Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A11
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: 114316535
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 4920000 characters in sequence are not A, C, G, or T
File 320 of 356
Found at i:103485616 original size:24 final size:25
Alignment explanation
Indices: 103485580--103485626 Score: 62
Period size: 24 Copynumber: 1.9 Consensus size: 25
103485570 ACAATATATA
103485580 TAAAAAAACATATA-AAACAATTTTT
1 TAAAAAAACATATATAAA-AATTTTT
*
103485605 TAAAAATA-ATATATAAAAATTT
1 TAAAAAAACATATATAAAAATTT
103485627 AAAAGATAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
24 10 0.50
25 10 0.50
ACGTcount: A:0.62, C:0.04, G:0.00, T:0.34
Consensus pattern (25 bp):
TAAAAAAACATATATAAAAATTTTT
Found at i:103485638 original size:22 final size:23
Alignment explanation
Indices: 103485603--103485665 Score: 78
Period size: 22 Copynumber: 2.8 Consensus size: 23
103485593 AAAACAATTT
103485603 TTTAAAAATAATATATA-AA-AA
1 TTTAAAAATAATATATATAATAA
*
103485624 TTTAAAAGATAATATATATAATAG
1 TTTAAAA-ATAATATATATAATAA
103485648 TTTAAAAA-AATAATATAT
1 TTTAAAAATAAT-ATATAT
103485666 GAAAGAAACT
Statistics
Matches: 37, Mismatches: 1, Indels: 6
0.84 0.02 0.14
Matches are distributed among these distances:
21 7 0.19
22 13 0.35
23 9 0.24
24 8 0.22
ACGTcount: A:0.60, C:0.00, G:0.03, T:0.37
Consensus pattern (23 bp):
TTTAAAAATAATATATATAATAA
Found at i:103485640 original size:24 final size:25
Alignment explanation
Indices: 103485613--103485695 Score: 68
Period size: 25 Copynumber: 3.4 Consensus size: 25
103485603 TTTAAAAATA
103485613 ATAT-ATAAAAATTTAAAAGATAAT
1 ATATCATAAAAATTTAAAAGATAAT
* * *
103485637 ATAT-ATAATAGTTTAAAAAAATAAT
1 ATATCATAAAAATTT-AAAAGATAAT
* *
103485662 ATATGA-AAGAAACTTAAAAGA-AAT
1 ATATCATAA-AAATTTAAAAGATAAT
103485686 A-ATCATAAAA
1 ATATCATAAAA
103485696 GAGCCCCTTT
Statistics
Matches: 47, Mismatches: 8, Indels: 9
0.73 0.12 0.14
Matches are distributed among these distances:
23 5 0.11
24 18 0.38
25 20 0.43
26 4 0.09
ACGTcount: A:0.63, C:0.02, G:0.06, T:0.29
Consensus pattern (25 bp):
ATATCATAAAAATTTAAAAGATAAT
Found at i:103486867 original size:17 final size:17
Alignment explanation
Indices: 103486821--103486858 Score: 69
Period size: 17 Copynumber: 2.3 Consensus size: 17
103486811 GTTTTGTTTG
103486821 TTGGG-CTAGGGTTAAT
1 TTGGGCCTAGGGTTAAT
103486837 TTGGGCCTAGGGTTAAT
1 TTGGGCCTAGGGTTAAT
103486854 TTGGG
1 TTGGG
103486859 TTTAGGGTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
16 5 0.24
17 16 0.76
ACGTcount: A:0.16, C:0.08, G:0.39, T:0.37
Consensus pattern (17 bp):
TTGGGCCTAGGGTTAAT
Found at i:103488088 original size:29 final size:30
Alignment explanation
Indices: 103488056--103488131 Score: 77
Period size: 29 Copynumber: 2.6 Consensus size: 30
103488046 ATTTATTTTG
103488056 TTAT-TCTAATACTATTATTAT-TTATCTAT
1 TTATATCTAATACTATTATTATATT-TCTAT
** *
103488085 TTATAT-TTCTACTATTATTATATTTCTTT
1 TTATATCTAATACTATTATTATATTTCTAT
*
103488114 TTATATACTAATATTATT
1 TTATAT-CTAATACTATT
103488132 TTCATTATTA
Statistics
Matches: 37, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
29 27 0.73
30 3 0.08
31 7 0.19
ACGTcount: A:0.30, C:0.09, G:0.00, T:0.61
Consensus pattern (30 bp):
TTATATCTAATACTATTATTATATTTCTAT
Found at i:103497199 original size:18 final size:18
Alignment explanation
Indices: 103497176--103497213 Score: 67
Period size: 18 Copynumber: 2.1 Consensus size: 18
103497166 AATATATATT
103497176 AACCCAAGTACCCAACCC
1 AACCCAAGTACCCAACCC
*
103497194 AACCCAATTACCCAACCC
1 AACCCAAGTACCCAACCC
103497212 AA
1 AA
103497214 TCATAAAAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.42, C:0.47, G:0.03, T:0.08
Consensus pattern (18 bp):
AACCCAAGTACCCAACCC
Found at i:103497206 original size:13 final size:13
Alignment explanation
Indices: 103497190--103497214 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
103497180 CAAGTACCCA
103497190 ACCCAACCCAATT
1 ACCCAACCCAATT
103497203 ACCCAACCCAAT
1 ACCCAACCCAAT
103497215 CATAAAAATT
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:0.40, C:0.48, G:0.00, T:0.12
Consensus pattern (13 bp):
ACCCAACCCAATT
Found at i:103502915 original size:36 final size:36
Alignment explanation
Indices: 103502868--103502946 Score: 151
Period size: 36 Copynumber: 2.2 Consensus size: 36
103502858 CAACCAATAT
103502868 ATCAAG-ATTAAAGAAGAGGACTATGATGGCCATAG
1 ATCAAGCATTAAAGAAGAGGACTATGATGGCCATAG
103502903 ATCAAGCATTAAAGAAGAGGACTATGATGGCCATAG
1 ATCAAGCATTAAAGAAGAGGACTATGATGGCCATAG
103502939 ATCAAGCA
1 ATCAAGCA
103502947 AAAGTATTCT
Statistics
Matches: 43, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
35 6 0.14
36 37 0.86
ACGTcount: A:0.43, C:0.14, G:0.24, T:0.19
Consensus pattern (36 bp):
ATCAAGCATTAAAGAAGAGGACTATGATGGCCATAG
Found at i:103505517 original size:15 final size:16
Alignment explanation
Indices: 103505487--103505520 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 16
103505477 AACGGGCCTC
103505487 ATTTTTTGTTAAAATTT
1 ATTTTTTGTT-AAATTT
103505504 ATTTTTTGTT-AATTT
1 ATTTTTTGTTAAATTT
103505519 AT
1 AT
103505521 ATTATCTTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 7 0.41
17 10 0.59
ACGTcount: A:0.26, C:0.00, G:0.06, T:0.68
Consensus pattern (16 bp):
ATTTTTTGTTAAATTT
Found at i:103507321 original size:10 final size:9
Alignment explanation
Indices: 103507305--103507330 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
103507295 GTGTTCCTCA
103507305 ATTTTTTTG
1 ATTTTTTTG
103507314 ATTTTTTTG
1 ATTTTTTTG
103507323 ATTTTTTT
1 ATTTTTTT
103507331 CTCTCAGTAG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.12, C:0.00, G:0.08, T:0.81
Consensus pattern (9 bp):
ATTTTTTTG
Found at i:103523631 original size:39 final size:40
Alignment explanation
Indices: 103523577--103523676 Score: 184
Period size: 40 Copynumber: 2.5 Consensus size: 40
103523567 TAGAACAAAT
103523577 ACAAGTAGCGTAAGTTCCAATA-CCCCCGACCACCCTGAG
1 ACAAGTAGCGTAAGTTCCAATACCCCCCGACCACCCTGAG
*
103523616 ACAAGTAGCGTAAGTTCCAATACCCCCCGACCGCCCTGAG
1 ACAAGTAGCGTAAGTTCCAATACCCCCCGACCACCCTGAG
103523656 ACAAGTAGCGTAAGTTCCAAT
1 ACAAGTAGCGTAAGTTCCAAT
103523677 TATCAACACA
Statistics
Matches: 59, Mismatches: 1, Indels: 1
0.97 0.02 0.02
Matches are distributed among these distances:
39 22 0.37
40 37 0.63
ACGTcount: A:0.31, C:0.33, G:0.19, T:0.17
Consensus pattern (40 bp):
ACAAGTAGCGTAAGTTCCAATACCCCCCGACCACCCTGAG
Found at i:103525211 original size:17 final size:18
Alignment explanation
Indices: 103525166--103525202 Score: 60
Period size: 17 Copynumber: 2.2 Consensus size: 18
103525156 CTAAATTAAT
103525166 TAAT-ATAAAATCTAAAA
1 TAATAATAAAATCTAAAA
103525183 TAATAATAAAAT-TAAAA
1 TAATAATAAAATCTAAAA
103525200 TAA
1 TAA
103525203 ACTTAAAATA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 12 0.63
18 7 0.37
ACGTcount: A:0.68, C:0.03, G:0.00, T:0.30
Consensus pattern (18 bp):
TAATAATAAAATCTAAAA
Found at i:103528741 original size:107 final size:108
Alignment explanation
Indices: 103528575--103528787 Score: 367
Period size: 107 Copynumber: 2.0 Consensus size: 108
103528565 CTTTGGGCAA
*
103528575 CATCCAAAATCTTCGAAGCATAGTAGATAACATGACGCTCTTTCCCTATTCTTTGGCCAAGAACA
1 CATCCAAAATCTTCGAAGCATAGTAGATAACATGACGCTCTTTCCCTATTCTTTAGCCAAGAACA
103528640 GCTCTC-ACACTTTGGTCACTCGCATCACACATGATTTCGAAAG
66 GCTC-CGACACTTTGGTCACTCGCATCACACATGATTTCGAAAG
* * *
103528683 CATCCAAAGTCTTCGAAGCATAGT-GATAACATGAGGCTCTTTCTCTATTCTTTAGCCAAGAACA
1 CATCCAAAATCTTCGAAGCATAGTAGATAACATGACGCTCTTTCCCTATTCTTTAGCCAAGAACA
103528747 GCTCCGACACTTTGGTCACTCGCATCACACATGATTTCGAA
66 GCTCCGACACTTTGGTCACTCGCATCACACATGATTTCGAA
103528788 TGGGAAGTTC
Statistics
Matches: 100, Mismatches: 4, Indels: 3
0.93 0.04 0.03
Matches are distributed among these distances:
106 1 0.01
107 76 0.76
108 23 0.23
ACGTcount: A:0.29, C:0.27, G:0.15, T:0.28
Consensus pattern (108 bp):
CATCCAAAATCTTCGAAGCATAGTAGATAACATGACGCTCTTTCCCTATTCTTTAGCCAAGAACA
GCTCCGACACTTTGGTCACTCGCATCACACATGATTTCGAAAG
Found at i:103533698 original size:18 final size:16
Alignment explanation
Indices: 103533671--103533722 Score: 61
Period size: 18 Copynumber: 3.1 Consensus size: 16
103533661 CTAAATTAAT
103533671 TAATATAAAATCTAAAA
1 TAATATAAAAT-TAAAA
103533688 TAATAATAAAATTAAAAA
1 TAAT-ATAAAATT-AAAA
*
103533706 TAA-ATAAACTTAAAA
1 TAATATAAAATTAAAA
103533721 TA
1 TA
103533723 TGATTTTCTA
Statistics
Matches: 32, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
15 6 0.19
16 7 0.22
17 5 0.16
18 14 0.44
ACGTcount: A:0.67, C:0.04, G:0.00, T:0.29
Consensus pattern (16 bp):
TAATATAAAATTAAAA
Found at i:103538125 original size:27 final size:27
Alignment explanation
Indices: 103538082--103538143 Score: 90
Period size: 27 Copynumber: 2.3 Consensus size: 27
103538072 TCTTAGTTTA
**
103538082 TAATTTTTTATGGTTTTT-ATAAAATT
1 TAATTTTTTATAATTTTTAATAAAATT
103538108 TAATATTTTTATAATTTTTAATAAAATT
1 TAAT-TTTTTATAATTTTTAATAAAATT
103538136 TAATTTTT
1 TAATTTTT
103538144 ATATTAAAAT
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
26 4 0.12
27 16 0.50
28 12 0.38
ACGTcount: A:0.35, C:0.00, G:0.03, T:0.61
Consensus pattern (27 bp):
TAATTTTTTATAATTTTTAATAAAATT
Found at i:103538127 original size:18 final size:18
Alignment explanation
Indices: 103538078--103538130 Score: 61
Period size: 18 Copynumber: 2.9 Consensus size: 18
103538068 ATTATCTTAG
* *
103538078 TTTATAATTTTTTATGGTT
1 TTTATAATTTTTAAT-ATT
**
103538097 TTTATAAAATTTAATATT
1 TTTATAATTTTTAATATT
103538115 TTTATAATTTTTAATA
1 TTTATAATTTTTAATA
103538131 AAATTTAATT
Statistics
Matches: 28, Mismatches: 6, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
18 16 0.57
19 12 0.43
ACGTcount: A:0.34, C:0.00, G:0.04, T:0.62
Consensus pattern (18 bp):
TTTATAATTTTTAATATT
Found at i:103538151 original size:19 final size:17
Alignment explanation
Indices: 103538119--103538158 Score: 62
Period size: 19 Copynumber: 2.2 Consensus size: 17
103538109 AATATTTTTA
103538119 TAATTTTTAATAAAATT
1 TAATTTTTAATAAAATT
