Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D04
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: 52479919
ACGTcount: A:0.33, C:0.16, G:0.17, T:0.33
Warning! 336953 characters in sequence are not A, C, G, or T
File 107 of 173
Found at i:33203668 original size:57 final size:58
Alignment explanation
Indices: 33203574--33203696 Score: 176
Period size: 57 Copynumber: 2.1 Consensus size: 58
33203564 ATATAAATGG
* * *
33203574 TGAAAATGAAGAAATGAGAAACATTTGGAAATGATTATGATTTTTTCCAAAATGAAAA
1 TGAAAATGAAGAAATGAGAAACATTTGGAAATAATTATGATTTTCTCCAAAACGAAAA
* * * *
33203632 TGAAAATGAAGAAGTGA-AATCATTTGGAAATAATTATGGTTTTCTCCATAACGAAAA
1 TGAAAATGAAGAAATGAGAAACATTTGGAAATAATTATGATTTTCTCCAAAACGAAAA
33203689 TGAAAATG
1 TGAAAATG
33203697 TAAATCACCT
Statistics
Matches: 58, Mismatches: 7, Indels: 1
0.88 0.11 0.02
Matches are distributed among these distances:
57 42 0.72
58 16 0.28
ACGTcount: A:0.46, C:0.07, G:0.18, T:0.29
Consensus pattern (58 bp):
TGAAAATGAAGAAATGAGAAACATTTGGAAATAATTATGATTTTCTCCAAAACGAAAA
Found at i:33209370 original size:18 final size:21
Alignment explanation
Indices: 33209343--33209380 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 21
33209333 TTTATTTTTA
33209343 TTTTTCTCC-A-TTATTGAGC
1 TTTTTCTCCAAGTTATTGAGC
33209362 TTTTT-TCCAAGTTATTGAG
1 TTTTTCTCCAAGTTATTGAG
33209381 ATGAAGCTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
18 3 0.18
19 6 0.35
20 8 0.47
ACGTcount: A:0.18, C:0.16, G:0.13, T:0.53
Consensus pattern (21 bp):
TTTTTCTCCAAGTTATTGAGC
Found at i:33209470 original size:12 final size:12
Alignment explanation
Indices: 33209453--33209477 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
33209443 TTAGACTGAA
33209453 GTGAGTTGAGCT
1 GTGAGTTGAGCT
33209465 GTGAGTTGAGCT
1 GTGAGTTGAGCT
33209477 G
1 G
33209478 AAATTTAAGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.16, C:0.08, G:0.44, T:0.32
Consensus pattern (12 bp):
GTGAGTTGAGCT
Found at i:33211678 original size:13 final size:13
Alignment explanation
Indices: 33211657--33211714 Score: 55
Period size: 13 Copynumber: 4.5 Consensus size: 13
33211647 ACCCAAAATA
*
33211657 AATTGATTTAATC
1 AATTAATTTAATC
*
33211670 AATTAATTTAATT
1 AATTAATTTAATC
* *
33211683 AATTAAATTAACTA
1 AATTAATTTAA-TC
*
33211697 AATTAATTT-CTC
1 AATTAATTTAATC
33211709 AATTAA
1 AATTAA
33211715 ATAATCTTCT
Statistics
Matches: 37, Mismatches: 7, Indels: 3
0.79 0.15 0.06
Matches are distributed among these distances:
12 7 0.19
13 21 0.57
14 9 0.24
ACGTcount: A:0.47, C:0.07, G:0.02, T:0.45
Consensus pattern (13 bp):
AATTAATTTAATC
Found at i:33211684 original size:9 final size:9
Alignment explanation
Indices: 33211670--33211704 Score: 52
Period size: 9 Copynumber: 3.9 Consensus size: 9
33211660 TGATTTAATC
*
33211670 AATTAATTT
1 AATTAATTA
33211679 AATTAATTA
1 AATTAATTA
*
33211688 AATTAACTA
1 AATTAATTA
33211697 AATTAATT
1 AATTAATT
33211705 TCTCAATTAA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
9 23 1.00
ACGTcount: A:0.51, C:0.03, G:0.00, T:0.46
Consensus pattern (9 bp):
AATTAATTA
Found at i:33211724 original size:17 final size:17
Alignment explanation
Indices: 33211695--33211727 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
33211685 TTAAATTAAC
33211695 TAAATTAATTTCTCAAT
1 TAAATTAATTTCTCAAT
33211712 TAAA-TAATCTTCTCAA
1 TAAATTAAT-TTCTCAA
33211728 CCCAATTCTA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 4 0.27
17 11 0.73
ACGTcount: A:0.42, C:0.15, G:0.00, T:0.42
Consensus pattern (17 bp):
TAAATTAATTTCTCAAT
Found at i:33214461 original size:42 final size:42
Alignment explanation
Indices: 33214375--33214607 Score: 315
Period size: 42 Copynumber: 5.6 Consensus size: 42
33214365 ACCAACGCTT
* *
33214375 AGCCTGCTAGACATATAGTCTGAAA-TGTTTCACCGGCATTA
1 AGCCTGCTAGACGTAAAGTCTGAAATTGTTTCACCGGCATTA
* * *
33214416 AGCCTGATAGACGTAAAGCCTGAAATTATTTCACCGGCATTA
1 AGCCTGCTAGACGTAAAGTCTGAAATTGTTTCACCGGCATTA
* * * *
33214458 AGCCTGCTAGACGTAAAGTCTGATATTGTTTCACTGCCAATA
1 AGCCTGCTAGACGTAAAGTCTGAAATTGTTTCACCGGCATTA
* *
33214500 AGCCTACTAGACGTAAAGTCTGAAATTATTTCACCGGCATTA
1 AGCCTGCTAGACGTAAAGTCTGAAATTGTTTCACCGGCATTA
* * * *
33214542 AGCCTTCTAGACGTAAAGTCTGATATTGTTTCACTGGCAATA
1 AGCCTGCTAGACGTAAAGTCTGAAATTGTTTCACCGGCATTA
*
33214584 AGCCTGCTAGGCGTAAAGTCTGAA
1 AGCCTGCTAGACGTAAAGTCTGAA
33214608 GTCTCAATTT
Statistics
Matches: 165, Mismatches: 26, Indels: 1
0.86 0.14 0.01
Matches are distributed among these distances:
41 21 0.13
42 144 0.87
ACGTcount: A:0.30, C:0.21, G:0.20, T:0.29
Consensus pattern (42 bp):
AGCCTGCTAGACGTAAAGTCTGAAATTGTTTCACCGGCATTA
Found at i:33214515 original size:84 final size:84
Alignment explanation
Indices: 33214375--33214607 Score: 353
Period size: 84 Copynumber: 2.8 Consensus size: 84
33214365 ACCAACGCTT
* * * * * *
33214375 AGCCTGCTAGACATATAGTCTGA-AATGTTTCACCGGCATTAAGCCTGA-TAGACGTAAAGCCTG
1 AGCCTGCTAGACGTAAAGTCTGATATTGTTTCACTGGCAATAAGCCT-ACTAGACGTAAAGTCTG
33214438 AAATTATTTCACCGGCATTA
65 AAATTATTTCACCGGCATTA
*
33214458 AGCCTGCTAGACGTAAAGTCTGATATTGTTTCACTGCCAATAAGCCTACTAGACGTAAAGTCTGA
1 AGCCTGCTAGACGTAAAGTCTGATATTGTTTCACTGGCAATAAGCCTACTAGACGTAAAGTCTGA
33214523 AATTATTTCACCGGCATTA
66 AATTATTTCACCGGCATTA
* * *
33214542 AGCCTTCTAGACGTAAAGTCTGATATTGTTTCACTGGCAATAAGCCTGCTAGGCGTAAAGTCTGA
1 AGCCTGCTAGACGTAAAGTCTGATATTGTTTCACTGGCAATAAGCCTACTAGACGTAAAGTCTGA
33214607 A
66 A
33214608 GTCTCAATTT
Statistics
Matches: 137, Mismatches: 11, Indels: 3
0.91 0.07 0.02
Matches are distributed among these distances:
83 22 0.16
84 115 0.84
ACGTcount: A:0.30, C:0.21, G:0.20, T:0.29
Consensus pattern (84 bp):
AGCCTGCTAGACGTAAAGTCTGATATTGTTTCACTGGCAATAAGCCTACTAGACGTAAAGTCTGA
AATTATTTCACCGGCATTA
Found at i:33214557 original size:126 final size:125
Alignment explanation
Indices: 33214375--33214606 Score: 347
Period size: 126 Copynumber: 1.8 Consensus size: 125
33214365 ACCAACGCTT
* * *
33214375 AGCCTGCTAGACATATAGTCTGAAATGTTTCACCGGCATTAAGCCTGATAGACGTAAAGCCTGAA
1 AGCCTACTAGACATAAAGTCTGAAATATTTCACCGGCATTAAGCCTGATAGACGTAAAGCCTGAA
*
33214440 ATTATTTCACCGGCATTAAGCCTGCTAGACGTAAAGTCTGATATTGTTTCACTGCCAATA
66 ATTATTTCACCGGCAATAAGCCTGCTAGACGTAAAGTCTGATATTGTTTCACTGCCAATA
* ** *
33214500 AGCCTACTAGACGTAAAGTCTGAAATTATTTCACCGGCATTAAGCCTTCTAGACGTAAAGTCTGA
1 AGCCTACTAGACATAAAGTCTGAAA-TATTTCACCGGCATTAAGCCTGATAGACGTAAAGCCTGA
* * * *
33214565 TATTGTTTCACTGGCAATAAGCCTGCTAGGCGTAAAGTCTGA
65 AATTATTTCACCGGCAATAAGCCTGCTAGACGTAAAGTCTGA
33214607 AGTCTCAATT
Statistics
Matches: 94, Mismatches: 12, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
125 22 0.23
126 72 0.77
ACGTcount: A:0.30, C:0.21, G:0.20, T:0.29
Consensus pattern (125 bp):
AGCCTACTAGACATAAAGTCTGAAATATTTCACCGGCATTAAGCCTGATAGACGTAAAGCCTGAA
ATTATTTCACCGGCAATAAGCCTGCTAGACGTAAAGTCTGATATTGTTTCACTGCCAATA
Found at i:33222538 original size:42 final size:42
Alignment explanation
Indices: 33222487--33222735 Score: 329
Period size: 42 Copynumber: 5.9 Consensus size: 42
33222477 TAGTCTAACA
* *
33222487 TGTTTCACCGGCATTAAGCCTACTAGAAGTAAAGTATGATAT
1 TGTTTCACCGGCATTAAGCCTACTAGACGTAAAGTCTGATAT
*
33222529 TGTTTCACCGGCATTAAGCCTGA-TAGACGTAAAGTCTGAAAT
1 TGTTTCACCGGCATTAAGCCT-ACTAGACGTAAAGTCTGATAT
* *
33222571 TATTTCACCGGCATTAAGCCTGCTAGACGTAAAGTCTGATAT
1 TGTTTCACCGGCATTAAGCCTACTAGACGTAAAGTCTGATAT
* * * * * *
33222613 TGTTTCACTGCCAATAAGCCTGCTAGACGTAAAGTCTGAAAC
1 TGTTTCACCGGCATTAAGCCTACTAGACGTAAAGTCTGATAT
* *
33222655 TATTTCACCGGCATTAAGCCTACTAGACATAAAGTCTGATAT
1 TGTTTCACCGGCATTAAGCCTACTAGACGTAAAGTCTGATAT
* * * *
33222697 TGTTTCACTGGCAATAAGCCTGCTAGGCGTAAAGTCTGA
1 TGTTTCACCGGCATTAAGCCTACTAGACGTAAAGTCTGA
33222736 AGTCTCAATT
Statistics
Matches: 179, Mismatches: 26, Indels: 4
0.86 0.12 0.02
Matches are distributed among these distances:
42 178 0.99
43 1 0.01
ACGTcount: A:0.31, C:0.20, G:0.20, T:0.29
Consensus pattern (42 bp):
TGTTTCACCGGCATTAAGCCTACTAGACGTAAAGTCTGATAT
Found at i:33222597 original size:84 final size:84
Alignment explanation
Indices: 33222462--33222736 Score: 403
Period size: 84 Copynumber: 3.3 Consensus size: 84
33222452 ACCGACACTT
* * * *
33222462 AGCCTGCTAGACATATAGTCT--AACATGTTTCACCGGCATTAAGCCTACTAGAAGTAAAGTATG
1 AGCCTGCTAGACGTAAAGTCTGAAAC-TATTTCACCGGCATTAAGCCTACTAGAAGTAAAGTCTG
* *
33222525 ATATTGTTTCACCGGCATTA
65 ATATTGTTTCACTGGCAATA
* * * *
33222545 AGCCTGATAGACGTAAAGTCTGAAATTATTTCACCGGCATTAAGCCTGCTAGACGTAAAGTCTGA
1 AGCCTGCTAGACGTAAAGTCTGAAACTATTTCACCGGCATTAAGCCTACTAGAAGTAAAGTCTGA
*
33222610 TATTGTTTCACTGCCAATA
66 TATTGTTTCACTGGCAATA
33222629 AGCCTGCTAGACGTAAAGTCTGAAACTATTTCACCGGCATTAAGCCTACTAGACA-TAAAGTCTG
1 AGCCTGCTAGACGTAAAGTCTGAAACTATTTCACCGGCATTAAGCCTACTAGA-AGTAAAGTCTG
33222693 ATATTGTTTCACTGGCAATA
65 ATATTGTTTCACTGGCAATA
*
33222713 AGCCTGCTAGGCGTAAAGTCTGAA
1 AGCCTGCTAGACGTAAAGTCTGAA
33222737 GTCTCAATTT
Statistics
Matches: 172, Mismatches: 17, Indels: 5
0.89 0.09 0.03
Matches are distributed among these distances:
83 18 0.10
84 152 0.88
85 2 0.01
ACGTcount: A:0.31, C:0.21, G:0.19, T:0.29
Consensus pattern (84 bp):
AGCCTGCTAGACGTAAAGTCTGAAACTATTTCACCGGCATTAAGCCTACTAGAAGTAAAGTCTGA
TATTGTTTCACTGGCAATA
Found at i:33228723 original size:16 final size:16
Alignment explanation
Indices: 33228702--33228750 Score: 71
Period size: 16 Copynumber: 3.1 Consensus size: 16
33228692 GTCAATTACT
33228702 ATATACTGCATAAGTC
1 ATATACTGCATAAGTC
*
33228718 ATATACTGCTTAAGTC
1 ATATACTGCATAAGTC
**
33228734 ATATACTTTATAAGTC
1 ATATACTGCATAAGTC
33228750 A
1 A
33228751 ATTAAGTCAC
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
16 29 1.00
ACGTcount: A:0.37, C:0.16, G:0.10, T:0.37
Consensus pattern (16 bp):
ATATACTGCATAAGTC
Found at i:33238308 original size:54 final size:54
Alignment explanation
Indices: 33238277--33238418 Score: 166
Period size: 54 Copynumber: 2.7 Consensus size: 54
33238267 TAATGGGAGT
*
33238277 CTTTGTGACTATCCATGTAAAGGAAGCCTTTGTGGCTACCCTTGTAAAAGAAGC
1 CTTTGTGACTATCCATGTAAAGGAAGCCTTTGTGGCAACCCTTGTAAAAGAAGC
* * * * * * *
33238331 CTTTGTGGCTATTCATGTAAAGGAAGCATTTCTCGCTACCCATGTAAAAGAAG-
1 CTTTGTGACTATCCATGTAAAGGAAGCCTTTGTGGCAACCCTTGTAAAAGAAGC
* *
33238384 ---TGTGCCTATCCATGTAAAGGAAGCCCTTGTGGCAA
1 CTTTGTGACTATCCATGTAAAGGAAGCCTTTGTGGCAA
33238419 TCCGAATAAA
Statistics
Matches: 75, Mismatches: 13, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
50 28 0.37
54 47 0.63
ACGTcount: A:0.28, C:0.20, G:0.23, T:0.29
Consensus pattern (54 bp):
CTTTGTGACTATCCATGTAAAGGAAGCCTTTGTGGCAACCCTTGTAAAAGAAGC
Found at i:33238322 original size:27 final size:27
Alignment explanation
Indices: 33238244--33238421 Score: 150
Period size: 27 Copynumber: 6.7 Consensus size: 27
33238234 CCTCTATAAC
* * *
33238244 GGAAGACTTTGTGGCAATCTC-TGTAAT
1 GGAAGCCTTTGTGGCTATC-CATGTAAA
* * *
33238271 GGGAGTCTTTGTGACTATCCATGTAAA
1 GGAAGCCTTTGTGGCTATCCATGTAAA
* *
33238298 GGAAGCCTTTGTGGCTACCCTTGTAAA
1 GGAAGCCTTTGTGGCTATCCATGTAAA
* *
33238325 AGAAGCCTTTGTGGCTATTCATGTAAA
1 GGAAGCCTTTGTGGCTATCCATGTAAA
* * * *
33238352 GGAAGCATTTCTCGCTACCCATGTAAA
1 GGAAGCCTTTGTGGCTATCCATGTAAA
* *
33238379 AGAAG----TGTGCCTATCCATGTAAA
1 GGAAGCCTTTGTGGCTATCCATGTAAA
* *
33238402 GGAAGCCCTTGTGGCAATCC
1 GGAAGCCTTTGTGGCTATCC
33238422 GAATAAAGGA
Statistics
Matches: 118, Mismatches: 28, Indels: 10
0.76 0.18 0.06
Matches are distributed among these distances:
23 18 0.15
26 1 0.01
27 99 0.84
ACGTcount: A:0.27, C:0.20, G:0.24, T:0.29
Consensus pattern (27 bp):
GGAAGCCTTTGTGGCTATCCATGTAAA
Found at i:33241902 original size:28 final size:28
Alignment explanation
Indices: 33241865--33242001 Score: 111
Period size: 28 Copynumber: 5.0 Consensus size: 28
33241855 GACAGTTAAG
* * *
33241865 ATAACCTTTGTGGCGAACTCTGAAAATA
1 ATAACATTTGTGGCAAACTCTGAAAAGA
** * *
33241893 ATAACATTTGTGGTGAACTGTGAAAGGA
1 ATAACATTTGTGGCAAACTCTGAAAAGA
* * *
33241921 ATAACATGTGTGGAAAACTCT-AAAAAA
1 ATAACATTTGTGGCAAACTCTGAAAAGA
* *
33241948 ATAAC-TTGTGTGGCAAATTTTGAAAAGA
1 ATAACATT-TGTGGCAAACTCTGAAAAGA
*
33241976 A-AAGCCTTTGTGGCAAACTCT-AAAAG
