Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr10 129486693
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: 129486693
ACGTcount: A:0.32, C:0.18, G:0.17, T:0.32
Warning! 305 characters in sequence are not A, C, G, or T
File 428 of 444
Found at i:123722570 original size:78 final size:78
Alignment explanation
Indices: 123722482--123722633 Score: 259
Period size: 78 Copynumber: 1.9 Consensus size: 78
123722472 GAGTACTCCC
123722482 TGCATAGTTGTTGTCTCTTGTGCACAAGTTCAATGAGTTGTACATGAAGCTTGAAGAGTTGCATC
1 TGCATAGTTGTTGTCTCTTGTGCACAAGTTCAATGAGTTGTACATGAAGCTTGAAGAGTTGCATC
*
123722547 ATCTCCTACGAGT
66 ATATCCTACGAGT
* * * *
123722560 TGCATTGTTGTTGTCTCTTGTGTACAAGTTTAATGAGTTGTACATGAAGGTTGAAGAGTTGCATC
1 TGCATAGTTGTTGTCTCTTGTGCACAAGTTCAATGAGTTGTACATGAAGCTTGAAGAGTTGCATC
123722625 ATATCCTAC
66 ATATCCTAC
123722634 AAGTCACGAC
Statistics
Matches: 69, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
78 69 1.00
ACGTcount: A:0.24, C:0.16, G:0.23, T:0.37
Consensus pattern (78 bp):
TGCATAGTTGTTGTCTCTTGTGCACAAGTTCAATGAGTTGTACATGAAGCTTGAAGAGTTGCATC
ATATCCTACGAGT
Found at i:123731475 original size:26 final size:25
Alignment explanation
Indices: 123731442--123731576 Score: 216
Period size: 26 Copynumber: 5.2 Consensus size: 25
123731432 ATGGTACAAT
*
123731442 TGATAATAGGTTAGGTAAATGTTCAA
1 TGATAATGGGTTAGGTAAATGTTC-A
*
123731468 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTT-CA
123731494 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATG-TTCA
123731520 TGATAATGGGTTAGGTAAATGTTCA
1 TGATAATGGGTTAGGTAAATGTTCA
123731545 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATG-TTCA
123731571 TGATAA
1 TGATAA
123731577 GAATTTCATG
Statistics
Matches: 105, Mismatches: 1, Indels: 6
0.94 0.01 0.05
Matches are distributed among these distances:
25 25 0.24
26 77 0.73
27 3 0.03
ACGTcount: A:0.34, C:0.04, G:0.25, T:0.36
Consensus pattern (25 bp):
TGATAATGGGTTAGGTAAATGTTCA
Found at i:123733232 original size:27 final size:27
Alignment explanation
Indices: 123733191--123733303 Score: 129
Period size: 27 Copynumber: 4.2 Consensus size: 27
123733181 GAGGAAGCGT
*
123733191 TCTGGTGGCTATGCCACAAATATCTGA
1 TCTGGTGGCTCTGCCACAAATATCTGA
* *
123733218 TCTGGTGGCTCTGCCACATATATCTGT
1 TCTGGTGGCTCTGCCACAAATATCTGA
* *
123733245 TCTGGTGGCTCTGCCACGATTATCTGTA
1 TCTGGTGGCTCTGCCACAAATATCTG-A
* * * *
123733273 TCTGGTGACTCTGTCAC-ATTATCTGT
1 TCTGGTGGCTCTGCCACAAATATCTGA
123733299 TCTGG
1 TCTGG
123733304 CAGCCATGCT
Statistics
Matches: 75, Mismatches: 10, Indels: 3
0.85 0.11 0.03
Matches are distributed among these distances:
26 5 0.07
27 55 0.73
28 15 0.20
ACGTcount: A:0.17, C:0.24, G:0.23, T:0.36
Consensus pattern (27 bp):
TCTGGTGGCTCTGCCACAAATATCTGA
Found at i:123733296 original size:54 final size:54
Alignment explanation
Indices: 123733189--123733303 Score: 169
Period size: 54 Copynumber: 2.1 Consensus size: 54
123733179 TGGAGGAAGC
*
123733189 GTTCTGGTGGCTATGCCACAAATATCTGATCTGGTGGCTCTGCCACATATATCT
1 GTTCTGGTGGCTATGCCACAAATATCTGATCTGGTGACTCTGCCACATATATCT
* * * *
123733243 GTTCTGGTGGCTCTGCCACGATTATCTGTATCTGGTGACTCTGTCACAT-TATCT
1 GTTCTGGTGGCTATGCCACAAATATCTG-ATCTGGTGACTCTGCCACATATATCT
123733297 GTTCTGG
1 GTTCTGG
123733304 CAGCCATGCT
Statistics
Matches: 55, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
54 37 0.67
55 18 0.33
ACGTcount: A:0.17, C:0.23, G:0.23, T:0.37
Consensus pattern (54 bp):
GTTCTGGTGGCTATGCCACAAATATCTGATCTGGTGACTCTGCCACATATATCT
Found at i:123737247 original size:26 final size:26
Alignment explanation
Indices: 123737211--123737320 Score: 184
Period size: 26 Copynumber: 4.2 Consensus size: 26
123737201 TGATACAAAT
123737211 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTCCA
123737237 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTCCA
* *
123737263 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTCCA
* *
123737289 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTCCA
123737315 TGATAA
1 TGATAA
123737321 GAATTTCATG
Statistics
Matches: 82, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
26 82 1.00
ACGTcount: A:0.34, C:0.05, G:0.25, T:0.36
Consensus pattern (26 bp):
TGATAATAGGTTAGGTAAATGTTCCA
Found at i:123743054 original size:26 final size:26
Alignment explanation
Indices: 123743018--123743127 Score: 184
Period size: 26 Copynumber: 4.2 Consensus size: 26
123743008 TGATACAAAT
123743018 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTCCA
123743044 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTCCA
* *
123743070 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTCCA
* *
123743096 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTCCA
123743122 TGATAA
1 TGATAA
123743128 GAATTTCATG
Statistics
Matches: 82, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
26 82 1.00
ACGTcount: A:0.34, C:0.05, G:0.25, T:0.36
Consensus pattern (26 bp):
TGATAATAGGTTAGGTAAATGTTCCA
Found at i:123744634 original size:25 final size:26
Alignment explanation
Indices: 123744606--123744657 Score: 70
Period size: 25 Copynumber: 2.0 Consensus size: 26
123744596 TTTACAGTTT
*
123744606 TACCCCTAGTGATAAATT-ACCGAAA
1 TACCCCTAGGGATAAATTGACCGAAA
* *
123744631 TACCCCTAGGGTTAAATTGACCTAAA
1 TACCCCTAGGGATAAATTGACCGAAA
123744657 T
1 T
123744658 GCATGTTTGA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
25 16 0.70
26 7 0.30
ACGTcount: A:0.37, C:0.23, G:0.13, T:0.27
Consensus pattern (26 bp):
TACCCCTAGGGATAAATTGACCGAAA
Found at i:123751054 original size:106 final size:106
Alignment explanation
Indices: 123750863--123751072 Score: 375
Period size: 106 Copynumber: 2.0 Consensus size: 106
123750853 AATTATACTT
*
123750863 GACCCTGCCTGAACAATTAATAGGGTAACCATTTCTCAATTTCATTTATACGTCAATATCTCAAT
1 GACCCTGCCTGAACAATTAATAGGGTAACCATTTCTCAATTTCATTTATACATCAATATCTCAAT
*
123750928 TTATAGCACAATATCGTCATCAATTCATTAGTCCATGCATA
66 TTATAGCACAATATCATCATCAATTCATTAGTCCATGCATA
* *
123750969 GACCCTGCTTGAACAATTAATAGGGTAACCGTTTCTCAATTTCATTTATACATCAATATCTCAAT
1 GACCCTGCCTGAACAATTAATAGGGTAACCATTTCTCAATTTCATTTATACATCAATATCTCAAT
*
123751034 TTATAGCACAATCTCATCATCAATTCATTAGTCCATGCA
66 TTATAGCACAATATCATCATCAATTCATTAGTCCATGCA
123751073 CAAAGCAGCA
Statistics
Matches: 99, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
106 99 1.00
ACGTcount: A:0.33, C:0.23, G:0.10, T:0.34
Consensus pattern (106 bp):
GACCCTGCCTGAACAATTAATAGGGTAACCATTTCTCAATTTCATTTATACATCAATATCTCAAT
TTATAGCACAATATCATCATCAATTCATTAGTCCATGCATA
Found at i:123752302 original size:58 final size:58
Alignment explanation
Indices: 123752236--123752354 Score: 220
Period size: 58 Copynumber: 2.1 Consensus size: 58
123752226 ACTTTTTTTG
*
123752236 ACACCATTCACTTTCAGGTCGTTACAAAAGGAGAAGGCTTAGATCATCAATGACACTA
1 ACACCATTCACTTTCAGGTCGTTACAAAAAGAGAAGGCTTAGATCATCAATGACACTA
*
123752294 ACACCATTCACTTTCAGGTCGTTACAAAAAGAGAAGGCTTAGATCATCAATGGCACTA
1 ACACCATTCACTTTCAGGTCGTTACAAAAAGAGAAGGCTTAGATCATCAATGACACTA
123752352 ACA
1 ACA
123752355 TCTTTAGATA
Statistics
Matches: 59, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
58 59 1.00
ACGTcount: A:0.37, C:0.23, G:0.17, T:0.24
Consensus pattern (58 bp):
ACACCATTCACTTTCAGGTCGTTACAAAAAGAGAAGGCTTAGATCATCAATGACACTA
Found at i:123759190 original size:26 final size:26
Alignment explanation
Indices: 123759154--123759315 Score: 252
Period size: 26 Copynumber: 6.2 Consensus size: 26
123759144 TGATACAAAT
123759154 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTCCA
123759180 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTCCA
* *
123759206 TGAAAATAGGTTAGGTAAATATTCCA
1 TGATAATAGGTTAGGTAAATGTTCCA
* *
123759232 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTCCA
* *
123759258 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTCCA
* *
123759284 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTCCA
123759310 TGATAA
1 TGATAA
123759316 GAATTTCATG
Statistics
Matches: 130, Mismatches: 6, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 130 1.00
ACGTcount: A:0.35, C:0.06, G:0.24, T:0.36
Consensus pattern (26 bp):
TGATAATAGGTTAGGTAAATGTTCCA
Found at i:123761031 original size:54 final size:53
Alignment explanation
Indices: 123760930--123761043 Score: 142
Period size: 54 Copynumber: 2.1 Consensus size: 53
123760920 TGGAGGAAGC
123760930 GTTCTGGTGGCTATGCCACAAATATCTGATCTAGTGGCTCTGCCACATATATCT
1 GTTCTGGTGGCTATGCCACAAATATCTGATCTAGTGGCTCTGCCACAT-TATCT
* * * * *
123760984 GTTCTGGTGGCTCTGCCACGATTATCTGTATCTGGTGAG-TC-GTCACATTATCT
1 GTTCTGGTGGCTATGCCACAAATATCTG-ATCTAGTG-GCTCTGCCACATTATCT
123761037 GTTCTGG
1 GTTCTGG
123761044 CAGCCATGCT
Statistics
Matches: 53, Mismatches: 5, Indels: 5
0.84 0.08 0.08
Matches are distributed among these distances:
53 12 0.23
54 31 0.58
55 9 0.17
56 1 0.02
ACGTcount: A:0.18, C:0.23, G:0.24, T:0.36
Consensus pattern (53 bp):
GTTCTGGTGGCTATGCCACAAATATCTGATCTAGTGGCTCTGCCACATTATCT
Found at i:123761036 original size:26 final size:26
Alignment explanation
Indices: 123760930--123761043 Score: 124
Period size: 27 Copynumber: 4.3 Consensus size: 26
123760920 TGGAGGAAGC
* *
123760930 GTTCTGGTGGCTATGCCACAAATATCT
1 GTTCTGGTGGCTCTGCCAC-ATTATCT
* *
123760957 GATCTAGTGGCTCTGCCACATATATCT
1 GTTCTGGTGGCTCTGCCACAT-TATCT
123760984 GTTCTGGTGGCTCTGCCACGATTATCT
1 GTTCTGGTGGCTCTGCCAC-ATTATCT
*
123761011 GTATCTGGTGAG-TC-GTCACATTATCT
1 GT-TCTGGTG-GCTCTGCCACATTATCT
123761037 GTTCTGG
1 GTTCTGG
123761044 CAGCCATGCT
Statistics
Matches: 76, Mismatches: 7, Indels: 10
0.82 0.08 0.11
Matches are distributed among these distances:
25 5 0.07
26 10 0.13
27 49 0.64
28 11 0.14
29 1 0.01
ACGTcount: A:0.18, C:0.23, G:0.24, T:0.36
Consensus pattern (26 bp):
GTTCTGGTGGCTCTGCCACATTATCT
Found at i:123768106 original size:26 final size:26
Alignment explanation
Indices: 123768069--123768152 Score: 150
Period size: 26 Copynumber: 3.2 Consensus size: 26
123768059 TGATACAAAT
*
123768069 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTTCA
*
123768095 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTTCA
123768121 TGATAATAGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTTCA
123768147 TGATAA
1 TGATAA
123768153 GAATTTCATG
Statistics
Matches: 55, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
26 55 1.00
ACGTcount: A:0.35, C:0.05, G:0.24, T:0.37
Consensus pattern (26 bp):
TGATAATAGGTTAGGTAAATGTTTCA
Found at i:123773967 original size:12 final size:12
Alignment explanation
Indices: 123773950--123773980 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
123773940 GAAGCAGGGG
123773950 AGAAAAAGAGAA
1 AGAAAAAGAGAA
*
123773962 AGAAAAAGGGAA
1 AGAAAAAGAGAA
