Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A01
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: 115637255
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 5450143 characters in sequence are not A, C, G, or T
File 190 of 349
Found at i:61529944 original size:28 final size:27
Alignment explanation
Indices: 61529859--61529948 Score: 92
Period size: 27 Copynumber: 3.2 Consensus size: 27
61529849 GTGACAGAGT
*
61529859 CACCAGATATAGATATTTTGTGGCAGTGC
1 CACCAGA-ATAGATAATTTGTGGCA-TGC
* * *
61529888 CACCAGAACAGAT-ATATGTGGCAGGGC
1 CACCAGAATAGATAATTTGTGGCA-TGC
*
61529915 CACCAGAGTAGATAATTTGTGGCATAGC
1 CACCAGAATAGATAATTTGTGGCAT-GC
61529943 CACCAG
1 CACCAG
61529949 GAAGCTTCCT
Statistics
Matches: 51, Mismatches: 8, Indels: 5
0.80 0.12 0.08
Matches are distributed among these distances:
27 22 0.43
28 22 0.43
29 7 0.14
ACGTcount: A:0.31, C:0.21, G:0.26, T:0.22
Consensus pattern (27 bp):
CACCAGAATAGATAATTTGTGGCATGC
Found at i:61545406 original size:51 final size:51
Alignment explanation
Indices: 61545336--61545520 Score: 212
Period size: 51 Copynumber: 3.6 Consensus size: 51
61545326 ATCTGATACA
* * *
61545336 CATAGTAGCTTGCACTTAGTATTACACACATGATCGAAGTTAACGGGTACG
1 CATAGTAGCCTACACTTAGTACTACACACATGATCGAAGTTAACGGGTACG
* * ** * * * *
61545387 CATAGTAGCCTACACTTAGTACTACACACGTGA-CTTAA-CCATCTGATACA
1 CATAGTAGCCTACACTTAGTACTACACACATGATC-GAAGTTAACGGGTACG
* * *
61545437 CGTAGTAGCCTACACTTAGTACTAAACACGTGATCGAAGTTAACGGGTACG
1 CATAGTAGCCTACACTTAGTACTACACACATGATCGAAGTTAACGGGTACG
*
61545488 CATAGTAGCCTGCACTTAGTACTACACACATGA
1 CATAGTAGCCTACACTTAGTACTACACACATGA
61545521 CTCACAACGA
Statistics
Matches: 107, Mismatches: 24, Indels: 6
0.78 0.18 0.04
Matches are distributed among these distances:
50 40 0.37
51 67 0.63
ACGTcount: A:0.32, C:0.24, G:0.18, T:0.25
Consensus pattern (51 bp):
CATAGTAGCCTACACTTAGTACTACACACATGATCGAAGTTAACGGGTACG
Found at i:61545421 original size:101 final size:101
Alignment explanation
Indices: 61545288--61545522 Score: 380
Period size: 101 Copynumber: 2.3 Consensus size: 101
61545278 CTGGTACACG
** * *
61545288 TAGTAGCCTACACTTAGTACTGTACACATGACTTAACCATCTGATACACATAGTAGCTTGCACTT
1 TAGTAGCCTACACTTAGTACTACACACATGACTTAACCATCTGATACACATAGTAGCCTACACTT
* *
61545353 AGTATTACACACATGATCGAAGTTAACGGGTACGCA
66 AGTACTAAACACATGATCGAAGTTAACGGGTACGCA
* *
61545389 TAGTAGCCTACACTTAGTACTACACACGTGACTTAACCATCTGATACACGTAGTAGCCTACACTT
1 TAGTAGCCTACACTTAGTACTACACACATGACTTAACCATCTGATACACATAGTAGCCTACACTT
*
61545454 AGTACTAAACACGTGATCGAAGTTAACGGGTACGCA
66 AGTACTAAACACATGATCGAAGTTAACGGGTACGCA
*
61545490 TAGTAGCCTGCACTTAGTACTACACACATGACT
1 TAGTAGCCTACACTTAGTACTACACACATGACT
61545523 CACAACGAAT
Statistics
Matches: 123, Mismatches: 11, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
101 123 1.00
ACGTcount: A:0.32, C:0.24, G:0.17, T:0.26
Consensus pattern (101 bp):
TAGTAGCCTACACTTAGTACTACACACATGACTTAACCATCTGATACACATAGTAGCCTACACTT
AGTACTAAACACATGATCGAAGTTAACGGGTACGCA
Found at i:61545466 original size:50 final size:50
Alignment explanation
Indices: 61545236--61545522 Score: 218
Period size: 50 Copynumber: 5.7 Consensus size: 50
61545226 CTCTAGTACG
* * * * * * * *
61545236 CATAGTAGCCTGCATTTAGTACTACACATGCGACCTATCAATCTGGTACA
1 CATAGTAGCCTACACTTAGTACTACACACGTGACTTAACCATCTGATACA
* ** *
61545286 CGTAGTAGCCTACACTTAGTACTGTACACATGACTTAACCATCTGATACA
1 CATAGTAGCCTACACTTAGTACTACACACGTGACTTAACCATCTGATACA
* * * * * ** * * * *
61545336 CATAGTAGCTTGCACTTAGTATTACACACATGA-TCGAAGTTAACGGGTACG
1 CATAGTAGCCTACACTTAGTACTACACACGTGACT-TAA-CCATCTGATACA
61545387 CATAGTAGCCTACACTTAGTACTACACACGTGACTTAACCATCTGATACA
1 CATAGTAGCCTACACTTAGTACTACACACGTGACTTAACCATCTGATACA
* * * ** * * * *
61545437 CGTAGTAGCCTACACTTAGTACTAAACACGTGA-TCGAAGTTAACGGGTACG
1 CATAGTAGCCTACACTTAGTACTACACACGTGACT-TAA-CCATCTGATACA
* *
61545488 CATAGTAGCCTGCACTTAGTACTACACACATGACT
1 CATAGTAGCCTACACTTAGTACTACACACGTGACT
61545523 CACAACGAAT
Statistics
Matches: 182, Mismatches: 49, Indels: 10
0.76 0.20 0.04
Matches are distributed among these distances:
49 2 0.01
50 106 0.58
51 72 0.40
52 2 0.01
ACGTcount: A:0.32, C:0.25, G:0.17, T:0.26
Consensus pattern (50 bp):
CATAGTAGCCTACACTTAGTACTACACACGTGACTTAACCATCTGATACA
Found at i:61545899 original size:19 final size:20
Alignment explanation
Indices: 61545869--61545915 Score: 60
Period size: 19 Copynumber: 2.4 Consensus size: 20
61545859 AAGAACAGGT
61545869 TATATCATCAAAATAATCACA
1 TATAT-ATCAAAATAATCACA
* *
61545890 TA-ATATCAAATTATTCACA
1 TATATATCAAAATAATCACA
61545909 TATATAT
1 TATATAT
61545916 ACTTACAACT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
19 15 0.65
20 6 0.26
21 2 0.09
ACGTcount: A:0.49, C:0.15, G:0.00, T:0.36
Consensus pattern (20 bp):
TATATATCAAAATAATCACA
Found at i:61546193 original size:30 final size:30
Alignment explanation
Indices: 61546136--61546194 Score: 73
Period size: 30 Copynumber: 2.0 Consensus size: 30
61546126 AAAAAATCAT
* *
61546136 ACTTTTACAAATTTACATTTTGACCCCTAA
1 ACTTTCACAAATTTACACTTTGACCCCTAA
* * *
61546166 ACTTTCACATATTTTCACTTTGGCCCCTA
1 ACTTTCACAAATTTACACTTTGACCCCTA
61546195 GGCCTGTAAA
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.27, C:0.27, G:0.05, T:0.41
Consensus pattern (30 bp):
ACTTTCACAAATTTACACTTTGACCCCTAA
Found at i:61548495 original size:30 final size:30
Alignment explanation
Indices: 61548459--61548518 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
61548449 TTCCCGAGCC
*
61548459 TAGGGGCAAAAGTGTAATTATGCAAAAGTT
1 TAGGGGCAAAAATGTAATTATGCAAAAGTT
* *
61548489 TAGGGGCAAAAATGTAATTTTGCCAAAGTT
1 TAGGGGCAAAAATGTAATTATGCAAAAGTT
61548519 CGTATTAAAT
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.38, C:0.08, G:0.25, T:0.28
Consensus pattern (30 bp):
TAGGGGCAAAAATGTAATTATGCAAAAGTT
Found at i:61558491 original size:29 final size:28
Alignment explanation
Indices: 61558425--61558491 Score: 71
Period size: 28 Copynumber: 2.4 Consensus size: 28
61558415 AAGTCTACAT
* * *
61558425 ACATGCATATGGCTCACTAGGTCCAATC
1 ACATTCATATGGCCCACTAGGCCCAATC
* * *
61558453 TCATTGATATGGCCCATTAGGCCCAAATC
1 ACATTCATATGGCCCACTAGGCCC-AATC
61558482 ACATTCATAT
1 ACATTCATAT
61558492 TCATGCTTTC
Statistics
Matches: 30, Mismatches: 8, Indels: 1
0.77 0.21 0.03
Matches are distributed among these distances:
28 18 0.60
29 12 0.40
ACGTcount: A:0.30, C:0.27, G:0.15, T:0.28
Consensus pattern (28 bp):
ACATTCATATGGCCCACTAGGCCCAATC
Found at i:61561270 original size:15 final size:15
Alignment explanation
Indices: 61561250--61561288 Score: 53
Period size: 15 Copynumber: 2.6 Consensus size: 15
61561240 AACCAGGATC
61561250 TCTAAGAT-AGAGAAA
1 TCTAAGATAAG-GAAA
61561265 TCTAAGATAAGGAAA
1 TCTAAGATAAGGAAA
*
61561280 TCCAAGATA
1 TCTAAGATA
61561289 CAATATCATA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 20 0.91
16 2 0.09
ACGTcount: A:0.51, C:0.10, G:0.18, T:0.21
Consensus pattern (15 bp):
TCTAAGATAAGGAAA
Found at i:61563374 original size:25 final size:25
Alignment explanation
Indices: 61563345--61563392 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
61563335 TTATAACATG
* * *
61563345 AAAATGACCGTTTTGCCCCTAGGTA
1 AAAATGACCATTATACCCCTAGGTA
61563370 AAAATGACCATTATACCCCTAGG
1 AAAATGACCATTATACCCCTAGG
61563393 GTTTATGTAT
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:61563495 original size:20 final size:20
Alignment explanation
Indices: 61563429--61563495 Score: 107
Period size: 20 Copynumber: 3.4 Consensus size: 20
61563419 ATTTTGATAA
*
61563429 ACATGGTATGTATGATATGC
1 ACATGATATGTATGATATGC
*
61563449 ACATGACATGTATGATATGC
1 ACATGATATGTATGATATGC
*
61563469 ACATGATATGTATGGTATGC
1 ACATGATATGTATGATATGC
61563489 ACATGAT
1 ACATGAT
61563496 GTATTCATAA
Statistics
Matches: 43, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 43 1.00
ACGTcount: A:0.33, C:0.12, G:0.22, T:0.33
Consensus pattern (20 bp):
ACATGATATGTATGATATGC
Found at i:61563601 original size:24 final size:23
Alignment explanation
Indices: 61563540--61563691 Score: 225
Period size: 24 Copynumber: 6.5 Consensus size: 23
61563530 GAATGGAGGA
61563540 AGTTA-AAAAGGGCTTATGCCCC
1 AGTTATAAAAGGGCTTATGCCCC
*
61563562 AGTTATTAAAGGGCTTATGCCCC
1 AGTTATAAAAGGGCTTATGCCCC
61563585 AGTTATCAAAAGGGCTTATGCCCC
1 AGTTAT-AAAAGGGCTTATGCCCC
*
61563609 AGTTATCAAAAGGGCTTACGCCCC
1 AGTTAT-AAAAGGGCTTATGCCCC
*
61563633 AGTTATTAAAGGGCTTATGCCCC
1 AGTTATAAAAGGGCTTATGCCCC
*
61563656 AGTTATAAAAAGGGCTTTTGCCCC
1 AGTTAT-AAAAGGGCTTATGCCCC
61563680 AGTTATTAAAAG
1 AGTTA-TAAAAG
61563692 AGGCAAGGCC
Statistics
Matches: 119, Mismatches: 7, Indels: 6
0.90 0.05 0.05
Matches are distributed among these distances:
22 5 0.04
23 43 0.36
24 70 0.59
25 1 0.01
ACGTcount: A:0.30, C:0.22, G:0.21, T:0.27
Consensus pattern (23 bp):
AGTTATAAAAGGGCTTATGCCCC
Found at i:61563607 original size:47 final size:47
Alignment explanation
Indices: 61563540--61563691 Score: 227
Period size: 47 Copynumber: 3.2 Consensus size: 47
61563530 GAATGGAGGA
*
61563540 AGTTA-AAAAGGGCTTATGCCCCAGTTAT-TAAAGGGCTTATGCCCC
1 AGTTATAAAAGGGCTTATGCCCCAGTTATAAAAAGGGCTTATGCCCC
* *
61563585 AGTTATCAAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTACGCCCC
1 AGTTAT-AAAAGGGCTTATGCCCCAGTTATAAAAAGGGCTTATGCCCC
* *
61563633 AGTTATTAAAGGGCTTATGCCCCAGTTATAAAAAGGGCTTTTGCCCC
1 AGTTATAAAAGGGCTTATGCCCCAGTTATAAAAAGGGCTTATGCCCC
61563680 AGTTATTAAAAG
1 AGTTA-TAAAAG
61563692 AGGCAAGGCC
Statistics
Matches: 96, Mismatches: 7, Indels: 5
0.89 0.06 0.05
Matches are distributed among these distances:
45 5 0.05
47 65 0.68
48 26 0.27
ACGTcount: A:0.30, C:0.22, G:0.21, T:0.27
Consensus pattern (47 bp):
AGTTATAAAAGGGCTTATGCCCCAGTTATAAAAAGGGCTTATGCCCC
Found at i:61563661 original size:71 final size:71
Alignment explanation
Indices: 61563545--61563691 Score: 258
Period size: 71 Copynumber: 2.1 Consensus size: 71
61563535 GAGGAAGTTA
* *
61563545 AAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCA
1 AAAAGGGCTTACGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATAAAAAGGGCTTATGCCCCA
61563610 GTTATC
66 GTTATC
*
61563616 AAAAGGGCTTACGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATAAAAAGGGCTTTTGCCCCA
1 AAAAGGGCTTACGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATAAAAAGGGCTTATGCCCCA
*
61563681 GTTATT
66 GTTATC
61563687 AAAAG
1 AAAAG
61563692 AGGCAAGGCC
Statistics
Matches: 72, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
71 72 1.00
ACGTcount: A:0.30, C:0.22, G:0.21, T:0.27
Consensus pattern (71 bp):
AAAAGGGCTTACGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATAAAAAGGGCTTATGCCCCA
GTTATC
Found at i:61563939 original size:31 final size:31
Alignment explanation
Indices: 61563904--61563967 Score: 101
Period size: 31 Copynumber: 2.1 Consensus size: 31
61563894 CGTTTACAGT
*
61563904 AAAGGCTTCGGCCCAGTAATATGAAATTTGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
**
61563935 AAAGGCTTCGGCCCAGTGTTATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
61563966 AA
1 AA
61563968 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:61567589 original size:16 final size:16
Alignment explanation
Indices: 61567570--61567601 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
61567560 AATTGTTTTA
61567570 TTACAAAATTTCACTT
1 TTACAAAATTTCACTT
*
61567586 TTACATAATTTCACTT
1 TTACAAAATTTCACTT
61567602 ACTCTATTCT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.34, C:0.19, G:0.00, T:0.47
Consensus pattern (16 bp):
TTACAAAATTTCACTT
Found at i:61568041 original size:150 final size:151
Alignment explanation
Indices: 61567804--61568164 Score: 492
Period size: 150 Copynumber: 2.4 Consensus size: 151
61567794 GAAGCACTCT
* * * *
61567804 GGTAAGCATAGTAGCCTACACTTAGCACTACACATGCGACCTATCAATCTAGTACACATAGTAGC
1 GGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCTATCAATCTGGTACACATAGTAGC
* * * * * *
61567869 CTACACTTAGTACTAAATACGTGAGTTAACCATCTGATATACGTAGTAGCCTGCACTTAGTACTA
66 CTACACTTAGTACTAAACACGTGACTTAACCATCTGATACACGTAGTAGCCTACAATTAATACTA
* * *
61567934 CACACTTGATCGAAGTTAACG
131 CACACGTGATCAAAGTTAACA
* ** * **
61567955 GGTATGTGTAGTAGCCTGCACTTAGTAGTACACATGCGA-CTATCAATCTGGTACATGTAGTAGC
1 GGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCTATCAATCTGGTACACATAGTAGC
* *
61568019 CTGA-ACTTAGTACTACACACGTGACTTAACCATCTGATACATGTAGTAGCCTACAATTAATACT
66 CT-ACACTTAGTACTAAACACGTGACTTAACCATCTGATACACGTAGTAGCCTACAATTAATACT
*
61568083 ACACACGTGATTAAAGTTAACA
130 ACACACGTGATCAAAGTTAACA
*
61568105 GGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCTATCAATTTGGTACACATA
1 GGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCTATCAATCTGGTACACATA
61568165 TGTAATATCC
Statistics
Matches: 180, Mismatches: 28, Indels: 4
0.85 0.13 0.02
Matches are distributed among these distances:
150 129 0.72
