Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr04 98600468
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: 98600468
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 273 characters in sequence are not A, C, G, or T
File 51 of 325
Found at i:13129788 original size:33 final size:33
Alignment explanation
Indices: 13129748--13129859 Score: 103
Period size: 35 Copynumber: 3.5 Consensus size: 33
13129738 TTAGTAAATT
13129748 TTTAGAATTATTTTAAAATTAAATTATTTGTAA
1 TTTAGAATTATTTTAAAATTAAATTATTTGTAA
*
13129781 TTTAGAATTA-TTT--GA-TAAATT-TTTGT--
1 TTTAGAATTATTTTAAAATTAAATTATTTGTAA
* * *
13129807 GTTAGTAATTATTTTAAAATTAATTTATTAGTAA
1 TTTAG-AATTATTTTAAAATTAAATTATTTGTAA
*
13129841 TTTAAGATTATATTTTAAA
1 TTT-AGAAT-TATTTTAAA
13129860 TTATTCTGTT
Statistics
Matches: 62, Mismatches: 7, Indels: 18
0.71 0.08 0.21
Matches are distributed among these distances:
26 4 0.06
27 5 0.08
28 8 0.13
29 6 0.10
30 2 0.03
31 5 0.08
32 7 0.11
33 10 0.16
34 4 0.06
35 11 0.18
ACGTcount: A:0.39, C:0.00, G:0.08, T:0.53
Consensus pattern (33 bp):
TTTAGAATTATTTTAAAATTAAATTATTTGTAA
Found at i:13129791 original size:17 final size:18
Alignment explanation
Indices: 13129748--13129802 Score: 71
Period size: 16 Copynumber: 3.2 Consensus size: 18
13129738 TTAGTAAATT
13129748 TTTAGAATTATTT-TAAA
1 TTTAGAATTATTTGTAAA
*
13129765 ATTA-AATTATTTGT-AA
1 TTTAGAATTATTTGTAAA
13129781 TTTAGAATTATTTGATAAA
1 TTTAGAATTATTTG-TAAA
13129800 TTT
1 TTT
13129803 TTGTGTTAGT
Statistics
Matches: 32, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
16 13 0.41
17 13 0.41
18 1 0.03
19 5 0.16
ACGTcount: A:0.40, C:0.00, G:0.07, T:0.53
Consensus pattern (18 bp):
TTTAGAATTATTTGTAAA
Found at i:13132574 original size:20 final size:21
Alignment explanation
Indices: 13132534--13132590 Score: 93
Period size: 20 Copynumber: 2.9 Consensus size: 21
13132524 GGTTTTGTAT
13132534 TGTAAATTACTTTATTTTTTA
1 TGTAAATTACTTTATTTTTTA
13132555 TGTAAATTACTTTA-TTTTTA
1 TGTAAATTACTTTATTTTTTA
13132575 TGTAAATTA-TTT-TTTT
1 TGTAAATTACTTTATTTT
13132591 GCATTATATT
Statistics
Matches: 35, Mismatches: 0, Indels: 4
0.90 0.00 0.10
Matches are distributed among these distances:
19 6 0.17
20 15 0.43
21 14 0.40
ACGTcount: A:0.28, C:0.04, G:0.05, T:0.63
Consensus pattern (21 bp):
TGTAAATTACTTTATTTTTTA
Found at i:13135704 original size:21 final size:18
Alignment explanation
Indices: 13135654--13135705 Score: 50
Period size: 21 Copynumber: 2.6 Consensus size: 18
13135644 AAATACCTTG
13135654 TTTTTCTTCTTCTTTTCC
1 TTTTTCTTCTTCTTTTCC
13135672 TTTCTTCCCTTCTTCTTTCTCTC
1 TTT-TT--CTTCTTCTTT-TC-C
13135695 TTTTTACTTCT
1 TTTTT-CTTCT
13135706 ACTAATTTTT
Statistics
Matches: 28, Mismatches: 1, Indels: 7
0.78 0.03 0.19
Matches are distributed among these distances:
18 3 0.11
19 2 0.07
21 15 0.54
22 4 0.14
23 4 0.14
ACGTcount: A:0.02, C:0.31, G:0.00, T:0.67
Consensus pattern (18 bp):
TTTTTCTTCTTCTTTTCC
Found at i:13136478 original size:17 final size:17
Alignment explanation
Indices: 13136456--13136488 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
13136446 TCTCCTTTCT
13136456 TTCTTCACTGCTTCACA
1 TTCTTCACTGCTTCACA
13136473 TTCTTCACTGCTTCAC
1 TTCTTCACTGCTTCAC
13136489 TACACGGTCA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.15, C:0.36, G:0.06, T:0.42
Consensus pattern (17 bp):
TTCTTCACTGCTTCACA
Found at i:13136601 original size:3 final size:3
Alignment explanation
Indices: 13136595--13136638 Score: 81
Period size: 3 Copynumber: 15.0 Consensus size: 3
13136585 TTTTTAAAAT
13136595 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A-A ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
13136639 TTAGAAAAAA
Statistics
Matches: 40, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
2 2 0.05
3 38 0.95
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:13139359 original size:10 final size:10
Alignment explanation
Indices: 13139344--13139414 Score: 56
Period size: 10 Copynumber: 6.9 Consensus size: 10
13139334 CATTTGAATT
13139344 TGAATATTTA
1 TGAATATTTA
13139354 TGAATATTTGA
1 TGAATATTT-A
*
13139365 TTGTAGATATATA
1 -TG-A-ATATTTA
** *
13139378 ACAATTTTTA
1 TGAATATTTA
13139388 TGAATA-TT-
1 TGAATATTTA
13139396 TGAATATTTA
1 TGAATATTTA
13139406 TGAATATTT
1 TGAATATTT
13139415 GCAATGAATA
Statistics
Matches: 47, Mismatches: 8, Indels: 12
0.70 0.12 0.18
Matches are distributed among these distances:
8 6 0.13
9 4 0.09
10 26 0.55
11 2 0.04
12 2 0.04
13 2 0.04
14 5 0.11
ACGTcount: A:0.38, C:0.01, G:0.11, T:0.49
Consensus pattern (10 bp):
TGAATATTTA
Found at i:13139364 original size:18 final size:18
Alignment explanation
Indices: 13139341--13139415 Score: 75
Period size: 18 Copynumber: 4.3 Consensus size: 18
13139331 AATCATTTGA
13139341 ATTTGAATATTTATGAAT
1 ATTTGAATATTTATGAAT
*
13139359 ATTTG-AT-TGTA-GATAT
1 ATTTGAATATTTATGA-AT
*** *
13139375 ATAACAATTTTTATGAAT
1 ATTTGAATATTTATGAAT
13139393 ATTTGAATATTTATGAAT
1 ATTTGAATATTTATGAAT
13139411 ATTTG
1 ATTTG
13139416 CAATGAATAA
Statistics
Matches: 44, Mismatches: 9, Indels: 8
0.72 0.15 0.13
Matches are distributed among these distances:
15 2 0.05
16 7 0.16
17 4 0.09
18 29 0.66
19 2 0.05
ACGTcount: A:0.37, C:0.01, G:0.12, T:0.49
Consensus pattern (18 bp):
ATTTGAATATTTATGAAT
Found at i:13139504 original size:14 final size:16
Alignment explanation
Indices: 13139475--13139516 Score: 61
Period size: 14 Copynumber: 2.7 Consensus size: 16
13139465 AATTCACGGA
13139475 TTAGAATAATAAAAAT
1 TTAGAATAATAAAAAT
13139491 TTAGAA-AA-AAAAAT
1 TTAGAATAATAAAAAT
13139505 TTACGAATAATA
1 TTA-GAATAATA
13139517 GTTATAAATT
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
14 9 0.39
15 5 0.22
16 8 0.35
17 1 0.04
ACGTcount: A:0.62, C:0.02, G:0.07, T:0.29
Consensus pattern (16 bp):
TTAGAATAATAAAAAT
Found at i:13140563 original size:57 final size:57
Alignment explanation
Indices: 13140475--13140590 Score: 196
Period size: 57 Copynumber: 2.0 Consensus size: 57
13140465 AAAACTGGAC
* *
13140475 ATGAACAAATCCGACAGTCTCAGATGGCATTGTAAGAAAACTGAACATCCATGTCAA
1 ATGAACAAATCCGACAGACCCAGATGGCATTGTAAGAAAACTGAACATCCATGTCAA
* *
13140532 ATGAACAAATCCGATAGACCCAGATGGCATTGTAAGAAAACTGGACATCCATGTCAA
1 ATGAACAAATCCGACAGACCCAGATGGCATTGTAAGAAAACTGAACATCCATGTCAA
13140589 AT
1 AT
13140591 AAGCAAGAAG
Statistics
Matches: 55, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
57 55 1.00
ACGTcount: A:0.41, C:0.21, G:0.18, T:0.21
Consensus pattern (57 bp):
ATGAACAAATCCGACAGACCCAGATGGCATTGTAAGAAAACTGAACATCCATGTCAA
Found at i:13145808 original size:8 final size:8
Alignment explanation
Indices: 13145797--13145842 Score: 65
Period size: 8 Copynumber: 5.5 Consensus size: 8
13145787 ATTTAAGTAT
13145797 ATAATATA
1 ATAATATA
13145805 ATAATATA
1 ATAATATA
*
13145813 TTAATATA
1 ATAATATA
13145821 ATAATATA
1 ATAATATA
13145829 ATACAATATA
1 AT--AATATA
13145839 ATAA
1 ATAA
13145843 AACATAAAAT
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
8 26 0.76
10 8 0.24
ACGTcount: A:0.61, C:0.02, G:0.00, T:0.37
Consensus pattern (8 bp):
ATAATATA
Found at i:13145821 original size:13 final size:14
Alignment explanation
Indices: 13145794--13145842 Score: 57
Period size: 13 Copynumber: 3.5 Consensus size: 14
13145784 AGTATTTAAG
13145794 TATATAATATAATAA
1 TATATAATATAAT-A
13145809 TATATTAATATAATA
1 TATA-TAATATAATA
*
13145824 -ATATAATACAATA
1 TATATAATATAATA
13145837 TA-ATAA
1 TATATAA
13145843 AACATAAAAT
Statistics
Matches: 31, Mismatches: 1, Indels: 6
0.82 0.03 0.16
Matches are distributed among these distances:
13 13 0.42
14 4 0.13
15 5 0.16
16 9 0.29
ACGTcount: A:0.59, C:0.02, G:0.00, T:0.39
Consensus pattern (14 bp):
TATATAATATAATA
Found at i:13150613 original size:26 final size:25
Alignment explanation
Indices: 13150584--13150650 Score: 75
Period size: 24 Copynumber: 2.6 Consensus size: 25
13150574 TTTTCACTTT
*
13150584 TTTTTCATTTTCTTTTCTTTCTTCCC-
1 TTTTTC-TTTTCTTTTCTCT-TTCCCG
13150610 TTTTTCTTTT-TTTTCTCTTTCCCG
1 TTTTTCTTTTCTTTTCTCTTTCCCG
13150634 TTTTTCCTTTTTCTTTT
1 TTTTT-C-TTTTCTTTT
13150651 GTTATTTCTT
Statistics
Matches: 36, Mismatches: 1, Indels: 7
0.82 0.02 0.16
Matches are distributed among these distances:
23 5 0.14
24 12 0.33
25 5 0.14
26 10 0.28
27 4 0.11
ACGTcount: A:0.01, C:0.24, G:0.01, T:0.73
Consensus pattern (25 bp):
TTTTTCTTTTCTTTTCTCTTTCCCG
Found at i:13151655 original size:16 final size:18
Alignment explanation
Indices: 13151620--13151657 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
13151610 ATCCTTATTT
*
13151620 AAATAAAATACAGTAGTA
1 AAATAAAATACAGAAGTA
13151638 AAATAAAATA-A-AAGTA
1 AAATAAAATACAGAAGTA
13151654 AAAT
1 AAAT
13151658 CCATATAGAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
16 8 0.42
17 1 0.05
18 10 0.53
ACGTcount: A:0.68, C:0.03, G:0.08, T:0.21
Consensus pattern (18 bp):
AAATAAAATACAGAAGTA
Found at i:13161029 original size:123 final size:123
Alignment explanation
Indices: 13160810--13161148 Score: 588
Period size: 123 Copynumber: 2.8 Consensus size: 123
13160800 GAATTATGTG
* *
13160810 AAATGAAATATGGATGTGTAATGATTATTGACATATGTGTGTATGAGTATTTGAATGGTACTCGG
1 AAATGAAATATGGATGTGTAATGATTATTGATATATGTGTGTATGAGTATTTGAATGGTACCCGG
*
13160875 GCTAAGTCCCGAAGGCAATTATGCTAGTGATATGTTTGTGTTTGAGCCTTAGTAACGA
66 GCTAAGTCCCGAAGGCAATTATGCTAGTGATATGTTTGTGTTCGAGCCTTAGTAACGA
13160933 AAATGAAATATGGATGTGTAATGATTATTGATATATGTGTGTATGAGTATTTGAATGGTACCCGG
1 AAATGAAATATGGATGTGTAATGATTATTGATATATGTGTGTATGAGTATTTGAATGGTACCCGG
13160998 GCTAAGTCCCGAAGGCAATTATGCTAGTGATATGTTTGTGTTCGAGCCTTAGTAACGA
66 GCTAAGTCCCGAAGGCAATTATGCTAGTGATATGTTTGTGTTCGAGCCTTAGTAACGA
* * * * *
13161056 AAATGAAATATGGATGTGTAATGATTATTGATTTATGTGTGCATGAGCAATTGAATGATACCCGG
1 AAATGAAATATGGATGTGTAATGATTATTGATATATGTGTGTATGAGTATTTGAATGGTACCCGG
* *
13161121 GCTAAGTCCCGAAGACATTTATGCTAGT
66 GCTAAGTCCCGAAGGCAATTATGCTAGT
13161149 AATTATATCC
Statistics
Matches: 206, Mismatches: 10, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
123 206 1.00
ACGTcount: A:0.30, C:0.11, G:0.25, T:0.34
Consensus pattern (123 bp):
AAATGAAATATGGATGTGTAATGATTATTGATATATGTGTGTATGAGTATTTGAATGGTACCCGG
GCTAAGTCCCGAAGGCAATTATGCTAGTGATATGTTTGTGTTCGAGCCTTAGTAACGA
Found at i:13161172 original size:40 final size:40
Alignment explanation
Indices: 13161117--13161360 Score: 301
Period size: 40 Copynumber: 6.1 Consensus size: 40
13161107 TGAATGATAC
* * * * **
13161117 CCGGGCTAAGTCCCGAAGACATTTATGCTAGTAATTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTGTTATAT
* * * *
13161157 CCGGGTTAAGACCCGAAGGCAATTGTGCTAG-TGACTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTG-TTATAT
*
13161197 CCGGGCTAATACCCGAAGGCATTTGTGCAAGTTGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTGTTATAT
*
