Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A04
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: 81554553
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2322942 characters in sequence are not A, C, G, or T
File 35 of 253
Found at i:8981861 original size:73 final size:73
Alignment explanation
Indices: 8981783--8981930 Score: 215
Period size: 73 Copynumber: 2.0 Consensus size: 73
8981773 AAACGCCGCT
* *
8981783 AAAAACCAGAGCATTAGCGACGCTTTTGGTAAAACGCCGCTAAAAACCAGAGTATTCGCGGCACT
1 AAAAACCAGAGCATTAGCGACGCTTTTGGTAAAACGCCGCTAAAAACCAGAGCATTAGCGGCACT
*
8981848 TTTGGTAA
66 TTTAGTAA
* * * * * *
8981856 AAAAACTAGAGCATTTGCGGCGCTTTTGGTAAAATGCTGCTAAAAACCAGAGCATTAGCGGCGCT
1 AAAAACCAGAGCATTAGCGACGCTTTTGGTAAAACGCCGCTAAAAACCAGAGCATTAGCGGCACT
8981921 TTTAGTAA
66 TTTAGTAA
8981929 AA
1 AA
8981931 CGCCGCTAAA
Statistics
Matches: 66, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
73 66 1.00
ACGTcount: A:0.34, C:0.20, G:0.22, T:0.24
Consensus pattern (73 bp):
AAAAACCAGAGCATTAGCGACGCTTTTGGTAAAACGCCGCTAAAAACCAGAGCATTAGCGGCACT
TTTAGTAA
Found at i:8981876 original size:32 final size:32
Alignment explanation
Indices: 8981824--8981889 Score: 96
Period size: 32 Copynumber: 2.1 Consensus size: 32
8981814 AAACGCCGCT
*
8981824 AAAAACCAGAGTATTCGCGGCACTTTTGGTAA
1 AAAAACCAGAGCATTCGCGGCACTTTTGGTAA
* * *
8981856 AAAAACTAGAGCATTTGCGGCGCTTTTGGTAA
1 AAAAACCAGAGCATTCGCGGCACTTTTGGTAA
8981888 AA
1 AA
8981890 TGCTGCTAAA
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.35, C:0.17, G:0.23, T:0.26
Consensus pattern (32 bp):
AAAAACCAGAGCATTCGCGGCACTTTTGGTAA
Found at i:8981941 original size:155 final size:153
Alignment explanation
Indices: 8981702--8981982 Score: 402
Period size: 155 Copynumber: 1.8 Consensus size: 153
8981692 AAAACGCCAC
** *
8981702 AAAAAATAGAGCAATAGCGGCTTTTTTGTTAAAACGCCGCTAAAAACAGAGCAACAGCGGCGCTT
1 AAAAAATAGAGCAATAGCGGCGCTTTTGGTAAAACGCCGCTAAAAACAGAGCAACAGCGGCGCTT
* *
8981767 TTGGTAAAACGCCGCTAAAAACC-AGAGCATTAGCGACGCTTTTGGTAAAACGCCGCTAAAAACC
66 TTAGTAAAACGCCGCTAAAAACCGA-AGCATTAGCGACGCTTTCGGTAAAACGCCGCTAAAAACC
8981831 AGAGTATTCGCGGCACTTTTGGTA
130 AGAGTATTCGCGGCACTTTTGGTA
* * * * **
8981855 AAAAAACTAGAGCATTTGCGGCGCTTTTGGTAAAATGCTGCTAAAAACCAGAGCATTAGCGGCGC
1 AAAAAA-TAGAGCAATAGCGGCGCTTTTGGTAAAACGCCGCTAAAAA-CAGAGCAACAGCGGCGC
* * *
8981920 TTTTAGTAAAACGCCGCTAAAAATCGAAGCATTAGCGGCGCTTTCGGTAAAATGCCGCTAAAA
64 TTTTAGTAAAACGCCGCTAAAAACCGAAGCATTAGCGACGCTTTCGGTAAAACGCCGCTAAAA
8981983 GTCATATAAC
Statistics
Matches: 111, Mismatches: 14, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
153 6 0.05
154 33 0.30
155 71 0.64
156 1 0.01
ACGTcount: A:0.35, C:0.21, G:0.22, T:0.22
Consensus pattern (153 bp):
AAAAAATAGAGCAATAGCGGCGCTTTTGGTAAAACGCCGCTAAAAACAGAGCAACAGCGGCGCTT
TTAGTAAAACGCCGCTAAAAACCGAAGCATTAGCGACGCTTTCGGTAAAACGCCGCTAAAAACCA
GAGTATTCGCGGCACTTTTGGTA
Found at i:8981958 original size:114 final size:114
Alignment explanation
Indices: 8981758--8981971 Score: 331
Period size: 114 Copynumber: 1.9 Consensus size: 114
8981748 CAGAGCAACA
*
8981758 GCGGCGCTTTTGGTAAAACGCCGCTAAAAACCAGAGCATTAGCGACGCTTTTGGTAAAACGCCGC
1 GCGGCGCTTTTGGTAAAACGCCGCTAAAAACCAGAGCATTAGCGACGCTTTTAGTAAAACGCCGC
* * *
8981823 TAAAAACCAGAGTATTCGCGGCACTTTTGGTAAAAAAACTAGAGCATTT
66 TAAAAACCAGAGCATTAGCGGCACTTTCGGTAAAAAAACTAGAGCATTT
* * *
8981872 GCGGCGCTTTTGGTAAAATGCTGCTAAAAACCAGAGCATTAGCGGCGCTTTTAGTAAAACGCCGC
1 GCGGCGCTTTTGGTAAAACGCCGCTAAAAACCAGAGCATTAGCGACGCTTTTAGTAAAACGCCGC
* *
8981937 TAAAAATC-GAAGCATTAGCGGCGCTTTCGGTAAAA
66 TAAAAACCAG-AGCATTAGCGGCACTTTCGGTAAAA
8981972 TGCCGCTAAA
Statistics
Matches: 90, Mismatches: 9, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
113 1 0.01
114 89 0.99
ACGTcount: A:0.32, C:0.21, G:0.24, T:0.23
Consensus pattern (114 bp):
GCGGCGCTTTTGGTAAAACGCCGCTAAAAACCAGAGCATTAGCGACGCTTTTAGTAAAACGCCGC
TAAAAACCAGAGCATTAGCGGCACTTTCGGTAAAAAAACTAGAGCATTT
Found at i:8982049 original size:22 final size:23
Alignment explanation
Indices: 8982024--8982071 Score: 64
Period size: 23 Copynumber: 2.1 Consensus size: 23
8982014 AAAAAATCAT
*
8982024 AAACACT-AA-TCTATAATCCTTA
1 AAACACTAAACTCT-TAAACCTTA
8982046 AAACACTAAACTCTTAAACCTTA
1 AAACACTAAACTCTTAAACCTTA
8982069 AAA
1 AAA
8982072 ATCTTAAACC
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
22 7 0.30
23 13 0.57
24 3 0.13
ACGTcount: A:0.50, C:0.23, G:0.00, T:0.27
Consensus pattern (23 bp):
AAACACTAAACTCTTAAACCTTA
Found at i:8982307 original size:15 final size:14
Alignment explanation
Indices: 8982283--8982316 Score: 50
Period size: 15 Copynumber: 2.4 Consensus size: 14
8982273 ACTATTTTAA
*
8982283 GTTTATGGATTATGG
1 GTTTAGGGATTAT-G
8982298 GTTTAGGGATTATG
1 GTTTAGGGATTATG
8982312 GTTTA
1 GTTTA
8982317 AGTGTTAGGG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 6 0.33
15 12 0.67
ACGTcount: A:0.21, C:0.00, G:0.32, T:0.47
Consensus pattern (14 bp):
GTTTAGGGATTATG
Found at i:8982922 original size:13 final size:13
Alignment explanation
Indices: 8982880--8982930 Score: 50
Period size: 13 Copynumber: 3.8 Consensus size: 13
8982870 AATATATATA
8982880 TTTAGGGTTTAAG
1 TTTAGGGTTTAAG
* *
8982893 ATATA-GGTTTATGG
1 -TTTAGGGTTTA-AG
*
8982907 TTTGGGGTTTAAG
1 TTTAGGGTTTAAG
8982920 TTTAGGGTTTA
1 TTTAGGGTTTA
8982931 TTATTAGAAA
Statistics
Matches: 29, Mismatches: 6, Indels: 5
0.73 0.15 0.12
Matches are distributed among these distances:
13 19 0.66
14 10 0.34
ACGTcount: A:0.22, C:0.00, G:0.31, T:0.47
Consensus pattern (13 bp):
TTTAGGGTTTAAG
Found at i:8983156 original size:17 final size:18
Alignment explanation
Indices: 8983134--8983167 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
8983124 TATTTGTTTT
8983134 AATATA-TTAAAATTATC
1 AATATAGTTAAAATTATC
*
8983151 AATATAGTTTAAATTAT
1 AATATAGTTAAAATTAT
8983168 TTAAGAGAGA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.50, C:0.03, G:0.03, T:0.44
Consensus pattern (18 bp):
AATATAGTTAAAATTATC
Found at i:8984746 original size:42 final size:42
Alignment explanation
Indices: 8984700--8984876 Score: 165
Period size: 42 Copynumber: 4.1 Consensus size: 42
8984690 GGTCATGATT
* * * * **
8984700 TTTAGCGGCGTTTATGAAAAAGCACCGCTAAAGGTTATAGTT
1 TTTAGCGGCGTTTATAAAAAAGCGCCGCTAAAGGTCATGGCC
* * * * *
8984742 TTTAGTGGCATTTTTGAGAAAAGCGTCGCTAAAGGTCATGGCC
1 TTTAGCGGCGTTTAT-AAAAAAGCGCCGCTAAAGGTCATGGCC
* ** *
8984785 TTTAGAGGCGTTTGCAAAAAAGTGCCGCTAAAGGTCATGGCC
1 TTTAGCGGCGTTTATAAAAAAGCGCCGCTAAAGGTCATGGCC
* **
8984827 TTTAGCGGCGTTTGCAAAAAAAAGCGCCGCTAAAGGTCATGATC
1 TTTAGCGGCGTTT--ATAAAAAAGCGCCGCTAAAGGTCATGGCC
8984871 TTTAGC
1 TTTAGC
8984877 AGCATTTTTT
Statistics
Matches: 108, Mismatches: 24, Indels: 4
0.79 0.18 0.03
Matches are distributed among these distances:
42 48 0.44
43 30 0.28
44 30 0.28
ACGTcount: A:0.29, C:0.18, G:0.26, T:0.28
Consensus pattern (42 bp):
TTTAGCGGCGTTTATAAAAAAGCGCCGCTAAAGGTCATGGCC
Found at i:8984863 original size:44 final size:42
Alignment explanation
Indices: 8984760--8984876 Score: 171
Period size: 42 Copynumber: 2.7 Consensus size: 42
8984750 CATTTTTGAG
* *
8984760 AAAAGCGTCGCTAAAGGTCATGGCCTTTAGAGGCGTTTGCAA
1 AAAAGCGCCGCTAAAGGTCATGGCCTTTAGCGGCGTTTGCAA
*
8984802 AAAAGTGCCGCTAAAGGTCATGGCCTTTAGCGGCGTTTGCAAAA
1 AAAAGCGCCGCTAAAGGTCATGGCCTTTAGCGGCGTTTGC--AA
**
8984846 AAAAGCGCCGCTAAAGGTCATGATCTTTAGC
1 AAAAGCGCCGCTAAAGGTCATGGCCTTTAGC
8984877 AGCATTTTTT
Statistics
Matches: 67, Mismatches: 6, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
42 37 0.55
44 30 0.45
ACGTcount: A:0.30, C:0.21, G:0.26, T:0.23
Consensus pattern (42 bp):
AAAAGCGCCGCTAAAGGTCATGGCCTTTAGCGGCGTTTGCAA
Found at i:8995468 original size:19 final size:19
Alignment explanation
Indices: 8995435--8995475 Score: 57
Period size: 20 Copynumber: 2.2 Consensus size: 19
8995425 TTAATGTTCA
*
8995435 TTAAATAAACTCT-AAAAT
1 TTAAATAAACACTAAAAAT
8995453 TTAAATTAAACACTAAAAAT
1 TTAAA-TAAACACTAAAAAT
8995473 TTA
1 TTA
8995476 GCAATGTTAC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
18 5 0.25
19 7 0.35
20 8 0.40
ACGTcount: A:0.56, C:0.10, G:0.00, T:0.34
Consensus pattern (19 bp):
TTAAATAAACACTAAAAAT
Found at i:8997955 original size:20 final size:20
Alignment explanation
Indices: 8997932--8997995 Score: 53
Period size: 24 Copynumber: 3.1 Consensus size: 20
8997922 GTTTATGTAA
8997932 TTAAAAAATAGTAATATTAT
1 TTAAAAAATAGTAATATTAT
*
8997952 TTAAATAATGACTAGTAA-ATATAG
1 TTAAA-AA--A-TAGTAATAT-TAT
8997976 TTAAAAAATA-TAAT-TTAT
1 TTAAAAAATAGTAATATTAT
8997994 TT
1 TT
8997996 TTGTTAATTC
Statistics
Matches: 36, Mismatches: 2, Indels: 14
0.69 0.04 0.27
Matches are distributed among these distances:
18 4 0.11
19 4 0.11
20 7 0.19
21 3 0.08
23 5 0.14
24 13 0.36
ACGTcount: A:0.52, C:0.02, G:0.06, T:0.41
Consensus pattern (20 bp):
TTAAAAAATAGTAATATTAT
Found at i:8999391 original size:16 final size:18
Alignment explanation
Indices: 8999370--8999407 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 18
8999360 TAAAAAAATG
*
8999370 TAAAAAAAT-AAAATTAT
1 TAAAAACATAAAAATTAT
8999387 TAAAAACTATAAAAATTAT
1 TAAAAAC-ATAAAAATTAT
8999406 TA
1 TA
8999408 GAAATTGTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
17 6 0.33
18 2 0.11
19 10 0.56
ACGTcount: A:0.66, C:0.03, G:0.00, T:0.32
Consensus pattern (18 bp):
TAAAAACATAAAAATTAT
Found at i:9000169 original size:25 final size:23
Alignment explanation
Indices: 9000141--9000186 Score: 65
Period size: 23 Copynumber: 1.9 Consensus size: 23
9000131 TTCTTTATGT
9000141 TTATTTTACGTATATATATTTTTTC
1 TTATTTT--GTATATATATTTTTTC
*
9000166 TTATTTTTTATATATATTTTT
1 TTATTTTGTATATATATTTTT
9000187 AAAGCATTTC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 13 0.65
25 7 0.35
ACGTcount: A:0.24, C:0.04, G:0.02, T:0.70
Consensus pattern (23 bp):
TTATTTTGTATATATATTTTTTC
Found at i:9009576 original size:11 final size:11
Alignment explanation
Indices: 9009560--9009584 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
9009550 CCAATTTGTG
9009560 AAAATAAAAAT
1 AAAATAAAAAT
9009571 AAAATAAAAAT
1 AAAATAAAAAT
9009582 AAA
1 AAA
9009585 GAACACAGAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.84, C:0.00, G:0.00, T:0.16
Consensus pattern (11 bp):
AAAATAAAAAT
Found at i:9013030 original size:3 final size:3
Alignment explanation
Indices: 9013022--9013058 Score: 74
Period size: 3 Copynumber: 12.3 Consensus size: 3
