Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01001465.1 Hibiscus syriacus cultivar Beakdansim tig00002840_pilon, whole genome shotgun sequence
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: 11160956
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 35 of 55
Found at i:6938828 original size:37 final size:36
Alignment explanation
Indices: 6938741--6938820 Score: 106
Period size: 36 Copynumber: 2.2 Consensus size: 36
6938731 GTTTCAAGTA
* * * *
6938741 AAAATAATATCTCAAATGATACGAAATTTGTTTTGAG
1 AAAA-AATATCTCAAAAGAGACAAAACTTGTTTTGAG
6938778 AAAAAATATCTCAAAAGAGACAAAACTTGTTTTGAG
1 AAAAAATATCTCAAAAGAGACAAAACTTGTTTTGAG
*
6938814 TAAAAAT
1 AAAAAAT
6938821 TGTCTCAAGT
Statistics
Matches: 38, Mismatches: 5, Indels: 1
0.86 0.11 0.02
Matches are distributed among these distances:
36 34 0.89
37 4 0.11
ACGTcount: A:0.49, C:0.09, G:0.12, T:0.30
Consensus pattern (36 bp):
AAAAAATATCTCAAAAGAGACAAAACTTGTTTTGAG
Found at i:6938847 original size:37 final size:36
Alignment explanation
Indices: 6938741--6938847 Score: 94
Period size: 36 Copynumber: 2.9 Consensus size: 36
6938731 GTTTCAAGTA
* *
6938741 AAAATAATATCTCAAATGATAC-GAAATTTGTTTTGAG
1 AAAA-AATATCTCAAAAGAGACAGAAA-TTGTTTTGAG
6938778 AAAAAATATCTCAAAAGAGACA-AAACTTGTTTTGAG
1 AAAAAATATCTCAAAAGAGACAGAAA-TTGTTTTGAG
* * **
6938814 TAAAAATTGTCTCAAGTGAGA-AGAAATTCGTTTT
1 -AAAAAATATCTCAAAAGAGACAGAAATT-GTTTT
6938848 TTTGCATAAT
Statistics
Matches: 59, Mismatches: 7, Indels: 8
0.80 0.09 0.11
Matches are distributed among these distances:
36 31 0.53
37 28 0.47
ACGTcount: A:0.44, C:0.09, G:0.15, T:0.32
Consensus pattern (36 bp):
AAAAAATATCTCAAAAGAGACAGAAATTGTTTTGAG
Found at i:6939013 original size:90 final size:90
Alignment explanation
Indices: 6938884--6939427 Score: 892
Period size: 90 Copynumber: 6.0 Consensus size: 90
6938874 AAAATCAGGC
* * * * *
6938884 TTCTAAAAACTCATTTGAAAACATCCTACACTGAAGGTCTTATGGATAGACCGAAGGACTTACAA
1 TTCTAAAATCTCATTTGAAAACATCATGCACTGAAGGTCTTATGGATGGCCCGAAGGACTTACAA
6938949 ATCAAGAAACCCCCGAAGGCTTAGT
66 ATCAAGAAACCCCCGAAGGCTTAGT
* * *
6938974 TTCTAAAATCTCATTTGAAAACATCTTACACTGAAGGTCTTATGGATGGCCCGAAAGACTTACAA
1 TTCTAAAATCTCATTTGAAAACATCATGCACTGAAGGTCTTATGGATGGCCCGAAGGACTTACAA
6939039 ATCAAGAAACCCCCGAAGAG-TTAGT
66 ATCAAGAAACCCCCGAAG-GCTTAGT
* * * * * *
6939064 TTTTAAAACCTCATTTAAAAACATCTTGTACTAAAGGTCTTATGGATGGCCCGAAGGACTTACAA
1 TTCTAAAATCTCATTTGAAAACATCATGCACTGAAGGTCTTATGGATGGCCCGAAGGACTTACAA
6939129 ATCAAGAAACCCCCGAAGGCTTAGT
66 ATCAAGAAACCCCCGAAGGCTTAGT
*
6939154 TTCTAAAATCTCATTTGAAAACATCATGCACTGAAGGTCTTATGGATGGCCCGAATGACTTACAA
1 TTCTAAAATCTCATTTGAAAACATCATGCACTGAAGGTCTTATGGATGGCCCGAAGGACTTACAA
6939219 ATCAAGAAACCCCCGAAGGCTTAGT
66 ATCAAGAAACCCCCGAAGGCTTAGT
6939244 TTCTAAAATCTCATTTGAAAACATCATGCACTGAAGGTCTTATGGATGGCCCGAAGGACTTACAA
1 TTCTAAAATCTCATTTGAAAACATCATGCACTGAAGGTCTTATGGATGGCCCGAAGGACTTACAA
*
6939309 ATCAAGAAACCCTCGAAGGCTTAGT
66 ATCAAGAAACCCCCGAAGGCTTAGT
* * * *
6939334 TTCTAAAATCTCATTTGAAAACATCCTGCATTGAAGGTCTTATGGATGGGCCGAATGACTTACAA
1 TTCTAAAATCTCATTTGAAAACATCATGCACTGAAGGTCTTATGGATGGCCCGAAGGACTTACAA
6939399 ATCAAGAAACCCCCGAAGGCTTAGT
66 ATCAAGAAACCCCCGAAGGCTTAGT
6939424 TTCT
1 TTCT
6939428 TTGAAAGTTT
Statistics
Matches: 426, Mismatches: 26, Indels: 4
0.93 0.06 0.01
Matches are distributed among these distances:
89 1 0.00
90 424 1.00
91 1 0.00
ACGTcount: A:0.35, C:0.22, G:0.17, T:0.26
Consensus pattern (90 bp):
TTCTAAAATCTCATTTGAAAACATCATGCACTGAAGGTCTTATGGATGGCCCGAAGGACTTACAA
ATCAAGAAACCCCCGAAGGCTTAGT
Found at i:6939484 original size:55 final size:54
Alignment explanation
Indices: 6939438--6939549 Score: 172
Period size: 54 Copynumber: 2.1 Consensus size: 54
6939428 TTGAAAGTTT
*
6939438 ATTTGAGAAA-AATCAAGAAACTTCTGAAAATCAGACTTAGTTTCTTTAAAAAAC
1 ATTTGA-AAATAATCAAGAAACCTCTGAAAATCAGACTTAGTTTCTTTAAAAAAC
**
6939492 ATTTGAAAATCGTCAAGAAACCTCTGAAAATCAGACTTAGTTTCTTTAAAAACAC
1 ATTTGAAAATAATCAAGAAACCTCTGAAAATCAGACTTAGTTTCTTTAAAAA-AC
6939547 ATT
1 ATT
6939550 AGCTGGGTAA
Statistics
Matches: 53, Mismatches: 3, Indels: 3
0.90 0.05 0.05
Matches are distributed among these distances:
53 3 0.06
54 45 0.85
55 5 0.09
ACGTcount: A:0.44, C:0.15, G:0.11, T:0.30
Consensus pattern (54 bp):
ATTTGAAAATAATCAAGAAACCTCTGAAAATCAGACTTAGTTTCTTTAAAAAAC
Found at i:6941458 original size:13 final size:13
Alignment explanation
Indices: 6941440--6941488 Score: 57
Period size: 13 Copynumber: 3.9 Consensus size: 13
6941430 TTCTTATTTA
6941440 TTCTTTATTTTTT
1 TTCTTTATTTTTT
*
6941453 TTCTTTATTCTTT
1 TTCTTTATTTTTT
**
6941466 TT-TTCCTTTTTT
1 TTCTTTATTTTTT
6941478 TTCTTT-TTTTT
1 TTCTTTATTTTT
6941489 CTATTTTTTT
Statistics
Matches: 30, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
12 14 0.47
13 16 0.53
ACGTcount: A:0.04, C:0.12, G:0.00, T:0.84
Consensus pattern (13 bp):
TTCTTTATTTTTT
Found at i:6941479 original size:11 final size:9
Alignment explanation
Indices: 6941428--6941508 Score: 74
Period size: 9 Copynumber: 8.4 Consensus size: 9
6941418 GATCTGTCTA
6941428 TTTTCTTATT
1 TTTTCTT-TT
*
6941438 TATTCTTTAT
1 TTTTCTTT-T
6941448 TTTT-TTTCT
1 TTTTCTTT-T
6941457 TTATTCTTTT
1 TT-TTCTTTT
*
6941467 TTTCCTTTT
1 TTTTCTTTT
6941476 TTTTCTTTT
1 TTTTCTTTT
6941485 TTTTCTATTTT
1 TTTTC--TTTT
*
6941496 TTTTCTATT
1 TTTTCTTTT
6941505 TTTT
1 TTTT
6941509 GCTATATCTT
Statistics
Matches: 60, Mismatches: 6, Indels: 11
0.78 0.08 0.14
Matches are distributed among these distances:
9 33 0.55
10 15 0.25
11 12 0.20
ACGTcount: A:0.07, C:0.11, G:0.00, T:0.81
Consensus pattern (9 bp):
TTTTCTTTT
Found at i:6941506 original size:10 final size:10
Alignment explanation
Indices: 6941463--6941513 Score: 61
Period size: 10 Copynumber: 5.1 Consensus size: 10
6941453 TTCTTTATTC
6941463 TTTTTTTCCT-
1 TTTTTTT-CTA
6941473 TTTTTTTCT-
1 TTTTTTTCTA
6941482 TTTTTTTCTA
1 TTTTTTTCTA
6941492 TTTTTTTTCTA
1 -TTTTTTTCTA
*
6941503 TTTTTTGCTA
1 TTTTTTTCTA
6941513 T
1 T
6941514 ATCTTCACTT
Statistics
Matches: 38, Mismatches: 1, Indels: 4
0.88 0.02 0.09
Matches are distributed among these distances:
9 11 0.29
10 17 0.45
11 10 0.26
ACGTcount: A:0.06, C:0.12, G:0.02, T:0.80
Consensus pattern (10 bp):
TTTTTTTCTA
Found at i:6941769 original size:2 final size:2
Alignment explanation
Indices: 6941762--6941805 Score: 88
Period size: 2 Copynumber: 22.0 Consensus size: 2
6941752 ACAACAATGG
6941762 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
6941804 AT
1 AT
6941806 TGAAAGGATA
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 42 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:6953286 original size:21 final size:22
Alignment explanation
Indices: 6953240--6953287 Score: 59
Period size: 21 Copynumber: 2.3 Consensus size: 22
6953230 CCCACCTCTT
6953240 TCTT-CTTTTCTTTCTTATTCA
1 TCTTCCTTTTCTTTCTTATTCA
6953261 T-TTCCTTTT-TTTCTTCATT-A
1 TCTTCCTTTTCTTTCTT-ATTCA
6953281 TCTTCCT
1 TCTTCCT
6953288 CTTCCTTCAC
Statistics
Matches: 24, Mismatches: 0, Indels: 6
0.80 0.00 0.20
Matches are distributed among these distances:
20 10 0.42
21 14 0.58
ACGTcount: A:0.08, C:0.25, G:0.00, T:0.67
Consensus pattern (22 bp):
TCTTCCTTTTCTTTCTTATTCA
Found at i:6956890 original size:30 final size:30
Alignment explanation
Indices: 6956831--6956890 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
6956821 TGGTAAAACG
*
6956831 GGTCAAAGTCAACGTGCATGTCAATGGTCA
1 GGTCAAAGTCAACGTGCAGGTCAATGGTCA
* *
6956861 GGTCAAAGTCAACAGTTCGGGTCAA-GGTCA
1 GGTCAAAGTCAAC-GTGCAGGTCAATGGTCA
6956891 ACCGGTCAAA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
30 18 0.69
31 8 0.31
ACGTcount: A:0.30, C:0.20, G:0.28, T:0.22
Consensus pattern (30 bp):
GGTCAAAGTCAACGTGCAGGTCAATGGTCA
Found at i:6965153 original size:23 final size:23
Alignment explanation
Indices: 6965123--6965169 Score: 94
Period size: 23 Copynumber: 2.0 Consensus size: 23
6965113 GGTGGCCAAT
6965123 GACCGCTAGCGACGGCGGTCAAC
1 GACCGCTAGCGACGGCGGTCAAC
6965146 GACCGCTAGCGACGGCGGTCAAC
1 GACCGCTAGCGACGGCGGTCAAC
6965169 G
1 G
6965170 CGGCAGCCGG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.21, C:0.34, G:0.36, T:0.09
Consensus pattern (23 bp):
GACCGCTAGCGACGGCGGTCAAC
Found at i:6966885 original size:138 final size:136
Alignment explanation
Indices: 6966580--6966905 Score: 338
Period size: 138 Copynumber: 2.4 Consensus size: 136
6966570 TCTTTGAACT
* * *
6966580 TTTAATTTAGGAGAATTTTTGATTTGGCCCTCGCTTATGCTCGAGGTTCCAAATTAATTATTCGA
1 TTTAA-TTAGGAGAA-TTTTAATTTGGTCTTCGCTTATGCTCGAGGTTCCAAATTAATTATTCGA
* * *
6966645 TTCAATAAGTTACTAAAAGTAATTAGAATTAATATTAGAGCCTCCATATTAGGCCTAATTTCACA
64 TTCAATAAGTTACTAAAAGTAAATAGAAGTAATATTAGAGCCTCCATATTAGGCCTAATTTCAAA
*
6966710 TTTATTCC
129 CTTATTCC
* * * * * *
6966718 TTAAATTAGAAGCATTCTTAATTTGGTCTTCGCTTTTGCTTGAGGTTCCAATTTAATTATTCGAA
1 TTTAATTAGGAGAATT-TTAATTTGGTCTTCGCTTATGCTCGAGGTTCCAAATTAATTATTCG-A
* * * * **
6966783 TTGC-ATAA-TTGATTAAAA-TCAAATAG-GGTAATGTTTAGAGCCTCCATTTTAGGTTTAATTT
64 TT-CAATAAGTT-ACTAAAAGT-AAATAGAAGTAAT-ATTAGAGCCTCCATATTAGGCCTAATTT
6966844 -AAACTTATTCC
125 CAAACTTATTCC
* *
6966855 TTTAATCTAGGAGAATTTTCAATTTAGTCTTCGATTATGCTCGAGGTTCCA
1 TTTAAT-TAGGAGAATTTT-AATTTGGTCTTCGCTTATGCTCGAGGTTCCA
6966906 TTTTGGCTGT
Statistics
Matches: 154, Mismatches: 26, Indels: 16
0.79 0.13 0.08
Matches are distributed among these distances:
136 2 0.01
137 70 0.45
138 81 0.53
139 1 0.01
ACGTcount: A:0.30, C:0.15, G:0.15, T:0.41
Consensus pattern (136 bp):
TTTAATTAGGAGAATTTTAATTTGGTCTTCGCTTATGCTCGAGGTTCCAAATTAATTATTCGATT
CAATAAGTTACTAAAAGTAAATAGAAGTAATATTAGAGCCTCCATATTAGGCCTAATTTCAAACT
TATTCC
Found at i:6969965 original size:62 final size:62
Alignment explanation
Indices: 6969868--6969988 Score: 233
Period size: 62 Copynumber: 2.0 Consensus size: 62
6969858 TAGTCCTTCT
*
6969868 CCAATGAGCTAAAATGACTGATTTGTTTAGTTTATTCCAAAACCTTTAACAATTACGAGGGA
1 CCAATGAGCTAAAATGACAGATTTGTTTAGTTTATTCCAAAACCTTTAACAATTACGAGGGA
6969930 CCAATGAGCTAAAATGACAGATTTGTTTAGTTTATTCCAAAACCTTTAACAATTACGAG
1 CCAATGAGCTAAAATGACAGATTTGTTTAGTTTATTCCAAAACCTTTAACAATTACGAG
6969989 TTTGAAGTGC
Statistics
Matches: 58, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
62 58 1.00
ACGTcount: A:0.36, C:0.17, G:0.15, T:0.32
Consensus pattern (62 bp):
CCAATGAGCTAAAATGACAGATTTGTTTAGTTTATTCCAAAACCTTTAACAATTACGAGGGA
Found at i:6975975 original size:64 final size:65
Alignment explanation
