Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr02 99090824
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: 99090824
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 317 characters in sequence are not A, C, G, or T
File 79 of 318
Found at i:23265535 original size:16 final size:15
Alignment explanation
Indices: 23265492--23265537 Score: 51
Period size: 13 Copynumber: 3.1 Consensus size: 15
23265482 TTTTCCTATC
23265492 ATTTATTATATTATT
1 ATTTATTATATTATT
* *
23265507 -TTT-TTACACTATT
1 ATTTATTATATTATT
23265520 ATTTATTATAGTTATT
1 ATTTATTATA-TTATT
23265536 AT
1 AT
23265538 ATCATTTTCA
Statistics
Matches: 24, Mismatches: 4, Indels: 5
0.73 0.12 0.15
Matches are distributed among these distances:
13 8 0.33
14 6 0.25
15 4 0.17
16 6 0.25
ACGTcount: A:0.30, C:0.04, G:0.02, T:0.63
Consensus pattern (15 bp):
ATTTATTATATTATT
Found at i:23265832 original size:14 final size:14
Alignment explanation
Indices: 23265823--23265865 Score: 63
Period size: 14 Copynumber: 3.2 Consensus size: 14
23265813 TTTATTATAC
23265823 TTATTATATTTTAT
1 TTATTATATTTTAT
*
23265837 TTATCATATTTTAT
1 TTATTATATTTTAT
23265851 TTATTAT-TTTT-T
1 TTATTATATTTTAT
23265863 TTA
1 TTA
23265866 CCGTTTACTA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
12 4 0.15
13 4 0.15
14 19 0.70
ACGTcount: A:0.26, C:0.02, G:0.00, T:0.72
Consensus pattern (14 bp):
TTATTATATTTTAT
Found at i:23265846 original size:19 final size:19
Alignment explanation
Indices: 23265808--23265857 Score: 59
Period size: 19 Copynumber: 2.7 Consensus size: 19
23265798 TAATTTTAAA
*
23265808 TATATTTTATTATACTTAT
1 TATATTTTATTATACATAT
23265827 TATATTTTATT-TATCATAT
1 TATATTTTATTATA-CATAT
*
23265846 TTTA-TTTATTAT
1 TATATTTTATTAT
23265858 TTTTTTTACC
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
18 8 0.30
19 19 0.70
ACGTcount: A:0.30, C:0.04, G:0.00, T:0.66
Consensus pattern (19 bp):
TATATTTTATTATACATAT
Found at i:23265888 original size:14 final size:14
Alignment explanation
Indices: 23265869--23265898 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
23265859 TTTTTTACCG
23265869 TTTACTACTATTAT
1 TTTACTACTATTAT
*
23265883 TTTACTATTATTAT
1 TTTACTACTATTAT
23265897 TT
1 TT
23265899 ATAATTTTTA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.27, C:0.10, G:0.00, T:0.63
Consensus pattern (14 bp):
TTTACTACTATTAT
Found at i:23273621 original size:221 final size:220
Alignment explanation
Indices: 23273218--23273655 Score: 644
Period size: 221 Copynumber: 2.0 Consensus size: 220
23273208 AGAAACAATA
* * * * *
23273218 TATAACCTTTTAAAAAATCCAAGTTATATGGAGTTGGAAGCTTTGCTTTAGGTTTGTGTTATGGT
1 TATAACCTTTTAAAAAATCCAAATTATATGAAGCTGAAAGCTTTGCTTTAGGTTTATGTTATGGT
* * *
23273283 TTTTTATGCTATGAGATTTTGTACTTGATCTCTTATCTGCATGCATTTTGCTCCGAATTTGGAAT
66 CTTTTATGCTATGAGATTGTGTACTTGATCTCTTATCTGCATGCATTTTGCTCCAAATTTGGAAT
* * * * * *
23273348 AGTACTTAGTACTGACAGTTTGCTAATTCCTTATTTTTGCTTTTAGGTACGTTCACTGAGTGGAG
131 AGTACTTAGTACTGACAGTTTGCTAATTCCATATGTGTGCATTTAAGTACGTTCACTGAATGGAG
*
23273413 TGA-TCAAAGATATTGGAAACCCCTT
196 TGAGT-AAAGAGATTGGAAACCCCTT
* * * * *
23273438 TATAGCCTTTTAAAAAAATGCAAATTATATGAAGCTGAAAGCTTTGCTTTTGTTTTATGTTTTGG
1 TATAACCTTTT-AAAAAATCCAAATTATATGAAGCTGAAAGCTTTGCTTTAGGTTTATGTTATGG
* * *
23273503 TCTTTTATGCTATGGGATTGTGTATTTGATCTCTTATTTGCATGCATTTTGCTCCAAATTTGGAA
65 TCTTTTATGCTATGAGATTGTGTACTTGATCTCTTATCTGCATGCATTTTGCTCCAAATTTGGAA
23273568 TAGTACTTAGTACTGACAGTTTGCTAATTCCATATGTGTGCATTTAAGTACGTTCACTGAATGGA
130 TAGTACTTAGTACTGACAGTTTGCTAATTCCATATGTGTGCATTTAAGTACGTTCACTGAATGGA
23273633 GTGAGTAAAGAGATTGGAAACCC
195 GTGAGTAAAGAGATTGGAAACCC
23273656 TTCTTGGAAG
Statistics
Matches: 193, Mismatches: 23, Indels: 3
0.88 0.11 0.01
Matches are distributed among these distances:
220 10 0.05
221 182 0.94
222 1 0.01
ACGTcount: A:0.26, C:0.13, G:0.20, T:0.41
Consensus pattern (220 bp):
TATAACCTTTTAAAAAATCCAAATTATATGAAGCTGAAAGCTTTGCTTTAGGTTTATGTTATGGT
CTTTTATGCTATGAGATTGTGTACTTGATCTCTTATCTGCATGCATTTTGCTCCAAATTTGGAAT
AGTACTTAGTACTGACAGTTTGCTAATTCCATATGTGTGCATTTAAGTACGTTCACTGAATGGAG
TGAGTAAAGAGATTGGAAACCCCTT
Found at i:23280511 original size:22 final size:22
Alignment explanation
Indices: 23280486--23280532 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 22
23280476 TTTTTGAATA
*
23280486 ATATATGCTAAACAAAAAAATT
1 ATATATGATAAACAAAAAAATT
* * *
23280508 ATATATGATACACAATAAATTT
1 ATATATGATAAACAAAAAAATT
23280530 ATA
1 ATA
23280533 AATTAATTTG
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.55, C:0.09, G:0.04, T:0.32
Consensus pattern (22 bp):
ATATATGATAAACAAAAAAATT
Found at i:23285897 original size:9 final size:9
Alignment explanation
Indices: 23285881--23285915 Score: 52
Period size: 9 Copynumber: 3.9 Consensus size: 9
23285871 TTAATTGATA
23285881 AATTAATTT
1 AATTAATTT
*
23285890 AGTTAATTT
1 AATTAATTT
*
23285899 AATTAATTA
1 AATTAATTT
23285908 AATTAATT
1 AATTAATT
23285916 GATTAAATAA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
9 23 1.00
ACGTcount: A:0.46, C:0.00, G:0.03, T:0.51
Consensus pattern (9 bp):
AATTAATTT
Found at i:23285908 original size:13 final size:13
Alignment explanation
Indices: 23285879--23285923 Score: 54
Period size: 13 Copynumber: 3.4 Consensus size: 13
23285869 GTTTAATTGA
*
23285879 TAAATTAATTTAGT
1 TAAATTAA-TTAAT
*
23285893 TAATTTAATTAAT
1 TAAATTAATTAAT
*
23285906 TAAATTAATTGAT
1 TAAATTAATTAAT
23285919 TAAAT
1 TAAAT
23285924 AAATAATATT
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
13 20 0.74
14 7 0.26
ACGTcount: A:0.47, C:0.00, G:0.04, T:0.49
Consensus pattern (13 bp):
TAAATTAATTAAT
Found at i:23288863 original size:25 final size:25
Alignment explanation
Indices: 23288835--23288909 Score: 81
Period size: 25 Copynumber: 3.2 Consensus size: 25
23288825 AAATAGAGTT
23288835 AGATCTTCAAAATGATGATTATTTG
1 AGATCTTCAAAATGATGATTATTTG
*
23288860 AGATCTTTTAAGAA--A-GATTA--T-
1 AGATC-TTCAA-AATGATGATTATTTG
23288881 AGATCTTCAAAATGATGATTATTTG
1 AGATCTTCAAAATGATGATTATTTG
23288906 AGAT
1 AGAT
23288910 ATTTTAATAA
Statistics
Matches: 40, Mismatches: 2, Indels: 16
0.69 0.03 0.28
Matches are distributed among these distances:
19 2 0.05
20 4 0.10
21 6 0.15
22 6 0.15
24 6 0.15
25 10 0.25
26 4 0.10
27 2 0.05
ACGTcount: A:0.39, C:0.07, G:0.16, T:0.39
Consensus pattern (25 bp):
AGATCTTCAAAATGATGATTATTTG
Found at i:23288873 original size:49 final size:46
Alignment explanation
Indices: 23288820--23288916 Score: 140
Period size: 46 Copynumber: 2.0 Consensus size: 46
23288810 TTTATGAAAA
*
23288820 AAGAAAAATAGAGTTAGATCTTCAAAATGATGATTATTTGAGATCTTTT
1 AAGAAAAAT-GA--TAGATCTTCAAAATGATGATTATTTGAGATATTTT
* *
23288869 AAGAAAGATTATAGATCTTCAAAATGATGATTATTTGAGATATTTT
1 AAGAAAAATGATAGATCTTCAAAATGATGATTATTTGAGATATTTT
23288915 AA
1 AA
23288917 TAATGATTAT
Statistics
Matches: 45, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
46 36 0.80
48 1 0.02
49 8 0.18
ACGTcount: A:0.42, C:0.05, G:0.15, T:0.37
Consensus pattern (46 bp):
AAGAAAAATGATAGATCTTCAAAATGATGATTATTTGAGATATTTT
Found at i:23288890 original size:46 final size:46
Alignment explanation
Indices: 23288834--23288926 Score: 159
Period size: 46 Copynumber: 2.0 Consensus size: 46
23288824 AAAATAGAGT
*
23288834 TAGATCTTCAAAATGATGATTATTTGAGATCTTTTAAGAAAGATTA
1 TAGATCTTCAAAATGATGATTATTTGAGATATTTTAAGAAAGATTA
* *
23288880 TAGATCTTCAAAATGATGATTATTTGAGATATTTTAATAATGATTA
1 TAGATCTTCAAAATGATGATTATTTGAGATATTTTAAGAAAGATTA
23288926 T
1 T
23288927 GAAAAAGTTG
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
46 44 1.00
ACGTcount: A:0.39, C:0.05, G:0.14, T:0.42
Consensus pattern (46 bp):
TAGATCTTCAAAATGATGATTATTTGAGATATTTTAAGAAAGATTA
Found at i:23295365 original size:14 final size:15
Alignment explanation
Indices: 23295340--23295368 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
23295330 AAAAACTTTA
23295340 ATTAAGTTAATTAAT
1 ATTAAGTTAATTAAT
23295355 ATTAA-TTAATTAAT
1 ATTAAGTTAATTAAT
23295369 GTATAATATA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 9 0.64
15 5 0.36
ACGTcount: A:0.48, C:0.00, G:0.03, T:0.48
Consensus pattern (15 bp):
ATTAAGTTAATTAAT
Found at i:23300562 original size:26 final size:26
Alignment explanation
Indices: 23300533--23300584 Score: 86
Period size: 26 Copynumber: 2.0 Consensus size: 26
23300523 TTTAATTGCC
*
23300533 TTAATTATAGTTTCTTATTCTATAAA
1 TTAATTATAGTTTCTTAGTCTATAAA
*
23300559 TTAATTTTAGTTTCTTAGTCTATAAA
1 TTAATTATAGTTTCTTAGTCTATAAA
23300585 AATAGAACCT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.33, C:0.08, G:0.06, T:0.54
Consensus pattern (26 bp):
TTAATTATAGTTTCTTAGTCTATAAA
Found at i:23305254 original size:26 final size:26
Alignment explanation
Indices: 23305217--23305266 Score: 68
Period size: 26 Copynumber: 1.9 Consensus size: 26
23305207 ATTAAAATAT
23305217 AATTATTTTT-AATGTATAATTATTAC
1 AATTATTTTTAAAT-TATAATTATTAC
23305243 AATT-TTTATTAAATTATAATTATT
1 AATTATTT-TTAAATTATAATTATT
23305267 TGTTAATGTC
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
25 3 0.14
26 16 0.73
27 3 0.14
ACGTcount: A:0.40, C:0.02, G:0.02, T:0.56
Consensus pattern (26 bp):
AATTATTTTTAAATTATAATTATTAC
Found at i:23305462 original size:24 final size:24
Alignment explanation
Indices: 23305435--23305485 Score: 61
Period size: 24 Copynumber: 2.1 Consensus size: 24
23305425 CTATTTTATT
23305435 TATTTAT-TAATTTATT-AAATAATA
1 TATTTATATAATTT-TTAAAAT-ATA
*
23305459 TATTTTTATAATTTTTAAAATATA
1 TATTTATATAATTTTTAAAATATA
23305483 TAT
1 TAT
23305486 CCTAATTAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
24 14 0.58
25 10 0.42
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (24 bp):
TATTTATATAATTTTTAAAATATA
Found at i:23305471 original size:25 final size:25
Alignment explanation
Indices: 23305437--23305485 Score: 66
Period size: 25 Copynumber: 2.0 Consensus size: 25
23305427 ATTTTATTTA
23305437 TTTATTAATTTATT-AAATAATATATT
1 TTTATTAATTT-TTAAAAT-ATATATT
23305463 TTTA-TAATTTTTAAAATATATAT
1 TTTATTAATTTTTAAAATATATAT
23305486 CCTAATTAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
24 8 0.36
25 10 0.45
26 4 0.18
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (25 bp):
TTTATTAATTTTTAAAATATATATT
Found at i:23306525 original size:15 final size:17
Alignment explanation
Indices: 23306478--23306539 Score: 90
Period size: 17 Copynumber: 3.6 Consensus size: 17
23306468 ATTAGTCATT
