Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A03
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: 108673976
ACGTcount: A:0.31, C:0.17, G:0.16, T:0.31
Warning! 5040000 characters in sequence are not A, C, G, or T
File 199 of 333
Found at i:65162954 original size:19 final size:20
Alignment explanation
Indices: 65162917--65162954 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
65162907 ATAAGGTGGT
65162917 AAGATGATGAATGATGTTTA
1 AAGATGATGAATGATGTTTA
65162937 AAGATG-TGATAT-ATGTTT
1 AAGATGATGA-ATGATGTTT
65162955 TGGTGGTACC
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.37, C:0.00, G:0.24, T:0.39
Consensus pattern (20 bp):
AAGATGATGAATGATGTTTA
Found at i:65165453 original size:6 final size:6
Alignment explanation
Indices: 65165444--65165485 Score: 52
Period size: 6 Copynumber: 7.3 Consensus size: 6
65165434 TAATTTAGCC
* *
65165444 ATTTTT ATTTTT ATTTTT A--TTT ATTTTT AGTTTA ATTTTT AT
1 ATTTTT ATTTTT ATTTTT ATTTTT ATTTTT ATTTTT ATTTTT AT
65165486 ATTCTAATTT
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
4 4 0.13
6 26 0.87
ACGTcount: A:0.21, C:0.00, G:0.02, T:0.76
Consensus pattern (6 bp):
ATTTTT
Found at i:65165469 original size:22 final size:22
Alignment explanation
Indices: 65165444--65165485 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
65165434 TAATTTAGCC
* *
65165444 ATTTTTATTTTTATTTTTATTT
1 ATTTTTAGTTTAATTTTTATTT
65165466 ATTTTTAGTTTAATTTTTAT
1 ATTTTTAGTTTAATTTTTAT
65165486 ATTCTAATTT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.21, C:0.00, G:0.02, T:0.76
Consensus pattern (22 bp):
ATTTTTAGTTTAATTTTTATTT
Found at i:65165481 original size:16 final size:16
Alignment explanation
Indices: 65165447--65165481 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
65165437 TTTAGCCATT
* *
65165447 TTTATTTTTATTTTTA
1 TTTATTTTTAGTTTAA
65165463 TTTATTTTTAGTTTAA
1 TTTATTTTTAGTTTAA
65165479 TTT
1 TTT
65165482 TTATATTCTA
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:0.20, C:0.00, G:0.03, T:0.77
Consensus pattern (16 bp):
TTTATTTTTAGTTTAA
Found at i:65169268 original size:31 final size:29
Alignment explanation
Indices: 65169220--65169288 Score: 79
Period size: 30 Copynumber: 2.3 Consensus size: 29
65169210 GATATTTTGA
*
65169220 TATTTTA-TAATTATTTAATTAGATAAATAT
1 TATTTTATTAATTATTTAATAAGAT--ATAT
65169250 TATTTTATTAA-TACTTTAATAAGATATAT
1 TATTTTATTAATTA-TTTAATAAGATATAT
65169279 TATTATTATT
1 TATT-TTATT
65169289 TTATTAGTAT
Statistics
Matches: 35, Mismatches: 1, Indels: 6
0.83 0.02 0.14
Matches are distributed among these distances:
29 8 0.23
30 14 0.40
31 13 0.37
ACGTcount: A:0.41, C:0.01, G:0.03, T:0.55
Consensus pattern (29 bp):
TATTTTATTAATTATTTAATAAGATATAT
Found at i:65171484 original size:46 final size:46
Alignment explanation
Indices: 65171417--65171633 Score: 265
Period size: 46 Copynumber: 4.7 Consensus size: 46
65171407 TGGCAACCTG
* *
65171417 TGTGTAAGACCATGGTTGAAAGATACCATGGCAACTTGATATGAAA
1 TGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGACATGAAA
* * * * *
65171463 TGTGTAAGACCATGGTTGAAAGATACCATGGTAGCCTGATATGAGA
1 TGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGACATGAAA
*
65171509 TGTGTAAGACCATGGTTGAAAGATACCATGGCAACGTGACATGAAA
1 TGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGACATGAAA
**** *
65171555 AAAATAAGACCATGGTTGAAAAATACCATGGCAACATGACA-GAAAA
1 TGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGACATG-AAA
* * * *
65171601 TGAGTAAGACCATAGTTGAAAGACACTATGGCA
1 TGTGTAAGACCATGGTTGAAAGATACCATGGCA
65171634 TCACGTCAAA
Statistics
Matches: 148, Mismatches: 22, Indels: 2
0.86 0.13 0.01
Matches are distributed among these distances:
45 1 0.01
46 147 0.99
ACGTcount: A:0.40, C:0.14, G:0.24, T:0.22
Consensus pattern (46 bp):
TGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGACATGAAA
Found at i:65171939 original size:23 final size:25
Alignment explanation
Indices: 65171894--65171940 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 25
65171884 AATAAATATA
*
65171894 CATAAAATATATGGAAATGATGAAG
1 CATAAAATATATGGAAATAATGAAG
*
65171919 CATAAAATAT-T-GATATAATGAA
1 CATAAAATATATGGAAATAATGAA
65171941 ATGAATGATA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 9 0.45
24 1 0.05
25 10 0.50
ACGTcount: A:0.53, C:0.04, G:0.15, T:0.28
Consensus pattern (25 bp):
CATAAAATATATGGAAATAATGAAG
Found at i:65174582 original size:31 final size:29
Alignment explanation
Indices: 65174534--65174602 Score: 79
Period size: 30 Copynumber: 2.3 Consensus size: 29
65174524 GATATTTTGA
*
65174534 TATTTTA-TAATTATTTAATTAGATAAATAT
1 TATTTTATTAATTATTTAATAAGAT--ATAT
65174564 TATTTTATTAA-TACTTTAATAAGATATAT
1 TATTTTATTAATTA-TTTAATAAGATATAT
65174593 TATTATTATT
1 TATT-TTATT
65174603 TTATTAGTAT
Statistics
Matches: 35, Mismatches: 1, Indels: 6
0.83 0.02 0.14
Matches are distributed among these distances:
29 8 0.23
30 14 0.40
31 13 0.37
ACGTcount: A:0.41, C:0.01, G:0.03, T:0.55
Consensus pattern (29 bp):
TATTTTATTAATTATTTAATAAGATATAT
Found at i:65176799 original size:46 final size:46
Alignment explanation
Indices: 65176732--65176949 Score: 285
Period size: 46 Copynumber: 4.7 Consensus size: 46
65176722 ATGGCAACCT
* *
65176732 ATGTGTAAGACCATGGTTGAAAGATACCATGGCAACTTGATATGAA
1 ATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGACATGAA
* * * *
65176778 ATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTAATATGAG
1 ATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGACATGAA
*
65176824 ATGTGTAAGACCATGGTTGAAAGATACCATGGCAACGTGACATGAA
1 ATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGACATGAA
* ** *
65176870 AAGAATAAGACAATGGTTGAAAGATACCATGGCAACATGACA-GAAA
1 ATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGACATG-AA
* * * *
65176916 ATGAGTAAGACCATAGTTGAAAGACACTATGGCA
1 ATGTGTAAGACCATGGTTGAAAGATACCATGGCA
65176950 TCACGTCAAA
Statistics
Matches: 153, Mismatches: 18, Indels: 2
0.88 0.10 0.01
Matches are distributed among these distances:
45 1 0.01
46 152 0.99
ACGTcount: A:0.40, C:0.14, G:0.24, T:0.22
Consensus pattern (46 bp):
ATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGACATGAA
Found at i:65177255 original size:23 final size:25
Alignment explanation
Indices: 65177210--65177256 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 25
65177200 AATAAATATA
*
65177210 CATAAAATATATGGAAATGATGAAG
1 CATAAAATATATGGAAATAATGAAG
*
65177235 CATAAAATAT-T-GATATAATGAA
1 CATAAAATATATGGAAATAATGAA
65177257 ATGAATGATA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 9 0.45
24 1 0.05
25 10 0.50
ACGTcount: A:0.53, C:0.04, G:0.15, T:0.28
Consensus pattern (25 bp):
CATAAAATATATGGAAATAATGAAG
Found at i:65180824 original size:47 final size:47
Alignment explanation
Indices: 65180770--65180903 Score: 169
Period size: 47 Copynumber: 2.9 Consensus size: 47
65180760 TATCTGCTCG
* *
65180770 ACCAGTGGTTTATCCACAATGTATTTTAGTCGGCAGTCACCTGCTTA
1 ACCAGTGGTTTATCCACAACGTATTTTAGTCGGCAGTCACCTCCTTA
* * * * * *
65180817 ACTAGTGGTTTATCCACAACGTATCTTAGTCGACAATCATCTCCTTG
1 ACCAGTGGTTTATCCACAACGTATTTTAGTCGGCAGTCACCTCCTTA
* * *
65180864 ACCAATGGTTTATCCACAACGTATTTTAGTCAGTAGTCAC
1 ACCAGTGGTTTATCCACAACGTATTTTAGTCGGCAGTCAC
65180904 TTGATCGAGT
Statistics
Matches: 71, Mismatches: 16, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
47 71 1.00
ACGTcount: A:0.26, C:0.24, G:0.16, T:0.34
Consensus pattern (47 bp):
ACCAGTGGTTTATCCACAACGTATTTTAGTCGGCAGTCACCTCCTTA
Found at i:65182854 original size:57 final size:57
Alignment explanation
Indices: 65182766--65182881 Score: 146
Period size: 57 Copynumber: 2.0 Consensus size: 57
65182756 ATTGACCTCA
** * *
65182766 TTATAGAAAGGATTTAGTCTGGACTGGTAATCC-AATATAAGCCCTCT-TGAGCATATG
1 TTATAGAAAGGATTTAACCCGGACGGGTAATCCTAAT-TAAGCCCT-TATGAGCATATG
* *
65182823 TTATAGATAGGATTTAACCCGGACGGGTAATCCTAATTAAGCTCTTATGAGCATATG
1 TTATAGAAAGGATTTAACCCGGACGGGTAATCCTAATTAAGCCCTTATGAGCATATG
65182880 TT
1 TT
65182882 GGAAACAGGA
Statistics
Matches: 51, Mismatches: 6, Indels: 4
0.84 0.10 0.07
Matches are distributed among these distances:
56 1 0.02
57 47 0.92
58 3 0.06
ACGTcount: A:0.31, C:0.16, G:0.21, T:0.33
Consensus pattern (57 bp):
TTATAGAAAGGATTTAACCCGGACGGGTAATCCTAATTAAGCCCTTATGAGCATATG
Found at i:65182892 original size:57 final size:57
Alignment explanation
Indices: 65182786--65182895 Score: 134
Period size: 57 Copynumber: 1.9 Consensus size: 57
65182776 GATTTAGTCT
* * * *
65182786 GGACTGGTAATCCAATATAAGCCCTCTTGAGCATATGTTATAGATAGGATTTAACCC
1 GGACGGGTAATCCAATATAAGCCCTCTTGAGCATATGTTAGAAACAGGATTTAACCC
* *
65182843 GGACGGGTAATCCTAAT-TAAGCTCT-TATGAGCATATGTTGGAAACAGGATTTA
1 GGACGGGTAATCC-AATATAAGCCCTCT-TGAGCATATGTTAGAAACAGGATTTA
65182896 GCTTGGACAA
Statistics
Matches: 45, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
56 1 0.02
57 41 0.91
58 3 0.07
ACGTcount: A:0.32, C:0.16, G:0.22, T:0.30
Consensus pattern (57 bp):
GGACGGGTAATCCAATATAAGCCCTCTTGAGCATATGTTAGAAACAGGATTTAACCC
Found at i:65185129 original size:14 final size:14
Alignment explanation
Indices: 65185110--65185143 Score: 59
Period size: 14 Copynumber: 2.4 Consensus size: 14
65185100 TCTTTCATAT
65185110 TATTTCAAAATCCA
1 TATTTCAAAATCCA
65185124 TATTTCAAAATCCA
1 TATTTCAAAATCCA
*
65185138 AATTTC
1 TATTTC
65185144 TTTCCGAACG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.41, C:0.21, G:0.00, T:0.38
Consensus pattern (14 bp):
TATTTCAAAATCCA
Found at i:65189798 original size:9 final size:9
Alignment explanation
Indices: 65189784--65189809 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
65189774 GTCCTTAATT
65189784 CACAAAATA
1 CACAAAATA
65189793 CACAAAATA
1 CACAAAATA
65189802 CACAAAAT
1 CACAAAAT
65189810 CTACTTTTAC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.65, C:0.23, G:0.00, T:0.12
Consensus pattern (9 bp):
CACAAAATA
Found at i:65199884 original size:25 final size:25
Alignment explanation
Indices: 65199855--65199902 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
65199845 TTATAACATG
* * *
65199855 AAAATGACCGTTTTGCCCCTAGGTA
1 AAAATGACCATTATACCCCTAGGTA
65199880 AAAATGACCATTATACCCCTAGG
1 AAAATGACCATTATACCCCTAGG
65199903 GCTTATGTAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.33, C:0.25, G:0.17, T:0.25
Consensus pattern (25 bp):
AAAATGACCATTATACCCCTAGGTA
Found at i:65199986 original size:11 final size:11
Alignment explanation
Indices: 65199950--65200005 Score: 57
Period size: 11 Copynumber: 5.5 Consensus size: 11
65199940 CATGGTATGT
65199950 ATGATATGCAC
1 ATGATATGCAC
* *
65199961 ATGACATG--T
1 ATGATATGCAC
65199970 ATGATATGCAC
1 ATGATATGCAC
*
65199981 ATGATATG--T
1 ATGATATGCAC
65199990 ATGATATGCAC
1 ATGATATGCAC
65200001 ATGAT
1 ATGAT
65200006 GTATTCATAA
Statistics
Matches: 35, Mismatches: 6, Indels: 8
0.71 0.12 0.16
Matches are distributed among these distances:
9 15 0.43
11 20 0.57
ACGTcount: A:0.36, C:0.12, G:0.20, T:0.32
Consensus pattern (11 bp):
ATGATATGCAC
Found at i:65200005 original size:20 final size:20
Alignment explanation
Indices: 65199939--65200005 Score: 116
Period size: 20 Copynumber: 3.4 Consensus size: 20
65199929 ATTTTGATAA
*
65199939 ACATGGTATGTATGATATGC
1 ACATGATATGTATGATATGC
*
65199959 ACATGACATGTATGATATGC
1 ACATGATATGTATGATATGC
