10, T:0.29
Consensus pattern (15 bp):
AATTCAAAGGTTCAC
Found at i:9031417 original size:24 final size:25
Alignment explanation
Indices: 9031382--9031439 Score: 75
Period size: 24 Copynumber: 2.4 Consensus size: 25
9031372 TCTCACTCCC
*
9031382 AGATTCTCATTTAAAACTT-CTT-AA
1 AGATTCTTATTTAAAA-TTCCTTAAA
9031406 AGATTCTTATTTAAAATTCCTTAAA
1 AGATTCTTATTTAAAATTCCTTAAA
*
9031431 AGCTTCTTA
1 AGATTCTTA
9031440 AAGATTCTCA
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
23 2 0.07
24 18 0.60
25 10 0.33
ACGTcount: A:0.36, C:0.16, G:0.05, T:0.43
Consensus pattern (25 bp):
AGATTCTTATTTAAAATTCCTTAAA
Found at i:9031438 original size:35 final size:34
Alignment explanation
Indices: 9031392--9031465 Score: 112
Period size: 35 Copynumber: 2.1 Consensus size: 34
9031382 AGATTCTCAT
* *
9031392 TTAAAACTTCTTAAAGATTCTTATTTAAAATTCC
1 TTAAAACTTCTTAAAGATTCTCATTTAAAACTCC
*
9031426 TTAAAAGCTTCTTAAAGATTCTCATTTAAAACTCT
1 TTAAAA-CTTCTTAAAGATTCTCATTTAAAACTCC
9031461 TTAAA
1 TTAAA
9031466 GATTCTCATT
Statistics
Matches: 36, Mismatches: 3, Indels: 1
0.90 0.08 0.03
Matches are distributed among these distances:
34 6 0.17
35 30 0.83
ACGTcount: A:0.39, C:0.15, G:0.04, T:0.42
Consensus pattern (34 bp):
TTAAAACTTCTTAAAGATTCTCATTTAAAACTCC
Found at i:9031491 original size:48 final size:48
Alignment explanation
Indices: 9031425--9031552 Score: 193
Period size: 48 Copynumber: 2.6 Consensus size: 48
9031415 TTTAAAATTC
*
9031425 CTTAAAAGCTTCTTAAAGATTCTCATTTAAAACTCTTTAAAGATTCTCA
1 CTTAAAA-CTTCTTAAAGATTCTCATTTAAAACTCCTTAAAGATTCTCA
* * * *
9031474 TTTAAAACTTCTTAAAGATTCTCACTTAAAAGTCCTTATAGATTCTCA
1 CTTAAAACTTCTTAAAGATTCTCATTTAAAACTCCTTAAAGATTCTCA
*
9031522 CTTAAAATTTCTTAAAGATTCTCATTTAAAA
1 CTTAAAACTTCTTAAAGATTCTCATTTAAAA
9031553 TTTTTAACAT
Statistics
Matches: 71, Mismatches: 8, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
48 65 0.92
49 6 0.08
ACGTcount: A:0.38, C:0.17, G:0.05, T:0.40
Consensus pattern (48 bp):
CTTAAAACTTCTTAAAGATTCTCATTTAAAACTCCTTAAAGATTCTCA
Found at i:9031553 original size:24 final size:24
Alignment explanation
Indices: 9031434--9031559 Score: 166
Period size: 24 Copynumber: 5.3 Consensus size: 24
9031424 CCTTAAAAGC
9031434 TTCTTAAAGATTCTCATTTAAAA-
1 TTCTTAAAGATTCTCATTTAAAAT
* *
9031457 CTCTTTAAAGATTCTCATTTAAAAC
1 TTC-TTAAAGATTCTCATTTAAAAT
* *
9031482 TTCTTAAAGATTCTCACTTAAAAG
1 TTCTTAAAGATTCTCATTTAAAAT
* * *
9031506 TCCTTATAGATTCTCACTTAAAAT
1 TTCTTAAAGATTCTCATTTAAAAT
9031530 TTCTTAAAGATTCTCATTTAAAAT
1 TTCTTAAAGATTCTCATTTAAAAT
9031554 TT-TTAA
1 TTCTTAA
9031560 CATTAAAAAT
Statistics
Matches: 91, Mismatches: 10, Indels: 4
0.87 0.10 0.04
Matches are distributed among these distances:
23 6 0.07
24 83 0.91
25 2 0.02
ACGTcount: A:0.37, C:0.16, G:0.05, T:0.43
Consensus pattern (24 bp):
TTCTTAAAGATTCTCATTTAAAAT
Found at i:9032170 original size:79 final size:79
Alignment explanation
Indices: 9032034--9032185 Score: 234
Period size: 79 Copynumber: 1.9 Consensus size: 79
9032024 CTTTTTAGCA
* * * *
9032034 TCTCGGCACTAATAATTTTAGAACAAATTTCGTCACTTGATCCACATTATTTTCATCATTTGATC
1 TCTCAGCACTAACAATTTCAGAACAAATTTCGTCACTTGATCCACATTATTTCCATCATTTGATC
9032099 ACAACTCACAAGCT
66 ACAACTCACAAGCT
* *
9032113 TCTCAGCACTAACAATTTCAGAACAAATTTTGTCTAC-TGATCCATATTATTTCCATCATTTGAT
