Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A11
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: 113101708
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2797742 characters in sequence are not A, C, G, or T
File 184 of 352
Found at i:60494381 original size:13 final size:13
Alignment explanation
Indices: 60494365--60494391 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
60494355 TAAATTGTTT
60494365 TATTCAATTTTAC
1 TATTCAATTTTAC
60494378 TATTCAATTTTAC
1 TATTCAATTTTAC
60494391 T
1 T
60494392 TTGAAAGAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.30, C:0.15, G:0.00, T:0.56
Consensus pattern (13 bp):
TATTCAATTTTAC
Found at i:60496442 original size:20 final size:20
Alignment explanation
Indices: 60496405--60496442 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
60496395 AAAACTTTTT
*
60496405 TTAAAAATTATTAGAAATTA
1 TTAAAAATTATTAAAAATTA
60496425 TTAAAATATTA-TAAAAAT
1 TTAAAA-ATTATTAAAAAT
60496443 ATATATAAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
20 12 0.75
21 4 0.25
ACGTcount: A:0.58, C:0.00, G:0.03, T:0.39
Consensus pattern (20 bp):
TTAAAAATTATTAAAAATTA
Found at i:60497546 original size:6 final size:6
Alignment explanation
Indices: 60497535--60497565 Score: 53
Period size: 6 Copynumber: 5.2 Consensus size: 6
60497525 TGAGGGAAGA
*
60497535 AAAAAG AAAAAG AAAAAG AGAAAG AAAAAG A
1 AAAAAG AAAAAG AAAAAG AAAAAG AAAAAG A
60497566 GAAGGAGAAG
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.81, C:0.00, G:0.19, T:0.00
Consensus pattern (6 bp):
AAAAAG
Found at i:60497560 original size:18 final size:18
Alignment explanation
Indices: 60497537--60497583 Score: 60
Period size: 18 Copynumber: 2.7 Consensus size: 18
60497527 AGGGAAGAAA
60497537 AAAGAAAAAGAAAAAGAG
1 AAAGAAAAAGAAAAAGAG
* *
60497555 AAAGAAAAAGAGAAGGAG
1 AAAGAAAAAGAAAAAGAG
*
60497573 -AAGAAGAAGAA
1 AAAGAAAAAGAA
60497584 GAGGGAGGGA
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
17 9 0.36
18 16 0.64
ACGTcount: A:0.72, C:0.00, G:0.28, T:0.00
Consensus pattern (18 bp):
AAAGAAAAAGAAAAAGAG
Found at i:60497566 original size:12 final size:12
Alignment explanation
Indices: 60497535--60497568 Score: 59
Period size: 12 Copynumber: 2.8 Consensus size: 12
60497525 TGAGGGAAGA
*
60497535 AAAAAGAAAAAG
1 AAAAAGAGAAAG
60497547 AAAAAGAGAAAG
1 AAAAAGAGAAAG
60497559 AAAAAGAGAA
1 AAAAAGAGAA
60497569 GGAGAAGAAG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.79, C:0.00, G:0.21, T:0.00
Consensus pattern (12 bp):
AAAAAGAGAAAG
Found at i:60497670 original size:27 final size:27
Alignment explanation
Indices: 60497617--60497672 Score: 71
Period size: 27 Copynumber: 2.1 Consensus size: 27
60497607 AATATTCTTT
*
60497617 TTTAAGGAAATAATTTTTAATTGTTAA
1 TTTAAGGAAATAATTTTTAATTATTAA
60497644 TTTAAGGAAATAAATTATTT-A-TATTAA
1 TTTAAGGAAAT-AATT-TTTAATTATTAA
60497671 TT
1 TT
60497673 GTTAATGTTA
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
27 18 0.69
28 5 0.19
29 3 0.12
ACGTcount: A:0.43, C:0.00, G:0.09, T:0.48
Consensus pattern (27 bp):
TTTAAGGAAATAATTTTTAATTATTAA
Found at i:60498018 original size:13 final size:13
Alignment explanation
Indices: 60498002--60498033 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
60497992 AAAGAATAGC
*
60498002 TTAATAGTATATT
1 TTAAAAGTATATT
60498015 TTAAAAGTATATT
1 TTAAAAGTATATT
60498028 TTAAAA
1 TTAAAA
60498034 AATCCAAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.47, C:0.00, G:0.06, T:0.47
Consensus pattern (13 bp):
TTAAAAGTATATT
Found at i:60498595 original size:288 final size:285
Alignment explanation
Indices: 60498032--60498909 Score: 1132
Period size: 288 Copynumber: 3.1 Consensus size: 285
60498022 TATATTTTAA
* * * *
60498032 AAAATCCAAAAATAAAAT-AAAAAT-GCCAAAATCAGAGTTTTTACTAAATTAATATAAATATAC
1 AAAATCCGAAAATAAAATAAAAAATGGCCAAAATCAAAATTTTTACTAAATTAATATAAA-AAAC
*
60498095 TAAAATAATACATATGAAACATCATGTACTAAAATAATAT-AAAAATAAAATACGAAAATAGTAT
65 TAAAATAATACA-ATGAAACATTATGTACTAAAATAATATAAAAAATAAAATACGAAAATAGTAT
* * * * ** *
60498159 ATTTTGAAAAATAAAATTCGAAAATAAAATAAAAATAAACATCCAAAATCAA---------AGAT
129 ATTTTAAAAAATAAAATCCAAAAATAAAA-AAAAACAAACGGCCAAAATCAAGTTTTTTCTAAAT
* * *
60498215 TAATAT-AAAAAACT-AAAATAATATATTTGAAACATTATGTACTAAAATGATATAAAAAAATAA
193 TAATATAAAAAAATTAAAAATAATACATTTGAAACATTATGTACTAAAATAATATAAAAAAATAA
* *
60498278 AATAAGATAATAGTATATTTTAAAAAAT
258 AATACGAAAATAGTATATTTTAAAAAAT
*
60498306 AAAATCCGGAAATAAAATAAAAAATGGCCAAAATCACAAATTTTTACTAAATTAATATAAAAAAC
1 AAAATCCGAAAATAAAATAAAAAATGGCCAAAATCA-AAATTTTTACTAAATTAATATAAAAAAC
* *
60498371 TAAAATAATAC-ATGAAATATTATGTACTAAAATAATATAAAAAAATAAAATATGAAAATAGTAT
65 TAAAATAATACAATGAAACATTATGTACTAAAATAATAT-AAAAAATAAAATACGAAAATAGTAT
* *
60498435 ATTTTAAAAAATAAAATCCAAAAATAAAAATAAA-AAAGGGCCAAAATCAGAGTTTTTTTTCTAA
129 ATTTTAAAAAATAAAATCCAAAAATAAAAAAAAACAAACGGCCAAAATCA-AG--TTTTTTCTAA
60498499 ATTAATATAAAAAAATTAAAAATAATACATTTGAAACATTATGTACTAAAATAATATAAAAAAAT
191 ATTAATATAAAAAAATTAAAAATAATACATTTGAAACATTATGTACTAAAATAATATAAAAAAAT
60498564 AAAATACGAAAATAGTATATTTTAAAAAAT
256 AAAATACGAAAATAGTATATTTTAAAAAAT
* ** *
60498594 AAAATCCGAAAATAAAATAAAAAATAAATGGCAAAAATCAGAGTTTTTTAATAAATTAATATAAA
1 AAAATCCGAAAATAAAAT---AAA-AAATGGCCAAAATCA-AAATTTTTACTAAATTAATAT-AA
