Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D06
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: 62964862
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 132689 characters in sequence are not A, C, G, or T
File 90 of 207
Found at i:26440424 original size:26 final size:28
Alignment explanation
Indices: 26440375--26440427 Score: 74
Period size: 28 Copynumber: 2.0 Consensus size: 28
26440365 CCACTTTTTC
* *
26440375 TTTTTTAGTCACCCAACTATTTAAATTT
1 TTTTTTAATCACCCAACTAGTTAAATTT
26440403 TTTTTTAATCA-CCAACT-GTTAAATT
1 TTTTTTAATCACCCAACTAGTTAAATT
26440428 ACTAACGGAA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
26 7 0.30
27 6 0.26
28 10 0.43
ACGTcount: A:0.30, C:0.17, G:0.04, T:0.49
Consensus pattern (28 bp):
TTTTTTAATCACCCAACTAGTTAAATTT
Found at i:26442912 original size:18 final size:19
Alignment explanation
Indices: 26442889--26442930 Score: 61
Period size: 20 Copynumber: 2.3 Consensus size: 19
26442879 TGTTTTAAAG
26442889 TTTATAG-T-TTAATTTTAT
1 TTTATAGTTATTAATTTT-T
26442907 TTTATAGTTATTAATTTTT
1 TTTATAGTTATTAATTTTT
26442926 TTTAT
1 TTTAT
26442931 CTTTTAAGAT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
18 7 0.32
19 7 0.32
20 8 0.36
ACGTcount: A:0.26, C:0.00, G:0.05, T:0.69
Consensus pattern (19 bp):
TTTATAGTTATTAATTTTT
Found at i:26454343 original size:44 final size:44
Alignment explanation
Indices: 26453794--26454330 Score: 779
Period size: 44 Copynumber: 12.2 Consensus size: 44
26453784 CACAAAGCCA
*
26453794 TATCTCCCTGACCAGCAGTGGAATAGGTTGAAGATTGTAAGCCC
1 TATCTCCCTGACCAGCAGTGGAATAGGTTGAAGATTGTAAGTCC
*
26453838 TATCTCCCTGACCAGCAGTGGAATAGGCTGAAGATTGTAAGTCC
1 TATCTCCCTGACCAGCAGTGGAATAGGTTGAAGATTGTAAGTCC
* * * * *
26453882 TAGCTCCCTGAACAGCAGTGGAATAGGTCGAAGATGGTAAGCCC
1 TATCTCCCTGACCAGCAGTGGAATAGGTTGAAGATTGTAAGTCC
26453926 TATCTCCCTGACCAGCAGTGGAATAGGTTGAAGATTGTAAGTCC
1 TATCTCCCTGACCAGCAGTGGAATAGGTTGAAGATTGTAAGTCC
26453970 TATCTCCCTGACCAGCAGTGGAATAGGTTGAAGATTGTAAGTCC
1 TATCTCCCTGACCAGCAGTGGAATAGGTTGAAGATTGTAAGTCC
* * *
26454014 TATCTCCCTGACCAGCAGTGGAATAGGTCGAAGATGGTAAGCCC
1 TATCTCCCTGACCAGCAGTGGAATAGGTTGAAGATTGTAAGTCC
* *
26454058 TATCTCCCTGAACAGCAGTGGAATAGGTCGAAGATTGTAAGTCC
1 TATCTCCCTGACCAGCAGTGGAATAGGTTGAAGATTGTAAGTCC
* * * * * * *
26454102 TAGCTCCCTGAACAGCAGTAGAATAGGTCGAAGATGGTAGGCCC
1 TATCTCCCTGACCAGCAGTGGAATAGGTTGAAGATTGTAAGTCC
* * * *
26454146 TATCTCCCTGACCAGCAGTAGAATAAGTTGAAAATCGTAAGTCC
1 TATCTCCCTGACCAGCAGTGGAATAGGTTGAAGATTGTAAGTCC
* *
26454190 TATCTCCCTGACCAGAAGTGGAATAGGTTAAAGATTGTAAGTCC
1 TATCTCCCTGACCAGCAGTGGAATAGGTTGAAGATTGTAAGTCC
* * *
26454234 TATCTCTCGGACCAGCAGTGGAATAGGTTAAAGATTGTAAGTCC
1 TATCTCCCTGACCAGCAGTGGAATAGGTTGAAGATTGTAAGTCC
* *
26454278 TATCTCCCTGACCAACAGTGGAATAGGTTGAAAATTGT-AGATCC
1 TATCTCCCTGACCAGCAGTGGAATAGGTTGAAGATTGTAAG-TCC
*
26454322 TGTCTCCCT
1 TATCTCCCT
26454331 AAGCAGTAGT
Statistics
Matches: 445, Mismatches: 47, Indels: 2
0.90 0.10 0.00
Matches are distributed among these distances:
43 2 0.00
44 443 1.00
ACGTcount: A:0.29, C:0.22, G:0.25, T:0.25
Consensus pattern (44 bp):
TATCTCCCTGACCAGCAGTGGAATAGGTTGAAGATTGTAAGTCC
Found at i:26458916 original size:48 final size:48
Alignment explanation
Indices: 26458864--26458955 Score: 114
Period size: 47 Copynumber: 1.9 Consensus size: 48
26458854 CACTATTTTC
*
26458864 ATTATGTGGCAGTATACCTACAATTTTGGTGGC-TTGTCCACAATATTG
1 ATTAT-TGGCAGTATACCTACAATTTTGGTGACATTGTCCACAATATTG
* * * * *
26458912 ATTATTGGTAGTTTATCTACGATTTTGGTGACATTGTTCACAAT
1 ATTATTGGCAGTATACCTACAATTTTGGTGACATTGTCCACAAT
26458956 TTGGTCTGTT
Statistics
Matches: 37, Mismatches: 6, Indels: 2
0.82 0.13 0.04
Matches are distributed among these distances:
47 22 0.59
48 15 0.41
ACGTcount: A:0.25, C:0.14, G:0.20, T:0.41
Consensus pattern (48 bp):
ATTATTGGCAGTATACCTACAATTTTGGTGACATTGTCCACAATATTG
Found at i:26462851 original size:19 final size:19
Alignment explanation
Indices: 26462824--26462867 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
26462814 TTTATGTTTT
26462824 ATTTA-TTTATTTACTTA-A
1 ATTTATTTTATTT-CTTATA
*
26462842 ATTTATTTTATTTTTTATA
1 ATTTATTTTATTTCTTATA
26462861 ATTTATT
1 ATTTATT
26462868 AATGCGGAAG
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
18 8 0.35
19 15 0.65
ACGTcount: A:0.30, C:0.02, G:0.00, T:0.68
Consensus pattern (19 bp):
ATTTATTTTATTTCTTATA
Found at i:26471357 original size:20 final size:20
Alignment explanation
Indices: 26471332--26471373 Score: 84
Period size: 20 Copynumber: 2.1 Consensus size: 20
26471322 CTTATAAACC
26471332 GAATCAAACCATATCTTTCT
1 GAATCAAACCATATCTTTCT
26471352 GAATCAAACCATATCTTTCT
1 GAATCAAACCATATCTTTCT
26471372 GA
1 GA
26471374 GACCTCTGGT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.36, C:0.24, G:0.07, T:0.33
Consensus pattern (20 bp):
GAATCAAACCATATCTTTCT
Found at i:26472392 original size:21 final size:21
Alignment explanation
Indices: 26472363--26472402 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
26472353 GGGTCTACTC
*
26472363 GCCCATGTGAAGGCCACACAT
1 GCCCATGTGAAAGCCACACAT
*
26472384 GCCCCTGTGAAAGCCACAC
1 GCCCATGTGAAAGCCACAC
26472403 GCGCTTGTGT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.28, C:0.38, G:0.23, T:0.12
Consensus pattern (21 bp):
GCCCATGTGAAAGCCACACAT
Found at i:26474553 original size:15 final size:15
Alignment explanation
Indices: 26474517--26474555 Score: 51
Period size: 15 Copynumber: 2.6 Consensus size: 15
26474507 TTGTCAAATT
*
26474517 AATTTTTTAATTTTA
1 AATTTTTTAATATTA
* *
26474532 AAATTTTTAATATTC
1 AATTTTTTAATATTA
26474547 AATTTTTTA
1 AATTTTTTA
26474556 TAATTTTATA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.36, C:0.03, G:0.00, T:0.62
Consensus pattern (15 bp):
AATTTTTTAATATTA
Found at i:26474638 original size:21 final size:20
Alignment explanation
Indices: 26474614--26474653 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
26474604 ATCTTATAAT
26474614 ATTTGGAAAAATATAATTTTA
1 ATTT-GAAAAATATAATTTTA
* *
26474635 ATTTGATAAATATTATTTT
1 ATTTGAAAAATATAATTTT
26474654 TTTAAACTAT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 13 0.76
21 4 0.24
ACGTcount: A:0.42, C:0.00, G:0.07, T:0.50
Consensus pattern (20 bp):
ATTTGAAAAATATAATTTTA
Found at i:26475412 original size:15 final size:15
Alignment explanation
Indices: 26475388--26475418 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
26475378 TCTTTCTCTC
26475388 TTTTCGTTTCTTTTT
1 TTTTCGTTTCTTTTT
*
26475403 TTTTCTTTTCTTTTT
1 TTTTCGTTTCTTTTT
26475418 T
1 T
26475419 ATATTATTAA
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:0.00, C:0.13, G:0.03, T:0.84
Consensus pattern (15 bp):
TTTTCGTTTCTTTTT
Found at i:26476055 original size:12 final size:12
Alignment explanation
Indices: 26476038--26476071 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
26476028 AGTTTAATAA
26476038 TATTATTATTAC
1 TATTATTATTAC
*
26476050 TATTATTATTAG
1 TATTATTATTAC
*
26476062 TAGTATTATT
1 TATTATTATT
26476072 TTTTATCAAT
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:0.32, C:0.03, G:0.06, T:0.59
Consensus pattern (12 bp):
TATTATTATTAC
Found at i:26476056 original size:15 final size:15
Alignment explanation
Indices: 26476038--26476071 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
26476028 AGTTTAATAA
*
26476038 TATTATTATTACTAT
1 TATTATTAGTACTAT
*
26476053 TATTATTAGTAGTAT
1 TATTATTAGTACTAT
26476068 TATT
1 TATT
26476072 TTTTATCAAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.32, C:0.03, G:0.06, T:0.59
Consensus pattern (15 bp):
TATTATTAGTACTAT
Found at i:26476174 original size:21 final size:24
Alignment explanation
Indices: 26476120--26476174 Score: 66
Period size: 20 Copynumber: 2.5 Consensus size: 24
26476110 TTATTATGTA
26476120 GTATTATTTTAAGTTTTCCATATAT
1 GTATTATTTTAAG-TTTCCATATAT
26476145 -TATTA-TTTAA-TTT-CATA-AT
1 GTATTATTTTAAGTTTCCATATAT
26476164 GTATTATTTTA
1 GTATTATTTTA
26476175 TATATATTTT
Statistics
Matches: 28, Mismatches: 0, Indels: 8
0.78 0.00 0.22
Matches are distributed among these distances:
19 2 0.07
20 9 0.32
21 7 0.25
23 5 0.18
24 5 0.18
ACGTcount: A:0.31, C:0.05, G:0.05, T:0.58
Consensus pattern (24 bp):
GTATTATTTTAAGTTTCCATATAT
Found at i:26480973 original size:14 final size:14
Alignment explanation
Indices: 26480954--26480987 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
26480944 CAAAATGAAA
*
26480954 GTGGAAGATCTTAT
1 GTGGAAGACCTTAT
26480968 GTGGAAGACCTTAT
1 GTGGAAGACCTTAT
*
26480982 CTGGAA
1 GTGGAA
26480988 TAACATTGAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.29, C:0.12, G:0.29, T:0.29
Consensus pattern (14 bp):
GTGGAAGACCTTAT
Found at i:26481079 original size:19 final size:18
Alignment explanation
Indices: 26481055--26481096 Score: 57
Period size: 19 Copynumber: 2.3 Consensus size: 18
26481045 ATTCAATCAA
* *
26481055 AAAAAAAGAAGAACAGAAC
1 AAAAAAAGAACAA-AAAAC
26481074 AAAAAAAGAACAAAAAAC
1 AAAAAAAGAACAAAAAAC
26481092 AAAAA
1 AAAAA
26481097 GAAACAAATA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
18 9 0.43
19 12 0.57
ACGTcount: A:0.81, C:0.10, G:0.10, T:0.00
Consensus pattern (18 bp):
AAAAAAAGAACAAAAAAC
Found at i:26481082 original size:16 final size:15
Alignment explanation
Indices: 26481052--26481104 Score: 61
Period size: 16 Copynumber: 3.3 Consensus size: 15
26481042 CAGATTCAAT
26481052 CAAAAAAAAAGAAGAA
1 CAAAAAAAAA-AAGAA
*
26481068 CAGAACAAAAAAAGAA
1 CA-AAAAAAAAAAGAA
26481084 CAAAAAACAAAAAGAAA
1 CAAAAAA-AAAAAG-AA
26481101 CAAA
1 CAAA
26481105 TACCTCTACT
Statistics
Matches: 32, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
15 4 0.12
16 15 0.47
17 13 0.41
ACGTcount: A:0.79, C:0.11, G:0.09, T:0.00
Consensus pattern (15 bp):
CAAAAAAAAAAAGAA
Found at i:26482985 original size:88 final size:88
Alignment explanation
Indices: 26482888--26483072 Score: 239
Period size: 88 Copynumber: 2.1 Consensus size: 88
26482878 CATAAATCTC
* * * * *
26482888 ATCTCCCTGAGCAGCAGTGAAGTAGGTTAAAAATAGCAGATCTTTTCTTCATGTATTGGTAGA-G
1 ATCTCCCTGAGCAACAGTGAAGTAGGTTAAAAATAGCAGATATTGTCTTCATGTATCGGCA-ATG
*
26482952 AAATAGATTGAAAACAC-CAGCCTT
65 AAATAGATCGAAAAC-CTCAGCCTT
* * * *
26482976 ATCTCCCTGAGTAACAGTGGAGTAGGTTAAAAATAGCATATATTGTCTTCCTGTATCGGCAATGA
1 ATCTCCCTGAGCAACAGTGAAGTAGGTTAAAAATAGCAGATATTGTCTTCATGTATCGGCAATGA
*
26483041 AGTAGATCGAAAACCTCAGCCTT
66 AATAGATCGAAAACCTCAGCCTT
26483064 ATCTCCCTG
1 ATCTCCCTG
26483073 GACAGTAGTG
Statistics
Matches: 84, Mismatches: 11, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
87 2 0.02
88 82 0.98
ACGTcount: A:0.32, C:0.19, G:0.20, T:0.29
Consensus pattern (88 bp):
ATCTCCCTGAGCAACAGTGAAGTAGGTTAAAAATAGCAGATATTGTCTTCATGTATCGGCAATGA
AATAGATCGAAAACCTCAGCCTT
Found at i:26483253 original size:44 final size:44
Alignment explanation
Indices: 26483190--26483552 Score: 324
Period size: 44 Copynumber: 8.2 Consensus size: 44
26483180 TTAAGCTGCC
* *
26483190 AGTCCTACCTCCCTGGACAGCAGTGGAATAGGTTGAAGATTGTA
1 AGTCCTATCTCCCTAGACAGCAGTGGAATAGGTTGAAGATTGTA
*
26483234 AGTCCTATCTCCCTAGACAGCAGTGGAATAGGTTGAAGGTTGTA
1 AGTCCTATCTCCCTAGACAGCAGTGGAATAGGTTGAAGATTGTA
* * *
