Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01003237.1 Hibiscus syriacus cultivar Beakdansim tig00006809_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: 82534
ACGTcount: A:0.35, C:0.16, G:0.16, T:0.34
Found at i:3593 original size:30 final size:30
Alignment explanation
Indices: 3547--3753 Score: 204
Period size: 30 Copynumber: 6.9 Consensus size: 30
3537 TCATATGAGG
* * *
3547 ATCCCAAACAGA-GTCAGGATGGAGATA-TA
1 ATCCCATACAGATGTCAGAATGGGGA-ACTA
* * *
3576 ATCTCATACAGATGTCAGAACGGGGAATTA
1 ATCCCATACAGATGTCAGAATGGGGAACTA
* * *
3606 ATCTCATGCAGATGTCAGAATGGGGATCTA
1 ATCCCATACAGATGTCAGAATGGGGAACTA
*
3636 ATCCCATGCAGATGTCAGAATGGGGAACTA
1 ATCCCATACAGATGTCAGAATGGGGAACTA
* * * *
3666 ATCCCATACAGAGGTCAGAACGAGGAATTA
1 ATCCCATACAGATGTCAGAATGGGGAACTA
* *
3696 ATCCCATGA-AGATGTCAGAATGGGAAATTA
1 ATCCCAT-ACAGATGTCAGAATGGGGAACTA
* * *
3726 ATCCCATGCATATGTCAGAACGGGGAAC
1 ATCCCATACAGATGTCAGAATGGGGAAC
3754 GAGGTCCCAT
Statistics
Matches: 149, Mismatches: 25, Indels: 7
0.82 0.14 0.04
Matches are distributed among these distances:
29 11 0.07
30 137 0.92
31 1 0.01
ACGTcount: A:0.36, C:0.18, G:0.25, T:0.21
Consensus pattern (30 bp):
ATCCCATACAGATGTCAGAATGGGGAACTA
Found at i:3652 original size:60 final size:59
Alignment explanation
Indices: 3574--3751 Score: 230
Period size: 60 Copynumber: 3.0 Consensus size: 59
3564 GATGGAGATA
* * * * *
3574 TAATCTCATACAGATGTCAGAACGGGGAATTAATCTCATGCAGATGTCAGAATGGGGAT
1 TAATCCCATGCAGATGTCAGAATGGGGAATTAATCCCATGCAGATGTCAGAACGGGGAT
* * * *
3633 CTAATCCCATGCAGATGTCAGAATGGGGAACTAATCCCATACAGAGGTCAGAACGAGGAAT
1 -TAATCCCATGCAGATGTCAGAATGGGGAATTAATCCCATGCAGATGTCAGAACG-GGGAT
* * *
3694 TAATCCCATGAAGATGTCAGAATGGGAAATTAATCCCATGCATATGTCAGAACGGGGA
1 TAATCCCATGCAGATGTCAGAATGGGGAATTAATCCCATGCAGATGTCAGAACGGGGA
3752 ACGAGGTCCC
Statistics
Matches: 101, Mismatches: 16, Indels: 3
0.84 0.13 0.03
Matches are distributed among these distances:
59 3 0.03
60 94 0.93
61 4 0.04
ACGTcount: A:0.35, C:0.18, G:0.25, T:0.22
Consensus pattern (59 bp):
TAATCCCATGCAGATGTCAGAATGGGGAATTAATCCCATGCAGATGTCAGAACGGGGAT
Found at i:3712 original size:90 final size:90
Alignment explanation
Indices: 3574--3753 Score: 272
Period size: 90 Copynumber: 2.0 Consensus size: 90
3564 GATGGAGATA
* * * * * *
3574 TAATCTCATACAGATGTCAGAACGGGGAATTAATCTCATGCAGATGTCAGAATGGG-GATCTAAT
1 TAATCCCATACAGAGGTCAGAACGAGGAATTAATCCCATGAAGATGTCAGAATGGGAAAT-TAAT
*
3638 CCCATGCAGATGTCAGAATGGGGAAC
65 CCCATGCAGATGTCAGAACGGGGAAC
3664 TAATCCCATACAGAGGTCAGAACGAGGAATTAATCCCATGAAGATGTCAGAATGGGAAATTAATC
1 TAATCCCATACAGAGGTCAGAACGAGGAATTAATCCCATGAAGATGTCAGAATGGGAAATTAATC
*
3729 CCATGCATATGTCAGAACGGGGAAC
66 CCATGCAGATGTCAGAACGGGGAAC
3754 GAGGTCCCAT
Statistics
Matches: 81, Mismatches: 8, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
90 79 0.98
91 2 0.02
ACGTcount: A:0.36, C:0.18, G:0.24, T:0.22
Consensus pattern (90 bp):
TAATCCCATACAGAGGTCAGAACGAGGAATTAATCCCATGAAGATGTCAGAATGGGAAATTAATC
CCATGCAGATGTCAGAACGGGGAAC
Found at i:3779 original size:90 final size:90
Alignment explanation
Indices: 3575--3784 Score: 257
Period size: 90 Copynumber: 2.3 Consensus size: 90
3565 ATGGAGATAT
* * * * *
3575 AATCTCATACAGATG-TCAGAACGGGGAATTAATCTCATGCAGATGTCAGAATGGGGATCTAATC
1 AATCCCATACAGA-GATCAGAACGAGGAATTAATCCCATGAAGATGTCAGAATGGGAATCTAATC
* *
3639 CCATGCAGATGTCAGAATGGGGAACT
65 CCATGCAGATGTCAGAACGGGGAACG
*
3665 AATCCCATACAGAGGTCAGAACGAGGAATTAATCCCATGAAGATGTCAGAATGGGAAAT-TAATC
1 AATCCCATACAGAGATCAGAACGAGGAATTAATCCCATGAAGATGTCAGAATGGG-AATCTAATC
*
3729 CCATGCATATGTCAGAACGGGGAACG
65 CCATGCAGATGTCAGAACGGGGAACG
* * *
3755 AGGTCCCATGCAGA-ATCAGGACGA-GAATTA
1 A-ATCCCATACAGAGATCAGAACGAGGAATTA
3785 TGCCCTCCAT
Statistics
Matches: 105, Mismatches: 12, Indels: 7
0.85 0.10 0.06
Matches are distributed among these distances:
89 7 0.07
90 86 0.82
91 12 0.11
ACGTcount: A:0.36, C:0.19, G:0.25, T:0.20
Consensus pattern (90 bp):
AATCCCATACAGAGATCAGAACGAGGAATTAATCCCATGAAGATGTCAGAATGGGAATCTAATCC
CATGCAGATGTCAGAACGGGGAACG
Found at i:5223 original size:25 final size:25
Alignment explanation