123773974 AGAAAAA
1 AGAAAAA
123773981 TAAAAGAGAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.74, C:0.00, G:0.26, T:0.00
Consensus pattern (12 bp):
AGAAAAAGAGAA
Found at i:123782000 original size:2 final size:2
Alignment explanation
Indices: 123781993--123782034 Score: 84
Period size: 2 Copynumber: 21.0 Consensus size: 2
123781983 AATACAAGTT
123781993 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
123782035 ATAATTATTT
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 40 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:123797451 original size:41 final size:41
Alignment explanation
Indices: 123797394--123797476 Score: 166
Period size: 41 Copynumber: 2.0 Consensus size: 41
123797384 AAAAAGCAAG
123797394 TCGAAAACAAAAGAAACAGTAGTATTATTGCGAGCATGCTA
1 TCGAAAACAAAAGAAACAGTAGTATTATTGCGAGCATGCTA
123797435 TCGAAAACAAAAGAAACAGTAGTATTATTGCGAGCATGCTA
1 TCGAAAACAAAAGAAACAGTAGTATTATTGCGAGCATGCTA
123797476 T
1 T
123797477 TGATCTTCAG
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 42 1.00
ACGTcount: A:0.43, C:0.14, G:0.19, T:0.23
Consensus pattern (41 bp):
TCGAAAACAAAAGAAACAGTAGTATTATTGCGAGCATGCTA
Found at i:123812507 original size:208 final size:204
Alignment explanation
Indices: 123812134--123812606 Score: 829
Period size: 208 Copynumber: 2.3 Consensus size: 204
123812124 TTATTAAAAC
* * **
123812134 GCATACTTTATCTGGATGAAGTATGTATTAGCAGATTTACTAATATGATTATATATATATTTACG
1 GCATACTTTACCTGGATGAAGTATGTATTAGCAGATTCACTAATATGATTATATATATATACACG
123812199 CATGTATCACATTACAAAAAAAATTAAATACTTATACCTAATAAAACATGTATCTCATTACAATA
66 CATGTATCACATTACAAAAAAAATTAAATACTTATACCTAATAAAACATGTATCTCATTACAATA
*
123812264 ATAATTATTTTTCAAATAACATATTGTTTTATAATTTTATTTCTTATTTAATATTTTAATTTAAT
131 ATAATTATTTTCCAAATAACATATTGTTTTATAATTTTATTTCTTATTTAATATTTTAATTTAAT
123812329 TTTAATAAT
196 TTTAATAAT
*
123812338 GCATACTTTACCTGAATGAAGTATGTATTAGCAGATTCACTAATATGATTATATATATATACACG
1 GCATACTTTACCTGGATGAAGTATGTATTAGCAGATTCACTAATATGATTATATATATATACACG
123812403 CATGTATCACATTACAAAAATAAAAATTTAAATACTTATACCTAATAAAACATGTATCTCATTAC
66 CATGTATCACATTAC--AAA-AAAAA-TTAAATACTTATACCTAATAAAACATGTATCTCATTAC
*
123812468 AATAATAGTTATTTTCCAAATAACATATTGTTTTATAATTTTATTTCTTATTTAATATTTTAATT
127 AATAATAATTATTTTCCAAATAACATATTGTTTTATAATTTTATTTCTTATTTAATATTTTAATT
123812533 TAATTTTAATAAT
192 TAATTTTAATAAT
* *
123812546 GTATACTTTACCTGGATGAAGTATGTATTAGCAAATTCACTAATATGATTATATATATATA
1 GCATACTTTACCTGGATGAAGTATGTATTAGCAGATTCACTAATATGATTATATATATATA
123812607 TATATATATA
Statistics
Matches: 255, Mismatches: 10, Indels: 4
0.95 0.04 0.01
Matches are distributed among these distances:
204 75 0.29
206 3 0.01
207 5 0.02
208 172 0.67
ACGTcount: A:0.40, C:0.11, G:0.07, T:0.42
Consensus pattern (204 bp):
GCATACTTTACCTGGATGAAGTATGTATTAGCAGATTCACTAATATGATTATATATATATACACG
CATGTATCACATTACAAAAAAAATTAAATACTTATACCTAATAAAACATGTATCTCATTACAATA
ATAATTATTTTCCAAATAACATATTGTTTTATAATTTTATTTCTTATTTAATATTTTAATTTAAT
TTTAATAAT
Found at i:123812602 original size:2 final size:2
Alignment explanation
Indices: 123812595--123812623 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
123812585 CTAATATGAT
123812595 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
123812624 TTATGCATGT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:123814022 original size:22 final size:22
Alignment explanation
Indices: 123813995--123814037 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
123813985 CGTAGTTATT
*
123813995 TTTTAATTTATTAAATAATATA
1 TTTTAATATATTAAATAATATA
*
123814017 TTTTAATATATTAATTAATAT
1 TTTTAATATATTAAATAATAT
123814038 GTTTATAGAG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (22 bp):
TTTTAATATATTAAATAATATA
Found at i:123814034 original size:12 final size:12
Alignment explanation
Indices: 123813997--123814037 Score: 50
Period size: 12 Copynumber: 3.6 Consensus size: 12
123813987 TAGTTATTTT
*
123813997 TTAATTTATTAA
1 TTAATATATTAA
*
123814009 ATAATATATT--
1 TTAATATATTAA
123814019 TTAATATATTAA
1 TTAATATATTAA
123814031 TTAATAT
1 TTAATAT
123814038 GTTTATAGAG
Statistics
Matches: 24, Mismatches: 3, Indels: 4
0.77 0.10 0.13
Matches are distributed among these distances:
10 9 0.38
12 15 0.62
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (12 bp):
TTAATATATTAA
Found at i:123816289 original size:1 final size:1
Alignment explanation
Indices: 123816285--123816313 Score: 58
Period size: 1 Copynumber: 29.0 Consensus size: 1
123816275 CCTTTTTCCC
123816285 TTTTTTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTT
123816314 GAGGGGGAGG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 28 1.00
ACGTcount: A:0.00, C:0.00, G:0.00, T:1.00
Consensus pattern (1 bp):
T
Found at i:123823478 original size:19 final size:19
Alignment explanation
Indices: 123823454--123823490 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
123823444 AATTTTTCAC
123823454 TTTTTTTGTAAATTTAGTA
1 TTTTTTTGTAAATTTAGTA
* *
123823473 TTTTTTTTTAACTTTAGT
1 TTTTTTTGTAAATTTAGT
123823491 TCTGAATTTG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.22, C:0.03, G:0.08, T:0.68
Consensus pattern (19 bp):
TTTTTTTGTAAATTTAGTA
Found at i:123824815 original size:16 final size:16
Alignment explanation
Indices: 123824794--123824858 Score: 54
Period size: 14 Copynumber: 4.5 Consensus size: 16
123824784 TTCACTAAAA
123824794 AATATATATGTATATT
1 AATATATATGTATATT
123824810 -A-ATATATGTA-ATT
1 AATATATATGTATATT
* * *
123824823 -AT-TAAAT-TCT-TA
1 AATATATATGTATATT
123824835 AATATATATGTATATT
1 AATATATATGTATATT
123824851 AATATATA
1 AATATATA
123824859 GAAATTCTAA
Statistics
Matches: 37, Mismatches: 6, Indels: 12
0.67 0.11 0.22
Matches are distributed among these distances:
12 2 0.05
13 10 0.27
14 13 0.35
15 3 0.08
16 9 0.24
ACGTcount: A:0.46, C:0.02, G:0.05, T:0.48
Consensus pattern (16 bp):
AATATATATGTATATT
Found at i:123825472 original size:100 final size:101
Alignment explanation
Indices: 123825322--123825532 Score: 343
Period size: 100 Copynumber: 2.1 Consensus size: 101
123825312 CTATAAATAA
* *
123825322 TTAATATTAATTTTTTTAAAAATATTTAAAATTTATATTTTATATATTAAAATATTAACAACAAA
1 TTAATATT-ATTTTTTTAAAAAAATTTAAAATTTATATTTCATATATTAAAATATTAACAACAAA
*
123825387 TTATAATAAATTATTTTTATATTCTTACTAAGATAT-
65 TTATAATAAATTATTTTTATATTCTTACTAAAATATC
* *
123825423 TTAATATTATTTTTTTAAAAAAATTTAAAATTTATATTTCATATGTTAAAGTATTAACAACAAAT
1 TTAATATTATTTTTTTAAAAAAATTTAAAATTTATATTTCATATATTAAAATATTAACAACAAAT
*
123825488 TATAATAAATTATTTTTATATTCTTATTAAAATATC
66 TATAATAAATTATTTTTATATTCTTACTAAAATATC
*
123825524 ATAATATTA
1 TTAATATTA
123825533 ACTAATTTGA
Statistics
Matches: 102, Mismatches: 7, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
100 86 0.84
101 16 0.16
ACGTcount: A:0.45, C:0.04, G:0.01, T:0.49
Consensus pattern (101 bp):
TTAATATTATTTTTTTAAAAAAATTTAAAATTTATATTTCATATATTAAAATATTAACAACAAAT
TATAATAAATTATTTTTATATTCTTACTAAAATATC
Found at i:123825720 original size:24 final size:24
Alignment explanation
Indices: 123825688--123825738 Score: 66
Period size: 24 Copynumber: 2.1 Consensus size: 24
123825678 TCACTTTTTA
* * *
123825688 AAAATACTTCACAAAAATAATGTT
1 AAAACACTTCACAAAAACAATGCT
*
123825712 AAAACACTTCTCAAAAACAATGCT
1 AAAACACTTCACAAAAACAATGCT
123825736 AAA
1 AAA
123825739 CTAGTCCTAA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.55, C:0.18, G:0.04, T:0.24
Consensus pattern (24 bp):
AAAACACTTCACAAAAACAATGCT
Found at i:123828546 original size:23 final size:25
Alignment explanation
Indices: 123828520--123828566 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 25
123828510 TATCATTCAT
*
123828520 TTCATTATAT-CA-ATATTTTATGC
1 TTCATCATATCCATATATTTTATGC
*
123828543 TTCATCATTTCCATATATTTTATG
1 TTCATCATATCCATATATTTTATG
123828567 TATATTTATT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 8 0.40
24 2 0.10
25 10 0.50
ACGTcount: A:0.28, C:0.15, G:0.04, T:0.53
Consensus pattern (25 bp):
TTCATCATATCCATATATTTTATGC
Found at i:123828920 original size:46 final size:46
Alignment explanation
Indices: 123828827--123829090 Score: 341
Period size: 46 Copynumber: 5.9 Consensus size: 46
123828817 TTTGACGTGA
* * * * * *
123828827 TGCCATAGTGTCTTTCAACTAT-GTCTTACTCATTTTC-TGTCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACA-TTTCATATCAGGT
** * * *
123828872 TGCCATGGTATCTTTCAACCATGGTCTTATTCTTTTCATGTCACGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
*
123828918 TGCCATGGTATCTTTCAACCATGGTCTTACACATCTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
123828964 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
123829010 TGCCATGGTATCTTTCAACCATGGTCTT--ACA---C--A-CAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
123829048 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCA
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCA
123829091 AAGAGCACAT
Statistics
Matches: 196, Mismatches: 13, Indels: 19
0.86 0.06 0.08
Matches are distributed among these distances:
38 33 0.17
39 1 0.01
40 3 0.02
41 1 0.01
43 1 0.01
44 3 0.02
45 24 0.12
46 130 0.66
ACGTcount: A:0.22, C:0.25, G:0.15, T:0.39
Consensus pattern (46 bp):
TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
Found at i:123829056 original size:38 final size:38
Alignment explanation
Indices: 123829005--123829080 Score: 152
Period size: 38 Copynumber: 2.0 Consensus size: 38
123828995 CATTTCATAT
123829005 CAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACA
1 CAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACA
123829043 CAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACA
1 CAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACA
123829081 TTTCATATCA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 38 1.00
ACGTcount: A:0.24, C:0.26, G:0.18, T:0.32
Consensus pattern (38 bp):
CAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACA
Found at i:123834153 original size:46 final size:47
Alignment explanation
Indices: 123834090--123834410 Score: 420
Period size: 46 Copynumber: 7.0 Consensus size: 47
123834080 TTCGACATGA
* * * * * *
123834090 TGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTC-TGTCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTTCATATCAGGT
* ** * *** *
123834136 TGCCATGGTATCATTCAACCATGGTCTTATTCATTTCCCCGTCACGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTTCATATCAGGT
* *
123834183 TGCCATGGTATCTTTCAACCATGGTCTTACACA-TTTCATGTCACGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTTCATATCAGGT
123834229 TGCCATGGTATCTTTCAACCATGGTCTTACACA-TTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTTCATATCAGGT
*
