Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr3
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: 100348136
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 3062571 characters in sequence are not A, C, G, or T
File 253 of 290
Found at i:87130861 original size:82 final size:81
Alignment explanation
Indices: 87130743--87130898 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
87130733 TGCTATATAA
* *
87130743 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
87130808 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
87130825 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
87130889 CACTTAGTGC
65 CACTTAGTGC
87130899 TGTACAATTT
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 16 0.24
82 51 0.76
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:87131397 original size:12 final size:12
Alignment explanation
Indices: 87131380--87131406 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
87131370 ATGGCATACT
87131380 TATGTATATATA
1 TATGTATATATA
87131392 TATGTATATATA
1 TATGTATATATA
87131404 TAT
1 TAT
87131407 ACTTCGGAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.41, C:0.00, G:0.07, T:0.52
Consensus pattern (12 bp):
TATGTATATATA
Found at i:87143254 original size:45 final size:45
Alignment explanation
Indices: 87143199--87143288 Score: 162
Period size: 45 Copynumber: 2.0 Consensus size: 45
87143189 AAGCTTAAAA
87143199 ATTTTAACACATGCACATGTACATATAATGAGCATAAGTTATGAC
1 ATTTTAACACATGCACATGTACATATAATGAGCATAAGTTATGAC
* *
87143244 ATTTTCACACATGCACATGTACATATAATGAGCATCAGTTATGAC
1 ATTTTAACACATGCACATGTACATATAATGAGCATAAGTTATGAC
87143289 GGTTAATTAT
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
45 43 1.00
ACGTcount: A:0.38, C:0.18, G:0.13, T:0.31
Consensus pattern (45 bp):
ATTTTAACACATGCACATGTACATATAATGAGCATAAGTTATGAC
Found at i:87146144 original size:43 final size:43
Alignment explanation
Indices: 87146092--87146201 Score: 139
Period size: 43 Copynumber: 2.6 Consensus size: 43
87146082 AGGATTACCC
* * *
87146092 ATATGTGATTACATGTAAGACCATGTCTTGGACATTGGCATCG
1 ATATATGATTACATGTAAGACCATGTCTGGGACAGTGGCATCG
* * * *
87146135 TTATATGATTTCATGTAAGACCCTGTCTGGGACAGTGGCTTCG
1 ATATATGATTACATGTAAGACCATGTCTGGGACAGTGGCATCG
* *
87146178 ATATGTGATAACATGTAAGACCAT
1 ATATATGATTACATGTAAGACCAT
87146202 ATCCGGGATA
Statistics
Matches: 55, Mismatches: 12, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
43 55 1.00
ACGTcount: A:0.28, C:0.16, G:0.23, T:0.33
Consensus pattern (43 bp):
ATATATGATTACATGTAAGACCATGTCTGGGACAGTGGCATCG
Found at i:87152976 original size:43 final size:43
Alignment explanation
Indices: 87152928--87153074 Score: 161
Period size: 43 Copynumber: 3.4 Consensus size: 43
87152918 GATTACCGAG
*
87152928 ATGTGATTACATGTAAGACCATGTCTAGGACATTGGCATTGTA
1 ATGTGATTACATGTAAGACCATGTCTGGGACATTGGCATTGTA
* * *
87152971 ATGTGATTACGTGTAAGACCATGTCTGGGACATTGGCATCGTT
1 ATGTGATTACATGTAAGACCATGTCTGGGACATTGGCATTGTA
* * * * * * * *
87153014 ATATGATTTCGTGTAAGACCCTATCTGGGACAGTGTCA-TCTA
1 ATGTGATTACATGTAAGACCATGTCTGGGACATTGGCATTGTA
*
87153056 TATGTGATAACATGTAAGA
1 -ATGTGATTACATGTAAGA
87153075 ACATATCCGG
Statistics
Matches: 86, Mismatches: 17, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
42 1 0.01
43 85 0.99
ACGTcount: A:0.29, C:0.15, G:0.24, T:0.33
Consensus pattern (43 bp):
ATGTGATTACATGTAAGACCATGTCTGGGACATTGGCATTGTA
Found at i:87158564 original size:34 final size:33
Alignment explanation
Indices: 87158504--87158574 Score: 81
Period size: 34 Copynumber: 2.1 Consensus size: 33
87158494 GCATTTCTGT
87158504 TACTATTACAATAATAGGCTAAGGCCCACACTGA
1 TACTATTACAATAATAGGCTAAGGCCC-CACTGA
** * *
87158538 TACTATTACTGTAAT-GGTCTATGGCCCTACTGA
1 TACTATTACAATAATAGG-CTAAGGCCCCACTGA
87158571 TACT
1 TACT
87158575 GGACTATCAC
Statistics
Matches: 32, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
33 11 0.34
34 21 0.66
ACGTcount: A:0.31, C:0.23, G:0.15, T:0.31
Consensus pattern (33 bp):
TACTATTACAATAATAGGCTAAGGCCCCACTGA
Found at i:87161048 original size:78 final size:78
Alignment explanation
Indices: 87160914--87161069 Score: 276
Period size: 78 Copynumber: 2.0 Consensus size: 78
87160904 TAATTCTATT
*
87160914 CCCAAAATTTATTTTAAGTTATGGAAGCTAATTTTAAAAGTAATTGATTTACGAAAACGTGATGT
1 CCCAAAATTTATTTTAAGTTACGGAAGCTAATTTTAAAAGTAATTGATTTACGAAAACGTGATGT
*
87160979 CAAAAACAACTAA
66 CAAAAAAAACTAA
* *
87160992 CCCAAAATTTCTTTTAAGTTACGGAAGCTAATTTTAAAAGTAATTGATTTATGAAAACGTGATGT
1 CCCAAAATTTATTTTAAGTTACGGAAGCTAATTTTAAAAGTAATTGATTTACGAAAACGTGATGT
87161057 CAAAAAAAACTAA
66 CAAAAAAAACTAA
87161070 GTTGCGAAAC
Statistics
Matches: 74, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
78 74 1.00
ACGTcount: A:0.44, C:0.12, G:0.13, T:0.32
Consensus pattern (78 bp):
CCCAAAATTTATTTTAAGTTACGGAAGCTAATTTTAAAAGTAATTGATTTACGAAAACGTGATGT
CAAAAAAAACTAA
Found at i:87161529 original size:31 final size:33
Alignment explanation
Indices: 87161473--87161537 Score: 89
Period size: 32 Copynumber: 2.0 Consensus size: 33
87161463 TTTGGGTCAC
* *
87161473 AACCTATAACAGAATCAATTGGGCCT-AGCCCA
1 AACCAATAACAGAATCAAGTGGGCCTAAGCCCA
*
87161505 AACCAATAACAGGA-CAAGTGGGCCTAAGCCCA
1 AACCAATAACAGAATCAAGTGGGCCTAAGCCCA
87161537 A
1 A
87161538 TACAGTGACA
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
31 10 0.34
32 19 0.66
ACGTcount: A:0.40, C:0.28, G:0.18, T:0.14
Consensus pattern (33 bp):
AACCAATAACAGAATCAAGTGGGCCTAAGCCCA
Found at i:87161785 original size:32 final size:32
Alignment explanation
Indices: 87161740--87161822 Score: 103
Period size: 32 Copynumber: 2.6 Consensus size: 32
87161730 CTCTAAGTCT
*
87161740 TCAGTAGCGGTATTATAATTGGCACAAAGCCA
1 TCAGTAACGGTATTATAATTGGCACAAAGCCA
* ** *
87161772 TCAGTAACTGTATTATGTTTGGCACATAGCCA
1 TCAGTAACGGTATTATAATTGGCACAAAGCCA
* *
87161804 TCAGCAACGGTAATATAAT
1 TCAGTAACGGTATTATAAT
87161823 CGACACAGAG
Statistics
Matches: 41, Mismatches: 10, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
32 41 1.00
ACGTcount: A:0.34, C:0.18, G:0.19, T:0.29
Consensus pattern (32 bp):
TCAGTAACGGTATTATAATTGGCACAAAGCCA
Found at i:87162326 original size:27 final size:27
Alignment explanation
Indices: 87162294--87162408 Score: 112
Period size: 27 Copynumber: 4.3 Consensus size: 27
87162284 CAAAACAATC
87162294 ATTTTACCTTAC-AGGAGTATTTCGATA
1 ATTTTACCTTACAAGG-GTATTTCGATA
87162321 ATTTTACAC-TACAAGGGTATTTCGGA-A
1 ATTTTAC-CTTACAAGGGTATTTC-GATA
* *
87162348 ATTTTTCATTACAAGGGTATTTCGATA
1 ATTTTACCTTACAAGGGTATTTCGATA
* * * *
87162375 ATTTTACAATT-CAAGGATATTTTGGTA
1 ATTTTAC-CTTACAAGGGTATTTCGATA
87162402 ATTTTAC
1 ATTTTAC
87162409 AAATAGAGGT
Statistics
Matches: 76, Mismatches: 6, Indels: 12
0.81 0.06 0.13
Matches are distributed among these distances:
26 2 0.03
27 65 0.86
28 9 0.12
ACGTcount: A:0.31, C:0.12, G:0.15, T:0.42
Consensus pattern (27 bp):
ATTTTACCTTACAAGGGTATTTCGATA
Found at i:87162352 original size:54 final size:54
Alignment explanation
Indices: 87162294--87162409 Score: 153
Period size: 54 Copynumber: 2.1 Consensus size: 54
87162284 CAAAACAATC
* * *
87162294 ATTTTACCTTAC-AGGAGTATTTCGATAATTTTACACTACAAGGGTATTTCGGAA
1 ATTTTACATTACAAGG-GTATTTCGATAATTTTACAATACAAGGATATTTCGGAA
* * * *
87162348 ATTTTTCATTACAAGGGTATTTCGATAATTTTACAATTCAAGGATATTTTGGTA
1 ATTTTACATTACAAGGGTATTTCGATAATTTTACAATACAAGGATATTTCGGAA
87162402 ATTTTACA
1 ATTTTACA
87162410 AATAGAGGTC
Statistics
Matches: 53, Mismatches: 8, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
54 50 0.94
55 3 0.06
ACGTcount: A:0.32, C:0.12, G:0.15, T:0.41
Consensus pattern (54 bp):
ATTTTACATTACAAGGGTATTTCGATAATTTTACAATACAAGGATATTTCGGAA
Found at i:87162409 original size:27 final size:27
Alignment explanation
Indices: 87162310--87162410 Score: 114
Period size: 27 Copynumber: 3.7 Consensus size: 27
87162300 CCTTACAGGA
* * *
87162310 GTATTTCGATAATTTTACACTACAAGG
1 GTATTTCGGTAATTTTACAATTCAAGG
* *
87162337 GTATTTCGGAAATTTTTC-ATTACAAGG
1 GTATTTCGGTAATTTTACAATT-CAAGG
*
87162364 GTATTTCGATAATTTTACAATTCAAGG
1 GTATTTCGGTAATTTTACAATTCAAGG
* *
87162391 ATATTTTGGTAATTTTACAA
1 GTATTTCGGTAATTTTACAA
87162411 ATAGAGGTCT
Statistics
Matches: 61, Mismatches: 11, Indels: 4
0.80 0.14 0.05
Matches are distributed among these distances:
26 1 0.02
27 57 0.93
28 3 0.05
ACGTcount: A:0.33, C:0.11, G:0.15, T:0.42
Consensus pattern (27 bp):
GTATTTCGGTAATTTTACAATTCAAGG
Found at i:87182666 original size:13 final size:13
Alignment explanation
Indices: 87182645--87182677 Score: 57
Period size: 13 Copynumber: 2.5 Consensus size: 13
87182635 TGGGCTTCCT
87182645 CACACGGGTAAGC
1 CACACGGGTAAGC
*
87182658 CACATGGGTAAGC
1 CACACGGGTAAGC
87182671 CACACGG
1 CACACGG
87182678 CCGTGTCCAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.30, C:0.30, G:0.30, T:0.09
Consensus pattern (13 bp):
CACACGGGTAAGC
Found at i:87191515 original size:54 final size:54
Alignment explanation
Indices: 87191363--87191519 Score: 154
Period size: 54 Copynumber: 2.9 Consensus size: 54
87191353 GTGTTGGTAG
* * * * *
87191363 ACTATCCCACGTTTATTGTCCCAGTGGATTATCCCATGTCTA-CTATCCTAGCAG
1 ACTAACCCACGTTTATTGTCACAATGGATTATCCCATGTCTATC-GTCCTAGCAA
* ** * * * * * *
87191417 ACTAACCCACGTTTATTTTCATGACGGACTATCCCGTGTTTATCGTCTTGGCAA
1 ACTAACCCACGTTTATTGTCACAATGGATTATCCCATGTCTATCGTCCTAGCAA
* *
87191471 ACTAACCCACATTTATTGTCACAATGGATTATCCCATGCCTATCGTCCT
1 ACTAACCCACGTTTATTGTCACAATGGATTATCCCATGTCTATCGTCCT
87191520 GGTGGACCGT
Statistics
Matches: 78, Mismatches: 24, Indels: 2
0.75 0.23 0.02
Matches are distributed among these distances:
54 77 0.99
55 1 0.01
ACGTcount: A:0.24, C:0.29, G:0.14, T:0.34
Consensus pattern (54 bp):
ACTAACCCACGTTTATTGTCACAATGGATTATCCCATGTCTATCGTCCTAGCAA
Found at i:87197842 original size:57 final size:58
Alignment explanation
Indices: 87197761--87197871 Score: 143
Period size: 58 Copynumber: 1.9 Consensus size: 58
87197751 AAATCCACAT
* *
87197761 ACCTCTATCTGGCCCATTAAGCCC-AATCATACTCATATGGCCTATTAGGCCCAAACC
1 ACCTCTATATGGCCCATTAAGCCCAAATCACACTCATATGGCCTATTAGGCCCAAACC
* * * * * *
87197818 ACCTGTATATGGCCCATTAGGCCCAAATCACATTTATATGGCTTGTTAGGCCCA
1 ACCTCTATATGGCCCATTAAGCCCAAATCACACTCATATGGCCTATTAGGCCCA
87197872 GTCACATCCA
Statistics
Matches: 45, Mismatches: 8, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
57 21 0.47
58 24 0.53
ACGTcount: A:0.27, C:0.31, G:0.15, T:0.27
Consensus pattern (58 bp):
ACCTCTATATGGCCCATTAAGCCCAAATCACACTCATATGGCCTATTAGGCCCAAACC
Found at i:87197866 original size:29 final size:29
Alignment explanation
Indices: 87197795--87197871 Score: 100
Period size: 29 Copynumber: 2.7 Consensus size: 29
87197785 AATCATACTC
*
87197795 ATATGGCCTATTAGGCCCAAACCACCTGT
1 ATATGGCCTATTAGGCCCAAACCACATGT
* * *
87197824 ATATGGCCCATTAGGCCCAAATCACATTT
1 ATATGGCCTATTAGGCCCAAACCACATGT
* *
87197853 ATATGGCTTGTTAGGCCCA
1 ATATGGCCTATTAGGCCCA
87197872 GTCACATCCA
Statistics
Matches: 41, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
29 41 1.00
ACGTcount: A:0.27, C:0.27, G:0.18, T:0.27
Consensus pattern (29 bp):
ATATGGCCTATTAGGCCCAAACCACATGT
Found at i:87197965 original size:17 final size:18
Alignment explanation
Indices: 87197943--87197976 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
87197933 TGCCTATTAT
87197943 GGGCCCAAC-AGCCCATC
1 GGGCCCAACTAGCCCATC
*
87197960 GGGCCCATCTAGCCCAT
1 GGGCCCAACTAGCCCAT
87197977 TCTGGCTCGT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 8 0.53
18 7 0.47
ACGTcount: A:0.21, C:0.44, G:0.24, T:0.12
Consensus pattern (18 bp):
GGGCCCAACTAGCCCATC
Found at i:87198108 original size:8 final size:8
Alignment explanation
Indices: 87198095--87198140 Score: 56
Period size: 8 Copynumber: 5.8 Consensus size: 8
87198085 GTAGCTAAAC
*
87198095 TTTCGACT
1 TTTCGACA
87198103 TTTCGACA
1 TTTCGACA
*
87198111 TTTAGACA
1 TTTCGACA
*
87198119 TTTCGGCA
1 TTTCGACA
*
87198127 TTTCGGCA
1 TTTCGACA
87198135 TTTCGA
1 TTTCGA
87198141 GTTTTACCGA
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
8 33 1.00
ACGTcount: A:0.20, C:0.22, G:0.17, T:0.41
Consensus pattern (8 bp):
TTTCGACA
Found at i:87202392 original size:29 final size:29
Alignment explanation
Indices: 87202326--87202433 Score: 110
Period size: 29 Copynumber: 3.8 Consensus size: 29
87202316 TCCAAATACC
* * * *
87202326 TGTATCTGGCCCATTAAGCCC-AATCATA
1 TGTATATGGCCCATTAGGCCCAAACCACA
* * * *
87202354 TTTATATGGCCTATTGGGCCCAAACCACC
1 TGTATATGGCCCATTAGGCCCAAACCACA
*
87202383 TGTATATGGCCCATTAGGCCCAAATCACA
1 TGTATATGGCCCATTAGGCCCAAACCACA
* *
87202412 TTTATATGGCCCGTTAGGCCCA
1 TGTATATGGCCCATTAGGCCCA
87202434 GCCACATTCA
