Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr8
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: 56894857
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.32
Warning! 1173888 characters in sequence are not A, C, G, or T
File 44 of 185
Found at i:13090102 original size:12 final size:12
Alignment explanation
Indices: 13090085--13090110 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
13090075 AAAAATTCAC
13090085 AATATCTTCTAA
1 AATATCTTCTAA
13090097 AATATCTTCTAA
1 AATATCTTCTAA
13090109 AA
1 AA
13090111 AATTCACAAA
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:0.46, C:0.15, G:0.00, T:0.38
Consensus pattern (12 bp):
AATATCTTCTAA
Found at i:13090487 original size:17 final size:17
Alignment explanation
Indices: 13090465--13090497 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
13090455 AAAAAAATAT
13090465 AAAAAAATATT-TTATTC
1 AAAAAAA-ATTATTATTC
13090482 AAAAAAAATTATTATT
1 AAAAAAAATTATTATT
13090498 TTTTTAATTC
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 3 0.20
17 12 0.80
ACGTcount: A:0.58, C:0.03, G:0.00, T:0.39
Consensus pattern (17 bp):
AAAAAAAATTATTATTC
Found at i:13104116 original size:2 final size:2
Alignment explanation
Indices: 13104092--13104133 Score: 54
Period size: 2 Copynumber: 22.5 Consensus size: 2
13104082 GATACGTTTA
*
13104092 AT AT TT AT AT AT -T A- AT AT A- AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
13104131 AT A
1 AT A
13104134 GAGAGAGAGA
Statistics
Matches: 35, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
1 3 0.09
2 32 0.91
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:13105644 original size:19 final size:18
Alignment explanation
Indices: 13105617--13105667 Score: 57
Period size: 19 Copynumber: 2.7 Consensus size: 18
13105607 GTAAGGATTA
*
13105617 ATTTCATTTTTTTAATATT
1 ATTTAATTTTTTTAAT-TT
*
13105636 ATTTAATTTTTATAATTT
1 ATTTAATTTTTTTAATTT
*
13105654 AATTAATATTTTTT
1 ATTTAAT-TTTTTT
13105668 TATAATAGCC
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
18 8 0.30
19 19 0.70
ACGTcount: A:0.31, C:0.02, G:0.00, T:0.67
Consensus pattern (18 bp):
ATTTAATTTTTTTAATTT
Found at i:13107262 original size:18 final size:18
Alignment explanation
Indices: 13107206--13107266 Score: 95
Period size: 18 Copynumber: 3.4 Consensus size: 18
13107196 TGCCAAATGC
*
13107206 GTATCCTAACTCTTATGC
1 GTATCCTAACTCTTATGT
13107224 GTATCCTAACTCTTATGT
1 GTATCCTAACTCTTATGT
* *
13107242 GTATCCTAACCCTTATAT
1 GTATCCTAACTCTTATGT
13107260 GTATCCT
1 GTATCCT
13107267 TTTTCCACTC
Statistics
Matches: 40, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
18 40 1.00
ACGTcount: A:0.23, C:0.26, G:0.10, T:0.41
Consensus pattern (18 bp):
GTATCCTAACTCTTATGT
Found at i:13108586 original size:10 final size:10
Alignment explanation
Indices: 13108573--13108717 Score: 55
Period size: 10 Copynumber: 15.5 Consensus size: 10
13108563 ACATGTGGCA
13108573 AAAAAATTAT
1 AAAAAATTAT
13108583 -AAAAA--AT
1 AAAAAATTAT
*
13108590 -AAAATTTAT
1 AAAAAATTAT
13108599 -AAAAATTAT
1 AAAAAATTAT
* **
13108608 TAAATTTTA-
1 AAAAAATTAT
*
13108617 ATAAAAATGAT
1 A-AAAAATTAT
*
13108628 AAAATA-T-T
1 AAAAAATTAT
13108636 A-AAAATTAT
1 AAAAAATTAT
* *
13108645 -AAAATTTGT
1 AAAAAATTAT
13108654 AAAAAA-TAT
1 AAAAAATTAT
*
13108663 -TAAAATATAT
1 AAAAAAT-TAT
*
13108673 AAAAAAATTGT
1 -AAAAAATTAT
**
13108684 AAAATTTTAT
1 AAAAAATTAT
*
13108694 -AAAAATCAT
1 AAAAAATTAT
13108703 AAAAAATTAT
1 AAAAAATTAT
13108713 AAAAA
1 AAAAA
13108718 TGCATAAAAA
Statistics
Matches: 96, Mismatches: 25, Indels: 28
0.64 0.17 0.19
Matches are distributed among these distances:
7 9 0.09
8 7 0.07
9 30 0.31
10 42 0.44
11 3 0.03
12 5 0.05
ACGTcount: A:0.64, C:0.01, G:0.02, T:0.33
Consensus pattern (10 bp):
AAAAAATTAT
Found at i:13108616 original size:19 final size:19
Alignment explanation
Indices: 13108589--13108718 Score: 79
Period size: 19 Copynumber: 6.8 Consensus size: 19
13108579 TTATAAAAAA
*
13108589 TAAAATTTATAAAAATTAT
1 TAAATTTTATAAAAATTAT
*
13108608 TAAATTTTAATAAAAATGA-
1 TAAATTTT-ATAAAAATTAT
* *
13108627 TAAAATAT-TAAAAATTAT
1 TAAATTTTATAAAAATTAT
*
13108645 AAAATTTGTA-AAAAA-TAT
1 TAAATTT-TATAAAAATTAT
* * *
13108663 TAAAATATATAAAAAAATTGT
1 T-AAAT-TTTATAAAAATTAT
* *
13108684 AAAATTTTATAAAAATCAT
1 TAAATTTTATAAAAATTAT
* **
13108703 AAAAAATTATAAAAAT
1 TAAATTTTATAAAAAT
13108719 GCATAAAAAA
Statistics
Matches: 85, Mismatches: 18, Indels: 16
0.71 0.15 0.13
Matches are distributed among these distances:
17 8 0.09
18 7 0.08
19 49 0.58
20 19 0.22
21 2 0.02
ACGTcount: A:0.62, C:0.01, G:0.02, T:0.35
Consensus pattern (19 bp):
TAAATTTTATAAAAATTAT
Found at i:13108641 original size:29 final size:29
Alignment explanation
Indices: 13108587--13108642 Score: 69
Period size: 29 Copynumber: 1.9 Consensus size: 29
13108577 AATTATAAAA
* * *
13108587 AATAAAATTTATAAAAATTATTAAATTTT
1 AATAAAAATGATAAAAATTATAAAATTTT
13108616 AATAAAAATGATAAAATATTA-AAAATT
1 AATAAAAATGATAAAA-ATTATAAAATT
13108643 ATAAAATTTG
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
29 19 0.83
30 4 0.17
ACGTcount: A:0.61, C:0.00, G:0.02, T:0.38
Consensus pattern (29 bp):
AATAAAAATGATAAAAATTATAAAATTTT
Found at i:13108687 original size:9 final size:9
Alignment explanation
Indices: 13108574--13108718 Score: 91
Period size: 9 Copynumber: 15.7 Consensus size: 9
13108564 CATGTGGCAA
13108574 AAAAATTAT
1 AAAAATTAT
13108583 AAAAA--AT
1 AAAAATTAT
*
13108590 AAAATTTAT
1 AAAAATTAT
13108599 AAAAATTATT
1 AAAAATTA-T
**
13108609 AAATTTTAAT
1 AAAAATT-AT
*
13108619 AAAAATGAT
1 AAAAATTAT
13108628 -AAAA-TATT
1 AAAAATTA-T
13108636 AAAAATTAT
1 AAAAATTAT
* *
13108645 AAAATTTGT
1 AAAAATTAT
*
13108654 AAAAAATATT
1 AAAAATTA-T
*
13108664 AAAATATATAA
1 AAAA-AT-TAT
*
13108675 AAAAATTGT
1 AAAAATTAT
*
13108684 AAAATTTTAT
1 AAAA-ATTAT
*
13108694 AAAAATCAT
1 AAAAATTAT
13108703 AAAAAATTAT
1 -AAAAATTAT
13108713 AAAAAT
1 AAAAAT
13108719 GCATAAAAAA
Statistics
Matches: 102, Mismatches: 22, Indels: 24
0.69 0.15 0.16
Matches are distributed among these distances:
7 7 0.07
8 5 0.05
9 47 0.46
10 35 0.34
11 6 0.06
12 2 0.02
ACGTcount: A:0.63, C:0.01, G:0.02, T:0.34
Consensus pattern (9 bp):
AAAAATTAT
Found at i:13108689 original size:39 final size:40
Alignment explanation
Indices: 13108590--13108717 Score: 119
Period size: 39 Copynumber: 3.3 Consensus size: 40
13108580 TATAAAAAAT
* * *
13108590 AAAATT-TATAAAAATTATTAAATTTTAATAAAAATGAT--
1 AAAATTATAAAAAAATTATAAAATTTT-ATAAAAATCATAA
* *
13108628 AAAA-TAT-TAAAAATTATAAAATTTGTA-AAAAAT-AT-T
1 AAAATTATAAAAAAATTATAAAATTT-TATAAAAATCATAA
*
13108664 AAAATATATAAAAAAATTGTAAAATTTTATAAAAATCATAA
1 AAAAT-TATAAAAAAATTATAAAATTTTATAAAAATCATAA
13108705 AAAATTATAAAAA
1 AAAATTATAAAAA
13108718 TGCATAAAAA
Statistics
Matches: 77, Mismatches: 4, Indels: 16
0.79 0.04 0.16
Matches are distributed among these distances:
35 2 0.03
36 10 0.13
37 18 0.23
38 11 0.14
39 21 0.27
40 10 0.13
41 5 0.06
ACGTcount: A:0.62, C:0.01, G:0.02, T:0.34
Consensus pattern (40 bp):
AAAATTATAAAAAAATTATAAAATTTTATAAAAATCATAA
Found at i:13108726 original size:19 final size:19
Alignment explanation
Indices: 13108573--13108728 Score: 74
Period size: 20 Copynumber: 8.3 Consensus size: 19
13108563 ACATGTGGCA
13108573 AAAAAATTATAAAAA--AT
1 AAAAAATTATAAAAATCAT
* *
13108590 -AAAATTTATAAAAATTAT
1 AAAAAATTATAAAAATCAT
* ** *
13108608 TAAATTTTAATAAAAATGAT
1 AAAAAATT-ATAAAAATCAT
* *
13108628 AAAATA-T-TAAAAATTAT
1 AAAAAATTATAAAAATCAT
* *
13108645 -AAAATTTGTAAAAAAT-ATT
1 AAAAAATTAT-AAAAATCA-T
* * **
13108664 AAAATATATAAAAAAATTGT
1 AAAAAAT-TATAAAAATCAT
**
13108684 AAAATTTTATAAAAATCAT
1 AAAAAATTATAAAAATCAT
13108703 AAAAAATTATAAAAATGCAT
1 AAAAAATTATAAAAAT-CAT
13108723 AAAAAA
1 AAAAAA
13108729 GGTCATTTAA
Statistics
Matches: 108, Mismatches: 19, Indels: 21
0.73 0.13 0.14
Matches are distributed among these distances:
16 16 0.15
17 10 0.09
18 4 0.04
19 37 0.34
20 40 0.37
21 1 0.01
ACGTcount: A:0.64, C:0.01, G:0.03, T:0.32
Consensus pattern (19 bp):
AAAAAATTATAAAAATCAT
Found at i:13109002 original size:19 final size:19
Alignment explanation
Indices: 13108969--13109041 Score: 67
Period size: 19 Copynumber: 3.8 Consensus size: 19
13108959 ATCTATAAAA
* * *
13108969 ATTTATAATTTTTTTCTAT
1 ATTTATAATATTTTACAAT
13108988 ATTTATATATATTTTACAAT
1 ATTTATA-ATATTTTACAAT
* *
13109008 TTTTATAATATTTTATAAT
1 ATTTATAATATTTTACAAT
*
13109027 TTTTAATAA-ATTTTA
1 ATTT-ATAATATTTTA
13109042 AATTTTTTAA
Statistics
Matches: 47, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
19 28 0.60
20 19 0.40
ACGTcount: A:0.36, C:0.03, G:0.00, T:0.62
Consensus pattern (19 bp):
ATTTATAATATTTTACAAT
Found at i:13109014 original size:18 final size:17
Alignment explanation
Indices: 13108988--13109048 Score: 68
Period size: 19 Copynumber: 3.4 Consensus size: 17
13108978 TTTTTTCTAT
*
13108988 ATTTATATATATTTTACA
1 ATTTTTATATATTTTA-A
13109006 ATTTTTATAATATTTTATA
1 ATTTTTAT-ATATTTTA-A
*
13109025 ATTTTTAATAAATTTTAA
1 ATTTTT-ATATATTTTAA
13109043 ATTTTT
1 ATTTTT
13109049 TAATTAAAAT
Statistics
Matches: 38, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
18 14 0.37
19 22 0.58
20 2 0.05
ACGTcount: A:0.38, C:0.02, G:0.00, T:0.61
Consensus pattern (17 bp):
ATTTTTATATATTTTAA
Found at i:13109023 original size:10 final size:10
Alignment explanation
Indices: 13108989--13109079 Score: 66
Period size: 10 Copynumber: 9.2 Consensus size: 10
13108979 TTTTTCTATA
13108989 TTTATATATAT
1 TTTATA-ATAT
*
13109000 TTTACAAT-T
1 TTTATAATAT
13109009 TTTATAATAT
1 TTTATAATAT
13109019 TTTATAAT-T
1 TTTATAATAT
13109028 TTTAATAA-AT
1 TTT-ATAATAT
*
13109038 TTTA-AATTT
1 TTTATAATAT
*
13109047 TTTAATTAAAAT
1 TTT-A-TAATAT
* *
13109059 TTAATCAT-T
1 TTTATAATAT
13109068 TTTATAATAT
1 TTTATAATAT
13109078 TT
1 TT
13109080 ATTGATTTTT
Statistics
Matches: 62, Mismatches: 10, Indels: 17
0.70 0.11 0.19
Matches are distributed among these distances:
8 2 0.03
9 24 0.39
10 25 0.40
11 6 0.10
12 5 0.08
ACGTcount: A:0.38, C:0.02, G:0.00, T:0.59
Consensus pattern (10 bp):
TTTATAATAT
Found at i:13109049 original size:20 final size:20
Alignment explanation
Indices: 13108989--13109076 Score: 60
Period size: 19 Copynumber: 4.5 Consensus size: 20
13108979 TTTTTCTATA
*
13108989 TTTAT-ATATATTTTACAAT
1 TTTATAATAAATTTTACAAT
*
13109008 TTT-T-ATAATATTTTATAAT
1 TTTATAATAA-ATTTTACAAT
13109027 TTT-TAATAAATTTTA-AAT
1 TTTATAATAAATTTTACAAT
* * *
13109045 TTTTTAATTAAAATTTAATCATT
1 TTTATAA-T-AAATTTTA-CAAT
13109068 TTTATAATA
1 TTTATAATA
13109077 TTTATTGATT
Statistics
Matches: 57, Mismatches: 5, Indels: 12
0.77 0.07 0.16
Matches are distributed among these distances:
18 10 0.18
19 25 0.44
20 5 0.09
21 8 0.14
22 1 0.02
23 8 0.14
ACGTcount: A:0.40, C:0.02, G:0.00, T:0.58
Consensus pattern (20 bp):
TTTATAATAAATTTTACAAT
Found at i:13109052 original size:19 final size:19
Alignment explanation
Indices: 13108998--13109048 Score: 70
Period size: 19 Copynumber: 2.7 Consensus size: 19
13108988 ATTTATATAT