Indices: 6975903--6976065 Score: 181
Period size: 64 Copynumber: 2.6 Consensus size: 65
6975893 ATCCCTTGAC
* * * *
6975903 GGGTGCATCGATGCACTTTC-TATGCATCGGTACA-TAAATCCCATTCGATGTTTGTATTTTAAG
1 GGGTGCATCGATGCACTTACTTATGCATCGATACACT-AATCACATTCGATGTTTGTATTTTAAA
6975966 G
65 G
* * * *
6975967 GGGTGCATCGATGCAC-TACTTGTGCATCGATACACTGATGACATTCGATGTTTTTATTTTAAAG
1 GGGTGCATCGATGCACTTACTTATGCATCGATACACTAATCACATTCGATGTTTGTATTTTAAAG
* * * *
6976031 GAGTGCATCGATACACTT-CATGTGCATCGATACAC
1 GGGTGCATCGATGCACTTACTTATGCATCGATACAC
6976066 CTTGAACAAT
Statistics
Matches: 85, Mismatches: 11, Indels: 6
0.83 0.11 0.06
Matches are distributed among these distances:
63 2 0.02
64 81 0.95
65 2 0.02
ACGTcount: A:0.25, C:0.20, G:0.21, T:0.34
Consensus pattern (65 bp):
GGGTGCATCGATGCACTTACTTATGCATCGATACACTAATCACATTCGATGTTTGTATTTTAAAG
Found at i:6979350 original size:103 final size:103
Alignment explanation
Indices: 6979225--6979442 Score: 418
Period size: 103 Copynumber: 2.1 Consensus size: 103
6979215 TAATGTCCAT
*
6979225 AAGGACCACATATCATTCCTTAAGAATCATATACATATGCCAAGGATCAAGTATGTGTCTCACCA
1 AAGGACCACATATCATTCCTTAAGAATCATATACATATGCCAAGGATCAAGTATATGTCTCACCA
6979290 GACCTCACACATGTTCCAAAGAATACATATATGTCCCG
66 GACCTCACACATGTTCCAAAGAATACATATATGTCCCG
6979328 AAGGACCACATATCATTCCTTAAGAATCATATACATATGCCAAGGATCAAGTATATGTCTCACCA
1 AAGGACCACATATCATTCCTTAAGAATCATATACATATGCCAAGGATCAAGTATATGTCTCACCA
*
6979393 GACCTCACACATGTTCCAAAGAATACATGTATGTCCCG
66 GACCTCACACATGTTCCAAAGAATACATATATGTCCCG
6979431 AAGGACCACATA
1 AAGGACCACATA
6979443 GACCCTCTAC
Statistics
Matches: 113, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
103 113 1.00
ACGTcount: A:0.37, C:0.25, G:0.14, T:0.24
Consensus pattern (103 bp):
AAGGACCACATATCATTCCTTAAGAATCATATACATATGCCAAGGATCAAGTATATGTCTCACCA
GACCTCACACATGTTCCAAAGAATACATATATGTCCCG
Found at i:6979997 original size:64 final size:67
Alignment explanation
Indices: 6979891--6980018 Score: 201
Period size: 64 Copynumber: 2.0 Consensus size: 67
6979881 ATTTTCATTT
6979891 TTTAATGGAGGTATGCATCGATGCACTACACCATGCATCGATGCATAAATCCTATTCGATGTTTG
1 TTTAATGGAGGTATGCATCGATGCACTACACCATGCATCGATGCATAAATCCTATTCGATGTTTG
6979956 TA
66 TA
* *
6979958 TTTAATGG-GG-ATGTATCGATGCACT-C-CTTATGCATCGATGCATAAATCCTATTCGATGTTT
1 TTTAATGGAGGTATGCATCGATGCACTACAC-CATGCATCGATGCATAAATCCTATTCGATGTTT
6980019 TCTTTTTAAA
Statistics
Matches: 58, Mismatches: 2, Indels: 5
0.89 0.03 0.08
Matches are distributed among these distances:
63 1 0.02
64 33 0.57
65 14 0.24
66 2 0.03
67 8 0.14
ACGTcount: A:0.27, C:0.19, G:0.20, T:0.35
Consensus pattern (67 bp):
TTTAATGGAGGTATGCATCGATGCACTACACCATGCATCGATGCATAAATCCTATTCGATGTTTG
TA
Found at i:6980056 original size:64 final size:63
Alignment explanation
Indices: 6979903--6980060 Score: 174
Period size: 64 Copynumber: 2.5 Consensus size: 63
6979893 TAATGGAGGT
* * * *
6979903 ATGCATCGATGCACTACACCATGCATCGATGCATAAATCCTATTCGATGTTTGTATTTAATGGGG
1 ATGCATCGATGCACTCCA-TATGCATCGATGCATAAATCCTATTCGATGTTTCTATTTAAT-GGA
* * * *
6979968 ATGTATCGATGCACTCCTTATGCATCGATGCATAAATCCTATTCGATGTTTTCTTTTTAAAT-TA
1 ATGCATCGATGCACTCCATATGCATCGATGCATAAATCCTATTCGATG-TTTCTATTT-AATGGA
* * *
6980032 ATGCATCGATGCATTGCATGTGCATCGAT
1 ATGCATCGATGCACTCCATATGCATCGAT
6980061 ACACCTTAAA
Statistics
Matches: 78, Mismatches: 13, Indels: 5
0.81 0.14 0.05
Matches are distributed among these distances:
64 53 0.68
65 22 0.28
66 3 0.04
ACGTcount: A:0.27, C:0.20, G:0.18, T:0.36
Consensus pattern (63 bp):
ATGCATCGATGCACTCCATATGCATCGATGCATAAATCCTATTCGATGTTTCTATTTAATGGA
Found at i:6983801 original size:18 final size:18
Alignment explanation
Indices: 6983778--6983813 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
6983768 ACTGAATATT
*
6983778 TGTCCCGATTAACCACTA
1 TGTCCCGAATAACCACTA
*
6983796 TGTCCCGAATGACCACTA
1 TGTCCCGAATAACCACTA
6983814 ATAATCTCTC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.28, C:0.33, G:0.14, T:0.25
Consensus pattern (18 bp):
TGTCCCGAATAACCACTA
Found at i:6984503 original size:64 final size:64
Alignment explanation
Indices: 6984435--6984555 Score: 172
Period size: 64 Copynumber: 1.9 Consensus size: 64
6984425 CATAAATCCC
* * * * *
6984435 ATTCGAT-TTTTGTATTTTAAGGGGGTGCATCGATGCACTACTTGTGCATCGATACACTGATGGT
1 ATTCGATGTTTT-TATTTTAAAGGAGTGAATCGATACACTACATGTGCATCGATACACTGATGGT
*
6984499 ATTCGATGTTTTTATTTTAAAGGAGTGAATCGATACACTTCATGTGCATCGATACAC
1 ATTCGATGTTTTTATTTTAAAGGAGTGAATCGATACACTACATGTGCATCGATACAC
6984556 CTTGAACAAT
Statistics
Matches: 50, Mismatches: 6, Indels: 2
0.86 0.10 0.03
Matches are distributed among these distances:
64 46 0.92
65 4 0.08
ACGTcount: A:0.26, C:0.16, G:0.21, T:0.37
Consensus pattern (64 bp):
ATTCGATGTTTTTATTTTAAAGGAGTGAATCGATACACTACATGTGCATCGATACACTGATGGT
Found at i:6985493 original size:17 final size:18
Alignment explanation
Indices: 6985462--6985495 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
6985452 TTAATTACAA
6985462 TTTAGTCCTTGATTTTAT
1 TTTAGTCCTTGATTTTAT
6985480 TTTAGTCCTT-ATTTTA
1 TTTAGTCCTTGATTTTA
6985496 AATTATTTCC
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.18, C:0.12, G:0.09, T:0.62
Consensus pattern (18 bp):
TTTAGTCCTTGATTTTAT
Found at i:6989479 original size:8 final size:8
Alignment explanation
Indices: 6989466--6989504 Score: 60
Period size: 8 Copynumber: 4.6 Consensus size: 8
6989456 ATAAGATATA
6989466 AAAAAATC
1 AAAAAATC
6989474 AAAAAATC
1 AAAAAATC
6989482 AAAAAAAATC
1 --AAAAAATC
6989492 AAAAAATC
1 AAAAAATC
6989500 AAAAA
1 AAAAA
6989505 GAAGAGAAAA
Statistics
Matches: 29, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
8 21 0.72
10 8 0.28
ACGTcount: A:0.79, C:0.10, G:0.00, T:0.10
Consensus pattern (8 bp):
AAAAAATC
Found at i:6989486 original size:18 final size:18
Alignment explanation
Indices: 6989465--6989504 Score: 80
Period size: 18 Copynumber: 2.2 Consensus size: 18
6989455 TATAAGATAT
6989465 AAAAAAATCAAAAAATCA
1 AAAAAAATCAAAAAATCA
6989483 AAAAAAATCAAAAAATCA
1 AAAAAAATCAAAAAATCA
6989501 AAAA
1 AAAA
6989505 GAAGAGAAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.80, C:0.10, G:0.00, T:0.10
Consensus pattern (18 bp):
AAAAAAATCAAAAAATCA
Found at i:6989487 original size:10 final size:10
Alignment explanation
Indices: 6989465--6989497 Score: 52
Period size: 10 Copynumber: 3.5 Consensus size: 10
6989455 TATAAGATAT
6989465 AAAAAAATC-
1 AAAAAAATCA
6989474 -AAAAAATCA
1 AAAAAAATCA
6989483 AAAAAAATCA
1 AAAAAAATCA
6989493 AAAAA
1 AAAAA
6989498 TCAAAAAGAA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
8 8 0.36
10 14 0.64
ACGTcount: A:0.82, C:0.09, G:0.00, T:0.09
Consensus pattern (10 bp):
AAAAAAATCA
Found at i:6989514 original size:17 final size:17
Alignment explanation
Indices: 6989500--6989551 Score: 70
Period size: 17 Copynumber: 3.0 Consensus size: 17
6989490 TCAAAAAATC
*
6989500 AAAAAGAAGAGAAAAAA
1 AAAAAGAAGAAAAAAAA
6989517 AAAAAGAA-AAAAAAAGA
1 AAAAAGAAGAAAAAAA-A
6989534 AAAAAGAAGAAAGAAAAA
1 AAAAAGAAGAAA-AAAAA
6989552 TACTTGAAGA
Statistics
Matches: 31, Mismatches: 1, Indels: 5
0.84 0.03 0.14
Matches are distributed among these distances:
16 6 0.19
17 17 0.55
18 4 0.13
19 4 0.13
ACGTcount: A:0.85, C:0.00, G:0.15, T:0.00
Consensus pattern (17 bp):
AAAAAGAAGAAAAAAAA
Found at i:6989539 original size:7 final size:7
Alignment explanation
Indices: 6989509--6989551 Score: 50
Period size: 7 Copynumber: 6.0 Consensus size: 7
6989499 CAAAAAGAAG
6989509 AGAAAAA
1 AGAAAAA
*
6989516 AAAAAAGA
1 AGAAAA-A
*
6989524 AAAAAAA
1 AGAAAAA
6989531 AGAAAAA
1 AGAAAAA
*
6989538 AGAAGAA
1 AGAAAAA
6989545 AGAAAAA
1 AGAAAAA
6989552 TACTTGAAGA
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
7 24 0.77
8 7 0.23
ACGTcount: A:0.86, C:0.00, G:0.14, T:0.00
Consensus pattern (7 bp):
AGAAAAA
Found at i:6989546 original size:24 final size:23
Alignment explanation
Indices: 6989501--6989551 Score: 68
Period size: 22 Copynumber: 2.2 Consensus size: 23
6989491 CAAAAAATCA
*
6989501 AAAAGAAGAGAAAAAAAAAAAGA
1 AAAAGAAAAGAAAAAAAAAAAGA
6989524 AAAA-AAAAGAAAAAAGAAGAAAGA
1 AAAAGAAAAGAAAAAA-AA-AAAGA
6989548 AAAA
1 AAAA
6989552 TACTTGAAGA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
22 10 0.40
23 6 0.24
24 9 0.36
ACGTcount: A:0.84, C:0.00, G:0.16, T:0.00
Consensus pattern (23 bp):
AAAAGAAAAGAAAAAAAAAAAGA
Found at i:6989551 original size:14 final size:13
Alignment explanation
Indices: 6989500--6989548 Score: 55
Period size: 14 Copynumber: 3.6 Consensus size: 13
6989490 TCAAAAAATC
6989500 AAAAAGAAGAGAAA
1 AAAAAGAAGA-AAA
*
6989514 AAAAAAAAGAAAA
1 AAAAAGAAGAAAA
6989527 AAAAAGAA-AAAA
1 AAAAAGAAGAAAA
6989539 GAAGAAAGAA
1 -AA-AAAGAA
6989549 AAATACTTGA
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
12 4 0.13
13 12 0.39
14 15 0.48
ACGTcount: A:0.84, C:0.00, G:0.16, T:0.00
Consensus pattern (13 bp):
AAAAAGAAGAAAA
Found at i:6990781 original size:19 final size:19
Alignment explanation
Indices: 6990759--6990796 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
6990749 AATTAAAACT
*
6990759 TAAAATTAAAAACTAAAGA
1 TAAAAGTAAAAACTAAAGA
*
6990778 TAAAAGTAAAAACTGAAGA
1 TAAAAGTAAAAACTAAAGA
6990797 AAACTAAAAC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.66, C:0.05, G:0.11, T:0.18
Consensus pattern (19 bp):
TAAAAGTAAAAACTAAAGA
Found at i:6990915 original size:24 final size:24
Alignment explanation
Indices: 6990888--6990946 Score: 72
Period size: 23 Copynumber: 2.5 Consensus size: 24
6990878 TAAAAATCCT
6990888 AACAGATAATTCCTAATAAAT-ACA
1 AACAGATAATTCCTAA-AAATAACA
6990912 AAC--ATAATTCCCTAAAAATAACA
1 AACAGATAATT-CCTAAAAATAACA
6990935 AA-AGATAATTCC
1 AACAGATAATTCC
6990947 CATAATTATT
Statistics
Matches: 31, Mismatches: 0, Indels: 9
0.77 0.00 0.22
Matches are distributed among these distances:
22 10 0.32
23 12 0.39
24 9 0.29
ACGTcount: A:0.54, C:0.19, G:0.03, T:0.24
Consensus pattern (24 bp):
AACAGATAATTCCTAAAAATAACA
Found at i:6990921 original size:22 final size:23
Alignment explanation
Indices: 6990893--6990946 Score: 67
Period size: 22 Copynumber: 2.3 Consensus size: 23
6990883 ATCCTAACAG
6990893 ATAATTCCTAATAAAT-AC-AAAC
1 ATAATTCCTAA-AAATAACAAAAC
*
6990915 ATAATTCCCTAAAAATAACAAAAG
1 ATAATT-CCTAAAAATAACAAAAC
6990939 ATAATTCC
1 ATAATTCC
6990947 CATAATTATT
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
22 10 0.36
23 9 0.32
24 9 0.32
ACGTcount: A:0.54, C:0.19, G:0.02, T:0.26