151 51 0.28
ACGTcount: A:0.32, C:0.23, G:0.17, T:0.27
Consensus pattern (151 bp):
GGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCTATCAATCTGGTACACATAGTAGC
CTACACTTAGTACTAAACACGTGACTTAACCATCTGATACACGTAGTAGCCTACAATTAATACTA
CACACGTGATCAAAGTTAACA
Found at i:61568134 original size:51 final size:49
Alignment explanation
Indices: 61567812--61568138 Score: 217
Period size: 50 Copynumber: 6.5 Consensus size: 49
61567802 CTGGTAAGCA
* * * * * * **
61567812 TAGTAGCCTACACTTAGCACTACACATGCGACCT-ATCAATCTAGTACACA
1 TAGTAGCCTGCACTTAGTACTACACACGTGA-TTAATCAA-CTGGTACATG
* * * * * * * *
61567862 TAGTAGCCTACACTTAGTACTAAATACGTGAGTTAACCATCTGATATACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGA-TTAATCAACTGGTACATG
* * * * **
61567912 TAGTAGCCTGCACTTAGTACTACACACTTGATCGAAGTTAACGGGTATGTG
1 TAGTAGCCTGCACTTAGTACTACACACGTGAT-TAA-TCAACTGGTACATG
* * * *
61567963 TAGTAGCCTGCACTTAGTAGTACACATGCGACT-ATCAATCTGGTACATG
1 TAGTAGCCTGCACTTAGTACTACACACGTGATTAATCAA-CTGGTACATG
* * * *
61568012 TAGTAGCCTGAACTTAGTACTACACACGTGACTTAACCATCTGATACATG
1 TAGTAGCCTGCACTTAGTACTACACACGTGA-TTAATCAACTGGTACATG
* * * * * ***
61568062 TAGTAGCCTACAATTAATACTACACACGTGATTAAAGTTAACAGGTACGCA
1 TAGTAGCCTGCACTTAGTACTACACACGTGATT-AA-TCAACTGGTACATG
61568113 TAGTAGCCTGCACTTAGTACTACACA
1 TAGTAGCCTGCACTTAGTACTACACA
61568139 TGCGACCTAT
Statistics
Matches: 211, Mismatches: 58, Indels: 15
0.74 0.20 0.05
Matches are distributed among these distances:
48 3 0.01
49 38 0.18
50 101 0.48
51 69 0.33
ACGTcount: A:0.32, C:0.23, G:0.17, T:0.28
Consensus pattern (49 bp):
TAGTAGCCTGCACTTAGTACTACACACGTGATTAATCAACTGGTACATG
Found at i:61569146 original size:93 final size:93
Alignment explanation
Indices: 61568987--61569157 Score: 288
Period size: 93 Copynumber: 1.8 Consensus size: 93
61568977 GGATGGTTGA
* * *
61568987 GCATCCGAACTCGTTGAGTTGAGTTCGAGTTCACCTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGCGAACGCCCGAACTCGTTGAGT
61569052 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
* *
61569080 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGCGAACGCCCGAACTCGTTGAGT
*
61569145 TGAGTCTGAGTTC
66 TGAGTCCGAGTTC
61569158 ACTTAGGGGC
Statistics
Matches: 72, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
93 72 1.00
ACGTcount: A:0.21, C:0.21, G:0.29, T:0.29
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:61569160 original size:46 final size:46
Alignment explanation
Indices: 61568991--61569162 Score: 190
Period size: 46 Copynumber: 3.7 Consensus size: 46
61568981 GGTTGAGCAT
* * * *
61568991 CCGAACTCGTTGAGTTGAGTTCGAGTTCACCTATGGATGCGAATGT
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGC
* * *
61569037 CCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGGC
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAC---GC
61569082 ATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGC
1 --CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGC
* *
61569130 CCGAGCTCGTTGAGTTGAGTCTGAGTTCACTTA
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
61569163 GGGGCGGGTT
Statistics
Matches: 105, Mismatches: 12, Indels: 18
0.78 0.09 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
45 2 0.02
46 58 0.55
47 28 0.27
48 4 0.04
50 4 0.04
51 3 0.03
ACGTcount: A:0.22, C:0.21, G:0.28, T:0.29
Consensus pattern (46 bp):
CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGC
Found at i:61571161 original size:30 final size:30
Alignment explanation
Indices: 61571127--61571185 Score: 82
Period size: 30 Copynumber: 2.0 Consensus size: 30
61571117 CAGAAATCAT
* *
61571127 ACTTTTACAAATTTGCATTTTGACCCCTAA
1 ACTTTCACAAATTTGCACTTTGACCCCTAA
* *
61571157 ACTTTCACATATTTGCACTTTGGCCCCTA
1 ACTTTCACAAATTTGCACTTTGACCCCTA
61571186 GGCTCGTAAA
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.25, C:0.27, G:0.08, T:0.39
Consensus pattern (30 bp):
ACTTTCACAAATTTGCACTTTGACCCCTAA
Found at i:61581024 original size:31 final size:31
Alignment explanation
Indices: 61580947--61581059 Score: 128
Period size: 31 Copynumber: 3.7 Consensus size: 31
61580937 TCAGTCTCAA
*
61580947 CATAT-ACTGGGCCGAAGCC-TTTCATTAA-A
1 CATATCACTGGGCCGAAGCCTTTTCA-TAATT
61580976 CGAT-T-ACTGGGCCGAAGCCTTTTCATAATT
1 C-ATATCACTGGGCCGAAGCCTTTTCATAATT
* *
61581006 CATATCACTGTGCCGAAGCCTTTTCATTATT
1 CATATCACTGGGCCGAAGCCTTTTCATAATT
* *
61581037 CATATCACCGGGCCAAAGCCTTT
1 CATATCACTGGGCCGAAGCCTTT
61581060 ACTGTAAATG
Statistics
Matches: 73, Mismatches: 6, Indels: 8
0.84 0.07 0.09
Matches are distributed among these distances:
29 21 0.29
30 9 0.12
31 43 0.59
ACGTcount: A:0.26, C:0.27, G:0.17, T:0.31
Consensus pattern (31 bp):
CATATCACTGGGCCGAAGCCTTTTCATAATT
Found at i:61581402 original size:11 final size:11
Alignment explanation
Indices: 61581371--61581418 Score: 57
Period size: 11 Copynumber: 4.6 Consensus size: 11
61581361 ATATGAATAC
61581371 ATCATGTGCAT
1 ATCATGTGCAT
*
61581382 ATCA--TACAT
1 ATCATGTGCAT
61581391 ATCATGTGCAT
1 ATCATGTGCAT
*
61581402 ATCATGT-CAA
1 ATCATGTGCAT
61581412 ATCATGT
1 ATCATGT
61581419 ACATCAAAAT
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
9 8 0.25
10 9 0.28
11 15 0.47
ACGTcount: A:0.33, C:0.19, G:0.12, T:0.35
Consensus pattern (11 bp):
ATCATGTGCAT
Found at i:61581498 original size:25 final size:25
Alignment explanation
Indices: 61581454--61581501 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
61581444 CATAATTAAC
* * *
61581454 CCTAGGGGTATAATAGTCATTTTTA
1 CCTAGGGGTAAAACAATCATTTTTA
61581479 CCTAGGGGTAAAACAATCATTTT
1 CCTAGGGGTAAAACAATCATTTT
61581502 CCATATTACA
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:0.31, C:0.15, G:0.19, T:0.35
Consensus pattern (25 bp):
CCTAGGGGTAAAACAATCATTTTTA
Found at i:61586408 original size:30 final size:30
Alignment explanation
Indices: 61586373--61586429 Score: 87
Period size: 30 Copynumber: 1.9 Consensus size: 30
61586363 CAGGCACTTC
*
61586373 TACACGGGTAAACCACACGCCCGTGTGAAG
1 TACACGGGTAAACCACACACCCGTGTGAAG
* *
61586403 TACACGGGTAGACCACACACTCGTGTG
1 TACACGGGTAAACCACACACCCGTGTG
61586430 TCATAGTCGT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.28, C:0.30, G:0.26, T:0.16
Consensus pattern (30 bp):
TACACGGGTAAACCACACACCCGTGTGAAG
Found at i:61589103 original size:29 final size:30
Alignment explanation
Indices: 61589037--61589155 Score: 151
Period size: 29 Copynumber: 4.2 Consensus size: 30
61589027 TACATACATG
*
61589037 CATATGGCCCA-CTAGGCCCAA-TCTTATT
1 CATATGGCCCATCTAGGCCCAATTCATATT
* *
61589065 CAAATGGCCCATCT-GGCCCAGTTCATATT
1 CATATGGCCCATCTAGGCCCAATTCATATT
*
61589094 CTTATGGCCCA-CTAGGCCCAATTCATATT
1 CATATGGCCCATCTAGGCCCAATTCATATT
*
61589123 CATATGGCCCAT-TAGGCCCAAATCATATT
1 CATATGGCCCATCTAGGCCCAATTCATATT
61589152 -ATAT
1 CATAT
61589156 TCATGCTCAC
Statistics
Matches: 79, Mismatches: 8, Indels: 8
0.83 0.08 0.08
Matches are distributed among these distances:
28 22 0.28
29 57 0.72
ACGTcount: A:0.27, C:0.29, G:0.14, T:0.29
Consensus pattern (30 bp):
CATATGGCCCATCTAGGCCCAATTCATATT
Found at i:61591732 original size:40 final size:40
Alignment explanation
Indices: 61591677--61591944 Score: 464
Period size: 40 Copynumber: 6.7 Consensus size: 40
61591667 GAGCATTGGA
61591677 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
61591717 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
* *
61591757 ATATATCCGGGCTATGACCCGAAGGCAATTATGCGAGATG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
*
61591797 ATATATCCGGGCTAAGACCCGAAGGCAATTAAGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
* *
61591837 ATATATCCGGGCTATGACCCGAAGGCAATTATGCAAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
*
61591877 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCAAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
* *
61591917 ATATGTCCGGGTTAAGACCCGAAGGCAA
1 ATATATCCGGGCTAAGACCCGAAGGCAA
61591945 ATGTGTTTGC
Statistics
Matches: 217, Mismatches: 11, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
40 217 1.00
ACGTcount: A:0.31, C:0.20, G:0.27, T:0.22
Consensus pattern (40 bp):
ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
Found at i:61600471 original size:40 final size:40
Alignment explanation
Indices: 61600395--61600660 Score: 437
Period size: 40 Copynumber: 6.7 Consensus size: 40
61600385 GAGCATTGGA
61600395 ATATATCCGGGCTAAGACCCG-AGGCAATTATGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
*
61600434 ATATATCCGGGCTAAGACCCGAAGGCAACTATGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
* *
61600474 ATATATCCGGGCTATGACCCGAAGGCAATTATGCGAGATG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
*
61600514 ATATATCCGGGCTAAGACCCGAAGGCAATTACGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
* *
61600554 ATATATCCGGGCT-TGACCCGAAGGCAATTATGCAAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
*
61600593 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCAAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
* *
61600633 ATATGTCCGGGTTAAGACCCGAAGGCAA
1 ATATATCCGGGCTAAGACCCGAAGGCAA
61600661 ATGTGTTTGC
Statistics
Matches: 212, Mismatches: 13, Indels: 3
0.93 0.06 0.01
Matches are distributed among these distances:
39 57 0.27
40 155 0.73
ACGTcount: A:0.30, C:0.21, G:0.27, T:0.22
Consensus pattern (40 bp):
ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
Found at i:61600606 original size:119 final size:120
Alignment explanation
Indices: 61600395--61600660 Score: 437
Period size: 119 Copynumber: 2.2 Consensus size: 120
61600385 GAGCATTGGA
*
61600395 ATATATCCGGGCTAAGACCCG-AGGCAATTATGCGAGTTGATATATCCGGGCTAAGACCCGAAGG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTACGCGAGTTGATATATCCGGGCTAAGACCCGAAGG
* * *
61600459 CAACTATGCGAGTTGATATATCCGGGCTATGACCCGAAGGCAATTATGCGAGATG
66 CAACTATGCAAGTTGATATATCCGGGCTAAGACCCGAAGGCAATTATGCAAGATG
*
61600514 ATATATCCGGGCTAAGACCCGAAGGCAATTACGCGAGTTGATATATCCGGGCT-TGACCCGAAGG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTACGCGAGTTGATATATCCGGGCTAAGACCCGAAGG
* *
61600578 CAATTATGCAAGTTGATATATCCGGGCTAAGACCCGAAGGCAATTATGCAAGTTG
66 CAACTATGCAAGTTGATATATCCGGGCTAAGACCCGAAGGCAATTATGCAAGATG
* *
61600633 ATATGTCCGGGTTAAGACCCGAAGGCAA
1 ATATATCCGGGCTAAGACCCGAAGGCAA
61600661 ATGTGTTTGC
Statistics
Matches: 137, Mismatches: 9, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
119 107 0.78
120 30 0.22
ACGTcount: A:0.30, C:0.21, G:0.27, T:0.22
Consensus pattern (120 bp):
ATATATCCGGGCTAAGACCCGAAGGCAATTACGCGAGTTGATATATCCGGGCTAAGACCCGAAGG
CAACTATGCAAGTTGATATATCCGGGCTAAGACCCGAAGGCAATTATGCAAGATG
Found at i:61720479 original size:24 final size:25
Alignment explanation
Indices: 61720452--61720502 Score: 95
Period size: 24 Copynumber: 2.1 Consensus size: 25
61720442 CGATCACACT
61720452 ATCCAAAGGACTTTCATCT-GGTAA
1 ATCCAAAGGACTTTCATCTGGGTAA
61720476 ATCCAAAGGACTTTCATCTGGGTAA
1 ATCCAAAGGACTTTCATCTGGGTAA
61720501 AT
1 AT
61720503 GGCTTGTAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
24 19 0.73
25 7 0.27
ACGTcount: A:0.33, C:0.20, G:0.18, T:0.29
Consensus pattern (25 bp):
ATCCAAAGGACTTTCATCTGGGTAA
Found at i:61734938 original size:29 final size:29
Alignment explanation
Indices: 61734896--61734999 Score: 136
Period size: 29 Copynumber: 3.6 Consensus size: 29
61734886 AAACAATTAT
* * * *
61734896 CATGGCCAGGAGCCAAATCATTCGATATG
1 CATGGCCTGAAGCCAAAGCATCCGATATG
61734925 CATGGCCTGAAGCCAAAGCATCCGATATG
1 CATGGCCTGAAGCCAAAGCATCCGATATG
* *
61734954 CATGGCCTAAAGCCAAAGCATCCGATATA
1 CATGGCCTGAAGCCAAAGCATCCGATATG
* *
61734983 CATGGCCCGAAACCAAA
1 CATGGCCTGAAGCCAAA
61735000 TAGGTATAAA
Statistics
Matches: 66, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
29 66 1.00
ACGTcount: A:0.35, C:0.28, G:0.21, T:0.16
Consensus pattern (29 bp):
CATGGCCTGAAGCCAAAGCATCCGATATG
Found at i:61738221 original size:40 final size:40
Alignment explanation
Indices: 61738163--61738380 Score: 271
Period size: 40 Copynumber: 5.5 Consensus size: 40
61738153 TGGACGATAA
* * * *
61738163 CCGGGCTAAGTCCCGAAGGTATTTGCGCTAATTACTAGT-T
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-TAT
*
61738203 CCGGGCTAAGTCCTGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* * * *
61738243 CCGAGCTAAGTCTCGAAGGCAATTGTGTGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
61738283 CCGGGCTAAGTCCCGAAGGCATTGGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* *
61738323 CCGGGCTATGTCCCGAAGGCATTTGAGCGAG-TAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATAT
* *
61738363 CC-GGTTAAATCCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
61738381 TACTTGGCTT
Statistics
Matches: 155, Mismatches: 21, Indels: 5
0.86 0.12 0.03
Matches are distributed among these distances:
39 16 0.10
40 139 0.90
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.27
