Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A08
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: 119882356
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2655529 characters in sequence are not A, C, G, or T
File 329 of 362
Found at i:109883409 original size:26 final size:26
Alignment explanation
Indices: 109883351--109883457 Score: 180
Period size: 26 Copynumber: 4.2 Consensus size: 26
109883341 TGGTACAAAT
109883351 TGATAATGGGTTAGGTAAATGTT-CA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
109883376 TGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
109883402 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
109883428 TGATAATGGTTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
109883454 TGAT
1 TGAT
109883458 GGGCATTTCA
Statistics
Matches: 76, Mismatches: 5, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
25 21 0.28
26 55 0.72
ACGTcount: A:0.33, C:0.07, G:0.24, T:0.36
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:109896522 original size:5 final size:5
Alignment explanation
Indices: 109896511--109896550 Score: 62
Period size: 5 Copynumber: 8.0 Consensus size: 5
109896501 AAACTCCAAT
* *
109896511 CAAAC TAAAC TAAAC CAAAC CAAAC CAAAC CAAAC CAAAC
1 CAAAC CAAAC CAAAC CAAAC CAAAC CAAAC CAAAC CAAAC
109896551 TTGGCACTTG
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
5 33 1.00
ACGTcount: A:0.60, C:0.35, G:0.00, T:0.05
Consensus pattern (5 bp):
CAAAC
Found at i:109905342 original size:18 final size:18
Alignment explanation
Indices: 109905319--109905353 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
109905309 GATAAATAGC
109905319 TATAAAATAATACATAAA
1 TATAAAATAATACATAAA
*
109905337 TATAAAATAATATATAA
1 TATAAAATAATACATAA
109905354 TTTCTCAAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.66, C:0.03, G:0.00, T:0.31
Consensus pattern (18 bp):
TATAAAATAATACATAAA
Found at i:109912064 original size:30 final size:30
Alignment explanation
Indices: 109912028--109912087 Score: 102
Period size: 30 Copynumber: 2.0 Consensus size: 30
109912018 ACTTAACAAG
109912028 CAAATGCCTCTAAAATAATAAAAAAATTAA
1 CAAATGCCTCTAAAATAATAAAAAAATTAA
* *
109912058 CAAATGCCTTTAAAATAATAACAAAATTAA
1 CAAATGCCTCTAAAATAATAAAAAAATTAA
109912088 TAATAAAATA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.58, C:0.13, G:0.03, T:0.25
Consensus pattern (30 bp):
CAAATGCCTCTAAAATAATAAAAAAATTAA
Found at i:109917243 original size:13 final size:14
Alignment explanation
Indices: 109917227--109917268 Score: 50
Period size: 13 Copynumber: 2.9 Consensus size: 14
109917217 TCTCAATTTT
109917227 ATTTTAATAAT-TA
1 ATTTTAATAATATA
*
109917240 ATTTTAAAAATAATA
1 ATTTTAATAAT-ATA
109917255 ATTTTAAATAATAT
1 ATTTT-AATAATAT
109917269 TCTCCATACA
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
13 10 0.42
15 9 0.38
16 5 0.21
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (14 bp):
ATTTTAATAATATA
Found at i:109917258 original size:15 final size:17
Alignment explanation
Indices: 109917231--109917267 Score: 60
Period size: 15 Copynumber: 2.3 Consensus size: 17
109917221 AATTTTATTT
109917231 TAATAATTAATTTTAAA
1 TAATAATTAATTTTAAA
109917248 -AATAA-TAATTTTAAA
1 TAATAATTAATTTTAAA
109917263 TAATA
1 TAATA
109917268 TTCTCCATAC
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
15 10 0.53
16 9 0.47
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (17 bp):
TAATAATTAATTTTAAA
Found at i:109919261 original size:24 final size:24
Alignment explanation
Indices: 109919174--109919350 Score: 237
Period size: 24 Copynumber: 7.2 Consensus size: 24
109919164 CAACTCTTAT
* *
109919174 GAGCGTCCTGTTATATGGCTCTTCG
1 GAGCTTCCCGTTA-ATGGCTCTTCG
* * *
109919199 TGAGCTTCCCGATTAAAGGGTCTTTG
1 -GAGCTTCCCG-TTAATGGCTCTTCG
*
109919225 TGAGCTTCCCGTTAATAGCTCTTCG
1 -GAGCTTCCCGTTAATGGCTCTTCG
*
109919250 GAGCTTCTCGTTAATGGCTCTTCG
1 GAGCTTCCCGTTAATGGCTCTTCG
**
109919274 GAGCTTCTAGTTAATGGCTCTTCG
1 GAGCTTCCCGTTAATGGCTCTTCG
109919298 GAGCTTCCCGTTAATGGCTCTTCG
1 GAGCTTCCCGTTAATGGCTCTTCG
109919322 GAGCTTCCCGTTAATGGCTCTTCG
1 GAGCTTCCCGTTAATGGCTCTTCG
109919346 GAGCT
1 GAGCT
109919351 ACTGTTATTG
Statistics
Matches: 136, Mismatches: 14, Indels: 4
0.88 0.09 0.03
Matches are distributed among these distances:
24 96 0.71
25 10 0.07
26 27 0.20
27 3 0.02
ACGTcount: A:0.15, C:0.25, G:0.25, T:0.35
Consensus pattern (24 bp):
GAGCTTCCCGTTAATGGCTCTTCG
Found at i:109919308 original size:72 final size:72
Alignment explanation
Indices: 109919174--109919387 Score: 243
Period size: 72 Copynumber: 2.9 Consensus size: 72
109919164 CAACTCTTAT
* * * * * *
109919174 GAGCGTCCTGTTATATGGCTCTTCGTGAGCTTCCCGATTAAAGGGTCTTTGTGAGCTTCCCGTTA
1 GAGCTTCCCGTTA-ATGGCTCTTCG-GAGCTT-CTG-TTAATGGCTCTTCGTGAGCTTCCCGTTA
109919239 ATAGCTCTTCG
62 ATAGCTCTTCG
* *
109919250 GAGCTTCTCGTTAATGGCTCTTCGGAGCTTCTAGTTAATGGCTCTTCG-GAGCTTCCCGTTAATG
1 GAGCTTCCCGTTAATGGCTCTTCGGAGCTTCT-GTTAATGGCTCTTCGTGAGCTTCCCGTTAATA
109919314 GCTCTTCG
65 GCTCTTCG
* * * * *
109919322 GAGCTTCCCGTTAATGGCTCTTCGGAGCTACTGTTATTGGCTC-GCATGAGCTTCCTGTTATATA
1 GAGCTTCCCGTTAATGGCTCTTCGGAGCTTCTGTTAATGGCTCTTCGTGAGCTTCCCGTTA-ATA
109919386 GC
65 GC
109919388 CCGGATAAGC
Statistics
Matches: 120, Mismatches: 15, Indels: 10
0.83 0.10 0.07
Matches are distributed among these distances:
70 1 0.01
71 22 0.18
72 57 0.47
73 12 0.10
74 7 0.06
75 11 0.09
76 10 0.08
ACGTcount: A:0.15, C:0.24, G:0.25, T:0.36
Consensus pattern (72 bp):
GAGCTTCCCGTTAATGGCTCTTCGGAGCTTCTGTTAATGGCTCTTCGTGAGCTTCCCGTTAATAG
CTCTTCG
Found at i:109921751 original size:22 final size:21
Alignment explanation
Indices: 109921708--109921752 Score: 54
Period size: 22 Copynumber: 2.1 Consensus size: 21
109921698 ATATTTTAAC
109921708 TTAATATAAAAATATGAATAT
1 TTAATATAAAAATATGAATAT
* * *
109921729 TTAATCATATAAATCTGAGTAT
1 TTAAT-ATAAAAATATGAATAT
109921751 TT
1 TT
109921753 GTTTAAATAA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
21 5 0.25
22 15 0.75
ACGTcount: A:0.47, C:0.04, G:0.07, T:0.42
Consensus pattern (21 bp):
TTAATATAAAAATATGAATAT
Found at i:109922286 original size:114 final size:113
Alignment explanation
Indices: 109922070--109922287 Score: 328
Period size: 114 Copynumber: 1.9 Consensus size: 113
109922060 TAAATAAATA
* ** *
109922070 TGATTTGATGTAGTTGCTCCGGCAACGAATGTGCCACCTTATAACTCGGACCCAGCGATCAGGTT
1 TGATTTGATATAGTTGCTCCGGCAACGAATGTGCCACCTTATAACTCAAACCCAGCGATCAAGTT
*
109922135 GGGTAACGAGGTGTTACAATATTAATATGTATTGAATGGGTAACGAGG
66 GGGTAACGAGGTGTTACAATATTAATATGTATCGAATGGGTAACGAGG
* * * *
109922183 TGATTTGACTATAGTTGCTTCGGCAACGAATGTGCTACCTTGTAACTCAAACCTAGCGATCAAGT
1 TGATTTGA-TATAGTTGCTCCGGCAACGAATGTGCCACCTTATAACTCAAACCCAGCGATCAAGT
* *
109922248 TGGGTAATGAGGTGTTACAATATTAATATTTATCGAATGG
65 TGGGTAACGAGGTGTTACAATATTAATATGTATCGAATGG
109922288 TTCAAAATTT
Statistics
Matches: 93, Mismatches: 11, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
113 8 0.09
114 85 0.91
ACGTcount: A:0.28, C:0.16, G:0.25, T:0.31
Consensus pattern (113 bp):
TGATTTGATATAGTTGCTCCGGCAACGAATGTGCCACCTTATAACTCAAACCCAGCGATCAAGTT
GGGTAACGAGGTGTTACAATATTAATATGTATCGAATGGGTAACGAGG
Found at i:109927251 original size:87 final size:86
Alignment explanation
Indices: 109926984--109927428 Score: 237
Period size: 87 Copynumber: 5.1 Consensus size: 86
109926974 TACCTTAGGA
* *
109926984 AGATAAGACTCAATCTTCAACCCGCTCTCTTGCTACCTCAGAGAGATAAGGTTTGGGGCTTAAAT
1 AGATAAGACTCAATCTTCAACCTGCTCT-TTGCTACCTCAGAGAGATAAGGCTTGGGGCTTAAAT
* *
109927049 TTGCTCCATTGCTGATACATGG
65 CTGCTCCATTGCTAATACATGG
* * * * * * * * ****
109927071 AGATAAGATTCACCATCTTCGATCTGCTC--CGCTACTGTTTAGGGAGATAAGATCTTCAATCTT
1 AGATAAGACTCA--ATCTTCAACCTGCTCTTTGCTAC--CTCAGAGAGATAAG-GCTTGGGGCTT
* * * *
109927134 AAGTCTGCTTCTTTGCTACCT-CA-GG
61 AAATCTGCTCCATTGCTA-ATACATGG
*
109927159 AAGATAAAACTCAATCTTCAACCTGCTCTTTTGCTACCTCAGAGAGATAAGGCTTGGGGCTTAAA
1 -AGATAAGACTCAATCTTCAACCTGCTC-TTTGCTACCTCAGAGAGATAAGGCTTGGGGCTTAAA
*
109927224 TCTGCTCCATTGCCAATACATGG
64 TCTGCTCCATTGCTAATACATGG
* * * * * * * * * ****
109927247 AGATAAGATTCGCCATCTTCGATCTACTC--GGCTACTGTTTA-AG-GATAAGATCTTCAATCTT
1 AGATAAGA--CTCAATCTTCAACCTGCTCTTTGCTAC--CTCAGAGAGATAAG-GCTTGGGGCTT
* * *
109927308 CAGTCTGCTTCC-TTGCTACCT-CA-GG
61 AAATCTGC-TCCATTGCTA-ATACATGG
* * * * * *
109927333 AAGATATGACTCAATTTTCAACCTACTCTCTTACTACCCCAGAGAGATAAGACTTGGGGCTTAAA
1 -AGATAAGACTCAATCTTCAACCTGCTCT-TTGCTACCTCAGAGAGATAAGGCTTGGGGCTTAAA
* *
109927398 TCTGCTCTATTGCCAATACATGG
64 TCTGCTCCATTGCTAATACATGG
109927421 AGATAAGA
1 AGATAAGA
109927429 TTCGCCATCT
Statistics
Matches: 252, Mismatches: 78, Indels: 56
0.65 0.20 0.15
Matches are distributed among these distances:
85 14 0.06
86 23 0.09
87 109 0.43
88 44 0.17
89 56 0.22
90 6 0.02
ACGTcount: A:0.27, C:0.24, G:0.18, T:0.31
Consensus pattern (86 bp):
AGATAAGACTCAATCTTCAACCTGCTCTTTGCTACCTCAGAGAGATAAGGCTTGGGGCTTAAATC
TGCTCCATTGCTAATACATGG
Found at i:109927391 original size:174 final size:176
Alignment explanation
Indices: 109926781--109927450 Score: 916
Period size: 176 Copynumber: 3.8 Consensus size: 176
109926771 CTACAATCAA
* * ** * * * *
109926781 TCTGTTTCCTTGTTACCTTGGGAAGATAAGACTACAAT-TGCCAATCTGCTCTTTTGCTTCCTCA
1 TCTGCTTCCTTGCTACCTCAGGAAGATAAGACT-CAATCT-TCAACCTGCTCTCTTGCTACCTCA
* * * ** * *
109926845 AAAAGATAAGGCCAGTGGTACTTTAAATCTGCTCTATTGCCGATACATGGAGATAAGATTCACCA
64 GAGAGATAAGG-C-TTGGGGC-TTAAATCTGCTCCATTGCCAATACATGGAGATAAGATTCACCA
*
109926910 TCTTCGATCTGCTCCGCTACTATTTAGGGAGATAAGATCTTCAAT-TCTCAG
126 TCTTCGATCTGCTCCGCTACTGTTTAGGGAGATAAGATCTTCAATCT-TCAG
* *
109926961 TCTGCTTCCTTGCTACCTTAGGAAGATAAGACTCAATCTTCAACCCGCTCTCTTGCTACCTCAGA
1 TCTGCTTCCTTGCTACCTCAGGAAGATAAGACTCAATCTTCAACCTGCTCTCTTGCTACCTCAGA
* * **
109927026 GAGATAAGGTTTGGGGCTTAAATTTGCTCCATTGCTGATACATGGAGATAAGATTCACCATCTTC
66 GAGATAAGGCTTGGGGCTTAAATCTGCTCCATTGCCAATACATGGAGATAAGATTCACCATCTTC
*
109927091 GATCTGCTCCGCTACTGTTTAGGGAGATAAGATCTTCAATCTTAAG
131 GATCTGCTCCGCTACTGTTTAGGGAGATAAGATCTTCAATCTTCAG
* * *
109927137 TCTGCTTCTTTGCTACCTCAGGAAGATAAAACTCAATCTTCAACCTGCTCTTTTGCTACCTCAGA
1 TCTGCTTCCTTGCTACCTCAGGAAGATAAGACTCAATCTTCAACCTGCTCTCTTGCTACCTCAGA
*
109927202 GAGATAAGGCTTGGGGCTTAAATCTGCTCCATTGCCAATACATGGAGATAAGATTCGCCATCTTC
66 GAGATAAGGCTTGGGGCTTAAATCTGCTCCATTGCCAATACATGGAGATAAGATTCACCATCTTC
* * *
109927267 GATCTACTCGGCTACTGTTTA-AG-GATAAGATCTTCAATCTTCAG
131 GATCTGCTCCGCTACTGTTTAGGGAGATAAGATCTTCAATCTTCAG
* * * * *
109927311 TCTGCTTCCTTGCTACCTCAGGAAGATATGACTCAATTTTCAACCTACTCTCTTACTACCCCAGA
1 TCTGCTTCCTTGCTACCTCAGGAAGATAAGACTCAATCTTCAACCTGCTCTCTTGCTACCTCAGA
* * *
109927376 GAGATAAGACTTGGGGCTTAAATCTGCTCTATTGCCAATACATGGAGATAAGATTCGCCATCTTC
66 GAGATAAGGCTTGGGGCTTAAATCTGCTCCATTGCCAATACATGGAGATAAGATTCACCATCTTC
109927441 GATCTGCTCC
131 GATCTGCTCC
109927451 ACTGCAACTT
Statistics
Matches: 443, Mismatches: 45, Indels: 10
0.89 0.09 0.02
Matches are distributed among these distances:
174 148 0.33
175 1 0.00
176 226 0.51
177 5 0.01
179 32 0.07
180 31 0.07
ACGTcount: A:0.26, C:0.24, G:0.18, T:0.32
Consensus pattern (176 bp):