1 ATAA-CATTTGTGGCAAACTCTGAAAAG
33242002 GGCTCCCTTT
Statistics
Matches: 87, Mismatches: 18, Indels: 9
0.76 0.16 0.08
Matches are distributed among these distances:
26 1 0.01
27 26 0.30
28 58 0.67
29 2 0.02
ACGTcount: A:0.40, C:0.12, G:0.20, T:0.27
Consensus pattern (28 bp):
ATAACATTTGTGGCAAACTCTGAAAAGA
Found at i:33244743 original size:50 final size:50
Alignment explanation
Indices: 33244679--33244781 Score: 170
Period size: 50 Copynumber: 2.1 Consensus size: 50
33244669 AGTCTTTCCC
* *
33244679 TTAGTAAGAGCTTCTTTGAGAATAGAAGAAATGTCCATGTCTGGGGGATG
1 TTAGTAAGAACTTCTTTGAGAATAGAAGAAATGTCAATGTCTGGGGGATG
* *
33244729 TTAGTAAGAACTTCTTTGAGAGTGGAAGAAATGTCAATGTCTGGGGGATG
1 TTAGTAAGAACTTCTTTGAGAATAGAAGAAATGTCAATGTCTGGGGGATG
33244779 TTA
1 TTA
33244782 ATCTGATGAA
Statistics
Matches: 49, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
50 49 1.00
ACGTcount: A:0.30, C:0.09, G:0.30, T:0.31
Consensus pattern (50 bp):
TTAGTAAGAACTTCTTTGAGAATAGAAGAAATGTCAATGTCTGGGGGATG
Found at i:33247468 original size:28 final size:28
Alignment explanation
Indices: 33247436--33247492 Score: 78
Period size: 28 Copynumber: 2.0 Consensus size: 28
33247426 TAAGATAGCC
33247436 TTTGTGCCGAACTCAGAAAAGAATAACA
1 TTTGTGCCGAACTCAGAAAAGAATAACA
* ** *
33247464 TTTGTGCTGAACTGTGAAAGGAATAACA
1 TTTGTGCCGAACTCAGAAAAGAATAACA
33247492 T
1 T
33247493 GTATGGAAAA
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
28 25 1.00
ACGTcount: A:0.39, C:0.14, G:0.21, T:0.26
Consensus pattern (28 bp):
TTTGTGCCGAACTCAGAAAAGAATAACA
Found at i:33248922 original size:28 final size:27
Alignment explanation
Indices: 33248891--33248949 Score: 64
Period size: 28 Copynumber: 2.1 Consensus size: 27
33248881 AATGACATGG
33248891 GTGGAAAAATTTCAAAGGAATAGCCTTT
1 GTGGAAAAATTTCAAAGGAAT-GCCTTT
** * * *
33248919 GTGGTGAACTTTGAAAGGGATGCCTTT
1 GTGGAAAAATTTCAAAGGAATGCCTTT
33248946 GTGG
1 GTGG
33248950 CAAATTCTGA
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
27 10 0.38
28 16 0.62
ACGTcount: A:0.29, C:0.10, G:0.31, T:0.31
Consensus pattern (27 bp):
GTGGAAAAATTTCAAAGGAATGCCTTT
Found at i:33248960 original size:27 final size:28
Alignment explanation
Indices: 33248897--33248960 Score: 69
Period size: 27 Copynumber: 2.3 Consensus size: 28
33248887 ATGGGTGGAA
* *
33248897 AAATTTCAAAGGAATAGCCTTTGTGGTG
1 AAATTTGAAAGGAATAGCCTTTGTGGTC
* *
33248925 AACTTTGAAAGGGAT-GCCTTTGTGG-C
1 AAATTTGAAAGGAATAGCCTTTGTGGTC
33248951 AAATTCTGAA
1 AAATT-TGAA
33248961 TTGATCTCCT
Statistics
Matches: 30, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
26 4 0.13
27 14 0.47
28 12 0.40
ACGTcount: A:0.31, C:0.12, G:0.25, T:0.31
Consensus pattern (28 bp):
AAATTTGAAAGGAATAGCCTTTGTGGTC
Found at i:33251949 original size:16 final size:16
Alignment explanation
Indices: 33251892--33251949 Score: 50
Period size: 16 Copynumber: 3.6 Consensus size: 16
33251882 TCTCAAAAAA
33251892 TTATAAAAAAATCAATA-
1 TTAT-AAAAAAT-AATAT
33251909 -TATAAAAAA-AATAT
1 TTATAAAAAATAATAT
**
33251923 ATTATTGAAAATAATAT
1 -TTATAAAAAATAATAT
33251940 TTATAAAAAA
1 TTATAAAAAA
33251950 CTAACCCTAA
Statistics
Matches: 33, Mismatches: 4, Indels: 9
0.72 0.09 0.20
Matches are distributed among these distances:
13 4 0.12
15 6 0.18
16 18 0.55
17 5 0.15
ACGTcount: A:0.64, C:0.02, G:0.02, T:0.33
Consensus pattern (16 bp):
TTATAAAAAATAATAT
Found at i:33264340 original size:33 final size:33
Alignment explanation
Indices: 33264310--33264420 Score: 159
Period size: 33 Copynumber: 3.4 Consensus size: 33
33264300 ACCAATCCTT
* * **
33264310 CCAACACACCAATGCTTATAAAATTTAATCCAA
1 CCAACACACCAATGCTCATAAGAGCTAATCCAA
33264343 CCAACACACCAATGCTCATAAGAGCTAATCCAA
1 CCAACACACCAATGCTCATAAGAGCTAATCCAA
* * *
33264376 CCAACACATCAATGCCCATAAGAGCTAATCCAT
1 CCAACACACCAATGCTCATAAGAGCTAATCCAA
33264409 CCAACACACCAA
1 CCAACACACCAA
33264421 ACAGAGCGTA
Statistics
Matches: 70, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
33 70 1.00
ACGTcount: A:0.43, C:0.33, G:0.06, T:0.17
Consensus pattern (33 bp):
CCAACACACCAATGCTCATAAGAGCTAATCCAA
Found at i:33266584 original size:13 final size:13
Alignment explanation
Indices: 33266566--33266597 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
33266556 ACGGCCTGGC
33266566 ACACGGGAGTGTG
1 ACACGGGAGTGTG
*
33266579 ACACGGGCGTGTG
1 ACACGGGAGTGTG
33266592 ACACGG
1 ACACGG
33266598 CCATGTGACC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.22, C:0.22, G:0.44, T:0.12
Consensus pattern (13 bp):
ACACGGGAGTGTG
Found at i:33270479 original size:45 final size:45
Alignment explanation
Indices: 33270385--33270584 Score: 165
Period size: 45 Copynumber: 4.5 Consensus size: 45
33270375 TTGGAAATAT
* * * * * ** *
33270385 AGGTGGATGCTATGTACTGATTCCACCCGATATTAATGAATATAA
1 AGGTGGTTGCTATGTGCTGATTTCACTCGGTACCAATGAGTATAA
* *
33270430 AGGTGGTTGCTATGTGCTGATTTCA-TTGGATACCAATG-GTTATAT
1 AGGTGGTTGCTATGTGCTGATTTCACTCGG-TACCAATGAG-TATAA
* *
33270475 AGGTGGTTGCTATATGCTGATTTCACTCGGTACCATTGAGTATAA
1 AGGTGGTTGCTATGTGCTGATTTCACTCGGTACCAATGAGTATAA
* * * * *
33270520 AGGTGATTGTTATGTGCTGATTTCAC-CGAGTACTATTGACTATAA
1 AGGTGGTTGCTATGTGCTGATTTCACTCG-GTACCAATGAGTATAA
* * *
33270565 GGGTGG-TGTTGTGTGCTGAT
1 AGGTGGTTGCTATGTGCTGAT
33270585 CCATCGTGTA
Statistics
Matches: 128, Mismatches: 22, Indels: 11
0.80 0.14 0.07
Matches are distributed among these distances:
44 16 0.12
45 108 0.84
46 4 0.03
ACGTcount: A:0.24, C:0.13, G:0.26, T:0.36
Consensus pattern (45 bp):
AGGTGGTTGCTATGTGCTGATTTCACTCGGTACCAATGAGTATAA
Found at i:33279960 original size:43 final size:43
Alignment explanation
Indices: 33279850--33279961 Score: 145
Period size: 43 Copynumber: 2.6 Consensus size: 43
33279840 TATTTGGGTC
* * * * *
33279850 CACATGGCCTGA-GACATGGCCGTCTGACTCAACCGTGTAAGA
1 CACACGGCCTGACAACACGGCCGTGTGACGCAACCGTGTAAGA
* *
33279892 CACACGGCCTGGCAACACGGCCGTGTGACGCAACCGTGTGAGA
1 CACACGGCCTGACAACACGGCCGTGTGACGCAACCGTGTAAGA
*
33279935 CACACGGCCTGACAACACGGTCGTGTG
1 CACACGGCCTGACAACACGGCCGTGTG
33279962 TCATCTGATG
Statistics
Matches: 60, Mismatches: 9, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
42 10 0.17
43 50 0.83
ACGTcount: A:0.24, C:0.31, G:0.29, T:0.15
Consensus pattern (43 bp):
CACACGGCCTGACAACACGGCCGTGTGACGCAACCGTGTAAGA
Found at i:33298552 original size:50 final size:48
Alignment explanation
Indices: 33298431--33298563 Score: 121
Period size: 50 Copynumber: 2.7 Consensus size: 48
33298421 AATAACATGC
33298431 CAAA-GCCATGTCCCAGACATGGTCTTACATGGGATGTTTCTTGTACTG
1 CAAATGCCATGT-CCAGACATGGTCTTACATGGGATGTTTCTTGTACTG
* * *
33298479 CAAATGCCATATCGCAGATATGGTATTACATGGGA-G-TTC-TGATATCGGTG
1 CAAATGCCATGTC-CAGACATGGTCTTACATGGGATGTTTCTTG-TA-C--TG
** *
33298529 CTCATGCCATGTCCTAGACATGGTCTTACAGGGGA
1 CAAATGCCATGTCC-AGACATGGTCTTACATGGGA
33298564 CCTCTTATAG
Statistics
Matches: 69, Mismatches: 9, Indels: 12
0.77 0.10 0.13
Matches are distributed among these distances:
46 2 0.03
47 5 0.07
48 7 0.10
49 26 0.38
50 29 0.42
ACGTcount: A:0.25, C:0.21, G:0.25, T:0.29
Consensus pattern (48 bp):
CAAATGCCATGTCCAGACATGGTCTTACATGGGATGTTTCTTGTACTG
Found at i:33300593 original size:85 final size:85
Alignment explanation
Indices: 33300446--33300616 Score: 315
Period size: 85 Copynumber: 2.0 Consensus size: 85
33300436 TCCAATACAA
33300446 AGGCGTACGACACTTACGTCCATACAAAGCTTCATAAGAAGCCATCTTCAAACTCGACTGATAAC
1 AGGCGTACGACACTTACGTCCATACAAAGCTTCATAAGAAGCCATCTTCAAACTCGACTGATAAC
33300511 TATTATTATAGGAAAACTCT
66 TATTATTATAGGAAAACTCT
* *
33300531 AGGCGTACGACACTTACGTCCATACAAAGCTTCATAAGGAGCCATCTTCAAACTCGATTGATAAC
1 AGGCGTACGACACTTACGTCCATACAAAGCTTCATAAGAAGCCATCTTCAAACTCGACTGATAAC
*
33300596 TATTATTATAGGCAAACTCT
66 TATTATTATAGGAAAACTCT
33300616 A
1 A
33300617 CCAACGACAA
Statistics
Matches: 83, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
85 83 1.00
ACGTcount: A:0.36, C:0.23, G:0.15, T:0.26
Consensus pattern (85 bp):
AGGCGTACGACACTTACGTCCATACAAAGCTTCATAAGAAGCCATCTTCAAACTCGACTGATAAC
TATTATTATAGGAAAACTCT
Found at i:33305978 original size:50 final size:50
Alignment explanation
Indices: 33305883--33306073 Score: 157
Period size: 50 Copynumber: 3.7 Consensus size: 50
33305873 ACATGTCAAA
* * * ** * * *
33305883 GCCATATCCCAGATATGGTCTTACATGGGAGTTCTCATATTGGTGCCCAT
1 GCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATATCGGTGCCAAC
* * *
33305933 GCCATGTCCCAGACATGGTCTTACGGGGGACCTCTCTTCTCGGTGCCAAC
1 GCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATATCGGTGCCAAC
* * * * *
33305983 GCCATGTCCTAGACATGGTCTTAAATGGGACCTCTCATAACCTCAATGATGCCAAT
1 GCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCAT-A--TC---GGTGCCAAC
* * *
33306039 GCCATGTCCCAAACATGGTCTTACATGGGATCTCT
1 GCCATGTCCCAGACATGGTCTTACAGGGGACCTCT
33306074 TTACCCGAAT
Statistics
Matches: 112, Mismatches: 23, Indels: 6
0.79 0.16 0.04
Matches are distributed among these distances:
50 72 0.64
53 2 0.02
56 38 0.34
ACGTcount: A:0.23, C:0.28, G:0.21, T:0.28
Consensus pattern (50 bp):
GCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATATCGGTGCCAAC
Found at i:33307377 original size:26 final size:26
Alignment explanation
Indices: 33307348--33307401 Score: 108
Period size: 26 Copynumber: 2.1 Consensus size: 26
33307338 TAGGGAAGTT
33307348 AGGCATGCATGAAATTTTAAGTCTCA
1 AGGCATGCATGAAATTTTAAGTCTCA
33307374 AGGCATGCATGAAATTTTAAGTCTCA
1 AGGCATGCATGAAATTTTAAGTCTCA
33307400 AG
1 AG
33307402 AATTGGCGTA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 28 1.00
ACGTcount: A:0.35, C:0.15, G:0.20, T:0.30
Consensus pattern (26 bp):
AGGCATGCATGAAATTTTAAGTCTCA
Found at i:33311802 original size:27 final size:27
Alignment explanation
Indices: 33311771--33311972 Score: 173
Period size: 27 Copynumber: 7.5 Consensus size: 27
33311761 TTTCCATAAG
*
33311771 GGCTTCCTTTACATGGTTAGCCACATAA
1 GGCTTCCTTTACATGGATAGCCACA-AA
* *
33311799 -GCTTCCTTTACATAGATAGCCACGAA
1 GGCTTCCTTTACATGGATAGCCACAAA
*
33311825 GGCCTT-TTTTACATAGG-TAGCCACAAA
1 GG-CTTCCTTTACAT-GGATAGCCACAAA
33311852 GGCTTCCTTTACATGGATAGCCACAAA
1 GGCTTCCTTTACATGGATAGCCACAAA
** * * *
33311879 GGCTTATTTTACAAGGGTACCCACAAA
1 GGCTTCCTTTACATGGATAGCCACAAA
* * *
33311906 TGCTTCCTTTTA-ATAGATAGACACAAA
1 GGCTTCC-TTTACATGGATAGCCACAAA
* *
33311933 GGC-T-CTAATTACATAGATTGCCACAAA
1 GGCTTCCT--TTACATGGATAGCCACAAA
*
33311960 GTCTTCCTTTACA
1 GGCTTCCTTTACA
33311973 GAGGTTTTTC
Statistics
Matches: 139, Mismatches: 24, Indels: 23
0.75 0.13 0.12
Matches are distributed among these distances:
24 1 0.01
25 1 0.01
26 11 0.08
27 115 0.83
28 9 0.06
29 2 0.01
ACGTcount: A:0.31, C:0.24, G:0.16, T:0.30
Consensus pattern (27 bp):
GGCTTCCTTTACATGGATAGCCACAAA
Found at i:33311857 original size:54 final size:53
Alignment explanation
Indices: 33311778--33311972 Score: 209
Period size: 54 Copynumber: 3.6 Consensus size: 53
33311768 AAGGGCTTCC
*
33311778 TTTACAT-GGTTAGCCACATAA-GCTTCCTTTACATAGATAGCCACGAAGGCCTTT
1 TTTACATAGG-TAGCCACA-AAGGCTTCCTTTACATAGATAGCCACAAAGG-CTTT
*
33311832 TTTACATAGGTAGCCACAAAGGCTTCCTTTACATGGATAGCCACAAAGGCTTAT
1 TTTACATAGGTAGCCACAAAGGCTTCCTTTACATAGATAGCCACAAAGGCTT-T
* * * *
33311886 TTTACA-AGGGTACCCACAAATGCTTCCTTTTA-ATAGATAGACACAAAGGCTCTA
1 TTTACATA-GGTAGCCACAAAGGCTTCC-TTTACATAGATAGCCACAAAGGCT-TT
* * * *
33311940 ATTACATAGATTGCCACAAAGTCTTCCTTTACA
1 TTTACATAGGTAGCCACAAAGGCTTCCTTTACA
33311973 GAGGTTTTTC
Statistics
Matches: 120, Mismatches: 13, Indels: 16
0.81 0.09 0.11
Matches are distributed among these distances:
53 10 0.08
54 102 0.85
55 8 0.07
ACGTcount: A:0.32, C:0.23, G:0.15, T:0.30
Consensus pattern (53 bp):
TTTACATAGGTAGCCACAAAGGCTTCCTTTACATAGATAGCCACAAAGGCTTT
Found at i:33319727 original size:5 final size:5
Alignment explanation
Indices: 33319717--33319753 Score: 58
Period size: 5 Copynumber: 7.6 Consensus size: 5
33319707 GTTTTAGAAT
*
33319717 AATAA AATAA AATAA CATAA AATAA AAT-A AATAA AAT
1 AATAA AATAA AATAA AATAA AATAA AATAA AATAA AAT
33319754 TCAAGAGATA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
4 4 0.14
5 25 0.86
