Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr6
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: 44797108
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 921406 characters in sequence are not A, C, G, or T
File 59 of 144
Found at i:18068017 original size:44 final size:44
Alignment explanation
Indices: 18067968--18068524 Score: 495
Period size: 44 Copynumber: 12.0 Consensus size: 44
18067958 AGGGTTTGAC
* * *
18067968 GCTTCAATCTGCTCCAATGCAACTTCAGGGAGATGAGACTTGTA
1 GCTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGTA
* *
18068012 ACTTCAATCTGTTCCACTGCAACTTCAGGGAGATAAGATTCATAACTTGTA
1 GCTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAG----AT---TTGTA
* * *
18068063 GCTTTAATCTGTTCCACTGCAACTTCAGGGAAATAAGATTTGTA
1 GCTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGTA
* * *
18068107 GTTTCAATCAGCTCCACTGCAACTTCAAGGAGATAAGATTCATAACTTGTA
1 GCTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAG----AT---TTGTA
* * * * *
18068158 GCTTTAATTTGTTCCACTACAACTTCAGGGAAATAAGATTTGTA
1 GCTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGTA
* * *
18068202 GTTTTAATCTGCTCCACTGCAACTTCAAGGAGATAAGATTCATAACTTGTA
1 GCTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAG----AT---TTGTA
* * * * *
18068253 GCTTTAATCTGTTCTACTGCAACTTCAAGGAAATAAGATTTGTA
1 GCTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGTA
* * *
18068297 GCTTCAATCTGCTCCACTGCAACTCCAGGGTGAAAAGATTTGTA
1 GCTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGTA
* *
18068341 GCTTCAATTTGCTCCACTGCAACTTTAGGGAGATAAGATTTGTA
1 GCTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGTA
* * * *
18068385 ACTTCAATCTGCTTCACTGTAACTCCAGGGAGATAAGATTTGTA
1 GCTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGTA
* * *
18068429 ACTTCAATATGCTCCACTG-ACTCTTCAGGGAGATAAGATTTGTAACTTATA
1 GCTTCAATCTGCTCCACTGCA-ACTTCAGGGAGATAAGATTTG-------TA
* * *
18068480 GCTTTAATCTGTTCCACTGCAACTTCAGGGAAATAAGATTTGTA
1 GCTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGTA
18068524 G
1 G
18068525 TTTTATTGAT
Statistics
Matches: 422, Mismatches: 61, Indels: 60
0.78 0.11 0.11
Matches are distributed among these distances:
43 1 0.00
44 262 0.62
47 6 0.01
48 5 0.01
51 147 0.35
52 1 0.00
ACGTcount: A:0.30, C:0.20, G:0.18, T:0.32
Consensus pattern (44 bp):
GCTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGTA
Found at i:18068113 original size:95 final size:95
Alignment explanation
Indices: 18067968--18068424 Score: 595
Period size: 95 Copynumber: 4.9 Consensus size: 95
18067958 AGGGTTTGAC
* * * * * * * *
18067968 GCTTCAATCTGCTCCAATGCAACTTCAGGGAGATGAGACTTGTAACTTCAATCTGTTCCACTGCA
1 GCTTTAATCTGTTCCACTGCAACTTCAGGGAAATAAGATTTGTAGCTTCAATCTGCTCCACTGCA
18068033 ACTTCAGGGAGATAAGATTCATAACTTGTA
66 ACTTCAGGGAGATAAGATTCATAACTTGTA
* *
18068063 GCTTTAATCTGTTCCACTGCAACTTCAGGGAAATAAGATTTGTAGTTTCAATCAGCTCCACTGCA
1 GCTTTAATCTGTTCCACTGCAACTTCAGGGAAATAAGATTTGTAGCTTCAATCTGCTCCACTGCA
*
18068128 ACTTCAAGGAGATAAGATTCATAACTTGTA
66 ACTTCAGGGAGATAAGATTCATAACTTGTA
* * * *
18068158 GCTTTAATTTGTTCCACTACAACTTCAGGGAAATAAGATTTGTAGTTTTAATCTGCTCCACTGCA
1 GCTTTAATCTGTTCCACTGCAACTTCAGGGAAATAAGATTTGTAGCTTCAATCTGCTCCACTGCA
*
18068223 ACTTCAAGGAGATAAGATTCATAACTTGTA
66 ACTTCAGGGAGATAAGATTCATAACTTGTA
* *
18068253 GCTTTAATCTGTTCTACTGCAACTTCAAGGAAATAAGATTTGTAGCTTCAATCTGCTCCACTGCA
1 GCTTTAATCTGTTCCACTGCAACTTCAGGGAAATAAGATTTGTAGCTTCAATCTGCTCCACTGCA
* * *
18068318 ACTCCAGGGTGA-AA-A--GAT---TTGTA
66 ACTTCAGGGAGATAAGATTCATAACTTGTA
* * * * * * * *
18068341 GCTTCAATTTGCTCCACTGCAACTTTAGGGAGATAAGATTTGTAACTTCAATCTGCTTCACTGTA
1 GCTTTAATCTGTTCCACTGCAACTTCAGGGAAATAAGATTTGTAGCTTCAATCTGCTCCACTGCA
*
18068406 ACTCCAGGGAGATAAGATT
66 ACTTCAGGGAGATAAGATT
18068425 TGTAACTTCA
Statistics
Matches: 322, Mismatches: 36, Indels: 11
0.87 0.10 0.03
Matches are distributed among these distances:
88 71 0.22
89 2 0.01
90 1 0.00
91 2 0.01
93 1 0.00
94 2 0.01
95 243 0.75
ACGTcount: A:0.30, C:0.20, G:0.18, T:0.32
Consensus pattern (95 bp):
GCTTTAATCTGTTCCACTGCAACTTCAGGGAAATAAGATTTGTAGCTTCAATCTGCTCCACTGCA
ACTTCAGGGAGATAAGATTCATAACTTGTA
Found at i:18068201 original size:139 final size:132
Alignment explanation
Indices: 18067970--18068527 Score: 474
Period size: 139 Copynumber: 4.0 Consensus size: 132
18067960 GGTTTGACGC
* * * * * * * *
18067970 TTCAATCTGCTCCAATGCAACTTCAGGGAGATGAGACTTGTAACTTCAATCTGTTCCACTGCAAC
1 TTCAATCTGCTCCACTGCAACTTCAAGGAGATAAGATTTGTAGCTTCAATATGCTCCACTACAAC
* *
18068035 TTCAGGGAGATAAGATTCATAACTTGTAGCTTTAATCTGTTCCACTGCAACTTCAGGGAAATAAG
66 TTCAGGGAAATAAG----AT---TTGTAGCTTTAATCTGCTCCACTGCAACTTCAGGGAAATAAG
18068100 ATTTGTAGT
124 ATTTGTAGT
* * * *
18068109 TTCAATCAGCTCCACTGCAACTTCAAGGAGATAAGATTCATAACTTGTAGCTTTAATTTGTTCCA
1 TTCAATCTGCTCCACTGCAACTTCAAGGAGATAAG----AT---TTGTAGCTTCAATATGCTCCA
* * *
18068174 CTACAACTTCAGGGAAATAAGATTTGTAGTTTTAATCTGCTCCACTGCAACTTCAAGGAGATAAG
59 CTACAACTTCAGGGAAATAAGATTTGTAGCTTTAATCTGCTCCACTGCAACTTCAGGGAAATAAG
18068239 ATTCATAACTTGTAGCT
124 ----AT---TTGTAG-T
* * * * *
18068256 TT-AATCTGTTCTACTGCAACTTCAAGGAAATAAGATTTGTAGCTTCAATCTGCTCCACTGCAAC
1 TTCAATCTGCTCCACTGCAACTTCAAGGAGATAAGATTTGTAGCTTCAATATGCTCCACTACAAC
* * * * * *
18068320 TCCAGGGTGAA-AAGATTTGTAGCTTCAATTTGCTCCACTGCAACTTTAGGGAGATAAGATTTGT
66 TTCAGGG-AAATAAGATTTGTAGCTTTAATCTGCTCCACTGCAACTTCAGGGAAATAAGATTTGT
**
18068384 AAC
130 AGT
* * * * * *
18068387 TTCAATCTGCTTCACTGTAACTCCAGGGAGATAAGATTTGTAACTTCAATATGCTCCACTGAC-T
1 TTCAATCTGCTCCACTGCAACTTCAAGGAGATAAGATTTGTAGCTTCAATATGCTCCACT-ACAA
* *
18068451 CTTCAGGGAGATAAGATTTGTAACTTATAGCTTTAATCTGTTCCACTGCAACTTCAGGGAAATAA
65 CTTCAGGGAAATAAGATTTG-------TAGCTTTAATCTGCTCCACTGCAACTTCAGGGAAATAA
18068516 GATTTGTAGT
123 GATTTGTAGT
18068526 TT
1 TT
18068528 TATTGATATG
Statistics
Matches: 341, Mismatches: 52, Indels: 52
0.77 0.12 0.12
Matches are distributed among these distances:
131 3 0.01
132 68 0.20
133 1 0.00
135 2 0.01
139 184 0.54
140 2 0.01
142 4 0.01
143 3 0.01
146 71 0.21
147 3 0.01
ACGTcount: A:0.30, C:0.20, G:0.18, T:0.33
Consensus pattern (132 bp):
TTCAATCTGCTCCACTGCAACTTCAAGGAGATAAGATTTGTAGCTTCAATATGCTCCACTACAAC
TTCAGGGAAATAAGATTTGTAGCTTTAATCTGCTCCACTGCAACTTCAGGGAAATAAGATTTGTA
GT
Found at i:18072176 original size:12 final size:12
Alignment explanation
Indices: 18072151--18072189 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
18072141 ACTCGCTTCT
* *
18072151 TTACTTACTCAC
1 TTACTTGCTTAC
*
18072163 TTACTTGTTTAC
1 TTACTTGCTTAC
18072175 TTACTTGCTTAC
1 TTACTTGCTTAC
18072187 TTA
1 TTA
18072190 AATAACTCAT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
12 23 1.00
ACGTcount: A:0.21, C:0.23, G:0.05, T:0.51
Consensus pattern (12 bp):
TTACTTGCTTAC
Found at i:18074798 original size:31 final size:30
Alignment explanation
Indices: 18074763--18074824 Score: 88
Period size: 30 Copynumber: 2.0 Consensus size: 30
18074753 ATTAGGGGGT
* *
18074763 TGGGAGAGGAGTAAAAGTTTTGTGGGGAAAG
1 TGGGA-AGGAGTAAAAGTTTTGAGGGAAAAG
*
18074794 TGGGAATGAGTAAAAGTTTTGAGGGAAAAG
1 TGGGAAGGAGTAAAAGTTTTGAGGGAAAAG
18074824 T
1 T
18074825 AAAAAGGTTT
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
30 23 0.82
31 5 0.18
ACGTcount: A:0.35, C:0.00, G:0.40, T:0.24
Consensus pattern (30 bp):
TGGGAAGGAGTAAAAGTTTTGAGGGAAAAG
Found at i:18075641 original size:189 final size:189
Alignment explanation
Indices: 18075321--18075695 Score: 588
Period size: 189 Copynumber: 2.0 Consensus size: 189
18075311 GCTGCACAGA
*
18075321 TGCCCATGATGCATGCTTCATATTTTGCCATATTATTCATGCAATAAAAATCCAATTTACTAGTA
1 TGCCCATGATGCATGCTTCATATTTTGCCATATTATTCATGCAATAAAAATCCAAATTACTAGTA
* * *
18075386 AAGGGATAATGACCCCCATTTAGGGATACCAAGACTGCCTCGATTCTGTTACCTATAGCGTTTGA
66 AAGGGATAATGACCCCCATTTAGGGATACCAAGACTGCCCCGATTCCGTTACCCATAGCGTTTGA
* * *
18075451 AGCTCCGTTAAAATTTAGTTTCTAAGGATGTCCTTCTTGAGCACATTATTCAGTAGGGG
131 AGCTCCGTCAAAATTTAGTTTCCAAAGATGTCCTTCTTGAGCACATTATTCAGTAGGGG
* * *
18075510 TGCCCATGATGCATGCTTCATATTTTTCCATATTATTCGTGCAATAAAAATCCAAATTGCTAGTA
1 TGCCCATGATGCATGCTTCATATTTTGCCATATTATTCATGCAATAAAAATCCAAATTACTAGTA
* * * * *
18075575 AAGGGATAATGATCTCCGTTTAGGGATACTAGGACTGCCCCGATTCCGTTACCCATAGCGTTTGA
66 AAGGGATAATGACCCCCATTTAGGGATACCAAGACTGCCCCGATTCCGTTACCCATAGCGTTTGA
* * *
18075640 AGCTTCGTCAAAATTTAGTTTCCAAAGATGTCCTTCTTGAGCGCATTCTTCAGTAG
131 AGCTCCGTCAAAATTTAGTTTCCAAAGATGTCCTTCTTGAGCACATTATTCAGTAG
18075696 TCACAACATA
Statistics
Matches: 168, Mismatches: 18, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
189 168 1.00
ACGTcount: A:0.28, C:0.21, G:0.18, T:0.33
Consensus pattern (189 bp):
TGCCCATGATGCATGCTTCATATTTTGCCATATTATTCATGCAATAAAAATCCAAATTACTAGTA
AAGGGATAATGACCCCCATTTAGGGATACCAAGACTGCCCCGATTCCGTTACCCATAGCGTTTGA
AGCTCCGTCAAAATTTAGTTTCCAAAGATGTCCTTCTTGAGCACATTATTCAGTAGGGG
Found at i:18081120 original size:19 final size:20
Alignment explanation
Indices: 18081098--18081141 Score: 65
Period size: 19 Copynumber: 2.3 Consensus size: 20
18081088 TTATGAATCT
*
18081098 TAATGCATATG-ATGAAATG
1 TAATGCAGATGAATGAAATG
18081117 TAATGCAGATGAATGAAATG
1 TAATGCAGATGAATGAAATG
18081137 -AATGC
1 TAATGC
18081142 GAAAAGAAGC
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 15 0.65
20 8 0.35
ACGTcount: A:0.43, C:0.07, G:0.23, T:0.27
Consensus pattern (20 bp):
TAATGCAGATGAATGAAATG
Found at i:18088238 original size:20 final size:21
Alignment explanation
Indices: 18088197--18088240 Score: 56
Period size: 22 Copynumber: 2.1 Consensus size: 21
18088187 ATATATTAGA
18088197 TTATATATTTTATTCTAAATTT
1 TTATATATTTTATTCT-AATTT
18088219 TTATATA-TTTATTTCT-ATTT
1 TTATATATTTTA-TTCTAATTT
18088239 TT
1 TT
18088241 CTGAAGAGTT
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
20 6 0.29
21 4 0.19
22 11 0.52
ACGTcount: A:0.27, C:0.05, G:0.00, T:0.68
Consensus pattern (21 bp):
TTATATATTTTATTCTAATTT
Found at i:18099445 original size:24 final size:24
Alignment explanation
Indices: 18099418--18099476 Score: 82
Period size: 24 Copynumber: 2.5 Consensus size: 24
18099408 AAAGAACTTA
*
18099418 TAACGGGTAGCTCCAAAGAGCAAT
1 TAACGGGTAGCTCCAAAGAGAAAT
**
18099442 TAACGGGTAGCTCTGAAGAGAAAT
1 TAACGGGTAGCTCCAAAGAGAAAT
*
18099466 TAACGAGTAGC
1 TAACGGGTAGC
18099477 ACCAGATAGC
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 31 1.00
ACGTcount: A:0.37, C:0.17, G:0.27, T:0.19
Consensus pattern (24 bp):
TAACGGGTAGCTCCAAAGAGAAAT
Found at i:18099546 original size:26 final size:25
Alignment explanation
Indices: 18099513--18099561 Score: 80
Period size: 26 Copynumber: 1.9 Consensus size: 25
18099503 CAAGCGAGCA
18099513 TTAACGGGAAGCTCACAAAGAGCCT
1 TTAACGGGAAGCTCACAAAGAGCCT
*
18099538 TTAATCGGGAAGCTCACGAAGAGC
1 TTAA-CGGGAAGCTCACAAAGAGC
18099562 TATATAACAG
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
25 4 0.18
26 18 0.82
ACGTcount: A:0.35, C:0.22, G:0.27, T:0.16
Consensus pattern (25 bp):
TTAACGGGAAGCTCACAAAGAGCCT
Found at i:18100056 original size:20 final size:21
Alignment explanation
Indices: 18100023--18100062 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
18100013 GATCTATACG
18100023 AGTAAATTTAACA-TCAATTT
1 AGTAAATTTAACATTCAATTT
18100043 AGTACAATTT-ACATTCAATT
1 AGTA-AATTTAACATTCAATT