13161237 CCGGGCTAATACCCGAAGGCATTTGTGCAAGTTGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTGTTATAT
* *
13161277 CCGGGCTAATACCCGAAGGCATTTGTGCAAGTCGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTGTTATAT
* * ** *
13161317 CCGGGCTAAGACCCGAGGGCATTCGTGCGTGTGGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTGTTATAT
13161357 CCGG
1 CCGG
13161361 TTGTATTCCG
Statistics
Matches: 182, Mismatches: 20, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
40 180 0.99
41 2 0.01
ACGTcount: A:0.25, C:0.21, G:0.27, T:0.27
Consensus pattern (40 bp):
CCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTGTTATAT
Found at i:13167220 original size:21 final size:22
Alignment explanation
Indices: 13167195--13167244 Score: 75
Period size: 22 Copynumber: 2.3 Consensus size: 22
13167185 GGGTACATGG
13167195 CCGTGTGG-AGGGGCAACACGC
1 CCGTGTGGAAGGGGCAACACGC
*
13167216 CCGTGTGGAAGGGGCAACATGC
1 CCGTGTGGAAGGGGCAACACGC
*
13167238 CCATGTG
1 CCGTGTG
13167245 ACCAATTCGA
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
21 8 0.31
22 18 0.69
ACGTcount: A:0.20, C:0.26, G:0.40, T:0.14
Consensus pattern (22 bp):
CCGTGTGGAAGGGGCAACACGC
Found at i:13168266 original size:2 final size:2
Alignment explanation
Indices: 13168261--13168296 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
13168251 ACTCTCATCT
13168261 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
13168297 ACGAATAGGT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:13184102 original size:32 final size:32
Alignment explanation
Indices: 13184066--13184130 Score: 103
Period size: 32 Copynumber: 2.0 Consensus size: 32
13184056 GAAAAAAGAA
* *
13184066 AGTTTTAGATTAGTAGATTTATATATGCGAAC
1 AGTTTCAGATTAGTAGATTTATATACGCGAAC
*
13184098 AGTTTCGGATTAGTAGATTTATATACGCGAAC
1 AGTTTCAGATTAGTAGATTTATATACGCGAAC
13184130 A
1 A
13184131 AGTGTCGAGG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.34, C:0.09, G:0.20, T:0.37
Consensus pattern (32 bp):
AGTTTCAGATTAGTAGATTTATATACGCGAAC
Found at i:13197793 original size:50 final size:50
Alignment explanation
Indices: 13197734--13197963 Score: 240
Period size: 50 Copynumber: 4.7 Consensus size: 50
13197724 AGTCGATTAC
* * *
13197734 TCCCAGACATGTTCTTACACTGACTTTCGTATATCGAG-GCCGATGCCATG
1 TCCCAGACATGGTCTTACACTGACTCTCATATATCG-GTGCCGATGCCATG
* * * * *
13197784 TCCCAGACATGGTCTTACACTGGCCCTCATCTATTGGTGCTGATGCCATG
1 TCCCAGACATGGTCTTACACTGACTCTCATATATCGGTGCCGATGCCATG
* * *
13197834 TCCCAGACATGGTCTTACACTGGCTCTCATCTATCGGTGCCGATGTCATG
1 TCCCAGACATGGTCTTACACTGACTCTCATATATCGGTGCCGATGCCATG
* * * **
13197884 TCCCAAACATGGTCTTACACTGA----AACATATC-AAGCCGATGCCATG
1 TCCCAGACATGGTCTTACACTGACTCTCATATATCGGTGCCGATGCCATG
*
13197929 TCCCAGACATGGTCTTACA-TTAGCTCTCATATATC
1 TCCCAGACATGGTCTTACACTGA-CTCTCATATATC
13197964 CCTAGCATTA
Statistics
Matches: 150, Mismatches: 24, Indels: 13
0.80 0.13 0.07
Matches are distributed among these distances:
44 2 0.01
45 29 0.19
46 5 0.03
49 7 0.05
50 107 0.71
ACGTcount: A:0.23, C:0.29, G:0.19, T:0.29
Consensus pattern (50 bp):
TCCCAGACATGGTCTTACACTGACTCTCATATATCGGTGCCGATGCCATG
Found at i:13200305 original size:43 final size:42
Alignment explanation
Indices: 13200258--13200377 Score: 120
Period size: 43 Copynumber: 2.8 Consensus size: 42
13200248 ACCGAGATGA
*
13200258 GATTACATGTAAGACCATGTCTGGGACATTGGCATC-ATTAAT-C
1 GATTACATGTAAGACCATATCTGGGACA-TGGCATCGA-T-ATGC
* * *
13200301 GATTACATGTAAGA-TACTTTCTGGGACAGTGGCATCGATATGT
1 GATTACATGTAAGACCA-TATCTGGGACA-TGGCATCGATATGC
* *
13200344 GATAACATGTAAGACCATATCTGGGATATGGCAT
1 GATTACATGTAAGACCATATCTGGGACATGGCAT
13200378 TGTACGAGCT
Statistics
Matches: 65, Mismatches: 8, Indels: 9
0.79 0.10 0.11
Matches are distributed among these distances:
42 9 0.14
43 54 0.83
44 2 0.03
ACGTcount: A:0.31, C:0.16, G:0.23, T:0.30
Consensus pattern (42 bp):
GATTACATGTAAGACCATATCTGGGACATGGCATCGATATGC
Found at i:13203258 original size:2 final size:2
Alignment explanation
Indices: 13203251--13203281 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
13203241 ATGGTTTGTG
13203251 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
13203282 AGTTAAAATG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:13205791 original size:23 final size:23
Alignment explanation
Indices: 13205765--13205811 Score: 94
Period size: 23 Copynumber: 2.0 Consensus size: 23
13205755 TATTGAGGCA
13205765 AATGTAAGTTTAACTCTTGATTT
1 AATGTAAGTTTAACTCTTGATTT
13205788 AATGTAAGTTTAACTCTTGATTT
1 AATGTAAGTTTAACTCTTGATTT
13205811 A
1 A
13205812 CTTATTAAGT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.32, C:0.09, G:0.13, T:0.47
Consensus pattern (23 bp):
AATGTAAGTTTAACTCTTGATTT
Found at i:13211483 original size:40 final size:42
Alignment explanation
Indices: 13211406--13211484 Score: 110
Period size: 40 Copynumber: 1.9 Consensus size: 42
13211396 ACAGGGGTTT
*
13211406 TCACACGGCCAGACACACGCCCGTGTCATTAGCCCGTGTCCC
1 TCACACGGCCAGACACACGCCCGTGTCACTAGCCCGTGTCCC
*
13211448 TCACACGG-CA-ACGACACGCCTGTGT-ACTAGCCCGTGT
1 TCACACGGCCAGAC-ACACGCCCGTGTCACTAGCCCGTGT
13211485 GCAAAAACTT
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
40 13 0.38
41 13 0.38
42 8 0.24
ACGTcount: A:0.20, C:0.39, G:0.23, T:0.18
Consensus pattern (42 bp):
TCACACGGCCAGACACACGCCCGTGTCACTAGCCCGTGTCCC
Found at i:13212513 original size:47 final size:45
Alignment explanation
Indices: 13212422--13212592 Score: 139
Period size: 47 Copynumber: 3.7 Consensus size: 45
13212412 TGGGTAAGGT
* **
13212422 GCCGATGCCATGTCCCATACATGGTCTTACGTTGGCTCAT-ATCTCAA
1 GCCGATG-CATGTCCCAGACATGGTCTTACACT-GCT-ATCATCTCAA
* * *
13212469 GTCGATGCCATGTCCCAGACATGGTCTTACACTAACTATCATCTCGTA
1 GCCGATG-CATGTCCCAGACATGGTCTTACACT-GCTATCATCTC-AA
* * ** * *
13212517 GCCAATGCATGTCCTAGACAT-GTAGTACACTGGTTTACATCTCAA
1 GCCGATGCATGTCCCAGACATGGTCTTACACTGCTAT-CATCTCAA
*
13212562 GGCCGATGCATGTCCTAGACATGGTCTTACA
1 -GCCGATGCATGTCCCAGACATGGTCTTACA
13212593 TTAGCTCTCA
Statistics
Matches: 100, Mismatches: 19, Indels: 10
0.78 0.15 0.08
Matches are distributed among these distances:
45 3 0.03
46 36 0.36
47 55 0.55
48 6 0.06
ACGTcount: A:0.25, C:0.27, G:0.19, T:0.29
Consensus pattern (45 bp):
GCCGATGCATGTCCCAGACATGGTCTTACACTGCTATCATCTCAA
Found at i:13219619 original size:46 final size:45
Alignment explanation
Indices: 13219484--13219745 Score: 193
Period size: 46 Copynumber: 5.6 Consensus size: 45
13219474 GTAAGGTGCT
* * * * * *
13219484 GATGCCATGACCCAGACATGGTCTTACACTGG-TTCATATCTCAAGTC
1 GATG-CATGTCCCAGACAT-GTCTTACACTGGCTTCGTCT-TGAGGCC
* ** * *
13219531 GATGCCATGTCCCAAACATGGTCTTACACTGAATATCATCTTGTGGCC
1 GATG-CATGTCCCAGACAT-GTCTTACACTGGCT-TCGTCTTGAGGCC
*
13219579 GATGCATGTGCCAGACATGTCTTACACTGGCTTACGTCTTGAGGCC
1 GATGCATGTCCCAGACATGTCTTACACTGGCTT-CGTCTTGAGGCC
* * * * * ** *
13219625 GATGCATGTCCCAAACATCTCTTACAGTAGCTCCGTCTCAAGGTC
1 GATGCATGTCCCAGACATGTCTTACACTGGCTTCGTCTTGAGGCC
* ** *
13219670 GATGTCATGTCCCAGACATGGTCTTACACTGGCTCTCATAATGTGGCC
1 GATG-CATGTCCCAGACAT-GTCTTACACTGGCT-TCGTCTTGAGGCC
* *
13219718 AATGCATGTCCCAGGCATGTCTTACACT
1 GATGCATGTCCCAGACATGTCTTACACT
13219746 ACCCACCAAT
Statistics
Matches: 172, Mismatches: 37, Indels: 13
0.77 0.17 0.06
Matches are distributed among these distances:
45 14 0.08
46 72 0.42
47 65 0.38
48 16 0.09
49 5 0.03
ACGTcount: A:0.23, C:0.28, G:0.21, T:0.28
Consensus pattern (45 bp):
GATGCATGTCCCAGACATGTCTTACACTGGCTTCGTCTTGAGGCC
Found at i:13226670 original size:47 final size:45
Alignment explanation
Indices: 13226601--13226772 Score: 195
Period size: 47 Copynumber: 3.7 Consensus size: 45
13226591 TGGGTCAGGT
* *
13226601 GTCGATGCCATGTCCCAGACATGGTCTTACAC-CAGCTCATATCTC-AA
1 GTCGATG-CATGTCCCAGACAT-GTCTTACACTGA-CT-ATATCTCGAG
*
13226648 GTCGATGCCATGTCCCAGACATGGTCTTACACTGACTATCATCTCGTG
1 GTCGATG-CATGTCCCAGACAT-GTCTTACACTGACTAT-ATCTCGAG
* * *
13226696 GTCAATGCATGTCCTAGACATGTCTTACACTGACTTATGTCTCGAG
1 GTCGATGCATGTCCCAGACATGTCTTACACTGAC-TATATCTCGAG
*
13226742 GCCGATGCATGTCCCAGACATGTCTTACACT
1 GTCGATGCATGTCCCAGACATGTCTTACACT
13226773 ACCCAACAAT
Statistics
Matches: 111, Mismatches: 10, Indels: 9
0.85 0.08 0.07
Matches are distributed among these distances:
46 49 0.44
47 55 0.50
48 7 0.06
ACGTcount: A:0.23, C:0.29, G:0.19, T:0.28
Consensus pattern (45 bp):
GTCGATGCATGTCCCAGACATGTCTTACACTGACTATATCTCGAG
Found at i:13226739 original size:46 final size:46
Alignment explanation
Indices: 13226609--13226772 Score: 165
Period size: 46 Copynumber: 3.5 Consensus size: 46
13226599 GTGTCGATGC
* * * *
13226609 CATGTCCCAGACATGGTCTTACAC-CAGCTCAT-ATCTC-AAGTCGATG
1 CATGTCCCAGACAT-GTCTTACACTGA-CT-ATCATCTCGAGGCCAATG
* *
13226655 CCATGTCCCAGACATGGTCTTACACTGACTATCATCTCGTGGTCAATG
1 -CATGTCCCAGACAT-GTCTTACACTGACTATCATCTCGAGGCCAATG
* * *
13226703 CATGTCCTAGACATGTCTTACACTGACTTAT-GTCTCGAGGCCGATG
1 CATGTCCCAGACATGTCTTACACTGAC-TATCATCTCGAGGCCAATG
13226749 CATGTCCCAGACATGTCTTACACT
1 CATGTCCCAGACATGTCTTACACT
13226773 ACCCAACAAT
Statistics
Matches: 103, Mismatches: 10, Indels: 9
0.84 0.08 0.07
Matches are distributed among these distances:
46 49 0.48
47 47 0.46
48 7 0.07
ACGTcount: A:0.24, C:0.29, G:0.18, T:0.29
Consensus pattern (46 bp):
CATGTCCCAGACATGTCTTACACTGACTATCATCTCGAGGCCAATG
Found at i:13227852 original size:21 final size:21
Alignment explanation
Indices: 13227828--13227873 Score: 92
Period size: 21 Copynumber: 2.2 Consensus size: 21
13227818 CACTAACATA
13227828 ATGAGTCAACAAGAACTACTT
1 ATGAGTCAACAAGAACTACTT
13227849 ATGAGTCAACAAGAACTACTT
1 ATGAGTCAACAAGAACTACTT
13227870 ATGA
1 ATGA
13227874 CCTTACATTC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.43, C:0.17, G:0.15, T:0.24
Consensus pattern (21 bp):
ATGAGTCAACAAGAACTACTT
Found at i:13229471 original size:21 final size:21
Alignment explanation
Indices: 13229445--13229491 Score: 67
Period size: 21 Copynumber: 2.2 Consensus size: 21
13229435 CCCGTGTGAC
* *
13229445 TCACACAGCCGTGTCGTTAGA
1 TCACACAGCCATGTCGCTAGA
*
13229466 TCACACAGCCATGTCGCTAGG
1 TCACACAGCCATGTCGCTAGA
13229487 TCACA
1 TCACA
13229492 TGGCTGTGTT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.26, C:0.32, G:0.21, T:0.21
Consensus pattern (21 bp):
TCACACAGCCATGTCGCTAGA
Found at i:13230411 original size:39 final size:40
Alignment explanation
Indices: 13230362--13230445 Score: 125
Period size: 39 Copynumber: 2.1 Consensus size: 40
13230352 TATCAATCAA
* *
13230362 TTTATCAATATCATTCAGTAGCAGTCAATCATTCAGAACC
1 TTTATCAATATCATTCAGTAACAATCAATCATTCAGAACC
* *
13230402 TTTAT-AATATCATTCAGTAACAATCAGTCATTCAGTACC
1 TTTATCAATATCATTCAGTAACAATCAATCATTCAGAACC
13230441 TTTAT
1 TTTAT
13230446 TTACCCCTAT
Statistics
Matches: 40, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
39 35 0.88
40 5 0.12
ACGTcount: A:0.35, C:0.20, G:0.08, T:0.37