65199979 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
65199999 ACATGAT
1 ACATGAT
65200006 GTATTCATAA
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 44 1.00
ACGTcount: A:0.34, C:0.12, G:0.21, T:0.33
Consensus pattern (20 bp):
ACATGATATGTATGATATGC
Found at i:65200086 original size:23 final size:24
Alignment explanation
Indices: 65200054--65200173 Score: 147
Period size: 23 Copynumber: 5.0 Consensus size: 24
65200044 GGAGGAAGTG
65200054 AAAAAGGGCTTATGCCCCAGTTAT
1 AAAAAGGGCTTATGCCCCAGTTAT
*
65200078 -TAAAGGGCTTATGCCCCAGTTAT
1 AAAAAGGGCTTATGCCCCAGTTAT
*
65200101 CAAAAGGGCTTATGCCCCAGTTAT
1 AAAAAGGGCTTATGCCCCAGTTAT
**
65200125 AAAAAGGGCTT-TTACCCAGTTAT
1 AAAAAGGGCTTATGCCCCAGTTAT
* *
65200148 TAAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAAG-GGCTTATGCC-CCAGTTAT
65200173 A
1 A
65200174 TGATAAAGCA
Statistics
Matches: 82, Mismatches: 10, Indels: 7
0.83 0.10 0.07
Matches are distributed among these distances:
23 38 0.46
24 36 0.44
25 8 0.10
ACGTcount: A:0.32, C:0.21, G:0.21, T:0.27
Consensus pattern (24 bp):
AAAAAGGGCTTATGCCCCAGTTAT
Found at i:65200111 original size:24 final size:23
Alignment explanation
Indices: 65200055--65200173 Score: 143
Period size: 24 Copynumber: 5.0 Consensus size: 23
65200045 GAGGAAGTGA
65200055 AAAAGGGCTTATGCCCCAGTTAT
1 AAAAGGGCTTATGCCCCAGTTAT
*
65200078 TAAAGGGCTTATGCCCCAGTTAT
1 AAAAGGGCTTATGCCCCAGTTAT
65200101 CAAAAGGGCTTATGCCCCAGTTAT
1 -AAAAGGGCTTATGCCCCAGTTAT
**
65200125 AAAAAGGGCTT-TTACCCAGTTATT
1 -AAAAGGGCTTATGCCCCAGTTA-T
*
65200149 AAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAG-GGCTTATGCC-CCAGTTAT
65200173 A
1 A
65200174 TGATAAAGCA
Statistics
Matches: 83, Mismatches: 8, Indels: 9
0.83 0.08 0.09
Matches are distributed among these distances:
23 37 0.45
24 39 0.47
25 7 0.08
ACGTcount: A:0.31, C:0.21, G:0.21, T:0.27
Consensus pattern (23 bp):
AAAAGGGCTTATGCCCCAGTTAT
Found at i:65200124 original size:47 final size:47
Alignment explanation
Indices: 65200055--65200173 Score: 152
Period size: 47 Copynumber: 2.5 Consensus size: 47
65200045 GAGGAAGTGA
* *
65200055 AAAAGGGCTTATGCCCCAGTTAT-TAAAGGGCTTATGCCCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTATAAAAAGGGCTT-TGACCCAGTTATC
* *
65200102 AAAAGGGCTTATGCCCCAGTTATAAAAAGGGCTTTTACCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATAAAAAGGGCTTTGACCCAGTTATC
*
65200149 AAAAGAGGC-TAGGCCTCCAGTTATA
1 AAAAG-GGCTTATGCC-CCAGTTATA
65200174 TGATAAAGCA
Statistics
Matches: 64, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
47 43 0.67
48 21 0.33
ACGTcount: A:0.31, C:0.21, G:0.21, T:0.27
Consensus pattern (47 bp):
AAAAGGGCTTATGCCCCAGTTATAAAAAGGGCTTTGACCCAGTTATC
Found at i:65200401 original size:31 final size:31
Alignment explanation
Indices: 65200366--65200429 Score: 101
Period size: 31 Copynumber: 2.1 Consensus size: 31
65200356 CGTTCACAGT
*
65200366 AAAGGCTTCGGCCCAGTAATATGAAATTTGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
**
65200397 AAAGGCTTCGGCCCAGTGTTATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
65200428 AA
1 AA
65200430 TATGAAAAGG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.36, C:0.16, G:0.23, T:0.25
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTAATATGAAATATGA
Found at i:65206526 original size:11 final size:11
Alignment explanation
Indices: 65206490--65206545 Score: 57
Period size: 11 Copynumber: 5.5 Consensus size: 11
65206480 CATGGTATGT
65206490 ATGATATGCAC
1 ATGATATGCAC
* *
65206501 ATGACATG--T
1 ATGATATGCAC
65206510 ATGATATGCAC
1 ATGATATGCAC
*
65206521 ATGATATG--T
1 ATGATATGCAC
65206530 ATGATATGCAC
1 ATGATATGCAC
65206541 ATGAT
1 ATGAT
65206546 GTATTTATAA
Statistics
Matches: 35, Mismatches: 6, Indels: 8
0.71 0.12 0.16
Matches are distributed among these distances:
9 15 0.43
11 20 0.57
ACGTcount: A:0.36, C:0.12, G:0.20, T:0.32
Consensus pattern (11 bp):
ATGATATGCAC
Found at i:65206545 original size:20 final size:20
Alignment explanation
Indices: 65206479--65206545 Score: 116
Period size: 20 Copynumber: 3.4 Consensus size: 20
65206469 ATTTTGATAG
*
65206479 ACATGGTATGTATGATATGC
1 ACATGATATGTATGATATGC
*
65206499 ACATGACATGTATGATATGC
1 ACATGATATGTATGATATGC
65206519 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
65206539 ACATGAT
1 ACATGAT
65206546 GTATTTATAA
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 44 1.00
ACGTcount: A:0.34, C:0.12, G:0.21, T:0.33
Consensus pattern (20 bp):
ACATGATATGTATGATATGC
Found at i:65206709 original size:25 final size:24
Alignment explanation
Indices: 65206595--65206713 Score: 170
Period size: 24 Copynumber: 5.0 Consensus size: 24
65206585 GAGGAAGTGA
65206595 AAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
*
65206619 -AAAGGGCTTATGCCCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTATT
*
65206642 AAAAGGGCTTATGCCCCAGTTATA
1 AAAAGGGCTTATGCCCCAGTTATT
*
65206666 AAAAGGGCTTTTGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
*
65206690 AAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAG-GGCTTATGCC-CCAGTTAT
65206714 ATTATAAAGT
Statistics
Matches: 86, Mismatches: 6, Indels: 5
0.89 0.06 0.05
Matches are distributed among these distances:
23 22 0.26
24 53 0.62
25 11 0.13
ACGTcount: A:0.29, C:0.22, G:0.22, T:0.27
Consensus pattern (24 bp):
AAAAGGGCTTATGCCCCAGTTATT
Found at i:65206942 original size:31 final size:31
Alignment explanation
Indices: 65206907--65206970 Score: 83
Period size: 31 Copynumber: 2.1 Consensus size: 31
65206897 CGTTCACAGT
** *
65206907 AAAGGCTTCGGCCCAGTAATATGAAATTTGA
1 AAAGGCTTCAACCCAGTAATATGAAATATGA
**
65206938 AAAGGCTTCAACCCAGTGTTATGAAATATGA
1 AAAGGCTTCAACCCAGTAATATGAAATATGA
65206969 AA
1 AA
65206971 TATGAAAAGG
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
31 28 1.00
ACGTcount: A:0.39, C:0.16, G:0.20, T:0.25
Consensus pattern (31 bp):
AAAGGCTTCAACCCAGTAATATGAAATATGA
Found at i:65208280 original size:39 final size:39
Alignment explanation
Indices: 65208217--65208309 Score: 111
Period size: 39 Copynumber: 2.4 Consensus size: 39
65208207 TTATCTCAGT
65208217 ATCGCACACTTAGTGCCTCATATAGCCAAAGCT-ATTCA
1 ATCGCACACTTAGTGCCTCATATAGCCAAAGCTGATTCA
* * *
65208255 ACTCGCACACTTAGTG-CT-ATTTATAGCCGAAGCTGTTTGA
1 A-TCGCACACTTAGTGCCTCA--TATAGCCAAAGCTGATTCA
65208295 ATCGCACACTTAGTG
1 ATCGCACACTTAGTG
65208310 TCGAACATAG
Statistics
Matches: 48, Mismatches: 3, Indels: 7
0.83 0.05 0.12
Matches are distributed among these distances:
37 1 0.02
38 3 0.06
39 40 0.83
40 4 0.08
ACGTcount: A:0.28, C:0.26, G:0.17, T:0.29
Consensus pattern (39 bp):
ATCGCACACTTAGTGCCTCATATAGCCAAAGCTGATTCA
Found at i:65216181 original size:27 final size:27
Alignment explanation
Indices: 65216150--65216327 Score: 214
Period size: 27 Copynumber: 6.6 Consensus size: 27
65216140 TAAATTGTAC
65216150 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
65216177 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
65216203 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
65216231 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
*
65216259 AGCACTAAGTGTGCGATTTGATTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
65216286 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
65216313 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
65216328 GACTCGATAT
Statistics
Matches: 131, Mismatches: 17, Indels: 6
0.85 0.11 0.04
Matches are distributed among these distances:
27 108 0.82
28 23 0.18
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:65216264 original size:82 final size:81
Alignment explanation
Indices: 65216151--65216306 Score: 242
Period size: 82 Copynumber: 1.9 Consensus size: 81
65216141 AAATTGTACA
*
65216151 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATATGTA-GCACTAAGTG
65216215 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
65216232 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTATGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATATGTAGCACTAAGTG
*
65216297 TGCGAGTTGA
65 TGCGAATTGA
65216307 TTATATAGCA
Statistics
Matches: 68, Mismatches: 5, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
81 15 0.22
82 52 0.76
83 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATATGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:65216318 original size:82 final size:81
Alignment explanation
Indices: 65216147--65216327 Score: 238
Period size: 82 Copynumber: 2.2 Consensus size: 81
65216137 GATTAAATTG
*
65216147 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATATGATGCACTAA
65216212 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
65216228 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTATG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATATGAT-GCACT
* **
65216292 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
65216310 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
65216328 GACTCGATAT
Statistics
Matches: 85, Mismatches: 13, Indels: 3
0.84 0.13 0.03
Matches are distributed among these distances:
81 18 0.21
82 67 0.79
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATATGATGCACTAA
GTGTGCGAATTGACCA
Found at i:65223491 original size:48 final size:48
Alignment explanation
Indices: 65223450--65223719 Score: 335
Period size: 48 Copynumber: 5.6 Consensus size: 48
65223440 ATATTGGTGT
* * *
65223450 CGATGCCATGTCCTAGACATGGTATTACACTAGCACACATATC-ATCGC
1 CGATGCCATGTCCCAGACATGGTCTTACACTGGCACACATATCAAT-GC
** * *
65223498 TAATGCCATGTTCCAGACATGGTCTTACACTGGTACACATATCAATGC
1 CGATGCCATGTCCCAGACATGGTCTTACACTGGCACACATATCAATGC
* *
65223546 CGATGCCATGTCCCAAACATGGTCTTACACTGGCACATATATCAATGC
1 CGATGCCATGTCCCAGACATGGTCTTACACTGGCACACATATCAATGC
* * **
65223594 CGATGTCATGTCCCAGACATGATCTTACACTGGCACACATATCAACAC
1 CGATGCCATGTCCCAGACATGGTCTTACACTGGCACACATATCAATGC
* * * * * *
65223642 CGATGCCATGTTCCAGACATGGTCTTACACTGGCTCTCATCTCGGATGT
1 CGATGCCATGTCCCAGACATGGTCTTACACTGGCACACATATC-AATGC
*
65223691 TGATGCCATGTCCCAGACATGGTCTTACA
1 CGATGCCATGTCCCAGACATGGTCTTACA
65223720 TGGGATCTCA
Statistics
Matches: 189, Mismatches: 31, Indels: 3
0.85 0.14 0.01
Matches are distributed among these distances:
48 159 0.84
49 30 0.16
ACGTcount: A:0.27, C:0.29, G:0.18, T:0.27
Consensus pattern (48 bp):
CGATGCCATGTCCCAGACATGGTCTTACACTGGCACACATATCAATGC
Found at i:65223623 original size:144 final size:145
Alignment explanation
Indices: 65223450--65223719 Score: 382
Period size: 144 Copynumber: 1.9 Consensus size: 145
65223440 ATATTGGTGT
* * * * *
65223450 CGATGCCATGTCCTAGACATGGTATTACACTAGCACACATATCATCGCTAATGCCATGTTCCAGA
1 CGATGCCATGTCCCAGACATGATATTACACTAGCACACATATCAACACCAATGCCATGTTCCAGA
65223515 CATGGTCTTACACTGG-TACACATATC-AATGCCGATGCCATGTCCCAAACATGGTCTTACACTG
66 CATGGTCTTACACTGGCT-CACATATCGAATGCCGATGCCATGTCCCAAACATGGTCTTACACTG
65223578 GCACATATATCAATGC
130 GCACATATATCAATGC
* * * *
65223594 CGATGTCATGTCCCAGACATGATCTTACACTGGCACACATATCAACACCGATGCCATGTTCCAGA
1 CGATGCCATGTCCCAGACATGATATTACACTAGCACACATATCAACACCAATGCCATGTTCCAGA
* * * ** *
65223659 CATGGTCTTACACTGGCTCTCATCTCGGATGTTGATGCCATGTCCCAGACATGGTCTTACA
66 CATGGTCTTACACTGGCTCACATATCGAATGCCGATGCCATGTCCCAAACATGGTCTTACA
65223720 TGGGATCTCA
Statistics
Matches: 109, Mismatches: 15, Indels: 3