TCTGCTTCCTTGCTACCTCAGGAAGATAAGACTCAATCTTCAACCTGCTCTCTTGCTACCTCAGA
GAGATAAGGCTTGGGGCTTAAATCTGCTCCATTGCCAATACATGGAGATAAGATTCACCATCTTC
GATCTGCTCCGCTACTGTTTAGGGAGATAAGATCTTCAATCTTCAG
Found at i:109952553 original size:24 final size:24
Alignment explanation
Indices: 109952506--109952555 Score: 82
Period size: 24 Copynumber: 2.1 Consensus size: 24
109952496 CCGTTTCTCG
**
109952506 CTCTTTTTACTCTCTTATGTTCAC
1 CTCTTTTTACTCTCTTATCCTCAC
109952530 CTCTTTTTACTCTCTTATCCTCAC
1 CTCTTTTTACTCTCTTATCCTCAC
109952554 CT
1 CT
109952556 AAGTATAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.12, C:0.34, G:0.02, T:0.52
Consensus pattern (24 bp):
CTCTTTTTACTCTCTTATCCTCAC
Found at i:109953440 original size:18 final size:18
Alignment explanation
Indices: 109953403--109953441 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
109953393 CTCAAAAGAC
* *
109953403 TTTATATCTTTTTGGAAT
1 TTTAAATCTTTTAGGAAT
*
109953421 TTTAAATCTTTTAGGGAT
1 TTTAAATCTTTTAGGAAT
109953439 TTT
1 TTT
109953442 CATATAAATT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.23, C:0.05, G:0.13, T:0.59
Consensus pattern (18 bp):
TTTAAATCTTTTAGGAAT
Found at i:109953660 original size:40 final size:41
Alignment explanation
Indices: 109953593--109953699 Score: 139
Period size: 40 Copynumber: 2.7 Consensus size: 41
109953583 CGTTTGAACA
109953593 AAAAACGCCGCTAAAAATCAAGCATTAGCGGCG-CTTTAGG
1 AAAAACGCCGCTAAAAATCAAGCATTAGCGGCGTCTTTAGG
* * * * *
109953633 AAAAACGCCGCTAAAGATCCAGTATTAGCGGCGTTTTTTGG
1 AAAAACGCCGCTAAAAATCAAGCATTAGCGGCGTCTTTAGG
*
109953674 -AAAACGCCGCTAAAAATGAA-CATTAG
1 AAAAACGCCGCTAAAAATCAAGCATTAG
109953700 TGGCATTTTT
Statistics
Matches: 57, Mismatches: 9, Indels: 3
0.83 0.13 0.04
Matches are distributed among these distances:
39 5 0.09
40 47 0.82
41 5 0.09
ACGTcount: A:0.37, C:0.21, G:0.21, T:0.21
Consensus pattern (41 bp):
AAAAACGCCGCTAAAAATCAAGCATTAGCGGCGTCTTTAGG
Found at i:109953831 original size:41 final size:41
Alignment explanation
Indices: 109953766--109953957 Score: 237
Period size: 41 Copynumber: 4.7 Consensus size: 41
109953756 TTTTTCAGGG
* * *
109953766 CTTTAGCGGCGTTTTTCGAAAAGCGCTGCTAATGCTCGGGT
1 CTTTAGCGGCATTTTTGGAAAAGCGCCGCTAATGCTCGGGT
*
109953807 CTTTAGCGGCATTTTTGGAGAAGCGCCGCTAATGCTCGGGT
1 CTTTAGCGGCATTTTTGGAAAAGCGCCGCTAATGCTCGGGT
*
109953848 CTTTAGCGGCATTTTT-GAAGAAGCGCCGCTAATGCTCTGGT
1 CTTTAGCGGCATTTTTGGAA-AAGCGCCGCTAATGCTCGGGT
* **
109953889 CTTTAGCGGCGTTTTT-GATAAAGCGCCGCTAATGCTC-TAT
1 CTTTAGCGGCATTTTTGGA-AAAGCGCCGCTAATGCTCGGGT
* * **
109953929 TTTTAGCGGCGTTTTTTAAAAAGCGCCGC
1 CTTTAGCGGCATTTTTGGAAAAGCGCCGC
109953958 AAAAAATATT
Statistics
Matches: 137, Mismatches: 11, Indels: 7
0.88 0.07 0.05
Matches are distributed among these distances:
40 28 0.20
41 108 0.79
42 1 0.01
ACGTcount: A:0.19, C:0.22, G:0.27, T:0.32
Consensus pattern (41 bp):
CTTTAGCGGCATTTTTGGAAAAGCGCCGCTAATGCTCGGGT
Found at i:109955056 original size:21 final size:20
Alignment explanation
Indices: 109955022--109955124 Score: 59
Period size: 21 Copynumber: 5.0 Consensus size: 20
109955012 TATAGATTTA
*
109955022 GGGATTATGGTTTAAGGGTT
1 GGGATTAAGGTTTAAGGGTT
*
109955042 GGGATTTAAGGTTTAGGGGTT
1 GGGA-TTAAGGTTTAAGGGTT
** * *
109955063 ATGAGTTAGGGATT-AGGAGTT
1 GGGA-TTAAGGTTTAAGG-GTT
* *
109955084 AGGGATTTAGGGTTTTAAGGGTC
1 -GGGA-TTAAGG-TTTAAGGGTT
109955107 GGG-TTAAGGTTT-AGGGTT
1 GGGATTAAGGTTTAAGGGTT
109955125 TAGATTAATT
Statistics
Matches: 63, Mismatches: 15, Indels: 12
0.70 0.17 0.13
Matches are distributed among these distances:
18 5 0.08
19 3 0.05
20 11 0.17
21 26 0.41
22 11 0.17
23 4 0.06
24 3 0.05
ACGTcount: A:0.21, C:0.01, G:0.41, T:0.37
Consensus pattern (20 bp):
GGGATTAAGGTTTAAGGGTT
Found at i:109955071 original size:14 final size:14
Alignment explanation
Indices: 109955054--109955090 Score: 56
Period size: 14 Copynumber: 2.6 Consensus size: 14
109955044 GATTTAAGGT
* *
109955054 TTAGGGGTTATGAG
1 TTAGGGATTAGGAG
109955068 TTAGGGATTAGGAG
1 TTAGGGATTAGGAG
109955082 TTAGGGATT
1 TTAGGGATT
109955091 TAGGGTTTTA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.24, C:0.00, G:0.41, T:0.35
Consensus pattern (14 bp):
TTAGGGATTAGGAG
Found at i:109958537 original size:43 final size:43
Alignment explanation
Indices: 109958484--109958646 Score: 229
Period size: 43 Copynumber: 3.8 Consensus size: 43
109958474 AAGATATATT
* * *
109958484 TTTAGTGGCGTTTGTTTG-AAAAGCGCCGCTAAAAGCCATGGTC
1 TTTAGTGGCGTTTG-TGGAAAAAGCGCCGCTAAAGGTCATGGTC
* * *
109958527 TTTAGCGGCGTTTGTGGTAAAAGCGCCGCTAAAGGTCATGGTT
1 TTTAGTGGCGTTTGTGGAAAAAGCGCCGCTAAAGGTCATGGTC
* * *
109958570 TTTAGTGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCTTAGTC
1 TTTAGTGGCGTTTGTGGAAAAAGCGCCGCTAAAGGTCATGGTC
109958613 TTTAGTGGCGTTTGTGGAAAAAGCGCCGCTAAAG
1 TTTAGTGGCGTTTGTGGAAAAAGCGCCGCTAAAG
109958647 TTAGCGACGC
Statistics
Matches: 108, Mismatches: 11, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
42 2 0.02
43 106 0.98
ACGTcount: A:0.23, C:0.17, G:0.31, T:0.29
Consensus pattern (43 bp):
TTTAGTGGCGTTTGTGGAAAAAGCGCCGCTAAAGGTCATGGTC
Found at i:109958627 original size:86 final size:86
Alignment explanation
Indices: 109958482--109958646 Score: 258
Period size: 86 Copynumber: 1.9 Consensus size: 86
109958472 AAAAGATATA
** * *
109958482 TTTTTAGTGGCGTTTGTTTGAAAAGCGCCGCTAAAAGCCATGGTCTTTAGCGGCGTTTGTGGTAA
1 TTTTTAGTGGCGTTTGTGGGAAAAGCGCCGCTAAAAGCCATAGTCTTTAGCGGCGTTTGTGGAAA
109958547 AAGCGCCGCTAAAGGTCATGG
66 AAGCGCCGCTAAAGGTCATGG
* * * *
109958568 TTTTTAGTGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCTTAGTCTTTAGTGGCGTTTGTGGAAA
1 TTTTTAGTGGCGTTTGTGGGAAAAGCGCCGCTAAAAGCCATAGTCTTTAGCGGCGTTTGTGGAAA
109958633 AAGCGCCGCTAAAG
66 AAGCGCCGCTAAAG
109958647 TTAGCGACGC
Statistics
Matches: 71, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
86 71 1.00
ACGTcount: A:0.22, C:0.16, G:0.31, T:0.30
Consensus pattern (86 bp):
TTTTTAGTGGCGTTTGTGGGAAAAGCGCCGCTAAAAGCCATAGTCTTTAGCGGCGTTTGTGGAAA
AAGCGCCGCTAAAGGTCATGG
Found at i:109958746 original size:22 final size:22
Alignment explanation
Indices: 109958718--109958761 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
109958708 TAGTGGCGCT
* *
109958718 AAAAAGCGTCGCTAAAGGCCTA
1 AAAAAGCGCCGCTAAAAGCCTA
109958740 AAAAAGCGCCGCTAAAAGCCTA
1 AAAAAGCGCCGCTAAAAGCCTA
109958762 TTTTGGTGTA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.43, C:0.25, G:0.20, T:0.11
Consensus pattern (22 bp):
AAAAAGCGCCGCTAAAAGCCTA
Found at i:109961723 original size:32 final size:32
Alignment explanation
Indices: 109961687--109961751 Score: 130
Period size: 32 Copynumber: 2.0 Consensus size: 32
109961677 AATAAGGAAA
109961687 TAAAGTGACAAAAAGGGAAATTTTGAGTTTTG
1 TAAAGTGACAAAAAGGGAAATTTTGAGTTTTG
109961719 TAAAGTGACAAAAAGGGAAATTTTGAGTTTTG
1 TAAAGTGACAAAAAGGGAAATTTTGAGTTTTG
109961751 T
1 T
109961752 CAATATTGGG
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 33 1.00
ACGTcount: A:0.40, C:0.03, G:0.25, T:0.32
Consensus pattern (32 bp):
TAAAGTGACAAAAAGGGAAATTTTGAGTTTTG
Found at i:109964050 original size:46 final size:46
Alignment explanation
Indices: 109964000--109964262 Score: 422
Period size: 46 Copynumber: 5.7 Consensus size: 46
109963990 GTGTGCTCTC
*
109964000 TGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAATC-
1 TGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAA-CG
* *
109964046 TGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACC
1 TGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACG
*
109964092 TGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACG
1 TGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACG
*
109964138 TGATATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACG
1 TGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACG
* *
109964184 TGATATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACA
1 TGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACG
*
109964230 TGATA-GAAAATGAGTAAGACCATAGTTGAAAGA
1 TGATATG-AAATGAGTAAGACCATGGTTGAAAGA
109964263 CACTATAACA
Statistics
Matches: 209, Mismatches: 6, Indels: 4
0.95 0.03 0.02
Matches are distributed among these distances:
45 2 0.01
46 207 0.99
ACGTcount: A:0.40, C:0.13, G:0.24, T:0.23
Consensus pattern (46 bp):
TGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACG
Found at i:109964579 original size:16 final size:17
Alignment explanation
Indices: 109964558--109964590 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
109964548 ATGATGGAGC
109964558 ATGAAAT-ATTGATATA
1 ATGAAATGATTGATATA
109964574 ATGAAATGATTGATATA
1 ATGAAATGATTGATATA
109964591 TACTTATGAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 7 0.44
17 9 0.56
ACGTcount: A:0.48, C:0.00, G:0.15, T:0.36
Consensus pattern (17 bp):
ATGAAATGATTGATATA
Found at i:109966376 original size:13 final size:13
Alignment explanation
Indices: 109966358--109966423 Score: 80
Period size: 13 Copynumber: 5.1 Consensus size: 13
109966348 AGTTTGGCAA
*
109966358 TGCTTTTAAAAAG
1 TGCTTTTGAAAAG
*
109966371 TGCTTTTGAAAAA
1 TGCTTTTGAAAAG
*
109966384 TG-TTGTGGAAAAG
1 TGCTT-TTGAAAAG
*
109966397 TACTTTTGAAAAG
1 TGCTTTTGAAAAG
109966410 TGCTTTTGAAAAG
1 TGCTTTTGAAAAG
109966423 T
1 T
109966424 TTAATTTAAA
Statistics
Matches: 44, Mismatches: 7, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
12 2 0.05
13 40 0.91
14 2 0.05
ACGTcount: A:0.35, C:0.06, G:0.21, T:0.38
Consensus pattern (13 bp):
TGCTTTTGAAAAG
Found at i:109975064 original size:25 final size:24
Alignment explanation
Indices: 109975013--109975069 Score: 62
Period size: 25 Copynumber: 2.3 Consensus size: 24
109975003 TACATAACGG
* * *
109975013 GAAGCTCTTACGAGCCAATTATCA
1 GAAGCTCATACGAGCCAATAAACA
109975037 GAAAGCTCATACGAGCC-ATAAACGA
1 G-AAGCTCATACGAGCCAATAAAC-A
109975062 GAAGCTCA
1 GAAGCTCA
109975070 AGAGAGCCAA
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
24 12 0.43
25 16 0.57
ACGTcount: A:0.39, C:0.25, G:0.19, T:0.18
Consensus pattern (24 bp):
GAAGCTCATACGAGCCAATAAACA
Found at i:109975076 original size:24 final size:24
Alignment explanation
Indices: 109975063--109975113 Score: 75
Period size: 24 Copynumber: 2.1 Consensus size: 24
109975053 CATAAACGAG
*
109975063 AAGCTCAAGAGAGCCAAATTCAAA
1 AAGCTCAAGAGAGCCAAATACAAA
* *
109975087 AAGCTCAAGAGAGCTAAATTCAAA
1 AAGCTCAAGAGAGCCAAATACAAA
109975111 AAG
1 AAG
109975114 TTCATACAGG
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.51, C:0.18, G:0.18, T:0.14
Consensus pattern (24 bp):
AAGCTCAAGAGAGCCAAATACAAA
Found at i:109978230 original size:14 final size:14
Alignment explanation
Indices: 109978208--109978249 Score: 57
Period size: 14 Copynumber: 2.9 Consensus size: 14
109978198 AGTCTTCAAT
109978208 TATAGTAAATATAA
1 TATAGTAAATATAA
* *
109978222 TATAATAAATAAAA
1 TATAGTAAATATAA
109978236 TATAGTAAAATATA
1 TATAGT-AAATATA
109978250 CCTGAAGATC
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
14 17 0.74
15 6 0.26
ACGTcount: A:0.62, C:0.00, G:0.05, T:0.33
Consensus pattern (14 bp):
TATAGTAAATATAA
Found at i:109981617 original size:7 final size:7
