Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D03
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: 53248092
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1300000 characters in sequence are not A, C, G, or T
File 86 of 175
Found at i:27367845 original size:18 final size:17
Alignment explanation
Indices: 27367824--27367858 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
27367814 TTATTATTAA
*
27367824 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
27367842 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
27367859 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:27367902 original size:54 final size:54
Alignment explanation
Indices: 27367844--27368022 Score: 128
Period size: 55 Copynumber: 3.1 Consensus size: 54
27367834 ATTAAAATAT
*
27367844 ATAATTTAATAAAATTCTTAATAATTAATATTCTTATATGAATTTACTCAAACC
1 ATAATTTAATAAAATTCTTAATAATTAATATTCTTATATGAATTTACTCAAAAC
** * * * * *
27367898 ATAATATATGATACTGTAAAATAT-AAAATAACATAATTATTATTAAATAT-AATATAATTAAAA
1 ATAAT-T-T-A-A---TAAAAT-TCTTAATAA-TTAA-TATTCTT--ATATGAAT-TTACTCAAA
*
27367961 TAT
53 -AC
*
27367964 ATAATTTAATAAAATTCTTAATAATTAATATTCTTATATGAATTTACTCAAATC
1 ATAATTTAATAAAATTCTTAATAATTAATATTCTTATATGAATTTACTCAAAAC
27368018 ATAAT
1 ATAAT
27368023 ATATGATTAT
Statistics
Matches: 91, Mismatches: 18, Indels: 32
0.65 0.13 0.23
Matches are distributed among these distances:
54 10 0.11
55 11 0.12
56 4 0.04
57 7 0.08
58 5 0.05
59 11 0.12
61 11 0.12
62 5 0.05
63 7 0.08
64 4 0.04
65 11 0.12
66 5 0.05
ACGTcount: A:0.49, C:0.07, G:0.02, T:0.41
Consensus pattern (54 bp):
ATAATTTAATAAAATTCTTAATAATTAATATTCTTATATGAATTTACTCAAAAC
Found at i:27367904 original size:61 final size:61
Alignment explanation
Indices: 27367839--27368026 Score: 190
Period size: 61 Copynumber: 3.1 Consensus size: 61
27367829 TTTTAATTAA
*
27367839 AATATATAATTTAATAAAATTCTTAATAATTAATATTCTTATATGAATTTACTCAAACCAT
1 AATATATAATTTAATAAAATTCTTAATAATTAATATTCTTATATGAATTTACTCAAATCAT
* * * * * * * * * * *
27367900 AATATATGATACT-GTAAAA-T-ATAA-AATAACATAATTATTAT-TAAATATAAT-ATAATTAA
1 AATATATAAT-TTAATAAAATTCTTAATAATTA-AT-ATTCTTATATGAATTTACTCA-AATCAT
27367959 AATATATAATTTAATAAAATTCTTAATAATTAATATTCTTATATGAATTTACTCAAATCAT
1 AATATATAATTTAATAAAATTCTTAATAATTAATATTCTTATATGAATTTACTCAAATCAT
27368020 AATATAT
1 AATATAT
27368027 GATTATAACT
Statistics
Matches: 94, Mismatches: 23, Indels: 20
0.69 0.17 0.15
Matches are distributed among these distances:
58 6 0.06
59 29 0.31
60 16 0.17
61 37 0.39
62 6 0.06
ACGTcount: A:0.49, C:0.07, G:0.02, T:0.41
Consensus pattern (61 bp):
AATATATAATTTAATAAAATTCTTAATAATTAATATTCTTATATGAATTTACTCAAATCAT
Found at i:27367937 original size:120 final size:120
Alignment explanation
Indices: 27367807--27368029 Score: 419
Period size: 120 Copynumber: 1.9 Consensus size: 120
27367797 ATCATATTTA
* *
27367807 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
1 AACATAATTATTATTAAATATAATATAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
27367872 TATTCTTATATGAATTTACTCAAACCATAATATATGATACTGTAAAATATAAAAT
66 TATTCTTATATGAATTTACTCAAACCATAATATATGATACTGTAAAATATAAAAT
27367927 AACATAATTATTATTAAATATAATATAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
1 AACATAATTATTATTAAATATAATATAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
*
27367992 TATTCTTATATGAATTTACTCAAATCATAATATATGAT
66 TATTCTTATATGAATTTACTCAAACCATAATATATGAT
27368030 TATAACTAAT
Statistics
Matches: 100, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
120 100 1.00
ACGTcount: A:0.49, C:0.06, G:0.02, T:0.42
Consensus pattern (120 bp):
AACATAATTATTATTAAATATAATATAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
TATTCTTATATGAATTTACTCAAACCATAATATATGATACTGTAAAATATAAAAT
Found at i:27367965 original size:18 final size:17
Alignment explanation
Indices: 27367944--27367978 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
27367934 TTATTATTAA
27367944 ATATAATATAATTAAAAT
1 ATATAATATAA-TAAAAT
*
27367962 ATATAATTTAATAAAAT
1 ATATAATATAATAAAAT
27367979 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (17 bp):
ATATAATATAATAAAAT
Found at i:27368041 original size:17 final size:16
Alignment explanation
Indices: 27368019--27368065 Score: 53
Period size: 17 Copynumber: 2.9 Consensus size: 16
27368009 ACTCAAATCA
27368019 TAATATATGATTATAAC
1 TAATATATGATT-TAAC
*
27368036 T-A-ATATGATTTAAT
1 TAATATATGATTTAAC
27368050 TAAATATATGATTTAA
1 T-AATATATGATTTAA
27368066 TAAAATTTAA
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
14 4 0.15
15 8 0.31
16 2 0.08
17 12 0.46
ACGTcount: A:0.47, C:0.02, G:0.06, T:0.45
Consensus pattern (16 bp):
TAATATATGATTTAAC
Found at i:27368066 original size:17 final size:17
Alignment explanation
Indices: 27368038--27368071 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
27368028 ATTATAACTA
*
27368038 ATATGATTTAATTAAAT
1 ATATGATTTAATAAAAT
27368055 ATATGATTTAATAAAAT
1 ATATGATTTAATAAAAT
27368072 TTAAAATTAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.50, C:0.00, G:0.06, T:0.44
Consensus pattern (17 bp):
ATATGATTTAATAAAAT
Found at i:27371281 original size:15 final size:16
Alignment explanation
Indices: 27371261--27371291 Score: 55
Period size: 15 Copynumber: 2.0 Consensus size: 16
27371251 TTTTATTTTG
27371261 TTTTTTAT-AAATTAA
1 TTTTTTATAAAATTAA
27371276 TTTTTTATAAAATTAA
1 TTTTTTATAAAATTAA
27371292 AAAAACCAAG
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 8 0.53
16 7 0.47
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (16 bp):
TTTTTTATAAAATTAA
Found at i:27371837 original size:21 final size:22
Alignment explanation
Indices: 27371781--27371846 Score: 71
Period size: 22 Copynumber: 3.0 Consensus size: 22
27371771 ACCCTTGAAT
* * *
27371781 CCCTAAATCCTAAACCCTAAAT
1 CCCTAACTCCTAACCCCTAAAC
**
27371803 CCCTAACTATTAACCCCT-AAC
1 CCCTAACTCCTAACCCCTAAAC
*
27371824 CCCTAACTCCTAACCCTTAAAC
1 CCCTAACTCCTAACCCCTAAAC
27371846 C
1 C
27371847 TTAAATCTCA
Statistics
Matches: 35, Mismatches: 8, Indels: 2
0.78 0.18 0.04
Matches are distributed among these distances:
21 17 0.49
22 18 0.51
ACGTcount: A:0.35, C:0.42, G:0.00, T:0.23
Consensus pattern (22 bp):
CCCTAACTCCTAACCCCTAAAC
Found at i:27371895 original size:15 final size:15
Alignment explanation
Indices: 27371862--27371899 Score: 62
Period size: 14 Copynumber: 2.7 Consensus size: 15
27371852 TCTCAACCCT
27371862 TAAA-CCATAATCCC
1 TAAATCCATAATCCC
27371876 T-AATCCATAATCCC
1 TAAATCCATAATCCC
27371890 TAAATCCATA
1 TAAATCCATA
27371900 TATAATTACT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
13 2 0.09
14 12 0.55
15 8 0.36
ACGTcount: A:0.42, C:0.32, G:0.00, T:0.26
Consensus pattern (15 bp):
TAAATCCATAATCCC
Found at i:27371982 original size:21 final size:18
Alignment explanation
Indices: 27371940--27371996 Score: 60
Period size: 18 Copynumber: 2.9 Consensus size: 18
27371930 CAAAACACGC
*
27371940 AAAAAACTGAACTGGATA
1 AAAAAACTGAACGGGATA
27371958 AAAAAACTGAACGGAGCACTA
1 AAAAAACTGAACGG-G-A-TA
*
27371979 AAAATACTGAATCGGGAT
1 AAAAAACTGAA-CGGGAT
27371997 GGGATAATAT
Statistics
Matches: 33, Mismatches: 2, Indels: 7
0.79 0.05 0.17
Matches are distributed among these distances:
18 13 0.39
19 2 0.06
20 2 0.06
21 13 0.39
22 3 0.09
ACGTcount: A:0.51, C:0.14, G:0.19, T:0.16
Consensus pattern (18 bp):
AAAAAACTGAACGGGATA
Found at i:27372187 original size:21 final size:21
Alignment explanation
Indices: 27372145--27372221 Score: 64
Period size: 21 Copynumber: 3.6 Consensus size: 21
27372135 CACTAGTTAA
* * *
27372145 TCTAAACCCTTAACACATAACC
1 TCTAAACCATAAAC-CACAACC
* *
27372167 TCTAAACCTTAAACCCCAACC
1 TCTAAACCATAAACCACAACC
* *
27372188 TTTAAACCATAAACCATAACC
1 TCTAAACCATAAACCACAACC
*
27372209 CCTAAACCCATAA
1 TCTAAA-CCATAA
27372222 TCCATAAACC
Statistics
Matches: 44, Mismatches: 10, Indels: 2
0.79 0.18 0.04
Matches are distributed among these distances:
21 26 0.59
22 18 0.41
ACGTcount: A:0.43, C:0.36, G:0.00, T:0.21
Consensus pattern (21 bp):
TCTAAACCATAAACCACAACC
Found at i:27372219 original size:15 final size:15
Alignment explanation
Indices: 27372194--27372231 Score: 51
Period size: 15 Copynumber: 2.6 Consensus size: 15
27372184 AACCTTTAAA
27372194 CCATAAA-CCATAAC
1 CCATAAACCCATAAC
* *
27372208 CCCTAAACCCATAAT
1 CCATAAACCCATAAC
27372223 CCATAAACC
1 CCATAAACC
27372232 TTAAAATGGT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
14 6 0.30
15 14 0.70
ACGTcount: A:0.45, C:0.39, G:0.00, T:0.16
Consensus pattern (15 bp):
CCATAAACCCATAAC
Found at i:27372236 original size:22 final size:21
Alignment explanation
Indices: 27372184--27372288 Score: 63
Period size: 22 Copynumber: 4.9 Consensus size: 21
27372174 CTTAAACCCC
27372184 AACCTTTAAACCATAAACCATA
1 AACC-TTAAACCATAAACCATA
* * *
27372206 ACCCCTAAACCCATAATCCATA
1 AACCTTAAA-CCATAAACCATA
* *
27372228 AACCTTAAA--ATGGTAACGCCTA
1 AACCTTAAACCAT--AAAC-CATA
27372250 AACCTTAAACTC-TAAACCATA
1 AACCTTAAAC-CATAAACCATA
* * *
27372271 TACCCTAAACCAAAAACC
1 AACCTTAAACCATAAACC
27372289 CTATACTCGA
Statistics
Matches: 62, Mismatches: 13, Indels: 17
0.67 0.14 0.18
Matches are distributed among these distances:
19 2 0.03
20 1 0.02
21 22 0.35
22 36 0.58
24 1 0.02
ACGTcount: A:0.46, C:0.31, G:0.03, T:0.20
Consensus pattern (21 bp):
AACCTTAAACCATAAACCATA
Found at i:27372266 original size:14 final size:14
Alignment explanation
Indices: 27372246--27372291 Score: 56
Period size: 14 Copynumber: 3.3 Consensus size: 14
27372236 AATGGTAACG
*
27372246 CCTAAACCTTAAAC
1 CCTAAACCATAAAC
* *
27372260 TCTAAACCATATAC
1 CCTAAACCATAAAC
*
27372274 CCTAAACCAAAAAC
1 CCTAAACCATAAAC
27372288 CCTA
1 CCTA
27372292 TACTCGAACG
Statistics
Matches: 26, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
14 26 1.00
ACGTcount: A:0.46, C:0.35, G:0.00, T:0.20
Consensus pattern (14 bp):
CCTAAACCATAAAC
Found at i:27372492 original size:40 final size:40
Alignment explanation
Indices: 27372448--27372523 Score: 91
Period size: 40 Copynumber: 1.9 Consensus size: 40
27372438 TTAAATCCCT
* * *
27372448 GAGCATTAGCGGTGCTTT-TTAGAAAACGCTGCTAAAAATA
1 GAGCACTAGCGGTGCTTTATCA-AAAACGCCGCTAAAAATA
* *
27372488 GAGCACTCGTGGTGCTTTATCAAAAACGCCGCTAAA
1 GAGCACTAGCGGTGCTTTATCAAAAACGCCGCTAAA
27372524 GCCCTGAGCA
Statistics
Matches: 30, Mismatches: 5, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
40 28 0.93
41 2 0.07
ACGTcount: A:0.33, C:0.20, G:0.22, T:0.25
Consensus pattern (40 bp):
GAGCACTAGCGGTGCTTTATCAAAAACGCCGCTAAAAATA
Found at i:27372554 original size:41 final size:41
Alignment explanation
Indices: 27372501--27372650 Score: 194
Period size: 41 Copynumber: 3.7 Consensus size: 41
27372491 CACTCGTGGT
* * *
27372501 GCTTTATCAAAAACGCCGCTAAAGCCCTGAGCATTAGCGAC
1 GCTTTCTCAAAAACACCGCTAAAGCCCTGAGCATTAGCGGC
* * *
27372542 ACTTTCTAAAAAACGCCGCTAAAGCCCTGAGCATTAGCGGC
1 GCTTTCTCAAAAACACCGCTAAAGCCCTGAGCATTAGCGGC
* *
27372583 GCTTCCCCAAAAACACCGCTAAAGCCCT-AGGCATTAGCGGC
1 GCTTTCTCAAAAACACCGCTAAAGCCCTGA-GCATTAGCGGC
* *
27372624 GTTTTCTCAAAAACACTGCTAAAGCCC
1 GCTTTCTCAAAAACACCGCTAAAGCCC
27372651 CGAAAGCTCA
Statistics
Matches: 95, Mismatches: 13, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
40 1 0.01
41 94 0.99
ACGTcount: A:0.31, C:0.31, G:0.18, T:0.19
Consensus pattern (41 bp):
GCTTTCTCAAAAACACCGCTAAAGCCCTGAGCATTAGCGGC
Found at i:27372751 original size:39 final size:40
Alignment explanation
Indices: 27372704--27372818 Score: 162
Period size: 40 Copynumber: 2.9 Consensus size: 40
27372694 TGCTTTTTGG
* * *
27372704 AAAA-CGCCGCTAATGCTTG-TTTTTAGCAGCGTTTTCCA
1 AAAAGCGCCGCTAATGCTCGATCTTTAGCGGCGTTTTCCA
* * *
27372742 AAAAGCGCCGCTAATACTCGATCTTTAGTGGCATTTTCCA
1 AAAAGCGCCGCTAATGCTCGATCTTTAGCGGCGTTTTCCA
27372782 AAAAGCGCCGCTAATGCTCGATCTTTAGCGGCGTTTT
1 AAAAGCGCCGCTAATGCTCGATCTTTAGCGGCGTTTT
27372819 TTATCCAAAC
Statistics