123834275 TGCCATGGTATCTTTCAACCATGGTCTTACAC-GTTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTTCATATCAGGT
*
123834321 TGCCATGGTATCTTTCAACCATGGTCTTACAC-GTTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTTCATATCAGGT
* *
123834367 GGCCATGGTATCTTTCAACCATGATCTTACACATTTTC-TATCAG
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTTCATATCAG
123834411 AGAGCACACT
Statistics
Matches: 253, Mismatches: 19, Indels: 6
0.91 0.07 0.02
Matches are distributed among these distances:
46 213 0.84
47 40 0.16
ACGTcount: A:0.21, C:0.25, G:0.16, T:0.38
Consensus pattern (47 bp):
TGCCATGGTATCTTTCAACCATGGTCTTACACATTTTCATATCAGGT
Found at i:123836568 original size:11 final size:11
Alignment explanation
Indices: 123836552--123836603 Score: 52
Period size: 11 Copynumber: 4.7 Consensus size: 11
123836542 TATACTAAAT
123836552 AAATAATAATA
1 AAATAATAATA
*
123836563 AAATAAT-ATT
1 AAATAATAATA
* *
123836573 AAATATCTCATA
1 AAATA-ATAATA
*
123836585 AAATATTAATA
1 AAATAATAATA
123836596 AAATAATA
1 AAATAATA
123836604 TTTATCTAAT
Statistics
Matches: 33, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
10 7 0.21
11 19 0.58
12 7 0.21
ACGTcount: A:0.63, C:0.04, G:0.00, T:0.33
Consensus pattern (11 bp):
AAATAATAATA
Found at i:123843892 original size:52 final size:47
Alignment explanation
Indices: 123843815--123844004 Score: 166
Period size: 47 Copynumber: 3.9 Consensus size: 47
123843805 ATCTGATTTT
* * * *
123843815 CGTATAAGACCATAGCTGGGCTATGGCTTCGGAGAAATGTGATATGTGCTTC
1 CGTATAAGACCATATCTGGGATATGGCATC-G-G---TGTGATATGTGCTAC
* *
123843867 CGTATAAGAGCATATCCGGGATATGGCATCGGTGTGATATGTGCTAC
1 CGTATAAGACCATATCTGGGATATGGCATCGGTGTGATATGTGCTAC
* * * *
123843914 TGTATAAGACCATATATGGGATATGGCATCAGTGTGATATGTGAT-C
1 CGTATAAGACCATATCTGGGATATGGCATCGGTGTGATATGTGCTAC
* ** * * *
123843960 CGTGTAAGACCATGGCTGGGCTATGGCCTCGATATGTGATATGTG
1 CGTATAAGACCATATCTGGGATATGGCATCG--GTGTGATATGTG
123844005 ACTATGTGCA
Statistics
Matches: 115, Mismatches: 21, Indels: 8
0.80 0.15 0.06
Matches are distributed among these distances:
46 24 0.21
47 53 0.46
48 11 0.10
50 1 0.01
51 1 0.01
52 25 0.22
ACGTcount: A:0.25, C:0.16, G:0.29, T:0.29
Consensus pattern (47 bp):
CGTATAAGACCATATCTGGGATATGGCATCGGTGTGATATGTGCTAC
Found at i:123847596 original size:44 final size:45
Alignment explanation
Indices: 123847543--123847646 Score: 138
Period size: 44 Copynumber: 2.3 Consensus size: 45
123847533 TGTCTTTGAC
* * *
123847543 ATGGACTTACATGAATTATTCCTGTCTCCAATGCCATA-TATAAT
1 ATGGACTTACATGAATCAATCCTGTCTCCAAAGCCATATTATAAT
** *
123847587 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATTTCTAAT
1 ATGGACTTACATGAATCAATCCTGTCTCCAAAGCCATA-TTATAAT
123847633 ATGGACTTACATGA
1 ATGGACTTACATGA
123847647 CTCATTTCGT
Statistics
Matches: 51, Mismatches: 7, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
44 33 0.65
46 18 0.35
ACGTcount: A:0.31, C:0.22, G:0.13, T:0.34
Consensus pattern (45 bp):
ATGGACTTACATGAATCAATCCTGTCTCCAAAGCCATATTATAAT
Found at i:123851068 original size:21 final size:21
Alignment explanation
Indices: 123851042--123851082 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
123851032 AGACAAGCGA
* *
123851042 TACTCCACAGCAGGTGGAGTG
1 TACTCCAAAACAGGTGGAGTG
123851063 TACTCCAAAACAGGTGGAGT
1 TACTCCAAAACAGGTGGAGT
123851083 TTGAGCAGAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.29, C:0.22, G:0.29, T:0.20
Consensus pattern (21 bp):
TACTCCAAAACAGGTGGAGTG
Found at i:123855695 original size:91 final size:91
Alignment explanation
Indices: 123855563--123855746 Score: 323
Period size: 91 Copynumber: 2.0 Consensus size: 91
123855553 CTCTAACATT
* * *
123855563 AAACAAATTCTCATTATTATTAACTAACGATTCTAAACCAAGTCTAAGTAATTAATAATAAATAC
1 AAACAAATTCTCATTATTATTAACCAACAATTCTAAACCAAGTATAAGTAATTAATAATAAATAC
123855628 TATGCAATTTAATTAAATTTAGTATA
66 TATGCAATTTAATTAAATTTAGTATA
* *
123855654 AAACAAATTCTCATTATTATTAACCAACAATTCTAAACCAAGTATGAGTAATTAATAATAAGTAC
1 AAACAAATTCTCATTATTATTAACCAACAATTCTAAACCAAGTATAAGTAATTAATAATAAATAC
123855719 TATGCAATTTAATTAAATTTAGTATA
66 TATGCAATTTAATTAAATTTAGTATA
123855745 AA
1 AA
123855747 TAATTTATGA
Statistics
Matches: 88, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
91 88 1.00
ACGTcount: A:0.47, C:0.12, G:0.06, T:0.35
Consensus pattern (91 bp):
AAACAAATTCTCATTATTATTAACCAACAATTCTAAACCAAGTATAAGTAATTAATAATAAATAC
TATGCAATTTAATTAAATTTAGTATA
Found at i:123858630 original size:19 final size:19
Alignment explanation
Indices: 123858606--123858652 Score: 94
Period size: 19 Copynumber: 2.5 Consensus size: 19
123858596 CTAAAACAAA
123858606 GTATTTTGAAAATATTTAT
1 GTATTTTGAAAATATTTAT
123858625 GTATTTTGAAAATATTTAT
1 GTATTTTGAAAATATTTAT
123858644 GTATTTTGA
1 GTATTTTGA
123858653 TATTTTGATA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 28 1.00
ACGTcount: A:0.34, C:0.00, G:0.13, T:0.53
Consensus pattern (19 bp):
GTATTTTGAAAATATTTAT
Found at i:123858649 original size:27 final size:26
Alignment explanation
Indices: 123858618--123858669 Score: 70
Period size: 27 Copynumber: 2.0 Consensus size: 26
123858608 ATTTTGAAAA
123858618 TATTTATG-TATTTTGAAAATATTTATG
1 TATTT-TGATATTTTGAAAA-ATTTATG
*
123858645 TATTTTGATATTTTGATAAATTTAT
1 TATTTTGATATTTTGAAAAATTTAT
123858670 ATACTATGGG
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
26 8 0.35
27 15 0.65
ACGTcount: A:0.33, C:0.00, G:0.10, T:0.58
Consensus pattern (26 bp):
TATTTTGATATTTTGAAAAATTTATG
Found at i:123864264 original size:20 final size:19
Alignment explanation
Indices: 123864239--123864281 Score: 61
Period size: 19 Copynumber: 2.3 Consensus size: 19
123864229 TTATATAGTT
*
123864239 TTAATTTTTTAAAAAGAATA
1 TTAATTTATTAAAAA-AATA
123864259 TTAA-TTATTAAAAAAATA
1 TTAATTTATTAAAAAAATA
123864277 TTAAT
1 TTAAT
123864282 GTAATTAATA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
18 8 0.38
19 9 0.43
20 4 0.19
ACGTcount: A:0.53, C:0.00, G:0.02, T:0.44
Consensus pattern (19 bp):
TTAATTTATTAAAAAAATA
Found at i:123865717 original size:21 final size:23
Alignment explanation
Indices: 123865670--123865723 Score: 60
Period size: 23 Copynumber: 2.5 Consensus size: 23
123865660 CATTCAAGAT
**
123865670 AAAATAATATATAAAACTCTTTA
1 AAAATAATATATAAAACTAATTA
*
123865693 AAAATAATATAT-AAAC-AATTC
1 AAAATAATATATAAAACTAATTA
123865714 AAAAT-ATATA
1 AAAATAATATA
123865724 ATGTGTGAAA
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
20 5 0.18
21 7 0.25
22 4 0.14
23 12 0.43
ACGTcount: A:0.61, C:0.07, G:0.00, T:0.31
Consensus pattern (23 bp):
AAAATAATATATAAAACTAATTA
Found at i:123865849 original size:4 final size:4
Alignment explanation
Indices: 123865840--123865868 Score: 58
Period size: 4 Copynumber: 7.2 Consensus size: 4
123865830 AAAAAATGTA
123865840 AAAT AAAT AAAT AAAT AAAT AAAT AAAT A
1 AAAT AAAT AAAT AAAT AAAT AAAT AAAT A
123865869 GAATGTTAAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 25 1.00
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (4 bp):
AAAT
Found at i:123865965 original size:15 final size:15
Alignment explanation
Indices: 123865941--123865986 Score: 65
Period size: 15 Copynumber: 2.9 Consensus size: 15
123865931 ATATAAATAG
*
123865941 AAATAAAAATATAAT
1 AAATAGAAATATAAT
123865956 AAATAGAAATATAAT
1 AAATAGAAATATAAT
123865971 AATAGTAGAAATATAA
1 AA-A-TAGAAATATAA
123865987 ATAGATAAAT
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
15 16 0.57
16 1 0.04
17 11 0.39
ACGTcount: A:0.67, C:0.00, G:0.07, T:0.26
Consensus pattern (15 bp):
AAATAGAAATATAAT
Found at i:123865987 original size:29 final size:29
Alignment explanation
Indices: 123865954--123866070 Score: 94
Period size: 29 Copynumber: 4.0 Consensus size: 29
123865944 TAAAAATATA
*
123865954 ATAAATAGAAATATAATAATAGTAGAAAT
1 ATAAATAGAAATATAATAATAATAGAAAT
* * * *
123865983 ATAAATAGATAA-ATAAAAATTAGATAAAT
1 ATAAATAGA-AATATAATAATAATAGAAAT
* * * * * *
123866012 A-ATAATAGTATTAGAATAACAAAATAAAT
1 ATA-AATAGAAATATAATAATAATAGAAAT
*
123866041 ATAAATAGAAACATAATAATAATAGAAAT
1 ATAAATAGAAATATAATAATAATAGAAAT
123866070 A
1 A
123866071 ATATATTAAA
Statistics
Matches: 65, Mismatches: 19, Indels: 8
0.71 0.21 0.09
Matches are distributed among these distances:
28 2 0.03
29 60 0.92
30 3 0.05
ACGTcount: A:0.64, C:0.02, G:0.08, T:0.26
Consensus pattern (29 bp):
ATAAATAGAAATATAATAATAATAGAAAT
Found at i:123866006 original size:15 final size:14
Alignment explanation
Indices: 123865933--123866049 Score: 62
Period size: 15 Copynumber: 8.1 Consensus size: 14
123865923 ATATTAGTAT
*
123865933 ATAAATAGAAATA-
1 ATAAATAAAAATAG
*
123865946 AAAATATAATAAATAG
1 ATAA-ATAA-AAATAG
*
123865962 A-AATATAATAATAG
1 ATAA-ATAAAAATAG
* *
123865976 TAGAAATATAAATAG
1 -ATAAATAAAAATAG
123865991 ATAAATAAAAATTAG
1 ATAAATAAAAA-TAG
*
123866006 ATAAATAATAATAG
1 ATAAATAAAAATAG
*
123866020 TATTAGAATAACAA-A-
1 -A-TA-AATAAAAATAG
*
123866035 ATAAATATAAATAG
1 ATAAATAAAAATAG
123866049 A
1 A
123866050 AACATAATAA
Statistics
Matches: 82, Mismatches: 11, Indels: 21
0.72 0.10 0.18
Matches are distributed among these distances:
12 6 0.07
13 6 0.07
14 22 0.27
15 35 0.43
16 6 0.07
17 7 0.09
ACGTcount: A:0.65, C:0.01, G:0.08, T:0.26
Consensus pattern (14 bp):
ATAAATAAAAATAG
Found at i:123866486 original size:35 final size:32
Alignment explanation
Indices: 123866405--123866501 Score: 97
Period size: 35 Copynumber: 2.8 Consensus size: 32
123866395 ATTCTCACGT
123866405 AATTGAAAGAGAAAAGAAAATAATTCAATTCA
1 AATTGAAAGAGAAAAGAAAATAATTCAATTCA
* *
123866437 AATAGAAACAAGAAAAGAGAGAATAATTCAATTTCA
1 AATTGAAA-GAGAAAAGA-A-AATAATTCAA-TTCA
*
123866473 AATTG-AAGTAGAAATACAAAAGTAATTCA
1 AATTGAAAG-AGAAA-AGAAAA-TAATTCA
123866502 TCCAAGTCTC
Statistics
Matches: 53, Mismatches: 5, Indels: 11
0.77 0.07 0.16
Matches are distributed among these distances:
32 7 0.13
33 8 0.15
34 3 0.06
35 25 0.47
36 10 0.19
ACGTcount: A:0.58, C:0.07, G:0.13, T:0.22
Consensus pattern (32 bp):
AATTGAAAGAGAAAAGAAAATAATTCAATTCA
Found at i:123868878 original size:11 final size:10
Alignment explanation
Indices: 123868862--123868905 Score: 52
Period size: 11 Copynumber: 4.0 Consensus size: 10
123868852 CAACAACACG
123868862 AATAAACAAAA
1 AATAAA-AAAA
123868873 AATAAAAATAA
1 AATAAAAA-AA
123868884 AATAAAAATAAA
1 AAT-AAAA-AAA
123868896 AATAAAAAAA
1 AATAAAAAAA
123868906 GAAGAAGAAG
Statistics
Matches: 30, Mismatches: 0, Indels: 7
0.81 0.00 0.19
Matches are distributed among these distances:
10 5 0.17
11 15 0.50
12 9 0.30
13 1 0.03
ACGTcount: A:0.84, C:0.02, G:0.00, T:0.14
Consensus pattern (10 bp):
AATAAAAAAA
Found at i:123868881 original size:6 final size:6
Alignment explanation
Indices: 123868870--123868903 Score: 61
