Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr06 132263754
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: 132263754
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 372 characters in sequence are not A, C, G, or T
File 48 of 433
Found at i:13147456 original size:12 final size:11
Alignment explanation
Indices: 13147433--13147466 Score: 50
Period size: 12 Copynumber: 3.0 Consensus size: 11
13147423 GTCAAATTTG
*
13147433 ATTAAGTTTAA
1 ATTATGTTTAA
13147444 ATTATGATTTAA
1 ATTATG-TTTAA
13147456 ATTATGTTTAA
1 ATTATGTTTAA
13147467 TAATAGTTTA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
11 10 0.48
12 11 0.52
ACGTcount: A:0.41, C:0.00, G:0.09, T:0.50
Consensus pattern (11 bp):
ATTATGTTTAA
Found at i:13151412 original size:36 final size:35
Alignment explanation
Indices: 13151346--13151414 Score: 86
Period size: 36 Copynumber: 1.9 Consensus size: 35
13151336 AAGCTTAATC
* *
13151346 CAAAATATATATATTTAAAATCATTTAATTCATATA
1 CAAAATATATATA-TTAAAATCAATAAATTCATATA
13151382 CAAAATATATATA-TAACATATCAATAAATTCAT
1 CAAAATATATATATTAA-A-ATCAATAAATTCAT
13151415 TATTGAATAT
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
34 3 0.10
35 1 0.03
36 25 0.86
ACGTcount: A:0.52, C:0.10, G:0.00, T:0.38
Consensus pattern (35 bp):
CAAAATATATATATTAAAATCAATAAATTCATATA
Found at i:13153534 original size:46 final size:46
Alignment explanation
Indices: 13153360--13153541 Score: 240
Period size: 46 Copynumber: 4.0 Consensus size: 46
13153350 TTTGACATGA
* * * * * *
13153360 TGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTC-TGTCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACA-TTTCATATCAGGT
** * * *
13153406 TGCCATGGTATCTTTCAACCATGGTCTTATTCTTTTCATGTCACGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
13153452 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
*
13153498 TGCCATCGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
13153542 AGAGCACACT
Statistics
Matches: 123, Mismatches: 12, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
45 4 0.03
46 119 0.97
ACGTcount: A:0.21, C:0.24, G:0.14, T:0.41
Consensus pattern (46 bp):
TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
Found at i:13155668 original size:11 final size:11
Alignment explanation
Indices: 13155652--13155699 Score: 60
Period size: 11 Copynumber: 4.2 Consensus size: 11
13155642 CTTTATATAC
13155652 TAATAAAATAA
1 TAATAAAATAA
13155663 TAATAAAATATA
1 TAATAAAATA-A
* *
13155675 TTATTAAAATAT
1 -TAATAAAATAA
13155687 TAATAAAATAA
1 TAATAAAATAA
13155698 TA
1 TA
13155700 TTTATCTAAT
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
11 21 0.68
12 1 0.03
13 9 0.29
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (11 bp):
TAATAAAATAA
Found at i:13155682 original size:24 final size:24
Alignment explanation
Indices: 13155646--13155701 Score: 76
Period size: 24 Copynumber: 2.3 Consensus size: 24
13155636 TTCTTTCTTT
*
13155646 ATATACTAATAAAATAATAATAAA
1 ATATATTAATAAAATAATAATAAA
* *
13155670 ATATATTATTAAAATATTAATAAA
1 ATATATTAATAAAATAATAATAAA
13155694 ATAATATT
1 AT-ATATT
13155702 TATCTAATTA
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
24 23 0.82
25 5 0.18
ACGTcount: A:0.61, C:0.02, G:0.00, T:0.38
Consensus pattern (24 bp):
ATATATTAATAAAATAATAATAAA
Found at i:13157179 original size:16 final size:16
Alignment explanation
Indices: 13157158--13157188 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
13157148 TTTAATCCAA
13157158 AAACACATAAATGGGC
1 AAACACATAAATGGGC
13157174 AAACACATAAATGGG
1 AAACACATAAATGGG
13157189 AAAATTACCA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.52, C:0.16, G:0.19, T:0.13
Consensus pattern (16 bp):
AAACACATAAATGGGC
Found at i:13157646 original size:17 final size:16
Alignment explanation
Indices: 13157624--13157657 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
13157614 TCGAACCTAG
13157624 CTTTTGTTGTTTCTTTT
1 CTTTTGTT-TTTCTTTT
*
13157641 CTTTTGTTTTTGTTTT
1 CTTTTGTTTTTCTTTT
13157657 C
1 C
13157658 GGTGGATGAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 8 0.50
17 8 0.50
ACGTcount: A:0.00, C:0.12, G:0.12, T:0.76
Consensus pattern (16 bp):
CTTTTGTTTTTCTTTT
Found at i:13158173 original size:49 final size:50
Alignment explanation
Indices: 13158112--13158237 Score: 161
Period size: 49 Copynumber: 2.6 Consensus size: 50
13158102 CATCAAGTCA
*
13158112 ATGCCATGTCCCAGACAGGTCTTACACTGA-CTT-TCATATAATGAGGCGG
1 ATGCCATGTCCCAGACAGGTCTTACACTGAGCTTGT-ATATAATGAGGCCG
* **
13158161 ATGCCATATCCCAGACAGGTCTTACACT-AGCTTGTATATCTTGAGGCCG
1 ATGCCATGTCCCAGACAGGTCTTACACTGAGCTTGTATATAATGAGGCCG
* *
13158210 ATG-CATGTCCTAGACATGTCTTACACTG
1 ATGCCATGTCCCAGACAGGTCTTACACTG
13158238 GCTCTTATGA
Statistics
Matches: 67, Mismatches: 7, Indels: 6
0.84 0.09 0.08
Matches are distributed among these distances:
48 22 0.33
49 44 0.66
50 1 0.01
ACGTcount: A:0.25, C:0.25, G:0.21, T:0.29
Consensus pattern (50 bp):
ATGCCATGTCCCAGACAGGTCTTACACTGAGCTTGTATATAATGAGGCCG
Found at i:13159356 original size:21 final size:21
Alignment explanation
Indices: 13159318--13159357 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
13159308 AGTCCTTTTT
*
13159318 TAAAATTAAGCTCACAAATGC
1 TAAAATTAACCTCACAAATGC
13159339 TAAAATT-ACCTCACCAAAT
1 TAAAATTAACCTCA-CAAAT
13159358 TTTTCATGCA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 5 0.29
21 12 0.71
ACGTcount: A:0.47, C:0.23, G:0.05, T:0.25
Consensus pattern (21 bp):
TAAAATTAACCTCACAAATGC
Found at i:13171276 original size:2 final size:2
Alignment explanation
Indices: 13171269--13171303 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
13171259 GCCCTTTCTT
13171269 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
13171304 GTTATTAGTG
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:13174016 original size:2 final size:2
Alignment explanation
Indices: 13174004--13174050 Score: 85
Period size: 2 Copynumber: 23.5 Consensus size: 2
13173994 ACATAGAGAA
*
13174004 AT AT TT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
13174046 AT AT A
1 AT AT A
13174051 CTAATATACT
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
2 43 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
AT
Found at i:13177388 original size:23 final size:23
Alignment explanation
Indices: 13177358--13177403 Score: 67
Period size: 23 Copynumber: 2.0 Consensus size: 23
13177348 AATTTTGATT
13177358 TTTTTATAT-TTCATAAAATTTAG
1 TTTTTATATCTTCA-AAAATTTAG
*
13177381 TTTTTATATCTTCAAAATTTTAG
1 TTTTTATATCTTCAAAAATTTAG
13177404 AATTCAATTT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 17 0.81
24 4 0.19
ACGTcount: A:0.33, C:0.07, G:0.04, T:0.57
Consensus pattern (23 bp):
TTTTTATATCTTCAAAAATTTAG
Found at i:13178756 original size:23 final size:23
Alignment explanation
Indices: 13178730--13178773 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
13178720 TCTATCCGAA
*
13178730 ATAAATTTCTTAAACTAAATTAC
1 ATAAATATCTTAAACTAAATTAC
* *
13178753 ATAAATATCTTTAATTAAATT
1 ATAAATATCTTAAACTAAATT
13178774 TATCTTTGTT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.48, C:0.09, G:0.00, T:0.43
Consensus pattern (23 bp):
ATAAATATCTTAAACTAAATTAC
Found at i:13185280 original size:18 final size:18
Alignment explanation
Indices: 13185259--13185295 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
13185249 TTGATAGATT
*
13185259 TATATTAATAAGTTTATA
1 TATATTAATAAATTTATA
13185277 TATATTAATAAATTTATA
1 TATATTAATAAATTTATA
13185295 T
1 T
13185296 TTTAAATTAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.46, C:0.00, G:0.03, T:0.51
Consensus pattern (18 bp):
TATATTAATAAATTTATA
Found at i:13185655 original size:23 final size:23
Alignment explanation
Indices: 13185629--13185673 Score: 90
Period size: 23 Copynumber: 2.0 Consensus size: 23
13185619 CAACCTTGAG
13185629 AAAATTTTTGAAGTCAAATTATT
1 AAAATTTTTGAAGTCAAATTATT
13185652 AAAATTTTTGAAGTCAAATTAT
1 AAAATTTTTGAAGTCAAATTAT
13185674 ACTTAACATA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.44, C:0.04, G:0.09, T:0.42
Consensus pattern (23 bp):
AAAATTTTTGAAGTCAAATTATT
Found at i:13188360 original size:21 final size:21
Alignment explanation
Indices: 13188336--13188378 Score: 77
Period size: 21 Copynumber: 2.0 Consensus size: 21
13188326 AAGAGTAAGC
13188336 GTACCTTGAGAATAAAATGAG
1 GTACCTTGAGAATAAAATGAG
*
13188357 GTACCTTGAGAATAAGATGAG
1 GTACCTTGAGAATAAAATGAG
13188378 G
1 G
13188379 ATTGAACCAA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.40, C:0.09, G:0.28, T:0.23
Consensus pattern (21 bp):
GTACCTTGAGAATAAAATGAG
Found at i:13188761 original size:6 final size:6
Alignment explanation
Indices: 13188742--13188807 Score: 73
Period size: 6 Copynumber: 11.2 Consensus size: 6
13188732 TTTGCAACCC
* * *
13188742 AAGGGG AAGAGG AAAGGG AAAGGG AAGGGG AAGGGG AA-GGG AA-GGG
1 AAGGGG AAGGGG AAGGGG AAGGGG AAGGGG AAGGGG AAGGGG AAGGGG
*
13188788 AAGGGG AAGAGGA AAGGGG A
1 AAGGGG AAG-GGG AAGGGG A
13188808 GAAAAATTTT
Statistics
Matches: 52, Mismatches: 6, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
5 10 0.19
6 37 0.71
7 5 0.10
ACGTcount: A:0.42, C:0.00, G:0.58, T:0.00
Consensus pattern (6 bp):
AAGGGG
Found at i:13188767 original size:12 final size:11
Alignment explanation
Indices: 13188742--13188807 Score: 71
Period size: 11 Copynumber: 5.6 Consensus size: 11
13188732 TTTGCAACCC
13188742 AAGGGGAAGAGG
1 AAGGGGAAG-GG
*
13188754 AAAGGGAAAGGG
1 -AAGGGGAAGGG
13188766 AAGGGGAAGGGG
1 AAGGGGAA-GGG
13188778 AA-GGGAAGGG
1 AAGGGGAAGGG
13188788 AAGGGGAAGAGG
1 AAGGGGAAG-GG
13188800 AAAGGGGA
1 -AAGGGGA
13188808 GAAAAATTTT
Statistics
Matches: 47, Mismatches: 2, Indels: 8
0.82 0.04 0.14
Matches are distributed among these distances:
10 5 0.11
11 18 0.38
12 9 0.19
13 15 0.32
ACGTcount: A:0.42, C:0.00, G:0.58, T:0.00
Consensus pattern (11 bp):
AAGGGGAAGGG
Found at i:13194327 original size:46 final size:46
Alignment explanation
Indices: 13194270--13194358 Score: 151
Period size: 46 Copynumber: 1.9 Consensus size: 46
13194260 ATCTTGACTT
*
13194270 ACACCTACAAAGTACGAGTCAAAGTTACATTATTAGGAAAAACGAG
1 ACACCTACAAAGTACGAGTCAAAGTTACATTATTAGCAAAAACGAG
* *
13194316 ACACCTGCAAAGTACGAGTCAAAGTTACGTTATTAGCAAAAAC
1 ACACCTACAAAGTACGAGTCAAAGTTACATTATTAGCAAAAAC
13194359 AAAAACCCTT
Statistics
Matches: 40, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
46 40 1.00
ACGTcount: A:0.44, C:0.19, G:0.17, T:0.20
Consensus pattern (46 bp):
ACACCTACAAAGTACGAGTCAAAGTTACATTATTAGCAAAAACGAG
Found at i:13197167 original size:22 final size:22
Alignment explanation
Indices: 13197143--13197218 Score: 100
Period size: 22 Copynumber: 3.5 Consensus size: 22
13197133 TGCGCTTTAG
*
13197143 TGCTTACTGTTTCGCACTTCGG
1 TGCTTACTGTTTCGCACTTCGA
* *
13197165 TGCTTA-TGTTCCGCACTTCAA
1 TGCTTACTGTTTCGCACTTCGA
*
13197186 TGCTTACTGTTTTGCACTTCGA
1 TGCTTACTGTTTCGCACTTCGA
*
13197208 TGCCTACTGTT
1 TGCTTACTGTT
13197219 ATATTAGTTC
Statistics
Matches: 46, Mismatches: 7, Indels: 2
0.84 0.13 0.04
Matches are distributed among these distances:
21 18 0.39
22 28 0.61
ACGTcount: A:0.13, C:0.26, G:0.18, T:0.42
Consensus pattern (22 bp):
TGCTTACTGTTTCGCACTTCGA
Found at i:13197849 original size:16 final size:16
Alignment explanation
Indices: 13197825--13197857 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