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:61746313 original size:40 final size:40
Alignment explanation
Indices: 61746256--61746433 Score: 261
Period size: 40 Copynumber: 4.5 Consensus size: 40
61746246 CAGACGATAA
61746256 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* * *
61746296 CTGGGCTAAGTCCCGAAGGTAATTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
61746336 CCGGGCTAAGTCCCGAAGGCATTGGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* *
61746376 CCGGGCTATGTCCCGAAGGCATTTGAGCGAG-TAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATAT
* *
61746416 CC-GGTTAAATCCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
61746434 TACTTGGCTT
Statistics
Matches: 124, Mismatches: 13, Indels: 3
0.89 0.09 0.02
Matches are distributed among these distances:
39 15 0.12
40 109 0.88
ACGTcount: A:0.24, C:0.22, G:0.29, T:0.26
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:61763333 original size:12 final size:12
Alignment explanation
Indices: 61763316--61763342 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
61763306 ATTCCGAAGT
61763316 ATATATATATAC
1 ATATATATATAC
61763328 ATATATATATAC
1 ATATATATATAC
61763340 ATA
1 ATA
61763343 AGTATGCCAT
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:0.52, C:0.07, G:0.00, T:0.41
Consensus pattern (12 bp):
ATATATATATAC
Found at i:61763854 original size:27 final size:27
Alignment explanation
Indices: 61763823--61764000 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
61763813 TAAATTGTAC
61763823 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
61763850 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
61763876 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
61763904 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
61763932 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
61763959 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
61763986 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
61764001 GACTCAATAT
Statistics
Matches: 129, Mismatches: 19, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 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:61763937 original size:82 final size:81
Alignment explanation
Indices: 61763824--61763979 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
61763814 AAATTGTACA
* *
61763824 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
61763888 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
61763905 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
61763970 TGCGAGTTGA
65 TGCGAATTGA
61763980 TTATATAGCA
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 15 0.22
82 51 0.76
83 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:61763991 original size:82 final size:81
Alignment explanation
Indices: 61763820--61764000 Score: 229
Period size: 82 Copynumber: 2.2 Consensus size: 81
61763810 GATTAAATTG
* *
61763820 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
61763885 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
61763901 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
61763965 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
61763983 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
61764001 GACTCAATAT
Statistics
Matches: 84, Mismatches: 14, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
81 18 0.21
82 66 0.79
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:61770780 original size:13 final size:13
Alignment explanation
Indices: 61770762--61770786 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
61770752 CTTCAGTATC
61770762 GACGTATCTTTGT
1 GACGTATCTTTGT
61770775 GACGTATCTTTG
1 GACGTATCTTTG
61770787 CCATGAGTCT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.16, C:0.16, G:0.24, T:0.44
Consensus pattern (13 bp):
GACGTATCTTTGT
Found at i:61772998 original size:32 final size:32
Alignment explanation
Indices: 61772959--61773055 Score: 194
Period size: 32 Copynumber: 3.0 Consensus size: 32
61772949 ACTTATTAAG
61772959 TGTTTACCTATGCTTAGTTGGTGCTCAAGAGC
1 TGTTTACCTATGCTTAGTTGGTGCTCAAGAGC
61772991 TGTTTACCTATGCTTAGTTGGTGCTCAAGAGC
1 TGTTTACCTATGCTTAGTTGGTGCTCAAGAGC
61773023 TGTTTACCTATGCTTAGTTGGTGCTCAAGAGC
1 TGTTTACCTATGCTTAGTTGGTGCTCAAGAGC
61773055 T
1 T
61773056 TGTCGAAGGA
Statistics
Matches: 65, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 65 1.00
ACGTcount: A:0.19, C:0.19, G:0.25, T:0.38
Consensus pattern (32 bp):
TGTTTACCTATGCTTAGTTGGTGCTCAAGAGC
Found at i:61773767 original size:27 final size:27
Alignment explanation
Indices: 61773688--61773767 Score: 115
Period size: 27 Copynumber: 3.0 Consensus size: 27
61773678 CCCTAATTGA
*
61773688 TAAAATGACTATTTTGCCCTTATGTAG
1 TAAAATGACTATTTTGCCCTTATGTGG
* *
61773715 TAAAACGACTGTTTTGCCCTTATGTGG
1 TAAAATGACTATTTTGCCCTTATGTGG
* *
61773742 TAAAATAACTATTTTGCCCCTATGTG
1 TAAAATGACTATTTTGCCCTTATGTG
61773768 ATATATGATT
Statistics
Matches: 46, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
27 46 1.00
ACGTcount: A:0.28, C:0.17, G:0.16, T:0.39
Consensus pattern (27 bp):
TAAAATGACTATTTTGCCCTTATGTGG
Found at i:61774116 original size:18 final size:18
Alignment explanation
Indices: 61774089--61774124 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
61774079 GACTTGCATG
*
61774089 CTGTTTACTGTTACTGCA
1 CTGTTAACTGTTACTGCA
61774107 CTGTTAACTGTTACTGCA
1 CTGTTAACTGTTACTGCA
61774125 ATGGGCCAAG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.19, C:0.22, G:0.17, T:0.42
Consensus pattern (18 bp):
CTGTTAACTGTTACTGCA
Found at i:61782543 original size:27 final size:27
Alignment explanation
Indices: 61782512--61782573 Score: 83
Period size: 26 Copynumber: 2.3 Consensus size: 27
61782502 ATTTACTAAA
61782512 ATACCCCTAAGTATG-AAAATTACCATT
1 ATACCCCTAAG-ATGCAAAATTACCATT
* *
61782539 TTACCCCT-AGGTGCAAAATTACCATT
1 ATACCCCTAAGATGCAAAATTACCATT
61782565 ATACCCCTA
1 ATACCCCTA
61782574 GGGTTAATTT
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
25 2 0.07
26 21 0.70
27 7 0.23
ACGTcount: A:0.35, C:0.27, G:0.08, T:0.29
Consensus pattern (27 bp):
ATACCCCTAAGATGCAAAATTACCATT
Found at i:61782750 original size:27 final size:26
Alignment explanation
Indices: 61782681--61782791 Score: 123
Period size: 27 Copynumber: 4.1 Consensus size: 26
61782671 GGAAGCGTTT
*
61782681 TGGTGGCTATGCCACAAATATTTGTTTC
1 TGGTGGCTATGCCAC-AATATCTG-TTC
61782709 TGGTGGCTATGCCACCAATATCTGTTC
1 TGGTGGCTATGCCA-CAATATCTGTTC
* *
61782736 TGGTGGCTCTACCACAATATCTGTATC
1 TGGTGGCTATGCCACAATATCTGT-TC
* * * *
61782763 TGGTGACTCTGTCACAACATCTGTTC
1 TGGTGGCTATGCCACAATATCTGTTC
61782789 TGG
1 TGG
61782792 CAGCCATGCT
Statistics
Matches: 74, Mismatches: 7, Indels: 6
0.85 0.08 0.07
Matches are distributed among these distances:
26 15 0.20
27 37 0.50
28 21 0.28
29 1 0.01
ACGTcount: A:0.20, C:0.23, G:0.22, T:0.35
Consensus pattern (26 bp):
TGGTGGCTATGCCACAATATCTGTTC
Found at i:61790601 original size:27 final size:26
Alignment explanation
Indices: 61790558--61790645 Score: 113
Period size: 27 Copynumber: 3.3 Consensus size: 26
61790548 TGGAGGAAGC
* *
61790558 GTTCTTGTGGCTATGCCACAAATATCT
1 GTTCTGGTGGCTCTGCCAC-AATATCT
*
61790585 ATTCTGGTGGCTCTGCCACAATATCT
1 GTTCTGGTGGCTCTGCCACAATATCT
* *
61790611 GTATCTGGTGACTCTGTCACAATATCT
1 GT-TCTGGTGGCTCTGCCACAATATCT
61790638 GTTCTGGT
1 GTTCTGGT
61790646 AGTCAAGTTG
Statistics
Matches: 54, Mismatches: 6, Indels: 3
0.86 0.10 0.05
Matches are distributed among these distances:
26 14 0.26
27 40 0.74
ACGTcount: A:0.19, C:0.23, G:0.20, T:0.38
Consensus pattern (26 bp):
GTTCTGGTGGCTCTGCCACAATATCT
Found at i:61791812 original size:27 final size:27
Alignment explanation
Indices: 61791771--61791840 Score: 113
Period size: 27 Copynumber: 2.6 Consensus size: 27
61791761 TTCTAATTGA
*
61791771 TAAAATGATTGTTTTGCCCTTATGTGG
1 TAAAATGACTGTTTTGCCCTTATGTGG
* *
61791798 TAAAATGACTATTTTTCCCTTATGTGG
1 TAAAATGACTGTTTTGCCCTTATGTGG
61791825 TAAAATGACTGTTTTG
1 TAAAATGACTGTTTTG
61791841 GCCTAATGAA
Statistics
Matches: 38, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 38 1.00
ACGTcount: A:0.26, C:0.11, G:0.19, T:0.44
Consensus pattern (27 bp):
TAAAATGACTGTTTTGCCCTTATGTGG
Found at i:61804842 original size:43 final size:42
Alignment explanation
Indices: 61804730--61804879 Score: 126
Period size: 43 Copynumber: 3.5 Consensus size: 42
61804720 CAATGCTAAC
* * *
61804730 GTCCCAGACGTGGTCTTACATGT-AATCAAATATCGATGCCTCT
1 GTCCCAGACATGGTCTTACACGTAAATCAAATAT-GATG-CTAT
* * * *
61804773 GTCCCCGACAAGGTCATATACG-AAATCAAATATGATGCTGAT
1 GTCCCAGACATGGTCTTACACGTAAATCAAATATGATGCT-AT
* *
61804815 GTCCCAGACATGGTCTTACACGTAAATCTCAAAT-CGATGCCAAT
1 GTCCCAGACATGGTCTTACACGTAAA--TCAAATATGATG-CTAT
**
61804859 GTCCCAGATGTGGTCTTACAC
1 GTCCCAGACATGGTCTTACAC
61804880 AAAATCACAT
Statistics
Matches: 86, Mismatches: 15, Indels: 11
0.77 0.13 0.10
Matches are distributed among these distances:
41 2 0.02
42 23 0.27
43 29 0.34
44 25 0.29
45 7 0.08
ACGTcount: A:0.29, C:0.25, G:0.19, T:0.27
Consensus pattern (42 bp):
GTCCCAGACATGGTCTTACACGTAAATCAAATATGATGCTAT
Found at i:61804861 original size:44 final size:44
Alignment explanation
Indices: 61804730--61804879 Score: 121
Period size: 42 Copynumber: 3.5 Consensus size: 44
61804720 CAATGCTAAC
* * * **
61804730 GTCCCAGACGTGGTCTTACATGT-AATC-AAATATCGATGCCTCT
1 GTCCCAGACATGGTCTTACACGTAAATCTCAA-ATCGATGCCAAT
* * * * * **
61804773 GTCCCCGACAAGGTCATATACG-AAA--TCAAATATGATGCTGAT
1 GTCCCAGACATGGTCTTACACGTAAATCTCAAAT-CGATGCCAAT
61804815 GTCCCAGACATGGTCTTACACGTAAATCTCAAATCGATGCCAAT
1 GTCCCAGACATGGTCTTACACGTAAATCTCAAATCGATGCCAAT
**
61804859 GTCCCAGATGTGGTCTTACAC
1 GTCCCAGACATGGTCTTACAC
61804880 AAAATCACAT
Statistics
Matches: 81, Mismatches: 20, Indels: 11
0.72 0.18 0.10
Matches are distributed among these distances:
41 2 0.02
42 26 0.32
43 21 0.26
44 26 0.32
45 6 0.07
ACGTcount: A:0.29, C:0.25, G:0.19, T:0.27
Consensus pattern (44 bp):
GTCCCAGACATGGTCTTACACGTAAATCTCAAATCGATGCCAAT
Found at i:61813094 original size:47 final size:47
Alignment explanation
Indices: 61813023--61813382 Score: 585
Period size: 47 Copynumber: 7.6 Consensus size: 47
61813013 CCCTTCGGGA
* * * *
61813023 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
*
61813070 CCTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
* *
61813117 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
* *
61813164 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
61813211 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATTGGCCATTCGGC
* *
61813260 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
61813307 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATTGGCCATTCGGC
61813356 CTTATCACATATATACACTTTCACATT
1 CTTATCACATATATACACTTTCACATT
61813383 TATTCAAATA
Statistics
Matches: 295, Mismatches: 14, Indels: 8
0.93 0.04 0.03
Matches are distributed among these distances:
47 205 0.69
49 90 0.31
ACGTcount: A:0.29, C:0.30, G:0.08, T:0.33
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
Found at i:61813101 original size:25 final size:25
Alignment explanation
Indices: 61813073--61813151 Score: 76
Period size: 25 Copynumber: 3.3 Consensus size: 25
61813063 ACTCGGCCCT
61813073 ATCACATATATACACTTTCACATTC
1 ATCACATATATACACTTTCACATTC
** * * *
61813098 ATCACAT-T-GGC-CATTCGGCCTT-
1 ATCACATATATACACTTTC-ACATTC
61813120 ATCACATATATACACTTTCACATTC
1 ATCACATATATACACTTTCACATTC
61813145 ATCACAT
1 ATCACAT
61813152 CGGCCATTAG
Statistics
Matches: 39, Mismatches: 10, Indels: 10
0.66 0.17 0.17
Matches are distributed among these distances:
22 11 0.28
23 5 0.13
24 5 0.13
25 18 0.46
ACGTcount: A:0.32, C:0.29, G:0.05, T:0.34
Consensus pattern (25 bp):
ATCACATATATACACTTTCACATTC
Found at i:61813253 original size:96 final size:96
Alignment explanation
Indices: 61813023--61813382 Score: 620
Period size: 96 Copynumber: 3.8 Consensus size: 96
61813013 CCCTTCGGGA
* * * *
61813023 CTTATCACAT-T-TATACACTTTCACATCCATCACGTTGGCCACTCGGCCCTATCACATATATAC
1 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATAC
* *
61813086 ACTTTCACATTCATCACATTGGCCATTCGGC
66 ACTTTCACATTCATCACATCGGCCATTAGGC
* *
61813117 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
1 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATAC
61813180 ACTTTCACATTCATCACATCGGCCATTAGGC
66 ACTTTCACATTCATCACATCGGCCATTAGGC
61813211 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATAC
1 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATAC
61813276 ACTTTCACATTCATCACATCGGCCATTAGGC
66 ACTTTCACATTCATCACATCGGCCATTAGGC
61813307 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATAC
1 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATAC
61813372 ACTTTCACATT
66 ACTTTCACATT
61813383 TATTCAAATA
Statistics
Matches: 252, Mismatches: 10, Indels: 6