26483278 AGTCCTATCTCCCTGGACAGTAGTGGAATAGGTTGAGGATTGT-
1 AGTCCTATCTCCCTAGACAGCAGTGGAATAGGTTGAAGATTGTA
* * ** * ** *
26483321 AGATCCTGTCTCCCTA-AGCAGTAGTGGAGCAGATCAAAGATGGTGA
1 AG-TCCTATCTCCCTAGA-CAGCAGTGGAATAGGTTGAAGATTGT-A
* * * ** * * * * *****
26483367 A-TCTTATCTTCATAGGGTAGTAG-GGAAGCAGATTTAAG-CCACC
1 AGTCCTATCTCCCTA-GACAGCAGTGGAA-TAGGTTGAAGATTGTA
*
26483410 AGTCCTATCTCCCTAAACAGCAGTGGAATAGGTTGAAGATTGTA
1 AGTCCTATCTCCCTAGACAGCAGTGGAATAGGTTGAAGATTGTA
*
26483454 AGTCCTATCTCCCTGGACAGCAGTGGAATAGGTTGAAGATTGTA
1 AGTCCTATCTCCCTAGACAGCAGTGGAATAGGTTGAAGATTGTA
* *
26483498 CGTCCTATATCCC-AGGACAGCAGTGGAATAGGTTGAAGATTGTA
1 AGTCCTATCTCCCTA-GACAGCAGTGGAATAGGTTGAAGATTGTA
* *
26483542 CGTCCTGTCTC
1 AGTCCTATCTC
26483553 TTTAAGCAGT
Statistics
Matches: 256, Mismatches: 52, Indels: 22
0.78 0.16 0.07
Matches are distributed among these distances:
43 15 0.06
44 227 0.89
45 13 0.05
46 1 0.00
ACGTcount: A:0.28, C:0.19, G:0.26, T:0.27
Consensus pattern (44 bp):
AGTCCTATCTCCCTAGACAGCAGTGGAATAGGTTGAAGATTGTA
Found at i:26483360 original size:220 final size:220
Alignment explanation
Indices: 26483063--26483644 Score: 905
Period size: 220 Copynumber: 2.6 Consensus size: 220
26483053 ACCTCAGCCT
* * * * *
26483063 TATCTCCCTGGACAGTAGTGGAATAGGTTGATGATTGTAGATCATGTCTGCCTAAACAATAGTGG
1 TATCTCCCTGGACAGTAGTGGAATAGGTTGAAGATTGTAGATCCTGTCTCCCTAAGCAGTAGTGG
* *
26483128 AACAGATCAAAGACGGTGAATCTTATCTTCCCAAGGTAGTAGGGAAGCAGATTTAAGCTGCCAGT
66 AGCAGATCAAAGACGGTGAATCTTATCTTCCCAAGGTAGTAGGGAAGCAGATTTAAGCCGCCAGT
* **
26483193 CCTACCTCCCTGGACAGCAGTGGAATAGGTTGAAGATTGTAAGTCCTATCTCCCTAGACAGCAGT
131 CCTATCTCCCTAAACAGCAGTGGAATAGGTTGAAGATTGTAAGTCCTATCTCCCTAGACAGCAGT
*
26483258 GGAATAGGTTGAAGGTTGTAAGTCC
196 GGAATAGGTTGAAGATTGTAAGTCC
*
26483283 TATCTCCCTGGACAGTAGTGGAATAGGTTGAGGATTGTAGATCCTGTCTCCCTAAGCAGTAGTGG
1 TATCTCCCTGGACAGTAGTGGAATAGGTTGAAGATTGTAGATCCTGTCTCCCTAAGCAGTAGTGG
* ** * *
26483348 AGCAGATCAAAGATGGTGAATCTTATCTTCATAGGGTAGTAGGGAAGCAGATTTAAGCCACCAGT
66 AGCAGATCAAAGACGGTGAATCTTATCTTCCCAAGGTAGTAGGGAAGCAGATTTAAGCCGCCAGT
*
26483413 CCTATCTCCCTAAACAGCAGTGGAATAGGTTGAAGATTGTAAGTCCTATCTCCCTGGACAGCAGT
131 CCTATCTCCCTAAACAGCAGTGGAATAGGTTGAAGATTGTAAGTCCTATCTCCCTAGACAGCAGT
*
26483478 GGAATAGGTTGAAGATTGTACGTCC
196 GGAATAGGTTGAAGATTGTAAGTCC
* * * **
26483503 TATATCCCAGGACAGCAGTGGAATAGGTTGAAGATTGTACG-TCCTGTCTCTTTAAGCAGTAGTG
1 TATCTCCCTGGACAGTAGTGGAATAGGTTGAAGATTGTA-GATCCTGTCTCCCTAAGCAGTAGTG
* *
26483567 AAGCAGATCAAAGACGGTGAATCTTATCTACCCAAGGTAGTAGGGAAGCAGATTTAAGCCGCCAG
65 GAGCAGATCAAAGACGGTGAATCTTATCTTCCCAAGGTAGTAGGGAAGCAGATTTAAGCCGCCAG
*
26483632 CCCTATCTCCCTA
130 TCCTATCTCCCTA
26483645 GTTGCAGTGG
Statistics
Matches: 329, Mismatches: 32, Indels: 2
0.91 0.09 0.01
Matches are distributed among these distances:
220 328 1.00
221 1 0.00
ACGTcount: A:0.29, C:0.19, G:0.26, T:0.26
Consensus pattern (220 bp):
TATCTCCCTGGACAGTAGTGGAATAGGTTGAAGATTGTAGATCCTGTCTCCCTAAGCAGTAGTGG
AGCAGATCAAAGACGGTGAATCTTATCTTCCCAAGGTAGTAGGGAAGCAGATTTAAGCCGCCAGT
CCTATCTCCCTAAACAGCAGTGGAATAGGTTGAAGATTGTAAGTCCTATCTCCCTAGACAGCAGT
GGAATAGGTTGAAGATTGTAAGTCC
Found at i:26485245 original size:3 final size:3
Alignment explanation
Indices: 26485237--26485285 Score: 53
Period size: 3 Copynumber: 16.3 Consensus size: 3
26485227 TTCAGTTTAA
* * * * *
26485237 TAT TAT TAT TAC TAG TAT TAT TAC TAT TAC TAT TAT TAT TAG TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
26485285 T
1 T
26485286 TTTTTATCAA
Statistics
Matches: 37, Mismatches: 9, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
3 37 1.00
ACGTcount: A:0.33, C:0.06, G:0.04, T:0.57
Consensus pattern (3 bp):
TAT
Found at i:26485388 original size:21 final size:24
Alignment explanation
Indices: 26485334--26485388 Score: 66
Period size: 20 Copynumber: 2.5 Consensus size: 24
26485324 TTATTATGTA
26485334 GTATTATTTTAAGTTTTCCATATAT
1 GTATTATTTTAAG-TTTCCATATAT
26485359 -TATTA-TTTAA-TTT-CATA-AT
1 GTATTATTTTAAGTTTCCATATAT
26485378 GTATTATTTTA
1 GTATTATTTTA
26485389 TATATATTTT
Statistics
Matches: 28, Mismatches: 0, Indels: 8
0.78 0.00 0.22
Matches are distributed among these distances:
19 2 0.07
20 9 0.32
21 7 0.25
23 5 0.18
24 5 0.18
ACGTcount: A:0.31, C:0.05, G:0.05, T:0.58
Consensus pattern (24 bp):
GTATTATTTTAAGTTTCCATATAT
Found at i:26492750 original size:20 final size:20
Alignment explanation
Indices: 26492727--26492782 Score: 76
Period size: 20 Copynumber: 2.8 Consensus size: 20
26492717 CAAATGCTCT
26492727 TTTAAATCAATTCATTATTA
1 TTTAAATCAATTCATTATTA
* **
26492747 TTTAAATCGATTGTTTATTA
1 TTTAAATCAATTCATTATTA
*
26492767 TTTGAATCAATTCATT
1 TTTAAATCAATTCATT
26492783 GTGGTTTAAA
Statistics
Matches: 29, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.34, C:0.09, G:0.05, T:0.52
Consensus pattern (20 bp):
TTTAAATCAATTCATTATTA
Found at i:26499884 original size:19 final size:18
Alignment explanation
Indices: 26499856--26499892 Score: 65
Period size: 19 Copynumber: 2.0 Consensus size: 18
26499846 AGTCTCTAAG
26499856 CAATTATTTAAAAAATTA
1 CAATTATTTAAAAAATTA
26499874 CAATATATTTAAAAAATTA
1 CAAT-TATTTAAAAAATTA
26499893 GAGAACACAA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 4 0.22
19 14 0.78
ACGTcount: A:0.57, C:0.05, G:0.00, T:0.38
Consensus pattern (18 bp):
CAATTATTTAAAAAATTA
Found at i:26506686 original size:4 final size:4
Alignment explanation
Indices: 26506677--26506725 Score: 98
Period size: 4 Copynumber: 12.2 Consensus size: 4
26506667 TATCAAAAAG
26506677 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
1 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
26506725 T
1 T
26506726 ATTTTATTCA
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 45 1.00
ACGTcount: A:0.24, C:0.00, G:0.24, T:0.51
Consensus pattern (4 bp):
TGTA
Found at i:26509485 original size:29 final size:29
Alignment explanation
Indices: 26509427--26509486 Score: 102
Period size: 29 Copynumber: 2.1 Consensus size: 29
26509417 ATCTTTACTT
*
26509427 GATTGATATGAATATTATTATTAGTATAG
1 GATTGATATGAATATTATTATTAATATAG
*
26509456 GATTGATATGAATATTATTATTAATGTAG
1 GATTGATATGAATATTATTATTAATATAG
26509485 GA
1 GA
26509487 GCACGTAGAT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.38, C:0.00, G:0.18, T:0.43
Consensus pattern (29 bp):
GATTGATATGAATATTATTATTAATATAG
Found at i:26515111 original size:39 final size:39
Alignment explanation
Indices: 26515068--26515184 Score: 137
Period size: 39 Copynumber: 3.0 Consensus size: 39
26515058 GAGTCTCCTG
* * *
26515068 CTTCAACTTCACTGCTTAACAGTGCTAAACCGGACTCTA
1 CTTCAACTTCACTGGTTAACAATGCTAAACCAGACTCTA
* *
26515107 CTTCATA-TTCACTGGTTAACACTGCTAATCCAGACTCTA
1 CTTCA-ACTTCACTGGTTAACAATGCTAAACCAGACTCTA
* * * *
26515146 CTTCTACTTCACTGGTTATCAATGCTAAGCCAGAATCTA
1 CTTCAACTTCACTGGTTAACAATGCTAAACCAGACTCTA
26515185 AAGCTAGTCT
Statistics
Matches: 67, Mismatches: 9, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
38 1 0.01
39 65 0.97
40 1 0.01
ACGTcount: A:0.28, C:0.28, G:0.12, T:0.32
Consensus pattern (39 bp):
CTTCAACTTCACTGGTTAACAATGCTAAACCAGACTCTA
Found at i:26518517 original size:18 final size:18
Alignment explanation
Indices: 26518494--26518529 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
26518484 TTATCTATAT
26518494 CTTCCTTTGAAGTTCTTA
1 CTTCCTTTGAAGTTCTTA
26518512 CTTCCTTTGAAGTTCTTA
1 CTTCCTTTGAAGTTCTTA
26518530 GTGCAGCAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.17, C:0.22, G:0.11, T:0.50
Consensus pattern (18 bp):
CTTCCTTTGAAGTTCTTA
Found at i:26522405 original size:3 final size:3
Alignment explanation
Indices: 26522397--26522446 Score: 73
Period size: 3 Copynumber: 16.7 Consensus size: 3
26522387 TTGCACCGCG
* * *
26522397 ATA ATA ATA ATG ATA ATA ATG ATA ATA ATA ATA TTA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
26522445 AT
1 AT
26522447 TGTTTATTGC
Statistics
Matches: 41, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
3 41 1.00
ACGTcount: A:0.60, C:0.00, G:0.04, T:0.36
Consensus pattern (3 bp):
ATA
Found at i:26529388 original size:17 final size:17
Alignment explanation
Indices: 26529366--26529401 Score: 72
Period size: 17 Copynumber: 2.1 Consensus size: 17
26529356 TCGATATTAA
26529366 TATTTCCAAGTGATGAG
1 TATTTCCAAGTGATGAG
26529383 TATTTCCAAGTGATGAG
1 TATTTCCAAGTGATGAG
26529400 TA
1 TA
26529402 GAACTGTCCA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.31, C:0.11, G:0.22, T:0.36
Consensus pattern (17 bp):
TATTTCCAAGTGATGAG
Found at i:26529834 original size:24 final size:24
Alignment explanation
Indices: 26529807--26529855 Score: 89
Period size: 24 Copynumber: 2.0 Consensus size: 24
26529797 TCTTATATTT
26529807 TAGAGCTTGAAAAGGTATAAATTA
1 TAGAGCTTGAAAAGGTATAAATTA
*
26529831 TAGAGCTTGAACAGGTATAAATTA
1 TAGAGCTTGAAAAGGTATAAATTA
26529855 T
1 T
26529856 GTAAGTGTCA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.43, C:0.06, G:0.20, T:0.31
Consensus pattern (24 bp):
TAGAGCTTGAAAAGGTATAAATTA
Found at i:26533552 original size:40 final size:40
Alignment explanation
Indices: 26533372--26533604 Score: 269
Period size: 40 Copynumber: 5.8 Consensus size: 40
26533362 GGATATAGCT
* *
26533372 ACTCGTTCAAATGCCTTCGGGACATAGCCCGG-TTATAGTA
1 ACTCGTACAAATGCCTTCGGGACTTAGCCCGGATT-TAGTA
* * *
26533412 ACTCGCACAAATGCCTTCGGGACTTAACCCAGATTTAGTA
1 ACTCGTACAAATGCCTTCGGGACTTAGCCCGGATTTAGTA
* *
26533452 ACTCGCACAAATGCCTTCGGGACTTAACCCGGATTTAGTA
1 ACTCGTACAAATGCCTTCGGGACTTAGCCCGGATTTAGTA
*
26533492 ACTCGTACAAATGCCTTC-GGATCTTAGTCCGGATTTAGTA
1 ACTCGTACAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTA
* * * *
26533532 ACTCGTACAAATGCCTTC-GGATCTTAGTCCGGATATGGTC
1 ACTCGTACAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTA
*
26533572 ACT--TAACACAAAGCCTTCGGGACTTAGCCCGGA
1 ACTCGT-ACA-AATGCCTTCGGGACTTAGCCCGGA
26533605 CATCATTCAA
Statistics
Matches: 174, Mismatches: 14, Indels: 10
0.88 0.07 0.05
Matches are distributed among these distances:
38 1 0.01
39 6 0.03
40 162 0.93
41 5 0.03
ACGTcount: A:0.27, C:0.26, G:0.21, T:0.27
Consensus pattern (40 bp):
ACTCGTACAAATGCCTTCGGGACTTAGCCCGGATTTAGTA
Found at i:26541452 original size:39 final size:40
Alignment explanation
Indices: 26541346--26541563 Score: 251
Period size: 40 Copynumber: 5.7 Consensus size: 40
26541336 GCTACTCGTT
* *
26541346 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATT-TAGTAACTCGCA
26541386 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
26541426 CAAATGCCTTC-GGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
26541465 CAAATGCCTTC--G-CTT-A-CCGGA-TTAGT-ACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
** * * * *
26541498 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAACCCGGATTTAGTAAC-TCGCA
*
26541539 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAACCCGGA
26541564 CATCATTCAA
Statistics
Matches: 161, Mismatches: 7, Indels: 20
0.86 0.04 0.11
Matches are distributed among these distances:
33 18 0.11
34 6 0.04
35 5 0.03
36 4 0.02
37 3 0.02
38 6 0.04
39 42 0.26
40 64 0.40
41 13 0.08
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
Found at i:26549235 original size:40 final size:40