Consensus pattern (40 bp):
TTTATCAATATCATTCAGTAACAATCAATCATTCAGAACC
Found at i:13236470 original size:27 final size:28
Alignment explanation
Indices: 13236414--13236483 Score: 124
Period size: 27 Copynumber: 2.5 Consensus size: 28
13236404 AAACTTGTAC
13236414 AGCACTAAGTGTGCGAGTTTGATCATAT
1 AGCACTAAGTGTGCGAGTTTGATCATAT
*
13236442 AGCACTAAGTGTGCGAG-TTGATTATAT
1 AGCACTAAGTGTGCGAGTTTGATCATAT
13236469 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
13236484 GACTCACTAT
Statistics
Matches: 41, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 24 0.59
28 17 0.41
ACGTcount: A:0.29, C:0.14, G:0.27, T:0.30
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAGTTTGATCATAT
Found at i:13236494 original size:27 final size:27
Alignment explanation
Indices: 13236414--13236495 Score: 78
Period size: 27 Copynumber: 3.0 Consensus size: 27
13236404 AAACTTGTAC
* *
13236414 AGCACTAAGTGTGCGAGTTTGA-TCATAT
1 AGCACTAAGTGTGCGAG-CTCACT-ATAT
* * *
13236442 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGAGCTCACTATAT
13236469 AGCACTAAGTGTGCG-GACTCACTATAT
1 AGCACTAAGTGTGCGAG-CTCACTATAT
13236496 GCTTTTGAAT
Statistics
Matches: 49, Mismatches: 3, Indels: 5
0.86 0.05 0.09
Matches are distributed among these distances:
26 1 0.02
27 30 0.61
28 18 0.37
ACGTcount: A:0.29, C:0.16, G:0.24, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGAGCTCACTATAT
Found at i:13244455 original size:27 final size:28
Alignment explanation
Indices: 13244399--13244468 Score: 124
Period size: 27 Copynumber: 2.5 Consensus size: 28
13244389 AAACTTGTAC
13244399 AGCACTAAGTGTGCGAGTTTGATCATAT
1 AGCACTAAGTGTGCGAGTTTGATCATAT
*
13244427 AGCACTAAGTGTGCGAG-TTGATTATAT
1 AGCACTAAGTGTGCGAGTTTGATCATAT
13244454 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
13244469 GACTCACTAT
Statistics
Matches: 41, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 24 0.59
28 17 0.41
ACGTcount: A:0.29, C:0.14, G:0.27, T:0.30
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAGTTTGATCATAT
Found at i:13244479 original size:27 final size:27
Alignment explanation
Indices: 13244399--13244480 Score: 78
Period size: 27 Copynumber: 3.0 Consensus size: 27
13244389 AAACTTGTAC
* *
13244399 AGCACTAAGTGTGCGAGTTTGA-TCATAT
1 AGCACTAAGTGTGCGAG-CTCACT-ATAT
* * *
13244427 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGAGCTCACTATAT
13244454 AGCACTAAGTGTGCG-GACTCACTATAT
1 AGCACTAAGTGTGCGAG-CTCACTATAT
13244481 GCTTTTGAAT
Statistics
Matches: 49, Mismatches: 3, Indels: 5
0.86 0.05 0.09
Matches are distributed among these distances:
26 1 0.02
27 30 0.61
28 18 0.37
ACGTcount: A:0.29, C:0.16, G:0.24, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGAGCTCACTATAT
Found at i:13266469 original size:16 final size:15
Alignment explanation
Indices: 13266443--13266474 Score: 55
Period size: 16 Copynumber: 2.1 Consensus size: 15
13266433 GCTAGATCGG
13266443 CAAAAGCCGAAAAGC
1 CAAAAGCCGAAAAGC
13266458 CAAAATGCCGAAAAGC
1 CAAAA-GCCGAAAAGC
13266474 C
1 C
13266475 GGTATTTTGG
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 5 0.31
16 11 0.69
ACGTcount: A:0.50, C:0.28, G:0.19, T:0.03
Consensus pattern (15 bp):
CAAAAGCCGAAAAGC
Found at i:13266761 original size:28 final size:28
Alignment explanation
Indices: 13266721--13266813 Score: 161
Period size: 28 Copynumber: 3.3 Consensus size: 28
13266711 ATGTACTAGA
13266721 ATACCCCTATGTATGCAAAATTACCATT
1 ATACCCCTATGTATGCAAAATTACCATT
13266749 ATACCCCTATGTATGCAAAATTACCATT
1 ATACCCCTATGTATGCAAAATTACCATT
*
13266777 ATACCCCTATGTATGCAAAATGACC-TCT
1 ATACCCCTATGTATGCAAAATTACCAT-T
13266805 ATACCCCTA
1 ATACCCCTA
13266814 GGGTTAATTT
Statistics
Matches: 63, Mismatches: 1, Indels: 2
0.95 0.02 0.03
Matches are distributed among these distances:
27 1 0.02
28 62 0.98
ACGTcount: A:0.34, C:0.28, G:0.08, T:0.30
Consensus pattern (28 bp):
ATACCCCTATGTATGCAAAATTACCATT
Found at i:13266977 original size:27 final size:27
Alignment explanation
Indices: 13266919--13267000 Score: 112
Period size: 28 Copynumber: 3.0 Consensus size: 27
13266909 AGGAAGCGTC
13266919 CTGGTGGCTA-TGCCACAAATTATCTGTT
1 CTGGTGGC-ACTGCCACAAA-TATCTGTT
* *
13266947 CTGGTGGCCCTGCCACATATATCTGTT
1 CTGGTGGCACTGCCACAAATATCTGTT
13266974 CTGGTGGCACTGCCACAAAATATCTGT
1 CTGGTGGCACTGCCAC-AAATATCTGT
13267001 ATTTGGTGAC
Statistics
Matches: 48, Mismatches: 4, Indels: 4
0.86 0.07 0.07
Matches are distributed among these distances:
27 23 0.48
28 25 0.52
ACGTcount: A:0.21, C:0.26, G:0.22, T:0.32
Consensus pattern (27 bp):
CTGGTGGCACTGCCACAAATATCTGTT
Found at i:13267019 original size:29 final size:28
Alignment explanation
Indices: 13266929--13267019 Score: 94
Period size: 27 Copynumber: 3.2 Consensus size: 28
13266919 CTGGTGGCTA
* * *
13266929 TGCCACAAATTATCTGTTCTGGTGGCCC
1 TGCCACAAAATATCTGTTCTGGTGACAC
* *
13266957 TGCCAC-ATATATCTGTTCTGGTGGCAC
1 TGCCACAAAATATCTGTTCTGGTGACAC
* *
13266984 TGCCACAAAATATCTGTATTTGGTGACTC
1 TGCCACAAAATATCTGT-TCTGGTGACAC
*
13267013 TGTCACA
1 TGCCACA
13267020 TTTTCTGTAT
Statistics
Matches: 53, Mismatches: 8, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
27 24 0.45
28 15 0.28
29 14 0.26
ACGTcount: A:0.22, C:0.25, G:0.20, T:0.33
Consensus pattern (28 bp):
TGCCACAAAATATCTGTTCTGGTGACAC
Found at i:13267027 original size:55 final size:56
Alignment explanation
Indices: 13266919--13267034 Score: 139
Period size: 55 Copynumber: 2.1 Consensus size: 56
13266909 AGGAAGCGTC
* *
13266919 CTGGTGGCTATGCCACAAATTATCTGTTCTGGTGGCCCTGCCACATATATCTGT-T
1 CTGGTGGCTATGCCACAAAATATCTGTTCTGGTGACCCTGCCACATATATCTGTAT
* * * *
13266974 CTGGTGGC-ACTGCCACAAAATATCTGTATTTGGTGACTCTGTCACAT-TTTCTGTAT
1 CTGGTGGCTA-TGCCACAAAATATCTGT-TCTGGTGACCCTGCCACATATATCTGTAT
13267030 CTGGT
1 CTGGT
13267035 AGCCATGCTG
Statistics
Matches: 52, Mismatches: 6, Indels: 5
0.83 0.10 0.08
Matches are distributed among these distances:
54 1 0.02
55 30 0.58
56 21 0.40
ACGTcount: A:0.19, C:0.23, G:0.22, T:0.36
Consensus pattern (56 bp):
CTGGTGGCTATGCCACAAAATATCTGTTCTGGTGACCCTGCCACATATATCTGTAT
Found at i:13269007 original size:39 final size:39
Alignment explanation
Indices: 13268953--13269078 Score: 216
Period size: 39 Copynumber: 3.2 Consensus size: 39
13268943 TTCAGTGATG
13268953 TATATCCGGACTTAGGGTCCGCAGGCTATGTGCTGGAAT
1 TATATCCGGACTTAGGGTCCGCAGGCTATGTGCTGGAAT
13268992 TATATCCGGACTTAGGGTCCGCAGGCTATGTGCTGGAAT
1 TATATCCGGACTTAGGGTCCGCAGGCTATGTGCTGGAAT
* * *
13269031 TATATCCGGACTTAAGGTCCGCAGGCTACGTGCTGGAAA
1 TATATCCGGACTTAGGGTCCGCAGGCTATGTGCTGGAAT
*
13269070 TATGTCCGG
1 TATATCCGG
13269079 GCTAAAGTCC
Statistics
Matches: 83, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
39 83 1.00
ACGTcount: A:0.21, C:0.21, G:0.30, T:0.27
Consensus pattern (39 bp):
TATATCCGGACTTAGGGTCCGCAGGCTATGTGCTGGAAT
Found at i:13269092 original size:39 final size:39
Alignment explanation
Indices: 13268953--13269116 Score: 206
Period size: 39 Copynumber: 4.2 Consensus size: 39
13268943 TTCAGTGATG
* *
13268953 TATATCCGGACTTAGGGTCCGCAGGCTATGTGCTGGAAT
1 TATATCCGGACTTAAGGTCCGCAGGCTACGTGCTGGAAT
* *
13268992 TATATCCGGACTTAGGGTCCGCAGGCTATGTGCTGGAAT
1 TATATCCGGACTTAAGGTCCGCAGGCTACGTGCTGGAAT
*
13269031 TATATCCGGACTTAAGGTCCGCAGGCTACGTGCTGGAAA
1 TATATCCGGACTTAAGGTCCGCAGGCTACGTGCTGGAAT
* * * * * *
13269070 TATGTCCGGGC-TAAAGTCCCGCAGGCTTCGAGCTGGTAT
1 TATATCCGGACTTAAGGT-CCGCAGGCTACGTGCTGGAAT
13269109 TATA-CCGG
1 TATATCCGG
13269117 GTTTAAATTC
Statistics
Matches: 113, Mismatches: 11, Indels: 3
0.89 0.09 0.02
Matches are distributed among these distances:
38 9 0.08
39 104 0.92
ACGTcount: A:0.21, C:0.23, G:0.30, T:0.26
Consensus pattern (39 bp):
TATATCCGGACTTAAGGTCCGCAGGCTACGTGCTGGAAT
Found at i:13269131 original size:78 final size:78
Alignment explanation
Indices: 13268953--13269143 Score: 201
Period size: 78 Copynumber: 2.5 Consensus size: 78
13268943 TTCAGTGATG
** * **
13268953 TATATCCGGACTTAGGGTCCGCAGGCTATGTGCTGGAATTATATCCGGACTTAGGGTCCGCAGGC
1 TATATCCGGACTTAAAGTCCGCAGGCTATGTGCTGGAAATATATCCGGACTTAAAGTCCGCAGGC
*
13269018 TATGTGCTGGAAT
66 TATGAGCTGGAAT
* * * *
13269031 TATATCCGGACTTAAGGTCCGCAGGCTACGTGCTGGAAATATGTCCGGGC-TAAAGTCCCGCAGG
1 TATATCCGGACTTAAAGTCCGCAGGCTATGTGCTGGAAATATATCCGGACTTAAAGT-CCGCAGG
*
13269095 CT-TCGAGCTGGTAT
65 CTAT-GAGCTGGAAT
** *
13269109 TATA-CCGGGTTTAAATTCCCGCAGGCT-TGTGCTGG
1 TATATCCGGACTTAAAGT-CCGCAGGCTATGTGCTGG
13269144 TAATTGGTTT
Statistics
Matches: 96, Mismatches: 14, Indels: 7
0.82 0.12 0.06
Matches are distributed among these distances:
77 21 0.22
78 75 0.78
ACGTcount: A:0.20, C:0.23, G:0.30, T:0.27
Consensus pattern (78 bp):
TATATCCGGACTTAAAGTCCGCAGGCTATGTGCTGGAAATATATCCGGACTTAAAGTCCGCAGGC
TATGAGCTGGAAT
Found at i:13269143 original size:38 final size:38
Alignment explanation
Indices: 13268971--13269148 Score: 148
Period size: 39 Copynumber: 4.6 Consensus size: 38
13268961 GACTTAGGGT
* **
13268971 CCGCAGGCTATGTGCTGGAATTATATCCGGACTTAGGGT-
1 CCGCAGGCTATGTGCTGGAATTATA-CCGG-GTTAAAGTC
* *
13269010 CCGCAGGCTATGTGCTGGAATTATATCCGGACTTAAGGT-
1 CCGCAGGCTATGTGCTGGAATTATA-CCGG-GTTAAAGTC
* * * *
13269049 CCGCAGGCTACGTGCTGGAAATATGTCCGGGCTAAAGTC
1 CCGCAGGCTATGTGCTGGAATTAT-ACCGGGTTAAAGTC
* * *
13269088 CCGCAGGCT-TCGAGCTGGTATTATACCGGGTTTAAATTC
1 CCGCAGGCTAT-GTGCTGGAATTATACCGGG-TTAAAGTC
13269127 CCGCAGGCT-TGTGCTGGTAATT
1 CCGCAGGCTATGTGCTGG-AATT
13269149 GGTTTCAAGT
Statistics
Matches: 118, Mismatches: 16, Indels: 10
0.82 0.11 0.07
Matches are distributed among these distances:
38 16 0.14
39 102 0.86
ACGTcount: A:0.21, C:0.22, G:0.29, T:0.28
Consensus pattern (38 bp):
CCGCAGGCTATGTGCTGGAATTATACCGGGTTAAAGTC
Found at i:13271441 original size:18 final size:18
Alignment explanation
Indices: 13271418--13271457 Score: 80
Period size: 18 Copynumber: 2.2 Consensus size: 18
13271408 AGACTTTATC
13271418 TGTTGAGTCTACTGAGTT
1 TGTTGAGTCTACTGAGTT
13271436 TGTTGAGTCTACTGAGTT
1 TGTTGAGTCTACTGAGTT
13271454 TGTT
1 TGTT
13271458 ATTCGAGTGA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.15, C:0.10, G:0.28, T:0.47
Consensus pattern (18 bp):
TGTTGAGTCTACTGAGTT
Found at i:13276906 original size:39 final size:39
Alignment explanation
Indices: 13276848--13277004 Score: 142
Period size: 39 Copynumber: 4.0 Consensus size: 39
13276838 TTCAGTGATG
*
13276848 TATATCCGGACTTAGGGTCCGCAGGCTATGTGCTGGAAT
1 TATATCCGGACTTAAGGTCCGCAGGCTATGTGCTGGAAT
* *
13276887 TATATCTGGACTTAAGGTCCGCAGGCTATGTGCTGGAAA
1 TATATCCGGACTTAAGGTCCGCAGGCTATGTGCTGGAAT
* * * * *
13276926 TATGTCCGGGC-TAAAGTCCCGCAGGCT-TCGAGCTGGTAT
1 TATATCCGGACTTAAGGT-CCGCAGGCTAT-GTGCTGGAAT
** **
13276965 TATA-CCGGGTTTAAATTCCCGCAGGCT-TGTGCTGGTAAT
1 TATATCCGGACTTAAGGT-CCGCAGGCTATGTGCTGG-AAT
13277004 T
1 T
13277005 GGTTTCAAGT
Statistics