0.94 0.04 0.02
Matches are distributed among these distances:
93 1 0.00
94 91 0.36
96 160 0.63
ACGTcount: A:0.29, C:0.30, G:0.08, T:0.33
Consensus pattern (96 bp):
CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATAC
ACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:61813279 original size:143 final size:141
Alignment explanation
Indices: 61813023--61813382 Score: 621
Period size: 143 Copynumber: 2.5 Consensus size: 141
61813013 CCCTTCGGGA
* * * * *
61813023 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGCCCTATCACATATATACAC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATACAC
61813088 TTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATACACTTTCACATTCATCACATC
66 TTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATACACTTTCACATTCATCACATC
61813153 GGCCATTAGGC
131 GGCCATTAGGC
* *
61813164 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCAC--ATATATAC
61813229 ACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATACACTTTCACATTCATCACA
64 ACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATACACTTTCACATTCATCACA
61813294 TCGGCCATTAGGC
129 TCGGCCATTAGGC
61813307 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATAC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATAC
61813372 ACTTTCACATT
64 ACTTTCACATT
61813383 TATTCAAATA
Statistics
Matches: 206, Mismatches: 9, Indels: 6
0.93 0.04 0.03
Matches are distributed among these distances:
141 48 0.23
143 113 0.55
145 45 0.22
ACGTcount: A:0.29, C:0.30, G:0.08, T:0.33
Consensus pattern (141 bp):
CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATACAC
TTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATACACTTTCACATTCATCACATC
GGCCATTAGGC
Found at i:61815570 original size:12 final size:12
Alignment explanation
Indices: 61815553--61815578 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
61815543 CATTCCGAAG
61815553 TATATATATACA
1 TATATATATACA
61815565 TATATATATACA
1 TATATATATACA
61815577 TA
1 TA
61815579 AGTATGCCCA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.50, C:0.08, G:0.00, T:0.42
Consensus pattern (12 bp):
TATATATATACA
Found at i:61816109 original size:27 final size:28
Alignment explanation
Indices: 61816025--61816122 Score: 135
Period size: 27 Copynumber: 3.5 Consensus size: 28
61816015 CATGAGATTG
* * * *
61816025 GCACTAAGTGTGCGGGTTTAAATTGTACA
1 GCACTAAGTGTGCGAGTTT-GATTATATA
61816054 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
61816082 GCACTAAGTGTGCGAG-TTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
61816109 GCACTGAGTGTGCG
1 GCACTAAGTGTGCG
61816123 GACTTAATAT
Statistics
Matches: 64, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
27 24 0.38
28 22 0.34
29 18 0.28
ACGTcount: A:0.27, C:0.13, G:0.29, T:0.32
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATATA
Found at i:61816133 original size:27 final size:27
Alignment explanation
Indices: 61816053--61816135 Score: 96
Period size: 27 Copynumber: 3.0 Consensus size: 27
61816043 TAAATTGTAC
* *
61816053 AGCACTAAGTGTGCGAGTTTGATTATAT
1 AGCACTAAGTGTGCGA-CTTGAATATAT
* *
61816081 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGACTTGAATATAT
*
61816108 AGCACTGAGTGTGCGGACTT-AATATAT
1 AGCACTAAGTGTGC-GACTTGAATATAT
61816135 A
1 A
61816136 CTTTTGAATC
Statistics
Matches: 50, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
27 30 0.60
28 20 0.40
ACGTcount: A:0.30, C:0.12, G:0.25, T:0.33
Consensus pattern (27 bp):
AGCACTAAGTGTGCGACTTGAATATAT
Found at i:61819561 original size:43 final size:42
Alignment explanation
Indices: 61819489--61819657 Score: 135
Period size: 43 Copynumber: 4.0 Consensus size: 42
61819479 AGGAAGATTG
* * ** *
61819489 TACAATGCTAATGTCCCAAACGTGGTCTTACATGTAATCAAA
1 TACAATGCCAATGTCCCAGACAAGGTCTTACATGAAATCAAA
* ** * *
61819531 TATCGATGCCTCTGTCCCCGACAAGGTCTTATATGAAATCAAA
1 TA-CAATGCCAATGTCCCAGACAAGGTCTTACATGAAATCAAA
*
61819574 TACAATGCCAATGTCCCAGACATGGTCTTACACAT-AAATCTCAAA
1 TACAATGCCAATGTCCCAGACAAGGTCTT--ACATGAAA--TCAAA
* * ***
61819619 T-CGATGCCAATGTCCCATATGTGGTCTTACATGAAATCA
1 TACAATGCCAATGTCCCAGACAAGGTCTTACATGAAATCA
61819658 CATATCGAAA
Statistics
Matches: 101, Mismatches: 20, Indels: 13
0.75 0.15 0.10
Matches are distributed among these distances:
41 3 0.03
42 28 0.28
43 38 0.38
44 26 0.26
45 6 0.06
ACGTcount: A:0.33, C:0.24, G:0.15, T:0.28
Consensus pattern (42 bp):
TACAATGCCAATGTCCCAGACAAGGTCTTACATGAAATCAAA
Found at i:61829998 original size:13 final size:13
Alignment explanation
Indices: 61829980--61830005 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
61829970 CATTTTACGC
61829980 GATTAAATCCTTT
1 GATTAAATCCTTT
61829993 GATTAAATCCTTT
1 GATTAAATCCTTT
61830006 TATCAAATTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.08, T:0.46
Consensus pattern (13 bp):
GATTAAATCCTTT
Found at i:61831697 original size:40 final size:40
Alignment explanation
Indices: 61831557--61831745 Score: 193
Period size: 40 Copynumber: 4.7 Consensus size: 40
61831547 CGATATCTCT
* * *
61831557 CACACTAAGTGCCAATACATAGCCGAAGCTATT-ATAATTTCG
1 CACACTAAGTGCC-ATATATAGCCGAAGCTATTCAGAA--TCA
* * * **
61831599 CACACTAAGTGCCTTACATAGCCGAAACTATCTCAGTCTCA
1 CACACTAAGTGCCATATATAGCCGAAGCTAT-TCAGAATCA
* *
61831640 CACACTAAGTGCTATATATAGCCGAAGCTATTCCGAATCA
1 CACACTAAGTGCCATATATAGCCGAAGCTATTCAGAATCA
* * *
61831680 CACACTAAGTGCCATATATAGTCGAAGCTA-TCTTGAATCG
1 CACACTAAGTGCCATATATAGCCGAAGCTATTC-AGAATCA
*
61831720 CACACTAAGTGCCATATATATCCGAA
1 CACACTAAGTGCCATATATAGCCGAA
61831746 TCATCGTCAA
Statistics
Matches: 125, Mismatches: 19, Indels: 8
0.82 0.12 0.05
Matches are distributed among these distances:
39 2 0.02
40 63 0.50
41 45 0.36
42 14 0.11
43 1 0.01
ACGTcount: A:0.34, C:0.26, G:0.14, T:0.25
Consensus pattern (40 bp):
CACACTAAGTGCCATATATAGCCGAAGCTATTCAGAATCA
Found at i:61833948 original size:27 final size:27
Alignment explanation
Indices: 61833917--61834206 Score: 323
Period size: 27 Copynumber: 10.7 Consensus size: 27
61833907 TTATTTTACC
*
61833917 AAATTACCAAAATACCCTTGGTTTGTA
1 AAATTACCAAAATACCCCTGGTTTGTA
* * * *
61833944 AAATTACTAAAATACTCTTGGTTTATA
1 AAATTACCAAAATACCCCTGGTTTGTA
*
61833971 AAATCACCAAAATACCCCTGGTTTGTA
1 AAATTACCAAAATACCCCTGGTTTGTA
* * *
61833998 AAATCACCAAAATACCCTTGGTTTATA
1 AAATTACCAAAATACCCCTGGTTTGTA
61834025 AAATTACCAAAATACCCCTGGTTTGTA
1 AAATTACCAAAATACCCCTGGTTTGTA
61834052 AAATTACCAAAATACCCCTGGTTTGTA
1 AAATTACCAAAATACCCCTGGTTTGTA
*
61834079 AAATTACCAAAATACCCCTAGTTTGTA
1 AAATTACCAAAATACCCCTGGTTTGTA
* ** *
61834106 AAATTACCACAATACCCCTAATTTGTG
1 AAATTACCAAAATACCCCTGGTTTGTA
** ***
61834133 AAATTACTGAAATA-CCCTCGACCTGTA
1 AAATTACCAAAATACCCCT-GGTTTGTA
*** **
61834160 AAATTATTGAAATA-CCCTCGACTTGTA
1 AAATTACCAAAATACCCCT-GGTTTGTA
*
61834187 AAATTACCAAAGTACCCCTG
1 AAATTACCAAAATACCCCTG
61834207 ATTTACAGAA
Statistics
Matches: 231, Mismatches: 30, Indels: 4
0.87 0.11 0.02
Matches are distributed among these distances:
26 4 0.02
27 223 0.97
28 4 0.02
ACGTcount: A:0.38, C:0.22, G:0.10, T:0.30
Consensus pattern (27 bp):
AAATTACCAAAATACCCCTGGTTTGTA
Found at i:61834256 original size:27 final size:27
Alignment explanation
Indices: 61834133--61834258 Score: 87
Period size: 27 Copynumber: 4.7 Consensus size: 27
61834123 CTAATTTGTG
* **
61834133 AAATTACTGAAATACCCTCGACCTGTA
1 AAATTACTGAAATACCCTCGACTTACA
* **
61834160 AAATTATTGAAATACCCTCGACTTGTA
1 AAATTACTGAAATACCCTCGACTTACA
* *
61834187 AAATTAC-CAAAGTACCC-CTGATTTACA
1 AAATTACTGAAA-TACCCTC-GACTTACA
* * ** *
61834214 GAATTAC-CATTTTACCCTCGATTTACA
1 AAATTACTGA-AATACCCTCGACTTACA
61834241 AAATTACTGAAATACCCT
1 AAATTACTGAAATACCCT
61834259 TGTAGGGTAG
Statistics
Matches: 80, Mismatches: 14, Indels: 10
0.77 0.13 0.10
Matches are distributed among these distances:
26 4 0.05
27 74 0.93
28 2 0.03
ACGTcount: A:0.37, C:0.24, G:0.09, T:0.30
Consensus pattern (27 bp):
AAATTACTGAAATACCCTCGACTTACA
Found at i:61834279 original size:27 final size:27
Alignment explanation
Indices: 61834249--61834487 Score: 252
Period size: 27 Copynumber: 8.9 Consensus size: 27
61834239 CAAAATTACT
61834249 GAAATACCCTTGTAGGGTAGAAATACC
1 GAAATACCCTTGTAGGGTAGAAATACC
61834276 GAAATACCCTTGTCA-GGTAGAAATACC
1 GAAATACCCTTGT-AGGGTAGAAATACC
** *
61834303 GAAATACTGTTGTAGGGTAGAAATATC
1 GAAATACCCTTGTAGGGTAGAAATACC
* *
61834330 GAAATACCCCTGTAGGGTA-AAATTACT
1 GAAATACCCTTGTAGGGTAGAAA-TACC
* * * **
61834357 AAAATACCCCTATAGGGTAGACTTACC
1 GAAATACCCTTGTAGGGTAGAAATACC
* *
61834384 AAAATACCCTTGTAGGGTAGAAATATC
1 GAAATACCCTTGTAGGGTAGAAATACC
* * *
61834411 GAAATACCCCTGTAGGGTAGAATTACT
1 GAAATACCCTTGTAGGGTAGAAATACC
* *
61834438 GAAATACTCC-TGTAAGGTAGAATTACC
1 GAAATAC-CCTTGTAGGGTAGAAATACC
* *
61834465 GAGATACCCTTGTGGGGTA-AAAT
1 GAAATACCCTTGTAGGGTAGAAAT
61834488 TACCATTTTA
Statistics
Matches: 177, Mismatches: 29, Indels: 13
0.81 0.13 0.06
Matches are distributed among these distances:
26 9 0.05
27 164 0.93
28 4 0.02
ACGTcount: A:0.36, C:0.18, G:0.21, T:0.25
Consensus pattern (27 bp):
GAAATACCCTTGTAGGGTAGAAATACC
Found at i:61834336 original size:81 final size:79
Alignment explanation
Indices: 61834249--61834487 Score: 293
Period size: 81 Copynumber: 3.0 Consensus size: 79
61834239 CAAAATTACT
* * * **
61834249 GAAATACCCTTGTAGGGTAGAAATACCGAAATACCCTTGTCAGGTAGAAATACCGAAATACTGTT
1 GAAATACCCCTGTAGGGTAGAAATACTGAAATACCC-TGT-AGGTAGAATTACCGAAATACCCTT
61834314 GTAGGGTAGAAATATC
64 GTAGGGTAGAAATATC
* * * *
61834330 GAAATACCCCTGTAGGGTA-AAATTACTAAAATACCCCTATAGGGTAGACTTACCAAAATACCCT
1 GAAATACCCCTGTAGGGTAGAAA-TACTGAAATA-CCCTGTA-GGTAGAATTACCGAAATACCCT
61834394 TGTAGGGTAGAAATATC
63 TGTAGGGTAGAAATATC
* *
61834411 GAAATACCCCTGTAGGGTAGAATTACTGAAATACTCCTGTAAGGTAGAATTACCGAGATACCCTT
1 GAAATACCCCTGTAGGGTAGAAATACTGAAATAC-CCTGT-AGGTAGAATTACCGAAATACCCTT
*
61834476 GTGGGGTA-AAAT
64 GTAGGGTAGAAAT
61834488 TACCATTTTA
Statistics
Matches: 136, Mismatches: 16, Indels: 13
0.82 0.10 0.08
Matches are distributed among these distances:
80 9 0.07
81 121 0.89
82 6 0.04
ACGTcount: A:0.36, C:0.18, G:0.21, T:0.25
Consensus pattern (79 bp):
GAAATACCCCTGTAGGGTAGAAATACTGAAATACCCTGTAGGTAGAATTACCGAAATACCCTTGT
AGGGTAGAAATATC
Found at i:61835041 original size:6 final size:6
Alignment explanation
Indices: 61835010--61835076 Score: 57
Period size: 6 Copynumber: 10.8 Consensus size: 6
61835000 TTGCATTCAC
* *
61835010 ATTCTG ATTTTG ATTCTG -TTACCTG ATACTG ATTCTG ATTCTG ATTCTG
1 ATTCTG ATTCTG ATTCTG ATT--CTG ATTCTG ATTCTG ATTCTG ATTCTG
*
61835059 -TCACCTG ATTCTG ATTCT
1 AT--TCTG ATTCTG ATTCT
61835077 AGTTTTGATA
Statistics
Matches: 49, Mismatches: 6, Indels: 12
0.73 0.09 0.18
Matches are distributed among these distances:
5 3 0.06
6 38 0.78
7 6 0.12
8 2 0.04
ACGTcount: A:0.18, C:0.19, G:0.15, T:0.48
Consensus pattern (6 bp):
ATTCTG
Found at i:61835045 original size:31 final size:31
Alignment explanation
Indices: 61835010--61835085 Score: 109
Period size: 31 Copynumber: 2.5 Consensus size: 31
61835000 TTGCATTCAC
*
61835010 ATTCTGATTTTGATTCTGTTACCTGATACTG
1 ATTCTGATTTTGATTCTGTCACCTGATACTG
* *
61835041 ATTCTGATTCTGATTCTGTCACCTGATTCTG
1 ATTCTGATTTTGATTCTGTCACCTGATACTG
61835072 ATTCT-AGTTTTGAT
1 ATTCTGA-TTTTGAT
61835086 AATGTTTCTT
Statistics
Matches: 40, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
30 1 0.03
31 39 0.98
ACGTcount: A:0.18, C:0.17, G:0.16, T:0.49
Consensus pattern (31 bp):
ATTCTGATTTTGATTCTGTCACCTGATACTG
Found at i:61839034 original size:40 final size:40
Alignment explanation
Indices: 61838940--61839084 Score: 193
Period size: 40 Copynumber: 3.6 Consensus size: 40
61838930 TACTCGAATG
*
61838940 ATATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGCGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCT-AGCGACT
* *
61838981 ACATCCGGACTAAGAT-CCGAAGGCATTTGTGCTAGCGACT
1 ATATCCGGGCTAAG-TCCCGAAGGCATTTGTGCTAGCGACT
* * *
61839021 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGACC
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGCGACT
* *
61839061 ATATCCGGGTTAAGACCCGAAGGC
1 ATATCCGGGCTAAGTCCCGAAGGC
61839085 CTTGTGCGAG
Statistics
Matches: 92, Mismatches: 10, Indels: 5
0.86 0.09 0.05
Matches are distributed among these distances:
39 1 0.01
40 62 0.67
41 28 0.30
42 1 0.01
ACGTcount: A:0.26, C:0.25, G:0.26, T:0.23
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGCGACT
Found at i:61847055 original size:40 final size:40
Alignment explanation
Indices: 61846961--61847105 Score: 193
Period size: 40 Copynumber: 3.6 Consensus size: 40
61846951 TACTCGAATG
*
61846961 ATATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGCGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCT-AGCGACT
* *
61847002 ACATCCGGACTAAGAT-CCGAAGGCATTTGTGCTAGCGACT
1 ATATCCGGGCTAAG-TCCCGAAGGCATTTGTGCTAGCGACT