Statistics
Matches: 64, Mismatches: 15, Indels: 1
0.80 0.19 0.01
Matches are distributed among these distances:
28 16 0.25
29 48 0.75
ACGTcount: A:0.26, C:0.29, G:0.18, T:0.28
Consensus pattern (29 bp):
TGTATATGGCCCATTAGGCCCAAACCACA
Found at i:87203406 original size:412 final size:412
Alignment explanation
Indices: 87202636--87203410 Score: 1496
Period size: 412 Copynumber: 1.9 Consensus size: 412
87202626 GCTTTTTGAC
* * *
87202636 ATTTCAGCATTTCGACTTTTATCGATCTACTTGTGTGTACTGTGTATGTACACACCTGGTAAGCA
1 ATTTCAGCATTTCGACTTTTACCGAACTACTTGTGTGTACAGTGTATGTACACACCTGGTAAGCA
87202701 AGCGTGCTACAATTCCCTTAGTTACCAACCTACAACGATATCATCCTTCAATTAATCGCATGCCT
66 AGCGTGCTACAATTCCCTTAGTTACCAACCTACAACGATATCATCCTTCAATTAATCGCATGCCT
87202766 AATGCATATCTTTAATAAAACCGAAACCTCACCTTAACCTTACCTTGAACACCAATCCCTAATAG
131 AATGCATATCTTTAATAAAACCGAAACCTCACCTTAACCTTACCTTGAACACCAATCCCTAATAG
87202831 TTTTTCCTCAATCACGTACTCCTTGGATCTATATTAATCTTACTTATTAAAACTAGAATAATAGG
196 TTTTTCCTCAATCACGTACTCCTTGGATCTATATTAATCTTACTTATTAAAACTAGAATAATAGG
87202896 TGACTCGTATCCAAAACAAGTCCCATTACCTTAACTATGACCATTTGGCCAACCAATATCAAGAG
261 TGACTCGTATCCAAAACAAGTCCCATTACCTTAACTATGACCATTTGGCCAACCAATATCAAGAG
87202961 CACTTACCAAAGTCTTTCACCTGAGGAGCAAATCGGAAAGGCTACCGTAGCTAAACTTTCGACTT
326 CACTTACCAAAGTCTTTCACCTGAGGAGCAAATCGGAAAGGCTACCGTAGCTAAACTTTCGACTT
87203026 TTCGACATTTAGACATTTCGGT
391 TTCGACATTTAGACATTTCGGT
* * *
87203048 ATTTCGGCATTTCGAGTTTTACCGAACTACTTGTGTGTGCAGTGTATGTACACACCTGGTAAGCA
1 ATTTCAGCATTTCGACTTTTACCGAACTACTTGTGTGTACAGTGTATGTACACACCTGGTAAGCA
87203113 AGCGTGCTACAATTCCCTTAGTTACCAACCTACAACGATATCATCCTTCAATTAATCGCATGCCT
66 AGCGTGCTACAATTCCCTTAGTTACCAACCTACAACGATATCATCCTTCAATTAATCGCATGCCT
87203178 AATGCATATCTTTAATAAAACCGAAACCTCACCTTAACCTTACCTTGAACACCAATCCCTAATAG
131 AATGCATATCTTTAATAAAACCGAAACCTCACCTTAACCTTACCTTGAACACCAATCCCTAATAG
87203243 TTTTTCCTCAATCACGTACTCCTTGGATCTATATTAATCTTACTTATTAAAACTAGAATAATAGG
196 TTTTTCCTCAATCACGTACTCCTTGGATCTATATTAATCTTACTTATTAAAACTAGAATAATAGG
87203308 TGACTCGTATCCAAAACAAGTCCCATTACCTTAACTATGACCATTTGGCCAACCAATATCAAGAG
261 TGACTCGTATCCAAAACAAGTCCCATTACCTTAACTATGACCATTTGGCCAACCAATATCAAGAG
87203373 CACTTACCAAAGTCTTTCACCTGAGGAGCAAATCGGAA
326 CACTTACCAAAGTCTTTCACCTGAGGAGCAAATCGGAA
87203411 GATATCCAAG
Statistics
Matches: 357, Mismatches: 6, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
412 357 1.00
ACGTcount: A:0.31, C:0.25, G:0.13, T:0.30
Consensus pattern (412 bp):
ATTTCAGCATTTCGACTTTTACCGAACTACTTGTGTGTACAGTGTATGTACACACCTGGTAAGCA
AGCGTGCTACAATTCCCTTAGTTACCAACCTACAACGATATCATCCTTCAATTAATCGCATGCCT
AATGCATATCTTTAATAAAACCGAAACCTCACCTTAACCTTACCTTGAACACCAATCCCTAATAG
TTTTTCCTCAATCACGTACTCCTTGGATCTATATTAATCTTACTTATTAAAACTAGAATAATAGG
TGACTCGTATCCAAAACAAGTCCCATTACCTTAACTATGACCATTTGGCCAACCAATATCAAGAG
CACTTACCAAAGTCTTTCACCTGAGGAGCAAATCGGAAAGGCTACCGTAGCTAAACTTTCGACTT
TTCGACATTTAGACATTTCGGT
Found at i:87204534 original size:29 final size:29
Alignment explanation
Indices: 87204471--87204541 Score: 88
Period size: 29 Copynumber: 2.4 Consensus size: 29
87204461 GTCGACCATC
*
87204471 AGGCCCAATTCACATTCATATAGCCTATA
1 AGGCCCAATTCACATTCATATAGCCGATA
* * * *
87204500 AAGCCCAATTCATATTCATATGGCCGATT
1 AGGCCCAATTCACATTCATATAGCCGATA
*
87204529 AGGCCCAAATCAC
1 AGGCCCAATTCAC
87204542 CTTTATATGT
Statistics
Matches: 34, Mismatches: 8, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
29 34 1.00
ACGTcount: A:0.34, C:0.28, G:0.13, T:0.25
Consensus pattern (29 bp):
AGGCCCAATTCACATTCATATAGCCGATA
Found at i:87204549 original size:29 final size:28
Alignment explanation
Indices: 87204517--87204577 Score: 88
Period size: 29 Copynumber: 2.1 Consensus size: 28
87204507 ATTCATATTC
87204517 ATATGGC-CGATTAGGCCCAAATCACCTTT
1 ATATGGCTCG-TTAGGCCCAAATCACC-TT
*
87204546 ATATGTCTCGTTAGGCCCAAATCACCTT
1 ATATGGCTCGTTAGGCCCAAATCACCTT
87204574 ATAT
1 ATAT
87204578 TCATGCTCAC
Statistics
Matches: 30, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
28 6 0.20
29 22 0.73
30 2 0.07
ACGTcount: A:0.28, C:0.26, G:0.15, T:0.31
Consensus pattern (28 bp):
ATATGGCTCGTTAGGCCCAAATCACCTT
Found at i:87204831 original size:16 final size:16
Alignment explanation
Indices: 87204789--87204823 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
87204779 GCAACCAAAC
* *
87204789 TTTCGACTTTTGGGCA
1 TTTCGCCTTTTCGGCA
87204805 TTTCGCCTTTTCGGCA
1 TTTCGCCTTTTCGGCA
87204821 TTT
1 TTT
87204824 TGGCTTTTGT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.09, C:0.23, G:0.20, T:0.49
Consensus pattern (16 bp):
TTTCGCCTTTTCGGCA
Found at i:87209933 original size:42 final size:42
Alignment explanation
Indices: 87209874--87210040 Score: 201
Period size: 42 Copynumber: 4.0 Consensus size: 42
87209864 GGAAATATTT
*
87209874 GAGATAGCTTCAGCTATGCATTAGCACTTAGTGTGCGAGATC
1 GAGATAGCTTCAGCTATGCATTGGCACTTAGTGTGCGAGATC
* *
87209916 GAGATAGCTTCGGCTATGCATTGGCACTTAGTGTTCGAGATC
1 GAGATAGCTTCAGCTATGCATTGGCACTTAGTGTGCGAGATC
* * * *
87209958 AAGATAGCTTC-GACTATGCATTGGCACTTAGTGTGTGTGATT
1 GAGATAGCTTCAG-CTATGCATTGGCACTTAGTGTGCGAGATC
* *** * *
87210000 GAGTTAGCTTCAGCTACATATTGGCACTTAGTTTACGAGAT
1 GAGATAGCTTCAGCTATGCATTGGCACTTAGTGTGCGAGAT
87210041 TCCCGAGTAA
Statistics
Matches: 106, Mismatches: 17, Indels: 4
0.83 0.13 0.03
Matches are distributed among these distances:
41 1 0.01
42 104 0.98
43 1 0.01
ACGTcount: A:0.25, C:0.17, G:0.26, T:0.32
Consensus pattern (42 bp):
GAGATAGCTTCAGCTATGCATTGGCACTTAGTGTGCGAGATC
Found at i:87210156 original size:32 final size:32
Alignment explanation
Indices: 87210111--87210174 Score: 110
Period size: 32 Copynumber: 2.0 Consensus size: 32
87210101 ATGAGATTGG
* *
87210111 TACGAGATTGTACAGGTATGTACGAAAATTCA
1 TACGAGATGGTACAAGTATGTACGAAAATTCA
87210143 TACGAGATGGTACAAGTATGTACGAAAATTCA
1 TACGAGATGGTACAAGTATGTACGAAAATTCA
87210175 ATTGAGTGTT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.39, C:0.12, G:0.22, T:0.27
Consensus pattern (32 bp):
TACGAGATGGTACAAGTATGTACGAAAATTCA
Found at i:87211731 original size:24 final size:24
Alignment explanation
Indices: 87211703--87211800 Score: 115
Period size: 24 Copynumber: 4.0 Consensus size: 24
87211693 AAGGCTGACA
*
87211703 GGAGAAGATTTAGGAGCTGATAAG
1 GGAGAAGATTTAGAAGCTGATAAG
* *
87211727 GGAGAGGATTTAGGAGCTGATAAG
1 GGAGAAGATTTAGAAGCTGATAAG
* * * * *
87211751 GGAGAGGTTTTAGAATCTAATAAA
1 GGAGAAGATTTAGAAGCTGATAAG
87211775 GGAGAAGATTTAGAAGCTGATCAAG
1 GGAGAAGATTTAGAAGCTGAT-AAG
87211800 G
1 G
87211801 AGCAGGAGTT
Statistics
Matches: 62, Mismatches: 11, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
24 59 0.95
25 3 0.05
ACGTcount: A:0.38, C:0.05, G:0.35, T:0.22
Consensus pattern (24 bp):
GGAGAAGATTTAGAAGCTGATAAG
Found at i:87219674 original size:24 final size:24
Alignment explanation
Indices: 87219641--87219738 Score: 133
Period size: 24 Copynumber: 4.0 Consensus size: 24
87219631 AAGGCTATCA
*
87219641 GGAGAAGATTTAGGAGCTGTTAAG
1 GGAGAAGATTTAGGAGCTGATAAG
*
87219665 GGAGAGGATTTAGGAGCTGATAAG
1 GGAGAAGATTTAGGAGCTGATAAG
* * *
87219689 GGAGAGGATTTAGGAGATGATAAA
1 GGAGAAGATTTAGGAGCTGATAAG
*
87219713 GGAGAAGATTTAGAAGCTGATCAAG
1 GGAGAAGATTTAGGAGCTGAT-AAG
87219738 G
1 G
87219739 AGCAGGAGTT
Statistics
Matches: 65, Mismatches: 8, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
24 62 0.95
25 3 0.05
ACGTcount: A:0.37, C:0.04, G:0.38, T:0.21
Consensus pattern (24 bp):
GGAGAAGATTTAGGAGCTGATAAG
Found at i:87227981 original size:47 final size:47
Alignment explanation
Indices: 87227912--87228834 Score: 1648
Period size: 47 Copynumber: 19.7 Consensus size: 47
87227902 GGCCATAAGT
87227912 GAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATCTCAC
1 GAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATCTCAC
* * * *
87227959 GAACTCGGACTCAACTCAACGAGTTC-G--GCGT--TTGCATCCATGAGT
1 GAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT-C-TCA-C
* * * * *
87228004 GAACTCAGACTCAACTCAACGAGTTCGGA---C-ATTTGCATCCATAAGT
1 GAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT-C-TCA-C
87228050 GAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATCTCAC
1 GAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATCTCAC
87228097 GAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATCTCAC
1 GAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATCTCAC
87228144 GAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATCTCAC
1 GAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATCTCAC
87228191 GAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATCTCAC
1 GAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATCTCAC
87228238 GAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATCTCAC
1 GAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATCTCAC
87228285 GAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATCTCAC
1 GAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATCTCAC
87228332 GAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATCTCAC
1 GAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATCTCAC
87228379 GAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATCTCAC
1 GAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATCTCAC
87228426 GAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATCTCAC
1 GAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATCTCAC
87228473 GAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATCTCAC
1 GAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATCTCAC
87228520 GAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATCTCAC
1 GAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATCTCAC
87228567 GAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATCTCAC
1 GAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATCTCAC
87228614 GAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATCTCAC
1 GAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATCTCAC
87228661 GAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATCTCAC
1 GAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATCTCAC
87228708 GAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATCTCAC
1 GAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATCTCAC
87228755 GAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATCTCAC
1 GAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATCTCAC
87228802 GAACTCGGACTCAACTCAACGAGTTCGGATGCC
1 GAACTCGGACTCAACTCAACGAGTTCGGATGCC
87228835 CAAATATCCC
Statistics
Matches: 853, Mismatches: 12, Indels: 22
0.96 0.01 0.02
Matches are distributed among these distances:
42 5 0.01
43 1 0.00
44 5 0.01
45 25 0.03
46 43 0.05
47 764 0.90
48 2 0.00
49 2 0.00
50 6 0.01
ACGTcount: A:0.28, C:0.29, G:0.20, T:0.23
Consensus pattern (47 bp):
GAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:87229328 original size:47 final size:47
Alignment explanation
Indices: 87229274--87229366 Score: 177
Period size: 47 Copynumber: 2.0 Consensus size: 47
87229264 TACAATTTTA
*
87229274 CCCCTAAACTTTTGCATATTTACACTTTTGCCCCAAAGCTCGTAAAG
1 CCCCTAAACTTTTCCATATTTACACTTTTGCCCCAAAGCTCGTAAAG
87229321 CCCCTAAACTTTTCCATATTTACACTTTTGCCCCAAAGCTCGTAAA
1 CCCCTAAACTTTTCCATATTTACACTTTTGCCCCAAAGCTCGTAAA
87229367 TTAAACTTCA
Statistics
Matches: 45, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
47 45 1.00
ACGTcount: A:0.28, C:0.31, G:0.09, T:0.32
Consensus pattern (47 bp):
CCCCTAAACTTTTCCATATTTACACTTTTGCCCCAAAGCTCGTAAAG
Found at i:87233099 original size:26 final size:26
Alignment explanation
Indices: 87233070--87233131 Score: 97
Period size: 26 Copynumber: 2.4 Consensus size: 26
87233060 CAACCTTAAC
* *
87233070 CCTAGTGGTATATCAGTAATTTTGCT
1 CCTAGGGGCATATCAGTAATTTTGCT
*
87233096 CCTAGGGGCATATCAGTAATTTTTCT
1 CCTAGGGGCATATCAGTAATTTTGCT
87233122 CCTAGGGGCA
1 CCTAGGGGCA
87233132 AATCTATAAA
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 33 1.00
ACGTcount: A:0.23, C:0.19, G:0.23, T:0.35
Consensus pattern (26 bp):
CCTAGGGGCATATCAGTAATTTTGCT
Found at i:87233152 original size:27 final size:26
Alignment explanation
Indices: 87233081--87233152 Score: 83
Period size: 26 Copynumber: 2.7 Consensus size: 26
87233071 CTAGTGGTAT
* *
87233081 ATCAGTAATTTTGCTCCTAGGGGCAT
1 ATCAGTAATTTTCCTCCTAGGGGCAA
*
87233107 ATCAGTAATTTTTCTCCTAGGGGCAA
1 ATCAGTAATTTTCCTCCTAGGGGCAA
*
87233133 ATCTA-TAAATTTTCCACCTA
1 ATC-AGT-AATTTTCCTCCTA
87233153 TAAAGGTATT
Statistics
Matches: 40, Mismatches: 4, Indels: 3
0.85 0.09 0.06
Matches are distributed among these distances:
26 28 0.70
27 12 0.30
ACGTcount: A:0.28, C:0.21, G:0.15, T:0.36
Consensus pattern (26 bp):
ATCAGTAATTTTCCTCCTAGGGGCAA