1 TCTCAGCACTAACAATTTCAGAACAAATTTCGTC-ACTTGATCCACATTATTTCCATCATTTGAT
9032177 CACAACTCA
65 CACAACTCA
9032186 TAGGTTATGT
Statistics
Matches: 66, Mismatches: 6, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
79 64 0.97
80 2 0.03
ACGTcount: A:0.32, C:0.24, G:0.08, T:0.36
Consensus pattern (79 bp):
TCTCAGCACTAACAATTTCAGAACAAATTTCGTCACTTGATCCACATTATTTCCATCATTTGATC
ACAACTCACAAGCT
Found at i:9032816 original size:26 final size:24
Alignment explanation
Indices: 9032785--9032834 Score: 82
Period size: 24 Copynumber: 2.0 Consensus size: 24
9032775 TTTTTTTTTA
*
9032785 CATTTTTTCTATTTTTTTCATCTCT
1 CATTTTTT-TCTTTTTTTCATCTCT
9032810 CATTTTTTTCTTTTTTTCATCTCT
1 CATTTTTTTCTTTTTTTCATCTCT
9032834 C
1 C
9032835 TTCATTTTTC
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
24 16 0.67
25 8 0.33
ACGTcount: A:0.10, C:0.22, G:0.00, T:0.68
Consensus pattern (24 bp):
CATTTTTTTCTTTTTTTCATCTCT
Found at i:9032835 original size:26 final size:25
Alignment explanation
Indices: 9032785--9032855 Score: 81
Period size: 24 Copynumber: 2.7 Consensus size: 25
9032775 TTTTTTTTTA
*
9032785 CATTTTTTCTATTTTTTTCATCTC-T
1 CATTTTTT-TCTTTTTTTCATCTCTT
9032810 CATTTTTTTCTTTTTTTCATCTCTCTT
1 CATTTTTTTCTTTTTTTCA--TCTCTT
9032837 CATTTTTCATTCTTTTTTT
1 CATTTTT--TTCTTTTTTT
9032856 TTTCAATTTT
Statistics
Matches: 40, Mismatches: 1, Indels: 6
0.85 0.02 0.13
Matches are distributed among these distances:
24 10 0.25
25 8 0.20
26 4 0.10
27 8 0.20
29 10 0.25
ACGTcount: A:0.10, C:0.20, G:0.00, T:0.70
Consensus pattern (25 bp):
CATTTTTTTCTTTTTTTCATCTCTT
Found at i:9035761 original size:11 final size:12
Alignment explanation
Indices: 9035745--9035903 Score: 50
Period size: 13 Copynumber: 13.4 Consensus size: 12
9035735 TAAATATAAA
9035745 TAATAT-TATAT
1 TAATATATATAT
9035756 TAATATAATATAT
1 TAATAT-ATATAT
* * *
9035769 TAATAAAAATCT
1 TAATATATATAT
*
9035781 TAATAAATAATATCT
1 TAAT--AT-ATATAT
9035796 TAATA-A-ATAT
1 TAATATATATAT
*
9035806 T-AT-TATA-AA
1 TAATATATATAT
*
9035815 TAA-ATATATAC
1 TAATATATATAT
*
9035826 GAATATATTAATAT
1 TAATATA-T-ATAT
* * *
9035840 TAATAAATAAAA
1 TAATATATATAT
*
9035852 TCATA-ATATAT
1 TAATATATATAT
*
9035863 TAATACAATATAT
1 TAATA-TATATAT
* *
9035876 CAATAAATAATAT
1 TAATATAT-ATAT
9035889 T-ATA-ATATAT
1 TAATATATATAT
9035899 TAATA
1 TAATA
9035904 AATAATATAT
Statistics
Matches: 111, Mismatches: 20, Indels: 34
0.67 0.12 0.21
Matches are distributed among these distances:
9 5 0.05
10 15 0.14
11 23 0.21
12 23 0.21
13 27 0.24
14 9 0.08
15 9 0.08
ACGTcount: A:0.55, C:0.04, G:0.01, T:0.40
Consensus pattern (12 bp):
TAATATATATAT
Found at i:9035785 original size:12 final size:13
Alignment explanation
Indices: 9035755--9035802 Score: 53
Period size: 13 Copynumber: 3.6 Consensus size: 13
9035745 TAATATTATA
* *
9035755 TTAATATAATATA
1 TTAATAAAATATC
9035768 TTAATAAAA-ATC
1 TTAATAAAATATC
9035780 TTAATAAATAATATC
1 TTAAT-AA-AATATC
9035795 TTAATAAA
1 TTAATAAA
9035803 TATTATTATA
Statistics
Matches: 30, Mismatches: 2, Indels: 6
0.79 0.05 0.16
Matches are distributed among these distances:
12 7 0.23
13 11 0.37
14 4 0.13
15 8 0.27
ACGTcount: A:0.56, C:0.04, G:0.00, T:0.40
Consensus pattern (13 bp):
TTAATAAAATATC
Found at i:9035797 original size:15 final size:15
Alignment explanation