Consensus pattern (23 bp):
ATAATTCCTAAAAATAACAAAAC
Found at i:6990947 original size:24 final size:23
Alignment explanation
Indices: 6990874--6990947 Score: 80
Period size: 24 Copynumber: 3.2 Consensus size: 23
6990864 TCTCCTCAAA
* *
6990874 TCCCTAAAAATCCTAACAGATAAT
1 TCCCTAAAAATAC-AAAAGATAAT
*
6990898 T-CCTAATAAATAC-AAACATAAT
1 TCCCTAA-AAATACAAAAGATAAT
6990920 TCCCTAAAAATAACAAAAGATAAT
1 TCCCTAAAAAT-ACAAAAGATAAT
6990944 TCCC
1 TCCC
6990948 ATAATTATTT
Statistics
Matches: 42, Mismatches: 4, Indels: 8
0.78 0.07 0.15
Matches are distributed among these distances:
22 12 0.29
23 12 0.29
24 18 0.43
ACGTcount: A:0.50, C:0.23, G:0.03, T:0.24
Consensus pattern (23 bp):
TCCCTAAAAATACAAAAGATAAT
Found at i:6992570 original size:23 final size:23
Alignment explanation
Indices: 6992539--6992644 Score: 110
Period size: 23 Copynumber: 4.7 Consensus size: 23
6992529 GTCGAGGGTT
*
6992539 CTATGTGGTCCTTTGGGACAAAA
1 CTATGTGGTCATTTGGGACAAAA
* *
6992562 CTATATGGTCATTCGGGACAAAA
1 CTATGTGGTCATTTGGGACAAAA
*
6992585 ATATGTGGTCATTTGGGACAAAA
1 CTATGTGGTCATTTGGGACAAAA
* * **
6992608 GTAAGTGGTCATTCAGGAC-AAA
1 CTATGTGGTCATTTGGGACAAAA
6992630 -TATGTGG-CACTTTGG
1 CTATGTGGTCA-TTTGG
6992645 TGCAAATTAT
Statistics
Matches: 69, Mismatches: 13, Indels: 4
0.80 0.15 0.05
Matches are distributed among these distances:
20 2 0.03
21 9 0.13
22 3 0.04
23 55 0.80
ACGTcount: A:0.30, C:0.14, G:0.26, T:0.29
Consensus pattern (23 bp):
CTATGTGGTCATTTGGGACAAAA
Found at i:6992607 original size:46 final size:44
Alignment explanation
Indices: 6992540--6992644 Score: 133
Period size: 46 Copynumber: 2.3 Consensus size: 44
6992530 TCGAGGGTTC
* *
6992540 TATGTGGTCCTTTGGGACAAAACTATA-TGGTCATTCGGGACAAAAA
1 TATGTGGTCATTTGGGACAAAACTA-AGTGGTCATTCAGGAC--AAA
*
6992586 TATGTGGTCATTTGGGACAAAAGTAAGTGGTCATTCAGGACAAA
1 TATGTGGTCATTTGGGACAAAACTAAGTGGTCATTCAGGACAAA
6992630 TATGTGG-CACTTTGG
1 TATGTGGTCA-TTTGG
6992645 TGCAAATTAT
Statistics
Matches: 54, Mismatches: 3, Indels: 6
0.86 0.05 0.10
Matches are distributed among these distances:
43 2 0.04
44 15 0.28
45 1 0.02
46 36 0.67
ACGTcount: A:0.30, C:0.13, G:0.27, T:0.30
Consensus pattern (44 bp):
TATGTGGTCATTTGGGACAAAACTAAGTGGTCATTCAGGACAAA
Found at i:7004678 original size:3 final size:3
Alignment explanation
Indices: 7004670--7004698 Score: 51
Period size: 3 Copynumber: 10.0 Consensus size: 3
7004660 TGGTTCATTT
7004670 TTC TTC TTC TTC TTC TTC TTC TTC -TC TTC
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC
7004699 CCTTGACTCT
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
2 2 0.08
3 23 0.92
ACGTcount: A:0.00, C:0.34, G:0.00, T:0.66
Consensus pattern (3 bp):
TTC
Found at i:7022329 original size:27 final size:26
Alignment explanation
Indices: 7022284--7022403 Score: 88
Period size: 27 Copynumber: 4.5 Consensus size: 26
7022274 TCACTTAAAG
7022284 AAGAAATAA-AAGAGAAAAAATGA-AAA
1 AAGAAA-AAGAAGA-AAAAAATGAGAAA
* * *
7022310 AATGAAAAATAATAATAAAAATGAGAAG
1 AA-GAAAAAGAAGAA-AAAAATGAGAAA
7022338 AAGAAAAAGAAGAAAAAAATGAGAAAA
1 AAGAAAAAGAAGAAAAAAATGAG-AAA
*
7022365 AATGGAAAAGGGAAG-AAAAAATGA-AAA
1 AA--GAAAA-AGAAGAAAAAAATGAGAAA
*
7022392 ATGAAAAA-AAGA
1 AAGAAAAAGAAGA
7022404 GAAATAAAAG
Statistics
Matches: 77, Mismatches: 8, Indels: 20
0.73 0.08 0.19
Matches are distributed among these distances:
23 3 0.04
25 5 0.06
26 14 0.18
27 33 0.43
28 4 0.05
29 14 0.18
30 4 0.05
ACGTcount: A:0.72, C:0.00, G:0.18, T:0.09
Consensus pattern (26 bp):
AAGAAAAAGAAGAAAAAAATGAGAAA
Found at i:7022373 original size:19 final size:17
Alignment explanation
Indices: 7022352--7022401 Score: 57
Period size: 18 Copynumber: 2.9 Consensus size: 17
7022342 AAAAGAAGAA
7022352 AAAAATGAGAAAAAATGG
1 AAAAATGAGAAAAAAT-G
**
7022370 AAAAGGGAAGAAAAAATG
1 AAAAATG-AGAAAAAATG
7022388 AAAAATGA-AAAAAA
1 AAAAATGAGAAAAAA
7022402 GAGAAATAAA
Statistics
Matches: 27, Mismatches: 4, Indels: 4
0.77 0.11 0.11
Matches are distributed among these distances:
16 6 0.22
17 1 0.04
18 11 0.41
19 9 0.33
ACGTcount: A:0.72, C:0.00, G:0.20, T:0.08
Consensus pattern (17 bp):
AAAAATGAGAAAAAATG
Found at i:7023749 original size:37 final size:37
Alignment explanation
Indices: 7023688--7023793 Score: 117
Period size: 37 Copynumber: 2.9 Consensus size: 37
7023678 TCGAAACAGG
* * * * *
7023688 TCAATCTTAAACCTTCACGAAAGAGCAGTGAAGCAAT
1 TCAATCTTAAGCCTTCATGGAAGAGTAGTGAAGCAAA
* *
7023725 TCAAACTTAAGCCTTCATGGAAGAGTTGTGAAGCAAA
1 TCAATCTTAAGCCTTCATGGAAGAGTAGTGAAGCAAA
*
7023762 TC-ATCATAAGCCTTC-TCGGAAGAGTAGTGAAG
1 TCAATCTTAAGCCTTCAT-GGAAGAGTAGTGAAG
7023794 TAAACTCATT
Statistics
Matches: 58, Mismatches: 10, Indels: 3
0.82 0.14 0.04
Matches are distributed among these distances:
35 1 0.02
36 25 0.43
37 32 0.55
ACGTcount: A:0.37, C:0.19, G:0.21, T:0.24
Consensus pattern (37 bp):
TCAATCTTAAGCCTTCATGGAAGAGTAGTGAAGCAAA
Found at i:7023783 original size:36 final size:37
Alignment explanation
Indices: 7023732--7023802 Score: 101
Period size: 36 Copynumber: 1.9 Consensus size: 37
7023722 AATTCAAACT
*
7023732 TAAGCCTTCATGGAAGAGTTGTGAAGCAAA-TCATCA
1 TAAGCCTTCATGGAAGAGTAGTGAAGCAAACTCATCA
*
7023768 TAAGCCTTC-TCGGAAGAGTAGTGAAGTAAACTCAT
1 TAAGCCTTCAT-GGAAGAGTAGTGAAGCAAACTCAT
7023803 TTTATGAAGA
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
35 1 0.03
36 26 0.84
37 4 0.13
ACGTcount: A:0.35, C:0.17, G:0.23, T:0.25
Consensus pattern (37 bp):
TAAGCCTTCATGGAAGAGTAGTGAAGCAAACTCATCA
Found at i:7023945 original size:55 final size:54
Alignment explanation
Indices: 7023813--7024232 Score: 463
Period size: 55 Copynumber: 7.7 Consensus size: 54
7023803 TTTATGAAGA
* *
7023813 TCGAGTTCTATACTCTCTGATAGAATAGGGAGCGGACCCGTTTGTTGAAGA----
1 TCGAGTCCTATACTCTCTGA-AGAATAGAGAGCGGACCCGTTTGTTGAAGATTGT
* * *
7023864 TCGAGTTCTATACTCTCTGATGGAATAGAGAGTGGACCCGTTTGTTGAAGATTGT
1 TCGAGTCCTATACTCTCTGA-AGAATAGAGAGCGGACCCGTTTGTTGAAGATTGT
* ** *
7023919 TCGAGTCCCATACTCTCTGATAGAATAGAGAGCGGATTCGTTTGTTGAATATTGT
1 TCGAGTCCTATACTCTCTGA-AGAATAGAGAGCGGACCCGTTTGTTGAAGATTGT
* * *
7023974 TCGAGTTCTATACTCTCTGAAGGAATAGAGAGCGGACCCGTTTGTCGAAAATTGT
1 TCGAGTCCTATACTCTCTGAA-GAATAGAGAGCGGACCCGTTTGTTGAAGATTGT
* *
7024029 TTGAGTCCTATACTCTCTCAAAGAATAGAGAGCGGACCCGTTTGTTGAAGATTGT
1 TCGAGTCCTATACTCTCT-GAAGAATAGAGAGCGGACCCGTTTGTTGAAGATTGT
* * * * *
7024084 TCAAGTTCTATACTCTCTGAAGGAATAGAGAGCGAACTCGTTTGGTGAAGATTGT
1 TCGAGTCCTATACTCTCTGAA-GAATAGAGAGCGGACCCGTTTGTTGAAGATTGT
* * * * * * * *
7024139 TCGAGTCTTATACTCCCTGAATGAATAGGGAGCAGACACATTTGCTGAAAATTGT
1 TCGAGTCCTATACTCTCTGAA-GAATAGAGAGCGGACCCGTTTGTTGAAGATTGT
* *
7024194 TCGAGTCTTATACTCCCTGAAGGAATATG-GAGCGGACCC
1 TCGAGTCCTATACTCTCTGAA-GAATA-GAGAGCGGACCC
7024233 ATCATCCGAA
Statistics
Matches: 318, Mismatches: 43, Indels: 12
0.85 0.12 0.03
Matches are distributed among these distances:
51 48 0.15
54 3 0.01
55 264 0.83
56 3 0.01
ACGTcount: A:0.27, C:0.18, G:0.25, T:0.30
Consensus pattern (54 bp):
TCGAGTCCTATACTCTCTGAAGAATAGAGAGCGGACCCGTTTGTTGAAGATTGT
Found at i:7024018 original size:110 final size:109
Alignment explanation
Indices: 7023813--7024232 Score: 519
Period size: 110 Copynumber: 3.9 Consensus size: 109
7023803 TTTATGAAGA
* * *
7023813 TCGAGTTCTATACTCTCTGATAGAATAGGGAGCGGACCCGTTTGTTG-AA--GATCGAGTTCTAT
1 TCGAGTCCTATACTCTCTGATAGAATAGAGAGCGGACCCGTTTGTTGAAATTGTTCGAGTTCTAT
* *
7023875 ACTCTCTGATGGAATAGAGAGTGGACCCGTTTGTTGAAGATTGT
66 ACTCTCTGAAGGAATAGAGAGCGGACCCGTTTGTTGAAGATTGT
* **
7023919 TCGAGTCCCATACTCTCTGATAGAATAGAGAGCGGATTCGTTTGTTGAATATTGTTCGAGTTCTA
1 TCGAGTCCTATACTCTCTGATAGAATAGAGAGCGGACCCGTTTGTTGAA-ATTGTTCGAGTTCTA
* *
7023984 TACTCTCTGAAGGAATAGAGAGCGGACCCGTTTGTCGAAAATTGT
65 TACTCTCTGAAGGAATAGAGAGCGGACCCGTTTGTTGAAGATTGT
* * * *
7024029 TTGAGTCCTATACTCTCTCAAAGAATAGAGAGCGGACCCGTTTGTTGAAGATTGTTCAAGTTCTA
1 TCGAGTCCTATACTCTCTGATAGAATAGAGAGCGGACCCGTTTGTTGAA-ATTGTTCGAGTTCTA
* * *
7024094 TACTCTCTGAAGGAATAGAGAGCGAACTCGTTTGGTGAAGATTGT
65 TACTCTCTGAAGGAATAGAGAGCGGACCCGTTTGTTGAAGATTGT
* * * * * * *
7024139 TCGAGTCTTATACTCCCTGA-ATGAATAGGGAGCAGACACATTTGCTGAAAATTGTTCGAG-TCT
1 TCGAGTCCTATACTCTCTGATA-GAATAGAGAGCGGACCCGTTTGTTG-AAATTGTTCGAGTTC-
*
7024202 TATACTCCCTGAAGGAATATG-GAGCGGACCC
63 TATACTCTCTGAAGGAATA-GAGAGCGGACCC
7024233 ATCATCCGAA
Statistics
Matches: 270, Mismatches: 36, Indels: 12
0.85 0.11 0.04
Matches are distributed among these distances:
106 42 0.16
107 1 0.00
108 1 0.00
109 3 0.01
110 220 0.81
111 3 0.01
ACGTcount: A:0.27, C:0.18, G:0.25, T:0.30
Consensus pattern (109 bp):
TCGAGTCCTATACTCTCTGATAGAATAGAGAGCGGACCCGTTTGTTGAAATTGTTCGAGTTCTAT
ACTCTCTGAAGGAATAGAGAGCGGACCCGTTTGTTGAAGATTGT
Found at i:7024081 original size:165 final size:164
Alignment explanation
Indices: 7023813--7024232 Score: 523
Period size: 165 Copynumber: 2.6 Consensus size: 164
7023803 TTTATGAAGA
* * *
7023813 TCGAGTTCTATACTCTCTGATAGAATAGGGAGCGGACCCGTTTGTTG--AA--GATCGAGTTCTA
1 TCGAGTTCTATACTCTCTGA-AGAATAGGGAGCGGACCCGTTTGTCGAAAATTGTTCGAGTCCTA
* * *
7023874 TACTCTCTGATGGAATAGAGAGTGGACCCGTTTGTTGAAGATTGTTCGAGTCCCATACTCTCTGA
65 TACTCTCTGAAGGAATAGAGAGCGGACCCGTTTGTTGAAGATTGTTCAAGTCCCATACTCTCTGA
* * * *
7023939 TA-GAATAGAGAGCGGATTCGTTTGTTGAATATTGT
130 -AGGAATAGAGAGCGAACTCGTTTGGTGAAGATTGT
* *
7023974 TCGAGTTCTATACTCTCTGAAGGAATAGAGAGCGGACCCGTTTGTCGAAAATTGTTTGAGTCCTA
1 TCGAGTTCTATACTCTCTGAA-GAATAGGGAGCGGACCCGTTTGTCGAAAATTGTTCGAGTCCTA
* * * *
7024039 TACTCTCTCAAAGAATAGAGAGCGGACCCGTTTGTTGAAGATTGTTCAAGTTCTATACTCTCTGA
65 TACTCTCTGAAGGAATAGAGAGCGGACCCGTTTGTTGAAGATTGTTCAAGTCCCATACTCTCTGA
7024104 AGGAATAGAGAGCGAACTCGTTTGGTGAAGATTGT
130 AGGAATAGAGAGCGAACTCGTTTGGTGAAGATTGT
* * * * *
7024139 TCGAG-TCTTATACTCCCTGAATGAATAGGGAGCAGACACATTTG-CTGAAAATTGTTCGAGTCT
1 TCGAGTTC-TATACTCTCTGAA-GAATAGGGAGCGGACCCGTTTGTC-GAAAATTGTTCGAGTCC
*
7024202 TATACTCCCTGAAGGAATATG-GAGCGGACCC
63 TATACTCTCTGAAGGAATA-GAGAGCGGACCC
7024233 ATCATCCGAA
Statistics
Matches: 223, Mismatches: 27, Indels: 14
0.84 0.10 0.05
Matches are distributed among these distances:
160 1 0.00
161 43 0.19
163 2 0.01
164 4 0.02
165 172 0.77
166 1 0.00
ACGTcount: A:0.27, C:0.18, G:0.25, T:0.30
Consensus pattern (164 bp):
TCGAGTTCTATACTCTCTGAAGAATAGGGAGCGGACCCGTTTGTCGAAAATTGTTCGAGTCCTAT
ACTCTCTGAAGGAATAGAGAGCGGACCCGTTTGTTGAAGATTGTTCAAGTCCCATACTCTCTGAA
GGAATAGAGAGCGAACTCGTTTGGTGAAGATTGT
Found at i:7027800 original size:2 final size:2
Alignment explanation