Found at i:87236532 original size:28 final size:27
Alignment explanation
Indices: 87236469--87236593 Score: 187
Period size: 28 Copynumber: 4.6 Consensus size: 27
87236459 ATATTAAGTC
* *
87236469 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAATCAACT
87236496 CGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTACATAATC-AACT
*
87236524 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAATC-AACT
* *
87236552 CGCACACTTAGTGCTACATAGTCAATT
1 CGCACACTTAGTGCTACATAATCAACT
87236579 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
87236594 GCACAATTTA
Statistics
Matches: 93, Mismatches: 4, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
27 39 0.42
28 54 0.58
ACGTcount: A:0.31, C:0.29, G:0.14, T:0.26
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAATCAACT
Found at i:87236614 original size:56 final size:56
Alignment explanation
Indices: 87236469--87236593 Score: 173
Period size: 55 Copynumber: 2.3 Consensus size: 56
87236459 ATATTAAGTC
* * * *
87236469 CGCACACTCAGTGCTATATAATC-AACTCGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTACATAGTCAAACCCGCACACTTAGTGCTACATAATCAAACT
* * *
87236524 CGCACACTTAGTGCTACATAGTCAAACTCGCACACTTAGTGCTACATAGTC-AATT
1 CGCACACTTAGTGCTACATAGTCAAACCCGCACACTTAGTGCTACATAATCAAACT
87236579 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
87236594 GCACAATTTA
Statistics
Matches: 64, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
55 38 0.59
56 26 0.41
ACGTcount: A:0.31, C:0.29, G:0.14, T:0.26
Consensus pattern (56 bp):
CGCACACTTAGTGCTACATAGTCAAACCCGCACACTTAGTGCTACATAATCAAACT
Found at i:87240118 original size:93 final size:93
Alignment explanation
Indices: 87240006--87240178 Score: 274
Period size: 93 Copynumber: 1.9 Consensus size: 93
87239996 CGCCGATAAG
* * *
87240006 CGAACTCGGACTAAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCAGACTCAACTCA
1 CGAACTCAGACTAAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCAGACTCAACTCA
87240071 ACAAGCTCGGATGCCTAGTTACATCTCA
66 ACAAGCTCGGATGCCTAGTTACATCTCA
* * *
87240099 CGAACTCAGACTCAACTCAACGAGTTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCAGACTAAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCAGACTCAACTCA
* *
87240164 ACGAGTTCGGATGCC
66 ACAAGCTCGGATGCC
87240179 CAAATATCCC
Statistics
Matches: 72, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
93 72 1.00
ACGTcount: A:0.29, C:0.31, G:0.20, T:0.20
Consensus pattern (93 bp):
CGAACTCAGACTAAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCAGACTCAACTCA
ACAAGCTCGGATGCCTAGTTACATCTCA
Found at i:87240174 original size:46 final size:46
Alignment explanation
Indices: 87240001--87240174 Score: 174
Period size: 46 Copynumber: 3.8 Consensus size: 46
87239991 TAACCCGCCG
* * * *
87240001 ATAAGCGAACTCGGACTAAACTCAACGAGCTCGGGCGTTCGCATCC
1 ATAAGCGAACTCAGACTCAACTCAACGAGCTCGGACGCTCGCATCC
* * * *
87240047 ATAAGTGAACTCAGACTCAACTCAACAAGCTCGGATGCCTAGTTACAT-C
1 ATAAGCGAACTCAGACTCAACTCAACGAGCTCGGACG-CTCG---CATCC
* *
87240096 -TCA-CGAACTCAGACTCAACTCAACGAGTTCGGACGCTCGCATCC
1 ATAAGCGAACTCAGACTCAACTCAACGAGCTCGGACGCTCGCATCC
* * *
87240140 ATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 ATAAGCGAACTCAGACTCAACTCAACGAGCTCGGA
87240175 TGCCCAAATA
Statistics
Matches: 104, Mismatches: 17, Indels: 14
0.77 0.13 0.10
Matches are distributed among these distances:
43 3 0.03
44 1 0.01
45 2 0.02
46 62 0.60
47 30 0.29
48 2 0.02
49 1 0.01
50 3 0.03
ACGTcount: A:0.31, C:0.29, G:0.20, T:0.20
Consensus pattern (46 bp):
ATAAGCGAACTCAGACTCAACTCAACGAGCTCGGACGCTCGCATCC
Found at i:87240193 original size:46 final size:45
Alignment explanation
Indices: 87240050--87240193 Score: 121
Period size: 46 Copynumber: 3.1 Consensus size: 45
87240040 CGCATCCATA
* * * *
87240050 AGTGAACTCAGACTCAACTCAACAAGCTCGGATGCCTAGTTACATCTC
1 AGTGAACTCAGACTCAACTCAACGAGTTCGGATGCCCA---ACATCCC
* * * * *
87240098 A-CGAACTCAGACTCAACTCAACGAGTTCGGACGCTC-GCATCCATA
1 AGTGAACTCAGACTCAACTCAACGAGTTCGGATGCCCAACATCC--C
* *
87240143 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCAAATATCCC
1 AGTGAACTCAGACTCAACTCAACGAGTTCGGATGCCC-AACATCCC
87240189 AGTGA
1 AGTGA
87240194 CATGTCACTT
Statistics
Matches: 75, Mismatches: 16, Indels: 12
0.73 0.16 0.12
Matches are distributed among these distances:
43 4 0.05
45 1 0.01
46 36 0.48
47 29 0.39
48 5 0.07
ACGTcount: A:0.31, C:0.30, G:0.19, T:0.20
Consensus pattern (45 bp):
AGTGAACTCAGACTCAACTCAACGAGTTCGGATGCCCAACATCCC
Found at i:87240767 original size:74 final size:74
Alignment explanation
Indices: 87240646--87240793 Score: 278
Period size: 74 Copynumber: 2.0 Consensus size: 74
87240636 ATACACTTTT
*
87240646 GCCCCAAAGCTCGTAAATTAAACTTCAGCCTATTTTCTTATGTTTTATGACATGCTGATCATTTT
1 GCCCCAAAGCTCGTAAATTAAACTTCAGCATATTTTCTTATGTTTTATGACATGCTGATCATTTT
87240711 TCCCTTCTA
66 TCCCTTCTA
*
87240720 GCCCCAAATCTCGTAAATTAAACTTCAGCATATTTTCTTATGTTTTATGACATGCTGATCATTTT
1 GCCCCAAAGCTCGTAAATTAAACTTCAGCATATTTTCTTATGTTTTATGACATGCTGATCATTTT
87240785 TCCCTTCTA
66 TCCCTTCTA
87240794 TGGAAACATC
Statistics
Matches: 72, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
74 72 1.00
ACGTcount: A:0.25, C:0.24, G:0.10, T:0.41
Consensus pattern (74 bp):
GCCCCAAAGCTCGTAAATTAAACTTCAGCATATTTTCTTATGTTTTATGACATGCTGATCATTTT
TCCCTTCTA
Found at i:87240886 original size:76 final size:76
Alignment explanation
Indices: 87240760--87240912 Score: 306
Period size: 76 Copynumber: 2.0 Consensus size: 76
87240750 TATTTTCTTA
87240760 TGTTTTATGACATGCTGATCATTTTTCCCTTCTATGGAAACATCAAATTCTCACTCTAACATGTA
1 TGTTTTATGACATGCTGATCATTTTTCCCTTCTATGGAAACATCAAATTCTCACTCTAACATGTA
87240825 CTTATGACTAT
66 CTTATGACTAT
87240836 TGTTTTATGACATGCTGATCATTTTTCCCTTCTATGGAAACATCAAATTCTCACTCTAACATGTA
1 TGTTTTATGACATGCTGATCATTTTTCCCTTCTATGGAAACATCAAATTCTCACTCTAACATGTA
87240901 CTTATGACTAT
66 CTTATGACTAT
87240912 T
1 T
87240913 AGGTATTTTT
Statistics
Matches: 77, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
76 77 1.00
ACGTcount: A:0.27, C:0.21, G:0.10, T:0.41
Consensus pattern (76 bp):
TGTTTTATGACATGCTGATCATTTTTCCCTTCTATGGAAACATCAAATTCTCACTCTAACATGTA
CTTATGACTAT
Found at i:87242994 original size:46 final size:47
Alignment explanation
Indices: 87242927--87243140 Score: 187
Period size: 46 Copynumber: 4.6 Consensus size: 47
87242917 TCATTTGTGT
*
87242927 GCTAGTGTAAGA-CATGTCTGGGACATGCATCAGCCTCGGA-ATGTAA
1 GCTAGTGTAAGACCATGTCTGGGACATGCATC-GGCTCGGAGATGTAA
**
87242973 GCTAGTGTAAGA-CATGTCTGGGACATGCA-CTGGCTATGAGATGT--
1 GCTAGTGTAAGACCATGTCTGGGACATGCATC-GGCTCGGAGATGTAA
* * * * *
87243017 GCCAGTGTAA-ACCATGTCTGGGATATGGAATCGGCACGGATATGTGAGA
1 GCTAGTGTAAGACCATGTCTGGGACAT-GCATCGGCTCGGAGATGT-A-A
* *
87243066 GCTAGTGTAAGACCATGTCTGGGACATGGCATCGACT-TGATGGATG-AA
1 GCTAGTGTAAGACCATGTCTGGGACAT-GCATCGGCTCGGA--GATGTAA
*
87243114 -CTAGTGTAAGACCATGTCTGGGTCATG
1 GCTAGTGTAAGACCATGTCTGGGACATG
87243141 GCATTAACAT
Statistics
Matches: 138, Mismatches: 19, Indels: 22
0.77 0.11 0.12
Matches are distributed among these distances:
43 1 0.01
44 22 0.16
45 17 0.12
46 35 0.25
47 25 0.18
48 1 0.01
49 12 0.09
50 22 0.16
51 3 0.02
ACGTcount: A:0.27, C:0.17, G:0.31, T:0.25
Consensus pattern (47 bp):
GCTAGTGTAAGACCATGTCTGGGACATGCATCGGCTCGGAGATGTAA
Found at i:87243126 original size:47 final size:48
Alignment explanation
Indices: 87242928--87243144 Score: 165
Period size: 47 Copynumber: 4.6 Consensus size: 48
87242918 CATTTGTGTG
*
87242928 CTAGTGTAAGA-CATGTCTGGGACAT-GCATCAGCCTCG--GA-ATGTAA
1 CTAGTGTAAGACCATGTCTGGGACATGGCATCAGACT-GATGAGATG-AA
* * **
87242973 GCTAGTGTAAGA-CATGTCTGGGACAT-GCA-CTGGCT-ATGAGATGTG
1 -CTAGTGTAAGACCATGTCTGGGACATGGCATCAGACTGATGAGATGAA
* * * * *
87243018 CCAGTGTAA-ACCATGTCTGGGATATGGAATCGGCACGGAT-ATG-TGAGA
1 CTAGTGTAAGACCATGTCTGGGACATGGCATCAG-ACTGATGA-GATGA-A
87243066 GCTAGTGTAAGACCATGTCTGGGACATGGCATC-GACTTGATG-GATGAA
1 -CTAGTGTAAGACCATGTCTGGGACATGGCATCAGAC-TGATGAGATGAA
*
87243114 CTAGTGTAAGACCATGTCTGGGTCATGGCAT
1 CTAGTGTAAGACCATGTCTGGGACATGGCAT
87243145 TAACATTATA
Statistics
Matches: 139, Mismatches: 17, Indels: 29
0.75 0.09 0.16
Matches are distributed among these distances:
43 1 0.01
44 21 0.15
45 8 0.06
46 33 0.24
47 34 0.24
48 7 0.05
49 15 0.11
50 20 0.14
ACGTcount: A:0.27, C:0.18, G:0.30, T:0.25
Consensus pattern (48 bp):
CTAGTGTAAGACCATGTCTGGGACATGGCATCAGACTGATGAGATGAA
Found at i:87249283 original size:42 final size:42
Alignment explanation
Indices: 87249177--87249335 Score: 180
Period size: 43 Copynumber: 3.7 Consensus size: 42
87249167 ATATGTGTTA
* *
87249177 TCATGTAAGACCACGTCTAGGACGTTGGCATCGACT-TATGTTT
1 TCATGTAAGACCACGTCTGGGACGTTGGCATCGA-TAT-TGATT
* *
87249220 TACTTGTAAGACCACGCCTGGGACGTTGGCATCGATATTGATT
1 T-CATGTAAGACCACGTCTGGGACGTTGGCATCGATATTGATT
*
87249263 TCATGTAAGACC-CTGTCTGGGATAG-TGGCATCGATATTTGATT
1 TCATGTAAGACCAC-GTCTGGGA-CGTTGGCATCGATA-TTGATT
* *
87249306 ACATGTAAGACCACGTCTGGGACATTGGCA
1 TCATGTAAGACCACGTCTGGGACGTTGGCA
87249336 CTTATGAGCT
Statistics
Matches: 99, Mismatches: 10, Indels: 14
0.80 0.08 0.11
Matches are distributed among these distances:
41 1 0.01
42 28 0.28
43 38 0.38
44 32 0.32
ACGTcount: A:0.25, C:0.20, G:0.25, T:0.30
Consensus pattern (42 bp):
TCATGTAAGACCACGTCTGGGACGTTGGCATCGATATTGATT
Found at i:87249324 original size:43 final size:43
Alignment explanation
Indices: 87249178--87249335 Score: 182
Period size: 42 Copynumber: 3.7 Consensus size: 43
87249168 TATGTGTTAT
*
87249178 CATGTAAGACCACGTCTAGGACGTTGGCATCGACTTATGTT--TTA
1 CATGTAAGACCACGTCTGGGACGTTGGCATCGA--TAT-TTGATTA
* * *
87249222 CTTGTAAGACCACGCCTGGGACGTTGGCATCGATA-TTGATTT
1 CATGTAAGACCACGTCTGGGACGTTGGCATCGATATTTGATTA
*
87249264 CATGTAAGACC-CTGTCTGGGATAG-TGGCATCGATATTTGATTA
1 CATGTAAGACCAC-GTCTGGGA-CGTTGGCATCGATATTTGATTA
*
87249307 CATGTAAGACCACGTCTGGGACATTGGCA
1 CATGTAAGACCACGTCTGGGACGTTGGCA
87249336 CTTATGAGCT
Statistics
Matches: 97, Mismatches: 10, Indels: 15
0.80 0.08 0.12
Matches are distributed among these distances:
40 2 0.02
41 1 0.01
42 32 0.33
43 31 0.32
44 31 0.32
ACGTcount: A:0.25, C:0.20, G:0.25, T:0.30
Consensus pattern (43 bp):
CATGTAAGACCACGTCTGGGACGTTGGCATCGATATTTGATTA
Found at i:87254817 original size:25 final size:25
Alignment explanation
Indices: 87254762--87254823 Score: 70
Period size: 25 Copynumber: 2.5 Consensus size: 25
87254752 AATCAAAATG
**
87254762 AGAATCAGAATCAAAATCAGGTGAC
1 AGAATCAGAATCAAAATCAGGAAAC
* * **
87254787 AAAATCAAAATCAGTATCAGGAAAC
1 AGAATCAGAATCAAAATCAGGAAAC
87254812 AGAATCAGAATC
1 AGAATCAGAATC
87254824 TGAATGTGAA
Statistics
Matches: 29, Mismatches: 8, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
25 29 1.00
ACGTcount: A:0.52, C:0.16, G:0.16, T:0.16
Consensus pattern (25 bp):
AGAATCAGAATCAAAATCAGGAAAC
Found at i:87254980 original size:27 final size:28
Alignment explanation
Indices: 87254950--87255010 Score: 81
Period size: 27 Copynumber: 2.2 Consensus size: 28
87254940 GGTTGCCAGA
* *
87254950 ACAGATATTGTGATAGAGTCACCA-AAT
1 ACAGATATTGTGACAGAGCCACCAGAAT
*
87254977 ACAGATATTGTGGCAGAGCCACCAGAAT
1 ACAGATATTGTGACAGAGCCACCAGAAT
87255005 -CAGATA
1 ACAGATA
87255011 ATGTAGCAAA
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
27 27 0.90
28 3 0.10
ACGTcount: A:0.39, C:0.18, G:0.21, T:0.21
Consensus pattern (28 bp):
ACAGATATTGTGACAGAGCCACCAGAAT
Found at i:87255023 original size:27 final size:27
Alignment explanation
Indices: 87254969--87255024 Score: 69
Period size: 27 Copynumber: 2.1 Consensus size: 27
87254959 GTGATAGAGT
* * *
87254969 CACCAAATACAGATATTGTGGCAGAGC
1 CACCAAATACAGATAATGTAGCAAAGC
87254996 CACCAGAAT-CAGATAATGTAGCAAAGC
1 CACCA-AATACAGATAATGTAGCAAAGC
87255023 CA
1 CA
87255025 ATTAACAGAA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
27 22 0.88
28 3 0.12
ACGTcount: A:0.41, C:0.23, G:0.20, T:0.16
Consensus pattern (27 bp):
CACCAAATACAGATAATGTAGCAAAGC
Found at i:87255100 original size:20 final size:20
Alignment explanation
Indices: 87255075--87255129 Score: 92
Period size: 20 Copynumber: 2.8 Consensus size: 20
87255065 TATAATTCGC
*
87255075 ACGAAGCCCACAATACCGAT
1 ACGAAGCCCACAATACCAAT
*
87255095 ACGAAGCCCACAATATCAAT
1 ACGAAGCCCACAATACCAAT
87255115 ACGAAGCCCACAATA
1 ACGAAGCCCACAATA
87255130 ACGGCACACA
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 33 1.00
ACGTcount: A:0.44, C:0.33, G:0.13, T:0.11
Consensus pattern (20 bp):
ACGAAGCCCACAATACCAAT
Found at i:87255840 original size:81 final size:80
Alignment explanation
Indices: 87255714--87255880 Score: 244
Period size: 81 Copynumber: 2.1 Consensus size: 80
87255704 CAAAATGGTA
* * *