Indices: 9035740--9035804 Score: 66
Period size: 15 Copynumber: 4.5 Consensus size: 15
9035730 ATAAATAAAT
9035740 ATAAATAATAT-TATA
1 ATAAATAATATCT-TA
* *
9035755 TTAATATAATATATTA
1 ATAA-ATAATATCTTA
9035771 AT-AA-AA-ATCTTA
1 ATAAATAATATCTTA
9035783 ATAAATAATATCTTA
1 ATAAATAATATCTTA
9035798 ATAAATA
1 ATAAATA
9035805 TTATTATAAA
Statistics
Matches: 42, Mismatches: 3, Indels: 10
0.76 0.05 0.18
Matches are distributed among these distances:
12 7 0.17
13 4 0.10
14 3 0.07
15 17 0.40
16 10 0.24
17 1 0.02
ACGTcount: A:0.57, C:0.03, G:0.00, T:0.40
Consensus pattern (15 bp):
ATAAATAATATCTTA
Found at i:9035804 original size:12 final size:13
Alignment explanation
Indices: 9035755--9035805 Score: 52
Period size: 12 Copynumber: 3.9 Consensus size: 13
9035745 TAATATTATA
*
9035755 TTAATATAATATA
1 TTAATATAATATC
*
9035768 TTAATA-AAAATC
1 TTAATATAATATC
9035780 TTAATAAATAATATC
1 TTAAT--ATAATATC
9035795 TTAATA-AATAT
1 TTAATATAATAT
9035806 TATTATAAAT
Statistics
Matches: 32, Mismatches: 3, Indels: 7
0.76 0.07 0.17
Matches are distributed among these distances:
12 14 0.44
13 7 0.22
14 1 0.03
15 10 0.31
ACGTcount: A:0.55, C:0.04, G:0.00, T:0.41
Consensus pattern (13 bp):
TTAATATAATATC
Found at i:9035875 original size:15 final size:14
Alignment explanation
Indices: 9035857--9036033 Score: 63
Period size: 13 Copynumber: 12.6 Consensus size: 14
9035847 TAAAATCATA
*
9035857 ATATATTAATACA-
1 ATATATTAATAAAT
*
9035870 ATATATCAATAAAT
1 ATATATTAATAAAT
9035884 A-ATATT-AT--A-
1 ATATATTAATAAAT
9035893 ATATATTAATAAAT
1 ATATATTAATAAAT
*
9035907 AATATATTAAAAAAT
1 -ATATATTAATAAAT
*
9035922 -TATTAATTTAATTAAT
1 ATA-T-A-TTAATAAAT
* *
9035938 AAATATT-A-CAAT
1 ATATATTAATAAAT
* *
9035950 ACTACATGAATAAAT
1 A-TATATTAATAAAT
9035965 AAGATATTATTAATAAAT
1 ---ATA-TATTAATAAAT
*
9035983 AATATACT-ATCAATAT
1 -ATATATTAAT-AA-AT
9035999 AATATATTAATAAAT
1 -ATATATTAATAAAT
*
9036014 A-ATATTAAGAAAT
1 ATATATTAATAAAT
9036027 A-ATATTA
1 ATATATTA
9036034 TAGTATATGA
Statistics
Matches: 125, Mismatches: 18, Indels: 42
0.68 0.10 0.23
Matches are distributed among these distances:
9 1 0.01
10 6 0.05
11 2 0.02
12 6 0.05
13 40 0.32
14 8 0.06
15 25 0.20
16 22 0.18
17 5 0.04
18 10 0.08
ACGTcount: A:0.56, C:0.04, G:0.02, T:0.38
Consensus pattern (14 bp):
ATATATTAATAAAT
Found at i:9035881 original size:36 final size:35
Alignment explanation
Indices: 9035836--9035907 Score: 108
Period size: 36 Copynumber: 2.0 Consensus size: 35
9035826 GAATATATTA
*
9035836 ATATTAATAAATAAAATCATAATATATTAATACAAT
1 ATATCAATAAATAAAATCATAATATATTAATA-AAT
* *
9035872 ATATCAATAAATAATATTATAATATATTAATAAAT
1 ATATCAATAAATAAAATCATAATATATTAATAAAT
9035907 A
1 A
9035908 ATATATTAAA
Statistics
Matches: 33, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
35 4 0.12
36 29 0.88
ACGTcount: A:0.58, C:0.04, G:0.00, T:0.38
Consensus pattern (35 bp):
ATATCAATAAATAAAATCATAATATATTAATAAAT
Found at i:9035923 original size:23 final size:23
Alignment explanation
Indices: 9035854--9035923 Score: 61
Period size: 23 Copynumber: 2.8 Consensus size: 23
9035844 AAATAAAATC
9035854 ATAATATATTAATACAATATATCAATAA
1 ATAATATATTAA-A-AA-AT-T-AATAA
* *
9035882 ATAATAT-TATAATATATTAATAA
1 ATAATATAT-TAAAAAATTAATAA
9035905 ATAATATATTAAAAAATTA