Indices: 7027789--7027818 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
7027779 TTATCATAAA
7027789 AT AT -T AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
7027819 ATTGTATTTG
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 26 0.96
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:7032730 original size:535 final size:533
Alignment explanation
Indices: 7031708--7032776 Score: 2012
Period size: 535 Copynumber: 2.0 Consensus size: 533
7031698 AGCTTCCATG
7031708 TTGCAACCTTGATGTTCAATGCAAACAAGATTTATGGATATCCAATAGTATCTAGCACAAAATGA
1 TTGCAACCTTGATGTTCAATGCAAACAAGATTTATGGATATCCAATAGTATCTAGCACAAAATGA
7031773 TAGATGTCGACTCTATCTTTTAACGAGATTTCTAATTATTAGAATTTTTCAAAAGATCACAAAAA
66 TAGATGTCGACTCTATCTTTTAACGAGATTTCTAATTATTAGAATTTTTCAAAAGATCACAAAAA
*
7031838 TAGTTTGATGAAAATAAAATGATTTTAATTTGTCATGTCATCATTTCTTGATGACGGCGATCGTA
131 TAGTTTGATGAAAATAAAATGATTTTAATTTGTCATGTCAGCATTTCTTGATGACGGCGATCGTA
7031903 GTGAAATCGAATTAAAGTTCAATGACTATATTATAAGTTTTAAAAGTTTGATGACCAAAACACAG
196 GTGAAATCGAATTAAAGTTCAATGACTATATTATAAGTTTTAAAAGTTTGATGACCAAAACACAG
7031968 ATAGCTTAAAAGTTTGATGACTATTTATCCTAAGTTTTAATTCAAGTGGTTTCATTTATGATAAG
261 ATAGCTTAAAAGTTTGATGACTATTTATCCTAAGTTTTAATTCAAGTGGTTTCATTTATGATAAG
7032033 GGGTGTTGGTTGCAGACTAGCAGTTGGTATTTTGTTGGTGTTTAAAATAAGGCTTAATACTAAAA
326 GGGTGTTGGTTGCAGACTAGCAGTTGGTATTTTGTTGGTGTTTAAAATAAGGCTTAATACTAAAA
* *
7032098 GAAGTGCCCAAACTATAATGCTTTCCTAAATAGGTTTTTATTTTTTGACTCATTCATTGCCAAAT
391 GAAGTGCCAAAACTATAATGCTTTCCTAAATAGGTTTTTATTTTTTGACTCATTCAATGCCAAAT
* * *
7032163 GTTACAAACGCTACCCATTTAGGTGTTCGGACCATTAACGGCGTTAATTTCTCCCGTAAAGGACA
456 GTTACAAACGCTACCCATTTAGGTGCTCGGACC-GT-ACGGCGTTAATTTATCCCGTAAAGGACA
7032228 CATGTCACAATCTGT
519 CATGTCACAATCTGT
*
7032243 TTGCAATCTTGATGTTCAATGCAAACAAGATTTATGGATATCCAATAGTATCTAGCACAAAATGA
1 TTGCAACCTTGATGTTCAATGCAAACAAGATTTATGGATATCCAATAGTATCTAGCACAAAATGA
*
7032308 TAGATGTCGATTCTATCTTTTAACGAGATTTCTAATTATTAGAATTTTTCAAAAGATCACAAAAA
66 TAGATGTCGACTCTATCTTTTAACGAGATTTCTAATTATTAGAATTTTTCAAAAGATCACAAAAA
7032373 TAGTTTGATGAAAATAAAATGATTTTAATTTGTCATGTCAGCATTTCTTGATGACGGCGATCGTA
131 TAGTTTGATGAAAATAAAATGATTTTAATTTGTCATGTCAGCATTTCTTGATGACGGCGATCGTA
7032438 GTGAAATCGAATTAAAGTTCAATGACTATATTATAAGTTTTAAAAGTTTGATGACCAAAACACAG
196 GTGAAATCGAATTAAAGTTCAATGACTATATTATAAGTTTTAAAAGTTTGATGACCAAAACACAG
7032503 ATAGCTTAAAAGTTTGATGACTATTTATCCTAAGTTTTAATTCAAGTGGTTTCATTTATGATAAG
261 ATAGCTTAAAAGTTTGATGACTATTTATCCTAAGTTTTAATTCAAGTGGTTTCATTTATGATAAG
7032568 GGGTGTTGGTTGCAGACTAGCAGTTGGTATTTTGTTGGTGTTTAAAATAAGGCTTAATACTAAAA
326 GGGTGTTGGTTGCAGACTAGCAGTTGGTATTTTGTTGGTGTTTAAAATAAGGCTTAATACTAAAA
* *
7032633 GAAGTGCCAAAACTATACTGCTTTCCTAAATAGGTTTTTATTTTTTGACTCATTCAATGTCAAAT
391 GAAGTGCCAAAACTATAATGCTTTCCTAAATAGGTTTTTATTTTTTGACTCATTCAATGCCAAAT
* *
7032698 GTTACGAATGCTACCCATTTAGGTGCTCGGACCGTACGGCGTTAATTTATCCCGTAAAGGACACA
456 GTTACAAACGCTACCCATTTAGGTGCTCGGACCGTACGGCGTTAATTTATCCCGTAAAGGACACA
7032763 TGTCACAATCTGT
521 TGTCACAATCTGT
7032776 T
1 T
7032777 AGTTTTGAAA
Statistics
Matches: 522, Mismatches: 12, Indels: 2
0.97 0.02 0.00
Matches are distributed among these distances:
533 43 0.08
534 1 0.00
535 478 0.92
ACGTcount: A:0.33, C:0.14, G:0.17, T:0.36
Consensus pattern (533 bp):
TTGCAACCTTGATGTTCAATGCAAACAAGATTTATGGATATCCAATAGTATCTAGCACAAAATGA
TAGATGTCGACTCTATCTTTTAACGAGATTTCTAATTATTAGAATTTTTCAAAAGATCACAAAAA
TAGTTTGATGAAAATAAAATGATTTTAATTTGTCATGTCAGCATTTCTTGATGACGGCGATCGTA
GTGAAATCGAATTAAAGTTCAATGACTATATTATAAGTTTTAAAAGTTTGATGACCAAAACACAG
ATAGCTTAAAAGTTTGATGACTATTTATCCTAAGTTTTAATTCAAGTGGTTTCATTTATGATAAG
GGGTGTTGGTTGCAGACTAGCAGTTGGTATTTTGTTGGTGTTTAAAATAAGGCTTAATACTAAAA
GAAGTGCCAAAACTATAATGCTTTCCTAAATAGGTTTTTATTTTTTGACTCATTCAATGCCAAAT
GTTACAAACGCTACCCATTTAGGTGCTCGGACCGTACGGCGTTAATTTATCCCGTAAAGGACACA
TGTCACAATCTGT
Found at i:7034238 original size:34 final size:34
Alignment explanation
Indices: 7034195--7034264 Score: 140
Period size: 34 Copynumber: 2.1 Consensus size: 34
7034185 GATTAATCTT
7034195 ATCGTAAAGTGAAGGTTTAATAGTGTTGTAGGTG
1 ATCGTAAAGTGAAGGTTTAATAGTGTTGTAGGTG
7034229 ATCGTAAAGTGAAGGTTTAATAGTGTTGTAGGTG
1 ATCGTAAAGTGAAGGTTTAATAGTGTTGTAGGTG
7034263 AT
1 AT
7034265 TAAATTTCCC
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 36 1.00
ACGTcount: A:0.30, C:0.03, G:0.31, T:0.36
Consensus pattern (34 bp):
ATCGTAAAGTGAAGGTTTAATAGTGTTGTAGGTG
Found at i:7035349 original size:37 final size:37
Alignment explanation
Indices: 7035273--7035349 Score: 102
Period size: 37 Copynumber: 2.1 Consensus size: 37
7035263 TTTTTATATT
*
7035273 TTTAATTTTGTAAAAAAATATATATAAATATTATGAA
1 TTTAATTTTGTAAAAAAATATATATAAATATTATCAA
* * *
7035310 TTTAATTTTTTAAAGAAA-ATATATAAATATTTTACAA
1 TTTAATTTTGTAAAAAAATATATATAAATATTAT-CAA
7035347 TTT
1 TTT
7035350 GTAATATTAT
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
36 14 0.40
37 21 0.60
ACGTcount: A:0.48, C:0.01, G:0.04, T:0.47
Consensus pattern (37 bp):
TTTAATTTTGTAAAAAAATATATATAAATATTATCAA
Found at i:7035512 original size:18 final size:19
Alignment explanation
Indices: 7035489--7035532 Score: 54
Period size: 20 Copynumber: 2.3 Consensus size: 19
7035479 CCAGTAATCC
*
7035489 TATTCC-CTGATAATCTTT
1 TATTCCACTGATAATCTTA
*
7035507 TATTCCCACTGCTAATCTTA
1 TATT-CCACTGATAATCTTA
7035527 TATTCC
1 TATTCC
7035533 GTGAACCAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
18 4 0.18
19 4 0.18
20 14 0.64
ACGTcount: A:0.23, C:0.27, G:0.05, T:0.45
Consensus pattern (19 bp):
TATTCCACTGATAATCTTA
Found at i:7038206 original size:33 final size:33
Alignment explanation
Indices: 7038164--7038228 Score: 121
Period size: 33 Copynumber: 2.0 Consensus size: 33
7038154 ATTTCTTCAA
*
7038164 CCATATTTCTGTTTTCAACATGGACAAGATTAG
1 CCATATTTCTGTTTTCAACATGCACAAGATTAG
7038197 CCATATTTCTGTTTTCAACATGCACAAGATTA
1 CCATATTTCTGTTTTCAACATGCACAAGATTA
7038229 AACAACTGAA
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 31 1.00
ACGTcount: A:0.31, C:0.20, G:0.12, T:0.37
Consensus pattern (33 bp):
CCATATTTCTGTTTTCAACATGCACAAGATTAG
Found at i:7038739 original size:19 final size:19
Alignment explanation
Indices: 7038711--7038747 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
7038701 TATTTTAAAG
*
7038711 TTTTTTATTTTAAATAAGA
1 TTTTTAATTTTAAATAAGA
*
7038730 TTTTTAATTTTATATAAG
1 TTTTTAATTTTAAATAAG
7038748 GCTTAAATGC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.35, C:0.00, G:0.05, T:0.59
Consensus pattern (19 bp):
TTTTTAATTTTAAATAAGA
Found at i:7043633 original size:13 final size:13
Alignment explanation
Indices: 7043615--7043655 Score: 54
Period size: 13 Copynumber: 3.5 Consensus size: 13
7043605 CCGAAGTGCC
7043615 CCGTAGAATTGCA
1 CCGTAGAATTGCA
7043628 CCGTAG---TGC-
1 CCGTAGAATTGCA
7043637 CCGTAGAATTGCA
1 CCGTAGAATTGCA
7043650 CCGTAG
1 CCGTAG
7043656 TGCCCATAGA
Statistics
Matches: 24, Mismatches: 0, Indels: 8
0.75 0.00 0.25
Matches are distributed among these distances:
9 6 0.25
10 3 0.12
12 3 0.12
13 12 0.50
ACGTcount: A:0.24, C:0.27, G:0.27, T:0.22
Consensus pattern (13 bp):
CCGTAGAATTGCA
Found at i:7043642 original size:22 final size:22
Alignment explanation
Indices: 7043601--7043667 Score: 107
Period size: 22 Copynumber: 3.0 Consensus size: 22
7043591 CTCGTATAAA
*
7043601 TGCACCGAAGTGCCCCGTAGAAT
1 TGCACCGTAGTG-CCCGTAGAAT
7043624 TGCACCGTAGTGCCCGTAGAAT
1 TGCACCGTAGTGCCCGTAGAAT
*
7043646 TGCACCGTAGTGCCCATAGAAT
1 TGCACCGTAGTGCCCGTAGAAT
7043668 GATGTCCATA
Statistics
Matches: 42, Mismatches: 2, Indels: 1
0.93 0.04 0.02
Matches are distributed among these distances:
22 31 0.74
23 11 0.26
ACGTcount: A:0.25, C:0.28, G:0.25, T:0.21
Consensus pattern (22 bp):
TGCACCGTAGTGCCCGTAGAAT
Found at i:7045424 original size:22 final size:21
Alignment explanation
Indices: 7045378--7045420 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
7045368 TTCATATTCG
* *
7045378 CTTGAAGGGGTATCGGTTCCC
1 CTTGAAGGGGTACCGATTCCC
*
7045399 CTTGAATGGGTACCGATTCCC
1 CTTGAAGGGGTACCGATTCCC
7045420 C
1 C
7045421 CTTGCCCAGA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.16, C:0.28, G:0.28, T:0.28
Consensus pattern (21 bp):
CTTGAAGGGGTACCGATTCCC
Found at i:7048335 original size:12 final size:13
Alignment explanation
Indices: 7048318--7048370 Score: 56
Period size: 12 Copynumber: 3.9 Consensus size: 13
7048308 CAGACAAAAT
7048318 AACAAA-AATTTA
1 AACAAATAATTTA
7048330 AACAAATAATTTCA
1 AACAAATAATTT-A
7048344 CACTACAAA-AATTTA
1 -A--ACAAATAATTTA
7048359 AACAAATAATTT
1 AACAAATAATTT
7048371 TACATTATTC
Statistics
Matches: 35, Mismatches: 0, Indels: 11
0.76 0.00 0.24
Matches are distributed among these distances:
12 11 0.31
13 10 0.29
14 2 0.06
15 2 0.06
16 5 0.14
17 5 0.14
ACGTcount: A:0.58, C:0.13, G:0.00, T:0.28
Consensus pattern (13 bp):
AACAAATAATTTA
Found at i:7049185 original size:19 final size:19
Alignment explanation
Indices: 7049161--7049208 Score: 64
Period size: 20 Copynumber: 2.5 Consensus size: 19
7049151 GTAATTTTAT
7049161 TATTTTTAT-TTTTAAATA
1 TATTTTTATATTTTAAATA
7049179 -ATATTTTATCATTTTAAATA
1 TAT-TTTTAT-ATTTTAAATA
7049199 TATTTTTATA
1 TATTTTTATA
7049209 AAATTATTAT
Statistics
Matches: 26, Mismatches: 0, Indels: 7
0.79 0.00 0.21
Matches are distributed among these distances:
17 2 0.08
18 6 0.23
19 1 0.04
20 15 0.58
21 2 0.08
ACGTcount: A:0.35, C:0.02, G:0.00, T:0.62
Consensus pattern (19 bp):
TATTTTTATATTTTAAATA
Found at i:7050295 original size:46 final size:46
Alignment explanation
Indices: 7050241--7050333 Score: 161
Period size: 46 Copynumber: 2.0 Consensus size: 46
7050231 TCACACTAAG
7050241 TGTTTATATGCCATTATCAGGTATACAAA-TGTATCACAATGTTATT
1 TGTTTATATGCCATTATCAGGTATA-AAACTGTATCACAATGTTATT
*
7050287 TGTTTATATGCCATTATCAGTTATAAAACTGTATCACAATGTTATT
1 TGTTTATATGCCATTATCAGGTATAAAACTGTATCACAATGTTATT
7050333 T
1 T
7050334 TGTCTACAAA
Statistics
Matches: 45, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
45 3 0.07
46 42 0.93
ACGTcount: A:0.32, C:0.13, G:0.12, T:0.43
Consensus pattern (46 bp):
TGTTTATATGCCATTATCAGGTATAAAACTGTATCACAATGTTATT
Found at i:7058023 original size:20 final size:20
Alignment explanation
Indices: 7057994--7058032 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
7057984 AGAGCTCATA
*
7057994 TAGGATCATATAGATGCATT
1 TAGGAGCATATAGATGCATT
*
7058014 TAGGAGCATATAGTTGCAT
1 TAGGAGCATATAGATGCAT
7058033 GTGGTGAAAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.33, C:0.10, G:0.23, T:0.33