Alignment explanation
Indices: 26549198--26549417 Score: 276
Period size: 40 Copynumber: 5.7 Consensus size: 40
26549188 GCTACTCGTT
*
26549198 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCA
*
26549238 CAAATGCCTTCGGGACTTA-ACCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
*
26549277 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
*
26549317 CAAATGCCTTC-GG-CTTAGTCCGGA-TTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* * * * **
26549354 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTACA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAACTCGCA
26549394 CAAA-GCCTTC-GGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
26549418 CATCATTCAA
Statistics
Matches: 164, Mismatches: 11, Indels: 12
0.88 0.06 0.06
Matches are distributed among these distances:
37 26 0.16
38 19 0.12
39 57 0.35
40 62 0.38
ACGTcount: A:0.26, C:0.27, G:0.21, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
Found at i:26549280 original size:39 final size:39
Alignment explanation
Indices: 26549165--26549366 Score: 252
Period size: 40 Copynumber: 5.2 Consensus size: 39
26549155 AAATCACGTA
* * * **
26549165 CCTTCGGAATTTAACCGGATATAGCT-ACTCGTTCAAATG
1 CCTTCGGGACTTAACCGGATTTAG-TAACTCGCACAAATG
* *
26549204 CCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAAATG
1 CCTTCGGGACTTA-ACCGGATT-TAGTAACTCGCACAAATG
26549244 CCTTCGGGACTTAACCGGATTTAGTAACTCGCACAAATG
1 CCTTCGGGACTTAACCGGATTTAGTAACTCGCACAAATG
26549283 CCTTCGGGACTTAACCCGGATTTAGTAACTCGCACAAATG
1 CCTTCGGGACTTAA-CCGGATTTAGTAACTCGCACAAATG
*
26549323 CCTTC-GG-CTTAGTCCGGA-TTAGTAACTCGCACAAATG
1 CCTTCGGGACTTA-ACCGGATTTAGTAACTCGCACAAATG
26549360 CCTTCGG
1 CCTTCGG
26549367 ATCTTAGTCC
Statistics
Matches: 146, Mismatches: 10, Indels: 15
0.85 0.06 0.09
Matches are distributed among these distances:
37 24 0.16
38 10 0.07
39 50 0.34
40 62 0.42
ACGTcount: A:0.26, C:0.27, G:0.21, T:0.26
Consensus pattern (39 bp):
CCTTCGGGACTTAACCGGATTTAGTAACTCGCACAAATG
Found at i:26549301 original size:79 final size:79
Alignment explanation
Indices: 26549165--26549366 Score: 270
Period size: 79 Copynumber: 2.6 Consensus size: 79
26549155 AAATCACGTA
* * * ** *
26549165 CCTTCGGAATTTAACCGGATATAGCT-ACTCGTTCAAATGCCTTCGGGACATAGCCCGG-TTATA
1 CCTTCGGGACTTAACCGGATTTAG-TAACTCGCACAAATGCCTTCGGGACATAACCCGGATT-TA
26549228 GTAACTCGCACAAATG
64 GTAACTCGCACAAATG
*
26549244 CCTTCGGGACTTAACCGGATTTAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGATTTAGT
1 CCTTCGGGACTTAACCGGATTTAGTAACTCGCACAAATGCCTTCGGGACATAACCCGGATTTAGT
26549309 AACTCGCACAAATG
66 AACTCGCACAAATG
*
26549323 CCTTC-GG-CTTAGTCCGGA-TTAGTAACTCGCACAAATGCCTTCGG
1 CCTTCGGGACTTA-ACCGGATTTAGTAACTCGCACAAATGCCTTCGG
26549367 ATCTTAGTCC
Statistics
Matches: 112, Mismatches: 8, Indels: 8
0.88 0.06 0.06
Matches are distributed among these distances:
77 30 0.27
78 8 0.07
79 72 0.64
80 2 0.02
ACGTcount: A:0.26, C:0.27, G:0.21, T:0.26
Consensus pattern (79 bp):
CCTTCGGGACTTAACCGGATTTAGTAACTCGCACAAATGCCTTCGGGACATAACCCGGATTTAGT
AACTCGCACAAATG
Found at i:26549379 original size:77 final size:79
Alignment explanation
Indices: 26549198--26549417 Score: 281
Period size: 77 Copynumber: 2.8 Consensus size: 79
26549188 GCTACTCGTT
*
26549198 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGGGACTTA-ACCG
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCACAAATGCCTTC-GGACTTAGACCG
26549261 GATTTAGTAACTCGCA
64 GATTTAGTAACTCGCA
* *
26549277 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACAAATGCCTTCGG-CTTAGTCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCACAAATGCCTTCGGACTTAGACCGGA
26549341 -TTAGTAACTCGCA
66 TTTAGTAACTCGCA
* * * * ** *
26549354 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTACACAAA-GCCTTCGGACTTAGCCCGG
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAACTCGCACAAATGCCTTCGGACTTAGACCGG
26549417 A
65 A
26549418 CATCATTCAA
Statistics
Matches: 126, Mismatches: 11, Indels: 10
0.86 0.07 0.07
Matches are distributed among these distances:
76 11 0.09
77 60 0.48
78 7 0.06
79 46 0.37
80 2 0.02
ACGTcount: A:0.26, C:0.27, G:0.21, T:0.25
Consensus pattern (79 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCACAAATGCCTTCGGACTTAGACCGGA
TTTAGTAACTCGCA
Found at i:26555644 original size:18 final size:18
Alignment explanation
Indices: 26555617--26555655 Score: 69
Period size: 18 Copynumber: 2.2 Consensus size: 18
26555607 AAAGCCATTC
*
26555617 ATTCATACATTTAGGTAA
1 ATTCACACATTTAGGTAA
26555635 ATTCACACATTTAGGTAA
1 ATTCACACATTTAGGTAA
26555653 ATT
1 ATT
26555656 GCATCTAGAT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.38, C:0.13, G:0.10, T:0.38
Consensus pattern (18 bp):
ATTCACACATTTAGGTAA
Found at i:26568255 original size:27 final size:27
Alignment explanation
Indices: 26568214--26568464 Score: 299
Period size: 27 Copynumber: 9.3 Consensus size: 27
26568204 GCAATGGGCC
** * *
26568214 TAAAATGACAAAAATACCCTCAAAAGG
1 TAAAATGACCGAAATACCCTCGAAGGG
*
26568241 TAAAATGATCGAAATACCCTCGAAGGG
1 TAAAATGACCGAAATACCCTCGAAGGG
* * *
26568268 TAAAATAATCGAAATACACTCGAAGGG
1 TAAAATGACCGAAATACCCTCGAAGGG
* * *
26568295 TAAAATGACTGAAATACCTTTGAAGGG
1 TAAAATGACCGAAATACCCTCGAAGGG
*
26568322 TAAAATGACCGAAATACCCTCGAAAGG
1 TAAAATGACCGAAATACCCTCGAAGGG
* * * *
26568349 TAAAATGATCAAAATA-TCTTGAAGGG
1 TAAAATGACCGAAATACCCTCGAAGGG
*
26568375 TAAAATGACCGAAATACCCTTGAAGGG
1 TAAAATGACCGAAATACCCTCGAAGGG
* *
26568402 TAAAATGACCGAAATACCCCCGAAAGG
1 TAAAATGACCGAAATACCCTCGAAGGG
*
26568429 TAAGATGACCGAAATACTCC-CGAAGGG
1 TAAAATGACCGAAATAC-CCTCGAAGGG
26568456 TAAAATGAC
1 TAAAATGAC
26568465 TATTATACCC
Statistics
Matches: 191, Mismatches: 31, Indels: 4
0.85 0.14 0.02
Matches are distributed among these distances:
26 21 0.11
27 168 0.88
28 2 0.01
ACGTcount: A:0.45, C:0.18, G:0.20, T:0.18
Consensus pattern (27 bp):
TAAAATGACCGAAATACCCTCGAAGGG
Found at i:26568408 original size:80 final size:81
Alignment explanation
Indices: 26568214--26568464 Score: 342
Period size: 81 Copynumber: 3.1 Consensus size: 81
26568204 GCAATGGGCC
* ** * * * *
26568214 TAAAATGACAAAAATACCCTCAAAAGGTAAAATGATCGAAATACCCTCGAAGGGTAAAATAATCG
1 TAAAATGACAGAAATACCCTTGAAGGGTAAAATGACCGAAATACCCTCGAAAGGTAAAATGATCG
*
26568279 AAATACACTCGAAGGG
66 AAATACTCTCGAAGGG
* * *
26568295 TAAAATGACTGAAATACCTTTGAAGGGTAAAATGACCGAAATACCCTCGAAAGGTAAAATGATCA
1 TAAAATGACAGAAATACCCTTGAAGGGTAAAATGACCGAAATACCCTCGAAAGGTAAAATGATCG
*
26568360 AAATA-TCTTGAAGGG
66 AAATACTCTCGAAGGG
* * * *
26568375 TAAAATGACCGAAATACCCTTGAAGGGTAAAATGACCGAAATACCCCCGAAAGGTAAGATGACCG
1 TAAAATGACAGAAATACCCTTGAAGGGTAAAATGACCGAAATACCCTCGAAAGGTAAAATGATCG
*
26568440 AAATACTCCCGAAGGG
66 AAATACTCTCGAAGGG
26568456 TAAAATGAC
1 TAAAATGAC
26568465 TATTATACCC
Statistics
Matches: 149, Mismatches: 20, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
80 72 0.48
81 77 0.52
ACGTcount: A:0.45, C:0.18, G:0.20, T:0.18
Consensus pattern (81 bp):
TAAAATGACAGAAATACCCTTGAAGGGTAAAATGACCGAAATACCCTCGAAAGGTAAAATGATCG
AAATACTCTCGAAGGG
Found at i:26568840 original size:28 final size:28
Alignment explanation
Indices: 26568816--26568870 Score: 83
Period size: 28 Copynumber: 2.0 Consensus size: 28
26568806 TTGGGCTAGT
*
26568816 GCCCACACTGTTACTACTTAGGGCTCAA
1 GCCCACACTATTACTACTTAGGGCTCAA
* *
26568844 GCCCAGACTATTACTACTTAAGGCTCA
1 GCCCACACTATTACTACTTAGGGCTCA
26568871 GGTCTGGATT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
28 24 1.00
ACGTcount: A:0.27, C:0.31, G:0.16, T:0.25
Consensus pattern (28 bp):
GCCCACACTATTACTACTTAGGGCTCAA
Found at i:26570465 original size:21 final size:19
Alignment explanation
Indices: 26570440--26570486 Score: 58
Period size: 21 Copynumber: 2.4 Consensus size: 19
26570430 AGTTTCGATA
*
26570440 AAATTATTGTAAAAAAATAT
1 AAATTATTATAAAAAAAT-T
*
26570460 ATAATTATTATAAAATAATT
1 A-AATTATTATAAAAAAATT
26570480 AAATTAT
1 AAATTAT
26570487 ACTTAAATTA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
19 6 0.25
20 3 0.12
21 15 0.62
ACGTcount: A:0.57, C:0.00, G:0.02, T:0.40
Consensus pattern (19 bp):
AAATTATTATAAAAAAATT
Found at i:26570496 original size:27 final size:27
Alignment explanation
Indices: 26570454--26570546 Score: 84
Period size: 27 Copynumber: 3.5 Consensus size: 27
26570444 TATTGTAAAA
26570454 AAATATATAATT--ATTA-TAAAATAATT
1 AAAT-TATAATTAAATTATTAAAA-AATT
* *
26570480 AAATTATACTTAAATTATTAAAAATTT
1 AAATTATAATTAAATTATTAAAAAATT
* * *
26570507 TAATTTTAATTAAATTATTAAAAATTT
1 AAATTATAATTAAATTATTAAAAAATT
* *
26570534 TAATTTTAATTAA
1 AAATTATAATTAA
26570547 TTTTATAATA
Statistics
Matches: 59, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
25 6 0.10
26 4 0.07
27 44 0.75
28 5 0.08
ACGTcount: A:0.52, C:0.01, G:0.00, T:0.47
Consensus pattern (27 bp):
AAATTATAATTAAATTATTAAAAAATT
Found at i:26570561 original size:22 final size:23
Alignment explanation
Indices: 26570536--26570578 Score: 70
Period size: 22 Copynumber: 1.9 Consensus size: 23
26570526 AAAAATTTTA
26570536 ATTTTAATTAATTTT-ATAATAT
1 ATTTTAATTAATTTTGATAATAT
*
26570558 ATTTTTATTAATTTTGATAAT
1 ATTTTAATTAATTTTGATAAT
26570579 TTTCGACAGA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
22 14 0.74
23 5 0.26
ACGTcount: A:0.37, C:0.00, G:0.02, T:0.60
Consensus pattern (23 bp):
ATTTTAATTAATTTTGATAATAT
Found at i:26573085 original size:164 final size:164
Alignment explanation
Indices: 26572814--26573142 Score: 631
Period size: 164 Copynumber: 2.0 Consensus size: 164
26572804 GTGGACCAAG
26572814 AAAAGGATGGTGCTTGGAAAGCAAATAAGAGTGAGCTAGATGATGCAAATATTGTCTTGAAGAAG
1 AAAAGGATGGTGCTTGGAAAGCAAATAAGAGTGAGCTAGATGATGCAAATATTGTCTTGAAGAAG
*
26572879 TTTGGAGGCCAGAGTGAGAAGCTTAATGTAATTTTGGCTTCAAGGTGAACTAAACCAGACAATAG
66 TTTGGAGGCCAGAGTGAGAAGCTTAATGTAATTTTGGCTTCAAGGAGAACTAAACCAGACAATAG
26572944 AGGACCTGATTACATCAATAAAGGTAAGGAACCT
131 AGGACCTGATTACATCAATAAAGGTAAGGAACCT
26572978 AAAAGGATGGTGCTTGGAAAGCAAATAAGAGTGAGCTAGATGATGCAAATATTGTCTTGAAGAAG
1 AAAAGGATGGTGCTTGGAAAGCAAATAAGAGTGAGCTAGATGATGCAAATATTGTCTTGAAGAAG
*
26573043 TTTGGAGGCCAGAGTGAGAAGCTTAATGTAATTTTGGCTTCAAGGAGAACTAAACCAGACTATAG
66 TTTGGAGGCCAGAGTGAGAAGCTTAATGTAATTTTGGCTTCAAGGAGAACTAAACCAGACAATAG
*
26573108 AGGACCTGATTACATCAATAAAGGTAATGAACCT
131 AGGACCTGATTACATCAATAAAGGTAAGGAACCT
26573142 A
1 A
26573143 TTGCTCCTAG
Statistics
Matches: 162, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
164 162 1.00
ACGTcount: A:0.38, C:0.12, G:0.26, T:0.24
Consensus pattern (164 bp):
AAAAGGATGGTGCTTGGAAAGCAAATAAGAGTGAGCTAGATGATGCAAATATTGTCTTGAAGAAG
TTTGGAGGCCAGAGTGAGAAGCTTAATGTAATTTTGGCTTCAAGGAGAACTAAACCAGACAATAG
AGGACCTGATTACATCAATAAAGGTAAGGAACCT
Found at i:26585043 original size:20 final size:23
Alignment explanation
Indices: 26585004--26585044 Score: 61
Period size: 20 Copynumber: 1.9 Consensus size: 23
26584994 AATGCAATAT
26585004 TAAAACTGCTAACTAAAATGTCC
1 TAAAACTGCTAACTAAAATGTCC
26585027 TAAAA-TGC-AAC-AAAATGT
1 TAAAACTGCTAACTAAAATGT
26585045 ACTTGAGTAC
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 7 0.39
21 3 0.17
22 3 0.17
23 5 0.28
ACGTcount: A:0.49, C:0.17, G:0.10, T:0.24
Consensus pattern (23 bp):
TAAAACTGCTAACTAAAATGTCC
