Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D08
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: 65987480
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 223646 characters in sequence are not A, C, G, or T
File 20 of 211
Found at i:6258029 original size:22 final size:20
Alignment explanation
Indices: 6257995--6258051 Score: 69
Period size: 22 Copynumber: 2.8 Consensus size: 20
6257985 AAACTCTAAA
*
6257995 TTTTAAAATTTTTTATGAATT
1 TTTTAATATTTTTTATG-ATT
*
6258016 TTGTTTATATTTTTTATGATT
1 TT-TTAATATTTTTTATGATT
*
6258037 TTTTAATAATTTTTA
1 TTTTAATATTTTTTA
6258052 AACTTTAACA
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
20 11 0.35
21 7 0.23
22 13 0.42
ACGTcount: A:0.28, C:0.00, G:0.05, T:0.67
Consensus pattern (20 bp):
TTTTAATATTTTTTATGATT
Found at i:6258590 original size:15 final size:15
Alignment explanation
Indices: 6258557--6258591 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
6258547 TTTAATGATA
* *
6258557 AAAAATAAAAATTAT
1 AAAAATAAAAATGAC
6258572 AAAAATAAAAATGAC
1 AAAAATAAAAATGAC
6258587 AAAAA
1 AAAAA
6258592 AAGATAAATG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.77, C:0.03, G:0.03, T:0.17
Consensus pattern (15 bp):
AAAAATAAAAATGAC
Found at i:6258591 original size:16 final size:15
Alignment explanation
Indices: 6258550--6258605 Score: 51
Period size: 15 Copynumber: 3.5 Consensus size: 15
6258540 ACATTTCTTT
6258550 AATGATAAAAAATAAA
1 AATGA-AAAAAATAAA
* *
6258566 AATTATAAAAATAAA
1 AATGAAAAAAATAAA
6258581 AATGACAAAAAA-AGATA
1 AATGA-AAAAAATA-A-A
6258598 AATGAAAA
1 AATGAAAA
6258606 GAATTTAGTT
Statistics
Matches: 33, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
15 14 0.42
16 13 0.39
17 6 0.18
ACGTcount: A:0.73, C:0.02, G:0.07, T:0.18
Consensus pattern (15 bp):
AATGAAAAAAATAAA
Found at i:6259581 original size:16 final size:17
Alignment explanation
Indices: 6259560--6259598 Score: 53
Period size: 17 Copynumber: 2.4 Consensus size: 17
6259550 AAAAAATTAT
*
6259560 TTAAAAT-TTAAAATAA
1 TTAAAATATAAAAATAA
*
6259576 TTAAAATATAAAAATTA
1 TTAAAATATAAAAATAA
6259593 TTAAAA
1 TTAAAA
6259599 AATTGCAAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
16 7 0.35
17 13 0.65
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (17 bp):
TTAAAATATAAAAATAA
Found at i:6259700 original size:9 final size:9
Alignment explanation
Indices: 6259541--6259700 Score: 53
Period size: 10 Copynumber: 17.3 Consensus size: 9
6259531 AAGAGTAATT
6259541 AAAAATTGTA
1 AAAAATT-TA
*
6259551 AAAAATTATT
1 AAAAATT-TA
*
6259561 TAAAATTTA
1 AAAAATTTA
6259570 AAATAA-TT-
1 AAA-AATTTA
*
6259578 -AAAATATA
1 AAAAATTTA
*
6259586 AAAATTATTA
1 AAAAAT-TTA
*
6259596 AAAAA-TTG
1 AAAAATTTA
* *
6259604 CAAAATTGTT
1 AAAAATT-TA
6259614 AAAAATTATA
1 AAAAATT-TA
6259624 AAAATATTTA
1 AAAA-ATTTA
****
6259634 ATTTTTTTA
1 AAAAATTTA
6259643 AAAAATCATT-
1 AAAAAT--TTA
*
6259653 AAAAATTTG
1 AAAAATTTA
6259662 AAAAA-TTA
1 AAAAATTTA
**
6259670 TGAAATTTA
1 AAAAATTTA
6259679 AAAAATTTTA
1 AAAAA-TTTA
*
6259689 AAAAATTCA
1 AAAAATTTA
6259698 AAA
1 AAA
6259701 TTATCAACCA
Statistics
Matches: 108, Mismatches: 29, Indels: 27
0.66 0.18 0.16
Matches are distributed among these distances:
6 2 0.02
7 3 0.03
8 13 0.12
9 33 0.31
10 52 0.48
11 5 0.05
ACGTcount: A:0.59, C:0.02, G:0.03, T:0.36
Consensus pattern (9 bp):
AAAAATTTA
Found at i:6260186 original size:40 final size:40
Alignment explanation
Indices: 6260140--6260225 Score: 127
Period size: 40 Copynumber: 2.1 Consensus size: 40
6260130 AAAAATAATA
* ** *
6260140 TTTAATACAATAAAATATTTATTATATTTATTTTTGTGTT
1 TTTAATACAATAAAACATTTATTATATTTATGATAGTGTT
*
6260180 TTTAATATAATAAAACATTTATTATATTTATGATAGTGTT
1 TTTAATACAATAAAACATTTATTATATTTATGATAGTGTT
6260220 TTTAAT
1 TTTAAT
6260226 GTATTTTTAA
Statistics
Matches: 41, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
40 41 1.00
ACGTcount: A:0.37, C:0.02, G:0.06, T:0.55
Consensus pattern (40 bp):
TTTAATACAATAAAACATTTATTATATTTATGATAGTGTT
Found at i:6261765 original size:16 final size:16
Alignment explanation
Indices: 6261744--6261777 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
6261734 AATTTAGTTG
6261744 AAGTATAAACATGTAT
1 AAGTATAAACATGTAT
*
6261760 AAGTATATACATGTAT
1 AAGTATAAACATGTAT
6261776 AA
1 AA
6261778 ATTATTAGAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.50, C:0.06, G:0.12, T:0.32
Consensus pattern (16 bp):
AAGTATAAACATGTAT
Found at i:6262484 original size:41 final size:40
Alignment explanation
Indices: 6262427--6262533 Score: 162
Period size: 41 Copynumber: 2.6 Consensus size: 40
6262417 AATAAGATGT
* *
6262427 TTCAGACTTTACGTCTAGCAGGCTTGA-TGCCGGTGAATTA
1 TTCAGACTTTATGTCTAGCAGGCTT-ACTGCCGGTGAAATA
6262467 CTTCAGACTTTATGTCTAGCAGGCTTACTGCCGGTGAAATA
1 -TTCAGACTTTATGTCTAGCAGGCTTACTGCCGGTGAAATA
6262508 TATCAGACTTTATGTCTAGCAGGCTT
1 T-TCAGACTTTATGTCTAGCAGGCTT
6262534 TGTGCCTAGC
Statistics
Matches: 62, Mismatches: 2, Indels: 4
0.91 0.03 0.06
Matches are distributed among these distances:
40 2 0.03
41 60 0.97
ACGTcount: A:0.23, C:0.21, G:0.22, T:0.34
Consensus pattern (40 bp):
TTCAGACTTTATGTCTAGCAGGCTTACTGCCGGTGAAATA
Found at i:6262542 original size:16 final size:16
Alignment explanation
Indices: 6262515--6262555 Score: 64
Period size: 16 Copynumber: 2.6 Consensus size: 16
6262505 ATATATCAGA
*
6262515 CTTTATGTCTAGCAGG
1 CTTTATGCCTAGCAGG
*
6262531 CTTTGTGCCTAGCAGG
1 CTTTATGCCTAGCAGG
6262547 CTTTATGCC
1 CTTTATGCC
6262556 GGTGTTTTAT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.15, C:0.24, G:0.24, T:0.37
Consensus pattern (16 bp):
CTTTATGCCTAGCAGG
Found at i:6265074 original size:28 final size:28
Alignment explanation
Indices: 6265042--6265113 Score: 78
Period size: 26 Copynumber: 2.7 Consensus size: 28
6265032 TTCCATTTTT
* *
6265042 TCCTTGTTCTAATTTTTTTATTTGTTTG
1 TCCTTATTCTAATTTTTTAATTTGTTTG
* *
6265070 TCCTTTTTCT--TTTTTTAATTTGTTTT
1 TCCTTATTCTAATTTTTTAATTTGTTTG
*
6265096 TCTTTATT-TAATTTTTTA
1 TCCTTATTCTAATTTTTTA
6265114 CTTTTTTATT
Statistics
Matches: 37, Mismatches: 5, Indels: 5
0.79 0.11 0.11
Matches are distributed among these distances:
25 1 0.03
26 20 0.54
27 7 0.19
28 9 0.24
ACGTcount: A:0.12, C:0.10, G:0.06, T:0.72
Consensus pattern (28 bp):
TCCTTATTCTAATTTTTTAATTTGTTTG
Found at i:6265095 original size:19 final size:19
Alignment explanation
Indices: 6265073--6265130 Score: 66
Period size: 19 Copynumber: 3.1 Consensus size: 19
6265063 TTGTTTGTCC
*
6265073 TTTTTCTTTTTTTAATTTG
1 TTTTTCTTTATTTAATTTG
6265092 TTTTTCTTTATTTAATTT-
1 TTTTTCTTTATTTAATTTG
*
6265110 TTTACTTTTTTATTT-ATTTG
1 TTT--TTCTTTATTTAATTTG
6265130 T
1 T
6265131 CCTTTATTAT
Statistics
Matches: 34, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
18 3 0.09
19 21 0.62
20 10 0.29
ACGTcount: A:0.14, C:0.05, G:0.03, T:0.78
Consensus pattern (19 bp):
TTTTTCTTTATTTAATTTG
Found at i:6265157 original size:10 final size:10
Alignment explanation
Indices: 6265142--6265186 Score: 56
Period size: 10 Copynumber: 4.4 Consensus size: 10
6265132 CTTTATTATT
6265142 TATTTTATAA
1 TATTTTATAA
6265152 TATTTTAATATA
1 TATTTT-ATA-A
6265164 TATTTTA-AA
1 TATTTTATAA
*
6265173 TGTTTTATAA
1 TATTTTATAA
6265183 TATT
1 TATT
6265187 ATTTTTTAAA
Statistics
Matches: 30, Mismatches: 2, Indels: 6
0.79 0.05 0.16
Matches are distributed among these distances:
9 7 0.23
10 12 0.40
11 4 0.13
12 7 0.23
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.60
Consensus pattern (10 bp):
TATTTTATAA
Found at i:6265158 original size:22 final size:22
Alignment explanation
Indices: 6265133--6265227 Score: 68
Period size: 22 Copynumber: 4.2 Consensus size: 22
6265123 TTATTTGTCC
6265133 TTTATTATTTATTTTATAATAT
1 TTTATTATTTATTTTATAATAT
* * *
6265155 TTTAATATATATTTTA-AATGT
1 TTTATTATTTATTTTATAATAT
* * *
6265176 TTTATAATATTATTTTTTAAAAAT
1 TTTATTAT-TTATTTTAT-AATAT
*
6265200 TTTAAATTA-TTATTTTTTTAATAT
1 TTT--ATTATTTA-TTTTATAATAT
6265224 TTTA
1 TTTA
6265228 AAACATTTAA
Statistics
Matches: 56, Mismatches: 11, Indels: 12
0.71 0.14 0.15
Matches are distributed among these distances:
21 10 0.18
22 21 0.38
24 16 0.29
25 6 0.11
26 3 0.05
ACGTcount: A:0.36, C:0.00, G:0.01, T:0.63
Consensus pattern (22 bp):
TTTATTATTTATTTTATAATAT
Found at i:6265215 original size:24 final size:23
Alignment explanation
Indices: 6265135--6265229 Score: 95
Period size: 24 Copynumber: 4.0 Consensus size: 23
6265125 ATTTGTCCTT
6265135 TATTATTTATTTTATAATATTTT-AA
1 TATTA-TT-TTTTA-AATATTTTAAA
* *
6265160 TA-TATATTTTAAATGTTTTATAA
1 TATTATTTTTTAAATATTTTA-AA
*
6265183 TATTATTTTTTAAAAATTTTAAA
1 TATTATTTTTTAAATATTTTAAA
*
6265206 TTATTATTTTTTTAATATTTTAAA
1 -TATTATTTTTTAAATATTTTAAA
6265230 ACATTTAAAA
Statistics
Matches: 59, Mismatches: 7, Indels: 9
0.79 0.09 0.12
Matches are distributed among these distances:
21 7 0.12
22 5 0.08
23 7 0.12
24 38 0.64
25 2 0.03
ACGTcount: A:0.38, C:0.00, G:0.01, T:0.61
Consensus pattern (23 bp):
TATTATTTTTTAAATATTTTAAA
Found at i:6265329 original size:21 final size:21
Alignment explanation
Indices: 6265279--6265353 Score: 66
Period size: 22 Copynumber: 3.5 Consensus size: 21
6265269 AATTTATTAT
*
6265279 TTATTTTATAATATTTTAAATC
1 TTATTTTA-AAAATTTTAAATC
6265301 TATATTTTAAAAATTTTAAA-C
1 T-TATTTTAAAAATTTTAAATC
* *
6265322 ATTATTTTTTAAAATTTTGAAT-
1 -TTA-TTTTAAAAATTTTAAATC
6265344 TT-TTTTAAAA
1 TTATTTTAAAA
6265354 TTTATTTTTA
Statistics
Matches: 45, Mismatches: 4, Indels: 11
0.75 0.07 0.18
Matches are distributed among these distances:
19 7 0.16
21 5 0.11
22 26 0.58
23 7 0.16
ACGTcount: A:0.40, C:0.03, G:0.01, T:0.56
Consensus pattern (21 bp):
TTATTTTAAAAATTTTAAATC
Found at i:6267359 original size:15 final size:13
Alignment explanation
Indices: 6267325--6267350 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
6267315 ACATAGGTAA
6267325 AAATATTGTATTT
1 AAATATTGTATTT
6267338 AAATATTGTATTT
1 AAATATTGTATTT
6267351 GTAAATATTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.00, G:0.08, T:0.54
Consensus pattern (13 bp):
AAATATTGTATTT
Found at i:6271541 original size:18 final size:19
Alignment explanation
Indices: 6271520--6271563 Score: 72
Period size: 18 Copynumber: 2.4 Consensus size: 19
6271510 AAGCCAAAGT
6271520 TTTTTTAACAAATAAATC-
1 TTTTTTAACAAATAAATCA
*
6271538 TTTTTTAACAAATAATTCA
1 TTTTTTAACAAATAAATCA
6271557 TTTTTTA
1 TTTTTTA
6271564 TTTTTTCCAA
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
18 17 0.71
19 7 0.29
ACGTcount: A:0.39, C:0.09, G:0.00, T:0.52
Consensus pattern (19 bp):
TTTTTTAACAAATAAATCA
Found at i:6271854 original size:24 final size:24
Alignment explanation
Indices: 6271803--6271892 Score: 84
Period size: 24 Copynumber: 3.8 Consensus size: 24
6271793 AAAATATTAT
6271803 AAGACAAAT-AA-AAAAACAGAAA
1 AAGACAAATAAATAAAAACAGAAA
6271825 AA-ACAAATAAATAAAAAC-GAAA
1 AAGACAAATAAATAAAAACAGAAA
*
6271847 AAGGACAAACAAATAAAAAATCAGAAA
1 AA-GACAAATAAAT-AAAAA-CAGAAA
*
6271874 AAG-GAAA-AAATGAAAAACA
1 AAGACAAATAAAT-AAAAACA
6271893 AATAAAAAAA
Statistics
Matches: 58, Mismatches: 3, Indels: 13
0.78 0.04 0.18
Matches are distributed among these distances:
21 6 0.10
22 10 0.17
23 8 0.14
24 18 0.31
25 8 0.14
26 2 0.03
27 6 0.10
ACGTcount: A:0.74, C:0.09, G:0.10, T:0.07
Consensus pattern (24 bp):
AAGACAAATAAATAAAAACAGAAA
Found at i:6275299 original size:23 final size:23
Alignment explanation
Indices: 6275273--6275394 Score: 181
Period size: 23 Copynumber: 5.3 Consensus size: 23
6275263 ATAAGTGCCA
6275273 CACTGATATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
* *
6275296 CACTGATACGTAGCCGTAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
*
6275319 CACTGAAATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
*
6275342 CACTGATATGTAGCCGTAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
* * *
6275365 CACTGAAATTTAGTCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
6275388 CACTGAT
1 CACTGAT
6275395 CAATAACACT
Statistics
Matches: 87, Mismatches: 12, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 87 1.00
ACGTcount: A:0.30, C:0.26, G:0.20, T:0.23
Consensus pattern (23 bp):
CACTGATATGTAGCCGAAGCTAC
Found at i:6275340 original size:46 final size:46
Alignment explanation
Indices: 6275273--6275394 Score: 208
Period size: 46 Copynumber: 2.7 Consensus size: 46
6275263 ATAAGTGCCA
*
6275273 CACTGATATGTAGCCGAAGCTACCACTGATACGTAGCCGTAGCTAC
1 CACTGAAATGTAGCCGAAGCTACCACTGATACGTAGCCGTAGCTAC
*
6275319 CACTGAAATGTAGCCGAAGCTACCACTGATATGTAGCCGTAGCTAC
1 CACTGAAATGTAGCCGAAGCTACCACTGATACGTAGCCGTAGCTAC
* *
6275365 CACTGAAATTTAGTCGAAGCTACCACTGAT
1 CACTGAAATGTAGCCGAAGCTACCACTGAT
6275395 CAATAACACT
Statistics
Matches: 72, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
46 72 1.00
ACGTcount: A:0.30, C:0.26, G:0.20, T:0.23
Consensus pattern (46 bp):
CACTGAAATGTAGCCGAAGCTACCACTGATACGTAGCCGTAGCTAC
Found at i:6284242 original size:144 final size:145
Alignment explanation
Indices: 6284056--6284326 Score: 481
Period size: 144 Copynumber: 1.9 Consensus size: 145
6284046 AAAGTTATTA
* *
6284056 TTAAAGTTTCGTTAAGAAAATTTAAAGTACCGATAATTAATTGAACAAAAAGGACTAAATTGTAA
1 TTAAAATTTCATTAAG-AAATTTAAAGTACCGATAATTAATTGAACAAAAAGGACTAAATTGTAA
6284121 TAAATGCAAAATTATGGGAAATGATTAAATAGCTTAAATGATAAAAGGAAGAGGGATTAAAAACT
65 TAAATGCAAAATTATGGGAAATGATTAAATAGCTTAAATGATAAAAGGAAGAGGGATTAAAAACT
6284186 GTATAAACCAGAGGGC
130 GTATAAACCAGAGGGC
*
6284202 TTAAAATTTCATTAAG-AATTTAAAGTTCCGATAATTAATTGAACAAAAAGGACTAAATTGTAAT