60498659 AAAACTAAAATAATACATATGAAACATTATGTACTAAAATAATATAAAAAATAAAATACGAAAAT
60 AAAACTAAAATAATACA-ATGAAACATTATGTACTAAAATAATATAAAAAATAAAATACGAAAAT
* *
60498724 AGTATATTTTAAAAAGA-AAAATCTGAAAATAAAATAAAAAAACAAACGGCCAAAATCAAAGTTT
124 AGTATATTTTAAAAA-ATAAAATC-CAAAA-ATAA-AAAAAAACAAACGGCCAAAATC-AAGTTT
*
60498788 TTTACTAAATTAATATAAAAAAATACAAAAATAATACATTTGAAACATTATGTACTAAAATAATA
184 TTT-CTAAATTAATATAAAAAAAT-TAAAAATAATACATTTGAAACATTATGTACTAAAATAATA
60498853 T-AAAAAATAAAATACGAAAATAG--TATTTTAAAAAGA-
247 TAAAAAAATAAAATACGAAAATAGTATATTTTAAAAA-AT
*
60498889 AAAATTCGAAAATAAAATAAA
1 AAAATCCGAAAATAAAATAAA
60498910 TACCAAAATA
Statistics
Matches: 534, Mismatches: 35, Indels: 52
0.86 0.06 0.08
Matches are distributed among these distances:
274 53 0.10
275 11 0.02
276 73 0.14
277 22 0.04
286 9 0.02
287 7 0.01
288 90 0.17
291 3 0.01
292 35 0.07
293 18 0.03
294 40 0.07
295 59 0.11
296 10 0.02
297 48 0.09
298 55 0.10
299 1 0.00
ACGTcount: A:0.60, C:0.07, G:0.06, T:0.27
Consensus pattern (285 bp):
AAAATCCGAAAATAAAATAAAAAATGGCCAAAATCAAAATTTTTACTAAATTAATATAAAAAACT
AAAATAATACAATGAAACATTATGTACTAAAATAATATAAAAAATAAAATACGAAAATAGTATAT
TTTAAAAAATAAAATCCAAAAATAAAAAAAAACAAACGGCCAAAATCAAGTTTTTTCTAAATTAA
TATAAAAAAATTAAAAATAATACATTTGAAACATTATGTACTAAAATAATATAAAAAAATAAAAT
ACGAAAATAGTATATTTTAAAAAAT
Found at i:60498705 original size:148 final size:147
Alignment explanation
Indices: 60498213--60498909 Score: 1001
Period size: 147 Copynumber: 4.8 Consensus size: 147
60498203 AAAATCAAAG
* *
60498213 ATTAATAT-AAAAAACTAAAATAATATATTTGAAACATTATGTACTAAAATGATATAAAAAAATA
1 ATTAATATAAAAAAACTAAAATAATACATTTGAAACATTATGTACTAAAATAATATAAAAAAATA
* * *
60498277 AAATAAGATAATAGTATATTTTAAAAAATAAAATCCGGAAATAAAAT---AAAAAATGGCCAAAA
66 AAATACGAAAATAGTATATTTTAAAAAATAAAATCCGAAAATAAAATAAAAAAAAATGGCCAAAA
* **
60498339 TCACAAATTTTTACTAA
131 TCAGAGTTTTTTACTAA
*
60498356 ATTAATAT-AAAAAACTAAAATAATACA--TGAAATATTATGTACTAAAATAATATAAAAAAATA
1 ATTAATATAAAAAAACTAAAATAATACATTTGAAACATTATGTACTAAAATAATATAAAAAAATA
* * * *
60498418 AAATATGAAAATAGTATATTTTAAAAAATAAAATCCAAAAAT-AAA-AATAAAAAAGGGCCAAAA
66 AAATACGAAAATAGTATATTTTAAAAAATAAAATCCGAAAATAAAATAAAAAAAAATGGCCAAAA
*
60498481 TCAGAGTTTTTTTTCTAA
131 TCAGAG-TTTTTTACTAA
*
60498499 ATTAATATAAAAAAATTAAAAATAATACATTTGAAACATTATGTACTAAAATAATATAAAAAAAT
1 ATTAATATAAAAAAACT-AAAATAATACATTTGAAACATTATGTACTAAAATAATATAAAAAAAT
*
60498564 AAAATACGAAAATAGTATATTTTAAAAAATAAAATCCGAAAATAAAATAAAAAATAAATGGCAAA
65 AAAATACGAAAATAGTATATTTTAAAAAATAAAATCCGAAAATAAAATAAAAAA-AAATGGCCAA
*
60498629 AATCAGAGTTTTTTAATAA
129 AATCAGAGTTTTTTACTAA
*
60498648 ATTAATATAAAAAAACTAAAATAATACATATGAAACATTATGTACTAAAATAATAT-AAAAAATA
1 ATTAATATAAAAAAACTAAAATAATACATTTGAAACATTATGTACTAAAATAATATAAAAAAATA
* *
60498712 AAATACGAAAATAGTATATTTTAAAAAGA-AAAATCTGAAAATAAAATAAAAAAACAAACGGCCA
66 AAATACGAAAATAGTATATTTTAAAAA-ATAAAATCCGAAAATAAAAT-AAAAAA-AAATGGCCA
*
60498776 AAATCAAAGTTTTTTACTAA
128 AAATCAGAGTTTTTTACTAA
*
60498796 ATTAATATAAAAAAATACAAAAATAATACATTTGAAACATTATGTACTAAAATAATAT-AAAAAA
1 ATTAATAT-AAAAAA-ACTAAAATAATACATTTGAAACATTATGTACTAAAATAATATAAAAAAA
*
60498860 TAAAATACGAAAATAG--TATTTTAAAAAGA-AAAATTCGAAAATAAAATAAA
64 TAAAATACGAAAATAGTATATTTTAAAAA-ATAAAATCCGAAAATAAAATAAA
60498910 TACCAAAATA
Statistics
Matches: 506, Mismatches: 33, Indels: 26
0.90 0.06 0.05
Matches are distributed among these distances:
140 3 0.01
141 71 0.14
142 18 0.04
143 43 0.08
144 7 0.01
145 11 0.02
147 129 0.25
148 110 0.22
149 36 0.07
150 78 0.15
ACGTcount: A:0.60, C:0.06, G:0.06, T:0.28
Consensus pattern (147 bp):
ATTAATATAAAAAAACTAAAATAATACATTTGAAACATTATGTACTAAAATAATATAAAAAAATA
AAATACGAAAATAGTATATTTTAAAAAATAAAATCCGAAAATAAAATAAAAAAAAATGGCCAAAA
TCAGAGTTTTTTACTAA
Found at i:60505296 original size:46 final size:46
Alignment explanation
Indices: 60505243--60505332 Score: 126
Period size: 46 Copynumber: 2.0 Consensus size: 46
60505233 ATATATACAA
* ** *
60505243 ATCTCATACATATCTCACATTAGCCATTTGGCTTTACCACATATCC
1 ATCTCATACACATCTCACATTAGCCATTCAGCCTTACCACATATCC
* *
60505289 ATCTCATACACATTTCGCATTAGCCATTCAGCCTTACCACATAT
1 ATCTCATACACATCTCACATTAGCCATTCAGCCTTACCACATAT
60505333 ATACATGTTC
Statistics
Matches: 38, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
46 38 1.00
ACGTcount: A:0.29, C:0.31, G:0.07, T:0.33
Consensus pattern (46 bp):
ATCTCATACACATCTCACATTAGCCATTCAGCCTTACCACATATCC
Found at i:60505370 original size:47 final size:47
Alignment explanation
Indices: 60505306--60505547 Score: 322
Period size: 47 Copynumber: 5.1 Consensus size: 47
60505296 ACACATTTCG
* * *
60505306 CATTAGCCATTCAGCCTTACCACATATATACATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACATATATACATGTTCACATTCATCA
* *
60505353 CATTGGCCATTCGGCCTTATCTCATATATGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACATATATACATGTTCACATTCATCA
* * **
60505400 CATTGGCCATTCGACCTTATCACACATACGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACATATATACATGTTCACATTCATCA
*
60505447 CATTGGCCATTCGGCCTTATCACACATATATATACAGGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTAT--CAC--ATATATACATGTTCACATTCATCA
* * **
60505498 CATTTGCCATTCGGCCTTATCTCATATATACACATTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACATATATACATGTTCACATTCATCA
60505545 CAT
1 CAT
60505548 AAAATCCTAA
Statistics
Matches: 173, Mismatches: 18, Indels: 8
0.87 0.09 0.04
Matches are distributed among these distances:
47 129 0.75
49 5 0.03
51 39 0.23
ACGTcount: A:0.28, C:0.29, G:0.10, T:0.33
Consensus pattern (47 bp):
CATTGGCCATTCGGCCTTATCACATATATACATGTTCACATTCATCA
Found at i:60510084 original size:22 final size:22
Alignment explanation
Indices: 60510056--60510097 Score: 68
Period size: 22 Copynumber: 1.9 Consensus size: 22
60510046 AAAATTACAT
60510056 TTTCTTTTCTTTCT-TCTTCTCC
1 TTTC-TTTCTTTCTATCTTCTCC
60510078 TTTCTTTCTTTCTATCTTCT
1 TTTCTTTCTTTCTATCTTCT
60510098 TCTTCTGTAA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
21 9 0.47
22 10 0.53
ACGTcount: A:0.02, C:0.29, G:0.00, T:0.69
Consensus pattern (22 bp):
TTTCTTTCTTTCTATCTTCTCC
Found at i:60512245 original size:8 final size:7
Alignment explanation
Indices: 60512230--60512259 Score: 51
Period size: 7 Copynumber: 4.1 Consensus size: 7
60512220 TTTCTTTTCG
60512230 AAATAAA
1 AAATAAA
60512237 AAATAAA
1 AAATAAA
60512244 AAATAAAA
1 AAAT-AAA
60512252 AAATAAA
1 AAATAAA
60512259 A
1 A
60512260 GGGAACTTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
7 15 0.68
8 7 0.32
ACGTcount: A:0.87, C:0.00, G:0.00, T:0.13
Consensus pattern (7 bp):
AAATAAA
Found at i:60512249 original size:14 final size:15
Alignment explanation
Indices: 60512230--60512259 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
60512220 TTTCTTTTCG
60512230 AAAT-AAAAAATAAA
1 AAATAAAAAAATAAA
60512244 AAATAAAAAAATAAA
1 AAATAAAAAAATAAA
60512259 A
1 A
60512260 GGGAACTTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 4 0.27
15 11 0.73
ACGTcount: A:0.87, C:0.00, G:0.00, T:0.13
Consensus pattern (15 bp):
AAATAAAAAAATAAA
Found at i:60525260 original size:44 final size:44
Alignment explanation
Indices: 60525191--60525827 Score: 427
Period size: 44 Copynumber: 14.3 Consensus size: 44
60525181 ATCGTGGCAG
* * * * *
60525191 ATCTTATCTCCCTAAAGTTGTAGTGGGGAAAATTAAAGCCACAA
1 ATCTTATCTCTCTGAAGTTGCAGTGGAGAAGATTAAAGCCACAA
* **
60525235 GTCTTATCTCTCTGAAGTTGCAGTGGAGAAGATTAAAGATAGCAA
1 ATCTTATCTCTCTGAAGTTGCAGTGGAGAAGATTAAAGCCA-CAA
* * * *
60525280 ATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATTAAAGCTATAA
1 ATCTTATCTCTCTGAAGTTGCAGTGGAGAAGATTAAAGCCACAA
* * * *
60525324 ACCTTATCTCTCTAAAGTTGCAGTGGAGCAGATTAAAGCCGCAA
1 ATCTTATCTCTCTGAAGTTGCAGTGGAGAAGATTAAAGCCACAA
* * **
60525368 ATCTTATCTC-CTTGAAGTTGCAGTGGAGCAGATTGAAGATAACAA
1 ATCTTATCTCTC-TGAAGTTGCAGTGGAGAAGATTAAAG-CCACAA
* * * * * * * * *
60525413 ATCTTGTCTTTCTGAAGTTGTAGTAGAGCAGATTAAAACTATAT
1 ATCTTATCTCTCTGAAGTTGCAGTGGAGAAGATTAAAGCCACAA
* * * * * * **
60525457 ACCTTATCCCCCTGAAGTTGCAGTGGAGTAGGTTTAAGTTACAA
1 ATCTTATCTCTCTGAAGTTGCAGTGGAGAAGATTAAAGCCACAA
* * ** *
60525501 ATCTTATCTC-CTTGAAGTTGCAGTGGAGTAGATTGAAGATAGAAA
1 ATCTTATCTCTC-TGAAGTTGCAGTGGAGAAGATTAAAGCCA-CAA
* * * * * *
60525546 ATCTTATCTCTCTGAAGTTGCAATAGAGCAGATTAAATCTATAA
1 ATCTTATCTCTCTGAAGTTGCAGTGGAGAAGATTAAAGCCACAA
* * * * **
60525590 GTCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATAGCAA
1 ATCTTATCTCTCTGAAGTTGCAGTGGAGAAGATTAAAGCCA-CAA
* * * * * ** *
60525635 ATATTATCTCCCTGAAGTTGCAATGGAGCAGATTGAAGATAGAAA
1 ATCTTATCTCTCTGAAGTTGCAGTGGAGAAGATTAAAGCCA-CAA
* * * *
60525680 ATCTTATCTCTCTGAAGTTGCAATAGA-ACAGATTAAAGCTATAA
1 ATCTTATCTCTCTGAAGTTGCAGTGGAGA-AGATTAAAGCCACAA
* * * * ***
60525724 GTCTTATCT-TCCTGAAGTTGCAGTGAAGCAGATTGAAGATTGCAA
1 ATCTTATCTCT-CTGAAGTTGCAGTGGAGAAGATTAAAG-CCACAA
* * * * * *
60525769 ATATTATCTCTTTGAAGTTGCAGTAGAGCAGATTAAAGCTATAA
1 ATCTTATCTCTCTGAAGTTGCAGTGGAGAAGATTAAAGCCACAA
* *
60525813 ACCTTATCTCCCTGA
1 ATCTTATCTCTCTGA
60525828 GCAGGTTGAG
Statistics
Matches: 477, Mismatches: 103, Indels: 26
0.79 0.17 0.04
Matches are distributed among these distances:
43 3 0.01
44 253 0.53
45 218 0.46
46 3 0.01
ACGTcount: A:0.33, C:0.16, G:0.20, T:0.30
Consensus pattern (44 bp):
ATCTTATCTCTCTGAAGTTGCAGTGGAGAAGATTAAAGCCACAA
Found at i:60525330 original size:89 final size:89
Alignment explanation
Indices: 60525236--60525806 Score: 582
Period size: 89 Copynumber: 6.4 Consensus size: 89
60525226 AAGCCACAAG
*
60525236 TCTTATCTCTCTGAAGTTGCAGTGGAGAAGATTAAAGATAGCAAATCTTATCTCTCTGAAGTTGC
1 TCTTATCTCTCTGAAGTTGCAGTGGAGCAGATTAAAGATAGCAAATCTTATCTCTCTGAAGTTGC
* * *
60525301 AGTAGAGCAGATTAAAGCTATAAA
66 AGTGGAGCAGATTGAAGATATAAA
* * **
60525325 CCTTATCTCTCTAAAGTTGCAGTGGAGCAGATTAAAG-CCGCAAATCTTATCTC-CTTGAAGTTG
1 TCTTATCTCTCTGAAGTTGCAGTGGAGCAGATTAAAGATAGCAAATCTTATCTCTC-TGAAGTTG
*
60525388 CAGTGGAGCAGATTGAAGATAACAAA
65 CAGTGGAGCAGATTGAAGAT-ATAAA
* * * * * * * * *
60525414 TCTTGTCTTTCTGAAGTTGTAGTAGAGCAGATTAAA-ACTA-TATACCTTATCCCCCTGAAGTTG
1 TCTTATCTCTCTGAAGTTGCAGTGGAGCAGATTAAAGA-TAGCAAATCTTATCTCTCTGAAGTTG
* * * * *
60525477 CAGTGGAGTAGGTTTAAGTTACAAA
65 CAGTGGAGCAGATTGAAGATATAAA
* * *
60525502 TCTTATCTC-CTTGAAGTTGCAGTGGAGTAGATTGAAGATAGAAAATCTTATCTCTCTGAAGTTG
1 TCTTATCTCTC-TGAAGTTGCAGTGGAGCAGATTAAAGATAGCAAATCTTATCTCTCTGAAGTTG
* * * ** *
60525566 CAATAGAGCAGATTAAATCTATAAG
65 CAGTGGAGCAGATTGAAGATATAAA
* * * *
60525591 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATAGCAAATATTATCTCCCTGAAGTTGC
1 TCTTATCTCTCTGAAGTTGCAGTGGAGCAGATTAAAGATAGCAAATCTTATCTCTCTGAAGTTGC