*
23306478 ATCATATTTA-AAATAAA
1 ATCATATTTATATAT-AA
23306495 ATCATATTTATATATAA
1 ATCATATTTATATATAA
*
23306512 ATTATATTTATATATAA
1 ATCATATTTATATATAA
23306529 ATCATATTTAT
1 ATCATATTTAT
23306540 TTATTAAAAA
Statistics
Matches: 41, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
17 38 0.93
18 3 0.07
ACGTcount: A:0.48, C:0.05, G:0.00, T:0.47
Consensus pattern (17 bp):
ATCATATTTATATATAA
Found at i:23307359 original size:2 final size:2
Alignment explanation
Indices: 23307352--23307378 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
23307342 TATTTTATGT
23307352 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
23307379 TATGTTATTT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:23309725 original size:22 final size:21
Alignment explanation
Indices: 23309697--23309741 Score: 81
Period size: 21 Copynumber: 2.1 Consensus size: 21
23309687 AAACTGTAAG
23309697 ATTAAAAATGTAGATTTTCGT
1 ATTAAAAATGTAGATTTTCGT
*
23309718 ATTAAAAATGTAGATTTTTGT
1 ATTAAAAATGTAGATTTTCGT
23309739 ATT
1 ATT
23309742 TATTTTGTGT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.38, C:0.02, G:0.13, T:0.47
Consensus pattern (21 bp):
ATTAAAAATGTAGATTTTCGT
Found at i:23310772 original size:2 final size:2
Alignment explanation
Indices: 23310765--23310813 Score: 98
Period size: 2 Copynumber: 24.5 Consensus size: 2
23310755 TATTTTATGT
23310765 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
23310807 TA TA TA T
1 TA TA TA T
23310814 TTTATGTTCT
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 47 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:23319603 original size:17 final size:18
Alignment explanation
Indices: 23319576--23319618 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 18
23319566 AGTGAAATTT
23319576 ATATGAAAAT-CCAGAAGG
1 ATAT-AAAATCCCAGAAGG
* *
23319594 ATTTAAAATCCCTGAAGG
1 ATATAAAATCCCAGAAGG
23319612 ATATAAA
1 ATATAAA
23319619 GTTTCTCGGG
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
17 5 0.24
18 16 0.76
ACGTcount: A:0.49, C:0.12, G:0.16, T:0.23
Consensus pattern (18 bp):
ATATAAAATCCCAGAAGG
Found at i:23323408 original size:22 final size:22
Alignment explanation
Indices: 23323371--23323439 Score: 79
Period size: 22 Copynumber: 3.1 Consensus size: 22
23323361 TCTTCGATTA
* *
23323371 TTAGCACATTAT-TGCTTTCCGT
1 TTAGCACATT-TGTGCTCTCTGT
23323393 TTAGCACATTTGTGCTCTCTGT
1 TTAGCACATTTGTGCTCTCTGT
*
23323415 ATAGCAC-TTTAGTGCTCTCTGT
1 TTAGCACATTT-GTGCTCTCTGT
23323437 TTA
1 TTA
23323440 ATAGTGCATA
Statistics
Matches: 41, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
21 4 0.10
22 37 0.90
ACGTcount: A:0.17, C:0.22, G:0.16, T:0.45
Consensus pattern (22 bp):
TTAGCACATTTGTGCTCTCTGT
Found at i:23324282 original size:22 final size:24
Alignment explanation
Indices: 23324236--23324284 Score: 75
Period size: 24 Copynumber: 2.1 Consensus size: 24
23324226 TGTATCTGTT
*
23324236 TTTTCTAATTTATTAAATAATATA
1 TTTTATAATTTATTAAATAATATA
23324260 TTTTATAATTT-TTAAA-AATATA
1 TTTTATAATTTATTAAATAATATA
23324282 TTT
1 TTT
23324285 GCTAATTAGA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
22 9 0.38
23 5 0.21
24 10 0.42
ACGTcount: A:0.41, C:0.02, G:0.00, T:0.57
Consensus pattern (24 bp):
TTTTATAATTTATTAAATAATATA
Found at i:23324290 original size:22 final size:24
Alignment explanation
Indices: 23324240--23324291 Score: 72
Period size: 22 Copynumber: 2.2 Consensus size: 24
23324230 TCTGTTTTTT
*
23324240 CTAATTTATTAAATAATATATTTT
1 CTAATTTATTAAATAATATATTTG
*
23324264 ATAATTT-TTAAA-AATATATTTG
1 CTAATTTATTAAATAATATATTTG
23324286 CTAATT
1 CTAATT
23324292 AGATAAGAAT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
22 14 0.56
23 5 0.20
24 6 0.24
ACGTcount: A:0.42, C:0.04, G:0.02, T:0.52
Consensus pattern (24 bp):
CTAATTTATTAAATAATATATTTG
Found at i:23324662 original size:12 final size:13
Alignment explanation
Indices: 23324641--23324669 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
23324631 TTCAAGTCAT
23324641 TTTTCGTTTTTCA
1 TTTTCGTTTTTCA
23324654 TTTTC-TTTTTCA
1 TTTTCGTTTTTCA
23324666 TTTT
1 TTTT
23324670 GGAGAAAACA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 11 0.69
13 5 0.31
ACGTcount: A:0.07, C:0.14, G:0.03, T:0.76
Consensus pattern (13 bp):
TTTTCGTTTTTCA
Found at i:23326758 original size:62 final size:63
Alignment explanation
Indices: 23326673--23326790 Score: 143
Period size: 62 Copynumber: 1.9 Consensus size: 63
23326663 ATTGCTTTAA
** * *
23326673 TATTAAATATAATCTAATATTTATC-ATTAAGATAAATA-TTAGATTAAACTTAATATTAAATCT
1 TATTAAATATAATAGAATATTTATCTA-CAAGATAAACATTTA-ATTAAACTTAATATTAAATCT
* *
23326736 TATTAAA-ATAATAGAATGTTTATCTACAAGATAAACATTTAATTAAATTTAATAT
1 TATTAAATATAATAGAATATTTATCTACAAGATAAACATTTAATTAAACTTAATAT
23326791 CTAAGATAAT
Statistics
Matches: 47, Mismatches: 6, Indels: 5
0.81 0.10 0.09
Matches are distributed among these distances:
62 36 0.77
63 11 0.23
ACGTcount: A:0.48, C:0.06, G:0.04, T:0.42
Consensus pattern (63 bp):
TATTAAATATAATAGAATATTTATCTACAAGATAAACATTTAATTAAACTTAATATTAAATCT
Found at i:23326867 original size:37 final size:36
Alignment explanation
Indices: 23326805--23326879 Score: 91
Period size: 37 Copynumber: 2.1 Consensus size: 36
23326795 GATAATCATT
*
23326805 TTAATATTAAATTAATAAAATACTATTAAGATAAATA
1 TTAATATTAAATTAATAAAATACTATTAAAAT-AATA
*
23326842 TTAA-ATTAAATTTAATATCAA-ACTATTAAAATAATA
1 TTAATATTAAA-TTAATA-AAATACTATTAAAATAATA
23326878 TT
1 TT
23326880 TTTTTTGGAA
Statistics
Matches: 34, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
36 12 0.35
37 20 0.59
38 2 0.06
ACGTcount: A:0.55, C:0.04, G:0.01, T:0.40
Consensus pattern (36 bp):
TTAATATTAAATTAATAAAATACTATTAAAATAATA
Found at i:23327281 original size:24 final size:24
Alignment explanation
Indices: 23327232--23327278 Score: 58
Period size: 24 Copynumber: 1.9 Consensus size: 24
23327222 AAATATCATA
***
23327232 TTAATTTTAATTGATTTGATTAAT
1 TTAATTTTAATTGATAAAATTAAT
23327256 TTAATTTTAATTGATCAAAATTA
1 TTAATTTTAATTGAT-AAAATTA
23327279 TTTTTTCCAA
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
24 15 0.79
25 4 0.21
ACGTcount: A:0.38, C:0.02, G:0.06, T:0.53
Consensus pattern (24 bp):
TTAATTTTAATTGATAAAATTAAT
Found at i:23334453 original size:18 final size:20
Alignment explanation
Indices: 23334430--23334478 Score: 59
Period size: 18 Copynumber: 2.5 Consensus size: 20
23334420 ATATAATCTT
23334430 TATTATGTT-TTATTTT-TA
1 TATTATGTTATTATTTTATA
*
23334448 TATTAT-TTATTGTTTTATA
1 TATTATGTTATTATTTTATA
23334467 TATATATGTTAT
1 TAT-TATGTTAT
23334479 GTATATCATG
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
17 2 0.08
18 12 0.46
19 5 0.19
20 3 0.12
21 4 0.15
ACGTcount: A:0.27, C:0.00, G:0.06, T:0.67
Consensus pattern (20 bp):
TATTATGTTATTATTTTATA
Found at i:23334472 original size:23 final size:24
Alignment explanation
Indices: 23334373--23334473 Score: 66
Period size: 23 Copynumber: 4.2 Consensus size: 24
23334363 TACGTTACTT
*
23334373 TATATTATATCTATTAT-TTTTCTTA
1 TATATTAT-T-TATTATGTTTTATTA
* * **
23334398 TATGTT-TATATTACATTTTATTA
1 TATATTATTTATTATGTTTTATTA
* * *
23334421 TATAATCTTTATTATGTTTTATTTT
1 TATATTATTTATTATGTTTTA-TTA
23334446 TATATTATTTA-T-TGTTTTATATA
1 TATATTATTTATTATGTTTTAT-TA
23334469 TATAT
1 TATAT
23334474 GTTATGTATA
Statistics
Matches: 59, Mismatches: 13, Indels: 10
0.72 0.16 0.12
Matches are distributed among these distances:
22 6 0.10
23 24 0.41
24 13 0.22
25 16 0.27
ACGTcount: A:0.29, C:0.04, G:0.03, T:0.64
Consensus pattern (24 bp):
TATATTATTTATTATGTTTTATTA
Found at i:23335077 original size:20 final size:21
Alignment explanation
Indices: 23335039--23335078 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 21
23335029 TTTTTTTGCT
23335039 TCGTATGTATTATTCTTTATA
1 TCGTATGTATTATTCTTTATA
23335060 TCGTA-GTATTCATT-TTTAT
1 TCGTATGTATT-ATTCTTTAT
23335079 CTACCTAGTA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 10 0.56
21 8 0.44
ACGTcount: A:0.23, C:0.10, G:0.10, T:0.57
Consensus pattern (21 bp):
TCGTATGTATTATTCTTTATA
Found at i:23337163 original size:41 final size:42
Alignment explanation
Indices: 23337067--23337164 Score: 139
Period size: 41 Copynumber: 2.4 Consensus size: 42
23337057 CGTTTTACCA
23337067 AAAACGCCGCTAAAAAACAGAGCAATAGCGGCTTTTTTGCTC
1 AAAACGCCGCTAAAAAACAGAGCAATAGCGGCTTTTTTGCTC
* * *
23337109 -AAACACCGCTAAAAAATAGAGCAATAGCTGCGTTTTTT-CTC
1 AAAACGCCGCTAAAAAACAGAGCAATAGCGGC-TTTTTTGCTC
23337150 AAAACGCCG-TAAAAA
1 AAAACGCCGCTAAAAA
23337165 GTCATATAAC
Statistics
Matches: 50, Mismatches: 4, Indels: 5
0.85 0.07 0.08
Matches are distributed among these distances:
41 37 0.74
42 13 0.26
ACGTcount: A:0.40, C:0.22, G:0.16, T:0.21
Consensus pattern (42 bp):
AAAACGCCGCTAAAAAACAGAGCAATAGCGGCTTTTTTGCTC
Found at i:23337361 original size:7 final size:7
Alignment explanation
Indices: 23337350--23337413 Score: 65
Period size: 7 Copynumber: 9.0 Consensus size: 7
23337340 TTTATTTTTG
*
23337350 GGTTTAG
1 GGTTTAA
23337357 GGTTTAA
1 GGTTTAA
**
23337364 TATTTAA
1 GGTTTAA
23337371 GGTTTAA
1 GGTTTAA
* *
23337378 GGTCTAT
1 GGTTTAA
*
23337385 GGTTTAG
1 GGTTTAA
23337392 GGTTTTAA
1 GG-TTTAA
23337400 GGTTTAA
1 GGTTTAA
23337407 GGTTTAA
1 GGTTTAA
23337414 TGGCCATGGG
Statistics
Matches: 46, Mismatches: 10, Indels: 2
0.79 0.17 0.03
Matches are distributed among these distances:
7 40 0.87
8 6 0.13
ACGTcount: A:0.25, C:0.02, G:0.28, T:0.45
Consensus pattern (7 bp):
GGTTTAA
Found at i:23337758 original size:21 final size:21
Alignment explanation
Indices: 23337734--23337774 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
23337724 GGTTTATATT
*
23337734 TTATGGCTTAGGGTTTAGGGG
1 TTATGGCTTAGGGGTTAGGGG
*
23337755 TTATGGGTTAGGGGTTAGGG
1 TTATGGCTTAGGGGTTAGGG
23337775 TTTTAGGGTT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.15, C:0.02, G:0.46, T:0.37
Consensus pattern (21 bp):
TTATGGCTTAGGGGTTAGGGG
Found at i:23337784 original size:14 final size:14
Alignment explanation
Indices: 23337741--23337782 Score: 59
Period size: 14 Copynumber: 2.9 Consensus size: 14
23337731 ATTTTATGGC
23337741 TTAGGGTTTAGGGG
1 TTAGGGTTTAGGGG
23337755 TTATGGG-TTAGGGG
1 TTA-GGGTTTAGGGG
23337769 TTAGGGTTTTAGGG
1 TTAGGG-TTTAGGG
23337783 TTGAGATTAA
Statistics
Matches: 25, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
13 3 0.12
14 13 0.52
15 9 0.36
ACGTcount: A:0.14, C:0.00, G:0.48, T:0.38