* * *
61847042 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGACC
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGCGACT
* *
61847082 ATATCCGGGTTAAGACCCGAAGGC
1 ATATCCGGGCTAAGTCCCGAAGGC
61847106 CTTGTGCGAG
Statistics
Matches: 92, Mismatches: 10, Indels: 5
0.86 0.09 0.05
Matches are distributed among these distances:
39 1 0.01
40 62 0.67
41 28 0.30
42 1 0.01
ACGTcount: A:0.26, C:0.25, G:0.26, T:0.23
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGCGACT
Found at i:61869190 original size:35 final size:38
Alignment explanation
Indices: 61869147--61869231 Score: 106
Period size: 38 Copynumber: 2.3 Consensus size: 38
61869137 AAGTTATCAA
*
61869147 GTCTTACCCGCGACAAAATCT-C-CAACAC-GT-ATCGG
1 GTCTTACCCG-GACAAAACCTCCACAACACAGTCATCGG
* *
61869182 GTCTTACCCGGACATAACCTCCACAACGCAGTCATCGG
1 GTCTTACCCGGACAAAACCTCCACAACACAGTCATCGG
61869220 GTCTTACCCGGA
1 GTCTTACCCGGA
61869232 TAATATTTCC
Statistics
Matches: 43, Mismatches: 3, Indels: 5
0.84 0.06 0.10
Matches are distributed among these distances:
34 8 0.19
35 11 0.26
36 5 0.12
37 2 0.05
38 17 0.40
ACGTcount: A:0.26, C:0.35, G:0.19, T:0.20
Consensus pattern (38 bp):
GTCTTACCCGGACAAAACCTCCACAACACAGTCATCGG
Found at i:61869501 original size:47 final size:50
Alignment explanation
Indices: 61869378--61869513 Score: 199
Period size: 50 Copynumber: 2.8 Consensus size: 50
61869368 GCACATCGCC
*
61869378 TACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCCATA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCCA-A
* * *
61869429 TATATATTTCACATGA-CCATTCGGCTTTACCACATATGCATATCT-C-A
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCCAA
61869476 TACATA-TTCACATTAGCCATTCGGCTTTACCACATATA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATA
61869514 TGCATGTTCA
Statistics
Matches: 77, Mismatches: 7, Indels: 6
0.86 0.08 0.07
Matches are distributed among these distances:
46 8 0.10
47 27 0.35
49 1 0.01
50 28 0.36
51 13 0.17
ACGTcount: A:0.31, C:0.27, G:0.07, T:0.35
Consensus pattern (50 bp):
TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCCAA
Found at i:61869542 original size:47 final size:46
Alignment explanation
Indices: 61869491--61869653 Score: 206
Period size: 47 Copynumber: 3.5 Consensus size: 46
61869481 ATTCACATTA
* * * *
61869491 GCCATTCGGCTTTACCACATATATGCATGTTCATATTCACCATATTG
1 GCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCA-ATTG
* *
61869538 GCCA-TCGGCC-TATCACACATATGCATGCCTCACATTCATCAATTG
1 GCCATTCGGCCTTATCACATATATGCATG-TTCACATTCATCAATTG
61869583 GCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCACACTTG
1 GCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCA-A-TTG
*
61869631 G-CATTCGGCCTTATCTCATATAT
1 GCCATTCGGCCTTATCACATATAT
61869654 TACACATTCA
Statistics
Matches: 102, Mismatches: 9, Indels: 10
0.84 0.07 0.08
Matches are distributed among these distances:
45 23 0.23
46 33 0.32
47 42 0.41
48 4 0.04
ACGTcount: A:0.25, C:0.29, G:0.13, T:0.33
Consensus pattern (46 bp):
GCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCAATTG
Found at i:61876412 original size:93 final size:95
Alignment explanation
Indices: 61876247--61876419 Score: 255
Period size: 93 Copynumber: 1.8 Consensus size: 95
61876237 GGATGGTTGA
* * * *
61876247 GCATTCGAACTCGTTGATTGAGTCCGAGTTCACTTTAATGGATGCGAATGTCCGACACTCGTTGA
1 GCATCCGAACTCGTTGATTGAGTCCGAGTTCACTTTAATGGATGCGAACGCCCGACACTCATTGA
61876312 GTTGAGT-CGAGTTCGTGAAATGTAACTAG
66 GTTGAGTCCGAGTTCGTGAAATGTAACTAG
*
61876341 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCAC-TT-ATGGATGCGAACGCCCGA-GCTCAATT
1 GCATCCGAACTCGTTGA-TTGAGTCCGAGTTCACTTTAATGGATGCGAACGCCCGACACTC-ATT
61876403 GAGTTGAGTCCGAGTTC
64 GAGTTGAGTCCGAGTTC
61876420 ACTTATGGGC
Statistics
Matches: 71, Mismatches: 5, Indels: 6
0.87 0.06 0.07
Matches are distributed among these distances:
92 3 0.04
93 27 0.38
94 25 0.35
95 16 0.23
ACGTcount: A:0.23, C:0.21, G:0.27, T:0.29
Consensus pattern (95 bp):
GCATCCGAACTCGTTGATTGAGTCCGAGTTCACTTTAATGGATGCGAACGCCCGACACTCATTGA
GTTGAGTCCGAGTTCGTGAAATGTAACTAG
Found at i:61883308 original size:40 final size:40
Alignment explanation
Indices: 61883214--61883358 Score: 184
Period size: 40 Copynumber: 3.6 Consensus size: 40
61883204 TACTCGAATG
*
61883214 ATATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGCGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCT-AGCGACT
* *
61883255 ACATCCGGACTAAGAT-CCGAAGGCATTTGTGCTAGCGACT
1 ATATCCGGGCTAAG-TCCCGAAGGCATTTGTGCTAGCGACT
* ** *
61883295 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTTACC
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGCGACT
* *
61883335 ATATCCGGGTTAAGACCCGAAGGC
1 ATATCCGGGCTAAGTCCCGAAGGC
61883359 CTTGTGCGAG
Statistics
Matches: 91, Mismatches: 11, Indels: 5
0.85 0.10 0.05
Matches are distributed among these distances:
39 1 0.01
40 61 0.67
41 28 0.31
42 1 0.01
ACGTcount: A:0.26, C:0.25, G:0.26, T:0.24
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGCGACT
Found at i:61885246 original size:15 final size:16
Alignment explanation
Indices: 61885226--61885255 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
61885216 AAATATTTTA
61885226 CAATCATAA-CTTACT
1 CAATCATAATCTTACT
61885241 CAATCATAATCTTAC
1 CAATCATAATCTTAC
61885256 CGAGGGTTCA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 9 0.64
16 5 0.36
ACGTcount: A:0.40, C:0.27, G:0.00, T:0.33
Consensus pattern (16 bp):
CAATCATAATCTTACT
Found at i:61885481 original size:43 final size:42
Alignment explanation
Indices: 61885428--61885580 Score: 157
Period size: 42 Copynumber: 3.6 Consensus size: 42
61885418 TACCATACCA
* *
61885428 ATGCCATATCCCAAATATGGTCTTACATG-GGATCTCATATCG
1 ATGCCATATCCCAAATATGGTCTTACAAGAAG-TCTCATATCG
** * * *
61885470 ATGCCAATATCCCAGCTATGGTATTACAAAAAGTCTCTTATCG
1 ATGCC-ATATCCCAAATATGGTCTTACAAGAAGTCTCATATCG
* * *
61885513 ATGCCATATCCC-AGTGATGGTCTTACACGAAGTCTCATATAG
1 ATGCCATATCCCAAAT-ATGGTCTTACAAGAAGTCTCATATCG
* *
61885555 ATGCCATATCCTAGATATGGTCTTAC
1 ATGCCATATCCCAAATATGGTCTTAC
61885581 CCATAGTCTT
Statistics
Matches: 90, Mismatches: 17, Indels: 8
0.78 0.15 0.07
Matches are distributed among these distances:
41 1 0.01
42 54 0.60
43 34 0.38
44 1 0.01
ACGTcount: A:0.29, C:0.24, G:0.16, T:0.31
Consensus pattern (42 bp):
ATGCCATATCCCAAATATGGTCTTACAAGAAGTCTCATATCG
Found at i:61895767 original size:42 final size:42
Alignment explanation
Indices: 61895657--61895811 Score: 141
Period size: 42 Copynumber: 3.7 Consensus size: 42
61895647 TACCATACCA
* * * * * *
61895657 ATGCCATATCCTAGATATGGTGTTACA-TAGGATCTCGTATCG
1 ATGCCATATCCCAGATATGGTCTTACACGAAG-TCTCATATAG
* * * * *
61895699 ATGCCAATAACCCAGCTATGGTCTTACATGAAGTCTCTTATCG
1 ATGCC-ATATCCCAGATATGGTCTTACACGAAGTCTCATATAG
** *
61895742 ATTTCATATCCCAGATATGGCCTTACACGAAGTCTCATATAG
1 ATGCCATATCCCAGATATGGTCTTACACGAAGTCTCATATAG
* *
61895784 ATGCCATATCCCGGATTTGGTCTTACAC
1 ATGCCATATCCCAGATATGGTCTTACAC
61895812 ATAGTCTTAG
Statistics
Matches: 91, Mismatches: 20, Indels: 4
0.79 0.17 0.03
Matches are distributed among these distances:
42 59 0.65
43 30 0.33
44 2 0.02
ACGTcount: A:0.27, C:0.24, G:0.17, T:0.32
Consensus pattern (42 bp):
ATGCCATATCCCAGATATGGTCTTACACGAAGTCTCATATAG
Found at i:61898755 original size:19 final size:20
Alignment explanation
Indices: 61898726--61898766 Score: 57
Period size: 19 Copynumber: 2.1 Consensus size: 20
61898716 AGTTATAAGT
61898726 ATATATATGTGAATAATTTG
1 ATATATATGTGAATAATTTG
* *
61898746 ATAT-TATGTGATTATTTTG
1 ATATATATGTGAATAATTTG
61898765 AT
1 AT
61898767 GGTATAACCT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
19 15 0.79
20 4 0.21
ACGTcount: A:0.34, C:0.00, G:0.15, T:0.51
Consensus pattern (20 bp):
ATATATATGTGAATAATTTG
Found at i:61900814 original size:20 final size:20
Alignment explanation
Indices: 61900781--61900855 Score: 102
Period size: 20 Copynumber: 3.9 Consensus size: 20
61900771 ATACGTGGGA
61900781 TATGATAT--ACATGA-ATG
1 TATGATATGCACATGATATG
61900798 ATATGATATGCACATGATATG
1 -TATGATATGCACATGATATG
*
61900819 TATGATATGCATATGATATG
1 TATGATATGCACATGATATG
*
61900839 TATGAAATGCACATGAT
1 TATGATATGCACATGAT
61900856 GTAATCATAA
Statistics
Matches: 51, Mismatches: 3, Indels: 4
0.88 0.05 0.07
Matches are distributed among these distances:
18 8 0.16
20 40 0.78
21 3 0.06
ACGTcount: A:0.39, C:0.08, G:0.19, T:0.35
Consensus pattern (20 bp):
TATGATATGCACATGATATG
Found at i:61900816 original size:11 final size:11
Alignment explanation
Indices: 61900798--61900855 Score: 61
Period size: 11 Copynumber: 5.6 Consensus size: 11
61900788 TACATGAATG
61900798 ATATGATATGC
1 ATATGATATGC
*
61900809 ACATGATATG-
1 ATATGATATGC
61900819 -TATGATATGC
1 ATATGATATGC
61900829 ATATGATATG-
1 ATATGATATGC
*
61900839 -TATGAAATGC
1 ATATGATATGC
*
61900849 ACATGAT
1 ATATGAT
61900856 GTAATCATAA
Statistics
Matches: 38, Mismatches: 5, Indels: 8
0.75 0.10 0.16
Matches are distributed among these distances:
9 16 0.42
11 22 0.58
ACGTcount: A:0.38, C:0.09, G:0.19, T:0.34
Consensus pattern (11 bp):
ATATGATATGC
Found at i:61900950 original size:26 final size:26
Alignment explanation
Indices: 61900905--61901061 Score: 223
Period size: 26 Copynumber: 6.2 Consensus size: 26
61900895 GAGGAAGTGC
*
61900905 AAAAGGGC-TATGCCCTAGTTTATTG
1 AAAAGGGCTTATGCCCCAGTTTATTG
**
61900930 AAAAGGGCTTATGCCCCAGTTTACCG
1 AAAAGGGCTTATGCCCCAGTTTATTG
* *
61900956 AAAAGGGCTCATGCCCTAGTTTATTG
1 AAAAGGGCTTATGCCCCAGTTTATTG
61900982 AAAAGGGCTTATGCCCCAGTTTATTG
1 AAAAGGGCTTATGCCCCAGTTTATTG
**
61901008 AAAAGGGCTTATGCCCCAGTTTACCG
1 AAAAGGGCTTATGCCCCAGTTTATTG
61901034 AAAAGGGCTT-TGCCCCAG-TTATT-
1 AAAAGGGCTTATGCCCCAGTTTATTG
61901057 AAAAG
1 AAAAG
61901062 ACGCTAGGCC
Statistics
Matches: 118, Mismatches: 13, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
23 5 0.04
24 3 0.03
25 16 0.14
26 94 0.80
ACGTcount: A:0.29, C:0.21, G:0.23, T:0.27
Consensus pattern (26 bp):
AAAAGGGCTTATGCCCCAGTTTATTG
Found at i:61905103 original size:79 final size:82
Alignment explanation
Indices: 61904986--61905170 Score: 229
Period size: 79 Copynumber: 2.3 Consensus size: 82
61904976 GCTACTCGTT
* * *
61904986 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAATTGCCTTCGAGA-CTTAACCC
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCG-GATCTTAACCC
* *
61905049 GGATTTAGTAAC-TCGCA
65 GGATATAGTAACTTAGCA
* **
61905066 CAAATGCCTTCGGG-CTTAGCCCGGAAT-TAGTATCTCGCACAAATGCCTTCGGATCTTAGTCCG
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCG
* *
61905129 GATATGGTCACTTAGCA
66 GATATAGTAACTTAGCA
61905146 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
61905171 CATCATTCAA
Statistics
Matches: 91, Mismatches: 10, Indels: 8
0.83 0.09 0.07
Matches are distributed among these distances:
78 2 0.02
79 55 0.60
80 34 0.37
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (82 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCG
GATATAGTAACTTAGCA
Found at i:61905170 original size:40 final size:40
Alignment explanation
Indices: 61904967--61905170 Score: 220
Period size: 40 Copynumber: 5.1 Consensus size: 40
61904957 CAGAATTTAA
** *
61904967 CCGGATATAGCT-ACTCGTTCAAATGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
* * * *
61905007 CCGGTTATAGTAACTCGCACAATTGCCTTCGAGACTTAAC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
*
61905047 CCGGATTTAGTAACTCGCACAAATGCCTTCGGG-CTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
61905086 CCGGA-ATTAGTATCTCGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
* * *
61905126 CCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGC
1 CCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGC
61905166 CCGGA
1 CCGGA
61905171 CATCATTCAA
Statistics
Matches: 137, Mismatches: 20, Indels: 14
0.80 0.12 0.08
Matches are distributed among these distances:
38 2 0.01
39 33 0.24
40 90 0.66
41 12 0.09
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.25
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:61912091 original size:20 final size:20
Alignment explanation
Indices: 61912066--61912132 Score: 91
Period size: 20 Copynumber: 3.4 Consensus size: 20
61912056 GATATGATGT
61912066 ACATGA-ATGATATGATATGC
1 ACATGATATG-TATGATATGC
*
61912086 ACATGATATGTATGATACGC
1 ACATGATATGTATGATATGC
* *
61912106 ATATGATATGTATGAAATGC
1 ACATGATATGTATGATATGC
61912126 ACATGAT
1 ACATGAT
61912133 GTAATCATTA
Statistics
Matches: 41, Mismatches: 5, Indels: 2
0.85 0.10 0.04
Matches are distributed among these distances:
20 38 0.93
21 3 0.07
ACGTcount: A:0.39, C:0.10, G:0.19, T:0.31
Consensus pattern (20 bp):
ACATGATATGTATGATATGC
Found at i:61912093 original size:11 final size:11
Alignment explanation
Indices: 61912075--61912132 Score: 52
Period size: 11 Copynumber: 5.6 Consensus size: 11