1 TTAAAATTTCATTAAGAAATTTAAAGTACCGATAATTAATTGAACAAAAAGGACTAAATTGTAAT
* *
6284266 AAATGTAAAATTATGGGAAATGATTAAATAGCTTAAATGATAAAAGGAAGAGGGCTTAAAA
66 AAATGCAAAATTATGGGAAATGATTAAATAGCTTAAATGATAAAAGGAAGAGGGATTAAAA
6284327 GGAAAATAGA
Statistics
Matches: 120, Mismatches: 5, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
144 106 0.88
146 14 0.12
ACGTcount: A:0.48, C:0.07, G:0.17, T:0.28
Consensus pattern (145 bp):
TTAAAATTTCATTAAGAAATTTAAAGTACCGATAATTAATTGAACAAAAAGGACTAAATTGTAAT
AAATGCAAAATTATGGGAAATGATTAAATAGCTTAAATGATAAAAGGAAGAGGGATTAAAAACTG
TATAAACCAGAGGGC
Found at i:6286408 original size:44 final size:44
Alignment explanation
Indices: 6286345--6286503 Score: 237
Period size: 44 Copynumber: 3.5 Consensus size: 44
6286335 AGTACTTCTA
6286345 ATCAGTGACAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTG
1 ATCAGTGACAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTG
6286389 ATCAGTGACAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTG
1 ATCAGTGACAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTG
6286433 ATCAGTGACAAGTAACAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTG
1 ATCAGT-----G--ACAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTG
* *
6286484 ATCAGGGACAAGTGACAAGT
1 ATCAGTGACAAGTGATAAGT
6286504 TATAAATGTG
Statistics
Matches: 106, Mismatches: 2, Indels: 14
0.87 0.02 0.11
Matches are distributed among these distances:
44 62 0.58
46 1 0.01
49 1 0.01
51 42 0.40
ACGTcount: A:0.32, C:0.16, G:0.23, T:0.29
Consensus pattern (44 bp):
ATCAGTGACAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTG
Found at i:6286451 original size:51 final size:51
Alignment explanation
Indices: 6286396--6286508 Score: 199
Period size: 51 Copynumber: 2.2 Consensus size: 51
6286386 CTGATCAGTG
*
6286396 ACAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAGTGACAAGTA
1 ACAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAGGGACAAGTA
*
6286447 ACAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAGGGACAAGTG
1 ACAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAGGGACAAGTA
*
6286498 ACAAGTTATAA
1 ACAAGTGATAA
6286509 ATGTGATCCG
Statistics
Matches: 59, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
51 59 1.00
ACGTcount: A:0.35, C:0.15, G:0.22, T:0.28
Consensus pattern (51 bp):
ACAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAGGGACAAGTA
Found at i:6287573 original size:14 final size:14
Alignment explanation
Indices: 6287562--6287590 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
6287552 ATAAAATGTT
6287562 TTCC-GGAAAATGA
1 TTCCTGGAAAATGA
6287575 TTCCTGGAAAATGA
1 TTCCTGGAAAATGA
6287589 TT
1 TT
6287591 TACTTTTCTG
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 4 0.27
14 11 0.73
ACGTcount: A:0.34, C:0.14, G:0.21, T:0.31
Consensus pattern (14 bp):
TTCCTGGAAAATGA
Found at i:6289013 original size:32 final size:32
Alignment explanation
Indices: 6288970--6289052 Score: 112
Period size: 32 Copynumber: 2.6 Consensus size: 32
6288960 TGTCAATCAT
* *
6288970 TTCAATATCCAACAAGCTTAAAGCATAATAGA
1 TTCAATATCCAACAAGCTTAAAACATAATAAA
*
6289002 TTCAATGTCCAACAAGCTTAAAACATAATAAA
1 TTCAATATCCAACAAGCTTAAAACATAATAAA
* **
6289034 TTCAGTATTTAACAAGCTT
1 TTCAATATCCAACAAGCTT
6289053 CAATATCTAA
Statistics
Matches: 44, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
32 44 1.00
ACGTcount: A:0.45, C:0.18, G:0.08, T:0.29
Consensus pattern (32 bp):
TTCAATATCCAACAAGCTTAAAACATAATAAA
Found at i:6292940 original size:17 final size:17
Alignment explanation
Indices: 6292918--6292950 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
6292908 TCATAATGTT
6292918 ATTAAT-TAGTCTAAATG
1 ATTAATATAGT-TAAATG
6292935 ATTAATATAGTTAAAT
1 ATTAATATAGTTAAAT
6292951 TTTTTATTAA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
17 11 0.73
18 4 0.27
ACGTcount: A:0.45, C:0.03, G:0.09, T:0.42
Consensus pattern (17 bp):
ATTAATATAGTTAAATG
Found at i:6293161 original size:42 final size:42
Alignment explanation
Indices: 6293102--6293187 Score: 172
Period size: 42 Copynumber: 2.0 Consensus size: 42
6293092 TAAAACTTGG
6293102 CTTAAATCCATATACTTTAATTTTTGATATAATTTGGTCATT
1 CTTAAATCCATATACTTTAATTTTTGATATAATTTGGTCATT
6293144 CTTAAATCCATATACTTTAATTTTTGATATAATTTGGTCATT
1 CTTAAATCCATATACTTTAATTTTTGATATAATTTGGTCATT
6293186 CT
1 CT
6293188 ACTTCTATAA
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
42 44 1.00
ACGTcount: A:0.30, C:0.13, G:0.07, T:0.50
Consensus pattern (42 bp):
CTTAAATCCATATACTTTAATTTTTGATATAATTTGGTCATT
Found at i:6294840 original size:17 final size:17
Alignment explanation
Indices: 6294818--6294850 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
6294808 AAATTTGATT
6294818 ATTAATCTTTTTAATAC
1 ATTAATCTTTTTAATAC
*
6294835 ATTAATTTTTTTAATA
1 ATTAATCTTTTTAATA
6294851 ATGTTAATGT
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:0.36, C:0.06, G:0.00, T:0.58
Consensus pattern (17 bp):
ATTAATCTTTTTAATAC
Found at i:6294932 original size:18 final size:19
Alignment explanation
Indices: 6294909--6294955 Score: 62
Period size: 19 Copynumber: 2.5 Consensus size: 19
6294899 CTAAAAATTT
6294909 ATAAAATAATATTC-AAAA
1 ATAAAATAATATTCAAAAA
6294927 ATAAAAATAA-ATTCAAAAA
1 AT-AAAATAATATTCAAAAA
*
6294946 ATTAAATAAT
1 ATAAAATAAT
6294956 TAATATATTC
Statistics
Matches: 25, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
18 12 0.48
19 13 0.52
ACGTcount: A:0.68, C:0.04, G:0.00, T:0.28
Consensus pattern (19 bp):
ATAAAATAATATTCAAAAA
Found at i:6296796 original size:30 final size:31
Alignment explanation
Indices: 6296735--6296799 Score: 105
Period size: 31 Copynumber: 2.1 Consensus size: 31
6296725 TTAATATATG
6296735 AATCTAATGGTTATAAGATTTTAAAAAAAAA
1 AATCTAATGGTTATAAGATTTTAAAAAAAAA
*
6296766 AATCTAATGGTTATAAGA-TTTAAATTAAAAA
1 AATCTAATGGTTATAAGATTTTAAA-AAAAAA
6296797 AAT
1 AAT
6296800 TGACCCCTAC
Statistics
Matches: 32, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
30 6 0.19
31 26 0.81
ACGTcount: A:0.54, C:0.03, G:0.09, T:0.34
Consensus pattern (31 bp):
AATCTAATGGTTATAAGATTTTAAAAAAAAA
Found at i:6299765 original size:13 final size:13
Alignment explanation
Indices: 6299747--6299772 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
6299737 GTTTCTGTAA
6299747 TTACAACATTTTT
1 TTACAACATTTTT
6299760 TTACAACATTTTT
1 TTACAACATTTTT
6299773 CTAATGCAGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.00, T:0.54
Consensus pattern (13 bp):
TTACAACATTTTT
Found at i:6308081 original size:15 final size:16
Alignment explanation
Indices: 6308061--6308094 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
6308051 AAAAGCATAG
6308061 CATAAAAA-TATCAAA
1 CATAAAAAGTATCAAA
*
6308076 CATAAAAAGTATCATA
1 CATAAAAAGTATCAAA
6308092 CAT
1 CAT
6308095 TAGTTTTACA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 8 0.47
16 9 0.53
ACGTcount: A:0.59, C:0.15, G:0.03, T:0.24
Consensus pattern (16 bp):
CATAAAAAGTATCAAA
Found at i:6312100 original size:23 final size:22
Alignment explanation
Indices: 6312048--6312100 Score: 56
Period size: 23 Copynumber: 2.4 Consensus size: 22
6312038 TCCACGTCTT
*
6312048 TTTCTTTTGTTTCTTTTTCTAA
1 TTTCTTTTCTTTCTTTTTCTAA
6312070 -TTCATTTTCTCTTCTTTCTTC-AA
1 TTTC-TTTTCT-TTCTTT-TTCTAA
6312093 TTTCTTTT
1 TTTCTTTT
6312101 TCACTCTCAA
Statistics
Matches: 26, Mismatches: 1, Indels: 7
0.76 0.03 0.21
Matches are distributed among these distances:
21 3 0.12
22 5 0.19
23 12 0.46
24 6 0.23
ACGTcount: A:0.09, C:0.19, G:0.02, T:0.70
Consensus pattern (22 bp):
TTTCTTTTCTTTCTTTTTCTAA
Found at i:6314996 original size:12 final size:12
Alignment explanation
Indices: 6314981--6315011 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
6314971 ATGAAAACAT
*
6314981 AAATAAATAAAA
1 AAATAAACAAAA
6314993 AAATAAACAAAA
1 AAATAAACAAAA
6315005 AAATAAA
1 AAATAAA
6315012 GAATAAAGGT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.84, C:0.03, G:0.00, T:0.13
Consensus pattern (12 bp):
AAATAAACAAAA
Found at i:6315364 original size:18 final size:18
Alignment explanation
Indices: 6315336--6315388 Score: 52
Period size: 18 Copynumber: 2.9 Consensus size: 18
6315326 AGTTTGAAAA
*
6315336 AAATAATAATACATATGT
1 AAATAAAAATACATATGT
* * *
6315354 ACATAAAAATATACATGT
1 AAATAAAAATACATATGT
*
6315372 AAATAATAATTACATAT
1 AAATAA-AAATACATAT
6315389 AAAAATTAAA
Statistics
Matches: 26, Mismatches: 8, Indels: 1
0.74 0.23 0.03
Matches are distributed among these distances:
18 19 0.73
19 7 0.27
ACGTcount: A:0.57, C:0.08, G:0.04, T:0.32
Consensus pattern (18 bp):
AAATAAAAATACATATGT
Found at i:6315426 original size:22 final size:22
Alignment explanation
Indices: 6315376--6315420 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 22
6315366 ACATGTAAAT
6315376 AATAATTACATATAAAAATTAA
1 AATAATTACATATAAAAATTAA
* *
6315398 AAAAATTACATTATTAAAATTAA
1 AATAATTACA-TATAAAAATTAA
6315421 TTAATTTTAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
22 9 0.45
23 11 0.55
ACGTcount: A:0.62, C:0.04, G:0.00, T:0.33
Consensus pattern (22 bp):
AATAATTACATATAAAAATTAA
Found at i:6316575 original size:14 final size:14
Alignment explanation
Indices: 6316556--6316582 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
6316546 AAAATATCTG
6316556 CAATACAATTTCTA
1 CAATACAATTTCTA
6316570 CAATACAATTTCT
1 CAATACAATTTCT
6316583 TTATGTTTCT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.41, C:0.22, G:0.00, T:0.37
Consensus pattern (14 bp):
CAATACAATTTCTA
Found at i:6317632 original size:12 final size:12
Alignment explanation
Indices: 6317615--6317639 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
6317605 TGTTGTGATG
6317615 TTGGATCTTGAA
1 TTGGATCTTGAA
6317627 TTGGATCTTGAA
1 TTGGATCTTGAA
6317639 T
1 T
6317640 GTGATGATTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.24, C:0.08, G:0.24, T:0.44
Consensus pattern (12 bp):
TTGGATCTTGAA
Found at i:6317710 original size:12 final size:12
Alignment explanation
Indices: 6317695--6317736 Score: 50
Period size: 12 Copynumber: 3.5 Consensus size: 12
6317685 TAAGGTATGT
6317695 TTTATTCCATTA
1 TTTATTCCATTA
**
6317707 TTTATTTAATGT-
1 TTTATTCCAT-TA
6317719 TTTATTCCATTA
1 TTTATTCCATTA
6317731 TTTATT
1 TTTATT
6317737 TAATGTCAAG
Statistics
Matches: 24, Mismatches: 4, Indels: 4
0.75 0.12 0.12
Matches are distributed among these distances:
11 1 0.04
12 22 0.92
13 1 0.04
ACGTcount: A:0.24, C:0.10, G:0.02, T:0.64
Consensus pattern (12 bp):
TTTATTCCATTA
Found at i:6317718 original size:24 final size:24
Alignment explanation
Indices: 6317691--6317742 Score: 104
Period size: 24 Copynumber: 2.2 Consensus size: 24
6317681 GTTGTAAGGT
6317691 ATGTTTTATTCCATTATTTATTTA
1 ATGTTTTATTCCATTATTTATTTA
6317715 ATGTTTTATTCCATTATTTATTTA
1 ATGTTTTATTCCATTATTTATTTA
6317739 ATGT
1 ATGT
6317743 CAAGAACCGT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.25, C:0.08, G:0.06, T:0.62
Consensus pattern (24 bp):
ATGTTTTATTCCATTATTTATTTA
Found at i:6318864 original size:26 final size:26
Alignment explanation
Indices: 6318834--6318891 Score: 107
Period size: 26 Copynumber: 2.2 Consensus size: 26
6318824 GAGTTCAAAG
6318834 ATGGTTGGAGTTGATTGACAATTTCT
1 ATGGTTGGAGTTGATTGACAATTTCT
6318860 ATGGTTGGAGTTGATTGACAATTTCT
1 ATGGTTGGAGTTGATTGACAATTTCT
*
6318886 AAGGTT
1 ATGGTT
6318892 TATAAATTAT
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 31 1.00
ACGTcount: A:0.24, C:0.07, G:0.28, T:0.41
Consensus pattern (26 bp):
ATGGTTGGAGTTGATTGACAATTTCT
Found at i:6324118 original size:36 final size:36
Alignment explanation
Indices: 6324018--6324124 Score: 128
Period size: 36 Copynumber: 3.0 Consensus size: 36
6324008 TAAGTTGGGC
** *
6324018 TAGCTCTTCGGAGCCATT-GTGTGTTTTCGAATGGAT
1 TAGCTCTTATGAG-CATTAGTGTGTTTTCGGATGGAT
*
6324054 TAGCTCTTATGAGCATTGGTGTGTTTTCGGATGGAT
1 TAGCTCTTATGAGCATTAGTGTGTTTTCGGATGGAT
* *
6324090 TAGCTCTTATGAGTATCTAGTGTG-TTTCGGTTGGA
1 TAGCTCTTATGAGCAT-TAGTGTGTTTTCGGATGGA
6324125 ATAACAATGT
Statistics
Matches: 63, Mismatches: 6, Indels: 4
0.86 0.08 0.05
Matches are distributed among these distances:
35 4 0.06
36 53 0.84
37 6 0.10
ACGTcount: A:0.17, C:0.13, G:0.29, T:0.41
Consensus pattern (36 bp):
TAGCTCTTATGAGCATTAGTGTGTTTTCGGATGGAT
Found at i:6336148 original size:22 final size:22
Alignment explanation
Indices: 6336123--6336171 Score: 64
Period size: 22 Copynumber: 2.2 Consensus size: 22
6336113 GTGCTTGGGC
*
6336123 GCAGGGATCAGGGT-GGTTGGCT
1 GCAGGAAT-AGGGTAGGTTGGCT
*
6336145 GCAGGAATAGGGTAGTTTGGCT
1 GCAGGAATAGGGTAGGTTGGCT
6336167 GCAGG
1 GCAGG
6336172 CATTCTGGGA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
21 5 0.21
22 19 0.79
ACGTcount: A:0.18, C:0.12, G:0.47, T:0.22
Consensus pattern (22 bp):
GCAGGAATAGGGTAGGTTGGCT
Found at i:6336348 original size:17 final size:16
Alignment explanation
Indices: 6336326--6336391 Score: 66
Period size: 17 Copynumber: 4.1 Consensus size: 16
6336316 CCAAATAAGT
6336326 AATAAATAATAAGATAA
1 AATAAATAATAA-ATAA
6336343 AATAAAATAATAAATAA
1 AAT-AAATAATAAATAA
* *
6336360 AGTAAA-GA-AAAT-A
1 AATAAATAATAAATAA
6336373 AATAAATAAATAAATAA
1 AATAAAT-AATAAATAA
6336390 AA
1 AA
6336392 ATTAGGTTGC
Statistics
Matches: 40, Mismatches: 4, Indels: 10
0.74 0.07 0.19
Matches are distributed among these distances:
13 6 0.15
14 4 0.10
15 2 0.05
16 7 0.17
17 12 0.30
18 9 0.22
ACGTcount: A:0.74, C:0.00, G:0.05, T:0.21
Consensus pattern (16 bp):
AATAAATAATAAATAA
Found at i:6336351 original size:22 final size:21