13197815 CGAAACAGGG
13197825 AGAAAAAGAAA-GAAA
1 AGAAAAAGAAAGGAAA
13197840 AGAAAGAAGAAAGGAAA
1 AGAAA-AAGAAAGGAAA
13197857 A
1 A
13197858 ATTAGGGTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 5 0.31
16 6 0.38
17 5 0.31
ACGTcount: A:0.76, C:0.00, G:0.24, T:0.00
Consensus pattern (16 bp):
AGAAAAAGAAAGGAAA
Found at i:13198842 original size:40 final size:39
Alignment explanation
Indices: 13198721--13198855 Score: 157
Period size: 40 Copynumber: 3.4 Consensus size: 39
13198711 GACTTCGAGT
*
13198721 CGATGAGACACTGGGTGTCAATTTATTACTTCGAATATATT
1 CGATGAGACACTGGGTGTCAA-TTATTACTTCGAAT-TATC
* * ** *
13198762 CGATGAGGCACTGGGTGCCAA-T-TTACTTCGGTTTAGC
1 CGATGAGACACTGGGTGTCAATTATTACTTCGAATTATC
13198799 CGATGAGACACTGGGTGTCAACTTATTACTTCGAATTATC
1 CGATGAGACACTGGGTGTCAA-TTATTACTTCGAATTATC
**
13198839 CGATGAGGTACTGGGTG
1 CGATGAGACACTGGGTG
13198856 CCAAACTGGT
Statistics
Matches: 78, Mismatches: 13, Indels: 7
0.80 0.13 0.07
Matches are distributed among these distances:
37 21 0.27
38 9 0.12
39 2 0.03
40 27 0.35
41 19 0.24
ACGTcount: A:0.24, C:0.18, G:0.26, T:0.32
Consensus pattern (39 bp):
CGATGAGACACTGGGTGTCAATTATTACTTCGAATTATC
Found at i:13203089 original size:16 final size:16
Alignment explanation
Indices: 13203068--13203136 Score: 52
Period size: 16 Copynumber: 4.2 Consensus size: 16
13203058 CAATCACTTC
13203068 AATATTAAATTAATAA
1 AATATTAAATTAATAA
*
13203084 AATATT--ATTAAGATA
1 AATATTAAATTAATA-A
* **
13203099 AATATTTAATTTAATTT
1 AATA-TTAAATTAATAA
*
13203116 AATATTAAATATATTAA
1 AATATTAAAT-TAATAA
13203133 AATA
1 AATA
13203137 AAATTATTTT
Statistics
Matches: 39, Mismatches: 9, Indels: 9
0.68 0.16 0.16
Matches are distributed among these distances:
14 6 0.15
15 5 0.13
16 13 0.33
17 11 0.28
18 4 0.10
ACGTcount: A:0.55, C:0.00, G:0.01, T:0.43
Consensus pattern (16 bp):
AATATTAAATTAATAA
Found at i:13205949 original size:26 final size:27
Alignment explanation
Indices: 13205894--13205970 Score: 108
Period size: 26 Copynumber: 3.0 Consensus size: 27
13205884 CCGAAAAGGC
*
13205894 ATTAATCAGGAAGCTC-CAGAGAG-CT
1 ATTAATCAGGAAGCTCACAAAGAGCCT
13205919 ATTAATCAGGAAGCTCACAAAGAGCCT
1 ATTAATCAGGAAGCTCACAAAGAGCCT
13205946 -TTAATC-GGAAAGCTCACAAAGAGCC
1 ATTAATCAGG-AAGCTCACAAAGAGCC
13205971 ATATAATGGG
Statistics
Matches: 48, Mismatches: 1, Indels: 5
0.89 0.02 0.09
Matches are distributed among these distances:
25 18 0.38
26 28 0.58
27 2 0.04
ACGTcount: A:0.39, C:0.22, G:0.21, T:0.18
Consensus pattern (27 bp):
ATTAATCAGGAAGCTCACAAAGAGCCT
Found at i:13213562 original size:27 final size:28
Alignment explanation
Indices: 13213525--13213664 Score: 184
Period size: 27 Copynumber: 5.2 Consensus size: 28
13213515 AGCATGGCTG
* *
13213525 CCAGA-ACAGATA-ATGTGACAGAGTCA
1 CCAGATACAGATATATGTGGCAGAGCCA
13213551 CCAGATACAGATA-ATCGTGGCAGAGCCA
1 CCAGATACAGATATAT-GTGGCAGAGCCA
13213579 CCAGA-ACAGATATATGTGGCAGAGCCA
1 CCAGATACAGATATATGTGGCAGAGCCA
*
13213606 CCAGAT-CAGATATTTGTGGCAGAGCCA
1 CCAGATACAGATATATGTGGCAGAGCCA
* *
13213633 CCAGAT-CAGATATTTGTGGCATAGCCA
1 CCAGATACAGATATATGTGGCAGAGCCA
13213660 CCAGA
1 CCAGA
13213665 ACGCTTCCTC
Statistics
Matches: 106, Mismatches: 4, Indels: 7
0.91 0.03 0.06
Matches are distributed among these distances:
26 5 0.05
27 84 0.79
28 17 0.16
ACGTcount: A:0.35, C:0.23, G:0.24, T:0.18
Consensus pattern (28 bp):
CCAGATACAGATATATGTGGCAGAGCCA
Found at i:13215320 original size:26 final size:26
Alignment explanation
Indices: 13215284--13215445 Score: 288
Period size: 26 Copynumber: 6.2 Consensus size: 26
13215274 CATGAAATTC
13215284 TTATCATGAAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCTA
*
13215310 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCTA
*
13215336 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCTA
*
13215362 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCTA
*
13215388 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCTA
13215414 TTATCATGAAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCTA
13215440 TTATCA
1 TTATCA
13215446 ATTTGTATCA
Statistics
Matches: 132, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 132 1.00
ACGTcount: A:0.36, C:0.23, G:0.06, T:0.35
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCTA
Found at i:13218089 original size:7 final size:7
Alignment explanation
Indices: 13218077--13218114 Score: 76
Period size: 7 Copynumber: 5.4 Consensus size: 7
13218067 CCATTCCTAA
13218077 TCATCCC
1 TCATCCC
13218084 TCATCCC
1 TCATCCC
13218091 TCATCCC
1 TCATCCC
13218098 TCATCCC
1 TCATCCC
13218105 TCATCCC
1 TCATCCC
13218112 TCA
1 TCA
13218115 GCATTCTCTC
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 31 1.00
ACGTcount: A:0.16, C:0.55, G:0.00, T:0.29
Consensus pattern (7 bp):
TCATCCC
Found at i:13229708 original size:27 final size:28
Alignment explanation
Indices: 13229671--13229810 Score: 184
Period size: 27 Copynumber: 5.2 Consensus size: 28
13229661 AGCATGGCTG
* *
13229671 CCAGA-ACAGATA-ATGTGACAGAGTCA
1 CCAGATACAGATATATGTGGCAGAGCCA
13229697 CCAGATACAGATA-ATCGTGGCAGAGCCA
1 CCAGATACAGATATAT-GTGGCAGAGCCA
13229725 CCAGA-ACAGATATATGTGGCAGAGCCA
1 CCAGATACAGATATATGTGGCAGAGCCA
*
13229752 CCAGAT-CAGATATTTGTGGCAGAGCCA
1 CCAGATACAGATATATGTGGCAGAGCCA
* *
13229779 CCAGAT-CAGATATTTGTGGCATAGCCA
1 CCAGATACAGATATATGTGGCAGAGCCA
13229806 CCAGA
1 CCAGA
13229811 ACGCTTCCTC
Statistics
Matches: 106, Mismatches: 4, Indels: 7
0.91 0.03 0.06
Matches are distributed among these distances:
26 5 0.05
27 84 0.79
28 17 0.16
ACGTcount: A:0.35, C:0.23, G:0.24, T:0.18
Consensus pattern (28 bp):
CCAGATACAGATATATGTGGCAGAGCCA
Found at i:13231464 original size:26 final size:26
Alignment explanation
Indices: 13231426--13231483 Score: 98
Period size: 26 Copynumber: 2.2 Consensus size: 26
13231416 CATGAAATTC
13231426 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* *
13231452 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
13231478 TTATCA
1 TTATCA
13231484 ATTTGTATCA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 30 1.00
ACGTcount: A:0.36, C:0.24, G:0.05, T:0.34
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:13234917 original size:20 final size:20
Alignment explanation
Indices: 13234892--13234929 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
13234882 CACATCCAAA
*
13234892 TACAAAATTTTAAAAATCTT
1 TACAAAATATTAAAAATCTT
*
13234912 TACAAAATATTGAAAATC
1 TACAAAATATTAAAAATC
13234930 GCGAATAAAC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.53, C:0.11, G:0.03, T:0.34
Consensus pattern (20 bp):
TACAAAATATTAAAAATCTT
Found at i:13242846 original size:20 final size:20
Alignment explanation
Indices: 13242823--13242860 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
13242813 CACATCCAAA
*
13242823 TACAAAATTTTAAAAATCTT
1 TACAAAATATTAAAAATCTT
*
13242843 TACAAAATATTGAAAATC
1 TACAAAATATTAAAAATC
13242861 GCGAATAAAC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.53, C:0.11, G:0.03, T:0.34
Consensus pattern (20 bp):
TACAAAATATTAAAAATCTT
Found at i:13246304 original size:27 final size:28
Alignment explanation
Indices: 13246267--13246406 Score: 175
Period size: 27 Copynumber: 5.2 Consensus size: 28
13246257 AGCATGGCTG
* *
13246267 CCAGA-ACAGATA-ATGTGACAGAGTCA
1 CCAGATACAGATATATGTGGCAGAGCCA
13246293 CCAGATACAGATA-ATCGTGGCAGAGCCA
1 CCAGATACAGATATAT-GTGGCAGAGCCA
13246321 CCAGA-ACAGATATATGTGGCAGAGCCA
1 CCAGATACAGATATATGTGGCAGAGCCA
*
13246348 CCAGAT-CAGATATTTGTGGCAGAGCCA
1 CCAGATACAGATATATGTGGCAGAGCCA
* * *
13246375 CTAGAT-CAGATATTTGTGGCATAGCCA
1 CCAGATACAGATATATGTGGCAGAGCCA
13246402 CCAGA
1 CCAGA
13246407 ACGCTTCCTC
Statistics
Matches: 104, Mismatches: 6, Indels: 7
0.89 0.05 0.06
Matches are distributed among these distances:
26 5 0.05
27 82 0.79
28 17 0.16
ACGTcount: A:0.35, C:0.22, G:0.24, T:0.19
Consensus pattern (28 bp):
CCAGATACAGATATATGTGGCAGAGCCA
Found at i:13248061 original size:26 final size:26
Alignment explanation
Indices: 13248025--13248108 Score: 150
Period size: 26 Copynumber: 3.2 Consensus size: 26
13248015 CATGAAATTC
13248025 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
13248051 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* *
13248077 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
13248103 TTATCA
1 TTATCA
13248109 ATTTGTATCA
Statistics
Matches: 56, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 56 1.00
ACGTcount: A:0.37, C:0.25, G:0.05, T:0.33
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:13248492 original size:7 final size:7
Alignment explanation
Indices: 13248480--13248505 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
13248470 CCATTCCTAA
13248480 TCATCCC
1 TCATCCC
13248487 TCATCCC
1 TCATCCC
13248494 TCATCCC
1 TCATCCC
13248501 TCATC
1 TCATC
13248506 ATTCTCTCTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.15, C:0.54, G:0.00, T:0.31
Consensus pattern (7 bp):
TCATCCC
Found at i:13251386 original size:3 final size:3
Alignment explanation
Indices: 13251367--13251401 Score: 52
Period size: 3 Copynumber: 11.3 Consensus size: 3
13251357 GAACAAATAC
*
13251367 AAT AAT ATAT AAA AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT A-AT AAT AAT AAT AAT AAT AAT AAT AAT A
13251402 TAGTAACATA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
3 26 0.90
4 3 0.10
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:13251721 original size:26 final size:27
Alignment explanation
Indices: 13251658--13251723 Score: 73
Period size: 27 Copynumber: 2.4 Consensus size: 27
13251648 AATAATACAT
* * *
13251658 AAAAT-ATAATATTTAATAGTGAATTTT
1 AAAATAATAATATATAATAGT-AATATA
13251685 AAAATAGATAATATATAATAGT-ATATA
1 AAAATA-ATAATATATAATAGTAATATA
13251712 AAAATAATAATA
1 AAAATAATAATA
13251724 AATGAAATAA
Statistics
Matches: 34, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
26 6 0.18
27 14 0.41
29 14 0.41
ACGTcount: A:0.58, C:0.00, G:0.06, T:0.36
Consensus pattern (27 bp):
AAAATAATAATATATAATAGTAATATA
Found at i:13253163 original size:31 final size:30
Alignment explanation
Indices: 13253128--13253230 Score: 115
Period size: 30 Copynumber: 3.4 Consensus size: 30
13253118 AACTAGTCTG
*
13253128 TTTGGGTGTGTGTATAACGGGTCTGGGCTAT
1 TTTGGGT-TGTGTGTAACGGGTCTGGGCTAT
*
13253159 TTTGGGTT-TGCTGTAACGGGTCTGAGCTAT
1 TTTGGGTTGTG-TGTAACGGGTCTGGGCTAT
13253189 TTTGGGTT-TGTTGTAACGGGTCTGAGG-TA-
1 TTTGGGTTGTG-TGTAACGGGTCTG-GGCTAT
13253218 TTTGGGCTTGTGT
1 TTTGGG-TTGTGT
13253231 TTGGGCTCTT
Statistics
Matches: 64, Mismatches: 4, Indels: 9
0.83 0.05 0.12
Matches are distributed among these distances:
29 8 0.12
30 46 0.72
31 10 0.16
ACGTcount: A:0.12, C:0.10, G:0.37, T:0.42
Consensus pattern (30 bp):
TTTGGGTTGTGTGTAACGGGTCTGGGCTAT
Found at i:13253178 original size:30 final size:30
Alignment explanation
Indices: 13253142--13253220 Score: 124
Period size: 30 Copynumber: 2.6 Consensus size: 30
13253132 GGTGTGTGTA
13253142 TAACGGGTCTGGGCTATTTTGGGTTTGCTG
1 TAACGGGTCTGGGCTATTTTGGGTTTGCTG
* *
13253172 TAACGGGTCTGAGCTATTTTGGGTTTGTTG
1 TAACGGGTCTGGGCTATTTTGGGTTTGCTG
13253202 TAACGGGTCTGAGG-TATTT
1 TAACGGGTCTG-GGCTATTT
13253221 GGGCTTGTGT
Statistics
Matches: 45, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
30 44 0.98
31 1 0.02
ACGTcount: A:0.14, C:0.11, G:0.34, T:0.41
Consensus pattern (30 bp):