61912065 TACATGAATG
61912075 ATATGATATGC
1 ATATGATATGC
*
61912086 ACATGATATG-
1 ATATGATATGC
*
61912096 -TATGATACGC
1 ATATGATATGC
61912106 ATATGATATG-
1 ATATGATATGC
*
61912116 -TATGAAATGC
1 ATATGATATGC
*
61912126 ACATGAT
1 ATATGAT
61912133 GTAATCATTA
Statistics
Matches: 36, Mismatches: 7, Indels: 8
0.71 0.14 0.16
Matches are distributed among these distances:
9 15 0.42
11 21 0.58
ACGTcount: A:0.38, C:0.10, G:0.19, T:0.33
Consensus pattern (11 bp):
ATATGATATGC
Found at i:61912224 original size:26 final size:26
Alignment explanation
Indices: 61912182--61912330 Score: 203
Period size: 26 Copynumber: 5.8 Consensus size: 26
61912172 GAGGAAGTGC
*
61912182 AAAAGGGC-TATGCCCCAGTTTATTG
1 AAAAGGGCTTATGCCCCAGTTTACTG
*
61912207 AAAAGGGCTTATGCCCCAGTTTACCG
1 AAAAGGGCTTATGCCCCAGTTTACTG
* * *
61912233 AAAAGGGCTTATGCCCTAGTTCATTG
1 AAAAGGGCTTATGCCCCAGTTTACTG
*
61912259 AAAAGGACTTATGCCCCAGTTTACTG
1 AAAAGGGCTTATGCCCCAGTTTACTG
* *
61912285 AAAGGGGCTTATGCCCCAGTTTACCG
1 AAAAGGGCTTATGCCCCAGTTTACTG
*
61912311 ACAAGGGCTT-TGCCCCAGTT
1 AAAAGGGCTTATGCCCCAGTT
61912331 ATTAAAAGAG
Statistics
Matches: 108, Mismatches: 15, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
25 18 0.17
26 90 0.83
ACGTcount: A:0.26, C:0.24, G:0.23, T:0.26
Consensus pattern (26 bp):
AAAAGGGCTTATGCCCCAGTTTACTG
Found at i:61912310 original size:78 final size:74
Alignment explanation
Indices: 61912182--61912338 Score: 233
Period size: 78 Copynumber: 2.1 Consensus size: 74
61912172 GAGGAAGTGC
* *
61912182 AAAAGGGCTATGCCCCAGTTTATTGAAAAGGGCTTATGCCCCAGTTTACCGAAAAGGGCTTATGC
1 AAAAGGACTATGCCCCAGTTTACTGAAAAGGGCTTATGCCCCAGTTTACCGAAAAGGGCTT-TGC
*
61912247 CCTAGTTCATT
65 CCCAGTT-ATT
* *
61912258 GAAAAGGACTTATGCCCCAGTTTACTGAAAGGGGCTTATGCCCCAGTTTACCGACAAGGGCTTTG
1 -AAAAGGAC-TATGCCCCAGTTTACTGAAAAGGGCTTATGCCCCAGTTTACCGAAAAGGGCTTTG
61912323 CCCCAGTTATT
64 CCCCAGTTATT
61912334 AAAAG
1 AAAAG
61912339 AGGCTAGGCC
Statistics
Matches: 74, Mismatches: 5, Indels: 4
0.89 0.06 0.05
Matches are distributed among these distances:
75 5 0.07
76 3 0.04
77 16 0.22
78 50 0.68
ACGTcount: A:0.28, C:0.23, G:0.23, T:0.26
Consensus pattern (74 bp):
AAAAGGACTATGCCCCAGTTTACTGAAAAGGGCTTATGCCCCAGTTTACCGAAAAGGGCTTTGCC
CCAGTTATT
Found at i:61913579 original size:50 final size:50
Alignment explanation
Indices: 61913406--61913791 Score: 299
Period size: 50 Copynumber: 7.7 Consensus size: 50
61913396 GGTCACGTGC
* * * * * **
61913406 GTAGTACTAAGTACAGGCTACTACGTGTACCAGATTGATAGGTCGCATGT
1 GTAGTACTAAGTGCAGGCTACTATGTGTACCAGATGGTTAAGTCATATGT
* ** * * *** **
61913456 GTAGTACTAAGTGCAGGCTATTATGCATACCCGTTAACTCCGATCACT-TGT
1 GTAGTACTAAGTGCAGGCTACTATGTGTACCAGATGGTTAAG-TCA-TATGT
* * * * *
61913507 GTAGTACTAAGTGTAGTCTACTATGTGTATCAGATGGTTAAGTCACATAT
1 GTAGTACTAAGTGCAGGCTACTATGTGTACCAGATGGTTAAGTCATATGT
* * * * * *
61913557 GTAATACTAAGTGCAGGGTACTACGTGTACCAGATTGATAGGTCATATGT
1 GTAGTACTAAGTGCAGGCTACTATGTGTACCAGATGGTTAAGTCATATGT
* * * ** * *
61913607 GTAGTACTAAGTGCAGGCTACTATGCGTACCCGTTAACTT-CGATCATGTGT
1 GTAGTACTAAGTGCAGGCTACTATGTGTACCAGAT-GGTTAAG-TCATATGT
* * *
61913658 GTAGTACTAAGTGTAGGCTACTATGTGTATCAGATGGTTAAGTCATGTGT
1 GTAGTACTAAGTGCAGGCTACTATGTGTACCAGATGGTTAAGTCATATGT
* * * * * * * **
61913708 GTAGTAATAAGTGCAGGCTACTACGTGTGCCAAATTGATAGGTCGCATGT
1 GTAGTACTAAGTGCAGGCTACTATGTGTACCAGATGGTTAAGTCATATGT
61913758 GTAGTACTAAGTGCAGGCTACTATGTGTACCAGA
1 GTAGTACTAAGTGCAGGCTACTATGTGTACCAGA
61913792 GAGCTTCAGT
Statistics
Matches: 255, Mismatches: 75, Indels: 12
0.75 0.22 0.04
Matches are distributed among these distances:
50 182 0.71
51 73 0.29
ACGTcount: A:0.27, C:0.17, G:0.25, T:0.31
Consensus pattern (50 bp):
GTAGTACTAAGTGCAGGCTACTATGTGTACCAGATGGTTAAGTCATATGT
Found at i:61913671 original size:151 final size:151
Alignment explanation
Indices: 61913410--61913788 Score: 598
Period size: 151 Copynumber: 2.5 Consensus size: 151
61913400 ACGTGCGTAG
*
61913410 TACTAAGTACAGGCTACTACGTGTACCAGATTGATAGGTCGCATGTGTAGTACTAAGTGCAGGCT
1 TACTAAGTGCAGGCTACTACGTGTACCAGATTGATAGGTCGCATGTGTAGTACTAAGTGCAGGCT
* * *
61913475 ATTATGCATACCCGTTAACTCCGATCACTTGTGTAGTACTAAGTGTAGTCTACTATGTGTATCAG
66 ACTATGCGTACCCGTTAACTCCGATCACTTGTGTAGTACTAAGTGTAGGCTACTATGTGTATCAG
61913540 ATGGTTAAGTCACATATGTAA
131 ATGGTTAAGTCACATATGTAA
* **
61913561 TACTAAGTGCAGGGTACTACGTGTACCAGATTGATAGGTCATATGTGTAGTACTAAGTGCAGGCT
1 TACTAAGTGCAGGCTACTACGTGTACCAGATTGATAGGTCGCATGTGTAGTACTAAGTGCAGGCT
*
61913626 ACTATGCGTACCCGTTAACTTCGATCA-TGTGTGTAGTACTAAGTGTAGGCTACTATGTGTATCA
66 ACTATGCGTACCCGTTAACTCCGATCACT-TGTGTAGTACTAAGTGTAGGCTACTATGTGTATCA
** * *
61913690 GATGGTTAAGTCATGTGTGTAG
130 GATGGTTAAGTCACATATGTAA
* * *
61913712 TAATAAGTGCAGGCTACTACGTGTGCCAAATTGATAGGTCGCATGTGTAGTACTAAGTGCAGGCT
1 TACTAAGTGCAGGCTACTACGTGTACCAGATTGATAGGTCGCATGTGTAGTACTAAGTGCAGGCT
*
61913777 ACTATGTGTACC
66 ACTATGCGTACC
61913789 AGAGAGCTTC
Statistics
Matches: 208, Mismatches: 19, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
150 1 0.00
151 207 1.00
ACGTcount: A:0.27, C:0.17, G:0.25, T:0.31
Consensus pattern (151 bp):
TACTAAGTGCAGGCTACTACGTGTACCAGATTGATAGGTCGCATGTGTAGTACTAAGTGCAGGCT
ACTATGCGTACCCGTTAACTCCGATCACTTGTGTAGTACTAAGTGTAGGCTACTATGTGTATCAG
ATGGTTAAGTCACATATGTAA
Found at i:61917329 original size:15 final size:14
Alignment explanation
Indices: 61917309--61917353 Score: 54
Period size: 15 Copynumber: 3.1 Consensus size: 14
61917299 TATGATATTG
61917309 TATCTTGGATTTCT
1 TATCTTGGATTTCT
*
61917323 CTATCTTGGACTTCT
1 -TATCTTGGATTTCT
*
61917338 TAATCTTGGTTTTCT
1 T-ATCTTGGATTTCT
61917353 T
1 T
61917354 GTTATCTATA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
14 1 0.04
15 25 0.96
ACGTcount: A:0.13, C:0.18, G:0.13, T:0.56
Consensus pattern (14 bp):
TATCTTGGATTTCT
Found at i:61920378 original size:50 final size:50
Alignment explanation
Indices: 61920313--61920554 Score: 252
Period size: 50 Copynumber: 4.8 Consensus size: 50
61920303 TTCATTGTGA
* * *
61920313 GTCACGTGTGTAGTACTAAGTGCAGGCTACAACGTGTACCAGATTGATAG
1 GTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAAATTGATAG
* * * * * *
61920363 GTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACC-CATTAACTTCG
1 GTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAAATTGA--TAG
* * * ** * * * * *
61920414 ATCACGTGTGTAGTAATAAGTTTAGGCTACTACGTGTATCATATGGTTAA
1 GTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAAATTGATAG
*
61920464 GTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAAATTGATAG
1 GTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAAATTGATAG
* * *
61920514 GTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCA
1 GTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCA
61920555 GAAAGCTTTG
Statistics
Matches: 153, Mismatches: 36, Indels: 6
0.78 0.18 0.03
Matches are distributed among these distances:
49 4 0.03
50 114 0.75
51 33 0.22
52 2 0.01
ACGTcount: A:0.27, C:0.19, G:0.25, T:0.29
Consensus pattern (50 bp):
GTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAAATTGATAG
Found at i:61920489 original size:101 final size:101
Alignment explanation
Indices: 61920314--61920495 Score: 265
Period size: 101 Copynumber: 1.8 Consensus size: 101
61920304 TCATTGTGAG
* * * *
61920314 TCACGTGTGTAGTACTAAGTGCAGGCTACAACGTGTACCAGATTGATAGGTCGCATGTGTAGTAC
1 TCACGTGTGTAGTAATAAGTGCAGGCTACAACGTGTACCAGATGGATAAGTCACATGTGTAGTAC
61920379 TAAGTGCAGGCTACTATGCGTACCCATTAACTTCGA
66 TAAGTGCAGGCTACTATGCGTACCCATTAACTTCGA
** * * * * *
61920415 TCACGTGTGTAGTAATAAGTTTAGGCTACTACGTGTATCATATGGTTAAGTCACGTGTGTAGTAC
1 TCACGTGTGTAGTAATAAGTGCAGGCTACAACGTGTACCAGATGGATAAGTCACATGTGTAGTAC
61920480 TAAGTGCAGGCTACTA
66 TAAGTGCAGGCTACTA
61920496 CGTGTACCAA
Statistics
Matches: 70, Mismatches: 11, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
101 70 1.00
ACGTcount: A:0.27, C:0.18, G:0.25, T:0.30
Consensus pattern (101 bp):
TCACGTGTGTAGTAATAAGTGCAGGCTACAACGTGTACCAGATGGATAAGTCACATGTGTAGTAC
TAAGTGCAGGCTACTATGCGTACCCATTAACTTCGA
Found at i:61926341 original size:47 final size:48
Alignment explanation
Indices: 61926208--61926346 Score: 172
Period size: 48 Copynumber: 2.9 Consensus size: 48
61926198 TACCACGGTT
* ** *
61926208 ATACGTGTAACGTGGTGCTAAGTGGATATACCACAATTACACATATTG
1 ATACATGTAACGTGGTGCTAAGTGGATATACCACGGTTACACATATTA
* * *
61926256 ATACATGTAACGTGGTGCTAAGTGGATATGCCATGGTTACATATATTA
1 ATACATGTAACGTGGTGCTAAGTGGATATACCACGGTTACACATATTA
* ** *
61926304 ATTCAT-TAACGTGGTGCTAAGCCGATATACCACGGTTAAACAT
1 ATACATGTAACGTGGTGCTAAGTGGATATACCACGGTTACACAT
61926347 GTAACGTGGT
Statistics
Matches: 77, Mismatches: 14, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
47 31 0.40
48 46 0.60
ACGTcount: A:0.32, C:0.17, G:0.21, T:0.30
Consensus pattern (48 bp):
ATACATGTAACGTGGTGCTAAGTGGATATACCACGGTTACACATATTA
Found at i:61926362 original size:38 final size:38
Alignment explanation
Indices: 61926310--61926386 Score: 109
Period size: 38 Copynumber: 2.0 Consensus size: 38
61926300 ATTAATTCAT
61926310 TAACGTGGTGCTAAGCCGATATACCACGGTTAAACATG
1 TAACGTGGTGCTAAGCCGATATACCACGGTTAAACATG
* ** * *
61926348 TAACGTGGTTCTAAGTGGATATGCCACGGTTATACATG
1 TAACGTGGTGCTAAGCCGATATACCACGGTTAAACATG
61926386 T
1 T
61926387 TAATTTGAAA
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
38 34 1.00
ACGTcount: A:0.29, C:0.18, G:0.25, T:0.29
Consensus pattern (38 bp):
TAACGTGGTGCTAAGCCGATATACCACGGTTAAACATG
Found at i:61929652 original size:15 final size:15
Alignment explanation
Indices: 61929632--61929673 Score: 66
Period size: 15 Copynumber: 2.8 Consensus size: 15
61929622 GCTATAAATG
61929632 GGATTTCCTTATCAT
1 GGATTTCCTTATCAT
* *
61929647 GGATTTCTTTATCTT
1 GGATTTCCTTATCAT
61929662 GGATTTCCTTAT
1 GGATTTCCTTAT
61929674 TCTGGGCTTC
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 24 1.00
ACGTcount: A:0.17, C:0.17, G:0.14, T:0.52
Consensus pattern (15 bp):
GGATTTCCTTATCAT
Found at i:61932578 original size:38 final size:38
Alignment explanation
Indices: 61932527--61932841 Score: 261
Period size: 38 Copynumber: 8.0 Consensus size: 38
61932517 ATTGATTCAT
61932527 TAACGTGGTGCTAAGTGGATATACCACGGTTAAACATG
1 TAACGTGGTGCTAAGTGGATATACCACGGTTAAACATG
* * *
61932565 TAACGTGGTGCTAAGTGGATATGCCACGATTAAACATA
1 TAACGTGGTGCTAAGTGGATATACCACGGTTAAACATG
* * *
61932603 TAACGTGGTGCTAAGTGGATATGCCATGGTTACATATATTG
1 TAACGTGGTGCTAAGTGGATATACCACGGTTA-A-ACA-TG
* *
61932644 ATCCATTAATGTGGTGCTAAGTGGATA-ATTCA---TT---CAT-
1 ------TAACGTGGTGCTAAGTGGATATA-CCACGGTTAAACATG
*
61932681 TAACGTTGTGCTAAGTGGATATACCACGGTTAAACATG
1 TAACGTGGTGCTAAGTGGATATACCACGGTTAAACATG
* * *
61932719 TAACGTGGTGCTAAATGGATATTCCACGGTTACATATATTG
1 TAACGTGGTGCTAAGTGGATATACCACGGTTA-A-ACA-TG
61932760 ATTCATTAACGTGGTGCTAAGTGGATATACCACGGTTAAACATG
1 ------TAACGTGGTGCTAAGTGGATATACCACGGTTAAACATG
* * *
61932804 TAACG-GGTACTAAGTGGATATGCCACGGTTATACATG
1 TAACGTGGTGCTAAGTGGATATACCACGGTTAAACATG
61932841 T
1 T
61932842 TAATTTGAAA
Statistics
Matches: 226, Mismatches: 24, Indels: 55
0.74 0.08 0.18
Matches are distributed among these distances:
31 21 0.09
32 1 0.00
34 2 0.01
37 33 0.15
38 100 0.44
39 3 0.01
40 4 0.02
41 3 0.01
44 4 0.02
45 2 0.01
46 1 0.00
47 52 0.23
ACGTcount: A:0.30, C:0.15, G:0.24, T:0.31
Consensus pattern (38 bp):
TAACGTGGTGCTAAGTGGATATACCACGGTTAAACATG
Found at i:61932585 original size:85 final size:84
Alignment explanation
Indices: 61932475--61932834 Score: 290
Period size: 85 Copynumber: 4.4 Consensus size: 84
61932465 ACATATTGAT
61932475 ACATGTAACGTGGTGCTAAGTGGATATGCCACGGTTACATATATTGATTCATTAACGTGGTGCTA
1 ACATGTAACGTGGTGCTAAGTGGATATGCCACGGTTACATATATTGATTCA-TAACGTGGTGCTA
61932540 AGTGGATATACCACGGTTAA
65 AGTGGATATACCACGGTTAA
* *
61932560 ACATGTAACGTGGTGCTAAGTGGATATGCCACGATT--A-A-A--CA-T-ATAACGTGGTGCTAA
1 ACATGTAACGTGGTGCTAAGTGGATATGCCACGGTTACATATATTGATTCATAACGTGGTGCTAA
* *
61932617 GTGGATATGCCATGGTTACA
66 GTGGATATACCACGGTTA-A
* * * *
61932637 TATATTGATCCATTAATGTGGTGCTAAGTGGATAAT-TCA---TT-CAT-TAACGTTG-TGC-TA
1 -ACA-TG------TAACGTGGTGCTAAGTGGAT-ATGCCACGGTTACATAT-A--TTGATTCATA
61932694 A-GT-G-G---A-----TATACCACGGTTAA
54 ACGTGGTGCTAAGTGGATATACCACGGTTAA
* *
61932714 ACATGTAACGTGGTGCTAAATGGATATTCCACGGTTACATATATTGATTCATTAACGTGGTGCTA
1 ACATGTAACGTGGTGCTAAGTGGATATGCCACGGTTACATATATTGATTCA-TAACGTGGTGCTA
61932779 AGTGGATATACCACGGTTAA
65 AGTGGATATACCACGGTTAA
*
61932799 ACATGTAACG-GGTACTAAGTGGATATGCCACGGTTA
1 ACATGTAACGTGGTGCTAAGTGGATATGCCACGGTTA
61932835 TACATGTTAA
Statistics
Matches: 216, Mismatches: 19, Indels: 81
0.68 0.06 0.26
Matches are distributed among these distances:
68 2 0.01
69 20 0.09
71 3 0.01
72 4 0.02
73 4 0.02
74 4 0.02
75 4 0.02
76 33 0.15
77 4 0.02
78 14 0.06
79 3 0.01
80 1 0.00
81 1 0.00
82 3 0.01
83 3 0.01
84 23 0.11
85 81 0.38
86 3 0.01
87 1 0.00
88 2 0.01