9013012 ATTAATTAGT
9013022 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
9013059 ACTTTCTCTT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 34 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:9013674 original size:14 final size:15
Alignment explanation
Indices: 9013646--9013674 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
9013636 ATTTTGCTTA
9013646 TTTATTTACTATATT
1 TTTATTTACTATATT
9013661 TTTATTTA-TATATT
1 TTTATTTACTATATT
9013675 GTAGCGACGT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 6 0.43
15 8 0.57
ACGTcount: A:0.28, C:0.03, G:0.00, T:0.69
Consensus pattern (15 bp):
TTTATTTACTATATT
Found at i:9014764 original size:44 final size:44
Alignment explanation
Indices: 9014679--9014764 Score: 102
Period size: 44 Copynumber: 2.0 Consensus size: 44
9014669 TATAGCTAAG
* * **
9014679 AATATTGAAAATATATACATAAGATGACATAAAATTTAAATAAC
1 AATATTGAAAATATATACATAACATAACATAAAATAAAAATAAC
* *
9014723 AATATTG-AAATATATATATATACATAACATAGAATAAAAATA
1 AATATTGAAAATATATACATA-ACATAACATAAAATAAAAATA
9014765 TATATATGTA
Statistics
Matches: 35, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
43 12 0.34
44 23 0.66
ACGTcount: A:0.58, C:0.06, G:0.06, T:0.30
Consensus pattern (44 bp):
AATATTGAAAATATATACATAACATAACATAAAATAAAAATAAC
Found at i:9017071 original size:132 final size:130
Alignment explanation
Indices: 9016855--9017103 Score: 292
Period size: 132 Copynumber: 1.9 Consensus size: 130
9016845 AGTCTTGTGC
* *
9016855 ATTTAGGAAATTCGAGAAATCGTACCCTAACTTACGGGTCTCGATTTTCTCGTTAAATCTAAATA
1 ATTTAGGAAACTCGAGAAATCGTACCCTAACTTACGGGTCTCGATTTTCTCATTAAATCTAAATA
* * *
9016920 GCCGAATAGCCCTTAAAATTTCAAAATACATGA-ATTT-TAAAA-AAAAATAAAAGTAATATTCC
66 ACCGAATAGCCCTTAAAA-TT-AAAACACATGAGATTTCAAAAATAAAAATAAAAGTAATATTCC
9016982 AT
129 AT
* * **
9016984 ATTTA-GAAACTCGAGAAAGTCGTGCCCTAACTTATGGGGTCTCGATTCTTTCTCATTGGATCTA
1 ATTTAGGAAACTCGAGAAA-TCGTACCCTAACTTA-CGGGTCTCGA-T-TTTCTCATTAAATCTA
* * *
9017048 AATAATCGAATA-TCCTTCTAAATTAAAACACATGAGATTTCAAAAATAAAAATAAA
62 AATAACCGAATAGCCCTT-AAAATTAAAACACATGAGATTTCAAAAATAAAAATAAA
9017104 GACAAGTTTG
Statistics
Matches: 100, Mismatches: 12, Indels: 12
0.81 0.10 0.10
Matches are distributed among these distances:
128 12 0.12
129 19 0.19
130 19 0.19
131 11 0.11
132 30 0.30
133 9 0.09
ACGTcount: A:0.40, C:0.16, G:0.12, T:0.31
Consensus pattern (130 bp):
ATTTAGGAAACTCGAGAAATCGTACCCTAACTTACGGGTCTCGATTTTCTCATTAAATCTAAATA
ACCGAATAGCCCTTAAAATTAAAACACATGAGATTTCAAAAATAAAAATAAAAGTAATATTCCAT
Found at i:9017521 original size:13 final size:13
Alignment explanation
Indices: 9017503--9017528 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
9017493 TCCCATTTTT
9017503 CGTTTTTTTAAAA
1 CGTTTTTTTAAAA
9017516 CGTTTTTTTAAAA
1 CGTTTTTTTAAAA
9017529 GTCGGCCTTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.08, G:0.08, T:0.54
Consensus pattern (13 bp):
CGTTTTTTTAAAA
Found at i:9020008 original size:56 final size:56
Alignment explanation
Indices: 9019922--9020036 Score: 230
Period size: 56 Copynumber: 2.1 Consensus size: 56
9019912 ATAATGGTCA
9019922 TATGGAGGACTCTATCAATAACTTTACTTCTCATATCAGAACTTGGAACAGTGATG
1 TATGGAGGACTCTATCAATAACTTTACTTCTCATATCAGAACTTGGAACAGTGATG
9019978 TATGGAGGACTCTATCAATAACTTTACTTCTCATATCAGAACTTGGAACAGTGATG
1 TATGGAGGACTCTATCAATAACTTTACTTCTCATATCAGAACTTGGAACAGTGATG
9020034 TAT
1 TAT
9020037 ATGGGCATAT
Statistics
Matches: 59, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
56 59 1.00
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.33
Consensus pattern (56 bp):
TATGGAGGACTCTATCAATAACTTTACTTCTCATATCAGAACTTGGAACAGTGATG
Found at i:9021988 original size:21 final size:21
Alignment explanation
Indices: 9021964--9022023 Score: 84
Period size: 21 Copynumber: 2.9 Consensus size: 21
9021954 GTCTTGGGGT
* *
9021964 CACACGGGTGTGTGCCTTAGC
1 CACACGGTTGTGTGCCTCAGC
*
9021985 CACACGGTTGTATGCCTCAGC
1 CACACGGTTGTGTGCCTCAGC
*
9022006 TACACGGTTGTGTGCCTC
1 CACACGGTTGTGTGCCTC
9022024 CTTTCACACG
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 34 1.00
ACGTcount: A:0.15, C:0.30, G:0.28, T:0.27
Consensus pattern (21 bp):
CACACGGTTGTGTGCCTCAGC
Found at i:9025248 original size:5 final size:6
Alignment explanation
Indices: 9025235--9025282 Score: 69
Period size: 6 Copynumber: 7.5 Consensus size: 6
9025225 ATAATGTAAT
9025235 AAATAA AAATAA AAATCTAA AAATAA AAATAA AAATAA AAATATA AAA
1 AAATAA AAATAA AAA--TAA AAATAA AAATAA AAATAA AAATA-A AAA
9025283 AATATAATTT
Statistics
Matches: 39, Mismatches: 0, Indels: 5
0.89 0.00 0.11
Matches are distributed among these distances:
6 29 0.74
7 4 0.10
8 6 0.15
ACGTcount: A:0.79, C:0.02, G:0.00, T:0.19
Consensus pattern (6 bp):
AAATAA
Found at i:9025257 original size:14 final size:13
Alignment explanation
Indices: 9025238--9025283 Score: 67
Period size: 14 Copynumber: 3.5 Consensus size: 13
9025228 ATGTAATAAA
9025238 TAAAAATAAAAAT
1 TAAAAATAAAAAT
9025251 CTAAAAATAAAAA-
1 -TAAAAATAAAAAT
9025264 TAAAAATAAAAAT
1 TAAAAATAAAAAT
9025277 ATAAAAA
1 -TAAAAA
9025284 ATATAATTTT
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
12 12 0.40
14 18 0.60
ACGTcount: A:0.78, C:0.02, G:0.00, T:0.20
Consensus pattern (13 bp):
TAAAAATAAAAAT
Found at i:9025269 original size:21 final size:22
Alignment explanation
Indices: 9025212--9025269 Score: 66
Period size: 20 Copynumber: 2.6 Consensus size: 22
9025202 CAACCTAATC
*
9025212 ATAAAAATTACAAATAATGTAATAA
1 ATAAAAA-TA-AAA-AATCTAATAA
9025237 ATAAAAAT-AAAAATCTAA-AA
1 ATAAAAATAAAAAATCTAATAA
9025257 ATAAAAATAAAAA
1 ATAAAAATAAAAA
9025270 TAAAAATATA
Statistics
Matches: 31, Mismatches: 1, Indels: 6
0.82 0.03 0.16
Matches are distributed among these distances:
20 10 0.32
21 10 0.32
22 3 0.10
24 1 0.03
25 7 0.23
ACGTcount: A:0.72, C:0.03, G:0.02, T:0.22
Consensus pattern (22 bp):
ATAAAAATAAAAAATCTAATAA
Found at i:9025283 original size:20 final size:19
Alignment explanation
Indices: 9025235--9025283 Score: 71
Period size: 20 Copynumber: 2.5 Consensus size: 19
9025225 ATAATGTAAT
*
9025235 AAATAAAAATAAAAATCTAA
1 AAATAAAAATAAAAAT-AAA
9025255 AAATAAAAATAAAAATAAA
1 AAATAAAAATAAAAATAAA
9025274 AATATAAAAA
1 AA-ATAAAAA
9025284 ATATAATTTT
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
19 4 0.15
20 23 0.85
ACGTcount: A:0.80, C:0.02, G:0.00, T:0.18
Consensus pattern (19 bp):
AAATAAAAATAAAAATAAA
Found at i:9025315 original size:9 final size:9
Alignment explanation
Indices: 9025301--9025377 Score: 118
Period size: 9 Copynumber: 8.6 Consensus size: 9
9025291 TTTATACAAA
9025301 TAATTCGGT
1 TAATTCGGT
*
9025310 TAATTCAGT
1 TAATTCGGT
*
9025319 TAATTCGGG
1 TAATTCGGT
*
9025328 TAATTCGAT
1 TAATTCGGT
9025337 TAATTCGGT
1 TAATTCGGT
*
9025346 TAATTCGAT
1 TAATTCGGT
9025355 TAATTCGGT
1 TAATTCGGT
9025364 TAATTCGGT
1 TAATTCGGT
9025373 TAATT
1 TAATT
9025378 TTATACTTAT
Statistics
Matches: 60, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
9 60 1.00
ACGTcount: A:0.27, C:0.10, G:0.18, T:0.44
Consensus pattern (9 bp):
TAATTCGGT
Found at i:9035014 original size:32 final size:34
Alignment explanation
Indices: 9034976--9035039 Score: 96
Period size: 34 Copynumber: 1.9 Consensus size: 34
9034966 GCACATGATT
* *
9034976 ATAAAA-TTTT-AATTTTTTTAATTAGTTTTTAA
1 ATAAAATTTTTAAATTATTCTAATTAGTTTTTAA
9035008 ATAAAATTTTTAAATTATTCTAATTAGTTTTT
1 ATAAAATTTTTAAATTATTCTAATTAGTTTTT
9035040 TTAGTTTGTT
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
32 6 0.21
33 4 0.14
34 18 0.64
ACGTcount: A:0.38, C:0.02, G:0.03, T:0.58
Consensus pattern (34 bp):
ATAAAATTTTTAAATTATTCTAATTAGTTTTTAA
Found at i:9035555 original size:18 final size:18
Alignment explanation
Indices: 9035523--9035565 Score: 52
Period size: 17 Copynumber: 2.3 Consensus size: 18
9035513 CCAAATTTTT
*
9035523 ATTTAAATTTTTTA-TAC
1 ATTTTAATTTTTTAGTAC
9035540 ATTTTAATTTTATTATGTAC
1 ATTTTAATTTT-TTA-GTAC
9035560 ATTTTA
1 ATTTTA
9035566 TTACCTCCAT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
17 10 0.45
18 3 0.14
20 9 0.41
ACGTcount: A:0.33, C:0.05, G:0.02, T:0.60
Consensus pattern (18 bp):
ATTTTAATTTTTTAGTAC
Found at i:9037459 original size:14 final size:14
Alignment explanation
Indices: 9037440--9037471 Score: 64
Period size: 14 Copynumber: 2.3 Consensus size: 14
9037430 AAAATTTGTG
9037440 TTTTCTTTATTTTA
1 TTTTCTTTATTTTA
9037454 TTTTCTTTATTTTA
1 TTTTCTTTATTTTA
9037468 TTTT
1 TTTT
9037472 ATTTTTTTCA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.12, C:0.06, G:0.00, T:0.81
Consensus pattern (14 bp):
TTTTCTTTATTTTA
Found at i:9042727 original size:25 final size:21
Alignment explanation
Indices: 9042693--9042744 Score: 61
Period size: 21 Copynumber: 2.3 Consensus size: 21
9042683 TTATTATAGT
9042693 AATTTA-GATTAATAGGAATTATCA
1 AATTTATGATT-A-AGG-ATTAT-A
9042717 AATTTATGATTAAGGATTATA
1 AATTTATGATTAAGGATTATA
9042738 AATTTAT
1 AATTTAT
9042745 TTAATTCCAA
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
21 8 0.30
22 5 0.19
23 3 0.11
24 7 0.26
25 4 0.15
ACGTcount: A:0.44, C:0.02, G:0.12, T:0.42
Consensus pattern (21 bp):
AATTTATGATTAAGGATTATA
Found at i:9043435 original size:44 final size:44
Alignment explanation
Indices: 9043381--9043609 Score: 141
Period size: 44 Copynumber: 5.3 Consensus size: 44
9043371 GCCTGTTACC
*
9043381 CTACTGCTTAGGGGGTTAAGGCTCACCGTATTCGATTTACTCCG
1 CTACTGCTTAGGGGGTTAAGGCTCACCGTATTCGATCTACTCCG
* * * * * ** *
9043425 CTACTACTTAGGGAGATAA-GAT--CTGTAATTCGGCCTATTACC-
1 CTACTGCTTAGGGGGTTAAGGCTCACCGT-ATTCGATCTACT-CCG
* * * * * *
9043467 TTACTGCTTACGGGGTTAAGGCTCACCGTCTTTGATTTACTCTG
1 CTACTGCTTAGGGGGTTAAGGCTCACCGTATTCGATCTACTCCG
* * * * * ** *
9043511 CTACTACTTAGGGAGATAA-GAT--CTGTAATTCGGCCTGCTACC-
1 CTACTGCTTAGGGGGTTAAGGCTCACCGT-ATTCGATCTACT-CCG
* *
9043553 CTACTGCTTAGGGGGTTAAGGCTCACCGTCTTCGATCTACTTCG
1 CTACTGCTTAGGGGGTTAAGGCTCACCGTATTCGATCTACTCCG
9043597 CTACTGCTTAGGG
1 CTACTGCTTAGGG
9043610 AGATAAGATC
Statistics
Matches: 126, Mismatches: 47, Indels: 24
0.64 0.24 0.12
Matches are distributed among these distances:
41 6 0.05
42 44 0.35
43 13 0.10
44 57 0.45
45 6 0.05
ACGTcount: A:0.21, C:0.24, G:0.23, T:0.32
Consensus pattern (44 bp):
CTACTGCTTAGGGGGTTAAGGCTCACCGTATTCGATCTACTCCG
Found at i:9043504 original size:86 final size:86
Alignment explanation
Indices: 9043356--9043674 Score: 512