* *
60525656 AATGGAGCAGATTGAAGATAGAAAA
66 AGTGGAGCAGATTGAAGATA-TAAA
* * * * * *
60525681 TCTTATCTCTCTGAAGTTGCAATAGAACAGATTAAAGCTA-TAAGTCTTATCT-TCCTGAAGTTG
1 TCTTATCTCTCTGAAGTTGCAGTGGAGCAGATTAAAGATAGCAAATCTTATCTCT-CTGAAGTTG
*
60525744 CAGTGAAGCAGATTGAAGAT-TGCAAA
65 CAGTGGAGCAGATTGAAGATAT--AAA
* * *
60525770 TATTATCTCTTTGAAGTTGCAGTAGAGCAGATTAAAG
1 TCTTATCTCTCTGAAGTTGCAGTGGAGCAGATTAAAG
60525807 CTATAAACCT
Statistics
Matches: 397, Mismatches: 72, Indels: 26
0.80 0.15 0.05
Matches are distributed among these distances:
87 2 0.01
88 74 0.19
89 283 0.71
90 38 0.10
ACGTcount: A:0.33, C:0.15, G:0.21, T:0.31
Consensus pattern (89 bp):
TCTTATCTCTCTGAAGTTGCAGTGGAGCAGATTAAAGATAGCAAATCTTATCTCTCTGAAGTTGC
AGTGGAGCAGATTGAAGATATAAA
Found at i:60525431 original size:133 final size:133
Alignment explanation
Indices: 60525193--60525802 Score: 756
Period size: 133 Copynumber: 4.6 Consensus size: 133
60525183 CGTGGCAGAT
* * * * * * * *
60525193 CTTATCTCCCTAAAGTTGTAGTGGGGAAAATTAAAGCCACAAGTCTTATCT-CTCTGAAGTTGCA
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGTCGCAAATCTTATCTCCT-TGAAGTTGCA
* * * *
60525257 GTGGAGAAGATTAAAGATAGCAAATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATTAAAGCTAT
65 GTGGAGCAGATTGAAGATAGAAAATCTTATCTCTCTGAAGTTGCAATAGAGCAGATTAAAGCTAT
60525322 AAAC
130 AAAC
* * *
60525326 CTTATCTCTCTAAAGTTGCAGTGGAGCAGATTAAAGCCGCAAATCTTATCTCCTTGAAGTTGCAG
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGTCGCAAATCTTATCTCCTTGAAGTTGCAG
* * * * *
60525391 TGGAGCAGATTGAAGATA-ACAAATCTTGTCTTTCTGAAGTTGTAGTAGAGCAGATTAAAACTAT
66 TGGAGCAGATTGAAGATAGA-AAATCTTATCTCTCTGAAGTTGCAATAGAGCAGATTAAAGCTAT
*
60525455 ATAC
130 AAAC
* * * * **
60525459 CTTATCCCCCTGAAGTTGCAGTGGAGTAGGTTTAAGTTACAAATCTTATCTCCTTGAAGTTGCAG
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGTCGCAAATCTTATCTCCTTGAAGTTGCAG
* *
60525524 TGGAGTAGATTGAAGATAGAAAATCTTATCTCTCTGAAGTTGCAATAGAGCAGATTAAATCTATA
66 TGGAGCAGATTGAAGATAGAAAATCTTATCTCTCTGAAGTTGCAATAGAGCAGATTAAAGCTATA
**
60525589 AGT
131 AAC
* * * *
60525592 CTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATAGCAAATATTATCTCCCTGAAGTTGCA
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAG-TCGCAAATCTTATCTCCTTGAAGTTGCA
* *
60525657 ATGGAGCAGATTGAAGATAGAAAATCTTATCTCTCTGAAGTTGCAATAGAACAGATTAAAGCTAT
65 GTGGAGCAGATTGAAGATAGAAAATCTTATCTCTCTGAAGTTGCAATAGAGCAGATTAAAGCTAT
**
60525722 AAGT
130 AAAC
* * * * * *
60525726 CTTATCTTCCTGAAGTTGCAGTGAAGCAGATTGAAGATTGCAAATATTATCTCTTTGAAGTTGCA
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAG-TCGCAAATCTTATCTCCTTGAAGTTGCA
*
60525791 GTAGAGCAGATT
65 GTGGAGCAGATT
60525803 AAAGCTATAA
Statistics
Matches: 421, Mismatches: 52, Indels: 7
0.88 0.11 0.01
Matches are distributed among these distances:
133 259 0.62
134 162 0.38
ACGTcount: A:0.33, C:0.16, G:0.21, T:0.30
Consensus pattern (133 bp):
CTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGTCGCAAATCTTATCTCCTTGAAGTTGCAG
TGGAGCAGATTGAAGATAGAAAATCTTATCTCTCTGAAGTTGCAATAGAGCAGATTAAAGCTATA
AAC
Found at i:60528406 original size:22 final size:22
Alignment explanation
Indices: 60528380--60528423 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
60528370 GAAAATGATC
*
60528380 AAAATTAATCAAAATTTATTAT
1 AAAATTAATCAAAATTCATTAT
*
60528402 AAAATTAATTAAAATTCATTAT
1 AAAATTAATCAAAATTCATTAT
60528424 GTTAATAATT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.55, C:0.05, G:0.00, T:0.41
Consensus pattern (22 bp):
AAAATTAATCAAAATTCATTAT
Found at i:60535960 original size:25 final size:25
Alignment explanation
Indices: 60535932--60535989 Score: 80
Period size: 25 Copynumber: 2.3 Consensus size: 25
60535922 TCATAGCTCA
* *
60535932 TGTGAGCAATTATAGTTACAGCTTG
1 TGTGAGCAATTACAGTAACAGCTTG
*
60535957 TGTGAGCATTTACAGTAACAGCTTG
1 TGTGAGCAATTACAGTAACAGCTTG
*
60535982 TGTAAGCA
1 TGTGAGCA
60535990 TTGTTCTCGC
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 29 1.00
ACGTcount: A:0.29, C:0.14, G:0.24, T:0.33
Consensus pattern (25 bp):
TGTGAGCAATTACAGTAACAGCTTG
Found at i:60536147 original size:27 final size:28
Alignment explanation
Indices: 60536116--60536188 Score: 78
Period size: 27 Copynumber: 2.7 Consensus size: 28
60536106 GTAGATATAC
60536116 AAAATGGTTATATGAATATG-TTATATG
1 AAAATGGTTATATGAATATGTTTATATG
* * * *
60536143 GAAATAGTTATATTAA-GTGTTTATATG
1 AAAATGGTTATATGAATATGTTTATATG
* *
60536170 AAAATGTTTATATGGATAT
1 AAAATGGTTATATGAATAT
60536189 ATATGTAAAA
Statistics
Matches: 34, Mismatches: 10, Indels: 3
0.72 0.21 0.06
Matches are distributed among these distances:
26 2 0.06
27 31 0.91
28 1 0.03
ACGTcount: A:0.40, C:0.00, G:0.18, T:0.42
Consensus pattern (28 bp):
AAAATGGTTATATGAATATGTTTATATG
Found at i:60536179 original size:14 final size:13
Alignment explanation
Indices: 60536116--60536183 Score: 57
Period size: 14 Copynumber: 5.0 Consensus size: 13
60536106 GTAGATATAC
60536116 AAAATGGTTATATG
1 AAAAT-GTTATATG
*
60536130 AATATGTTATATG
1 AAAATGTTATATG
*
60536143 GAAATAGTTATAT-
1 AAAAT-GTTATATG
* *
60536156 TAAGTGTTTATATG
1 AAAATG-TTATATG
60536170 AAAATGTTTATATG
1 AAAATG-TTATATG
60536184 GATATATATG
Statistics
Matches: 44, Mismatches: 7, Indels: 6
0.77 0.12 0.11
Matches are distributed among these distances:
12 1 0.02
13 20 0.45
14 23 0.52
ACGTcount: A:0.40, C:0.00, G:0.18, T:0.43
Consensus pattern (13 bp):
AAAATGTTATATG
Found at i:60537283 original size:22 final size:21
Alignment explanation
Indices: 60537241--60537283 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
60537231 GTAACCCCTG
**
60537241 TTTTCAATTTTTTTTCTATTA
1 TTTTCAATTTTTTTTAGATTA
*
60537262 TTTTCTATTTTGTTTTAGATTA
1 TTTTCAATTTT-TTTTAGATTA
60537284 GTCCCTAATT
Statistics
Matches: 18, Mismatches: 3, Indels: 1
0.82 0.14 0.05
Matches are distributed among these distances:
21 10 0.56
22 8 0.44
ACGTcount: A:0.19, C:0.07, G:0.05, T:0.70
Consensus pattern (21 bp):
TTTTCAATTTTTTTTAGATTA
Found at i:60540488 original size:48 final size:48
Alignment explanation
Indices: 60540399--60540492 Score: 129
Period size: 48 Copynumber: 2.0 Consensus size: 48
60540389 TTTCTTGGCT
* * *
60540399 TAAAAACGCCTAAGTCAGCCTAACTTCCACCGATAATGGATTCAACCG
1 TAAAAACGCCTAAGTCAGCCTAACTTCCAACAATAAAGGATTCAACCG
60540447 TAAAAACGCCTAAGTCAG-CTCAAC-TCGCAACAATAAAGGATTCAAC
1 TAAAAACGCCTAAGTCAGCCT-AACTTC-CAACAATAAAGGATTCAAC
60540493 AGAATTCCCT
Statistics
Matches: 41, Mismatches: 3, Indels: 4
0.85 0.06 0.08
Matches are distributed among these distances:
47 4 0.10
48 37 0.90
ACGTcount: A:0.39, C:0.28, G:0.14, T:0.19
Consensus pattern (48 bp):
TAAAAACGCCTAAGTCAGCCTAACTTCCAACAATAAAGGATTCAACCG
Found at i:60547434 original size:14 final size:12
Alignment explanation
Indices: 60547403--60547434 Score: 55
Period size: 12 Copynumber: 2.7 Consensus size: 12
60547393 GTTCACACGT
60547403 CCGTGTGTTAAG
1 CCGTGTGTTAAG
*
60547415 CCGTGTGTTAGG
1 CCGTGTGTTAAG
60547427 CCGTGTGT
1 CCGTGTGT
60547435 CACACATGGC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.09, C:0.19, G:0.38, T:0.34
Consensus pattern (12 bp):
CCGTGTGTTAAG
Found at i:60549089 original size:68 final size:64
Alignment explanation
Indices: 60549003--60549224 Score: 232
Period size: 67 Copynumber: 3.4 Consensus size: 64
60548993 TAATACGGGA
* *
60549003 TGTATACCATGTGTACAAGAGAGCTACGAGACATTATGAGGTAGCTAGGTCACATGGGTGGTACT
1 TGTACACCATGTGTACAAGAGAGCTACGAG--A-TA-GAAGTAGCTAGGTCACATGGGTGGTACT
60549068 ATG
62 ATG
* ** * * *
60549071 TGTACACCATGTAG-ACAAGAGAGCTACGAGATAGATGTAGCTAGGTTGCATGTGTGGTTCCAGG
1 TGTACACCATGT-GTACAAGAGAGCTACGAGATAGAAGTAGCTAGGTCACATGGGTGGTACTA--
60549135 TG
63 TG
* * ** * *
60549137 AAGGACACCATGTAAACAAGAGAGCTACGAGATA-AAGTGGCTAGGTCACATGGGTGATACTATG
1 -TGTACACCATGTGTACAAGAGAGCTACGAGATAGAAGTAGCTAGGTCACATGGGTGGTACTATG
60549201 TGTACACCATGTGTACAAGAGAGC
1 TGTACACCATGTGTACAAGAGAGC
60549225 CAAAATTATG
Statistics
Matches: 127, Mismatches: 22, Indels: 15
0.77 0.13 0.09
Matches are distributed among these distances:
63 20 0.16
64 25 0.20
65 2 0.02
66 23 0.18
67 29 0.23
68 27 0.21
69 1 0.01
ACGTcount: A:0.32, C:0.16, G:0.29, T:0.23
Consensus pattern (64 bp):
TGTACACCATGTGTACAAGAGAGCTACGAGATAGAAGTAGCTAGGTCACATGGGTGGTACTATG
Found at i:60551938 original size:64 final size:64
Alignment explanation
Indices: 60551823--60551948 Score: 146
Period size: 64 Copynumber: 2.0 Consensus size: 64
60551813 ACAAAGATCC
* * * * ** * *
60551823 TATATCAGGATGCTCATAAAGAGCTGTGGTATATCCGCATTATATGCAGGATCTATACCGATTA
1 TATAACAGGACGCTCACAAAGAGCTGCGGTATATCCGCAACACATGCAGGATCAATACCGATTA
* *
60551887 TATAACAGGACGCTCACAAAGAGCTGCGGTATGA-CCGCAACACATGTAGGATCAATATCGAT
1 TATAACAGGACGCTCACAAAGAGCTGCGGTAT-ATCCGCAACACATGCAGGATCAATACCGAT
60551949 CAGTATGCTC
Statistics
Matches: 51, Mismatches: 10, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
64 50 0.98
65 1 0.02
ACGTcount: A:0.33, C:0.20, G:0.21, T:0.25
Consensus pattern (64 bp):
TATAACAGGACGCTCACAAAGAGCTGCGGTATATCCGCAACACATGCAGGATCAATACCGATTA
Found at i:60552864 original size:12 final size:12
Alignment explanation
Indices: 60552847--60552881 Score: 61
Period size: 12 Copynumber: 2.9 Consensus size: 12
60552837 TTTATTTAGG
*
60552847 AAAGATAATATA
1 AAAGATGATATA
60552859 AAAGATGATATA
1 AAAGATGATATA
60552871 AAAGATGATAT
1 AAAGATGATAT
60552882 TTTCTTATTT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
12 22 1.00
ACGTcount: A:0.60, C:0.00, G:0.14, T:0.26
Consensus pattern (12 bp):
AAAGATGATATA
Found at i:60556399 original size:46 final size:45
Alignment explanation
Indices: 60556346--60556511 Score: 203
Period size: 46 Copynumber: 3.7 Consensus size: 45
60556336 GACGAGGGCT
60556346 AGTGTAAGACATGTCTGGGACATGCATCAGCCAC-AGTATGATAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCAGCCACGAG-ATG-TAGCC
* * *
60556392 AGTGTAAGACATGTTTGGGACATGCATTAGCCTCGAGATGTTAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCAGCCACGAGATG-TAGCC
* * * * *
60556438 AATGTCAGACATGTCTGGGACATGCGTCAGCTACGAGATGT-GCT
1 AGTGTAAGACATGTCTGGGACATGCATCAGCCACGAGATGTAGCC
*
60556482 AGTGTAAGACATGTCTGGGA-ATGCGTCAGC
1 AGTGTAAGACATGTCTGGGACATGCATCAGC
60556512 ATGGTTACAT
Statistics
Matches: 105, Mismatches: 14, Indels: 5
0.85 0.11 0.04
Matches are distributed among these distances:
43 10 0.10
44 20 0.19
45 1 0.01
46 72 0.69
47 2 0.02
ACGTcount: A:0.27, C:0.19, G:0.29, T:0.25
Consensus pattern (45 bp):
AGTGTAAGACATGTCTGGGACATGCATCAGCCACGAGATGTAGCC
Found at i:60559340 original size:20 final size:18
Alignment explanation
Indices: 60559315--60559351 Score: 56