Period size: 6 Copynumber: 5.8 Consensus size: 6
123868860 CGAATAAACA
123868870 AAAAAT AAAAAT -AAAAT AAAAAT AAAAAT AAAAA
1 AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT AAAAA
123868904 AAGAAGAAGA
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
5 5 0.19
6 22 0.81
ACGTcount: A:0.85, C:0.00, G:0.00, T:0.15
Consensus pattern (6 bp):
AAAAAT
Found at i:123868884 original size:17 final size:16
Alignment explanation
Indices: 123868862--123868905 Score: 70
Period size: 17 Copynumber: 2.6 Consensus size: 16
123868852 CAACAACACG
123868862 AATAAACAAAAAATAAA
1 AATAAA-AAAAAATAAA
123868879 AATAAAATAAAAATAAA
1 AATAAAA-AAAAATAAA
123868896 AATAAAAAAA
1 AATAAAAAAA
123868906 GAAGAAGAAG
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
16 4 0.15
17 22 0.85
ACGTcount: A:0.84, C:0.02, G:0.00, T:0.14
Consensus pattern (16 bp):
AATAAAAAAAAATAAA
Found at i:123875314 original size:33 final size:33
Alignment explanation
Indices: 123875272--123875336 Score: 130
Period size: 33 Copynumber: 2.0 Consensus size: 33
123875262 TTCTATTACA
123875272 ACGATTCATTACATCCAATCATGAGAAAAATCT
1 ACGATTCATTACATCCAATCATGAGAAAAATCT
123875305 ACGATTCATTACATCCAATCATGAGAAAAATC
1 ACGATTCATTACATCCAATCATGAGAAAAATC
123875337 AACCCTTCAT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 32 1.00
ACGTcount: A:0.43, C:0.22, G:0.09, T:0.26
Consensus pattern (33 bp):
ACGATTCATTACATCCAATCATGAGAAAAATCT
Found at i:123875346 original size:33 final size:33
Alignment explanation
Indices: 123875270--123875347 Score: 120
Period size: 33 Copynumber: 2.4 Consensus size: 33
123875260 GATTCTATTA
*
123875270 CAACGATTCATTACATCCAATCATGAGAAAAAT
1 CAACCATTCATTACATCCAATCATGAGAAAAAT
* *
123875303 CTACGATTCATTACATCCAATCATGAGAAAAAT
1 CAACCATTCATTACATCCAATCATGAGAAAAAT
*
123875336 CAACCCTTCATT
1 CAACCATTCATT
123875348 CTCATGAATA
Statistics
Matches: 41, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
33 41 1.00
ACGTcount: A:0.41, C:0.24, G:0.08, T:0.27
Consensus pattern (33 bp):
CAACCATTCATTACATCCAATCATGAGAAAAAT
Found at i:123880538 original size:21 final size:21
Alignment explanation
Indices: 123880514--123880560 Score: 67
Period size: 21 Copynumber: 2.2 Consensus size: 21
123880504 TAATAGTGTT
* *
123880514 AATAACAGCAAAACAGTAGAA
1 AATAACAGCAAAACAATAAAA
*
123880535 AATAACAGTAAAACAATAAAA
1 AATAACAGCAAAACAATAAAA
123880556 AATAA
1 AATAA
123880561 TAGACAAATA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.68, C:0.11, G:0.09, T:0.13
Consensus pattern (21 bp):
AATAACAGCAAAACAATAAAA
Found at i:123886028 original size:28 final size:28
Alignment explanation
Indices: 123885992--123886073 Score: 103
Period size: 29 Copynumber: 2.9 Consensus size: 28
123885982 TAAGATTTAT
123885992 TATATTTTTTACATTTAAAATTTAATCTC
1 TATATTTTTTA-ATTTAAAATTTAATCTC
* *
123886021 TATA-TTTTTATTTTTAAAAATTTAATTTC
1 TATATTTTTTA-ATTT-AAAATTTAATCTC
*
123886050 TTTATTTTTTAATTTAAAATTTAA
1 TATATTTTTTAATTTAAAATTTAA
123886074 AATTTATTTA
Statistics
Matches: 46, Mismatches: 5, Indels: 5
0.82 0.09 0.09
Matches are distributed among these distances:
28 18 0.39
29 22 0.48
30 6 0.13
ACGTcount: A:0.35, C:0.05, G:0.00, T:0.60
Consensus pattern (28 bp):
TATATTTTTTAATTTAAAATTTAATCTC
Found at i:123886666 original size:17 final size:17
Alignment explanation
Indices: 123886632--123886666 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
123886622 AATAAATAAA
* *
123886632 TTATTTTTTATAATTTT
1 TTATTTTTTAGAAGTTT
123886649 TTATTTTTTAGAAGTTT
1 TTATTTTTTAGAAGTTT
123886666 T
1 T
123886667 AAATAATTTA
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:0.23, C:0.00, G:0.06, T:0.71
Consensus pattern (17 bp):
TTATTTTTTAGAAGTTT
Found at i:123892311 original size:10 final size:10
Alignment explanation
Indices: 123892296--123892321 Score: 52
Period size: 10 Copynumber: 2.6 Consensus size: 10
123892286 AAGTATCTGC
123892296 AAAAAAAACA
1 AAAAAAAACA
123892306 AAAAAAAACA
1 AAAAAAAACA
123892316 AAAAAA
1 AAAAAA
123892322 CAAATTGGAG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 16 1.00
ACGTcount: A:0.92, C:0.08, G:0.00, T:0.00
Consensus pattern (10 bp):
AAAAAAAACA
Found at i:123900233 original size:20 final size:20
Alignment explanation
Indices: 123900192--123900234 Score: 52
Period size: 20 Copynumber: 2.1 Consensus size: 20
123900182 TCCACTTTAC
*
123900192 TTTAATCTATATTTTCACTA
1 TTTAATCTATATTTTCAATA
*
123900212 TTTAAT-TATTATTTTGAATA
1 TTTAATCTA-TATTTTCAATA
123900232 TTT
1 TTT
123900235 TTTCACTTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
19 2 0.10
20 18 0.90
ACGTcount: A:0.30, C:0.07, G:0.02, T:0.60
Consensus pattern (20 bp):
TTTAATCTATATTTTCAATA
Found at i:123901028 original size:18 final size:18
Alignment explanation
Indices: 123901005--123901072 Score: 70
Period size: 18 Copynumber: 3.9 Consensus size: 18
123900995 TTGTTGAGCA
123901005 TGTTGCTGTAGCTGCTGT
1 TGTTGCTGTAGCTGCTGT
* *
123901023 TGTTGCAGTAGTTGCTGT
1 TGTTGCTGTAGCTGCTGT
* *
123901041 TGCTGC--T-GCTGCTGA
1 TGTTGCTGTAGCTGCTGT
*
123901056 TGTTGCTGTGGCTGCTG
1 TGTTGCTGTAGCTGCTG
123901073 CATTTGAGGA
Statistics
Matches: 41, Mismatches: 6, Indels: 6
0.77 0.11 0.11
Matches are distributed among these distances:
15 11 0.27
16 1 0.02
17 1 0.02
18 28 0.68
ACGTcount: A:0.06, C:0.18, G:0.35, T:0.41
Consensus pattern (18 bp):
TGTTGCTGTAGCTGCTGT
Found at i:123909984 original size:43 final size:43
Alignment explanation
Indices: 123909936--123910092 Score: 167
Period size: 43 Copynumber: 3.7 Consensus size: 43
123909926 TATCCTAGAT
* *
123909936 ATGGTCTTACATGTTATCTCATATCGATTCCAATGTCCCAGAC
1 ATGGTCTTACACGTAATCTCATATCGATTCCAATGTCCCAGAC
* * *
123909979 ATGGTCCTACACGAAATCAT-ATAACGATGT-CAATGTCCCAGAC
1 ATGGTCTTACACGTAATC-TCATATCGAT-TCCAATGTCCCAGAC
* * * *
123910022 ATGGTCTTACACGTAATCACA-ATACAATGCCAATGTCTCAGAC
1 ATGGTCTTACACGTAATCTCATAT-CGATTCCAATGTCCCAGAC
* *
123910065 ATGGTCTTACATGTAATCTCATCTCGAT
1 ATGGTCTTACACGTAATCTCATATCGAT
123910093 AATCTTAATG
Statistics
Matches: 92, Mismatches: 16, Indels: 12
0.77 0.13 0.10
Matches are distributed among these distances:
42 1 0.01
43 88 0.96
44 3 0.03
ACGTcount: A:0.31, C:0.25, G:0.15, T:0.30
Consensus pattern (43 bp):
ATGGTCTTACACGTAATCTCATATCGATTCCAATGTCCCAGAC
Found at i:123912970 original size:25 final size:25
Alignment explanation
Indices: 123912941--123913042 Score: 106
Period size: 25 Copynumber: 4.1 Consensus size: 25
123912931 TCTTTCGGTC
123912941 AACAAATAGGTTACATTATTCACCA
1 AACAAATAGGTTACATTATTCACCA
* * *
123912966 AAC-AATCAATGTCACTAACTATT---CA
1 AACAAAT--AGGTTAC--ATTATTCACCA
123912991 -ACAAATAGGTTACATTATTCACCA
1 AACAAATAGGTTACATTATTCACCA
123913015 AACAAATAGGTTACATTATTCACCA
1 AACAAATAGGTTACATTATTCACCA
123913040 AAC
1 AAC
123913043 TCTCTCGATG
Statistics
Matches: 62, Mismatches: 6, Indels: 18
0.72 0.07 0.21
Matches are distributed among these distances:
21 5 0.08
23 5 0.08
24 7 0.11
25 35 0.56
26 5 0.08
28 5 0.08
ACGTcount: A:0.44, C:0.22, G:0.07, T:0.27
Consensus pattern (25 bp):
AACAAATAGGTTACATTATTCACCA
Found at i:123914450 original size:20 final size:21
Alignment explanation
Indices: 123914417--123914465 Score: 55
Period size: 20 Copynumber: 2.4 Consensus size: 21
123914407 ATGCCAAAAG
*
123914417 AAGCCATAAGAAAACAAC-GA
1 AAGCCACAAGAAAACAACAGA
* *
123914437 AAGCCACAATAAAATAACAGA
1 AAGCCACAAGAAAACAACAGA
*
123914458 AAGTCACA
1 AAGCCACA
123914466 GACAAGAACG
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
20 15 0.62
21 9 0.38
ACGTcount: A:0.59, C:0.20, G:0.12, T:0.08
Consensus pattern (21 bp):
AAGCCACAAGAAAACAACAGA
Found at i:123916554 original size:25 final size:25
Alignment explanation
Indices: 123916526--123916578 Score: 106
Period size: 25 Copynumber: 2.1 Consensus size: 25
123916516 TTTAACCTTG
123916526 TATGTCCTACTTTGGATCATTCTCT
1 TATGTCCTACTTTGGATCATTCTCT
123916551 TATGTCCTACTTTGGATCATTCTCT
1 TATGTCCTACTTTGGATCATTCTCT
123916576 TAT
1 TAT
123916579 CAAATTGGTG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 28 1.00
ACGTcount: A:0.17, C:0.23, G:0.11, T:0.49
Consensus pattern (25 bp):
TATGTCCTACTTTGGATCATTCTCT
Found at i:123922887 original size:44 final size:45
Alignment explanation
Indices: 123922797--123922925 Score: 152
Period size: 44 Copynumber: 2.8 Consensus size: 45
123922787 GACAGAACGA
*
123922797 AATGAGCCATGTAAGTCCATATTAGAAATATGGCTTTGGAGACAGG
1 AATGAGCCATGTAAGTCCATATTA-AAATATGGCATTGGAGACAGG
* *
123922843 ATTGAGCCATGTAAGTCCATATT-ATATATGGCATTGGAGACAGG
1 AATGAGCCATGTAAGTCCATATTAAAATATGGCATTGGAGACAGG
* ** * * *
123922887 AATAATTCATGTAAGTCCATGTCAAAGACATGGCATTGG
1 AATGAGCCATGTAAGTCCATATTAAA-ATATGGCATTGG
123922926 CAGGATATTG
Statistics
Matches: 70, Mismatches: 11, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
44 36 0.51
45 1 0.01
46 33 0.47
ACGTcount: A:0.34, C:0.14, G:0.24, T:0.28
Consensus pattern (45 bp):
AATGAGCCATGTAAGTCCATATTAAAATATGGCATTGGAGACAGG
Found at i:123930271 original size:44 final size:45
Alignment explanation
Indices: 123930181--123930309 Score: 152
Period size: 44 Copynumber: 2.8 Consensus size: 45
123930171 GACAGAACGA
*
123930181 AATGAGCCATGTAAGTCCATATTAGAAATATGGCTTTGGAGACAGG
1 AATGAGCCATGTAAGTCCATATTA-AAATATGGCATTGGAGACAGG
* *
123930227 ATTGAGCCATGTAAGTCCATATT-ATATATGGCATTGGAGACAGG
1 AATGAGCCATGTAAGTCCATATTAAAATATGGCATTGGAGACAGG
* ** * * *
123930271 AATAATTCATGTAAGTCCATGTCAAAGACATGGCATTGG
1 AATGAGCCATGTAAGTCCATATTAAA-ATATGGCATTGG
123930310 CAGGATATTG
Statistics
Matches: 70, Mismatches: 11, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
44 36 0.51
45 1 0.01
46 33 0.47
ACGTcount: A:0.34, C:0.14, G:0.24, T:0.28
Consensus pattern (45 bp):
AATGAGCCATGTAAGTCCATATTAAAATATGGCATTGGAGACAGG
Found at i:123936728 original size:5 final size:5
Alignment explanation
Indices: 123936718--123936753 Score: 63
Period size: 5 Copynumber: 7.0 Consensus size: 5
123936708 AATAATTAAG
123936718 TATAT TATAT TATAT TATAT TATAT TATTAT TATAT
1 TATAT TATAT TATAT TATAT TATAT TA-TAT TATAT
123936754 ATAAAAGAAA
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
5 25 0.83
6 5 0.17
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (5 bp):
TATAT
Found at i:123936823 original size:31 final size:30
Alignment explanation
Indices: 123936788--123936848 Score: 70
Period size: 30 Copynumber: 2.0 Consensus size: 30
123936778 GAAACAGAAG
* *
123936788 GAAAGCAAACGAAA-CAGATAAGAACAGGGGA
1 GAAAG-AAACGAAAGAAGA-AAGAAAAGGGGA
*
123936819 GAAAGAAAGGAAAGAAGAAAGAAAAGGGGA
1 GAAAGAAACGAAAGAAGAAAGAAAAGGGGA
123936849 AATAAGGTTT
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
30 18 0.69
31 8 0.31