TAACGGGTCTGGGCTATTTTGGGTTTGCTG
Found at i:13253442 original size:21 final size:20
Alignment explanation
Indices: 13253416--13253477 Score: 65
Period size: 21 Copynumber: 3.0 Consensus size: 20
13253406 TATTTTATAG
*
13253416 ACTCTAAATCTTGAACCTCAA
1 ACTCTAAA-CTCGAACCTCAA
13253437 ACTCTAAACCTCGAACC-CTAA
1 ACTCTAAA-CTCGAACCTC-AA
*
13253458 ACACTAAACTCGAA-CTCAA
1 ACTCTAAACTCGAACCTCAA
13253477 A
1 A
13253478 TCTCAAACCC
Statistics
Matches: 36, Mismatches: 3, Indels: 6
0.80 0.07 0.13
Matches are distributed among these distances:
19 4 0.11
20 8 0.22
21 24 0.67
ACGTcount: A:0.42, C:0.32, G:0.05, T:0.21
Consensus pattern (20 bp):
ACTCTAAACTCGAACCTCAA
Found at i:13253474 original size:34 final size:34
Alignment explanation
Indices: 13253436--13253521 Score: 93
Period size: 34 Copynumber: 2.5 Consensus size: 34
13253426 TTGAACCTCA
*
13253436 AACTCTAAACCTCGAACCCT-AAACACTAAACTCG
1 AACTC-AAACCTCAAACCCTCAAACACTAAACTCG
* * *
13253470 AACTCAAATCTCAAACCCTCAAACCCTAAACTATG
1 AACTCAAACCTCAAACCCTCAAACACTAAACT-CG
* *
13253505 ATCTCAAACCTTAAACC
1 AACTCAAACCTCAAACC
13253522 TTAAAGTTTG
Statistics
Matches: 43, Mismatches: 7, Indels: 3
0.81 0.13 0.06
Matches are distributed among these distances:
33 12 0.28
34 16 0.37
35 15 0.35
ACGTcount: A:0.42, C:0.35, G:0.03, T:0.20
Consensus pattern (34 bp):
AACTCAAACCTCAAACCCTCAAACACTAAACTCG
Found at i:13253536 original size:28 final size:29
Alignment explanation
Indices: 13253476--13253536 Score: 72
Period size: 27 Copynumber: 2.2 Consensus size: 29
13253466 CTCGAACTCA
13253476 AATCTCAAACCCTCAAACCCTAAACTATG
1 AATCTCAAACCCTCAAACCCTAAACTATG
* * * *
13253505 -ATCTCAAA-CCTTAAACCTTAAAGTTTG
1 AATCTCAAACCCTCAAACCCTAAACTATG
13253532 AATCT
1 AATCT
13253537 TGAACTCAAA
Statistics
Matches: 27, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
27 15 0.56
28 12 0.44
ACGTcount: A:0.39, C:0.28, G:0.05, T:0.28
Consensus pattern (29 bp):
AATCTCAAACCCTCAAACCCTAAACTATG
Found at i:13262310 original size:17 final size:17
Alignment explanation
Indices: 13262288--13262326 Score: 60
Period size: 17 Copynumber: 2.3 Consensus size: 17
13262278 ATTTTGCCAT
*
13262288 TTTTTTTAAGGTTAGGA
1 TTTTTTAAAGGTTAGGA
*
13262305 TTTTTTAAAGGTTAGGG
1 TTTTTTAAAGGTTAGGA
13262322 TTTTT
1 TTTTT
13262327 GGTAGTTTAG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.21, C:0.00, G:0.23, T:0.56
Consensus pattern (17 bp):
TTTTTTAAAGGTTAGGA
Found at i:13262529 original size:16 final size:16
Alignment explanation
Indices: 13262487--13262526 Score: 57
Period size: 17 Copynumber: 2.6 Consensus size: 16
13262477 GTTTTTGATT
13262487 GTTTTAG-GG-TTAGG
1 GTTTTAGTGGTTTAGG
13262501 GTTTTAGTGGTTTAGG
1 GTTTTAGTGGTTTAGG
13262517 GTTTTTAGTG
1 G-TTTTAGTG
13262527 TTTTTTAAGG
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
14 7 0.30
15 2 0.09
16 6 0.26
17 8 0.35
ACGTcount: A:0.12, C:0.00, G:0.38, T:0.50
Consensus pattern (16 bp):
GTTTTAGTGGTTTAGG
Found at i:13262631 original size:115 final size:114
Alignment explanation
Indices: 13262504--13262729 Score: 391
Period size: 115 Copynumber: 2.0 Consensus size: 114
13262494 GGTTAGGGTT
* *
13262504 TTAGTGGTTTAGGGTTTTT-AGTGTTTTTTAAGGGAAAAATTAATAAACACTTAGAGTTGAGGGT
1 TTAGTGGCTTAGGGTTTTTAAG-GTTTTTTAAGAGAAAAATTAATAAACACTTAGAGTTGAGGGT
*
13262568 TAGTTAATTAAATTAACTATGAAAATAAGAAAAAATCAATTAAATTAGGGC
65 TAATTAATTAAATTAACTATGAAAATAA-AAAAAATCAATTAAATTAGGGC
*
13262619 TTAGTGGCTTAGGGTTTTTAAGGTTTTTTAAGAGAAAAATTAATGAACACTTAGAGTTGAGGGTT
1 TTAGTGGCTTAGGGTTTTTAAGGTTTTTTAAGAGAAAAATTAATAAACACTTAGAGTTGAGGGTT
13262684 AATTAATTAAATTAACTATGAAAATAAAAAAAATCAATTAAATTAG
66 AATTAATTAAATTAACTATGAAAATAAAAAAAATCAATTAAATTAG
13262730 TGTTTAGGGT
Statistics
Matches: 106, Mismatches: 4, Indels: 3
0.94 0.04 0.03
Matches are distributed among these distances:
114 19 0.18
115 85 0.80
116 2 0.02
ACGTcount: A:0.42, C:0.04, G:0.19, T:0.35
Consensus pattern (114 bp):
TTAGTGGCTTAGGGTTTTTAAGGTTTTTTAAGAGAAAAATTAATAAACACTTAGAGTTGAGGGTT
AATTAATTAAATTAACTATGAAAATAAAAAAAATCAATTAAATTAGGGC
Found at i:13262857 original size:277 final size:276
Alignment explanation
Indices: 13262356--13262893 Score: 900
Period size: 277 Copynumber: 1.9 Consensus size: 276
13262346 TGGTTTAAGA
* *
13262356 TTTTTAGGGTTTTTAAGGGAAAAATTAATGAACACTTAGAGTTTAGGGTTAATTAATTAAATTAA
1 TTTTTAGGGTTTTTAAGAGAAAAATTAATGAACACTTAGAGTTGAGGGTTAATTAATTAAATTAA
*
13262421 CTATAAAAATAAAAAAAAACTAATTAAATTAGGGTTTAGGGATTTTTAAGATTAGGGTTTTTGAT
66 CTATAAAAATAAAAAAAAACTAATTAAATTAGGGTTTAGGGATTTTTAAGATTAAGGTTTTTGAT
*
13262486 TGTTTTAGGGTTAGGGTTTTAGTGGTTTAGGGTTTTTAGTGTTTTTTAAGGGAAAAATTAATAAA
131 TGTTTTAGGGTTAGGGTTTTAGTGATTTAGGGTTTTTAGTGTTTTTTAAGGGAAAAATTAATAAA
*
13262551 CACTTAGAGTTGAGGGTTAGTTAATTAAATTAACTATGAAAATAAGAAAAAATCAATTAAATTAG
196 CACTTAGAGTTGAGGGTTAATTAATTAAATTAACTATGAAAATAA-AAAAAATCAATTAAATTAG
13262616 GGCTTAGTGGCTTAGGG
260 GGCTTAGTGGCTTAGGG
*
13262633 TTTTTAAGGTTTTTTAAGAGAAAAATTAATGAACACTTAGAGTTGAGGGTTAATTAATTAAATTA
1 TTTTT-AGGGTTTTTAAGAGAAAAATTAATGAACACTTAGAGTTGAGGGTTAATTAATTAAATTA
* * * * * *
13262698 ACTATGAAAATAAAAAAAATC-AATTAAATTAGTGTTTAGGG-TTTTTTAGAGTTAAGTTTTTTT
65 ACTATAAAAATAAAAAAAAACTAATTAAATTAGGGTTTAGGGATTTTTAAGA-TTAAGGTTTTTG
*
13262761 ATTGTTTTAGGGTTAGGGTTTTAGTGATTTAGGGTTTTTAGTGTTTTTTAAGGGAAAAATTAATG
129 ATTGTTTTAGGGTTAGGGTTTTAGTGATTTAGGGTTTTTAGTGTTTTTTAAGGGAAAAATTAATA
* *
13262826 AACACTTAGAGTTGATGGTTAATTAATTAAATTAACTATGAAAATAAAAAAAATTAATTAAATTA
194 AACACTTAGAGTTGAGGGTTAATTAATTAAATTAACTATGAAAATAAAAAAAATCAATTAAATTA
13262891 GGG
259 GGG
13262894 TTTAAGGTTT
Statistics
Matches: 244, Mismatches: 15, Indels: 5
0.92 0.06 0.02
Matches are distributed among these distances:
276 28 0.11
277 141 0.58
278 75 0.31
ACGTcount: A:0.38, C:0.03, G:0.20, T:0.39
Consensus pattern (276 bp):
TTTTTAGGGTTTTTAAGAGAAAAATTAATGAACACTTAGAGTTGAGGGTTAATTAATTAAATTAA
CTATAAAAATAAAAAAAAACTAATTAAATTAGGGTTTAGGGATTTTTAAGATTAAGGTTTTTGAT
TGTTTTAGGGTTAGGGTTTTAGTGATTTAGGGTTTTTAGTGTTTTTTAAGGGAAAAATTAATAAA
CACTTAGAGTTGAGGGTTAATTAATTAAATTAACTATGAAAATAAAAAAAATCAATTAAATTAGG
GCTTAGTGGCTTAGGG
Found at i:13262905 original size:162 final size:162
Alignment explanation
Indices: 13262627--13263056 Score: 711
Period size: 162 Copynumber: 2.6 Consensus size: 162
13262617 GCTTAGTGGC
*
13262627 TTAGGGTTTTTAAG-GTTTTTTAAGAGAAAAATTAATGAACACTTAGAGTTGAGGGTTAATTAAT
1 TTAGGGTTTTT-AGTGTTTTTTAAGGGAAAAATTAATGAACACTTAGAGTTGAGGGTTAATTAAT
* * * *
13262691 TAAATTAACTATGAAAATAAAAAAAATCAATTAAATTAGTGTTTAGGGTTTTTTA-GAGTTAAGT
65 TAAATTAACTATGAAAATAAAAAAAATTAATTAAATTAGGGTTTAAGGTTTTTTAGGA-TTAAGG
*
13262755 TTTTTTATTGTTTTAGGGTTAGGGTTTTAGTGAT
129 TTTTTGATTGTTTTAGGGTTAGGGTTTTAGTGAT
*
13262789 TTAGGGTTTTTAGTGTTTTTTAAGGGAAAAATTAATGAACACTTAGAGTTGATGGTTAATTAATT
1 TTAGGGTTTTTAGTGTTTTTTAAGGGAAAAATTAATGAACACTTAGAGTTGAGGGTTAATTAATT
*
13262854 AAATTAACTATGAAAATAAAAAAAATTAATTAAATTAGGGTTTAAGGTTTTTTAGGATTAGGGTT
66 AAATTAACTATGAAAATAAAAAAAATTAATTAAATTAGGGTTTAAGGTTTTTTAGGATTAAGGTT
*
13262919 TTTGATTGTTTTAGGGTTAGGGTTTTAGTGGT
131 TTTGATTGTTTTAGGGTTAGGGTTTTAGTGAT
* * *
13262951 TTAGGGTTTTTAGTGTTTTTTAAGGGAAAAATTAACGACCACTTGGAGTTGAGGGTTAATTAATT
1 TTAGGGTTTTTAGTGTTTTTTAAGGGAAAAATTAATGAACACTTAGAGTTGAGGGTTAATTAATT
13263016 AAATTAACTATGAAAATAAGAAAAAATTAATTAAATTAGGG
66 AAATTAACTATGAAAATAA-AAAAAATTAATTAAATTAGGG
13263057 CTTAGTGGTT
Statistics
Matches: 252, Mismatches: 13, Indels: 5
0.93 0.05 0.02
Matches are distributed among these distances:
161 2 0.01
162 227 0.90
163 23 0.09
ACGTcount: A:0.36, C:0.03, G:0.21, T:0.41
Consensus pattern (162 bp):
TTAGGGTTTTTAGTGTTTTTTAAGGGAAAAATTAATGAACACTTAGAGTTGAGGGTTAATTAATT
AAATTAACTATGAAAATAAAAAAAATTAATTAAATTAGGGTTTAAGGTTTTTTAGGATTAAGGTT
TTTGATTGTTTTAGGGTTAGGGTTTTAGTGAT
Found at i:13262917 original size:23 final size:24
Alignment explanation
Indices: 13262887--13262943 Score: 71
Period size: 24 Copynumber: 2.4 Consensus size: 24
13262877 AATTAATTAA
*
13262887 ATTAGGGTTTAAGGTT-TTTTAGG
1 ATTAGGGTTTAAGATTGTTTTAGG
**
13262910 ATTAGGGTTTTTGATTGTTTTAGG
1 ATTAGGGTTTAAGATTGTTTTAGG
*
13262934 GTTAGGGTTT
1 ATTAGGGTTT
13262944 TAGTGGTTTA
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
23 13 0.45
24 16 0.55
ACGTcount: A:0.18, C:0.00, G:0.32, T:0.51
Consensus pattern (24 bp):
ATTAGGGTTTAAGATTGTTTTAGG
Found at i:13262956 original size:22 final size:24
Alignment explanation
Indices: 13262904--13262958 Score: 69
Period size: 22 Copynumber: 2.4 Consensus size: 24
13262894 TTTAAGGTTT
* * *
13262904 TTTAGGATTAGGGTTTTTGATTGT
1 TTTAGGGTTAGGGTTTTTGAGTGG
13262928 TTTAGGGTTAGGG-TTTT-AGTGG
1 TTTAGGGTTAGGGTTTTTGAGTGG
13262950 TTTAGGGTT
1 TTTAGGGTT
13262959 TTTAGTGTTT
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
22 12 0.43
23 4 0.14
24 12 0.43
ACGTcount: A:0.15, C:0.00, G:0.35, T:0.51
Consensus pattern (24 bp):
TTTAGGGTTAGGGTTTTTGAGTGG
Found at i:13262968 original size:16 final size:16
Alignment explanation
Indices: 13262926--13262965 Score: 57
Period size: 17 Copynumber: 2.6 Consensus size: 16
13262916 GTTTTTGATT
13262926 GTTTTAG-GG-TTAGG
1 GTTTTAGTGGTTTAGG
13262940 GTTTTAGTGGTTTAGG
1 GTTTTAGTGGTTTAGG
13262956 GTTTTTAGTG
1 G-TTTTAGTG
13262966 TTTTTTAAGG
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
14 7 0.30
15 2 0.09
16 6 0.26
17 8 0.35
ACGTcount: A:0.12, C:0.00, G:0.38, T:0.50
Consensus pattern (16 bp):
GTTTTAGTGGTTTAGG
Found at i:13263071 original size:277 final size:275
Alignment explanation
Indices: 13262781--13263331 Score: 926
Period size: 277 Copynumber: 2.0 Consensus size: 275
13262771 GGTTAGGGTT
* *
13262781 TTAGTGATTTAGGGTTTTT-AGTGTTTTTTAAGGGAAAAATTAATGAACACTTAGAGTTGATGGT
1 TTAGTGATTTAGGGTTTTTAAG-GTTTTTTAAGAGAAAAATTAATGAACACTTAGAGTTGAGGGT
*
13262845 TAATTAATTAAATTAACTATGAAAATAAAAAAAATTAATTAAATTAGGGTTTAAGGTTTTTTAG-
65 TAATTAATTAAATTAACTATGAAAATAAAAAAAATCAATTAAATTAGGGTTTAAGGTTTTTTAGA
* * **
13262909 GATTAGGGTTTTTGATTGTTTTAGGGTTAGGGTTTTAGTGGTTTAGGGTTTTTAGTGTTTTTTAA
130 G-TTAGGATTTTTGATTGTTTTAGGGTTAGGGTTTTAGTGGTTTAGAGTTTTTAG-CATTTTTAA
* * *
13262974 GGGAAAAATTAACGACCACTTGGAGTTGAGGGTTAATTAATTAAATTAACTATGAAAATAAGAAA
193 GGGAAAAATTAACGAACACTTAGAGTTGAGGGCTAATTAATTAAATTAACTATGAAAATAA-AAA
*
13263039 AAATTAATTAAATTAGGGC
257 AAATCAATTAAATTAGGGC
*
13263058 TTAGTGGTTTAGGGTTTTTAAGGTTTTTTAAGAGAAAAATTAATGAACACTTAGAGTTGAGGGTT
1 TTAGTGATTTAGGGTTTTTAAGGTTTTTTAAGAGAAAAATTAATGAACACTTAGAGTTGAGGGTT
13263123 AATTAATTAAATTAACTATGAAAATAAAAAAAATCAATTAAATTAGGGTTTAAGGTTTTTTAGAG
66 AATTAATTAAATTAACTATGAAAATAAAAAAAATCAATTAAATTAGGGTTTAAGGTTTTTTAGAG
13263188 TTAGGATTTTTGATTGTTTTAGGGTTAGGGTTTTAGTGGTTTAGAGTTTTTAGCATTTTTAAGGG
131 TTAGGATTTTTGATTGTTTTAGGGTTAGGGTTTTAGTGGTTTAGAGTTTTTAGCATTTTTAAGGG
* *
13263253 AAAAATTAATGAACACTTAGAGTTGATGGCTAATTAATTAAATTAACTATGAAAATAAAAAAAAT
196 AAAAATTAACGAACACTTAGAGTTGAGGGCTAATTAATTAAATTAACTATGAAAATAAAAAAAAT
13263318 CAATTAAATTAGGG
261 CAATTAAATTAGGG
13263332 TTTAAAGTTT
Statistics
Matches: 258, Mismatches: 14, Indels: 6
0.93 0.05 0.02
Matches are distributed among these distances:
275 20 0.08
276 63 0.24
277 172 0.67
278 3 0.01
ACGTcount: A:0.37, C:0.03, G:0.21, T:0.39
Consensus pattern (275 bp):
TTAGTGATTTAGGGTTTTTAAGGTTTTTTAAGAGAAAAATTAATGAACACTTAGAGTTGAGGGTT
AATTAATTAAATTAACTATGAAAATAAAAAAAATCAATTAAATTAGGGTTTAAGGTTTTTTAGAG
TTAGGATTTTTGATTGTTTTAGGGTTAGGGTTTTAGTGGTTTAGAGTTTTTAGCATTTTTAAGGG