Matches: 99, Mismatches: 15, Indels: 8
0.81 0.12 0.07
Matches are distributed among these distances:
38 17 0.17
39 82 0.83
ACGTcount: A:0.21, C:0.21, G:0.29, T:0.29
Consensus pattern (39 bp):
TATATCCGGACTTAAGGTCCGCAGGCTATGTGCTGGAAT
Found at i:13281067 original size:12 final size:12
Alignment explanation
Indices: 13281050--13281075 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
13281040 TTATTTTTAA
13281050 AATTCATTACTT
1 AATTCATTACTT
13281062 AATTCATTACTT
1 AATTCATTACTT
13281074 AA
1 AA
13281076 ACAGCTCAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.38, C:0.15, G:0.00, T:0.46
Consensus pattern (12 bp):
AATTCATTACTT
Found at i:13286178 original size:39 final size:39
Alignment explanation
Indices: 13286135--13286215 Score: 144
Period size: 39 Copynumber: 2.1 Consensus size: 39
13286125 GACAATTTGG
13286135 CTGCTAGGTATAAACCTGAACTTAACACCGGCACGAGGC
1 CTGCTAGGTATAAACCTGAACTTAACACCGGCACGAGGC
* *
13286174 CTGCTAGGTATAAACCTGAATTTATCACCGGCACGAGGC
1 CTGCTAGGTATAAACCTGAACTTAACACCGGCACGAGGC
13286213 CTG
1 CTG
13286216 TTAGACATTA
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
39 40 1.00
ACGTcount: A:0.28, C:0.27, G:0.23, T:0.21
Consensus pattern (39 bp):
CTGCTAGGTATAAACCTGAACTTAACACCGGCACGAGGC
Found at i:13293048 original size:41 final size:41
Alignment explanation
Indices: 13292929--13293061 Score: 169
Period size: 41 Copynumber: 3.3 Consensus size: 41
13292919 GTTTGCAATA
* * **
13292929 AAACGCCGCAAAAAACTGGGCAATAGCGGCGTTTTTTATCC
1 AAACGCCGCTAAAAACTGAGCAATAGCGGCGTTTTTGGTCC
* *
13292970 AAACGCTGTTAAAAACTGAGCAATAGCGGCGTTTTTGGTCC
1 AAACGCCGCTAAAAACTGAGCAATAGCGGCGTTTTTGGTCC
* * **
13293011 AAACGCCGCTAAAAACTGAACAATAGCGGCGCTTTTGG-AA
1 AAACGCCGCTAAAAACTGAGCAATAGCGGCGTTTTTGGTCC
13293051 AAACGCCGCTA
1 AAACGCCGCTA
13293062 TAGGTCGAGG
Statistics
Matches: 80, Mismatches: 12, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
40 11 0.14
41 69 0.86
ACGTcount: A:0.33, C:0.23, G:0.23, T:0.21
Consensus pattern (41 bp):
AAACGCCGCTAAAAACTGAGCAATAGCGGCGTTTTTGGTCC
Found at i:13293656 original size:14 final size:14
Alignment explanation
Indices: 13293639--13293677 Score: 51
Period size: 14 Copynumber: 2.8 Consensus size: 14
13293629 AATGTTTATT
*
13293639 GTTTTTGGTTTAGA
1 GTTTATGGTTTAGA
*
13293653 GTTTATGATTTAGA
1 GTTTATGGTTTAGA
*
13293667 GTTTGTGGTTT
1 GTTTATGGTTT
13293678 TTTGGTTTAC
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.15, C:0.00, G:0.28, T:0.56
Consensus pattern (14 bp):
GTTTATGGTTTAGA
Found at i:13293867 original size:20 final size:20
Alignment explanation
Indices: 13293844--13293894 Score: 57
Period size: 20 Copynumber: 2.5 Consensus size: 20
13293834 AATATATACA
13293844 TTTAGGGTTTAGGATATAGG
1 TTTAGGGTTTAGGATATAGG
** * * *
13293864 TTTATAGTTTGGGGTTTAGG
1 TTTAGGGTTTAGGATATAGG
13293884 TTTAGGGTTTA
1 TTTAGGGTTTA
13293895 CTATTGGAAA
Statistics
Matches: 23, Mismatches: 8, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.20, C:0.00, G:0.33, T:0.47
Consensus pattern (20 bp):
TTTAGGGTTTAGGATATAGG
Found at i:13293886 original size:13 final size:13
Alignment explanation
Indices: 13293844--13293894 Score: 50
Period size: 13 Copynumber: 3.8 Consensus size: 13
13293834 AATATATACA
13293844 TTTAGGGTTTAGG
1 TTTAGGGTTTAGG
* *
13293857 ATATA-GGTTTATAG
1 -TTTAGGGTTTA-GG
*
13293871 TTTGGGGTTTAGG
1 TTTAGGGTTTAGG
13293884 TTTAGGGTTTA
1 TTTAGGGTTTA
13293895 CTATTGGAAA
Statistics
Matches: 29, Mismatches: 6, Indels: 5
0.73 0.15 0.12
Matches are distributed among these distances:
13 19 0.66
14 10 0.34
ACGTcount: A:0.20, C:0.00, G:0.33, T:0.47
Consensus pattern (13 bp):
TTTAGGGTTTAGG
Found at i:13294123 original size:17 final size:18
Alignment explanation
Indices: 13294101--13294134 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
13294091 TAATTGTTTT
13294101 AATATA-TTAAAATTATC
1 AATATAGTTAAAATTATC
*
13294118 AATATAGTTTAAATTAT
1 AATATAGTTAAAATTAT
13294135 TTAAGAGATA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.50, C:0.03, G:0.03, T:0.44
Consensus pattern (18 bp):
AATATAGTTAAAATTATC
Found at i:13296277 original size:138 final size:138
Alignment explanation
Indices: 13296026--13296293 Score: 441
Period size: 138 Copynumber: 1.9 Consensus size: 138
13296016 TGTGTCTGAC
* * *
13296026 TGCTTTGTGGAGTCCCTGTTTTGAATTTTAGAATCATATGTAATCTATTTAAAAATTGGAATTAA
1 TGCTTTGTGGAGTACCTGTTTTGAATTTTAGAACCATATGTAATCTACTTAAAAATTGGAATTAA
13296091 ATTGTTTTTAGGTTTTATAATTACATTTCTCTTTGTTATGTTACTATGCAACTTATTTGATTTAA
66 ATTGTTTTTAGGTTTTATAATTACATTTCTCTTTGTTATGTTACTATGCAACTTATTTGATTTAA
13296156 CGCCTGGA
131 CGCCTGGA
* * *
13296164 TGCTTT-TAGGAGTACCTGTTTTGAATTTTAGAACCATATGTAATTTCCTTAAAAATTGGCATTA
1 TGCTTTGT-GGAGTACCTGTTTTGAATTTTAGAACCATATGTAATCTACTTAAAAATTGGAATTA
*
13296228 AATTGTTTTTAGGTTTTAT-ATTAACATTTCTCTTTGTTATGTTATTATGCAACTTATTTGATTT
65 AATTGTTTTTAGGTTTTATAATT-ACATTTCTCTTTGTTATGTTACTATGCAACTTATTTGATTT
13296292 AA
129 AA
13296294 AATTTTAAAA
Statistics
Matches: 121, Mismatches: 7, Indels: 4
0.92 0.05 0.03
Matches are distributed among these distances:
137 4 0.03
138 117 0.97
ACGTcount: A:0.27, C:0.10, G:0.14, T:0.48
Consensus pattern (138 bp):
TGCTTTGTGGAGTACCTGTTTTGAATTTTAGAACCATATGTAATCTACTTAAAAATTGGAATTAA
ATTGTTTTTAGGTTTTATAATTACATTTCTCTTTGTTATGTTACTATGCAACTTATTTGATTTAA
CGCCTGGA
Found at i:13298179 original size:27 final size:28
Alignment explanation
Indices: 13298144--13298197 Score: 74
Period size: 28 Copynumber: 2.0 Consensus size: 28
13298134 ATTTTTGATA
*
13298144 ATGAATTTTA-AATTTTTTATATTTTTC
1 ATGAATTTTATAATATTTTATATTTTTC
* *
13298171 ATGACTTTTATAATATTTTATTTTTTT
1 ATGAATTTTATAATATTTTATATTTTT
13298198 TAAAACCTTT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
27 9 0.39
28 14 0.61
ACGTcount: A:0.28, C:0.04, G:0.04, T:0.65
Consensus pattern (28 bp):
ATGAATTTTATAATATTTTATATTTTTC
Found at i:13298273 original size:26 final size:26
Alignment explanation
Indices: 13298244--13298296 Score: 97
Period size: 26 Copynumber: 2.0 Consensus size: 26
13298234 TAAAGGTCAT
*
13298244 GACCTTTAGCGGCATTTGTGGGTAAA
1 GACCTTTAGCGGCATTTGTGGGGAAA
13298270 GACCTTTAGCGGCATTTGTGGGGAAA
1 GACCTTTAGCGGCATTTGTGGGGAAA
13298296 G
1 G
13298297 CGCCGCTAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.23, C:0.15, G:0.34, T:0.28
Consensus pattern (26 bp):
GACCTTTAGCGGCATTTGTGGGGAAA
Found at i:13298726 original size:22 final size:22
Alignment explanation
Indices: 13298701--13298742 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
13298691 ACCTTAAACA
*
13298701 TATAATTAAATTAA-TCAAAATT
1 TATAAATAAA-TAATTCAAAATT
13298723 TATAAATAAATAATTCAAAA
1 TATAAATAAATAATTCAAAA
13298743 ATTGCAAACA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 3 0.17
22 15 0.83
ACGTcount: A:0.60, C:0.05, G:0.00, T:0.36
Consensus pattern (22 bp):
TATAAATAAATAATTCAAAATT
Found at i:13304754 original size:16 final size:17
Alignment explanation
Indices: 13304729--13304761 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
13304719 TTTATCACAC
*
13304729 TTAGGTTAA-TTTGCAT
1 TTAGGATAATTTTGCAT
13304745 TTAGGATAATTTTGCAT
1 TTAGGATAATTTTGCAT
13304762 CTAGTTATTT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 8 0.53
17 7 0.47
ACGTcount: A:0.27, C:0.06, G:0.18, T:0.48
Consensus pattern (17 bp):
TTAGGATAATTTTGCAT
Found at i:13310443 original size:46 final size:46
Alignment explanation
Indices: 13310376--13310537 Score: 188
Period size: 46 Copynumber: 3.5 Consensus size: 46
13310366 CACCCAAAGC
13310376 GAACTCGGACTCAACTCAACGAGCTCGGGCATTCGCATCCATAAGT
1 GAACTCGGACTCAACTCAACGAGCTCGGGCATTCGCATCCATAAGT
* * *
13310422 GAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTT-ACAT-C-TCA-C
1 GAACTCGGACTCAACTCAACGAGCTCGG--G-C-A-TTCGCATCCATAAGT
* * * *
13310469 GAACTCGGACTCAACTCAACAAGTTCGGACGTTCGCATCCATAAGT
1 GAACTCGGACTCAACTCAACGAGCTCGGGCATTCGCATCCATAAGT
13310515 GAACTCGGACTCAACTCAACGAG
1 GAACTCGGACTCAACTCAACGAG
13310538 TTGGATGCCT
Statistics
Matches: 96, Mismatches: 11, Indels: 18
0.77 0.09 0.14
Matches are distributed among these distances:
42 2 0.02
43 3 0.03
44 2 0.02
45 2 0.02
46 50 0.52
47 26 0.27
48 3 0.03
49 2 0.02
50 4 0.04
51 2 0.02
ACGTcount: A:0.30, C:0.30, G:0.20, T:0.20
Consensus pattern (46 bp):
GAACTCGGACTCAACTCAACGAGCTCGGGCATTCGCATCCATAAGT
Found at i:13310484 original size:93 final size:92
Alignment explanation
Indices: 13310375--13310548 Score: 294
Period size: 93 Copynumber: 1.9 Consensus size: 92
13310365 CCACCCAAAG
* *
13310375 CGAACTCGGACTCAACTCAACGAGCTCGGGCATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACAAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
13310440 ACGAGCTCGGATGCCTAGTTACATCTCA
66 ACGAG-TCGGATGCCTAGTTACATCTCA
* *
13310468 CGAACTCGGACTCAACTCAACAAGTTCGGACGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACAAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
*
13310533 ACGAGTTGGATGCCTA
66 ACGAGTCGGATGCCTA
13310549 AATATCCGAA
Statistics
Matches: 76, Mismatches: 5, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
92 10 0.13
93 66 0.87
ACGTcount: A:0.29, C:0.30, G:0.21, T:0.21
Consensus pattern (92 bp):
CGAACTCGGACTCAACTCAACAAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGTCGGATGCCTAGTTACATCTCA
Found at i:13313299 original size:30 final size:29
Alignment explanation
Indices: 13313257--13313313 Score: 96
Period size: 30 Copynumber: 1.9 Consensus size: 29
13313247 AAAGATAACA
13313257 AGAAAACCGAATAAAGAAATCCAAGATTG
1 AGAAAACCGAATAAAGAAATCCAAGATTG
*
13313286 AGAAACCCAGAATAAAGAAATCCAAGAT
1 AGAAAACC-GAATAAAGAAATCCAAGAT
13313314 ACGATACTAT
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
29 7 0.27
30 19 0.73
ACGTcount: A:0.56, C:0.16, G:0.16, T:0.12
Consensus pattern (29 bp):
AGAAAACCGAATAAAGAAATCCAAGATTG
Found at i:13316047 original size:46 final size:46
Alignment explanation
Indices: 13315980--13316145 Score: 187
Period size: 46 Copynumber: 3.6 Consensus size: 46
13315970 TGTAACCCAC
13315980 CCATAAGTGAACTCGGACTCAACTCAATGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAATGAGCTCGGGCGTTCGCAT
* *
13316026 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTT-ACAT
1 CCATAAGTGAACTCGGACTCAACTCAATGAGCTCGG--G-C--GTTCGCAT
* * * * *
13316076 -C-TCA-CGAACTCGGACTCAACTCAATGAGTTCAGACGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAATGAGCTCGGGCGTTCGCAT
*
13316119 CCATAAGTGAACCCGGACTCAACTCAA
1 CCATAAGTGAACTCGGACTCAACTCAA
13316146 CTAGTTCGGA
Statistics
Matches: 99, Mismatches: 12, Indels: 18
0.77 0.09 0.14
Matches are distributed among these distances:
42 3 0.03
43 3 0.03
44 2 0.02
45 2 0.02
46 53 0.54
47 25 0.25
48 3 0.03
49 2 0.02
50 3 0.03
51 3 0.03
ACGTcount: A:0.30, C:0.30, G:0.20, T:0.21
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAATGAGCTCGGGCGTTCGCAT
Found at i:13316103 original size:93 final size:93
Alignment explanation
Indices: 13315988--13316159 Score: 290
Period size: 93 Copynumber: 1.8 Consensus size: 93
13315978 ACCCATAAGT
* * *
13315988 GAACTCGGACTCAACTCAATGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAATGAGCTCAGACGTTCGCATCCATAAGTGAACCCGGACTCAACTCAA
13316053 CGAGCTCGGATGCCTAGTTACATCTCAC
66 CGAGCTCGGATGCCTAGTTACATCTCAC
*
13316081 GAACTCGGACTCAACTCAATGAGTTCAGACGTTCGCATCCATAAGTGAACCCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAATGAGCTCAGACGTTCGCATCCATAAGTGAACCCGGACTCAACTCAA
* *
13316146 CTAGTTCGGATGCC
66 CGAGCTCGGATGCC
13316160 CAAATATCCG
Statistics
Matches: 73, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
93 73 1.00
ACGTcount: A:0.28, C:0.30, G:0.21, T:0.22
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAATGAGCTCAGACGTTCGCATCCATAAGTGAACCCGGACTCAACTCAA
CGAGCTCGGATGCCTAGTTACATCTCAC
Found at i:13319362 original size:21 final size:20
Alignment explanation
Indices: 13319315--13319368 Score: 72
Period size: 20 Copynumber: 2.6 Consensus size: 20
13319305 CCAAAACATG
* *
13319315 GGTATCGATAATTAATTTAT
1 GGTATCGATACTTAATATAT
*
13319335 GGTATCGATACTTTATATAT
1 GGTATCGATACTTAATATAT
13319355 GTGTATCGATACTT
1 G-GTATCGATACTT
13319369 GATTAAAAAT
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
20 18 0.60
21 12 0.40
ACGTcount: A:0.30, C:0.09, G:0.17, T:0.44
Consensus pattern (20 bp):
GGTATCGATACTTAATATAT
Found at i:13321928 original size:11 final size:10
Alignment explanation
Indices: 13321908--13321933 Score: 52
Period size: 10 Copynumber: 2.6 Consensus size: 10
13321898 TTCAAATATT
13321908 AAAAATAAAA
1 AAAAATAAAA
13321918 AAAAATAAAA
1 AAAAATAAAA
13321928 AAAAAT
1 AAAAAT
13321934 CCAAACCAAG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 16 1.00
ACGTcount: A:0.88, C:0.00, G:0.00, T:0.12
Consensus pattern (10 bp):
AAAAATAAAA
Found at i:13324168 original size:22 final size:21
Alignment explanation
Indices: 13324143--13324184 Score: 57
Period size: 22 Copynumber: 2.0 Consensus size: 21
13324133 GGTATAATTA
* *
13324143 TAAATTAATAATAAAAGTAAAG
1 TAAAATAATAACAAAA-TAAAG
13324165 TAAAATAATAACAAAATAAA
1 TAAAATAATAACAAAATAAA
13324185 CTTTGTCATC
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 4 0.22
22 14 0.78
ACGTcount: A:0.69, C:0.02, G:0.05, T:0.24
Consensus pattern (21 bp):
TAAAATAATAACAAAATAAAG
Found at i:13324995 original size:40 final size:40
Alignment explanation
Indices: 13324935--13325023 Score: 133
Period size: 40 Copynumber: 2.2 Consensus size: 40
13324925 TGAGATTTAT
* * *
13324935 TTCGATACCCCTGAATGCACATACGTGCCCCTGTTTGTAC
1 TTCGGTACCCCTAAATGCACATACATGCCCCTGTTTGTAC
* *
13324975 TTTGGTACCCCTAAATGCACATACATGCCCCTTTTTGTAC
1 TTCGGTACCCCTAAATGCACATACATGCCCCTGTTTGTAC
13325015 TTCGGTACC
1 TTCGGTACC
13325024 TCTGAAAGAA
Statistics
Matches: 43, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
40 43 1.00
ACGTcount: A:0.20, C:0.31, G:0.16, T:0.33
Consensus pattern (40 bp):
TTCGGTACCCCTAAATGCACATACATGCCCCTGTTTGTAC
Found at i:13326746 original size:40 final size:40
Alignment explanation
Indices: 13326644--13326768 Score: 135
Period size: 40 Copynumber: 3.1 Consensus size: 40
13326634 GAATATAACT
** *
13326644 GGATATAACCACGTGCACAAATGCCTTCGGGTCTTAGCCC
1 GGATATAACCACCAGCACAATTGCCTTCGGGTCTTAGCCC
* * * *
13326684 GGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAACCC
1 GGATATAACCACCAGCACAATTGCCTTCGGGTCTTAGCCC
*** * *
13326724 GGATATAATTTCCAGCATAATTGTCTTCGGG-CTTAGCCC
1 GGATATAACCACCAGCACAATTGCCTTCGGGTCTTAGCCC
13326763 GGATAT
1 GGATAT
13326769 CATTCAATTT
Statistics
Matches: 70, Mismatches: 15, Indels: 1
0.81 0.17 0.01
Matches are distributed among these distances:
39 13 0.19
40 57 0.81
ACGTcount: A:0.24, C:0.26, G:0.22, T:0.27
Consensus pattern (40 bp):
GGATATAACCACCAGCACAATTGCCTTCGGGTCTTAGCCC
Found at i:13334655 original size:40 final size:40
Alignment explanation
Indices: 13334610--13334776 Score: 167
Period size: 40 Copynumber: 4.2 Consensus size: 40
13334600 CGGAATATAA
13334610 CCGGATATAACCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* ** * *
13334650 CCGGATAGAATGACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAGC
* * * *
13334690 CCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAGC
*** * * * *
13334730 CCGGATATAATTTCCAGCATAATTGTCTTCGGG-CTTAGC
1 CCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAGC
13334769 CCGGATAT
1 CCGGATAT
13334777 CATTCAATTT
Statistics
Matches: 104, Mismatches: 22, Indels: 3
0.81 0.17 0.02
Matches are distributed among these distances:
39 14 0.13
40 90 0.87
ACGTcount: A:0.23, C:0.28, G:0.23, T:0.26
Consensus pattern (40 bp):
CCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:13337972 original size:9 final size:9
Alignment explanation
Indices: 13337960--13337993 Score: 50
Period size: 9 Copynumber: 3.8 Consensus size: 9
13337950 CCAAAAAATC
13337960 TCATCAATT
1 TCATCAATT
13337969 TCATCAATT
1 TCATCAATT
*
13337978 TCATCATTT
1 TCATCAATT
*
13337987 TCCTCAA
1 TCATCAA
13337994 GTGTGGATTT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
9 22 1.00
ACGTcount: A:0.29, C:0.26, G:0.00, T:0.44
Consensus pattern (9 bp):
TCATCAATT
Found at i:13340658 original size:2 final size:2
Alignment explanation
Indices: 13340622--13340646 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
13340612 GGCTGAAACT
13340622 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 T
13340647 CTTATGTATA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:13341555 original size:40 final size:40
Alignment explanation
Indices: 13341456--13341608 Score: 128
Period size: 40 Copynumber: 3.9 Consensus size: 40
13341446 GGAAGAACTA
* * * * * *
13341456 GAAGTTTGTTTGCAACACTAGTGGCTTATCCACAATACT-
1 GAAGTTTATCTGCAATACTGGTGGCTTGTCCACAGTACTG
* * * * * * * *
13341495 GCAGCTTGTTTGCAACACTGGTAGCTTGTCCACATTACTT
1 GAAGTTTATCTGCAATACTGGTGGCTTGTCCACAGTACTG
* *
13341535 GAAGTTTATCTGCAATACTGGTGGCTTGTCTATAGTACTG
1 GAAGTTTATCTGCAATACTGGTGGCTTGTCCACAGTACTG
* * *
13341575 GTAGTTTATTTACAATACTGGTGGCTTGTCCACA
1 GAAGTTTATCTGCAATACTGGTGGCTTGTCCACA
13341609 AACTAGTGTG
Statistics
Matches: 92, Mismatches: 21, Indels: 1
0.81 0.18 0.01
Matches are distributed among these distances:
39 33 0.36
40 59 0.64
ACGTcount: A:0.24, C:0.20, G:0.21, T:0.36
Consensus pattern (40 bp):
GAAGTTTATCTGCAATACTGGTGGCTTGTCCACAGTACTG
Found at i:13341575 original size:20 final size:20
Alignment explanation
Indices: 13341547--13341609 Score: 63
Period size: 20 Copynumber: 3.1 Consensus size: 20
13341537 AGTTTATCTG
13341547 CAATACTGGTGGCTTGTCTA
1 CAATACTGGTGGCTTGTCTA
* * * * * *
13341567 TAGTACTGGTAGTTTATTTA
1 CAATACTGGTGGCTTGTCTA
*
13341587 CAATACTGGTGGCTTGTCCA
1 CAATACTGGTGGCTTGTCTA
13341607 CAA
1 CAA
13341610 ACTAGTGTGT
Statistics
Matches: 30, Mismatches: 13, Indels: 0
0.70 0.30 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.24, C:0.17, G:0.22, T:0.37
Consensus pattern (20 bp):
CAATACTGGTGGCTTGTCTA
Found at i:13342492 original size:13 final size:13
Alignment explanation
Indices: 13342474--13342506 Score: 52
Period size: 12 Copynumber: 2.7 Consensus size: 13
13342464 TAGAAATGGA
13342474 AAAAGAAAAACCT
1 AAAAGAAAAACCT
13342487 AAAAG-AAAACCT
1 AAAAGAAAAACCT
13342499 -AAAGAAAA
1 AAAAGAAAA
13342507 CTAAACCTAA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
11 4 0.21
12 10 0.53
13 5 0.26
ACGTcount: A:0.73, C:0.12, G:0.09, T:0.06
Consensus pattern (13 bp):
AAAAGAAAAACCT
Found at i:13342495 original size:12 final size:12
Alignment explanation
Indices: 13342474--13342511 Score: 53
Period size: 11 Copynumber: 3.2 Consensus size: 12
13342464 TAGAAATGGA
13342474 AAAAGAAAAACCT
1 AAAAG-AAAACCT
13342487 AAAAGAAAACCT
1 AAAAGAAAACCT
13342499 -AAAGAAAA-CT
1 AAAAGAAAACCT
13342509 AAA
1 AAA
13342512 CCTAAATTAA
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
10 2 0.08
11 10 0.42
12 7 0.29
13 5 0.21
ACGTcount: A:0.71, C:0.13, G:0.08, T:0.08
Consensus pattern (12 bp):
AAAAGAAAACCT
Found at i:13353317 original size:19 final size:19
Alignment explanation
Indices: 13353282--13353319 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
13353272 TTGCAACTTA
*
13353282 AATTTTTATTTTCTTTTCT
1 AATTTTTATTTTATTTTCT
13353301 AATTTTTCA-TTTATTTTCT
1 AATTTTT-ATTTTATTTTCT
13353320 TCTGATAGGT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 16 0.94
20 1 0.06
ACGTcount: A:0.18, C:0.11, G:0.00, T:0.71
Consensus pattern (19 bp):
AATTTTTATTTTATTTTCT
Found at i:13357882 original size:16 final size:16
Alignment explanation
Indices: 13357861--13357892 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
13357851 CAAGCCTAAG
*
13357861 GTAATAATTTTTCATA
1 GTAATAACTTTTCATA
13357877 GTAATAACTTTTCATA
1 GTAATAACTTTTCATA
13357893 TTAACTAATG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.38, C:0.09, G:0.06, T:0.47
Consensus pattern (16 bp):
GTAATAACTTTTCATA
Found at i:13364265 original size:40 final size:40
Alignment explanation
Indices: 13364205--13364479 Score: 242
Period size: 40 Copynumber: 6.9 Consensus size: 40
13364195 AATTATTGTA
*
13364205 TGAATGCACATACGTGCCCCTATTTGTACTTCGGTACCCC
1 TGAAAGCACATACGTGCCCCTATTTGTACTTCGGTACCCC
* ** **
13364245 TGAAAGCACATACGTGCCCCTGTTTGTACTTCAATACCGT
1 TGAAAGCACATACGTGCCCCTATTTGTACTTCGGTACCCC
* * * *
13364285 TGAATGCATATACGTGCCACC-GTTTGTACTT-AGTACCCC
1 TGAAAGCACATACGTGCC-CCTATTTGTACTTCGGTACCCC
* * *
13364324 T-AAATGCACATACATG-CCCTTTTTGTACTGT-GGTACCCT
1 TGAAA-GCACATACGTGCCCCTATTTGTACT-TCGGTACCCC
* * * *
13364363 TGAATGCACATACGTGCCCCTATTTGTACTTCAGT-GCTC
1 TGAAAGCACATACGTGCCCCTATTTGTACTTCGGTACCCC
** *
13364402 T-AAAGTGCACATTTGTGCCCCTATTTGTACTACGGTACCCC
1 TGAAA--GCACATACGTGCCCCTATTTGTACTTCGGTACCCC
* *
13364443 T-AAATGCACATACGTGCCCTTATTTGTACTTTGGTAC
1 TGAAA-GCACATACGTGCCCCTATTTGTACTTCGGTAC
13364480 TACTGAAGGC
Statistics
Matches: 189, Mismatches: 36, Indels: 20
0.77 0.15 0.08
Matches are distributed among these distances:
37 2 0.01
38 13 0.07
39 36 0.19
40 130 0.69
41 8 0.04
ACGTcount: A:0.23, C:0.28, G:0.17, T:0.33
Consensus pattern (40 bp):
TGAAAGCACATACGTGCCCCTATTTGTACTTCGGTACCCC
Found at i:13364300 original size:80 final size:80
Alignment explanation
Indices: 13364205--13364473 Score: 307
Period size: 80 Copynumber: 3.4 Consensus size: 80
13364195 AATTATTGTA
* *
13364205 TGAATGCACATACGTGCCCCTATTTGTACTTCGGTACCCCTGAAA-GCACATACGTGCCCCTGTT
1 TGAATGCACATACGTGCCCCTATTTGTACTTCAGTACCCCT-AAATGCACATACGTGCCCCTATT
** *
13364269 TGTACTTCAATACCGT
65 TGTACTTCGGTACCCT
* * * *
13364285 TGAATGCATATACGTGCCACC-GTTTGTACTT-AGTACCCCTAAATGCACATACATG-CCCTTTT
1 TGAATGCACATACGTGCC-CCTATTTGTACTTCAGTACCCCTAAATGCACATACGTGCCCCTATT
