Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D12
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: 63843421
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1690000 characters in sequence are not A, C, G, or T
File 39 of 214
Found at i:10693198 original size:244 final size:244
Alignment explanation
Indices: 10692769--10693239 Score: 816
Period size: 244 Copynumber: 1.9 Consensus size: 244
10692759 TAAATTATAA
* *
10692769 ATAAGCCCAAAATGAGATATTTTGAGTGGCATAAGCTGAGAAAAATAAGGAGAATTGGTGAAATA
1 ATAAGCCCAAAAGGAGATATTTTGAGTGGCATAAGCTGAGAAAAATAAGGAGAATTGATGAAATA
*
10692834 AGGGCAAAATGGGAAAATAACAAAATTTACTAAAATAAAAACGAGACCAAATTAGAATATCTAGA
66 AGGGCAAAATAGGAAAATAACAAAATTTACTAAAATAAAAACGAGACCAAATTAGAATATCTAGA
* *
10692899 ATTCTCTTCAGATTTTGTTCATTATCATCAACCAAAAACGTCCTAAGGGTTTATTCAAACTGGTA
131 ATTCTCTTCAGATTTTATTCATTATCATCAACCAAAAACATCCTAAGGGTTTATTCAAACTGGTA
10692964 TTTCATAATTTTTGCACCAAAAAATTCAAATAAGGAGGGACAAATTGTC
196 TTTCATAATTTTTGCACCAAAAAATTCAAATAAGGAGGGACAAATTGTC
* *
10693013 ATAAGCCCAAAAGGAGATATTTTGGGTGGCATAAGCTGAGAAAAATCAGGAGAATTGATGAAATA
1 ATAAGCCCAAAAGGAGATATTTTGAGTGGCATAAGCTGAGAAAAATAAGGAGAATTGATGAAATA
* * *
10693078 AGGGCAAAATAGGAAAATAACAAAATTTACTAAAATAAAAATGAGACTAAATTATAATATCTAGA
66 AGGGCAAAATAGGAAAATAACAAAATTTACTAAAATAAAAACGAGACCAAATTAGAATATCTAGA
* * *
10693143 ATTCTCTTCATATTTTATTCATTATCATCAGCCAAAAACATCCTAAGGGTTTATTCAAGCTGGTA
131 ATTCTCTTCAGATTTTATTCATTATCATCAACCAAAAACATCCTAAGGGTTTATTCAAACTGGTA
*
10693208 TTTCATAATTTTTGCACCAAAAAATTTAAATA
196 TTTCATAATTTTTGCACCAAAAAATTCAAATA
10693240 CGAAGCTAGA
Statistics
Matches: 213, Mismatches: 14, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
244 213 1.00
ACGTcount: A:0.43, C:0.13, G:0.16, T:0.28
Consensus pattern (244 bp):
ATAAGCCCAAAAGGAGATATTTTGAGTGGCATAAGCTGAGAAAAATAAGGAGAATTGATGAAATA
AGGGCAAAATAGGAAAATAACAAAATTTACTAAAATAAAAACGAGACCAAATTAGAATATCTAGA
ATTCTCTTCAGATTTTATTCATTATCATCAACCAAAAACATCCTAAGGGTTTATTCAAACTGGTA
TTTCATAATTTTTGCACCAAAAAATTCAAATAAGGAGGGACAAATTGTC
Found at i:10708358 original size:35 final size:35
Alignment explanation
Indices: 10708250--10708425 Score: 137
Period size: 35 Copynumber: 5.1 Consensus size: 35
10708240 TAAAGAGTGT
*
10708250 GCCCAACACTAGTCAGATAAACTGACAGAAGTTAC
1 GCCCAACACTAGTCAGATAAACTGACAGAAGTTGC
* * * * *
10708285 GTCCAACACTAGTTAGA-GAACCGA-AGATAGTTGT
1 GCCCAACACTAGTCAGATAAACTGACAGA-AGTTGC
* *
10708319 GCCCAGCACTAGTCAGATAAACTAACAGAAGTTGC
1 GCCCAACACTAGTCAGATAAACTGACAGAAGTTGC
* * * * **
10708354 GCCCAGCACTAGTCGGAT-AACCGAC-GATAATTAT
1 GCCCAACACTAGTCAGATAAACTGACAGA-AGTTGC
* * *
10708388 GCCCAGA-ACTAGTCAGATAAACTGGCAAAAATTGC
1 GCCCA-ACACTAGTCAGATAAACTGACAGAAGTTGC
10708423 GCC
1 GCC
10708426 AAGCGCTAGT
Statistics
Matches: 108, Mismatches: 26, Indels: 14
0.73 0.18 0.09
Matches are distributed among these distances:
33 5 0.05
34 46 0.43
35 53 0.49
36 4 0.04
ACGTcount: A:0.36, C:0.24, G:0.20, T:0.19
Consensus pattern (35 bp):
GCCCAACACTAGTCAGATAAACTGACAGAAGTTGC
Found at i:10708364 original size:69 final size:69
Alignment explanation
Indices: 10708247--10708470 Score: 286
Period size: 69 Copynumber: 3.2 Consensus size: 69
10708237 ATATAAAGAG
* * * * * * *
10708247 TGTGCCCAACACTAGTCAGATAAACTGACAGAAGTTACGTCCAACACTAGTTAGAGAACCGAAGA
1 TGTGCCCAGCACTAGTCAGATAAACTGACAGAAGTTGCGCCCAGCACTAGTTGGATAACCGACGA
10708312 TAGT
66 TAGT
* *
10708316 TGTGCCCAGCACTAGTCAGATAAACTAACAGAAGTTGCGCCCAGCACTAGTCGGATAACCGACGA
1 TGTGCCCAGCACTAGTCAGATAAACTGACAGAAGTTGCGCCCAGCACTAGTTGGATAACCGACGA
*
10708381 TAAT
66 TAGT
* * * * * * *
10708385 TATGCCCAGAACTAGTCAGATAAACTGGCAAAAATTGCGCCAAGCGCTAGTTGGATAACCGACGA
1 TGTGCCCAGCACTAGTCAGATAAACTGACAGAAGTTGCGCCCAGCACTAGTTGGATAACCGACGA
*
10708450 TGGT
66 TAGT
10708454 TGTGCCCAGCACTAGTC
1 TGTGCCCAGCACTAGTC
10708471 GAATGAATCG
Statistics
Matches: 132, Mismatches: 23, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
69 132 1.00
ACGTcount: A:0.33, C:0.24, G:0.22, T:0.20
Consensus pattern (69 bp):
TGTGCCCAGCACTAGTCAGATAAACTGACAGAAGTTGCGCCCAGCACTAGTTGGATAACCGACGA
TAGT
Found at i:10708542 original size:20 final size:21
Alignment explanation
Indices: 10708508--10708554 Score: 64
Period size: 20 Copynumber: 2.4 Consensus size: 21
10708498 GCAAATCCAT
10708508 AATATCA-TATACATAA-TTC
1 AATATCACTATACATAATTTC
*
10708527 AATATCACTTTACATAATTTC
1 AATATCACTATACATAATTTC
10708548 -ATATCAC
1 AATATCAC
10708555 ATTCACCTAA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
19 7 0.28
20 15 0.60
21 3 0.12
ACGTcount: A:0.43, C:0.19, G:0.00, T:0.38
Consensus pattern (21 bp):
AATATCACTATACATAATTTC
Found at i:10722707 original size:19 final size:19
Alignment explanation
Indices: 10722683--10722720 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
10722673 ATAATAGTAA
10722683 AACCAAAAATTAAGATGAT
1 AACCAAAAATTAAGATGAT
*
10722702 AACCAAAAATTAATATGAT
1 AACCAAAAATTAAGATGAT
10722721 TCCCATCACC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.58, C:0.11, G:0.08, T:0.24
Consensus pattern (19 bp):
AACCAAAAATTAAGATGAT
Found at i:10722972 original size:15 final size:16
Alignment explanation
Indices: 10722947--10722988 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
10722937 TAAACTAAAA
10722947 CAAAGGAGAAATGAA-G
1 CAAA-GAGAAATGAATG
*
10722963 CAAAGAGAAACGAATG
1 CAAAGAGAAATGAATG
10722979 CAAAGA-AAAT
1 CAAAGAGAAAT
10722989 TGATCAAAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
15 12 0.52
16 11 0.48
ACGTcount: A:0.60, C:0.10, G:0.24, T:0.07
Consensus pattern (16 bp):
CAAAGAGAAATGAATG
Found at i:10726566 original size:15 final size:16
Alignment explanation
Indices: 10726541--10726582 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
10726531 TAAACTAAAA
10726541 CAAAGGAGAAATGAA-G
1 CAAA-GAGAAATGAATG
*
10726557 CAAAGAGAAACGAATG
1 CAAAGAGAAATGAATG
10726573 CAAAGA-AAAT
1 CAAAGAGAAAT
10726583 TGATCAAAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
15 12 0.52
16 11 0.48
ACGTcount: A:0.60, C:0.10, G:0.24, T:0.07
Consensus pattern (16 bp):
CAAAGAGAAATGAATG
Found at i:10736904 original size:30 final size:30
Alignment explanation
Indices: 10736870--10736938 Score: 106
Period size: 30 Copynumber: 2.3 Consensus size: 30
10736860 TAGAAAATTA
*
10736870 AAAAAAGTATTTTAAAA-ATATTTTAAAAGT
1 AAAAAAGTATTTTAAAATAT-TTTTAAAAAT
10736900 AAAAAAGTATTTTAAAATATTTTTAAAAAT
1 AAAAAAGTATTTTAAAATATTTTTAAAAAT
10736930 -AAAAAGTAT
1 AAAAAAGTAT
10736939 ATATTTATTA
Statistics
Matches: 37, Mismatches: 1, Indels: 3
0.90 0.02 0.07
Matches are distributed among these distances:
29 9 0.24
30 26 0.70
31 2 0.05
ACGTcount: A:0.58, C:0.00, G:0.06, T:0.36
Consensus pattern (30 bp):
AAAAAAGTATTTTAAAATATTTTTAAAAAT
Found at i:10740850 original size:55 final size:56
Alignment explanation
Indices: 10740791--10740926 Score: 168
Period size: 55 Copynumber: 2.4 Consensus size: 56
10740781 TTATTATTAA
* * **
10740791 ATTTTAATA-AGATTATTATTAAATATACTTTAAT-AATAATAAATAATTTAATCCT
1 ATTTTAATATA-ATTATTATTAAATACAATTTAATAAATAATAAATAATTTAATAAT
* *
10740846 ATTTTAACATAATTATTATTAAATACAATTTAATAAAATAATATATAATTTAATAAT
1 ATTTTAATATAATTATTATTAAATACAATTTAAT-AAATAATAAATAATTTAATAAT
*
10740903 ATTCTTCATATAATTATTATTAAA
1 ATT-TTAATATAATTATTATTAAA
10740927 AATGAATTAA
Statistics
Matches: 69, Mismatches: 8, Indels: 5
0.84 0.10 0.06
Matches are distributed among these distances:
55 29 0.42
56 1 0.01
57 21 0.30
58 18 0.26
ACGTcount: A:0.49, C:0.05, G:0.01, T:0.46
Consensus pattern (56 bp):
ATTTTAATATAATTATTATTAAATACAATTTAATAAATAATAAATAATTTAATAAT
Found at i:10760403 original size:25 final size:25
Alignment explanation
Indices: 10760369--10760417 Score: 80
Period size: 25 Copynumber: 2.0 Consensus size: 25
10760359 TTTAATTAAT
*
10760369 ACAAGACTTTGGACTGTTCTAAGAC
1 ACAAGACTTTGGACTGTTCCAAGAC
*
10760394 ACAAGACTTTGGATTGTTCCAAGA
1 ACAAGACTTTGGACTGTTCCAAGA
10760418 TGGTCTCTAA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.33, C:0.18, G:0.20, T:0.29
Consensus pattern (25 bp):
ACAAGACTTTGGACTGTTCCAAGAC
Found at i:10771503 original size:18 final size:18
Alignment explanation
Indices: 10771480--10771568 Score: 97
Period size: 18 Copynumber: 4.9 Consensus size: 18
10771470 CGTTTACGGT
* *
10771480 ACTATTCATGTATATAGC
1 ACTATTCACGTATACAGC
* *
10771498 ACTATTCATGTATACAGT
1 ACTATTCACGTATACAGC
* *
10771516 ACTATTCACATATACGGC
1 ACTATTCACGTATACAGC
* *
10771534 ACTATTCACGTATACGGT
1 ACTATTCACGTATACAGC
*
10771552 ACTGTTCACGTATACAG
1 ACTATTCACGTATACAG
10771569 TAGTTGGGAT
Statistics
Matches: 61, Mismatches: 10, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 61 1.00
ACGTcount: A:0.31, C:0.21, G:0.13, T:0.34
Consensus pattern (18 bp):
ACTATTCACGTATACAGC
Found at i:10771536 original size:36 final size:36
Alignment explanation
Indices: 10771478--10771568 Score: 119
Period size: 36 Copynumber: 2.5 Consensus size: 36
10771468 ACCGTTTACG
* * *
10771478 GTACTATTCATGTATATAGCACTATTCATGTATACA
1 GTACTATTCACGTATACAGCACTATTCACGTATACA
* * *
10771514 GTACTATTCACATATACGGCACTATTCACGTATACG
1 GTACTATTCACGTATACAGCACTATTCACGTATACA
*
10771550 GTACTGTTCACGTATACAG
1 GTACTATTCACGTATACAG
10771569 TAGTTGGGAT
Statistics
Matches: 46, Mismatches: 9, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
36 46 1.00
ACGTcount: A:0.31, C:0.21, G:0.14, T:0.34
Consensus pattern (36 bp):
GTACTATTCACGTATACAGCACTATTCACGTATACA
Found at i:10787111 original size:18 final size:18
Alignment explanation
Indices: 10787088--10787128 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
10787078 ATTACAAAAA
*
10787088 AAAATT-AAAATAATTTTT
1 AAAATTCAAAAT-ATTTAT
10787106 AAAATTCAAAATATTTAT
1 AAAATTCAAAATATTTAT
10787124 AAAAT
1 AAAAT
10787129 ATCCAAAATG
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 16 0.76
19 5 0.24
ACGTcount: A:0.59, C:0.02, G:0.00, T:0.39
Consensus pattern (18 bp):
AAAATTCAAAATATTTAT
Found at i:10787884 original size:20 final size:20
Alignment explanation
Indices: 10787859--10787902 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
10787849 AAAAAATCTA
10787859 AAAAATAAATATAAAT-TATT
1 AAAAATAAAT-TAAATATATT
*
10787879 AAAAATATATTAAATATATT
1 AAAAATAAATTAAATATATT
10787899 AAAA
1 AAAA
10787903 TTTATGTTGA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 5 0.23
20 17 0.77
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (20 bp):
AAAAATAAATTAAATATATT
Found at i:10789266 original size:30 final size:30
Alignment explanation
Indices: 10789230--10789286 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
10789220 TTTTACATAT
10789230 ATATTTTGAATTTTTATAAAAT-TTTTATTC
1 ATATTTTGAATTTTTA-AAAATATTTTATTC
*
10789260 ATATTTTTAATTTTTAAAAATATTTTA
1 ATATTTTGAATTTTTAAAAATATTTTA
10789287 ACGTGAATTT
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
29 5 0.20
30 20 0.80
ACGTcount: A:0.37, C:0.02, G:0.02, T:0.60
Consensus pattern (30 bp):
ATATTTTGAATTTTTAAAAATATTTTATTC
Found at i:10789308 original size:9 final size:9
Alignment explanation
Indices: 10789294--10789344 Score: 50
Period size: 10 Copynumber: 5.4 Consensus size: 9
10789284 TTAACGTGAA
10789294 TTTTAATAT
1 TTTTAATAT
10789303 TTTTAATAAT
1 TTTTAAT-AT
* *
10789313 TTATATTTAT
1 TTTTA-ATAT
10789323 TTTTAATAT
1 TTTTAATAT
10789332 ATTTTAA-AT
1 -TTTTAATAT
10789341 TTTT
1 TTTT
10789345 TTAAAAATTA
Statistics
Matches: 35, Mismatches: 4, Indels: 7
0.76 0.09 0.15
Matches are distributed among these distances:
8 4 0.11
9 12 0.34
10 18 0.51
11 1 0.03
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (9 bp):
TTTTAATAT
Found at i:10789342 original size:22 final size:20
Alignment explanation
Indices: 10789300--10789346 Score: 60
Period size: 20 Copynumber: 2.3 Consensus size: 20
10789290 TGAATTTTAA
*
10789300 TATTTTTAATAATTTATATT
1 TATTTTTAATAATTTAAATT
10789320 TATTTTTAATATATTTTAAATT
1 TATTTTTAATA-A-TTTAAATT
10789342 T-TTTT
1 TATTTT