Found at i:26587145 original size:26 final size:26
Alignment explanation
Indices: 26587109--26587165 Score: 96
Period size: 26 Copynumber: 2.2 Consensus size: 26
26587099 CATAACGTTT
*
26587109 CTTTGTAATGCCGCAACAAACTGTTG
1 CTTTGTAATGCCACAACAAACTGTTG
*
26587135 CTTTGTAATGCCACGACAAACTGTTG
1 CTTTGTAATGCCACAACAAACTGTTG
26587161 CTTTG
1 CTTTG
26587166 CTTACAATTA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 29 1.00
ACGTcount: A:0.25, C:0.23, G:0.19, T:0.33
Consensus pattern (26 bp):
CTTTGTAATGCCACAACAAACTGTTG
Found at i:26588774 original size:33 final size:31
Alignment explanation
Indices: 26588737--26588828 Score: 93
Period size: 28 Copynumber: 2.9 Consensus size: 31
26588727 TAACAGTCTA
*
26588737 GGCCTGAGCCCTATTCAGTAGCAGTACAGTGTG
1 GGCCTTAGCCC-ATTCAGTA-CAGTACAGTGTG
26588770 GGCCTTAGCCCA---A-TACAGTAACAGTGTG
1 GGCCTTAGCCCATTCAGTACAGT-ACAGTGTG
*
26588798 GGCCTTAGCCCATTACAGTATCAATACAGTG
1 GGCCTTAGCCCATT-CAGTA-CAGTACAGTG
26588829 CAATAATACA
Statistics
Matches: 50, Mismatches: 2, Indels: 14
0.76 0.03 0.21
Matches are distributed among these distances:
27 4 0.08
28 22 0.44
29 1 0.02
32 2 0.04
33 18 0.36
34 3 0.06
ACGTcount: A:0.26, C:0.25, G:0.25, T:0.24
Consensus pattern (31 bp):
GGCCTTAGCCCATTCAGTACAGTACAGTGTG
Found at i:26588797 original size:28 final size:28
Alignment explanation
Indices: 26588758--26588817 Score: 104
Period size: 28 Copynumber: 2.2 Consensus size: 28
26588748 TATTCAGTAG
26588758 CAGT-ACAGTGTGGGCCTTAGCCCAATA
1 CAGTAACAGTGTGGGCCTTAGCCCAATA
*
26588785 CAGTAACAGTGTGGGCCTTAGCCCATTA
1 CAGTAACAGTGTGGGCCTTAGCCCAATA
26588813 CAGTA
1 CAGTA
26588818 TCAATACAGT
Statistics
Matches: 31, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
27 4 0.13
28 27 0.87
ACGTcount: A:0.27, C:0.25, G:0.25, T:0.23
Consensus pattern (28 bp):
CAGTAACAGTGTGGGCCTTAGCCCAATA
Found at i:26589299 original size:28 final size:27
Alignment explanation
Indices: 26589215--26589349 Score: 171
Period size: 27 Copynumber: 5.0 Consensus size: 27
26589205 AGGTATAACA
*
26589215 GTCATTTTACCCTATTGGGGTATTTCG
1 GTCATTTTACCCTATGGGGGTATTTCG
*
26589242 ATCATTTTACCCTATGGGGGTATTTCG
1 GTCATTTTACCCTATGGGGGTATTTCG
* * *
26589269 GTCATTTTACACAATGGAGGGTATTTTG
1 GTCATTTTACCCTATGG-GGGTATTTCG
* *
26589297 GTCATTTTACCCTATAGGGGTATTTCA
1 GTCATTTTACCCTATGGGGGTATTTCG
* **
26589324 ATCATTTTACCCTATACGGGTATTTC
1 GTCATTTTACCCTATGGGGGTATTTC
26589350 AGAGCTCGAT
Statistics
Matches: 94, Mismatches: 13, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
27 71 0.76
28 23 0.24
ACGTcount: A:0.21, C:0.18, G:0.20, T:0.41
Consensus pattern (27 bp):
GTCATTTTACCCTATGGGGGTATTTCG
Found at i:26589304 original size:55 final size:54
Alignment explanation
Indices: 26589213--26589333 Score: 161
Period size: 55 Copynumber: 2.2 Consensus size: 54
26589203 AGAGGTATAA
* * * *
26589213 CAGTCATTTTACCCTATTGGGGTATTTCGATCATTTTACCCTATGGGGGTATTT
1 CAGTCATTTTACACAATGGGGGTATTTCGATCATTTTACCCTATAGGGGTATTT
* * *
26589267 CGGTCATTTTACACAATGGAGGGTATTTTGGTCATTTTACCCTATAGGGGTATTT
1 CAGTCATTTTACACAATGG-GGGTATTTCGATCATTTTACCCTATAGGGGTATTT
*
26589322 CAATCATTTTAC
1 CAGTCATTTTAC
26589334 CCTATACGGG
Statistics
Matches: 57, Mismatches: 9, Indels: 1
0.85 0.13 0.01
Matches are distributed among these distances:
54 15 0.26
55 42 0.74
ACGTcount: A:0.21, C:0.17, G:0.20, T:0.41
Consensus pattern (54 bp):
CAGTCATTTTACACAATGGGGGTATTTCGATCATTTTACCCTATAGGGGTATTT
Found at i:26603267 original size:6 final size:6
Alignment explanation
Indices: 26603247--26603292 Score: 56
Period size: 6 Copynumber: 7.5 Consensus size: 6
26603237 TTCTAAAAGA
* * *
26603247 TTTCAT TTCTCAT TTTCAT TTTCAT TTCCAT TTCCAT TTCCAT TTT
1 TTTCAT TT-TCAT TTTCAT TTTCAT TTTCAT TTTCAT TTTCAT TTT
26603293 GAGAAAACCA
Statistics
Matches: 37, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
6 31 0.84
7 6 0.16
ACGTcount: A:0.15, C:0.24, G:0.00, T:0.61
Consensus pattern (6 bp):
TTTCAT
Found at i:26603278 original size:18 final size:19
Alignment explanation
Indices: 26603247--26603291 Score: 65
Period size: 18 Copynumber: 2.4 Consensus size: 19
26603237 TTCTAAAAGA
*
26603247 TTTCATTTCTCATTTTCAT
1 TTTCATTTCTCATTTCCAT
26603266 TTTCATTTC-CATTTCCAT
1 TTTCATTTCTCATTTCCAT
*
26603284 TTCCATTT
1 TTTCATTT
26603292 TGAGAAAACC
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
18 15 0.62
19 9 0.38
ACGTcount: A:0.16, C:0.24, G:0.00, T:0.60
Consensus pattern (19 bp):
TTTCATTTCTCATTTCCAT
Found at i:26609194 original size:23 final size:23
Alignment explanation
Indices: 26609167--26609220 Score: 83
Period size: 23 Copynumber: 2.3 Consensus size: 23
26609157 AGAAATATGT
26609167 TACTGTAATATCCC-AAAAATTAC
1 TACTGTAATA-CCCTAAAAATTAC
*
26609190 TACTGTAATACCCTGAAAATTAC
1 TACTGTAATACCCTAAAAATTAC
26609213 TACTGTAA
1 TACTGTAA
26609221 GAAAGTAGGT
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
22 3 0.10
23 26 0.90
ACGTcount: A:0.41, C:0.20, G:0.07, T:0.31
Consensus pattern (23 bp):
TACTGTAATACCCTAAAAATTAC
Found at i:26614036 original size:20 final size:21
Alignment explanation
Indices: 26614001--26614041 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 21
26613991 CGGGGCCAAA
* *
26614001 AAGAAAACATTTGGAACATTT
1 AAGAAAACAGTTGGAAAATTT
26614022 AAGAAAA-AGTTGGAAAATTT
1 AAGAAAACAGTTGGAAAATTT
26614042 GAACTGCAGG
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 11 0.61
21 7 0.39
ACGTcount: A:0.51, C:0.05, G:0.17, T:0.27
Consensus pattern (21 bp):
AAGAAAACAGTTGGAAAATTT
Found at i:26619185 original size:56 final size:56
Alignment explanation
Indices: 26619106--26619219 Score: 165
Period size: 56 Copynumber: 2.0 Consensus size: 56
26619096 TTGTCGTGCC
* ** *
26619106 AGCGTAACTAGATTCCTGGTGTTATAAAATTAGCAAAGCATTTTTAAGGATGTTGT
1 AGCGGAACTAGATTCCTAATGTTATAAAATTAGCAAAGCATTTTTAAGAATGTTGT
* * *
26619162 AGCGGAACTATATTCCTAATGTTATGAAATTAGCAAGGCATTTTTAAGAATGTTGT
1 AGCGGAACTAGATTCCTAATGTTATAAAATTAGCAAAGCATTTTTAAGAATGTTGT
26619218 AG
1 AG
26619220 TTTGTTTGTG
Statistics
Matches: 51, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
56 51 1.00
ACGTcount: A:0.33, C:0.11, G:0.21, T:0.35
Consensus pattern (56 bp):
AGCGGAACTAGATTCCTAATGTTATAAAATTAGCAAAGCATTTTTAAGAATGTTGT
Found at i:26619722 original size:3 final size:3
Alignment explanation
Indices: 26619716--26619759 Score: 88
Period size: 3 Copynumber: 14.7 Consensus size: 3
26619706 ATAAGGATTG
26619716 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
26619760 CAACAAATTA
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:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:26619969 original size:59 final size:58
Alignment explanation
Indices: 26619866--26620013 Score: 203
Period size: 59 Copynumber: 2.6 Consensus size: 58
26619856 CATTATTGCT
* *
26619866 CAAGTGCATATTTAGTACT-ACACCACAATTAATAGTTCACCACATAATAATACTGTC
1 CAAGTGCATATTTAGTACTAACAACATAATTAATAGTTCACCACATAATAATACTGTC
* *
26619923 CAAGTACATATTTAGTACTAAACAACATAATTAATAGTTCACCACATAATAATATTGTC
1 CAAGTGCATATTTAGTACT-AACAACATAATTAATAGTTCACCACATAATAATACTGTC
*
26619982 CAAGTGCAT-TATT-GTACTACACCACATAATTA
1 CAAGTGCATAT-TTAGTACTA-ACAACATAATTA
26620014 GCACTACACC
Statistics
Matches: 81, Mismatches: 6, Indels: 7
0.86 0.06 0.07
Matches are distributed among these distances:
57 19 0.23
58 17 0.21
59 45 0.56
ACGTcount: A:0.41, C:0.20, G:0.08, T:0.31
Consensus pattern (58 bp):
CAAGTGCATATTTAGTACTAACAACATAATTAATAGTTCACCACATAATAATACTGTC
Found at i:26622175 original size:18 final size:18
Alignment explanation
Indices: 26622152--26622188 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
26622142 GATGAGTTCG
26622152 AACTATTTACATTCATGA
1 AACTATTTACATTCATGA
26622170 AACTATTTACATTCATGA
1 AACTATTTACATTCATGA
26622188 A
1 A
26622189 GAACCAAAAG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.41, C:0.16, G:0.05, T:0.38
Consensus pattern (18 bp):
AACTATTTACATTCATGA
Found at i:26635709 original size:9 final size:9
Alignment explanation
Indices: 26635692--26635722 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
26635682 TCGAGTTGAT
26635692 TCGAATAAC
1 TCGAATAAC
*
26635701 TCGATTAAC
1 TCGAATAAC
26635710 TCGAATAAC
1 TCGAATAAC
26635719 TCGA
1 TCGA
26635723 TTCGTTTAAC
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:0.39, C:0.23, G:0.13, T:0.26
Consensus pattern (9 bp):
TCGAATAAC
Found at i:26637185 original size:10 final size:10
Alignment explanation
Indices: 26637170--26637196 Score: 54
Period size: 10 Copynumber: 2.7 Consensus size: 10
26637160 CTCAACTAGG
26637170 AATTTTGGAA
1 AATTTTGGAA
26637180 AATTTTGGAA
1 AATTTTGGAA
26637190 AATTTTG
1 AATTTTG
26637197 TGATTGTCGA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 17 1.00
ACGTcount: A:0.37, C:0.00, G:0.19, T:0.44
Consensus pattern (10 bp):
AATTTTGGAA
Found at i:26641103 original size:15 final size:14
Alignment explanation
Indices: 26641083--26641112 Score: 51
Period size: 15 Copynumber: 2.1 Consensus size: 14
26641073 ATAATAAATT
26641083 AATGGAGCTCTAGAA
1 AATGGAGCTCT-GAA
26641098 AATGGAGCTCTGAA
1 AATGGAGCTCTGAA
26641112 A
1 A
26641113 CTACTGTTTC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 4 0.27
15 11 0.73
ACGTcount: A:0.40, C:0.13, G:0.27, T:0.20
Consensus pattern (14 bp):
AATGGAGCTCTGAA
Found at i:26643032 original size:17 final size:19
Alignment explanation
Indices: 26643010--26643047 Score: 62
Period size: 17 Copynumber: 2.1 Consensus size: 19
26643000 ATTATCAAGA
26643010 TAAATATTAA-ATTAA-AT
1 TAAATATTAATATTAATAT
26643027 TAAATATTAATATTAATAT
1 TAAATATTAATATTAATAT
26643046 TA
1 TA
26643048 TTAAAATAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 10 0.53
18 5 0.26
19 4 0.21
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (19 bp):
TAAATATTAATATTAATAT
Found at i:26643038 original size:23 final size:20
Alignment explanation
Indices: 26643012--26643061 Score: 57
Period size: 20 Copynumber: 2.4 Consensus size: 20
26643002 TATCAAGATA
26643012 AATATTAA-ATTAAATTAAATATT
1 AATATTAATATT--ATTAAA-A-T
26643035 AATATTAATATTATTAAAAT
1 AATATTAATATTATTAAAAT
26643055 AATATTA
1 AATATTA
26643062 TTTTTGGAAT
Statistics
Matches: 26, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
20 8 0.31
21 1 0.04
22 6 0.23
23 8 0.31
24 3 0.12
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (20 bp):
AATATTAATATTATTAAAAT
Found at i:26647830 original size:20 final size:20
Alignment explanation
Indices: 26647805--26647860 Score: 87
Period size: 20 Copynumber: 2.8 Consensus size: 20
26647795 AAGCTTATGC
26647805 TAAGTAAATGGAATGGAAAG
1 TAAGTAAATGGAATGGAAAG
*
26647825 TAAGTAAAT-GAAGTAGAAAG
1 TAAGTAAATGGAA-TGGAAAG
26647845 TAAGTAAATGGAATGG
1 TAAGTAAATGGAATGG
26647861 TTCATCGTCT
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
19 3 0.09
20 26 0.81
21 3 0.09
ACGTcount: A:0.50, C:0.00, G:0.29, T:0.21
Consensus pattern (20 bp):
TAAGTAAATGGAATGGAAAG
Found at i:26651691 original size:15 final size:16
Alignment explanation
Indices: 26651662--26651691 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
26651652 CAAACATGCT
26651662 TTAACATATTATCAAA