Alignment explanation
Indices: 6336327--6336391 Score: 80
Period size: 21 Copynumber: 3.0 Consensus size: 21
6336317 CAAATAAGTA
6336327 ATAAAT-AATAAGATAAAATAAA
1 ATAAATAAATAA-AT-AAATAAA
*
6336349 AT-AATAAATAAAGTAAAGAAA
1 ATAAATAAATAAA-TAAATAAA
6336370 ATAAATAAATAAATAAATAAA
1 ATAAATAAATAAATAAATAAA
6336391 A
1 A
6336392 ATTAGGTTGC
Statistics
Matches: 38, Mismatches: 2, Indels: 7
0.81 0.04 0.15
Matches are distributed among these distances:
21 20 0.53
22 18 0.47
ACGTcount: A:0.74, C:0.00, G:0.05, T:0.22
Consensus pattern (21 bp):
ATAAATAAATAAATAAATAAA
Found at i:6336352 original size:18 final size:17
Alignment explanation
Indices: 6336329--6336382 Score: 65
Period size: 18 Copynumber: 3.1 Consensus size: 17
6336319 AATAAGTAAT
6336329 AAATAATAAGATAAAATA
1 AAATAATAA-ATAAAATA
*
6336347 AAATAATAAATAAAGTA
1 AAATAATAAATAAAATA
*
6336364 AAGAAAATAAAT-AAATA
1 AA-ATAATAAATAAAATA
6336381 AA
1 AA
6336383 TAAATAAAAA
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
17 15 0.47
18 17 0.53
ACGTcount: A:0.74, C:0.00, G:0.06, T:0.20
Consensus pattern (17 bp):
AAATAATAAATAAAATA
Found at i:6336360 original size:4 final size:4
Alignment explanation
Indices: 6336326--6336390 Score: 62
Period size: 4 Copynumber: 15.5 Consensus size: 4
6336316 CCAAATAAGT
*
6336326 AATA AAT- AATA AGATAA AATA AA-A TAATA AATA AAGTA AAGAA AATA
1 AATA AATA AATA A-AT-A AATA AATA -AATA AATA AA-TA AA-TA AATA
6336373 AATA AATA AATA AATA AA
1 AATA AATA AATA AATA AA
6336391 AATTAGGTTG
Statistics
Matches: 53, Mismatches: 2, Indels: 12
0.79 0.03 0.18
Matches are distributed among these distances:
3 4 0.08
4 34 0.64
5 13 0.25
6 2 0.04
ACGTcount: A:0.74, C:0.00, G:0.05, T:0.22
Consensus pattern (4 bp):
AATA
Found at i:6336380 original size:26 final size:25
Alignment explanation
Indices: 6336325--6336390 Score: 82
Period size: 26 Copynumber: 2.6 Consensus size: 25
6336315 TCCAAATAAG
*
6336325 TAATAAAT-AATAAGATAAAATAAAA
1 TAATAAATAAATAA-AGAAAATAAAA
6336350 TAATAAATAAAGTAAAGAAAAT-AAA
1 TAATAAATAAA-TAAAGAAAATAAAA
6336375 TAAATAAATAAATAAA
1 T-AATAAATAAATAAA
6336391 AATTAGGTTG
Statistics
Matches: 37, Mismatches: 1, Indels: 6
0.84 0.02 0.14
Matches are distributed among these distances:
25 16 0.43
26 18 0.49
27 3 0.08
ACGTcount: A:0.73, C:0.00, G:0.05, T:0.23
Consensus pattern (25 bp):
TAATAAATAAATAAAGAAAATAAAA
Found at i:6336392 original size:22 final size:21
Alignment explanation
Indices: 6336326--6336393 Score: 77
Period size: 22 Copynumber: 3.1 Consensus size: 21
6336316 CCAAATAAGT
6336326 AATAAAT-AATAAGATAAAATAA
1 AATAAATAAATAA-ATAAAA-AA
*
6336348 AAT-AATAAATAAAGTAAAGAA
1 AATAAATAAATAAA-TAAAAAA
6336369 AATAAATAAATAAATAAATAAA
1 AATAAATAAATAAATAAA-AAA
6336391 AAT
1 AAT
6336394 TAGGTTGCCT
Statistics
Matches: 40, Mismatches: 2, Indels: 8
0.80 0.04 0.16
Matches are distributed among these distances:
21 13 0.32
22 27 0.68
ACGTcount: A:0.74, C:0.00, G:0.04, T:0.22
Consensus pattern (21 bp):
AATAAATAAATAAATAAAAAA
Found at i:6336393 original size:18 final size:18
Alignment explanation
Indices: 6336326--6336393 Score: 57
Period size: 18 Copynumber: 3.5 Consensus size: 18
6336316 CCAAATAAGT
6336326 AATAAATAATAAGATAAAATAA
1 AATAAA-AATAA-AT-AAAT-A
*
6336348 AATAATAAATAAAGTAAAGA
1 AATAA-AAATAAA-TAAATA
*
6336368 AA-ATAAATAAATAAATA
1 AATAAAAATAAATAAATA
6336385 AATAAAAAT
1 AATAAAAAT
6336394 TAGGTTGCCT
Statistics
Matches: 39, Mismatches: 4, Indels: 10
0.74 0.08 0.19
Matches are distributed among these distances:
17 7 0.18
18 12 0.31
19 1 0.03
20 3 0.08
21 4 0.10
22 11 0.28
23 1 0.03
ACGTcount: A:0.74, C:0.00, G:0.04, T:0.22
Consensus pattern (18 bp):
AATAAAAATAAATAAATA
Found at i:6340355 original size:15 final size:14
Alignment explanation
Indices: 6340334--6340369 Score: 54
Period size: 15 Copynumber: 2.5 Consensus size: 14
6340324 ATAATCCTTA
*
6340334 ATAATTATCTTAAT
1 ATAATTATCCTAAT
6340348 ATTAATTATCCTAAT
1 A-TAATTATCCTAAT
6340363 ATAATTA
1 ATAATTA
6340370 AAATAGAGTC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
14 7 0.35
15 13 0.65
ACGTcount: A:0.44, C:0.08, G:0.00, T:0.47
Consensus pattern (14 bp):
ATAATTATCCTAAT
Found at i:6344203 original size:15 final size:15
Alignment explanation
Indices: 6344183--6344213 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
6344173 CGGCCGACCG
6344183 ATATTTAATATATAT
1 ATATTTAATATATAT
6344198 ATATTTAATATATAT
1 ATATTTAATATATAT
6344213 A
1 A
6344214 AAATATATAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (15 bp):
ATATTTAATATATAT
Found at i:6344208 original size:11 final size:11
Alignment explanation
Indices: 6344194--6344256 Score: 54
Period size: 11 Copynumber: 5.6 Consensus size: 11
6344184 TATTTAATAT
6344194 ATATATATTTA
1 ATATATATTTA
**
6344205 ATATATATAAA
1 ATATATATTTA
6344216 ATATATATTTGA
1 ATATATATTT-A
* * * **
6344228 TTAAAAATAAA
1 ATATATATTTA
6344239 ATATATATTTA
1 ATATATATTTA
6344250 ATATATA
1 ATATATA
6344257 ATTCGGGCCG
Statistics
Matches: 37, Mismatches: 14, Indels: 2
0.70 0.26 0.04
Matches are distributed among these distances:
11 31 0.84
12 6 0.16
ACGTcount: A:0.54, C:0.00, G:0.02, T:0.44
Consensus pattern (11 bp):
ATATATATTTA
Found at i:6344241 original size:23 final size:22
Alignment explanation
Indices: 6344194--6344252 Score: 82
Period size: 23 Copynumber: 2.6 Consensus size: 22
6344184 TATTTAATAT
* *
6344194 ATATATATTTAATATATATAAA
1 ATATATATTTAATAAAAATAAA
*
6344216 ATATATATTTGATTAAAAATAAA
1 ATATATATTT-AATAAAAATAAA
6344239 ATATATATTTAATA
1 ATATATATTTAATA
6344253 TATAATTCGG
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
22 13 0.41
23 19 0.59
ACGTcount: A:0.54, C:0.00, G:0.02, T:0.44
Consensus pattern (22 bp):
ATATATATTTAATAAAAATAAA
Found at i:6345183 original size:19 final size:20
Alignment explanation
Indices: 6345159--6345198 Score: 73
Period size: 20 Copynumber: 2.0 Consensus size: 20
6345149 AAATAGATTG
6345159 CAGTT-AAAAATTAATAAAT
1 CAGTTAAAAAATTAATAAAT
6345178 CAGTTAAAAAATTAATAAAT
1 CAGTTAAAAAATTAATAAAT
6345198 C
1 C
6345199 TATCAATGAG
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 5 0.25
20 15 0.75
ACGTcount: A:0.57, C:0.07, G:0.05, T:0.30
Consensus pattern (20 bp):
CAGTTAAAAAATTAATAAAT
Found at i:6345973 original size:20 final size:19
Alignment explanation
Indices: 6345928--6345993 Score: 62
Period size: 21 Copynumber: 3.3 Consensus size: 19
6345918 TTACATCTTA
*
6345928 AAAAAT-TATAAAGAAACT
1 AAAAATATATAAAAAAACT
*
6345946 AAAGAATATATAAAAAAATT
1 AAA-AATATATAAAAAAACT
*
6345966 GAAAAATATAAAAAAAAAACT
1 -AAAAATAT-ATAAAAAAACT
6345987 CAAAAAT
1 -AAAAAT
6345994 CCTAAACCCT
Statistics
Matches: 39, Mismatches: 5, Indels: 5
0.80 0.10 0.10
Matches are distributed among these distances:
18 3 0.08
19 3 0.08
20 15 0.38
21 18 0.46
ACGTcount: A:0.71, C:0.05, G:0.05, T:0.20
Consensus pattern (19 bp):
AAAAATATATAAAAAAACT
Found at i:6351289 original size:16 final size:16
Alignment explanation
Indices: 6351268--6351314 Score: 51
Period size: 16 Copynumber: 2.9 Consensus size: 16
6351258 GGGGTGAATA
6351268 GAATAG-GACTGTAATG
1 GAATAGAGA-TGTAATG
6351284 GAATAGAGATGTAATG
1 GAATAGAGATGTAATG
* * *
6351300 TAATATAGCTGTAAT
1 GAATAGAGATGTAAT
6351315 CAGTAAATGG
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
16 25 0.93
17 2 0.07
ACGTcount: A:0.40, C:0.04, G:0.26, T:0.30
Consensus pattern (16 bp):
GAATAGAGATGTAATG
Found at i:6351529 original size:59 final size:57
Alignment explanation
Indices: 6351465--6351597 Score: 187
Period size: 59 Copynumber: 2.3 Consensus size: 57
6351455 TTGTTATTAA
* *
6351465 ATTTTAATA-AGATTATTACTAAATACAATTTAGTAAAAATAATGATATAATTTAATAAT
1 ATTTTAATATA-ATTATTACTAAATACAATTTAAT-AAAATAAT-ATATAATTTAATAAC
* *
6351524 ATTTTAACATAATTATTATTAAATACAATTTAATAAAATAATATATAATTTAATAAC
1 ATTTTAATATAATTATTACTAAATACAATTTAATAAAATAATATATAATTTAATAAC
6351581 ATTCTTAATATAATTAT
1 ATT-TTAATATAATTAT
6351598 GTTTAAAATA
Statistics
Matches: 67, Mismatches: 5, Indels: 5
0.87 0.06 0.06
Matches are distributed among these distances:
57 17 0.25
58 20 0.30
59 29 0.43
60 1 0.01
ACGTcount: A:0.50, C:0.05, G:0.02, T:0.43
Consensus pattern (57 bp):
ATTTTAATATAATTATTACTAAATACAATTTAATAAAATAATATATAATTTAATAAC
Found at i:6351604 original size:58 final size:59
Alignment explanation
Indices: 6351476--6351631 Score: 185
Period size: 59 Copynumber: 2.6 Consensus size: 59
6351466 TTTTAATAAG
* * *
6351476 ATTATTACTAAATACAATTTAGTAAAAATAATGATATAATTTAATAATATTTTAACATA
1 ATTATTATTAAATACAATTTAATAAAAATAATGATATAATTTAATAACATTTTAACATA
*
6351535 ATTATTATTAAATACAATTTAAT-AAAATAAT-ATATAATTTAATAACATTCTTAATATA
1 ATTATTATTAAATACAATTTAATAAAAATAATGATATAATTTAATAACATT-TTAACATA
* * *
6351593 ATTATGT-TTAAAATATGAA-TTAATAAAAATTATAATATA
1 ATTAT-TATT-AAATA-CAATTTAATAAAAATAATGATATA
6351632 TAATATTTAA
Statistics
Matches: 85, Mismatches: 6, Indels: 10
0.84 0.06 0.10
Matches are distributed among these distances:
57 17 0.20
58 22 0.26
59 32 0.38
60 9 0.11
61 5 0.06
ACGTcount: A:0.52, C:0.04, G:0.03, T:0.42
Consensus pattern (59 bp):
ATTATTATTAAATACAATTTAATAAAAATAATGATATAATTTAATAACATTTTAACATA
Found at i:6351905 original size:22 final size:22
Alignment explanation
Indices: 6351877--6351922 Score: 83
Period size: 22 Copynumber: 2.1 Consensus size: 22
6351867 ATTATCTTGC
6351877 GAAAATGGCTCGTAGCAATGAG
1 GAAAATGGCTCGTAGCAATGAG
*
6351899 GAAAATGGCTTGTAGCAATGAG
1 GAAAATGGCTCGTAGCAATGAG
6351921 GA
1 GA
6351923 CGCTTTACAA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.37, C:0.11, G:0.33, T:0.20
Consensus pattern (22 bp):
GAAAATGGCTCGTAGCAATGAG
Found at i:6352447 original size:52 final size:53
Alignment explanation
Indices: 6352385--6352490 Score: 187
Period size: 54 Copynumber: 2.0 Consensus size: 53
6352375 GAAACGTTGA
*
6352385 ATATCAATGAC-AGGAAAAATCAAAACCACAAAATAATGATCCTATTATCATG
1 ATATCAATGACAAGGAAAAATCAAAACCACAAAATAACGATCCTATTATCATG
6352437 ATATCAATGACAGAGGAAAAATCAAAACCACAAAATAACGATCCTATTATCATG
1 ATATCAATGACA-AGGAAAAATCAAAACCACAAAATAACGATCCTATTATCATG
6352491 CAAAGCAGCT
Statistics
Matches: 51, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
52 11 0.22
54 40 0.78
ACGTcount: A:0.50, C:0.18, G:0.10, T:0.22
Consensus pattern (53 bp):
ATATCAATGACAAGGAAAAATCAAAACCACAAAATAACGATCCTATTATCATG
Found at i:6356375 original size:7 final size:7
Alignment explanation
Indices: 6356363--6356388 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
6356353 TAGTCGATTG
6356363 GTATTTA
1 GTATTTA
6356370 GTATTTA
1 GTATTTA
6356377 GTATTTA
1 GTATTTA
6356384 GTATT
1 GTATT
6356389 ATGCATTATG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.27, C:0.00, G:0.15, T:0.58
Consensus pattern (7 bp):
GTATTTA
Found at i:6359591 original size:41 final size:41
Alignment explanation
Indices: 6359384--6359580 Score: 299
Period size: 41 Copynumber: 4.8 Consensus size: 41
6359374 TTTATCGTTA
* * * * *
6359384 GTGACATAATTCAGACTTTACGTCTAGCAGGCTTAACGCCG
1 GTGACACATTTCAGACTATAAGTCTAGCAGGCTTAATGCCG
6359425 GTGA-A-ATTATTCAGACTATAAGTCTAGCAGGCTTAATGCCG
1 GTGACACA-T-TTCAGACTATAAGTCTAGCAGGCTTAATGCCG
*
6359466 GTGACACATTTCAGGCTATAAGTCTAGCAGGCTTAATGCCG
1 GTGACACATTTCAGACTATAAGTCTAGCAGGCTTAATGCCG
6359507 GTGACACATTTCAGACTATAAGTCTAGCAGGCTTAATGCCG
1 GTGACACATTTCAGACTATAAGTCTAGCAGGCTTAATGCCG
*
6359548 GTGACACATTTCGGACTATAAGTCTAGCAGGCT
1 GTGACACATTTCAGACTATAAGTCTAGCAGGCT
6359581 AAGAGCCGGT
Statistics
Matches: 145, Mismatches: 7, Indels: 8
0.91 0.04 0.05
Matches are distributed among these distances:
39 1 0.01
40 1 0.01
41 140 0.97
42 2 0.01
43 1 0.01
ACGTcount: A:0.28, C:0.21, G:0.23, T:0.27
Consensus pattern (41 bp):
GTGACACATTTCAGACTATAAGTCTAGCAGGCTTAATGCCG
Found at i:6359603 original size:123 final size:124
Alignment explanation
Indices: 6359384--6359634 Score: 287
Period size: 123 Copynumber: 2.0 Consensus size: 124
6359374 TTTATCGTTA
* * *
6359384 GTGACATAATTCAGACTTTACGTCTAGCAGGCTTAACGCCGGTGAAATTATTCAGACTATAAGTC
1 GTGACACAATTCAGACTATAAGTCTAGCAGGCTTAACGCCGGTGAAATTATTCAGACTATAAGTC
* * ** *
6359449 TAGCAGGCTTAATGCCGGTGACACATTTCAGGCTAT-AAGTCTAGCAGGCTTAATGCCG
66 TAGCAGGCTTAAAGCCGGTGACACATATCAGGCTATAAAACCTAGCAGGCTAAATGCCG
* * *
6359507 GTGACACATTTCAGACTATAAGTCTAGCAGGCTTAATGCCGGTGACACA-T-TTCGGACTATAAG
1 GTGACACAATTCAGACTATAAGTCTAGCAGGCTTAACGCCGGTGA-A-ATTATTCAGACTATAAG
*** * *
6359570 TCTAGCAGGC-TAAGAGCCGGTGTATTGA-ATCAGGTTTTAAAACCTAGCAGGCTAAATGCCG
64 TCTAGCAGGCTTAA-AGCCGGTG-ACACATATCAGGCTATAAAACCTAGCAGGCTAAATGCCG
6359631 GTGA
1 GTGA
6359635 ATCCGTTTAA
Statistics
Matches: 107, Mismatches: 16, Indels: 9
0.81 0.12 0.07
Matches are distributed among these distances:
122 3 0.03
123 76 0.71
124 27 0.25
125 1 0.01
ACGTcount: A:0.29, C:0.20, G:0.24, T:0.27
Consensus pattern (124 bp):
GTGACACAATTCAGACTATAAGTCTAGCAGGCTTAACGCCGGTGAAATTATTCAGACTATAAGTC
TAGCAGGCTTAAAGCCGGTGACACATATCAGGCTATAAAACCTAGCAGGCTAAATGCCG
Found at i:6359849 original size:33 final size:33
Alignment explanation
Indices: 6359794--6359890 Score: 106
Period size: 33 Copynumber: 2.8 Consensus size: 33
6359784 GATAGATATG
*
6359794 TATATATATATGT-TGCATTCGGCATAGGTGAA
1 TATATATATGTGTATGCATTCGGCATAGGTGAA
*
6359826 TATATTTATGTGTATGCATTCGGCATAGGTGAA
1 TATATATATGTGTATGCATTCGGCATAGGTGAA
* * *
6359859 AATAAGTGTATGTATCTATGCATTCGGCATAG
1 TAT-A-TATATG--TGTATGCATTCGGCATAG
6359891 ATGGGTATAG
Statistics
Matches: 55, Mismatches: 5, Indels: 5
0.85 0.08 0.08
Matches are distributed among these distances:
32 11 0.20
33 21 0.38
34 1 0.02
35 5 0.09
37 17 0.31
ACGTcount: A:0.30, C:0.10, G:0.23, T:0.37
Consensus pattern (33 bp):
TATATATATGTGTATGCATTCGGCATAGGTGAA
Found at i:6366789 original size:41 final size:41
Alignment explanation
Indices: 6366582--6366778 Score: 308
Period size: 41 Copynumber: 4.8 Consensus size: 41
6366572 TTTATCGTTA
* * * * *
6366582 GTGACATAATTCAGACTTTACGTCTAGCAGGCTTAACGCCG
1 GTGACACATTTCAGACTATAAGTCTAGCAGGCTTAATGCCG
6366623 GTGA-A-ATTATTCAGACTATAAGTCTAGCAGGCTTAATGCCG
1 GTGACACA-T-TTCAGACTATAAGTCTAGCAGGCTTAATGCCG
*
6366664 GTGACACATTTCAGGCTATAAGTCTAGCAGGCTTAATGCCG
1 GTGACACATTTCAGACTATAAGTCTAGCAGGCTTAATGCCG
6366705 GTGACACATTTCAGACTATAAGTCTAGCAGGCTTAATGCCG
1 GTGACACATTTCAGACTATAAGTCTAGCAGGCTTAATGCCG
6366746 GTGACACATTTCAGACTATAAGTCTAGCAGGCT
1 GTGACACATTTCAGACTATAAGTCTAGCAGGCT
6366779 AAGAGCCGGT
Statistics
Matches: 146, Mismatches: 6, Indels: 8
0.91 0.04 0.05
Matches are distributed among these distances:
39 1 0.01
40 1 0.01
41 141 0.97
42 2 0.01
43 1 0.01
ACGTcount: A:0.29, C:0.21, G:0.22, T:0.27
Consensus pattern (41 bp):
GTGACACATTTCAGACTATAAGTCTAGCAGGCTTAATGCCG
Found at i:6366801 original size:123 final size:124
Alignment explanation
Indices: 6366582--6366832 Score: 296
Period size: 123 Copynumber: 2.0 Consensus size: 124
6366572 TTTATCGTTA
* * *
6366582 GTGACATAATTCAGACTTTACGTCTAGCAGGCTTAACGCCGGTGAAATTATTCAGACTATAAGTC
1 GTGACACAATTCAGACTATAAGTCTAGCAGGCTTAACGCCGGTGAAATTATTCAGACTATAAGTC
* * ** *
6366647 TAGCAGGCTTAATGCCGGTGACACATTTCAGGCTAT-AAGTCTAGCAGGCTTAATGCCG
66 TAGCAGGCTTAAAGCCGGTGACACATATCAGGCTATAAAACCTAGCAGGCTAAATGCCG
* *
6366705 GTGACACATTTCAGACTATAAGTCTAGCAGGCTTAATGCCGGTGACACA-T-TTCAGACTATAAG
1 GTGACACAATTCAGACTATAAGTCTAGCAGGCTTAACGCCGGTGA-A-ATTATTCAGACTATAAG
*** * *
6366768 TCTAGCAGGC-TAAGAGCCGGTGTATTGA-ATCAGGTTTTAAAACCTAGCAGGCTAAATGCCG
64 TCTAGCAGGCTTAA-AGCCGGTG-ACACATATCAGGCTATAAAACCTAGCAGGCTAAATGCCG
6366829 GTGA
1 GTGA
6366833 ATCCGTTTAA
Statistics
Matches: 108, Mismatches: 15, Indels: 9
0.82 0.11 0.07
Matches are distributed among these distances:
122 3 0.03
123 77 0.71
124 27 0.25
125 1 0.01
ACGTcount: A:0.29, C:0.20, G:0.24, T:0.27
Consensus pattern (124 bp):
GTGACACAATTCAGACTATAAGTCTAGCAGGCTTAACGCCGGTGAAATTATTCAGACTATAAGTC
TAGCAGGCTTAAAGCCGGTGACACATATCAGGCTATAAAACCTAGCAGGCTAAATGCCG
Found at i:6367047 original size:33 final size:33
Alignment explanation
Indices: 6366992--6367088 Score: 106
Period size: 33 Copynumber: 2.8 Consensus size: 33
6366982 GATAGATATG
*
6366992 TATATATATATGT-TGCATTCGGCATAGGTGAA
1 TATATATATGTGTATGCATTCGGCATAGGTGAA
*
6367024 TATATTTATGTGTATGCATTCGGCATAGGTGAA
1 TATATATATGTGTATGCATTCGGCATAGGTGAA
* * *
6367057 AATAAGTGTATGTATCTATGCATTCGGCATAG
1 TAT-A-TATATG--TGTATGCATTCGGCATAG
6367089 ATGGGTATAG
Statistics
Matches: 55, Mismatches: 5, Indels: 5
0.85 0.08 0.08
Matches are distributed among these distances:
32 11 0.20
33 21 0.38
34 1 0.02
35 5 0.09
37 17 0.31
ACGTcount: A:0.30, C:0.10, G:0.23, T:0.37
Consensus pattern (33 bp):
TATATATATGTGTATGCATTCGGCATAGGTGAA
Found at i:6370757 original size:127 final size:127
Alignment explanation
Indices: 6370322--6370864 Score: 847
Period size: 127 Copynumber: 4.3 Consensus size: 127
6370312 AGCCAAACAT
* * * **
6370322 GAGCTACTGTAGCAAAAGCGTGTACACGTGGGAGCTTTTTTTAGTACTTTTTTTGACAAAGCATC
1 GAGCTACTGTAGCAAAAGCGTGTCCACGTGGGAGCTTCTTTCAGTACTTTTGCTGACAAAGCATC
* * * * *
6370387 ATGCTTAAAGCG-TTTTTGACACTATTTGCTCAGAAATGTCTTTTTGAAATTATTTTTTTAG
66 CTGCTTAAAGCGTTTTTTGACACTATTTGCTCAGAAACGTCTTCTCGAAATTATTTTTTCAG
* *
6370448 GAGCTACTGTAGCAAAAGTGTGTCCAGGTGGGAGCTTCTTTCAGTACTTTTGCTGACAAAGCATC
1 GAGCTACTGTAGCAAAAGCGTGTCCACGTGGGAGCTTCTTTCAGTACTTTTGCTGACAAAGCATC
* * *
6370513 CTGCTTAAAGCATTTTTTGACACTATTTACTCAGAAACGTCTTCTCGAAATTA-TTTTCCAG
66 CTGCTTAAAGCGTTTTTTGACACTATTTGCTCAGAAACGTCTTCTCGAAATTATTTTTTCAG
* * * *
6370574 GAGCTACTGTAGCAAAAGCGTGTCCACATGGGGGCTTCTTTCAGTACTTTTACTGACAAAGCATT
1 GAGCTACTGTAGCAAAAGCGTGTCCACGTGGGAGCTTCTTTCAGTACTTTTGCTGACAAAGCATC
6370639 CTGCTTAAAGCGTTTTTTGACACTATTTGCTCAGAAACGTCTTCTCGAAATTATTTTTTCAG
66 CTGCTTAAAGCGTTTTTTGACACTATTTGCTCAGAAACGTCTTCTCGAAATTATTTTTTCAG
* *
6370701 GAGCTACTGTAGCAAAAGCGAGTCCATGTGGGAGCTTCTTTCAGTACTTTTGCTGACAAAGCATC
1 GAGCTACTGTAGCAAAAGCGTGTCCACGTGGGAGCTTCTTTCAGTACTTTTGCTGACAAAGCATC
* *
6370766 CTGCTTAAAGCGTTTTTTGACTCTATTTGCTCAGAAACGTCTTTTCGAAATTATTTTTTCAG
66 CTGCTTAAAGCGTTTTTTGACACTATTTGCTCAGAAACGTCTTCTCGAAATTATTTTTTCAG
* *
6370828 GAGCTACTGTAGCAAAATCGCGTCCACGTGGGAGCTT
1 GAGCTACTGTAGCAAAAGCGTGTCCACGTGGGAGCTT
6370865 TTTTAAATTA
Statistics
Matches: 380, Mismatches: 35, Indels: 3
0.91 0.08 0.01
Matches are distributed among these distances:
126 184 0.48
127 196 0.52
ACGTcount: A:0.25, C:0.19, G:0.20, T:0.36
Consensus pattern (127 bp):
GAGCTACTGTAGCAAAAGCGTGTCCACGTGGGAGCTTCTTTCAGTACTTTTGCTGACAAAGCATC
CTGCTTAAAGCGTTTTTTGACACTATTTGCTCAGAAACGTCTTCTCGAAATTATTTTTTCAG
Found at i:6370769 original size:253 final size:253
Alignment explanation
Indices: 6370322--6370864 Score: 865
Period size: 253 Copynumber: 2.1 Consensus size: 253
6370312 AGCCAAACAT
* * * **
6370322 GAGCTACTGTAGCAAAAGCGTGTACACGTGGGAGCTTTTTTTAGTACTTTTTTTGACAAAGCATC
1 GAGCTACTGTAGCAAAAGCGTGTCCACGTGGGAGCTTCTTTCAGTACTTTTACTGACAAAGCATC
* * * *
6370387 ATGCTTAAAGCGTTTTTGACACTATTTGCTCAGAAATGTCTTTTTGAAATTATTTTTTTAGGAGC
66 ATGCTTAAAGCGTTTTTGACACTATTTGCTCAGAAACGTCTTCTCGAAATTATTTTTTCAGGAGC
* *
6370452 TACTGTAGCAAAAGTGTGTCCAGGTGGGAGCTTCTTTCAGTACTTTTGCTGACAAAGCATCCTGC
131 TACTGTAGCAAAAGCGAGTCCAGGTGGGAGCTTCTTTCAGTACTTTTGCTGACAAAGCATCCTGC
6370517 TTAAAGCATTTTTTGACACTATTTACTCAGAAACGTCTTCTCGAAATTA-TTTTCCAG
196 TTAAAGCATTTTTTGACACTATTTACTCAGAAACGTCTTCTCGAAATTATTTTTCCAG
* *
6370574 GAGCTACTGTAGCAAAAGCGTGTCCACATGGGGGCTTCTTTCAGTACTTTTACTGACAAAGCATT
1 GAGCTACTGTAGCAAAAGCGTGTCCACGTGGGAGCTTCTTTCAGTACTTTTACTGACAAAGCA-T
6370639 C-TGCTTAAAGCGTTTTTTGACACTATTTGCTCAGAAACGTCTTCTCGAAATTATTTTTTCAGGA
65 CATGCTTAAAGCG-TTTTTGACACTATTTGCTCAGAAACGTCTTCTCGAAATTATTTTTTCAGGA
*
6370703 GCTACTGTAGCAAAAGCGAGTCCATGTGGGAGCTTCTTTCAGTACTTTTGCTGACAAAGCATCCT
129 GCTACTGTAGCAAAAGCGAGTCCAGGTGGGAGCTTCTTTCAGTACTTTTGCTGACAAAGCATCCT
* * * * *
6370768 GCTTAAAGCGTTTTTTGACTCTATTTGCTCAGAAACGTCTTTTCGAAATTATTTTTTCAG
194 GCTTAAAGCATTTTTTGACACTATTTACTCAGAAACGTCTTCTCGAAATTATTTTTCCAG
* *
6370828 GAGCTACTGTAGCAAAATCGCGTCCACGTGGGAGCTT
1 GAGCTACTGTAGCAAAAGCGTGTCCACGTGGGAGCTT
6370865 TTTTAAATTA
Statistics
Matches: 265, Mismatches: 23, Indels: 4
0.91 0.08 0.01
Matches are distributed among these distances:
252 67 0.25
253 158 0.60
254 40 0.15
ACGTcount: A:0.25, C:0.19, G:0.20, T:0.36
Consensus pattern (253 bp):
GAGCTACTGTAGCAAAAGCGTGTCCACGTGGGAGCTTCTTTCAGTACTTTTACTGACAAAGCATC
ATGCTTAAAGCGTTTTTGACACTATTTGCTCAGAAACGTCTTCTCGAAATTATTTTTTCAGGAGC
TACTGTAGCAAAAGCGAGTCCAGGTGGGAGCTTCTTTCAGTACTTTTGCTGACAAAGCATCCTGC
TTAAAGCATTTTTTGACACTATTTACTCAGAAACGTCTTCTCGAAATTATTTTTCCAG
Found at i:6371096 original size:22 final size:23
Alignment explanation
Indices: 6371062--6371107 Score: 67
Period size: 22 Copynumber: 2.0 Consensus size: 23
6371052 TTTTTTCTTT
*
6371062 AAAACCCTAAACCTAAAAACCTA
1 AAAACCCTAAACCCAAAAACCTA
*
6371085 AAAACCCT-AACCCAAAACCCTA
1 AAAACCCTAAACCCAAAAACCTA
6371107 A
1 A
6371108 CTAGCAAAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
22 13 0.62
23 8 0.38
ACGTcount: A:0.54, C:0.35, G:0.00, T:0.11
Consensus pattern (23 bp):
AAAACCCTAAACCCAAAAACCTA
Found at i:6378026 original size:98 final size:98
Alignment explanation
Indices: 6377852--6378048 Score: 340
Period size: 98 Copynumber: 2.0 Consensus size: 98
6377842 GTACAATAAA
* *
6377852 ACTTTAAAAGAACATCCACTTATCCAAGATTTAAGAAATCACATCCAATACGTTAGGGCACGATT
1 ACTTTAAAAGAACATCCACTTATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACAATT
* *
6377917 CCTCTAGAATCCCAAACTCGAAATATTTCCTTT
66 CCTCTAAAATCCCAAACTCGAAATATTTACTTT
6377950 ACTTTAAAAGAACATCCACTTATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACAATT
1 ACTTTAAAAGAACATCCACTTATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACAATT
* *
6378015 CCTTTAAAATCCCAAACTCGGAATATTTACTTT
66 CCTCTAAAATCCCAAACTCGAAATATTTACTTT
6378048 A
1 A
6378049 TTATTTTTAA
Statistics
Matches: 93, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
98 93 1.00
ACGTcount: A:0.38, C:0.24, G:0.10, T:0.28
Consensus pattern (98 bp):
ACTTTAAAAGAACATCCACTTATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACAATT
CCTCTAAAATCCCAAACTCGAAATATTTACTTT
Found at i:6379400 original size:19 final size:19
Alignment explanation
Indices: 6379376--6379507 Score: 201
Period size: 19 Copynumber: 6.8 Consensus size: 19
6379366 AATCATATAT
6379376 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
** *
6379395 TCTAAGATTATATATAATA
1 TCTAAGATTGCATATCATA
6379414 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
6379433 TCTAAGATTGCATATATCATA
1 TCTAAGATTGC--ATATCATA
6379454 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
*
6379473 TCTAGGATTGCATATCATA
1 TCTAAGATTGCATATCATA
*
6379492 TCTAAGACTGCATATC
1 TCTAAGATTGCATATC
6379508 CTCAAAAATT
Statistics
Matches: 102, Mismatches: 9, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
19 83 0.81
21 19 0.19
ACGTcount: A:0.37, C:0.15, G:0.11, T:0.37
Consensus pattern (19 bp):
TCTAAGATTGCATATCATA
Found at i:6379460 original size:59 final size:59
Alignment explanation
Indices: 6379369--6379506 Score: 203
Period size: 59 Copynumber: 2.4 Consensus size: 59
6379359 ATTACAAAAT
*
6379369 CATAT-AT-TCTAAGATTGC--ATATCATATCTAAGATTATATATAATATCTAAGATTG
1 CATATCATATCTAAGATTGCATATATCATATCTAAGATTACATATAATATCTAAGATTG
* * *
6379424 CATATCATATCTAAGATTGCATATATCATATCTAAGATTGCATATCATATCTAGGATTG
1 CATATCATATCTAAGATTGCATATATCATATCTAAGATTACATATAATATCTAAGATTG
*
6379483 CATATCATATCTAAGACTGCATAT
1 CATATCATATCTAAGATTGCATAT
6379507 CCTCAAAAAT
Statistics
Matches: 74, Mismatches: 5, Indels: 4
0.89 0.06 0.05
Matches are distributed among these distances:
55 5 0.07
56 2 0.03
57 11 0.15
59 56 0.76
ACGTcount: A:0.38, C:0.14, G:0.10, T:0.38
Consensus pattern (59 bp):
CATATCATATCTAAGATTGCATATATCATATCTAAGATTACATATAATATCTAAGATTG
Found at i:6392832 original size:3 final size:3
Alignment explanation
Indices: 6392824--6392880 Score: 114
Period size: 3 Copynumber: 19.0 Consensus size: 3
6392814 ACAGACATTG
6392824 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
6392872 ATT ATT ATT
1 ATT ATT ATT
6392881 CTCGTTAGCT
Statistics
Matches: 54, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 54 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:6393162 original size:2 final size:2
Alignment explanation
Indices: 6393157--6393185 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
6393147 TTTTTTTGGT
6393157 AC AC AC AC AC AC AC AC AC AC AC AC AC AC A
1 AC AC AC AC AC AC AC AC AC AC AC AC AC AC A
6393186 TATCCATTAC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.48, G:0.00, T:0.00
Consensus pattern (2 bp):
AC
Found at i:6395943 original size:17 final size:16
Alignment explanation
Indices: 6395902--6395943 Score: 50
Period size: 17 Copynumber: 2.6 Consensus size: 16
6395892 AATTCAATTT
*
6395902 TAATATAAATATTCAA
1 TAATATAAAAATTCAA
6395918 T-ATACTAAACAATTCAA
1 TAATA-TAAA-AATTCAA
6395935 TAATATAAA
1 TAATATAAA
6395944 TAATATAATA
Statistics
Matches: 22, Mismatches: 1, Indels: 5
0.79 0.04 0.18
Matches are distributed among these distances:
15 3 0.14
16 5 0.23
17 11 0.50
18 3 0.14
ACGTcount: A:0.57, C:0.10, G:0.00, T:0.33
Consensus pattern (16 bp):
TAATATAAAAATTCAA
Found at i:6396566 original size:9 final size:9
Alignment explanation
Indices: 6396549--6396579 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
6396539 TCGAGTTGAT
6396549 TCGAATAAC
1 TCGAATAAC
*
6396558 TCGATTAAC
1 TCGAATAAC
6396567 TCGAATAAC
1 TCGAATAAC
6396576 TCGA
1 TCGA
6396580 TTCGTTTAAC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.39, C:0.23, G:0.13, T:0.26
Consensus pattern (9 bp):
TCGAATAAC
Found at i:6402646 original size:41 final size:41
Alignment explanation
Indices: 6402589--6402671 Score: 139
Period size: 41 Copynumber: 2.0 Consensus size: 41
6402579 ATATGATGAC
* * *
6402589 TAAGTTACTTCCTATAACCAATTTTGAGCATTTCTTAGACT
1 TAAGTCACTTCCTATAACCAAGTTTGAGCATTGCTTAGACT
6402630 TAAGTCACTTCCTATAACCAAGTTTGAGCATTGCTTAGACT
1 TAAGTCACTTCCTATAACCAAGTTTGAGCATTGCTTAGACT
6402671 T
1 T
6402672 GGTCAAACTT
Statistics
Matches: 39, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
41 39 1.00
ACGTcount: A:0.29, C:0.20, G:0.12, T:0.39
Consensus pattern (41 bp):
TAAGTCACTTCCTATAACCAAGTTTGAGCATTGCTTAGACT
Found at i:6407119 original size:15 final size:16
Alignment explanation
Indices: 6407093--6407123 Score: 55
Period size: 15 Copynumber: 2.0 Consensus size: 16
6407083 GTCTATTTTT
6407093 ATTTTTATTTTATTTG
1 ATTTTTATTTTATTTG
6407109 ATTTTTA-TTTATTTG
1 ATTTTTATTTTATTTG
6407124 CTTATTATCC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 8 0.53
16 7 0.47
ACGTcount: A:0.19, C:0.00, G:0.06, T:0.74
Consensus pattern (16 bp):
ATTTTTATTTTATTTG
Found at i:6409717 original size:23 final size:22
Alignment explanation
Indices: 6409683--6409738 Score: 62
Period size: 23 Copynumber: 2.5 Consensus size: 22
6409673 TCTTATTGTC
*
6409683 AAAAAA-AAATATAAA-AAAATT
1 AAAAAATATATATAAATAAAA-T
6409704 GAAAAAATATATATAAATAAAAT
1 -AAAAAATATATATAAATAAAAT
6409727 AAAATAATATAT
1 AAAA-AATATAT
6409739 TGATCATTAT
Statistics