Consensus pattern (20 bp):
TAGGAGCATATAGATGCATT
Found at i:7064839 original size:21 final size:22
Alignment explanation
Indices: 7064802--7064844 Score: 63
Period size: 21 Copynumber: 2.0 Consensus size: 22
7064792 TTAATGTAGA
7064802 TAAAAAGGTTGAAGGATTAAAT
1 TAAAAAGGTTGAAGGATTAAAT
7064824 TAAAAA-GTT-AAGGGATTAAAT
1 TAAAAAGGTTGAA-GGATTAAAT
7064845 ATTACTTTGT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
20 2 0.10
21 12 0.60
22 6 0.30
ACGTcount: A:0.51, C:0.00, G:0.21, T:0.28
Consensus pattern (22 bp):
TAAAAAGGTTGAAGGATTAAAT
Found at i:7064981 original size:3 final size:3
Alignment explanation
Indices: 7064973--7064999 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
7064963 TATAGCTTCC
7064973 TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT
7065000 CCTTCATTTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:7069315 original size:24 final size:24
Alignment explanation
Indices: 7069288--7069348 Score: 97
Period size: 24 Copynumber: 2.6 Consensus size: 24
7069278 AATGTTAAAA
7069288 ATGCTTTAAGTATTTGTCAATGTT
1 ATGCTTTAAGTATTTGTCAATGTT
*
7069312 ATGCTTAAAGTATTTGTCAATGTT
1 ATGCTTTAAGTATTTGTCAATGTT
*
7069336 CTG-TTTAAGTATT
1 ATGCTTTAAGTATT
7069349 AATGAAATGG
Statistics
Matches: 34, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
23 9 0.26
24 25 0.74
ACGTcount: A:0.26, C:0.08, G:0.16, T:0.49
Consensus pattern (24 bp):
ATGCTTTAAGTATTTGTCAATGTT
Found at i:7070255 original size:23 final size:23
Alignment explanation
Indices: 7070225--7070291 Score: 89
Period size: 23 Copynumber: 2.9 Consensus size: 23
7070215 TGCCACATAT
*
7070225 TTATCCCGAATAACCACATAGGA
1 TTATCCCGAATGACCACATAGGA
* **
7070248 TTATCCCGAAGGACCACATAGTT
1 TTATCCCGAATGACCACATAGGA
*
7070271 TTGTCCCGAATGACCACATAG
1 TTATCCCGAATGACCACATAG
7070292 AACCCTCGAC
Statistics
Matches: 38, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 38 1.00
ACGTcount: A:0.33, C:0.27, G:0.16, T:0.24
Consensus pattern (23 bp):
TTATCCCGAATGACCACATAGGA
Found at i:7070435 original size:14 final size:14
Alignment explanation
Indices: 7070418--7070456 Score: 60
Period size: 14 Copynumber: 2.8 Consensus size: 14
7070408 GTTTCACATC
7070418 GAGCATTTTCATAT
1 GAGCATTTTCATAT
7070432 GAGCATTTTCATAT
1 GAGCATTTTCATAT
* *
7070446 AAGCATATTCA
1 GAGCATTTTCA
7070457 CATATCATAT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
14 23 1.00
ACGTcount: A:0.33, C:0.15, G:0.13, T:0.38
Consensus pattern (14 bp):
GAGCATTTTCATAT
Found at i:7076474 original size:44 final size:45
Alignment explanation
Indices: 7076420--7076506 Score: 104
Period size: 46 Copynumber: 1.9 Consensus size: 45
7076410 CTCACATAAA
**
7076420 TTGCACCGAAGTGCCACAT-CTTTGTCCCAAAAGACCACATAGTT
1 TTGCACCGAAGAACCACATACTTTGTCCCAAAAGACCACATAGTT
* * * *
7076464 TTGCCCCGAAGAACCACATAGTTTTGTCCCGAAGGACCACATA
1 TTGCACCGAAGAACCACATA-CTTTGTCCCAAAAGACCACATA
7076507 TAACCCTCGG
Statistics
Matches: 35, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
44 16 0.46
46 19 0.54
ACGTcount: A:0.30, C:0.30, G:0.17, T:0.23
Consensus pattern (45 bp):
TTGCACCGAAGAACCACATACTTTGTCCCAAAAGACCACATAGTT
Found at i:7076479 original size:23 final size:23
Alignment explanation
Indices: 7076453--7076506 Score: 90
Period size: 23 Copynumber: 2.3 Consensus size: 23
7076443 GTCCCAAAAG
7076453 ACCACATAGTTTTGCCCCGAAGA
1 ACCACATAGTTTTGCCCCGAAGA
* *
7076476 ACCACATAGTTTTGTCCCGAAGG
1 ACCACATAGTTTTGCCCCGAAGA
7076499 ACCACATA
1 ACCACATA
7076507 TAACCCTCGG
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
23 29 1.00
ACGTcount: A:0.31, C:0.30, G:0.17, T:0.22
Consensus pattern (23 bp):
ACCACATAGTTTTGCCCCGAAGA
Found at i:7078443 original size:62 final size:62
Alignment explanation
Indices: 7078362--7078534 Score: 256
Period size: 62 Copynumber: 2.8 Consensus size: 62
7078352 GTTTATAAGC
* * * *
7078362 ATTAACAAGTTCACACAAGTTTATAAGAATTAACAGTAAGCATTAACATTTAATAGTAAGTA
1 ATTAACAAGTTCACACAAGTTTATAAGCATTAACATTAAGCATTAACAATTAACAGTAAGTA
* *
7078424 ATTAACAGGTTTACACAAGTTTATAAGCATTAACATTAAGCATTAACAATTAACAGTAAGTA
1 ATTAACAAGTTCACACAAGTTTATAAGCATTAACATTAAGCATTAACAATTAACAGTAAGTA
* * * *
7078486 ATTAACAAGTTCACATAAGTTTAAAAGCGTTAACATTAATCATTAACAA
1 ATTAACAAGTTCACACAAGTTTATAAGCATTAACATTAAGCATTAACAA
7078535 GTTGCATTAA
Statistics
Matches: 99, Mismatches: 12, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
62 99 1.00
ACGTcount: A:0.46, C:0.13, G:0.10, T:0.31
Consensus pattern (62 bp):
ATTAACAAGTTCACACAAGTTTATAAGCATTAACATTAAGCATTAACAATTAACAGTAAGTA
Found at i:7078465 original size:13 final size:14
Alignment explanation
Indices: 7078447--7078476 Score: 53
Period size: 13 Copynumber: 2.2 Consensus size: 14
7078437 CACAAGTTTA
7078447 TAAGCATTAAC-AT
1 TAAGCATTAACAAT
7078460 TAAGCATTAACAAT
1 TAAGCATTAACAAT
7078474 TAA
1 TAA
7078477 CAGTAAGTAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 11 0.69
14 5 0.31
ACGTcount: A:0.50, C:0.13, G:0.07, T:0.30
Consensus pattern (14 bp):
TAAGCATTAACAAT
Found at i:7078505 original size:21 final size:21
Alignment explanation
Indices: 7078389--7078493 Score: 67
Period size: 20 Copynumber: 5.1 Consensus size: 21
7078379 AGTTTATAAG
*
7078389 AATTAACAGTAAG-CATTAAC
1 AATTAACAGTAAGTAATTAAC
* *
7078409 ATTTAATAGTAAGTAATTAAC
1 AATTAACAGTAAGTAATTAAC
* * * *
7078430 AGGTTTACA-CAAGT-TTATAAGC
1 A-ATTAACAGTAAGTAAT-TAA-C
* *
7078452 -ATTAACATTAAG-CATTAAC
1 AATTAACAGTAAGTAATTAAC
7078471 AATTAACAGTAAGTAATTAAC
1 AATTAACAGTAAGTAATTAAC
7078492 AA
1 AA
7078494 GTTCACATAA
Statistics
Matches: 63, Mismatches: 14, Indels: 15
0.68 0.15 0.16
Matches are distributed among these distances:
19 1 0.02
20 31 0.49
21 26 0.41
22 5 0.08
ACGTcount: A:0.48, C:0.11, G:0.10, T:0.30
Consensus pattern (21 bp):
AATTAACAGTAAGTAATTAAC
Found at i:7080476 original size:30 final size:30
Alignment explanation
Indices: 7080368--7080522 Score: 120
Period size: 30 Copynumber: 5.2 Consensus size: 30
7080358 TTATTTTCAA
* * *
7080368 GTTCATCATCATTAATTTCAAGTTCAGGTT
1 GTTCACCATCATTAATTTCAGGTTCAGGTG
*
7080398 GCTCAGCC-TCATTAAATTT-AGGTTCAGGTG
1 GTTCA-CCATCATT-AATTTCAGGTTCAGGTG
** **
7080428 GTTCACTTTGGTGT-ATTTCAGGTTCAGGTG
1 GTTCACCATCAT-TAATTTCAGGTTCAGGTG
*
7080458 GTTCACCATCATTAATTTCGGGTTCAGGTTG
1 GTTCACCATCATTAATTTCAGGTTCAGG-TG
* * ** *
7080489 G-TCAACATCATTAAATTCATTTTTAGGTG
1 GTTCACCATCATTAATTTCAGGTTCAGGTG
7080518 GTTCA
1 GTTCA
7080523 ACTCAGTATT
Statistics
Matches: 98, Mismatches: 19, Indels: 16
0.74 0.14 0.12
Matches are distributed among these distances:
29 9 0.09
30 79 0.81
31 10 0.10
ACGTcount: A:0.23, C:0.17, G:0.21, T:0.40
Consensus pattern (30 bp):
GTTCACCATCATTAATTTCAGGTTCAGGTG
Found at i:7081255 original size:2 final size:2
Alignment explanation
Indices: 7081250--7081277 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
7081240 GTACACATGA
7081250 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
7081278 GATTTTAACA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:7082256 original size:37 final size:38
Alignment explanation
Indices: 7082196--7082269 Score: 105
Period size: 37 Copynumber: 1.9 Consensus size: 38
7082186 TGTTCTTTTT
* *
7082196 TGAGTGATGATTCAGTGAGTGATTGCTTTTTCTTATCTG
1 TGAGTGATGATTCAGT-AGTGATTCCGTTTTCTTATCTG
*
7082235 TGAGTGATGATTCAGT-TTGATTCCGTTTTCTTATC
1 TGAGTGATGATTCAGTAGTGATTCCGTTTTCTTATC
7082270 ATCACGATAA
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
37 16 0.50
39 16 0.50
ACGTcount: A:0.18, C:0.12, G:0.23, T:0.47
Consensus pattern (38 bp):
TGAGTGATGATTCAGTAGTGATTCCGTTTTCTTATCTG
Found at i:7084231 original size:15 final size:15
Alignment explanation
Indices: 7084211--7084241 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
7084201 CAACAAATAG
7084211 AATTTTTATATAAAT
1 AATTTTTATATAAAT
*
7084226 AATTTTTATTTAAAT
1 AATTTTTATATAAAT
7084241 A
1 A
7084242 TTTAGAATTT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (15 bp):
AATTTTTATATAAAT
Found at i:7084867 original size:18 final size:18
Alignment explanation
Indices: 7084844--7084882 Score: 69
Period size: 18 Copynumber: 2.2 Consensus size: 18
7084834 TTTGATTTTC
7084844 AGAAGTGAAAGAGTTGAG
1 AGAAGTGAAAGAGTTGAG
*
7084862 AGAAGTGAAAGGGTTGAG
1 AGAAGTGAAAGAGTTGAG
7084880 AGA
1 AGA
7084883 TTTCACTCGT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.44, C:0.00, G:0.41, T:0.15
Consensus pattern (18 bp):
AGAAGTGAAAGAGTTGAG
Found at i:7085665 original size:17 final size:17
Alignment explanation
Indices: 7085643--7085677 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
7085633 AAATGAAGCC
7085643 CATTGCTTAGCAATACT
1 CATTGCTTAGCAATACT
7085660 CATTGCTTAGCAATACT
1 CATTGCTTAGCAATACT
7085677 C
1 C
7085678 CTTTTCTTAG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.29, C:0.26, G:0.11, T:0.34
Consensus pattern (17 bp):
CATTGCTTAGCAATACT
Found at i:7087082 original size:45 final size:45
Alignment explanation
Indices: 7087018--7087125 Score: 128
Period size: 45 Copynumber: 2.4 Consensus size: 45
7087008 AAACCGGTAG
* * * * **
7087018 AAAAAAATAACATTCTAGGTAGCGTCC-AATATTAATATTTTTTGT
1 AAAAAAATAATATTTTAGGTAGC-ACCTAATATTAACATTTTCAGT
*
7087063 AGAAAAATAATATTTTAGGTAGCACCTAATATTAACATTTTCAGT
1 AAAAAAATAATATTTTAGGTAGCACCTAATATTAACATTTTCAGT
7087108 AAAAATAATAATATTTTA
1 AAAAA-AATAATATTTTA
7087126 AATAACGTTT
Statistics
Matches: 53, Mismatches: 8, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
44 2 0.04
45 39 0.74
46 12 0.23
ACGTcount: A:0.44, C:0.09, G:0.09, T:0.37
Consensus pattern (45 bp):
AAAAAAATAATATTTTAGGTAGCACCTAATATTAACATTTTCAGT
Found at i:7089669 original size:35 final size:37
Alignment explanation
Indices: 7089598--7089670 Score: 105
Period size: 36 Copynumber: 2.0 Consensus size: 37
7089588 GTTGGAAAAT
* *
7089598 ATTTATATATTTTCTTTAAAAAATTTAAATTCATAAA
1 ATTTATATATTTTCTTTAAAAAATTGAAAATCATAAA
*
7089635 ATTTATATATTTT-TTTACAAAATTGAAAAT-ATAAA
1 ATTTATATATTTTCTTTAAAAAATTGAAAATCATAAA
7089670 A
1 A
7089671 AGGTTTAATG
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
35 6 0.18
36 14 0.42
37 13 0.39
ACGTcount: A:0.48, C:0.04, G:0.01, T:0.47
Consensus pattern (37 bp):
ATTTATATATTTTCTTTAAAAAATTGAAAATCATAAA
Found at i:7095218 original size:20 final size:18
Alignment explanation
Indices: 7095193--7095258 Score: 60
Period size: 19 Copynumber: 3.4 Consensus size: 18
7095183 AATAATTTTT