1 ATAATATATTAAAAAATTA
9035924 TTAATTTAAT
Statistics
Matches: 36, Mismatches: 4, Indels: 9
0.73 0.08 0.18
Matches are distributed among these distances:
23 20 0.56
24 2 0.06
25 2 0.06
26 1 0.03
27 1 0.03
28 10 0.28
ACGTcount: A:0.59, C:0.03, G:0.00, T:0.39
Consensus pattern (23 bp):
ATAATATATTAAAAAATTAATAA
Found at i:9035997 original size:18 final size:16
Alignment explanation
Indices: 9035958--9036055 Score: 60
Period size: 18 Copynumber: 5.8 Consensus size: 16
9035948 ATACTACATG
*
9035958 AATAAATAAGATATTATT
1 AATAAATAATATA-TA-T
9035976 AATAAATAATATACTAT
1 AATAAATAATATA-TAT
9035993 CAAT--ATAATATAT-T
1 -AATAAATAATATATAT
*
9036007 AATAAATAATAT-TAAGA
1 AATAAATAATATAT-A-T
*
9036024 AATAATATTATAGTATAT
1 AATAA-ATAATA-TATAT
9036042 GAATAAATAATATA
1 -AATAAATAATATA
9036056 AAGAATAATA
Statistics
Matches: 64, Mismatches: 6, Indels: 21
0.70 0.07 0.23
Matches are distributed among these distances:
13 3 0.05
14 2 0.03
15 8 0.12
16 8 0.12
17 8 0.12
18 27 0.42
19 7 0.11
20 1 0.02
ACGTcount: A:0.57, C:0.02, G:0.04, T:0.37
Consensus pattern (16 bp):
AATAAATAATATATAT
Found at i:9036018 original size:13 final size:13
Alignment explanation
Indices: 9035962--9036054 Score: 59
Period size: 13 Copynumber: 6.9 Consensus size: 13
9035952 TACATGAATA
*
9035962 AATAAGATATTATT
1 AATAA-ATAATATT
9035976 AATAAATAATA-T
1 AATAAATAATATT
9035988 ACTATCAATATAATATATT
1 A--AT-AA-AT-A-ATATT
9036007 AATAAATAATATT
1 AATAAATAATATT
*
9036020 AAGAAATAATATT
1 AATAAATAATATT
* *
9036033 -AT-AGT-ATATG
1 AATAAATAATATT
9036043 AATAAATAATAT
1 AATAAATAATAT
9036055 AAAGAATAAT
Statistics
Matches: 63, Mismatches: 6, Indels: 21
0.70 0.07 0.23
Matches are distributed among these distances:
10 4 0.06
11 4 0.06
12 5 0.08
13 26 0.41
14 8 0.13
15 4 0.06
16 4 0.06
17 3 0.05
18 3 0.05
19 2 0.03
ACGTcount: A:0.56, C:0.02, G:0.04, T:0.38
Consensus pattern (13 bp):
AATAAATAATATT
Found at i:9036041 original size:36 final size:35
Alignment explanation
Indices: 9035996--9036065 Score: 104
Period size: 36 Copynumber: 2.0 Consensus size: 35
9035986 ATACTATCAA
* *
9035996 TATAATATATTAATAAATAATATTAAGAAATAATAT
1 TATAATATATGAATAAATAATATAAAG-AATAATAT
*
9036032 TATAGTATATGAATAAATAATATAAAGAATAATA
1 TATAATATATGAATAAATAATATAAAGAATAATA
9036066 AATAGTTTTA
Statistics
Matches: 31, Mismatches: 3, Indels: 1
0.89 0.09 0.03
Matches are distributed among these distances:
35 7 0.23
36 24 0.77
ACGTcount: A:0.59, C:0.00, G:0.06, T:0.36
Consensus pattern (35 bp):
TATAATATATGAATAAATAATATAAAGAATAATAT
Found at i:9036113 original size:19 final size:18
Alignment explanation
Indices: 9036086--9036155 Score: 56
Period size: 18 Copynumber: 3.8 Consensus size: 18
9036076 TTTTAAGTAT
*
9036086 TTTTTATATTAATACAATA
1 TTTTAATATTAATA-AATA
*
9036105 TTTTAATATTAA-ATATTA
1 TTTTAATATTAATA-AATA
*
9036123 TTTTAA-AAT-ATAAATA
1 TTTTAATATTAATAAATA
9036139 TTTTTTAATATTAATAA
1 --TTTTAATATTAATAA
9036156 TTTTAATAAT
Statistics
Matches: 40, Mismatches: 6, Indels: 9
0.73 0.11 0.16
Matches are distributed among these distances:
16 4 0.10
17 3 0.08
18 16 0.40
19 13 0.32
20 4 0.10
ACGTcount: A:0.46, C:0.01, G:0.00, T:0.53
Consensus pattern (18 bp):
TTTTAATATTAATAAATA
Found at i:9036121 original size:15 final size:15
Alignment explanation