13108998 ATTTTACAATTTTT-ATAA
1 ATTTTACAATTTTTAATAA
*
13109016 TATTTTATAATTTTTAATAA
1 -ATTTTACAATTTTTAATAA
13109036 ATTTTA-AATTTTT
1 ATTTTACAATTTTT
13109049 TAATTAAAAT
Statistics
Matches: 30, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
18 7 0.23
19 19 0.63
20 4 0.13
ACGTcount: A:0.37, C:0.02, G:0.00, T:0.61
Consensus pattern (19 bp):
ATTTTACAATTTTTAATAA
Found at i:13110870 original size:5 final size:5
Alignment explanation
Indices: 13110860--13110885 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
13110850 CAATGCAAAC
13110860 TTTTA TTTTA TTTTA TTTTA TTTTA T
1 TTTTA TTTTA TTTTA TTTTA TTTTA T
13110886 AATTCTAAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (5 bp):
TTTTA
Found at i:13118985 original size:40 final size:40
Alignment explanation
Indices: 13118922--13118998 Score: 118
Period size: 40 Copynumber: 1.9 Consensus size: 40
13118912 ATTTTCCCCG
* * *
13118922 AAATCGCGTCCATGTCAGCGCGATTTGCTTACGTGGACAC
1 AAATCGCGCCCATGTAAGCGCGATTTGCTGACGTGGACAC
*
13118962 AAATCGCGCCCATGTAAGTGCGATTTGCTGACGTGGA
1 AAATCGCGCCCATGTAAGCGCGATTTGCTGACGTGGA
13118999 AGCAATAATT
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
40 33 1.00
ACGTcount: A:0.23, C:0.25, G:0.27, T:0.25
Consensus pattern (40 bp):
AAATCGCGCCCATGTAAGCGCGATTTGCTGACGTGGACAC
Found at i:13120725 original size:30 final size:30
Alignment explanation
Indices: 13120683--13120749 Score: 82
Period size: 30 Copynumber: 2.2 Consensus size: 30
13120673 CCTATGTCCC
* *
13120683 CCTATGTTCCTGAGAACTCGAAAGCCCA-T
1 CCTATCTTCCTGACAACTCGAAAGCCCATT
* *
13120712 CCATATCTTCCTGACAACTCTAAAGGCCATT
1 CC-TATCTTCCTGACAACTCGAAAGCCCATT
13120743 CCTATCT
1 CCTATCT
13120750 CCCCTACGTT
Statistics
Matches: 32, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
29 2 0.06
30 27 0.84
31 3 0.09
ACGTcount: A:0.27, C:0.33, G:0.12, T:0.28
Consensus pattern (30 bp):
CCTATCTTCCTGACAACTCGAAAGCCCATT
Found at i:13125230 original size:14 final size:14
Alignment explanation
Indices: 13125208--13125246 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 14
13125198 TGAATCATAA
*
13125208 AATAATATATTATT
1 AATAATATAATATT
*
13125222 AATATTATAATATT
1 AATAATATAATATT
13125236 -ATAATATAATA
1 AATAATATAATA
13125247 ATGAAAATCA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
13 10 0.45
14 12 0.55
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (14 bp):
AATAATATAATATT
Found at i:13125234 original size:8 final size:8
Alignment explanation
Indices: 13125214--13125248 Score: 52
Period size: 8 Copynumber: 4.2 Consensus size: 8
13125204 ATAAAATAAT
13125214 ATATTATTA
1 ATATTA-TA
13125223 ATATTATA
1 ATATTATA
13125231 ATATTATA
1 ATATTATA
*
13125239 ATATAATA
1 ATATTATA
13125247 AT
1 AT
13125249 GAAAATCATT
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
8 19 0.76
9 6 0.24
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (8 bp):
ATATTATA
Found at i:13125260 original size:23 final size:22
Alignment explanation
Indices: 13125204--13125283 Score: 83
Period size: 22 Copynumber: 3.6 Consensus size: 22
13125194 TAATTGAATC
*
13125204 ATAAAATAA-TATATTATTAATA
1 ATAAAATAATTATAATA-TAATA
* *
13125226 TTATAAT-ATTATAATATAATA
1 ATAAAATAATTATAATATAATA
* *
13125247 ATGAAAATCATTATAATATAATT
1 AT-AAAATAATTATAATATAATA
13125270 ATAAAATAATTATA
1 ATAAAATAATTATA
13125284 TTTATTTATT
Statistics
Matches: 48, Mismatches: 7, Indels: 6
0.79 0.11 0.10
Matches are distributed among these distances:
21 7 0.15
22 26 0.54
23 15 0.31
ACGTcount: A:0.56, C:0.01, G:0.01, T:0.41
Consensus pattern (22 bp):
ATAAAATAATTATAATATAATA
Found at i:13125272 original size:11 final size:11
Alignment explanation
Indices: 13125233--13125283 Score: 57
Period size: 11 Copynumber: 4.5 Consensus size: 11
13125223 ATATTATAAT
*
13125233 ATTATAATATA
1 ATTATAAAATA
* *
13125244 ATAATGAAAATC
1 ATTAT-AAAATA
*
13125256 ATTATAATATA
1 ATTATAAAATA
13125267 ATTATAAAATA
1 ATTATAAAATA
13125278 ATTATA
1 ATTATA
13125284 TTTATTTATT
Statistics
Matches: 32, Mismatches: 7, Indels: 2
0.78 0.17 0.05
Matches are distributed among these distances:
11 24 0.75
12 8 0.25
ACGTcount: A:0.57, C:0.02, G:0.02, T:0.39
Consensus pattern (11 bp):
ATTATAAAATA
Found at i:13125825 original size:17 final size:17
Alignment explanation
Indices: 13125803--13125840 Score: 76
Period size: 17 Copynumber: 2.2 Consensus size: 17
13125793 CCAATGAGAC
13125803 AAAACATCGGTTAAGGG
1 AAAACATCGGTTAAGGG
13125820 AAAACATCGGTTAAGGG
1 AAAACATCGGTTAAGGG
13125837 AAAA
1 AAAA
13125841 AGAGTACAGC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.47, C:0.11, G:0.26, T:0.16
Consensus pattern (17 bp):
AAAACATCGGTTAAGGG
Found at i:13128943 original size:29 final size:29
Alignment explanation
Indices: 13128889--13128946 Score: 73
Period size: 29 Copynumber: 2.0 Consensus size: 29
13128879 AAAAGAAATT
**
13128889 GAAAGAAAAAGAGAGCTTGAACGAAAAGA
1 GAAAGAAAAAGAGAGCGAGAACGAAAAGA
*
13128918 GAAAGAAAAAGAGTGCGAGCAA-GAAAAGA
1 GAAAGAAAAAGAGAGCGAG-AACGAAAAGA
13128947 ACCTTTAAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
29 23 0.92
30 2 0.08
ACGTcount: A:0.59, C:0.07, G:0.29, T:0.05
Consensus pattern (29 bp):
GAAAGAAAAAGAGAGCGAGAACGAAAAGA
Found at i:13130580 original size:27 final size:27
Alignment explanation
Indices: 13130550--13130602 Score: 97
Period size: 27 Copynumber: 2.0 Consensus size: 27
13130540 AACTATGTCG
*
13130550 TTGTATATTATTGTCTTAATTTTTTCA
1 TTGTATACTATTGTCTTAATTTTTTCA
13130577 TTGTATACTATTGTCTTAATTTTTTC
1 TTGTATACTATTGTCTTAATTTTTTC
13130603 TTTCATCTTT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.21, C:0.09, G:0.08, T:0.62
Consensus pattern (27 bp):
TTGTATACTATTGTCTTAATTTTTTCA
Found at i:13130720 original size:8 final size:8
Alignment explanation
Indices: 13130707--13130731 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
13130697 CCTATATTGT
13130707 TAATTAAA
1 TAATTAAA
13130715 TAATTAAA
1 TAATTAAA
13130723 TAATTAAA
1 TAATTAAA
13130731 T
1 T
13130732 GCGAACATTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (8 bp):
TAATTAAA
Found at i:13130959 original size:17 final size:17
Alignment explanation
Indices: 13130937--13130972 Score: 72
Period size: 17 Copynumber: 2.1 Consensus size: 17
13130927 AATTCAGTCG
13130937 TATAAGATTATTTTTCA
1 TATAAGATTATTTTTCA
13130954 TATAAGATTATTTTTCA
1 TATAAGATTATTTTTCA
13130971 TA
1 TA
13130973 CCTTAATTCA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.36, C:0.06, G:0.06, T:0.53
Consensus pattern (17 bp):
TATAAGATTATTTTTCA
Found at i:13131689 original size:15 final size:15
Alignment explanation
Indices: 13131669--13131699 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
13131659 CAACTAGTTT
13131669 TACCTAGAAAGGGAG
1 TACCTAGAAAGGGAG
13131684 TACCTAGAAAGGGAG
1 TACCTAGAAAGGGAG
13131699 T
1 T
13131700 TGAAGGGGGG
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:0.39, C:0.13, G:0.32, T:0.16
Consensus pattern (15 bp):
TACCTAGAAAGGGAG
Found at i:13133729 original size:24 final size:24
Alignment explanation
Indices: 13133674--13133732 Score: 100
Period size: 24 Copynumber: 2.5 Consensus size: 24
13133664 GGTTTAATGC
* *
13133674 AAATGGAGATATTTTGGAGAGATG
1 AAATGGATATATTTTGGAAAGATG
13133698 AAATGGATATATTTTGGAAAGATG
1 AAATGGATATATTTTGGAAAGATG
13133722 AAATGGATATA
1 AAATGGATATA
13133733 AATGGAGAAT
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
24 33 1.00
ACGTcount: A:0.42, C:0.00, G:0.27, T:0.31
Consensus pattern (24 bp):
AAATGGATATATTTTGGAAAGATG
Found at i:13133827 original size:37 final size:37
Alignment explanation
Indices: 13133773--13133885 Score: 183
Period size: 37 Copynumber: 3.1 Consensus size: 37
13133763 TTATGTGTTA
*
13133773 ATTC-AAGACTTATGTAATATCTTTAATTATGTAGTG
1 ATTCAAAGACTTATGTAATATTTTTAATTATGTAGTG
13133809 ATTCAAAGACTTATGTAATATTTTTAATTATGTAGTG
1 ATTCAAAGACTTATGTAATATTTTTAATTATGTAGTG
* * *
13133846 ATTCAAATATTTATGTAATGTTTTTAATTATGTAGTG
1 ATTCAAAGACTTATGTAATATTTTTAATTATGTAGTG
13133883 ATT
1 ATT
13133886 TAATTCGGGT
Statistics
Matches: 72, Mismatches: 4, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
36 4 0.06
37 68 0.94
ACGTcount: A:0.34, C:0.05, G:0.13, T:0.48
Consensus pattern (37 bp):
ATTCAAAGACTTATGTAATATTTTTAATTATGTAGTG
Found at i:13133841 original size:17 final size:17
Alignment explanation
Indices: 13133782--13133879 Score: 52
Period size: 17 Copynumber: 5.4 Consensus size: 17
13133772 AATTCAAGAC
*
13133782 TTATGTAATATCTTTAA
1 TTATGTAATATTTTTAA
* ***
13133799 TTATGTAGTGATTCAAAGA
1 TTATGTAAT-ATTTTTA-A
13133818 CTTATGTAATATTTTTAA
1 -TTATGTAATATTTTTAA
* ** *
13133836 TTATGTAGTGATTCAAATAT
1 TTATGTAAT-ATT--TTTAA
*
13133856 TTATGTAATGTTTTTAA
1 TTATGTAATATTTTTAA
13133873 TTATGTA
1 TTATGTA
13133880 GTGATTTAAT
Statistics
Matches: 57, Mismatches: 18, Indels: 12
0.66 0.21 0.14
Matches are distributed among these distances:
17 25 0.44
18 7 0.12
19 7 0.12
20 18 0.32
ACGTcount: A:0.34, C:0.04, G:0.12, T:0.50
Consensus pattern (17 bp):
TTATGTAATATTTTTAA
Found at i:13133900 original size:9 final size:9
Alignment explanation
Indices: 13133886--13134086 Score: 215
Period size: 9 Copynumber: 21.6 Consensus size: 9
13133876 TGTAGTGATT
13133886 TAATTCGGG
1 TAATTCGGG
13133895 TAATTCGGG
1 TAATTCGGG
*
13133904 TAATTTGGG
1 TAATTCGGG
13133913 TAATTTTCGGG
1 TAA--TTCGGG
13133924 TAATTCGGG
1 TAATTCGGG
*
13133933 TAATTTGGG
1 TAATTCGGG
13133942 TAATTTTCGGG
1 TAA--TTCGGG
13133953 TAATTCGGG
1 TAATTCGGG
*
13133962 TAATTTGTGGG
1 TAA-TT-CGGG
13133973 TAATTTTCGGG
1 TAA--TTCGGG
*
13133984 TAATTCGGA
1 TAATTCGGG
*
13133993 T-TTTCGGG
1 TAATTCGGG
13134001 TAATTCGGG
1 TAATTCGGG
13134010 TAATTCGGG
1 TAATTCGGG
*
13134019 TAATTCGAG
1 TAATTCGGG
* *
13134028 TAAGTCGAG
1 TAATTCGGG
13134037 TAATTCGGG
1 TAATTCGGG
* *
13134046 TAAGTCAGG
1 TAATTCGGG
13134055 TAATTCGGG
1 TAATTCGGG
*
13134064 TAAGTCGGG
1 TAATTCGGG
*
13134073 TAAGTCGGG
1 TAATTCGGG
13134082 TAATT
1 TAATT
13134087 TTTAACCAAA
Statistics
Matches: 164, Mismatches: 20, Indels: 16
0.82 0.10 0.08
Matches are distributed among these distances:
8 6 0.04
9 125 0.76
10 2 0.01
11 28 0.17
12 3 0.02
ACGTcount: A:0.23, C:0.09, G:0.32, T:0.36
Consensus pattern (9 bp):
TAATTCGGG
Found at i:13133997 original size:17 final size:17
Alignment explanation
Indices: 13133975--13134025 Score: 75
Period size: 17 Copynumber: 2.9 Consensus size: 17
13133965 TTTGTGGGTA
13133975 ATTTTCGGGTAATTCGG
1 ATTTTCGGGTAATTCGG
13133992 ATTTTCGGGTAATTCGG
1 ATTTTCGGGTAATTCGG
* *
13134009 GTAATTCGGGTAATTCG
1 AT-TTTCGGGTAATTCG
13134026 AGTAAGTCGA
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
17 18 0.58
18 13 0.42
ACGTcount: A:0.20, C:0.12, G:0.29, T:0.39
Consensus pattern (17 bp):
ATTTTCGGGTAATTCGG
Found at i:13134208 original size:27 final size:27
Alignment explanation
Indices: 13134149--13134208 Score: 66
Period size: 27 Copynumber: 2.2 Consensus size: 27
13134139 TTATTAACCG
* ***
13134149 AAAAAAATTTCGGTTCGGTTAATTTTT
1 AAAAAAAGTTCGGTTCGGTTAACGGTT
**
13134176 TTAAAAAGTTCGGTTCGGTTAACGGTT