87255714 ATTTTACCCCACAAGGGTATCTCGGTAATTCTACCCTATAGGGGTATTTCGGTATTTCTACCCTA
1 ATTTTACCCCACAAGGGTATCTCGGTAATTCTACCCTACAGGGGTATTTCAGTAATTCTACCCTA
87255779 CAGGGGTATTTCGAT
66 CAGGGGTATTTCGAT
* * *
87255794 ATTTCTACCCTACAAGGGTATTTCGGTAATTCTACCCTACATGGGTATTTCAGTAATTCTACCCT
1 ATTT-TACCCCACAAGGGTATCTCGGTAATTCTACCCTACAGGGGTATTTCAGTAATTCTACCCT
* *
87255859 ATAGGGGTATTTCAAT
65 ACAGGGGTATTTCGAT
87255875 AATTTT
1 -ATTTT
87255881 GTAAATCGAG
Statistics
Matches: 77, Mismatches: 8, Indels: 3
0.88 0.09 0.03
Matches are distributed among these distances:
80 4 0.05
81 69 0.90
82 4 0.05
ACGTcount: A:0.25, C:0.21, G:0.17, T:0.37
Consensus pattern (80 bp):
ATTTTACCCCACAAGGGTATCTCGGTAATTCTACCCTACAGGGGTATTTCAGTAATTCTACCCTA
CAGGGGTATTTCGAT
Found at i:87255878 original size:27 final size:27
Alignment explanation
Indices: 87255710--87255871 Score: 216
Period size: 27 Copynumber: 6.0 Consensus size: 27
87255700 GGGGCAAAAT
* * * *
87255710 GGTAATTTTACCCCACAAGGGTATCTC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
87255737 GGTAATTCTACCCTATAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
87255764 GGTATTTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* * *
87255791 GATATTTCTACCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
87255818 GGTAATTCTACCCTACATGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
87255845 AGTAATTCTACCCTATAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
87255872 AATAATTTTG
Statistics
Matches: 120, Mismatches: 15, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 120 1.00
ACGTcount: A:0.23, C:0.22, G:0.19, T:0.36
Consensus pattern (27 bp):
GGTAATTCTACCCTACAGGGGTATTTC
Found at i:87255947 original size:27 final size:26
Alignment explanation
Indices: 87255910--87256149 Score: 241
Period size: 27 Copynumber: 8.9 Consensus size: 26
87255900 GTAATTCTGT
*
87255910 AAATAGGGGGTACTTTGGTAATTTTAC
1 AAATA-GGGGTATTTTGGTAATTTTAC
**
87255937 AAGAT-GAGGGTATTTCAGTAATTTTAC
1 AA-ATAG-GGGTATTTTGGTAATTTTAC
* * *
87255964 AGGA-CGAGGGTATTTTAGTAATTTTAC
1 A-AATAG-GGGTATTTTGGTAATTTTAC
87255991 AAATTAGGGGTATTTTGGTAATTTTAC
1 AAA-TAGGGGTATTTTGGTAATTTTAC
*
87256018 AAACTAGGGGTATTTTGGTAATTTTAT
1 AAA-TAGGGGTATTTTGGTAATTTTAC
87256045 AAACTAGGGGTATTTTGGTAATTTTAC
1 AAA-TAGGGGTATTTTGGTAATTTTAC
* *
87256072 AAACTAGGGGTATTTTGGAAATTTTATG
1 AAA-TAGGGGTATTTTGGTAATTTTA-C
* * *
87256100 AACTAGGGGTATTTTGGTCATTTTTC
1 AAATAGGGGTATTTTGGTAATTTTAC
* *
87256126 TAATCGAGGGTATTTTGGTAATTT
1 AAATAG-GGGTATTTTGGTAATTT
87256150 GGTAAACTAA
Statistics
Matches: 183, Mismatches: 22, Indels: 16
0.83 0.10 0.07
Matches are distributed among these distances:
26 5 0.03
27 173 0.95
28 5 0.03
ACGTcount: A:0.29, C:0.06, G:0.24, T:0.41
Consensus pattern (26 bp):
AAATAGGGGTATTTTGGTAATTTTAC
Found at i:87256158 original size:54 final size:54
Alignment explanation
Indices: 87255916--87256158 Score: 269
Period size: 54 Copynumber: 4.5 Consensus size: 54
87255906 CTGTAAATAG
* * ** *
87255916 GGGGTACTTTGGTAATTTTACAAGA-T-GAGGGTATTTCAGTAATTTTACAGGACGA
1 GGGGTATTTTGGTAATTTTATAA-ACTAG-GGGTATTTTGGTAATTTTACA-AACGA
* * * *
87255971 -GGGTATTTTAGTAATTTTACAAATTAGGGGTATTTTGGTAATTTTACAAACTA
1 GGGGTATTTTGGTAATTTTATAAACTAGGGGTATTTTGGTAATTTTACAAACGA
*
87256024 GGGGTATTTTGGTAATTTTATAAACTAGGGGTATTTTGGTAATTTTACAAACTA
1 GGGGTATTTTGGTAATTTTATAAACTAGGGGTATTTTGGTAATTTTACAAACGA
* * * * *
87256078 GGGGTATTTTGGAAATTTTATGAACTAGGGGTATTTTGGTCATTTTTCTAATCGA
1 GGGGTATTTTGGTAATTTTATAAACTAGGGGTATTTTGGTAATTTTAC-AAACGA
**
87256133 -GGGTATTTTGGTAATTTGGTAAACTA
1 GGGGTATTTTGGTAATTTTATAAACTA
87256159 AAGTATTCTA
Statistics
Matches: 165, Mismatches: 19, Indels: 9
0.85 0.10 0.05
Matches are distributed among these distances:
53 4 0.02
54 156 0.95
55 5 0.03
ACGTcount: A:0.28, C:0.07, G:0.24, T:0.41
Consensus pattern (54 bp):
GGGGTATTTTGGTAATTTTATAAACTAGGGGTATTTTGGTAATTTTACAAACGA
Found at i:87256158 original size:81 final size:80
Alignment explanation
Indices: 87255916--87256149 Score: 274
Period size: 81 Copynumber: 2.9 Consensus size: 80
87255906 CTGTAAATAG
* * ** * *
87255916 GGGGTACTTTGGTAATTTTACAAGA-T-GAGGGTATTTCAGTAATTTTACAGGACGAGGGTATTT
1 GGGGTATTTTGGAAATTTTACAA-ACTAG-GGGTATTTTGGTAATTTTATA-AACGAGGGTATTT
* *
87255979 TAGTAATTTTACAAATTA
63 TGGTAATTTTACAAACTA
* *
87255997 GGGGTATTTTGGTAATTTTACAAACTAGGGGTATTTTGGTAATTTTATAAACTAGGGGTATTTTG
1 GGGGTATTTTGGAAATTTTACAAACTAGGGGTATTTTGGTAATTTTATAAACGA-GGGTATTTTG
87256062 GTAATTTTACAAACTA
65 GTAATTTTACAAACTA
** * * *
87256078 GGGGTATTTTGGAAATTTTATGAACTAGGGGTATTTTGGTCATTTTTCTAATCGAGGGTATTTTG
1 GGGGTATTTTGGAAATTTTACAAACTAGGGGTATTTTGGT-AATTTTATAAACGAGGGTATTTTG
87256143 GTAATTT
65 GTAATTT
87256150 GGTAAACTAA
Statistics
Matches: 134, Mismatches: 15, Indels: 8
0.85 0.10 0.05
Matches are distributed among these distances:
80 4 0.03
81 119 0.89
82 11 0.08
ACGTcount: A:0.28, C:0.06, G:0.24, T:0.42
Consensus pattern (80 bp):
GGGGTATTTTGGAAATTTTACAAACTAGGGGTATTTTGGTAATTTTATAAACGAGGGTATTTTGG
TAATTTTACAAACTA
Found at i:87261311 original size:68 final size:64
Alignment explanation
Indices: 87261246--87261453 Score: 206
Period size: 67 Copynumber: 3.2 Consensus size: 64
87261236 CATCATGTGT
*
87261246 ACAAGAGAGCTACAAGACATTATGATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATG
1 ACAAGAGAGCTAC--GAGA-TAT-ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATG
87261311 TAG
62 TAG
* * * * * *
87261314 ACAAGAGAGCTACGGGATATATGTAGCTAGGTCGCATGCGTGGTTCCAAGTGATGGACACCATGT
1 ACAAGAGAGCTACGAGATATATGTAGCTAGGTCGCATGGGT-GATACTA-TG-TGTACACCATGT
87261379 AG
63 AG
* * * * *
87261381 ACAAGAGAGCTACGAGATAAACTG--GCTAGGTCACATGGGTGGTACTAAGTGTTCACCATGT-G
1 ACAAGAGAGCTACGAGATATA-TGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAG
87261443 TACAAGAGAGC
1 -ACAAGAGAGC
87261454 CGAACTATAT
Statistics
Matches: 118, Mismatches: 17, Indels: 15
0.79 0.11 0.10
Matches are distributed among these distances:
62 1 0.01
63 20 0.17
64 21 0.18
65 11 0.09
66 18 0.15
67 32 0.27
68 15 0.13
ACGTcount: A:0.31, C:0.17, G:0.29, T:0.23
Consensus pattern (64 bp):
ACAAGAGAGCTACGAGATATATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAG
Found at i:87267243 original size:43 final size:43
Alignment explanation
Indices: 87267077--87267243 Score: 164
Period size: 43 Copynumber: 3.9 Consensus size: 43
87267067 TATAAGCTCG
* * * *
87267077 TACAATGCC-ATGTCCCAGATATGGTCATACATGCT-ATCAC-A
1 TACAATGCCAATGTCCCAGACATGGTCTTACACG-TAATCTCAA
* * * *
87267118 TATCAATGCCACTGTCCTAGACAGGGTCTTACACG-AA-ATCAA
1 TA-CAATGCCAATGTCCCAGACATGGTCTTACACGTAATCTCAA
* *
87267160 TTAACGATGCCGATGTCCCAGACATGGTCTTACACGTAATCTCAA
1 -T-ACAATGCCAATGTCCCAGACATGGTCTTACACGTAATCTCAA
*
87267205 TACAATGCCAATGTCCCAGACATGGTCTTACATGTAATC
1 TACAATGCCAATGTCCCAGACATGGTCTTACACGTAATC
87267244 ACATCTCGAT
Statistics
Matches: 101, Mismatches: 17, Indels: 14
0.77 0.13 0.11
Matches are distributed among these distances:
41 3 0.03
42 9 0.09
43 81 0.80
44 4 0.04
45 4 0.04
ACGTcount: A:0.31, C:0.26, G:0.16, T:0.26
Consensus pattern (43 bp):
TACAATGCCAATGTCCCAGACATGGTCTTACACGTAATCTCAA
Found at i:87269302 original size:20 final size:19
Alignment explanation
Indices: 87269266--87269316 Score: 54
Period size: 20 Copynumber: 2.7 Consensus size: 19
87269256 AAGGGCTATT
*
87269266 TTGTAAA-GTTGTAAAATAAA
1 TTGTAAATG-TGTGAAAT-AA
87269286 TTGTAAATGTGTGAAATAA
1 TTGTAAATGTGTGAAATAA
87269305 TTG-AAAT-TGTGA
1 TTGTAAATGTGTGA
87269317 GTTGCTATAG
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
17 5 0.17
18 4 0.14
19 5 0.17
20 14 0.48
21 1 0.03
ACGTcount: A:0.43, C:0.00, G:0.20, T:0.37
Consensus pattern (19 bp):
TTGTAAATGTGTGAAATAA
Found at i:87271309 original size:15 final size:15
Alignment explanation
Indices: 87271289--87271319 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
87271279 CTTATTATTT
87271289 TTTATACGGTCTTAC
1 TTTATACGGTCTTAC
87271304 TTTATACGGTCTTAC
1 TTTATACGGTCTTAC
87271319 T
1 T
87271320 AAGCTATAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.19, C:0.19, G:0.13, T:0.48
Consensus pattern (15 bp):
TTTATACGGTCTTAC
Found at i:87275647 original size:20 final size:18
Alignment explanation
Indices: 87275622--87275672 Score: 59
Period size: 20 Copynumber: 2.7 Consensus size: 18
87275612 AATGGCTATT
87275622 TTGTAAAGTTGTAAAATAAA
1 TTGTAAA-TTGTAAAAT-AA
*
87275642 TTGTAAATGTGTGAAATAA
1 TTGTAAAT-TGTAAAATAA
87275661 TTG-AAATTGTAA
1 TTGTAAATTGTAA
87275673 GTGGCTATAG
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
17 4 0.14
18 4 0.14
19 6 0.21
20 14 0.50
ACGTcount: A:0.45, C:0.00, G:0.18, T:0.37
Consensus pattern (18 bp):
TTGTAAATTGTAAAATAA
Found at i:87278265 original size:45 final size:45
Alignment explanation
Indices: 87278215--87278347 Score: 185
Period size: 45 Copynumber: 3.0 Consensus size: 45
87278205 GCTCGATATC
* *
87278215 ATTTCATCGGCATTATAGCCTACTAGGGTCAAAGGCCCGAATAGT
1 ATTTCACCGGCATTATAGCCTGCTAGGGTCAAAGGCCCGAATAGT
** *
87278260 ATTTCACCATCATTGTAGCCTGCTAGGGTCAAAGGCCCGAATAGT
1 ATTTCACCGGCATTATAGCCTGCTAGGGTCAAAGGCCCGAATAGT
* * * *
87278305 ATCTCACCGGCATCATAGCCTGCTAGGCTCAAAGGCTCGAATA
1 ATTTCACCGGCATTATAGCCTGCTAGGGTCAAAGGCCCGAATA
87278348 TTACTGTACG
Statistics
Matches: 76, Mismatches: 12, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
45 76 1.00
ACGTcount: A:0.28, C:0.26, G:0.22, T:0.25
Consensus pattern (45 bp):
ATTTCACCGGCATTATAGCCTGCTAGGGTCAAAGGCCCGAATAGT
Found at i:87285407 original size:93 final size:93
Alignment explanation
Indices: 87285282--87285452 Score: 297
Period size: 93 Copynumber: 1.8 Consensus size: 93
87285272 CCCATAAGTG
*
87285282 AACTCGGACTCAACTCAACAAGCTCGGGCATTCGCATCCATAAGTGAACTCGGACTCAACTCAAC
1 AACTCGGACTCAACTCAACAAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAAC
87285347 GAGCTCGGATGCCTAGTTACATCTCTCA
66 GAGCTCGGATGCCTAGTTACATCTCTCA
* * *
87285375 AACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAAT
1 AACTCGGACTCAACTCAACAAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAAC
*
87285440 GAGTTCGGATGCC
66 GAGCTCGGATGCC
87285453 CAAATATCCT
Statistics
Matches: 73, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 73 1.00
ACGTcount: A:0.29, C:0.30, G:0.19, T:0.22
Consensus pattern (93 bp):
AACTCGGACTCAACTCAACAAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAAC
GAGCTCGGATGCCTAGTTACATCTCTCA
Found at i:87285448 original size:46 final size:46
Alignment explanation
Indices: 87285273--87285448 Score: 200
Period size: 46 Copynumber: 3.8 Consensus size: 46
87285263 TGTAACCCGC
* *
87285273 CCATAAGTGAACTCGGACTCAACTCAACAAGCTCGGGCATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
*
87285319 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTT-ACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGA---C-A-TTCGCAT
* *
87285369 CTC-TCA---AACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 C-CATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
* *
87285412 CCATAAGTGAACTCGGACTCAACTCAATGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGA
87285449 TGCCCAAATA
Statistics
Matches: 111, Mismatches: 8, Indels: 22
0.79 0.06 0.16
Matches are distributed among these distances:
42 3 0.03
43 7 0.06
44 1 0.01
46 62 0.56
47 27 0.24
49 1 0.01
50 7 0.06
51 3 0.03
ACGTcount: A:0.30, C:0.29, G:0.19, T:0.22
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
Found at i:87316660 original size:57 final size:57
Alignment explanation
Indices: 87316542--87316660 Score: 132
Period size: 57 Copynumber: 2.1 Consensus size: 57
87316532 ATGTTATTCC
* * * *
87316542 ATTAACAACAAAGTTAACGTGTAATGATTAAAATGTCAGCTTTTCAAACGTACTGAN
1 ATTAACAACAAAGTTAACGTGTAAGGATTAAAATATCAGCTTTTCAAACGTACTAAG
* * * ** *
87316599 ATTAACAACAAAGTTAACGTTTAGGGATTGAAATATCTTCTTTTCAAATGTA-TAAAG
1 ATTAACAACAAAGTTAACGTGTAAGGATTAAAATATCAGCTTTTCAAACGTACT-AAG
87316656 ATTAA
1 ATTAA
87316661 AATATTTCTT
Statistics
Matches: 51, Mismatches: 10, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
56 1 0.02
57 50 0.98
ACGTcount: A:0.41, C:0.12, G:0.13, T:0.33
Consensus pattern (57 bp):
ATTAACAACAAAGTTAACGTGTAAGGATTAAAATATCAGCTTTTCAAACGTACTAAG
Found at i:87330610 original size:29 final size:29
Alignment explanation
Indices: 87330575--87330649 Score: 116
Period size: 29 Copynumber: 2.6 Consensus size: 29
87330565 GTTGTGAGAT
*
87330575 TGGCACTAAGTGTGCGAGCTTGAAA-TGCA
1 TGGCACTAAGTGTGCGAG-TTGAAAGTACA
*
87330604 TGGCACTAAGTGTGCGAGTTTAAAGTACA
1 TGGCACTAAGTGTGCGAGTTGAAAGTACA
87330633 TGGCACTAAGTGTGCGA
1 TGGCACTAAGTGTGCGA
87330650 ACCCACTATA
Statistics
Matches: 43, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