Matches: 30, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
22 10 0.33
23 16 0.53
24 4 0.13
ACGTcount: A:0.73, C:0.00, G:0.02, T:0.25
Consensus pattern (22 bp):
AAAAAATATATATAAATAAAAT
Found at i:6414350 original size:18 final size:19
Alignment explanation
Indices: 6414313--6414349 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
6414303 TTTTTAAAAA
*
6414313 TATAAA-ATTTGGAATTTT
1 TATAAATATTTAGAATTTT
6414331 TATAAATATTTAGAATTTT
1 TATAAATATTTAGAATTTT
6414350 AAAAATTATT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 6 0.35
19 11 0.65
ACGTcount: A:0.41, C:0.00, G:0.08, T:0.51
Consensus pattern (19 bp):
TATAAATATTTAGAATTTT
Found at i:6417715 original size:13 final size:13
Alignment explanation
Indices: 6417673--6417715 Score: 50
Period size: 14 Copynumber: 3.2 Consensus size: 13
6417663 TAGGTATCGA
6417673 TACCAAGGTGTGG
1 TACCAAGGTGTGG
* *
6417686 TAGCGATGGTAGTGG
1 TA-CCAAGGT-GTGG
6417701 TACCAAGGTGTGG
1 TACCAAGGTGTGG
6417714 TA
1 TA
6417716 TTGATACCAA
Statistics
Matches: 24, Mismatches: 4, Indels: 4
0.75 0.12 0.12
Matches are distributed among these distances:
13 8 0.33
14 10 0.42
15 6 0.25
ACGTcount: A:0.23, C:0.12, G:0.40, T:0.26
Consensus pattern (13 bp):
TACCAAGGTGTGG
Found at i:6418496 original size:23 final size:23
Alignment explanation
Indices: 6418441--6418498 Score: 62
Period size: 23 Copynumber: 2.5 Consensus size: 23
6418431 AAAACATCGT
* * *
6418441 CGAAGCGAATAATAGAACACCGC
1 CGAAGCGGATAACAGAACAACGC
* *
6418464 CAAAGTGGATAACAGAACAACGC
1 CGAAGCGGATAACAGAACAACGC
*
6418487 TGAAGCGGATAA
1 CGAAGCGGATAA
6418499 ACAAAGAGCA
Statistics
Matches: 27, Mismatches: 8, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
23 27 1.00
ACGTcount: A:0.45, C:0.21, G:0.24, T:0.10
Consensus pattern (23 bp):
CGAAGCGGATAACAGAACAACGC
Found at i:6421341 original size:59 final size:58
Alignment explanation
Indices: 6421222--6421352 Score: 142
Period size: 59 Copynumber: 2.3 Consensus size: 58
6421212 AAACTTGGTA
* * *
6421222 AATT-TTCTCACATTGGACCTGAATTTTTTTTTGTCCAAGTTAGGTCATGAACTTGAC
1 AATTGTTCTCACATTGGACCTGAATTTTTTTTTATCAAAGTTAGGCCATGAACTTGAC
* * * * *
6421279 AATTGTTCTCACATTGGGGCTTGGATTTTTTTTTATCAAAGTTAGGCCCTGAA-TGTGGC
1 AATTGTTCTCACATT-GGACCTGAATTTTTTTTTATCAAAGTTAGGCCATGAACT-TGAC
6421338 AATTGTT-TCAACATT
1 AATTGTTCTC-ACATT
6421353 AGAGTTTTTT
Statistics
Matches: 62, Mismatches: 8, Indels: 6
0.82 0.11 0.08
Matches are distributed among these distances:
57 4 0.06
58 13 0.21
59 45 0.73
ACGTcount: A:0.24, C:0.16, G:0.18, T:0.42
Consensus pattern (58 bp):
AATTGTTCTCACATTGGACCTGAATTTTTTTTTATCAAAGTTAGGCCATGAACTTGAC
Found at i:6422256 original size:21 final size:20
Alignment explanation
Indices: 6422232--6422289 Score: 62
Period size: 20 Copynumber: 2.9 Consensus size: 20
6422222 GTTTATTAGG
*
6422232 AATTTTAGAGTTTTTCTGAAA
1 AATTTTAGA-TTTTTATGAAA
* *
6422253 AATTATAGAATTTTATGAAA
1 AATTTTAGATTTTTATGAAA
* *
6422273 AATTTAAGAATTTTATG
1 AATTTTAGATTTTTATG
6422290 TTTTTTTTAC
Statistics
Matches: 32, Mismatches: 5, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
20 24 0.75
21 8 0.25
ACGTcount: A:0.41, C:0.02, G:0.12, T:0.45
Consensus pattern (20 bp):
AATTTTAGATTTTTATGAAA
Found at i:6422271 original size:20 final size:20
Alignment explanation
Indices: 6422243--6422289 Score: 69
Period size: 20 Copynumber: 2.4 Consensus size: 20
6422233 ATTTTAGAGT
*
6422243 TTTTCTGAAAAA-TTATAGAA
1 TTTTATGAAAAATTTA-AGAA
6422263 TTTTATGAAAAATTTAAGAA
1 TTTTATGAAAAATTTAAGAA
6422283 TTTTATG
1 TTTTATG
6422290 TTTTTTTTAC
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
20 22 0.88
21 3 0.12
ACGTcount: A:0.43, C:0.02, G:0.11, T:0.45
Consensus pattern (20 bp):
TTTTATGAAAAATTTAAGAA
Found at i:6429548 original size:10 final size:8
Alignment explanation
Indices: 6429513--6429542 Score: 60
Period size: 8 Copynumber: 3.8 Consensus size: 8
6429503 ATTAACTTTT
6429513 TTAAAATA
1 TTAAAATA
6429521 TTAAAATA
1 TTAAAATA
6429529 TTAAAATA
1 TTAAAATA
6429537 TTAAAA
1 TTAAAA
6429543 AATATTCTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 22 1.00
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (8 bp):
TTAAAATA
Found at i:6438452 original size:22 final size:22
Alignment explanation
Indices: 6438383--6438449 Score: 98
Period size: 22 Copynumber: 3.0 Consensus size: 22
6438373 ATGCAATTTT
6438383 AGATATGATATGCAATCTTAGA
1 AGATATGATATGCAATCTTAGA
*
6438405 AGATATAATATGCAATCTTAGA
1 AGATATGATATGCAATCTTAGA
* *
6438427 AGATATGATTTTGTAATCTTAGA
1 AGATATGA-TATGCAATCTTAGA
6438450 GATTTAATTT
Statistics
Matches: 40, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
22 28 0.70
23 12 0.30
ACGTcount: A:0.40, C:0.07, G:0.16, T:0.36
Consensus pattern (22 bp):
AGATATGATATGCAATCTTAGA
Found at i:6438459 original size:22 final size:23
Alignment explanation
Indices: 6438393--6438459 Score: 84
Period size: 22 Copynumber: 3.0 Consensus size: 23
6438383 AGATATGATA
*
6438393 TGCAATCTTAGAAGATATAA-TA
1 TGCAATCTTAGAAGATATAATTT
*
6438415 TGCAATCTTAGAAGATATGATTT
1 TGCAATCTTAGAAGATATAATTT
* *
6438438 TGTAATCTTAG-AGATTTAATTT
1 TGCAATCTTAGAAGATATAATTT
6438460 GTAGATATCC
Statistics
Matches: 39, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
22 28 0.72
23 11 0.28
ACGTcount: A:0.37, C:0.07, G:0.15, T:0.40
Consensus pattern (23 bp):
TGCAATCTTAGAAGATATAATTT
Found at i:6440326 original size:108 final size:108
Alignment explanation
Indices: 6440196--6440511 Score: 438
Period size: 109 Copynumber: 2.9 Consensus size: 108
6440186 AAAAGAAATT
* * * * *
6440196 TTTCTAAATAAGGCAATATTTTGCATTTGGAAGTTCGAGAAAGCGTGCCCTAATGTGCTGGGTTT
1 TTTCAAAATAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAA-CGTGCCCTAAGGTGCTGGGTTT
* *
6440261 CGTTTTTCTCGTTCGACCTAATAGCCAAATATCCTT-TTAAAAA
65 CGTTTTTCTCGTTCAACCAAATAGCCAAATATCCTTCTTAAAAA
* * *
6440304 TTTTAAAATAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACATGCCCTAAGGTGCTGGGTGT
1 TTTCAAAATAAGGCAATGTTTTGCGTTTGGAAATTCGAG-AAACGTGCCCTAAGGTGCTGGGTTT
* **
6440369 CGATTTTTCTCGTTCAACCAAATAACTTAATATCCTTCTTAAAAA
65 CG-TTTTTCTCGTTCAACCAAATAGCCAAATATCCTTCTTAAAAA
*
6440414 TTTCAAAATAAGGCAATGTTTTGCGTTTGGAAATTCGAGGAACGTGCCCTAAGGTGCTGGGTTTC
1 TTTCAAAATAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAACGTGCCCTAAGGTGCTGGGTTTC
* * *
6440479 G-ATTTCTCGTTTAACCAAATTGCCAAATATCCT
66 GTTTTTCTCGTTCAACCAAATAGCCAAATATCCT
6440512 ATTGAATTTA
Statistics
Matches: 182, Mismatches: 23, Indels: 7
0.86 0.11 0.03
Matches are distributed among these distances:
107 26 0.14
108 55 0.30
109 56 0.31
110 45 0.25
ACGTcount: A:0.29, C:0.17, G:0.19, T:0.35
Consensus pattern (108 bp):
TTTCAAAATAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAACGTGCCCTAAGGTGCTGGGTTTC
GTTTTTCTCGTTCAACCAAATAGCCAAATATCCTTCTTAAAAA
Found at i:6440440 original size:110 final size:109
Alignment explanation
Indices: 6440196--6440511 Score: 433
Period size: 108 Copynumber: 2.9 Consensus size: 109
6440186 AAAAGAAATT
* * * * * *
6440196 TTTCTAAATAAGGCAATATTTTGCATTTGGAAGTTCGAGAAAGCGTGCCCTAATGTGCTGGGTTT
1 TTTCAAAATAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACGTGCCCTAAGGTGCTGGGTTT
* * *
6440261 CG-TTTTTCTCGTTCGACCTAATAGCCAAATATCCTTTTAAAAA
66 CGATTTTTCTCGTTCAACCAAATAACCAAATATCCTTTTAAAAA
* * *
6440304 TTTTAAAATAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACATGCCCTAAGGTGCTGGGTGT
1 TTTCAAAATAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACGTGCCCTAAGGTGCTGGGTTT
**
6440369 CGATTTTTCTCGTTCAACCAAATAACTTAATATCCTTCTTAAAAA
66 CGATTTTTCTCGTTCAACCAAATAACCAAATATCCTT-TTAAAAA
*
6440414 TTTCAAAATAAGGCAATGTTTTGCGTTTGGAAATTCGAG-GAACGTGCCCTAAGGTGCTGGGTTT
1 TTTCAAAATAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACGTGCCCTAAGGTGCTGGGTTT
* **
6440478 CGA--TTTCTCGTTTAACCAAATTGCCAAATATCCT
66 CGATTTTTCTCGTTCAACCAAATAACCAAATATCCT
6440512 ATTGAATTTA
Statistics
Matches: 183, Mismatches: 23, Indels: 5
0.87 0.11 0.02
Matches are distributed among these distances:
107 26 0.14
108 58 0.32
109 54 0.30
110 45 0.25
ACGTcount: A:0.29, C:0.17, G:0.19, T:0.35
Consensus pattern (109 bp):
TTTCAAAATAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACGTGCCCTAAGGTGCTGGGTTT
CGATTTTTCTCGTTCAACCAAATAACCAAATATCCTTTTAAAAA
Found at i:6443975 original size:20 final size:19
Alignment explanation
Indices: 6443934--6444028 Score: 66
Period size: 20 Copynumber: 4.7 Consensus size: 19
6443924 AAAAAAAGGC
* *
6443934 AAAAAAAAGAAGGAAAAGAA
1 AAAAAAAAGAA-AAAAATAA
6443954 AAAAAAAAGAAAAAAATCAA
1 AAAAAAAAGAAAAAAAT-AA
**
6443974 AATCAAAAGCAGAAAAAATAA
1 AAAAAAAAG-A-AAAAAATAA
* *
6443995 AAAAATCAAA-AATAAAAGAA
1 AAAAA--AAAGAAAAAAATAA
*
6444015 AAAGAAAAGAAAAA
1 AAAAAAAAGAAAAA
6444029 GAAAAAGGAG
Statistics
Matches: 59, Mismatches: 10, Indels: 13
0.72 0.12 0.16
Matches are distributed among these distances:
18 3 0.05
19 8 0.14
20 31 0.53
21 7 0.12
22 7 0.12
23 3 0.05
ACGTcount: A:0.80, C:0.04, G:0.11, T:0.05
Consensus pattern (19 bp):
AAAAAAAAGAAAAAAATAA
Found at i:6443990 original size:30 final size:30
Alignment explanation
Indices: 6443947--6444028 Score: 103
Period size: 30 Copynumber: 2.7 Consensus size: 30
6443937 AAAAAGAAGG
6443947 AAAAGAAAAAAAAAAGAAAAAAATC-AAAAT
1 AAAAG-AAAAAAAAAGAAAAAAATCAAAAAT
* * *
6443977 CAAAAGCAGAAAAAATAAAAAAATCAAAAAT
1 -AAAAGAAAAAAAAAGAAAAAAATCAAAAAT
6444008 AAAAGAAAAAGAAAAGAAAAA
1 AAAAGAAAAA-AAAAGAAAAA
6444029 GAAAAAGGAG
Statistics
Matches: 43, Mismatches: 6, Indels: 4
0.81 0.11 0.08
Matches are distributed among these distances:
30 24 0.56
31 19 0.44
ACGTcount: A:0.80, C:0.05, G:0.09, T:0.06
Consensus pattern (30 bp):
AAAAGAAAAAAAAAGAAAAAAATCAAAAAT
Found at i:6444905 original size:7 final size:7
Alignment explanation
Indices: 6444893--6444951 Score: 95
Period size: 7 Copynumber: 8.7 Consensus size: 7
6444883 CAAAAAAATG
6444893 AAATGAA
1 AAATGAA
6444900 AAATG-A
1 AAATGAA
*
6444906 GAATGAA
1 AAATGAA
6444913 AAATGAA
1 AAATGAA
6444920 AAATGAA
1 AAATGAA
6444927 AAAT-AA
1 AAATGAA
6444933 AAATGAA
1 AAATGAA
6444940 AAATGAA
1 AAATGAA
6444947 AAATG
1 AAATG
6444952 GAAAGGCTAA
Statistics
Matches: 48, Mismatches: 2, Indels: 4
0.89 0.04 0.07
Matches are distributed among these distances:
6 11 0.23
7 37 0.77
ACGTcount: A:0.69, C:0.00, G:0.15, T:0.15
Consensus pattern (7 bp):
AAATGAA
Found at i:6444910 original size:13 final size:13
Alignment explanation
Indices: 6444886--6444948 Score: 92
Period size: 13 Copynumber: 4.8 Consensus size: 13
6444876 TTTGAGTCAA
6444886 AAAAATG-AAATG
1 AAAAATGAAAATG
*
6444898 AAAAATGAGAATG
1 AAAAATGAAAATG
6444911 AAAAATGAAAAATG
1 AAAAATG-AAAATG
*
6444925 AAAAATAAAAATG
1 AAAAATGAAAATG
6444938 AAAAATGAAAA
1 AAAAATGAAAA
6444949 ATGGAAAGGC
Statistics
Matches: 45, Mismatches: 4, Indels: 3
0.87 0.08 0.06
Matches are distributed among these distances:
12 7 0.16
13 27 0.60
14 11 0.24
ACGTcount: A:0.71, C:0.00, G:0.14, T:0.14
Consensus pattern (13 bp):
AAAAATGAAAATG
Found at i:6444943 original size:27 final size:27
Alignment explanation
Indices: 6444886--6444951 Score: 100
Period size: 27 Copynumber: 2.5 Consensus size: 27
6444876 TTTGAGTCAA
* *
6444886 AAAAATG--AAATGAAAAATGAGAATG
1 AAAAATGAAAAATGAAAAATAAAAATG
6444911 AAAAATGAAAAATGAAAAATAAAAATG
1 AAAAATGAAAAATGAAAAATAAAAATG
6444938 AAAAATGAAAAATG
1 AAAAATGAAAAATG
6444952 GAAAGGCTAA
Statistics
Matches: 37, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
25 7 0.19
27 30 0.81
ACGTcount: A:0.70, C:0.00, G:0.15, T:0.15
Consensus pattern (27 bp):
AAAAATGAAAAATGAAAAATAAAAATG
Found at i:6444949 original size:20 final size:21
Alignment explanation
Indices: 6444893--6444951 Score: 95
Period size: 20 Copynumber: 2.9 Consensus size: 21
6444883 CAAAAAAATG
*
6444893 AAATGAAAAATG-AGAATGAA
1 AAATGAAAAATGAAAAATGAA
6444913 AAATGAAAAATGAAAAAT-AA
1 AAATGAAAAATGAAAAATGAA
6444933 AAATGAAAAATGAAAAATG
1 AAATGAAAAATGAAAAATG
6444952 GAAAGGCTAA
Statistics
Matches: 36, Mismatches: 1, Indels: 3
0.90 0.03 0.08
Matches are distributed among these distances:
20 32 0.89
21 4 0.11
ACGTcount: A:0.69, C:0.00, G:0.15, T:0.15
Consensus pattern (21 bp):
AAATGAAAAATGAAAAATGAA
Found at i:6446708 original size:219 final size:219
Alignment explanation
Indices: 6446373--6447067 Score: 1072
Period size: 219 Copynumber: 3.2 Consensus size: 219
6446363 ATCGCATCAA
* * * * * *
6446373 ATCTTATCT-CCTAGAGATTACAACAGAGCAGATCGAAGAC-ACT-ATCCTATCTCCCTGAAGTT
1 ATCTTATCTCCCT-GAGATTACAGCGGAGTAGATTGAAG-CTAGTAATCCTATCTCTCTGAAGTT
* * * * *
6446435 ACAGTGCAGCGGATTAAAATAAAGGATCTTATCTCTCTGAATTTACAACAGAGTAGATCGCATTA
64 ACAGTGGAGCGGATTAAAATAAAAGATCTTATCTCTCTGAAGTTACAGCAGAGTAGATCGCATCA
* * *
6446500 GGTCTTATTTCCCTGAGGTTATAGTGGAGTAGACCGAAGAATTTCAAATCTTATCTCCCTGAGGT
129 GGTCTTATCTCCCTGAGGTTACAGTGGAGTAGACCGAAGAATTTCAGATCTTATCTCCCTGAGGT
* *
6446565 TACAGTGGAGTAGATTGAAGCCAGAT
194 TACAGTGGAGCAGATTGAAGCCAGAG
*
6446591 ATCTTATCTCCCTGAGATTACAGCGGAATAGATTGAAGCTAGTAATCCTATCTCTCTGAAGTTAC
1 ATCTTATCTCCCTGAGATTACAGCGGAGTAGATTGAAGCTAGTAATCCTATCTCTCTGAAGTTAC
* * *
6446656 AGTGGAGCAGATTAAAATAAAAGATCTCATCTCTCTGAAGTTACAGCAGAGTAGACCGCATCAGG
66 AGTGGAGCGGATTAAAATAAAAGATCTTATCTCTCTGAAGTTACAGCAGAGTAGATCGCATCAGG
* * *
6446721 TCTTATCTCCCTGAGGTTACAGTGGAGTAGACTGAAAAATTTCAGATCTTATCTCCCTAAGGTTA
131 TCTTATCTCCCTGAGGTTACAGTGGAGTAGACCGAAGAATTTCAGATCTTATCTCCCTGAGGTTA
*
6446786 CAGTGGAGCAGATTAAAGCCAGAG
196 CAGTGGAGCAGATTGAAGCCAGAG
*
6446810 ATCTTACCTCCCTGAGATTACAGCGGAGTAGATTGAAGCTAGTAATCCTATCTCTCTGAAGTTAC
