Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold26
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: 1656043
ACGTcount: A:0.27, C:0.13, G:0.13, T:0.27
Warning! 334368 characters in sequence are not A, C, G, or T
File 7 of 8
Found at i:1329735 original size:15 final size:15
Alignment explanation
Indices: 1329693--1329743 Score: 52
Period size: 15 Copynumber: 3.4 Consensus size: 15
1329683 TATTAAATAC
*
1329693 ATATAA-AATAAATT
1 ATATAACAAAAAATT
1329707 ACT-TAACAATAAAATT
1 A-TATAACAA-AAAATT
*
1329723 ATATAACAAAAAATA
1 ATATAACAAAAAATT
1329738 ATATAA
1 ATATAA
1329744 TTATTAATAT
Statistics
Matches: 31, Mismatches: 2, Indels: 7
0.77 0.05 0.17
Matches are distributed among these distances:
14 4 0.13
15 15 0.48
16 12 0.39
ACGTcount: A:0.65, C:0.06, G:0.00, T:0.29
Consensus pattern (15 bp):
ATATAACAAAAAATT
Found at i:1329818 original size:19 final size:19
Alignment explanation
Indices: 1329796--1329836 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
1329786 TTTTTTCCCA
*
1329796 TTTCCTT-TTTCTTTTACTT
1 TTTCCTTCTCTCTTTT-CTT
1329815 TTTCCTTCTCTCTTTTCTT
1 TTTCCTTCTCTCTTTTCTT
1329834 TTT
1 TTT
1329837 TTTTTTTTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
19 13 0.65
20 7 0.35
ACGTcount: A:0.02, C:0.24, G:0.00, T:0.73
Consensus pattern (19 bp):
TTTCCTTCTCTCTTTTCTT
Found at i:1330572 original size:12 final size:13
Alignment explanation
Indices: 1330550--1330586 Score: 58
Period size: 13 Copynumber: 2.9 Consensus size: 13
1330540 ATAATTATTT
1330550 TAAAT-TAAAAAA
1 TAAATATAAAAAA
1330562 TAAATATAAAAAA
1 TAAATATAAAAAA
*
1330575 TAAATTTAAAAA
1 TAAATATAAAAA
1330587 TTTTTTAAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
12 5 0.22
13 18 0.78
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (13 bp):
TAAATATAAAAAA
Found at i:1330587 original size:12 final size:12
Alignment explanation
Indices: 1330550--1330587 Score: 58
Period size: 12 Copynumber: 3.1 Consensus size: 12
1330540 ATAATTATTT
1330550 TAAATTAAAAAA
1 TAAATTAAAAAA
1330562 TAAATATAAAAAA
1 TAAAT-TAAAAAA
*
1330575 TAAATTTAAAAA
1 TAAATTAAAAAA
1330587 T
1 T
1330588 TTTTTAAAAT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
12 12 0.50
13 12 0.50
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (12 bp):
TAAATTAAAAAA
Found at i:1330964 original size:250 final size:249
Alignment explanation
Indices: 1330218--1330996 Score: 1105
Period size: 250 Copynumber: 3.1 Consensus size: 249
1330208 ACTATAAATA
* *
1330218 ATGTAAATTTT-AATTTAAATATAAATTTATATTTTAAAATATTTTATTAATCATAAACCATAAA
1 ATGTAAATTTTAAATTAAAATATAAATTTATATTTTAAAATATTTTATTAATCATGAACCATAAA
* * * ** *
1330282 TATAAATAATATAATTATTTCAGAATAAAATGACAAATAAATTTAAATTTTTTTTAAATATAATC
66 TATAAATAATATAATTATTTTA-AATAAAATAAAAAATAAATTTAAAAATTTTTAAAATATAATC
* * * * *
1330347 TGATTTACTGTGTGAACAATTCTATCATAAGGATTACAGGCCATGCAAAAAGTAAAGCACACGTA
130 TGATTCACTGTGTGAACAATTCTATCGTAAGGATTACAGGTCATGCAAAAAGTAAAACACGCGTA
* *
1330412 TGATGTATAGGATAGAGAACAAATGATGATAGATGATAGAGACTATTTTTATACC
195 TGATGTATAGGACAGAGAACAAATGACGATAGATGATAGAGACTATTTTTATACC
* *
1330467 ATGTAAATTTTAAATTAAAATATAAATTTATATTATAAAATATTTTATTAATCATG-ACAATAAA
1 ATGTAAATTTTAAATTAAAATATAAATTTATATTTTAAAATATTTTATTAATCATGAACCATAAA
1330531 TAT-AATAATATAATTATTTTAAATTAAAAAATAAATATAAAAAATAAATTTAAAAATTTTTTAA
66 TATAAATAATATAATTA--TT---TT---AAATAAA-ATAAAAAATAAATTTAAAAA-TTTTTAA
* * *
1330595 AATGTAATCTGATTCATTGTGTGAACAATTCTATCGTAAGGATTACAGATCATGCAAAAAGTAAA
121 AATATAATCTGATTCACTGTGTGAACAATTCTATCGTAAGGATTACAGGTCATGCAAAAAGTAAA
* * * * *
1330660 ATACGTGTATGATTTATAGGACAGAGAACAAATGACCATAGATGATAGAGACTATTTCTATACC
186 ACACGCGTATGATGTATAGGACAGAGAACAAATGACGATAGATGATAGAGACTATTTTTATACC
*
1330724 ATGTAAATTTTAAATTAAAATATAAATTTATATTTTAAAATATTTTATTAATTATGAACCATAAA
1 ATGTAAATTTTAAATTAAAATATAAATTTATATTTTAAAATATTTTATTAATCATGAACCATAAA
**
1330789 TATAAATAATATAATTATTTTAAATCAAAATAAAAAATAAATTTAAAAAAGTTTAAAATATAATC
66 TATAAATAATATAATTATTTTAAAT-AAAATAAAAAATAAATTTAAAAATTTTTAAAATATAATC
* * * *
1330854 TAATTCACTGTGTGAATAATTCTATCGTAAAGATTACAGGTCATGCAAAAAGTAAAACACGGGTA
130 TGATTCACTGTGTGAACAATTCTATCGTAAGGATTACAGGTCATGCAAAAAGTAAAACACGCGTA
* * *
1330919 TGATGTATAGGACAGAGAACAAATGACGAGAGATAATAAAGACTATTTTTATACC
195 TGATGTATAGGACAGAGAACAAATGACGATAGATGATAGAGACTATTTTTATACC
*
1330974 ATATAAATTTTAAATTAAAATAT
1 ATGTAAATTTTAAATTAAAATAT
1330997 GAACTTTAAA
Statistics
Matches: 471, Mismatches: 45, Indels: 27
0.87 0.08 0.05
Matches are distributed among these distances:
248 13 0.03
249 21 0.04
250 185 0.39
251 24 0.05
252 3 0.01
253 1 0.00
254 2 0.00
255 6 0.01
256 17 0.04
257 176 0.37
258 10 0.02
259 13 0.03
ACGTcount: A:0.47, C:0.08, G:0.10, T:0.35
Consensus pattern (249 bp):
ATGTAAATTTTAAATTAAAATATAAATTTATATTTTAAAATATTTTATTAATCATGAACCATAAA
TATAAATAATATAATTATTTTAAATAAAATAAAAAATAAATTTAAAAATTTTTAAAATATAATCT
GATTCACTGTGTGAACAATTCTATCGTAAGGATTACAGGTCATGCAAAAAGTAAAACACGCGTAT
GATGTATAGGACAGAGAACAAATGACGATAGATGATAGAGACTATTTTTATACC
Found at i:1331646 original size:18 final size:19
Alignment explanation
Indices: 1331623--1331658 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
1331613 AATCTAAAGA
1331623 ATAAAAA-TAAAAAAATAT
1 ATAAAAATTAAAAAAATAT
1331641 ATAAAAATTAAAAAAATA
1 ATAAAAATTAAAAAAATA
1331659 GAATGAAAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
18 7 0.41
19 10 0.59
ACGTcount: A:0.78, C:0.00, G:0.00, T:0.22
Consensus pattern (19 bp):
ATAAAAATTAAAAAAATAT
Found at i:1331667 original size:20 final size:19
Alignment explanation
Indices: 1331620--1331669 Score: 57
Period size: 19 Copynumber: 2.6 Consensus size: 19
1331610 ATAAATCTAA
*
1331620 AGAATAAAAATAAAAAAAT
1 AGAATAAAATTAAAAAAAT
*
1331639 A-TATAAAAATTAAAAAAAT
1 AGAAT-AAAATTAAAAAAAT
1331658 AGAATGAAAATT
1 AGAAT-AAAATT
1331670 TTATTGGAAG
Statistics
Matches: 25, Mismatches: 4, Indels: 3
0.78 0.12 0.09
Matches are distributed among these distances:
18 2 0.08
19 15 0.60
20 8 0.32
ACGTcount: A:0.72, C:0.00, G:0.06, T:0.22
Consensus pattern (19 bp):
AGAATAAAATTAAAAAAAT
Found at i:1331848 original size:23 final size:22
Alignment explanation
Indices: 1331809--1331852 Score: 54
Period size: 23 Copynumber: 2.0 Consensus size: 22
1331799 TTCAAAATTT
*
1331809 ATTAAAATTTTATAAAATATTGA
1 ATTAAAATTATATAAAA-ATTGA
1331832 ATTAAAGATTATA-AAAAATTG
1 ATTAAA-ATTATATAAAAATTG
1331853 TAAATTTGTA
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
22 4 0.21
23 10 0.53
24 5 0.26
ACGTcount: A:0.55, C:0.00, G:0.07, T:0.39
Consensus pattern (22 bp):
ATTAAAATTATATAAAAATTGA
Found at i:1332392 original size:12 final size:12
Alignment explanation
Indices: 1332373--1332427 Score: 51
Period size: 12 Copynumber: 4.3 Consensus size: 12
1332363 TTAAAATATG
1332373 ATAT-AAAAATA
1 ATATAAAAAATA
1332384 ATATAAAAAATA
1 ATATAAAAAATA
1332396 AT-TAAAATATACTA
1 ATATAAAA-A-A-TA
1332410 TGATATAAAAAATA
1 --ATATAAAAAATA
1332424 ATAT
1 ATAT
1332428 GAATATATCA
Statistics
Matches: 37, Mismatches: 0, Indels: 13
0.74 0.00 0.26
Matches are distributed among these distances:
11 9 0.24
12 14 0.38
13 1 0.03
14 4 0.11
15 1 0.03
16 3 0.08
17 5 0.14
ACGTcount: A:0.65, C:0.02, G:0.02, T:0.31
Consensus pattern (12 bp):
ATATAAAAAATA
Found at i:1332531 original size:11 final size:11
Alignment explanation
Indices: 1332517--1332557 Score: 52
Period size: 11 Copynumber: 3.9 Consensus size: 11
1332507 AAATTATATA
1332517 AAATATAAAAT
1 AAATATAAAAT
1332528 AAAT-TAAAAT
1 AAATATAAAAT
1332538 ATAATA-AAAAT
1 A-AATATAAAAT
1332549 -AATATAAAA
1 AAATATAAAA
1332558 AATCAAAACA
Statistics
Matches: 27, Mismatches: 0, Indels: 7
0.79 0.00 0.21
Matches are distributed among these distances:
9 4 0.15
10 11 0.41
11 12 0.44
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (11 bp):
AAATATAAAAT
Found at i:1332550 original size:26 final size:27
Alignment explanation
Indices: 1332506--1332556 Score: 70
Period size: 26 Copynumber: 1.9 Consensus size: 27
1332496 ATTATTATAA
1332506 AAAATTATATAAAATATAAAATAAATT
1 AAAATTATATAAAATATAAAATAAATT
*
1332533 AAAA-TATAATAAAA-ATAATATAAA
1 AAAATTAT-ATAAAATATAAAATAAA
1332557 AAATCAAAAC
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
26 12 0.55
27 10 0.45
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (27 bp):
AAAATTATATAAAATATAAAATAAATT
Found at i:1332751 original size:18 final size:18
Alignment explanation
Indices: 1332730--1332768 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
1332720 TTTTTTTCCC
*
1332730 TTTCCTT-TTTCTTTTACT
1 TTTCCTTCTCTCTTTT-CT
1332748 TTTCCTTCTCTCTTTTCT
1 TTTCCTTCTCTCTTTTCT
1332766 TTT
1 TTT
1332769 TTTTTTTTTA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 12 0.63
19 7 0.37
ACGTcount: A:0.03, C:0.26, G:0.00, T:0.72
Consensus pattern (18 bp):
TTTCCTTCTCTCTTTTCT
Found at i:1332774 original size:24 final size:23
Alignment explanation
Indices: 1332720--1332774 Score: 58
Period size: 24 Copynumber: 2.3 Consensus size: 23
1332710 ACAAACATAA
*
1332720 TTTTTTTCCCTTTCCTTTTTCTT
1 TTTTTTTTCCTTTCCTTTTTCTT
**
1332743 TTACTTTTCC-TTCTCTCTTTTCTT
1 TTTTTTTTCCTTTC-CT-TTTTCTT
1332767 TTTTTTTT
1 TTTTTTTT
1332775 TTTAAAAAAG
Statistics
Matches: 25, Mismatches: 5, Indels: 3
0.76 0.15 0.09
Matches are distributed among these distances:
22 3 0.12
23 9 0.36
24 13 0.52
ACGTcount: A:0.02, C:0.24, G:0.00, T:0.75
Consensus pattern (23 bp):
TTTTTTTTCCTTTCCTTTTTCTT
Found at i:1334183 original size:7 final size:7
Alignment explanation
Indices: 1334171--1334214 Score: 52
Period size: 7 Copynumber: 6.0 Consensus size: 7
1334161 TAATTTTGTA
1334171 ATTTTTT
1 ATTTTTT
1334178 ATTTTTT
1 ATTTTTT
*
1334185 ATTTCTT
1 ATTTTTT
1334192 ATTTTATT
1 ATTTT-TT
1334200 ATATTTTT
1 AT-TTTTT
*
1334208 CTTTTTT
1 ATTTTTT
1334215 CCCTTTTTAA
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
7 22 0.69
8 7 0.22
9 3 0.09
ACGTcount: A:0.16, C:0.05, G:0.00, T:0.80
Consensus pattern (7 bp):
ATTTTTT
Found at i:1334183 original size:16 final size:15
Alignment explanation
Indices: 1334152--1334207 Score: 51
Period size: 14 Copynumber: 3.6 Consensus size: 15
1334142 TTTAATTATA
*
1334152 TTAATTTTGTAATTTT
1 TTAATTTT-TTATTTT
*
1334168 GTAATTTTTTATTTT
1 TTAATTTTTTATTTT
*
1334183 TT-ATTTCTTATTTT
1 TTAATTTTTTATTTT
1334197 ATTATATTTTT
1 -TTA-ATTTTT
1334208 CTTTTTTCCC
Statistics
Matches: 32, Mismatches: 5, Indels: 5
0.76 0.12 0.12
Matches are distributed among these distances:
14 11 0.34
15 9 0.28
16 7 0.22
17 5 0.16
ACGTcount: A:0.21, C:0.02, G:0.04, T:0.73
Consensus pattern (15 bp):
TTAATTTTTTATTTT
Found at i:1334291 original size:18 final size:18
Alignment explanation
Indices: 1334237--1334297 Score: 77
Period size: 18 Copynumber: 3.1 Consensus size: 18
1334227 ATAAATAAGT
1334237 AATAATTTATATTACAATTTA
1 AATAATTTATA--A-AATTTA
1334258 AATTAATTTAATAAAATTTA
1 AA-TAATTT-ATAAAATTTA
1334278 AATAATTTATAAAATTTA
1 AATAATTTATAAAATTTA
1334296 AA
1 AA
1334298 CATTTTTTGC
Statistics
Matches: 38, Mismatches: 0, Indels: 7
0.84 0.00 0.16
Matches are distributed among these distances:
18 12 0.32
19 6 0.16
20 8 0.21
21 3 0.08
22 6 0.16
23 3 0.08
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (18 bp):
AATAATTTATAAAATTTA
Found at i:1334402 original size:13 final size:13
Alignment explanation
Indices: 1334384--1334409 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1334374 TCTTATTTAT
1334384 AAATAAATAATAA
1 AAATAAATAATAA
1334397 AAATAAATAATAA
1 AAATAAATAATAA
1334410 TTTACGTTAT
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:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (13 bp):
AAATAAATAATAA
Found at i:1334697 original size:18 final size:18
Alignment explanation
Indices: 1334674--1334712 Score: 62
Period size: 18 Copynumber: 2.2 Consensus size: 18
1334664 ATTTATCAAA
1334674 TTTATAAA-TATTTTTATT
1 TTTATAAATTA-TTTTATT
1334692 TTTATAAATTATTTTATT
1 TTTATAAATTATTTTATT
1334710 TTT
1 TTT
1334713 TGAAAAATTA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
18 18 0.90
19 2 0.10
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (18 bp):
TTTATAAATTATTTTATT
Found at i:1334720 original size:20 final size:19
Alignment explanation
Indices: 1334685--1334728 Score: 54
Period size: 20 Copynumber: 2.3 Consensus size: 19
1334675 TTATAAATAT
*
1334685 TTTTATTTTTATAAATT-A
1 TTTTATTTTTAAAAATTAA
1334703 TTTTATTTTTTGAAAAATTAA
1 TTTTA-TTTTT-AAAAATTAA
1334724 TTTTA
1 TTTTA
1334729 GTTATTATTT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
18 5 0.23
19 5 0.23
20 6 0.27
21 6 0.27
ACGTcount: A:0.34, C:0.00, G:0.02, T:0.64
Consensus pattern (19 bp):
TTTTATTTTTAAAAATTAA
Found at i:1337680 original size:19 final size:19
Alignment explanation
Indices: 1337635--1337708 Score: 78
Period size: 19 Copynumber: 3.7 Consensus size: 19
1337625 CTACCAGTTT
**
1337635 CATGTATCGATACAATTTGTC
1 CATGTATCGATACAA--TGAA
1337656 CATGTATCGATACAATGAA
1 CATGTATCGATACAATGAA
*
1337675 CATGTATCGATACAAAGCAGA
1 CATGTATCGATACAATG-A-A
1337696 -ATGTATCGATACA
1 CATGTATCGATACA
1337709 TCTGGGTGTG
Statistics
Matches: 48, Mismatches: 3, Indels: 5