1 TTAACATATTATCAAA
26651678 TTAACATA-TATCAA
1 TTAACATATTATCAA
26651692 TAAGGCACCA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 6 0.43
16 8 0.57
ACGTcount: A:0.50, C:0.13, G:0.00, T:0.37
Consensus pattern (16 bp):
TTAACATATTATCAAA
Found at i:26652856 original size:25 final size:25
Alignment explanation
Indices: 26652763--26652857 Score: 120
Period size: 25 Copynumber: 3.8 Consensus size: 25
26652753 ATGTACATGT
* *
26652763 ATGCTTACACGAGCTGTGGA-TCAGA
1 ATGCTCACACGAGCTGTGAACT-AGA
* * *
26652788 ATGCTCACATGAGCTGCGAACCAGA
1 ATGCTCACACGAGCTGTGAACTAGA
*
26652813 ATGCTCACATGAGCTGTGAACTAGA
1 ATGCTCACACGAGCTGTGAACTAGA
26652838 ATGCTCACACGAGCTGTGAA
1 ATGCTCACACGAGCTGTGAA
26652858 AATGGGCTTG
Statistics
Matches: 61, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
25 61 1.00
ACGTcount: A:0.31, C:0.23, G:0.25, T:0.21
Consensus pattern (25 bp):
ATGCTCACACGAGCTGTGAACTAGA
Found at i:26660386 original size:20 final size:18
Alignment explanation
Indices: 26660339--26660387 Score: 57
Period size: 20 Copynumber: 2.7 Consensus size: 18
26660329 AAAGACAAAC
26660339 ATTAAATTAA-ATTTAAT
1 ATTAAATTAATATTTAAT
26660356 ATTAAGA-TAATCACTTTAAT
1 ATTAA-ATTAAT-A-TTTAAT
26660376 ATTAAATTAATA
1 ATTAAATTAATA
26660388 AAATACTATC
Statistics
Matches: 27, Mismatches: 0, Indels: 8
0.77 0.00 0.23
Matches are distributed among these distances:
17 8 0.30
18 1 0.04
19 3 0.11
20 15 0.56
ACGTcount: A:0.51, C:0.04, G:0.02, T:0.43
Consensus pattern (18 bp):
ATTAAATTAATATTTAAT
Found at i:26665324 original size:41 final size:40
Alignment explanation
Indices: 26665279--26665427 Score: 196
Period size: 41 Copynumber: 3.6 Consensus size: 40
26665269 AGGCTCAGCA
*
26665279 CCTAGCAGG-TATATTGCCGGTGAATCAATTCAGGCTTAAAG
1 CCTAGCAGGCTA-AGTGCCGGTGAATCAA-TCAGGCTTAAAG
*
26665320 CCTAGCAGGCTAAGTGCCGGTGAACTGAATCAGGC-TATAAG
1 CCTAGCAGGCTAAGTGCCGGTGAA-TCAATCAGGCTTA-AAG
*
26665361 CCTAGCAGGCTAAGTGCCGGTG-ATCTGAATCAGGCTTTAAG
1 CCTAGCAGGCTAAGTGCCGGTGAATC--AATCAGGCTTAAAG
26665402 CCTAGCAGGCTAAGTGCCGGTGAATC
1 CCTAGCAGGCTAAGTGCCGGTGAATC
26665428 TATTTTAATT
Statistics
Matches: 97, Mismatches: 4, Indels: 13
0.85 0.04 0.11
Matches are distributed among these distances:
39 1 0.01
40 3 0.03
41 84 0.87
42 9 0.09
ACGTcount: A:0.27, C:0.22, G:0.28, T:0.23
Consensus pattern (40 bp):
CCTAGCAGGCTAAGTGCCGGTGAATCAATCAGGCTTAAAG
Found at i:26672330 original size:41 final size:40
Alignment explanation
Indices: 26672299--26672433 Score: 175
Period size: 41 Copynumber: 3.3 Consensus size: 40
26672289 GTAGGTATAT
*
26672299 TGCCGGTGAATCAATTCAGGCTTAAAGCCTAGAAGGCTAAG
1 TGCCGGTGAATCAA-TCAGGCTTAAAGCCTAGCAGGCTAAG
*
26672340 TGCCGGTGAACTGAATCAGGC-TATAAGCCTAGCAGGCTAAG
1 TGCCGGTGAA-TCAATCAGGCTTA-AAGCCTAGCAGGCTAAG
* *
26672381 TGCCAGTG-ATCTGAATCAGGCTTTAAGCCTAGCAGGCTAAG
1 TGCCGGTGAATC--AATCAGGCTTAAAGCCTAGCAGGCTAAG
26672422 TGCCGGTGAATC
1 TGCCGGTGAATC
26672434 TGTTTTAATT
Statistics
Matches: 82, Mismatches: 6, Indels: 11
0.83 0.06 0.11
Matches are distributed among these distances:
39 1 0.01
40 3 0.04
41 71 0.87
42 7 0.09
ACGTcount: A:0.28, C:0.21, G:0.28, T:0.22
Consensus pattern (40 bp):
TGCCGGTGAATCAATCAGGCTTAAAGCCTAGCAGGCTAAG
Found at i:26674911 original size:41 final size:42
Alignment explanation
Indices: 26674825--26674922 Score: 126
Period size: 41 Copynumber: 2.4 Consensus size: 42
26674815 TAGTCGTGGC
* * ***
26674825 TCACACAAGCTGGCGGTTGGAATGTAAGCTACACAATGTTGT
1 TCACACAAGCTGACGGTTGGAATATAAGCTACACAATGCCCT
* *
26674867 TCACACAAGGTGACGGTTGGAATAT-AGCTACACGATGCCCT
1 TCACACAAGCTGACGGTTGGAATATAAGCTACACAATGCCCT
26674908 TCACACAAGCTGACG
1 TCACACAAGCTGACG
26674923 AGTATCCACA
Statistics
Matches: 48, Mismatches: 8, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
41 26 0.54
42 22 0.46
ACGTcount: A:0.30, C:0.23, G:0.24, T:0.22
Consensus pattern (42 bp):
TCACACAAGCTGACGGTTGGAATATAAGCTACACAATGCCCT
Found at i:26675113 original size:137 final size:137
Alignment explanation
Indices: 26674867--26675124 Score: 349
Period size: 137 Copynumber: 1.9 Consensus size: 137
26674857 ACAATGTTGT
*
26674867 TCACACAAGGTGACGGTTGGAATATAGCTACACGATGCCCTTCACACAAGCTGACGAGTATCCAC
1 TCACACAAGCTGACGGTTGGAATATAGCTACACGATGCCCTTCACACAAGCTGACGAGTATCCAC
* * * *
26674932 AACAAATACCAGACCTTAGCCATCGGTAGGACATTCAAGACCAGCACCCGAAACATTATAACCTA
66 AACAAATACCAAAACTCAGCCATCGGTAAGACATTCAAGACCAGCACCCGAAACATTATAACCTA
26674997 GGTCTGC
131 GGTCTGC
* * * * * * *
26675004 TCACACAAGCTGGCGGTTGGAATGTAGCTACACGTTGCCAC-TCACATAAGTTGATGAGTATCCG
1 TCACACAAGCTGACGGTTGGAATATAGCTACACGATGCC-CTTCACACAAGCTGACGAGTATCCA
** *
26675068 CAACAAATGTCAAAACTCAGCCATCGGTAAGACATT-TAGAACCAGCACCCGAAACAT
65 CAACAAATACCAAAACTCAGCCATCGGTAAGACATTCAAG-ACCAGCACCCGAAACAT
26675125 GGTAACCCTA
Statistics
Matches: 104, Mismatches: 15, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
136 2 0.02
137 101 0.97
138 1 0.01
ACGTcount: A:0.34, C:0.27, G:0.19, T:0.20
Consensus pattern (137 bp):
TCACACAAGCTGACGGTTGGAATATAGCTACACGATGCCCTTCACACAAGCTGACGAGTATCCAC
AACAAATACCAAAACTCAGCCATCGGTAAGACATTCAAGACCAGCACCCGAAACATTATAACCTA
GGTCTGC
Found at i:26681972 original size:27 final size:27
Alignment explanation
Indices: 26681942--26682003 Score: 90
Period size: 27 Copynumber: 2.3 Consensus size: 27
26681932 AAGGTTGTTG
*
26681942 AATGACTGAAATACCCTCG-AAGGGTAA
1 AATGACCGAAATACCCTCGTAA-GGTAA
*
26681969 AATGACCGAAATACCCTTGTAAGGTAA
1 AATGACCGAAATACCCTCGTAAGGTAA
26681996 AATGACCG
1 AATGACCG
26682004 TAATGCCCCT
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
27 30 0.94
28 2 0.06
ACGTcount: A:0.40, C:0.19, G:0.21, T:0.19
Consensus pattern (27 bp):
AATGACCGAAATACCCTCGTAAGGTAA
Found at i:26682021 original size:27 final size:28
Alignment explanation
Indices: 26681942--26682027 Score: 83
Period size: 27 Copynumber: 3.2 Consensus size: 28
26681932 AAGGTTGTTG
*
26681942 AATGACTGAAATA-CCCTCG-AAGGGTAA
1 AATGACCGAAATACCCCT-GAAAGGGTAA
* *
26681969 AATGACCGAAATACCCTTGTAA-GGTAA
1 AATGACCGAAATACCCCTGAAAGGGTAA
* *
26681996 AATGACCGTAATGCCCCT-AAAGGGT-A
1 AATGACCGAAATACCCCTGAAAGGGTAA
26682022 AATGAC
1 AATGAC
26682028 TGATTTGTGC
Statistics
Matches: 50, Mismatches: 6, Indels: 7
0.79 0.10 0.11
Matches are distributed among these distances:
26 9 0.18
27 36 0.72
28 5 0.10
ACGTcount: A:0.40, C:0.20, G:0.21, T:0.20
Consensus pattern (28 bp):
AATGACCGAAATACCCCTGAAAGGGTAA
Found at i:26687921 original size:28 final size:28
Alignment explanation
Indices: 26687890--26687954 Score: 85
Period size: 28 Copynumber: 2.3 Consensus size: 28
26687880 GCCTTAGTGA
* *
26687890 AATATAGTAACAATGTGGGCCTTAGCCC
1 AATACAGTAACAATGTGGGCCCTAGCCC
* * *
26687918 AATACAGTAACCATGTGGTCCCTAGCCT
1 AATACAGTAACAATGTGGGCCCTAGCCC
26687946 AATACAGTA
1 AATACAGTA
26687955 TTGGTACAGT
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
28 32 1.00
ACGTcount: A:0.34, C:0.23, G:0.18, T:0.25
Consensus pattern (28 bp):
AATACAGTAACAATGTGGGCCCTAGCCC
Found at i:26688340 original size:27 final size:26
Alignment explanation
Indices: 26688286--26688364 Score: 88
Period size: 27 Copynumber: 3.0 Consensus size: 26
26688276 ACATAAGGCC
*
26688286 ATAATAGTCATTTTATCTCCTA-GGGGT
1 ATAACAGTCATTTTA-C-CCTATGGGGT
26688313 ATAACAGTCATTTTACCCTATGGAGGT
1 ATAACAGTCATTTTACCCTATGG-GGT
** *
26688340 ATTTCGGTCATTTTACCCTATGGGG
1 ATAACAGTCATTTTACCCTATGGGG
26688365 GTAATTCGAT
Statistics
Matches: 46, Mismatches: 4, Indels: 5
0.84 0.07 0.09
Matches are distributed among these distances:
25 4 0.09
26 5 0.11
27 37 0.80
ACGTcount: A:0.24, C:0.18, G:0.20, T:0.38
Consensus pattern (26 bp):
ATAACAGTCATTTTACCCTATGGGGT
Found at i:26688367 original size:27 final size:27
Alignment explanation
Indices: 26688320--26688541 Score: 320
Period size: 27 Copynumber: 8.2 Consensus size: 27
26688310 GGTATAACAG
* * * *
26688320 TCATTTTACCCTATGGAGGTATTTCGG
1 TCATTTTACCCTGTGGGGGTAATTCGA
*
26688347 TCATTTTACCCTATGGGGGTAATTCGA
1 TCATTTTACCCTGTGGGGGTAATTCGA
26688374 TCATTTTACCCTGTGGGGGTAATTCGA
1 TCATTTTACCCTGTGGGGGTAATTCGA
*
26688401 TCATTTTACCCTGTGGGGGTAATTTGA
1 TCATTTTACCCTGTGGGGGTAATTCGA
26688428 TCATTTTACCCTGTGGGGGTAATTCGA
1 TCATTTTACCCTGTGGGGGTAATTCGA
* * *
26688455 TCATTTTACCCTGTGGGGGCAATTTGG
1 TCATTTTACCCTGTGGGGGTAATTCGA
26688482 TCATTTTACCCTGTGGGGGTAATTCGA
1 TCATTTTACCCTGTGGGGGTAATTCGA
* * *
26688509 TTATTTTACCCTTTGAGGGTAATTC-A
1 TCATTTTACCCTGTGGGGGTAATTCGA
26688535 GTCATTT
1 -TCATTT
26688542 ATTGACCTCT
Statistics
Matches: 178, Mismatches: 16, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
26 1 0.01
27 177 0.99
ACGTcount: A:0.19, C:0.18, G:0.24, T:0.40
Consensus pattern (27 bp):
TCATTTTACCCTGTGGGGGTAATTCGA
Found at i:26701415 original size:110 final size:109
Alignment explanation
Indices: 26701213--26701415 Score: 266
Period size: 110 Copynumber: 1.8 Consensus size: 109
26701203 GGGATGTTAC
* * * * *
26701213 ACAAAAATTGAACAAAAGTAAAAAGTATCGATACCTTTCAAAATAAATCGATACCTATTGTATTT
1 ACAAAAAATGAACAAAAGCAAAAAGTATCAATA-CTTTCAAAATAAATCCATACCTATTATATTT
* * **
26701278 TATCGATACCATTTTCTGTATTGATACCAAACTTACGGATTTGAA
65 TATCGATACCATGTTCTGCATCCATACCAAACTTACGGATTTGAA
*
26701323 ACAAAAAATGAACAAAAGCAAAAAGTATCAATA-TTTCAAAATATATCCATACCTATTATATTTT
1 ACAAAAAATGAACAAAAGCAAAAAGTATCAATACTTTCAAAATAAATCCATACCTATTATA-TTT
26701387 TATCGATACCATCGTT-TGACATCCATACC
65 TATCGATACCAT-GTTCTG-CATCCATACC
26701416 TATTTTTTAT
Statistics
Matches: 80, Mismatches: 10, Indels: 6
0.83 0.10 0.06
Matches are distributed among these distances:
108 24 0.30
109 17 0.21
110 39 0.49
ACGTcount: A:0.42, C:0.17, G:0.09, T:0.32
Consensus pattern (109 bp):
ACAAAAAATGAACAAAAGCAAAAAGTATCAATACTTTCAAAATAAATCCATACCTATTATATTTT
ATCGATACCATGTTCTGCATCCATACCAAACTTACGGATTTGAA
Found at i:26705917 original size:15 final size:16
Alignment explanation
Indices: 26705890--26705919 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
26705880 TTTAACCCTA
26705890 GTAAAATTTTGACGAG
1 GTAAAATTTTGACGAG
26705906 GTAAAA-TTTGACGA
1 GTAAAATTTTGACGA
26705920 TTTTAACCTT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 8 0.57
16 6 0.43
ACGTcount: A:0.40, C:0.07, G:0.23, T:0.30
Consensus pattern (16 bp):
GTAAAATTTTGACGAG
Found at i:26709364 original size:31 final size:31
Alignment explanation
Indices: 26709327--26709388 Score: 124
Period size: 31 Copynumber: 2.0 Consensus size: 31
26709317 AGATAATTTT
26709327 AAAGAGTTTTATTAGGATTCAATTACTCTTG
1 AAAGAGTTTTATTAGGATTCAATTACTCTTG
26709358 AAAGAGTTTTATTAGGATTCAATTACTCTTG
1 AAAGAGTTTTATTAGGATTCAATTACTCTTG
26709389 TAATTTGCCT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.32, C:0.10, G:0.16, T:0.42
Consensus pattern (31 bp):
AAAGAGTTTTATTAGGATTCAATTACTCTTG
Found at i:26718734 original size:43 final size:44
Alignment explanation
Indices: 26718695--26718849 Score: 201
Period size: 43 Copynumber: 3.6 Consensus size: 44
26718685 AATGCCATGT
*
26718695 CCCAGAC-ATGGTCTTACATGGAAATCTCATATCGATGCCAATAG
1 CCCAGACTATGGTCTTACAT-GAAATCTCAAATCGATGCCAATAG
*
26718739 CCCA-ACTATGGTCTTACACGAAATCTCAAATCGATGCCAATAG
1 CCCAGACTATGGTCTTACATGAAATCTCAAATCGATGCCAATAG
* * *