Alignment explanation
Indices: 109981605--109981633 Score: 58
Period size: 7 Copynumber: 4.1 Consensus size: 7
109981595 GATTCGGCAC
109981605 CTAAATT
1 CTAAATT
109981612 CTAAATT
1 CTAAATT
109981619 CTAAATT
1 CTAAATT
109981626 CTAAATT
1 CTAAATT
109981633 C
1 C
109981634 GAGTCTCATT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 22 1.00
ACGTcount: A:0.41, C:0.17, G:0.00, T:0.41
Consensus pattern (7 bp):
CTAAATT
Found at i:109985465 original size:3 final size:3
Alignment explanation
Indices: 109985393--109985456 Score: 119
Period size: 3 Copynumber: 21.3 Consensus size: 3
109985383 GTACTTTTGC
109985393 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
*
109985441 TAT TAT TAT TAG TAT T
1 TAT TAT TAT TAT TAT T
109985457 GGTATTATTG
Statistics
Matches: 59, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
3 59 1.00
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.66
Consensus pattern (3 bp):
TAT
Found at i:109985666 original size:36 final size:36
Alignment explanation
Indices: 109985587--109985666 Score: 92
Period size: 36 Copynumber: 2.2 Consensus size: 36
109985577 AATTTGTTTA
* *
109985587 ATATATATACGTATACTCATATTTCTTTTTATATAT
1 ATATATATACATATACTCATATTTATTTTTATATAT
* *
109985623 ATCTATATACATATACAT-ATTTTTATTTTTATA-AGT
1 ATATATATACATATAC-TCATATTTATTTTTATATA-T
109985659 ATATATAT
1 ATATATAT
109985667 TTATATGTAT
Statistics
Matches: 37, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
35 1 0.03
36 35 0.95
37 1 0.03
ACGTcount: A:0.36, C:0.09, G:0.03, T:0.53
Consensus pattern (36 bp):
ATATATATACATATACTCATATTTATTTTTATATAT
Found at i:109985912 original size:18 final size:18
Alignment explanation
Indices: 109985889--109985925 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
109985879 TATACACCTA
*
109985889 TATATATGTACATATTTT
1 TATATATATACATATTTT
*
109985907 TATATATATGCATATTTT
1 TATATATATACATATTTT
109985925 T
1 T
109985926 CTTCTTTATA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.32, C:0.05, G:0.05, T:0.57
Consensus pattern (18 bp):
TATATATATACATATTTT
Found at i:109985912 original size:20 final size:18
Alignment explanation
Indices: 109985887--109985925 Score: 60
Period size: 20 Copynumber: 2.1 Consensus size: 18
109985877 TTTATACACC
109985887 TATATATATGTACATATTTT
1 TATATATATG--CATATTTT
109985907 TATATATATGCATATTTT
1 TATATATATGCATATTTT
109985925 T
1 T
109985926 CTTCTTTATA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 9 0.47
20 10 0.53
ACGTcount: A:0.33, C:0.05, G:0.05, T:0.56
Consensus pattern (18 bp):
TATATATATGCATATTTT
Found at i:109998621 original size:38 final size:42
Alignment explanation
Indices: 109998561--109998660 Score: 111
Period size: 44 Copynumber: 2.5 Consensus size: 42
109998551 ATAGTAATCC
* * *
109998561 TATCTCCTTGA-GTTACAATGGAGCGGATT-AA-AG-G-TCT
1 TATCTCCCTGAGGTTACAGTGGAGCAGATTGAACAGAGATCT
109998598 TATCTCCCTGAGGTTACAGTGGAGCAGATTGAAGCCAGAGATCT
1 TATCTCCCTGAGGTTACAGTGGAGCAGATTGAA--CAGAGATCT
*
109998642 TATCTCCCTGAGATTACAG
1 TATCTCCCTGAGGTTACAG
109998661 CGGCAGATCG
Statistics
Matches: 52, Mismatches: 4, Indels: 7
0.83 0.06 0.11
Matches are distributed among these distances:
37 10 0.19
38 16 0.31
39 2 0.04
42 2 0.04
43 1 0.02
44 21 0.40
ACGTcount: A:0.27, C:0.20, G:0.24, T:0.29
Consensus pattern (42 bp):
TATCTCCCTGAGGTTACAGTGGAGCAGATTGAACAGAGATCT
Found at i:109998699 original size:124 final size:127
Alignment explanation
Indices: 109998512--109998746 Score: 302
Period size: 124 Copynumber: 1.9 Consensus size: 127
109998502 AAGAATTGTC
* * * *
109998512 AGATCTTATCTCCTTGAGATTACAGCGGCAGATCAACAGATAGTAATCCTATCTCCTTGAGTTAC
1 AGATCTTATCTCCCTGAGATTACAGCGGCAGATCAACAGACACTAATCCTATCTCCCTGAGTTAC
109998577 AATGGAGCGGA-T-TAAAGG-TCTTATCTCCCTGAGGTTACAGTGGAGCAGATTGAAGCCAG
66 AATGGAGCGGATTATAAAGGATCTTATCTCCCTGAGGTTACAGTGGAGCAGATTGAAGCCAG
*
109998636 AGATCTTATCTCCCTGAGATTACAGCGGCAGATCGA-AGACACCT-AT-CTATCTTCCCTGAAGT
1 AGATCTTATCTCCCTGAGATTACAGCGGCAGATCAACAGACA-CTAATCCTATC-TCCCTG-AGT
* * *
109998698 TACAGTGGAGTGGATTTAAATAAAGGATCTTATCTCTCTGAGGTTACAG
63 TACAATGGAGCGGA-TT--ATAAAGGATCTTATCTCCCTGAGGTTACAG
109998747 CAGAGTAGTC
Statistics
Matches: 94, Mismatches: 8, Indels: 12
0.82 0.07 0.11
Matches are distributed among these distances:
122 5 0.05
123 11 0.12
124 50 0.53
126 1 0.01
129 6 0.06
130 21 0.22
ACGTcount: A:0.29, C:0.20, G:0.22, T:0.29
Consensus pattern (127 bp):
AGATCTTATCTCCCTGAGATTACAGCGGCAGATCAACAGACACTAATCCTATCTCCCTGAGTTAC
AATGGAGCGGATTATAAAGGATCTTATCTCCCTGAGGTTACAGTGGAGCAGATTGAAGCCAG
Found at i:109998967 original size:44 final size:46
Alignment explanation
Indices: 109998917--109999004 Score: 126
Period size: 44 Copynumber: 2.0 Consensus size: 46
109998907 AAGTACAACA
** *
109998917 GAATGGATTGAAGTTACAAGTCATATCTC-TC-TGAAGTTGCAGTG
1 GAATGGATTGAAGCCACAAGTCATATCTCTTCTTGAAATTGCAGTG
*
109998961 GAATGGATTGAAGCCACAAGTTATATCTCTTCTTGAAATTGCAG
1 GAATGGATTGAAGCCACAAGTCATATCTCTTCTTGAAATTGCAG
109999005 AGGAGAGGAT
Statistics
Matches: 38, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
44 26 0.68
45 2 0.05
46 10 0.26
ACGTcount: A:0.31, C:0.15, G:0.23, T:0.32
Consensus pattern (46 bp):
GAATGGATTGAAGCCACAAGTCATATCTCTTCTTGAAATTGCAGTG
Found at i:109999026 original size:46 final size:44
Alignment explanation
Indices: 109998917--109999026 Score: 105
Period size: 44 Copynumber: 2.5 Consensus size: 44
109998907 AAGTACAACA
* ** * *
109998917 GAATGGATTGAAGTTACAAGTCATATCTCTCTGAAGTTGCAGTG
1 GAATGGATCGAAGCAACAAGTCATATCTCTCTGAAATTGCAGAG
* * *
109998961 GAATGGATTGAAGCCACAAGTTATATCTCTTCTTGAAATTGCAGAG
1 GAATGGATCGAAGCAACAAGTCATATCTC-TC-TGAAATTGCAGAG
*
109999007 GAGA-GGATCGACGCAACAAG
1 GA-ATGGATCGAAGCAACAAG
109999027 ACAAAGTGGA
Statistics
Matches: 55, Mismatches: 8, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
44 26 0.47
45 2 0.04
46 26 0.47
47 1 0.02
ACGTcount: A:0.33, C:0.15, G:0.25, T:0.26
Consensus pattern (44 bp):
GAATGGATCGAAGCAACAAGTCATATCTCTCTGAAATTGCAGAG
Found at i:110000314 original size:3 final size:3
Alignment explanation
Indices: 110000252--110000305 Score: 60
Period size: 3 Copynumber: 18.7 Consensus size: 3
110000242 TGCTATTTTT
*
110000252 TTA TTA TTTA TTA TTA TTA TTA TTA -TA TTA TTA TCA TT- TTA -TA
1 TTA TTA -TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
*
110000295 TTA TTA GTA TT
1 TTA TTA TTA TT
110000306 GGTATTATTG
Statistics
Matches: 43, Mismatches: 4, Indels: 8
0.78 0.07 0.15
Matches are distributed among these distances:
2 6 0.14
3 34 0.79
4 3 0.07
ACGTcount: A:0.31, C:0.02, G:0.02, T:0.65
Consensus pattern (3 bp):
TTA
Found at i:110000758 original size:17 final size:17
Alignment explanation
Indices: 110000736--110000770 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
110000726 TATACACCTA
*
110000736 TATATATGTACATATTT
1 TATATATATACATATTT
*
110000753 TATATATATGCATATTT
1 TATATATATACATATTT
110000770 T
1 T
110000771 TTCTTCTTTA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.34, C:0.06, G:0.06, T:0.54
Consensus pattern (17 bp):
TATATATATACATATTT
Found at i:110000758 original size:19 final size:17
Alignment explanation
Indices: 110000734--110000770 Score: 56
Period size: 19 Copynumber: 2.1 Consensus size: 17
110000724 TTTATACACC
110000734 TATATATATGTACATATTT
1 TATATATATG--CATATTT
110000753 TATATATATGCATATTT
1 TATATATATGCATATTT
110000770 T
1 T
110000771 TTCTTCTTTA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 8 0.44
19 10 0.56
ACGTcount: A:0.35, C:0.05, G:0.05, T:0.54
Consensus pattern (17 bp):
TATATATATGCATATTT
Found at i:110001919 original size:40 final size:40
Alignment explanation
Indices: 110001864--110001944 Score: 162
Period size: 40 Copynumber: 2.0 Consensus size: 40
110001854 TCATTCCCGC
110001864 TAGGAAATCCCATTCAACTCGATCGTATGCCTTACTCATA
1 TAGGAAATCCCATTCAACTCGATCGTATGCCTTACTCATA
110001904 TAGGAAATCCCATTCAACTCGATCGTATGCCTTACTCATA
1 TAGGAAATCCCATTCAACTCGATCGTATGCCTTACTCATA
110001944 T
1 T
110001945 CGAGTTTTAG
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 41 1.00
ACGTcount: A:0.30, C:0.27, G:0.12, T:0.31
Consensus pattern (40 bp):
TAGGAAATCCCATTCAACTCGATCGTATGCCTTACTCATA
Found at i:110007071 original size:33 final size:33
Alignment explanation
Indices: 110007033--110007100 Score: 127
Period size: 33 Copynumber: 2.1 Consensus size: 33
110007023 AAGAAGTATG
*
110007033 AAACAAAGAATTTCAACTATCTATCTATCATGA
1 AAACAAAGAATTTCAACCATCTATCTATCATGA
110007066 AAACAAAGAATTTCAACCATCTATCTATCATGA
1 AAACAAAGAATTTCAACCATCTATCTATCATGA
110007099 AA
1 AA
110007101 GTCTGCACTA
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 34 1.00
ACGTcount: A:0.47, C:0.19, G:0.06, T:0.28
Consensus pattern (33 bp):
AAACAAAGAATTTCAACCATCTATCTATCATGA
Found at i:110012150 original size:3 final size:3
Alignment explanation
Indices: 110012135--110012178 Score: 63
Period size: 3 Copynumber: 14.7 Consensus size: 3
110012125 GTTATTTTCA
*
110012135 TAT TAT TGA- TAT TAT TAT TAT AAT TAT TAT TAT TAT TAT TAT TA
1 TAT TAT T-AT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
110012179 GTATGTACTT
Statistics
Matches: 37, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
2 1 0.03
3 35 0.95
4 1 0.03
ACGTcount: A:0.36, C:0.00, G:0.02, T:0.61
Consensus pattern (3 bp):
TAT
Found at i:110012806 original size:20 final size:21
Alignment explanation
Indices: 110012760--110012806 Score: 62
Period size: 20 Copynumber: 2.3 Consensus size: 21
110012750 ATTATATGTG
*
110012760 TATATATTATGTAAAATGTTT
1 TATATATTATATAAAATGTTT
*
110012781 TA-ATATTATAT-ATATGTTT
1 TATATATTATATAAAATGTTT
110012800 TATATAT
1 TATATAT
110012807 ATTATGAACA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
19 9 0.39
20 12 0.52
21 2 0.09
ACGTcount: A:0.38, C:0.00, G:0.06, T:0.55
Consensus pattern (21 bp):
TATATATTATATAAAATGTTT
Found at i:110012819 original size:22 final size:21
Alignment explanation
Indices: 110012760--110012833 Score: 57
Period size: 22 Copynumber: 3.5 Consensus size: 21
110012750 ATTATATGTG
110012760 TATATATTATGTAAAATG-TTT
1 TATATATTATG-AAAATGTTTT
*
110012781 TA-ATATTAT-ATATATGTTTT
1 TATATATTATGA-AAATGTTTT
*
110012801 ATATATATTATGAACATGTATTT
1 -TATATATTATGAAAATGT-TTT
110012824 TCA-ATATTAT
1 T-ATATATTAT
110012834 TAGTTAAATT
Statistics
Matches: 44, Mismatches: 2, Indels: 13
0.75 0.03 0.22
Matches are distributed among these distances:
18 1 0.02
19 4 0.09
20 10 0.23
21 4 0.09
22 20 0.45
23 5 0.11
ACGTcount: A:0.38, C:0.03, G:0.07, T:0.53
Consensus pattern (21 bp):
TATATATTATGAAAATGTTTT
Found at i:110016508 original size:24 final size:25
Alignment explanation
Indices: 110016469--110016519 Score: 77
Period size: 24 Copynumber: 2.1 Consensus size: 25
110016459 CAAACCTGCA
*
110016469 AAAATTGAATACAACTAAGTTAAAT
1 AAAATTGAATACAACTAAGTAAAAT
*
110016494 AAAATT-AATAGAACTAAGTAAAAT
1 AAAATTGAATACAACTAAGTAAAAT
110016518 AA
1 AA
110016520 CAAAACCAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
24 18 0.75
25 6 0.25
ACGTcount: A:0.61, C:0.06, G:0.08, T:0.25
