Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr10 129486693
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: 129486693
ACGTcount: A:0.32, C:0.18, G:0.17, T:0.32
Warning! 305 characters in sequence are not A, C, G, or T
File 431 of 444
Found at i:124667531 original size:25 final size:25
Alignment explanation
Indices: 124667498--124667548 Score: 70
Period size: 24 Copynumber: 2.0 Consensus size: 25
124667488 CAAATTAAAA
124667498 AAAATATTA-ACATTTCAAAAAATAAT
1 AAAATATTATA-ATTT-AAAAAATAAT
124667524 AAAA-ATTATAATTTAAAAAATAAT
1 AAAATATTATAATTTAAAAAATAAT
124667548 A
1 A
124667549 GGTAAAAATT
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
24 11 0.46
25 8 0.33
26 5 0.21
ACGTcount: A:0.65, C:0.04, G:0.00, T:0.31
Consensus pattern (25 bp):
AAAATATTATAATTTAAAAAATAAT
Found at i:124667571 original size:28 final size:28
Alignment explanation
Indices: 124667514--124667576 Score: 67
Period size: 28 Copynumber: 2.3 Consensus size: 28
124667504 TTAACATTTC
* *
124667514 AAAAAATA-ATAAAAATTATAATTTAAA
1 AAAAAATAGGTAAAAATTATAAATTAAA
* *
124667541 AAATAATAGGTAAAAATT-TCAAATTAGA
1 AAAAAATAGGTAAAAATTAT-AAATTAAA
124667569 AAAAAATA
1 AAAAAATA
124667577 TAAAATGTAT
Statistics
Matches: 29, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
27 8 0.28
28 21 0.72
ACGTcount: A:0.67, C:0.02, G:0.05, T:0.27
Consensus pattern (28 bp):
AAAAAATAGGTAAAAATTATAAATTAAA
Found at i:124676799 original size:27 final size:28
Alignment explanation
Indices: 124676746--124676812 Score: 68
Period size: 27 Copynumber: 2.5 Consensus size: 28
124676736 TATATAATAC
* *
124676746 TATTAATATATTATTGAAAAATATTT-A
1 TATTAATATAATAATGAAAAATATTTAA
*
124676773 TATTAATATAATAAT-AAATATATTTTAA
1 TATTAATATAATAATGAAAAATA-TTTAA
*
124676801 TATTTATA-AATA
1 TATTAATATAATA
124676813 TTTAATAGTA
Statistics
Matches: 34, Mismatches: 4, Indels: 4
0.81 0.10 0.10
Matches are distributed among these distances:
26 6 0.18
27 20 0.59
28 8 0.24
ACGTcount: A:0.51, C:0.00, G:0.01, T:0.48
Consensus pattern (28 bp):
TATTAATATAATAATGAAAAATATTTAA
Found at i:124677774 original size:49 final size:49
Alignment explanation
Indices: 124677693--124677788 Score: 120
Period size: 49 Copynumber: 2.0 Consensus size: 49
124677683 ATTTATTAAA
* * ** *
124677693 GTAAATATATTAATTGTTTTGATAATTGAAATACTACAACAATAAAATT
1 GTAAATATATTAACTATTTTGATAATAAAAATACTACAAAAATAAAATT
* * *
124677742 GTAAATATATTAACTATTTTGATTATAAAAATATTATAAAAATAAAA
1 GTAAATATATTAACTATTTTGATAATAAAAATACTACAAAAATAAAA
124677789 AATTTCAAGC
Statistics
Matches: 39, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
49 39 1.00
ACGTcount: A:0.51, C:0.04, G:0.06, T:0.39
Consensus pattern (49 bp):
GTAAATATATTAACTATTTTGATAATAAAAATACTACAAAAATAAAATT
Found at i:124681282 original size:27 final size:27
Alignment explanation
Indices: 124681250--124681305 Score: 112
Period size: 27 Copynumber: 2.1 Consensus size: 27
124681240 AAAAAGCTAC
124681250 AACAAATAATCAAACTTACCAAGAGAA
1 AACAAATAATCAAACTTACCAAGAGAA
124681277 AACAAATAATCAAACTTACCAAGAGAA
1 AACAAATAATCAAACTTACCAAGAGAA
124681304 AA
1 AA
124681306 ACCTAGCAAG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.61, C:0.18, G:0.07, T:0.14
Consensus pattern (27 bp):
AACAAATAATCAAACTTACCAAGAGAA
Found at i:124682241 original size:131 final size:131
Alignment explanation
Indices: 124681974--124682293 Score: 378
Period size: 131 Copynumber: 2.5 Consensus size: 131
124681964 GTCCAACGAA
** * * * ** *
124681974 AAATCGAAACCCATAACGGTAGGGCACGATTCCTCGAACTTCCAAACATTGAACATTGCCTTGTT
1 AAATCGAAACCCAGCACGATAGGGCACGATTCCCCGAATTTCCAAACATCAAACATTGCCTTATT
* * * * * *
124682039 TTAGAA--T--GTAAAGAATACGAATGAAATTCTAAAGGAATATTTGATTATTTTGAACAGACAA
66 TTAGAATTTAGGAAAAAAACACGAATGAAATTCTAAAGGAAGATTCGATTATTTTGAACAAACAA
124682100 G
131 G
* * * * *
124682101 AGATCGAAACCCAGCACGATAGGGCATGGTTCCCCGAATTTCCAAGCGTCAAACATTGCCTTATT
1 AAATCGAAACCCAGCACGATAGGGCACGATTCCCCGAATTTCCAAACATCAAACATTGCCTTATT
* **
124682166 TTAGAATTTAGGAAAAAAACACGAATGAAATTCTAAAGGAAGGTTCGATTATTTTGAACAAACGG
66 TTAGAATTTAGGAAAAAAACACGAATGAAATTCTAAAGGAAGATTCGATTATTTTGAACAAACAA
124682231 G
131 G
* * * *
124682232 AAATTGAAACCCAGCACGGTAGGGCACGATTTCCCGAATTTTCAAACATCAAACATTGCCTT
1 AAATCGAAACCCAGCACGATAGGGCACGATTCCCCGAATTTCCAAACATCAAACATTGCCTT
124682294 CGTTTTAAGG
Statistics
Matches: 158, Mismatches: 31, Indels: 4
0.82 0.16 0.02
Matches are distributed among these distances:
127 58 0.37
129 1 0.01
131 99 0.63
ACGTcount: A:0.37, C:0.19, G:0.18, T:0.26
Consensus pattern (131 bp):
AAATCGAAACCCAGCACGATAGGGCACGATTCCCCGAATTTCCAAACATCAAACATTGCCTTATT
TTAGAATTTAGGAAAAAAACACGAATGAAATTCTAAAGGAAGATTCGATTATTTTGAACAAACAA
G
Found at i:124683357 original size:28 final size:29
Alignment explanation
Indices: 124683300--124683366 Score: 75
Period size: 28 Copynumber: 2.3 Consensus size: 29
124683290 AGGAAACACT
** *
124683300 TATACATATAATAGATTTAAAAGCATATA
1 TATACATATAATAGATTTAAAAAAAAATA
124683329 TATACATA-AAT-GAATTTAAAAAAAAATA
1 TATACATATAATAG-ATTTAAAAAAAAATA
*
124683357 TATATATATA
1 TATACATATA
124683367 TATATATATG
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
27 1 0.03
28 22 0.69
29 9 0.28
ACGTcount: A:0.57, C:0.04, G:0.04, T:0.34
Consensus pattern (29 bp):
TATACATATAATAGATTTAAAAAAAAATA
Found at i:124688734 original size:16 final size:16
Alignment explanation
Indices: 124688709--124688739 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
124688699 TAGGAAAATT
*
124688709 CATTATTTAATTATTG
1 CATTAATTAATTATTG
124688725 CATTAATTAATTATT
1 CATTAATTAATTATT
124688740 ATTAGGAAAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.35, C:0.06, G:0.03, T:0.55
Consensus pattern (16 bp):
CATTAATTAATTATTG
Found at i:124696668 original size:67 final size:64
Alignment explanation
Indices: 124696532--124696715 Score: 203
Period size: 67 Copynumber: 2.8 Consensus size: 64
124696522 ATATAGTTCG
* * * * * * *
124696532 GCTCTCTTGTAC-ACATGGTGAACAC-TCAGTACCACCCATGTGGCCTAGCCA-ATTTATCTCGT
1 GCTCTCTTGT-CTACATGGTGTACACAT-AGAACCACCCATGCGACCTAGCTACATATATCCCGT
124696594 A
64 A
* *
124696595 GCTCTCTTGTCTACATGGTGTCATTCACCTAGAACCACGCATGCGACCTAGCTACATATATCCCG
1 GCTCTCTTGTCTACATGGTGT-A--CACATAGAACCACCCATGCGACCTAGCTACATATATCCCG
124696660 TA
63 TA
* *
124696662 GCTCTCTTGTCTACATGGTGTACACATAGTATCACCCATGCGACCTAGCTACAT
1 GCTCTCTTGTCTACATGGTGTACACATAGAACCACCCATGCGACCTAGCTACAT
124696716 CATAATGTCT
Statistics
Matches: 103, Mismatches: 12, Indels: 11
0.82 0.10 0.09
Matches are distributed among these distances:
62 1 0.01
63 18 0.17
64 29 0.28
66 23 0.22
67 32 0.31
ACGTcount: A:0.24, C:0.30, G:0.17, T:0.29
Consensus pattern (64 bp):
GCTCTCTTGTCTACATGGTGTACACATAGAACCACCCATGCGACCTAGCTACATATATCCCGTA
Found at i:124702798 original size:12 final size:12
Alignment explanation
Indices: 124702776--124702811 Score: 54
Period size: 12 Copynumber: 2.9 Consensus size: 12
124702766 AACAAAAAAT
124702776 TGAAGTAAATAAG
1 TGAA-TAAATAAG
124702789 TGAATAAATAAG
1 TGAATAAATAAG
*
124702801 TGAGTAAATAA
1 TGAATAAATAA
124702812 CTAAAAAATA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
12 18 0.82
13 4 0.18
ACGTcount: A:0.56, C:0.00, G:0.19, T:0.25
Consensus pattern (12 bp):
TGAATAAATAAG
Found at i:124705327 original size:27 final size:28
Alignment explanation
Indices: 124705296--124705360 Score: 80
Period size: 27 Copynumber: 2.3 Consensus size: 28
124705286 AATAATTTCA
*
124705296 ATTTTTTTTGAAAA-TTTCAGAATGTTTT
1 ATTTTTTTTAAAAAGTTTCAGAAT-TTTT
*
124705324 -TTTTTTTAAAAAAGTTTCAGAATTTTT
1 ATTTTTTTTAAAAAGTTTCAGAATTTTT
124705351 ATTTATTTTT
1 ATTT-TTTTT
124705361 CTTTTATTTT
Statistics
Matches: 31, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
27 15 0.48
28 12 0.39
29 4 0.13
ACGTcount: A:0.29, C:0.03, G:0.08, T:0.60
Consensus pattern (28 bp):
ATTTTTTTTAAAAAGTTTCAGAATTTTT
Found at i:124705341 original size:28 final size:27
Alignment explanation
Indices: 124705296--124705360 Score: 78
Period size: 28 Copynumber: 2.3 Consensus size: 27
124705286 AATAATTTCA
*
124705296 ATTTTTTTTGAAAATTTCAGAATGTTT
1 ATTTTTTTTAAAAATTTCAGAATGTTT
*
124705323 -TTTTTTTTAAAAAAGTTTCAGAATTTTT
1 ATTTTTTTT-AAAAA-TTTCAGAATGTTT
124705351 ATTTATTTTT
1 ATTT-TTTTT
124705361 CTTTTATTTT
Statistics
Matches: 32, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
26 8 0.25
27 4 0.12
28 12 0.38
29 3 0.09
30 5 0.16
ACGTcount: A:0.29, C:0.03, G:0.08, T:0.60
Consensus pattern (27 bp):
ATTTTTTTTAAAAATTTCAGAATGTTT
Found at i:124706558 original size:9 final size:9
Alignment explanation
Indices: 124706544--124706578 Score: 52
Period size: 9 Copynumber: 3.9 Consensus size: 9
124706534 GTTAATTGAA
124706544 TCGAGTTAT
1 TCGAGTTAT
124706553 TCGAGTTAT
1 TCGAGTTAT
* *
124706562 CCGAATTAT
1 TCGAGTTAT
124706571 TCGAGTTA
1 TCGAGTTA
124706579 ACTGGAATAA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
9 22 1.00
ACGTcount: A:0.26, C:0.14, G:0.20, T:0.40
Consensus pattern (9 bp):
TCGAGTTAT
Found at i:124708226 original size:23 final size:23
Alignment explanation
Indices: 124708144--124708230 Score: 92
Period size: 21 Copynumber: 4.0 Consensus size: 23
124708134 CCTGATCAGT
*
124708144 ATACGACACATAAAGTGCCT-AA
1 ATACGACACACAAAGTGCCTGAA
* *
124708166 A-ACGACACACGAGGTGCCTG--
1 ATACGACACACAAAGTGCCTGAA
* *
124708186 ATACGACACACGAGGTGCCTGAA
1 ATACGACACACAAAGTGCCTGAA
*
124708209 ATACGACACATAAAGTGCCTGA
1 ATACGACACACAAAGTGCCTGA
124708231 TCGATAAAGC
Statistics