1 ATCTTATCTCCCTGAGATTACAGCGGAGTAGATTGAAGCTAGTAATCCTATCTCTCTGAAGTTAC
* *
6446875 AGTGGAGCGGATTAAAATAAATGATCTTATCTCCCTGAAGTTACAGCAGAGTAGATCGCATCAGG
66 AGTGGAGCGGATTAAAATAAAAGATCTTATCTCTCTGAAGTTACAGCAGAGTAGATCGCATCAGG
6446940 TCTTATCTCCCTGAGGTTACAGTGGAGTAGACCGAAGAATTTCAGATCTTATCTCCCTGAGGTTA
131 TCTTATCTCCCTGAGGTTACAGTGGAGTAGACCGAAGAATTTCAGATCTTATCTCCCTGAGGTTA
*
6447005 CAGTGGAGCAGATTGAAGCCAAAG
196 CAGTGGAGCAGATTGAAGCCAGAG
* * *
6447029 ATCTTATCTCCCTGAGGTTACAGTGGAGCAGATTGAAGC
1 ATCTTATCTCCCTGAGATTACAGCGGAGTAGATTGAAGC
6447068 CAGAGATCTT
Statistics
Matches: 434, Mismatches: 40, Indels: 5
0.91 0.08 0.01
Matches are distributed among these distances:
217 1 0.00
218 31 0.07
219 402 0.93
ACGTcount: A:0.31, C:0.20, G:0.22, T:0.28
Consensus pattern (219 bp):
ATCTTATCTCCCTGAGATTACAGCGGAGTAGATTGAAGCTAGTAATCCTATCTCTCTGAAGTTAC
AGTGGAGCGGATTAAAATAAAAGATCTTATCTCTCTGAAGTTACAGCAGAGTAGATCGCATCAGG
TCTTATCTCCCTGAGGTTACAGTGGAGTAGACCGAAGAATTTCAGATCTTATCTCCCTGAGGTTA
CAGTGGAGCAGATTGAAGCCAGAG
Found at i:6447270 original size:87 final size:88
Alignment explanation
Indices: 6446502--6448021 Score: 683
Period size: 87 Copynumber: 17.4 Consensus size: 88
6446492 TCGCATTAGG
* * * *
6446502 TCTTATTTCCCTGAGGTTATAGTGGAGTAGACCGAAGAATT-TCAAATCTTATCTCCCTGAGGTT
1 TCTTATCTCCCTGAGGTTACAGTGGAGCAGACCGAAGAATTAT-AGATCTTATCTCCCTGAGGTT
* * *
6446566 ACAGTGGAGTAGATTGAAGCCAGATA
65 ACAGTGGAGCAGATCGAAGTCAG--A
* * ** ** * * * *
6446592 TCTTATCTCCCTGAGATTACAGCGGAATAGATTGAAG--CTAGTA-ATCCTATCTCTCTGAAGTT
1 TCTTATCTCCCTGAGGTTACAGTGGAGCAGACCGAAGAATTA-TAGATCTTATCTCCCTGAGGTT
** * *
6446654 ACAGTGGAGCAGATTAAAATAAAAGA
65 ACAGTGGAGCAGATCGAAGT--CAGA
* * * ** * * * *
6446680 TCTCATCTCTCTGAAGTTACAGCAGAGTAGACC---GCA-T-CAGGTCTTATCTCCCTGAGGTTA
1 TCTTATCTCCCTGAGGTTACAGTGGAGCAGACCGAAGAATTATAGATCTTATCTCCCTGAGGTTA
* *
6446740 CAGTGGAGTAGA-CTGAAAAATTTCAGA
66 CAGTGGAGCAGATC-G---AA-GTCAGA
* ** *** * * *
6446767 TCTTATCTCCCTAAGGTTACAGTGGAGCAGA-TTAA-AGCCAGAGATCTTACCTCCCTGAGATTA
1 TCTTATCTCCCTGAGGTTACAGTGGAGCAGACCGAAGAATTATAGATCTTATCTCCCTGAGGTTA
* * *
6446830 CAGCGGAGTAGATTGAAG-CTAGTAA
66 CAGTGGAGCAGATCGAAGTC-AG--A
* * * * ** * *
6446855 TCCTATCTCTCTGAAGTTACAGTGGAGCGGA-TTAA-AA-TAAATGATCTTATCTCCCTGAAGTT
1 TCTTATCTCCCTGAGGTTACAGTGGAGCAGACCGAAGAATTATA-GATCTTATCTCCCTGAGGTT
** * * *
6446917 ACAGCAGAGTAGATCGCA-TCAGG
65 ACAGTGGAGCAGATCGAAGTCAGA
*
6446940 TCTTATCTCCCTGAGGTTACAGTGGAGTAGACCGAAGAATT-TCAGATCTTATCTCCCTGAGGTT
1 TCTTATCTCCCTGAGGTTACAGTGGAGCAGACCGAAGAATTAT-AGATCTTATCTCCCTGAGGTT
* *
6447004 ACAGTGGAGCAGATTGAAGCCAAAGA
65 ACAGTGGAGCAGATCGAAGTC--AGA
** ** * *
6447030 TCTTATCTCCCTGAGGTTACAGTGGAGCAGATTGAAG--CCAGAGATCTTATCTCCCTGAGATTA
1 TCTTATCTCCCTGAGGTTACAGTGGAGCAGACCGAAGAATTATAGATCTTATCTCCCTGAGGTTA
* * * * *
6447093 TAGCGGAGCAGGTCGAAGACACTA
66 CAGTGGAGCAGATCGAAGTCA-GA
* * * * ** * * * *
6447117 TCCTATCTCCTTGAAGTTACAGTGGAGCGGA-TTAA-AATAAAAGATCTTATCTCTCTGAAGTTA
1 TCTTATCTCCCTGAGGTTACAGTGGAGCAGACCGAAGAATTATAGATCTTATCTCCCTGAGGTTA
* * * *
6447180 CAGTAGAGTAGATCGCA-TCAGG
66 CAGTGGAGCAGATCGAAGTCAGA
* *
6447202 TCTTATCTCCCCGAGGTTACAGTGGAGTAGACCGAAGAATTATAGATCTTATCTCCCTGAGGTTA
1 TCTTATCTCCCTGAGGTTACAGTGGAGCAGACCGAAGAATTATAGATCTTATCTCCCTGAGGTTA
* *
6447267 CAGTGGAGCAGATTGAAGCCAGAGA
66 CAGTGGAGCAGATCGAAGTC--AGA
* * * * ** * * * * *
6447292 TCTTATCTCTCTAAGATTATAGCAGAGCAGATCGAAGACA--CT--ATCCTATCTCACTGAAGTT
1 TCTTATCTCCCTGAGGTTACAGTGGAGCAGACCGAAGA-ATTATAGATCTTATCTCCCTGAGGTT
** * *
6447353 ACAGTGGAGC-GAATTAAAATAAAGAA
65 ACAGTGGAGCAG-ATCGAAGT-CAG-A
* * * ** * * * *
6447379 TCTTATCTCTCTGAAGTTACAGTAGAGTGGATC---GCA-T-CAGGTCTTATCTCCCTGAGGTTA
1 TCTTATCTCCCTGAGGTTACAGTGGAGCAGACCGAAGAATTATAGATCTTATCTCCCTGAGGTTA
** * *
6447439 CAGTGGAATAAACCGAAGAATTTCAGA
66 CAGTGGAGCAGATCGAAG----TCAGA
* ** * *
6447466 TCTTATCTCTCTGAGGTTACAGTGGAGCAGATTGAAG--TCAGAGATCTTATCTCCCTGAGGTTA
1 TCTTATCTCCCTGAGGTTACAGTGGAGCAGACCGAAGAATTATAGATCTTATCTCCCTGAGGTTA
* *
6447529 CAGTGGAGCAGATTGAAGCCAGAGA
66 CAGTGGAGCAGATCGAAGTC--AGA
* * ** * * * *
6447554 TCTTATCTCCCTGAGATTACAGCGGAGCAGGTCGAAGACA--CT--ATCCTATCTCCGTGAAGTT
1 TCTTATCTCCCTGAGGTTACAGTGGAGCAGACCGAAGA-ATTATAGATCTTATCTCCCTGAGGTT
* ** * *
6447615 ACAGTGGAGCGGATTAAAATAAAGGA
65 ACAGTGGAGCAGATCGAAGT-CA-GA
* * ** * * * * *
6447641 TCTTATCTCTCTGAAGTTACAGCAGAGTAGATC---GCA-T-CAGGTCTTATCTCCCTGAGGTTA
1 TCTTATCTCCCTGAGGTTACAGTGGAGCAGACCGAAGAATTATAGATCTTATCTCCCTGAGGTTA
* *
6447701 CAGTGGAGTAGACCGAAGAATTTCAGA
66 CAGTGGAGCAGATCGAAG----TCAGA
* ** ** * * *
6447728 TCTTATCTCCCTGGGGTTACAGTGGAGCAGATTGAAG--CCATAGATATTATCTCCCAGAGATTA
1 TCTTATCTCCCTGAGGTTACAGTGGAGCAGACCGAAGAATTATAGATCTTATCTCCCTGAGGTTA
** * * *
6447791 CAACGGAGCAGATCAAAGACACTA
66 CAGTGGAGCAGATCGAAGTCA-GA
* * * * ** ** *
6447815 TCCTATCTCCCTGAAGTTACAGTGCAGCGGA-TTAA-AATTA-AGGATCTTATCTCTTTGAAGTT
1 TCTTATCTCCCTGAGGTTACAGTGGAGCAGACCGAAGAATTATA-GATCTTATCTCCCTGAGGTT
* * * *
6447877 ACAGTAGAGTAGATCGCA-TCAGG
65 ACAGTGGAGCAGATCGAAGTCAGA
* * * *
6447900 TCTTATTTCCCTGAGGTTACAGTGGAGTAGACCGAAGAATTTTAAATCTTATCTCCCTGAGGTTA
1 TCTTATCTCCCTGAGGTTACAGTGGAGCAGACCGAAGAATTATAGATCTTATCTCCCTGAGGTTA
* * *
6447965 CAGTGGAGTAGATTGAAGCCAGA
66 CAGTGGAGCAGATCGAAGTCAGA
6447988 GGTCTTATCTCCCTGAGGTTACAGTGGAGCAGAC
1 --TCTTATCTCCCTGAGGTTACAGTGGAGCAGAC
6448022 AAAAGAAACC
Statistics
Matches: 1062, Mismatches: 283, Indels: 170
0.70 0.19 0.11
Matches are distributed among these distances:
83 2 0.00
84 3 0.00
85 159 0.15
86 28 0.03
87 428 0.40
88 208 0.20
89 5 0.00
90 228 0.21
91 1 0.00
ACGTcount: A:0.30, C:0.20, G:0.23, T:0.28
Consensus pattern (88 bp):
TCTTATCTCCCTGAGGTTACAGTGGAGCAGACCGAAGAATTATAGATCTTATCTCCCTGAGGTTA
CAGTGGAGCAGATCGAAGTCAGA
Found at i:6447604 original size:131 final size:130
Alignment explanation
Indices: 6446199--6448020 Score: 876
Period size: 131 Copynumber: 13.9 Consensus size: 130
6446189 TGAATATTTC
* * * *
6446199 AGATCTTATCTCCTTGAGGTTATAGTGGAGCAGATTGAAGCCAGAGATCTTATCTCCCTAAAATT
1 AGATCTTATCTCCCTGAGGTTACAGTGGAGCAGATTGAA-CCAGAGATCTTATCTCCCTGAGATT
* * * * * * * *
6446264 ACCGTGGAGCAGGTCGAAGACACTATCCTATCTCCCTGAAGTTACAGTGGAGCGGATTAAAAT-A
65 ACAGTGGAGCAGATCGAAGACACGATCTTATCTCCCTGAGGTTACAGTGGAGCAGATTGAAGTCA
6446328 A
130 A
** * * * * * *
6446329 AGGATCTTATCTCTTTGAAGTTACAGTAGAGTAGATCGCATCA-A-ATCTTATCT-CCTAGAGAT
1 A-GATCTTATCTCCCTGAGGTTACAGTGGAGCAGATTGAACCAGAGATCTTATCTCCCT-GAGAT
*** * * * * * * *
6446391 TACAACAGAGCAGATCGAAGACACTATCCTATCTCCCTGAAGTTACAGTGCAGCGGATTAAAAT-
64 TACAGTGGAGCAGATCGAAGACACGATCTTATCTCCCTGAGGTTACAGTGGAGCAGATTGAAGTC
6446455 AA
129 AA
* ** *** * * * ** * *
6446457 AGGATCTTATCTCTCTGAATTTACAACAGAGTAGATCGCATTAG-G-TCTTATTTCCCTGAGGTT
1 A-GATCTTATCTCCCTGAGGTTACAGTGGAGCAGATTGAACCAGAGATCTTATCTCCCTGAGATT
* * * * *
6446520 ATAGTGGAGTAGACCGAAGA-ATTTCAAATCTTATCTCCCTGAGGTTACAGTGGAGTAGATTGAA
65 ACAGTGGAGCAGATCGAAGACA---C-GATCTTATCTCCCTGAGGTTACAGTGGAGCAGATTGAA
* *
6446584 GCCAG
126 GTCAA
* * * ** * * *
6446589 ATATCTTATCTCCCTGAGATTACAGCGGAATAGATTGAAGCTAGTA-ATCCTATCTCTCTGA-AG
1 AGATCTTATCTCCCTGAGGTTACAGTGGAGCAGATTGAA-CCAG-AGATCTTATCTCCCTGAGA-
** * * * * * * ** * ** *
6446652 TTACAGTGGAGCAGATTAAAATAAAAGATCTCATCTCTCTGAAGTTACAGCAGAGTAGACCGCA-
63 TTACAGTGGAGCAGA-TCGAAGACACGATCTTATCTCCCTGAGGTTACAGTGGAGCAGATTGAAG
6446716 TC--
127 TCAA
* * * ** * * *
6446718 AGGTCTTATCTCCCTGAGGTTACAGTGGAGTAGACTGAAAAATTTCAGATCTTATCTCCCTAAGG
1 AGATCTTATCTCCCTGAGGTTACAGTGGAGCAGATTGAACCA---GAGATCTTATCTCCCTGAGA
** * * * * * *
6446783 TTACAGTGGAGCAGATTAAAGCCAGAGATCTTACCTCCCTGAGATTACAGCGGAGTAGATTGAAG
63 TTACAGTGGAGCAGATCGAAGACA-CGATCTTATCTCCCTGAGGTTACAGTGGAGCAGATTGAAG
*
6446848 -C-T
127 TCAA
* * * * * ** *
6446850 AGTAATCCTATCTCTCTGAAGTTACAGTGGAGCGGATTAAAATAAATGATCTTATCTCCCTGA-A
1 AG--ATCTTATCTCCCTGAGGTTACAGTGGAGCAGATTGAACCAGA-GATCTTATCTCCCTGAGA
** * * * * * **
6446914 GTTACAGCAGAGTAGATCGCA-TCA-GGTCTTATCTCCCTGAGGTTACAGTGGAGTAGACCGAAG
63 -TTACAGTGGAGCAGATCGAAGACACGATCTTATCTCCCTGAGGTTACAGTGGAGCAGATTGAAG
***
6446977 AATTTC
127 --TCAA
* *
6446983 AGATCTTATCTCCCTGAGGTTACAGTGGAGCAGATTGAAGCCAAAGATCTTATCTCCCTGAGGTT
1 AGATCTTATCTCCCTGAGGTTACAGTGGAGCAGATTGAA-CCAGAGATCTTATCTCCCTGAGATT
* * * * * * * * *
6447048 ACAGTGGAGCAGATTGAAGCCAGAGATCTTATCTCCCTGAGATTATAGCGGAGCAGGTCGAAGAC
65 ACAGTGGAGCAGATCGAAGACA-CGATCTTATCTCCCTGAGGTTACAGTGGAGCAGATTGAAGTC
6447113 -A
129 AA
** * * * * * ** * *
6447114 CTATCCTATCTCCTTGAAGTTACAGTGGAGCGGATTAAAATAAAAGATCTTATCTCTCTGA-AGT
1 AGATCTTATCTCCCTGAGGTTACAGTGGAGCAGATT-GAACCAGAGATCTTATCTCCCTGAGA-T
* * * * * * * **
6447178 TACAGTAGAGTAGATCGCA-TCA-GGTCTTATCTCCCCGAGGTTACAGTGGAGTAGACCGAAGAA
64 TACAGTGGAGCAGATCGAAGACACGATCTTATCTCCCTGAGGTTACAGTGGAGCAGATTGAAG--
* *
6447241 TTAT
127 TCAA
* *
6447245 AGATCTTATCTCCCTGAGGTTACAGTGGAGCAGATTGAAGCCAGAGATCTTATCTCTCTAAGATT
1 AGATCTTATCTCCCTGAGGTTACAGTGGAGCAGATTGAA-CCAGAGATCTTATCTCCCTGAGATT
* ** * * * * * *
6447310 ATAGCAGAGCAGATCGAAGACACTATCCTATCTCACTGAAGTTACAGTGGAGC-GAATTAAAAT-
65 ACAGTGGAGCAGATCGAAGACACGATCTTATCTCCCTGAGGTTACAGTGGAGCAG-ATTGAAGTC
6447373 AA
129 AA
* * * ** * * * *
6447375 AGAATCTTATCTCTCTGAAGTTACAGTAGAGTGGATCGCATCAG-G-TCTTATCTCCCTGAGGTT
1 AG-ATCTTATCTCCCTGAGGTTACAGTGGAGCAGATTGAACCAGAGATCTTATCTCCCTGAGATT
** * * *
6447438 ACAGTGGAATAAACCGAAGA-ATTTCAGATCTTATCTCTCTGAGGTTACAGTGGAGCAGATTGAA
65 ACAGTGGAGCAGATCGAAGACA---C-GATCTTATCTCCCTGAGGTTACAGTGGAGCAGATTGAA
*
6447502 GTCAG
126 GTCAA
6447507 AGATCTTATCTCCCTGAGGTTACAGTGGAGCAGATTGAAGCCAGAGATCTTATCTCCCTGAGATT
1 AGATCTTATCTCCCTGAGGTTACAGTGGAGCAGATTGAA-CCAGAGATCTTATCTCCCTGAGATT
* * * * * * * * *
6447572 ACAGCGGAGCAGGTCGAAGACACTATCCTATCTCCGTGAAGTTACAGTGGAGCGGATTAAAAT-A
65 ACAGTGGAGCAGATCGAAGACACGATCTTATCTCCCTGAGGTTACAGTGGAGCAGATTGAAGTCA
6447636 A
130 A
* * ** * * * * *
6447637 AGGATCTTATCTCTCTGAAGTTACAGCAGAGTAGATCGCATCAG-G-TCTTATCTCCCTGAGGTT
1 A-GATCTTATCTCCCTGAGGTTACAGTGGAGCAGATTGAACCAGAGATCTTATCTCCCTGAGATT
* * *
6447700 ACAGTGGAGTAGACCGAAGA-ATTTCAGATCTTATCTCCCTGGGGTTACAGTGGAGCAGATTGAA
65 ACAGTGGAGCAGATCGAAGACA---C-GATCTTATCTCCCTGAGGTTACAGTGGAGCAGATTGAA
* *
6447764 GCCAT
126 GTCAA
* * * ** ** * ** *
6447769 AGATATTATCTCCCAGAGATTACAACGGAGCAGATCAAAGACA-CTATCCTATCTCCCTGA-AGT
1 AGATCTTATCTCCCTGAGGTTACAGTGGAGCAGATTGAA-CCAGAGATCTTATCTCCCTGAGA-T
* * * * * * ** * * * * *
6447832 TACAGTGCAGCGGAT-TAAAATTAAGGATCTTATCTCTTTGAAGTTACAGTAGAGTAGATCGCA-
64 TACAGTGGAGCAGATCGAAGA--CACGATCTTATCTCCCTGAGGTTACAGTGGAGCAGATTGAAG
6447895 TC--
127 TCAA
* * * ** ** * * *
6447897 AGGTCTTATTTCCCTGAGGTTACAGTGGAGTAGACCGAAGAATTTTAAATCTTATCTCCCTGAGG
1 AGATCTTATCTCCCTGAGGTTACAGTGGAGCAGATTGAACCA---GAGATCTTATCTCCCTGAGA
* * *
6447962 TTACAGTGGAGTAGATTGAAGCCA-GAGGTCTTATCTCCCTGAGGTTACAGTGGAGCAGA
63 TTACAGTGGAGCAGATCGAAGACACGA--TCTTATCTCCCTGAGGTTACAGTGGAGCAGA
6448021 CAAAAGAAAC
Statistics
Matches: 1280, Mismatches: 332, Indels: 159
0.72 0.19 0.09
Matches are distributed among these distances:
127 7 0.01
128 258 0.20
129 74 0.06
130 29 0.02
131 641 0.50
132 93 0.07
133 54 0.04
134 118 0.09
135 5 0.00
136 1 0.00
ACGTcount: A:0.30, C:0.20, G:0.22, T:0.28
Consensus pattern (130 bp):
AGATCTTATCTCCCTGAGGTTACAGTGGAGCAGATTGAACCAGAGATCTTATCTCCCTGAGATTA
CAGTGGAGCAGATCGAAGACACGATCTTATCTCCCTGAGGTTACAGTGGAGCAGATTGAAGTCAA
Found at i:6447614 original size:218 final size:214
Alignment explanation
Indices: 6446984--6448149 Score: 889
Period size: 218 Copynumber: 5.3 Consensus size: 214
6446974 AAGAATTTCA
* * * ** *
6446984 GATCTTATCTCCCTGAGGTTACAGTGGAGCAGATTGAAGCCAAAGATCTTATCTCCCTGAGGTTA
1 GATCTTATCTCCCTGAAGTTACAGTAGAGTAGACCGAA-TC--AGATCTTATCTCCCTGAGGTTA
* * * * * * *
6447049 CAGTGGAGCAGATTGAAGCCAGAGATCTTATCTCCCTGAGATTATAGCGGAGCAGGTCGAAGACA
63 CAGTGGAGCAGATTGAAGTCAGAGATCTTATCTCCCTGAGGTTACAGTGGAGCAGATTGAAGCCA
** * * * ** *
6447114 CTATCCTATCTCCTTGA-AGTTACAGTGGAGC-GGATTAAAATAAAAGATCTTATCTCTCTGAAG
128 AGATCTTATCTCCCTGAGA-TTACAGTGGAGCAGG--TAAAAGAAACTATCCTATCTCTCTGAAG
** *** *
6447177 TTACAGTAGAGTAGA-TCGCATCAG
190 TTACAGTAGAGCGGATTAAAATAAG
* * * *
6447201 G-TCTTATCTCCCCGAGGTTACAGTGGAGTAGACCGAAGAATTATAGATCTTATCTCCCTGAGGT
1 GATCTTATCTCCCTGAAGTTACAGTAGAGTAGACC---GAA-T-CAGATCTTATCTCCCTGAGGT
* * * * * ** * *
6447265 TACAGTGGAGCAGATTGAAGCCAGAGATCTTATCTCTCTAAGATTATAGCAGAGCAGATCGAAGA
61 TACAGTGGAGCAGATTGAAGTCAGAGATCTTATCTCCCTGAGGTTACAGTGGAGCAGATTGAAGC
** * * ** * ** *
6447330 CACTATCCTATCTCACTGA-AGTTACAGTGGAGCGAATTAAAATAAAGAATCTTATCTCTCTGAA
126 CAAGATCTTATCTCCCTGAGA-TTACAGTGGAGC-AGGTAAAAGAAACTATCCTATCTCTCTGAA
* *** *
6447394 GTTACAGTAGAGTGGA-TCGCATCAG
189 GTTACAGTAGAGCGGATTAAAATAAG
* * * * *
6447419 G-TCTTATCTCCCTGAGGTTACAGTGGAATAAACCGAAGAATTTCAGATCTTATCTCTCTGAGGT
1 GATCTTATCTCCCTGAAGTTACAGTAGAGTAGACC---GAA--TCAGATCTTATCTCCCTGAGGT
6447483 TACAGTGGAGCAGATTGAAGTCAGAGATCTTATCTCCCTGAGGTTACAGTGGAGCAGATTGAAGC
61 TACAGTGGAGCAGATTGAAGTCAGAGATCTTATCTCCCTGAGGTTACAGTGGAGCAGATTGAAGC
* ** *
6447548 CAGAGATCTTATCTCCCTGAGATTACAGCGGAGCAGGTCGAAGACACTATCCTATCTC-CGTGAA
126 CA-AGATCTTATCTCCCTGAGATTACAGTGGAGCAGGTAAAAGAAACTATCCTATCTCTC-TGAA
*
6447612 GTTACAGTGGAGCGGATTAAAATAAAG
189 GTTACAGTAGAGCGGATTAAAAT-AAG
* * * * *
6447639 GATCTTATCTCTCTGAAGTTACAGCAGAGTAGATCGCATCAGGTCTTATCTCCCTGAGGTTACAG
1 GATCTTATCTCCCTGAAGTTACAGTAGAGTAGACCGAATCAGATCTTATCTCCCTGAGGTTACAG
* ** *** *
6447704 TGGAGTAGACCGAAGAATTTCAGATCTTATCTCCCTGGGGTTACAGTGGAGCAGATTGAAGCCAT
66 TGGAGCAGATTGAAG--TCAGAGATCTTATCTCCCTGAGGTTACAGTGGAGCAGATTGAAGCCA-
* * ** * * * *
6447769 AGATATTATCTCCCAGAGATTACAACGGAGCAGATCAAAGACACTATCCTATCTCCCTGAAGTTA