Period size: 86 Copynumber: 3.7 Consensus size: 86
9043346 ACAGCTAGAC
*
9043356 AAGATCTGTAATTCGGCCTGTTACCCTACTGCTTAGGGGGTTAAGGCTCACCGTATTCGATTTAC
1 AAGATCTGTAATTCGGCCTGTTACCCTACTGCTTAGGGGGTTAAGGCTCACCGTCTTCGATTTAC
9043421 TCCGCTACTACTTAGGGAGAT
66 TCCGCTACTACTTAGGGAGAT
* * * *
9043442 AAGATCTGTAATTCGGCCTATTACCTTACTGCTTACGGGGTTAAGGCTCACCGTCTTTGATTTAC
1 AAGATCTGTAATTCGGCCTGTTACCCTACTGCTTAGGGGGTTAAGGCTCACCGTCTTCGATTTAC
*
9043507 TCTGCTACTACTTAGGGAGAT
66 TCCGCTACTACTTAGGGAGAT
* *
9043528 AAGATCTGTAATTCGGCCTGCTACCCTACTGCTTAGGGGGTTAAGGCTCACCGTCTTCGATCTAC
1 AAGATCTGTAATTCGGCCTGTTACCCTACTGCTTAGGGGGTTAAGGCTCACCGTCTTCGATTTAC
* *
9043593 TTCGCTACTGCTTAGGGAGAT
66 TCCGCTACTACTTAGGGAGAT
* * * *
9043614 AAGATCTGTAATTCAGCCTGTTAACCTACTGCTTAGGGGGTTAAGGCTTACTGTCTTCGAT
1 AAGATCTGTAATTCGGCCTGTTACCCTACTGCTTAGGGGGTTAAGGCTCACCGTCTTCGAT
9043675 CTACATTACC
Statistics
Matches: 213, Mismatches: 20, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
86 213 1.00
ACGTcount: A:0.22, C:0.23, G:0.23, T:0.33
Consensus pattern (86 bp):
AAGATCTGTAATTCGGCCTGTTACCCTACTGCTTAGGGGGTTAAGGCTCACCGTCTTCGATTTAC
TCCGCTACTACTTAGGGAGAT
Found at i:9049105 original size:174 final size:174
Alignment explanation
Indices: 9048683--9049089 Score: 733
Period size: 174 Copynumber: 2.3 Consensus size: 174
9048673 CACTAGTTGG
** * *
9048683 AAGAATCCATGCAAAGCAAACCAAGGACTAATTATAGAAAAGTCAGTCTACGTTAAAGTGACATA
1 AAGAATCCACCCAAAGTAAAGCAAGGACTAATTATAGAAAAGTCAGTCTACGTTAAAGTGACATA
9048748 AAGCTCCAAACACCCGTCTGTGATCCAGAAATGTTCAACCTCTTATCCCCAAATCACTCACAAAT
66 AAGCTCCAAACACCCGTCTGTGATCCAGAAATGTTCAACCTCTTATCCCCAAATCACTCACAAAT
9048813 AGTAATGACAAATTGTGGAAAATGTTCTCAATAACTACAAGAAT
131 AGTAATGACAAATTGTGGAAAATGTTCTCAATAACTACAAGAAT
* * *
9048857 TAGATTCCACCCAAAGTAAAGCAAGGACTAATTATAGAAAAGTCAGTCTACGTTAAAGTGACGTA
1 AAGAATCCACCCAAAGTAAAGCAAGGACTAATTATAGAAAAGTCAGTCTACGTTAAAGTGACATA
*
9048922 AAGCTCCAAATACCCGTCTGTGATCCAGAAATGTTCAACCTCTTATCCCCAAATCACTCACAAAT
66 AAGCTCCAAACACCCGTCTGTGATCCAGAAATGTTCAACCTCTTATCCCCAAATCACTCACAAAT
9048987 AGTAATGACAAATTGTGGAAAATGTTCTCAATAACTACAAGAAT
131 AGTAATGACAAATTGTGGAAAATGTTCTCAATAACTACAAGAAT
*
9049031 AAGAATCCACCCAAAGTAAAGCAAGGACTAATTATAGAAAAGTCAGTCTATGTTAAAGT
1 AAGAATCCACCCAAAGTAAAGCAAGGACTAATTATAGAAAAGTCAGTCTACGTTAAAGT
9049090 ATCATTTAAC
Statistics
Matches: 222, Mismatches: 11, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
174 222 1.00
ACGTcount: A:0.41, C:0.21, G:0.14, T:0.24
Consensus pattern (174 bp):
AAGAATCCACCCAAAGTAAAGCAAGGACTAATTATAGAAAAGTCAGTCTACGTTAAAGTGACATA
AAGCTCCAAACACCCGTCTGTGATCCAGAAATGTTCAACCTCTTATCCCCAAATCACTCACAAAT
AGTAATGACAAATTGTGGAAAATGTTCTCAATAACTACAAGAAT
Found at i:9049989 original size:88 final size:86
Alignment explanation
Indices: 9049832--9050033 Score: 223
Period size: 87 Copynumber: 2.3 Consensus size: 86
9049822 TATTGCTTCT
* **
9049832 TCTTTTT-TAAAGTTTGAGGATG-TTTTTGATGCATTTTGAAAATTCAAGTACCCAGTTGAATGT
1 TCTTTTTGAAAAGTTTGAGG--GCTTTTTGATGCATTTTGAAAATTCAAGTACCCAAATGAATG-
* *
9049895 AGAAAAAAAC-AGGAGCTTAATTGC
63 AAAAAAAAACAAGG-GCTTAATTAC
* * * *
9049919 TCTTTTTGAAAAGGTTTGAGGGCCTTTTT-ATGTATTTTGAAAGTTTAAGTACCCAAATGAGTGA
1 TCTTTTTGAAAA-GTTTGAGGG-CTTTTTGATGCATTTTGAAAATTCAAGTACCCAAATGAATGA
* *
9049983 AAAAAAAGCAATGGCTTAATTAC
64 AAAAAAAACAAGGGCTTAATTAC
9050006 TCTTTTTGAAAAGTTTGAGGGCTTTTTG
1 TCTTTTTGAAAAGTTTGAGGGCTTTTTG
9050034 CACCCTTAAG
Statistics
Matches: 98, Mismatches: 11, Indels: 13
0.80 0.09 0.11
Matches are distributed among these distances:
85 6 0.06
86 9 0.09
87 37 0.38
88 33 0.34
89 13 0.13
ACGTcount: A:0.32, C:0.10, G:0.20, T:0.38
Consensus pattern (86 bp):
TCTTTTTGAAAAGTTTGAGGGCTTTTTGATGCATTTTGAAAATTCAAGTACCCAAATGAATGAAA
AAAAAACAAGGGCTTAATTAC
Found at i:9060589 original size:21 final size:22
Alignment explanation
Indices: 9060538--9060591 Score: 65
Period size: 21 Copynumber: 2.5 Consensus size: 22
9060528 CTAGCCTCCA
* *
9060538 GCGCGCCTCCGTACGACCCCCT
1 GCGCGCCTCCATACGACCACCT
*
9060560 GCACGCCTCCATACG-CCACCT
1 GCGCGCCTCCATACGACCACCT
*
9060581 TCGCGCCTCCA
1 GCGCGCCTCCA
9060592 CGTCGCATTC
Statistics
Matches: 27, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
21 14 0.52
22 13 0.48
ACGTcount: A:0.13, C:0.54, G:0.19, T:0.15
Consensus pattern (22 bp):
GCGCGCCTCCATACGACCACCT
Found at i:9064541 original size:19 final size:19
Alignment explanation
Indices: 9064517--9064562 Score: 58
Period size: 19 Copynumber: 2.4 Consensus size: 19
9064507 CTTTCTTCCC
9064517 TTTGCATT-CATCCCATGCA
1 TTTGCATTGCATCCCAT-CA
**
9064536 TTTGCATTGCATTGCATCA
1 TTTGCATTGCATCCCATCA
9064555 TTTGCATT
1 TTTGCATT
9064563 AAATTTTTCC
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
19 18 0.75
20 6 0.25
ACGTcount: A:0.20, C:0.24, G:0.13, T:0.43
Consensus pattern (19 bp):
TTTGCATTGCATCCCATCA
Found at i:9068454 original size:64 final size:64
Alignment explanation
Indices: 9068367--9068494 Score: 177
Period size: 64 Copynumber: 2.0 Consensus size: 64
9068357 TCATTCATGA
* * * *
9068367 CACATTTAGTTAAGAGCACTTGATTCATTTCG-ATCATAGCATTCTAATTATTTGACATAAGCAT
1 CACATCTAGTTAAGAACACTTGATTCATTTCGAAT-ACAGCATCCTAATTATTTGACATAAGCAT
* * *
9068431 CACATCTAGTTAGGAACATTTGATTCATTTCGAATACAGCATCCTAATTATTTGGCATAAGCAT
1 CACATCTAGTTAAGAACACTTGATTCATTTCGAATACAGCATCCTAATTATTTGACATAAGCAT
9068495 AGGCCTATAA
Statistics
Matches: 56, Mismatches: 7, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
64 54 0.96
65 2 0.04
ACGTcount: A:0.33, C:0.18, G:0.13, T:0.36
Consensus pattern (64 bp):
CACATCTAGTTAAGAACACTTGATTCATTTCGAATACAGCATCCTAATTATTTGACATAAGCAT
Found at i:9068677 original size:45 final size:45
Alignment explanation
Indices: 9068613--9068807 Score: 148
Period size: 45 Copynumber: 4.4 Consensus size: 45
9068603 CACCAGCCTA
* * * *
9068613 TCTCCCTAAAGTTGTAGTGGAGTAGGCTGAAGATTGTAGATCTTG
1 TCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGATTGTAGATCTTG
* *
9068658 TCTCCCTGAAGTTGCAGTGGAGCA-AATCGAAGATGGT-GAATCTTG
1 TCTCCCTGAAGTTGCAGTGGAGCAGACT-GAAGATTGTAG-ATCTTG
* * * * * ** * * *
9068703 TCTTCCTGAAGTTACAGTGAAGCAGATTTAAG---CCACCATCCTA
1 TCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGATTGTA-GATCTTG
* * * *
9068746 TCTCCCTAAAGTTGTAGTGGAGTAGGCTGAAGATTGTAGATCTTG
1 TCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGATTGTAGATCTTG
9068791 TCTCCCTGAAGTTGCAG
1 TCTCCCTGAAGTTGCAG
9068808 CAGAGCAAAT
Statistics
Matches: 110, Mismatches: 32, Indels: 16
0.70 0.20 0.10
Matches are distributed among these distances:
43 27 0.25
44 2 0.02
45 78 0.71
46 3 0.03
ACGTcount: A:0.26, C:0.18, G:0.26, T:0.30
Consensus pattern (45 bp):
TCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGATTGTAGATCTTG
Found at i:9068755 original size:133 final size:133
Alignment explanation
Indices: 9068517--9068823 Score: 542
Period size: 133 Copynumber: 2.3 Consensus size: 133
9068507 CCGATTCTAC
*
9068517 AGATCTTGTCTCCCTGAAGTTGTAGTGGAGCAAATCGAAGATGGCGAATCTTGTCTCCCTGAAGC
1 AGATCTTGTCTCCCTGAAGTTGCAGTGGAGCAAATCGAAGATGGCGAATCTTGTCTCCCTGAAGC
9068582 TACAGTGAAGCAGATTTAAGCCACCAGCCTATCTCCCTAAAGTTGTAGTGGAGTAGGCTGAAGAT
66 TACAGTGAAGCAGATTTAAGCCACCAGCCTATCTCCCTAAAGTTGTAGTGGAGTAGGCTGAAGAT
9068647 TGT
131 TGT
* * *
9068650 AGATCTTGTCTCCCTGAAGTTGCAGTGGAGCAAATCGAAGATGGTGAATCTTGTCTTCCTGAAGT
1 AGATCTTGTCTCCCTGAAGTTGCAGTGGAGCAAATCGAAGATGGCGAATCTTGTCTCCCTGAAGC
*
9068715 TACAGTGAAGCAGATTTAAGCCACCATCCTATCTCCCTAAAGTTGTAGTGGAGTAGGCTGAAGAT
66 TACAGTGAAGCAGATTTAAGCCACCAGCCTATCTCCCTAAAGTTGTAGTGGAGTAGGCTGAAGAT
9068780 TGT
131 TGT
** *
9068783 AGATCTTGTCTCCCTGAAGTTGCAGCAGAGCAAATCAAAGA
1 AGATCTTGTCTCCCTGAAGTTGCAGTGGAGCAAATCGAAGA
9068824 AGCAAGCCTT
Statistics
Matches: 166, Mismatches: 8, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
133 166 1.00
ACGTcount: A:0.28, C:0.20, G:0.25, T:0.27
Consensus pattern (133 bp):
AGATCTTGTCTCCCTGAAGTTGCAGTGGAGCAAATCGAAGATGGCGAATCTTGTCTCCCTGAAGC
TACAGTGAAGCAGATTTAAGCCACCAGCCTATCTCCCTAAAGTTGTAGTGGAGTAGGCTGAAGAT
TGT
Found at i:9068861 original size:88 final size:88
Alignment explanation
Indices: 9068769--9069149 Score: 672
Period size: 88 Copynumber: 4.3 Consensus size: 88
9068759 GTAGTGGAGT
*
9068769 AGGCTGAAGATTGTAGATCTTGTCTCCCTGAAGTTGCAGCAGAGCAAATCAAAGAAGCAAGCCTT
1 AGGCTGAAGATTGTAGATCTTGTCTCCCTGAAGTTGCAGCGGAGCAAATCAAAGAAGCAAGCCTT
*
9068834 AACTCCCTAAGTCGTAAGGTAAC
66 AACTCCCTAAGTCGTAGGGTAAC
* * *
9068857 AGGCTGAAGATTGTAGATCTTGTCTCCCTGAAGTTGTAGCGGAGCAAATTAAAGAAGTAAGCCTT
1 AGGCTGAAGATTGTAGATCTTGTCTCCCTGAAGTTGCAGCGGAGCAAATCAAAGAAGCAAGCCTT
9068922 AACTCCCTAAGTCGTAGGGTAAC
66 AACTCCCTAAGTCGTAGGGTAAC
* * *
9068945 AGGCTGAAGATTTTAGATCTTGTCTCCCTGAAGTTGTAGTGGAGCAAATCAAAGAAGCAAGCCTT
1 AGGCTGAAGATTGTAGATCTTGTCTCCCTGAAGTTGCAGCGGAGCAAATCAAAGAAGCAAGCCTT
*
9069010 AACTCCTTAAGTCGTAGGGTAAC
66 AACTCCCTAAGTCGTAGGGTAAC
*
9069033 AGGCTGAAGATTGCAGATCTTGTCTCCCTGAAGTTGCAGCGGAGCAAATCAAAGAAGCAAGCCTT
1 AGGCTGAAGATTGTAGATCTTGTCTCCCTGAAGTTGCAGCGGAGCAAATCAAAGAAGCAAGCCTT
9069098 AACTCCCTAAGTCGTAGGGTAAC
66 AACTCCCTAAGTCGTAGGGTAAC
9069121 AGGCTGAAGATTGTAGATCTTGTCTCCCT
1 AGGCTGAAGATTGTAGATCTTGTCTCCCT
9069150 ACAGAGTAAC
Statistics
Matches: 277, Mismatches: 16, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
88 277 1.00
ACGTcount: A:0.30, C:0.20, G:0.24, T:0.25
Consensus pattern (88 bp):
AGGCTGAAGATTGTAGATCTTGTCTCCCTGAAGTTGCAGCGGAGCAAATCAAAGAAGCAAGCCTT
AACTCCCTAAGTCGTAGGGTAAC
Found at i:9069260 original size:80 final size:83
Alignment explanation
Indices: 9069158--9069373 Score: 303
Period size: 80 Copynumber: 2.6 Consensus size: 83
9069148 CTACAGAGTA
*
9069158 ACAGGCTGAAGATTGTAGATCTTGTCTCCCTGAAGTTGCAGCGGAGCAAATCAAAGAACCAACCC
1 ACAGGCCGAAGATTGTAGATCTTGTCTCCCTGAAGTTGCAGCGGAGCAAATCAAAGAACCAACCC
9069223 TTAACTCCCTAAGTC-GT
66 TTAACTCCCTAAGTCGGT
* * * *
9069240 -C-GGCCGAAGATTGTAGATCTTGTCTCCCTGAAGTTGCAGCGGATCAAATCAAAGAAGCAAGCT
1 ACAGGCCGAAGATTGTAGATCTTGTCTCCCTGAAGTTGCAGCGGAGCAAATCAAAGAACCAACCC
9069303 TTAACTCCCTAAGTCGTAGGGT
66 TTAACTCCCTAAGTC----GGT
* *
9069325 AACAGGCTGAAGATTGTAGATCTTGTCTCCCTGAAGTTGCAGCAGAGCA
1 -ACAGGCCGAAGATTGTAGATCTTGTCTCCCTGAAGTTGCAGCGGAGCA
9069374 GTTGCAGTAG
Statistics
Matches: 118, Mismatches: 8, Indels: 10
0.87 0.06 0.07
Matches are distributed among these distances:
80 72 0.61
81 1 0.01
85 2 0.02
87 1 0.01
88 42 0.36
ACGTcount: A:0.29, C:0.23, G:0.24, T:0.24