103538136 TAATTTTTATATTAAAATT
1 TAATTTTTA-A-TAAAATT
103538155 TAAT
1 TAAT
103538159 GATTTTTATA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
17 9 0.43
18 1 0.05
19 11 0.52
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (17 bp):
TAATTTTTAATAAAATT
Found at i:103539210 original size:27 final size:27
Alignment explanation
Indices: 103539173--103539232 Score: 113
Period size: 27 Copynumber: 2.3 Consensus size: 27
103539163 AATTATTTCA
103539173 TGAG-TTAGTTTGGATCCGTGTTGTAT
1 TGAGTTTAGTTTGGATCCGTGTTGTAT
103539199 TGAGTTTAGTTTGGATCCGTGTTGTAT
1 TGAGTTTAGTTTGGATCCGTGTTGTAT
103539226 TGAGTTT
1 TGAGTTT
103539233 TATATGTTTT
Statistics
Matches: 33, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
26 4 0.12
27 29 0.88
ACGTcount: A:0.15, C:0.07, G:0.30, T:0.48
Consensus pattern (27 bp):
TGAGTTTAGTTTGGATCCGTGTTGTAT
Found at i:103540608 original size:8 final size:9
Alignment explanation
Indices: 103540590--103540690 Score: 60
Period size: 9 Copynumber: 10.7 Consensus size: 9
103540580 ACTATTTTAG
103540590 AAAATTTTT
1 AAAATTTTT
103540599 AAAA-TTTT
1 AAAATTTTT
*
103540607 AATATTCTTT
1 AAAATT-TTT
*
103540617 ATATATTTTTT
1 A-A-AATTTTT
103540628 AGAAATTTTT
1 A-AAATTTTT
** *
103540638 AAAAAATAT
1 AAAATTTTT
*
103540647 ATAATTTTT
1 AAAATTTTT
**
103540656 GGAATTTTT
1 AAAATTTTT
103540665 ATAAATATTTT
1 A-AAAT-TTTT
*
103540676 AAAATTTTA
1 AAAATTTTT
103540685 AAAATT
1 AAAATT
103540691 ATTTTTTTTA
Statistics
Matches: 69, Mismatches: 17, Indels: 12
0.70 0.17 0.12
Matches are distributed among these distances:
8 7 0.10
9 31 0.45
10 18 0.26
11 11 0.16
12 2 0.03
ACGTcount: A:0.44, C:0.01, G:0.03, T:0.52
Consensus pattern (9 bp):
AAAATTTTT
Found at i:103542228 original size:16 final size:16
Alignment explanation
Indices: 103542195--103542228 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
103542185 GAGATGTGTT
* *
103542195 AACATTAATGGGAGAC
1 AACATTAATGGCAAAC
103542211 AACATTAATGGCAAAC
1 AACATTAATGGCAAAC
103542227 AA
1 AA
103542229 TACAAAGTGG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.50, C:0.15, G:0.18, T:0.18
Consensus pattern (16 bp):
AACATTAATGGCAAAC
Found at i:103545053 original size:21 final size:21
Alignment explanation
Indices: 103545027--103545067 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
103545017 AGACGAGCAA
* *
103545027 TACTCCACAGCAGGTGGAGTG
1 TACTCCAAAACAGGTGGAGTG
103545048 TACTCCAAAACAGGTGGAGT
1 TACTCCAAAACAGGTGGAGT
103545068 TTGAGCAGAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.29, C:0.22, G:0.29, T:0.20
Consensus pattern (21 bp):
TACTCCAAAACAGGTGGAGTG
Found at i:103547006 original size:16 final size:16
Alignment explanation
Indices: 103546973--103547006 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
103546963 GGAGATTGTT
* *
103546973 AACATTAATGGGAGAC
1 AACATTAATGGCAAAC
103546989 AACATTAATGGCAAAC
1 AACATTAATGGCAAAC
103547005 AA
1 AA
103547007 TACAAAGTGG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.50, C:0.15, G:0.18, T:0.18
Consensus pattern (16 bp):
AACATTAATGGCAAAC
Found at i:103547667 original size:12 final size:12
Alignment explanation
Indices: 103547650--103547676 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
103547640 GGATGGGATT
103547650 CATATTGCAAAG
1 CATATTGCAAAG
103547662 CATATTGCAAAG
1 CATATTGCAAAG
103547674 CAT
1 CAT
103547677 GTGGCAAGGA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.41, C:0.19, G:0.15, T:0.26
Consensus pattern (12 bp):
CATATTGCAAAG
Found at i:103548062 original size:21 final size:20
Alignment explanation
Indices: 103548020--103548064 Score: 56
Period size: 21 Copynumber: 2.2 Consensus size: 20
103548010 AATTTCTTTG
103548020 TAAACAAAATAAAATAAAAA
1 TAAACAAAATAAAATAAAAA
*
103548040 TAAACAGAAA-AAATATTAAAA
1 TAAACA-AAATAAA-ATAAAAA
103548061 TAAA
1 TAAA
103548065 TTTGTCAAGT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
20 9 0.41
21 13 0.59
ACGTcount: A:0.76, C:0.04, G:0.02, T:0.18
Consensus pattern (20 bp):
TAAACAAAATAAAATAAAAA
Found at i:103556520 original size:13 final size:13
Alignment explanation
Indices: 103556502--103556527 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
103556492 TATCCTTTCC
103556502 ATTTCCTTTGCTT
1 ATTTCCTTTGCTT
103556515 ATTTCCTTTGCTT
1 ATTTCCTTTGCTT
103556528 TTCAATTTTG
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:0.08, C:0.23, G:0.08, T:0.62
Consensus pattern (13 bp):
ATTTCCTTTGCTT
Found at i:103558422 original size:72 final size:72
Alignment explanation
Indices: 103558331--103558480 Score: 255
Period size: 72 Copynumber: 2.1 Consensus size: 72
103558321 GCTCTAGCTT
103558331 TATCAAGAGCTTCATATTTTATCCGGATAACTTTGTTCTATTTTTCTTCCTGTATGAAAAACCCA
1 TATC-AGAGCTTCATATTTTATCCGGATAACTTTGTTCTATTTTTCTTCCTGTATGAAAAACCCA
*
103558396 ACAAATGG
65 AAAAATGG
* * *
103558404 TATCAGAGCTTCATATTTTATTCGGATAACTTTGTTCTGTTTTTCTTCCTGTGTGAAAAACCCAA
1 TATCAGAGCTTCATATTTTATCCGGATAACTTTGTTCTATTTTTCTTCCTGTATGAAAAACCCAA
103558469 AAAATGG
66 AAAATGG
103558476 TATCA
1 TATCA
103558481 AGAGTCTAAG
Statistics
Matches: 73, Mismatches: 4, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
72 69 0.95
73 4 0.05
ACGTcount: A:0.29, C:0.18, G:0.13, T:0.39
Consensus pattern (72 bp):
TATCAGAGCTTCATATTTTATCCGGATAACTTTGTTCTATTTTTCTTCCTGTATGAAAAACCCAA
AAAATGG
Found at i:103562883 original size:37 final size:37
Alignment explanation
Indices: 103562841--103562914 Score: 148
Period size: 37 Copynumber: 2.0 Consensus size: 37
103562831 CTTCTGTTTG
103562841 TTTGGTTGTTTCTTGCAACTCTCATATCTTTGAATCT
1 TTTGGTTGTTTCTTGCAACTCTCATATCTTTGAATCT
103562878 TTTGGTTGTTTCTTGCAACTCTCATATCTTTGAATCT
1 TTTGGTTGTTTCTTGCAACTCTCATATCTTTGAATCT
103562915 CAAACTTATT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 37 1.00
ACGTcount: A:0.16, C:0.19, G:0.14, T:0.51
Consensus pattern (37 bp):
TTTGGTTGTTTCTTGCAACTCTCATATCTTTGAATCT
Found at i:103569026 original size:12 final size:12
Alignment explanation
Indices: 103569009--103569035 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
103568999 TCATATTTAA
103569009 TATCCATGTATG
1 TATCCATGTATG
103569021 TATCCATGTATG
1 TATCCATGTATG
103569033 TAT
1 TAT
103569036 GAGATATGAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.26, C:0.15, G:0.15, T:0.44
Consensus pattern (12 bp):
TATCCATGTATG
Found at i:103574228 original size:27 final size:26
Alignment explanation
Indices: 103574191--103574276 Score: 109
Period size: 27 Copynumber: 3.2 Consensus size: 26
103574181 AGCATGGCTG
* *
103574191 CCAGAATAGATATTATGACAGAGTCA
1 CCAGAATAGATATTATGGCAGAGCCA
*
103574217 CCAGATATAGATATTGTGGCAGAGCCA
1 CCAGA-ATAGATATTATGGCAGAGCCA
* *
103574244 CCAGAACAGATATTTATGGCATAGCCA
1 CCAGAATAGATA-TTATGGCAGAGCCA
103574271 CCAGAA
1 CCAGAA
103574277 CGCTTCCTCC
Statistics
Matches: 52, Mismatches: 6, Indels: 3
0.85 0.10 0.05
Matches are distributed among these distances:
26 11 0.21
27 41 0.79
ACGTcount: A:0.38, C:0.20, G:0.21, T:0.21
Consensus pattern (26 bp):
CCAGAATAGATATTATGGCAGAGCCA
Found at i:103575369 original size:16 final size:16
Alignment explanation
Indices: 103575338--103575369 Score: 55
Period size: 17 Copynumber: 1.9 Consensus size: 16
103575328 GGGTTCGGCT
103575338 ATGGAGAAAAGAAAAA
1 ATGGAGAAAAGAAAAA
103575354 ATGGAAGAAAAGAAAA
1 ATGG-AGAAAAGAAAA
103575370 GGTGAGAAGG
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 4 0.27
17 11 0.73
ACGTcount: A:0.69, C:0.00, G:0.25, T:0.06
Consensus pattern (16 bp):
ATGGAGAAAAGAAAAA
Found at i:103579335 original size:46 final size:46
Alignment explanation
Indices: 103579281--103579600 Score: 473
Period size: 46 Copynumber: 7.0 Consensus size: 46
103579271 GCTCTCTGAA
103579281 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGAT
1 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGAT
*
103579327 -TAGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATAAT
1 AT-GAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGAT
* *
103579373 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATAGCAACCTGAT
1 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGAT
* *
103579419 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAGCCTGAT
1 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGAT
*
103579465 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACGTGAT
1 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGAT
*** *
103579511 ATGAAATGAACAAGACCATGGTTGAAAGATACCATGGCAACATGAC
1 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGAT
* * * * *
103579557 A-GAAAATGAGTAAGACCATAGTTGAAAGACACTATGGCATCATG
1 ATG-AAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATG
103579601 TCAAAGATAA
Statistics
Matches: 252, Mismatches: 19, Indels: 6
0.91 0.07 0.02
Matches are distributed among these distances:
45 2 0.01
46 249 0.99
47 1 0.00
ACGTcount: A:0.40, C:0.14, G:0.23, T:0.23
Consensus pattern (46 bp):
ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGAT
Found at i:103587503 original size:11 final size:11
Alignment explanation
Indices: 103587487--103587537 Score: 50
Period size: 11 Copynumber: 4.5 Consensus size: 11
103587477 TTCAAGTATA
103587487 ATTTTTTTAAT
1 ATTTTTTTAAT
103587498 ATTTTTTTAAT
1 ATTTTTTTAAT
***
103587509 -TTGTTGAAAAT
1 ATT-TTTTTAAT
103587520 ATTTATTTTAAT
1 ATTT-TTTTAAT
103587532 ATTTTT
1 ATTTTT
103587538 AATGTATTAT
Statistics
Matches: 31, Mismatches: 6, Indels: 6
0.72 0.14 0.14
Matches are distributed among these distances:
10 2 0.06
11 19 0.61
12 10 0.32
ACGTcount: A:0.29, C:0.00, G:0.04, T:0.67
Consensus pattern (11 bp):
ATTTTTTTAAT
Found at i:103592589 original size:47 final size:47
Alignment explanation
Indices: 103592432--103592564 Score: 239
Period size: 47 Copynumber: 2.8 Consensus size: 47
103592422 CCGGGATAAG
* *
103592432 CACATAGTGCTTCATCGGAACAAATCCGGAACTTTAACATTATAGTA
1 CACAAAGTACTTCATCGGAACAAATCCGGAACTTTAACATTATAGTA
103592479 CACAAAGTACTTCATCGGAACAAATCCGGAACTTTAACATTATAGTA
1 CACAAAGTACTTCATCGGAACAAATCCGGAACTTTAACATTATAGTA
*
103592526 CATAAAGTACTTCATCGGAACAAATCCGGAACTTTAACA