Consensus pattern (14 bp):
TTAGGGTTTAGGGG
Found at i:23337892 original size:18 final size:16
Alignment explanation
Indices: 23337852--23337893 Score: 50
Period size: 18 Copynumber: 2.6 Consensus size: 16
23337842 AGAGATAATA
23337852 TTAAATT-TAATATAT
1 TTAAATTATAATATAT
*
23337867 TAAAATTATGAATATAGT
1 TTAAATTAT-AATATA-T
23337885 TTAAATTAT
1 TTAAATTAT
23337894 TTAAGAGAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
15 6 0.27
16 1 0.05
17 6 0.27
18 9 0.41
ACGTcount: A:0.48, C:0.00, G:0.05, T:0.48
Consensus pattern (16 bp):
TTAAATTATAATATAT
Found at i:23340152 original size:2 final size:2
Alignment explanation
Indices: 23340145--23340185 Score: 82
Period size: 2 Copynumber: 20.5 Consensus size: 2
23340135 GGTATTTCTC
23340145 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG T
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG T
23340186 TTTCTTATGA
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.00, C:0.00, G:0.49, T:0.51
Consensus pattern (2 bp):
TG
Found at i:23343064 original size:31 final size:32
Alignment explanation
Indices: 23343026--23343105 Score: 98
Period size: 31 Copynumber: 2.6 Consensus size: 32
23343016 TTACTGTATT
23343026 TTATTTATATTTATATTT-AATCTA-ATTTTTA
1 TTATTTAT-TTTATATTTGAATCTATATTTTTA
*
23343057 TTATTTATTTTAGT-TTTGATTCTATATTTTTA
1 TTATTTATTTTA-TATTTGAATCTATATTTTTA
23343089 TT-TTTATTTTA-ATTTGA
1 TTATTTATTTTATATTTGA
23343106 TAATGAATTT
Statistics
Matches: 44, Mismatches: 1, Indels: 9
0.81 0.02 0.17
Matches are distributed among these distances:
30 12 0.27
31 23 0.52
32 9 0.20
ACGTcount: A:0.26, C:0.03, G:0.04, T:0.68
Consensus pattern (32 bp):
TTATTTATTTTATATTTGAATCTATATTTTTA
Found at i:23343073 original size:19 final size:19
Alignment explanation
Indices: 23343050--23343096 Score: 51
Period size: 19 Copynumber: 2.5 Consensus size: 19
23343040 ATTTAATCTA
*
23343050 ATTTTTATTATTTA-TTTT
1 ATTTTTATTATATATTTTT
* *
23343068 AGTTTTGATTCTATATTTTT
1 A-TTTTTATTATATATTTTT
23343088 ATTTTTATT
1 ATTTTTATT
23343097 TTAATTTGAT
Statistics
Matches: 23, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
18 1 0.04
19 17 0.74
20 5 0.22
ACGTcount: A:0.21, C:0.02, G:0.04, T:0.72
Consensus pattern (19 bp):
ATTTTTATTATATATTTTT
Found at i:23343126 original size:11 final size:11
Alignment explanation
Indices: 23343106--23343134 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
23343096 TTTAATTTGA
23343106 TAAT-GAATTT
1 TAATAGAATTT
23343116 TAATAGAATTT
1 TAATAGAATTT
23343127 TAATAGAA
1 TAATAGAA
23343135 AATTTTTATA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 4 0.22
11 14 0.78
ACGTcount: A:0.48, C:0.00, G:0.10, T:0.41
Consensus pattern (11 bp):
TAATAGAATTT
Found at i:23343232 original size:10 final size:10
Alignment explanation
Indices: 23343217--23343241 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
23343207 TTTCATGACC
23343217 TTTATAATAT
1 TTTATAATAT
23343227 TTTATAATAT
1 TTTATAATAT
23343237 TTTAT
1 TTTAT
23343242 TTTTTAAATT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (10 bp):
TTTATAATAT
Found at i:23347312 original size:64 final size:64
Alignment explanation
Indices: 23347239--23347449 Score: 146
Period size: 64 Copynumber: 3.2 Consensus size: 64
23347229 CTGGGCCAGA
*
23347239 GCCCTTTTCAGATTACAATAAACTGGGCCTTAGCCCATTATTCAGATAACAGTATGGCCCATAG
1 GCCCATTTCAGATTACAATAAACTGGGCCTTAGCCCATTATTCAGATAACAGTATGGCCCATAG
* ** * * *
23347303 GCCCATTTCAAAATACATGCAACATCAGTAAACATATG-C-AAGCCCA-T-TT-GGGTAACAGTG
1 GCCCATTTC-AGAT---T---ACA--A-TAAAC-TGGGCCTTAGCCCATTATTCAGATAACA---
* *
23347363 GTACTGGGCCAGA-
52 GTA-TGGCCCATAG
* *
23347376 GCCCTTTTCAGATTACAATAAACTGGGCCTTAGCCCCTTATTCAGATAACAGTATGGCCCATAG
1 GCCCATTTCAGATTACAATAAACTGGGCCTTAGCCCATTATTCAGATAACAGTATGGCCCATAG
23347440 GCCCATTTCA
1 GCCCATTTCA
23347450 AAATACATGC
Statistics
Matches: 106, Mismatches: 20, Indels: 42
0.63 0.12 0.25
Matches are distributed among these distances:
62 2 0.02
63 13 0.12
64 26 0.25
65 4 0.04
66 5 0.05
67 6 0.06
68 1 0.01
69 1 0.01
70 6 0.06
71 5 0.05
72 4 0.04
73 18 0.17
74 13 0.12
75 2 0.02
ACGTcount: A:0.30, C:0.26, G:0.18, T:0.26
Consensus pattern (64 bp):
GCCCATTTCAGATTACAATAAACTGGGCCTTAGCCCATTATTCAGATAACAGTATGGCCCATAG
Found at i:23347454 original size:137 final size:137
Alignment explanation
Indices: 23347216--23347491 Score: 543
Period size: 137 Copynumber: 2.0 Consensus size: 137
23347206 AACCCATTCA
23347216 GGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTTAGCCCATTATT
1 GGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTTAGCCCATTATT
23347281 CAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAGTAAACATATGCAAGC
66 CAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAGTAAACATATGCAAGC
23347346 CCATTTG
131 CCATTTG
*
23347353 GGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTTAGCCCCTTATT
1 GGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTTAGCCCATTATT
23347418 CAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAGTAAACATATGCAAGC
66 CAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAGTAAACATATGCAAGC
23347483 CCATTTG
131 CCATTTG
23347490 GG
1 GG
23347492 GAGACTACTC
Statistics
Matches: 138, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
137 138 1.00
ACGTcount: A:0.32, C:0.24, G:0.20, T:0.25
Consensus pattern (137 bp):
GGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTTAGCCCATTATT
CAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAGTAAACATATGCAAGC
CCATTTG
Found at i:23347800 original size:26 final size:27
Alignment explanation
Indices: 23347771--23347831 Score: 70
Period size: 28 Copynumber: 2.3 Consensus size: 27
23347761 GGGTATTTCG
* *
23347771 GTAATTTTGC-ACCTAGGGGTATAACA
1 GTAATTTTCCAACATAGGGGTATAACA
* *
23347797 GTAATTTTCCATACATAGGGGTATTATA
1 GTAATTTTCCA-ACATAGGGGTATAACA
23347825 GTAATTT
1 GTAATTT
23347832 AGCTGCTTTT
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
26 9 0.31
28 20 0.69
ACGTcount: A:0.31, C:0.11, G:0.20, T:0.38
Consensus pattern (27 bp):
GTAATTTTCCAACATAGGGGTATAACA
Found at i:23349314 original size:26 final size:26
Alignment explanation
Indices: 23349278--23349387 Score: 168
Period size: 26 Copynumber: 4.2 Consensus size: 26
23349268 CATGAAATTC
23349278 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
*
23349304 TTATCATGAAACATTTACCTAACTCA
1 TTATCATGAAACATTTACCTAACCCA
* *
23349330 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
*
23349356 TTATCATTG-AACATTTACCTAACCTA
1 TTATCA-TGAAACATTTACCTAACCCA
23349382 TTATCA
1 TTATCA
23349388 ATTGGTACCA
Statistics
Matches: 79, Mismatches: 4, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
26 77 0.97
27 2 0.03
ACGTcount: A:0.36, C:0.24, G:0.05, T:0.35
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:23351459 original size:4 final size:4
Alignment explanation
Indices: 23351450--23351493 Score: 52
Period size: 4 Copynumber: 10.2 Consensus size: 4
23351440 GTGCTAGAAG
*
23351450 AATA AATA AATAA AATA AATA AATA AATA ACATGA CATA AATA A
1 AATA AATA AAT-A AATA AATA AATA AATA A-AT-A AATA AATA A
23351494 TATTAAATTT
Statistics
Matches: 35, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
4 26 0.74
5 8 0.23
6 1 0.03
ACGTcount: A:0.70, C:0.05, G:0.02, T:0.23
Consensus pattern (4 bp):
AATA
Found at i:23351468 original size:13 final size:13
Alignment explanation
Indices: 23351450--23351476 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
23351440 GTGCTAGAAG
23351450 AATAAATAAATAA
1 AATAAATAAATAA
23351463 AATAAATAAATAA
1 AATAAATAAATAA
23351476 A
1 A
23351477 TAACATGACA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.78, C:0.00, G:0.00, T:0.22
Consensus pattern (13 bp):
AATAAATAAATAA
Found at i:23351472 original size:17 final size:18
Alignment explanation
Indices: 23351450--23351493 Score: 63
Period size: 17 Copynumber: 2.5 Consensus size: 18
23351440 GTGCTAGAAG
23351450 AATAAATAAATAAAAT-A
1 AATAAATAAATAAAATGA
*
23351467 AATAAATAAATAACATGA
1 AATAAATAAATAAAATGA
*
23351485 CATAAATAA
1 AATAAATAA
23351494 TATTAAATTT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
17 15 0.62
18 9 0.38
ACGTcount: A:0.70, C:0.05, G:0.02, T:0.23
Consensus pattern (18 bp):
AATAAATAAATAAAATGA
Found at i:23353189 original size:51 final size:51
Alignment explanation
Indices: 23353126--23353535 Score: 163
Period size: 45 Copynumber: 8.5 Consensus size: 51
23353116 TGATTGACCT
* * *
23353126 ACTGTAACTTCAGAGAGATAAGATCCGTAACTTGTAGCTTCAATCTGCCCC
1 ACTGCAACTTCAGAGAAATAAGATCCGTAACTTGTAGCTTCAATCTGCTCC
* * * * * *
23353177 ACTACAACTTCAGGGAAATGAGATTCG---C---TATCTTCAGTCTGCTCC
1 ACTGCAACTTCAGAGAAATAAGATCCGTAACTTGTAGCTTCAATCTGCTCC
* * * * * *
23353222 GCTGTAACTTCAGGGAGATAAGGTCCGTAACTTGTAGCTTCAATCTGCTCT
1 ACTGCAACTTCAGAGAAATAAGATCCGTAACTTGTAGCTTCAATCTGCTCC
* * * * * *
23353273 ACTGCAACTTTAAAGAAATAAGA----T---TTGCTATCTTTAGTCTACTCC
1 ACTGCAACTTCAGAGAAATAAGATCCGTAACTTG-TAGCTTCAATCTGCTCC
* * * * * *
23353318 GCTGCAACTTCAGGGAGATAAG----G---CTGGTGGCTTCAATCTGCTTC
1 ACTGCAACTTCAGAGAAATAAGATCCGTAACTTGTAGCTTCAATCTGCTCC
* * * * * *
23353362 ACTGCAACTTCAG-GAAGACAAGATTTGTCATAATTTGTAGCTTTAATCTGTTCC
1 ACTGCAACTTCAGAGAA-ATAAGA--T-CCGTAACTTGTAGCTTCAATCTGCTCC
* * * * * *
23353416 ACTGCAACATCAGGGAAATAAGATTCG---C-TGTA--TTCAGTCTGTTTC
1 ACTGCAACTTCAGAGAAATAAGATCCGTAACTTGTAGCTTCAATCTGCTCC
* ** * * *
23353461 GCTAAAACTTCAGGGAGATAAGATCCGTAACTTGTAGCTTCAATCTACTCC
1 ACTGCAACTTCAGAGAAATAAGATCCGTAACTTGTAGCTTCAATCTGCTCC
* *
23353512 ACTGCAACGTCAGGGAAATAAGAT
1 ACTGCAACTTCAGAGAAATAAGAT
23353536 TCGCTGTCCT
Statistics
Matches: 257, Mismatches: 75, Indels: 54
0.67 0.19 0.14
Matches are distributed among these distances:
43 2 0.01
44 30 0.12
45 96 0.37
47 5 0.02
48 3 0.01
49 4 0.02
51 81 0.32
52 1 0.00
54 32 0.12
55 3 0.01
ACGTcount: A:0.29, C:0.22, G:0.20, T:0.30
Consensus pattern (51 bp):
ACTGCAACTTCAGAGAAATAAGATCCGTAACTTGTAGCTTCAATCTGCTCC
Found at i:23353241 original size:96 final size:96
Alignment explanation
Indices: 23353127--23353339 Score: 309
Period size: 96 Copynumber: 2.2 Consensus size: 96
23353117 GATTGACCTA
* **
23353127 CTGTAACTTCAGAGAGATAAGATCCGTAACTTGTAGCTTCAATCTGCCCCACTACAACTTCAGGG
1 CTGTAACTTCAGGGAGATAAGATCCGTAACTTGTAGCTTCAATCTGCCCCACTACAACTTCAAAG
* *
23353192 AAATGAGATTCGCTATCTTCAGTCTGCTCCG
66 AAATAAGATTCGCTATCTTCAGTCTACTCCG
* * * * *