Matches: 55, Mismatches: 6, Indels: 7
0.81 0.09 0.10
Matches are distributed among these distances:
20 1 0.02
21 34 0.62
22 1 0.02
23 19 0.35
ACGTcount: A:0.38, C:0.25, G:0.22, T:0.15
Consensus pattern (23 bp):
ATACGACACACAAAGTGCCTGAA
Found at i:124708629 original size:15 final size:15
Alignment explanation
Indices: 124708603--124708659 Score: 89
Period size: 15 Copynumber: 3.9 Consensus size: 15
124708593 CATATATATT
124708603 ATATAA-TTCAATCA
1 ATATAATTTCAATCA
124708617 ATATAATTTCAATCA
1 ATATAATTTCAATCA
*
124708632 AAATAATTTCAATCA
1 ATATAATTTCAATCA
*
124708647 ATATAAATTCAAT
1 ATATAATTTCAAT
124708660 AAATTCATCG
Statistics
Matches: 39, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
14 6 0.15
15 33 0.85
ACGTcount: A:0.51, C:0.12, G:0.00, T:0.37
Consensus pattern (15 bp):
ATATAATTTCAATCA
Found at i:124709760 original size:5 final size:5
Alignment explanation
Indices: 124709752--124709808 Score: 105
Period size: 5 Copynumber: 11.4 Consensus size: 5
124709742 TCTTTAGTTT
*
124709752 ATATA ATATA ATATA ATATA ATACA ATATA ATATA ATATA ATATA ATATA
1 ATATA ATATA ATATA ATATA ATATA ATATA ATATA ATATA ATATA ATATA
124709802 ATATA AT
1 ATATA AT
124709809 TAAAACATAA
Statistics
Matches: 50, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
5 50 1.00
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.39
Consensus pattern (5 bp):
ATATA
Found at i:124709844 original size:8 final size:8
Alignment explanation
Indices: 124709831--124709867 Score: 74
Period size: 8 Copynumber: 4.6 Consensus size: 8
124709821 TATCTTTATT
124709831 ATATAATA
1 ATATAATA
124709839 ATATAATA
1 ATATAATA
124709847 ATATAATA
1 ATATAATA
124709855 ATATAATA
1 ATATAATA
124709863 ATATA
1 ATATA
124709868 CTAAACATAA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 29 1.00
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (8 bp):
ATATAATA
Found at i:124712003 original size:30 final size:30
Alignment explanation
Indices: 124711948--124712022 Score: 82
Period size: 30 Copynumber: 2.5 Consensus size: 30
124711938 TTTATCCCTA
*
124711948 ATAT-TTATGTATTATGTAAATA-TTTTAAT
1 ATATATTATGTA-TATCTAAATATTTTTAAT
* **
124711977 ATTATATTATGTATATCTATATATTTTTCGT
1 A-TATATTATGTATATCTAAATATTTTTAAT
124712008 ATATATTATGTATAT
1 ATATATTATGTATAT
124712023 ATGTTTTCAA
Statistics
Matches: 39, Mismatches: 4, Indels: 5
0.81 0.08 0.10
Matches are distributed among these distances:
29 1 0.03
30 25 0.64
31 13 0.33
ACGTcount: A:0.35, C:0.03, G:0.07, T:0.56
Consensus pattern (30 bp):
ATATATTATGTATATCTAAATATTTTTAAT
Found at i:124712035 original size:24 final size:25
Alignment explanation
Indices: 124711994--124712049 Score: 64
Period size: 24 Copynumber: 2.3 Consensus size: 25
124711984 TATGTATATC
*
124711994 TATATATTTTTCGTATATAT-TATG-
1 TATATATTTTTCGAATAT-TGTATGT
124712018 TATATATGTTTTC-AATATTGTATGT
1 TATATAT-TTTTCGAATATTGTATGT
124712043 TATATAT
1 TATATAT
124712050 ATTATTGTGT
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
23 1 0.04
24 15 0.54
25 12 0.43
ACGTcount: A:0.30, C:0.04, G:0.09, T:0.57
Consensus pattern (25 bp):
TATATATTTTTCGAATATTGTATGT
Found at i:124712130 original size:19 final size:19
Alignment explanation
Indices: 124712106--124712142 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
124712096 CTATTTTATA
*
124712106 TATATTTCTAATATCATTG
1 TATATTTCTAACATCATTG
124712125 TATATTTCTAACATCATT
1 TATATTTCTAACATCATT
124712143 ATTATTTATA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.32, C:0.14, G:0.03, T:0.51
Consensus pattern (19 bp):
TATATTTCTAACATCATTG
Found at i:124712229 original size:9 final size:9
Alignment explanation
Indices: 124712211--124712246 Score: 54
Period size: 9 Copynumber: 4.0 Consensus size: 9
124712201 TCATTTCTAA
124712211 TATATATAT
1 TATATATAT
*
124712220 TATATGTAT
1 TATATATAT
*
124712229 TTTATATAT
1 TATATATAT
124712238 TATATATAT
1 TATATATAT
124712247 ATTTTAATGT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
9 23 1.00
ACGTcount: A:0.39, C:0.00, G:0.03, T:0.58
Consensus pattern (9 bp):
TATATATAT
Found at i:124712234 original size:20 final size:20
Alignment explanation
Indices: 124712210--124712252 Score: 59
Period size: 20 Copynumber: 2.0 Consensus size: 20
124712200 ATCATTTCTA
*
124712210 ATATATATATTATATGTATTTT
1 ATATAT-TA-TATATATATTTT
124712232 ATATATTATATATATATTTT
1 ATATATTATATATATATTTT
124712252 A
1 A
124712253 ATGTTATTAG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
20 12 0.60
21 2 0.10
22 6 0.30
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.58
Consensus pattern (20 bp):
ATATATTATATATATATTTT
Found at i:124712620 original size:25 final size:24
Alignment explanation
Indices: 124712592--124712647 Score: 62
Period size: 25 Copynumber: 2.3 Consensus size: 24
124712582 GTTATATTTT
*
124712592 CACTATTTTAT-GTATATACTTCAAA
1 CACTATTATATCGTATAT--TTCAAA
*
124712617 CACTA-TATATCGTATATTTCTAA
1 CACTATTATATCGTATATTTCAAA
124712640 CACTATTA
1 CACTATTA
124712648 CTATTTATAA
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
23 10 0.37
24 6 0.22
25 11 0.41
ACGTcount: A:0.36, C:0.18, G:0.04, T:0.43
Consensus pattern (24 bp):
CACTATTATATCGTATATTTCAAA
Found at i:124715742 original size:22 final size:22
Alignment explanation
Indices: 124715688--124715745 Score: 71
Period size: 22 Copynumber: 2.6 Consensus size: 22
124715678 ATCAACAATA
*
124715688 ATTCTAAATATTGTATAAAAAAT
1 ATTC-AAATATTTTATAAAAAAT
* *
124715711 ATTTAAATATTTTATAAAATAT
1 ATTCAAATATTTTATAAAAAAT
*
124715733 ATTCATATATTTT
1 ATTCAAATATTTT
124715746 TTATATATAA
Statistics
Matches: 30, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
22 27 0.90
23 3 0.10
ACGTcount: A:0.47, C:0.03, G:0.02, T:0.48
Consensus pattern (22 bp):
ATTCAAATATTTTATAAAAAAT
Found at i:124721852 original size:66 final size:66
Alignment explanation
Indices: 124721683--124721852 Score: 169
Period size: 66 Copynumber: 2.6 Consensus size: 66
124721673 AGCAAACAAT
* * * * * * *
124721683 ATTCCATAGATTTAATTTTTGGAAACTGGCCAAGAGATTTACGTTGCCACAAATACATTAGACGG
1 ATTCCATCGATCTAATTTTTGGAAACAGGCTAAGAGACTTACGTTGCCACAAATACAATAGACGA
124721748 C
66 C
* * * * ** * * * *
124721749 ATTCCATCGATCTAAATCTCGGAAATAGATTAAGAGACTTATGTTGTCACAAATATAATAGATGA
1 ATTCCATCGATCTAATTTTTGGAAACAGGCTAAGAGACTTACGTTGCCACAAATACAATAGACGA
124721814 C
66 C
* *
124721815 ATTCCATCGATCTAATTTTTGGAAACGGGCTAGGAGAC
1 ATTCCATCGATCTAATTTTTGGAAACAGGCTAAGAGAC
124721853 ATGCGAGCCA
Statistics
Matches: 79, Mismatches: 25, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
66 79 1.00
ACGTcount: A:0.35, C:0.17, G:0.18, T:0.30
Consensus pattern (66 bp):
ATTCCATCGATCTAATTTTTGGAAACAGGCTAAGAGACTTACGTTGCCACAAATACAATAGACGA
C
Found at i:124722618 original size:3 final size:3
Alignment explanation
Indices: 124722610--124722637 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
124722600 TAGTAGCAAT
124722610 ATA ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA A
124722638 AGTTAGCAAC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:124724079 original size:51 final size:52
Alignment explanation
Indices: 124724009--124724112 Score: 174
Period size: 52 Copynumber: 2.0 Consensus size: 52
124723999 TATATAAAAA
* * *
124724009 TTTCAAAGATATGATGAAGCAATTA-CCTTTTTACTTTGATGGAAAAAGTGG
1 TTTCAAAGATATGACGAAGCAATTACCCTTTTTAATTTGATAGAAAAAGTGG
124724060 TTTCAAAGATATGACGAAGCAATTACCCTTTTTAATTTGATAGAAAAAGTGG
1 TTTCAAAGATATGACGAAGCAATTACCCTTTTTAATTTGATAGAAAAAGTGG
124724112 T
1 T
124724113 GATGCAATTT
Statistics
Matches: 49, Mismatches: 3, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
51 24 0.49
52 25 0.51
ACGTcount: A:0.37, C:0.11, G:0.18, T:0.35
Consensus pattern (52 bp):
TTTCAAAGATATGACGAAGCAATTACCCTTTTTAATTTGATAGAAAAAGTGG
Found at i:124728730 original size:61 final size:61
Alignment explanation
Indices: 124728639--124728765 Score: 195
Period size: 61 Copynumber: 2.1 Consensus size: 61
124728629 ATCGAATATC
* *
124728639 TATTCTCTAAAAAACATAAAAAAATAAAAATATTGATTTTCTA-TTTTTTTACCTTTTATG
1 TATTCTCTAAAAAACACAAAAAAATAAAAATATTGATTTTCTATTTTTTTTAACTTTTATG
* *
124728699 TATTCTCTAAAAAAACGCAAAAAAGTAAAAATATTGATTTTCTATTTTTTTTAACTTTTATG
1 TATTCTCT-AAAAAACACAAAAAAATAAAAATATTGATTTTCTATTTTTTTTAACTTTTATG
124728761 T-TTCT
1 TATTCT
124728766 TGACGTAGTT
Statistics
Matches: 61, Mismatches: 4, Indels: 3
0.90 0.06 0.04
Matches are distributed among these distances:
60 8 0.13
61 36 0.59
62 17 0.28
ACGTcount: A:0.39, C:0.10, G:0.05, T:0.46
Consensus pattern (61 bp):
TATTCTCTAAAAAACACAAAAAAATAAAAATATTGATTTTCTATTTTTTTTAACTTTTATG
Found at i:124729648 original size:13 final size:14
Alignment explanation
Indices: 124729629--124729666 Score: 62
Period size: 13 Copynumber: 2.9 Consensus size: 14
124729619 ATTTAAAATT
124729629 TTTATAAATTTTTG
1 TTTATAAATTTTTG
124729643 -TTATAAA-TTTTG
1 TTTATAAATTTTTG
124729655 TTTATAAATTTT
1 TTTATAAATTTT
124729667 ATGATTTTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
12 5 0.23
13 14 0.64
14 3 0.14
ACGTcount: A:0.32, C:0.00, G:0.05, T:0.63
Consensus pattern (14 bp):
TTTATAAATTTTTG
Found at i:124740961 original size:26 final size:24
Alignment explanation
Indices: 124740931--124740979 Score: 71
Period size: 26 Copynumber: 2.0 Consensus size: 24
124740921 AATAAAAAAT
*
124740931 TTTAAAAATATAATAAATCAAATATA
1 TTTAAAAACATAA-AAA-CAAATATA
124740957 TTTAAAAACATAAAAACAAATAT
1 TTTAAAAACATAAAAACAAATAT
124740980 TAAGACAAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 7 0.32