13364347 TGTACTGT-GGTACCCT
65 TGTACT-TCGGTACCCT
* * **
13364363 TGAATGCACATACGTGCCCCTATTTGTACTTCAGT-GCTCTAAAGTGCACATTTGTGCCCCTATT
1 TGAATGCACATACGTGCCCCTATTTGTACTTCAGTACCCCTAAA-TGCACATACGTGCCCCTATT
* *
13364427 TGTACTACGGTACCCC
65 TGTACTTCGGTACCCT
* *
13364443 TAAATGCACATACGTGCCCTTATTTGTACTT
1 TGAATGCACATACGTGCCCCTATTTGTACTT
13364474 TGGTACTACT
Statistics
Matches: 161, Mismatches: 20, Indels: 16
0.82 0.10 0.08
Matches are distributed among these distances:
77 2 0.01
78 52 0.32
79 31 0.19
80 74 0.46
81 2 0.01
ACGTcount: A:0.23, C:0.28, G:0.17, T:0.33
Consensus pattern (80 bp):
TGAATGCACATACGTGCCCCTATTTGTACTTCAGTACCCCTAAATGCACATACGTGCCCCTATTT
GTACTTCGGTACCCT
Found at i:13370128 original size:46 final size:46
Alignment explanation
Indices: 13369976--13370148 Score: 204
Period size: 46 Copynumber: 3.7 Consensus size: 46
13369966 TCATTTGTGT
* * ** *
13369976 GAGCTAGTGTAAGACATGTCTGGGACATGCATCGGCCACGTTATGA
1 GAGCCAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGACGA
* * *
13370022 GAGCCAGTGTAAGACGATGTCTGGGACATGGCACCGGCATTGAGACGA
1 GAGCCAGTGTAAGAC-ATGTCTGGGACAT-GCATCGGCCTCGAGACGA
* * *
13370070 GTGCTAGTGTAAGACATGTCTGGGACATGCTTCGGCCTCGAGACGTA
1 GAGCCAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGACG-A
*
13370117 -AGCCAGTGTAAGACATGTCTGAGACATGCATC
1 GAGCCAGTGTAAGACATGTCTGGGACATGCATC
13370149 AGCTACGAGA
Statistics
Matches: 106, Mismatches: 18, Indels: 6
0.82 0.14 0.05
Matches are distributed among these distances:
46 55 0.52
47 27 0.25
48 24 0.23
ACGTcount: A:0.26, C:0.21, G:0.31, T:0.22
Consensus pattern (46 bp):
GAGCCAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGACGA
Found at i:13372024 original size:30 final size:30
Alignment explanation
Indices: 13371990--13372054 Score: 130
Period size: 30 Copynumber: 2.2 Consensus size: 30
13371980 ATGAATCGGA
13371990 AGCTTTGGCACTAAGTGTGCGATTTAAACT
1 AGCTTTGGCACTAAGTGTGCGATTTAAACT
13372020 AGCTTTGGCACTAAGTGTGCGATTTAAACT
1 AGCTTTGGCACTAAGTGTGCGATTTAAACT
13372050 AGCTT
1 AGCTT
13372055 CGGCTACTTA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 35 1.00
ACGTcount: A:0.26, C:0.17, G:0.23, T:0.34
Consensus pattern (30 bp):
AGCTTTGGCACTAAGTGTGCGATTTAAACT
Found at i:13379884 original size:26 final size:26
Alignment explanation
Indices: 13379854--13379909 Score: 94
Period size: 26 Copynumber: 2.2 Consensus size: 26
13379844 GTACATTTAC
13379854 ATCATGAAACATTTACCTAACCCATT
1 ATCATGAAACATTTACCTAACCCATT
* *
13379880 ATCATGGAACATTTACCTAACCTATT
1 ATCATGAAACATTTACCTAACCCATT
13379906 ATCA
1 ATCA
13379910 ATTTGTATCA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 28 1.00
ACGTcount: A:0.38, C:0.25, G:0.05, T:0.32
Consensus pattern (26 bp):
ATCATGAAACATTTACCTAACCCATT
Found at i:13384135 original size:25 final size:27
Alignment explanation
Indices: 13384098--13384151 Score: 67
Period size: 26 Copynumber: 2.1 Consensus size: 27
13384088 TCAAACATGC
13384098 ATTTAGGTCAATTTAAC-CCTAGGGGT
1 ATTTAGGTCAATTTAACACCTAGGGGT
* **
13384124 ATTTCGGT-AATTTTGCACCTAGGGGT
1 ATTTAGGTCAATTTAACACCTAGGGGT
13384150 AT
1 AT
13384152 AACAGTAATT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
25 6 0.25
26 18 0.75
ACGTcount: A:0.24, C:0.15, G:0.24, T:0.37
Consensus pattern (27 bp):
ATTTAGGTCAATTTAACACCTAGGGGT
Found at i:13385669 original size:26 final size:26
Alignment explanation
Indices: 13385633--13385768 Score: 236
Period size: 26 Copynumber: 5.2 Consensus size: 26
13385623 CATGATATTC
13385633 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
13385659 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* *
13385685 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
13385711 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* *
13385737 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
13385763 TTATCA
1 TTATCA
13385769 ATTTGTATCA
Statistics
Matches: 104, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
26 104 1.00
ACGTcount: A:0.37, C:0.25, G:0.05, T:0.33
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:13389840 original size:6 final size:6
Alignment explanation
Indices: 13389831--13390008 Score: 134
Period size: 6 Copynumber: 28.8 Consensus size: 6
13389821 AATAAAAATG
* * * *
13389831 AGAATC AGAATC AGAATC AAAATC AGGTGAT- AGAATC AAAATT AGAATC
1 AGAATC AGAATC AGAATC AGAATC A-G-AATC AGAATC AGAATC AGAATC
* * *
13389880 AGAATC AGGATT AGGTAA-C AGAATC AGAATC AGTATC AGGTAA-C AGAATC
1 AGAATC AGAATC A-G-AATC AGAATC AGAATC AGAATC A-G-AATC AGAATC
*
13389930 AGAATC AGAATC AGAA-C TAGAATC AGAATT AGGTAAT- AGAATC AGAATC
1 AGAATC AGAATC AGAATC -AGAATC AGAATC A-G-AATC AGAATC AGAATC
*
13389979 AGTATC AGGTAA-C AGAATC AGAATC AGAAT
1 AGAATC A-G-AATC AGAATC AGAATC AGAAT
13390009 GTGAATGCAA
Statistics
Matches: 138, Mismatches: 17, Indels: 34
0.73 0.09 0.18
Matches are distributed among these distances:
5 12 0.09
6 106 0.77
7 12 0.09
8 8 0.06
ACGTcount: A:0.48, C:0.13, G:0.19, T:0.20
Consensus pattern (6 bp):
AGAATC
Found at i:13389868 original size:31 final size:31
Alignment explanation
Indices: 13389831--13390008 Score: 132
Period size: 31 Copynumber: 5.5 Consensus size: 31
13389821 AATAAAAATG
*
13389831 AGAATCAGAATCAGAATCAAAATCAGGTGAT
1 AGAATCAGAATCAGAATCAGAATCAGGTGAT
* *
13389862 AGAATCAAAATTAGAATCAGAATCA-G-GATT
1 AGAATCAGAATCAGAATCAGAATCAGGTGA-T
* * *
13389892 AGGTAA-CAGAATCAGAATCAGTATCAGGTAAC
1 A-G-AATCAGAATCAGAATCAGAATCAGGTGAT
*
13389924 AGAATCAGAATCAGAATCAGAA-CTAGAATCAGAATT
1 AGAATCAGAATCAGAATCAGAATC-AG-GT--G-A-T
* * *
13389960 AGGTAAT-AGAATCAGAATCAGTATCAGGTAAC
1 A-G-AATCAGAATCAGAATCAGAATCAGGTGAT
13389992 AGAATCAGAATCAGAAT
1 AGAATCAGAATCAGAAT
13390009 GTGAATGCAA
Statistics
Matches: 115, Mismatches: 16, Indels: 32
0.71 0.10 0.20
Matches are distributed among these distances:
29 2 0.02
30 9 0.08
31 71 0.62
32 6 0.05
33 2 0.02
35 1 0.01
36 2 0.02
37 18 0.16
38 4 0.03
ACGTcount: A:0.48, C:0.13, G:0.19, T:0.20
Consensus pattern (31 bp):
AGAATCAGAATCAGAATCAGAATCAGGTGAT
Found at i:13389902 original size:25 final size:25
Alignment explanation
Indices: 13389874--13390005 Score: 154
Period size: 25 Copynumber: 5.6 Consensus size: 25
13389864 AATCAAAATT
*
13389874 AGAATCAGAATCAGGATTAGGTAAC
1 AGAATCAGAATCAGGATCAGGTAAC
*
13389899 AGAATCAGAATCAGTATCAGGTAAC
1 AGAATCAGAATCAGGATCAGGTAAC
*
13389924 AGAATCAGAATCAGAATCA-G-AAC
1 AGAATCAGAATCAGGATCAGGTAAC
*
13389947 TAGAATCAGAAT-----T-AGGTAAT
1 -AGAATCAGAATCAGGATCAGGTAAC
*
13389967 AGAATCAGAATCAGTATCAGGTAAC
1 AGAATCAGAATCAGGATCAGGTAAC
13389992 AGAATCAGAATCAG
1 AGAATCAGAATCAG
13390006 AATGTGAATG
Statistics
Matches: 93, Mismatches: 5, Indels: 18
0.80 0.04 0.16
Matches are distributed among these distances:
18 1 0.01
19 13 0.14
20 2 0.02
23 3 0.03
24 13 0.14
25 61 0.66
ACGTcount: A:0.46, C:0.14, G:0.20, T:0.20
Consensus pattern (25 bp):
AGAATCAGAATCAGGATCAGGTAAC
Found at i:13389912 original size:68 final size:67
Alignment explanation
Indices: 13389831--13390004 Score: 201
Period size: 68 Copynumber: 2.6 Consensus size: 67
13389821 AATAAAAATG
* * * *
13389831 AGAATCAGAATCAGAATCA-AAATCAGGTGAT-AGAATCAAAATTAGAA-TCAGAATCAGGATTA
1 AGAATCAGAATCAGTATCAGAAA-CA-G-AATCAGAATCAAAATCAGAACT-AGAATCAGAATTA
13389893 GGTAAC
62 GGTAAC
* *
13389899 AGAATCAGAATCAGTATCAGGTAACAGAATCAGAATCAGAATCAGAACTAGAATCAGAATTAGGT
1 AGAATCAGAATCAGTATCA-GAAACAGAATCAGAATCAAAATCAGAACTAGAATCAGAATTAGGT
*
13389964 AAT
65 AAC
*
13389967 AGAATCAGAATCAGTATCAGGTAACAGAATCAGAATCA
1 AGAATCAGAATCAGTATCA-GAAACAGAATCAGAATCA
13390005 GAATGTGAAT
Statistics
Matches: 95, Mismatches: 7, Indels: 8
0.86 0.06 0.07
Matches are distributed among these distances:
67 2 0.02
68 88 0.93
69 3 0.03
70 2 0.02
ACGTcount: A:0.48, C:0.13, G:0.19, T:0.20
Consensus pattern (67 bp):
AGAATCAGAATCAGTATCAGAAACAGAATCAGAATCAAAATCAGAACTAGAATCAGAATTAGGTA
AC
Found at i:13390005 original size:68 final size:68
Alignment explanation
Indices: 13389862--13390008 Score: 242
Period size: 68 Copynumber: 2.2 Consensus size: 68
13389852 ATCAGGTGAT
* * *
13389862 AGAATCAAAATTAGAATCAGAATCAGGATTAGGTAACAGAATCAGAATCAGTATCAGGTAACAGA
1 AGAATCAGAATCAGAATCAGAATCAGAATTAGGTAACAGAATCAGAATCAGTATCAGGTAACAGA
13389927 ATC
66 ATC
*
13389930 AGAATCAGAATCAGAA-CTAGAATCAGAATTAGGTAATAGAATCAGAATCAGTATCAGGTAACAG
1 AGAATCAGAATCAGAATC-AGAATCAGAATTAGGTAACAGAATCAGAATCAGTATCAGGTAACAG
13389994 AATC
65 AATC
13389998 AGAATCAGAAT
1 AGAATCAGAAT
13390009 GTGAATGCAA
Statistics
Matches: 74, Mismatches: 4, Indels: 2
0.93 0.05 0.03
Matches are distributed among these distances:
67 1 0.01
68 73 0.99
ACGTcount: A:0.48, C:0.13, G:0.19, T:0.20
Consensus pattern (68 bp):
AGAATCAGAATCAGAATCAGAATCAGAATTAGGTAACAGAATCAGAATCAGTATCAGGTAACAGA
ATC
Found at i:13390175 original size:27 final size:26
Alignment explanation
Indices: 13390127--13390186 Score: 66
Period size: 27 Copynumber: 2.3 Consensus size: 26
13390117 GCGAGGCTGC
*
13390127 CAGATATTGTGACGAAGTCACCAGATA
1 CAGATATTGTGACGAAGCCACCAGA-A
* * *
13390154 CAGATATTGTGGCTAGGCCACCAGAA
1 CAGATATTGTGACGAAGCCACCAGAA
*
13390180 TAGATAT
1 CAGATAT
13390187 ATATATGTGG
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
26 7 0.25
27 21 0.75
ACGTcount: A:0.35, C:0.18, G:0.23, T:0.23
Consensus pattern (26 bp):
CAGATATTGTGACGAAGCCACCAGAA
Found at i:13390283 original size:67 final size:67
Alignment explanation
Indices: 13390187--13390362 Score: 298
Period size: 67 Copynumber: 2.6 Consensus size: 67
13390177 GAATAGATAT
* * *
13390187 ATATATGTGGCAAAGCCACCAGATTGCAGCGAGGTTGCCAGATATTGTGACGAAGTCACCAGAAC
1 ATATATGTGGCGAGGCCACCAGATTGCAGCGAGGCTGCCAGATATTGTGACGAAGTCACCAGAAC
13390252 AG
66 AG
* *
13390254 ATATATGTGGCGCGGCCACCAGATTGCAGCGAGACTGCCAGATATTGTGACGAAGTCACCAGAAC
1 ATATATGTGGCGAGGCCACCAGATTGCAGCGAGGCTGCCAGATATTGTGACGAAGTCACCAGAAC
13390319 AG
66 AG
*
13390321 ATATATGTGGAGAGGCCACCAGATTGCAGCGAGGCTGCCAGA
1 ATATATGTGGCGAGGCCACCAGATTGCAGCGAGGCTGCCAGA
13390363 ATGCTTCCTC
Statistics
Matches: 101, Mismatches: 8, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
67 101 1.00
ACGTcount: A:0.31, C:0.22, G:0.29, T:0.18
Consensus pattern (67 bp):
ATATATGTGGCGAGGCCACCAGATTGCAGCGAGGCTGCCAGATATTGTGACGAAGTCACCAGAAC
AG
Found at i:13390618 original size:27 final size:27
Alignment explanation
Indices: 13390588--13390731 Score: 157
Period size: 27 Copynumber: 5.3 Consensus size: 27
13390578 GGGGTAAAAT
* * *
13390588 GGTAATTTTACCCCACAAGTGTATCTC
1 GGTAATTTTACCCTACAAGGGTATTTC
* * *
13390615 GGTAATTCTAACCTACAGGGGTATTTC
1 GGTAATTTTACCCTACAAGGGTATTTC
* * *
13390642 AGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTTTACCCTACAAGGGTATTTC
*
13390669 AGT-ATTTCTACCCTACAAGGGTATTTC
1 GGTAATTT-TACCCTACAAGGGTATTTC
*
13390696 GGT-ATTTCTACCCTACAAGGGTATTTT
1 GGTAATTT-TACCCTACAAGGGTATTTC