AAAAATTAACGAACACTTAGAGTTGAGGGCTAATTAATTAAATTAACTATGAAAATAAAAAAAAT
CAATTAAATTAGGGC
Found at i:13263084 original size:115 final size:114
Alignment explanation
Indices: 13262943--13263170 Score: 386
Period size: 115 Copynumber: 2.0 Consensus size: 114
13262933 GGTTAGGGTT
* * *
13262943 TTAGTGGTTTAGGGTTTTTAGTGTTTTTTAAGGGAAAAATTAACGACCACTTGGAGTTGAGGGTT
1 TTAGTGGTTTAGGGTTTTTAGTGTTTTTTAAGAGAAAAATTAACGAACACTTAGAGTTGAGGGTT
*
13263008 AATTAATTAAATTAACTATGAAAATAAGAAAAAATTAATTAAATTAGGGC
66 AATTAATTAAATTAACTATGAAAATAA-AAAAAATCAATTAAATTAGGGC
*
13263058 TTAGTGGTTTAGGGTTTTTAAG-GTTTTTTAAGAGAAAAATTAATGAACACTTAGAGTTGAGGGT
1 TTAGTGGTTTAGGGTTTTT-AGTGTTTTTTAAGAGAAAAATTAACGAACACTTAGAGTTGAGGGT
13263122 TAATTAATTAAATTAACTATGAAAATAAAAAAAATCAATTAAATTAGGG
65 TAATTAATTAAATTAACTATGAAAATAAAAAAAATCAATTAAATTAGGG
13263171 TTTAAGGTTT
Statistics
Matches: 107, Mismatches: 5, Indels: 3
0.93 0.04 0.03
Matches are distributed among these distances:
114 20 0.19
115 85 0.79
116 2 0.02
ACGTcount: A:0.40, C:0.04, G:0.20, T:0.36
Consensus pattern (114 bp):
TTAGTGGTTTAGGGTTTTTAGTGTTTTTTAAGAGAAAAATTAACGAACACTTAGAGTTGAGGGTT
AATTAATTAAATTAACTATGAAAATAAAAAAAATCAATTAAATTAGGGC
Found at i:13263155 original size:439 final size:438
Alignment explanation
Indices: 13262356--13263515 Score: 2032
Period size: 439 Copynumber: 2.6 Consensus size: 438
13262346 TGGTTTAAGA
* * *
13262356 TTTTTAGGGTTTTTAAGGGAAAAATTAATGAACACTTAGAGTTTAGGGTTAATTAATTAAATTAA
1 TTTTTAGGATTTTTAAGGGAAAAATTAATGAACACTTAGAGTTGATGGTTAATTAATTAAATTAA
* * * *
13262421 CTATAAAAATAAAAAAAAACTAATTAAATTAGGGTTTAGGGATTTTTAAGATTAGGGTTTTTGAT
66 CTATGAAAAT-AAAAAAAATTAATTAAATTAGGGTTTAAGGTTTTTTAAGATTAGGGTTTTTGAT
* *
13262486 TGTTTTAGGGTTAGGGTTTTAGTGGTTTAGGGTTTTTAGTGTTTTTTAAGGGAAAAATTAATAAA
130 TGTTTTAGGGTTAGGGTTTTAGTGGTTTAGGGTTTTTAGTGTTTTTTAAGGGAAAAATTAATGAC
* *
13262551 CACTTAGAGTTGAGGGTTAGTTAATTAAATTAACTATGAAAATAAGAAAAAATCAATTAAATTAG
195 CACTTGGAGTTGAGGGTTAATTAATTAAATTAACTATGAAAATAAGAAAAAATCAATTAAATTAG
*
13262616 GGCTTAGTGGCTTAGGGTTTTTAAGGTTTTTTAAGAGAAAAATTAATGAACACTTAGAGTTGAGG
260 GGCTTAGTGGTTTAGGGTTTTTAAGGTTTTTTAAGAGAAAAATTAATGAACACTTAGAGTTGAGG
* *
13262681 GTTAATTAATTAAATTAACTATGAAAATAAAAAAAATCAATTAAATTAGTGTTTAGGGTTTTTTA
325 GTTAATTAATTAAATTAACTATGAAAATAAAAAAAATCAATTAAATTAGGGTTTAAGGTTTTTTA
* * *
13262746 GAGTTAAGTTTTTTTATTGTTTTAGGGTTAGGGTTTTAGTGATTTAGGG
390 GAGTTAAGATTTTTGATTGTTTTAGGGTTAGGGTTTTAGTGATTTAGAG
*
13262795 TTTTTAGTGTTTTTTAAGGGAAAAATTAATGAACACTTAGAGTTGATGGTTAATTAATTAAATTA
1 TTTTTAG-GATTTTTAAGGGAAAAATTAATGAACACTTAGAGTTGATGGTTAATTAATTAAATTA
*
13262860 ACTATGAAAATAAAAAAAATTAATTAAATTAGGGTTTAAGGTTTTTTAGGATTAGGGTTTTTGAT
65 ACTATGAAAATAAAAAAAATTAATTAAATTAGGGTTTAAGGTTTTTTAAGATTAGGGTTTTTGAT
*
13262925 TGTTTTAGGGTTAGGGTTTTAGTGGTTTAGGGTTTTTAGTGTTTTTTAAGGGAAAAATTAACGAC
130 TGTTTTAGGGTTAGGGTTTTAGTGGTTTAGGGTTTTTAGTGTTTTTTAAGGGAAAAATTAATGAC
*
13262990 CACTTGGAGTTGAGGGTTAATTAATTAAATTAACTATGAAAATAAGAAAAAATTAATTAAATTAG
195 CACTTGGAGTTGAGGGTTAATTAATTAAATTAACTATGAAAATAAGAAAAAATCAATTAAATTAG
13263055 GGCTTAGTGGTTTAGGGTTTTTAAGGTTTTTTAAGAGAAAAATTAATGAACACTTAGAGTTGAGG
260 GGCTTAGTGGTTTAGGGTTTTTAAGGTTTTTTAAGAGAAAAATTAATGAACACTTAGAGTTGAGG
13263120 GTTAATTAATTAAATTAACTATGAAAATAAAAAAAATCAATTAAATTAGGGTTTAAGGTTTTTTA
325 GTTAATTAATTAAATTAACTATGAAAATAAAAAAAATCAATTAAATTAGGGTTTAAGGTTTTTTA
* *
13263185 GAGTTAGGATTTTTGATTGTTTTAGGGTTAGGGTTTTAGTGGTTTAGAG
390 GAGTTAAGATTTTTGATTGTTTTAGGGTTAGGGTTTTAGTGATTTAGAG
* *
13263234 TTTTTAGCATTTTTAAGGGAAAAATTAATGAACACTTAGAGTTGATGGCTAATTAATTAAATTAA
1 TTTTTAGGATTTTTAAGGGAAAAATTAATGAACACTTAGAGTTGATGGTTAATTAATTAAATTAA
* * *
13263299 CTATGAAAATAAAAAAAATCAATTAAATTAGGGTTTAAAGTTTTTTAAGATTAGGGTTTTTTATT
66 CTATGAAAATAAAAAAAATTAATTAAATTAGGGTTTAAGGTTTTTTAAGATTAGGGTTTTTGATT
*
13263364 GTTTTAGGGTTAGAGTTTTAGTGGTTTAGGGTTTTTAGTGTTTTTTAAGGGAAAAATTAATGACC
131 GTTTTAGGGTTAGGGTTTTAGTGGTTTAGGGTTTTTAGTGTTTTTTAAGGGAAAAATTAATGACC
13263429 ACTTGGAGTTGAGGGTTAATTAATTAAATTAACTATGAAAATAAGAAAAAAATCAATTAAATTAG
196 ACTTGGAGTTGAGGGTTAATTAATTAAATTAACTATGAAAATAAG-AAAAAATCAATTAAATTAG
13263494 GGCTTAGTGGTTTAGGGTTTTT
260 GGCTTAGTGGTTTAGGGTTTTT
13263516 TAGTGGTTTA
Statistics
Matches: 687, Mismatches: 32, Indels: 4
0.95 0.04 0.01
Matches are distributed among these distances:
438 224 0.33
439 399 0.58
440 64 0.09
ACGTcount: A:0.36, C:0.03, G:0.21, T:0.40
Consensus pattern (438 bp):
TTTTTAGGATTTTTAAGGGAAAAATTAATGAACACTTAGAGTTGATGGTTAATTAATTAAATTAA
CTATGAAAATAAAAAAAATTAATTAAATTAGGGTTTAAGGTTTTTTAAGATTAGGGTTTTTGATT
GTTTTAGGGTTAGGGTTTTAGTGGTTTAGGGTTTTTAGTGTTTTTTAAGGGAAAAATTAATGACC
ACTTGGAGTTGAGGGTTAATTAATTAAATTAACTATGAAAATAAGAAAAAATCAATTAAATTAGG
GCTTAGTGGTTTAGGGTTTTTAAGGTTTTTTAAGAGAAAAATTAATGAACACTTAGAGTTGAGGG
TTAATTAATTAAATTAACTATGAAAATAAAAAAAATCAATTAAATTAGGGTTTAAGGTTTTTTAG
AGTTAAGATTTTTGATTGTTTTAGGGTTAGGGTTTTAGTGATTTAGAG
Found at i:13263262 original size:161 final size:161
Alignment explanation
Indices: 13263058--13263656 Score: 820
Period size: 161 Copynumber: 3.8 Consensus size: 161
13263048 AAATTAGGGC
*
13263058 TTAGTGGTTTAGGGTTTTTAAG-GTTTTTTAAGAGAAAAATTAATGAACACTTAGAGTTGAGGGT
1 TTAGTGGTTTAGGGTTTTT-AGTGTTTTTTAAGGGAAAAATTAATGAACACTTAGAGTTGAGGGT
13263122 TAATTAATTAAATTAACTATGAAAAT-AAAAAAAATCAATTAAATTAGGGTTTAAGGTTTTTTAG
65 TAATTAATTAAATTAACTATGAAAATAAAAAAAAATCAATTAAATTAGGGTTTAAGGTTTTTTA-
*
13263186 AGTTAGGATTTTTGATTGTTTTAGGGTTAGGGTT
129 AGTTAGG-TTTTTTATTGTTTTAGGGTTAGGGTT
* ** * *
13263220 TTAGTGGTTTAGAGTTTTTAG-CATTTTTAAGGGAAAAATTAATGAACACTTAGAGTTGATGGCT
1 TTAGTGGTTTAGGGTTTTTAGTGTTTTTTAAGGGAAAAATTAATGAACACTTAGAGTTGAGGGTT
*
13263284 AATTAATTAAATTAACTATGAAAAT-AAAAAAAATCAATTAAATTAGGGTTTAAAGTTTTTTAAG
66 AATTAATTAAATTAACTATGAAAATAAAAAAAAATCAATTAAATTAGGGTTTAAGGTTTTTTAAG
*
13263348 ATTAGGGTTTTTTATTGTTTTAGGGTTAGAGTT
131 -TTA-GGTTTTTTATTGTTTTAGGGTTAGGGTT
* *
13263381 TTAGTGGTTTAGGGTTTTTAGTGTTTTTTAAGGGAAAAATTAATGACCACTTGGAGTTGAGGGTT
1 TTAGTGGTTTAGGGTTTTTAGTGTTTTTTAAGGGAAAAATTAATGAACACTTAGAGTTGAGGGTT
* **
13263446 AATTAATTAAATTAACTATGAAAATAAGAAAAAAATCAATTAAATTAGGGCTT-A-GTGGTTT-A
66 AATTAATTAAATTAACTATGAAAATAA-AAAAAAATCAATTAAATTAGGGTTTAAGGTTTTTTAA
* * *
13263508 G---GGTTTTTTAGTGGTTTA-----AGGTTT
130 GTTAGGTTTTTTATTGTTTTAGGGTTAGGGTT
* ** *
13263532 TTAGTGGTTTAGGATTTTTAGTGTTTTTTAAGGGAAAAATTAATTTA-A-TTAGAGTTCAGGGTT
1 TTAGTGGTTTAGGGTTTTTAGTGTTTTTTAAGGGAAAAATTAATGAACACTTAGAGTTGAGGGTT
*
13263595 AATTAATTAAATTAACTATGAAAATAAAAAAAAATCAATTAAATTA-GGTTTAGGGTTTTTTA
66 AATTAATTAAATTAACTATGAAAATAAAAAAAAATCAATTAAATTAGGGTTTAAGGTTTTTTA
13263657 GTGTTTATTA
Statistics
Matches: 396, Mismatches: 33, Indels: 28
0.87 0.07 0.06
Matches are distributed among these distances:
147 4 0.01
148 19 0.05
149 45 0.11
150 1 0.00
151 47 0.12
156 15 0.04
160 2 0.01
161 150 0.38
162 87 0.22
163 2 0.01
164 24 0.06
ACGTcount: A:0.36, C:0.03, G:0.20, T:0.41
Consensus pattern (161 bp):
TTAGTGGTTTAGGGTTTTTAGTGTTTTTTAAGGGAAAAATTAATGAACACTTAGAGTTGAGGGTT
AATTAATTAAATTAACTATGAAAATAAAAAAAAATCAATTAAATTAGGGTTTAAGGTTTTTTAAG
TTAGGTTTTTTATTGTTTTAGGGTTAGGGTT
Found at i:13263534 original size:17 final size:18
Alignment explanation
Indices: 13263497--13263554 Score: 84
Period size: 17 Copynumber: 3.3 Consensus size: 18
13263487 AAATTAGGGC
* *
13263497 TTAGTGGTTTAGGGTTTT
1 TTAGTGGTTTAAGGATTT
13263515 TTAGTGGTTTAAGG-TTT
1 TTAGTGGTTTAAGGATTT
13263532 TTAGTGGTTT-AGGATTT
1 TTAGTGGTTTAAGGATTT
13263549 TTAGTG
1 TTAGTG
13263555 TTTTTTAAGG
Statistics
Matches: 38, Mismatches: 1, Indels: 3
0.90 0.02 0.07
Matches are distributed among these distances:
16 3 0.08
17 22 0.58
18 13 0.34
ACGTcount: A:0.16, C:0.00, G:0.31, T:0.53
Consensus pattern (18 bp):
TTAGTGGTTTAAGGATTT
Found at i:13263657 original size:149 final size:150
Alignment explanation
Indices: 13263218--13263642 Score: 513
Period size: 162 Copynumber: 2.8 Consensus size: 150
13263208 AGGGTTAGGG
** * *
13263218 TTTTAGTGGTTTA-GAGTTTTTAG-CATTTTTAAGGGAAAAATTAATGAACACTTAGAGTTGATG
1 TTTTAGTGGTTTAGGA-TTTTTAGTGTTTTTTAAGGGAAAAATTAATG-ACACTTAGAGTTCAGG
* *
13263281 GCTAATTAATTAAATTAACTATGAAAAT-A-AAAAAAATCAATTAAATTAGGGTTTAAAGTTTTT
64 GTTAATTAATTAAATTAACTATGAAAATAAGAAAAAAATCAATTAAATTAGGGCTT--AG-----
* * * * *
13263344 TAAGATTAGGGTTTTTTATTGTTTTAGGGTT
122 T-GGTTTAGGGTTTTTTAGTGGTTTAAGG-T
* * *
13263375 AGAGTTTTAGTGGTTTAGGGTTTTTAGTGTTTTTTAAGGGAAAAATTAATGACCACTTGGAGTTG
1 ----TTTTAGTGGTTTAGGATTTTTAGTGTTTTTTAAGGGAAAAATTAATGA-CACTTAGAGTTC
13263440 AGGGTTAATTAATTAAATTAACTATGAAAATAAGAAAAAAATCAATTAAATTAGGGCTTAGTGGT
61 AGGGTTAATTAATTAAATTAACTATGAAAATAAGAAAAAAATCAATTAAATTAGGGCTTAGTGGT
13263505 TTAGGGTTTTTTAGTGGTTTAAGGT
126 TTAGGGTTTTTTAGTGGTTTAAGGT
*
13263530 TTTTAGTGGTTTAGGATTTTTAGTGTTTTTTAAGGGAAAAATTAATTTA-A-TTAGAGTTCAGGG
1 TTTTAGTGGTTTAGGATTTTTAGTGTTTTTTAAGGGAAAAATTAA-TGACACTTAGAGTTCAGGG
13263593 TTAATTAATTAAATTAACTATGAAAATAA-AAAAAAATCAATTAAATTAGG
65 TTAATTAATTAAATTAACTATGAAAATAAGAAAAAAATCAATTAAATTAGG
13263643 TTTAGGGTTT
Statistics
Matches: 242, Mismatches: 16, Indels: 25
0.86 0.06 0.09
Matches are distributed among these distances:
148 21 0.09
149 40 0.17
150 1 0.00
151 44 0.18
152 2 0.01
155 1 0.00
156 22 0.09
157 1 0.00
161 21 0.09
162 64 0.26
163 1 0.00
164 24 0.10
ACGTcount: A:0.37, C:0.04, G:0.20, T:0.40
Consensus pattern (150 bp):
TTTTAGTGGTTTAGGATTTTTAGTGTTTTTTAAGGGAAAAATTAATGACACTTAGAGTTCAGGGT
TAATTAATTAAATTAACTATGAAAATAAGAAAAAAATCAATTAAATTAGGGCTTAGTGGTTTAGG
GTTTTTTAGTGGTTTAAGGT
Found at i:13263907 original size:126 final size:126
Alignment explanation
Indices: 13263682--13264116 Score: 685
Period size: 126 Copynumber: 3.5 Consensus size: 126
13263672 TTTAACTATT
13263682 AATTACGGAAAAAAGCTCCCACGTGGACGCTCTTTTGCTACAGTAGTATCTGATAAAATAATTTT
1 AATTACGGAAAAAAGCTCCCACGTGGACGCTCTTTTGCTACAGTAGTATCTGATAAAATAATTTT
* * * * *
13263747 GAGAAGATGTTTCTAAAAAAATAGGGTCAAAAACGCCTTAAGAAGGATACACTTTTAGCAA
66 GAGAAGATGTTTCTGAACAAATAGTGTCAAAAACGCCTTAAGAAGGATGCACTTTCAGCAA
* * *
13263808 AATTACAGAAAAAAGCTCCTACGTGGACGCTCTTTTGCTATAGTAGTATCTGATAAAATAATTTT
1 AATTACGGAAAAAAGCTCCCACGTGGACGCTCTTTTGCTACAGTAGTATCTGATAAAATAATTTT
*
13263873 GAGAAGATGTTTCTGAACAAATAGTATCAAAAACGCCTTAAGAAGGATGCACTTTCAGCAA
66 GAGAAGATGTTTCTGAACAAATAGTGTCAAAAACGCCTTAAGAAGGATGCACTTTCAGCAA
* * * *
13263934 AATTATGGAAAAGAGCTCCCATGTGGACGCTTTTTTGCTACAGTAGTATCTGATAAAATAATTTT
1 AATTACGGAAAAAAGCTCCCACGTGGACGCTCTTTTGCTACAGTAGTATCTGATAAAATAATTTT
* *
13263999 GAGAAAATGTTTCTGAACAAATAGTGTCAAAAACG-CTTCAAGAAGGATGCACTTTCAGGAA
66 GAGAAGATGTTTCTGAACAAATAGTGTCAAAAACGCCTT-AAGAAGGATGCACTTTCAGCAA
* * *
13264060 AATTACGGGAAAAATCTCTCACGTGGACGCTCTTTTGCTACAGTAGTATCTGA-AAAA
1 AATTACGGAAAAAAGCTCCCACGTGGACGCTCTTTTGCTACAGTAGTATCTGATAAAA
13264117 GCCTTAGACT
Statistics
Matches: 282, Mismatches: 26, Indels: 3
0.91 0.08 0.01
Matches are distributed among these distances:
125 7 0.02
126 275 0.98
ACGTcount: A:0.37, C:0.16, G:0.19, T:0.28
Consensus pattern (126 bp):
AATTACGGAAAAAAGCTCCCACGTGGACGCTCTTTTGCTACAGTAGTATCTGATAAAATAATTTT
GAGAAGATGTTTCTGAACAAATAGTGTCAAAAACGCCTTAAGAAGGATGCACTTTCAGCAA
Found at i:13267177 original size:9 final size:9
Alignment explanation
Indices: 13267147--13267178 Score: 55
Period size: 9 Copynumber: 3.6 Consensus size: 9
13267137 ATTTATATTT
13267147 TATTAAAAA
1 TATTAAAAA
*
13267156 TATAAAAAA
1 TATTAAAAA
13267165 TATTAAAAA
1 TATTAAAAA
