Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: CP032248.1 Gossypioides kirkii chromosome KI_06
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 60359545
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 900 characters in sequence are not A, C, G, or T
File 99 of 193
Found at i:31914941 original size:192 final size:194
Alignment explanation
Indices: 31914587--31915030 Score: 556
Period size: 192 Copynumber: 2.3 Consensus size: 194
31914577 GAAACCAACG
* * * * **
31914587 CGATGGTTGAGGTACCACATATGTGGCGAGTCCTCGACAACTTATGTGAGCAGCATCATGAGTCG
1 CGATGGCTAAGGTACCGCATATGTTGCGAGTCCTCGACAACTCGTGTGAGCAGCATCATGAGTCG
* * *
31914652 GGAAATGAGAAATGAATCCAAGAATGGATTACAGGTCCTACGATGGTTAGGATTTATGCATAAGT
66 GGAAAAGAGAAATGAATCCAAGAATGGATTACAGGCCCTACGATGGTTAGGATTTATGCATAAAT
* * *
31914717 GCATATTCTCGACAGCTCGTGTGAGCAGCATCGTT-AGGGAAACAGTTATATGCACAG-TACCGT
131 GCATATTCTCGACAGCTCGCGTGAGCAGCATCGTTAAGGGAAA-AGTTACA-G-ACAGACACCGT
*
31914780 AT
193 AC
* * *
31914782 CGATGGCTAAGGT-CTGCATATGTTGCGAGTCCTCGACAGCTCGTGTGAGCAGCATCGTGAGTC-
1 CGATGGCTAAGGTACCGCATATGTTGCGAGTCCTCGACAACTCGTGTGAGCAGCATCATGAGTCG
* * * * *
31914845 GGAAAAGAGATATGAATCCTA-AATGGATTATAGGCCCTACGATGGTTGGGATTTATGCTTAAAT
66 GGAAAAGAGAAATGAATCCAAGAATGGATTACAGGCCCTACGATGGTTAGGATTTATGCATAAAT
* * * *
31914909 GCATATTCTCGATAGCTCGCGTGAGTAGCATCGTTAAGGGACAATTTACAGACAGACACCGTAC
131 GCATATTCTCGACAGCTCGCGTGAGCAGCATCGTTAAGGGAAAAGTTACAGACAGACACCGTAC
* * * * *
31914973 CGATGGCTAGGGTACCGCATATGTTACGAGTTCTCGAAAACTCGTGTGAGTAGCATCA
1 CGATGGCTAAGGTACCGCATATGTTGCGAGTCCTCGACAACTCGTGTGAGCAGCATCA
31915031 GGTACTAGTA
Statistics
Matches: 213, Mismatches: 33, Indels: 9
0.84 0.13 0.04
Matches are distributed among these distances:
190 4 0.02
191 19 0.09
192 112 0.53
193 24 0.11
194 43 0.20
195 11 0.05
ACGTcount: A:0.28, C:0.19, G:0.27, T:0.26
Consensus pattern (194 bp):
CGATGGCTAAGGTACCGCATATGTTGCGAGTCCTCGACAACTCGTGTGAGCAGCATCATGAGTCG
GGAAAAGAGAAATGAATCCAAGAATGGATTACAGGCCCTACGATGGTTAGGATTTATGCATAAAT
GCATATTCTCGACAGCTCGCGTGAGCAGCATCGTTAAGGGAAAAGTTACAGACAGACACCGTAC
Found at i:31915855 original size:21 final size:21
Alignment explanation
Indices: 31915830--31915873 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
31915820 TTGAACTATT
31915830 TACTAACT-TAACAACTACCGA
1 TACT-ACTCTAACAACTACCGA
* *
31915851 TACTAGTCTAACAAGTACCGA
1 TACTACTCTAACAACTACCGA
31915872 TA
1 TA
31915874 GAAGTATCCA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
20 2 0.10
21 18 0.90
ACGTcount: A:0.41, C:0.25, G:0.09, T:0.25
Consensus pattern (21 bp):
TACTACTCTAACAACTACCGA
Found at i:31917243 original size:13 final size:13
Alignment explanation
Indices: 31917210--31917250 Score: 55
Period size: 13 Copynumber: 3.2 Consensus size: 13
31917200 CATTTGGCTC
*
31917210 AAAAGCACTTTTA
1 AAAAGCATTTTTA
*
31917223 AAAAGCATTTTTT
1 AAAAGCATTTTTA
*
31917236 AAAAGCATTGTTA
1 AAAAGCATTTTTA
31917249 AA
1 AA
31917251 CTAGTCCTTA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
13 24 1.00
ACGTcount: A:0.46, C:0.10, G:0.10, T:0.34
Consensus pattern (13 bp):
AAAAGCATTTTTA
Found at i:31918553 original size:22 final size:22
Alignment explanation
Indices: 31918534--31918575 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
31918524 ACATAAATTG
*
31918534 ATTTTTTTAATTTTAAAAATAT
1 ATTTATTTAATTTTAAAAATAT
* *
31918556 ATTTATTTATTTTTATAAAT
1 ATTTATTTAATTTTAAAAAT
31918576 CTAGTTACTT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 17 1.00
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (22 bp):
ATTTATTTAATTTTAAAAATAT
Found at i:31920489 original size:23 final size:23
Alignment explanation
Indices: 31920445--31920491 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 23
31920435 TTTGGAAAAC
* *
31920445 ATTTTTATGTTTTTATTTTTTTT
1 ATTTTTATGTCTTTATTGTTTTT
31920468 ATTTTTATG-CTTTATGTGTTTTT
1 ATTTTTATGTCTTTAT-TGTTTTT
31920491 A
1 A
31920492 AGCACTACAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
22 5 0.24
23 16 0.76
ACGTcount: A:0.15, C:0.02, G:0.09, T:0.74
Consensus pattern (23 bp):
ATTTTTATGTCTTTATTGTTTTT
Found at i:31926928 original size:62 final size:61
Alignment explanation
Indices: 31926792--31926957 Score: 183
Period size: 62 Copynumber: 2.7 Consensus size: 61
31926782 CTAAGTCCCG
* * *
31926792 AAAATCCCCAAATTTTTAAACTTAAACCAAAATCCCCAAACCCATCAACCTCAACAATCCT
1 AAAATCCCCAAATTTTTAAACATAAACCAAAATCCCCAAACCCAACAACCTCAAAAATCCT
* * *
31926853 ACAATCCCCAAATTTCTTAAACATAAACCAAATTCCCCAAACCCAACAACC-CTAAAAATCTT
1 AAAATCCCCAAATTT-TTAAACATAAACCAAAATCCCCAAACCCAACAACCTC-AAAAATCCT
* * *
31926915 AAAAGT-CCTAAATTTTTAAAACCTAAATCCCAAAATTCCCAAA
1 AAAA-TCCCCAAATTTTT-AAACATAAA--CCAAAATCCCCAAA
31926958 AATTTTGAAA
Statistics
Matches: 88, Mismatches: 11, Indels: 9
0.81 0.10 0.08
Matches are distributed among these distances:
61 17 0.19
62 58 0.66
63 1 0.01
64 12 0.14
ACGTcount: A:0.46, C:0.31, G:0.01, T:0.22
Consensus pattern (61 bp):
AAAATCCCCAAATTTTTAAACATAAACCAAAATCCCCAAACCCAACAACCTCAAAAATCCT
Found at i:31927005 original size:32 final size:32
Alignment explanation
Indices: 31926921--31927019 Score: 96
Period size: 32 Copynumber: 3.2 Consensus size: 32
31926911 TCTTAAAAGT
* *
31926921 CCTAAATTTTTAAAACCTAAATCCCAAAATTC
1 CCTAAATTTTTAAAACCTAAAACCCAAAATAC
* * * * *
31926953 CCAAAAATTTTGAAATCTAAAACCCGAAATAC
1 CCTAAATTTTTAAAACCTAAAACCCAAAATAC
* *
31926985 CCTACATTTTTTAAACCT-AAA-CCAAAAT-C
1 CCTAAATTTTTAAAACCTAAAACCCAAAATAC
31927014 CCTAAA
1 CCTAAA
31927020 CTCAATAACC
Statistics
Matches: 53, Mismatches: 14, Indels: 3
0.76 0.20 0.04
Matches are distributed among these distances:
29 6 0.11
30 6 0.11
31 3 0.06
32 38 0.72
ACGTcount: A:0.45, C:0.25, G:0.02, T:0.27
Consensus pattern (32 bp):
CCTAAATTTTTAAAACCTAAAACCCAAAATAC
Found at i:31928497 original size:40 final size:40
Alignment explanation
Indices: 31928452--31928544 Score: 150
Period size: 40 Copynumber: 2.3 Consensus size: 40
31928442 ATAGGTTTAT
31928452 AAGTCTTCCTTTTAATCAATCTTATACTCTACCGAGTCAC
1 AAGTCTTCCTTTTAATCAATCTTATACTCTACCGAGTCAC
* * *
31928492 AAGTCTTCCTTTTAATTAATCTTATGCTCTACCGAGTCAT
1 AAGTCTTCCTTTTAATCAATCTTATACTCTACCGAGTCAC
*
31928532 AAATCTTCCTTTT
1 AAGTCTTCCTTTT
31928545 TAAAAACAAA
Statistics
Matches: 49, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
40 49 1.00
ACGTcount: A:0.26, C:0.25, G:0.08, T:0.42
Consensus pattern (40 bp):
AAGTCTTCCTTTTAATCAATCTTATACTCTACCGAGTCAC
Found at i:31928688 original size:41 final size:41
Alignment explanation
Indices: 31928573--31928676 Score: 183
Period size: 41 Copynumber: 2.5 Consensus size: 41
31928563 TTATTTCTAA
31928573 ACATGAGTCTTCC-TTTAATATAATCTCATTCTCATCCCGAG
1 ACATGAGTCTTCCATTT-ATATAATCTCATTCTCATCCCGAG
*
31928614 ACATGAGTCTTCCATTTATATAATCTCATTCTCATCTCGAG
1 ACATGAGTCTTCCATTTATATAATCTCATTCTCATCCCGAG
31928655 ACATGAGTCTTCCATTTATATA
1 ACATGAGTCTTCCATTTATATA
31928677 TCGAGTTTCT
Statistics
Matches: 61, Mismatches: 1, Indels: 2
0.95 0.02 0.03
Matches are distributed among these distances:
41 58 0.95
42 3 0.05
ACGTcount: A:0.28, C:0.24, G:0.10, T:0.38
Consensus pattern (41 bp):
ACATGAGTCTTCCATTTATATAATCTCATTCTCATCCCGAG
Found at i:31932348 original size:2 final size:2
Alignment explanation
Indices: 31932301--31932329 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
31932291 ATATTGTTTC
31932301 AT AT AT AT AT AT AT AT AT A- AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
31932330 CTATTTTAGA
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 25 0.96
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:31942970 original size:23 final size:21
Alignment explanation
Indices: 31942925--31942969 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
31942915 TATAAAAAGC
*
31942925 TATTCATATTTTTTTATATTA
1 TATTCATACTTTTTTATATTA
* *
31942946 TATTCATGCTTTTTTATATCA
1 TATTCATACTTTTTTATATTA
31942967 TAT
1 TAT
31942970 AAAATAAACA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.27, C:0.09, G:0.02, T:0.62
Consensus pattern (21 bp):
TATTCATACTTTTTTATATTA
Found at i:31944648 original size:22 final size:22
Alignment explanation
Indices: 31944623--31944678 Score: 67
Period size: 22 Copynumber: 2.5 Consensus size: 22
31944613 TAGGCCCTAA
31944623 ATAAATAAATAATAAAAATTAT
1 ATAAATAAATAATAAAAATTAT
* * *
31944645 ATAAATAAATATTAATAATTTT
1 ATAAATAAATAATAAAAATTAT
**
31944667 ATATTTAAATAA
1 ATAAATAAATAA
31944679 ATTTAGTAGT
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
22 28 1.00
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (22 bp):
ATAAATAAATAATAAAAATTAT
Found at i:31949892 original size:19 final size:19
Alignment explanation
Indices: 31949868--31949909 Score: 68
Period size: 19 Copynumber: 2.2 Consensus size: 19
31949858 TATTTTAGAT
31949868 TTTTTTTAAAAAAT-TATAA
1 TTTTTTTAAAAAATATA-AA
31949887 TTTTTTTAAAAAATATAAA
1 TTTTTTTAAAAAATATAAA
31949906 TTTT
1 TTTT
31949910 AGGATTTTAT
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
19 20 0.91
20 2 0.09
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (19 bp):
TTTTTTTAAAAAATATAAA
Found at i:31949920 original size:17 final size:17
Alignment explanation
Indices: 31949900--31949941 Score: 50
Period size: 17 Copynumber: 2.5 Consensus size: 17
31949890 TTTTAAAAAA
*
31949900 TATAAATTTTAGGATTT
1 TATAAATTTTAGAATTT
*
31949917 TATAAATATTTTGAATTT
1 TATAAAT-TTTAGAATTT
31949935 TA-AAATT
1 TATAAATT
31949942 ATTTTTAATT
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
16 1 0.05
17 11 0.50
18 10 0.45
ACGTcount: A:0.40, C:0.00, G:0.07, T:0.52
Consensus pattern (17 bp):
TATAAATTTTAGAATTT
Found at i:31949936 original size:18 final size:19
Alignment explanation
Indices: 31949913--31949967 Score: 71
Period size: 18 Copynumber: 3.0 Consensus size: 19
31949903 AAATTTTAGG
31949913 ATTTTATAAA-TATTTTGA
1 ATTTTATAAATTATTTTGA
*
31949931 ATTTTA-AAATTATTTTTA
1 ATTTTATAAATTATTTTGA
31949949 ATTTT-TGAAATTATTTTGA
1 ATTTTAT-AAATTATTTTGA
31949968 TTATTTTGTT
Statistics
Matches: 32, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
17 3 0.09
18 18 0.56
19 11 0.34
ACGTcount: A:0.36, C:0.00, G:0.05, T:0.58
Consensus pattern (19 bp):
ATTTTATAAATTATTTTGA
Found at i:31953432 original size:59 final size:57
Alignment explanation
Indices: 31953357--31953670 Score: 252
Period size: 59 Copynumber: 5.4 Consensus size: 57
31953347 TTGACGTTCG
* *
31953357 GGGTAAAAAT-GTAATTTTTGGAAGTTTGAGGGTAAAATAGTAATTTTTAGAAAGTTTA
1 GGGTAAAAATGGTAATTTTTGGAAGTTTCAGGGTAAAATAGGAATTTTT-GAAA-TTTA
** * * * * *
31953415 GGGTCAAAAATGG-AATTTTTGGAAAATTCAAGGTTAAAAAAGTAATTTTTGGAAGTTTG
1 GGGT-AAAAATGGTAATTTTTGGAAGTTTC-AGGGTAAAATAGGAATTTTT-GAAATTTA
* * *
31953474 GGGT-AAAATGGTAATTTTTGAAAAG-TTCAAGGTCAAAAAATGGAATTTTTAGAAATTTGA
1 GGGTAAAAATGGTAATTTTTG-GAAGTTTCAGGGT-AAAATA-GGAATTTTT-GAAATTT-A
*
31953534 GGGT-AAAATGGTAGTTTTTGGAAAGTTT-AGGGTCAAAAT-GGAATTTTTGTAAATTTA
1 GGGTAAAAATGGTAATTTTTGG-AAGTTTCAGGGT-AAAATAGGAATTTTTG-AAATTTA