ACGTcount: A:0.76, C:0.03, G:0.00, T:0.22
Consensus pattern (5 bp):
AATAA
Found at i:33319738 original size:15 final size:14
Alignment explanation
Indices: 33319717--33319753 Score: 65
Period size: 15 Copynumber: 2.6 Consensus size: 14
33319707 GTTTTAGAAT
33319717 AATAAAATAAAATA
1 AATAAAATAAAATA
33319731 ACATAAAATAAAATA
1 A-ATAAAATAAAATA
33319746 AATAAAAT
1 AATAAAAT
33319754 TCAAGAGATA
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
14 8 0.36
15 14 0.64
ACGTcount: A:0.76, C:0.03, G:0.00, T:0.22
Consensus pattern (14 bp):
AATAAAATAAAATA
Found at i:33325340 original size:23 final size:24
Alignment explanation
Indices: 33325294--33325341 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
33325284 TAAATTAAAC
* *
33325294 TAAGTTAAATAAAACTAACAAAAT
1 TAAGTAAAATAAAACAAACAAAAT
*
33325318 TAAGTAAAATAAAA-AAACCAAAT
1 TAAGTAAAATAAAACAAACAAAAT
33325341 T
1 T
33325342 TCACCAAATT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
23 8 0.38
24 13 0.62
ACGTcount: A:0.65, C:0.08, G:0.04, T:0.23
Consensus pattern (24 bp):
TAAGTAAAATAAAACAAACAAAAT
Found at i:33335611 original size:21 final size:21
Alignment explanation
Indices: 33335587--33335627 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
33335577 CAAAGTATTG
33335587 ATATCTTTGTAATAAGTATCA
1 ATATCTTTGTAATAAGTATCA
* * *
33335608 ATATTTTTGTATTCAGTATC
1 ATATCTTTGTAATAAGTATC
33335628 GATACCAAAT
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:0.32, C:0.10, G:0.10, T:0.49
Consensus pattern (21 bp):
ATATCTTTGTAATAAGTATCA
Found at i:33336635 original size:164 final size:164
Alignment explanation
Indices: 33336363--33336689 Score: 478
Period size: 164 Copynumber: 2.0 Consensus size: 164
33336353 CTAATTCCAA
* *
33336363 AAAACGAGACCTACAAGAAAAAGGAAAAACAACACGAGCAAGCTTTTACGAGTTTAGTAAGTTCA
1 AAAACGAGACCTACAAGAAAAAGGAAAAACAACACGAGCAAGCTTTTACAAGCTTAGTAAGTTCA
* * * *
33336428 CAGGTTGAAACGTTATAACTTATCGTATAATCATATATTTATAATTAAGAAAATCAGTAGCTAAC
66 CAAGTTGAAACGTTATAACTTATCGTATAATCAAATATTTATAATTAAAAAAATCAATAGCTAAC
33336493 ATTAACCCTATCAACCACAACCATTCAACAGGTC
131 ATTAACCCTATCAACCACAACCATTCAACAGGTC
* * * * *
33336527 AAAACGAGATCTACAAGAAAAAAGG-AAAATAACATGAGTAAGCTTTTACAAGCTTAGTATGTTC
1 AAAACGAGACCTACAAG-AAAAAGGAAAAACAACACGAGCAAGCTTTTACAAGCTTAGTAAGTTC
* *
33336591 ATAAGTTGAAATGTTATAACTTATCGTATAATCAAA-ATTTTATAATTAAAAAAATCAATAGCTA
65 ACAAGTTGAAACGTTATAACTTATCGTATAATCAAATA-TTTATAATTAAAAAAATCAATAGCTA
* * *
33336655 ACATTAACCCTGTCAACCGCAACCATTCAATAGGT
129 ACATTAACCCTATCAACCACAACCATTCAACAGGT
33336690 GAGTTTTGAA
Statistics
Matches: 145, Mismatches: 16, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
163 1 0.01
164 137 0.94
165 7 0.05
ACGTcount: A:0.44, C:0.17, G:0.13, T:0.26
Consensus pattern (164 bp):
AAAACGAGACCTACAAGAAAAAGGAAAAACAACACGAGCAAGCTTTTACAAGCTTAGTAAGTTCA
CAAGTTGAAACGTTATAACTTATCGTATAATCAAATATTTATAATTAAAAAAATCAATAGCTAAC
ATTAACCCTATCAACCACAACCATTCAACAGGTC
Found at i:33337311 original size:12 final size:12
Alignment explanation
Indices: 33337294--33337319 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
33337284 CCACACACGC
33337294 CCGTGTGCTAGG
1 CCGTGTGCTAGG
33337306 CCGTGTGCTAGG
1 CCGTGTGCTAGG
33337318 CC
1 CC
33337320 ATGTAACTCA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.08, C:0.31, G:0.38, T:0.23
Consensus pattern (12 bp):
CCGTGTGCTAGG
Found at i:33337328 original size:54 final size:54
Alignment explanation
Indices: 33337210--33337333 Score: 169
Period size: 54 Copynumber: 2.3 Consensus size: 54
33337200 GTGTCCTCAC
* *
33337210 CCATGTAGCTCACTGAGTTGCCACACACGCCCGTGTGGCAGATCGTGTGCTAGG
1 CCATGTAACTCACTGAGTTGCCACACACGCCCGTGTGGCAGACCGTGTGCTAGG
* * * * *
33337264 TCGTGGAACTCTCTGAGTTGCCACACACGCCCGTGT-GCTAGGCCGTGTGCTAGG
1 CCATGTAACTCACTGAGTTGCCACACACGCCCGTGTGGC-AGACCGTGTGCTAGG
33337318 CCATGTAACTCACTGA
1 CCATGTAACTCACTGA
33337334 CTTGAAACAC
Statistics
Matches: 58, Mismatches: 11, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
53 2 0.03
54 56 0.97
ACGTcount: A:0.19, C:0.30, G:0.28, T:0.23
Consensus pattern (54 bp):
CCATGTAACTCACTGAGTTGCCACACACGCCCGTGTGGCAGACCGTGTGCTAGG
Found at i:33343347 original size:3 final size:3
Alignment explanation
Indices: 33343339--33343381 Score: 86
Period size: 3 Copynumber: 14.3 Consensus size: 3
33343329 ATCAATTCAG
33343339 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
33343382 GATTATTTGA
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 40 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:33348278 original size:16 final size:16
Alignment explanation
Indices: 33348257--33348287 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
33348247 GTTATTATGA
33348257 TTGATTAAAAAACAAC
1 TTGATTAAAAAACAAC
33348273 TTGATTAAAAAACAA
1 TTGATTAAAAAACAA
33348288 GTATTTGGTA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.58, C:0.10, G:0.06, T:0.26
Consensus pattern (16 bp):
TTGATTAAAAAACAAC
Found at i:33348565 original size:18 final size:17
Alignment explanation
Indices: 33348537--33348571 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
33348527 ATTATTAAGA
*
33348537 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
33348554 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
33348572 TTAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:33348727 original size:119 final size:120
Alignment explanation
Indices: 33348416--33348831 Score: 721
Period size: 120 Copynumber: 3.5 Consensus size: 120
33348406 AATTATTTTA
* *
33348416 AATTTTATTAAATCATATATTTTAATTAAAATATATTTAATATTAATTAT-TTCAAATTATATTT
1 AATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTT-AAATTATATTT
*
33348480 TATAGTATCATATATTATGATTTTAGTAAATTCATATAAGAATATTGATTATTAAG
65 TATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTGATTATTAAG
*
33348536 AATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTAAATTATCTTTT
1 AATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTAAATTATATTTT
*
33348601 ATA-TATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
66 ATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTGATTATTAAG
*
33348655 AA-TTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTAAATTATATTTT
1 AATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTAAATTATATTTT
*
33348719 ATAGTATCATATATTATGCTTTGAGTAAATTCATATAAGAATATTGATTATTAAG
66 ATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTGATTATTAAG
*
33348774 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTTAAAT
1 AATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATG-TTAAAT
33348832 ATGATTAAAT
Statistics
Matches: 283, Mismatches: 9, Indels: 7
0.95 0.03 0.02
Matches are distributed among these distances:
118 63 0.22
119 102 0.36
120 110 0.39
121 8 0.03
ACGTcount: A:0.43, C:0.02, G:0.05, T:0.50
Consensus pattern (120 bp):
AATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTAAATTATATTTT
ATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTGATTATTAAG
Found at i:33348809 original size:16 final size:16
Alignment explanation
Indices: 33348788--33348829 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
33348778 TTATTAAATT
*
33348788 ATATATTTTAATTATA
1 ATATATTTTAATAATA
33348804 ATATA-TTTAATAATA
1 ATATATTTTAATAATA
33348819 AT-TATGTTTAA
1 ATATAT-TTTAA
33348830 ATATGATTAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
14 2 0.09
15 11 0.48
16 10 0.43
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.52
Consensus pattern (16 bp):
ATATATTTTAATAATA
Found at i:33348814 original size:15 final size:15
Alignment explanation
Indices: 33348779--33348820 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
33348769 TTAAGAATTT
*
33348779 TATTAAATTAT-ATA
1 TATTTAATTATAATA
33348793 T-TTTAATTATAATA
1 TATTTAATTATAATA
*
33348807 TATTTAATAATAAT
1 TATTTAATTATAAT
33348821 TATGTTTAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 8 0.33
14 5 0.21
15 11 0.46
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (15 bp):
TATTTAATTATAATA
Found at i:33349061 original size:16 final size:16
Alignment explanation
Indices: 33349040--33349090 Score: 75
Period size: 16 Copynumber: 3.2 Consensus size: 16
33349030 AATTGATTTG
*
33349040 CTATTACGCCTCTATT
1 CTATTACGCTTCTATT
*
33349056 CTATTACACTTCTATT
1 CTATTACGCTTCTATT
*
33349072 CCATTACGCTTCTATT
1 CTATTACGCTTCTATT
33349088 CTA
1 CTA
33349091 ATAGAGCGAA
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
16 30 1.00
ACGTcount: A:0.22, C:0.29, G:0.04, T:0.45
Consensus pattern (16 bp):
CTATTACGCTTCTATT
Found at i:33351864 original size:25 final size:20
Alignment explanation
Indices: 33351807--33351850 Score: 72
Period size: 20 Copynumber: 2.2 Consensus size: 20
33351797 GATTTCTGCT
*
33351807 TTTTCTTCTC-GTACGTTTC
1 TTTTCTTCTCTTTACGTTTC
33351826 TTTTCTTCTCTTTACGTTTC
1 TTTTCTTCTCTTTACGTTTC
33351846 TTTTC
1 TTTTC
33351851 ATTTCTCCAT
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
19 10 0.43
20 13 0.57
ACGTcount: A:0.05, C:0.25, G:0.07, T:0.64
Consensus pattern (20 bp):
TTTTCTTCTCTTTACGTTTC
Found at i:33355476 original size:22 final size:22
Alignment explanation
Indices: 33355468--33355533 Score: 111
Period size: 22 Copynumber: 3.1 Consensus size: 22
33355458 ATATTACAAA
33355468 ATCATATCTTCTAAGATTGCAT
1 ATCATATCTTCTAAGATTGCAT
33355490 ATCATATCTTCTAAGATTGCAT
1 ATCATATCTTCTAAGATTGCAT
33355512 ATCATA---TCTAAGATTGCAT
1 ATCATATCTTCTAAGATTGCAT
33355531 ATC
1 ATC
33355534 CTTGAAGATT
Statistics
Matches: 44, Mismatches: 0, Indels: 3
0.94 0.00 0.06
Matches are distributed among these distances:
19 16 0.36
22 28 0.64
ACGTcount: A:0.33, C:0.18, G:0.09, T:0.39
Consensus pattern (22 bp):
ATCATATCTTCTAAGATTGCAT
Found at i:33361827 original size:56 final size:55
Alignment explanation
Indices: 33361767--33361883 Score: 128
Period size: 56 Copynumber: 2.1 Consensus size: 55
33361757 TATATTATGA
* * *
33361767 TTTTAGTAAATTCATA-TAAGAATAATTATATTAAGAATTTTATTAAATTATATATT
1 TTTTAGTAAATT-ATATTAAGAATAATTATATTAA-AATATGATTAAAATATATATT
* * * *
33361823 TTTTATTAAATTATATTTAATAATAATTATGTTAAAATATGATTAAAATATTTATT
1 TTTTAGTAAATTATA-TTAAGAATAATTATATTAAAATATGATTAAAATATATATT
*
33361879 ATTTA
1 TTTTA
33361884 TATGAATAAT
Statistics
Matches: 51, Mismatches: 8, Indels: 4
0.81 0.13 0.06
Matches are distributed among these distances:
55 3 0.06
56 32 0.63
57 16 0.31
ACGTcount: A:0.44, C:0.01, G:0.04, T:0.50
Consensus pattern (55 bp):
TTTTAGTAAATTATATTAAGAATAATTATATTAAAATATGATTAAAATATATATT
Found at i:33364504 original size:50 final size:50
Alignment explanation
Indices: 33364445--33364544 Score: 200
Period size: 50 Copynumber: 2.0 Consensus size: 50
33364435 AATTACTCGG
33364445 TTTTAAGTGTATCTCCCCTAAATAAAGAATATTCAGTAAGCAAGCATGCC
1 TTTTAAGTGTATCTCCCCTAAATAAAGAATATTCAGTAAGCAAGCATGCC
33364495 TTTTAAGTGTATCTCCCCTAAATAAAGAATATTCAGTAAGCAAGCATGCC
1 TTTTAAGTGTATCTCCCCTAAATAAAGAATATTCAGTAAGCAAGCATGCC
33364545 CTCCAAAACC
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
50 50 1.00
ACGTcount: A:0.36, C:0.20, G:0.14, T:0.30
Consensus pattern (50 bp):
TTTTAAGTGTATCTCCCCTAAATAAAGAATATTCAGTAAGCAAGCATGCC
Found at i:33365378 original size:15 final size:15
Alignment explanation
Indices: 33365358--33365406 Score: 57
Period size: 15 Copynumber: 3.3 Consensus size: 15
33365348 TCTTTAAATT
33365358 TTAAAAATATAGAAA
1 TTAAAAATATAGAAA
*
33365373 TTAAAAATGAT-CAAA
1 TTAAAAAT-ATAGAAA
*
33365388 -TAAAAGTATAGAAA
1 TTAAAAATATAGAAA
33365402 TTAAA
1 TTAAA
33365407 TCCATAACTT
Statistics
Matches: 28, Mismatches: 3, Indels: 6
0.76 0.08 0.16
Matches are distributed among these distances:
13 2 0.07
14 9 0.32
15 15 0.54
16 2 0.07
ACGTcount: A:0.63, C:0.02, G:0.08, T:0.27
Consensus pattern (15 bp):
TTAAAAATATAGAAA
Found at i:33365995 original size:14 final size:14
Alignment explanation
Indices: 33365978--33366008 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
33365968 AGTAAAATAT
33365978 TTTCCGGAAAATGA
1 TTTCCGGAAAATGA
*
33365992 TTTCTGGAAAATGA
1 TTTCCGGAAAATGA