1 CACAAAGTACTTCATCGGAACAAATCCGGAACTTTAACA
103592565 GTAGTCGACA
Statistics
Matches: 83, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
47 83 1.00
ACGTcount: A:0.39, C:0.22, G:0.14, T:0.26
Consensus pattern (47 bp):
CACAAAGTACTTCATCGGAACAAATCCGGAACTTTAACATTATAGTA
Found at i:103593362 original size:4 final size:4
Alignment explanation
Indices: 103593353--103593377 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
103593343 CCCTTTTCTA
103593353 TTTC TTTC TTTC TTTC TTTC TTTC T
1 TTTC TTTC TTTC TTTC TTTC TTTC T
103593378 CACATTTGCT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 21 1.00
ACGTcount: A:0.00, C:0.24, G:0.00, T:0.76
Consensus pattern (4 bp):
TTTC
Found at i:103603478 original size:26 final size:25
Alignment explanation
Indices: 103603431--103603480 Score: 82
Period size: 26 Copynumber: 2.0 Consensus size: 25
103603421 CTCGTTATAT
103603431 GGCTCTTTGGAGCTTCCCGATTAAA
1 GGCTCTTTGGAGCTTCCCGATTAAA
*
103603456 GGCTCTTTGTGAGCTTCCTGATTAA
1 GGCTCTTTG-GAGCTTCCCGATTAA
103603481 TGGTTCTCTG
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
25 9 0.39
26 14 0.61
ACGTcount: A:0.18, C:0.22, G:0.24, T:0.36
Consensus pattern (25 bp):
GGCTCTTTGGAGCTTCCCGATTAAA
Found at i:103603654 original size:25 final size:25
Alignment explanation
Indices: 103603626--103603681 Score: 94
Period size: 25 Copynumber: 2.2 Consensus size: 25
103603616 CTTCTCGCTT
*
103603626 TACAGCCTGGATAAGCTTCTCATTA
1 TACAGCCTGGATAAGCTTCCCATTA
103603651 TACAGCCTGGATAAGCTTCCCATTA
1 TACAGCCTGGATAAGCTTCCCATTA
*
103603676 TGCAGC
1 TACAGC
103603682 TCAGATGGGC
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
25 29 1.00
ACGTcount: A:0.27, C:0.27, G:0.18, T:0.29
Consensus pattern (25 bp):
TACAGCCTGGATAAGCTTCCCATTA
Found at i:103626982 original size:30 final size:30
Alignment explanation
Indices: 103626948--103627009 Score: 115
Period size: 30 Copynumber: 2.1 Consensus size: 30
103626938 ACTTATTTTA
103626948 TTGTTAATTTTGTTATTATTTTAAAGACAT
1 TTGTTAATTTTGTTATTATTTTAAAGACAT
*
103626978 TTGTTAATTTTGTTATTATTTTAGAGACAT
1 TTGTTAATTTTGTTATTATTTTAAAGACAT
103627008 TT
1 TT
103627010 ACTTGTTAAG
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.27, C:0.03, G:0.11, T:0.58
Consensus pattern (30 bp):
TTGTTAATTTTGTTATTATTTTAAAGACAT
Found at i:103631113 original size:58 final size:58
Alignment explanation
Indices: 103631023--103631144 Score: 244
Period size: 58 Copynumber: 2.1 Consensus size: 58
103631013 TGACGTTGTG
103631023 GAAATATGAGTCAAGGTGGAGATTTGTTGAGTATGACTCCTATTTCAGTCAAACTTGA
1 GAAATATGAGTCAAGGTGGAGATTTGTTGAGTATGACTCCTATTTCAGTCAAACTTGA
103631081 GAAATATGAGTCAAGGTGGAGATTTGTTGAGTATGACTCCTATTTCAGTCAAACTTGA
1 GAAATATGAGTCAAGGTGGAGATTTGTTGAGTATGACTCCTATTTCAGTCAAACTTGA
103631139 GAAATA
1 GAAATA
103631145 ATCTTTCAGT
Statistics
Matches: 64, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
58 64 1.00
ACGTcount: A:0.33, C:0.11, G:0.24, T:0.32
Consensus pattern (58 bp):
GAAATATGAGTCAAGGTGGAGATTTGTTGAGTATGACTCCTATTTCAGTCAAACTTGA
Found at i:103634199 original size:24 final size:24
Alignment explanation
Indices: 103634172--103634226 Score: 74
Period size: 24 Copynumber: 2.3 Consensus size: 24
103634162 TTATTTTAGA
* **
103634172 AAAAATTTAAATTTTTTAATTTTT
1 AAAAATATAAATTTTGGAATTTTT
103634196 AAAAATATAAATTTTGGAATTTTT
1 AAAAATATAAATTTTGGAATTTTT
*
103634220 ATAAATA
1 AAAAATA
103634227 ATTTGATTTT
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.47, C:0.00, G:0.04, T:0.49
Consensus pattern (24 bp):
AAAAATATAAATTTTGGAATTTTT
Found at i:103634201 original size:18 final size:19
Alignment explanation
Indices: 103634180--103634251 Score: 58
Period size: 18 Copynumber: 3.6 Consensus size: 19
103634170 GAAAAAATTT
103634180 AAATT-TTTTAATTTTTAA
1 AAATTATTTTAATTTTTAA
*
103634198 AAATATAAATTTTGGAATTTTTAT
1 AAAT-T--ATTTT--AATTTTTAA
* *
103634222 AAA-TAATTTGATTTTTAA
1 AAATTATTTTAATTTTTAA
103634240 AAATTATTTTAA
1 AAATTATTTTAA
103634252 AATTTTGGAA
Statistics
Matches: 41, Mismatches: 6, Indels: 13
0.68 0.10 0.22
Matches are distributed among these distances:
18 14 0.34
19 7 0.17
20 4 0.10
22 5 0.12
24 11 0.27
ACGTcount: A:0.43, C:0.00, G:0.04, T:0.53
Consensus pattern (19 bp):
AAATTATTTTAATTTTTAA
Found at i:103639698 original size:28 final size:28
Alignment explanation
Indices: 103639665--103639752 Score: 176
Period size: 28 Copynumber: 3.1 Consensus size: 28
103639655 TTATTTTATT
103639665 GTTAATTTTACTACTATTTGTTTGCTAA
1 GTTAATTTTACTACTATTTGTTTGCTAA
103639693 GTTAATTTTACTACTATTTGTTTGCTAA
1 GTTAATTTTACTACTATTTGTTTGCTAA
103639721 GTTAATTTTACTACTATTTGTTTGCTAA
1 GTTAATTTTACTACTATTTGTTTGCTAA
103639749 GTTA
1 GTTA
103639753 CAACTATCTT
Statistics
Matches: 60, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 60 1.00
ACGTcount: A:0.25, C:0.10, G:0.11, T:0.53
Consensus pattern (28 bp):
GTTAATTTTACTACTATTTGTTTGCTAA
Found at i:103640694 original size:22 final size:21
Alignment explanation
Indices: 103640656--103640709 Score: 58
Period size: 22 Copynumber: 2.6 Consensus size: 21
103640646 TGGTAATATT
*
103640656 AAAAA-TA-AAAAAATAACCA
1 AAAAATTATAAAAAATAACAA
* *
103640675 AAAAGTTAGTAAAAATTAACAA
1 AAAAATTA-TAAAAAATAACAA
103640697 AAAAATTATAAAA
1 AAAAATTATAAAA
103640710 GAAAACATCT
Statistics
Matches: 28, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
19 4 0.14
20 2 0.07
21 5 0.18
22 17 0.61
ACGTcount: A:0.72, C:0.06, G:0.04, T:0.19
Consensus pattern (21 bp):
AAAAATTATAAAAAATAACAA
Found at i:103640898 original size:38 final size:34
Alignment explanation
Indices: 103640821--103640898 Score: 86
Period size: 38 Copynumber: 2.2 Consensus size: 34
103640811 ACCTACAGAT
*
103640821 TTATATATATAAATACAAGTTAATATAATATATG
1 TTATATATATAAATACAAGTTAAAATAATATATG
*
103640855 ATATATATTATTAAATATTCAAGTTAAAAT-ATATTATG
1 TTATATA-TA-TAAATA--CAAGTTAAAATAATA-TATG
103640893 TTATAT
1 TTATAT
103640899 TTACAAGTTA
Statistics
Matches: 36, Mismatches: 3, Indels: 6
0.80 0.07 0.13
Matches are distributed among these distances:
34 6 0.17
35 2 0.06
36 6 0.17
37 3 0.08
38 19 0.53
ACGTcount: A:0.47, C:0.03, G:0.05, T:0.45
Consensus pattern (34 bp):
TTATATATATAAATACAAGTTAAAATAATATATG
Found at i:103643935 original size:19 final size:19
Alignment explanation
Indices: 103643911--103643953 Score: 59
Period size: 19 Copynumber: 2.3 Consensus size: 19
103643901 AAAACATCAT
* *
103643911 ATTAATTTTAATTAATTTG
1 ATTAATTTAAATTAATCTG
*
103643930 ATTAATTTAAATTTATCTG
1 ATTAATTTAAATTAATCTG
103643949 ATTAA
1 ATTAA
103643954 AATTAATTTT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.40, C:0.02, G:0.05, T:0.53
Consensus pattern (19 bp):
ATTAATTTAAATTAATCTG
Found at i:103646081 original size:3 final size:3
Alignment explanation
Indices: 103646073--103646110 Score: 67
Period size: 3 Copynumber: 12.3 Consensus size: 3
103646063 CACTTAAGGG
103646073 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGAA AGA AGA A
1 AGA AGA AGA AGA AGA AGA AGA AGA AGA AG-A AGA AGA A
103646111 TCCCTTCCAA
Statistics
Matches: 34, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
3 31 0.91
4 3 0.09
ACGTcount: A:0.68, C:0.00, G:0.32, T:0.00
Consensus pattern (3 bp):
AGA
Found at i:103648958 original size:24 final size:24
Alignment explanation
Indices: 103648873--103648958 Score: 59
Period size: 24 Copynumber: 3.5 Consensus size: 24
103648863 CTTATCAAGA
* *
103648873 TAAATATTAGATTAAAT-TTAATAT
1 TAAATATTA-AATAAATATAAATAT
* *
103648897 TAAATTGATTAAATTAATA-GAATATT
1 TAAA-T-ATTAAATAAATATAAATA-T
** *
103648923 TATCTATCAAATAAATATAAATAT
1 TAAATATTAAATAAATATAAATAT
103648947 TAAATATTAAAT
1 TAAATATTAAAT
103648959 CTTATTAAAA
Statistics
Matches: 46, Mismatches: 11, Indels: 10
0.69 0.16 0.15
Matches are distributed among these distances:
24 24 0.52
25 15 0.33
26 7 0.15
ACGTcount: A:0.52, C:0.02, G:0.03, T:0.42
Consensus pattern (24 bp):
TAAATATTAAATAAATATAAATAT
Found at i:103651798 original size:41 final size:41
Alignment explanation
Indices: 103651753--103651832 Score: 124
Period size: 41 Copynumber: 2.0 Consensus size: 41
103651743 TACATTGAGA
*
103651753 CAAGTTGAAAGGATAGATATATTGTTACTGGTGTCAGGTGT
1 CAAGTTGAAAGGATAGATATATTGTTACAGGTGTCAGGTGT
** *
103651794 CAAGTTGAGGGGATAGGTATATTGTTACAGGTGTCAGGT
1 CAAGTTGAAAGGATAGATATATTGTTACAGGTGTCAGGT
103651833 TTTGAGAGGA
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
41 35 1.00
ACGTcount: A:0.28, C:0.07, G:0.33, T:0.33
Consensus pattern (41 bp):
CAAGTTGAAAGGATAGATATATTGTTACAGGTGTCAGGTGT
Found at i:103663000 original size:27 final size:26
Alignment explanation
Indices: 103662962--103663028 Score: 80
Period size: 28 Copynumber: 2.5 Consensus size: 26
103662952 GTTTTATTAT
* * *
103662962 TTTTTAATTAATTTTAATATTTTTAG
1 TTTTTAAATAATTTTAAAATTTATAG
103662988 TTTGTTAAATAATTTTTAAAATTTATAG
1 TTT-TTAAATAA-TTTTAAAATTTATAG
*
103663016 TTTTTAAAAAATT
1 TTTTTAAATAATT
103663029 AATTAATTAC
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
26 5 0.14
27 14 0.40
28 16 0.46
ACGTcount: A:0.37, C:0.00, G:0.04, T:0.58
Consensus pattern (26 bp):
TTTTTAAATAATTTTAAAATTTATAG
Found at i:103663005 original size:28 final size:27
Alignment explanation
Indices: 103662962--103663028 Score: 82
Period size: 27 Copynumber: 2.5 Consensus size: 27
103662952 GTTTTATTAT
* * *
103662962 TTTTTAATTAA-TTTTAATATTTTTAG
1 TTTTTAAATAATTTTTAAAATTTATAG
103662988 TTTGTTAAATAATTTTTAAAATTTATAG
1 TTT-TTAAATAATTTTTAAAATTTATAG
*
103663016 TTTTTAAAAAATT
1 TTTTTAAATAATT
103663029 AATTAATTAC
Statistics
Matches: 35, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
26 3 0.09
27 16 0.46
28 16 0.46
ACGTcount: A:0.37, C:0.00, G:0.04, T:0.58
Consensus pattern (27 bp):
TTTTTAAATAATTTTTAAAATTTATAG
Found at i:103682197 original size:22 final size:22
Alignment explanation
Indices: 103682146--103682206 Score: 61
Period size: 22 Copynumber: 2.8 Consensus size: 22
103682136 ATAAGTAAAT
* *
103682146 ACAAAAATAA-AGGAAAATATA
1 ACAAAAATAATAGAAAAATACA
* *
103682167 ATAACAATAATAGAAAAATACA