ACGTcount: A:0.59, C:0.07, G:0.33, T:0.02
Consensus pattern (30 bp):
GAAAGAAACGAAAGAAGAAAGAAAAGGGGA
Found at i:123938418 original size:39 final size:39
Alignment explanation
Indices: 123938311--123938445 Score: 123
Period size: 39 Copynumber: 3.4 Consensus size: 39
123938301 GACCTCGAGT
* * *
123938311 CGATGAGACACTGGGTGTC-ACTATATTTCTTCGGATAGATT
1 CGATGAGACACTGGGTGTCAAC--TATTACTTCGGCTAG-TC
** ** *
123938352 CGATGAGGTACTGGGTACCAACT-TTACTTCGGCTAGGC
1 CGATGAGACACTGGGTGTCAACTATTACTTCGGCTAGTC
*
123938390 CGATGAGACACTGGGTGTCAACTATTACTTCGAACTA-TC
1 CGATGAGACACTGGGTGTCAACTATTACTTCG-GCTAGTC
*
123938429 CGATGAGGCACTGGGTG
1 CGATGAGACACTGGGTG
123938446 CCATATTGGT
Statistics
Matches: 76, Mismatches: 15, Indels: 8
0.77 0.15 0.08
Matches are distributed among these distances:
38 19 0.25
39 36 0.47
40 4 0.05
41 15 0.20
42 2 0.03
ACGTcount: A:0.24, C:0.21, G:0.27, T:0.28
Consensus pattern (39 bp):
CGATGAGACACTGGGTGTCAACTATTACTTCGGCTAGTC
Found at i:123939880 original size:27 final size:29
Alignment explanation
Indices: 123939824--123939880 Score: 82
Period size: 27 Copynumber: 2.0 Consensus size: 29
123939814 ACATGTATAT
*
123939824 AAAACATATTTATAAATATTAAAGTAATG
1 AAAACATATTTATAAATATTAAAATAATG
*
123939853 AAAACATA-TTCTAAATA-TAAAATAATG
1 AAAACATATTTATAAATATTAAAATAATG
123939880 A
1 A
123939881 TCATTTTTGT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
27 10 0.38
28 8 0.31
29 8 0.31
ACGTcount: A:0.58, C:0.05, G:0.05, T:0.32
Consensus pattern (29 bp):
AAAACATATTTATAAATATTAAAATAATG
Found at i:123954352 original size:28 final size:28
Alignment explanation
Indices: 123954321--123954377 Score: 105
Period size: 28 Copynumber: 2.0 Consensus size: 28
123954311 AGTATAGACC
*
123954321 TATAATCACAAGGTCATCACAATATCAT
1 TATAATCACAAGGTCATCACAAAATCAT
123954349 TATAATCACAAGGTCATCACAAAATCAT
1 TATAATCACAAGGTCATCACAAAATCAT
123954377 T
1 T
123954378 CTCATAAGCA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.44, C:0.21, G:0.07, T:0.28
Consensus pattern (28 bp):
TATAATCACAAGGTCATCACAAAATCAT
Found at i:123954827 original size:46 final size:47
Alignment explanation
Indices: 123954669--123954935 Score: 178
Period size: 46 Copynumber: 5.7 Consensus size: 47
123954659 GTATAATGCT
* * * *
123954669 GATGCCATGTCCGAGACATGGTCTTACATTGGCTCTCACATATTCATGCC
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCT-T-ATATA-TCAGGCC
* * * * *
123954719 GATGCCATGTCCTAGACATGGTCTTACACTGACATATCT-TGTA-GCC
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCTTATATAT-CAGGCC
* *
123954765 GATG-CATGTTCCAGACAT-GTCTTACACTGGCTTATATATCGAGGCT
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCTTATATATC-AGGCC
* * * * * * *
123954811 GATG-CATGTCCTAGACAT-ATCTTACACTAG-TTATCGTCTCAATGCT
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCTTAT-ATATC-AGGCC
* * *
123954857 GATGCCACGTCCCAAACATGGTTTTACACTGGCTCTCATA-AT-ATGGCC
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCT-T-ATATATCA-GGCC
123954905 GATG-CATGTCCCAGACAT-GTCTTACACTGGC
1 GATGCCATGTCCCAGACATGGTCTTACACTGGC
123954936 ACACAAATAA
Statistics
Matches: 171, Mismatches: 35, Indels: 26
0.74 0.15 0.11
Matches are distributed among these distances:
44 16 0.09
45 18 0.11
46 59 0.35
47 25 0.15
48 17 0.10
49 3 0.02
50 31 0.18
51 2 0.01
ACGTcount: A:0.24, C:0.26, G:0.19, T:0.30
Consensus pattern (47 bp):
GATGCCATGTCCCAGACATGGTCTTACACTGGCTTATATATCAGGCC
Found at i:123962790 original size:21 final size:20
Alignment explanation
Indices: 123962747--123962793 Score: 60
Period size: 21 Copynumber: 2.2 Consensus size: 20
123962737 CACATTAAAA
123962747 ATATAAAAAATTGAAATAAAT
1 ATATAAAAAATTGAAAT-AAT
123962768 ATATAAAAAATTCAGAAAT-AT
1 ATATAAAAAATT--GAAATAAT
123962789 ATATA
1 ATATA
123962794 CATAATCTAG
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
21 19 0.79
23 5 0.21
ACGTcount: A:0.64, C:0.02, G:0.04, T:0.30
Consensus pattern (20 bp):
ATATAAAAAATTGAAATAAT
Found at i:123962874 original size:22 final size:21
Alignment explanation
Indices: 123962849--123962899 Score: 50
Period size: 22 Copynumber: 2.4 Consensus size: 21
123962839 GGATAATTGA
**
123962849 AATAAAATTAGTTGAAATTAAT
1 AATAAAATTAGAAGAAATT-AT
**
123962871 AATATTATTAGAAGAAATTAT
1 AATAAAATTAGAAGAAATTAT
123962892 AA-AAAATT
1 AATAAAATT
123962900 GTAAACAAAA
Statistics
Matches: 23, Mismatches: 6, Indels: 2
0.74 0.19 0.06
Matches are distributed among these distances:
20 4 0.17
21 4 0.17
22 15 0.65
ACGTcount: A:0.57, C:0.00, G:0.08, T:0.35
Consensus pattern (21 bp):
AATAAAATTAGAAGAAATTAT
Found at i:123963809 original size:21 final size:20
Alignment explanation
Indices: 123963768--123963816 Score: 53
Period size: 20 Copynumber: 2.4 Consensus size: 20
123963758 AAATTATAAA
* * *
123963768 AATAAAAATTATTAGATTTT
1 AATAAAAAATATTACAATTT
123963788 AATAAAAAATATTAACAATTT
1 AATAAAAAATATT-ACAATTT
*
123963809 ATTAAAAA
1 AATAAAAA
123963817 TTAGAATTTT
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
20 12 0.50
21 12 0.50
ACGTcount: A:0.59, C:0.02, G:0.02, T:0.37
Consensus pattern (20 bp):
AATAAAAAATATTACAATTT
Found at i:123964078 original size:10 final size:10
Alignment explanation
Indices: 123964047--123964161 Score: 53
Period size: 10 Copynumber: 11.8 Consensus size: 10
123964037 TTTATACAAA
123964047 TTTTAT-ATT
1 TTTTATAATT
* *
123964056 TCTTTACATTT
1 T-TTTATAATT
123964067 TTTTATAATT
1 TTTTATAATT
** *
123964077 TTCTTACGA-C
1 TT-TTATAATT
*
123964087 TTT-ATAAAT
1 TTTTATAATT
123964096 TTTTATAATT
1 TTTTATAATT
*
123964106 TTTTCT-ATAT
1 TTTTATAAT-T
* *
123964116 TTCTAT-ATA
1 TTTTATAATT
* *
123964125 TATTATAGTT
1 TTTTATAATT
*
123964135 TTTTACAA-T
1 TTTTATAATT
123964144 TTTTATAATT
1 TTTTATAATT
123964154 TTTTATAA
1 TTTTATAA
123964162 ATTTAATATT
Statistics
Matches: 75, Mismatches: 23, Indels: 15
0.66 0.20 0.13
Matches are distributed among these distances:
8 2 0.03
9 19 0.25
10 47 0.63
11 7 0.09
ACGTcount: A:0.29, C:0.07, G:0.02, T:0.63
Consensus pattern (10 bp):
TTTTATAATT
Found at i:123964107 original size:9 final size:9
Alignment explanation
Indices: 123964087--123964223 Score: 75
Period size: 10 Copynumber: 14.6 Consensus size: 9
123964077 TTCTTACGAC
123964087 TTTATAAATT
1 TTTAT-AATT
123964097 TTTATAATTT
1 TTTATAA-TT
*
123964107 TTTCTATATT
1 TTTATA-ATT
*
123964117 TCTAT-ATAT
1 TTTATAAT-T
* *
123964126 ATTATAGTTT
1 TTTATA-ATT
*
123964136 TTTACAATT
1 TTTATAATT
123964145 TTTATAATTT
1 TTTATAA-TT
*
123964155 TTTATAAAT
1 TTTATAATT
*
123964164 TTAAT-ATT
1 TTTATAATT
123964172 TTTAT-ATT
1 TTTATAATT
**
123964180 TTTAATAAAA
1 TTT-ATAATT
123964190 TTTA-ACCATT
1 TTTATA--ATT
123964200 TTTATAATT
1 TTTATAATT
123964209 TTTATTAATT
1 TTTA-TAATT
123964219 TTTAT
1 TTTAT
123964224 TTTTATAACT
Statistics
Matches: 97, Mismatches: 18, Indels: 25
0.69 0.13 0.18
Matches are distributed among these distances:
8 15 0.15
9 30 0.31
10 49 0.51
11 3 0.03
ACGTcount: A:0.34, C:0.04, G:0.01, T:0.62
Consensus pattern (9 bp):
TTTATAATT
Found at i:123964155 original size:19 final size:19
Alignment explanation
Indices: 123964026--123964211 Score: 64
Period size: 19 Copynumber: 9.8 Consensus size: 19
123964016 TAATACAATC
*
123964026 ATTTTTAT-TTTTTTATACA
1 ATTTTTATAATTTTT-TACA
*
123964045 AATTTTAT-ATTTCTTTACA
1 ATTTTTATAATTT-TTTACA
* *
123964064 TTTTTTTATAATTTTCTTACG
1 -ATTTTTATAATTTT-TTACA
* * *
123964085 A-CTTTATAAATTTTTATA
1 ATTTTTATAATTTTTTACA
* * *
123964103 ATTTTT-TCTATATTTCTA-T
1 ATTTTTAT-AAT-TTTTTACA
* *
123964122 ATATATTATAGTTTTTTACA
1 AT-TTTTATAATTTTTTACA
*
123964142 ATTTTTATAATTTTTTATA
1 ATTTTTATAATTTTTTACA
* * *
123964161 AATTTAAT-A-TTTTTA-T
1 ATTTTTATAATTTTTTACA
** * *
123964177 ATTTTTAATAAAATTTAACC
1 ATTTTT-ATAATTTTTTACA
123964197 ATTTTTATAATTTTT
1 ATTTTTATAATTTTT
123964212 ATTAATTTTT
Statistics
Matches: 120, Mismatches: 33, Indels: 28
0.66 0.18 0.15
Matches are distributed among these distances:
16 4 0.03
17 8 0.07
18 7 0.06
19 66 0.55
20 26 0.22
21 9 0.08
ACGTcount: A:0.31, C:0.06, G:0.01, T:0.62
Consensus pattern (19 bp):
ATTTTTATAATTTTTTACA
Found at i:123964159 original size:29 final size:29
Alignment explanation
Indices: 123964065--123964221 Score: 96
Period size: 29 Copynumber: 5.5 Consensus size: 29
123964055 TTCTTTACAT
* *
123964065 TTTTTTATAATTTTCTTACGA-CTTTATAA
1 TTTTTTATAATTTT-TTACAATTTTTATAA
* *
123964094 ATTTTTATAATTTTTT-CTATATTTCTAT-A
1 TTTTTTATAATTTTTTAC-A-ATTTTTATAA
* * *
123964123 TATATTATAGTTTTTTACAATTTTTATAA
1 TTTTTTATAATTTTTTACAATTTTTATAA
*
123964152 TTTTTTATAA--ATTTA-ATATTTTTAT-A
1 TTTTTTATAATTTTTTACA-ATTTTTATAA
* ** * *
123964178 TTTTTAATAAAATTTAACCATTTTTATAA
1 TTTTTTATAATTTTTTACAATTTTTATAA
123964207 -TTTTTATTAATTTTT
1 TTTTTTA-TAATTTTT
123964222 ATTTTTATAA
Statistics
Matches: 97, Mismatches: 20, Indels: 22
0.70 0.14 0.16
Matches are distributed among these distances:
26 11 0.11
27 13 0.13
28 25 0.26
29 43 0.44
30 5 0.05
ACGTcount: A:0.32, C:0.05, G:0.01, T:0.62
Consensus pattern (29 bp):
TTTTTTATAATTTTTTACAATTTTTATAA
Found at i:123964172 original size:27 final size:27
Alignment explanation
Indices: 123964142--123964238 Score: 110
Period size: 27 Copynumber: 3.6 Consensus size: 27
123964132 GTTTTTTACA
123964142 ATTTTTATAATTTTTTATAAATTTAAT
1 ATTTTTATAATTTTTTATAAATTTAAT
* *
123964169 ATTTTTAT-ATTTTTAATAAAATTTAACC
1 ATTTTTATAATTTTTTAT-AAATTTAA-T
* *
123964197 ATTTTTATAA-TTTTTATTAATTT-TT
1 ATTTTTATAATTTTTTATAAATTTAAT
*
123964222 ATTTTTATAACTTTTTA
1 ATTTTTATAATTTTTTA
123964239 CCACATGTCA
Statistics
Matches: 60, Mismatches: 6, Indels: 9
0.80 0.08 0.12
Matches are distributed among these distances:
25 10 0.17
26 14 0.23
27 21 0.35
28 14 0.23
29 1 0.02
ACGTcount: A:0.34, C:0.03, G:0.00, T:0.63
Consensus pattern (27 bp):
ATTTTTATAATTTTTTATAAATTTAAT
Found at i:123964183 original size:17 final size:17
Alignment explanation
Indices: 123964144--123964186 Score: 52
Period size: 17 Copynumber: 2.5 Consensus size: 17
123964134 TTTTTACAAT
123964144 TTTTATAAT-TTTTTATA
1 TTTT-TAATATTTTTATA
**
123964161 AATTTAATATTTTTATA
1 TTTTTAATATTTTTATA
123964178 TTTTTAATA
1 TTTTTAATA
123964187 AAATTTAACC
Statistics
Matches: 21, Mismatches: 4, Indels: 2
0.78 0.15 0.07
Matches are distributed among these distances:
16 4 0.19
17 17 0.81
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (17 bp):
TTTTTAATATTTTTATA
Found at i:123964227 original size:16 final size:16
Alignment explanation
Indices: 123964206--123964238 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
123964196 CATTTTTATA
123964206 ATTTTTATTAA-TTTTT
1 ATTTTTA-TAACTTTTT
123964222 ATTTTTATAACTTTTT
1 ATTTTTATAACTTTTT
123964238 A
1 A