Indices: 9036101--9036180 Score: 54
Period size: 18 Copynumber: 4.9 Consensus size: 15
9036091 ATATTAATAC
9036101 AATATTTTAATATTAA
1 AATATTTTAATATT-A
*
9036117 ATATTATTTTAAAATATA
1 A-A-TATTTTAATAT-TA
9036135 AATATTTTTTAATATT-
1 AATA--TTTTAATATTA
*
9036151 AATAATTTTAATAATA
1 AAT-ATTTTAATATTA
*
9036167 AATCATTTCAATAT
1 AAT-ATTTTAATAT
9036181 ATTTCAATAA
Statistics
Matches: 51, Mismatches: 6, Indels: 14
0.72 0.08 0.20
Matches are distributed among these distances:
15 9 0.18
16 17 0.33
17 4 0.08
18 20 0.39
19 1 0.02
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.50
Consensus pattern (15 bp):
AATATTTTAATATTA
Found at i:9036124 original size:18 final size:18
Alignment explanation
Indices: 9036103--9036169 Score: 79
Period size: 18 Copynumber: 3.9 Consensus size: 18
9036093 ATTAATACAA
9036103 TATTTTAATATTAAATAT
1 TATTTTAATATTAAATAT
*
9036121 TATTTTAAAATATAAATAT
1 TATTTTAATAT-TAAATAT
9036140 T-TTTTAATATT-AATA-
1 TATTTTAATATTAAATAT
*
9036155 -ATTTTAATAATAAAT
1 TATTTTAATATTAAAT
9036170 CATTTCAATA
Statistics
Matches: 43, Mismatches: 3, Indels: 8
0.80 0.06 0.15
Matches are distributed among these distances:
15 9 0.21
16 7 0.16
17 1 0.02
18 18 0.42
19 8 0.19
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (18 bp):
TATTTTAATATTAAATAT
Found at i:9036174 original size:16 final size:16
Alignment explanation
Indices: 9036095--9036179 Score: 57
Period size: 16 Copynumber: 5.1 Consensus size: 16
9036085 TTTTTTATAT
9036095 TAATACAAT-ATTTTAA
1 TAATA-AATAATTTTAA
*
9036111 TATTAAATATTATTTTAA
1 TAATAAATA--ATTTTAA
* *
9036129 AATATAAATATTTTTTAA
1 TA-ATAAATA-ATTTTAA
*
9036147 T-ATTAATAATTTTAA
1 TAATAAATAATTTTAA
* *
9036162 TAATAAATCATTTCAA
1 TAATAAATAATTTTAA
9036178 TA
1 TA
9036180 TATTTCAATA
Statistics
Matches: 54, Mismatches: 10, Indels: 10
0.73 0.14 0.14
Matches are distributed among these distances:
15 10 0.19
16 23 0.43
18 15 0.28
19 6 0.11
ACGTcount: A:0.48, C:0.04, G:0.00, T:0.48
Consensus pattern (16 bp):
TAATAAATAATTTTAA
Found at i:9036179 original size:25 final size:26
Alignment explanation
Indices: 9036151--9036214 Score: 78
Period size: 26 Copynumber: 2.5 Consensus size: 26
9036141 TTTTAATATT
*
9036151 AATAATTTTAATAATAAATCA-TTTC
1 AATAATTTTAATAATAAATAATTTTC
* *
9036176 AATATATTTCAATAATAAATAATTTTT
1 AATA-ATTTTAATAATAAATAATTTTC
9036203 AAT-ATTTTAATA
1 AATAATTTTAATA
9036215 GTTATATTAA
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
25 12 0.36
26 15 0.45
27 6 0.18
ACGTcount: A:0.48, C:0.05, G:0.00, T:0.47
Consensus pattern (26 bp):
AATAATTTTAATAATAAATAATTTTC
Found at i:9042684 original size:44 final size:44
Alignment explanation
Indices: 9042595--9042688 Score: 118
Period size: 45 Copynumber: 2.1 Consensus size: 44
9042585 TTATTTTTTA
*
9042595 TTTTTTCATTTCTAAATTTTCCATCATTTTGGTCAATTTAGATT
1 TTTTTTCATTTCTAAATTTTCCATCATTTGGGTCAATTTAGATT
* *** *
9042639 TTTTTTTATTTGCTAAATTTTTTGTCATTTGGGTCTATTTA-ATT
1 TTTTTTCATTT-CTAAATTTTCCATCATTTGGGTCAATTTAGATT
9042683 TTTTTT
1 TTTTTT
9042689 GTATCTTTGA
Statistics
Matches: 43, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
44 19 0.44
45 24 0.56
ACGTcount: A:0.19, C:0.10, G:0.09, T:0.63
Consensus pattern (44 bp):
TTTTTTCATTTCTAAATTTTCCATCATTTGGGTCAATTTAGATT
Found at i:9044083 original size:5 final size:6