Matches: 66, Mismatches: 9, Indels: 2
0.86 0.12 0.03
Matches are distributed among these distances:
38 4 0.06
39 13 0.20
40 49 0.74
ACGTcount: A:0.24, C:0.24, G:0.20, T:0.31
Consensus pattern (40 bp):
AAAAGCGCCGCTAATGCTCGATCTTTAGCGGCGTTTTCCA
Found at i:27373227 original size:113 final size:113
Alignment explanation
Indices: 27373087--27373733 Score: 745
Period size: 114 Copynumber: 5.7 Consensus size: 113
27373077 CATTTTCCAT
* * *
27373087 AAAGCGCCGCAAAATACCTAAGCCCAACGACGCCGTTTTCTGAGCTTTCGAGGATTTAGCGGCGT
1 AAAGCGCCACAAAAAACCTAAGCCCAACGACGCCGTTTTCTGAGCTTTCGGGGATTTAGCGGCGT
* * *
27373152 TTTTAAG-ACAACGCCGCTAATGCTCAGGGCTTTCGCGGCGTTTTCGAG
66 TTTTAAGTA-AGCGCCGCTAATGCTCAGGGCTTTAGCGGCGTTTTTGAG
* * ** *
27373200 AAAGCGCCACAAAAAACCAAAGCCCAACGACGCTGTTTTCTGAGCTTTCGGGGATTTAGTAGTGT
1 AAAGCGCCACAAAAAACCTAAGCCCAACGACGCCGTTTTCTGAGCTTTCGGGGATTTAGCGGCGT
* * *
27373265 TTTTAAGTAAACGCCGCTAATGCTCAGGGCTTTAACGGCGTTTTTGGG
66 TTTTAAGTAAGCGCCGCTAATGCTCAGGGCTTTAGCGGCGTTTTTGAG
* *
27373313 AAAGCGCCGA-AAAAATACCTAAGCCCAATGACGCCGTTTTCTGAGCTTTCGGGGATTTAGTGGC
1 AAAGCGCC-ACAAAAA-ACCTAAGCCCAACGACGCCGTTTTCTGAGCTTTCGGGGATTTAGCGGC
* *
27373377 GTTATTAAGTAAGCGCCGCTAATGCTCAGGGCTTTAGCGGCATTTTTGAG
64 GTTTTTAAGTAAGCGCCGCTAATGCTCAGGGCTTTAGCGGCGTTTTTGAG
* * * *
27373427 AAAGCGCCACAAAAAA---AAGCCTAACGACGCCGTTTTTTGAGCTTTCGGGGATTTAGTGGCAT
1 AAAGCGCCACAAAAAACCTAAGCCCAACGACGCCGTTTTCTGAGCTTTCGGGGATTTAGCGGCGT
*
27373489 TTTTAAGTAAGCGCCGCTAATGCTCAGGGCTTTAGCGGCATTTTTGAG
66 TTTTAAGTAAGCGCCGCTAATGCTCAGGGCTTTAGCGGCGTTTTTGAG
* * * * * * * *
27373537 AAAGCGTCGCAACAAAAACTAAGCCCAACGGCACTGTTTTCTGA-CAATTT-GTGAGCTTTAGCG
1 AAAGCGCCACAA-AAAACCTAAGCCCAACGACGCCGTTTTCTGAGC--TTTCG-GGGATTTAGCG
* * **
27373600 GC-ATTTTAAG-AATGCGCCGCTAATGCTTAGGGCTTTAGCGGCGTTTTTGTT
62 GCGTTTTTAAGTAA-GCGCCGCTAATGCTCAGGGCTTTAGCGGCGTTTTTGAG
* * * * * ** *
27373651 AAAGCGCCGCAAAAAAACCTAAGCCCAACGGCGTCGTTTTCTAAACTTTTAGGGCTTTAGCGGCG
1 AAAGCGCCAC-AAAAAACCTAAGCCCAACGACGCCGTTTTCTGAGCTTTCGGGGATTTAGCGGCG
**
27373716 TTTTTAAAAAAGCGCCGC
65 TTTTTAAGTAAGCGCCGC
27373734 AAAAACCTTT
Statistics
Matches: 465, Mismatches: 52, Indels: 33
0.85 0.09 0.06
Matches are distributed among these distances:
110 99 0.21
111 4 0.01
113 132 0.28
114 212 0.46
115 18 0.04
ACGTcount: A:0.26, C:0.22, G:0.25, T:0.27
Consensus pattern (113 bp):
AAAGCGCCACAAAAAACCTAAGCCCAACGACGCCGTTTTCTGAGCTTTCGGGGATTTAGCGGCGT
TTTTAAGTAAGCGCCGCTAATGCTCAGGGCTTTAGCGGCGTTTTTGAG
Found at i:27373578 original size:224 final size:221
Alignment explanation
Indices: 27373087--27373667 Score: 745
Period size: 224 Copynumber: 2.6 Consensus size: 221
27373077 CATTTTCCAT
* * *
27373087 AAAGCGCCGCAAAATACCTAAGCCCAACGACGCCGTTTTCTGAGCTTTCGAGGATTTAGCGGCGT
1 AAAGCGCCGCAAAAAAACTAAGCCCAACGACGCCGTTTTCTGAGCTTTCGGGGATTTAGCGGCG-
* * *
27373152 TTTTAAGACAACGCCGCTAATGCTCAGGGCTTTCGCGGCGTTTTCGAGAAAGCGCCACAAAAAAC
65 TTTTAAGA-AGCGCCGCTAATGCTCAGGGCTTTAGCGGCGTTTTTGAGAAAGCGCCAC-AAAAA-
* **
27373217 CAAAGCCCAACGACGCTGTTTTCTGAGCTTTCGGGGATTTAGTAGTGTTTTTAAGTAAACGCCGC
127 -AAAGCCCAACGACGCCGTTTTCTGAGCTTTCGGGGATTTAGTAGCATTTTTAAGTAAACGCCGC
* *
27373282 TAATGCTCAGGGCTTTAACGGCGTTTTTGGG
191 TAATGCTCAGGGCTTTAACGGCATTTTTGAG
* *
27373313 AAAGCGCCG-AAAAAATACCTAAGCCCAATGACGCCGTTTTCTGAGCTTTCGGGGATTTAGTGGC
1 AAAGCGCCGCAAAAAA-A-CTAAGCCCAACGACGCCGTTTTCTGAGCTTTCGGGGATTTAGCGGC
*
27373377 GTTATTAAGTAAGCGCCGCTAATGCTCAGGGCTTTAGCGGCATTTTTGAGAAAGCGCCACAAAAA
64 GTT-TTAAG-AAGCGCCGCTAATGCTCAGGGCTTTAGCGGCGTTTTTGAGAAAGCGCCACAAAAA
* * * *
27373442 AAAGCCTAACGACGCCGTTTTTTGAGCTTTCGGGGATTTAGTGGCATTTTTAAGTAAGCGCCGCT
127 AAAGCCCAACGACGCCGTTTTCTGAGCTTTCGGGGATTTAGTAGCATTTTTAAGTAAACGCCGCT
*
27373507 AATGCTCAGGGCTTTAGCGGCATTTTTGAG
192 AATGCTCAGGGCTTTAACGGCATTTTTGAG
* * * * * *
27373537 AAAGCGTCGCAACAAAAACTAAGCCCAACGGCACTGTTTTCTGA-CAATTT-GTGAGCTTTAGCG
1 AAAGCGCCGCAA-AAAAACTAAGCCCAACGACGCCGTTTTCTGAGC--TTTCG-GGGATTTAGCG
* * ** *
27373600 GCATTTTAAGAATGCGCCGCTAATGCTTAGGGCTTTAGCGGCGTTTTTGTTAAAGCGCCGCAAAA
62 GCGTTTTAAGAA-GCGCCGCTAATGCTCAGGGCTTTAGCGGCGTTTTTGAGAAAGCGCCACAAAA
27373665 AAA
126 AAA
27373668 CCTAAGCCCA
Statistics
Matches: 312, Mismatches: 33, Indels: 22
0.85 0.09 0.06
Matches are distributed among these distances:
223 3 0.01
224 171 0.55
225 23 0.07
226 20 0.06
227 94 0.30
228 1 0.00
ACGTcount: A:0.26, C:0.22, G:0.25, T:0.27
Consensus pattern (221 bp):
AAAGCGCCGCAAAAAAACTAAGCCCAACGACGCCGTTTTCTGAGCTTTCGGGGATTTAGCGGCGT
TTTAAGAAGCGCCGCTAATGCTCAGGGCTTTAGCGGCGTTTTTGAGAAAGCGCCACAAAAAAAAG
CCCAACGACGCCGTTTTCTGAGCTTTCGGGGATTTAGTAGCATTTTTAAGTAAACGCCGCTAATG
CTCAGGGCTTTAACGGCATTTTTGAG
Found at i:27375783 original size:147 final size:147
Alignment explanation
Indices: 27375648--27375948 Score: 342
Period size: 147 Copynumber: 2.0 Consensus size: 147
27375638 GAGATTTTGT
** * **
27375648 CGTTTTGTCTATGGTATTAGTGGCG-TTTTTCTGGAAACGCCACAAGCTTGA-GTTAACTGTTGC
1 CGTTTTGTAAATGGTATTAGTGGCGTTTTTTC-GGAAACGCCACAAGCTTGACG-TAAATGTTAA
* * *
27375711 GGAAACGGCAT-CG-TTTGAACTTATAGTTGGTGGCGCTTTACTTAAAACGCCACAAAATTG-TT
64 GGAAACGAC-TGCGTTTTG-ACTTATAGTTAGTGGCGCTTTACTTAAAACGCCACAAAAATGTTT
* *
27375773 CTAAGATTTATAGAAACGCTGC
127 C-AACATTTATTGAAACGCTGC
* ** *
27375795 CGTTTTGTAAATGTTATTAGTGGCGTTTTTTCGGAAACGCCACGGGCTTGACGTAAATGTTAATG
1 CGTTTTGTAAATGGTATTAGTGGCGTTTTTTCGGAAACGCCACAAGCTTGACGTAAATGTTAAGG
* * *
27375860 AAGCGACTGCGTTTTGACTTATAGTTAGTGGCGCTTTGCTTAAAACGCCGCAAAAATGTTTCAAC
66 AAACGACTGCGTTTTGACTTATAGTTAGTGGCGCTTTACTTAAAACGCCACAAAAATGTTTCAAC
* * *
27375925 ATTTATTGATACGATGT
131 ATTTATTGAAACGCTGC
27375942 CGTTTTG
1 CGTTTTG
27375949 CTATATTATT
Statistics
Matches: 129, Mismatches: 20, Indels: 10
0.81 0.13 0.06
Matches are distributed among these distances:
146 1 0.01
147 114 0.88
148 14 0.11
ACGTcount: A:0.25, C:0.17, G:0.23, T:0.35
Consensus pattern (147 bp):
CGTTTTGTAAATGGTATTAGTGGCGTTTTTTCGGAAACGCCACAAGCTTGACGTAAATGTTAAGG
AAACGACTGCGTTTTGACTTATAGTTAGTGGCGCTTTACTTAAAACGCCACAAAAATGTTTCAAC
ATTTATTGAAACGCTGC
Found at i:27376022 original size:147 final size:146
Alignment explanation
Indices: 27375724--27376042 Score: 340
Period size: 147 Copynumber: 2.2 Consensus size: 146
27375714 AACGGCATCG
* * *
27375724 TTTGAACTTATAGTTGGTGGCGCTTTACTTAAAACGCCACAAAATTGTTCTAAGATTTATAGAAA
1 TTTG-ACTTATAGTTAGTGGCGCTTTACTTAAAACGCCACAAAAATGTTCTAACATTTATAGAAA
* * * * * *
27375789 CGCTGCCGTTTTGTAAATGTTATTAGTGGCGTTTTTTCGGAAACGCCACGGGCTTGACGTAAATG
65 CGATGCCGTTTTGT-AATATTATTAGCGGCGTTTATTCGAAAACGCCACGGACTTGACGTAAATG
*
27375854 TTAATGAAGCGACTGCGT
129 TTAATGAAACGACTGCGT
* * * *
27375872 TTTGACTTATAGTTAGTGGCGCTTTGCTTAAAACGCCGCAAAAATGTT-TCAACATTTATTGATA
1 TTTGACTTATAGTTAGTGGCGCTTTACTTAAAACGCCACAAAAATGTTCT-AACATTTATAGAAA
* * * * **
27375936 CGATGTCGTTTTGCT-ATATTATTTGCGGCGTTTATTCGAAAATGCCA-GAGATTTGA-GCTATT
65 CGATGCCGTTTTG-TAATATTATTAGCGGCGTTTATTCGAAAACGCCACG-GACTTGACG-TAAA
* *
27375998 TGTTTATGAAACGATTGCGTT
127 TGTTAATGAAACGACTGCG-T
*
27376019 TTTGACCTATAGTTAGTGGCGCTT
1 TTTGACTTATAGTTAGTGGCGCTT
27376043 ATATATAAAC
Statistics
Matches: 143, Mismatches: 23, Indels: 11
0.81 0.13 0.06
Matches are distributed among these distances:
145 2 0.01
146 50 0.35
147 86 0.60
148 5 0.03
ACGTcount: A:0.26, C:0.15, G:0.22, T:0.37
Consensus pattern (146 bp):
TTTGACTTATAGTTAGTGGCGCTTTACTTAAAACGCCACAAAAATGTTCTAACATTTATAGAAAC
GATGCCGTTTTGTAATATTATTAGCGGCGTTTATTCGAAAACGCCACGGACTTGACGTAAATGTT
AATGAAACGACTGCGT
Found at i:27376703 original size:6 final size:6
Alignment explanation
Indices: 27376692--27376721 Score: 60
Period size: 6 Copynumber: 5.0 Consensus size: 6
27376682 GCTTTGCTCC
27376692 TTTGGA TTTGGA TTTGGA TTTGGA TTTGGA
1 TTTGGA TTTGGA TTTGGA TTTGGA TTTGGA
27376722 ACAATTTTAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 24 1.00
ACGTcount: A:0.17, C:0.00, G:0.33, T:0.50
Consensus pattern (6 bp):
TTTGGA
Found at i:27377354 original size:21 final size:21
Alignment explanation
Indices: 27377330--27377371 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
27377320 AAAGAGTGCA
27377330 GTGGATGAAACCCAATTAGCT
1 GTGGATGAAACCCAATTAGCT
27377351 GTGGATGAAACCCAATTAGCT
1 GTGGATGAAACCCAATTAGCT
27377372 ATTAATGTGA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.33, C:0.19, G:0.24, T:0.24
Consensus pattern (21 bp):
GTGGATGAAACCCAATTAGCT
Found at i:27377647 original size:13 final size:13
Alignment explanation
Indices: 27377631--27377796 Score: 129
Period size: 13 Copynumber: 12.5 Consensus size: 13
27377621 TTACTAAAAT
*
27377631 TTACTTTAATATA
1 TTACTTAAATATA
*
27377644 TTACTTGAATATA
1 TTACTTAAATATA
*
27377657 TTACTTAAATAAA
1 TTACTTAAATATA
*
27377670 TTACTTAAATACA
1 TTACTTAAATATA
*
27377683 TTACTTACTAAAAT-
1 TTACTTA--AATATA
** *
27377697 TTGGTTAAATTTA
1 TTACTTAAATATA
*
27377710 TTACTTAAATATGT
1 TTACTTAAATAT-A
*
27377724 TTACTTAAATACA
1 TTACTTAAATATA
*
27377737 TTACTTACTAAAAT-
1 TTACTTA--AATATA
** *
27377751 TTGGTTAAATTTA
1 TTACTTAAATATA
*
27377764 TTACTTAAATATG
1 TTACTTAAATATA
*
27377777 TTACTTAAATACA
1 TTACTTAAATATA
27377790 TTACTTA
1 TTACTTA
27377797 CTAAAATTTA
Statistics
Matches: 118, Mismatches: 28, Indels: 14
0.74 0.17 0.09
Matches are distributed among these distances:
12 6 0.05
13 85 0.72
14 21 0.18
15 6 0.05
ACGTcount: A:0.40, C:0.10, G:0.04, T:0.46
Consensus pattern (13 bp):
TTACTTAAATATA
Found at i:27377712 original size:27 final size:27
Alignment explanation
Indices: 27377644--27377806 Score: 131
Period size: 27 Copynumber: 6.1 Consensus size: 27
27377634 CTTTAATATA
* * *
27377644 TTACTTGAATATATTACTTA--AATAAA
1 TTACTTAAATACATTACTTACTAA-AAT
27377670 TTACTTAAATACATTACTTACTAAAAT
1 TTACTTAAATACATTACTTACTAAAAT
** ** *
27377697 TTGGTTAAATTTATTACTTA--AATATGT
1 TTACTTAAATACATTACTTACTAA-A-AT
27377724 TTACTTAAATACATTACTTACTAAAAT
1 TTACTTAAATACATTACTTACTAAAAT
** ** *
27377751 TTGGTTAAATTTATTACTTA--AATAT
1 TTACTTAAATACATTACTTACTAAAAT
27377776 GTTACTTAAATACATTACTTACTAAAAT
1 -TTACTTAAATACATTACTTACTAAAAT
27377804 TTA
1 TTA
27377807 AGTATATATT
Statistics
Matches: 105, Mismatches: 23, Indels: 17
0.72 0.16 0.12
Matches are distributed among these distances:
25 6 0.06
26 35 0.33
27 55 0.52
28 7 0.07
29 2 0.02
ACGTcount: A:0.41, C:0.10, G:0.04, T:0.45
Consensus pattern (27 bp):
TTACTTAAATACATTACTTACTAAAAT
Found at i:27377736 original size:54 final size:53
Alignment explanation
Indices: 27377655--27377805 Score: 275
Period size: 54 Copynumber: 2.8 Consensus size: 53
27377645 TACTTGAATA
**
27377655 TATTACTTAAATAAATTACTTAAATACATTACTTACTAAAATTTGGTTAAATT
1 TATTACTTAAATATGTTACTTAAATACATTACTTACTAAAATTTGGTTAAATT
27377708 TATTACTTAAATATGTTTACTTAAATACATTACTTACTAAAATTTGGTTAAATT
1 TATTACTTAAATATG-TTACTTAAATACATTACTTACTAAAATTTGGTTAAATT
27377762 TATTACTTAAATATGTTACTTAAATACATTACTTACTAAAATTT
1 TATTACTTAAATATGTTACTTAAATACATTACTTACTAAAATTT
27377806 AAGTATATAT
Statistics
Matches: 95, Mismatches: 2, Indels: 2
0.96 0.02 0.02
Matches are distributed among these distances:
53 42 0.44
54 53 0.56
ACGTcount: A:0.41, C:0.10, G:0.04, T:0.45
Consensus pattern (53 bp):
TATTACTTAAATATGTTACTTAAATACATTACTTACTAAAATTTGGTTAAATT
Found at i:27377893 original size:9 final size:9
Alignment explanation
Indices: 27377879--27377908 Score: 51
Period size: 9 Copynumber: 3.3 Consensus size: 9
27377869 GTTAAATTTA
27377879 TTACATTAC
1 TTACATTAC
27377888 TTACATTAC
1 TTACATTAC
*
27377897 TTACATAAC
1 TTACATTAC
27377906 TTA
1 TTA
27377909 TATAAAATTT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.37, C:0.20, G:0.00, T:0.43
Consensus pattern (9 bp):
TTACATTAC
Found at i:27378021 original size:20 final size:19
Alignment explanation
Indices: 27377996--27378077 Score: 63
Period size: 17 Copynumber: 4.6 Consensus size: 19
27377986 AAACTTGCAT
*
27377996 AACTTACGTAATAACATAAC
1 AACTTACATAAT-ACATAAC
*
27378016 AACTTACATAATACATAGC
1 AACTTACATAATACATAAC
27378035 -A--TACATAACTGACAT---