13267174 TATTA
1 TATTA
13267179 CCGTAGTCAA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 21 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (9 bp):
TATTAAAAA
Found at i:13268399 original size:7 final size:7
Alignment explanation
Indices: 13268387--13268440 Score: 108
Period size: 7 Copynumber: 7.7 Consensus size: 7
13268377 TTATATAGGT
13268387 AATACTA
1 AATACTA
13268394 AATACTA
1 AATACTA
13268401 AATACTA
1 AATACTA
13268408 AATACTA
1 AATACTA
13268415 AATACTA
1 AATACTA
13268422 AATACTA
1 AATACTA
13268429 AATACTA
1 AATACTA
13268436 AATAC
1 AATAC
13268441 GAAACGACTA
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 47 1.00
ACGTcount: A:0.57, C:0.15, G:0.00, T:0.28
Consensus pattern (7 bp):
AATACTA
Found at i:13270460 original size:31 final size:31
Alignment explanation
Indices: 13270417--13270478 Score: 115
Period size: 31 Copynumber: 2.0 Consensus size: 31
13270407 TAATGACTAC
13270417 AGTACATACTTTCTTCTAAAACTAAAATCTT
1 AGTACATACTTTCTTCTAAAACTAAAATCTT
*
13270448 AGTATATACTTTCTTCTAAAACTAAAATCTT
1 AGTACATACTTTCTTCTAAAACTAAAATCTT
13270479 TGAAACTTCT
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.39, C:0.18, G:0.03, T:0.40
Consensus pattern (31 bp):
AGTACATACTTTCTTCTAAAACTAAAATCTT
Found at i:13270933 original size:25 final size:26
Alignment explanation
Indices: 13270899--13270950 Score: 79
Period size: 28 Copynumber: 2.0 Consensus size: 26
13270889 ATTACAAAAG
13270899 AAACAAAAG-AAATATACTGAATTTA
1 AAACAAAAGAAAATATACTGAATTTA
13270924 AAACAAAAGAAAAAATATACTGAATTT
1 AAACAAAAG--AAAATATACTGAATTT
13270951 CCATCATTCA
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
25 9 0.38
28 15 0.62
ACGTcount: A:0.62, C:0.08, G:0.08, T:0.23
Consensus pattern (26 bp):
AAACAAAAGAAAATATACTGAATTTA
Found at i:13271449 original size:13 final size:13
Alignment explanation
Indices: 13271412--13271451 Score: 55
Period size: 13 Copynumber: 3.1 Consensus size: 13
13271402 ACTGCATGCA
*
13271412 AACATCAGAATTT
1 AACATGAGAATTT
13271425 AACATGTA-AATTT
1 AACATG-AGAATTT
13271438 AACATGAGAATTT
1 AACATGAGAATTT
13271451 A
1 A
13271452 CAAAGTTTCC
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
12 1 0.04
13 22 0.92
14 1 0.04
ACGTcount: A:0.47, C:0.10, G:0.10, T:0.33
Consensus pattern (13 bp):
AACATGAGAATTT
Found at i:13279507 original size:24 final size:24
Alignment explanation
Indices: 13279456--13279507 Score: 59
Period size: 24 Copynumber: 2.2 Consensus size: 24
13279446 AAATGAGTTT
* ** *
13279456 CTTTTCCTAGTTAAACTCTGCTAT
1 CTTTTCCTAGTCAAACTCTAATAA
*
13279480 CTTTTCCTAGTCGAACTCTAATAA
1 CTTTTCCTAGTCAAACTCTAATAA
13279504 CTTT
1 CTTT
13279508 AGGGATATTC
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.23, C:0.25, G:0.08, T:0.44
Consensus pattern (24 bp):
CTTTTCCTAGTCAAACTCTAATAA
Found at i:13280878 original size:13 final size:13
Alignment explanation
Indices: 13280847--13280872 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
13280837 ATTTATGATT
13280847 AGTATTATGCATA
1 AGTATTATGCATA
13280860 AGTATTATGCATA
1 AGTATTATGCATA
13280873 TATATTCTTT
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:0.08, G:0.15, T:0.38
Consensus pattern (13 bp):
AGTATTATGCATA
Found at i:13281057 original size:20 final size:20
Alignment explanation
Indices: 13281032--13281074 Score: 86
Period size: 20 Copynumber: 2.1 Consensus size: 20
13281022 GGGTTCAACA
13281032 TTTGTTGCGAACTCTTGTGT
1 TTTGTTGCGAACTCTTGTGT
13281052 TTTGTTGCGAACTCTTGTGT
1 TTTGTTGCGAACTCTTGTGT
13281072 TTT
1 TTT
13281075 ACTTTCTGTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.09, C:0.14, G:0.23, T:0.53
Consensus pattern (20 bp):
TTTGTTGCGAACTCTTGTGT
Found at i:13286098 original size:15 final size:15
Alignment explanation
Indices: 13286080--13286118 Score: 53
Period size: 15 Copynumber: 2.7 Consensus size: 15
13286070 TTATATTGTC
*
13286080 TATTTTTAATATCAT
1 TATTTTTAATAACAT
*
13286095 TATTTTTTATAACAT
1 TATTTTTAATAACAT
13286110 T-TTTTTAAT
1 TATTTTTAAT
13286119 TTGTAAAACT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
14 7 0.33
15 14 0.67
ACGTcount: A:0.31, C:0.05, G:0.00, T:0.64
Consensus pattern (15 bp):
TATTTTTAATAACAT
Found at i:13292364 original size:20 final size:20
Alignment explanation
Indices: 13292340--13292386 Score: 62
Period size: 19 Copynumber: 2.5 Consensus size: 20
13292330 AAATAATCTT
*
13292340 TTATA-ATTTTTAATAAAT-
1 TTATATATTTTTAAAAAATA
13292358 TTATATATTTTTAAAAAATA
1 TTATATATTTTTAAAAAATA
*
13292378 TTATTTATT
1 TTATATATT
13292387 AACATTGGTC
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
18 5 0.20
19 12 0.48
20 8 0.32
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (20 bp):
TTATATATTTTTAAAAAATA
Found at i:13292712 original size:27 final size:26
Alignment explanation
Indices: 13292682--13292745 Score: 92
Period size: 27 Copynumber: 2.4 Consensus size: 26
13292672 TTTATCAAGG
* *
13292682 TTATTAGTTTATGGATAAATGAATATT
1 TTATTAATTTATCGATAAATGAATA-T
*
13292709 TTATTAATTTATCGATAAATTAATAT
1 TTATTAATTTATCGATAAATGAATAT
13292735 TTATTAATTTA
1 TTATTAATTTA
13292746 GAGAATATTT
Statistics
Matches: 34, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
26 12 0.35
27 22 0.65
ACGTcount: A:0.39, C:0.02, G:0.08, T:0.52
Consensus pattern (26 bp):
TTATTAATTTATCGATAAATGAATAT
Found at i:13308434 original size:3 final size:3
Alignment explanation
Indices: 13308424--13308519 Score: 53
Period size: 3 Copynumber: 33.3 Consensus size: 3
13308414 ATTTTTTTTC
* * * *
13308424 TAT T-T TAT TAT TAT T-T TAA TAT TA- TAT TAC TAC TAT T-T TGT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* * *
13308468 TAT TAT T-T AAA TAT TAT ATAT AACT TAT T-T TAT TAT TAAT T-T TAT
1 TAT TAT TAT TAT TAT TAT -TAT TA-T TAT TAT TAT TAT T-AT TAT TAT
13308513 TAT TAT T
1 TAT TAT T
13308520 TTAAAAGACA
Statistics
Matches: 72, Mismatches: 11, Indels: 20
0.70 0.11 0.19
Matches are distributed among these distances:
2 13 0.18
3 51 0.71
4 8 0.11
ACGTcount: A:0.33, C:0.03, G:0.01, T:0.62
Consensus pattern (3 bp):
TAT
Found at i:13308475 original size:36 final size:33
Alignment explanation
Indices: 13308424--13308518 Score: 111
Period size: 36 Copynumber: 2.8 Consensus size: 33
13308414 ATTTTTTTTC
13308424 TATTTTATTATTATTTTAATATTATAT-TACTACT
1 TATTTTATTATTATTTTAATATTATATATA--ACT
* *
13308458 ATTTTGTTATTATTATTTAAATATTATATATAACT
1 -TATT-TTATTATTATTTTAATATTATATATAACT
*
13308493 TATTTTATTATTAATTTTATTATTAT
1 TATTTTATTATT-ATTTTAATATTAT
13308519 TTTAAAAGAC
Statistics
Matches: 52, Mismatches: 5, Indels: 7
0.81 0.08 0.11
Matches are distributed among these distances:
33 8 0.15
34 14 0.27
35 6 0.12
36 22 0.42
37 2 0.04
ACGTcount: A:0.34, C:0.03, G:0.01, T:0.62
Consensus pattern (33 bp):
TATTTTATTATTATTTTAATATTATATATAACT
Found at i:13308511 original size:12 final size:11
Alignment explanation
Indices: 13308404--13308522 Score: 77
Period size: 11 Copynumber: 10.7 Consensus size: 11
13308394 TTTTTTTATG
*
13308404 TTATTTTTTTA
1 TTATTTTATTA
13308415 TT-TTTT-TT-
1 TTATTTTATTA
*
13308423 CTATTTTATTA
1 TTATTTTATTA
*
13308434 TTATTTTAATA
1 TTATTTTATTA
*
13308445 TTATATTACTACTA
1 TTAT-TT--TATTA
13308459 TT-TTGTTATTA
1 TTATT-TTATTA
* *
13308470 TTATTTAAATA
1 TTATTTTATTA
* *
13308481 TTA-TATATAA
1 TTATTTTATTA
13308491 CTTATTTTATTA
1 -TTATTTTATTA
13308503 TTAATTTTATTA
1 TT-ATTTTATTA
13308515 TTATTTTA
1 TTATTTTA
13308523 AAAGACATTT
Statistics
Matches: 84, Mismatches: 13, Indels: 22
0.71 0.11 0.18
Matches are distributed among these distances:
8 1 0.01
9 6 0.07
10 9 0.11
11 39 0.46
12 21 0.25
13 2 0.02
14 6 0.07
ACGTcount: A:0.29, C:0.03, G:0.01, T:0.66
Consensus pattern (11 bp):
TTATTTTATTA
Found at i:13309005 original size:13 final size:13
Alignment explanation
Indices: 13308987--13309011 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
13308977 TTTCCAATCT
13308987 AATTAATTTGATA
1 AATTAATTTGATA
13309000 AATTAATTTGAT
1 AATTAATTTGAT
13309012 TTAATTGACC
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:0.44, C:0.00, G:0.08, T:0.48
Consensus pattern (13 bp):
AATTAATTTGATA
Found at i:13311535 original size:93 final size:93
Alignment explanation
Indices: 13311423--13311593 Score: 306
Period size: 93 Copynumber: 1.8 Consensus size: 93
13311413 GCCCATAAGT
* *
13311423 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGAACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGAACTCAACTCAA
13311488 CGAGCTCGGATGCCTAGTTACATCTCTC
66 CGAGCTCGGATGCCTAGTTACATCTCTC
* *
13311516 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGAACTCAACTCAA
13311581 CGAGCTCGGATGC
66 CGAGCTCGGATGC
13311594 TCAACCATCC
Statistics
Matches: 74, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 74 1.00
ACGTcount: A:0.28, C:0.30, G:0.21, T:0.20
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGAACTCAACTCAA
CGAGCTCGGATGCCTAGTTACATCTCTC
Found at i:13311590 original size:46 final size:46
Alignment explanation
Indices: 13311415--13311590 Score: 214
Period size: 46 Copynumber: 3.8 Consensus size: 46
13311405 TGTAACTCGC
* *
13311415 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
* *
13311461 CCATAAGTGAACTCGAACTCAACTCAACGAGCTCGG--ATGC-CTAGTT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGC-A--T
* *** *
13311507 ACATCTCTCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGT-GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
13311554 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGA
13311591 TGCTCAACCA
Statistics
Matches: 108, Mismatches: 15, Indels: 14
0.79 0.11 0.10
Matches are distributed among these distances:
43 1 0.01
44 3 0.03
46 68 0.63
47 31 0.29
49 4 0.04
50 1 0.01
ACGTcount: A:0.29, C:0.30, G:0.20, T:0.20
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
Found at i:13317174 original size:19 final size:19
Alignment explanation
Indices: 13317150--13317190 Score: 64
Period size: 19 Copynumber: 2.2 Consensus size: 19
13317140 GTTATAATAT
*
13317150 TAATATTCCTTTAATATTA
1 TAATATTCATTTAATATTA
*
13317169 TAATATTCATTTCATATTA
1 TAATATTCATTTAATATTA
13317188 TAA
1 TAA
13317191 AACAATTTAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.39, C:0.10, G:0.00, T:0.51
Consensus pattern (19 bp):
TAATATTCATTTAATATTA
Found at i:13319818 original size:11 final size:11
Alignment explanation
Indices: 13319802--13319826 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
13319792 TTCAGCTGAT
13319802 GAAAATGAAGA
1 GAAAATGAAGA
13319813 GAAAATGAAGA
1 GAAAATGAAGA
13319824 GAA
1 GAA
13319827 TTCTAAATAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.64, C:0.00, G:0.28, T:0.08
Consensus pattern (11 bp):
GAAAATGAAGA
Found at i:13334239 original size:49 final size:48
Alignment explanation
Indices: 13334179--13334432 Score: 370
Period size: 47 Copynumber: 5.3 Consensus size: 48
13334169 GTATGAGATA
13334179 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAG-GTG
*
13334228 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTA
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAG-GTG
13334277 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTG-AAGGTG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGGTG
* *
13334324 TATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAA-GTG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGGTG
* * * * * * *
13334371 TATATATGTGATAGGGCCGAGTGGCCAACGTGATGGATGTGGAA-GTG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGGTG
*
13334418 TATAAATGTGATAAG
1 TATATATGTGATAAG
13334433 TCCCGAAGGG
Statistics
Matches: 193, Mismatches: 11, Indels: 4
0.93 0.05 0.02
Matches are distributed among these distances:
47 99 0.51
48 5 0.03
49 89 0.46
ACGTcount: A:0.31, C:0.08, G:0.31, T:0.29
Consensus pattern (48 bp):
TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGGTG
Found at i:13343771 original size:24 final size:24
Alignment explanation
Indices: 13343744--13343789 Score: 83
Period size: 24 Copynumber: 1.9 Consensus size: 24
13343734 GGTACGAGGC
*
13343744 GTTACCAGGCATGTACTCTAACGG
1 GTTACCAGACATGTACTCTAACGG
13343768 GTTACCAGACATGTACTCTAAC
1 GTTACCAGACATGTACTCTAAC
13343790 ATTTTCAGGA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.28, C:0.26, G:0.20, T:0.26
Consensus pattern (24 bp):
GTTACCAGACATGTACTCTAACGG
Found at i:13347782 original size:27 final size:25
Alignment explanation
Indices: 13347747--13347796 Score: 73
Period size: 25 Copynumber: 1.9 Consensus size: 25
13347737 TTAAGGAACC
13347747 TTAGCGCTCTCTCTGATTATTAGCATG
1 TTAGCGCTCTC-C-GATTATTAGCATG
*
13347774 TTAGTGCTCTCCGATTATTAGCA
1 TTAGCGCTCTCCGATTATTAGCA
13347797 CGCCAGTGCT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
25 11 0.50
26 1 0.05
27 10 0.45
ACGTcount: A:0.20, C:0.22, G:0.18, T:0.40
Consensus pattern (25 bp):
TTAGCGCTCTCCGATTATTAGCATG
Found at i:13347804 original size:25 final size:25
Alignment explanation
Indices: 13347755--13347815 Score: 77
Period size: 25 Copynumber: 2.4 Consensus size: 25
13347745 CCTTAGCGCT
* **
13347755 CTCTCTGATTATTAGCATGTTAGTG
1 CTCTCTGATTATTAGCACGCCAGTG
*
13347780 CTCTCCGATTATTAGCACGCCAGTG
1 CTCTCTGATTATTAGCACGCCAGTG
*
13347805 CTATCTGATTA
1 CTCTCTGATTA
13347816 GCACATTTGC
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 30 1.00
ACGTcount: A:0.21, C:0.23, G:0.18, T:0.38
Consensus pattern (25 bp):
CTCTCTGATTATTAGCACGCCAGTG
Found at i:13351825 original size:46 final size:46
Alignment explanation
Indices: 13351758--13352019 Score: 398
Period size: 46 Copynumber: 5.7 Consensus size: 46
13351748 GGCAACCTGA
13351758 GTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATAAAAT
1 GTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATAAAAT
13351804 GTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATAAAAT
1 GTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATAAAAT
*
13351850 GTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAAT
1 GTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATAAAAT
** *
13351896 GTGTAAGACCATGGTTGAAAGATACCATGGCAATGTGATATGAAAT
1 GTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATAAAAT
*** * * *
13351942 GAACAAGACCATGGTTGAAAGATACCATGGCAACATGACAGAAAAT
1 GTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATAAAAT
* * * *
13351988 GAGTAAGACCATAGTTGAAAGACACTATGGCA
1 GTGTAAGACCATGGTTGAAAGATACCATGGCA
13352020 TCATGTCAAA
Statistics
Matches: 200, Mismatches: 16, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
46 200 1.00
ACGTcount: A:0.40, C:0.15, G:0.23, T:0.22
Consensus pattern (46 bp):
GTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATAAAAT
Found at i:13351950 original size:138 final size:130
Alignment explanation
Indices: 13351708--13352019 Score: 426
Period size: 138 Copynumber: 2.3 Consensus size: 130
13351698 AGTGTGCTCT
*
13351708 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGAGTGTAAGACCATGGT
1 CTGATATAAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGAGTGTAAGACCATGGT
***
13351773 TGAAAGATACCATGGCAACCTGATATAAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
66 TGAAAGATACCATGGCAACCTGATATAAAATGAACAAGACCATGGTTGAAAGATACCATGGCAAC
13351838 CTGATATAAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAATGTGTAAG
1 CTGATATAAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACC-----TG--A-GTGTAAG
** *
13351903 ACCATGGTTGAAAGATACCATGGCAATGTGATATGAAATGAACAAGACCATGGTTGAAAGATACC
58 ACCATGGTTGAAAGATACCATGGCAACCTGATATAAAATGAACAAGACCATGGTTGAAAGATACC
13351968 ATGGCAAC
123 ATGGCAAC
* * * * * * *
13351976 ATGACAGAAAATGAGTAAGACCATAGTTGAAAGACACTATGGCA
1 CTGATATAAAATGTGTAAGACCATGGTTGAAAGATACCATGGCA
13352020 TCATGTCAAA
Statistics
Matches: 160, Mismatches: 14, Indels: 8
0.88 0.08 0.04
Matches are distributed among these distances:
130 46 0.29
135 2 0.01
137 1 0.01
138 111 0.69
ACGTcount: A:0.39, C:0.15, G:0.23, T:0.22
Consensus pattern (130 bp):
CTGATATAAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGAGTGTAAGACCATGGT
TGAAAGATACCATGGCAACCTGATATAAAATGAACAAGACCATGGTTGAAAGATACCATGGCAAC
Found at i:13357102 original size:38 final size:39
Alignment explanation
Indices: 13357049--13357173 Score: 180
Period size: 38 Copynumber: 3.1 Consensus size: 39
13357039 CTGATATGAA
13357049 ATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTG
1 ATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTG
13357088 A-GTGTAAGACCATGGTTGAAAGATACCATGGCAACCTG
1 ATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTG
13357126 ATATAAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTG
1 -------ATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTG
13357172 AT
1 AT
13357174 ATAAAATATG
Statistics
Matches: 78, Mismatches: 0, Indels: 16
0.83 0.00 0.17
Matches are distributed among these distances:
38 37 0.47
39 3 0.04
45 1 0.01
46 37 0.47
ACGTcount: A:0.36, C:0.17, G:0.24, T:0.23
Consensus pattern (39 bp):
ATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTG
Found at i:13357156 original size:46 final size:46
Alignment explanation
Indices: 13357089--13357180 Score: 184
Period size: 46 Copynumber: 2.0 Consensus size: 46
13357079 GGCAACCTGA
13357089 GTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATAAAAT
1 GTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATAAAAT
13357135 GTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATAAAAT
1 GTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATAAAAT
13357181 ATGGCAACCT
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
46 46 1.00
ACGTcount: A:0.39, C:0.15, G:0.22, T:0.24
Consensus pattern (46 bp):
GTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATAAAAT
Found at i:13357186 original size:20 final size:20
Alignment explanation
Indices: 13357161--13357200 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
13357151 GAAAGATACC
13357161 ATGGCAACCTGATATAAAAT
1 ATGGCAACCTGATATAAAAT
*
13357181 ATGGCAACCTGATATGAAAT
1 ATGGCAACCTGATATAAAAT
13357201 GTGTAAGACC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.42, C:0.15, G:0.17, T:0.25
Consensus pattern (20 bp):
ATGGCAACCTGATATAAAAT
Found at i:13357233 original size:46 final size:46
Alignment explanation
Indices: 13357181--13357329 Score: 183
Period size: 46 Copynumber: 3.2 Consensus size: 46
13357171 GATATAAAAT
* *
13357181 ATGGCAACCTGATATGAAATGTGTAAGACCATGGTTGAAAGATACC
1 ATGGCAACATGATATGAAATGAGTAAGACCATGGTTGAAAGATACC
** **
13357227 ATGGCAATGTGATATGAAATGAACAAGACCATGGTTGAAAGATACC
1 ATGGCAACATGATATGAAATGAGTAAGACCATGGTTGAAAGATACC
* * * *
13357273 ATGGCAACATGACA-GAAAATGAGTAAGACCATAGTTGAAAGACACT
1 ATGGCAACATGATATG-AAATGAGTAAGACCATGGTTGAAAGATACC
*
13357319 ATGGCATCATG
1 ATGGCAACATG
13357330 TCAAAGATAA
Statistics
Matches: 88, Mismatches: 14, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
45 1 0.01
46 87 0.99
ACGTcount: A:0.40, C:0.15, G:0.23, T:0.21
Consensus pattern (46 bp):
ATGGCAACATGATATGAAATGAGTAAGACCATGGTTGAAAGATACC
Found at i:13357292 original size:112 final size:112
Alignment explanation
Indices: 13357089--13357292 Score: 327
Period size: 112 Copynumber: 1.8 Consensus size: 112
13357079 GGCAACCTGA
***
13357089 GTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATAAAATGTGTAAGACCATGGTTGAA
1 GTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATAAAATGAACAAGACCATGGTTGAA
* * *
13357154 AGATACCATGGCAACCTGATATAAAATATGGCAACCTGATATGAAAT
66 AGATACCATGGCAACATGACAGAAAATATGGCAACCTGATATGAAAT
** *
13357201 GTGTAAGACCATGGTTGAAAGATACCATGGCAATGTGATATGAAATGAACAAGACCATGGTTGAA
1 GTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATAAAATGAACAAGACCATGGTTGAA
13357266 AGATACCATGGCAACATGACAGAAAAT
66 AGATACCATGGCAACATGACAGAAAAT
13357293 GAGTAAGACC
Statistics
Matches: 83, Mismatches: 9, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
112 83 1.00
ACGTcount: A:0.40, C:0.15, G:0.23, T:0.23
Consensus pattern (112 bp):
GTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATAAAATGAACAAGACCATGGTTGAA
AGATACCATGGCAACATGACAGAAAATATGGCAACCTGATATGAAAT
Found at i:13362489 original size:13 final size:14
Alignment explanation
Indices: 13362464--13362500 Score: 58
Period size: 13 Copynumber: 2.7 Consensus size: 14
13362454 CTAATTTCCA
*
13362464 ATCTAATTAATTTG
1 ATCTAATTGATTTG
13362478 ATC-AATTGATTTG
1 ATCTAATTGATTTG
13362491 ATCTAATTGA
1 ATCTAATTGA
13362501 CCGGTTCAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
13 12 0.57
14 9 0.43
ACGTcount: A:0.35, C:0.08, G:0.11, T:0.46
Consensus pattern (14 bp):
ATCTAATTGATTTG
Found at i:13374173 original size:42 final size:42
Alignment explanation
Indices: 13374095--13374198 Score: 104
Period size: 42 Copynumber: 2.4 Consensus size: 42
13374085 CCTCGATTGA
*
13374095 GATTTACGTATAAGACCATGTCGGGGACATCAGCATC-ATATCT
1 GATTT-CGTGTAAGACCATGTCGGGGACATCAGCATCGATAT-T
* * *
13374138 GATTTCGTGTAAGACCCTGTCTGGGACA-GAGGCATCGATATT
1 GATTTCGTGTAAGACCATGTCGGGGACATCA-GCATCGATATT
* *
13374180 GAATTACCTGTAAGACCAT
1 G-ATTTCGTGTAAGACCAT
13374199 TTTTGGGACG
Statistics
Matches: 51, Mismatches: 7, Indels: 6
0.80 0.11 0.09
Matches are distributed among these distances:
41 1 0.02
42 27 0.53
43 23 0.45
ACGTcount: A:0.29, C:0.20, G:0.23, T:0.28
Consensus pattern (42 bp):
GATTTCGTGTAAGACCATGTCGGGGACATCAGCATCGATATT
Found at i:13381461 original size:42 final size:41
Alignment explanation
Indices: 13381355--13381474 Score: 118
Period size: 43 Copynumber: 2.9 Consensus size: 41
13381345 GTCTGTGACA
* * *
13381355 TTGTGTAAGACCGTGTCTGGGACACAGGCCTCGATTGAGATT
1 TTGTGTAAGACCATGTCTGGGACACAGACATCGATT-AGATT
*
13381397 TATGTATAAGACCATGTCTGGGACATC-GACATCGTATCT-GATT
1 T-TGTGTAAGACCATGTCTGGGACA-CAGACATCG-AT-TAGATT
* * *
13381440 TTGTGTAAGACCCTGTCTGGGACAGAGGCATCGAT
1 TTGTGTAAGACCATGTCTGGGACACAGACATCGAT
13381475 ATTGAATTAC
Statistics
Matches: 65, Mismatches: 8, Indels: 11
0.77 0.10 0.13
Matches are distributed among these distances:
41 2 0.03
42 28 0.43
43 31 0.48
44 3 0.05
45 1 0.02
ACGTcount: A:0.24, C:0.19, G:0.28, T:0.29
Consensus pattern (41 bp):
TTGTGTAAGACCATGTCTGGGACACAGACATCGATTAGATT
Found at i:13388004 original size:23 final size:23
Alignment explanation
Indices: 13387967--13388013 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 23
13387957 TCCATTTTCT
* *
13387967 ATTTAGTTTTATTTTTACTTGTA
1 ATTTAGGTTTATTTTCACTTGTA
* *
13387990 ATTTAGGTTTCTTTTCAGTTGTA
1 ATTTAGGTTTATTTTCACTTGTA
13388013 A
1 A
13388014 GCGTAGTTTA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.21, C:0.06, G:0.13, T:0.60
Consensus pattern (23 bp):
ATTTAGGTTTATTTTCACTTGTA
Found at i:13394243 original size:15 final size:15
Alignment explanation
Indices: 13394223--13394251 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