1 ACAAAAATAATAGAAAAATACA
* *
103682189 ACAATAATAATAGTAAAA
1 ACAAAAATAATAGAAAAA
103682207 GATATTATAA
Statistics
Matches: 32, Mismatches: 7, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
21 8 0.25
22 24 0.75
ACGTcount: A:0.69, C:0.07, G:0.07, T:0.18
Consensus pattern (22 bp):
ACAAAAATAATAGAAAAATACA
Found at i:103682306 original size:3 final size:3
Alignment explanation
Indices: 103682298--103682411 Score: 65
Period size: 3 Copynumber: 37.7 Consensus size: 3
103682288 AAAGTAGTGC
* * *
103682298 TAA TAA TAA TAA TAA TAA TAA TAA T-C TAT TAA GTTA TAA TGAA -AA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA -TAA TAA T-AA TAA
* * * * *
103682343 TAA TGA TAA TGA TGA T-A TAT TAGA TAA TAA TAG TAA -AA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TA-A TAA TAA TAA TAA TAA TAA TAA
* *
103682387 GTAA CAA TAA TAAA TTA TAA TAA TA
1 -TAA TAA TAA T-AA TAA TAA TAA TA
103682412 GTGATGAGAA
Statistics
Matches: 86, Mismatches: 16, Indels: 18
0.72 0.13 0.15
Matches are distributed among these distances:
2 7 0.08
3 67 0.78
4 12 0.14
ACGTcount: A:0.57, C:0.02, G:0.07, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:103682430 original size:16 final size:16
Alignment explanation
Indices: 103682411--103682442 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
103682401 TTATAATAAT
103682411 AGTGATGAGAATAACA
1 AGTGATGAGAATAACA
*
103682427 AGTGATGATAATAACA
1 AGTGATGAGAATAACA
103682443 GTAACAATAG
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:0.50, C:0.06, G:0.22, T:0.22
Consensus pattern (16 bp):
AGTGATGAGAATAACA
Found at i:103682575 original size:16 final size:15
Alignment explanation
Indices: 103682546--103682588 Score: 59
Period size: 16 Copynumber: 2.8 Consensus size: 15
103682536 TATACGTATG
*
103682546 AAAAATAATGATAGT
1 AAAAATAATAATAGT
103682561 AAAATATAATAATAGT
1 AAAA-ATAATAATAGT
*
103682577 AATAATAATAAT
1 AAAAATAATAAT
103682589 GGAATGAAGG
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
15 12 0.48
16 13 0.52
ACGTcount: A:0.63, C:0.00, G:0.07, T:0.30
Consensus pattern (15 bp):
AAAAATAATAATAGT
Found at i:103688663 original size:134 final size:134
Alignment explanation
Indices: 103688420--103688808 Score: 464
Period size: 134 Copynumber: 2.9 Consensus size: 134
103688410 AAACAGACCA
* *
103688420 AAAGAGAATTGTTTGATGCACTTAG-GCAGGAACTTGAGTGAGTCTTGTTGATCTTTCATTGTTC
1 AAAGAGAATTGTTTGATGCACTTAGAGCAGGAACTTGAGTGAGTGTTGTTGATCCTTCATTGTT-
* * * **
103688484 TTAACAGCTAACGCTCAATATTTCTTAGATCATTTCATGTACTTCTTTCATGTTTTTACCCTCTG
65 TTAACAGCTAAAGCTCAATAATGCTTAGATCATTTCATGTACTTCTTTCATGTTTTTACCCTCCC
103688549 AGCCT
130 AGCCT
* * **
103688554 GAGGAGAATTGTTTGATGCACTTAGAG-AGGTGCTTGAGTGAGTGTTGTTGATCCTTCATTGTTT
1 AAAGAGAATTGTTTGATGCACTTAGAGCAGGAACTTGAGTGAGTGTTGTTGATCCTTCATTGTTT
* ** * * * *
103688618 TCAACAGCTAAAGCTCAAAAATGCTTAGATGGTTTCGTGTCCTTCTTTCATGTTCTTACCTTCCC
66 T-AACAGCTAAAGCTCAATAATGCTTAGATCATTTCATGTACTTCTTTCATGTTTTTACCCTCCC
103688683 AGCCT
130 AGCCT
* * * ** *
103688688 AAAGAAAATTGTTTGATGCACTTA-AGCAGGAACTTGAGTGACTGTTGCTGAT-CTTTGTTATTT
1 AAAGAGAATTGTTTGATGCACTTAGAGCAGGAACTTGAGTGAGTGTTGTTGATCCTTCATT-GTT
* * *
103688751 TTAACAGTTAAAGTTCAATAATGCTTTAGA-CATTTCATGTGCTTCTTTCATGTTTTTA
65 TTAACAGCTAAAGCTCAATAATGC-TTAGATCATTTCATGTACTTCTTTCATGTTTTTA
103688809 TGTCCTGGCC
Statistics
Matches: 214, Mismatches: 36, Indels: 11
0.82 0.14 0.04
Matches are distributed among these distances:
133 51 0.24
134 162 0.76
135 1 0.00
ACGTcount: A:0.24, C:0.17, G:0.19, T:0.40
Consensus pattern (134 bp):
AAAGAGAATTGTTTGATGCACTTAGAGCAGGAACTTGAGTGAGTGTTGTTGATCCTTCATTGTTT
TAACAGCTAAAGCTCAATAATGCTTAGATCATTTCATGTACTTCTTTCATGTTTTTACCCTCCCA
GCCT
Found at i:103693587 original size:3 final size:3
Alignment explanation
Indices: 103693579--103693653 Score: 78
Period size: 3 Copynumber: 25.0 Consensus size: 3
103693569 CATTGATGGT
* * * *
103693579 TGC TGC TGC TGC TGC TGC TGT TCC TGC TGC TCC TCC TGC TGC TGC TGC
1 TGC TGC TGC TGC TGC TGC TGC TGC TGC TGC TGC TGC TGC TGC TGC TGC
* * * *
103693627 TGC TCC GGC TCC TGC TCC TGC TGC TGC
1 TGC TGC TGC TGC TGC TGC TGC TGC TGC
103693654 ATAAAGGCAA
Statistics
Matches: 58, Mismatches: 14, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
3 58 1.00
ACGTcount: A:0.00, C:0.40, G:0.27, T:0.33
Consensus pattern (3 bp):
TGC
Found at i:103697607 original size:52 final size:53
Alignment explanation
Indices: 103697551--103697652 Score: 161
Period size: 53 Copynumber: 1.9 Consensus size: 53
103697541 AATATACATT
*
103697551 TTAATTCTGACATAATAAAATTT-TTTACTCCACCCTTATCTAGATGGTCTTA
1 TTAATTCTGACATAATAAAATTTGTTGACTCCACCCTTATCTAGATGGTCTTA
* * *
103697603 TTAATTCTGATATAATAAAATTTGTTGACTCCATCCTTATTTAGATGGTC
1 TTAATTCTGACATAATAAAATTTGTTGACTCCACCCTTATCTAGATGGTC
103697653 ATTTTATGAC
Statistics
Matches: 45, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
52 22 0.49
53 23 0.51
ACGTcount: A:0.30, C:0.17, G:0.10, T:0.43
Consensus pattern (53 bp):
TTAATTCTGACATAATAAAATTTGTTGACTCCACCCTTATCTAGATGGTCTTA
Found at i:103722502 original size:20 final size:20
Alignment explanation
Indices: 103722479--103722528 Score: 82
Period size: 20 Copynumber: 2.5 Consensus size: 20
103722469 AAATCCAAAT
103722479 TAAAATACTAAAATTCAGGA
1 TAAAATACTAAAATTCAGGA
*
103722499 TAAAATCCTAAAATTCAGGA
1 TAAAATACTAAAATTCAGGA
103722519 TAAGAATACT
1 TAA-AATACT
103722529 GACGTGGCAT
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
20 22 0.81
21 5 0.19
ACGTcount: A:0.52, C:0.12, G:0.10, T:0.26
Consensus pattern (20 bp):
TAAAATACTAAAATTCAGGA
Found at i:103722743 original size:21 final size:20
Alignment explanation
Indices: 103722711--103722759 Score: 57
Period size: 20 Copynumber: 2.5 Consensus size: 20
103722701 AATTGATTTA
103722711 TTTTTATA-ATATCATT-TGTT
1 TTTTTATATATAT-ATTATG-T
103722731 TTTTTATATATATATTATGT
1 TTTTTATATATATATTATGT
*
103722751 ATTTTATAT
1 TTTTTATAT
103722760 TACATAAAGA
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
20 20 0.77
21 6 0.23
ACGTcount: A:0.29, C:0.02, G:0.04, T:0.65
Consensus pattern (20 bp):
TTTTTATATATATATTATGT
Found at i:103724805 original size:30 final size:30
Alignment explanation
Indices: 103724771--103724855 Score: 127
Period size: 30 Copynumber: 2.8 Consensus size: 30
103724761 AAAACCCTAG
*
103724771 CCACCTTGCTTCCTACTTGCACCTACTCCA
1 CCACCTTGCTTCCCACTTGCACCTACTCCA
*
103724801 CCACCTTGCCTCCCACTTGCACCTACTCCA
1 CCACCTTGCTTCCCACTTGCACCTACTCCA
*
103724831 CCACTTTG-TCTCCCACTTGCACCTA
1 CCACCTTGCT-TCCCACTTGCACCTA
103724856 GACCATCAAA
Statistics
Matches: 50, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
30 50 1.00
ACGTcount: A:0.16, C:0.48, G:0.07, T:0.28
Consensus pattern (30 bp):
CCACCTTGCTTCCCACTTGCACCTACTCCA
Found at i:103725017 original size:49 final size:49
Alignment explanation
Indices: 103724950--103725044 Score: 181
Period size: 49 Copynumber: 1.9 Consensus size: 49
103724940 GAAAGAAGGT
*
103724950 GGAGGAAAGAATTGTATTTTTGAAAGGTTTTTTTTATACAAAAAAAAGA
1 GGAGGAAAGAATTGTATTTTTGAAAGGTTTTTTTGATACAAAAAAAAGA
103724999 GGAGGAAAGAATTGTATTTTTGAAAGGTTTTTTTGATACAAAAAAA
1 GGAGGAAAGAATTGTATTTTTGAAAGGTTTTTTTGATACAAAAAAA
103725045 GGAGAAGAAT
Statistics
Matches: 45, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
49 45 1.00
ACGTcount: A:0.42, C:0.02, G:0.21, T:0.35
Consensus pattern (49 bp):
GGAGGAAAGAATTGTATTTTTGAAAGGTTTTTTTGATACAAAAAAAAGA
Found at i:103725125 original size:28 final size:29
Alignment explanation
Indices: 103725093--103725152 Score: 113
Period size: 29 Copynumber: 2.1 Consensus size: 29
103725083 TGAAATAAAA
103725093 AAAAC-GAGTATTGAAGAAGAAAAGATTC
1 AAAACTGAGTATTGAAGAAGAAAAGATTC
103725121 AAAACTGAGTATTGAAGAAGAAAAGATTC
1 AAAACTGAGTATTGAAGAAGAAAAGATTC
103725150 AAA
1 AAA
103725153 CGCGTTAAGG
Statistics
Matches: 31, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
28 5 0.16
29 26 0.84
ACGTcount: A:0.55, C:0.07, G:0.20, T:0.18
Consensus pattern (29 bp):
AAAACTGAGTATTGAAGAAGAAAAGATTC
Found at i:103725444 original size:3 final size:3
Alignment explanation
Indices: 103725425--103725513 Score: 71
Period size: 3 Copynumber: 29.3 Consensus size: 3
103725415 TTTGTTTTAT
* *
103725425 TTA TTT TTA TT- TTA TTA TTA TTA CTA TTA TT- TATA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T-TA TTA TTA TTA
103725469 TTA TT- TCTCA TGTA TATA TTA TTA TT- TATA TTA TTA TTA -TA TTA
1 TTA TTA T-T-A T-TA T-TA TTA TTA TTA T-TA TTA TTA TTA TTA TTA
103725513 T
1 T
103725514 ATATACCCTC
Statistics
Matches: 71, Mismatches: 6, Indels: 18
0.75 0.06 0.19
Matches are distributed among these distances:
2 7 0.10
3 55 0.77
4 7 0.10
5 2 0.03
ACGTcount: A:0.30, C:0.03, G:0.01, T:0.65
Consensus pattern (3 bp):
TTA
Found at i:103725461 original size:18 final size:18
Alignment explanation
Indices: 103725425--103725517 Score: 98
Period size: 18 Copynumber: 4.9 Consensus size: 18
103725415 TTTGTTTTAT
*
103725425 TTATTTTTATTTTATTATTA
1 TTATTATTA-TTTA-TATTA
*
103725445 TTACTATTATTTATATTA
1 TTATTATTATTTATATTA
*
103725463 TTATTATTATTTCTCATGTA
1 TTATTATTATTTAT-AT-TA
103725483 TATATTATTATTTATATTA
1 T-TATTATTATTTATATTA
103725502 TTATTA-TATTATATAT
1 TTATTATTATT-TATAT
103725518 ACCCTCTCCA
Statistics
Matches: 64, Mismatches: 5, Indels: 10
0.81 0.06 0.13
Matches are distributed among these distances:
17 4 0.06
18 27 0.42
19 9 0.14
20 12 0.19
21 12 0.19
ACGTcount: A:0.31, C:0.03, G:0.01, T:0.65
Consensus pattern (18 bp):
TTATTATTATTTATATTA
Found at i:103725466 original size:27 final size:27
Alignment explanation
Indices: 103725425--103725515 Score: 91
Period size: 27 Copynumber: 3.4 Consensus size: 27
103725415 TTTGTTTTAT
*
103725425 TTATTTTTATT-TTATTATTATTACTA
1 TTATTTATATTATTATTATTATTACTA
*
103725451 TTATTTATATTATTATTATTATTTCTCA
1 TTATTTATATTATTATTATTATTACT-A
*
103725479 TGTA--TATATTATTATT-TATATTATTA
1 T-TATTTATATTATTATTAT-TATTACTA
103725505 TTATATTATAT
1 TTAT-TTATAT
103725516 ATACCCTCTC
Statistics
Matches: 54, Mismatches: 4, Indels: 12
0.77 0.06 0.17