7095193 TTATTTTTCAATTTAGTCC
1 TTATTTTTCAATTTA-TCC
* * *
7095212 TTAATTTTCATATTTTTTTC
1 TTATTTTTCA-A-TTTATCC
7095232 TTATTTATTCAATTTATCC
1 TTATTT-TTCAATTTATCC
7095251 TTTATTTT
1 -TTATTTT
7095259 AAGTCTGTCT
Statistics
Matches: 37, Mismatches: 6, Indels: 8
0.73 0.12 0.16
Matches are distributed among these distances:
19 15 0.41
20 15 0.41
21 7 0.19
ACGTcount: A:0.21, C:0.12, G:0.02, T:0.65
Consensus pattern (18 bp):
TTATTTTTCAATTTATCC
Found at i:7095369 original size:158 final size:157
Alignment explanation
Indices: 7095081--7095605 Score: 797
Period size: 158 Copynumber: 3.3 Consensus size: 157
7095071 TCAATATTCT
* * ** * * *
7095081 TTCAATTCCTCCTTCATTTTAAGTC-CCCTTTTAATCAAATTTAAACCACATAC-CGATAAATCA
1 TTCAATTCATCCTTTATTTTAAGTCTGTCTTTT-AGCAAATTTAAACCACATGCTC-ATAAACCA
* *
7095144 TCATAGAATACATATGTACTTTCAATTCCTCTTTTTGATAATAATTTTTTTATTTTTCAATTTAG
64 TCGTAGAATACATATGTACTTTCAATTCCTCTTTTTAATAATAA-TTTTTTATTTTTCAATTTAG
* *
7095209 T-CCTTAAT-TTTCATATTTTTTTCTTATTTA
128 TCCCTTAATATTTCATA--TTTTCCTTATTTC
* *
7095239 TTCAATTTATCCTTTATTTTAAGTCTGTCTTTTAGCAAATTTGAACCACATGCTCATAAACCATC
1 TTCAATTCATCCTTTATTTTAAGTCTGTCTTTTAGCAAATTTAAACCACATGCTCATAAACCATC
*
7095304 GTAGAATACATATGTACTTTCAATTCCTCTTTTTTAATAATAATTTTTTGTTTTTCAATTTAGTC
66 GTAGAATACATATGTACTTTCAATTCCTC-TTTTTAATAATAATTTTTTATTTTTCAATTTAGTC
*
7095369 CCTTAATCTTTCATATTTTCCTTATTTC
130 CCTTAATATTTCATATTTTCCTTATTTC
* *
7095397 TTCAATTCATCCTTTATTTTAAGTCTGTCTTTTAGCAAAATTGAACCACATGCTCATAAACCATC
1 TTCAATTCATCCTTTATTTTAAGTCTGTCTTTTAGCAAATTTAAACCACATGCTCATAAACCATC
7095462 GTAGAATACATATGTACTTTCAATTCCTCTTTTTAATAATAATTTTTTATTTTTCAATTTAGTCC
66 GTAGAATACATATGTACTTTCAATTCCTCTTTTTAATAATAATTTTTTATTTTTCAATTTAGTCC
7095527 CTTAATATTTCATATTTTCCTTATTTC
131 CTTAATATTTCATATTTTCCTTATTTC
* *
7095554 TTCAATTCATCCTTTATTTTAAGTCCGTCTTTTACCAAATTTAAACCACATG
1 TTCAATTCATCCTTTATTTTAAGTCTGTCTTTTAGCAAATTTAAACCACATG
7095606 ATTCTTATTT
Statistics
Matches: 340, Mismatches: 22, Indels: 11
0.91 0.06 0.03
Matches are distributed among these distances:
157 109 0.32
158 199 0.59
159 25 0.07
160 7 0.02
ACGTcount: A:0.28, C:0.19, G:0.05, T:0.48
Consensus pattern (157 bp):
TTCAATTCATCCTTTATTTTAAGTCTGTCTTTTAGCAAATTTAAACCACATGCTCATAAACCATC
GTAGAATACATATGTACTTTCAATTCCTCTTTTTAATAATAATTTTTTATTTTTCAATTTAGTCC
CTTAATATTTCATATTTTCCTTATTTC
Found at i:7095858 original size:2 final size:2
Alignment explanation
Indices: 7095851--7095890 Score: 80
Period size: 2 Copynumber: 20.0 Consensus size: 2
7095841 TGTGAAAAGA
7095851 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
7095891 TATGGTTAGA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:7096570 original size:14 final size:14
Alignment explanation
Indices: 7096526--7096576 Score: 52
Period size: 14 Copynumber: 3.7 Consensus size: 14
7096516 AATATGTTCG
7096526 TTTATGTTT-TTCA
1 TTTATGTTTATTCA
** *
7096539 TTTACT-TTCGTTCG
1 TTTA-TGTTTATTCA
7096553 TTTATGTTTATTCA
1 TTTATGTTTATTCA
7096567 TTTATGTTTA
1 TTTATGTTTA
7096577 GCCAAATCTC
Statistics
Matches: 30, Mismatches: 5, Indels: 5
0.75 0.12 0.12
Matches are distributed among these distances:
13 7 0.23
14 23 0.77
ACGTcount: A:0.16, C:0.10, G:0.10, T:0.65
Consensus pattern (14 bp):
TTTATGTTTATTCA
Found at i:7101650 original size:48 final size:49
Alignment explanation
Indices: 7101574--7101669 Score: 176
Period size: 48 Copynumber: 2.0 Consensus size: 49
7101564 CTAACTCTAA
*
7101574 TCCTTAGTATCTATTTTATACATATAGATACTTGATTGCAAATGAAACC
1 TCCTTAGTATATATTTTATACATATAGATACTTGATTGCAAATGAAACC
7101623 TCCTTAGTATATA-TTTATACATATAGATACTTGATTGCAAATGAAAC
1 TCCTTAGTATATATTTTATACATATAGATACTTGATTGCAAATGAAAC
7101670 TTATAAAGTA
Statistics
Matches: 46, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
48 34 0.74
49 12 0.26
ACGTcount: A:0.36, C:0.15, G:0.10, T:0.39
Consensus pattern (49 bp):
TCCTTAGTATATATTTTATACATATAGATACTTGATTGCAAATGAAACC
Found at i:7106356 original size:3 final size:3
Alignment explanation
Indices: 7106348--7106375 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
7106338 CCTCTGCAAA
7106348 AAC AAC AAC AAC AAC AAC AAC AAC AAC A
1 AAC AAC AAC AAC AAC AAC AAC AAC AAC A
7106376 GGAGTTTGAC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.68, C:0.32, G:0.00, T:0.00
Consensus pattern (3 bp):
AAC
Found at i:7107201 original size:15 final size:16
Alignment explanation
Indices: 7107160--7107202 Score: 54
Period size: 15 Copynumber: 2.8 Consensus size: 16
7107150 TAGTTATTAA
*
7107160 ATAATTATATTAAAAT
1 ATAATTATATAAAAAT
7107176 ATAATTA-ATAAAAAT
1 ATAATTATATAAAAAT
*
7107191 -TCATTATATAAA
1 ATAATTATATAAA
7107203 TTTAATGTTG
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
14 5 0.21
15 12 0.50
16 7 0.29
ACGTcount: A:0.58, C:0.02, G:0.00, T:0.40
Consensus pattern (16 bp):
ATAATTATATAAAAAT
Found at i:7108037 original size:65 final size:65
Alignment explanation
Indices: 7107917--7108073 Score: 221
Period size: 65 Copynumber: 2.4 Consensus size: 65
7107907 ACTAAGAGTT
* * * *
7107917 CATCGATGCATGAAGTGCATTCGATG-TTTCAAAATAGCCTGAGTGCATCGATGCAT-GTCTTGT
1 CATCGATGCATAAAATGCATTCGATGTTTTCAAAATAACCTGAGTGCATCGATGCATGGT-GTGT
7107980 G
65 G
* *
7107981 CATCGATGCATCAAATGCATTTGATGTTTTCATAAA-AACCTGAGTGCATCGATGCATGGTGTGT
1 CATCGATGCATAAAATGCATTCGATGTTTTCA-AAATAACCTGAGTGCATCGATGCATGGTGTGT
7108045 G
65 G
7108046 CATCGATGCATAAAATGCATTCGATGTT
1 CATCGATGCATAAAATGCATTCGATGTT
7108074 CAATTTAGTC
Statistics
Matches: 83, Mismatches: 7, Indels: 5
0.87 0.07 0.05
Matches are distributed among these distances:
64 23 0.28
65 55 0.66
66 5 0.06
ACGTcount: A:0.27, C:0.18, G:0.23, T:0.32
Consensus pattern (65 bp):
CATCGATGCATAAAATGCATTCGATGTTTTCAAAATAACCTGAGTGCATCGATGCATGGTGTGTG
Found at i:7108112 original size:65 final size:64
Alignment explanation
Indices: 7107917--7108114 Score: 208
Period size: 65 Copynumber: 3.1 Consensus size: 64
7107907 ACTAAGAGTT
* * * *
7107917 CATCGATGCATGAAGTGCATTCGATGTTTCAAAATAGCCTGAGTGCATCGATGCAT-GTCTTGTG
1 CATCGATGCATAAAATGCATTCGATGTTTCAATATAGCCTGAGTGCATCGATGCATGGT-TGGTG
* * * *
7107981 CATCGATGCATCAAATGCATTTGATGTTTTC-ATAAAAACCTGAGTGCATCGATGCATGG-TGTG
1 CATCGATGCATAAAATGCATTCGATG-TTTCAAT-ATAGCCTGAGTGCATCGATGCATGGTTG-G
7108044 TG
63 TG
* *
7108046 CATCGATGCATAAAATGCATTCGATG-TTCAATTTAGTCATTGA-TGCATCGATGCATGGATTGG
1 CATCGATGCATAAAATGCATTCGATGTTTCAATATAG-C-CTGAGTGCATCGATGCATGG-TTGG
7108109 TG
63 TG
7108111 CATC
1 CATC
7108115 AGTGCATTCA
Statistics
Matches: 112, Mismatches: 13, Indels: 17
0.79 0.09 0.12
Matches are distributed among these distances:
63 4 0.04
64 43 0.38
65 62 0.55
66 3 0.03
ACGTcount: A:0.27, C:0.18, G:0.23, T:0.32
Consensus pattern (64 bp):
CATCGATGCATAAAATGCATTCGATGTTTCAATATAGCCTGAGTGCATCGATGCATGGTTGGTG
Found at i:7113301 original size:2 final size:2
Alignment explanation
Indices: 7113294--7113323 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
7113284 ATATTTCTAA
7113294 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
7113324 TTAGGGTTTA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:7113814 original size:2 final size:2
Alignment explanation
Indices: 7113807--7113838 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
7113797 ATTTAAACAA
7113807 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
7113839 TTGTATGACT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:7115207 original size:3 final size:3
Alignment explanation
Indices: 7115199--7115326 Score: 165
Period size: 3 Copynumber: 43.0 Consensus size: 3
7115189 GCCTGAATTG
7115199 TAA TAA TAA TAA TTAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA -TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
* *
7115245 TAAA TAA TAA TAA TAA TAA T-A TAA TTA TAA -AA TAA TAA TAG TAA
1 T-AA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
* *
7115289 TAAA TAA -AA TAG TAA TAA CAA TAA TAA T-A TAA TAA TAA
1 T-AA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
7115327 AAACAAATGG
Statistics
Matches: 110, Mismatches: 8, Indels: 14
0.83 0.06 0.11
Matches are distributed among these distances:
2 8 0.07
3 93 0.85
4 9 0.08
ACGTcount: A:0.65, C:0.01, G:0.02, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:7115239 original size:28 final size:28
Alignment explanation
Indices: 7115199--7115326 Score: 153
Period size: 25 Copynumber: 4.8 Consensus size: 28
7115189 GCCTGAATTG
7115199 TAATAATAATAATTAATAATAATAATAA
1 TAATAATAATAATTAATAATAATAATAA
7115227 TAATAATAATAA-TAATAAT-A-AATAA
1 TAATAATAATAATTAATAATAATAATAA
*
7115252 TAATAATAATAA-T-ATAATTATAA-AA
1 TAATAATAATAATTAATAATAATAATAA
* * *
7115277 TAATAATAGTAATAAATAA-AATAGTAA
1 TAATAATAATAATTAATAATAATAATAA
*
7115304 TAACAATAATAATATAATAATAA
1 TAATAATAATAAT-TAATAATAA
7115327 AAACAAATGG
Statistics
Matches: 86, Mismatches: 7, Indels: 13
0.81 0.07 0.12
Matches are distributed among these distances:
24 5 0.06
25 32 0.37
26 6 0.07
27 24 0.28
28 17 0.20
29 2 0.02
ACGTcount: A:0.65, C:0.01, G:0.02, T:0.33
Consensus pattern (28 bp):
TAATAATAATAATTAATAATAATAATAA
Found at i:7116026 original size:113 final size:113
Alignment explanation
Indices: 7115680--7116248 Score: 671
Period size: 113 Copynumber: 5.0 Consensus size: 113
7115670 GAATTAAGGC
* * *
7115680 AAGGTTAAAAAAGTTCTTCTCATTATGAACTCCTTC-TCCTTCTTCAGATGAGTTCTTCTCATTA
1 AAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTA
* * * ** * *
7115744 TGAACTATCTCTGGAAATGTTGATGTTGATCAATCTCCTTCTGTGAT-AGAGTC-ATACAA
66 TGAACTCTATCTGG-AA-----ATGTTGATCCA--T-C--GAGTGATGA-ATTCGA-GCAA
*
7115803 AAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCC-TCTTCAGATAAGTTCTTCTCATTA
1 AAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTA
* * * * * *
7115867 TGAACTTTCTTTGGAAAAGTTAATCCATTGAGTGATGAATTCGAGCAA
66 TGAACTCTATCTGGAAATGTTGATCCATCGAGTGATGAATTCGAGCAA
* *
7115915 AAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCATATGAGTTATTCTCATTA
1 AAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTA
* ** *
7115980 TGAAGTCTATCTGGCGATGTTGATCCATTGAGTGATGAATTCGAGCAA
66 TGAACTCTATCTGGAAATGTTGATCCATCGAGTGATGAATTCGAGCAA
* * *
7116028 AAGGTTGAACAAGTTTTTTTCATTATGAACTTCTTCTTCTTTCTTCAGATGAGTTCTTCTCATTA
1 AAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTA
* *
7116093 TGAACTCTACCTGGCAATGTTGATCCATCGAGTGATGAATTCGAGCAA
66 TGAACTCTATCTGGAAATGTTGATCCATCGAGTGATGAATTCGAGCAA
* * * *
7116141 AAGTTTGAACAATTTCTTCTCATTATGAACTTCTTATTCCTCCTTCAGATGAGTTCTTCTCATTA