25 3 0.14
26 12 0.55
ACGTcount: A:0.63, C:0.06, G:0.00, T:0.31
Consensus pattern (24 bp):
TTTAAAAACATAAAAACAAATATA
Found at i:124740999 original size:21 final size:22
Alignment explanation
Indices: 124740966--124741008 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 22
124740956 ATTTAAAAAC
* *
124740966 ATAAAAACAAATATTAAGACAA
1 ATAAAAACAAATACTAAAACAA
*
124740988 ATAAAAA-TAATACTAAAACAA
1 ATAAAAACAAATACTAAAACAA
124741009 TTCTTAAAAC
Statistics
Matches: 18, Mismatches: 3, Indels: 1
0.82 0.14 0.05
Matches are distributed among these distances:
21 11 0.61
22 7 0.39
ACGTcount: A:0.70, C:0.09, G:0.02, T:0.19
Consensus pattern (22 bp):
ATAAAAACAAATACTAAAACAA
Found at i:124742023 original size:43 final size:42
Alignment explanation
Indices: 124741965--124742171 Score: 243
Period size: 43 Copynumber: 4.8 Consensus size: 42
124741955 TTTATTGGAA
* *
124741965 AAAAACGCCGTTAAAGGTCAAGATTTTTAGCGGCGTTTGTGG
1 AAAAGCGCCGCTAAAGGTCAAGATTTTTAGCGGCGTTTGTGG
* ** *
124742007 TGAAAGCGCCGCTAAAGGTCAAGCCTTTTAGCGGCCTTTGTGGG
1 -AAAAGCGCCGCTAAAGGTCAAGATTTTTAGCGGCGTTTGT-GG
*
124742051 AAAAGCGCCGCTAAAGATCAAGATTTTTAGCGGCGTTTGTGG
1 AAAAGCGCCGCTAAAGGTCAAGATTTTTAGCGGCGTTTGTGG
* * * *
124742093 TAAAAGCACCGCTAAAGGCCAAGGTTTTTAGCGGCATTTGTGAG
1 -AAAAGCGCCGCTAAAGGTCAAGATTTTTAGCGGCGTTTGTG-G
* * **
124742137 AAAAGTGCCGCTAAAGGCCAAGCCTTTTAGCGGCG
1 AAAAGCGCCGCTAAAGGTCAAGATTTTTAGCGGCG
124742172 CTTTTTTTAC
Statistics
Matches: 140, Mismatches: 21, Indels: 6
0.84 0.13 0.04
Matches are distributed among these distances:
42 2 0.01
43 135 0.96
44 3 0.02
ACGTcount: A:0.27, C:0.19, G:0.29, T:0.25
Consensus pattern (42 bp):
AAAAGCGCCGCTAAAGGTCAAGATTTTTAGCGGCGTTTGTGG
Found at i:124742122 original size:86 final size:86
Alignment explanation
Indices: 124741965--124742171 Score: 288
Period size: 86 Copynumber: 2.4 Consensus size: 86
124741955 TTTATTGGAA
* * * * *
124741965 AAAAACGCCGTTAAAGGTCAAGATTTTTAGCGGCGTTTGTGGTGAAAGCGCCGCTAAAGGTCAAG
1 AAAAGCGCCGCTAAAGGTCAAGATTTTTAGCGGCGTTTGTGGTAAAAGCACCGCTAAAGGCCAAG
* *
124742030 CCTTTTAGCGGCCTTTGTGGG
66 CCTTTTAGCGGCATTTGTGAG
*
124742051 AAAAGCGCCGCTAAAGATCAAGATTTTTAGCGGCGTTTGTGGTAAAAGCACCGCTAAAGGCCAAG
1 AAAAGCGCCGCTAAAGGTCAAGATTTTTAGCGGCGTTTGTGGTAAAAGCACCGCTAAAGGCCAAG
**
124742116 GTTTTTAGCGGCATTTGTGAG
66 CCTTTTAGCGGCATTTGTGAG
* * **
124742137 AAAAGTGCCGCTAAAGGCCAAGCCTTTTAGCGGCG
1 AAAAGCGCCGCTAAAGGTCAAGATTTTTAGCGGCG
124742172 CTTTTTTTAC
Statistics
Matches: 106, Mismatches: 15, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
86 106 1.00
ACGTcount: A:0.27, C:0.19, G:0.29, T:0.25
Consensus pattern (86 bp):
AAAAGCGCCGCTAAAGGTCAAGATTTTTAGCGGCGTTTGTGGTAAAAGCACCGCTAAAGGCCAAG
CCTTTTAGCGGCATTTGTGAG
Found at i:124742281 original size:31 final size:31
Alignment explanation
Indices: 124742246--124742312 Score: 89
Period size: 31 Copynumber: 2.2 Consensus size: 31
124742236 CTTCCTGCAT
* *
124742246 TAAAATCCAACCAAATACAACAAATATAATA
1 TAAAATCCAACCAAAAACAACAAATATAACA
* * *
124742277 TAAAATGCAACCAAAAACAGCAAATTTAACA
1 TAAAATCCAACCAAAAACAACAAATATAACA
124742308 TAAAA
1 TAAAA
124742313 AATACAACAA
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.61, C:0.18, G:0.03, T:0.18
Consensus pattern (31 bp):
TAAAATCCAACCAAAAACAACAAATATAACA
Found at i:124748075 original size:9 final size:9
Alignment explanation
Indices: 124748061--124748188 Score: 121
Period size: 9 Copynumber: 13.6 Consensus size: 9
124748051 ATGTATTAGT
124748061 TAAGTTATG
1 TAAGTTATG
124748070 TAAGTTGTTATG
1 TAA---GTTATG
*
124748082 TACGTTATG
1 TAAGTTATG
*
124748091 TGAGTTATG
1 TAAGTTATG
*
124748100 TAAATTATG
1 TAAGTTATG
124748109 TAAGTTATG
1 TAAGTTATG
*
124748118 TGAGTTATG
1 TAAGTTATG
124748127 TAAGTGGTTATG
1 TAA---GTTATG
*
124748139 TAAATTATG
1 TAAGTTATG
*
124748148 TAAGTTATA
1 TAAGTTATG
*
124748157 TGAGTTATG
1 TAAGTTATG
124748166 TAAGTTATG
1 TAAGTTATG
* *
124748175 TAATTTATT
1 TAAGTTATG
124748184 TAAGT
1 TAAGT
124748189 AATGATCAAT
Statistics
Matches: 96, Mismatches: 17, Indels: 12
0.77 0.14 0.10
Matches are distributed among these distances:
9 79 0.82
12 17 0.18
ACGTcount: A:0.31, C:0.01, G:0.22, T:0.46
Consensus pattern (9 bp):
TAAGTTATG
Found at i:124748188 original size:57 final size:57
Alignment explanation
Indices: 124748061--124748188 Score: 166
Period size: 57 Copynumber: 2.2 Consensus size: 57
124748051 ATGTATTAGT
* ** * *
124748061 TAAGTTATGTAAGTTGTTATGTACGTTATGTGAGTTATGTAAATTATGTAAGTTATG
1 TAAGTTATGTAAGTGGTTATGTAAATTATGTAAGTTATATAAATTATGTAAGTTATG
* * *
124748118 TGAGTTATGTAAGTGGTTATGTAAATTATGTAAGTTATATGAGTTATGTAAGTTATG
1 TAAGTTATGTAAGTGGTTATGTAAATTATGTAAGTTATATAAATTATGTAAGTTATG
* *
124748175 TAATTTATTTAAGT
1 TAAGTTATGTAAGT
124748189 AATGATCAAT
Statistics
Matches: 60, Mismatches: 11, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
57 60 1.00
ACGTcount: A:0.31, C:0.01, G:0.22, T:0.46
Consensus pattern (57 bp):
TAAGTTATGTAAGTGGTTATGTAAATTATGTAAGTTATATAAATTATGTAAGTTATG
Found at i:124749191 original size:372 final size:373
Alignment explanation
Indices: 124748496--124749456 Score: 1836
Period size: 372 Copynumber: 2.6 Consensus size: 373
124748486 CTACATGGTA
*
124748496 ATAAATATTCAATAGTAAATGAGCTCGATAGAACTTTTTTCAAGTCTTCTTGAATTTTTTAAGAT
1 ATAAATATTCAATAGTAAATGAGCTCGATAGAACTTTTTTCAAGTCTTTTTGAATTTTTTAAGAT
*
124748561 TCATCATACGTGGCGTTGTTAAACCTA-GGAGGATCCATTATATCTTGCAGCTCGATATAAGGCA
66 TCATCATACGTGGCGTTGTTACACCTAGGGAGGATCCATTATATCTTGCAGCTCGATATAAGGCA
124748625 ACCCGTCAGGTTTCCAGCCTATATACTTTGAATCTTTAAAATATTTAAAATAAGGTTGGAGAGAA
131 ACCCGTCAGGTTTCCAGCCTATATACTTTGAATCTTTAAAATATTTAAAATAAGGTTGGAGAGAA
*
124748690 GGTCAGCTATTGTTGTACTTTTGATAAAAATTAGTTATAACTTTTAAAGACATTTAAAAATACTA
196 GGTCAGCTATTGTTGTAATTTTGATAAAAATTAGTTATAACTTTTAAAGACATTTAAAAATACTA
*
124748755 AATATTAAAATAAAACATTATTAATATAAAAAAATAGTAATTTGAATATCATAACATCAAAAAAG
261 AATATTAAAATAAAACATTATTAATATAAAAAAATAGTAATTTGAATATAATAACATCAAAAAAG
*
124748820 AATCGTAGTTTAATTTTTATAAGTAAATTGGAAATAAATTAAGGTTAT
326 AATCGTAGTTTAATTTTTATAAGTAAATTGGAAATAAATTAAAGTTAT
*
124748868 ATAAATATTCAATAGTAAATGAGCTCGATAGAACTTTTTTCAAGTCTTTTTTAATTTTTTAAGAT
1 ATAAATATTCAATAGTAAATGAGCTCGATAGAACTTTTTTCAAGTCTTTTTGAATTTTTTAAGAT
124748933 TCATCATACGTGGCGTTGTTACACCTAGGGAGGATCCATTATATCTTGCAGCTCGATATAAGGCA
66 TCATCATACGTGGCGTTGTTACACCTAGGGAGGATCCATTATATCTTGCAGCTCGATATAAGGCA
124748998 ACCCGTCAGGTTTCCAGCCTATATACTTTGAATCTTTAAAATATTTAAAATAAGGTTGGAGAGAA
131 ACCCGTCAGGTTTCCAGCCTATATACTTTGAATCTTTAAAATATTTAAAATAAGGTTGGAGAGAA
124749063 GGTCAGCTATTGTTGTAATTTTGATAAAAATTAGTTATAACTTTTAAAGACATTTAAAAATACTA
196 GGTCAGCTATTGTTGTAATTTTGATAAAAATTAGTTATAACTTTTAAAGACATTTAAAAATACTA
124749128 AATATTAAAATAAAACATTATTAATAT-AAAAAATAGTAATTTGAATATAATAACATCAAAAAAG
261 AATATTAAAATAAAACATTATTAATATAAAAAAATAGTAATTTGAATATAATAACATCAAAAAAG
124749192 AATCGTAGTTTAATTTTTATAAGTAAATTGGAAATAAATTAAAGTTAT
326 AATCGTAGTTTAATTTTTATAAGTAAATTGGAAATAAATTAAAGTTAT
124749240 ATAAATATTCAATAGTAAATGAGCTCGATAGAACTTTTTTCAAGTCTTTTTGAATTTTTTAAGAT
1 ATAAATATTCAATAGTAAATGAGCTCGATAGAACTTTTTTCAAGTCTTTTTGAATTTTTTAAGAT
124749305 TCATCATACGTGGCGTTGTTACACCTAGGGAGGATCCATTATATCTTGCAGCTCGATATAAGGCA
66 TCATCATACGTGGCGTTGTTACACCTAGGGAGGATCCATTATATCTTGCAGCTCGATATAAGGCA
*
124749370 ACCCGTCAGGTTTCCAGCATATATACTTTGAATCTTTAAAATATTTAAAATAAGGTTGGAGAGAA
131 ACCCGTCAGGTTTCCAGCCTATATACTTTGAATCTTTAAAATATTTAAAATAAGGTTGGAGAGAA
*
124749435 AGTCAGCTATTGTTGTAATTTT
196 GGTCAGCTATTGTTGTAATTTT
124749457 AATGGACAAG
Statistics
Matches: 579, Mismatches: 9, Indels: 2
0.98 0.02 0.00
Matches are distributed among these distances:
372 386 0.67
373 193 0.33
ACGTcount: A:0.38, C:0.12, G:0.14, T:0.36
Consensus pattern (373 bp):
ATAAATATTCAATAGTAAATGAGCTCGATAGAACTTTTTTCAAGTCTTTTTGAATTTTTTAAGAT
TCATCATACGTGGCGTTGTTACACCTAGGGAGGATCCATTATATCTTGCAGCTCGATATAAGGCA
ACCCGTCAGGTTTCCAGCCTATATACTTTGAATCTTTAAAATATTTAAAATAAGGTTGGAGAGAA
GGTCAGCTATTGTTGTAATTTTGATAAAAATTAGTTATAACTTTTAAAGACATTTAAAAATACTA
AATATTAAAATAAAACATTATTAATATAAAAAAATAGTAATTTGAATATAATAACATCAAAAAAG
AATCGTAGTTTAATTTTTATAAGTAAATTGGAAATAAATTAAAGTTAT
Found at i:124749550 original size:18 final size:18
Alignment explanation
Indices: 124749504--124749550 Score: 58
Period size: 21 Copynumber: 2.4 Consensus size: 18
124749494 ATACCTATTC
*
124749504 ATATTTAAGTTGAATCAA
1 ATATTTAAGTTGAACCAA
124749522 ATAATAATTAAGTTGAACCAA
1 AT-AT--TTAAGTTGAACCAA
124749543 ATATTTAA
1 ATATTTAA
124749551 AATTAATTTG
Statistics
Matches: 25, Mismatches: 1, Indels: 6
0.78 0.03 0.19
Matches are distributed among these distances:
18 6 0.24
19 2 0.08
20 2 0.08
21 15 0.60
ACGTcount: A:0.49, C:0.06, G:0.09, T:0.36
Consensus pattern (18 bp):
ATATTTAAGTTGAACCAA
Found at i:124751829 original size:20 final size:20
Alignment explanation
Indices: 124751804--124751843 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
124751794 GATCTTGCAG
* *
124751804 GGGATCATATATGCATCAAA
1 GGGATCACATAAGCATCAAA
124751824 GGGATCACATAAGCATCAAA
1 GGGATCACATAAGCATCAAA
124751844 TCAGCCATGT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.42, C:0.17, G:0.20, T:0.20
Consensus pattern (20 bp):
GGGATCACATAAGCATCAAA
Found at i:124753687 original size:24 final size:25
Alignment explanation
Indices: 124753660--124753727 Score: 68
Period size: 24 Copynumber: 2.8 Consensus size: 25
124753650 ACTAAACCAC
124753660 TTTTCATATATATATTTATATAT-T
1 TTTTCATATATATATTTATATATAT
* *
124753684 TTTTAAAATA-ATAATTTATATATAT