10789347 AAAAATTATT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
20 11 0.46
21 5 0.21
22 8 0.33
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (20 bp):
TATTTTTAATAATTTAAATT
Found at i:10789345 original size:20 final size:19
Alignment explanation
Indices: 10789292--10789353 Score: 56
Period size: 20 Copynumber: 3.2 Consensus size: 19
10789282 TTTTAACGTG
*
10789292 AATTTT-AATATTTTTAAT
1 AATTTTAAATTTTTTTAAT
*
10789310 AA-TTTATATTTATTTTTAAT
1 AATTTTA-AATT-TTTTTAAT
*
10789330 ATATTTTAAATTTTTTTAAA
1 A-ATTTTAAATTTTTTTAAT
10789350 AATT
1 AATT
10789354 ATTGTTAAGA
Statistics
Matches: 35, Mismatches: 4, Indels: 9
0.73 0.08 0.19
Matches are distributed among these distances:
17 3 0.09
18 2 0.06
19 5 0.14
20 17 0.49
21 4 0.11
22 4 0.11
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (19 bp):
AATTTTAAATTTTTTTAAT
Found at i:10800029 original size:21 final size:21
Alignment explanation
Indices: 10800005--10800066 Score: 83
Period size: 21 Copynumber: 3.0 Consensus size: 21
10799995 ATTAGGTGGA
* *
10800005 TCAGCTCTTATGAGCTTCTGT
1 TCAGCTCTTACGAGCTTCTAT
10800026 TCAGCTCTTACGAGCTTCTAT
1 TCAGCTCTTACGAGCTTCTAT
*
10800047 TCAACT-TT-CGAGCTTCTAT
1 TCAGCTCTTACGAGCTTCTAT
10800066 T
1 T
10800067 GGCGTGTTTG
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
19 12 0.32
20 2 0.05
21 24 0.63
ACGTcount: A:0.18, C:0.26, G:0.15, T:0.42
Consensus pattern (21 bp):
TCAGCTCTTACGAGCTTCTAT
Found at i:10807689 original size:21 final size:21
Alignment explanation
Indices: 10807663--10807722 Score: 70
Period size: 21 Copynumber: 3.0 Consensus size: 21
10807653 TAGGTGGATT
10807663 AGCTCTTACGAGCTTCTGTTA
1 AGCTCTTACGAGCTTCTGTTA
* * *
10807684 AGCTCTTAGGAGCTTCTATTC
1 AGCTCTTACGAGCTTCTGTTA
*
10807705 A--TCTTTCGAGCTTCTGTT
1 AGCTCTTACGAGCTTCTGTT
10807723 GGCGTGTTTG
Statistics
Matches: 33, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
19 14 0.42
21 19 0.58
ACGTcount: A:0.17, C:0.23, G:0.18, T:0.42
Consensus pattern (21 bp):
AGCTCTTACGAGCTTCTGTTA
Found at i:10813428 original size:13 final size:11
Alignment explanation
Indices: 10813396--10813438 Score: 52
Period size: 11 Copynumber: 3.8 Consensus size: 11
10813386 CTATTTTTTA
*
10813396 AATAAAATAAT
1 AATAAAATATT
10813407 AAT-AAATATCT
1 AATAAAATAT-T
10813418 AAGTAAAATATT
1 AA-TAAAATATT
10813430 AATAAAATA
1 AATAAAATA
10813439 ATATTTAACT
Statistics
Matches: 28, Mismatches: 1, Indels: 6
0.80 0.03 0.17
Matches are distributed among these distances:
10 5 0.18
11 13 0.46
12 4 0.14
13 6 0.21
ACGTcount: A:0.65, C:0.02, G:0.02, T:0.30
Consensus pattern (11 bp):
AATAAAATATT
Found at i:10815286 original size:26 final size:26
Alignment explanation
Indices: 10815232--10815290 Score: 73
Period size: 26 Copynumber: 2.3 Consensus size: 26
10815222 TATTTTCTCG
* * *
10815232 AAATTTTACTAGGGACAAAGTCGTTA
1 AAATTTTACTAGGGACAAAATCATCA
**
10815258 AAATTTTACTAGGGGTAAAATCATCA
1 AAATTTTACTAGGGACAAAATCATCA
10815284 AAATTTT
1 AAATTTT
10815291 GTTGGGGCTA
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
26 28 1.00
ACGTcount: A:0.41, C:0.10, G:0.15, T:0.34
Consensus pattern (26 bp):
AAATTTTACTAGGGACAAAATCATCA
Found at i:10815557 original size:73 final size:73
Alignment explanation
Indices: 10815438--10815583 Score: 292
Period size: 73 Copynumber: 2.0 Consensus size: 73
10815428 GGACCTGATG
10815438 TGAGCTAGGCCCAAAACCCTTCATGTAAAATGAAGGGGTGACAACCCTAGTAGGAATACTAGAGT
1 TGAGCTAGGCCCAAAACCCTTCATGTAAAATGAAGGGGTGACAACCCTAGTAGGAATACTAGAGT
10815503 GTGTCGTC
66 GTGTCGTC
10815511 TGAGCTAGGCCCAAAACCCTTCATGTAAAATGAAGGGGTGACAACCCTAGTAGGAATACTAGAGT
1 TGAGCTAGGCCCAAAACCCTTCATGTAAAATGAAGGGGTGACAACCCTAGTAGGAATACTAGAGT
10815576 GTGTCGTC
66 GTGTCGTC
10815584 CACCTCTCTC
Statistics
Matches: 73, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
73 73 1.00
ACGTcount: A:0.32, C:0.21, G:0.26, T:0.22
Consensus pattern (73 bp):
TGAGCTAGGCCCAAAACCCTTCATGTAAAATGAAGGGGTGACAACCCTAGTAGGAATACTAGAGT
GTGTCGTC
Found at i:10817263 original size:30 final size:30
Alignment explanation
Indices: 10817156--10817264 Score: 114
Period size: 30 Copynumber: 3.6 Consensus size: 30
10817146 GTTTTGTTAT
* * **
10817156 TTATATATATAATATATATGGGTTTTGGTG
1 TTATATGTATAATATATTTGGGTCATGGTG
* **
10817186 TTATA--TATAATATATGTACGTGCATGGGTG
1 TTATATGTATAATATATTTGGGT-CAT-GGTG
*
10817216 TTATATGAATAATATATTTGGGTCATGGTG
1 TTATATGTATAATATATTTGGGTCATGGTG
10817246 TTATATGTATAATATATTT
1 TTATATGTATAATATATTT
10817265 ACCTGGGTCA
Statistics
Matches: 65, Mismatches: 10, Indels: 8
0.78 0.12 0.10
Matches are distributed among these distances:
28 13 0.20
29 1 0.02
30 36 0.55
31 3 0.05
32 12 0.18
ACGTcount: A:0.31, C:0.03, G:0.19, T:0.47
Consensus pattern (30 bp):
TTATATGTATAATATATTTGGGTCATGGTG
Found at i:10829870 original size:21 final size:22
Alignment explanation
Indices: 10829837--10829880 Score: 54
Period size: 21 Copynumber: 2.0 Consensus size: 22
10829827 ACCAAAATGC
*
10829837 AACAATTGGTATCTTA-ATTCA
1 AACAATTGGTATCTAACATTCA
* *
10829858 AACATTTGTTATCTAACATTCA
1 AACAATTGGTATCTAACATTCA
10829880 A
1 A
10829881 CACCATTCAC
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
21 13 0.68
22 6 0.32
ACGTcount: A:0.39, C:0.16, G:0.07, T:0.39
Consensus pattern (22 bp):
AACAATTGGTATCTAACATTCA
Found at i:10829882 original size:21 final size:20
Alignment explanation
Indices: 10829831--10829882 Score: 50
Period size: 21 Copynumber: 2.5 Consensus size: 20
10829821 TGTCTAACCA
*
10829831 AAATGCAACAATTGGTATCT
1 AAATTCAACAATTGGTATCT
* * *
10829851 TAATTCAAACATTTGTTATCT
1 AAATTC-AACAATTGGTATCT
10829872 AACATTCAACA
1 AA-ATTCAACA
10829883 CCATTCACAC
Statistics
Matches: 25, Mismatches: 5, Indels: 3
0.76 0.15 0.09
Matches are distributed among these distances:
20 4 0.16
21 17 0.68
22 4 0.16
ACGTcount: A:0.40, C:0.17, G:0.08, T:0.35
Consensus pattern (20 bp):
AAATTCAACAATTGGTATCT
Found at i:10841418 original size:5 final size:5
Alignment explanation
Indices: 10841408--10841476 Score: 138
Period size: 5 Copynumber: 13.8 Consensus size: 5
10841398 CCAAAAACAC
10841408 GTATA GTATA GTATA GTATA GTATA GTATA GTATA GTATA GTATA GTATA
1 GTATA GTATA GTATA GTATA GTATA GTATA GTATA GTATA GTATA GTATA
10841458 GTATA GTATA GTATA GTAT
1 GTATA GTATA GTATA GTAT
10841477 TTTGAAGCAA
Statistics
Matches: 64, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 64 1.00
ACGTcount: A:0.39, C:0.00, G:0.20, T:0.41
Consensus pattern (5 bp):
GTATA
Found at i:10846403 original size:19 final size:19
Alignment explanation
Indices: 10846379--10846415 Score: 74
Period size: 19 Copynumber: 1.9 Consensus size: 19
10846369 AAGTTAATAA
10846379 CAAATTTGATTACGGTGGG
1 CAAATTTGATTACGGTGGG
10846398 CAAATTTGATTACGGTGG
1 CAAATTTGATTACGGTGG
10846416 ATGACAGTGA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.27, C:0.11, G:0.30, T:0.32
Consensus pattern (19 bp):
CAAATTTGATTACGGTGGG
Found at i:10853069 original size:68 final size:67
Alignment explanation
Indices: 10852961--10853093 Score: 230
Period size: 68 Copynumber: 2.0 Consensus size: 67
10852951 TGTTGAGCGC
10852961 ACATAAAAAATCTAACACTCATCATCATTATCAAATTATTGTGAAATGCAAATGTAAGTTATGGC
1 ACATAAAAAATCTAACACTCATCATCATTATCAAATTATTGTGAAATGCAAATGTAAGTTATGGC
10853026 GG
66 GG
* * *
10853028 ACATAAAAAAATCTAACACTCGTCATCATTATCAAATTATTGTGAAATGTAAATGTGAGTTATGG
1 ACAT-AAAAAATCTAACACTCATCATCATTATCAAATTATTGTGAAATGCAAATGTAAGTTATGG
10853093 C
65 C
10853094 AGTTGTATAT
Statistics
Matches: 62, Mismatches: 3, Indels: 1
0.94 0.05 0.02
Matches are distributed among these distances:
67 4 0.06
68 58 0.94
ACGTcount: A:0.41, C:0.14, G:0.14, T:0.31
Consensus pattern (67 bp):
ACATAAAAAATCTAACACTCATCATCATTATCAAATTATTGTGAAATGCAAATGTAAGTTATGGC
GG
Found at i:10855096 original size:23 final size:23
Alignment explanation
Indices: 10855070--10855113 Score: 79
Period size: 23 Copynumber: 1.9 Consensus size: 23
10855060 TATTTAATCT
*
10855070 CTACTGAATAGTTATACATATTC
1 CTACTCAATAGTTATACATATTC
10855093 CTACTCAATAGTTATACATAT
1 CTACTCAATAGTTATACATAT
10855114 ATAGGAACAA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.36, C:0.18, G:0.07, T:0.39
Consensus pattern (23 bp):
CTACTCAATAGTTATACATATTC
Found at i:10856029 original size:25 final size:25
Alignment explanation
Indices: 10855991--10856040 Score: 91
Period size: 25 Copynumber: 2.0 Consensus size: 25
10855981 GCTAGGCTAC
*
10855991 CACTTATCATTTTGTCACTTGATCA
1 CACTTATCACTTTGTCACTTGATCA
10856016 CACTTATCACTTTGTCACTTGATCA
1 CACTTATCACTTTGTCACTTGATCA
10856041 GATAAGTGTA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.24, C:0.26, G:0.08, T:0.42
Consensus pattern (25 bp):
CACTTATCACTTTGTCACTTGATCA
Found at i:10856077 original size:71 final size:68
Alignment explanation
Indices: 10855948--10856086 Score: 224
Period size: 71 Copynumber: 2.0 Consensus size: 68
10855938 TACGTATGAT
* *
10855948 CACTTATCACTTGTCCCTGATCAGATAAGTGTAGCTAGGCTACCACTTATCATTTTGTCACTTGA
1 CACTTATCACTTGTCCCTGATCAGATAAGTGTAGCTAAGCTACCACTTATCACTTTGTCACTTGA
10856013 TCA
66 TCA
*
10856016 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTGTCACT
1 CACTTATCAC-TTGTC-CCTGATCAGATAAGTGTAGCT-AAGCTACCACTTATCACTTTGTCACT
10856081 TGATCA
63 TGATCA
10856087 GATAAGTGTA
Statistics
Matches: 65, Mismatches: 3, Indels: 3
0.92 0.04 0.04
Matches are distributed among these distances:
68 10 0.15
69 5 0.08
70 20 0.31
71 30 0.46
ACGTcount: A:0.27, C:0.24, G:0.14, T:0.35
Consensus pattern (68 bp):
CACTTATCACTTGTCCCTGATCAGATAAGTGTAGCTAAGCTACCACTTATCACTTTGTCACTTGA
TCA
Found at i:10856083 original size:46 final size:46
Alignment explanation
Indices: 10856016--10856180 Score: 294
Period size: 46 Copynumber: 3.6 Consensus size: 46
10856006 CACTTGATCA
*
10856016 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTAC
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAATGCTAC
10856062 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAATGCTAC
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAATGCTAC
10856108 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAATGCTAC
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAATGCTAC
* * *
10856154 CACTTATCACATTATCTCTTGATCAGA
1 CACTTATCACTTTGTCACTTGATCAGA
10856181 AGTACTCAAA
Statistics
Matches: 115, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
46 115 1.00
ACGTcount: A:0.29, C:0.22, G:0.14, T:0.35
Consensus pattern (46 bp):
CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAATGCTAC
Found at i:10862486 original size:50 final size:50
Alignment explanation
Indices: 10862411--10862729 Score: 372
Period size: 50 Copynumber: 6.4 Consensus size: 50
10862401 GTTGGTGAAT
*
10862411 TGGGACATAGCGTTGGCACCGAGATGAGAGGTCCCATGTAAGACCATGTC
1 TGGGACATGGCGTTGGCACCGAGATGAGAGGTCCCATGTAAGACCATGTC
* * *
10862461 TGGGACATGGCGTTGGCACCGAGATGAGAGGTCTCATGTAAGATCATATC
1 TGGGACATGGCGTTGGCACCGAGATGAGAGGTCCCATGTAAGACCATGTC
* **
10862511 TGGGACATGGCGTTGGCACTGAGATGAGAGGTCCCCCGTAAGACCATGTC
1 TGGGACATGGCGTTGGCACCGAGATGAGAGGTCCCATGTAAGACCATGTC
* * **
10862561 TGGGACATGGC-ATGAGCACCGATATGAGAACATCCCATGTAAGA-CATGTC
1 TGGGACATGGCGTTG-GCACCGAGATGAG-AGGTCCCATGTAAGACCATGTC
* * ** *
10862611 TGGGACATGGTGTTGGCACCGAGATTAGAGGTCCCCCGTAAAACCATGTC
1 TGGGACATGGCGTTGGCACCGAGATGAGAGGTCCCATGTAAGACCATGTC
* * * * ** *
10862661 TGGGACATGGCATGGGCACTGATATGAGAACATCCTATGTAAGACCATGTC
1 TGGGACATGGCGTTGGCACCGAGATGAG-AGGTCCCATGTAAGACCATGTC
* *
10862712 TGGGACATTGCTTTGGCA
1 TGGGACATGGCGTTGGCA
10862730 TGTTATGATC
Statistics
Matches: 223, Mismatches: 41, Indels: 9
0.82 0.15 0.03
Matches are distributed among these distances:
49 12 0.05
50 167 0.75
51 44 0.20
ACGTcount: A:0.26, C:0.21, G:0.30, T:0.22
Consensus pattern (50 bp):
TGGGACATGGCGTTGGCACCGAGATGAGAGGTCCCATGTAAGACCATGTC
Found at i:10862588 original size:100 final size:98
Alignment explanation
Indices: 10862411--10862729 Score: 424