13390723 GGTAATTTT
1 GGTAATTTT
13390732 GTAAATCTAG
Statistics
Matches: 103, Mismatches: 12, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
26 3 0.03
27 96 0.93
28 4 0.04
ACGTcount: A:0.25, C:0.20, G:0.18, T:0.37
Consensus pattern (27 bp):
GGTAATTTTACCCTACAAGGGTATTTC
Found at i:13390781 original size:27 final size:27
Alignment explanation
Indices: 13390713--13390783 Score: 81
Period size: 27 Copynumber: 2.6 Consensus size: 27
13390703 CTACCCTACA
* *
13390713 AGGGTATTTTGGTAATTTTGTAAATCT
1 AGGGTAATTTGGTAATTCTGTAAATCT
** *
13390740 AGGGTAAAATAGTAATTCTGTAAATC-
1 AGGGTAATTTGGTAATTCTGTAAATCT
13390766 AGGGGTAATTTGGTAATT
1 A-GGGTAATTTGGTAATT
13390784 TTACAAGTCG
Statistics
Matches: 35, Mismatches: 8, Indels: 2
0.78 0.18 0.04
Matches are distributed among these distances:
26 1 0.03
27 34 0.97
ACGTcount: A:0.32, C:0.04, G:0.24, T:0.39
Consensus pattern (27 bp):
AGGGTAATTTGGTAATTCTGTAAATCT
Found at i:13390825 original size:81 final size:81
Alignment explanation
Indices: 13390740--13390896 Score: 192
Period size: 81 Copynumber: 1.9 Consensus size: 81
13390730 TTGTAAATCT
** * *
13390740 AGGGTAAAATAGTAA-TTCTGTAAATCAGGGGTAATTTGGTAATTTTACAAGTCGA-GGGTATTT
1 AGGGTAAAATAGTAATTTC-ACAAATCAAGGGTAATTTGGTAATTTTACAA-ACGAGGGGTATTT
13390803 TAATAATTTTACAGGTTG
64 TAATAATTTTACAGGTTG
*** * * *
13390821 AGGGTATTTTAGTAATTTCACAAATCAAGGGTATTTTGGTAATTTTACAAACTAGGGGTATTTTG
1 AGGGTAAAATAGTAATTTCACAAATCAAGGGTAATTTGGTAATTTTACAAACGAGGGGTATTTTA
13390886 ATAATTTTACA
66 ATAATTTTACA
13390897 AACCAGGGGT
Statistics
Matches: 64, Mismatches: 10, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
80 2 0.03
81 59 0.92
82 3 0.05
ACGTcount: A:0.33, C:0.07, G:0.21, T:0.39
Consensus pattern (81 bp):
AGGGTAAAATAGTAATTTCACAAATCAAGGGTAATTTGGTAATTTTACAAACGAGGGGTATTTTA
ATAATTTTACAGGTTG
Found at i:13391195 original size:27 final size:27
Alignment explanation
Indices: 13390765--13391188 Score: 449
Period size: 27 Copynumber: 15.7 Consensus size: 27
13390755 TTCTGTAAAT
* **
13390765 CAGGGGTAATTTGGTAATTTTACAAGT
1 CAGGGGTATTTTGGTAATTTTACAAAC
** **
13390792 C-GAGGGTATTTTAATAATTTTAC-AGG
1 CAG-GGGTATTTTGGTAATTTTACAAAC
** * * *
13390818 TTGAGGGTATTTTAGTAATTTCACAAAT
1 CAG-GGGTATTTTGGTAATTTTACAAAC
*
13390846 CAAGGGTATTTTGGTAATTTTACAAAC
1 CAGGGGTATTTTGGTAATTTTACAAAC
* *
13390873 TAGGGGTATTTTGATAATTTTACAAAC
1 CAGGGGTATTTTGGTAATTTTACAAAC
*
13390900 CAGGGGTATTTTGGTAATTTTATAAAC
1 CAGGGGTATTTTGGTAATTTTACAAAC
* * *
13390927 AAAGGGTATTTTAGTAATTTTACAAAC
1 CAGGGGTATTTTGGTAATTTTACAAAC
**
13390954 CAGGGGTATTTTGGTAATTTTGTAAAC
1 CAGGGGTATTTTGGTAATTTTACAAAC
*
13390981 CA-AGGTATTTTGGTAATTTTACAAAC
1 CAGGGGTATTTTGGTAATTTTACAAAC
*
13391007 CAGGGGTATTTTGGTAATTTTATAAAC
1 CAGGGGTATTTTGGTAATTTTACAAAC
** * *
13391034 CAAAGGTATTCTAGTAATTTTACAAAC
1 CAGGGGTATTTTGGTAATTTTACAAAC
* * *
13391061 CAGAGGTATTTTGGTGATTTTATAAAC
1 CAGGGGTATTTTGGTAATTTTACAAAC
* * * *
13391088 CAAGGGTGTTCTAGTAATTTTACAAAC
1 CAGGGGTATTTTGGTAATTTTACAAAC
* **
13391115 CAGGGGTATTTGGGTAATTTTGTAAAC
1 CAGGGGTATTTTGGTAATTTTACAAAC
* **
13391142 CAAGGGTATTTTACTAATTTTACAAAC
1 CAGGGGTATTTTGGTAATTTTACAAAC
13391169 CAGGGGTATTTTGGTAATTT
1 CAGGGGTATTTTGGTAATTT
13391189 GGTAAACTAA
Statistics
Matches: 325, Mismatches: 68, Indels: 8
0.81 0.17 0.02
Matches are distributed among these distances:
26 26 0.08
27 298 0.92
28 1 0.00
ACGTcount: A:0.32, C:0.09, G:0.20, T:0.39
Consensus pattern (27 bp):
CAGGGGTATTTTGGTAATTTTACAAAC
Found at i:13391195 original size:54 final size:54
Alignment explanation
Indices: 13390821--13391188 Score: 551
Period size: 54 Copynumber: 6.8 Consensus size: 54
13390811 TTACAGGTTG
* * * * *
13390821 AGGGTATTTTAGTAATTTCACAAATCAAGGGTATTTTGGTAATTTTACAAACTA
1 AGGGTATTTTAGTAATTTTACAAACCAGGGGTATTTTGGTAATTTTATAAACCA
* *
13390875 GGGGTATTTT-GATAATTTTACAAACCAGGGGTATTTTGGTAATTTTATAAACAA
1 AGGGTATTTTAG-TAATTTTACAAACCAGGGGTATTTTGGTAATTTTATAAACCA
*
13390929 AGGGTATTTTAGTAATTTTACAAACCAGGGGTATTTTGGTAATTTTGTAAACCA
1 AGGGTATTTTAGTAATTTTACAAACCAGGGGTATTTTGGTAATTTTATAAACCA
*
13390983 A-GGTATTTTGGTAATTTTACAAACCAGGGGTATTTTGGTAATTTTATAAACCA
1 AGGGTATTTTAGTAATTTTACAAACCAGGGGTATTTTGGTAATTTTATAAACCA
* * * *
13391036 AAGGTATTCTAGTAATTTTACAAACCAGAGGTATTTTGGTGATTTTATAAACCA
1 AGGGTATTTTAGTAATTTTACAAACCAGGGGTATTTTGGTAATTTTATAAACCA
* * * *
13391090 AGGGTGTTCTAGTAATTTTACAAACCAGGGGTATTTGGGTAATTTTGTAAACCA
1 AGGGTATTTTAGTAATTTTACAAACCAGGGGTATTTTGGTAATTTTATAAACCA
*
13391144 AGGGTATTTTACTAATTTTACAAACCAGGGGTATTTTGGTAATTT
1 AGGGTATTTTAGTAATTTTACAAACCAGGGGTATTTTGGTAATTT
13391189 GGTAAACTAA
Statistics
Matches: 286, Mismatches: 25, Indels: 6
0.90 0.08 0.02
Matches are distributed among these distances:
53 52 0.18
54 233 0.81
55 1 0.00
ACGTcount: A:0.32, C:0.10, G:0.20, T:0.39
Consensus pattern (54 bp):
AGGGTATTTTAGTAATTTTACAAACCAGGGGTATTTTGGTAATTTTATAAACCA
Found at i:13397834 original size:42 final size:42
Alignment explanation
Indices: 13397766--13397891 Score: 164
Period size: 42 Copynumber: 3.0 Consensus size: 42
13397756 CTTCGTTTTC
** * *
13397766 TCGATGCCATAGTTCAACTATGGTCTTACACATCTTCACATAA
1 TCGATGCCATAGCCCAGCTATGGTCTTACACATATTCACAT-A
* *
13397809 T-GATGCCATAGCCCAGCTATAGTCTTACACATATTCATATA
1 TCGATGCCATAGCCCAGCTATGGTCTTACACATATTCACATA
* *
13397850 TCGATGCCATAGCCCAGCTATGGTCTTACACGTAATCACATA
1 TCGATGCCATAGCCCAGCTATGGTCTTACACATATTCACATA
13397892 CCAGATATGG
Statistics
Matches: 72, Mismatches: 10, Indels: 3
0.85 0.12 0.04
Matches are distributed among these distances:
41 2 0.03
42 69 0.96
43 1 0.01
ACGTcount: A:0.30, C:0.26, G:0.13, T:0.30
Consensus pattern (42 bp):
TCGATGCCATAGCCCAGCTATGGTCTTACACATATTCACATA
Found at i:13398025 original size:31 final size:31
Alignment explanation
Indices: 13397982--13398130 Score: 210
Period size: 31 Copynumber: 4.8 Consensus size: 31
13397972 CTTGTCACTT
* *
13397982 GTAGCCGAAGCTACCACTATTCACTGATCAG
1 GTAGCAGAAGCTACCACTTTTCACTGATCAG
* *
13398013 GTAGTC-GGAGCTACCATTTTTCACTGATCAG
1 GTAG-CAGAAGCTACCACTTTTCACTGATCAG
* * *
13398044 GTAGCTGGAGCTACCACTTTTCACTAATCAG
1 GTAGCAGAAGCTACCACTTTTCACTGATCAG
13398075 GTAGCAGAAGCTACCACTTTTCACTGATCAG
1 GTAGCAGAAGCTACCACTTTTCACTGATCAG
*
13398106 GTAGCCGAAGCTACCACTTTTCACT
1 GTAGCAGAAGCTACCACTTTTCACT
13398131 TGTCATTTGC
Statistics
Matches: 107, Mismatches: 9, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
30 1 0.01
31 105 0.98
32 1 0.01
ACGTcount: A:0.26, C:0.27, G:0.19, T:0.28
Consensus pattern (31 bp):
GTAGCAGAAGCTACCACTTTTCACTGATCAG
Found at i:13398214 original size:50 final size:51
Alignment explanation
Indices: 13398106--13398234 Score: 190
Period size: 50 Copynumber: 2.5 Consensus size: 51
13398096 CACTGATCAG
* * *
13398106 GTAGCCGAAGCTACCACTTTTCACTTGTCATTTGCCATTGATCAGATAAGT
1 GTAGCCGAAGCTATCACTTATCACTTGTCACTTGCCATTGATCAGATAAGT
* *
13398157 GCAGCCGAAGCTATCACTTACCACTT-TCACTTGTCC-TTGATCAGATAAGT
1 GTAGCCGAAGCTATCACTTATCACTTGTCACTTG-CCATTGATCAGATAAGT
13398207 GTAGCCGAAGCTATCACTTATCACTTGT
1 GTAGCCGAAGCTATCACTTATCACTTGT
13398235 TGTCATGGTC
Statistics
Matches: 69, Mismatches: 7, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
50 44 0.64
51 25 0.36
ACGTcount: A:0.26, C:0.26, G:0.17, T:0.32
Consensus pattern (51 bp):
GTAGCCGAAGCTATCACTTATCACTTGTCACTTGCCATTGATCAGATAAGT
Found at i:13400115 original size:40 final size:40
Alignment explanation
Indices: 13400007--13400116 Score: 148
Period size: 40 Copynumber: 2.8 Consensus size: 40
13399997 ATTGAATGAT
* * * * *
13400007 ATCCGGGCTAAGTCCCGAAGACATTTATGCTGGTAATTAC
1 ATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTAACTAC
* * *
13400047 ATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGACTAC
1 ATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTAACTAC
13400087 ATCCGGGCTAAGACCCGAAGGCATTTGTGC
1 ATCCGGGCTAAGACCCGAAGGCATTTGTGC
13400117 AAATTGTGAA
Statistics
Matches: 60, Mismatches: 10, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
40 60 1.00
ACGTcount: A:0.26, C:0.24, G:0.26, T:0.24
Consensus pattern (40 bp):
ATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTAACTAC
Found at i:13400131 original size:40 final size:39
Alignment explanation
Indices: 13400007--13400156 Score: 133
Period size: 40 Copynumber: 3.8 Consensus size: 39
13399997 ATTGAATGAT
* * * * * * *
13400007 ATCCGGGCTAAGTCCCGAAGACATTTATGCTGGTAATTAC
1 ATCCGGGTTAAGACCCGAAGGCATTTGTGCTAGTGA-CAC
*
13400047 ATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGACTAC
1 ATCCGGGTTAAGACCCGAAGGCATTTGTGCTAGTGAC-AC
* *
13400087 ATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATTGTGA-A-
1 ATCCGGGTTAAGACCCGAAGGCATTTGTGC---TAGTGACAC
* *
13400127 ATCCGGGTTAAGTCCCGAAGGCCTTTGTGC
1 ATCCGGGTTAAGACCCGAAGGCATTTGTGC
13400157 GGGTTACCAT
Statistics
Matches: 92, Mismatches: 14, Indels: 8
0.81 0.12 0.07
Matches are distributed among these distances:
40 86 0.93
41 1 0.01
43 5 0.05
ACGTcount: A:0.26, C:0.23, G:0.27, T:0.25
Consensus pattern (39 bp):
ATCCGGGTTAAGACCCGAAGGCATTTGTGCTAGTGACAC
Found at i:13400201 original size:14 final size:14
Alignment explanation
Indices: 13400182--13400212 Score: 62
Period size: 14 Copynumber: 2.2 Consensus size: 14
13400172 GGCATTTGAA
13400182 CGGGTTACCATAAC
1 CGGGTTACCATAAC
13400196 CGGGTTACCATAAC
1 CGGGTTACCATAAC
13400210 CGG
1 CGG
13400213 TTAAACTCCG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.26, C:0.29, G:0.26, T:0.19
Consensus pattern (14 bp):
CGGGTTACCATAAC
Found at i:13402580 original size:16 final size:18
Alignment explanation
Indices: 13402549--13402583 Score: 56
Period size: 16 Copynumber: 2.1 Consensus size: 18
13402539 CAATTAACCC
13402549 CTCAATTAAGATAATTTT
1 CTCAATTAAGATAATTTT
13402567 CTCAATT-A-ATAATTTT
1 CTCAATTAAGATAATTTT
13402583 C
1 C
13402584 CTAGACATTA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 9 0.53
17 1 0.06
18 7 0.41
ACGTcount: A:0.37, C:0.14, G:0.03, T:0.46
Consensus pattern (18 bp):
CTCAATTAAGATAATTTT
Found at i:13421345 original size:22 final size:22
Alignment explanation
Indices: 13421317--13421362 Score: 92
Period size: 22 Copynumber: 2.1 Consensus size: 22
13421307 TGAGGAGTTT
13421317 ATACTCCTCATTCCTACTATTA
1 ATACTCCTCATTCCTACTATTA
13421339 ATACTCCTCATTCCTACTATTA
1 ATACTCCTCATTCCTACTATTA
13421361 AT
1 AT
13421363 CTCATTAAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.28, C:0.30, G:0.00, T:0.41
Consensus pattern (22 bp):
ATACTCCTCATTCCTACTATTA
Found at i:13426437 original size:9 final size:9
Alignment explanation
Indices: 13426423--13426468 Score: 53
Period size: 9 Copynumber: 5.3 Consensus size: 9
13426413 ATCATAAATC
13426423 CATGTAATT
1 CATGTAATT
13426432 CATGTAATT
1 CATGTAATT
13426441 CATGTAACTT
1 CATGTAA-TT
13426451 -A--TAATT
1 CATGTAATT
*
13426457 CATGTAAAT
1 CATGTAATT