* * *
31953591 GGG-ATAAAATGGTAATTTTTAGAAAG-TTCAGGATCAAATATGGAATTTTTGGAAATTTA
1 GGGTA-AAAATGGTAATTTTT-GGAAGTTTCAGGGTAAAATA-GGAATTTTT-GAAATTTA
31953650 GGGTTAAAAA-GGTAATTTTTG
1 GGG-TAAAAATGGTAATTTTTG
31953671 AAAAGTTCAG
Statistics
Matches: 212, Mismatches: 24, Indels: 40
0.77 0.09 0.14
Matches are distributed among these distances:
57 21 0.10
58 58 0.27
59 72 0.34
60 58 0.27
61 3 0.01
ACGTcount: A:0.38, C:0.02, G:0.24, T:0.36
Consensus pattern (57 bp):
GGGTAAAAATGGTAATTTTTGGAAGTTTCAGGGTAAAATAGGAATTTTTGAAATTTA
Found at i:31953490 original size:88 final size:87
Alignment explanation
Indices: 31953360--31953682 Score: 334
Period size: 89 Copynumber: 3.7 Consensus size: 87
31953350 ACGTTCGGGG
* *
31953360 TAAAAATGTAATTTTTGGAAGTTTGAGGGTAAAATAGTAATTTTT-AGAAAGTTTAGGGTCAAAA
1 TAAAAATGTAATTTTTGGAAGTTTG-GGGTAAAATGGTAATTTTTGA-AAAGTTCAGGGTCAAAA
*
31953424 ATGGAATTTTTGGAAAATTCAAGGT
64 ATGGAATTTTTAGAAAATTC-AGGT
* *
31953449 TAAAAAAGTAATTTTTGGAAGTTTGGGGTAAAATGGTAATTTTTGAAAAGTTCAAGGTCAAAAAA
1 TAAAAATGTAATTTTTGGAAGTTTGGGGTAAAATGGTAATTTTTGAAAAGTTCAGGGTC-AAAAA
* * *
31953514 TGGAATTTTTAGAAATTTGAGGG
65 TGGAATTTTTAGAAAATTCAGGT
* * * *
31953537 T-AAAATGGTAGTTTTTGGAAAGTTTAGGGTCAAAATGG-AATTTTTGTAAA-TTTAGGG--ATA
1 TAAAAAT-GTAATTTTTGG-AAGTTTGGGGT-AAAATGGTAATTTTTGAAAAGTTCAGGGTCA-A
*
31953597 AAATGGTAATTTTTAGAAAGTTCAGGAT
62 AAATGG-AATTTTTAGAAAATTCAGG-T
* * * * * *
31953625 CAAATATGGAATTTTTGGAAATTTAGGGTTAAAAAGGTAATTTTTGAAAAGTTCAGGG
1 TAAAAATGTAATTTTTGGAAGTTT-GGGGTAAAATGGTAATTTTTGAAAAGTTCAGGG
31953683 ATCTTCTGGG
Statistics
Matches: 195, Mismatches: 27, Indels: 24
0.79 0.11 0.10
Matches are distributed among these distances:
85 1 0.01
86 7 0.04
87 32 0.16
88 71 0.36
89 77 0.39
90 7 0.04
ACGTcount: A:0.38, C:0.02, G:0.24, T:0.36
Consensus pattern (87 bp):
TAAAAATGTAATTTTTGGAAGTTTGGGGTAAAATGGTAATTTTTGAAAAGTTCAGGGTCAAAAAT
GGAATTTTTAGAAAATTCAGGT
Found at i:31953579 original size:117 final size:116
Alignment explanation
Indices: 31953332--31953682 Score: 340
Period size: 117 Copynumber: 3.0 Consensus size: 116
31953322 ACACTCGAGG
* * * * * *
31953332 AAAAATGGCAATTTTTTGACGTTCGGGGTAAAAAT-GTAATTTTTG-GAAGTTTGAGGGT-AAAA
1 AAAAATGG-AATTTTTGGAAGTTTGGGGT-AAAATGGTAATTTTTGAAAAG-TTCAAGGTCAAAA
* * *
31953394 TA-GTAATTTTTAGAAAGTTTAGGGTCAAAAATGG-AATTTTTGGAAAATTCAAGGTT
63 TATGGAATTTTTAGAAA-TTTAGGGT--AAAATGGTAATTTTTGGAAAGTT-AAGGGT
* * *
31953450 AAAAAAGTAATTTTTGGAAGTTTGGGGTAAAATGGTAATTTTTGAAAAGTTCAAGGTCAAAAAAT
1 AAAAATGGAATTTTTGGAAGTTTGGGGTAAAATGGTAATTTTTGAAAAGTTCAAGGTCAAAATAT
* *
31953515 GGAATTTTTAGAAATTTGAGGGTAAAATGGTAGTTTTTGGAAAGTTTAGGGT
66 GGAATTTTTAGAAATTT-AGGGTAAAATGGTAATTTTTGGAAAGTTAAGGGT
* * * *
31953567 CAAAATGGAATTTTTGTAAATTTAGGGATAAAATGGTAATTTTT-AGAAAGTTC-AGGATC-AAA
1 AAAAATGGAATTTTTGGAAGTTT-GGGGTAAAATGGTAATTTTTGA-AAAGTTCAAGG-TCAAAA
* * * *
31953629 TATGGAATTTTTGGAAATTTAGGGTTAAAAAGGTAATTTTTGAAAAGTTCAGGG
63 TATGGAATTTTTAGAAATTTAGGG-TAAAATGGTAATTTTTGGAAAGTTAAGGG
31953683 ATCTTCTGGG
Statistics
Matches: 197, Mismatches: 26, Indels: 21
0.81 0.11 0.09
Matches are distributed among these distances:
116 9 0.05
117 112 0.57
118 58 0.29
119 18 0.09
ACGTcount: A:0.38, C:0.03, G:0.24, T:0.35
Consensus pattern (116 bp):
AAAAATGGAATTTTTGGAAGTTTGGGGTAAAATGGTAATTTTTGAAAAGTTCAAGGTCAAAATAT
GGAATTTTTAGAAATTTAGGGTAAAATGGTAATTTTTGGAAAGTTAAGGGT
Found at i:31953607 original size:29 final size:28
Alignment explanation
Indices: 31953357--31953670 Score: 251
Period size: 29 Copynumber: 10.7 Consensus size: 28
31953347 TTGACGTTCG
*
31953357 GGGTAAAAAT-GTAATTTTTGGAAGTTTGA
1 GGGT-AAAATGGTAATTTTTGGAAATTT-A
* *
31953386 GGGTAAAATAGTAATTTTTAGAAAGTTTA
1 GGGTAAAATGGTAATTTTTGGAAA-TTTA
*
31953415 GGGTCAAAAATGG-AATTTTTGGAAAATTCAA
1 GGGT--AAAATGGTAATTTTTGG-AAATT-TA
* ** * *
31953446 GGTTAAAAAAGTAATTTTTGGAAGTTTG
1 GGGTAAAATGGTAATTTTTGGAAATTTA
* *
31953474 GGGTAAAATGGTAATTTTTGAAAAGTTCA
1 GGGTAAAATGGTAATTTTTGGAAA-TTTA
* *
31953503 AGGTCAAAAAATGG-AATTTTTAGAAATTTGA
1 GGGT---AAAATGGTAATTTTTGGAAATTT-A
*
31953534 GGGTAAAATGGTAGTTTTTGGAAAGTTTA
1 GGGTAAAATGGTAATTTTTGGAAA-TTTA
*
31953563 GGGTCAAAATGG-AATTTTTGTAAATTTA
1 GGGT-AAAATGGTAATTTTTGGAAATTTA
* *
31953591 GGGATAAAATGGTAATTTTTAGAAAGTTCA
1 GGG-TAAAATGGTAATTTTTGGAAA-TTTA
*
31953621 GGATCAAATATGG-AATTTTTGGAAATTTA
1 GGGT-AAA-ATGGTAATTTTTGGAAATTTA
*
31953650 GGGTTAAAAAGGTAATTTTTG
1 GGG-TAAAATGGTAATTTTTG
31953671 AAAAGTTCAG
Statistics
Matches: 228, Mismatches: 35, Indels: 44
0.74 0.11 0.14
Matches are distributed among these distances:
28 48 0.21
29 88 0.39
30 54 0.24
31 31 0.14
32 7 0.03
ACGTcount: A:0.38, C:0.02, G:0.24, T:0.36
Consensus pattern (28 bp):
GGGTAAAATGGTAATTTTTGGAAATTTA
Found at i:31953676 original size:59 final size:58
Alignment explanation
Indices: 31953398--31953681 Score: 301
Period size: 59 Copynumber: 4.8 Consensus size: 58
31953388 GTAAAATAGT
* * * * *
31953398 AATTTTTAGAAAGTTTAGGGTCAAAAATGG-AATTTTTGGAAAA-TTCAAGGTTAAAAAAGT
1 AATTTTTGGAAA-TTTAGGGT-TAAAATGGTAATTTTT-GAAAAGTTC-AGGTCAAAAATGG
* *
31953458 AATTTTTGGAAGTTT-GGGGTAAAATGGTAATTTTTGAAAAGTTCAAGGTCAAAAAATGG
1 AATTTTTGGAAATTTAGGGTTAAAATGGTAATTTTTGAAAAGTTC-AGGTC-AAAAATGG
* * * *
31953517 AATTTTTAGAAATTTGAGGG-TAAAATGGTAGTTTTTGGAAAGTTTAGGGTC-AAAATGG
1 AATTTTTGGAAATTT-AGGGTTAAAATGGTAATTTTTGAAAAGTTCA-GGTCAAAAATGG
* * *
31953575 AATTTTTGTAAATTTAGGGATAAAATGGTAATTTTT-AGAAAGTTCAGGATCAAATATGG
1 AATTTTTGGAAATTTAGGGTTAAAATGGTAATTTTTGA-AAAGTTCAGG-TCAAAAATGG
*
31953634 AATTTTTGGAAATTTAGGGTTAAAAAGGTAATTTTTGAAAAGTTCAGG
1 AATTTTTGGAAATTTAGGGTTAAAATGGTAATTTTTGAAAAGTTCAGG
31953682 GATCTTCTGG
Statistics
Matches: 192, Mismatches: 21, Indels: 23
0.81 0.09 0.10
Matches are distributed among these distances:
57 18 0.09
58 62 0.32
59 72 0.38
60 37 0.19
61 3 0.02
ACGTcount: A:0.38, C:0.03, G:0.23, T:0.36
Consensus pattern (58 bp):
AATTTTTGGAAATTTAGGGTTAAAATGGTAATTTTTGAAAAGTTCAGGTCAAAAATGG
Found at i:31955583 original size:17 final size:17
Alignment explanation
Indices: 31955563--31955626 Score: 85
Period size: 17 Copynumber: 3.8 Consensus size: 17
31955553 ATTAATTTTG
31955563 ATTTAAAATAAATTTAA
1 ATTTAAAATAAATTTAA
*
31955580 ATTTAAAGT-AATTTAA
1 ATTTAAAATAAATTTAA
* * *
31955596 ACTCAAAATGAATTTAA
1 ATTTAAAATAAATTTAA
31955613 ATTTAAAATAAATT
1 ATTTAAAATAAATT
31955627 CAAACTTGGA
Statistics
Matches: 39, Mismatches: 7, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
16 13 0.33
17 26 0.67
ACGTcount: A:0.55, C:0.03, G:0.03, T:0.39
Consensus pattern (17 bp):
ATTTAAAATAAATTTAA
Found at i:31960944 original size:22 final size:21
Alignment explanation
Indices: 31960919--31960966 Score: 51
Period size: 22 Copynumber: 2.2 Consensus size: 21
31960909 CAAATATTGA
*
31960919 TTAATAATAGGATAAATTAAGG
1 TTAATAAGAGGATAAATTAA-G
* * *
31960941 TTAAAAAGATGATTAATTAAG
1 TTAATAAGAGGATAAATTAAG
31960962 TTAAT
1 TTAAT
31960967 TATGAAAGTT
Statistics
Matches: 21, Mismatches: 5, Indels: 1
0.78 0.19 0.04
Matches are distributed among these distances:
21 5 0.24
22 16 0.76
ACGTcount: A:0.50, C:0.00, G:0.15, T:0.35
Consensus pattern (21 bp):
TTAATAAGAGGATAAATTAAG
Found at i:31961871 original size:41 final size:41
Alignment explanation
Indices: 31961809--31962020 Score: 259
Period size: 41 Copynumber: 5.1 Consensus size: 41
31961799 GTATAAATGA
* * *
31961809 AAGAGTCATGTCTCGAA-ATGAGAATAAGATTTTGATTAAGG
1 AAGACTCATGTCTC-AAGATGAGAATGAGATTATGATTAAGG
31961850 AAGACTCATGTCTCAAGATGAGAATGAGATTATG-TATAAGG
1 AAGACTCATGTCTCAAGATGAGAATGAGATTATGAT-TAAGG
* * *
31961891 GAGACTCATGTCTCGAGATGAGAATGAGATTATGAATAAGG
1 AAGACTCATGTCTCAAGATGAGAATGAGATTATGATTAAGG
*
31961932 AAGACTCATGTCTCGAA-ATGAGAATGAGATTTTGATTAAGG
1 AAGACTCATGTCTC-AAGATGAGAATGAGATTATGATTAAGG
* * * * *
31961973 AAGACTTATGTTTCGAGATGAGAATGAGAATATGGTTAAAGG
1 AAGACTCATGTCTCAAGATGAGAATGAGATTATGATT-AAGG
31962015 AAGACT
1 AAGACT
31962021 TATGACTCGA
Statistics
Matches: 149, Mismatches: 16, Indels: 11
0.85 0.09 0.06
Matches are distributed among these distances:
40 4 0.03
41 134 0.90
42 11 0.07
ACGTcount: A:0.38, C:0.08, G:0.26, T:0.27
Consensus pattern (41 bp):
AAGACTCATGTCTCAAGATGAGAATGAGATTATGATTAAGG
Found at i:31961933 original size:82 final size:82
Alignment explanation
Indices: 31961809--31962032 Score: 290
Period size: 82 Copynumber: 2.7 Consensus size: 82
31961799 GTATAAATGA
* * * *
31961809 AAGAGTCATGTCTCGAAATGAGAATAAGATTTTGATTAAGGAAGACTCATGTCTC-AAGATGAGA
1 AAGACTCATGTCTCGAGATGAGAATGAGATTATGATTAAGGAAGACTCATGTCTCGAA-ATGAGA
31961873 ATGAGATTATG-TATAAGG
65 ATGAGATTATGAT-TAAGG
* *
31961891 GAGACTCATGTCTCGAGATGAGAATGAGATTATGAATAAGGAAGACTCATGTCTCGAAATGAGAA
1 AAGACTCATGTCTCGAGATGAGAATGAGATTATGATTAAGGAAGACTCATGTCTCGAAATGAGAA
*
31961956 TGAGATTTTGATTAAGG
66 TGAGATTATGATTAAGG
* * * * * *
31961973 AAGACTTATGTTTCGAGATGAGAATGAGAATATGGTTAAAGGAAGACTTATGACTCGAAA
1 AAGACTCATGTCTCGAGATGAGAATGAGATTATGATT-AAGGAAGACTCATGTCTCGAAA
31962033 GAGCATAATG
Statistics
Matches: 124, Mismatches: 15, Indels: 5
0.86 0.10 0.03
Matches are distributed among these distances:
82 101 0.81
83 23 0.19
ACGTcount: A:0.38, C:0.09, G:0.25, T:0.27
Consensus pattern (82 bp):
AAGACTCATGTCTCGAGATGAGAATGAGATTATGATTAAGGAAGACTCATGTCTCGAAATGAGAA
TGAGATTATGATTAAGG
Found at i:31964517 original size:8 final size:9
Alignment explanation
Indices: 31964495--31964520 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
31964485 TAAATAAAAA
31964495 GAAAAATAT
1 GAAAAATAT
31964504 GAAAAATAT
1 GAAAAATAT
31964513 GAAAAATA
1 GAAAAATA
31964521 AATTAAATAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.69, C:0.00, G:0.12, T:0.19
Consensus pattern (9 bp):
GAAAAATAT
Found at i:31964528 original size:9 final size:9
Alignment explanation
Indices: 31964516--31964557 Score: 50
Period size: 9 Copynumber: 4.8 Consensus size: 9
31964506 AAAATATGAA
*
31964516 AAATAAATT
1 AAATAAATC
31964525 AAATAAATC
1 AAATAAATC
*
31964534 AAATAAAAC
1 AAATAAATC
*
31964543 AAACAAAT-
1 AAATAAATC
31964551 AAATAAA
1 AAATAAA
31964558 ATCGTATTTA
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
8 6 0.21
9 22 0.79
ACGTcount: A:0.74, C:0.07, G:0.00, T:0.19
Consensus pattern (9 bp):
AAATAAATC
Found at i:31969065 original size:28 final size:28
Alignment explanation
Indices: 31968966--31969122 Score: 152
Period size: 28 Copynumber: 5.5 Consensus size: 28
31968956 ACTAATAAAA
* * * * *
31968966 CCTTTTCATTGATATCTTTATGGATGTC
1 CCTTTTCATAGATATCCTTACGAATATC
* * * *
31968994 CCTTTTCTTAGTTATCCTTTCAAATATAC
1 CCTTTTCATAGATATCCTTACGAATAT-C
*
31969023 CCTTTTCATTGATATCCTTACGAATATC
1 CCTTTTCATAGATATCCTTACGAATATC
* *
31969051 CCTTTTCATAAATATCCTTACGAATATAT
1 CCTTTTCATAGATATCCTTACGAATAT-C
* * *
31969080 CCTTTTCATCGATATCCTTTCGGATATC
1 CCTTTTCATAGATATCCTTACGAATATC
*
31969108 CCTTTTCATAAATAT
1 CCTTTTCATAGATAT
31969123 TCATTCGGAT
Statistics
Matches: 103, Mismatches: 24, Indels: 4
0.79 0.18 0.03
Matches are distributed among these distances:
28 57 0.55
29 46 0.45
ACGTcount: A:0.25, C:0.23, G:0.07, T:0.45
Consensus pattern (28 bp):
CCTTTTCATAGATATCCTTACGAATATC
Found at i:31969129 original size:28 final size:29
Alignment explanation
Indices: 31969017--31969145 Score: 104
Period size: 28 Copynumber: 4.5 Consensus size: 29
31969007 ATCCTTTCAA
** * *
31969017 ATATACCCTTTTCATTGATA-TCCTTACGA
1 ATATACCCTTTTCATAAATATTCATT-CGG
* *
31969046 ATAT-CCCTTTTCATAAATA-TCCTTACGA
1 ATATACCCTTTTCATAAATATTCATT-CGG
* ** * *
31969074 ATATATCCTTTTCATCGATATCCTTTCGG
1 ATATACCCTTTTCATAAATATTCATTCGG
31969103 ATAT-CCCTTTTCATAAATATTCATTCGG
1 ATATACCCTTTTCATAAATATTCATTCGG
*
31969131 ATATAACCTTTTCAT
1 ATATACCCTTTTCAT
31969146 TTAAATCCTT
Statistics
Matches: 83, Mismatches: 14, Indels: 6
0.81 0.14 0.06
Matches are distributed among these distances:
28 49 0.59
29 31 0.37
30 3 0.04
ACGTcount: A:0.28, C:0.23, G:0.06, T:0.43
Consensus pattern (29 bp):
ATATACCCTTTTCATAAATATTCATTCGG
Found at i:31969154 original size:57 final size:57
Alignment explanation
Indices: 31968954--31969163 Score: 199
Period size: 57 Copynumber: 3.7 Consensus size: 57
31968944 AACATCATTC
* * * * * * ** *
31968954 TTACTAATAAAACCTTTTCATTGATAT-CTTTATGGATGTCCCTTTTCTTAGTTATCC
1 TTACGAATATAACCTTTTCATTGATATCCTTT-CGAATATCCCTTTTCATAAATATCA
* * * * *
31969011 TTTCAAATATACCCTTTTCATTGATATCCTTACGAATATCCCTTTTCATAAATATCC
1 TTACGAATATAACCTTTTCATTGATATCCTTTCGAATATCCCTTTTCATAAATATCA
* * *
31969068 TTACGAATATATCCTTTTCATCGATATCCTTTCGGATATCCCTTTTCATAAATATTCA
1 TTACGAATATAACCTTTTCATTGATATCCTTTCGAATATCCCTTTTCATAAATA-TCA
* * * *
31969126 TT-CGGATATAACCTTTTCATTTAAATCCTTTCAAATAT
1 TTACGAATATAACCTTTTCATTGATATCCTTTCGAATAT
31969164 AAAGAAATCA
Statistics
Matches: 126, Mismatches: 25, Indels: 4
0.81 0.16 0.03
Matches are distributed among these distances:
57 119 0.94
58 7 0.06
ACGTcount: A:0.28, C:0.21, G:0.06, T:0.44
Consensus pattern (57 bp):
TTACGAATATAACCTTTTCATTGATATCCTTTCGAATATCCCTTTTCATAAATATCA
Found at i:31969165 original size:29 final size:29
Alignment explanation
Indices: 31969007--31969164 Score: 126
Period size: 29 Copynumber: 5.5 Consensus size: 29
31968997 TTTCTTAGTT
* * *
31969007 ATCCTTTCAAATATACCCTTTTCATTGAT
1 ATCCTTTCGAATATACCCTTTTCATTAAA
*
31969036 ATCCTTACGAATAT-CCCTTTTCA-TAAA
1 ATCCTTTCGAATATACCCTTTTCATTAAA
* * ** *
31969063 TATCCTTACGAATATATCCTTTTCATCGAT
1 -ATCCTTTCGAATATACCCTTTTCATTAAA
*
31969093 ATCCTTTCGGATAT-CCCTTTTCA-TAAA
1 ATCCTTTCGAATATACCCTTTTCATTAAA
* * * * *
31969120 TATTCATTCGGATATAACCTTTTCATTTAA
1 -ATCCTTTCGAATATACCCTTTTCATTAAA
*
31969150 ATCCTTTCAAATATA
1 ATCCTTTCGAATATA
31969165 AAGAAATCAA
Statistics
Matches: 101, Mismatches: 22, Indels: 12
0.75 0.16 0.09
Matches are distributed among these distances:
27 3 0.03
28 43 0.43
29 51 0.50
30 4 0.04
ACGTcount: A:0.30, C:0.23, G:0.05, T:0.42
Consensus pattern (29 bp):
ATCCTTTCGAATATACCCTTTTCATTAAA
Found at i:31969617 original size:28 final size:28
Alignment explanation
Indices: 31969534--31969695 Score: 171
Period size: 28 Copynumber: 5.6 Consensus size: 28
31969524 ATCCTCATCA
*
31969534 TTCGGATATCCCTTTTCATAAATATCCT
1 TTCGGATATACCTTTTCATAAATATCCT
* **
31969562 TTCAGATATAACCTTTTCATTGATATCCT
1 TTCGGATAT-ACCTTTTCATAAATATCCT
* *
31969591 TTCGGATATCCCTTTTCATAAACATCCT
1 TTCGGATATACCTTTTCATAAATATCCT
** *
31969619 TTCGGATATATACCTTTTCATTGATGTCCT
1 TTCGG--ATATACCTTTTCATAAATATCCT
* * *
31969649 TTCGGATATTCCTTTTCATAAATATTCA
1 TTCGGATATACCTTTTCATAAATATCCT
*
31969677 TTCGGATATAATCTTTTCA
1 TTCGGATAT-ACCTTTTCA
31969696 GATATAAAGC
Statistics
Matches: 108, Mismatches: 22, Indels: 7
0.79 0.16 0.05
Matches are distributed among these distances:
28 54 0.50
29 31 0.29
30 23 0.21
ACGTcount: A:0.25, C:0.22, G:0.09, T:0.44
Consensus pattern (28 bp):
TTCGGATATACCTTTTCATAAATATCCT
Found at i:31969663 original size:58 final size:57
Alignment explanation
Indices: 31969534--31969695 Score: 252
Period size: 58 Copynumber: 2.8 Consensus size: 57
31969524 ATCCTCATCA
*
31969534 TTCGGATATCCCTTTTCATAAATATCCTTTCAGATATAACCTTTTCATTGATATCCT
1 TTCGGATATCCCTTTTCATAAATATCCTTTCGGATATAACCTTTTCATTGATATCCT
* *
31969591 TTCGGATATCCCTTTTCATAAACATCCTTTCGGATATATACCTTTTCATTGATGTCCT
1 TTCGGATATCCCTTTTCATAAATATCCTTTCGGATATA-ACCTTTTCATTGATATCCT
* * * *
31969649 TTCGGATATTCCTTTTCATAAATATTCATTCGGATATAATCTTTTCA
1 TTCGGATATCCCTTTTCATAAATATCCTTTCGGATATAACCTTTTCA
31969696 GATATAAAGC
Statistics
Matches: 96, Mismatches: 8, Indels: 2
0.91 0.08 0.02
Matches are distributed among these distances:
57 44 0.46
58 52 0.54
ACGTcount: A:0.25, C:0.22, G:0.09, T:0.44
Consensus pattern (57 bp):
TTCGGATATCCCTTTTCATAAATATCCTTTCGGATATAACCTTTTCATTGATATCCT
Found at i:31973414 original size:199 final size:199
Alignment explanation
Indices: 31973038--31973437 Score: 707
Period size: 199 Copynumber: 2.0 Consensus size: 199
31973028 TATCAATAAG
31973038 ATCCTTCCATTACTAAAATAGTTAATCTAACTGTTAAATGATATGTCAAATCTTATGTGACAGTT
1 ATCCTTCCATTACTAAAATAGTTAATCTAACTGTTAAATGATATGTCAAATCTTATGTGACAGTT
*
31973103 TTTTAAAAAATTGTAAAAATATGGGTTTTAAGGTTTTTGCCACATAAGATTTACATGTTATTTAA
66 TTTTAAAAAATTATAAAAATATGGGTTTTAAGGTTTTTGCCACATAAGATTTACATGTTATTTAA
* *
31973168 TGGTTAAATTAATAGTTTTAATATAAAAAAAACACATAACTGATATAATATTGATAGTTTGGAAA
131 TGGCTAAATTAACAGTTTTAATATAAAAAAAACACATAACTGATATAATATTGATAGTTTGGAAA
31973233 TGTA
196 TGTA
31973237 ATCCTTCCATTACTAAAATAGTTAATCTAACTGTTAAATGATATGTCAAATCTTATGTGACATAG
1 ATCCTTCCATTACTAAAATAGTTAATCTAACTGTTAAATGATATGTCAAATCTTATGTGAC--AG
31973302 TTTTTTAAAAAATTATAAAAATATGGGTTTTAAGGTTTTTGCCACATAAGATTTAACATGTTATT
64 TTTTTTAAAAAATTATAAAAATATGGGTTTTAAGGTTTTTGCCACATAAGATTT-ACATGTTATT
* *
31973367 TAATGGCTAAATTAACAGTTTTAATA-ATAAAACA-ACATAAC-GATATAATATTGATAGTTTGG
128 TAATGGCTAAATTAACAGTTTTAATATAAAAAAAACACATAACTGATATAATATTGATAGTTTGG
31973429 AAATGTA
193 AAATGTA
31973436 AT
1 AT
31973438 TAAGACGTTT
Statistics
Matches: 193, Mismatches: 5, Indels: 6
0.95 0.02 0.03
Matches are distributed among these distances:
199 91 0.47
200 7 0.04
201 61 0.32
202 34 0.18
ACGTcount: A:0.40, C:0.09, G:0.12, T:0.39
Consensus pattern (199 bp):
ATCCTTCCATTACTAAAATAGTTAATCTAACTGTTAAATGATATGTCAAATCTTATGTGACAGTT
TTTTAAAAAATTATAAAAATATGGGTTTTAAGGTTTTTGCCACATAAGATTTACATGTTATTTAA
TGGCTAAATTAACAGTTTTAATATAAAAAAAACACATAACTGATATAATATTGATAGTTTGGAAA
TGTA
Found at i:31975778 original size:19 final size:18
Alignment explanation
Indices: 31975750--31975799 Score: 50
Period size: 19 Copynumber: 2.7 Consensus size: 18
31975740 TTAAAATTTC
31975750 TAATATTTTTTATATTTTCA
1 TAAT-TTTTTTATATTTT-A
31975770 T-ATTGTTTTGTA-ATTTTA
1 TAATT-TTTT-TATATTTTA
31975788 TAATTTTTTTAT
1 TAATTTTTTTAT
31975800 TTTAATTTTT
Statistics
Matches: 26, Mismatches: 0, Indels: 10
0.72 0.00 0.28
Matches are distributed among these distances:
17 2 0.08
18 7 0.27
19 14 0.54
20 3 0.12
ACGTcount: A:0.26, C:0.02, G:0.04, T:0.68
Consensus pattern (18 bp):
TAATTTTTTTATATTTTA
Found at i:31975796 original size:18 final size:17
Alignment explanation
Indices: 31975752--31975802 Score: 52
Period size: 18 Copynumber: 2.9 Consensus size: 17
31975742 AAAATTTCTA
31975752 ATATTTTTTATATTTTC
1 ATATTTTTTATATTTTC
*
31975769 ATATTGTTTTGTAATTTT-
1 ATATT-TTTTAT-ATTTTC
31975787 ATAATTTTTT-TATTTT
1 AT-ATTTTTTATATTTT
31975803 AATTTTTAAA
Statistics
Matches: 30, Mismatches: 1, Indels: 7
0.79 0.03 0.18
Matches are distributed among these distances:
16 5 0.17
17 6 0.20
18 11 0.37
19 8 0.27
ACGTcount: A:0.24, C:0.02, G:0.04, T:0.71
Consensus pattern (17 bp):
ATATTTTTTATATTTTC
Found at i:31977130 original size:21 final size:19
Alignment explanation
Indices: 31977105--31977148 Score: 54
Period size: 19 Copynumber: 2.2 Consensus size: 19
31977095 AAAAACATAT
31977105 TATAAATAAAATGATAATAAA
1 TATAAATAAAATG-TAA-AAA
31977126 TATAACATAAAA-GTAAAAA
1 TATAA-ATAAAATGTAAAAA
31977145 TATA
1 TATA
31977149 TATATAAATA
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
19 7 0.32
20 3 0.14
21 6 0.27
22 6 0.27
ACGTcount: A:0.66, C:0.02, G:0.05, T:0.27
Consensus pattern (19 bp):
TATAAATAAAATGTAAAAA
Found at i:31983040 original size:31 final size:32
Alignment explanation
Indices: 31982995--31983057 Score: 83
Period size: 31 Copynumber: 2.0 Consensus size: 32
31982985 TTTTTTTAAA
* *
31982995 TTAATATAGATAAAATTATAATTTAATTTTTT
1 TTAAAATAGATAAAATTATAATTTAATGTTTT
* *
31983027 TTAAAATA-ATAAAATTTTGATTTAATGTTTT
1 TTAAAATAGATAAAATTATAATTTAATGTTTT
31983058 AAAAATTATA
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
31 20 0.74
32 7 0.26
ACGTcount: A:0.43, C:0.00, G:0.05, T:0.52
Consensus pattern (32 bp):
TTAAAATAGATAAAATTATAATTTAATGTTTT
Found at i:31983642 original size:46 final size:46
Alignment explanation
Indices: 31983561--31983654 Score: 118
Period size: 46 Copynumber: 2.0 Consensus size: 46
31983551 ATTAGAGGTG
* * *
31983561 TTCATGATCAGATTAAGTTGAGTTCGAGTTAAGTCTAAGTATGATA
1 TTCATGATCAGATTAAGTTGAGTTCAAGTCAAGTCTAAGCATGATA
* * *
31983607 TTCATGGTCAGATTAAGTTG-GATTTAAGTCGAGTCTAAGCATGATA
1 TTCATGATCAGATTAAGTTGAG-TTCAAGTCAAGTCTAAGCATGATA
31983653 TT
1 TT
31983655 AATATATTTT
Statistics
Matches: 41, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
45 1 0.02
46 40 0.98
ACGTcount: A:0.31, C:0.10, G:0.22, T:0.37
Consensus pattern (46 bp):
TTCATGATCAGATTAAGTTGAGTTCAAGTCAAGTCTAAGCATGATA
Found at i:31986385 original size:10 final size:10
Alignment explanation
Indices: 31986370--31986398 Score: 58
Period size: 10 Copynumber: 2.9 Consensus size: 10
31986360 TTATTCTTTG
31986370 ATAATTCATC
1 ATAATTCATC
31986380 ATAATTCATC
1 ATAATTCATC
31986390 ATAATTCAT
1 ATAATTCAT
31986399 AGAGCTTGAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.41, C:0.17, G:0.00, T:0.41
Consensus pattern (10 bp):
ATAATTCATC
Found at i:31997032 original size:29 final size:30
Alignment explanation
Indices: 31997011--31997108 Score: 117
Period size: 30 Copynumber: 3.3 Consensus size: 30
31997001 AAAATTGTTT
*
31997011 TTTAACCCTTAAACTTTCTAAAAATCTAAA
1 TTTAACCCTCAAACTTTCTAAAAATCTAAA
* *
31997041 TTTAACCCTCAAACTTTCTAAAAATTTGAA
1 TTTAACCCTCAAACTTTCTAAAAATCTAAA
* * *
31997071 TTTGACCCTCAAATTTTCCAAAAAT-TCAAA
1 TTTAACCCTCAAACTTTCTAAAAATCT-AAA
*
31997101 TTTGACCC
1 TTTAACCC
31997109 CTAAAGTTTT
Statistics
Matches: 60, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
29 1 0.02
30 59 0.98
ACGTcount: A:0.39, C:0.22, G:0.03, T:0.36
Consensus pattern (30 bp):
TTTAACCCTCAAACTTTCTAAAAATCTAAA
Found at i:31997123 original size:30 final size:30
Alignment explanation
Indices: 31997016--31997138 Score: 110
Period size: 30 Copynumber: 4.1 Consensus size: 30
31997006 TGTTTTTTAA
* * *
31997016 CCCTTAAACTTTCTAAAAA-TCTAAATTT-AA
1 CCCTCAAATTTTC-AAAAATTC-AAATTTGAC
* **
31997046 CCCTCAAACTTTCTAAAAATTTGAATTTGA-
1 CCCTCAAATTTTC-AAAAATTCAAATTTGAC
31997076 CCCTCAAATTTTCCAAAAATTCAAATTTGAC
1 CCCTCAAATTTT-CAAAAATTCAAATTTGAC
*
31997107 CCCT-AAAGTTTTCAAAAGTTCAAATTTGAC