Indices: 5195--5244 Score: 75
Period size: 25 Copynumber: 2.0 Consensus size: 25
5185 TTTAACTCTC
5195 GTTA-ATTCTCATTCTTCTTCTCCAG
1 GTTATATTCTC-TTCTTCTTCTCCAG
*
5220 GTTATATTTTCTTCTTCTTCTCCAG
1 GTTATATTCTCTTCTTCTTCTCCAG
5245 ACGCATTTCC
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
25 18 0.78
26 5 0.22
ACGTcount: A:0.14, C:0.26, G:0.08, T:0.52
Consensus pattern (25 bp):
GTTATATTCTCTTCTTCTTCTCCAG
Found at i:5983 original size:48 final size:48
Alignment explanation
Indices: 5927--6023 Score: 133
Period size: 48 Copynumber: 2.0 Consensus size: 48
5917 AAATAGTCCT
* *
5927 GAATGTGTTGACT-CTTCATTTTTCTGATCCCATTATTCTATTTTGCAG
1 GAATGTGTTGACTAC-TCATTTTTCTCATCCCATTATTCTATTTTACAG
* * *
5975 GAATGTGTTTACTACTCATTTTTCTCATCCTATTATTCTCTTTTACAG
1 GAATGTGTTGACTACTCATTTTTCTCATCCCATTATTCTATTTTACAG
6023 G
1 G
6024 TTATGAAGAA
Statistics
Matches: 43, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
48 42 0.98
49 1 0.02
ACGTcount: A:0.20, C:0.20, G:0.12, T:0.48
Consensus pattern (48 bp):
GAATGTGTTGACTACTCATTTTTCTCATCCCATTATTCTATTTTACAG
Found at i:8514 original size:2 final size:2
Alignment explanation
Indices: 8507--8533 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
8497 CAAAGGGTTC
8507 AT 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 A
8534 GATGACTCAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:11257 original size:17 final size:18
Alignment explanation
Indices: 11235--11276 Score: 61
Period size: 17 Copynumber: 2.4 Consensus size: 18
11225 AGAAATCAAT
11235 ATTCAAAACTC-AAAAAA
1 ATTCAAAACTCAAAAAAA
*
11252 ATTC-AAATTCAAAAAAA
1 ATTCAAAACTCAAAAAAA
11269 ATTCAAAA
1 ATTCAAAA
11277 ACTCGATTCA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
16 5 0.23
17 14 0.64
18 3 0.14
ACGTcount: A:0.64, C:0.14, G:0.00, T:0.21
Consensus pattern (18 bp):
ATTCAAAACTCAAAAAAA
Found at i:13000 original size:21 final size:21
Alignment explanation
Indices: 12976--13033 Score: 71
Period size: 21 Copynumber: 2.8 Consensus size: 21
12966 GAGTTAAGGG
*
12976 TTTAGGGTTTATATTTTAAGA
1 TTTAGGGTTTATAGTTTAAGA
* *
12997 TTTAAGGTTTATAGTTTAGGA
1 TTTAGGGTTTATAGTTTAAGA
* *
13018 TTTAGAGTTTAGAGTT
1 TTTAGGGTTTATAGTT
13034 CATTACAAAT
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 31 1.00
ACGTcount: A:0.28, C:0.00, G:0.22, T:0.50
Consensus pattern (21 bp):
TTTAGGGTTTATAGTTTAAGA
Found at i:15135 original size:21 final size:21
Alignment explanation
Indices: 15096--15135 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
15086 GTGGTGTTAG
*
15096 AAAGCAAAGCAGATAAAACAC
1 AAAGCAAAGCAAATAAAACAC
15117 AAAGCAAA-CAAATAGAAAC
1 AAAGCAAAGCAAATA-AAAC
15136 CTTGAAAATG
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 5 0.29
21 12 0.71
ACGTcount: A:0.65, C:0.17, G:0.12, T:0.05
Consensus pattern (21 bp):
AAAGCAAAGCAAATAAAACAC
Found at i:21171 original size:2 final size:2
Alignment explanation
Indices: 21166--21203 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
21156 ATTTGAGAGA
21166 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
21204 TAAAAACAAT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:23001 original size:12 final size:12
Alignment explanation
Indices: 22984--23034 Score: 54
Period size: 12 Copynumber: 4.3 Consensus size: 12
22974 TTTAAAGAGG
22984 TTTTATATTTAA
1 TTTTATATTTAA
22996 TTTTATA-TTATA
1 TTTTATATTTA-A
*
23008 TTTGAT-TTTAA
1 TTTTATATTTAA
23019 TTTTA-ATATTAA
1 TTTTATAT-TTAA
23031 TTTT
1 TTTT
23035 TTAAATAAAT
Statistics
Matches: 33, Mismatches: 2, Indels: 8
0.77 0.05 0.19
Matches are distributed among these distances:
11 9 0.27
12 24 0.73
ACGTcount: A:0.31, C:0.00, G:0.02, T:0.67
Consensus pattern (12 bp):
TTTTATATTTAA
Found at i:23038 original size:14 final size:14
Alignment explanation
Indices: 23019--23099 Score: 59
Period size: 14 Copynumber: 6.2 Consensus size: 14
23009 TTGATTTTAA
23019 TTTTAATATTAATT
1 TTTTAATATTAATT
23033 TTTTAA-A-TAA--
1 TTTTAATATTAATT
* *
23043 ATTAAATATTAATT
1 TTTTAATATTAATT
* *
23057 TTTAAATATT-ATA
1 TTTTAATATTAATT
*
23070 TTATAGATATTAA--
1 TTTTA-ATATTAATT