1 AAAAAAAGTTCGGTTCGGTTAACGGTT
13134203 AAAAAA
1 AAAAAA
13134209 TTTGGGAGGT
Statistics
Matches: 25, Mismatches: 8, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.37, C:0.08, G:0.18, T:0.37
Consensus pattern (27 bp):
AAAAAAAGTTCGGTTCGGTTAACGGTT
Found at i:13134867 original size:10 final size:11
Alignment explanation
Indices: 13134835--13134879 Score: 65
Period size: 11 Copynumber: 4.1 Consensus size: 11
13134825 ACCTTCTCCA
13134835 AGCTCAATTTT
1 AGCTCAATTTT
13134846 AGCTCAATTTT
1 AGCTCAATTTT
*
13134857 AGTTC-ATTTT
1 AGCTCAATTTT
13134867 AGCTCAAATTTT
1 AGCTC-AATTTT
13134879 A
1 A
13134880 TTTGCTGGAA
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
10 9 0.30
11 15 0.50
12 6 0.20
ACGTcount: A:0.29, C:0.16, G:0.09, T:0.47
Consensus pattern (11 bp):
AGCTCAATTTT
Found at i:13142320 original size:20 final size:18
Alignment explanation
Indices: 13142295--13142378 Score: 57
Period size: 20 Copynumber: 4.4 Consensus size: 18
13142285 TTCCTATATC
13142295 AAATTCTATTATCAATCCAT
1 AAATTC-ATTATCAAT-CAT
*
13142315 AAATTCA-TATCAATTTCAC
1 AAATTCATTATCAA--TCAT
*
13142334 ATAATTCATT-TCAAT-TT
1 A-AATTCATTATCAATCAT
13142351 CAAATTCTATTATCAATCAT
1 -AAATTC-ATTATCAATCAT
*
13142371 AAACTCAT
1 AAATTCAT
13142379 ACTAAATTCA
Statistics
Matches: 51, Mismatches: 5, Indels: 18
0.69 0.07 0.24
Matches are distributed among these distances:
17 5 0.10
18 13 0.25
19 14 0.27
20 18 0.35
21 1 0.02
ACGTcount: A:0.40, C:0.19, G:0.00, T:0.40
Consensus pattern (18 bp):
AAATTCATTATCAATCAT
Found at i:13142325 original size:31 final size:30
Alignment explanation
Indices: 13142290--13142387 Score: 75
Period size: 31 Copynumber: 3.4 Consensus size: 30
13142280 ATTCATTCCT
13142290 ATATCAAATTCTATTATCAATCCATAAATTC
1 ATATCAAATTCTATTATCAAT-CATAAATTC
* *
13142321 ATATCAATTTC-A-CAT-AATTCAT---TTC
1 ATATCAAATTCTATTATCAA-TCATAAATTC
* *
13142346 AATTTCAAATTCTATTATCAATCATAAACTC
1 -ATATCAAATTCTATTATCAATCATAAATTC
13142377 ATA-CTAAATTC
1 ATATC-AAATTC
13142388 ACGTATTTCA
Statistics
Matches: 51, Mismatches: 7, Indels: 19
0.66 0.09 0.25
Matches are distributed among these distances:
25 3 0.06
26 9 0.18
27 1 0.02
28 11 0.22
29 6 0.12
30 9 0.18
31 12 0.24
ACGTcount: A:0.41, C:0.19, G:0.00, T:0.40
Consensus pattern (30 bp):
ATATCAAATTCTATTATCAATCATAAATTC
Found at i:13142398 original size:56 final size:57
Alignment explanation
Indices: 13142272--13142408 Score: 179
Period size: 57 Copynumber: 2.4 Consensus size: 57
13142262 ATATACCAAT
* * * * *
13142272 TTCACATAATTCATTCCTATATCAAATTCTATTATCAATCCATAAATTCATATCAAT
1 TTCACATAATTCATTTCAATTTCAAATTCTATTATCAATCCATAAACTCATATCAAA
13142329 TTCACATAATTCATTTCAATTTCAAATTCTATTATCAAT-CATAAACTCATA-CTAAA
1 TTCACATAATTCATTTCAATTTCAAATTCTATTATCAATCCATAAACTCATATC-AAA
* * *
13142385 TTCACGTATTTCATTTCAGTTTCA
1 TTCACATAATTCATTTCAATTTCA
13142409 TACTCCATTA
Statistics
Matches: 71, Mismatches: 8, Indels: 3
0.87 0.10 0.04
Matches are distributed among these distances:
55 1 0.01
56 34 0.48
57 36 0.51
ACGTcount: A:0.36, C:0.20, G:0.01, T:0.42
Consensus pattern (57 bp):
TTCACATAATTCATTTCAATTTCAAATTCTATTATCAATCCATAAACTCATATCAAA
Found at i:13142419 original size:56 final size:57
Alignment explanation
Indices: 13142272--13142421 Score: 160
Period size: 56 Copynumber: 2.6 Consensus size: 57
13142262 ATATACCAAT
* * * * * * *
13142272 TTCACATAATTCATTCCTATATCAAATTCTATTATCAATCCATAAATTCATATCAAT
1 TTCACATAATTCATTTCAATTTCAAACTCCATTATCAATCCATAAACTCATATCAAA
* *
13142329 TTCACATAATTCATTTCAATTTCAAATTCTATTATCAAT-CATAAACTCATA-CTAAA
1 TTCACATAATTCATTTCAATTTCAAACTCCATTATCAATCCATAAACTCATATC-AAA
* * * *
13142385 TTCACGTATTTCATTTCAGTTTCATACTCCATTATCA
1 TTCACATAATTCATTTCAATTTCAAACTCCATTATCA
13142422 TTTTATAAGA
Statistics
Matches: 81, Mismatches: 11, Indels: 3
0.85 0.12 0.03
Matches are distributed among these distances:
55 1 0.01
56 44 0.54
57 36 0.44
ACGTcount: A:0.36, C:0.21, G:0.01, T:0.41
Consensus pattern (57 bp):
TTCACATAATTCATTTCAATTTCAAACTCCATTATCAATCCATAAACTCATATCAAA
Found at i:13145086 original size:5 final size:5
Alignment explanation
Indices: 13145076--13145117 Score: 54
Period size: 5 Copynumber: 8.8 Consensus size: 5
13145066 CAAATTAAAC
13145076 AAAGA AAAGA AAAGA AAAGA AAA-A GAAAG- AAAG- AAAGA AAAG
1 AAAGA AAAGA AAAGA AAAGA AAAGA -AAAGA AAAGA AAAGA AAAG
13145118 GAGAAGAAGC
Statistics
Matches: 34, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
4 9 0.26
5 25 0.74
ACGTcount: A:0.79, C:0.00, G:0.21, T:0.00
Consensus pattern (5 bp):
AAAGA
Found at i:13145125 original size:19 final size:19
Alignment explanation
Indices: 13145076--13145116 Score: 57
Period size: 18 Copynumber: 2.1 Consensus size: 19
13145066 CAAATTAAAC
13145076 AAAGAAAAGAAAAGAAAAGAA
1 AAAG-AAAG-AAAGAAAAGAA
13145097 AAAGAAAGAAAG-AAAGAA
1 AAAGAAAGAAAGAAAAGAA
13145115 AA
1 AA
13145117 GGAGAAGAAG
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
18 8 0.40
19 4 0.20
20 4 0.20
21 4 0.20
ACGTcount: A:0.80, C:0.00, G:0.20, T:0.00
Consensus pattern (19 bp):
AAAGAAAGAAAGAAAAGAA
Found at i:13145406 original size:25 final size:25
Alignment explanation
Indices: 13145358--13145406 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 25
13145348 CATAATTGAA
* * *
13145358 ATGAAATGGATTGATTTTGTATATT
1 ATGAAATAGATTGATTATGAATATT
*
13145383 ATGAAATATATTGATTATGAATAT
1 ATGAAATAGATTGATTATGAATAT
13145407 ATGTGTATTG
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.39, C:0.00, G:0.16, T:0.45
Consensus pattern (25 bp):
ATGAAATAGATTGATTATGAATATT
Found at i:13145911 original size:42 final size:43
Alignment explanation
Indices: 13145802--13145929 Score: 197
Period size: 43 Copynumber: 3.0 Consensus size: 43
13145792 TATGTGATTG
*
13145802 ATATTGAAATGACAAAGATGAGAAATGAA-TATGAGATGAGAAA
1 ATATTGAAATGACAAATATGAGAAAT-AATTATGAGATGAGAAA
* *
13145845 ATATTGAAATGACAATTACGAGAAATAATTATGAGATGAGAAA
1 ATATTGAAATGACAAATATGAGAAATAATTATGAGATGAGAAA
*
13145888 ATATTG-AATGACAAATATGAGAAATAATTTTGAGATGAGAAA
1 ATATTGAAATGACAAATATGAGAAATAATTATGAGATGAGAAA
13145930 TGAAATATGA
Statistics
Matches: 78, Mismatches: 6, Indels: 3
0.90 0.07 0.03
Matches are distributed among these distances:
42 35 0.45
43 43 0.55
ACGTcount: A:0.52, C:0.03, G:0.20, T:0.25
Consensus pattern (43 bp):
ATATTGAAATGACAAATATGAGAAATAATTATGAGATGAGAAA
Found at i:13147646 original size:18 final size:19
Alignment explanation
Indices: 13147614--13147651 Score: 60
Period size: 18 Copynumber: 2.1 Consensus size: 19
13147604 TTTTCTAAAA
13147614 TAAATATAATGAATTAATT
1 TAAATATAATGAATTAATT
*
13147633 TAAAT-TAATTAATTAATT
1 TAAATATAATGAATTAATT
13147651 T
1 T
13147652 CCCAATTAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 13 0.72
19 5 0.28
ACGTcount: A:0.50, C:0.00, G:0.03, T:0.47
Consensus pattern (19 bp):
TAAATATAATGAATTAATT
Found at i:13154804 original size:17 final size:17
Alignment explanation
Indices: 13154782--13154814 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
13154772 TTAACTTTCT
*
13154782 TTATTTCTTTATTTTTG
1 TTATTTATTTATTTTTG
13154799 TTATTTATTTATTTTT
1 TTATTTATTTATTTTT
13154815 AACCCTCTTA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.15, C:0.03, G:0.03, T:0.79
Consensus pattern (17 bp):
TTATTTATTTATTTTTG
Found at i:13159594 original size:68 final size:69
Alignment explanation
Indices: 13159461--13159595 Score: 200
Period size: 68 Copynumber: 2.0 Consensus size: 69
13159451 TGATTTAACT
* * * *
13159461 TAATCACTTTAATATTAAATTAATATAATATTTATCAAGATAAATATTAGATTAAATTTAATATT
1 TAATCACTTCAATATTAAATTAATAAAATATCTATCAAGATAAATATTAAATTAAATTTAATATT
13159526 AAGA
66 AAGA
* * *
13159530 TAATCACTTCAATATTAAATTAATAAAATA-CTATTAAGATAAGTATTAAATTTAATTTAATATT
1 TAATCACTTCAATATTAAATTAATAAAATATCTATCAAGATAAATATTAAATTAAATTTAATATT
13159594 AA
66 AA
13159596 ACTATTAAAA
Statistics
Matches: 59, Mismatches: 7, Indels: 1
0.88 0.10 0.01
Matches are distributed among these distances:
68 31 0.53
69 28 0.47
ACGTcount: A:0.50, C:0.05, G:0.04, T:0.41
Consensus pattern (69 bp):
TAATCACTTCAATATTAAATTAATAAAATATCTATCAAGATAAATATTAAATTAAATTTAATATT
AAGA
Found at i:13162397 original size:49 final size:49
Alignment explanation
Indices: 13162340--13162437 Score: 169
Period size: 49 Copynumber: 2.0 Consensus size: 49
13162330 TTGTATAAGT
* *
13162340 ATCATATTCATACTCTATTATCCATGATTTCTAAATTCCAGATTGCTTA
1 ATCATATTCATACTATATTATCCATGATTTCCAAATTCCAGATTGCTTA
*
13162389 ATCATATTCATACTATATTATCCATGATTTCCAGATTCCAGATTGCTTA
1 ATCATATTCATACTATATTATCCATGATTTCCAAATTCCAGATTGCTTA
13162438 CTTTTTTTTT
Statistics
Matches: 46, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
49 46 1.00
ACGTcount: A:0.31, C:0.20, G:0.07, T:0.42
Consensus pattern (49 bp):
ATCATATTCATACTATATTATCCATGATTTCCAAATTCCAGATTGCTTA
Found at i:13165419 original size:25 final size:25
Alignment explanation
Indices: 13165391--13165441 Score: 102
Period size: 25 Copynumber: 2.0 Consensus size: 25
13165381 CTTACGTGTT
13165391 AGTACTCAACTTGATGATAACACTC
1 AGTACTCAACTTGATGATAACACTC
13165416 AGTACTCAACTTGATGATAACACTC
1 AGTACTCAACTTGATGATAACACTC
13165441 A
1 A
13165442 CACTCGTGTT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.37, C:0.24, G:0.12, T:0.27
Consensus pattern (25 bp):
AGTACTCAACTTGATGATAACACTC
Found at i:13166372 original size:17 final size:17
Alignment explanation
Indices: 13166346--13166387 Score: 50
Period size: 17 Copynumber: 2.5 Consensus size: 17
13166336 TTCCCATGCG
13166346 ATGTAT-CTTCAAGTAC
1 ATGTATCCTTCAAGTAC
* *
13166362 ATGTATCCTTCGAGTTC
1 ATGTATCCTTCAAGTAC
*
13166379 ATGAATCCT
1 ATGTATCCT
13166388 CCCATGCAAT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
16 6 0.27
17 16 0.73
ACGTcount: A:0.26, C:0.21, G:0.14, T:0.38
Consensus pattern (17 bp):
ATGTATCCTTCAAGTAC
Found at i:13190513 original size:18 final size:17
Alignment explanation
Indices: 13190490--13190528 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 17
13190480 CATATTTGAA
13190490 ATAATTTATATTATTTAG
1 ATAATTTA-ATTATTTAG
* *
13190508 ATAATTTAATTTTTTTG
1 ATAATTTAATTATTTAG
13190525 ATAA
1 ATAA
13190529 AAACTAATAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
17 11 0.58
18 8 0.42
ACGTcount: A:0.38, C:0.00, G:0.05, T:0.56
Consensus pattern (17 bp):
ATAATTTAATTATTTAG
Found at i:13199765 original size:26 final size:26
Alignment explanation
Indices: 13199720--13199944 Score: 93
Period size: 25 Copynumber: 9.1 Consensus size: 26
13199710 GCACACCGCA
* *
13199720 GCTCTTT-TGAGCATCTCGATATATG
1 GCTCTTTGTGAGCTTCCCGATATATG
**
13199745 GCTCTTTGTGAGCTTCCCGAT-TAAAA
1 GCTCTTTGTGAGCTTCCCGATAT-ATG
*
13199771 GCTCTTTGTGAGCTTCCTGAT-TAATG
1 GCTCTTTGTGAGCTTCCCGATAT-ATG
* *
13199797 GCTCTCT-AGAGCTTCCCG--ATATG
1 GCTCTTTGTGAGCTTCCCGATATATG
** *
13199820 GCTCGCT-TGAACTTCCCGATATATG
1 GCTCTTTGTGAGCTTCCCGATATATG
* * ** *
13199845 ACTATCCG-GAGCTTCCTGAT-TAATG
1 GCTCTTTGTGAGCTTCCCGATAT-ATG
* *
13199870 GCTCTTCG-GAGCTACCCG-T-TACTG
1 GCTCTTTGTGAGCTTCCCGATATA-TG
* * *
13199894 GCTC-GTATGAGCTTCCTGA-ATATG