23353223 CTGTAACTTCAGGGAGATAAGGTCCGTAACTTGTAGCTTCAATCTGCTCTACTGCAACTTTAAAG
1 CTGTAACTTCAGGGAGATAAGATCCGTAACTTGTAGCTTCAATCTGCCCCACTACAACTTCAAAG
* *
23353288 AAATAAGATTTGCTATCTTTAGTCTACTCCG
66 AAATAAGATTCGCTATCTTCAGTCTACTCCG
*
23353319 CTGCAACTTCAGGGAGATAAG
1 CTGTAACTTCAGGGAGATAAG
23353340 GCTGGTGGCT
Statistics
Matches: 104, Mismatches: 13, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
96 104 1.00
ACGTcount: A:0.28, C:0.23, G:0.19, T:0.30
Consensus pattern (96 bp):
CTGTAACTTCAGGGAGATAAGATCCGTAACTTGTAGCTTCAATCTGCCCCACTACAACTTCAAAG
AAATAAGATTCGCTATCTTCAGTCTACTCCG
Found at i:23353472 original size:239 final size:239
Alignment explanation
Indices: 23353157--23353618 Score: 654
Period size: 239 Copynumber: 1.9 Consensus size: 239
23353147 GATCCGTAAC
* * *
23353157 TTGTAGCTTCAATCTGCCCCACTACAACTTCAGGGAAATGAGATTCGCTATCTTCAGTCTGCTCC
1 TTGTAGCTTCAATCTGCCCCACTACAACATCAGGGAAATAAGATTCGCTATATTCAGTCTGCTCC
** * * * * *
23353222 GCTGTAACTTCAGGGAGATAAGGTCCGTAACTTGTAGCTTCAATCTGCTCTACTGCAACTTTAAA
66 GCTAAAACTTCAGGGAGATAAGATCCGTAACTTGTAGCTTCAATCTACTCCACTGCAACGTCAAA
* * * *
23353287 GAAATAAGATTTGCTATCTTTAGTCTACTCCGCTGCAACTTCAGGGAGATAAGGCTGGTGGCTTC
131 GAAATAAGATTCGCTATCCTCAGTCTACTCCGCTGCAACTTCAGGGAGATAAGGCTAGTGGCTTC
*
23353352 AATCTGCTTCACTGCAACTTCAGGAAGACAAGATTTGTCATAAT
196 AATCTGCTCCACTGCAACTTCAGGAAGACAAGATTTGTCATAAT
* ** * * * *
23353396 TTGTAGCTTTAATCTGTTCCACTGCAACATCAGGGAAATAAGATTCGCTGTATTCAGTCTGTTTC
1 TTGTAGCTTCAATCTGCCCCACTACAACATCAGGGAAATAAGATTCGCTATATTCAGTCTGCTCC
**
23353461 GCTAAAACTTCAGGGAGATAAGATCCGTAACTTGTAGCTTCAATCTACTCCACTGCAACGTCAGG
66 GCTAAAACTTCAGGGAGATAAGATCCGTAACTTGTAGCTTCAATCTACTCCACTGCAACGTCAAA
* * * *
23353526 GAAATAAGATTCGCTGTCCTCAGTCTGCTCTGTTGCAACTTCAGGGAGATAAGGCTAGTGGCTTC
131 GAAATAAGATTCGCTATCCTCAGTCTACTCCGCTGCAACTTCAGGGAGATAAGGCTAGTGGCTTC
* *
23353591 AATCTGCTCCATTGCAACTTTAGGAAGA
196 AATCTGCTCCACTGCAACTTCAGGAAGA
23353619 TGAGATTTAT
Statistics
Matches: 193, Mismatches: 30, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
239 193 1.00
ACGTcount: A:0.27, C:0.23, G:0.20, T:0.30
Consensus pattern (239 bp):
TTGTAGCTTCAATCTGCCCCACTACAACATCAGGGAAATAAGATTCGCTATATTCAGTCTGCTCC
GCTAAAACTTCAGGGAGATAAGATCCGTAACTTGTAGCTTCAATCTACTCCACTGCAACGTCAAA
GAAATAAGATTCGCTATCCTCAGTCTACTCCGCTGCAACTTCAGGGAGATAAGGCTAGTGGCTTC
AATCTGCTCCACTGCAACTTCAGGAAGACAAGATTTGTCATAAT
Found at i:23353513 original size:96 final size:96
Alignment explanation
Indices: 23353396--23353578 Score: 260
Period size: 96 Copynumber: 1.9 Consensus size: 96
23353386 TTGTCATAAT
* ** * *
23353396 TTGTAGCTTTAATCTGTTCCACTGCAACATCAGGGAAATAAGATTCGCTGTATTCAGTCTG-TTT
1 TTGTAGCTTCAATCTACTCCACTGCAACATCAGGGAAATAAGATTCGCTGTACTCAGTCTGCTCT
23353460 CGCTAAAACTTCAGGGAGATAAGATCCGTAAC
66 -GCTAAAACTTCAGGGAGATAAGATCCGTAAC
* *
23353492 TTGTAGCTTCAATCTACTCCACTGCAACGTCAGGGAAATAAGATTCGCTGTCCTCAGTCTGCTCT
1 TTGTAGCTTCAATCTACTCCACTGCAACATCAGGGAAATAAGATTCGCTGTACTCAGTCTGCTCT
* **
23353557 GTTGCAACTTCAGGGAGATAAG
66 GCTAAAACTTCAGGGAGATAAG
23353579 GCTAGTGGCT
Statistics
Matches: 76, Mismatches: 10, Indels: 2
0.86 0.11 0.02
Matches are distributed among these distances:
96 74 0.97
97 2 0.03
ACGTcount: A:0.27, C:0.22, G:0.21, T:0.30
Consensus pattern (96 bp):
TTGTAGCTTCAATCTACTCCACTGCAACATCAGGGAAATAAGATTCGCTGTACTCAGTCTGCTCT
GCTAAAACTTCAGGGAGATAAGATCCGTAAC
Found at i:23353609 original size:44 final size:45
Alignment explanation
Indices: 23353497--23353619 Score: 113
Period size: 45 Copynumber: 2.8 Consensus size: 45
23353487 GTAACTTGTA
* * * * * *
23353497 GCTTCAATCTACTCCACTGCAACGTCAGGGAAATAAGATTCGCTG
1 GCTTCAATCTGCTCCATTGCAACTTCAGGGAGATAAGACTAGCTG
* * * ** *
23353542 TCCTCAGTCTGCTCTGTTGCAACTTCAGGGAGATAAGGCTAG-TG
1 GCTTCAATCTGCTCCATTGCAACTTCAGGGAGATAAGACTAGCTG
* *
23353586 GCTTCAATCTGCTCCATTGCAACTTTAGGAAGAT
1 GCTTCAATCTGCTCCATTGCAACTTCAGGGAGAT
23353620 GAGATTTATG
Statistics
Matches: 59, Mismatches: 19, Indels: 1
0.75 0.24 0.01
Matches are distributed among these distances:
44 29 0.49
45 30 0.51
ACGTcount: A:0.25, C:0.24, G:0.22, T:0.28
Consensus pattern (45 bp):
GCTTCAATCTGCTCCATTGCAACTTCAGGGAGATAAGACTAGCTG
Found at i:23362972 original size:38 final size:38
Alignment explanation
Indices: 23362930--23363005 Score: 152
Period size: 38 Copynumber: 2.0 Consensus size: 38
23362920 AAATGAACTT
23362930 CGATGAAATTTCGAAAAATCCACTTTTGAAGAAAATGG
1 CGATGAAATTTCGAAAAATCCACTTTTGAAGAAAATGG
23362968 CGATGAAATTTCGAAAAATCCACTTTTGAAGAAAATGG
1 CGATGAAATTTCGAAAAATCCACTTTTGAAGAAAATGG
23363006 TGAAATTAAT
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:0.42, C:0.13, G:0.18, T:0.26
Consensus pattern (38 bp):
CGATGAAATTTCGAAAAATCCACTTTTGAAGAAAATGG
Found at i:23367714 original size:16 final size:16
Alignment explanation
Indices: 23367693--23367723 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
23367683 TTTTATTATA
23367693 ATATATAATAATAGTT
1 ATATATAATAATAGTT
*
23367709 ATATATAATAGTAGT
1 ATATATAATAATAGT
23367724 ACATTAACTA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.48, C:0.00, G:0.10, T:0.42
Consensus pattern (16 bp):
ATATATAATAATAGTT
Found at i:23368153 original size:18 final size:17
Alignment explanation
Indices: 23368127--23368160 Score: 59
Period size: 18 Copynumber: 1.9 Consensus size: 17
23368117 ATTTTATAGA
23368127 TTTTAATAATTATTATT
1 TTTTAATAATTATTATT
23368144 TTTTATATAATTATTAT
1 TTTTA-ATAATTATTAT
23368161 ACATATATTA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (17 bp):
TTTTAATAATTATTATT
Found at i:23368334 original size:11 final size:11
Alignment explanation
Indices: 23368318--23368343 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
23368308 AGAATTATCA
23368318 TTTATTTTTAT
1 TTTATTTTTAT
23368329 TTTATTTTTAT
1 TTTATTTTTAT
23368340 TTTA
1 TTTA
23368344 AGTAATAATA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (11 bp):
TTTATTTTTAT
Found at i:23377064 original size:4 final size:4
Alignment explanation
Indices: 23377041--23377093 Score: 52
Period size: 4 Copynumber: 12.8 Consensus size: 4
23377031 AGGTTGAGAA
* ** *
23377041 AATT ATTT AATT AAGA AATT AATTT AGTT AATT AAATT AATT AATT AATT
1 AATT AATT AATT AATT AATT AA-TT AATT AATT -AATT AATT AATT AATT
23377091 AAT
1 AAT
23377094 ATTTATTTTG
Statistics
Matches: 39, Mismatches: 8, Indels: 4
0.76 0.16 0.08
Matches are distributed among these distances:
4 32 0.82
5 7 0.18
ACGTcount: A:0.49, C:0.00, G:0.04, T:0.47
Consensus pattern (4 bp):
AATT
Found at i:23377075 original size:13 final size:13
Alignment explanation
Indices: 23377057--23377090 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
23377047 TTAATTAAGA
*
23377057 AATTAATTTAGTT
1 AATTAATTTAATT
*
23377070 AATTAAATTAATT
1 AATTAATTTAATT
23377083 AATTAATT
1 AATTAATT
23377091 AATATTTATT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (13 bp):
AATTAATTTAATT
Found at i:23377884 original size:25 final size:25
Alignment explanation
Indices: 23377850--23377899 Score: 100
Period size: 25 Copynumber: 2.0 Consensus size: 25
23377840 GTGCCTGGAC
23377850 CAGTGCTTAAACCAATGCTAACTAA
1 CAGTGCTTAAACCAATGCTAACTAA
23377875 CAGTGCTTAAACCAATGCTAACTAA
1 CAGTGCTTAAACCAATGCTAACTAA
23377900 ATGTAGCACT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.40, C:0.24, G:0.12, T:0.24
Consensus pattern (25 bp):
CAGTGCTTAAACCAATGCTAACTAA
Found at i:23378901 original size:82 final size:82
Alignment explanation
Indices: 23378764--23379011 Score: 480
Period size: 82 Copynumber: 3.0 Consensus size: 82
23378754 TGTGCAATCA
23378764 TCACAATTTATAAATTATAAATATTTTAATATTTAAATTTAGCAATATCATGAAAATATATTCTT
1 TCACAATTTATAAATTATAAATATTTTAATATTTAAATTTAGCAATATCATGAAAATATATTCTT
23378829 TTCTATTTAATTTTTTT
66 TTCTATTTAATTTTTTT
23378846 TCACAATTTATAAATTATAAATATTTTAATATTTAAATTTAGCAATATCATGAAAATATATTCTT
1 TCACAATTTATAAATTATAAATATTTTAATATTTAAATTTAGCAATATCATGAAAATATATTCTT
23378911 TTCTATTTAA-TTTTTT
66 TTCTATTTAATTTTTTT
*
23378927 TCACAATTTATAAATTATAAATATTTTAATATTTAAATTTAGCAATATCATGAAAATATATTCTC
1 TCACAATTTATAAATTATAAATATTTTAATATTTAAATTTAGCAATATCATGAAAATATATTCTT
23378992 TTCTATTTAATTTTTTT
66 TTCTATTTAATTTTTTT
23379009 TCA
1 TCA
23379012 AACTTGTGCG
Statistics
Matches: 164, Mismatches: 1, Indels: 2
0.98 0.01 0.01
Matches are distributed among these distances:
81 80 0.49
82 84 0.51
ACGTcount: A:0.39, C:0.08, G:0.02, T:0.50
Consensus pattern (82 bp):
TCACAATTTATAAATTATAAATATTTTAATATTTAAATTTAGCAATATCATGAAAATATATTCTT
TTCTATTTAATTTTTTT
Found at i:23378975 original size:81 final size:81
Alignment explanation
Indices: 23378764--23379008 Score: 472
Period size: 81 Copynumber: 3.0 Consensus size: 81
23378754 TGTGCAATCA
23378764 TCACAATTTATAAATTATAAATATTTTAATATTTAAATTTAGCAATATCATGAAAATATATTCTT
1 TCACAATTTATAAATTATAAATATTTTAATATTTAAATTTAGCAATATCATGAAAATATATTCTT
23378829 TTCTATTTAATTTTTTT
66 TTCTATTTAA-TTTTTT
23378846 TCACAATTTATAAATTATAAATATTTTAATATTTAAATTTAGCAATATCATGAAAATATATTCTT
1 TCACAATTTATAAATTATAAATATTTTAATATTTAAATTTAGCAATATCATGAAAATATATTCTT
23378911 TTCTATTTAATTTTTT
66 TTCTATTTAATTTTTT
*
23378927 TCACAATTTATAAATTATAAATATTTTAATATTTAAATTTAGCAATATCATGAAAATATATTCTC
1 TCACAATTTATAAATTATAAATATTTTAATATTTAAATTTAGCAATATCATGAAAATATATTCTT
23378992 TTCTATTTAATTTTTT
66 TTCTATTTAATTTTTT
23379008 T
1 T
23379009 TCAAACTTGT
Statistics
Matches: 162, Mismatches: 1, Indels: 1
0.99 0.01 0.01
Matches are distributed among these distances:
81 87 0.54
82 75 0.46
ACGTcount: A:0.39, C:0.08, G:0.02, T:0.51
Consensus pattern (81 bp):
TCACAATTTATAAATTATAAATATTTTAATATTTAAATTTAGCAATATCATGAAAATATATTCTT
TTCTATTTAATTTTTT
Found at i:23379511 original size:23 final size:23
Alignment explanation
Indices: 23379485--23379540 Score: 103
Period size: 23 Copynumber: 2.4 Consensus size: 23
23379475 AATTTGACAT
23379485 AGTGAATTTTCTTCTCCTCTGCC
1 AGTGAATTTTCTTCTCCTCTGCC
23379508 AGTGAATTTTCTTCTCCTCTGCC
1 AGTGAATTTTCTTCTCCTCTGCC
*
23379531 AGTGATTTTT
1 AGTGAATTTT
23379541 ACGTGGAAAT
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
23 32 1.00
ACGTcount: A:0.14, C:0.25, G:0.14, T:0.46
Consensus pattern (23 bp):
AGTGAATTTTCTTCTCCTCTGCC
Found at i:23383787 original size:17 final size:17
Alignment explanation
Indices: 23383765--23383800 Score: 72
Period size: 17 Copynumber: 2.1 Consensus size: 17
23383755 AAAATAAAAG
23383765 TAAAATCCATATAGAAC
1 TAAAATCCATATAGAAC
23383782 TAAAATCCATATAGAAC