Period size: 100 Copynumber: 3.2 Consensus size: 98
10862401 GTTGGTGAAT
* ** *
10862411 TGGGACATAGCGTTGGCACCGAGATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTG
1 TGGGACATGGCGTTGGCACCGAGATGAGAGGTCCCCCGTAAGACCATGTCTGGGACATGGC-ATG
* ** *
10862476 GCACCGAGATGAG-AGGTCTCATGTAAGATCATATC
65 GCACCGATATGAGAACATC-CATGTAAGA-CATGTC
*
10862511 TGGGACATGGCGTTGGCACTGAGATGAGAGGTCCCCCGTAAGACCATGTCTGGGACATGGCATGA
1 TGGGACATGGCGTTGGCACCGAGATGAGAGGTCCCCCGTAAGACCATGTCTGGGACATGGCATG-
10862576 GCACCGATATGAGAACATCCCATGTAAGACATGTC
65 GCACCGATATGAGAACAT-CCATGTAAGACATGTC
* * *
10862611 TGGGACATGGTGTTGGCACCGAGATTAGAGGTCCCCCGTAAAACCATGTCTGGGACATGGCATGG
1 TGGGACATGGCGTTGGCACCGAGATGAGAGGTCCCCCGTAAGACCATGTCTGGGACATGGCAT-G
*
10862676 GCACTGATATGAGAACATCCTATGTAAGACCATGTC
65 GCACCGATATGAGAACATCC-ATGTAAGA-CATGTC
* *
10862712 TGGGACATTGCTTTGGCA
1 TGGGACATGGCGTTGGCA
10862730 TGTTATGATC
Statistics
Matches: 196, Mismatches: 17, Indels: 11
0.88 0.08 0.05
Matches are distributed among these distances:
99 4 0.02
100 158 0.81
101 33 0.17
102 1 0.01
ACGTcount: A:0.26, C:0.21, G:0.30, T:0.22
Consensus pattern (98 bp):
TGGGACATGGCGTTGGCACCGAGATGAGAGGTCCCCCGTAAGACCATGTCTGGGACATGGCATGG
CACCGATATGAGAACATCCATGTAAGACATGTC
Found at i:10866332 original size:36 final size:36
Alignment explanation
Indices: 10866285--10866407 Score: 149
Period size: 36 Copynumber: 3.4 Consensus size: 36
10866275 GCGGAGGAAA
* *
10866285 TGGAGGGGGAGGAGGCGGGGGAGGGGGTGGGAATGG
1 TGGAGGAGGAGGAGGCGGGGGAGGGAGTGGGAATGG
* * * * *
10866321 TGGAGGAGGAGGAGGTGGTGGAGGCAATGGTG-GTGG
1 TGGAGGAGGAGGAGGCGGGGGAGGGAGTGG-GAATGG
* *
10866357 GGGAGGTGGAGGAGGCGGGGGAGGGAGTGGGAATGG
1 TGGAGGAGGAGGAGGCGGGGGAGGGAGTGGGAATGG
10866393 TGGAGGAGGAGGAGG
1 TGGAGGAGGAGGAGG
10866408 AGGAGGGGGT
Statistics
Matches: 69, Mismatches: 16, Indels: 4
0.78 0.18 0.04
Matches are distributed among these distances:
35 1 0.01
36 67 0.97
37 1 0.01
ACGTcount: A:0.20, C:0.02, G:0.67, T:0.11
Consensus pattern (36 bp):
TGGAGGAGGAGGAGGCGGGGGAGGGAGTGGGAATGG
Found at i:10866443 original size:36 final size:36
Alignment explanation
Indices: 10866325--10866443 Score: 105
Period size: 36 Copynumber: 3.1 Consensus size: 36
10866315 GAATGGTGGA
* * *
10866325 GGAGGAGGAGGTGGTGGAGGCAATGGTGGTGGGGGA
1 GGAGGAGGAGGGGGTGGAGGCAACGGTGGTGGGGGG
* * **
10866361 GGTGGAGGAGGCGGG-GGAGGGAGTGGGAATGGTGGAGGAGG
1 GGAGGAGGAGG-GGGTGGAGGCA-ACGG--TGGTGG-GG-GG
10866402 AGGAGGAGGAGGGGGTGGAGGCAACGGTGGTGGGGGG
1 -GGAGGAGGAGGGGGTGGAGGCAACGGTGGTGGGGGG
10866439 GGAGG
1 GGAGG
10866444 TGGTGGGAAT
Statistics
Matches: 65, Mismatches: 10, Indels: 16
0.71 0.11 0.18
Matches are distributed among these distances:
36 21 0.32
37 6 0.09
38 2 0.03
39 12 0.18
40 2 0.03
41 6 0.09
42 16 0.25
ACGTcount: A:0.19, C:0.03, G:0.67, T:0.10
Consensus pattern (36 bp):
GGAGGAGGAGGGGGTGGAGGCAACGGTGGTGGGGGG
Found at i:10866443 original size:72 final size:67
Alignment explanation
Indices: 10866289--10866440 Score: 169
Period size: 78 Copynumber: 2.1 Consensus size: 67
10866279 AGGAAATGGA
* * * *
10866289 GGGGGAGGAGGCGGGGGAGGGGGTGGGAATGGTGGAGGAGGAGGAGGTGGTGGAGGCAATGGTGG
1 GGGGGGGGAGGCGGGGGAGGGAGTGGGAATGGTGGAGGAGGAGGAGGGGGTGGAGGCAACGGTGG
10866354 TGGG
66 T--G
10866358 GGAGGTGGAGGAGGCGGGGGAGGGAGTGGGAATGGTGGAGGAGGAGGAGGAGGAGGGGGTGGAGG
1 GG-GG-GG-GGAGGCGGGGGAGGGAGTGGGAATGGT------GGAGGAGGAGGAGGGGGTGGAGG
10866423 CAACGGTGGTG
57 CAACGGTGGTG
10866434 GGGGGGG
1 GGGGGGG
10866441 AGGTGGTGGG
Statistics
Matches: 70, Mismatches: 4, Indels: 14
0.80 0.05 0.16
Matches are distributed among these distances:
69 2 0.03
70 2 0.03
71 1 0.01
72 26 0.37
73 1 0.01
74 2 0.03
75 2 0.03
76 3 0.04
78 31 0.44
ACGTcount: A:0.18, C:0.03, G:0.68, T:0.10
Consensus pattern (67 bp):
GGGGGGGGAGGCGGGGGAGGGAGTGGGAATGGTGGAGGAGGAGGAGGGGGTGGAGGCAACGGTGG
TG
Found at i:10874101 original size:51 final size:51
Alignment explanation
Indices: 10874042--10874144 Score: 181
Period size: 51 Copynumber: 2.0 Consensus size: 51
10874032 CCCAAGACTT
10874042 AGTCAATTATCTCACAATGCAAGTAACAT-AAACTTCTTTAGACCTAGTCAA
1 AGTCAATTATCTCACAATGCAAGTAACATAAAAC-TCTTTAGACCTAGTCAA
*
10874093 AGTCAATTATCTCGCAATGCAAGTAACATAAAACTCTTTAGACCTAGTCAA
1 AGTCAATTATCTCACAATGCAAGTAACATAAAACTCTTTAGACCTAGTCAA
10874144 A
1 A
10874145 CTCTTATTAA
Statistics
Matches: 50, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
51 46 0.92
52 4 0.08
ACGTcount: A:0.40, C:0.21, G:0.11, T:0.28
Consensus pattern (51 bp):
AGTCAATTATCTCACAATGCAAGTAACATAAAACTCTTTAGACCTAGTCAA
Found at i:10876011 original size:14 final size:14
Alignment explanation
Indices: 10875992--10876026 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 14
10875982 AATATAACAT
*
10875992 AATATAACAATATA
1 AATATAACAAGATA
10876006 AATATAACAAGATA
1 AATATAACAAGATA
*
10876020 CATATAA
1 AATATAA
10876027 ATCTAATATC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.63, C:0.09, G:0.03, T:0.26
Consensus pattern (14 bp):
AATATAACAAGATA
Found at i:10878187 original size:25 final size:24
Alignment explanation
Indices: 10878159--10878262 Score: 70
Period size: 25 Copynumber: 4.2 Consensus size: 24
10878149 CTCGCTTGAA
*
10878159 CTTCCCGATATATGGCTATCCAGAG
1 CTTCCCGATATATGGCT-TACAGAG
* *
10878184 CTTCCTGATAAATGGCTCTACAGAG
1 CTTCCCGATATATGGCT-TACAGAG
* * *
10878209 CTACCCGTTAT-TGGCTTGCATGAG
1 CTTCCCGATATATGGCTTACA-GAG
* *
10878233 CTTCCTGA-ATATGACTCTA-ATGAG
1 CTTCCCGATATATGGCT-TACA-GAG
10878257 CTTCCC
1 CTTCCC
10878263 CTTATACAGC
Statistics
Matches: 61, Mismatches: 15, Indels: 7
0.73 0.18 0.08
Matches are distributed among these distances:
23 5 0.08
24 27 0.44
25 29 0.48
ACGTcount: A:0.23, C:0.27, G:0.19, T:0.31
Consensus pattern (24 bp):
CTTCCCGATATATGGCTTACAGAG
Found at i:10880347 original size:25 final size:25
Alignment explanation
Indices: 10880312--10880407 Score: 86
Period size: 25 Copynumber: 3.7 Consensus size: 25
10880302 AATTCATATT
*
10880312 CGGGAATGCTCATATGAGCACAT-AAA
1 CGGGAA-GCTCATCTGAGC-CATAAAA
* *
10880338 CGAGAAGCTCTCTCTCGAGCCATAAAA
1 CGGGAAGCTC-ATCT-GAGCCATAAAA
* **
10880365 CGGGAAGCTCATGTGAGCCATGTAA
1 CGGGAAGCTCATCTGAGCCATAAAA
*
10880390 CGGGAAGCTTATCTGAGC
1 CGGGAAGCTCATCTGAGC
10880408 ATGACAGGAA
Statistics
Matches: 57, Mismatches: 10, Indels: 7
0.77 0.14 0.09
Matches are distributed among these distances:
25 29 0.51
26 12 0.21
27 16 0.28
ACGTcount: A:0.31, C:0.23, G:0.26, T:0.20
Consensus pattern (25 bp):
CGGGAAGCTCATCTGAGCCATAAAA
Found at i:10880464 original size:24 final size:24
Alignment explanation
Indices: 10880367--10880479 Score: 72
Period size: 24 Copynumber: 4.8 Consensus size: 24
10880357 CCATAAAACG
* * *
10880367 GGAAGCTCATGTGAGCCATGTAACG
1 GGAAGCTCATGAGAGCCA-ATAACA
* ** *
10880392 GGAAGCTTATCTGAG-C-ATGACA
1 GGAAGCTCATGAGAGCCAATAACA
* * **
10880414 GGAAGCTCATAAGAG-CTATATTTA
1 GGAAGCTCATGAGAGCCAATA-ACA
10880438 GGAAGCTCATGAGAGCCAATAACA
1 GGAAGCTCATGAGAGCCAATAACA
10880462 GGAAGCTC-TGAAGAGCCA
1 GGAAGCTCATG-AGAGCCA
10880480 TTTATCGTGA
Statistics
Matches: 69, Mismatches: 15, Indels: 9
0.74 0.16 0.10
Matches are distributed among these distances:
22 16 0.23
23 4 0.06
24 32 0.46
25 17 0.25
ACGTcount: A:0.35, C:0.19, G:0.27, T:0.19
Consensus pattern (24 bp):
GGAAGCTCATGAGAGCCAATAACA
Found at i:10880588 original size:25 final size:26
Alignment explanation
Indices: 10880524--10880605 Score: 75
Period size: 26 Copynumber: 3.3 Consensus size: 26
10880514 AAGTTCAAGC
**
10880524 GAGCCATT--TTGGGAAGCTC-CGGA
1 GAGCCATTAATTGGGAAGCTCACAAA
*
10880547 GAGCCATTAATTAGGAAGCTCACAAA
1 GAGCCATTAATTGGGAAGCTCACAAA
*
10880573 GAGCCTTTAA-TGGGAAAGCTCACGAAA
1 GAGCCATTAATTGGG-AAGCTCAC-AAA
10880600 -AGCCAT
1 GAGCCAT
10880606 ATATTGGAAC
Statistics
Matches: 48, Mismatches: 6, Indels: 7
0.79 0.10 0.11
Matches are distributed among these distances:
23 8 0.17
25 13 0.27
26 24 0.50
27 3 0.06
ACGTcount: A:0.34, C:0.21, G:0.26, T:0.20
Consensus pattern (26 bp):
GAGCCATTAATTGGGAAGCTCACAAA
Found at i:10889121 original size:27 final size:24
Alignment explanation
Indices: 10889047--10889127 Score: 76
Period size: 24 Copynumber: 3.3 Consensus size: 24
10889037 TTCTGTTGTT
**
10889047 TTACTA-TTATTATTATTTTTTTA
1 TTACTATTTATTATTATTTTACTA
** *
10889070 TTACTATTTATTATTATACTGCTA
1 TTACTATTTATTATTATTTTACTA
10889094 TGTACCTATTTATATATTATTTTACTA
1 T-TA-CTATTTAT-TATTATTTTACTA
10889121 -TACTATT
1 TTACTATT
10889128 ATTTTTTTAA
Statistics
Matches: 47, Mismatches: 7, Indels: 7
0.77 0.11 0.11
Matches are distributed among these distances:
23 6 0.13
24 19 0.40
25 4 0.09
26 8 0.17
27 10 0.21
ACGTcount: A:0.28, C:0.10, G:0.02, T:0.59
Consensus pattern (24 bp):
TTACTATTTATTATTATTTTACTA
Found at i:10889434 original size:19 final size:17
Alignment explanation
Indices: 10889395--10889438 Score: 54
Period size: 16 Copynumber: 2.5 Consensus size: 17
10889385 TTCAACCTTT
*
10889395 TTGTATATTATTATGTA
1 TTGTATATTATTATATA
10889412 -TGTATATTATTTGATATA
1 TTGTATATTA-TT-ATATA
10889430 TTGTATATT
1 TTGTATATT
10889439 TTCCTTATGT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
16 9 0.39
17 2 0.09
18 4 0.17
19 8 0.35
ACGTcount: A:0.30, C:0.00, G:0.11, T:0.59
Consensus pattern (17 bp):
TTGTATATTATTATATA
Found at i:10892507 original size:25 final size:26
Alignment explanation
Indices: 10892470--10892518 Score: 82
Period size: 25 Copynumber: 1.9 Consensus size: 26
10892460 AAAACTAAAG
10892470 AAAAATATAAAAAAATTAAATTTATT
1 AAAAATATAAAAAAATTAAATTTATT
*
10892496 AAAAATAT-AAAAAATTAGATTTA
1 AAAAATATAAAAAAATTAAATTTA
10892519 AAGTTGTTAT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
25 14 0.64
26 8 0.36
ACGTcount: A:0.65, C:0.00, G:0.02, T:0.33
Consensus pattern (26 bp):
AAAAATATAAAAAAATTAAATTTATT
Found at i:10892645 original size:25 final size:26
Alignment explanation
Indices: 10892616--10892673 Score: 75
Period size: 25 Copynumber: 2.3 Consensus size: 26
10892606 AAAATATAGG
10892616 GAAAATAGAAAAATTTA-TAAAAATAT
1 GAAAATAGAAAAATTTATTAAAAAT-T
**
10892642 -AAAATATCAAAATTTATTAAAAATT
1 GAAAATAGAAAAATTTATTAAAAATT
10892667 GAAAATA
1 GAAAATA
10892674 AATAAAAAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
25 15 0.54
26 13 0.46
ACGTcount: A:0.64, C:0.02, G:0.05, T:0.29
Consensus pattern (26 bp):
GAAAATAGAAAAATTTATTAAAAATT
Found at i:10893365 original size:14 final size:14
Alignment explanation
Indices: 10893348--10893399 Score: 54
Period size: 15 Copynumber: 3.6 Consensus size: 14
10893338 TTTTGAGCAA
10893348 TTTATTTTTTTTCT
1 TTTATTTTTTTTCT
*
10893362 TTTATGTTTTTTAACT
1 TTTAT-TTTTTT-TCT
10893378 TTCT-TTTTTTTTC-
1 TT-TATTTTTTTTCT
10893391 TTTATTTTT
1 TTTATTTTT
10893400 CATTCTCTTA
Statistics
Matches: 32, Mismatches: 2, Indels: 9
0.74 0.05 0.21
Matches are distributed among these distances:
12 1 0.03
13 7 0.22
14 6 0.19
15 12 0.38
16 5 0.16
17 1 0.03
ACGTcount: A:0.10, C:0.08, G:0.02, T:0.81
Consensus pattern (14 bp):
TTTATTTTTTTTCT
Found at i:10894525 original size:25 final size:26
Alignment explanation
Indices: 10894482--10894530 Score: 82
Period size: 25 Copynumber: 1.9 Consensus size: 26
10894472 TATAAAAAAG
10894482 TTTAATAATATTTATTTTTATATATT
1 TTTAATAATATTTATTTTTATATATT
*
10894508 TTTAATAAT-TTTATTTTTTTATA
1 TTTAATAATATTTATTTTTATATA
10894531 AATTTTATCA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
25 13 0.59
26 9 0.41
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (26 bp):
TTTAATAATATTTATTTTTATATATT
Found at i:10894528 original size:17 final size:18
Alignment explanation
Indices: 10894505--10894566 Score: 56
Period size: 19 Copynumber: 3.4 Consensus size: 18
10894495 ATTTTTATAT
10894505 ATTTTTAATAATTTTAT-
1 ATTTTTAATAATTTTATC
*
10894522 -TTTTTTATAAATTTTATC
1 ATTTTTAAT-AATTTTATC
* *
10894540 ATTTTTACTAATTATAATC
1 ATTTTTAATAATT-TTATC
10894559 ATATTTTA
1 AT-TTTTA
10894567 TCTTTTTTTC
Statistics