Period size: 20 Copynumber: 1.9 Consensus size: 18
60559305 ATTGCTAAGT
60559315 TGTAAAATGAGTTGTAAATG
1 TGTAAAAT-AGTTG-AAATG
60559335 TGTAAAATAGTTGAAAT
1 TGTAAAATAGTTGAAAT
60559352 TATGAGTTGC
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 4 0.24
19 5 0.29
20 8 0.47
ACGTcount: A:0.43, C:0.00, G:0.22, T:0.35
Consensus pattern (18 bp):
TGTAAAATAGTTGAAATG
Found at i:60566450 original size:15 final size:14
Alignment explanation
Indices: 60566425--60566474 Score: 57
Period size: 15 Copynumber: 3.4 Consensus size: 14
60566415 GAGTCCATAG
60566425 GTATGTATCCACCAA
1 GTATG-ATCCACCAA
60566440 GTATGAGTCCA-CAA
1 GTATGA-TCCACCAA
*
60566454 ATATGTATCCACCAA
1 GTATG-ATCCACCAA
60566469 GTATGA
1 GTATGA
60566475 ATCTGCAGGT
Statistics
Matches: 30, Mismatches: 2, Indels: 7
0.77 0.05 0.18
Matches are distributed among these distances:
14 13 0.43
15 17 0.57
ACGTcount: A:0.36, C:0.22, G:0.16, T:0.26
Consensus pattern (14 bp):
GTATGATCCACCAA
Found at i:60566458 original size:29 final size:29
Alignment explanation
Indices: 60566412--60566497 Score: 118
Period size: 29 Copynumber: 3.0 Consensus size: 29
60566402 GGTTGTTACA
*
60566412 TATGAGTCCATAGGTATGTATCCACCAAG
1 TATGAGTCCACAGGTATGTATCCACCAAG
**
60566441 TATGAGTCCACAAATATGTATCCACCAAG
1 TATGAGTCCACAGGTATGTATCCACCAAG
* **
60566470 TATGAATCTGCAGGTATGTATCCACCAA
1 TATGAGTCCACAGGTATGTATCCACCAA
60566498 ATGTGAGCTT
Statistics
Matches: 49, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
29 49 1.00
ACGTcount: A:0.34, C:0.22, G:0.17, T:0.27
Consensus pattern (29 bp):
TATGAGTCCACAGGTATGTATCCACCAAG
Found at i:60569287 original size:16 final size:16
Alignment explanation
Indices: 60569252--60569292 Score: 57
Period size: 16 Copynumber: 2.6 Consensus size: 16
60569242 TGAACTGATG
60569252 ATATGCGAA-CCACCT
1 ATATGCGAACCCACCT
**
60569267 ATATGCGAACCCATTT
1 ATATGCGAACCCACCT
60569283 ATATGCGAAC
1 ATATGCGAAC
60569293 TGTTATATGT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
15 9 0.39
16 14 0.61
ACGTcount: A:0.34, C:0.27, G:0.15, T:0.24
Consensus pattern (16 bp):
ATATGCGAACCCACCT
Found at i:60577781 original size:29 final size:29
Alignment explanation
Indices: 60577736--60577794 Score: 109
Period size: 29 Copynumber: 2.0 Consensus size: 29
60577726 TAATGAAATA
*
60577736 AAATGAGAAAATGAAGGCAAAAATCAGCC
1 AAATGAGAAAATAAAGGCAAAAATCAGCC
60577765 AAATGAGAAAATAAAGGCAAAAATCAGCC
1 AAATGAGAAAATAAAGGCAAAAATCAGCC
60577794 A
1 A
60577795 TTCTTCTCCC
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.58, C:0.14, G:0.19, T:0.10
Consensus pattern (29 bp):
AAATGAGAAAATAAAGGCAAAAATCAGCC
Found at i:60581838 original size:47 final size:45
Alignment explanation
Indices: 60581689--60581997 Score: 189
Period size: 47 Copynumber: 6.6 Consensus size: 45
60581679 TTACTTGTGT
* * *
60581689 GCCAGTGTAAGACATGTCTGGGACATGCATCGACCATAATATGATA
1 GCCAGTGTAAGACATGTCTGGGACATGCATCGGCC-TGAGATGATA
**
60581735 GCCAGTGTAAGACCATGTCTGGGACATGGCATCGGTGTAGAGAATGAGT-
1 GCCAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCT-GAG-ATGA-TA
* ***
60581784 GCTAGTGTAAGACATGTCTAATACATGCATCGGCCTCGACGATGATA
1 GCCAGTGTAAGACATGTCTGGGACATGCATCGGCCT-GA-GATGATA
* * *
60581831 GCCAGTGTAAAACATGTCTGGCACACT-CATCGG-CTAAGAGTTG-T-
1 GCCAGTGTAAGACATGTCTGGGACA-TGCATCGGCCT--GAGATGATA
* * * * * * *
60581875 GCTAGTGTAAGACATGTCTAGGACATGCATCAGCGTATAGACGAGA
1 GCCAGTGTAAGACATGTCTGGGACATGCATCGGCCT-GAGATGATA
* * * **
60581921 GCTAGTATAAGACCATGTCCGGGACATGGCATCAACCTCGATGATGATA
1 GCCAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCT-GA-GATGATA
*
60581970 GCTAGTGTAAGACCATGT-TCGGGACATG
1 GCCAGTGTAAGA-CATGTCT-GGGACATG
60581998 GCATTGGCAA
Statistics
Matches: 206, Mismatches: 40, Indels: 32
0.74 0.14 0.12
Matches are distributed among these distances:
43 1 0.00
44 30 0.15
45 2 0.01
46 29 0.14
47 69 0.33
48 30 0.15
49 44 0.21
50 1 0.00
ACGTcount: A:0.29, C:0.20, G:0.27, T:0.24
Consensus pattern (45 bp):
GCCAGTGTAAGACATGTCTGGGACATGCATCGGCCTGAGATGATA
Found at i:60581901 original size:91 final size:94
Alignment explanation
Indices: 60581684--60581905 Score: 258
Period size: 95 Copynumber: 2.4 Consensus size: 94
60581674 TCGGATTACT
* * * *
60581684 TGTGTGCCAGTGTAAGACATGTCTGGGACATGCATCGACCATAATATGATAGCCAGTGTAAGACC
1 TGTGTGCTAGTGTAAGACATGTCTAGGACATGCATCGACCATAAGATGATAGCCAGTGTAAGAAC
* *
60581749 ATGTCTGGGACATGGCATCGGTGTAGAGAA
66 ATGTCTGGCACAT-GCATCGGTCTAGAGAA
* ** * *
60581779 TGAGTGCTAGTGTAAGACATGTCTAATACATGCATCGGCC-TCGACGATGATAGCCAGTGTAA-A
1 TGTGTGCTAGTGTAAGACATGTCTAGGACATGCATCGACCAT--AAGATGATAGCCAGTGTAAGA
*
60581842 ACATGTCTGGCACACT-CATCGG-CTA-AGAG
64 ACATGTCTGGCACA-TGCATCGGTCTAGAGAA
60581871 T-TGTGCTAGTGTAAGACATGTCTAGGACATGCATC
1 TGTGTGCTAGTGTAAGACATGTCTAGGACATGCATC
60581906 AGCGTATAGA
Statistics
Matches: 109, Mismatches: 15, Indels: 10
0.81 0.11 0.07
Matches are distributed among these distances:
91 31 0.28
92 4 0.04
93 2 0.02
94 7 0.06
95 47 0.43
96 18 0.17
ACGTcount: A:0.28, C:0.19, G:0.27, T:0.25
Consensus pattern (94 bp):
TGTGTGCTAGTGTAAGACATGTCTAGGACATGCATCGACCATAAGATGATAGCCAGTGTAAGAAC
ATGTCTGGCACATGCATCGGTCTAGAGAA
Found at i:60588945 original size:47 final size:47
Alignment explanation
Indices: 60588879--60589193 Score: 204