Consensus pattern (83 bp):
ACAGGCCGAAGATTGTAGATCTTGTCTCCCTGAAGTTGCAGCGGAGCAAATCAAAGAACCAACCC
TTAACTCCCTAAGTCGGT
Found at i:9069321 original size:207 final size:210
Alignment explanation
Indices: 9068940--9069356 Score: 678
Period size: 207 Copynumber: 2.0 Consensus size: 210
9068930 AAGTCGTAGG
* * * *
9068940 GTAACAGGCTGAAGATTTTAGATCTTGTCTCCCTGAAGTTGTAGTGGAGCAAATCAAAGAAGCAA
1 GTAACAGGCTGAAGATTGTAGATCTTGTCTCCCTGAAGTTGCAGCGGAGCAAATCAAAGAACCAA
* * *
9069005 GCCTTAACTCCTTAAGTCGTAGGGTAACAGGCTGAAGATTGCAGATCTTGTCTCCCTGAAGTTGC
66 CCCTTAACTCCCTAAGTC----GGT-ACAGGCCGAAGATTGCAGATCTTGTCTCCCTGAAGTTGC
9069070 AGCGGAGCAAATCAAAGAAGCAAGCCTTAACTCCCTAAGTCGTAGGGTAACAGGCTGAAGATTGT
126 AGCGGAGCAAATCAAAGAAGCAAGCCTTAACTCCCTAAGTCGTAGGGTAACAGGCTGAAGATTGT
9069135 AGATCTTGTCTCCCTACAGA
191 AGATCTTGTCTCCCTACAGA
9069155 GTAACAGGCTGAAGATTGTAGATCTTGTCTCCCTGAAGTTGCAGCGGAGCAAATCAAAGAACCAA
1 GTAACAGGCTGAAGATTGTAGATCTTGTCTCCCTGAAGTTGCAGCGGAGCAAATCAAAGAACCAA
*
9069220 CCCTTAACTCCCTAAGTC-GT-C-GGCCGAAGATTGTAGATCTTGTCTCCCTGAAGTTGCAGCGG
66 CCCTTAACTCCCTAAGTCGGTACAGGCCGAAGATTGCAGATCTTGTCTCCCTGAAGTTGCAGCGG
* *
9069282 ATCAAATCAAAGAAGCAAGCTTTAACTCCCTAAGTCGTAGGGTAACAGGCTGAAGATTGTAGATC
131 AGCAAATCAAAGAAGCAAGCCTTAACTCCCTAAGTCGTAGGGTAACAGGCTGAAGATTGTAGATC
9069347 TTGTCTCCCT
196 TTGTCTCCCT
9069357 GAAGTTGCAG
Statistics
Matches: 192, Mismatches: 10, Indels: 8
0.91 0.05 0.04
Matches are distributed among these distances:
207 112 0.58
208 1 0.01
210 2 0.01
215 77 0.40
ACGTcount: A:0.29, C:0.22, G:0.24, T:0.25
Consensus pattern (210 bp):
GTAACAGGCTGAAGATTGTAGATCTTGTCTCCCTGAAGTTGCAGCGGAGCAAATCAAAGAACCAA
CCCTTAACTCCCTAAGTCGGTACAGGCCGAAGATTGCAGATCTTGTCTCCCTGAAGTTGCAGCGG
AGCAAATCAAAGAAGCAAGCCTTAACTCCCTAAGTCGTAGGGTAACAGGCTGAAGATTGTAGATC
TTGTCTCCCTACAGA
Found at i:9069378 original size:14 final size:14
Alignment explanation
Indices: 9069359--9069388 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
9069349 GTCTCCCTGA
9069359 AGTTGCAGCAGAGC
1 AGTTGCAGCAGAGC
*
9069373 AGTTGCAGTAGAGC
1 AGTTGCAGCAGAGC
9069387 AG
1 AG
9069389 ATTAAGAGCT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.30, C:0.17, G:0.37, T:0.17
Consensus pattern (14 bp):
AGTTGCAGCAGAGC
Found at i:9072185 original size:131 final size:130
Alignment explanation
Indices: 9071943--9072202 Score: 301
Period size: 131 Copynumber: 2.0 Consensus size: 130
9071933 TAATTATTCA
* * * * *
9071943 TTTAAAAATTCTTTAAAACGAAGGAAATACTCGGTGTTTGGCAATTCGGGAATCATGCCCTATTG
1 TTTAAAAATTCCTCAAAACGAAGGAAATACTCGATGTTTGACAATTCGGGAATCATGCCCTATCG
** * * *
9072008 TGCTGGGTTGCAATTTCTCGTTTTTTCAAAATAATCGAATATTCCTTTGGAATTTCATTCATGTC
66 TGCTGGGTTGCAATCCCTCGTTTGTTCAAAATAATCGAATATTCCTTTAGAATTTCACTCATGTC
* * ** *
9072073 TTTAAAAATTCCTCAAAACGAGGGTAATGTTCGATGTTTGACAATTCGGGAAATCGTGCCCTATC
1 TTTAAAAATTCCTCAAAACGAAGGAAATACTCGATGTTTGACAATTCGGG-AATCATGCCCTATC
** *
9072138 GTG-TCGGGTTGTGATCCC-CTGTTTGTTCAAAGA-AATCGAATATTCCTTTAGATTTTCACTCA
65 GTGCT-GGGTTGCAATCCCTC-GTTTGTTCAAA-ATAATCGAATATTCCTTTAGAATTTCACTCA
9072200 TGT
127 TGT
9072203 TCTCTAAATT
Statistics
Matches: 108, Mismatches: 18, Indels: 7
0.81 0.14 0.05
Matches are distributed among these distances:
130 44 0.41
131 63 0.58
132 1 0.01
ACGTcount: A:0.27, C:0.17, G:0.19, T:0.37
Consensus pattern (130 bp):
TTTAAAAATTCCTCAAAACGAAGGAAATACTCGATGTTTGACAATTCGGGAATCATGCCCTATCG
TGCTGGGTTGCAATCCCTCGTTTGTTCAAAATAATCGAATATTCCTTTAGAATTTCACTCATGTC
Found at i:9076938 original size:40 final size:43
Alignment explanation
Indices: 9076807--9076967 Score: 116
Period size: 44 Copynumber: 3.6 Consensus size: 43
9076797 TACCTAAGAA
* *
9076807 ATAT-ATATAATAGATAATAATAATATGAAATAATATATGGTTAAAAT
1 ATATAATATAATA-AT-ATAAAAATAT-ATA-AATATAT-GTTAAAAT
* *
9076854 GTAAAATATAATAATATAAAAATATATAAATATTATGTGATAAAA-
1 ATATAATATAATAATATAAAAATATATAAATA-TATGT--TAAAAT
*
9076899 ATATAATATAATAA-ATAAAAAGTA-AT-GATATATGTTAAAATAT
1 ATATAATATAATAATATAAAAA-TATATAAATATATGTT-AAA-AT
* *
9076942 ATATTAATATGATAATAGAAAAATAT
1 ATA-TAATATAATAATATAAAAATAT
9076968 GAAGTAATAA
Statistics
Matches: 94, Mismatches: 9, Indels: 24
0.74 0.07 0.19
Matches are distributed among these distances:
40 1 0.01
41 3 0.03
42 6 0.06
43 6 0.06
44 27 0.29
45 25 0.27
46 14 0.15
47 4 0.04
48 8 0.09
ACGTcount: A:0.58, C:0.00, G:0.07, T:0.35
Consensus pattern (43 bp):
ATATAATATAATAATATAAAAATATATAAATATATGTTAAAAT
Found at i:9076999 original size:23 final size:20
Alignment explanation
Indices: 9076961--9077012 Score: 68
Period size: 23 Copynumber: 2.4 Consensus size: 20
9076951 TGATAATAGA
9076961 AAAATATGAAGTAATAATATAAT
1 AAAATAT-AAGTAATAAT-T-AT
9076984 AAAATATAAGTAAATAATTAT
1 AAAATATAAGT-AATAATTAT
9077005 AAAATATA
1 AAAATATA
9077013 TATAATACGT
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
21 10 0.36
22 5 0.18
23 13 0.46
ACGTcount: A:0.63, C:0.00, G:0.06, T:0.31
Consensus pattern (20 bp):
AAAATATAAGTAATAATTAT
Found at i:9077013 original size:23 final size:20
Alignment explanation
Indices: 9076953--9077014 Score: 61
Period size: 23 Copynumber: 2.8 Consensus size: 20
9076943 TATTAATATG
*
9076953 ATAATAGAAAAATATGAAGTA
1 ATAATATAAAAATAT-AAGTA
9076974 ATAATATAATAAAATATAAGTAA
1 ATAATAT-A-AAAATATAAGT-A
9076997 ATAATTATAAAATATATA
1 ATAA-TATAAAA-ATATA
9077015 TAATACGTAT
Statistics
Matches: 35, Mismatches: 1, Indels: 8
0.80 0.02 0.18
Matches are distributed among these distances:
21 6 0.17
22 8 0.23
23 18 0.51
24 3 0.09
ACGTcount: A:0.63, C:0.00, G:0.06, T:0.31
Consensus pattern (20 bp):
ATAATATAAAAATATAAGTA
Found at i:9078094 original size:14 final size:15
Alignment explanation
Indices: 9078067--9078097 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
9078057 AATGGTTTAA
9078067 TTCTTTTTTCTTTTG
1 TTCTTTTTTCTTTTG
9078082 TTCTTTTTT-TTTTG
1 TTCTTTTTTCTTTTG
9078096 TT
1 TT
9078098 TATACAAATC
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 7 0.44
15 9 0.56
ACGTcount: A:0.00, C:0.10, G:0.06, T:0.84
Consensus pattern (15 bp):
TTCTTTTTTCTTTTG
Found at i:9081543 original size:17 final size:17
Alignment explanation
Indices: 9081523--9081662 Score: 131
Period size: 17 Copynumber: 8.3 Consensus size: 17
9081513 CCATACATTG
* *
9081523 ACACAGCTCACATATAA
1 ACACAGTTCGCATATAA
* *
9081540 ACACAATTTGCATATAA
1 ACACAGTTCGCATATAA
9081557 ACACAGTTCGCATATAA
1 ACACAGTTCGCATATAA
* *
9081574 ACATAGTTTGCATATAA
1 ACACAGTTCGCATATAA
* *
9081591 ACACAATTCACATATAA
1 ACACAGTTCGCATATAA
* * *
9081608 ACATACTTTGCATAT-A
1 ACACAGTTCGCATATAA
* *
9081624 ACTCATTTCGCATATACA
1 ACACAGTTCGCATATA-A
*
9081642 A-ACAGTTCACATATAA
1 ACACAGTTCGCATATAA
9081658 ACACA
1 ACACA
9081663 ACTCACACAT
Statistics
Matches: 97, Mismatches: 23, Indels: 6
0.77 0.18 0.05
Matches are distributed among these distances:
16 14 0.14
17 81 0.84
18 2 0.02
ACGTcount: A:0.44, C:0.22, G:0.06, T:0.27
Consensus pattern (17 bp):
ACACAGTTCGCATATAA
Found at i:9081571 original size:34 final size:34
Alignment explanation
Indices: 9081523--9081662 Score: 149
Period size: 34 Copynumber: 4.1 Consensus size: 34
9081513 CCATACATTG
* *
9081523 ACACAGCTCACATATAAACACAATTTGCATATAA
1 ACACAGTTCACATATAAACACAGTTTGCATATAA
* *
9081557 ACACAGTTCGCATATAAACATAGTTTGCATATAA
1 ACACAGTTCACATATAAACACAGTTTGCATATAA
* * *
9081591 ACACAATTCACATATAAACATACTTTGCATAT-A
1 ACACAGTTCACATATAAACACAGTTTGCATATAA
* * * **
9081624 ACTCATTTCGCATATACAA-ACAGTTCACATATAA
1 ACACAGTTCACATATA-AACACAGTTTGCATATAA
9081658 ACACA
1 ACACA
9081663 ACTCACACAT
Statistics
Matches: 89, Mismatches: 15, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
33 23 0.26
34 66 0.74
ACGTcount: A:0.44, C:0.22, G:0.06, T:0.27
Consensus pattern (34 bp):
ACACAGTTCACATATAAACACAGTTTGCATATAA
Found at i:9081609 original size:51 final size:50
Alignment explanation
Indices: 9081533--9081662 Score: 149
Period size: 51 Copynumber: 2.6 Consensus size: 50
9081523 ACACAGCTCA
** *
9081533 CATATAAACACAATTTGCATATAAACACAGTTCGCATATAAACAT-AGTTT-G
1 CATATAAACACAATTCACATATAAACACACTTCGCATAT-AAC-TCA-TTTCG
* *
9081584 CATATAAACACAATTCACATATAAACATACTTTGCATATAACTCATTTCG
1 CATATAAACACAATTCACATATAAACACACTTCGCATATAACTCATTTCG
*
9081634 CATATACAA-ACAGTTCACATATAAACACA
1 CATATA-AACACAATTCACATATAAACACA
9081663 ACTCACACAT
Statistics
Matches: 69, Mismatches: 7, Indels: 7
0.83 0.08 0.08
Matches are distributed among these distances:
49 4 0.06
50 29 0.42
51 36 0.52
ACGTcount: A:0.45, C:0.21, G:0.06, T:0.28
Consensus pattern (50 bp):
CATATAAACACAATTCACATATAAACACACTTCGCATATAACTCATTTCG
Found at i:9081831 original size:24 final size:24
Alignment explanation
Indices: 9081793--9081860 Score: 82
Period size: 24 Copynumber: 2.8 Consensus size: 24
9081783 CACGCAGAAA
* *
9081793 AATACAGTGATAGTTCACATATGT
1 AATACAATGACAGTTCACATATGT
* * *
9081817 AATACATTGACAGTTCACACATTT
1 AATACAATGACAGTTCACATATGT
*
9081841 AATACAATGACAGGTCACAT
1 AATACAATGACAGTTCACAT
9081861 GACGGTTCAC
Statistics
Matches: 37, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
24 37 1.00
ACGTcount: A:0.40, C:0.18, G:0.13, T:0.29
Consensus pattern (24 bp):
AATACAATGACAGTTCACATATGT
Found at i:9086461 original size:17 final size:16
Alignment explanation
Indices: 9086430--9086459 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
9086420 ACTTTCATTT
9086430 CTTTTCTTCTTTTTTC
1 CTTTTCTTCTTTTTTC
9086446 CTTTTCTT-TTTTTT
1 CTTTTCTTCTTTTTT
9086460 TTAAATGCTT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 6 0.43
16 8 0.57
ACGTcount: A:0.00, C:0.20, G:0.00, T:0.80
Consensus pattern (16 bp):
CTTTTCTTCTTTTTTC
Found at i:9087752 original size:20 final size:20
Alignment explanation
Indices: 9087727--9087766 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
9087717 CGTAAAATGA
*
9087727 TTTCTGGAAAATGCTTTACT
1 TTTCTGGAAAATGATTTACT
*
9087747 TTTCTGTAAAATGATTTACT
1 TTTCTGGAAAATGATTTACT
9087767 GAAAAATATT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.28, C:0.12, G:0.12, T:0.47
Consensus pattern (20 bp):
TTTCTGGAAAATGATTTACT
Found at i:9088219 original size:13 final size:13
Alignment explanation
Indices: 9088201--9088228 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
9088191 ATTCTTTCTC
9088201 TATTTATGAAGTT
1 TATTTATGAAGTT
9088214 TATTTATGAAGTT
1 TATTTATGAAGTT
9088227 TA
1 TA
9088229 CTTGTACAAG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.32, C:0.00, G:0.14, T:0.54