123964239 CCACATGTCA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 3 0.19
16 13 0.81
ACGTcount: A:0.27, C:0.03, G:0.00, T:0.70
Consensus pattern (16 bp):
ATTTTTATAACTTTTT
Found at i:123966065 original size:3 final size:3
Alignment explanation
Indices: 123966059--123966095 Score: 58
Period size: 3 Copynumber: 12.7 Consensus size: 3
123966049 AAAACAAAAA
*
123966059 AAC AAC AAC AAC AAC AAC AAC AAC -AC AAC AAA AAC AA
1 AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AA
123966096 AAACTCAATC
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
2 2 0.06
3 29 0.94
ACGTcount: A:0.70, C:0.30, G:0.00, T:0.00
Consensus pattern (3 bp):
AAC
Found at i:123972335 original size:29 final size:30
Alignment explanation
Indices: 123972257--123972340 Score: 75
Period size: 29 Copynumber: 2.8 Consensus size: 30
123972247 CCTAAAATAG
* * *
123972257 CCCCTAACGTTTGATTGTTTGGTCACTTTAG
1 CCCCTAACGTTT-ATTTTTTAGTCACTTTAA
*
123972288 CCCTCTATC-TTT-TTCTTTTAG-CACTTTAA
1 CCC-CTAACGTTTATT-TTTTAGTCACTTTAA
*
123972317 CCCCTAACGTTTATTTTTTTGTCA
1 CCCCTAACGTTTATTTTTTAGTCA
123972341 AATTAGTCTA
Statistics
Matches: 42, Mismatches: 6, Indels: 11
0.71 0.10 0.19
Matches are distributed among these distances:
28 4 0.10
29 20 0.48
30 8 0.19
31 6 0.14
32 4 0.10
ACGTcount: A:0.17, C:0.25, G:0.11, T:0.48
Consensus pattern (30 bp):
CCCCTAACGTTTATTTTTTAGTCACTTTAA
Found at i:123972935 original size:47 final size:47
Alignment explanation
Indices: 123972861--123972997 Score: 220
Period size: 47 Copynumber: 2.9 Consensus size: 47
123972851 ATATATTTAA
123972861 CAATTTTGTTTTAGGGTTCATATGAAATTGGAGATTTTTTTAGTTTG
1 CAATTTTGTTTTAGGGTTCATATGAAATTGGAGATTTTTTTAGTTTG
* * *
123972908 CAATATTGTTTTAGGGTTTATATGAAATTGTAGATTTTTTTAGTTTG
1 CAATTTTGTTTTAGGGTTCATATGAAATTGGAGATTTTTTTAGTTTG
* * *
123972955 CAATTTTATTTTAGGGTTCATATGAGATTTGAGATTTTTTTAG
1 CAATTTTGTTTTAGGGTTCATATGAAATTGGAGATTTTTTTAG
123972998 CTTGTTTGAT
Statistics
Matches: 81, Mismatches: 9, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
47 81 1.00
ACGTcount: A:0.25, C:0.04, G:0.20, T:0.52
Consensus pattern (47 bp):
CAATTTTGTTTTAGGGTTCATATGAAATTGGAGATTTTTTTAGTTTG
Found at i:123975426 original size:26 final size:26
Alignment explanation
Indices: 123975397--123975456 Score: 66
Period size: 28 Copynumber: 2.2 Consensus size: 26
123975387 TCCCTTTGAA
* * *
123975397 TCATTCGATATTTTGCACACTAAGTG
1 TCATTCAATATCTCGCACACTAAGTG
123975423 TCATTCTCAATATCTCGCACACTAAGTG
1 TCA-T-TCAATATCTCGCACACTAAGTG
*
123975451 CCATTC
1 TCATTC
123975457 TCAATATTTC
Statistics
Matches: 28, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
26 5 0.18
27 2 0.07
28 21 0.75
ACGTcount: A:0.27, C:0.27, G:0.12, T:0.35
Consensus pattern (26 bp):
TCATTCAATATCTCGCACACTAAGTG
Found at i:123975442 original size:28 final size:28
Alignment explanation
Indices: 123975411--123975482 Score: 99
Period size: 28 Copynumber: 2.6 Consensus size: 28
123975401 TCGATATTTT
*
123975411 GCACACTAAGTGTCATTCTCAATATCTC
1 GCACACTAAGTGCCATTCTCAATATCTC
*
123975439 GCACACTAAGTGCCATTCTCAATATTTC
1 GCACACTAAGTGCCATTCTCAATATCTC
* * *
123975467 GTACACTGAGTACCAT
1 GCACACTAAGTGCCAT
123975483 ATTTGATTGC
Statistics
Matches: 39, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
28 39 1.00
ACGTcount: A:0.29, C:0.28, G:0.12, T:0.31
Consensus pattern (28 bp):
GCACACTAAGTGCCATTCTCAATATCTC
Found at i:123980559 original size:57 final size:57
Alignment explanation
Indices: 123980413--123980709 Score: 512
Period size: 56 Copynumber: 5.2 Consensus size: 57
123980403 GATCTCATTT
* *
123980413 CACACACTTAGTGCCCCAACAACCGATCTTGCACACACAGTGCT-GGTTACGGAACTCG
1 CACACAC--AGTGCCTCAACAACCGATCTCGCACACACAGTGCTCGGTTACGGAACTCG
123980471 CACACACAGTGCCTCAACAA-CGATCTCGCACACACAGTGCTCGGTTACGGAACTCG
1 CACACACAGTGCCTCAACAACCGATCTCGCACACACAGTGCTCGGTTACGGAACTCG
123980527 CACACACAGTGCCTCAACAACCGATCTCGCACACACAGTGCTCGGTTACGGAACTCG
1 CACACACAGTGCCTCAACAACCGATCTCGCACACACAGTGCTCGGTTACGGAACTCG
123980584 CACACACAGTGCCTCAACAACCGATCTCGCACACACAGTGCTCGGTTAC-GAACTCG
1 CACACACAGTGCCTCAACAACCGATCTCGCACACACAGTGCTCGGTTACGGAACTCG
* *
123980640 CACACACAGTGCCTCAACAA-CGATCTCACACACACAGTGCTCGGTTACGGAACTCA
1 CACACACAGTGCCTCAACAACCGATCTCGCACACACAGTGCTCGGTTACGGAACTCG
123980696 CACACACAGTGCCT
1 CACACACAGTGCCT
123980710 ATGTTCACTT
Statistics
Matches: 232, Mismatches: 4, Indels: 8
0.95 0.02 0.03
Matches are distributed among these distances:
55 47 0.20
56 93 0.40
57 85 0.37
58 7 0.03
ACGTcount: A:0.29, C:0.36, G:0.18, T:0.16
Consensus pattern (57 bp):
CACACACAGTGCCTCAACAACCGATCTCGCACACACAGTGCTCGGTTACGGAACTCG
Found at i:123980695 original size:28 final size:28
Alignment explanation
Indices: 123980443--123980707 Score: 250
Period size: 28 Copynumber: 9.5 Consensus size: 28
123980433 AACCGATCTT
123980443 GCACACACAGTGCT-GGTTACGGAACTC
1 GCACACACAGTGCTCGGTTACGGAACTC
**** *
123980470 GCACACACAGTGCCTCAACAAC-GATCTC
1 GCACACACAGTG-CTCGGTTACGGAACTC
123980498 GCACACACAGTGCTCGGTTACGGAACTC
1 GCACACACAGTGCTCGGTTACGGAACTC
**** * *
123980526 GCACACACAGTGCCTCAACAACCGATCTC
1 GCACACACAGTG-CTCGGTTACGGAACTC
123980555 GCACACACAGTGCTCGGTTACGGAACTC
1 GCACACACAGTGCTCGGTTACGGAACTC
**** * *
123980583 GCACACACAGTGCCTCAACAACCGATCTC
1 GCACACACAGTG-CTCGGTTACGGAACTC
123980612 GCACACACAGTGCTCGGTTAC-GAACTC
1 GCACACACAGTGCTCGGTTACGGAACTC
**** *
123980639 GCACACACAGTGCCTCAACAAC-GATCTC
1 GCACACACAGTG-CTCGGTTACGGAACTC
*
123980667 ACACACACAGTGCTCGGTTACGGAACTC
1 GCACACACAGTGCTCGGTTACGGAACTC
*
123980695 ACACACACAGTGC
1 GCACACACAGTGC
123980708 CTATGTTCAC
Statistics
Matches: 187, Mismatches: 44, Indels: 13
0.77 0.18 0.05
Matches are distributed among these distances:
27 39 0.21
28 102 0.55
29 46 0.25
ACGTcount: A:0.29, C:0.36, G:0.19, T:0.16
Consensus pattern (28 bp):
GCACACACAGTGCTCGGTTACGGAACTC
Found at i:123982662 original size:28 final size:28
Alignment explanation
Indices: 123982631--123982702 Score: 90
Period size: 28 Copynumber: 2.6 Consensus size: 28
123982621 TCGATATTTT
* *
123982631 GCACACTAAGTGTCATTCTTAATATCTC
1 GCACACTAAGTGCCATTCTCAATATCTC
*
123982659 GCACACTAAGTGCCATTCTCAATATTTC
1 GCACACTAAGTGCCATTCTCAATATCTC
* * *
123982687 GTACACTGAGTACCAT
1 GCACACTAAGTGCCAT
123982703 ATTTGATTGC
Statistics
Matches: 38, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
28 38 1.00
ACGTcount: A:0.29, C:0.26, G:0.12, T:0.32
Consensus pattern (28 bp):
GCACACTAAGTGCCATTCTCAATATCTC
Found at i:123985075 original size:37 final size:38
Alignment explanation
Indices: 123985024--123985103 Score: 108
Period size: 37 Copynumber: 2.1 Consensus size: 38
123985014 AATTCGAAGT
* **
123985024 AGTAAATTGACACCCAGTGTCTCATCGGTTAAA-CCGA
1 AGTAAATTGACACCCAGTGCCTCATCGAATAAATCCGA
* *
123985061 AGTAAATTGGCACCCAGTGCCTCATTGAATAAATCCGA
1 AGTAAATTGACACCCAGTGCCTCATCGAATAAATCCGA
123985099 AGTAA
1 AGTAA
123985104 TAAATTAACC
Statistics
Matches: 37, Mismatches: 5, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
37 28 0.76
38 9 0.24
ACGTcount: A:0.35, C:0.23, G:0.19, T:0.24
Consensus pattern (38 bp):
AGTAAATTGACACCCAGTGCCTCATCGAATAAATCCGA
Found at i:123985987 original size:4 final size:4
Alignment explanation
Indices: 123985978--123986022 Score: 56
Period size: 4 Copynumber: 11.2 Consensus size: 4
123985968 TGCCTTCGTC
* *
123985978 TCTT TCTT TCTC CCTTT TCTT T-TT TCTT TCTT TCTT TCTT TCTT T
1 TCTT TCTT TCTT TC-TT TCTT TCTT TCTT TCTT TCTT TCTT TCTT T
123986023 TCTGTTTCGT
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
3 3 0.09
4 30 0.86
5 2 0.06
ACGTcount: A:0.00, C:0.27, G:0.00, T:0.73
Consensus pattern (4 bp):
TCTT
Found at i:123986035 original size:28 final size:29
Alignment explanation
Indices: 123985972--123986036 Score: 80
Period size: 28 Copynumber: 2.3 Consensus size: 29
123985962 CCCCAATGCC
* *
123985972 TTCGTCTCTTTCTTTCTCCCTTTTCTTTT
1 TTCGTTTCTTTCTTTCTCCCTTTTCTTGT
**
123986001 TTC-TTTCTTTCTTTCTTTCTTTTC-TGT
1 TTCGTTTCTTTCTTTCTCCCTTTTCTTGT
123986028 TTCGTTTCT
1 TTCGTTTCT
123986037 ACTTTGTCTC
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
27 5 0.16
28 23 0.74
29 3 0.10
ACGTcount: A:0.00, C:0.26, G:0.05, T:0.69
Consensus pattern (29 bp):
TTCGTTTCTTTCTTTCTCCCTTTTCTTGT
Found at i:123986041 original size:23 final size:23
Alignment explanation
Indices: 123985976--123986041 Score: 62
Period size: 23 Copynumber: 2.8 Consensus size: 23
123985966 AATGCCTTCG
**
123985976 TCTCTTTCTTTCTCCCTTTTCTTT
1 TCTCTTTCTTTCTTAC-TTTCTTT
* *
123986000 TTTCTTTCTTTCTTTCTTTCTTT
1 TCTCTTTCTTTCTTACTTTCTTT
*
123986023 TCTGTTTCGTTTC-TACTTT
1 TCTCTTTC-TTTCTTACTTT
123986042 GTCTCTTTTT
Statistics
Matches: 35, Mismatches: 6, Indels: 3
0.80 0.14 0.07
Matches are distributed among these distances:
23 18 0.51
24 17 0.49
ACGTcount: A:0.02, C:0.26, G:0.03, T:0.70
Consensus pattern (23 bp):
TCTCTTTCTTTCTTACTTTCTTT
Found at i:123988696 original size:14 final size:15
Alignment explanation
Indices: 123988663--123988710 Score: 55
Period size: 15 Copynumber: 3.3 Consensus size: 15
123988653 TTTAAAATTT
*
123988663 TAAAAATATAAAAAC
1 TAAAAATATATAAAC
*
123988678 AAAAAATAT-TAAA-
1 TAAAAATATATAAAC
*
123988691 TTAAAATATATAAAC
1 TAAAAATATATAAAC
123988706 TAAAA
1 TAAAA
123988711 TGGTAAGGTA
Statistics
Matches: 26, Mismatches: 5, Indels: 4
0.74 0.14 0.11
Matches are distributed among these distances:
13 7 0.27
14 7 0.27
15 12 0.46
ACGTcount: A:0.71, C:0.04, G:0.00, T:0.25
Consensus pattern (15 bp):
TAAAAATATATAAAC
Found at i:123988711 original size:14 final size:14
Alignment explanation
Indices: 123988665--123988711 Score: 51
Period size: 14 Copynumber: 3.4 Consensus size: 14
123988655 TAAAATTTTA
*
123988665 AAAATATAAAAAC-
1 AAAATATATAAACT
* *
123988678 AAAAAATATTAAATT
1 AAAATATA-TAAACT
123988693 AAAATATATAAACT
1 AAAATATATAAACT
123988707 AAAAT
1 AAAAT
123988712 GGTAAGGTAA
Statistics
Matches: 27, Mismatches: 5, Indels: 3
0.77 0.14 0.09
Matches are distributed among these distances:
13 7 0.26
14 13 0.48
15 7 0.26
ACGTcount: A:0.70, C:0.04, G:0.00, T:0.26
Consensus pattern (14 bp):
AAAATATATAAACT
Found at i:123989240 original size:42 final size:44
Alignment explanation
Indices: 123989162--123989243 Score: 105
Period size: 42 Copynumber: 1.9 Consensus size: 44
123989152 AGTAGACTGT
* **
123989162 TAAAATATATTAAGTTATTTATATTTAGAATTTTAATAGAATGA
1 TAAAATATATTAAGTTACTTATATTTAGAAAATTAATAGAATGA
* *
123989206 TAAAATATA-T-AGTTGCTTATATTTTGAAAATTAATAGA
1 TAAAATATATTAAGTTACTTATATTTAGAAAATTAATAGA
123989244 GTTTTGAGGG
Statistics
Matches: 33, Mismatches: 5, Indels: 2
0.82 0.12 0.05
Matches are distributed among these distances:
42 23 0.70