18100063 CAATCCAAGT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 7 0.39
21 11 0.61
ACGTcount: A:0.42, C:0.12, G:0.05, T:0.40
Consensus pattern (21 bp):
AGTAAATTTAACATTCAATTT
Found at i:18103966 original size:6 final size:6
Alignment explanation
Indices: 18103955--18103983 Score: 58
Period size: 6 Copynumber: 4.8 Consensus size: 6
18103945 TTTCAACTGG
18103955 TGGTGA TGGTGA TGGTGA TGGTGA TGGTG
1 TGGTGA TGGTGA TGGTGA TGGTGA TGGTG
18103984 CAGAAGGCTG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.14, C:0.00, G:0.52, T:0.34
Consensus pattern (6 bp):
TGGTGA
Found at i:18106090 original size:11 final size:10
Alignment explanation
Indices: 18106076--18106127 Score: 50
Period size: 10 Copynumber: 4.8 Consensus size: 10
18106066 AAATCCAATT
18106076 AAAATCAAAGG
1 AAAA-CAAAGG
*
18106087 AAAACAAAGT
1 AAAACAAAGG
18106097 AAAACAATAGG
1 AAAACAA-AGG
*
18106108 AAAACGAAAAAG
1 AAAAC--AAAGG
18106120 AAAACAAA
1 AAAACAAA
18106128 TGATTGAATT
Statistics
Matches: 35, Mismatches: 3, Indels: 7
0.78 0.07 0.16
Matches are distributed among these distances:
10 15 0.43
11 11 0.31
12 7 0.20
13 2 0.06
ACGTcount: A:0.71, C:0.10, G:0.13, T:0.06
Consensus pattern (10 bp):
AAAACAAAGG
Found at i:18107949 original size:18 final size:17
Alignment explanation
Indices: 18107907--18107950 Score: 52
Period size: 17 Copynumber: 2.5 Consensus size: 17
18107897 GAGATTTTTC
18107907 TTTATTTTTTTTTAAAT
1 TTTATTTTTTTTTAAAT
* * *
18107924 TTTGTTTTTTTTTTATT
1 TTTATTTTTTTTTAAAT
18107941 TTTAATTTTT
1 TTT-ATTTTT
18107951 AATTTCTATC
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
17 17 0.77
18 5 0.23
ACGTcount: A:0.16, C:0.00, G:0.02, T:0.82
Consensus pattern (17 bp):
TTTATTTTTTTTTAAAT
Found at i:18109697 original size:14 final size:14
Alignment explanation
Indices: 18109660--18109699 Score: 57
Period size: 14 Copynumber: 3.0 Consensus size: 14
18109650 CTTTGTTCAA
*
18109660 TTTC-TCTTTTCTT
1 TTTCTTCTTTTTTT
18109673 TTTCTTCTTTTTTT
1 TTTCTTCTTTTTTT
18109687 TTTCTT-TTTTTTT
1 TTTCTTCTTTTTTT
18109700 GCTTATTTTA
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
13 11 0.44
14 14 0.56
ACGTcount: A:0.00, C:0.15, G:0.00, T:0.85
Consensus pattern (14 bp):
TTTCTTCTTTTTTT
Found at i:18110106 original size:20 final size:21
Alignment explanation
Indices: 18110057--18110149 Score: 68
Period size: 20 Copynumber: 4.4 Consensus size: 21
18110047 ACAACAAAAA
18110057 TTATAAAAAATTCAAAATAAT
1 TTATAAAAAATTCAAAATAAT
**
18110078 TT-TTCAAAATT-AAAA-ACAT
1 TTATAAAAAATTCAAAATA-AT
*
18110097 TTATAAAAAATCCAAAATTTATAT
1 TTATAAAAAATTCAAAA--TA-AT
* * *
18110121 TTTTAAAAAATTTATAATAAT
1 TTATAAAAAATTCAAAATAAT
18110142 TT-TAAAAA
1 TTATAAAAA
18110150 TTTTAAAGAA
Statistics
Matches: 56, Mismatches: 10, Indels: 13
0.71 0.13 0.16
Matches are distributed among these distances:
18 1 0.02
19 8 0.14
20 19 0.34
21 10 0.18
22 2 0.04
24 16 0.29
ACGTcount: A:0.56, C:0.05, G:0.00, T:0.39
Consensus pattern (21 bp):
TTATAAAAAATTCAAAATAAT
Found at i:18112471 original size:3 final size:3
Alignment explanation
Indices: 18112463--18112521 Score: 66
Period size: 3 Copynumber: 19.7 Consensus size: 3
18112453 TTTAATACTG
* * * *
18112463 TTA TTA TTA TATA ATA TTA CTA ATA TT- GTA TTA TTA TTA TTA TTA
1 TTA TTA TTA T-TA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
18112508 TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TT
18112522 TATGTATACT
Statistics
Matches: 47, Mismatches: 7, Indels: 4
0.81 0.12 0.07
Matches are distributed among these distances:
2 1 0.02
3 44 0.94
4 2 0.04
ACGTcount: A:0.36, C:0.02, G:0.02, T:0.61
Consensus pattern (3 bp):
TTA
Found at i:18115586 original size:23 final size:27
Alignment explanation
Indices: 18115557--18115609 Score: 69
Period size: 28 Copynumber: 2.1 Consensus size: 27
18115547 ACTTGACTTG
18115557 TTTTCA-T-GTTTATA-A-TATATTAT
1 TTTTCATTGGTTTATATATTATATTAT
18115580 TTTTCATTTGGTTTATATATTATATTAT
1 TTTTCA-TTGGTTTATATATTATATTAT
18115608 TT
1 TT
18115610 ATATCATATA
Statistics
Matches: 25, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
23 6 0.24
25 1 0.04
26 7 0.28
27 1 0.04
28 10 0.40
ACGTcount: A:0.26, C:0.04, G:0.06, T:0.64
Consensus pattern (27 bp):
TTTTCATTGGTTTATATATTATATTAT
Found at i:18117581 original size:4 final size:4
Alignment explanation
Indices: 18117572--18117599 Score: 56
Period size: 4 Copynumber: 7.0 Consensus size: 4
18117562 AAGTTGAATA
18117572 TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG
18117600 CATATGTATA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 24 1.00
ACGTcount: A:0.25, C:0.00, G:0.25, T:0.50
Consensus pattern (4 bp):
TATG
Found at i:18121120 original size:21 final size:20
Alignment explanation
Indices: 18121092--18121131 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 20
18121082 AATTAGATAG
18121092 TTTTGTTATTTTTATTTTTA
1 TTTTGTTATTTTTATTTTTA
18121112 TTTTAGTTATTTTTATTTTT
1 TTTT-GTTATTTTTATTTTT
18121132 CTCTAATATT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 4 0.21
21 15 0.79
ACGTcount: A:0.15, C:0.00, G:0.05, T:0.80
Consensus pattern (20 bp):
TTTTGTTATTTTTATTTTTA
Found at i:18127075 original size:11 final size:11
Alignment explanation
Indices: 18127061--18127087 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
18127051 ATTTTTTTCA
18127061 ATTATTTTATT
1 ATTATTTTATT
18127072 ATTATTTTATT
1 ATTATTTTATT
18127083 ATTAT
1 ATTAT
18127088 AATACCATTA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (11 bp):
ATTATTTTATT
Found at i:18127354 original size:13 final size:14
Alignment explanation
Indices: 18127336--18127366 Score: 55
Period size: 13 Copynumber: 2.3 Consensus size: 14
18127326 TTTCATAGTT
18127336 TATTTATATAT-TA
1 TATTTATATATATA
18127349 TATTTATATATATA
1 TATTTATATATATA
18127363 TATT
1 TATT
18127367 GTTCTTTTCT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 11 0.65
14 6 0.35
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (14 bp):
TATTTATATATATA
Found at i:18127422 original size:15 final size:16
Alignment explanation
Indices: 18127402--18127431 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
18127392 CTATACATAC
18127402 ATTTTC-ATTTTTTTT
1 ATTTTCTATTTTTTTT
18127417 ATTTTCTATTTTTTT
1 ATTTTCTATTTTTTT
18127432 ACTTTTATAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 6 0.43
16 8 0.57
ACGTcount: A:0.13, C:0.07, G:0.00, T:0.80
Consensus pattern (16 bp):
ATTTTCTATTTTTTTT
Found at i:18129124 original size:31 final size:31
Alignment explanation
Indices: 18129089--18129157 Score: 113
Period size: 31 Copynumber: 2.3 Consensus size: 31
18129079 AGGGTTATCT
18129089 TCTATTCATATCCATTTATTTATTCAATTGA
1 TCTATTCATATCCATTTATTTATTCAATTGA
* *
18129120 TCTATTCATATCCATTTGTTTATTCGATTGA
1 TCTATTCATATCCATTTATTTATTCAATTGA
18129151 TCT-TTCA
1 TCTATTCA
18129158 CCTTTTAATT
Statistics
Matches: 36, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
30 4 0.11
31 32 0.89
ACGTcount: A:0.25, C:0.17, G:0.06, T:0.52
Consensus pattern (31 bp):
TCTATTCATATCCATTTATTTATTCAATTGA
Found at i:18138577 original size:37 final size:37
Alignment explanation
Indices: 18138501--18138577 Score: 86
Period size: 37 Copynumber: 2.1 Consensus size: 37
18138491 CTTAATCACT
* *
18138501 TTAATATTAAATTAATATAATACTATCAAGATAAGTA
1 TTAATATTAAATTAATATAAAACTATCAAAATAAGTA
* *
18138538 TTAA-ATTAAATTTAATATTAAAATTATGAAAATAA-TA
1 TTAATATTAAA-TTAATA-TAAAACTATCAAAATAAGTA
18138575 TTA
1 TTA
18138578 TTTTTGGATT
Statistics
Matches: 34, Mismatches: 4, Indels: 4
0.81 0.10 0.10
Matches are distributed among these distances:
36 6 0.18
37 15 0.44
38 13 0.38
ACGTcount: A:0.53, C:0.03, G:0.04, T:0.40
Consensus pattern (37 bp):
TTAATATTAAATTAATATAAAACTATCAAAATAAGTA
Found at i:18138639 original size:21 final size:21
Alignment explanation
Indices: 18138615--18138654 Score: 64
Period size: 21 Copynumber: 1.9 Consensus size: 21
18138605 TTTCACTACT
18138615 CAACCACC-AAATAATCACCCC
1 CAACCACCGAAAT-ATCACCCC
18138636 CAACCACCGAAATATCACC
1 CAACCACCGAAATATCACC
18138655 GTCGTCGCCT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
21 14 0.78
22 4 0.22
ACGTcount: A:0.42, C:0.45, G:0.03, T:0.10
Consensus pattern (21 bp):
CAACCACCGAAATATCACCCC
Found at i:18142383 original size:11 final size:11
Alignment explanation
Indices: 18142359--18142417 Score: 52
Period size: 11 Copynumber: 5.6 Consensus size: 11
18142349 CCTTACTCAT
* *
18142359 TTCTCACAATA
1 TTCTCTCAAAA
18142370 TTCTCTCAAAA
1 TTCTCTCAAAA
*
18142381 -T-TCTCAAAC
1 TTCTCTCAAAA
**
18142390 CACTCTCAAAA
1 TTCTCTCAAAA
18142401 TTCTCTC-AAA
1 TTCTCTCAAAA
18142411 TTCTCTC
1 TTCTCTC
18142418 TTAAATTTAT
Statistics
Matches: 39, Mismatches: 7, Indels: 5
0.76 0.14 0.10
Matches are distributed among these distances:
9 7 0.18
10 11 0.28
11 21 0.54
ACGTcount: A:0.32, C:0.32, G:0.00, T:0.36
Consensus pattern (11 bp):
TTCTCTCAAAA
Found at i:18143876 original size:5 final size:5
Alignment explanation
Indices: 18143866--18143903 Score: 76
Period size: 5 Copynumber: 7.6 Consensus size: 5
18143856 TTTTTATGCT
18143866 TTATA TTATA TTATA TTATA TTATA TTATA TTATA TTA
1 TTATA TTATA TTATA TTATA TTATA TTATA TTATA TTA
18143904 AAAAAAAAAA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 33 1.00
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (5 bp):
TTATA
Found at i:18144753 original size:24 final size:24
Alignment explanation
Indices: 18144721--18144772 Score: 79
Period size: 24 Copynumber: 2.2 Consensus size: 24
18144711 AAATTTTATT
18144721 ATTATTATTATTGTTAAT-ATAATA
1 ATTATTATTATT-TTAATGATAATA
*
18144745 ATTATTATTATTTTAATGATTATA
1 ATTATTATTATTTTAATGATAATA
18144769 ATTA
1 ATTA
18144773 AAAGTGAAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
23 5 0.19
24 21 0.81
ACGTcount: A:0.40, C:0.00, G:0.04, T:0.56
Consensus pattern (24 bp):
ATTATTATTATTTTAATGATAATA
Found at i:18146347 original size:5 final size:5
Alignment explanation
Indices: 18146339--18146400 Score: 71
Period size: 5 Copynumber: 13.2 Consensus size: 5
18146329 TTTTTTACTT
*
18146339 ATATA ATATA ATACA ATATA ATATA ATATA ATAT- ATA-A TATATA ATA-A
1 ATATA ATATA ATATA ATATA ATATA ATATA ATATA ATATA -ATATA ATATA
18146387 A-ATA ATAT- ATATA A
1 ATATA ATATA ATATA A
18146401 AGCATAAAAA
Statistics
Matches: 49, Mismatches: 2, Indels: 12
0.78 0.03 0.19
Matches are distributed among these distances:
3 1 0.02
4 11 0.22
5 36 0.73
6 1 0.02
ACGTcount: A:0.61, C:0.02, G:0.00, T:0.37
Consensus pattern (5 bp):
ATATA
Found at i:18146376 original size:7 final size:7
Alignment explanation
Indices: 18146364--18146397 Score: 50
Period size: 7 Copynumber: 4.7 Consensus size: 7
18146354 ATATAATATA
18146364 ATATAAT
1 ATATAAT
18146371 ATATAAT
1 ATATAAT
18146378 ATATAAT
1 ATATAAT
*
18146385 AAAATAAT
1 -ATATAAT
18146393 ATATA
1 ATATA
18146398 TAAAGCATAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
7 18 0.75
8 6 0.25
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (7 bp):
ATATAAT
Found at i:18150190 original size:3 final size:3
Alignment explanation
Indices: 18150182--18150222 Score: 55
Period size: 3 Copynumber: 13.7 Consensus size: 3