23083 TTTTAATATTAATT
1 TTTTAATATTAATT
23097 TTT
1 TTT
23100 AAATGAATTA
Statistics
Matches: 52, Mismatches: 7, Indels: 16
0.69 0.09 0.21
Matches are distributed among these distances:
10 4 0.08
11 1 0.02
12 13 0.25
13 10 0.19
14 23 0.44
15 1 0.02
ACGTcount: A:0.42, C:0.00, G:0.01, T:0.57
Consensus pattern (14 bp):
TTTTAATATTAATT
Found at i:23093 original size:12 final size:12
Alignment explanation
Indices: 22992--23098 Score: 78
Period size: 12 Copynumber: 8.7 Consensus size: 12
22982 GGTTTTATAT
22992 TTAATTTT-ATA
1 TTAATTTTAATA
* *
23003 TT-ATATTTGATT
1 TTAAT-TTTAATA
23015 TTAATTTTAATA
1 TTAATTTTAATA
23027 TTAATTTTTTAA-A
1 TTAA--TTTTAATA
* *
23040 -TAAATTAAATA
1 TTAATTTTAATA
23051 TTAATTTTTAAATA
1 TTAA-TTTT-AATA
*
23065 TTATATTATAGATA
1 TTA-ATTTTA-ATA
23079 TTAATTTTAATA
1 TTAATTTTAATA
23091 TTAATTTT
1 TTAATTTT
23099 TAAATGAATT
Statistics
Matches: 76, Mismatches: 9, Indels: 21
0.72 0.08 0.20
Matches are distributed among these distances:
10 6 0.08
11 6 0.08
12 30 0.39
13 11 0.14
14 22 0.29
15 1 0.01
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.58
Consensus pattern (12 bp):
TTAATTTTAATA
Found at i:23122 original size:63 final size:64
Alignment explanation
Indices: 23000--23151 Score: 229
Period size: 63 Copynumber: 2.4 Consensus size: 64
22990 ATTTAATTTT
*
23000 ATATTATATT-T-GATTTTAATTTTAATATTAATTTTTTAAATAAATTAAATATTAATTTTTAA
1 ATATTATATTATAGATATTAATTTTAATATTAATTTTTTAAATAAATTAAATATTAATTTTTAA
* ** *
23062 ATATTATATTATAGATATTAATTTTAATATTAA-TTTTTAAATGAATTAAATATTTTTTTTTTA
1 ATATTATATTATAGATATTAATTTTAATATTAATTTTTTAAATAAATTAAATATTAATTTTTAA
23125 ATATTATATTATAGATATTTAATTTTA
1 ATATTATATTATAGATA-TTAATTTTA
23152 TATCATATAA
Statistics
Matches: 82, Mismatches: 5, Indels: 4
0.90 0.05 0.04
Matches are distributed among these distances:
62 10 0.12
63 44 0.54
64 28 0.34
ACGTcount: A:0.41, C:0.00, G:0.03, T:0.57
Consensus pattern (64 bp):
ATATTATATTATAGATATTAATTTTAATATTAATTTTTTAAATAAATTAAATATTAATTTTTAA
Found at i:23206 original size:20 final size:19
Alignment explanation
Indices: 23146--23207 Score: 58
Period size: 19 Copynumber: 3.3 Consensus size: 19
23136 TAGATATTTA
*
23146 ATTTTATATCA-TATAAATT
1 ATTTTATAT-ATTATTAATT
*
23165 ATTTTATATATTATTAA-A
1 ATTTTATATATTATTAATT
23183 ATTTTATAT-TTATTTTAATT
1 ATTTTATATATTA--TTAATT
23203 ATTTT
1 ATTTT
23208 GATTTAAGTT
Statistics
Matches: 36, Mismatches: 3, Indels: 7
0.78 0.07 0.15
Matches are distributed among these distances:
17 3 0.08
18 10 0.28
19 18 0.50
20 5 0.14
ACGTcount: A:0.37, C:0.02, G:0.00, T:0.61
Consensus pattern (19 bp):
ATTTTATATATTATTAATT
Found at i:31547 original size:102 final size:102
Alignment explanation
Indices: 31294--31675 Score: 459
Period size: 100 Copynumber: 3.8 Consensus size: 102
31284 ATTTTTGCAT
* * * * * * *
31294 AAAAAATGCGTTATCTATTACTTTATCATGAGCTACATTTTTTGTTTTACTTTTGCATAATATAA
1 AAAAAATGCGCTACCTAGTACGTTATCATGAGCAACATGTTTTGTCTTACTTTTGCATAATATAA
* * **
31359 AAGATTTCACACTTATAGCTTAAACGGTTGACATTAA
66 ACGATTTCATACTTATAATTTAAACGGTTGACATTAA
* *
31396 AAAAAA--CGCTACCTAGTACGTTATCATGAGTAACATGTTTTGTCTTACTTTTTCATAATATAA
1 AAAAAATGCGCTACCTAGTACGTTATCATGAGCAACATGTTTTGTCTTACTTTTGCATAATATAA
*
31459 ACGGTTTCATACTTATAATTTAAACGGTTGACATTAA
66 ACGATTTCATACTTATAATTTAAACGGTTGACATTAA
*
31496 AAAAAATGCACTACCTAGTACGTTATCATGAGCAACATGTTTTGTCTTACTTTTGCATAATATAA
1 AAAAAATGCGCTACCTAGTACGTTATCATGAGCAACATGTTTTGTCTTACTTTTGCATAATATAA
* * **
31561 ATGATTTCATATTTATAATTTAAACAATTGACA-T-A
66 ACGATTTCATACTTATAATTTAAACGGTTGACATTAA
* * ** ** * *
31596 AAAAAATGCGTTACTTA-TCACGTTATCATGATAAATTTGTTTTTTCTTACTTTTGCATCATATA
1 AAAAAATGCGCTACCTAGT-ACGTTATCATGAGCAACATGTTTTGTCTTACTTTTGCATAATATA
* *
31660 AACAATTTTATACTTA
65 AACGATTTCATACTTA
31676 CGGATGACAT
Statistics
Matches: 242, Mismatches: 35, Indels: 8
0.85 0.12 0.03
Matches are distributed among these distances:
99 1 0.00
100 152 0.63
101 1 0.00
102 88 0.36
ACGTcount: A:0.35, C:0.14, G:0.10, T:0.40
Consensus pattern (102 bp):
AAAAAATGCGCTACCTAGTACGTTATCATGAGCAACATGTTTTGTCTTACTTTTGCATAATATAA
ACGATTTCATACTTATAATTTAAACGGTTGACATTAA