26718782 CCCAG-CTATGGTCTTACATAAAATCTCAGATCGATGCCAAAAG
1 CCCAGACTATGGTCTTACATGAAATCTCAAATCGATGCCAATAG
** *
26718825 CCCAG-CTACAGTCTTACACGAAATC
1 CCCAGACTATGGTCTTACATGAAATC
26718850 ACACCTCAGA
Statistics
Matches: 99, Mismatches: 10, Indels: 5
0.87 0.09 0.04
Matches are distributed among these distances:
43 84 0.85
44 15 0.15
ACGTcount: A:0.34, C:0.28, G:0.15, T:0.23
Consensus pattern (44 bp):
CCCAGACTATGGTCTTACATGAAATCTCAAATCGATGCCAATAG
Found at i:26719008 original size:31 final size:30
Alignment explanation
Indices: 26718973--26719173 Score: 224
Period size: 31 Copynumber: 6.5 Consensus size: 30
26718963 TGCTCAAAGC
* *
26718973 AATTCAGCAATATATATCCATATACGAATCA
1 AATTC-GCAATGTATATCCATATACAAATCA
* *
26719004 AATTCGGCAATGTATATCTACATACAAATC-
1 AATTC-GCAATGTATATCCATATACAAATCA
*
26719034 AATTCGGAAATGTATATCCATATACAAATCA
1 AATTC-GCAATGTATATCCATATACAAATCA
* *
26719065 AATTCGATAATGTATAACCATATACAAATCA
1 AATTCG-CAATGTATATCCATATACAAATCA
* * * *
26719096 AATTCGACAATGCATATCTATAAACAATTCA
1 AATTCG-CAATGTATATCCATATACAAATCA
*
26719127 AATTCAGCAATGTATATCTATATACAAATCA
1 AATTC-GCAATGTATATCCATATACAAATCA
26719158 AATTCGACAATGTATA
1 AATTCG-CAATGTATA
26719174 AAACATATAA
Statistics
Matches: 147, Mismatches: 19, Indels: 8
0.84 0.11 0.05
Matches are distributed among these distances:
30 29 0.20
31 117 0.80
32 1 0.01
ACGTcount: A:0.45, C:0.17, G:0.08, T:0.30
Consensus pattern (30 bp):
AATTCGCAATGTATATCCATATACAAATCA
Found at i:26719067 original size:61 final size:62
Alignment explanation
Indices: 26718980--26719173 Score: 257
Period size: 62 Copynumber: 3.1 Consensus size: 62
26718970 AGCAATTCAG
* * *
26718980 CAATATATATCCATATACGAATCAAATTCGGCAATGTATATCTACATACAAATC-AATTCGGA
1 CAATGTATATCCATATACAAATCAAATTCGGCAATGTATATCTATATACAAATCAAATTC-GA
** * *
26719042 -AATGTATATCCATATACAAATCAAATTCGATAATGTATAACCATATACAAATCAAATTCGA
1 CAATGTATATCCATATACAAATCAAATTCGGCAATGTATATCTATATACAAATCAAATTCGA
* * * * *
26719103 CAATGCATATCTATAAACAATTCAAATTCAGCAATGTATATCTATATACAAATCAAATTCGA
1 CAATGTATATCCATATACAAATCAAATTCGGCAATGTATATCTATATACAAATCAAATTCGA
26719165 CAATGTATA
1 CAATGTATA
26719174 AAACATATAA
Statistics
Matches: 113, Mismatches: 17, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
61 48 0.42
62 65 0.58
ACGTcount: A:0.45, C:0.18, G:0.08, T:0.30
Consensus pattern (62 bp):
CAATGTATATCCATATACAAATCAAATTCGGCAATGTATATCTATATACAAATCAAATTCGA
Found at i:26719192 original size:62 final size:62
Alignment explanation
Indices: 26718991--26719194 Score: 213
Period size: 62 Copynumber: 3.3 Consensus size: 62
26718981 AATATATATC
* * **
26718991 CATATACGAA-TCAAATTCGGCAATGTATATCTACATACAAATC-AATTCGGA-AATGTATATC
1 CATATAC-AATTCAAATTCAGCAATGTATATCTATATACAAATCAAATTC-GACAATGTATAAA
* * * * * *
26719052 CATATACAAATCAAATTC-GATAATGTATAACCATATACAAATCAAATTCGACAATGCAT-AT
1 CATATACAATTCAAATTCAG-CAATGTATATCTATATACAAATCAAATTCGACAATGTATAAA
*
26719113 CTATAAACAATTCAAATTCAGCAATGTATATCTATATACAAATCAAATTCGACAATGTATAAAA
1 C-ATATACAATTCAAATTCAGCAATGTATATCTATATACAAATCAAATTCGACAATGTAT-AAA
*
26719177 CATATA-AATTTAAATTCA
1 CATATACAATTCAAATTCA
26719195 AATACATTTA
Statistics
Matches: 119, Mismatches: 16, Indels: 15
0.79 0.11 0.10
Matches are distributed among these distances:
60 3 0.03
61 37 0.31
62 72 0.61
63 5 0.04
64 2 0.02
ACGTcount: A:0.46, C:0.17, G:0.07, T:0.30
Consensus pattern (62 bp):
CATATACAATTCAAATTCAGCAATGTATATCTATATACAAATCAAATTCGACAATGTATAAA
Found at i:26719193 original size:93 final size:92
Alignment explanation
Indices: 26718991--26719182 Score: 267
Period size: 93 Copynumber: 2.1 Consensus size: 92
26718981 AATATATATC
* * * * *
26718991 CATATACGAATCAAATTCGGCAATGTATATCTACATACAAATCAATTCGGAAATGTATATCCATA
1 CATATACAAATCAAATTCGACAATGCATATCTACAAACAAATCAATTCAGAAATGTATATCCATA
* *
26719056 TACAAATCAAATTCGATAATGTATAAC
66 TACAAATCAAATTCGACAATGTATAAA
* * * *
26719083 CATATACAAATCAAATTCGACAATGCATATCTATAAACAATTCAAATTCAGCAATGTATATCTAT
1 CATATACAAATCAAATTCGACAATGCATATCTACAAACAAATC-AATTCAGAAATGTATATCCAT
26719148 ATACAAATCAAATTCGACAATGTATAAAA
65 ATACAAATCAAATTCGACAATGTAT-AAA
26719177 CATATA
1 CATATA
26719183 AATTTAAATT
Statistics
Matches: 87, Mismatches: 11, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
92 37 0.43
93 42 0.48
94 8 0.09
ACGTcount: A:0.46, C:0.17, G:0.08, T:0.29
Consensus pattern (92 bp):
CATATACAAATCAAATTCGACAATGCATATCTACAAACAAATCAATTCAGAAATGTATATCCATA
TACAAATCAAATTCGACAATGTATAAA
Found at i:26725315 original size:43 final size:43
Alignment explanation
Indices: 26725245--26725392 Score: 206
Period size: 43 Copynumber: 3.4 Consensus size: 43
26725235 TGTCCAAGAC
* **
26725245 ATGGTCTTACATGGAAATCTCGTATCGATGCCAATAGCCCAGCT
1 ATGGTCTTACA-CGAAATCTCAAATCGATGCCAATAGCCCAGCT
* * *
26725289 ACGGTCTTACACGAAGTCTCAAATCGATGCGAATAGCCCAGCT
1 ATGGTCTTACACGAAATCTCAAATCGATGCCAATAGCCCAGCT
* *
26725332 ATGGTCTTACACGAAATCTCAAATCGATGCTAATAGCCCAACT
1 ATGGTCTTACACGAAATCTCAAATCGATGCCAATAGCCCAGCT
*
26725375 ATGGTCTTACATGAAATC
1 ATGGTCTTACACGAAATC
26725393 ACACGTCAGA
Statistics
Matches: 93, Mismatches: 11, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
43 83 0.89
44 10 0.11
ACGTcount: A:0.31, C:0.25, G:0.18, T:0.26
Consensus pattern (43 bp):
ATGGTCTTACACGAAATCTCAAATCGATGCCAATAGCCCAGCT
Found at i:26725556 original size:31 final size:31
Alignment explanation
Indices: 26725510--26725704 Score: 200
Period size: 31 Copynumber: 6.4 Consensus size: 31
26725500 ATCCAATGCT
*
26725510 CAAATC-AATTCGACAATATATATCCATATA
1 CAAATCAAATTCGACAATGTATATCCATATA
* * * * *
26725540 CGACTCAAATTTGACAATGTATATCTACATA
1 CAAATCAAATTCGACAATGTATATCCATATA
26725571 CAAATC-AATTCGGA-AATGTATATCCATATA
1 CAAATCAAATTC-GACAATGTATATCCATATA
* *
26725601 CAAGTCAAATTCGACAATGTATAACCATATA
1 CAAATCAAATTCGACAATGTATATCCATATA
* * * ** *
26725632 CCAATTAAATTCGGCAATGTATATTTATAAA
1 CAAATCAAATTCGACAATGTATATCCATATA
* *
26725663 CAATTCAAATTCTG-CAATGTATATCTATATA
1 CAAATCAAATTC-GACAATGTATATCCATATA
26725694 CAAATCAAATT
1 CAAATCAAATT
26725705 TGGAAATGTA
Statistics
Matches: 133, Mismatches: 27, Indels: 9
0.79 0.16 0.05
Matches are distributed among these distances:
30 29 0.22
31 103 0.77
32 1 0.01
ACGTcount: A:0.43, C:0.17, G:0.08, T:0.32
Consensus pattern (31 bp):
CAAATCAAATTCGACAATGTATATCCATATA
Found at i:26725713 original size:93 final size:92
Alignment explanation
Indices: 26725510--26725736 Score: 228
Period size: 92 Copynumber: 2.5 Consensus size: 92
26725500 ATCCAATGCT
* ** * * * * *
26725510 CAAATC-AATTCGACAATATAT-ATCCATATACGACTCAAATTTGACAATGTATATCTACATACA
1 CAAATCAAATTCGACAATGTATAAAACATATAC-AATTAAATTCGGCAATGTATATCTACAAACA
26725573 AATCAATTCGGAAATGTATATCCATATA
65 AATCAATTCGGAAATGTATATCCATATA
* * * *
26725601 CAAGTCAAATTCGACAATGTAT-AACCATATACCAATTAAATTCGGCAATGTATATTTATAAACA
1 CAAATCAAATTCGACAATGTATAAAACATATA-CAATTAAATTCGGCAATGTATATCTACAAACA
* * * *
26725665 ATTCAAATTCTGCAATGTATATCTATATA
65 AATC-AATTCGGAAATGTATATCCATATA
* *
26725694 CAAATCAAATTTGGA-AATGTATAAAACATATACATTTAAATTC
1 CAAATCAAA-TTCGACAATGTATAAAACATATACAATTAAATTC
26725737 AAAAAACATT
Statistics
Matches: 113, Mismatches: 18, Indels: 8
0.81 0.13 0.06
Matches are distributed among these distances:
91 5 0.04
92 49 0.43
93 47 0.42
94 12 0.11
ACGTcount: A:0.44, C:0.16, G:0.08, T:0.32
Consensus pattern (92 bp):
CAAATCAAATTCGACAATGTATAAAACATATACAATTAAATTCGGCAATGTATATCTACAAACAA
ATCAATTCGGAAATGTATATCCATATA
Found at i:26725735 original size:62 final size:63
Alignment explanation
Indices: 26725510--26725736 Score: 225
Period size: 62 Copynumber: 3.7 Consensus size: 63
26725500 ATCCAATGCT
* * * * *
26725510 CAAATC-AATTC-GACAATATATATCCATATACGACTCAAATT-TGACAATGTATATCTACATA
1 CAAATCAAATTCGGA-AATGTATATACATATACAATTCAAATTCTGACAATGTATATCTATATA
* * * *
26725571 CAAATC-AATTCGGAAATGTATATCCATATACAAGTCAAATTC-GACAATGTATAACCATATA
1 CAAATCAAATTCGGAAATGTATATACATATACAATTCAAATTCTGACAATGTATATCTATATA
* * * ** *
26725632 CCAATTAAATTCGGCAATGTATATTTATAAACAATTCAAATTCTG-CAATGTATATCTATATA
1 CAAATCAAATTCGGAAATGTATATACATATACAATTCAAATTCTGACAATGTATATCTATATA
* * *
26725694 CAAATCAAATTTGGAAATGTATAAAACATATAC-ATTTAAATTC
1 CAAATCAAATTCGGAAATGTAT-ATACATATACAATTCAAATTC
26725737 AAAAAACATT
Statistics
Matches: 137, Mismatches: 24, Indels: 9
0.81 0.14 0.05
Matches are distributed among these distances:
61 55 0.40
62 75 0.55
63 7 0.05
ACGTcount: A:0.44, C:0.16, G:0.08, T:0.32
Consensus pattern (63 bp):
CAAATCAAATTCGGAAATGTATATACATATACAATTCAAATTCTGACAATGTATATCTATATA
Found at i:26735023 original size:20 final size:20
Alignment explanation
Indices: 26734980--26735027 Score: 71
Period size: 19 Copynumber: 2.5 Consensus size: 20
26734970 AATGATAAAA
26734980 AATAAAAATCAATAAATTTT
1 AATAAAAATCAATAAATTTT
* *
26735000 -ATAAAAATGATTAAATTTT
1 AATAAAAATCAATAAATTTT
26735019 AATAAAAAT
1 AATAAAAAT
26735028 ATAAGAAATA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
19 17 0.68
20 8 0.32
ACGTcount: A:0.60, C:0.02, G:0.02, T:0.35
Consensus pattern (20 bp):
AATAAAAATCAATAAATTTT
Found at i:26735170 original size:36 final size:35
Alignment explanation
Indices: 26735105--26735173 Score: 86
Period size: 36 Copynumber: 1.9 Consensus size: 35
26735095 AAAATAATAG
* **
26735105 TAAAATTAATAATAAAATAAGAGTTATATAATATC
1 TAAAATTAAGAATAAAATAAGAGCAATATAATATC
26735140 TAAACATTAAGAATAAAAT-AGTAGCAATATAATA
1 TAAA-ATTAAGAATAAAATAAG-AGCAATATAATA
26735174 ATAATATGAC
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
35 6 0.21
36 23 0.79
ACGTcount: A:0.58, C:0.04, G:0.07, T:0.30
Consensus pattern (35 bp):
TAAAATTAAGAATAAAATAAGAGCAATATAATATC
Found at i:26745581 original size:22 final size:21
Alignment explanation
Indices: 26745556--26745809 Score: 141
Period size: 22 Copynumber: 11.9 Consensus size: 21
26745546 AAGTTAAGGT
**
26745556 TTTAGGGTTTAGAGTTTTTAAA
1 TTTAGGGTTTAG-GTTTTTAGG
26745578 TTTAGGGTTTAAGGTTTTTTAGG
1 TTTAGGGTTT-AGG-TTTTTAGG
26745601 TTTAGGGTTTATGGTTTTTAGG
1 TTTAGGGTTTA-GGTTTTTAGG
26745623 TTTAGGGTTTAGGTTTTGT-GG
1 TTTAGGGTTTAGGTTTT-TAGG
* *
26745644 -TT----TTTAAG--TTAAGG
1 TTTAGGGTTTAGGTTTTTAGG
* *
26745658 GTTAGGGTTTTTAAG--TTTAGGG
1 TTTAGGG--TTTAGGTTTTTA-GG
* * *
26745680 TTTAGGGTTTAAGGTTTTTAGG
1 TTT-AGGGTTTAGGTTTTTAGG
* * ** *
26745702 TTTAAGGTTTGGGGTTTTTAAG
1 -TTTAGGGTTTAGGTTTTTAGG
*
26745724 TTTAGGGTTTAAGGTTTTTATG
1 TTTAGGGTTT-AGGTTTTTAGG
* *
26745746 TTTAAGGTTTAGGGTTTTTAAG
1 TTTAGGGTTTA-GGTTTTTAGG
*
26745768 TTTAGGGCTTATGGTTTTTAGG
1 TTTAGGGTTTA-GGTTTTTAGG
*
26745790 TTTAGGGTTTGGGGTTTTTA
1 TTTAGGGTTT-AGGTTTTTA
26745810 AGGTAAGGGT
Statistics
Matches: 184, Mismatches: 28, Indels: 40
0.73 0.11 0.16
Matches are distributed among these distances:
14 4 0.02
15 2 0.01
16 5 0.03
20 2 0.01
21 29 0.16
22 114 0.62
23 28 0.15
ACGTcount: A:0.18, C:0.00, G:0.31, T:0.51
Consensus pattern (21 bp):
TTTAGGGTTTAGGTTTTTAGG
Found at i:26745604 original size:16 final size:17
Alignment explanation
Indices: 26745578--26745610 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
26745568 AGTTTTTAAA
26745578 TTTAGGGTTTAAGGTTT
1 TTTAGGGTTTAAGGTTT
*
26745595 TTTA-GGTTTAGGGTTT
1 TTTAGGGTTTAAGGTTT