Matches are distributed among these distances:
25 2 0.04
26 13 0.24
27 30 0.56
28 7 0.13
29 2 0.04
ACGTcount: A:0.31, C:0.03, G:0.01, T:0.65
Consensus pattern (27 bp):
TTATTTATATTATTATTATTATTACTA
Found at i:103725567 original size:18 final size:16
Alignment explanation
Indices: 103725540--103725582 Score: 50
Period size: 18 Copynumber: 2.6 Consensus size: 16
103725530 TTTATTTATA
*
103725540 TTATTACTATCATTGTT
1 TTATTTCTATCATT-TT
*
103725557 GTTATTTCTATTATTTT
1 -TTATTTCTATCATTTT
103725574 TTATTTCTA
1 TTATTTCTA
103725583 ACTAATATTA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
16 9 0.39
17 2 0.09
18 12 0.52
ACGTcount: A:0.21, C:0.09, G:0.05, T:0.65
Consensus pattern (16 bp):
TTATTTCTATCATTTT
Found at i:103735836 original size:86 final size:86
Alignment explanation
Indices: 103735691--103736157 Score: 670
Period size: 86 Copynumber: 5.4 Consensus size: 86
103735681 ATCAGTGAAT
* * * ** * *
103735691 TTGCAGATCTTATCTCCCTAAGCAGTAG-GGAAACAAATCGAGGTTGATGGGCCTTAAACCCCTA
1 TTGCAGATCTTATCTCCCTAAGCAGTAGTGG-AGCAGATCGAAGACGAAGGGTCTTAAACCCCTA
* *
103735755 AGCAGTAGGGTAACTGACCGAA
65 AGCAGTAGGGTAACAGACCAAA
*
103735777 TTGCAGATCTTATTTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGAAGGGTCTTAAACCCCTAA
1 TTGCAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGAAGGGTCTTAAACCCCTAA
103735842 GCAGTAGGGTAACAGACCAAA
66 GCAGTAGGGTAACAGACCAAA
* * *
103735863 TTGCAGATCTTATCTCCCTAAGCAGTAGTCGAGCAGATCAAAGACGAAGGGTCTTAAACCACTAA
1 TTGCAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGAAGGGTCTTAAACCCCTAA
103735928 GCAGTAGGGTAACAGACCAAA
66 GCAGTAGGGTAACAGACCAAA
* *
103735949 TTGCAGATCTTATCTCCCTAAGCAGTAGT-GACGCAGATCAAAGACGAAGAGTCTTAAACCCCTA
1 TTGCAGATCTTATCTCCCTAAGCAGTAGTGGA-GCAGATCGAAGACGAAGGGTCTTAAACCCCTA
103736013 AGCAGTAGGGTAACAGACCAAA
65 AGCAGTAGGGTAACAGACCAAA
* *
103736035 TTGCAGATCTTATCTCCTTAAGTAGTAGTGGAGCAGATCGAAGACGAAGGGTCTTAAACCCCTAA
1 TTGCAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGAAGGGTCTTAAACCCCTAA
* * * *
103736100 GTAGTAGGGTAACAGGCTGAAT
66 GCAGTAGGGTAACAGAC-CAAA
* *
103736122 TTACAGATCTTATCCCCCTAAGCAGTAG-GGTAGCAG
1 TTGCAGATCTTATCTCCCTAAGCAGTAGTGG-AGCAG
103736158 GCTAAATTTA
Statistics
Matches: 348, Mismatches: 28, Indels: 9
0.90 0.07 0.02
Matches are distributed among these distances:
85 2 0.01
86 311 0.89
87 35 0.10
ACGTcount: A:0.33, C:0.21, G:0.24, T:0.22
Consensus pattern (86 bp):
TTGCAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGAAGGGTCTTAAACCCCTAA
GCAGTAGGGTAACAGACCAAA
Found at i:103735843 original size:44 final size:44
Alignment explanation
Indices: 103735792--103736106 Score: 203
Period size: 44 Copynumber: 7.3 Consensus size: 44
103735782 GATCTTATTT
*
103735792 CCCTAAGCAGTAGTGGAGCAGATCGAAGACGAAGGGTCTTAAAC
1 CCCTAAGCAGTAGTGGAGCAGATCCAAGACGAAGGGTCTTAAAC
* * * * *
103735836 CCCTAAGCAGTAG-GGTAACAGA-CCAA-ATTGCA-GATCTT-ATC
1 CCCTAAGCAGTAGTGG-AGCAGATCCAAGA-CGAAGGGTCTTAAAC
* *
103735877 TCCCTAAGCAGTAGTCGAGCAGATCAAAGACGAAGGGTCTTAAAC
1 -CCCTAAGCAGTAGTGGAGCAGATCCAAGACGAAGGGTCTTAAAC
* * * * * *
103735922 CACTAAGCAGTAG-GGTAACAGA-CCAA-ATTGCA-GATCTT-ATC
1 CCCTAAGCAGTAGTGG-AGCAGATCCAAGA-CGAAGGGTCTTAAAC
* *
103735963 TCCCTAAGCAGTAGT-GACGCAGATCAAAGACGAAGAGTCTTAAAC
1 -CCCTAAGCAGTAGTGGA-GCAGATCCAAGACGAAGGGTCTTAAAC
* * * * *
103736008 CCCTAAGCAGTAG-GGTAACAGA-CCAA-ATTGCA-GATCTT-ATC
1 CCCTAAGCAGTAGTGG-AGCAGATCCAAGA-CGAAGGGTCTTAAAC
* * *
103736049 TCCTTAAGTAGTAGTGGAGCAGATCGAAGACGAAGGGTCTTAAAC
1 -CCCTAAGCAGTAGTGGAGCAGATCCAAGACGAAGGGTCTTAAAC
*
103736094 CCCTAAGTAGTAG
1 CCCTAAGCAGTAG
103736107 GGTAACAGGC
Statistics
Matches: 200, Mismatches: 45, Indels: 52
0.67 0.15 0.18
Matches are distributed among these distances:
41 7 0.04
42 68 0.34
43 36 0.18
44 82 0.41
45 7 0.04
ACGTcount: A:0.35, C:0.22, G:0.23, T:0.20
Consensus pattern (44 bp):
CCCTAAGCAGTAGTGGAGCAGATCCAAGACGAAGGGTCTTAAAC
Found at i:103736140 original size:43 final size:43
Alignment explanation
Indices: 103736086--103736376 Score: 239
Period size: 43 Copynumber: 6.7 Consensus size: 43
103736076 AGACGAAGGG
* *
103736086 TCTTAAACCCCTAAGTAGTAGGGTAACAGGCTGAATTTACAGA
1 TCTTAACCCCCTAAGCAGTAGGGTAACAGGCTGAATTTACAGA
* * * *
103736129 TCTTATCCCCCTAAGCAGTAGGGTAGCAGGCTAAATTTATAGA
1 TCTTAACCCCCTAAGCAGTAGGGTAACAGGCTGAATTTACAGA
* * * *
103736172 TCTTAACCCCCTAAGCAGTAGGGAAACA-GATCGAAGGTGACA-A
1 TCTTAACCCCCTAAGCAGTAGGGTAACAGGCT-GAA-TTTACAGA
* * *
103736215 GCCTTAAACCCCTAAGCAGTAGGGTAACAAGCTGAAAATTTACAGA
1 -TCTTAACCCCCTAAGCAGTAGGGTAACAGGCTG--AATTTACAGA
** ** * *
103736261 TCTTAAACCCCCTAAGCAGTAGGAAAACAGATTGAAGGTGACA-A
1 TCTT-AACCCCCTAAGCAGTAGGGTAACAGGCTGAA-TTTACAGA
* * * * *
103736305 GCCTTAA-CCCCTAAACAGTAGGGTGACAGGCTAAATTTACATA
1 -TCTTAACCCCCTAAGCAGTAGGGTAACAGGCTGAATTTACAGA
* * *
103736348 TCGTAACACCCTAAGCAGTAGGGAAACAG
1 TCTTAACCCCCTAAGCAGTAGGGTAACAG
103736377 ATCGAAGACG
Statistics
Matches: 191, Mismatches: 45, Indels: 24
0.73 0.17 0.09
Matches are distributed among these distances:
42 10 0.05
43 105 0.55
44 34 0.18
45 16 0.08
46 26 0.14
ACGTcount: A:0.36, C:0.22, G:0.21, T:0.21
Consensus pattern (43 bp):
TCTTAACCCCCTAAGCAGTAGGGTAACAGGCTGAATTTACAGA
Found at i:103736192 original size:130 final size:131
Alignment explanation
Indices: 103736000--103736283 Score: 344
Period size: 130 Copynumber: 2.2 Consensus size: 131
103735990 AGACGAAGAG
* * * * *
103736000 TCTTAAA-CCCCTAAGCAGTAGGGTAACAGACCAAATTGCAGATCTTATCTCCTTAAGTAGTAGT
1 TCTTAAACCCCCTAAGCAGTAGGGTAACAGACCAAATTACAGATCTTAACCCCCTAAGCAGTAG-
* * * * *
103736064 GG-AGCAGATCGAAGACGA-AGGGTCTTAAACCCCTAAGTAGTAGGGTAACAGGCTG-AATTTAC
65 GGAAACAGATCGAAGACGACA-AGCCTTAAACCCCTAAGCAGTAGGGTAACAAGCTGAAATTTAC
103736126 AGA
129 AGA
* * * * *
103736129 TCTT-ATCCCCCTAAGCAGTAGGGTAGCAGGCTAAATTTATAGATCTTAACCCCCTAAGCAGTAG
1 TCTTAAACCCCCTAAGCAGTAGGGTAACAGACCAAA-TTACAGATCTTAACCCCCTAAGCAGTAG
**
103736193 GGAAACAGATCGAAGGTGACAAGCCTTAAACCCCTAAGCAGTAGGGTAACAAGCTGAAAATTTAC
65 GGAAACAGATCGAAGACGACAAGCCTTAAACCCCTAAGCAGTAGGGTAACAAGCTG-AAATTTAC
103736258 AGA
129 AGA
103736261 TCTTAAACCCCCTAAGCAGTAGG
1 TCTTAAACCCCCTAAGCAGTAGG
103736284 AAAACAGATT
Statistics
Matches: 130, Mismatches: 18, Indels: 10
0.82 0.11 0.06
Matches are distributed among these distances:
128 1 0.01
129 31 0.24
130 66 0.51
131 1 0.01
132 14 0.11
133 17 0.13
ACGTcount: A:0.35, C:0.21, G:0.22, T:0.22
Consensus pattern (131 bp):
TCTTAAACCCCCTAAGCAGTAGGGTAACAGACCAAATTACAGATCTTAACCCCCTAAGCAGTAGG
GAAACAGATCGAAGACGACAAGCCTTAAACCCCTAAGCAGTAGGGTAACAAGCTGAAATTTACAG
A
Found at i:103736311 original size:45 final size:44
Alignment explanation
Indices: 103736173--103736327 Score: 163
Period size: 44 Copynumber: 3.5 Consensus size: 44
103736163 ATTTATAGAT
* *
103736173 CTTAACCCCCTAAGCAGTAGGGAAACAGATCGAAGGTGACAAGC
1 CTTAAACCCCTAAGCAGTAGGGAAACAGATTGAAGGTGACAAGC
* * ** * *
103736217 CTTAAACCCCTAAGCAGTAGGGTAACA-AGCTGAAAATTTAC-AGAT
1 CTTAAACCCCTAAGCAGTAGGGAAACAGA-TTG-AAGGTGACAAG-C
*
103736262 CTTAAACCCCCTAAGCAGTAGGAAAACAGATTGAAGGTGACAAGC
1 CTTAAA-CCCCTAAGCAGTAGGGAAACAGATTGAAGGTGACAAGC
*
103736307 CTT-AACCCCTAAACAGTAGGG
1 CTTAAACCCCTAAGCAGTAGGG
103736328 TGACAGGCTA
Statistics
Matches: 88, Mismatches: 17, Indels: 13
0.75 0.14 0.11
Matches are distributed among these distances:
43 15 0.17
44 30 0.34
45 19 0.22
46 23 0.26
47 1 0.01
ACGTcount: A:0.38, C:0.23, G:0.21, T:0.17
Consensus pattern (44 bp):
CTTAAACCCCTAAGCAGTAGGGAAACAGATTGAAGGTGACAAGC
Found at i:103736946 original size:30 final size:30
Alignment explanation
Indices: 103736912--103736997 Score: 138
Period size: 30 Copynumber: 2.9 Consensus size: 30
103736902 AAAACCCTAG
103736912 CCACCTTGCTTCCCACTTGCACCTACTCCA
1 CCACCTTGCTTCCCACTTGCACCTACTCCA
*
103736942 CCACCTTGCCTCCCACTTGCACCTACTCCA
1 CCACCTTGCTTCCCACTTGCACCTACTCCA
*
103736972 CCACATTG-TCTCCCACTTGCACCTAC
1 CCACCTTGCT-TCCCACTTGCACCTAC
103736998 ACCATCAAAT
Statistics
Matches: 52, Mismatches: 3, Indels: 2
0.91 0.05 0.04
Matches are distributed among these distances:
30 52 1.00
ACGTcount: A:0.17, C:0.50, G:0.07, T:0.26
Consensus pattern (30 bp):
CCACCTTGCTTCCCACTTGCACCTACTCCA
Found at i:103737161 original size:49 final size:49
Alignment explanation
Indices: 103737089--103737187 Score: 189
Period size: 49 Copynumber: 2.0 Consensus size: 49
103737079 AAGAAAGGAG
103737089 GAGGAGGAAAGAATTGTATTTTTGAAAGATTTTTTTTATACAAAAAAAA
1 GAGGAGGAAAGAATTGTATTTTTGAAAGATTTTTTTTATACAAAAAAAA
*
103737138 GAGGAGGAAAGAATTGTATTTTTGAAAGGTTTTTTTTATACAAAAAAAA
1 GAGGAGGAAAGAATTGTATTTTTGAAAGATTTTTTTTATACAAAAAAAA
103737187 G
1 G
103737188 GAGAAGAATG
Statistics
Matches: 49, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
49 49 1.00
ACGTcount: A:0.43, C:0.02, G:0.20, T:0.34
Consensus pattern (49 bp):
GAGGAGGAAAGAATTGTATTTTTGAAAGATTTTTTTTATACAAAAAAAA
Found at i:103737567 original size:3 final size:3
Alignment explanation
Indices: 103737554--103737633 Score: 53
Period size: 3 Copynumber: 26.3 Consensus size: 3
103737544 GTTTTATTTT
*
103737554 TTA TT- TTA TTA TTA TTA CTA TTA TT- TATA TTA TTA TTA TT- TCTCA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA T-TA TTA TTA TTA TTA T-T-A
*
103737599 TGTA TATA TTC TTA TT- TATA TTA TTA TTA -TA TTA T
1 T-TA T-TA TTA TTA TTA T-TA TTA TTA TTA TTA TTA T
103737634 ATATACCCTC
Statistics
Matches: 62, Mismatches: 6, Indels: 18
0.72 0.07 0.21
Matches are distributed among these distances:
2 7 0.11
3 46 0.74
4 7 0.11
5 2 0.03
ACGTcount: A:0.30, C:0.05, G:0.01, T:0.64
Consensus pattern (3 bp):
TTA
Found at i:103737580 original size:24 final size:24
Alignment explanation
Indices: 103737548--103737633 Score: 75
Period size: 24 Copynumber: 3.4 Consensus size: 24
103737538 AGCTTTGTTT
*
103737548 TATTTTTTATTTTATTATTATTAC
1 TATTATTTATTTTATTATTATTAC
* *
103737572 TATTATTTATATTATTATTATTTC
1 TATTATTTATTTTATTATTATTAC
* *
103737596 TCATGTATATATTCTTATT-TATATTAT
1 T-AT-TATTTATT-TTATTAT-TATTAC
103737623 TATTATATTAT
1 TATTAT-TTAT
103737634 ATATACCCTC
Statistics
Matches: 49, Mismatches: 8, Indels: 8
0.75 0.12 0.12