33366006 TTT
1 TTT
33366009 ATTTTTCTGG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.32, C:0.10, G:0.19, T:0.39
Consensus pattern (14 bp):
TTTCCGGAAAATGA
Found at i:33366024 original size:19 final size:21
Alignment explanation
Indices: 33365992--33366034 Score: 72
Period size: 20 Copynumber: 2.1 Consensus size: 21
33365982 CGGAAAATGA
33365992 TTTCTGGAAAATGATTTA-TT
1 TTTCTGGAAAATGATTTACTT
33366012 TTTCTGG-AAATGATTTACTT
1 TTTCTGGAAAATGATTTACTT
33366032 TTT
1 TTT
33366035 TGGTGTTTGG
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
19 10 0.45
20 12 0.55
ACGTcount: A:0.26, C:0.07, G:0.14, T:0.53
Consensus pattern (21 bp):
TTTCTGGAAAATGATTTACTT
Found at i:33374745 original size:49 final size:49
Alignment explanation
Indices: 33374673--33374776 Score: 172
Period size: 49 Copynumber: 2.1 Consensus size: 49
33374663 AGAAAAAAAC
* * *
33374673 AAATTAAAATTAAGTTTAATATCATGAATCAAAAGGTGAACACTTTATA
1 AAATTAAAATTAAGTTCAATATCATGAATCAAAAGCTCAACACTTTATA
*
33374722 AAATTAAAATTAAGTTCAATATCATTAATCAAAAGCTCAACACTTTATA
1 AAATTAAAATTAAGTTCAATATCATGAATCAAAAGCTCAACACTTTATA
33374771 AAATTA
1 AAATTA
33374777 TAACACATGA
Statistics
Matches: 51, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
49 51 1.00
ACGTcount: A:0.50, C:0.11, G:0.07, T:0.33
Consensus pattern (49 bp):
AAATTAAAATTAAGTTCAATATCATGAATCAAAAGCTCAACACTTTATA
Found at i:33376832 original size:45 final size:45
Alignment explanation
Indices: 33376781--33377020 Score: 230
Period size: 45 Copynumber: 5.6 Consensus size: 45
33376771 TTTGTAATGT
* *
33376781 TAATTATAATTGTTGTAGCATTTCATTAGTTTTTAGTGTTAATTA
1 TAATTATAATTGTTGTAGCATTTGATTAATTTTTAGTGTTAATTA
33376826 TAATTATAA-TGTTTGTAGCATTTGATTAATTTTTAGTGTTAATTA
1 TAATTATAATTG-TTGTAGCATTTGATTAATTTTTAGTGTTAATTA
* *
33376871 TAAATT-T--TAGTTTTA--A-TT-A-TAATTTTTAGTGTTAAATT-
1 T-AATTATAATTGTTGTAGCATTTGATTAATTTTTAGTGTT-AATTA
* *
33376909 TAATTATAATTGTTGTAGCACTTGATTACTTTTTAGTGTTAATTA
1 TAATTATAATTGTTGTAGCATTTGATTAATTTTTAGTGTTAATTA
* *
33376954 TAAATT-TTAGTG-T-TA--A-TT-A-TAATTTTTAGTGTTAATTA
1 T-AATTATAATTGTTGTAGCATTTGATTAATTTTTAGTGTTAATTA
33376992 TAATTATAA-TGTTTGTAGCATTTGATTAA
1 TAATTATAATTG-TTGTAGCATTTGATTAA
33377021 AAAACTTTTT
Statistics
Matches: 161, Mismatches: 11, Indels: 46
0.74 0.05 0.21
Matches are distributed among these distances:
37 10 0.06
38 37 0.23
39 7 0.04
40 12 0.07
41 2 0.01
42 2 0.01
43 10 0.06
44 10 0.06
45 63 0.39
46 8 0.05
ACGTcount: A:0.32, C:0.03, G:0.12, T:0.53
Consensus pattern (45 bp):
TAATTATAATTGTTGTAGCATTTGATTAATTTTTAGTGTTAATTA
Found at i:33376913 original size:83 final size:83
Alignment explanation
Indices: 33376810--33377020 Score: 363
Period size: 83 Copynumber: 2.5 Consensus size: 83
33376800 ATTTCATTAG
33376810 TTTTTAGTGTTAATTATAATTATAATGTTTGTAGCATTTGATTAATTTTTAGTGTTAATTATAAA
1 TTTTTAGTGTTAATTATAATTATAATGTTTGTAGCATTTGATTAATTTTTAGTGTTAATTATAAA
*
33376875 TTTTAGTTTTAATTATAA
66 TTTTAGTGTTAATTATAA
* *
33376893 TTTTTAGTGTTAAATT-TAATTATAAT-TGTTGTAGCACTTGATTACTTTTTAGTGTTAATTATA
1 TTTTTAGTGTT-AATTATAATTATAATGT-TTGTAGCATTTGATTAATTTTTAGTGTTAATTATA
33376956 AATTTTAGTGTTAATTATAA
64 AATTTTAGTGTTAATTATAA
33376976 TTTTTAGTGTTAATTATAATTATAATGTTTGTAGCATTTGATTAA
1 TTTTTAGTGTTAATTATAATTATAATGTTTGTAGCATTTGATTAA
33377021 AAAACTTTTT
Statistics
Matches: 119, Mismatches: 5, Indels: 8
0.90 0.04 0.06
Matches are distributed among these distances:
82 5 0.04
83 109 0.92
84 5 0.04
ACGTcount: A:0.32, C:0.02, G:0.12, T:0.54
Consensus pattern (83 bp):
TTTTTAGTGTTAATTATAATTATAATGTTTGTAGCATTTGATTAATTTTTAGTGTTAATTATAAA
TTTTAGTGTTAATTATAA
Found at i:33376995 original size:19 final size:19
Alignment explanation
Indices: 33376750--33376996 Score: 151
Period size: 19 Copynumber: 12.1 Consensus size: 19
33376740 TTACTTTCTT
*
33376750 TTTTTAGTGATAATTATAA
1 TTTTTAGTGTTAATTATAA
*
33376769 TTTTTGTAATGTTAATTATAA
1 -TTTT-TAGTGTTAATTATAA
* *
33376790 TTGTTGTAGCAT-TTCA-T-TAG
1 TT-TT-TAG--TGTTAATTATAA
33376810 TTTTTAGTGTTAATTATAA
1 TTTTTAGTGTTAATTATAA
* * *
33376829 TTATAATGTTTGTAGCATTTGATTAA
1 TTTTTA-GTGT-TA--A-TT-A-TAA
33376855 TTTTTAGTGTTAATTATAA
1 TTTTTAGTGTTAATTATAA
* *
33376874 ATTTTAGTTTTAATTATAA
1 TTTTTAGTGTTAATTATAA
33376893 TTTTTAGTGTTAAATT-TAA
1 TTTTTAGTGTT-AATTATAA
* * * *
33376912 TTATAATTGTTGTAGCACTTGATTAC
1 TTTTTAGTG-T-TA--A-TT-A-TAA
33376938 TTTTTAGTGTTAATTATAA
1 TTTTTAGTGTTAATTATAA
*
33376957 ATTTTAGTGTTAATTATAA
1 TTTTTAGTGTTAATTATAA
33376976 TTTTTAGTGTTAATTATAA
1 TTTTTAGTGTTAATTATAA
33376995 TT
1 TT
33376997 ATAATGTTTG
Statistics
Matches: 177, Mismatches: 27, Indels: 47
0.71 0.11 0.19
Matches are distributed among these distances:
16 1 0.01
17 3 0.02
18 4 0.02
19 86 0.49
20 21 0.12
21 26 0.15
22 6 0.03
23 4 0.02
24 6 0.03
25 5 0.03
26 15 0.08
ACGTcount: A:0.31, C:0.02, G:0.12, T:0.55
Consensus pattern (19 bp):
TTTTTAGTGTTAATTATAA
Found at i:33377128 original size:47 final size:48
Alignment explanation
Indices: 33377074--33377164 Score: 141
Period size: 48 Copynumber: 1.9 Consensus size: 48
33377064 TAGTGTTAAT
* *
33377074 TATAATTTTTTATC-AAACAA-TTAAGTAATATAAAAACATTGTTCAAA
1 TATAATTTTTAATCAAAAAAATTTAAGTAATAT-AAAACATTGTTCAAA
33377121 TATAATTTTTAATCAAAAAAATTTAAGTAATATAAAACATTGTT
1 TATAATTTTTAATCAAAAAAATTTAAGTAATATAAAACATTGTT
33377165 TGAAGACCAA
Statistics
Matches: 40, Mismatches: 2, Indels: 3
0.89 0.04 0.07
Matches are distributed among these distances:
47 13 0.32
48 16 0.40
49 11 0.28
ACGTcount: A:0.49, C:0.07, G:0.04, T:0.40
Consensus pattern (48 bp):
TATAATTTTTAATCAAAAAAATTTAAGTAATATAAAACATTGTTCAAA
Found at i:33377278 original size:17 final size:17
Alignment explanation
Indices: 33377256--33377294 Score: 60
Period size: 17 Copynumber: 2.3 Consensus size: 17
33377246 GTTTTAAATG
33377256 AAACATATAAAAAATAA
1 AAACATATAAAAAATAA
**
33377273 AAACATATCGAAAATAA
1 AAACATATAAAAAATAA
33377290 AAACA
1 AAACA
33377295 AATTGAAACT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.72, C:0.10, G:0.03, T:0.15
Consensus pattern (17 bp):
AAACATATAAAAAATAA
Found at i:33377302 original size:17 final size:17
Alignment explanation
Indices: 33377266--33377308 Score: 59
Period size: 17 Copynumber: 2.5 Consensus size: 17
33377256 AAACATATAA
*
33377266 AAAATAAAAACATATCG
1 AAAATAAAAACAAATCG
*
33377283 AAAATAAAAACAAATTG
1 AAAATAAAAACAAATCG
*
33377300 AAACTAAAA
1 AAAATAAAA
33377309 TATAACCAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 23 1.00
ACGTcount: A:0.70, C:0.09, G:0.05, T:0.16
Consensus pattern (17 bp):
AAAATAAAAACAAATCG
Found at i:33377587 original size:10 final size:10
Alignment explanation
Indices: 33377572--33377620 Score: 54
Period size: 10 Copynumber: 5.4 Consensus size: 10
33377562 GATACCATCA
33377572 AGAAACATAC
1 AGAAACATAC
33377582 AGAAACATAC
1 AGAAACATAC
33377592 --AAA-AT--
1 AGAAACATAC
33377597 AGAAACATAC
1 AGAAACATAC
*
33377607 AGAGACATAC
1 AGAAACATAC
33377617 AGAA
1 AGAA
33377621 TATAAACATA
Statistics
Matches: 32, Mismatches: 2, Indels: 10
0.73 0.05 0.23
Matches are distributed among these distances:
7 5 0.16
8 5 0.16
10 22 0.69
ACGTcount: A:0.61, C:0.16, G:0.12, T:0.10
Consensus pattern (10 bp):
AGAAACATAC
Found at i:33377591 original size:25 final size:26
Alignment explanation
Indices: 33377572--33377637 Score: 82
Period size: 25 Copynumber: 2.6 Consensus size: 26
33377562 GATACCATCA
33377572 AGAAACATACAGAAACATA-CAAAAT
1 AGAAACATACAGAAACATACCAAAAT
* *
33377597 AGAAACATACAGAGACATA-CAGAAT
1 AGAAACATACAGAAACATACCAAAAT
* *
33377622 ATAAACATACGGAAAC
1 AGAAACATACAGAAAC
33377638 GTAAATTGAA
Statistics
Matches: 36, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 36 1.00
ACGTcount: A:0.59, C:0.17, G:0.12, T:0.12
Consensus pattern (26 bp):
AGAAACATACAGAAACATACCAAAAT
Found at i:33377665 original size:15 final size:15
Alignment explanation
Indices: 33377645--33377677 Score: 66
Period size: 15 Copynumber: 2.2 Consensus size: 15
33377635 AACGTAAATT
33377645 GAATATAAACATACA
1 GAATATAAACATACA
33377660 GAATATAAACATACA
1 GAATATAAACATACA
33377675 GAA
1 GAA
33377678 ACTATTTCCA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.61, C:0.12, G:0.09, T:0.18
Consensus pattern (15 bp):
GAATATAAACATACA
Found at i:33379290 original size:12 final size:12
Alignment explanation
Indices: 33379273--33379325 Score: 74
Period size: 12 Copynumber: 4.5 Consensus size: 12
33379263 CAAAATAATT
33379273 ACAAAGATGCAA
1 ACAAAGATGCAA
33379285 ACAAAGATGCAA
1 ACAAAGATGCAA
*
33379297 ACAAACCAT-C-A
1 ACAAA-GATGCAA
33379308 ACAAAGATGCAA
1 ACAAAGATGCAA
33379320 ACAAAG
1 ACAAAG
33379326 CTGATGTATG
Statistics
Matches: 36, Mismatches: 2, Indels: 6
0.82 0.05 0.14
Matches are distributed among these distances:
10 2 0.06
11 7 0.19
12 25 0.69
13 2 0.06
ACGTcount: A:0.58, C:0.21, G:0.13, T:0.08
Consensus pattern (12 bp):
ACAAAGATGCAA
Found at i:33382010 original size:7 final size:7
Alignment explanation
Indices: 33381998--33382038 Score: 73
Period size: 7 Copynumber: 5.9 Consensus size: 7
33381988 TCCTAAATTC
33381998 TCAATCT
1 TCAATCT
33382005 TCAATCT
1 TCAATCT
33382012 TCAATCT
1 TCAATCT
33382019 TCAATCT
1 TCAATCT
*
33382026 TCAATAT
1 TCAATCT
33382033 TCAATC
1 TCAATC
33382039 CCCAATTTCA
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
7 32 1.00
ACGTcount: A:0.32, C:0.27, G:0.00, T:0.41
Consensus pattern (7 bp):
TCAATCT
Found at i:33382044 original size:21 final size:21
Alignment explanation
Indices: 33381999--33382049 Score: 68
Period size: 21 Copynumber: 2.5 Consensus size: 21
33381989 CCTAAATTCT
* **
33381999 CAATCTTCAATCTTCAATCTT
1 CAATCTTCAATATTCAATCCC
33382020 CAATCTTCAATATTCAATCCC
1 CAATCTTCAATATTCAATCCC
33382041 CAAT-TTCAA
1 CAATCTTCAA
33382050 ATTTTATATT
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
20 5 0.19
21 22 0.81
ACGTcount: A:0.33, C:0.29, G:0.00, T:0.37
Consensus pattern (21 bp):
CAATCTTCAATATTCAATCCC
Found at i:33382076 original size:21 final size:20
Alignment explanation
Indices: 33382041--33382095 Score: 74
Period size: 21 Copynumber: 2.6 Consensus size: 20
33382031 ATTCAATCCC
*
33382041 CAATTTCAAATTTTATATTTT
1 CAATTTCAAA-TTTAAATTTT
33382062 CAATCTTCAAATTTAAATTTT
1 CAAT-TTCAAATTTAAATTTT
*
33382083 CAATTTCGAATTT
1 CAATTTCAAATTT
33382096 TTAATCCTTA
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
20 8 0.26
21 17 0.55
22 6 0.19
ACGTcount: A:0.35, C:0.13, G:0.02, T:0.51
Consensus pattern (20 bp):
CAATTTCAAATTTAAATTTT
Found at i:33382157 original size:15 final size:15
Alignment explanation
Indices: 33382139--33382168 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
33382129 ATTTTTTTGA
33382139 ATTTTATTCTCTTCG
1 ATTTTATTCTCTTCG
*
33382154 ATTTTATTCTTTTCG
1 ATTTTATTCTCTTCG
33382169 TATAAATTTT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.13, C:0.17, G:0.07, T:0.63
Consensus pattern (15 bp):
ATTTTATTCTCTTCG
Found at i:33386980 original size:41 final size:41
Alignment explanation
Indices: 33386920--33387027 Score: 180
Period size: 41 Copynumber: 2.6 Consensus size: 41
33386910 AATTATACCT
**
33386920 TGAATTGCACATACGTGCCCCTGTTTGTACTTTGGTACCCC
1 TGAATTGCACATACGTGCCCCTGTTTGTACTTCCGTACCCC
*
33386961 TGAATTGCACATACATGCCCCTGTTTGTACTTCCGTACCCC
1 TGAATTGCACATACGTGCCCCTGTTTGTACTTCCGTACCCC
*
33387002 TGAATAGCACATACGTGCCCCTGTTT
1 TGAATTGCACATACGTGCCCCTGTTT
33387028 ACACTCTGAC
Statistics
Matches: 62, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
41 62 1.00
ACGTcount: A:0.19, C:0.31, G:0.18, T:0.32
Consensus pattern (41 bp):
TGAATTGCACATACGTGCCCCTGTTTGTACTTCCGTACCCC
Found at i:33386983 original size:21 final size:21
Alignment explanation
Indices: 33386920--33387024 Score: 79
Period size: 21 Copynumber: 5.1 Consensus size: 21
33386910 AATTATACCT
33386920 TGAATTGCACATACGTGCCCC
1 TGAATTGCACATACGTGCCCC
* * * ** *
33386941 TG-TTTGTACTTTGGTACCCC
1 TGAATTGCACATACGTGCCCC
*
33386961 TGAATTGCACATACATGCCCC
1 TGAATTGCACATACGTGCCCC
* * * * *
33386982 TG-TTTGTACTTCCGTACCCC
1 TGAATTGCACATACGTGCCCC
*