Found at i:31869 original size:20 final size:20
Alignment explanation
Indices: 31844--31895 Score: 104
Period size: 20 Copynumber: 2.6 Consensus size: 20
31834 GGCTGCAAAG
31844 TATTGATATTTTTAGAAAAA
1 TATTGATATTTTTAGAAAAA
31864 TATTGATATTTTTAGAAAAA
1 TATTGATATTTTTAGAAAAA
31884 TATTGATATTTT
1 TATTGATATTTT
31896 GTAGCCTTCT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 32 1.00
ACGTcount: A:0.40, C:0.00, G:0.10, T:0.50
Consensus pattern (20 bp):
TATTGATATTTTTAGAAAAA
Found at i:32107 original size:77 final size:77
Alignment explanation
Indices: 31967--32193 Score: 244
Period size: 77 Copynumber: 2.9 Consensus size: 77
31957 TATACTTTTG
* * * *
31967 ATTTTTTATAATAAAAATATTAACGTTCCAGATCTCAA-CTCACTTTCTTAGTGAACCATAACAT
1 ATTTTTT-TAATTAAAATATTAACATTCCATATCACAACCT-A-TTTCTTAGTGAACCATAACAT
* *
32031 TATTGGGC-ATAGCCC
63 TCTTGGGCGA-AACCC
32046 ATTTTTTTAATTAAAATATTAACATTCCATATCACAACCTATTTCTTAGTGAACCATAACATTCT
1 ATTTTTTTAATTAAAATATTAACATTCCATATCACAACCTATTTCTTAGTGAACCATAACATTCT
* **
32111 TGGACGAAATTC
66 TGGGCGAAACCC
* * * ** * *
32123 ATTTTATTAA-TAAGAATATTAATAGTATATATCACAACCTATTTCATAGTGAACCATGACATTC
1 ATTTTTTTAATTAA-AATATTAACATTCCATATCACAACCTATTTCTTAGTGAACCATAACATTC
32187 TTGGGCG
65 TTGGGCG
32194 TAACATATGT
Statistics
Matches: 128, Mismatches: 17, Indels: 8
0.84 0.11 0.05
Matches are distributed among these distances:
76 3 0.02
77 88 0.69
78 28 0.22
79 9 0.07
ACGTcount: A:0.36, C:0.18, G:0.10, T:0.37
Consensus pattern (77 bp):
ATTTTTTTAATTAAAATATTAACATTCCATATCACAACCTATTTCTTAGTGAACCATAACATTCT
TGGGCGAAACCC
Found at i:32243 original size:40 final size:40
Alignment explanation
Indices: 32179--32281 Score: 136
Period size: 40 Copynumber: 2.6 Consensus size: 40
32169 TAGTGAACCA
* * * *
32179 TGACATTCTTGGGCGTAACATATGTTATCAATAAAATTAT
1 TGACATTCTTAGGCGCAACCTATGTTATCAATAAAAATAT
32219 TGACATTCTTAGGCGCAACCTATGTTATCAATAAAAATAT
1 TGACATTCTTAGGCGCAACCTATGTTATCAATAAAAATAT
* *
32259 TAACATTC-TAGATCGCAACCTAT
1 TGACATTCTTAG-GCGCAACCTAT
32282 TTCATAATGA
Statistics
Matches: 56, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
39 3 0.05
40 53 0.95
ACGTcount: A:0.36, C:0.17, G:0.13, T:0.34
Consensus pattern (40 bp):
TGACATTCTTAGGCGCAACCTATGTTATCAATAAAAATAT
Found at i:32380 original size:77 final size:77
Alignment explanation
Indices: 32219--32390 Score: 209
Period size: 77 Copynumber: 2.2 Consensus size: 77
32209 ATAAAATTAT
* * * *
32219 TGACATTCTTAGGCGCAACCTATGTTATCAATAAAAATATTAACATTCTAGATCGCAACCTATTT
1 TGACATTTTTAGGCGCAACCTATGTTATAAATAAAAATATTAACATTCCACATCGCAACCTATTT
32284 CATAATGAACCA
66 CATAATGAACCA
* * * * * * * *
32296 TGGCATTTTTTGGCGTAATCTATTTTATAAATAAAAATATTAATATTCCACATCGTAACTTATTT
1 TGACATTTTTAGGCGCAACCTATGTTATAAATAAAAATATTAACATTCCACATCGCAACCTATTT
* *
32361 CTTAGTGAACCA
66 CATAATGAACCA
*
32373 TGACATTTTTAGGTGCAA
1 TGACATTTTTAGGCGCAA
32391 TCATTTTTCT
Statistics
Matches: 77, Mismatches: 18, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
77 77 1.00
ACGTcount: A:0.35, C:0.17, G:0.12, T:0.37
Consensus pattern (77 bp):
TGACATTTTTAGGCGCAACCTATGTTATAAATAAAAATATTAACATTCCACATCGCAACCTATTT
CATAATGAACCA
Found at i:33557 original size:23 final size:22
Alignment explanation
Indices: 33507--33563 Score: 69
Period size: 23 Copynumber: 2.5 Consensus size: 22
33497 AAAGAAAACG
* *
33507 AAAAATGTGTCACTAAGGCACA
1 AAAAATGTGCCACAAAGGCACA
*
33529 AGAAAATGTGCCACAAAGGCATA
1 A-AAAATGTGCCACAAAGGCACA
33552 TAAAAATGTGCC
1 -AAAAATGTGCC
33564 CTAAAGTTAA
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
22 1 0.03
23 28 0.93
24 1 0.03
ACGTcount: A:0.46, C:0.18, G:0.19, T:0.18
Consensus pattern (22 bp):
AAAAATGTGCCACAAAGGCACA
Found at i:34669 original size:39 final size:41
Alignment explanation
Indices: 34613--34692 Score: 110
Period size: 39 Copynumber: 2.0 Consensus size: 41
34603 TTTTTACTCA
** *
34613 ATGAACAAATGTTCGAGTCAGAGTCTTCGCCTATTTTTGAT
1 ATGAACAAATGTTCGAGTCAGAAACTTCGCCTATTTGTGAT
*
34654 ATGAAC-AA-GTTCGAGTCAGAAACTTCGTCTATTTGTGAT
1 ATGAACAAATGTTCGAGTCAGAAACTTCGCCTATTTGTGAT
34693 GTTTACAAAT