0.86 0.12 0.02
Matches are distributed among these distances:
144 78 0.72
145 31 0.28
ACGTcount: A:0.27, C:0.29, G:0.18, T:0.27
Consensus pattern (145 bp):
CGATGCCATGTCCCAGACATGATATTACACTAGCACACATATCAACACCAATGCCATGTTCCAGA
CATGGTCTTACACTGGCTCACATATCGAATGCCGATGCCATGTCCCAAACATGGTCTTACACTGG
CACATATATCAATGC
Found at i:65227584 original size:92 final size:96
Alignment explanation
Indices: 65227369--65227594 Score: 257
Period size: 97 Copynumber: 2.4 Consensus size: 96
65227359 CACAGGGTAT
* * * * *
65227369 AATGCCGATGCCATGTCCCAAACATGGTCTTACACTGGCTCATCTATTAAGTCGATGCCATGTCC
1 AATGCCGATGCCATATCCCAGACATGGTCTTACACTGACACATCTATTAAGTCGATGACATGTCC
*
65227434 CATACATGGTCTTACACTAACTCTCACATATC
66 CAGACATGGTCTTACACTAACTCT-ACATATC
** * * *
65227466 CGTGCCAAAGCCATATCCCAGACATGGTCTTACATTGACACATCT-TGT-AG-CAGAT-ACATGT
1 AATGCCGATGCCATATCCCAGACATGGTCTTACACTGACACATCTAT-TAAGTC-GATGACATGT
* *
65227527 CCCAGACAT-GTCTTACACTAGCTCT-CATCTC
64 CCCAGACATGGTCTTACACTAACTCTACATATC
*
65227558 AATGCGGATGCCATATCCCAGACATGGTCTTACACTG
1 AATGCCGATGCCATATCCCAGACATGGTCTTACACTG
65227595 GCTCTCATAA
Statistics
Matches: 108, Mismatches: 19, Indels: 9
0.79 0.14 0.07
Matches are distributed among these distances:
92 36 0.33
94 15 0.14
95 14 0.13
96 6 0.06
97 37 0.34
ACGTcount: A:0.27, C:0.30, G:0.16, T:0.27
Consensus pattern (96 bp):
AATGCCGATGCCATATCCCAGACATGGTCTTACACTGACACATCTATTAAGTCGATGACATGTCC
CAGACATGGTCTTACACTAACTCTACATATC
Found at i:65227623 original size:94 final size:93
Alignment explanation
Indices: 65227369--65227642 Score: 274
Period size: 94 Copynumber: 2.9 Consensus size: 93
65227359 CACAGGGTAT
* *
65227369 AATGCCGATGCCATGTCCCAAACATGGTCTTACACTGGCTCATCTATTAA-GT-CGATGCCATGT
1 AATGCCGATGCCATATCCCAGACATGGTCTTACACTGGCTCATC-A-TAATGTGCGATG-CATGT
*
65227432 CCCATACATGGTCTTACACTAACTCTCACATATC
63 CCCA-ACAT-GTCTTACACTAGCTCT-ACATATC
** * * * * * *
65227466 CGTGCCAAAGCCATATCCCAGACATGGTCTTACATTGACACATC-T--TGTAGCAGATACATGTC
1 AATGCCGATGCCATATCCCAGACATGGTCTTACACTGGCTCATCATAATGT-GC-GATGCATGTC
*
65227528 CCAGACATGTCTTACACTAGCTCT-CATCTC
64 CCA-ACATGTCTTACACTAGCTCTACATATC
*
65227558 AATGCGGATGCCATATCCCAGACATGGTCTTACACTGGCTC-TCATAATGTGGCTGATGCATGTC
1 AATGCCGATGCCATATCCCAGACATGGTCTTACACTGGCTCATCATAATGT-GC-GATGCATGTC
65227622 CCTAACATGTCTTACACTAGC
64 CC-AACATGTCTTACACTAGC
65227643 ACACAATTAA
Statistics
Matches: 145, Mismatches: 24, Indels: 19
0.77 0.13 0.10
Matches are distributed among these distances:
91 2 0.01
92 39 0.27
93 2 0.01
94 49 0.34
95 15 0.10
96 3 0.02
97 35 0.24
ACGTcount: A:0.26, C:0.29, G:0.16, T:0.28
Consensus pattern (93 bp):
AATGCCGATGCCATATCCCAGACATGGTCTTACACTGGCTCATCATAATGTGCGATGCATGTCCC
AACATGTCTTACACTAGCTCTACATATC
Found at i:65230205 original size:8 final size:8
Alignment explanation
Indices: 65230192--65230216 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
65230182 TTATCAGCTC
65230192 TTATTATT
1 TTATTATT
65230200 TTATTATT
1 TTATTATT
65230208 TTATTATT
1 TTATTATT
65230216 T
1 T
65230217 CAAAATTTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (8 bp):
TTATTATT
Found at i:65230870 original size:13 final size:14
Alignment explanation
Indices: 65230854--65230886 Score: 59
Period size: 14 Copynumber: 2.4 Consensus size: 14
65230844 ATATGATTTT
65230854 TATTTTA-AAAATC
1 TATTTTATAAAATC
65230867 TATTTTATAAAATC
1 TATTTTATAAAATC
65230881 TATTTT
1 TATTTT
65230887 TTTTAAAAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
13 7 0.37
14 12 0.63
ACGTcount: A:0.39, C:0.06, G:0.00, T:0.55
Consensus pattern (14 bp):
TATTTTATAAAATC
Found at i:65230975 original size:16 final size:17
Alignment explanation
Indices: 65230954--65230985 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
65230944 TCTACATAGA
65230954 TTTTTAATTTT-AATAT
1 TTTTTAATTTTGAATAT
65230970 TTTTTAATTTTGAATA
1 TTTTTAATTTTGAATA
65230986 AAACATTTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 11 0.73
17 4 0.27
ACGTcount: A:0.31, C:0.00, G:0.03, T:0.66
Consensus pattern (17 bp):
TTTTTAATTTTGAATAT
Found at i:65239971 original size:15 final size:15
Alignment explanation
Indices: 65239951--65239988 Score: 76
Period size: 15 Copynumber: 2.5 Consensus size: 15
65239941 CTCCATCACC
65239951 TCATATCATTTTATA
1 TCATATCATTTTATA
65239966 TCATATCATTTTATA
1 TCATATCATTTTATA
65239981 TCATATCA
1 TCATATCA
65239989 GAAGCAGATG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 23 1.00
ACGTcount: A:0.34, C:0.16, G:0.00, T:0.50
Consensus pattern (15 bp):
TCATATCATTTTATA
Found at i:65243231 original size:19 final size:19
Alignment explanation
Indices: 65243207--65243243 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
65243197 TAATTAGGCT
*
65243207 TTAATTAAGTGAAATTAGC
1 TTAATTAAGAGAAATTAGC
65243226 TTAATTAAGAGAAATTAG
1 TTAATTAAGAGAAATTAG
65243244 GAAAAAGGGC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.46, C:0.03, G:0.16, T:0.35
Consensus pattern (19 bp):
TTAATTAAGAGAAATTAGC
Found at i:65243579 original size:7 final size:7
Alignment explanation
Indices: 65243567--65243591 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
65243557 AGTAAATATA
65243567 TATTTAT
1 TATTTAT
65243574 TATTTAT
1 TATTTAT
65243581 TATTTAT
1 TATTTAT
65243588 TATT
1 TATT
65243592 ACTAAGTAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (7 bp):
TATTTAT
Found at i:65243917 original size:14 final size:15
Alignment explanation
Indices: 65243900--65243928 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
65243890 GAAATGAAAT
65243900 AAAGAAAGAA-AGCA
1 AAAGAAAGAATAGCA
65243914 AAAGAAAGAATAGCA
1 AAAGAAAGAATAGCA
65243929 GAAGCCATTC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 10 0.71
15 4 0.29
ACGTcount: A:0.69, C:0.07, G:0.21, T:0.03
Consensus pattern (15 bp):
AAAGAAAGAATAGCA
Found at i:65244811 original size:13 final size:14
Alignment explanation
Indices: 65244790--65244829 Score: 55
Period size: 13 Copynumber: 2.9 Consensus size: 14
65244780 ATTCGATTGG
65244790 AAAATGAATTAAA-
1 AAAATGAATTAAAT
*
65244803 AATATGAATTAAAT
1 AAAATGAATTAAAT
65244817 AAAAGTGAATTAA
1 AAAA-TGAATTAA
65244830 TTTATGAATA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
13 12 0.52
14 3 0.13
15 8 0.35
ACGTcount: A:0.62, C:0.00, G:0.10, T:0.28
Consensus pattern (14 bp):
AAAATGAATTAAAT
Found at i:65246467 original size:26 final size:26
Alignment explanation
Indices: 65246438--65246541 Score: 163
Period size: 26 Copynumber: 4.0 Consensus size: 26
65246428 TGGTACAAAT
*
65246438 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATATTCCA
*
65246464 TGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATATTCCA
65246490 TGATAATGGGTTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATATTCCA
* * *
65246516 TGATAATGGTTTACGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATATTCCA
65246542 AGATGGGAAT
Statistics
Matches: 72, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 72 1.00
ACGTcount: A:0.34, C:0.09, G:0.22, T:0.36
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATATTCCA
Found at i:65254009 original size:43 final size:43
Alignment explanation
Indices: 65253943--65254213 Score: 371
Period size: 43 Copynumber: 6.3 Consensus size: 43
65253933 CATAGGATTT
* * *
65253943 TCGAAATGTGATTACATGTAAGACCACATCTGGGACGTTGGCA
1 TCGATATGTGATTACGTGTAAGACCACGTCTGGGACGTTGGCA
*
65253986 TCGATATGTGATTATGTGTAAGACCACGTCTGGGACGTTGGCA
1 TCGATATGTGATTACGTGTAAGACCACGTCTGGGACGTTGGCA
65254029 TCGATATGTGATTACGTGTAAGACCACGTCTGGGACGTTGGCA
1 TCGATATGTGATTACGTGTAAGACCACGTCTGGGACGTTGGCA
*
65254072 TCGATATGTGATTACGTGTAAGACCACATCTGGGACGTTGGCA
1 TCGATATGTGATTACGTGTAAGACCACGTCTGGGACGTTGGCA
* * * * *
65254115 TCGATATGTGATTATGTGTAAGATCGCGTCTGGAATGTTGGCA
1 TCGATATGTGATTACGTGTAAGACCACGTCTGGGACGTTGGCA
* * * * * ***
65254158 TCGATATGCGATTACGAGTAATACCATGTTTAATACGTTGGCA
1 TCGATATGTGATTACGTGTAAGACCACGTCTGGGACGTTGGCA
*
65254201 TCAATATGTGATT
1 TCGATATGTGATT
65254214 TCGATATGTG
Statistics
Matches: 202, Mismatches: 26, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
43 202 1.00
ACGTcount: A:0.26, C:0.16, G:0.27, T:0.31
Consensus pattern (43 bp):
TCGATATGTGATTACGTGTAAGACCACGTCTGGGACGTTGGCA
Found at i:65254245 original size:56 final size:56
Alignment explanation
Indices: 65254172--65254322 Score: 232
Period size: 56 Copynumber: 2.7 Consensus size: 56
65254162 TATGCGATTA
* * *
65254172 CGAGTAATACCATGTTTAATACGTTGGCATCAATATGTGATT-TCGATATGTGTGTG
1 CGAGTAAGACCACGTTTAATACGTTGGCATCGATATGTGATTCT-GATATGTGTGTG
*
65254228 CGAGTAAGACCACGTTTAATACGTTGGCATCGATAGGTGATTCTGATATGTGTGTG
1 CGAGTAAGACCACGTTTAATACGTTGGCATCGATATGTGATTCTGATATGTGTGTG
* *
65254284 CAAGTAAGACCACGTTTAATACGTTGGCATTGATATGTG
1 CGAGTAAGACCACGTTTAATACGTTGGCATCGATATGTG
65254323 TGTGTGAGTA
Statistics
Matches: 87, Mismatches: 7, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
56 86 0.99
57 1 0.01
ACGTcount: A:0.27, C:0.14, G:0.25, T:0.34
Consensus pattern (56 bp):
CGAGTAAGACCACGTTTAATACGTTGGCATCGATATGTGATTCTGATATGTGTGTG
Found at i:65254319 original size:43 final size:43
Alignment explanation
Indices: 65254271--65254361 Score: 128
Period size: 43 Copynumber: 2.1 Consensus size: 43
65254261 TAGGTGATTC
*
65254271 TGATATGTGTGTGCAAGTAAGACCACGTTTAATACGTTGGCAT
1 TGATATGTGTGTGCAAGTAAGACCACGCTTAATACGTTGGCAT
** * *
65254314 TGATATGTGTGTGTGAGTAAGACCATGCTTAATATGTTGGCAT
1 TGATATGTGTGTGCAAGTAAGACCACGCTTAATACGTTGGCAT
*
65254357 CGATA
1 TGATA
65254362 GGTGATTCTG
Statistics
Matches: 42, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
43 42 1.00
ACGTcount: A:0.27, C:0.12, G:0.26, T:0.34
Consensus pattern (43 bp):
TGATATGTGTGTGCAAGTAAGACCACGCTTAATACGTTGGCAT
Found at i:65254418 original size:99 final size:99
Alignment explanation
Indices: 65254214--65254420 Score: 245
Period size: 99 Copynumber: 2.1 Consensus size: 99
65254204 ATATGTGATT
*
65254214 TCGATATGTGTGTGCGAGTAAGACCACGTTTAATACGTTGGCATCGATAGGTGATTCTGATATGT
1 TCGATATGTGTGTGCGAGTAAGACCACGCTTAATACGTTGGCATCGATAGGTGATTCTGATATGT
* * * * * * *
65254279 GTGTGCAAGTAAGACCACGTTTAATACGTTGGCA
66 GTGTACAAGAAAAACCACGTCTAAGACCTTGACA
* * * *
65254313 TTGATATGTGTGTGTGAGTAAGACCATGCTTAATATGTTGGCATCGATAGGTGATTCTGATATGT
1 TCGATATGTGTGTGCGAGTAAGACCACGCTTAATACGTTGGCATCGATAGGTGATTCTGATATGT
* * * **
65254378 TTTTACGAGAAAAACC-CTGTCTGGGACCTTGACA
66 GTGTACAAGAAAAACCAC-GTCTAAGACCTTGACA
65254412 TCGATATGT
1 TCGATATGT
65254421 AATTACATGT
Statistics
Matches: 89, Mismatches: 18, Indels: 2
0.82 0.17 0.02
Matches are distributed among these distances:
98 1 0.01
99 88 0.99
ACGTcount: A:0.26, C:0.14, G:0.26, T:0.33
Consensus pattern (99 bp):
TCGATATGTGTGTGCGAGTAAGACCACGCTTAATACGTTGGCATCGATAGGTGATTCTGATATGT
GTGTACAAGAAAAACCACGTCTAAGACCTTGACA
Found at i:65256528 original size:31 final size:31
Alignment explanation
Indices: 65256485--65256630 Score: 249
Period size: 31 Copynumber: 4.7 Consensus size: 31
65256475 TTAGTCTTGG
65256485 CATAT-ACTGGGCCGAAGCCTTTTCATAAAT
1 CATATCACTGGGCCGAAGCCTTTTCATAAAT
*
65256515 CATATCACTGGGCCGAAGCCTTATCATAAAT
1 CATATCACTGGGCCGAAGCCTTTTCATAAAT
*
65256546 CATATCACTGGGCCGAAGCCTTATCATAAAT
1 CATATCACTGGGCCGAAGCCTTTTCATAAAT
65256577 CATATCACTGGGCCGAAGCCTTTTCATAAAT
1 CATATCACTGGGCCGAAGCCTTTTCATAAAT
* *
65256608 CATATCATTGGGCTGAAGCCTTT