1 GCTCTTTGTGAGCTTCCCGATATATG
* * * *
13199918 ACT-TTTATGAGTTTCCCGCTATATG
1 GCTCTTTGTGAGCTTCCCGATATATG
13199943 GC
1 GC
13199945 CGGATAAGCT
Statistics
Matches: 152, Mismatches: 35, Indels: 26
0.71 0.16 0.12
Matches are distributed among these distances:
23 19 0.12
24 33 0.22
25 59 0.39
26 41 0.27
ACGTcount: A:0.19, C:0.24, G:0.21, T:0.35
Consensus pattern (26 bp):
GCTCTTTGTGAGCTTCCCGATATATG
Found at i:13199834 original size:23 final size:23
Alignment explanation
Indices: 13199794--13199841 Score: 69
Period size: 23 Copynumber: 2.1 Consensus size: 23
13199784 TTCCTGATTA
* *
13199794 ATGGCTCTCTAGAGCTTCCCGAT
1 ATGGCTCGCTAGAACTTCCCGAT
*
13199817 ATGGCTCGCTTGAACTTCCCGAT
1 ATGGCTCGCTAGAACTTCCCGAT
13199840 AT
1 AT
13199842 ATGACTATCC
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.19, C:0.29, G:0.21, T:0.31
Consensus pattern (23 bp):
ATGGCTCGCTAGAACTTCCCGAT
Found at i:13199882 original size:73 final size:73
Alignment explanation
Indices: 13199780--13199920 Score: 189
Period size: 73 Copynumber: 1.9 Consensus size: 73
13199770 AGCTCTTTGT
*
13199780 GAGCTTCCTGATTAATGGCTCTCTAGAGCTTCCCGATA-TGGCTCGCT-TGAACTTCCCGATATA
1 GAGCTTCCTGATTAATGGCTCTCTAGAGCTACCCGATACTGGCTCG-TATGAACTTCCCGA-ATA
13199843 TGACTATCCG
64 TGACTATCCG
* * * *
13199853 GAGCTTCCTGATTAATGGCTCT-TCGGAGCTACCCGTTACTGGCTCGTATGAGCTTCCTGAATAT
1 GAGCTTCCTGATTAATGGCTCTCT-AGAGCTACCCGATACTGGCTCGTATGAACTTCCCGAATAT
13199917 GACT
65 GACT
13199921 TTTATGAGTT
Statistics
Matches: 60, Mismatches: 5, Indels: 6
0.85 0.07 0.08
Matches are distributed among these distances:
72 1 0.02
73 42 0.70
74 17 0.28
ACGTcount: A:0.20, C:0.26, G:0.22, T:0.32
Consensus pattern (73 bp):
GAGCTTCCTGATTAATGGCTCTCTAGAGCTACCCGATACTGGCTCGTATGAACTTCCCGAATATG
ACTATCCG
Found at i:13205536 original size:26 final size:27
Alignment explanation
Indices: 13205502--13205578 Score: 86
Period size: 29 Copynumber: 2.7 Consensus size: 27
13205492 AATGGAACCT
*
13205502 TTTGTGGCTATCT-TTGAAAG-GATGCC
1 TTTGTGGCTATCTATTAAAAGTGA-GCC
13205528 TTTGTGGCTATCTCAGTTAAAAGTGAGCC
1 TTTGTGGCTATCT-A-TTAAAAGTGAGCC
13205557 TTTGTGGCTATTTCTATTAAAA
1 TTTGTGGCTA--TCTATTAAAA
13205579 AAGTGTCTTT
Statistics
Matches: 44, Mismatches: 1, Indels: 9
0.81 0.02 0.17
Matches are distributed among these distances:
26 13 0.30
29 25 0.57
30 3 0.07
31 3 0.07
ACGTcount: A:0.23, C:0.14, G:0.22, T:0.40
Consensus pattern (27 bp):
TTTGTGGCTATCTATTAAAAGTGAGCC
Found at i:13205758 original size:29 final size:29
Alignment explanation
Indices: 13205621--13205784 Score: 138
Period size: 29 Copynumber: 5.7 Consensus size: 29
13205611 CTCGGTGGTG
* *
13205621 ATCTCTGTTATAAGAAAGCCTTTATGG-T
1 ATCTCTGTTATAAGAATGCCTTTGTGGCT
* * * * *
13205649 GATCTCTGTTATAAAAAAGCATTTATGGCG
1 -ATCTCTGTTATAAGAATGCCTTTGTGGCT
** * *
13205679 ATCTCTACTATAAAAATGTCTTTGT--CT
1 ATCTCTGTTATAAGAATGCCTTTGTGGCT
* *
13205706 ATCTTTGTTATAAGGATGCCTTTGTGGCT
1 ATCTCTGTTATAAGAATGCCTTTGTGGCT
*
13205735 ATCTCTGTTATAAGGATGCCTTTGTGGCT
1 ATCTCTGTTATAAGAATGCCTTTGTGGCT
* *
13205764 ACCTCTATTA-AAGGAATGCCT
1 ATCTCTGTTATAA-GAATGCCT
13205785 GGTGACAAAC
Statistics
Matches: 111, Mismatches: 20, Indels: 8
0.80 0.14 0.06
Matches are distributed among these distances:
27 20 0.18
28 2 0.02
29 89 0.80
ACGTcount: A:0.26, C:0.16, G:0.18, T:0.39
Consensus pattern (29 bp):
ATCTCTGTTATAAGAATGCCTTTGTGGCT
Found at i:13211979 original size:18 final size:19
Alignment explanation
Indices: 13211940--13211983 Score: 56
Period size: 18 Copynumber: 2.3 Consensus size: 19
13211930 ATGAAAGAAA
13211940 TAAAATGTACATAATAAAAT
1 TAAAATGTA-ATAATAAAAT
13211960 TAAAATGT-ATAA-AAATAT
1 TAAAATGTAATAATAAA-AT
13211978 TAAAAT
1 TAAAAT
13211984 AAAGCTTTAA
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
17 3 0.13
18 12 0.52
20 8 0.35
ACGTcount: A:0.61, C:0.02, G:0.05, T:0.32
Consensus pattern (19 bp):
TAAAATGTAATAATAAAAT
Found at i:13214664 original size:121 final size:121
Alignment explanation
Indices: 13214450--13214691 Score: 475
Period size: 121 Copynumber: 2.0 Consensus size: 121
13214440 AGAGCTCAAA
*
13214450 AATACTATTATTTGAACAAATAGGACAAAAGAAACTGTGTACTTGCCTCTAGATTGCCAGCTCGA
1 AATACTATTATTTGAACAAATAGGACAAAAGAAACTGTGTACTTGCCTCTAGATTGCCAGCTAGA
13214515 GTGGTTTGCATGATGAGGGGCCATTACCACTACCGTGACCAGGAATTCAGGGATGT
66 GTGGTTTGCATGATGAGGGGCCATTACCACTACCGTGACCAGGAATTCAGGGATGT
13214571 AATACTATTATTTGAACAAATAGGACAAAAGAAACTGTGTACTTGCCTCTAGATTGCCAGCTAGA
1 AATACTATTATTTGAACAAATAGGACAAAAGAAACTGTGTACTTGCCTCTAGATTGCCAGCTAGA
13214636 GTGGTTTGCATGATGAGGGGCCATTACCACTACCGTGACCAGGAATTCAGGGATGT
66 GTGGTTTGCATGATGAGGGGCCATTACCACTACCGTGACCAGGAATTCAGGGATGT
13214692 GTGAGCTTCT
Statistics
Matches: 120, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
121 120 1.00
ACGTcount: A:0.31, C:0.19, G:0.24, T:0.26
Consensus pattern (121 bp):
AATACTATTATTTGAACAAATAGGACAAAAGAAACTGTGTACTTGCCTCTAGATTGCCAGCTAGA
GTGGTTTGCATGATGAGGGGCCATTACCACTACCGTGACCAGGAATTCAGGGATGT
Found at i:13218775 original size:39 final size:39
Alignment explanation
Indices: 13218721--13218799 Score: 158
Period size: 39 Copynumber: 2.0 Consensus size: 39
13218711 ATTCAATAGG
13218721 TTAGTTTAGGAGGTGGAAAGAGATCAAATTAGTCTAAAT
1 TTAGTTTAGGAGGTGGAAAGAGATCAAATTAGTCTAAAT
13218760 TTAGTTTAGGAGGTGGAAAGAGATCAAATTAGTCTAAAT
1 TTAGTTTAGGAGGTGGAAAGAGATCAAATTAGTCTAAAT
13218799 T
1 T
13218800 CTTCACCGCT
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 40 1.00
ACGTcount: A:0.38, C:0.05, G:0.25, T:0.32
Consensus pattern (39 bp):
TTAGTTTAGGAGGTGGAAAGAGATCAAATTAGTCTAAAT
Found at i:13238289 original size:54 final size:54
Alignment explanation
Indices: 13238202--13238307 Score: 194
Period size: 54 Copynumber: 2.0 Consensus size: 54
13238192 TTTCTCTTCT
* *
13238202 GATCGAGGAACCTCTGACTGATATATTTCTTTCTGAACTCGGTCTGAAAGAACC
1 GATCAAGGAACCTCTGACTGATATATTTCTTTCTGAACTCAGTCTGAAAGAACC
13238256 GATCAAGGAACCTCTGACTGATATATTTCTTTCTGAACTCAGTCTGAAAGAA
1 GATCAAGGAACCTCTGACTGATATATTTCTTTCTGAACTCAGTCTGAAAGAA
13238308 TTCCCATGTA
Statistics
Matches: 50, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
54 50 1.00
ACGTcount: A:0.30, C:0.21, G:0.19, T:0.30
Consensus pattern (54 bp):
GATCAAGGAACCTCTGACTGATATATTTCTTTCTGAACTCAGTCTGAAAGAACC
Found at i:13242284 original size:40 final size:40
Alignment explanation
Indices: 13242240--13242325 Score: 111
Period size: 40 Copynumber: 2.1 Consensus size: 40
13242230 ATACTATTTG
* *
13242240 ATTCAGAGTTACC-AGAGTACAAACAGGGGCACGTATGTGC
1 ATTCAGAGGTACCGA-ACTACAAACAGGGGCACGTATGTGC
* * *
13242280 ATTCAGGGGTACCGAACTACAAATAGGGGCATGTATGTGC
1 ATTCAGAGGTACCGAACTACAAACAGGGGCACGTATGTGC
13242320 ATTCAG
1 ATTCAG
13242326 GGGCACATGT
Statistics
Matches: 40, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
40 39 0.98
41 1 0.03
ACGTcount: A:0.31, C:0.19, G:0.28, T:0.22
Consensus pattern (40 bp):
ATTCAGAGGTACCGAACTACAAACAGGGGCACGTATGTGC
Found at i:13242288 original size:20 final size:20
Alignment explanation
Indices: 13242263--13242345 Score: 62
Period size: 20 Copynumber: 4.2 Consensus size: 20
13242253 AGAGTACAAA
13242263 CAGGGGCACGTATGTGCATT
1 CAGGGGCACGTATGTGCATT
* ** * *
13242283 CAGGGGTACCG-AACTACAAAT
1 CAGGGGCA-CGTATGTGC-ATT
*
13242304 -AGGGGCATGTATGTGCATT
1 CAGGGGCACGTATGTGCATT
* *
13242323 CAGGGGCACATGTGTGCATT
1 CAGGGGCACGTATGTGCATT
13242343 CAG
1 CAG
13242346 CACTAATTAT
Statistics
Matches: 45, Mismatches: 14, Indels: 8
0.67 0.21 0.12
Matches are distributed among these distances:
19 3 0.07
20 38 0.84
21 4 0.09
ACGTcount: A:0.25, C:0.19, G:0.33, T:0.23
Consensus pattern (20 bp):
CAGGGGCACGTATGTGCATT
Found at i:13248914 original size:40 final size:40
Alignment explanation
Indices: 13248870--13249020 Score: 160
Period size: 40 Copynumber: 3.8 Consensus size: 40
13248860 ATACTATTTG
* * *
13248870 ATTTAGAGTTGCCAAAGTACAAATAGGGGCACGTATGGGC
1 ATTTAGAGGTACCAAAGTACAAATAGGGGCATGTATGGGC
* * *
13248910 ATTTAGAGGTACCAAAGTACAAACAGGGGGATGTATGTGC
1 ATTTAGAGGTACCAAAGTACAAATAGGGGCATGTATGGGC
* * * **
13248950 ATTCAGGGGTACCAAAGTACAAATAAGGGCATGTATGTTC
1 ATTTAGAGGTACCAAAGTACAAATAGGGGCATGTATGGGC
* * *
13248990 ATTTATG-GGCATCGAAGTACAAATAGGGGCA
1 ATTTA-GAGGTACCAAAGTACAAATAGGGGCA
13249021 GGCATATGCA
Statistics
Matches: 93, Mismatches: 17, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
40 92 0.99
41 1 0.01
ACGTcount: A:0.34, C:0.14, G:0.28, T:0.23
Consensus pattern (40 bp):
ATTTAGAGGTACCAAAGTACAAATAGGGGCATGTATGGGC
Found at i:13249031 original size:80 final size:80
Alignment explanation
Indices: 13248881--13249034 Score: 184
Period size: 80 Copynumber: 1.9 Consensus size: 80
13248871 TTTAGAGTTG
* * * * *
13248881 CCAAAGTACAAATAGGGGCACGTATGGGCATTTAGAGGTACCAAAGTACAAACAGGGGGATGTAT
1 CCAAAGTACAAATAAGGGCACGTATGGGCATTTAGAGGCACCAAAGTACAAACAGGGGCAGGCAT
*
13248946 GTGCATTCAGGGGTA
66 ATGCATTCAGGGGTA
* ** * * *
13248961 CCAAAGTACAAATAAGGGCATGTATGTTCATTTATG-GGCATCGAAGTACAAATAGGGGCAGGCA
1 CCAAAGTACAAATAAGGGCACGTATGGGCATTTA-GAGGCACCAAAGTACAAACAGGGGCAGGCA
13249025 TATGCATTCA
65 TATGCATTCA
13249035 ACAATAATTA
Statistics
Matches: 61, Mismatches: 12, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
80 60 0.98
81 1 0.02
ACGTcount: A:0.34, C:0.16, G:0.28, T:0.22
Consensus pattern (80 bp):
CCAAAGTACAAATAAGGGCACGTATGGGCATTTAGAGGCACCAAAGTACAAACAGGGGCAGGCAT
ATGCATTCAGGGGTA
Found at i:13252940 original size:56 final size:54
Alignment explanation
Indices: 13252861--13253107 Score: 231
Period size: 56 Copynumber: 4.6 Consensus size: 54
13252851 AGGAATGAGA
*
13252861 TCCCATGTAAGACCATGTTTAGGACATGGCATTGGAATTATTGAGGTTATGAGAGG
1 TCCCATGTAAGACCATGTCTAGGACATGGCATTGG--TTATTGAGGTTATGAGAGG
* *
13252917 TCCCATGTAAGACCATGTCTAGGATATGACATTGGCGTTATTGAGGTTATGAGAGG
1 TCCCATGTAAGACCATGTCTAGGACATGGCATT-G-GTTATTGAGGTTATGAGAGG
* * * * **
13252973 TCTCATGTAAGACCATGTCTGGGACATGGCGTTGG-CACCGA-G--ATGAGAGG
1 TCCCATGTAAGACCATGTCTAGGACATGGCATTGGTTATTGAGGTTATGAGAGG
** ** ** **
13253023 TCCCCCGTAAGACCATGTCTAGGACATGGCA-TGGGCACCGA---TATGAGAAC
1 TCCCATGTAAGACCATGTCTAGGACATGGCATTGGTTATTGAGGTTATGAGAGG
* *
13253073 TCCCATGTAAGACCATGTCTGGGACATGGCTTTGG
1 TCCCATGTAAGACCATGTCTAGGACATGGCATTGG
13253108 CATGTTATTA
Statistics
Matches: 164, Mismatches: 22, Indels: 15
0.82 0.11 0.07
Matches are distributed among these distances:
49 3 0.02
50 73 0.45
51 3 0.02
52 1 0.01
53 3 0.02
54 1 0.01
55 1 0.01
56 77 0.47
57 1 0.01
58 1 0.01
ACGTcount: A:0.26, C:0.19, G:0.29, T:0.26
Consensus pattern (54 bp):
TCCCATGTAAGACCATGTCTAGGACATGGCATTGGTTATTGAGGTTATGAGAGG
Found at i:13253019 original size:50 final size:50
Alignment explanation
Indices: 13252909--13253109 Score: 213
Period size: 50 Copynumber: 3.9 Consensus size: 50
13252899 TATTGAGGTT
* * * **
13252909 ATGAGAGGTCCCATGTAAGACCATGTCTAGGATATGACATTGGCGTTATTGAGG
1 ATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGC---ACCGA-G
* *
13252963 TTATGAGAGGTCTCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAG
1 --ATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAG
** * * *
13253015 ATGAGAGGTCCCCCGTAAGACCATGTCTAGGACATGGCATGGGCACCGAT
1 ATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAG
** *
13253065 ATGAGAACTCCCATGTAAGACCATGTCTGGGACATGGCTTTGGCA
1 ATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA
13253110 TGTTATTATC
Statistics
Matches: 124, Mismatches: 21, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
50 81 0.65
52 1 0.01
53 3 0.02
56 39 0.31
ACGTcount: A:0.26, C:0.20, G:0.30, T:0.24
Consensus pattern (50 bp):
ATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAG
Found at i:13253040 original size:106 final size:100
Alignment explanation
Indices: 13252909--13253109 Score: 249
Period size: 100 Copynumber: 1.9 Consensus size: 100
13252899 TATTGAGGTT
* * * ** **
13252909 ATGAGAGGTCCCATGTAAGACCATGTCTAGGATATGACATTGGCGTTATTGAGGTTATGAGAGGT
1 ATGAGAGGTCCCACGTAAGACCATGTCTAGGACATGACA-TGG-G-CACCGA---TATGAGAACT
*
13252974 CTCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAG
60 CCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAG
* *
13253015 ATGAGAGGTCCCCCGTAAGACCATGTCTAGGACATGGCATGGGCACCGATATGAGAACTCCCATG
1 ATGAGAGGTCCCACGTAAGACCATGTCTAGGACATGACATGGGCACCGATATGAGAACTCCCATG
*
13253080 TAAGACCATGTCTGGGACATGGCTTTGGCA
66 TAAGACCATGTCTGGGACATGGCGTTGGCA
13253110 TGTTATTATC
Statistics
Matches: 84, Mismatches: 11, Indels: 6
0.83 0.11 0.06
Matches are distributed among these distances:
100 42 0.50
103 3 0.04
104 1 0.01
105 3 0.04
106 35 0.42
ACGTcount: A:0.26, C:0.20, G:0.30, T:0.24
Consensus pattern (100 bp):
ATGAGAGGTCCCACGTAAGACCATGTCTAGGACATGACATGGGCACCGATATGAGAACTCCCATG
TAAGACCATGTCTGGGACATGGCGTTGGCACCGAG
Found at i:13255173 original size:4 final size:4
Alignment explanation
Indices: 13255164--13255193 Score: 60
Period size: 4 Copynumber: 7.5 Consensus size: 4
13255154 AATAAAAAGA
13255164 AAAT AAAT AAAT AAAT AAAT AAAT AAAT AA
1 AAAT AAAT AAAT AAAT AAAT AAAT AAAT AA
13255194 TGAGAAATCA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 26 1.00
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (4 bp):
AAAT
Found at i:13263899 original size:17 final size:17
Alignment explanation
Indices: 13263879--13263911 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
13263869 TTAGCCATGT
13263879 GAGTCACACAGCCTGGG
1 GAGTCACACAGCCTGGG
*
13263896 GAGTCACACGGCCTGG
1 GAGTCACACAGCCTGG
13263912 CCACATGGTC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.21, C:0.30, G:0.36, T:0.12
Consensus pattern (17 bp):
GAGTCACACAGCCTGGG
Found at i:13269881 original size:17 final size:17
Alignment explanation
Indices: 13269845--13269891 Score: 60
Period size: 17 Copynumber: 2.8 Consensus size: 17
13269835 CATTGTCCCC
* *
13269845 AATGCAGTGAC-ATTAA
1 AATGCAATGACAATAAA
13269861 AATGCAATGACAATAAA
1 AATGCAATGACAATAAA
*
13269878 AATGCAACGACAAT
1 AATGCAATGACAAT
13269892 GTTCACTAAC
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
16 10 0.37
17 17 0.63
ACGTcount: A:0.51, C:0.15, G:0.15, T:0.19
Consensus pattern (17 bp):
AATGCAATGACAATAAA
Found at i:13272198 original size:14 final size:15
Alignment explanation
Indices: 13272176--13272209 Score: 52
Period size: 14 Copynumber: 2.3 Consensus size: 15
13272166 AGTAAAATAG
*
13272176 AATTACATAATAA-T
1 AATTTCATAATAATT
13272190 AATTTCATAATAATT
1 AATTTCATAATAATT
13272205 AATTT
1 AATTT
13272210 TTTTTGACTA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 12 0.67
15 6 0.33
ACGTcount: A:0.50, C:0.06, G:0.00, T:0.44
Consensus pattern (15 bp):
AATTTCATAATAATT
Found at i:13277414 original size:64 final size:64
Alignment explanation
Indices: 13277332--13277459 Score: 193
Period size: 64 Copynumber: 2.0 Consensus size: 64
13277322 TATCAGGAAT
* * * * *
13277332 GCCTTGTTGACTAGAGGAAGCACAAATCAATAAAAATTATTTTAGATGTTCTCGTGCATCTTCA
1 GCCTTGTTGACTAAAGGAAGCACAAATCAATAAAAATGATTTAAGATGTTCTCATACATCTTCA
* *
13277396 GCCTTGTTGGCTAAAGGAAGCACAAATCGATAAAAATGATTTAAGATGTTCTCATACATCTTCA
1 GCCTTGTTGACTAAAGGAAGCACAAATCAATAAAAATGATTTAAGATGTTCTCATACATCTTCA
13277460 TGTGGCAGCC
Statistics
Matches: 57, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
64 57 1.00
ACGTcount: A:0.34, C:0.17, G:0.17, T:0.31
Consensus pattern (64 bp):
GCCTTGTTGACTAAAGGAAGCACAAATCAATAAAAATGATTTAAGATGTTCTCATACATCTTCA
Found at i:13280134 original size:63 final size:63
Alignment explanation
Indices: 13280047--13280172 Score: 153
Period size: 63 Copynumber: 2.0 Consensus size: 63
13280037 ATCACTTTGC
* * * *
13280047 ATTCCTGCATTAAAACACATCCCAAACCGTTCAATGACACATCACTAAAAATCACAAATTCTT
1 ATTCCTGCATCAAAACACAGCCCAAACCATTCAACGACACATCACTAAAAATCACAAATTCTT
* * * ** * *
13280110 ATTCCTGCATCAGAACATAGCCCAAACCATTTAACGATGCATCACTATAAATCACGAATTCTT
1 ATTCCTGCATCAAAACACAGCCCAAACCATTCAACGACACATCACTAAAAATCACAAATTCTT
13280173 TACCTGAATC
Statistics
Matches: 52, Mismatches: 11, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
63 52 1.00
ACGTcount: A:0.39, C:0.28, G:0.07, T:0.26
Consensus pattern (63 bp):
ATTCCTGCATCAAAACACAGCCCAAACCATTCAACGACACATCACTAAAAATCACAAATTCTT
Found at i:13283457 original size:25 final size:25
Alignment explanation
Indices: 13283426--13283482 Score: 69
Period size: 25 Copynumber: 2.3 Consensus size: 25
13283416 GCTGTAAAGT
* *
13283426 GTAAGCTCCTCCAAGCTGAATAACG
1 GTAAGCTCATACAAGCTGAATAACG
* * *
13283451 GTAAGCTCATACGAGCTGACTATCG
1 GTAAGCTCATACAAGCTGAATAACG
13283476 GTAAGCT
1 GTAAGCT
13283483 TAGAAGAGCT
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
25 27 1.00
ACGTcount: A:0.30, C:0.25, G:0.23, T:0.23
Consensus pattern (25 bp):
GTAAGCTCATACAAGCTGAATAACG
Found at i:13283491 original size:25 final size:25
Alignment explanation
Indices: 13283439--13283495 Score: 69
Period size: 25 Copynumber: 2.3 Consensus size: 25
13283429 AGCTCCTCCA
* *
13283439 AGCTGAATAACGGTAAGCTCATACG
1 AGCTGAATAACGGTAAGCTCAGAAG
* * *
13283464 AGCTGACTATCGGTAAGCTTAGAAG
1 AGCTGAATAACGGTAAGCTCAGAAG
13283489 AGCTGAA
1 AGCTGAA
13283496 ATCGATAACC
Statistics
Matches: 26, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.35, C:0.18, G:0.26, T:0.21
Consensus pattern (25 bp):
AGCTGAATAACGGTAAGCTCAGAAG
Found at i:13290666 original size:376 final size:375
Alignment explanation
Indices: 13289951--13290709 Score: 1446
Period size: 376 Copynumber: 2.0 Consensus size: 375
13289941 AACACTAAAC
*
13289951 ACACTCACTACAGATGTAGCCTGGGTTTAGGATTCAAGCCTCTCGCATCTCTATCTCTATTAGAA
1 ACACTAACTACAGATGTAGCCTGGGTTTAGGATTCAAGCCTCTCGCATCTCTATCTCTATTAGAA
*
13290016 TCTCCTACAGAAGTAGTAGAACGGTAGTGATGTTCTTTAGATTTTTTCGATGTTGACTGATATGA
66 TCTCCCACAGAAGTAGTAGAACGGTAGTGATGTTCTTTAGATTTTTTCGATGTTGACTGATATGA
*
13290081 CTTTCTCGTCAATCTCTTTCTAAAATCTTTAGCTTCAAATTCAGCGTGTCTTTTCTTTTTACTTA
131 CTTTCTCGTCAATCTCTTTCTAAAATCTTTAGCTTCAAATTCAGCGTGTCTTTTCTTTTTACTCA
*
13290146 GCTCTTCGGCTTTATACGCTCGATCAACTAGTACAATAATTTCTTTCAACTCAAGGATCCCGACT
196 GCTCTTCGCCTTTATACGCTCGATCAACTAGTACAATAATTTCTTTCAACTCAAGGATCCCGACT
13290211 AATAGCTTTATATCTTCATTTAATCCATCTTCAAATCGTTTACACATTGCAGTCTCAGTCAAAAT
261 AATAGCTTTATATCTTCATTTAATCCATCTTCAAATCGTTTACACATTGCAGTCTCAGTCAAAAT
13290276 GCACTCTTGAGCATATTTACTTAATCGAACAAATTCTCGTTCATATTCAG
326 GCACTCTTGAGCATATTTACTTAATCGAACAAATTCTCGTTCATATTCAG
13290326 ACACTAACTACAGATGTAGCCTGGGGTTTAGGATTCAAGCCTCTCGCATCTCTATCTCTATTAGA
1 ACACTAACTACAGATGTAGCCT-GGGTTTAGGATTCAAGCCTCTCGCATCTCTATCTCTATTAGA
13290391 ATCTCCCACAGAAGTAGTAGAACGGTAGTGATGTTCTTTAGATTTTTTCGATGTTGACTGATATG
65 ATCTCCCACAGAAGTAGTAGAACGGTAGTGATGTTCTTTAGATTTTTTCGATGTTGACTGATATG
*
13290456 ACTTTCTCGTCAATCTCTTTCTCAAATCTTTAGCTTCAAATTCAGCGTGTCTTTTCTTTTTACTC
130 ACTTTCTCGTCAATCTCTTTCTAAAATCTTTAGCTTCAAATTCAGCGTGTCTTTTCTTTTTACTC
**
13290521 AGCTCTTCGCCTTTATGTGCTCGATCAACTAGTACAATAATTTCTTTCAACTCAAGGATCCCGAC
195 AGCTCTTCGCCTTTATACGCTCGATCAACTAGTACAATAATTTCTTTCAACTCAAGGATCCCGAC
13290586 TAATAGCTTTATATCTTCATTTAATCCATCTTCAAATCGTTTACACATTGCAGTCTCAGTCAAAA
260 TAATAGCTTTATATCTTCATTTAATCCATCTTCAAATCGTTTACACATTGCAGTCTCAGTCAAAA
13290651 TGCACTCTTGAGCATATTTACTTAATCGAACAAATTCTCGTTCATATTCAG
325 TGCACTCTTGAGCATATTTACTTAATCGAACAAATTCTCGTTCATATTCAG
13290702 ACACTAAC
1 ACACTAAC
13290710 ATATGACCCT
Statistics
Matches: 376, Mismatches: 7, Indels: 1
0.98 0.02 0.00
Matches are distributed among these distances:
375 21 0.06
376 355 0.94
ACGTcount: A:0.27, C:0.23, G:0.14, T:0.37
Consensus pattern (375 bp):
ACACTAACTACAGATGTAGCCTGGGTTTAGGATTCAAGCCTCTCGCATCTCTATCTCTATTAGAA
TCTCCCACAGAAGTAGTAGAACGGTAGTGATGTTCTTTAGATTTTTTCGATGTTGACTGATATGA
CTTTCTCGTCAATCTCTTTCTAAAATCTTTAGCTTCAAATTCAGCGTGTCTTTTCTTTTTACTCA
GCTCTTCGCCTTTATACGCTCGATCAACTAGTACAATAATTTCTTTCAACTCAAGGATCCCGACT
AATAGCTTTATATCTTCATTTAATCCATCTTCAAATCGTTTACACATTGCAGTCTCAGTCAAAAT
GCACTCTTGAGCATATTTACTTAATCGAACAAATTCTCGTTCATATTCAG
Found at i:13296846 original size:51 final size:51
Alignment explanation
Indices: 13296774--13296903 Score: 215
Period size: 51 Copynumber: 2.5 Consensus size: 51
13296764 ATAGGTCGCA
*
13296774 TGTGTAGTACTATGTGCAGGCTATTATGCATACCAGATAGCTTCGATCACG
1 TGTGTAGTACTATGTGCAGGCTACTATGCATACCAGATAGCTTCGATCACG
**
13296825 TGTGTAGTACTATGTGCAGGCTACTATGCATACTGGATAGCTTCGATCACG
1 TGTGTAGTACTATGTGCAGGCTACTATGCATACCAGATAGCTTCGATCACG
* *
13296876 TGTGTAGTACCATGTCCAGGCTACTATG
1 TGTGTAGTACTATGTGCAGGCTACTATG
13296904 TGAACCGGTA
Statistics
Matches: 74, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
51 74 1.00
ACGTcount: A:0.24, C:0.20, G:0.25, T:0.32
Consensus pattern (51 bp):
TGTGTAGTACTATGTGCAGGCTACTATGCATACCAGATAGCTTCGATCACG
Found at i:13296963 original size:26 final size:26
Alignment explanation
Indices: 13296929--13296980 Score: 95
Period size: 26 Copynumber: 2.0 Consensus size: 26
13296919 GAATATAAAG
13296929 GGGGTTGCTAAGTGCTGATTCCCCAA
1 GGGGTTGCTAAGTGCTGATTCCCCAA
*
13296955 GGGGTTGCTAAGTGTTGATTCCCCAA
1 GGGGTTGCTAAGTGCTGATTCCCCAA
13296981 TTCATTGGTG
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.19, C:0.21, G:0.31, T:0.29
Consensus pattern (26 bp):
GGGGTTGCTAAGTGCTGATTCCCCAA
Found at i:13297101 original size:102 final size:102
Alignment explanation
Indices: 13296926--13297258 Score: 535
Period size: 102 Copynumber: 3.3 Consensus size: 102
13296916 TTTGAATATA
*
13296926 AAGGGGGTTGCTAAGTGCTGATT-CCCCAAGGGGTTGCTAAGTGTTGATTCCCCAATTCATTGGT
1 AAGGGGGTTGCTAAGTGCTGATTCCCCCAAGGGGTTGCTAAGTGTTGATTCCTCAATTCATTGGT
*
13296990 GGTTGCTAAGTGTTGATTCCACCGTATTTTAAATGTG
66 GGTTGCTAAGTGCTGATTCCACCGTATTTTAAATGTG
* *
13297027 AAGGGGGTTGCTAAGTGCTGATTCCCCCAAGGGGTTGCTAAGTGCTGATTCCTCTATTCATTGGT
1 AAGGGGGTTGCTAAGTGCTGATTCCCCCAAGGGGTTGCTAAGTGTTGATTCCTCAATTCATTGGT
*
13297092 GGTTTCTAAGTGCTGATTCCACCGTATTTTAAATGTG
66 GGTTGCTAAGTGCTGATTCCACCGTATTTTAAATGTG
* *
13297129 AAGGGGGTTGCTAAGTGCTGATTCCCCCAAGGGGTTTCTAAGTGTTGATT-CTCCGATTCATTGG
1 AAGGGGGTTGCTAAGTGCTGATTCCCCCAAGGGGTTGCTAAGTGTTGATTCCT-CAATTCATTGG
* * *
13297193 TGGTTGCTAAGTGCTGATTCCACTGTATCATTGAATGTG
65 TGGTTGCTAAGTGCTGATTCCACCGTAT-TTTAAATGTG
*
13297232 AAAGGGGTTGCTAAGTGCTGATTCCCC
1 AAGGGGGTTGCTAAGTGCTGATTCCCC
13297259 GAATCACTGG
Statistics
Matches: 216, Mismatches: 13, Indels: 4