18150172 TAATCATTAA
* * *
18150182 AAT AAT AAT AAT AAT AAT TAT ATT AAC AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
18150223 AATTTTTATT
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.63, C:0.02, G:0.00, T:0.34
Consensus pattern (3 bp):
AAT
Found at i:18150195 original size:21 final size:20
Alignment explanation
Indices: 18150166--18150225 Score: 57
Period size: 21 Copynumber: 2.9 Consensus size: 20
18150156 TTTTCACTTT
*
18150166 TAATTATAATCATTAAAATAA
1 TAATAATAAT-ATTAAAATAA
* *
18150187 TAATAATAATAATTATATTAA
1 TAATAATAAT-ATTAAAATAA
* *
18150208 CAATAATAATAATAAAAT
1 TAATAATAATATTAAAAT
18150226 TTTTATTCAA
Statistics
Matches: 31, Mismatches: 8, Indels: 1
0.77 0.20 0.03
Matches are distributed among these distances:
20 5 0.16
21 26 0.84
ACGTcount: A:0.60, C:0.03, G:0.00, T:0.37
Consensus pattern (20 bp):
TAATAATAATATTAAAATAA
Found at i:18151043 original size:5 final size:5
Alignment explanation
Indices: 18151035--18151082 Score: 87
Period size: 5 Copynumber: 9.6 Consensus size: 5
18151025 TTTTTTTTTT
*
18151035 TAATA TAATA CAATA TAATA TAATA TAATA TAATA TAATA TAATA TAA
1 TAATA TAATA TAATA TAATA TAATA TAATA TAATA TAATA TAATA TAA
18151083 AGCATAAAAA
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
5 41 1.00
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.38
Consensus pattern (5 bp):
TAATA
Found at i:18151781 original size:18 final size:18
Alignment explanation
Indices: 18151758--18151815 Score: 61
Period size: 16 Copynumber: 3.4 Consensus size: 18
18151748 TTATTATCGT
18151758 TCCAGAGTTAGCATGTGA
1 TCCAGAGTTAGCATGTGA
*
18151776 TCCAGAG-TA-CATGTCA
1 TCCAGAGTTAGCATGTGA
*
18151792 T--GGAGTTAGCATGTGA
1 TCCAGAGTTAGCATGTGA
*
18151808 TCCGGAGT
1 TCCAGAGT
18151816 ACATGTCATG
Statistics
Matches: 33, Mismatches: 3, Indels: 8
0.75 0.07 0.18
Matches are distributed among these distances:
14 3 0.09
15 2 0.06
16 14 0.42
17 2 0.06
18 12 0.36
ACGTcount: A:0.26, C:0.17, G:0.29, T:0.28
Consensus pattern (18 bp):
TCCAGAGTTAGCATGTGA
Found at i:18151798 original size:32 final size:32
Alignment explanation
Indices: 18151762--18151826 Score: 121
Period size: 32 Copynumber: 2.0 Consensus size: 32
18151752 TATCGTTCCA
18151762 GAGTTAGCATGTGATCCAGAGTACATGTCATG
1 GAGTTAGCATGTGATCCAGAGTACATGTCATG
*
18151794 GAGTTAGCATGTGATCCGGAGTACATGTCATG
1 GAGTTAGCATGTGATCCAGAGTACATGTCATG
18151826 G
1 G
18151827 TTTAGGATCC
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.26, C:0.15, G:0.31, T:0.28
Consensus pattern (32 bp):
GAGTTAGCATGTGATCCAGAGTACATGTCATG
Found at i:18152650 original size:32 final size:32
Alignment explanation
Indices: 18152604--18152723 Score: 145
Period size: 32 Copynumber: 3.8 Consensus size: 32
18152594 TTTTTAGAGG
* *
18152604 GATA-TTGTCATCATTTAACAAAATTAAAGTT
1 GATATTTGTTATCATTTCACAAAATTAAAGTT
* *
18152635 GATATTTGTTATCATTTTACAAAAATTGAAGTT
1 GATATTTGTTATCATTTCAC-AAAATTAAAGTT
** *
18152668 G-TAATTTGTTAGAATTTCACAAAATGAAAGTT
1 GAT-ATTTGTTATCATTTCACAAAATTAAAGTT
18152700 GATATTTGTTATCATTTCACAAAA
1 GATATTTGTTATCATTTCACAAAA
18152724 CCACGCGTTT
Statistics
Matches: 75, Mismatches: 10, Indels: 7
0.82 0.11 0.08
Matches are distributed among these distances:
31 4 0.05
32 44 0.59
33 27 0.36
ACGTcount: A:0.39, C:0.08, G:0.12, T:0.41
Consensus pattern (32 bp):
GATATTTGTTATCATTTCACAAAATTAAAGTT
Found at i:18156235 original size:16 final size:16
Alignment explanation
Indices: 18156214--18156282 Score: 129
Period size: 16 Copynumber: 4.2 Consensus size: 16
18156204 TTTGGTTCGC
18156214 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
18156230 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
18156246 TGTATTGGGATTAGAGG
1 TGTATT-GGATTAGAGG
18156263 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
18156279 TGTA
1 TGTA
18156283 ATAGCTAATC
Statistics
Matches: 52, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
16 36 0.69
17 16 0.31
ACGTcount: A:0.25, C:0.00, G:0.38, T:0.38
Consensus pattern (16 bp):
TGTATTGGATTAGAGG
Found at i:18156260 original size:33 final size:32
Alignment explanation
Indices: 18156214--18156282 Score: 129
Period size: 33 Copynumber: 2.1 Consensus size: 32
18156204 TTTGGTTCGC
18156214 TGTATTGGATTAGAGGTGTATTGGATTAGAGG
1 TGTATTGGATTAGAGGTGTATTGGATTAGAGG
18156246 TGTATTGGGATTAGAGGTGTATTGGATTAGAGG
1 TGTATT-GGATTAGAGGTGTATTGGATTAGAGG
18156279 TGTA
1 TGTA
18156283 ATAGCTAATC
Statistics
Matches: 36, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
32 6 0.17
33 30 0.83
ACGTcount: A:0.25, C:0.00, G:0.38, T:0.38
Consensus pattern (32 bp):
TGTATTGGATTAGAGGTGTATTGGATTAGAGG
Found at i:18156348 original size:44 final size:45
Alignment explanation
Indices: 18156263--18156376 Score: 132
Period size: 45 Copynumber: 2.6 Consensus size: 45
18156253 GGATTAGAGG
* *
18156263 TGTATTGGATTAGAGGTGTAATAGCTAATCCACTGTTTGGTTGAA
1 TGTAATGGAATAGAGGTGTAATAGCTAATCCACTGTTTGGTTGAA
***
18156308 TGTAATGGAATAGAGGTGTAATAG-TAATCTTGTGTTTGG-T---
1 TGTAATGGAATAGAGGTGTAATAGCTAATCCACTGTTTGGTTGAA
18156348 TG-AATGGAATAGAGGTGTAATAGCATAAT
1 TGTAATGGAATAGAGGTGTAATAGC-TAAT
18156377 GGAAAAAACT
Statistics
Matches: 62, Mismatches: 5, Indels: 8
0.83 0.07 0.11
Matches are distributed among these distances:
39 21 0.34
40 2 0.03
41 4 0.06
43 1 0.02
44 12 0.19
45 22 0.35
ACGTcount: A:0.31, C:0.05, G:0.28, T:0.36
Consensus pattern (45 bp):
TGTAATGGAATAGAGGTGTAATAGCTAATCCACTGTTTGGTTGAA
Found at i:18156539 original size:18 final size:19
Alignment explanation
Indices: 18156518--18156554 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
18156508 TTATTATTAA
18156518 ATAT-ATTT-TAATTAAAAT
1 ATATAATTTATAA-TAAAAT
18156536 ATATAATTTATAATAAAAT
1 ATATAATTTATAATAAAAT
18156555 TCTTAATAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
18 4 0.24
19 10 0.59
20 3 0.18
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (19 bp):
ATATAATTTATAATAAAAT
Found at i:18156662 original size:59 final size:58
Alignment explanation
Indices: 18156596--18156781 Score: 157
Period size: 59 Copynumber: 3.1 Consensus size: 58
18156586 CTCAAATCAT
* *
18156596 AATATATGATACTATAAAATATAATTTGAAATAATTAATATTAAATATATTTTAATTAA
1 AATATATGATACTATAAAATATAATTT-AAATAATTATTATTAAATATATTTTAATAAA
* * * * *
18156655 AATATATGAT-TTAATAAAATTCTTAATATTAAAT-ATTCTTATATGAAT-T-TTCTAA-AATCA
1 AATATATGATACT-ATAAAA-T-ATAAT-TTAAATAATTATTAT-TAAATATATTTTAATAA--A
* **
18156715 TAATATATAATACTATAAAATATAATTTAACATAATTATTATTAAATATAAGTTAATAAA
1 -AATATATGATACTATAAAATATAATTTAA-ATAATTATTATTAAATATATTTTAATAAA
18156775 AATATAT
1 AATATAT
18156782 AATTTATCAT
Statistics
Matches: 98, Mismatches: 15, Indels: 28
0.70 0.11 0.20
Matches are distributed among these distances:
58 6 0.06
59 38 0.39
60 19 0.19
61 30 0.31
62 5 0.05
ACGTcount: A:0.51, C:0.04, G:0.03, T:0.42
Consensus pattern (58 bp):
AATATATGATACTATAAAATATAATTTAAATAATTATTATTAAATATATTTTAATAAA
Found at i:18156719 original size:120 final size:120
Alignment explanation
Indices: 18156498--18156787 Score: 456
Period size: 120 Copynumber: 2.4 Consensus size: 120
18156488 TTAATCATAT
18156498 TTTAACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTATAATAAAATTCTTAATA
1 TTTAACATAATTATTATTAAATATATTTTAATTAAAATATATAA-TT-TAATAAAATTCTTAATA
* * *
18156563 ATCAATATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAATATAA
64 ATAAATATTCTTATATGAATTTACTAAAATCATAATATATAATACTATAAAATATAA
* * *
18156620 TTTGAA-ATAATTAATATTAAATATATTTTAATTAAAATATATGATTTAATAAAATTCTTAATAT
1 TTT-AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAA
*
18156684 TAAATATTCTTATATGAATTTTCTAAAATCATAATATATAATACTATAAAATATAA
65 TAAATATTCTTATATGAATTTACTAAAATCATAATATATAATACTATAAAATATAA
** *
18156740 TTTAACATAATTATTATTAAATATAAGTTAATAAAAATATATAATTTA
1 TTTAACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTA
18156788 TCATCATACT
Statistics
Matches: 154, Mismatches: 12, Indels: 6
0.90 0.07 0.03
Matches are distributed among these distances:
119 2 0.01
120 109 0.71
121 2 0.01
122 39 0.25
123 2 0.01
ACGTcount: A:0.49, C:0.05, G:0.02, T:0.44
Consensus pattern (120 bp):
TTTAACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAAT
AAATATTCTTATATGAATTTACTAAAATCATAATATATAATACTATAAAATATAA
Found at i:18162767 original size:20 final size:20
Alignment explanation
Indices: 18162744--18162808 Score: 67
Period size: 20 Copynumber: 3.2 Consensus size: 20
18162734 AATAATTTTC
*
18162744 AAAATTTTAAAATATTTATA
1 AAAATTTTAAAATTTTTATA
* * *
18162764 AAAATTCTAAATTTTTTAAA
1 AAAATTTTAAAATTTTTATA
* *
18162784 AAAAGTATAAAAATTTTTATA
1 AAAA-TTTTAAAATTTTTATA
18162805 AAAA
1 AAAA
18162809 ATTAAAGAAT
Statistics
Matches: 35, Mismatches: 9, Indels: 1
0.78 0.20 0.02
Matches are distributed among these distances:
20 20 0.57
21 15 0.43
ACGTcount: A:0.57, C:0.02, G:0.02, T:0.40
Consensus pattern (20 bp):
AAAATTTTAAAATTTTTATA
Found at i:18162800 original size:21 final size:20
Alignment explanation
Indices: 18162776--18162847 Score: 74
Period size: 21 Copynumber: 3.5 Consensus size: 20
18162766 AATTCTAAAT
18162776 TTTTTAAAAAAAGTATAAAAA
1 TTTTTAAAAAAAGT-TAAAAA
18162797 TTTTTATAAAAAA-TTAAAGAA
1 TTTTTA-AAAAAAGTTAAA-AA
* * * *
18162818 TATATAAAGAAAGTTAAAAT
1 TTTTTAAAAAAAGTTAAAAA
18162838 TTTTTAAAAA
1 TTTTTAAAAA
18162848 GTTTCTAAGA
Statistics
Matches: 41, Mismatches: 7, Indels: 7
0.75 0.13 0.13
Matches are distributed among these distances:
20 17 0.41
21 18 0.44
22 6 0.15
ACGTcount: A:0.58, C:0.00, G:0.06, T:0.36
Consensus pattern (20 bp):
TTTTTAAAAAAAGTTAAAAA
Found at i:18170881 original size:18 final size:18
Alignment explanation
Indices: 18170835--18170885 Score: 66
Period size: 18 Copynumber: 2.8 Consensus size: 18
18170825 AGCTCTCAGG
18170835 CATTCTTCTCCCTTCATC
1 CATTCTTCTCCCTTCATC
* ***
18170853 CAGTAAGCTCCCTTCATC
1 CATTCTTCTCCCTTCATC
18170871 CATTCTTCTCCCTTC
1 CATTCTTCTCCCTTC
18170886 CTTCATTCCT
Statistics
Matches: 25, Mismatches: 8, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
18 25 1.00
ACGTcount: A:0.14, C:0.43, G:0.04, T:0.39
Consensus pattern (18 bp):
CATTCTTCTCCCTTCATC
Found at i:18173029 original size:13 final size:13
Alignment explanation
Indices: 18173011--18173038 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
18173001 CTTGTACAAG
18173011 TAAACTTCATAAA
1 TAAACTTCATAAA
18173024 TAAACTTCATAAA
1 TAAACTTCATAAA
18173037 TA
1 TA
18173039 GAGAAAGAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.54, C:0.14, G:0.00, T:0.32
Consensus pattern (13 bp):
TAAACTTCATAAA
Found at i:18173464 original size:20 final size:20
Alignment explanation
Indices: 18173439--18173478 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
18173429 AATATTTTCC
*
18173439 AGTAAATTATTTTACAGAAA
1 AGTAAAATATTTTACAGAAA
*
18173459 AGTAAAATATTTTCCAGAAA
1 AGTAAAATATTTTACAGAAA
18173479 TCATTTTACG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.50, C:0.07, G:0.10, T:0.33
Consensus pattern (20 bp):
AGTAAAATATTTTACAGAAA
Found at i:18173493 original size:34 final size:35
Alignment explanation
Indices: 18173427--18173493 Score: 109
Period size: 34 Copynumber: 1.9 Consensus size: 35
18173417 CAAACACCAG
*