Matches are distributed among these distances:
24 22 0.45
25 5 0.10
26 12 0.24
27 10 0.20
ACGTcount: A:0.29, C:0.05, G:0.01, T:0.65
Consensus pattern (24 bp):
TATTATTTATTTTATTATTATTAC
Found at i:103739791 original size:20 final size:20
Alignment explanation
Indices: 103739762--103739799 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
103739752 GAAAGCTCTT
*
103739762 CGATTAGTCTCGTCGGATCC
1 CGATTAGTCTCGACGGATCC
*
103739782 CGATTTGTCTCGACGGAT
1 CGATTAGTCTCGACGGAT
103739800 GTTCTTTCAT
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:0.16, C:0.26, G:0.26, T:0.32
Consensus pattern (20 bp):
CGATTAGTCTCGACGGATCC
Found at i:103742659 original size:16 final size:14
Alignment explanation
Indices: 103742628--103742678 Score: 59
Period size: 16 Copynumber: 3.5 Consensus size: 14
103742618 AATTCATCCC
103742628 ATTTAAATTCAAATA
1 ATTTAAATT-AAATA
103742643 ATTTAAATTTAAAATA
1 ATTTAAA-TT-AAATA
*
103742659 ATTCAAA-TAAATA
1 ATTTAAATTAAATA
103742672 ATTTAAA
1 ATTTAAA
103742679 ATGATTTTAA
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
13 11 0.34
14 1 0.03
15 7 0.22
16 13 0.41
ACGTcount: A:0.57, C:0.04, G:0.00, T:0.39
Consensus pattern (14 bp):
ATTTAAATTAAATA
Found at i:103744056 original size:125 final size:125
Alignment explanation
Indices: 103743863--103744175 Score: 448
Period size: 125 Copynumber: 2.5 Consensus size: 125
103743853 GCCAAACGGT
* * * *
103743863 AAATCGAAACCCAACACGATTGGGCACGATTTATCGAACTTCCAAATGCGAAATATTATCTCATT
1 AAATCGAAACCCAGCACGATTGGGCACGATTTATCGAACTTCCAAATACGAAATATTACCTCACT
* *
103743928 TTAATTTAAGAAAACATGGATGAAATTCCAAAAGGATATT-TCGTATTTTAGTCAAATGAA
66 TTAATTTAAGAAAACATAGACGAAATTCCAAAAGGATATTCT-GTATTTTAGTCAAATGAA
* * *
103743988 AAATCGAAACCCAGCATGATTGGGCACGATTTATCGAACTTCCAAATACGAAATATTGCCTCGCT
1 AAATCGAAACCCAGCACGATTGGGCACGATTTATCGAACTTCCAAATACGAAATATTACCTCACT
* * *
103744053 TTAATTTAAGAGAACATAGACGAAATTTCAAAAGGATATTCTGTATTTTAGTCGAATGAA
66 TTAATTTAAGAAAACATAGACGAAATTCCAAAAGGATATTCTGTATTTTAGTCAAATGAA
* * * * * *
103744113 AAATCGAAACCCAGCACGATTGGGCACGATCTCTCAAACTTCCAAACACGAAAGATTTCCTCA
1 AAATCGAAACCCAGCACGATTGGGCACGATTTATCGAACTTCCAAATACGAAATATTACCTCA
103744176 TGTTGAGGGG
Statistics
Matches: 167, Mismatches: 20, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
125 166 0.99
126 1 0.01
ACGTcount: A:0.38, C:0.19, G:0.15, T:0.27
Consensus pattern (125 bp):
AAATCGAAACCCAGCACGATTGGGCACGATTTATCGAACTTCCAAATACGAAATATTACCTCACT
TTAATTTAAGAAAACATAGACGAAATTCCAAAAGGATATTCTGTATTTTAGTCAAATGAA
Found at i:103744788 original size:29 final size:26
Alignment explanation
Indices: 103744724--103744775 Score: 70
Period size: 25 Copynumber: 2.0 Consensus size: 26
103744714 AGCCAAATTG
* *
103744724 TACATAAATAAATTTTAAAGAAAATA
1 TACATAAATAAATCTAAAAGAAAATA
*
103744750 TATAT-AATAAATCTAAAAGAAAATA
1 TACATAAATAAATCTAAAAGAAAATA
103744775 T
1 T
103744776 TTACATACAA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
25 19 0.83
26 4 0.17
ACGTcount: A:0.62, C:0.04, G:0.04, T:0.31
Consensus pattern (26 bp):
TACATAAATAAATCTAAAAGAAAATA
Found at i:103745023 original size:21 final size:22
Alignment explanation
Indices: 103744998--103745059 Score: 72
Period size: 24 Copynumber: 2.7 Consensus size: 22
103744988 AAAAAATGCC
*
103744998 AAATGAATTTAAAGAA-ATAAT
1 AAATGAATTTAAAGAATATAAA
*
103745019 GAATGAATTATAAAGAATATAAA
1 AAATGAATT-TAAAGAATATAAA
103745042 AACATGAATTTTAAAGAA
1 AA-ATGAA-TTTAAAGAA
103745060 CTCAATGGAA
Statistics
Matches: 34, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
21 8 0.24
22 7 0.21
23 5 0.15
24 12 0.35
25 2 0.06
ACGTcount: A:0.60, C:0.02, G:0.11, T:0.27
Consensus pattern (22 bp):
AAATGAATTTAAAGAATATAAA
Found at i:103745413 original size:17 final size:17
Alignment explanation
Indices: 103745391--103745429 Score: 78
Period size: 17 Copynumber: 2.3 Consensus size: 17
103745381 TTTGCAGACA
103745391 AGTGGGGTAATGGAGTT
1 AGTGGGGTAATGGAGTT
103745408 AGTGGGGTAATGGAGTT
1 AGTGGGGTAATGGAGTT
103745425 AGTGG
1 AGTGG
103745430 TCGATTTTAG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 22 1.00
ACGTcount: A:0.23, C:0.00, G:0.49, T:0.28
Consensus pattern (17 bp):
AGTGGGGTAATGGAGTT
Found at i:103745667 original size:20 final size:19
Alignment explanation
Indices: 103745630--103745711 Score: 69
Period size: 20 Copynumber: 4.2 Consensus size: 19
103745620 TTAAGGGTTA
* * *
103745630 TAGGTTCAAGGTTCGAGTT
1 TAGGTTTAAGATTTGAGTT
103745649 TGAGGTTTAAG-TTTAGAGTT
1 T-AGGTTTAAGATTT-GAGTT
103745669 TAGGATTTAAGATTTGAGTT
1 TAGG-TTTAAGATTTGAGTT
*
103745689 TAGGGTTTAA-TTTTGAGGTT
1 TA-GGTTTAAGATTTGA-GTT
103745709 TAG
1 TAG
103745712 AATTTTGAAT
Statistics
Matches: 54, Mismatches: 3, Indels: 12
0.78 0.04 0.17
Matches are distributed among these distances:
19 12 0.22
20 37 0.69
21 5 0.09
ACGTcount: A:0.24, C:0.02, G:0.29, T:0.44
Consensus pattern (19 bp):
TAGGTTTAAGATTTGAGTT
Found at i:103752442 original size:43 final size:43
Alignment explanation
Indices: 103752381--103752469 Score: 178
Period size: 43 Copynumber: 2.1 Consensus size: 43
103752371 GGAACGTACC
103752381 ATAATAGGATTATAATTTTTTTTTAAATTAAGGCTTAGTTTGG
1 ATAATAGGATTATAATTTTTTTTTAAATTAAGGCTTAGTTTGG
103752424 ATAATAGGATTATAATTTTTTTTTAAATTAAGGCTTAGTTTGG
1 ATAATAGGATTATAATTTTTTTTTAAATTAAGGCTTAGTTTGG
103752467 ATA
1 ATA
103752470 GGCGGTGTAT
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
43 46 1.00
ACGTcount: A:0.34, C:0.02, G:0.16, T:0.48
Consensus pattern (43 bp):
ATAATAGGATTATAATTTTTTTTTAAATTAAGGCTTAGTTTGG
Found at i:103752867 original size:22 final size:23
Alignment explanation
Indices: 103752837--103752880 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 23
103752827 ATATTAAATA
103752837 ATAATTAAAATTATATATTTATG
1 ATAATTAAAATTATATATTTATG
*
103752860 ATAA-TAAATTTATATATTTAT
1 ATAATTAAAATTATATATTTAT
103752881 TAAATTGTTA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
22 16 0.80
23 4 0.20
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (23 bp):
ATAATTAAAATTATATATTTATG
Found at i:103757503 original size:30 final size:31
Alignment explanation
Indices: 103757454--103757513 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 31
103757444 CTATATATTT
*
103757454 ATAATTTTAAAAAGATT-AAATCTAATTTTC
1 ATAATTTTAAAAAGATTAAAATATAATTTTC
* * *
103757484 ATAATTTTAGAAGGGTTAAAATATAATTTT
1 ATAATTTTAAAAAGATTAAAATATAATTTT
103757514 ATATTTACTA
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
30 14 0.56
31 11 0.44
ACGTcount: A:0.45, C:0.03, G:0.08, T:0.43
Consensus pattern (31 bp):
ATAATTTTAAAAAGATTAAAATATAATTTTC
Found at i:103761171 original size:12 final size:12
Alignment explanation
Indices: 103761139--103761172 Score: 50
Period size: 13 Copynumber: 2.8 Consensus size: 12
103761129 CCCTTAATTA
103761139 ATTTAAATTAAT
1 ATTTAAATTAAT
*
103761151 TTGTTAAATTAAT
1 AT-TTAAATTAAT
103761164 ATTTAAATT
1 ATTTAAATT
103761173 GTATTTATAA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
12 8 0.42
13 11 0.58
ACGTcount: A:0.44, C:0.00, G:0.03, T:0.53
Consensus pattern (12 bp):
ATTTAAATTAAT
Found at i:103767375 original size:26 final size:26
Alignment explanation
Indices: 103767346--103767396 Score: 68
Period size: 26 Copynumber: 2.0 Consensus size: 26
103767336 AAGATTTCGT
* *
103767346 AATAATACGTATGATAGAC-TAAAATA
1 AATAATACATATAATAG-CTTAAAATA
103767372 AATAATACATATAATAGCTTAAAAT
1 AATAATACATATAATAGCTTAAAAT
103767397 GTATATAATA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
25 1 0.05
26 21 0.95
ACGTcount: A:0.55, C:0.08, G:0.08, T:0.29
Consensus pattern (26 bp):
AATAATACATATAATAGCTTAAAATA
Found at i:103794174 original size:61 final size:61
Alignment explanation
Indices: 103794075--103794643 Score: 633
Period size: 61 Copynumber: 9.3 Consensus size: 61
103794065 ACATGGTTGG
* * * *
103794075 ATTTGGCTCTCAGTAGCATATCAGTGAGCCAATTCAGCTCCTTTCATAGTTAGATAACTGA
1 ATTTGGCTCTCAGTAGAATATCAGTGAGCCAATTCAGTTCCTTTCATAGTTACATAGCTGA
* * * * * *
103794136 ATTTGGCTCTCAGTAGCACAACAGTGAGCCAATCCAGCTCCTTTCATAGTTAGATAGCTGA
1 ATTTGGCTCTCAGTAGAATATCAGTGAGCCAATTCAGTTCCTTTCATAGTTACATAGCTGA
** *
103794197 ATTTCACTATCAGTAGAATATCAGTGAGCCAATTCAGTTCCTTTCATAGTTACATAGCTGA
1 ATTTGGCTCTCAGTAGAATATCAGTGAGCCAATTCAGTTCCTTTCATAGTTACATAGCTGA
* * * *
103794258 ATTCGGCTCTCAGTAGAATATCAGTGAGTCAATTAAGTTCCTTTCATAGTTAGATAGCTGA
1 ATTTGGCTCTCAGTAGAATATCAGTGAGCCAATTCAGTTCCTTTCATAGTTACATAGCTGA
* * * * * *
103794319 ATTTGGCTCTAAGTAGAATATCAGTGAGTCGATTCAGCTCCTTCCATAGATACATAGCTGA
1 ATTTGGCTCTCAGTAGAATATCAGTGAGCCAATTCAGTTCCTTTCATAGTTACATAGCTGA
* * * ** *
103794380 ATTTGGCTCTCAGTAGAACATCAGTGAGTCTATTCAGCCCCTTTCATAGTTAGATAGCTGA
1 ATTTGGCTCTCAGTAGAATATCAGTGAGCCAATTCAGTTCCTTTCATAGTTACATAGCTGA
* * * * * * * *
103794441 ATTGGGCTCT-TGTATAAAATCAATGAGCCAATTAAGTTCCTTCCAAAGTTACATAGCTGA
1 ATTTGGCTCTCAGTAGAATATCAGTGAGCCAATTCAGTTCCTTTCATAGTTACATAGCTGA
* * * * *
103794501 TTTTGGCTCTAAGTA-ATATATCAGTCAACCAATTCCAGTTCCTTCCATAGTTACATA-CTGA
1 ATTTGGCTCTCAGTAGA-ATATCAGTGAGCCAATT-CAGTTCCTTTCATAGTTACATAGCTGA
* * * * * * *
103794562 ATTCGGTTCTCAGTACAA-ACCAGTGAGTCAATTAAGTTCCTTTCATAGTTTACATAGTTGA
1 ATTTGGCTCTCAGTAGAATATCAGTGAGCCAATTCAGTTCCTTTCATAG-TTACATAGCTGA
*
103794623 ATTTGGCTCTCAGTGGAATAT
1 ATTTGGCTCTCAGTAGAATAT
103794644 ATCAGAGAGA
Statistics
Matches: 428, Mismatches: 73, Indels: 13
0.83 0.14 0.03
Matches are distributed among these distances:
59 13 0.03
60 65 0.15
61 328 0.77
62 22 0.05
ACGTcount: A:0.29, C:0.20, G:0.18, T:0.33
Consensus pattern (61 bp):
ATTTGGCTCTCAGTAGAATATCAGTGAGCCAATTCAGTTCCTTTCATAGTTACATAGCTGA
Found at i:103799103 original size:27 final size:28
Alignment explanation
Indices: 103799039--103799105 Score: 82
Period size: 27 Copynumber: 2.4 Consensus size: 28
103799029 ATCACATCAA
*
103799039 ATACATTAAAAACATTAAAATAAATGTTT
1 ATAC-TTAAAAACATTAAAATAAATATTT
* *
103799068 ATACTTAAATACATTAAAA-AAGTATTT
1 ATACTTAAAAACATTAAAATAAATATTT
*
103799095 ATATTTAAAAA
1 ATACTTAAAAA
103799106 TAACACTAAT
Statistics
Matches: 33, Mismatches: 5, Indels: 2
0.82 0.12 0.05