1 TTTTCATATATAT-ATTTATATATAT
* * *
124753709 TTATCTTATATACATTTAT
1 TTTTCATATATATATTTAT
124753728 CTTCTACATT
Statistics
Matches: 34, Mismatches: 7, Indels: 5
0.74 0.15 0.11
Matches are distributed among these distances:
23 2 0.06
24 18 0.53
25 13 0.38
26 1 0.03
ACGTcount: A:0.38, C:0.04, G:0.00, T:0.57
Consensus pattern (25 bp):
TTTTCATATATATATTTATATATAT
Found at i:124753719 original size:15 final size:15
Alignment explanation
Indices: 124753699--124753730 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
124753689 AAATAATAAT
*
124753699 TTATATATATTTATC
1 TTATATACATTTATC
124753714 TTATATACATTTATC
1 TTATATACATTTATC
124753729 TT
1 TT
124753731 CTACATTAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.31, C:0.09, G:0.00, T:0.59
Consensus pattern (15 bp):
TTATATACATTTATC
Found at i:124754172 original size:18 final size:19
Alignment explanation
Indices: 124754149--124754200 Score: 61
Period size: 18 Copynumber: 2.7 Consensus size: 19
124754139 TTACACCCTA
124754149 AATATATATTATAA-TCTT
1 AATATATATTATAAGTCTT
* *
124754167 AATATATATTAGAAGTTTT
1 AATATATATTATAAGTCTT
124754186 ATATATATATATATA
1 A-ATATATAT-TATA
124754201 TAACAAGGGA
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
18 13 0.46
19 4 0.14
20 8 0.29
21 3 0.11
ACGTcount: A:0.46, C:0.02, G:0.04, T:0.48
Consensus pattern (19 bp):
AATATATATTATAAGTCTT
Found at i:124754608 original size:41 final size:41
Alignment explanation
Indices: 124754543--124754675 Score: 173
Period size: 40 Copynumber: 3.3 Consensus size: 41
124754533 CCTCGACCTA
* * * * *
124754543 TAGCGGCGTTTT-TCCCAAAGCGCCGCTGTTGTTCAGTTTT
1 TAGCGGCGTTTTGGCCAAAAACGCCGCTATTGCTCAGTTTT
124754583 TAGCGGCGTTTTGGCCAAAAACGCCGCTATTGCTCAG-TTT
1 TAGCGGCGTTTTGGCCAAAAACGCCGCTATTGCTCAGTTTT
* *
124754623 TAGCGGCG-TTTGGATCAAAAACGCCGCTATTGCTCTGTTTT
1 TAGCGGCGTTTTGG-CCAAAAACGCCGCTATTGCTCAGTTTT
124754664 TAGCGGCGTTTT
1 TAGCGGCGTTTT
124754676 ATTGAAAACG
Statistics
Matches: 82, Mismatches: 7, Indels: 6
0.86 0.07 0.06
Matches are distributed among these distances:
39 5 0.06
40 44 0.54
41 30 0.37
42 3 0.04
ACGTcount: A:0.17, C:0.23, G:0.26, T:0.35
Consensus pattern (41 bp):
TAGCGGCGTTTTGGCCAAAAACGCCGCTATTGCTCAGTTTT
Found at i:124755011 original size:24 final size:24
Alignment explanation
Indices: 124754984--124755030 Score: 94
Period size: 24 Copynumber: 2.0 Consensus size: 24
124754974 GGCATGCCAG
124754984 CCCCCTTGGCTACGCCCATGTTGC
1 CCCCCTTGGCTACGCCCATGTTGC
124755008 CCCCCTTGGCTACGCCCATGTTG
1 CCCCCTTGGCTACGCCCATGTTG
124755031 GTGAGGATGG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.09, C:0.45, G:0.21, T:0.26
Consensus pattern (24 bp):
CCCCCTTGGCTACGCCCATGTTGC
Found at i:124757164 original size:2 final size:2
Alignment explanation
Indices: 124757157--124757192 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
124757147 AGACTTCTTG
124757157 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
124757193 TAAAAAGTGA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:124757465 original size:18 final size:20
Alignment explanation
Indices: 124757427--124757465 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 20
124757417 TGATTTCTAA
124757427 ACTATTAACATCATTAAACCT
1 ACTATTAACATCA-TAAACCT
124757448 ACTATTAA-ATCA-AAACCT
1 ACTATTAACATCATAAACCT
124757466 CACTTTATTC
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
18 6 0.33
20 4 0.22
21 8 0.44
ACGTcount: A:0.46, C:0.23, G:0.00, T:0.31
Consensus pattern (20 bp):
ACTATTAACATCATAAACCT
Found at i:124758619 original size:10 final size:9
Alignment explanation
Indices: 124758564--124758649 Score: 50
Period size: 10 Copynumber: 8.9 Consensus size: 9
124758554 AATATTATTT
124758564 TTATGAAAAA
1 TTAT-AAAAA
*
124758574 TATATAAAAT
1 T-TATAAAAA
*
124758584 TTTTAAAGAA
1 TTATAAA-AA
124758594 -T-TAAAAA
1 TTATAAAAA
124758601 TTATCAAAAA
1 TTAT-AAAAA
124758611 GTTATAAAAA
1 -TTATAAAAA
*
124758621 TTAGACAAAA
1 TTATA-AAAA
124758631 TTTATAGAAAA
1 -TTATA-AAAA
*
124758642 GTATAAAA
1 TTATAAAA
124758650 GTATAAATAT
Statistics
Matches: 61, Mismatches: 7, Indels: 17
0.72 0.08 0.20
Matches are distributed among these distances:
7 2 0.03
8 5 0.08
9 14 0.23
10 25 0.41
11 15 0.25
ACGTcount: A:0.59, C:0.02, G:0.07, T:0.31
Consensus pattern (9 bp):
TTATAAAAA
Found at i:124760684 original size:24 final size:25
Alignment explanation
Indices: 124760646--124760700 Score: 76
Period size: 24 Copynumber: 2.2 Consensus size: 25
124760636 ATATATCCGG
124760646 GCTTAATAACAGAAAGCTCATAAAA
1 GCTTAATAACAGAAAGCTCATAAAA
* **
124760671 GCTTAA-ATCAGAAAGCTCATGCAA
1 GCTTAATAACAGAAAGCTCATAAAA
124760695 GCTTAA
1 GCTTAA
124760701 CGGGTAACTC
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
24 21 0.78
25 6 0.22
ACGTcount: A:0.45, C:0.18, G:0.15, T:0.22
Consensus pattern (25 bp):
GCTTAATAACAGAAAGCTCATAAAA
Found at i:124764416 original size:21 final size:21
Alignment explanation
Indices: 124764345--124764416 Score: 56
Period size: 21 Copynumber: 3.4 Consensus size: 21
124764335 ATCCGAAGGC
124764345 TAAACAGAAACCCGTAAGGGT
1 TAAACAGAAACCCGTAAGGGT
* * * * * **
124764366 TGAACGGAAGCTCATAAGAACT
1 TAAACAGAAACCCGTAAG-GGT
*
124764388 T-AATAGAAACCCGTAAGGGT
1 TAAACAGAAACCCGTAAGGGT
124764408 TAAACAGAA
1 TAAACAGAA
124764417 GCTTAAAATA
Statistics
Matches: 34, Mismatches: 15, Indels: 4
0.64 0.28 0.08
Matches are distributed among these distances:
20 2 0.06
21 30 0.88
22 2 0.06
ACGTcount: A:0.44, C:0.17, G:0.22, T:0.17
Consensus pattern (21 bp):
TAAACAGAAACCCGTAAGGGT
Found at i:124766874 original size:23 final size:25
Alignment explanation
Indices: 124766845--124766892 Score: 64
Period size: 24 Copynumber: 2.0 Consensus size: 25
124766835 TTTTCATTTT
* *
124766845 TACATTT-TTAAATTGAAA-AAAAA
1 TACATTTGATAAATAGAAATAAAAA
124766868 TACATTTGATAAATAGAAATAAAAA
1 TACATTTGATAAATAGAAATAAAAA
124766893 ATTATTTTAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
23 7 0.33
24 9 0.43
25 5 0.24
ACGTcount: A:0.58, C:0.04, G:0.06, T:0.31
Consensus pattern (25 bp):
TACATTTGATAAATAGAAATAAAAA
Found at i:124774878 original size:14 final size:14
Alignment explanation
Indices: 124774859--124774888 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
124774849 AAAATGTGTC
124774859 CTTTTATCATTTTT
1 CTTTTATCATTTTT
124774873 CTTTTATCATTTTT
1 CTTTTATCATTTTT
124774887 CT
1 CT
124774889 ATTGAATTGT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.13, C:0.17, G:0.00, T:0.70
Consensus pattern (14 bp):
CTTTTATCATTTTT
Found at i:124780435 original size:27 final size:27
Alignment explanation
Indices: 124780399--124780452 Score: 83
Period size: 27 Copynumber: 2.0 Consensus size: 27
124780389 TTCTCATAAA
*
124780399 AAATTATTAAAAAATCATA-AAAATTAT
1 AAATTATT-AAAAATAATATAAAATTAT
124780426 AAATTATTAAAAATAATATAAAATTAT
1 AAATTATTAAAAATAATATAAAATTAT
124780453 TAAAAATATA
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
26 9 0.36
27 16 0.64
ACGTcount: A:0.63, C:0.02, G:0.00, T:0.35
Consensus pattern (27 bp):
AAATTATTAAAAATAATATAAAATTAT
Found at i:124780436 original size:17 final size:17
Alignment explanation
Indices: 124780416--124780465 Score: 66
Period size: 20 Copynumber: 2.8 Consensus size: 17
124780406 TAAAAAATCA
124780416 TAAAAATTATAAATTAT
1 TAAAAATTATAAATTAT
124780433 TAAAAATAATATAAAATTAT
1 TAAAAAT--TAT-AAATTAT
124780453 TAAAAA-TATAAAT
1 TAAAAATTATAAAT
124780466 ATTGTAAAAT
Statistics
Matches: 30, Mismatches: 0, Indels: 7
0.81 0.00 0.19
Matches are distributed among these distances:
16 4 0.13
17 10 0.33
19 3 0.10
20 13 0.43
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (17 bp):
TAAAAATTATAAATTAT
Found at i:124780473 original size:17 final size:17
Alignment explanation
Indices: 124780415--124780480 Score: 64
Period size: 17 Copynumber: 3.8 Consensus size: 17
124780405 TTAAAAAATC
124780415 ATAAAAATTATAAATTATT
1 ATAAAAA-TATAAA-TATT
*
124780434 AAAAATAATATAAA-ATT
1 ATAAA-AATATAAATATT
124780451 ATTAAAAATATAAATATT
1 A-TAAAAATATAAATATT
*
124780469 GT-AAAATATAAA
1 ATAAAAATATAAA
124780481 AAATATAATT
Statistics
Matches: 41, Mismatches: 3, Indels: 9
0.77 0.06 0.17
Matches are distributed among these distances:
16 10 0.24
17 13 0.32
18 6 0.15
19 10 0.24
20 2 0.05
ACGTcount: A:0.64, C:0.00, G:0.02, T:0.35
Consensus pattern (17 bp):
ATAAAAATATAAATATT
Found at i:124780488 original size:25 final size:25
Alignment explanation
Indices: 124780398--124780507 Score: 95
Period size: 25 Copynumber: 4.5 Consensus size: 25
124780388 TTTCTCATAA
*
124780398 AAAATTATTAAAAAATCATAAAAATTAT
1 AAAA-TATT-AAAAAT-ATAAATATTAT
*
124780426 AAATTATT-AAAA-AT-AATA-TA-
1 AAAATATTAAAAATATAAATATTAT
* *
124780446 AAATTATTAAAAATATAAATATTGT
1 AAAATATTAAAAATATAAATATTAT
* * *
124780471 AAAATATAAAAAATATAATTATTAA
1 AAAATATTAAAAATATAAATATTAT
124780496 AAAATATTAAAA
1 AAAATATTAAAA
124780508 CCCATTTAAA
Statistics
Matches: 68, Mismatches: 9, Indels: 13
0.76 0.10 0.14
Matches are distributed among these distances:
20 8 0.12
21 6 0.09
22 5 0.07
23 6 0.09
24 1 0.01
25 35 0.51
27 4 0.06
28 3 0.04
ACGTcount: A:0.65, C:0.01, G:0.01, T:0.34
Consensus pattern (25 bp):
AAAATATTAAAAATATAAATATTAT
Found at i:124780505 original size:10 final size:10
Alignment explanation
Indices: 124780490--124780563 Score: 50
Period size: 10 Copynumber: 7.8 Consensus size: 10
124780480 AAAATATAAT
124780490 TATTAAAAAA
1 TATTAAAAAA
**
124780500 TATTAAAACC
1 TATTAAAAAA
* *