Consensus pattern (13 bp):
TATTTATGAAGTT
Found at i:9089625 original size:12 final size:12
Alignment explanation
Indices: 9089608--9089633 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
9089598 TTTTCCAGAA
9089608 AACATTATATCG
1 AACATTATATCG
9089620 AACATTATATCG
1 AACATTATATCG
9089632 AA
1 AA
9089634 TACACAAACG
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:0.08, T:0.31
Consensus pattern (12 bp):
AACATTATATCG
Found at i:9090362 original size:18 final size:18
Alignment explanation
Indices: 9090339--9090396 Score: 62
Period size: 18 Copynumber: 3.2 Consensus size: 18
9090329 ATTTGAAGGA
9090339 ATGAAGGGAGAAGAATGG
1 ATGAAGGGAGAAGAATGG
* *** *
9090357 ATGAAGGAAGCTTACTGG
1 ATGAAGGGAGAAGAATGG
*
9090375 ATGAAGGGAGAAGAATGC
1 ATGAAGGGAGAAGAATGG
9090393 ATGA
1 ATGA
9090397 GAGCTTTAGG
Statistics
Matches: 29, Mismatches: 11, Indels: 0
0.73 0.28 0.00
Matches are distributed among these distances:
18 29 1.00
ACGTcount: A:0.41, C:0.05, G:0.38, T:0.16
Consensus pattern (18 bp):
ATGAAGGGAGAAGAATGG
Found at i:9094288 original size:20 final size:20
Alignment explanation
Indices: 9094263--9094302 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
9094253 AATATTTTCC
*
9094263 AGTAAATCATTTTACAGAAA
1 AGTAAAACATTTTACAGAAA
*
9094283 AGTAAAACATTTTCCAGAAA
1 AGTAAAACATTTTACAGAAA
9094303 TCATTTTACG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.50, C:0.12, G:0.10, T:0.28
Consensus pattern (20 bp):
AGTAAAACATTTTACAGAAA
Found at i:9094308 original size:34 final size:35
Alignment explanation
Indices: 9094251--9094317 Score: 109
Period size: 34 Copynumber: 1.9 Consensus size: 35
9094241 CAAACACCAA
*
9094251 AAAATATTTTCCAGTAAATCATTTTACAGAAAAGT
1 AAAACATTTTCCAGTAAATCATTTTACAGAAAAGT
*
9094286 AAAACATTTTCCAG-AAATCATTTTACGGAAAA
1 AAAACATTTTCCAGTAAATCATTTTACAGAAAA
9094318 TATTTTACTG
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
34 17 0.57
35 13 0.43
ACGTcount: A:0.46, C:0.13, G:0.09, T:0.31
Consensus pattern (35 bp):
AAAACATTTTCCAGTAAATCATTTTACAGAAAAGT
Found at i:9095328 original size:30 final size:30
Alignment explanation
Indices: 9095293--9095352 Score: 102
Period size: 30 Copynumber: 2.0 Consensus size: 30
9095283 TAAAAGTAAT
*
9095293 AAGAATGACAAGAATAAAATAAAGGAATTA
1 AAGAATAACAAGAATAAAATAAAGGAATTA
*
9095323 AAGAATAACGAGAATAAAATAAAGGAATTA
1 AAGAATAACAAGAATAAAATAAAGGAATTA
9095353 GCGAAACAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.63, C:0.03, G:0.17, T:0.17
Consensus pattern (30 bp):
AAGAATAACAAGAATAAAATAAAGGAATTA
Found at i:9095671 original size:3 final size:3
Alignment explanation
Indices: 9095665--9095720 Score: 76
Period size: 3 Copynumber: 18.7 Consensus size: 3
9095655 AAGGGAAAAT
* * * *
9095665 ATA ATA ATA GTA ATG ATA ATA ATA ATA ATA ATA ATA ACA ATA GTA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
9095713 ATA ATA AT
1 ATA ATA AT
9095721 GTTAATTAAT
Statistics
Matches: 45, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
3 45 1.00
ACGTcount: A:0.61, C:0.02, G:0.05, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:9110838 original size:58 final size:58
Alignment explanation
Indices: 9110748--9110863 Score: 214
Period size: 58 Copynumber: 2.0 Consensus size: 58
9110738 TGCGTGAAGA
* *
9110748 ATTAGAAAGTGTCTTTCACCATGAATAGCTCATTTTGAAACAAAAGGCGAGATGTGAT
1 ATTAGAAACTGTCTTTCACCATGAATAGCTCATTTGGAAACAAAAGGCGAGATGTGAT
9110806 ATTAGAAACTGTCTTTCACCATGAATAGCTCATTTGGAAACAAAAGGCGAGATGTGAT
1 ATTAGAAACTGTCTTTCACCATGAATAGCTCATTTGGAAACAAAAGGCGAGATGTGAT
9110864 TGGTTGCATT
Statistics
Matches: 56, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
58 56 1.00
ACGTcount: A:0.36, C:0.15, G:0.21, T:0.28
Consensus pattern (58 bp):
ATTAGAAACTGTCTTTCACCATGAATAGCTCATTTGGAAACAAAAGGCGAGATGTGAT
Found at i:9118804 original size:6 final size:6
Alignment explanation
Indices: 9118793--9118843 Score: 50
Period size: 6 Copynumber: 8.5 Consensus size: 6
9118783 TTTTGAAGAC
* * * *
9118793 TTTTAT TTTTAT TTTTAT CTTTAT TTATCT TTTTA- ATTTACT TTTTAT
1 TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TTTTA-T TTTTAT
9118841 TTT
1 TTT
9118844 AATTCTCTTT
Statistics
Matches: 35, Mismatches: 8, Indels: 4
0.74 0.17 0.09
Matches are distributed among these distances:
5 4 0.11
6 27 0.77
7 4 0.11
ACGTcount: A:0.18, C:0.06, G:0.00, T:0.76
Consensus pattern (6 bp):
TTTTAT
Found at i:9118817 original size:18 final size:17
Alignment explanation
Indices: 9118794--9118847 Score: 56
Period size: 18 Copynumber: 3.1 Consensus size: 17
9118784 TTTGAAGACT
*
9118794 TTTATTTTTATTTTTATC
1 TTTATTTTTATTTTTA-A
* *
9118812 TTTATTTATCTTTTTAA
1 TTTATTTTTATTTTTAA
9118829 TTTACTTTTTA-TTTTAA
1 TTTA-TTTTTATTTTTAA
9118846 TT
1 TT
9118848 CTCTTTAAGA
Statistics
Matches: 30, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
17 12 0.40
18 18 0.60
ACGTcount: A:0.20, C:0.06, G:0.00, T:0.74
Consensus pattern (17 bp):
TTTATTTTTATTTTTAA
Found at i:9125357 original size:12 final size:13
Alignment explanation
Indices: 9125340--9125368 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
9125330 TGTTTAATTA
9125340 TATTA-GGATAAT
1 TATTAGGGATAAT
9125352 TATTAGGGATAAT
1 TATTAGGGATAAT
9125365 TATT
1 TATT
9125369 TAGATTTAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 5 0.31
13 11 0.69
ACGTcount: A:0.38, C:0.00, G:0.17, T:0.45
Consensus pattern (13 bp):
TATTAGGGATAAT
Found at i:9130596 original size:5 final size:5
Alignment explanation
Indices: 9130582--9130635 Score: 65
Period size: 5 Copynumber: 10.4 Consensus size: 5
9130572 ACAACCCAAT
9130582 TTTTA TTTTTA TTTTTA TTTTA TTTTA TTTTA TTTT- TATTTA TTTTA
1 TTTTA -TTTTA -TTTTA TTTTA TTTTA TTTTA TTTTA T-TTTA TTTTA
*
9130629 TCTTA TT
1 TTTTA TT
9130636 ATTTATTATT
Statistics
Matches: 44, Mismatches: 2, Indels: 5
0.86 0.04 0.10
Matches are distributed among these distances:
4 1 0.02
5 31 0.70
6 12 0.27
ACGTcount: A:0.19, C:0.02, G:0.00, T:0.80
Consensus pattern (5 bp):
TTTTA
Found at i:9130623 original size:20 final size:20
Alignment explanation
Indices: 9130582--9130647 Score: 89
Period size: 20 Copynumber: 3.2 Consensus size: 20
9130572 ACAACCCAAT
9130582 TTTTATTTTTATTTTTATTTTA
1 TTTTA-TTTTATTTTTA-TTTA
9130604 TTTTATTTTATTTTTATTTA
1 TTTTATTTTATTTTTATTTA
*
9130624 TTTTATCTTATTATTTA-TTA
1 TTTTATTTTATT-TTTATTTA
9130644 TTTT
1 TTTT
9130648 CAGATATTAA
Statistics
Matches: 42, Mismatches: 1, Indels: 4
0.89 0.02 0.09
Matches are distributed among these distances:
20 22 0.52
21 15 0.36
22 5 0.12
ACGTcount: A:0.20, C:0.02, G:0.00, T:0.79
Consensus pattern (20 bp):
TTTTATTTTATTTTTATTTA
Found at i:9131652 original size:96 final size:93
Alignment explanation
Indices: 9131456--9131642 Score: 207
Period size: 96 Copynumber: 2.0 Consensus size: 93
9131446 TGTTGGGCTG
* *
9131456 AGTAACCGAGGTGAGGTGCTTGGCTATCATCTCTCTTCGCGTCAAAAGGTTCGATATGTTCTTAG
1 AGTAACCGAGGTGAGGTGCTTGGCTATCATCTCTCTTCGCGTCAAAAGGTTCAATATGTTCTTAA
* ** *
9131521 GAAAAATAAAAATTAGGAATGTGTTGGGCTG
66 GAAAAATAAAAAATA-GAA--TGTTGAACTA
* * * * *
9131552 AGTAACCGGGGTGGGGTGCTTGGTTGTCATCTCTCTTCGCGTCAAAAGGTTCAATATTTTCCTTA
1 AGTAACCGAGGTGAGGTGCTTGGCTATCATCTCTCTTCGCGTCAAAAGGTTCAATATGTT-CTTA
9131617 AGAAAAAGTAAATAAATA-AA-GTTGAA
65 AGAAAAA-TAAA-AAATAGAATGTTGAA
9131643 ATTAAAGTAA
Statistics
Matches: 78, Mismatches: 10, Indels: 8
0.81 0.10 0.08
Matches are distributed among these distances:
94 4 0.05
96 54 0.69
97 12 0.15
98 4 0.05
99 4 0.05
ACGTcount: A:0.30, C:0.14, G:0.25, T:0.30
Consensus pattern (93 bp):
AGTAACCGAGGTGAGGTGCTTGGCTATCATCTCTCTTCGCGTCAAAAGGTTCAATATGTTCTTAA
GAAAAATAAAAAATAGAATGTTGAACTA
Found at i:9132276 original size:12 final size:13
Alignment explanation
Indices: 9132259--9132287 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
9132249 TGTTTAATTA
9132259 TATTA-GGATAAT
1 TATTAGGGATAAT
9132271 TATTAGGGATAAT
1 TATTAGGGATAAT
9132284 TATT
1 TATT
9132288 TAGATTTAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 5 0.31
13 11 0.69
ACGTcount: A:0.38, C:0.00, G:0.17, T:0.45
Consensus pattern (13 bp):
TATTAGGGATAAT
Found at i:9133094 original size:17 final size:18
Alignment explanation
Indices: 9133063--9133096 Score: 61
Period size: 17 Copynumber: 1.9 Consensus size: 18
9133053 TATTCCTCTT
9133063 TTTAATTTATGCAATTTA
1 TTTAATTTATGCAATTTA
9133081 TTTAATTT-TGCAATTT
1 TTTAATTTATGCAATTT
9133097 CAAGTCACTT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 8 0.50
18 8 0.50
ACGTcount: A:0.29, C:0.06, G:0.06, T:0.59
Consensus pattern (18 bp):
TTTAATTTATGCAATTTA
Found at i:9136253 original size:90 final size:89
Alignment explanation
Indices: 9136102--9136326 Score: 276
Period size: 90 Copynumber: 2.5 Consensus size: 89
9136092 ATTTTTTAAT
* * **
9136102 AAAAA-CAAGGGCTTAATTGCTTTTGTTCTTTAAAAAGTTTGAGGGTGTTTTTGATGTATTTTGA
1 AAAAAGCATGGGCTTAATTGC--TT-TT-TTTGAAAAGTTTGAGGGCCTTTTTGATGTATTTTGA
* * *
9136166 AAGTTCAAGTACTCAATTGAGTGTAAAAA
62 AACTTCAAGTACCCAAATGAGTG-AAAAA
9136195 AAAAAGCATGGGCTTAATTGCTTTTTTTGAAAAGGTTTGAGGGCCTTTTT-ATGTATTTTGAAAC
1 AAAAAGCATGGGCTTAATTGCTTTTTTTGAAAA-GTTTGAGGGCCTTTTTGATGTATTTTGAAAC
9136259 TTCAAGTACCCAAATGAGTGAAAAA
65 TTCAAGTACCCAAATGAGTGAAAAA
* *
9136284 AAAAAGCAAT-GGCTTAATTACTCTTTTTGTAAAAGTTTGAGGG
1 AAAAAGC-ATGGGCTTAATTGCTTTTTTTG-AAAAGTTTGAGGG
9136327 TTTTTTGCAC
Statistics
Matches: 119, Mismatches: 9, Indels: 12
0.85 0.06 0.09
Matches are distributed among these distances:
89 38 0.32
90 44 0.37
91 16 0.13
92 2 0.02
93 5 0.04
94 14 0.12
ACGTcount: A:0.34, C:0.09, G:0.20, T:0.36
Consensus pattern (89 bp):
AAAAAGCATGGGCTTAATTGCTTTTTTTGAAAAGTTTGAGGGCCTTTTTGATGTATTTTGAAACT
TCAAGTACCCAAATGAGTGAAAAA
Found at i:9142553 original size:38 final size:38
Alignment explanation
Indices: 9142502--9142576 Score: 150
Period size: 38 Copynumber: 2.0 Consensus size: 38
9142492 TTTTAATGAT
9142502 TATTTTTCGTGTATGTCTATATATAGCAACAAACATAA
1 TATTTTTCGTGTATGTCTATATATAGCAACAAACATAA
9142540 TATTTTTCGTGTATGTCTATATATAGCAACAAACATA
1 TATTTTTCGTGTATGTCTATATATAGCAACAAACATA
9142577 TTAGAAATAA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 37 1.00
ACGTcount: A:0.36, C:0.13, G:0.11, T:0.40
Consensus pattern (38 bp):
TATTTTTCGTGTATGTCTATATATAGCAACAAACATAA
Found at i:9150857 original size:12 final size:12
Alignment explanation
Indices: 9150840--9150888 Score: 53