Matches: 36, Mismatches: 4, Indels: 7
0.77 0.09 0.15
Matches are distributed among these distances:
16 7 0.19
17 8 0.22
18 4 0.11
19 12 0.33
20 5 0.14
ACGTcount: A:0.34, C:0.05, G:0.00, T:0.61
Consensus pattern (18 bp):
ATTTTTAATAATTTTATC
Found at i:10894536 original size:26 final size:26
Alignment explanation
Indices: 10894482--10894537 Score: 78
Period size: 26 Copynumber: 2.2 Consensus size: 26
10894472 TATAAAAAAG
*
10894482 TTTAATAATATTTATTTTTATATATT
1 TTTAATAATATTTATTTTTATATAAT
*
10894508 TTTAATAAT-TTTATTTTTTTATAAAT
1 TTTAATAATATTTATTTTTATAT-AAT
10894534 TTTA
1 TTTA
10894538 TCATTTTTAC
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
25 12 0.44
26 15 0.56
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (26 bp):
TTTAATAATATTTATTTTTATATAAT
Found at i:10894718 original size:25 final size:26
Alignment explanation
Indices: 10894653--10894724 Score: 85
Period size: 25 Copynumber: 2.7 Consensus size: 26
10894643 ATTTTTTCTA
*
10894653 TATT-TTTTAATGAATTATCTATATTTT
1 TATTATTTTAAT-AATT-TTTATATTTT
*
10894680 TATATATTATAATAATTTTTATA-TTT
1 TAT-TATTTTAATAATTTTTATATTTT
10894706 TATTATTTTAATAATTTTT
1 TATTATTTTAATAATTTTT
10894725 TCTAACCATC
Statistics
Matches: 40, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
25 15 0.38
26 6 0.15
27 8 0.20
28 5 0.12
29 6 0.15
ACGTcount: A:0.33, C:0.01, G:0.01, T:0.64
Consensus pattern (26 bp):
TATTATTTTAATAATTTTTATATTTT
Found at i:10898398 original size:17 final size:17
Alignment explanation
Indices: 10898376--10898408 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
10898366 AAATGACATA
*
10898376 GTTTTGTCTTTTAACTG
1 GTTTTGACTTTTAACTG
10898393 GTTTTGACTTTTAACT
1 GTTTTGACTTTTAACT
10898409 TTAGAAAAAG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.15, C:0.12, G:0.15, T:0.58
Consensus pattern (17 bp):
GTTTTGACTTTTAACTG
Found at i:10903968 original size:16 final size:18
Alignment explanation
Indices: 10903941--10903973 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
10903931 TAAAATTGGG
10903941 TTGAGAAAATT-ATTTAA
1 TTGAGAAAATTAATTTAA
10903958 TTGAG-AAATTAATTTA
1 TTGAGAAAATTAATTTA
10903974 GTTAATTAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 5 0.33
17 10 0.67
ACGTcount: A:0.45, C:0.00, G:0.12, T:0.42
Consensus pattern (18 bp):
TTGAGAAAATTAATTTAA
Found at i:10906534 original size:38 final size:38
Alignment explanation
Indices: 10906483--10906558 Score: 152
Period size: 38 Copynumber: 2.0 Consensus size: 38
10906473 CCTCATTGAG
10906483 ATTGTTTTTTGAGTGCATAAAGGTGAGGTTTGTTTAAT
1 ATTGTTTTTTGAGTGCATAAAGGTGAGGTTTGTTTAAT
10906521 ATTGTTTTTTGAGTGCATAAAGGTGAGGTTTGTTTAAT
1 ATTGTTTTTTGAGTGCATAAAGGTGAGGTTTGTTTAAT
10906559 TTTTTTCTTT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 38 1.00
ACGTcount: A:0.24, C:0.03, G:0.26, T:0.47
Consensus pattern (38 bp):
ATTGTTTTTTGAGTGCATAAAGGTGAGGTTTGTTTAAT
Found at i:10909458 original size:31 final size:31
Alignment explanation
Indices: 10909423--10909565 Score: 110
Period size: 31 Copynumber: 4.6 Consensus size: 31
10909413 CAACAATATA
* * *
10909423 TATATTCATATACGAACCAAATTTGACAATG
1 TATAATCATATACGAATCAAATTTGGCAATG
* *
10909454 TAT-ATCTATATACAAATC-AATTCGGCAATG
1 TATAATC-ATATACGAATCAAATTTGGCAATG
* * *
10909484 TATAACCATATATGAATCAAGTTTGGCAATG
1 TATAATCATATACGAATCAAATTTGGCAATG
* ** * *** *
10909515 TATAATCATAGATAAATTAAATTCAACAGTG
1 TATAATCATATACGAATCAAATTTGGCAATG
*
10909546 TATAACCATATACGAATCAA
1 TATAATCATATACGAATCAA
10909566 TTCGACAACT
Statistics
Matches: 85, Mismatches: 24, Indels: 6
0.74 0.21 0.05
Matches are distributed among these distances:
30 24 0.28
31 61 0.72
ACGTcount: A:0.43, C:0.15, G:0.10, T:0.31
Consensus pattern (31 bp):
TATAATCATATACGAATCAAATTTGGCAATG
Found at i:10909514 original size:61 final size:60
Alignment explanation
Indices: 10909407--10909799 Score: 280
Period size: 61 Copynumber: 6.4 Consensus size: 60
10909397 AATGCTCAAA
* * * *
10909407 TCAATTCAACAATATATATATTCATATACGAACCAAATTTGACAATGTATATCTATATACAAA
1 TCAATTCAACAATGTATA-A-CCATATACGAATC-AATTTGACAATGTATATCTATATACAAT
** * * *
10909470 TCAATTCGGCAATGTATAACCATATATGAATCAAGTTTGGCAATGTATAATCATAGATA-AAT
1 TCAATTCAACAATGTATAACCATATACGAATCAA-TTTGACAATGTAT-ATC-TATATACAAT
* * * *
10909532 TAAATTCAACAGTGTATAACCATATACGAATCAATTCGACAACT-TATATCCATATACAAT
1 TCAATTCAACAATGTATAACCATATACGAATCAATTTGACAA-TGTATATCTATATACAAT
* * * * * *
10909592 TCAATTTCAACAATGTATAACCATGTACAAATTAATATCAGCAATATGTA-ATC-ATATACAAA
1 TCAA-TTCAACAATGTATAACCATATACGAATCAATTTGA-C-A-ATGTATATCTATATACAAT
* * * * *
10909654 TCAATTCAACAACT-TATATCCATATAC-AATTCAATTTCAACAATGTATAACCATGTACAAAT
1 TCAATTCAACAA-TGTATAACCATATACGAA-TCAATTT-GACAATGTATATCTATATAC-AAT
* * * * * * *
10909716 T-AATTTCAGCAATATATAATCATATACAAATCAATTCGGCAACT-TATATCCATATACAAT
1 TCAA-TTCAACAATGTATAACCATATACGAATCAATTTGACAA-TGTATATCTATATACAAT
*
10909776 TCAATTTCAACAACGTATAACCAT
1 TCAA-TTCAACAATGTATAACCAT
10909800 GCACAAATTA
Statistics
Matches: 262, Mismatches: 47, Indels: 44
0.74 0.13 0.12
Matches are distributed among these distances:
59 9 0.03
60 20 0.08
61 124 0.47
62 79 0.30
63 27 0.10
64 3 0.01
ACGTcount: A:0.44, C:0.18, G:0.07, T:0.32
Consensus pattern (60 bp):
TCAATTCAACAATGTATAACCATATACGAATCAATTTGACAATGTATATCTATATACAAT
Found at i:10909652 original size:31 final size:31
Alignment explanation
Indices: 10909510--10909838 Score: 214
Period size: 31 Copynumber: 10.7 Consensus size: 31
10909500 TCAAGTTTGG
* * * *
10909510 CAATGTATAATCATAGATAAATTAAATTCAA
1 CAATATATAATCATATACAAATTAATTTCAA
* * * * * *
10909541 CAGTGTATAACCATATACGAATCAA-TTCGA
1 CAATATATAATCATATACAAATTAATTTCAA
10909571 CAACT-TAT-ATCCATATAC-AATTCAATTTCAA
1 CAA-TATATAAT-CATATACAAATT-AATTTCAA
* * * * *
10909602 CAATGTATAACCATGTACAAATTAATATCAG
1 CAATATATAATCATATACAAATTAATTTCAA
* *
10909633 CAATATGTAATCATATACAAATCAA-TTCAA
1 CAATATATAATCATATACAAATTAATTTCAA
10909663 CAACT-TAT-ATCCATATAC-AATTCAATTTCAA
1 CAA-TATATAAT-CATATACAAATT-AATTTCAA
* * * *
10909694 CAATGTATAACCATGTACAAATTAATTTCAG
1 CAATATATAATCATATACAAATTAATTTCAA
* **
10909725 CAATATATAATCATATACAAATCAA-TTCGG
1 CAATATATAATCATATACAAATTAATTTCAA
10909755 CAACT-TAT-ATCCATATAC-AATTCAATTTCAA
1 CAA-TATATAAT-CATATACAAATT-AATTTCAA
** * ** *
10909786 CAACGTATAACCATGCACAAATTAATTTCAG
1 CAATATATAATCATATACAAATTAATTTCAA
*
10909817 CAATATACAATCATATACAAAT
1 CAATATATAATCATATACAAAT
10909839 CAAGTCGGCA
Statistics
Matches: 231, Mismatches: 46, Indels: 42
0.72 0.14 0.13
Matches are distributed among these distances:
29 14 0.06
30 56 0.24
31 146 0.63
32 15 0.06
ACGTcount: A:0.45, C:0.19, G:0.05, T:0.31
Consensus pattern (31 bp):
CAATATATAATCATATACAAATTAATTTCAA
Found at i:10909806 original size:61 final size:61
Alignment explanation
Indices: 10909448--10909841 Score: 261
Period size: 61 Copynumber: 6.4 Consensus size: 61
10909438 ACCAAATTTG
* * * ** ** **
10909448 ACAATGTATATCTATATACAAATCAA-TTCGGCAATGTATAACCATATATGAATCAAGTTTG
1 ACAATATATATCCATATACAATTCAATTTCAACAATGTATAACCATATACAAATCAA-TTCA
* * * * * *
10909509 GCAATGTATAAT-CATAGATA-AATT-AAATTCAACAGTGTATAACCATATACGAATCAATTCG
1 ACAATATAT-ATCCAT--ATACAATTCAATTTCAACAATGTATAACCATATACAAATCAATTCA
* *
10909570 ACAACT-TATATCCATATACAATTCAATTTCAACAATGTATAACCATGTACAAATTAATATCA
1 ACAA-TATATATCCATATACAATTCAATTTCAACAATGTATAACCATATACAAATCAAT-TCA
* * * * *
10909632 GCAATATGTAAT-CATATACAAATCAA-TTCAACAACT-TATATCCATATACAATTCAATTTCA
1 ACAATATAT-ATCCATATACAATTCAATTTCAACAA-TGTATAACCATATACAAATCAA-TTCA
* * * * * * *
10909693 ACAATGTATAACCATGTACAAATT-AATTTCAGCAATATATAATCATATACAAATCAATTCG
1 ACAATATATATCCATATAC-AATTCAATTTCAACAATGTATAACCATATACAAATCAATTCA
* * ** *
10909754 GCAACT-TATATCCATATACAATTCAATTTCAACAACGTATAACCATGCACAAATTAATTTCA
1 ACAA-TATATATCCATATACAATTCAATTTCAACAATGTATAACCATATACAAATCAA-TTCA
* * *
10909816 GCAATATACAAT-CATATACAAATCAA
1 ACAATATA-TATCCATATACAATTCAA
10909842 GTCGGCAACT
Statistics
Matches: 265, Mismatches: 46, Indels: 43
0.75 0.13 0.12
Matches are distributed among these distances:
59 3 0.01
60 11 0.04
61 140 0.53
62 104 0.39
63 7 0.03
ACGTcount: A:0.44, C:0.18, G:0.07, T:0.31
Consensus pattern (61 bp):
ACAATATATATCCATATACAATTCAATTTCAACAATGTATAACCATATACAAATCAATTCA
Found at i:10909915 original size:92 final size:92
Alignment explanation
Indices: 10909461--10909888 Score: 549
Period size: 92 Copynumber: 4.7 Consensus size: 92
10909451 ATGTATATCT
* * * ** *
10909461 ATATACAAATCAATTCGGCAA-TGTATAACCATATATGAA-TCAAGTTT-GGCAATGTATAATCA
1 ATATACAAATCAATTCGACAACT-TATATCCATATA-CAATTCAA-TTTCAACAATGTATAACCA
* * * * * *
10909523 TAG-ATAAATTAAATTCAACAGTGTATAACC
63 T-GTACAAATTAATTTCAGCAATATATAATC
*
10909553 ATATACGAATCAATTCGACAACTTATATCCATATACAATTCAATTTCAACAATGTATAACCATGT
1 ATATACAAATCAATTCGACAACTTATATCCATATACAATTCAATTTCAACAATGTATAACCATGT
* *
10909618 ACAAATTAATATCAGCAATATGTAATC
66 ACAAATTAATTTCAGCAATATATAATC
*
10909645 ATATACAAATCAATTCAACAACTTATATCCATATACAATTCAATTTCAACAATGTATAACCATGT
1 ATATACAAATCAATTCGACAACTTATATCCATATACAATTCAATTTCAACAATGTATAACCATGT
10909710 ACAAATTAATTTCAGCAATATATAATC
66 ACAAATTAATTTCAGCAATATATAATC
* * *
10909737 ATATACAAATCAATTCGGCAACTTATATCCATATACAATTCAATTTCAACAACGTATAACCATGC
1 ATATACAAATCAATTCGACAACTTATATCCATATACAATTCAATTTCAACAATGTATAACCATGT
*
10909802 ACAAATTAATTTCAGCAATATACAATC
66 ACAAATTAATTTCAGCAATATATAATC
* * * * * **
10909829 ATATACAAATCAAGTCGGCAACTTATATCCATTTGCAAATCAATTTTGACAATGTATAAC
1 ATATACAAATCAATTCGACAACTTATATCCATATACAATTCAATTTCAACAATGTATAAC
10909889 TATAAAAAAT
Statistics
Matches: 301, Mismatches: 31, Indels: 8
0.89 0.09 0.02
Matches are distributed among these distances:
91 6 0.02
92 294 0.98
93 1 0.00
ACGTcount: A:0.43, C:0.18, G:0.07, T:0.31
Consensus pattern (92 bp):
ATATACAAATCAATTCGACAACTTATATCCATATACAATTCAATTTCAACAATGTATAACCATGT
ACAAATTAATTTCAGCAATATATAATC
Found at i:10909917 original size:25 final size:25
Alignment explanation
Indices: 10909889--10909942 Score: 74
Period size: 25 Copynumber: 2.2 Consensus size: 25
10909879 AATGTATAAC
*
10909889 TATAAAA-AATTCGAATTCGGCAATA
1 TATAAAACAA-TCAAATTCGGCAATA
*
10909914 TATAAAACAATCAAATTCGGCAATG
1 TATAAAACAATCAAATTCGGCAATA
10909939 TATA
1 TATA
10909943 TCTATAATTA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
25 24 0.92
26 2 0.08
ACGTcount: A:0.48, C:0.13, G:0.11, T:0.28
Consensus pattern (25 bp):
TATAAAACAATCAAATTCGGCAATA
Found at i:10915274 original size:34 final size:33
Alignment explanation
Indices: 10915218--10915304 Score: 102
Period size: 34 Copynumber: 2.6 Consensus size: 33
10915208 TTTTCATATA
* * * *
10915218 AAAATGTCACATTACCAAAAACATATATCCGATC
1 AAAATGTCA-ATTTCTAGAAACATATATCAGATC
10915252 AAAATGTCATATTTCTAGAAACATATATCAGATC
1 AAAATGTCA-ATTTCTAGAAACATATATCAGATC
* *
10915286 AAAATATCAATTTTTAGAA
1 AAAATGTCAATTTCTAGAA
10915305 GTACATATCA
Statistics
Matches: 46, Mismatches: 7, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
33 9 0.20
34 37 0.80
ACGTcount: A:0.47, C:0.16, G:0.07, T:0.30
Consensus pattern (33 bp):
AAAATGTCAATTTCTAGAAACATATATCAGATC
Found at i:10915313 original size:33 final size:34
Alignment explanation
Indices: 10915236--10915319 Score: 89
Period size: 34 Copynumber: 2.5 Consensus size: 34
10915226 ACATTACCAA
* * *
10915236 AAACATATATCCGATCAAAATGTCATATTTCTAG
1 AAACACATATCAGATCAAAATATCATATTTCTAG
* *
10915270 AAACATATATCAGATCAAAATATCA-ATTTTTAG
1 AAACACATATCAGATCAAAATATCATATTTCTAG
** *
10915303 AAGTACATATCATATCA
1 AAACACATATCAGATCA
10915320 TATTAGAACA
Statistics
Matches: 43, Mismatches: 7, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
33 20 0.47
34 23 0.53
ACGTcount: A:0.45, C:0.15, G:0.07, T:0.32
Consensus pattern (34 bp):
AAACACATATCAGATCAAAATATCATATTTCTAG
Found at i:10918203 original size:19 final size:19
Alignment explanation
Indices: 10918181--10918238 Score: 59
Period size: 19 Copynumber: 3.1 Consensus size: 19
10918171 AAATTTTATT