18173427 AAAATATTTTCCAGTAAATTATTTTACAGAAAAGT
1 AAAATATTTTCCAGTAAATCATTTTACAGAAAAGT
*
18173462 AAAATATTTTCCAG-AAATCATTTTACGGAAAA
1 AAAATATTTTCCAGTAAATCATTTTACAGAAAA
18173494 CATTTTACTG
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
34 16 0.53
35 14 0.47
ACGTcount: A:0.46, C:0.10, G:0.09, T:0.34
Consensus pattern (35 bp):
AAAATATTTTCCAGTAAATCATTTTACAGAAAAGT
Found at i:18176167 original size:17 final size:19
Alignment explanation
Indices: 18176145--18176183 Score: 55
Period size: 17 Copynumber: 2.2 Consensus size: 19
18176135 ATTATATATA
*
18176145 TTAAAAT-TTAAAGT-TTT
1 TTAAAATATAAAAGTATTT
18176162 TTAAAATATAAAAGTATTT
1 TTAAAATATAAAAGTATTT
18176181 TTA
1 TTA
18176184 TCTTTTTACT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 7 0.37
18 6 0.32
19 6 0.32
ACGTcount: A:0.46, C:0.00, G:0.05, T:0.49
Consensus pattern (19 bp):
TTAAAATATAAAAGTATTT
Found at i:18181727 original size:24 final size:25
Alignment explanation
Indices: 18181691--18181750 Score: 77
Period size: 26 Copynumber: 2.4 Consensus size: 25
18181681 ATAAAAAATA
* *
18181691 ACCAAAATGTTAT-TTTTTTTATTT
1 ACCAAAATATTATAATTTTTTATTT
*
18181715 ATCAAAATATTATAAATTTTTTATTT
1 ACCAAAATATTAT-AATTTTTTATTT
18181741 ACCAAAATAT
1 ACCAAAATAT
18181751 ACCAAAAACA
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
24 11 0.37
26 19 0.63
ACGTcount: A:0.40, C:0.08, G:0.02, T:0.50
Consensus pattern (25 bp):
ACCAAAATATTATAATTTTTTATTT
Found at i:18182194 original size:27 final size:28
Alignment explanation
Indices: 18182136--18182196 Score: 72
Period size: 28 Copynumber: 2.2 Consensus size: 28
18182126 GTCCGATTAG
* *
18182136 GCCAATCTCTTTGACACCTTTTGGTCAG
1 GCCAATCACTTTGACACCTTTTGGTCAC
*
18182164 GCCAATCACTTTGGCACC-TTTGGTGC-C
1 GCCAATCACTTTGACACCTTTTGGT-CAC
18182191 GCCAAT
1 GCCAAT
18182197 GTGATTGGTC
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
27 12 0.41
28 17 0.59
ACGTcount: A:0.18, C:0.31, G:0.20, T:0.31
Consensus pattern (28 bp):
GCCAATCACTTTGACACCTTTTGGTCAC
Found at i:18182310 original size:28 final size:27
Alignment explanation
Indices: 18182255--18182319 Score: 85
Period size: 28 Copynumber: 2.4 Consensus size: 27
18182245 TTTTTTTTGT
***
18182255 ATATTTTGGTAAATAAAAAAATTTATA
1 ATATTTTGGTAAATAAAAAAAAGGATA
18182282 ATATTTTGGTAAATAAAAAAAAAGGATA
1 ATATTTTGGTAAAT-AAAAAAAAGGATA
*
18182310 ACATTTTGGT
1 ATATTTTGGT
18182320 TATTTTTTAT
Statistics
Matches: 33, Mismatches: 4, Indels: 1
0.87 0.11 0.03
Matches are distributed among these distances:
27 14 0.42
28 19 0.58
ACGTcount: A:0.49, C:0.02, G:0.12, T:0.37
Consensus pattern (27 bp):
ATATTTTGGTAAATAAAAAAAAGGATA
Found at i:18182556 original size:15 final size:15
Alignment explanation
Indices: 18182526--18182555 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 15
18182516 ATTCAATCGA
18182526 TAAATTTAAAATTTT
1 TAAATTTAAAATTTT
18182541 TAAATTT-AAATTTT
1 TAAATTTAAAATTTT
18182555 T
1 T
18182556 TTATTCAAGT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 8 0.53
15 7 0.47
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (15 bp):
TAAATTTAAAATTTT
Found at i:18185954 original size:14 final size:14
Alignment explanation
Indices: 18185907--18185954 Score: 51
Period size: 14 Copynumber: 3.4 Consensus size: 14
18185897 ACCAATTCAA
*
18185907 AAAATATAAAAACT
1 AAAATATAAAAAAT
* *
18185921 AAAATAGATCAAAAT
1 AAAATATA-AAAAAT
18185936 AAAATATAAAAAAT
1 AAAATATAAAAAAT
*
18185950 TAAAT
1 AAAAT
18185955 CCATAACTTA
Statistics
Matches: 27, Mismatches: 6, Indels: 2
0.77 0.17 0.06
Matches are distributed among these distances:
14 16 0.59
15 11 0.41
ACGTcount: A:0.71, C:0.04, G:0.02, T:0.23
Consensus pattern (14 bp):
AAAATATAAAAAAT
Found at i:18188149 original size:317 final size:317
Alignment explanation
Indices: 18187574--18188240 Score: 846
Period size: 317 Copynumber: 2.1 Consensus size: 317
18187564 CTGGCAATGG
* *
18187574 CACAATTATCAAATAAGCATAAAGCTGCCCTATTAGCAAAGCTTGAAAACCATTGCGCACCAATA
1 CACAATTATCAAATAAGCATAAAGCTGCCCTATCAGCAAAGCTTGAAAACCATTGCGCACCAAGA
* * * * *
18187639 GCAAGCATCAGTTTTTCAGCTGGCTTCAAAGTGCTAGTTGTAGCACACTAACGTCCCTGTAGAGT
66 GCAAGCATCAGTTTTTCAGCGGGCTTCAAAGTGCTAGCTGCAGCACACTAACGACCCTATAGAGT
* * *
18187704 AAGGCTCTTATGCGGAACCACATTCCACAAGCCTCGTTTTCCCTCCAACGACTAGTTTCCGTTTC
131 AAGGCTCTTATGCAGAACCACATTCCACAAGCCTCGTGTTCCCTCCAACGACTAGTTTCCATTTC
* * * **
18187769 TTGTTTCAACCCAACAAGGATGCTGACCTTGCCCTTCCCCCACCATGGAAGGACTCCATTACTGA
196 TTATTGCAACCCAACAACGATGCTGACCTTGCCCTTCCCCCACCACAGAAGGACTCCATTACTGA
* *
18187834 ATATATGTTCTTTCTTTAATAAAATGTAAGAACCGAAATAGA-AA-ATCCCGGCAATAC
261 ATATATGTTCTCTCTTTAATAAAATGTAACAACCGAAATAGACAACAT--CGGCAATAC
** * * * **
18187891 CACAATTATTGAATAAGCATTAAGCTGCCCTATCAGCAAAGGTT-CAAACCATTGCGCTA-GTAG
1 CACAATTATCAAATAAGCATAAAGCTGCCCTATCAGCAAAGCTTGAAAACCATTGCGC-ACCAAG
* * *
18187954 AGC-A-CATCGGTTTTTCAGCGGGCTTCAAAGTGCTAGCTGCAGCACTCTAATGACCCTATAGAG
65 AGCAAGCATCAGTTTTTCAGCGGGCTTCAAAGTGCTAGCTGCAGCACACTAACGACCCTATAGAG
* * * * *
18188017 TAAGGCTCTTATGCAGAGCCAC-TCTCCTCTAGCCTTGTGTTCCCTCCAATGACTAGTTTCCATT
130 TAAGGCTCTTATGCAGAACCACAT-TCCACAAGCCTCGTGTTCCCTCCAACGACTAGTTTCCATT
** * *
18188081 TCTTATTGCAACCTGACAACGAGTAGACTGCCCTTGCGCTTCCCCCACCACAGAAGGACTCCATT
194 TCTTATTGCAACCCAACAACGA-T-G-CTGACCTTGCCCTTCCCCCACCACAGAAGGACTCCATT
* * *
18188146 ACTGAATATATGTTCTCTCTTTAATAAAATGTAACAACCTAAATGGACAACATCGGCAATGC
256 ACTGAATATATGTTCTCTCTTTAATAAAATGTAACAACCGAAATAGACAACATCGGCAATAC
*
18188208 CACAATTATCCAATAAGCATAAAGCCT-CCCTAT
1 CACAATTATCAAATAAGCATAAAG-CTGCCCTAT
18188241 TAGAAAACCG
Statistics
Matches: 300, Mismatches: 42, Indels: 16
0.84 0.12 0.04
Matches are distributed among these distances:
313 1 0.00
314 122 0.41
315 2 0.01
316 17 0.06
317 152 0.51
318 4 0.01
319 2 0.01
ACGTcount: A:0.30, C:0.27, G:0.16, T:0.27
Consensus pattern (317 bp):
CACAATTATCAAATAAGCATAAAGCTGCCCTATCAGCAAAGCTTGAAAACCATTGCGCACCAAGA
GCAAGCATCAGTTTTTCAGCGGGCTTCAAAGTGCTAGCTGCAGCACACTAACGACCCTATAGAGT
AAGGCTCTTATGCAGAACCACATTCCACAAGCCTCGTGTTCCCTCCAACGACTAGTTTCCATTTC
TTATTGCAACCCAACAACGATGCTGACCTTGCCCTTCCCCCACCACAGAAGGACTCCATTACTGA
ATATATGTTCTCTCTTTAATAAAATGTAACAACCGAAATAGACAACATCGGCAATAC
Found at i:18194927 original size:22 final size:22
Alignment explanation
Indices: 18194902--18194947 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 22
18194892 GATATAAATT
18194902 AAAAAATTAAAA-ATATTTTAAA
1 AAAAAATTAAAATA-ATTTTAAA
* *
18194924 AAAATATTAAATTAATTTTAAA
1 AAAAAATTAAAATAATTTTAAA
18194946 AA
1 AA
18194948 GTATAATTTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
22 20 0.95
23 1 0.05
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (22 bp):
AAAAAATTAAAATAATTTTAAA
Found at i:18194991 original size:32 final size:32
Alignment explanation
Indices: 18194955--18195033 Score: 88
Period size: 32 Copynumber: 2.5 Consensus size: 32
18194945 AAAGTATAAT
* *
18194955 TTTTTAGACAAGTTCAAGCACCAACTAAGTAC
1 TTTTTGGACAAGTTCAAGCACCAACTAAATAC
* * * **
18194987 TTTTTGGATAAATTCAAGTACTGACTAAATAC
1 TTTTTGGACAAGTTCAAGCACCAACTAAATAC
18195019 -TTTTGGACAAGTTCA
1 TTTTTGGACAAGTTCA
18195034 GGGGGCAAAC
Statistics
Matches: 38, Mismatches: 9, Indels: 1
0.79 0.19 0.02
Matches are distributed among these distances:
31 13 0.34
32 25 0.66
ACGTcount: A:0.35, C:0.16, G:0.14, T:0.34
Consensus pattern (32 bp):
TTTTTGGACAAGTTCAAGCACCAACTAAATAC
Found at i:18212607 original size:21 final size:22
Alignment explanation
Indices: 18212571--18212612 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 22
18212561 AAAAAAAACA
*
18212571 AGGGAAAATGGGTTA-CATTTT
1 AGGGAAAATGGCTTACCATTTT
*
18212592 AGGGAAAATGTCTTACCATTT
1 AGGGAAAATGGCTTACCATTT
18212613 CAATTTCCGT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 13 0.72
22 5 0.28
ACGTcount: A:0.33, C:0.10, G:0.24, T:0.33
Consensus pattern (22 bp):
AGGGAAAATGGCTTACCATTTT
Found at i:18213007 original size:14 final size:15
Alignment explanation
Indices: 18212985--18213061 Score: 52
Period size: 14 Copynumber: 5.0 Consensus size: 15
18212975 CAATCAAACA
18212985 CCAGAAAAT-ATTTT
1 CCAGAAAATCATTTT
*
18212999 CCAGTAAATCATTTT
1 CCAGAAAATCATTTT
*
18213014 ACAGAAAAGTAAAACATTTT
1 CCAGAAAA-T----CATTTT
18213034 CCAG-AAATCATTTT
1 CCAGAAAATCATTTT
* *
18213048 ACGGAAAAT-ATTTT
1 CCAGAAAATCATTTT
18213062 ACTGGCAATC
Statistics
Matches: 50, Mismatches: 6, Indels: 14
0.71 0.09 0.20
Matches are distributed among these distances:
14 21 0.42
15 15 0.30
16 1 0.02
18 1 0.02
19 3 0.06
20 9 0.18
ACGTcount: A:0.43, C:0.14, G:0.09, T:0.34
Consensus pattern (15 bp):
CCAGAAAATCATTTT
Found at i:18213026 original size:20 final size:20
Alignment explanation
Indices: 18213001--18213040 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
18212991 AATATTTTCC
*
18213001 AGTAAATCATTTTACAGAAA
1 AGTAAAACATTTTACAGAAA
*
18213021 AGTAAAACATTTTCCAGAAA
1 AGTAAAACATTTTACAGAAA
18213041 TCATTTTACG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.50, C:0.12, G:0.10, T:0.28
Consensus pattern (20 bp):
AGTAAAACATTTTACAGAAA
Found at i:18213046 original size:34 final size:35
Alignment explanation
Indices: 18212989--18213055 Score: 109
Period size: 34 Copynumber: 1.9 Consensus size: 35
18212979 CAAACACCAG
*
18212989 AAAATATTTTCCAGTAAATCATTTTACAGAAAAGT
1 AAAACATTTTCCAGTAAATCATTTTACAGAAAAGT
*
18213024 AAAACATTTTCCAG-AAATCATTTTACGGAAAA
1 AAAACATTTTCCAGTAAATCATTTTACAGAAAA
18213056 TATTTTACTG
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
34 17 0.57
35 13 0.43
ACGTcount: A:0.46, C:0.13, G:0.09, T:0.31
Consensus pattern (35 bp):
AAAACATTTTCCAGTAAATCATTTTACAGAAAAGT
Found at i:18218039 original size:3 final size:3
Alignment explanation
Indices: 18218031--18218057 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
18218021 GACCACTAAA
18218031 TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT
18218058 GGTGATTTCA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:18221858 original size:20 final size:20
Alignment explanation
Indices: 18221833--18221877 Score: 58
Period size: 18 Copynumber: 2.3 Consensus size: 20
18221823 GTCAAGGTAA
*
18221833 TAAAATGTGTATAATAAA-AT
1 TAAAAT-TGTATAAAAAATAT
18221853 TAAAA-TGTATAAAAAATAT
1 TAAAATTGTATAAAAAATAT
18221872 TAAAAT
1 TAAAAT
18221878 AAAGCTTTAA
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
18 10 0.45
19 7 0.32
20 5 0.23
ACGTcount: A:0.60, C:0.00, G:0.07, T:0.33
Consensus pattern (20 bp):
TAAAATTGTATAAAAAATAT
Found at i:18221863 original size:18 final size:19
Alignment explanation
Indices: 18221840--18221877 Score: 60
Period size: 18 Copynumber: 2.1 Consensus size: 19
18221830 TAATAAAATG
*
18221840 TGTATAATAAA-ATTAAAA
1 TGTATAAAAAATATTAAAA
18221858 TGTATAAAAAATATTAAAA
1 TGTATAAAAAATATTAAAA
18221877 T
1 T
18221878 AAAGCTTTAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 10 0.56
19 8 0.44
ACGTcount: A:0.61, C:0.00, G:0.05, T:0.34
Consensus pattern (19 bp):
TGTATAAAAAATATTAAAA
Found at i:18224281 original size:42 final size:42
Alignment explanation
Indices: 18224216--18224371 Score: 169
Period size: 42 Copynumber: 3.7 Consensus size: 42
18224206 AAATCGTACA
*
18224216 ATGCCAACGTCCCAGACGTGGTCTTACATGTAATCAATATCG