Alignment explanation
Indices: 9044069--9044093 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
9044059 TTTTTCTTAA
9044069 TTTTAT TTTTAT TTTTAT TTTTAT T
1 TTTTAT TTTTAT TTTTAT TTTTAT T
9044094 AACAGAAACA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.16, C:0.00, G:0.00, T:0.84
Consensus pattern (6 bp):
TTTTAT
Found at i:9044900 original size:24 final size:24
Alignment explanation
Indices: 9044850--9044896 Score: 78
Period size: 24 Copynumber: 2.0 Consensus size: 24
9044840 ATTCTCACTC
*
9044850 AAAGATTCTCATTTAAAACTTCTT
1 AAAGATTCTAATTTAAAACTTCTT
9044874 AAAGATTCTAATTTAAAA-TTCTT
1 AAAGATTCTAATTTAAAACTTCTT
9044897 TAAAAACTTC
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
23 5 0.23
24 17 0.77
ACGTcount: A:0.40, C:0.13, G:0.04, T:0.43
Consensus pattern (24 bp):
AAAGATTCTAATTTAAAACTTCTT
Found at i:9044907 original size:35 final size:35
Alignment explanation
Indices: 9044864--9044935 Score: 117
Period size: 35 Copynumber: 2.1 Consensus size: 35
9044854 ATTCTCATTT
* *
9044864 AAAACTTCTTAAAGATTCTAATTTAAAATTCTTTA
1 AAAACTTCTTAAAGATTCTAATTTAAAACTCGTTA
*
9044899 AAAACTTCTTAAAGATTCTCATTTAAAACTCGTTA
1 AAAACTTCTTAAAGATTCTAATTTAAAACTCGTTA
9044934 AA
1 AA
9044936 GATTCTCATT
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
35 34 1.00
ACGTcount: A:0.43, C:0.14, G:0.04, T:0.39
Consensus pattern (35 bp):
AAAACTTCTTAAAGATTCTAATTTAAAACTCGTTA
Found at i:9044934 original size:24 final size:24
Alignment explanation
Indices: 9044899--9045022 Score: 196
Period size: 24 Copynumber: 5.2 Consensus size: 24
9044889 AAATTCTTTA
9044899 AAAACTTCTTAAAGATTCTCATTT
1 AAAACTTCTTAAAGATTCTCATTT
9044923 AAAAC-TCGTTAAAGATTCTCATTT
1 AAAACTTC-TTAAAGATTCTCATTT
9044947 AAAACTTCTTAAAGATTCTCATTT
1 AAAACTTCTTAAAGATTCTCATTT
* * * *
9044971 AAAAGTCCTTATAGATTCTCACTT
1 AAAACTTCTTAAAGATTCTCATTT
9044995 AAAACTTCTTAAAGATTCTCATTT
1 AAAACTTCTTAAAGATTCTCATTT
9045019 AAAA
1 AAAA
9045023 TTTTTAACAT
Statistics
Matches: 90, Mismatches: 8, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
23 2 0.02
24 86 0.96
25 2 0.02
ACGTcount: A:0.39, C:0.17, G:0.06, T:0.39
Consensus pattern (24 bp):
AAAACTTCTTAAAGATTCTCATTT
Found at i:9045169 original size:23 final size:23
Alignment explanation
Indices: 9045143--9045206 Score: 74
Period size: 23 Copynumber: 2.8 Consensus size: 23
9045133 GCTTTCATAA
* *
9045143 AAAAGTTCAAAATTTTTTGTCCT
1 AAAAGTTCTAAATTTTTTATCCT
* *
9045166 AAAAGTTCTCAATTTTTCATCCT
1 AAAAGTTCTAAATTTTTTATCCT
* *
9045189 AAAAATTCTTAATTTTTT
1 AAAAGTTCTAAATTTTTT
9045207 CTCAAAGTCA
Statistics
Matches: 34, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
23 34 1.00
ACGTcount: A:0.34, C:0.14, G:0.05, T:0.47
Consensus pattern (23 bp):
AAAAGTTCTAAATTTTTTATCCT
Found at i:9046336 original size:14 final size:14
Alignment explanation
Indices: 9046271--9046329 Score: 50
Period size: 14 Copynumber: 4.0 Consensus size: 14
9046261 AGTATTCTTC
9046271 TTCTTTTTTTTT--
1 TTCTTTTTTTTTCA
9046283 TTACATTTTTTTTTCA
1 TT-C-TTTTTTTTTCA
*
9046299 TCTCTCTTCATTTTTCA
1 T-TCT-TT-TTTTTTCA
9046316 TTCTTTTTTTTTCA
1 TTCTTTTTTTTTCA
9046330 ATTTTTTCAA
Statistics
Matches: 38, Mismatches: 2, Indels: 12
0.73 0.04 0.23
Matches are distributed among these distances:
12 2 0.05