128 AGATCTTATCTCCCTGAGATTACAGTGGAGCAGGTAAAAGAAACTATCCTATCTCTCTGAAGTTA
6447834 CAGT-GCAGCGGATTAAAATTAAG
193 CAGTAG-AGCGGATTAAAA-TAAG
** * * * *
6447857 GATCTTATCTCTTTGAAGTTACAGTAGAGTAGATCGCATCAGGTCTTATTTCCCTGAGGTTACAG
1 GATCTTATCTCCCTGAAGTTACAGTAGAGTAGACCGAATCAGATCTTATCTCCCTGAGGTTACAG
* ** *** * *
6447922 TGGAGTAGACCGAAGAATTTTAAATCTTATCTCCCTGAGGTTACAGTGGAGTAGATTGAAGCCAG
66 TGGAGCAGATTGAAG--TCAGAGATCTTATCTCCCTGAGGTTACAGTGGAGCAGATTGAAGCCA-
* * ** * *
6447987 AGGTCTTATCTCCCTGAGGTTACAGTGGAGCAGACAAAAGAAACCAATCCTATCTCCCTGAAGTT
128 AGATCTTATCTCCCTGAGATTACAGTGGAGCAGGTAAAAGAAA-CTATCCTATCTCTCTGAAGTT
* * * *
6448052 ACGGTGGAGCGGATCAAAACCACA-
192 ACAGTAGAGCGGATTAAAA-TA-AG
* * * * * * * *
6448076 AATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATCGTATCTAG-TCTTATC-CTCCTGAAGTTGC
1 GATCTTATCTCCCTGAAGTTACAGTAGAGTAGACCGAATC-AGATCTTATCTC-CCTGAGGTTAC
6448139 AGTGGAGCAGA
64 AGTGGAGCAGA
6448150 CGAAAGAAAT
Statistics
Matches: 820, Mismatches: 106, Indels: 44
0.85 0.11 0.05
Matches are distributed among these distances:
216 66 0.08
217 3 0.00
218 587 0.72
219 130 0.16
220 8 0.01
221 26 0.03
ACGTcount: A:0.30, C:0.20, G:0.23, T:0.27
Consensus pattern (214 bp):
GATCTTATCTCCCTGAAGTTACAGTAGAGTAGACCGAATCAGATCTTATCTCCCTGAGGTTACAG
TGGAGCAGATTGAAGTCAGAGATCTTATCTCCCTGAGGTTACAGTGGAGCAGATTGAAGCCAAGA
TCTTATCTCCCTGAGATTACAGTGGAGCAGGTAAAAGAAACTATCCTATCTCTCTGAAGTTACAG
TAGAGCGGATTAAAATAAG
Found at i:6447718 original size:262 final size:261
Alignment explanation
Indices: 6446199--6447803 Score: 1125
Period size: 262 Copynumber: 6.1 Consensus size: 261
6446189 TGAATATTTC
* * *
6446199 AGATCTTATCTCCTTGAGGTTATAGTGGAGCAGATTGAAGCCAGAGATCTTATCTCCCTAAAATT
1 AGATCTTATCTCCCTGAGGTTACAGTGGAGCAGATTGAAGCCAGAGATCTTATCTCCCTAAGATT
* *
6446264 ACCGTGGAGCAGGTCGAAGACA-CTATCCTATCTCCCTGAAGTTACAGTGGAGCGGATTAAAATA
66 ACAGTGGAGCAGATCGAAGACATCTATCCTATCTCCCTGAAGTTACAGTGGAGCGGATTAAAATA
* * * *
6446328 AAGGATCTTATCTCTTTGAAGTTACAGTAGAGTAGATCGCATCAAATCTTATCT-CCT-AGAGAT
131 AAGAATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGAATCAGATCTTATCTCCCTGA-AG-T
** * * * * * * *** *
6446391 TACAACAGAGCAGATCGAAG-A-CACTATCCTATCTCCCTGAAGTTACAGTGCAGCGGATTAAAA
194 TACAGTAGAGTAGATCGAAGAATCA-GATCTTATCTCCCTGAGGTTACAGTGGAGCAGACCGAAG
*
6446454 T-AA
258 TCAG
* ** *** * * * ** * * *
6446457 AGGATCTTATCTCTCTGAATTTACAACAGAGTAGATCGCA-TTAG-G-TCTTATTTCCCTGAGGT
1 A-GATCTTATCTCCCTGAGGTTACAGTGGAGCAGATTGAAGCCAGAGATCTTATCTCCCTAAGAT
* * * * * * ** *
6446519 TATAGTGGAGTAGACCGAAGA-ATTTCAAATCTTATCTCCCTGAGGTTACAGTGGAGTAGATT-G
65 TACAGTGGAGCAGATCGAAGACA--TC-TATCCTATCTCCCTGAAGTTACAGTGGAGCGGATTAA
*** * ** * * * * *
6446582 AAGCCAGATATCTTATCTCCCTG-AGATTACAGCGGAATAGATTGAAGCTAGTAATCCTATCTCT
127 AATAAAGA-ATCTTATCTCTCTGAAG-TTACAGTAGAGTAGATCGAATC-AG--ATCTTATCTCC
* * * * * * * ** *
6446646 CTGAAGTTACAGTGGAGCAGAT-TAA-AATAAAAGATCTCATCTCTCTGAAGTTACAGCAGAGTA
187 CTGAAGTTACAGTAGAGTAGATCGAAGAAT--CAGATCTTATCTCCCTGAGGTTACAGTGGAGCA
*
6446709 GACCGCA-TCAG
250 GACCGAAGTCAG
* * ** *
6446720 -G-TCTTATCTCCCTGAGGTTACAGTGGAGTAGACTGAA-AAATTTCAGATCTTATCTCCCTAAG
1 AGATCTTATCTCCCTGAGGTTACAGTGGAGCAGATTGAAGCCA---GAGATCTTATCTCCCTAAG
* ** * *** * * * **
6446782 GTTACAGTGGAGCAGATTAAAGCCAGAGATCTTACCTCCCTG-AGATTACAGCGGAGTAGATTGA
63 ATTACAGTGGAGCAGATCGAAGACATCTATCCTATCTCCCTGAAG-TTACAGTGGAGCGGATT-A
** * * ** ** *
6446846 AGCT--AGTAATCCTATCTCTCTGAAGTTACAGTGGAGCGGATTAAAATAAATGATCTTATCTCC
126 AAATAAAG-AATCTTATCTCTCTGAAGTTACAGTAGAGTAGA-TCGAAT-CA-GATCTTATCTCC
* * * *
6446909 CTGAAGTTACAGCAGAGTAGATC---GCATCAGGTCTTATCTCCCTGAGGTTACAGTGGAGTAGA
187 CTGAAGTTACAGTAGAGTAGATCGAAGAATCAGATCTTATCTCCCTGAGGTTACAGTGGAGCAGA
***
6446971 CCGAAGAATTTC
252 CCGAAG--TCAG
* * *
6446983 AGATCTTATCTCCCTGAGGTTACAGTGGAGCAGATTGAAGCCAAAGATCTTATCTCCCTGAGGTT
1 AGATCTTATCTCCCTGAGGTTACAGTGGAGCAGATTGAAGCCAGAGATCTTATCTCCCTAAGATT
* * *** * * * **
6447048 ACAGTGGAGCAGATTGAAGCCAGAGATCTTATCTCCCTG-AGATTATAGCGGAGCAGG--TCGAA
66 ACAGTGGAGCAGATCGAAGACATCTATCCTATCTCCCTGAAG-TTACAGTGGAGC-GGATTAAAA
* * ** * * ** ** * *
6447110 GACACTATCCTATCTC-CTTGAAGTTACAGTGGAGCGGATTAAAATAAAAGATCTTATCTCTCTG
129 TAAAGAATCTTATCTCTC-TGAAGTTACAGTAGAGTAGA-TCGAAT--CAGATCTTATCTCCCTG
* * * *
6447174 AAGTTACAGTAGAGTAGATC---GCATCAGGTCTTATCTCCCCGAGGTTACAGTGGAGTAGACCG
190 AAGTTACAGTAGAGTAGATCGAAGAATCAGATCTTATCTCCCTGAGGTTACAGTGGAGCAGACCG
* *
6447236 AAGAATTAT
255 AAG--TCAG
*
6447245 AGATCTTATCTCCCTGAGGTTACAGTGGAGCAGATTGAAGCCAGAGATCTTATCTCTCTAAGATT
1 AGATCTTATCTCCCTGAGGTTACAGTGGAGCAGATTGAAGCCAGAGATCTTATCTCCCTAAGATT
* ** * *
6447310 ATAGCAGAGCAGATCGAAGACA-CTATCCTATCTCACTGAAGTTACAGTGGAGCGAATTAAAATA
66 ACAGTGGAGCAGATCGAAGACATCTATCCTATCTCCCTGAAGTTACAGTGGAGCGGATTAAAATA
* * * *
6447374 AAGAATCTTATCTCTCTGAAGTTACAGTAGAGTGGATCGCATCAGGTCTTATCTCCCTGAGGTTA
131 AAGAATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGAATCAGATCTTATCTCCCTGAAGTTA
* * * * * **
6447439 CAGTGGAATAAACCGAAGAATTTCAGATCTTATCTCTCTGAGGTTACAGTGGAGCAGATTGAAGT
196 CAGTAGAGTAGATCGAAGAA--TCAGATCTTATCTCCCTGAGGTTACAGTGGAGCAGACCGAAGT
6447504 CAG
259 CAG
*
6447507 AGATCTTATCTCCCTGAGGTTACAGTGGAGCAGATTGAAGCCAGAGATCTTATCTCCCTGAGATT
1 AGATCTTATCTCCCTGAGGTTACAGTGGAGCAGATTGAAGCCAGAGATCTTATCTCCCTAAGATT
* * *
6447572 ACAGCGGAGCAGGTCGAAGACA-CTATCCTATCTCCGTGAAGTTACAGTGGAGCGGATTAAAATA
66 ACAGTGGAGCAGATCGAAGACATCTATCCTATCTCCCTGAAGTTACAGTGGAGCGGATTAAAATA
* * * * *
6447636 AAGGATCTTATCTCTCTGAAGTTACAGCAGAGTAGATCGCATCAGGTCTTATCTCCCTGAGGTTA
131 AAGAATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGAATCAGATCTTATCTCCCTGAAGTTA
* * * ** *
6447701 CAGTGGAGTAGACCGAAGAATTTCAGATCTTATCTCCCTGGGGTTACAGTGGAGCAGATTGAAGC
196 CAGTAGAGTAGATCGAAGAA--TCAGATCTTATCTCCCTGAGGTTACAGTGGAGCAGACCGAAGT
*
6447766 CAT
259 CAG
* * * **
6447769 AGATATTATCTCCCAGAGATTACAACGGAGCAGAT
1 AGATCTTATCTCCCTGAGGTTACAGTGGAGCAGAT
6447804 CAAAGACACT
Statistics
Matches: 1085, Mismatches: 209, Indels: 102
0.78 0.15 0.07
Matches are distributed among these distances:
255 1 0.00
256 29 0.03
257 1 0.00
258 10 0.01
259 114 0.11
260 62 0.06
261 30 0.03
262 535 0.49
263 188 0.17
264 48 0.04
265 65 0.06
266 2 0.00
ACGTcount: A:0.31, C:0.20, G:0.22, T:0.27
Consensus pattern (261 bp):
AGATCTTATCTCCCTGAGGTTACAGTGGAGCAGATTGAAGCCAGAGATCTTATCTCCCTAAGATT
ACAGTGGAGCAGATCGAAGACATCTATCCTATCTCCCTGAAGTTACAGTGGAGCGGATTAAAATA
AAGAATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGAATCAGATCTTATCTCCCTGAAGTTA
CAGTAGAGTAGATCGAAGAATCAGATCTTATCTCCCTGAGGTTACAGTGGAGCAGACCGAAGTCA
G
Found at i:6448041 original size:44 final size:45
Alignment explanation
Indices: 6447993--6448239 Score: 163
Period size: 44 Copynumber: 5.7 Consensus size: 45
6447983 CCAGAGGTCT
* *
6447993 TATCTCCCTGAGGTTACAGTGGAGCAGA-CAAAAGAAACCAATCC
1 TATCTCCCTGAAGTTGCAGTGGAGCAGATCAAAAGAAACCAATCC
* * * ** * *
6448037 TATCTCCCTGAAGTTACGGTGGAGCGGATCAAAA-CCACAAATCT
1 TATCTCCCTGAAGTTGCAGTGGAGCAGATCAAAAGAAACCAATCC
* * * * * * *
6448081 TATCTCTCTGAAGTTGCAGTAGAGCAGATC----GTATCTAGTCT
1 TATCTCCCTGAAGTTGCAGTGGAGCAGATCAAAAGAAACCAATCC
* *
6448122 TATC-CTCCTGAAGTTGCAGTGGAGCAGA-CGAAAGAAATCAATCC
1 TATCTC-CCTGAAGTTGCAGTGGAGCAGATCAAAAGAAACCAATCC
* * * ** *
6448166 TATCTCCTTGAAGTTGCAGTGGAGCGGATTAAAA-CCA-CAGATCT
1 TATCTCCCTGAAGTTGCAGTGGAGCAGATCAAAAGAAACCA-ATCC
* * *
6448210 TATCTCTCTAAAGTTGCAGTAGAGCAGATC
1 TATCTCCCTGAAGTTGCAGTGGAGCAGATC
6448240 GCATCCAGTC
Statistics
Matches: 155, Mismatches: 38, Indels: 20
0.73 0.18 0.09
Matches are distributed among these distances:
40 2 0.01
41 29 0.19
43 2 0.01
44 113 0.73
45 9 0.06
ACGTcount: A:0.31, C:0.22, G:0.21, T:0.25
Consensus pattern (45 bp):
TATCTCCCTGAAGTTGCAGTGGAGCAGATCAAAAGAAACCAATCC
Found at i:6448047 original size:480 final size:479
Alignment explanation
Indices: 6446547--6448020 Score: 2371
Period size: 480 Copynumber: 3.1 Consensus size: 479
6446537 AGAATTTCAA
* *
6446547 ATCTTATCTCCCTGAGGTTACAGTGGAGTAGATTGAAGCCAGATATCTTATCTCCCTGAGATTAC
1 ATCTTATCTCCCTGAGGTTACAGTGGAGCAGATTGAAGCCAGAGATCTTATCTCCCTGAGATTAC
** * * * *
6446612 AGCGGAATAGATTGAAG-CTAGTAATCCTATCTCTCTGAAGTTACAGTGGAGCAGATTAAAATAA
66 AGCGGAGCAGGTCGAAGAC-ACT-ATCCTATCTC-CTGAAGTTACAGTGGAGCGGATTAAAATAA
* *
6446676 AAGATCTCATCTCTCTGAAGTTACAGCAGAGTAGACCGCATCAGGTCTTATCTCCCTGAGGTTAC
128 AAGATCTTATCTCTCTGAAGTTACAGCAGAGTAGATCGCATCAGGTCTTATCTCCCTGAGGTTAC
* * * *
6446741 AGTGGAGTAGACTGAAAAATTTCAGATCTTATCTCCCTAAGGTTACAGTGGAGCAGATTAAAGCC
193 AGTGGAGTAGACCGAAGAATTTCAGATCTTATCTCCCTGAGGTTACAGTGGAGCAGATTGAAGCC
* * * * * *
6446806 AGAGATCTTACCTCCCTGAGATTACAGCGGAGTAGATTGAAG-CTAGTAATCCTATCTCTCTGAA
258 AGAGATCTTATCTCCCAGAGATTACAGCGGAGCAGATCGAAGAC-ACT-ATCCTATCTCACTGAA
* * *
6446870 GTTACAGTGGAGCGGATTAAAATAAATGATCTTATCTCCCTGAAGTTACAGCAGAGTAGATCGCA
321 GTTACAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGCA
6446935 TCAGGTCTTATCTCCCTGAGGTTACAGTGGAGTAGACCGAAGAATTTCAGATCTTATCTCCCTGA
386 TCAGGTCTTATCTCCCTGAGGTTACAGTGGAGTAGACCGAAGAATTTCAGATCTTATCTCCCTGA
*
6447000 GGTTACAGTGGAGCAGATTGAAGCCAAAG
451 GGTTACAGTGGAGCAGATTGAAGCCAGAG
*
6447029 ATCTTATCTCCCTGAGGTTACAGTGGAGCAGATTGAAGCCAGAGATCTTATCTCCCTGAGATTAT
1 ATCTTATCTCCCTGAGGTTACAGTGGAGCAGATTGAAGCCAGAGATCTTATCTCCCTGAGATTAC
6447094 AGCGGAGCAGGTCGAAGACACTATCCTATCTCCTTGAAGTTACAGTGGAGCGGATTAAAATAAAA
66 AGCGGAGCAGGTCGAAGACACTATCCTATCTCC-TGAAGTTACAGTGGAGCGGATTAAAATAAAA
* *
6447159 GATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGCATCAGGTCTTATCTCCCCGAGGTTACAG
130 GATCTTATCTCTCTGAAGTTACAGCAGAGTAGATCGCATCAGGTCTTATCTCCCTGAGGTTACAG
6447224 TGGAGTAGACCGAAGAATTAT-AGATCTTATCTCCCTGAGGTTACAGTGGAGCAGATTGAAGCCA
195 TGGAGTAGACCGAAGAATT-TCAGATCTTATCTCCCTGAGGTTACAGTGGAGCAGATTGAAGCCA
* * *
6447288 GAGATCTTATCTCTCTA-AGATTATAGCAGAGCAGATCGAAGACACTATCCTATCTCACTGAAGT
259 GAGATCTTATCTC-CCAGAGATTACAGCGGAGCAGATCGAAGACACTATCCTATCTCACTGAAGT
* * *
6447352 TACAGTGGAGCGAATTAAAATAAAGAATCTTATCTCTCTGAAGTTACAGTAGAGTGGATCGCATC
323 TACAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGCATC
* * *
6447417 AGGTCTTATCTCCCTGAGGTTACAGTGGAATAAACCGAAGAATTTCAGATCTTATCTCTCTGAGG
388 AGGTCTTATCTCCCTGAGGTTACAGTGGAGTAGACCGAAGAATTTCAGATCTTATCTCCCTGAGG
*
6447482 TTACAGTGGAGCAGATTGAAGTCAGAG
453 TTACAGTGGAGCAGATTGAAGCCAGAG
6447509 ATCTTATCTCCCTGAGGTTACAGTGGAGCAGATTGAAGCCAGAGATCTTATCTCCCTGAGATTAC
1 ATCTTATCTCCCTGAGGTTACAGTGGAGCAGATTGAAGCCAGAGATCTTATCTCCCTGAGATTAC
*
6447574 AGCGGAGCAGGTCGAAGACACTATCCTATCTCCGTGAAGTTACAGTGGAGCGGATTAAAATAAAG
66 AGCGGAGCAGGTCGAAGACACTATCCTATCTCC-TGAAGTTACAGTGGAGCGGATTAAAATAAAA
6447639 GATCTTATCTCTCTGAAGTTACAGCAGAGTAGATCGCATCAGGTCTTATCTCCCTGAGGTTACAG
130 GATCTTATCTCTCTGAAGTTACAGCAGAGTAGATCGCATCAGGTCTTATCTCCCTGAGGTTACAG
* *
6447704 TGGAGTAGACCGAAGAATTTCAGATCTTATCTCCCTGGGGTTACAGTGGAGCAGATTGAAGCCAT
195 TGGAGTAGACCGAAGAATTTCAGATCTTATCTCCCTGAGGTTACAGTGGAGCAGATTGAAGCCAG
* * * *
6447769 AGATATTATCTCCCAGAGATTACAACGGAGCAGATCAAAGACACTATCCTATCTCCCTGAAGTTA
260 AGATCTTATCTCCCAGAGATTACAGCGGAGCAGATCGAAGACACTATCCTATCTCACTGAAGTTA
* * *
6447834 CAGTGCAGCGGATTAAAATTAAGGATCTTATCTCTTTGAAGTTACAGTAGAGTAGATCGCATCAG
325 CAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGCATCAG
* * *
6447899 GTCTTATTTCCCTGAGGTTACAGTGGAGTAGACCGAAGAATTTTAAATCTTATCTCCCTGAGGTT
390 GTCTTATCTCCCTGAGGTTACAGTGGAGTAGACCGAAGAATTTCAGATCTTATCTCCCTGAGGTT
*
6447964 ACAGTGGAGTAGATTGAAGCCAGAG
455 ACAGTGGAGCAGATTGAAGCCAGAG
*
6447989 GTCTTATCTCCCTGAGGTTACAGTGGAGCAGA
1 ATCTTATCTCCCTGAGGTTACAGTGGAGCAGA
6448021 CAAAAGAAAC
Statistics
Matches: 919, Mismatches: 66, Indels: 16
0.92 0.07 0.02
Matches are distributed among these distances:
479 3 0.00
480 642 0.70
481 193 0.21
482 80 0.09
483 1 0.00
ACGTcount: A:0.30, C:0.20, G:0.23, T:0.27
Consensus pattern (479 bp):
ATCTTATCTCCCTGAGGTTACAGTGGAGCAGATTGAAGCCAGAGATCTTATCTCCCTGAGATTAC
AGCGGAGCAGGTCGAAGACACTATCCTATCTCCTGAAGTTACAGTGGAGCGGATTAAAATAAAAG
ATCTTATCTCTCTGAAGTTACAGCAGAGTAGATCGCATCAGGTCTTATCTCCCTGAGGTTACAGT
GGAGTAGACCGAAGAATTTCAGATCTTATCTCCCTGAGGTTACAGTGGAGCAGATTGAAGCCAGA
GATCTTATCTCCCAGAGATTACAGCGGAGCAGATCGAAGACACTATCCTATCTCACTGAAGTTAC
AGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGCATCAGG
TCTTATCTCCCTGAGGTTACAGTGGAGTAGACCGAAGAATTTCAGATCTTATCTCCCTGAGGTTA
CAGTGGAGCAGATTGAAGCCAGAG
Found at i:6448142 original size:129 final size:128
Alignment explanation
Indices: 6447989--6448263 Score: 415
Period size: 129 Copynumber: 2.1 Consensus size: 128
6447979 GAAGCCAGAG
*
6447989 GTCTTATCTCCCTGAGGTTACAGTGGAGCAGACAAAAGAAACCAATCCTATCTCCCTGAAGTTAC
1 GTCTTATCT-CCTGAAGTTACAGTGGAGCAGACAAAAGAAACCAATCCTATCTCCCTGAAGTTAC
* * * *
6448054 GGTGGAGCGGATCAAAACCACAAATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATCGTATCTA
65 AGTGGAGCGGATCAAAACCACAAATCTTATCTCTCTAAAGTTGCAGTAGAGCAGATCGCATCCA
* * * * *
6448118 GTCTTATCCTCCTGAAGTTGCAGTGGAGCAGACGAAAGAAATCAATCCTATCTCCTTGAAGTTGC
1 GTCTTAT-CTCCTGAAGTTACAGTGGAGCAGACAAAAGAAACCAATCCTATCTCCCTGAAGTTAC
* *
6448183 AGTGGAGCGGATTAAAACCACAGATCTTATCTCTCTAAAGTTGCAGTAGAGCAGATCGCATCCA
65 AGTGGAGCGGATCAAAACCACAAATCTTATCTCTCTAAAGTTGCAGTAGAGCAGATCGCATCCA
6448247 GTCTTATCTCTCTGAAG
1 GTCTTATCTC-CTGAAG
6448264 ATGTAGTAGA
Statistics
Matches: 132, Mismatches: 12, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
128 3 0.02
129 127 0.96
130 2 0.02
ACGTcount: A:0.30, C:0.23, G:0.21, T:0.26
Consensus pattern (128 bp):
GTCTTATCTCCTGAAGTTACAGTGGAGCAGACAAAAGAAACCAATCCTATCTCCCTGAAGTTACA
GTGGAGCGGATCAAAACCACAAATCTTATCTCTCTAAAGTTGCAGTAGAGCAGATCGCATCCA
Found at i:6448259 original size:41 final size:41