1 AACTTACATAA-T-ACATAAC
27378050 AACTTACATAATACA-AA-
1 AACTTACATAATACATAAC
27378067 AACTTACATAA
1 AACTTACATAA
27378078 CTTAAATATC
Statistics
Matches: 53, Mismatches: 2, Indels: 17
0.74 0.03 0.24
Matches are distributed among these distances:
16 11 0.21
17 13 0.25
18 12 0.23
19 6 0.11
20 11 0.21
ACGTcount: A:0.51, C:0.20, G:0.04, T:0.26
Consensus pattern (19 bp):
AACTTACATAATACATAAC
Found at i:27378079 original size:9 final size:9
Alignment explanation
Indices: 27378016--27378442 Score: 266
Period size: 9 Copynumber: 49.7 Consensus size: 9
27378006 ATAACATAAC
27378016 AACTTACAT
1 AACTTACAT
27378025 AA--TACAT
1 AACTTACAT
* *
27378032 AGCATACAT
1 AACTTACAT
*
27378041 AACTGACAT
1 AACTTACAT
27378050 AACTTACAT
1 AACTTACAT
*
27378059 AA--TACAAA
1 AACTTAC-AT
27378067 AACTTACAT
1 AACTTACAT
*
27378076 AACTTAAAT
1 AACTTACAT
* *
27378085 ATCTTACAC
1 AACTTACAT
27378094 AACTTACAT
1 AACTTACAT
*
27378103 AACCTACAT
1 AACTTACAT
27378112 AA--TACATTT
1 AACTTACA--T
27378121 AACTTACAT
1 AACTTACAT
27378130 AACTTACAT
1 AACTTACAT
*
27378139 AA-TATATAAT
1 AACT-TA-CAT
27378149 AACTTAC--
1 AACTTACAT
27378156 AACTTACAT
1 AACTTACAT
*
27378165 AACATACAT
1 AACTTACAT
* **
27378174 TACTTTGAT
1 AACTTACAT
27378183 AACTTACAT
1 AACTTACAT
27378192 AACTTACAT
1 AACTTACAT
*
27378201 AA--TACAC
1 AACTTACAT
* *
27378208 AA-ATATAT
1 AACTTACAT
* *
27378216 AGCTTACTT
1 AACTTACAT
27378225 AA--TACAT
1 AACTTACAT
27378232 AACTTACAT
1 AACTTACAT
27378241 AACTT--AT
1 AACTTACAT
*
27378248 ACACGTACAT
1 A-ACTTACAT
27378258 AACTTACAT
1 AACTTACAT
*
27378267 AA--TACAA
1 AACTTACAT
27378274 AACTTACAT
1 AACTTACAT
*
27378283 AACTTAAAT
1 AACTTACAT
* *
27378292 ATCTTACAC
1 AACTTACAT
27378301 AACTTACAT
1 AACTTACAT
*
27378310 AACCTACAT
1 AACTTACAT
27378319 AA--T--A-
1 AACTTACAT
27378323 AACTTACAT
1 AACTTACAT
*
27378332 AACCTACAT
1 AACTTACAT
27378341 AA--TACATTT
1 AACTTACA--T
27378350 AACTTACAT
1 AACTTACAT
*
27378359 AATACATA-AT
1 -A-ACTTACAT
27378369 AACTTAC--
1 AACTTACAT
27378376 AACTTACAT
1 AACTTACAT
*
27378385 AACATACAT
1 AACTTACAT
* **
27378394 TACTTTGAT
1 AACTTACAT
27378403 AACTTACAT
1 AACTTACAT
27378412 AACTTACAT
1 AACTTACAT
*
27378421 AA--TACAC
1 AACTTACAT
27378428 AACTTACAT
1 AACTTACAT
*
27378437 AGCTTA
1 AACTTA
27378443 TACACGAATA
Statistics
Matches: 321, Mismatches: 58, Indels: 78
0.70 0.13 0.17
Matches are distributed among these distances:
4 2 0.01
5 1 0.00
6 1 0.00
7 59 0.18
8 16 0.05
9 214 0.67
10 15 0.05
11 13 0.04
ACGTcount: A:0.46, C:0.20, G:0.02, T:0.32
Consensus pattern (9 bp):
AACTTACAT
Found at i:27378079 original size:80 final size:79
Alignment explanation
Indices: 27377986--27378172 Score: 206
Period size: 80 Copynumber: 2.3 Consensus size: 79
27377976 GCTTATATAT
*
27377986 AAACTTGCATAACTTACGTAATAACATA-ACAACTTACATAA-TACATAGCATACA-TAACTGAC
1 AAACTTACATAACTTA---AATAACATACACAACTTACATAACTACATA--ATACATTAACTGAC
27378048 ATAACTTACATAATACA-A
61 ATAACTTACATAATACATA
* * *
27378066 AAACTTACATAACTTAAATATCTTACACAACTTACATAACCTACATAATACATTTAACTTACATA
1 AAACTTACATAACTTAAATAACATACACAACTTACATAA-CTACATAATACA-TTAACTGACATA
*
27378131 ACTTACATAATATATA
64 ACTTACATAATACATA
*
27378147 ATAACTTAC--AACTTACATAACATACA
1 A-AACTTACATAACTTAAATAACATACA
27378173 TTACTTTGAT
Statistics
Matches: 92, Mismatches: 8, Indels: 14
0.81 0.07 0.12
Matches are distributed among these distances:
77 7 0.08
78 18 0.20
80 58 0.63
81 2 0.02
82 7 0.08
ACGTcount: A:0.48, C:0.20, G:0.02, T:0.29
Consensus pattern (79 bp):
AAACTTACATAACTTAAATAACATACACAACTTACATAACTACATAATACATTAACTGACATAAC
TTACATAATACATA
Found at i:27378091 original size:35 final size:34
Alignment explanation
Indices: 27378016--27378092 Score: 91
Period size: 35 Copynumber: 2.2 Consensus size: 34
27378006 ATAACATAAC
* * *
27378016 AACTTACATAATACATAGCATACATAACTGACAT
1 AACTTACATAATACAAAACATACATAACTGAAAT
* *
27378050 AACTTACATAATACAAAAACTTACATAACTTAAAT
1 AACTTACATAATAC-AAAACATACATAACTGAAAT
*
27378085 ATCTTACA
1 AACTTACA
27378093 CAACTTACAT
Statistics
Matches: 36, Mismatches: 6, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
34 14 0.39
35 22 0.61
ACGTcount: A:0.49, C:0.19, G:0.03, T:0.29
Consensus pattern (34 bp):
AACTTACATAATACAAAACATACATAACTGAAAT
Found at i:27378112 original size:71 final size:71
Alignment explanation
Indices: 27378027--27378413 Score: 275
Period size: 71 Copynumber: 5.5 Consensus size: 71
27378017 ACTTACATAA
* * *
27378027 TACATAGCATACATAACTGACATAACTTACATAATACAAAAACTTACATAACTTAAATATCTTAC
1 TACATAACCTACATAACTTACATAACTTACATAATACAAAAACTTACATAACTTAAATATCTTAC
27378092 ACAACT
66 ACAACT
* *
27378098 TACATAACCTACATAA--TACATTTAACTTACATAACTTACATAATA-TATA-ATAACTTACA-A
1 TACATAACCTACATAACTTACA--TAACTTACATAA--TACA-AAAACT-TACATAACTTAAATA
* *
27378158 -CTTACATAACA
60 TCTTACACAACT
* * ** * * * * **
27378169 TACATTACTTTGATAACTTACATAACTTACATAATACACAAA--TATATAGCTT-ACT-TAATAC
1 TACATAACCTACATAACTTACATAACTTACATAATACAAAAACTTACATAACTTAAATATCTTAC
*
27378230 ATAACT
66 ACAACT
* *
27378236 TACATAA-CT-TATACACGTACATAACTTACATAATAC-AAAACTTACATAACTTAAATATCTTA
1 TACATAACCTACATA-ACTTACATAACTTACATAATACAAAAACTTACATAACTTAAATATCTTA
27378298 CACAACT
65 CACAACT
* ** *
27378305 TACATAACCTACATAATAAACTTACATAACCTACATAATACATTTAACTTACATAA-TACATAAT
1 TACATAACCTAC---AT-AACTTACATAACTTACATAATACA-AAAACTTACATAACT-TA-AAT
*
27378369 AACTT--ACAACT
59 ATCTTACACAACT
* * **
27378380 TACATAACATACATTACTTTGATAACTTACATAA
1 TACATAACCTACATAACTTACATAACTTACATAA
27378414 CTTACATAAT
Statistics
Matches: 248, Mismatches: 42, Indels: 52
0.73 0.12 0.15
Matches are distributed among these distances:
65 6 0.02
66 24 0.10
67 28 0.11
68 4 0.02
69 23 0.09
70 2 0.01
71 75 0.30
72 3 0.01
73 18 0.07
74 27 0.11
75 19 0.08
76 12 0.05
77 7 0.03
ACGTcount: A:0.47, C:0.20, G:0.02, T:0.32
Consensus pattern (71 bp):
TACATAACCTACATAACTTACATAACTTACATAATACAAAAACTTACATAACTTAAATATCTTAC
ACAACT
Found at i:27378124 original size:27 final size:27
Alignment explanation
Indices: 27377987--27378246 Score: 121
Period size: 27 Copynumber: 9.6 Consensus size: 27
27377977 CTTATATATA
* * **
27377987 AACTTGCATAACTTACGTAATAACATAAC
1 AACTTACATAACTTACATAAT-ACAT-TT
27378016 AACTTACATAA--TACATAGCATACA--T
1 AACTTACATAACTTACATA--ATACATTT
* **
27378041 AACTGACATAACTTACATAATACA-AA
1 AACTTACATAACTTACATAATACATTT
* * *
27378067 AACTTACATAACTTAAATATCTTACA--C
1 AACTTACATAACTTACATA--ATACATTT
*
27378094 AACTTACATAACCTACATAATACATTT
1 AACTTACATAACTTACATAATACATTT
* *
27378121 AACTTACATAACTTACATAATATATAAT
1 AACTTACATAACTTACATAATACAT-TT
* * *
27378149 AACTTACAACTTACATAACATACATTACTTTGAT
1 AACTTAC-A-TAAC-TTACATA-A-TACATT--T
*
27378183 AACTTACATAACTTACATAATACA--C
1 AACTTACATAACTTACATAATACATTT
* * * *
27378208 AA-ATATATAGCTTACTTAATACA--T
1 AACTTACATAACTTACATAATACATTT
27378232 AACTTACATAACTTA
1 AACTTACATAACTTA
27378247 TACACGTACA
Statistics
Matches: 180, Mismatches: 33, Indels: 40
0.71 0.13 0.16
Matches are distributed among these distances:
24 19 0.11
25 30 0.17
26 17 0.09
27 51 0.28
28 15 0.08
29 16 0.09
30 4 0.02
31 12 0.07
32 4 0.02
33 4 0.02
34 8 0.04
ACGTcount: A:0.47, C:0.20, G:0.02, T:0.32
Consensus pattern (27 bp):
AACTTACATAACTTACATAATACATTT
Found at i:27378132 original size:89 final size:87
Alignment explanation
Indices: 27378020--27378233 Score: 202
Period size: 89 Copynumber: 2.4 Consensus size: 87
27378010 CATAACAACT
* *
27378020 TACATAATACATAGCATACATAACTGACATAACTTACATAAT-AC-AAAAACTTACATAACTTAA
1 TACATAATACATAACATACATAACTGACATAA--TACATAATAACTAAAAACTTACATAACATAA
27378083 A-TATCTTACACAACTTACATAACC
64 ATTA-CTTACACAACTTACATAACC
* * * * * *
27378107 TACATAATACATTTAACTTACATAACTTACATAATATATAATAACTTACAACTTACATAACATAC
1 TACATAATACA--TAACATACATAACTGACATAATACATAATAACTAAAAACTTACATAACATAA
** * *
27378172 ATTACTTTGATAACTTACATAACT
64 ATTACTTACACAACTTACATAACC
* * * * *
27378196 TACATAATACACAA-ATATATAGCTTACTTAATACATAA
1 TACATAATACATAACATACATAACTGACATAATACATAA
27378234 CTTACATAAC
Statistics
Matches: 104, Mismatches: 18, Indels: 11
0.78 0.14 0.08
Matches are distributed among these distances:
86 19 0.18
87 20 0.19
88 2 0.02
89 61 0.59
90 2 0.02
ACGTcount: A:0.47, C:0.19, G:0.02, T:0.32
Consensus pattern (87 bp):
TACATAATACATAACATACATAACTGACATAATACATAATAACTAAAAACTTACATAACATAAAT
TACTTACACAACTTACATAACC
Found at i:27378158 original size:62 final size:61
Alignment explanation
Indices: 27378067--27378204 Score: 174
Period size: 62 Copynumber: 2.2 Consensus size: 61
27378057 ATAATACAAA
* *
27378067 AACTTACATAACT-TAAATATCTTACACAACTTACATAACCTACATAATACATT-TAACTTACAT
1 AACTTACATAA-TATAAATAACTTA-ACAACTTACATAACATACAT--TACATTATAACTTACAT
*
27378130 AACTTACATAATATATAATAACTT-ACAACTTACATAACATACATTACTTTGATAACTTACAT
1 AACTTACATAATATA-AATAACTTAACAACTTACATAACATACATTACATT-ATAACTTACAT
27378192 AACTTACATAATA
1 AACTTACATAATA
27378205 CACAAATATA
Statistics
Matches: 68, Mismatches: 3, Indels: 9
0.85 0.04 0.11
Matches are distributed among these distances:
60 5 0.07
62 43 0.63
63 13 0.19
64 7 0.10
ACGTcount: A:0.46, C:0.20, G:0.01, T:0.34
Consensus pattern (61 bp):
AACTTACATAATATAAATAACTTAACAACTTACATAACATACATTACATTATAACTTACAT
Found at i:27378278 original size:42 final size:43
Alignment explanation
Indices: 27378218--27378311 Score: 127
Period size: 42 Copynumber: 2.2 Consensus size: 43
27378208 AAATATATAG
* * * *
27378218 CTTACTTAATACATAACTTACATAACTTATACA-CGTACATAA
1 CTTACATAATACAAAACTTACATAACTTAAACATCGTACACAA
* *
27378260 CTTACATAATACAAAACTTACATAACTTAAATATCTTACACAA
1 CTTACATAATACAAAACTTACATAACTTAAACATCGTACACAA
27378303 CTTACATAA
1 CTTACATAA
27378312 CCTACATAAT
Statistics
Matches: 45, Mismatches: 6, Indels: 1
0.87 0.12 0.02
Matches are distributed among these distances:
42 29 0.64
43 16 0.36
ACGTcount: A:0.46, C:0.21, G:0.01, T:0.32
Consensus pattern (43 bp):
CTTACATAATACAAAACTTACATAACTTAAACATCGTACACAA
Found at i:27378335 original size:22 final size:22
Alignment explanation
Indices: 27378301--27378344 Score: 88
Period size: 22 Copynumber: 2.0 Consensus size: 22
27378291 TATCTTACAC
27378301 AACTTACATAACCTACATAATA
1 AACTTACATAACCTACATAATA
27378323 AACTTACATAACCTACATAATA
1 AACTTACATAACCTACATAATA
27378345 CATTTAACTT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.50, C:0.23, G:0.00, T:0.27
Consensus pattern (22 bp):
AACTTACATAACCTACATAATA
Found at i:27383985 original size:21 final size:21
Alignment explanation
Indices: 27383961--27384029 Score: 75
Period size: 21 Copynumber: 3.3 Consensus size: 21
27383951 CTACAACTTA
*
27383961 AAGCAGAGGCGGCAACGAGGG
1 AAGCAGAGGCGGCAACGAGAG
* * *
27383982 AAGCAAAGGCTGCAGCGAGAG
1 AAGCAGAGGCGGCAACGAGAG
* * *
27384003 AAGCAGAGGCTGCAGCGCGAG
1 AAGCAGAGGCGGCAACGAGAG
27384024 AAGCAG
1 AAGCAG
27384030 CGAGAGAAGC
Statistics
Matches: 42, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 42 1.00
ACGTcount: A:0.35, C:0.20, G:0.42, T:0.03
Consensus pattern (21 bp):
AAGCAGAGGCGGCAACGAGAG
Found at i:27384509 original size:44 final size:42
Alignment explanation
Indices: 27384413--27384640 Score: 232
Period size: 44 Copynumber: 5.4 Consensus size: 42
27384403 AATCCCAAAA
* *
27384413 TTAGTGGCGTTTTTAT-AAAAGCGCCGCTAAAGAACATTA-CTT
1 TTAGCGGCGTTTTT-TGAAAAGCGCCGCTAAAGAACATGATC-T
* * **
27384455 TTTGCAGCGTTCGTGATGAAAAGCGCCGCTAAAGAACATGATCT
1 TTAGCGGCGTT--TTTTGAAAAGCGCCGCTAAAGAACATGATCT
* * * *
27384499 ATAGCGGCGTTTTTTTACCAAGCGCCGCTAAA-AGACTATGTTCT
1 TTAGCGGCGTTTTTTGA-AAAGCGCCGCTAAAGA-AC-ATGATCT
**
27384543 TTAGCGGCGTTTTTTGTTAAGCGCCGCTAAAGAACATGATCT
1 TTAGCGGCGTTTTTTGAAAAGCGCCGCTAAAGAACATGATCT
*
27384585 TTAGCGGCGTCTTTTT-TAAA-CGCCGCTAAAGAACATGATCT
1 TTAGCGGCGT-TTTTTGAAAAGCGCCGCTAAAGAACATGATCT
27384626 TTAGCGGCGTTTTTT
1 TTAGCGGCGTTTTTT
27384641 TCTGTAAATG
Statistics
Matches: 157, Mismatches: 20, Indels: 20
0.80 0.10 0.10
Matches are distributed among these distances:
40 5 0.03
41 31 0.20