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
39 27 0.77
40 2 0.06
41 6 0.17
ACGTcount: A:0.29, C:0.16, G:0.20, T:0.35
Consensus pattern (41 bp):
ATGAACAAATGTTCGAGTCAGAAACTTCGCCTATTTGTGAT
Found at i:35743 original size:27 final size:26
Alignment explanation
Indices: 35693--35750 Score: 66
Period size: 28 Copynumber: 2.2 Consensus size: 26
35683 AGAGGTGTAC
*
35693 AAAAAATTCGAATATCTGATTTTGAGCA
1 AAAAAATTCGAATATCGGATTTTG-G-A
35721 AAAAATATTCGAA-ATCGGA-TTTGGA
1 AAAAA-ATTCGAATATCGGATTTTGGA
35746 AAAAA
1 AAAAA
35751 CCGGTTTTTT
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
25 6 0.21
26 1 0.04
27 4 0.14
28 10 0.36
29 7 0.25
ACGTcount: A:0.48, C:0.09, G:0.16, T:0.28
Consensus pattern (26 bp):
AAAAAATTCGAATATCGGATTTTGGA
Found at i:35917 original size:20 final size:20
Alignment explanation
Indices: 35892--35936 Score: 72
Period size: 20 Copynumber: 2.2 Consensus size: 20
35882 TATATGAAAA
*
35892 AAAAATCCGGTATGGGGTTT
1 AAAAATCCGGTATGAGGTTT
*
35912 AAAAATCCGGTCTGAGGTTT
1 AAAAATCCGGTATGAGGTTT
35932 AAAAA
1 AAAAA
35937 ATTGGATGAC
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.38, C:0.11, G:0.24, T:0.27
Consensus pattern (20 bp):
AAAAATCCGGTATGAGGTTT
Found at i:42335 original size:2 final size:2
Alignment explanation
Indices: 42328--42378 Score: 102
Period size: 2 Copynumber: 25.5 Consensus size: 2
42318 TACCACAGTT
42328 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
42370 TC TC TC TC T
1 TC TC TC TC T
42379 TTTTTAACTC
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 49 1.00
ACGTcount: A:0.00, C:0.49, G:0.00, T:0.51
Consensus pattern (2 bp):
TC
Found at i:44472 original size:9 final size:9
Alignment explanation
Indices: 44460--44500 Score: 50
Period size: 9 Copynumber: 4.7 Consensus size: 9
44450 TATATTTCGA
44460 GTTTTTCCG
1 GTTTTTCCG
44469 GTTTTT-CG
1 GTTTTTCCG
*
44477 GTTTTTTCCA
1 G-TTTTTCCG
44487 GTTTTTCC-
1 GTTTTTCCG
44495 GTTTTT
1 GTTTTT
44501 TTTTTCGGTT
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
8 9 0.31
9 18 0.62
10 2 0.07
ACGTcount: A:0.02, C:0.17, G:0.17, T:0.63
Consensus pattern (9 bp):
GTTTTTCCG
Found at i:44482 original size:18 final size:18
Alignment explanation
Indices: 44461--44501 Score: 64
Period size: 18 Copynumber: 2.3 Consensus size: 18
44451 ATATTTCGAG
* *
44461 TTTTTCCGGTTTTTCGGT
1 TTTTTCCAGTTTTTCCGT
44479 TTTTTCCAGTTTTTCCGT
1 TTTTTCCAGTTTTTCCGT
44497 TTTTT
1 TTTTT
44502 TTTTCGGTTT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.02, C:0.17, G:0.15, T:0.66
Consensus pattern (18 bp):
TTTTTCCAGTTTTTCCGT
Found at i:46856 original size:2 final size:2
Alignment explanation
Indices: 46849--46928 Score: 160
Period size: 2 Copynumber: 40.0 Consensus size: 2
46839 CTTGTTTCTT
46849 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
46891 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
46929 GAAAATGACA
Statistics
Matches: 78, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 78 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:51919 original size:21 final size:23
Alignment explanation
Indices: 51895--51942 Score: 57
Period size: 21 Copynumber: 2.2 Consensus size: 23
51885 ATAATTTCTT
*
51895 AAATATAT-AATTTTTAA-TAGA
1 AAATATATAAATTTATAATTAGA
*
51916 AAAT-TATAAATTTATAATTATA
1 AAATATATAAATTTATAATTAGA
51938 AAATA
1 AAATA
51943 AATATAGTAT
Statistics
Matches: 22, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
20 3 0.14
21 12 0.55
22 7 0.32
ACGTcount: A:0.56, C:0.00, G:0.02, T:0.42
Consensus pattern (23 bp):
AAATATATAAATTTATAATTAGA
Found at i:56566 original size:16 final size:17
Alignment explanation
Indices: 56545--56582 Score: 51
Period size: 17 Copynumber: 2.3 Consensus size: 17
56535 ACTCGTTAAT
* *
56545 AATATTTT-TTAAATAA
1 AATATTTTATCAAAAAA
56561 AATATTTTATCAAAAAA
1 AATATTTTATCAAAAAA
56578 AATAT
1 AATAT
56583 CATCGATACT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
16 8 0.42
17 11 0.58
ACGTcount: A:0.55, C:0.03, G:0.00, T:0.42
Consensus pattern (17 bp):
AATATTTTATCAAAAAA
Found at i:59613 original size:33 final size:34