0.86 0.05 0.09
Matches are distributed among these distances:
19 18 0.38
20 14 0.29
21 16 0.33
ACGTcount: A:0.38, C:0.18, G:0.16, T:0.28
Consensus pattern (19 bp):
CATGTATCGATACAATGAA
Found at i:1340160 original size:13 final size:13
Alignment explanation
Indices: 1340142--1340169 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
1340132 AATAGTACCT
1340142 AATGTATCGATAC
1 AATGTATCGATAC
1340155 AATGTATCGATAC
1 AATGTATCGATAC
1340168 AA
1 AA
1340170 GGAATGTTGT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.43, C:0.14, G:0.14, T:0.29
Consensus pattern (13 bp):
AATGTATCGATAC
Found at i:1344119 original size:21 final size:21
Alignment explanation
Indices: 1344071--1344120 Score: 57
Period size: 21 Copynumber: 2.4 Consensus size: 21
1344061 ATCATGCAAG
*
1344071 TTTTTATTTCTCTTAGCTAAT
1 TTTTTATTTCTCTTAGCCAAT
**
1344092 TCATTATTT-TCATTAGCCAAT
1 TTTTTATTTCTC-TTAGCCAAT
1344113 TTTTTATT
1 TTTTTATT
1344121 ATCAACTTGC
Statistics
Matches: 23, Mismatches: 5, Indels: 2
0.77 0.17 0.07
Matches are distributed among these distances:
20 2 0.09
21 21 0.91
ACGTcount: A:0.22, C:0.14, G:0.04, T:0.60
Consensus pattern (21 bp):
TTTTTATTTCTCTTAGCCAAT
Found at i:1346355 original size:33 final size:33
Alignment explanation
Indices: 1346318--1346417 Score: 175
Period size: 33 Copynumber: 3.0 Consensus size: 33
1346308 GTTACAAGCT
*
1346318 ATGTATCGATACATTTGT-TCATGTATCGATACA
1 ATGTATCGATACA-TTGTACCATGTATCGATACA
1346351 ATGTATCGATACATTGTACCATGTATCGATACA
1 ATGTATCGATACATTGTACCATGTATCGATACA
1346384 ATGTATCGATACATTGTACCATGTATCGATACA
1 ATGTATCGATACATTGTACCATGTATCGATACA
1346417 A
1 A
1346418 ATAGTGATAG
Statistics
Matches: 65, Mismatches: 1, Indels: 2
0.96 0.01 0.03
Matches are distributed among these distances:
32 4 0.06
33 61 0.94
ACGTcount: A:0.33, C:0.17, G:0.15, T:0.35
Consensus pattern (33 bp):
ATGTATCGATACATTGTACCATGTATCGATACA
Found at i:1346356 original size:13 final size:13
Alignment explanation
Indices: 1346338--1346401 Score: 68
Period size: 13 Copynumber: 5.4 Consensus size: 13
1346328 ACATTTGTTC
1346338 ATGTATCGATACA
1 ATGTATCGATACA
1346351 ATGTATCGATAC-
1 ATGTATCGATACA
*
1346363 A--T-T-G-TACC
1 ATGTATCGATACA
1346371 ATGTATCGATACA
1 ATGTATCGATACA
1346384 ATGTATCGATACA
1 ATGTATCGATACA
*
1346397 TTGTA
1 ATGTA
1346402 CCATGTATCG
Statistics
Matches: 43, Mismatches: 2, Indels: 12
0.75 0.04 0.21
Matches are distributed among these distances:
7 3 0.07
8 2 0.05
9 1 0.02
10 2 0.05
11 1 0.02
12 2 0.05
13 32 0.74
ACGTcount: A:0.34, C:0.16, G:0.16, T:0.34
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:1346376 original size:20 final size:20
Alignment explanation
Indices: 1346351--1346416 Score: 83
Period size: 20 Copynumber: 3.6 Consensus size: 20
1346341 TATCGATACA
1346351 ATGTATCGATACATTGTACC
1 ATGTATCGATACATTGTACC
1346371 ATGTATCGATAC-----A--
1 ATGTATCGATACATTGTACC
1346384 ATGTATCGATACATTGTACC
1 ATGTATCGATACATTGTACC
1346404 ATGTATCGATACA
1 ATGTATCGATACA
1346417 AATAGTGATA
Statistics
Matches: 39, Mismatches: 0, Indels: 14
0.74 0.00 0.26
Matches are distributed among these distances:
13 12 0.31
15 1 0.03
18 1 0.03
20 25 0.64
ACGTcount: A:0.33, C:0.18, G:0.15, T:0.33
Consensus pattern (20 bp):
ATGTATCGATACATTGTACC
Found at i:1346491 original size:19 final size:19
Alignment explanation
Indices: 1346446--1346502 Score: 78
Period size: 19 Copynumber: 2.9 Consensus size: 19
1346436 CTGCCAGTTT
**
1346446 CATGTATCGATACAATTTGTC
1 CATGTATCGATACAA--TGAA
1346467 CATGTATCGATACAATGAA
1 CATGTATCGATACAATGAA
1346486 CATGTATCGATACAATG
1 CATGTATCGATACAATG
1346503 TATCGATACA
Statistics
Matches: 34, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
19 19 0.56
21 15 0.44
ACGTcount: A:0.35, C:0.18, G:0.16, T:0.32
Consensus pattern (19 bp):
CATGTATCGATACAATGAA
Found at i:1346505 original size:13 final size:13
Alignment explanation
Indices: 1346487--1346513 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
1346477 TACAATGAAC
1346487 ATGTATCGATACA
1 ATGTATCGATACA
1346500 ATGTATCGATACA
1 ATGTATCGATACA
1346513 A
1 A
1346514 AGCAGAATGT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.41, C:0.15, G:0.15, T:0.30
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:1351074 original size:20 final size:19
Alignment explanation
Indices: 1351051--1351089 Score: 69
Period size: 20 Copynumber: 2.0 Consensus size: 19
1351041 CTATGCATTA
1351051 TGTATCGATACATTTGAAGG
1 TGTATCGATACATTT-AAGG
1351071 TGTATCGATACATTTAAGG
1 TGTATCGATACATTTAAGG
1351090 GTTTTGACCT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 4 0.21
20 15 0.79
ACGTcount: A:0.31, C:0.10, G:0.23, T:0.36
Consensus pattern (19 bp):
TGTATCGATACATTTAAGG
Found at i:1353028 original size:21 final size:20
Alignment explanation
Indices: 1352999--1353040 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 20
1352989 TGTTAGCGTA
*
1352999 GGGGCTGCCCGGTTGCGACCT
1 GGGGCTG-CCGGTCGCGACCT
*
1353020 GGGGGTGCCGGTCGCGACCT
1 GGGGCTGCCGGTCGCGACCT
1353040 G
1 G
1353041 ATGAGTGCTG
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
20 13 0.68
21 6 0.32
ACGTcount: A:0.05, C:0.31, G:0.48, T:0.17
Consensus pattern (20 bp):
GGGGCTGCCGGTCGCGACCT
Found at i:1359614 original size:10 final size:10
Alignment explanation
Indices: 1359599--1359633 Score: 61
Period size: 10 Copynumber: 3.5 Consensus size: 10
1359589 TTTGAAAATA
1359599 TAGCCGTTAC
1 TAGCCGTTAC
1359609 TAGCCGTTAC
1 TAGCCGTTAC
1359619 TAGCCGTTAC
1 TAGCCGTTAC
*
1359629 AAGCC
1 TAGCC
1359634 AATGTATCGA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
10 24 1.00
ACGTcount: A:0.23, C:0.31, G:0.20, T:0.26
Consensus pattern (10 bp):
TAGCCGTTAC
Found at i:1359799 original size:13 final size:13
Alignment explanation
Indices: 1359781--1359805 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1359771 ACATTTGGCC
1359781 ATGTATCGATACA
1 ATGTATCGATACA
1359794 ATGTATCGATAC
1 ATGTATCGATAC
1359806 TGTGCATTAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:1359838 original size:20 final size:19
Alignment explanation
Indices: 1359815--1359853 Score: 69
Period size: 20 Copynumber: 2.0 Consensus size: 19
1359805 CTGTGCATTA
1359815 TGTATCGATACATTTGAAGG
1 TGTATCGATACATTT-AAGG
1359835 TGTATCGATACATTTAAGG
1 TGTATCGATACATTTAAGG
1359854 GTTTTGACCT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 4 0.21
20 15 0.79
ACGTcount: A:0.31, C:0.10, G:0.23, T:0.36
Consensus pattern (19 bp):
TGTATCGATACATTTAAGG
Found at i:1362858 original size:49 final size:49
Alignment explanation
Indices: 1362630--1363068 Score: 453
Period size: 49 Copynumber: 8.9 Consensus size: 49
1362620 AAGAGTGATA
* ** *
1362630 AAGGTGCCAATATGCTGATTC-AGGACCAATGATATTGGGCTTAAAGATG
1 AAGGTGCCAATGTGCTGATTCAAGG-CCAGCGATATTGGACTTAAAGATG
* * * *** * * ** *
1362679 TAAAGAATGTCAATGTGCTGATTCACGATTAGTGACATTAAACTTGAAGATGAG
1 --AAG-GTGCCAATGTGCTGATTCAAGGCCAGCGATATTGGACTTAAAGAT--G
* ** * **
1362733 AAGAATGCCAATGTGCTGATTCAAGGCCAGTAACATTATACTTAAAGATG
1 AAG-GTGCCAATGTGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATG
*
1362783 ACAAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATG
1 ---AAGGTGCCAATGTGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATG
1362835 AAGGTGCCAATGTGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATG
1 AAGGTGCCAATGTGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATG
*
1362884 AAGGTGCCAATGTGCTAATTCAAGGCCAGCGATATTGGACTTAAAGATG
1 AAGGTGCCAATGTGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATG
* * * *
1362933 AAGGTGCCAATGTGCTGATTCAAGGCTAGCAACATTGGACTT-AAGGTG
1 AAGGTGCCAATGTGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATG
* * *
1362981 AAGGTGCCAATGTGCTGATTCAAGGCCAACAACATTGGACTT----A--
1 AAGGTGCCAATGTGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATG
*
1363024 AAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAA
1 AAGGTGCCAATGTGCTGATTCAAGGCCAGCGATATTGGACTTAAA
1363069 AGAAGATGCC
Statistics
Matches: 336, Mismatches: 42, Indels: 25
0.83 0.10 0.06
Matches are distributed among these distances:
43 38 0.11
48 45 0.13
49 134 0.40
50 1 0.00
51 3 0.01
52 110 0.33
53 4 0.01
54 1 0.00
ACGTcount: A:0.33, C:0.16, G:0.25, T:0.25
Consensus pattern (49 bp):
AAGGTGCCAATGTGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATG
Found at i:1363187 original size:27 final size:27
Alignment explanation
Indices: 1363088--1363216 Score: 141
Period size: 28 Copynumber: 4.6 Consensus size: 27
1363078 CACCAACTTG
1363088 TGTGGGCTTTTGAAGGTTGCCACTAACT
1 TGTGGGC-TTTGAAGGTTGCCACTAACT
* **
1363116 TGTGGGCTTTGAAAGAGGTGCCACCGACT
1 TGTGGGCTTTG-AAG-GTTGCCACTAACT
* **
1363145 TGTGGGCTTCTAAAGGTTGCCACTGCCT
1 TGTGGGCTT-TGAAGGTTGCCACTAACT
* *
1363173 TGTGAGCTTTGAAGGTTGCCCCTAACT
1 TGTGGGCTTTGAAGGTTGCCACTAACT
1363200 TGTGGGCTTTGGAAGGT
1 TGTGGGCTTT-GAAGGT
1363217 GAGGAATGTC
Statistics
Matches: 84, Mismatches: 13, Indels: 8
0.80 0.12 0.08
Matches are distributed among these distances:
27 27 0.32
28 34 0.40
29 22 0.26
30 1 0.01
ACGTcount: A:0.17, C:0.19, G:0.32, T:0.32
Consensus pattern (27 bp):
TGTGGGCTTTGAAGGTTGCCACTAACT
Found at i:1364660 original size:1 final size:1
Alignment explanation
Indices: 1364656--1364715 Score: 57
Period size: 1 Copynumber: 60.0 Consensus size: 1
1364646 TTTTTGCTAG
* * * * * * *
1364656 TTTTTTTATTTTTTTGTTGTTTTTTTATTTTTTTGTTTTTTTGTTTTTTTTTTATTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
1364716 ACGGAGGATG
Statistics
Matches: 45, Mismatches: 14, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
1 45 1.00
ACGTcount: A:0.05, C:0.00, G:0.07, T:0.88
Consensus pattern (1 bp):
T
Found at i:1364668 original size:18 final size:17
Alignment explanation
Indices: 1364645--1364703 Score: 57
Period size: 16 Copynumber: 3.4 Consensus size: 17
1364635 CATCCGGACC
1364645 ATTTTTGCTAGTTTTTTT
1 ATTTTTG-TAGTTTTTTT
*
1364663 ATTTTTTTGTTGTTTTTTT
1 A--TTTTTGTAGTTTTTTT
*
1364682 ATTTTT-TTGTTTTTTT
1 ATTTTTGTAGTTTTTTT
*
1364698 GTTTTT
1 ATTTTT
1364704 TTTTTATTTT
Statistics
Matches: 37, Mismatches: 2, Indels: 6
0.82 0.04 0.13
Matches are distributed among these distances:
16 15 0.41
17 5 0.14
18 1 0.03
19 10 0.27
20 6 0.16
ACGTcount: A:0.07, C:0.02, G:0.10, T:0.81
Consensus pattern (17 bp):
ATTTTTGTAGTTTTTTT
Found at i:1364671 original size:20 final size:19
Alignment explanation
Indices: 1364646--1364715 Score: 76
Period size: 19 Copynumber: 3.8 Consensus size: 19
1364636 ATCCGGACCA
1364646 TTTTTGCTAGTTTTTTTATT
1 TTTTTG-TAGTTTTTTTATT
*
1364666 TTTTTGTTGTTTTTTTATT
1 TTTTTGTAGTTTTTTTATT
1364685 TTTTTGT--TTTTTTGT-TT
1 TTTTTGTAGTTTTTT-TATT
*
1364702 TTTTTTTA-TTTTTT
1 TTTTTGTAGTTTTTT
1364716 ACGGAGGATG
Statistics
Matches: 46, Mismatches: 2, Indels: 6
0.85 0.04 0.11
Matches are distributed among these distances:
17 14 0.30
18 7 0.15
19 19 0.41
20 6 0.13
ACGTcount: A:0.06, C:0.01, G:0.09, T:0.84
Consensus pattern (19 bp):
TTTTTGTAGTTTTTTTATT
Found at i:1364686 original size:27 final size:27
Alignment explanation
Indices: 1364656--1364715 Score: 102
Period size: 27 Copynumber: 2.2 Consensus size: 27
1364646 TTTTTGCTAG
1364656 TTTTTTTATTTTTTTGTTGTTTTTTTA
1 TTTTTTTATTTTTTTGTTGTTTTTTTA
* *
1364683 TTTTTTTGTTTTTTTGTTTTTTTTTTA
1 TTTTTTTATTTTTTTGTTGTTTTTTTA
1364710 TTTTTT
1 TTTTTT
1364716 ACGGAGGATG
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
27 31 1.00
ACGTcount: A:0.05, C:0.00, G:0.07, T:0.88
Consensus pattern (27 bp):
TTTTTTTATTTTTTTGTTGTTTTTTTA
Found at i:1364703 original size:16 final size:16
Alignment explanation
Indices: 1364655--1364705 Score: 66
Period size: 16 Copynumber: 3.0 Consensus size: 16
1364645 ATTTTTGCTA
1364655 GTTTTTTTATTTTTTTGTT
1 GTTTTTTTA--TTTTT-TT
1364674 GTTTTTTTATTTTTTT
1 GTTTTTTTATTTTTTT
*
1364690 GTTTTTTTGTTTTTTT
1 GTTTTTTTATTTTTTT
1364706 TTTATTTTTT
Statistics
Matches: 31, Mismatches: 1, Indels: 3
0.89 0.03 0.09
Matches are distributed among these distances:
16 17 0.55
17 5 0.16
19 9 0.29
ACGTcount: A:0.04, C:0.00, G:0.10, T:0.86
Consensus pattern (16 bp):
GTTTTTTTATTTTTTT
Found at i:1364708 original size:19 final size:18
Alignment explanation
Indices: 1364656--1364715 Score: 84
Period size: 19 Copynumber: 3.2 Consensus size: 18
1364646 TTTTTGCTAG
1364656 TTTTTTTATTTTTTTGTT
1 TTTTTTTATTTTTTTGTT
1364674 GTTTTTTTATTTTTTTGTT
1 -TTTTTTTATTTTTTTGTT
* *
1364693 TTTTTGTTTTTTTTTTATT
1 TTTTT-TTATTTTTTTGTT
1364712 TTTT
1 TTTT
1364716 ACGGAGGATG
Statistics
Matches: 38, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
18 5 0.13
19 33 0.87
ACGTcount: A:0.05, C:0.00, G:0.07, T:0.88
Consensus pattern (18 bp):
TTTTTTTATTTTTTTGTT
Found at i:1381045 original size:54 final size:56
Alignment explanation
Indices: 1380947--1381056 Score: 134
Period size: 54 Copynumber: 2.0 Consensus size: 56
1380937 AATTAAAAAT
* *
1380947 GTATTGATACAATTGTAAGCATATATCGATACATTTACTAATGTA-GATACATTTC
1 GTATCGATACAATTGTAAGCATATATCGATACATTCACTAATGTATGATACATTTC
* * * * *
1381002 GTATCGATAC-ATTTTAGGCATGTATCGATCCATTCACTTATGTATTGATACATTT