Consensus pattern (25 bp):
AAAATTGAATACAACTAAGTAAAAT
Found at i:110017772 original size:43 final size:42
Alignment explanation
Indices: 110017701--110017794 Score: 138
Period size: 43 Copynumber: 2.2 Consensus size: 42
110017691 AAACTGAAGT
*
110017701 TTATCTTC-TCATTTTTTAAATTTTTTTTCAACAACCCAATA
1 TTATCTTCTTCATTTTTTAAATTTTTTTTCAACAACCCAAGA
*
110017742 TTATCTTCTTC-TATTTTTAAATTCTTTTTTCAACAACTCAAGA
1 TTATCTTCTTCAT-TTTTTAAATT-TTTTTTCAACAACCCAAGA
110017785 TTATCTTCTT
1 TTATCTTCTT
110017795 TTTAAATTAT
Statistics
Matches: 48, Mismatches: 2, Indels: 4
0.89 0.04 0.07
Matches are distributed among these distances:
41 9 0.19
42 12 0.25
43 27 0.56
ACGTcount: A:0.27, C:0.19, G:0.01, T:0.53
Consensus pattern (42 bp):
TTATCTTCTTCATTTTTTAAATTTTTTTTCAACAACCCAAGA
Found at i:110021256 original size:29 final size:29
Alignment explanation
Indices: 110021224--110021281 Score: 116
Period size: 29 Copynumber: 2.0 Consensus size: 29
110021214 ACTTATCGAT
110021224 TAATGCAATTGGATGATTTAATGGCCTAA
1 TAATGCAATTGGATGATTTAATGGCCTAA
110021253 TAATGCAATTGGATGATTTAATGGCCTAA
1 TAATGCAATTGGATGATTTAATGGCCTAA
110021282 GTAGAAAATG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.34, C:0.10, G:0.21, T:0.34
Consensus pattern (29 bp):
TAATGCAATTGGATGATTTAATGGCCTAA
Found at i:110028027 original size:3 final size:3
Alignment explanation
Indices: 110028015--110028046 Score: 50
Period size: 3 Copynumber: 11.3 Consensus size: 3
110028005 ATTTTTCTAA
110028015 TAT T-T TAT TAT TAT TAT TAT TAT TAT T-T TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
110028047 TTAAAAAAAT
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
2 4 0.15
3 23 0.85
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (3 bp):
TAT
Found at i:110033709 original size:13 final size:14
Alignment explanation
Indices: 110033673--110033710 Score: 67
Period size: 14 Copynumber: 2.7 Consensus size: 14
110033663 TTACAATTTT
110033673 CAAAATTTTTGATG
1 CAAAATTTTTGATG
*
110033687 TAAAATTTTTGATG
1 CAAAATTTTTGATG
110033701 CAAAATTTTT
1 CAAAATTTTT
110033711 CATTCAGAAC
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.37, C:0.05, G:0.11, T:0.47
Consensus pattern (14 bp):
CAAAATTTTTGATG
Found at i:110033872 original size:21 final size:18
Alignment explanation
Indices: 110033822--110033873 Score: 50
Period size: 21 Copynumber: 2.6 Consensus size: 18
110033812 AAATACCTTG
110033822 TTTTTCTTCTTCTTTTCC
1 TTTTTCTTCTTCTTTTCC
110033840 TTTCTTCCCTTCTTCTTTCTCTC
1 TTT-TT--CTTCTTCTTT-TC-C
110033863 TTTTTACTTCT
1 TTTTT-CTTCT
110033874 ACTAATTTTT
Statistics
Matches: 28, Mismatches: 1, Indels: 7
0.78 0.03 0.19
Matches are distributed among these distances:
18 3 0.11
19 2 0.07
21 15 0.54
22 4 0.14
23 4 0.14
ACGTcount: A:0.02, C:0.31, G:0.00, T:0.67
Consensus pattern (18 bp):
TTTTTCTTCTTCTTTTCC
Found at i:110034040 original size:27 final size:27
Alignment explanation
Indices: 110033983--110034040 Score: 73
Period size: 27 Copynumber: 2.1 Consensus size: 27
110033973 CCTACCTGAC
* *
110033983 AGGCGCGACATGTTGAGCTTGTCAGGT
1 AGGCGCGACATGTGGAGCTTCTCAGGT
*
110034010 AGGCGCGACATGTGGTGCCTTCTCAGG-
1 AGGCGCGACATGTGGAG-CTTCTCAGGT
110034037 AGGC
1 AGGC
110034041 TCAACCCGTA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
27 19 0.70
28 8 0.30
ACGTcount: A:0.17, C:0.22, G:0.38, T:0.22
Consensus pattern (27 bp):
AGGCGCGACATGTGGAGCTTCTCAGGT
Found at i:110035280 original size:19 final size:21
Alignment explanation
Indices: 110035258--110035302 Score: 53
Period size: 19 Copynumber: 2.3 Consensus size: 21
110035248 AATATATAAA
110035258 TATAAAATAATATT-AT-ATT
1 TATAAAATAATATTAATAATT
*
110035277 TAT--AATTATATTAATAATT
1 TATAAAATAATATTAATAATT
110035296 TATAAAA
1 TATAAAA
110035303 ATTTAATTAA
Statistics
Matches: 21, Mismatches: 1, Indels: 6
0.75 0.04 0.21
Matches are distributed among these distances:
17 8 0.38
18 2 0.10
19 9 0.43
21 2 0.10
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (21 bp):
TATAAAATAATATTAATAATT
Found at i:110035286 original size:25 final size:25
Alignment explanation
Indices: 110035252--110035299 Score: 62
Period size: 25 Copynumber: 1.9 Consensus size: 25
110035242 GTATATAATA
110035252 TATAAATATA-AAATAATATTATATT
1 TATAAATATATAAATAAT-TTATATT
* *
110035277 TATAATTATATTAATAATTTATA
1 TATAAATATATAAATAATTTATA
110035300 AAAATTTAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
25 14 0.70
26 6 0.30
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (25 bp):
TATAAATATATAAATAATTTATATT
Found at i:110044440 original size:14 final size:14
Alignment explanation
Indices: 110044421--110044447 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
110044411 TGGAACAAAC
110044421 TTTGTAATATAAAT
1 TTTGTAATATAAAT
110044435 TTTGTAATATAAA
1 TTTGTAATATAAA
110044448 CAAAATACAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.44, C:0.00, G:0.07, T:0.48
Consensus pattern (14 bp):
TTTGTAATATAAAT
Found at i:110052837 original size:113 final size:113
Alignment explanation
Indices: 110052639--110052866 Score: 456
Period size: 113 Copynumber: 2.0 Consensus size: 113
110052629 TTTCCTTTCT
110052639 CCATAAGAGATTATAAACTTCACGAAGTATATAACTAGATTCCAATAGGTTCGTGGTACCAATGT
1 CCATAAGAGATTATAAACTTCACGAAGTATATAACTAGATTCCAATAGGTTCGTGGTACCAATGT
110052704 CTTCCAAAGTTAGTCTAAAATGATTTGATGCTCCCGTTCTATTAATTC
66 CTTCCAAAGTTAGTCTAAAATGATTTGATGCTCCCGTTCTATTAATTC
110052752 CCATAAGAGATTATAAACTTCACGAAGTATATAACTAGATTCCAATAGGTTCGTGGTACCAATGT
1 CCATAAGAGATTATAAACTTCACGAAGTATATAACTAGATTCCAATAGGTTCGTGGTACCAATGT
110052817 CTTCCAAAGTTAGTCTAAAATGATTTGATGCTCCCGTTCTATTAATTC
66 CTTCCAAAGTTAGTCTAAAATGATTTGATGCTCCCGTTCTATTAATTC
110052865 CC
1 CC
110052867 TCTAAGGGTT
Statistics
Matches: 115, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
113 115 1.00
ACGTcount: A:0.32, C:0.19, G:0.15, T:0.33
Consensus pattern (113 bp):
CCATAAGAGATTATAAACTTCACGAAGTATATAACTAGATTCCAATAGGTTCGTGGTACCAATGT
CTTCCAAAGTTAGTCTAAAATGATTTGATGCTCCCGTTCTATTAATTC
Found at i:110053420 original size:12 final size:12
Alignment explanation
Indices: 110053400--110053431 Score: 55
Period size: 12 Copynumber: 2.7 Consensus size: 12
110053390 CTAGGCACAC
*
110053400 GTCCATGTGCCA
1 GTCCGTGTGCCA
110053412 GTCCGTGTGCCA
1 GTCCGTGTGCCA
110053424 GTCCGTGT
1 GTCCGTGT
110053432 TGATATCGCG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.09, C:0.31, G:0.31, T:0.28
Consensus pattern (12 bp):
GTCCGTGTGCCA
Found at i:110060441 original size:21 final size:20
Alignment explanation
Indices: 110060397--110060443 Score: 60
Period size: 20 Copynumber: 2.3 Consensus size: 20
110060387 GACTTAAAAT
*
110060397 AAATAACATATAACAATTTA
1 AAATAACATATAACAATCTA
110060417 AAATAACATATAA-AAGGTCTA
1 AAATAACATATAACAA--TCTA
110060438 AAATAA
1 AAATAA
110060444 ATAATATAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
19 2 0.08
20 13 0.54
21 9 0.38
ACGTcount: A:0.62, C:0.09, G:0.04, T:0.26
Consensus pattern (20 bp):
AAATAACATATAACAATCTA
Found at i:110060463 original size:24 final size:24
Alignment explanation
Indices: 110060436--110060490 Score: 74
Period size: 24 Copynumber: 2.3 Consensus size: 24
110060426 ATAAAAGGTC
110060436 TAAAATAAATAATATAAAAAAAAT
1 TAAAATAAATAATATAAAAAAAAT
* * *
110060460 TAAAGTAAATAATATACATAAAAT
1 TAAAATAAATAATATAAAAAAAAT
*
110060484 AAAAATA
1 TAAAATA
110060491 TTTTAATATA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.71, C:0.02, G:0.02, T:0.25
Consensus pattern (24 bp):
TAAAATAAATAATATAAAAAAAAT
Found at i:110060516 original size:15 final size:15
Alignment explanation
Indices: 110060496--110060526 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
110060486 AAATATTTTA
110060496 ATATAAATAATATAT
1 ATATAAATAATATAT
*
110060511 ATATAAATAATGTAT
1 ATATAAATAATATAT
110060526 A
1 A
110060527 AAGAGTTTAA
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:0.58, C:0.00, G:0.03, T:0.39
Consensus pattern (15 bp):
ATATAAATAATATAT
Found at i:110063428 original size:3 final size:3
Alignment explanation
Indices: 110063420--110063471 Score: 95
Period size: 3 Copynumber: 17.3 Consensus size: 3
110063410 TTCTTTCCCC
*
110063420 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAT TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
110063468 TAA T
1 TAA T
110063472 GCTACAACAT
Statistics
Matches: 47, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
3 47 1.00
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (3 bp):
TAA
Found at i:110065379 original size:26 final size:24
Alignment explanation
Indices: 110065346--110065393 Score: 69
Period size: 26 Copynumber: 1.9 Consensus size: 24
110065336 AATTAACCAA
110065346 ATTATATTATCTAAATATGTAATTTT
1 ATTATATTATCTAAA-AT-TAATTTT
*
110065372 ATTATATTATTTAAAATTAATT
1 ATTATATTATCTAAAATTAATT
110065394 AATATTTAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 5 0.24
25 2 0.10
26 14 0.67
ACGTcount: A:0.42, C:0.02, G:0.02, T:0.54
Consensus pattern (24 bp):
ATTATATTATCTAAAATTAATTTT
Found at i:110066729 original size:18 final size:18
Alignment explanation
Indices: 110066706--110066740 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
110066696 AATGTTTAAA
110066706 ATTTTATT-TTCTATTATT
1 ATTTTATTATT-TATTATT
110066724 ATTTTATTATTTATTAT
1 ATTTTATTATTTATTAT
110066741 ATTCCTACAG
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 14 0.88
19 2 0.12
ACGTcount: A:0.26, C:0.03, G:0.00, T:0.71
Consensus pattern (18 bp):
ATTTTATTATTTATTATT
Found at i:110072309 original size:30 final size:28
Alignment explanation
Indices: 110072275--110072342 Score: 66
Period size: 27 Copynumber: 2.4 Consensus size: 28
110072265 GGCACTCACA
*
110072275 TTTTATAAATAAATAAAAATTATTTTTCTT
1 TTTTATAAATAAATAAAAA--ATTTTTATT
* **
110072305 TTTTA-AAAAAAATTTAAAATTTTTATT
1 TTTTATAAATAAATAAAAAATTTTTATT
110072332 TTTTATCAAAT
1 TTTTAT-AAAT
110072343 CACTTCATAA
Statistics
Matches: 31, Mismatches: 5, Indels: 5
0.76 0.12 0.12
Matches are distributed among these distances:
27 13 0.42
29 13 0.42
30 5 0.16
ACGTcount: A:0.44, C:0.03, G:0.00, T:0.53
Consensus pattern (28 bp):
TTTTATAAATAAATAAAAAATTTTTATT
Found at i:110072483 original size:9 final size:9
Alignment explanation
Indices: 110072456--110072489 Score: 52
Period size: 9 Copynumber: 3.8 Consensus size: 9
110072446 AAAAAATATA
110072456 AAAATATTTT
1 AAAA-ATTTT
110072466 AAAAA-TTT
1 AAAAATTTT
110072474 AAAAATTTT
1 AAAAATTTT
110072483 AAAAATT
1 AAAAATT
110072490 ATTTTTTATA
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
8 8 0.35
9 11 0.48
10 4 0.17
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (9 bp):
AAAAATTTT
Found at i:110072483 original size:17 final size:18
Alignment explanation
Indices: 110072456--110072489 Score: 61
Period size: 17 Copynumber: 1.9 Consensus size: 18
110072446 AAAAAATATA
110072456 AAAATATTTTAAAAATTT
1 AAAATATTTTAAAAATTT
110072474 AAAA-ATTTTAAAAATT
1 AAAATATTTTAAAAATT
110072490 ATTTTTTATA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 12 0.75
18 4 0.25
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (18 bp):