1 TAAAATCCATATAGAAC
23383799 TA
1 TA
23383801 CACTTCTTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.53, C:0.17, G:0.06, T:0.25
Consensus pattern (17 bp):
TAAAATCCATATAGAAC
Found at i:23387694 original size:40 final size:40
Alignment explanation
Indices: 23387616--23387836 Score: 311
Period size: 40 Copynumber: 5.5 Consensus size: 40
23387606 ACCCAAGTAT
* * *
23387616 CTTCAGGATTTAG-CCGGATATAG-CAACTCGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTC-ACTAGCACAAATGC
* **
23387655 CTTCGGGTCTTAGCCCGGATATAGTCACTAGCATGAATGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
23387695 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
* *
23387735 CTTCGGGACTTAGCCCGGATATAGTAACTTGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
* * *
23387775 CTTCGGGACTTAGCCCGAATATAGTAACTTGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
*
23387815 CTTCGGGACTTAGCCCAGATAT
1 CTTCGGGACTTAGCCCGGATAT
23387837 CATCCGAATA
Statistics
Matches: 166, Mismatches: 14, Indels: 3
0.91 0.08 0.02
Matches are distributed among these distances:
39 10 0.06
40 155 0.93
41 1 0.01
ACGTcount: A:0.27, C:0.26, G:0.22, T:0.25
Consensus pattern (40 bp):
CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
Found at i:23391855 original size:13 final size:13
Alignment explanation
Indices: 23391837--23391902 Score: 72
Period size: 13 Copynumber: 5.5 Consensus size: 13
23391827 TAGATTTTTC
23391837 CTAAATATTATCA
1 CTAAATATTATCA
23391850 CTAAATA--ATC-
1 CTAAATATTATCA
23391860 CTAAATATTATCA
1 CTAAATATTATCA
*
23391873 CTAAATA--AT-T
1 CTAAATATTATCA
*
23391883 CTAAATATTATCT
1 CTAAATATTATCA
23391896 CTAAATA
1 CTAAATA
23391903 ATTCAAAATT
Statistics
Matches: 46, Mismatches: 1, Indels: 12
0.78 0.02 0.20
Matches are distributed among these distances:
10 14 0.30
11 5 0.11
12 5 0.11
13 22 0.48
ACGTcount: A:0.47, C:0.15, G:0.00, T:0.38
Consensus pattern (13 bp):
CTAAATATTATCA
Found at i:23391905 original size:23 final size:23
Alignment explanation
Indices: 23391837--23391911 Score: 123
Period size: 23 Copynumber: 3.3 Consensus size: 23
23391827 TAGATTTTTC
*
23391837 CTAAATATTATCACTAAATAATC
1 CTAAATATTATCACTAAATAATT
23391860 CTAAATATTATCACTAAATAATT
1 CTAAATATTATCACTAAATAATT
*
23391883 CTAAATATTATCTCTAAATAATT
1 CTAAATATTATCACTAAATAATT
*
23391906 CAAAAT
1 CTAAAT
23391912 TTAAAAATCA
Statistics
Matches: 49, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
23 49 1.00
ACGTcount: A:0.48, C:0.15, G:0.00, T:0.37
Consensus pattern (23 bp):
CTAAATATTATCACTAAATAATT
Found at i:23392388 original size:2 final size:2
Alignment explanation
Indices: 23392383--23392431 Score: 98
Period size: 2 Copynumber: 24.5 Consensus size: 2
23392373 TCACACACAC
23392383 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
23392425 AT AT AT A
1 AT AT AT A
23392432 ATCATATGAG
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 47 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:23396532 original size:30 final size:30
Alignment explanation
Indices: 23396491--23396550 Score: 111
Period size: 30 Copynumber: 2.0 Consensus size: 30
23396481 CATCTCTAAT
23396491 TGAATTCAATAGAGAAGTTGAGTTCATCAA
1 TGAATTCAATAGAGAAGTTGAGTTCATCAA
*
23396521 TGAATTTAATAGAGAAGTTGAGTTCATCAA
1 TGAATTCAATAGAGAAGTTGAGTTCATCAA
23396551 CTATCCTTTT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.40, C:0.08, G:0.20, T:0.32
Consensus pattern (30 bp):
TGAATTCAATAGAGAAGTTGAGTTCATCAA
Found at i:23401344 original size:26 final size:26
Alignment explanation
Indices: 23401307--23401442 Score: 236
Period size: 26 Copynumber: 5.2 Consensus size: 26
23401297 TGATACAAAT
* *
23401307 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTTCA
23401333 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
* *
23401359 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTTCA
23401385 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
23401411 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
23401437 TGATAA
1 TGATAA
23401443 GAATATCATG
Statistics
Matches: 104, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
26 104 1.00
ACGTcount: A:0.33, C:0.05, G:0.25, T:0.37
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTTCA
Found at i:23405091 original size:6 final size:6
Alignment explanation
Indices: 23405082--23405107 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
23405072 GATTTTTTCC
23405082 AAAATG AAAATG AAAATG AAAATG AA
1 AAAATG AAAATG AAAATG AAAATG AA
23405108 GAAACAAAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.69, C:0.00, G:0.15, T:0.15
Consensus pattern (6 bp):
AAAATG
Found at i:23405161 original size:63 final size:57
Alignment explanation
Indices: 23405088--23405216 Score: 190
Period size: 57 Copynumber: 2.3 Consensus size: 57
23405078 TTCCAAAATG
** *
23405088 AAAATGAAAATGAAAAT-GAAGAAA-CAAAATCATATGGAAATGATTATGGTTTTCTCC
1 AAAATGAAAATGAAAATAG-AGAAATGGAAA-CATTTGGAAATGATTATGGTTTTCTCC
*
23405145 AAAATGAAAATGAAAATAGAGAAATGGAAACATTTGGAAATGATGATGGTTTTCTCC
1 AAAATGAAAATGAAAATAGAGAAATGGAAACATTTGGAAATGATTATGGTTTTCTCC
23405202 AAAATGAAAATGAAA
1 AAAATGAAAATGAAA
23405217 CTGACTTGAA
Statistics
Matches: 66, Mismatches: 4, Indels: 4
0.89 0.05 0.05
Matches are distributed among these distances:
57 62 0.94
58 4 0.06
ACGTcount: A:0.50, C:0.07, G:0.18, T:0.25
Consensus pattern (57 bp):
AAAATGAAAATGAAAATAGAGAAATGGAAACATTTGGAAATGATTATGGTTTTCTCC
Found at i:23409210 original size:12 final size:12
Alignment explanation
Indices: 23409155--23409211 Score: 53
Period size: 12 Copynumber: 4.7 Consensus size: 12
23409145 CTTTTCTCTC
23409155 CTTTTGTTTCACA
1 CTTTT-TTTCACA
*
23409168 CTTTTTTTCGCA
1 CTTTTTTTCACA
***
23409180 CTCCCTTTCACA
1 CTTTTTTTCACA
23409192 -TTCTTTTTCACA
1 CTT-TTTTTCACA
23409204 CTTTTTTT
1 CTTTTTTT
23409212 TTATCTCATT
Statistics
Matches: 34, Mismatches: 8, Indels: 5
0.72 0.17 0.11
Matches are distributed among these distances:
11 1 0.03
12 26 0.76
13 7 0.21
ACGTcount: A:0.12, C:0.28, G:0.04, T:0.56
Consensus pattern (12 bp):
CTTTTTTTCACA
Found at i:23409243 original size:19 final size:21
Alignment explanation
Indices: 23409202--23409255 Score: 67
Period size: 19 Copynumber: 2.6 Consensus size: 21
23409192 TTCTTTTTCA
*
23409202 CACTTTTTTTTTATCTCATTTT
1 CACTCTTTTTTT-TCTCATTTT
23409224 CACTCTTTTTTTTCT-A-TTT
1 CACTCTTTTTTTTCTCATTTT
*
23409243 CGCTCTTTTTTTT
1 CACTCTTTTTTTT
23409256 ACTTTTTTTC
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
19 15 0.50
20 1 0.03
21 3 0.10
22 11 0.37
ACGTcount: A:0.09, C:0.20, G:0.02, T:0.69
Consensus pattern (21 bp):
CACTCTTTTTTTTCTCATTTT
Found at i:23428907 original size:25 final size:25
Alignment explanation
Indices: 23428877--23428933 Score: 80
Period size: 25 Copynumber: 2.3 Consensus size: 25
23428867 GGCTAGTGAA
* *
23428877 AGCATACCGATTTACAGCTCG-AGTG
1 AGCATACCAATTCACAGCTCGTA-TG
23428902 AGCATACCAATTCACAGCTCGTATG
1 AGCATACCAATTCACAGCTCGTATG
23428927 AGCATAC
1 AGCATAC
23428934 ATATACAGGT
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
25 28 0.97
26 1 0.03
ACGTcount: A:0.32, C:0.26, G:0.19, T:0.23
Consensus pattern (25 bp):
AGCATACCAATTCACAGCTCGTATG
Found at i:23431536 original size:46 final size:46
Alignment explanation
Indices: 23431469--23431682 Score: 213
Period size: 46 Copynumber: 4.6 Consensus size: 46
23431459 TATGTGTGCT
23431469 AGTGTAAGACATGTCTGAGACATGCATCCGCCACATTATGAGAGCC
1 AGTGTAAGACATGTCTGAGACATGCATCCGCCACATTATGAGAGCC
* *
23431515 AGTGTAAGACATGTCTGAGACATGCATCGGCCATATTATGAGAGCC
1 AGTGTAAGACATGTCTGAGACATGCATCCGCCACATTATGAGAGCC
* * * * *
23431561 ACTGTAAGACATGTCTG-GAACATGCATCGGCCTCGAGATAT-ACAAGCC
1 AGTGTAAGACATGTCTGAG-ACATGCATCCGCCAC-A-TTATGA-GAGCC
* * * **
23431609 AGTGTAAGACATGTCTGGGACATGTAT-CG--ACATTGAGACGAGAGGT
1 AGTGTAAGACATGTCTGAGACATGCATCCGCCACATT---ATGAGAGCC
*
23431655 AGTGTAAGACATGTCTGGGACATGCATC
1 AGTGTAAGACATGTCTGAGACATGCATC
23431683 AGCCTCGAGA
Statistics
Matches: 141, Mismatches: 17, Indels: 19
0.80 0.10 0.11
Matches are distributed among these distances:
43 1 0.01
44 1 0.01
45 2 0.01
46 102 0.72
47 4 0.03
48 30 0.21
49 1 0.01
ACGTcount: A:0.30, C:0.20, G:0.27, T:0.23
Consensus pattern (46 bp):
AGTGTAAGACATGTCTGAGACATGCATCCGCCACATTATGAGAGCC
Found at i:23431631 original size:94 final size:93
Alignment explanation
Indices: 23431511--23431726 Score: 290
Period size: 94 Copynumber: 2.3 Consensus size: 93
23431501 ACATTATGAG
* * * *
23431511 AGCCAGTGTAAGACATGTCTGAGACATGCATCGGCCA-TATTATGAGAGCCACTGTAAGACATGT
1 AGCCAGTGTAAGACATGTCTGGGACATGCATC-GACATTA-GACGAGAGCCACTGTAAGACATGT
*
23431575 CTGGAACATGCATCGGCCTCGAGATATACA
64 CTGGAACATGCATCAGCCTCGAGATATACA
* ** *
23431605 AGCCAGTGTAAGACATGTCTGGGACATGTATCGACATTGAGACGAGAGGTAGTGTAAGACATGTC
1 AGCCAGTGTAAGACATGTCTGGGACATGCATCGACATT-AGACGAGAGCCACTGTAAGACATGTC
*
23431670 TGGGACATGCATCAGCCTCGAGATATACA
65 TGGAACATGCATCAGCCTCGAGATATACA
* *
23431699 AGCTAGTGTAAGACCTGTCTGGGACATG
1 AGCCAGTGTAAGACATGTCTGGGACATG
23431727 GTGTCAGCTT
Statistics
Matches: 108, Mismatches: 12, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
93 3 0.03
94 104 0.96
95 1 0.01
ACGTcount: A:0.30, C:0.20, G:0.27, T:0.23
Consensus pattern (93 bp):
AGCCAGTGTAAGACATGTCTGGGACATGCATCGACATTAGACGAGAGCCACTGTAAGACATGTCT
GGAACATGCATCAGCCTCGAGATATACA
Found at i:23431814 original size:48 final size:47
Alignment explanation
Indices: 23431469--23431917 Score: 207
Period size: 48 Copynumber: 9.6 Consensus size: 47
23431459 TATGTGTGCT
* * * ** * *
23431469 AGTGTAAGACATGTCTGAGACAT-GCATCCGCCACAT-TATGAGAGCC
1 AGTGTAAGACCTGTCTGGGACATGGCAT-CGACTGATATATGAAAGTC
* * * * * *
23431515 AGTGTAAGACATGTCTGAGACAT-GCATCGGC-CATATTATGAGAGCC
1 AGTGTAAGACCTGTCTGGGACATGGCATCGACTGATA-TATGAAAGTC
* * * * * *
23431561 ACTGTAAGACATGTCTGGAACAT-GCATCGGCCTCGAGATAT-ACAAGCC
1 AGTGTAAGACCTGTCTGGGACATGGCATC-GACT-GATATATGA-AAGTC
* * * * *
23431609 AGTGTAAGACATGTCTGGGACAT-GTATCGAC--ATTGAGACGAGAGGT-
1 AGTGTAAGACCTGTCTGGGACATGGCATCGACTGA-T-ATATGA-AAGTC
* * *
23431655 AGTGTAAGACATGTCTGGGACAT-GCATCAGCCTCGAGATAT-ACAAG-C
1 AGTGTAAGACCTGTCTGGGACATGGCATC-GACT-GATATATGA-AAGTC
** * *
23431702 TAGTGTAAGACCTGTCTGGGACATGGTGTC-AGCTTG-T-TGTG--TGTC
1 -AGTGTAAGACCTGTCTGGGACATGGCATCGA-C-TGATATATGAAAGTC
* * *
23431747 AGTGTAAGATCTGTCTGGGACATGGCATCGAACTGATATATGAGAGCC
1 AGTGTAAGACCTGTCTGGGACATGGCATCG-ACTGATATATGAAAGTC
* * * *