1 GTATCGATACAATTGTAAGCATATATCGATACATTCACTAATGTA-TGATACATTT
1381057 ATTGTTTGTA
Statistics
Matches: 46, Mismatches: 7, Indels: 3
0.82 0.12 0.05
Matches are distributed among these distances:
54 28 0.61
55 9 0.20
56 9 0.20
ACGTcount: A:0.32, C:0.15, G:0.14, T:0.40
Consensus pattern (56 bp):
GTATCGATACAATTGTAAGCATATATCGATACATTCACTAATGTATGATACATTTC
Found at i:1381977 original size:111 final size:111
Alignment explanation
Indices: 1381853--1382074 Score: 320
Period size: 111 Copynumber: 2.0 Consensus size: 111
1381843 CGATATCGAG
* * * *
1381853 CTTGAAGATGAGAAGAATGATAAAAGTG-TCGATATGCTAATTCAAGACCAGCGATATTGGACTT
1 CTTGAAAATGAGAAGAATGACAAAAGTGAT-GATATGCTAATTCAAGACCAGCAATATTGGACGT
* *
1381917 AAAGGTGACAAAGGTGCTAATGCTAATTCAAGGCCAACGGCATTGGA
65 AAAGGTGACAAAGGTGCTAATGCTAATCCAAGGCCAACGACATTGGA
* * *
1381964 CTTGAAAATGAGAAGAATGACAAAAGTGATGATATGCTGATTCAAGGCTAGCAATATTGGACGTA
1 CTTGAAAATGAGAAGAATGACAAAAGTGATGATATGCTAATTCAAGACCAGCAATATTGGACGTA
* * *
1382029 AAGGTGACAAAGGTGCTAGTGTTGATCCAAGGCCAACGACATTGGA
66 AAGGTGACAAAGGTGCTAATGCTAATCCAAGGCCAACGACATTGGA
1382075 AAATGACAAA
Statistics
Matches: 98, Mismatches: 12, Indels: 2
0.88 0.11 0.02
Matches are distributed among these distances:
111 97 0.99
112 1 0.01
ACGTcount: A:0.37, C:0.14, G:0.26, T:0.23
Consensus pattern (111 bp):
CTTGAAAATGAGAAGAATGACAAAAGTGATGATATGCTAATTCAAGACCAGCAATATTGGACGTA
AAGGTGACAAAGGTGCTAATGCTAATCCAAGGCCAACGACATTGGA
Found at i:1382469 original size:66 final size:64
Alignment explanation
Indices: 1382243--1382814 Score: 420
Period size: 66 Copynumber: 8.9 Consensus size: 64
1382233 TAGAAGAAGA
* * * * *
1382243 TGCCACCGACTTGTGTGGGCTTTATAA-AGGTTGCTATTGACTTGTGTGGGCTTTATAA-A-GGT
1 TGCCACCGACTTATGT-GGCTTTAGAAGAGGTTGCCACTGACTTGTGTGGGCTTTAGAAGAGGGT
* * * * * * *
1382305 TGCCACTGACTTGTGTGGGCTTTAGAAAGGGGTTGCCA-TCGATTTTTATGGGGTTTAG-AG-GG
1 TGCCACCGACTTATGT-GGCTTTAG-AAGAGGTTGCCACT-GACTTGTGTGGGCTTTAGAAGAGG
1382367 GT
63 GT
* * * * *
1382369 TGCCATCGACTTATGTGGGCTTTAGAAGGGGGTTGCCACTAACTTGTGTAGGCTTTAGAAGATGG
1 TGCCACCGACTTATGT-GGCTTTAGAA-GAGGTTGCCACTGACTTGTGTGGGCTTTAGAAGAGGG
1382434 T
64 T
* * * * *
1382435 TGCCATCGACTTATGTGGATTTCAGAAAGAGGTTGCTATTGACTTGTGTGGGCTCTAGAAGAGGG
1 TGCCACCGACTTATGTGGCTTT-AG-AAGAGGTTGCCACTGACTTGTGTGGGCTTTAGAAGAGGG
1382500 T
64 T
* * * * *
1382501 TACCACTGACTTGTATG-GGCTTTAGAAAAGGCTTGCCACCGACTTGTGTGGGCTTTAGAAAAGG
1 TGCCACCGAC-T-TATGTGGCTTTAGAAGAGG-TTGCCACTGACTTGTGTGGGCTTTAGAAGA-G
1382565 AGGT
62 -GGT
* * * *
1382569 TGCCACCAACTTGTATG-GGCTTTAGAAGA-GTTGTCA-TCGACTTGTGTAGGCTTTAGAAGGGG
1 TGCCACCGAC-T-TATGTGGCTTTAGAAGAGGTTGCCACT-GACTTGTGTGGGCTTTAGAAGAGG
1382631 GT
63 GT
* * * *
1382633 TGCCACCAACTTGTGTGGGCTTTAGAAGAGGTTGCCACTGACTTTTGTGGACTTTA-AAG-GGGT
1 TGCCACCGACTTATGT-GGCTTTAGAAGAGGTTGCCACTGACTTGTGTGGGCTTTAGAAGAGGGT
* *** * * * * *
1382696 TACCATTAAATTGTGTGGACTTTAG-AGGGGTTGCCACCGACTTGTATGGGCTTTAG-A-AGGGT
1 TGCCACCGACTTATGTGG-CTTTAGAAGAGGTTGCCACTGACTTGTGTGGGCTTTAGAAGAGGGT
* * ** *
1382758 TGCCACCGACTTGTGTGGACTTTAGAAG-GGTTGGCACCAACTTATGTGGGCTTTAGA
1 TGCCACCGACTTATGTGG-CTTTAGAAGAGGTTGCCACTGACTTGTGTGGGCTTTAGA
1382815 GAAGGGTGCT
Statistics
Matches: 415, Mismatches: 69, Indels: 51
0.78 0.13 0.10
Matches are distributed among these distances:
62 102 0.25
63 31 0.07
64 95 0.23
65 34 0.08
66 111 0.27
67 10 0.02
68 32 0.08
ACGTcount: A:0.21, C:0.16, G:0.31, T:0.32
Consensus pattern (64 bp):
TGCCACCGACTTATGTGGCTTTAGAAGAGGTTGCCACTGACTTGTGTGGGCTTTAGAAGAGGGT
Found at i:1382507 original size:99 final size:98
Alignment explanation
Indices: 1382227--1382785 Score: 495
Period size: 99 Copynumber: 5.8 Consensus size: 98
1382217 CCAATGACAT
* * * * *
1382227 TAGGC-TTAGAAGA-AGATGCCACCGACTTGTGTGGGCTTTATAA-AGGTTGCTATTGACTTGTG
1 TAGGCTTTAGAAGAGGGTTGCCACCGACTTATGTGGGCTTTAGAAGAGGTTGCCATTGACTTGTG
*
1382289 TGGGCTTTATAA-A-GGTTGCCACTGACTTGTG
66 TGGGCTTTAGAAGAGGGTTGCCACTGACTTGTG
* * * * * * * * *
1382320 TGGGCTTTAGAA-AGGGGTTGCCATCGATTTTTATGGGGTTTAG-AGGGGTTGCCATCGACTTAT
1 TAGGCTTTAGAAGA-GGGTTGCCACCGACTTATGTGGGCTTTAGAAGAGGTTGCCATTGACTTGT
* *
1382383 GTGGGCTTTAGAAGGGGGTTGCCACTAACTTGTG
65 GTGGGCTTTAGAAGAGGGTTGCCACTGACTTGTG
* * * *
1382417 TAGGCTTTAGAAGATGGTTGCCATCGACTTATGT-GGATTTCAGAAAGAGGTTGCTATTGACTTG
1 TAGGCTTTAGAAGAGGGTTGCCACCGACTTATGTGGGCTTT-AG-AAGAGGTTGCCATTGACTTG
* * *
1382481 TGTGGGCTCTAGAAGAGGGTTACCACTGACTTGTA
64 TGTGGGCTTTAGAAGAGGGTTGCCACTGACTTGTG
* * * * ***
1382516 TGGGCTTTAGAAAAGGCTTGCCACCGACTTGTGTGGGCTTTAGAAAAGGAGGTTGCCACCAACTT
1 TAGGCTTTAGAAGAGGGTTGCCACCGACTTATGTGGGCTTTAG--AA-GAGGTTGCCATTGACTT
* *
1382581 GTATGGGCTTTAGAAGA--GTTGTCA-TCGACTTGTG
63 GTGTGGGCTTTAGAAGAGGGTTGCCACT-GACTTGTG
* * * * *
1382615 TAGGCTTTAGAAGGGGGTTGCCACCAACTTGTGTGGGCTTTAGAAGAGGTTGCCACTGACTTTTG
1 TAGGCTTTAGAAGAGGGTTGCCACCGACTTATGTGGGCTTTAGAAGAGGTTGCCATTGACTTGTG
* * * * *
1382680 TGGACTTTA-AAG-GGGTTACCATTAAATTGTG
66 TGGGCTTTAGAAGAGGGTTGCCACTGACTTGTG
* * **
1382711 T-GGACTTTAG-AG-GGGTTGCCACCGACTTGTATGGGCTTTAGAAG-GGTTGCCACCGACTTGT
1 TAGG-CTTTAGAAGAGGGTTGCCACCGACTTATGTGGGCTTTAGAAGAGGTTGCCATTGACTTGT
*
1382772 GTGGACTTTAGAAG
65 GTGGGCTTTAGAAG
1382786 GGTTGGCACC
Statistics
Matches: 382, Mismatches: 65, Indels: 37
0.79 0.13 0.08
Matches are distributed among these distances:
93 30 0.08
94 40 0.10
95 53 0.14
96 47 0.12
97 49 0.13
98 2 0.01
99 125 0.33
100 8 0.02
101 28 0.07
ACGTcount: A:0.22, C:0.15, G:0.31, T:0.32
Consensus pattern (98 bp):
TAGGCTTTAGAAGAGGGTTGCCACCGACTTATGTGGGCTTTAGAAGAGGTTGCCATTGACTTGTG
TGGGCTTTAGAAGAGGGTTGCCACTGACTTGTG
Found at i:1382750 original size:31 final size:32
Alignment explanation
Indices: 1382243--1382814 Score: 496
Period size: 31 Copynumber: 17.8 Consensus size: 32
1382233 TAGAAGAAGA
* *
1382243 TGCCACCGACTTGTGTGGGCTTTATAA-AGGT
1 TGCCACCGACTTGTGTGGGCTTTAGAAGGGGT
* ** * *
1382274 TGCTATTGACTTGTGTGGGCTTTATAA-AGGT
1 TGCCACCGACTTGTGTGGGCTTTAGAAGGGGT
*
1382305 TGCCACTGACTTGTGTGGGCTTTAGAAAGGGGT
1 TGCCACCGACTTGTGTGGGCTTTAG-AAGGGGT
* * * * *
1382338 TGCCATCGATTTTTATGGGGTTTAG-AGGGGT
1 TGCCACCGACTTGTGTGGGCTTTAGAAGGGGT
* *
1382369 TGCCATCGACTTATGTGGGCTTTAGAAGGGGGT
1 TGCCACCGACTTGTGTGGGCTTTAGAA-GGGGT
** * *
1382402 TGCCACTAACTTGTGTAGGCTTTAGAAGATGGT
1 TGCCACCGACTTGTGTGGGCTTTAGAAG-GGGT
* * * *
1382435 TGCCATCGACTTATGT-GGATTTCAGAAAGAGGT
1 TGCCACCGACTTGTGTGGGCTTT-AG-AAGGGGT
* ** *
1382468 TGCTATTGACTTGTGTGGGCTCTAGAAGAGGGT
1 TGCCACCGACTTGTGTGGGCTTTAGAAG-GGGT
* * * * *
1382501 TACCACTGACTTGTATGGGCTTTAGAAAAGGCT
1 TGCCACCGACTTGTGTGGGCTTTAG-AAGGGGT
1382534 TGCCACCGACTTGTGTGGGCTTTAGAAAAGGAGGT
1 TGCCACCGACTTGTGTGGGCTTTAG--AAGG-GGT
* * *
1382569 TGCCACCAACTTGTATGGGCTTTAGAA-GAGT
1 TGCCACCGACTTGTGTGGGCTTTAGAAGGGGT
* * *
1382600 TGTCATCGACTTGTGTAGGCTTTAGAAGGGGGT
1 TGCCACCGACTTGTGTGGGCTTTAGAA-GGGGT
* *
1382633 TGCCACCAACTTGTGTGGGCTTTAGAAGAGGT
1 TGCCACCGACTTGTGTGGGCTTTAGAAGGGGT
* * *
1382665 TGCCACTGACTTTTGTGGACTTTA-AAGGGGT
1 TGCCACCGACTTGTGTGGGCTTTAGAAGGGGT
* *** * *
1382696 TACCATTAAATTGTGTGGACTTTAG-AGGGGT
1 TGCCACCGACTTGTGTGGGCTTTAGAAGGGGT
*
1382727 TGCCACCGACTTGTATGGGCTTTAGAA-GGGT
1 TGCCACCGACTTGTGTGGGCTTTAGAAGGGGT
*
1382758 TGCCACCGACTTGTGTGGACTTTAGAA-GGGT
1 TGCCACCGACTTGTGTGGGCTTTAGAAGGGGT
* * *
1382789 TGGCACCAACTTATGTGGGCTTTAGA
1 TGCCACCGACTTGTGTGGGCTTTAGA
1382815 GAAGGGTGCT
Statistics
Matches: 441, Mismatches: 84, Indels: 32
0.79 0.15 0.06
Matches are distributed among these distances:
31 205 0.46
32 38 0.09
33 160 0.36
34 13 0.03
35 25 0.06
ACGTcount: A:0.21, C:0.16, G:0.31, T:0.32
Consensus pattern (32 bp):
TGCCACCGACTTGTGTGGGCTTTAGAAGGGGT
Found at i:1382903 original size:34 final size:33
Alignment explanation
Indices: 1382828--1382903 Score: 84
Period size: 33 Copynumber: 2.3 Consensus size: 33
1382818 GGGTGCTTTG
* * *
1382828 AAGA-AAAAGGTGCTACGGAGTTGTGGACTCAA
1 AAGAGAAAAGGTGCCACGAAGTTGTGCACTCAA
*
1382860 AAG-GAAAAAGGTGCCACGAAGTTGTGCACTTTAA
1 AAGAG-AAAAGGTGCCACGAAGTTGTGCAC-TCAA
1382894 AAGAGAAAAG
1 AAGAGAAAAG
1382904 TGTCATAGAG
Statistics
Matches: 36, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
32 3 0.08
33 21 0.58
34 11 0.31
35 1 0.03
ACGTcount: A:0.42, C:0.12, G:0.29, T:0.17
Consensus pattern (33 bp):
AAGAGAAAAGGTGCCACGAAGTTGTGCACTCAA
Found at i:1382942 original size:27 final size:27
Alignment explanation
Indices: 1382911--1383071 Score: 119
Period size: 27 Copynumber: 5.7 Consensus size: 27
1382901 AAGTGTCATA
1382911 GAGTTATGGACTTAAAAGGGTGCCATG
1 GAGTTATGGACTTAAAAGGGTGCCATG
* *
1382938 GAGTTGTGGACTTAAAAGGGTGCCACG
1 GAGTTATGGACTTAAAAGGGTGCCATG
* * *
1382965 AAGTTGTGAACTTAAAAAAGAGAAAGGTGCCATG
1 GAGTTATGGACTT---AAA-AG---GGTGCCATG
* **
1382999 AAGTTGCGGACTTAAAATGGG-GCC-TCG
1 GAGTTATGGACTTAAAA-GGGTGCCAT-G
* * *
1383026 GAGTTATGGACTTAAAAGAGTACCACG
1 GAGTTATGGACTTAAAAGGGTGCCATG
*
1383053 GAGTTATGGGCTTAAAAGG
1 GAGTTATGGACTTAAAAGG
1383072 AAAAATGTGC
Statistics
Matches: 108, Mismatches: 15, Indels: 22
0.74 0.10 0.15
Matches are distributed among these distances:
26 3 0.03
27 74 0.69
28 2 0.02
30 4 0.04
31 6 0.06
34 19 0.18
ACGTcount: A:0.33, C:0.12, G:0.32, T:0.23
Consensus pattern (27 bp):
GAGTTATGGACTTAAAAGGGTGCCATG
Found at i:1383029 original size:88 final size:86
Alignment explanation
Indices: 1382864--1383104 Score: 254
Period size: 88 Copynumber: 2.8 Consensus size: 86
1382854 ACTCAAAAGG
* * * * *
1382864 AAAAAGGTGCCACGAAGTTGTGCACTTTAAAAGAGAAAAGTGTCATAGAGTTATGGACTTAAAAG
1 AAAAGGGTGCCACGAAGTTGTGAACTTAAAAAGAGAAAAGTGCCATA-AGTTGTGGACTTAAAAG
*
1382929 GGTGCCATGGAGTTGTGGACTT
65 GGTGCCATGGAGTTATGGACTT
* *
1382951 AAAAGGGTGCCACGAAGTTGTGAACTTAAAAAAGAGAAAGGTGCCATGAAGTTGCGGACTTAAAA
1 AAAAGGGTGCCACGAAGTTGTGAACTT-AAAAAGAGAAAAGTGCCAT-AAGTTGTGGACTTAAAA
1383016 TGGG-GCC-TCGGAGTTATGGACTT
64 -GGGTGCCAT-GGAGTTATGGACTT
* * * * ** * *
1383039 AAAAGAGTACCACGGAGTTATGGGCTTAAAAGGA-AAAATGTGCCACAAAGTTGTGGACTTAAAA
1 AAAAGGGTGCCACGAAGTTGTGAACTTAAAAAGAGAAAA-GTGCCA-TAAGTTGTGGACTTAAAA
1383103 GG
64 GG
1383105 AAAAAGGTGC
Statistics
Matches: 130, Mismatches: 18, Indels: 13
0.81 0.11 0.08
Matches are distributed among these distances:
86 5 0.04
87 54 0.42
88 67 0.52
89 4 0.03
ACGTcount: A:0.36, C:0.12, G:0.29, T:0.22
Consensus pattern (86 bp):
AAAAGGGTGCCACGAAGTTGTGAACTTAAAAAGAGAAAAGTGCCATAAGTTGTGGACTTAAAAGG
GTGCCATGGAGTTATGGACTT
Found at i:1383105 original size:33 final size:33
Alignment explanation
Indices: 1383039--1383258 Score: 213
Period size: 33 Copynumber: 6.8 Consensus size: 33
1383029 TTATGGACTT
* * *
1383039 AAAAGAGTACCACGGAGTTATGGGCTTAAAAGGA
1 AAAAG-GTGCCACGGAGTTGTGGACTTAAAAGGA
* **
1383073 AAAATGTGCCACAAAGTTGTGGACTTAAAAGGA
1 AAAAGGTGCCACGGAGTTGTGGACTTAAAAGGA
* *
1383106 AAAAGGTGCCATTGG-GTTGTGGACTTTAAAA-TA
1 AAAAGGTGCCA-CGGAGTTGTGGAC-TTAAAAGGA
*
1383139 AAAAGGTGCCATGGAGTTGTGGACTTAAAA-G-
1 AAAAGGTGCCACGGAGTTGTGGACTTAAAAGGA
* *
1383170 ----GGTGTCACGGAGTTGTGGACATAAAAGGA
1 AAAAGGTGCCACGGAGTTGTGGACTTAAAAGGA
* * *
1383199 AAAAGATGCCACAGAGTTGTTGACTTAAAAGGA
1 AAAAGGTGCCACGGAGTTGTGGACTTAAAAGGA
* *
1383232 AAAGGGTGCCACGGAGTCGTGGACTTA
1 AAAAGGTGCCACGGAGTTGTGGACTTA
1383259 GAGAAGAGAT
Statistics
Matches: 152, Mismatches: 25, Indels: 19
0.78 0.13 0.10
Matches are distributed among these distances:
27 23 0.15
28 1 0.01
32 9 0.06
33 109 0.72
34 10 0.07
ACGTcount: A:0.36, C:0.12, G:0.30, T:0.22
Consensus pattern (33 bp):
AAAAGGTGCCACGGAGTTGTGGACTTAAAAGGA
Found at i:1383195 original size:93 final size:93
Alignment explanation
Indices: 1383087--1383258 Score: 238
Period size: 93 Copynumber: 1.8 Consensus size: 93
1383077 TGTGCCACAA
* * ** * * *
1383087 AGTTGTGGACTTAAAAGGAAAAAGGTGCCATTGGGTTGTGGACTTTAAAA-TAAAAAGGTGCCAT
1 AGTTGTGGACATAAAAGGAAAAAGATGCCACAGAGTTGTGGAC-TTAAAAGGAAAAAGGTGCCAC
*
1383151 GGAGTTGTGGACTTAAAAGGGTGTCACGG
65 GGAGTCGTGGACTTAAAAGGGTGTCACGG
* *
1383180 AGTTGTGGACATAAAAGGAAAAAGATGCCACAGAGTTGTTGACTTAAAAGGAAAAGGGTGCCACG
1 AGTTGTGGACATAAAAGGAAAAAGATGCCACAGAGTTGTGGACTTAAAAGGAAAAAGGTGCCACG
1383245 GAGTCGTGGACTTA
66 GAGTCGTGGACTTA
1383259 GAGAAGAGAT
Statistics
Matches: 68, Mismatches: 10, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
92 6 0.09
93 62 0.91
ACGTcount: A:0.34, C:0.11, G:0.31, T:0.23
Consensus pattern (93 bp):
AGTTGTGGACATAAAAGGAAAAAGATGCCACAGAGTTGTGGACTTAAAAGGAAAAAGGTGCCACG
GAGTCGTGGACTTAAAAGGGTGTCACGG
Found at i:1383196 original size:27 final size:27
Alignment explanation
Indices: 1383136--1383197 Score: 88
Period size: 27 Copynumber: 2.3 Consensus size: 27
1383126 GGACTTTAAA
* *
1383136 ATAAAAAGGTGCCATGGAGTTGTGGAC
1 ATAAAAGGGTGCCACGGAGTTGTGGAC
* *
1383163 TTAAAAGGGTGTCACGGAGTTGTGGAC
1 ATAAAAGGGTGCCACGGAGTTGTGGAC
1383190 ATAAAAGG
1 ATAAAAGG
1383198 AAAAAGATGC
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 30 1.00
ACGTcount: A:0.34, C:0.10, G:0.34, T:0.23
Consensus pattern (27 bp):
ATAAAAGGGTGCCACGGAGTTGTGGAC
Found at i:1383333 original size:30 final size:30
Alignment explanation
Indices: 1383272--1383423 Score: 137
Period size: 30 Copynumber: 5.1 Consensus size: 30
1383262 AAGAGATGAG
* * *
1383272 CACTAAGTCGTGGACTTGGAGAAGAGATGC
1 CACTAAGTCATGGAATTGGAGAAAAGATGC