43 1 0.03
44 9 0.27
ACGTcount: A:0.45, C:0.01, G:0.10, T:0.44
Consensus pattern (44 bp):
TAAAATATATTAAGTTACTTATATTTAGAAAATTAATAGAATGA
Found at i:124007354 original size:15 final size:16
Alignment explanation
Indices: 124007324--124007356 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
124007314 TTAGTTTGGG
*
124007324 TTTTGGTTTATTGTAA
1 TTTTGGGTTATTGTAA
124007340 TTTTGGGTT-TTGTAA
1 TTTTGGGTTATTGTAA
124007355 TT
1 TT
124007357 CTAAAATTGG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 8 0.50
16 8 0.50
ACGTcount: A:0.15, C:0.00, G:0.21, T:0.64
Consensus pattern (16 bp):
TTTTGGGTTATTGTAA
Found at i:124007894 original size:44 final size:44
Alignment explanation
Indices: 124007752--124008173 Score: 274
Period size: 44 Copynumber: 9.6 Consensus size: 44
124007742 TATTTTTATC
* * * **
124007752 CTGCTCTACTGCAACTTCAGAGAGATAAGGA-TTG-TGGCTTCGGT
1 CTGCTCCACTGCAACTTCAGGGAGATAA-GACTTGCT-ACTTCAAT
* * * * *
124007796 CTGCTCCAATGTAATTTCAGGGAG--GAGA-TCTGCTATCTTCAGT
1 CTGCTCCACTGCAACTTCAGGGAGATAAGACT-TGCTA-CTTCAAT
*
124007839 CTGCTCCACTGCAACTTCAGGGAGATAAGACTTGCTACTTCAAC
1 CTGCTCCACTGCAACTTCAGGGAGATAAGACTTGCTACTTCAAT
* * ** * **
124007883 CTGCTCTACTGCAACTTTAGGGAGATAAGGTTTG-TATTTTTAT
1 CTGCTCCACTGCAACTTCAGGGAGATAAGACTTGCTACTTCAAT
* * * * * *
124007926 CCTGCTCTACTGCAACTTTAGAGAGATAAAGAATATGGT--TTCGAT
1 -CTGCTCCACTGCAACTTCAGGGAGAT-AAGACT-TGCTACTTCAAT
* * *
124007971 CTACTCCACTACAACTTCAGGGAGATAAGA-TCTGCTATCTTCAGT
1 CTGCTCCACTGCAACTTCAGGGAGATAAGACT-TGCTA-CTTCAAT
* ** *
124008016 CTGCTCCATTGCAACTTCAGAAAGATAAGACTTGCT--TTCAGT
1 CTGCTCCACTGCAACTTCAGGGAGATAAGACTTGCTACTTCAAT
* ** *
124008058 CTGCTTCACTGCAACTTCAAAGAGATAAGACTTGCTATCTTTAAT
1 CTGCTCCACTGCAACTTCAGGGAGATAAGACTTGCTA-CTTCAAT
* * * * **
124008103 CTACTCCACTACAACTTTAGGAAGATAAGACTTG-TGGTTTCAAT
1 CTGCTCCACTGCAACTTCAGGGAGATAAGACTTGCT-ACTTCAAT
* *
124008147 CTGCTCCACTGCAACTTTAAGGAGATA
1 CTGCTCCACTGCAACTTCAGGGAGATA
124008174 TGATTGGCTA
Statistics
Matches: 299, Mismatches: 61, Indels: 36
0.76 0.15 0.09
Matches are distributed among these distances:
41 3 0.01
42 45 0.15
43 37 0.12
44 129 0.43
45 80 0.27
46 4 0.01
47 1 0.00
ACGTcount: A:0.28, C:0.22, G:0.19, T:0.31
Consensus pattern (44 bp):
CTGCTCCACTGCAACTTCAGGGAGATAAGACTTGCTACTTCAAT
Found at i:124008020 original size:177 final size:178
Alignment explanation
Indices: 124007666--124008051 Score: 517
Period size: 177 Copynumber: 2.2 Consensus size: 178
124007656 TCGATCTACC
* * * * * * *
124007666 CCACTGGAACTTAAAAGAGATAAGAATTGGTAACTTTAACCAGCTCTACTGCAACTTCAGGGAGG
1 CCACTGCAACTTCAGAGAGATAAGACTTGCTAACTTCAACCAGCTCTACTGCAACTTCAGGGAGA
* * * *
124007731 TAAGGTTTGTGTATTTTTATCCTGCTCTACTGCAACTTCAGAGAGATAAGGATTGTGGCTTCGGT
66 TAAGGTTTGTGTATTTTTATCCTGCTCTACTGCAACTTCAGAGAGATAAAGAATATGGCTTCGAT
* ** * *
124007796 CTGCTCCAATGTAATTTCAGGGAGGAGATCTGCTATCTTCAGTCTGCT
131 CTACTCCAATACAACTTCAGGGAGAAGATCTGCTATCTTCAGTCTGCT
* * *
124007844 CCACTGCAACTTCAGGGAGATAAGACTTGCT-ACTTCAACCTGCTCTACTGCAACTTTAGGGAGA
1 CCACTGCAACTTCAGAGAGATAAGACTTGCTAACTTCAACCAGCTCTACTGCAACTTCAGGGAGA
* *
124007908 TAAGG-TT-TGTATTTTTATCCTGCTCTACTGCAACTTTAGAGAGATAAAGAATATGGTTTCGAT
66 TAAGGTTTGTGTATTTTTATCCTGCTCTACTGCAACTTCAGAGAGATAAAGAATATGGCTTCGAT
*
124007971 CTACTCCACTACAACTTCAGGGAGATAAGATCTGCTATCTTCAGTCTGCT
131 CTACTCCAATACAACTTCAGGGAG--AAGATCTGCTATCTTCAGTCTGCT
* *
124008021 CCATTGCAACTTCAGAAAGATAAGACTTGCT
1 CCACTGCAACTTCAGAGAGATAAGACTTGCT
124008052 TTCAGTCTGC
Statistics
Matches: 181, Mismatches: 25, Indels: 5
0.86 0.12 0.02
Matches are distributed among these distances:
175 69 0.38
176 2 0.01
177 85 0.47
178 25 0.14
ACGTcount: A:0.28, C:0.21, G:0.20, T:0.31
Consensus pattern (178 bp):
CCACTGCAACTTCAGAGAGATAAGACTTGCTAACTTCAACCAGCTCTACTGCAACTTCAGGGAGA
TAAGGTTTGTGTATTTTTATCCTGCTCTACTGCAACTTCAGAGAGATAAAGAATATGGCTTCGAT
CTACTCCAATACAACTTCAGGGAGAAGATCTGCTATCTTCAGTCTGCT
Found at i:124008071 original size:175 final size:176
Alignment explanation
Indices: 124007703--124008086 Score: 506
Period size: 175 Copynumber: 2.2 Consensus size: 176
124007693 TGGTAACTTT
* *
124007703 AACCAGCTCTACTGCAACTTCAGGGAGGTAAGGTTTGTGTATTTTTATCCTGCTCTACTGCAACT
1 AACCTGCTCTACTGCAACTTCAGGGAGATAAGGTTTGTGTATTTTTATCCTGCTCTACTGCAACT
* * * * * ** * *
124007768 TCAGAGAGATAAGGATTGTGGCTTCGGTCTGCTCCAATGTAATTTCAGGGAGGAGATCTGCTATC
66 TCAGAGAGATAAAGAATATGGCTTCGATCTACTCCAATACAACTTCAGGGAGAAGATCTGCTATC
**
124007833 TTCAGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTTGCTACTTC
131 TTCAGTCTGCTCCACTGCAACTTCAGAAAGATAAGACTTGCTA-TTC
*
124007880 AACCTGCTCTACTGCAACTTTAGGGAGATAAGG-TT-TGTATTTTTATCCTGCTCTACTGCAACT
1 AACCTGCTCTACTGCAACTTCAGGGAGATAAGGTTTGTGTATTTTTATCCTGCTCTACTGCAACT
* * *
124007943 TTAGAGAGATAAAGAATATGGTTTCGATCTACTCCACTACAACTTCAGGGAGATAAGATCTGCTA
66 TCAGAGAGATAAAGAATATGGCTTCGATCTACTCCAATACAACTTCAGGGAG--AAGATCTGCTA
*
124008008 TCTTCAGTCTGCTCCATTGCAACTTCAGAAAGATAAGACTTGCT-TTC
129 TCTTCAGTCTGCTCCACTGCAACTTCAGAAAGATAAGACTTGCTATTC
** **
124008055 AGTCTGCT-TCACTGCAACTTCAAAGAGATAAG
1 AACCTGCTCT-ACTGCAACTTCAGGGAGATAAG
124008087 ACTTGCTATC
Statistics
Matches: 181, Mismatches: 23, Indels: 8
0.85 0.11 0.04
Matches are distributed among these distances:
174 1 0.01
175 97 0.54
176 2 0.01
177 81 0.45
ACGTcount: A:0.27, C:0.22, G:0.20, T:0.31
Consensus pattern (176 bp):
AACCTGCTCTACTGCAACTTCAGGGAGATAAGGTTTGTGTATTTTTATCCTGCTCTACTGCAACT
TCAGAGAGATAAAGAATATGGCTTCGATCTACTCCAATACAACTTCAGGGAGAAGATCTGCTATC
TTCAGTCTGCTCCACTGCAACTTCAGAAAGATAAGACTTGCTATTC
Found at i:124008665 original size:22 final size:22
Alignment explanation
Indices: 124008637--124008682 Score: 65
Period size: 22 Copynumber: 2.1 Consensus size: 22
124008627 TCTATCCTAC
* *
124008637 TGCAACTCAGGGGTATAGGATT
1 TGCAACTCAGGGGTACAAGATT
*
124008659 TGCAACTTAGGGGTACAAGATT
1 TGCAACTCAGGGGTACAAGATT
124008681 TG
1 TG
124008683 TATCTTCTTC
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.28, C:0.13, G:0.30, T:0.28
Consensus pattern (22 bp):
TGCAACTCAGGGGTACAAGATT
Found at i:124008714 original size:68 final size:68
Alignment explanation
Indices: 124008591--124008727 Score: 193
Period size: 68 Copynumber: 2.0 Consensus size: 68
124008581 TCCACCCCAC
* * * *
124008591 TGCAACTCAAGGGTATAGGATTTGTATCATCTTCAATCTATCCTACTGCAACTCAGGGGTATAGG
1 TGCAACTCAAGGGTACAAGATTTGTATCATCTTCAATCCATCCCACTGCAACTCAGGGGTATAGG
124008656 ATT
66 ATT
* * * * *
124008659 TGCAACTTAGGGGTACAAGATTTGTATCTTCTTCAATCCATCCCACTGTAGCTCAGGGGTATAGG
1 TGCAACTCAAGGGTACAAGATTTGTATCATCTTCAATCCATCCCACTGCAACTCAGGGGTATAGG
124008724 ATT
66 ATT
124008727 T
1 T
124008728 ATATCATCTT
Statistics
Matches: 60, Mismatches: 9, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
68 60 1.00
ACGTcount: A:0.26, C:0.20, G:0.21, T:0.33
Consensus pattern (68 bp):
TGCAACTCAAGGGTACAAGATTTGTATCATCTTCAATCCATCCCACTGCAACTCAGGGGTATAGG
ATT
Found at i:124008738 original size:46 final size:46
Alignment explanation
Indices: 124008662--124008834 Score: 238
Period size: 46 Copynumber: 3.8 Consensus size: 46
124008652 TAGGATTTGC
* * * * *
124008662 AACTTAGGGGTACAAGATTTGTATCTTCTTCAATCCATCCCACTGT
1 AACTCAGGGGTATAGGATTTATATCATCTTCAATCCATCCCACTGT
* **
124008708 AGCTCAGGGGTATAGGATTTATATCATCTTCAATCCATCCCACTAC
1 AACTCAGGGGTATAGGATTTATATCATCTTCAATCCATCCCACTGT
* * *
124008754 AACTCAGGGGTGTAGGATTTGTATTATCTTCAATCCATCCCACTGT
1 AACTCAGGGGTATAGGATTTATATCATCTTCAATCCATCCCACTGT
*
124008800 AACTCAGGGGTATAGGATTTATATCTTCTTCAATC
1 AACTCAGGGGTATAGGATTTATATCATCTTCAATC
124008835 AATTGATTTG
Statistics
Matches: 109, Mismatches: 18, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
46 109 1.00
ACGTcount: A:0.27, C:0.23, G:0.17, T:0.34
Consensus pattern (46 bp):
AACTCAGGGGTATAGGATTTATATCATCTTCAATCCATCCCACTGT
Found at i:124010199 original size:6 final size:6
Alignment explanation
Indices: 124010183--124010218 Score: 54
Period size: 6 Copynumber: 5.8 Consensus size: 6
124010173 TCACGATCTT
*
124010183 TTTTTA TTTTTTG TTTTTA TTTTTA TTTTTA TTTTT
1 TTTTTA -TTTTTA TTTTTA TTTTTA TTTTTA TTTTT
124010219 TGCACCGTTC
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
6 22 0.81
7 5 0.19
ACGTcount: A:0.11, C:0.00, G:0.03, T:0.86
Consensus pattern (6 bp):
TTTTTA
Found at i:124010201 original size:13 final size:13
Alignment explanation
Indices: 124010183--124010220 Score: 60
Period size: 12 Copynumber: 3.0 Consensus size: 13
124010173 TCACGATCTT
124010183 TTTTTATTTTTTG
1 TTTTTATTTTTTG
*
124010196 TTTTTA-TTTTTA
1 TTTTTATTTTTTG
124010208 TTTTTATTTTTTG
1 TTTTTATTTTTTG
124010221 CACCGTTCAT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
12 11 0.50
13 11 0.50
ACGTcount: A:0.11, C:0.00, G:0.05, T:0.84
Consensus pattern (13 bp):
TTTTTATTTTTTG
Found at i:124013140 original size:19 final size:19
Alignment explanation
Indices: 124013117--124013179 Score: 101
Period size: 19 Copynumber: 3.3 Consensus size: 19
124013107 TGTTACATTC
*
124013117 AATGCATATG-ATGAAATG
1 AATGCAGATGCATGAAATG
124013135 CAATGCAGATGCATGAAATG
1 -AATGCAGATGCATGAAATG
124013155 AATGCAGATGCATGAAATG
1 AATGCAGATGCATGAAATG
124013174 AATGCA
1 AATGCA
124013180 AAAAGAGACG
Statistics
Matches: 42, Mismatches: 1, Indels: 2
0.93 0.02 0.04
Matches are distributed among these distances:
19 34 0.81
20 8 0.19
ACGTcount: A:0.43, C:0.11, G:0.24, T:0.22
Consensus pattern (19 bp):
AATGCAGATGCATGAAATG
Found at i:124015822 original size:27 final size:27
Alignment explanation
Indices: 124015784--124015836 Score: 97
Period size: 27 Copynumber: 2.0 Consensus size: 27
124015774 ATAATCCTTC
*
124015784 CCCATACGCGCACCGTTTAAAAAAGGT
1 CCCATACACGCACCGTTTAAAAAAGGT
124015811 CCCATACACGCACCGTTTAAAAAAGG
1 CCCATACACGCACCGTTTAAAAAAGG
124015837 ACCAAAATAA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.36, C:0.30, G:0.17, T:0.17
Consensus pattern (27 bp):
CCCATACACGCACCGTTTAAAAAAGGT
Found at i:124016330 original size:22 final size:23
Alignment explanation
Indices: 124016305--124016363 Score: 61
Period size: 23 Copynumber: 2.6 Consensus size: 23
124016295 CAACCAAATC
124016305 AATTCA-ACATATTT-TCAAGATA
1 AATTCATACATATTTAT-AAGATA
*
124016327 AATTCATGCATATTTATAAGAT-
1 AATTCATACATATTTATAAGATA
124016349 AATGTCATCACATAT
1 AAT-TCAT-ACATAT
124016364 CTAAAACCAG
Statistics
Matches: 31, Mismatches: 2, Indels: 6
0.79 0.05 0.15
Matches are distributed among these distances:
22 9 0.29
23 16 0.52
24 6 0.19
ACGTcount: A:0.42, C:0.14, G:0.07, T:0.37
Consensus pattern (23 bp):
AATTCATACATATTTATAAGATA
Found at i:124024086 original size:22 final size:23
Alignment explanation
Indices: 124024061--124024106 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 23