1 ATGCCAACGTCCCAGACGTGGTCTTACATGAAATCAATATCG
*
18224258 ATGCC-ACTGTCCCAGACAG-GGTCTTACACGAAATCAAATAT-G
1 ATGCCAAC-GTCCCAGAC-GTGGTCTTACATGAAATC-AATATCG
* * *
18224300 ATGCCGATGTCCCAGACATGGTCTTATACAT-AAATCTCAA-ATCG
1 ATGCCAACGTCCCAGACGTGGTC-T-TACATGAAA--TCAATATCG
18224344 ATGCCAACGTCCCAGACGTGGTCTTACA
1 ATGCCAACGTCCCAGACGTGGTCTTACA
18224372 CGATAACATA
Statistics
Matches: 96, Mismatches: 8, Indels: 20
0.77 0.06 0.16
Matches are distributed among these distances:
41 2 0.02
42 51 0.53
43 14 0.15
44 27 0.28
45 2 0.02
ACGTcount: A:0.30, C:0.27, G:0.19, T:0.24
Consensus pattern (42 bp):
ATGCCAACGTCCCAGACGTGGTCTTACATGAAATCAATATCG
Found at i:18231614 original size:42 final size:42
Alignment explanation
Indices: 18231549--18231704 Score: 169
Period size: 42 Copynumber: 3.7 Consensus size: 42
18231539 AAATCGTACA
*
18231549 ATGCCAACGTCCCAGACGTGGTCTTACATGTAATCAATATCG
1 ATGCCAACGTCCCAGACGTGGTCTTACATGAAATCAATATCG
*
18231591 ATGCC-ACTGTCCCAGACAG-GGTCTTACACGAAATCAAATAT-G
1 ATGCCAAC-GTCCCAGAC-GTGGTCTTACATGAAATC-AATATCG
* * *
18231633 ATGCCGATGTCCCAGACATGGTCTTATACAT-AAATCTCAA-ATCG
1 ATGCCAACGTCCCAGACGTGGTC-T-TACATGAAA--TCAATATCG
18231677 ATGCCAACGTCCCAGACGTGGTCTTACA
1 ATGCCAACGTCCCAGACGTGGTCTTACA
18231705 CGATAACATA
Statistics
Matches: 96, Mismatches: 8, Indels: 20
0.77 0.06 0.16
Matches are distributed among these distances:
41 2 0.02
42 51 0.53
43 14 0.15
44 27 0.28
45 2 0.02
ACGTcount: A:0.30, C:0.27, G:0.19, T:0.24
Consensus pattern (42 bp):
ATGCCAACGTCCCAGACGTGGTCTTACATGAAATCAATATCG
Found at i:18233979 original size:16 final size:16
Alignment explanation
Indices: 18233955--18233993 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
18233945 GAAAATATGT
*
18233955 ATATATATGTGTAAAA
1 ATATATATGTATAAAA
* *
18233971 ATATGTATGTATATAA
1 ATATATATGTATAAAA
18233987 ATATATA
1 ATATATA
18233994 CAAATAGAGG
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.49, C:0.00, G:0.10, T:0.41
Consensus pattern (16 bp):
ATATATATGTATAAAA
Found at i:18233998 original size:26 final size:26
Alignment explanation
Indices: 18233950--18233999 Score: 64
Period size: 26 Copynumber: 1.9 Consensus size: 26
18233940 ACTATGAAAA
* * *
18233950 TATGTATATATATGTGTAAAAATATG
1 TATGTATATAAATATATAAAAATATG
*
18233976 TATGTATATAAATATATACAAATA
1 TATGTATATAAATATATAAAAATA
18234000 GAGGACTAAA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
26 20 1.00
ACGTcount: A:0.48, C:0.02, G:0.10, T:0.40
Consensus pattern (26 bp):
TATGTATATAAATATATAAAAATATG
Found at i:18235739 original size:100 final size:100
Alignment explanation
Indices: 18235507--18235748 Score: 333
Period size: 100 Copynumber: 2.4 Consensus size: 100
18235497 TGGATGCGAT
* * * *
18235507 CTTCAGTCTGTTTAACTGCAATGTCAGGGAAAAAAGATTCACCTTCGTAGCTTCAATCTATTCCA
1 CTTCAATCTGTTTAACTGCAATGTCAGGGAAATAAGATTCGCCGTCGTAGCTTCAATCTATTCCA
*
18235572 CTACACCGCCAAGGAAGTAAGATTCGTCGTTGTGG
66 CTACACCGCCAAGGAAGTAAGATTCGCCGTTGTGG
* * ** *
18235607 CTTCAATCTATTTAATTGCAATGTTGGGGAAATAAGATTCGCCGTCGTAGCTTCAATCTGTTCCA
1 CTTCAATCTGTTTAACTGCAATGTCAGGGAAATAAGATTCGCCGTCGTAGCTTCAATCTATTCCA
18235672 CTACACCGCC-AGAGAAGTAAGATTCGCCGTTGTGG
66 CTACACCGCCAAG-GAAGTAAGATTCGCCGTTGTGG
* * * **
18235707 TTTCAATCTGTTTAACTGTAATGCCAAAGAAATAAGATTCGC
1 CTTCAATCTGTTTAACTGCAATGTCAGGGAAATAAGATTCGC
18235749 TGCCCACAGC
Statistics
Matches: 122, Mismatches: 19, Indels: 2
0.85 0.13 0.01
Matches are distributed among these distances:
99 2 0.02
100 120 0.98
ACGTcount: A:0.29, C:0.21, G:0.20, T:0.30
Consensus pattern (100 bp):
CTTCAATCTGTTTAACTGCAATGTCAGGGAAATAAGATTCGCCGTCGTAGCTTCAATCTATTCCA
CTACACCGCCAAGGAAGTAAGATTCGCCGTTGTGG
Found at i:18235743 original size:50 final size:50
Alignment explanation
Indices: 18235507--18235748 Score: 162
Period size: 50 Copynumber: 4.8 Consensus size: 50
18235497 TGGATGCGAT
* * ** * * *
18235507 CTTCAGTCTGTTTAACTGCAATGTCAGGGAAAAAAGATTCACC-TTCGTAG
1 CTTCAATCTGTTTAACTGCAATGCCAAAGAAATAAGATTCGCCGTT-GTGG
* ** * ** * * *
18235557 CTTCAATCTATTCCACTACACCGCCAAGGAAGTAAGATTCGTCGTTGTGG
1 CTTCAATCTGTTTAACTGCAATGCCAAAGAAATAAGATTCGCCGTTGTGG
* * ***** * *
18235607 CTTCAATCTATTTAATTGCAATGTTGGGGAAATAAGATTCGCCGTCGTAG
1 CTTCAATCTGTTTAACTGCAATGCCAAAGAAATAAGATTCGCCGTTGTGG
** * ** * *
18235657 CTTCAATCTGTTCCACTACACCGCCAGAGAAGTAAGATTCGCCGTTGTGG
1 CTTCAATCTGTTTAACTGCAATGCCAAAGAAATAAGATTCGCCGTTGTGG
* *
18235707 TTTCAATCTGTTTAACTGTAATGCCAAAGAAATAAGATTCGC
1 CTTCAATCTGTTTAACTGCAATGCCAAAGAAATAAGATTCGC
18235749 TGCCCACAGC
Statistics
Matches: 140, Mismatches: 51, Indels: 2
0.73 0.26 0.01
Matches are distributed among these distances:
50 138 0.99
51 2 0.01
ACGTcount: A:0.29, C:0.21, G:0.20, T:0.30
Consensus pattern (50 bp):
CTTCAATCTGTTTAACTGCAATGCCAAAGAAATAAGATTCGCCGTTGTGG
Found at i:18235974 original size:87 final size:88
Alignment explanation
Indices: 18235862--18236030 Score: 243
Period size: 87 Copynumber: 1.9 Consensus size: 88
18235852 GACTGGTGTC
** * *
18235862 TTCGATCTGTTTCGCTACCAGTACAGGAATG-CAAGATTTGCTATTTTCAACCTACTCCACTACT
1 TTCGATCTACTTCGCTACCAATACAGGAA-GACAAGATCTGCTATTTTCAACCTACTCCACTACT
18235926 GCT-AGGGAGACAAGGCTGGTATA
65 GCTCAGGGAGACAAGGCTGGTATA
* * *
18235949 TTCGATCTACTTCGCTGCCAATACAGGAAGACAAGATCTGCTATTTTTAACCTACTCCACTGCTG
1 TTCGATCTACTTCGCTACCAATACAGGAAGACAAGATCTGCTATTTTCAACCTACTCCACTACTG
*
18236014 CTCAGGGAGATAAGGCT
66 CTCAGGGAGACAAGGCT
18236031 TTATGGTTTC
Statistics
Matches: 72, Mismatches: 8, Indels: 3
0.87 0.10 0.04
Matches are distributed among these distances:
86 1 0.01
87 58 0.81
88 13 0.18
ACGTcount: A:0.27, C:0.24, G:0.20, T:0.29
Consensus pattern (88 bp):
TTCGATCTACTTCGCTACCAATACAGGAAGACAAGATCTGCTATTTTCAACCTACTCCACTACTG
CTCAGGGAGACAAGGCTGGTATA
Found at i:18247569 original size:5 final size:5
Alignment explanation
Indices: 18247522--18247562 Score: 64
Period size: 5 Copynumber: 8.2 Consensus size: 5
18247512 CCAATAAAAG
* *
18247522 ATAAA ATAAA ATAAA ATAAA ATAAA ATAAA GTAAC ATAAA A
1 ATAAA ATAAA ATAAA ATAAA ATAAA ATAAA ATAAA ATAAA A
18247563 AATAAAAAAA
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
5 32 1.00
ACGTcount: A:0.76, C:0.02, G:0.02, T:0.20
Consensus pattern (5 bp):
ATAAA
Found at i:18248681 original size:22 final size:22
Alignment explanation
Indices: 18248646--18248695 Score: 66
Period size: 22 Copynumber: 2.3 Consensus size: 22
18248636 ACACACTGGA
18248646 GTGC-GGGGCAACGTGCGCAAC
1 GTGCGGGGGCAACGTGCGCAAC
* *
18248667 GTGCGGGGGCGACGTGCGCGAC
1 GTGCGGGGGCAACGTGCGCAAC
*
18248689 ATGCGGG
1 GTGCGGG
18248696 AGCTGCTGTG
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
21 4 0.16
22 21 0.84
ACGTcount: A:0.14, C:0.26, G:0.50, T:0.10
Consensus pattern (22 bp):
GTGCGGGGGCAACGTGCGCAAC
Found at i:18249138 original size:18 final size:18
Alignment explanation
Indices: 18249103--18249139 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
18249093 TGATAAAGTG
*
18249103 TGTATAAAAAAATTAAAA
1 TGTATAAAAAAATCAAAA
*
18249121 TGTATAAAAATATCAAAA
1 TGTATAAAAAAATCAAAA
18249139 T
1 T
18249140 AAAACTTTAG
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:0.62, C:0.03, G:0.05, T:0.30
Consensus pattern (18 bp):
TGTATAAAAAAATCAAAA
Found at i:18250827 original size:38 final size:38
Alignment explanation
Indices: 18250782--18250858 Score: 154
Period size: 38 Copynumber: 2.0 Consensus size: 38
18250772 AAACAAATAC
18250782 ATAGAATTTTTATGTTATTTTTACTATTTTAAATATAA
1 ATAGAATTTTTATGTTATTTTTACTATTTTAAATATAA
18250820 ATAGAATTTTTATGTTATTTTTACTATTTTAAATATAA
1 ATAGAATTTTTATGTTATTTTTACTATTTTAAATATAA
18250858 A
1 A
18250859 ATATAAAAAA
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 39 1.00
ACGTcount: A:0.38, C:0.03, G:0.05, T:0.55
Consensus pattern (38 bp):
ATAGAATTTTTATGTTATTTTTACTATTTTAAATATAA
Found at i:18266002 original size:5 final size:5
Alignment explanation
Indices: 18265992--18266026 Score: 52
Period size: 5 Copynumber: 6.6 Consensus size: 5
18265982 ATATTATTTA
18265992 AAAAT AAAAT AAAAT AAAAT AATTAAT AAAAT AAA
1 AAAAT AAAAT AAAAT AAAAT AA--AAT AAAAT AAA
18266027 TTTAATTTTA
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
5 23 0.82
7 5 0.18
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (5 bp):
AAAAT
Found at i:18275245 original size:20 final size:20
Alignment explanation
Indices: 18275222--18275260 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
18275212 CGATACCAGA
18275222 ATAAAGATATCGACACTTTG
1 ATAAAGATATCGACACTTTG
* *
18275242 ATAAAGGTATCGATACTTT
1 ATAAAGATATCGACACTTT
18275261 AAGCAAAGTC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.38, C:0.13, G:0.15, T:0.33
Consensus pattern (20 bp):
ATAAAGATATCGACACTTTG
Found at i:18278211 original size:7 final size:7
Alignment explanation
Indices: 18278199--18278223 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
18278189 TATGTGTGAC
18278199 TTTGATA
1 TTTGATA
18278206 TTTGATA
1 TTTGATA
18278213 TTTGATA
1 TTTGATA
18278220 TTTG
1 TTTG
18278224 TAAGTTTGAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.24, C:0.00, G:0.16, T:0.60
Consensus pattern (7 bp):
TTTGATA
Found at i:18279333 original size:42 final size:42
Alignment explanation
Indices: 18279286--18279382 Score: 122
Period size: 42 Copynumber: 2.3 Consensus size: 42
18279276 TCCTCACCCA
***
18279286 TGTAACTCTCTGAGTAGGGTCACACGCCCGTGTGTCAGGCCG
1 TGTAACTCTCTGAGTAGCCCCACACGCCCGTGTGTCAGGCCG
* * * *
18279328 TGTAACTATCTGAGTTGCCCCACACGCCCTTGTGTTAGGCCG
1 TGTAACTCTCTGAGTAGCCCCACACGCCCGTGTGTCAGGCCG
*
18279370 TGTAACTCACTGA
1 TGTAACTCTCTGA
18279383 CTTGCAACCT
Statistics
Matches: 46, Mismatches: 9, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
42 46 1.00
ACGTcount: A:0.19, C:0.29, G:0.26, T:0.27
Consensus pattern (42 bp):
TGTAACTCTCTGAGTAGCCCCACACGCCCGTGTGTCAGGCCG
Found at i:18280303 original size:35 final size:35
Alignment explanation
Indices: 18280256--18280325 Score: 131
Period size: 35 Copynumber: 2.0 Consensus size: 35
18280246 GATGTTGAAT
*
18280256 TAACTCGTGATACCAACTCAAACAATCATATTATA
1 TAACTCGCGATACCAACTCAAACAATCATATTATA
18280291 TAACTCGCGATACCAACTCAAACAATCATATTATA
1 TAACTCGCGATACCAACTCAAACAATCATATTATA
18280326 CATAGTACTA
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
35 34 1.00
ACGTcount: A:0.43, C:0.24, G:0.06, T:0.27
Consensus pattern (35 bp):
TAACTCGCGATACCAACTCAAACAATCATATTATA
Found at i:18285409 original size:22 final size:22
Alignment explanation
Indices: 18285381--18285431 Score: 59
Period size: 21 Copynumber: 2.4 Consensus size: 22
18285371 TTAAATATAA
18285381 ATAAAAATAATTAAGATAAAAT
1 ATAAAAATAATTAAGATAAAAT
* **
18285403 ATAAAAA-AATTGATTTAAAAT
1 ATAAAAATAATTAAGATAAAAT
*
18285424 ATTAAAAT
1 ATAAAAAT
18285432 CTTGTATCAA
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
21 17 0.71
22 7 0.29
ACGTcount: A:0.65, C:0.00, G:0.04, T:0.31
Consensus pattern (22 bp):
ATAAAAATAATTAAGATAAAAT
Found at i:18285502 original size:23 final size:23
Alignment explanation
Indices: 18285476--18285526 Score: 102
Period size: 23 Copynumber: 2.2 Consensus size: 23
18285466 AAATACATCA
18285476 AAATTTTAACTGAAACAAAACAT
1 AAATTTTAACTGAAACAAAACAT
18285499 AAATTTTAACTGAAACAAAACAT
1 AAATTTTAACTGAAACAAAACAT