* *
1383302 CACTGAGTCATGGAATTTGA-AAAACGATGC
1 CACTAAGTCATGGAATTGGAGAAAA-GATGC
* *
1383332 CACTAAGTCGTGGACTTGGAGAAAAGATGC
1 CACTAAGTCATGGAATTGGAGAAAAGATGC
* * * *
1383362 CACTAAGTCATGGACTTAGTGAAGAGATGC
1 CACTAAGTCATGGAATTGGAGAAAAGATGC
* * * *
1383392 CACCGAA-TCATGGACTTAGAGAAGAGATGC
1 CA-CTAAGTCATGGAATTGGAGAAAAGATGC
1383422 CA
1 CA
1383424 TTAAAATGTG
Statistics
Matches: 104, Mismatches: 15, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
29 3 0.03
30 94 0.90
31 7 0.07
ACGTcount: A:0.34, C:0.18, G:0.28, T:0.20
Consensus pattern (30 bp):
CACTAAGTCATGGAATTGGAGAAAAGATGC
Found at i:1383342 original size:60 final size:59
Alignment explanation
Indices: 1383272--1383423 Score: 191
Period size: 60 Copynumber: 2.5 Consensus size: 59
1383262 AAGAGATGAG
*
1383272 CACTAAGTCGTGGACTTGGAGAAGAGATGCCACTGAGTCATGGAATT-TGAAAAACGATGC
1 CACTAAGTCGTGGACTTGGAGAAGAGATGCCACTAAGTCATGGAATTATG-AAAA-GATGC
* * *
1383332 CACTAAGTCGTGGACTTGGAGAAAAGATGCCACTAAGTCATGGACTTAGTGAAGAGATGC
1 CACTAAGTCGTGGACTTGGAGAAGAGATGCCACTAAGTCATGGAATTA-TGAAAAGATGC
* * *
1383392 CACCGAA-TCATGGACTTAGAGAAGAGATGCCA
1 CA-CTAAGTCGTGGACTTGGAGAAGAGATGCCA
1383424 TTAAAATGTG
Statistics
Matches: 81, Mismatches: 8, Indels: 6
0.85 0.08 0.06
Matches are distributed among these distances:
60 73 0.90
61 6 0.07
62 2 0.02
ACGTcount: A:0.34, C:0.18, G:0.28, T:0.20
Consensus pattern (59 bp):
CACTAAGTCGTGGACTTGGAGAAGAGATGCCACTAAGTCATGGAATTATGAAAAGATGC
Found at i:1383423 original size:90 final size:91
Alignment explanation
Indices: 1383246--1383411 Score: 235
Period size: 90 Copynumber: 1.8 Consensus size: 91
1383236 GGTGCCACGG
* * * * * *
1383246 AGTCGTGGACTTAGAGAAGAGATGAGCACTAAGTCGTGGACTTGGAGAAGAGATGCCACTGAGTC
1 AGTCGTGGACTTAGAGAAAAGATGACCACTAAGTCATGGACTTAGAGAAGAGATGCCACCGAATC
*
1383311 ATGGAATTTGAAAAACGATGCCACTA
66 ATGGAATTAGAAAAACGATGCCACTA
* *
1383337 AGTCGTGGACTTGGAGAAAAGATG-CCACTAAGTCATGGACTTAGTGAAGAGATGCCACCGAATC
1 AGTCGTGGACTTAGAGAAAAGATGACCACTAAGTCATGGACTTAGAGAAGAGATGCCACCGAATC
*
1383401 ATGGACTTAGA
66 ATGGAATTAGA
1383412 GAAGAGATGC
Statistics
Matches: 65, Mismatches: 10, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
90 43 0.66
91 22 0.34
ACGTcount: A:0.34, C:0.16, G:0.29, T:0.21
Consensus pattern (91 bp):
AGTCGTGGACTTAGAGAAAAGATGACCACTAAGTCATGGACTTAGAGAAGAGATGCCACCGAATC
ATGGAATTAGAAAAACGATGCCACTA
Found at i:1383435 original size:90 final size:91
Alignment explanation
Indices: 1383248--1383438 Score: 226
Period size: 90 Copynumber: 2.1 Consensus size: 91
1383238 TGCCACGGAG
* * * * * *
1383248 TCGTGGACTTAGAGAAGAGATGAGCACTAAGTCGTGGACTTGGAGAAGAGATGCCACTGAGTCAT
1 TCGTGGACTTAGAGAAAAGATGACCACTAAGTCATGGACTTAGAGAAGAGATGCCACCGAATCAT
* *
1383313 GGAATTTGAAAAACGATGCCACTAAG
66 GGAATTAGAAAAACGATGCCACTAAA
* *
1383339 TCGTGGACTTGGAGAAAAGATG-CCACTAAGTCATGGACTTAGTGAAGAGATGCCACCGAATCAT
1 TCGTGGACTTAGAGAAAAGATGACCACTAAGTCATGGACTTAGAGAAGAGATGCCACCGAATCAT
* * *
1383403 GGACTTAGAGAAGA-GATGCCATTAAAA
66 GGAATTAGA-AAAACGATGCCACT-AAA
1383430 T-GTGGACTT
1 TCGTGGACTT
1383439 TGAAGATGGA
Statistics
Matches: 85, Mismatches: 13, Indels: 5
0.83 0.13 0.05
Matches are distributed among these distances:
90 59 0.69
91 26 0.31
ACGTcount: A:0.34, C:0.16, G:0.28, T:0.22
Consensus pattern (91 bp):
TCGTGGACTTAGAGAAAAGATGACCACTAAGTCATGGACTTAGAGAAGAGATGCCACCGAATCAT
GGAATTAGAAAAACGATGCCACTAAA
Found at i:1383438 original size:30 final size:29
Alignment explanation
Indices: 1383251--1383424 Score: 125
Period size: 30 Copynumber: 5.8 Consensus size: 29
1383241 CACGGAGTCG
* * *
1383251 TGGACTTAGAGAAGAGATGAGCACTAAGTCG
1 TGGACTTAGAGAAGAGATG-CCA-TAAATCA
* * *
1383282 TGGACTTGGAGAAGAGATGCCACTGAGTCA
1 TGGACTTAGAGAAGAGATGCCA-TAAATCA
* * * * *
1383312 TGGAATTTGA-AAAACGATGCCACTAAGTCG
1 TGGACTTAGAGAAGA-GATGCCA-TAAATCA
* * *
1383342 TGGACTTGGAGAAAAGATGCCACTAAGTCA
1 TGGACTTAGAGAAGAGATGCCA-TAAATCA
* **
1383372 TGGACTTAGTGAAGAGATGCCACCGAATCA
1 TGGACTTAGAGAAGAGATGCCA-TAAATCA
1383402 TGGACTTAGAGAAGAGATGCCAT
1 TGGACTTAGAGAAGAGATGCCAT
1383425 TAAAATGTGG
Statistics
Matches: 121, Mismatches: 20, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
29 3 0.02
30 96 0.79
31 22 0.18
ACGTcount: A:0.34, C:0.16, G:0.29, T:0.21
Consensus pattern (29 bp):
TGGACTTAGAGAAGAGATGCCATAAATCA
Found at i:1385221 original size:20 final size:20
Alignment explanation
Indices: 1385166--1385221 Score: 85
Period size: 20 Copynumber: 2.8 Consensus size: 20
1385156 ATTTACCTGT
*
1385166 ATGTATCGATACATTAAAGA
1 ATGTATCGATACATTTAAGA
**
1385186 ATGTATCGATACATTTACTA
1 ATGTATCGATACATTTAAGA
1385206 ATGTATCGATACATTT
1 ATGTATCGATACATTT
1385222 CCTTAGTAGT
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 33 1.00
ACGTcount: A:0.38, C:0.12, G:0.12, T:0.38
Consensus pattern (20 bp):
ATGTATCGATACATTTAAGA
Found at i:1385296 original size:20 final size:21
Alignment explanation
Indices: 1385273--1385315 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
1385263 GGCATGTACT
1385273 GATAC-TTTCACT-TATGTATC
1 GATACATTT-ACTGTATGTATC
*
1385293 GATACATTTACTGTTTGTATC
1 GATACATTTACTGTATGTATC
1385314 GA
1 GA
1385316 CATAAATTAT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
20 8 0.40
21 12 0.60
ACGTcount: A:0.26, C:0.16, G:0.14, T:0.44
Consensus pattern (21 bp):
GATACATTTACTGTATGTATC
Found at i:1389510 original size:11 final size:12
Alignment explanation
Indices: 1389494--1389558 Score: 55
Period size: 12 Copynumber: 5.4 Consensus size: 12
1389484 AAAAATTCAC
1389494 AATTAAAATAA-
1 AATTAAAATAAT
1389505 AATTAAAATAAT
1 AATTAAAATAAT
*
1389517 AAAT-AAATAAAT
1 AATTAAAAT-AAT
*
1389529 AATAAAAATCAA-
1 AATTAAAAT-AAT
*
1389541 AATCAAAATTAAT
1 AATTAAAA-TAAT
1389554 AATTA
1 AATTA
1389559 TAAACAAAAT
Statistics
Matches: 43, Mismatches: 6, Indels: 8
0.75 0.11 0.14
Matches are distributed among these distances:
11 15 0.35
12 17 0.40
13 11 0.26
ACGTcount: A:0.69, C:0.03, G:0.00, T:0.28
Consensus pattern (12 bp):
AATTAAAATAAT
Found at i:1390343 original size:23 final size:24
Alignment explanation
Indices: 1390317--1390362 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 24
1390307 AATTAATGAA
* *
1390317 AAAGAAAGAT-CATAATAAAAGAT
1 AAAGAAAAATGCATAAAAAAAGAT
1390340 AAAGAAAAATGCATAAAAAAAGA
1 AAAGAAAAATGCATAAAAAAAGA
1390363 AAAATGATAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
23 9 0.45
24 11 0.55
ACGTcount: A:0.70, C:0.04, G:0.13, T:0.13
Consensus pattern (24 bp):
AAAGAAAAATGCATAAAAAAAGAT
Found at i:1390372 original size:17 final size:18
Alignment explanation
Indices: 1390340--1390376 Score: 67
Period size: 18 Copynumber: 2.1 Consensus size: 18
1390330 AATAAAAGAT
1390340 AAAGAAAAATGCATAAAA
1 AAAGAAAAATGCATAAAA
1390358 AAAGAAAAATG-ATAAAA
1 AAAGAAAAATGCATAAAA
1390375 AA
1 AA
1390377 GCAAGGGAGA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
17 8 0.42
18 11 0.58
ACGTcount: A:0.76, C:0.03, G:0.11, T:0.11
Consensus pattern (18 bp):
AAAGAAAAATGCATAAAA
Found at i:1390726 original size:21 final size:19
Alignment explanation
Indices: 1390686--1390728 Score: 59
Period size: 21 Copynumber: 2.2 Consensus size: 19
1390676 AGTTTATAGA
1390686 TTTTGATGATTTATTTGAT
1 TTTTGATGATTTATTTGAT
*
1390705 TTTTGTTGTATTTATGTTGAT
1 TTTTGATG-ATTTAT-TTGAT
1390726 TTT
1 TTT
1390729 CATTATGGTA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 7 0.33
20 6 0.29
21 8 0.38
ACGTcount: A:0.16, C:0.00, G:0.16, T:0.67
Consensus pattern (19 bp):
TTTTGATGATTTATTTGAT
Found at i:1396607 original size:20 final size:20
Alignment explanation
Indices: 1396582--1396706 Score: 97
Period size: 20 Copynumber: 5.7 Consensus size: 20
1396572 TTTTAACTAG
1396582 ATGTATCGATACATTGAAAA
1 ATGTATCGATACATTGAAAA
1396602 ATGTATCGATACATCTGGGTAAAAAAATAGA
1 ATGTATCGATACAT-T--G------AA-A-A
*
1396633 ATGTATCGATACATTGAAGA
1 ATGTATCGATACATTGAAAA
* * *
1396653 ATGTATCGATACATTCATAC
1 ATGTATCGATACATTGAAAA
*
1396673 ATGTATCAATACATTGAAAA
1 ATGTATCGATACATTGAAAA
*
1396693 ATGTATCAATACAT
1 ATGTATCGATACAT
1396707 CTGGGTACTT
Statistics
Matches: 85, Mismatches: 9, Indels: 22
0.73 0.08 0.19
Matches are distributed among these distances:
20 61 0.72
21 1 0.01
22 2 0.02
23 1 0.01
28 1 0.01
29 2 0.02
30 2 0.02
31 15 0.18
ACGTcount: A:0.43, C:0.12, G:0.14, T:0.30
Consensus pattern (20 bp):
ATGTATCGATACATTGAAAA
Found at i:1397703 original size:28 final size:28
Alignment explanation
Indices: 1397589--1398329 Score: 647
Period size: 28 Copynumber: 25.1 Consensus size: 28
1397579 CATTAACTTG
* *
1397589 TGTGGGCTTTGAAAAGAGTCGCCACCGATTCT
1 TGTGGGCTTTG-AAAGGGT-GCCACTGA--CT
* *
1397621 TGTGGGCTTTGAAAAGAGTTACCACTAGA-T
1 TGTGGGCTTTG-AAAG-GGTGCCACT-GACT
* * *
1397651 TGTAGGCTTTGAAAAGAGTGCCACTAACT
1 TGTGGGCTTTG-AAAGGGTGCCACTGACT
* *
1397680 TGTGGGCTTTGAAAGGGTACCACTAACT
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
* *
1397708 TGTGGGCTTTGAAAGGATACCACTGACT
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
**
1397736 TGTGGGCTTTGAAAAAAGTGCCACTGACT
1 TGTGGGCTTTG-AAAGGGTGCCACTGACT
* *
1397765 TGTGGGCTTTGAAAAGTGTGCCACTAACT
1 TGTGGGCTTTG-AAAGGGTGCCACTGACT
1397794 TGTGGGCTTTGAAAGGGTGCCACTGACT
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
* *
1397822 TGTGGGCTTTGAAAGGATGCCATTGACT
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
* *
1397850 TGTGGGCTTTAAAAAGAGTGCCACTGACT
1 TGTGGGCTTT-GAAAGGGTGCCACTGACT
1397879 TGTGGGCTTTGAAAGGGTGCCACTGACT
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
1397907 TGTGGGCTTTGAAAGGAGTTGCCACTGACT
1 TGTGGGCTTTGAAAGG-G-TGCCACTGACT
* *
1397937 CGTGGGCTTTGAAAGGGTGCCATTGACT
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
*
1397965 TGTGGGCTTTGAAAGGATGCCACTGACT
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
* * *
1397993 TGTGGGCTTTGAAAAGATGCCACTAACT
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
* *
1398021 TGTGGGCTTTGAAAGGATGCCGCTGACT
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
* *
1398049 TGTGGGCATTGAAGGGGTGCCACTGACTT
1 TGTGGGCTTTGAAAGGGTGCCACTGAC-T
* **
1398078 GTGTGGGCTTTGAAATGGGTTACCACCAACTT
1 -TGTGGGCTTTGAAA-GGG-TGCCACTGAC-T
** **
1398110 GTGTGGGCCATGAAATGGGTTGCCACCAACTT
1 -TGTGGGCTTTGAAA-GGG-TGCCACTGAC-T
**
1398142 GTGTGGGCTTTGAAATGGGTTGCCACCAACT
1 -TGTGGGCTTTGAAA-GGG-TGCCACTGACT
* * * *
1398173 TGTGTGGGTTTGAAATGAGTTGTCACCGACTT
1 TGTG-GGCTTTGAAA-G-GGTGCCACTGAC-T
* *
1398205 GTGTGGGCTTTGAAATGAGTTGCCACCGACTT
1 -TGTGGGCTTTGAAA-G-GGTGCCACTGAC-T
* *
1398237 GTGTGGGCTTTGAAATGATGCCACTGACTT
1 -TGTGGGCTTTGAAAGGGTGCCACTGAC-T
* * * *
1398267 GTGTGGGCTTTCAAATGAGTTGTCACCGACTT
1 -TGTGGGCTTTGAAA-G-GGTGCCACTGAC-T
* *
1398299 ATGTGGGCTTTGAAATGATGCCACTGACT
1 -TGTGGGCTTTGAAAGGGTGCCACTGACT
1398328 TG
1 TG
1398330 GAGTGCCACT
Statistics
Matches: 617, Mismatches: 75, Indels: 38
0.85 0.10 0.05
Matches are distributed among these distances:
28 247 0.40
29 95 0.15
30 93 0.15
31 23 0.04
32 152 0.25
33 7 0.01
ACGTcount: A:0.22, C:0.18, G:0.30, T:0.30
Consensus pattern (28 bp):
TGTGGGCTTTGAAAGGGTGCCACTGACT
Found at i:1397786 original size:114 final size:113
Alignment explanation
Indices: 1397589--1398329 Score: 696
Period size: 114 Copynumber: 6.3 Consensus size: 113
1397579 CATTAACTTG
* * * *
1397589 TGTGGGCTTTGAAAAGAGTCGCCACCGATTCTTGTGGGCTTTGAAAAGAGTTACCACTAGA-TTG
1 TGTGGGCTTTGAAAGGA-T-GCCACTGA--CTTGTGGGCTTTGAAAAAAG-TGCCACT-GACTTG
* * *
1397653 TAGGCTTTGAAAAGAGTGCCACTAACTTGTGGGCTTTGAAAGGGTACCACTAACT
60 TGGGCTTTGAAAAG-GTGCCACTAACTTGTGGGCTTTGAAAGGGTGCCACTGACT
*
1397708 TGTGGGCTTTGAAAGGATACCACTGACTTGTGGGCTTTGAAAAAAGTGCCACTGACTTGTGGGCT
1 TGTGGGCTTTGAAAGGATGCCACTGACTTGTGGGCTTTGAAAAAAGTGCCACTGACTTGTGGGCT
1397773 TTGAAAAGTGTGCCACTAACTTGTGGGCTTTGAAAGGGTGCCACTGACT
66 TTGAAAAG-GTGCCACTAACTTGTGGGCTTTGAAAGGGTGCCACTGACT
*
1397822 TGTGGGCTTTGAAAGGATGCCATTGACTTGTGGGCTTT-AAAAAGAGTGCCACTGACTTGTGGGC
1 TGTGGGCTTTGAAAGGATGCCACTGACTTGTGGGCTTTGAAAAA-AGTGCCACTGACTTGTGGGC
* *
1397886 TTTGAAAGGGTGCCACTGACTTGTGGGCTTTGAAAGGAGTTGCCACTGACT
65 TTTGAAAAGGTGCCACTAACTTGTGGGCTTTGAAAGG-G-TGCCACTGACT
* * * **
1397937 CGTGGGCTTTGAAAGGGTGCCATTGACTTGTGGGCTTTGAAAGGA-TGCCACTGACTTGTGGGCT
1 TGTGGGCTTTGAAAGGATGCCACTGACTTGTGGGCTTTGAAAAAAGTGCCACTGACTTGTGGGCT
* * *
1398001 TTGAAAAGATGCCACTAACTTGTGGGCTTTGAAAGGATGCCGCTGACT
66 TTGAAAAGGTGCCACTAACTTGTGGGCTTTGAAAGGGTGCCACTGACT
* * * *** * **
1398049 TGTGGGCATTGAAGGGGTGCCACTGACTTGTGTGGGCTTTGAAATGGGTTACCACCAACTTGTGT
1 TGTGGGCTTTGAAAGGATGCCACTGAC-T-TGTGGGCTTTGAAAAAAG-TGCCACTGAC-T-TGT
** * * **
1398114 GGGCCATGAAATGGGTTGCCACCAACTTGTGTGGGCTTTGAAATGGGTTGCCACCAACT
61 GGGCTTTGAAA-AGG-TGCCACTAAC-T-TGTGGGCTTTGAAA-GGG-TGCCACTGACT
* * * * ** *
1398173 TGTGTGGGTTTGAAATGAGTTGTCACCGACTTGTGTGGGCTTTGAAATGAGTTGCCACCGACTTG
1 TGTG-GGCTTTGAAA-G-GATGCCACTGAC-T-TGTGGGCTTTGAAAAAAG-TGCCACTGAC-T-
* * * * * * *
1398238 TGTGGGCTTTGAAATGATGCCACTGACTTGTGTGGGCTTTCAAATGAGTTGTCACCGACTT
58 TGTGGGCTTTGAAAAGGTGCCACTAAC-T-TGTGGGCTTTGAAA-G-GGTGCCACTGAC-T
*
1398299 ATGTGGGCTTTGAAATGATGCCACTGACTTG
1 -TGTGGGCTTTGAAAGGATGCCACTGACTTG
1398330 GAGTGCCACT
Statistics
Matches: 535, Mismatches: 64, Indels: 43