28 5 0.12
29 38 0.88
ACGTcount: A:0.28, C:0.16, G:0.31, T:0.25
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGAGTTGAAAGTACA
Found at i:87331551 original size:18 final size:18
Alignment explanation
Indices: 87331528--87331570 Score: 86
Period size: 18 Copynumber: 2.4 Consensus size: 18
87331518 GTGACATGTA
87331528 AGATGAATTATTAGTAAC
1 AGATGAATTATTAGTAAC
87331546 AGATGAATTATTAGTAAC
1 AGATGAATTATTAGTAAC
87331564 AGATGAA
1 AGATGAA
87331571 AAATCACGAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 25 1.00
ACGTcount: A:0.47, C:0.05, G:0.19, T:0.30
Consensus pattern (18 bp):
AGATGAATTATTAGTAAC
Found at i:87345349 original size:20 final size:20
Alignment explanation
Indices: 87345326--87345364 Score: 78
Period size: 20 Copynumber: 1.9 Consensus size: 20
87345316 TAAACATGGT
87345326 ATGTATGATATGCACATGAC
1 ATGTATGATATGCACATGAC
87345346 ATGTATGATATGCACATGA
1 ATGTATGATATGCACATGA
87345365 TGTAATCATA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.36, C:0.13, G:0.21, T:0.31
Consensus pattern (20 bp):
ATGTATGATATGCACATGAC
Found at i:87345468 original size:22 final size:23
Alignment explanation
Indices: 87345416--87345533 Score: 166
Period size: 23 Copynumber: 5.1 Consensus size: 23
87345406 AGGAAGTGTA
87345416 AAAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
*
87345439 AAAAGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
87345462 AAA-GGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
* * **
87345484 AAAGGGCTTGTACCTTAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
*
87345507 AAAAGGGCTTTTGCCCCAGTTATT
1 -AAAGGGCTTATGCCCCAGTTATT
87345531 AAA
1 AAA
87345534 AGAGGCTAGG
Statistics
Matches: 84, Mismatches: 9, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
22 22 0.26
23 43 0.51
24 19 0.23
ACGTcount: A:0.29, C:0.19, G:0.19, T:0.32
Consensus pattern (23 bp):
AAAGGGCTTATGCCCCAGTTATT
Found at i:87345481 original size:45 final size:47
Alignment explanation
Indices: 87345414--87345535 Score: 176
Period size: 45 Copynumber: 2.6 Consensus size: 47
87345404 GGAGGAAGTG
*
87345414 TAAAAGGGCTTATGCCCCAGTTATTAAAAGGCTTATGCCCCAGTTAT
1 TAAAAGGGCTTATGCCCCAGTTATTAAAAGGCTTATACCCCAGTTAT
* * **
87345461 T-AAA-GGCTTATGCCCCAGTTATTAAAGGGCTTGTACCTTAGTTAT
1 TAAAAGGGCTTATGCCCCAGTTATTAAAAGGCTTATACCCCAGTTAT
*
87345506 TAAAAGGGCTTTTGCCCCAGTTATTAAAAG
1 TAAAAGGGCTTATGCCCCAGTTATTAAAAG
87345536 AGGCTAGGCC
Statistics
Matches: 66, Mismatches: 7, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
45 37 0.56
46 6 0.09
47 23 0.35
ACGTcount: A:0.30, C:0.19, G:0.20, T:0.32
Consensus pattern (47 bp):
TAAAAGGGCTTATGCCCCAGTTATTAAAAGGCTTATACCCCAGTTAT
Found at i:87345550 original size:25 final size:24
Alignment explanation
Indices: 87345414--87345554 Score: 141
Period size: 23 Copynumber: 6.0 Consensus size: 24
87345404 GGAGGAAGTG
*
87345414 TAAAAGGGCTTATGCCCCAGTTAT
1 TAAAAGGGCTTAGGCCCCAGTTAT
*
87345438 TAAAA-GGCTTATGCCCCAGTTAT
1 TAAAAGGGCTTAGGCCCCAGTTAT
*
87345461 T-AAA-GGCTTATGCCCCAGTTAT
1 TAAAAGGGCTTAGGCCCCAGTTAT
* **
87345483 T-AAAGGGCTT-GTACCTTAGTTAT
1 TAAAAGGGCTTAG-GCCCCAGTTAT
**
87345506 TAAAAGGGCTTTTGCCCCAGTTAT
1 TAAAAGGGCTTAGGCCCCAGTTAT
87345530 TAAAAGAGGC-TAGGCCTCCAGTTAT
1 TAAAAG-GGCTTAGGCC-CCAGTTAT
87345555 ATGATAAAGC
Statistics
Matches: 101, Mismatches: 10, Indels: 11
0.83 0.08 0.09
Matches are distributed among these distances:
22 25 0.25
23 33 0.33
24 32 0.32
25 11 0.11
ACGTcount: A:0.28, C:0.20, G:0.21, T:0.31
Consensus pattern (24 bp):
TAAAAGGGCTTAGGCCCCAGTTAT
Found at i:87351778 original size:40 final size:40
Alignment explanation
Indices: 87351734--87352212 Score: 737
Period size: 40 Copynumber: 12.0 Consensus size: 40
87351724 CTAGTTACTA
* * * *
87351734 TTGTGCAAATTGATATATCCGGGTTAAGACCCGAAGGCAT
1 TTGTGCGAATTGATATATCCAGGCTAAGACCTGAAGGCAT
* *
87351774 TTGTGCGAATTGATATATCCGGGTTAAGACCTGAAGGCAT
1 TTGTGCGAATTGATATATCCAGGCTAAGACCTGAAGGCAT
87351814 TTGTGCGAATTGATATATCCAGGCTAAGACCTGAAGGCAT
1 TTGTGCGAATTGATATATCCAGGCTAAGACCTGAAGGCAT
87351854 TTGTGCGAATTGATATATCCAGGCTAAGACCTGAAGGCAT
1 TTGTGCGAATTGATATATCCAGGCTAAGACCTGAAGGCAT
87351894 TTGTGCGAATTGATATATCCAGGCTAAGACCTGAAGGCAT
1 TTGTGCGAATTGATATATCCAGGCTAAGACCTGAAGGCAT
87351934 TTGTGCGAATTGATATATCCAGGCTAAGACCTGAAGGCAT
1 TTGTGCGAATTGATATATCCAGGCTAAGACCTGAAGGCAT
87351974 TTGTGCGAATTGATATATCCAGGCTAAGACCTGAAGGCAT
1 TTGTGCGAATTGATATATCCAGGCTAAGACCTGAAGGCAT
87352014 TTGTGCGAATTGATATATCCAGGCTAAGACCTGAAGGCAT
1 TTGTGCGAATTGATATATCCAGGCTAAGACCTGAAGGCAT
* * *
87352054 TTGTGCGAATTGATATATCCGGGCTAAGACCCGAAGGCAA
1 TTGTGCGAATTGATATATCCAGGCTAAGACCTGAAGGCAT
* * *
87352094 TTGTGC-AAGTTGATATATCCGGGCTAAGACCCGAAGGCAA
1 TTGTGCGAA-TTGATATATCCAGGCTAAGACCTGAAGGCAT
* *
87352134 TTGTGC-AAGTTGATATATCCGGGCTAAGACCCGAAGGCAT
1 TTGTGCGAA-TTGATATATCCAGGCTAAGACCTGAAGGCAT
* * * * * * *
87352174 TCGTGCGAGTTGCTATACCCGGGTTAAGACCCGAAGGCA
1 TTGTGCGAATTGATATATCCAGGCTAAGACCTGAAGGCA
87352213 ATTGAGCTTG
Statistics
Matches: 424, Mismatches: 13, Indels: 4
0.96 0.03 0.01
Matches are distributed among these distances:
39 2 0.00
40 421 0.99
41 1 0.00
ACGTcount: A:0.29, C:0.19, G:0.26, T:0.26
Consensus pattern (40 bp):
TTGTGCGAATTGATATATCCAGGCTAAGACCTGAAGGCAT
Found at i:87358258 original size:40 final size:40
Alignment explanation
Indices: 87358203--87358297 Score: 154
Period size: 40 Copynumber: 2.4 Consensus size: 40
87358193 NNNNNNNNNN
* *
87358203 TAAGACCCGAAGGCATTTGTGCGAGTTGATATATCCGGGC
1 TAAGACCCGAAGGCATTCGTGCGAGTTGATATACCCGGGC
* *
87358243 TAAGACCCGAAGGCATTCGTGCGAGTTGCTATACCCGGGT
1 TAAGACCCGAAGGCATTCGTGCGAGTTGATATACCCGGGC
87358283 TAAGACCCGAAGGCA
1 TAAGACCCGAAGGCA
87358298 ATTGAGCTTG
Statistics
Matches: 51, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
40 51 1.00
ACGTcount: A:0.26, C:0.23, G:0.29, T:0.21
Consensus pattern (40 bp):
TAAGACCCGAAGGCATTCGTGCGAGTTGATATACCCGGGC
Found at i:87361021 original size:20 final size:20
Alignment explanation
Indices: 87360996--87361040 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
87360986 AGGGACTAAA
* *
87360996 ATGAAAAGTTGTAAAATTTG
1 ATGAAAAATTCTAAAATTTG
*
87361016 ATGAAAAATTCTAAAATTTT
1 ATGAAAAATTCTAAAATTTG
87361036 ATGAA
1 ATGAA
87361041 TACATGTGCT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.49, C:0.02, G:0.13, T:0.36
Consensus pattern (20 bp):
ATGAAAAATTCTAAAATTTG
Found at i:87363731 original size:24 final size:24
Alignment explanation
Indices: 87363690--87363761 Score: 67
Period size: 25 Copynumber: 3.0 Consensus size: 24
87363680 GCTTTATCAT
**
87363690 ATAACTGGAGGCCTAGCCTCTTTTA
1 ATAACTGGAGGCAAAGCC-CTTTTA
*
87363715 ATAACT-GAGGCAAAGCCCTTTTTG
1 ATAACTGGAGGCAAAGCCC-TTTTA
*
87363739 GTAAACTGG-GGCAAAGCCCTTTT
1 AT-AACTGGAGGCAAAGCCCTTTT
87363762 CGCACTTCCT
Statistics
Matches: 40, Mismatches: 4, Indels: 7
0.78 0.08 0.14
Matches are distributed among these distances:
23 1 0.03
24 18 0.45
25 20 0.50
26 1 0.03
ACGTcount: A:0.26, C:0.22, G:0.22, T:0.29
Consensus pattern (24 bp):
ATAACTGGAGGCAAAGCCCTTTTA
Found at i:87364015 original size:27 final size:27
Alignment explanation
Indices: 87363985--87364269 Score: 374
Period size: 27 Copynumber: 10.6 Consensus size: 27
87363975 ACCCCACAAA
* *
87363985 GGTATCTCAGTAATTCTACCCTACAGG
1 GGTATTTCGGTAATTCTACCCTACAGG
* *
87364012 GGTATTTCGGTATTTCTACCCTACAAG
1 GGTATTTCGGTAATTCTACCCTACAGG
*
87364039 GGTATTTTGGTAATTCTACCCTACAGG
1 GGTATTTCGGTAATTCTACCCTACAGG
* *
87364066 GGTATTTCGGTATTTCTACCCTACAAG
1 GGTATTTCGGTAATTCTACCCTACAGG
*
87364093 GGTATTTTGGTAATTCTACCCTACAGG
1 GGTATTTCGGTAATTCTACCCTACAGG
* *
87364120 GGTATTTCGGTATTTCTACCCTACAAG
1 GGTATTTCGGTAATTCTACCCTACAGG
*
87364147 GGTATTTTGGTAATTCTACCCTACAGG
1 GGTATTTCGGTAATTCTACCCTACAGG
* *
87364174 GGTATTTCGGTATTTCTACCCTACAAG
1 GGTATTTCGGTAATTCTACCCTACAGG
* *
87364201 GGTATTTCGGTAACTCTACCCTATAGG
1 GGTATTTCGGTAATTCTACCCTACAGG
* * **
87364228 GGTATTTTGGTAATTTTA-CAAACCAGG
1 GGTATTTCGGTAATTCTACCCTA-CAGG
*
87364255 GGTATTTTGGTAATT
1 GGTATTTCGGTAATT
87364270 TTGTAAACCA
Statistics
Matches: 225, Mismatches: 32, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
26 2 0.01
27 223 0.99
ACGTcount: A:0.23, C:0.19, G:0.21, T:0.37
Consensus pattern (27 bp):
GGTATTTCGGTAATTCTACCCTACAGG
Found at i:87364032 original size:54 final size:54
Alignment explanation
Indices: 87363994--87364269 Score: 457
Period size: 54 Copynumber: 5.1 Consensus size: 54
87363984 AGGTATCTCA
87363994 GTAATTCTACCCTACAGGGGTATTTCGGTATTTCTACCCTACAAGGGTATTTTG
1 GTAATTCTACCCTACAGGGGTATTTCGGTATTTCTACCCTACAAGGGTATTTTG
87364048 GTAATTCTACCCTACAGGGGTATTTCGGTATTTCTACCCTACAAGGGTATTTTG
1 GTAATTCTACCCTACAGGGGTATTTCGGTATTTCTACCCTACAAGGGTATTTTG
87364102 GTAATTCTACCCTACAGGGGTATTTCGGTATTTCTACCCTACAAGGGTATTTTG
1 GTAATTCTACCCTACAGGGGTATTTCGGTATTTCTACCCTACAAGGGTATTTTG
*
87364156 GTAATTCTACCCTACAGGGGTATTTCGGTATTTCTACCCTACAAGGGTATTTCG
1 GTAATTCTACCCTACAGGGGTATTTCGGTATTTCTACCCTACAAGGGTATTTTG
* * * ** *
87364210 GTAACTCTACCCTATAGGGGTATTTTGGTAATTT-TA-CAAACCAGGGGTATTTTG
1 GTAATTCTACCCTACAGGGGTATTTCGGT-ATTTCTACCCTA-CAAGGGTATTTTG
87364264 GTAATT
1 GTAATT
87364270 TTGTAAACCA
Statistics
Matches: 211, Mismatches: 9, Indels: 4
0.94 0.04 0.02
Matches are distributed among these distances:
53 2 0.01
54 205 0.97
55 4 0.02
ACGTcount: A:0.23, C:0.19, G:0.21, T:0.37
Consensus pattern (54 bp):
GTAATTCTACCCTACAGGGGTATTTCGGTATTTCTACCCTACAAGGGTATTTTG
Found at i:87364282 original size:81 final size:79
Alignment explanation
Indices: 87364007--87364432 Score: 292
Period size: 81 Copynumber: 5.3 Consensus size: 79
87363997 ATTCTACCCT
* ** *
87364007 ACAGGGGTATTTCGGT-ATTTCTACCCTACAAGGGTATTTTGGTAATTCTACCCTACAGGGGTAT
1 ACAGGGGTATTTTGGTAATTTCTAAAC--CAAGGGTATTTTGGTAATTCTACCCTATAGGGGTAT
* **
87364071 TTCGGT-ATTTCTACCCT
64 TTTGGTAATTT-TA-CAA
* * * * * *
87364088 ACAAGGGTATTTTGGTAA-TTCT-ACCCTACAGGGGTATTTCGGTATTTCTACCCTACAAGGGTA
1 ACAGGGGTATTTTGGTAATTTCTAAACC-A-A-GGGTATTTTGGTAATTCTACCCTATAGGGGTA
* **
87364151 TTTTGGTAATTCTACCCT
63 TTTTGGTAATTTTA-CAA
* ** * *
87364169 ACAGGGGTATTTCGGT-ATTTCTACCCTACAAGGGTATTTCGGTAACTCTACCCTATAGGGGTAT
1 ACAGGGGTATTTTGGTAATTTCTAAAC--CAAGGGTATTTTGGTAATTCTACCCTATAGGGGTAT
87364233 TTTGGTAATTTTACAA
64 TTTGGTAATTTTACAA
* * * *
87364249 ACCAGGGGTATTTTGGTAATTTTGTAAACCAAGGGTATTTTGGTAATTTTA--CAAGTCGAGGGT
1 A-CAGGGGTATTTTGGTAA-TTTCTAAACCAAGGGTATTTTGGTAATTCTACCCTA-TAG-GGGT
** *
87364312 ATTTCAGTAATTTCACAA
62 ATTTTGGTAATTTTACAA
* ** * * * * ***
87364330 ATTAGGGGTATTTTGGTAGGTTCACAAACTAGGGGTATTTTGGTAATTTTA-TAAACTAGGGGTA
1 A-CAGGGGTATTTTGGTAATTTC-TAAACCAAGGGTATTTTGGTAATTCTACCCTA-TAGGGGTA
87364394 TTTTGGTAATTTTACAA
63 TTTTGGTAATTTTACAA
87364411 ACTAGGGGTATTTTGGTAATTT
1 AC-AGGGGTATTTTGGTAATTT
87364433 TGCTAATCGA
Statistics
Matches: 281, Mismatches: 47, Indels: 34
0.78 0.13 0.09
Matches are distributed among these distances:
78 1 0.00
79 3 0.01
80 10 0.04
81 247 0.88
82 12 0.04
83 7 0.02
84 1 0.00
ACGTcount: A:0.25, C:0.15, G:0.22, T:0.38
Consensus pattern (79 bp):
ACAGGGGTATTTTGGTAATTTCTAAACCAAGGGTATTTTGGTAATTCTACCCTATAGGGGTATTT
TGGTAATTTTACAA
Found at i:87364447 original size:27 final size:27
Alignment explanation
Indices: 87364224--87364433 Score: 269
Period size: 27 Copynumber: 7.8 Consensus size: 27
87364214 CTCTACCCTA
87364224 TAGGGGTATTTTGGTAATTTTACAAAC
1 TAGGGGTATTTTGGTAATTTTACAAAC
* **
87364251 CAGGGGTATTTTGGTAATTTTGTAAAC
1 TAGGGGTATTTTGGTAATTTTACAAAC
* * *
87364278 CAAGGGTATTTTGGTAATTTTAC-AAG
1 TAGGGGTATTTTGGTAATTTTACAAAC
* ** * *
87364304 TCGAGGGTATTTCAGTAATTTCACAAAT
1 TAG-GGGTATTTTGGTAATTTTACAAAC
** *
87364332 TAGGGGTATTTTGGTAGGTTCACAAAC
1 TAGGGGTATTTTGGTAATTTTACAAAC
*
87364359 TAGGGGTATTTTGGTAATTTTATAAAC
1 TAGGGGTATTTTGGTAATTTTACAAAC
87364386 TAGGGGTATTTTGGTAATTTTACAAAC
1 TAGGGGTATTTTGGTAATTTTACAAAC
87364413 TAGGGGTATTTTGGTAATTTT
1 TAGGGGTATTTTGGTAATTTT
87364434 GCTAATCGAG
Statistics
Matches: 156, Mismatches: 25, Indels: 4
0.84 0.14 0.02
Matches are distributed among these distances:
26 2 0.01
27 150 0.96
28 4 0.03
ACGTcount: A:0.28, C:0.08, G:0.24, T:0.40
Consensus pattern (27 bp):
TAGGGGTATTTTGGTAATTTTACAAAC
Found at i:87364447 original size:81 final size:80
Alignment explanation
Indices: 87364223--87364486 Score: 280
Period size: 81 Copynumber: 3.3 Consensus size: 80
87364213 ACTCTACCCT
*
87364223 ATAGGGGTATTTTGGTAATTTTACAAACCAGGGGTATTTTGGTAATTTTG-TAAACCAAGGGTAT
1 ATAGGGGTATTTTGGTAATTTTACAAACTAGGGGTATTTTGGTAATTTTGCTAAA-CAAGGGTAT
*
87364287 TTTGGTAATTTTACAA
65 TTTGGTAATTTTATAA
* * ** * * ** ** *