0.93 0.06 0.02
Matches are distributed among these distances:
101 25 0.12
102 157 0.73
103 34 0.16
ACGTcount: A:0.20, C:0.18, G:0.28, T:0.34
Consensus pattern (102 bp):
AAGGGGGTTGCTAAGTGCTGATTCCCCCAAGGGGTTGCTAAGTGTTGATTCCTCAATTCATTGGT
GGTTGCTAAGTGCTGATTCCACCGTATTTTAAATGTG
Found at i:13299533 original size:81 final size:80
Alignment explanation
Indices: 13299448--13299613 Score: 305
Period size: 81 Copynumber: 2.1 Consensus size: 80
13299438 TTAAAAGATC
*
13299448 ATAAAGGGCAAAATGGTCATTTAGAAGAGAGAGAAATCTAGAAGATAATGATGATGTTGGAGATA
1 ATAAAGGGCAAAATGGTCAATTAGAAGAGAGAGAAATCTAGAAGATAATGATGATGTTGGAGATA
13299513 TTTTAGATTAAATAAA
66 TTTTAGATT-AATAAA
13299529 ATAAAGGGCAAAATGGTCAATTAGAAGAGAGAGAAATCTAGAAGATAATGATGATGTTGGAGATA
1 ATAAAGGGCAAAATGGTCAATTAGAAGAGAGAGAAATCTAGAAGATAATGATGATGTTGGAGATA
*
13299594 TTTTAGATTAATTAA
66 TTTTAGATTAATAAA
13299609 ATAAA
1 ATAAA
13299614 TATTAGTTTA
Statistics
Matches: 83, Mismatches: 2, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
80 10 0.12
81 73 0.88
ACGTcount: A:0.46, C:0.04, G:0.23, T:0.27
Consensus pattern (80 bp):
ATAAAGGGCAAAATGGTCAATTAGAAGAGAGAGAAATCTAGAAGATAATGATGATGTTGGAGATA
TTTTAGATTAATAAA
Found at i:13301926 original size:49 final size:52
Alignment explanation
Indices: 13301816--13302007 Score: 162
Period size: 49 Copynumber: 3.7 Consensus size: 52
13301806 TTTCTTGTAC
* * * * * **
13301816 TGCCAATGCCATATCTCAGATATGGTCTTACATGGGAGTTCTC-A--TATCGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCAATCTAT-GG
* * *
13301866 TGCCCAGGCCATGTCCCAGACATGGTCTTACGGGGGACC-CTC-ATCT-TGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCAATCTATGG
* *
13301915 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATAATCTCAATGA
1 TGCCAACGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTC--AATCT--ATGG
* *
13301971 TGCCAATGCCATGTCCCATACATGGTCTTACATGGGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACA-GGGG
13302008 TCTCTTTACC
Statistics
Matches: 115, Mismatches: 17, Indels: 13
0.79 0.12 0.09
Matches are distributed among these distances:
49 41 0.36
50 34 0.30
51 1 0.01
53 4 0.03
56 32 0.28
57 3 0.03
ACGTcount: A:0.22, C:0.28, G:0.23, T:0.27
Consensus pattern (52 bp):
TGCCAACGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCAATCTATGG
Found at i:13303531 original size:12 final size:12
Alignment explanation
Indices: 13303514--13303538 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
13303504 TAGGATTGCT
13303514 TGCTAGGCCGTG
1 TGCTAGGCCGTG
13303526 TGCTAGGCCGTG
1 TGCTAGGCCGTG
13303538 T
1 T
13303539 AAACCTACAG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.08, C:0.24, G:0.40, T:0.28
Consensus pattern (12 bp):
TGCTAGGCCGTG
Found at i:13309185 original size:15 final size:15
Alignment explanation
Indices: 13309165--13309194 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
13309155 GTCTTTGCAT
13309165 ACCTTGAATAAATAC
1 ACCTTGAATAAATAC
13309180 ACCTTGAATAAATAC
1 ACCTTGAATAAATAC
13309195 GATTCGTTCA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.47, C:0.20, G:0.07, T:0.27
Consensus pattern (15 bp):
ACCTTGAATAAATAC
Found at i:13310851 original size:39 final size:39
Alignment explanation
Indices: 13310794--13310876 Score: 148
Period size: 39 Copynumber: 2.1 Consensus size: 39
13310784 TTCTTGAGTT
*
13310794 ATATCCAGTGTTGTAGAGACAATAACTGGGAGAATATTC
1 ATATCCAGTGTTGCAGAGACAATAACTGGGAGAATATTC
13310833 ATATCCAGTGTTGCAGAGACAATAACTGGGAGAATATTC
1 ATATCCAGTGTTGCAGAGACAATAACTGGGAGAATATTC
*
13310872 TTATC
1 ATATC
13310877 ACCAAGAAAG
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
39 42 1.00
ACGTcount: A:0.35, C:0.14, G:0.22, T:0.29
Consensus pattern (39 bp):
ATATCCAGTGTTGCAGAGACAATAACTGGGAGAATATTC
Found at i:13321969 original size:15 final size:15
Alignment explanation
Indices: 13321946--13321981 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 15
13321936 TATGCCATTT
*
13321946 AAAGGCACCACAACC
1 AAAGACACCACAACC
*
13321961 AAAGACACCACAATC
1 AAAGACACCACAACC
13321976 AAAGAC
1 AAAGAC
13321982 CATTCATTCC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.53, C:0.33, G:0.11, T:0.03
Consensus pattern (15 bp):
AAAGACACCACAACC
Found at i:13323879 original size:27 final size:26
Alignment explanation
Indices: 13323839--13324065 Score: 188
Period size: 27 Copynumber: 8.5 Consensus size: 26
13323829 GGCTTGGGCT
*
13323839 GTAAAATGACCGTAATGCTCCTATAGG
1 GTAAAATGATCGTAATGC-CCTATAGG
* * * *
13323866 GTAATATGATCGTAATACCCTTGTAAG
1 GTAAAATGATCGTAATGCCC-TATAGG
*
13323893 GTAAAATGATCGTAATGCCCTTCTAGG
1 GTAAAATGATCGTAATGCCC-TATAGG
* * * *
13323920 GTAAAATAATAGTAATGCCCCTGTACG
1 GTAAAATGATCGTAATG-CCCTATAGG
* *
13323947 ATAAAACGA-CTGTAATGCCCCTATAGG
1 GTAAAATGATC-GTAATG-CCCTATAGG
* * *
13323974 GTAAAATGACCGTAATGCCCTTGTAAG
1 GTAAAATGATCGTAATGCCC-TATAGG
*
13324001 GTAAAATGATCGTAATGCCCCTATAGT
1 GTAAAATGATCGTAATG-CCCTATAGG
** *
13324028 GTAAAATGATTATAATGCCCCATAGG
1 GTAAAATGATCGTAATGCCCTATAGG
13324054 GTTAAAA-GATCG
1 G-TAAAATGATCG
13324066 AAGTACCCCT
Statistics
Matches: 160, Mismatches: 33, Indels: 15
0.77 0.16 0.07
Matches are distributed among these distances:
26 16 0.10
27 137 0.86
28 7 0.04
ACGTcount: A:0.35, C:0.18, G:0.20, T:0.27
Consensus pattern (26 bp):
GTAAAATGATCGTAATGCCCTATAGG
Found at i:13323920 original size:54 final size:53
Alignment explanation
Indices: 13323839--13324047 Score: 240
Period size: 54 Copynumber: 3.9 Consensus size: 53
13323829 GGCTTGGGCT
* * *
13323839 GTAAAATGACCGTAATGCTCCTATAGGGTAATATGATCGTAATACCCTTGTAAG
1 GTAAAATGATCGTAATGC-CCTATAGGGTAAAATGATCGTAATGCCCTTGTAAG
* * * * *
13323893 GTAAAATGATCGTAATGCCCTTCTAGGGTAAAATAATAGTAATGCCCCTGTACG
1 GTAAAATGATCGTAATGCCC-TATAGGGTAAAATGATCGTAATGCCCTTGTAAG
* * *
13323947 ATAAAACGA-CTGTAATGCCCCTATAGGGTAAAATGACCGTAATGCCCTTGTAAG
1 GTAAAATGATC-GTAATG-CCCTATAGGGTAAAATGATCGTAATGCCCTTGTAAG
* **
13324001 GTAAAATGATCGTAATGCCCCTATAGTGTAAAATGATTATAATGCCC
1 GTAAAATGATCGTAATG-CCCTATAGGGTAAAATGATCGTAATGCCC
13324048 CATAGGGTTA
Statistics
Matches: 129, Mismatches: 22, Indels: 8
0.81 0.14 0.05
Matches are distributed among these distances:
53 3 0.02
54 122 0.95
55 4 0.03
ACGTcount: A:0.34, C:0.18, G:0.20, T:0.28
Consensus pattern (53 bp):
GTAAAATGATCGTAATGCCCTATAGGGTAAAATGATCGTAATGCCCTTGTAAG
Found at i:13323982 original size:81 final size:80
Alignment explanation
Indices: 13323892--13324065 Score: 217
Period size: 81 Copynumber: 2.2 Consensus size: 80
13323882 ACCCTTGTAA
* *
13323892 GGTAAAATGATCGTAATGCCCTTCTAGGGTAAAATAATAGTAATGCCCCTGTACG-ATAAAACGA
1 GGTAAAATGATCGTAATGCCCTTCTAAGGTAAAATAATAGTAATGCCCCTATA-GTATAAAACGA
*
13323956 CTGTAATGCCCCTATAG
65 CTATAATGCCCC-ATAG
* * * * * * *
13323973 GGTAAAATGACCGTAATGCCCTTGTAAGGTAAAATGATCGTAATGCCCCTATAGTGTAAAATGAT
1 GGTAAAATGATCGTAATGCCCTTCTAAGGTAAAATAATAGTAATGCCCCTATAGTATAAAACGAC
13324038 TATAATGCCCCATAG
66 TATAATGCCCCATAG
13324053 GGTTAAAA-GATCG
1 GG-TAAAATGATCG
13324066 AAGTACCCCT
Statistics
Matches: 80, Mismatches: 11, Indels: 5
0.83 0.11 0.05
Matches are distributed among these distances:
80 11 0.14
81 69 0.86
ACGTcount: A:0.35, C:0.18, G:0.21, T:0.26
Consensus pattern (80 bp):
GGTAAAATGATCGTAATGCCCTTCTAAGGTAAAATAATAGTAATGCCCCTATAGTATAAAACGAC
TATAATGCCCCATAG
Found at i:13324032 original size:108 final size:108
Alignment explanation
Indices: 13323840--13324048 Score: 312
Period size: 108 Copynumber: 1.9 Consensus size: 108
13323830 GCTTGGGCTG
* * * *
13323840 TAAAATGACCGTAATGCTCCTATAGGGTAATATGATCGTAATACCCTTGTAAGGTAAAATGATCG
1 TAAAACGACCGTAATGCCCCTATAGGGTAAAATGACCGTAATACCCTTGTAAGGTAAAATGATCG
* *
13323905 TAATGCCCTTCTAGGGTAAAAT-AATAGTAATGCCCCTGTACGA
66 TAATGCCCCTATAGGGTAAAATGAATA-TAATGCCCCTGTACGA
* *
13323948 TAAAACGACTGTAATGCCCCTATAGGGTAAAATGACCGTAATGCCCTTGTAAGGTAAAATGATCG
1 TAAAACGACCGTAATGCCCCTATAGGGTAAAATGACCGTAATACCCTTGTAAGGTAAAATGATCG
* *
13324013 TAATGCCCCTATAGTGTAAAATGATTATAATGCCCC
66 TAATGCCCCTATAGGGTAAAATGAATATAATGCCCC
13324049 ATAGGGTTAA
Statistics
Matches: 90, Mismatches: 10, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
108 87 0.97
109 3 0.03
ACGTcount: A:0.34, C:0.19, G:0.19, T:0.28
Consensus pattern (108 bp):
TAAAACGACCGTAATGCCCCTATAGGGTAAAATGACCGTAATACCCTTGTAAGGTAAAATGATCG
TAATGCCCCTATAGGGTAAAATGAATATAATGCCCCTGTACGA
Found at i:13324112 original size:80 final size:81
Alignment explanation
Indices: 13323839--13324112 Score: 214
Period size: 81 Copynumber: 3.4 Consensus size: 81
13323829 GGCTTGGGCT
* * * * ** * * * * *
13323839 GTAAAATGACCGTAATGCTCCTATAGGGTAATATGATCGTAATACCCTTGTAAGGTAAAATGATC
1 GTAAAATAACCGTAATGCCCCTAGAGGGTAAAATGATTATAATGCCCCTATAGGGTAAAATGACC
* * * *
13323904 GTAATGCCCTTCTAGG
66 GTAATACCCCTGTAAG
** * * * * *
13323920 GTAAAATAATAGTAATGCCCCT-GTACGATAAAACGACTGTAATGCCCCTATAGGGTAAAATGAC
1 GTAAAATAACCGTAATGCCCCTAG-AGGGTAAAATGATTATAATGCCCCTATAGGGTAAAATGAC
* *
13323984 CGTAATGCCCTTGTAAG
65 CGTAATACCCCTGTAAG
* * * * *
13324001 GTAAAATGATCGTAATGCCCCTATAGTGTAAAATGATTATAATGCCCC-ATAGGGTTAAAA-GAT
1 GTAAAATAACCGTAATGCCCCTAGAGGGTAAAATGATTATAATGCCCCTATAGGG-TAAAATGAC
13324064 CG-AAGTACCCCTGTAAG
65 CGTAA-TACCCCTGTAAG
* *
13324081 GTTAAATAACCGTAATGCCTCTAGAGGGTAAA
1 GTAAAATAACCGTAATGCCCCTAGAGGGTAAA
13324113 TGAGTATTTT
Statistics
Matches: 153, Mismatches: 36, Indels: 9
0.77 0.18 0.05
Matches are distributed among these distances:
79 2 0.01
80 46 0.30
81 105 0.69
ACGTcount: A:0.35, C:0.18, G:0.20, T:0.27
Consensus pattern (81 bp):
GTAAAATAACCGTAATGCCCCTAGAGGGTAAAATGATTATAATGCCCCTATAGGGTAAAATGACC
GTAATACCCCTGTAAG
Found at i:13324192 original size:24 final size:24
Alignment explanation
Indices: 13324133--13324181 Score: 80
Period size: 24 Copynumber: 2.0 Consensus size: 24
13324123 GCCCCTCGAG
* *
13324133 TGTAAATGATTGGTTTGTTTGTGA
1 TGTAAATGACTGGTTTGTCTGTGA
13324157 TGTAAATGACTGGTTTGTCTGTGA
1 TGTAAATGACTGGTTTGTCTGTGA
13324181 T
1 T
13324182 TTGTATGACT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.20, C:0.04, G:0.29, T:0.47
Consensus pattern (24 bp):
TGTAAATGACTGGTTTGTCTGTGA
Found at i:13324340 original size:26 final size:26
Alignment explanation
Indices: 13324311--13324364 Score: 81
Period size: 26 Copynumber: 2.1 Consensus size: 26
13324301 TTGGTCACAT
* *
13324311 ATACTTTTACCGGTAGCTTTGCTGCG
1 ATACTGTTACCGGCAGCTTTGCTGCG
*
13324337 ATACTGTTACTGGCAGCTTTGCTGCG
1 ATACTGTTACCGGCAGCTTTGCTGCG
13324363 AT
1 AT
13324365 GCTACTGATG
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.17, C:0.22, G:0.24, T:0.37
Consensus pattern (26 bp):
ATACTGTTACCGGCAGCTTTGCTGCG
Found at i:13324404 original size:32 final size:32
Alignment explanation
Indices: 13324366--13324473 Score: 130
Period size: 32 Copynumber: 3.4 Consensus size: 32
13324356 TGCTGCGATG
*
13324366 CTACTGATGGCTGTGTGCCGGTCATATCACTA
1 CTACTGATGGCTGTGTGCCGATCATATCACTA
* * **
13324398 CTACTGATGGCTTTGTGCTGATCATAT-TGT-
1 CTACTGATGGCTGTGTGCCGATCATATCACTA
*
13324428 CGTTACTGATGGCTGTGTGTCGATCATATCACTA
1 C--TACTGATGGCTGTGTGCCGATCATATCACTA
13324462 CTACTGATGGCT
1 CTACTGATGGCT