18285522 AAATT
1 AAATT
18285527 AGTCTCTTAG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 28 1.00
ACGTcount: A:0.57, C:0.12, G:0.04, T:0.27
Consensus pattern (23 bp):
AAATTTTAACTGAAACAAAACAT
Found at i:18289970 original size:18 final size:19
Alignment explanation
Indices: 18289949--18289985 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
18289939 TTTTAAAAAA
18289949 TATAAAT-TTTGGAATTTT
1 TATAAATATTTGGAATTTT
*
18289967 TATAAATATTTTGAATTTT
1 TATAAATATTTGGAATTTT
18289986 AAAAATTTAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 7 0.41
19 10 0.59
ACGTcount: A:0.35, C:0.00, G:0.08, T:0.57
Consensus pattern (19 bp):
TATAAATATTTGGAATTTT
Found at i:18289991 original size:18 final size:20
Alignment explanation
Indices: 18289954--18290001 Score: 55
Period size: 20 Copynumber: 2.4 Consensus size: 20
18289944 AAAAATATAA
*
18289954 ATTTTGGAATTTTTATAAAT
1 ATTTTGGAATTTTTAAAAAT
18289974 ATTTT-GAA-TTTTAAAAATTT
1 ATTTTGGAATTTTTAAAAA--T
18289994 ATTTTGGA
1 ATTTTGGA
18290002 TTTCCTTTTT
Statistics
Matches: 24, Mismatches: 1, Indels: 5
0.80 0.03 0.17
Matches are distributed among these distances:
18 8 0.33
19 3 0.12
20 11 0.46
21 2 0.08
ACGTcount: A:0.35, C:0.00, G:0.10, T:0.54
Consensus pattern (20 bp):
ATTTTGGAATTTTTAAAAAT
Found at i:18298535 original size:44 final size:45
Alignment explanation
Indices: 18298461--18299063 Score: 134
Period size: 44 Copynumber: 13.7 Consensus size: 45
18298451 AAAATCCGCC
* * * **
18298461 ATCTTCGATCTGCTCCACTACTG-CTTAGGGAGATAAGATCTGAA
1 ATCTTCAATCTACTCCACTATTGTCACAGGGAGATAAGATCTGAA
* *
18298505 ATCTTCAATCTATTCCACTGTTGTC-CAGGGA-AGT-AGAATTACTG--
1 ATCTTCAATCTACTCCACTATTGTCACAGGGAGA-TAAG-A-T-CTGAA
* * *** * * * **
18298549 -GCTTCAATGTACTCCACTATAACCACAGGGAGGTAAAATCCGCC
1 ATCTTCAATCTACTCCACTATTGTCACAGGGAGATAAGATCTGAA
* * * **
18298593 ATCTTCGATCTGCTCCACTACTG-CTTAGGGAGATAAGATCTGAA
1 ATCTTCAATCTACTCCACTATTGTCACAGGGAGATAAGATCTGAA
* *
18298637 ATCTTCAATCTATTCCACTGTTGTC-CAGGGA-AGT-AGAATTACTG--
1 ATCTTCAATCTACTCCACTATTGTCACAGGGAGA-TAAG-A-T-CTGAA
* * *** * * * **
18298681 -GCTTCAATGTACTCCACTATAACCACAGGGAGGTAAAATCCGCC
1 ATCTTCAATCTACTCCACTATTGTCACAGGGAGATAAGATCTGAA
* * * * **
18298725 ATCTTCGATCTGCTCCATTACTG-CTTAGGGAGATAAGATCTGAA
1 ATCTTCAATCTACTCCACTATTGTCACAGGGAGATAAGATCTGAA
* *
18298769 ATCTTCAATCTATTCCACTGTTGTC-CAGGGATG-T-AGAATTACTG--
1 ATCTTCAATCTACTCCACTATTGTCACAGGGA-GATAAG-A-T-CTGAA
* * * *** * * * **
18298813 -GCTTTAATGTACTCCACTATAACCACAGGGAGGTAAAATCCGTC
1 ATCTTCAATCTACTCCACTATTGTCACAGGGAGATAAGATCTGAA
* * * **
18298857 ATCTTCGATCTGCTCCACTACTG-CTTAGGGAGATAAGATCTGAA
1 ATCTTCAATCTACTCCACTATTGTCACAGGGAGATAAGATCTGAA
* * *
18298901 ATCTTCAATCTATTCCACTGTTGTC-CA-GGAAAGT-AGAATTACTG--
1 ATCTTCAATCTACTCCACTATTGTCACAGGGAGA-TAAG-A-T-CTGAA
* * *** * * *
18298945 -GCTTCAATGTACTCCACTATAACCACAGGGAGGTAAAATCT-ACC
1 ATCTTCAATCTACTCCACTATTGTCACAGGGAGATAAGATCTGA-A
* * * * ** *
18298989 ATCTTCGATCTGCTCCACTACT-ACTTAGGGAGATAAGATCTAAA
1 ATCTTCAATCTACTCCACTATTGTCACAGGGAGATAAGATCTGAA
* *
18299033 ATCTTCAATCTATTCCACTGTTGTC-CAGGGA
1 ATCTTCAATCTACTCCACTATTGTCACAGGGA
18299064 AGTAGAATTA
Statistics
Matches: 383, Mismatches: 129, Indels: 94
0.63 0.21 0.16
Matches are distributed among these distances:
42 8 0.02
43 86 0.22
44 201 0.52
45 76 0.20
46 12 0.03
ACGTcount: A:0.29, C:0.24, G:0.18, T:0.29
Consensus pattern (45 bp):
ATCTTCAATCTACTCCACTATTGTCACAGGGAGATAAGATCTGAA
Found at i:18298673 original size:132 final size:132
Alignment explanation
Indices: 18298436--18299134 Score: 1263
Period size: 132 Copynumber: 5.3 Consensus size: 132
18298426 NNNNNNNNNN
18298436 TAACCACAGGGAGGTAAAATCCGCCATCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATC
1 TAACCACAGGGAGGTAAAATCCGCCATCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATC
18298501 TGAAATCTTCAATCTATTCCACTGTTGTCCAGGGAAGTAGAATTACTGGCTTCAATGTACTCCAC
66 TGAAATCTTCAATCTATTCCACTGTTGTCCAGGGAAGTAGAATTACTGGCTTCAATGTACTCCAC
18298566 TA
131 TA
18298568 TAACCACAGGGAGGTAAAATCCGCCATCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATC
1 TAACCACAGGGAGGTAAAATCCGCCATCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATC
18298633 TGAAATCTTCAATCTATTCCACTGTTGTCCAGGGAAGTAGAATTACTGGCTTCAATGTACTCCAC
66 TGAAATCTTCAATCTATTCCACTGTTGTCCAGGGAAGTAGAATTACTGGCTTCAATGTACTCCAC
18298698 TA
131 TA
*
18298700 TAACCACAGGGAGGTAAAATCCGCCATCTTCGATCTGCTCCATTACTGCTTAGGGAGATAAGATC
1 TAACCACAGGGAGGTAAAATCCGCCATCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATC
* *
18298765 TGAAATCTTCAATCTATTCCACTGTTGTCCAGGGATGTAGAATTACTGGCTTTAATGTACTCCAC
66 TGAAATCTTCAATCTATTCCACTGTTGTCCAGGGAAGTAGAATTACTGGCTTCAATGTACTCCAC
18298830 TA
131 TA
*
18298832 TAACCACAGGGAGGTAAAATCCGTCATCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATC
1 TAACCACAGGGAGGTAAAATCCGCCATCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATC
*
18298897 TGAAATCTTCAATCTATTCCACTGTTGTCCAGGAAAGTAGAATTACTGGCTTCAATGTACTCCAC
66 TGAAATCTTCAATCTATTCCACTGTTGTCCAGGGAAGTAGAATTACTGGCTTCAATGTACTCCAC
18298962 TA
131 TA
** *
18298964 TAACCACAGGGAGGTAAAATCTACCATCTTCGATCTGCTCCACTACTACTTAGGGAGATAAGATC
1 TAACCACAGGGAGGTAAAATCCGCCATCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATC
* * *
18299029 TAAAATCTTCAATCTATTCCACTGTTGTCCAGGGAAGTAGAATTACTGGCTTTAATGTACTACAC
66 TGAAATCTTCAATCTATTCCACTGTTGTCCAGGGAAGTAGAATTACTGGCTTCAATGTACTCCAC
*
18299094 TG
131 TA
***
18299096 TAACCACAATAAGGTAAAATCCGCCATCTTCGATCTGCT
1 TAACCACAGGGAGGTAAAATCCGCCATCTTCGATCTGCT
18299135 TCGCTGTAGG
Statistics
Matches: 545, Mismatches: 22, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
132 545 1.00
ACGTcount: A:0.29, C:0.24, G:0.18, T:0.29
Consensus pattern (132 bp):
TAACCACAGGGAGGTAAAATCCGCCATCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATC
TGAAATCTTCAATCTATTCCACTGTTGTCCAGGGAAGTAGAATTACTGGCTTCAATGTACTCCAC
TA
Found at i:18301394 original size:25 final size:26
Alignment explanation
Indices: 18301343--18301403 Score: 70
Period size: 26 Copynumber: 2.3 Consensus size: 26
18301333 AAGAAAATTC
* **
18301343 AAAAGAATGAAAGAACAATTATTTCA
1 AAAAGAATGAAAAAACAATTAGCTCA
*
18301369 AAAAGAATGAAAAAAC-ATTGGCTCA
1 AAAAGAATGAAAAAACAATTAGCTCA
18301394 AAAATGAATG
1 AAAA-GAATG
18301404 CAAAGATGTA
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
25 10 0.33
26 20 0.67
ACGTcount: A:0.57, C:0.08, G:0.15, T:0.20
Consensus pattern (26 bp):
AAAAGAATGAAAAAACAATTAGCTCA
Found at i:18303340 original size:13 final size:13
Alignment explanation
Indices: 18303322--18303347 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
18303312 TAATTTTCCC
18303322 CAAAAATGAATTA
1 CAAAAATGAATTA
18303335 CAAAAATGAATTA
1 CAAAAATGAATTA
18303348 GGGCAAAATA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.62, C:0.08, G:0.08, T:0.23
Consensus pattern (13 bp):
CAAAAATGAATTA
Found at i:18304646 original size:19 final size:19
Alignment explanation
Indices: 18304622--18304674 Score: 79
Period size: 21 Copynumber: 2.7 Consensus size: 19
18304612 CATATCTTCT
18304622 AAGATTGCATATCATATCC
1 AAGATTGCATATCATATCC
*
18304641 AAGATTGCACATATCATATCT
1 AAGATTG--CATATCATATCC
18304662 AAGATTGCATATC
1 AAGATTGCATATC
18304675 CTCAAAAATT
Statistics
Matches: 31, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
19 13 0.42
21 18 0.58
ACGTcount: A:0.38, C:0.19, G:0.11, T:0.32
Consensus pattern (19 bp):
AAGATTGCATATCATATCC
Found at i:18304655 original size:21 final size:21
Alignment explanation
Indices: 18304596--18304670 Score: 75
Period size: 21 Copynumber: 3.6 Consensus size: 21
18304586 AAATTAAATC
* *
18304596 TCCAAGATTACA-AAATCATA
1 TCCAAGATTGCACATATCATA
18304616 TCTTCTAAGATTG--CATATCATA
1 TC--C-AAGATTGCACATATCATA
18304638 TCCAAGATTGCACATATCATA
1 TCCAAGATTGCACATATCATA
*
18304659 TCTAAGATTGCA
1 TCCAAGATTGCA
18304671 TATCCTCAAA
Statistics
Matches: 46, Mismatches: 3, Indels: 11
0.77 0.05 0.18
Matches are distributed among these distances:
19 7 0.15
20 3 0.07
21 20 0.43
22 10 0.22
23 6 0.13
ACGTcount: A:0.39, C:0.20, G:0.09, T:0.32
Consensus pattern (21 bp):
TCCAAGATTGCACATATCATA
Found at i:18313190 original size:21 final size:20
Alignment explanation
Indices: 18313152--18313193 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 20
18313142 AATGTTAATG
18313152 TTAAGAATTTAATAAAAATA
1 TTAAGAATTTAATAAAAATA
18313172 TTAA-AATCTTAATTAAAAATA
1 TTAAGAAT-TTAA-TAAAAATA
18313193 T
1 T
18313194 CGTTTAAAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
19 3 0.15
20 8 0.40
21 9 0.45
ACGTcount: A:0.57, C:0.02, G:0.02, T:0.38
Consensus pattern (20 bp):
TTAAGAATTTAATAAAAATA
Found at i:18319442 original size:4 final size:4
Alignment explanation
Indices: 18319433--18319468 Score: 72
Period size: 4 Copynumber: 9.0 Consensus size: 4
18319423 AGTGTGTAAC
18319433 TGAG TGAG TGAG TGAG TGAG TGAG TGAG TGAG TGAG
1 TGAG TGAG TGAG TGAG TGAG TGAG TGAG TGAG TGAG
18319469 AGTGTCTTTG
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 32 1.00
ACGTcount: A:0.25, C:0.00, G:0.50, T:0.25
Consensus pattern (4 bp):
TGAG
Found at i:18320913 original size:29 final size:29
Alignment explanation
Indices: 18320860--18320916 Score: 78
Period size: 29 Copynumber: 2.0 Consensus size: 29
18320850 TATTAATTGA
* ** *
18320860 TTACTTAAATAATATGGCATTATAATTAT
1 TTACATAAATAATATGAAATGATAATTAT
18320889 TTACATAAATAATATGAAATGATAATTA
1 TTACATAAATAATATGAAATGATAATTA
18320917 AATTGACTGA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
29 24 1.00
ACGTcount: A:0.47, C:0.05, G:0.07, T:0.40
Consensus pattern (29 bp):
TTACATAAATAATATGAAATGATAATTAT
Found at i:18321789 original size:19 final size:19
Alignment explanation
Indices: 18321762--18321802 Score: 59
Period size: 18 Copynumber: 2.3 Consensus size: 19
18321752 AAAAATGTTC
18321762 AAAATA-AAAAATTCA-AA
1 AAAATATAAAAATTCATAA
*
18321779 AAAATATAAAAGTTCATAA
1 AAAATATAAAAATTCATAA
18321798 AAAAT
1 AAAAT
18321803 TATGAAAAGA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 6 0.29
18 8 0.38
19 7 0.33
ACGTcount: A:0.71, C:0.05, G:0.02, T:0.22
Consensus pattern (19 bp):
AAAATATAAAAATTCATAA
Found at i:18324242 original size:30 final size:30
Alignment explanation
Indices: 18324208--18324269 Score: 115
Period size: 30 Copynumber: 2.1 Consensus size: 30
18324198 CATTTTAAAT
18324208 TTATATGTACTATGTAATATAAATAGTTTC
1 TTATATGTACTATGTAATATAAATAGTTTC
*
18324238 TTATATGTACTATGTAATATAAATTGTTTC
1 TTATATGTACTATGTAATATAAATAGTTTC
18324268 TT
1 TT
18324270 GTGCTACTTA
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.34, C:0.06, G:0.10, T:0.50
Consensus pattern (30 bp):
TTATATGTACTATGTAATATAAATAGTTTC
Found at i:18325994 original size:17 final size:16
Alignment explanation
Indices: 18325977--18326039 Score: 54
Period size: 17 Copynumber: 3.8 Consensus size: 16
18325967 TATTTTCTTA
18325977 AAATATTTAAAATTTT
1 AAATATTTAAAATTTT
* * **
18325993 AAAAAACTTAAAAAATT
1 -AAATATTTAAAATTTT
*
18326010 AAATATATTAAACTTTT
1 AAATAT-TTAAAATTTT
18326027 AAATATTTTAAAA
1 AAATA-TTTAAAA
18326040 ATGTTAAGCA
Statistics
Matches: 34, Mismatches: 10, Indels: 4
0.71 0.21 0.08
Matches are distributed among these distances:
16 4 0.12
17 29 0.85