1 CCCTCAAA-TTTTCAAAAATTCAAATTTGAC
31997137 CC
1 CC
31997139 AGTTTTAATG
Statistics
Matches: 81, Mismatches: 7, Indels: 10
0.83 0.07 0.10
Matches are distributed among these distances:
30 70 0.86
31 11 0.14
ACGTcount: A:0.38, C:0.23, G:0.05, T:0.34
Consensus pattern (30 bp):
CCCTCAAATTTTCAAAAATTCAAATTTGAC
Found at i:32000851 original size:10 final size:10
Alignment explanation
Indices: 32000838--32000871 Score: 59
Period size: 10 Copynumber: 3.4 Consensus size: 10
32000828 AAACCTAAGG
32000838 AAAAAAAAGA
1 AAAAAAAAGA
32000848 AAAAAAAAGA
1 AAAAAAAAGA
*
32000858 AAAAGAAAGA
1 AAAAAAAAGA
32000868 AAAA
1 AAAA
32000872 GTTAAGATGA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
10 23 1.00
ACGTcount: A:0.88, C:0.00, G:0.12, T:0.00
Consensus pattern (10 bp):
AAAAAAAAGA
Found at i:32000862 original size:16 final size:16
Alignment explanation
Indices: 32000841--32000872 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
32000831 CCTAAGGAAA
32000841 AAAAAGAAAAAAAAAG
1 AAAAAGAAAAAAAAAG
*
32000857 AAAAAGAAAGAAAAAG
1 AAAAAGAAAAAAAAAG
32000873 TTAAGATGAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.84, C:0.00, G:0.16, T:0.00
Consensus pattern (16 bp):
AAAAAGAAAAAAAAAG
Found at i:32001496 original size:21 final size:21
Alignment explanation
Indices: 32001467--32001513 Score: 71
Period size: 21 Copynumber: 2.3 Consensus size: 21
32001457 AAAAAAGGTT
32001467 AAAAA-GAAAAAAG-AGAAAA
1 AAAAAGGAAAAAAGAAGAAAA
32001486 AGAAAAGGAAAAAAGAAGAAAA
1 A-AAAAGGAAAAAAGAAGAAAA
32001508 AAAAAG
1 AAAAAG
32001514 AGGTTGAGGT
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
19 1 0.04
20 4 0.16
21 13 0.52
22 7 0.28
ACGTcount: A:0.81, C:0.00, G:0.19, T:0.00
Consensus pattern (21 bp):
AAAAAGGAAAAAAGAAGAAAA
Found at i:32002972 original size:40 final size:40
Alignment explanation
Indices: 32002907--32003104 Score: 272
Period size: 40 Copynumber: 5.0 Consensus size: 40
32002897 TACGATCATC
* * *
32002907 CAATCTTTTACCCCAATTAGAGGGCAGATTGAAGACTATT
1 CAATCTTTTACCCTAATCAGAGGGCAGATTGAAGACCATT
* *
32002947 CAATCTTTTATCCTAATCAGTGGGCAGATTGAAGACCATT
1 CAATCTTTTACCCTAATCAGAGGGCAGATTGAAGACCATT
* * *
32002987 CAATCTTTCACCCTAATCAGAGGGTAGATTGAAGACCATC
1 CAATCTTTTACCCTAATCAGAGGGCAGATTGAAGACCATT
* * * *
32003027 CAATCTTTTACCCTAATTAAAGAGCAGATTGAAGATCA-T
1 CAATCTTTTACCCTAATCAGAGGGCAGATTGAAGACCATT
*
32003066 CTATCTTTTACCCTAATCAGAGGGCAGATTGAAGACCAT
1 CAATCTTTTACCCTAATCAGAGGGCAGATTGAAGACCAT
32003105 CAGATCTCTT
Statistics
Matches: 135, Mismatches: 22, Indels: 2
0.85 0.14 0.01
Matches are distributed among these distances:
39 33 0.24
40 102 0.76
ACGTcount: A:0.33, C:0.21, G:0.17, T:0.29
Consensus pattern (40 bp):
CAATCTTTTACCCTAATCAGAGGGCAGATTGAAGACCATT
Found at i:32003169 original size:40 final size:39
Alignment explanation
Indices: 32003114--32003375 Score: 235
Period size: 40 Copynumber: 6.6 Consensus size: 39
32003104 TCAGATCTCT
*
32003114 TTGAAGACCATCCAATCTTTTACCCTAACCAGAGGATAGA
1 TTGAA-ACCATCCAATCTTTTACCCTAACCAGAGGACAGA
* * **
32003154 TTGAATATCATCCAATCTCTTACCCCGACCATGA-GACAGA
1 TTGAA-ACCATCCAATCTTTTACCCTAACCA-GAGGACAGA
* * *
32003194 TTGAAGCAATCCAATCTTTTACCCTAACTAGAGGACAGA
1 TTGAAACCATCCAATCTTTTACCCTAACCAGAGGACAGA
* * *
32003233 TTAAAGACCATCCAATCTCTTACCCCAACCATGAGGTA-A-A
1 TTGAA-ACCATCCAATCTTTTACCCTAACCA-GAGG-ACAGA
* * * *
32003273 TTGAAGCAATCTAATCTTTTACCCTAACCAAAGGACAGA
1 TTGAAACCATCCAATCTTTTACCCTAACCAGAGGACAGA
* ** *
32003312 TTGAAGACCATCCGATCTTTTACCCCGACCATG-GGGCAGA
1 TTGAA-ACCATCCAATCTTTTACCCTAACCA-GAGGACAGA
* *
32003352 TTGAAGCAATCCAATCTTTTACCC
1 TTGAAACCATCCAATCTTTTACCC
32003376 CTAAAGCTAT
Statistics
Matches: 176, Mismatches: 37, Indels: 19
0.76 0.16 0.08
Matches are distributed among these distances:
37 1 0.01
38 6 0.03
39 70 0.40
40 91 0.52
41 7 0.04
42 1 0.01
ACGTcount: A:0.34, C:0.27, G:0.14, T:0.25
Consensus pattern (39 bp):
TTGAAACCATCCAATCTTTTACCCTAACCAGAGGACAGA
Found at i:32003227 original size:139 final size:138
Alignment explanation
Indices: 32002975--32003253 Score: 341
Period size: 139 Copynumber: 2.0 Consensus size: 138
32002965 AGTGGGCAGA
* * * *
32002975 TTGAAGACCATTCAATCTTTCACCCTAATCAGAGGGTAGATTGAAGACCATCCAATCTTTTACCC
1 TTGAAGACCATCCAATCTTTCACCCTAACCAGAGGATAGATTGAAGACCATCCAATCTCTTACCC
* ** * * *
32003040 TAATTAAAGAGCAGATTGAAGATCATCTATCTTTTACCCTAATCAGAGGGCAGATTGAAGACCAT
66 CAACCAAAGAGCAGATTGAAGATCA-CAATCTTTTACCCTAATCAGAGGACAGATTAAAGACCAT
32003105 -CAGATCTCT
130 CCA-ATCTCT
* * *
32003114 TTGAAGACCATCCAATCTTTTACCCTAACCAGAGGATAGATTGAATATCATCCAATCTCTTACCC
1 TTGAAGACCATCCAATCTTTCACCCTAACCAGAGGATAGATTGAAGACCATCCAATCTCTTACCC
* *
32003179 CGACC-ATGAGACAGATTGAAGCAATC-CAATCTTTTACCCTAA-CTAGAGGACAGATTAAAGAC
66 CAACCAAAGAG-CAGATTGAAG--ATCACAATCTTTTACCCTAATC-AGAGGACAGATTAAAGAC
32003241 CATCCAATCTCT
127 CATCCAATCTCT
32003253 T
1 T
32003254 ACCCCAACCA
Statistics
Matches: 120, Mismatches: 15, Indels: 10
0.83 0.10 0.07
Matches are distributed among these distances:
138 5 0.04
139 110 0.92
140 2 0.02
141 3 0.03
ACGTcount: A:0.34, C:0.24, G:0.14, T:0.28
Consensus pattern (138 bp):
TTGAAGACCATCCAATCTTTCACCCTAACCAGAGGATAGATTGAAGACCATCCAATCTCTTACCC
CAACCAAAGAGCAGATTGAAGATCACAATCTTTTACCCTAATCAGAGGACAGATTAAAGACCATC
CAATCTCT
Found at i:32003254 original size:79 final size:79
Alignment explanation
Indices: 32003114--32003375 Score: 380
Period size: 79 Copynumber: 3.3 Consensus size: 79
32003104 TCAGATCTCT
* * * *
32003114 TTGAAGACCATCCAATCTTTTACCCTAACCAGAGGATAGATTGAATATCATCCAATCTCTTACCC
1 TTGAAG-CAATCCAATCTTTTACCCTAACCAGAGGACAGATTGAAGACCATCCAATCTCTTACCC
*
32003179 CGACCATGAGACAGA
65 CGACCATGAGGCAGA
* *
32003194 TTGAAGCAATCCAATCTTTTACCCTAACTAGAGGACAGATTAAAGACCATCCAATCTCTTACCCC
1 TTGAAGCAATCCAATCTTTTACCCTAACCAGAGGACAGATTGAAGACCATCCAATCTCTTACCCC
* * *
32003259 AACCATGAGGTAAA
66 GACCATGAGGCAGA
* * * *
32003273 TTGAAGCAATCTAATCTTTTACCCTAACCAAAGGACAGATTGAAGACCATCCGATCTTTTACCCC
1 TTGAAGCAATCCAATCTTTTACCCTAACCAGAGGACAGATTGAAGACCATCCAATCTCTTACCCC
*
32003338 GACCATGGGGCAGA
66 GACCATGAGGCAGA
32003352 TTGAAGCAATCCAATCTTTTACCC
1 TTGAAGCAATCCAATCTTTTACCC
32003376 CTAAAGCTAT
Statistics
Matches: 161, Mismatches: 21, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
79 155 0.96
80 6 0.04
ACGTcount: A:0.34, C:0.27, G:0.14, T:0.25
Consensus pattern (79 bp):
TTGAAGCAATCCAATCTTTTACCCTAACCAGAGGACAGATTGAAGACCATCCAATCTCTTACCCC
GACCATGAGGCAGA
Found at i:32005241 original size:30 final size:29
Alignment explanation
Indices: 32005207--32005318 Score: 109
Period size: 30 Copynumber: 3.8 Consensus size: 29
32005197 CAATCGAACA
* *
32005207 TTTTAAAAATCTAAATTTGACCCTTAAACT
1 TTTTAAAAATTTAAATTTAACCCTTAAA-T
* *
32005237 TTTT-AAAATTTGAATTTAACCCCTAAAT
1 TTTTAAAAATTTAAATTTAACCCTTAAAT
*
32005265 TTTCTAAAAATTTCAATTTAACCCTTAAAT
1 TTT-TAAAAATTTAAATTTAACCCTTAAAT
* * * *
32005295 ATTTCAAAAGTTCAAATTTGACCC
1 -TTTTAAAAATTTAAATTTAACCC
32005319 AATTTTAATG
Statistics
Matches: 68, Mismatches: 11, Indels: 6
0.80 0.13 0.07
Matches are distributed among these distances:
28 4 0.06
29 20 0.29
30 41 0.60
31 3 0.04
ACGTcount: A:0.39, C:0.17, G:0.04, T:0.40
Consensus pattern (29 bp):
TTTTAAAAATTTAAATTTAACCCTTAAAT
Found at i:32011480 original size:20 final size:19
Alignment explanation
Indices: 32011442--32011480 Score: 51
Period size: 20 Copynumber: 2.0 Consensus size: 19
32011432 TCGTCTATTC
* *
32011442 AATTTAGTCTGAATTATTA
1 AATTTAATCTGAATCATTA
32011461 AATTTAATCTTGAATCATTA
1 AATTTAATC-TGAATCATTA
32011481 TGATAATTGT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 8 0.47
20 9 0.53
ACGTcount: A:0.38, C:0.08, G:0.08, T:0.46
Consensus pattern (19 bp):
AATTTAATCTGAATCATTA
Found at i:32012213 original size:13 final size:13
Alignment explanation
Indices: 32012195--32012219 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
32012185 ATAATTATTG
32012195 AAATCATAAAATA
1 AAATCATAAAATA
32012208 AAATCATAAAAT
1 AAATCATAAAAT
32012220 GCTTAAATAC
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.68, C:0.08, G:0.00, T:0.24
Consensus pattern (13 bp):
AAATCATAAAATA
Found at i:32017710 original size:128 final size:126
Alignment explanation
Indices: 32017482--32017739 Score: 471
Period size: 128 Copynumber: 2.0 Consensus size: 126
32017472 AAATATTATA
32017482 AAATAGACGGATAGAGAGTAAAGAACAAAGAGAATGGGAGAGGAAAAGAGAGAGCGTATTTTATT
1 AAATAGACGGATAGAGAGTAAAGAACAAAGAGAATGGGAGAGGAAAAGAGAGAGCGTATTTTATT
* * *
32017547 GATCAATAGAAGTAAGTTACAATACTTCTTCAAGGTCTATATTTATAGACACATAGAATGTAT
66 GATCAATAGAACTAAATTACAATACTTCTCCAAGGTCTATATTTATAG--ACATAGAATGTAT
32017610 AAATAGACGGATAGAGAGTAAAGAACAAAGAGAATGGGAGAGGAAAAGAGAGAGCGTATTTTATT
1 AAATAGACGGATAGAGAGTAAAGAACAAAGAGAATGGGAGAGGAAAAGAGAGAGCGTATTTTATT
32017675 GATCAATAGAACTAAATTACAATACTTCTCCAAGGTCTATATTTATAGACATAGAATGTAT
66 GATCAATAGAACTAAATTACAATACTTCTCCAAGGTCTATATTTATAGACATAGAATGTAT
32017736 AAAT
1 AAAT
32017740 GAAATACAAC
Statistics
Matches: 127, Mismatches: 3, Indels: 2
0.96 0.02 0.02
Matches are distributed among these distances:
126 17 0.13
128 110 0.87
ACGTcount: A:0.45, C:0.09, G:0.22, T:0.25
Consensus pattern (126 bp):
AAATAGACGGATAGAGAGTAAAGAACAAAGAGAATGGGAGAGGAAAAGAGAGAGCGTATTTTATT
GATCAATAGAACTAAATTACAATACTTCTCCAAGGTCTATATTTATAGACATAGAATGTAT
Found at i:32023300 original size:24 final size:24
Alignment explanation
Indices: 32023264--32023338 Score: 98
Period size: 24 Copynumber: 3.2 Consensus size: 24
32023254 CACTAAGTCT
*
32023264 CCCAGA-AATTTAGCTCATACGAG
1 CCCAGATAAGTTAGCTCATACGAG
* * *
32023287 CCCATATAGGTTAGCTCTTACGAG
1 CCCAGATAAGTTAGCTCATACGAG
*
32023311 CCCAGATAAGTTAGCTCATTCGAG
1 CCCAGATAAGTTAGCTCATACGAG
32023335 CCCA
1 CCCA
32023339 AACAGAGTTT
Statistics
Matches: 43, Mismatches: 8, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
23 5 0.12
24 38 0.88
ACGTcount: A:0.29, C:0.28, G:0.19, T:0.24
Consensus pattern (24 bp):
CCCAGATAAGTTAGCTCATACGAG
Found at i:32025554 original size:28 final size:28
Alignment explanation
Indices: 32025523--32025603 Score: 83
Period size: 28 Copynumber: 2.8 Consensus size: 28
32025513 TTAAAGTATT
* *
32025523 TAAATATTGGTTAAAAAC-TCAAATTACG
1 TAAATATT-ATTAAAAACTTCAAATTAAG
*
32025551 TAAATATTATTGAAAACTTCAAATTAAG
1 TAAATATTATTAAAAACTTCAAATTAAG
* *
32025579 TACATATTTATTAAAAGAATTCAAA
1 TAAATA-TTATTAAAA-ACTTCAAA
32025604 ATTTTAAATA
Statistics
Matches: 44, Mismatches: 6, Indels: 4
0.81 0.11 0.07
Matches are distributed among these distances:
27 7 0.16
28 22 0.50
29 8 0.18
30 7 0.16
ACGTcount: A:0.49, C:0.09, G:0.07, T:0.35
Consensus pattern (28 bp):
TAAATATTATTAAAAACTTCAAATTAAG
Found at i:32026079 original size:13 final size:13
Alignment explanation
Indices: 32026006--32026123 Score: 61
Period size: 13 Copynumber: 9.0 Consensus size: 13
32025996 TGTTATATTG
32026006 TTATAAATTTTATA
1 TTAT-AATTTTATA
*
32026020 TGATAATAATTTATA
1 TTATAAT--TTTATA
*
32026035 TTATATGAATTTA-A
1 TTATA--ATTTTATA
* *