23431795 AGTGTAAGACCTGTTTGGGACACGGCATCGGCCTCGGTATATGAAAGTC
1 AGTGTAAGACCTGTCTGGGACATGGCATC-GACT-GATATATGAAAGTC
* ***
23431844 AGTGTAAGACCTGTCTGGGACATGGCATCGACT-TTGATATGCTCGTC
1 AGTGTAAGACCTGTCTGGGACATGGCATCGACTGAT-ATATGAAAGTC
*
23431891 AGTGTAAGACCATGTTTGGGACATGGC
1 AGTGTAAGACC-TGTCTGGGACATGGC
23431918 GTCGGCATCT
Statistics
Matches: 320, Mismatches: 53, Indels: 58
0.74 0.12 0.13
Matches are distributed among these distances:
44 33 0.10
45 6 0.02
46 98 0.31
47 32 0.10
48 105 0.33
49 45 0.14
50 1 0.00
ACGTcount: A:0.27, C:0.19, G:0.28, T:0.25
Consensus pattern (47 bp):
AGTGTAAGACCTGTCTGGGACATGGCATCGACTGATATATGAAAGTC
Found at i:23431864 original size:97 final size:97
Alignment explanation
Indices: 23431744--23431923 Score: 256
Period size: 97 Copynumber: 1.9 Consensus size: 97
23431734 CTTGTTGTGT
*
23431744 GTCAGTGTAAGATCTGTCTGGGACATGGCATCGAACTGAT-ATATGAGAGCCAGTGTAAGACC-T
1 GTCAGTGTAAGACCTGTCTGGGACATGGCATCG-ACT-ATGATATGAGAGCCAGTGTAAGACCAT
23431807 GTTTGGGACACGGCATCGGCCTCGGTATATGAAA
64 GTTTGGGACACGGCATCGGCCTCGGTATATGAAA
* *** *
23431841 GTCAGTGTAAGACCTGTCTGGGACATGGCATCGACTTTGATATGCTCGTCAGTGTAAGACCATGT
1 GTCAGTGTAAGACCTGTCTGGGACATGGCATCGACTATGATATGAGAGCCAGTGTAAGACCATGT
* *
23431906 TTGGGACATGGCGTCGGC
66 TTGGGACACGGCATCGGC
23431924 ATCTTATCCC
Statistics
Matches: 73, Mismatches: 8, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
95 1 0.01
96 21 0.29
97 51 0.70
ACGTcount: A:0.24, C:0.19, G:0.31, T:0.26
Consensus pattern (97 bp):
GTCAGTGTAAGACCTGTCTGGGACATGGCATCGACTATGATATGAGAGCCAGTGTAAGACCATGT
TTGGGACACGGCATCGGCCTCGGTATATGAAA
Found at i:23431997 original size:2 final size:2
Alignment explanation
Indices: 23431992--23432028 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
23431982 GAGATTTATG
23431992 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
23432029 CAAAATGAGA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:23437658 original size:49 final size:49
Alignment explanation
Indices: 23437602--23437767 Score: 314
Period size: 49 Copynumber: 3.4 Consensus size: 49
23437592 TATCAAAATT
23437602 TGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAA
1 TGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAA
23437651 TGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAA
1 TGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAA
* *
23437700 TGTGAAAGTGTATATATATGTGATAAGGCCTCATGGCCGACGTGATGAA
1 TGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAA
23437749 TGTGAAAGTGTATATATAT
1 TGTGAAAGTGTATATATAT
23437768 ATGTGGTATC
Statistics
Matches: 115, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
49 115 1.00
ACGTcount: A:0.33, C:0.08, G:0.28, T:0.31
Consensus pattern (49 bp):
TGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAA
Found at i:23437883 original size:37 final size:37
Alignment explanation
Indices: 23437842--23437912 Score: 142
Period size: 37 Copynumber: 1.9 Consensus size: 37
23437832 TTCCGGGTGA
23437842 GACCCGATGACTACGTGTGGAGATTATGTCCGGGCAC
1 GACCCGATGACTACGTGTGGAGATTATGTCCGGGCAC
23437879 GACCCGATGACTACGTGTGGAGATTATGTCCGGG
1 GACCCGATGACTACGTGTGGAGATTATGTCCGGG
23437913 TAAGACTTCG
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 34 1.00
ACGTcount: A:0.21, C:0.23, G:0.34, T:0.23
Consensus pattern (37 bp):
GACCCGATGACTACGTGTGGAGATTATGTCCGGGCAC
Found at i:23439833 original size:40 final size:40
Alignment explanation
Indices: 23439789--23440140 Score: 456
Period size: 40 Copynumber: 8.8 Consensus size: 40
23439779 GAGAATTGAG
*
23439789 AATGATGTATCCGGACTAAGTTCCGAAGAGCATTCGTGCT
1 AATGATATATCCGGACTAAGTTCCGAAGAGCATTCGTGCT
*
23439829 AATGATGTATCCGGACTAAGTTCCGAAGAGCATTCGTGCT
1 AATGATATATCCGGACTAAGTTCCGAAGAGCATTCGTGCT
*
23439869 AATGATATATCCGGACTAAGTTCCGAAGAGCATTTGTGCT
1 AATGATATATCCGGACTAAGTTCCGAAGAGCATTCGTGCT
*
23439909 AATGATATATCCGGACTAAGTTTCGAAGAGCATTCGTGCT
1 AATGATATATCCGGACTAAGTTCCGAAGAGCATTCGTGCT
* * * *
23439949 AACGATATATCTGGGCTAAATTCCGAAGAGCATTCGTGCT
1 AATGATATATCCGGACTAAGTTCCGAAGAGCATTCGTGCT
* *
23439989 AGTGATGTATCCGGGA-TAAGTTCCGAAGAGCATTCGTGCT
1 AATGATATATCC-GGACTAAGTTCCGAAGAGCATTCGTGCT
* * *
23440029 AGTGATGTATCCGGGCTAAGTTCCGAAGAGCATTCGTGCT
1 AATGATATATCCGGACTAAGTTCCGAAGAGCATTCGTGCT
* * ***
23440069 AGTGATATATCTGTG-CTAAACCCCGAAGAGCATTCGTGCT
1 AATGATATATCCG-GACTAAGTTCCGAAGAGCATTCGTGCT
** * * * *
23440109 GGTGTTATATCCGGGCTAGGTCCCGAAGAGCA
1 AATGATATATCCGGACTAAGTTCCGAAGAGCA
23440141 ATCATGCTGG
Statistics
Matches: 281, Mismatches: 27, Indels: 8
0.89 0.09 0.03
Matches are distributed among these distances:
39 3 0.01
40 275 0.98
41 3 0.01
ACGTcount: A:0.27, C:0.20, G:0.26, T:0.28
Consensus pattern (40 bp):
AATGATATATCCGGACTAAGTTCCGAAGAGCATTCGTGCT
Found at i:23443609 original size:49 final size:49
Alignment explanation
Indices: 23443553--23443718 Score: 298
Period size: 49 Copynumber: 3.4 Consensus size: 49
23443543 TATCAAAATT
23443553 TGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAA
1 TGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAA
23443602 TGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAA
1 TGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAA
* *
23443651 TGTGAAAAG-GTATATATATGTGATAAGGCCTCATGGCCGACGTGATGAA
1 TGTG-AAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAA
23443700 TGTGAAAGTGTATATATAT
1 TGTGAAAGTGTATATATAT
23443719 ATGTGGTATC
Statistics
Matches: 113, Mismatches: 2, Indels: 4
0.95 0.02 0.03
Matches are distributed among these distances:
48 4 0.04
49 105 0.93
50 4 0.04
ACGTcount: A:0.33, C:0.08, G:0.28, T:0.31
Consensus pattern (49 bp):
TGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAA
Found at i:23449677 original size:46 final size:46
Alignment explanation
Indices: 23449624--23449746 Score: 185
Period size: 46 Copynumber: 2.7 Consensus size: 46
23449614 TGATATGTGT
* *
23449624 GCTAGTGTAAGACATGTCTGGGACATGCATCAG-CAACATTATGGGA
1 GCTAGTGTAAGACATGTCTGGAACATGCATCAGAC-ACATTATGAGA
*
23449670 GCTAGTGTAAGACATGTCTAGAACATGCATCAGACACATTATGAGA
1 GCTAGTGTAAGACATGTCTGGAACATGCATCAGACACATTATGAGA
* *
23449716 GCCAATGTAAGACATGTCTGGAACATGCATC
1 GCTAGTGTAAGACATGTCTGGAACATGCATC
23449747 GGTCTCAAGA
Statistics
Matches: 70, Mismatches: 6, Indels: 2
0.90 0.08 0.03
Matches are distributed among these distances:
46 69 0.99
47 1 0.01
ACGTcount: A:0.33, C:0.19, G:0.24, T:0.24
Consensus pattern (46 bp):
GCTAGTGTAAGACATGTCTGGAACATGCATCAGACACATTATGAGA
Found at i:23449823 original size:49 final size:49
Alignment explanation
Indices: 23449767--23449883 Score: 155
Period size: 49 Copynumber: 2.4 Consensus size: 49
23449757 TATACAAGTG
* * *
23449767 AGTGTAAGACATGTCTGGGATATGGCATCGACAC-CGATAGATGAGAGCC
1 AGTGTAAGACATGTCTGGGACACGGCATCGAC-CTCGATAGATGAAAGCC
* * *
23449816 AGTGTAAGACCTGTCTGGGACACGGCATCGACCTCGATATATGAAAGTC
1 AGTGTAAGACATGTCTGGGACACGGCATCGACCTCGATAGATGAAAGCC
*
23449865 AGTGTAAGACTTGTCTGGG
1 AGTGTAAGACATGTCTGGG
23449884 GCATGACATA
Statistics
Matches: 60, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
48 1 0.02
49 59 0.98
ACGTcount: A:0.28, C:0.19, G:0.30, T:0.23
Consensus pattern (49 bp):
AGTGTAAGACATGTCTGGGACACGGCATCGACCTCGATAGATGAAAGCC
Found at i:23453238 original size:16 final size:16
Alignment explanation
Indices: 23453217--23453250 Score: 68
Period size: 16 Copynumber: 2.1 Consensus size: 16
23453207 TATACTTTCA
23453217 TATCCTATAATCATAT
1 TATCCTATAATCATAT
23453233 TATCCTATAATCATAT
1 TATCCTATAATCATAT
23453249 TA
1 TA
23453251 AATTTGAAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.38, C:0.18, G:0.00, T:0.44
Consensus pattern (16 bp):
TATCCTATAATCATAT
Found at i:23456666 original size:19 final size:20
Alignment explanation
Indices: 23456642--23456684 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 20
23456632 TCAAAATATG
23456642 TTTAA-TATTATA-AATTTAT
1 TTTAATTATTATATAATTT-T
23456661 TTTAATTTATTATATAATTTT
1 TTTAA-TTATTATATAATTTT
23456682 TTT
1 TTT
23456685 TCTTGTAGAA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
19 5 0.24
21 11 0.52
22 5 0.24
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (20 bp):
TTTAATTATTATATAATTTT
Found at i:23459960 original size:46 final size:44
Alignment explanation
Indices: 23459901--23460015 Score: 149
Period size: 44 Copynumber: 2.6 Consensus size: 44
23459891 ACAGGACAGA
* *
23459901 ACAGAAATGAGCCATGTAAGTCCATATTAGAAATATGGCTTTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATT--AAATATGGCATTGGAG
* *
23459947 ACAGGATTGAGCCATGTAAGTCCATATTATATATGGCATTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATTAAATATGGCATTGGAG
* **
23459991 ACAGGAATAATTCATGTAAGTCCAT
1 ACAGGAATGAGCCATGTAAGTCCAT
23460016 GTCAAAGACA
Statistics
Matches: 61, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
44 35 0.57
46 26 0.43
ACGTcount: A:0.36, C:0.14, G:0.23, T:0.28
Consensus pattern (44 bp):
ACAGGAATGAGCCATGTAAGTCCATATTAAATATGGCATTGGAG
Found at i:23459996 original size:44 final size:45
Alignment explanation
Indices: 23459901--23460034 Score: 153
Period size: 46 Copynumber: 3.0 Consensus size: 45
23459891 ACAGGACAGA
* *
23459901 ACAGAAATGAGCCATGTAAGTCCATATTAGAAATATGGCTTTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATTA-AAATATGGCATTGGAG
* *
23459947 ACAGGATTGAGCCATGTAAGTCCATATT-ATATATGGCATTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATTAAAATATGGCATTGGAG
* ** * * *
23459991 ACAGGAATAATTCATGTAAGTCCATGTCAAAGACATGGCATTGG
1 ACAGGAATGAGCCATGTAAGTCCATATTAAA-ATATGGCATTGG
23460035 CAGGATATTG
Statistics
Matches: 74, Mismatches: 12, Indels: 4
0.82 0.13 0.04
Matches are distributed among these distances:
44 36 0.49
45 1 0.01
46 37 0.50
ACGTcount: A:0.35, C:0.14, G:0.24, T:0.27
Consensus pattern (45 bp):
ACAGGAATGAGCCATGTAAGTCCATATTAAAATATGGCATTGGAG
Found at i:23465910 original size:46 final size:44
Alignment explanation
Indices: 23465851--23465965 Score: 149
Period size: 44 Copynumber: 2.6 Consensus size: 44
23465841 ACAGGACAGA
* *
23465851 ACAGAAATGAGCCATGTAAGTCCATATTAGAAATATGGCTTTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATT--AAATATGGCATTGGAG
* *
23465897 ACAGGATTGAGCCATGTAAGTCCATATTATATATGGCATTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATTAAATATGGCATTGGAG
* **
23465941 ACAGGAATAATTCATGTAAGTCCAT
1 ACAGGAATGAGCCATGTAAGTCCAT
23465966 GTCAAAGACA
Statistics
Matches: 61, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