124780510 CATT-TAAAA
1 TATTAAAAAA
124780519 --TTAAAAAA
1 TATTAAAAAA
124780527 GTATT-AAAAA
1 -TATTAAAAAA
*
124780537 T-TTTAAAAA
1 TATTAAAAAA
*
124780546 TAATAAAAAA
1 TATTAAAAAA
124780556 TATTAAAA
1 TATTAAAA
124780564 TTGATATAAA
Statistics
Matches: 48, Mismatches: 10, Indels: 12
0.69 0.14 0.17
Matches are distributed among these distances:
7 2 0.04
8 6 0.12
9 9 0.19
10 29 0.60
11 2 0.04
ACGTcount: A:0.64, C:0.04, G:0.01, T:0.31
Consensus pattern (10 bp):
TATTAAAAAA
Found at i:124780539 original size:25 final size:24
Alignment explanation
Indices: 124780491--124780563 Score: 56
Period size: 28 Copynumber: 2.7 Consensus size: 24
124780481 AAATATAATT
*
124780491 ATTAAAAAATATTAAAACCCATTTAAA
1 ATTAAAAAATATTAAAA---ATATAAA
*
124780518 ATTAAAAAAGTATTAAAAATTTTAAAA
1 ATTAAAAAA-TATTAAAAA-TAT-AAA
124780545 ATAATAAAAAATATTAAAA
1 AT--TAAAAAATATTAAAA
124780564 TTGATATAAA
Statistics
Matches: 41, Mismatches: 0, Indels: 9
0.82 0.00 0.18
Matches are distributed among these distances:
25 1 0.02
26 3 0.07
27 14 0.34
28 16 0.39
29 7 0.17
ACGTcount: A:0.64, C:0.04, G:0.01, T:0.30
Consensus pattern (24 bp):
ATTAAAAAATATTAAAAATATAAA
Found at i:124781154 original size:10 final size:9
Alignment explanation
Indices: 124780999--124781198 Score: 94
Period size: 9 Copynumber: 21.7 Consensus size: 9
124780989 TCTTACAATT
124780999 TTTTTATAA
1 TTTTTATAA
124781008 TTTTTATAA
1 TTTTTATAA
124781017 TTATTTATCAA
1 TT-TTTAT-AA
*
124781028 TTTTAAT-A
1 TTTTTATAA
*
124781036 TTTTATATTA
1 TTTT-TATAA
**
124781046 TTTTTACGA
1 TTTTTATAA
*
124781055 TTTTTATAC
1 TTTTTATAA
*
124781064 GTTTTATAAA
1 TTTTTAT-AA
* *
124781074 ATTTTAAATA
1 TTTTTATA-A
124781084 TATTTTATTAA
1 T-TTTTA-TAA
*
124781095 TATTATATATA
1 T-TTTTATA-A
124781106 TTTTT-TAA
1 TTTTTATAA
124781114 -TTTT-TAA
1 TTTTTATAA
124781121 TTTTTAT--
1 TTTTTATAA
124781128 TTTTTGA-AA
1 TTTTT-ATAA
*
124781137 TATTTATAA
1 TTTTTATAA
124781146 TTTTT-TATA
1 TTTTTATA-A
124781155 TTTTTATAA
1 TTTTTATAA
*
124781164 GTTTATATCAA
1 -TTTTTAT-AA
*
124781175 TTTTCATATA
1 TTTTTATA-A
*
124781185 TTTTT-TAT
1 TTTTTATAA
124781193 TTTTTA
1 TTTTTA
124781199 AAAAATTTTT
Statistics
Matches: 148, Mismatches: 22, Indels: 42
0.70 0.10 0.20
Matches are distributed among these distances:
7 12 0.08
8 19 0.13
9 52 0.35
10 44 0.30
11 20 0.14
12 1 0.01
ACGTcount: A:0.32, C:0.03, G:0.02, T:0.64
Consensus pattern (9 bp):
TTTTTATAA
Found at i:124782344 original size:2 final size:2
Alignment explanation
Indices: 124782337--124782369 Score: 59
Period size: 2 Copynumber: 17.0 Consensus size: 2
124782327 TGTCTTCTTC
124782337 CT CT CT CT CT CT CT CT CT CT CT CT CT CT -T CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
124782370 TTTTGTTGAG
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 29 0.97
ACGTcount: A:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
CT
Found at i:124786695 original size:37 final size:33
Alignment explanation
Indices: 124786625--124786687 Score: 119
Period size: 33 Copynumber: 1.9 Consensus size: 33
124786615 TTAATATTTA
124786625 TGATTATATATTCATAACAAAAAAAAGAAAATT
1 TGATTATATATTCATAACAAAAAAAAGAAAATT
124786658 TGATTATATATTCATAACAAAAAAAA-AAAA
1 TGATTATATATTCATAACAAAAAAAAGAAAA
124786688 GAAAATTTTA
Statistics
Matches: 30, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
32 4 0.13
33 26 0.87
ACGTcount: A:0.60, C:0.06, G:0.05, T:0.29
Consensus pattern (33 bp):
TGATTATATATTCATAACAAAAAAAAGAAAATT
Found at i:124793865 original size:18 final size:17
Alignment explanation
Indices: 124793813--124793867 Score: 58
Period size: 18 Copynumber: 3.1 Consensus size: 17
124793803 AATTAAAATT
* *
124793813 TATTTTTTAATAAGATAA
1 TATTTTATAATAA-TTAA
124793831 TATTTTATAATAATTAA
1 TATTTTATAATAATTAA
124793848 TATCTTATATAA-AATTAA
1 TAT-TT-TATAATAATTAA
124793866 TA
1 TA
124793868 ATAATCAATG
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
17 6 0.18
18 22 0.67
19 5 0.15
ACGTcount: A:0.47, C:0.02, G:0.02, T:0.49
Consensus pattern (17 bp):
TATTTTATAATAATTAA
Found at i:124796897 original size:2 final size:2
Alignment explanation
Indices: 124796890--124796919 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
124796880 GTATGAACAT
124796890 TC TC TC TC TC TC TC TC TC TC T- TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
124796920 TTATGCATGC
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 26 0.96
ACGTcount: A:0.00, C:0.47, G:0.00, T:0.53
Consensus pattern (2 bp):
TC
Found at i:124802306 original size:35 final size:35
Alignment explanation
Indices: 124802260--124802330 Score: 142
Period size: 35 Copynumber: 2.0 Consensus size: 35
124802250 TATGATGATG
124802260 AGCATTTGAATTTACTCCATTTTTTATTACTCATA
1 AGCATTTGAATTTACTCCATTTTTTATTACTCATA
124802295 AGCATTTGAATTTACTCCATTTTTTATTACTCATA
1 AGCATTTGAATTTACTCCATTTTTTATTACTCATA
124802330 A
1 A
124802331 CTGAACCAGT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 36 1.00
ACGTcount: A:0.30, C:0.17, G:0.06, T:0.48
Consensus pattern (35 bp):
AGCATTTGAATTTACTCCATTTTTTATTACTCATA
Found at i:124803932 original size:43 final size:43
Alignment explanation
Indices: 124803880--124803966 Score: 174
Period size: 43 Copynumber: 2.0 Consensus size: 43
124803870 AGAAAGTATC
124803880 ACAAATAAATTAAAAAATACTGCATTTTTCAAGTCCCATCACT
1 ACAAATAAATTAAAAAATACTGCATTTTTCAAGTCCCATCACT
124803923 ACAAATAAATTAAAAAATACTGCATTTTTCAAGTCCCATCACT
1 ACAAATAAATTAAAAAATACTGCATTTTTCAAGTCCCATCACT
124803966 A
1 A
124803967 AGGAAAGAGT
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
43 44 1.00
ACGTcount: A:0.45, C:0.21, G:0.05, T:0.30
Consensus pattern (43 bp):
ACAAATAAATTAAAAAATACTGCATTTTTCAAGTCCCATCACT
Found at i:124804753 original size:36 final size:36
Alignment explanation
Indices: 124804706--124804774 Score: 138
Period size: 36 Copynumber: 1.9 Consensus size: 36
124804696 GTAACTGTTA
124804706 AGGGTTAAAACTTTTAAAATCAAAACTAAATTATTG
1 AGGGTTAAAACTTTTAAAATCAAAACTAAATTATTG
124804742 AGGGTTAAAACTTTTAAAATCAAAACTAAATTA
1 AGGGTTAAAACTTTTAAAATCAAAACTAAATTA
124804775 ACATAATGTA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 33 1.00
ACGTcount: A:0.49, C:0.09, G:0.10, T:0.32
Consensus pattern (36 bp):
AGGGTTAAAACTTTTAAAATCAAAACTAAATTATTG
Found at i:124805099 original size:3 final size:3
Alignment explanation
Indices: 124805091--124805131 Score: 82
Period size: 3 Copynumber: 13.7 Consensus size: 3
124805081 GCTTTAAATC
124805091 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
124805132 CAGAAGTTAA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 38 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:124805278 original size:18 final size:19
Alignment explanation
Indices: 124805240--124805279 Score: 55
Period size: 20 Copynumber: 2.1 Consensus size: 19
124805230 ATATATCTAT
124805240 AAAAACTTGATATAATTATA
1 AAAAACTTGATATAA-TATA
*
124805260 AAAAATTTGATATAA-ATA
1 AAAAACTTGATATAATATA
124805278 AA
1 AA
124805280 GGTTTAGTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 5 0.26
20 14 0.74
ACGTcount: A:0.60, C:0.03, G:0.05, T:0.33
Consensus pattern (19 bp):
AAAAACTTGATATAATATA
Found at i:124805386 original size:22 final size:22
Alignment explanation
Indices: 124805351--124805400 Score: 59
Period size: 22 Copynumber: 2.3 Consensus size: 22
124805341 AATATTTTTT
124805351 AAATAATATAATTTATTTGAT-A
1 AAATAATATAATTT-TTTGATGA
*
124805373 AAATAATA-ATATTTTTTGGTGA
1 AAATAATATA-ATTTTTTGATGA
124805395 AAATAA
1 AAATAA
124805401 AAAAAAATAA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
21 6 0.24
22 19 0.76
ACGTcount: A:0.50, C:0.00, G:0.08, T:0.42
Consensus pattern (22 bp):
AAATAATATAATTTTTTGATGA
Found at i:124808655 original size:16 final size:17
Alignment explanation
Indices: 124808631--124808664 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
124808621 CCTGAGCACA
124808631 CGCCCGTGTTGCT-AGG
1 CGCCCGTGTTGCTCAGG
*
124808647 CGCCTGTGTTGCTCAGG
1 CGCCCGTGTTGCTCAGG
124808664 C
1 C
124808665 CGTGTGATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 12 0.75
17 4 0.25
ACGTcount: A:0.06, C:0.32, G:0.35, T:0.26
Consensus pattern (17 bp):
CGCCCGTGTTGCTCAGG
Found at i:124809649 original size:53 final size:52
Alignment explanation
Indices: 124809568--124809671 Score: 138
Period size: 53 Copynumber: 2.0 Consensus size: 52
124809558 CGGATTACAT
* *
124809568 ATCATACCGATGCCATATCCCAAATATGGTATTATAT-GGAATCACATTATCAC
1 ATCACACCGATGCCATAACCCAAATATGGTATTATATGGGAA-CACA-TATCAC
** *
124809621 ATCACACCGATGCCATAACCCAGCTATGGTCTTATATGGGAACACATATCA
1 ATCACACCGATGCCATAACCCAAATATGGTATTATATGGGAACACATATCA
124809672 TATCTTTTCC
Statistics
Matches: 45, Mismatches: 5, Indels: 3
0.85 0.09 0.06
Matches are distributed among these distances:
52 5 0.11
53 36 0.80
54 4 0.09
ACGTcount: A:0.35, C:0.25, G:0.13, T:0.27
Consensus pattern (52 bp):
ATCACACCGATGCCATAACCCAAATATGGTATTATATGGGAACACATATCAC
Found at i:124817213 original size:52 final size:52
Alignment explanation
Indices: 124817086--124817221 Score: 168
Period size: 52 Copynumber: 2.6 Consensus size: 52
124817076 ATATCCCAAA
*
124817086 TATGGTATTATACGAAATCACATTATCACATCACACCGATGCCATAGCCCAGC
1 TATGGTCTTATACGAAATCACA-TATCACATCACACCGATGCCATAGCCCAGC
* *** *
124817139 TATGGTCTTATACGGGAA-CACATATCACATTGTACCGATGCCATAGCCCTGC
1 TATGGTCTTATAC-GAAATCACATATCACATCACACCGATGCCATAGCCCAGC
*
124817191 TATGGTCTTATAC-AAATGCACATATTACATC
1 TATGGTCTTATACGAAAT-CACATATCACATC
124817222 TTTCCCGTCA