33387002 TGAATAGCACATACGTGCCCC
1 TGAATTGCACATACGTGCCCC
33387023 TG
1 TG
33387025 TTTACACTCT
Statistics
Matches: 57, Mismatches: 25, Indels: 4
0.66 0.29 0.05
Matches are distributed among these distances:
20 28 0.49
21 29 0.51
ACGTcount: A:0.20, C:0.31, G:0.18, T:0.30
Consensus pattern (21 bp):
TGAATTGCACATACGTGCCCC
Found at i:33387003 original size:20 final size:20
Alignment explanation
Indices: 33386931--33387003 Score: 56
Period size: 20 Copynumber: 3.6 Consensus size: 20
33386921 GAATTGCACA
*
33386931 TACGTGCCCCTGTTTGTACT
1 TACGTACCCCTGTTTGTACT
** * * *
33386951 TTGGTACCCCTGAATTGCACA
1 TACGTACCCCTG-TTTGTACT
* *
33386972 TACATGCCCCTGTTTGTACT
1 TACGTACCCCTGTTTGTACT
*
33386992 TCCGTACCCCTG
1 TACGTACCCCTG
33387004 AATAGCACAT
Statistics
Matches: 36, Mismatches: 16, Indels: 2
0.67 0.30 0.04
Matches are distributed among these distances:
20 23 0.64
21 13 0.36
ACGTcount: A:0.15, C:0.33, G:0.18, T:0.34
Consensus pattern (20 bp):
TACGTACCCCTGTTTGTACT
Found at i:33396725 original size:24 final size:26
Alignment explanation
Indices: 33396698--33396747 Score: 70
Period size: 26 Copynumber: 2.0 Consensus size: 26
33396688 CTTGATATAT
33396698 GTATAT-ATG-TATAT-GTATGTTTGA
1 GTATATAATGATATATAGTA-GTTTGA
33396722 GTATATAATGATATATAGTAGTTTGA
1 GTATATAATGATATATAGTAGTTTGA
33396748 CACATATGGG
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
24 6 0.26
25 3 0.13
26 11 0.48
27 3 0.13
ACGTcount: A:0.34, C:0.00, G:0.20, T:0.46
Consensus pattern (26 bp):
GTATATAATGATATATAGTAGTTTGA
Found at i:33398368 original size:25 final size:25
Alignment explanation
Indices: 33398331--33398597 Score: 92
Period size: 25 Copynumber: 10.7 Consensus size: 25
33398321 CATGACACTA
33398331 TCTGAGAAA-CCTTTGTGGCTAATCT
1 TCTGA-AAAGCCTTTGTGGCTAATCT
* *
33398356 TCTGAAAATCCTTTGTGGCTAATAT
1 TCTGAAAAGCCTTTGTGGCTAATCT
* *
33398381 TGTGAAAAGCCCTTGTTGTG-T-AT-T
1 TCTGAAAAGCCTTTG-TG-GCTAATCT
* *
33398405 ATCT-AGGAA-CCATTGTGGCTAATCT
1 -TCTGA-AAAGCCTTTGTGGCTAATCT
* * ** * *
33398430 TGTGAAAAACCTTTGTCACATATTAT
1 TCTGAAAAGCCTTTGTGGC-TAATCT
** * *
33398456 T-TGGGAAGCCTTTGTAGCTAATTT
1 TCTGAAAAGCCTTTGTGGCTAATCT
* * *
33398480 TTTGAAAAGCATTTGT-GCCATAT-T
1 TCTGAAAAGCCTTTGTGGCTA-ATCT
* * *
33398504 ATCTGATAATCCTTTGTGACTAATCT
1 -TCTGAAAAGCCTTTGTGGCTAATCT
* *
33398530 TGTGAAAAGCCCTTGTGGC-ATAT-T
1 TCTGAAAAGCCTTTGTGGCTA-ATCT
*
33398554 ATCTAGGAAA-CCTTTGTGGCTAATCT
1 -TCT-GAAAAGCCTTTGTGGCTAATCT
* *
33398580 T-TTAAGAATCCTTTGTGG
1 TCTGAA-AAGCCTTTGTGG
33398598 AGAAGTATAA
Statistics
Matches: 178, Mismatches: 41, Indels: 46
0.67 0.15 0.17
Matches are distributed among these distances:
22 1 0.01
23 4 0.02
24 30 0.17
25 125 0.70
26 17 0.10
27 1 0.01
ACGTcount: A:0.26, C:0.16, G:0.19, T:0.39
Consensus pattern (25 bp):
TCTGAAAAGCCTTTGTGGCTAATCT
Found at i:33398465 original size:74 final size:75
Alignment explanation
Indices: 33398329--33398580 Score: 185
Period size: 74 Copynumber: 3.4 Consensus size: 75
33398319 AACATGACAC
* * **
33398329 TATCTGAGAAACCTTTGTGGCTAATCTTCTGAAAATCCTTTGTGGCTAATATTGTGAAAAGCCCT
1 TATCTGAGAAACCATTGTGGCTAATCTTCTGAAAAACCTTTGTCACTAATATTGTGAAAAGCCCT
33398394 TGTTGTGTAT
66 TGTTGTGTAT
* * * ** *
33398404 TATCT-AGGAACCATTGTGGCTAATCTTGTGAAAAACCTTTGTCACATATTATT-TGGGAAGCCT
1 TATCTGAGAAACCATTGTGGCTAATCTTCTGAAAAACCTTTGTCAC-TAATATTGTGAAAAGCCC
* *
33398467 TTGTAGCT-AAT
65 TTGTTG-TGTAT
* * * * * * * *
33398478 TTTTTGA-AAAGCATT-TGTGCCATAT-TATCTGATAATCCTTTGTGACTAATCTTGTGAAAAGC
1 TATCTGAGAAACCATTGTG-GCTA-ATCT-TCTGAAAAACCTTTGTCACTAATATTGTGAAAAGC
* **
33398540 CCTTGTGGCATAT
63 CCTTGTTGTGTAT
*
33398553 TATCT-AGGAAACCTTTGTGGCTAATCTT
1 TATCTGA-GAAACCATTGTGGCTAATCTT
33398581 TTAAGAATCC
Statistics
Matches: 131, Mismatches: 34, Indels: 24
0.69 0.18 0.13
Matches are distributed among these distances:
73 2 0.02
74 67 0.51
75 50 0.38
76 10 0.08
77 2 0.02
ACGTcount: A:0.27, C:0.16, G:0.19, T:0.38
Consensus pattern (75 bp):
TATCTGAGAAACCATTGTGGCTAATCTTCTGAAAAACCTTTGTCACTAATATTGTGAAAAGCCCT
TGTTGTGTAT
Found at i:33398596 original size:50 final size:50
Alignment explanation
Indices: 33398365--33398597 Score: 222
Period size: 50 Copynumber: 4.7 Consensus size: 50
33398355 TTCTGAAAAT
* * * **
33398365 CCTTTGTGGCTAATATTGTGAAAAGCCCTTGTTGTGTATTATCTAGG-AA
1 CCTTTGTGGCTAATCTTGTGAAAAGCCTTTGTGGCATATTATCTAGGAAA
* * ** * * *
33398414 CCATTGTGGCTAATCTTGTGAAAAACCTTTGTCACATATTATTTGGGAAG
1 CCTTTGTGGCTAATCTTGTGAAAAGCCTTTGTGGCATATTATCTAGGAAA
* * * * *
33398464 CCTTTGTAGCTAATTTTTTGAAAAGCATTTGTGCCATATTATCT--GATAA
1 CCTTTGTGGCTAATCTTGTGAAAAGCCTTTGTGGCATATTATCTAGGA-AA
* *
33398513 TCCTTTGTGACTAATCTTGTGAAAAGCCCTTGTGGCATATTATCTAGGAAA
1 -CCTTTGTGGCTAATCTTGTGAAAAGCCTTTGTGGCATATTATCTAGGAAA
* *
33398564 CCTTTGTGGCTAATCTT-TTAAGAATCCTTTGTGG
1 CCTTTGTGGCTAATCTTGTGAA-AAGCCTTTGTGG
33398598 AGAAGTATAA
Statistics
Matches: 146, Mismatches: 32, Indels: 11
0.77 0.17 0.06
Matches are distributed among these distances:
48 2 0.01
49 41 0.28
50 99 0.68
51 2 0.01
52 2 0.01
ACGTcount: A:0.26, C:0.16, G:0.19, T:0.39
Consensus pattern (50 bp):
CCTTTGTGGCTAATCTTGTGAAAAGCCTTTGTGGCATATTATCTAGGAAA
Found at i:33403980 original size:25 final size:25
Alignment explanation
Indices: 33403950--33404099 Score: 76
Period size: 25 Copynumber: 5.9 Consensus size: 25
33403940 CTTGGAAGTT
33403950 TTTGTGGCTAATCTTGTGAAAAGCC
1 TTTGTGGCTAATCTTGTGAAAAGCC
*
33403975 TTTGTGGCGT-AT-TATCT-AAGAAGCC
1 TTTGTGGC-TAATCT-TGTGAA-AAGCC
* * * **
33404000 TGTATGACTAATCTTGTGAAAAATAC
1 TTTGTGGCTAATCTTGTG-AAAAGCC
* *
33404026 -TTGTGGTGTATTATCTTGTGAAAAGAC
1 TTTGTGG-CTA--ATCTTGTGAAAAGCC
* * **
33404053 TTTGTGGCGTATTATT-TGGGAAGCC
1 TTTGTGGC-TAATCTTGTGAAAAGCC
*
33404078 TTTGTGGCTACTCTTGTGAAAA
1 TTTGTGGCTAATCTTGTGAAAA
33404100 TCTCTAGTGG
Statistics
Matches: 90, Mismatches: 22, Indels: 26
0.65 0.16 0.19
Matches are distributed among these distances:
24 9 0.10
25 47 0.52
26 10 0.11
27 8 0.09
28 16 0.18
ACGTcount: A:0.25, C:0.13, G:0.24, T:0.38
Consensus pattern (25 bp):
TTTGTGGCTAATCTTGTGAAAAGCC
Found at i:33404057 original size:28 final size:28
Alignment explanation
Indices: 33404010--33404067 Score: 82
Period size: 28 Copynumber: 2.1 Consensus size: 28
33404000 TGTATGACTA
* *
33404010 ATCTTGTGAAAAATACTTGTGGTGTATT
1 ATCTTGTGAAAAAGACTTGTGGCGTATT
33404038 ATCTTGTG-AAAAGACTTTGTGGCGTATT
1 ATCTTGTGAAAAAGAC-TTGTGGCGTATT
33404066 AT
1 AT
33404068 TTGGGAAGCC
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
27 6 0.22
28 21 0.78
ACGTcount: A:0.28, C:0.09, G:0.22, T:0.41
Consensus pattern (28 bp):
ATCTTGTGAAAAAGACTTGTGGCGTATT
Found at i:33404093 original size:78 final size:78
Alignment explanation
Indices: 33403960--33404124 Score: 210
Period size: 78 Copynumber: 2.1 Consensus size: 78
33403950 TTTGTGGCTA
*
33403960 ATCTTGTGAAAAGCCTTTGTGGCGTATTATCTAAGAAGCCTGTATGACTAATCTTGTGAAAAATA
1 ATCTTGTGAAAAGACTTTGTGGCGTATTATCTAAGAAGCCTGTATGACTAATCTTGTG-AAAAT-
*
33404025 CT-T-GTGGTGTATT
64 CTCTAGTGGCGTATT
* ** * * * *
33404038 ATCTTGTGAAAAGACTTTGTGGCGTATTATTTGGGAAGCCTTTGTGGCTACTCTTGTGAAAATCT
1 ATCTTGTGAAAAGACTTTGTGGCGTATTATCTAAGAAGCCTGTATGACTAATCTTGTGAAAATCT
33404103 CTAGTGGCGTATT
66 CTAGTGGCGTATT
33404116 ATC-TGTGAA
1 ATCTTGTGAA
33404125 GCCTTTGTCG
Statistics
Matches: 76, Mismatches: 9, Indels: 5
0.84 0.10 0.06
Matches are distributed among these distances:
76 2 0.03
77 12 0.16
78 62 0.82
ACGTcount: A:0.25, C:0.13, G:0.24, T:0.38
Consensus pattern (78 bp):
ATCTTGTGAAAAGACTTTGTGGCGTATTATCTAAGAAGCCTGTATGACTAATCTTGTGAAAATCT
CTAGTGGCGTATT
Found at i:33409406 original size:11 final size:13
Alignment explanation
Indices: 33409390--33409422 Score: 52
Period size: 13 Copynumber: 2.7 Consensus size: 13
33409380 ACTTCACAGA
33409390 AAAATTTCG-T-G
1 AAAATTTCGTTCG
33409401 AAAATTTCGTTCG
1 AAAATTTCGTTCG
33409414 AAAATTTCG
1 AAAATTTCG
33409423 ACGTTTGGGC
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
11 9 0.45
12 1 0.05
13 10 0.50
ACGTcount: A:0.36, C:0.12, G:0.15, T:0.36
Consensus pattern (13 bp):
AAAATTTCGTTCG
Found at i:33410810 original size:102 final size:100
Alignment explanation
Indices: 33410624--33410964 Score: 409
Period size: 102 Copynumber: 3.4 Consensus size: 100
33410614 CAATGAACAT
* *
33410624 GTGTGTAGTACTGTGTGAAGGCTACTACGTGTATCGATAAATAATGGTCACATGTGTAGTACTAA
1 GTGTGTAGTACTATGTGAAGGCTACTACGTGAATCGATAAATAATGGTCACATGTGTAGTACTAA
* * *
33410689 GTGAAGGCAACAATGTGTACCGAGAAGCTTTGGTCAC
66 GTGAAGGCTAC-TTCTGTACCGA-AAGCTTTGGTCAC
*
33410726 GTGTGTAGTACTATGTGAAGGCTACTACGTGAATCGATAAATGATGGTCACATGTGTAGTACTAA
1 GTGTGTAGTACTATGTGAAGGCTACTACGTGAATCGATAAATAATGGTCACATGTGTAGTACTAA
*
33410791 GTGAAGGCTACTGTCTGTACCGAAAAGTTTTGGTCAC
66 GTGAAGGCTACT-TCTGTACCG-AAAGCTTTGGTCAC
** * * * *
33410828 GTGTGTAGTACTATGTGAAGGCTACTATATGAACCG-TAAA-ACTTGATCACGTGTGTAGTACTA
1 GTGTGTAGTACTATGTGAAGGCTACTACGTGAATCGATAAATA-ATGGTCACATGTGTAGTACTA
* * * * *
33410891 TGTGAAGGCTACTACATGAACCGTAAAAC-TTGATCAC
65 AGTGAAGGCTACTTC-TGTACCG-AAAGCTTTGGTCAC
* * *
33410928 GTGTGTACTACTACGTGAAGGCTACTACGTGTATCGA
1 GTGTGTAGTACTATGTGAAGGCTACTACGTGAATCGA
33410965 ATGATAAAAG
Statistics
Matches: 207, Mismatches: 27, Indels: 11
0.84 0.11 0.04
Matches are distributed among these distances:
100 38 0.18
101 43 0.21
102 125 0.60
103 1 0.00
ACGTcount: A:0.29, C:0.16, G:0.26, T:0.29
Consensus pattern (100 bp):
GTGTGTAGTACTATGTGAAGGCTACTACGTGAATCGATAAATAATGGTCACATGTGTAGTACTAA
GTGAAGGCTACTTCTGTACCGAAAGCTTTGGTCAC
Found at i:33410891 original size:50 final size:50
Alignment explanation
Indices: 33410624--33410958 Score: 327
Period size: 51 Copynumber: 6.6 Consensus size: 50
33410614 CAATGAACAT
* * * *
33410624 GTGTGTAGTACTGTGTGAAGGCTACTACGTGTATCGATAAATA-ATGGTCAC
1 GTGTGTAGTACTATGTGAAGGCTACTACGTGAACCG-TAAA-ACTTGGTCAC
* * * * * * *
33410675 ATGTGTAGTACTAAGTGAAGGCAACAATGTGTACCG-AGAAGCTTTGGTCAC
1 GTGTGTAGTACTATGTGAAGGCTACTACGTGAACCGTA-AAAC-TTGGTCAC
* ***
33410726 GTGTGTAGTACTATGTGAAGGCTACTACGTGAATCGATAAATGATGGTCAC
1 GTGTGTAGTACTATGTGAAGGCTACTACGTGAACCG-TAAAACTTGGTCAC
* * * * *
33410777 ATGTGTAGTACTAAGTGAAGGCTACTGTC-TGTACCG-AAAAGTTTTGGTCAC
1 GTGTGTAGTACTATGTGAAGGCTACT-ACGTGAACCGTAAAA--CTTGGTCAC
** *
33410828 GTGTGTAGTACTATGTGAAGGCTACTATATGAACCGTAAAACTTGATCAC
1 GTGTGTAGTACTATGTGAAGGCTACTACGTGAACCGTAAAACTTGGTCAC
* *
33410878 GTGTGTAGTACTATGTGAAGGCTACTACATGAACCGTAAAACTTGATCAC
1 GTGTGTAGTACTATGTGAAGGCTACTACGTGAACCGTAAAACTTGGTCAC
* *
33410928 GTGTGTACTACTACGTGAAGGCTACTACGTG
1 GTGTGTAGTACTATGTGAAGGCTACTACGTG
33410959 TATCGAATGA
Statistics
Matches: 236, Mismatches: 38, Indels: 21
0.80 0.13 0.07
Matches are distributed among these distances:
49 4 0.02
50 86 0.36
51 138 0.58
52 7 0.03
53 1 0.00
ACGTcount: A:0.29, C:0.16, G:0.26, T:0.29
Consensus pattern (50 bp):
GTGTGTAGTACTATGTGAAGGCTACTACGTGAACCGTAAAACTTGGTCAC
Found at i:33418585 original size:50 final size:50
Alignment explanation
Indices: 33418412--33418645 Score: 281
Period size: 50 Copynumber: 4.6 Consensus size: 50
33418402 TATCGATGAA
* * * *** *
33418412 CACGTGTGTAGTATTGTGTGAAGGCTACTACGTGAATCGATAAATGATGGT
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAACCG-TAAAACTTGAT
* * * * *
33418463 CACATGTGTAGTACTAAGTGAAGGCTACTATGTGTACCG-AAAAGCTTTGGT
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAACCGTAAAA-C-TTGAT
* *
33418514 CACGTGTGTAGTGCTATGTGAAGGCTACTATGTGAACCGTAAAACTTGAT
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAACCGTAAAACTTGAT
*
33418564 CACTTGTGTAGTACTATGTGAAGGCTACTACGTGAACCGTAAAACTTGAT
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAACCGTAAAACTTGAT
* *
33418614 CACGTGTGTACTACTATGTGAAAGCTACTACG
1 CACGTGTGTAGTACTATGTGAAGGCTACTACG
33418646 CGTATCGAAT
Statistics
Matches: 159, Mismatches: 21, Indels: 7
0.85 0.11 0.04
Matches are distributed among these distances:
49 3 0.02
50 80 0.50
51 72 0.45
52 4 0.03
ACGTcount: A:0.29, C:0.16, G:0.25, T:0.30
Consensus pattern (50 bp):
CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAACCGTAAAACTTGAT
Found at i:33432821 original size:14 final size:14
Alignment explanation
Indices: 33432802--33432832 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
33432792 ATGAAGGAAG
33432802 ATGTAATGGTTACT
1 ATGTAATGGTTACT
*
33432816 ATGTAATGGTTATT
1 ATGTAATGGTTACT
33432830 ATG
1 ATG
33432833 AGATACAAGA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.29, C:0.03, G:0.23, T:0.45
Consensus pattern (14 bp):
ATGTAATGGTTACT
Found at i:33433238 original size:4 final size:4
Alignment explanation
Indices: 33433229--33433262 Score: 68
Period size: 4 Copynumber: 8.5 Consensus size: 4
33433219 ATGACTTGGA
33433229 AATT AATT AATT AATT AATT AATT AATT AATT AA
1 AATT AATT AATT AATT AATT AATT AATT AATT AA
33433263 AGTTTGAAAA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 30 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (4 bp):
AATT
Found at i:33433410 original size:17 final size:16
Alignment explanation
Indices: 33433388--33433432 Score: 58
Period size: 16 Copynumber: 2.9 Consensus size: 16
33433378 TGAAATTGGG
*
33433388 TTGAGAAAATTATTTAA
1 TTGAG-AAATTAATTAA
33433405 TTGAGAAATTAATTAA
1 TTGAGAAATTAATTAA
33433421 TT-A-AAATTAATT
1 TTGAGAAATTAATT
33433433 TATGATATTT
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
14 9 0.33
15 1 0.04
16 12 0.44
17 5 0.19
ACGTcount: A:0.49, C:0.00, G:0.09, T:0.42
Consensus pattern (16 bp):
TTGAGAAATTAATTAA
Found at i:33437511 original size:13 final size:14
Alignment explanation
Indices: 33437489--33437521 Score: 50
Period size: 13 Copynumber: 2.4 Consensus size: 14
33437479 TCCACTAAAC
*
33437489 AAGTTTAGTT-ATT
1 AAGTTAAGTTAATT
33437502 AAGTTAAGTTAATT
1 AAGTTAAGTTAATT
33437516 AAGTTA
1 AAGTTA
33437522 TGTTTAATTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 9 0.50
14 9 0.50
ACGTcount: A:0.39, C:0.00, G:0.15, T:0.45
Consensus pattern (14 bp):
AAGTTAAGTTAATT
Found at i:33440088 original size:17 final size:17
Alignment explanation
Indices: 33440066--33440100 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
33440056 ACATTTTGCA
33440066 GCTTAGACCTGAGATCG
1 GCTTAGACCTGAGATCG
33440083 GCTTAGACCTGAGATCG
1 GCTTAGACCTGAGATCG
33440100 G
1 G
33440101 GTTGGACGAG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.23, C:0.23, G:0.31, T:0.23
Consensus pattern (17 bp):
GCTTAGACCTGAGATCG
Found at i:33440425 original size:24 final size:23
Alignment explanation
Indices: 33440389--33440436 Score: 87
Period size: 24 Copynumber: 2.0 Consensus size: 23
33440379 ATAAGATATA
33440389 ATATATATATATAAACTCTTGGC
1 ATATATATATATAAACTCTTGGC
33440412 ATATAATATATATAAACTCTTGGC
1 ATAT-ATATATATAAACTCTTGGC
33440436 A
1 A
33440437 GCTCGAAATC
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
23 4 0.17
24 20 0.83
ACGTcount: A:0.42, C:0.12, G:0.08, T:0.38
Consensus pattern (23 bp):
ATATATATATATAAACTCTTGGC
Found at i:33451008 original size:29 final size:32
Alignment explanation
Indices: 33450955--33451027 Score: 89
Period size: 32 Copynumber: 2.3 Consensus size: 32
33450945 TACGCTGCCA
* *
33450955 TCGTGTCACTGTCGTGCTACCACTG-C-ATCG
1 TCGTGTCACCGTCGTACTACCACTGCCTATCG
*
33450985 TCGTGTCACCGTCG-ACTACCACTGCCCTGTCG
1 TCGTGTCACCGTCGTACTACCACTG-CCTATCG
33451017 TCGTGTCACCG
1 TCGTGTCACCG
33451028 CCATGCTGCC
Statistics
Matches: 37, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
29 9 0.24
30 13 0.35
31 1 0.03
32 14 0.38
ACGTcount: A:0.12, C:0.37, G:0.23, T:0.27
Consensus pattern (32 bp):
TCGTGTCACCGTCGTACTACCACTGCCTATCG
Found at i:33451860 original size:20 final size:20
Alignment explanation
Indices: 33451835--33451898 Score: 65
Period size: 20 Copynumber: 3.1 Consensus size: 20
33451825 TTGTTCGCAT
*
33451835 AATTCTAGTAGTTTATCTGC
1 AATTCTGGTAGTTTATCTGC
* ***
33451855 AATTCTGGTGGTTTATAAAC
1 AATTCTGGTAGTTTATCTGC
33451875 ATATTTCTGGTAGTTTATCTGC
1 A-A-TTCTGGTAGTTTATCTGC
33451897 AA
1 AA
33451899 ATATTTGTGG
Statistics
Matches: 33, Mismatches: 9, Indels: 3
0.73 0.20 0.07
Matches are distributed among these distances:
20 16 0.48
21 2 0.06
22 15 0.45
ACGTcount: A:0.27, C:0.12, G:0.17, T:0.44
Consensus pattern (20 bp):
AATTCTGGTAGTTTATCTGC
Found at i:33461020 original size:11 final size:11
Alignment explanation
Indices: 33461004--33461029 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
33460994 ACTTGATTCT
33461004 TTCTTATTTCA
1 TTCTTATTTCA
33461015 TTCTTATTTCA
1 TTCTTATTTCA
33461026 TTCT
1 TTCT
33461030 CTGTTTTTTG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.15, C:0.19, G:0.00, T:0.65
Consensus pattern (11 bp):
TTCTTATTTCA
Found at i:33465042 original size:61 final size:61
Alignment explanation
Indices: 33464947--33465069 Score: 246
Period size: 61 Copynumber: 2.0 Consensus size: 61
33464937 TTCTTACATG
33464947 ATTGATGCCCCACCGATGATGGGCACTAACTACTTCCAAGTTCCTGAGTGCCTTCGAAGGA
1 ATTGATGCCCCACCGATGATGGGCACTAACTACTTCCAAGTTCCTGAGTGCCTTCGAAGGA
33465008 ATTGATGCCCCACCGATGATGGGCACTAACTACTTCCAAGTTCCTGAGTGCCTTCGAAGGA
1 ATTGATGCCCCACCGATGATGGGCACTAACTACTTCCAAGTTCCTGAGTGCCTTCGAAGGA
33465069 A
1 A
33465070 CTGGCCCTCT
Statistics
Matches: 62, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
61 62 1.00
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.24
Consensus pattern (61 bp):
ATTGATGCCCCACCGATGATGGGCACTAACTACTTCCAAGTTCCTGAGTGCCTTCGAAGGA
Found at i:33465917 original size:401 final size:401
Alignment explanation
Indices: 33465169--33465963 Score: 1446
Period size: 401 Copynumber: 2.0 Consensus size: 401
33465159 TTTAGAACGC
*
33465169 GATGAAGATCTTGCACCAGTAACAGATGAATTAACCTGACCTGAAGATATAATTATCTGATTTCT
1 GATGAAGATCTTGCACCAGTAACAGATGAATTAACCTGACCTGAAGATATAATTATCCGATTTCT
* * *
33465234 TGGACGCAGATTACAGATGCGATAAAATTATGAAGAAGGCTCTCTAATGCACCCCAATAAAACAC
66 TGGACACAGATTACAAATGCGATAAAATTATGAAGAAGGCCCTCTAATGCACCCCAATAAAACAC
* *
33465299 GCACCAATTCATTATCCGAGCTATAGGGCCAAGCTTAAAGGATAGATGGCGCAAAAGAATCAATT
131 GCACCAATTCATTATCCGAGCTATAGGGCCAAGCTTAAAGGACAGATGGCACAAAAGAATCAATT
* * * *
33465364 CTTGGGCCGGTGGAAAAGGTTAGATTGTAACCATTGGGACTTCGGTTCTGTAAACAATGCTGTAA
196 CTTAGGCCGGTGGAAAAGGTTAGACTATAACCATTGGGACTTCGGTTCTGTAAACAATGCTGGAA
*
33465429 CACATTCTTGATTGAAACCAACTCTACCAAATCAAGGATATGACCACCTTTTAGCCTCTGATATT
261 CACATTCCTGATTGAAACCAACTCTACCAAATCAAGGATATGACCACCTTTTAGCCTCTGATATT
*
33465494 ATTTTTTAGCCTCATCATTGTCCTCTAGCTGGCATGAGCCATAGACACTTTCTTGAGGAAGGGGC
326 ATTTTTTAGCCTCATAATTGTCCTCTAGCTGGCATGAGCCATAGACACTTTCTTGAGGAAGGGGC
33465559 CATTAACTACA
391 CATTAACTACA
33465570 GATGAAGATCTTGCACCAGTAACAGATGAATTAACCTGACCTGAAGATATAATTATCCGATTTCT
1 GATGAAGATCTTGCACCAGTAACAGATGAATTAACCTGACCTGAAGATATAATTATCCGATTTCT
*
33465635 TGGACACAGATTACAAATGCGATAAAATTATGAAGAAGGCCCTCTAATGCACCCCAATAAAACAT
66 TGGACACAGATTACAAATGCGATAAAATTATGAAGAAGGCCCTCTAATGCACCCCAATAAAACAC
* *
33465700 GCACCAATTTATTATCCGAGTTATAGGGCCAAGCTTAAAGGACAGATGGCACAAAAGAATCAATT
131 GCACCAATTCATTATCCGAGCTATAGGGCCAAGCTTAAAGGACAGATGGCACAAAAGAATCAATT
33465765 CTTAGGCCGGTGGAAAAGGTTAGACTATAACCATTGGGACTTCGGTTCTGTAAACAATGCTGGAA
196 CTTAGGCCGGTGGAAAAGGTTAGACTATAACCATTGGGACTTCGGTTCTGTAAACAATGCTGGAA
33465830 CACATTCCTGATTGAAACCAACTCTACCAAATCAAGGATATGACCACCTTTTAGCCTCTGATATT
261 CACATTCCTGATTGAAACCAACTCTACCAAATCAAGGATATGACCACCTTTTAGCCTCTGATATT
*
33465895 ATTTTTTAGCCTCATAATTGTCCTCTAGCTGGCATGTGCCATAGACACTTTCTTGAGGAAGGGGC
326 ATTTTTTAGCCTCATAATTGTCCTCTAGCTGGCATGAGCCATAGACACTTTCTTGAGGAAGGGGC
33465960 CATT
391 CATT
33465964 GACTGGGGAA
Statistics
Matches: 378, Mismatches: 16, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
401 378 1.00
ACGTcount: A:0.33, C:0.21, G:0.19, T:0.27
Consensus pattern (401 bp):
GATGAAGATCTTGCACCAGTAACAGATGAATTAACCTGACCTGAAGATATAATTATCCGATTTCT
TGGACACAGATTACAAATGCGATAAAATTATGAAGAAGGCCCTCTAATGCACCCCAATAAAACAC
GCACCAATTCATTATCCGAGCTATAGGGCCAAGCTTAAAGGACAGATGGCACAAAAGAATCAATT
CTTAGGCCGGTGGAAAAGGTTAGACTATAACCATTGGGACTTCGGTTCTGTAAACAATGCTGGAA
CACATTCCTGATTGAAACCAACTCTACCAAATCAAGGATATGACCACCTTTTAGCCTCTGATATT
ATTTTTTAGCCTCATAATTGTCCTCTAGCTGGCATGAGCCATAGACACTTTCTTGAGGAAGGGGC
CATTAACTACA
Found at i:33468649 original size:138 final size:138
Alignment explanation
Indices: 33468473--33468790 Score: 492
Period size: 138 Copynumber: 2.3 Consensus size: 138
33468463 ATTTTGATAA
*
33468473 ATACAATTAATATTTTTTATGAATCAAATTCACATATTAATTACATTCTTCCCAAACGAATATTA
1 ATACAATTAATATTTTTTATGAATCAAATTCACATATTAATTACATTCTTCCCAAAAGAATATTA
*
33468538 ATTTCCATGTCTTTTATATTTTGACCGAAATTAATTAATATAACTGTTTATATTAATAAATTCAG
66 ATTTCCATGTCTTTTATATTTTGACCGAAATTAATTAATATAACTGCTTATATTAATAAATTCAG
33468603 TAAAATAT
131 TAAAATAT
* * *** * * *
33468611 ATATAATTAACATTTTTTATGAATTGGATTCATATATTAATTATATTCTTTCCAAAAGAATATTA
1 ATACAATTAATATTTTTTATGAATCAAATTCACATATTAATTACATTCTTCCCAAAAGAATATTA
* *
33468676 ATTTCTATGTCTTTTATATTTTGACCGAAATTATTTAATATAACTGCTTATATTAATAAATTCAG
66 ATTTCCATGTCTTTTATATTTTGACCGAAATTAATTAATATAACTGCTTATATTAATAAATTCAG
33468741 TAAAATAT
131 TAAAATAT
* * * *
33468749 ATACAATTAATATTTTGTATGACTCAAAATCATATATTAATT
1 ATACAATTAATATTTTTTATGAATCAAATTCACATATTAATT
33468791 TTATCTATGT
Statistics
Matches: 160, Mismatches: 20, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
138 160 1.00
ACGTcount: A:0.40, C:0.10, G:0.06, T:0.44
Consensus pattern (138 bp):
ATACAATTAATATTTTTTATGAATCAAATTCACATATTAATTACATTCTTCCCAAAAGAATATTA
ATTTCCATGTCTTTTATATTTTGACCGAAATTAATTAATATAACTGCTTATATTAATAAATTCAG
TAAAATAT
Found at i:33468866 original size:17 final size:17
Alignment explanation
Indices: 33468846--33468878 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
33468836 TTTAACTATC
33468846 AAATTAAATT-AATTCAA
1 AAATT-AATTCAATTCAA
33468863 AAATTAATTCAATTCA
1 AAATTAATTCAATTCA
33468879 TGTGACAACT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 4 0.27
17 11 0.73
ACGTcount: A:0.55, C:0.09, G:0.00, T:0.36
Consensus pattern (17 bp):
AAATTAATTCAATTCAA
Found at i:33470795 original size:64 final size:64
Alignment explanation
Indices: 33470716--33470843 Score: 247
Period size: 64 Copynumber: 2.0 Consensus size: 64
33470706 CGAGGCAAGG
*
33470716 TTGTCGATAGTTTTGGGAATTGACTGTTGTAAGTAATTCAGATTAAGTGACTGAGATTGAGTTT
1 TTGTCGATAGTTTTGGGAATTGACTGTTGTAAGTAATTCAGATTAACTGACTGAGATTGAGTTT
33470780 TTGTCGATAGTTTTGGGAATTGACTGTTGTAAGTAATTCAGATTAACTGACTGAGATTGAGTTT
1 TTGTCGATAGTTTTGGGAATTGACTGTTGTAAGTAATTCAGATTAACTGACTGAGATTGAGTTT
33470844 CCAATTTTCG
Statistics
Matches: 63, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
64 63 1.00
ACGTcount: A:0.27, C:0.07, G:0.26, T:0.41
Consensus pattern (64 bp):
TTGTCGATAGTTTTGGGAATTGACTGTTGTAAGTAATTCAGATTAACTGACTGAGATTGAGTTT
Found at i:33477916 original size:137 final size:139
Alignment explanation
Indices: 33477756--33478031 Score: 416
Period size: 137 Copynumber: 2.0 Consensus size: 139
33477746 TGAATACAAC
*
33477756 AATATTTTGTGTGAATCAAATTCATATACTAATTATACTC-TTCTCAAAAGAATATTAATTTCCA
1 AATATTTTGTATGAATCAAATTCATATACTAATTATACTCTTTC-CAAAAGAATATTAATTTCCA
*
33477820 TG-TCTTTTATATTTTGAA-CGAAATT-ATTAATATAACTGTTTATATTAATAAATTTAGTAAAA
65 TGTTCTTTTATATTTT-AACCGAAATTAATTAATATAACTGTTTATATTAATAAATTCAGTAAAA
33477882 TATATACAATT
129 TATATACAATT
* *
33477893 AATATTTTGTATGAATCAAATTCATATATTAATTATATTCTTTCCAAAAGAATATTAATTTCCAT
1 AATATTTTGTATGAATCAAATTCATATACTAATTATACTCTTTCCAAAAGAATATTAATTTCCAT
* ** * *
33477958 GTTTTTTTATATTTTAACCGAAATTAATTGCTATAATTGTTTATATTAATAAATTCGGTAAAATA
66 GTTCTTTTATATTTTAACCGAAATTAATTAATATAACTGTTTATATTAATAAATTCAGTAAAATA
*
33478023 TGTACAATT
131 TATACAATT
33478032 TTTATTAATA
Statistics
Matches: 125, Mismatches: 10, Indels: 6
0.89 0.07 0.04
Matches are distributed among these distances:
137 61 0.49
138 22 0.18
139 42 0.34
ACGTcount: A:0.39, C:0.09, G:0.07, T:0.45
Consensus pattern (139 bp):
AATATTTTGTATGAATCAAATTCATATACTAATTATACTCTTTCCAAAAGAATATTAATTTCCAT
GTTCTTTTATATTTTAACCGAAATTAATTAATATAACTGTTTATATTAATAAATTCAGTAAAATA
TATACAATT
Found at i:33478689 original size:22 final size:24
Alignment explanation
Indices: 33478637--33478690 Score: 60
Period size: 22 Copynumber: 2.3 Consensus size: 24