Alignment explanation
Indices: 59562--59631 Score: 106
Period size: 33 Copynumber: 2.1 Consensus size: 34
59552 TATTCACTAG
* * *
59562 TTTCTAGTAGCAGGCATGAGATTTTATATTTT-T
1 TTTCTAGAAACAGACATGAGATTTTATATTTTCT
59595 TTTCTAGAAACAGACATGAGATTTTATATTTTCT
1 TTTCTAGAAACAGACATGAGATTTTATATTTTCT
59629 TTT
1 TTT
59632 ACTTCCACAG
Statistics
Matches: 33, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
33 29 0.88
34 4 0.12
ACGTcount: A:0.27, C:0.10, G:0.14, T:0.49
Consensus pattern (34 bp):
TTTCTAGAAACAGACATGAGATTTTATATTTTCT
Found at i:61779 original size:33 final size:33
Alignment explanation
Indices: 61741--61874 Score: 250
Period size: 33 Copynumber: 4.1 Consensus size: 33
61731 TGAATTGGAT
61741 GGATGATTGAAATGAATGAACCCAAAATACTGG
1 GGATGATTGAAATGAATGAACCCAAAATACTGG
61774 GGATGATTGAAATGAATGAACCCAAAATACTGG
1 GGATGATTGAAATGAATGAACCCAAAATACTGG
61807 GGATGATTGAAATGAATGAACCCAAAATACTGG
1 GGATGATTGAAATGAATGAACCCAAAATACTGG
* *
61840 GGATGATTGAAATGAATGAATCCAAAATAGTGG
1 GGATGATTGAAATGAATGAACCCAAAATACTGG
61873 GG
1 GG
61875 CCTTCCATCA
Statistics
Matches: 99, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
33 99 1.00
ACGTcount: A:0.42, C:0.10, G:0.26, T:0.22
Consensus pattern (33 bp):
GGATGATTGAAATGAATGAACCCAAAATACTGG
Found at i:62190 original size:20 final size:20
Alignment explanation
Indices: 62161--62236 Score: 64
Period size: 20 Copynumber: 3.8 Consensus size: 20
62151 TACACCCTAT
*
62161 AATC-TAAACCCTAAAGTTC
1 AATCATAAACCCTAAACTTC
* **
62180 AATCATAAACCTTAAACCCC
1 AATCATAAACCCTAAACTTC
* * *
62200 AAACATAAACCCTAACATTTA
1 AATCATAAACCCTAA-ACTTC
*
62221 AATCTTAAACCCTAAA
1 AATCATAAACCCTAAA
62237 ATTTAAAGTC
Statistics
Matches: 43, Mismatches: 12, Indels: 3
0.74 0.21 0.05
Matches are distributed among these distances:
19 4 0.09
20 25 0.58
21 14 0.33
ACGTcount: A:0.47, C:0.28, G:0.01, T:0.24
Consensus pattern (20 bp):
AATCATAAACCCTAAACTTC
Found at i:67300 original size:5 final size:5
Alignment explanation
Indices: 67290--67318 Score: 58
Period size: 5 Copynumber: 5.8 Consensus size: 5
67280 GTAATGGGTA
67290 GGATG GGATG GGATG GGATG GGATG GGAT
1 GGATG GGATG GGATG GGATG GGATG GGAT
67319 AAATTTATAA
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:0.59, T:0.21
Consensus pattern (5 bp):
GGATG
Found at i:67632 original size:15 final size:15
Alignment explanation
Indices: 67612--67693 Score: 121
Period size: 15 Copynumber: 5.5 Consensus size: 15
67602 TTCCAGAAAA
67612 TGAATTACTGGAATT
1 TGAATTACTGGAATT
67627 TGAATTACTGGAATT
1 TGAATTACTGGAATT
**
67642 TGAATTACTGGAAAA
1 TGAATTACTGGAATT
67657 TGAATTACTGGAATT
1 TGAATTACTGGAATT
**
67672 TGAATT-CTGGAAAA
1 TGAATTACTGGAATT
67686 TGAATTAC
1 TGAATTAC
67694 ATTTCTGTAA
Statistics
Matches: 60, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
14 12 0.20
15 48 0.80
ACGTcount: A:0.38, C:0.07, G:0.20, T:0.35
Consensus pattern (15 bp):
TGAATTACTGGAATT
Found at i:67648 original size:30 final size:30
Alignment explanation
Indices: 67612--67693 Score: 139
Period size: 30 Copynumber: 2.8 Consensus size: 30
67602 TTCCAGAAAA
**
67612 TGAATTACTGGAATTTGAATTACTGGAATT
1 TGAATTACTGGAAAATGAATTACTGGAATT
67642 TGAATTACTGGAAAATGAATTACTGGAATT
1 TGAATTACTGGAAAATGAATTACTGGAATT
67672 TGAATT-CTGGAAAATGAATTAC
1 TGAATTACTGGAAAATGAATTAC
67694 ATTTCTGTAA
Statistics
Matches: 50, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
29 16 0.32
30 34 0.68
ACGTcount: A:0.38, C:0.07, G:0.20, T:0.35
Consensus pattern (30 bp):
TGAATTACTGGAAAATGAATTACTGGAATT
Found at i:67663 original size:45 final size:44
Alignment explanation
Indices: 67607--67693 Score: 147
Period size: 45 Copynumber: 2.0 Consensus size: 44
67597 TGGTTTTCCA
**
67607 GAAAATGAATTACTGGAATTTGAATTACTGGAATTTGAATTACTG
1 GAAAATGAATTACTGGAATTTGAATT-CTGGAAAATGAATTACTG
67652 GAAAATGAATTACTGGAATTTGAATTCTGGAAAATGAATTAC
1 GAAAATGAATTACTGGAATTTGAATTCTGGAAAATGAATTAC
67694 ATTTCTGTAA
Statistics
Matches: 40, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
44 14 0.35
45 26 0.65
ACGTcount: A:0.40, C:0.07, G:0.20, T:0.33
Consensus pattern (44 bp):