18 1 0.03
ACGTcount: A:0.57, C:0.03, G:0.00, T:0.40
Consensus pattern (16 bp):
AAATATTTAAAATTTT
Found at i:18326131 original size:11 final size:10
Alignment explanation
Indices: 18326093--18326134 Score: 54
Period size: 9 Copynumber: 4.4 Consensus size: 10
18326083 AATTTTCTAA
18326093 AATATATTTT
1 AATATATTTT
18326103 AA-A-ATTTT
1 AATATATTTT
18326111 AATATA-TTT
1 AATATATTTT
18326120 AATATATTTTT
1 AATATA-TTTT
18326131 AATA
1 AATA
18326135 GGTAAAGAGA
Statistics
Matches: 28, Mismatches: 0, Indels: 7
0.80 0.00 0.20
Matches are distributed among these distances:
8 7 0.25
9 11 0.39
10 3 0.11
11 7 0.25
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (10 bp):
AATATATTTT
Found at i:18327294 original size:14 final size:15
Alignment explanation
Indices: 18327275--18327306 Score: 57
Period size: 14 Copynumber: 2.2 Consensus size: 15
18327265 AAAATAGGTT
18327275 TTTAATTAAAT-AAA
1 TTTAATTAAATGAAA
18327289 TTTAATTAAATGAAA
1 TTTAATTAAATGAAA
18327304 TTT
1 TTT
18327307 TAAATTAATT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 11 0.65
15 6 0.35
ACGTcount: A:0.50, C:0.00, G:0.03, T:0.47
Consensus pattern (15 bp):
TTTAATTAAATGAAA
Found at i:18330939 original size:93 final size:93
Alignment explanation
Indices: 18330780--18331155 Score: 752
Period size: 93 Copynumber: 4.0 Consensus size: 93
18330770 TATAAATTCA
18330780 TCCAAAACACTAGAATGTATTAACTTTTTCAAGAAAGTAAGTCATTTTCCAGAAACTATTTTCAG
1 TCCAAAACACTAGAATGTATTAACTTTTTCAAGAAAGTAAGTCATTTTCCAGAAACTATTTTCAG
18330845 TGAAACAAACAGACCCTGTATTATTAAG
66 TGAAACAAACAGACCCTGTATTATTAAG
18330873 TCCAAAACACTAGAATGTATTAACTTTTTCAAGAAAGTAAGTCATTTTCCAGAAACTATTTTCAG
1 TCCAAAACACTAGAATGTATTAACTTTTTCAAGAAAGTAAGTCATTTTCCAGAAACTATTTTCAG
18330938 TGAAACAAACAGACCCTGTATTATTAAG
66 TGAAACAAACAGACCCTGTATTATTAAG
18330966 TCCAAAACACTAGAATGTATTAACTTTTTCAAGAAAGTAAGTCATTTTCCAGAAACTATTTTCAG
1 TCCAAAACACTAGAATGTATTAACTTTTTCAAGAAAGTAAGTCATTTTCCAGAAACTATTTTCAG
18331031 TGAAACAAACAGACCCTGTATTATTAAG
66 TGAAACAAACAGACCCTGTATTATTAAG
18331059 TCCAAAACACTAGAATGTATTAACTTTTTCAAGAAAGTAAGTCATTTTCCAGAAACTATTTTCAG
1 TCCAAAACACTAGAATGTATTAACTTTTTCAAGAAAGTAAGTCATTTTCCAGAAACTATTTTCAG
18331124 TGAAACAAACAGACCCTGTATTATTAAG
66 TGAAACAAACAGACCCTGTATTATTAAG
18331152 TCCA
1 TCCA
18331156 TGGGAGATTC
Statistics
Matches: 283, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
93 283 1.00
ACGTcount: A:0.40, C:0.18, G:0.12, T:0.31
Consensus pattern (93 bp):
TCCAAAACACTAGAATGTATTAACTTTTTCAAGAAAGTAAGTCATTTTCCAGAAACTATTTTCAG
TGAAACAAACAGACCCTGTATTATTAAG
Found at i:18333372 original size:10 final size:10
Alignment explanation
Indices: 18333357--18333408 Score: 52
Period size: 10 Copynumber: 5.3 Consensus size: 10
18333347 AATAGAAAGG
18333357 TATATAAATA
1 TATATAAATA
*
18333367 TATATATATA
1 TATATAAATA
* **
18333377 TAGATATGTA
1 TATATAAATA
18333387 TATA-AAATA
1 TATATAAATA
*
18333396 TATAAAAATA
1 TATATAAATA
18333406 TAT
1 TAT
18333409 GAGTACGTAT
Statistics
Matches: 35, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
9 7 0.20
10 28 0.80
ACGTcount: A:0.56, C:0.00, G:0.04, T:0.40
Consensus pattern (10 bp):
TATATAAATA
Found at i:18334885 original size:17 final size:17
Alignment explanation
Indices: 18334848--18334885 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 17
18334838 TACTTTAGGT
*
18334848 TTTGGGCTAGGGTTTAG
1 TTTGGGCTAGGGTTTAA
18334865 TTTGGGCTGAGGG-TTAA
1 TTTGGGCT-AGGGTTTAA
18334882 TTTG
1 TTTG
18334886 TATTTGGGCT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 15 0.79
18 4 0.21
ACGTcount: A:0.13, C:0.05, G:0.39, T:0.42
Consensus pattern (17 bp):
TTTGGGCTAGGGTTTAA
Found at i:18335391 original size:44 final size:42
Alignment explanation
Indices: 18335343--18335970 Score: 353
Period size: 44 Copynumber: 14.6 Consensus size: 42
18335333 TTTTAATCCA
*
18335343 CTCCACTGCAACTTCAGGGAGATAGGATTGGTTTCTTCTGTCTG
1 CTCCACTGCAACTTCAGGGAGATAAGATTGG-TT-TTCTGTCTG
* * * *
18335387 CTCCACTACAACTTCAGGGAGATAAGACTGG-ATGC-GATCTG
1 CTCCACTGCAACTTCAGGGAGATAAGATTGGTTTTCTG-TCTG
* * * ** *
18335428 CTCTACTACAACTTCAGAGAGATAAGATCTATGGTTTT-AATCCG
1 CTCCACTGCAACTTCAGGGAGATAAGA--T-TGGTTTTCTGTCTG
* *
18335472 CTCCACTGTAACTTCAGGGAGATAGGATTGGTTTCTTCTGTCTG
1 CTCCACTGCAACTTCAGGGAGATAAGATTGG-TT-TTCTGTCTG
* * * * *
18335516 CTCCACTACAACTTCAGGGAGATAAGACTGG-ATGC-GATCTA
1 CTCCACTGCAACTTCAGGGAGATAAGATTGGTTTTCTG-TCTG
* * ** *
18335557 CTCTACTGCAACTTCAGAGAGATAAGATATATGGTTTT-AATCCG
1 CTCCACTGCAACTTCAGGGAGATAAG--AT-TGGTTTTCTGTCTG
* *
18335601 CTCCACTGCAACTTTAGGGAGATAAGATTGGTTTTTTTCTATCTG
1 CTCCACTGCAACTTCAGGGAGATAAGATTGG---TTTTCTGTCTG
* * * * *
18335646 TTCCACTGCAACTTCAAGGAGATAAGACTGG-GTGC-GATCTG
1 CTCCACTGCAACTTCAGGGAGATAAGATTGGTTTTCTG-TCTG
* * * *
18335687 CTCTACTGCAACTTCAGAGAGATAAGATCTGTGTTTT-TAATCCG
1 CTCCACTGCAACTTCAGGGAGATAAGAT-TG-GTTTTCT-GTCTG
* * * * *
18335731 CTCAACTACAATTTCAGGGAGATAGGATTGGCTTCTTTTGTCTG
1 CTCCACTGCAACTTCAGGGAGATAAGATTGG-TT-TTCTGTCTG
* * * * **
18335775 CTCCATTGCAACTTCAGGGAGATAAGACTGG-GTGCAATCTG
1 CTCCACTGCAACTTCAGGGAGATAAGATTGGTTTTCTGTCTG
* * * * ** *
18335816 CTCTACTGTAACTTCAGAGAGATAAAATCTATGGTTTT-AATCCG
1 CTCCACTGCAACTTCAGGGAGATAAGA--T-TGGTTTTCTGTCTG
* * * *
18335860 CTCCAATACAACTTCAGGGAGATAGGATTGGTTTTTTTTGTCTG
1 CTCCACTGCAACTTCAGGGAGATAAGATTGG--TTTTCTGTCTG
* * * * * *
18335904 CTCCCTCTGCAACTTCAGGGAGATAAGACTGGATGT-GGCCTG
1 CT-CCACTGCAACTTCAGGGAGATAAGATTGGTTTTCTGTCTG
* *
18335946 CTCTACTGCAACTTCAGAGAGATAA
1 CTCCACTGCAACTTCAGGGAGATAA
18335971 TATCTGTAAT
Statistics
Matches: 442, Mismatches: 106, Indels: 75
0.71 0.17 0.12
Matches are distributed among these distances:
40 2 0.00
41 144 0.33
42 15 0.03
43 14 0.03
44 208 0.47
45 59 0.13
ACGTcount: A:0.26, C:0.21, G:0.22, T:0.31
Consensus pattern (42 bp):
CTCCACTGCAACTTCAGGGAGATAAGATTGGTTTTCTGTCTG
Found at i:18335496 original size:129 final size:129
Alignment explanation
Indices: 18335262--18335975 Score: 1007
Period size: 129 Copynumber: 5.5 Consensus size: 129
18335252 TGTAGTTTCA
* * * * * *
18335262 ACTGCAACTTTAAGGAAATAAGGTCT-GATGCAATCTGCTCTACTGCAACTTTAGAGAGATAAGA
1 ACTGCAACTTCAGGGAGATAA-GACTGGATGCGATCTGCTCTACTGCAACTTCAGAGAGATAAGA
** *
18335326 TCTATCATTTTAATCCACTCCACTGCAACTTCAGGGAGATAGGATTGGTTTCTTCTGTCTGCTCC
65 TCTATGGTTTTAATCCGCTCCACTGCAACTTCAGGGAGATAGGATTGGTTTCTTCTGTCTGCTCC
* *
18335391 ACTACAACTTCAGGGAGATAAGACTGGATGCGATCTGCTCTACTACAACTTCAGAGAGATAAGAT
1 ACTGCAACTTCAGGGAGATAAGACTGGATGCGATCTGCTCTACTGCAACTTCAGAGAGATAAGAT
*
18335456 CTATGGTTTTAATCCGCTCCACTGTAACTTCAGGGAGATAGGATTGGTTTCTTCTGTCTGCTCC
66 CTATGGTTTTAATCCGCTCCACTGCAACTTCAGGGAGATAGGATTGGTTTCTTCTGTCTGCTCC
* *
18335520 ACTACAACTTCAGGGAGATAAGACTGGATGCGATCTACTCTACTGCAACTTCAGAGAGATAAGAT
1 ACTGCAACTTCAGGGAGATAAGACTGGATGCGATCTGCTCTACTGCAACTTCAGAGAGATAAGAT
* * * * * *
18335585 ATATGGTTTTAATCCGCTCCACTGCAACTTTAGGGAGATAAGATTGGTTTTTTTCTATCTGTTCC
66 CTATGGTTTTAATCCGCTCCACTGCAACTTCAGGGAGATAGGATTGG-TTTCTTCTGTCTGCTCC
* *
18335650 ACTGCAACTTCAAGGAGATAAGACTGGGTGCGATCTGCTCTACTGCAACTTCAGAGAGATAAGAT
1 ACTGCAACTTCAGGGAGATAAGACTGGATGCGATCTGCTCTACTGCAACTTCAGAGAGATAAGAT
* * * * * * *
18335715 CTGTGTTTTTAATCCGCTCAACTACAATTTCAGGGAGATAGGATTGGCTTCTTTTGTCTGCTCC
66 CTATGGTTTTAATCCGCTCCACTGCAACTTCAGGGAGATAGGATTGGTTTCTTCTGTCTGCTCC
* * * * *
18335779 ATTGCAACTTCAGGGAGATAAGACTGGGTGCAATCTGCTCTACTGTAACTTCAGAGAGATAAAAT
1 ACTGCAACTTCAGGGAGATAAGACTGGATGCGATCTGCTCTACTGCAACTTCAGAGAGATAAGAT
* * * *
18335844 CTATGGTTTTAATCCGCTCCAATACAACTTCAGGGAGATAGGATTGGTTTTTTTTGTCTGCTCCC
66 CTATGGTTTTAATCCGCTCCACTGCAACTTCAGGGAGATAGGATTGGTTTCTTCTGTCTGCT-CC
* * ** *
18335909 TCTGCAACTTCAGGGAGATAAGACTGGATGTGGCCTGCTCTACTGCAACTTCAGAGAGATAATAT
1 ACTGCAACTTCAGGGAGATAAGACTGGATGCGATCTGCTCTACTGCAACTTCAGAGAGATAAGAT
18335974 CT
66 CT
18335976 GTAATGTATA
Statistics
Matches: 523, Mismatches: 59, Indels: 5
0.89 0.10 0.01
Matches are distributed among these distances:
128 3 0.01
129 346 0.66
130 174 0.33
ACGTcount: A:0.27, C:0.21, G:0.21, T:0.31
Consensus pattern (129 bp):
ACTGCAACTTCAGGGAGATAAGACTGGATGCGATCTGCTCTACTGCAACTTCAGAGAGATAAGAT
CTATGGTTTTAATCCGCTCCACTGCAACTTCAGGGAGATAGGATTGGTTTCTTCTGTCTGCTCC
Found at i:18335757 original size:259 final size:259
Alignment explanation
Indices: 18335288--18335977 Score: 1024
Period size: 259 Copynumber: 2.7 Consensus size: 259
18335278 AATAAGGTCT
* ** *
18335288 GATGCAATCTGCTCTACTGCAACTTTAGAGAGATAAGATCTATCATTTTAATCCACTCCACTGCA
1 GATGCAATCTGCTCTACTGCAACTTCAGAGAGATAAGATCTATGGTTTTAATCCGCTCCACTGCA
* * *
18335353 ACTTCAGGGAGATAGGATTGG-TTTCTTCTGTCTGCTCCACTACAACTTCAGGGAGATAAGACTG
66 ACTTCAGGGAGATAGGATTGGTTTTTTTCTGTCTGTTCCACTGCAACTTCAGGGAGATAAGACTG
* * * **
18335417 GATGCGATCTGCTCTACTACAACTTCAGAGAGATAAGATCTATGGTTTTAATCCGCTCCACTGTA
131 GATGCGATCTGCTCTACTGCAACTTCAGAGAGATAAGATCTGTGGTTTTAATCCGCTCAACTACA
*
18335482 ACTTCAGGGAGATAGGATTGGTTTCTTCTGTCTGCTCCACTACAACTTCAGGGAGATAAGACTG
196 ACTTCAGGGAGATAGGATTGGCTTCTTCTGTCTGCTCCACTACAACTTCAGGGAGATAAGACTG
* * *
18335546 GATGCGATCTACTCTACTGCAACTTCAGAGAGATAAGATATATGGTTTTAATCCGCTCCACTGCA
1 GATGCAATCTGCTCTACTGCAACTTCAGAGAGATAAGATCTATGGTTTTAATCCGCTCCACTGCA
* * * *
18335611 ACTTTAGGGAGATAAGATTGGTTTTTTTCTATCTGTTCCACTGCAACTTCAAGGAGATAAGACTG
66 ACTTCAGGGAGATAGGATTGGTTTTTTTCTGTCTGTTCCACTGCAACTTCAGGGAGATAAGACTG
* *
18335676 GGTGCGATCTGCTCTACTGCAACTTCAGAGAGATAAGATCTGTGTTTTTAATCCGCTCAACTACA
131 GATGCGATCTGCTCTACTGCAACTTCAGAGAGATAAGATCTGTGGTTTTAATCCGCTCAACTACA
* * * *
18335741 ATTTCAGGGAGATAGGATTGGCTTCTTTTGTCTGCTCCATTGCAACTTCAGGGAGATAAGACTG
196 ACTTCAGGGAGATAGGATTGGCTTCTTCTGTCTGCTCCACTACAACTTCAGGGAGATAAGACTG
* * * * *
18335805 GGTGCAATCTGCTCTACTGTAACTTCAGAGAGATAAAATCTATGGTTTTAATCCGCTCCAATACA
1 GATGCAATCTGCTCTACTGCAACTTCAGAGAGATAAGATCTATGGTTTTAATCCGCTCCACTGCA
* *
18335870 ACTTCAGGGAGATAGGATTGGTTTTTTT-TGTCTGCTCCCTCTGCAACTTCAGGGAGATAAGACT
66 ACTTCAGGGAGATAGGATTGGTTTTTTTCTGTCTG-TTCCACTGCAACTTCAGGGAGATAAGACT
* ** *
18335934 GGATGTGGCCTGCTCTACTGCAACTTCAGAGAGATAATATCTGT
130 GGATGCGATCTGCTCTACTGCAACTTCAGAGAGATAAGATCTGT
18335978 AATGTATAGC
Statistics
Matches: 385, Mismatches: 45, Indels: 3
0.89 0.10 0.01
Matches are distributed among these distances:
258 82 0.21
259 303 0.79
ACGTcount: A:0.27, C:0.21, G:0.21, T:0.31
Consensus pattern (259 bp):
GATGCAATCTGCTCTACTGCAACTTCAGAGAGATAAGATCTATGGTTTTAATCCGCTCCACTGCA
ACTTCAGGGAGATAGGATTGGTTTTTTTCTGTCTGTTCCACTGCAACTTCAGGGAGATAAGACTG
GATGCGATCTGCTCTACTGCAACTTCAGAGAGATAAGATCTGTGGTTTTAATCCGCTCAACTACA
ACTTCAGGGAGATAGGATTGGCTTCTTCTGTCTGCTCCACTACAACTTCAGGGAGATAAGACTG
Found at i:18336117 original size:50 final size:49
Alignment explanation
Indices: 18335984--18336292 Score: 235
Period size: 49 Copynumber: 6.2 Consensus size: 49
18335974 CTGTAATGTA
* * * * *
18335984 TAGCTTCAATCTTTTTAGCTGTAATATCGGGGAAGTAAGATTCATCGTTG
1 TAGCTTCAATCTTTTTAACTGCAATGTCGGGGAA-CAAGATTCACCGTTG
** ** * * *
18336034 CGGCTTCAATCTTTTCT-ACTGCACCGTCAGGGAAGTAAGATTTACCGTTG
1 TAGCTTCAATCTTTT-TAACTGCAATGTCGGGGAA-CAAGATTCACCGTTG
* * * **
18336084 TGGCTTCAATCTTTTTAATTACAATGTCGGGGAACAAGATTTGCCGTTG
1 TAGCTTCAATCTTTTTAACTGCAATGTCGGGGAACAAGATTCACCGTTG
* *
18336133 TAGCTTCAAT-TTGTTTAATTGCAATGTCGGGGAACAAGATTCACCATTG