33478627 TTTTTTATGA
33478637 TTAAATTATTGTTATTAAATATGCT
1 TTAAATTATTGTTATT-AATATGCT
*
33478662 TGAAATTATT-TTATT-ATAT-CTT
1 TTAAATTATTGTTATTAATATGC-T
33478684 TTAAATT
1 TTAAATT
33478691 GAATTTATAA
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
21 1 0.04
22 11 0.42
24 5 0.19
25 9 0.35
ACGTcount: A:0.35, C:0.04, G:0.06, T:0.56
Consensus pattern (24 bp):
TTAAATTATTGTTATTAATATGCT
Found at i:33481192 original size:18 final size:18
Alignment explanation
Indices: 33481151--33481192 Score: 50
Period size: 18 Copynumber: 2.3 Consensus size: 18
33481141 AAGAGTTGAG
33481151 AGTTAGTGGATTAGTGGA
1 AGTTAGTGGATTAGTGGA
*
33481169 ATTTAGTGGA-TAGTAGGA
1 AGTTAGTGGATTAGT-GGA
*
33481187 GGTTAG
1 AGTTAG
33481193 GATAGATATT
Statistics
Matches: 20, Mismatches: 3, Indels: 2
0.80 0.12 0.08
Matches are distributed among these distances:
17 4 0.20
18 16 0.80
ACGTcount: A:0.29, C:0.00, G:0.38, T:0.33
Consensus pattern (18 bp):
AGTTAGTGGATTAGTGGA
Found at i:33493223 original size:17 final size:17
Alignment explanation
Indices: 33493203--33493235 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
33493193 TTTAACTATC
33493203 AAATTAAATTAATTCAA
1 AAATTAAATTAATTCAA
*
33493220 AAATTAATTTAATTCA
1 AAATTAAATTAATTCA
33493236 TGTGACAACT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.55, C:0.06, G:0.00, T:0.39
Consensus pattern (17 bp):
AAATTAAATTAATTCAA
Found at i:33494484 original size:50 final size:49
Alignment explanation
Indices: 33494413--33494507 Score: 118
Period size: 50 Copynumber: 1.9 Consensus size: 49
33494403 AAAACCGTAG
* *
33494413 CTAGGGGCTATGACATCATATGGAAAGACCAGATCATGTAAGACCCTAC
1 CTAGGGGCTATGACATCATATGGAAACACCAGATCATATAAGACCCTAC
* * * * *
33494462 CTAGTGGGCTATGGCGTTATATGGAAACACCATATCGTATAAGACC
1 CTAG-GGGCTATGACATCATATGGAAACACCAGATCATATAAGACC
33494508 ATAATTGGTG
Statistics
Matches: 38, Mismatches: 7, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
49 4 0.11
50 34 0.89
ACGTcount: A:0.33, C:0.21, G:0.23, T:0.23
Consensus pattern (49 bp):
CTAGGGGCTATGACATCATATGGAAACACCAGATCATATAAGACCCTAC
Found at i:33494741 original size:58 final size:56
Alignment explanation
Indices: 33494674--33494788 Score: 176
Period size: 58 Copynumber: 2.0 Consensus size: 56
33494664 GGTGAATCTA
* * *
33494674 TGAAGGAAAGCCTTCGTGGCGAGTACTGAAAGAAGAGGATGCCTTTGTGGCAAACATC
1 TGAAGGAAAGCCTTCGTGGCAAGTACTGAAAGAAAAGAATGCCTTTGTGG-AAA-ATC
*
33494732 TGAAGGAAAGCCTTCGTGGCAAGTTCTGAAAGAAAAGAATGCCTTTGTGGAAAATC
1 TGAAGGAAAGCCTTCGTGGCAAGTACTGAAAGAAAAGAATGCCTTTGTGGAAAATC
33494788 T
1 T
33494789 CTAAAAGGAA
Statistics
Matches: 53, Mismatches: 4, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
56 4 0.08
57 3 0.06
58 46 0.87
ACGTcount: A:0.33, C:0.16, G:0.29, T:0.23
Consensus pattern (56 bp):
TGAAGGAAAGCCTTCGTGGCAAGTACTGAAAGAAAAGAATGCCTTTGTGGAAAATC
Found at i:33494768 original size:27 final size:27
Alignment explanation
Indices: 33494680--33494768 Score: 72
Period size: 27 Copynumber: 3.1 Consensus size: 27
33494670 TCTATGAAGG
* *
33494680 AAAGCCTTCGTGGCGAGTACTGAAAGA
1 AAAGCCTTCGTGGCAAGTTCTGAAAGA
* ** *
33494707 AGAGGATGCCTTTGTGGCAAACATCTG-AAGG
1 A-A--A-GCCTTCGTGGC-AAGTTCTGAAAGA
33494738 AAAGCCTTCGTGGCAAGTTCTGAAAGA
1 AAAGCCTTCGTGGCAAGTTCTGAAAGA
33494765 AAAG
1 AAAG
33494769 AATGCCTTTG
Statistics
Matches: 46, Mismatches: 10, Indels: 12
0.68 0.15 0.18
Matches are distributed among these distances:
26 6 0.13
27 18 0.39
28 2 0.04
30 2 0.04
31 14 0.30
32 4 0.09
ACGTcount: A:0.34, C:0.17, G:0.29, T:0.20
Consensus pattern (27 bp):
AAAGCCTTCGTGGCAAGTTCTGAAAGA
Found at i:33497844 original size:45 final size:45
Alignment explanation
Indices: 33497780--33497869 Score: 128
Period size: 45 Copynumber: 2.0 Consensus size: 45
33497770 ACGGATGATG
* * *
33497780 TTATGTATTTAATATATTGTTGAAAAATGGAATGTTGTTAAATTA
1 TTATGTATTTAATATATTGTTAAAAAATGAAATATTGTTAAATTA
*
33497825 TTATGTATTTACCT-TATTGTTAAAAAATGAAATATTGTTAAATTA
1 TTATGTATTTA-ATATATTGTTAAAAAATGAAATATTGTTAAATTA
33497870 CGAATTGAAA
Statistics
Matches: 40, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
45 39 0.98
46 1 0.03
ACGTcount: A:0.39, C:0.02, G:0.12, T:0.47
Consensus pattern (45 bp):
TTATGTATTTAATATATTGTTAAAAAATGAAATATTGTTAAATTA
Found at i:33498167 original size:40 final size:42
Alignment explanation
Indices: 33498073--33498236 Score: 165
Period size: 42 Copynumber: 4.0 Consensus size: 42
33498063 TGAGTTTTAG
*
33498073 TTTAACCCTTATGGGTTTCTGTTCATCTCTTTTGAGCTTCAA
1 TTTAACCCTTATGGGTTTCTGTTCAGCTCTTTTGAGCTTCAA
* *
33498115 TTTAACCCTTATGGGTTT-T-TTTAGCTCTTTTGTA-CTTCAT
1 TTTAACCCTTATGGGTTTCTGTTCAGCTCTTTTG-AGCTTCAA
* * * ** *
33498155 TTTATCCTTTATGGGTTTCCGTTCAGCTCTTACGAGCTTTC-G
1 TTTAACCCTTATGGGTTTCTGTTCAGCTCTTTTGAGC-TTCAA
* * * *
33498197 TTCAACCCTTATGGGTTTCTGTTTAGCACTTATGAGCTTC
1 TTTAACCCTTATGGGTTTCTGTTCAGCTCTTTTGAGCTTC
33498237 TGTGCAGCCT
Statistics
Matches: 100, Mismatches: 17, Indels: 11
0.78 0.13 0.09
Matches are distributed among these distances:
40 32 0.32
41 6 0.06
42 59 0.59
43 3 0.03
ACGTcount: A:0.15, C:0.21, G:0.16, T:0.48
Consensus pattern (42 bp):
TTTAACCCTTATGGGTTTCTGTTCAGCTCTTTTGAGCTTCAA
Found at i:33505189 original size:130 final size:130
Alignment explanation
Indices: 33504929--33505192 Score: 311
Period size: 130 Copynumber: 2.0 Consensus size: 130
33504919 TGATGGTGAG
* * * * *
33504929 TGGTGACCTAGTGGATGCCGGACGATGGTGAGTGTGTCGGGATATTTGTCGTCAGGCGGAAGAGA
1 TGGTGACCTAGTGGACGCCAGACGATGGTGAGTGTATCGGGATATTCGCCGTCAGGCGGAAGAGA
** * * * * **
33504994 GCTAAAGCTTGAAGTTGAAGGTGTGTTGGGTTAATGTGTGAAAAACGATGGAGAACGAATGATGA
66 GCTAAAGCTTGAAGCCGAAGGTGCGTTGGGTTAAGGTGTGAAAAACAATGGAGAACAAACAATGA
* *
33505059 TGGTGACCTAGTGGACGTCAGACGGTGGTGAGTGTATCGGG-T-TGTCGACCGTCAGGCGGAAGA
1 TGGTGACCTAGTGGACGCCAGACGATGGTGAGTGTATCGGGATAT-TCG-CCGTCAGGCGGAAGA
* *
33505122 GAGCTAAAGCTTGAAGCCGAAGGTGCGTTGGGTTAGGGTGT-AAAAGACAATGGCAG-TCAAACA
64 GAGCTAAAGCTTGAAGCCGAAGGTGCGTTGGGTTAAGGTGTGAAAA-ACAATGG-AGAACAAACA
33505185 ATGA
127 ATGA
33505189 TGGT
1 TGGT
33505193 AACTTGGTGG
Statistics
Matches: 113, Mismatches: 17, Indels: 8
0.82 0.12 0.06
Matches are distributed among these distances:
128 1 0.01
129 7 0.06
130 103 0.91
131 2 0.02
ACGTcount: A:0.27, C:0.12, G:0.38, T:0.23
Consensus pattern (130 bp):
TGGTGACCTAGTGGACGCCAGACGATGGTGAGTGTATCGGGATATTCGCCGTCAGGCGGAAGAGA
GCTAAAGCTTGAAGCCGAAGGTGCGTTGGGTTAAGGTGTGAAAAACAATGGAGAACAAACAATGA
Found at i:33505764 original size:14 final size:14
Alignment explanation
Indices: 33505718--33505757 Score: 53
Period size: 16 Copynumber: 2.7 Consensus size: 14
33505708 ATTGAGTTGA
*
33505718 AAAATTATTTAATT
1 AAAATTAATTAATT
33505732 GGAAAATTAATTAATT
1 --AAAATTAATTAATT
33505748 AAAATTAATT
1 AAAATTAATT
33505758 TAATAAATAG
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
14 10 0.43
16 13 0.57
ACGTcount: A:0.53, C:0.00, G:0.05, T:0.42
Consensus pattern (14 bp):
AAAATTAATTAATT
Found at i:33510851 original size:13 final size:13
Alignment explanation
Indices: 33510833--33510883 Score: 84
Period size: 13 Copynumber: 3.9 Consensus size: 13
33510823 ACATTCAAAT
33510833 TTTTCAAAAGCAC
1 TTTTCAAAAGCAC
33510846 TTTTCAAAAGCAC
1 TTTTCAAAAGCAC
* *
33510859 TTTTCCACAGCAC
1 TTTTCAAAAGCAC
33510872 TTTTCAAAAGCA
1 TTTTCAAAAGCA
33510884 ATAAAGAACT
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
13 34 1.00
ACGTcount: A:0.35, C:0.25, G:0.08, T:0.31
Consensus pattern (13 bp):
TTTTCAAAAGCAC
Found at i:33511786 original size:18 final size:17
Alignment explanation
Indices: 33511759--33511792 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
33511749 TATTACTAAA
*
33511759 ATCACTAATTAAATTAAT
1 ATCACGAATT-AATTAAT
33511777 ATCACGAATTAATTAA
1 ATCACGAATTAATTAA
33511793 ACATTGAATT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.50, C:0.12, G:0.03, T:0.35
Consensus pattern (17 bp):
ATCACGAATTAATTAAT
Found at i:33515832 original size:23 final size:23
Alignment explanation
Indices: 33515805--33515850 Score: 67
Period size: 23 Copynumber: 2.0 Consensus size: 23
33515795 TAACTTCTGC
33515805 ATTTTTTA-TTTTTAAAATTTTA
1 ATTTTTTACTTTTTAAAATTTTA
* *
33515827 ATTTTTTACTTTTTCAGATTTTA
1 ATTTTTTACTTTTTAAAATTTTA
33515850 A
1 A
33515851 AATTTAGATT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
22 8 0.38
23 13 0.62
ACGTcount: A:0.28, C:0.04, G:0.02, T:0.65
Consensus pattern (23 bp):
ATTTTTTACTTTTTAAAATTTTA
Found at i:33516567 original size:18 final size:19
Alignment explanation
Indices: 33516546--33516607 Score: 74
Period size: 19 Copynumber: 3.3 Consensus size: 19
33516536 TAAAAAAATA
*
33516546 TAAAAATA-AAAAATATTT
1 TAAAAATATATAAATATTT
* *
33516564 TAAAAATATATAATTAATT
1 TAAAAATATATAAATATTT
33516583 TAAAAGATATATAAA-ATTT
1 TAAAA-ATATATAAATATTT
33516602 TAAAAA
1 TAAAAA
33516608 ATTATTGTTG
Statistics
Matches: 37, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
18 9 0.24
19 20 0.54
20 8 0.22
ACGTcount: A:0.63, C:0.00, G:0.02, T:0.35
Consensus pattern (19 bp):
TAAAAATATATAAATATTT
Found at i:33519301 original size:24 final size:23
Alignment explanation
Indices: 33519238--33519307 Score: 86
Period size: 23 Copynumber: 3.0 Consensus size: 23
33519228 TTCATTTAAC
*
33519238 TTAATCGAACATGTTCACAAACA
1 TTAATTGAACATGTTCACAAACA
* **
33519261 TTAAATGAACATGTTCATGAACA
1 TTAATTGAACATGTTCACAAACA
*
33519284 TATAATTGAACATATTCACAAACA
1 T-TAATTGAACATGTTCACAAACA
33519308 ATGTTAATAA
Statistics
Matches: 38, Mismatches: 8, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
23 20 0.53
24 18 0.47
ACGTcount: A:0.46, C:0.17, G:0.09, T:0.29
Consensus pattern (23 bp):
TTAATTGAACATGTTCACAAACA
Found at i:33523533 original size:98 final size:98
Alignment explanation
Indices: 33523411--33523605 Score: 336
Period size: 98 Copynumber: 2.0 Consensus size: 98
33523401 AAAAATCATA
* * **
33523411 AAGGAAATATTCCGAGTTTGGGATTTTAAAGGAATTGTGCCCTAACGTATTGGGTGTGATTTCTT
1 AAGGAAACATTCCGAGTTTGGGATTCTAAAGGAATCATGCCCTAACGTATTGGGTGTGATTTCTT
* *
33523476 AAATCTTGGATAAGTGGATGTTCTTTTAAAGTG
66 AAATCTTGGATAAATGGATGTTCCTTTAAAGTG
33523509 AAGGAAACATTCCGAGTTTGGGATTCTAAAGGAATCATGCCCTAACGTATTGGGTGTGATTTCTT
1 AAGGAAACATTCCGAGTTTGGGATTCTAAAGGAATCATGCCCTAACGTATTGGGTGTGATTTCTT
33523574 AAATCTTGGATAAATGGATGTTCCTTTAAAGT
66 AAATCTTGGATAAATGGATGTTCCTTTAAAGT
33523606 TTTTCATTAT
Statistics
Matches: 91, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
98 91 1.00
ACGTcount: A:0.29, C:0.11, G:0.24, T:0.36
Consensus pattern (98 bp):
AAGGAAACATTCCGAGTTTGGGATTCTAAAGGAATCATGCCCTAACGTATTGGGTGTGATTTCTT
AAATCTTGGATAAATGGATGTTCCTTTAAAGTG
Found at i:33530344 original size:21 final size:22
Alignment explanation
Indices: 33530303--33530344 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
33530293 ATATTCTTTC
* *
33530303 ATTCTTTCATATGCTTAAATAT
1 ATTCTTTCATATACATAAATAT
33530325 ATTCTTTCAT-TACATAAATA
1 ATTCTTTCATATACATAAATA
33530345 ATTGTACATA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 8 0.44
22 10 0.56
ACGTcount: A:0.36, C:0.14, G:0.02, T:0.48
Consensus pattern (22 bp):
ATTCTTTCATATACATAAATAT
Found at i:33534959 original size:44 final size:44
Alignment explanation
Indices: 33534909--33535506 Score: 376
Period size: 44 Copynumber: 13.7 Consensus size: 44
33534899 GATCGCATCT
*
33534909 AGTCTTATCTCCCTGAAGTTACAGTGGAGCAGACTAAATAAGCA
1 AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAATAAGCA
* *
33534953 AGTCTTATC-CTCCTGAAGTTGCAGTGGGGCAGACTGAAGAT-GGCA
1 AGTCTTATCTC-CCTGAAGTTGCAGTGGAGCAGACT-AA-ATAAGCA
* * ***
33534998 AGTCTTATTTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCG-A
1 AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAATAAGCA
* * ***
33535041 TAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCG-A
1 -AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAATAAGCA
* * * * * * *
33535085 TAATCCTATCTCCCTGAAGTTGCATTGGAGCGGA-TTAA-AACCTC
1 -AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAATAAGC-A
* * * * * * *
33535129 GGATCTTATCACTCTGAAGTTGCAG-AGAGCAGA-T-CA-CAGCT