1 CATATCACTGGGCCGAAGCCTTT
65256631 ACTGTAAACG
Statistics
Matches: 111, Mismatches: 4, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
30 5 0.05
31 106 0.95
ACGTcount: A:0.29, C:0.25, G:0.17, T:0.29
Consensus pattern (31 bp):
CATATCACTGGGCCGAAGCCTTTTCATAAAT
Found at i:65256908 original size:25 final size:25
Alignment explanation
Indices: 65256849--65256942 Score: 136
Period size: 25 Copynumber: 3.8 Consensus size: 25
65256839 CTCTTTTAAT
* * *
65256849 AACTAGGGCAAAACCCTTTT-GATA
1 AACTGGGGCAAAGCCCTTTTCGGTA
*
65256873 AGCTGGGGCAAAGCCCTTTTCGGTA
1 AACTGGGGCAAAGCCCTTTTCGGTA
65256898 AACTGGGGCAAAGCCCTTTTCGGTA
1 AACTGGGGCAAAGCCCTTTTCGGTA
*
65256923 AACTGGGGCATAGCCCTTTT
1 AACTGGGGCAAAGCCCTTTT
65256943 AGCACTTCCT
Statistics
Matches: 63, Mismatches: 6, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
24 17 0.27
25 46 0.73
ACGTcount: A:0.26, C:0.23, G:0.26, T:0.26
Consensus pattern (25 bp):
AACTGGGGCAAAGCCCTTTTCGGTA
Found at i:65257813 original size:27 final size:27
Alignment explanation
Indices: 65257751--65257852 Score: 84
Period size: 27 Copynumber: 3.8 Consensus size: 27
65257741 GGGCATATTC
*
65257751 GTCATTTTACCATACAGGGGTATTATG
1 GTCATTTTACCATACAGGGGTATTATA
* *
65257778 GTCACTTTACCCTACAGGGGCT-TTATA
1 GTCATTTTACCATACAGGGG-TATTATA
* *
65257805 GTCTTTTTACCTAATA-A-GGGTATTTTA
1 GTCATTTTACC--ATACAGGGGTATTATA
* * *
65257832 GTCATTTCACCCTACAAGGGT
1 GTCATTTTACCATACAGGGGT
65257853 GTTTTGGTAA
Statistics
Matches: 59, Mismatches: 10, Indels: 12
0.73 0.12 0.15
Matches are distributed among these distances:
25 2 0.03
26 2 0.03
27 51 0.86
28 2 0.03
29 2 0.03
ACGTcount: A:0.25, C:0.20, G:0.19, T:0.37
Consensus pattern (27 bp):
GTCATTTTACCATACAGGGGTATTATA
Found at i:65257889 original size:27 final size:27
Alignment explanation
Indices: 65257859--65257911 Score: 70
Period size: 27 Copynumber: 2.0 Consensus size: 27
65257849 GGGTGTTTTG
65257859 GTAAATCTACAAACCAAGGGTATTTCA
1 GTAAATCTACAAACCAAGGGTATTTCA
* * * *
65257886 GTAATTTTATAAACCAATGGTATTTC
1 GTAAATCTACAAACCAAGGGTATTTC
65257912 TATAATTTTT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 22 1.00
ACGTcount: A:0.38, C:0.15, G:0.13, T:0.34
Consensus pattern (27 bp):
GTAAATCTACAAACCAAGGGTATTTCA
Found at i:65257917 original size:27 final size:27
Alignment explanation
Indices: 65257869--65258162 Score: 113
Period size: 27 Copynumber: 10.9 Consensus size: 27
65257859 GTAAATCTAC
65257869 AAACCAAGGGTATTTC-AGTAATTTTAT
1 AAACCAAGGGTATTTCTA-TAATTTTAT
* *
65257896 AAACCAATGGTATTTCTATAATTTTTAG
1 AAACCAAGGGTATTTCTATAA-TTTTAT
* *
65257924 AAAGTCAAGGGTATTTCTATAATTTTGT
1 AAA-CCAAGGGTATTTCTATAATTTTAT
** * * *
65257952 AAATTAGGGGTATTT-TGGTAATTTTAC
1 AAACCAAGGGTATTTCT-ATAATTTTAT
*** ** * *
65257979 AAATTGAGGGTATTTCGGTAATTTCAC
1 AAACCAAGGGTATTTCTATAATTTTAT
* * *
65258006 AAA-CTAGTGGTATTT-TGGTAATTTTAC
1 AAACCAAG-GGTATTTCT-ATAATTTTAT
* * * *
65258033 AAACTAGGGGTATTT-TGGTAATTTTAC
1 AAACCAAGGGTATTTCT-ATAATTTTAT
* *
65258060 AAACCAGGGGTATTT-TAGTAATTTTAC
1 AAACCAAGGGTATTTCTA-TAATTTTAT
* * *
65258087 AGA-CTAGGGTATTT-TGGTAATTTTACT
1 AAACCAAGGGTATTTCT-ATAATTTTA-T
* *
65258114 -AATCAAGGGTATTT-TGATAATTTTAC
1 AAACCAAGGGTATTTCT-ATAATTTTAT
** * *
65258140 AAGTCGAGGGTATTTCAATAATT
1 AAACCAAGGGTATTTCTATAATT
65258163 GGTAAACTGA
Statistics
Matches: 217, Mismatches: 36, Indels: 28
0.77 0.13 0.10
Matches are distributed among these distances:
26 22 0.10
27 162 0.75
28 17 0.08
29 16 0.07
ACGTcount: A:0.32, C:0.09, G:0.19, T:0.41
Consensus pattern (27 bp):
AAACCAAGGGTATTTCTATAATTTTAT
Found at i:65257939 original size:29 final size:28
Alignment explanation
Indices: 65257869--65257949 Score: 103
Period size: 29 Copynumber: 2.9 Consensus size: 28
65257859 GTAAATCTAC
*
65257869 AAACCAAGGGTATTTC-AGTAA-TTTTAT
1 AAACCAAGGGTATTTCTA-TAATTTTTAG
*
65257896 AAACCAATGGTATTTCTATAATTTTTAG
1 AAACCAAGGGTATTTCTATAATTTTTAG
*
65257924 AAAGTCAAGGGTATTTCTATAATTTT
1 AAA-CCAAGGGTATTTCTATAATTTT
65257950 GTAAATTAGG
Statistics
Matches: 47, Mismatches: 4, Indels: 4
0.85 0.07 0.07
Matches are distributed among these distances:
27 18 0.38
28 9 0.19
29 20 0.43
ACGTcount: A:0.36, C:0.10, G:0.14, T:0.41
Consensus pattern (28 bp):
AAACCAAGGGTATTTCTATAATTTTTAG
Found at i:65258018 original size:54 final size:52
Alignment explanation
Indices: 65257845--65258155 Score: 246
Period size: 54 Copynumber: 5.8 Consensus size: 52
65257835 ATTTCACCCT
* * * * * *
65257845 ACAAGGGTGTTTTGGTAAATCTACAAACCAAGGGTATTTCAGTAATTTTATAA
1 ACAAGGGTATTTTGGTAATTTTACAAA-CTAGGGTATTTCGGTAATTTTACAA
* * * * ** **
65257898 ACCAATGGTATTTCT-ATAATTTTTAGAAAGTCAAGGGTATTTCTATAATTTTGTAA
1 A-CAAGGGTATTT-TGGTAA-TTTTACAAA--CTAGGGTATTTCGGTAATTTTACAA
* * * *
65257954 ATTAGGGGTATTTTGGTAATTTTACAAATTGAGGGTATTTCGGTAATTTCACAA
1 A-CAAGGGTATTTTGGTAATTTTACAAACT-AGGGTATTTCGGTAATTTTACAA
* *
65258008 ACTAGTGGTATTTTGGTAATTTTACAAACTAGGGGTATTTTGGTAATTTTACAA
1 ACAAG-GGTATTTTGGTAATTTTACAAACTA-GGGTATTTCGGTAATTTTACAA
* * * *
65258062 ACCAGGGGTATTTTAGTAATTTTACAGACTAGGGTATTTTGGTAATTTTACTAA
1 A-CAAGGGTATTTTGGTAATTTTACAAACTAGGGTATTTCGGTAATTTTAC-AA
* * * *
65258116 TCAAGGGTATTTTGATAATTTTACAAGTCGAGGGTATTTC
1 ACAAGGGTATTTTGGTAATTTTACAA-ACTAGGGTATTTC
65258156 AATAATTGGT
Statistics
Matches: 206, Mismatches: 41, Indels: 21
0.77 0.15 0.08
Matches are distributed among these distances:
53 44 0.21
54 110 0.53
55 18 0.09
56 34 0.17
ACGTcount: A:0.31, C:0.09, G:0.20, T:0.40
Consensus pattern (52 bp):
ACAAGGGTATTTTGGTAATTTTACAAACTAGGGTATTTCGGTAATTTTACAA
Found at i:65258049 original size:81 final size:79
Alignment explanation
Indices: 65257956--65258162 Score: 272
Period size: 80 Copynumber: 2.6 Consensus size: 79
65257946 TTTTGTAAAT
* *
65257956 TAGGGGTATTTTGGTAATTTTACAAATTGAGGGTATTTCGGTAATTTCACAAACTAGTGGTATTT
1 TAGGGGTATTTTGGTAATTTTACAAATCGAGGGTATTTCAGTAATTTCACAAACTAG-GGTATTT
65258021 TGGTAATTTTACAAA
65 TGGTAATTTTACAAA
* * * *
65258036 CTAGGGGTATTTTGGTAATTTTACAAA-CCAGGGGTATTTTAGTAATTTTACAGACTAGGGTATT
1 -TAGGGGTATTTTGGTAATTTTACAAATCGA-GGGTATTTCAGTAATTTCACAAACTAGGGTATT
*
65258100 TTGGTAATTTTACTAA
64 TTGGTAATTTTACAAA
* * * *
65258116 TCAAGGGTATTTTGATAATTTTACAAGTCGAGGGTATTTCAATAATT
1 T-AGGGGTATTTTGGTAATTTTACAAATCGAGGGTATTTCAGTAATT
65258163 GGTAAACTGA
Statistics
Matches: 110, Mismatches: 13, Indels: 7
0.85 0.10 0.05
Matches are distributed among these distances:
79 1 0.01
80 58 0.53
81 51 0.46
ACGTcount: A:0.30, C:0.08, G:0.21, T:0.41
Consensus pattern (79 bp):
TAGGGGTATTTTGGTAATTTTACAAATCGAGGGTATTTCAGTAATTTCACAAACTAGGGTATTTT
GGTAATTTTACAAA
Found at i:65264112 original size:7 final size:7
Alignment explanation
Indices: 65264100--65264130 Score: 62
Period size: 7 Copynumber: 4.4 Consensus size: 7
65264090 CGTGCATTTG
65264100 CTCTGAC
1 CTCTGAC
65264107 CTCTGAC
1 CTCTGAC
65264114 CTCTGAC
1 CTCTGAC
65264121 CTCTGAC
1 CTCTGAC
65264128 CTC
1 CTC
65264131 ATAGTAGAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 24 1.00
ACGTcount: A:0.13, C:0.45, G:0.13, T:0.29
Consensus pattern (7 bp):
CTCTGAC
Found at i:65287698 original size:48 final size:48
Alignment explanation
Indices: 65287642--65287737 Score: 174
Period size: 48 Copynumber: 2.0 Consensus size: 48
65287632 CTTGGAGGAG
* *
65287642 TTAGTTTGTTAAAGAAGTTGTTAAGTTGTTGAGTCAGTTATTGAAGCT
1 TTAGTTTGTTAAAGAAGTTGTTAAGCTGTTGAGTCAATTATTGAAGCT
65287690 TTAGTTTGTTAAAGAAGTTGTTAAGCTGTTGAGTCAATTATTGAAGCT
1 TTAGTTTGTTAAAGAAGTTGTTAAGCTGTTGAGTCAATTATTGAAGCT
65287738 CTTTGCTTAG
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
48 46 1.00
ACGTcount: A:0.28, C:0.05, G:0.24, T:0.43
Consensus pattern (48 bp):
TTAGTTTGTTAAAGAAGTTGTTAAGCTGTTGAGTCAATTATTGAAGCT
Found at i:65288859 original size:26 final size:26
Alignment explanation
Indices: 65288823--65288875 Score: 106
Period size: 26 Copynumber: 2.0 Consensus size: 26
65288813 CAATGCTAAG
65288823 TTCTCCTTGAAAGATCTTGGTTGTCT
1 TTCTCCTTGAAAGATCTTGGTTGTCT
65288849 TTCTCCTTGAAAGATCTTGGTTGTCT
1 TTCTCCTTGAAAGATCTTGGTTGTCT
65288875 T
1 T
65288876 GCATACTTTC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.15, C:0.19, G:0.19, T:0.47
Consensus pattern (26 bp):
TTCTCCTTGAAAGATCTTGGTTGTCT
Found at i:65291730 original size:68 final size:68
Alignment explanation
Indices: 65291655--65291788 Score: 187
Period size: 68 Copynumber: 2.0 Consensus size: 68
65291645 TAGACATGGG
* * * ** *
65291655 GTTGTATTATGTAAGACCACAGCTTGGTTATGGTAGCATATGGAGTCCGCTGGGACAGTAAACAC
1 GTTGTATTATGTAAAACCACAGCTTAGCTATGGTAGCATATAAAGTCCACTGGGACAGTAAACAC
65291720 GGA
66 GGA
* * *
65291723 GTTGTATTGTGTAAAACCATATCTTAGCTATGGTAGCATATAAAGTCCACTGGGACAGTAAACAC
1 GTTGTATTATGTAAAACCACAGCTTAGCTATGGTAGCATATAAAGTCCACTGGGACAGTAAACAC
65291788 G
66 G
65291789 AGGTAGTCTA
Statistics
Matches: 57, Mismatches: 9, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
68 57 1.00
ACGTcount: A:0.31, C:0.16, G:0.25, T:0.28
Consensus pattern (68 bp):
GTTGTATTATGTAAAACCACAGCTTAGCTATGGTAGCATATAAAGTCCACTGGGACAGTAAACAC
GGA
Found at i:65309788 original size:30 final size:30
Alignment explanation
Indices: 65309732--65309788 Score: 71
Period size: 30 Copynumber: 1.9 Consensus size: 30
65309722 ATGCAGGGAG
*
65309732 TAAAACAGTCACTTAATTTTTAAAAAATAA
1 TAAAACAGTCACTTAATTTATAAAAAATAA
* *
65309762 TAAATCAGTCAC-TAATGTTATCAAAAA
1 TAAAACAGTCACTTAAT-TTATAAAAAA
65309789 GTGACAAATC
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
29 4 0.17
30 19 0.83
ACGTcount: A:0.51, C:0.12, G:0.05, T:0.32
Consensus pattern (30 bp):
TAAAACAGTCACTTAATTTATAAAAAATAA
Found at i:65311314 original size:3 final size:3
Alignment explanation
Indices: 65311306--65311384 Score: 76
Period size: 3 Copynumber: 27.3 Consensus size: 3
65311296 GAATTTTTTC
* * *
65311306 TCT TCT TCT TC- TCC TCC TCT TCT TCT TCT TAT T-T TCT T-T TCAT
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TC-T
* *
65311349 TCT TCT TCT TTT TCT TCT TCT TC- TCT ACT TCT TCT T
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT T
65311385 TTTATTTTAC
Statistics
Matches: 65, Mismatches: 6, Indels: 10
0.80 0.07 0.12
Matches are distributed among these distances:
2 8 0.12
3 54 0.83
4 3 0.05
ACGTcount: A:0.04, C:0.32, G:0.00, T:0.65
Consensus pattern (3 bp):
TCT
Found at i:65311351 original size:20 final size:19
Alignment explanation
Indices: 65311325--65311386 Score: 63
Period size: 20 Copynumber: 3.1 Consensus size: 19
65311315 TCTCCTCCTC
65311325 TTCTTCTTCTTATTTTCTT
1 TTCTTCTTCTTATTTTCTT
* *
65311344 TTCATTCTTCTTCTTTT-TC
1 TTC-TTCTTCTTATTTTCTT
65311363 TTCTTCTTCTCTACTTCTTCTT
1 TTCTTCTTCT-TA-TT-TTCTT
65311385 TT
1 TT
65311387 TATTTTACTG
Statistics
Matches: 34, Mismatches: 4, Indels: 7
0.76 0.09 0.16
Matches are distributed among these distances:
18 7 0.21
19 8 0.24
20 14 0.41
21 2 0.06
22 3 0.09
ACGTcount: A:0.05, C:0.26, G:0.00, T:0.69
Consensus pattern (19 bp):
TTCTTCTTCTTATTTTCTT
Found at i:65311351 original size:23 final size:24
Alignment explanation
Indices: 65311323--65311384 Score: 74
Period size: 23 Copynumber: 2.5 Consensus size: 24
65311313 CTTCTCCTCC
65311323 TCTTCTTCTTCTTATT-TTCTT-T
1 TCTTCTTCTTCTTATTCTTCTTCT
*
65311345 TCATTCTTCTTCTTTTTCTTCTTCT
1 TC-TTCTTCTTCTTATTCTTCTTCT
65311370 TCTCTACTTCTTCTT