10918181 ATAATATTTAAATTTTTAA
1 ATAATATTTAAATTTTTAA
10918200 ATAA-A-TTAATATATTTT-A
1 ATAATATTTAA-AT-TTTTAA
* *
10918218 ATTATATTTAAAATTTTAA
1 ATAATATTTAAATTTTTAA
10918237 AT
1 AT
10918239 TAAGAAATAT
Statistics
Matches: 32, Mismatches: 2, Indels: 10
0.73 0.05 0.23
Matches are distributed among these distances:
17 4 0.12
18 11 0.34
19 13 0.41
20 4 0.12
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (19 bp):
ATAATATTTAAATTTTTAA
Found at i:10923010 original size:19 final size:16
Alignment explanation
Indices: 10922986--10923034 Score: 55
Period size: 19 Copynumber: 2.9 Consensus size: 16
10922976 CATATTTTAT
10922986 ATTATTTATTTTTAATA
1 ATTATTT-TTTTTAATA
10923003 TCATTATTTTCTTTT-ATA
1 --ATTATTTT-TTTTAATA
10923021 ATTATTTTTTTTAA
1 ATTATTTTTTTTAA
10923035 CTTATTAAAT
Statistics
Matches: 28, Mismatches: 0, Indels: 7
0.80 0.00 0.20
Matches are distributed among these distances:
15 4 0.14
16 9 0.32
18 4 0.14
19 11 0.39
ACGTcount: A:0.29, C:0.04, G:0.00, T:0.67
Consensus pattern (16 bp):
ATTATTTTTTTTAATA
Found at i:10930216 original size:57 final size:57
Alignment explanation
Indices: 10930128--10930242 Score: 230
Period size: 57 Copynumber: 2.0 Consensus size: 57
10930118 GTAATTTGAA
10930128 AGATTGGAAATTGTTTCCATTTACTGAAAGTATGTGATTATTGAAGACATGCTGAGC
1 AGATTGGAAATTGTTTCCATTTACTGAAAGTATGTGATTATTGAAGACATGCTGAGC
10930185 AGATTGGAAATTGTTTCCATTTACTGAAAGTATGTGATTATTGAAGACATGCTGAGC
1 AGATTGGAAATTGTTTCCATTTACTGAAAGTATGTGATTATTGAAGACATGCTGAGC
10930242 A
1 A
10930243 TGTCAAATGA
Statistics
Matches: 58, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
57 58 1.00
ACGTcount: A:0.32, C:0.10, G:0.23, T:0.35
Consensus pattern (57 bp):
AGATTGGAAATTGTTTCCATTTACTGAAAGTATGTGATTATTGAAGACATGCTGAGC
Found at i:10931654 original size:24 final size:24
Alignment explanation
Indices: 10931626--10931807 Score: 109
Period size: 24 Copynumber: 7.5 Consensus size: 24
10931616 AGGCTCTTTT
10931626 ATGAGCTTCCCGATATTGGCTCGC
1 ATGAGCTTCCCGATATTGGCTCGC
* * *
10931650 ATGAGCTTCCTGATATTAGCTTGC
1 ATGAGCTTCCCGATATTGGCTCGC
* *
10931674 ATGAGCTTCTCGATATTGGCTTGC
1 ATGAGCTTCCCGATATTGGCTCGC
* * * * * *
10931698 TTGAACTTCTCGACATTGACTCGT
1 ATGAGCTTCCCGATATTGGCTCGC
* * *
10931722 ATGAGCTTTCC-ATTAATGGCTCTC
1 ATGAGCTTCCCGA-TATTGGCTCGC
** * **
10931746 CGGAGCTTCCC-ATTACATGGCTCAT
1 ATGAGCTTCCCGA-TA-TTGGCTCGC
*
10931771 ATGAGCTTCCC-ATTATATGGCTCGA
1 ATGAGCTTCCCGA-TAT-TGGCTCGC
*
10931796 AAGAGCTTCCCG
1 ATGAGCTTCCCG
10931808 TTTATATGCT
Statistics
Matches: 122, Mismatches: 32, Indels: 6
0.76 0.20 0.04
Matches are distributed among these distances:
23 1 0.01
24 85 0.70
25 36 0.30
ACGTcount: A:0.20, C:0.26, G:0.21, T:0.33
Consensus pattern (24 bp):
ATGAGCTTCCCGATATTGGCTCGC
Found at i:10931826 original size:25 final size:25
Alignment explanation
Indices: 10931717--10931832 Score: 103
Period size: 25 Copynumber: 4.6 Consensus size: 25
10931707 TCGACATTGA
*
10931717 CTCGTATGAGCTTTCCATTA-ATGG
1 CTCGTATGAGCTTCCCATTATATGG
** *
10931741 CTC-TCCGGAGCTTCCCATTACATGG
1 CTCGT-ATGAGCTTCCCATTATATGG
*
10931766 CTCATATGAGCTTCCCATTATATGG
1 CTCGTATGAGCTTCCCATTATATGG
* * *
10931791 CTCGAAAGAGCTTCCCGTTTATAT-G
1 CTCGTATGAGCTTCCC-ATTATATGG
*
10931816 CTTGTATGAGCATTCCC
1 CTCGTATGAGC-TTCCC
10931833 TAATATGAAT
Statistics
Matches: 74, Mismatches: 13, Indels: 8
0.78 0.14 0.08
Matches are distributed among these distances:
23 1 0.01
24 15 0.20
25 46 0.62
26 12 0.16
ACGTcount: A:0.21, C:0.27, G:0.19, T:0.34
Consensus pattern (25 bp):
CTCGTATGAGCTTCCCATTATATGG
Found at i:10933880 original size:9 final size:9
Alignment explanation
Indices: 10933866--10933893 Score: 56
Period size: 9 Copynumber: 3.1 Consensus size: 9
10933856 ACATTCGACT
10933866 TCAAAGAAA
1 TCAAAGAAA
10933875 TCAAAGAAA
1 TCAAAGAAA
10933884 TCAAAGAAA
1 TCAAAGAAA
10933893 T
1 T
10933894 ATCATGATCG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 19 1.00
ACGTcount: A:0.64, C:0.11, G:0.11, T:0.14
Consensus pattern (9 bp):
TCAAAGAAA
Found at i:10934791 original size:22 final size:22
Alignment explanation
Indices: 10934763--10934807 Score: 90
Period size: 22 Copynumber: 2.0 Consensus size: 22
10934753 GTGTCAGTTG
10934763 TTTGTGAATATCCTGATGTATT
1 TTTGTGAATATCCTGATGTATT
10934785 TTTGTGAATATCCTGATGTATT
1 TTTGTGAATATCCTGATGTATT
10934807 T
1 T
10934808 CCCGAAGAGT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.22, C:0.09, G:0.18, T:0.51
Consensus pattern (22 bp):
TTTGTGAATATCCTGATGTATT
Found at i:10938979 original size:24 final size:24
Alignment explanation
Indices: 10938952--10939052 Score: 76
Period size: 24 Copynumber: 3.9 Consensus size: 24
10938942 ATGCTCTTTT
10938952 ATGAGCTTCCCGATATTGGCTCGC
1 ATGAGCTTCCCGATATTGGCTCGC
*
10938976 ATGAGCTTCCTAATTCTCGATATTGGCTAGC
1 ATGAGCTT-C-----C-CGATATTGGCTCGC
* * * *
10939007 TTGAACTTCCCGACATTGGCTCGT
1 ATGAGCTTCCCGATATTGGCTCGC
* *
10939031 ATGAGCTTCCCGTTAATGGCTC
1 ATGAGCTTCCCGATATTGGCTC
10939053 TTCGGAACTT
Statistics
Matches: 59, Mismatches: 11, Indels: 14
0.70 0.13 0.17
Matches are distributed among these distances:
24 36 0.61
25 2 0.03
30 2 0.03
31 19 0.32
ACGTcount: A:0.19, C:0.27, G:0.22, T:0.33
Consensus pattern (24 bp):
ATGAGCTTCCCGATATTGGCTCGC
Found at i:10939085 original size:25 final size:26
Alignment explanation
Indices: 10939008--10939118 Score: 92
Period size: 25 Copynumber: 4.5 Consensus size: 26
10938998 TTGGCTAGCT
*
10939008 TGAACTTCCCG--ACATTGGCTCG-TA
1 TGAACTTCCCGTTACA-TGGCTCGACA
* **
10939032 TGAGCTTCCCGTTA-ATGGCTCTTC-
1 TGAACTTCCCGTTACATGGCTCGACA
*
10939056 GGAACTTCCCGTTACATGGCTC-ACA
1 TGAACTTCCCGTTACATGGCTCGACA
* *
10939081 TGAACTTCTCGTTATATGGCTCGA-A
1 TGAACTTCCCGTTACATGGCTCGACA
*
10939106 AGAACTTCCCGTT
1 TGAACTTCCCGTT
10939119 TATATACTTG
Statistics
Matches: 70, Mismatches: 11, Indels: 11
0.76 0.12 0.12
Matches are distributed among these distances:
24 29 0.41
25 39 0.56
26 2 0.03
ACGTcount: A:0.21, C:0.28, G:0.20, T:0.32
Consensus pattern (26 bp):
TGAACTTCCCGTTACATGGCTCGACA
Found at i:10941999 original size:15 final size:15
Alignment explanation
Indices: 10941979--10942030 Score: 50
Period size: 15 Copynumber: 3.2 Consensus size: 15
10941969 ATTACAAAAC
10941979 ATTTATTATTAATAT
1 ATTTATTATTAATAT
*
10941994 ATTTATAATTGTAATAAAT
1 ATTTATTA-T-TAAT--AT
*
10942013 ATTTATTATTAAAAT
1 ATTTATTATTAATAT
10942028 ATT
1 ATT
10942031 AATGTTGAAT
Statistics
Matches: 30, Mismatches: 3, Indels: 8
0.73 0.07 0.20
Matches are distributed among these distances:
15 12 0.40
16 1 0.03
17 7 0.23
18 1 0.03
19 9 0.30
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (15 bp):
ATTTATTATTAATAT
Found at i:10942094 original size:16 final size:16
Alignment explanation
Indices: 10942063--10942099 Score: 58
Period size: 16 Copynumber: 2.3 Consensus size: 16
10942053 ATGTGAAGAA
10942063 TATTATTTAAAATTAT
1 TATTATTTAAAATTAT
10942079 TATT-TTTAAAATTTAT
1 TATTATTTAAAA-TTAT
10942095 TATTA
1 TATTA
10942100 AAATAAAATT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
15 7 0.37
16 12 0.63
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (16 bp):
TATTATTTAAAATTAT
Found at i:10942319 original size:27 final size:27
Alignment explanation
Indices: 10942267--10942319 Score: 63
Period size: 27 Copynumber: 2.0 Consensus size: 27
10942257 TAAAATTTAT
* **
10942267 TATCAATATAATAATTTTTTTGTTGAA
1 TATCAATATAATAATTATTAAGTTGAA
10942294 TATCAATATAATAA-TATTAAGCTTGA
1 TATCAATATAATAATTATTAAG-TTGA
10942320 TTTAAATTAA
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
26 4 0.18
27 18 0.82
ACGTcount: A:0.42, C:0.06, G:0.08, T:0.45
Consensus pattern (27 bp):
TATCAATATAATAATTATTAAGTTGAA
Found at i:10943992 original size:98 final size:98
Alignment explanation
Indices: 10943823--10944016 Score: 352
Period size: 98 Copynumber: 2.0 Consensus size: 98
10943813 ATACAATAAA
*
10943823 ACTTTAAAAGAACATCCACTCATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACGATC
1 ACTTTAAAAGAACATCCACTCATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACAATC
10943888 CCTTTAGAATCCCAAACTCGGAATATTTCCTAT
66 CCTTTAGAATCCCAAACTCGGAATATTTCCTAT
* *
10943921 ACTTTAAAAGAACATCCACTTATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACAATT
1 ACTTTAAAAGAACATCCACTCATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACAATC
*
10943986 CCTTTAGAATCTCAAACTCGGAATATTTCCT
66 CCTTTAGAATCCCAAACTCGGAATATTTCCT
10944017 TCATGATTTT
Statistics
Matches: 92, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
98 92 1.00
ACGTcount: A:0.37, C:0.25, G:0.11, T:0.27
Consensus pattern (98 bp):
ACTTTAAAAGAACATCCACTCATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACAATC
CCTTTAGAATCCCAAACTCGGAATATTTCCTAT
Found at i:10944719 original size:25 final size:26
Alignment explanation
Indices: 10944689--10944739 Score: 77
Period size: 27 Copynumber: 2.0 Consensus size: 26
10944679 ATATAAATAT
10944689 GAAAATATTC-ATTAAAAAAATATAG
1 GAAAATATTCGATTAAAAAAATATAG
*
10944714 GAAAATATTCGTTTTAAAAAAATATA
1 GAAAATATTCG-ATTAAAAAAATATA
10944740 TACATGTACA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
25 10 0.43
27 13 0.57
ACGTcount: A:0.57, C:0.04, G:0.08, T:0.31
Consensus pattern (26 bp):
GAAAATATTCGATTAAAAAAATATAG
Found at i:10945521 original size:19 final size:19
Alignment explanation
Indices: 10945497--10945628 Score: 219
Period size: 19 Copynumber: 6.8 Consensus size: 19
10945487 AATCATATAT
10945497 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
**
10945516 TCTAAGATTATATATCATA
1 TCTAAGATTGCATATCATA
10945535 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
10945554 TCTAAGATTGCATATATCATA
1 TCTAAGATTGC--ATATCATA
10945575 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
*
10945594 TCTAGGATTGCATATCATA
1 TCTAAGATTGCATATCATA
10945613 TCTAAGATTGCATATC
1 TCTAAGATTGCATATC
10945629 CTCAAAAATT
Statistics
Matches: 105, Mismatches: 6, Indels: 4
0.91 0.05 0.03
Matches are distributed among these distances:
19 86 0.82
21 19 0.18
ACGTcount: A:0.36, C:0.15, G:0.11, T:0.38
Consensus pattern (19 bp):
TCTAAGATTGCATATCATA
Found at i:10945581 original size:59 final size:59
Alignment explanation
Indices: 10945490--10945627 Score: 221
Period size: 59 Copynumber: 2.4 Consensus size: 59
10945480 ATTACAAAAT
*
10945490 CATAT-AT-TCTAAGATTGC--ATATCATATCTAAGATTATATATCATATCTAAGATTG
1 CATATCATATCTAAGATTGCATATATCATATCTAAGATTACATATCATATCTAAGATTG
* *
10945545 CATATCATATCTAAGATTGCATATATCATATCTAAGATTGCATATCATATCTAGGATTG
1 CATATCATATCTAAGATTGCATATATCATATCTAAGATTACATATCATATCTAAGATTG
10945604 CATATCATATCTAAGATTGCATAT
1 CATATCATATCTAAGATTGCATAT
10945628 CCTCAAAAAT
Statistics
Matches: 76, Mismatches: 3, Indels: 4
0.92 0.04 0.05
Matches are distributed among these distances:
55 5 0.07
56 2 0.03
57 11 0.14
59 58 0.76
ACGTcount: A:0.37, C:0.14, G:0.10, T:0.38
Consensus pattern (59 bp):
CATATCATATCTAAGATTGCATATATCATATCTAAGATTACATATCATATCTAAGATTG
Found at i:10946084 original size:89 final size:89
Alignment explanation
Indices: 10945980--10946270 Score: 357
Period size: 89 Copynumber: 3.3 Consensus size: 89
10945970 CTTTAATCTA
*
10945980 CTCCACTACAACTTCAGGGAGATAAGACTTGCCATCTTCAGTCTGCCCCACTGTAACTTCAGGAG
1 CTCCACTACAACTTCAGGGAGATAAGACTTGCCATCTTCAGTCTGCCCCACTGCAACTTCAGGAG
10946045 GATAAGACTTGCTTACTTAGTCTG
66 GATAAGACTTGCTTACTTAGTCTG
* * * * *
10946069 CTCCACTGCAACTTCAGGGAGATAAGATTTG--A--TGC-GATCTG-CTCTCTGCAACTTCA-GA
1 CTCCACTACAACTTCAGGGAGATAAGACTTGCCATCTTCAG-TCTGCCCCACTGCAACTTCAGGA
* * * *
10946127 GAGATAAGATCTAAGGTT--TTAATCCG
65 G-GATAAGA-CT-TGCTTACTTAGTCTG
* *
10946153 CTCCACTGCAACTTCAGGGAGATAAGACTTGCCATCTTCAGTCTGCCCCACTGCAACTTGAGGAG
1 CTCCACTACAACTTCAGGGAGATAAGACTTGCCATCTTCAGTCTGCCCCACTGCAACTTCAGGAG
*
10946218 GATAAGACTTGCTTACTTAGTCTA
66 GATAAGACTTGCTTACTTAGTCTG
*
10946242 CTCCACTACAACTTCAGGGAAATAAGACT
1 CTCCACTACAACTTCAGGGAGATAAGACT