32026049 TTTATTATGTTT-TT
1 -TTATAAT-TTTATA
32026063 TTATAATTTTATA
1 TTATAATTTTATA
*
32026076 TTATAATATTATA
1 TTATAATTTTATA
32026089 TTAT-ATTTTA-A
1 TTATAATTTTATA
32026100 -T-T-ATTTTATA
1 TTATAATTTTATA
*
32026110 TGTGTAATTTTATA
1 T-TATAATTTTATA
32026124 ATCTATACTA
Statistics
Matches: 81, Mismatches: 10, Indels: 26
0.69 0.09 0.22
Matches are distributed among these distances:
9 7 0.09
10 2 0.02
11 1 0.01
12 9 0.11
13 28 0.35
14 15 0.19
15 18 0.22
17 1 0.01
ACGTcount: A:0.36, C:0.00, G:0.04, T:0.59
Consensus pattern (13 bp):
TTATAATTTTATA
Found at i:32033227 original size:34 final size:35
Alignment explanation
Indices: 32033181--32033336 Score: 102
Period size: 34 Copynumber: 4.4 Consensus size: 35
32033171 TTAAAAGTGA
* *
32033181 GCCCAGCTCTAGTTGGATAAACCGAC-GAATGTGT
1 GCCCAGCACTAGTCGGATAAACCGACAGAATGTGT
* * * * * *
32033215 GCCCAGCACTAGTCAGTTAAACTGACAATATAAATAATGA
1 GCCCAGCACTAGTCGGATAAACCGAC---A-GAAT-GTGT
* * * * * *
32033255 GCCCAGCTCTAGTTGGATTAACCAACGGTAT-TGT
1 GCCCAGCACTAGTCGGATAAACCGACAGAATGTGT
*
32033289 GCCCAGCACTAGTCGGATAAACCGAC-GAAAGTGT
1 GCCCAGCACTAGTCGGATAAACCGACAGAATGTGT
*
32033323 GCCCAACACTAGTC
1 GCCCAGCACTAGTC
32033337 AGTTAAACTG
Statistics
Matches: 89, Mismatches: 26, Indels: 14
0.69 0.20 0.11
Matches are distributed among these distances:
33 2 0.02
34 61 0.69
36 2 0.02
39 3 0.03
40 21 0.24
ACGTcount: A:0.31, C:0.25, G:0.22, T:0.22
Consensus pattern (35 bp):
GCCCAGCACTAGTCGGATAAACCGACAGAATGTGT
Found at i:32033344 original size:34 final size:35
Alignment explanation
Indices: 32033285--32033385 Score: 98
Period size: 34 Copynumber: 2.9 Consensus size: 35
32033275 ACCAACGGTA
* *
32033285 TTGTGCCCAGCACTAGTCGGATAAACCGACGAAAG
1 TTGTGCCCAACACTAGTCAGATAAACCGACGAAAG
* * *
32033320 -TGTGCCCAACACTAGTCAGTTAAACTGGCGAAAG
1 TTGTGCCCAACACTAGTCAGATAAACCGACGAAAG
* ** * *
32033354 TTGCGCCCAATGCTAGTCGGAT-AATCGACGAA
1 TTGTGCCCAACACTAGTCAGATAAACCGACGAA
32033386 TCATAATCAT
Statistics
Matches: 52, Mismatches: 13, Indels: 3
0.76 0.19 0.04
Matches are distributed among these distances:
34 36 0.69
35 16 0.31
ACGTcount: A:0.31, C:0.25, G:0.25, T:0.20
Consensus pattern (35 bp):
TTGTGCCCAACACTAGTCAGATAAACCGACGAAAG
Found at i:32036535 original size:29 final size:29
Alignment explanation
Indices: 32036493--32036561 Score: 97
Period size: 29 Copynumber: 2.4 Consensus size: 29
32036483 ACGTTAATAA
* *
32036493 GACACCCCCACATTTTCAAGTCGTTCTAG
1 GACACCCTCACATTTCCAAGTCGTTCTAG
*
32036522 GACACCCTCACATTTCCAAGTGGTTCTAG
1 GACACCCTCACATTTCCAAGTCGTTCTAG
32036551 GAC-CCCT-ACAT
1 GACACCCTCACAT
32036562 GTTCTGTGAT
Statistics
Matches: 37, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
27 4 0.11
28 4 0.11
29 29 0.78
ACGTcount: A:0.25, C:0.35, G:0.14, T:0.26
Consensus pattern (29 bp):
GACACCCTCACATTTCCAAGTCGTTCTAG
Found at i:32049170 original size:13 final size:13
Alignment explanation
Indices: 32049149--32049181 Score: 50
Period size: 13 Copynumber: 2.5 Consensus size: 13
32049139 GAGGCAAAGG
32049149 AAGAAGAAGGAAAA
1 AAGAAGAA-GAAAA
32049163 AA-AAGAAGAAAA
1 AAGAAGAAGAAAA
32049175 AAGAAGA
1 AAGAAGA
32049182 TGTTGCCCCG
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
12 7 0.39
13 9 0.50
14 2 0.11
ACGTcount: A:0.76, C:0.00, G:0.24, T:0.00
Consensus pattern (13 bp):
AAGAAGAAGAAAA
Found at i:32051847 original size:24 final size:24
Alignment explanation
Indices: 32051801--32051855 Score: 65
Period size: 24 Copynumber: 2.2 Consensus size: 24
32051791 ACAATAAATT
*
32051801 CATTTTATATTACAGTTGCACTGA
1 CATTTTATATTACAGTTACACTGA
* * *
32051825 CATTTTGTATTACATTTATACTGA
1 CATTTTATATTACAGTTACACTGA
32051849 CAATTTT
1 C-ATTTT
32051856 TACTCTTAAC
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
24 21 0.81
25 5 0.19
ACGTcount: A:0.29, C:0.15, G:0.09, T:0.47
Consensus pattern (24 bp):
CATTTTATATTACAGTTACACTGA
Found at i:32053300 original size:24 final size:23
Alignment explanation
Indices: 32053264--32053310 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 23
32053254 AACTATTCAT
32053264 TTTATCTTAATTTGC-TCTGACAA
1 TTTATCTTAATTTGCAT-TGACAA
*
32053287 TTTATTTTATATTTGCATTGACAA
1 TTTATCTTA-ATTTGCATTGACAA
32053311 ATGAATTCTT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
23 8 0.38
24 12 0.57
25 1 0.05
ACGTcount: A:0.28, C:0.13, G:0.09, T:0.51
Consensus pattern (23 bp):
TTTATCTTAATTTGCATTGACAA
Found at i:32055605 original size:17 final size:17
Alignment explanation
Indices: 32055568--32055625 Score: 62
Period size: 17 Copynumber: 3.4 Consensus size: 17
32055558 TAATTGTCCC
* *
32055568 TGCATTTTTATCGTCAC
1 TGCATTTTTATTGTCAT
*
32055585 TGCATTTTTATTGTCGT
1 TGCATTTTTATTGTCAT
* **
32055602 TGCATCTACATTGTCAT
1 TGCATTTTTATTGTCAT
32055619 TGCATTT
1 TGCATTT
32055626 CCATATATAT
Statistics
Matches: 33, Mismatches: 8, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
17 33 1.00
ACGTcount: A:0.17, C:0.19, G:0.14, T:0.50
Consensus pattern (17 bp):
TGCATTTTTATTGTCAT
Found at i:32060440 original size:13 final size:13
Alignment explanation
Indices: 32060422--32060447 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
32060412 TATAATTCAT
32060422 AAAAAAATAAAAA
1 AAAAAAATAAAAA
32060435 AAAAAAATAAAAA
1 AAAAAAATAAAAA
32060448 CTTTTACGAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.92, C:0.00, G:0.00, T:0.08
Consensus pattern (13 bp):
AAAAAAATAAAAA
Found at i:32061114 original size:69 final size:68
Alignment explanation
Indices: 32061015--32061395 Score: 381
Period size: 69 Copynumber: 5.5 Consensus size: 68
32061005 TGTTGGAGTC
* * * *
32061015 TGCGGCTCTTCAC-CGAAGAGCCTTAATGTGACAGTTGGGAGCTTTGCTCTTGTTAACTGTGTTA
1 TGCGGCTCTTCACTTG-TGAGCCTTAATGTGACAGTTGGGAGCTTTGCTCTCGCTAACTGTGTT-
32061079 GAGGT
64 GAGGT
* * * * * * *
32061084 TACGGTTCTTCACCTGTGAGCCTTAATGTGACA-TCGAGGAGCTTTTCTCTTGCTAACTGTATTG
1 TGCGGCTCTTCACTTGTGAGCCTTAATGTGACAGTTG-GGAGCTTTGCTCTCGCTAACTGTGTT-
32061148 GAGGT
64 GAGGT
* * * ** *
32061153 TGCGGCTTTTTACTTGCGAGCCTTAATGTGACAACTAGGAGCTTTGCTCTCGCTAACTGTGTTAG
1 TGCGGCTCTTCACTTGTGAGCCTTAATGTGACAGTTGGGAGCTTTGCTCTCGCTAACTGTGTT-G
* *
32061218 AAGC
65 AGGT
* *
32061222 TGCGACTCTTCACTTGAGAGCCTTAATGTGACAGTTGGGAGCTTTGCTCTCGCTAACTGTGTTGA
1 TGCGGCTCTTCACTTGTGAGCCTTAATGTGACAGTTGGGAGCTTTGCTCTCGCTAACTGTGTTG-
*
32061287 ATGT
65 AGGT
* * *
32061291 TGCGGCTCTTCACTTGTGAGCCTTAATATGACAGCTGGAAG-TTTGTAACTCTCGCTAACTGTGT
1 TGCGGCTCTTCACTTGTGAGCCTTAATGTGACAGTTGGGAGCTTTG---CTCTCGCTAACTGTGT
**
32061355 TGAAGAC
63 TG-AGGT
* * *
32061362 TGCGGCTCTTCACCTATGAGCCTTAATATGACAG
1 TGCGGCTCTTCACTTGTGAGCCTTAATGTGACAG
32061396 CTAAGAGTTT
Statistics
Matches: 262, Mismatches: 43, Indels: 12
0.83 0.14 0.04
Matches are distributed among these distances:
68 7 0.03
69 202 0.77
70 1 0.00
71 52 0.20
ACGTcount: A:0.20, C:0.21, G:0.25, T:0.34
Consensus pattern (68 bp):
TGCGGCTCTTCACTTGTGAGCCTTAATGTGACAGTTGGGAGCTTTGCTCTCGCTAACTGTGTTGA
GGT
Found at i:32061263 original size:138 final size:138
Alignment explanation
Indices: 32061015--32061395 Score: 423
Period size: 138 Copynumber: 2.7 Consensus size: 138
32061005 TGTTGGAGTC
* * * * *
32061015 TGCGGCTCTTCAC-CGAAGAGCCTTAATGTGACAGTTGGGAGCTTTGCTCTTGTTAACTGTGTTA
1 TGCGGCTCTTCACTTG-CGAGCCTTAATGTGACAGCT-GGAGCTTTGCTCTCGCTAACTGTGTTA
* * * * * * *
32061079 GAGGTTACGGTTCTTCACCTGTGAGCCTTAATGTGACA-TCGAGGAGCTTTTCTCTTGCTAACTG
64 GAAGCTGCGGCTCTTCACCTGAGAGCCTTAATGTGACAGTCGAGGAGCTTTGCTCTCGCTAACTG
*
32061143 TATTGGAGGT
129 TATTGAAGGT
* * *
32061153 TGCGGCTTTTTACTTGCGAGCCTTAATGTGACAACTAGGAGCTTTGCTCTCGCTAACTGTGTTAG
1 TGCGGCTCTTCACTTGCGAGCCTTAATGTGACAGCT-GGAGCTTTGCTCTCGCTAACTGTGTTAG
* * *
32061218 AAGCTGCGACTCTTCACTTGAGAGCCTTAATGTGACAGTTG-GGAGCTTTGCTCTCGCTAACTGT
65 AAGCTGCGGCTCTTCACCTGAGAGCCTTAATGTGACAGTCGAGGAGCTTTGCTCTCGCTAACTGT
* *
32061282 GTTGAATGT
130 ATTGAAGGT
* *
32061291 TGCGGCTCTTCACTTGTGAGCCTTAATATGACAGCTGGAAG-TTTGTAACTCTCGCTAACTGTGT
1 TGCGGCTCTTCACTTGCGAGCCTTAATGTGACAGCTGG-AGCTTTG---CTCTCGCTAACTGTGT
*
32061355 T-GAAGACTGCGGCTCTTCACCT-ATGAGCCTTAATATGACAG
62 TAGAAG-CTGCGGCTCTTCACCTGA-GAGCCTTAATGTGACAG
32061396 CTAAGAGTTT
Statistics
Matches: 205, Mismatches: 30, Indels: 14
0.82 0.12 0.06
Matches are distributed among these distances:
137 6 0.03
138 144 0.70
139 8 0.04
140 47 0.23
ACGTcount: A:0.20, C:0.21, G:0.25, T:0.34
Consensus pattern (138 bp):
TGCGGCTCTTCACTTGCGAGCCTTAATGTGACAGCTGGAGCTTTGCTCTCGCTAACTGTGTTAGA
AGCTGCGGCTCTTCACCTGAGAGCCTTAATGTGACAGTCGAGGAGCTTTGCTCTCGCTAACTGTA
TTGAAGGT
Found at i:32061405 original size:71 final size:68
Alignment explanation
Indices: 32061003--32061427 Score: 352
Period size: 69 Copynumber: 6.1 Consensus size: 68
32060993 AGTCAAGAAT
* ** * * * * * *
32061003 TGTGTTGGAGTCTGCGGCTCTTCACCGAAGAGCCTTAATGTGACAGTTGGGAGCTTTGCTCTTGT
1 TGTGTTGAAG-CTGCGGCTCTTCACTTATGAGCCTTAATATGACAGCTAGGAGCTTTGCTCTCGC
32061068 TAAC
65 TAAC
* * * * * * * * * * *
32061072 TGTGTTAGAGGTTACGGTTCTTCACCTGTGAGCCTTAATGTGACATCGAGGAGCTTTTCTCTTGC
1 TGTGTT-GAAGCTGCGGCTCTTCACTTATGAGCCTTAATATGACAGCTAGGAGCTTTGCTCTCGC
32061137 TAAC
65 TAAC
* * * * * ** * *
32061141 TGTATTGGAGGTTGCGGCTTTTTACTTGCGAGCCTTAATGTGACAACTAGGAGCTTTGCTCTCGC
1 TGTGTT-GAAGCTGCGGCTCTTCACTTATGAGCCTTAATATGACAGCTAGGAGCTTTGCTCTCGC
32061206 TAAC
65 TAAC
* * * *
32061210 TGTGTTAGAAGCTGCGACTCTTCACTTGA-GAGCCTTAATGTGACAGTTGGGAGCTTTGCTCTCG
1 TGTGTT-GAAGCTGCGGCTCTTCACTT-ATGAGCCTTAATATGACAGCTAGGAGCTTTGCTCTCG
32061274 CTAAC
64 CTAAC
* *
32061279 TGTGTTGAATGTTGCGGCTCTTCACTTGTGAGCCTTAATATGACAGCT-GGAAG-TTTGTAACTC
1 TGTGTTGAA-GCTGCGGCTCTTCACTTATGAGCCTTAATATGACAGCTAGG-AGCTTTG---CTC
32061342 TCGCTAAC
61 TCGCTAAC
* * *
32061350 TGTGTTGAAGACTGCGGCTCTTCACCTATGAGCCTTAATATGACAGCTAAGAGTTTGTAGCTCTC
1 TGTGTTGAAG-CTGCGGCTCTTCACTTATGAGCCTTAATATGACAGCTAGGAGCTT-T-GCTCTC
*
32061415 ACTAAC
63 GCTAAC
*
32061421 TGCGTTG
1 TGTGTTG
32061428 GACATCGAAG
Statistics
Matches: 295, Mismatches: 48, Indels: 24
0.80 0.13 0.07
Matches are distributed among these distances:
68 9 0.03
69 206 0.70
70 3 0.01
71 72 0.24
72 3 0.01
73 1 0.00
74 1 0.00
ACGTcount: A:0.20, C:0.21, G:0.25, T:0.34
Consensus pattern (68 bp):
TGTGTTGAAGCTGCGGCTCTTCACTTATGAGCCTTAATATGACAGCTAGGAGCTTTGCTCTCGCT
AAC
Found at i:32062545 original size:35 final size:36
Alignment explanation
Indices: 32062499--32062568 Score: 133
Period size: 36 Copynumber: 2.0 Consensus size: 36
32062489 GCGCCGCAAT
32062499 TAATATAGAATCATA-GGTACCAAATAGAGATAATA
1 TAATATAGAATCATAGGGTACCAAATAGAGATAATA
32062534 TAATATAGAATCATAGGGTACCAAATAGAGATAAT
1 TAATATAGAATCATAGGGTACCAAATAGAGATAAT
32062569 TTGCAATTAT
Statistics
Matches: 34, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
35 15 0.44
36 19 0.56
ACGTcount: A:0.50, C:0.09, G:0.16, T:0.26
Consensus pattern (36 bp):
TAATATAGAATCATAGGGTACCAAATAGAGATAATA
Found at i:32064745 original size:24 final size:26
Alignment explanation
Indices: 32064713--32064760 Score: 73
Period size: 24 Copynumber: 1.9 Consensus size: 26