Matches are distributed among these distances:
27 15 0.45
28 14 0.42
29 4 0.12
ACGTcount: A:0.55, C:0.06, G:0.03, T:0.36
Consensus pattern (28 bp):
ATACTTAAAAACATTAAAATAAATATTT
Found at i:103806799 original size:23 final size:23
Alignment explanation
Indices: 103806744--103806801 Score: 98
Period size: 23 Copynumber: 2.5 Consensus size: 23
103806734 ATATAACAAC
* *
103806744 AATATGGTAAGATGATAAATGAA
1 AATATGATATGATGATAAATGAA
103806767 AATATGATATGATGATAAATGAA
1 AATATGATATGATGATAAATGAA
103806790 AATATGATATGA
1 AATATGATATGA
103806802 ATGTCTTGGT
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
23 33 1.00
ACGTcount: A:0.52, C:0.00, G:0.19, T:0.29
Consensus pattern (23 bp):
AATATGATATGATGATAAATGAA
Found at i:103808251 original size:18 final size:19
Alignment explanation
Indices: 103808225--103808260 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
103808215 TAAACTAAAT
*
103808225 TTAACTCCCT-AATTTCAC
1 TTAAATCCCTAAATTTCAC
103808243 TTAAATCCCTAAATTTCA
1 TTAAATCCCTAAATTTCA
103808261 AAATTTTCAC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 9 0.56
19 7 0.44
ACGTcount: A:0.33, C:0.28, G:0.00, T:0.39
Consensus pattern (19 bp):
TTAAATCCCTAAATTTCAC
Found at i:103808705 original size:17 final size:17
Alignment explanation
Indices: 103808673--103808705 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
103808663 ACTTAAACAT
103808673 TAATATTATAATATATA
1 TAATATTATAATATATA
103808690 TAATACTTATAA-ATAT
1 TAATA-TTATAATATAT
103808706 CTATCTTATG
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
17 9 0.60
18 6 0.40
ACGTcount: A:0.52, C:0.03, G:0.00, T:0.45
Consensus pattern (17 bp):
TAATATTATAATATATA
Found at i:103809274 original size:14 final size:15
Alignment explanation
Indices: 103809255--103809283 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
103809245 TTGTTATAAA
103809255 AATATATAA-ATATT
1 AATATATAATATATT
103809269 AATATATAATATATT
1 AATATATAATATATT
103809284 TTTAAATATT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 9 0.64
15 5 0.36
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (15 bp):
AATATATAATATATT
Found at i:103809712 original size:30 final size:30
Alignment explanation
Indices: 103809678--103809740 Score: 108
Period size: 30 Copynumber: 2.1 Consensus size: 30
103809668 ACTTATTTTA
103809678 TTGTTAATTTTGTTATTATTTTAAAGGCAT
1 TTGTTAATTTTGTTATTATTTTAAAGGCAT
* *
103809708 TTGTTAATTTTTTTATTATTTTAGAGGCAT
1 TTGTTAATTTTGTTATTATTTTAAAGGCAT
103809738 TTG
1 TTG
103809741 CTTGTTAAGT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.24, C:0.03, G:0.14, T:0.59
Consensus pattern (30 bp):
TTGTTAATTTTGTTATTATTTTAAAGGCAT
Found at i:103820803 original size:25 final size:24
Alignment explanation
Indices: 103820775--103820822 Score: 71
Period size: 25 Copynumber: 2.0 Consensus size: 24
103820765 ATCATGGGAA
103820775 AAATGTG-AAGACATTGAAATGTATT
1 AAATGTGAAAGA-ATTGAAA-GTATT
103820800 AAATGTGAAAGAATTGAAAGTAT
1 AAATGTGAAAGAATTGAAAGTAT
103820823 AATATATGGG
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
24 4 0.18
25 14 0.64
26 4 0.18
ACGTcount: A:0.48, C:0.02, G:0.21, T:0.29
Consensus pattern (24 bp):
AAATGTGAAAGAATTGAAAGTATT
Found at i:103833252 original size:24 final size:24
Alignment explanation
Indices: 103833223--103833300 Score: 63
Period size: 24 Copynumber: 3.2 Consensus size: 24
103833213 GAACAGTGTA
103833223 ATTATTACATCTACAAAGAGCTTT
1 ATTATTACATCTACAAAGAGCTTT
* * * * *
103833247 ATTATT-C-TGTGATATTACAG-TGTA
1 ATTATTACATCT-ACA-AAGAGCT-TT
103833271 ATTATTACATCTACAAAGAGCTTT
1 ATTATTACATCTACAAAGAGCTTT
103833295 ATTATT
1 ATTATT
103833301 CTGTGATATT
Statistics
Matches: 38, Mismatches: 10, Indels: 12
0.63 0.17 0.20
Matches are distributed among these distances:
22 2 0.05
23 4 0.11
24 26 0.68
25 4 0.11
26 2 0.05
ACGTcount: A:0.35, C:0.13, G:0.10, T:0.42
Consensus pattern (24 bp):
ATTATTACATCTACAAAGAGCTTT
Found at i:103833271 original size:48 final size:48
Alignment explanation
Indices: 103833215--103833310 Score: 192
Period size: 48 Copynumber: 2.0 Consensus size: 48
103833205 CAGTGAAAGA
103833215 ACAGTGTAATTATTACATCTACAAAGAGCTTTATTATTCTGTGATATT
1 ACAGTGTAATTATTACATCTACAAAGAGCTTTATTATTCTGTGATATT
103833263 ACAGTGTAATTATTACATCTACAAAGAGCTTTATTATTCTGTGATATT
1 ACAGTGTAATTATTACATCTACAAAGAGCTTTATTATTCTGTGATATT
103833311 CTCATTTTGT
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
48 48 1.00
ACGTcount: A:0.33, C:0.12, G:0.12, T:0.42
Consensus pattern (48 bp):
ACAGTGTAATTATTACATCTACAAAGAGCTTTATTATTCTGTGATATT
Found at i:103835165 original size:15 final size:15
Alignment explanation
Indices: 103835145--103835175 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
103835135 ATCTTGGAAC
103835145 TAAGAAATGTTGTGT
1 TAAGAAATGTTGTGT
103835160 TAAGAAATGTTGTGT
1 TAAGAAATGTTGTGT
103835175 T
1 T
103835176 TCTTTATGTA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.32, C:0.00, G:0.26, T:0.42
Consensus pattern (15 bp):
TAAGAAATGTTGTGT
Found at i:103845112 original size:31 final size:30
Alignment explanation
Indices: 103845058--103845117 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
103845048 ATCTCTATCT
* *
103845058 TTTTTAAAGAATTAAATTAAATTTTTATCAA
1 TTTTAAAAGAATTAAAGTAAA-TTTTATCAA
103845089 TTTTAAAAG-ATTAAAGTATAATTTTATCA
1 TTTTAAAAGAATTAAAGTA-AATTTTATCA
103845118 TTATTAATTT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
30 16 0.62
31 10 0.38
ACGTcount: A:0.45, C:0.03, G:0.05, T:0.47
Consensus pattern (30 bp):
TTTTAAAAGAATTAAAGTAAATTTTATCAA
Found at i:103845142 original size:16 final size:17
Alignment explanation
Indices: 103845118--103845150 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
103845108 AATTTTATCA
*
103845118 TTATTAATT-TAAAATT
1 TTATAAATTATAAAATT
103845134 TTATAAATTATAAAATT
1 TTATAAATTATAAAATT
103845151 AAGCAGGGCC
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:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (17 bp):
TTATAAATTATAAAATT
Found at i:103845152 original size:23 final size:22
Alignment explanation
Indices: 103845108--103845152 Score: 54
Period size: 23 Copynumber: 2.0 Consensus size: 22
103845098 ATTAAAGTAT
* * *
103845108 AATTTTATCATTATTAATTTAA
1 AATTTTATAATTATAAAATTAA
103845130 AATTTTATAAATTATAAAATTAA
1 AATTTTAT-AATTATAAAATTAA
103845153 GCAGGGCCCT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
22 8 0.42
23 11 0.58
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (22 bp):
AATTTTATAATTATAAAATTAA
Found at i:103852662 original size:30 final size:31
Alignment explanation
Indices: 103852603--103852664 Score: 81
Period size: 31 Copynumber: 2.0 Consensus size: 31
103852593 TAATTTTTTC
* *
103852603 TGAATAGTTTAGTGACTTAAATAGAAACTTT
1 TGAATAATTTAATGACTTAAATAGAAACTTT
* *
103852634 TGAATAATTTAATGAC-TAAATTGTAACTTT
1 TGAATAATTTAATGACTTAAATAGAAACTTT
103852664 T
1 T
103852665 TTAATTAAGT
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
30 13 0.48
31 14 0.52
ACGTcount: A:0.39, C:0.06, G:0.13, T:0.42
Consensus pattern (31 bp):
TGAATAATTTAATGACTTAAATAGAAACTTT
Found at i:103852918 original size:48 final size:48
Alignment explanation
Indices: 103852859--103852952 Score: 170
Period size: 48 Copynumber: 2.0 Consensus size: 48
103852849 AACATAAAAC
103852859 AAAATCAATCAATTAGATTCAACCAATAATTGATTTACATATCAATGT
1 AAAATCAATCAATTAGATTCAACCAATAATTGATTTACATATCAATGT
* *
103852907 AAAATCAATCAATTATATTCAACCAATAATTGATTTACGTATCAAT
1 AAAATCAATCAATTAGATTCAACCAATAATTGATTTACATATCAAT
103852953 ATACGTGAAA
Statistics
Matches: 44, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
48 44 1.00
ACGTcount: A:0.46, C:0.15, G:0.05, T:0.34
Consensus pattern (48 bp):
AAAATCAATCAATTAGATTCAACCAATAATTGATTTACATATCAATGT
Found at i:103859592 original size:18 final size:18
Alignment explanation
Indices: 103859559--103859593 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
103859549 GTATTTGATG
**
103859559 TATTTTATTTTTAAAATT
1 TATTTTATTTAAAAAATT
103859577 TATTTTATTTAAAAAAT
1 TATTTTATTTAAAAAAT
103859594 ATAAAAAAAT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (18 bp):
TATTTTATTTAAAAAATT
Found at i:103862475 original size:7 final size:7
Alignment explanation
Indices: 103862437--103862471 Score: 61
Period size: 7 Copynumber: 5.0 Consensus size: 7
103862427 AAGAAACACA
103862437 AAATAAT
1 AAATAAT
103862444 AAATAAT
1 AAATAAT
103862451 AAATAAT
1 AAATAAT
103862458 AAATAAT
1 AAATAAT
*
103862465 TAATAAT
1 AAATAAT
103862472 TAATTATGTT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
7 27 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (7 bp):
AAATAAT
Found at i:103866421 original size:31 final size:31
Alignment explanation
Indices: 103866386--103866446 Score: 88
Period size: 31 Copynumber: 2.0 Consensus size: 31
103866376 TTGCTACTGA
*
103866386 TTCCCTTCCTTTTACTCCTTT-TACTACCGAT
1 TTCCCTCCCTTTTACT-CTTTGTACTACCGAT
*
103866417 TTCCCTCCCTTTTACTCTTTGTGCTACCGA
1 TTCCCTCCCTTTTACTCTTTGTACTACCGA
103866447 AATTCCTTTA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
30 4 0.15
31 23 0.85
ACGTcount: A:0.11, C:0.36, G:0.07, T:0.46
Consensus pattern (31 bp):
TTCCCTCCCTTTTACTCTTTGTACTACCGAT
Found at i:103874947 original size:138 final size:140
Alignment explanation
Indices: 103874669--103875088 Score: 619
Period size: 141 Copynumber: 3.0 Consensus size: 140
103874659 CCAACTCCAC
* *
103874669 ATGCTACCATTTGGTCATAGCTTGAAAAGACTCTCTCTAATTCTACTACTAATCTTACGAGATAA
1 ATGCTACCATTAGGTCATAGCTTGAAAAGAC-CTCTCTAATCCTACTACTAATCTTACGAGATAA
** * * *
103874734 ATCACTAGCTTAATGAGACCTACGTCAATCTCTTCGTCTATACAAGTCCCTCCTCTAAAAAGAGT
65 ATCACTAGCACAATGAGACCCACGTCAATCTCTTCATCTATACAAGTCCCTCCTCTAAAAAGAGA
103874799 CAAACTCTCTT
130 CAAACTCTCTT
* *
103874810 ATGCTACCATTAGGTCATAACTTGAAAAGA-CTCTCTAATCCTACTGCTAATCTTACGAGATAAA
1 ATGCTACCATTAGGTCATAGCTTGAAAAGACCTCTCTAATCCTACTACTAATCTTACGAGATAAA
*
103874874 TCACTAGCACAATGAGACCCAC-ACAATCTCTTCATCTATACAAGTCCCTCCTCTAAAAAGAGAC
66 TCACTAGCACAATGAGACCCACGTCAATCTCTTCATCTATACAAGTCCCTCCTCTAAAAAGAGAC
103874938 AAACTCTCTT