0.83 0.10 0.07
Matches are distributed among these distances:
112 33 0.06
113 35 0.07
114 192 0.36
115 67 0.13
116 10 0.02
117 7 0.01
118 13 0.02
119 17 0.03
120 9 0.02
121 1 0.00
122 16 0.03
123 3 0.01
124 21 0.04
125 41 0.08
126 13 0.02
127 57 0.11
ACGTcount: A:0.22, C:0.18, G:0.30, T:0.30
Consensus pattern (113 bp):
TGTGGGCTTTGAAAGGATGCCACTGACTTGTGGGCTTTGAAAAAAGTGCCACTGACTTGTGGGCT
TTGAAAAGGTGCCACTAACTTGTGGGCTTTGAAAGGGTGCCACTGACT
Found at i:1397882 original size:171 final size:172
Alignment explanation
Indices: 1397589--1398313 Score: 713
Period size: 171 Copynumber: 4.1 Consensus size: 172
1397579 CATTAACTTG
* * * * *
1397589 TGTGGGCTTTGAAAAGAGTCGCCACCGATTCTTGTGGGCTTTGAAAAGAGTTACCACTAGA-TTG
1 TGTGGGCTTTGAAAAGGGT-GCCA-CTA-ACTTGTGGGCTTTG-AAAG-GGTGCCACT-GACTTG
* * * *
1397653 TAGGCTTTGAAAAGAGTGCCACTAACTTGTGGGCTTTG-AAAGGGTACCACTAACTTGTGGGCTT
60 TGGGCTTTGAAAAGA-TGCCACTAACTTGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTT
* *
1397717 TGAAAGGATACCACTGACTTGTGGGCTTTGAAAAAAG-TGCCACTGACT
124 TGAAAGGATGCCACTGACTTGTGGGCTTTGAAAAGAGTTGCCACTGACT
*
1397765 TGTGGGCTTTGAAAAGTGTGCCACTAACTTGTGGGCTTTGAAAGGGTGCCACTGACTTGTGGGCT
1 TGTGGGCTTTGAAAAGGGTGCCACTAACTTGTGGGCTTTGAAAGGGTGCCACTGACTTGTGGGCT
* * * *
1397830 TTGAAAGGATGCCATTGACTTGTGGGCTTTAAAAAGAGTGCCACTGACTTGTGGGCTTTGAAAGG
66 TTGAAAAGATGCCACTAACTTGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTTGAAAGG
* *
1397895 GTGCCACTGACTTGTGGGCTTTGAAAGGAGTTGCCACTGACT
131 ATGCCACTGACTTGTGGGCTTTGAAAAGAGTTGCCACTGACT
* * * *
1397937 CGTGGGCTTTG-AAAGGGTGCCATTGACTTGTGGGCTTTGAAAGGATGCCACTGACTTGTGGGCT
1 TGTGGGCTTTGAAAAGGGTGCCACTAACTTGTGGGCTTTGAAAGGGTGCCACTGACTTGTGGGCT
* * * *
1398001 TTGAAAAGATGCCACTAACTTGTGGGCTTTGAAAGGA-TGCCGCTGACTTGTGGGCATTGAAGGG
66 TTGAAAAGATGCCACTAACTTGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTTGAAAGG
* * * * **
1398065 GTGCCACTGACTTGTGTGGGCTTTGAAATGGGTTACCACCAACTT
131 ATGCCACTGAC-T-TGTGGGCTTTGAAAAGAGTTGCCACTGAC-T
** * * **
1398110 GTGTGGGCCATGAAATGGGTTGCCACCAACTTGTGTGGGCTTTGAAATGGGTTGCCACCAACTTG
1 -TGTGGGCTTTGAAAAGGG-TGCCACTAAC-T-TGTGGGCTTTGAAA-GGG-TGCCACTGACTTG
* * * ** * *
1398175 TGTGGGTTTGAAATGAGTTGTCACCGACTTGTGTGGGCTTTGAAATGAGTTGCCACCGACTTGTG
60 TG-GGCTTTGAAA--AGATGCCACTAAC-T-TGTGGGCTTTGAAAAGAG-TGCCACTGAC-T-TG
* * * * *
1398240 TGGGCTTTGAAATGATGCCACTGACTTGTGTGGGCTTTCAAATGAGTTGTCACCGACTT
117 TGGGCTTTGAAAGGATGCCACTGAC-T-TGTGGGCTTTGAAAAGAGTTGCCACTGAC-T
1398299 ATGTGGGCTTTGAAA
1 -TGTGGGCTTTGAAA
1398314 TGATGCCACT
Statistics
Matches: 462, Mismatches: 65, Indels: 31
0.83 0.12 0.06
Matches are distributed among these distances:
170 56 0.12
171 161 0.35
172 49 0.11
173 14 0.03
174 10 0.02
175 9 0.02
176 25 0.05
177 1 0.00
178 14 0.03
179 2 0.00
180 13 0.03
181 9 0.02
183 9 0.02
184 1 0.00
185 16 0.03
187 8 0.02
188 1 0.00
189 64 0.14
ACGTcount: A:0.22, C:0.17, G:0.31, T:0.30
Consensus pattern (172 bp):
TGTGGGCTTTGAAAAGGGTGCCACTAACTTGTGGGCTTTGAAAGGGTGCCACTGACTTGTGGGCT
TTGAAAAGATGCCACTAACTTGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTTGAAAGG
ATGCCACTGACTTGTGGGCTTTGAAAAGAGTTGCCACTGACT
Found at i:1398208 original size:95 final size:96
Alignment explanation
Indices: 1397584--1398316 Score: 470
Period size: 85 Copynumber: 8.2 Consensus size: 96
1397574 AGTACCATTA
* * * * * * * *
1397584 ACTTGTGTGGGCTTTGAAAAGAGTCGCCACCGA-TTCTTGTGGGCTTTGAAAAGAGTTACCACTA
1 ACTTGTGTGGGCTTTGAAATGAGTTGCCACCAACTT-GTGTGGGCTTTGAAATGGGATGCCACT-
* * * **
1397648 GA--T-TGTAGGCTTTGAAAAGAG-TGCCACTA
64 GACTTGTGTGGGCTTTGAAATGAGTTGTCACCG
* * * *
1397677 AC-T-TGTGGGCTTTGAAA-G-GGTACCACTAAC-T-TGTGGGCTTTGAAA--GGATACCACTGA
1 ACTTGTGTGGGCTTTGAAATGAGTTGCCACCAACTTGTGTGGGCTTTGAAATGGGATGCCACTGA
** * *
1397734 C-T-TGTGGGCTTTGAAAAAAG-TGCCACTG
66 CTTGTGTGGGCTTTGAAATGAGTTGTCACCG
*
1397762 AC-T-TGTGGGCTTTGAAA--AGTGTGCCACTAAC-T-TGTGGGCTTTGAAA-GGG-TGCCACTG
1 ACTTGTGTGGGCTTTGAAATGAGT-TGCCACCAACTTGTGTGGGCTTTGAAATGGGATGCCACTG
* * **
1397819 AC-T-TGTGGGCTTTGAAA-G-GATGCCATTG
65 ACTTGTGTGGGCTTTGAAATGAGTTGTCACCG
* * **
1397847 AC-T-TGTGGGCTTTAAAAAGAG-TGCCACTGAC-T-TGTGGGCTTTGAAA-GGG-TGCCACTGA
1 ACTTGTGTGGGCTTTGAAATGAGTTGCCACCAACTTGTGTGGGCTTTGAAATGGGATGCCACTGA
* * *
1397905 C-T-TGTGGGCTTTGAAAGGAGTTGCCACTG
66 CTTGTGTGGGCTTTGAAATGAGTTGTCACCG
* * ***
1397934 AC-T-CGTGGGCTTTGAAA-G-GGTGCCATTGAC-T-TGTGGGCTTTGAAA--GGATGCCACTGA
1 ACTTGTGTGGGCTTTGAAATGAGTTGCCACCAACTTGTGTGGGCTTTGAAATGGGATGCCACTGA
* * **
1397991 C-T-TGTGGGCTTTGAAA--AGATGCCACTA
66 CTTGTGTGGGCTTTGAAATGAGTTGTCACCG
* * ** * *
1398018 AC-T-TGTGGGCTTTGAAA-G-GATGCCGCTGAC-T-TGTGGGCATTG-AA-GGGGTGCCACTGA
1 ACTTGTGTGGGCTTTGAAATGAGTTGCCACCAACTTGTGTGGGCTTTGAAATGGGATGCCACTGA
* ** *
1398075 CTTGTGTGGGCTTTGAAATGGGTTACCACCA
66 CTTGTGTGGGCTTTGAAATGAGTTGTCACCG
** * * **
1398106 ACTTGTGTGGGCCATGAAATGGGTTGCCACCAACTTGTGTGGGCTTTGAAATGGGTTGCCACCAA
1 ACTTGTGTGGGCTTTGAAATGAGTTGCCACCAACTTGTGTGGGCTTTGAAATGGGATGCCACTGA
1398171 CTTGTGTGGG-TTTGAAATGAGTTGTCACCG
66 CTTGTGTGGGCTTTGAAATGAGTTGTCACCG
*
1398201 ACTTGTGTGGGCTTTGAAATGAGTTGCCACCGACTTGTGTGGGCTTTGAAAT--GATGCCACTGA
1 ACTTGTGTGGGCTTTGAAATGAGTTGCCACCAACTTGTGTGGGCTTTGAAATGGGATGCCACTGA
*
1398264 CTTGTGTGGGCTTTCAAATGAGTTGTCACCG
66 CTTGTGTGGGCTTTGAAATGAGTTGTCACCG
*
1398295 ACTTATGTGGGCTTTGAAATGA
1 ACTTGTGTGGGCTTTGAAATGA
1398317 TGCCACTGAC
Statistics
Matches: 557, Mismatches: 57, Indels: 51
0.84 0.09 0.08
Matches are distributed among these distances:
83 2 0.00
84 61 0.11
85 129 0.23
86 113 0.20
87 41 0.07
88 9 0.02
89 8 0.01
90 13 0.02
91 15 0.03
92 9 0.02
93 21 0.04
94 50 0.09
95 66 0.12
96 20 0.04
ACGTcount: A:0.22, C:0.17, G:0.31, T:0.30
Consensus pattern (96 bp):
ACTTGTGTGGGCTTTGAAATGAGTTGCCACCAACTTGTGTGGGCTTTGAAATGGGATGCCACTGA
CTTGTGTGGGCTTTGAAATGAGTTGTCACCG
Found at i:1424583 original size:31 final size:31
Alignment explanation
Indices: 1424504--1424604 Score: 136
Period size: 31 Copynumber: 3.3 Consensus size: 31
1424494 TTCAAATACC
*
1424504 TTCTT-AAAGTCCACAACTCAGTGGCAT-TT
1 TTCTTCAAAGTCCACGACTCAGTGGCATCTT
* * *
1424533 TGTC-CCAAAGCCCATGACTCAGTGGCATCTT
1 T-TCTTCAAAGTCCACGACTCAGTGGCATCTT
1424564 TTCTTCAAAGTCCACGACTCAGTGGCATCTT
1 TTCTTCAAAGTCCACGACTCAGTGGCATCTT
1424595 TTCTTCAAAG
1 TTCTTCAAAG
1424605 CCCAAGAAAA
Statistics
Matches: 61, Mismatches: 7, Indels: 6
0.82 0.09 0.08
Matches are distributed among these distances:
29 1 0.02
30 23 0.38
31 37 0.61
ACGTcount: A:0.25, C:0.28, G:0.16, T:0.32
Consensus pattern (31 bp):
TTCTTCAAAGTCCACGACTCAGTGGCATCTT
Found at i:1426753 original size:103 final size:103
Alignment explanation
Indices: 1426629--1426855 Score: 330
Period size: 103 Copynumber: 2.2 Consensus size: 103
1426619 TCAAAATTTT
* *
1426629 ATTCACGGGGATACTCCAACCTCGACCTTTCGAGGGAATACTCCAATCAT-GCTCTTCGAAATTT
1 ATTCACGGGGATACTCCAACCTCGACATTTCGAGGGAATACTCCAA-CATCGCTCTTCAAAATTT
*
1426693 GTTAAGATTTAAATTCTTCATTTTTCAAAATTATTTGTC
65 GTTAAGATTTAAATTCTTCATTTGTCAAAATTATTTGTC
* * * ** *
1426732 ATTCAAGGGGATATTCCAACCTCGACATTTCGAGGGGATACTTTAACTTCGCTCTTCAAAATTTG
1 ATTCACGGGGATACTCCAACCTCGACATTTCGAGGGAATACTCCAACATCGCTCTTCAAAATTTG
* * *
1426797 TTAAGATTTGAATTCTTCCTTTGTCAAAATTATTTTTC
66 TTAAGATTTAAATTCTTCATTTGTCAAAATTATTTGTC
1426835 ATTCACGGGGATACTCCAACC
1 ATTCACGGGGATACTCCAACC
1426856 CCATCTTTCC
Statistics
Matches: 109, Mismatches: 14, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
102 2 0.02
103 107 0.98
ACGTcount: A:0.28, C:0.21, G:0.15, T:0.37
Consensus pattern (103 bp):
ATTCACGGGGATACTCCAACCTCGACATTTCGAGGGAATACTCCAACATCGCTCTTCAAAATTTG
TTAAGATTTAAATTCTTCATTTGTCAAAATTATTTGTC
Found at i:1426893 original size:103 final size:101
Alignment explanation
Indices: 1426625--1426882 Score: 304
Period size: 103 Copynumber: 2.5 Consensus size: 101
1426615 AAAATCAAAA
* * *
1426625 TTTT-ATTCACGGGGATACTCCAACCTCGACCTTTCGAGGGAATACTCCAATCATGCTCTTCGAA
1 TTTTCATTCACGGGGATACTCCAACCTCGA-CTTTCGAGGGAATACTCCAA-CCTCCTCTTCAAA
*
1426689 ATTTGTTAAGATTTAAATTCTTCATTTTTCAAAATTAT
64 ATTTGTTAAGATTTAAATTCTTCATTTGTCAAAATTAT
* * * * ** *
1426727 TTGTCATTCAAGGGGATATTCCAACCTCGACATTTCGAGGGGATACTTTAACTTCGCTCTTCAAA
1 TTTTCATTCACGGGGATACTCCAACCTCGAC-TTTCGAGGGAATACTCCAACCTC-CTCTTCAAA
* *
1426792 ATTTGTTAAGATTTGAATTCTTCCTTTGTCAAAATTAT
64 ATTTGTTAAGATTTAAATTCTTCATTTGTCAAAATTAT
* * *
1426830 TTTTCATTCACGGGGATACTCCAACC-CCATCTTTCCGAAGAAATACTCCAACC
1 TTTTCATTCACGGGGATACTCCAACCTCGA-CTTT-CGAGGGAATACTCCAACC
1426883 CTACCTTTCA
Statistics
Matches: 129, Mismatches: 22, Indels: 9
0.81 0.14 0.06
Matches are distributed among these distances:
102 11 0.09
103 118 0.91
ACGTcount: A:0.28, C:0.22, G:0.14, T:0.36
Consensus pattern (101 bp):
TTTTCATTCACGGGGATACTCCAACCTCGACTTTCGAGGGAATACTCCAACCTCCTCTTCAAAAT
TTGTTAAGATTTAAATTCTTCATTTGTCAAAATTAT
Found at i:1430168 original size:14 final size:14
Alignment explanation
Indices: 1430128--1430172 Score: 60
Period size: 13 Copynumber: 3.4 Consensus size: 14
1430118 TTAAAAATAA
1430128 AAAATTAT--TTTT
1 AAAATTATAATTTT
1430140 AATAATTATAA-TTT
1 AA-AATTATAATTTT
1430154 AAAATTATAATTTT
1 AAAATTATAATTTT
1430168 AAAAT
1 AAAAT
1430173 ATTTTAAAGA
Statistics
Matches: 29, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
12 2 0.07
13 14 0.48
14 13 0.45
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (14 bp):
AAAATTATAATTTT
Found at i:1430236 original size:32 final size:34
Alignment explanation
Indices: 1430186--1430248 Score: 112
Period size: 33 Copynumber: 1.9 Consensus size: 34
1430176 TTAAAGATAT
1430186 TATTTATTATTAATATTATT-AAATTAAAATTAA
1 TATTTATTATTAATATTATTAAAATTAAAATTAA
1430219 TATTTATT-TTAATATTATTAAAATTAAAAT
1 TATTTATTATTAATATTATTAAAATTAAAAT
1430249 AAAAATAATT
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
32 11 0.38
33 18 0.62
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (34 bp):
TATTTATTATTAATATTATTAAAATTAAAATTAA
Found at i:1430260 original size:32 final size:32
Alignment explanation
Indices: 1430195--1430260 Score: 89
Period size: 32 Copynumber: 2.1 Consensus size: 32
1430185 TTATTTATTA
* * *
1430195 TTAATATTATTAAATTAAAATTAATATTTATT
1 TTAATATTATTAAATTAAAATTAAAAATAATT
1430227 TTAATATTATTAAAATTAAAA-TAAAAATAATT
1 TTAATATTATT-AAATTAAAATTAAAAATAATT
1430259 TT
1 TT
1430261 TTATTTTTTT
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
32 21 0.70
33 9 0.30
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (32 bp):
TTAATATTATTAAATTAAAATTAAAAATAATT
Found at i:1435425 original size:13 final size:13
Alignment explanation
Indices: 1435407--1435432 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1435397 TACAGCAAGT
1435407 ATGTATCGATACA
1 ATGTATCGATACA
1435420 ATGTATCGATACA
1 ATGTATCGATACA
1435433 CAAAAAATTG
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:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:1440375 original size:2 final size:2
Alignment explanation
Indices: 1440370--1440405 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
1440360 ACCACACATA
1440370 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1440406 TTAAGTAGAA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1441215 original size:26 final size:24
Alignment explanation
Indices: 1441168--1441215 Score: 60
Period size: 26 Copynumber: 1.9 Consensus size: 24
1441158 ATCTATTTTT
*
1441168 ATTTATATAATATATTAGTTTTGC
1 ATTTATATAATATATAAGTTTTGC
*
1441192 ATTTATATATATTATATAATTTTT
1 ATTTATATA-A-TATATAAGTTTT
1441216 TTATATAAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
24 9 0.45
25 1 0.05
26 10 0.50
ACGTcount: A:0.35, C:0.02, G:0.04, T:0.58
Consensus pattern (24 bp):
ATTTATATAATATATAAGTTTTGC
Found at i:1441258 original size:20 final size:21
Alignment explanation
Indices: 1441218--1441277 Score: 70
Period size: 22 Copynumber: 2.9 Consensus size: 21
1441208 TAATTTTTTT
*
1441218 ATAT-AAAAAATAAATATAT-
1 ATATCAAAGAATAAATATATA
1441237 ATCATACAAAGAATAAATATATA
1 AT-AT-CAAAGAATAAATATATA
*
1441260 ATATCAAAGAGTAAATAT
1 ATATCAAAGAATAAATAT
1441278 TAAAAATATG
Statistics
Matches: 35, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
19 2 0.06
20 2 0.06
21 13 0.37
22 16 0.46
23 2 0.06
ACGTcount: A:0.62, C:0.05, G:0.05, T:0.28
Consensus pattern (21 bp):
ATATCAAAGAATAAATATATA
Found at i:1442064 original size:39 final size:42
Alignment explanation
Indices: 1442021--1442104 Score: 102
Period size: 44 Copynumber: 2.0 Consensus size: 42
1442011 TAAATATTTC
1442021 ATATAAG-TTATT-TC-TTTAATTTCTAATAATTATCTTATG
1 ATATAAGCTTATTATCTTTTAATTTCTAATAATTATCTTATG
* * *
1442060 ATATAAGCTTTTTATCTATTTTAATTTTTGATAATTATCTTATG
1 ATATAAGCTTATTATC--TTTTAATTTCTAATAATTATCTTATG
1442104 A
1 A
1442105 CGGCACAAAG
Statistics
Matches: 37, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
39 7 0.19
40 4 0.11
41 2 0.05
44 24 0.65
ACGTcount: A:0.32, C:0.07, G:0.06, T:0.55
Consensus pattern (42 bp):
ATATAAGCTTATTATCTTTTAATTTCTAATAATTATCTTATG
Found at i:1449289 original size:20 final size:20
Alignment explanation
Indices: 1449264--1449301 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
1449254 GTAAAAAAAC
1449264 AGAATGTATCGATACATTGA
1 AGAATGTATCGATACATTGA