32064703 ACTTTAGCCA
32064713 TTTATTATTATTA-TTT-ATTTTTGT
1 TTTATTATTATTAGTTTAATTTTTGT
*
32064737 TTTATTATTTTTAGTTTAATTTTT
1 TTTATTATTATTAGTTTAATTTTT
32064761 CTATTTTAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 12 0.57
25 3 0.14
26 6 0.29
ACGTcount: A:0.21, C:0.00, G:0.04, T:0.75
Consensus pattern (26 bp):
TTTATTATTATTAGTTTAATTTTTGT
Found at i:32070269 original size:10 final size:10
Alignment explanation
Indices: 32070232--32070272 Score: 55
Period size: 10 Copynumber: 4.0 Consensus size: 10
32070222 CTTTCATGTT
32070232 TTTAAAAAAA
1 TTTAAAAAAA
*
32070242 TTGAAAAAAA
1 TTTAAAAAAA
*
32070252 TTTAAAAAAG
1 TTTAAAAAAA
32070262 TTTCAAAAAAA
1 TTT-AAAAAAA
32070273 ATTAGTTTGA
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
10 20 0.77
11 6 0.23
ACGTcount: A:0.66, C:0.02, G:0.05, T:0.27
Consensus pattern (10 bp):
TTTAAAAAAA
Found at i:32070307 original size:7 final size:6
Alignment explanation
Indices: 32070290--32070330 Score: 50
Period size: 6 Copynumber: 7.0 Consensus size: 6
32070280 TGATTATTTC
*
32070290 ATTTTT ATTTTT AGTTTT A-TTTT A-TTTT ATTTTT AATTTTT
1 ATTTTT ATTTTT ATTTTT ATTTTT ATTTTT ATTTTT -ATTTTT
32070331 TTAATTATGC
Statistics
Matches: 32, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
5 10 0.31
6 16 0.50
7 6 0.19
ACGTcount: A:0.20, C:0.00, G:0.02, T:0.78
Consensus pattern (6 bp):
ATTTTT
Found at i:32071285 original size:12 final size:12
Alignment explanation
Indices: 32071257--32071299 Score: 52
Period size: 12 Copynumber: 3.6 Consensus size: 12
32071247 TCGAAAAAAT
*
32071257 GAAAAAAATTGAA
1 GAAAAAAA-AGAA
32071270 -AAAAAAAAGAA
1 GAAAAAAAAGAA
*
32071281 GAAAAAGAAGAA
1 GAAAAAAAAGAA
32071293 GAAAAAA
1 GAAAAAA
32071300 GACAAAAGTG
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
11 3 0.12
12 23 0.88
ACGTcount: A:0.79, C:0.00, G:0.16, T:0.05
Consensus pattern (12 bp):
GAAAAAAAAGAA
Found at i:32088545 original size:47 final size:47
Alignment explanation
Indices: 32088476--32088571 Score: 192
Period size: 47 Copynumber: 2.0 Consensus size: 47
32088466 CTGAATGGAA
32088476 TTGAGGCTGGTTATTTTGAGCTATAGATCTAGTTACCTTATTTACTC
1 TTGAGGCTGGTTATTTTGAGCTATAGATCTAGTTACCTTATTTACTC
32088523 TTGAGGCTGGTTATTTTGAGCTATAGATCTAGTTACCTTATTTACTC
1 TTGAGGCTGGTTATTTTGAGCTATAGATCTAGTTACCTTATTTACTC
32088570 TT
1 TT
32088572 CTTTCAACAG
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
47 49 1.00
ACGTcount: A:0.21, C:0.15, G:0.19, T:0.46
Consensus pattern (47 bp):
TTGAGGCTGGTTATTTTGAGCTATAGATCTAGTTACCTTATTTACTC
Found at i:32089718 original size:25 final size:24
Alignment explanation
Indices: 32089669--32089719 Score: 59
Period size: 24 Copynumber: 2.1 Consensus size: 24
32089659 GTTATGTATT
*
32089669 ATTTTTCTAATATTATATATTATA
1 ATTTTTCTAATATCATATATTATA
*
32089693 ATTTTTACTAAT-TCATATTTTAATA
1 ATTTTT-CTAATATCATATATT-ATA
32089718 AT
1 AT
32089720 AATTATATTA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
24 13 0.57
25 10 0.43
ACGTcount: A:0.37, C:0.06, G:0.00, T:0.57
Consensus pattern (24 bp):
ATTTTTCTAATATCATATATTATA
Found at i:32089774 original size:57 final size:58
Alignment explanation
Indices: 32089684--32089853 Score: 193
Period size: 58 Copynumber: 2.9 Consensus size: 58
32089674 TCTAATATTA
* * * *
32089684 TATATTATAATTTTTACT-AATTCATATTTTAATAATAATTATATTAAAATGTTATTAAAT
1 TATA-TATTATTTTTATTAAATT-ATA-TTTAATAATAATTATATTAAAATATAATTAAAT
* * *
32089744 TATATATTA-TTTTATTAAATTGTATTTAATAATAATTATGTTAAAATATAATTAAGT
1 TATATATTATTTTTATTAAATTATATTTAATAATAATTATATTAAAATATAATTAAAT
* * *
32089801 TATTTATTATTTTTATTAAATTATGTTTAATAATAATCT-TATTAAAATTTAAT
1 TATATATTATTTTTATTAAATTATATTTAATAATAAT-TATATTAAAATATAAT
32089854 AACAATAATC
Statistics
Matches: 95, Mismatches: 12, Indels: 8
0.83 0.10 0.07
Matches are distributed among these distances:
57 37 0.39
58 45 0.47
59 9 0.09
60 4 0.04
ACGTcount: A:0.42, C:0.02, G:0.03, T:0.53
Consensus pattern (58 bp):
TATATATTATTTTTATTAAATTATATTTAATAATAATTATATTAAAATATAATTAAAT
Found at i:32089798 original size:26 final size:26
Alignment explanation
Indices: 32089712--32089798 Score: 75
Period size: 26 Copynumber: 3.2 Consensus size: 26
32089702 AATTCATATT
*
32089712 TTAATAATAATTATATTAAAATGTTA
1 TTAATAATAATTATATTAAAATGTAA
* * *
32089738 TTAAATTATATATTATTTTATTAAATTGTAT
1 TT-AA-TA-ATA--ATTATATTAAAATGTAA
* *
32089769 TTAATAATAATTATGTTAAAATATAA
1 TTAATAATAATTATATTAAAATGTAA
32089795 TTAA
1 TTAA
32089799 GTTATTTATT
Statistics
Matches: 47, Mismatches: 9, Indels: 10
0.71 0.14 0.15
Matches are distributed among these distances:
26 18 0.38
27 2 0.04
28 5 0.11
29 5 0.11
30 2 0.04
31 15 0.32
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.49
Consensus pattern (26 bp):
TTAATAATAATTATATTAAAATGTAA
Found at i:32090030 original size:16 final size:16
Alignment explanation
Indices: 32090009--32090044 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
32089999 TGAATTATTG
32090009 ATTACAGCCCTATTCT
1 ATTACAGCCCTATTCT
**
32090025 ATTACAGTTCTATTCT
1 ATTACAGCCCTATTCT
32090041 ATTA
1 ATTA
32090045 TAAATTTATT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.28, C:0.22, G:0.06, T:0.44
Consensus pattern (16 bp):
ATTACAGCCCTATTCT
Found at i:32109876 original size:13 final size:13
Alignment explanation
Indices: 32109827--32109893 Score: 71
Period size: 13 Copynumber: 5.1 Consensus size: 13
32109817 AAATCTAATT
*
32109827 TTTTTAAAAATAC
1 TTTTTAAAAGTAC
* *
32109840 TTTTCAAAAATCAC
1 TTTTTAAAAGT-AC
* *
32109854 TTTTTCAAAGTAT
1 TTTTTAAAAGTAC
*
32109867 TTTTTAAAAGCAC
1 TTTTTAAAAGTAC
32109880 TTTTTAAAAGTAC
1 TTTTTAAAAGTAC
32109893 T
1 T
32109894 ACTAAATTAG
Statistics
Matches: 44, Mismatches: 9, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
13 34 0.77
14 10 0.23
ACGTcount: A:0.39, C:0.12, G:0.04, T:0.45
Consensus pattern (13 bp):
TTTTTAAAAGTAC
Found at i:32110090 original size:17 final size:18
Alignment explanation
Indices: 32110058--32110091 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
32110048 TGACATATTA
*
32110058 ATAAATAATTTTTAAAAT
1 ATAAATAATATTTAAAAT
32110076 ATAAA-AATATTTAAAA
1 ATAAATAATATTTAAAA
32110092 AAACTCAAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 10 0.67
18 5 0.33
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (18 bp):
ATAAATAATATTTAAAAT
Found at i:32115367 original size:11 final size:11
Alignment explanation
Indices: 32115324--32115374 Score: 50
Period size: 11 Copynumber: 4.6 Consensus size: 11
32115314 TTATTAATGG
32115324 TTTATATGAATT
1 TTTATATGAA-T
* **
32115336 TTTATTTTTAT
1 TTTATATGAAT
*
32115347 TTT-TAAGAAT
1 TTTATATGAAT
32115357 TTTATATGAAT
1 TTTATATGAAT
32115368 TTTATAT
1 TTTATAT
32115375 ATTAAAAATG
Statistics
Matches: 30, Mismatches: 8, Indels: 3
0.73 0.20 0.07
Matches are distributed among these distances:
10 6 0.20
11 17 0.57
12 7 0.23
ACGTcount: A:0.31, C:0.00, G:0.06, T:0.63
Consensus pattern (11 bp):
TTTATATGAAT
Found at i:32116723 original size:30 final size:31
Alignment explanation
Indices: 32116687--32116769 Score: 80
Period size: 30 Copynumber: 2.6 Consensus size: 31
32116677 TCGGTCCGTC
*
32116687 TTTTATTTTTAATTTTTTTAAAATTATTTA-
1 TTTTATTTTTAATTTTTTTAAAATTATATAT
** **
32116717 TTTTA-TTTTAATATTTAATAATTTTATATAT
1 TTTTATTTTTAAT-TTTTTTAAAATTATATAT
32116748 TTTTATTTATTAAATTTTTTTA
1 TTTTATTT-TT-AATTTTTTTA
32116770 TATAGTCATC
Statistics
Matches: 41, Mismatches: 7, Indels: 7
0.75 0.13 0.13
Matches are distributed among these distances:
29 7 0.17
30 17 0.41
31 5 0.12
32 2 0.05
33 7 0.17
34 3 0.07
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (31 bp):
TTTTATTTTTAATTTTTTTAAAATTATATAT
Found at i:32124333 original size:30 final size:31
Alignment explanation
Indices: 32124279--32124341 Score: 110
Period size: 31 Copynumber: 2.1 Consensus size: 31
32124269 AGCTTCAGTC
32124279 TTATGTTGCAAATAAACAAAAAAAAAGTGTT
1 TTATGTTGCAAATAAACAAAAAAAAAGTGTT
*
32124310 TTATGTTGCCAATAAAC-AAAAAAAAGTGTT
1 TTATGTTGCAAATAAACAAAAAAAAAGTGTT
32124340 TT
1 TT
32124342 GGACTAATTA
Statistics
Matches: 31, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
30 15 0.48
31 16 0.52
ACGTcount: A:0.48, C:0.08, G:0.13, T:0.32
Consensus pattern (31 bp):
TTATGTTGCAAATAAACAAAAAAAAAGTGTT
Found at i:32127540 original size:24 final size:24
Alignment explanation
Indices: 32127507--32127600 Score: 134
Period size: 24 Copynumber: 3.9 Consensus size: 24
32127497 ATTCATTTCA
*
32127507 TTTACGCTCGTCAGCTTATATACG
1 TTTACACTCGTCAGCTTATATACG
* ** *
32127531 TTTATACTCGTCAGCTTGCACACG
1 TTTACACTCGTCAGCTTATATACG
*
32127555 TTTACGCTCGTCAGCTTATATACG
1 TTTACACTCGTCAGCTTATATACG
32127579 TTTACACTCGTCAGCTTATATA
1 TTTACACTCGTCAGCTTATATA
32127601 TACACACGTT
Statistics
Matches: 59, Mismatches: 11, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
24 59 1.00
ACGTcount: A:0.22, C:0.26, G:0.15, T:0.37
Consensus pattern (24 bp):
TTTACACTCGTCAGCTTATATACG
Found at i:32128211 original size:18 final size:18
Alignment explanation
Indices: 32128185--32128223 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
32128175 TTGATCTAGA
* *
32128185 TAATAATTCCCATCAATT
1 TAATAATTCCAATAAATT
*
32128203 TAATCATTCCAATAAATT
1 TAATAATTCCAATAAATT
32128221 TAA
1 TAA
32128224 AATATTTAAT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.44, C:0.18, G:0.00, T:0.38
Consensus pattern (18 bp):
TAATAATTCCAATAAATT
Found at i:32128684 original size:7 final size:7
Alignment explanation
Indices: 32128672--32128697 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
32128662 AACTTACCAA
32128672 TTGAAGC
1 TTGAAGC
32128679 TTGAAGC
1 TTGAAGC
32128686 TTGAAGC
1 TTGAAGC
32128693 TTGAA
1 TTGAA
32128698 AACCTTAGAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.31, C:0.12, G:0.27, T:0.31
Consensus pattern (7 bp):
TTGAAGC
Found at i:32129711 original size:21 final size:21
Alignment explanation
Indices: 32129678--32129737 Score: 75
Period size: 21 Copynumber: 2.9 Consensus size: 21
32129668 TCTACGATAT
* *
32129678 AAGTGTCAGTTCTACCGAAAC
1 AAGTCTCACTTCTACCGAAAC
*
32129699 AAGTCTCACTTCTACCGATAC
1 AAGTCTCACTTCTACCGAAAC
* *
32129720 AAGTCTTACTTTTACCGA
1 AAGTCTCACTTCTACCGA
32129738 CACCAAAAAC
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 34 1.00
ACGTcount: A:0.30, C:0.27, G:0.13, T:0.30
Consensus pattern (21 bp):
AAGTCTCACTTCTACCGAAAC
Found at i:32130508 original size:36 final size:36
Alignment explanation
Indices: 32130405--32130508 Score: 145
Period size: 36 Copynumber: 2.9 Consensus size: 36
32130395 CATTCATTAT
* * *
32130405 TCGTTTTACTCCCTGTTGACCCAAAGGTCATAATAC
1 TCGTTTTACTCCCTATTGACCTAAAGGTCATGATAC
* *
32130441 TCGTTTTACTCCCTATTGACCTAGAGGTCATGATGC
1 TCGTTTTACTCCCTATTGACCTAAAGGTCATGATAC
* *
32130477 TTGTTTTACTCCCTATTGACCTAAAAGTCATG
1 TCGTTTTACTCCCTATTGACCTAAAGGTCATG
32130509 CCTGTTACCA
Statistics
Matches: 60, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
36 60 1.00