Period size: 13 Copynumber: 3.9 Consensus size: 12
9150830 CTTGTTGATA
9150840 TATTATTTTTTT
1 TATTATTTTTTT
**
9150852 TATTATTTAATT
1 TATTATTTTTTT
9150864 TATTTATTTTTTAT
1 TA-TTATTTTTT-T
*
9150878 TATAATTTTTT
1 TATTATTTTTT
9150889 GGTTATTGCA
Statistics
Matches: 30, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
12 12 0.40
13 15 0.50
14 3 0.10
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (12 bp):
TATTATTTTTTT
Found at i:9150868 original size:21 final size:21
Alignment explanation
Indices: 9150842--9150885 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
9150832 TGTTGATATA
*
9150842 TTATTTTTTTTATTATT-TAAT
1 TTATTTATTTT-TTATTATAAT
9150863 TTATTTATTTTTTATTATAAT
1 TTATTTATTTTTTATTATAAT
9150884 TT
1 TT
9150886 TTTGGTTATT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 5 0.24
21 16 0.76
ACGTcount: A:0.25, C:0.00, G:0.00, T:0.75
Consensus pattern (21 bp):
TTATTTATTTTTTATTATAAT
Found at i:9157889 original size:42 final size:42
Alignment explanation
Indices: 9157833--9157926 Score: 152
Period size: 42 Copynumber: 2.2 Consensus size: 42
9157823 TTCGAAAGTT
* * *
9157833 ACACGGCCTAAGACACGGGCGTGTGTCTCAATCGTGTGAGGC
1 ACACGGCCTGAGACACGGGCGTGTGTCTCAATCATGTGAAGC
*
9157875 ACACAGCCTGAGACACGGGCGTGTGTCTCAATCATGTGAAGC
1 ACACGGCCTGAGACACGGGCGTGTGTCTCAATCATGTGAAGC
9157917 ACACGGCCTG
1 ACACGGCCTG
9157927 GCCACATGAC
Statistics
Matches: 47, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
42 47 1.00
ACGTcount: A:0.23, C:0.28, G:0.31, T:0.18
Consensus pattern (42 bp):
ACACGGCCTGAGACACGGGCGTGTGTCTCAATCATGTGAAGC
Found at i:9158576 original size:23 final size:23
Alignment explanation
Indices: 9158520--9158565 Score: 92
Period size: 23 Copynumber: 2.0 Consensus size: 23
9158510 CATATATAGA
9158520 GAGGTCTTTTGATTGTTTTTTGG
1 GAGGTCTTTTGATTGTTTTTTGG
9158543 GAGGTCTTTTGATTGTTTTTTGG
1 GAGGTCTTTTGATTGTTTTTTGG
9158566 ACTTTGTTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.09, C:0.04, G:0.30, T:0.57
Consensus pattern (23 bp):
GAGGTCTTTTGATTGTTTTTTGG
Found at i:9165386 original size:22 final size:22
Alignment explanation
Indices: 9165359--9165432 Score: 71
Period size: 22 Copynumber: 3.4 Consensus size: 22
9165349 ACCACACAAG
*
9165359 AGAGCACCATAGTGCTAAGCAA
1 AGAGCACCAAAGTGCTAAGCAA
* * *
9165381 AGAGCATCAAAATGTTGAA-CAA
1 AGAGCACCAAAGTGCT-AAGCAA
*
9165403 AAAGCACCAAAGTGCTAAG-AA
1 AGAGCACCAAAGTGCTAAGCAA
9165424 GAGAGCACC
1 -AGAGCACC
9165433 GATATGTTGA
Statistics
Matches: 40, Mismatches: 9, Indels: 6
0.73 0.16 0.11
Matches are distributed among these distances:
21 4 0.10
22 34 0.85
23 2 0.05
ACGTcount: A:0.46, C:0.20, G:0.22, T:0.12
Consensus pattern (22 bp):
AGAGCACCAAAGTGCTAAGCAA
Found at i:9165429 original size:44 final size:44
Alignment explanation
Indices: 9165361--9165445 Score: 118
Period size: 44 Copynumber: 1.9 Consensus size: 44
9165351 CACACAAGAG
* *
9165361 AGCACCATAGTGCTAAGCAAAGAGCATCAAAATGTTGAACAAAA
1 AGCACCAAAGTGCTAAGCAAAGAGCACCAAAATGTTGAACAAAA
* *
9165405 AGCACCAAAGTGCTAAG-AAGAGAGCACCGATATGTTGAACA
1 AGCACCAAAGTGCTAAGCAA-AGAGCACCAAAATGTTGAACA
9165446 GGGAGCACTA
Statistics
Matches: 36, Mismatches: 4, Indels: 2
0.86 0.10 0.05
Matches are distributed among these distances:
43 2 0.06
44 34 0.94
ACGTcount: A:0.45, C:0.19, G:0.21, T:0.15
Consensus pattern (44 bp):
AGCACCAAAGTGCTAAGCAAAGAGCACCAAAATGTTGAACAAAA
Found at i:9165453 original size:44 final size:44
Alignment explanation
Indices: 9165354--9165460 Score: 117
Period size: 44 Copynumber: 2.4 Consensus size: 44
9165344 ACTACACCAC
* *
9165354 ACAAGAGAGCACCATAGTGCTAAGCAAAGAGCATCAAAATGTTGA
1 ACAA-AGAGCACCAAAGTGCTAAGCAAAGAGCACCAAAATGTTGA
* * *
9165399 ACAAAAAGCACCAAAGTGCTAAG-AAGAGAGCACCGATATGTTGA
1 ACAAAGAGCACCAAAGTGCTAAGCAA-AGAGCACCAAAATGTTGA
** *
9165443 ACAGGGAGCACTAAAGTG
1 ACAAAGAGCACCAAAGTG
9165461 GTAAACAATT
Statistics
Matches: 52, Mismatches: 9, Indels: 3
0.81 0.14 0.05
Matches are distributed among these distances:
43 2 0.04
44 46 0.88
45 4 0.08
ACGTcount: A:0.44, C:0.18, G:0.24, T:0.14
Consensus pattern (44 bp):
ACAAAGAGCACCAAAGTGCTAAGCAAAGAGCACCAAAATGTTGA
Found at i:9166272 original size:120 final size:121
Alignment explanation
Indices: 9166124--9166356 Score: 378
Period size: 120 Copynumber: 1.9 Consensus size: 121
9166114 CCTATGTTCA
* * *
9166124 AAACTAACAAATTTTTCTTTACAAACTAGTCCTTTTTCATATCTAAGCTTAAAATTTAACAATTT
1 AAACTAACAAATTTTACTTTACAAACTAGTCATTTTTCATATCTAAGCTTAAAATCTAACAATTT
9166189 AGTACCAAAA-ATTCAAGATTCAACAATGGAAACATTTGAAAACTTTAATATTTTT
66 AGTACCAAAAGATTCAAGATTCAACAATGGAAACATTTGAAAACTTTAATATTTTT
*
9166244 AAACTACCAAATTTTACTTTACAAACTAGTCATTTTTCATATCTAAGCTTAAAATCTAACAATTT
1 AAACTAACAAATTTTACTTTACAAACTAGTCATTTTTCATATCTAAGCTTAAAATCTAACAATTT
* * * * *
9166309 AGTACCAAAAGTTTCAAGTTTCAATAATGGCAACATTTGAAAATTTTA
66 AGTACCAAAAGATTCAAGATTCAACAATGGAAACATTTGAAAACTTTA
9166357 CAGTTTTGAA
Statistics
Matches: 103, Mismatches: 9, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
120 71 0.69
121 32 0.31
ACGTcount: A:0.41, C:0.15, G:0.06, T:0.37
Consensus pattern (121 bp):
AAACTAACAAATTTTACTTTACAAACTAGTCATTTTTCATATCTAAGCTTAAAATCTAACAATTT
AGTACCAAAAGATTCAAGATTCAACAATGGAAACATTTGAAAACTTTAATATTTTT
Found at i:9166985 original size:9 final size:9
Alignment explanation
Indices: 9166967--9167070 Score: 61
Period size: 9 Copynumber: 11.1 Consensus size: 9
9166957 AAAGAATTTC
9166967 ATAA-TTTT
1 ATAATTTTT
9166975 ATAATTTTT
1 ATAATTTTT
9166984 ATAACTTTTT
1 ATAA-TTTTT
9166994 A-ATATTTTT
1 ATA-ATTTTT
*
9167003 ATAATATTTC
1 ATAAT-TTTT
9167013 AT-ATTTTT
1 ATAATTTTT
9167021 CATAATATATTT
1 -ATAAT-T-TTT
* *
9167033 CTAATATTTA
1 ATAAT-TTTT
*
9167043 ATAATATTT
1 ATAATTTTT
*
9167052 ATAATATTT
1 ATAATTTTT
* *
9167061 CTTATTTTT
1 ATAATTTTT
9167070 A
1 A
9167071 ATAGATTTAA
Statistics
Matches: 76, Mismatches: 11, Indels: 17
0.73 0.11 0.16
Matches are distributed among these distances:
8 7 0.09
9 38 0.50
10 21 0.28
11 7 0.09
12 3 0.04
ACGTcount: A:0.36, C:0.05, G:0.00, T:0.60
Consensus pattern (9 bp):
ATAATTTTT
Found at i:9167033 original size:21 final size:18
Alignment explanation
Indices: 9166978--9167028 Score: 66
Period size: 19 Copynumber: 2.7 Consensus size: 18
9166968 TAATTTTATA
* *
9166978 ATTTTTATAACTTTTTAAT
1 ATTTTTATAA-TATTTCAT
9166997 ATTTTTATAATATTTCAT
1 ATTTTTATAATATTTCAT
9167015 ATTTTTCATAATAT
1 ATTTTT-ATAATAT
9167029 ATTTCTAATA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
18 12 0.41
19 17 0.59
ACGTcount: A:0.33, C:0.06, G:0.00, T:0.61
Consensus pattern (18 bp):
ATTTTTATAATATTTCAT
Found at i:9167038 original size:30 final size:30
Alignment explanation
Indices: 9166972--9167058 Score: 83
Period size: 30 Copynumber: 3.0 Consensus size: 30
9166962 ATTTCATAAT
* *
9166972 TTTATAAT-TTTTATAACT-TTT-TAATATT
1 TTTATAATATTTAATAA-TATTTATAATATA
* *
9167000 TTTATAATATTTCAT-ATTTTTCATAATATA
1 TTTATAATATTTAATAATATTT-ATAATATA
*
9167030 TTTCTAATATTTAATAATATTTATAATAT
1 TTTATAATATTTAATAATATTTATAATAT
9167059 TTCTTATTTT
Statistics
Matches: 49, Mismatches: 5, Indels: 8
0.79 0.08 0.13
Matches are distributed among these distances:
27 1 0.02
28 12 0.24
29 5 0.10
30 26 0.53
31 5 0.10
ACGTcount: A:0.37, C:0.05, G:0.00, T:0.59
Consensus pattern (30 bp):
TTTATAATATTTAATAATATTTATAATATA
Found at i:9167051 original size:19 final size:18
Alignment explanation
Indices: 9167023--9167060 Score: 58
Period size: 19 Copynumber: 2.1 Consensus size: 18
9167013 ATATTTTTCA
*
9167023 TAATATATTTCTAATATT
1 TAATATATTTATAATATT
9167041 TAATAATATTTATAATATT
1 TAAT-ATATTTATAATATT
9167060 T
1 T
9167061 CTTATTTTTA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 4 0.22
19 14 0.78
ACGTcount: A:0.42, C:0.03, G:0.00, T:0.55
Consensus pattern (18 bp):
TAATATATTTATAATATT
Found at i:9167056 original size:49 final size:46
Alignment explanation
Indices: 9166962--9167070 Score: 130
Period size: 49 Copynumber: 2.3 Consensus size: 46
9166952 TAACAAAAGA
* * *
9166962 ATTTCATAATTTTATAATTTTTATAACTTTTTAATATTTTTATAAT
1 ATTTCATATTTTTATAATTTTTATAACTATTTAATATATTTATAAT
*
9167008 ATTTCATATTTTTCATAATATATTTCTAA-TATTTAATAATATTTATAAT
1 ATTTCATATTTTT-ATAAT-T-TTTATAACTATTTAAT-ATATTTATAAT
*
9167057 ATTTCTTATTTTTA
1 ATTTCATATTTTTA
9167071 ATAGATTTAA
Statistics
Matches: 54, Mismatches: 5, Indels: 6
0.83 0.08 0.09
Matches are distributed among these distances:
46 12 0.22
47 5 0.09
48 9 0.17
49 28 0.52
ACGTcount: A:0.35, C:0.06, G:0.00, T:0.60
Consensus pattern (46 bp):
ATTTCATATTTTTATAATTTTTATAACTATTTAATATATTTATAAT
Found at i:9171596 original size:30 final size:31
Alignment explanation
Indices: 9171544--9171601 Score: 73
Period size: 30 Copynumber: 1.9 Consensus size: 31
9171534 ACCGAATTAA
* **
9171544 TTGAAATATTTCGATTTGATTAA-AATTTTT
1 TTGAAAAATTTCGATTCAATTAACAATTTTT
*
9171574 TTGAAAAATTTCGGTTCAATTAACAATT
1 TTGAAAAATTTCGATTCAATTAACAATT
9171602 AAATAGTTAA
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
30 19 0.83
31 4 0.17
ACGTcount: A:0.36, C:0.07, G:0.10, T:0.47
Consensus pattern (31 bp):
TTGAAAAATTTCGATTCAATTAACAATTTTT
Found at i:9182414 original size:72 final size:72
Alignment explanation
Indices: 9182318--9182456 Score: 215
Period size: 72 Copynumber: 1.9 Consensus size: 72
9182308 GATATACAAG
* * * *
9182318 AATGATACATGGGAATTGGTTGATAAGTCAGTCCAGAAAATAATCATTAATGTAACATGGGTATT
1 AATGATACATAGGAACTGGTTGATAAGTCAGTCCAGAAAAGAATCATTAATGTAACATAGGTATT
9182383 CAGGACC
66 CAGGACC
* **
9182390 AATGATACATAGGAACTGGTTGATAGGTCAGTCCAGAAAAGAATCATTGGTGTAACATAGGTATT
1 AATGATACATAGGAACTGGTTGATAAGTCAGTCCAGAAAAGAATCATTAATGTAACATAGGTATT
9182455 CA
66 CA
9182457 ATACCAAATA
Statistics
Matches: 60, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
72 60 1.00
ACGTcount: A:0.37, C:0.12, G:0.23, T:0.27
Consensus pattern (72 bp):
AATGATACATAGGAACTGGTTGATAAGTCAGTCCAGAAAAGAATCATTAATGTAACATAGGTATT
CAGGACC
Found at i:9190559 original size:69 final size:69
Alignment explanation
Indices: 9190357--9190566 Score: 278
Period size: 69 Copynumber: 3.0 Consensus size: 69
9190347 TCATCTGTAA
* * * * * *
9190357 CCTTAATATGATAGCTGAGAGTTTTGCTCTCACTAACTGTGTTGGAGGCTGTGGCTCTTCATCTA
1 CCTTAATATGATAGCTGAGAGCTTTGCTCTCACTAACTGTGTTAGAGACTATGGCTCTTCACCTG
9190422 CGAG
66 CGAG
* **
9190426 CCTTAATATGATAGCTGAGAGCTTTGCTCTCACTAACTGTGTTAGAGCCTACAGCTCTTCACCTG