87364303 GTCGAGGGTATTTCAGTAATTTCACAAATTAGGGGTATTTTGGTAGGTTCAC-AAACTAGGGGTA
1 ATAG-GGGTATTTTGGTAATTTTACAAACTAGGGGTATTTTGGTAATTTTGCTAAAC-AAGGGTA
87364367 TTTTGGTAATTTTATAA
64 TTTTGGTAATTTTATAA
* * *
87364384 ACTAGGGGTATTTTGGTAATTTTACAAACTAGGGGTATTTTGGTAATTTTGCTAATCGAGGGTAA
1 A-TAGGGGTATTTTGGTAATTTTACAAACTAGGGGTATTTTGGTAATTTTGCTAAACAAGGGTAT
*** *
87364449 AACGGTAATTCTATAA
65 TTTGGTAATTTTATAA
*
87364465 ATCAGGGGTACTTTGGTAATTT
1 AT-AGGGGTATTTTGGTAATTT
87364487 GGTAAACTAA
Statistics
Matches: 146, Mismatches: 32, Indels: 11
0.77 0.17 0.06
Matches are distributed among these distances:
80 4 0.03
81 137 0.94
82 5 0.03
ACGTcount: A:0.29, C:0.08, G:0.24, T:0.39
Consensus pattern (80 bp):
ATAGGGGTATTTTGGTAATTTTACAAACTAGGGGTATTTTGGTAATTTTGCTAAACAAGGGTATT
TTGGTAATTTTATAA
Found at i:87364482 original size:27 final size:27
Alignment explanation
Indices: 87364225--87364486 Score: 237
Period size: 27 Copynumber: 9.7 Consensus size: 27
87364215 TCTACCCTAT
*
87364225 AGGGGTATTTTGGTAATTTTACAAACC
1 AGGGGTATTTTGGTAATTTTACAAATC
** *
87364252 AGGGGTATTTTGGTAATTTTGTAAACC
1 AGGGGTATTTTGGTAATTTTACAAATC
* *
87364279 AAGGGTATTTTGGTAATTTTACAAGTC
1 AGGGGTATTTTGGTAATTTTACAAATC
** * *
87364306 -GAGGGTATTTCAGTAATTTCACAAATT
1 AG-GGGTATTTTGGTAATTTTACAAATC
** *
87364333 AGGGGTATTTTGGTAGGTTCACAAA-C
1 AGGGGTATTTTGGTAATTTTACAAATC
*
87364359 TAGGGGTATTTTGGTAATTTTATAAA-C
1 -AGGGGTATTTTGGTAATTTTACAAATC
87364386 TAGGGGTATTTTGGTAATTTTACAAA-C
1 -AGGGGTATTTTGGTAATTTTACAAATC
* *
87364413 TAGGGGTATTTTGGTAATTTTGCTAATC
1 -AGGGGTATTTTGGTAATTTTACAAATC
**** * *
87364441 -GAGGGTAAAACGGTAATTCTATAAATC
1 AG-GGGTATTTTGGTAATTTTACAAATC
*
87364468 AGGGGTACTTTGGTAATTT
1 AGGGGTATTTTGGTAATTT
87364487 GGTAAACTAA
Statistics
Matches: 191, Mismatches: 38, Indels: 12
0.79 0.16 0.05
Matches are distributed among these distances:
26 1 0.01
27 187 0.98
28 3 0.02
ACGTcount: A:0.29, C:0.08, G:0.24, T:0.39
Consensus pattern (27 bp):
AGGGGTATTTTGGTAATTTTACAAATC
Found at i:87366950 original size:19 final size:19
Alignment explanation
Indices: 87366926--87366963 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
87366916 GCGTGGCCAG
*
87366926 GCAGTGTGACAGAGCCCAA
1 GCAGTGTGACAAAGCCCAA
87366945 GCAGTGTGACAAAGCCCAA
1 GCAGTGTGACAAAGCCCAA
87366964 TTCGTATGGC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.34, C:0.26, G:0.29, T:0.11
Consensus pattern (19 bp):
GCAGTGTGACAAAGCCCAA
Found at i:87371641 original size:27 final size:27
Alignment explanation
Indices: 87371600--87371653 Score: 81
Period size: 27 Copynumber: 2.0 Consensus size: 27
87371590 TGTCATGTGA
*
87371600 AATTGAATGACAAATTATTATTACATG
1 AATTGAATGACAAATTACTATTACATG
**
87371627 AATTGAATGTTAAATTACTATTACATG
1 AATTGAATGACAAATTACTATTACATG
87371654 GGTTGTACCT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.43, C:0.07, G:0.11, T:0.39
Consensus pattern (27 bp):
AATTGAATGACAAATTACTATTACATG
Found at i:87372025 original size:49 final size:51
Alignment explanation
Indices: 87371882--87372025 Score: 157
Period size: 51 Copynumber: 2.9 Consensus size: 51
87371872 TATTGTGATG
* * * *
87371882 TCACGTGTGTAGTACTAAGTGCAGGCTATTATGCATACCCGATATCTTCGA
1 TCACATGTGTAGTACTAAGTGCAGGCTATTATGCGTACCAGATATATTCGA
** * * * *
87371933 TCATGTGTGTAGTACTAAGTGCAGGCTATTACGTGTACTAGATA-ATT-GG
1 TCACATGTGTAGTACTAAGTGCAGGCTATTATGCGTACCAGATATATTCGA
* * *
87371982 TCGCATGTGTAGTACTAAGTGCAGGCCACTATGCGTACCAGATA
1 TCACATGTGTAGTACTAAGTGCAGGCTATTATGCGTACCAGATA
87372026 GCCTTGTCTA
Statistics
Matches: 77, Mismatches: 16, Indels: 2
0.81 0.17 0.02
Matches are distributed among these distances:
49 37 0.48
50 2 0.03
51 38 0.49
ACGTcount: A:0.26, C:0.19, G:0.24, T:0.31
Consensus pattern (51 bp):
TCACATGTGTAGTACTAAGTGCAGGCTATTATGCGTACCAGATATATTCGA
Found at i:87380917 original size:27 final size:27
Alignment explanation
Indices: 87380887--87381064 Score: 180
Period size: 27 Copynumber: 6.6 Consensus size: 27
87380877 ATATTGAGCC
* *
87380887 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAATCAACT
* *
87380914 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
*
87380941 CGCACACTTAGTGCTACATAGTCAGACT
1 CGCACACTTAGTGCTACATAATCA-ACT
** ** *
87380969 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAATCAACT
* **
87380996 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAATCAACT
* *
87381023 CGCACACTTAGTGCAACATAGTCGAA-T
1 CGCACACTTAGTGCTACATAATC-AACT
87381050 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
87381065 GTACAATTTA
Statistics
Matches: 129, Mismatches: 18, Indels: 8
0.83 0.12 0.05
Matches are distributed among these distances:
27 104 0.81
28 25 0.19
ACGTcount: A:0.29, C:0.28, G:0.16, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAATCAACT
Found at i:87381026 original size:82 final size:81
Alignment explanation
Indices: 87380908--87381063 Score: 224
Period size: 82 Copynumber: 1.9 Consensus size: 81
87380898 TGCTATATAA
* * *
87380908 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAGACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTC-GAATCGCA
87380973 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
87380990 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCGAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCGAATCGCA
87381054 CACTTAGTGC
65 CACTTAGTGC
87381064 TGTACAATTT
Statistics
Matches: 66, Mismatches: 7, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
81 18 0.27
82 48 0.73
ACGTcount: A:0.28, C:0.28, G:0.17, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCGAATCGCAC
ACTTAGTGCCGCATGG
Found at i:87382922 original size:50 final size:50
Alignment explanation
Indices: 87382847--87382946 Score: 200
Period size: 50 Copynumber: 2.0 Consensus size: 50
87382837 CATCGAGCTC
87382847 TCGGTTTCCCAGGTTGCTTCCTCGATCCCGTGTTTAAGCCACAACACCTT
1 TCGGTTTCCCAGGTTGCTTCCTCGATCCCGTGTTTAAGCCACAACACCTT
87382897 TCGGTTTCCCAGGTTGCTTCCTCGATCCCGTGTTTAAGCCACAACACCTT
1 TCGGTTTCCCAGGTTGCTTCCTCGATCCCGTGTTTAAGCCACAACACCTT
87382947 AACCAACGGA
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:0.16, C:0.34, G:0.18, T:0.32
Consensus pattern (50 bp):
TCGGTTTCCCAGGTTGCTTCCTCGATCCCGTGTTTAAGCCACAACACCTT
Found at i:87387316 original size:4 final size:4
Alignment explanation
Indices: 87387307--87387334 Score: 56
Period size: 4 Copynumber: 7.0 Consensus size: 4
87387297 TTAAACTAAG
87387307 TAAA TAAA TAAA TAAA TAAA TAAA TAAA
1 TAAA TAAA TAAA TAAA TAAA TAAA TAAA
87387335 AATAAAACTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 24 1.00
ACGTcount: A:0.75, C:0.00, G:0.00, T:0.25
Consensus pattern (4 bp):
TAAA
Found at i:87389693 original size:43 final size:43
Alignment explanation
Indices: 87389646--87389731 Score: 163
Period size: 43 Copynumber: 2.0 Consensus size: 43
87389636 TTAGTGACAG
*
87389646 TTGCTCAGGAAGATAGCTTGCAGTGAAATTATGATTATGTGGT
1 TTGCTCAGGAAGACAGCTTGCAGTGAAATTATGATTATGTGGT
87389689 TTGCTCAGGAAGACAGCTTGCAGTGAAATTATGATTATGTGGT
1 TTGCTCAGGAAGACAGCTTGCAGTGAAATTATGATTATGTGGT
87389732 AAACATTGAC
Statistics
Matches: 42, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
43 42 1.00
ACGTcount: A:0.28, C:0.10, G:0.28, T:0.34
Consensus pattern (43 bp):
TTGCTCAGGAAGACAGCTTGCAGTGAAATTATGATTATGTGGT
Found at i:87390913 original size:38 final size:39
Alignment explanation
Indices: 87390806--87390972 Score: 203
Period size: 38 Copynumber: 4.3 Consensus size: 39
87390796 ATTTGATGTG
*
87390806 TATCCGGGCTTAAATACCCGCAGGCTTTGTGCTGGTAAAA
1 TATCCGGGCTTAAAT-CCCGCAGGCTTCGTGCTGGTAAAA
*
87390846 TATCCGGGCTTAAAGACCCGCAGGCTTCGTGCTGGTAAAA
1 TATCCGGGCTTAAA-TCCCGCAGGCTTCGTGCTGGTAAAA
* **
87390886 TATCCAGG-TTAAATCCCGCAGGCTTCGTGCTGGTATTA
1 TATCCGGGCTTAAATCCCGCAGGCTTCGTGCTGGTAAAA
* * * **
87390924 TATCCGGG-ATAAATCCCGCAGGCCTAGTGCTGGTATTA
1 TATCCGGGCTTAAATCCCGCAGGCTTCGTGCTGGTAAAA
*
87390962 TATTCGGGCTT
1 TATCCGGGCTT
87390973 TCGTGCCTAG
Statistics
Matches: 113, Mismatches: 12, Indels: 5
0.87 0.09 0.04
Matches are distributed among these distances:
38 63 0.56
39 6 0.05
40 44 0.39
ACGTcount: A:0.23, C:0.23, G:0.26, T:0.28
Consensus pattern (39 bp):
TATCCGGGCTTAAATCCCGCAGGCTTCGTGCTGGTAAAA
Found at i:87390916 original size:78 final size:78
Alignment explanation
Indices: 87390806--87390958 Score: 202
Period size: 78 Copynumber: 2.0 Consensus size: 78
87390796 ATTTGATGTG
* * *
87390806 TATCCGGGCTTAAATACCCGCAGGCTTTGTGCTGGTAAAATATCCGGGCTTAAAGACCCGCAGGC
1 TATCCAGGCTTAAATACCCGCAGGCTTCGTGCTGGTAAAATATCCGGG-ATAAA-ACCCGCAGGC
* *
87390871 TTCGTGCTGGTAAAA
64 CTAGTGCTGGTAAAA
** *
87390886 TATCCAGG-TTAAAT-CCCGCAGGCTTCGTGCTGGTATTATATCCGGGATAAATCCCGCAGGCCT
1 TATCCAGGCTTAAATACCCGCAGGCTTCGTGCTGGTAAAATATCCGGGATAAAACCCGCAGGCCT
87390949 AGTGCTGGTA
66 AGTGCTGGTA
87390959 TTATATTCGG
Statistics
Matches: 65, Mismatches: 8, Indels: 4
0.84 0.10 0.05
Matches are distributed among these distances:
76 19 0.29
77 4 0.06
78 29 0.45
79 6 0.09
80 7 0.11
ACGTcount: A:0.24, C:0.24, G:0.26, T:0.26
Consensus pattern (78 bp):
TATCCAGGCTTAAATACCCGCAGGCTTCGTGCTGGTAAAATATCCGGGATAAAACCCGCAGGCCT
AGTGCTGGTAAAA
Found at i:87391301 original size:43 final size:43
Alignment explanation
Indices: 87390962--87391288 Score: 528
Period size: 43 Copynumber: 7.6 Consensus size: 43
87390952 GCTGGTATTA
* * *
87390962 TATTCGGGCTTTCGTGCCTAGCAGGCTTTGTTCCGGTGATGTG
1 TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTG
*
87391005 TATTCGGGCCTTCGTCCCTAGCAGGCTTCGTGCCGGTGATGTG
1 TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTG
* *
87391048 TATTCGGGCCTCCGTGCCTAGTAGGCTTCGTGCCGGTGATGTG
1 TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTG
* *
87391091 TATTCGGGCCTCCGTGCCTAGCAGGCTTCGTGCCAGTGATGTG
1 TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTG
* * * *
87391134 TATTCAGGCCTTCATGCCTAGCAGGCTTCGTGTCGGTGATTTG
1 TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTG
87391177 TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTG
1 TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTG
87391220 TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTG
1 TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTG
* *
87391263 TATTTGGGCCTTCGTACCTAGCAGGC
1 TATTCGGGCCTTCGTGCCTAGCAGGC
87391289 GTAATGCCGG
Statistics
Matches: 263, Mismatches: 21, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
43 263 1.00
ACGTcount: A:0.11, C:0.25, G:0.32, T:0.31
Consensus pattern (43 bp):
TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTG
Found at i:87401103 original size:29 final size:28
Alignment explanation
Indices: 87401068--87401126 Score: 84
Period size: 29 Copynumber: 2.1 Consensus size: 28
87401058 TTATATTCAC
*
87401068 ATGGCCC-ATTAGGTCCAAATCACATTTAT
1 ATGGCCCTA-TAGGCCCAAATCAC-TTTAT
87401097 ATGGCCCTATAGGCCCAAATCACTTTAT
1 ATGGCCCTATAGGCCCAAATCACTTTAT
87401125 AT
1 AT
87401127 TCATGCTCAC
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
28 7 0.25
29 20 0.71
30 1 0.04
ACGTcount: A:0.31, C:0.25, G:0.14, T:0.31
Consensus pattern (28 bp):
ATGGCCCTATAGGCCCAAATCACTTTAT
Found at i:87406461 original size:47 final size:47
Alignment explanation
Indices: 87406278--87406500 Score: 165
Period size: 47 Copynumber: 4.7 Consensus size: 47
87406268 TATACTATGA
* * *
87406278 GAGCCAGTGCAAGACCATGTCTGGGACATGGTATC-AGC-ATCAAGATGA-
1 GAGCCAGTGTAAGACCATGTCTGGGACAT-GCATCGA-CTAT-GAGAT-AT
* * * * * * * *
87406326 GTGCTAGCGTAAGA-CTTGTTTGGGACATGCATCGCCCT-CGAGATGT
1 GAGCCAGTGTAAGACCATGTCTGGGACATGCATCG-ACTATGAGATAT
* *
87406372 AAGCCAGTGTAAGA-CATGTCTAGGACATGCATCGACTATGAGATGAT
1 GAGCCAGTGTAAGACCATGTCTGGGACATGCATCGACTATGAGAT-AT
* * * *
87406419 -AGTCAGTGTAAGACCATGTTTGGGACATGGCATTGAGT-TGAGATAT
1 GAGCCAGTGTAAGACCATGTCTGGGACAT-GCATCGACTATGAGATAT
87406465 GAGCCAGTGTAAGACCATGTCTGGGACATAGCATCG
1 GAGCCAGTGTAAGACCATGTCTGGGACAT-GCATCG
87406501 GCACCTTACT
Statistics
Matches: 136, Mismatches: 30, Indels: 19
0.74 0.16 0.10
Matches are distributed among these distances:
45 2 0.01
46 54 0.40
47 63 0.46
48 17 0.12
ACGTcount: A:0.28, C:0.18, G:0.29, T:0.24
Consensus pattern (47 bp):
GAGCCAGTGTAAGACCATGTCTGGGACATGCATCGACTATGAGATAT
Found at i:87417733 original size:40 final size:40
Alignment explanation
Indices: 87417689--87417767 Score: 149
Period size: 40 Copynumber: 2.0 Consensus size: 40
87417679 ATGGATTTAA
87417689 AGCTCTAATTTTGTTATGTGATGATTTTATCAAGTGATTG
1 AGCTCTAATTTTGTTATGTGATGATTTTATCAAGTGATTG
*
87417729 AGCTCTAATTTTGTTATGTGATGATTTTATGAAGTGATT
1 AGCTCTAATTTTGTTATGTGATGATTTTATCAAGTGATT
87417768 TCAATAGAAG
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
40 38 1.00