Period size: 47 Copynumber: 6.7 Consensus size: 47
60588869 TTACTTGTGT
*
60588879 GCCAATGTAAGACATGTCTGGGACATGCATCAGCCACA-ATATGATA
1 GCCAGTGTAAGACATGTCTGGGACATGCATCAGCCACAGATATGATA
* * * **
60588925 GCCAGTCTAAGACCATGTCTGGGACATGGCATC-GACGTAGAGA-ATGAGC
1 GCCAGTGTAAGA-CATGTCTGGGACAT-GCATCAG-C-CACAGATATGATA
* * * *
60588974 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCTC-GACGATGATA
1 GCCAGTGTAAGACATGTCTGGGACATGCATCAGCCACAGA-TATGATA
* * * *
60589021 GCCAGTGTAA-AGCGTGTCTGGGACACGCATCAGCTA-AGATTTG-T-
1 GCCAGTGTAAGA-CATGTCTGGGACATGCATCAGCCACAGATATGATA
* * * * *
60589065 GCTAGTGTAAGACATGTCTGGGACATGCATC-GTCACGTAGAGACGAGA
1 GCCAGTGTAAGACATGTCTGGGACATGCATCAGCCAC--AGATATGATA
* * * *
60589113 GCTAGTATAAGACCATGT-TCGGGACATGGCATTAGCCTC-GATGATGATA
1 GCCAGTGTAAGA-CATGTCT-GGGACAT-GCATCAGCCACAGAT-ATGATA
*
60589162 GCCAGTGTAAGACCATGTCCGGGA-ATGGCATC
1 GCCAGTGTAAGA-CATGTCTGGGACAT-GCATC
60589194 GGCAAAATAT
Statistics
Matches: 206, Mismatches: 41, Indels: 42
0.71 0.14 0.15
Matches are distributed among these distances:
43 2 0.01
44 26 0.13
45 4 0.02
46 17 0.08
47 55 0.27
48 42 0.20
49 52 0.25
50 5 0.02
51 3 0.01
ACGTcount: A:0.28, C:0.21, G:0.29, T:0.22
Consensus pattern (47 bp):
GCCAGTGTAAGACATGTCTGGGACATGCATCAGCCACAGATATGATA
Found at i:60590096 original size:55 final size:54
Alignment explanation
Indices: 60589982--60590096 Score: 133
Period size: 55 Copynumber: 2.1 Consensus size: 54
60589972 TCTACACGGG
* * * ** *
60589982 CGTGTGTCATGGTCGTGTTTTAAAGTTAGTGTTGTACATGGGCAGGCCATACGGG
1 CGTGTGTCATGGCCGTGTTTTAAAGTCAGTGTTGCACACAGGCAGGCCATA-GGA
*
60590037 CGTGTGTCATGGCCGTGTTTTAAAGTCAGTGTTGCACACAGGCTAAGGGCAT-GGA
1 CGTGTGTCATGGCCGTGTTTTAAAGTCAGTGTTGCACACAGGC--AGGCCATAGGA
60590092 CGTGT
1 CGTGT
60590097 CCCAAGCCAA
Statistics
Matches: 51, Mismatches: 7, Indels: 4
0.82 0.11 0.06
Matches are distributed among these distances:
55 45 0.88
57 6 0.12
ACGTcount: A:0.19, C:0.17, G:0.34, T:0.30
Consensus pattern (54 bp):
CGTGTGTCATGGCCGTGTTTTAAAGTCAGTGTTGCACACAGGCAGGCCATAGGA
Found at i:60596090 original size:39 final size:38
Alignment explanation
Indices: 60595959--60596145 Score: 169
Period size: 38 Copynumber: 4.8 Consensus size: 38
60595949 TGTTAAAGCG
* * * *
60595959 GCACGAAACCTACTAAGCATC-AAGCCCGATAAACACCG
1 GCACGAAGCCTACTAGGC-TCAAAGCCCAATAAACACCA
*
60595997 GAACGAAGCCTACTAGGCTCAAAGCCCAATAAACACCA
1 GCACGAAGCCTACTAGGCTCAAAGCCCAATAAACACCA
* * * *
60596035 GCACGAATCCTGCTAGGCTCAAAGCCCGATAAGTCACCA
1 GCACGAAGCCTACTAGGCTCAAAGCCCAATAA-ACACCA
* * **
60596074 GCATGAGGCCTACTAGGCTCAAAGCCCAATACAATACACTG
1 GCACGAAGCCTACTAGGCTCAAAGCCCAAT--AA-ACACCA
** * *
60596115 GCATAAAGCCTACTAGGCCCAAGGCCCAATA
1 GCACGAAGCCTACTAGGCTCAAAGCCCAATA
60596146 CAATACACCG
Statistics
Matches: 122, Mismatches: 23, Indels: 7
0.80 0.15 0.05
Matches are distributed among these distances:
37 2 0.02
38 58 0.48
39 31 0.25
41 31 0.25
ACGTcount: A:0.36, C:0.32, G:0.18, T:0.13
Consensus pattern (38 bp):
GCACGAAGCCTACTAGGCTCAAAGCCCAATAAACACCA
Found at i:60596161 original size:41 final size:41
Alignment explanation
Indices: 60596002--60596161 Score: 127
Period size: 41 Copynumber: 4.0 Consensus size: 41
60595992 CACCGGAACG
* **
60596002 AAGCCTACTAGGCTCAAAGCCCAAT--AA-ACACCAG-CACG
1 AAGCCTACTAGGCCCAAAGCCCAATACAATACACC-GCCATA
* * * * * *
60596040 AATCCTGCTAGGCTCAAAGCCCGATA-AGT-CACCAG-CATG
1 AAGCCTACTAGGCCCAAAGCCCAATACAATACACC-GCCATA
* * * *
60596079 AGGCCTACTAGGCTCAAAGCCCAATACAATACACTGGCATA
1 AAGCCTACTAGGCCCAAAGCCCAATACAATACACCGCCATA
*
60596120 AAGCCTACTAGGCCCAAGGCCCAATACAATACACCGCCATA
1 AAGCCTACTAGGCCCAAAGCCCAATACAATACACCGCCATA
60596161 A
1 A
60596162 CAACTCAGTT
Statistics
Matches: 100, Mismatches: 17, Indels: 7
0.81 0.14 0.06
Matches are distributed among these distances:
38 22 0.22
39 32 0.32
40 3 0.03
41 43 0.43
ACGTcount: A:0.36, C:0.33, G:0.17, T:0.14
Consensus pattern (41 bp):
AAGCCTACTAGGCCCAAAGCCCAATACAATACACCGCCATA
Found at i:60604369 original size:42 final size:42
Alignment explanation
Indices: 60604306--60604402 Score: 151
Period size: 42 Copynumber: 2.3 Consensus size: 42
60604296 TATGAAAGGA
* *
60604306 ACTTAGCGTGC-AAGATTATAATAGCTTTGGCTATGCTTTGGC
1 ACTTAGTGTGCGAA-ATTATAATAGCTTCGGCTATGCTTTGGC
*
60604348 ATTTAGTGTGCGAAATTATAATAGCTTCGGCTATGCTTTGGC
1 ACTTAGTGTGCGAAATTATAATAGCTTCGGCTATGCTTTGGC
60604390 ACTTAGTGTGCGA
1 ACTTAGTGTGCGA
60604403 GATATCGAGT
Statistics
Matches: 50, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
42 48 0.96
43 2 0.04
ACGTcount: A:0.24, C:0.15, G:0.25, T:0.36
Consensus pattern (42 bp):
ACTTAGTGTGCGAAATTATAATAGCTTCGGCTATGCTTTGGC
Found at i:60616566 original size:12 final size:12
Alignment explanation
Indices: 60616549--60616600 Score: 61
Period size: 12 Copynumber: 4.2 Consensus size: 12
60616539 AAACTTAATC
60616549 AATTTAATATTA
1 AATTTAATATTA
*
60616561 AATTTAATCTATA
1 AATTTAATAT-TA
60616574 AATATT-ATATTA
1 AAT-TTAATATTA
*
60616586 AACTTAATATTA
1 AATTTAATATTA
60616598 AAT
1 AAT
60616601 ATTATTAAAA
Statistics
Matches: 33, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
11 2 0.06
12 21 0.64
13 8 0.24
14 2 0.06
ACGTcount: A:0.50, C:0.04, G:0.00, T:0.46
Consensus pattern (12 bp):
AATTTAATATTA
Found at i:60616583 original size:25 final size:24