13 1 0.03
14 16 0.42
15 3 0.08
16 7 0.18
17 9 0.24
ACGTcount: A:0.10, C:0.17, G:0.00, T:0.73
Consensus pattern (14 bp):
TTCTTTTTTTTTCA
Found at i:9049260 original size:12 final size:13
Alignment explanation
Indices: 9049230--9049277 Score: 53
Period size: 13 Copynumber: 3.6 Consensus size: 13
9049220 CAATATTATA
* *
9049230 TTAATATAATATA
1 TTAATAAAATATC
9049243 TTAATAAAA-ATC
1 TTAATAAAATATC
9049255 TTAATAAATAATATC
1 TTAAT-AA-AATATC
9049270 TTAATAAA
1 TTAATAAA
9049278 TATTATTATG
Statistics
Matches: 30, Mismatches: 2, Indels: 6
0.79 0.05 0.16
Matches are distributed among these distances:
12 7 0.23
13 11 0.37
14 4 0.13
15 8 0.27
ACGTcount: A:0.56, C:0.04, G:0.00, T:0.40
Consensus pattern (13 bp):
TTAATAAAATATC
Found at i:9049279 original size:12 final size:13
Alignment explanation
Indices: 9049230--9049280 Score: 52
Period size: 12 Copynumber: 3.9 Consensus size: 13
9049220 CAATATTATA
*
9049230 TTAATATAATATA
1 TTAATATAATATC
*
9049243 TTAATA-AAAATC
1 TTAATATAATATC
9049255 TTAATAAATAATATC
1 TTAAT--ATAATATC
9049270 TTAATA-AATAT
1 TTAATATAATAT
9049281 TATTATGAAT
Statistics
Matches: 32, Mismatches: 3, Indels: 7
0.76 0.07 0.17
Matches are distributed among these distances:
12 14 0.44
13 7 0.22
14 1 0.03
15 10 0.31
ACGTcount: A:0.55, C:0.04, G:0.00, T:0.41
Consensus pattern (13 bp):
TTAATATAATATC
Found at i:9049362 original size:15 final size:15
Alignment explanation
Indices: 9049202--9049505 Score: 112
Period size: 15 Copynumber: 20.9 Consensus size: 15
9049192 ATGCACAATG
9049202 TTAATAAATAA-ATA
1 TTAATAAATAATATA
*
9049216 -TAA-ACAATATTATA
1 TTAATA-AATAATATA
9049230 TTAAT--ATAATATA
1 TTAATAAATAATATA
*
9049243 TTAAT-AA-AA-ATC
1 TTAATAAATAATATA
*
9049255 TTAATAAATAATATC
1 TTAATAAATAATATA
*
9049270 TTAATAAATATTATTA
1 TTAATAAATAATA-TA
*
9049286 TGAATAAAT-ATATA
1 TTAATAAATAATATA
** * *
9049300 CGAATATATTA-ATA
1 TTAATAAATAATATA
*
9049314 TTAATAAATAAAATCA
1 TTAATAAATAATAT-A
* *
9049330 -TAATATATTA-ATA
1 TTAATAAATAATATA
* *
9049343 -CAATATATCAATA-A
1 TTAATAAAT-AATATA
* *
9049357 ATAATATTATAATATA
1 TTAATA-AATAATATA
9049373 TTAATAAATAATATA
1 TTAATAAATAATATA
* *
9049388 -TAAAAAATTAT-TAA
1 TTAATAAATAATAT-A
*
9049402 TTTAATTAATAA-ATA
1 -TTAATAAATAATATA
* * *
9049417 -TCA-CAATAATACA
1 TTAATAAATAATATA
* *
9049430 TGAATAGATAAGATATTA
1 TTAATAAAT-A-ATA-TA
9049448 TTAATAAATAATATA
1 TTAATAAATAATATA
*
9049463 CT-ATCAATATAATATA
1 TTAAT-AA-ATAATATA
9049479 TTAATAAAT-A-ATA
1 TTAATAAATAATATA
*
9049492 TTAAGAAATAATAT
1 TTAATAAATAATAT
9049506 TATAGTATAT
Statistics
Matches: 220, Mismatches: 38, Indels: 63
0.69 0.12 0.20
Matches are distributed among these distances:
12 13 0.06
13 47 0.21
14 44 0.20
15 60 0.27
16 42 0.19
17 6 0.03
18 8 0.04
ACGTcount: A:0.56, C:0.04, G:0.02, T:0.38
Consensus pattern (15 bp):
TTAATAAATAATATA
Found at i:9049370 original size:23 final size:22
Alignment explanation
Indices: 9049344--9049390 Score: 76
Period size: 23 Copynumber: 2.1 Consensus size: 22
9049334 ATATTAATAC
9049344 AATATATCAATAAATAATATTAT
1 AATATATCAATAAATAATA-TAT
*
9049367 AATATATTAATAAATAATATAT
1 AATATATCAATAAATAATATAT
9049389 AA
1 AA
9049391 AAAATTATTA
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
22 5 0.22
23 18 0.78
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.38