13324474 TGTAGCCATT
Statistics
Matches: 62, Mismatches: 10, Indels: 8
0.77 0.12 0.10
Matches are distributed among these distances:
30 1 0.02
31 1 0.02
32 58 0.94
33 1 0.02
34 1 0.02
ACGTcount: A:0.19, C:0.21, G:0.24, T:0.36
Consensus pattern (32 bp):
CTACTGATGGCTGTGTGCCGATCATATCACTA
Found at i:13324501 original size:22 final size:21
Alignment explanation
Indices: 13324470--13324529 Score: 59
Period size: 22 Copynumber: 2.7 Consensus size: 21
13324460 TACTACTGAT
13324470 GGCTTGTAGCCATTCTGTTTA-
1 GGCTT-TAGCCATTCTGTTTAC
* *
13324491 GAGCTTATAGCTATCCTGTTTAC
1 G-GCTT-TAGCCATTCTGTTTAC
13324514 GGCTCTTAGCCATTCT
1 GGCT-TTAGCCATTCT
13324530 AGTTACTGGC
Statistics
Matches: 31, Mismatches: 5, Indels: 5
0.76 0.12 0.12
Matches are distributed among these distances:
21 1 0.03
22 28 0.90
23 2 0.06
ACGTcount: A:0.17, C:0.23, G:0.20, T:0.40
Consensus pattern (21 bp):
GGCTTTAGCCATTCTGTTTAC
Found at i:13325169 original size:18 final size:18
Alignment explanation
Indices: 13325138--13325179 Score: 50
Period size: 18 Copynumber: 2.4 Consensus size: 18
13325128 AACAATTAGG
*
13325138 TTTT-AAAGGTAATAAAT
1 TTTTAAAAGGGAATAAAT
**
13325155 TTTTAAAAGGGAATAGCT
1 TTTTAAAAGGGAATAAAT
13325173 TTTTAAA
1 TTTTAAA
13325180 CCACGATAGG
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
17 4 0.19
18 17 0.81
ACGTcount: A:0.43, C:0.02, G:0.14, T:0.40
Consensus pattern (18 bp):
TTTTAAAAGGGAATAAAT
Found at i:13327478 original size:27 final size:27
Alignment explanation
Indices: 13327455--13327781 Score: 320
Period size: 27 Copynumber: 12.1 Consensus size: 27
13327445 TCATAATACT
* *
13327455 CCTGTAGGATAATATGACTGTAATGCC
1 CCTGTAGGGTAAAATGACTGTAATGCC
*
13327482 CCTGCAGGGTAAAATGACTGTAATGCC
1 CCTGTAGGGTAAAATGACTGTAATGCC
**
13327509 CCTGTAGGGTAAAATGACCATAATGCC
1 CCTGTAGGGTAAAATGACTGTAATGCC
* *
13327536 CCTATAGGGTAAAATGATTGTAATGCC
1 CCTGTAGGGTAAAATGACTGTAATGCC
* *
13327563 CCTATAGGGTAAAATGACTGTAATGCT
1 CCTGTAGGGTAAAATGACTGTAATGCC
** *
13327590 TTTGTAGGGTAAAATGACCGTAATGCC
1 CCTGTAGGGTAAAATGACTGTAATGCC
* * * *
13327617 CCTGTACGATAAAATGA-TCATAATGGC
1 CCTGTAGGGTAAAATGACT-GTAATGCC
13327644 CCTGTAGGGTAAAATGA-TCGTAATGCC
1 CCTGTAGGGTAAAATGACT-GTAATGCC
* *
13327671 CCTGTAGGGTAAAATGACCGTAATGTC
1 CCTGTAGGGTAAAATGACTGTAATGCC
* * *
13327698 CTTATAGGGTAAAATGACCGTAATG-C
1 CCTGTAGGGTAAAATGACTGTAATGCC
* * * ** *
13327724 CTTATAGGGTTAAATGA-TCAAAATCCC
1 CCTGTAGGGTAAAATGACT-GTAATGCC
* * * *
13327751 CCTGTAAGGTTAAATAACCGTAATGCC
1 CCTGTAGGGTAAAATGACTGTAATGCC
13327778 CCTG
1 CCTG
13327782 GACAGTAAAT
Statistics
Matches: 250, Mismatches: 45, Indels: 10
0.82 0.15 0.03
Matches are distributed among these distances:
26 20 0.08
27 230 0.92
ACGTcount: A:0.32, C:0.19, G:0.22, T:0.27
Consensus pattern (27 bp):
CCTGTAGGGTAAAATGACTGTAATGCC
Found at i:13327572 original size:81 final size:81
Alignment explanation
Indices: 13327436--13327780 Score: 354
Period size: 81 Copynumber: 4.3 Consensus size: 81
13327426 GGCTTAGGCC
* * * * * * * **
13327436 GTAAAATGATCATAATACTCCTGTAGGATAATATGACTGTAATGCCCCTGCAGGGTAAAATGA-C
1 GTAAAATGACCGTAATGCCCCTATAGGATAAAATGACCGTAATGCCCCTATAGGGTAAAATGATC
13327500 TGTAATGCCCCTGTAGG
66 -GTAATGCCCCTGTAGG
* * **
13327517 GTAAAATGACCATAATGCCCCTATAGGGTAAAATGATTGTAATGCCCCTATAGGGTAAAATGA-C
1 GTAAAATGACCGTAATGCCCCTATAGGATAAAATGACCGTAATGCCCCTATAGGGTAAAATGATC
***
13327581 TGTAATGCTTTTGTAGG
66 -GTAATGCCCCTGTAGG
* * * * * *
13327598 GTAAAATGACCGTAATGCCCCTGTACGATAAAATGATCATAATGGCCCTGTAGGGTAAAATGATC
1 GTAAAATGACCGTAATGCCCCTATAGGATAAAATGACCGTAATGCCCCTATAGGGTAAAATGATC
13327663 GTAATGCCCCTGTAGG
66 GTAATGCCCCTGTAGG
* * * * *
13327679 GTAAAATGACCGTAATGTCCTTATAGGGTAAAATGACCGTAATG-CCTTATAGGGTTAAATGATC
1 GTAAAATGACCGTAATGCCCCTATAGGATAAAATGACCGTAATGCCCCTATAGGGTAAAATGATC
** * *
13327743 AAAATCCCCCTGTAAG
66 GTAATGCCCCTGTAGG
* *
13327759 GTTAAATAACCGTAATGCCCCT
1 GTAAAATGACCGTAATGCCCCT
13327781 GGACAGTAAA
Statistics
Matches: 222, Mismatches: 41, Indels: 3
0.83 0.15 0.01
Matches are distributed among these distances:
80 47 0.21
81 174 0.78
82 1 0.00
ACGTcount: A:0.33, C:0.18, G:0.21, T:0.27
Consensus pattern (81 bp):
GTAAAATGACCGTAATGCCCCTATAGGATAAAATGACCGTAATGCCCCTATAGGGTAAAATGATC
GTAATGCCCCTGTAGG
Found at i:13327867 original size:24 final size:24
Alignment explanation
Indices: 13327840--13327893 Score: 81
Period size: 24 Copynumber: 2.2 Consensus size: 24
13327830 CATGATGTAA
*
13327840 ATGACTGGTTTGTCTGTGACTGGT
1 ATGACTGGTTTGTCTCTGACTGGT
* *
13327864 ATGACTGGTTTGTCTCTGATTTGT
1 ATGACTGGTTTGTCTCTGACTGGT
13327888 ATGACT
1 ATGACT
13327894 TATTCTGAGC
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.15, C:0.13, G:0.28, T:0.44
Consensus pattern (24 bp):
ATGACTGGTTTGTCTCTGACTGGT
Found at i:13328124 original size:31 final size:33
Alignment explanation
Indices: 13328040--13328124 Score: 106
Period size: 32 Copynumber: 2.7 Consensus size: 33
13328030 TTTGCTGCGA
* *
13328040 TGCTATTGATGGC-TGTGTGCCGATCATATCAC
1 TGCTACTGATGGCTTGTGTGCCAATCATATCAC
*
13328072 TGCTACTGATGGCTT-TGTGCCAATCATATTAC
1 TGCTACTGATGGCTTGTGTGCCAATCATATCAC
*
13328104 TG-TACTTATGGCTTGT-TGCCA
1 TGCTACTGATGGCTTGTGTGCCA
13328125 TTCTGTTTAT
Statistics
Matches: 47, Mismatches: 4, Indels: 5
0.84 0.07 0.09
Matches are distributed among these distances:
31 16 0.34
32 30 0.64
33 1 0.02
ACGTcount: A:0.19, C:0.21, G:0.22, T:0.38
Consensus pattern (33 bp):
TGCTACTGATGGCTTGTGTGCCAATCATATCAC
Found at i:13331069 original size:94 final size:93
Alignment explanation
Indices: 13330939--13331112 Score: 267
Period size: 94 Copynumber: 1.9 Consensus size: 93
13330929 AAATTTTATT
* * *
13330939 ATTTAATTATTATTATTTAAAAGAGTTTTAAATAATAACTAAATTATATTTCCTTATCTCATAAG
1 ATTTAATTATTATTATTTAAAACACTTTTAAATAATAACTAAATTATATTTCCATATCTCATAAG
13331004 GAATATATCAAATCCTTTCGATTTTGAA
66 GAATATATCAAATCCTTTCGATTTTGAA
* * * * *
13331032 ATTTAATTATTATTTCTTTAAAACTCTTTTAAATAATAATTAAATTATATTTCCATATTTGATAA
1 ATTTAATTATTA-TTATTTAAAACACTTTTAAATAATAACTAAATTATATTTCCATATCTCATAA
13331097 GGAATATATCAAATCC
65 GGAATATATCAAATCC
13331113 CCTTTTTAAC
Statistics
Matches: 72, Mismatches: 8, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
93 12 0.17
94 60 0.83
ACGTcount: A:0.40, C:0.10, G:0.05, T:0.45
Consensus pattern (93 bp):
ATTTAATTATTATTATTTAAAACACTTTTAAATAATAACTAAATTATATTTCCATATCTCATAAG
GAATATATCAAATCCTTTCGATTTTGAA
Found at i:13335414 original size:25 final size:25
Alignment explanation
Indices: 13335386--13335450 Score: 64
Period size: 25 Copynumber: 2.7 Consensus size: 25
13335376 TTCTCCCAGC
* *
13335386 TAAACTCTGTTTTTAGTTT-ACCACT
1 TAAACTCTATTATTAGTTTCA-CACT
* *
13335411 TAAAATTTATTATTAGTTTCACACT
1 TAAACTCTATTATTAGTTTCACACT
13335436 TAAACT-T-TTATTAGT
1 TAAACTCTATTATTAGT
13335451 GTAGGCTATT
Statistics
Matches: 34, Mismatches: 5, Indels: 4
0.79 0.12 0.09
Matches are distributed among these distances:
23 8 0.24
24 1 0.03
25 24 0.71
26 1 0.03
ACGTcount: A:0.31, C:0.14, G:0.06, T:0.49
Consensus pattern (25 bp):
TAAACTCTATTATTAGTTTCACACT
Found at i:13335450 original size:23 final size:25
Alignment explanation
Indices: 13335398--13335450 Score: 67
Period size: 25 Copynumber: 2.2 Consensus size: 25
13335388 AACTCTGTTT
*
13335398 TTAGTTTACCACTTAAAATTTATTA
1 TTAGTTTACCACTTAAAACTTATTA
13335423 TTAGTTT-CACACTT-AAACTT-TTA
1 TTAGTTTAC-CACTTAAAACTTATTA
13335446 TTAGT
1 TTAGT
13335451 GTAGGCTATT
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
23 8 0.31
24 6 0.23
25 12 0.46
ACGTcount: A:0.32, C:0.13, G:0.06, T:0.49
Consensus pattern (25 bp):
TTAGTTTACCACTTAAAACTTATTA
Found at i:13340373 original size:266 final size:266
Alignment explanation
Indices: 13339896--13340431 Score: 930
Period size: 266 Copynumber: 2.0 Consensus size: 266
13339886 GAAGGAAGAC
* *
13339896 TGATTCTGATCTGATCTTGCAGTTTAATTACAAACTTATCGGTACAGTGGTTTACCACACTGCAC
1 TGATTCTGATCTGATCTGGCAGTTTAACTACAAACTTATCGGTACAGTGGTTTACCACACTGCAC
* *
13339961 CGCATGTACGTCAACTTTGTTGCGTACTATTATTTTATCTGGCAGTTTAAACTGCAACATGTCTG
66 CACATGTACGTCAACTTTGTTGCATACTATTATTTTATCTGGCAGTTTAAACTGCAACATGTCTG
* *
13340026 TACAATGGTTTACCGCAATGCACTGTACTGCATATATGCTAGCCTTGCTGCGTATTATTATCTGA
131 TACAATGGTTTACCGCAATGCACTGTACTGCATATACGCTAGCCTTACTGCGTATTATTATCTGA
* *
13340091 GTGGCTTAGTCCACATACATGGTATGTAGGGTTGGATGGGCCTTTCGAGGTCCTATGTGGTG-AG
196 GTGACTTAGCCCACATACATGGTATGTAGGGTTGGATGGGCCTTTCGAGGTCCTATGTGGTGCA-
13340155 CTTGGTT
260 CTTGGTT
*
13340162 TGATTCTGATCTGATCTGGCAGTTTAACTACAAACTTATCGGTACAGTGGTTTACCGCACTGCAC
1 TGATTCTGATCTGATCTGGCAGTTTAACTACAAACTTATCGGTACAGTGGTTTACCACACTGCAC
* *
13340227 TACATGTACGTTAACTTTGTTGCATACTATTATTTTATCTGGCAGTTTAAACTGCAACATGTCTG
66 CACATGTACGTCAACTTTGTTGCATACTATTATTTTATCTGGCAGTTTAAACTGCAACATGTCTG
*
13340292 TACAATGGTTTACCGCAATGCACTGTACTGCATATACGCTAGCCTTATTGCGTATTATTATCTGA
131 TACAATGGTTTACCGCAATGCACTGTACTGCATATACGCTAGCCTTACTGCGTATTATTATCTGA
* *
13340357 GTGACTTAGCCCACATACATGGTGTGTAGGGTTGGATGGGCCTTTCGAGGTCGTATGTGGTGCAC
196 GTGACTTAGCCCACATACATGGTATGTAGGGTTGGATGGGCCTTTCGAGGTCCTATGTGGTGCAC
13340422 TTGGTT
261 TTGGTT
13340428 TGAT
1 TGAT
13340432 GAGCTTAAAC
Statistics
Matches: 255, Mismatches: 14, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
266 254 1.00
267 1 0.00
ACGTcount: A:0.23, C:0.19, G:0.22, T:0.36
Consensus pattern (266 bp):
TGATTCTGATCTGATCTGGCAGTTTAACTACAAACTTATCGGTACAGTGGTTTACCACACTGCAC
CACATGTACGTCAACTTTGTTGCATACTATTATTTTATCTGGCAGTTTAAACTGCAACATGTCTG
TACAATGGTTTACCGCAATGCACTGTACTGCATATACGCTAGCCTTACTGCGTATTATTATCTGA
GTGACTTAGCCCACATACATGGTATGTAGGGTTGGATGGGCCTTTCGAGGTCCTATGTGGTGCAC
TTGGTT
Found at i:13343061 original size:22 final size:22
Alignment explanation
Indices: 13343035--13343090 Score: 67
Period size: 25 Copynumber: 2.4 Consensus size: 22
13343025 CTATGGTGTA
13343035 GTGGCAAGGTGGTGACACAGGT
1 GTGGCAAGGTGGTGACACAGGT
*
13343057 GTGGCAAGGAGGTGGTGTCACAGGT
1 GTGGC-A--AGGTGGTGACACAGGT
*
13343082 GTGGTAAGG
1 GTGGCAAGG
13343091 AGGTCAGAGG
Statistics
Matches: 29, Mismatches: 2, Indels: 6
0.78 0.05 0.16
Matches are distributed among these distances:
22 8 0.28
23 1 0.03
24 1 0.03
25 19 0.66
ACGTcount: A:0.21, C:0.11, G:0.48, T:0.20
Consensus pattern (22 bp):
GTGGCAAGGTGGTGACACAGGT
Found at i:13343069 original size:25 final size:25
Alignment explanation
Indices: 13343041--13343094 Score: 90
Period size: 25 Copynumber: 2.2 Consensus size: 25
13343031 TGTAGTGGCA
13343041 AGGTGGTGACACAGGTGTGGCAAGG
1 AGGTGGTGACACAGGTGTGGCAAGG
* *
13343066 AGGTGGTGTCACAGGTGTGGTAAGG
1 AGGTGGTGACACAGGTGTGGCAAGG
13343091 AGGT
1 AGGT
13343095 CAGAGGTTCA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
25 27 1.00
ACGTcount: A:0.22, C:0.09, G:0.48, T:0.20
Consensus pattern (25 bp):
AGGTGGTGACACAGGTGTGGCAAGG
Found at i:13344623 original size:27 final size:27
Alignment explanation
Indices: 13344592--13344783 Score: 198
Period size: 27 Copynumber: 7.1 Consensus size: 27
13344582 AAAGGTTGTT
13344592 AAATTACTGAAATACCCTCGAAGGGTA
1 AAATTACTGAAATACCCTCGAAGGGTA
*
13344619 AAATTACTAAAATACCCTCGAAGGGTA