42 31 0.20
43 36 0.23
44 53 0.34
45 1 0.01
ACGTcount: A:0.26, C:0.20, G:0.22, T:0.32
Consensus pattern (42 bp):
TTAGCGGCGTTTTTTGAAAAGCGCCGCTAAAGAACATGATCT
Found at i:27384569 original size:86 final size:83
Alignment explanation
Indices: 27384475--27384640 Score: 255
Period size: 86 Copynumber: 2.0 Consensus size: 83
27384465 TCGTGATGAA
27384475 AAGCGCCGCTAAAGAACATGATCTATAGCGGCGT-TTTTTTACCAAGCGCCGCTAAA-AGACTAT
1 AAGCGCCGCTAAAGAACATGATCTATAGCGGCGTCTTTTTTA--AA-CGCCGCTAAAGA-AC-AT
*
27384538 GTTCTTTAGCGGCGTTTTTTGTT
61 GATCTTTAGCGGCGTTTTTTGTT
*
27384561 AAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTCTTTTTTAAACGCCGCTAAAGAACATGATCT
1 AAGCGCCGCTAAAGAACATGATCTATAGCGGCGTCTTTTTTAAACGCCGCTAAAGAACATGATCT
27384626 TTAGCGGCGTTTTTT
66 TTAGCGGCGTTTTTT
27384641 TCTGTAAATG
Statistics
Matches: 76, Mismatches: 2, Indels: 7
0.89 0.02 0.08
Matches are distributed among these distances:
83 21 0.28
84 12 0.16
85 3 0.04
86 33 0.43
87 7 0.09
ACGTcount: A:0.25, C:0.21, G:0.22, T:0.32
Consensus pattern (83 bp):
AAGCGCCGCTAAAGAACATGATCTATAGCGGCGTCTTTTTTAAACGCCGCTAAAGAACATGATCT
TTAGCGGCGTTTTTTGTT
Found at i:27384617 original size:41 final size:40
Alignment explanation
Indices: 27384478--27384641 Score: 222
Period size: 41 Copynumber: 3.9 Consensus size: 40
27384468 TGATGAAAAG
*
27384478 CGCCGCTAAAGAACATGATCTATAGCGGCGTTTTTTTACCAA
1 CGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTTA--AA
* *
27384520 GCGCCGCTAAA-AGACTATGTTCTTTAGCGGCGTTTTTTGTTAAG
1 -CGCCGCTAAAGA-AC-ATGATCTTTAGCGGCG-TTTTT-TTAAA
27384564 CGCCGCTAAAGAACATGATCTTTAGCGGCGTCTTTTTTAAA
1 CGCCGCTAAAGAACATGATCTTTAGCGGCGT-TTTTTTAAA
27384605 CGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTT
1 CGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTT
27384642 CTGTAAATGC
Statistics
Matches: 110, Mismatches: 5, Indels: 15
0.85 0.04 0.12
Matches are distributed among these distances:
40 6 0.05
41 36 0.33
42 20 0.18
43 24 0.22
44 16 0.15
45 5 0.05
46 3 0.03
ACGTcount: A:0.24, C:0.21, G:0.21, T:0.33
Consensus pattern (40 bp):
CGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTTAAA
Found at i:27384763 original size:22 final size:22
Alignment explanation
Indices: 27384720--27384763 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
27384710 TAGTGGCACT
* **
27384720 AAAAAGCGCCGCTAAAGGCCTA
1 AAAAAACGCCGCTAAAAACCTA
27384742 AAAAAACGCCGCTAAAAACCTA
1 AAAAAACGCCGCTAAAAACCTA
27384764 TTCTGGTTTA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.48, C:0.27, G:0.16, T:0.09
Consensus pattern (22 bp):
AAAAAACGCCGCTAAAAACCTA
Found at i:27386793 original size:16 final size:18
Alignment explanation
Indices: 27386763--27386795 Score: 52
Period size: 16 Copynumber: 1.9 Consensus size: 18
27386753 CATATATGAT
27386763 ATTATAAAATCATCCAAA
1 ATTATAAAATCATCCAAA
27386781 ATTA-AAAAT-ATCCAA
1 ATTATAAAATCATCCAA
27386796 TGTCCAAGTT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 6 0.40
17 5 0.33
18 4 0.27
ACGTcount: A:0.58, C:0.15, G:0.00, T:0.27
Consensus pattern (18 bp):
ATTATAAAATCATCCAAA
Found at i:27399451 original size:13 final size:13
Alignment explanation
Indices: 27399433--27399462 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
27399423 AGCCCAAACT
27399433 CAATTACCCAACC
1 CAATTACCCAACC
*
27399446 CAATTACTCAACC
1 CAATTACCCAACC
27399459 CAAT
1 CAAT
27399463 AAAACTAAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.40, C:0.40, G:0.00, T:0.20
Consensus pattern (13 bp):
CAATTACCCAACC
Found at i:27399615 original size:9 final size:9
Alignment explanation
Indices: 27399603--27399697 Score: 102
Period size: 9 Copynumber: 10.4 Consensus size: 9
27399593 AAATAAAAAA
27399603 AATTCGGGT
1 AATTCGGGT
*
27399612 AATTCGAGT
1 AATTCGGGT
* *
27399621 ATTTTTCAG-T
1 A--ATTCGGGT
*
27399631 AATTCGGTT
1 AATTCGGGT
*
27399640 AATTCGGTT
1 AATTCGGGT
*
27399649 AATTCGGTT
1 AATTCGGGT
*
27399658 AATTCGGTT
1 AATTCGGGT
27399667 AATTCGGGT
1 AATTCGGGT
27399676 AATTCGGGT
1 AATTCGGGT
27399685 AATTCGGGT
1 AATTCGGGT
27399694 AATT
1 AATT
27399698 TTTAACCAAA
Statistics
Matches: 76, Mismatches: 7, Indels: 6
0.85 0.08 0.07
Matches are distributed among these distances:
8 4 0.05
9 67 0.88
10 2 0.03
11 3 0.04
ACGTcount: A:0.24, C:0.11, G:0.24, T:0.41
Consensus pattern (9 bp):
AATTCGGGT
Found at i:27400367 original size:15 final size:15
Alignment explanation
Indices: 27400335--27400405 Score: 61
Period size: 15 Copynumber: 4.7 Consensus size: 15
27400325 CACTATAGTA
* *
27400335 TCAATATCTATAGTTT
1 TCAAAATCTAGAG-TT
* *
27400351 TCAGAATCTAAAGTT
1 TCAAAATCTAGAGTT
* **
27400366 TCAAAATATAGTTTT
1 TCAAAATCTAGAGTT
27400381 TCAAAATCTAGAGTT
1 TCAAAATCTAGAGTT
*
27400396 TCATAATCTA
1 TCAAAATCTA
27400406 TAGTATTCTA
Statistics
Matches: 43, Mismatches: 12, Indels: 1
0.77 0.21 0.02
Matches are distributed among these distances:
15 33 0.77
16 10 0.23
ACGTcount: A:0.38, C:0.13, G:0.08, T:0.41
Consensus pattern (15 bp):
TCAAAATCTAGAGTT
Found at i:27404591 original size:14 final size:15
Alignment explanation
Indices: 27404572--27404600 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
27404562 TTTTTTGAAT
27404572 ATTTTAC-CCCCAAA
1 ATTTTACTCCCCAAA
27404586 ATTTTACTCCCCAAA
1 ATTTTACTCCCCAAA
27404601 CCTCCAAAAC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 7 0.50
15 7 0.50
ACGTcount: A:0.34, C:0.34, G:0.00, T:0.31
Consensus pattern (15 bp):
ATTTTACTCCCCAAA
Found at i:27405554 original size:12 final size:12
Alignment explanation
Indices: 27405537--27405561 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
27405527 TTTTAAAATT
27405537 AAATATTATAAA
1 AAATATTATAAA
27405549 AAATATTATAAA
1 AAATATTATAAA
27405561 A
1 A
27405562 TTATTATACC
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:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (12 bp):
AAATATTATAAA
Found at i:27406074 original size:71 final size:70
Alignment explanation
Indices: 27405995--27406142 Score: 183
Period size: 70 Copynumber: 2.1 Consensus size: 70
27405985 GTTTCATTTT
* * * * *
27405995 TCCA-ATTTAAATTGA-AAGTAAGCAGAGACCTTGAAATCTTGATCTGTTCACTTATTTTGTAGG
1 TCCATATTTAAATTGATAA-TAAGAAAAAACCTTGAAATATTGATCT-TTCACTTATTCTGTAGG
*
27406058 GTTTTAA
64 GTTCTAA
* * *
27406065 TCCATATTTAAATTGATAATAAGAAAAAATCTTGAAATATTGCTCTTTCTCTTATTCTGTAGGGT
1 TCCATATTTAAATTGATAATAAGAAAAAACCTTGAAATATTGATCTTTCACTTATTCTGTAGGGT
27406130 TCTAA
66 TCTAA
27406135 TCCATATT
1 TCCATATT
27406143 AGTAATTAAT
Statistics
Matches: 67, Mismatches: 9, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
70 33 0.49
71 32 0.48
72 2 0.03
ACGTcount: A:0.32, C:0.14, G:0.14, T:0.41
Consensus pattern (70 bp):
TCCATATTTAAATTGATAATAAGAAAAAACCTTGAAATATTGATCTTTCACTTATTCTGTAGGGT
TCTAA
Found at i:27413533 original size:13 final size:14
Alignment explanation
Indices: 27413492--27413538 Score: 60
Period size: 13 Copynumber: 3.2 Consensus size: 14
27413482 CTATCCTTTG
27413492 TTTTATTATATATTT
1 TTTTATTAT-TATTT
27413507 TTAGTTATTATTATTT
1 TT--TTATTATTATTT
27413523 TTTTATT-TTATTT
1 TTTTATTATTATTT
27413536 TTT
1 TTT
27413539 GCATTTATAT
Statistics
Matches: 30, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
13 9 0.30
14 5 0.17
15 2 0.07
16 7 0.23
17 7 0.23
ACGTcount: A:0.21, C:0.00, G:0.02, T:0.77
Consensus pattern (14 bp):
TTTTATTATTATTT
Found at i:27414594 original size:61 final size:62
Alignment explanation
Indices: 27414495--27414613 Score: 213
Period size: 61 Copynumber: 1.9 Consensus size: 62
27414485 CTAGATGGTT
*
27414495 GGCATTCATTTATTTTTTTTTCAAAACGAAATTATTTTTGGGATGTTGGTACAATAATTGCC
1 GGCATTCATTTATTTTTTTTTCAAAAAGAAATTATTTTTGGGATGTTGGTACAATAATTGCC
*
27414557 GGCATTCATTTA-TTTTTTTTCAAAAAGAAATTATTTTTGGGATGTTGGTACATTAAT
1 GGCATTCATTTATTTTTTTTTCAAAAAGAAATTATTTTTGGGATGTTGGTACAATAAT
27414614 AACTGTCACC
Statistics
Matches: 55, Mismatches: 2, Indels: 1
0.95 0.03 0.02
Matches are distributed among these distances:
61 43 0.78
62 12 0.22
ACGTcount: A:0.29, C:0.09, G:0.16, T:0.46
Consensus pattern (62 bp):
GGCATTCATTTATTTTTTTTTCAAAAAGAAATTATTTTTGGGATGTTGGTACAATAATTGCC
Found at i:27414630 original size:61 final size:61
Alignment explanation
Indices: 27414501--27414630 Score: 170
Period size: 61 Copynumber: 2.1 Consensus size: 61
27414491 GGTTGGCATT
* ** **
27414501 CATTTATTTTTTTTTCAAAACGAAATTATTTTTGGGATGTTGGTACAATAATTGCCGGCATT
1 CATTTA-TTTTTTTTCAAAAAGAAATTATTTTTGGGATGTTGGTACAATAATAACCGGCACC
* * *
27414563 CATTTATTTTTTTTCAAAAAGAAATTATTTTTGGGATGTTGGTACATTAATAACTGTCACC
1 CATTTATTTTTTTTCAAAAAGAAATTATTTTTGGGATGTTGGTACAATAATAACCGGCACC
*
27414624 CCTTTAT
1 CATTTAT
27414631 CTAATTAAAC
Statistics
Matches: 59, Mismatches: 9, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
61 53 0.90
62 6 0.10
ACGTcount: A:0.28, C:0.12, G:0.14, T:0.45
Consensus pattern (61 bp):
CATTTATTTTTTTTCAAAAAGAAATTATTTTTGGGATGTTGGTACAATAATAACCGGCACC
Found at i:27415113 original size:14 final size:13
Alignment explanation
Indices: 27415089--27415123 Score: 52
Period size: 13 Copynumber: 2.6 Consensus size: 13
27415079 TTTATAGATT
*
27415089 AAATTAATTTTTA
1 AAATTAAATTTTA
27415102 AAATTAAATTTTA
1 AAATTAAATTTTA
27415115 AAATATAAA
1 AAAT-TAAA
27415124 AATATGTAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
13 16 0.80
14 4 0.20
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (13 bp):
AAATTAAATTTTA
Found at i:27417385 original size:33 final size:34
Alignment explanation
Indices: 27417311--27417425 Score: 128
Period size: 33 Copynumber: 3.5 Consensus size: 34
27417301 TATTTATATG
* * *
27417311 TAAGACCGTAGTTGGGCTATGGCATTCTGG-TGA
1 TAAGACCATAATTGGGCTATGACATTCTGGATGA
* * * *
27417344 TAAAACCATAATTGGGTTATGACACTATGGATG-
1 TAAGACCATAATTGGGCTATGACATTCTGGATGA
*
27417377 TAAGACCATAGTTGGGCTATGACATTCT-GATGA
1 TAAGACCATAATTGGGCTATGACATTCTGGATGA
*
27417410 TAAGACCATAACTGGG
1 TAAGACCATAATTGGG
27417426 TTATAGCACT
Statistics
Matches: 66, Mismatches: 14, Indels: 4
0.79 0.17 0.05
Matches are distributed among these distances:
32 4 0.06
33 60 0.91
34 2 0.03
ACGTcount: A:0.30, C:0.15, G:0.26, T:0.29
Consensus pattern (34 bp):
TAAGACCATAATTGGGCTATGACATTCTGGATGA
Found at i:27417436 original size:66 final size:66
Alignment explanation
Indices: 27417308--27417450 Score: 198
Period size: 66 Copynumber: 2.2 Consensus size: 66
27417298 CGGTATTTAT
* * * * **
27417308 ATGTAAGACCGTAGTTGGGCTATGGCATTCTGGTGATAAAACCATAATTGGGTTATGACACTATG
1 ATGTAAGACCATAGTTGGGCTATGACATTCTGATGATAAAACCATAACTGGGTTATGACACTACA
*
27417373 G
66 A
*
27417374 ATGTAAGACCATAGTTGGGCTATGACATTCTGATGATAAGACCATAACTGGGTTAT-AGCACTAC
1 ATGTAAGACCATAGTTGGGCTATGACATTCTGATGATAAAACCATAACTGGGTTATGA-CACTAC
27417438 AA
65 AA
27417440 ATGTAAGACCA
1 ATGTAAGACCA
27417451 CGGCAGGGCC
Statistics
Matches: 68, Mismatches: 8, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
65 1 0.01
66 67 0.99
ACGTcount: A:0.33, C:0.15, G:0.24, T:0.28
Consensus pattern (66 bp):
ATGTAAGACCATAGTTGGGCTATGACATTCTGATGATAAAACCATAACTGGGTTATGACACTACA
A
Found at i:27419597 original size:249 final size:248
Alignment explanation
Indices: 27419138--27419612 Score: 853
Period size: 249 Copynumber: 1.9 Consensus size: 248
27419128 AAACTGTGAG
* *
27419138 GTCTGAGGTTCAAGTCCTTGGTTGCGCAATGGGGTATTTATTTTGCTGCTTGAGCCGTGTAAGTG
1 GTCTGAGGTTCAAGTCCTTGGTTGCACAATGGGGTATTTATTTTGCTGCTTGAGCCGTCTAAGTG
* * *
27419203 GCAGAGTTGGAGTGAAATACTGCCGAAGGAAGTTTGAACTGGTCATGGAGGGAGTTAAGGGGAAA
66 GCAGAGTTGGAGTGAAATACTGCCGAAAGAAGTTTGAACTGGTCATAGAGGGAGTTAAGAGGAAA
*
27419268 TCGATGGAGTGATAAGGGGGGAGAGATTTGAGGAGAGAATATTGAGATTTGGGGAGGTTGTTGTT
131 TCGATGGAGTGATAA-GGGGCAGAGATTTGAGGAGAGAATATTGAGATTTGGGGAGGTTGTTGTT
27419333 GTGGAGAGTTATATATATCCATCTCATTTGTTCTGAATGAGGGGAGATGTTGAT
195 GTGGAGAGTTATATATATCCATCTCATTTGTTCTGAATGAGGGGAGATGTTGAT
*
27419387 GTCTGAGGTTCAAGTCCTTGGTTGCACAATGGGGTATTTATTTTGCTGCTTGAGTCGTCTAAGTG