1449284 AGAATGTATCGATACATT
1 AGAATGTATCGATACATT
1449302 CATACATGTA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.39, C:0.11, G:0.18, T:0.32
Consensus pattern (20 bp):
AGAATGTATCGATACATTGA
Found at i:1450318 original size:28 final size:28
Alignment explanation
Indices: 1450204--1450944 Score: 638
Period size: 28 Copynumber: 25.1 Consensus size: 28
1450194 CATTAACTTG
* *
1450204 TGTGGGCTTTGAAAAGAGTCGCCACCGATTCT
1 TGTGGGCTTTG-AAAGGGT-GCCACTGA--CT
* *
1450236 TGTGGGCTTTGAAAAGAGTTACCACTAGA-T
1 TGTGGGCTTTG-AAAG-GGTGCCACT-GACT
* * *
1450266 TGTAGGCTTTGAAAAGAGTGCCACTAACT
1 TGTGGGCTTTG-AAAGGGTGCCACTGACT
* *
1450295 TGTGGGCTTTGAAAGGGTACCACTAACT
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
* * *
1450323 TGTGGGTTTTGAAAGGATACCACTGACT
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
*
1450351 TGTGGGCTTTGAAAAGAGTGCCACTGACT
1 TGTGGGCTTTG-AAAGGGTGCCACTGACT
*
1450380 TGTGGGCTTTGAAAAGTGTGCCACTGACT
1 TGTGGGCTTTG-AAAGGGTGCCACTGACT
1450409 TGTGGGCTTTGAAAGGGTGCCACTGACT
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
* *
1450437 TGTGGGCTTTGAAAGGATGCCATTGACT
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
* *
1450465 TGTGGGCTTTAAAAAGAGTGCCACTGACT
1 TGTGGGCTTT-GAAAGGGTGCCACTGACT
1450494 TGTGGGCTTTGAAAGGGTGCCACTGACT
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
1450522 TGTGGGCTTTGAAAGGAGTTGCCACTGACT
1 TGTGGGCTTTGAAAGG-G-TGCCACTGACT
* *
1450552 CGTGGGCTTTGAAAGGGTGCCATTGACT
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
* *
1450580 TGTGGGCTTTGAAAGGATGCCATTGACT
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
* * *
1450608 TGTGGGCTTTGAAAAGATGCCACTAACT
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
* * *
1450636 TGTGGGCTTTGAAAGGATGCCGCTAACT
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
* *
1450664 TGTGGGCATTGAAGGGGTGCCACTGACTT
1 TGTGGGCTTTGAAAGGGTGCCACTGAC-T
* **
1450693 GTGTGGGCTTTGAAATGGGTTACCACCAACTT
1 -TGTGGGCTTTGAAA-GGG-TGCCACTGAC-T
** **
1450725 GTGTGGGCCATGAAATGGGTTGCCACCAACTT
1 -TGTGGGCTTTGAAA-GGG-TGCCACTGAC-T
**
1450757 GTGTGGGCTTTGAAATGGGTTGCCACCAACT
1 -TGTGGGCTTTGAAA-GGG-TGCCACTGACT
* * * *
1450788 TGTGTGGGTTTGAAATGAGTTGTCACCGACTT
1 TGTG-GGCTTTGAAA-G-GGTGCCACTGAC-T
* *
1450820 GTGTGGGCTTTGAAATGAGTTGCCACCGACTT
1 -TGTGGGCTTTGAAA-G-GGTGCCACTGAC-T
* *
1450852 GTGTGGGCTTTGAAATGATGCCACTGACTT
1 -TGTGGGCTTTGAAAGGGTGCCACTGAC-T
* * * *
1450882 GTGTGGGCTTTCAAATGAGTTGTCACCGACT
1 -TGTGGGCTTTGAAA-G-GGTGCCACTGACT
* *
1450913 AATGTGGGCTTTGAAATGATGCCACTGACT
1 --TGTGGGCTTTGAAAGGGTGCCACTGACT
1450943 TG
1 TG
1450945 GAGTGCCACT
Statistics
Matches: 618, Mismatches: 73, Indels: 40
0.85 0.10 0.05
Matches are distributed among these distances:
28 246 0.40
29 97 0.16
30 94 0.15
31 24 0.04
32 150 0.24
33 7 0.01
ACGTcount: A:0.22, C:0.17, G:0.31, T:0.30
Consensus pattern (28 bp):
TGTGGGCTTTGAAAGGGTGCCACTGACT
Found at i:1450401 original size:114 final size:115
Alignment explanation
Indices: 1450204--1450944 Score: 706
Period size: 114 Copynumber: 6.3 Consensus size: 115
1450194 CATTAACTTG
* * *
1450204 TGTGGGCTTTGAAAAGAGTCGCCACCGATTCTTGTGGGCTTTGAAAAGAGTTACCACTAGA-TTG
1 TGTGGGCTTTGAAAGGA-T-GCCACTGA--CTTGTGGGCTTTGAAAAGAGTTGCCACT-GACTTG
* * *
1450268 TAGGCTTTGAAAAGAGTGCCACTAACTTGTGGGCTTTGAAAGGGTACCACTAACT
61 TGGGCTTTGAAAAGGGTGCCACTAACTTGTGGGCTTTGAAAGGGTGCCACTAACT
* *
1450323 TGTGGGTTTTGAAAGGATACCACTGACTTGTGGGCTTTGAAAAGAG-TGCCACTGACTTGTGGGC
1 TGTGGGCTTTGAAAGGATGCCACTGACTTGTGGGCTTTGAAAAGAGTTGCCACTGACTTGTGGGC
* * *
1450387 TTTGAAAAGTGTGCCACTGACTTGTGGGCTTTGAAAGGGTGCCACTGACT
66 TTTGAAAAGGGTGCCACTAACTTGTGGGCTTTGAAAGGGTGCCACTAACT
* *
1450437 TGTGGGCTTTGAAAGGATGCCATTGACTTGTGGGCTTTAAAAAGAG-TGCCACTGACTTGTGGGC
1 TGTGGGCTTTGAAAGGATGCCACTGACTTGTGGGCTTTGAAAAGAGTTGCCACTGACTTGTGGGC
* *
1450501 TTTG-AAAGGGTGCCACTGACTTGTGGGCTTTGAAAGGAGTTGCCACTGACT
66 TTTGAAAAGGGTGCCACTAACTTGTGGGCTTTGAAAGG-G-TGCCACTAACT
* * * * *
1450552 CGTGGGCTTTGAAAGGGTGCCATTGACTTGTGGGCTTTG-AAAG-GATGCCATTGACTTGTGGGC
1 TGTGGGCTTTGAAAGGATGCCACTGACTTGTGGGCTTTGAAAAGAGTTGCCACTGACTTGTGGGC
* * *
1450615 TTTGAAAA-GATGCCACTAACTTGTGGGCTTTGAAAGGATGCCGCTAACT
66 TTTGAAAAGGGTGCCACTAACTTGTGGGCTTTGAAAGGGTGCCACTAACT
* * * * * * **
1450664 TGTGGGCATTGAAGGGGTGCCACTGACTTGTGTGGGCTTTGAAATGGGTTACCACCAACTTGTGT
1 TGTGGGCTTTGAAAGGATGCCACTGAC-T-TGTGGGCTTTGAAAAGAGTTGCCACTGAC-T-TGT
** * * *
1450729 GGGCCATGAAATGGGTTGCCACCAACTTGTGTGGGCTTTGAAATGGGTTGCCACCAACT
62 GGGCTTTGAAAAGGG-TGCCACTAAC-T-TGTGGGCTTTGAAA-GGG-TGCCACTAACT
* * * * * *
1450788 TGTGTGGGTTTGAAATGAGTTGTCACCGACTTGTGTGGGCTTTGAAATGAGTTGCCACCGACTTG
1 TGTG-GGCTTTGAAA-G-GATGCCACTGAC-T-TGTGGGCTTTGAAAAGAGTTGCCACTGAC-T-
* * * * * * **
1450853 TGTGGGCTTTG-AAATGATGCCACTGACTTGTGTGGGCTTTCAAATGAGTTGTCACCGACT
59 TGTGGGCTTTGAAAAGGGTGCCACTAAC-T-TGTGGGCTTTGAAA-G-GGTGCCACTAACT
*
1450913 AATGTGGGCTTTGAAATGATGCCACTGACTTG
1 --TGTGGGCTTTGAAAGGATGCCACTGACTTG
1450945 GAGTGCCACT
Statistics
Matches: 532, Mismatches: 67, Indels: 43
0.83 0.10 0.07
Matches are distributed among these distances:
112 32 0.06
113 36 0.07
114 187 0.35
115 73 0.14
116 7 0.01
117 7 0.01
118 13 0.02
119 16 0.03
120 9 0.02
121 1 0.00
122 16 0.03
123 3 0.01
124 22 0.04
125 42 0.08
126 14 0.03
127 54 0.10
ACGTcount: A:0.22, C:0.17, G:0.31, T:0.30
Consensus pattern (115 bp):
TGTGGGCTTTGAAAGGATGCCACTGACTTGTGGGCTTTGAAAAGAGTTGCCACTGACTTGTGGGC
TTTGAAAAGGGTGCCACTAACTTGTGGGCTTTGAAAGGGTGCCACTAACT
Found at i:1450823 original size:95 final size:96
Alignment explanation
Indices: 1450199--1450931 Score: 452
Period size: 85 Copynumber: 8.2 Consensus size: 96
1450189 AGTACCATTA
* * * * * * * *
1450199 ACTTGTGTGGGCTTTGAAAAGAGTCGCCACCGA-TTCTTGTGGGCTTTGAAAAGAGTTACCACTA
1 ACTTGTGTGGGCTTTGAAATGAGTTGCCACCAACTT-GTGTGGGCTTTGAAATGGGATGCCACT-
* * * **
1450263 GA--T-TGTAGGCTTTGAAAAGAG-TGCCACTA
64 GACTTGTGTGGGCTTTGAAATGAGTTGTCACCG
* * * * *
1450292 AC-T-TGTGGGCTTTGAAA-G-GGTACCACTAAC-T-TGTGGGTTTTGAAA--GGATACCACTGA
1 ACTTGTGTGGGCTTTGAAATGAGTTGCCACCAACTTGTGTGGGCTTTGAAATGGGATGCCACTGA
* * *
1450349 C-T-TGTGGGCTTTGAAAAGAG-TGCCACTG
66 CTTGTGTGGGCTTTGAAATGAGTTGTCACCG
**
1450377 AC-T-TGTGGGCTTTGAAA--AGTGTGCCACTGAC-T-TGTGGGCTTTGAAA-GGG-TGCCACTG
1 ACTTGTGTGGGCTTTGAAATGAGT-TGCCACCAACTTGTGTGGGCTTTGAAATGGGATGCCACTG
* * **
1450434 AC-T-TGTGGGCTTTGAAA-G-GATGCCATTG
65 ACTTGTGTGGGCTTTGAAATGAGTTGTCACCG
* * **
1450462 AC-T-TGTGGGCTTTAAAAAGAG-TGCCACTGAC-T-TGTGGGCTTTGAAA-GGG-TGCCACTGA
1 ACTTGTGTGGGCTTTGAAATGAGTTGCCACCAACTTGTGTGGGCTTTGAAATGGGATGCCACTGA
* * *
1450520 C-T-TGTGGGCTTTGAAAGGAGTTGCCACTG
66 CTTGTGTGGGCTTTGAAATGAGTTGTCACCG
* * *** *
1450549 AC-T-CGTGGGCTTTGAAA-G-GGTGCCATTGAC-T-TGTGGGCTTTGAAA--GGATGCCATTGA
1 ACTTGTGTGGGCTTTGAAATGAGTTGCCACCAACTTGTGTGGGCTTTGAAATGGGATGCCACTGA
* * **
1450606 C-T-TGTGGGCTTTGAAA--AGATGCCACTA
66 CTTGTGTGGGCTTTGAAATGAGTTGTCACCG
* * * * *
1450633 AC-T-TGTGGGCTTTGAAA-G-GATGCCGCTAAC-T-TGTGGGCATTG-AA-GGGGTGCCACTGA
1 ACTTGTGTGGGCTTTGAAATGAGTTGCCACCAACTTGTGTGGGCTTTGAAATGGGATGCCACTGA
* ** *
1450690 CTTGTGTGGGCTTTGAAATGGGTTACCACCA
66 CTTGTGTGGGCTTTGAAATGAGTTGTCACCG
** * * **
1450721 ACTTGTGTGGGCCATGAAATGGGTTGCCACCAACTTGTGTGGGCTTTGAAATGGGTTGCCACCAA
1 ACTTGTGTGGGCTTTGAAATGAGTTGCCACCAACTTGTGTGGGCTTTGAAATGGGATGCCACTGA
1450786 CTTGTGTGGG-TTTGAAATGAGTTGTCACCG
66 CTTGTGTGGGCTTTGAAATGAGTTGTCACCG
*
1450816 ACTTGTGTGGGCTTTGAAATGAGTTGCCACCGACTTGTGTGGGCTTTGAAAT--GATGCCACTGA
1 ACTTGTGTGGGCTTTGAAATGAGTTGCCACCAACTTGTGTGGGCTTTGAAATGGGATGCCACTGA
*
1450879 CTTGTGTGGGCTTTCAAATGAGTTGTCACCG
66 CTTGTGTGGGCTTTGAAATGAGTTGTCACCG
**
1450910 ACTAATGTGGGCTTTGAAATGA
1 ACTTGTGTGGGCTTTGAAATGA
1450932 TGCCACTGAC
Statistics
Matches: 554, Mismatches: 60, Indels: 51
0.83 0.09 0.08
Matches are distributed among these distances:
83 2 0.00
84 59 0.11
85 132 0.24
86 110 0.20
87 40 0.07
88 9 0.02
89 8 0.01
90 13 0.02
91 15 0.03
92 10 0.02
93 21 0.04
94 49 0.09
95 66 0.12
96 20 0.04
ACGTcount: A:0.22, C:0.17, G:0.31, T:0.30
Consensus pattern (96 bp):
ACTTGTGTGGGCTTTGAAATGAGTTGCCACCAACTTGTGTGGGCTTTGAAATGGGATGCCACTGA
CTTGTGTGGGCTTTGAAATGAGTTGTCACCG
Found at i:1450834 original size:63 final size:64
Alignment explanation
Indices: 1450198--1450944 Score: 403
Period size: 57 Copynumber: 12.6 Consensus size: 64
1450188 AAGTACCATT
* * * * * *
1450198 AACTTGTGTGGGCTTTGAAAAGAGTCGCCACCGA-TTCTTGTGGGCTTTGAAAAGAGTTACCACT
1 AACTTGTGTGGGCTTTGAAATGAGTTGCCACCGACTT-GTGTGGGCTTTGAAATGAGTTGCCACC
* * ** * * *
1450262 AGA--T-TGTAGGCTTTGAAAAGAG-TGCCACTAAC-T-TGTGGGCTTTGAAA-G-GGTACCACT
1 A-ACTTGTGTGGGCTTTGAAATGAGTTGCCACCGACTTGTGTGGGCTTTGAAATGAGTTGCCACC
* * * * * *
1450319 AAC-T-TGTGGGTTTTGAAA-G-GATACCACTGAC-T-TGTGGGCTTTGAAAAGAG-TGCCACT
1 AACTTGTGTGGGCTTTGAAATGAGTTGCCACCGACTTGTGTGGGCTTTGAAATGAGTTGCCACC
* * * *
1450376 GAC-T-TGTGGGCTTTGAAA--AGTGTGCCACTGAC-T-TGTGGGCTTTGAAA-G-GGTGCCACT
1 AACTTGTGTGGGCTTTGAAATGAGT-TGCCACCGACTTGTGTGGGCTTTGAAATGAGTTGCCACC
* * ** * * *
1450433 GAC-T-TGTGGGCTTTGAAA-G-GATGCCATTGAC-T-TGTGGGCTTTAAAAAGAG-TGCCACT
1 AACTTGTGTGGGCTTTGAAATGAGTTGCCACCGACTTGTGTGGGCTTTGAAATGAGTTGCCACC
* * * * *
1450490 GAC-T-TGTGGGCTTTGAAA-G-GGTGCCACTGAC-T-TGTGGGCTTTGAAAGGAGTTGCCACT
1 AACTTGTGTGGGCTTTGAAATGAGTTGCCACCGACTTGTGTGGGCTTTGAAATGAGTTGCCACC
* * * ** * **
1450548 GAC-T-CGTGGGCTTTGAAA-G-GGTGCCATTGAC-T-TGTGGGCTTTGAAA-G-GATGCCATT
1 AACTTGTGTGGGCTTTGAAATGAGTTGCCACCGACTTGTGTGGGCTTTGAAATGAGTTGCCACC
* * ** * * *
1450604 GAC-T-TGTGGGCTTTGAAA--AGATGCCACTAAC-T-TGTGGGCTTTGAAA-G-GATGCCGCT
1 AACTTGTGTGGGCTTTGAAATGAGTTGCCACCGACTTGTGTGGGCTTTGAAATGAGTTGCCACC
* * * * * *
1450660 AAC-T-TGTGGGCATTG-AA-GGGGTGCCACTGACTTGTGTGGGCTTTGAAATGGGTTACCACC
1 AACTTGTGTGGGCTTTGAAATGAGTTGCCACCGACTTGTGTGGGCTTTGAAATGAGTTGCCACC
** * * *
1450720 AACTTGTGTGGGCCATGAAATGGGTTGCCACCAACTTGTGTGGGCTTTGAAATGGGTTGCCACC
1 AACTTGTGTGGGCTTTGAAATGAGTTGCCACCGACTTGTGTGGGCTTTGAAATGAGTTGCCACC
*
1450784 AACTTGTGTGGG-TTTGAAATGAGTTGTCACCGACTTGTGTGGGCTTTGAAATGAGTTGCCACC
1 AACTTGTGTGGGCTTTGAAATGAGTTGCCACCGACTTGTGTGGGCTTTGAAATGAGTTGCCACC
* * * *
1450847 GACTTGTGTGGGCTTTGAAATGA--TGCCACTGACTTGTGTGGGCTTTCAAATGAGTTGTCACC
1 AACTTGTGTGGGCTTTGAAATGAGTTGCCACCGACTTGTGTGGGCTTTGAAATGAGTTGCCACC
* ** *
1450909 GACTAATGTGGGCTTTGAAATGA--TGCCACTGACTTG
1 AACTTGTGTGGGCTTTGAAATGAGTTGCCACCGACTTG
1450945 GAGTGCCACT
Statistics
Matches: 600, Mismatches: 59, Indels: 50
0.85 0.08 0.07
Matches are distributed among these distances:
55 3 0.00
56 128 0.21
57 129 0.22
58 92 0.15
59 15 0.03
60 8 0.01
61 8 0.01
62 95 0.16
63 59 0.10
64 62 0.10
65 1 0.00
ACGTcount: A:0.22, C:0.17, G:0.31, T:0.30
Consensus pattern (64 bp):
AACTTGTGTGGGCTTTGAAATGAGTTGCCACCGACTTGTGTGGGCTTTGAAATGAGTTGCCACC
Found at i:1452251 original size:7 final size:8
Alignment explanation
Indices: 1452216--1452255 Score: 64
Period size: 8 Copynumber: 5.1 Consensus size: 8
1452206 TTTTTTCTTG
1452216 GTTTTTTT
1 GTTTTTTT
1452224 G-TTTTTT
1 GTTTTTTT
1452231 GTTTTTTT
1 GTTTTTTT
1452239 GTTTTTTT
1 GTTTTTTT
*
1452247 ATTTTTTT
1 GTTTTTTT
1452255 G
1 G
1452256 GGTATAAAAG
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
7 7 0.24
8 22 0.76
ACGTcount: A:0.03, C:0.00, G:0.12, T:0.85
Consensus pattern (8 bp):
GTTTTTTT
Found at i:1477207 original size:31 final size:31
Alignment explanation
Indices: 1477135--1477235 Score: 145
Period size: 31 Copynumber: 3.3 Consensus size: 31
1477125 TTCAAATACC
*
1477135 TTCTT-AAAGTCCACAACTCAGTGGCAT-TT
1 TTCTTCAAAGTCCACGACTCAGTGGCATCTT
* *
1477164 TGTC-CCAAAGTCCATGACTCAGTGGCATCTT
1 T-TCTTCAAAGTCCACGACTCAGTGGCATCTT
1477195 TTCTTCAAAGTCCACGACTCAGTGGCATCTT
1 TTCTTCAAAGTCCACGACTCAGTGGCATCTT
1477226 TTCTTCAAAG
1 TTCTTCAAAG
1477236 CCCAAGAAAA
Statistics
Matches: 63, Mismatches: 5, Indels: 6
0.85 0.07 0.08
Matches are distributed among these distances:
29 1 0.02
30 24 0.38
31 38 0.60
ACGTcount: A:0.25, C:0.27, G:0.16, T:0.33
Consensus pattern (31 bp):
TTCTTCAAAGTCCACGACTCAGTGGCATCTT
Found at i:1479393 original size:103 final size:102
Alignment explanation
Indices: 1479269--1479495 Score: 321
Period size: 103 Copynumber: 2.2 Consensus size: 102
1479259 TCAAAATTTT
* *
1479269 ATTCACGGGGATACTCCAACCTCGACCTTTCGAGGGAATACTCCAA-TCATGCTCTTCGAAATTT
1 ATTCACGGGGATACTCCAACCTCGACATTTCGAGGGAATACTCCAACTCA--CTCTTCAAAATTT
*
1479333 GTTAAGATTTAAATTCTTCATTTTTCAAAATTATTTGTC
64 GTTAAGATTTAAATTCTTCATTTGTCAAAATTATTTGTC
* * * **
1479372 ATTCATGGGGATATTCCAACCTCGACATTTCGAGGGGATACTTTAACTTCACTCTTCAAAATTTG
1 ATTCACGGGGATACTCCAACCTCGACATTTCGAGGGAATACTCCAAC-TCACTCTTCAAAATTTG
* * *
1479437 TTAAGATTTGAATTCTTCCTTTGTCAAAATTATTTTTC
65 TTAAGATTTAAATTCTTCATTTGTCAAAATTATTTGTC
1479475 ATTCACGGGGATACTCCAACC
1 ATTCACGGGGATACTCCAACC
1479496 CCATCTTTCC
Statistics
Matches: 109, Mismatches: 13, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
103 106 0.97
105 3 0.03
ACGTcount: A:0.28, C:0.21, G:0.14, T:0.37
Consensus pattern (102 bp):
ATTCACGGGGATACTCCAACCTCGACATTTCGAGGGAATACTCCAACTCACTCTTCAAAATTTGT
TAAGATTTAAATTCTTCATTTGTCAAAATTATTTGTC
Found at i:1479533 original size:103 final size:101
Alignment explanation
Indices: 1479265--1479522 Score: 304