1 AAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTA
* * *
7116206 TGAACTCT-TCCGAAAATGTTGATCCATCGAGTGATGGATTCGA
66 TGAACTCTATCTGGAAATGTTGATCCATCGAGTGATGAATTCGA
7116249 ATCTTTGCTA
Statistics
Matches: 396, Mismatches: 46, Indels: 19
0.86 0.10 0.04
Matches are distributed among these distances:
112 81 0.20
113 233 0.59
115 1 0.00
117 8 0.02
122 2 0.01
123 68 0.17
124 3 0.01
ACGTcount: A:0.27, C:0.19, G:0.16, T:0.39
Consensus pattern (113 bp):
AAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTA
TGAACTCTATCTGGAAATGTTGATCCATCGAGTGATGAATTCGAGCAA
Found at i:7117019 original size:53 final size:54
Alignment explanation
Indices: 7116865--7117019 Score: 204
Period size: 54 Copynumber: 2.9 Consensus size: 54
7116855 AGAATAACTG
* * ** *
7116865 GTTCGTAAAACATTTGACAACACTTTCATCATCTCATGTGGTTTCTGATCAGAT
1 GTTCGTAAAACATTTGACAACACATTCATCATTTCATGTGGTTTCTGCCCAAAT
* *
7116919 GTTCGTAAAACATTTGACAACACATTCATCATTTCCTGTGGCTTCTGCCCAAAT
1 GTTCGTAAAACATTTGACAACACATTCATCATTTCATGTGGTTTCTGCCCAAAT
* * * *
7116973 GTTCATAAAGCATTTGACAA-ACATTCATCATTTCTTGTGTTTTCTGC
1 GTTCGTAAAACATTTGACAACACATTCATCATTTCATGTGGTTTCTGC
7117020 ACAGATTTCT
Statistics
Matches: 89, Mismatches: 12, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
53 24 0.27
54 65 0.73
ACGTcount: A:0.27, C:0.22, G:0.14, T:0.37
Consensus pattern (54 bp):
GTTCGTAAAACATTTGACAACACATTCATCATTTCATGTGGTTTCTGCCCAAAT
Found at i:7118026 original size:75 final size:74
Alignment explanation
Indices: 7117898--7118066 Score: 214
Period size: 75 Copynumber: 2.3 Consensus size: 74
7117888 GATATGGGCC
* * ** *
7117898 TTCAGCATGCCCCAAGATTTGCTGATATGAACGTTCAAAATACATCAACATTCCTGATTCTGATT
1 TTCAGCATGCCCCAACA-TTGCTAATACAAACGTTCAAAATACATCAACATTCCTGATTATGATT
7117963 GAAAT-GGACT
65 GAAATAGG-CT
** *
7117973 TTCAGCATGCCCCAACATTGACTAATACAAACGTTCAAAATATGTCAATATTCCTGATTATGATT
1 TTCAGCATGCCCCAACATTG-CTAATACAAACGTTCAAAATACATCAACATTCCTGATTATGATT
7118038 GAAATAGGCT
65 GAAATAGGCT
* *
7118048 TTCAGCATGCTCCATCATT
1 TTCAGCATGCCCCAACATT
7118067 TGCTTCTTGT
Statistics
Matches: 82, Mismatches: 10, Indels: 4
0.85 0.10 0.04
Matches are distributed among these distances:
74 3 0.04
75 77 0.94
76 2 0.02
ACGTcount: A:0.33, C:0.22, G:0.14, T:0.31
Consensus pattern (74 bp):
TTCAGCATGCCCCAACATTGCTAATACAAACGTTCAAAATACATCAACATTCCTGATTATGATTG
AAATAGGCT
Found at i:7126116 original size:18 final size:17
Alignment explanation
Indices: 7126078--7126111 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
7126068 TTTCTTTAAT
7126078 ATTAATAAATTAATAAAA
1 ATTAATAAA-TAATAAAA
7126096 ATTAATAAA-AATAAAA
1 ATTAATAAATAATAAAA
7126112 TAATTTTCCT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 7 0.44
18 9 0.56
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (17 bp):
ATTAATAAATAATAAAA
Found at i:7126502 original size:2 final size:2
Alignment explanation
Indices: 7126495--7126520 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
7126485 ATTTAAACAA
7126495 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
7126521 GACTAATATA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:7127636 original size:3 final size:3
Alignment explanation
Indices: 7127628--7127714 Score: 110
Period size: 3 Copynumber: 30.0 Consensus size: 3
7127618 GTCTGAATTG
* *
7127628 TAA TAA TAA TAA TAA TAA TAA TAA T-A TAA TTA TAA -AA TAA TAA TAG
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
*
7127674 TAA TAAA TAA -AA TAA TAA TAA CAA TAA TAA T-A TAA TAA TAA
1 TAA T-AA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
7127715 AAAAATGGAT
Statistics
Matches: 73, Mismatches: 6, Indels: 10
0.82 0.07 0.11
Matches are distributed among these distances:
2 8 0.11
3 62 0.85
4 3 0.04
ACGTcount: A:0.66, C:0.01, G:0.01, T:0.32
Consensus pattern (3 bp):
TAA
Found at i:7128425 original size:15 final size:15
Alignment explanation
Indices: 7128405--7128433 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
7128395 ATCATTGACA
7128405 TTTGAAAGTAAATTC
1 TTTGAAAGTAAATTC
7128420 TTTGAAAGTAAATT
1 TTTGAAAGTAAATT
7128434 TTGCATATCC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.41, C:0.03, G:0.14, T:0.41
Consensus pattern (15 bp):
TTTGAAAGTAAATTC
Found at i:7130533 original size:45 final size:46
Alignment explanation
Indices: 7130482--7130587 Score: 144
Period size: 45 Copynumber: 2.3 Consensus size: 46
7130472 TTGGACCCTT
* * * * *
7130482 AGTGCATCGATGTATGAAGTGCATTCGATG-TTTCA-AAATAGCCTG
1 AGTGCATCGATGCATCAAATGCATTCGATGTTTTCATAAA-AACATG
7130527 AGTGCATCGATGCATCAAATGCATTCGATGTTTTCATAAAAACATG
1 AGTGCATCGATGCATCAAATGCATTCGATGTTTTCATAAAAACATG
7130573 AGTGCATCGATGCAT
1 AGTGCATCGATGCAT
7130588 GGTGTGTGCA
Statistics
Matches: 54, Mismatches: 5, Indels: 3
0.87 0.08 0.05
Matches are distributed among these distances:
45 27 0.50
46 24 0.44
47 3 0.06
ACGTcount: A:0.31, C:0.17, G:0.22, T:0.30
Consensus pattern (46 bp):
AGTGCATCGATGCATCAAATGCATTCGATGTTTTCATAAAAACATG
Found at i:7130659 original size:20 final size:20
Alignment explanation
Indices: 7130634--7130671 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
7130624 CAATTTATTC
7130634 ATTGGTGCATCGATGCATGG
1 ATTGGTGCATCGATGCATGG
*
7130654 ATTGGTGCATCGGTGCAT
1 ATTGGTGCATCGATGCAT
7130672 TCGTTTGAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.18, C:0.16, G:0.34, T:0.32
Consensus pattern (20 bp):
ATTGGTGCATCGATGCATGG
Found at i:7133109 original size:40 final size:40
Alignment explanation
Indices: 7133054--7133140 Score: 147
Period size: 40 Copynumber: 2.2 Consensus size: 40
7133044 TTTGTATTAT
* **
7133054 TTTATTTTTGTTTACTTTCAATTAATGTCATTTGAGTTTG
1 TTTATTTTCGTTTACTTTCAATTAATGTCATTTGAACTTG
7133094 TTTATTTTCGTTTACTTTCAATTAATGTCATTTGAACTTG
1 TTTATTTTCGTTTACTTTCAATTAATGTCATTTGAACTTG
7133134 TTTATTT
1 TTTATTT
7133141 AAAAAGATGT
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
40 44 1.00
ACGTcount: A:0.21, C:0.09, G:0.10, T:0.60
Consensus pattern (40 bp):
TTTATTTTCGTTTACTTTCAATTAATGTCATTTGAACTTG
Found at i:7135063 original size:55 final size:55
Alignment explanation
Indices: 7135002--7135128 Score: 195
Period size: 55 Copynumber: 2.3 Consensus size: 55
7134992 TACTTGTTAA
* *
7135002 GAGTGTAAT-GATACCCTTAATACATTGAGTGTCATATGTGTATCGGTACACTGAG
1 GAGTGT-ATCGATACCCTTAATACATCGAGTGTCATATGTGTATCGGTACACTAAG
* *
7135057 GAGTGTATCGATACCCTTAATACATCGAGTGTTATTTGTGTATCGGTACACTAAG
1 GAGTGTATCGATACCCTTAATACATCGAGTGTCATATGTGTATCGGTACACTAAG
7135112 GAG-GTATCGATACCCTT
1 GAGTGTATCGATACCCTT
7135129 GCAATTTCGA
Statistics
Matches: 67, Mismatches: 4, Indels: 3
0.91 0.05 0.04
Matches are distributed among these distances:
54 16 0.24
55 51 0.76
ACGTcount: A:0.28, C:0.17, G:0.23, T:0.33
Consensus pattern (55 bp):
GAGTGTATCGATACCCTTAATACATCGAGTGTCATATGTGTATCGGTACACTAAG
Found at i:7135148 original size:54 final size:54
Alignment explanation
Indices: 7135002--7135153 Score: 141
Period size: 55 Copynumber: 2.8 Consensus size: 54
7134992 TACTTGTTAA
* * * *
7135002 GAGTGTAAT-GATACCCTTAATACATTGAGTGTC-ATATGTGTATCGGTACACTGAG
1 GAGTGT-ATCGATACCCTTAATA-ATCGAATG-CAATTTGTGTATCGGTACACTAAG
* **
7135057 GAGTGTATCGATACCCTTAATACATCGAGTGTTATTTGTGTATCGGTACACTAAG
1 GAGTGTATCGATACCCTTAATA-ATCGAATGCAATTTGTGTATCGGTACACTAAG
* *
7135112 GAG-GTATCGATACCCTTGCAAT-TTCGAATGCAATTTGGGTAT
1 GAGTGTATCGATACCCTT--AATAATCGAATGCAATTTGTGTAT
7135154 TTATACCCCC
Statistics
Matches: 84, Mismatches: 9, Indels: 9
0.82 0.09 0.09
Matches are distributed among these distances:
54 31 0.37
55 50 0.60
56 3 0.04
ACGTcount: A:0.28, C:0.16, G:0.23, T:0.34
Consensus pattern (54 bp):
GAGTGTATCGATACCCTTAATAATCGAATGCAATTTGTGTATCGGTACACTAAG
Found at i:7135457 original size:13 final size:13
Alignment explanation
Indices: 7135439--7135464 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
7135429 TATTTATTTT
7135439 ATGTTTTATTTAA
1 ATGTTTTATTTAA
7135452 ATGTTTTATTTAA
1 ATGTTTTATTTAA
7135465 TTTGTAATTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.00, G:0.08, T:0.62
Consensus pattern (13 bp):
ATGTTTTATTTAA
Found at i:7135501 original size:13 final size:13
Alignment explanation
Indices: 7135483--7135507 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
7135473 TGTTACAAAC
7135483 TATGTGTTATGAT
1 TATGTGTTATGAT
7135496 TATGTGTTATGA
1 TATGTGTTATGA
7135508 ACGTATGAAC
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.24, C:0.00, G:0.24, T:0.52
Consensus pattern (13 bp):
TATGTGTTATGAT
Found at i:7135718 original size:21 final size:21
Alignment explanation
Indices: 7135692--7135740 Score: 71
Period size: 21 Copynumber: 2.3 Consensus size: 21
7135682 GTCGAGGGTC
* * *
7135692 TATGTGGTCTTTCGGGACAAT
1 TATGTGGTCATTCGAGACAAA
7135713 TATGTGGTCATTCGAGACAAA
1 TATGTGGTCATTCGAGACAAA
7135734 TATGTGG
1 TATGTGG
7135741 CACTTCAGTG
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.24, C:0.12, G:0.29, T:0.35
Consensus pattern (21 bp):
TATGTGGTCATTCGAGACAAA
Found at i:7135813 original size:21 final size:21
Alignment explanation
Indices: 7135702--7135813 Score: 61
Period size: 21 Copynumber: 5.2 Consensus size: 21
7135692 TATGTGGTCT
7135702 TTCGGGACAATTATGTGGTCA-
1 TTCGGGACAATTATGTGG-CAC
* *
7135723 TTCGAGACAAATATGTGGCAC
1 TTCGGGACAATTATGTGGCAC
* * *
7135744 TTCAGTG-CAACCCTATATGGCAC
1 TTC-GGGACAA--TTATGTGGCAC
* *
7135767 TTCAGTG-CAATTTATGTGGTC-T
1 TTC-GGGACAA-TTATGTGG-CAC
*
7135789 TTCGGGACAATTATATGGCAC
1 TTCGGGACAATTATGTGGCAC
7135810 TTCG
1 TTCG
7135814 TTGCAAATTA
Statistics
Matches: 72, Mismatches: 12, Indels: 14
0.73 0.12 0.14
Matches are distributed among these distances:
20 3 0.04
21 35 0.49
22 14 0.19
23 20 0.28
ACGTcount: A:0.25, C:0.20, G:0.23, T:0.32
Consensus pattern (21 bp):
TTCGGGACAATTATGTGGCAC
Found at i:7141981 original size:55 final size:55
Alignment explanation
Indices: 7141908--7142034 Score: 195
Period size: 55 Copynumber: 2.3 Consensus size: 55
7141898 TACTTGTTGA
*
7141908 GAGTATATCGATACCCTTAATACATCGAGTG-TCATATGTGTATCGGTACACTGAG
1 GAGTGTATCGATACCCTTAATACATCGAGTGCT-ATATGTGTATCGGTACACTGAG
* * *
7141963 GAGTGTATCGATATCCTTAATACATTGAGTGCTATTTGTGTATCGGTACACTGAG
1 GAGTGTATCGATACCCTTAATACATCGAGTGCTATATGTGTATCGGTACACTGAG
7142018 GAG-GTATCGATACCCTT
1 GAGTGTATCGATACCCTT
7142035 GCAATTTTGA
Statistics
Matches: 66, Mismatches: 5, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
54 13 0.20
55 52 0.79
56 1 0.02