1 GTCTGAGGTTCAAGTCCTTGGTTGCACAATGGGGTATTTATTTTGCTGCTTGAGCCGTCTAAGTG
*
27419452 GCAGAGTTGGAGTGAAATATTGCCGAAAGAAGTTTGAACTGGTCATAGAGGGAGTTAAGAGGAAA
66 GCAGAGTTGGAGTGAAATACTGCCGAAAGAAGTTTGAACTGGTCATAGAGGGAGTTAAGAGGAAA
*
27419517 TCGATGGAGTGATAA-GGGCAGAGATTTGAGGAGAGAATATTGGGATTTGGGGAGGTTGTTGTTG
131 TCGATGGAGTGATAAGGGGCAGAGATTTGAGGAGAGAATATTGAGATTTGGGGAGGTTGTTGTTG
27419581 TGGAGAGTTATATATATCCATCTCATTTGTTC
196 TGGAGAGTTATATATATCCATCTCATTTGTTC
27419613 CTTGTTCTGA
Statistics
Matches: 217, Mismatches: 9, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
247 79 0.36
249 138 0.64
ACGTcount: A:0.25, C:0.09, G:0.34, T:0.31
Consensus pattern (248 bp):
GTCTGAGGTTCAAGTCCTTGGTTGCACAATGGGGTATTTATTTTGCTGCTTGAGCCGTCTAAGTG
GCAGAGTTGGAGTGAAATACTGCCGAAAGAAGTTTGAACTGGTCATAGAGGGAGTTAAGAGGAAA
TCGATGGAGTGATAAGGGGCAGAGATTTGAGGAGAGAATATTGAGATTTGGGGAGGTTGTTGTTG
TGGAGAGTTATATATATCCATCTCATTTGTTCTGAATGAGGGGAGATGTTGAT
Found at i:27420458 original size:25 final size:27
Alignment explanation
Indices: 27420218--27420512 Score: 252
Period size: 27 Copynumber: 11.1 Consensus size: 27
27420208 GTTGATATCC
27420218 CCGAAATACCCCTA-ATGGGTAAAATGA
1 CCGAAATACCCCTATA-GGGTAAAATGA
* * *
27420245 CAGAAATACCCTCGAT-TGGTAAAATGA
1 CCGAAATACCC-CTATAGGGTAAAATGA
** *
27420272 ATGAAATACCCTCGAT-GGGTAAAATGA
1 CCGAAATACCC-CTATAGGGTAAAATGA
* *
27420299 CTGAAATACCCTCGA-AGGGTAAAATGA
1 CCGAAATACCC-CTATAGGGTAAAATGA
* * *
27420326 CCAAAATACTCTCGAT-GGGTAAAATGA
1 CCGAAATAC-CCCTATAGGGTAAAATGA
*
27420353 CCGAAATACCCTCGAT-GGGTAAAATGA
1 CCGAAATACCC-CTATAGGGTAAAATGA
* *
27420380 CTGAAATGTCCCC-ATAGGGTAAAATGA
1 CCGAAAT-ACCCCTATAGGGTAAAATGA
* * * *
27420407 CTGAAATACCCCTGTAAGGTAGAAT-A
1 CCGAAATACCCCTATAGGGTAAAATGA
*
27420433 CCGAAATACCCC-ATAGGGTAGAAT-A
1 CCGAAATACCCCTATAGGGTAAAATGA
*
27420458 CCGAAATA-CCCTATAGGGCAAAATGA
1 CCGAAATACCCCTATAGGGTAAAATGA
* *
27420484 CCGTAATACCCCTGTAGGGTAAAATGA
1 CCGAAATACCCCTATAGGGTAAAATGA
27420511 CC
1 CC
27420513 ATAGGCCCAA
Statistics
Matches: 230, Mismatches: 26, Indels: 24
0.82 0.09 0.09
Matches are distributed among these distances:
24 3 0.01
25 29 0.13
26 27 0.12
27 165 0.72
28 6 0.03
ACGTcount: A:0.39, C:0.21, G:0.20, T:0.20
Consensus pattern (27 bp):
CCGAAATACCCCTATAGGGTAAAATGA
Found at i:27420663 original size:27 final size:27
Alignment explanation
Indices: 27420632--27420729 Score: 169
Period size: 27 Copynumber: 3.6 Consensus size: 27
27420622 TCCATATGAT
*
27420632 GGTAAAATGACCGTAATACCCCTGTAA
1 GGTAAAATGACCGTAATACCCCTGTAG
*
27420659 GGTAAAATGACCGTAATGCCCCTGTAG
1 GGTAAAATGACCGTAATACCCCTGTAG
27420686 GGTAAAATGACCGTAATACCCCTGTAG
1 GGTAAAATGACCGTAATACCCCTGTAG
*
27420713 GGTAAAATGACCATAAT
1 GGTAAAATGACCGTAAT
27420730 GCCTTGGTGG
Statistics
Matches: 67, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
27 67 1.00
ACGTcount: A:0.36, C:0.20, G:0.21, T:0.22
Consensus pattern (27 bp):
GGTAAAATGACCGTAATACCCCTGTAG
Found at i:27420845 original size:24 final size:24
Alignment explanation
Indices: 27420793--27420851 Score: 75
Period size: 24 Copynumber: 2.5 Consensus size: 24
27420783 TCTGTGGTTA
* *
27420793 AATGATTGATTTGTCTGTGTTTGG
1 AATGACTGATTTGTCTATGTTTGG
*
27420817 TATGACTGATTTGTCTATGATTT-G
1 AATGACTGATTTGTCTATG-TTTGG
27420841 AATGACTGATT
1 AATGACTGATT
27420852 CTGAGCATGG
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
24 27 0.90
25 3 0.10
ACGTcount: A:0.22, C:0.07, G:0.24, T:0.47
Consensus pattern (24 bp):
AATGACTGATTTGTCTATGTTTGG
Found at i:27421030 original size:26 final size:26
Alignment explanation
Indices: 27420977--27421030 Score: 63
Period size: 26 Copynumber: 2.1 Consensus size: 26
27420967 TATATTACTA
** *
27420977 GCAGCTTTACTGCGATACTGTTGCTG
1 GCAGCTTTACTGCGATACTACTGATG
* *
27421003 GCAGCTTTGCTGCGATGCTACTGATG
1 GCAGCTTTACTGCGATACTACTGATG
27421029 GC
1 GC
27421031 TTTGTGTCGA
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.15, C:0.24, G:0.30, T:0.31
Consensus pattern (26 bp):
GCAGCTTTACTGCGATACTACTGATG
Found at i:27421087 original size:32 final size:32
Alignment explanation
Indices: 27421021--27421255 Score: 217
Period size: 32 Copynumber: 7.3 Consensus size: 32
27421011 GCTGCGATGC
* * *
27421021 TACTGATGGCTTTGTGTCGATCATAGT-A-TCGT
1 TACTGATGGCTGTGTGCCGATCAT-TTCACT-GT
* * *
27421053 TACCGATGGATGTGTGTCGATCATTTCACTGT
1 TACTGATGGCTGTGTGCCGATCATTTCACTGT
* * * *
27421085 TACTAATGGCTTTGTACCGATCATATT-ACCGT
1 TACTGATGGCTGTGTGCCGATCAT-TTCACTGT
* *
27421117 TACCGACGGCTGTGTGCCGATCATTTCACTGT
1 TACTGATGGCTGTGTGCCGATCATTTCACTGT
* * *
27421149 TATTGATGGCTGTGTGCCGATCATATCACTGC
1 TACTGATGGCTGTGTGCCGATCATTTCACTGT
* * *
27421181 CACTGATGGCTTTGTGCCGATCATGTT-ACCGT
1 TACTGATGGCTGTGTGCCGATCAT-TTCACTGT
* * *
27421213 TACTGATGGTTGTGTGCCGATCATATCACTGC
1 TACTGATGGCTGTGTGCCGATCATTTCACTGT
27421245 TACTGATGGCT
1 TACTGATGGCT
27421256 TTGTTCCAAT
Statistics
Matches: 162, Mismatches: 35, Indels: 12
0.78 0.17 0.06
Matches are distributed among these distances:
31 4 0.02
32 154 0.95
33 4 0.02
ACGTcount: A:0.19, C:0.22, G:0.24, T:0.36
Consensus pattern (32 bp):
TACTGATGGCTGTGTGCCGATCATTTCACTGT
Found at i:27421202 original size:96 final size:96
Alignment explanation
Indices: 27421057--27421255 Score: 272
Period size: 96 Copynumber: 2.1 Consensus size: 96
27421047 TATCGTTACC
* * * **
27421057 GATGGATGTGTGTCGATCATTTCACTGTTACTAATGGCTTTGTACCGATCATATTACCGTTACCG
1 GATGGCTGTGTGCCGATCATATCACTGCCACTAATGGCTTTGTACCGATCATATTACCGTTACCG
* * *
27421122 ACGGCTGTGTGCCGATCATTTCACTGTTATT
66 ACGGCTGTGTGCCGATCATATCACTGCTACT
* * * *
27421153 GATGGCTGTGTGCCGATCATATCACTGCCACTGATGGCTTTGTGCCGATCATGTTACCGTTACTG
1 GATGGCTGTGTGCCGATCATATCACTGCCACTAATGGCTTTGTACCGATCATATTACCGTTACCG
* *
27421218 ATGGTTGTGTGCCGATCATATCACTGCTACT
66 ACGGCTGTGTGCCGATCATATCACTGCTACT
27421249 GATGGCT
1 GATGGCT
27421256 TTGTTCCAAT
Statistics
Matches: 89, Mismatches: 14, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
96 89 1.00
ACGTcount: A:0.19, C:0.22, G:0.24, T:0.35
Consensus pattern (96 bp):
GATGGCTGTGTGCCGATCATATCACTGCCACTAATGGCTTTGTACCGATCATATTACCGTTACCG
ACGGCTGTGTGCCGATCATATCACTGCTACT
Found at i:27428346 original size:20 final size:20
Alignment explanation
Indices: 27428321--27428359 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 20
27428311 CTCAGCCGAG
27428321 GATAATTAATT-ATTTAATTA
1 GATAATT-ATTGATTTAATTA
27428341 GATAATTATTGATTTAATT
1 GATAATTATTGATTTAATT
27428360 GATCATAGGC
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 3 0.17
20 15 0.83
ACGTcount: A:0.41, C:0.00, G:0.08, T:0.51
Consensus pattern (20 bp):
GATAATTATTGATTTAATTA
Found at i:27430380 original size:31 final size:31
Alignment explanation
Indices: 27430320--27430380 Score: 86
Period size: 31 Copynumber: 2.0 Consensus size: 31
27430310 GTGGGCTATC
* * *
27430320 TCTATTTTGTGTTTACTATCTTAGTGGACTG
1 TCTATTCTGTGTTTACTATCCTAGCGGACTG
*
27430351 TCTATTCTGTGTTTACTGTCCTAGCGGACT
1 TCTATTCTGTGTTTACTATCCTAGCGGACT
27430381 ATCTTTGTAG
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
31 26 1.00
ACGTcount: A:0.15, C:0.18, G:0.20, T:0.48
Consensus pattern (31 bp):
TCTATTCTGTGTTTACTATCCTAGCGGACTG
Found at i:27430668 original size:58 final size:57
Alignment explanation
Indices: 27430507--27430864 Score: 344
Period size: 58 Copynumber: 6.4 Consensus size: 57
27430497 GATGTCATAA
* ** **
27430507 CATCTTTCATCTATGGTCTTACACCGAATA-C--ATACCTTGTACCATACCGTTGTGG
1 CATCTTTCATCCATGGTCTTACACC-AATACCTTATACCTTGTACCATGTCGTCATGG
* * * ** * **
27430562 CATCTTTCATCCATAGTCTT--A-CGATA---TGTACCTCATACCA-GACTGTCATAA
1 CATCTTTCATCCATGGTCTTACACCAATACCTTATACCTTGTACCATGTC-GTCATGG
* * * * *
27430613 CATCTTTCATCTATAGTCTTACGCTATATACCTTATACCTTGTACCATGTCGTCATGA
1 CATCTTTCATCCATGGTCTTACACCA-ATACCTTATACCTTGTACCATGTCGTCATGG
* *
27430671 CATCTTTCATCCATGGTTTTACACCACATACCTTATACCTTGTACCATG-CAGCCATGG
1 CATCTTTCATCCATGGTCTTACACCA-ATACCTTATACCTTGTACCATGTC-GTCATGG
*
27430729 CATCTTTCATCCATGGTCTTACACCAAATACCTTATACCTTGTACCATGTCGCCATGG
1 CATCTTTCATCCATGGTCTTACACC-AATACCTTATACCTTGTACCATGTCGTCATGG
* *
27430787 CATCTTTCATCCATGGTCTTACACCGAATACCTTATACCTTGTACCAT-CCATCATGG
1 CATCTTTCATCCATGGTCTTACACC-AATACCTTATACCTTGTACCATGTCGTCATGG
* *
27430844 GATCTTTCATCTATGGTCTTA
1 CATCTTTCATCCATGGTCTTA
27430865 TGCTACGTAC
Statistics
Matches: 254, Mismatches: 36, Indels: 24
0.81 0.11 0.08
Matches are distributed among these distances:
50 1 0.00
51 35 0.14
52 1 0.00
53 1 0.00
55 21 0.08
57 26 0.10
58 165 0.65
59 4 0.02
ACGTcount: A:0.25, C:0.28, G:0.12, T:0.35
Consensus pattern (57 bp):
CATCTTTCATCCATGGTCTTACACCAATACCTTATACCTTGTACCATGTCGTCATGG
Found at i:27430769 original size:116 final size:115
Alignment explanation
Indices: 27430613--27430864 Score: 380
Period size: 116 Copynumber: 2.2 Consensus size: 115
27430603 ACTGTCATAA
* * * * *
27430613 CATCTTTCATCTATAGTCTTACGCTATATACCTTATACCTTGTACCATGTCGTCATGACATCTTT
1 CATCTTTCATCTATGGTCTTACACCAAATACCTTATACCTTGTACCATGTCGCCATGACATCTTT
* *
27430678 CATCCATGGTTTTACACC-ACATACCTTATACCTTGTACCATGCAGCCATGG
66 CATCCATGGTCTTACACCGA-ATACCTTATACCTTGTACCATCCA-CCATGG
* *
27430729 CATCTTTCATCCATGGTCTTACACCAAATACCTTATACCTTGTACCATGTCGCCATGGCATCTTT
1 CATCTTTCATCTATGGTCTTACACCAAATACCTTATACCTTGTACCATGTCGCCATGACATCTTT
*
27430794 CATCCATGGTCTTACACCGAATACCTTATACCTTGTACCATCCATCATGG
66 CATCCATGGTCTTACACCGAATACCTTATACCTTGTACCATCCACCATGG
*
27430844 GATCTTTCATCTATGGTCTTA
1 CATCTTTCATCTATGGTCTTA
27430865 TGCTACGTAC
Statistics
Matches: 123, Mismatches: 12, Indels: 3
0.89 0.09 0.02
Matches are distributed among these distances:
115 24 0.20
116 98 0.80
117 1 0.01
ACGTcount: A:0.24, C:0.29, G:0.12, T:0.36
Consensus pattern (115 bp):
CATCTTTCATCTATGGTCTTACACCAAATACCTTATACCTTGTACCATGTCGCCATGACATCTTT
CATCCATGGTCTTACACCGAATACCTTATACCTTGTACCATCCACCATGG
Found at i:27431003 original size:109 final size:108
Alignment explanation
Indices: 27430814--27431033 Score: 266
Period size: 109 Copynumber: 2.0 Consensus size: 108
27430804 CTTACACCGA
*** * * **
27430814 ATACCTTATACCTTGTACCATCCATCATGGGATCTTTCATCTATGGTCTTATGCTACGTACCTCA
1 ATACCTTATACCTTGTACCATCCATCATAACATCTTTCATCTATGATCTCACACTACGTACCTCA
* * *
27430879 TATCAGACTGTCATAGCCTATTTCGTCTATGCTCTTACGCCAT
66 TATCAGACTGCCATAGCCTATTTCATATATGCTCTTACGCCAT
*
27430922 ATACCTTATACCTTGTACCATACC-TCCATAACATCTTTCAT-TCATGATCTCACACTATGTACC
1 ATACCTTATACCTTGTACCAT-CCAT-CATAACATCTTTCATCT-ATGATCTCACACTACGTACC
* *
27430985 TCATA-CTAGACTGCCATAGCCTCTTTCATATATGGTCTTACGCCAT
63 TCATATC-AGACTGCCATAGCCTATTTCATATATGCTCTTACGCCAT
27431031 ATA
1 ATA
27431034 TCATCGTCAC
Statistics
Matches: 95, Mismatches: 13, Indels: 7
0.83 0.11 0.06
Matches are distributed among these distances:
108 24 0.25
109 71 0.75
ACGTcount: A:0.25, C:0.29, G:0.10, T:0.36
Consensus pattern (108 bp):
ATACCTTATACCTTGTACCATCCATCATAACATCTTTCATCTATGATCTCACACTACGTACCTCA
TATCAGACTGCCATAGCCTATTTCATATATGCTCTTACGCCAT
Found at i:27440780 original size:47 final size:47
Alignment explanation
Indices: 27440709--27441064 Score: 586
Period size: 47 Copynumber: 7.6 Consensus size: 47
27440699 CCCTTCGGGA
* * * * * *
27440709 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
27440756 CCTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
27440803 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
27440850 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTTGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
27440897 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
27440944 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
27440991 CTTATCACATATATACACTTTCACATTCATCACGTCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
27441038 CTTATCACATATATACACTTTCACATT
1 CTTATCACATATATACACTTTCACATT
27441065 TATTCAAATA
Statistics
Matches: 294, Mismatches: 15, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
47 294 1.00