GAAAATGAATTACTGGAATTTGAATTCTGGAAAATGAATTACTG
Found at i:67745 original size:20 final size:20
Alignment explanation
Indices: 67676--67744 Score: 122
Period size: 20 Copynumber: 3.5 Consensus size: 20
67666 GGAATTTGAA
67676 TTCTGGAAAATGAATTACAT
1 TTCTGGAAAATGAATTACAT
*
67696 TTCTGTAAAATGAATTACAT
1 TTCTGGAAAATGAATTACAT
67716 TTCTGGAAAATGAATTACAT
1 TTCTGGAAAATGAATTACAT
67736 TTCT-GAAAA
1 TTCTGGAAAA
67745 ACATCTGGAA
Statistics
Matches: 47, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
19 5 0.11
20 42 0.89
ACGTcount: A:0.41, C:0.10, G:0.13, T:0.36
Consensus pattern (20 bp):
TTCTGGAAAATGAATTACAT
Found at i:67875 original size:21 final size:23
Alignment explanation
Indices: 67851--67893 Score: 54
Period size: 23 Copynumber: 2.0 Consensus size: 23
67841 TTATTAAAGT
67851 AATAGT-ACTA-TATATTTTAAA
1 AATAGTAACTAGTATATTTTAAA
* *
67872 AATATTAATTAGTATATTTTAA
1 AATAGTAACTAGTATATTTTAA
67894 TATCTTTATT
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
21 5 0.28
22 3 0.17
23 10 0.56
ACGTcount: A:0.47, C:0.02, G:0.05, T:0.47
Consensus pattern (23 bp):
AATAGTAACTAGTATATTTTAAA
Found at i:67951 original size:19 final size:20
Alignment explanation
Indices: 67899--67951 Score: 56
Period size: 20 Copynumber: 2.6 Consensus size: 20
67889 TTTAATATCT
67899 TTATTAAA-ATATTATTGAA
1 TTATTAAATATATTATTGAA
* *
67918 ATATATAAATAATATTATT-CA
1 TTAT-TAAAT-ATATTATTGAA
67939 TTATTAAATATAT
1 TTATTAAATATAT
67952 AAAAAAATTT
Statistics
Matches: 28, Mismatches: 3, Indels: 6
0.76 0.08 0.16
Matches are distributed among these distances:
19 7 0.25
20 9 0.32
21 4 0.14
22 8 0.29
ACGTcount: A:0.49, C:0.02, G:0.02, T:0.47
Consensus pattern (20 bp):
TTATTAAATATATTATTGAA
Found at i:67965 original size:24 final size:28
Alignment explanation
Indices: 67908--67966 Score: 72
Period size: 28 Copynumber: 2.2 Consensus size: 28
67898 TTTATTAAAA
67908 TATTATTGAAATATATAAATAATATTATT
1 TATTATTGAAATATATAAATAATA-TATT
*
67937 CATTATT-AAATATATAAA-AA-A-ATT
1 TATTATTGAAATATATAAATAATATATT
67961 TATTAT
1 TATTAT
67967 ATATTGTTAA
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
24 8 0.29
26 1 0.04
27 2 0.07
28 11 0.39
29 6 0.21
ACGTcount: A:0.51, C:0.02, G:0.02, T:0.46
Consensus pattern (28 bp):
TATTATTGAAATATATAAATAATATATT
Found at i:68034 original size:33 final size:31
Alignment explanation
Indices: 68000--68073 Score: 84
Period size: 30 Copynumber: 2.4 Consensus size: 31
67990 TATCTTATAT
*
68000 TATTAT-AATATAAT-TGATTATT-TTATATAA
1 TATTATAAATATAATATTA-TATTATTATA-AA
68030 TATTA-AAATATAATATTATATTATTATAAA
1 TATTATAAATATAATATTATATTATTATAAA
68060 TATTAATAAATATA
1 TATT-ATAAATATA
68074 TTTTAAATAT
Statistics
Matches: 38, Mismatches: 1, Indels: 8
0.81 0.02 0.17
Matches are distributed among these distances:
30 23 0.61
31 8 0.21
32 7 0.18
ACGTcount: A:0.50, C:0.00, G:0.01, T:0.49
Consensus pattern (31 bp):
TATTATAAATATAATATTATATTATTATAAA
Found at i:68054 original size:21 final size:23
Alignment explanation
Indices: 68024--68091 Score: 70
Period size: 23 Copynumber: 3.0 Consensus size: 23
68014 TGATTATTTT
*
68024 ATATAATATTAAAATA-TAAT-A
1 ATATATTATTAAAATATTAATAA
*
68045 TTATATTATTATAAATATTAATAA
1 ATATATTATTA-AAATATTAATAA
*
68069 ATATATT-TTAAATATTTTAATAA
1 ATATATTATTAAA-ATATTAATAA
68092 TTAATATTTT
Statistics
Matches: 39, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
21 9 0.23
22 7 0.18
23 16 0.41
24 7 0.18
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (23 bp):
ATATATTATTAAAATATTAATAA
Found at i:68059 original size:23 final size:24
Alignment explanation
Indices: 67981--68067 Score: 63
Period size: 25 Copynumber: 3.5 Consensus size: 24
67971 TGTTAAAATA
67981 AAAATA-TAATATCTTATATTATTAT
1 AAAATATTAATA--TTATATTATTAT
* * * *
68006 AATATAATTGATTATTTTATATAATATT
1 AAAAT-ATT-AATATTATAT-TATTA-T
68034 AAAATA-TAATATTATATTATTAT
1 AAAATATTAATATTATATTATTAT
68057 -AAATATTAATA
1 AAAATATTAATA
68068 AATATATTTT
Statistics
Matches: 48, Mismatches: 8, Indels: 14
0.69 0.11 0.20
Matches are distributed among these distances:
22 5 0.10
23 6 0.12
24 4 0.08
25 12 0.25
26 7 0.15