10946271 AGATGCGATC
Statistics
Matches: 167, Mismatches: 22, Indels: 26
0.78 0.10 0.12
Matches are distributed among these distances:
83 3 0.02
84 56 0.34
85 8 0.05
86 4 0.02
87 4 0.02
88 8 0.05
89 81 0.49
90 3 0.02
ACGTcount: A:0.28, C:0.25, G:0.20, T:0.27
Consensus pattern (89 bp):
CTCCACTACAACTTCAGGGAGATAAGACTTGCCATCTTCAGTCTGCCCCACTGCAACTTCAGGAG
GATAAGACTTGCTTACTTAGTCTG
Found at i:10946162 original size:84 final size:84
Alignment explanation
Indices: 10946069--10946349 Score: 336
Period size: 84 Copynumber: 3.3 Consensus size: 84
10946059 ACTTAGTCTG
*
10946069 CTCCACTGCAACTTCAGGGAGATAAGATTTGATGCGATCTGCTCTCTGCAACTTCAGAGAGATAA
1 CTCCACTGCAACTTCAGGGAGATAAGACTTGATGCGATCTGCTCTCTGCAACTTCAGAGAGATAA
*
10946134 GATCTAAGGTTTTAATCCG
66 GATCTAAGGTTTTAATCCA
* * * *
10946153 CTCCACTGCAACTTCAGGGAGATAAGACTTGCCAT-CTTCAGTCTGCCCCACTGCAACTTGAG-G
1 CTCCACTGCAACTTCAGGGAGATAAGACTTG--ATGC--GA-TCTG-CTCTCTGCAACTTCAGAG
* * * *
10946216 AGGATAAGA-CT-TGCTTACTTAGTCTA
60 A-GATAAGATCTAAGGTT--TTAATCCA
* * *
10946242 CTCCACTACAACTTCAGGGAAATAAGACTAGATGCGATCTGCTCTCTGCAACTTCAGAGAGATAA
1 CTCCACTGCAACTTCAGGGAGATAAGACTTGATGCGATCTGCTCTCTGCAACTTCAGAGAGATAA
10946307 GATCTAAGGTTTTAATCCA
66 GATCTAAGGTTTTAATCCA
10946326 CTCCACTGCAACTTCAGGGAGATA
1 CTCCACTGCAACTTCAGGGAGATA
10946350 GGATCTACAA
Statistics
Matches: 161, Mismatches: 23, Indels: 26
0.77 0.11 0.12
Matches are distributed among these distances:
84 78 0.48
85 9 0.06
86 6 0.04
87 6 0.04
88 9 0.06
89 53 0.33
ACGTcount: A:0.29, C:0.24, G:0.20, T:0.27
Consensus pattern (84 bp):
CTCCACTGCAACTTCAGGGAGATAAGACTTGATGCGATCTGCTCTCTGCAACTTCAGAGAGATAA
GATCTAAGGTTTTAATCCA
Found at i:10946338 original size:44 final size:43
Alignment explanation
Indices: 10945812--10946355 Score: 296
Period size: 44 Copynumber: 12.6 Consensus size: 43
10945802 TAGTCTGCCT
* * * *
10945812 CACTGCAACTTCA-GGACGATAAGA-CTTGCTTATTTAGTCTACTT
1 CACTGCAACTTCAGGGA-GATAAGATCTTG-GT-TTTAATCTGCTC
* * *** *
10945856 CACTGCAACTTCAGGGAGATAAGA-C-TAGATGCGATCCGCT-
1 CACTGCAACTTCAGGGAGATAAGATCTTGGTTTTAATCTGCTC
* * * *
10945896 CTCTGCAACTTCAGAGAGATAAGATCTAAGGTTTTAATCCGCTC
1 CACTGCAACTTCAGGGAGATAAGATCT-TGGTTTTAATCTGCTC
* * * *
10945940 CACTGCAACTTCAGGGAGATAGGAT-TATCGCTTTAATCTACTC
1 CACTGCAACTTCAGGGAGATAAGATCT-TGGTTTTAATCTGCTC
* * * * *
10945983 CACTACAACTTCAGGGAGATAAGA-CTTGCCATCTTCAGTCTGCCC
1 CACTGCAACTTCAGGGAGATAAGATCTTG--GT-TTTAATCTGCTC
* * *
10946028 CACTGTAACTTCA-GGAGGATAAGA-CTTGCTTACTTAGTCTGCTC
1 CACTGCAACTTCAGGGA-GATAAGATCTTGGTT--TTAATCTGCTC
* ***
10946072 CACTGCAACTTCAGGGAGATAAGAT-TT-GATGCGATCTGCT-
1 CACTGCAACTTCAGGGAGATAAGATCTTGGTTTTAATCTGCTC
* * * *
10946112 CTCTGCAACTTCAGAGAGATAAGATCTAAGGTTTTAATCCGCTC
1 CACTGCAACTTCAGGGAGATAAGATCT-TGGTTTTAATCTGCTC
* * * *
10946156 CACTGCAACTTCAGGGAGATAAGA-CTTGCCATCTTCAGTCTGCCC
1 CACTGCAACTTCAGGGAGATAAGATCTTG--GT-TTTAATCTGCTC
* * * *
10946201 CACTGCAACTTGA-GGAGGATAAGA-CTTGCTTACTTAGTCTACTC
1 CACTGCAACTTCAGGGA-GATAAGATCTTGGTT--TTAATCTGCTC
* * * * ***
10946245 CACTACAACTTCAGGGAAATAAGA-C-TAGATGCGATCTGCT-
1 CACTGCAACTTCAGGGAGATAAGATCTTGGTTTTAATCTGCTC
* * * **
10946285 CTCTGCAACTTCAGAGAGATAAGATCTAAGGTTTTAATCCACTC
1 CACTGCAACTTCAGGGAGATAAGATCT-TGGTTTTAATCTGCTC
*
10946329 CACTGCAACTTCAGGGAGATAGGATCT
1 CACTGCAACTTCAGGGAGATAAGATCT
10946356 ACAATCTTCA
Statistics
Matches: 378, Mismatches: 93, Indels: 58
0.71 0.18 0.11
Matches are distributed among these distances:
40 65 0.17
41 19 0.05
42 4 0.01
43 68 0.18
44 152 0.40
45 70 0.19
ACGTcount: A:0.28, C:0.24, G:0.20, T:0.28
Consensus pattern (43 bp):
CACTGCAACTTCAGGGAGATAAGATCTTGGTTTTAATCTGCTC
Found at i:10946365 original size:173 final size:173
Alignment explanation
Indices: 10945942--10946349 Score: 674
Period size: 173 Copynumber: 2.4 Consensus size: 173
10945932 ATCCGCTCCA
* * ** * * *
10945942 CTGCAACTTCAGGGAGATAGGAT-TATCGCTTTAATCTACTCCACTACAACTTCAGGGAGATAAG
1 CTGCAACTTCAGAGAGATAAGATCTAAGGTTTTAATCCACTCCACTGCAACTTCAGGGAGATAAG
* *
10946006 ACTTGCCATCTTCAGTCTGCCCCACTGTAACTTCAGGAGGATAAGACTTGCTTACTTAGTCTGCT
66 ACTTGCCATCTTCAGTCTGCCCCACTGCAACTTCAGGAGGATAAGACTTGCTTACTTAGTCTACT
* * * *
10946071 CCACTGCAACTTCAGGGAGATAAGATTTGATGCGATCTGCTCT
131 CCACTACAACTTCAGGGAAATAAGACTAGATGCGATCTGCTCT
*
10946114 CTGCAACTTCAGAGAGATAAGATCTAAGGTTTTAATCCGCTCCACTGCAACTTCAGGGAGATAAG
1 CTGCAACTTCAGAGAGATAAGATCTAAGGTTTTAATCCACTCCACTGCAACTTCAGGGAGATAAG
*
10946179 ACTTGCCATCTTCAGTCTGCCCCACTGCAACTTGAGGAGGATAAGACTTGCTTACTTAGTCTACT
66 ACTTGCCATCTTCAGTCTGCCCCACTGCAACTTCAGGAGGATAAGACTTGCTTACTTAGTCTACT
10946244 CCACTACAACTTCAGGGAAATAAGACTAGATGCGATCTGCTCT
131 CCACTACAACTTCAGGGAAATAAGACTAGATGCGATCTGCTCT
10946287 CTGCAACTTCAGAGAGATAAGATCTAAGGTTTTAATCCACTCCACTGCAACTTCAGGGAGATA
1 CTGCAACTTCAGAGAGATAAGATCTAAGGTTTTAATCCACTCCACTGCAACTTCAGGGAGATA
10946350 GGATCTACAA
Statistics
Matches: 219, Mismatches: 16, Indels: 1
0.93 0.07 0.00
Matches are distributed among these distances:
172 21 0.10
173 198 0.90
ACGTcount: A:0.28, C:0.24, G:0.20, T:0.27
Consensus pattern (173 bp):
CTGCAACTTCAGAGAGATAAGATCTAAGGTTTTAATCCACTCCACTGCAACTTCAGGGAGATAAG
ACTTGCCATCTTCAGTCTGCCCCACTGCAACTTCAGGAGGATAAGACTTGCTTACTTAGTCTACT
CCACTACAACTTCAGGGAAATAAGACTAGATGCGATCTGCTCT
Found at i:10946481 original size:44 final size:44
Alignment explanation
Indices: 10946433--10946919 Score: 187
Period size: 44 Copynumber: 11.1 Consensus size: 44
10946423 TATCTTGGAA
*
10946433 AGATAAGATCTACCGTCTTCGATCTGCTCCACTACTGCTTAGGG
1 AGATAAGATCTACCGTCTTCAATCTGCTCCACTACTGCTTAGGG
** * * * * *
10946477 AGATAAGATCTACAATCTTCAACCTTCTCCGCTGCTGCTGAGGG
1 AGATAAGATCTACCGTCTTCAATCTGCTCCACTACTGCTTAGGG
* * ** * *
10946521 AGACAAG-GCT-TGGTGGCTTAAATCTGCTTCTCACTA-T-CTT-GGAA
1 AGATAAGATCTACCGT--CTTCAATCTGC-TC-CACTACTGCTTAGG-G
* ** *
10946565 AGATAATATCCGCCGTCTTCGATCTGCTCCACTACTGCTTAGGG
1 AGATAAGATCTACCGTCTTCAATCTGCTCCACTACTGCTTAGGG
** * * ** *
10946609 AGATAAGATCTACAATCTTCAACCTTCTCTGCTGCTGCTTAGGG
1 AGATAAGATCTACCGTCTTCAATCTGCTCCACTACTGCTTAGGG
** * ** * *
10946653 AGGCAAG-GCT-TGGTGGCTTAAATCTGCTTCCCACTA-T-CTT-GGAA
1 AGATAAGATCTACCGT--CTTCAATCTGC-T-CCACTACTGCTTAGG-G
* *
10946697 AGATAAGAT-TCGCCGTCTTCGATCTGCTCCACTACTGCTTAGGG
1 AGATAAGATCT-ACCGTCTTCAATCTGCTCCACTACTGCTTAGGG
** * * * *
10946741 AGATAAGATCTACAATCTTCAACCTTCTCCACTGCTGCTGAGGG
1 AGATAAGATCTACCGTCTTCAATCTGCTCCACTACTGCTTAGGG
* * ** * * *
10946785 AGACAAG-GCT-TGGTCGCTTAAATCTTCTTCCCACTA-T-CTT-GGAA
1 AGATAAGATCTACCGT--CTTCAATCTGC-T-CCACTACTGCTTAGG-G
* ** * *
10946829 AGATAATATCCGCCATCTTCGATCTGCTCCACTACTGCTTAGGG
1 AGATAAGATCTACCGTCTTCAATCTGCTCCACTACTGCTTAGGG
** * * * * *
10946873 AGATAAGATCTACAATCTTCAACCTTCTCCGCTGCTGCTCAGGG
1 AGATAAGATCTACCGTCTTCAATCTGCTCCACTACTGCTTAGGG
10946917 AGA
1 AGA
10946920 CAAGGCTTGG
Statistics
Matches: 311, Mismatches: 100, Indels: 64
0.65 0.21 0.13
Matches are distributed among these distances:
42 20 0.06
43 19 0.06
44 240 0.77
45 16 0.05
46 16 0.05
ACGTcount: A:0.24, C:0.26, G:0.20, T:0.29
Consensus pattern (44 bp):
AGATAAGATCTACCGTCTTCAATCTGCTCCACTACTGCTTAGGG
Found at i:10946481 original size:132 final size:132
Alignment explanation
Indices: 10946341--10946993 Score: 1103
Period size: 132 Copynumber: 4.9 Consensus size: 132
10946331 CTGCAACTTC
* * **
10946341 AGGGAGATAGGATCTACAATCTTCAACCTTCTCCGCTGCTGCTGAGGGAGACAAGGCATAATGGC
1 AGGGAGATAAGATCTACAATCTTCAACCTTCTCCGCTGCTGCTGAGGGAGACAAGGCTTGGTGGC
*
10946406 TTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATCTACCGTCTTCGATCTGCTCCACTACTGC
66 TTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATCTGCCGTCTTCGATCTGCTCCACTACTGC
10946471 TT
131 TT
10946473 AGGGAGATAAGATCTACAATCTTCAACCTTCTCCGCTGCTGCTGAGGGAGACAAGGCTTGGTGGC
1 AGGGAGATAAGATCTACAATCTTCAACCTTCTCCGCTGCTGCTGAGGGAGACAAGGCTTGGTGGC
* * *
10946538 TTAAATCTGCTTCTCACTATCTTGGAAAGATAATATCCGCCGTCTTCGATCTGCTCCACTACTGC
66 TTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATCTGCCGTCTTCGATCTGCTCCACTACTGC
10946603 TT
131 TT
* * *
10946605 AGGGAGATAAGATCTACAATCTTCAACCTTCTCTGCTGCTGCTTAGGGAGGCAAGGCTTGGTGGC
1 AGGGAGATAAGATCTACAATCTTCAACCTTCTCCGCTGCTGCTGAGGGAGACAAGGCTTGGTGGC
10946670 TTAAATCTGCTTCCCACTATCTTGGAAAGATAAGAT-TCGCCGTCTTCGATCTGCTCCACTACTG
66 TTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATCT-GCCGTCTTCGATCTGCTCCACTACTG
10946734 CTT
130 CTT
* *
10946737 AGGGAGATAAGATCTACAATCTTCAACCTTCTCCACTGCTGCTGAGGGAGACAAGGCTTGGTCGC
1 AGGGAGATAAGATCTACAATCTTCAACCTTCTCCGCTGCTGCTGAGGGAGACAAGGCTTGGTGGC
* * * *
10946802 TTAAATCTTCTTCCCACTATCTTGGAAAGATAATATCCGCCATCTTCGATCTGCTCCACTACTGC
66 TTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATCTGCCGTCTTCGATCTGCTCCACTACTGC
10946867 TT
131 TT
*
10946869 AGGGAGATAAGATCTACAATCTTCAACCTTCTCCGCTGCTGCTCAGGGAGACAAGGCTTGGTGGC
1 AGGGAGATAAGATCTACAATCTTCAACCTTCTCCGCTGCTGCTGAGGGAGACAAGGCTTGGTGGC
*
10946934 TTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTCT-TCGTCTTCGATCTGCTCCACT
66 TTAAATCTGCTTCCCACTATCTTGGAAAGATAAGA-TCTGCCGTCTTCGATCTGCTCCACT
10946994 GTCAATGCAG
Statistics
Matches: 487, Mismatches: 31, Indels: 6
0.93 0.06 0.01
Matches are distributed among these distances:
132 485 1.00
133 2 0.00
ACGTcount: A:0.24, C:0.26, G:0.21, T:0.29
Consensus pattern (132 bp):
AGGGAGATAAGATCTACAATCTTCAACCTTCTCCGCTGCTGCTGAGGGAGACAAGGCTTGGTGGC
TTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATCTGCCGTCTTCGATCTGCTCCACTACTGC
TT
Found at i:10950834 original size:14 final size:14
Alignment explanation
Indices: 10950815--10950866 Score: 59
Period size: 14 Copynumber: 3.4 Consensus size: 14
10950805 TGTATTTATT
10950815 AATGCATATGAAAC
1 AATGCATATGAAAC
*
10950829 AATGCAATGCATGAAATG
1 AATGC-AT--ATGAAA-C
10950847 AATGCATATGAAAC
1 AATGCATATGAAAC
10950861 AATGCA
1 AATGCA
10950867 CTGCATGGAA
Statistics
Matches: 32, Mismatches: 2, Indels: 8
0.76 0.05 0.19
Matches are distributed among these distances:
14 11 0.34
15 8 0.25
17 8 0.25
18 5 0.16
ACGTcount: A:0.48, C:0.13, G:0.17, T:0.21
Consensus pattern (14 bp):
AATGCATATGAAAC
Found at i:10950839 original size:19 final size:19
Alignment explanation
Indices: 10950815--10950872 Score: 65
Period size: 19 Copynumber: 3.4 Consensus size: 19
10950805 TGTATTTATT
10950815 AATGCATATGAAACAATGC
1 AATGCATATGAAACAATGC
10950834 AATGC--ATG--A-AATG-
1 AATGCATATGAAACAATGC
10950847 AATGCATATGAAACAATGC
1 AATGCATATGAAACAATGC
*
10950866 ACTGCAT
1 AATGCAT
10950873 GGAATGAATG
Statistics
Matches: 32, Mismatches: 1, Indels: 12
0.71 0.02 0.27
Matches are distributed among these distances:
13 5 0.16
14 4 0.12
15 4 0.12
17 4 0.12
18 4 0.12
19 11 0.34
ACGTcount: A:0.45, C:0.16, G:0.17, T:0.22
Consensus pattern (19 bp):
AATGCATATGAAACAATGC
Found at i:10950852 original size:18 final size:18
Alignment explanation
Indices: 10950829--10950884 Score: 57
Period size: 18 Copynumber: 3.3 Consensus size: 18
10950819 CATATGAAAC
10950829 AATGCAATGCATGAAATG
1 AATGCAATGCATGAAATG
*
10950847 AATGC-AT--ATGAAA-C
1 AATGCAATGCATGAAATG
* *
10950861 AATGCACTGCATGGAATG
1 AATGCAATGCATGAAATG
10950879 AATGCA
1 AATGCA
10950885 GAAAAGGCGT
Statistics
Matches: 30, Mismatches: 4, Indels: 8
0.71 0.10 0.19
Matches are distributed among these distances:
14 5 0.17
15 7 0.23
17 7 0.23
18 11 0.37
ACGTcount: A:0.43, C:0.14, G:0.21, T:0.21
Consensus pattern (18 bp):
AATGCAATGCATGAAATG
Found at i:10950852 original size:32 final size:32
Alignment explanation
Indices: 10950815--10950884 Score: 122
Period size: 32 Copynumber: 2.2 Consensus size: 32
10950805 TGTATTTATT
10950815 AATGCATATGAAACAATGCAATGCATGAAATG
1 AATGCATATGAAACAATGCAATGCATGAAATG
* *
10950847 AATGCATATGAAACAATGCACTGCATGGAATG
1 AATGCATATGAAACAATGCAATGCATGAAATG
10950879 AATGCA
1 AATGCA
10950885 GAAAAGGCGT
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
32 36 1.00
ACGTcount: A:0.44, C:0.14, G:0.20, T:0.21
Consensus pattern (32 bp):
AATGCATATGAAACAATGCAATGCATGAAATG