13394213 GTATTGTTGC
13394223 TTGATAACACAGTGA
1 TTGATAACACAGTGA
13394238 TTGATAACACAGTG
1 TTGATAACACAGTG
13394252 TGTGAAGCAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.38, C:0.14, G:0.21, T:0.28
Consensus pattern (15 bp):
TTGATAACACAGTGA
Found at i:13410549 original size:8 final size:7
Alignment explanation
Indices: 13410526--13410562 Score: 65
Period size: 7 Copynumber: 5.1 Consensus size: 7
13410516 GCCTTAAACT
13410526 AAAATAA
1 AAAATAA
13410533 AAAATAA
1 AAAATAA
13410540 AAAATAA
1 AAAATAA
13410547 AAAATAAA
1 AAAAT-AA
13410555 AAAATAA
1 AAAATAA
13410562 A
1 A
13410563 GTCCATTTAA
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
7 22 0.76
8 7 0.24
ACGTcount: A:0.86, C:0.00, G:0.00, T:0.14
Consensus pattern (7 bp):
AAAATAA
Found at i:13412392 original size:3 final size:3
Alignment explanation
Indices: 13412384--13412462 Score: 149
Period size: 3 Copynumber: 26.0 Consensus size: 3
13412374 ATATTACTAC
13412384 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
13412432 ATT ATT ATT ATT ATT ATT ATT ATT ATAT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT AT-T ATT
13412463 GTCACATTTG
Statistics
Matches: 75, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
3 72 0.96
4 3 0.04
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
ATT
Found at i:13416114 original size:15 final size:15
Alignment explanation
Indices: 13416078--13416127 Score: 61
Period size: 15 Copynumber: 3.5 Consensus size: 15
13416068 CGATGTCCTT
13416078 TTTGCAT-TCATGCA
1 TTTGCATCTCATGCA
13416092 TTTGCATCTCATAGCA
1 TTTGCATCTCAT-GCA
*
13416108 TTT-CATCGCAT-CA
1 TTTGCATCTCATGCA
13416121 TTTGCAT
1 TTTGCAT
13416128 TCAAAGTTAT
Statistics
Matches: 32, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
13 5 0.16
14 10 0.31
15 11 0.34
16 6 0.19
ACGTcount: A:0.22, C:0.24, G:0.12, T:0.42
Consensus pattern (15 bp):
TTTGCATCTCATGCA
Found at i:13423333 original size:59 final size:59
Alignment explanation
Indices: 13423241--13423384 Score: 279
Period size: 59 Copynumber: 2.4 Consensus size: 59
13423231 AAGAATTCAG
13423241 GGTGAAAACCCGCAAAGGGCGCCTTGATTTTTTTTTCTTAAAAAAAATAGAGAGGCCAA
1 GGTGAAAACCCGCAAAGGGCGCCTTGATTTTTTTTTCTTAAAAAAAATAGAGAGGCCAA
*
13423300 GGTGAAAACCCGCAAAGGGCACCTTGATTTTTTTTTCTTAAAAAAAATAGAGAGGCCAA
1 GGTGAAAACCCGCAAAGGGCGCCTTGATTTTTTTTTCTTAAAAAAAATAGAGAGGCCAA
13423359 GGTGAAAACCCGCAAAGGGCGCCTTG
1 GGTGAAAACCCGCAAAGGGCGCCTTG
13423385 TGACCAAAGG
Statistics
Matches: 83, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
59 83 1.00
ACGTcount: A:0.35, C:0.19, G:0.24, T:0.23
Consensus pattern (59 bp):
GGTGAAAACCCGCAAAGGGCGCCTTGATTTTTTTTTCTTAAAAAAAATAGAGAGGCCAA
Found at i:13424402 original size:86 final size:84
Alignment explanation
Indices: 13424304--13424754 Score: 260
Period size: 86 Copynumber: 5.2 Consensus size: 84
13424294 TCTCACACCA
*
13424304 AAGCAGATCCAAGATAACAGATCTGGCATCTCCATTCCGACGGAGAGCAAATACATAGCAGATCT
1 AAGCAGATCCAAGATAACAGATCTGGCATCTCCATTAC-ACGGAGAGCAAATACATAGCAGATCT
13424369 AACCTTCAGATGATTTTACTG
65 AACCTTCAGATG-TTTTACTG
* *** *
13424390 AAGCAGATCCAAGAT----GATTTGGCATTCTTGTGTTTACAAGGA-A-CAAATCGAAGACATAG
1 AAGCAGATCCAAGATAACAGATCTGGCA-TC-T-CCATTACACGGAGAGCAAAT-----ACATAG
* * * * * **
13424449 CAGATTTGACTTTCGGATGTTCTCACACCA
58 CAGATCTAACCTTCAGATGTT-T--TACTG
* *
13424479 AAGCAGATCCAAGATAACAGATCTGGCATCTCCATTTCGACGGAGAGCAGATACATAGCAGATCT
1 AAGCAGATCCAAGATAACAGATCTGGCATCTCCATTAC-ACGGAGAGCAAATACATAGCAGATCT
13424544 AACCTTCAGATGTTTATACTG
65 AACCTTCAGATGTTT-TACTG
* *** *
13424565 AAGCAGATCCAAGAT----GATTTGGCATTCTTGTGTTTACAAGGA-A-CAAATCGAAGACATAG
1 AAGCAGATCCAAGATAACAGATCTGGCA-TC-T-CCATTACACGGAGAGCAAAT-----ACATAG
* * * * * ** *
13424624 AAAATTTGACTTTTGGATGTTCTTACACCG
58 CAGATCTAACCTTCAGATGTT-TT--ACTG
* * * * * *
13424654 AAGCAGATCCAAGATAACAGATCTGGCATCTCTATTTCAACGAAGAGTAGATACATAGTAGATCT
1 AAGCAGATCCAAGATAACAGATCTGGCATCTCCATTAC-ACGGAGAGCAAATACATAGCAGATCT
13424719 AACCTTCAGATGATTTTACTG
65 AACCTTCAGATG-TTTTACTG
13424740 AAGCAGATCCAAGAT
1 AAGCAGATCCAAGAT
13424755 GATTTGGCAT
Statistics
Matches: 269, Mismatches: 59, Indels: 74
0.67 0.15 0.18
Matches are distributed among these distances:
82 25 0.09
83 6 0.02
84 10 0.04
85 6 0.02
86 53 0.20
87 44 0.16
88 44 0.16
89 37 0.14
90 6 0.02
91 9 0.03
92 6 0.02
93 23 0.09
ACGTcount: A:0.35, C:0.20, G:0.19, T:0.26
Consensus pattern (84 bp):
AAGCAGATCCAAGATAACAGATCTGGCATCTCCATTACACGGAGAGCAAATACATAGCAGATCTA
ACCTTCAGATGTTTTACTG
Found at i:13424502 original size:175 final size:175
Alignment explanation
Indices: 13424258--13424812 Score: 916
Period size: 175 Copynumber: 3.2 Consensus size: 175
13424248 TGTCGATGAG
*
13424258 CAAATCGAAGACATAGCAGATCTGACTTTCGGATGTTCTCACACCAAAGCAGATCCAAGATAACA
1 CAAATCGAAGACATAGCAGATTTGACTTTCGGATGTTCTCACACCAAAGCAGATCCAAGATAACA
* *
13424323 GATCTGGCATCTCCATTCCGACGGAGAGCAAATACATAGCAGATCTAACCTTCAGATGATTTTAC
66 GATCTGGCATCTCCATTTCGACGGAGAGCAGATACATAGCAGATCTAACCTTCAGATGATTTTAC
13424388 TGAAGCAGATCCAAGATGATTTGGCATTCTTGTGTTTACAAGGAA
131 TGAAGCAGATCCAAGATGATTTGGCATTCTTGTGTTTACAAGGAA
13424433 CAAATCGAAGACATAGCAGATTTGACTTTCGGATGTTCTCACACCAAAGCAGATCCAAGATAACA
1 CAAATCGAAGACATAGCAGATTTGACTTTCGGATGTTCTCACACCAAAGCAGATCCAAGATAACA
13424498 GATCTGGCATCTCCATTTCGACGGAGAGCAGATACATAGCAGATCTAACCTTCAGATG-TTTATA
66 GATCTGGCATCTCCATTTCGACGGAGAGCAGATACATAGCAGATCTAACCTTCAGATGATTT-TA
13424562 CTGAAGCAGATCCAAGATGATTTGGCATTCTTGTGTTTACAAGGAA
130 CTGAAGCAGATCCAAGATGATTTGGCATTCTTGTGTTTACAAGGAA
* * * * *
13424608 CAAATCGAAGACATAGAAAATTTGACTTTTGGATGTTCTTACACCGAAGCAGATCCAAGATAACA
1 CAAATCGAAGACATAGCAGATTTGACTTTCGGATGTTCTCACACCAAAGCAGATCCAAGATAACA
* * * * *
13424673 GATCTGGCATCTCTATTTCAACGAAGAGTAGATACATAGTAGATCTAACCTTCAGATGATTTTAC
66 GATCTGGCATCTCCATTTCGACGGAGAGCAGATACATAGCAGATCTAACCTTCAGATGATTTTAC
* *
13424738 TGAAGCAGATCCAAGATGATTTGGCA-TCTTTGTGTTCACAAGGAG
131 TGAAGCAGATCCAAGATGATTTGGCATTC-TTGTGTTTACAAGGAA
* * *
13424783 CAAATCGAAGACACAACAGATTTGGCTTTC
1 CAAATCGAAGACATAGCAGATTTGACTTTC
13424813 ATGTGTTACG
Statistics
Matches: 356, Mismatches: 21, Indels: 6
0.93 0.05 0.02
Matches are distributed among these distances:
174 5 0.01
175 348 0.98
176 3 0.01
ACGTcount: A:0.34, C:0.20, G:0.19, T:0.26
Consensus pattern (175 bp):
CAAATCGAAGACATAGCAGATTTGACTTTCGGATGTTCTCACACCAAAGCAGATCCAAGATAACA
GATCTGGCATCTCCATTTCGACGGAGAGCAGATACATAGCAGATCTAACCTTCAGATGATTTTAC
TGAAGCAGATCCAAGATGATTTGGCATTCTTGTGTTTACAAGGAA
Found at i:13424917 original size:86 final size:86
Alignment explanation
Indices: 13424739--13424926 Score: 195
Period size: 86 Copynumber: 2.2 Consensus size: 86
13424729 TGATTTTACT
* * * * * *
13424739 GAAGCAGATCCAAGATGATTTGGCATCTTTGTGTTCACAAGGAGCAAATCGAAGACACAACAGAT
1 GAAGCAGATCAAAGATGATTTGGCATCTCTATATTCACAAGGAACAAATCGAAGAAACAACAGAT
* *
13424804 TTGGCTTTCATGTGTTACGCT
66 TTGGCTCTCATGTGTTACGCA
* ** * *
13424825 GAAGCAGATCTAAGATGATTTGGCATCTCTATATTGTCAGGGAACAAATC-AA-AAAGAAGCAGA
1 GAAGCAGATCAAAGATGATTTGGCATCTCTATATTCACAAGGAACAAATCGAAGAAACAA-CAGA
13424888 TTTGGCATCTC-TGTGTT-CGACA
65 TTTGGC-TCTCATGTGTTACG-CA
13424910 GAGAGCAGATCAAAGAT
1 GA-AGCAGATCAAAGAT
13424927 ATCAACATGA
Statistics
Matches: 85, Mismatches: 13, Indels: 8
0.80 0.12 0.08
Matches are distributed among these distances:
84 6 0.07
85 21 0.25
86 58 0.68
ACGTcount: A:0.34, C:0.17, G:0.23, T:0.26
Consensus pattern (86 bp):
GAAGCAGATCAAAGATGATTTGGCATCTCTATATTCACAAGGAACAAATCGAAGAAACAACAGAT
TTGGCTCTCATGTGTTACGCA
Found at i:13425109 original size:15 final size:15
Alignment explanation
Indices: 13425089--13425119 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
13425079 GCCTTAAACT
*
13425089 AAAATAAAAAAGTAA
1 AAAATAAAAAAATAA
13425104 AAAATAAAAAAATAA
1 AAAATAAAAAAATAA
13425119 A
1 A
13425120 GTCCATTTAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.84, C:0.00, G:0.03, T:0.13
Consensus pattern (15 bp):
AAAATAAAAAAATAA
Found at i:13426604 original size:12 final size:12
Alignment explanation
Indices: 13426589--13426647 Score: 57
Period size: 12 Copynumber: 4.9 Consensus size: 12
13426579 AAAAATTTTC
13426589 TTTTATTATATA
1 TTTTATTATATA
*
13426601 TTTTATTATTTA
1 TTTTATTATATA
* * *
13426613 TATTTATTCTGTT
1 T-TTTATTATATA
*
13426626 TTTTATT-TTTA
1 TTTTATTATATA
13426637 TTTTATTATAT
1 TTTTATTATAT
13426648 TTTATATGTA
Statistics
Matches: 38, Mismatches: 7, Indels: 4
0.78 0.14 0.08
Matches are distributed among these distances:
11 9 0.24
12 20 0.53
13 9 0.24
ACGTcount: A:0.24, C:0.02, G:0.02, T:0.73
Consensus pattern (12 bp):
TTTTATTATATA
Found at i:13426648 original size:16 final size:15
Alignment explanation
Indices: 13426584--13426650 Score: 55
Period size: 16 Copynumber: 4.2 Consensus size: 15
13426574 TTTTAAAAAA
*
13426584 TTTTCTTTTATTATAT
1 TTTTATTTT-TTATAT
*
13426600 ATTTTATTATTTATAT
1 -TTTTATTTTTTATAT
*
13426616 TTATTCTGTTTTT-TAT
1 TT-TTAT-TTTTTATAT
13426632 TTTTATTTTATTATAT
1 TTTTATTTT-TTATAT
13426648 TTT
1 TTT
13426651 ATATGTAAAA
Statistics
Matches: 41, Mismatches: 5, Indels: 9
0.75 0.09 0.16
Matches are distributed among these distances:
14 3 0.07
15 7 0.17
16 20 0.49
17 11 0.27
ACGTcount: A:0.21, C:0.03, G:0.01, T:0.75
Consensus pattern (15 bp):
TTTTATTTTTTATAT
Found at i:13426779 original size:21 final size:21
Alignment explanation
Indices: 13426754--13426796 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 21
13426744 ATTATCGTGC
13426754 ATTAT-TAAATATTGTATTTTA
1 ATTATATAAATATT-TATTTTA
* *
13426775 ATTATATATATATTTTTTTTA
1 ATTATATAAATATTTATTTTA
13426796 A
1 A
13426797 GTTACTCACT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
21 12 0.63
22 7 0.37
ACGTcount: A:0.37, C:0.00, G:0.02, T:0.60
Consensus pattern (21 bp):
ATTATATAAATATTTATTTTA
Found at i:13426935 original size:3 final size:3
Alignment explanation
Indices: 13426927--13426956 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
13426917 ATATTACTAC
13426927 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
13426957 TATATATATT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:13428489 original size:12 final size:12
Alignment explanation
Indices: 13428472--13428496 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
13428462 AAAATAGGCA
13428472 TTTAGTGGCGTT
1 TTTAGTGGCGTT
13428484 TTTAGTGGCGTT
1 TTTAGTGGCGTT
13428496 T
1 T
13428497 GAATGAAAAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.08, C:0.08, G:0.32, T:0.52
Consensus pattern (12 bp):
TTTAGTGGCGTT
Found at i:13428575 original size:40 final size:40
Alignment explanation
Indices: 13428531--13428617 Score: 93
Period size: 41 Copynumber: 2.1 Consensus size: 40
13428521 TACATTAGCA
*
13428531 GCGTTTGAAACAAAACACGGCGAAAAACTGAGCAATAGTG
1 GCGTTTGAAACAAAACACGGCAAAAAACTGAGCAATAGTG
* ** * * * *
13428571 GCGTTTTTATGCAAAACGCTGCAAAAAATTGAGCAGTAGTG
1 GCG-TTTGAAACAAAACACGGCAAAAAACTGAGCAATAGTG
13428612 GCGTTT
1 GCGTTT
13428618 TTATCCAAAA
Statistics
Matches: 38, Mismatches: 8, Indels: 2
0.79 0.17 0.04
Matches are distributed among these distances:
40 6 0.16
41 32 0.84
ACGTcount: A:0.36, C:0.16, G:0.25, T:0.23
Consensus pattern (40 bp):
GCGTTTGAAACAAAACACGGCAAAAAACTGAGCAATAGTG
Found at i:13428587 original size:41 final size:41
Alignment explanation
Indices: 13428541--13428667 Score: 128
Period size: 41 Copynumber: 3.0 Consensus size: 41