89 3 0.01
ACGTcount: A:0.30, C:0.15, G:0.24, T:0.31
Consensus pattern (84 bp):
ACATGTAACGTGGTGCTAAGTGGATATGCCACGGTTACATATATTGATTCATAACGTGGTGCTAA
GTGGATATACCACGGTTAA
Found at i:61932751 original size:116 final size:120
Alignment explanation
Indices: 61932475--61932841 Score: 487
Period size: 116 Copynumber: 3.0 Consensus size: 120
61932465 ACATATTGAT
61932475 ACATGTAACGTGGTGCTAAGTGGATATGCCACGGTTACATATATTGATTCATTAACGTGGTGCTA
1 ACATGTAACGTGGTGCTAAGTGGATATGCCACGGTTACATATATTGATTCATTAACGTGGTGCTA
*
61932540 AGTGGAT-ATACCACGGTTAAACATGTAACGTGGTGCTAAGTGGATATGCCACGATTAA
66 AGTGGATAATACCA--GTT--ACATGTAACGTGGTGCTAAGTGGATATACCACGATTAA
* * * *
61932598 ACATATAACGTGGTGCTAAGTGGATATGCCATGGTTACATATATTGATCCATTAATGTGGTGCTA
1 ACATGTAACGTGGTGCTAAGTGGATATGCCACGGTTACATATATTGATTCATTAACGTGGTGCTA
* * *
61932663 AGTGGATAAT-TCA-TT-CAT-TAACGTTGTGCTAAGTGGATATACCACGGTTAA
66 AGTGGATAATACCAGTTACATGTAACGTGGTGCTAAGTGGATATACCACGATTAA
* *
61932714 ACATGTAACGTGGTGCTAAATGGATATTCCACGGTTACATATATTGATTCATTAACGTGGTGCTA
1 ACATGTAACGTGGTGCTAAGTGGATATGCCACGGTTACATATATTGATTCATTAACGTGGTGCTA
* * * *
61932779 AGTGGAT-ATACCACGGTTAAACATGTAACG-GGTACTAAGTGGATATGCCACGGTTAT
66 AGTGGATAATACCA--GTT--ACATGTAACGTGGTGCTAAGTGGATATACCACGATTAA
61932836 ACATGT
1 ACATGT
61932842 TAATTTGAAA
Statistics
Matches: 216, Mismatches: 19, Indels: 19
0.85 0.07 0.07
Matches are distributed among these distances:
115 2 0.01
116 98 0.45
117 3 0.01
119 2 0.01
120 2 0.01
122 32 0.15
123 75 0.35
124 2 0.01
ACGTcount: A:0.30, C:0.15, G:0.24, T:0.31
Consensus pattern (120 bp):
ACATGTAACGTGGTGCTAAGTGGATATGCCACGGTTACATATATTGATTCATTAACGTGGTGCTA
AGTGGATAATACCAGTTACATGTAACGTGGTGCTAAGTGGATATACCACGATTAA
Found at i:61932817 original size:37 final size:38
Alignment explanation
Indices: 61932766--61932841 Score: 118
Period size: 37 Copynumber: 2.0 Consensus size: 38
61932756 ATTGATTCAT
*
61932766 TAACGTGGTGCTAAGTGGATATACCACGGTTAAACATG
1 TAACGTGGTACTAAGTGGATATACCACGGTTAAACATG
* *
61932804 TAACG-GGTACTAAGTGGATATGCCACGGTTATACATG
1 TAACGTGGTACTAAGTGGATATACCACGGTTAAACATG
61932841 T
1 T
61932842 TAATTTGAAA
Statistics
Matches: 35, Mismatches: 3, Indels: 1
0.90 0.08 0.03
Matches are distributed among these distances:
37 30 0.86
38 5 0.14
ACGTcount: A:0.30, C:0.16, G:0.26, T:0.28
Consensus pattern (38 bp):
TAACGTGGTACTAAGTGGATATACCACGGTTAAACATG
Found at i:61934064 original size:58 final size:57
Alignment explanation
Indices: 61933990--61934100 Score: 141
Period size: 58 Copynumber: 1.9 Consensus size: 57
61933980 TGAATGTGAC
* * * * *
61933990 TGGGCCTAACGGGCCATATAAATGTGATTTGGGCCTAATGGGCCATATACAGGTGATT
1 TGGGCCTAACGAGCCATATAAATATGA-ATGGGCCTAATGGGCCAAACACAGGTGATT
* * *
61934048 TGGGCCTAATGAGCCATATGAATATGAATGGGCTTAATGGGCCAAACACAGGT
1 TGGGCCTAACGAGCCATATAAATATGAATGGGCCTAATGGGCCAAACACAGGT
61934101 ATGCGAATTT
Statistics
Matches: 45, Mismatches: 8, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
57 22 0.49
58 23 0.51
ACGTcount: A:0.29, C:0.17, G:0.29, T:0.25
Consensus pattern (57 bp):
TGGGCCTAACGAGCCATATAAATATGAATGGGCCTAATGGGCCAAACACAGGTGATT
Found at i:61934091 original size:28 final size:29
Alignment explanation
Indices: 61933977--61934091 Score: 128
Period size: 29 Copynumber: 4.0 Consensus size: 29
61933967 GTTAGCATGA
* *
61933977 ATATGAATGTGA-CTGGGCCTAACGGGCC
1 ATATGAATGTGATTTGGGCCTAATGGGCC
*
61934005 ATATAAATGTGATTTGGGCCTAATGGGCC
1 ATATGAATGTGATTTGGGCCTAATGGGCC
* *
61934034 ATAT-ACAGGTGATTTGGGCCTAATGAGCC
1 ATATGA-ATGTGATTTGGGCCTAATGGGCC
* * *
61934063 ATATGAATATGA-ATGGGCTTAATGGGCC
1 ATATGAATGTGATTTGGGCCTAATGGGCC
61934091 A
1 A
61934092 AACACAGGTA
Statistics
Matches: 74, Mismatches: 10, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
28 26 0.35
29 47 0.64
30 1 0.01
ACGTcount: A:0.29, C:0.16, G:0.29, T:0.27
Consensus pattern (29 bp):
ATATGAATGTGATTTGGGCCTAATGGGCC
Found at i:61937124 original size:20 final size:20
Alignment explanation
Indices: 61937099--61937136 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
61937089 TCAAAATCTT
61937099 AACCTTTAGCTTTGTCTTCG
1 AACCTTTAGCTTTGTCTTCG
61937119 AACCTTTAGCTTTGTCTT
1 AACCTTTAGCTTTGTCTT
61937137 GGATTTCTCA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.16, C:0.24, G:0.13, T:0.47
Consensus pattern (20 bp):
AACCTTTAGCTTTGTCTTCG
Found at i:61941174 original size:20 final size:20
Alignment explanation
Indices: 61941149--61941189 Score: 73
Period size: 20 Copynumber: 2.0 Consensus size: 20
61941139 GAATGATTGG
*
61941149 TTTACTCAATATATCCGAAC
1 TTTACTCAATATATCAGAAC
61941169 TTTACTCAATATATCAGAAC
1 TTTACTCAATATATCAGAAC
61941189 T
1 T
61941190 AACCCGGGTA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.37, C:0.22, G:0.05, T:0.37
Consensus pattern (20 bp):
TTTACTCAATATATCAGAAC
Found at i:61948968 original size:23 final size:23
Alignment explanation
Indices: 61948942--61948998 Score: 114
Period size: 23 Copynumber: 2.5 Consensus size: 23
61948932 TACCCCCTTT
61948942 AAAACTGAACAAAGTAATGAATG
1 AAAACTGAACAAAGTAATGAATG
61948965 AAAACTGAACAAAGTAATGAATG
1 AAAACTGAACAAAGTAATGAATG
61948988 AAAACTGAACA
1 AAAACTGAACA
61948999 CTAGGTACGG
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 34 1.00
ACGTcount: A:0.58, C:0.11, G:0.16, T:0.16
Consensus pattern (23 bp):
AAAACTGAACAAAGTAATGAATG
Found at i:61952536 original size:21 final size:23
Alignment explanation
Indices: 61952485--61952539 Score: 87
Period size: 23 Copynumber: 2.5 Consensus size: 23
61952475 GTTAAACCAA
61952485 CATCAAACTTCCATGTACTATAT
1 CATCAAACTTCCATGTACTATAT
*
61952508 CTTCAAACTTCCATGTAC-A-AT
1 CATCAAACTTCCATGTACTATAT
61952529 CATCAAACTTC
1 CATCAAACTTC
61952540 ATAAAACTCA
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
21 12 0.40
22 1 0.03
23 17 0.57
ACGTcount: A:0.35, C:0.29, G:0.04, T:0.33
Consensus pattern (23 bp):
CATCAAACTTCCATGTACTATAT
Found at i:61959488 original size:42 final size:43
Alignment explanation
Indices: 61959397--61959538 Score: 155
Period size: 44 Copynumber: 3.3 Consensus size: 43
61959387 GTTCCAGGCG
* * * * *
61959397 TGGTCTTACATGTAATCAAATATCGATCCCATTGTCCCAGACA
1 TGGTCTTACACGAAATCAAATATCGATGCTAATGTCCCAGACA
* *
61959440 GGGTCTTACACGAAATCAAATA-CGATGCTGATGTCCCAGACA
1 TGGTCTTACACGAAATCAAATATCGATGCTAATGTCCCAGACA
* *
61959482 TGGTCTTACACGTAAATCATAA-ATCGATG-TCAATGTCCCAAACG
1 TGGTCTTACACG-AAATCA-AATATCGATGCT-AATGTCCCAGACA
61959526 TGGTCTTACACGA
1 TGGTCTTACACGA
61959539 GAACACATAT
Statistics
Matches: 84, Mismatches: 11, Indels: 8
0.82 0.11 0.08
Matches are distributed among these distances:
42 27 0.32
43 28 0.33
44 29 0.35
ACGTcount: A:0.32, C:0.24, G:0.18, T:0.27
Consensus pattern (43 bp):
TGGTCTTACACGAAATCAAATATCGATGCTAATGTCCCAGACA
Found at i:61966066 original size:40 final size:40
Alignment explanation
Indices: 61965968--61966230 Score: 325
Period size: 40 Copynumber: 6.6 Consensus size: 40
61965958 TCCTCGTTCA
* * * * *
61965968 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC-
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* *
61966007 AATGCCTTCGGGACATAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
61966047 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
61966087 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* * *
61966127 AATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* * * * * *
61966167 AAGGCCTTC-GGATCTTAATCCGGATATATTCACTTAGCAC-
1 AATGCCTTCGGGA-CTTAACCCGGATTTAATAAC-TCGCACG
* *
61966207 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
61966231 CAGCATTCAA
Statistics
Matches: 200, Mismatches: 20, Indels: 7
0.88 0.09 0.03
Matches are distributed among these distances:
39 37 0.19
40 155 0.77
41 8 0.04
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.25
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
Found at i:61970884 original size:7 final size:7
Alignment explanation
Indices: 61970874--61970899 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
61970864 AGAAGAGAAT
61970874 GATGAGG
1 GATGAGG
61970881 GATGAGG
1 GATGAGG
61970888 GATGAGG
1 GATGAGG
61970895 GATGA
1 GATGA
61970900 TGAATAAGGG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.31, C:0.00, G:0.54, T:0.15
Consensus pattern (7 bp):
GATGAGG
Found at i:61976781 original size:51 final size:50
Alignment explanation
Indices: 61976712--61976894 Score: 190
Period size: 50 Copynumber: 3.6 Consensus size: 50
61976702 ATGGTTTTAG
*
61976712 GTCACATGTGTAGTACTAAGTGCAAGCTACTACGTGTACCCGATAGCTTCAA
1 GTCACGTGTGTAGTACTAAGTGCAAGCTACTACGTGTACCCGAT-GCTT-AA
* * * *
61976764 -TCACGTGTGTAGTACTAAGTGCAAGCTACTACATGGATCCGATGGTTAA
1 GTCACGTGTGTAGTACTAAGTGCAAGCTACTACGTGTACCCGATGCTTAA
* * * ** *
61976813 GTCACGTGTGTTGTACTAAGTGTAGGCTACTACGTGTACCAC-ATTTTTAG
1 GTCACGTGTGTAGTACTAAGTGCAAGCTACTACGTGTACC-CGATGCTTAA
* * * *
61976863 GTCGCATGTGAAGTACTAAGTGCAGGCTACTA
1 GTCACGTGTGTAGTACTAAGTGCAAGCTACTA
61976895 TGCGTACCAG
Statistics
Matches: 110, Mismatches: 19, Indels: 6
0.81 0.14 0.04
Matches are distributed among these distances:
49 2 0.02
50 68 0.62
51 40 0.36
ACGTcount: A:0.27, C:0.20, G:0.24, T:0.30
Consensus pattern (50 bp):
GTCACGTGTGTAGTACTAAGTGCAAGCTACTACGTGTACCCGATGCTTAA
Found at i:61976842 original size:50 final size:52
Alignment explanation
Indices: 61976712--61976845 Score: 175
Period size: 51 Copynumber: 2.6 Consensus size: 52
61976702 ATGGTTTTAG
* * *
61976712 GTCACATGTGTAGTACTAAGTGCAAGCTACTACGTGTACCCGATAGCTTCAA
1 GTCACGTGTGTAGTACTAAGTGCAAGCTACTACATGGACCCGATAGCTTCAA
* *
61976764 -TCACGTGTGTAGTACTAAGTGCAAGCTACTACATGGATCCGAT-GGTT-AA
1 GTCACGTGTGTAGTACTAAGTGCAAGCTACTACATGGACCCGATAGCTTCAA
* * *
61976813 GTCACGTGTGTTGTACTAAGTGTAGGCTACTAC
1 GTCACGTGTGTAGTACTAAGTGCAAGCTACTAC
61976846 GTGTACCACA
Statistics
Matches: 73, Mismatches: 8, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
49 2 0.03
50 32 0.44
51 39 0.53
ACGTcount: A:0.27, C:0.20, G:0.24, T:0.29
Consensus pattern (52 bp):
GTCACGTGTGTAGTACTAAGTGCAAGCTACTACATGGACCCGATAGCTTCAA
Found at i:61979392 original size:28 final size:28
Alignment explanation
Indices: 61979352--61979415 Score: 101
Period size: 28 Copynumber: 2.3 Consensus size: 28
61979342 TGGGAAGTAG
* *
61979352 TTGGGCCTGATGGGCCATATGAATGTGA
1 TTGGGCCTGATGGGCCATATGAACGAGA
*
61979380 TTGGGCCTGATGGGCCATGTGAACGAGA
1 TTGGGCCTGATGGGCCATATGAACGAGA
61979408 TTGGGCCT
1 TTGGGCCT
61979416 AAAGGGGCCA
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
28 33 1.00
ACGTcount: A:0.19, C:0.17, G:0.38, T:0.27
Consensus pattern (28 bp):
TTGGGCCTGATGGGCCATATGAACGAGA
Found at i:61979762 original size:27 final size:27
Alignment explanation
Indices: 61979732--61980070 Score: 333
Period size: 27 Copynumber: 12.6 Consensus size: 27
61979722 TAACAAAGAG
*
61979732 AAATTACTGAAATACCCCC-AGTTTGTA
1 AAATTACCGAAATACCCCCGA-TTTGTA
* *
61979759 AAATTATCGAAGTACCCCCGATTTGTA
1 AAATTACCGAAATACCCCCGATTTGTA
* *
61979786 AAATTACCAAAATACCCCTGATTTGTA
1 AAATTACCGAAATACCCCCGATTTGTA
* *
61979813 AAATTACCGAAATACCCTCGA-TTGTG
1 AAATTACCGAAATACCCCCGATTTGTA
*** * **
61979839 AAATTATTAAAAAACCCTTGATTTGTA
1 AAATTACCGAAATACCCCCGATTTGTA
* * * *
61979866 AAATTACCAAAATACCCTC-AATTGTG
1 AAATTACCGAAATACCCCCGATTTGTA
* *
61979892 AAATTACTGAAATACCCTCGATTTGTA
1 AAATTACCGAAATACCCCCGATTTGTA
** * *
61979919 AAATTACTAAAATACCCTCAATTTGTA
1 AAATTACCGAAATACCCCCGATTTGTA
* **
61979946 AAATTACCGAAACACCCTTGATTTGTA
1 AAATTACCGAAATACCCCCGATTTGTA
* **
61979973 AAATTACCAAAATACCTTCGATTTGTA
1 AAATTACCGAAATACCCCCGATTTGTA
* **
61980000 AAATTACCGAAATATCCTTGATTTGTA
1 AAATTACCGAAATACCCCCGATTTGTA
**
61980027 AAATTACCGAAATACCCCTTATTTGTA
1 AAATTACCGAAATACCCCCGATTTGTA
*
61980054 AAATTACTGAAATACCC
1 AAATTACCGAAATACCC
61980071 TTTGTAGTAT
Statistics
Matches: 263, Mismatches: 46, Indels: 6
0.83 0.15 0.02
Matches are distributed among these distances:
26 42 0.16
27 220 0.84
28 1 0.00
ACGTcount: A:0.39, C:0.20, G:0.09, T:0.31
Consensus pattern (27 bp):
AAATTACCGAAATACCCCCGATTTGTA
Found at i:61979866 original size:53 final size:54
Alignment explanation
Indices: 61979753--61980099 Score: 405
Period size: 54 Copynumber: 6.4 Consensus size: 54
61979743 ATACCCCCAG
* * * * * *
61979753 TTTGTAAAATTATCGAAGTACCCCCGATTTGTAAAATTACCAAAATACCCCTGA
1 TTTGTAAAATTACCAAAATACCCTCGATTTGTAAAATTACCGAAATACCCTTGA
* * *** *
61979807 TTTGTAAAATTACCGAAATACCCTCGA-TTGTGAAATTATTAAAAAACCCTTGA
1 TTTGTAAAATTACCAAAATACCCTCGATTTGTAAAATTACCGAAATACCCTTGA
* * * *
61979860 TTTGTAAAATTACCAAAATACCCTC-AATTGTGAAATTACTGAAATACCCTCGA
1 TTTGTAAAATTACCAAAATACCCTCGATTTGTAAAATTACCGAAATACCCTTGA
* * *
61979913 TTTGTAAAATTACTAAAATACCCTCAATTTGTAAAATTACCGAAACACCCTTGA
1 TTTGTAAAATTACCAAAATACCCTCGATTTGTAAAATTACCGAAATACCCTTGA
* *
61979967 TTTGTAAAATTACCAAAATACCTTCGATTTGTAAAATTACCGAAATATCCTTGA