1 TCT-T-CTTCTTCTT
65311385 TTTATTTTAC
Statistics
Matches: 34, Mismatches: 1, Indels: 6
0.83 0.02 0.15
Matches are distributed among these distances:
22 2 0.06
23 13 0.38
24 6 0.18
25 4 0.12
26 9 0.26
ACGTcount: A:0.05, C:0.27, G:0.00, T:0.68
Consensus pattern (24 bp):
TCTTCTTCTTCTTATTCTTCTTCT
Found at i:65311352 original size:26 final size:25
Alignment explanation
Indices: 65311314--65311392 Score: 86
Period size: 26 Copynumber: 3.1 Consensus size: 25
65311304 TCTCTTCTTC
* * *
65311314 TTCTCCTCCTCTTCTTCTTCTTATT
1 TTCTTCTCTTCTTCTTCTTTTTATT
* *
65311339 TTCTTTTCATTCTTCTTCTTTTTCTT
1 TTCTTCTC-TTCTTCTTCTTTTTATT
*
65311365 CTTCTTCTCTACTTCTTCTTTTTATT
1 -TTCTTCTCTTCTTCTTCTTTTTATT
65311391 TT
1 TT
65311393 ACTGCCCAAC
Statistics
Matches: 44, Mismatches: 8, Indels: 4
0.79 0.14 0.07
Matches are distributed among these distances:
25 8 0.18
26 29 0.66
27 7 0.16
ACGTcount: A:0.05, C:0.28, G:0.00, T:0.67
Consensus pattern (25 bp):
TTCTTCTCTTCTTCTTCTTTTTATT
Found at i:65311359 original size:15 final size:14
Alignment explanation
Indices: 65311301--65311384 Score: 73
Period size: 14 Copynumber: 5.9 Consensus size: 14
65311291 CTCTAGAATT
65311301 TTTTC-TCTTCTTC
1 TTTTCTTCTTCTTC
* * *
65311314 TTCTCCTCCTCTTC
1 TTTTCTTCTTCTTC
*
65311328 TTCTTCTTATT-TTC
1 TT-TTCTTCTTCTTC
65311342 TTTTCATTCTTCTTC
1 TTTTC-TTCTTCTTC
65311357 TTTTTCTTCTTCTTC
1 -TTTTCTTCTTCTTC
* *
65311372 TCTACTTCTTCTT
1 TTTTCTTCTTCTT
65311385 TTTATTTTAC
Statistics
Matches: 57, Mismatches: 9, Indels: 9
0.76 0.12 0.12
Matches are distributed among these distances:
13 7 0.12
14 29 0.51
15 16 0.28
16 5 0.09
ACGTcount: A:0.04, C:0.31, G:0.00, T:0.65
Consensus pattern (14 bp):
TTTTCTTCTTCTTC
Found at i:65313836 original size:30 final size:30
Alignment explanation
Indices: 65313800--65313859 Score: 111
Period size: 30 Copynumber: 2.0 Consensus size: 30
65313790 GAGGTAAAAG
65313800 TTTGTTCATCATTCTTATTCTTTCCAATTC
1 TTTGTTCATCATTCTTATTCTTTCCAATTC
*
65313830 TTTGTTCATCATTTTTATTCTTTCCAATTC
1 TTTGTTCATCATTCTTATTCTTTCCAATTC
65313860 ACTCAAGTAT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.17, C:0.22, G:0.03, T:0.58
Consensus pattern (30 bp):
TTTGTTCATCATTCTTATTCTTTCCAATTC
Found at i:65315044 original size:9 final size:9
Alignment explanation
Indices: 65315030--65315071 Score: 50
Period size: 9 Copynumber: 4.6 Consensus size: 9
65315020 CATGCAAATT
65315030 AGAAAAGAA
1 AGAAAAGAA
65315039 AGAAAAAGAA
1 AG-AAAAGAA
65315049 A-ACAAAGAA
1 AGA-AAAGAA
*
65315058 AGAAAAGAG
1 AGAAAAGAA
65315067 AGAAA
1 AGAAA
65315072 GGGGTTCACG
Statistics
Matches: 29, Mismatches: 1, Indels: 6
0.81 0.03 0.17
Matches are distributed among these distances:
8 1 0.03
9 19 0.66
10 9 0.31
ACGTcount: A:0.76, C:0.02, G:0.21, T:0.00
Consensus pattern (9 bp):
AGAAAAGAA
Found at i:65316222 original size:18 final size:18
Alignment explanation
Indices: 65316199--65316271 Score: 76
Period size: 18 Copynumber: 3.7 Consensus size: 18
65316189 TGAAATGGCC
65316199 AAGATGAGAAATGAATAT
1 AAGATGAGAAATGAATAT
65316217 AAGATGAGAAATATTGAAT-T
1 AAGATGAG-AA-A-TGAATAT
65316237 GGCAAAGATGAGAAATGAATAT
1 ----AAGATGAGAAATGAATAT
65316259 AAGATGAGAAATG
1 AAGATGAGAAATG
65316272 TGATATGAAA
Statistics
Matches: 47, Mismatches: 0, Indels: 16
0.75 0.00 0.25
Matches are distributed among these distances:
18 21 0.45
19 2 0.04
20 2 0.04
21 10 0.21
22 2 0.04
23 2 0.04
24 8 0.17
ACGTcount: A:0.52, C:0.01, G:0.25, T:0.22
Consensus pattern (18 bp):
AAGATGAGAAATGAATAT
Found at i:65316245 original size:42 final size:42
Alignment explanation
Indices: 65316185--65316270 Score: 154
Period size: 42 Copynumber: 2.0 Consensus size: 42
65316175 TATGTGATTG
*
65316185 ATATTGAAATGGCCAAGATGAGAAATGAATATAAGATGAGAA
1 ATATTGAAATGGCAAAGATGAGAAATGAATATAAGATGAGAA
*
65316227 ATATTGAATTGGCAAAGATGAGAAATGAATATAAGATGAGAA
1 ATATTGAAATGGCAAAGATGAGAAATGAATATAAGATGAGAA
65316269 AT
1 AT
65316271 GTGATATGAA
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
42 42 1.00
ACGTcount: A:0.50, C:0.03, G:0.23, T:0.23
Consensus pattern (42 bp):
ATATTGAAATGGCAAAGATGAGAAATGAATATAAGATGAGAA
Found at i:65316255 original size:21 final size:21
Alignment explanation
Indices: 65316189--65316256 Score: 54
Period size: 21 Copynumber: 3.2 Consensus size: 21
65316179 TGATTGATAT
* *
65316189 TGAAATGGCCAAGATGAGAAA
1 TGAATTGGCAAAGATGAGAAA
65316210 TGAA-T---ATAAGATGAGAAATA
1 TGAATTGGCA-AAGATGAG-AA-A
65316230 TTGAATTGGCAAAGATGAGAAA
1 -TGAATTGGCAAAGATGAGAAA
65316252 TGAAT
1 TGAAT
65316257 ATAAGATGAG
Statistics
Matches: 38, Mismatches: 1, Indels: 16
0.69 0.02 0.29
Matches are distributed among these distances:
18 8 0.21
19 2 0.05
20 2 0.05
21 13 0.34
22 2 0.05
23 2 0.05
24 8 0.21
25 1 0.03
ACGTcount: A:0.49, C:0.04, G:0.25, T:0.22
Consensus pattern (21 bp):
TGAATTGGCAAAGATGAGAAA
Found at i:65316291 original size:20 final size:19
Alignment explanation
Indices: 65316244--65316301 Score: 66
Period size: 20 Copynumber: 3.1 Consensus size: 19
65316234 ATTGGCAAAG
65316244 ATGAGAAATGA-ATAT-AA
1 ATGAGAAATGAGATATGAA
*
65316261 GATGAGAAATGTGATATGAA
1 -ATGAGAAATGAGATATGAA
*
65316281 ATGATGAAATGAGATGTGAA
1 ATGA-GAAATGAGATATGAA
65316301 A
1 A
65316302 CCTGAAATGA
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
18 10 0.29
19 8 0.24
20 16 0.47
ACGTcount: A:0.50, C:0.00, G:0.26, T:0.24
Consensus pattern (19 bp):
ATGAGAAATGAGATATGAA
Found at i:65316788 original size:20 final size:20
Alignment explanation
Indices: 65316769--65316862 Score: 71
Period size: 21 Copynumber: 4.5 Consensus size: 20
65316759 CTAACGGAAG
*
65316769 CCCATAGGGTTGAACAGAAG
1 CCCATAGGGTTGAACAGAAA
** * *
65316789 CTTATAGGAGCTGAACGGAAA
1 CCCATAGG-GTTGAACAGAAA
* *
65316810 CCCACAGGGTTGAACATAAA
1 CCCATAGGGTTGAACAGAAA
* *
65316830 CTCATATGAGTTGAACAGAAA
1 CCCATA-GGGTTGAACAGAAA
*
65316851 CTCATAAGGGTT
1 CCCAT-AGGGTT
65316863 AAACTAAAGC
Statistics
Matches: 55, Mismatches: 16, Indels: 5
0.72 0.21 0.07
Matches are distributed among these distances:
20 19 0.35
21 35 0.64
22 1 0.02
ACGTcount: A:0.37, C:0.18, G:0.24, T:0.20
Consensus pattern (20 bp):
CCCATAGGGTTGAACAGAAA
Found at i:65316845 original size:41 final size:41
Alignment explanation
Indices: 65316761--65316851 Score: 110
Period size: 41 Copynumber: 2.2 Consensus size: 41
65316751 CATAAGTGCT
* * * *
65316761 AACGGAAGCCCATAGGGTTGAACAGAAGCTTATAGGAGCTG
1 AACGGAAACCCACAGGGTTGAACAGAAACTCATAGGAGCTG
* * *
65316802 AACGGAAACCCACAGGGTTGAACATAAACTCATATGAGTTG
1 AACGGAAACCCACAGGGTTGAACAGAAACTCATAGGAGCTG
*
65316843 AACAGAAAC
1 AACGGAAAC
65316852 TCATAAGGGT
Statistics
Matches: 42, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
41 42 1.00
ACGTcount: A:0.40, C:0.19, G:0.25, T:0.16
Consensus pattern (41 bp):
AACGGAAACCCACAGGGTTGAACAGAAACTCATAGGAGCTG
Found at i:65316875 original size:21 final size:21
Alignment explanation
Indices: 65316851--65316915 Score: 51
Period size: 21 Copynumber: 3.1 Consensus size: 21
65316841 TGAACAGAAA
65316851 CTCATAAGGGTTAAACTAAAG
1 CTCATAAGGGTTAAACTAAAG
* ** * *
65316872 CTCAAAAAAGCTAAACGAGAA-
1 CTCATAAGGGTTAAACTA-AAG
* *
65316893 CCCATAAGGGTTAAACTGAAG
1 CTCATAAGGGTTAAACTAAAG
65316914 CT
1 CT
65316916 TAAAAGAGCT
Statistics
Matches: 29, Mismatches: 13, Indels: 4
0.63 0.28 0.09
Matches are distributed among these distances:
20 2 0.07
21 25 0.86
22 2 0.07
ACGTcount: A:0.45, C:0.18, G:0.18, T:0.18
Consensus pattern (21 bp):
CTCATAAGGGTTAAACTAAAG
Found at i:65317756 original size:17 final size:17
Alignment explanation
Indices: 65317734--65317768 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
65317724 CACTTGTAGA
65317734 AAAAAATATGAAAAACC
1 AAAAAATATGAAAAACC
65317751 AAAAAATATGAAAAACC
1 AAAAAATATGAAAAACC
65317768 A
1 A
65317769 GCTTATAGGA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.71, C:0.11, G:0.06, T:0.11
Consensus pattern (17 bp):
AAAAAATATGAAAAACC
Found at i:65319353 original size:118 final size:118
Alignment explanation
Indices: 65319201--65319490 Score: 438
Period size: 118 Copynumber: 2.5 Consensus size: 118
65319191 AGTGCTGGCC
* *
65319201 ATTAGTGTCCCAAAGT-AAAAAAAATTACATTGGGACCAAAAAAATGTACTTGGTGCCAACTATT
1 ATTAGTGTCCCAAAGTAAAAAAAAATTACATTGGGACCCAAAAAATGTACTTGGTGCCAACCATT
* * * * *
65319265 TACTGGCCAGCATTCAAAATTTTTTTTCTTACTTTGGGATAATGGTGTCGGCT
66 TACTGGCCAGCAATCAAAATTTTTTTTCTTACTTTGGGACAATAGTATCGACT
* * *
65319318 ATTAGTGTCCCAAGGTAAAAAAAAATTATATTGGGACCCAAAAAATGTACTTGGTGTCAACCATT
1 ATTAGTGTCCCAAAGTAAAAAAAAATTACATTGGGACCCAAAAAATGTACTTGGTGCCAACCATT
* *
65319383 TACTGGCTAGCAATCAAAATTTTTTTTCTTACTTTGGGACACTAGTATCGACT
66 TACTGGCCAGCAATCAAAATTTTTTTTCTTACTTTGGGACAATAGTATCGACT
* **
65319436 ATGAGTGTCCCAAAGTAAAAAAAAATTACATTAAGACCCAAAAAATGTACTTGGT
1 ATTAGTGTCCCAAAGTAAAAAAAAATTACATTGGGACCCAAAAAATGTACTTGGT
65319491 ATGCCGACCA
Statistics
Matches: 155, Mismatches: 17, Indels: 1
0.90 0.10 0.01
Matches are distributed among these distances:
117 15 0.10
118 140 0.90
ACGTcount: A:0.36, C:0.16, G:0.17, T:0.31
Consensus pattern (118 bp):
ATTAGTGTCCCAAAGTAAAAAAAAATTACATTGGGACCCAAAAAATGTACTTGGTGCCAACCATT
TACTGGCCAGCAATCAAAATTTTTTTTCTTACTTTGGGACAATAGTATCGACT
Found at i:65324073 original size:15 final size:15
Alignment explanation
Indices: 65324053--65324084 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
65324043 CATGAAAATA
65324053 AAATATTTCCGAACG
1 AAATATTTCCGAACG
65324068 AAATATTTCCGAACG
1 AAATATTTCCGAACG
65324083 AA
1 AA
65324085 CTGTTGGTGC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.44, C:0.19, G:0.12, T:0.25
Consensus pattern (15 bp):
AAATATTTCCGAACG
Found at i:65325254 original size:17 final size:16
Alignment explanation
Indices: 65325224--65325258 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 16
65325214 GTATAATAAA
*
65325224 TTTAATTTTCAAAATT
1 TTTAATTTTAAAAATT
65325240 TTTACATTTTAAAAATT
1 TTTA-ATTTTAAAAATT
65325257 TT
1 TT
65325259 ATTTTAATTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 4 0.24
17 13 0.76
ACGTcount: A:0.37, C:0.06, G:0.00, T:0.57
Consensus pattern (16 bp):
TTTAATTTTAAAAATT
Found at i:65339699 original size:12 final size:12
Alignment explanation
Indices: 65339682--65339706 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
65339672 GTAGTGAAAG
65339682 AATTATGGTGTA
1 AATTATGGTGTA
65339694 AATTATGGTGTA
1 AATTATGGTGTA
65339706 A
1 A
65339707 CCAACTTATT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.36, C:0.00, G:0.24, T:0.40
Consensus pattern (12 bp):
AATTATGGTGTA
Found at i:65342832 original size:21 final size:21
Alignment explanation
Indices: 65342807--65342875 Score: 81
Period size: 21 Copynumber: 3.4 Consensus size: 21
65342797 TAGCCTTCGG
*
65342807 GCTTCCGTTTAGCACTTATGT
1 GCTTCAGTTTAGCACTTATGT
* *
65342828 GCTTCAG-TTAGC-CTT-CGG
1 GCTTCAGTTTAGCACTTATGT
*
65342846 GCTTCTGTTTAGCACTTATGT
1 GCTTCAGTTTAGCACTTATGT
65342867 GCTTCAGTT
1 GCTTCAGTT
65342876 AGATTTCGGG
Statistics
Matches: 38, Mismatches: 7, Indels: 6
0.75 0.14 0.12
Matches are distributed among these distances:
18 7 0.18
19 8 0.21
20 8 0.21
21 15 0.39
ACGTcount: A:0.13, C:0.23, G:0.22, T:0.42
Consensus pattern (21 bp):
GCTTCAGTTTAGCACTTATGT
Found at i:65342885 original size:39 final size:39