Statistics
Matches: 71, Mismatches: 9, Indels: 7
0.82 0.10 0.08
Matches are distributed among these distances:
50 2 0.03
52 50 0.70
53 16 0.23
54 3 0.04
ACGTcount: A:0.32, C:0.26, G:0.15, T:0.28
Consensus pattern (52 bp):
TATGGTCTTATACGAAATCACATATCACATCACACCGATGCCATAGCCCAGC
Found at i:124825726 original size:34 final size:34
Alignment explanation
Indices: 124825683--124825750 Score: 136
Period size: 34 Copynumber: 2.0 Consensus size: 34
124825673 TGATGAGGAA
124825683 GGTAAGAGTATGATCAGTACTTTACATACAAAAT
1 GGTAAGAGTATGATCAGTACTTTACATACAAAAT
124825717 GGTAAGAGTATGATCAGTACTTTACATACAAAAT
1 GGTAAGAGTATGATCAGTACTTTACATACAAAAT
124825751 ACTTCATCAT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 34 1.00
ACGTcount: A:0.41, C:0.12, G:0.18, T:0.29
Consensus pattern (34 bp):
GGTAAGAGTATGATCAGTACTTTACATACAAAAT
Found at i:124825958 original size:19 final size:18
Alignment explanation
Indices: 124825936--124826029 Score: 77
Period size: 19 Copynumber: 5.2 Consensus size: 18
124825926 TGAATAAAAC
*
124825936 TTATCTTCCTAAATAAGAT
1 TTATCTACCTAAATAA-AT
124825955 TTATCTACCTAAATAAAT
1 TTATCTACCTAAATAAAT
** *
124825973 TTA---AAATATATACATAT
1 TTATCTACCTAAATA-A-AT
* *
124825990 TTATCTTCCTAAAGAAGAT
1 TTATCTACCTAAATAA-AT
124826009 TTATCTACCTAAATAAAT
1 TTATCTACCTAAATAAAT
124826027 TTA
1 TTA
124826030 AAATATATAC
Statistics
Matches: 58, Mismatches: 12, Indels: 11
0.72 0.15 0.14
Matches are distributed among these distances:
15 6 0.10
16 1 0.02
17 5 0.09
18 10 0.17
19 32 0.55
20 4 0.07
ACGTcount: A:0.43, C:0.14, G:0.03, T:0.40
Consensus pattern (18 bp):
TTATCTACCTAAATAAAT
Found at i:124825999 original size:54 final size:54
Alignment explanation
Indices: 124825936--124826045 Score: 211
Period size: 54 Copynumber: 2.0 Consensus size: 54
124825926 TGAATAAAAC
*
124825936 TTATCTTCCTAAATAAGATTTATCTACCTAAATAAATTTAAAATATATACATAT
1 TTATCTTCCTAAAGAAGATTTATCTACCTAAATAAATTTAAAATATATACATAT
124825990 TTATCTTCCTAAAGAAGATTTATCTACCTAAATAAATTTAAAATATATACATAT
1 TTATCTTCCTAAAGAAGATTTATCTACCTAAATAAATTTAAAATATATACATAT
124826044 TT
1 TT
124826046 CAACACCCTC
Statistics
Matches: 55, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
54 55 1.00
ACGTcount: A:0.44, C:0.13, G:0.03, T:0.41
Consensus pattern (54 bp):
TTATCTTCCTAAAGAAGATTTATCTACCTAAATAAATTTAAAATATATACATAT
Found at i:124828400 original size:42 final size:42
Alignment explanation
Indices: 124828353--124828433 Score: 144
Period size: 42 Copynumber: 1.9 Consensus size: 42
124828343 CCTAAATGGA
*
124828353 AAAATAGTTCTCTTATTCTAATAAACTACTAAAACATAAGGG
1 AAAATAGTTCCCTTATTCTAATAAACTACTAAAACATAAGGG
*
124828395 AAAATAGTTCCCTTATTCTAATAAACTACTAAAAGATAA
1 AAAATAGTTCCCTTATTCTAATAAACTACTAAAACATAA
124828434 AAAAAAAAAT
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
42 37 1.00
ACGTcount: A:0.47, C:0.15, G:0.07, T:0.31
Consensus pattern (42 bp):
AAAATAGTTCCCTTATTCTAATAAACTACTAAAACATAAGGG
Found at i:124828486 original size:19 final size:18
Alignment explanation
Indices: 124828462--124828505 Score: 70
Period size: 19 Copynumber: 2.4 Consensus size: 18
124828452 AATATGAATA
*
124828462 AAATTTATCTTCCTAAAT
1 AAATTTATCTACCTAAAT
124828480 AAGATTTATCTACCTAAAT
1 AA-ATTTATCTACCTAAAT
124828499 AAATTTA
1 AAATTTA
124828506 AAATATGTAC
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
18 7 0.29
19 17 0.71
ACGTcount: A:0.43, C:0.14, G:0.02, T:0.41
Consensus pattern (18 bp):
AAATTTATCTACCTAAAT
Found at i:124839226 original size:54 final size:54
Alignment explanation
Indices: 124839142--124839249 Score: 173
Period size: 54 Copynumber: 2.0 Consensus size: 54
124839132 TGTTCCAGCT
* *
124839142 CCGCCGCCCGGTGCACCAACCACCTTTTTCCCATCTCCTCCACATACCAAGCCC
1 CCGCCGCCCGGTGCACCAACCACCTCTTTCCCATCTCCTCCACACACCAAGCCC
*
124839196 CCGCCGCCC-GTGGCAGCAACCACCTCTTTCCCATCTCCTCCACACACCAAGCCC
1 CCGCCGCCCGGT-GCACCAACCACCTCTTTCCCATCTCCTCCACACACCAAGCCC
124839250 GACAACTTAG
Statistics
Matches: 50, Mismatches: 3, Indels: 2
0.91 0.05 0.04
Matches are distributed among these distances:
53 2 0.04
54 48 0.96
ACGTcount: A:0.19, C:0.53, G:0.12, T:0.17
Consensus pattern (54 bp):
CCGCCGCCCGGTGCACCAACCACCTCTTTCCCATCTCCTCCACACACCAAGCCC
Found at i:124853384 original size:14 final size:14
Alignment explanation
Indices: 124853365--124853403 Score: 53
Period size: 14 Copynumber: 2.8 Consensus size: 14
124853355 TTGTTTCACT
*
124853365 GAAAATGACTTTC-G
1 GAAAATGA-TTTCTA
124853379 GAAAATGATTTCTA
1 GAAAATGATTTCTA
124853393 GAAAATGATTT
1 GAAAATGATTT
124853404 ACTTTTCTGA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
13 4 0.17
14 19 0.83
ACGTcount: A:0.41, C:0.08, G:0.18, T:0.33
Consensus pattern (14 bp):
GAAAATGATTTCTA
Found at i:124854037 original size:22 final size:22
Alignment explanation
Indices: 124853997--124854052 Score: 62
Period size: 22 Copynumber: 2.6 Consensus size: 22
124853987 AAATAAATTG
*
124853997 AAATATTAAA-TA-ATTTATTA
1 AAATAATAAATTATATTTATTA
124854017 AAATAATAAATTATATTTATTA
1 AAATAATAAATTATATTTATTA
* * *
124854039 TATTAATAATTTAT
1 AAATAATAAATTAT
124854053 TATATGACTA
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
20 9 0.30
21 2 0.07
22 19 0.63
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (22 bp):
AAATAATAAATTATATTTATTA
Found at i:124854472 original size:29 final size:28
Alignment explanation
Indices: 124854440--124854504 Score: 69
Period size: 29 Copynumber: 2.2 Consensus size: 28
124854430 TTCACCTTAT
*
124854440 TTAATTTTTTCAATAATACAAAG-ATTAAA
1 TTAATTTTTT-AATAATA-AAAGAACTAAA
* *
124854469 TTAATTCATTTAATAATAGAAGAACTAAA
1 TTAATT-TTTTAATAATAAAAGAACTAAA
124854498 TTAATTT
1 TTAATTT
124854505 AGTCCCTATA
Statistics
Matches: 30, Mismatches: 4, Indels: 5
0.77 0.10 0.13
Matches are distributed among these distances:
28 3 0.10
29 24 0.80
30 3 0.10
ACGTcount: A:0.48, C:0.06, G:0.05, T:0.42
Consensus pattern (28 bp):
TTAATTTTTTAATAATAAAAGAACTAAA
Found at i:124854861 original size:2 final size:2
Alignment explanation
Indices: 124854854--124854887 Score: 61
Period size: 2 Copynumber: 17.5 Consensus size: 2
124854844 TTTGTTATGT
124854854 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T- TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
124854888 GATGTGTGCC
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 30 0.97
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (2 bp):
TA
Found at i:124855759 original size:23 final size:24
Alignment explanation
Indices: 124855716--124855761 Score: 76
Period size: 23 Copynumber: 2.0 Consensus size: 24
124855706 GTGATTATTA
*
124855716 TGAATTATTGTTAAATTGTTTGGT
1 TGAATTATTGTTAAATAGTTTGGT
124855740 TGAATTATT-TTAAATAGTTTGG
1 TGAATTATTGTTAAATAGTTTGG
124855762 ATTGCTTCGA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
23 12 0.57
24 9 0.43
ACGTcount: A:0.28, C:0.00, G:0.20, T:0.52
Consensus pattern (24 bp):
TGAATTATTGTTAAATAGTTTGGT
Found at i:124856679 original size:16 final size:17
Alignment explanation
Indices: 124856658--124856696 Score: 55
Period size: 16 Copynumber: 2.4 Consensus size: 17
124856648 TTTAATAATT
124856658 ATAATAAT-TTATTTTA
1 ATAATAATATTATTTTA
124856674 ATAAT-ATATTATTTTA
1 ATAATAATATTATTTTA
*
124856690 AAAATAA
1 ATAATAA
124856697 AATGCAGTCA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
15 2 0.10
16 17 0.85
17 1 0.05
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (17 bp):
ATAATAATATTATTTTA
Found at i:124857047 original size:21 final size:21
Alignment explanation
Indices: 124857005--124857047 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 21
124856995 TTAAGGAATT
*
124857005 ATTTTAAAAATATTTTATATA
1 ATTTTAAAAATATTATATATA
*
124857026 ATTTTAATAA-ATTATATGATA
1 ATTTTAAAAATATTATAT-ATA
124857047 A
1 A
124857048 AATAAATCTA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
20 6 0.32
21 13 0.68
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (21 bp):
ATTTTAAAAATATTATATATA
Found at i:124857087 original size:21 final size:22
Alignment explanation
Indices: 124857033--124857087 Score: 67
Period size: 22 Copynumber: 2.5 Consensus size: 22
124857023 ATAATTTTAA
*
124857033 TAAATTATATGATAAAATAAATC
1 TAAATTATA-GAAAAAATAAATC
*
124857056 TAAATTATAGAAAAAATAATTC
1 TAAATTATAGAAAAAATAAATC
*
124857078 TATATT-TAGA
1 TAAATTATAGA
124857088 CGGGGTGCCC
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
21 4 0.14
22 16 0.55
23 9 0.31
ACGTcount: A:0.55, C:0.04, G:0.05, T:0.36
Consensus pattern (22 bp):
TAAATTATAGAAAAAATAAATC
Found at i:124857307 original size:12 final size:13
Alignment explanation
Indices: 124857283--124857311 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
124857273 TCAAAATCAC
124857283 CCTTTTGTTTTCT
1 CCTTTTGTTTTCT
124857296 CCTTTT-TTTTCT
1 CCTTTTGTTTTCT
124857308 CCTT
1 CCTT
124857312 CTTTACAGTC
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 10 0.62
13 6 0.38
ACGTcount: A:0.00, C:0.28, G:0.03, T:0.69
Consensus pattern (13 bp):
CCTTTTGTTTTCT
Found at i:124871167 original size:6 final size:6
Alignment explanation
Indices: 124871156--124871182 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
124871146 TCTCCCTAAA
124871156 CCCCAC CCCCAC CCCCAC CCCCAC CCC
1 CCCCAC CCCCAC CCCCAC CCCCAC CCC
124871183 TACTCCAACT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.15, C:0.85, G:0.00, T:0.00
Consensus pattern (6 bp):
CCCCAC
Found at i:124872243 original size:14 final size:14
Alignment explanation