Found at i:10954228 original size:98 final size:98
Alignment explanation
Indices: 10954059--10954253 Score: 354
Period size: 98 Copynumber: 2.0 Consensus size: 98
10954049 ATACAATAAA
*
10954059 ACTTTAAAAGAACATCCACTCATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACGATC
1 ACTTTAAAAGAACATCCACTCATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACAATC
10954124 CCTTTAGAATCCCAAACTCGGAATATTTCCTTT
66 CCTTTAGAATCCCAAACTCGGAATATTTCCTTT
* *
10954157 ACTTTAAAAGAACATCCACTTATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACAATT
1 ACTTTAAAAGAACATCCACTCATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACAATC
*
10954222 CCTTTAGAATCTCAAACTCGGAATATTTCCTT
66 CCTTTAGAATCCCAAACTCGGAATATTTCCTT
10954254 CATGATTTTT
Statistics
Matches: 93, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
98 93 1.00
ACGTcount: A:0.36, C:0.25, G:0.11, T:0.28
Consensus pattern (98 bp):
ACTTTAAAAGAACATCCACTCATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACAATC
CCTTTAGAATCCCAAACTCGGAATATTTCCTTT
Found at i:10954956 original size:24 final size:25
Alignment explanation
Indices: 10954927--10954974 Score: 71
Period size: 25 Copynumber: 2.0 Consensus size: 25
10954917 ATATAAATAT
10954927 GAAAATATTC-ATTAAAAAATATAG
1 GAAAATATTCGATTAAAAAATATAG
* *
10954951 GAAAATATTCGTTTTAAAAATATA
1 GAAAATATTCGATTAAAAAATATA
10954975 TATATACATG
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
24 10 0.48
25 11 0.52
ACGTcount: A:0.54, C:0.04, G:0.08, T:0.33
Consensus pattern (25 bp):
GAAAATATTCGATTAAAAAATATAG
Found at i:10955834 original size:19 final size:19
Alignment explanation
Indices: 10955743--10955825 Score: 148
Period size: 19 Copynumber: 4.4 Consensus size: 19
10955733 AATCATATAT
*
10955743 TCTAAGATTGCATATCATA
1 TCTAAGATTGTATATCATA
*
10955762 TCTAAGATTATATATCATA
1 TCTAAGATTGTATATCATA
10955781 TCTAAGATTGTATATCATA
1 TCTAAGATTGTATATCATA
10955800 TCTAAGATTGTATATCATA
1 TCTAAGATTGTATATCATA
10955819 TCTAAGA
1 TCTAAGA
10955826 GTGCATATCC
Statistics
Matches: 61, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 61 1.00
ACGTcount: A:0.39, C:0.12, G:0.10, T:0.40
Consensus pattern (19 bp):
TCTAAGATTGTATATCATA
Found at i:10957680 original size:61 final size:61
Alignment explanation
Indices: 10957601--10957726 Score: 162
Period size: 61 Copynumber: 2.1 Consensus size: 61
10957591 TATTTTTAAC
* * * * ** *
10957601 TTTTAGAATTAGAACTAAATTGAAAAATTTTGTAAATGTTGGGGGCTAAATTTATTGAATT
1 TTTTAGAACTAAAACTAAAATGAAAAATTTTATAAACATTGAGGGCTAAATTTATTGAATT
* * *
10957662 TTTTAGAACTAAAACTAAAATGACAACTTTTATAAACATTGAGGGCTAAATTTGTTGAATT
1 TTTTAGAACTAAAACTAAAATGAAAAATTTTATAAACATTGAGGGCTAAATTTATTGAATT
10957723 TTTT
1 TTTT
10957727 GGATTTAGGT
Statistics
Matches: 55, Mismatches: 10, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
61 55 1.00
ACGTcount: A:0.38, C:0.06, G:0.15, T:0.40
Consensus pattern (61 bp):
TTTTAGAACTAAAACTAAAATGAAAAATTTTATAAACATTGAGGGCTAAATTTATTGAATT
Found at i:10964359 original size:40 final size:40
Alignment explanation
Indices: 10964270--10964533 Score: 342
Period size: 40 Copynumber: 6.7 Consensus size: 40
10964260 TTGAATGCTG
* *
10964270 TCCGGGCTAAGTCCCGAAGGC--TTGTGCTAAGTGAC-AATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAA-A
* * *
10964309 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
10964349 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
10964388 TCCGGGTTAAGTCCCGAAGGCATTTATGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
10964428 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
* * *
10964468 TCCGGGTTAAGTGCCGAAGGCATTTGTGCGAATTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
10964509 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
10964534 AACGAGGAGC
Statistics
Matches: 202, Mismatches: 16, Indels: 13
0.87 0.07 0.06
Matches are distributed among these distances:
39 53 0.26
40 139 0.69
41 10 0.05
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:10964551 original size:120 final size:118
Alignment explanation
Indices: 10964270--10964566 Score: 322
Period size: 119 Copynumber: 2.5 Consensus size: 118
10964260 TTGAATGCTG
* *
10964270 TCCGGGCTAAGTCCCGAAGGC-TTGTGCTA--AGTGAC-AATATCCGGACTAAGAT-CCGAAGGC
1 TCCGGGCTAAGTCCCGAAGGCATT-T-ATACGAGTGACTAA-ATCCGG-TTAA-ATCCCGAAGGC
* *
10964330 ATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAAA
61 ATTTGTGCGAGATACTAAATCCGGGCTAAGCCCGAAGGCATTTGTGCGAATTACTAAA
* * * *
10964388 TCCGGGTTAAGTCCCGAAGGCATTTATGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTT
1 TCCGGGCTAAGTCCCGAAGGCATTTATACGAGTGACTAAATCC-GGTTAAATCCCGAAGGCATTT
* * *
10964453 GTGCGAGTTACTAAATCCGGGTTAAGTGCCGAAGGCATTTGTGCGAATTACTATAA
65 GTGCGAGATACTAAATCCGGGCTAAG-CCCGAAGGCATTTGTGCGAATTACTA-AA
* * *
10964509 -CCGGGCTATGTCCCGAAGGCATTTGA-ACGAG-GAGCTATATCCGGTTAAATTCCGAAGG
1 TCCGGGCTAAGTCCCGAAGGCATTT-ATACGAGTGA-CTAAATCCGGTTAAATCCCGAAGG
10964567 TACGTGATTT
Statistics
Matches: 151, Mismatches: 18, Indels: 19
0.80 0.10 0.10
Matches are distributed among these distances:
117 1 0.01
118 22 0.15
119 64 0.42
120 61 0.40
121 3 0.02
ACGTcount: A:0.27, C:0.21, G:0.27, T:0.25
Consensus pattern (118 bp):
TCCGGGCTAAGTCCCGAAGGCATTTATACGAGTGACTAAATCCGGTTAAATCCCGAAGGCATTTG
TGCGAGATACTAAATCCGGGCTAAGCCCGAAGGCATTTGTGCGAATTACTAAA
Found at i:10971736 original size:79 final size:80
Alignment explanation
Indices: 10971601--10971824 Score: 289
Period size: 79 Copynumber: 2.8 Consensus size: 80
10971591 TTGAATGCTG
* * *
10971601 TCCGGGCTAAGTCCCGAAGGC--TTGTGCTAAGTGAC-AATATCCGGACTAAGAT-CCGAAGGCA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAA-ATCCGGGCTAAG-TCCCGAAGGCA
*
10971662 TTTGTGCGAGATACTAAT
63 TTTGTGCGAGATACTAAA
*
10971680 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAATCCGGGCTAAGTCCCGAAGGCATTT
*
10971744 GTGCGAGTTACTAAA
66 GTGCGAGATACTAAA
* * *
10971759 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAATTACTATAA-CCGGGCTATGTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AATCCGGGCTAAGTCCCGAAGGCATT
10971823 TG
65 TG
10971825 AACGAGGAGC
Statistics
Matches: 129, Mismatches: 10, Indels: 11
0.86 0.07 0.07
Matches are distributed among these distances:
78 10 0.08
79 61 0.47
80 56 0.43
81 2 0.02
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.25
Consensus pattern (80 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAATCCGGGCTAAGTCCCGAAGGCATTT
GTGCGAGATACTAAA
Found at i:10971838 original size:40 final size:40
Alignment explanation
Indices: 10971601--10971824 Score: 289
Period size: 40 Copynumber: 5.7 Consensus size: 40
10971591 TTGAATGCTG
* *
10971601 TCCGGGCTAAGTCCCGAAGGC--TTGTGCTAAGTGAC-AATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAA-A
* * *
10971640 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
10971680 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
10971719 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
10971759 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAATTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
10971800 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
10971825 AACGAGGAGC
Statistics
Matches: 166, Mismatches: 12, Indels: 13
0.87 0.06 0.07
Matches are distributed among these distances:
39 53 0.32
40 103 0.62
41 10 0.06
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:10971842 original size:80 final size:80
Alignment explanation
Indices: 10971601--10971857 Score: 244
Period size: 79 Copynumber: 3.2 Consensus size: 80
10971591 TTGAATGCTG
* * * *
10971601 TCCGGGCTAAGTCCCGAAGGC--TTGTGCTAAGTGAC-AATATCCGGACTAAGAT-CCGAAGGCA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAA-TTACTAA-ATCCGGGCTAAG-TCCCGAAGGCA
** *
10971662 TTTGTGCGAGAT-ACTAAT
63 TTTGAACGAG-TGACTAAA
* * *
10971680 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTT
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAATTACTAAATCCGGGCTAAGTCCCGAAGGCATTT
** *
10971744 GTGCGAGTTACTAAA
66 GAACGAGTGACTAAA
*
10971759 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAATTACTATAA-CCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAATTACTA-AATCCGGGCTAAGTCCCGAAGGCATT
*
10971823 TGAACGAG-GAGCTATA
65 TGAACGAGTGA-CTAAA
* *
10971839 TCC-GGTTAAATTCCGAAGG
1 TCCGGGTTAAGTCCCGAAGG
10971858 TACGTGATTT
Statistics
Matches: 154, Mismatches: 16, Indels: 16
0.83 0.09 0.09
Matches are distributed among these distances:
78 11 0.07
79 73 0.47
80 68 0.44
81 2 0.01
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.25
Consensus pattern (80 bp):
TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAATTACTAAATCCGGGCTAAGTCCCGAAGGCATTT
GAACGAGTGACTAAA
Found at i:10982042 original size:36 final size:36
Alignment explanation
Indices: 10981987--10982077 Score: 112
Period size: 36 Copynumber: 2.5 Consensus size: 36
10981977 ACATCGATAT
10981987 TCCAACCGAAACACACCAGATGCTCATAAGAGCTAA
1 TCCAACCGAAACACACCAGATGCTCATAAGAGCTAA
* * * * *
10982023 TCCATCCGAAACACGCCAGATGCTCATACGAGCCAG
1 TCCAACCGAAACACACCAGATGCTCATAAGAGCTAA
10982059 TCC-ACTCGATAACACACCA
1 TCCAAC-CGA-AACACACCA
10982078 ATGGCTCCGA
Statistics
Matches: 46, Mismatches: 7, Indels: 3
0.82 0.12 0.05
Matches are distributed among these distances:
35 1 0.02
36 37 0.80
37 8 0.17
ACGTcount: A:0.36, C:0.35, G:0.14, T:0.14
Consensus pattern (36 bp):
TCCAACCGAAACACACCAGATGCTCATAAGAGCTAA
Found at i:10983469 original size:15 final size:15
Alignment explanation
Indices: 10983449--10983479 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
10983439 TATAGATGCC
10983449 ACAATAACAAATACA
1 ACAATAACAAATACA
*
10983464 ACAATAATAAATACA
1 ACAATAACAAATACA
10983479 A
1 A
10983480 TAATGGCATA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.68, C:0.16, G:0.00, T:0.16
Consensus pattern (15 bp):
ACAATAACAAATACA
Found at i:10983637 original size:17 final size:20
Alignment explanation
Indices: 10983599--10983634 Score: 58
Period size: 18 Copynumber: 1.9 Consensus size: 20
10983589 AACATAAGTC
10983599 AATAAACAAATGAAAGAAAT
1 AATAAACAAATGAAAGAAAT
10983619 AATAAA-AAAT-AAAGAA
1 AATAAACAAATGAAAGAA
10983635 TAAAGATCAC
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 6 0.38
19 4 0.25
20 6 0.38
ACGTcount: A:0.75, C:0.03, G:0.08, T:0.14
Consensus pattern (20 bp):
AATAAACAAATGAAAGAAAT
Found at i:10984018 original size:23 final size:22
Alignment explanation
Indices: 10983988--10984057 Score: 63
Period size: 23 Copynumber: 3.1 Consensus size: 22
10983978 ACATAGATTT
*
10983988 AAATAAAATAATTAAATATGAAA
1 AAATAAAATAATTAAAAAT-AAA
*
10984011 AAATAAAA-AAATACAAAATAAA
1 AAATAAAATAATTA-AAAATAAA
*
10984033 AAATAAAAATTAATTAATAA-AAA
1 AAAT-AAAA-TAATTAAAAATAAA
10984056 AA
1 AA
10984058 CTAATTTGAA
Statistics
Matches: 39, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
22 11 0.28
23 21 0.54
24 3 0.08
25 4 0.10
ACGTcount: A:0.76, C:0.01, G:0.01, T:0.21
Consensus pattern (22 bp):
AAATAAAATAATTAAAAATAAA
Found at i:10984020 original size:7 final size:7
Alignment explanation
Indices: 10983988--10984056 Score: 57
Period size: 7 Copynumber: 9.4 Consensus size: 7
10983978 ACATAGATTT
10983988 AAATAAA
1 AAATAAA
*
10983995 ATAATTAA
1 A-AATAAA
*
10984003 ATATGAAA
1 AAAT-AAA
10984011 AAATAAAA
1 AAAT-AAA
*
10984019 AAATACA
1 AAATAAA
10984026 AAATAAA
1 AAATAAA
10984033 AAATAAA
1 AAATAAA
* *
10984040 AATTAAT
1 AAATAAA
*
10984047 TAATAAA
1 AAATAAA
10984054 AAA
1 AAA
10984057 ACTAATTTGA
Statistics
Matches: 47, Mismatches: 13, Indels: 4
0.73 0.20 0.06
Matches are distributed among these distances:
7 29 0.62
8 18 0.38
ACGTcount: A:0.75, C:0.01, G:0.01, T:0.22
Consensus pattern (7 bp):
AAATAAA
Found at i:10985944 original size:267 final size:267
Alignment explanation
Indices: 10985485--10986093 Score: 923
Period size: 267 Copynumber: 2.3 Consensus size: 267
10985475 CGCTGTCATA
* * * *
10985485 GCTTCAATTTGTTTCGCTACAACGCCAGGGAAGTAAGACTCGCCGTCACGGCTTCAGTCTTTTAA