AAAATATTTTAAAAATTT
Found at i:110072487 original size:29 final size:29
Alignment explanation
Indices: 110072455--110072519 Score: 78
Period size: 29 Copynumber: 2.2 Consensus size: 29
110072445 AAAAAAATAT
110072455 AAAAATA-TTTTAAAAATTTAAAAATTTTA
1 AAAAATATTTTTAAAAATTT-AAAATTTTA
* * * *
110072484 AAAATTATTTTTTATAATTTATAATTTTA
1 AAAAATATTTTTAAAAATTTAAAATTTTA
110072513 AAAAATA
1 AAAAATA
110072520 ATTAATTGCT
Statistics
Matches: 30, Mismatches: 5, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
29 20 0.67
30 10 0.33
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (29 bp):
AAAAATATTTTTAAAAATTTAAAATTTTA
Found at i:110074849 original size:10 final size:10
Alignment explanation
Indices: 110074836--110074865 Score: 51
Period size: 10 Copynumber: 3.0 Consensus size: 10
110074826 TAAAAATTAA
110074836 AAAAAAAAAG
1 AAAAAAAAAG
*
110074846 AAAAGAAAAG
1 AAAAAAAAAG
110074856 AAAAAAAAAG
1 AAAAAAAAAG
110074866 TCAACAAAAG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
10 18 1.00
ACGTcount: A:0.87, C:0.00, G:0.13, T:0.00
Consensus pattern (10 bp):
AAAAAAAAAG
Found at i:110074874 original size:20 final size:20
Alignment explanation
Indices: 110074836--110074875 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
110074826 TAAAAATTAA
*
110074836 AAAAAAAAAGAAAAGAAAAG
1 AAAAAAAAAGAAAACAAAAG
**
110074856 AAAAAAAAAGTCAACAAAAG
1 AAAAAAAAAGAAAACAAAAG
110074876 GATATGAAAT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.80, C:0.05, G:0.12, T:0.03
Consensus pattern (20 bp):
AAAAAAAAAGAAAACAAAAG
Found at i:110079490 original size:21 final size:20
Alignment explanation
Indices: 110079461--110079505 Score: 54
Period size: 21 Copynumber: 2.2 Consensus size: 20
110079451 TCAGGGATGG
* *
110079461 GAGGGGGAGGGGGAGGGGGT
1 GAGGGGGAGGAGGAGGAGGT
*
110079481 GAGGGAGGAGGAGGTGGAGGT
1 GAGGG-GGAGGAGGAGGAGGT
110079502 GAGG
1 GAGG
110079506 AGATAGAGAG
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
20 5 0.24
21 16 0.76
ACGTcount: A:0.20, C:0.00, G:0.73, T:0.07
Consensus pattern (20 bp):
GAGGGGGAGGAGGAGGAGGT
Found at i:110082586 original size:19 final size:19
Alignment explanation
Indices: 110082564--110082602 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
110082554 CAAAATAAAG
110082564 TAGGAAATGAAAAAAATAT
1 TAGGAAATGAAAAAAATAT
110082583 TAGGAAATGAAAAAAATAT
1 TAGGAAATGAAAAAAATAT
110082602 T
1 T
110082603 CACTGCAAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.62, C:0.00, G:0.15, T:0.23
Consensus pattern (19 bp):
TAGGAAATGAAAAAAATAT
Found at i:110084155 original size:28 final size:28
Alignment explanation
Indices: 110084124--110084180 Score: 114
Period size: 28 Copynumber: 2.0 Consensus size: 28
110084114 AAATAAACAA
110084124 AGAGATAAAACAGTACTGAAATATACTT
1 AGAGATAAAACAGTACTGAAATATACTT
110084152 AGAGATAAAACAGTACTGAAATATACTT
1 AGAGATAAAACAGTACTGAAATATACTT
110084180 A
1 A
110084181 CATTATCAGC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.51, C:0.11, G:0.14, T:0.25
Consensus pattern (28 bp):
AGAGATAAAACAGTACTGAAATATACTT
Found at i:110092420 original size:13 final size:13
Alignment explanation
Indices: 110092404--110092436 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
110092394 TTTAATTAAA
*
110092404 TTAGTTAATTAGT
1 TTAGATAATTAGT
110092417 TTAGATAATTAGT
1 TTAGATAATTAGT
110092430 TTA-ATAA
1 TTAGATAA
110092437 ACAAACCATT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
12 4 0.21
13 15 0.79
ACGTcount: A:0.39, C:0.00, G:0.12, T:0.48
Consensus pattern (13 bp):
TTAGATAATTAGT
Found at i:110096237 original size:13 final size:13
Alignment explanation
Indices: 110096221--110096253 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
110096211 TTTAATTAAA
*
110096221 TTAGTTAATTAGT
1 TTAGATAATTAGT
110096234 TTAGATAATTAGT
1 TTAGATAATTAGT
110096247 TTA-ATAA
1 TTAGATAA
110096254 ACAAACCCTT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
12 4 0.21
13 15 0.79
ACGTcount: A:0.39, C:0.00, G:0.12, T:0.48
Consensus pattern (13 bp):
TTAGATAATTAGT
Found at i:110098219 original size:43 final size:38
Alignment explanation
Indices: 110098127--110098237 Score: 138
Period size: 35 Copynumber: 2.8 Consensus size: 38
110098117 ATTAACGATG
110098127 CCAATGTCCCAGACATGGTCTTACACGTAATC-ATAATA
1 CCAATGT-CCAGACATGGTCTTACACGTAATCAATAATA
110098165 -CAATG-CCAGACATGGTCTTACACGTAATCATAATACAATA
1 CCAATGTCCAGACATGGTCTTACACGTAATC--AAT--AATA
*
110098205 CCAATGTCCTAGACATGGTCTTACATGTAATCA
1 CCAATGTCC-AGACATGGTCTTACACGTAATCA
110098238 CATCTCAGTA
Statistics
Matches: 64, Mismatches: 1, Indels: 13
0.82 0.01 0.17
Matches are distributed among these distances:
35 24 0.38
37 5 0.08
38 2 0.03
40 4 0.06
41 6 0.09
42 2 0.03
43 21 0.33
ACGTcount: A:0.35, C:0.24, G:0.14, T:0.27
Consensus pattern (38 bp):
CCAATGTCCAGACATGGTCTTACACGTAATCAATAATA
Found at i:110098261 original size:16 final size:16
Alignment explanation
Indices: 110098240--110098273 Score: 68
Period size: 16 Copynumber: 2.1 Consensus size: 16
110098230 TGTAATCACA
110098240 TCTCAGTAACCTAATG
1 TCTCAGTAACCTAATG
110098256 TCTCAGTAACCTAATG
1 TCTCAGTAACCTAATG
110098272 TC
1 TC
110098274 ATGACATTTG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.29, C:0.26, G:0.12, T:0.32
Consensus pattern (16 bp):
TCTCAGTAACCTAATG
Found at i:110106515 original size:45 final size:45
Alignment explanation
Indices: 110106383--110106516 Score: 162
Period size: 45 Copynumber: 3.0 Consensus size: 45
110106373 GCTATATGCC
* * * **
110106383 AGAAATTAGTAAGACCATAGTTTGAAAGATGCTATGACATCACAAT
1 AGAAATGAGTAAGACCATAG-TTGAAAGATGTTATGGCATCATGAT
* *
110106429 A-AAGATGACTAAGATCATAGTTGAAAGATGTTATGGCATCATGAT
1 AGAA-ATGAGTAAGACCATAGTTGAAAGATGTTATGGCATCATGAT
* *
110106474 AGAAATGAGTAAGACCATAGCTAAAAGATGTTATGGCATCATG
1 AGAAATGAGTAAGACCATAGTTGAAAGATGTTATGGCATCATG
110106517 TAAAAGTACA
Statistics
Matches: 75, Mismatches: 11, Indels: 5
0.82 0.12 0.05
Matches are distributed among these distances:
45 59 0.79
46 16 0.21
ACGTcount: A:0.42, C:0.11, G:0.21, T:0.26
Consensus pattern (45 bp):
AGAAATGAGTAAGACCATAGTTGAAAGATGTTATGGCATCATGAT
Found at i:110107984 original size:23 final size:25
Alignment explanation
Indices: 110107953--110108000 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 25
110107943 ACAAAGTCCA
*
110107953 TACATAATA-CCACAAAGG-TAACT
1 TACAAAATACCCACAAAGGCTAACT
110107976 TACAAAATACGCCACAAAGGCTAAC
1 TACAAAATAC-CCACAAAGGCTAAC
110108001 AGAATGCACC
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
23 8 0.38
25 9 0.43
26 4 0.19
ACGTcount: A:0.48, C:0.25, G:0.10, T:0.17
Consensus pattern (25 bp):
TACAAAATACCCACAAAGGCTAACT
Found at i:110108020 original size:66 final size:67
Alignment explanation
Indices: 110107914--110108073 Score: 148
Period size: 66 Copynumber: 2.4 Consensus size: 67
110107904 GCAACATACG
* ** * * * **
110107914 AAATACGCCACAAATGCTATTAGAGTG-CCACAAAGTCCATA-CATAATACCACAAAGGTAACTT
1 AAATACGCCACAAAGGCTAACAGAATGCCCACAAAGTCCATATCAGAATACCACAAAGGCAAAAT
110107977 ACA
66 -CA
* *
110107980 AAATACGCCACAAAGGCTAACAGAATGCACCA-AAAG-CCATATCAGAATGCCATAAAGGCAAAA
1 AAATACGCCACAAAGGCTAACAGAATGC-CCACAAAGTCCATATCAGAATACCACAAAGGCAAAA
110108043 TCA
65 TCA
* * * *
110108046 GATTACACTACAAAGGCTAACAGAATGC
1 AAATACGCCACAAAGGCTAACAGAATGC
110108074 TACTCAGGCA
Statistics
Matches: 77, Mismatches: 14, Indels: 6
0.79 0.14 0.06
Matches are distributed among these distances:
66 54 0.70
67 20 0.26
68 3 0.04
ACGTcount: A:0.46, C:0.24, G:0.14, T:0.16
Consensus pattern (67 bp):
AAATACGCCACAAAGGCTAACAGAATGCCCACAAAGTCCATATCAGAATACCACAAAGGCAAAAT
CA
Found at i:110120423 original size:21 final size:22
Alignment explanation
Indices: 110120391--110120444 Score: 65
Period size: 23 Copynumber: 2.4 Consensus size: 22
110120381 CTACATTATT
*
110120391 TATATATTTTT-AATTTAGTCTC
1 TATAT-TTTTTAAATTTAATCTC
*
110120413 TTTATTTTTTAAAATTTAATCTC
1 TATATTTTTT-AAATTTAATCTC
110120436 TATATTTTT
1 TATATTTTT
110120445 CGGATTTAAA
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
21 5 0.19
22 4 0.15
23 18 0.67
ACGTcount: A:0.28, C:0.07, G:0.02, T:0.63
Consensus pattern (22 bp):
TATATTTTTTAAATTTAATCTC
Found at i:110122220 original size:19 final size:19
Alignment explanation
Indices: 110122185--110122225 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 19
110122175 AAAAATACAA
* *
110122185 AAAAATAATTTTTTAATAT
1 AAAAATAATTATATAATAT
*
110122204 AAAAATAATTATATAATTT
1 AAAAATAATTATATAATAT
110122223 AAA
1 AAA
110122226 CATTTTATAA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (19 bp):
AAAAATAATTATATAATAT
Found at i:110123334 original size:31 final size:31
Alignment explanation
Indices: 110123296--110123370 Score: 141
Period size: 31 Copynumber: 2.4 Consensus size: 31
110123286 ACAGTTACTG
110123296 GGCCGAAGCCTTTTCATAAATCATATCACTA
1 GGCCGAAGCCTTTTCATAAATCATATCACTA
*
110123327 GGCCGAAGCCTTTTCATAAATCATATCACTG
1 GGCCGAAGCCTTTTCATAAATCATATCACTA
110123358 GGCCGAAGCCTTT
1 GGCCGAAGCCTTT
110123371 ACTATAAACG
Statistics
Matches: 43, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
31 43 1.00
ACGTcount: A:0.28, C:0.27, G:0.17, T:0.28
Consensus pattern (31 bp):
GGCCGAAGCCTTTTCATAAATCATATCACTA
Found at i:110123615 original size:24 final size:25
Alignment explanation
Indices: 110123578--110123636 Score: 77
Period size: 26 Copynumber: 2.4 Consensus size: 25
110123568 CTGGAGGCCT
*
110123578 AGCCTCTTTTAAT-AACTTGGGCA-A
1 AGCC-CTTTTAATAAACTGGGGCATA
110123602 AGCCCTTTTCAATAAACTGGGGCATA
1 AGCCCTTTT-AATAAACTGGGGCATA
110123628 AGCCCTTTT
1 AGCCCTTTT
110123637 GCACTTCCTC
Statistics
Matches: 31, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
23 5 0.16
24 7 0.23
25 9 0.29
26 10 0.32
ACGTcount: A:0.27, C:0.24, G:0.17, T:0.32
Consensus pattern (25 bp):
AGCCCTTTTAATAAACTGGGGCATA
Found at i:110123711 original size:20 final size:20
Alignment explanation
Indices: 110123686--110123772 Score: 131
Period size: 20 Copynumber: 4.3 Consensus size: 20
110123676 TTATGAATAC
110123686 ATCATGTGCATTTCATACAT
1 ATCATGTGCATTTCATACAT
*
110123706 ATCATGTGCATTTCATATAT
1 ATCATGTGCATTTCATACAT
*
110123726 ATCATGTGCATTTTATACAT
1 ATCATGTGCATTTCATACAT
*
110123746 ATCATGTGCATATCATATCA-
1 ATCATGTGCATTTCATA-CAT
110123766 ATCATGT
1 ATCATGT
110123773 ATATCATATC
Statistics
Matches: 61, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
20 59 0.97
21 2 0.03
ACGTcount: A:0.31, C:0.17, G:0.10, T:0.41
Consensus pattern (20 bp):
ATCATGTGCATTTCATACAT
Found at i:110124530 original size:27 final size:27
Alignment explanation
Indices: 110124500--110124551 Score: 70
Period size: 27 Copynumber: 1.9 Consensus size: 27
110124490 TACAAAGGTA
110124500 TTACGGTCACTTTATCCTA-TAGGGGCT
1 TTACGGTCACTTTA-CCTATTAGGGGCT
**
110124527 TTACGGTCTTTTTACCTATTAGGGG
1 TTACGGTCACTTTACCTATTAGGGG
110124552 TATTTTAGTC
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
26 4 0.18
27 18 0.82
ACGTcount: A:0.17, C:0.19, G:0.23, T:0.40
Consensus pattern (27 bp):
TTACGGTCACTTTACCTATTAGGGGCT