1 TTTGTAAAATTACCAAAATACCCTCGATTTGTAAAATTACCGAAATACCCTTGA
* * *
61980021 TTTGTAAAATTACCGAAATACCC-CTTATTTGTAAAATTACTGAAATACCCTTTG-
1 TTTGTAAAATTACCAAAATACCCTC-GATTTGTAAAATTACCGAAATACCC-TTGA
* *
61980075 TAGTATAAAATTACCAAAATACCCT
1 T-TTGTAAAATTACCAAAATACCCT
61980100 TGCGGTGTAA
Statistics
Matches: 255, Mismatches: 32, Indels: 10
0.86 0.11 0.03
Matches are distributed among these distances:
52 1 0.00
53 92 0.36
54 140 0.55
55 22 0.09
ACGTcount: A:0.39, C:0.19, G:0.09, T:0.32
Consensus pattern (54 bp):
TTTGTAAAATTACCAAAATACCCTCGATTTGTAAAATTACCGAAATACCCTTGA
Found at i:61980088 original size:28 final size:27
Alignment explanation
Indices: 61979782--61980166 Score: 198
Period size: 27 Copynumber: 14.3 Consensus size: 27
61979772 ACCCCCGATT
* * *
61979782 TGTAAAATTACCAAAATACCCCTG-ATT
1 TGTAAAATTACCGAAATACCCTTGTA-G
* *
61979809 TGTAAAATTACCGAAATACCCTCG-AT
1 TGTAAAATTACCGAAATACCCTTGTAG
* *** * *
61979835 TGTGAAATTATTAAAAAACCCTTG-ATT
1 TGTAAAATTACCGAAATACCCTTGTA-G
* ** *
61979862 TGTAAAATTACCAAAATACCC-TCAAT
1 TGTAAAATTACCGAAATACCCTTGTAG
* * * *
61979888 TGTGAAATTACTGAAATACCCTCG-ATT
1 TGTAAAATTACCGAAATACCCTTGTA-G
** ** *
61979915 TGTAAAATTACTAAAATACCC-TCAATT
1 TGTAAAATTACCGAAATACCCTTGTA-G
* *
61979942 TGTAAAATTACCGAAACACCCTTG-ATT
1 TGTAAAATTACCGAAATACCCTTGTA-G
* *
61979969 TGTAAAATTACCAAAATA-CCTTCG-ATT
1 TGTAAAATTACCGAAATACCCTT-GTA-G
* *
61979996 TGTAAAATTACCGAAATATCCTTG-ATT
1 TGTAAAATTACCGAAATACCCTTGTA-G
* *
61980023 TGTAAAATTACCGAAATACCCCT-TATT
1 TGTAAAATTACCGAAATACCCTTGTA-G
*
61980050 TGTAAAATTACTGAAATACCCTTTGTAG
1 TGTAAAATTACCGAAATACCC-TTGTAG
* * **
61980078 TATAAAATTACCAAAATACCCTTGCGG
1 TGTAAAATTACCGAAATACCCTTGTAG
* * * *
61980105 TGTAAAATAACTGATATACCCCTGTAG
1 TGTAAAATTACCGAAATACCCTTGTAG
* * *
61980132 TGTAAAATGACCGACATACCCCTGTAG
1 TGTAAAATTACCGAAATACCCTTGTAG
*
61980159 GGTAAAAT
1 TGTAAAAT
61980167 GACTGTTTTG
Statistics
Matches: 295, Mismatches: 52, Indels: 22
0.80 0.14 0.06
Matches are distributed among these distances:
26 45 0.15
27 224 0.76
28 24 0.08
29 2 0.01
ACGTcount: A:0.39, C:0.19, G:0.11, T:0.31
Consensus pattern (27 bp):
TGTAAAATTACCGAAATACCCTTGTAG
Found at i:61980150 original size:27 final size:27
Alignment explanation
Indices: 61979732--61980166 Score: 171
Period size: 27 Copynumber: 16.1 Consensus size: 27
61979722 TAACAAAGAG
* * *
61979732 AAATTACTGAAATACCCCCAGT-TTGTA
1 AAATTACCGAAATA-CCCCTGTAGTGTA
* * * *
61979759 AAATTATCGAAGTACCCCCG-ATTTGTA
1 AAATTACCGAAATACCCCTGTA-GTGTA
* *
61979786 AAATTACCAAAATACCCCTG-ATTTGTA
1 AAATTACCGAAATACCCCTGTA-GTGTA
* *
61979813 AAATTACCGAAATA-CCCTCG-ATTGTG
1 AAATTACCGAAATACCCCT-GTAGTGTA
*** * * *
61979839 AAATTATTAAAAAACCCTTG-ATTTGTA
1 AAATTACCGAAATACCCCTGTA-GTGTA
* ** * *
61979866 AAATTACCAAAATA-CCCTCAATTGTG
1 AAATTACCGAAATACCCCTGTAGTGTA
* *
61979892 AAATTACTGAAATA-CCCTCG-ATTTGTA
1 AAATTACCGAAATACCCCT-GTA-GTGTA
** ** *
61979919 AAATTACTAAAATA-CCCTCAATTTGTA
1 AAATTACCGAAATACCCCTGTA-GTGTA
* * *
61979946 AAATTACCGAAACACCCTTG-ATTTGTA
1 AAATTACCGAAATACCCCTGTA-GTGTA
* * *
61979973 AAATTACCAAAATA-CCTTCG-ATTTGTA
1 AAATTACCGAAATACCCCT-GTA-GTGTA
* * *
61980000 AAATTACCGAAATATCCTTG-ATTTGTA
1 AAATTACCGAAATACCCCTGTA-GTGTA
*
61980027 AAATTACCGAAATACCCCT-TATTTGTA
1 AAATTACCGAAATACCCCTGTA-GTGTA
* * *
61980054 AAATTACTGAAATACCCTTTGTAGTATA
1 AAATTACCGAAATACCC-CTGTAGTGTA
* * **
61980082 AAATTACCAAAATACCCTTGCGGTGTA
1 AAATTACCGAAATACCCCTGTAGTGTA
* * *
61980109 AAATAACTGATATACCCCTGTAGTGTA
1 AAATTACCGAAATACCCCTGTAGTGTA
* * *
61980136 AAATGACCGACATACCCCTGTAGGGTA
1 AAATTACCGAAATACCCCTGTAGTGTA
61980163 AAAT
1 AAAT
61980167 GACTGTTTTG
Statistics
Matches: 335, Mismatches: 58, Indels: 30
0.79 0.14 0.07
Matches are distributed among these distances:
26 53 0.16
27 254 0.76
28 26 0.08
29 2 0.01
ACGTcount: A:0.39, C:0.20, G:0.11, T:0.31
Consensus pattern (27 bp):
AAATTACCGAAATACCCCTGTAGTGTA
Found at i:61980164 original size:54 final size:55
Alignment explanation
Indices: 61980023--61980171 Score: 151
Period size: 55 Copynumber: 2.7 Consensus size: 55
61980013 ATCCTTGATT
** * *
61980023 TGTAAAATTACCGAAATACCCCT-TATTTGTAAAATTACTGAAATACCCTTTGTAG
1 TGTAAAATTACCGAAATACCCCTGTA-GGGTAAAATAACTGAAATACCCTCTGTAG
* * * * *
61980078 TATAAAATTACCAAAATACCCTTG-CGGTGTAAAATAACTGATATACCC-CTGTAG
1 TGTAAAATTACCGAAATACCCCTGTAGG-GTAAAATAACTGAAATACCCTCTGTAG
* * *
61980132 TGTAAAATGACCGACATACCCCTGTAGGGTAAAATGACTG
1 TGTAAAATTACCGAAATACCCCTGTAGGGTAAAATAACTG
61980172 TTTTGCCCTT
Statistics
Matches: 75, Mismatches: 16, Indels: 7
0.77 0.16 0.07
Matches are distributed among these distances:
54 35 0.47
55 40 0.53
ACGTcount: A:0.37, C:0.19, G:0.15, T:0.29
Consensus pattern (55 bp):
TGTAAAATTACCGAAATACCCCTGTAGGGTAAAATAACTGAAATACCCTCTGTAG
Found at i:61984851 original size:28 final size:28
Alignment explanation
Indices: 61984818--61984874 Score: 105
Period size: 28 Copynumber: 2.0 Consensus size: 28
61984808 CATGAAAAGG
*
61984818 AAAGGAACAGTAAGTGTCCAAATGAACT
1 AAAGGAACAGTAAGTGACCAAATGAACT
61984846 AAAGGAACAGTAAGTGACCAAATGAACT
1 AAAGGAACAGTAAGTGACCAAATGAACT
61984874 A
1 A
61984875 TGTCATGAAT
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:0.49, C:0.14, G:0.21, T:0.16
Consensus pattern (28 bp):
AAAGGAACAGTAAGTGACCAAATGAACT
Found at i:61988982 original size:40 final size:40
Alignment explanation
Indices: 61988938--61989198 Score: 319
Period size: 40 Copynumber: 6.7 Consensus size: 40
61988928 GCTCCTCGTT
* *
61988938 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAAT-TCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAAT-TAGT-ATCTCGCA
* * *
61988978 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
61989018 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
61989057 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
61989096 CAAATG-CTTC-GG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
* * *
61989133 CAAATGCCTTC-GGATCTTAGTCCGG-ATATGGTCA-CTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGAAT-TAGT-ATC-TCGCA
61989174 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
61989199 CATCATTCAA
Statistics
Matches: 201, Mismatches: 10, Indels: 19
0.87 0.04 0.08
Matches are distributed among these distances:
37 33 0.16
38 10 0.05
39 70 0.35
40 74 0.37
41 14 0.07
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
Found at i:61989130 original size:76 final size:79
Alignment explanation
Indices: 61988938--61989198 Score: 313
Period size: 78 Copynumber: 3.3 Consensus size: 79
61988928 GCTCCTCGTT
* *
61988938 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAAT-TCGCACAAATGCCTTCGGGACTTAACCC
1 CAAATGCCTTCGGG-CTTAGCCCGGAAT-TAGT-ATCTCGCACAAATGCCTTCGGGACTTAACCC
*
61989001 GGATTTAGTAACTCGCA
63 GGAATTAGTAACTCGCA
*
61989018 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCACAAATGCCTTCGGG-CTTAGCCCGGA
1 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCACAAATGCCTTCGGGACTTAACCCGGA
*
61989082 ATTAGTATCTCGCA
66 ATTAGTAACTCGCA
**
61989096 CAAATG-CTTC-GGCTTAGCCCGGAATTAGTATCTCGCACAAATGCCTTC-GGATCTTAGTCCGG
1 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCACAAATGCCTTCGGGA-CTTAACCCGG
* * *
61989158 -ATATGGTCACTTAGCA
65 AAT-TAGTAAC-TCGCA
61989174 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGG-CTTAGCCCGGA
61989199 CATCATTCAA
Statistics
Matches: 162, Mismatches: 10, Indels: 18
0.85 0.05 0.09
Matches are distributed among these distances:
75 2 0.01
76 40 0.25
77 18 0.11
78 42 0.26
79 34 0.21
80 26 0.16
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (79 bp):
CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCACAAATGCCTTCGGGACTTAACCCGGA
ATTAGTAACTCGCA
Found at i:61991330 original size:39 final size:39
Alignment explanation
Indices: 61991178--61991437 Score: 311
Period size: 38 Copynumber: 6.6 Consensus size: 39
61991168 GCTCCTCGTT
* *
61991178 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAAT-TCGCA
1 CAAATGCCTTCGGG-CTTAGCCCGGAAT-TAGT-ATCTCGCA
* * *
61991218 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
61991258 CAAATGCCTTCGGGCTTA-CCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
61991296 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
61991335 C-AATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
* * *
61991373 CAAATGCCTTCGGATCTTAGTCCGGATATT-GTCA-CTTAGCA
1 CAAATGCCTTCGG-GCTTAGCCCGGA-ATTAGT-ATC-TCGCA
61991414 C-AA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGG-CTTAGCCCGGA
61991438 CATCATTCAA
Statistics
Matches: 201, Mismatches: 10, Indels: 19
0.87 0.04 0.08
Matches are distributed among these distances:
38 74 0.37
39 55 0.27
40 61 0.30
41 11 0.05
ACGTcount: A:0.24, C:0.28, G:0.22, T:0.26
Consensus pattern (39 bp):
CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
Found at i:61991358 original size:77 final size:77
Alignment explanation
Indices: 61991180--61991437 Score: 314
Period size: 77 Copynumber: 3.3 Consensus size: 77
61991170 TCCTCGTTCA
* * *
61991180 AATGCCTTCGGGACATAGCCCGG-TTATAGTAAT-TCGCACAAATGCCTTCGGGACTTAACCCGG
1 AATGCCTTCGGGACTTAGCCCGGAAT-TAGT-ATCTCGCACAAATGCCTTCGGG-CTTAGCCCGG
*
61991243 ATTTAGTAACTCGCAC
63 AATTAGT-ACTCGCAC
61991259 AAATGCCTTCGGG-CTTA-CCCGGAATTAGTATCTCGCACAAATGCCTTCGGGCTTAGCCCGGAA
1 -AATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCACAAATGCCTTCGGGCTTAGCCCGGAA
61991322 TTAGTATCTCGCAC
65 TTAGTA-CTCGCAC
* *
61991336 AATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCACAAATGCCTTCGGATCTTAGTCCGGAT
1 AATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCACAAATGCCTTCGG-GCTTAGCCCGGA-
*
61991400 ATT-GTCACTTAGCAC
64 ATTAGT-AC-TCGCAC
61991415 AA-GCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAGCCCGGA
61991438 CATCATTCAA
Statistics
Matches: 162, Mismatches: 7, Indels: 19
0.86 0.04 0.10
Matches are distributed among these distances:
76 17 0.10
77 57 0.35
78 50 0.31
79 26 0.16
80 12 0.07
ACGTcount: A:0.24, C:0.28, G:0.22, T:0.26
Consensus pattern (77 bp):
AATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCACAAATGCCTTCGGGCTTAGCCCGGAAT
TAGTACTCGCAC
Found at i:62001605 original size:40 final size:40
Alignment explanation
Indices: 62001561--62001822 Score: 328
Period size: 39 Copynumber: 6.7 Consensus size: 40
62001551 GCTCCTCGTT
* *
62001561 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAAT-TCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAAT-TAGT-ATCTCGCA
* * *
62001601 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
62001641 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
62001680 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
*
62001719 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGTA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
* *
62001758 CAAATGCCTTC-GGATCTTAGTCCGGATATT-GTCA-CTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGA-ATTAGT-ATC-TCGCA
62001799 C-AA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
62001823 CAGCATTCAA
Statistics
Matches: 203, Mismatches: 11, Indels: 17
0.88 0.05 0.07
Matches are distributed among these distances:
38 2 0.01
39 127 0.63
40 64 0.32
41 10 0.05
ACGTcount: A:0.24, C:0.27, G:0.23, T:0.26
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
Found at i:62004458 original size:19 final size:19
Alignment explanation
Indices: 62004434--62004526 Score: 77
Period size: 19 Copynumber: 5.1 Consensus size: 19
62004424 AATAAATTAC
*
62004434 TCATCTTAGTTAATTGAGT
1 TCATCTTAGTTAATTAAGT
*
62004453 TCATCTTAATTAATTAAGT
1 TCATCTTAGTTAATTAAGT
** * *
62004472 TGC-T-GGAATAAATT-A-T
1 T-CATCTTAGTTAATTAAGT
*
62004488 TCATGTTAGTTAATTAAGT
1 TCATCTTAGTTAATTAAGT
*
62004507 TCATCTTAGTTAATTTAGT
1 TCATCTTAGTTAATTAAGT
62004526 T
1 T
62004527 GCTGGAATAA
Statistics
Matches: 58, Mismatches: 11, Indels: 10
0.73 0.14 0.13
Matches are distributed among these distances:
15 1 0.02
16 3 0.05
17 7 0.12
18 8 0.14
19 38 0.66
20 1 0.02
ACGTcount: A:0.31, C:0.09, G:0.13, T:0.47
Consensus pattern (19 bp):
TCATCTTAGTTAATTAAGT
Found at i:62004467 original size:54 final size:54
Alignment explanation
Indices: 62004404--62004536 Score: 203
Period size: 54 Copynumber: 2.5 Consensus size: 54
62004394 AATACTTAGT
* * *
62004404 TTAATTAATTAAATTGATGGAATAAATTACTCATCTTAGTTAATTGAGTTCATC
1 TTAATTAATTAAGTTGCTGGAATAAATTACTCATCTTAGTTAATTAAGTTCATC
* *
62004458 TTAATTAATTAAGTTGCTGGAATAAATTATTCATGTTAGTTAATTAAGTTCATC
1 TTAATTAATTAAGTTGCTGGAATAAATTACTCATCTTAGTTAATTAAGTTCATC
* *
62004512 TTAGTTAATTTAGTTGCTGGAATAA
1 TTAATTAATTAAGTTGCTGGAATAA
62004537 TTTTAATGAT
Statistics
Matches: 72, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
54 72 1.00
ACGTcount: A:0.35, C:0.08, G:0.14, T:0.44
Consensus pattern (54 bp):
TTAATTAATTAAGTTGCTGGAATAAATTACTCATCTTAGTTAATTAAGTTCATC
Done.