13426466 CAT
1 CAT
13426469 ATAGCTCTTA
Statistics
Matches: 32, Mismatches: 1, Indels: 8
0.78 0.02 0.20
Matches are distributed among these distances:
6 2 0.06
7 4 0.12
9 24 0.75
10 2 0.06
ACGTcount: A:0.37, C:0.13, G:0.09, T:0.41
Consensus pattern (9 bp):
CATGTAATT
Found at i:13426709 original size:23 final size:23
Alignment explanation
Indices: 13426645--13426725 Score: 101
Period size: 23 Copynumber: 3.6 Consensus size: 23
13426635 CTAAGCTGAT
*
13426645 AAACGGTAAGCTCTGAAGAGCTG
1 AAACGGTAAGCTCCGAAGAGCTG
* *
13426668 -AACAGTAAGCTCCGTAGAGCTG
1 AAACGGTAAGCTCCGAAGAGCTG
* * *
13426690 AAACGGTAAGCCCCAAAGAGCTA
1 AAACGGTAAGCTCCGAAGAGCTG
13426713 AAACGGTAAGCTC
1 AAACGGTAAGCTC
13426726 ATACGAGCTA
Statistics
Matches: 48, Mismatches: 9, Indels: 2
0.81 0.15 0.03
Matches are distributed among these distances:
22 19 0.40
23 29 0.60
ACGTcount: A:0.37, C:0.22, G:0.26, T:0.15
Consensus pattern (23 bp):
AAACGGTAAGCTCCGAAGAGCTG
Found at i:13426733 original size:23 final size:23
Alignment explanation
Indices: 13426645--13426735 Score: 73
Period size: 23 Copynumber: 4.0 Consensus size: 23
13426635 CTAAGCTGAT
13426645 AAACGGTAAGCTC-TGAAGAGCT-
1 AAACGGTAAGCTCAT-AAGAGCTA
* * * *
13426667 GAACAGTAAGCTCCGT-AGAGCTG
1 AAACGGTAAGCT-CATAAGAGCTA
*
13426690 AAACGGTAAGCCCCA-AAGAGCTA
1 AAACGGTAAG-CTCATAAGAGCTA
*
13426713 AAACGGTAAGCTCATACGAGCTA
1 AAACGGTAAGCTCATAAGAGCTA
13426736 TGGTGAGTCC
Statistics
Matches: 54, Mismatches: 9, Indels: 11
0.73 0.12 0.15
Matches are distributed among these distances:
22 19 0.35
23 33 0.61
24 2 0.04
ACGTcount: A:0.37, C:0.22, G:0.25, T:0.15
Consensus pattern (23 bp):
AAACGGTAAGCTCATAAGAGCTA
Found at i:13431363 original size:119 final size:119
Alignment explanation
Indices: 13431152--13431378 Score: 384
Period size: 119 Copynumber: 1.9 Consensus size: 119
13431142 GAACCTATGA
13431152 TCAAAGACTCTGTTAGTGACCTAAATGTTTAAAAATTGAAATTTAAATAATTTAAAACCGTTAGT
1 TCAAAGACTCTGTTAGTGACCTAAATGTTTAAAAATTGAAATTTAAATAATTTAAAACCGTTAGT
* *
13431217 ACTCAGGTTGTCTCCCGAGAAGTGCTTGTTTATAGTCTAAGCTCGAACTTGTGC
66 ACTCAGGTTGCCTCCCGAGAAGCGCTTGTTTATAGTCTAAGCTCGAACTTGTGC
* *
13431271 TCAAAGACTCTGTTAGTGACCTAGATGTTTAAAAATTGAAATTTAAATAATTTAAAACTGTTAGT
1 TCAAAGACTCTGTTAGTGACCTAAATGTTTAAAAATTGAAATTTAAATAATTTAAAACCGTTAGT
**
13431336 ACTC-GAGTTGCCTCTTGAGAAGCGCTTGTTTATAGTCTAAGCT
66 ACTCAG-GTTGCCTCCCGAGAAGCGCTTGTTTATAGTCTAAGCT
13431379 TGACTGTTAC
Statistics
Matches: 101, Mismatches: 6, Indels: 2
0.93 0.06 0.02
Matches are distributed among these distances:
118 1 0.01
119 100 0.99
ACGTcount: A:0.32, C:0.15, G:0.18, T:0.35
Consensus pattern (119 bp):
TCAAAGACTCTGTTAGTGACCTAAATGTTTAAAAATTGAAATTTAAATAATTTAAAACCGTTAGT
ACTCAGGTTGCCTCCCGAGAAGCGCTTGTTTATAGTCTAAGCTCGAACTTGTGC
Found at i:13441757 original size:13 final size:13
Alignment explanation
Indices: 13441741--13441773 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
13441731 TTTAATTAAA
*
13441741 TTAGTTAATTAGT
1 TTAGATAATTAGT
13441754 TTAGATAATTAGT
1 TTAGATAATTAGT
13441767 TTA-ATAA
1 TTAGATAA
13441774 ACAAACCCTT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
12 4 0.21
13 15 0.79
ACGTcount: A:0.39, C:0.00, G:0.12, T:0.48
Consensus pattern (13 bp):
TTAGATAATTAGT
Found at i:13445117 original size:40 final size:40
Alignment explanation
Indices: 13445009--13445218 Score: 305
Period size: 40 Copynumber: 5.2 Consensus size: 40
13444999 CGGGATTTAA
* * * * *
13445009 CCGGATATAGCGACTCGCACGATTGCCTTCGGGTCATAAC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
* * * * * *
13445049 CCGGATTTGGT-GACTTGCACAAAGGCCTTCGGGTCTTAGC
1 CCGGATAT-ATCAACTCGCACGAATGCCTTCGGGTCTTAGC
13445089 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
13445129 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
13445169 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
13445209 CCGGATATAT
1 CCGGATATAT
13445219 TTCCAATGTT
Statistics
Matches: 153, Mismatches: 15, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
39 1 0.01
40 152 0.99
ACGTcount: A:0.22, C:0.29, G:0.24, T:0.25
Consensus pattern (40 bp):
CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
Found at i:13453250 original size:40 final size:40
Alignment explanation
Indices: 13453142--13453351 Score: 305
Period size: 40 Copynumber: 5.2 Consensus size: 40
13453132 CGGGATTTAA
* * * * *
13453142 CCGGATATAGCGACTCGCACGATTGCCTTCGGGTCATAAC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
* * * * * *
13453182 CCGGATTTGGT-GACTTGCACAAAGGCCTTCGGGTCTTAGC
1 CCGGATAT-ATCAACTCGCACGAATGCCTTCGGGTCTTAGC
13453222 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
13453262 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
13453302 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
13453342 CCGGATATAT
1 CCGGATATAT
13453352 TTCCAATGTT
Statistics
Matches: 153, Mismatches: 15, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
39 1 0.01
40 152 0.99
ACGTcount: A:0.22, C:0.29, G:0.24, T:0.25
Consensus pattern (40 bp):
CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
Found at i:13461199 original size:22 final size:23
Alignment explanation
Indices: 13461160--13461203 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 23
13461150 TAAGTTAATA
*
13461160 AAATATATTATAACATAAAAAAT
1 AAATATATAATAACATAAAAAAT
*
13461183 AAATA-ATAATAATATAAAAAA
1 AAATATATAATAACATAAAAAA
13461204 AAGGAGAAAG
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 14 0.74
23 5 0.26
ACGTcount: A:0.70, C:0.02, G:0.00, T:0.27
Consensus pattern (23 bp):
AAATATATAATAACATAAAAAAT
Found at i:13469676 original size:66 final size:66
Alignment explanation
Indices: 13469600--13469747 Score: 251
Period size: 66 Copynumber: 2.2 Consensus size: 66
13469590 AGTCAGTAGC
* *
13469600 TTCACACGGCCTAGCACATGGGCGTGTGGCTTGGCCGTGTGGCACAAGTCAGTAAACCCTCTAGT
1 TTCACACGGCCTAGCACATGGGCGTGTGGCTTGGCCATATGGCACAAGTCAGTAAACCCTCTAGT
13469665 T
66 T
*
13469666 TTCACACGGCCTAGCACATGGGCGTGTGGCTTGGCCATATGGCACAAGTCAGTATACCCTCTAGT
1 TTCACACGGCCTAGCACATGGGCGTGTGGCTTGGCCATATGGCACAAGTCAGTAAACCCTCTAGT
13469731 T
66 T
* *
13469732 TTTACATGGCCTAGCA
1 TTCACACGGCCTAGCA
13469748 TACGGCTTGG
Statistics
Matches: 77, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
66 77 1.00
ACGTcount: A:0.21, C:0.27, G:0.26, T:0.26
Consensus pattern (66 bp):
TTCACACGGCCTAGCACATGGGCGTGTGGCTTGGCCATATGGCACAAGTCAGTAAACCCTCTAGT
T
Found at i:13470433 original size:60 final size:60
Alignment explanation
Indices: 13470340--13470455 Score: 169
Period size: 60 Copynumber: 1.9 Consensus size: 60
13470330 ATACCCTTCG
** *
13470340 ATGAGACCACACAATATAGGTTCATTCCATCATATAGGCGAACCCACATCGTATAATTCT
1 ATGAGACCACACAATATAGGTTCACACCATCATAAAGGCGAACCCACATCGTATAATTCT
* * * *
13470400 ATGAGACCACACAATGTTGGTTCACACCGTCATAAAGGTGAACCCACATCGTATAA
1 ATGAGACCACACAATATAGGTTCACACCATCATAAAGGCGAACCCACATCGTATAA
13470456 ACATGTGTTA
Statistics
Matches: 49, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
60 49 1.00
ACGTcount: A:0.35, C:0.25, G:0.16, T:0.24
Consensus pattern (60 bp):
ATGAGACCACACAATATAGGTTCACACCATCATAAAGGCGAACCCACATCGTATAATTCT
Found at i:13471374 original size:33 final size:33
Alignment explanation
Indices: 13471318--13471399 Score: 96
Period size: 33 Copynumber: 2.5 Consensus size: 33
13471308 ATCTTTAAGC
* *
13471318 TTTATTTTAGTTTATTCTAATTTA-AGTTTAGA
1 TTTATTTTATTTTAATCTAATTTATAGTTTAGA
* *
13471350 TATTATTTTATTTTCAATCT-ATTTATATTTTATA
1 T-TTATTTTATTTT-AATCTAATTTATAGTTTAGA
13471384 TTTATTTTATTTTAAT
1 TTTATTTTATTTTAAT
13471400 TATAATTATT
Statistics
Matches: 43, Mismatches: 4, Indels: 6
0.81 0.08 0.11
Matches are distributed among these distances:
32 4 0.09
33 28 0.65
34 11 0.26
ACGTcount: A:0.28, C:0.04, G:0.04, T:0.65
Consensus pattern (33 bp):
TTTATTTTATTTTAATCTAATTTATAGTTTAGA
Found at i:13471457 original size:65 final size:65
Alignment explanation
Indices: 13471382--13471511 Score: 251
Period size: 65 Copynumber: 2.0 Consensus size: 65
13471372 TTATATTTTA
13471382 TATTTATTTTATTTTAATTATAATTATTCGAATATATATTATTTAAAATTATAAACTTTAAAAAT
1 TATTTATTTTATTTTAATTATAATTATTCGAATATATATTATTTAAAATTATAAACTTTAAAAAT
*
13471447 TATTTATTTTATTTTAATTATAATTATTTGAATATATATTATTTAAAATTATAAACTTTAAAAAT
1 TATTTATTTTATTTTAATTATAATTATTCGAATATATATTATTTAAAATTATAAACTTTAAAAAT
13471512 AATTAATCAT
Statistics
Matches: 64, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
65 64 1.00
ACGTcount: A:0.43, C:0.02, G:0.02, T:0.53
Consensus pattern (65 bp):
TATTTATTTTATTTTAATTATAATTATTCGAATATATATTATTTAAAATTATAAACTTTAAAAAT
Found at i:13473069 original size:30 final size:30
Alignment explanation
Indices: 13473043--13473098 Score: 73
Period size: 28 Copynumber: 1.9 Consensus size: 30
13473033 TGTAATTTCT
13473043 TAAATAATTATTAA-AAA-TAT-AATAATTAC
1 TAAA-AATTA-TAAGAAATTATAAATAATTAC
13473072 TAAAAATTATAAGAAATTATAAATAAT
1 TAAAAATTATAAGAAATTATAAATAAT
13473099 CAGAAAGTTG
Statistics
Matches: 24, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
27 3 0.12
28 8 0.33
29 7 0.29
30 6 0.25
ACGTcount: A:0.61, C:0.02, G:0.02, T:0.36
Consensus pattern (30 bp):
TAAAAATTATAAGAAATTATAAATAATTAC
Found at i:13473088 original size:10 final size:9
Alignment explanation
Indices: 13473043--13473128 Score: 59
Period size: 9 Copynumber: 9.2 Consensus size: 9
13473033 TGTAATTTCT
13473043 TAAATAATTA
1 TAAA-AATTA
13473053 TTAAAAA-TA
1 -TAAAAATTA
*
13473062 TAATAATTA
1 TAAAAATTA
13473071 CTAAAAATTA
1 -TAAAAATTA
13473081 TAAGAAATTA
1 TAA-AAATTA
*
13473091 TAAATAATCA
1 TAAA-AATTA
* * *
13473101 -GAAAGTTG
1 TAAAAATTA
*
13473109 TACAAATTA
1 TAAAAATTA
13473118 TAAAAATTA
1 TAAAAATTA
13473127 TA
1 TA
13473129 TATATACACA
Statistics
Matches: 58, Mismatches: 12, Indels: 12
0.71 0.15 0.15
Matches are distributed among these distances:
8 7 0.12
9 24 0.41
10 23 0.40
11 4 0.07
ACGTcount: A:0.58, C:0.03, G:0.05, T:0.34
Consensus pattern (9 bp):
TAAAAATTA
Found at i:13473169 original size:2 final size:2
Alignment explanation
Indices: 13473162--13473186 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
13473152 AAGAATTCAA
13473162 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
13473187 CACATATTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:13473254 original size:11 final size:11
Alignment explanation
Indices: 13473238--13473286 Score: 71
Period size: 11 Copynumber: 4.5 Consensus size: 11
13473228 TGATGAGTCC
13473238 TATTTTATTAT
1 TATTTTATTAT
13473249 TATTTTATTAT
1 TATTTTATTAT
13473260 TATTTTATTAT
1 TATTTTATTAT
* *
13473271 TTTTTTTTTAT
1 TATTTTATTAT
*
13473282 AATTT
1 TATTT
13473287 CTTGTAATTC
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
11 34 1.00
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (11 bp):
TATTTTATTAT
Done.