ACGTcount: A:0.28, C:0.29, G:0.08, T:0.34
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:27440787 original size:25 final size:25
Alignment explanation
Indices: 27440759--27440837 Score: 76
Period size: 25 Copynumber: 3.3 Consensus size: 25
27440749 ACTCGGCCCT
27440759 ATCACATATATACACTTTCACATTC
1 ATCACATATATACACTTTCACATTC
** * * *
27440784 ATCACAT-T-GGC-CATTCGGCCTT-
1 ATCACATATATACACTTTC-ACATTC
27440806 ATCACATATATACACTTTCACATTC
1 ATCACATATATACACTTTCACATTC
27440831 ATCACAT
1 ATCACAT
27440838 CGGCCATTAG
Statistics
Matches: 39, Mismatches: 10, Indels: 10
0.66 0.17 0.17
Matches are distributed among these distances:
22 11 0.28
23 5 0.13
24 5 0.13
25 18 0.46
ACGTcount: A:0.32, C:0.29, G:0.05, T:0.34
Consensus pattern (25 bp):
ATCACATATATACACTTTCACATTC
Found at i:27445103 original size:40 final size:40
Alignment explanation
Indices: 27445074--27445393 Score: 579
Period size: 40 Copynumber: 8.0 Consensus size: 40
27445064 ATTTTGTCCA
*
27445074 AGCACGAATGCTCTTCG-GAACTTAGTCCGGATACATCACT
1 AGCACGAATGCTCTTCGAG-ACTTAGCCCGGATACATCACT
27445114 AGCACGAATGCTCTTCGAGACTTAGCCCGGATACATCACT
1 AGCACGAATGCTCTTCGAGACTTAGCCCGGATACATCACT
27445154 AGCACGAATGCTCTTCGAGACTTAGCCCGGATACATCACT
1 AGCACGAATGCTCTTCGAGACTTAGCCCGGATACATCACT
*
27445194 AGCACGAATGCTCTTCGAGACTTAGCCCGAATACATCACT
1 AGCACGAATGCTCTTCGAGACTTAGCCCGGATACATCACT
27445234 AGCACGAATGCTCTTCGAGACTTAGCCCGGATACATCACT
1 AGCACGAATGCTCTTCGAGACTTAGCCCGGATACATCACT
*
27445274 AGCACGAATGCTCTTCGGGACTTAGCCCGGATACATCACT
1 AGCACGAATGCTCTTCGAGACTTAGCCCGGATACATCACT
*
27445314 AGCACGAATGCTCTTCGGGACTTAGCCCGGATACATCACT
1 AGCACGAATGCTCTTCGAGACTTAGCCCGGATACATCACT
*
27445354 AGCACGAATGCTCTTCGGGACTTAGCCCGGATACATCACT
1 AGCACGAATGCTCTTCGAGACTTAGCCCGGATACATCACT
27445394 CTCAATTCTC
Statistics
Matches: 275, Mismatches: 4, Indels: 2
0.98 0.01 0.01
Matches are distributed among these distances:
40 274 1.00
41 1 0.00
ACGTcount: A:0.27, C:0.30, G:0.21, T:0.23
Consensus pattern (40 bp):
AGCACGAATGCTCTTCGAGACTTAGCCCGGATACATCACT
Found at i:27446881 original size:47 final size:47
Alignment explanation
Indices: 27446810--27447165 Score: 604
Period size: 47 Copynumber: 7.6 Consensus size: 47
27446800 CCCTTCGGGA
* * * * * *
27446810 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
27446857 CCTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
27446904 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
27446951 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
27446998 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
27447045 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
27447092 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
27447139 CTTATCACATATATACACTTTCACATT
1 CTTATCACATATATACACTTTCACATT
27447166 TATTCAAATA
Statistics
Matches: 295, Mismatches: 14, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
47 295 1.00
ACGTcount: A:0.29, C:0.30, G:0.08, T:0.33
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:27446888 original size:25 final size:25
Alignment explanation
Indices: 27446860--27446938 Score: 76
Period size: 25 Copynumber: 3.3 Consensus size: 25
27446850 ACTCGGCCCT
27446860 ATCACATATATACACTTTCACATTC
1 ATCACATATATACACTTTCACATTC
** * * *
27446885 ATCACAT-T-GGC-CATTCGGCCTT-
1 ATCACATATATACACTTTC-ACATTC
27446907 ATCACATATATACACTTTCACATTC
1 ATCACATATATACACTTTCACATTC
27446932 ATCACAT
1 ATCACAT
27446939 CGGCCATTAG
Statistics
Matches: 39, Mismatches: 10, Indels: 10
0.66 0.17 0.17
Matches are distributed among these distances:
22 11 0.28
23 5 0.13
24 5 0.13
25 18 0.46
ACGTcount: A:0.32, C:0.29, G:0.05, T:0.34
Consensus pattern (25 bp):
ATCACATATATACACTTTCACATTC
Found at i:27451545 original size:17 final size:17
Alignment explanation
Indices: 27451523--27451561 Score: 69
Period size: 17 Copynumber: 2.3 Consensus size: 17
27451513 AACAATAATC
27451523 GCAGAAAAGGAAAATTA
1 GCAGAAAAGGAAAATTA
*
27451540 GCAGAAAAGGAAAGTTA
1 GCAGAAAAGGAAAATTA
27451557 GCAGA
1 GCAGA
27451562 GTAATCATCG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.54, C:0.08, G:0.28, T:0.10
Consensus pattern (17 bp):
GCAGAAAAGGAAAATTA
Found at i:27452084 original size:13 final size:13
Alignment explanation
Indices: 27452066--27452101 Score: 54
Period size: 13 Copynumber: 2.8 Consensus size: 13
27452056 GAATAATATA
27452066 TATATGAAATGGT
1 TATATGAAATGGT
27452079 TATATGAAATGGT
1 TATATGAAATGGT
* *
27452092 CATTTGAAAT
1 TATATGAAAT
27452102 TGATACTTGA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
13 21 1.00
ACGTcount: A:0.39, C:0.03, G:0.19, T:0.39
Consensus pattern (13 bp):
TATATGAAATGGT
Found at i:27454746 original size:40 final size:40
Alignment explanation
Indices: 27454670--27454767 Score: 119
Period size: 40 Copynumber: 2.4 Consensus size: 40
27454660 TGATTAAGTG
* *
27454670 GCATTAGCGGCGCTTTTTAAAAAAATGCCGCAATAGATCGA
1 GCATTAGCGACGCTTTTGAAAAAAA-GCCGCAATAGATCGA
* *
27454711 GCATTAGCGACGCTATTTGAAAAACA-CCGCTATAGATCGA
1 GCATTAGCGACGCT-TTTGAAAAAAAGCCGCAATAGATCGA
27454751 GCATTAGC-AGCGCTTTT
1 GCATTAGCGA-CGCTTTT
27454768 CGGAAAATGC
Statistics
Matches: 51, Mismatches: 4, Indels: 6
0.84 0.07 0.10
Matches are distributed among these distances:
39 4 0.08
40 25 0.49
41 13 0.25
42 9 0.18
ACGTcount: A:0.32, C:0.21, G:0.21, T:0.26
Consensus pattern (40 bp):
GCATTAGCGACGCTTTTGAAAAAAAGCCGCAATAGATCGA
Found at i:27454884 original size:14 final size:14
Alignment explanation
Indices: 27454867--27454910 Score: 54
Period size: 14 Copynumber: 3.1 Consensus size: 14
27454857 TTATTTGGGA
27454867 TTAGAGTTT-TGAGT
1 TTAGAGTTTATG-GT
*
27454881 TTAGGGTTTATGGT
1 TTAGAGTTTATGGT
*
27454895 TTAGAGTTTAGGGT
1 TTAGAGTTTATGGT
27454909 TT
1 TT
27454911 GGGGTTTATT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
14 24 0.92
15 2 0.08
ACGTcount: A:0.18, C:0.00, G:0.32, T:0.50
Consensus pattern (14 bp):
TTAGAGTTTATGGT
Found at i:27454889 original size:7 final size:7
Alignment explanation
Indices: 27454879--27454918 Score: 53
Period size: 7 Copynumber: 5.7 Consensus size: 7
27454869 AGAGTTTTGA
27454879 GTTTAGG
1 GTTTAGG
*
27454886 GTTTATG
1 GTTTAGG
*
27454893 GTTTAGA
1 GTTTAGG
27454900 GTTTAGG
1 GTTTAGG
*
27454907 GTTTGGG
1 GTTTAGG
27454914 GTTTA
1 GTTTA
27454919 TTATTTTATA
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
7 27 1.00
ACGTcount: A:0.15, C:0.00, G:0.38, T:0.47
Consensus pattern (7 bp):
GTTTAGG
Found at i:27454916 original size:21 final size:21
Alignment explanation
Indices: 27454867--27454918 Score: 68
Period size: 21 Copynumber: 2.5 Consensus size: 21
27454857 TTATTTGGGA
* *
27454867 TTAGAGTTTTGAGTTTAGGGT
1 TTAGGGTTTAGAGTTTAGGGT
*
27454888 TTATGGTTTAGAGTTTAGGGT
1 TTAGGGTTTAGAGTTTAGGGT
*
27454909 TTGGGGTTTA
1 TTAGGGTTTA
27454919 TTATTTTATA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.17, C:0.00, G:0.35, T:0.48
Consensus pattern (21 bp):
TTAGGGTTTAGAGTTTAGGGT
Found at i:27455123 original size:7 final size:7
Alignment explanation
Indices: 27455111--27455288 Score: 99
Period size: 7 Copynumber: 25.3 Consensus size: 7
27455101 GGATTATAAT
27455111 TTTAGGG
1 TTTAGGG
27455118 TTTAGGG
1 TTTAGGG
27455125 TTTAGGG
1 TTTAGGG
27455132 TTTAGGG
1 TTTAGGG
*
27455139 TTTAGAG
1 TTTAGGG
* *
27455146 TTTATGA
1 TTTAGGG
*
27455153 TTTAGTG
1 TTTAGGG
* *
27455160 TTAAGAG
1 TTTAGGG
**
27455167 TTTAGTA
1 TTTAGGG
*
27455174 TTTACGG
1 TTTAGGG
27455181 TTTAGGG
1 TTTAGGG
*
27455188 TATA-GG
1 TTTAGGG
*
27455194 TTTATGG
1 TTTAGGG
*
27455201 TTTAGTG
1 TTTAGGG
**
27455208 TTTATAG
1 TTTAGGG
**
27455215 TTTATAG
1 TTTAGGG
27455222 TTTATGGG
1 TTTA-GGG
*
27455230 -TTATGTG
1 TTTA-GGG
* *
27455237 CTTAGGA
1 TTTAGGG
27455244 TTTAGGG
1 TTTAGGG
**
27455251 TTTAAAG
1 TTTAGGG
**
27455258 TTTATAG
1 TTTAGGG
27455265 TTTAGGG
1 TTTAGGG
27455272 TTTAAGGG
1 TTT-AGGG
*
27455280 CTTAGGG
1 TTTAGGG
27455287 TT
1 TT
27455289 GATGGTACCA
Statistics
Matches: 131, Mismatches: 36, Indels: 8
0.75 0.21 0.05
Matches are distributed among these distances:
6 5 0.04
7 116 0.89
8 10 0.08
ACGTcount: A:0.21, C:0.02, G:0.30, T:0.47
Consensus pattern (7 bp):
TTTAGGG
Found at i:27455283 original size:43 final size:43
Alignment explanation
Indices: 27455201--27455285 Score: 118
Period size: 43 Copynumber: 2.0 Consensus size: 43
27455191 AGGTTTATGG
* * * *
27455201 TTTAGTGTTTATAGTTTATAGTTTATGGGTTATGTGCTTAGGA
1 TTTAGGGTTTAAAGTTTATAGTTTATGGGTTAAGGGCTTAGGA
27455244 TTTAGGGTTTAAAGTTTATAGTTTA-GGGTTTAAGGGCTTAGG
1 TTTAGGGTTTAAAGTTTATAGTTTATGGG-TTAAGGGCTTAGG
27455286 GTTGATGGTA
Statistics
Matches: 37, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
42 3 0.08
43 34 0.92
ACGTcount: A:0.22, C:0.02, G:0.28, T:0.47
Consensus pattern (43 bp):
TTTAGGGTTTAAAGTTTATAGTTTATGGGTTAAGGGCTTAGGA
Found at i:27459572 original size:43 final size:43
Alignment explanation
Indices: 27459522--27459738 Score: 249
Period size: 43 Copynumber: 5.1 Consensus size: 43
27459512 TTTCTATAAT
*
27459522 GGCGTTTGTGATAAAAGCGCCGCTAAAGGTCATGCTCTTTAGC
1 GGCGTTTGTGATAAAAGCGCCGCTAAAGGTCATGTTCTTTAGC
* * * * *
27459565 GGTGTTTGTGATAAAAGCGGCGTTAAAGGTCATGTTCCTTAAC
1 GGCGTTTGTGATAAAAGCGCCGCTAAAGGTCATGTTCTTTAGC
* * *
27459608 GGCATTTGTGAT-AAAGTGTCGCTAAAGGTCATGTTCTTTAGC
1 GGCGTTTGTGATAAAAGCGCCGCTAAAGGTCATGTTCTTTAGC
* *
27459650 GGCGTTTGTGGGT-AAAGCGCCGCTAAAGGTTATGTTCTTTAGC
1 GGCGTTTGT-GATAAAAGCGCCGCTAAAGGTCATGTTCTTTAGC
* * * * * * *
27459693 GGCATTTTTTATAAAAGTGTCACTAAAGGTCATGTTCTATAGC
1 GGCGTTTGTGATAAAAGCGCCGCTAAAGGTCATGTTCTTTAGC
27459736 GGC
1 GGC
27459739 TTTTTTTCAC
Statistics
Matches: 145, Mismatches: 27, Indels: 4
0.82 0.15 0.02
Matches are distributed among these distances:
42 34 0.23
43 111 0.77
ACGTcount: A:0.24, C:0.16, G:0.27, T:0.33
Consensus pattern (43 bp):
GGCGTTTGTGATAAAAGCGCCGCTAAAGGTCATGTTCTTTAGC
Found at i:27459572 original size:86 final size:85
Alignment explanation
Indices: 27459473--27459659 Score: 214
Period size: 86 Copynumber: 2.2 Consensus size: 85
27459463 GAACGGTACT
* ** * * * *
27459473 TTTAGCAGCGTTTGTGAAAAAAAAGTTGTTAAAAGTTAT-TTTCTATAATGGCGTTTGTGATAAA
1 TTTAGCGGCGTTTGTGAAAAAAAAGGCGTTAAAAGTCATGTTCCT-TAACGGCATTTGTGAT-AA
27459537 AGCGCCGCTAAAGGTCATGCTC
64 AGCGCCGCTAAAGGTCATGCTC
* * ** *
27459559 TTTAGCGGTGTTTGTGATAAAAGCGGCGTTAAAGGTCATGTTCCTTAACGGCATTTGTGATAAAG
1 TTTAGCGGCGTTTGTGAAAAAAAAGGCGTTAAAAGTCATGTTCCTTAACGGCATTTGTGATAAAG
* * *
27459624 TGTCGCTAAAGGTCATGTTC
66 CGCCGCTAAAGGTCATGCTC
27459644 TTTAGCGGCGTTTGTG
1 TTTAGCGGCGTTTGTG
27459660 GGTAAAGCGC
Statistics
Matches: 84, Mismatches: 16, Indels: 3
0.82 0.16 0.03
Matches are distributed among these distances:
85 36 0.43
86 44 0.52
87 4 0.05
ACGTcount: A:0.26, C:0.13, G:0.26, T:0.35
Consensus pattern (85 bp):
TTTAGCGGCGTTTGTGAAAAAAAAGGCGTTAAAAGTCATGTTCCTTAACGGCATTTGTGATAAAG
CGCCGCTAAAGGTCATGCTC
Found at i:27459657 original size:85 final size:86
Alignment explanation
Indices: 27459526--27459738 Score: 277
Period size: 85 Copynumber: 2.5 Consensus size: 86
27459516 TATAATGGCG
* * * * * *
27459526 TTTGTGATAAAAGCGCCGCTAAAGGTCATGCTCTTTAGCGGTGTTTGT-GATAAAAGCGGCGTTA
1 TTTGTGATAAAAGTGTCGCTAAAGGTCATGTTCTTTAGCGGCGTTTGTGGAT-AAAGCGCCGCTA
27459590 AAGGTCATGTTCCTTAACGGCA
65 AAGGTCATGTTCCTTAACGGCA
*
27459612 TTTGTGAT-AAAGTGTCGCTAAAGGTCATGTTCTTTAGCGGCGTTTGTGGGTAAAGCGCCGCTAA
1 TTTGTGATAAAAGTGTCGCTAAAGGTCATGTTCTTTAGCGGCGTTTGTGGATAAAGCGCCGCTAA
* * *
27459676 AGGTTATGTTCTTTAGCGGCA
66 AGGTCATGTTCCTTAACGGCA
* * * *
27459697 TTTTTTATAAAAGTGTCACTAAAGGTCATGTTCTATAGCGGC
1 TTTGTGATAAAAGTGTCGCTAAAGGTCATGTTCTTTAGCGGC
27459739 TTTTTTTCAC
Statistics
Matches: 111, Mismatches: 14, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
85 70 0.63
86 41 0.37
ACGTcount: A:0.24, C:0.16, G:0.26, T:0.33
Consensus pattern (86 bp):
TTTGTGATAAAAGTGTCGCTAAAGGTCATGTTCTTTAGCGGCGTTTGTGGATAAAGCGCCGCTAA
AGGTCATGTTCCTTAACGGCA