131 AAACTCTCTT
* * * * * * *
103874948 ATGCTATCATTAAGTCATAGCTTAAAAAGACTCTCTCTAATCTTACTACTAATTTTACAAAATAA
1 ATGCTACCATTAGGTCATAGCTTGAAAAGAC-CTCTCTAATCCTACTACTAATCTTACGAGATAA
* * * *
103875013 ATCGCTAGCACAATGAGACTCACGTCAATCTCTTCATCTATACAAGTGCGTCCTCTAAAAAGAGA
65 ATCACTAGCACAATGAGACCCACGTCAATCTCTTCATCTATACAAGTCCCTCCTCTAAAAAGAGA
103875078 CAAACTCTCTT
130 CAAACTCTCTT
103875089 CCTCCAAGAG
Statistics
Matches: 252, Mismatches: 24, Indels: 6
0.89 0.09 0.02
Matches are distributed among these distances:
138 75 0.30
139 51 0.20
140 49 0.19
141 77 0.31
ACGTcount: A:0.34, C:0.25, G:0.10, T:0.30
Consensus pattern (140 bp):
ATGCTACCATTAGGTCATAGCTTGAAAAGACCTCTCTAATCCTACTACTAATCTTACGAGATAAA
TCACTAGCACAATGAGACCCACGTCAATCTCTTCATCTATACAAGTCCCTCCTCTAAAAAGAGAC
AAACTCTCTT
Found at i:103876662 original size:40 final size:38
Alignment explanation
Indices: 103876618--103876748 Score: 145
Period size: 40 Copynumber: 3.3 Consensus size: 38
103876608 GATTATGCAT
* *
103876618 TAGCGGCGTTTGGAGCAAAAACGCCGCTAAAACTGAGTAA
1 TAGCGGCGTTTGG-TC-CAAACGCCGCTAAAACTGAGTAA
* * *
103876658 TAGCGGCGTTTTGGTCCAAATGCCGCTAAAAACTTAGAAA
1 TAGCGGCG-TTTGGTCCAAACGCCGCT-AAAACTGAGTAA
*
103876698 TAGCGGCATTTTTGGTCCAAACGCCGCTAAAACTGAGTAA
1 TAGCGGC--GTTTGGTCCAAACGCCGCTAAAACTGAGTAA
*
103876738 TAGAGGCGTTT
1 TAGCGGCGTTT
103876749 TTTTAAGAAA
Statistics
Matches: 76, Mismatches: 11, Indels: 10
0.78 0.11 0.10
Matches are distributed among these distances:
38 3 0.04
39 9 0.12
40 42 0.55
41 22 0.29
ACGTcount: A:0.31, C:0.20, G:0.25, T:0.24
Consensus pattern (38 bp):
TAGCGGCGTTTGGTCCAAACGCCGCTAAAACTGAGTAA
Found at i:103876751 original size:41 final size:40
Alignment explanation
Indices: 103876636--103876750 Score: 169
Period size: 40 Copynumber: 2.9 Consensus size: 40
103876626 TTTGGAGCAA
103876636 AAACGCCGCTAAAACTGAGTAATAGCGGCG-TTTTGGTCC
1 AAACGCCGCTAAAACTGAGTAATAGCGGCGTTTTTGGTCC
* * * *
103876675 AAATGCCGCTAAAAACTTAGAAATAGCGGCATTTTTGGTCC
1 AAACGCCGCT-AAAACTGAGTAATAGCGGCGTTTTTGGTCC
*
103876716 AAACGCCGCTAAAACTGAGTAATAGAGGCGTTTTT
1 AAACGCCGCTAAAACTGAGTAATAGCGGCGTTTTT
103876751 TTAAGAAAAC
Statistics
Matches: 65, Mismatches: 9, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
39 9 0.14
40 38 0.58
41 18 0.28
ACGTcount: A:0.32, C:0.20, G:0.23, T:0.25
Consensus pattern (40 bp):
AAACGCCGCTAAAACTGAGTAATAGCGGCGTTTTTGGTCC
Found at i:103883878 original size:17 final size:17
Alignment explanation
Indices: 103883833--103883869 Score: 74
Period size: 17 Copynumber: 2.2 Consensus size: 17
103883823 TAGGAGTTTC
103883833 AACAATAATCATAACAA
1 AACAATAATCATAACAA
103883850 AACAATAATCATAACAA
1 AACAATAATCATAACAA
103883867 AAC
1 AAC
103883870 TTTAATCATG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.65, C:0.19, G:0.00, T:0.16
Consensus pattern (17 bp):
AACAATAATCATAACAA
Found at i:103886239 original size:3 final size:3
Alignment explanation
Indices: 103886231--103886335 Score: 51
Period size: 3 Copynumber: 36.3 Consensus size: 3
103886221 AAGGAATATT
* * * * *
103886231 ATA ATA ATA A-C ATA ATA ATA ATA TTA ATA ATC AT- ATT ATA GTTA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA -ATA
* * * * *
103886275 GTA ATT CTA ATA CTA ATT A-A ATA ATA AT- ATA A-A A-A ATAA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT-A ATA
*
103886317 ATA ATA ACA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA A
103886336 AGTAAAAATA
Statistics
Matches: 76, Mismatches: 19, Indels: 14
0.70 0.17 0.13
Matches are distributed among these distances:
2 10 0.13
3 61 0.80
4 5 0.07
ACGTcount: A:0.59, C:0.05, G:0.02, T:0.34
Consensus pattern (3 bp):
ATA
Found at i:103886239 original size:11 final size:11
Alignment explanation
Indices: 103886199--103886334 Score: 59
Period size: 11 Copynumber: 11.9 Consensus size: 11
103886189 ATGTGGGTAG
103886199 AATAATAA-AT
1 AATAATAATAT
103886209 AATAAGTAA-AT
1 AATAA-TAATAT
* *
103886220 AAAGGAATATTAT
1 -AA-TAATAATAT
*
103886233 AATAATAACAT
1 AATAATAATAT
103886244 AATAATAATATT
1 AATAATAATA-T
103886256 AATAATCATATTAT
1 AATAAT-A-A-TAT
* * *
103886270 AGTTAGTAATTCT
1 A-ATAATAA-TAT
*
103886283 AATACTAAT-T
1 AATAATAATAT
103886293 AAATAATAATAT
1 -AATAATAATAT
103886305 AA-AA-AATA-
1 AATAATAATAT
*
103886313 AATAATAATAAC
1 AATAATAAT-AT
103886325 AATAATAATA
1 AATAATAATA
103886335 AAGTAAAAAT
Statistics
Matches: 99, Mismatches: 12, Indels: 29
0.71 0.09 0.21
Matches are distributed among these distances:
8 2 0.02
9 6 0.06
10 11 0.11
11 33 0.33
12 28 0.28
13 10 0.10
14 4 0.04
15 5 0.05
ACGTcount: A:0.60, C:0.04, G:0.04, T:0.33
Consensus pattern (11 bp):
AATAATAATAT
Found at i:103889683 original size:12 final size:12
Alignment explanation
Indices: 103889666--103889690 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
103889656 ACCCAAAACC
103889666 CTTAGCCCAAAA
1 CTTAGCCCAAAA
103889678 CTTAGCCCAAAA
1 CTTAGCCCAAAA
103889690 C
1 C
103889691 ACTAACCCAA
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:0.40, C:0.36, G:0.08, T:0.16
Consensus pattern (12 bp):
CTTAGCCCAAAA
Found at i:103890554 original size:3 final size:3
Alignment explanation
Indices: 103890542--103890575 Score: 59
Period size: 3 Copynumber: 11.0 Consensus size: 3
103890532 TGTATTTCTA
103890542 TAT TATT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TA-T TAT TAT TAT TAT TAT TAT TAT TAT TAT
103890576 ATGGTAGTGT
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
3 27 0.90
4 3 0.10
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:103890701 original size:16 final size:15
Alignment explanation
Indices: 103890670--103890712 Score: 59
Period size: 16 Copynumber: 2.8 Consensus size: 15
103890660 CCTTCATTCC
*
103890670 ATTATTATTATTACT
1 ATTATTATTTTTACT
103890685 ATTATTATATTTTACT
1 ATTATTAT-TTTTACT
*
103890701 ATCATTATTTTT
1 ATTATTATTTTT
103890713 CATACGTATA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
15 12 0.48
16 13 0.52
ACGTcount: A:0.30, C:0.07, G:0.00, T:0.63
Consensus pattern (15 bp):
ATTATTATTTTTACT
Found at i:103890801 original size:3 final size:3
Alignment explanation
Indices: 103890777--103890982 Score: 82
Period size: 3 Copynumber: 68.0 Consensus size: 3
103890767 TTACTACCTC
* * * * * *
103890777 TAT TAT GTAT TAT TAA TA- TAT TAT TAC TAC TAT TGT TAC TGT TAT
1 TAT TAT -TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* * * * * *
103890822 TAT CAT CACT TGT TAT TAT AATT TAT TAT TGT TACT TAT TAT T-T TAC
1 TAT TAT TA-T TAT TAT TAT TA-T TAT TAT TAT TA-T TAT TAT TAT TAT
* * * * * *
103890869 TAA TAT TAT CTAA TA- TAT CAT CAT TAT CAT TAT T-T TCAT TAT AACT
1 TAT TAT TAT -TAT TAT TAT TAT TAT TAT TAT TAT TAT T-AT TAT TA-T
* * *
103890915 TAA TA- GAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAC TAT TAT T-T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* * *
103890961 AAT ATAT TAT TTT TAC TAT TAT
1 TAT -TAT TAT TAT TAT TAT TAT
103890983 CGTCATATTG
Statistics
Matches: 151, Mismatches: 38, Indels: 28
0.70 0.18 0.13
Matches are distributed among these distances:
2 10 0.07
3 124 0.82
4 17 0.11
ACGTcount: A:0.33, C:0.08, G:0.03, T:0.56
Consensus pattern (3 bp):
TAT
Found at i:103891058 original size:22 final size:22
Alignment explanation
Indices: 103891028--103891088 Score: 61
Period size: 22 Copynumber: 2.8 Consensus size: 22
103891018 TTATAATATC
*
103891028 TTTTACTATTATTATTGTTGTA
1 TTTTACTATTATTATTGTTATA
* * *
103891050 TTTTTCTATTATTGTTATTATA
1 TTTTACTATTATTATTGTTATA
* *
103891072 TTTTCCT-TTATTTTTGT
1 TTTTACTATTATTATTGT
103891089 ATTTACTTAT
Statistics
Matches: 32, Mismatches: 7, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
21 8 0.25
22 24 0.75
ACGTcount: A:0.18, C:0.07, G:0.07, T:0.69
Consensus pattern (22 bp):
TTTTACTATTATTATTGTTATA
Found at i:103894882 original size:31 final size:32
Alignment explanation
Indices: 103894846--103894910 Score: 82
Period size: 32 Copynumber: 2.1 Consensus size: 32
103894836 TATTATTTTT
*
103894846 ATACTTTTT-T-AATGTTTTT-TAATTTTCAAAA
1 ATACTTTTTATAAAT-TTTTTGGAATTTT-AAAA
103894877 ATACTTTTTATAAATTTTTTGGAATTTTAAAA
1 ATACTTTTTATAAATTTTTTGGAATTTTAAAA
103894909 AT
1 AT
103894911 TTTAAAAAAT
Statistics
Matches: 30, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
31 9 0.30
32 12 0.40
33 9 0.30
ACGTcount: A:0.35, C:0.05, G:0.05, T:0.55
Consensus pattern (32 bp):
ATACTTTTTATAAATTTTTTGGAATTTTAAAA
Found at i:103898439 original size:24 final size:24
Alignment explanation
Indices: 103898407--103898456 Score: 100
Period size: 24 Copynumber: 2.1 Consensus size: 24
103898397 TATAAGAAAC
103898407 TAGACTAAATAAGCTTTAATTTAA
1 TAGACTAAATAAGCTTTAATTTAA
103898431 TAGACTAAATAAGCTTTAATTTAA
1 TAGACTAAATAAGCTTTAATTTAA
103898455 TA
1 TA
103898457 TTTTATTCAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.46, C:0.08, G:0.08, T:0.38
Consensus pattern (24 bp):
TAGACTAAATAAGCTTTAATTTAA
Found at i:103899623 original size:13 final size:13
Alignment explanation
Indices: 103899605--103899644 Score: 55
Period size: 12 Copynumber: 3.1 Consensus size: 13
103899595 TTTTAAACAA
103899605 ACTTTTCAAAAGC
1 ACTTTTCAAAAGC
*
103899618 ACTTTTTCACAA-C
1 AC-TTTTCAAAAGC
103899631 ACTTTTCAAAAGC
1 ACTTTTCAAAAGC
103899644 A
1 A
103899645 TTGCCAAACT
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
12 8 0.35
13 7 0.30
14 8 0.35
ACGTcount: A:0.38, C:0.25, G:0.05, T:0.33
Consensus pattern (13 bp):
ACTTTTCAAAAGC
Found at i:103900095 original size:24 final size:24
Alignment explanation
Indices: 103900068--103900135 Score: 66
Period size: 27 Copynumber: 2.7 Consensus size: 24
103900058 AACATTTGGC
103900068 ATTT-GAACTTAATATTTTTTTTTA
1 ATTTGGAACTTAA-ATTTTTTTTTA
* *
103900092 ATTTGGTACTTCAATTTTTTTTATCCA
1 ATTTGGAACTTAAATTTTTTTT-T--A
*
103900119 ATTTGGTACTTAAATTT
1 ATTTGGAACTTAAATTT
103900136 GACACTTTTT
Statistics
Matches: 37, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
24 13 0.35
25 7 0.19
27 17 0.46
ACGTcount: A:0.26, C:0.09, G:0.07, T:0.57
Consensus pattern (24 bp):
ATTTGGAACTTAAATTTTTTTTTA
Done.