Alignment explanation
Indices: 65342789--65342877 Score: 169
Period size: 39 Copynumber: 2.3 Consensus size: 39
65342779 GCTCTGATGA
65342789 GCTTCAGTTAGCCTTCGGGCTTCCGTTTAGCACTTATGT
1 GCTTCAGTTAGCCTTCGGGCTTCCGTTTAGCACTTATGT
*
65342828 GCTTCAGTTAGCCTTCGGGCTTCTGTTTAGCACTTATGT
1 GCTTCAGTTAGCCTTCGGGCTTCCGTTTAGCACTTATGT
65342867 GCTTCAGTTAG
1 GCTTCAGTTAG
65342878 ATTTCGGGTT
Statistics
Matches: 49, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
39 49 1.00
ACGTcount: A:0.13, C:0.24, G:0.24, T:0.39
Consensus pattern (39 bp):
GCTTCAGTTAGCCTTCGGGCTTCCGTTTAGCACTTATGT
Found at i:65347915 original size:32 final size:32
Alignment explanation
Indices: 65347874--65347937 Score: 128
Period size: 32 Copynumber: 2.0 Consensus size: 32
65347864 GGGATGGGGT
65347874 TGAATGGTTTCATTCTATATGAGTAGAGAACC
1 TGAATGGTTTCATTCTATATGAGTAGAGAACC
65347906 TGAATGGTTTCATTCTATATGAGTAGAGAACC
1 TGAATGGTTTCATTCTATATGAGTAGAGAACC
65347938 AGAAACATAA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.31, C:0.12, G:0.22, T:0.34
Consensus pattern (32 bp):
TGAATGGTTTCATTCTATATGAGTAGAGAACC
Found at i:65348499 original size:70 final size:70
Alignment explanation
Indices: 65348422--65348992 Score: 460
Period size: 70 Copynumber: 8.2 Consensus size: 70
65348412 GTGCTAAGTG
* * * *
65348422 TTTTGGAGACTGCGGTATTGAACCTGCAAGCCTTAAGATACCAACTGGGAGTGTAGGCTCGCACT
1 TTTTGGAGGCTGCGGTATTGAACCTGCGAGCCTTAAGATACCAGCTGGGAGCGTAGGCTCGCACT
*
65348487 AACTG
66 AACTA
* * * * * * * *
65348492 TTTTGGAGGTTGTGATATTGAACCTGCAAGCCTTAAAATACCAGTTGGGAGCATAGGCTTGCACT
1 TTTTGGAGGCTGCGGTATTGAACCTGCGAGCCTTAAGATACCAGCTGGGAGCGTAGGCTCGCACT
65348557 AACTA
66 AACTA
* * * * * *
65348562 TTTTGAAGGCTGCGATATTGAACCTACGAGCCTTAAGATACCAGCTGGGAGCATAAGCTCGCGCT
1 TTTTGGAGGCTGCGGTATTGAACCTGCGAGCCTTAAGATACCAGCTGGGAGCGTAGGCTCGCACT
65348627 AACTA
66 AACTA
* * * * * * * ** * * **
65348632 TTTTGTAGGTTGCGGTATTGAACTTGTGTGCCTTAGGATATCAATTGGGAACGTAGCCTCGTGCT
1 TTTTGGAGGCTGCGGTATTGAACCTGCGAGCCTTAAGATACCAGCTGGGAGCGTAGGCTCGCACT
65348697 AACTA
66 AACTA
* * * * * *
65348702 TTTTAGAGGCTGTGGTATTGAACTTGCGAGCCTTAGGATACCAGCTGAGAGCGTAAGCTCGCACT
1 TTTTGGAGGCTGCGGTATTGAACCTGCGAGCCTTAAGATACCAGCTGGGAGCGTAGGCTCGCACT
*
65348767 AACTG
66 AACTA
** * ** ****
65348772 TTTTGGAGGCTGCGGTATTGAACCTATGAGCCTTAAGATATCAGCTGGGAGCGTAAACTCATGTT
1 TTTTGGAGGCTGCGGTATTGAACCTGCGAGCCTTAAGATACCAGCTGGGAGCGTAGGCTCGCACT
*
65348837 AACAA
66 AACTA
* * * * * * * * * * **
65348842 TTTTGGAGGCTACGGTATTAAACATGCTAGCCTTAGGATATCAGCTAGGAGCATAGGTTGGCGTT
1 TTTTGGAGGCTGCGGTATTGAACCTGCGAGCCTTAAGATACCAGCTGGGAGCGTAGGCTCGCACT
65348907 AACTA
66 AACTA
* * * * * * * * * * * *
65348912 TTTTAGAGGCTG-GCGTATTAAACCTGCAAGGCTTAGGATATCAACTAGGAGAGTAGGTTCACGC
1 TTTTGGAGGCTGCG-GTATTGAACCTGCGAGCCTTAAGATACCAGCTGGGAGCGTAGGCTCGCAC
*
65348976 TAACTG
65 TAACTA
65348982 TTTTGGAGGCT
1 TTTTGGAGGCT
65348993 ATGTGTAACA
Statistics
Matches: 403, Mismatches: 97, Indels: 2
0.80 0.19 0.00
Matches are distributed among these distances:
69 1 0.00
70 402 1.00
ACGTcount: A:0.26, C:0.18, G:0.27, T:0.29
Consensus pattern (70 bp):
TTTTGGAGGCTGCGGTATTGAACCTGCGAGCCTTAAGATACCAGCTGGGAGCGTAGGCTCGCACT
AACTA
Found at i:65348860 original size:210 final size:209
Alignment explanation
Indices: 65348422--65348946 Score: 530
Period size: 210 Copynumber: 2.5 Consensus size: 209
65348412 GTGCTAAGTG
* * * * * ** *
65348422 TTTTGGAGACTGCGGTATTGAACCTGCAAGCCTTAAGATACCAACTGGGAGTGTAGGCTCGCACT
1 TTTTGGAGGCTGCGGTATTGAACATG-TAGCCTTAGGATATCAACTGGGAACGTAGCCTCGCACT
* * * * * * *
65348487 AACTGTTTTGGAGGTTGTGATATTGAACCTGCAAGCCTTAAAATACCAGTTGGGAGCATAGGCTT
65 AACTATTTTAGAGGCTGTGATATTGAACCTGCAAGCCTTAAAATACCAGCTGAGAGCATAAGCTC
65348552 GCACTAACTATTTTGAAGGCTGCGATATTGAACCTACGAGCCTTAAGATACCAGCTGGGAGCATA
130 GCACTAACTATTTTGAAGGCTGCGATATTGAACCTACGAGCCTTAAGATACCAGCTGGGAGCATA
* * *
65348617 AGCTCGCGCTAACTA
195 AACTCACGCTAACAA
* * * * * **
65348632 TTTTGTAGGTTGCGGTATTGAACTTGTGTGCCTTAGGATATCAATTGGGAACGTAGCCTCGTGCT
1 TTTTGGAGGCTGCGGTATTGAACATGT-AGCCTTAGGATATCAACTGGGAACGTAGCCTCGCACT
* * * ** *
65348697 AACTATTTTAGAGGCTGTGGTATTGAACTTGCGAGCCTTAGGATACCAGCTGAGAGCGTAAGCTC
65 AACTATTTTAGAGGCTGTGATATTGAACCTGCAAGCCTTAAAATACCAGCTGAGAGCATAAGCTC
* * * * * *
65348762 GCACTAACTGTTTTGGAGGCTGCGGTATTGAACCTATGAGCCTTAAGATATCAGCTGGGAGCGTA
130 GCACTAACTATTTTGAAGGCTGCGATATTGAACCTACGAGCCTTAAGATACCAGCTGGGAGCATA
* *
65348827 AACTCATGTTAACAA
195 AACTCACGCTAACAA
* * * * * * ** * **
65348842 TTTTGGAGGCTACGGTATTAAACATGCTAGCCTTAGGATATCAGCTAGGAGCATAGGTTGGCGTT
1 TTTTGGAGGCTGCGGTATTGAACATG-TAGCCTTAGGATATCAACTGGGAACGTAGCCTCGCACT
* * *
65348907 AACTATTTTAGAGGCTG-GCGTATTAAACCTGCAAGGCTTA
65 AACTATTTTAGAGGCTGTG-ATATTGAACCTGCAAGCCTTA
65348947 GGATATCAAC
Statistics
Matches: 254, Mismatches: 58, Indels: 6
0.80 0.18 0.02
Matches are distributed among these distances:
209 1 0.00
210 252 0.99
211 1 0.00
ACGTcount: A:0.26, C:0.18, G:0.26, T:0.29
Consensus pattern (209 bp):
TTTTGGAGGCTGCGGTATTGAACATGTAGCCTTAGGATATCAACTGGGAACGTAGCCTCGCACTA
ACTATTTTAGAGGCTGTGATATTGAACCTGCAAGCCTTAAAATACCAGCTGAGAGCATAAGCTCG
CACTAACTATTTTGAAGGCTGCGATATTGAACCTACGAGCCTTAAGATACCAGCTGGGAGCATAA
ACTCACGCTAACAA
Found at i:65348949 original size:210 final size:210
Alignment explanation
Indices: 65348479--65348992 Score: 539
Period size: 210 Copynumber: 2.4 Consensus size: 210
65348469 GGAGTGTAGG
* * * * * ** * *
65348479 CTCGCACTAACTGTTTTGGAGGTTGTGATATTGAACCTGCAAGCCTTAAAATACCAGTTGGGAGC
1 CTCGCGCTAACTATTTTAGAGGCTGTGGTATTGAACCTGCAAGCCTTAGGATACCAGCTGAGAGC
* * * *
65348544 ATAGGCTTGCACTAACTATTTTGAAGGCTGCGATATTGAACCTACGAGCCTTAAGATACCAGCTG
66 GTAGGCTCGCACTAACTGTTTTGGAGGCTGCGATATTGAACCTACGAGCCTTAAGATACCAGCTG
* * * * * * * * *
65348609 GGAGCATAAGCTCGCGCTAACTATTTTGTAGGTTGCGGTATTGAACTTGTGTGCCTTAGGATATC
131 GGAGCATAAACTCACGCTAACAATTTTGGAGGCTACGGTATTAAACATGTGAGCCTTAGGATATC
* * *
65348674 AATTGGGAACGTAGC
196 AACTAGGAACATAGC
* * *
65348689 CTCGTGCTAACTATTTTAGAGGCTGTGGTATTGAACTTGCGAGCCTTAGGATACCAGCTGAGAGC
1 CTCGCGCTAACTATTTTAGAGGCTGTGGTATTGAACCTGCAAGCCTTAGGATACCAGCTGAGAGC
* * * *
65348754 GTAAGCTCGCACTAACTGTTTTGGAGGCTGCGGTATTGAACCTATGAGCCTTAAGATATCAGCTG
66 GTAGGCTCGCACTAACTGTTTTGGAGGCTGCGATATTGAACCTACGAGCCTTAAGATACCAGCTG
* * *
65348819 GGAGCGTAAACTCATGTTAACAATTTTGGAGGCTACGGTATTAAACATGCT-AGCCTTAGGATAT
131 GGAGCATAAACTCACGCTAACAATTTTGGAGGCTACGGTATTAAACATG-TGAGCCTTAGGATAT
* * *
65348883 CAGCTAGGAGCATAGG
195 CAACTAGGAACATAGC
* * * * * * *
65348899 TTGGCGTTAACTATTTTAGAGGCTG-GCGTATTAAACCTGCAAGGCTTAGGATATCAACT-AGGA
1 CTCGCGCTAACTATTTTAGAGGCTGTG-GTATTGAACCTGCAAGCCTTAGGATACCAGCTGA-GA
* * * *
65348962 GAGTAGGTTCACGCTAACTGTTTTGGAGGCT
64 GCGTAGGCTCGCACTAACTGTTTTGGAGGCT
65348993 ATGTGTAACA
Statistics
Matches: 248, Mismatches: 53, Indels: 6
0.81 0.17 0.02
Matches are distributed among these distances:
209 2 0.01
210 245 0.99
211 1 0.00
ACGTcount: A:0.26, C:0.18, G:0.26, T:0.29
Consensus pattern (210 bp):
CTCGCGCTAACTATTTTAGAGGCTGTGGTATTGAACCTGCAAGCCTTAGGATACCAGCTGAGAGC
GTAGGCTCGCACTAACTGTTTTGGAGGCTGCGATATTGAACCTACGAGCCTTAAGATACCAGCTG
GGAGCATAAACTCACGCTAACAATTTTGGAGGCTACGGTATTAAACATGTGAGCCTTAGGATATC
AACTAGGAACATAGC
Found at i:65350321 original size:40 final size:40
Alignment explanation
Indices: 65350279--65350413 Score: 137
Period size: 40 Copynumber: 3.4 Consensus size: 40
65350269 GTACAATTAG
* * *
65350279 GGGTATCGAAGTACAAACAACGGCACGTATGTGTAATCAG
1 GGGTATCAAAGTACAAACAACGGCACGTATGTGCAATCAA
* * * * * *
65350319 GGGTACCGAAGTACAAATAAGGGTACGTATATGCAATCAA
1 GGGTATCAAAGTACAAACAACGGCACGTATGTGCAATCAA
** *
65350359 GGGTA-CTAAAGTACAAACAGTGACACGTATGTGCAATCAA
1 GGGTATC-AAAGTACAAACAACGGCACGTATGTGCAATCAA
*
65350399 GGCTATCAAAGTACA
1 GGGTATCAAAGTACA
65350414 GTAATTTTCT
Statistics
Matches: 78, Mismatches: 15, Indels: 4
0.80 0.15 0.04
Matches are distributed among these distances:
39 1 0.01
40 76 0.97
41 1 0.01
ACGTcount: A:0.39, C:0.17, G:0.24, T:0.20
Consensus pattern (40 bp):
GGGTATCAAAGTACAAACAACGGCACGTATGTGCAATCAA
Found at i:65351676 original size:70 final size:70
Alignment explanation
Indices: 65351532--65351782 Score: 182
Period size: 70 Copynumber: 3.6 Consensus size: 70
65351522 TTGCACTATA
* * * * * * * * **
65351532 GTATTGAACTTGCGAGCCTTAGGATATCAGTTAGGAGCGTAGGCTCACGCTAACTATTTTTTTA-
1 GTATTGAACCTACGAGCCTTAAGATAGCAGCTGGGAGCATAGGCTCACACTAACTA-TTTTAGAG
* **
65351596 GATGCA
65 GTTGTG
* * * * * *
65351602 GTATTGAACTTGCGAG-CTTCAAGATAGCGGTTGGGAGCATAGGCTCGCACTAATTATTTTAGAG
1 GTATTGAACCTACGAGCCTT-AAGATAGCAGCTGGGAGCATAGGCTCACACTAACTATTTTAGAG
65351666 GTTGTG
65 GTTGTG
* ** * *
65351672 GTATTGAACCTACGAGCCTTAGGATATTAGCTGGGAGCGTAGGTTCACACTAACTATTTTAGAGG
1 GTATTGAACCTACGAGCCTTAAGATAGCAGCTGGGAGCATAGGCTCACACTAACTATTTTAGAGG
***
65351737 TTACA
66 TTGTG
* * * * *
65351742 GTATTGAACCTTCAAGCCTTAAGATACCAACTGAGAGCATA
1 GTATTGAACCTACGAGCCTTAAGATAGCAGCTGGGAGCATA
65351783 AGTTCGTGAG
Statistics
Matches: 143, Mismatches: 35, Indels: 6
0.78 0.19 0.03
Matches are distributed among these distances:
69 8 0.06
70 132 0.92
71 3 0.02
ACGTcount: A:0.28, C:0.17, G:0.25, T:0.30
Consensus pattern (70 bp):
GTATTGAACCTACGAGCCTTAAGATAGCAGCTGGGAGCATAGGCTCACACTAACTATTTTAGAGG
TTGTG
Found at i:65352569 original size:19 final size:21
Alignment explanation
Indices: 65352545--65352583 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
65352535 ATCCTATCAT
65352545 GAATTT-TTA-CATGATAATA
1 GAATTTATTAGCATGATAATA
*
65352564 GAATTTATTAGCATGCTAAT
1 GAATTTATTAGCATGATAAT
65352584 CACATAAATA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 6 0.35
20 3 0.18
21 8 0.47
ACGTcount: A:0.38, C:0.08, G:0.13, T:0.41
Consensus pattern (21 bp):
GAATTTATTAGCATGATAATA
Found at i:65354301 original size:46 final size:44
Alignment explanation
Indices: 65354217--65354384 Score: 151
Period size: 46 Copynumber: 3.6 Consensus size: 44
65354207 GTAAAGTACT
65354217 GATGCCATGTCCCAGACATGGTCTTACACTGACACATCTCGTA-GCC
1 GATG-CATGTCCCAGACAT-GTCTTACACTGACACATCTCG-AGGCC
* * *
65354263 GATGCATGTCTCAAACATGTCTTACACTGGCTTACATCTCGAGGCC
1 GATGCATGTCCCAGACATGTCTTACACTGAC--ACATCTCGAGGCC
* * * * *
65354309 AATACATGTCCCAGACATGTCTTACACTAGCACTCGTCTC-ACTGCC
1 GATGCATGTCCCAGACATGTCTTACACT-G-ACACATCTCGA-GGCC
*
65354355 GATGCCATGTACCAGACATGGTCTTACACT
1 GATG-CATGTCCCAGACAT-GTCTTACACT
65354385 ATCTCTCATA
Statistics
Matches: 100, Mismatches: 14, Indels: 14
0.78 0.11 0.11
Matches are distributed among these distances:
44 12 0.12
45 14 0.14
46 49 0.49
47 14 0.14
48 11 0.11
ACGTcount: A:0.25, C:0.31, G:0.18, T:0.26
Consensus pattern (44 bp):
GATGCATGTCCCAGACATGTCTTACACTGACACATCTCGAGGCC
Found at i:65357703 original size:23 final size:23
Alignment explanation
Indices: 65357677--65357798 Score: 104
Period size: 23 Copynumber: 5.2 Consensus size: 23
65357667 TTTCGAGCCA
*
65357677 TGAT-CGGTAAGCTCCTCTTGAGC
1 TGATACGGTAAGCT-CTATTGAGC
* *
65357700 TGATAACAGTAAGCTCTAATGAGC
1 TGAT-ACGGTAAGCTCTATTGAGC
* *
65357724 TGATATGGTAAGCTCTATCGAGC
1 TGATACGGTAAGCTCTATTGAGC
* *
65357747 TGA-ACCGGTAAGCTCCAATGAGC
1 TGATA-CGGTAAGCTCTATTGAGC
* * *
65357770 TGAAAACAGTAAGCTCTTTTGAGC
1 TG-ATACGGTAAGCTCTATTGAGC
65357794 TGATA
1 TGATA
65357799 TATCGGTAAG
Statistics
Matches: 78, Mismatches: 16, Indels: 10
0.75 0.15 0.10