Found at i:110124626 original size:27 final size:27
Alignment explanation
Indices: 110124596--110124693 Score: 101
Period size: 27 Copynumber: 3.6 Consensus size: 27
110124586 GTAAATCTAC
110124596 AAACCAAGGGTATTTC-AGTAATTTTGT
1 AAACCAAGGGTATTTCTA-TAATTTTGT
* *
110124623 AAACGAATGGTATTTCTATAATTTT-T
1 AAACCAAGGGTATTTCTATAATTTTGT
*
110124649 AGAAAGTCAAGGGTATTTCTATAATTTTGT
1 --AAA-CCAAGGGTATTTCTATAATTTTGT
* *
110124679 AAATCAGGGGTATTT
1 AAACCAAGGGTATTT
110124694 TGGTAATTTT
Statistics
Matches: 60, Mismatches: 6, Indels: 10
0.79 0.08 0.13
Matches are distributed among these distances:
26 1 0.02
27 32 0.53
28 7 0.12
29 19 0.32
30 1 0.02
ACGTcount: A:0.34, C:0.08, G:0.18, T:0.40
Consensus pattern (27 bp):
AAACCAAGGGTATTTCTATAATTTTGT
Found at i:110124700 original size:27 final size:27
Alignment explanation
Indices: 110124670--110124782 Score: 104
Period size: 27 Copynumber: 4.2 Consensus size: 27
110124660 GGTATTTCTA
**
110124670 TAATTTTGTAAATCAGGGGTATTTTGG
1 TAATTTTACAAATCAGGGGTATTTTGG
* * *
110124697 TAATTTTACAAAT-TGAAGGTATTTCGG
1 TAATTTTACAAATCAG-GGGTATTTTGG
* * **
110124724 TAATTTCACAAACCAATGGTATTTTGG
1 TAATTTTACAAATCAGGGGTATTTTGG
*
110124751 TAATTTTACAAA-CTAGGGGTGTTTTGG
1 TAATTTTACAAATC-AGGGGTATTTTGG
110124778 TAATT
1 TAATT
110124783 CTACCCTATA
Statistics
Matches: 68, Mismatches: 15, Indels: 6
0.76 0.17 0.07
Matches are distributed among these distances:
26 2 0.03
27 66 0.97
ACGTcount: A:0.30, C:0.08, G:0.20, T:0.42
Consensus pattern (27 bp):
TAATTTTACAAATCAGGGGTATTTTGG
Found at i:110124844 original size:27 final size:27
Alignment explanation
Indices: 110124814--110124943 Score: 188
Period size: 27 Copynumber: 4.8 Consensus size: 27
110124804 GTAATTTCAC
*
110124814 AATCGAGGGTAAAACGGTAATTTTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
* **
110124841 AATCAAGGGTAAAACATTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
* *
110124868 AATCGAGGGTCAAACAGTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
* *
110124895 AATCGAGGGTAAAATGGTAATTCTATA
1 AATCGAGGGTAAAACGGTAATTCTGTA
110124922 AATCGAGGGTAAAACGGTAATT
1 AATCGAGGGTAAAACGGTAATT
110124944 TTTACAAGTC
Statistics
Matches: 91, Mismatches: 12, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 91 1.00
ACGTcount: A:0.40, C:0.10, G:0.22, T:0.28
Consensus pattern (27 bp):
AATCGAGGGTAAAACGGTAATTCTGTA
Found at i:110126771 original size:50 final size:50
Alignment explanation
Indices: 110126717--110126863 Score: 147
Period size: 42 Copynumber: 3.1 Consensus size: 50
110126707 AAAAACTAGT
110126717 TAAAATGGGTTAATGCTAGTTTAAATATTTAATTTTGTTGCTATAATTTA
1 TAAAATGGGTTAATGCTAGTTTAAATATTTAATTTTGTTGCTATAATTTA
* * * * *
110126767 TAAAAT--G--AA---T-GTTTATATTTTTAATATT-TT--TAT-TTGTGTT
1 TAAAATGGGTTAATGCTAGTTTAAATATTTAATTTTGTTGCTATAAT-T-TA
110126807 TAAAATGGGTTAATGCTAGTTTAAATATTTAATTTTGTTGCTATAATTTA
1 TAAAATGGGTTAATGCTAGTTTAAATATTTAATTTTGTTGCTATAATTTA
110126857 TAAAATG
1 TAAAATG
110126864 AATGTTTATA
Statistics
Matches: 73, Mismatches: 10, Indels: 28
0.66 0.09 0.25
Matches are distributed among these distances:
38 1 0.01
39 4 0.05
40 7 0.10
41 2 0.03
42 16 0.22
43 1 0.01
44 2 0.03
46 2 0.03
47 1 0.01
48 16 0.22
49 2 0.03
50 14 0.19
51 4 0.05
52 1 0.01
ACGTcount: A:0.34, C:0.03, G:0.13, T:0.50
Consensus pattern (50 bp):
TAAAATGGGTTAATGCTAGTTTAAATATTTAATTTTGTTGCTATAATTTA
Found at i:110126803 original size:49 final size:49
Alignment explanation
Indices: 110126750--110126893 Score: 126
Period size: 49 Copynumber: 3.1 Consensus size: 49
110126740 AATATTTAAT
110126750 TTTGTTGCTATAATTTATAAAATGAATGTTTATATTTTTAATATTTTTA
1 TTTGTTGCTATAATTTATAAAATGAATGTTTATATTTTTAATATTTTTA
* * *** * * * * *
110126799 TTTG-TG-TTTAA--AAT-GGGTTAATG---CTAGTTTAAATA-TTTAA
1 TTTGTTGCTATAATTTATAAAATGAATGTTTATATTTTTAATATTTTTA
110126839 TTTTGTTGCTATAATTTATAAAATGAATGTTTATATTTTTAATATTTTTA
1 -TTTGTTGCTATAATTTATAAAATGAATGTTTATATTTTTAATATTTTTA
110126889 TTTGT
1 TTTGT
110126894 GTTTGTTAAT
Statistics
Matches: 65, Mismatches: 20, Indels: 20
0.62 0.19 0.19
Matches are distributed among these distances:
40 4 0.06
41 13 0.20
42 2 0.03
43 4 0.06
44 5 0.08
45 4 0.06
46 5 0.08
47 4 0.06
48 2 0.03
49 18 0.28
50 4 0.06
ACGTcount: A:0.31, C:0.02, G:0.11, T:0.56
Consensus pattern (49 bp):
TTTGTTGCTATAATTTATAAAATGAATGTTTATATTTTTAATATTTTTA
Found at i:110126869 original size:90 final size:90
Alignment explanation
Indices: 110126716--110126897 Score: 364
Period size: 90 Copynumber: 2.0 Consensus size: 90
110126706 TAAAAACTAG
110126716 TTAAAATGGGTTAATGCTAGTTTAAATATTTAATTTTGTTGCTATAATTTATAAAATGAATGTTT
1 TTAAAATGGGTTAATGCTAGTTTAAATATTTAATTTTGTTGCTATAATTTATAAAATGAATGTTT
110126781 ATATTTTTAATATTTTTATTTGTGT
66 ATATTTTTAATATTTTTATTTGTGT
110126806 TTAAAATGGGTTAATGCTAGTTTAAATATTTAATTTTGTTGCTATAATTTATAAAATGAATGTTT
1 TTAAAATGGGTTAATGCTAGTTTAAATATTTAATTTTGTTGCTATAATTTATAAAATGAATGTTT
110126871 ATATTTTTAATATTTTTATTTGTGT
66 ATATTTTTAATATTTTTATTTGTGT
110126896 TT
1 TT
110126898 GTTAATTTTC
Statistics
Matches: 92, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
90 92 1.00
ACGTcount: A:0.32, C:0.02, G:0.12, T:0.54
Consensus pattern (90 bp):
TTAAAATGGGTTAATGCTAGTTTAAATATTTAATTTTGTTGCTATAATTTATAAAATGAATGTTT
ATATTTTTAATATTTTTATTTGTGT
Found at i:110130625 original size:40 final size:40
Alignment explanation
Indices: 110130581--110130805 Score: 260
Period size: 40 Copynumber: 5.7 Consensus size: 40
110130571 GCTCCTCGTT
* * *
110130581 CAAATGCCTTCGGGACATAGCCTGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATT-TAGTAACTCGCA
110130621 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
110130661 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* * * *
110130701 CCAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
** * * * *
110130740 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAACCCGGATTTAGTAAC-TCGCA
* *
110130781 CAAA-GCCTTCGGGACCTAGCCCGGA
1 CAAATGCCTTCGGGACTTAACCCGGA
110130806 CATCATTCAA
Statistics
Matches: 163, Mismatches: 17, Indels: 10
0.86 0.09 0.05
Matches are distributed among these distances:
38 2 0.01
39 32 0.20
40 116 0.71
41 13 0.08
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
Found at i:110130765 original size:119 final size:120
Alignment explanation
Indices: 110130583--110130805 Score: 283
Period size: 119 Copynumber: 1.9 Consensus size: 120
110130573 TCCTCGTTCA
* *
110130583 AATGCCTTCGGGACATAGCCTGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGAT
1 AATGCCTTCGGGACATAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGAT
* * *
110130648 TTAGTAAC-TCGCACAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACC
66 ATAGTAACTTAGCACAAA-GCCTTCGGGACCTAACCCGGATTTAGTAACTCGCACC
* * **
110130703 AATGCCTTCGGG-CTTAGCCCGGA-ATTAGTATCTCGCACAAATGCCTTC-GGATCTTAGTCCGG
1 AATGCCTTCGGGACATAGCCCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCCGG
* * *
110130765 ATATGGTCACTTAGCACAAAGCCTTCGGGACCTAGCCCGGA
64 ATATAGTAACTTAGCACAAAGCCTTCGGGACCTAACCCGGA
110130806 CATCATTCAA
Statistics
Matches: 88, Mismatches: 12, Indels: 7
0.82 0.11 0.07
Matches are distributed among these distances:
118 4 0.05
119 64 0.73
120 20 0.23
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (120 bp):
AATGCCTTCGGGACATAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGAT
ATAGTAACTTAGCACAAAGCCTTCGGGACCTAACCCGGATTTAGTAACTCGCACC
Found at i:110133437 original size:20 final size:19
Alignment explanation
Indices: 110133404--110133442 Score: 51
Period size: 20 Copynumber: 2.0 Consensus size: 19
110133394 TTAATATACA
*
110133404 TTTTTAATATTAATCAATTT
1 TTTTTAATAATAAT-AATTT
*
110133424 TTTTTCATAATAATAATTT
1 TTTTTAATAATAATAATTT
110133443 AATATTAAAT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 5 0.29
20 12 0.71
ACGTcount: A:0.36, C:0.05, G:0.00, T:0.59
Consensus pattern (19 bp):
TTTTTAATAATAATAATTT
Found at i:110137116 original size:20 final size:20
Alignment explanation
Indices: 110137053--110137180 Score: 69
Period size: 20 Copynumber: 6.3 Consensus size: 20
110137043 GCATTATAAA
* *
110137053 TGCATAACAAGGGCACCAAAG
1 TGCA-AACAGGGGCACCGAAG
* * * *
110137074 TGTAGACAGGTGCA-CAAATG
1 TGCAAACAGGGGCACCGAA-G
*
110137094 TGCAAATAGGGGCACCGAAG
1 TGCAAACAGGGGCACCGAAG
* * * ***
110137114 TGCGAATATGAATACCGAAG
1 TGCAAACAGGGGCACCGAAG
* * * *
110137134 TGTATACAGGGGCACCAAAC
1 TGCAAACAGGGGCACCGAAG
110137154 TGCAAACAGGGGCACCGAAG
1 TGCAAACAGGGGCACCGAAG
*
110137174 TGTAAAC
1 TGCAAAC
110137181 CCCGTACAAG
Statistics
Matches: 76, Mismatches: 29, Indels: 5
0.69 0.26 0.05
Matches are distributed among these distances:
19 4 0.05
20 66 0.87
21 6 0.08
ACGTcount: A:0.38, C:0.20, G:0.28, T:0.14
Consensus pattern (20 bp):
TGCAAACAGGGGCACCGAAG
Found at i:110139064 original size:18 final size:19
Alignment explanation
Indices: 110139041--110139077 Score: 51
Period size: 18 Copynumber: 2.0 Consensus size: 19
110139031 GGTTTGCTTG
110139041 TTAAAG-ATTGCTTT-AATC
1 TTAAAGCATT-CTTTCAATC
110139059 TTAAAGCATTCTTTCAATC
1 TTAAAGCATTCTTTCAATC
110139078 CTTGTCCTGT
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
18 10 0.59
19 7 0.41
ACGTcount: A:0.32, C:0.16, G:0.08, T:0.43
Consensus pattern (19 bp):
TTAAAGCATTCTTTCAATC
Found at i:110142962 original size:18 final size:19
Alignment explanation
Indices: 110142939--110142977 Score: 62
Period size: 18 Copynumber: 2.1 Consensus size: 19
110142929 ATATATAGAT
110142939 ATATATATTGAATA-TTGA
1 ATATATATTGAATATTTGA
*
110142957 ATATATATTGATTATTTGA
1 ATATATATTGAATATTTGA
110142976 AT
1 AT
110142978 TGAATTGAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 13 0.68
19 6 0.32
ACGTcount: A:0.41, C:0.00, G:0.10, T:0.49
Consensus pattern (19 bp):
ATATATATTGAATATTTGA
Found at i:110143327 original size:39 final size:40
Alignment explanation
Indices: 110143217--110143327 Score: 100
Period size: 38 Copynumber: 2.8 Consensus size: 40
110143207 GACCTCGAGT
* * **
110143217 CGATGAGACACTGGGTGTCACTATATTTCTTCGGATAGATT
1 CGATGAGACACTGGGTGTCA-AATATTACTTCGGATAGAGC
** ** * *
110143258 CGATGAGGTACTGGGTACCAACT-TTACTTCGGCTAG-GC
1 CGATGAGACACTGGGTGTCAAATATTACTTCGGATAGAGC
*
110143296 CGATGAGACACTGGGTGTCAAATATTGCTTCG
1 CGATGAGACACTGGGTGTCAAATATTACTTCG
110143328 AACTATCCGA
Statistics
Matches: 53, Mismatches: 16, Indels: 4
0.73 0.22 0.05
Matches are distributed among these distances:
38 18 0.34
39 18 0.34
40 1 0.02
41 16 0.30
ACGTcount: A:0.23, C:0.20, G:0.27, T:0.30
Consensus pattern (40 bp):
CGATGAGACACTGGGTGTCAAATATTACTTCGGATAGAGC
Found at i:110143494 original size:18 final size:19
Alignment explanation
Indices: 110143473--110143513 Score: 59
Period size: 19 Copynumber: 2.2 Consensus size: 19
110143463 AATGAAATGA
110143473 GAAATTGA-AT-TGAGAATT
1 GAAATTGAGATATGAG-ATT
110143491 GAAATTGAGATATGAGATT
1 GAAATTGAGATATGAGATT
110143510 GAAA
1 GAAA
110143514 ACATGAACCA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
18 8 0.38
19 9 0.43
20 4 0.19
ACGTcount: A:0.46, C:0.00, G:0.24, T:0.29
Consensus pattern (19 bp):
GAAATTGAGATATGAGATT