26745611 ATGGTTTTTA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 11 0.73
17 4 0.27
ACGTcount: A:0.15, C:0.00, G:0.30, T:0.55
Consensus pattern (17 bp):
TTTAGGGTTTAAGGTTT
Found at i:26745606 original size:6 final size:7
Alignment explanation
Indices: 26745595--26745806 Score: 50
Period size: 7 Copynumber: 29.4 Consensus size: 7
26745585 TTTAAGGTTT
26745595 TTTA-GG
1 TTTAGGG
26745601 TTTAGGG
1 TTTAGGG
*
26745608 TTTATGGTT
1 TTTA-GG-G
26745617 TTTA-GG
1 TTTAGGG
26745623 TTTAGGG
1 TTTAGGG
26745630 TTTA-GG
1 TTTAGGG
*
26745636 TTTTGTGG
1 TTTAG-GG
*
26745644 TTTTTA-AG
1 --TTTAGGG
*
26745652 TTAAGGG
1 TTTAGGG
26745659 -TTAGGG
1 TTTAGGG
*
26745665 TTTTTA-AG
1 --TTTAGGG
26745673 TTTAGGG
1 TTTAGGG
26745680 TTTAGGG
1 TTTAGGG
*
26745687 TTTAAGGTT
1 TTT-AGG-G
26745696 TTTA-GG
1 TTTAGGG
*
26745702 TTTAAGG
1 TTTAGGG
*
26745709 TTTGGGG
1 TTTAGGG
*
26745716 TTTTTA-AG
1 --TTTAGGG
26745724 TTTAGGG
1 TTTAGGG
*
26745731 TTTAAGGTT
1 TTT-AGG-G
*
26745740 TTTA-TG
1 TTTAGGG
*
26745746 TTTAAGG
1 TTTAGGG
26745753 TTTAGGG
1 TTTAGGG
*
26745760 TTTTTA-AG
1 --TTTAGGG
26745768 TTTAGGG
1 TTTAGGG
* *
26745775 CTTATGGTT
1 TTTA-GG-G
26745784 TTTA-GG
1 TTTAGGG
26745790 TTTAGGG
1 TTTAGGG
*
26745797 TTTGGGG
1 TTTAGGG
26745804 TTT
1 TTT
26745807 TTAAGGTAAG
Statistics
Matches: 149, Mismatches: 29, Indels: 55
0.64 0.12 0.24
Matches are distributed among these distances:
6 45 0.30
7 60 0.40
8 18 0.12
9 23 0.15
10 3 0.02
ACGTcount: A:0.17, C:0.00, G:0.32, T:0.51
Consensus pattern (7 bp):
TTTAGGG
Found at i:26745631 original size:29 final size:28
Alignment explanation
Indices: 26745595--26745718 Score: 109
Period size: 29 Copynumber: 4.6 Consensus size: 28
26745585 TTTAAGGTTT
26745595 TTTAGGTTTAGGGTTTATGGTTTTTAGG
1 TTTAGGTTTAGGGTTTATGGTTTTTAGG
* *
26745623 TTTAGGGTTTAGGTTTTGTGGTTTTTA--
1 TTTA-GGTTTAGGGTTTATGGTTTTTAGG
* * *
26745650 ---A-GTTAAGGG-TTAGGGTTTTTAAG
1 TTTAGGTTTAGGGTTTATGGTTTTTAGG
*
26745673 TTTAGGGTTTAGGGTTTAAGGTTTTTAGG
1 TTTA-GGTTTAGGGTTTATGGTTTTTAGG
*
26745702 TTTAAGGTTTGGGGTTT
1 TTT-AGGTTTAGGGTTT
26745719 TTAAGTTTAG
Statistics
Matches: 76, Mismatches: 10, Indels: 19
0.72 0.10 0.18
Matches are distributed among these distances:
21 10 0.13
22 6 0.08
24 1 0.01
26 1 0.01
28 11 0.14
29 46 0.61
30 1 0.01
ACGTcount: A:0.16, C:0.00, G:0.33, T:0.51
Consensus pattern (28 bp):
TTTAGGTTTAGGGTTTATGGTTTTTAGG
Found at i:26745682 original size:44 final size:44
Alignment explanation
Indices: 26745629--26745862 Score: 163
Period size: 44 Copynumber: 5.2 Consensus size: 44
26745619 TAGGTTTAGG
*
26745629 GTTTA-GGTTTTGTGGTTTTTAAGTTAAGGGTTAGGGTTTTTAA
1 GTTTAGGGTTTTATGGTTTTTAAGTTAAGGGTTAGGGTTTTTAA
* * * *
26745672 GTTTAGGGTTTAGGGTTTAAGGTTTTTAGGTTTAAGGTTTGGGGTTTTTAA
1 GTTTAGGG--T----TTTATGGTTTTTAAG-TTAAGGGTTAGGGTTTTTAA
* * *
26745723 GTTTAGGG-TTTAAGGTTTTTATGTTTAAGGTTTAGGGTTTTTAA
1 GTTTAGGGTTTTATGGTTTTTAAG-TTAAGGGTTAGGGTTTTTAA
* * * *
26745767 GTTTAGGG-CTTATGGTTTTTAGGTTTAGGGTTTGGGGTTTTTAA
1 GTTTAGGGTTTTATGGTTTTTAAGTTAAGGG-TTAGGGTTTTTAA
* * *** * * *
26745811 GGTAAGGG--TTACCCTTTTTTATTTAAGGGTTAAGGTTTTTAA
1 GTTTAGGGTTTTATGGTTTTTAAGTTAAGGGTTAGGGTTTTTAA
*
26745853 GTTAAGGGTT
1 GTTTAGGGTT
26745863 CGGGTTCGGG
Statistics
Matches: 155, Mismatches: 25, Indels: 21
0.77 0.12 0.10
Matches are distributed among these distances:
42 18 0.12
43 24 0.15
44 74 0.48
46 1 0.01
50 12 0.08
51 26 0.17
ACGTcount: A:0.19, C:0.02, G:0.30, T:0.49
Consensus pattern (44 bp):
GTTTAGGGTTTTATGGTTTTTAAGTTAAGGGTTAGGGTTTTTAA
Found at i:26745705 original size:15 final size:15
Alignment explanation
Indices: 26745663--26745755 Score: 63
Period size: 15 Copynumber: 6.3 Consensus size: 15
26745653 TAAGGGTTAG
*
26745663 GGTTTTTAAGTTT-A
1 GGTTTTTAGGTTTAA
*
26745677 GG-GTTTAGGGTTTAA
1 GGTTTTTA-GGTTTAA
26745692 GGTTTTTAGGTTTAA
1 GGTTTTTAGGTTTAA
**
26745707 GG-TTTGGGGTTTTTAA
1 GGTTTTTAGG--TTTAA
26745723 -G--TTTAGGGTTTAA
1 GGTTTTTA-GGTTTAA
*
26745736 GGTTTTTATGTTTAA
1 GGTTTTTAGGTTTAA
26745751 GGTTT
1 GGTTT
26745756 AGGGTTTTTA
Statistics
Matches: 62, Mismatches: 8, Indels: 17
0.71 0.09 0.20
Matches are distributed among these distances:
13 9 0.15
14 14 0.23
15 26 0.42
16 13 0.21
ACGTcount: A:0.18, C:0.00, G:0.30, T:0.52
Consensus pattern (15 bp):
GGTTTTTAGGTTTAA
Found at i:26745770 original size:15 final size:16
Alignment explanation
Indices: 26745702--26745774 Score: 66
Period size: 15 Copynumber: 4.9 Consensus size: 16
26745692 GGTTTTTAGG
*
26745702 TTTAAGGTTTGGGGTT
1 TTTAAGGTTTAGGGTT
26745718 TTTAA-GTTTAGGG--
1 TTTAAGGTTTAGGGTT
*** *
26745731 TTTAAGGTTT-TTATG
1 TTTAAGGTTTAGGGTT
26745746 TTTAAGGTTTAGGGTT
1 TTTAAGGTTTAGGGTT
26745762 TTTAA-GTTTAGGG
1 TTTAAGGTTTAGGG
26745775 CTTATGGTTT
Statistics
Matches: 45, Mismatches: 8, Indels: 9
0.73 0.13 0.15
Matches are distributed among these distances:
13 5 0.11
14 4 0.09
15 25 0.56
16 11 0.24
ACGTcount: A:0.19, C:0.00, G:0.30, T:0.51
Consensus pattern (16 bp):
TTTAAGGTTTAGGGTT
Found at i:26745818 original size:22 final size:22
Alignment explanation
Indices: 26745679--26745862 Score: 167
Period size: 22 Copynumber: 8.5 Consensus size: 22
26745669 TAAGTTTAGG
* *
26745679 GTTTAGGGTTTAAGGTTTTTAG
1 GTTTAGGGTTTAGGGTTTTTAA
* *
26745701 GTTTAAGGTTTGGGGTTTTTAA
1 GTTTAGGGTTTAGGGTTTTTAA
* *
26745723 GTTTAGGGTTTAAGGTTTTTAT
1 GTTTAGGGTTTAGGGTTTTTAA
*
26745745 GTTTAAGGTTTAGGGTTTTTAA
1 GTTTAGGGTTTAGGGTTTTTAA
* * *
26745767 GTTTAGGGCTTATGGTTTTTAG
1 GTTTAGGGTTTAGGGTTTTTAA
*
26745789 GTTTAGGGTTTGGGGTTTTTAA
1 GTTTAGGGTTTAGGGTTTTTAA
* * *** *
26745811 GGTAAGGG-TTACCCTTTTTTA
1 GTTTAGGGTTTAGGGTTTTTAA
*
26745832 -TTTAAGGG-TTAAGGTTTTTAA
1 GTTT-AGGGTTTAGGGTTTTTAA
*
26745853 GTTAAGGGTT
1 GTTTAGGGTT
26745863 CGGGTTCGGG
Statistics
Matches: 126, Mismatches: 33, Indels: 6
0.76 0.20 0.04
Matches are distributed among these distances:
20 1 0.01
21 25 0.20
22 100 0.79
ACGTcount: A:0.19, C:0.02, G:0.30, T:0.49
Consensus pattern (22 bp):
GTTTAGGGTTTAGGGTTTTTAA
Found at i:26746471 original size:18 final size:18
Alignment explanation
Indices: 26746448--26746485 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
26746438 CTGGGAAAAA
* *
26746448 GATACATATAAGGGTTAG
1 GATACATAAAAGGGCTAG
26746466 GATACATAAAAGGGCTAG
1 GATACATAAAAGGGCTAG
26746484 GA
1 GA
26746486 AACGCACCTG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.42, C:0.08, G:0.29, T:0.21
Consensus pattern (18 bp):
GATACATAAAAGGGCTAG
Found at i:26748414 original size:23 final size:23
Alignment explanation
Indices: 26748388--26748439 Score: 72
Period size: 23 Copynumber: 2.3 Consensus size: 23
26748378 ATTAACTATG
*
26748388 AATTTGAGA-GAAATTTAGAAGGA
1 AATTTGAGAGGAAATTGAG-AGGA
26748411 AA-TTGAGAGGAAATTGAGAGGA
1 AATTTGAGAGGAAATTGAGAGGA
26748433 AATTTGA
1 AATTTGA
26748440 TAGAGGATTT
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
22 12 0.46
23 14 0.54
ACGTcount: A:0.46, C:0.00, G:0.29, T:0.25
Consensus pattern (23 bp):
AATTTGAGAGGAAATTGAGAGGA
Found at i:26748446 original size:14 final size:11
Alignment explanation
Indices: 26748391--26748436 Score: 67
Period size: 11 Copynumber: 4.2 Consensus size: 11
26748381 AACTATGAAT
26748391 TTGAGA-GAAA
1 TTGAGAGGAAA
*
26748401 TTTAGAAGGAAA
1 TTGAG-AGGAAA
26748413 TTGAGAGGAAA
1 TTGAGAGGAAA
26748424 TTGAGAGGAAA
1 TTGAGAGGAAA
26748435 TT
1 TT
26748437 TGATAGAGGA
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
10 4 0.12
11 20 0.62
12 8 0.25
ACGTcount: A:0.46, C:0.00, G:0.30, T:0.24
Consensus pattern (11 bp):
TTGAGAGGAAA
Found at i:26748767 original size:11 final size:11
Alignment explanation
Indices: 26748751--26748806 Score: 53
Period size: 11 Copynumber: 5.0 Consensus size: 11
26748741 ATTAAATATG
26748751 AATTTGAGAGA
1 AATTTGAGAGA
*
26748762 AATTTG-GAAGG
1 AATTTGAG-AGA
26748773 AATTTGAGAGGA
1 AATTTGAGA-GA
*
26748785 AA-TTGAAAGGA
1 AATTTGAGA-GA
26748796 AATTTGAGAGA
1 AATTTGAGAGA
26748807 GGATTTGTTT
Statistics
Matches: 37, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
10 1 0.03
11 27 0.73
12 9 0.24
ACGTcount: A:0.45, C:0.00, G:0.30, T:0.25
Consensus pattern (11 bp):
AATTTGAGAGA
Found at i:26748799 original size:23 final size:23
Alignment explanation
Indices: 26748750--26748805 Score: 80
Period size: 22 Copynumber: 2.5 Consensus size: 23
26748740 GATTAAATAT
*
26748750 GAATTTGAGA-GAAATTTGGAAG
1 GAATTTGAGAGGAAATTTGAAAG
26748772 GAATTTGAGAGGAAA-TTGAAAG
1 GAATTTGAGAGGAAATTTGAAAG
26748794 GAAATTTGAGAG
1 G-AATTTGAGAG
26748806 AGGATTTGTT
Statistics
Matches: 31, Mismatches: 1, Indels: 3
0.89 0.03 0.09
Matches are distributed among these distances:
22 17 0.55
23 14 0.45
ACGTcount: A:0.43, C:0.00, G:0.32, T:0.25
Consensus pattern (23 bp):
GAATTTGAGAGGAAATTTGAAAG
Found at i:26753051 original size:3 final size:3
Alignment explanation
Indices: 26753045--26753070 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
26753035 TTCAAAGCAA
26753045 AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AA
26753071 GATTCTTGAG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:26753172 original size:10 final size:10
Alignment explanation
Indices: 26753149--26753200 Score: 59
Period size: 10 Copynumber: 5.0 Consensus size: 10
26753139 AAATTTGAAC
*
26753149 TTTTTTATATA
1 TTTTTT-TAAA
26753160 TTTTTTTAAA
1 TTTTTTTAAA
26753170 TTTTTTTAGAA
1 TTTTTTTA-AA
* *
26753181 TTTTTATATA
1 TTTTTTTAAA
26753191 TTTTTTTAAA
1 TTTTTTTAAA
26753201 AATATAAATT
Statistics
Matches: 35, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
10 20 0.57
11 15 0.43
ACGTcount: A:0.29, C:0.00, G:0.02, T:0.69
Consensus pattern (10 bp):
TTTTTTTAAA
Found at i:26757687 original size:44 final size:43
Alignment explanation
Indices: 26757624--26758305 Score: 330
Period size: 44 Copynumber: 15.7 Consensus size: 43
26757614 CTCGGGTCTA
26757624 CTCCACTGCAACTTCAGGGAGATAAGATTATCGGCTTTAATCTG
1 CTCCACTGCAACTTCAGGGAGATAAGATTAT-GGCTTTAATCTG
* * * *
26757668 CTCCACTGCAACTTTAGGGAGATAAGATT-TGCCATCTCCAGTCTG
1 CTCCACTGCAACTTCAGGGAGATAAGATTATGGC-T-T-TAATCTG
* ** *
26757713 C-CTCACTGCAACTTCA-GGAGGATAAGACT-TGTTTACTTAGTCTG
1 CTC-CACTGCAACTTCAGGGA-GATAAGATTATGGCT--TTAATCTG
* * ***
26757757 CTCCACTGCAACTTCAGGGAGATAAGACTA--GATGCGATCTG
1 CTCCACTGCAACTTCAGGGAGATAAGATTATGGCTTTAATCTG
* * * * * * *
26757798 CT-CTCTGCAAATTCAGAGAGATAAGATCCAAGGTTTTAATCCG
1 CTCCACTGCAACTTCAGGGAGATAAGAT-TATGGCTTTAATCTG
* *
26757841 CTCCACTGCAACTTCAGGAAGATAGGATTATCGGCTTTAATCTG
1 CTCCACTGCAACTTCAGGGAGATAAGATTAT-GGCTTTAATCTG
* * * * *
26757885 CTCCACTGTAACCTCAGGGAGATAAGATT-TGTCATCTTCAGTCTA
1 CTCCACTGCAACTTCAGGGAGATAAGATTATGGC-T-TT-AATCTG
* * *
26757930 C-CTCATTGCAACTTCA-GGAGGATAAGACT-T-GCTTACTTAGTCTG
1 CTC-CACTGCAACTTCAGGGA-GATAAGATTATGGC-T--TTAATCTG
* * * * ***
26757974 CTCCACTGCAACTCCAAGGAGATAAGACTA--GATGCGATCTG
1 CTCCACTGCAACTTCAGGGAGATAAGATTATGGCTTTAATCTG
* * * * * * *
26758015 CT-CTCTGCATCTTCAGAGAGATAAGATCCAAGGTTTTAATCCG
1 CTCCACTGCAACTTCAGGGAGATAAGAT-TATGGCTTTAATCTG
*
26758058 CTCCACTGCAACTTCAGGGAGATAGGATTATCGGCTTTAATCTG
1 CTCCACTGCAACTTCAGGGAGATAAGATTAT-GGCTTTAATCTG
* *
26758102 CTCCACTACAACTTCAGGGAGATAAGATT-TGCCATCTTCAATCTG