Found at i:27465182 original size:41 final size:41
Alignment explanation
Indices: 27465158--27465288 Score: 253
Period size: 41 Copynumber: 3.2 Consensus size: 41
27465148 CAGTGAAGTT
27465158 ATTCGGACTTTATGTCTAGCAGGCTTTGTGTCGGTGAAATA
1 ATTCGGACTTTATGTCTAGCAGGCTTTGTGTCGGTGAAATA
27465199 ATTCGGACTTTATGTCTAGCAGGCTTTGTGTCGGTGAAATA
1 ATTCGGACTTTATGTCTAGCAGGCTTTGTGTCGGTGAAATA
*
27465240 ATTCGGACTTTATGTCTAGCAGGCTTTGTGCCGGTGAAATA
1 ATTCGGACTTTATGTCTAGCAGGCTTTGTGTCGGTGAAATA
27465281 ATTCGGAC
1 ATTCGGAC
27465289 GAAAGTCTAG
Statistics
Matches: 89, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
41 89 1.00
ACGTcount: A:0.22, C:0.16, G:0.27, T:0.35
Consensus pattern (41 bp):
ATTCGGACTTTATGTCTAGCAGGCTTTGTGTCGGTGAAATA
Found at i:27469534 original size:31 final size:31
Alignment explanation
Indices: 27469496--27469567 Score: 126
Period size: 31 Copynumber: 2.3 Consensus size: 31
27469486 CTTAACCAAT
27469496 TAATAATAAATTTTATATAATTAATCACAAA
1 TAATAATAAATTTTATATAATTAATCACAAA
*
27469527 TAATAATAAATTTTATATAATTAATCATAAA
1 TAATAATAAATTTTATATAATTAATCACAAA
27469558 TAAATAATAA
1 T-AATAATAA
27469568 TATGATTAAT
Statistics
Matches: 39, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
31 31 0.79
32 8 0.21
ACGTcount: A:0.57, C:0.04, G:0.00, T:0.39
Consensus pattern (31 bp):
TAATAATAAATTTTATATAATTAATCACAAA
Found at i:27470902 original size:22 final size:21
Alignment explanation
Indices: 27470868--27470908 Score: 55
Period size: 22 Copynumber: 1.9 Consensus size: 21
27470858 GATTAAATTT
27470868 ATCTTTAGGTCTATTATATTCA
1 ATCTTTAGGTCTA-TATATTCA
**
27470890 ATCTTTATTTCTATATATT
1 ATCTTTAGGTCTATATATT
27470909 AAATAATTTG
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 6 0.35
22 11 0.65
ACGTcount: A:0.27, C:0.12, G:0.05, T:0.56
Consensus pattern (21 bp):
ATCTTTAGGTCTATATATTCA
Found at i:27471283 original size:20 final size:19
Alignment explanation
Indices: 27471235--27471283 Score: 53
Period size: 20 Copynumber: 2.5 Consensus size: 19
27471225 TGCTGAAAAT
*
27471235 AAAAATAAAAATAGATTCA
1 AAAAATAAAAATAAATTCA
* *
27471254 AAAATGTAAAAATAAATTTA
1 AAAA-ATAAAAATAAATTCA
27471274 AGAAAATAAA
1 A-AAAATAAA
27471284 TAAATGGATA
Statistics
Matches: 24, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
19 4 0.17
20 17 0.71
21 3 0.12
ACGTcount: A:0.69, C:0.02, G:0.06, T:0.22
Consensus pattern (19 bp):
AAAAATAAAAATAAATTCA
Found at i:27472148 original size:23 final size:23
Alignment explanation
Indices: 27472119--27472166 Score: 96
Period size: 23 Copynumber: 2.1 Consensus size: 23
27472109 AGTTAGATTT
27472119 TTTTAAATATTATCACTAAATAA
1 TTTTAAATATTATCACTAAATAA
27472142 TTTTAAATATTATCACTAAATAA
1 TTTTAAATATTATCACTAAATAA
27472165 TT
1 TT
27472167 CAAAATTTAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.46, C:0.08, G:0.00, T:0.46
Consensus pattern (23 bp):
TTTTAAATATTATCACTAAATAA
Found at i:27472172 original size:23 final size:23
Alignment explanation
Indices: 27472123--27472172 Score: 82
Period size: 23 Copynumber: 2.2 Consensus size: 23
27472113 AGATTTTTTT
**
27472123 AAATATTATCACTAAATAATTTT
1 AAATATTATCACTAAATAATTCA
27472146 AAATATTATCACTAAATAATTCA
1 AAATATTATCACTAAATAATTCA
27472169 AAAT
1 AAAT
27472173 TTAAAAATCA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.52, C:0.10, G:0.00, T:0.38
Consensus pattern (23 bp):
AAATATTATCACTAAATAATTCA
Found at i:27472283 original size:29 final size:29
Alignment explanation
Indices: 27472241--27472305 Score: 103
Period size: 29 Copynumber: 2.2 Consensus size: 29
27472231 ATAAAAAATC
*
27472241 ATTCAATCTTTATCCAGTCATCCTTGAAT
1 ATTCAATATTTATCCAGTCATCCTTGAAT
*
27472270 ATTCAATATTTATCCCGTCATCCTTGAAT
1 ATTCAATATTTATCCAGTCATCCTTGAAT
*
27472299 CTTCAAT
1 ATTCAAT
27472306 CTTTCAATCA
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
29 33 1.00
ACGTcount: A:0.28, C:0.25, G:0.06, T:0.42
Consensus pattern (29 bp):
ATTCAATATTTATCCAGTCATCCTTGAAT
Found at i:27481980 original size:23 final size:23
Alignment explanation
Indices: 27481948--27482026 Score: 65
Period size: 23 Copynumber: 3.4 Consensus size: 23
27481938 TATCTTGTAG
*
27481948 ATTATCTATAATAATTATAAAAT
1 ATTATATATAATAATTATAAAAT
*
27481971 ATTATATAT-ATAATATATAAATTT
1 ATTATATATAATAAT-TATAAA-AT
*
27481995 AATTATAT-TAA-ATATTATAATAT
1 -ATTATATATAATA-ATTATAAAAT
*
27482018 ATAATATAT
1 ATTATATAT
27482027 TATATATTTG
Statistics
Matches: 45, Mismatches: 5, Indels: 12
0.73 0.08 0.19
Matches are distributed among these distances:
22 11 0.24
23 16 0.36
24 8 0.18
25 10 0.22
ACGTcount: A:0.52, C:0.01, G:0.00, T:0.47
Consensus pattern (23 bp):
ATTATATATAATAATTATAAAAT
Found at i:27481986 original size:7 final size:7
Alignment explanation
Indices: 27481958--27482033 Score: 57
Period size: 7 Copynumber: 10.3 Consensus size: 7
27481948 ATTATCTATA
27481958 ATAAT-T
1 ATAATAT
*
27481964 ATAAAAT
1 ATAATAT
27481971 ATTATATAT
1 A-TA-ATAT
27481980 ATAATAT
1 ATAATAT
27481987 ATAA-AT
1 ATAATAT
*
27481993 TTAATTAT
1 ATAA-TAT
27482001 ATTAAATATT
1 A-T-AATA-T
27482011 ATAATAT
1 ATAATAT
27482018 ATAATAT
1 ATAATAT
*
27482025 ATTATAT
1 ATAATAT
27482032 AT
1 AT
27482034 TTGTATTTTA
Statistics
Matches: 57, Mismatches: 5, Indels: 15
0.74 0.06 0.19
Matches are distributed among these distances:
6 9 0.16
7 26 0.46
8 10 0.18
9 8 0.14
10 4 0.07
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (7 bp):
ATAATAT
Found at i:27482011 original size:12 final size:12
Alignment explanation
Indices: 27481969--27482034 Score: 55
Period size: 12 Copynumber: 5.4 Consensus size: 12
27481959 TAATTATAAA
27481969 ATATTATATATAT
1 ATATTATAT-TAT
*
27481982 AATATATAAATT-T
1 -ATAT-TATATTAT
*
27481995 A-ATTATATTAA
1 ATATTATATTAT
*
27482006 ATATTATAATAT
1 ATATTATATTAT
*
27482018 ATAATATATTAT
1 ATATTATATTAT
27482030 ATATT
1 ATATT
27482035 TGTATTTTAT
Statistics
Matches: 41, Mismatches: 8, Indels: 8
0.72 0.14 0.14
Matches are distributed among these distances:
10 5 0.12
11 3 0.07
12 23 0.56
13 1 0.02
14 5 0.12
15 4 0.10
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (12 bp):
ATATTATATTAT
Found at i:27482296 original size:29 final size:29
Alignment explanation
Indices: 27482260--27482330 Score: 108
Period size: 29 Copynumber: 2.4 Consensus size: 29
27482250 CCCTTGCTTC
*
27482260 TTTCCTTCTCTTTCCT-GCTGCTGCTTTCT
1 TTTCCTTCTCTTT-CTAGCTGCTGCTCTCT
27482289 TTTCCTTCTCTTTCTAGCTGCTGCTCTCT
1 TTTCCTTCTCTTTCTAGCTGCTGCTCTCT
*
27482318 TTTTCTTCTCTTT
1 TTTCCTTCTCTTT
27482331 TTGATCGCAG
Statistics
Matches: 39, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
28 2 0.05
29 37 0.95
ACGTcount: A:0.01, C:0.32, G:0.08, T:0.58
Consensus pattern (29 bp):
TTTCCTTCTCTTTCTAGCTGCTGCTCTCT
Found at i:27483730 original size:23 final size:24
Alignment explanation
Indices: 27483697--27483741 Score: 74
Period size: 23 Copynumber: 1.9 Consensus size: 24
27483687 ACTTTCATCA
*
27483697 GTGTATTTTCTTTTCTT-ATTTTC
1 GTGTATGTTCTTTTCTTCATTTTC
27483720 GTGTATGTTCTTTTCTTCATTT
1 GTGTATGTTCTTTTCTTCATTT
27483742 CCGATAACAC
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
23 16 0.80
24 4 0.20
ACGTcount: A:0.09, C:0.13, G:0.11, T:0.67
Consensus pattern (24 bp):
GTGTATGTTCTTTTCTTCATTTTC
Found at i:27488615 original size:45 final size:45
Alignment explanation
Indices: 27488509--27488634 Score: 134
Period size: 45 Copynumber: 2.8 Consensus size: 45
27488499 ACTGAGTATT
*
27488509 ATTGATTATAAAGGTGGTTGTTATGTGCTGACTCCACCGGAAATC
1 ATTGATTATAAAGGTGGTTGTTATGTGCTGATTCCACCGGAAATC
* ** * * *
27488554 AGTGAAAATAAAGGTGGTTGCTATATGCTGATTCCATC-G-AATAC
1 ATTGATTATAAAGGTGGTTGTTATGTGCTGATTCCACCGGAAAT-C
*
27488598 AATTGATTATAAGGGTGG-TGTTATGTGCTGA-TCCACC
1 -ATTGATTATAAAGGTGGTTGTTATGTGCTGATTCCACC
27488635 ATGTAAAAGT
Statistics
Matches: 65, Mismatches: 14, Indels: 6
0.76 0.16 0.07
Matches are distributed among these distances:
43 8 0.12
44 13 0.20
45 44 0.68
ACGTcount: A:0.29, C:0.14, G:0.25, T:0.33
Consensus pattern (45 bp):
ATTGATTATAAAGGTGGTTGTTATGTGCTGATTCCACCGGAAATC
Found at i:27501271 original size:25 final size:25
Alignment explanation
Indices: 27501243--27501317 Score: 61
Period size: 25 Copynumber: 3.2 Consensus size: 25
27501233 ATAGGGTCCC
27501243 TAATGGAAGAATGTGAATTGGATTT
1 TAATGGAAGAATGTGAATTGGATTT
* * * **
27501268 TAAT---AGAAAGT--ATAGGGTCCC
1 TAATGGAAGAATGTGAATTGGAT-TT
27501289 TAATGGAAGAATGTGAATTGGATTT
1 TAATGGAAGAATGTGAATTGGATTT
27501314 TAAT
1 TAAT
27501318 CAGACGTTAA
Statistics
Matches: 34, Mismatches: 10, Indels: 12
0.61 0.18 0.21
Matches are distributed among these distances:
20 5 0.15
21 4 0.12
22 6 0.18
24 6 0.18
25 8 0.24
26 5 0.15
ACGTcount: A:0.37, C:0.04, G:0.25, T:0.33
Consensus pattern (25 bp):
TAATGGAAGAATGTGAATTGGATTT
Found at i:27501291 original size:46 final size:46
Alignment explanation
Indices: 27501224--27501317 Score: 188
Period size: 46 Copynumber: 2.0 Consensus size: 46
27501214 TATGCTATTG
27501224 ATAGAAAGTATAGGGTCCCTAATGGAAGAATGTGAATTGGATTTTA
1 ATAGAAAGTATAGGGTCCCTAATGGAAGAATGTGAATTGGATTTTA
27501270 ATAGAAAGTATAGGGTCCCTAATGGAAGAATGTGAATTGGATTTTA
1 ATAGAAAGTATAGGGTCCCTAATGGAAGAATGTGAATTGGATTTTA
27501316 AT
1 AT
27501318 CAGACGTTAA
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
46 48 1.00
ACGTcount: A:0.37, C:0.06, G:0.26, T:0.31
Consensus pattern (46 bp):
ATAGAAAGTATAGGGTCCCTAATGGAAGAATGTGAATTGGATTTTA
Found at i:27511922 original size:42 final size:42
Alignment explanation
Indices: 27511876--27511961 Score: 111
Period size: 42 Copynumber: 2.0 Consensus size: 42
27511866 AAGGAGCACA
* ** *
27511876 ATCACTTAAGCTCTTATGGGGAGCTTCATTGATA-CACAACTT
1 ATCACTTAAGCTCATATAAGGAGCTTCACTGATACCA-AACTT
*
27511918 ATCACTTAAGCTCATGTAAGGAGCTTCACTGATACCAAACTT
1 ATCACTTAAGCTCATATAAGGAGCTTCACTGATACCAAACTT
27511960 AT
1 AT
27511962 AAAATAATTT
Statistics
Matches: 38, Mismatches: 5, Indels: 2
0.84 0.11 0.04
Matches are distributed among these distances:
42 36 0.95
43 2 0.05
ACGTcount: A:0.31, C:0.22, G:0.15, T:0.31
Consensus pattern (42 bp):
ATCACTTAAGCTCATATAAGGAGCTTCACTGATACCAAACTT
Found at i:27514652 original size:51 final size:50
Alignment explanation
Indices: 27514525--27514708 Score: 194
Period size: 51 Copynumber: 3.6 Consensus size: 50
27514515 AAGTTGCTAG
* *
27514525 GTCACTTGTGTAGTACTATGTGCAGGCTACTACGTGTACCGGAATGATAT
1 GTCACATGTGTAGTACTATGTGCAGGCTACTACGCGTACCGGAATGATAT
* * *
27514575 GTCACATGTGTAGTACTATGTTCAGGCTACTATGCGTACC-GAATAGCT-T
1 GTCACATGTGTAGTACTATGTGCAGGCTACTACGCGTACCGGAAT-GATAT
* * *** *
27514624 CGATCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTATTAG-ATGAAAAT
1 -G-TCACATGTGTAGTACTATGTGCAGGCTACTACGCGTACCGGAATG-ATAT
*
27514676 GGTTACATGTGTAGTACTATGTGCAGGCTACTA
1 -GTCACATGTGTAGTACTATGTGCAGGCTACTA
27514709 TGTGAACCGG
Statistics
Matches: 112, Mismatches: 16, Indels: 11
0.81 0.12 0.08
Matches are distributed among these distances:
49 5 0.04
50 40 0.36
51 64 0.57
52 3 0.03
ACGTcount: A:0.26, C:0.17, G:0.25, T:0.32
Consensus pattern (50 bp):
GTCACATGTGTAGTACTATGTGCAGGCTACTACGCGTACCGGAATGATAT
Found at i:27514712 original size:26 final size:26
Alignment explanation
Indices: 27514632--27514712 Score: 76
Period size: 26 Copynumber: 3.2 Consensus size: 26
27514622 TTCGATCACG
27514632 TGTGTAGTACTATGTGCAGGCTACTA
1 TGTGTAGTACTATGTGCAGGCTACTA
* * * *** *
27514658 CGTGTATTA-GATGAAAATGGTTAC-A
1 TGTGTAGTACTATGTGCA-GGCTACTA
27514683 TGTGTAGTACTATGTGCAGGCTACTA
1 TGTGTAGTACTATGTGCAGGCTACTA
27514709 TGTG
1 TGTG
27514713 AACCGGGTAT
Statistics
Matches: 38, Mismatches: 14, Indels: 6
0.66 0.24 0.10
Matches are distributed among these distances:
25 17 0.45
26 21 0.55
ACGTcount: A:0.26, C:0.12, G:0.27, T:0.35
Consensus pattern (26 bp):
TGTGTAGTACTATGTGCAGGCTACTA
Found at i:27516804 original size:25 final size:25
Alignment explanation
Indices: 27516712--27516815 Score: 102