44 35 0.57
46 26 0.43
ACGTcount: A:0.36, C:0.14, G:0.23, T:0.28
Consensus pattern (44 bp):
ACAGGAATGAGCCATGTAAGTCCATATTAAATATGGCATTGGAG
Found at i:23465946 original size:44 final size:45
Alignment explanation
Indices: 23465851--23465984 Score: 153
Period size: 46 Copynumber: 3.0 Consensus size: 45
23465841 ACAGGACAGA
* *
23465851 ACAGAAATGAGCCATGTAAGTCCATATTAGAAATATGGCTTTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATTA-AAATATGGCATTGGAG
* *
23465897 ACAGGATTGAGCCATGTAAGTCCATATT-ATATATGGCATTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATTAAAATATGGCATTGGAG
* ** * * *
23465941 ACAGGAATAATTCATGTAAGTCCATGTCAAAGACATGGCATTGG
1 ACAGGAATGAGCCATGTAAGTCCATATTAAA-ATATGGCATTGG
23465985 CAGGATATTG
Statistics
Matches: 74, Mismatches: 12, Indels: 4
0.82 0.13 0.04
Matches are distributed among these distances:
44 36 0.49
45 1 0.01
46 37 0.50
ACGTcount: A:0.35, C:0.14, G:0.24, T:0.27
Consensus pattern (45 bp):
ACAGGAATGAGCCATGTAAGTCCATATTAAAATATGGCATTGGAG
Found at i:23468170 original size:26 final size:26
Alignment explanation
Indices: 23468134--23468186 Score: 106
Period size: 26 Copynumber: 2.0 Consensus size: 26
23468124 AACTTCATGC
23468134 AGTCAAGGGTGCTGCCAAAGAAAACA
1 AGTCAAGGGTGCTGCCAAAGAAAACA
23468160 AGTCAAGGGTGCTGCCAAAGAAAACA
1 AGTCAAGGGTGCTGCCAAAGAAAACA
23468186 A
1 A
23468187 CTTGCTTGAT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.43, C:0.19, G:0.26, T:0.11
Consensus pattern (26 bp):
AGTCAAGGGTGCTGCCAAAGAAAACA
Found at i:23501463 original size:23 final size:24
Alignment explanation
Indices: 23501418--23501469 Score: 61
Period size: 24 Copynumber: 2.2 Consensus size: 24
23501408 TTGTAACGGG
* *
23501418 AAGCTCACATAGAGCCATTTCGGA
1 AAGCTCACAAAGAGCCATATCGGA
* *
23501442 AAGCTCATAAAGAGCC-TATCGGG
1 AAGCTCACAAAGAGCCATATCGGA
23501465 AAGCT
1 AAGCT
23501470 TATCCGGGCT
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
23 10 0.42
24 14 0.58
ACGTcount: A:0.35, C:0.23, G:0.23, T:0.19
Consensus pattern (24 bp):
AAGCTCACAAAGAGCCATATCGGA
Found at i:23501562 original size:23 final size:24
Alignment explanation
Indices: 23501514--23501580 Score: 82
Period size: 23 Copynumber: 2.8 Consensus size: 24
23501504 CATAGTCGGA
* * * *
23501514 AAGTTCACAATGAATCTTATCGGG
1 AAGTTCACAAAGAACCATATCAGG
23501538 AAGTTCACAAA-AACCATATCAGG
1 AAGTTCACAAAGAACCATATCAGG
*
23501561 AAGTTCACAAAGAGCCATAT
1 AAGTTCACAAAGAACCATAT
23501581 TGGGAAGCTT
Statistics
Matches: 37, Mismatches: 5, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
23 20 0.54
24 17 0.46
ACGTcount: A:0.42, C:0.19, G:0.16, T:0.22
Consensus pattern (24 bp):
AAGTTCACAAAGAACCATATCAGG
Found at i:23501586 original size:24 final size:24
Alignment explanation
Indices: 23501498--23501587 Score: 92
Period size: 24 Copynumber: 3.8 Consensus size: 24
23501488 GGAAGGTCAT
* *
23501498 AAGAGCCATAGTCGGAAAGTTCACA
1 AAGAACCATA-TCGGGAAGTTCACA
* * *
23501523 ATGAATCTTATCGGGAAGTTCACA
1 AAGAACCATATCGGGAAGTTCACA
*
23501547 AA-AACCATATCAGGAAGTTCACA
1 AAGAACCATATCGGGAAGTTCACA
* *
23501570 AAGAGCCATATTGGGAAG
1 AAGAACCATATCGGGAAG
23501588 CTTCGGATAG
Statistics
Matches: 52, Mismatches: 12, Indels: 3
0.78 0.18 0.04
Matches are distributed among these distances:
23 20 0.38
24 26 0.50
25 6 0.12
ACGTcount: A:0.40, C:0.18, G:0.22, T:0.20
Consensus pattern (24 bp):
AAGAACCATATCGGGAAGTTCACA
Found at i:23502027 original size:21 final size:20
Alignment explanation
Indices: 23501995--23502033 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 20
23501985 ATATAAATGA
23501995 ATTTAATATCAATTTAATCC
1 ATTTAATATCAATTTAATCC
*
23502015 ATTTCATACTCAATTTAAT
1 ATTTAATA-TCAATTTAAT
23502034 TCAATTCACA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 7 0.41
21 10 0.59
ACGTcount: A:0.38, C:0.15, G:0.00, T:0.46
Consensus pattern (20 bp):
ATTTAATATCAATTTAATCC
Found at i:23503935 original size:27 final size:27
Alignment explanation
Indices: 23503894--23503970 Score: 91
Period size: 27 Copynumber: 2.9 Consensus size: 27
23503884 CATATATGTG
* * *
23503894 GAAAGTCCGTGAAGACTATCTTTTGTA
1 GAAAGTCCGTCAAGACTATCTTTGGCA
*
23503921 GAAAGTCCGTCAAGACTATCTTTGGCG
1 GAAAGTCCGTCAAGACTATCTTTGGCA
* **
23503948 GAAAATTTGTCAAGACTATCTTT
1 GAAAGTCCGTCAAGACTATCTTT
23503971 AATAAAAGTC
Statistics
Matches: 43, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 43 1.00
ACGTcount: A:0.30, C:0.17, G:0.21, T:0.32
Consensus pattern (27 bp):
GAAAGTCCGTCAAGACTATCTTTGGCA
Found at i:23505612 original size:37 final size:36
Alignment explanation
Indices: 23505536--23505638 Score: 107
Period size: 37 Copynumber: 2.8 Consensus size: 36
23505526 TGTGAGTACG
* **
23505536 TGTAAGACCATAATTGGGCTATGGCATCATAATAACA
1 TGTAAGACCAT-ATTGGGATATGGCATTGTAATAACA
* **
23505573 TGTAAGACCATAGTTGGGATATGGCATTGTGATCCCA
1 TGTAAGACCATA-TTGGGATATGGCATTGTAATAACA
* *
23505610 TGTAAGACCATATCTAGGATATGGTATTG
1 TGTAAGACCATAT-TGGGATATGGCATTG
23505639 GCATCAATAT
Statistics
Matches: 56, Mismatches: 8, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
36 2 0.04
37 54 0.96
ACGTcount: A:0.32, C:0.15, G:0.23, T:0.30
Consensus pattern (36 bp):
TGTAAGACCATATTGGGATATGGCATTGTAATAACA
Found at i:23518770 original size:43 final size:42
Alignment explanation
Indices: 23518720--23518855 Score: 148
Period size: 43 Copynumber: 3.2 Consensus size: 42
23518710 TCCCGGATAT
* * ** *
23518720 GGTCTTACATGTTATCACATGTCGATGCCTCTGTCCCAGACAG
1 GGTCTTACACGTAATCACAT-TCGATGCCAATGTCCCAGACAC
* * * *
23518763 GGTCTTACACG-AATCATATACGATGCCAATGTCCTAAACAC
1 GGTCTTACACGTAATCACATTCGATGCCAATGTCCCAGACAC
* *
23518804 GGTCTTACACGTAATCTCATATCGATGCCAATGTCCCAGACAT
1 GGTCTTACACGTAATCACAT-TCGATGCCAATGTCCCAGACAC
23518847 GGTCTTACA
1 GGTCTTACA
23518856 TGAATTCAAT
Statistics
Matches: 76, Mismatches: 15, Indels: 4
0.80 0.16 0.04
Matches are distributed among these distances:
41 27 0.36
42 12 0.16
43 37 0.49
ACGTcount: A:0.27, C:0.27, G:0.18, T:0.28
Consensus pattern (42 bp):
GGTCTTACACGTAATCACATTCGATGCCAATGTCCCAGACAC
Found at i:23526498 original size:43 final size:42
Alignment explanation
Indices: 23526444--23526583 Score: 147
Period size: 43 Copynumber: 3.3 Consensus size: 42
23526434 TATCCCAGAT
* * **
23526444 ATGGTTCTTACATGTTATCACATGTCGATGCCTTTGTCCCAAAC
1 ATGG-TCTTACACGTAATCACAT-TCGATGCCAATGTCCCAAAC
* * * *
23526488 AGGGTCTTACACG-AATCATATACAATGCCAATGTCCCAAAC
1 ATGGTCTTACACGTAATCACATTCGATGCCAATGTCCCAAAC
* * *
23526529 ATAGTCTTACACGTAATCTCATATCGATGCCAATGTCCCAGAC
1 ATGGTCTTACACGTAATCACAT-TCGATGCCAATGTCCCAAAC
23526572 ATGGTCTTACAC
1 ATGGTCTTACAC
23526584 AAATTCGCCC
Statistics
Matches: 78, Mismatches: 16, Indels: 5
0.79 0.16 0.05
Matches are distributed among these distances:
41 27 0.35
42 12 0.15
43 36 0.46
44 3 0.04
ACGTcount: A:0.29, C:0.26, G:0.15, T:0.29
Consensus pattern (42 bp):
ATGGTCTTACACGTAATCACATTCGATGCCAATGTCCCAAAC
Found at i:23527957 original size:21 final size:21
Alignment explanation
Indices: 23527920--23527962 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 21
23527910 TTAGTTAAAT
*
23527920 AAATTAGATGTTGATATGTTC
1 AAATTAGATGTTGATATATTC
*
23527941 AAATT-GATGGTTTATATATTC
1 AAATTAGAT-GTTGATATATTC
23527962 A
1 A
23527963 TGTTAAGATT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
20 3 0.16
21 16 0.84
ACGTcount: A:0.35, C:0.05, G:0.16, T:0.44
Consensus pattern (21 bp):
AAATTAGATGTTGATATATTC
Found at i:23530986 original size:90 final size:90
Alignment explanation
Indices: 23530833--23531013 Score: 344
Period size: 90 Copynumber: 2.0 Consensus size: 90
23530823 AAGTTGAGTG
*
23530833 ATTCTGAAGTACAGTCATGCATAGTATTTATAGGTACAATGCATGCCAAAAATAGGAAAAATATA
1 ATTCTGAAGTACAGTCATACATAGTATTTATAGGTACAATGCATGCCAAAAATAGGAAAAATATA
23530898 ACGTTGAGAAAATAGTAACGTTGGA
66 ACGTTGAGAAAATAGTAACGTTGGA
*
23530923 ATTCTGAAGTACATTCATACATAGTATTTATAGGTACAATGCATGCCAAAAATAGGAAAAATATA
1 ATTCTGAAGTACAGTCATACATAGTATTTATAGGTACAATGCATGCCAAAAATAGGAAAAATATA
23530988 ACGTTGAGAAAATAGTAACGTTGGA
66 ACGTTGAGAAAATAGTAACGTTGGA
23531013 A
1 A
23531014 CAAATAATAT
Statistics
Matches: 89, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
90 89 1.00
ACGTcount: A:0.43, C:0.11, G:0.19, T:0.27
Consensus pattern (90 bp):
ATTCTGAAGTACAGTCATACATAGTATTTATAGGTACAATGCATGCCAAAAATAGGAAAAATATA
ACGTTGAGAAAATAGTAACGTTGGA
Found at i:23533054 original size:26 final size:26
Alignment explanation
Indices: 23533002--23533054 Score: 63
Period size: 26 Copynumber: 2.0 Consensus size: 26
23532992 TTTACAGTTT
*
23533002 TACCCCTAGTAGTTAAATTATCGAAA
1 TACCCCTAGTAGTTAAATTACCGAAA
* *
23533028 TACCCCTAG-GGTTAAATTGACCTAAA
1 TACCCCTAGTAGTTAAATT-ACCGAAA
23533054 T
1 T
23533055 GTATGTTTGA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
25 8 0.35
26 15 0.65
ACGTcount: A:0.36, C:0.21, G:0.13, T:0.30
Consensus pattern (26 bp):
TACCCCTAGTAGTTAAATTACCGAAA
Found at i:23538468 original size:26 final size:26
Alignment explanation
Indices: 23538439--23538544 Score: 176
Period size: 26 Copynumber: 4.1 Consensus size: 26
23538429 ATACAAATTA
23538439 ATAATGGGTTAGGTAAATGTTCCATG
1 ATAATGGGTTAGGTAAATGTTCCATG
* *
23538465 ATAATGGATTAGGTAAATATTCCATG
1 ATAATGGGTTAGGTAAATGTTCCATG
23538491 ATAATGGGTTAGGTAAATGTTCCATG
1 ATAATGGGTTAGGTAAATGTTCCATG
* *
23538517 ATAATGGTTTAGGTAAATGTTTCATG
1 ATAATGGGTTAGGTAAATGTTCCATG
23538543 AT
1 AT
23538545 GGGCATTTCA
Statistics
Matches: 74, Mismatches: 6, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
26 74 1.00
ACGTcount: A:0.33, C:0.07, G:0.24, T:0.37
Consensus pattern (26 bp):
ATAATGGGTTAGGTAAATGTTCCATG
Found at i:23541252 original size:43 final size:43
Alignment explanation
Indices: 23541204--23541389 Score: 237
Period size: 43 Copynumber: 4.3 Consensus size: 43
23541194 TTATTTGAAA
* * * *
23541204 AAACACCGCTAAAGGTCATGACCTTTAGCGGCGCTTTTTCCAC
1 AAACGCCGCTAAAGGTCATGGCCTTTAGCGGCACTTTTCCCAC
* * * *
23541247 AAACACCGCTAAAGGTCATGGCCTTTAGCGACGCTTTTTACCAC
1 AAACGCCGCTAAAGGTCATGGCCTTTAGCGGCAC-TTTTCCCAC
* * *
23541291 AAACGCCGCTAAAGATTATGGCCTTTAGCGGCACATTTCCCAC
1 AAACGCCGCTAAAGGTCATGGCCTTTAGCGGCACTTTTCCCAC
* * *
23541334 AAACGCCGCTAAAAGTCATGGCCTTCAGTGGCACTTTTCCCAC
1 AAACGCCGCTAAAGGTCATGGCCTTTAGCGGCACTTTTCCCAC
23541377 AAACGCCGCTAAA
1 AAACGCCGCTAAA
23541390 AGTAATGAAA
Statistics
Matches: 126, Mismatches: 16, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