Indices: 124872224--124872251 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
124872214 GTGTTGATCT
124872224 TGGTACTGATGGCA
1 TGGTACTGATGGCA
124872238 TGGTACTGATGGCA
1 TGGTACTGATGGCA
124872252 AGATGTTAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.21, C:0.14, G:0.36, T:0.29
Consensus pattern (14 bp):
TGGTACTGATGGCA
Found at i:124874275 original size:54 final size:53
Alignment explanation
Indices: 124874189--124874358 Score: 186
Period size: 51 Copynumber: 3.2 Consensus size: 53
124874179 TTTTTTCCTT
*
124874189 GTTGAAACAAAAAATAGTGGACTTTTTTGCACAAATAAATGGAAAACTTGCTCTCAA
1 GTTGAAA-AAAAAA-GGTGGA--TTTTTGCACAAATAAATGGAAAACTTGCTCTCAA
* * *
124874246 ATTGAAAAAAAAAGGTGGAATTTTTGCACAAATAATTGGACAACTTGCTCTCAA
1 GTTGAAAAAAAAAGGTGG-ATTTTTGCACAAATAAATGGAAAACTTGCTCTCAA
* * *
124874300 GTTG---AAAAAAGGTGGATTCTTTGCTCAAATAAAT-GAATATCATGCTCTCAA
1 GTTGAAAAAAAAAGGTGGATT-TTTGCACAAATAAATGGAA-AACTTGCTCTCAA
124874351 GTTGAAAA
1 GTTGAAAA
124874359 TATTGTATCC
Statistics
Matches: 97, Mismatches: 10, Indels: 15
0.80 0.08 0.12
Matches are distributed among these distances:
50 5 0.05
51 39 0.40
54 36 0.37
55 4 0.04
56 7 0.07
57 6 0.06
ACGTcount: A:0.41, C:0.13, G:0.17, T:0.29
Consensus pattern (53 bp):
GTTGAAAAAAAAAGGTGGATTTTTGCACAAATAAATGGAAAACTTGCTCTCAA
Found at i:124884580 original size:28 final size:28
Alignment explanation
Indices: 124884547--124884601 Score: 101
Period size: 28 Copynumber: 2.0 Consensus size: 28
124884537 TAGTTCATCA
*
124884547 ACAACCGCAATTATCTAAGAATGTTTGG
1 ACAACCACAATTATCTAAGAATGTTTGG
124884575 ACAACCACAATTATCTAAGAATGTTTG
1 ACAACCACAATTATCTAAGAATGTTTG
124884602 AACTGGACCT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
28 26 1.00
ACGTcount: A:0.38, C:0.18, G:0.15, T:0.29
Consensus pattern (28 bp):
ACAACCACAATTATCTAAGAATGTTTGG
Found at i:124886560 original size:24 final size:23
Alignment explanation
Indices: 124886533--124886590 Score: 62
Period size: 25 Copynumber: 2.4 Consensus size: 23
124886523 TTTCTCTCTC
* *
124886533 AATAATATTATCTTTAAAATTATT
1 AATAATATTATCTCTAAAAATA-T
*
124886557 AATAAATTTTATCTCTAAAAATAT
1 AAT-AATATTATCTCTAAAAATAT
*
124886581 AATGATATTA
1 AATAATATTA
124886591 GCTAGATTTT
Statistics
Matches: 28, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
23 5 0.18
24 7 0.25
25 16 0.57
ACGTcount: A:0.48, C:0.05, G:0.02, T:0.45
Consensus pattern (23 bp):
AATAATATTATCTCTAAAAATAT
Found at i:124889338 original size:2 final size:2
Alignment explanation
Indices: 124889327--124889355 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
124889317 ACTTCTGTTA
124889327 AT AT -T AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
124889356 TGGAAGAAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 25 0.96
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
AT
Found at i:124911546 original size:29 final size:29
Alignment explanation
Indices: 124911504--124911561 Score: 116
Period size: 29 Copynumber: 2.0 Consensus size: 29
124911494 AGAAGAAACA
124911504 AAGCTTATGTTGCTCTCTTTCAGATTGCT
1 AAGCTTATGTTGCTCTCTTTCAGATTGCT
124911533 AAGCTTATGTTGCTCTCTTTCAGATTGCT
1 AAGCTTATGTTGCTCTCTTTCAGATTGCT
124911562 CGTAAAGTTG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.17, C:0.21, G:0.17, T:0.45
Consensus pattern (29 bp):
AAGCTTATGTTGCTCTCTTTCAGATTGCT
Found at i:124912635 original size:15 final size:15
Alignment explanation
Indices: 124912615--124912646 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
124912605 TGAACATAGA
124912615 AGGAATAAATTTTAT
1 AGGAATAAATTTTAT
124912630 AGGAATAAATTTTAT
1 AGGAATAAATTTTAT
124912645 AG
1 AG
124912647 TGCATTTGCT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.47, C:0.00, G:0.16, T:0.38
Consensus pattern (15 bp):
AGGAATAAATTTTAT
Found at i:124919848 original size:44 final size:44
Alignment explanation
Indices: 124919785--124919871 Score: 174
Period size: 44 Copynumber: 2.0 Consensus size: 44
124919775 TGTCCTAGCG
124919785 ATATCCAATATTATGCTATGCATCATTTCTGGGCTATAAGAGAA
1 ATATCCAATATTATGCTATGCATCATTTCTGGGCTATAAGAGAA
124919829 ATATCCAATATTATGCTATGCATCATTTCTGGGCTATAAGAGA
1 ATATCCAATATTATGCTATGCATCATTTCTGGGCTATAAGAGA
124919872 TGTAATTCCG
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
44 43 1.00
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.34
Consensus pattern (44 bp):
ATATCCAATATTATGCTATGCATCATTTCTGGGCTATAAGAGAA
Found at i:124931827 original size:138 final size:138
Alignment explanation
Indices: 124931658--124931931 Score: 440
Period size: 138 Copynumber: 2.0 Consensus size: 138
124931648 TCTTTTCTTC
* * * *
124931658 GATGTAAACTTATCACTCGTAGTTGCTAAAGTAAGGGCTTCATTGATCTTCAGTTTATGATGATT
1 GATGTAAAATTATCACTCGTAGTTGCCAAAGTAAGGGCTTCATTGATATTCAGTTTATAATGATT
* * *
124931723 GTTACGTTCACCAACTTCAACCCCTGGGGGTTTATTCGTTGAAAGAGACCATTCTAACGAGCTAT
66 GTTACGTTCACCAACTTCAACCCCTGGGGGTTTATTCATTGAAAGAGACAATTCTAACGAGATAT
*
124931788 CGGCATTG
131 CAGCATTG
124931796 GATGTAAAATTATCACTCGTAGTTGCCAAAGTAAGGGCTTCATTGATATTCAGTTTATAATGATT
1 GATGTAAAATTATCACTCGTAGTTGCCAAAGTAAGGGCTTCATTGATATTCAGTTTATAATGATT
** * *
124931861 GTTACGTTGGCCGACTTCAACCCTTGGGGGTTTATTCATTGAAAGAGACAATTCTAACGAGATAT
66 GTTACGTTCACCAACTTCAACCCCTGGGGGTTTATTCATTGAAAGAGACAATTCTAACGAGATAT
124931926 CAGCAT
131 CAGCAT
124931932 CGGTAGCGTC
Statistics
Matches: 124, Mismatches: 12, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
138 124 1.00
ACGTcount: A:0.28, C:0.18, G:0.21, T:0.33
Consensus pattern (138 bp):
GATGTAAAATTATCACTCGTAGTTGCCAAAGTAAGGGCTTCATTGATATTCAGTTTATAATGATT
GTTACGTTCACCAACTTCAACCCCTGGGGGTTTATTCATTGAAAGAGACAATTCTAACGAGATAT
CAGCATTG
Found at i:124936778 original size:12 final size:12
Alignment explanation
Indices: 124936761--124936787 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
124936751 ATATAATTGT
124936761 GTACAGTGTTCG
1 GTACAGTGTTCG
124936773 GTACAGTGTTCG
1 GTACAGTGTTCG
124936785 GTA
1 GTA
124936788 AGATTTGTGT
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:0.19, C:0.15, G:0.33, T:0.33
Consensus pattern (12 bp):
GTACAGTGTTCG
Found at i:124937322 original size:20 final size:20
Alignment explanation
Indices: 124937297--124937355 Score: 82
Period size: 20 Copynumber: 3.0 Consensus size: 20
124937287 CTGCTCATGG
*
124937297 CCAGGCCACACGGGCATGTT
1 CCAGGCCACACGGGCATGTC
* **
124937317 CCAGGCCATACGGGGGTGTC
1 CCAGGCCACACGGGCATGTC
124937337 CCAGGCCACACGGGCATGT
1 CCAGGCCACACGGGCATGT
124937356 GCCCCTATCT
Statistics
Matches: 32, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
20 32 1.00
ACGTcount: A:0.19, C:0.34, G:0.34, T:0.14
Consensus pattern (20 bp):
CCAGGCCACACGGGCATGTC
Found at i:124940400 original size:27 final size:28
Alignment explanation
Indices: 124940370--124940423 Score: 76
Period size: 27 Copynumber: 2.0 Consensus size: 28
124940360 AATTATATAA
124940370 AATTTTAAAATAT-AAAAACT-AAATTTC
1 AATTTT-AAATATCAAAAACTGAAATTTC
*
124940397 AATTTTAGATATCAAAAACTGAAATTT
1 AATTTTAAATATCAAAAACTGAAATTT
124940424 AAATAATGTA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
26 5 0.21
27 13 0.54
28 6 0.25
ACGTcount: A:0.52, C:0.07, G:0.04, T:0.37
Consensus pattern (28 bp):
AATTTTAAATATCAAAAACTGAAATTTC
Found at i:124940988 original size:29 final size:30
Alignment explanation
Indices: 124940932--124940988 Score: 80
Period size: 29 Copynumber: 1.9 Consensus size: 30
124940922 TTTTTTTAAT
*
124940932 TTTTAAAAATATAAAAAATATATGAAAATA
1 TTTTAAAAATATAAAAAATATATAAAAATA
* *
124940962 TTTTAAAAAT-TAAAAATTATTTAAAAA
1 TTTTAAAAATATAAAAAATATATAAAAA
124940989 GTGTATACGT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
29 14 0.58
30 10 0.42
ACGTcount: A:0.61, C:0.00, G:0.02, T:0.37
Consensus pattern (30 bp):
TTTTAAAAATATAAAAAATATATAAAAATA
Found at i:124941246 original size:23 final size:23
Alignment explanation
Indices: 124941177--124941264 Score: 79
Period size: 23 Copynumber: 3.8 Consensus size: 23
124941167 TCATTAACAT
* * *
124941177 TGTTCGTGAACATGTTCAATTATA
1 TGTTTGTGAACATATTCGATTA-A
* * *
124941201 TGTTTGTGAACATGTTAGTTTAA
1 TGTTTGTGAACATATTCGATTAA
124941224 TGTTTGTGAACATATTCGATTAA
1 TGTTTGTGAACATATTCGATTAA
**
124941247 -GTTAAATGAACATATTCG
1 TGTT-TGTGAACATATTCG
124941265 TAAACATAAA
Statistics
Matches: 54, Mismatches: 9, Indels: 3
0.82 0.14 0.05
Matches are distributed among these distances:
22 3 0.06
23 33 0.61
24 18 0.33
ACGTcount: A:0.31, C:0.09, G:0.18, T:0.42
Consensus pattern (23 bp):
TGTTTGTGAACATATTCGATTAA
Found at i:124950547 original size:5 final size:5
Alignment explanation
Indices: 124950537--124950565 Score: 58
Period size: 5 Copynumber: 5.8 Consensus size: 5
124950527 TGCTAATTAG
124950537 GTAAT GTAAT GTAAT GTAAT GTAAT GTAA
1 GTAAT GTAAT GTAAT GTAAT GTAAT GTAA
124950566 GTAGGCAAAG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 24 1.00
ACGTcount: A:0.41, C:0.00, G:0.21, T:0.38
Consensus pattern (5 bp):
GTAAT
Found at i:124954652 original size:2 final size:2
Alignment explanation
Indices: 124954640--124954670 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
124954630 AGATTAAGTG
*
124954640 TA TA CA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
124954671 GTGTAAGTTG
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.03, G:0.00, T:0.48
Consensus pattern (2 bp):
TA
Found at i:124963297 original size:5 final size:5
Alignment explanation
Indices: 124963287--124963318 Score: 57
Period size: 5 Copynumber: 6.6 Consensus size: 5