ACGTcount: A:0.25, C:0.06, G:0.20, T:0.48
Consensus pattern (40 bp):
AGCTCTAATTTTGTTATGTGATGATTTTATCAAGTGATTG
Found at i:87436169 original size:26 final size:26
Alignment explanation
Indices: 87436101--87436159 Score: 111
Period size: 26 Copynumber: 2.3 Consensus size: 26
87436091 TTTCTACTAC
87436101 TCACTTTTACATCTTTTGCAACTTGG
1 TCACTTTTACATCTTTTGCAACTTGG
87436127 TCACTTTTACATCTTTTGCAACTTGG
1 TCACTTTTACATCTTTTGCAACTTGG
87436153 TC-CTTTT
1 TCACTTTT
87436160 TAGGTGTTTT
Statistics
Matches: 33, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
25 5 0.15
26 28 0.85
ACGTcount: A:0.17, C:0.24, G:0.10, T:0.49
Consensus pattern (26 bp):
TCACTTTTACATCTTTTGCAACTTGG
Found at i:87441128 original size:24 final size:24
Alignment explanation
Indices: 87441083--87441128 Score: 58
Period size: 24 Copynumber: 1.9 Consensus size: 24
87441073 CCTTATTAAC
* *
87441083 ATTTCTTATTTCTCTTTTCTTTTA
1 ATTTCTTATTTCTCCTTCCTTTTA
87441107 ATTTCTT-TTTCTCGCTTCCTTT
1 ATTTCTTATTTCTC-CTTCCTTT
87441129 CATTACAAGA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 6 0.32
24 13 0.68
ACGTcount: A:0.09, C:0.22, G:0.02, T:0.67
Consensus pattern (24 bp):
ATTTCTTATTTCTCCTTCCTTTTA
Found at i:87451196 original size:46 final size:48
Alignment explanation
Indices: 87450996--87451268 Score: 296
Period size: 46 Copynumber: 5.8 Consensus size: 48
87450986 AGGGTATAAT
* * **
87450996 GCCGATGCCATGTCCCAGACATGGTCTTACACTAACTAT-CAAAATCGAG
1 GCCGATGCCATGTCCCAGACAT-GTCTTACACTAGCTCTAC-ATCTCGAG
* * * *
87451045 GCCGACGCCATGTCCCAGACATGATCTTACACTAGCTCTCACATATCCAT
1 GCCGATGCCATGTCCCAGACATG-TCTTACACTAGCTCT-ACATCTCGAG
*
87451095 GCCGATGCCATGTCCTAGACATGGTCTTACACTA---C-ACATCTCGTA-
1 GCCGATGCCATGTCCCAGACAT-GTCTTACACTAGCTCTACATCTCG-AG
*
87451140 GCCGATG-CATGTCCCAGACATGTCTTACACTAGCT-TACATCTTGAG
1 GCCGATGCCATGTCCCAGACATGTCTTACACTAGCTCTACATCTCGAG
* * *
87451186 GCTGATG-CATGTCCCAGACATGTCTTACACTAGCTCT-CATCTCAAT
1 GCCGATGCCATGTCCCAGACATGTCTTACACTAGCTCTACATCTCGAG
*
87451232 GCCGATGCCATGTCCCGGACATGTCTTACACTAGCTC
1 GCCGATGCCATGTCCCAGACATGTCTTACACTAGCTC
87451269 CCAAATAACC
Statistics
Matches: 194, Mismatches: 18, Indels: 26
0.82 0.08 0.11
Matches are distributed among these distances:
43 11 0.06
44 13 0.07
45 14 0.07
46 54 0.28
47 30 0.15
48 1 0.01
49 34 0.18
50 35 0.18
51 2 0.01
ACGTcount: A:0.25, C:0.32, G:0.18, T:0.26
Consensus pattern (48 bp):
GCCGATGCCATGTCCCAGACATGTCTTACACTAGCTCTACATCTCGAG
Found at i:87451244 original size:93 final size:95
Alignment explanation
Indices: 87450996--87451268 Score: 308
Period size: 93 Copynumber: 2.9 Consensus size: 95
87450986 AGGGTATAAT
* ** * *
87450996 GCCGATGCCATGTCCCAGACATGGTCTTACACTAACTATCAAAATCGAGGCCGACGCCATGTCCC
1 GCCGATGCCATGTCCCAGACATGGTCTTACACT-ACTCTC-ATCTC-ATGCCGATGCCATGTCCC
*
87451061 AGACATGATCTTACACTAGCTCTCACATATCCAT
63 AGACATG-TCTTACACTAGCTCTCACATATCCAG
* * *
87451095 GCCGATGCCATGTCCTAGACATGGTCTTACACTA--CACATCTCGTAGCCGATG-CATGTCCCAG
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTACTCTCATCTCAT-GCCGATGCCATGTCCCAG
* **
87451157 ACATGTCTTACACTAGCT-T-ACATCTTGAG
65 ACATGTCTTACACTAGCTCTCACATATCCAG
* *
87451186 GCTGATG-CATGTCCCAGACAT-GTCTTACACTAGCTCTCATCTCAATGCCGATGCCATGTCCCG
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTA-CTCTCATCTC-ATGCCGATGCCATGTCCCA
87451249 GACATGTCTTACACTAGCTC
64 GACATGTCTTACACTAGCTC
87451269 CCAAATAACC
Statistics
Matches: 150, Mismatches: 17, Indels: 19
0.81 0.09 0.10
Matches are distributed among these distances:
89 11 0.07
90 13 0.09
91 12 0.08
92 15 0.10
93 41 0.27
94 15 0.10
95 9 0.06
96 1 0.01
98 1 0.01
99 32 0.21
ACGTcount: A:0.25, C:0.32, G:0.18, T:0.26
Consensus pattern (95 bp):
GCCGATGCCATGTCCCAGACATGGTCTTACACTACTCTCATCTCATGCCGATGCCATGTCCCAGA
CATGTCTTACACTAGCTCTCACATATCCAG
Found at i:87455632 original size:24 final size:22
Alignment explanation
Indices: 87455600--87455645 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 22
87455590 ATTTTCCCAT
*
87455600 GAAACAGGGTCACACGCCTGTGTG
1 GAAACAGGG--ACACACCTGTGTG
*
87455624 GAAATAGGGACACACCTGTGTG
1 GAAACAGGGACACACCTGTGTG
87455646 CCTTTGGCAC
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
22 12 0.60
24 8 0.40
ACGTcount: A:0.28, C:0.22, G:0.33, T:0.17
Consensus pattern (22 bp):
GAAACAGGGACACACCTGTGTG
Found at i:87457233 original size:28 final size:28
Alignment explanation
Indices: 87457193--87457248 Score: 112
Period size: 28 Copynumber: 2.0 Consensus size: 28
87457183 ATCGATTCAA
87457193 GATAAGCTCTTATTCAGAGGAGGAATAG
1 GATAAGCTCTTATTCAGAGGAGGAATAG
87457221 GATAAGCTCTTATTCAGAGGAGGAATAG
1 GATAAGCTCTTATTCAGAGGAGGAATAG
87457249 ACCCTGTTTA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.36, C:0.11, G:0.29, T:0.25
Consensus pattern (28 bp):
GATAAGCTCTTATTCAGAGGAGGAATAG
Found at i:87459154 original size:46 final size:48
Alignment explanation
Indices: 87458899--87459211 Score: 206
Period size: 46 Copynumber: 6.6 Consensus size: 48
87458889 GGGTATAATA
** * *
87458899 CCGATGCCATGTCCCAGACATGGTCTTACACAGGC-T-CATCCATC-AAG
1 CCGATGCCATGTCCCAGACATGGTCTTACACTTGCTTACAT--TTCGAGG
* * * **
87458946 TCAATGCCCATGTCCCAGATATGGTCTTACAC-TGAC-TATCGAAATCGAGG
1 CCGATG-CCATGTCCCAGACATGGTCTTACACTTG-CTTA-C-ATTTCGAGG
* * * * * *
87458996 CGGATGCCATGTCCCAGACCTGGTTTTACACTAGCTCTCACATATCCG-TG
1 CCGATGCCATGTCCCAGACATGGTCTTACACTTGCT-T-ACAT-TTCGAGG
*
87459046 CCGATGCCATGTCCCAGACATGGTCTTACAC-TGAC--ACATCTCGTA-G
1 CCGATGCCATGTCCCAGACATGGTCTTACACTTG-CTTACATTTCG-AGG
87459092 CCGATG-CATGTCCCAGACAT-GTCTTACACTTGCTTACATTTCGAGG
1 CCGATGCCATGTCCCAGACATGGTCTTACACTTGCTTACATTTCGAGG
* * * * *
87459138 CTGATG-CATGTCCCAGACAT-GTCTTACACTAGCTCT-CATCTCAATG
1 CCGATGCCATGTCCCAGACATGGTCTTACACTTGCT-TACATTTCGAGG
* *
87459184 CCGATGCCATGTCCCATATATGGTCTTA
1 CCGATGCCATGTCCCAGACATGGTCTTA
87459212 TACTGGCTCC
Statistics
Matches: 213, Mismatches: 32, Indels: 41
0.74 0.11 0.14
Matches are distributed among these distances:
44 10 0.05
45 19 0.09
46 63 0.30
47 18 0.08
48 32 0.15
49 27 0.13
50 38 0.18
51 5 0.02
52 1 0.00
ACGTcount: A:0.24, C:0.30, G:0.19, T:0.27
Consensus pattern (48 bp):
CCGATGCCATGTCCCAGACATGGTCTTACACTTGCTTACATTTCGAGG
Found at i:87472798 original size:15 final size:15
Alignment explanation
Indices: 87472778--87472807 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
87472768 CATTATTATT
87472778 CATACATTCAGATCA
1 CATACATTCAGATCA
87472793 CATACATTCAGATCA
1 CATACATTCAGATCA
87472808 TACATTTAGC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.40, C:0.27, G:0.07, T:0.27
Consensus pattern (15 bp):
CATACATTCAGATCA
Found at i:87472811 original size:13 final size:13
Alignment explanation
Indices: 87472777--87472813 Score: 56
Period size: 15 Copynumber: 2.7 Consensus size: 13
87472767 GCATTATTAT
87472777 TCATACATTCAGA
1 TCATACATTCAGA
87472790 TCACATACATTCAGA
1 T--CATACATTCAGA
87472805 TCATACATT
1 TCATACATT
87472814 TAGCGGTCTA
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
13 9 0.41
15 13 0.59
ACGTcount: A:0.38, C:0.24, G:0.05, T:0.32
Consensus pattern (13 bp):
TCATACATTCAGA
Found at i:87485223 original size:15 final size:16
Alignment explanation
Indices: 87485190--87485223 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
87485180 ATCAGGATAT
*
87485190 TACATGTATGTCATCA
1 TACATGTATCTCATCA
87485206 TACATGTATCTC-TCA
1 TACATGTATCTCATCA
87485221 TAC
1 TAC
87485224 TCATTTTACC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 6 0.35
16 11 0.65
ACGTcount: A:0.29, C:0.24, G:0.09, T:0.38
Consensus pattern (16 bp):
TACATGTATCTCATCA
Found at i:87489588 original size:28 final size:28
Alignment explanation
Indices: 87489544--87489600 Score: 105
Period size: 28 Copynumber: 2.0 Consensus size: 28
87489534 ACCTCGAGAG
*
87489544 TAAGCTCTTTTTTCCCTTTGGTACATTA
1 TAAGCTCTTTTTGCCCTTTGGTACATTA
87489572 TAAGCTCTTTTTGCCCTTTGGTACATTA
1 TAAGCTCTTTTTGCCCTTTGGTACATTA
87489600 T
1 T
87489601 TGTCATACAT
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.18, C:0.21, G:0.12, T:0.49
Consensus pattern (28 bp):
TAAGCTCTTTTTGCCCTTTGGTACATTA
Found at i:87493835 original size:40 final size:40
Alignment explanation
Indices: 87493739--87493962 Score: 319
Period size: 40 Copynumber: 5.5 Consensus size: 40
87493729 TATTCGGATG
*
87493739 ATATCCGGGCTAAGTCCCGAAGGCATTTGTACGAGTAGTTG-CT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGT--G-CTAG-TGACT
*
87493782 ATACCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
87493822 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
**
87493862 ATATCCGGGCTAAGTCCCGAAGGCATTCATGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
* *
87493902 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG-CT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAG-TGACT
*
87493942 ATATCC-GGCTAAATCCCGAAG
1 ATATCCGGGCTAAGTCCCGAAG
87493963 ATACTTGGGT
Statistics
Matches: 168, Mismatches: 11, Indels: 8
0.90 0.06 0.04
Matches are distributed among these distances:
39 15 0.09
40 121 0.72
41 3 0.02
43 29 0.17
ACGTcount: A:0.24, C:0.24, G:0.27, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
Found at i:87502500 original size:16 final size:16
Alignment explanation
Indices: 87502479--87502531 Score: 70
Period size: 16 Copynumber: 3.1 Consensus size: 16
87502469 CACACACGCC
87502479 CGTGTGGCTTGGGACA
1 CGTGTGGCTTGGGACA
87502495 CGTGTGGCTTGGGACA
1 CGTGTGGCTTGGGACA
87502511 CGCCCGTGTGGCTTGGGACA
1 ----CGTGTGGCTTGGGACA
87502531 C
1 C
87502532 TCCCGTGTCC
Statistics
Matches: 33, Mismatches: 0, Indels: 8
0.80 0.00 0.20
Matches are distributed among these distances:
16 17 0.52
20 16 0.48
ACGTcount: A:0.11, C:0.25, G:0.42, T:0.23
Consensus pattern (16 bp):
CGTGTGGCTTGGGACA
Found at i:87502520 original size:20 final size:20
Alignment explanation
Indices: 87502472--87502539 Score: 99
Period size: 20 Copynumber: 3.6 Consensus size: 20
87502462 GTGTGGTCAC
87502472 ACACGCCCGTGTGGCTTGGG
1 ACACGCCCGTGTGGCTTGGG
87502492 ACA----CGTGTGGCTTGGG
1 ACACGCCCGTGTGGCTTGGG
87502508 ACACGCCCGTGTGGCTTGGG
1 ACACGCCCGTGTGGCTTGGG
*
87502528 ACACTCCCGTGT
1 ACACGCCCGTGT
87502540 CCTCAGCCTA
Statistics
Matches: 43, Mismatches: 1, Indels: 8
0.83 0.02 0.15
Matches are distributed among these distances:
16 16 0.37
20 27 0.63
ACGTcount: A:0.12, C:0.29, G:0.37, T:0.22
Consensus pattern (20 bp):
ACACGCCCGTGTGGCTTGGG
Found at i:87504977 original size:80 final size:79
Alignment explanation
Indices: 87504893--87505064 Score: 220
Period size: 79 Copynumber: 2.2 Consensus size: 79
87504883 GGACTAAGAT
*
87504893 CCGAAGGCATTTGTGCGAGATA-CAAATTCCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGATACT
1 CCGAAGGCATTTGTGCGAGATATCAAA-TCCGGGTTAAGCCCCGAAGG-CATTGTGCGAGATACT
* *
87504957 AAATCCGGGTTAAGTC
64 AAAACCGGGCTAAGTC
* * * * * * *
87504973 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTATGTCCCGAAGGCATTGTGTGAGTTACTAA
1 CCGAAGGCATTTGTGCGAGATATCAAATCCGGGTTAAGCCCCGAAGGCATTGTGCGAGATACTAA
*
87505038 AACCGGGCTATGTC
66 AACCGGGCTAAGTC
87505052 CCGAAGGCATTTG
1 CCGAAGGCATTTG
87505065 AACGAGGAGC
Statistics
Matches: 79, Mismatches: 12, Indels: 3
0.84 0.13 0.03
Matches are distributed among these distances:
79 38 0.48
80 38 0.48
81 3 0.04
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.26
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAGATATCAAATCCGGGTTAAGCCCCGAAGGCATTGTGCGAGATACTAA
AACCGGGCTAAGTC
Found at i:87505044 original size:39 final size:39
Alignment explanation
Indices: 87504840--87505062 Score: 209
Period size: 40 Copynumber: 5.6 Consensus size: 39
87504830 TTGAATGCTG
* * * * *
87504840 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTA-AGTGAATATA
1 TCCGGGTTAAGTCCCGAAGGCATTGTGCGAGA-T-ACTAAA
**
87504880 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATAC-AAA
1 TCCGGGTTAAG-TCCCGAAGGCA-TTGTGCGAGATACTAAA
* *
87504919 TTCCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGATACTAAA
1 -TCCGGGTTAAGTCCCGAAGG-CATTGTGCGAGATACTAAA
* *
87504960 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATT-GTGCGAGATACTAAA
* * *
87505000 TCCGGGTTATGTCCCGAAGGCATTGTGTGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTGTGCGAGATACTAAA
* * *
87505039 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
87505063 TGAACGAGGA
Statistics
Matches: 157, Mismatches: 18, Indels: 17
0.82 0.09 0.09
Matches are distributed among these distances:
39 40 0.25
40 103 0.66
41 13 0.08
42 1 0.01
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.26
Consensus pattern (39 bp):
TCCGGGTTAAGTCCCGAAGGCATTGTGCGAGATACTAAA
Found at i:87505082 original size:79 final size:80