Matches are distributed among these distances:
22 1 0.01
23 40 0.51
24 28 0.36
25 9 0.12
ACGTcount: A:0.30, C:0.20, G:0.24, T:0.27
Consensus pattern (23 bp):
TGATACGGTAAGCTCTATTGAGC
Found at i:65357726 original size:24 final size:24
Alignment explanation
Indices: 65357695--65357798 Score: 106
Period size: 23 Copynumber: 4.4 Consensus size: 24
65357685 AAGCTCCTCT
65357695 TGAGCTGATAACAGTAAGCTCTAA
1 TGAGCTGATAACAGTAAGCTCTAA
**
65357719 TGAGCTGAT-ATGGTAAGCTCT-A
1 TGAGCTGATAACAGTAAGCTCTAA
* * *
65357741 TCGAGCTGA-ACCGGTAAGCTCCAA
1 T-GAGCTGATAACAGTAAGCTCTAA
* **
65357765 TGAGCTGAAAACAGTAAGCTCTTT
1 TGAGCTGATAACAGTAAGCTCTAA
65357789 TGAGCTGATA
1 TGAGCTGATA
65357799 TATCGGTAAG
Statistics
Matches: 65, Mismatches: 11, Indels: 8
0.77 0.13 0.10
Matches are distributed among these distances:
22 2 0.03
23 33 0.51
24 30 0.46
ACGTcount: A:0.32, C:0.18, G:0.24, T:0.26
Consensus pattern (24 bp):
TGAGCTGATAACAGTAAGCTCTAA
Found at i:65362327 original size:18 final size:17
Alignment explanation
Indices: 65362295--65362331 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 17
65362285 TAAAAAATTT
*
65362295 ATTATTGAGTTGGTTAA
1 ATTATTGAATTGGTTAA
65362312 ATTATATGAATTGGTTAA
1 ATTAT-TGAATTGGTTAA
65362330 AT
1 AT
65362332 GTCCAGATAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 5 0.28
18 13 0.72
ACGTcount: A:0.35, C:0.00, G:0.19, T:0.46
Consensus pattern (17 bp):
ATTATTGAATTGGTTAA
Found at i:65363706 original size:3 final size:3
Alignment explanation
Indices: 65363698--65363738 Score: 64
Period size: 3 Copynumber: 13.7 Consensus size: 3
65363688 TTTGATTCAC
* *
65363698 CAT CAT CAT CAC CAT CAT CAT CGT CAT CAT CAT CAT CAT CA
1 CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CA
65363739 CTTTCTTGAC
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
3 34 1.00
ACGTcount: A:0.32, C:0.37, G:0.02, T:0.29
Consensus pattern (3 bp):
CAT
Found at i:65365333 original size:72 final size:71
Alignment explanation
Indices: 65365159--65365440 Score: 395
Period size: 72 Copynumber: 3.9 Consensus size: 71
65365149 ATAATTTAGT
* * *
65365159 ATAAATAAGTAGAACATAAATTTAATATCCGAAAATCAAACATAAACAATTATTGATAAAACTAG
1 ATAAATAAGTAGAACATAAATTCAATATCC-AAAACCAAACATAAACAACTATTGATAAAACTAG
*
65365224 CTCTA-AGC
65 AT-TACA-C
* * *
65365232 ATAAATAAGTAGACCATAAATTCAATATCCAAAGACCAAACATAAACAAATATTAATAAAACTAG
1 ATAAATAAGTAGAACATAAATTCAATATCCAAA-ACCAAACATAAACAACTATTGATAAAACTAG
65365297 ATTACAC
65 ATTACAC
*
65365304 ATAAATAAGTAGAACATAAATTCAATATCCAACAACCAAACATAAACAACCATTGATAAAACTAG
1 ATAAATAAGTAGAACATAAATTCAATATCCAA-AACCAAACATAAACAACTATTGATAAAACTAG
*
65365369 ATTACAT
65 ATTACAC
* * *
65365376 ATAAATAAGTAGAACGTAAATTCAATATCCAAAAACCAAACATAAATAACTATTGAGAAAACTAG
1 ATAAATAAGTAGAACATAAATTCAATATCC-AAAACCAAACATAAACAACTATTGATAAAACTAG
65365441 TTTAGCATTG
Statistics
Matches: 190, Mismatches: 15, Indels: 9
0.89 0.07 0.04
Matches are distributed among these distances:
72 129 0.68
73 61 0.32
ACGTcount: A:0.54, C:0.16, G:0.07, T:0.23
Consensus pattern (71 bp):
ATAAATAAGTAGAACATAAATTCAATATCCAAAACCAAACATAAACAACTATTGATAAAACTAGA
TTACAC
Found at i:65365898 original size:18 final size:18
Alignment explanation
Indices: 65365875--65365936 Score: 97
Period size: 18 Copynumber: 3.4 Consensus size: 18
65365865 TCAATTTGAA
65365875 CATCATTTGAAATGTGAG
1 CATCATTTGAAATGTGAG
65365893 CATCATTTGAAATGTGAG
1 CATCATTTGAAATGTGAG
* * *
65365911 CATTATTTGAAATGTAAA
1 CATCATTTGAAATGTGAG
65365929 CATCATTT
1 CATCATTT
65365937 CTCACATTTT
Statistics
Matches: 40, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 40 1.00
ACGTcount: A:0.35, C:0.11, G:0.16, T:0.37
Consensus pattern (18 bp):
CATCATTTGAAATGTGAG
Found at i:65367709 original size:41 final size:41
Alignment explanation
Indices: 65367629--65367831 Score: 307
Period size: 41 Copynumber: 4.9 Consensus size: 41
65367619 TTGTAAAACA
* * * *
65367629 CAGAGCAATAGCGGCGTTTTTTGTTAAAATGCCGCTAAAGAC
1 CAGAGCATTAGCGGCG-CTTTTGGTAAAACGCCGCTAAAGAC
*
65367671 CAGAGCATTAGCGGCGCTTCTGGTAAAACGCCGCTAAAGAC
1 CAGAGCATTAGCGGCGCTTTTGGTAAAACGCCGCTAAAGAC
*
65367712 CAGAGCATTAGCGGCGCTTTTGGTAAAACGCCGCTAAAAAC
1 CAGAGCATTAGCGGCGCTTTTGGTAAAACGCCGCTAAAGAC
* *
65367753 TAGAGCATTAGCGGCGCTTTTCGTAAAACGCCGCTAAAGAC
1 CAGAGCATTAGCGGCGCTTTTGGTAAAACGCCGCTAAAGAC
* *
65367794 CAGAGCATTAGCGGCGCTTTTAGTAAAACGCCACTAAA
1 CAGAGCATTAGCGGCGCTTTTGGTAAAACGCCGCTAAA
65367832 AGTTATATAA
Statistics
Matches: 148, Mismatches: 13, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
41 133 0.90
42 15 0.10
ACGTcount: A:0.31, C:0.24, G:0.24, T:0.21
Consensus pattern (41 bp):
CAGAGCATTAGCGGCGCTTTTGGTAAAACGCCGCTAAAGAC
Found at i:65368881 original size:18 final size:19
Alignment explanation
Indices: 65368858--65368896 Score: 62
Period size: 19 Copynumber: 2.1 Consensus size: 19
65368848 GATCTTTTTT
65368858 TATTTTT-TATCAAAATAA
1 TATTTTTATATCAAAATAA
*
65368876 TATTTTTATATGAAAATAA
1 TATTTTTATATCAAAATAA
65368895 TA
1 TA
65368897 AATATGATTT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 7 0.37
19 12 0.63
ACGTcount: A:0.46, C:0.03, G:0.03, T:0.49
Consensus pattern (19 bp):
TATTTTTATATCAAAATAA
Found at i:65371767 original size:12 final size:13
Alignment explanation
Indices: 65371750--65371778 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
65371740 ATCTAAATTC
65371750 AAAAAAGAAAAA-
1 AAAAAAGAAAAAG
65371762 AAAAAAGAAAAAG
1 AAAAAAGAAAAAG
65371775 AAAA
1 AAAA
65371779 TGCATGCAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 12 0.75
13 4 0.25
ACGTcount: A:0.90, C:0.00, G:0.10, T:0.00
Consensus pattern (13 bp):
AAAAAAGAAAAAG
Found at i:65373196 original size:43 final size:43
Alignment explanation
Indices: 65373135--65373241 Score: 155
Period size: 43 Copynumber: 2.5 Consensus size: 43
65373125 TTTCTGAATT
*
65373135 TCATGA-CTTTTAGCGGCGTTT-TTGAGAAAAGCGCCGCTAAAGG
1 TCATGATC-TTTAGCGGCGTTTGTGGA-AAAAGCGCCGCTAAAGG
65373178 TCATGATCTTTAGCGGCGTTTGTGGAAAAAGCGCCGCTAAAGG
1 TCATGATCTTTAGCGGCGTTTGTGGAAAAAGCGCCGCTAAAGG
* *
65373221 TCGTGATCTTTAACGGCGTTT
1 TCATGATCTTTAGCGGCGTTT
65373242 ATTTGAAAAA
Statistics
Matches: 59, Mismatches: 3, Indels: 4
0.89 0.05 0.06
Matches are distributed among these distances:
43 55 0.93
44 4 0.07
ACGTcount: A:0.23, C:0.19, G:0.28, T:0.30
Consensus pattern (43 bp):
TCATGATCTTTAGCGGCGTTTGTGGAAAAAGCGCCGCTAAAGG
Found at i:65376165 original size:7 final size:6
Alignment explanation
Indices: 65376124--65376164 Score: 55
Period size: 6 Copynumber: 6.5 Consensus size: 6
65376114 ATAATTTAAT
*
65376124 AAATAA AAATAA AAATCTAA AACTAA AAATAA AAATAA AAA
1 AAATAA AAATAA AAA--TAA AAATAA AAATAA AAATAA AAA
65376165 ACATATAATT
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
6 26 0.84
8 5 0.16
ACGTcount: A:0.78, C:0.05, G:0.00, T:0.17
Consensus pattern (6 bp):
AAATAA
Found at i:65376165 original size:20 final size:20
Alignment explanation
Indices: 65376127--65376166 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
65376117 ATTTAATAAA
**
65376127 TAAAAATAAAAATCTAAAAC
1 TAAAAATAAAAATAAAAAAC
65376147 TAAAAATAAAAATAAAAAAC
1 TAAAAATAAAAATAAAAAAC
65376167 ATATAATTTT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.75, C:0.07, G:0.00, T:0.17
Consensus pattern (20 bp):
TAAAAATAAAAATAAAAAAC
Found at i:65376198 original size:9 final size:9
Alignment explanation
Indices: 65376184--65376251 Score: 91
Period size: 9 Copynumber: 7.6 Consensus size: 9
65376174 TTTATACAAA
65376184 TAATTCGGT
1 TAATTCGGT
65376193 TAATTCGGT
1 TAATTCGGT
**
65376202 TAATTCAAT
1 TAATTCGGT
* *
65376211 TAATTTGGG
1 TAATTCGGT
*
65376220 TAATTCGGG
1 TAATTCGGT
65376229 TAATTCGGT
1 TAATTCGGT
65376238 TAATTCGGT
1 TAATTCGGT
65376247 TAATT
1 TAATT
65376252 TTATACTTAT
Statistics
Matches: 51, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
9 51 1.00
ACGTcount: A:0.26, C:0.09, G:0.21, T:0.44
Consensus pattern (9 bp):
TAATTCGGT
Found at i:65376224 original size:36 final size:36
Alignment explanation
Indices: 65376184--65376252 Score: 111
Period size: 36 Copynumber: 1.9 Consensus size: 36
65376174 TTTATACAAA
*
65376184 TAATTCGGTTAATTCGGTTAATTCAATTAATTTGGG
1 TAATTCGGGTAATTCGGTTAATTCAATTAATTTGGG
**
65376220 TAATTCGGGTAATTCGGTTAATTCGGTTAATTT
1 TAATTCGGGTAATTCGGTTAATTCAATTAATTT
65376253 TATACTTATT
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
36 30 1.00
ACGTcount: A:0.26, C:0.09, G:0.20, T:0.45
Consensus pattern (36 bp):
TAATTCGGGTAATTCGGTTAATTCAATTAATTTGGG
Found at i:65377621 original size:31 final size:30
Alignment explanation
Indices: 65377574--65377631 Score: 89
Period size: 31 Copynumber: 1.9 Consensus size: 30
65377564 AGGGTTTATT
* *
65377574 TTTTTATTTTATTTAATGTTAATATAATTA
1 TTTTTATTTAATTTAATATTAATATAATTA
65377604 TTTTTATTTAATATTAATATTAATATAA
1 TTTTTATTTAAT-TTAATATTAATATAA
65377632 AAATTAAATT
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
30 11 0.44
31 14 0.56
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.60
Consensus pattern (30 bp):
TTTTTATTTAATTTAATATTAATATAATTA
Found at i:65386487 original size:15 final size:15
Alignment explanation
Indices: 65386467--65386497 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
65386457 CCAACTTTCA
65386467 AATTTTACCTCAATT
1 AATTTTACCTCAATT
65386482 AATTTTACCTCAATT
1 AATTTTACCTCAATT
65386497 A
1 A
65386498 TACATAATAT
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:0.35, C:0.19, G:0.00, T:0.45
Consensus pattern (15 bp):
AATTTTACCTCAATT
Found at i:65388255 original size:93 final size:92
Alignment explanation
Indices: 65388126--65388320 Score: 277
Period size: 93 Copynumber: 2.1 Consensus size: 92
65388116 TTGATTTTAG
* * *
65388126 TAAATTCATATAATAACATTTTATTATTAAGAATTTTATGAAATTATATATCACTA-TATAATTA
1 TAAATTCATATAAGAAAATTTTATTATCAAGAATTTTATGAAATTATATATCACTATTA-AATTA
* *
65388190 TATTTAAT-ATTAATTATTTTAAATTGTA
65 TATGTAATAATT-ATTATTTTAAATTATA
* *
65388218 TAAATTCATATAAGAAAATTTTTATTATCAAGAATTTTATGAAATTATATATTATTATTAAATTA
1 TAAATTCATATAAGAAAA-TTTTATTATCAAGAATTTTATGAAATTATATATCACTATTAAATTA
65388283 TATGTAATAATTATTATTTTAAATTATA
65 TATGTAATAATTATTATTTTAAATTATA
*
65388311 CAAATTCATA
1 TAAATTCATA
65388321 AACTATAATC
Statistics
Matches: 92, Mismatches: 8, Indels: 5
0.88 0.08 0.05
Matches are distributed among these distances:
92 16 0.17
93 71 0.77
94 5 0.05
ACGTcount: A:0.45, C:0.04, G:0.04, T:0.48
Consensus pattern (92 bp):
TAAATTCATATAAGAAAATTTTATTATCAAGAATTTTATGAAATTATATATCACTATTAAATTAT
ATGTAATAATTATTATTTTAAATTATA
Found at i:65388378 original size:17 final size:17
Alignment explanation
Indices: 65388353--65388386 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
65388343 ATAATTTTAA
*
65388353 ATTTTATTAAATCATAT
1 ATTTAATTAAATCATAT
65388370 ATTTAATTAAATCATAT
1 ATTTAATTAAATCATAT
65388387 TTAATATTAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.44, C:0.06, G:0.00, T:0.50
Consensus pattern (17 bp):
ATTTAATTAAATCATAT
Found at i:65388388 original size:15 final size:16
Alignment explanation
Indices: 65388353--65388391 Score: 53
Period size: 17 Copynumber: 2.4 Consensus size: 16
65388343 ATAATTTTAA
*
65388353 ATTTTATTAAATCATAT
1 ATTTAATTAAATCA-AT
65388370 ATTTAATTAAATC-AT
1 ATTTAATTAAATCAAT
65388385 ATTTAAT