1 CCTTAATATGATAGCTGAGAGCTTTGCTCTCACTAACTGTGTTAGAGACTATGGCTCTTCACCTG
9190491 CGAG
66 CGAG
* * * *
9190495 CCTTAATATGACAGCTG-GGGACTTTGCTCTCGCTAACTGTGTTAGAGATTATGGCTCTTCACCT
1 CCTTAATATGATAGCTGAGAG-CTTTGCTCTCACTAACTGTGTTAGAGACTATGGCTCTTCACCT
*
9190559 GTGAG
65 GCGAG
9190564 CCT
1 CCT
9190567 CTTCACCTGC
Statistics
Matches: 124, Mismatches: 16, Indels: 2
0.87 0.11 0.01
Matches are distributed among these distances:
68 2 0.02
69 122 0.98
ACGTcount: A:0.21, C:0.23, G:0.23, T:0.33
Consensus pattern (69 bp):
CCTTAATATGATAGCTGAGAGCTTTGCTCTCACTAACTGTGTTAGAGACTATGGCTCTTCACCTG
CGAG
Found at i:9190581 original size:16 final size:16
Alignment explanation
Indices: 9190549--9190582 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
9190539 GAGATTATGG
**
9190549 CTCTTCACCTGTGAGC
1 CTCTTCACCTGCAAGC
9190565 CTCTTCACCTGCAAGC
1 CTCTTCACCTGCAAGC
9190581 CT
1 CT
9190583 TAATAATATC
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:0.15, C:0.41, G:0.15, T:0.29
Consensus pattern (16 bp):
CTCTTCACCTGCAAGC
Found at i:9205799 original size:29 final size:27
Alignment explanation
Indices: 9205766--9205833 Score: 82
Period size: 29 Copynumber: 2.4 Consensus size: 27
9205756 AGGAACGAAC
* * *
9205766 TATATACATAATATATTTGAAAGGACACA
1 TATATACATAATAGATTT-AAAAGA-AAA
9205795 TATATACATAAATAGATTTAAAAGAAAA
1 TATATACAT-AATAGATTTAAAAGAAAA
9205823 TATATACATAA
1 TATATACATAA
9205834 AACAACATGA
Statistics
Matches: 35, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
27 2 0.06
28 11 0.31
29 14 0.40
30 8 0.23
ACGTcount: A:0.54, C:0.07, G:0.07, T:0.31
Consensus pattern (27 bp):
TATATACATAATAGATTTAAAAGAAAA
Found at i:9205832 original size:28 final size:30
Alignment explanation
Indices: 9205766--9205834 Score: 90
Period size: 28 Copynumber: 2.4 Consensus size: 30
9205756 AGGAACGAAC
* * *
9205766 TATATACAT-AATATATTTGAAAGGACACA
1 TATATACATAAATAGATTTGAAAAGACAAA
9205795 TATATACATAAATAGATTT-AAAAGA-AAA
1 TATATACATAAATAGATTTGAAAAGACAAA
9205823 TATATACATAAA
1 TATATACATAAA
9205835 ACAACATGAA
Statistics
Matches: 36, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
28 14 0.39
29 14 0.39
30 8 0.22
ACGTcount: A:0.55, C:0.07, G:0.07, T:0.30
Consensus pattern (30 bp):
TATATACATAAATAGATTTGAAAAGACAAA
Found at i:9212130 original size:44 final size:46
Alignment explanation
Indices: 9212043--9212130 Score: 112
Period size: 44 Copynumber: 2.0 Consensus size: 46
9212033 TTTCTTTAGT
* *
9212043 TTATATATAATATAATATAATATAATTAAAACATAAAATATCTTTA
1 TTATATATAATATAATATAATATAACTAAAACATAAAAAATCTTTA
9212089 TTATATAATAATAT-A-ATAATAT-ACT-AAACATAAAAAAATCTT
1 TTATAT-ATAATATAATATAATATAACTAAAACAT-AAAAAATCTT
9212131 AGATTTTCTT
Statistics
Matches: 38, Mismatches: 2, Indels: 6
0.83 0.04 0.13
Matches are distributed among these distances:
43 6 0.16
44 11 0.29
45 7 0.18
46 7 0.18
47 7 0.18
ACGTcount: A:0.56, C:0.06, G:0.00, T:0.39
Consensus pattern (46 bp):
TTATATATAATATAATATAATATAACTAAAACATAAAAAATCTTTA
Found at i:9216707 original size:18 final size:20
Alignment explanation
Indices: 9216684--9216722 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 20
9216674 TTATGTAACC
9216684 CTTTATT-CT-TTTTAATTT
1 CTTTATTACTATTTTAATTT
9216702 CTTTATTACTCATTTTAATTT
1 CTTTATTACT-ATTTTAATTT
9216723 TTTTTTAAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
18 7 0.39
19 2 0.11
21 9 0.50
ACGTcount: A:0.21, C:0.13, G:0.00, T:0.67
Consensus pattern (20 bp):
CTTTATTACTATTTTAATTT
Found at i:9219153 original size:13 final size:13
Alignment explanation
Indices: 9219137--9219189 Score: 52
Period size: 13 Copynumber: 4.1 Consensus size: 13
9219127 TTTAAATCAT
9219137 ACTTTTCAAAAGC
1 ACTTTTCAAAAGC
* *
9219150 ACTTCTCAAAAGT
1 ACTTTTCAAAAGC
* * *
9219163 ATTTTTCTATAGC
1 ACTTTTCAAAAGC
*
9219176 ACATTTCAAAAGC
1 ACTTTTCAAAAGC
9219189 A
1 A
9219190 TTACCAAATG
Statistics
Matches: 29, Mismatches: 11, Indels: 0
0.73 0.28 0.00
Matches are distributed among these distances:
13 29 1.00
ACGTcount: A:0.38, C:0.21, G:0.08, T:0.34
Consensus pattern (13 bp):
ACTTTTCAAAAGC
Found at i:9219262 original size:33 final size:34
Alignment explanation
Indices: 9219224--9219293 Score: 133
Period size: 34 Copynumber: 2.1 Consensus size: 34
9219214 TAAAATTGCT
9219224 ATTTAAATTCTTAAA-TTTTTTTAAAAATTTTAA
1 ATTTAAATTCTTAAATTTTTTTTAAAAATTTTAA
9219257 ATTTAAATTCTTAAATTTTTTTTAAAAATTTTAA
1 ATTTAAATTCTTAAATTTTTTTTAAAAATTTTAA
9219291 ATT
1 ATT
9219294 AGCAAAGGTA
Statistics
Matches: 36, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
33 15 0.42
34 21 0.58
ACGTcount: A:0.41, C:0.03, G:0.00, T:0.56
Consensus pattern (34 bp):
ATTTAAATTCTTAAATTTTTTTTAAAAATTTTAA
Found at i:9220589 original size:32 final size:32
Alignment explanation
Indices: 9220547--9220611 Score: 121
Period size: 32 Copynumber: 2.0 Consensus size: 32
9220537 ACAAATGATG
9220547 TCATTGGTGATAATCCATTCTCCATCATGGAA
1 TCATTGGTGATAATCCATTCTCCATCATGGAA
*
9220579 TCATTTGTGATAATCCATTCTCCATCATGGAA
1 TCATTGGTGATAATCCATTCTCCATCATGGAA
9220611 T
1 T
9220612 GCCAACCCTC
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.28, C:0.22, G:0.14, T:0.37
Consensus pattern (32 bp):
TCATTGGTGATAATCCATTCTCCATCATGGAA
Found at i:9223676 original size:30 final size:30
Alignment explanation
Indices: 9223642--9223703 Score: 106
Period size: 30 Copynumber: 2.1 Consensus size: 30
9223632 ACTTATTTTA
9223642 TTGTTAATTTTGTTATTATTTTAAAGATAT
1 TTGTTAATTTTGTTATTATTTTAAAGATAT
**
9223672 TTGTTAATTTTGTTATTATTTTGGAGATAT
1 TTGTTAATTTTGTTATTATTTTAAAGATAT
9223702 TT
1 TT
9223704 ACTTGTTAAC
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.26, C:0.00, G:0.13, T:0.61
Consensus pattern (30 bp):
TTGTTAATTTTGTTATTATTTTAAAGATAT
Found at i:9223807 original size:18 final size:18
Alignment explanation
Indices: 9223786--9223825 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 18
9223776 GAAATATTTA
*
9223786 TTTTGATGT-TTTTAGTAT
1 TTTTGATGTATTATA-TAT
9223804 TTTTGATGTATTATATAT
1 TTTTGATGTATTATATAT
9223822 TTTT
1 TTTT
9223826 TAAAATTATA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
18 16 0.80
19 4 0.20
ACGTcount: A:0.20, C:0.00, G:0.12, T:0.68
Consensus pattern (18 bp):
TTTTGATGTATTATATAT
Found at i:9223857 original size:12 final size:12
Alignment explanation
Indices: 9223827--9223859 Score: 52
Period size: 11 Copynumber: 2.9 Consensus size: 12
9223817 TATATTTTTT
9223827 AAAATT-ATATA
1 AAAATTAATATA
9223838 AAAA-TAATATA
1 AAAATTAATATA
9223849 AAAATTAATAT
1 AAAATTAATAT
9223860 GGACTGATCG
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
10 1 0.05
11 13 0.65
12 6 0.30
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (12 bp):
AAAATTAATATA
Found at i:9224122 original size:23 final size:21
Alignment explanation
Indices: 9224078--9224123 Score: 56
Period size: 23 Copynumber: 2.1 Consensus size: 21
9224068 TTTCTTTATA
* *
9224078 TAAATTAATATATAATATAAT
1 TAAATTAATATACAATAAAAT
9224099 TAAATGTAATAATACAATAAAAT
1 TAAAT-TAAT-ATACAATAAAAT
9224122 TA
1 TA
9224124 TTAAAATAGT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
21 5 0.24
22 4 0.19
23 12 0.57
ACGTcount: A:0.59, C:0.02, G:0.02, T:0.37
Consensus pattern (21 bp):
TAAATTAATATACAATAAAAT
Found at i:9226878 original size:30 final size:27
Alignment explanation
Indices: 9226810--9227111 Score: 240
Period size: 27 Copynumber: 11.0 Consensus size: 27
9226800 TGGACCTGGT
* * *
9226810 GGCATCCCACCCATGTTGTTAGGAGGC
1 GGCATTCCTCCCATATTGTTAGGAGGC
*
9226837 GGCATTCCTCCCATATTGTTAGAAGGC
1 GGCATTCCTCCCATATTGTTAGGAGGC
*
9226864 GGCATTCCTCCTCCCATGTTGTTAGGAGGC
1 GGCA-T--TCCTCCCATATTGTTAGGAGGC
* *
9226894 GGCATTCCTCCCATATTGTTAGAAGGT
1 GGCATTCCTCCCATATTGTTAGGAGGC
* ** * *
9226921 GGCATTCCTCCTCCCATGTTGTTCCGCGGT
1 GGCA-T--TCCTCCCATATTGTTAGGAGGC
9226951 GGCATTCCTCCCATATTGTTAGGAGGC
1 GGCATTCCTCCCATATTGTTAGGAGGC
* ** * *
9226978 GGCATTCCTCCTCCCATGTTGTTCCGCGGT
1 GGCA-T--TCCTCCCATATTGTTAGGAGGC
9227008 GGCATTCCTCCCATATTGTTAGGAGGC
1 GGCATTCCTCCCATATTGTTAGGAGGC
9227035 GGCATTCCTCCCCCCATATTGTT----GGC
1 GGCATTCCT---CCCATATTGTTAGGAGGC
* * * *
9227061 TGGCATACCTCCCCTATTGTT-GTA--A
1 -GGCATTCCTCCCATATTGTTAGGAGGC
*
9227086 GGCATTCCTCCCATGTTGTTAGGAGG
1 GGCATTCCTCCCATATTGTTAGGAGG
9227112 TGGATTTCCA
Statistics
Matches: 220, Mismatches: 36, Indels: 38
0.75 0.12 0.13
Matches are distributed among these distances:
24 27 0.12
25 2 0.01
26 3 0.01
27 105 0.48
28 3 0.01
29 3 0.01
30 77 0.35
ACGTcount: A:0.16, C:0.29, G:0.24, T:0.31
Consensus pattern (27 bp):
GGCATTCCTCCCATATTGTTAGGAGGC
Found at i:9226907 original size:57 final size:57
Alignment explanation
Indices: 9226819--9227057 Score: 361
Period size: 57 Copynumber: 4.2 Consensus size: 57
9226809 TGGCATCCCA
*
9226819 CCCATGTTGTTAGGAGGCGGCATTCCTCCCATATTGTTAGAAGGCGGCATTCCTCCT
1 CCCATGTTGTTACGAGGCGGCATTCCTCCCATATTGTTAGAAGGCGGCATTCCTCCT
* *
9226876 CCCATGTTGTTAGGAGGCGGCATTCCTCCCATATTGTTAGAAGGTGGCATTCCTCCT
1 CCCATGTTGTTACGAGGCGGCATTCCTCCCATATTGTTAGAAGGCGGCATTCCTCCT
* * * *
9226933 CCCATGTTGTTCCGCGGTGGCATTCCTCCCATATTGTTAGGAGGCGGCATTCCTCCT
1 CCCATGTTGTTACGAGGCGGCATTCCTCCCATATTGTTAGAAGGCGGCATTCCTCCT
* * * * *
9226990 CCCATGTTGTTCCGCGGTGGCATTCCTCCCATATTGTTAGGAGGCGGCATTCCTCCC
1 CCCATGTTGTTACGAGGCGGCATTCCTCCCATATTGTTAGAAGGCGGCATTCCTCCT
*
9227047 CCCATATTGTT
1 CCCATGTTGTT
9227058 GGCTGGCATA
Statistics
Matches: 173, Mismatches: 9, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
57 173 1.00
ACGTcount: A:0.15, C:0.30, G:0.24, T:0.31
Consensus pattern (57 bp):
CCCATGTTGTTACGAGGCGGCATTCCTCCCATATTGTTAGAAGGCGGCATTCCTCCT
Found at i:9227733 original size:36 final size:36
Alignment explanation
Indices: 9227693--9227761 Score: 120
Period size: 36 Copynumber: 1.9 Consensus size: 36
9227683 GACACAGAAA
*
9227693 ATAAACTGTAATTACAAAAGTAATGTACACATTTCG
1 ATAAACTATAATTACAAAAGTAATGTACACATTTCG
*
9227729 ATAAATTATAATTACAAAAGTAATGTACACATT
1 ATAAACTATAATTACAAAAGTAATGTACACATT
9227762 CCGTCACGGG
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
36 31 1.00
ACGTcount: A:0.48, C:0.12, G:0.09, T:0.32
Consensus pattern (36 bp):
ATAAACTATAATTACAAAAGTAATGTACACATTTCG
Found at i:9234962 original size:18 final size:17
Alignment explanation
Indices: 9234935--9234969 Score: 61
Period size: 18 Copynumber: 2.0 Consensus size: 17
9234925 GAGATGGCAA
9234935 TTTTATTTATTGTTTAT