1 TAGCTTCAATCTT-TTTAACTGCAATGTCGGGGAACAAGATTCACCGTTG
* * ** ** * * * * *
18336182 TAGCTTCAATATGTTCCACTGCACCGCCAGGGAAGTAAGATTCGCCGTTA
1 TAGCTTCAATCTTTTTAACTGCAATGTCGGGGAA-CAAGATTCACCGTTG
* * * * * *
18336232 CAGCTTCAATATTTTAAATTGCAATGTTGGGGAACAAGATTCGCCGTTG
1 TAGCTTCAATCTTTTTAACTGCAATGTCGGGGAACAAGATTCACCGTTG
18336281 TAGCTTCAATCT
1 TAGCTTCAATCT
18336293 GTTCCCCTGC
Statistics
Matches: 205, Mismatches: 49, Indels: 11
0.77 0.18 0.04
Matches are distributed among these distances:
48 2 0.01
49 102 0.50
50 100 0.49
51 1 0.00
ACGTcount: A:0.26, C:0.19, G:0.21, T:0.34
Consensus pattern (49 bp):
TAGCTTCAATCTTTTTAACTGCAATGTCGGGGAACAAGATTCACCGTTG
Found at i:18336222 original size:99 final size:99
Alignment explanation
Indices: 18336119--18336303 Score: 273
Period size: 99 Copynumber: 1.9 Consensus size: 99
18336109 GTCGGGGAAC
* ** *
18336119 AAGATTTGCCGTTGTAGCTTCAAT-TTGTTTAATTGCAATGTCGGGGAACAAGATTCACCATTGT
1 AAGATTCGCCGTTACAGCTTCAATATT-TTAAATTGCAATGTCGGGGAACAAGATTCACCATTGT
18336183 AGCTTCAATATGTTCCACTGCACCGCCAGGGAAGT
65 AGCTTCAATATGTTCCACTGCACCGCCAGGGAAGT
* * *
18336218 AAGATTCGCCGTTACAGCTTCAATATTTTAAATTGCAATGTTGGGGAACAAGATTCGCCGTTGTA
1 AAGATTCGCCGTTACAGCTTCAATATTTTAAATTGCAATGTCGGGGAACAAGATTCACCATTGTA
* *
18336283 GCTTCAATCTGTTCCCCTGCA
66 GCTTCAATATGTTCCACTGCA
18336304 ATGCCAAAGA
Statistics
Matches: 76, Mismatches: 9, Indels: 2
0.87 0.10 0.02
Matches are distributed among these distances:
99 74 0.97
100 2 0.03
ACGTcount: A:0.26, C:0.21, G:0.21, T:0.32
Consensus pattern (99 bp):
AAGATTCGCCGTTACAGCTTCAATATTTTAAATTGCAATGTCGGGGAACAAGATTCACCATTGTA
GCTTCAATATGTTCCACTGCACCGCCAGGGAAGT
Found at i:18336304 original size:148 final size:148
Alignment explanation
Indices: 18335984--18336306 Score: 376
Period size: 148 Copynumber: 2.2 Consensus size: 148
18335974 CTGTAATGTA
* * * * * * * * ** * *
18335984 TAGCTTCAATCTTTTTAGCTGTAATATCGGGGAAGTAAGATTCATCGTTGCGGCTTCAATCTTTT
1 TAGCTTCAATCTGTTCAACTGCAATGTCGGGGAA-CAAGATTCACCATTGTAGCTTCAATATGTT
* * * *** * *
18336049 CTACTGCACCGTCAGGGAAGTAAGATTTACCGTTGTGGCTTCAATCTTTTTAATTACAATGTCGG
65 CCACTGCACCGCCAGGGAAGTAAGATTCACCGTTACAGCTTCAATATTTTAAATTACAATGTCGG
*
18336114 GGAACAAGATTTGCCGTTG
130 GGAACAAGATTCGCCGTTG
* * *
18336133 TAGCTTCAATTTGTTTAATTGCAATGTCGGGGAACAAGATTCACCATTGTAGCTTCAATATGTTC
1 TAGCTTCAATCTGTTCAACTGCAATGTCGGGGAACAAGATTCACCATTGTAGCTTCAATATGTTC
* * *
18336198 CACTGCACCGCCAGGGAAGTAAGATTCGCCGTTACAGCTTCAATATTTTAAATTGCAATGTTGGG
66 CACTGCACCGCCAGGGAAGTAAGATTCACCGTTACAGCTTCAATATTTTAAATTACAATGTCGGG
18336263 GAACAAGATTCGCCGTTG
131 GAACAAGATTCGCCGTTG
**
18336281 TAGCTTCAATCTGTTCCCCTGCAATG
1 TAGCTTCAATCTGTTCAACTGCAATG
18336307 CCAAAGAGAT
Statistics
Matches: 144, Mismatches: 30, Indels: 1
0.82 0.17 0.01
Matches are distributed among these distances:
148 116 0.81
149 28 0.19
ACGTcount: A:0.25, C:0.20, G:0.21, T:0.33
Consensus pattern (148 bp):
TAGCTTCAATCTGTTCAACTGCAATGTCGGGGAACAAGATTCACCATTGTAGCTTCAATATGTTC
CACTGCACCGCCAGGGAAGTAAGATTCACCGTTACAGCTTCAATATTTTAAATTACAATGTCGGG
GAACAAGATTCGCCGTTG
Found at i:18336559 original size:89 final size:89
Alignment explanation
Indices: 18336350--18336543 Score: 282
Period size: 89 Copynumber: 2.2 Consensus size: 89
18336340 TCACTGCTAA
* * * * *
18336350 TACAGGAAGACAAGATCTAATATCTTCAGTCTGTTCTACTGCAAACTTAGGGAGGTCAGACTGGT
1 TACAGGAAGACAAGATCTGATATCTTCAGTCTGCTCCACTGCAAACTCAAGGAGGTCAGACTGGT
*
18336415 GTTTTCGATCTGCTTCGCTGCCAG
66 GCTTTCGATCTGCTTCGCTGCCAG
* * *
18336439 TACAGGAAGACAAGATCTGCTATCTTCAGTCTGCTCCACTGCAAACTCAAGGAGGTTAGGCTGGT
1 TACAGGAAGACAAGATCTGATATCTTCAGTCTGCTCCACTGCAAACTCAAGGAGGTCAGACTGGT
*
18336504 GCCTTT-GATCTGCTTCGCTGCCGG
66 G-CTTTCGATCTGCTTCGCTGCCAG
18336528 TACAGGAAGACAAGAT
1 TACAGGAAGACAAGAT
18336544 ATGTTGTTTT
Statistics
Matches: 94, Mismatches: 10, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
89 91 0.97
90 3 0.03
ACGTcount: A:0.25, C:0.23, G:0.25, T:0.27
Consensus pattern (89 bp):
TACAGGAAGACAAGATCTGATATCTTCAGTCTGCTCCACTGCAAACTCAAGGAGGTCAGACTGGT
GCTTTCGATCTGCTTCGCTGCCAG
Found at i:18343262 original size:12 final size:12
Alignment explanation
Indices: 18343247--18343285 Score: 53
Period size: 12 Copynumber: 3.3 Consensus size: 12
18343237 AATAGAAAGG
18343247 TATATAGATATA
1 TATATAGATATA
*
18343259 TATATAGATATG
1 TATATAGATATA
*
18343271 TATATA-AAATA
1 TATATAGATATA
18343282 TATA
1 TATA
18343286 AAAATATATG
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
11 7 0.29
12 17 0.71
ACGTcount: A:0.51, C:0.00, G:0.08, T:0.41
Consensus pattern (12 bp):
TATATAGATATA
Found at i:18344560 original size:22 final size:22
Alignment explanation
Indices: 18344535--18344577 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
18344525 TGTTTTTTTT
18344535 TTCTATATATTTTGC-TTGATTC
1 TTCTAT-TATTTTGCATTGATTC
*
18344557 TTCTGTTATTTTGCATTGATT
1 TTCTATTATTTTGCATTGATT
18344578 TCTCTCTGCA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 8 0.42
22 11 0.58
ACGTcount: A:0.16, C:0.12, G:0.12, T:0.60
Consensus pattern (22 bp):
TTCTATTATTTTGCATTGATTC
Found at i:18344741 original size:17 final size:17
Alignment explanation
Indices: 18344704--18344741 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 17
18344694 TACTTTAGGT
*
18344704 TTTGGGCTAGGGTTTAG
1 TTTGGGCTAGGGTTTAA
18344721 TTTGGGCTGAGGG-TTAA
1 TTTGGGCT-AGGGTTTAA
18344738 TTTG
1 TTTG
18344742 TATTTGGGCA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 15 0.79
18 4 0.21
ACGTcount: A:0.13, C:0.05, G:0.39, T:0.42
Consensus pattern (17 bp):
TTTGGGCTAGGGTTTAA
Found at i:18345712 original size:20 final size:21
Alignment explanation
Indices: 18345682--18345724 Score: 61
Period size: 20 Copynumber: 2.1 Consensus size: 21
18345672 GAGTATTTAT
18345682 TTTATTTTATATAAATATTTG
1 TTTATTTTATATAAATATTTG
**
18345703 TTTA-TTTATATTCATATTTG
1 TTTATTTTATATAAATATTTG
18345723 TT
1 TT
18345725 AGCTAACGTG
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
20 16 0.80
21 4 0.20
ACGTcount: A:0.28, C:0.02, G:0.05, T:0.65
Consensus pattern (21 bp):
TTTATTTTATATAAATATTTG
Found at i:18346030 original size:87 final size:86
Alignment explanation
Indices: 18345851--18346104 Score: 289
Period size: 87 Copynumber: 2.9 Consensus size: 86
18345841 TTAAAATTGG
* * *
18345851 GATTTATTCCCG-CAGTTCAACGGGTTTTATTCATTTTATTTTATTTTA-TTTCCAAACGAGAAT
1 GATTTATTCCCGCCA-TTCAACGGATTTTATTCA--TT-TTTTATTTTATTTTCAAAACGAGTAT
* *
18345914 TAAAGTTAAATAAAATCTATTTCAG
62 TAAAATTAAATAAAATCTATTTCAA
18345939 GATTTATTCCCGCCATTCAACGGATTTTATTCCATTTTTTATTTTATTTTCAAAACGAGTATTAA
1 GATTTATTCCCGCCATTCAACGGATTTTATT-CATTTTTTATTTTATTTTCAAAACGAGTATTAA
* *
18346004 AATTAAATAAAATCTGTTTTAA
65 AATTAAATAAAATCTATTTCAA
* * ** * * *
18346026 GATTTATTCCCACCGTTCAACAAATTTTATTTCATTTTTTATTTTGTTTCCAAAATGAGTATT-A
1 GATTTATTCCCGCCATTCAACGGATTTTA-TTCATTTTTTATTTTATTTTCAAAACGAGTATTAA
* *
18346090 AATTGAATTAAATCT
65 AATTAAATAAAATCT
18346105 CGTTCTCATT
Statistics
Matches: 146, Mismatches: 16, Indels: 10
0.85 0.09 0.06
Matches are distributed among these distances:
86 24 0.16
87 89 0.61
88 29 0.20
89 4 0.03
ACGTcount: A:0.32, C:0.14, G:0.09, T:0.45
Consensus pattern (86 bp):
GATTTATTCCCGCCATTCAACGGATTTTATTCATTTTTTATTTTATTTTCAAAACGAGTATTAAA
ATTAAATAAAATCTATTTCAA
Found at i:18346272 original size:87 final size:86
Alignment explanation
Indices: 18346126--18346554 Score: 484
Period size: 87 Copynumber: 4.9 Consensus size: 86
18346116 TGGACCATTT
* * *
18346126 CTCATTTTAGAAAAAAAATTAAAATTGGAATAAAATCCGTTAAACGGCGGGAATAAATCCCGAAA
1 CTCATTTTGGAAACAAAA-TAAAATTGGAATAAAATCCGTTGAACGGCGGGAATAAATCCCGAAA
* *
18346191 CAGATTTTATTTAAATCTAATA
65 CAAATTTTATTTAATTCTAATA
* * * *
18346213 CTCATTTTGGAAACAAAGTCAAAATTGAAATAAAATCCGTTAAACAGCGGGAATAAATCCCGAAA
1 CTCATTTTGGAAACAAAAT-AAAATTGGAATAAAATCCGTTGAACGGCGGGAATAAATCCCGAAA
18346278 CAAATTTTATTTAATTCTAATA
65 CAAATTTTATTTAATTCTAATA
* * * * * * *
18346300 CTCGTTTTGGAAACAAAATCAAAATTAGAGTAAAATCTGTTGAACGACGAGAATAAATCCCGGAA
1 CTCATTTTGGAAACAAAAT-AAAATTGGAATAAAATCCGTTGAACGGCGGGAATAAATCCCGAAA
*
18346365 CAAATTTTATTTAATTTTAATA
65 CAAATTTTATTTAATTCTAATA
** * * ** * *
18346387 CTTGTTTTGGAAATAAAATAAAAATGGAATAAAATCCGTTGAACGGTAGGAATAAATCCTGAAAT
1 CTCATTTTGGAAACAAAATAAAATTGGAATAAAATCCGTTGAACGGCGGGAATAAATCCCGAAAC
*
18346452 AAATTTTATTTAACTT-TAATT
66 AAATTTTATTTAA-TTCTAATA
* * * *
18346473 CTC-GTTTGGAAATAAAATAAAATAAAAGGAATAAAATCTGTTGAACGGCGGGAATAAATCCCGA
1 CTCATTTTGGAAACAAAATAAAAT---TGGAATAAAATCCGTTGAACGGCGGGAATAAATCCCGA
* * *
18346537 AATAGATTTTATTCAATT
63 AACAAATTTTATTTAATT
18346555 TTTATTTTTA
Statistics
Matches: 294, Mismatches: 43, Indels: 10
0.85 0.12 0.03
Matches are distributed among these distances:
85 18 0.06
86 55 0.19
87 174 0.59
88 47 0.16
ACGTcount: A:0.44, C:0.12, G:0.14, T:0.30
Consensus pattern (86 bp):
CTCATTTTGGAAACAAAATAAAATTGGAATAAAATCCGTTGAACGGCGGGAATAAATCCCGAAAC
AAATTTTATTTAATTCTAATA
Found at i:18346725 original size:22 final size:20
Alignment explanation
Indices: 18346674--18346726 Score: 61
Period size: 20 Copynumber: 2.5 Consensus size: 20
18346664 CACGTTAGCG
**
18346674 AACAAATATGAATATAAATA
1 AACAAATATTTATATAAATA
18346694 AACAAATATTTATATAAAATAA
1 AACAAATATTTATAT-AAAT-A
*
18346716 AATAAATATTT
1 AACAAATATTT
18346727 GTATTTAAAA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
20 13 0.46
21 4 0.14
22 11 0.39
ACGTcount: A:0.62, C:0.04, G:0.02, T:0.32
Consensus pattern (20 bp):
AACAAATATTTATATAAATA
Found at i:18347181 original size:20 final size:20
Alignment explanation
Indices: 18347158--18347198 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
18347148 TTAAATTAAT
*
18347158 TTGATTAAAATCAAATCAAA
1 TTGATTAAAATCAAATAAAA
**
18347178 TTGATTGGAATCAAATAAAA
1 TTGATTAAAATCAAATAAAA
18347198 T
1 T
18347199 CAGGATATAT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.51, C:0.07, G:0.10, T:0.32
Consensus pattern (20 bp):
TTGATTAAAATCAAATAAAA
Found at i:18348844 original size:3 final size:3
Alignment explanation
Indices: 18348836--18348881 Score: 92
Period size: 3 Copynumber: 15.3 Consensus size: 3
18348826 TAATTAGTTC
18348836 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
18348882 GTTTTTTTTA
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 43 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
ATT
Found at i:18349429 original size:13 final size:13
Alignment explanation
Indices: 18349411--18349435 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
18349401 TCATATTATT
18349411 TTTATTTTATTTA
1 TTTATTTTATTTA
18349424 TTTATTTTATTT
1 TTTATTTTATTT
18349436 GTAATCAAAG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (13 bp):
TTTATTTTATTTA
Found at i:18352115 original size:21 final size:22
Alignment explanation
Indices: 18352074--18352120 Score: 69
Period size: 21 Copynumber: 2.2 Consensus size: 22
18352064 AATTTTAACT
18352074 TAAACTAAATATTAATTAATAA
1 TAAACTAAATATTAATTAATAA
**
18352096 TAAACTAAA-ATTTGTTAATAA
1 TAAACTAAATATTAATTAATAA
18352117 TAAA
1 TAAA
18352121 TTTTAACTTT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 14 0.61
22 9 0.39
ACGTcount: A:0.57, C:0.04, G:0.02, T:0.36
Consensus pattern (22 bp):
TAAACTAAATATTAATTAATAA
Done.