27 6 0.12
28 8 0.17
ACGTcount: A:0.49, C:0.01, G:0.01, T:0.48
Consensus pattern (24 bp):
AAAATATTAATATTATATTATTAT
Found at i:68083 original size:51 final size:50
Alignment explanation
Indices: 67965--68084 Score: 129
Period size: 51 Copynumber: 2.3 Consensus size: 50
67955 AAAATTTATT
* **
67965 ATATATTGTTAAA-ATAAAAATATAATATCTTATATTATTATAATATAATTG
1 ATATATT-TTAAATATTAAAATATAATA-CTTATATTATTATAATATAATAA
68016 AT-TATTTTATATAATATTAAAATATAATA-TTATATTATTATAAATATTAATAA
1 ATATA-TTT-TA-AATATTAAAATATAATACTTATATTATTAT-AATA-TAATAA
68069 ATATATTTTAAATATT
1 ATATATTTTAAATATT
68085 TTAATAATTA
Statistics
Matches: 59, Mismatches: 3, Indels: 14
0.78 0.04 0.18
Matches are distributed among these distances:
50 3 0.05
51 24 0.41
52 8 0.14
53 22 0.37
54 2 0.03
ACGTcount: A:0.49, C:0.01, G:0.02, T:0.48
Consensus pattern (50 bp):
ATATATTTTAAATATTAAAATATAATACTTATATTATTATAATATAATAA
Found at i:68332 original size:42 final size:42
Alignment explanation
Indices: 68273--68392 Score: 231
Period size: 42 Copynumber: 2.9 Consensus size: 42
68263 ATGAATTACA
*
68273 TTCCGGAAAACGAATTACGTGAAACAAACACGGGAAAACGTT
1 TTCCGGAAAACGAATTACGTGAAACAAACACGGGAAAACATT
68315 TTCCGGAAAACGAATTACGTGAAACAAACACGGGAAAACATT
1 TTCCGGAAAACGAATTACGTGAAACAAACACGGGAAAACATT
68357 TTCCGGAAAACGAATTACGTGAAACAAACACGGGAA
1 TTCCGGAAAACGAATTACGTGAAACAAACACGGGAA
68393 TTCGGGGAAA
Statistics
Matches: 77, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
42 77 1.00
ACGTcount: A:0.44, C:0.19, G:0.21, T:0.16
Consensus pattern (42 bp):
TTCCGGAAAACGAATTACGTGAAACAAACACGGGAAAACATT
Found at i:69177 original size:2 final size:2
Alignment explanation
Indices: 69170--69195 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
69160 GCCCGACTGG
69170 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
69196 GTTTCCATCC
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:70585 original size:21 final size:20
Alignment explanation
Indices: 70561--70602 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 20
70551 GTCATACAAC
*
70561 TAATAATAGTTGTATAATGCA
1 TAATAATAGTT-CATAATGCA
*
70582 TAATAATGGTTCATAATGCA
1 TAATAATAGTTCATAATGCA
70602 T
1 T
70603 TGTAAGTTGG
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
20 9 0.47
21 10 0.53
ACGTcount: A:0.40, C:0.07, G:0.14, T:0.38
Consensus pattern (20 bp):
TAATAATAGTTCATAATGCA
Found at i:74475 original size:17 final size:17
Alignment explanation
Indices: 74453--74494 Score: 84
Period size: 17 Copynumber: 2.5 Consensus size: 17
74443 CGCTATGATA
74453 TGCACAAGACCAGACAT
1 TGCACAAGACCAGACAT
74470 TGCACAAGACCAGACAT
1 TGCACAAGACCAGACAT
74487 TGCACAAG
1 TGCACAAG
74495 CAGTGGGAGT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 25 1.00
ACGTcount: A:0.40, C:0.29, G:0.19, T:0.12
Consensus pattern (17 bp):
TGCACAAGACCAGACAT
Found at i:75222 original size:21 final size:20
Alignment explanation
Indices: 75198--75239 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 20
75188 GTCATACAAC
*
75198 TAATAATAGTTGTATAATGCA
1 TAATAATAGTT-CATAATGCA
*
75219 TAATAATGGTTCATAATGCA
1 TAATAATAGTTCATAATGCA
75239 T
1 T
75240 TGTAAGTTGA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
20 9 0.47
21 10 0.53
ACGTcount: A:0.40, C:0.07, G:0.14, T:0.38
Consensus pattern (20 bp):
TAATAATAGTTCATAATGCA
Found at i:76012 original size:2 final size:2
Alignment explanation
Indices: 76005--76032 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
75995 TAAATATTTA
76005 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
76033 TTTAGAATTC
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:76619 original size:25 final size:21
Alignment explanation
Indices: 76572--76624 Score: 106
Period size: 21 Copynumber: 2.5 Consensus size: 21
76562 ATATATGCAC
76572 GTATGTATATAATCCAGACAT
1 GTATGTATATAATCCAGACAT
76593 GTATGTATATAATCCAGACAT
1 GTATGTATATAATCCAGACAT
76614 GTATGTATATA
1 GTATGTATATA
76625 TAGTGCCACC
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 32 1.00
ACGTcount: A:0.38, C:0.11, G:0.15, T:0.36
Consensus pattern (21 bp):
GTATGTATATAATCCAGACAT
Done.