1 CTCCACTGCAACTTCAGGGAGATAAGATTATGGC-T-TT-AATCTG
* * * *
26758147 C-CTCACTGCAGCTTCA-GAAGGATAAGACTA--GCTTACTTAGTCTG
1 CTC-CACTGCAACTTCAGGGA-GATAAGATTATGGC-T--TTAATCTG
* * * * * * ***
26758191 CTCCACTACAACTCCAAGAAGATAAGACTA--GATGCGATCTG
1 CTCCACTGCAACTTCAGGGAGATAAGATTATGGCTTTAATCTG
* * * * * * *
26758232 CT-CTCTACATCTTCAGAGAGATAAGATCCAAGGTTTTAATCTG
1 CTCCACTGCAACTTCAGGGAGATAAGAT-TATGGCTTTAATCTG
*
26758275 CTCCACTGCAACTTCAGGGAGATAGGATTAT
1 CTCCACTGCAACTTCAGGGAGATAAGATTAT
26758306 CGGCCACCGA
Statistics
Matches: 485, Mismatches: 112, Indels: 83
0.71 0.16 0.12
Matches are distributed among these distances:
40 58 0.12
41 21 0.04
42 6 0.01
43 37 0.08
44 265 0.55
45 98 0.20
ACGTcount: A:0.28, C:0.24, G:0.20, T:0.28
Consensus pattern (43 bp):
CTCCACTGCAACTTCAGGGAGATAAGATTATGGCTTTAATCTG
Found at i:26757999 original size:217 final size:217
Alignment explanation
Indices: 26757624--26758309 Score: 1165
Period size: 217 Copynumber: 3.2 Consensus size: 217
26757614 CTCGGGTCTA
* *
26757624 CTCCACTGCAACTTCAGGGAGATAAGATTATCGGCTTTAATCTGCTCCACTGCAACTTTAGGGAG
1 CTCCACTGCAACTTCAGGGAGATAGGATTATCGGCTTTAATCTGCTCCACTGCAACTTCAGGGAG
* *
26757689 ATAAGATTTGCCATCTCCAGTCTGCCTCACTGCAACTTCAGGAGGATAAGACTTGTTTACTTAGT
66 ATAAGATTTGCCATCTTCAGTCTGCCTCACTGCAACTTCAGGAGGATAAGACTTGCTTACTTAGT
* * **
26757754 CTGCTCCACTGCAACTTCAGGGAGATAAGACTAGATGCGATCTGCTCTCTGCAAATTCAGAGAGA
131 CTGCTCCACTGCAACTCCAAGGAGATAAGACTAGATGCGATCTGCTCTCTGCATCTTCAGAGAGA
26757819 TAAGATCCAAGGTTTTAATCCG
196 TAAGATCCAAGGTTTTAATCCG
* * *
26757841 CTCCACTGCAACTTCAGGAAGATAGGATTATCGGCTTTAATCTGCTCCACTGTAACCTCAGGGAG
1 CTCCACTGCAACTTCAGGGAGATAGGATTATCGGCTTTAATCTGCTCCACTGCAACTTCAGGGAG
* * *
26757906 ATAAGATTTGTCATCTTCAGTCTACCTCATTGCAACTTCAGGAGGATAAGACTTGCTTACTTAGT
66 ATAAGATTTGCCATCTTCAGTCTGCCTCACTGCAACTTCAGGAGGATAAGACTTGCTTACTTAGT
26757971 CTGCTCCACTGCAACTCCAAGGAGATAAGACTAGATGCGATCTGCTCTCTGCATCTTCAGAGAGA
131 CTGCTCCACTGCAACTCCAAGGAGATAAGACTAGATGCGATCTGCTCTCTGCATCTTCAGAGAGA
26758036 TAAGATCCAAGGTTTTAATCCG
196 TAAGATCCAAGGTTTTAATCCG
*
26758058 CTCCACTGCAACTTCAGGGAGATAGGATTATCGGCTTTAATCTGCTCCACTACAACTTCAGGGAG
1 CTCCACTGCAACTTCAGGGAGATAGGATTATCGGCTTTAATCTGCTCCACTGCAACTTCAGGGAG
* * * *
26758123 ATAAGATTTGCCATCTTCAATCTGCCTCACTGCAGCTTCAGAAGGATAAGACTAGCTTACTTAGT
66 ATAAGATTTGCCATCTTCAGTCTGCCTCACTGCAACTTCAGGAGGATAAGACTTGCTTACTTAGT
* * *
26758188 CTGCTCCACTACAACTCCAAGAAGATAAGACTAGATGCGATCTGCTCTCTACATCTTCAGAGAGA
131 CTGCTCCACTGCAACTCCAAGGAGATAAGACTAGATGCGATCTGCTCTCTGCATCTTCAGAGAGA
*
26758253 TAAGATCCAAGGTTTTAATCTG
196 TAAGATCCAAGGTTTTAATCCG
26758275 CTCCACTGCAACTTCAGGGAGATAGGATTATCGGC
1 CTCCACTGCAACTTCAGGGAGATAGGATTATCGGC
26758310 CACCGATCTG
Statistics
Matches: 440, Mismatches: 29, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
217 440 1.00
ACGTcount: A:0.28, C:0.24, G:0.20, T:0.28
Consensus pattern (217 bp):
CTCCACTGCAACTTCAGGGAGATAGGATTATCGGCTTTAATCTGCTCCACTGCAACTTCAGGGAG
ATAAGATTTGCCATCTTCAGTCTGCCTCACTGCAACTTCAGGAGGATAAGACTTGCTTACTTAGT
CTGCTCCACTGCAACTCCAAGGAGATAAGACTAGATGCGATCTGCTCTCTGCATCTTCAGAGAGA
TAAGATCCAAGGTTTTAATCCG
Found at i:26759161 original size:24 final size:24
Alignment explanation
Indices: 26759113--26759163 Score: 68
Period size: 24 Copynumber: 2.1 Consensus size: 24
26759103 AGTGTCTTGA
*
26759113 AAAGAAAAAGTATTCTAGAACAAC
1 AAAGAAAAAGTATTCTACAACAAC
*
26759137 AAAGAATAAAGTATT-TACAAGAAC
1 AAAGAA-AAAGTATTCTACAACAAC
26759161 AAA
1 AAA
26759164 CAAACTCGGT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
24 16 0.67
25 8 0.33
ACGTcount: A:0.61, C:0.10, G:0.12, T:0.18
Consensus pattern (24 bp):
AAAGAAAAAGTATTCTACAACAAC
Found at i:26770704 original size:19 final size:19
Alignment explanation
Indices: 26770682--26770733 Score: 50
Period size: 21 Copynumber: 2.6 Consensus size: 19
26770672 AAAAATTACT
*
26770682 TATAAAAAAAATAAATATGTA
1 TATAAAAAAAACAAATA--TA
* *
26770703 TATAAAAACAACATATATA
1 TATAAAAAAAACAAATATA
26770722 TATAAATAAAAA
1 TATAAA-AAAAA
26770734 ATAATTACAG
Statistics
Matches: 26, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
19 8 0.31
20 4 0.15
21 14 0.54
ACGTcount: A:0.67, C:0.04, G:0.02, T:0.27
Consensus pattern (19 bp):
TATAAAAAAAACAAATATA
Found at i:26772422 original size:21 final size:21
Alignment explanation
Indices: 26772398--26772438 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
26772388 GATAGATAGG
26772398 TAGATAATATAAAATATATAT
1 TAGATAATATAAAATATATAT
** *
26772419 TAGATTTTTTAAAATATATA
1 TAGATAATATAAAATATATA
26772439 ATTTTTTTAA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.51, C:0.00, G:0.05, T:0.44
Consensus pattern (21 bp):
TAGATAATATAAAATATATAT
Found at i:26774313 original size:14 final size:15
Alignment explanation
Indices: 26774294--26774322 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
26774284 TCATATAAAC
26774294 TTAAAAAA-TATTTT
1 TTAAAAAATTATTTT
26774308 TTAAAAAATTATTTT
1 TTAAAAAATTATTTT
26774323 ATTTCATTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 8 0.57
15 6 0.43
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (15 bp):
TTAAAAAATTATTTT
Found at i:26774887 original size:12 final size:12
Alignment explanation
Indices: 26774872--26774901 Score: 60
Period size: 12 Copynumber: 2.5 Consensus size: 12
26774862 AAAATATACT
26774872 TAACAATTGAAC
1 TAACAATTGAAC
26774884 TAACAATTGAAC
1 TAACAATTGAAC
26774896 TAACAA
1 TAACAA
26774902 AAGTACCAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.53, C:0.17, G:0.07, T:0.23
Consensus pattern (12 bp):
TAACAATTGAAC
Found at i:26789209 original size:152 final size:152
Alignment explanation
Indices: 26788990--26789289 Score: 591
Period size: 152 Copynumber: 2.0 Consensus size: 152
26788980 TGTTTTCATT
26788990 TTTCAAAATCATTTTATAATTTTTAACCAACTTGCTTAGTGTTTTTCATTTTTCAAGAAAATGAA
1 TTTCAAAATCATTTTATAATTTTTAACCAACTTGCTTAGTGTTTTTCATTTTTCAAGAAAATGAA
26789055 AATAAAAATGATATTTGTTTTTTAAACCAAACAAACCCGAATATGAATTATTAATATGAAATATA
66 AATAAAAATGATATTTGTTTTTTAAACCAAACAAACCCGAATATGAATTATTAATATGAAATATA
26789120 AACTCAAATTAAAAAAAAAAAC
131 AACTCAAATTAAAAAAAAAAAC
26789142 TTTCAAAATCATTTTATAATTTTTAACCAACTTGCTTAGTGTTTTTCATTTTTCAAGAAAATGAA
1 TTTCAAAATCATTTTATAATTTTTAACCAACTTGCTTAGTGTTTTTCATTTTTCAAGAAAATGAA
*
26789207 AATAAAAATGATATTTGTTTTTTAAACCAAACAAACCCGAATATGAATTATTAATATGAATTATA
66 AATAAAAATGATATTTGTTTTTTAAACCAAACAAACCCGAATATGAATTATTAATATGAAATATA
26789272 AACTCAAATTAAAAAAAA
131 AACTCAAATTAAAAAAAA
26789290 CTAGAATTAT
Statistics
Matches: 147, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
152 147 1.00
ACGTcount: A:0.45, C:0.11, G:0.07, T:0.37
Consensus pattern (152 bp):
TTTCAAAATCATTTTATAATTTTTAACCAACTTGCTTAGTGTTTTTCATTTTTCAAGAAAATGAA
AATAAAAATGATATTTGTTTTTTAAACCAAACAAACCCGAATATGAATTATTAATATGAAATATA
AACTCAAATTAAAAAAAAAAAC
Found at i:26789264 original size:13 final size:13
Alignment explanation
Indices: 26789246--26789270 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
26789236 AACAAACCCG
26789246 AATATGAATTATT
1 AATATGAATTATT
26789259 AATATGAATTAT
1 AATATGAATTAT
26789271 AAACTCAAAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.48, C:0.00, G:0.08, T:0.44
Consensus pattern (13 bp):
AATATGAATTATT
Found at i:26789444 original size:23 final size:23
Alignment explanation
Indices: 26789418--26789462 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
26789408 ATAATAATTC
* *
26789418 TATTTAAAATTTAATTTTAATCA
1 TATTAAAAATTCAATTTTAATCA
*
26789441 TATTAAAAATTCCATTTTAATC
1 TATTAAAAATTCAATTTTAATC
26789463 TAATCATTAC
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.42, C:0.09, G:0.00, T:0.49
Consensus pattern (23 bp):
TATTAAAAATTCAATTTTAATCA
Found at i:26789498 original size:15 final size:16
Alignment explanation
Indices: 26789463--26789499 Score: 51
Period size: 15 Copynumber: 2.4 Consensus size: 16
26789453 CATTTTAATC
*
26789463 TAATCATTACATATTA
1 TAATTATTACATATTA
26789479 T-ATTATTA-ATATTA
1 TAATTATTACATATTA
26789493 TAATTAT
1 TAATTAT
26789500 AAAAAACGTA
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
14 7 0.37
15 11 0.58
16 1 0.05
ACGTcount: A:0.43, C:0.05, G:0.00, T:0.51
Consensus pattern (16 bp):
TAATTATTACATATTA
Found at i:26791782 original size:35 final size:36
Alignment explanation
Indices: 26791730--26791817 Score: 90
Period size: 35 Copynumber: 2.5 Consensus size: 36
26791720 TTGGTTGAAT
* *
26791730 AAATGGTCTATTG-GCTCTACAGAGCAGCATCATGG
1 AAATGATCTACTGAGCTCTACAGAGCAGCATCATGG
** * * *
26791765 AAATGATCTACT-AGCTCTATGGATCGGCGTCATGG
1 AAATGATCTACTGAGCTCTACAGAGCAGCATCATGG
*
26791800 AAATGATTTACTGAGCTC
1 AAATGATCTACTGAGCTC
26791818 ATTGAAGTCA
Statistics
Matches: 43, Mismatches: 8, Indels: 3
0.80 0.15 0.06
Matches are distributed among these distances:
35 38 0.88
36 5 0.12
ACGTcount: A:0.28, C:0.19, G:0.24, T:0.28
Consensus pattern (36 bp):
AAATGATCTACTGAGCTCTACAGAGCAGCATCATGG
Found at i:26792405 original size:28 final size:28
Alignment explanation
Indices: 26792251--26792404 Score: 184
Period size: 28 Copynumber: 5.5 Consensus size: 28
26792241 TTCCAAGGAA
* * *
26792251 TATCTTTTGTGGAAAGTTCGCCAATGAC
1 TATCTTATGTGGAAAGTCCACCAATGAC
* *
26792279 TATCTTATGTGGAAAGTCCGCCAAAGAC
1 TATCTTATGTGGAAAGTCCACCAATGAC
* * *
26792307 TATCTTATGTGGAAATTCCTCCAAGGAC
1 TATCTTATGTGGAAAGTCCACCAATGAC
* *
26792335 TATCTTATGTGGAAAATCCACCAATGAA
1 TATCTTATGTGGAAAGTCCACCAATGAC
* *
26792363 TATCTGA-GATGGAATGTCCACCAATGAC
1 TATCTTATG-TGGAAAGTCCACCAATGAC
26792391 TATCTTATGTGGAA
1 TATCTTATGTGGAA
26792405 TTTTCACTCA
Statistics
Matches: 109, Mismatches: 15, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
27 1 0.01
28 107 0.98
29 1 0.01
ACGTcount: A:0.31, C:0.19, G:0.19, T:0.31
Consensus pattern (28 bp):
TATCTTATGTGGAAAGTCCACCAATGAC
Found at i:26792424 original size:84 final size:84
Alignment explanation
Indices: 26792242--26792404 Score: 220
Period size: 84 Copynumber: 1.9 Consensus size: 84
26792232 AGGGAAGTCT
* * * * * * * *
26792242 TCCAAGGAATATCTTTTGTGGAAAGTTCGCCAATGACTATCTTATGTGGAAAGTCCGCCAAAGAC
1 TCCAAGGACTATCTTATGTGGAAAATCCACCAATGAATATCTGATGTGGAAAGTCCACCAAAGAC
26792307 TATCTTATGTGGAAATTCC
66 TATCTTATGTGGAAATTCC
* *
26792326 TCCAAGGACTATCTTATGTGGAAAATCCACCAATGAATATCTGA-GATGGAATGTCCACCAATGA
1 TCCAAGGACTATCTTATGTGGAAAATCCACCAATGAATATCTGATG-TGGAAAGTCCACCAAAGA
26792390 CTATCTTATGTGGAA
65 CTATCTTATGTGGAA
26792405 TTTTCACTCA
Statistics
Matches: 68, Mismatches: 10, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
83 1 0.01
84 67 0.99
ACGTcount: A:0.32, C:0.19, G:0.20, T:0.29
Consensus pattern (84 bp):
TCCAAGGACTATCTTATGTGGAAAATCCACCAATGAATATCTGATGTGGAAAGTCCACCAAAGAC
TATCTTATGTGGAAATTCC
Found at i:26794614 original size:13 final size:13
Alignment explanation
Indices: 26794596--26794629 Score: 68
Period size: 13 Copynumber: 2.6 Consensus size: 13
26794586 TGTAGCCCCA
26794596 ACATCAACGAGTC
1 ACATCAACGAGTC
26794609 ACATCAACGAGTC
1 ACATCAACGAGTC
26794622 ACATCAAC
1 ACATCAAC
26794630 CAACTTCACT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 21 1.00
ACGTcount: A:0.41, C:0.32, G:0.12, T:0.15
Consensus pattern (13 bp):
ACATCAACGAGTC
Done.