1 ATTTAAT
65388392 ATTAATTATT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 9 0.43
17 12 0.57
ACGTcount: A:0.44, C:0.05, G:0.00, T:0.51
Consensus pattern (16 bp):
ATTTAATTAAATCAAT
Found at i:65388395 original size:17 final size:18
Alignment explanation
Indices: 65388357--65388396 Score: 57
Period size: 17 Copynumber: 2.3 Consensus size: 18
65388347 TTTTAAATTT
*
65388357 TATTAAATCATATATTTA
1 TATTAAATCATATATTAA
65388375 -ATTAAATCATAT-TTAA
1 TATTAAATCATATATTAA
65388391 TATTAA
1 TATTAA
65388397 TTATTTGAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
16 3 0.15
17 17 0.85
ACGTcount: A:0.47, C:0.05, G:0.00, T:0.47
Consensus pattern (18 bp):
TATTAAATCATATATTAA
Found at i:65388511 original size:15 final size:15
Alignment explanation
Indices: 65388476--65388610 Score: 70
Period size: 15 Copynumber: 8.9 Consensus size: 15
65388466 TTAAGAATTT
*
65388476 TATTAAATTAT-ATA
1 TATTTAATTATAATA
65388490 T-TTTAATTATAATA
1 TATTTAATTATAATA
*
65388504 TATTTAATAATAAT-
1 TATTTAATTATAATA
65388518 TATGTTAATT-T-ATA
1 TAT-TTAATTATAATA
* *
65388532 T-TTTACAGTATCATA
1 TATTTA-ATTATAATA
*
65388547 TATTATGATTTGAGTAAATTCA
1 TATT-T-AATT-A-T-AA-T-A
*
65388569 TATTAAATTAT-ATA
1 TATTTAATTATAATA
65388583 T-TTTAATTATAATA
1 TATTTAATTATAATA
*
65388597 TATTTAATAATAAT
1 TATTTAATTATAAT
65388611 TATGTTTAAA
Statistics
Matches: 93, Mismatches: 11, Indels: 33
0.68 0.08 0.24
Matches are distributed among these distances:
12 3 0.03
13 21 0.23
14 17 0.18
15 32 0.34
16 3 0.03
17 2 0.02
18 3 0.03
19 2 0.02
20 4 0.04
21 1 0.01
22 5 0.05
ACGTcount: A:0.43, C:0.02, G:0.04, T:0.51
Consensus pattern (15 bp):
TATTTAATTATAATA
Found at i:65388518 original size:120 final size:119
Alignment explanation
Indices: 65388352--65388570 Score: 345
Period size: 120 Copynumber: 1.8 Consensus size: 119
65388342 AATAATTTTA
* *
65388352 AATTTTATTAAATCATATATTTAATTAAATCATATTTAATATTAATTAT-TTGAAATTT-TCTTT
1 AATTTTATTAAATCATATATTTAATTAAATCATATTTAATAATAATTATGTT--AATTTATATTT
*
65388415 TATAGTATCATATATTATGATTTGAGTAAATTCATAGAAGAATTTTATTTATTAAG
64 TACAGTATCATATATTATGATTTGAGTAAATTCATAGAAGAATTTTATTTATTAAG
*
65388471 AATTTTATTAAATTATATATTTTAATTATAAT-ATATTTAATAATAATTATGTTAATTTATATTT
1 AATTTTATTAAATCATATA-TTTAATTA-AATCATATTTAATAATAATTATGTTAATTTATATTT
65388535 TACAGTATCATATATTATGATTTGAGTAAATTCATA
64 TACAGTATCATATATTATGATTTGAGTAAATTCATA
65388571 TTAAATTATA
Statistics
Matches: 92, Mismatches: 4, Indels: 7
0.89 0.04 0.07
Matches are distributed among these distances:
119 23 0.25
120 64 0.70
121 5 0.05
ACGTcount: A:0.40, C:0.04, G:0.06, T:0.50
Consensus pattern (119 bp):
AATTTTATTAAATCATATATTTAATTAAATCATATTTAATAATAATTATGTTAATTTATATTTTA
CAGTATCATATATTATGATTTGAGTAAATTCATAGAAGAATTTTATTTATTAAG
Found at i:65388599 original size:16 final size:16
Alignment explanation
Indices: 65388578--65388619 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
65388568 ATATTAAATT
*
65388578 ATATATTTTAATTATA
1 ATATATTTTAATAATA
65388594 ATATA-TTTAATAATA
1 ATATATTTTAATAATA
65388609 AT-TATGTTTAA
1 ATATAT-TTTAA
65388620 ATATGATTAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
14 2 0.09
15 11 0.48
16 10 0.43
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.52
Consensus pattern (16 bp):
ATATATTTTAATAATA
Found at i:65388727 original size:154 final size:156
Alignment explanation
Indices: 65388569--65388866 Score: 546
Period size: 154 Copynumber: 1.9 Consensus size: 156
65388559 AGTAAATTCA
*
65388569 TATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTTAAATATGATTAAATTA
1 TATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTTAAATATGATTAAATTA
65388634 TTTATTATTGAT-AT-TAATCTTATTAAAATTTAAATAACAATAACAATAATAATTTACCAAAAC
66 TTTATTATTGATAATATAATCTTATTAAAATTTAAATAACAATAACAATAATAATTTACCAAAAC
65388697 AAATTTATGCTAATTATTAAGAATTT
131 AAATTTATGCTAATTATTAAGAATTT
65388723 TATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTTAAATATGATTAAATTA
1 TATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTTAAATATGATTAAATTA
*
65388788 TTTATTATTGATAATAATAATCTTATTAAAATTTAAATAACAATAACAATAATCATTTACCAAAA
66 TTTATTATTGATAAT-ATAATCTTATTAAAATTTAAATAACAATAACAATAATAATTTACCAAAA
*
65388853 CAAATTTCTGCTAA
130 CAAATTTATGCTAA
65388867 GGGTATTCTA
Statistics
Matches: 138, Mismatches: 3, Indels: 3
0.96 0.02 0.02
Matches are distributed among these distances:
154 76 0.55
155 2 0.01
157 60 0.43
ACGTcount: A:0.47, C:0.05, G:0.03, T:0.44
Consensus pattern (156 bp):
TATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTTAAATATGATTAAATTA
TTTATTATTGATAATATAATCTTATTAAAATTTAAATAACAATAACAATAATAATTTACCAAAAC
AAATTTATGCTAATTATTAAGAATTT
Found at i:65388747 original size:18 final size:17
Alignment explanation
Indices: 65388719--65388753 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
65388709 ATTATTAAGA
*
65388719 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
65388736 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
65388754 TTAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:65389007 original size:16 final size:16
Alignment explanation
Indices: 65388986--65389024 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
65388976 TTGATTTGCT
*
65388986 ATTACACAGCTTTTCC
1 ATTACACAGCTATTCC
**
65389002 ATTACACCTCTATTCC
1 ATTACACAGCTATTCC
65389018 ATTACAC
1 ATTACAC
65389025 CTCTAATCCA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.28, C:0.33, G:0.03, T:0.36
Consensus pattern (16 bp):
ATTACACAGCTATTCC
Found at i:65389025 original size:16 final size:16
Alignment explanation
Indices: 65388999--65389055 Score: 87
Period size: 16 Copynumber: 3.6 Consensus size: 16
65388989 ACACAGCTTT
* *
65388999 TCCATTACACCTCTAT
1 TCCAATACACCTCTAA
*
65389015 TCCATTACACCTCTAA
1 TCCAATACACCTCTAA
65389031 TCCAATACACCTCTAA
1 TCCAATACACCTCTAA
65389047 TCCAATACA
1 TCCAATACA
65389056 GCGAACCAAA
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 39 1.00
ACGTcount: A:0.33, C:0.37, G:0.00, T:0.30
Consensus pattern (16 bp):
TCCAATACACCTCTAA
Found at i:65391012 original size:130 final size:132
Alignment explanation
Indices: 65390843--65391113 Score: 352
Period size: 130 Copynumber: 2.1 Consensus size: 132
65390833 AAAATTCTTC
** * * * *
65390843 AAAACGAAGACGATATTTGATGTTTGGCAATTCGCGGAATCGTGCCCTAACGTGTTGGGTTGCAA
1 AAAACGAAGACGATATGCGATATTTGGCAATTCACGGAATCGTGCCCCAACGTGTTGGGTAGCAA
* * ** *
65390908 TTTCGCATTTGCTCAAAATAATCGAATA-CCACTTCAAAATTTCACTCATGTCTT-TTAAAATCC
66 TTTCCCATTTGCTCAAAATAATCAAATATCC-CTTCAAAATTTCACTCAAATCTTCTGAAAATCC
65390971 -CT
130 TCT
*
65390973 AAAACGAATG-CGATATGCGATATTTGGCAATTCATGGAATCGTGCCCCAACGTGTTGGGTAGCA
1 AAAACGAA-GACGATATGCGATATTTGGCAATTCACGGAATCGTGCCCCAACGTGTTGGGTAGCA
* * *
65391037 ATTTCCCATTTGTTTAAAATAATCAAATATCCCTTCAAAATTTTACTCAAATCTTCTGAAAATCC
65 ATTTCCCATTTGCTCAAAATAATCAAATATCCCTTCAAAATTTCACTCAAATCTTCTGAAAATCC
*
65391102 TTT
130 TCT
65391105 AAAACGAAG
1 AAAACGAAG
65391114 GTAATACTCG
Statistics
Matches: 121, Mismatches: 16, Indels: 7
0.84 0.11 0.05
Matches are distributed among these distances:
130 100 0.83
131 12 0.10
132 9 0.07
ACGTcount: A:0.32, C:0.20, G:0.16, T:0.32
Consensus pattern (132 bp):
AAAACGAAGACGATATGCGATATTTGGCAATTCACGGAATCGTGCCCCAACGTGTTGGGTAGCAA
TTTCCCATTTGCTCAAAATAATCAAATATCCCTTCAAAATTTCACTCAAATCTTCTGAAAATCCT
CT
Found at i:65403128 original size:45 final size:45
Alignment explanation
Indices: 65402940--65403141 Score: 142
Period size: 45 Copynumber: 4.6 Consensus size: 45
65402930 AGATCCTGTT
* * *
65402940 TCCCTAAAGTTGCAGTGAAGCAGATCAAAGACGGTGAATCTTGGC
1 TCCCTAAAGTTGCAGTGAAGCAGATCGAAGACGATGAATCTTAGC
* * * ** * ** *
65402985 TTCTTGAAGTTGCAGTGAAGCAGATTTAAG-CCA-CCATCCTAGC
1 TCCCTAAAGTTGCAGTGAAGCAGATCGAAGACGATGAATCTTAGC
* * * * * *** * *
65403028 TCCCTAAAGTTGTAATGGAGTAG-GCTGAA-ATTTTAAATCTTATC
1 TCCCTAAAGTTGCAGTGAAGCAGATC-GAAGACGATGAATCTTAGC
* *
65403072 TCCCTGAAGTTGCAGTGAAGCAGATCGAAGACGATGAATCTTGGC
1 TCCCTAAAGTTGCAGTGAAGCAGATCGAAGACGATGAATCTTAGC
*
65403117 TTCCTAAAGTTGCAGTGAAGCAGAT
1 TCCCTAAAGTTGCAGTGAAGCAGAT
65403142 TTAAGCCACC
Statistics
Matches: 110, Mismatches: 42, Indels: 10
0.68 0.26 0.06
Matches are distributed among these distances:
43 24 0.22
44 28 0.25
45 58 0.53
ACGTcount: A:0.30, C:0.19, G:0.24, T:0.27
Consensus pattern (45 bp):
TCCCTAAAGTTGCAGTGAAGCAGATCGAAGACGATGAATCTTAGC
Found at i:65403180 original size:132 final size:132
Alignment explanation
Indices: 65402940--65403319 Score: 568
Period size: 132 Copynumber: 2.9 Consensus size: 132
65402930 AGATCCTGTT
* * * *
65402940 TCCCTAAAGTTGCAGTGAAGCAGATCAAAGACGGTGAATCTTGGCTTCTTGAAGTTGCAGTGAAG
1 TCCCTGAAGTTGCAGTGAAGCAGATCAAAGACGATGAATCTTGGCTTCCTAAAGTTGCAGTGAAG
* * *
65403005 CAGATTTAAGCCACCATCCTAGCTCCCTAAAGTTGTAATGGAGTAGGCTGAAATTTTAAATCTTA
66 CAGATTTAAGCCACCAACCTAGCTCCCTAAAGTTGTAGTGGAGTAGGCTGAAATTTTAAATCTCA
65403070 TC
131 TC
*
65403072 TCCCTGAAGTTGCAGTGAAGCAGATCGAAGACGATGAATCTTGGCTTCCTAAAGTTGCAGTGAAG
1 TCCCTGAAGTTGCAGTGAAGCAGATCAAAGACGATGAATCTTGGCTTCCTAAAGTTGCAGTGAAG
* * *
65403137 CAGATTTAAGCCACCAACCTAGCTCCCTAAAGTTGTAGCGGAGTAGGCTGAAATTTTAGATCTCG
66 CAGATTTAAGCCACCAACCTAGCTCCCTAAAGTTGTAGTGGAGTAGGCTGAAATTTTAAATCTCA
*
65403202 TT
131 TC
* * * *
65403204 TCCCTGAAGTTGCAGTGGAGTAGATCAAAGAC-AGTGAATCTAGGCTTCCTGAGAA--TGCAGCG
1 TCCCTGAAGTTGCAGTGAAGCAGATCAAAGACGA-TGAATCTTGGCTTCCT-A-AAGTTGCAGTG
65403266 AAGCAGATTTAAGCCACCAACCTAGCTCCCTAAAGTTGTAGTGGAGTAGGCTGA
63 AAGCAGATTTAAGCCACCAACCTAGCTCCCTAAAGTTGTAGTGGAGTAGGCTGA
65403320 CGATTGCAGA
Statistics
Matches: 227, Mismatches: 18, Indels: 6
0.90 0.07 0.02
Matches are distributed among these distances:
131 1 0.00
132 223 0.98
133 1 0.00
134 2 0.01
ACGTcount: A:0.30, C:0.20, G:0.24, T:0.26
Consensus pattern (132 bp):
TCCCTGAAGTTGCAGTGAAGCAGATCAAAGACGATGAATCTTGGCTTCCTAAAGTTGCAGTGAAG
CAGATTTAAGCCACCAACCTAGCTCCCTAAAGTTGTAGTGGAGTAGGCTGAAATTTTAAATCTCA
TC
Found at i:65406505 original size:130 final size:131
Alignment explanation
Indices: 65406273--65406571 Score: 345
Period size: 130 Copynumber: 2.3 Consensus size: 131
65406263 AGATTTGATG
* * * * *
65406273 TTTGGCAATTCGCGGAATAGTGCCCTAATGTGTTGGGTTGCAATTTCGCATTTGCTCAAACTAAT
1 TTTGGCAATTCG-GGAATCGTGCCCTAACGTGTTGGGTAGCAATTTCCCATTTGCTCAAAATAAT
* * * *
65406338 CGAATATCACTTCGAAATTTCACTCATGTCTT-TTAAAATCC-CTAAAACGAAGGCGATA-TGCG
65 CAAATATCACTTCAAAATTTCACTCATGTCTTCTAAAAATCCTCTAAAACGAAGGCAATACT-CG
65406400 ATA
129 ATA
* *
65406403 TTTGGCAATTCGTGGAATCGTGCCCTAACGTGTTGGGTAGCAATTTCCCATTTGTTTAAAATAAT
1 TTTGGCAATTCG-GGAATCGTGCCCTAACGTGTTGGGTAGCAATTTCCCATTTGCTCAAAATAAT
* * * *
65406468 CAAATATCCCTTCAAAATTTCACTCA-GATCTTCTAAAAATCCTTTAAAATGAAGGTAATACTCG
65 CAAATATCACTTCAAAATTTCACTCATG-TCTTCTAAAAATCCTCTAAAACGAAGGCAATACTCG
* *
65406532 GTG
129 ATA
* * * *
65406535 TTTGACAATTCGGGAATCATGCCCTATCGTGCTGGGT
1 TTTGGCAATTCGGGAATCGTGCCCTAACGTGTTGGGT
65406572 TGTGATTTCT
Statistics
Matches: 143, Mismatches: 22, Indels: 7
0.83 0.13 0.04
Matches are distributed among these distances:
129 1 0.01
130 84 0.59
131 30 0.21
132 27 0.19
133 1 0.01
ACGTcount: A:0.29, C:0.20, G:0.18, T:0.33
Consensus pattern (131 bp):
TTTGGCAATTCGGGAATCGTGCCCTAACGTGTTGGGTAGCAATTTCCCATTTGCTCAAAATAATC
AAATATCACTTCAAAATTTCACTCATGTCTTCTAAAAATCCTCTAAAACGAAGGCAATACTCGAT
A
Done.