124963277 CCTAACTTAG
124963287 AATTA AATTA AATTA AATTA AATTA AA-TA AAT
1 AATTA AATTA AATTA AATTA AATTA AATTA AAT
124963319 AAACAATTTT
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
4 4 0.15
5 22 0.85
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (5 bp):
AATTA
Found at i:124965523 original size:31 final size:31
Alignment explanation
Indices: 124965481--124965583 Score: 87
Period size: 31 Copynumber: 3.4 Consensus size: 31
124965471 TTTATATTTT
124965481 TTTATAA--TTTTCTTATGACTTTATAAAATA
1 TTTATAATTTTTTCTTATGA-TTTATAAAATA
*
124965511 TTT-TAATTTTTTCTGTAT--TTCTAT-ATATA
1 TTTATAATTTTTTCT-TATGATT-TATAAAATA
124965540 TTTATAATTTTTT-TTATGATTTTTATAAAAT-
1 TTTATAATTTTTTCTTATGA--TTTATAAAATA
*
124965571 TTTACAATTTTTT
1 TTTATAATTTTTT
124965584 TAGAATTTTT
Statistics
Matches: 60, Mismatches: 3, Indels: 19
0.73 0.04 0.23
Matches are distributed among these distances:
28 3 0.05
29 13 0.22
30 15 0.25
31 21 0.35
32 8 0.13
ACGTcount: A:0.30, C:0.05, G:0.03, T:0.62
Consensus pattern (31 bp):
TTTATAATTTTTTCTTATGATTTATAAAATA
Found at i:124965532 original size:61 final size:62
Alignment explanation
Indices: 124965460--124965612 Score: 151
Period size: 61 Copynumber: 2.5 Consensus size: 62
124965450 CTTTTACGAA
*
124965460 TTTTA-TATTTCTTTATATTTTTTTATAATTTTCTTATGA-CTTTATAAAATATTT-TAATTT
1 TTTTAGTATTTCTTTATATTTTTTTATAATTTTCTTATGATCTTTATAAAAT-TTTACAATTT
* * * *
124965520 TTTCT-GTATTTC--TATATATATTTATAATTTTTTTTATGATTTTTATAAAATTTTACAATTT
1 TTT-TAGTATTTCTTTATATTTTTTTATAA-TTTTCTTATGATCTTTATAAAATTTTACAATTT
* * *
124965581 TTTTAG-AATT-TTTATAATTTTTTCTAATTTTC
1 TTTTAGTATTTCTTTATATTTTTTTATAATTTTC
124965613 AAATATTTTT
Statistics
Matches: 74, Mismatches: 11, Indels: 16
0.73 0.11 0.16
Matches are distributed among these distances:
59 13 0.18
60 24 0.32
61 37 0.50
ACGTcount: A:0.28, C:0.05, G:0.03, T:0.64
Consensus pattern (62 bp):
TTTTAGTATTTCTTTATATTTTTTTATAATTTTCTTATGATCTTTATAAAATTTTACAATTT
Found at i:124965573 original size:19 final size:20
Alignment explanation
Indices: 124965551--124965602 Score: 61
Period size: 20 Copynumber: 2.6 Consensus size: 20
124965541 TTATAATTTT
*
124965551 TTTTATGATTTTTATA-AAA
1 TTTTATAATTTTTATAGAAA
* * *
124965570 TTTTACAATTTTTTTAGAAT
1 TTTTATAATTTTTATAGAAA
124965590 TTTTATAATTTTT
1 TTTTATAATTTTT
124965603 TCTAATTTTC
Statistics
Matches: 27, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
19 13 0.48
20 14 0.52
ACGTcount: A:0.31, C:0.02, G:0.04, T:0.63
Consensus pattern (20 bp):
TTTTATAATTTTTATAGAAA
Found at i:124965584 original size:30 final size:31
Alignment explanation
Indices: 124965480--124965611 Score: 98
Period size: 30 Copynumber: 4.4 Consensus size: 31
124965470 CTTTATATTT
* *
124965480 TTTTATAATTTTCTTATG-A-CTTTATAAAA
1 TTTTATAATTTTTTTATGAATTTTTATAAAA
* * * *
124965509 TATTT-TAA-TTTTTTCTGTATTTCTAT-ATA
1 T-TTTATAATTTTTTTATGAATTTTTATAAAA
124965538 TATTTATAATTTTTTTTATG-ATTTTTATAAAA
1 T-TTTATAA-TTTTTTTATGAATTTTTATAAAA
* **
124965570 TTTTACAATTTTTTTA-GAATTTTTATAATT
1 TTTTATAATTTTTTTATGAATTTTTATAAAA
*
124965600 TTTTCTAATTTT
1 TTTTATAATTTT
124965612 CAAATATTTT
Statistics
Matches: 82, Mismatches: 13, Indels: 15
0.75 0.12 0.14
Matches are distributed among these distances:
28 7 0.09
29 13 0.16
30 38 0.46
31 13 0.16
32 11 0.13
ACGTcount: A:0.30, C:0.05, G:0.03, T:0.63
Consensus pattern (31 bp):
TTTTATAATTTTTTTATGAATTTTTATAAAA
Found at i:124965603 original size:19 final size:18
Alignment explanation
Indices: 124965550--124965603 Score: 54
Period size: 19 Copynumber: 2.8 Consensus size: 18
124965540 TTTATAATTT
*
124965550 TTTTTATGATTTTTATAAA
1 TTTTTATAATTTTT-TAAA
* *
124965569 ATTTTACAATTTTTTTAGAA
1 TTTTTATAA-TTTTTTA-AA
124965589 TTTTTATAATTTTTT
1 TTTTTATAATTTTTT
124965604 CTAATTTTCA
Statistics
Matches: 28, Mismatches: 5, Indels: 4
0.76 0.14 0.11
Matches are distributed among these distances:
19 14 0.50
20 14 0.50
ACGTcount: A:0.30, C:0.02, G:0.04, T:0.65
Consensus pattern (18 bp):
TTTTTATAATTTTTTAAA
Found at i:124973027 original size:21 final size:23
Alignment explanation
Indices: 124972979--124973027 Score: 57
Period size: 21 Copynumber: 2.2 Consensus size: 23
124972969 TTTTTTAAAA
*
124972979 ATTTTCCTTCTGCTTCTCCCTCT
1 ATTTTCCTTCTGCTTCTCCATCT
*
124973002 ATTTTCC-TCT-CTTCTCTATCT
1 ATTTTCCTTCTGCTTCTCCATCT
*
124973023 CTTTT
1 ATTTT
124973028 AACGTAAAAG
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
21 13 0.57
22 3 0.13
23 7 0.30
ACGTcount: A:0.06, C:0.35, G:0.02, T:0.57
Consensus pattern (23 bp):
ATTTTCCTTCTGCTTCTCCATCT
Found at i:124997926 original size:2 final size:2
Alignment explanation
Indices: 124997919--124997958 Score: 71
Period size: 2 Copynumber: 20.0 Consensus size: 2
124997909 CAGATTGAGA
*
124997919 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AA AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
124997959 CCCTCTCAAG
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:125002388 original size:2 final size:2
Alignment explanation
Indices: 125002381--125002415 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
125002371 CTTGAGCTTT
125002381 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
125002416 TCAGTGTTTA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:125004793 original size:47 final size:47
Alignment explanation
Indices: 125004684--125004794 Score: 127
Period size: 47 Copynumber: 2.4 Consensus size: 47
125004674 CCGGGATAAG
* * * *
125004684 CACATAGTGTTTCATCGGAATAAATCCGGAACTTTAACATTATAGTA
1 CACATAGTGTCTCATCGGAACAAATCCGAAACTTTAACAGTATAGTA
* * *
125004731 CACAAAGT-ACTTCATCGGAACAAATCCGAAACTTTAACAGTAGTCG-A
1 CACATAGTGTC-TCATCGGAACAAATCCGAAACTTTAACAGTA-TAGTA
125004778 CACATAGTGTCTCATCG
1 CACATAGTGTCTCATCG
125004795 ACTAAATGTC
Statistics
Matches: 52, Mismatches: 9, Indels: 6
0.78 0.13 0.09
Matches are distributed among these distances:
47 49 0.94
48 3 0.06
ACGTcount: A:0.36, C:0.22, G:0.15, T:0.27
Consensus pattern (47 bp):
CACATAGTGTCTCATCGGAACAAATCCGAAACTTTAACAGTATAGTA
Found at i:125006126 original size:2 final size:2
Alignment explanation
Indices: 125006119--125006156 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
125006109 ATCAAAGATG
125006119 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
125006157 CAGAAAACAA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:125014979 original size:13 final size:13
Alignment explanation
Indices: 125014961--125014990 Score: 60
Period size: 13 Copynumber: 2.3 Consensus size: 13
125014951 TATAAAAGTA
125014961 GACAATTTTGTGT
1 GACAATTTTGTGT
125014974 GACAATTTTGTGT
1 GACAATTTTGTGT
125014987 GACA
1 GACA
125014991 GGTTAGGAGA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.27, C:0.10, G:0.23, T:0.40
Consensus pattern (13 bp):
GACAATTTTGTGT
Found at i:125022537 original size:29 final size:29
Alignment explanation
Indices: 125022495--125022553 Score: 109
Period size: 29 Copynumber: 2.0 Consensus size: 29
125022485 TAGTAACATA
*
125022495 TGACGTGAGACGTTTATCTTATGCTGATG
1 TGACGTGAGACGTTTATCTAATGCTGATG
125022524 TGACGTGAGACGTTTATCTAATGCTGATG
1 TGACGTGAGACGTTTATCTAATGCTGATG
125022553 T
1 T
125022554 ACAAACACCC
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.22, C:0.14, G:0.27, T:0.37
Consensus pattern (29 bp):
TGACGTGAGACGTTTATCTAATGCTGATG
Found at i:125023681 original size:19 final size:19
Alignment explanation
Indices: 125023654--125023695 Score: 50
Period size: 19 Copynumber: 2.2 Consensus size: 19
125023644 TCCACATGAA
*
125023654 TTTTTATTTT-TATTTTTGC
1 TTTTAATTTTCTATTTTT-C
*
125023673 TTTTAATTTTCTCTTTTTC
1 TTTTAATTTTCTATTTTTC
125023692 TTTT
1 TTTT
125023696 TCTTTCTATT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
19 14 0.70
20 6 0.30
ACGTcount: A:0.10, C:0.10, G:0.02, T:0.79
Consensus pattern (19 bp):
TTTTAATTTTCTATTTTTC
Found at i:125023699 original size:12 final size:12
Alignment explanation
Indices: 125023653--125023706 Score: 54
Period size: 13 Copynumber: 4.3 Consensus size: 12
125023643 CTCCACATGA
*
125023653 ATTTTTATTTTT
1 ATTTTTCTTTTT
*
125023665 ATTTTTGCTTTTA
1 ATTTTT-CTTTTT
125023678 ATTTTCTCTTTTT
1 ATTTT-TCTTTTT
* *
125023691 CTTTTTCTTTCT
1 ATTTTTCTTTTT
125023703 ATTT
1 ATTT
125023707 CCTAGGATAA
Statistics
Matches: 34, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
12 15 0.44
13 18 0.53
14 1 0.03
ACGTcount: A:0.11, C:0.11, G:0.02, T:0.76
Consensus pattern (12 bp):
ATTTTTCTTTTT
Found at i:125031445 original size:23 final size:23
Alignment explanation
Indices: 125031397--125031450 Score: 65
Period size: 23 Copynumber: 2.3 Consensus size: 23
125031387 AATTTTAAAT
* *
125031397 TTTGAGTTAATTAAATCTAGTTA
1 TTTGAGTTAATTAAATCAAGTAA
125031420 TTTGAGTTAATTCAAAT-AAGTAA
1 TTTGAGTTAATT-AAATCAAGTAA
*
125031443 TTTAAGTT
1 TTTGAGTT
125031451 TCGAATTGAA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
23 23 0.85
24 4 0.15
ACGTcount: A:0.37, C:0.04, G:0.13, T:0.46
Consensus pattern (23 bp):
TTTGAGTTAATTAAATCAAGTAA
Found at i:125038374 original size:15 final size:16
Alignment explanation
Indices: 125038354--125038384 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
125038344 AAACTAAAAC
125038354 CTTTTC-TTTTCTTTT
1 CTTTTCTTTTTCTTTT
125038369 CTTTTCTTTTTCTTTT
1 CTTTTCTTTTTCTTTT
125038385 AAATTTAAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 6 0.40
16 9 0.60
ACGTcount: A:0.00, C:0.19, G:0.00, T:0.81
Consensus pattern (16 bp):
CTTTTCTTTTTCTTTT
Done.