124024051 CAATCAAATC
124024061 AATTCA-ACATATTT-TCAAGATA
1 AATTCATACATATTTAT-AAGATA
*
124024083 AATTCATGCATATTTATAAGATA
1 AATTCATACATATTTATAAGATA
124024106 A
1 A
124024107 CGTCATCACA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
22 6 0.29
23 14 0.67
24 1 0.05
ACGTcount: A:0.46, C:0.11, G:0.07, T:0.37
Consensus pattern (23 bp):
AATTCATACATATTTATAAGATA
Found at i:124024112 original size:23 final size:23
Alignment explanation
Indices: 124024068--124024112 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
124024058 ATCAATTCAA
*
124024068 CATATTTTCAAGATAAATTCATG
1 CATATTTTCAAGATAAAGTCATG
*
124024091 CATATTTAT-AAGATAACGTCAT
1 CATATTT-TCAAGATAAAGTCAT
124024113 CACATATCTA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 18 0.95
24 1 0.05
ACGTcount: A:0.40, C:0.13, G:0.09, T:0.38
Consensus pattern (23 bp):
CATATTTTCAAGATAAAGTCATG
Found at i:124028286 original size:8 final size:8
Alignment explanation
Indices: 124028273--124028297 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
124028263 AGTTTACTTC
124028273 CCCTCAAA
1 CCCTCAAA
124028281 CCCTCAAA
1 CCCTCAAA
124028289 CCCTCAAA
1 CCCTCAAA
124028297 C
1 C
124028298 TCTTAAAATT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.36, C:0.52, G:0.00, T:0.12
Consensus pattern (8 bp):
CCCTCAAA
Found at i:124028360 original size:26 final size:27
Alignment explanation
Indices: 124028309--124028359 Score: 79
Period size: 25 Copynumber: 2.0 Consensus size: 27
124028299 CTTAAAATTT
*
124028309 TTTTCCTTTTTATTTTTCTCCCAAAAC
1 TTTTCCTTTTTATCTTTCTCCCAAAAC
124028336 TTTT-CTTTTTA-CTTTCTCCCAAAA
1 TTTTCCTTTTTATCTTTCTCCCAAAA
124028360 AAATTATTTC
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
25 12 0.52
26 7 0.30
27 4 0.17
ACGTcount: A:0.20, C:0.25, G:0.00, T:0.55
Consensus pattern (27 bp):
TTTTCCTTTTTATCTTTCTCCCAAAAC
Found at i:124031182 original size:20 final size:19
Alignment explanation
Indices: 124031153--124031194 Score: 57
Period size: 20 Copynumber: 2.2 Consensus size: 19
124031143 TTCTATACAT
*
124031153 AAAATCATTAAAAAATTATA
1 AAAATAATTAAAAAATTA-A
*
124031173 AAAATAATTAAAATATTAA
1 AAAATAATTAAAAAATTAA
124031192 AAA
1 AAA
124031195 TTACAAAAGA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
19 4 0.20
20 16 0.80
ACGTcount: A:0.69, C:0.02, G:0.00, T:0.29
Consensus pattern (19 bp):
AAAATAATTAAAAAATTAA
Found at i:124031283 original size:30 final size:29
Alignment explanation
Indices: 124031243--124031312 Score: 88
Period size: 30 Copynumber: 2.3 Consensus size: 29
124031233 AGATTATAAA
*
124031243 AAAATTATTATAAATGACTA-AAAATTTAT
1 AAAATTATTATAAATGA-TACAAAAATTAT
*
124031272 AAAATTTATTATAAATTATACAAAAATTAT
1 AAAA-TTATTATAAATGATACAAAAATTAT
124031302 ATAAATTATTA
1 A-AAATTATTA
124031313 AAAAAATTAA
Statistics
Matches: 36, Mismatches: 2, Indels: 5
0.84 0.05 0.12
Matches are distributed among these distances:
29 6 0.17
30 27 0.75
31 3 0.08
ACGTcount: A:0.56, C:0.03, G:0.01, T:0.40
Consensus pattern (29 bp):
AAAATTATTATAAATGATACAAAAATTAT
Found at i:124031290 original size:51 final size:49
Alignment explanation
Indices: 124031235--124031333 Score: 126
Period size: 50 Copynumber: 2.0 Consensus size: 49
124031225 GTGCAAAAAG
**
124031235 ATTATAAAAAAATTATTATAAATGACTAAAAATTTATAAAATTTATTATAA
1 ATTATAAAAAAATTA-TATAAATGACTAAAAAAAT-TAAAATTTATTATAA
* * * *
124031286 ATTATACAAAAATTATATAAATTATTAAAAAAATTAAAATTTTTTATA
1 ATTATAAAAAAATTATATAAATGACTAAAAAAATTAAAATTTATTATA
124031334 TGAACTAAAA
Statistics
Matches: 42, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
49 13 0.31
50 15 0.36
51 14 0.33
ACGTcount: A:0.57, C:0.02, G:0.01, T:0.40
Consensus pattern (49 bp):
ATTATAAAAAAATTATATAAATGACTAAAAAAATTAAAATTTATTATAA
Found at i:124031301 original size:21 final size:20
Alignment explanation
Indices: 124031281--124031321 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 20
124031271 TAAAATTTAT
*
124031281 TATAAATTATACAAAAATTA
1 TATAAATTATAAAAAAATTA
124031301 TATAAATTATTAAAAAAATTA
1 TATAAATTA-TAAAAAAATTA
124031322 AAATTTTTTA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 9 0.47
21 10 0.53
ACGTcount: A:0.61, C:0.02, G:0.00, T:0.37
Consensus pattern (20 bp):
TATAAATTATAAAAAAATTA
Found at i:124031302 original size:18 final size:19
Alignment explanation
Indices: 124031279--124031326 Score: 55
Period size: 20 Copynumber: 2.5 Consensus size: 19
124031269 TATAAAATTT
124031279 ATTATAAATTA-TACAAAAA
1 ATTATAAATTATTA-AAAAA
*
124031298 TTATATAAATTATTAAAAAA
1 AT-TATAAATTATTAAAAAA
124031318 ATTA-AAATT
1 ATTATAAATT
124031327 TTTTATATGA
Statistics
Matches: 25, Mismatches: 2, Indels: 5
0.78 0.06 0.16
Matches are distributed among these distances:
18 5 0.20
19 3 0.12
20 15 0.60
21 2 0.08
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.38
Consensus pattern (19 bp):
ATTATAAATTATTAAAAAA
Found at i:124031305 original size:32 final size:31
Alignment explanation
Indices: 124031230--124031306 Score: 86
Period size: 30 Copynumber: 2.5 Consensus size: 31
124031220 TAAAAGTGCA
*
124031230 AAAAGATTATAAAAAAATTATTATAAATGACT
1 AAAA-ATTATATAAAAATTATTATAAATGACT
* *
124031262 AAAAATT-TATAAAATTTATTATAAATTA-T
1 AAAAATTATATAAAAATTATTATAAATGACT
124031291 ACAAAAATTATATAAA
1 --AAAAATTATATAAA
124031307 TTATTAAAAA
Statistics
Matches: 39, Mismatches: 3, Indels: 6
0.81 0.06 0.12
Matches are distributed among these distances:
29 1 0.03
30 18 0.46
31 10 0.26
32 10 0.26
ACGTcount: A:0.60, C:0.03, G:0.03, T:0.35
Consensus pattern (31 bp):
AAAAATTATATAAAAATTATTATAAATGACT
Found at i:124031885 original size:35 final size:35
Alignment explanation
Indices: 124031839--124031933 Score: 112
Period size: 36 Copynumber: 2.8 Consensus size: 35
124031829 TTTTCATGAG
124031839 TTTTTTCACTTATATAT-TTTA-ATATTTTTAATAA
1 TTTTTTCACTTATATATATTTATA-ATTTTTAATAA
*
124031873 TTTTTTGCACTTATATATATTTATAATTTTTAATAG
1 TTTTTT-CACTTATATATATTTATAATTTTTAATAA
*
124031909 TTTTTTTA--TA-ATAT-TTTATAATTTT
1 TTTTTTCACTTATATATATTTATAATTTT
124031934 CTATAAGTTT
Statistics
Matches: 56, Mismatches: 2, Indels: 9
0.84 0.03 0.13
Matches are distributed among these distances:
31 11 0.20
32 4 0.07
33 2 0.04
34 6 0.11
35 12 0.21
36 20 0.36
37 1 0.02
ACGTcount: A:0.31, C:0.04, G:0.02, T:0.63
Consensus pattern (35 bp):
TTTTTTCACTTATATATATTTATAATTTTTAATAA
Found at i:124031913 original size:36 final size:34
Alignment explanation
Indices: 124031837--124031914 Score: 113
Period size: 36 Copynumber: 2.2 Consensus size: 34
124031827 AATTTTCATG
124031837 AGTTTTTTCACTTATATATTTTAATATTTTTAAT
1 AGTTTTTTCACTTATATATTTTAATATTTTTAAT
*
124031871 AATTTTTTGCACTTATATATATTT-ATAATTTTTAAT
1 AGTTTTTT-CACTTATATAT-TTTAAT-ATTTTTAAT
124031907 AGTTTTTT
1 AGTTTTTT
124031915 TATAATATTT
Statistics
Matches: 39, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
34 7 0.18
35 13 0.33
36 19 0.49
ACGTcount: A:0.29, C:0.05, G:0.04, T:0.62
Consensus pattern (34 bp):
AGTTTTTTCACTTATATATTTTAATATTTTTAAT
Found at i:124031925 original size:10 final size:9
Alignment explanation
Indices: 124031892--124031978 Score: 61
Period size: 9 Copynumber: 9.0 Consensus size: 9
124031882 CTTATATATA
124031892 TTTATAATT
1 TTTATAATT
*
124031901 TTTAATAGTTTT
1 TTT-ATA--ATT
124031913 TTTATAATAT
1 TTTATAAT-T
124031923 TTTATAATT
1 TTTATAATT
124031932 TTCTATAAGTT
1 TT-TATAA-TT
124031943 TTCTATAATT
1 TT-TATAATT
* *
124031953 TTAATAAAT
1 TTTATAATT
124031962 TTTA-AATT
1 TTTATAATT
124031970 ATTT-TAATT
1 -TTTATAATT
124031979 ATAAAACACC
Statistics
Matches: 64, Mismatches: 6, Indels: 16
0.74 0.07 0.19
Matches are distributed among these distances:
8 3 0.05
9 22 0.34
10 21 0.33
11 13 0.20
12 5 0.08
ACGTcount: A:0.34, C:0.02, G:0.02, T:0.61
Consensus pattern (9 bp):
TTTATAATT
Found at i:124031927 original size:31 final size:31
Alignment explanation
Indices: 124031848--124031966 Score: 86
Period size: 31 Copynumber: 3.7 Consensus size: 31
124031838 GTTTTTTCAC
*
124031848 TTAT-ATATTTTA-ATATTTTTAATAATTTTT
1 TTATAATATTTTATA-ATTTTTAATAGTTTTT
*
124031878 TGCACTTATATATATTTATAATTTTTAATAGTTTTT
1 T-TA--TA-ATAT-TTTATAATTTTTAATAGTTTTT
124031914 TTATAATATTTTATAATTTTCT-ATAAG-TTTT
1 TTATAATATTTTATAATTTT-TAAT-AGTTTTT
* * *
124031945 CTATAAT-TTTAATAAATTTTAA
1 TTATAATATTTTATAATTTTTAA
124031967 ATTATTTTAA
Statistics
Matches: 73, Mismatches: 6, Indels: 20
0.74 0.06 0.20
Matches are distributed among these distances:
29 1 0.01
30 12 0.16
31 24 0.33
32 7 0.10
33 3 0.04
35 5 0.07
36 20 0.27
37 1 0.01
ACGTcount: A:0.34, C:0.03, G:0.03, T:0.60
Consensus pattern (31 bp):
TTATAATATTTTATAATTTTTAATAGTTTTT
Found at i:124031933 original size:21 final size:20
Alignment explanation
Indices: 124031892--124031954 Score: 65
Period size: 21 Copynumber: 3.0 Consensus size: 20
124031882 CTTATATATA
*
124031892 TTTATAATTTTTAATAGTTTT
1 TTTATAATTTTT-ATAATTTT
124031913 TTTATAATATTTTATAA-TTT
1 TTTATAAT-TTTTATAATTTT
*
124031933 TCTATAAGTTTTCTATAATTTT
1 TTTATAA-TTTT-TATAATTTT
124031955 AATAAATTTT
Statistics
Matches: 36, Mismatches: 2, Indels: 7
0.80 0.04 0.16
Matches are distributed among these distances:
20 12 0.33
21 17 0.47
22 7 0.19
ACGTcount: A:0.30, C:0.03, G:0.03, T:0.63
Consensus pattern (20 bp):
TTTATAATTTTTATAATTTT
Found at i:124031944 original size:11 final size:10
Alignment explanation
Indices: 124031910--124031954 Score: 56
Period size: 10 Copynumber: 4.4 Consensus size: 10
124031900 TTTTAATAGT
*
124031910 TTTTTTATAA
1 TTTTCTATAA
124031920 TATTT-TATAA
1 T-TTTCTATAA
124031930 TTTTCTATAA
1 TTTTCTATAA
124031940 GTTTTCTATAA
1 -TTTTCTATAA
124031951 TTTT
1 TTTT
124031955 AATAAATTTT
Statistics
Matches: 32, Mismatches: 0, Indels: 6
0.84 0.00 0.16
Matches are distributed among these distances:
9 3 0.09
10 16 0.50
11 13 0.41
ACGTcount: A:0.29, C:0.04, G:0.02, T:0.64
Consensus pattern (10 bp):
TTTTCTATAA
Found at i:124037691 original size:14 final size:14
Alignment explanation
Indices: 124037646--124037734 Score: 58
Period size: 14 Copynumber: 6.5 Consensus size: 14
124037636 GGTAACTTCG
124037646 AAGAGTTATTATAT
1 AAGAGTTATTATAT
** * *
124037660 AAGAGGAAGT-T-C
1 AAGAGTTATTATAT
124037672 AAGAGTTATTATAT
1 AAGAGTTATTATAT
*
124037686 AAGAGTTATTACAT
1 AAGAGTTATTATAT
* * * **
124037700 AATAGGTAACTCCA-
1 AAGA-GTTATTATAT
124037714 AAGAGTTATTATAT
1 AAGAGTTATTATAT
124037728 AAGAGTT
1 AAGAGTT
124037735 GGACTGGTAA
Statistics
Matches: 53, Mismatches: 18, Indels: 8
0.67 0.23 0.10
Matches are distributed among these distances:
12 7 0.13
13 7 0.13
14 33 0.62
15 6 0.11
ACGTcount: A:0.43, C:0.06, G:0.18, T:0.34
Consensus pattern (14 bp):
AAGAGTTATTATAT
Done.