ACGTcount: A:0.27, C:0.17, G:0.23, T:0.33
Consensus pattern (55 bp):
GAGTGTATCGATACCCTTAATACATCGAGTGCTATATGTGTATCGGTACACTGAG
Found at i:7142060 original size:54 final size:53
Alignment explanation
Indices: 7141913--7142085 Score: 172
Period size: 55 Copynumber: 3.2 Consensus size: 53
7141903 GTTGAGAGTA
* * * *
7141913 TATCGATACCCTTAATACATCGAGTGTC-ATATGTGTATCGGTACACTGAGGAGTG
1 TATCGATACCCTTAATA-ATTGAATG-CAATTTGGGTATCGGTACACTGAGGAG-G
* * * *
7141968 TATCGATATCCTTAATACATTGAGTGCTATTTGTGTATCGGTACACTGAGGAGG
1 TATCGATACCCTTAATA-ATTGAATGCAATTTGGGTATCGGTACACTGAGGAGG
* * *
7142022 TATCGATACCCTTGCAAT-TTTGAATGCAATTTGGGTATCGGTACA-TGTGTAGG
1 TATCGATACCCTT--AATAATTGAATGCAATTTGGGTATCGGTACACTGAGGAGG
7142075 TATCGATACCC
1 TATCGATACCC
7142086 CCAAGTATGA
Statistics
Matches: 105, Mismatches: 10, Indels: 8
0.85 0.08 0.07
Matches are distributed among these distances:
53 17 0.16
54 37 0.35
55 48 0.46
56 3 0.03
ACGTcount: A:0.26, C:0.17, G:0.23, T:0.34
Consensus pattern (53 bp):
TATCGATACCCTTAATAATTGAATGCAATTTGGGTATCGGTACACTGAGGAGG
Found at i:7142672 original size:21 final size:21
Alignment explanation
Indices: 7142631--7142672 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
7142621 GTCTATGTGA
* * *
7142631 TCCTTCGGGATAATTATGTGG
1 TCCTTCGGGACAAATACGTGG
7142652 TCCTTCGGGACAAATACGTGG
1 TCCTTCGGGACAAATACGTGG
7142673 CACTTCAGTG
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.21, C:0.19, G:0.29, T:0.31
Consensus pattern (21 bp):
TCCTTCGGGACAAATACGTGG
Found at i:7143685 original size:2 final size:2
Alignment explanation
Indices: 7143678--7143709 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
7143668 AAACTAAAAC
7143678 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
7143710 TATCAAAATT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:7148389 original size:22 final size:22
Alignment explanation
Indices: 7148364--7148405 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
7148354 CAAATTCAGG
* *
7148364 AAATCTCAATTTCATATATTTA
1 AAATCTCAAATTCAGATATTTA
7148386 AAATCTCAAATTCAGATATT
1 AAATCTCAAATTCAGATATT
7148406 AAGATTTTTA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.43, C:0.14, G:0.02, T:0.40
Consensus pattern (22 bp):
AAATCTCAAATTCAGATATTTA
Found at i:7153543 original size:21 final size:21
Alignment explanation
Indices: 7153516--7153559 Score: 70
Period size: 23 Copynumber: 2.0 Consensus size: 21
7153506 TAATAGTATA
7153516 ATCTCTCTCTCTCTCTAAATAAT
1 ATCTCTCTCTC-CT-TAAATAAT
7153539 ATCTCTCTCTCCTTAAATAAT
1 ATCTCTCTCTCCTTAAATAAT
7153560 CTTTGATTGT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
21 8 0.38
22 2 0.10
23 11 0.52
ACGTcount: A:0.27, C:0.30, G:0.00, T:0.43
Consensus pattern (21 bp):
ATCTCTCTCTCCTTAAATAAT
Found at i:7155717 original size:33 final size:32
Alignment explanation
Indices: 7155652--7155718 Score: 98
Period size: 33 Copynumber: 2.1 Consensus size: 32
7155642 CACCAAGCAT
* *
7155652 AATTAGGGATTCATAAAAAAGGGGAAACGCTC
1 AATTAGAGATTCATAAAAAAGGGAAAACGCTC
*
7155684 AATTAGAGATTCATAAAAAAAGGGAAAATGCTC
1 AATTAGAGATTCAT-AAAAAAGGGAAAACGCTC
7155717 AA
1 AA
7155719 AAAATAGAAG
Statistics
Matches: 31, Mismatches: 3, Indels: 1
0.89 0.09 0.03
Matches are distributed among these distances:
32 13 0.42
33 18 0.58
ACGTcount: A:0.49, C:0.10, G:0.21, T:0.19
Consensus pattern (32 bp):
AATTAGAGATTCATAAAAAAGGGAAAACGCTC
Found at i:7163930 original size:15 final size:15
Alignment explanation
Indices: 7163910--7163948 Score: 69
Period size: 15 Copynumber: 2.6 Consensus size: 15
7163900 ACCTTTACCA
7163910 TATCCATTTATATAC
1 TATCCATTTATATAC
7163925 TATCCATTTATATAC
1 TATCCATTTATATAC
*
7163940 TAACCATTT
1 TATCCATTT
7163949 CCTATAGCTG
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
15 23 1.00
ACGTcount: A:0.33, C:0.21, G:0.00, T:0.46
Consensus pattern (15 bp):
TATCCATTTATATAC
Found at i:7164974 original size:31 final size:31
Alignment explanation
Indices: 7164938--7164997 Score: 102
Period size: 31 Copynumber: 1.9 Consensus size: 31
7164928 AACTTAAAAG
* *
7164938 AGTTTTGCAATACTGAGATTTAAATAATTTT
1 AGTTTTACAATACTGAAATTTAAATAATTTT
7164969 AGTTTTACAATACTGAAATTTAAATAATT
1 AGTTTTACAATACTGAAATTTAAATAATT
7164998 CATACAACTA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 27 1.00
ACGTcount: A:0.40, C:0.07, G:0.10, T:0.43
Consensus pattern (31 bp):
AGTTTTACAATACTGAAATTTAAATAATTTT
Found at i:7165509 original size:20 final size:20
Alignment explanation
Indices: 7165461--7165522 Score: 62
Period size: 18 Copynumber: 3.2 Consensus size: 20
7165451 AACTTAAATC
*
7165461 AAAATAATTAAAATAA-ATAT
1 AAAATAATT-TAATAATATAT
7165481 AAAAT--TTTAATAATATAT
1 AAAATAATTTAATAATATAT
7165499 AAAATAATTT-AT-ATGATAT
1 AAAATAATTTAATAAT-ATAT
7165518 AAAAT
1 AAAAT
7165523 TAAATATCTA
Statistics
Matches: 37, Mismatches: 1, Indels: 9
0.79 0.02 0.19
Matches are distributed among these distances:
17 5 0.14
18 13 0.35
19 11 0.30
20 8 0.22
ACGTcount: A:0.61, C:0.00, G:0.02, T:0.37
Consensus pattern (20 bp):
AAAATAATTTAATAATATAT
Found at i:7165557 original size:19 final size:19
Alignment explanation
Indices: 7165533--7165620 Score: 56
Period size: 19 Copynumber: 4.4 Consensus size: 19
7165523 TAAATATCTA
7165533 TAATATAATATTAAAAAAT
1 TAATATAATATTAAAAAAT
*
7165552 TAATATTTAATTTATTTAAAAAT
1 TAATA--TAA--TATTAAAAAAT
*
7165575 TAATATTAAAATT--AAAAT
1 TAATA-TAATATTAAAAAAT
* *
7165593 CAAATATAATA-TATAAAAT
1 -TAATATAATATTAAAAAAT
7165612 TAAATATAA
1 T-AATATAA
7165621 AACCTCTTTG
Statistics
Matches: 56, Mismatches: 5, Indels: 16
0.73 0.06 0.21
Matches are distributed among these distances:
17 1 0.02
18 9 0.16
19 21 0.38
20 3 0.05
21 3 0.05
22 4 0.07
23 15 0.27
ACGTcount: A:0.59, C:0.01, G:0.00, T:0.40
Consensus pattern (19 bp):
TAATATAATATTAAAAAAT
Found at i:7165620 original size:12 final size:12
Alignment explanation
Indices: 7165570--7165622 Score: 56
Period size: 12 Copynumber: 4.3 Consensus size: 12
7165560 AATTTATTTA
7165570 AAAATT-AATATT
1 AAAATTAAATA-T
7165582 AAAATTAAA-AT
1 AAAATTAAATAT
*
7165593 CAAATATAATATAT
1 AAAAT-TAA-ATAT
7165607 AAAATTAAATAT
1 AAAATTAAATAT
7165619 AAAA
1 AAAA
7165623 CCTCTTTGAA
Statistics
Matches: 35, Mismatches: 2, Indels: 8
0.78 0.04 0.18
Matches are distributed among these distances:
11 5 0.14
12 18 0.51
13 6 0.17
14 6 0.17
ACGTcount: A:0.66, C:0.02, G:0.00, T:0.32
Consensus pattern (12 bp):
AAAATTAAATAT
Found at i:7167862 original size:20 final size:21
Alignment explanation
Indices: 7167831--7167870 Score: 73
Period size: 20 Copynumber: 2.0 Consensus size: 21
7167821 ACAGTAATGA
7167831 ACAATAACCTGCTACAGTGCT
1 ACAATAACCTGCTACAGTGCT
7167852 ACAAT-ACCTGCTACAGTGC
1 ACAATAACCTGCTACAGTGC
7167871 ATCGATGCAT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 14 0.74
21 5 0.26
ACGTcount: A:0.33, C:0.30, G:0.15, T:0.23
Consensus pattern (21 bp):
ACAATAACCTGCTACAGTGCT
Found at i:7167886 original size:21 final size:21
Alignment explanation
Indices: 7167860--7167901 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
7167850 CTACAATACC
*
7167860 TGCTACAGTGCATCGATGCAT
1 TGCTACAGTGCACCGATGCAT
7167881 TGCTACAGTGCACCGATGCAT
1 TGCTACAGTGCACCGATGCAT
7167902 AAAAACTTCG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.24, C:0.26, G:0.24, T:0.26
Consensus pattern (21 bp):
TGCTACAGTGCACCGATGCAT
Found at i:7168765 original size:30 final size:30
Alignment explanation
Indices: 7168726--7168795 Score: 113
Period size: 30 Copynumber: 2.3 Consensus size: 30
7168716 ACATAGTTTA
* *
7168726 TATCGCATAGACATATTATTTCCATACCTT
1 TATCACATAGACATATCATTTCCATACCTT
*
7168756 TATCACATAGACATGTCATTTCCATACCTT
1 TATCACATAGACATATCATTTCCATACCTT
7168786 TATCACATAG
1 TATCACATAG
7168796 CTCATATAAC
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
30 37 1.00
ACGTcount: A:0.31, C:0.24, G:0.07, T:0.37
Consensus pattern (30 bp):
TATCACATAGACATATCATTTCCATACCTT
Found at i:7172643 original size:20 final size:20
Alignment explanation
Indices: 7172618--7172655 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
7172608 CACAAGTTAA
*
7172618 AGAATGCATCGATGCACTGT
1 AGAATGAATCGATGCACTGT
7172638 AGAATGAATCGATGCACT
1 AGAATGAATCGATGCACT
7172656 TCAAAGGGGA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.34, C:0.18, G:0.24, T:0.24
Consensus pattern (20 bp):
AGAATGAATCGATGCACTGT
Found at i:7177522 original size:20 final size:22
Alignment explanation
Indices: 7177475--7177534 Score: 79
Period size: 20 Copynumber: 2.7 Consensus size: 22
7177465 ATGCATGGGT
7177475 AATGCATCGATGCACATGTTAAAG
1 AATGCATCGATGCAC-TGTT-AAG
7177499 AATGCATCGATGCACTG-T-AG
1 AATGCATCGATGCACTGTTAAG
*
7177519 AATGTATCGATGCACT
1 AATGCATCGATGCACT
7177535 TCAAAGGGGA
Statistics
Matches: 35, Mismatches: 1, Indels: 4
0.88 0.03 0.10
Matches are distributed among these distances:
20 17 0.49
22 1 0.03
23 2 0.06
24 15 0.43
ACGTcount: A:0.33, C:0.18, G:0.22, T:0.27
Consensus pattern (22 bp):
AATGCATCGATGCACTGTTAAG
Found at i:7179829 original size:42 final size:41
Alignment explanation
Indices: 7179745--7180103 Score: 427
Period size: 41 Copynumber: 8.7 Consensus size: 41
7179735 TAAAATACTA
* * *
7179745 TACTTTAGTGGCGTTTATATACAAACGCCGCTAAAGAATCG
1 TACTTTAGTGGCGTTTTTATACAAACGCCGCTATAGACTCG
* * * *
7179786 TACTATAGTGGCATTTTTTATATAAATGCCGCTATTA-ACTCG
1 TACTTTAGTGGC-GTTTTTATACAAACGCCGCTA-TAGACTCG
* *
7179828 TACTTTAGTGGCGTTTTTACACAAATGCCGCTATAGACTCG
1 TACTTTAGTGGCGTTTTTATACAAACGCCGCTATAGACTCG
* * *
7179869 TACTTTAATGGCGATTTTATACAAACGCCGCTATAGACTAG
1 TACTTTAGTGGCGTTTTTATACAAACGCCGCTATAGACTCG
* * *
7179910 TA-TTGTTGTGGCGTTTTAATACAAAACGCCGCTATAAACTCG
1 TACTT-TAGTGGCGTTTTTATAC-AAACGCCGCTATAGACTCG
* * *
7179952 TACTTTAGTGGCGTTTTTACACAAACGCCGCTATAGACACA
1 TACTTTAGTGGCGTTTTTATACAAACGCCGCTATAGACTCG
* * *
7179993 TACTTTTGTGGCGTTTTAATACCAAACGCCGCTATAGACTCA
1 TACTTTAGTGGCGTTTTTATA-CAAACGCCGCTATAGACTCG
* *
7180035 TACTTTAGTGGTGTTTTTATACAAACGCCGCTATAGACGCG
1 TACTTTAGTGGCGTTTTTATACAAACGCCGCTATAGACTCG
*
7180076 TACTTTAGTGGC-TTTTAATACCAAACGC
1 TACTTTAGTGGCGTTTTTATA-CAAACGC
7180104 TGCAATTGTC
Statistics
Matches: 271, Mismatches: 39, Indels: 16
0.83 0.12 0.05
Matches are distributed among these distances:
40 11 0.04
41 155 0.57
42 102 0.38
43 3 0.01
ACGTcount: A:0.28, C:0.21, G:0.18, T:0.33
Consensus pattern (41 bp):
TACTTTAGTGGCGTTTTTATACAAACGCCGCTATAGACTCG
Done.