1 GCTTCAATCTGCTCCGCTACAACGCCAGGGAAGTAAGACTCGCCGTCGCGGCTTCAGTCTTTTAA
* *
10985550 ATTGCAATGTTGAGGAAACGAGATTCGCCGTTGTAGCTTCAATCTATTCCACTACATCGCCAGGG
66 ATTGCAATGTTGAGGAAACGAGATTCACCGTCGTAGCTTCAATCTATTCCACTACATCGCCAGGG
* * *
10985615 AAGTAAGATTCACCGTCGTGGTTTTAATCTGCTCCACTGTAATGCTAAAGAGATAGGATTCGCTG
131 AAGTAAGATTCACCGTCGTGGCTTCAATCTGCTCCACTGTAATGCTAAACAGATAGGATTCGCTG
10985680 CCCACAGCTTTAATCCACTCCACTTAAGCTAATCCAAACCTTAACACTAGGGAGATAAGATTCAC
196 CCCACAGCTTTAATCCACTCCACTTAAGCTAATCCAAACCTTAACACTAGGGAGATAAGATTCAC
10985745 CGTCGTG
261 CGTCGTG
* *
10985752 GCTTCAATCTGCTCCGCTACAACGCCAGGGAAGTAAGACTCTCAGTCGCGGCTTCAGTCTTTTAA
1 GCTTCAATCTGCTCCGCTACAACGCCAGGGAAGTAAGACTCGCCGTCGCGGCTTCAGTCTTTTAA
* * *
10985817 ATTGCAATGTTGAGGAAATGAGATTCACCGTCGTAGCTTCAATCTGTTCCACTATA-CTGCCAGG
66 ATTGCAATGTTGAGGAAACGAGATTCACCGTCGTAGCTTCAATCTATTCCACTACATC-GCCAGG
*
10985881 GAAGTAAGATTCACCGTCGTGGCTTCAATCTGCTCTACTGTAATGCTAAACAGATAGGATTCGCT
130 GAAGTAAGATTCACCGTCGTGGCTTCAATCTGCTCCACTGTAATGCTAAACAGATAGGATTCGCT
* * * * *
10985946 GCCCACAGCTTTAATCCGCTCCACTTCAGCTACTCCAAGCCTTAACACTAGGGAGATAAGATTCG
195 GCCCACAGCTTTAATCCACTCCACTTAAGCTAATCCAAACCTTAACACTAGGGAGATAAGATTCA
**
10986011 TTGTCGTG
260 CCGTCGTG
* * * * * * * **
10986019 GCTTCAATCTGCTCCGCTACAATGCTAGGGAAATAAGATTCGCCGTTGTGGCTTCAATCTTTTCC
1 GCTTCAATCTGCTCCGCTACAACGCCAGGGAAGTAAGACTCGCCGTCGCGGCTTCAGTCTTTTAA
10986084 ATTGCAATGT
66 ATTGCAATGT
10986094 CAAAGCGATA
Statistics
Matches: 308, Mismatches: 33, Indels: 2
0.90 0.10 0.01
Matches are distributed among these distances:
266 1 0.00
267 307 1.00
ACGTcount: A:0.26, C:0.25, G:0.21, T:0.28
Consensus pattern (267 bp):
GCTTCAATCTGCTCCGCTACAACGCCAGGGAAGTAAGACTCGCCGTCGCGGCTTCAGTCTTTTAA
ATTGCAATGTTGAGGAAACGAGATTCACCGTCGTAGCTTCAATCTATTCCACTACATCGCCAGGG
AAGTAAGATTCACCGTCGTGGCTTCAATCTGCTCCACTGTAATGCTAAACAGATAGGATTCGCTG
CCCACAGCTTTAATCCACTCCACTTAAGCTAATCCAAACCTTAACACTAGGGAGATAAGATTCAC
CGTCGTG
Found at i:11004751 original size:30 final size:30
Alignment explanation
Indices: 11004712--11004808 Score: 124
Period size: 30 Copynumber: 3.3 Consensus size: 30
11004702 CTTAGCCCGA
*
11004712 ATGAG-AAATCTATTATAATGTCAGCTTGT
1 ATGAGCAAATCTATTATAATGACAGCTTGT
** *
11004741 ATGAGCAAATCTATTATAACAACAACTTGT
1 ATGAGCAAATCTATTATAATGACAGCTTGT
* *
11004771 GTGAGCAAATCCATTATAATGACAGCTTGT
1 ATGAGCAAATCTATTATAATGACAGCTTGT
*
11004801 GTGAGCAA
1 ATGAGCAA
11004809 TTTTATCATA
Statistics
Matches: 58, Mismatches: 9, Indels: 1
0.85 0.13 0.01
Matches are distributed among these distances:
29 5 0.09
30 53 0.91
ACGTcount: A:0.37, C:0.14, G:0.18, T:0.31
Consensus pattern (30 bp):
ATGAGCAAATCTATTATAATGACAGCTTGT
Found at i:11011859 original size:14 final size:15
Alignment explanation
Indices: 11011835--11011863 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
11011825 CCTAAATCAC
11011835 TTTCTCTTTTTTTTT
1 TTTCTCTTTTTTTTT
11011850 TTTC-CTTTTTTTTT
1 TTTCTCTTTTTTTTT
11011864 GAGTGTGTTA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 10 0.71
15 4 0.29
ACGTcount: A:0.00, C:0.14, G:0.00, T:0.86
Consensus pattern (15 bp):
TTTCTCTTTTTTTTT
Found at i:11019542 original size:50 final size:50
Alignment explanation
Indices: 11019427--11019619 Score: 273
Period size: 50 Copynumber: 3.8 Consensus size: 50
11019417 GATATTAACA
* ** *
11019427 TGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTTCTCATATCGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGA-CCTCTCATCTCGG
* *
11019478 TGTCC-ATGTCATGTCCCAGACATGGTCTTACGA-GGGACCTCTCATCTCGG
1 TG-CCAACGCCATGTCCCAGACATGGTCTTAC-ATGGGACCTCTCATCTCGG
*
11019528 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGTACCTCTCATCTCGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
*
11019578 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGTACCTCT
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCT
11019620 TTACCCAAAT
Statistics
Matches: 130, Mismatches: 8, Indels: 9
0.88 0.05 0.06
Matches are distributed among these distances:
49 3 0.02
50 94 0.72
51 30 0.23
52 3 0.02
ACGTcount: A:0.21, C:0.31, G:0.22, T:0.27
Consensus pattern (50 bp):
TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
Found at i:11030101 original size:6 final size:7
Alignment explanation
Indices: 11030084--11030110 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
11030074 AATCATACAA
11030084 AAAAAAG
1 AAAAAAG
11030091 AAAAAAG
1 AAAAAAG
11030098 AAAAAAG
1 AAAAAAG
11030105 AAAAAA
1 AAAAAA
11030111 TGGAAAGAAG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 20 1.00
ACGTcount: A:0.89, C:0.00, G:0.11, T:0.00
Consensus pattern (7 bp):
AAAAAAG
Found at i:11032161 original size:2 final size:2
Alignment explanation
Indices: 11032154--11032193 Score: 80
Period size: 2 Copynumber: 20.0 Consensus size: 2
11032144 GGTTACAATC
11032154 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
11032194 TTCATGAAAA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
AG
Found at i:11037806 original size:17 final size:18
Alignment explanation
Indices: 11037777--11037813 Score: 58
Period size: 17 Copynumber: 2.1 Consensus size: 18
11037767 TTTTTTTATT
11037777 TTATATAGATATAAATAC
1 TTATATAGATATAAATAC
*
11037795 TTATAT-GATATATATAC
1 TTATATAGATATAAATAC
11037812 TT
1 TT
11037814 TACACTTCAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 12 0.67
18 6 0.33
ACGTcount: A:0.43, C:0.05, G:0.05, T:0.46
Consensus pattern (18 bp):
TTATATAGATATAAATAC
Found at i:11041176 original size:31 final size:31
Alignment explanation
Indices: 11041141--11041202 Score: 124
Period size: 31 Copynumber: 2.0 Consensus size: 31
11041131 TAAGCATAGC
11041141 TCTGAGAAAGTAAGATGTTAATTTTATTTAA
1 TCTGAGAAAGTAAGATGTTAATTTTATTTAA
11041172 TCTGAGAAAGTAAGATGTTAATTTTATTTAA
1 TCTGAGAAAGTAAGATGTTAATTTTATTTAA
11041203 GTATAGTATT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.39, C:0.03, G:0.16, T:0.42
Consensus pattern (31 bp):
TCTGAGAAAGTAAGATGTTAATTTTATTTAA
Found at i:11045653 original size:21 final size:21
Alignment explanation
Indices: 11045627--11045687 Score: 86
Period size: 21 Copynumber: 2.9 Consensus size: 21
11045617 ACACACCAAT
*
11045627 AGAAGCTCATAAGAGCTGAAC
1 AGAAGCTCAAAAGAGCTGAAC
*
11045648 AGAAGCTCAAAAGAGCTGAAT
1 AGAAGCTCAAAAGAGCTGAAC
* *
11045669 AGAAGCTTAAAAAAGCTGA
1 AGAAGCTCAAAAGAGCTGA
11045688 TCCACTAGAC
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 36 1.00
ACGTcount: A:0.48, C:0.15, G:0.23, T:0.15
Consensus pattern (21 bp):
AGAAGCTCAAAAGAGCTGAAC
Found at i:11047466 original size:26 final size:26
Alignment explanation
Indices: 11047425--11047495 Score: 81
Period size: 26 Copynumber: 2.8 Consensus size: 26
11047415 AGCCATATCG
*
11047425 GGAAGCTC-CAGAGAGCCATTAATCA
1 GGAAGCTCACAAAGAGCCATTAATCA
* * *
11047450 GGAAGTTCACAAAGAGCCTTTAATCG
1 GGAAGCTCACAAAGAGCCATTAATCA
* *
11047476 GGTAGCTCACGAAGAGCCAT
1 GGAAGCTCACAAAGAGCCAT
11047496 ATATCGGGAC
Statistics
Matches: 37, Mismatches: 8, Indels: 1
0.80 0.17 0.02
Matches are distributed among these distances:
25 7 0.19
26 30 0.81
ACGTcount: A:0.34, C:0.23, G:0.25, T:0.18
Consensus pattern (26 bp):
GGAAGCTCACAAAGAGCCATTAATCA
Found at i:11056043 original size:50 final size:50
Alignment explanation
Indices: 11055682--11056044 Score: 566
Period size: 50 Copynumber: 7.3 Consensus size: 50
11055672 CATTGAGATT
* * *
11055682 ATGAGAGGTCCTATGTAAGACCATGTCTGGGACATGGCATTGGCACTGAG
1 ATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAG
* *
11055732 ATGAGAGGTCTCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAG
1 ATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAG
* *
11055782 ATGAGAGGTCCTATGTAAGACCATGTCTAGGACATGGCGTTGGCACCGAG
1 ATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAG
* *
11055832 ATGAGAGGTCCTATGTAAGACTATGTCTGGGACATGGCGTTGGCACCGAG
1 ATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAG
* * * * *
11055882 ATGAGAGGTCTCATATAAGACCATGTCTTGGACATGGCATTGGCACTGAG
1 ATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAG
11055932 ATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAG
1 ATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAG
* *
11055982 ATGAGAGGTCCCATGTAAGACCATATCTGAGACATGGCGTTGGCACC-AGG
1 ATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGA-G
11056032 ATGAGAGGTCCCA
1 ATGAGAGGTCCCA
11056045 AAGAATGTAT
Statistics
Matches: 289, Mismatches: 23, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
49 1 0.00
50 288 1.00
ACGTcount: A:0.26, C:0.20, G:0.32, T:0.22
Consensus pattern (50 bp):
ATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAG
Found at i:11057280 original size:23 final size:23
Alignment explanation
Indices: 11057243--11057293 Score: 75
Period size: 23 Copynumber: 2.2 Consensus size: 23
11057233 GGGAGAGAAA
* *
11057243 TGTAATATCCTGAAAATTACTAC
1 TGTAATACCCCGAAAATTACTAC
11057266 TGTAATACCCCGAAAATTACTAC
1 TGTAATACCCCGAAAATTACTAC
*
11057289 AGTAA
1 TGTAA
11057294 GAAAGTAGGT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.41, C:0.20, G:0.10, T:0.29
Consensus pattern (23 bp):
TGTAATACCCCGAAAATTACTAC
Found at i:11062068 original size:24 final size:24
Alignment explanation
Indices: 11062041--11062120 Score: 83
Period size: 24 Copynumber: 3.3 Consensus size: 24
11062031 CTGTATAACA
11062041 GGAAGCTCATAAGAGCCATAATCG
1 GGAAGCTCATAAGAGCCATAATCG
**
11062065 GGAAGCTCATGTGAGCCAATAA-CG
1 GGAAGCTCATAAGAGCC-ATAATCG
* **
11062089 GGTAGCTCCGAAGAGCCATTAAT-G
1 GGAAGCTCATAAGAGCCA-TAATCG
11062113 GGAAGCTC
1 GGAAGCTC
11062121 CGGATAGCCA
Statistics
Matches: 45, Mismatches: 8, Indels: 6
0.76 0.14 0.10
Matches are distributed among these distances:
23 1 0.02
24 40 0.89
25 4 0.09
ACGTcount: A:0.33, C:0.21, G:0.29, T:0.17
Consensus pattern (24 bp):
GGAAGCTCATAAGAGCCATAATCG
Found at i:11062121 original size:24 final size:24
Alignment explanation
Indices: 11062041--11062142 Score: 82
Period size: 24 Copynumber: 4.2 Consensus size: 24
11062031 CTGTATAACA
**
11062041 GGAAGCTCATAAGAGCCA-TAATCG
1 GGAAGCTCCGAAGAGCCATTAAT-G
* * * *
11062065 GGAAGCTCATG-TGAGCCAATAACG
1 GGAAGCTC-CGAAGAGCCATTAATG
*
11062089 GGTAGCTCCGAAGAGCCATTAATG
1 GGAAGCTCCGAAGAGCCATTAATG
* *
11062113 GGAAGCTCCGGATAGCCATATAATG
1 GGAAGCTCCGAAGAGCCAT-TAATG
11062138 GGAAG
1 GGAAG
11062143 TTCAAGCGAG
Statistics
Matches: 62, Mismatches: 12, Indels: 7
0.77 0.15 0.09
Matches are distributed among these distances:
23 1 0.02
24 48 0.77
25 13 0.21
ACGTcount: A:0.33, C:0.20, G:0.29, T:0.18
Consensus pattern (24 bp):
GGAAGCTCCGAAGAGCCATTAATG
Found at i:11079581 original size:57 final size:58
Alignment explanation
Indices: 11079479--11079604 Score: 184
Period size: 58 Copynumber: 2.2 Consensus size: 58
11079469 GAATAAAAAT
*
11079479 AATGAAAATGGAGAAATGATAAATATTTGGAAATAATTATAG-TTTTCTTCAAAATGAA
1 AATGAAAATGGAGAAATGA-AAATATTTGGAAATAATTATAGTTTTTCTCCAAAATGAA
* * *
11079537 AATGAAAATGGATAAATG-AAATCATTTGGAAATGATTATGGTTTTTCTCCAAAATGAA
1 AATGAAAATGGAGAAATGAAAAT-ATTTGGAAATAATTATAGTTTTTCTCCAAAATGAA
11079595 AATGAAAATG
1 AATGAAAATG
11079605 ACCTGGAAAT
Statistics
Matches: 62, Mismatches: 4, Indels: 4
0.89 0.06 0.06
Matches are distributed among these distances:
56 4 0.06
57 16 0.26
58 42 0.68
ACGTcount: A:0.47, C:0.05, G:0.17, T:0.32
Consensus pattern (58 bp):
AATGAAAATGGAGAAATGAAAATATTTGGAAATAATTATAGTTTTTCTCCAAAATGAA
Found at i:11086302 original size:19 final size:18
Alignment explanation
Indices: 11086280--11086324 Score: 54
Period size: 18 Copynumber: 2.4 Consensus size: 18
11086270 ATAAACACCA
11086280 AAAAATTATTTAAAAAAAT
1 AAAAATTATTT-AAAAAAT
* * *
11086299 AAAAAATATTTTAAAATT
1 AAAAATTATTTAAAAAAT
11086317 AAAAATTA
1 AAAAATTA
11086325 AAAAAAATAT
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
18 12 0.55
19 10 0.45
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (18 bp):
AAAAATTATTTAAAAAAT
Done.