1 AG-TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAATAAGCA
* *
33535170 AGTCTTATCTCCCTGAAGTTACAGTGGAGCAGACTAAGTAAGCA
1 AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAATAAGCA
* * *
33535214 AGTCTTATC-CTTCTGAAGTTGCAGTGGGGCAGACTGAAGAT-GGCA
1 AGTCTTATCTC-CCTGAAGTTGCAGTGGAGCAGACT-AA-ATAAGCA
* * * ***
33535259 AGTCTTATCTCCTTGAAGTTACAGTGGAGCAGATTAAAGCCG-A
1 AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAATAAGCA
* * * * * * * *
33535302 TAATCCTATCTCCCTAAAGTTGCATTGGAGCGGA-TTAA-AACCTC
1 -AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAATAAGC-A
* * * *
33535346 AGATCTTATCTCTCTGAAGTTGCAG-AGAGCAGA-TCACAT---CT
1 AG-TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACT-AAATAAGCA
** *
33535387 AGTCTTATCTCCCTGAAGTTATAGTGGAGCAGACTAAGTAAGCA
1 AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAATAAGCA
* * * *
33535431 AGTCTTATC-CTCTTGAAGTTGCAGTGGGGCAGACTGAAGAT-GGAA
1 AGTCTTATCTC-CCTGAAGTTGCAGTGGAGCAGACT-AA-ATAAGCA
33535476 AGTCTTATCTCCCTGAAGTTGCAGTGGAGCA
1 AGTCTTATCTCCCTGAAGTTGCAGTGGAGCA
33535507 AATTAAAGCC
Statistics
Matches: 432, Mismatches: 89, Indels: 65
0.74 0.15 0.11
Matches are distributed among these distances:
40 38 0.09
41 19 0.04
42 6 0.01
43 28 0.06
44 235 0.54
45 99 0.23
46 7 0.02
ACGTcount: A:0.29, C:0.20, G:0.24, T:0.27
Consensus pattern (44 bp):
AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAATAAGCA
Found at i:33535048 original size:89 final size:88
Alignment explanation
Indices: 33534909--33535736 Score: 417
Period size: 89 Copynumber: 9.5 Consensus size: 88
33534899 GATCGCATCT
* *** *
33534909 AGTCTTATCTCCCTGAAGTTACAGTGGAGCAGACTAAATAAGCAAGTCTTATCCTCCTGAAGTTG
1 AGTCTTATCTCCCTGAAGTTACAGTGGAGCAGATTAAAGCCG-AAATCTTATCCTCCTGAAGTTG
*
33534974 CAGTGGGGCAGACTGAAGATGGCA
65 CAGTGGAGCAGACTGAAGATGGCA
* *
33534998 AGTCTTATTTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCGATAATCTTAT-CTCCCTGAAGTT
1 AGTCTTATCTCCCTGAAGTTACAGTGGAGCAGATTAAAGCCGA-AATCTTATCCT-CCTGAAGTT
* * ** **
33535062 GCAGTGGAGCAGATTAAAGCCGATA
64 GCAGTGGAGCAGACTGAAGATGGCA
* * * * * *
33535087 A-TCCTATCTCCCTGAAGTTGCATTGGAGCGGATTAAAACCTCG-GATCTTATCACT-CTGAAGT
1 AGTCTTATCTCCCTGAAGTTACAGTGGAGCAGATT-AAAGC-CGAAATCTTATC-CTCCTGAAGT
* * * *
33535149 TGCAG-AGAGCAGA-T-CACA--GCT
63 TGCAGTGGAGCAGACTGAAGATGGCA
* * *
33535170 AGTCTTATCTCCCTGAAGTTACAGTGGAGCAGACTAAGTAAG-C-AAGTCTTATCCTTCTGAAGT
1 AGTCTTATCTCCCTGAAGTTACAGTGGAGCAGA-TTA--AAGCCGAAATCTTATCCTCCTGAAGT
*
33535233 TGCAGTGGGGCAGACTGAAGATGGCA
63 TGCAGTGGAGCAGACTGAAGATGGCA
* * *
33535259 AGTCTTATCTCCTTGAAGTTACAGTGGAGCAGATTAAAGCCGATAATCCTAT-CTCCCTAAAGTT
1 AGTCTTATCTCCCTGAAGTTACAGTGGAGCAGATTAAAGCCGA-AATCTTATCCT-CCTGAAGTT
* * * * ***
33535323 GCATTGGAGCGGA-TTAAAACCTC-
64 GCAGTGGAGCAGACTGAAGATGGCA
* * * * * * * *
33535346 AGATCTTATCTCTCTGAAGTTGCAG-AGAGCAGATCACA-TC-TAGTCTTAT-CTCCCTGAAGTT
1 AG-TCTTATCTCCCTGAAGTTACAGTGGAGCAGATTAAAGCCGAAATCTTATCCT-CCTGAAGTT
** *
33535407 ATAGTGGAGCAGACT-AAG-TAAGCA
64 GCAGTGGAGCAGACTGAAGAT-GGCA
* * * * * **
33535431 AGTCTTATC-CTCTTGAAGTTGCAGTGGGGCAGACTGAAGATGGAAAGTCTTAT-CTCCCTGAAG
1 AGTCTTATCTC-CCTGAAGTTACAGTGGAGCAGATTAAAG-CCGAAA-TCTTATCCT-CCTGAAG
* * * ** *
33535494 TTGCAGTGGAGCAAATTAAAGCCGACA
62 TTGCAGTGGAGCAGACTGAAGATGGCA
* * * * ** * * *
33535521 A-TCCTATCTCCCTAAAATTATAGTGGAGTGGATTAAAACCTCAGATCTTAT-CTCTCTGAAGTT
1 AGTCTTATCTCCCTGAAGTTACAGTGGAGCAGATTAAAGCC-GAAATCTTATCCTC-CTGAAGTT
* *
33535584 GCAG-AGAGCAGA-TCG--CAT--CA
64 GCAGTGGAGCAGACT-GAAGATGGCA
* * * * * * * *
33535604 AATCTTATCTCCCTGAAGTTACAGTGGAGCAGACT-CAGCAAAGTAAGTCTTACCCTCCTAAAAT
1 AGTCTTATCTCCCTGAAGTTACAGTGGAGCAGATTAAAGC--CG-AAATCTTATCCTCCTGAAGT
*
33535668 TGCAGT-GAGGCAAACTGAAGATGGCA
63 TGCAGTGGA-GCAGACTGAAGATGGCA
* * * *
33535694 AATCTTATCTCCCTAAAGTTGC-GATGAAGCAGATTAAAGCCGA
1 AGTCTTATCTCCCTGAAGTTACAG-TGGAGCAGATTAAAGCCGA
33535737 CAGTGGAGTG
Statistics
Matches: 551, Mismatches: 137, Indels: 103
0.70 0.17 0.13
Matches are distributed among these distances:
83 9 0.02
84 121 0.22
85 36 0.07
86 17 0.03
87 31 0.06
88 104 0.19
89 188 0.34
90 42 0.08
91 3 0.01
ACGTcount: A:0.30, C:0.21, G:0.23, T:0.27
Consensus pattern (88 bp):
AGTCTTATCTCCCTGAAGTTACAGTGGAGCAGATTAAAGCCGAAATCTTATCCTCCTGAAGTTGC
AGTGGAGCAGACTGAAGATGGCA
Found at i:33535328 original size:217 final size:217
Alignment explanation
Indices: 33534953--33535736 Score: 1087
Period size: 217 Copynumber: 3.6 Consensus size: 217
33534943 TAAATAAGCA
* * *
33534953 AGTCTTATC-CTCCTGAAGTTGCAGTGGGGCAGACTGAAG-ATGGCAAGTCTTAT--TTCCCTGA
1 AGTCTTATCTC-CCTGAAGTTACAGTGGAGCAGACT-AAGTA-AGCAAGTCTTATCCTT--CTGA
* * * ** **
33535014 AGTTGCAGTGGAGCAGATTAAAGCCGATAA-TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTA
61 AGTTGCAGTGGGGCAGACTGAAGATGGCAAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTA
* * *
33535078 AAGCCGATAATCCTATCTCCCTGAAGTTGCATTGGAGCGGATTAAAACCTCGGATCTTATCACTC
126 AAGCCGATAATCCTATCTCCCTAAAGTTGCATTGGAGCGGATTAAAACCTCAGATCTTATCTCTC
*
33535143 TGAAGTTGCAGAGAGCAGATCACAGCT
191 TGAAGTTGCAGAGAGCAGATCACATCT
33535170 AGTCTTATCTCCCTGAAGTTACAGTGGAGCAGACTAAGTAAGCAAGTCTTATCCTTCTGAAGTTG
1 AGTCTTATCTCCCTGAAGTTACAGTGGAGCAGACTAAGTAAGCAAGTCTTATCCTTCTGAAGTTG
* *
33535235 CAGTGGGGCAGACTGAAGATGGCAAGTCTTATCTCCTTGAAGTTACAGTGGAGCAGATTAAAGCC
66 CAGTGGGGCAGACTGAAGATGGCAAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCC
33535300 GATAATCCTATCTCCCTAAAGTTGCATTGGAGCGGATTAAAACCTCAGATCTTATCTCTCTGAAG
131 GATAATCCTATCTCCCTAAAGTTGCATTGGAGCGGATTAAAACCTCAGATCTTATCTCTCTGAAG
33535365 TTGCAGAGAGCAGATCACATCT
196 TTGCAGAGAGCAGATCACATCT
*
33535387 AGTCTTATCTCCCTGAAGTTATAGTGGAGCAGACTAAGTAAGCAAGTCTTATCC-TCTTGAAGTT
1 AGTCTTATCTCCCTGAAGTTACAGTGGAGCAGACTAAGTAAGCAAGTCTTATCCTTC-TGAAGTT
* *
33535451 GCAGTGGGGCAGACTGAAGATGGAAAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAAATTAAAGC
65 GCAGTGGGGCAGACTGAAGATGGCAAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGC
* * ** * *
33535516 CGACAATCCTATCTCCCTAAAATTATAGTGGAGTGGATTAAAACCTCAGATCTTATCTCTCTGAA
130 CGATAATCCTATCTCCCTAAAGTTGCATTGGAGCGGATTAAAACCTCAGATCTTATCTCTCTGAA
* *
33535581 GTTGCAGAGAGCAGATCGCATCA
195 GTTGCAGAGAGCAGATCACATCT
* * * * * * * *
33535604 AATCTTATCTCCCTGAAGTTACAGTGGAGCAGACTCAGCAAAGTAAGTCTTACCCTCCTAAAATT
1 AGTCTTATCTCCCTGAAGTTACAGTGGAGCAGACTAAG-TAAGCAAGTCTTATCCTTCTGAAGTT
* * * * *
33535669 GCAGTGAGGCAAACTGAAGATGGCAAATCTTATCTCCCTAAAGTTGC-GATGAAGCAGATTAAAG
65 GCAGTGGGGCAGACTGAAGATGGCAAGTCTTATCTCCCTGAAGTTGCAG-TGGAGCAGATTAAAG
33535733 CCGA
129 CCGA
33535737 CAGTGGAGTG
Statistics
Matches: 513, Mismatches: 45, Indels: 17
0.89 0.08 0.03
Matches are distributed among these distances:
216 43 0.08
217 389 0.76
218 80 0.16
219 1 0.00
ACGTcount: A:0.30, C:0.21, G:0.23, T:0.27
Consensus pattern (217 bp):
AGTCTTATCTCCCTGAAGTTACAGTGGAGCAGACTAAGTAAGCAAGTCTTATCCTTCTGAAGTTG
CAGTGGGGCAGACTGAAGATGGCAAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCC
GATAATCCTATCTCCCTAAAGTTGCATTGGAGCGGATTAAAACCTCAGATCTTATCTCTCTGAAG
TTGCAGAGAGCAGATCACATCT
Found at i:33535531 original size:261 final size:260
Alignment explanation
Indices: 33534909--33535502 Score: 749
Period size: 261 Copynumber: 2.3 Consensus size: 260
33534899 GATCGCATCT
33534909 AGTCTTATCTCCCTGAAGTTACAGTGGAGCAGACTAA-ATAAGCAAGTCTTATCCTCCTGAAGTT
1 AGTCTTATCTCCCTGAAGTTACAGTGGAGCAGACTAAGATAAGCAAGTCTTATCCTCCTGAAGTT
* *
33534973 GCAGTGGGGCAGACTGAAGATGGCAAGTCTTATTTCCCTGAAGTTGCAGTGGAGCAGATTAAAGC
66 GCAGTGGGGCAGACTGAAGATGGCAAGTCTTATCTCCCTGAAGTTACAGTGGAGCAGATTAAAGC
* * *
33535038 CGATAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCGATAATCCTATCTCCCTGAA
131 CGATAATCCTATCTCCCTAAAGTTGCAGTGGAGCAGATTAAAACC-ATAATCCTATCTCCCTGAA
* * * * * *
33535103 GTTGCATTGGAGCGGATTAAAACCTCGGATCTTATCACTCTGAAGTTGCAGAGAGCAGATCACAG
195 GTTGCA-TGGAGCAGATTAAAACCTCAGATCTTATCACCCTGAAGTTACAGAGAGCAGATAAAAG
*
33535168 CT
259 CA
*
33535170 AGTCTTATCTCCCTGAAGTTACAGTGGAGCAGACTAAG-TAAGCAAGTCTTATCCTTCTGAAGTT
1 AGTCTTATCTCCCTGAAGTTACAGTGGAGCAGACTAAGATAAGCAAGTCTTATCCTCCTGAAGTT
*
33535234 GCAGTGGGGCAGACTGAAGATGGCAAGTCTTATCTCCTTGAAGTTACAGTGGAGCAGATTAAAGC
66 GCAGTGGGGCAGACTGAAGATGGCAAGTCTTATCTCCCTGAAGTTACAGTGGAGCAGATTAAAGC
* * * *
33535299 CGATAATCCTATCTCCCTAAAGTTGCATTGGAGCGGATTAAAACC-TCAGATCTTATCTCTCTGA
131 CGATAATCCTATCTCCCTAAAGTTGCAGTGGAGCAGATTAAAACCAT-A-ATCCTATCTCCCTGA
* * * * * *
33535363 AGTTGCA-GAGAGCAGA-TCACATCT-AG-TCTTATCTCCCTGAAGTTATAGTGGAGCAGACTAA
194 AGTTGCATG-GAGCAGATTAAAACCTCAGATCTTATCACCCTGAAGTTACAG-AGAGCAGA-TAA
33535424 GTAAGCA
256 --AAGCA
* * * * *
33535431 AGTCTTATC-CTCTTGAAGTTGCAGTGGGGCAGACTGAAGAT-GGAAAGTCTTAT-CTCCCTGAA
1 AGTCTTATCTC-CCTGAAGTTACAGTGGAGCAGACT-AAGATAAGCAAGTCTTATCCT-CCTGAA
33535493 GTTGCAGTGG
63 GTTGCAGTGG
33535503 AGCAAATTAA
Statistics
Matches: 291, Mismatches: 30, Indels: 23
0.85 0.09 0.07
Matches are distributed among these distances:
257 18 0.06
258 8 0.03
259 9 0.03
260 8 0.03
261 219 0.75
262 28 0.10
263 1 0.00
ACGTcount: A:0.28, C:0.20, G:0.24, T:0.27
Consensus pattern (260 bp):
AGTCTTATCTCCCTGAAGTTACAGTGGAGCAGACTAAGATAAGCAAGTCTTATCCTCCTGAAGTT
GCAGTGGGGCAGACTGAAGATGGCAAGTCTTATCTCCCTGAAGTTACAGTGGAGCAGATTAAAGC
CGATAATCCTATCTCCCTAAAGTTGCAGTGGAGCAGATTAAAACCATAATCCTATCTCCCTGAAG
TTGCATGGAGCAGATTAAAACCTCAGATCTTATCACCCTGAAGTTACAGAGAGCAGATAAAAGCA
Found at i:33537867 original size:98 final size:98
Alignment explanation
Indices: 33537746--33537940 Score: 327
Period size: 98 Copynumber: 2.0 Consensus size: 98
33537736 AAAAATCATA
* * * *
33537746 AAGGAAATTTTCCGAGTTTGGGATTTTAAAGGAATTGTGCCCTAACGTATTGGGTGTGTTTTCTT
1 AAGGAAATATTCCGAGTTTGGGATTCTAAAGGAATCGTGCCCTAACGTATTGGGTGTGATTTCTT
* * *
33537811 AAATCTTGGATAAGTGGATGTTCTTTTAAAGTG
66 AAATCTTGAATAAATGGATGTTCCTTTAAAGTG
33537844 AAGGAAATATTCCGAGTTTGGGATTCTAAAGGAATCGTGCCCTAACGTATTGGGTGTGATTTCTT
1 AAGGAAATATTCCGAGTTTGGGATTCTAAAGGAATCGTGCCCTAACGTATTGGGTGTGATTTCTT
33537909 AAATCTTGAATAAATGGATGTTCCTTTAAAGT
66 AAATCTTGAATAAATGGATGTTCCTTTAAAGT
33537941 TTTTCATTAT
Statistics
Matches: 90, Mismatches: 7, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
98 90 1.00
ACGTcount: A:0.28, C:0.11, G:0.24, T:0.37
Consensus pattern (98 bp):
AAGGAAATATTCCGAGTTTGGGATTCTAAAGGAATCGTGCCCTAACGTATTGGGTGTGATTTCTT
AAATCTTGAATAAATGGATGTTCCTTTAAAGTG
Found at i:33559108 original size:93 final size:93
Alignment explanation
Indices: 33558944--33559130 Score: 329
Period size: 93 Copynumber: 2.0 Consensus size: 93
33558934 TTGCCTTCAA
* *
33558944 GATGTTGAATTTTGCTGCTCAAAGAACTTCTGCAATGCTTCCCTCAAACTCTTGTGTTACTCTCT
1 GATGCTGAATTTTGCTACTCAAAGAACTTCTGCAATGCTTCCCTCAAACTCTTGTGTTACTCTCT
*
33559009 CAAATGGGAAGTTAAAGAATGAAGAATG
66 CAAATGGGAAGTGAAAGAATGAAGAATG
* *
33559037 GATGCTGAATTTTTCTACTCAAAGAACTTCTGCAATGCTTCCCTCAAACTCTTGTGTTGCTCTCT
1 GATGCTGAATTTTGCTACTCAAAGAACTTCTGCAATGCTTCCCTCAAACTCTTGTGTTACTCTCT
33559102 CAAATGGGAAGTGAAAGAATGAAGAATG
66 CAAATGGGAAGTGAAAGAATGAAGAATG
33559130 G
1 G
33559131 GAGAAGAGAT
Statistics
Matches: 89, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 89 1.00
ACGTcount: A:0.30, C:0.19, G:0.20, T:0.32
Consensus pattern (93 bp):
GATGCTGAATTTTGCTACTCAAAGAACTTCTGCAATGCTTCCCTCAAACTCTTGTGTTACTCTCT
CAAATGGGAAGTGAAAGAATGAAGAATG
Found at i:33561958 original size:9 final size:9
Alignment explanation
Indices: 33561944--33561968 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
33561934 ATGAGGGTAT
33561944 TTTTATATA
1 TTTTATATA
33561953 TTTTATATA
1 TTTTATATA
33561962 TTTTATA
1 TTTTATA
33561969 AAATAAAATA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (9 bp):
TTTTATATA
Found at i:33568662 original size:17 final size:17
Alignment explanation
Indices: 33568640--33568673 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
33568630 TTTTAGTGCA
*
33568640 TATTGTCGTTGCATTTT
1 TATTGTCATTGCATTTT
33568657 TATTGTCATTGCATTTT
1 TATTGTCATTGCATTTT
33568674 AATATTAGTG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.15, C:0.12, G:0.15, T:0.59
Consensus pattern (17 bp):
TATTGTCATTGCATTTT
Done.