Found at i:110148008 original size:5 final size:5
Alignment explanation
Indices: 110147987--110148036 Score: 66
Period size: 5 Copynumber: 10.0 Consensus size: 5
110147977 GTTAAAAATA
* *
110147987 TATAT TAAAT TATTAT TATAT TATAG TATAT TATA- TATAT TATAT TATAT
1 TATAT TATAT TA-TAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT
110148037 AAATAAGTAA
Statistics
Matches: 39, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
4 4 0.10
5 31 0.79
6 4 0.10
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.56
Consensus pattern (5 bp):
TATAT
Found at i:110148037 original size:21 final size:20
Alignment explanation
Indices: 110147987--110148037 Score: 52
Period size: 19 Copynumber: 2.5 Consensus size: 20
110147977 GTTAAAAATA
*
110147987 TATATTAAATTATTATTATAT
1 TATATTATA-TATTATTATAT
*
110148008 TATA--GTATATTATATATAT
1 TATATTATATATTAT-TATAT
110148027 TATATTATATA
1 TATATTATATA
110148038 AATAAGTAAA
Statistics
Matches: 24, Mismatches: 3, Indels: 6
0.73 0.09 0.18
Matches are distributed among these distances:
18 6 0.25
19 10 0.42
21 8 0.33
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.55
Consensus pattern (20 bp):
TATATTATATATTATTATAT
Found at i:110149375 original size:18 final size:19
Alignment explanation
Indices: 110149352--110149390 Score: 62
Period size: 18 Copynumber: 2.1 Consensus size: 19
110149342 ATATATAGAT
110149352 ATATATATTGAATA-TTGA
1 ATATATATTGAATATTTGA
*
110149370 ATATATATTGATTATTTGA
1 ATATATATTGAATATTTGA
110149389 AT
1 AT
110149391 TGAATTGAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 13 0.68
19 6 0.32
ACGTcount: A:0.41, C:0.00, G:0.10, T:0.49
Consensus pattern (19 bp):
ATATATATTGAATATTTGA
Found at i:110149907 original size:18 final size:19
Alignment explanation
Indices: 110149886--110149926 Score: 59
Period size: 19 Copynumber: 2.2 Consensus size: 19
110149876 AATGAAATGA
110149886 GAAATTGA-AT-TGAGAATT
1 GAAATTGAGATATGAG-ATT
110149904 GAAATTGAGATATGAGATT
1 GAAATTGAGATATGAGATT
110149923 GAAA
1 GAAA
110149927 ACATGAACCA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
18 8 0.38
19 9 0.43
20 4 0.19
ACGTcount: A:0.46, C:0.00, G:0.24, T:0.29
Consensus pattern (19 bp):
GAAATTGAGATATGAGATT
Found at i:110151557 original size:21 final size:21
Alignment explanation
Indices: 110151533--110151585 Score: 97
Period size: 21 Copynumber: 2.5 Consensus size: 21
110151523 TCCAGTATGC
*
110151533 ATTCCTTCATCAGTATCATTT
1 ATTCTTTCATCAGTATCATTT
110151554 ATTCTTTCATCAGTATCATTT
1 ATTCTTTCATCAGTATCATTT
110151575 ATTCTTTCATC
1 ATTCTTTCATC
110151586 CGACATCTTT
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 31 1.00
ACGTcount: A:0.23, C:0.23, G:0.04, T:0.51
Consensus pattern (21 bp):
ATTCTTTCATCAGTATCATTT
Found at i:110155937 original size:89 final size:87
Alignment explanation
Indices: 110155808--110156297 Score: 426
Period size: 89 Copynumber: 5.5 Consensus size: 87
110155798 TCGAACAAAT
* * * *
110155808 AATAATACGCAAC-AAAATAAATTTATAGATACAAGAAAATACGAAAATTCTAGAAAACTATTTT
1 AATAATACG-AACAAAAAT-TATTTACAGATACAAAAAAATACGAAAATTCTAGAAAACTA-TAT
110155872 ACGAAAATATAAAATTTGACCAACA
63 ACGAAAATATAAAATTTGACCAACA
* *
110155897 AATAATACGAACAAAAATTGATTTGCAGATACAAAAAAATAC-AAACATTTTAGAAAACTGATAT
1 AATAATACGAACAAAAATT-ATTTACAGATACAAAAAAATACGAAA-ATTCTAGAAAACT-ATAT
*
110155961 ACAAAAATATAAAATTTGACCAACA
63 ACGAAAATATAAAATTTGACCAACA
* * * * *
110155986 AATAATA-TAGGCTAAAATTGATTTACAGAT--AAAAAAATACGAACATTCTTGAAAACTGATAT
1 AATAATACGA-ACAAAAATT-ATTTACAGATACAAAAAAATACGAAAATTCTAGAAAACT-ATAT
110156048 ACGAAAATATAAAATTTGACCAACA
63 ACGAAAATATAAAATTTGACCAACA
* * * *
110156073 AATAATACGGACTAAAATATT-TTTACATAT-CTAAAATTATTAC-AGAAATTCTAGAAAACTAA
1 AATAATACGAAC-AAAA-ATTATTTACAGATAC-AAAA-AAATACGA-AAATTCTAGAAAACT-A
* * * *
110156135 TATACAAAAATATAAAAGTCGA-AAACA
60 TATACGAAAATATAAAATTTGACCAACA
* ** * * * * * *
110156162 AATAATACTAACTAAAATATT-TTTATTGATCCAAAAATAATTCGAACATTTTACAAAATTAATA
1 AATAATACGAAC-AAAA-ATTATTTACAGATACAAAAA-AATACGAAAATTCTAGAAAACT-ATA
*
110156226 TATGAAAATATAAAATTTGACCAACA
62 TACGAAAATATAAAATTTGACCAACA
*
110156252 AATAATAC-ATACTAAAATTTATTTACAGATACAAAAATAATACGAA
1 AATAATACGA-AC-AAAAATTATTTACAGATACAAAAA-AATACGAA
110156298 CATTGTGAAT
Statistics
Matches: 331, Mismatches: 51, Indels: 37
0.79 0.12 0.09
Matches are distributed among these distances:
87 66 0.20
88 12 0.04
89 173 0.52
90 80 0.24
ACGTcount: A:0.54, C:0.12, G:0.07, T:0.27
Consensus pattern (87 bp):
AATAATACGAACAAAAATTATTTACAGATACAAAAAAATACGAAAATTCTAGAAAACTATATACG
AAAATATAAAATTTGACCAACA
Found at i:110156081 original size:176 final size:173
Alignment explanation
Indices: 110155808--110156301 Score: 509
Period size: 176 Copynumber: 2.8 Consensus size: 173
110155798 TCGAACAAAT
* * * * *
110155808 AATAATACGCAAC-AAAATAAATTTATAGATACAAGAAAATACGAAAATTCTAGAAAACTATTTT
1 AATAATAC-TAACTAAAATATATTTATAGATA-AA-AAAATACGAACATTCTTGAAAACTA-TAT
*
110155872 ACGAAAATATAAAATTTGACCAACAAATAATACGAACAAAAATTGATTTGCAGATACAAAAAAAT
62 ACGAAAATATAAAATTTGACCAACAAATAATACGAACAAAAATT-ATTTACAGATACAAAAAAAT
* * * * *
110155937 ACAAACATTTTAGAAAACTGATATACAAAAATATAAAATTTGACCAACA
126 ACAAACATTCTAGAAAACTAATATACAAAAATATAAAAGTCGA-AAACA
* *
110155986 AATAATA-TAGGCTAAAAT-TGATTTACAGATAAAAAAATACGAACATTCTTGAAAACTGATATA
1 AATAATACTA-ACTAAAATAT-ATTTATAGATAAAAAAATACGAACATTCTTGAAAACT-ATATA
* * *
110156049 CGAAAATATAAAATTTGACCAACAAATAATACGGACTAAAATATT-TTTACATAT-CTAAAATTA
63 CGAAAATATAAAATTTGACCAACAAATAATACGAAC-AAAA-ATTATTTACAGATAC-AAAA-AA
*
110156112 TTACAGAA-ATTCTAGAAAACTAATATACAAAAATATAAAAGTCGAAAACA
124 ATACA-AACATTCTAGAAAACTAATATACAAAAATATAAAAGTCGAAAACA
* * * * *
110156162 AATAATACTAACTAAAATATTTTTATTGATCCAAAAATAATTCGAACATT-TTACAAAATTAATA
1 AATAATACTAACTAAAATATATTTATAGAT--AAAAA-AATACGAACATTCTT-GAAAACT-ATA
* *
110156226 TATGAAAATATAAAATTTGACCAACAAATAATAC-ATACTAAAATTTATTTACAGATACAAAAAT
61 TACGAAAATATAAAATTTGACCAACAAATAATACGA-AC-AAAAATTATTTACAGATACAAAAA-
*
110156290 AATACGAACATT
123 AATACAAACATT
110156302 GTGAATAGTA
Statistics
Matches: 264, Mismatches: 32, Indels: 39
0.79 0.10 0.12
Matches are distributed among these distances:
175 1 0.00
176 97 0.37
177 49 0.19
178 38 0.14
179 78 0.30
180 1 0.00
ACGTcount: A:0.54, C:0.12, G:0.07, T:0.28
Consensus pattern (173 bp):
AATAATACTAACTAAAATATATTTATAGATAAAAAAATACGAACATTCTTGAAAACTATATACGA
AAATATAAAATTTGACCAACAAATAATACGAACAAAAATTATTTACAGATACAAAAAAATACAAA
CATTCTAGAAAACTAATATACAAAAATATAAAAGTCGAAAACA
Found at i:110156626 original size:33 final size:33
Alignment explanation
Indices: 110156582--110156658 Score: 127
Period size: 33 Copynumber: 2.3 Consensus size: 33
110156572 CCACTACATC
* * *
110156582 ACACTCATAAATGCAGTATTCCTATTTGATGGT
1 ACACTCCTAAATGCAGTATCCCCATTTGATGGT
110156615 ACACTCCTAAATGCAGTATCCCCATTTGATGGT
1 ACACTCCTAAATGCAGTATCCCCATTTGATGGT
110156648 ACACTCCTAAA
1 ACACTCCTAAA
110156659 CATTCCAATT
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
33 41 1.00
ACGTcount: A:0.31, C:0.25, G:0.13, T:0.31
Consensus pattern (33 bp):
ACACTCCTAAATGCAGTATCCCCATTTGATGGT
Found at i:110158266 original size:121 final size:120
Alignment explanation
Indices: 110158023--110158247 Score: 282
Period size: 121 Copynumber: 1.9 Consensus size: 120
110158013 TATAATGATA
* * * * *
110158023 ATAATAATAATATTAAAGTAAAGTAAATAATAATACTATATATAAATATATATATGTATATAATA
1 ATAATAAAAATATTAAAGTAAAGTAAATAAAAACAATATATATAAATATATATA-GTACATAATA
* * *
110158088 GAAATACACACTACTATATAATAATAATAATAAATATAGAAATACAAAAAGCAAAT
65 GAAATACACACTAATATATAATAATAATAATAAATACAAAAATACAAAAAGCAAAT
*
110158144 ATAATAAAAATATTAAATTAAAGT-AATAAAAACAATACTATATAAATATATATA-TACAT-A-A
1 ATAATAAAAATATTAAAGTAAAGTAAATAAAAACAATA-TATATAAATATATATAGTACATAATA
* *
110158205 -AAATATACACTAATATATAATAATAATAGT-AATAGCAAAAATA
65 GAAATACACACTAATATATAATAATAATAATAAATA-CAAAAATA
110158248 ATGAAAATAT
Statistics
Matches: 91, Mismatches: 11, Indels: 9
0.82 0.10 0.08
Matches are distributed among these distances:
115 4 0.04
116 33 0.36
117 1 0.01
118 1 0.01
119 4 0.04
120 10 0.11
121 38 0.42
ACGTcount: A:0.60, C:0.06, G:0.04, T:0.30
Consensus pattern (120 bp):
ATAATAAAAATATTAAAGTAAAGTAAATAAAAACAATATATATAAATATATATAGTACATAATAG
AAATACACACTAATATATAATAATAATAATAAATACAAAAATACAAAAAGCAAAT
Found at i:110158328 original size:12 final size:13
Alignment explanation
Indices: 110158313--110158349 Score: 51
Period size: 12 Copynumber: 3.0 Consensus size: 13
110158303 AATAGGGGTG
110158313 ATAATAATA-ATA
1 ATAATAATACATA
110158325 ATAATAATACA-A
1 ATAATAATACATA
*
110158337 ACAATAATACATA
1 ATAATAATACATA
110158350 TATATATATA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
12 20 0.91
13 2 0.09
ACGTcount: A:0.65, C:0.08, G:0.00, T:0.27
Consensus pattern (13 bp):
ATAATAATACATA
Found at i:110158453 original size:3 final size:3
Alignment explanation
Indices: 110158440--110158521 Score: 59
Period size: 3 Copynumber: 27.3 Consensus size: 3
110158430 GAGGGTATAT
110158440 ATA AT- ATA ATA ATA AT- ATAA ATA ATA ATA TATA CATGA A-A ATA ATA
1 ATA ATA ATA ATA ATA ATA AT-A ATA ATA ATA -ATA -AT-A ATA ATA ATA
*
110158486 ATA ATA AT- ATAA ATA ATA GTA A-A ATTA ATA A-A ATA A
1 ATA ATA ATA AT-A ATA ATA ATA ATA A-TA ATA ATA ATA A
110158522 AAAAAATAAA
Statistics
Matches: 65, Mismatches: 3, Indels: 22
0.72 0.03 0.24
Matches are distributed among these distances:
2 12 0.18
3 40 0.62
4 12 0.18
5 1 0.02
ACGTcount: A:0.65, C:0.01, G:0.02, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:110158464 original size:12 final size:12
Alignment explanation
Indices: 110158440--110158522 Score: 75
Period size: 12 Copynumber: 6.8 Consensus size: 12
110158430 GAGGGTATAT
110158440 ATAATAT-AATA
1 ATAATATAAATA
110158451 ATAATATAAATA
1 ATAATATAAATA
110158463 ATAATATATACATGA
1 ATAATATA-A-AT-A
110158478 A-AATA-ATAATA
1 ATAATATA-AATA
110158489 ATAATATAAATA
1 ATAATATAAATA
*
110158501 ATAGTA-AAATTA
1 ATAATATAAA-TA
*
110158513 ATAAAATAAA
1 ATAATATAAA
110158523 AAAAATAAAA
Statistics
Matches: 61, Mismatches: 3, Indels: 14
0.78 0.04 0.18
Matches are distributed among these distances:
11 12 0.20
12 33 0.54
13 8 0.13
14 6 0.10
15 2 0.03
ACGTcount: A:0.65, C:0.01, G:0.02, T:0.31
Consensus pattern (12 bp):
ATAATATAAATA
Found at i:110158530 original size:38 final size:38
Alignment explanation
Indices: 110158450--110158530 Score: 94
Period size: 38 Copynumber: 2.1 Consensus size: 38
110158440 ATAATATAAT
* * *
110158450 AATAATATAAATAATAATATATACATGAAAATAATAAT
1 AATAATATAAATAATAATAAATACATGAAAATAAAAAA
*
110158488 AATAATATAAATAATAGTAAAATTA-AT-AAAATAAAAAA
1 AATAATATAAATAATAAT-AAA-TACATGAAAATAAAAAA
110158526 AATAA
1 AATAA
110158531 AACAAAGCTC
Statistics
Matches: 37, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
38 31 0.84
39 4 0.11
40 2 0.05
ACGTcount: A:0.68, C:0.01, G:0.02, T:0.28
Consensus pattern (38 bp):
AATAATATAAATAATAATAAATACATGAAAATAAAAAA
Found at i:110159071 original size:30 final size:30
Alignment explanation
Indices: 110159031--110159116 Score: 154
Period size: 30 Copynumber: 2.9 Consensus size: 30