1 TTTTATTTATTGTTTAT
9234952 TTTTAATTTATTGTTTAT
1 TTTT-ATTTATTGTTTAT
9234970 AATTTATTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 4 0.24
18 13 0.76
ACGTcount: A:0.20, C:0.00, G:0.06, T:0.74
Consensus pattern (17 bp):
TTTTATTTATTGTTTAT
Found at i:9234978 original size:18 final size:17
Alignment explanation
Indices: 9234936--9234978 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 17
9234926 AGATGGCAAT
*
9234936 TTTATTTATTGTTTATT
1 TTTATTTATTGTTTATA
9234953 TTTAATTTATTGTTTATAA
1 TTT-ATTTATTGTTTAT-A
9234972 TTTATTT
1 TTTATTT
9234979 TTATTAGTGG
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
17 3 0.13
18 17 0.74
19 3 0.13
ACGTcount: A:0.23, C:0.00, G:0.05, T:0.72
Consensus pattern (17 bp):
TTTATTTATTGTTTATA
Found at i:9235188 original size:21 final size:23
Alignment explanation
Indices: 9235160--9235212 Score: 67
Period size: 23 Copynumber: 2.4 Consensus size: 23
9235150 TTTTCATATT
9235160 TTTA-TTTTATTT-ATTC-AAAA
1 TTTATTTTTATTTAATTCTAAAA
*
9235180 TTTATTTTTATTTAATTCTAATA
1 TTTATTTTTATTTAATTCTAAAA
*
9235203 TATATTTTTA
1 TTTATTTTTA
9235213 AAATTTTATT
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
20 4 0.14
21 8 0.29
22 4 0.14
23 12 0.43
ACGTcount: A:0.32, C:0.04, G:0.00, T:0.64
Consensus pattern (23 bp):
TTTATTTTTATTTAATTCTAAAA
Found at i:9241494 original size:28 final size:28
Alignment explanation
Indices: 9241462--9241531 Score: 104
Period size: 28 Copynumber: 2.5 Consensus size: 28
9241452 TATGGTACTC
*
9241462 AGTGTACGAAATATTGAGAATGACACTT
1 AGTGTGCGAAATATTGAGAATGACACTT
* *
9241490 AGTGTGCGAGATATTGAGGATGACACTT
1 AGTGTGCGAAATATTGAGAATGACACTT
*
9241518 AGTGTGCAAAATAT
1 AGTGTGCGAAATAT
9241532 CGAATGATTC
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
28 37 1.00
ACGTcount: A:0.36, C:0.10, G:0.26, T:0.29
Consensus pattern (28 bp):
AGTGTGCGAAATATTGAGAATGACACTT
Found at i:9249193 original size:8 final size:8
Alignment explanation
Indices: 9249180--9249204 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
9249170 GAAAAGATAA
9249180 GAAAAGTG
1 GAAAAGTG
9249188 GAAAAGTG
1 GAAAAGTG
9249196 GAAAAGTG
1 GAAAAGTG
9249204 G
1 G
9249205 TGGTCGCACT
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:0.48, C:0.00, G:0.40, T:0.12
Consensus pattern (8 bp):
GAAAAGTG
Found at i:9257990 original size:20 final size:20
Alignment explanation
Indices: 9257919--9258031 Score: 70
Period size: 20 Copynumber: 5.7 Consensus size: 20
9257909 TTGGCATACC
*
9257919 AAAATTTCTAA-GATTTTATT
1 AAAATTTCTAAGGA-TTTACT
* * * *
9257939 GAAGTTTATAAGG-TTATACC
1 AAAATTTCTAAGGATT-TACT
* *
9257959 AAAATATGTAAGGATTTACT
1 AAAATTTCTAAGGATTTACT
* *
9257979 AGAATTTTTAAGG-TTATACT
1 AAAATTTCTAAGGATT-TACT
*
9257999 AAAATTTCTAAGGATTTATT
1 AAAATTTCTAAGGATTTACT
* *
9258019 AATATATCTAAGG
1 AAAATTTCTAAGG
9258032 GTTTTTACCA
Statistics
Matches: 70, Mismatches: 18, Indels: 10
0.71 0.18 0.10
Matches are distributed among these distances:
19 4 0.06
20 61 0.87
21 5 0.07
ACGTcount: A:0.40, C:0.06, G:0.13, T:0.41
Consensus pattern (20 bp):
AAAATTTCTAAGGATTTACT
Found at i:9258031 original size:40 final size:39
Alignment explanation
Indices: 9257914--9258057 Score: 114
Period size: 40 Copynumber: 3.6 Consensus size: 39
9257904 ACATTTTGGC
9257914 ATACCAAAATTTCTAA-GATTTTATTGAAGT-TTATAAGGTT
1 ATACCAAAATTTCTAAGGA-TTTATT-AA-TATTATAAGGTT
* * * *
9257954 ATACCAAAATATGTAAGGATTTACTAGA-ATTTTTAAGGTT
1 ATACCAAAATTTCTAAGGATTTATTA-ATA-TTATAAGGTT
* *
9257994 ATACTAAAATTTCTAAGGATTTATTAATATATCTAAGGGTTT
1 ATACCAAAATTTCTAAGGATTTATTAATAT-TATAA-GG-TT
* * *
9258036 TTACCAAAATTTCAAAAGATTT
1 ATACCAAAATTTCTAAGGATTT
9258058 CCTTAGTGCC
Statistics
Matches: 83, Mismatches: 13, Indels: 14
0.75 0.12 0.13
Matches are distributed among these distances:
39 3 0.04
40 56 0.67
41 4 0.05
42 20 0.24
ACGTcount: A:0.40, C:0.08, G:0.12, T:0.40
Consensus pattern (39 bp):
ATACCAAAATTTCTAAGGATTTATTAATATTATAAGGTT
Found at i:9258124 original size:20 final size:21
Alignment explanation
Indices: 9258099--9258158 Score: 70
Period size: 20 Copynumber: 3.0 Consensus size: 21
9258089 TCTTGGCATG
9258099 CTAAAATTTCCAAGGATTT-T
1 CTAAAATTTCCAAGGATTTAT
* *
9258119 CTAAAATTTCTAAAGATTTAT
1 CTAAAATTTCCAAGGATTTAT
* *
9258140 C-AAAATTTACGAGGATTTA
1 CTAAAATTTCCAAGGATTTA
9258159 CAAAACTTTC
Statistics
Matches: 33, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
20 31 0.94
21 2 0.06
ACGTcount: A:0.40, C:0.12, G:0.10, T:0.38
Consensus pattern (21 bp):
CTAAAATTTCCAAGGATTTAT
Found at i:9258184 original size:40 final size:40
Alignment explanation
Indices: 9258101--9258185 Score: 93
Period size: 40 Copynumber: 2.1 Consensus size: 40
9258091 TTGGCATGCT
* * *
9258101 AAAATTTCCAAGGATTTTCTAAAATTTCTAAAGATTTATC
1 AAAATTTACAAGGATTTACTAAAATTTCTAAAGATTTACC
* *
9258141 AAAATTTACGAGGATTTAC-AAAACTTTCTAACG-TTATACC
1 AAAATTTACAAGGATTTACTAAAA-TTTCTAAAGATT-TACC
9258181 AAAAT
1 AAAAT
9258186 ACCTAACGAT
Statistics
Matches: 38, Mismatches: 5, Indels: 4
0.81 0.11 0.09
Matches are distributed among these distances:
39 6 0.16
40 32 0.84
ACGTcount: A:0.42, C:0.14, G:0.08, T:0.35
Consensus pattern (40 bp):
AAAATTTACAAGGATTTACTAAAATTTCTAAAGATTTACC
Found at i:9258193 original size:20 final size:20
Alignment explanation
Indices: 9258168--9258226 Score: 57
Period size: 20 Copynumber: 3.0 Consensus size: 20
9258158 ACAAAACTTT
9258168 CTAACGTTATACCAAAATAC
1 CTAACGTTATACCAAAATAC
* **
9258188 CTAACGATT-TACCCAAATTT
1 CTAACG-TTATACCAAAATAC
* *
9258208 CTAAAGTTATATCAAAATA
1 CTAACGTTATACCAAAATA
9258227 TTTATAGATT
Statistics
Matches: 30, Mismatches: 7, Indels: 4
0.73 0.17 0.10
Matches are distributed among these distances:
19 2 0.07
20 26 0.87
21 2 0.07
ACGTcount: A:0.44, C:0.20, G:0.05, T:0.31
Consensus pattern (20 bp):
CTAACGTTATACCAAAATAC
Found at i:9258237 original size:40 final size:39
Alignment explanation
Indices: 9258121--9258247 Score: 109
Period size: 40 Copynumber: 3.2 Consensus size: 39
9258111 AGGATTTTCT
*
9258121 AAAATTTCTAAAGATT-TATC-AAA-ATTTACGAGGATTTAC
1 AAAATTTCTAAAG-TTATATCAAAATATTTA--ACGATTTAC
* * **
9258160 AAAACTTTCTAACGTTATACCAAAATACCTAACGATTTACC
1 AAAA-TTTCTAAAGTTATATCAAAATATTTAACGATTTA-C
*
9258201 CAAATTTCTAAAGTTATATCAAAATATTTATA-GATTTAAC
1 AAAATTTCTAAAGTTATATCAAAATATTTA-ACGATTT-AC
9258241 AAAATTT
1 AAAATTT
9258248 AAATATCTAA
Statistics
Matches: 70, Mismatches: 11, Indels: 13
0.74 0.12 0.14
Matches are distributed among these distances:
39 6 0.09
40 52 0.74
41 9 0.13
42 3 0.04
ACGTcount: A:0.44, C:0.14, G:0.06, T:0.35
Consensus pattern (39 bp):
AAAATTTCTAAAGTTATATCAAAATATTTAACGATTTAC
Found at i:9258358 original size:37 final size:37
Alignment explanation
Indices: 9258304--9258376 Score: 128
Period size: 37 Copynumber: 2.0 Consensus size: 37
9258294 TGATAAGTCC
9258304 TTAGATTTGTTTGATTGGCCAAAATGTTGAGTTGATT
1 TTAGATTTGTTTGATTGGCCAAAATGTTGAGTTGATT
* *
9258341 TTAGATTTTTTTTATTGGCCAAAATGTTGAGTTGAT
1 TTAGATTTGTTTGATTGGCCAAAATGTTGAGTTGAT
9258377 CGAGTCTGGG
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
37 34 1.00
ACGTcount: A:0.25, C:0.05, G:0.22, T:0.48
Consensus pattern (37 bp):
TTAGATTTGTTTGATTGGCCAAAATGTTGAGTTGATT
Found at i:9258488 original size:20 final size:19
Alignment explanation
Indices: 9258465--9258527 Score: 63
Period size: 20 Copynumber: 3.2 Consensus size: 19
9258455 CTTAGAAATA
9258465 TTGGTATAACCTTAAAATTT
1 TTGGTA-AACCTTAAAATTT
* *
9258485 TTGGTAACGCCTTAAAAATT
1 TTGGTAA-ACCTTAAAATTT
* *
9258505 TTAGTAAATCCTTATAATTT
1 TTGGTAAA-CCTTAAAATTT
9258525 TTG
1 TTG
9258528 AAATTTACCA
Statistics
Matches: 34, Mismatches: 7, Indels: 4
0.76 0.16 0.09
Matches are distributed among these distances:
19 1 0.03
20 33 0.97
ACGTcount: A:0.33, C:0.11, G:0.11, T:0.44
Consensus pattern (19 bp):
TTGGTAAACCTTAAAATTT
Found at i:9258610 original size:20 final size:20
Alignment explanation
Indices: 9258547--9258626 Score: 72
Period size: 20 Copynumber: 4.0 Consensus size: 20
9258537 ATTATGGCAG
* *
9258547 AACCTTATAAATTTTGATAA
1 AACCTTAGAAATTTTGGTAA
* * * * *
9258567 ATCCATGGATATTGTGGT-A
1 AACCTTAGAAATTTTGGTAA
9258586 AACCTTAGAAATTTTGGTAA
1 AACCTTAGAAATTTTGGTAA
* *
9258606 AACCTTAAAAATCTTGGTAA
1 AACCTTAGAAATTTTGGTAA
9258626 A
1 A
9258627 TATTGATATG
Statistics
Matches: 45, Mismatches: 14, Indels: 2
0.74 0.23 0.03
Matches are distributed among these distances:
19 14 0.31
20 31 0.69
ACGTcount: A:0.40, C:0.11, G:0.14, T:0.35
Consensus pattern (20 bp):
AACCTTAGAAATTTTGGTAA
Found at i:9261097 original size:55 final size:56
Alignment explanation
Indices: 9260984--9261104 Score: 138
Period size: 55 Copynumber: 2.2 Consensus size: 56
9260974 GATTCTGGCA
* ** *
9260984 TTCTAATGGCTGACACCAGGTACAGAAAAAAAATTTTAATTCTTTTAGGTGCTGGCC
1 TTCTAATGGCTGACACCAAGTACAGAAAAAAAA-TTTAATTCTTTTAAATGCTAGCC
* * * *
9261041 TTGTAATGGCTGGCACCAAGTACA-AAAAAAAA-TTAATTTTTTTTAAATGTTAGCC
1 TTCTAATGGCTGACACCAAGTACAGAAAAAAAATTTAA-TTCTTTTAAATGCTAGCC
9261096 TTCTAATGG
1 TTCTAATGG
9261105 TCAGCACCAG
Statistics
Matches: 54, Mismatches: 9, Indels: 4
0.81 0.13 0.06
Matches are distributed among these distances:
54 4 0.07
55 21 0.39
56 8 0.15
57 21 0.39
ACGTcount: A:0.34, C:0.15, G:0.17, T:0.34
Consensus pattern (56 bp):
TTCTAATGGCTGACACCAAGTACAGAAAAAAAATTTAATTCTTTTAAATGCTAGCC
Found at i:9261212 original size:56 final size:54
Alignment explanation
Indices: 9261137--9261344 Score: 174
Period size: 55 Copynumber: 3.8 Consensus size: 54
9261127 TAAAAAAAAA
*
9261137 TTTAGT-TCTGGCCTTCTAATGGCCGGCACCAGGTACGAAAAAAATTCAAATTTTT
1 TTTAGTGT-TGGCCTTCTAATGGCCGGCACCAAGTACGAAAAAAATTCAAA-TTTT
* * * * ****
9261192 TTTAGCTGTTGGCCTTCTAATGGCCTGCACCAAGTAC--CAATATTTACAAAAAAAA
1 TTTAG-TGTTGGCCTTCTAATGGCCGGCACCAAGTACGAAAAAAATT-C-AAATTTT
** *
9261247 TTTA-T-TCTGGCCTTCTAATGGCCGGCACCTGGTACAAAAAAAATTCAAATTTT
1 TTTAGTGT-TGGCCTTCTAATGGCCGGCACCAAGTACGAAAAAAATTCAAATTTT
* * * *
9261300 TTTAGGTGTTGACCTTCTACTTGCCGGCACCAAGTATGAAAAAAA
1 TTTA-GTGTTGGCCTTCTAATGGCCGGCACCAAGTACGAAAAAAA
9261345 AATCCATTAG
Statistics
Matches: 117, Mismatches: 26, Indels: 20
0.72 0.16 0.12
Matches are distributed among these distances:
52 1 0.01
53 33 0.28
54 6 0.05
55 45 0.38
56 31 0.26
57 1 0.01
ACGTcount: A:0.31, C:0.21, G:0.17, T:0.31
Consensus pattern (54 bp):
TTTAGTGTTGGCCTTCTAATGGCCGGCACCAAGTACGAAAAAAATTCAAATTTT
Done.