1 AAATTACTGAAATACCCTCGAAGGGTA
* *
13344646 AAATGA-TCGAAATACCCT--AATAGGTA
1 AAATTACT-GAAATACCCTCGAA-GGGTA
* *
13344672 AAATTATTGAAATACCCT-TAATGGGTA
1 AAATTACTGAAATACCCTCGAA-GGGTA
* *
13344699 AAATTA-TCAAAATACCCTCGATGGGTA
1 AAATTACT-GAAATACCCTCGAAGGGTA
* *
13344726 AAATTACTGAAATATCCTCGATGGGTA
1 AAATTACTGAAATACCCTCGAAGGGTA
* *
13344753 AAATTATTGAAATACCC-CTATAGGGTA
1 AAATTACTGAAATACCCTCGA-AGGGTA
13344780 AAAT
1 AAAT
13344784 GATTGTTATA
Statistics
Matches: 142, Mismatches: 15, Indels: 16
0.82 0.09 0.09
Matches are distributed among these distances:
25 2 0.01
26 23 0.16
27 115 0.81
28 2 0.01
ACGTcount: A:0.42, C:0.16, G:0.16, T:0.27
Consensus pattern (27 bp):
AAATTACTGAAATACCCTCGAAGGGTA
Found at i:13344750 original size:54 final size:54
Alignment explanation
Indices: 13344592--13344783 Score: 228
Period size: 54 Copynumber: 3.6 Consensus size: 54
13344582 AAAGGTTGTT
* * *
13344592 AAATTA-CTGAAATACCCTCGAAGGGTAAAATTACTAAAATACCCTCGAAGGGTA
1 AAATTATC-GAAATACCCTCGATGGGTAAAATTACTGAAATACCCTCGATGGGTA
* * * * **
13344646 AAATGATCGAAATACCCT-AATAGGTAAAATTATTGAAATACCCTTAATGGGTA
1 AAATTATCGAAATACCCTCGATGGGTAAAATTACTGAAATACCCTCGATGGGTA
* *
13344699 AAATTATCAAAATACCCTCGATGGGTAAAATTACTGAAATATCCTCGATGGGTA
1 AAATTATCGAAATACCCTCGATGGGTAAAATTACTGAAATACCCTCGATGGGTA
* *
13344753 AAATTATTGAAATACCC-CTATAGGGTAAAAT
1 AAATTATCGAAATACCCTCGAT-GGGTAAAAT
13344784 GATTGTTATA
Statistics
Matches: 115, Mismatches: 20, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
53 46 0.40
54 68 0.59
55 1 0.01
ACGTcount: A:0.42, C:0.16, G:0.16, T:0.27
Consensus pattern (54 bp):
AAATTATCGAAATACCCTCGATGGGTAAAATTACTGAAATACCCTCGATGGGTA
Found at i:13344796 original size:81 final size:80
Alignment explanation
Indices: 13344592--13344786 Score: 227
Period size: 80 Copynumber: 2.4 Consensus size: 80
13344582 AAAGGTTGTT
* * *
13344592 AAATTACTGAAATACCCTCGAA-GGGTAAAATTA-CTAAAATACCCTCGAAGGGTAAAATGATCG
1 AAATTATTGAAATACCC-CTAATGGGTAAAATGATC-AAAATACCCTCGAAGGGTAAAATGATCG
13344655 AAATACCCTAATAGGTA
64 AAATACCCTAATAGGTA
* * * *
13344672 AAATTATTGAAATACCCTTAATGGGTAAAATTATCAAAATACCCTCGATGGGTAAAATTA-CTGA
1 AAATTATTGAAATACCCCTAATGGGTAAAATGATCAAAATACCCTCGAAGGGTAAAATGATC-GA
* * *
13344736 AATATCCTCGATGGGTA
65 AATACCCT-AATAGGTA
13344753 AAATTATTGAAATACCCCT-ATAGGGTAAAATGAT
1 AAATTATTGAAATACCCCTAAT-GGGTAAAATGAT
13344787 TGTTATACCC
Statistics
Matches: 100, Mismatches: 10, Indels: 9
0.84 0.08 0.08
Matches are distributed among these distances:
79 3 0.03
80 61 0.61
81 36 0.36
ACGTcount: A:0.42, C:0.15, G:0.16, T:0.27
Consensus pattern (80 bp):
AAATTATTGAAATACCCCTAATGGGTAAAATGATCAAAATACCCTCGAAGGGTAAAATGATCGAA
ATACCCTAATAGGTA
Found at i:13358249 original size:16 final size:15
Alignment explanation
Indices: 13358217--13358260 Score: 52
Period size: 16 Copynumber: 2.7 Consensus size: 15
13358207 ATTCGAGTAT
13358217 TCTTTTCTTCTTCATC
1 TCTTTTCTT-TTCATC
*
13358233 TGTTTTCTTTTCAATC
1 TCTTTTCTTTTC-ATC
13358249 TCTCTTTCTTTT
1 TCT-TTTCTTTT
13358261 TTTACACTTT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
15 3 0.12
16 13 0.54
17 8 0.33
ACGTcount: A:0.07, C:0.25, G:0.02, T:0.66
Consensus pattern (15 bp):
TCTTTTCTTTTCATC
Found at i:13366498 original size:16 final size:17
Alignment explanation
Indices: 13366462--13366498 Score: 51
Period size: 16 Copynumber: 2.3 Consensus size: 17
13366452 TAATTTCATT
13366462 TTTTTCTCTTTTCCCTA
1 TTTTTCTCTTTTCCCTA
*
13366479 -TTTTCTCTTTT-TCTA
1 TTTTTCTCTTTTCCCTA
13366494 TTTTT
1 TTTTT
13366499 TCCCCTCAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 3
0.82 0.05 0.14
Matches are distributed among these distances:
15 3 0.17
16 15 0.83
ACGTcount: A:0.05, C:0.22, G:0.00, T:0.73
Consensus pattern (17 bp):
TTTTTCTCTTTTCCCTA
Found at i:13367483 original size:13 final size:13
Alignment explanation
Indices: 13367465--13367490 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
13367455 AAATCCCTTA
13367465 ATTTTGTATTTGT
1 ATTTTGTATTTGT
13367478 ATTTTGTATTTGT
1 ATTTTGTATTTGT
13367491 GTTTGGGGTG
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:0.15, C:0.00, G:0.15, T:0.69
Consensus pattern (13 bp):
ATTTTGTATTTGT
Found at i:13385131 original size:58 final size:58
Alignment explanation
Indices: 13385053--13385218 Score: 260
Period size: 58 Copynumber: 2.9 Consensus size: 58
13385043 AACAATGGTT
* * *
13385053 GAAACCATCCATTTTCATATTCGATGCTCATCACCATCCCTTTTCATATTCGATAGTC
1 GAAACCATCCCTTTTCATATTCGATGGTCGTCACCATCCCTTTTCATATTCGATAGTC
* * *
13385111 GAAACCATCCCTTTTTATATTTGATGGTCGTCACCATCCCTTTTCATATTCGATGGTC
1 GAAACCATCCCTTTTCATATTCGATGGTCGTCACCATCCCTTTTCATATTCGATAGTC
* *
13385169 GAAACAATCTCTTTTCATATTCGATGGTCGTCACCATCCCTTTTCATATT
1 GAAACCATCCCTTTTCATATTCGATGGTCGTCACCATCCCTTTTCATATT
13385219 TGATGGGCGT
Statistics
Matches: 98, Mismatches: 10, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
58 98 1.00
ACGTcount: A:0.23, C:0.27, G:0.11, T:0.39
Consensus pattern (58 bp):
GAAACCATCCCTTTTCATATTCGATGGTCGTCACCATCCCTTTTCATATTCGATAGTC
Found at i:13385229 original size:29 final size:29
Alignment explanation
Indices: 13385056--13385229 Score: 222
Period size: 29 Copynumber: 6.0 Consensus size: 29
13385046 AATGGTTGAA
* * *
13385056 ACCATCCATTTTCATATTCGATGCTCATC
1 ACCATCCCTTTTCATATTCGATGGTCGTC
* **
13385085 ACCATCCCTTTTCATATTCGATAGTCGAA
1 ACCATCCCTTTTCATATTCGATGGTCGTC
* *
13385114 ACCATCCCTTTTTATATTTGATGGTCGTC
1 ACCATCCCTTTTCATATTCGATGGTCGTC
**
13385143 ACCATCCCTTTTCATATTCGATGGTCGAA
1 ACCATCCCTTTTCATATTCGATGGTCGTC
* *
13385172 ACAATCTCTTTTCATATTCGATGGTCGTC
1 ACCATCCCTTTTCATATTCGATGGTCGTC
* *
13385201 ACCATCCCTTTTCATATTTGATGGGCGTC
1 ACCATCCCTTTTCATATTCGATGGTCGTC
13385230 GATACATCGT
Statistics
Matches: 122, Mismatches: 23, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
29 122 1.00
ACGTcount: A:0.22, C:0.27, G:0.13, T:0.39
Consensus pattern (29 bp):
ACCATCCCTTTTCATATTCGATGGTCGTC
Found at i:13390817 original size:21 final size:22
Alignment explanation
Indices: 13390788--13390838 Score: 61
Period size: 21 Copynumber: 2.4 Consensus size: 22
13390778 TCTCTCTCGC
*
13390788 TTTCCTTTTCGCCTTTTTCA-T
1 TTTCATTTTCGCCTTTTTCACT
**
13390809 TTTCATTTTCTTCTTTTTCACT
1 TTTCATTTTCGCCTTTTTCACT
13390831 TTT-ATTTT
1 TTTCATTTT
13390839 TCTCTTTTCC
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
21 22 0.85
22 4 0.15
ACGTcount: A:0.08, C:0.22, G:0.02, T:0.69
Consensus pattern (22 bp):
TTTCATTTTCGCCTTTTTCACT
Found at i:13390844 original size:21 final size:21
Alignment explanation
Indices: 13390800--13390846 Score: 62
Period size: 21 Copynumber: 2.2 Consensus size: 21
13390790 TCCTTTTCGC
13390800 CTTTTTCATTTTCATTTTCTT
1 CTTTTTCATTTTCATTTTCTT
13390821 CTTTTTCACTTTT-ATTTT-TCT
1 CTTTTTCA-TTTTCATTTTCT-T
13390842 CTTTT
1 CTTTT
13390847 CCTTTTCCTT
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
20 1 0.04
21 19 0.79
22 4 0.17
ACGTcount: A:0.09, C:0.19, G:0.00, T:0.72
Consensus pattern (21 bp):
CTTTTTCATTTTCATTTTCTT
Found at i:13390859 original size:21 final size:19
Alignment explanation
Indices: 13390800--13390860 Score: 52
Period size: 20 Copynumber: 3.1 Consensus size: 19
13390790 TCCTTTTCGC
*
13390800 CTTTTTCATTTTCATTTTCTT
1 CTTTTTCCTTTTC-TTTT-TT
*
13390821 CTTTTTCACTTTT-ATTTTT
1 CTTTTTC-CTTTTCTTTTTT
*
13390840 CTCTTTTCCTTTTCCTTTTT
1 CT-TTTTCCTTTTCTTTTTT
13390860 C
1 C
13390861 CTCACTTGTT
Statistics
Matches: 34, Mismatches: 3, Indels: 7
0.77 0.07 0.16
Matches are distributed among these distances:
19 9 0.26
20 14 0.41
21 7 0.21
22 4 0.12
ACGTcount: A:0.07, C:0.23, G:0.00, T:0.70
Consensus pattern (19 bp):
CTTTTTCCTTTTCTTTTTT
Found at i:13393928 original size:30 final size:30
Alignment explanation
Indices: 13393891--13393956 Score: 107
Period size: 30 Copynumber: 2.2 Consensus size: 30
13393881 TGTGCTAAAC
13393891 GATGGTCGAAACCATCCCTATTT-TTTAATT
1 GATGGTCGAAACCATCCCT-TTTCTTTAATT
*
13393921 TATGGTCGAAACCATCCCTTTTCTTTAATT
1 GATGGTCGAAACCATCCCTTTTCTTTAATT
13393951 GATGGT
1 GATGGT
13393957 ACATCATACC
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
29 3 0.09
30 30 0.91
ACGTcount: A:0.24, C:0.20, G:0.15, T:0.41
Consensus pattern (30 bp):
GATGGTCGAAACCATCCCTTTTCTTTAATT
Found at i:13394067 original size:30 final size:30
Alignment explanation
Indices: 13394031--13394097 Score: 116
Period size: 30 Copynumber: 2.2 Consensus size: 30
13394021 GTGTGCTAAA
*
13394031 CGATGGTCGAAACCATCCCTTTTTTTTAAT
1 CGATGGTCGAAACCATCCCTTTTCTTTAAT
13394061 CGATGGTCGAAACCATCCCTTTTCTTTAAT
1 CGATGGTCGAAACCATCCCTTTTCTTTAAT
*
13394091 TGATGGT
1 CGATGGT
13394098 ACGTCATACC
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
30 35 1.00
ACGTcount: A:0.22, C:0.22, G:0.16, T:0.39
Consensus pattern (30 bp):
CGATGGTCGAAACCATCCCTTTTCTTTAAT
Found at i:13394067 original size:141 final size:141
Alignment explanation
Indices: 13393812--13394231 Score: 723
Period size: 141 Copynumber: 3.0 Consensus size: 141
13393802 CTTTGATCAT
* * * *
13393812 TGGTACATCATACCTTTCCATATTTGTCGTAGTGAAGTCAATCAGAACCCTTATCGGAGCTCAGA
1 TGGTACATCATACCTTTCCATATTTGTTGTAGTGAAGTCAATCGGAACCCTTACCGGAGCTCACA
* **
13393877 CAAGTGTGCTAAACGATGGTCGAAACCATCCCTATTTTTTAATTTATGGTCGAAACCATCCCTTT
66 CAAGTGTGCTAAACGATGGTCGAAACCATCCCTTTTTTTTAATCGATGGTCGAAACCATCCCTTT
13393942 TCTTTAATTGA
131 TCTTTAATTGA
*
13393953 TGGTACATCATACCTTTCCATATTTTTTGTAGTGAAGTCAATCGGAACCCTTACCGGAGCTCACA
1 TGGTACATCATACCTTTCCATATTTGTTGTAGTGAAGTCAATCGGAACCCTTACCGGAGCTCACA
13394018 CAAGTGTGCTAAACGATGGTCGAAACCATCCCTTTTTTTTAATCGATGGTCGAAACCATCCCTTT
66 CAAGTGTGCTAAACGATGGTCGAAACCATCCCTTTTTTTTAATCGATGGTCGAAACCATCCCTTT
13394083 TCTTTAATTGA
131 TCTTTAATTGA
* *
13394094 TGGTACGTCATACCTTTCCATATTTGTTGTAGTGAAGTCAATCGGAACCCTTACCGTAGCTCACA
1 TGGTACATCATACCTTTCCATATTTGTTGTAGTGAAGTCAATCGGAACCCTTACCGGAGCTCACA
** *
13394159 CAAGTGTTTTAAACGATGGTCGAAACCATCCCTTTTTTTTAATCGATGGTCGAAACCATCCATTT
66 CAAGTGTGCTAAACGATGGTCGAAACCATCCCTTTTTTTTAATCGATGGTCGAAACCATCCCTTT
13394224 TCTTTAAT
131 TCTTTAAT
13394232 CAATAGTCAA
Statistics
Matches: 265, Mismatches: 14, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
141 265 1.00
ACGTcount: A:0.27, C:0.23, G:0.16, T:0.35
Consensus pattern (141 bp):
TGGTACATCATACCTTTCCATATTTGTTGTAGTGAAGTCAATCGGAACCCTTACCGGAGCTCACA
CAAGTGTGCTAAACGATGGTCGAAACCATCCCTTTTTTTTAATCGATGGTCGAAACCATCCCTTT
TCTTTAATTGA
Found at i:13394199 original size:30 final size:30
Alignment explanation
Indices: 13394165--13394254 Score: 126
Period size: 30 Copynumber: 3.0 Consensus size: 30
13394155 CACACAAGTG
*
13394165 TTTTAAACGATGGTCGAAACCATCCCTTTT
1 TTTTAATCGATGGTCGAAACCATCCCTTTT
*
13394195 TTTTAATCGATGGTCGAAACCATCCATTTT
1 TTTTAATCGATGGTCGAAACCATCCCTTTT
* * * *
13394225 CTTTAATCAATAGTCAAAACCATCCCTTTT
1 TTTTAATCGATGGTCGAAACCATCCCTTTT
13394255 CATATTCATT
Statistics
Matches: 53, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
30 53 1.00
ACGTcount: A:0.29, C:0.23, G:0.10, T:0.38
Consensus pattern (30 bp):
TTTTAATCGATGGTCGAAACCATCCCTTTT
Done.