Consensus pattern (22 bp):
AATATATCAATAAATAATATAT
Found at i:9049492 original size:13 final size:13
Alignment explanation
Indices: 9049454--9049528 Score: 59
Period size: 13 Copynumber: 5.9 Consensus size: 13
9049444 ATTATTAATA
* *
9049454 AATAATATACTATC
1 AATAA-ATAATATT
9049468 AATATAAT-ATATT
1 AATA-AATAATATT
9049481 AATAAATAATATT
1 AATAAATAATATT
*
9049494 AAGAAATAATATT
1 AATAAATAATATT
* *
9049507 -AT-AGT-ATATG
1 AATAAATAATATT
9049517 AATAAATAATAT
1 AATAAATAATAT
9049529 AAAGAATAAT
Statistics
Matches: 49, Mismatches: 7, Indels: 11
0.73 0.10 0.16
Matches are distributed among these distances:
10 4 0.08
11 4 0.08
12 6 0.12
13 28 0.57
14 6 0.12
15 1 0.02
ACGTcount: A:0.56, C:0.03, G:0.04, T:0.37
Consensus pattern (13 bp):
AATAAATAATATT
Found at i:9049515 original size:36 final size:35
Alignment explanation
Indices: 9049309--9049528 Score: 143
Period size: 36 Copynumber: 6.2 Consensus size: 35
9049299 ACGAATATAT
* *
9049309 TAATATTAATAAATAAAATCATAATATATTAATACAA
1 TAATATTAATAAATAATATTAT-ATATATTAATA-AA
*
9049346 T-ATATCAATAAATAATATTATAATATATTAATAAA
1 TAATATTAATAAATAATATTAT-ATATATTAATAAA
* *
9049381 TAATATATAA-AAA-ATTATTA-ATTTAATTAATAAA
1 TAATAT-TAATAAATAATATTATATAT-ATTAATAAA
* * * * *
9049415 TATCACAATAATACATGAATAGATAAGATATTATTAATAAA
1 TA--ATATTAATAAAT-AAT--ATTATATA-TATTAATAAA
*
9049456 TAATA-TACT--ATCAATA-TA-ATATATTAATAAA
1 TAATATTAATAAAT-AATATTATATATATTAATAAA
* *
9049487 TAATATTAAGAAATAATATTATAGTATATGAATAAA
1 TAATATTAATAAATAATATTATA-TATATTAATAAA
9049523 TAATAT
1 TAATAT
9049529 AAAGAATAAT
Statistics
Matches: 146, Mismatches: 19, Indels: 37
0.72 0.09 0.18
Matches are distributed among these distances:
31 15 0.10
32 5 0.03
33 8 0.05
34 16 0.11
35 13 0.09
36 62 0.42
37 3 0.02
38 5 0.03
39 2 0.01
40 3 0.02
41 13 0.09
42 1 0.01
ACGTcount: A:0.56, C:0.04, G:0.03, T:0.37
Consensus pattern (35 bp):
TAATATTAATAAATAATATTATATATATTAATAAA
Found at i:9049534 original size:36 final size:35
Alignment explanation
Indices: 9049470--9049539 Score: 104
Period size: 36 Copynumber: 2.0 Consensus size: 35
9049460 ATACTATCAA
* *
9049470 TATAATATATTAATAAATAATATTAAGAAATAATAT
1 TATAATATATGAATAAATAATATAAAG-AATAATAT
*
9049506 TATAGTATATGAATAAATAATATAAAGAATAATA
1 TATAATATATGAATAAATAATATAAAGAATAATA
9049540 AATAGTTTTC
Statistics
Matches: 31, Mismatches: 3, Indels: 1
0.89 0.09 0.03
Matches are distributed among these distances:
35 7 0.23
36 24 0.77
ACGTcount: A:0.59, C:0.00, G:0.06, T:0.36
Consensus pattern (35 bp):
TATAATATATGAATAAATAATATAAAGAATAATAT
Found at i:9049587 original size:19 final size:18
Alignment explanation
Indices: 9049560--9049642 Score: 68
Period size: 19 Copynumber: 4.8 Consensus size: 18
9049550 TTTTAAGTAT
*
9049560 TTTTTATATTAATATAATA
1 TTTTAATATTAA-ATAATA
*
9049579 TTTTAATATTAAATATTA
1 TTTTAATATTAAATAATA
* *
9049597 TTATTAA-AATAAAT-ATT
1 TT-TTAATATTAAATAATA
9049614 TTTTAATATT-AAT-A-A
1 TTTTAATATTAAATAATA
*
9049629 TTTTAATAATAAAT
1 TTTTAATATTAAAT
9049643 CATTTCAATA
Statistics
Matches: 53, Mismatches: 8, Indels: 9
0.76 0.11 0.13
Matches are distributed among these distances:
15 9 0.17
16 11 0.21
17 5 0.09
18 13 0.25
19 15 0.28
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (18 bp):
TTTTAATATTAAATAATA
Done.