Alignment explanation
Indices: 87504920--87505097 Score: 191
Period size: 79 Copynumber: 2.2 Consensus size: 80
87504910 AGATACAAAT
* * * *
87504920 TCCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCATTC
1 TCCGGGTTAAGTCCCGAAGGCCATTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGGCATTC
** * *
87504985 GTGCGAGTTATTAAA
66 GAACGAGTGACTAAA
* * * * *
87505000 TCCGGGTTATGTCCCGAAGG-CATTGTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGGCATTT
1 TCCGGGTTAAGTCCCGAAGGCCATTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGGCATTC
*
87505064 GAACGAG-GAGCTATA
66 GAACGAGTGA-CTAAA
*
87505079 TCC-GGTTAAATCCCGAAGG
1 TCCGGGTTAAGTCCCGAAGG
87505098 TACGTGATTT
Statistics
Matches: 81, Mismatches: 16, Indels: 4
0.80 0.16 0.04
Matches are distributed among these distances:
78 15 0.19
79 48 0.59
80 18 0.22
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (80 bp):
TCCGGGTTAAGTCCCGAAGGCCATTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGGCATTC
GAACGAGTGACTAAA
Found at i:87508482 original size:480 final size:480
Alignment explanation
Indices: 87507565--87508526 Score: 1789
Period size: 480 Copynumber: 2.0 Consensus size: 480
87507555 ATGAACGTCG
*
87507565 AGACAGGACGAAATGCCGATATTGCGGTAAATGGCATTCGGGGAGTTGTAGATTCCCTGACCGCT
1 AGACAGAACGAAATGCCGATATTGCGGTAAATGGCATTCGGGGAGTTGTAGATTCCCTGACCGCT
* * *
87507630 CCTGTTACAAGTGCGGATCAGTTGACCACTTCATTAAAGATTGCCCGAGGTTGTCGGGACAGAAT
66 CCTGTTACAAATGCGGATCAGTGGACCACTTCATTAAAGATTGCCCGAGGTTGTCGGAACAGAAT
* *
87507695 GCAAATCAGAGTGGGAGACCGGGTGCTACCACTGCTCGAGGTAGACCATCTGGAAATACGGGCAA
131 GAAAATCAGAGTGGGAAACCGGGTGCTACCACTGCTCGAGGTAGACCATCTGGAAATACGGGCAA
87507760 TGCTAGTGGTGGTCAGAGAGGATCTAGAGATGATATAACCAGATCCGAAGCCCGTGCGCCTGCTA
196 TGCTAGTGGTGGTCAGAGAGGATCTAGAGATGATATAACCAGATCCGAAGCCCGTGCGCCTGCTA
87507825 GAGCTTATGCTATACGTGCCCGCGAGGATGCTTCTTCGCCTGATGTTATTACCGGTACATTCACC
261 GAGCTTATGCTATACGTGCCCGCGAGGATGCTTCTTCGCCTGATGTTATTACCGGTACATTCACC
87507890 CTCTTTGATACTAATGTAATTGCTTTGATTGACCCCGGTTCTACTCATTCCTACATATGTGAAAC
326 CTCTTTGATACTAATGTAATTGCTTTGATTGACCCCGGTTCTACTCATTCCTACATATGTGAAAC
87507955 CTTAGCATCCAGTAAGACTTTACCTATTGAGTCTACTGAGTTCGTAATTCGGGTGTCAAATCCCT
391 CTTAGCATCCAGTAAGACTTTACCTATTGAGTCTACTGAGTTCGTAATTCGGGTGTCAAATCCCT
87508020 TGGGTCGTTACGTGCTTGTCGACAA
456 TGGGTCGTTACGTGCTTGTCGACAA
* * *
87508045 AGACAGAACGGAATGTCGATATTGCGGTAAATGGCATTCGGGGAGTTGTAGATTTCCTGACCGCT
1 AGACAGAACGAAATGCCGATATTGCGGTAAATGGCATTCGGGGAGTTGTAGATTCCCTGACCGCT
**
87508110 CCTGTTACAAATGCGGATCAGTGGACCACTTCATTAAAGATTGCCCGAGGTTGTTTGAACAGAAT
66 CCTGTTACAAATGCGGATCAGTGGACCACTTCATTAAAGATTGCCCGAGGTTGTCGGAACAGAAT
*
87508175 GAAAATCAGAGTGGGAAACCGGGTGCTACCACTGCTCGAGGTAGACCATCTGGAAATATGGGCAA
131 GAAAATCAGAGTGGGAAACCGGGTGCTACCACTGCTCGAGGTAGACCATCTGGAAATACGGGCAA
*
87508240 TGCTGGTGGTGGTCAGAGAGGATCTAGAGATGATATAACCAGATCCGAAGCCCGTGCGCCTGCTA
196 TGCTAGTGGTGGTCAGAGAGGATCTAGAGATGATATAACCAGATCCGAAGCCCGTGCGCCTGCTA
*
87508305 GAGCTTATGCTATACGTGCCCGCGAGGATGCTTCTTCGCCTGATGTTATTACCGGTACATTCACT
261 GAGCTTATGCTATACGTGCCCGCGAGGATGCTTCTTCGCCTGATGTTATTACCGGTACATTCACC
*
87508370 CTCTTTGATACTAATGTAATTGCTTTGATTGACCCCGGTTCTACTCATTCTTACATATGTGAAAC
326 CTCTTTGATACTAATGTAATTGCTTTGATTGACCCCGGTTCTACTCATTCCTACATATGTGAAAC
87508435 CTTAGCATCCAGTAAGACTTTACCTATTGAGTCTACTGAGTTCGTAATTCGGGTGTCAAATCCCT
391 CTTAGCATCCAGTAAGACTTTACCTATTGAGTCTACTGAGTTCGTAATTCGGGTGTCAAATCCCT
87508500 TGGGTCGTTACGTGCTTGTCGACAA
456 TGGGTCGTTACGTGCTTGTCGACAA
87508525 AG
1 AG
87508527 TGTGTAAGAA
Statistics
Matches: 467, Mismatches: 15, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
480 467 1.00
ACGTcount: A:0.25, C:0.22, G:0.25, T:0.28
Consensus pattern (480 bp):
AGACAGAACGAAATGCCGATATTGCGGTAAATGGCATTCGGGGAGTTGTAGATTCCCTGACCGCT
CCTGTTACAAATGCGGATCAGTGGACCACTTCATTAAAGATTGCCCGAGGTTGTCGGAACAGAAT
GAAAATCAGAGTGGGAAACCGGGTGCTACCACTGCTCGAGGTAGACCATCTGGAAATACGGGCAA
TGCTAGTGGTGGTCAGAGAGGATCTAGAGATGATATAACCAGATCCGAAGCCCGTGCGCCTGCTA
GAGCTTATGCTATACGTGCCCGCGAGGATGCTTCTTCGCCTGATGTTATTACCGGTACATTCACC
CTCTTTGATACTAATGTAATTGCTTTGATTGACCCCGGTTCTACTCATTCCTACATATGTGAAAC
CTTAGCATCCAGTAAGACTTTACCTATTGAGTCTACTGAGTTCGTAATTCGGGTGTCAAATCCCT
TGGGTCGTTACGTGCTTGTCGACAA
Found at i:87513314 original size:40 final size:40
Alignment explanation
Indices: 87513231--87513493 Score: 316
Period size: 40 Copynumber: 6.6 Consensus size: 40
87513221 TTGAATGCTG
* * * * * *
87513231 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGC-GAGTTATTAAA
* * * * *
87513271 TCCGGATTAAGAT-CCGAAGGCCTTTGTGCGAGATACTAAA
1 TCCGGGTTAAG-TCCCGAAGGCATTCGTGCGAGTTATTAAA
87513311 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
*
87513351 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
*
87513391 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
* * *
87513431 TCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
* * *
87513470 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
87513494 TGAACGAGGA
Statistics
Matches: 201, Mismatches: 19, Indels: 7
0.89 0.08 0.03
Matches are distributed among these distances:
39 35 0.17
40 158 0.79
41 8 0.04
ACGTcount: A:0.24, C:0.21, G:0.28, T:0.27
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
Found at i:87513513 original size:79 final size:80
Alignment explanation
Indices: 87513270--87513528 Score: 247
Period size: 80 Copynumber: 3.3 Consensus size: 80
87513260 AAGTGAATAT
* * * * * *
87513270 ATCCGGATTAAGAT-CCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCAT
1 ATCCGGGTTAAG-TCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCAT
** * *
87513334 TCGTGCGAGTTA-TTAA
65 TCGAACGAG-GAGCTAA
** * *
87513350 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTAAGTCCCGAAGGCATT
1 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCATT
** ** *
87513415 CGTGCGAGTTGTTAA
66 CGAACGAGGAGCTAA
* * *
87513430 ATCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGGCATT
1 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCATT
* *
87513494 TGAACGAGGAGCTAT
66 CGAACGAGGAGCTAA
*
87513509 ATCC-GGTTAAATCCCGAAGG
1 ATCCGGGTTAAGTCCCGAAGG
87513529 TACGTGATTT
Statistics
Matches: 154, Mismatches: 23, Indels: 6
0.84 0.13 0.03
Matches are distributed among these distances:
78 14 0.09
79 47 0.31
80 93 0.60
ACGTcount: A:0.25, C:0.20, G:0.28, T:0.26
Consensus pattern (80 bp):
ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCATT
CGAACGAGGAGCTAA
Found at i:87516916 original size:26 final size:26
Alignment explanation
Indices: 87516887--87516950 Score: 83
Period size: 26 Copynumber: 2.5 Consensus size: 26
87516877 ACAAAGCCTA
* * *
87516887 CTAAATATACATCATCCCGAAGCTTG
1 CTAAATATACACCAGCACGAAGCTTG
* *
87516913 CTAAATATACACCAGGATGAAGCTTG
1 CTAAATATACACCAGCACGAAGCTTG
87516939 CTAAATATACAC
1 CTAAATATACAC
87516951 TGACACAAAG
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
26 33 1.00
ACGTcount: A:0.39, C:0.23, G:0.12, T:0.25
Consensus pattern (26 bp):
CTAAATATACACCAGCACGAAGCTTG
Found at i:87516961 original size:26 final size:27
Alignment explanation
Indices: 87516876--87516967 Score: 73
Period size: 26 Copynumber: 3.5 Consensus size: 27
87516866 AAAACACTGT
* *
87516876 CACAAAGCCTACTAAATATACA-TCAT
1 CACAAAGCCTGCTAAATATACACTCAG
* * *
87516902 CCCGAAGCTTGCTAAATATACAC-CAG
1 CACAAAGCCTGCTAAATATACACTCAG
* ** * *
87516928 GATGAAGCTTGCTAAATATACACTGA-
1 CACAAAGCCTGCTAAATATACACTCAG
87516954 CACAAAGCCTGCTA
1 CACAAAGCCTGCTA
87516968 TGCCCTAATG
Statistics
Matches: 51, Mismatches: 13, Indels: 4
0.75 0.19 0.06
Matches are distributed among these distances:
26 50 0.98
27 1 0.02
ACGTcount: A:0.39, C:0.26, G:0.13, T:0.22
Consensus pattern (27 bp):
CACAAAGCCTGCTAAATATACACTCAG
Found at i:87525926 original size:14 final size:14
Alignment explanation
Indices: 87525909--87525959 Score: 54
Period size: 13 Copynumber: 3.9 Consensus size: 14
87525899 ACCTCATATA
87525909 AATTTTTTATAAAT
1 AATTTTTTATAAAT
*
87525923 AA-TTTTTAAAAAT
1 AATTTTTTATAAAT
*
87525936 AAATTTTTAT-AAT
1 AATTTTTTATAAAT
*
87525949 -TTTTTTTATAA
1 AATTTTTTATAA
87525960 TTATTTAAGT
Statistics
Matches: 31, Mismatches: 4, Indels: 5
0.77 0.10 0.12
Matches are distributed among these distances:
12 7 0.23
13 16 0.52
14 8 0.26
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (14 bp):
AATTTTTTATAAAT
Found at i:87525930 original size:13 final size:14
Alignment explanation
Indices: 87525906--87525947 Score: 59
Period size: 14 Copynumber: 3.0 Consensus size: 14
87525896 ATTACCTCAT
87525906 ATAAATTTTTTATAA
1 ATAAA-TTTTTATAA
*
87525921 AT-AATTTTTAAAA
1 ATAAATTTTTATAA
87525934 ATAAATTTTTATAA
1 ATAAATTTTTATAA
87525948 TTTTTTTTAT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 10 0.42
14 12 0.50
15 2 0.08
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (14 bp):
ATAAATTTTTATAA
Found at i:87526071 original size:10 final size:10
Alignment explanation
Indices: 87526056--87526145 Score: 64
Period size: 10 Copynumber: 9.2 Consensus size: 10
87526046 TTTTAACATT
87526056 ATTTTTAATA
1 ATTTTTAATA
87526066 ATTTTTAATA
1 ATTTTTAATA
*
87526076 A-TTTTAACA
1 ATTTTTAATA
*
87526085 ATTTCTT-ATC
1 ATTT-TTAATA
*
87526095 ATTTTAAATA
1 ATTTTTAATA
* *
87526105 CTTTCCT-ATA
1 ATTT-TTAATA
87526115 ATTTTCT-A-A
1 ATTTT-TAATA
*
87526124 ATTTTTTATA
1 ATTTTTAATA
87526134 ATTTTTAATA
1 ATTTTTAATA
87526144 AT
1 AT
87526146 AATTTGAAAA
Statistics
Matches: 62, Mismatches: 11, Indels: 14
0.71 0.13 0.16
Matches are distributed among these distances:
8 1 0.02
9 16 0.26
10 43 0.69
11 2 0.03
ACGTcount: A:0.36, C:0.08, G:0.00, T:0.57
Consensus pattern (10 bp):
ATTTTTAATA
Found at i:87526082 original size:19 final size:19
Alignment explanation
Indices: 87526058--87526145 Score: 72
Period size: 19 Copynumber: 4.5 Consensus size: 19
87526048 TTAACATTAT
87526058 TTTTAATAATTT-TTAATAA
1 TTTTAATAATTTCTT-ATAA
* *
87526077 TTTTAACAATTTCTTATCA
1 TTTTAATAATTTCTTATAA
* *
87526096 TTTTAAATACTTTCCTATAA
1 TTTT-AATAATTTCTTATAA
* *
87526116 TTTT-CTAAATTTTTTATAA
1 TTTTAAT-AATTTCTTATAA
87526135 TTTTTAATAAT
1 -TTTTAATAAT
87526146 AATTTGAAAA
Statistics
Matches: 53, Mismatches: 11, Indels: 9
0.73 0.15 0.12
Matches are distributed among these distances:
18 1 0.02
19 27 0.51
20 24 0.45
21 1 0.02
ACGTcount: A:0.35, C:0.08, G:0.00, T:0.57
Consensus pattern (19 bp):
TTTTAATAATTTCTTATAA
Found at i:87526976 original size:21 final size:21
Alignment explanation
Indices: 87526923--87526976 Score: 51
Period size: 21 Copynumber: 2.6 Consensus size: 21
87526913 ATGCTTTTTG
87526923 TTTTT-TTATACTTTTATATAA
1 TTTTTATT-TACTTTTATATAA
*
87526944 TCCTTTCA--TACTTTTATATAA
1 T--TTTTATTTACTTTTATATAA
87526965 TTTTTATTTACT
1 TTTTTATTTACT
87526977 CTAATCTAAT
Statistics
Matches: 26, Mismatches: 2, Indels: 10
0.68 0.05 0.26
Matches are distributed among these distances:
19 4 0.15
21 19 0.73
23 3 0.12
ACGTcount: A:0.26, C:0.11, G:0.00, T:0.63
Consensus pattern (21 bp):
TTTTTATTTACTTTTATATAA
Found at i:87529819 original size:24 final size:24
Alignment explanation
Indices: 87529762--87529820 Score: 59
Period size: 24 Copynumber: 2.5 Consensus size: 24
87529752 TACTACCGAT
87529762 CAGGATGCTCGCAGAACTATATAA
1 CAGGATGCTCGCAGAACTATATAA
* * *
87529786 CGGGAAGCTCG-AGAGGACTA-ATAC
1 CAGGATGCTCGCAGA--ACTATATAA
87529810 CAGGATGCTCG
1 CAGGATGCTCG
87529821 TAAGAGCTAT
Statistics
Matches: 28, Mismatches: 5, Indels: 4
0.76 0.14 0.11
Matches are distributed among these distances:
23 3 0.11
24 21 0.75
25 4 0.14
ACGTcount: A:0.32, C:0.22, G:0.29, T:0.17
Consensus pattern (24 bp):
CAGGATGCTCGCAGAACTATATAA
Found at i:87530009 original size:21 final size:22
Alignment explanation
Indices: 87529969--87530011 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
87529959 AACATTTATA
87529969 CAATTCAAACAAATTTAACATT
1 CAATTCAAACAAATTTAACATT
*
87529991 CAATTCAAATAAA-TTAACATT
1 CAATTCAAACAAATTTAACATT
87530012 TATAATCTAG
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
21 8 0.40
22 12 0.60
ACGTcount: A:0.51, C:0.16, G:0.00, T:0.33
Consensus pattern (22 bp):
CAATTCAAACAAATTTAACATT
Found at i:87535082 original size:8 final size:8
Alignment explanation
Indices: 87535071--87535104 Score: 68
Period size: 8 Copynumber: 4.2 Consensus size: 8
87535061 TATTTTAATC
87535071 ACTCTTAT
1 ACTCTTAT
87535079 ACTCTTAT
1 ACTCTTAT
87535087 ACTCTTAT
1 ACTCTTAT
87535095 ACTCTTAT
1 ACTCTTAT
87535103 AC
1 AC
87535105 CATGCTCAAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 26 1.00
ACGTcount: A:0.26, C:0.26, G:0.00, T:0.47
Consensus pattern (8 bp):
ACTCTTAT
Done.