Period size: 25 Copynumber: 4.2 Consensus size: 25
27516702 GTCATTAGGG
* * *
27516712 TTACCAAT-TTCAGCTCGTATGAGT
1 TTACCAATATTCAGCTCGGAGGAGC
** * **
27516736 TTACCAATACACAGCTCGCATTAGC
1 TTACCAATATTCAGCTCGGAGGAGC
* *
27516761 TTACCATTATTCAGCTCGGAGGAGT
1 TTACCAATATTCAGCTCGGAGGAGC
*
27516786 TTACCATTATTCAGCTCGGAGGAGC
1 TTACCAATATTCAGCTCGGAGGAGC
27516811 TTACC
1 TTACC
27516816 GTTTACATCA
Statistics
Matches: 66, Mismatches: 13, Indels: 1
0.82 0.16 0.01
Matches are distributed among these distances:
24 8 0.12
25 58 0.88
ACGTcount: A:0.26, C:0.25, G:0.18, T:0.31
Consensus pattern (25 bp):
TTACCAATATTCAGCTCGGAGGAGC
Found at i:27516812 original size:50 final size:49
Alignment explanation
Indices: 27516712--27516815 Score: 118
Period size: 50 Copynumber: 2.1 Consensus size: 49
27516702 GTCATTAGGG
* * **
27516712 TTACCAATTTCAGCTCGTATGAGTTTACCAATACACAGCTCGCATTAGC
1 TTACCAATTTCAGCTCGGAGGAGTTTACCAATACACAGCTCGCAGGAGC
* * ** *
27516761 TTACCATTATTCAGCTCGGAGGAGTTTACCATTATTCAGCTCGGAGGAGC
1 TTACCAAT-TTCAGCTCGGAGGAGTTTACCAATACACAGCTCGCAGGAGC
27516811 TTACC
1 TTACC
27516816 GTTTACATCA
Statistics
Matches: 45, Mismatches: 9, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
49 7 0.16
50 38 0.84
ACGTcount: A:0.26, C:0.25, G:0.18, T:0.31
Consensus pattern (49 bp):
TTACCAATTTCAGCTCGGAGGAGTTTACCAATACACAGCTCGCAGGAGC
Found at i:27534147 original size:26 final size:26
Alignment explanation
Indices: 27534118--27534187 Score: 131
Period size: 26 Copynumber: 2.7 Consensus size: 26
27534108 GACCATAAAG
*
27534118 CCCCTGGAGGGTAAATGATTATTTTA
1 CCCCTTGAGGGTAAATGATTATTTTA
27534144 CCCCTTGAGGGTAAATGATTATTTTA
1 CCCCTTGAGGGTAAATGATTATTTTA
27534170 CCCCTTGAGGGTAAATGA
1 CCCCTTGAGGGTAAATGA
27534188 CTGAATTGTG
Statistics
Matches: 43, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
26 43 1.00
ACGTcount: A:0.27, C:0.17, G:0.23, T:0.33
Consensus pattern (26 bp):
CCCCTTGAGGGTAAATGATTATTTTA
Found at i:27535309 original size:12 final size:12
Alignment explanation
Indices: 27535292--27535319 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
27535282 ATAGGGAATG
27535292 GAGTGAAATAGA
1 GAGTGAAATAGA
27535304 GAGTGAAATAGA
1 GAGTGAAATAGA
27535316 GAGT
1 GAGT
27535320 TTAAAAAAGC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.46, C:0.00, G:0.36, T:0.18
Consensus pattern (12 bp):
GAGTGAAATAGA
Found at i:27545560 original size:5 final size:5
Alignment explanation
Indices: 27545550--27545578 Score: 58
Period size: 5 Copynumber: 5.8 Consensus size: 5
27545540 GCATTGGAAA
27545550 TTTAT TTTAT TTTAT TTTAT TTTAT TTTA
1 TTTAT TTTAT TTTAT TTTAT TTTAT TTTA
27545579 CTTAGTATAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 24 1.00
ACGTcount: A:0.21, C:0.00, G:0.00, T:0.79
Consensus pattern (5 bp):
TTTAT
Found at i:27559717 original size:26 final size:26
Alignment explanation
Indices: 27559679--27559744 Score: 114
Period size: 26 Copynumber: 2.5 Consensus size: 26
27559669 TTTACATTAT
* *
27559679 TGCTCACATGAGCTATGGAATGGGCC
1 TGCTCACACGAGCTATAGAATGGGCC
27559705 TGCTCACACGAGCTATAGAATGGGCC
1 TGCTCACACGAGCTATAGAATGGGCC
27559731 TGCTCACACGAGCT
1 TGCTCACACGAGCT
27559745 GTGGGTCGGA
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
26 38 1.00
ACGTcount: A:0.24, C:0.27, G:0.27, T:0.21
Consensus pattern (26 bp):
TGCTCACACGAGCTATAGAATGGGCC
Found at i:27560147 original size:21 final size:22
Alignment explanation
Indices: 27560121--27560175 Score: 69
Period size: 21 Copynumber: 2.6 Consensus size: 22
27560111 AACAGCGGTG
27560121 GCGGTGAGATTAGG-TACTGTA
1 GCGGTGAGATTAGGATACTGTA
* *
27560142 TCGGTGAG-TTTGGATACTGTA
1 GCGGTGAGATTAGGATACTGTA
*
27560163 GCAGTGAGATTAG
1 GCGGTGAGATTAG
27560176 AAACAGCGGT
Statistics
Matches: 27, Mismatches: 5, Indels: 3
0.77 0.14 0.09
Matches are distributed among these distances:
20 4 0.15
21 20 0.74
22 3 0.11
ACGTcount: A:0.24, C:0.09, G:0.36, T:0.31
Consensus pattern (22 bp):
GCGGTGAGATTAGGATACTGTA
Found at i:27560362 original size:18 final size:18
Alignment explanation
Indices: 27560339--27560472 Score: 72
Period size: 18 Copynumber: 7.9 Consensus size: 18
27560329 TTATTATTAA
27560339 ATATAATTTAATAAAAAT
1 ATATAATTTAATAAAAAT
*
27560357 ATATAATTTACT-AAAAT
1 ATATAATTTAATAAAAAT
*
27560374 ATATGAATTTACT--AAAT
1 ATAT-AATTTAATAAAAAT
* * * *
27560391 TTATAATAT-ATAATATT
1 ATATAATTTAATAAAAAT
* * *
27560408 ATAAAATATAATTTAAAAT
1 ATATAATTTAA-TAAAAAT
* *
27560427 A-ATTA-TT-AT--TAA-
1 ATATAATTTAATAAAAAT
*
27560439 ATATAATTTAACAAAAAT
1 ATATAATTTAATAAAAAT
27560457 ATATAATTTAATAAAA
1 ATATAATTTAATAAAA
27560473 TTCTTAGTAT
Statistics
Matches: 86, Mismatches: 19, Indels: 22
0.68 0.15 0.17
Matches are distributed among these distances:
12 1 0.01
13 5 0.06
14 2 0.02
15 3 0.03
16 5 0.06
17 28 0.33
18 37 0.43
19 5 0.06
ACGTcount: A:0.56, C:0.02, G:0.01, T:0.41
Consensus pattern (18 bp):
ATATAATTTAATAAAAAT
Found at i:27560390 original size:17 final size:17
Alignment explanation
Indices: 27560339--27560389 Score: 75
Period size: 18 Copynumber: 2.9 Consensus size: 17
27560329 TTATTATTAA
*
27560339 ATATAATTTAATAAAAAT
1 ATATAATTTACT-AAAAT
27560357 ATATAATTTACTAAAAT
1 ATATAATTTACTAAAAT
27560374 ATATGAATTTACTAAA
1 ATAT-AATTTACTAAA
27560390 TTTATAATAT
Statistics
Matches: 31, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
17 9 0.29
18 22 0.71
ACGTcount: A:0.55, C:0.04, G:0.02, T:0.39
Consensus pattern (17 bp):
ATATAATTTACTAAAAT
Found at i:27560411 original size:15 final size:15
Alignment explanation
Indices: 27560391--27560445 Score: 55
Period size: 15 Copynumber: 3.9 Consensus size: 15
27560381 TTTACTAAAT
*
27560391 TTATAATATATAATA
1 TTATAAAATATAATA
27560406 TTATAAAATAT-A-A
1 TTATAAAATATAATA
*
27560419 TT-TAAAATA-ATTA
1 TTATAAAATATAATA
*
27560432 TTATTAAATATAAT
1 TTATAAAATATAAT
27560446 TTAACAAAAA
Statistics
Matches: 32, Mismatches: 4, Indels: 8
0.73 0.09 0.18
Matches are distributed among these distances:
12 7 0.22
13 6 0.19
14 7 0.22
15 12 0.38
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (15 bp):
TTATAAAATATAATA
Found at i:27560440 original size:26 final size:25
Alignment explanation
Indices: 27560400--27560462 Score: 83
Period size: 26 Copynumber: 2.5 Consensus size: 25
27560390 TTTATAATAT
27560400 ATAATATTATAAAATATAATTTAAA
1 ATAATATTATAAAATATAATTTAAA
*
27560425 ATAATTATTATTAAATATAATTTAACA
1 ATAA-TATTATAAAATATAATTTAA-A
*
27560452 AAAATA-TATAA
1 ATAATATTATAA
27560463 TTTAATAAAA
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
25 8 0.24
26 21 0.64
27 4 0.12
ACGTcount: A:0.59, C:0.02, G:0.00, T:0.40
Consensus pattern (25 bp):
ATAATATTATAAAATATAATTTAAA
Found at i:27560458 original size:59 final size:58
Alignment explanation
Indices: 27560395--27560593 Score: 199
Period size: 59 Copynumber: 3.3 Consensus size: 58
27560385 CTAAATTTAT
27560395 AATATATAATATT-ATAAAATATAATTTAAAATAATTATTATTAAATATAATTTAACAAA
1 AATATATAAT-TTAATAAAATATAATTT-AAATAATTATTATTAAATATAATTTAACAAA
* * * * * * ** *
27560454 AATATATAATTTAATAAAATTCTTAGTATTAAAT-ATTCTTATATGAATTTACTAAAATC-AT
1 AATATATAATTTAATAAAA-T-ATAAT-TTAAATAATTATTAT-TAAATATAATTTAA-CAAA
*
27560515 AATATATAATACT-ATAAAATATAATTTTAAATAATTATTATTAAATATAATTTAACAAA
1 AATATATAAT-TTAATAAAATATAA-TTTAAATAATTATTATTAAATATAATTTAACAAA
27560574 AATATATAATTTAATAAAAT
1 AATATATAATTTAATAAAAT
27560594 TCTTAGTATT
Statistics
Matches: 109, Mismatches: 20, Indels: 22
0.72 0.13 0.15
Matches are distributed among these distances:
58 4 0.04
59 51 0.47
60 17 0.16
61 33 0.30
62 4 0.04
ACGTcount: A:0.54, C:0.04, G:0.01, T:0.42
Consensus pattern (58 bp):
AATATATAATTTAATAAAATATAATTTAAATAATTATTATTAAATATAATTTAACAAA
Found at i:27560506 original size:120 final size:120
Alignment explanation
Indices: 27560373--27560615 Score: 450
Period size: 120 Copynumber: 2.0 Consensus size: 120
27560363 TTTACTAAAA
* * *
27560373 TATATGAATTTACTAAATTTATAATATATAATATTATAAAATATAATTTAAAATAATTATTATTA
1 TATATGAATTTACTAAAATCATAATATATAATACTATAAAATATAATTTAAAATAATTATTATTA
27560438 AATATAATTTAACAAAAATATATAATTTAATAAAATTCTTAGTATTAAATATTCT
66 AATATAATTTAACAAAAATATATAATTTAATAAAATTCTTAGTATTAAATATTCT
*
27560493 TATATGAATTTACTAAAATCATAATATATAATACTATAAAATATAATTTTAAATAATTATTATTA
1 TATATGAATTTACTAAAATCATAATATATAATACTATAAAATATAATTTAAAATAATTATTATTA
27560558 AATATAATTTAACAAAAATATATAATTTAATAAAATTCTTAGTATTAAATATTCT
66 AATATAATTTAACAAAAATATATAATTTAATAAAATTCTTAGTATTAAATATTCT
27560613 TAT
1 TAT
27560616 GATTGTATCA
Statistics
Matches: 119, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
120 119 1.00
ACGTcount: A:0.51, C:0.04, G:0.02, T:0.44
Consensus pattern (120 bp):
TATATGAATTTACTAAAATCATAATATATAATACTATAAAATATAATTTAAAATAATTATTATTA
AATATAATTTAACAAAAATATATAATTTAATAAAATTCTTAGTATTAAATATTCT
Found at i:27560522 original size:61 final size:60
Alignment explanation
Indices: 27560423--27560615 Score: 187
Period size: 61 Copynumber: 3.2 Consensus size: 60
27560413 ATATAATTTA
* **
27560423 AAATAATTATTATTAAATATAATTTAACAAAAATATATAATTTAATAAAATTCTTAGTATT
1 AAAT-ATTCTTATTAAATATAATAAAACAAAAATATATAATTTAATAAAATTCTTAGTATT
* * * * * * * *
27560484 AAATATTCTTATATGAATTTACTAAAATC-ATAATATATAATACT-ATAAAA-T-ATAATTTT
1 AAATATTCTTAT-TAAATATAATAAAA-CAAAAATATATAAT-TTAATAAAATTCTTAGTATT
* **
27560543 AAATAATTATTATTAAATATAATTTAACAAAAATATATAATTTAATAAAATTCTTAGTATT
1 AAAT-ATTCTTATTAAATATAATAAAACAAAAATATATAATTTAATAAAATTCTTAGTATT
27560604 AAATATTCTTAT
1 AAATATTCTTAT
27560616 GATTGTATCA
Statistics
Matches: 101, Mismatches: 23, Indels: 17
0.72 0.16 0.12
Matches are distributed among these distances:
58 2 0.02
59 35 0.35
60 23 0.23
61 39 0.39
62 2 0.02
ACGTcount: A:0.51, C:0.05, G:0.02, T:0.43
Consensus pattern (60 bp):
AAATATTCTTATTAAATATAATAAAACAAAAATATATAATTTAATAAAATTCTTAGTATT
Found at i:27563712 original size:6 final size:6
Alignment explanation
Indices: 27563701--27563738 Score: 58
Period size: 6 Copynumber: 6.2 Consensus size: 6
27563691 TTTGCAAACC
*
27563701 AAGGGG AAGGGG AAAGGG AAGGGG AAGGGG AAAGGGG A
1 AAGGGG AAGGGG AAGGGG AAGGGG AAGGGG -AAGGGG A
27563739 GAAGAAGGGT
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
6 23 0.79
7 6 0.21
ACGTcount: A:0.39, C:0.00, G:0.61, T:0.00
Consensus pattern (6 bp):
AAGGGG
Found at i:27563724 original size:18 final size:18
Alignment explanation
Indices: 27563701--27563736 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
27563691 TTTGCAAACC
27563701 AAGGGGAAGGGGAAAGGG
1 AAGGGGAAGGGGAAAGGG
27563719 AAGGGGAAGGGGAAAGGG
1 AAGGGGAAGGGGAAAGGG
27563737 GAGAAGAAGG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.39, C:0.00, G:0.61, T:0.00
Consensus pattern (18 bp):
AAGGGGAAGGGGAAAGGG
Found at i:27563745 original size:18 final size:18
Alignment explanation
Indices: 27563706--27563747 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
27563696 AAACCAAGGG
**
27563706 GAAGGGGAAAGGGAAGGG
1 GAAGGGGAAAGGGAAGAA
*
27563724 GAAGGGGAAAGGGGAGAA
1 GAAGGGGAAAGGGAAGAA
27563742 GAAGGG
1 GAAGGG
27563748 TAACCAAATA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.40, C:0.00, G:0.60, T:0.00
Consensus pattern (18 bp):
GAAGGGGAAAGGGAAGAA
Found at i:27564607 original size:46 final size:45
Alignment explanation
Indices: 27564524--27564621 Score: 115
Period size: 46 Copynumber: 2.2 Consensus size: 45
27564514 TAAGTTTACC
**
27564524 TAGGTTTGAGCTCCTGCATATGTTGCACACTTGAGAATACAAGAA
1 TAGGTTTGAGCTCCTGCATATGTTGCACACTCAAGAATACAAGAA
* * ** * *
27564569 TAGGTTCTGAGTTCCTTCATATGTTGCGGACTCAAGAATACAGGAT
1 TAGGTT-TGAGCTCCTGCATATGTTGCACACTCAAGAATACAAGAA
27564615 TAGGTTT
1 TAGGTTT
27564622 TGAAATTTTG
Statistics
Matches: 44, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
45 7 0.16
46 37 0.84
ACGTcount: A:0.28, C:0.16, G:0.23, T:0.33
Consensus pattern (45 bp):
TAGGTTTGAGCTCCTGCATATGTTGCACACTCAAGAATACAAGAA
Done.