ACGTcount: A:0.23, C:0.25, G:0.15, T:0.37
Consensus pattern (36 bp):
TCGTTTTACTCCCTATTGACCTAAAGGTCATGATAC
Found at i:32139328 original size:21 final size:21
Alignment explanation
Indices: 32139304--32139374 Score: 88
Period size: 21 Copynumber: 3.4 Consensus size: 21
32139294 GGTACAGTTG
*
32139304 TCTACCGATACAAGTTTTAGT
1 TCTACCGATACAAGTTTTAAT
* * * *
32139325 TCTACCGAAACAAGTCTCACT
1 TCTACCGATACAAGTTTTAAT
*
32139346 TCTATCGATACAAGTTTTAAT
1 TCTACCGATACAAGTTTTAAT
32139367 TCTACCGA
1 TCTACCGA
32139375 CACCAAAAAC
Statistics
Matches: 40, Mismatches: 10, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
21 40 1.00
ACGTcount: A:0.31, C:0.24, G:0.11, T:0.34
Consensus pattern (21 bp):
TCTACCGATACAAGTTTTAAT
Found at i:32140178 original size:36 final size:36
Alignment explanation
Indices: 32140039--32140177 Score: 179
Period size: 36 Copynumber: 3.9 Consensus size: 36
32140029 CATTCGTTAT
*
32140039 TCGTTTTACTCCCTATTGACCCGAAGGTCATAATGC
1 TCGTTTTACTCCCTATTGACCCAAAGGTCATAATGC
* * * *
32140075 TCGTATTACTCCTTATTGACCTAGAGGTCATAATGC
1 TCGTTTTACTCCCTATTGACCCAAAGGTCATAATGC
* * ** *
32140111 TCGTTTTACTCTCTATTGATCCTGAGGTCATGATGC
1 TCGTTTTACTCCCTATTGACCCAAAGGTCATAATGC
*
32140147 TTGTTTTACTCCCTATTGACCCAAAGGTCAT
1 TCGTTTTACTCCCTATTGACCCAAAGGTCAT
32140178 GCCTGGTACC
Statistics
Matches: 86, Mismatches: 17, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
36 86 1.00
ACGTcount: A:0.22, C:0.24, G:0.17, T:0.37
Consensus pattern (36 bp):
TCGTTTTACTCCCTATTGACCCAAAGGTCATAATGC
Found at i:32142767 original size:9 final size:9
Alignment explanation
Indices: 32142755--32142784 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
32142745 TGATTTAGTA
32142755 AATTTTGTT
1 AATTTTGTT
32142764 AATTTTGTT
1 AATTTTGTT
32142773 AATTTTG-T
1 AATTTTGTT
32142781 AATT
1 AATT
32142785 AGGGATTAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
8 5 0.24
9 16 0.76
ACGTcount: A:0.27, C:0.00, G:0.10, T:0.63
Consensus pattern (9 bp):
AATTTTGTT
Found at i:32143289 original size:28 final size:28
Alignment explanation
Indices: 32143249--32143488 Score: 142
Period size: 28 Copynumber: 8.3 Consensus size: 28
32143239 TAAAATTATG
*
32143249 TGAAAAGGGATATCCGCAAGGATATCAA
1 TGAAAAGGGATATCCGTAAGGATATCAA
* * * * *
32143277 TGAAAAGGAATATCCGTTAGAATATTAT
1 TGAAAAGGGATATCCGTAAGGATATCAA
* *
32143305 TGAAAAAGGATATCCGCAATGATGCGGATATCAA
1 TGAAAAGGGATATCCG---T-A--AGGATATCAA
* * * * *
32143339 TGAAAAGGAATATCAGTTAGGATATTAT
1 TGAAAAGGGATATCCGTAAGGATATCAA
* * *
32143367 TGAAAAGGGATATCCGTATGGATATTAT
1 TGAAAAGGGATATCCGTAAGGATATCAA
** * *
32143395 TGAAAATGTTATATTCGTAAGGATA-CTA
1 TGAAAA-GGGATATCCGTAAGGATATCAA
* *
32143423 TGAAAAGGGATATCTGAAAGGATAT-AA
1 TGAAAAGGGATATCCGTAAGGATATCAA
* * * *
32143450 TTGAAAAGGTTATATCTGAAAGGATAATAAA
1 -TGAAAAGG-GATATCCGTAAGGAT-ATCAA
32143481 TGAAAAGG
1 TGAAAAGG
32143489 TTGAAAAGGA
Statistics
Matches: 162, Mismatches: 38, Indels: 22
0.73 0.17 0.10
Matches are distributed among these distances:
27 14 0.09
28 87 0.54
29 28 0.17
30 10 0.06
31 4 0.02
34 19 0.12
ACGTcount: A:0.43, C:0.07, G:0.23, T:0.27
Consensus pattern (28 bp):
TGAAAAGGGATATCCGTAAGGATATCAA
Found at i:32143399 original size:56 final size:55
Alignment explanation
Indices: 32143243--32143458 Score: 193
Period size: 56 Copynumber: 3.7 Consensus size: 55
32143233 TTGCTCTAAA
* *
32143243 ATTATGTGAAAAGGGATATCCGCAAGGATATCAATGAAAAGGAATATCCGTTAGAAT
1 ATTAT-TGAAAAGGGATATCCGTAAGGATATCAATGAAAAGGAATAT-CGTTAGGAT
* *
32143300 ATTATTGAAAAAGGATATCCGCAATGATGCGGATATCAATGAAAAGGAATATCAGTTAGGAT
1 ATTATTGAAAAGGGATATCCG---T-A--AGGATATCAATGAAAAGGAATATC-GTTAGGAT
* * * ** *
32143362 ATTATTGAAAAGGGATATCCGTATGGATATTATTGAAAATGTTATATTCGTAAGGAT
1 ATTATTGAAAAGGGATATCCGTAAGGATATCAATGAAAA-GGAATA-TCGTTAGGAT
* * *
32143419 ACTA-TGAAAAGGGATATCTGAAAGGATAT-AATTGAAAAGG
1 ATTATTGAAAAGGGATATCCGTAAGGATATCAA-TGAAAAGG
32143459 TTATATCTGA
Statistics
Matches: 132, Mismatches: 17, Indels: 22
0.77 0.10 0.13
Matches are distributed among these distances:
55 2 0.02
56 56 0.42
57 19 0.14
58 3 0.02
59 1 0.01
60 1 0.01
61 1 0.01
62 49 0.37
ACGTcount: A:0.42, C:0.08, G:0.23, T:0.28
Consensus pattern (55 bp):
ATTATTGAAAAGGGATATCCGTAAGGATATCAATGAAAAGGAATATCGTTAGGAT
Found at i:32143493 original size:39 final size:40
Alignment explanation
Indices: 32143450--32143576 Score: 161
Period size: 40 Copynumber: 3.2 Consensus size: 40
32143440 AAGGATATAA
*
32143450 TTGAAAAGG-TTATATCTGAAAGGATAATAAATGAAAAGG
1 TTGAAAAGGATTATATCCGAAAGGATAATAAATGAAAAGG
** *
32143489 TTGAAAAGGACGAAATCCGAAAGGATAATAAATGAAAAGG
1 TTGAAAAGGATTATATCCGAAAGGATAATAAATGAAAAGG
* * *
32143529 TTGAAAAGGACGT-TATCCGAAAAGACAATAAA-GAAAAGG
1 TTGAAAAGGA-TTATATCCGAAAGGATAATAAATGAAAAGG
32143568 TTGAAAAGG
1 TTGAAAAGG
32143577 TAAATTAATT
Statistics
Matches: 77, Mismatches: 9, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
39 25 0.32
40 52 0.68
ACGTcount: A:0.50, C:0.06, G:0.24, T:0.19
Consensus pattern (40 bp):
TTGAAAAGGATTATATCCGAAAGGATAATAAATGAAAAGG
Found at i:32143515 original size:40 final size:40
Alignment explanation
Indices: 32143467--32143576 Score: 177
Period size: 40 Copynumber: 2.8 Consensus size: 40
32143457 GGTTATATCT
32143467 GAAAGGATAATAAATGAAAAGGTTGAAAAGGACGAAATCC
1 GAAAGGATAATAAATGAAAAGGTTGAAAAGGACGAAATCC
**
32143507 GAAAGGATAATAAATGAAAAGGTTGAAAAGGACGTTATCC
1 GAAAGGATAATAAATGAAAAGGTTGAAAAGGACGAAATCC
* *
32143547 GAAAAGACAATAAA-GAAAAGGTTGAAAAGG
1 GAAAGGATAATAAATGAAAAGGTTGAAAAGG
32143577 TAAATTAATT
Statistics
Matches: 66, Mismatches: 4, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
39 16 0.24
40 50 0.76
ACGTcount: A:0.53, C:0.06, G:0.25, T:0.15
Consensus pattern (40 bp):
GAAAGGATAATAAATGAAAAGGTTGAAAAGGACGAAATCC
Found at i:32149925 original size:20 final size:20
Alignment explanation
Indices: 32149896--32149939 Score: 79
Period size: 20 Copynumber: 2.2 Consensus size: 20
32149886 CTCATTTTCA
32149896 TTTTCCTCTATAATTTAACT
1 TTTTCCTCTATAATTTAACT
*
32149916 TTTTCTTCTATAATTTAACT
1 TTTTCCTCTATAATTTAACT
32149936 TTTT
1 TTTT
32149940 TTATGAAACA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.23, C:0.16, G:0.00, T:0.61
Consensus pattern (20 bp):
TTTTCCTCTATAATTTAACT
Found at i:32150177 original size:22 final size:23
Alignment explanation
Indices: 32150148--32150206 Score: 66
Period size: 22 Copynumber: 2.6 Consensus size: 23
32150138 ATCTAGTGAC
*
32150148 TTAAATAATTTTTTTAAAATAAT
1 TTAAATAATTTTTTTAAAAAAAT
* ***
32150171 TT-AATAACTTAAATAAAAAAAT
1 TTAAATAATTTTTTTAAAAAAAT
32150193 TTAAATAATTTTTT
1 TTAAATAATTTTTT
32150207 GACCAATTTA
Statistics
Matches: 26, Mismatches: 9, Indels: 2
0.70 0.24 0.05
Matches are distributed among these distances:
22 17 0.65
23 9 0.35
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (23 bp):
TTAAATAATTTTTTTAAAAAAAT
Found at i:32159946 original size:28 final size:28
Alignment explanation
Indices: 32159915--32159970 Score: 103
Period size: 28 Copynumber: 2.0 Consensus size: 28
32159905 CCATTTTTTT
32159915 TATACATTTTAATCACCTTAAATTTACC
1 TATACATTTTAATCACCTTAAATTTACC
*
32159943 TATACATTTTTATCACCTTAAATTTACC
1 TATACATTTTAATCACCTTAAATTTACC
32159971 ACAACTGAAG
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.34, C:0.21, G:0.00, T:0.45
Consensus pattern (28 bp):
TATACATTTTAATCACCTTAAATTTACC
Found at i:32170009 original size:52 final size:52
Alignment explanation
Indices: 32169931--32170073 Score: 196
Period size: 52 Copynumber: 2.8 Consensus size: 52
32169921 CCATAAACGA
* * *
32169931 ATTAAGAGGTCCAATGACTATGTGTCATCGTGAGTATATGAATCCTTTATGG
1 ATTAAGAGGTCCGATGACTATGTGTCATCGTGAGTATATGAATCCCTTACGG
* *
32169983 ATTAAGAGGTCCGATGACTCTGTGTCATCGTGAGTATATGAATCCCTTGCGG
1 ATTAAGAGGTCCGATGACTATGTGTCATCGTGAGTATATGAATCCCTTACGG
* ** * *
32170035 ATTATGAGGTTTGGTGGCTATGTGTCATCGTGAGTATAT
1 ATTAAGAGGTCCGATGACTATGTGTCATCGTGAGTATAT
32170074 AAATGAAGTG
Statistics
Matches: 80, Mismatches: 11, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
52 80 1.00
ACGTcount: A:0.24, C:0.14, G:0.27, T:0.35
Consensus pattern (52 bp):
ATTAAGAGGTCCGATGACTATGTGTCATCGTGAGTATATGAATCCCTTACGG
Found at i:32174206 original size:28 final size:28
Alignment explanation
Indices: 32174166--32174221 Score: 112
Period size: 28 Copynumber: 2.0 Consensus size: 28
32174156 GACATCTGAT
32174166 TTACTCCCTGTTGACCCAAAAGTCATGC
1 TTACTCCCTGTTGACCCAAAAGTCATGC
32174194 TTACTCCCTGTTGACCCAAAAGTCATGC
1 TTACTCCCTGTTGACCCAAAAGTCATGC
32174222 CTGTTACTAG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.25, C:0.32, G:0.14, T:0.29
Consensus pattern (28 bp):
TTACTCCCTGTTGACCCAAAAGTCATGC
Found at i:32180933 original size:9 final size:9
Alignment explanation
Indices: 32180919--32180977 Score: 59
Period size: 9 Copynumber: 6.2 Consensus size: 9
32180909 GCAAATGATT
32180919 TTAAAATTA
1 TTAAAATTA
32180928 TTAAAATTA
1 TTAAAATTA
32180937 TTTTTAAAA-TA
1 ---TTAAAATTA
32180948 -TAAAATTA
1 TTAAAATTA
32180956 TTAAAATTAA
1 TTAAAATT-A
32180966 TTGAAAATTA
1 TT-AAAATTA
32180976 TT
1 TT
32180978 TTTTAAAATA
Statistics
Matches: 43, Mismatches: 0, Indels: 13
0.77 0.00 0.23
Matches are distributed among these distances:
7 5 0.12
8 2 0.05
9 16 0.37
10 6 0.14
11 8 0.19
12 6 0.14
ACGTcount: A:0.53, C:0.00, G:0.02, T:0.46
Consensus pattern (9 bp):
TTAAAATTA
Found at i:32180939 original size:20 final size:20
Alignment explanation
Indices: 32180911--32181009 Score: 102
Period size: 20 Copynumber: 5.0 Consensus size: 20
32180901 TCACATTAGC
*
32180911 AAATGATTTTAAAATTATTA
1 AAATTATTTTAAAATTATTA
32180931 AAATTATTTTTAAAA-TA-TA
1 AAATTA-TTTTAAAATTATTA
32180950 AAATTA--TTAAAATTAATTGA
1 AAATTATTTTAAAATT-ATT-A
32180970 AAATTATTTTTTAAAA-TA-TA
1 AAATTA--TTTTAAAATTATTA
32180990 AAATTATTTTAAAATTATTA
1 AAATTATTTTAAAATTATTA
32181010 TCATCTTCAT
Statistics
Matches: 67, Mismatches: 1, Indels: 22
0.74 0.01 0.24
Matches are distributed among these distances:
16 6 0.09
17 1 0.01
18 9 0.13
19 11 0.16
20 23 0.34
21 9 0.13
22 1 0.01
23 1 0.01
24 6 0.09
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.46
Consensus pattern (20 bp):
AAATTATTTTAAAATTATTA
Found at i:32180988 original size:40 final size:39
Alignment explanation
Indices: 32180918--32181006 Score: 137
Period size: 40 Copynumber: 2.3 Consensus size: 39
32180908 AGCAAATGAT
32180918 TTTAAAATT-ATTAAAATTATTTTTAAAATATAAAATTA
1 TTTAAAATTAATTAAAATTATTTTTAAAATATAAAATTA
32180956 -TTAAAATTAATTGAAAATTATTTTTTAAAATATAAAATTA
1 TTTAAAATTAATT-AAAATTA-TTTTTAAAATATAAAATTA
32180996 TTTTAAAATTA
1 -TTTAAAATTA
32181007 TTATCATCTT
Statistics
Matches: 46, Mismatches: 0, Indels: 6
0.88 0.00 0.12
Matches are distributed among these distances:
37 8 0.17
38 3 0.07
39 7 0.15
40 19 0.41
42 9 0.20
ACGTcount: A:0.52, C:0.00, G:0.01, T:0.47
Consensus pattern (39 bp):
TTTAAAATTAATTAAAATTATTTTTAAAATATAAAATTA
Found at i:32180993 original size:31 final size:33
Alignment explanation