Alignment explanation
Indices: 6448078--6448319 Score: 168
Period size: 41 Copynumber: 5.8 Consensus size: 41
6448068 AAACCACAAA
* *
6448078 TCTTATCTCTCTGAAGTTGCAGTAGAGCAGATCGTATCTAG
1 TCTTATCTCTCTGAAGTTGCAGTAGAGCAGATCGAATCCAG
* *
6448119 TCTTATC-CTCCTGAAGTTGCAGTGGAGCAGA-CGAAAGAAAT-CAA
1 TCTTATCTCT-CTGAAGTTGCAGTAGAGCAGATC----G-AATCCAG
* * * ** *
6448163 TCCTATCTC-CTTGAAGTTGCAGTGGAGCGGATTAAAACCACAG
1 TCTTATCTCTC-TGAAGTTGCAGTAGAGCAGA-TCGAATC-CAG
* *
6448206 ATCTTATCTCTCTAAAGTTGCAGTAGAGCAGATCGCATCCAG
1 -TCTTATCTCTCTGAAGTTGCAGTAGAGCAGATCGAATCCAG
* * * *
6448248 TCTTATCTCTCTGAAGATGTAGTAGAACAGATCGTATCCAG
1 TCTTATCTCTCTGAAGTTGCAGTAGAGCAGATCGAATCCAG
* * * * * *
6448289 TCTCATATCACTAAAGTTGCAATGGAGCAGA
1 TCTTATCTCTCTGAAGTTGCAGTAGAGCAGA
6448320 CAGAAGAAAC
Statistics
Matches: 155, Mismatches: 32, Indels: 28
0.72 0.15 0.13
Matches are distributed among these distances:
40 3 0.02
41 87 0.56
42 3 0.02
43 6 0.04
44 52 0.34
45 4 0.03
ACGTcount: A:0.30, C:0.21, G:0.21, T:0.28
Consensus pattern (41 bp):
TCTTATCTCTCTGAAGTTGCAGTAGAGCAGATCGAATCCAG
Found at i:6450770 original size:110 final size:109
Alignment explanation
Indices: 6450526--6450839 Score: 404
Period size: 108 Copynumber: 2.9 Consensus size: 109
6450516 AAAAGAAATT
* * * * * *
6450526 TTTCTAAATAAGGCAATATTTTGCATTTGGAAGTTCGAGAAAGCGTGCCCTAATGTGCTGGGTTT
1 TTTCAAAATAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACGTGCCCTAAGGTGCTGGGTTT
* * *
6450591 CG-TTTTTCTCGTTCGACCTAATAGCCAAATATCCTTTTAAAAA
66 CGATTTTTCTCGTTCAACCAAATAGCCAAATATCATTTTAAAAA
* * *
6450634 TTTTAAAATAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACATGCCCTAAGGTGCTGGGTGT
1 TTTCAAAATAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACGTGCCCTAAGGTGCTGGGTTT
* **
6450699 CGATTTTTCTTGTTCAACCAAAT-GACTTAATATCATTCTTAAAAA
66 CGATTTTTCTCGTTCAACCAAATAG-CCAAATATCATT-TTAAAAA
* *
6450744 TTTCAAAATAAGGCAATGTTTTGCGTTTGAAAATTCGAG-GAACGTGCCCTAAGGTGCTGGGTTT
1 TTTCAAAATAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACGTGCCCTAAGGTGCTGGGTTT
* *
6450808 CGA--TTTCTCGTTTAACCAAATTGCCAAATATC
66 CGATTTTTCTCGTTCAACCAAATAGCCAAATATC
6450840 CTATTGAATT
Statistics
Matches: 178, Mismatches: 24, Indels: 9
0.84 0.11 0.04
Matches are distributed among these distances:
107 23 0.13
108 60 0.34
109 51 0.29
110 44 0.25
ACGTcount: A:0.29, C:0.17, G:0.19, T:0.35
Consensus pattern (109 bp):
TTTCAAAATAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACGTGCCCTAAGGTGCTGGGTTT
CGATTTTTCTCGTTCAACCAAATAGCCAAATATCATTTTAAAAA
Found at i:6451291 original size:36 final size:36
Alignment explanation
Indices: 6451216--6451291 Score: 84
Period size: 36 Copynumber: 2.1 Consensus size: 36
6451206 CATACATACG
*
6451216 TTTTATAATATATACATATACGTACACATTTTTTAAT
1 TTTTATAATATATACATATACG-ACACATTTTATAAT
* *
6451253 TTTTATAA-ATATATATATAC-ACATACTTTTATATAT
1 TTTTATAATATATACATATACGACACA-TTTTATA-AT
6451289 TTT
1 TTT
6451292 CTATGTTTCA
Statistics
Matches: 34, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
34 4 0.12
35 6 0.18
36 16 0.47
37 8 0.24
ACGTcount: A:0.38, C:0.09, G:0.01, T:0.51
Consensus pattern (36 bp):
TTTTATAATATATACATATACGACACATTTTATAAT
Found at i:6453035 original size:19 final size:20
Alignment explanation
Indices: 6452987--6453035 Score: 66
Period size: 19 Copynumber: 2.5 Consensus size: 20
6452977 CAATAAAACA
6452987 TTTCTTCATATGTATAATTT
1 TTTCTTCATATGTATAATTT
* *
6453007 TTT-TTTATATTTAT-ATTT
1 TTTCTTCATATGTATAATTT
6453025 TTTCTTCATAT
1 TTTCTTCATAT
6453036 AACTTTTGTC
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
18 7 0.28
19 15 0.60
20 3 0.12
ACGTcount: A:0.22, C:0.08, G:0.02, T:0.67
Consensus pattern (20 bp):
TTTCTTCATATGTATAATTT
Found at i:6453303 original size:18 final size:18
Alignment explanation
Indices: 6453260--6453359 Score: 67
Period size: 18 Copynumber: 5.2 Consensus size: 18
6453250 CTCTTCCTCT
* *
6453260 ACCATGCCCGCCACTACC
1 ACCATGTCCTCCACTACC
6453278 ACCATGTCCTCCACTACC
1 ACCATGTCCTCCACTACC
* *
6453296 GCCTTGTCCTCCACCATATCC
1 ACCATGTCCTCCA-C-TA-CC
*
6453317 ACCACTACCG-CCACCACTACC
1 ACCA-T---GTCCTCCACTACC
* *
6453338 ACCGTGTCCTCCACTGCC
1 ACCATGTCCTCCACTACC
6453356 ACCA
1 ACCA
6453360 CCACTACCAC
Statistics
Matches: 63, Mismatches: 11, Indels: 16
0.70 0.12 0.18
Matches are distributed among these distances:
17 1 0.02
18 39 0.62
19 1 0.02
20 3 0.05
21 9 0.14
22 3 0.05
23 1 0.02
24 5 0.08
25 1 0.02
ACGTcount: A:0.21, C:0.52, G:0.09, T:0.18
Consensus pattern (18 bp):
ACCATGTCCTCCACTACC
Found at i:6453340 original size:30 final size:30
Alignment explanation
Indices: 6453270--6453381 Score: 111
Period size: 30 Copynumber: 3.7 Consensus size: 30
6453260 ACCATGCCCG
*
6453270 CCACTACCACCATGTCCTCCACTACCGCCTTG
1 CCACTACCACCATGTCCTCCACTACCGCC--A
* * *
6453302 TC-CT-CCACCATATCCACCACTACCGCCA
1 CCACTACCACCATGTCCTCCACTACCGCCA
* * *
6453330 CCACTACCACCGTGTCCTCCACTGCCACCA
1 CCACTACCACCATGTCCTCCACTACCGCCA
**
6453360 CCACTACCACTTTGTCCTCCAC
1 CCACTACCACCATGTCCTCCAC
6453382 CATGTCCCTT
Statistics
Matches: 66, Mismatches: 12, Indels: 6
0.79 0.14 0.07
Matches are distributed among these distances:
28 1 0.02
29 2 0.03
30 60 0.91
31 2 0.03
32 1 0.02
ACGTcount: A:0.21, C:0.52, G:0.07, T:0.21
Consensus pattern (30 bp):
CCACTACCACCATGTCCTCCACTACCGCCA
Found at i:6453382 original size:42 final size:42
Alignment explanation
Indices: 6453336--6453562 Score: 168
Period size: 42 Copynumber: 5.6 Consensus size: 42
6453326 GCCACCACTA
* **
6453336 CCACCGTGTCCTCCACTGCCACCACCACTACCACTTTGTCCT
1 CCACCATGTCCTCCACTGCCACCACCACTACCACCATGTCCT
** * * *
6453378 CCACCATGTCC-CTTGCTGCCGCCACCACTACCTCCGTGTCCT
1 CCACCATGTCCTC-CACTGCCACCACCACTACCACCATGTCCT
* * *
6453420 CCACCATATCCACCACT---ACCACCACT------TTGTCCT
1 CCACCATGTCCTCCACTGCCACCACCACTACCACCATGTCCT
* * * *** *
6453453 CCACCATGTCCGCCACTGCCGCCACCACTACCCCCACCACCA
1 CCACCATGTCCTCCACTGCCACCACCACTACCACCATGTCCT
* * *
6453495 CCGCCATGTCCTCCACTACCACCACCACTACCTCCATGTCCT
1 CCACCATGTCCTCCACTGCCACCACCACTACCACCATGTCCT
* *
6453537 CCACCATGTCCACCACTACCACCACC
1 CCACCATGTCCTCCACTGCCACCACC
6453563 CTGTCCTCCA
Statistics
Matches: 143, Mismatches: 31, Indels: 22
0.73 0.16 0.11
Matches are distributed among these distances:
33 21 0.15
36 8 0.06
39 8 0.06
41 1 0.01
42 104 0.73
43 1 0.01
ACGTcount: A:0.19, C:0.53, G:0.08, T:0.19
Consensus pattern (42 bp):
CCACCATGTCCTCCACTGCCACCACCACTACCACCATGTCCT
Found at i:6453400 original size:72 final size:75
Alignment explanation
Indices: 6453288--6453484 Score: 258
Period size: 72 Copynumber: 2.7 Consensus size: 75
6453278 ACCATGTCCT
* * * *
6453288 CCACTACCGCCTTGTCCTCCACCATATCCACCACTACCGCCACCACTACCACCGTGTCCTCCA-C
1 CCACTACCACTTTGTCCTCCACCATGTCCACCACTGCCGCCACCACTACCACCGTGTCCTCCACC
6453352 -T-GCCACCA
66 ATAGCCACCA
** *
6453360 CCACTACCACTTTGTCCTCCACCATGTCC-CTTGCTGCCGCCACCACTACCTCCGTGTCCTCCAC
1 CCACTACCACTTTGTCCTCCACCATGTCCAC-CACTGCCGCCACCACTACCACCGTGTCCTCCAC
*
6453424 CATATCCACCA
65 CATAGCCACCA
* * *
6453435 CTACCACCACTTTGTCCTCCACCATGTCCGCCACTGCCGCCACCACTACC
1 CCACTACCACTTTGTCCTCCACCATGTCCACCACTGCCGCCACCACTACC
6453485 CCCACCACCA
Statistics
Matches: 108, Mismatches: 12, Indels: 7
0.85 0.09 0.06
Matches are distributed among these distances:
71 1 0.01
72 54 0.50
73 1 0.01
74 1 0.01
75 50 0.46
76 1 0.01
ACGTcount: A:0.19, C:0.51, G:0.09, T:0.21
Consensus pattern (75 bp):
CCACTACCACTTTGTCCTCCACCATGTCCACCACTGCCGCCACCACTACCACCGTGTCCTCCACC
ATAGCCACCA
Found at i:6453433 original size:30 final size:30
Alignment explanation
Indices: 6453399--6453586 Score: 120
Period size: 30 Copynumber: 6.3 Consensus size: 30
6453389 CTTGCTGCCG
*
6453399 CCACCACTACCTCCGTGTCCTCCACCATAT
1 CCACCACTACCTCCATGTCCTCCACCATAT
* *
6453429 CCACCACTACCACCACTTTGTCCTCCACCATGT
1 CCACCACTACCTCCA---TGTCCTCCACCATAT
* * * * * *
6453462 CCGCCACTGCCGCCA---CCACTACC---C
1 CCACCACTACCTCCATGTCCTCCACCATAT
* * * *
6453486 CCACCACCACCGCCATGTCCTCCACTACCA-
1 CCACCACTACCTCCATGTCCTCCACCA-TAT
*
6453516 CCACCACTACCTCCATGTCCTCCACCATGT
1 CCACCACTACCTCCATGTCCTCCACCATAT
*
6453546 CCACCACTACCACCACCCTGTCCTCCACCATAT
1 CCACCACTACCTCCA---TGTCCTCCACCATAT
*
6453579 CCGCCACT
1 CCACCACT
6453587 GCCACTACCA
Statistics
Matches: 121, Mismatches: 23, Indels: 25
0.72 0.14 0.15
Matches are distributed among these distances:
24 12 0.10
27 11 0.09
30 51 0.42
33 47 0.39
ACGTcount: A:0.21, C:0.54, G:0.07, T:0.19
Consensus pattern (30 bp):
CCACCACTACCTCCATGTCCTCCACCATAT
Found at i:6453476 original size:75 final size:71
Alignment explanation
Indices: 6453299--6453484 Score: 246
Period size: 75 Copynumber: 2.5 Consensus size: 71
6453289 CACTACCGCC
* *
6453299 TTGTCCTCCACCATATCCACCACTACCGCCACCACTACCACCGTGTCCTCCACTGCCACCACCAC
1 TTGTCCTCCACCATGTCC-CCACTGCCGCCACCACTACCACCGTGTCCTCCACTGCCACCACCAC
*
6453364 TACCACT
65 CACCACT
** * *
6453371 TTGTCCTCCACCATGTCCCTTGCTGCCGCCACCACTACCTCCGTGTCCTCCACCATATCCACCAC
1 TTGTCCTCCACCATGTCCC-CACTGCCGCCACCACTACCACCGTGTCCTCCA-C-T-GCCACCAC
*
6453436 TACCACCACT
62 CACCACCACT
6453446 TTGTCCTCCACCATGTCCGCCACTGCCGCCACCACTACC
1 TTGTCCTCCACCATGTCC-CCACTGCCGCCACCACTACC
6453485 CCCACCACCA
Statistics
Matches: 99, Mismatches: 10, Indels: 7
0.85 0.09 0.06
Matches are distributed among these distances:
71 1 0.01
72 45 0.45
73 1 0.01
74 1 0.01
75 50 0.51
76 1 0.01
ACGTcount: A:0.19, C:0.51, G:0.09, T:0.22
Consensus pattern (71 bp):
TTGTCCTCCACCATGTCCCCACTGCCGCCACCACTACCACCGTGTCCTCCACTGCCACCACCACC
ACCACT
Found at i:6453511 original size:75 final size:73
Alignment explanation
Indices: 6453270--6453519 Score: 206
Period size: 75 Copynumber: 3.4 Consensus size: 73
6453260 ACCATGCCCG
* * * * *
6453270 CCACTACCACCATGTCCTCCACTACC-GC-C-TTGTCCTCCACCATATCCACCACTACCGCCACC
1 CCACCACCACCATGTCCACCACTACCACCACTTTGTCCTCCACCATGTCC-CCACTGCCGCCACC
6453332 ACTA--CCA
65 ACTACCCCA
**** * * * **
6453339 CCGTGTCCTCCACTG-CCACCACCACTACCACTTTGTCCTCCACCATGTCCCTTGCTGCCGCCAC
1 CCACCACCACCA-TGTCCACCACTACCACCACTTTGTCCTCCACCATGTCCC-CACTGCCGCCAC
*
6453403 CACTACCTCCG
64 CACTACC-CCA
*** * *
6453414 TGTCCTCCACCATATCCACCACTACCACCACTTTGTCCTCCACCATGTCCGCCACTGCCGCCACC
1 CCACCACCACCATGTCCACCACTACCACCACTTTGTCCTCCACCATGTCC-CCACTGCCGCCACC
6453479 ACTACCCCCA
65 ACTA-CCCCA
* *
6453489 CCACCACCGCCATGTCCTCCACTACCACCAC
1 CCACCACCACCATGTCCACCACTACCACCAC
6453520 CACTACCTCC
Statistics
Matches: 137, Mismatches: 33, Indels: 16
0.74 0.18 0.09
Matches are distributed among these distances:
69 15 0.11
70 3 0.02
71 2 0.01
72 31 0.23
74 1 0.01
75 82 0.60
76 3 0.02
ACGTcount: A:0.20, C:0.52, G:0.08, T:0.20
Consensus pattern (73 bp):
CCACCACCACCATGTCCACCACTACCACCACTTTGTCCTCCACCATGTCCCCACTGCCGCCACCA
CTACCCCA
Found at i:6453515 original size:21 final size:21
Alignment explanation
Indices: 6453453--6453573 Score: 86
Period size: 21 Copynumber: 5.8 Consensus size: 21
6453443 ACTTTGTCCT
* * *
6453453 CCACCATGTCCGCCACTGCCG
1 CCACCATGTCCTCCACTACCA
* * *
6453474 CCACCACT-ACCCCCACCACCA
1 CCACCA-TGTCCTCCACTACCA
*
6453495 CCGCCATGTCCTCCACTACCA
1 CCACCATGTCCTCCACTACCA
* * *
6453516 CCACCACT-ACCTCCA-TGTCCT
1 CCACCA-TGTCCTCCACT-ACCA
*
6453537 CCACCATGTCCACCACTACCA
1 CCACCATGTCCTCCACTACCA
*
6453558 CCACCCTGTCCTCCAC
1 CCACCATGTCCTCCAC
6453574 CATATCCGCC
Statistics
Matches: 75, Mismatches: 19, Indels: 12
0.71 0.18 0.11
Matches are distributed among these distances:
20 3 0.04
21 69 0.92
22 3 0.04
ACGTcount: A:0.21, C:0.56, G:0.07, T:0.16
Consensus pattern (21 bp):
CCACCATGTCCTCCACTACCA
Found at i:6453652 original size:30 final size:30
Alignment explanation
Indices: 6453516--6453658 Score: 101
Period size: 30 Copynumber: 4.5 Consensus size: 30
6453506 TCCACTACCA
*
6453516 CCACCACTACCTCCATGTCCTCCACCATGT
1 CCACCACTACCTCCCTGTCCTCCACCATGT
* *
6453546 CCACCACTACCACCACCCTGTCCTCCACCATAT
1 CCACCACT---ACCTCCCTGTCCTCCACCATGT
* * *
6453579 CCGCCACTGCCACTACCACCGTGTCCTCC-GC-TGCT
1 ---CCA---CCACTACCTCCCTGTCCTCCACCATG-T
* *
6453614 GCCGCCACTGCCTCCCTGTCCTCCACCATGT
1 -CCACCACTACCTCCCTGTCCTCCACCATGT
6453645 CCACCACTACCTCC
1 CCACCACTACCTCC
6453659 ACCACTACCG
Statistics
Matches: 88, Mismatches: 13, Indels: 24
0.70 0.10 0.19
Matches are distributed among these distances:
30 37 0.42
31 2 0.02
32 2 0.02
33 22 0.25
34 1 0.01
35 2 0.02
36 17 0.19
39 5 0.06
ACGTcount: A:0.17, C:0.53, G:0.10, T:0.20
Consensus pattern (30 bp):
CCACCACTACCTCCCTGTCCTCCACCATGT
Found at i:6453708 original size:72 final size:71
Alignment explanation
Indices: 6453588--6453805 Score: 258
Period size: 72 Copynumber: 3.0 Consensus size: 71
6453578 TCCGCCACTG
* * * *
6453588 CCACTACCACCGTGTCCTCCGCTGCTGCCGCCACTGCCTCCCTGTCCTCCACCATGTCCACCACT
1 CCACTACCGCCGTGTCCTCCGCTGCCGCCACCACTG-CTCCCTATCCTCCACCATGTCCACCACT
*
6453653 ACCTCCA
65 ACCACCA
* * * * *
6453660 CCACTACCGCCGTGTCCTCTGC-GACCGCCACCACTGCTGCCTTTTCCTCCACCATGCCCGCCAC
1 CCACTACCGCCGTGTCCTCCGCTG-CCGCCACCACTGCT-CCCTATCCTCCACCATGTCCACCAC
6453724 TACCACCA
64 TACCACCA
* * * * *
6453732 CAACTACCGCCATGTCCTCCGCTGCCACCACCACTACCTCCGTATCCTCCACCATGTCCACCACT
1 CCACTACCGCCGTGTCCTCCGCTGCCGCCACCACT-GCTCCCTATCCTCCACCATGTCCACCACT
6453797 ACCACCA
65 ACCACCA
6453804 CC
1 CC
6453806 CTGTCCTCCA
Statistics
Matches: 123, Mismatches: 19, Indels: 8
0.82 0.13 0.05
Matches are distributed among these distances:
71 3 0.02
72 117 0.95
73 3 0.02
ACGTcount: A:0.17, C:0.52, G:0.11, T:0.19
Consensus pattern (71 bp):
CCACTACCGCCGTGTCCTCCGCTGCCGCCACCACTGCTCCCTATCCTCCACCATGTCCACCACTA
CCACCA
Done.