43 89 0.71
44 37 0.29
ACGTcount: A:0.28, C:0.31, G:0.18, T:0.23
Consensus pattern (43 bp):
AAACGCCGCTAAAGGTCATGGCCTTTAGCGGCACTTTTCCCAC
Found at i:23541355 original size:87 final size:86
Alignment explanation
Indices: 23541204--23541389 Score: 237
Period size: 87 Copynumber: 2.2 Consensus size: 86
23541194 TTATTTGAAA
* * * * * *
23541204 AAACACCGCTAAAGGTCATGACCTTTAGCGGCGCTTTTTCCACAAACACCGCTAAAGGTCATGGC
1 AAACGCCGCTAAAGATCATGACCTTTAGCGGCACATTTCCCACAAACACCGCTAAAAGTCATGGC
* *
23541269 CTTTAGCGACGCTTTTTACCAC
66 CTTCAGCGACAC-TTTTACCAC
* * *
23541291 AAACGCCGCTAAAGATTATGGCCTTTAGCGGCACATTTCCCACAAACGCCGCTAAAAGTCATGGC
1 AAACGCCGCTAAAGATCATGACCTTTAGCGGCACATTTCCCACAAACACCGCTAAAAGTCATGGC
* * *
23541356 CTTCAGTGGCACTTTTCCCAC
66 CTTCAGCGACACTTTTACCAC
23541377 AAACGCCGCTAAA
1 AAACGCCGCTAAA
23541390 AGTAATGAAA
Statistics
Matches: 85, Mismatches: 14, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
86 21 0.25
87 64 0.75
ACGTcount: A:0.28, C:0.31, G:0.18, T:0.23
Consensus pattern (86 bp):
AAACGCCGCTAAAGATCATGACCTTTAGCGGCACATTTCCCACAAACACCGCTAAAAGTCATGGC
CTTCAGCGACACTTTTACCAC
Found at i:23541427 original size:22 final size:23
Alignment explanation
Indices: 23541397--23541439 Score: 70
Period size: 22 Copynumber: 1.9 Consensus size: 23
23541387 AAAAGTAATG
*
23541397 AAATTTAAAAAAAA-TAAAATAA
1 AAATATAAAAAAAATTAAAATAA
23541419 AAATATAAAAAAAATTAAAAT
1 AAATATAAAAAAAATTAAAAT
23541440 TCATTATCAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
22 13 0.68
23 6 0.32
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (23 bp):
AAATATAAAAAAAATTAAAATAA
Found at i:23541564 original size:19 final size:19
Alignment explanation
Indices: 23541519--23541565 Score: 51
Period size: 19 Copynumber: 2.5 Consensus size: 19
23541509 ATCAAATTAA
*
23541519 AATAAAAATAAAAATATAG
1 AATAAAAATAAAAATAAAG
* *
23541538 AATCAAAACT-AAAATAAAT
1 AAT-AAAAATAAAAATAAAG
23541557 AATAAAAAT
1 AATAAAAAT
23541566 TAGATTAAAT
Statistics
Matches: 23, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
18 5 0.22
19 13 0.57
20 5 0.22
ACGTcount: A:0.72, C:0.04, G:0.02, T:0.21
Consensus pattern (19 bp):
AATAAAAATAAAAATAAAG
Found at i:23546443 original size:17 final size:18
Alignment explanation
Indices: 23546410--23546443 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
23546400 TCTCTCTTAA
23546410 ATAATTTAAACTATATTG
1 ATAATTTAAACTATATTG
*
23546428 ATAATTTTAA-TATATT
1 ATAATTTAAACTATATT
23546444 AAAACAAATA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.44, C:0.03, G:0.03, T:0.50
Consensus pattern (18 bp):
ATAATTTAAACTATATTG
Found at i:23547528 original size:24 final size:24
Alignment explanation
Indices: 23547485--23547549 Score: 57
Period size: 23 Copynumber: 2.8 Consensus size: 24
23547475 AGGGGTTATA
23547485 GTTTAGG-GTTTAAGAT-TTTTTAAG
1 GTTTAGGAGTTT-AG-TGTTTTTAAG
23547509 GTTTAGGAGTTTAGTG-TTTTAAG
1 GTTTAGGAGTTTAGTGTTTTTAAG
* * *
23547532 GATTA-TAGATTAGTGTTT
1 GTTTAGGAGTTTAGTGTTT
23547550 ATGATTTTTT
Statistics
Matches: 35, Mismatches: 3, Indels: 7
0.78 0.07 0.16
Matches are distributed among these distances:
22 8 0.23
23 14 0.40
24 9 0.26
25 4 0.11
ACGTcount: A:0.25, C:0.00, G:0.26, T:0.49
Consensus pattern (24 bp):
GTTTAGGAGTTTAGTGTTTTTAAG
Found at i:23547728 original size:83 final size:83
Alignment explanation
Indices: 23547590--23547879 Score: 412
Period size: 83 Copynumber: 3.5 Consensus size: 83
23547580 GTTATATGAC
** * * *
23547590 TTTTAGCGGCGTTTTA-CGGAAAGCGCCCCTAATGCT-TCGGTTTTTAGCGGCGTTTTACCAATA
1 TTTTAGCGGCGTTTTACCAAAAAGCGCCGCTAATGCTCT-AGTTTTTAGCGGCGTTTTACCAAAA
23547653 GCGCCGCTAATGCTCTGGT
65 GCGCCGCTAATGCTCTGGT
* * *
23547672 TTTTAGCAGCGTTTTACCAAAAAGCGCCGCGAATGCTCTAGTTTTTTGCGGCGTTTTACCAAAAG
1 TTTTAGCGGCGTTTTACCAAAAAGCGCCGCTAATGCTCTAGTTTTTAGCGGCGTTTTACCAAAAG
*
23547737 TGCCGCTAATGCTCTGGT
66 CGCCGCTAATGCTCTGGT
*
23547755 TTTTAGCGGCGTTTTACC-AAAAGCGCCGCTATTGCTCT-GTTTTTAGCGGCGTTTTACCAAAAG
1 TTTTAGCGGCGTTTTACCAAAAAGCGCCGCTAATGCTCTAGTTTTTAGCGGCGTTTTACCAAAAG
*
23547818 CGCCGCTATTGCTCT-GT
66 CGCCGCTAATGCTCTGGT
*
23547835 TTTTAGCGGCGTTTTACCAAAAA-CGCCGCTATTGCTCTATGTTTT
1 TTTTAGCGGCGTTTTACCAAAAAGCGCCGCTAATGCTCTA-GTTTT
23547880 ACAATTTTTG
Statistics
Matches: 188, Mismatches: 15, Indels: 10
0.88 0.07 0.05
Matches are distributed among these distances:
80 35 0.19
81 41 0.22
82 38 0.20
83 73 0.39
84 1 0.01
ACGTcount: A:0.19, C:0.24, G:0.23, T:0.34
Consensus pattern (83 bp):
TTTTAGCGGCGTTTTACCAAAAAGCGCCGCTAATGCTCTAGTTTTTAGCGGCGTTTTACCAAAAG
CGCCGCTAATGCTCTGGT
Found at i:23547797 original size:40 final size:41
Alignment explanation
Indices: 23547590--23547872 Score: 410
Period size: 41 Copynumber: 6.9 Consensus size: 41
23547580 GTTATATGAC
** *
23547590 TTTTAGCGGCGTTTTACGGAAAGCGCCCCTAATGCT-TCGGT
1 TTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCT-GGT
*
23547631 TTTTAGCGGCGTTTTACCAATAGCGCCGCTAATGCTCTGGT
1 TTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCTGGT
* * *
23547672 TTTTAGCAGCGTTTTACCAAAAAGCGCCGCGAATGCTCTAGT
1 TTTTAGCGGCGTTTTACC-AAAAGCGCCGCTAATGCTCTGGT
* *
23547714 TTTTTGCGGCGTTTTACCAAAAGTGCCGCTAATGCTCTGGT
1 TTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCTGGT
*
23547755 TTTTAGCGGCGTTTTACCAAAAGCGCCGCTATTGCTCT-GT
1 TTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCTGGT
*
23547795 TTTTAGCGGCGTTTTACCAAAAGCGCCGCTATTGCTCT-GT
1 TTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCTGGT
* *
23547835 TTTTAGCGGCGTTTTACCAAAAACGCCGCTATTGCTCT
1 TTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCT
23547873 ATGTTTTACA
Statistics
Matches: 223, Mismatches: 17, Indels: 5
0.91 0.07 0.02
Matches are distributed among these distances:
40 79 0.35
41 107 0.48
42 37 0.17
ACGTcount: A:0.19, C:0.24, G:0.23, T:0.34
Consensus pattern (41 bp):
TTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCTGGT
Found at i:23548344 original size:29 final size:31
Alignment explanation
Indices: 23548299--23548363 Score: 80
Period size: 31 Copynumber: 2.2 Consensus size: 31
23548289 ATAGTTCAGA
*
23548299 TACCACATTGAACA-TTT-TCAAAGTATAAG
1 TACCACATTGAACATTTTATCAAAGTACAAG
* * *
23548328 TACCACATTGGAGATTTTATGAAAGTACAAG
1 TACCACATTGAACATTTTATCAAAGTACAAG
23548359 TACCA
1 TACCA
23548364 AATAATATAC
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
29 12 0.40
30 3 0.10
31 15 0.50
ACGTcount: A:0.40, C:0.17, G:0.14, T:0.29
Consensus pattern (31 bp):
TACCACATTGAACATTTTATCAAAGTACAAG
Found at i:23548428 original size:62 final size:62
Alignment explanation
Indices: 23548327--23548469 Score: 189
Period size: 62 Copynumber: 2.3 Consensus size: 62
23548317 CAAAGTATAA
* * *
23548327 GTACCACATTGGAGATTTTATGAAAGTACAAGTACCAAATAATATACAAATT-AGTAGTTTAG
1 GTACCACATTGGACATTTTATGAAAATACAAGTACCAAATAATACACAAATTGA-TAGTTTAG
* * ** **
23548389 GTACCACATTGGATATTTTATGAAAATATAAGTTTCAAATAATACATTAATTGATAGTTTAG
1 GTACCACATTGGACATTTTATGAAAATACAAGTACCAAATAATACACAAATTGATAGTTTAG
23548451 GTACCACATTGGACATTTT
1 GTACCACATTGGACATTTT
23548470 CAAGTACAAG
Statistics
Matches: 71, Mismatches: 9, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
62 70 0.99
63 1 0.01
ACGTcount: A:0.39, C:0.11, G:0.15, T:0.35
Consensus pattern (62 bp):
GTACCACATTGGACATTTTATGAAAATACAAGTACCAAATAATACACAAATTGATAGTTTAG
Found at i:23549006 original size:13 final size:13
Alignment explanation
Indices: 23548964--23549024 Score: 58
Period size: 13 Copynumber: 4.8 Consensus size: 13
23548954 TCTATAATTC
23548964 AATTATTAAATAA
1 AATTATTAAATAA
*
23548977 AACTTTGTTCAAA-AA
1 AA--TTATT-AAATAA
23548992 AATTATTAAATAA
1 AATTATTAAATAA
23549005 AATTATT--ATAA
1 AATTATTAAATAA
23549016 AA-TATTAAA
1 AATTATTAAA
23549025 ATTTTCTTTT
Statistics
Matches: 40, Mismatches: 2, Indels: 13
0.73 0.04 0.24
Matches are distributed among these distances:
10 4 0.10
11 6 0.15
12 4 0.10
13 15 0.38
15 8 0.20
16 3 0.08
ACGTcount: A:0.57, C:0.03, G:0.02, T:0.38
Consensus pattern (13 bp):
AATTATTAAATAA
Found at i:23552039 original size:20 final size:20
Alignment explanation
Indices: 23552016--23552082 Score: 64
Period size: 20 Copynumber: 3.3 Consensus size: 20
23552006 TTAAAGGGGC
23552016 TTTTTAATGCATTTTATAATT
1 TTTTTAATG-ATTTTATAATT
* *
23552037 TTTTTTATGATTTTATAA-A
1 TTTTTAATGATTTTATAATT
* **
23552056 ATTTTACAAAATTTTATAATT
1 TTTTTA-ATGATTTTATAATT
23552077 TTTTTA
1 TTTTTA
23552083 CGATTTTTAT
Statistics
Matches: 36, Mismatches: 8, Indels: 4
0.75 0.17 0.08
Matches are distributed among these distances:
19 4 0.11
20 19 0.53
21 13 0.36
ACGTcount: A:0.33, C:0.03, G:0.03, T:0.61
Consensus pattern (20 bp):
TTTTTAATGATTTTATAATT
Found at i:23552090 original size:20 final size:19
Alignment explanation
Indices: 23552026--23552094 Score: 59
Period size: 20 Copynumber: 3.5 Consensus size: 19
23552016 TTTTTAATGC
*
23552026 ATTTTATAATTTTTTTTATG
1 ATTTTATAA-TTTTTTTACG
** *
23552046 ATTTTATAA-AATTTTACAAA
1 ATTTTATAATTTTTTTAC--G
23552066 ATTTTATAATTTTTTTACG
1 ATTTTATAATTTTTTTACG
23552085 ATTTTTATAA
1 A-TTTTATAA
23552095 AAAAATTCCT
Statistics
Matches: 38, Mismatches: 7, Indels: 8
0.72 0.13 0.15
Matches are distributed among these distances:
18 5 0.13
19 1 0.03
20 26 0.68
21 6 0.16
ACGTcount: A:0.35, C:0.03, G:0.03, T:0.59
Consensus pattern (19 bp):
ATTTTATAATTTTTTTACG
Found at i:23552508 original size:3 final size:3
Alignment explanation
Indices: 23552500--23552554 Score: 110
Period size: 3 Copynumber: 18.3 Consensus size: 3
23552490 ACCCTTAAGC
23552500 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
23552548 ATA ATA A
1 ATA ATA A
23552555 ATCACAAGTT
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 52 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:23552764 original size:20 final size:20
Alignment explanation
Indices: 23552741--23552807 Score: 57
Period size: 20 Copynumber: 3.2 Consensus size: 20
23552731 ATATTTATTG
23552741 TATTAATTTTAAAATTGAGT
1 TATTAATTTTAAAATTGAGT
* * *
23552761 TATTACTTAAATAAAACTCT-TG-
1 TATTAATT--TTAAAA-T-TGAGT
23552783 TATTAATTTTAAAATTGAGT
1 TATTAATTTTAAAATTGAGT
23552803 TATTA
1 TATTA
23552808 CTTAAATAAA
Statistics
Matches: 35, Mismatches: 6, Indels: 12
0.66 0.11 0.23
Matches are distributed among these distances:
18 1 0.03
19 2 0.06
20 17 0.49
22 12 0.34
23 2 0.06
24 1 0.03
ACGTcount: A:0.40, C:0.04, G:0.07, T:0.48
Consensus pattern (20 bp):
TATTAATTTTAAAATTGAGT
Done.