Indices: 32180948--32181008 Score: 90
Period size: 31 Copynumber: 1.9 Consensus size: 33
32180938 TTTTAAAATA
32180948 TAAAATTATTAAAATTAATTGAAAATTATTTTT
1 TAAAATTATTAAAATTAATTGAAAATTATTTTT
* *
32180981 TAAAA-TA-TAAAATTATTTTAAAATTATT
1 TAAAATTATTAAAATTAATTGAAAATTATT
32181009 ATCATCTTCA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
31 19 0.73
32 2 0.08
33 5 0.19
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.48
Consensus pattern (33 bp):
TAAAATTATTAAAATTAATTGAAAATTATTTTT
Found at i:32181833 original size:11 final size:11
Alignment explanation
Indices: 32181817--32181859 Score: 52
Period size: 11 Copynumber: 3.9 Consensus size: 11
32181807 TAATAATTTT
32181817 ATATTTAAAAA
1 ATATTTAAAAA
32181828 ATATTTTAAAAA
1 ATA-TTTAAAAA
* *
32181840 ATATTTTAATA
1 ATATTTAAAAA
32181851 AT-TTTAAAA
1 ATATTTAAAA
32181860 TCATTCACTG
Statistics
Matches: 27, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
10 5 0.19
11 11 0.41
12 11 0.41
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (11 bp):
ATATTTAAAAA
Found at i:32181837 original size:12 final size:12
Alignment explanation
Indices: 32181820--32181848 Score: 58
Period size: 12 Copynumber: 2.4 Consensus size: 12
32181810 TAATTTTATA
32181820 TTTAAAAAATAT
1 TTTAAAAAATAT
32181832 TTTAAAAAATAT
1 TTTAAAAAATAT
32181844 TTTAA
1 TTTAA
32181849 TAATTTTAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (12 bp):
TTTAAAAAATAT
Found at i:32182448 original size:21 final size:21
Alignment explanation
Indices: 32182399--32182455 Score: 55
Period size: 21 Copynumber: 2.7 Consensus size: 21
32182389 ATAGTGCAAA
*
32182399 CTTCTACCGATACCTATGACAG
1 CTTCTACCGATA-CAATGACAG
*
32182421 -TTTTACCGATACAAGTGA-AG
1 CTTCTACCGATACAA-TGACAG
*
32182441 CTTCTACCGAAACAA
1 CTTCTACCGATACAA
32182456 ATCGTGCTTC
Statistics
Matches: 29, Mismatches: 4, Indels: 5
0.76 0.11 0.13
Matches are distributed among these distances:
20 4 0.14
21 25 0.86
ACGTcount: A:0.33, C:0.26, G:0.14, T:0.26
Consensus pattern (21 bp):
CTTCTACCGATACAATGACAG
Found at i:32182682 original size:25 final size:26
Alignment explanation
Indices: 32182639--32182689 Score: 77
Period size: 25 Copynumber: 2.0 Consensus size: 26
32182629 TTCTACTGAT
32182639 ACATGCAGGGGGTTCTACCGAAACAA
1 ACATGCAGGGGGTTCTACCGAAACAA
* *
32182665 ACATGCA-TGGGTTTTACCGAAACAA
1 ACATGCAGGGGGTTCTACCGAAACAA
32182690 GTATGCAGAA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 16 0.70
26 7 0.30
ACGTcount: A:0.35, C:0.22, G:0.24, T:0.20
Consensus pattern (26 bp):
ACATGCAGGGGGTTCTACCGAAACAA
Found at i:32183211 original size:28 final size:28
Alignment explanation
Indices: 32183171--32183253 Score: 130
Period size: 28 Copynumber: 3.0 Consensus size: 28
32183161 GACATCTGAT
*
32183171 TTACTCCTTATTGACCCAAAGGTCATGC
1 TTACTCCCTATTGACCCAAAGGTCATGC
32183199 TTACTCCCTATTGACCCAAAGGTCATGC
1 TTACTCCCTATTGACCCAAAGGTCATGC
* * *
32183227 TTGCTCCCTTTTGACCCAAAAGTCATG
1 TTACTCCCTATTGACCCAAAGGTCATG
32183254 TCTGTTACTA
Statistics
Matches: 51, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
28 51 1.00
ACGTcount: A:0.24, C:0.30, G:0.14, T:0.31
Consensus pattern (28 bp):
TTACTCCCTATTGACCCAAAGGTCATGC
Found at i:32183620 original size:10 final size:10
Alignment explanation
Indices: 32183603--32183632 Score: 51
Period size: 10 Copynumber: 3.0 Consensus size: 10
32183593 ATCATTAGAA
32183603 AAGCAGTTAT
1 AAGCAGTTAT
*
32183613 ACGCAGTTAT
1 AAGCAGTTAT
32183623 AAGCAGTTAT
1 AAGCAGTTAT
32183633 TAATAAGAAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
10 18 1.00
ACGTcount: A:0.37, C:0.13, G:0.20, T:0.30
Consensus pattern (10 bp):
AAGCAGTTAT
Found at i:32184179 original size:15 final size:15
Alignment explanation
Indices: 32184159--32184189 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
32184149 TAATATGGAC
32184159 TCAAAAACATAAAAA
1 TCAAAAACATAAAAA
32184174 TCAAAAACATAAAAA
1 TCAAAAACATAAAAA
32184189 T
1 T
32184190 TACTAAAAAC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.71, C:0.13, G:0.00, T:0.16
Consensus pattern (15 bp):
TCAAAAACATAAAAA
Found at i:32184965 original size:30 final size:30
Alignment explanation
Indices: 32184929--32184988 Score: 111
Period size: 30 Copynumber: 2.0 Consensus size: 30
32184919 GTGCCAATGA
*
32184929 TAAAAAATGGTTCGATGGTTGAGATCCTGT
1 TAAAAAATGGTCCGATGGTTGAGATCCTGT
32184959 TAAAAAATGGTCCGATGGTTGAGATCCTGT
1 TAAAAAATGGTCCGATGGTTGAGATCCTGT
32184989 ATTTGTTGTG
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.30, C:0.12, G:0.27, T:0.32
Consensus pattern (30 bp):
TAAAAAATGGTCCGATGGTTGAGATCCTGT
Found at i:32189802 original size:21 final size:21
Alignment explanation
Indices: 32189761--32189802 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
32189751 TTGGGAAGTA
* *
32189761 AAAAAAGAACAATAATCAAAT
1 AAAAAAGAACAACAACCAAAT
32189782 AAAAAAGAA-AACAACCTAAAT
1 AAAAAAGAACAACAACC-AAAT
32189803 GTGGGTTTTA
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
20 5 0.28
21 13 0.72
ACGTcount: A:0.71, C:0.12, G:0.05, T:0.12
Consensus pattern (21 bp):
AAAAAAGAACAACAACCAAAT
Found at i:32196213 original size:15 final size:14
Alignment explanation
Indices: 32196185--32196227 Score: 50
Period size: 15 Copynumber: 2.9 Consensus size: 14
32196175 TCCTGCAAAG
*
32196185 AAATTAAAGCAAAAC
1 AAATAAAAG-AAAAC
*
32196200 AAGTAAAAGTAAAAC
1 AAATAAAAG-AAAAC
32196215 AAATAAAAGAAAA
1 AAATAAAAGAAAA
32196228 TTGAAAATGC
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
14 4 0.17
15 20 0.83
ACGTcount: A:0.72, C:0.07, G:0.09, T:0.12
Consensus pattern (14 bp):
AAATAAAAGAAAAC
Found at i:32199345 original size:308 final size:309
Alignment explanation
Indices: 32198787--32199403 Score: 1060
Period size: 308 Copynumber: 2.0 Consensus size: 309
32198777 ATTGGACAGG
*
32198787 GCTCACCCAATCACTATAAAAAATAGGGTAGATGATATTCCCGTCTAGCCATTTGATAATTTCCT
1 GCTCACCCAATCACTATAAAAAATAGGGTAGATGATACTCCCGTCTAGCCATTTGATAATTTCCT
* * *
32198852 TCTTCAGTACTTCATTCATCTTTTCGTTAAGTCTCCTTTGTAGCTCAATTGTGATTGCTTCCCCT
66 TCTTCAATACTTCATTAATCTTTTCGTTAAGTCTCCTTTATAGCTCAATTGTGATTGCTTCCCCT
* * **
32198917 CATCTTCCAACCTGATCTTGTGCATGCAAAAGAGGGATTAATGCCTCTGATATCAGCAATGCTCT
131 CATCATCCAACCTGATCTTGTGCATGCAAAAGAGGGACTAATGCCTCCAATATCAGCAATGCTCT
* *
32198982 AGGCTATGGCTCTCTTATGCTGTTTCAAAATGGCGATGAGCTTATCTTCCTGCGTTGCGTCGAGG
196 AGGCTATGGCTCTCTTATACTGTTTCAAAATGGAGATGAGCTTATCTTCCTGCGTTGCGTCGAGG
* *
32199047 GATGCGTTGACAATTATAGGTAATGTATTGTTGTCACCCAAAAA-ACAT
261 GATGCGTTGACAATTACAGGTAATGTATCGTTGTCACCCAAAAAGACAT
*
32199095 GCTCACCTAATCACTATAAAAAATAGGGTAGATGATACTCCCGTCTAGCCATTTGATAATTTCCT
1 GCTCACCCAATCACTATAAAAAATAGGGTAGATGATACTCCCGTCTAGCCATTTGATAATTTCCT
* *
32199160 TCTTCAATACTTCATTAATCTTTTTGTTAAGTCTCCTTTATTGCTCAA-T-TGATTGCTTCCCCT
66 TCTTCAATACTTCATTAATCTTTTCGTTAAGTCTCCTTTATAGCTCAATTGTGATTGCTTCCCCT
32199223 CATCATCCAACCTGATCTTGTGCATGCAAAAAAGAGGGACTAATGCCTCCAATATCAGCAATGCT
131 CATCATCCAACCTGATCTTGTGCATGC--AAAAGAGGGACTAATGCCTCCAATATCAGCAATGCT
32199288 CTAGGCTATGGCTCTCTTATACTGTTTCAAAATGGAGATGAGCTTATCTTCCTGCGTTGCGTCGA
194 CTAGGCTATGGCTCTCTTATACTGTTTCAAAATGGAGATGAGCTTATCTTCCTGCGTTGCGTCGA
32199353 GGGATGCGTTGACAATTACAGGTAATGTATCGTTGTCACCCAAAAAGACAT
259 GGGATGCGTTGACAATTACAGGTAATGTATCGTTGTCACCCAAAAAGACAT
32199404 ATTTCAGGTA
Statistics
Matches: 291, Mismatches: 15, Indels: 5
0.94 0.05 0.02
Matches are distributed among these distances:
306 40 0.14
307 1 0.00
308 246 0.85
309 4 0.01
ACGTcount: A:0.26, C:0.23, G:0.18, T:0.34
Consensus pattern (309 bp):
GCTCACCCAATCACTATAAAAAATAGGGTAGATGATACTCCCGTCTAGCCATTTGATAATTTCCT
TCTTCAATACTTCATTAATCTTTTCGTTAAGTCTCCTTTATAGCTCAATTGTGATTGCTTCCCCT
CATCATCCAACCTGATCTTGTGCATGCAAAAGAGGGACTAATGCCTCCAATATCAGCAATGCTCT
AGGCTATGGCTCTCTTATACTGTTTCAAAATGGAGATGAGCTTATCTTCCTGCGTTGCGTCGAGG
GATGCGTTGACAATTACAGGTAATGTATCGTTGTCACCCAAAAAGACAT
Found at i:32214519 original size:5 final size:5
Alignment explanation
Indices: 32214509--32214539 Score: 62
Period size: 5 Copynumber: 6.2 Consensus size: 5
32214499 TTGACATGTA
32214509 GAGTG GAGTG GAGTG GAGTG GAGTG GAGTG G
1 GAGTG GAGTG GAGTG GAGTG GAGTG GAGTG G
32214540 CTTATAAGTT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 26 1.00
ACGTcount: A:0.19, C:0.00, G:0.61, T:0.19
Consensus pattern (5 bp):
GAGTG
Found at i:32219442 original size:23 final size:23
Alignment explanation
Indices: 32219411--32219470 Score: 84
Period size: 23 Copynumber: 2.6 Consensus size: 23
32219401 TATATCTAGC
32219411 TATATTCAACTTGATAGACAATA
1 TATATTCAACTTGATAGACAATA
* * *
32219434 TCTATTCAACTTGATAGACCATG
1 TATATTCAACTTGATAGACAATA
32219457 TATATTCAAGCTTG
1 TATATTCAA-CTTG
32219471 CCCCCCCCCC
Statistics
Matches: 32, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
23 28 0.88
24 4 0.12
ACGTcount: A:0.35, C:0.17, G:0.12, T:0.37
Consensus pattern (23 bp):
TATATTCAACTTGATAGACAATA
Found at i:32224913 original size:3 final size:3
Alignment explanation
Indices: 32224905--32224931 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
32224895 TTCTCTTAAG
32224905 TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA
32224932 AGAAATGACA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:32228466 original size:18 final size:17
Alignment explanation
Indices: 32228436--32228479 Score: 54
Period size: 17 Copynumber: 2.6 Consensus size: 17
32228426 GACGAACCAA
*
32228436 AATTTTAATATTTTTTT
1 AATTTTAATATTTATTT
*
32228453 AATTTTTATGATTTATTT
1 AATTTTAAT-ATTTATTT
32228471 AA-TTTAATA
1 AATTTTAATA
32228480 AAAATAGAGA
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
16 1 0.04
17 13 0.57
18 9 0.39
ACGTcount: A:0.34, C:0.00, G:0.02, T:0.64
Consensus pattern (17 bp):
AATTTTAATATTTATTT
Found at i:32229463 original size:2 final size:2
Alignment explanation
Indices: 32229456--32229492 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
32229446 TTAACTCCGA
32229456 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
32229493 GAGAGAGAGA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:32229497 original size:2 final size:2
Alignment explanation
Indices: 32229492--32229527 Score: 65
Period size: 2 Copynumber: 18.5 Consensus size: 2
32229482 ATATATATAT
32229492 AG AG AG AG AG AG AG AG AG AG A- AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
32229528 ATCTGGCAAT
Statistics
Matches: 33, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 32 0.97
ACGTcount: A:0.53, C:0.00, G:0.47, T:0.00
Consensus pattern (2 bp):
AG
Found at i:32234696 original size:19 final size:19
Alignment explanation
Indices: 32234668--32234705 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
32234658 CCACTGTCAC
*
32234668 CCACTGTAATTAAATCTGT
1 CCACTATAATTAAATCTGT
32234687 CCACTATAATTAAATCTGT
1 CCACTATAATTAAATCTGT
32234706 TATTAACTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.34, C:0.21, G:0.08, T:0.37
Consensus pattern (19 bp):
CCACTATAATTAAATCTGT
Done.