13428531 GCGTTTGAAA
* *
13428541 CAAAACACGGCGAAAAACTGAGCAATAGTGGCGTTTTTATG
1 CAAAACACGGCAAAAAACTGAGCAATAGTGGCGTTTTTATC
* * * *
13428582 CAAAACGCTGCAAAAAATTGAGCAGTAGTGGCGTTTTTATC
1 CAAAACACGGCAAAAAACTGAGCAATAGTGGCGTTTTTATC
* * *
13428623 CAAAACGTCGCGAAAAAAAAAACTGAGCAATAGTGGAGTTTTTAT
1 CAAAAC-ACG-G---CAAAAAACTGAGCAATAGTGGCGTTTTTAT
13428668 AAAACCGCTG
Statistics
Matches: 69, Mismatches: 12, Indels: 5
0.80 0.14 0.06
Matches are distributed among these distances:
41 41 0.59
42 1 0.01
43 1 0.01
46 26 0.38
ACGTcount: A:0.39, C:0.16, G:0.22, T:0.24
Consensus pattern (41 bp):
CAAAACACGGCAAAAAACTGAGCAATAGTGGCGTTTTTATC
Found at i:13429186 original size:7 final size:7
Alignment explanation
Indices: 13429174--13429229 Score: 51
Period size: 7 Copynumber: 8.0 Consensus size: 7
13429164 GAATTTTAGC
13429174 CCCTAAA
1 CCCTAAA
13429181 CCCTAAA
1 CCCTAAA
*
13429188 CTCTAAA
1 CCCTAAA
*
13429195 GCCT-AA
1 CCCTAAA
*
13429201 TCCTAAAA
1 CCCT-AAA
*
13429209 CCTTAAA
1 CCCTAAA
13429216 CCCTAAA
1 CCCTAAA
*
13429223 CACTAAA
1 CCCTAAA
13429230 ATATAAAGCC
Statistics
Matches: 39, Mismatches: 8, Indels: 4
0.76 0.16 0.08
Matches are distributed among these distances:
6 5 0.13
7 30 0.77
8 4 0.10
ACGTcount: A:0.45, C:0.34, G:0.02, T:0.20
Consensus pattern (7 bp):
CCCTAAA
Found at i:13429256 original size:21 final size:22
Alignment explanation
Indices: 13429175--13429256 Score: 73
Period size: 21 Copynumber: 3.9 Consensus size: 22
13429165 AATTTTAGCC
*
13429175 CCTAAACCCTAAACTC-TAAAG
1 CCTAAACCCTAAAATCATAAAG
* * * *
13429196 CCT-AATCCTAAAACCTTAAAC
1 CCTAAACCCTAAAATCATAAAG
*
13429217 CCTAAACACTAAAAT-ATAAAG
1 CCTAAACCCTAAAATCATAAAG
*
13429238 CCTAACCCCT-AAATCATAA
1 CCTAAACCCTAAAATCATAA
13429257 CTCATGAGCT
Statistics
Matches: 47, Mismatches: 11, Indels: 6
0.73 0.17 0.09
Matches are distributed among these distances:
20 13 0.28
21 26 0.55
22 8 0.17
ACGTcount: A:0.46, C:0.30, G:0.02, T:0.21
Consensus pattern (22 bp):
CCTAAACCCTAAAATCATAAAG
Found at i:13430479 original size:20 final size:20
Alignment explanation
Indices: 13430434--13430479 Score: 67
Period size: 19 Copynumber: 2.4 Consensus size: 20
13430424 CCCCACCCAA
*
13430434 ATTTCCCCAAATCCCTAACT
1 ATTTCCCCAAATCCCTAAAT
*
13430454 -TTTCCCCTAATCCCTAAAT
1 ATTTCCCCAAATCCCTAAAT
13430473 ATTTCCC
1 ATTTCCC
13430480 AGAATCAAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
19 17 0.74
20 6 0.26
ACGTcount: A:0.26, C:0.39, G:0.00, T:0.35
Consensus pattern (20 bp):
ATTTCCCCAAATCCCTAAAT
Found at i:13430485 original size:20 final size:19
Alignment explanation
Indices: 13430434--13430485 Score: 52
Period size: 19 Copynumber: 2.6 Consensus size: 19
13430424 CCCCACCCAA
*
13430434 ATTTCCCCAAATCCCTAACT
1 ATTT-CCCAAATCCCTAAAT
*
13430454 -TTTCCCCTAATCCCTAAAT
1 ATTT-CCCAAATCCCTAAAT
13430473 ATTTCCCAGAATC
1 ATTTCCCA-AATC
13430486 AAAATTGAAA
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
19 20 0.74
20 7 0.26
ACGTcount: A:0.29, C:0.37, G:0.02, T:0.33
Consensus pattern (19 bp):
ATTTCCCAAATCCCTAAAT
Found at i:13432338 original size:14 final size:14
Alignment explanation
Indices: 13432319--13432345 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
13432309 ACAAAATTTA
13432319 TTCATGTGATTTTT
1 TTCATGTGATTTTT
13432333 TTCATGTGATTTT
1 TTCATGTGATTTT
13432346 CCACATTGTC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.15, C:0.07, G:0.15, T:0.63
Consensus pattern (14 bp):
TTCATGTGATTTTT
Found at i:13432557 original size:27 final size:27
Alignment explanation
Indices: 13432526--13432658 Score: 157
Period size: 27 Copynumber: 5.0 Consensus size: 27
13432516 ATCTTAATGT
*
13432526 TAAATATATATCATATAATAAATTACA
1 TAAATATATATCATATAATAACTTACA
*
13432553 TAAATATATATCATATAATAACTCACA
1 TAAATATATATCATATAATAACTTACA
13432580 TAAATATATATCATATAATAACTTACA
1 TAAATATATATCATATAATAACTTACA
* * **
13432607 TAACT-TACAAAACT-TACATAA--TACA
1 TAAATATATATCA-TATA-ATAACTTACA
*
13432632 TAAATATATATCATATCATAACTTACA
1 TAAATATATATCATATAATAACTTACA
13432659 CAACTTACAT
Statistics
Matches: 88, Mismatches: 12, Indels: 12
0.79 0.11 0.11
Matches are distributed among these distances:
25 13 0.15
26 11 0.12
27 64 0.73
ACGTcount: A:0.52, C:0.14, G:0.00, T:0.35
Consensus pattern (27 bp):
TAAATATATATCATATAATAACTTACA
Found at i:13432609 original size:9 final size:9
Alignment explanation
Indices: 13432597--13432746 Score: 80
Period size: 9 Copynumber: 17.1 Consensus size: 9
13432587 ATATCATATA
13432597 ATAACTTAC
1 ATAACTTAC
13432606 ATAACTTAC
1 ATAACTTAC
*
13432615 AAAACTTAC
1 ATAACTTAC
13432624 ATAA--TAC
1 ATAACTTAC
* *
13432631 ATAA-ATAT
1 ATAACTTAC
* *
13432639 ATATCATATC
1 ATAACTTA-C
13432649 ATAACTTAC
1 ATAACTTAC
*
13432658 ACAACTTAC
1 ATAACTTAC
13432667 ATAA--TAC
1 ATAACTTAC
* *
13432674 ATAA-ATAT
1 ATAACTTAC
* *
13432682 ATATCATATC
1 ATAACTTA-C
13432692 ATAACTTAC
1 ATAACTTAC
* *
13432701 ATACCTTAT
1 ATAACTTAC
* *
13432710 ATAAATGTAT
1 ATAACT-TAC
* *
13432720 ATCA-TAAC
1 ATAACTTAC
13432728 ATAACTTAC
1 ATAACTTAC
13432737 ATAACTTAC
1 ATAACTTAC
13432746 A
1 A
13432747 AAGCTCACTT
Statistics
Matches: 110, Mismatches: 23, Indels: 16
0.74 0.15 0.11
Matches are distributed among these distances:
7 14 0.13
8 14 0.13
9 64 0.58
10 18 0.16
ACGTcount: A:0.48, C:0.18, G:0.01, T:0.33
Consensus pattern (9 bp):
ATAACTTAC
Found at i:13432638 original size:52 final size:55
Alignment explanation
Indices: 13432526--13432680 Score: 178
Period size: 54 Copynumber: 2.9 Consensus size: 55
13432516 ATCTTAATGT
* * * * *
13432526 TAAATATATATCATATAATAAATTACATAA-ATATATATCATATAATAACTCACA
1 TAAATATATATCATATAATAACTTACATAACTTACAAAACATATAATAACTCACA
13432580 TAAATATATATCATATAATAACTTACATAACTTACAAAAC-T-TACATAA-T-ACA
1 TAAATATATATCATATAATAACTTACATAACTTACAAAACATATA-ATAACTCACA
* *
13432632 TAAATATATATCATATCATAACTTACACAACTTACATAATACATA-AATA
1 TAAATATATATCATATAATAACTTACATAACTTACA-AA-ACATATAATA
13432681 TATATCATAT
Statistics
Matches: 88, Mismatches: 7, Indels: 12
0.82 0.07 0.11
Matches are distributed among these distances:
52 37 0.42
53 5 0.06
54 39 0.44
55 7 0.08
ACGTcount: A:0.52, C:0.14, G:0.00, T:0.34
Consensus pattern (55 bp):
TAAATATATATCATATAATAACTTACATAACTTACAAAACATATAATAACTCACA
Found at i:13432653 original size:43 final size:43
Alignment explanation
Indices: 13432605--13432701 Score: 185
Period size: 43 Copynumber: 2.3 Consensus size: 43
13432595 TAATAACTTA
13432605 CATAACTTACAAAACTTACATAATACATAAATATATATCATAT
1 CATAACTTACAAAACTTACATAATACATAAATATATATCATAT
*
13432648 CATAACTTACACAACTTACATAATACATAAATATATATCATAT
1 CATAACTTACAAAACTTACATAATACATAAATATATATCATAT
13432691 CATAACTTACA
1 CATAACTTACA
13432702 TACCTTATAT
Statistics
Matches: 53, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
43 53 1.00
ACGTcount: A:0.49, C:0.19, G:0.00, T:0.32
Consensus pattern (43 bp):
CATAACTTACAAAACTTACATAATACATAAATATATATCATAT
Found at i:13432721 original size:36 final size:36
Alignment explanation
Indices: 13432660--13432744 Score: 120
Period size: 36 Copynumber: 2.4 Consensus size: 36
13432650 TAACTTACAC
* *
13432660 AACTTACATAA--TACATAAATATATATCATATCAT
1 AACTTACATAACTTATATAAATATATATCATAACAT
* *
13432694 AACTTACATACCTTATATAAATGTATATCATAACAT
1 AACTTACATAACTTATATAAATATATATCATAACAT
13432730 AACTTACATAACTTA
1 AACTTACATAACTTA
13432745 CAAAGCTCAC
Statistics
Matches: 44, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
34 10 0.23
36 34 0.77
ACGTcount: A:0.47, C:0.16, G:0.01, T:0.35
Consensus pattern (36 bp):
AACTTACATAACTTATATAAATATATATCATAACAT
Found at i:13435514 original size:40 final size:40
Alignment explanation
Indices: 13435458--13435721 Score: 385
Period size: 40 Copynumber: 6.6 Consensus size: 40
13435448 TGGATGATAA
* *
13435458 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTA-ATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA-T
*
13435498 CCGGG-TATAG-CTCCGAAGGCATTTGTGTGAGTTACTATAT
1 CCGGGCTA-AGTC-CCGAAGGCATTTGTGCGAGTTACTATAT
*
13435538 CCGGGCTAAGT-CCAAAGGCATTTGTGCGAGTTACTATA-
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
13435576 CTCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAC
1 C-CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
13435617 CCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* *
13435657 CCAGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
13435697 CCGGGCTAAGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
13435722 AGCAAGTAGT
Statistics
Matches: 204, Mismatches: 12, Indels: 16
0.88 0.05 0.07
Matches are distributed among these distances:
38 1 0.00
39 38 0.19
40 161 0.79
41 4 0.02
ACGTcount: A:0.24, C:0.22, G:0.27, T:0.27
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:13436020 original size:22 final size:21
Alignment explanation
Indices: 13435979--13436022 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 21
13435969 GAATGTGCAT
13435979 ATATGAAGTTATCCATTTAGCC
1 ATATGAAGTTATCCA-TTAGCC
13436001 ATATGAATGTTATACC-TTAGCC
1 ATATGAA-GTTAT-CCATTAGCC
13436023 GAAACTAATT
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
22 13 0.65
23 5 0.25
24 2 0.10
ACGTcount: A:0.32, C:0.18, G:0.14, T:0.36
Consensus pattern (21 bp):
ATATGAAGTTATCCATTAGCC
Found at i:13446566 original size:27 final size:27
Alignment explanation
Indices: 13446226--13446565 Score: 425
Period size: 27 Copynumber: 12.6 Consensus size: 27
13446216 AAAGTACTCC
13446226 CGATTTACAGAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
* *
13446253 C-AGGTTATAGAATTACCGTTTTACCCT
1 CGA-TTTACAGAATTACCGTTTTACCCT
** *
13446280 CGATTTGTAAAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
13446307 CGATTTACAGAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
**
13446334 C-AGTTTACAGAATTACTATTTTACCCT
1 CGA-TTTACAGAATTACCGTTTTACCCT
*
13446361 CGATTTACAGAATTACTGTTTTACCC-
1 CGATTTACAGAATTACCGTTTTACCCT
* * *
13446387 CTAATTTACATAATTACCGTTTTACCCC
1 C-GATTTACAGAATTACCGTTTTACCCT
* *
13446415 CGATTTACATAATTATCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
*
13446442 CGATTTACAAAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
* *
13446469 CAATTTACAGAATTACCATTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
* ** *
13446496 CGATTTATAGAATTACTATTTCACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
* *
13446523 TGATTTACAGAATTACTGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
*
13446550 CGATTTACAAAATTAC
1 CGATTTACAGAATTAC
13446566 TAAAATACCC
Statistics
Matches: 275, Mismatches: 32, Indels: 12
0.86 0.10 0.04
Matches are distributed among these distances:
26 3 0.01
27 269 0.98
28 3 0.01
ACGTcount: A:0.29, C:0.24, G:0.09, T:0.39
Consensus pattern (27 bp):
CGATTTACAGAATTACCGTTTTACCCT
Found at i:13447905 original size:9 final size:9
Alignment explanation
Indices: 13447893--13447949 Score: 51
Period size: 9 Copynumber: 5.9 Consensus size: 9
13447883 TTTGATAAAC
13447893 ATGATATGT
1 ATGATATGT
*
13447902 ATGATATGCAC
1 ATGATATG--T
*
13447913 ATGACATGT
1 ATGATATGT
*
13447922 ATGATATGCAC
1 ATGATATG--T
13447933 ATGATATGT
1 ATGATATGT
13447942 ATGATATG
1 ATGATATG
13447950 CACACGAGAT
Statistics
Matches: 38, Mismatches: 6, Indels: 8
0.73 0.12 0.15
Matches are distributed among these distances:
9 23 0.61
11 15 0.39
ACGTcount: A:0.35, C:0.09, G:0.21, T:0.35
Consensus pattern (9 bp):
ATGATATGT
Done.