Period size: 103 Copynumber: 2.5 Consensus size: 101
1479255 AAAATCAAAA
* * *
1479265 TTTT-ATTCACGGGGATACTCCAACCTCGACCTTTCGAGGGAATACTCCAATCATGCTCTTCGAA
1 TTTTCATTCACGGGGATACTCCAACCTCGA-CTTTCGAGGGAATACTCCAA-CCTCCTCTTCAAA
*
1479329 ATTTGTTAAGATTTAAATTCTTCATTTTTCAAAATTAT
64 ATTTGTTAAGATTTAAATTCTTCATTTGTCAAAATTAT
* * * * ** *
1479367 TTGTCATTCATGGGGATATTCCAACCTCGACATTTCGAGGGGATACTTTAACTTCACTCTTCAAA
1 TTTTCATTCACGGGGATACTCCAACCTCGAC-TTTCGAGGGAATACTCCAACCTC-CTCTTCAAA
* *
1479432 ATTTGTTAAGATTTGAATTCTTCCTTTGTCAAAATTAT
64 ATTTGTTAAGATTTAAATTCTTCATTTGTCAAAATTAT
* * *
1479470 TTTTCATTCACGGGGATACTCCAACC-CCATCTTTCCGAAGAAATACTCCAACC
1 TTTTCATTCACGGGGATACTCCAACCTCGA-CTTT-CGAGGGAATACTCCAACC
1479523 CTACCTTTCA
Statistics
Matches: 129, Mismatches: 22, Indels: 9
0.81 0.14 0.06
Matches are distributed among these distances:
102 11 0.09
103 118 0.91
ACGTcount: A:0.28, C:0.22, G:0.13, T:0.36
Consensus pattern (101 bp):
TTTTCATTCACGGGGATACTCCAACCTCGACTTTCGAGGGAATACTCCAACCTCCTCTTCAAAAT
TTGTTAAGATTTAAATTCTTCATTTGTCAAAATTAT
Found at i:1482756 original size:14 final size:14
Alignment explanation
Indices: 1482720--1482749 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
1482710 TTAAAAATAA
*
1482720 TTAATAATAATTTT
1 TTAAAAATAATTTT
1482734 TTAAAAATAATTTT
1 TTAAAAATAATTTT
1482748 TT
1 TT
1482750 TTAAATATTA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (14 bp):
TTAAAAATAATTTT
Found at i:1482807 original size:14 final size:14
Alignment explanation
Indices: 1482767--1482811 Score: 60
Period size: 13 Copynumber: 3.4 Consensus size: 14
1482757 TTAAAAATAA
1482767 AAAATTAT--TTTT
1 AAAATTATAATTTT
1482779 AATAATTATAA-TTT
1 AA-AATTATAATTTT
1482793 AAAATTATAATTTT
1 AAAATTATAATTTT
1482807 AAAAT
1 AAAAT
1482812 ATTTTAAAGA
Statistics
Matches: 29, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
12 2 0.07
13 14 0.48
14 13 0.45
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (14 bp):
AAAATTATAATTTT
Found at i:1482847 original size:38 final size:35
Alignment explanation
Indices: 1482805--1482881 Score: 88
Period size: 33 Copynumber: 2.2 Consensus size: 35
1482795 AATTATAATT
* *
1482805 TTAAAATATTTTAAAGATATTATTTATTATTAATATTA
1 TTAAAATA--TTAAAAATAATATTTATT-TTAATATTA
1482843 TT--AA-ATTAAAAATAATATTTATTTTAATATTA
1 TTAAAATATTAAAAATAATATTTATTTTAATATTA
1482875 TTAAAAT
1 TTAAAAT
1482882 TAAAATAAAA
Statistics
Matches: 34, Mismatches: 2, Indels: 9
0.76 0.04 0.20
Matches are distributed among these distances:
32 11 0.32
33 16 0.47
34 2 0.06
35 1 0.03
36 2 0.06
38 2 0.06
ACGTcount: A:0.48, C:0.00, G:0.01, T:0.51
Consensus pattern (35 bp):
TTAAAATATTAAAAATAATATTTATTTTAATATTA
Found at i:1482875 original size:32 final size:34
Alignment explanation
Indices: 1482815--1482886 Score: 112
Period size: 33 Copynumber: 2.2 Consensus size: 34
1482805 TTAAAATATT
* *
1482815 TTAAAGATATTATTTATTATTAATATTATT-AAA
1 TTAAAAATAATATTTATTATTAATATTATTAAAA
1482848 TTAAAAATAATATTTATT-TTAATATTATTAAAA
1 TTAAAAATAATATTTATTATTAATATTATTAAAA
1482881 TTAAAA
1 TTAAAA
1482887 TAAAAATAAT
Statistics
Matches: 36, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
32 11 0.31
33 25 0.69
ACGTcount: A:0.50, C:0.00, G:0.01, T:0.49
Consensus pattern (34 bp):
TTAAAAATAATATTTATTATTAATATTATTAAAA
Found at i:1482887 original size:32 final size:32
Alignment explanation
Indices: 1482815--1482889 Score: 107
Period size: 32 Copynumber: 2.3 Consensus size: 32
1482805 TTAAAATATT
*
1482815 TTAAAGATATTATTTATTATTAATATTATTAAA
1 TTAAA-ATAATATTTATTATTAATATTATTAAA
1482848 TTAAAAATAATATTTATT-TTAATATTATTAAAA
1 TT-AAAATAATATTTATTATTAATATTATT-AAA
1482881 TTAAAATAA
1 TTAAAATAA
1482890 AAATAATTTT
Statistics
Matches: 39, Mismatches: 1, Indels: 5
0.87 0.02 0.11
Matches are distributed among these distances:
32 18 0.46
33 18 0.46
34 3 0.08
ACGTcount: A:0.51, C:0.00, G:0.01, T:0.48
Consensus pattern (32 bp):
TTAAAATAATATTTATTATTAATATTATTAAA
Found at i:1482899 original size:32 final size:32
Alignment explanation
Indices: 1482834--1482899 Score: 89
Period size: 32 Copynumber: 2.1 Consensus size: 32
1482824 TTATTTATTA
* * *
1482834 TTAATATTATTAAATTAAAAATAATATTTATT
1 TTAATATTATTAAATTAAAAATAAAAATAATT
1482866 TTAATATTATTAAAATT-AAAATAAAAATAATT
1 TTAATATTATT-AAATTAAAAATAAAAATAATT
1482898 TT
1 TT
1482900 TTATTTTTTT
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
32 25 0.83
33 5 0.17
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (32 bp):
TTAATATTATTAAATTAAAAATAAAAATAATT
Found at i:1491930 original size:2 final size:2
Alignment explanation
Indices: 1491925--1491956 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
1491915 ACCACACATA
1491925 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1491957 TTAAGTAGAA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1492776 original size:26 final size:24
Alignment explanation
Indices: 1492729--1492776 Score: 60
Period size: 26 Copynumber: 1.9 Consensus size: 24
1492719 ATCTATTTTT
*
1492729 ATTTATATAATATATTAGTTTTGC
1 ATTTATATAATATATAAGTTTTGC
*
1492753 ATTTATATATATTATATAATTTTT
1 ATTTATATA-A-TATATAAGTTTT
1492777 TTATATAAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
24 9 0.45
25 1 0.05
26 10 0.50
ACGTcount: A:0.35, C:0.02, G:0.04, T:0.58
Consensus pattern (24 bp):
ATTTATATAATATATAAGTTTTGC
Found at i:1492815 original size:22 final size:23
Alignment explanation
Indices: 1492779--1492840 Score: 83
Period size: 22 Copynumber: 2.8 Consensus size: 23
1492769 TAATTTTTTT
* *
1492779 ATAT-AAAAAATAAATATATATC
1 ATATCAAAGAATAAATATATATA
1492801 ATA-CAAAGAATAAATATATATA
1 ATATCAAAGAATAAATATATATA
*
1492823 ATATCAAAGAGTAAATAT
1 ATATCAAAGAATAAATAT
1492841 TAAAAATATG
Statistics
Matches: 35, Mismatches: 3, Indels: 3
0.85 0.07 0.07
Matches are distributed among these distances:
22 22 0.63
23 13 0.37
ACGTcount: A:0.61, C:0.05, G:0.05, T:0.29
Consensus pattern (23 bp):
ATATCAAAGAATAAATATATATA
Found at i:1498231 original size:21 final size:21
Alignment explanation
Indices: 1498198--1498240 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
1498188 ATCAACACAA
* *
1498198 TACATGATGTATCAATATATT
1 TACATAATGTATCAATACATT
* *
1498219 TACATAATTTATCGATACATT
1 TACATAATGTATCAATACATT
1498240 T
1 T
1498241 TCACTTGTAT
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.37, C:0.12, G:0.07, T:0.44
Consensus pattern (21 bp):
TACATAATGTATCAATACATT
Found at i:1506783 original size:20 final size:19
Alignment explanation
Indices: 1506758--1506827 Score: 79
Period size: 20 Copynumber: 3.5 Consensus size: 19
1506748 GAACTCAAAA
1506758 TATCGATACATTTATAGATG
1 TATCGATACA-TTATAGATG
* *
1506778 TATCGATACATTCTGGATTG
1 TATCGATACATTATAGA-TG
1506798 TATCGATACATTATCATG-TG
1 TATCGATACATTAT-A-GATG
1506818 TATCGATACA
1 TATCGATACA
1506828 AATAAAGATT
Statistics
Matches: 43, Mismatches: 4, Indels: 6
0.81 0.08 0.11
Matches are distributed among these distances:
19 5 0.12
20 37 0.86
22 1 0.02
ACGTcount: A:0.31, C:0.14, G:0.16, T:0.39
Consensus pattern (19 bp):
TATCGATACATTATAGATG
Found at i:1512990 original size:20 final size:20
Alignment explanation
Indices: 1512965--1513018 Score: 99
Period size: 20 Copynumber: 2.7 Consensus size: 20
1512955 TTTACCCAGA
1512965 TGTATCGATACATTATTCAT
1 TGTATCGATACATTATTCAT
*
1512985 TGTATCGATACATTGTTCAT
1 TGTATCGATACATTATTCAT
1513005 TGTATCGATACATT
1 TGTATCGATACATT
1513019 CTAGGTTTAC
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 33 1.00
ACGTcount: A:0.28, C:0.15, G:0.13, T:0.44
Consensus pattern (20 bp):
TGTATCGATACATTATTCAT
Found at i:1513058 original size:20 final size:20
Alignment explanation
Indices: 1512964--1513067 Score: 91
Period size: 20 Copynumber: 4.8 Consensus size: 20
1512954 TTTTACCCAG
*
1512964 ATGTATCGATACATTATTCA
1 ATGTATCGATACATTTTTCA
* *
1512984 TTGTATCGATACATTGTTCA
1 ATGTATCGATACATTTTTCA
*
1513004 TTGTATCGATACATTCTAGGTTTACCCA
1 ATGTATCGATACA-T-T---TTT---CA
1513032 GATGTATCGATACATTTTTCA
1 -ATGTATCGATACATTTTTCA
1513053 ATGTATCGATACATT
1 ATGTATCGATACATT
1513068 CAGGCATTTT
Statistics
Matches: 71, Mismatches: 4, Indels: 18
0.76 0.04 0.19
Matches are distributed among these distances:
20 46 0.65
21 3 0.04
22 1 0.01
24 3 0.04
25 2 0.03
27 1 0.01
28 3 0.04
29 12 0.17
ACGTcount: A:0.29, C:0.16, G:0.13, T:0.41
Consensus pattern (20 bp):
ATGTATCGATACATTTTTCA
Found at i:1513060 original size:69 final size:70
Alignment explanation
Indices: 1512915--1513067 Score: 247
Period size: 69 Copynumber: 2.2 Consensus size: 70
1512905 TTTCATAATT
* *
1512915 TGTATCAAGACATTGTTCATTGTATCGATACATTCAGGGTTTTACCCAGATGTATCGATACATTA
1 TGTATCGATACATTGTTCATTGTATCGATACATTCAGGGTTTTACCCAGATGTATCGATACATTA
*
1512980 TTCAT
66 TTCAA
1512985 TGTATCGATACATTGTTCATTGTATCGATACATTCTA-GG-TTTACCCAGATGTATCGATACATT
1 TGTATCGATACATTGTTCATTGTATCGATACATTC-AGGGTTTTACCCAGATGTATCGATACATT
*
1513048 TTTCAA
65 ATTCAA
1513054 TGTATCGATACATT
1 TGTATCGATACATT
1513068 CAGGCATTTT
Statistics
Matches: 78, Mismatches: 4, Indels: 3
0.92 0.05 0.04
Matches are distributed among these distances:
69 42 0.54
70 35 0.45
71 1 0.01
ACGTcount: A:0.28, C:0.17, G:0.15, T:0.40
Consensus pattern (70 bp):
TGTATCGATACATTGTTCATTGTATCGATACATTCAGGGTTTTACCCAGATGTATCGATACATTA
TTCAA
Found at i:1514406 original size:13 final size:13
Alignment explanation
Indices: 1514388--1514412 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1514378 TTATGAACAC
1514388 TGTATCGATACAA
1 TGTATCGATACAA
1514401 TGTATCGATACA
1 TGTATCGATACA
1514413 TAAATAGTGA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:1514419 original size:56 final size:56
Alignment explanation
Indices: 1514347--1514538 Score: 156
Period size: 56 Copynumber: 3.3 Consensus size: 56
1514337 AATAGTGATT
* * *
1514347 TATCGATGCATGAATAGTGATACGTGAACAGTTATGAACACTGTATCGATACAATG
1 TATCGATACATAAATAGTGATACGTGAACAGTTATGAACAATGTATCGATACAATG
* * * **
1514403 TATCGATACATAAATAGTGATGAACAGTGATTTATC-GATACATAAATAATG-AT-GAATAGTGA
1 TATCGATACATAAATAGTGAT--AC-GTGA---A-CAG-T-TATGAACAATGTATCG-ATA-CAA
*
1514465 TT
55 TG
* *
1514467 TATCGATACATAAATAGTGATACGTAAACAGTTATGAACAGTGTATCGATACAATG
1 TATCGATACATAAATAGTGATACGTGAACAGTTATGAACAATGTATCGATACAATG
*
1514523 TATCGATACATGAATA
1 TATCGATACATAAATA
1514539 CTATTCACAA
Statistics
Matches: 104, Mismatches: 18, Indels: 28
0.69 0.12 0.19
Matches are distributed among these distances:
56 43 0.41
57 7 0.07
58 5 0.05
59 4 0.04
61 3 0.03
62 5 0.05
63 7 0.07
64 30 0.29
ACGTcount: A:0.40, C:0.11, G:0.18, T:0.30
Consensus pattern (56 bp):
TATCGATACATAAATAGTGATACGTGAACAGTTATGAACAATGTATCGATACAATG
Found at i:1514444 original size:32 final size:32
Alignment explanation
Indices: 1514403--1514487 Score: 152
Period size: 32 Copynumber: 2.7 Consensus size: 32
1514393 CGATACAATG
1514403 TATCGATACATAAATAGTGATGAACAGTGATT
1 TATCGATACATAAATAGTGATGAACAGTGATT
* *
1514435 TATCGATACATAAATAATGATGAATAGTGATT
1 TATCGATACATAAATAGTGATGAACAGTGATT
1514467 TATCGATACATAAATAGTGAT
1 TATCGATACATAAATAGTGAT
1514488 ACGTAAACAG
Statistics
Matches: 50, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
32 50 1.00
ACGTcount: A:0.42, C:0.08, G:0.16, T:0.33
Consensus pattern (32 bp):
TATCGATACATAAATAGTGATGAACAGTGATT
Found at i:1514526 original size:13 final size:13
Alignment explanation
Indices: 1514508--1514560 Score: 54
Period size: 13 Copynumber: 3.9 Consensus size: 13
1514498 TTATGAACAG
1514508 TGTATCGATACAA
1 TGTATCGATACAA
1514521 TGTATCGATAC-A
1 TGTATCGATACAA
* *
1514533 TGAATACTATTCACAA
1 TGTAT-CGA-T-ACAA
1514549 TGTATCGATACA
1 TGTATCGATACA
1514561 TGAACAATAA
Statistics
Matches: 32, Mismatches: 4, Indels: 8
0.73 0.09 0.18
Matches are distributed among these distances:
12 5 0.16
13 16 0.50
14 2 0.06
15 4 0.12
16 5 0.16
ACGTcount: A:0.38, C:0.17, G:0.13, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:1514528 original size:120 final size:120
Alignment explanation
Indices: 1514315--1514538 Score: 385
Period size: 120 Copynumber: 1.9 Consensus size: 120
1514305 ATTCACAATG
* * * * *
1514315 TATCGATACATGAATAGTGATGAATAGTGATTTATCGATGCATGAATAGTGATACGTGAACAGTT
1 TATCGATACATAAATAATGATGAATAGTGATTTATCGATACATAAATAGTGATACGTAAACAGTT
1514380 ATGAACACTGTATCGATACAATGTATCGATACATAAATAGTGATGAACAGTGATT
66 ATGAACACTGTATCGATACAATGTATCGATACATAAATAGTGATGAACAGTGATT
1514435 TATCGATACATAAATAATGATGAATAGTGATTTATCGATACATAAATAGTGATACGTAAACAGTT
1 TATCGATACATAAATAATGATGAATAGTGATTTATCGATACATAAATAGTGATACGTAAACAGTT
* *
1514500 ATGAACAGTGTATCGATACAATGTATCGATACATGAATA
66 ATGAACACTGTATCGATACAATGTATCGATACATAAATA
1514539 CTATTCACAA
Statistics
Matches: 97, Mismatches: 7, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
120 97 1.00
ACGTcount: A:0.40, C:0.11, G:0.19, T:0.31
Consensus pattern (120 bp):
TATCGATACATAAATAATGATGAATAGTGATTTATCGATACATAAATAGTGATACGTAAACAGTT
ATGAACACTGTATCGATACAATGTATCGATACATAAATAGTGATGAACAGTGATT
Found at i:1514646 original size:13 final size:13
Alignment explanation
Indices: 1514628--1514652 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1514618 CTGCCAGTTT
1514628 ATGTATCGATACA