110159021 ATTTGATAGT
*
110159031 GTAGGTGCAAGTGGGAGACAAGGTGGTGGA
1 GTAGGTGCAAGTGGGAGGCAAGGTGGTGGA
*
110159061 GTATGTGCAAGTGGGAGGCAAGGTGGTGGA
1 GTAGGTGCAAGTGGGAGGCAAGGTGGTGGA
110159091 GTAGGTGCAAGTGGGAGGCAAGGTGG
1 GTAGGTGCAAGTGGGAGGCAAGGTGG
110159117 CTAGGGTTTT
Statistics
Matches: 53, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
30 53 1.00
ACGTcount: A:0.24, C:0.07, G:0.51, T:0.17
Consensus pattern (30 bp):
GTAGGTGCAAGTGGGAGGCAAGGTGGTGGA
Found at i:110159114 original size:18 final size:18
Alignment explanation
Indices: 110159065--110159115 Score: 51
Period size: 18 Copynumber: 3.2 Consensus size: 18
110159055 GGTGGAGTAT
110159065 GTGCAAGTGGGAGGCAAG
1 GTGCAAGTGGGAGGCAAG
*
110159083 GTG---GT-GGA-G-TAG
1 GTGCAAGTGGGAGGCAAG
110159095 GTGCAAGTGGGAGGCAAG
1 GTGCAAGTGGGAGGCAAG
110159113 GTG
1 GTG
110159116 GCTAGGGTTT
Statistics
Matches: 25, Mismatches: 2, Indels: 12
0.64 0.05 0.31
Matches are distributed among these distances:
12 5 0.20
13 1 0.04
14 3 0.12
15 4 0.16
16 3 0.12
17 1 0.04
18 8 0.32
ACGTcount: A:0.24, C:0.08, G:0.53, T:0.16
Consensus pattern (18 bp):
GTGCAAGTGGGAGGCAAG
Found at i:110159766 original size:35 final size:35
Alignment explanation
Indices: 110159706--110159774 Score: 102
Period size: 35 Copynumber: 2.0 Consensus size: 35
110159696 GTGTTAAGAC
* * *
110159706 CTGTAAATTTAGCCTATTACTCTACTGTTTAGGGT
1 CTGTAAATTTAACCTATTACCCTACTGCTTAGGGT
*
110159741 CTGTAAATTTAACCTGTTACCCTACTGCTTAGGG
1 CTGTAAATTTAACCTATTACCCTACTGCTTAGGG
110159775 GTTTAAGGCT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
35 30 1.00
ACGTcount: A:0.23, C:0.20, G:0.17, T:0.39
Consensus pattern (35 bp):
CTGTAAATTTAACCTATTACCCTACTGCTTAGGGT
Found at i:110159779 original size:43 final size:43
Alignment explanation
Indices: 110159740--110160172 Score: 334
Period size: 43 Copynumber: 10.0 Consensus size: 43
110159730 CTGTTTAGGG
* *
110159740 TCTGTAAATTTAACCTGTTACCCTACTGCTTAGGGGTTTAAGGCTTA
1 TCTGTAAATTCAACCTGTTACCCTACTGCTTAGGGGGTTAA-G---A
* ** * * *
110159787 TC-GT--CTTTGATCTGTTTCCCTACTACTTAGGGGGTTAAGA
1 TCTGTAAATTCAACCTGTTACCCTACTGCTTAGGGGGTTAAGA
* *
110159827 T-TGTAAATTCAACCTGTTACCCTACTGCTTAGGGGTTTAAGG
1 TCTGTAAATTCAACCTGTTACCCTACTGCTTAGGGGGTTAAGA
* ** *** * ** *
110159869 CCCATCGCCTTCGATTTGTTTCCCTACTGCTTAGGGGGTTAAGA
1 TCTGT-AAATTCAACCTGTTACCCTACTGCTTAGGGGGTTAAGA
* ** *
110159913 TTTGTAAATTCAGTCTGTTACCCTACTGCTTAGGGGGTTAAGG
1 TCTGTAAATTCAACCTGTTACCCTACTGCTTAGGGGGTTAAGA
** *** * * * *
110159956 TCCATCGCCTTCGATCTGTTTCCCTACTACTTAGGGGGTTAAGA
1 TCTGT-AAATTCAACCTGTTACCCTACTGCTTAGGGGGTTAAGA
* *
110160000 TCTGTAAATTCAACCTGTTACCCTACTGCTTAGGGGTTTAAGG
1 TCTGTAAATTCAACCTGTTACCCTACTGCTTAGGGGGTTAAGA
* ** ** * * *
110160043 CCCATCATCTTCGATCTGTTTCCCTACTGCTTAGGGGGTTAAGA
1 TCTGT-AAATTCAACCTGTTACCCTACTGCTTAGGGGGTTAAGA
* * *
110160087 TCTGTAAATTTAGCCTGCTACCCTACTGCTTAGGGGGTTAAGA
1 TCTGTAAATTCAACCTGTTACCCTACTGCTTAGGGGGTTAAGA
* * *
110160130 TCTGTAAATTCAGCCTGTTACCCTACTACTTAGGGGTTTAAGA
1 TCTGTAAATTCAACCTGTTACCCTACTGCTTAGGGGGTTAAGA
110160173 CCCTTCTTCT
Statistics
Matches: 294, Mismatches: 85, Indels: 18
0.74 0.21 0.05
Matches are distributed among these distances:
40 4 0.01
42 28 0.10
43 134 0.46
44 124 0.42
46 2 0.01
47 2 0.01
ACGTcount: A:0.21, C:0.22, G:0.21, T:0.36
Consensus pattern (43 bp):
TCTGTAAATTCAACCTGTTACCCTACTGCTTAGGGGGTTAAGA
Found at i:110159808 original size:44 final size:44
Alignment explanation
Indices: 110159754--110160463 Score: 275
Period size: 44 Copynumber: 16.4 Consensus size: 44
110159744 TAAATTTAAC
* * *
110159754 CTGTTACCCTACTGCTTAGGGGTTTAAGGCTTATCGTCTTTGAT
1 CTGTTACCCTACTGCTTAGGGGGTTAAGGCTCATCGTCTTCGAT
* * * * * *
110159798 CTGTTTCCCTACTACTTAGGGGGTTAA-G---ATTGTAAATTCAAC
1 CTGTTACCCTACTGCTTAGGGGGTTAAGGCTCATCGT--CTTCGAT
* * *
110159840 CTGTTACCCTACTGCTTAGGGGTTTAAGGCCCATCGCCTTCGAT
1 CTGTTACCCTACTGCTTAGGGGGTTAAGGCTCATCGTCTTCGAT
* * * * *
110159884 TTGTTTCCCTACTGCTTAGGGGGTTAA-GAT--TTGTAAATTC-AGT
1 CTGTTACCCTACTGCTTAGGGGGTTAAGGCTCATCGT--CTTCGA-T
*
110159927 CTGTTACCCTACTGCTTAGGGGGTTAAGG-TCCATCGCCTTCGAT
1 CTGTTACCCTACTGCTTAGGGGGTTAAGGCT-CATCGTCTTCGAT
* * * * * *
110159971 CTGTTTCCCTACTACTTAGGGGGTTAA-GATC-T-GTAAATTCAAC
1 CTGTTACCCTACTGCTTAGGGGGTTAAGGCTCATCGT--CTTCGAT
* * *
110160014 CTGTTACCCTACTGCTTAGGGGTTTAAGGCCCATCATCTTCGAT
1 CTGTTACCCTACTGCTTAGGGGGTTAAGGCTCATCGTCTTCGAT
* * * * *
110160058 CTGTTTCCCTACTGCTTAGGGGGTTAA-GATC-T-GTAAATT-TAGC
1 CTGTTACCCTACTGCTTAGGGGGTTAAGGCTCATCGT--CTTCGA-T
* * * *
110160101 CTGCTACCCTACTGCTTAGGGGGTTAA-GATC-T-GTAAATTC-AGC
1 CTGTTACCCTACTGCTTAGGGGGTTAAGGCTCATCGT--CTTCGA-T
* * * * * *
110160144 CTGTTACCCTACTACTTAGGGGTTTAAGACCCTTCTTCTTCGAT
1 CTGTTACCCTACTGCTTAGGGGGTTAAGGCTCATCGTCTTCGAT
* * * * *
110160188 CTGCT-CCACTACTGCTTAGGGAGATAAGG-TC-T-G-CAATTTGGT
1 CTGTTACC-CTACTGCTTAGGGGGTTAAGGCTCATCGTC--TTCGAT
* * * * *
110160230 CTGTTACACTACTGCTTAGGGGTTTAAGACCCTTCGTCTTCGAT
1 CTGTTACCCTACTGCTTAGGGGGTTAAGGCTCATCGTCTTCGAT
* * * * * * *
110160274 CTGCT-CCACTACTGCTTAGGGAGATAA-GAT--TTG-CAATTTGGT
1 CTGTTACC-CTACTGCTTAGGGGGTTAAGGCTCATCGTC--TTCGAT
* * * *
110160316 CTGTTACCCTACTGCTTAGGGGTTTAAGACCCTTCGTCTTCGAT
1 CTGTTACCCTACTGCTTAGGGGGTTAAGGCTCATCGTCTTCGAT
* *** * *
110160360 CTATT-CCACTACTGCTTAGGGAAATAA-GATC-T-G-CAATTCGGT
1 CTGTTACC-CTACTGCTTAGGGGGTTAAGGCTCATCGTC--TTCGAT
* * ** *
110160402 CTGTTACCCTACTGCTTAGGGGTTTAAGGCCCATCAACCTCGAT
1 CTGTTACCCTACTGCTTAGGGGGTTAAGGCTCATCGTCTTCGAT
* * *
110160446 TTGTTTCCCTACTACTTA
1 CTGTTACCCTACTGCTTA
110160464 AGGAGATAAG
Statistics
Matches: 491, Mismatches: 123, Indels: 104
0.68 0.17 0.14
Matches are distributed among these distances:
40 7 0.01
41 7 0.01
42 107 0.22
43 146 0.30
44 207 0.42
45 7 0.01
46 10 0.02
ACGTcount: A:0.20, C:0.23, G:0.21, T:0.35
Consensus pattern (44 bp):
CTGTTACCCTACTGCTTAGGGGGTTAAGGCTCATCGTCTTCGAT
Found at i:110159955 original size:87 final size:87
Alignment explanation
Indices: 110159740--110160128 Score: 600
Period size: 87 Copynumber: 4.5 Consensus size: 87
110159730 CTGTTTAGGG
* ** * *
110159740 TCTGTAAATTTAACCTGTTACCCTACTGCTTAGGGGTTTAAGGCTTATCGTCTTTGATCTGTTTC
1 TCTGTAAATTCAACCTGTTACCCTACTGCTTAGGGGTTTAAGGCCCATCGCCTTCGATCTGTTTC
110159805 CCTACTACTTAGGGGGTTAAGA
66 CCTACTACTTAGGGGGTTAAGA
*
110159827 T-TGTAAATTCAACCTGTTACCCTACTGCTTAGGGGTTTAAGGCCCATCGCCTTCGATTTGTTTC
1 TCTGTAAATTCAACCTGTTACCCTACTGCTTAGGGGTTTAAGGCCCATCGCCTTCGATCTGTTTC
*
110159891 CCTACTGCTTAGGGGGTTAAGA
66 CCTACTACTTAGGGGGTTAAGA
* ** * *
110159913 TTTGTAAATTCAGTCTGTTACCCTACTGCTTAGGGGGTTAAGGTCCATCGCCTTCGATCTGTTTC
1 TCTGTAAATTCAACCTGTTACCCTACTGCTTAGGGGTTTAAGGCCCATCGCCTTCGATCTGTTTC
110159978 CCTACTACTTAGGGGGTTAAGA
66 CCTACTACTTAGGGGGTTAAGA
**
110160000 TCTGTAAATTCAACCTGTTACCCTACTGCTTAGGGGTTTAAGGCCCATCATCTTCGATCTGTTTC
1 TCTGTAAATTCAACCTGTTACCCTACTGCTTAGGGGTTTAAGGCCCATCGCCTTCGATCTGTTTC
*
110160065 CCTACTGCTTAGGGGGTTAAGA
66 CCTACTACTTAGGGGGTTAAGA
* * * *
110160087 TCTGTAAATTTAGCCTGCTACCCTACTGCTTAGGGGGTTAAG
1 TCTGTAAATTCAACCTGTTACCCTACTGCTTAGGGGTTTAAG
110160129 ATCTGTAAAT
Statistics
Matches: 276, Mismatches: 25, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
86 79 0.29
87 197 0.71
ACGTcount: A:0.20, C:0.22, G:0.22, T:0.36
Consensus pattern (87 bp):
TCTGTAAATTCAACCTGTTACCCTACTGCTTAGGGGTTTAAGGCCCATCGCCTTCGATCTGTTTC
CCTACTACTTAGGGGGTTAAGA
Found at i:110160029 original size:130 final size:130
Alignment explanation
Indices: 110159636--110160208 Score: 382
Period size: 130 Copynumber: 4.5 Consensus size: 130
110159626 TTCAGCTTGG
* *** * *
110159636 TACCCTACTGCTTAGGGGTTTAAGGCCCATCGTCTTCGATCTGTTTCCCTACTGCTTAGGGTGTT
1 TACCCTACTGCTTAGGGGTTTAAGACCCATCAAATTCGATCTGTTACCCTACTGCTTAGGGGGTT
* * ** * * * *
110159701 AAGA-CCTGTAAATTTAGCCTATTA--CT-CTAC-T----GTTTAGGGTCTGTAAATTTAACCTG
66 AAGATCC-ATAAACTTAGCCTGCTACCCTACTACTTAGGGGGTTAAGATCTGTAAATTCAACCTG
110159757 T
130 T
* ** *** * * *
110159758 TACCCTACTGCTTAGGGGTTTAAGGCTTATCGTCTTTGATCTGTTTCCCTACTACTTAGGGGGTT
1 TACCCTACTGCTTAGGGGTTTAAGACCCATCAAATTCGATCTGTTACCCTACTGCTTAGGGGGTT
** * * * * ** ** *** * **
110159823 AAGAT-TGTAAA-TTCAACCTGTTACCCTACTGCTTAGGGGTTTAAGGCCCATCGCCTTCGATTT
66 AAGATCCATAAACTT-AGCCTGCTACCCTACTACTTAGGGGGTTAAGATCTGT-AAATTCAACCT
110159886 GT
129 GT
* * ****
110159888 TTCCCTACTGCTTAGGGGGTTAAGATTTGT-AAATTC-AGTCTGTTACCCTACTGCTTAGGGGGT
1 TACCCTACTGCTTAGGGGTTTAAGACCCATCAAATTCGA-TCTGTTACCCTACTGCTTAGGGGGT
* *** * * * *
110159951 TAAGGTCCATCGCCTTCGATCTGTTTCCCTACTACTTAGGGGGTTAAGATCTGTAAATTCAACCT
65 TAAGATCCATAAACTTAG-CCTGCTACCCTACTACTTAGGGGGTTAAGATCTGTAAATTCAACCT
110160016 GT
129 GT
* ** *
110160018 TACCCTACTGCTTAGGGGTTTAAGGCCCATCATCTTCGATCTGTTTCCCTACTGCTTAGGGGGTT
1 TACCCTACTGCTTAGGGGTTTAAGACCCATCAAATTCGATCTGTTACCCTACTGCTTAGGGGGTT
** * * *
110160083 AAGATCTGTAAATTTAGCCTGCTACCCTACTGCTTAGGGGGTTAAGATCTGTAAATTCAGCCTGT
66 AAGATCCATAAACTTAGCCTGCTACCCTACTACTTAGGGGGTTAAGATCTGTAAATTCAACCTGT
* * *** *
110160148 TACCCTACTACTTAGGGGTTTAAGACCCTTCTTCTTCGATCTGCT-CCACTACTGCTTAGGG
1 TACCCTACTGCTTAGGGGTTTAAGACCCATCAAATTCGATCTGTTACC-CTACTGCTTAGGG
110160209 AGATAAGGTC
Statistics
Matches: 352, Mismatches: 81, Indels: 28
0.76 0.18 0.06
Matches are distributed among these distances:
120 2 0.01
121 12 0.03
122 64 0.18
123 2 0.01
124 3 0.01
125 1 0.00
128 1 0.00
129 41 0.12
130 158 0.45
131 67 0.19
132 1 0.00
ACGTcount: A:0.20, C:0.23, G:0.21, T:0.36
Consensus pattern (130 bp):
TACCCTACTGCTTAGGGGTTTAAGACCCATCAAATTCGATCTGTTACCCTACTGCTTAGGGGGTT
AAGATCCATAAACTTAGCCTGCTACCCTACTACTTAGGGGGTTAAGATCTGTAAATTCAACCTGT
Found at i:110160234 original size:86 final size:86
Alignment explanation
Indices: 110160101--110160481 Score: 505
Period size: 86 Copynumber: 4.4 Consensus size: 86
110160091 TAAATTTAGC
* * * ** * *
110160101 CTGCTACC-CTACTGCTTAGGGGGTTAAGATCTGTAAATTCAGCCTGTTACCCTACTACTTAGGG
1 CTGCT-CCACTACTGCTTAGGGAGATAAGATCTG-CAATTTGGTCTGTTACCCTACTGCTTAGGG
*
110160165 GTTTAAGACCCTTCTTCTTCGAT
64 GTTTAAGACCCTTCGTCTTCGAT
* *
110160188 CTGCTCCACTACTGCTTAGGGAGATAAGGTCTGCAATTTGGTCTGTTACACTACTGCTTAGGGGT
1 CTGCTCCACTACTGCTTAGGGAGATAAGATCTGCAATTTGGTCTGTTACCCTACTGCTTAGGGGT
110160253 TTAAGACCCTTCGTCTTCGAT
66 TTAAGACCCTTCGTCTTCGAT
*
110160274 CTGCTCCACTACTGCTTAGGGAGATAAGATTTGCAATTTGGTCTGTTACCCTACTGCTTAGGGGT
1 CTGCTCCACTACTGCTTAGGGAGATAAGATCTGCAATTTGGTCTGTTACCCTACTGCTTAGGGGT
110160339 TTAAGACCCTTCGTCTTCGAT
66 TTAAGACCCTTCGTCTTCGAT
** * *
110160360 CTATTCCACTACTGCTTAGGGAAATAAGATCTGCAATTCGGTCTGTTACCCTACTGCTTAGGGGT
1 CTGCTCCACTACTGCTTAGGGAGATAAGATCTGCAATTTGGTCTGTTACCCTACTGCTTAGGGGT
* * ** *
110160425 TTAAGGCCCATCAACCTCGAT
66 TTAAGACCCTTCGTCTTCGAT
* * * *
110160446 TTGTTTCC-CTACTACTTAAGGAGATAAGATCTGCAA
1 CTG-CTCCACTACTGCTTAGGGAGATAAGATCTGCAA
110160482 ATTCACTGAT
Statistics
Matches: 264, Mismatches: 28, Indels: 5
0.89 0.09 0.02
Matches are distributed among these distances:
86 233 0.88
87 31 0.12
ACGTcount: A:0.22, C:0.24, G:0.21, T:0.33
Consensus pattern (86 bp):
CTGCTCCACTACTGCTTAGGGAGATAAGATCTGCAATTTGGTCTGTTACCCTACTGCTTAGGGGT
TTAAGACCCTTCGTCTTCGAT
Done.