1 ATGTATCGATACA
1514641 ATGTATCGATAC
1 ATGTATCGATAC
1514653 TAAGCAAAAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:1518192 original size:166 final size:167
Alignment explanation
Indices: 1517917--1518642 Score: 773
Period size: 166 Copynumber: 4.4 Consensus size: 167
1517907 AGGTTTTGAA
* * **
1517917 TTTTTCCTTGAAA-TTCTCTAGTTTCTAAAATAT-AGAGTTTTCTACTCCGCAAATTTTTTCAGG
1 TTTTTCCTTGAAATTTCTCTATTTTCGAAAA-ATGA-AGTTTTCTACTCCATAAATTTTTTCAGG
* * * *
1517980 AGGATTTTTTTTCGTTTTTAATTTTTAAAATTTATCAAATATTATTATTTATTTCATAATAAATC
64 AGGATTTTTCTTGGTTTTTAAATTTTAAAATATATCAAATATTATTATTTATTTCATAATAAATC
1518045 AATTTTGAAAAATTCATTCATTTTCATGAGTTTTTAAAT
129 AATTTTGAAAAATTCATTCATTTTCATGAGTTTTTAAAT
* * **
1518084 TTTTTCCTTGAAATTTCTCTA-TTTCCAAAATACTG-AGTTTTCTACTTCAT-AATTTTTTTGGG
1 TTTTTCCTTGAAATTTCTCTATTTTCGAAAA-A-TGAAGTTTTCTACTCCATAAATTTTTTCAGG
* * * *
1518146 AGGCTTTTTCTTGGTTTTTAATTTTTAAAATATATCAAACATTATTATTTATTTCATAATAAATT
64 AGGATTTTTCTTGGTTTTTAAATTTTAAAATATATCAAATATTATTATTTATTTCATAATAAATC
* * *
1518211 AGTTTTCAAAAATTCATTCATTTTCATGAGTTTTGAAAT
129 AATTTTGAAAAATTCATTCATTTTCATGAGTTTTTAAAT
* * * * * **
1518250 TTTTTCTTTAAAATTTTTCTATTTTTGAAAAATGAAGTCCTTT-TACTCCGTAAATTTTTTCAAA
1 TTTTTCCTTGAAATTTCTCTATTTTCGAAAAATGAAGT--TTTCTACTCCATAAATTTTTTCAGG
*
1518314 AGGATTTTTCATGGTTTTTAAATTTTAAAATCCA-AT-AAATATTATTATTTATTTCATAATAAA
64 AGGATTTTTCTTGGTTTTTAAATTTTAAAAT--ATATCAAATATTATTATTTATTTCATAATAAA
*
1518377 TTC-ATTTTGAAAAATTCATTCATTTTCATGAGTTTTTGAAT
127 -TCAATTTTGAAAAATTCATTCATTTTCATGAGTTTTTAAAT
* * * *
1518418 TTTTTTCTTGAAATTT-TCTATTTTCGAAAAACGAAGTTTTCTACTCCATAAATTTTTT-TGGGG
1 TTTTTCCTTGAAATTTCTCTATTTTCGAAAAATGAAGTTTTCTACTCCATAAATTTTTTCAGGAG
* * * * **
1518481 GATTTTTTTTGGTTTTTAAATTTTAAAAT-TCATAAAATATTATTATTTATTTCCTATTAAATTG
66 GATTTTTCTTGGTTTTTAAATTTTAAAATAT-ATCAAATATTATTATTTATTTCATAATAAATCA
* * * * **
1518545 GTTTTTAAAAAGTCATTCATTTTCAAGAG-TTTTGGAT
130 ATTTTGAAAAATTCATTCATTTTCATGAGTTTTTAAAT
** * * *
1518582 TTTTTGTTTGAAA--TCCCTATTTTCTCCAAAAACT-AAGTTTTCTATTCCATAAATATTTTTC
1 TTTTTCCTTGAAATTTCTCTA-TTT-TCGAAAAA-TGAAGTTTTCTACTCCATAAAT-TTTTTC
1518643 GATCGGGGGA
Statistics
Matches: 476, Mismatches: 61, Indels: 44
0.82 0.10 0.08
Matches are distributed among these distances:
162 1 0.00
163 3 0.01
164 24 0.05
165 109 0.23
166 148 0.31
167 67 0.14
168 120 0.25
169 3 0.01
170 1 0.00
ACGTcount: A:0.31, C:0.11, G:0.08, T:0.50
Consensus pattern (167 bp):
TTTTTCCTTGAAATTTCTCTATTTTCGAAAAATGAAGTTTTCTACTCCATAAATTTTTTCAGGAG
GATTTTTCTTGGTTTTTAAATTTTAAAATATATCAAATATTATTATTTATTTCATAATAAATCAA
TTTTGAAAAATTCATTCATTTTCATGAGTTTTTAAAT
Found at i:1518523 original size:165 final size:164
Alignment explanation
Indices: 1517909--1518641 Score: 761
Period size: 165 Copynumber: 4.4 Consensus size: 164
1517899 AATTTTTGAG
* * * * * **
1517909 GTTTTGAA-TTTTTCCTTGAAATTCTCTAGTTTCTAAAATA-TAGAGTTTTCTACTCCGCAAATT
1 GTTTTGAATTTTTTTCTTGAAATTTTCTATTTTCCAAAA-ACGA-AGTTTTCTACTCCATAAATT
* * * * * *
1517972 TTTTCAGGAGGATTTTTTTTCGTTTTTAATTTTTAAAATTTATCAAATATTATTATTTATTTCAT
64 TTTT-TGGAGGATTTTTCTTGGTTTTTAAATTTTAAAATTCATAAAATATTATTATTTATTTCAT
1518037 AATAAA-TCAATTTTGAAAAATTCATTCATTTTCATGA
128 AATAAATTC-ATTTTGAAAAATTCATTCATTTTCATGA
* * *
1518074 GTTTTTAAATTTTTTCCTTGAAATTTCTCTA-TTTCCAAAATACTG-AGTTTTCTACTTCAT-AA
1 G-TTTTGAATTTTTTTCTTGAAATTT-TCTATTTTCCAAAA-AC-GAAGTTTTCTACTCCATAAA
* * * *
1518136 TTTTTTTGGGAGGCTTTTTCTTGGTTTTTAATTTTTAAAATAT-ATCAAACATTATTATTTATTT
62 TTTTTTT-GGAGGATTTTTCTTGGTTTTTAAATTTTAAAAT-TCATAAAATATTATTATTTATTT
*
1518200 CATAATAAATT-AGTTTTCAAAAATTCATTCATTTTCATGA
125 CATAATAAATTCA-TTTTGAAAAATTCATTCATTTTCATGA
* * ** * *
1518240 GTTTTGAAATTTTTTCTTTAAAATTTTTCTATTTTTGAAAAATGAAGTCCTTT-TACTCCGTAAA
1 GTTTTGAATTTTTTTC-TTGAAA-TTTTCTATTTTCCAAAAACGAAGT--TTTCTACTCCATAAA
*** * *
1518304 TTTTTTCAAAAGGATTTTTCATGGTTTTTAAATTTTAAAATCCA-ATAAATATTATTATTTATTT
62 TTTTTT-TGGAGGATTTTTCTTGGTTTTTAAATTTTAAAATTCATA-AAATATTATTATTTATTT
1518368 CATAATAAATTCATTTTGAAAAATTCATTCATTTTCATGA
125 CATAATAAATTCATTTTGAAAAATTCATTCATTTTCATGA
*
1518408 GTTTTTGAATTTTTTTCTTGAAATTTTCTATTTTCGAAAAACGAAGTTTTCTACTCCATAAATTT
1 G-TTTTGAATTTTTTTCTTGAAATTTTCTATTTTCCAAAAACGAAGTTTTCTACTCCATAAATTT
* * * *
1518473 TTTTGGGGGATTTTTTTTGGTTTTTAAATTTTAAAATTCATAAAATATTATTATTTATTTCCTAT
65 TTTTGGAGGATTTTTCTTGGTTTTTAAATTTTAAAATTCATAAAATATTATTATTTATTTCATAA
** * * *
1518538 TAAATTGGTTTTTAAAAAGTCATTCATTTTCAAGA
130 TAAATTCATTTTGAAAAATTCATTCATTTTCATGA
* ** * *
1518573 GTTTTGGATTTTTTGT-TTGAAA-TCCCTATTTTCTCCAAAAACTAAGTTTTCTATTCCATAAAT
1 GTTTTGAATTTTTT-TCTTGAAATTTTCTA-TTT-TCCAAAAACGAAGTTTTCTACTCCATAAAT
*
1518636 ATTTTT
63 TTTTTT
1518642 CGATCGGGGG
Statistics
Matches: 484, Mismatches: 58, Indels: 52
0.81 0.10 0.09
Matches are distributed among these distances:
163 4 0.01
164 21 0.04
165 133 0.27
166 130 0.27
167 77 0.16
168 104 0.21
169 15 0.03
ACGTcount: A:0.31, C:0.11, G:0.08, T:0.50
Consensus pattern (164 bp):
GTTTTGAATTTTTTTCTTGAAATTTTCTATTTTCCAAAAACGAAGTTTTCTACTCCATAAATTTT
TTTGGAGGATTTTTCTTGGTTTTTAAATTTTAAAATTCATAAAATATTATTATTTATTTCATAAT
AAATTCATTTTGAAAAATTCATTCATTTTCATGA
Found at i:1518673 original size:334 final size:333
Alignment explanation
Indices: 1517999--1518642 Score: 844
Period size: 334 Copynumber: 1.9 Consensus size: 333
1517989 TTTCGTTTTT
**
1517999 AATTTTTAAAAT-TTATCAAATATTATTATTTATTTCATAATAAATCAATTTTGAAAAATTCATT
1 AATTTTTAAAATCCAAT-AAATATTATTATTTATTTCATAATAAATCAATTTTGAAAAATTCATT
1518063 CATTTTCATGAGTTTTTAAATTTTTTCCTTGAAATTTCTCTATTTCCAAAATACTGAGTTTTCTA
65 CATTTTCATGAGTTTTTAAATTTTTTCCTTGAAATTTCTCTATTTCCAAAATACTGAGTTTTCTA
* * * *
1518128 CTTCATAATTTTTTTGGGAGGCTTTTTCTTGGTTTTTAATTTTTAAAATATATCAAACATTATTA
130 CTCCATAATTTTTTTGGGAGGATTTTTCTTGGTTTTTAAATTTTAAAATATATAAAACATTATTA
* *
1518193 TTTATTTCATAATAAATTAGTTTTCAAAAATTCATTCATTTTCATGAGTTTTGAAATTTTTTCTT
195 TTTATTTCATAATAAATTAGTTTTCAAAAAGTCATTCATTTTCAAGAGTTTTGAAATTTTTTCTT
** * *
1518258 TAAAATTTTTCTATTTTTGAAAAATGAAGTCCTTTTACTCCGTAAATTTTTTCAAAAGGATTTTT
260 TAAAA-TTCCCTATTTTTCAAAAATGAAGT-CTTTTACTCCATAAATTTTTTCAAAAGGATTTTT
* *
1518323 CATGGTTTTTA
323 CATGGTTCTAA
1518334 AA-TTTTAAAATCCAATAAATATTATTATTTATTTCATAATAAATTC-ATTTTGAAAAATTCATT
1 AATTTTTAAAATCCAATAAATATTATTATTTATTTCATAATAAA-TCAATTTTGAAAAATTCATT
* * *
1518397 CATTTTCATGAGTTTTTGAATTTTTTTCTTGAAATTT-TCTATTTTCGAAAA-AC-GAAGTTTTC
65 CATTTTCATGAGTTTTTAAATTTTTTCCTTGAAATTTCTCTA-TTTCCAAAATACTG-AGTTTTC
* *
1518459 TACTCCATAAATTTTTTTGGG-GGATTTTTTTTGGTTTTTAAATTTTAAAAT-TCATAAAATATT
128 TACTCCAT-AATTTTTTTGGGAGGATTTTTCTTGGTTTTTAAATTTTAAAATAT-ATAAAACATT
* * * * *
1518522 ATTATTTATTTCCTATTAAATTGGTTTTTAAAAAGTCATTCATTTTCAAGAGTTTTG-GATTTTT
191 ATTATTTATTTCATAATAAATTAGTTTTCAAAAAGTCATTCATTTTCAAGAGTTTTGAAATTTTT
* * *
1518586 TGTTTGAAA-TCCCTATTTTCTCCAAAAACT-AAGT-TTTCTATTCCATAAATATTTTTC
256 TCTTTAAAATTCCCTATTTT-T-CAAAAA-TGAAGTCTTT-TACTCCATAAAT-TTTTTC
1518643 GATCGGGGGA
Statistics
Matches: 273, Mismatches: 25, Indels: 25
0.85 0.08 0.08
Matches are distributed among these distances:
330 11 0.04
331 11 0.04
332 30 0.11
333 107 0.39
334 108 0.40
335 6 0.02
ACGTcount: A:0.32, C:0.10, G:0.08, T:0.50
Consensus pattern (333 bp):
AATTTTTAAAATCCAATAAATATTATTATTTATTTCATAATAAATCAATTTTGAAAAATTCATTC
ATTTTCATGAGTTTTTAAATTTTTTCCTTGAAATTTCTCTATTTCCAAAATACTGAGTTTTCTAC
TCCATAATTTTTTTGGGAGGATTTTTCTTGGTTTTTAAATTTTAAAATATATAAAACATTATTAT
TTATTTCATAATAAATTAGTTTTCAAAAAGTCATTCATTTTCAAGAGTTTTGAAATTTTTTCTTT
AAAATTCCCTATTTTTCAAAAATGAAGTCTTTTACTCCATAAATTTTTTCAAAAGGATTTTTCAT
GGTTCTAA
Found at i:1518803 original size:76 final size:77
Alignment explanation
Indices: 1518716--1518865 Score: 232
Period size: 76 Copynumber: 2.0 Consensus size: 77
1518706 AATAATTCAG
* * *
1518716 TTTTGACAAATTCAATTTATTTTTTGAATTTTAAATTTTTTTATATATCG-TTTTCTACA-CTGA
1 TTTTGAAAAATTCAATTTATTTTTTAAAATTTAAATTTTTTTATATATCGTTTTTCTACATC-GA
*
1518779 AGGTATTTCTCAA
65 AGGCATTTCTCAA
*
1518792 TTTTGAAAAATTCAATTTATTTTTTAAAATTTGAATTTTTTTATATATCGTTTTTCTACATCGAA
1 TTTTGAAAAATTCAATTTATTTTTTAAAATTTAAATTTTTTTATATATCGTTTTTCTACATCGAA
1518857 GGCATTTCT
66 GGCATTTCT
1518866 TGTAAACATT
Statistics
Matches: 67, Mismatches: 5, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
76 46 0.69
77 20 0.30
78 1 0.01
ACGTcount: A:0.29, C:0.10, G:0.08, T:0.53
Consensus pattern (77 bp):
TTTTGAAAAATTCAATTTATTTTTTAAAATTTAAATTTTTTTATATATCGTTTTTCTACATCGAA
GGCATTTCTCAA
Found at i:1519334 original size:13 final size:12
Alignment explanation
Indices: 1519316--1519357 Score: 52
Period size: 11 Copynumber: 3.6 Consensus size: 12
1519306 TAATTCAGCT
1519316 AAAAGAGGGAGAA
1 AAAAGA-GGAGAA
1519329 AAAAGA-GAGAA
1 AAAAGAGGAGAA
*
1519340 AAAA-AGAAGAA
1 AAAAGAGGAGAA
1519351 AAAAGAG
1 AAAAGAG
1519358 AAATATAGCT
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
10 1 0.04
11 17 0.65
12 2 0.08
13 6 0.23
ACGTcount: A:0.71, C:0.00, G:0.29, T:0.00
Consensus pattern (12 bp):
AAAAGAGGAGAA
Found at i:1519359 original size:12 final size:12
Alignment explanation
Indices: 1519325--1519359 Score: 56
Period size: 11 Copynumber: 3.1 Consensus size: 12
1519315 TAAAAGAGGG
1519325 AGAAAAAAGAG-
1 AGAAAAAAGAGA
1519336 AGAAAAAA-AGA
1 AGAAAAAAGAGA
1519347 AGAAAAAAGAGA
1 AGAAAAAAGAGA
1519359 A
1 A
1519360 ATATAGCTAA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
10 2 0.09
11 16 0.73
12 4 0.18
ACGTcount: A:0.77, C:0.00, G:0.23, T:0.00
Consensus pattern (12 bp):
AGAAAAAAGAGA
Found at i:1520594 original size:16 final size:16
Alignment explanation
Indices: 1520575--1520608 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
1520565 ATAAAATTTC
*
1520575 AATAATAAAAAATAAT
1 AATAAGAAAAAATAAT
*
1520591 AATAAGATAAAATAAT
1 AATAAGAAAAAATAAT
1520607 AA
1 AA
1520609 ATACATATTT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.74, C:0.00, G:0.03, T:0.24
Consensus pattern (16 bp):
AATAAGAAAAAATAAT
Found at i:1523576 original size:13 final size:13
Alignment explanation
Indices: 1523558--1523583 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1523548 CAATTTTTTG
1523558 TGTATCGATACAT
1 TGTATCGATACAT
1523571 TGTATCGATACAT
1 TGTATCGATACAT
1523584 ACTTGCTGTA
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:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:1523668 original size:20 final size:20
Alignment explanation
Indices: 1523643--1523715 Score: 101
Period size: 20 Copynumber: 3.6 Consensus size: 20
1523633 CAACTTTTTT
1523643 ATGTATCGATACATTGCAAC
1 ATGTATCGATACATTGCAAC
****
1523663 ATGTATCGATACATCTTTTTC
1 ATGTATCGATACAT-TGCAAC
1523684 ATGTATCGATACATTGCAAC
1 ATGTATCGATACATTGCAAC
1523704 ATGTATCGATAC
1 ATGTATCGATAC
1523716 TTTGAATTGT
Statistics
Matches: 44, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
20 28 0.64
21 16 0.36
ACGTcount: A:0.32, C:0.19, G:0.14, T:0.36
Consensus pattern (20 bp):
ATGTATCGATACATTGCAAC
Found at i:1523681 original size:41 final size:41
Alignment explanation
Indices: 1523622--1523715 Score: 170
Period size: 41 Copynumber: 2.3 Consensus size: 41
1523612 CTGCCAAGAA
*
1523622 ATGTATCGATACAACTTTTTTATGTATCGATACATTGCAAC
1 ATGTATCGATACAACTTTTTCATGTATCGATACATTGCAAC
*
1523663 ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
1 ATGTATCGATACAACTTTTTCATGTATCGATACATTGCAAC
1523704 ATGTATCGATAC
1 ATGTATCGATAC
1523716 TTTGAATTGT
Statistics
Matches: 51, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
41 51 1.00
ACGTcount: A:0.31, C:0.18, G:0.13, T:0.38
Consensus pattern (41 bp):
ATGTATCGATACAACTTTTTCATGTATCGATACATTGCAAC
Found at i:1523697 original size:21 final size:21
Alignment explanation
Indices: 1523622--1523697 Score: 91
Period size: 21 Copynumber: 3.7 Consensus size: 21
1523612 CTGCCAAGAA
* *
1523622 ATGTATCGATACAACTTTTTT
1 ATGTATCGATACATCTTTTTC
****
1523643 ATGTATCGATACAT-TGCAAC
1 ATGTATCGATACATCTTTTTC
1523663 ATGTATCGATACATCTTTTTC
1 ATGTATCGATACATCTTTTTC
1523684 ATGTATCGATACAT
1 ATGTATCGATACAT
1523698 TGCAACATGT
Statistics
Matches: 44, Mismatches: 10, Indels: 2
0.79 0.18 0.04
Matches are distributed among these distances:
20 15 0.34
21 29 0.66
ACGTcount: A:0.30, C:0.17, G:0.12, T:0.41
Consensus pattern (21 bp):
ATGTATCGATACATCTTTTTC
Found at i:1524373 original size:21 final size:21
Alignment explanation
Indices: 1524349--1524390 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
1524339 ATCTCCCCCT
1524349 TAATCAAGTAATTCACAACAA
1 TAATCAAGTAATTCACAACAA
1524370 TAATCAAGTAATTCACAACAA
1 TAATCAAGTAATTCACAACAA
1524391 AAATTTATTT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.52, C:0.19, G:0.05, T:0.24
Consensus pattern (21 bp):
TAATCAAGTAATTCACAACAA
Found at i:1526196 original size:13 final size:13
Alignment explanation
Indices: 1526178--1526215 Score: 67
Period size: 13 Copynumber: 2.9 Consensus size: 13
1526168 ATAATCACCC
1526178 TGTATCGATACAG
1 TGTATCGATACAG
*
1526191 TGTATCGATACAT
1 TGTATCGATACAG
1526204 TGTATCGATACA
1 TGTATCGATACA
1526216 AAGAAAAATG
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 24 1.00
ACGTcount: A:0.32, C:0.16, G:0.18, T:0.34
Consensus pattern (13 bp):
TGTATCGATACAG
Done.