Alignment explanation
Indices: 60616555--60616605 Score: 75
Period size: 25 Copynumber: 2.1 Consensus size: 24
60616545 AATCAATTTA
* *
60616555 ATATTAAATTTAATCTATAAATATT
1 ATATTAAACTTAATAT-TAAATATT
60616580 ATATTAAACTTAATATTAAATATT
1 ATATTAAACTTAATATTAAATATT
60616604 AT
1 AT
60616606 TAAAATAATA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
24 10 0.42
25 14 0.58
ACGTcount: A:0.49, C:0.04, G:0.00, T:0.47
Consensus pattern (24 bp):
ATATTAAACTTAATATTAAATATT
Found at i:60617178 original size:15 final size:15
Alignment explanation
Indices: 60617158--60617187 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
60617148 AAATATCATA
60617158 TTAATTTTAATTGAT
1 TTAATTTTAATTGAT
*
60617173 TTAATTTTACTTGAT
1 TTAATTTTAATTGAT
60617188 CAAAATTAAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.30, C:0.03, G:0.07, T:0.60
Consensus pattern (15 bp):
TTAATTTTAATTGAT
Found at i:60619074 original size:16 final size:17
Alignment explanation
Indices: 60619043--60619075 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
60619033 TAAACACTTT
60619043 CAAAATACCTTAAACCC
1 CAAAATACCTTAAACCC
*
60619060 CAAAATTCC-TAAACCC
1 CAAAATACCTTAAACCC
60619076 TAACCTTAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 7 0.47
17 8 0.53
ACGTcount: A:0.45, C:0.36, G:0.00, T:0.18
Consensus pattern (17 bp):
CAAAATACCTTAAACCC
Found at i:60620127 original size:6 final size:6
Alignment explanation
Indices: 60620110--60620139 Score: 51
Period size: 6 Copynumber: 5.0 Consensus size: 6
60620100 CACCACCATC
*
60620110 ATCATG AGCATG ATCATG ATCATG ATCATG
1 ATCATG ATCATG ATCATG ATCATG ATCATG
60620140 GCCATGACCA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.33, C:0.17, G:0.20, T:0.30
Consensus pattern (6 bp):
ATCATG
Found at i:60620127 original size:12 final size:12
Alignment explanation
Indices: 60620110--60620152 Score: 52
Period size: 12 Copynumber: 3.6 Consensus size: 12
60620100 CACCACCATC
60620110 ATCATGAGCATG
1 ATCATGAGCATG
*
60620122 ATCATGATCATG
1 ATCATGAGCATG
60620134 ATCATG-GCCATG
1 ATCATGAG-CATG
*
60620146 ACCATGA
1 ATCATGA
60620153 CCATCACCAC
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
12 26 1.00
ACGTcount: A:0.33, C:0.21, G:0.21, T:0.26
Consensus pattern (12 bp):
ATCATGAGCATG
Found at i:60620145 original size:18 final size:18
Alignment explanation
Indices: 60620104--60620152 Score: 53
Period size: 18 Copynumber: 2.7 Consensus size: 18
60620094 CACGAACACC
*
60620104 ACCATCATCATGAGCATG
1 ACCATGATCATGAGCATG
* *
60620122 ATCATGATCATGATCATG
1 ACCATGATCATGAGCATG
* *
60620140 GCCATGACCATGA
1 ACCATGATCATGA
60620153 CCATCACCAC
Statistics
Matches: 25, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
18 25 1.00
ACGTcount: A:0.33, C:0.24, G:0.18, T:0.24
Consensus pattern (18 bp):
ACCATGATCATGAGCATG
Found at i:60627300 original size:3 final size:3
Alignment explanation
Indices: 60627292--60627324 Score: 66
Period size: 3 Copynumber: 11.0 Consensus size: 3
60627282 CATATTTGTC
60627292 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
60627325 AAGGCAAATT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:60630879 original size:28 final size:30
Alignment explanation
Indices: 60630825--60630885 Score: 81
Period size: 28 Copynumber: 2.1 Consensus size: 30
60630815 ATGCTTTAAT
**
60630825 TTTATATTGAAGTTTCTCACTTTATTTT-A
1 TTTATATTGAAGTTTCTCACTAAATTTTGA
*
60630854 TTTA-ATTGAAGTTTGTCACTAAATTTTGA
1 TTTATATTGAAGTTTCTCACTAAATTTTGA
60630883 TTT
1 TTT
60630886 TTTTTATTGA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
28 20 0.71
29 8 0.29
ACGTcount: A:0.26, C:0.08, G:0.10, T:0.56
Consensus pattern (30 bp):
TTTATATTGAAGTTTCTCACTAAATTTTGA
Found at i:60638692 original size:37 final size:37
Alignment explanation
Indices: 60638642--60638717 Score: 152
Period size: 37 Copynumber: 2.1 Consensus size: 37
60638632 AAAAAGTGTG
60638642 AACAACTCGAGTTGGATTTGAAAATTCACTTGTTCCA
1 AACAACTCGAGTTGGATTTGAAAATTCACTTGTTCCA
60638679 AACAACTCGAGTTGGATTTGAAAATTCACTTGTTCCA
1 AACAACTCGAGTTGGATTTGAAAATTCACTTGTTCCA
60638716 AA
1 AA
60638718 GGAATAAATT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 39 1.00
ACGTcount: A:0.34, C:0.18, G:0.16, T:0.32
Consensus pattern (37 bp):
AACAACTCGAGTTGGATTTGAAAATTCACTTGTTCCA
Found at i:60641338 original size:177 final size:176
Alignment explanation
Indices: 60641102--60641673 Score: 865
Period size: 177 Copynumber: 3.2 Consensus size: 176
60641092 GACAAAGCCA
* * ** * *
60641102 GTGGCTAAAATCTGCTCCATAACCGATACATGGAGATAAGACTCATCATCTTCGATCTGCTCCAC
1 GTGGCTAAAATCTACTCCATAGCCGATACATGGAGATAAGACTCGCCATTTTCGATCTGCTCCAT
*
60641167 AGCCGATACATGGAGATAAGATCTGTAATTTTTAGTCTGCTTCCTGCAACTTCAGGAAGATAAAA
66 AGCCGATACATGGAGATAAGATCTGTAATTTTTAGTCTGCTTCCTGCAACTTCAGGAAGATAAGA
* * **
60641232 CTTGCATCTTCAATCTGCTCTCTTGCTACCTCAGAGAGATAAGGTTG
131 CTTGCATATTGAGCCTGCTC-CTTGCTACCTCAGAGAGATAAGGTTG
* * *
60641279 GTGGCTAAAATCTGCTCCATAGCCAATACATGGAGATAAGACTCGCCATTTTTGATCTGCTCCAT
1 GTGGCTAAAATCTACTCCATAGCCGATACATGGAGATAAGACTCGCCATTTTCGATCTGCTCCAT
* * * *
60641344 AGCCGATACATGGAGATAAAATCTGTAATTTTTAGTCTGCTTCCTGCAACTTTAGGAAAATTAGA
66 AGCCGATACATGGAGATAAGATCTGTAATTTTTAGTCTGCTTCCTGCAACTTCAGGAAGATAAGA
* * * *
60641409 CTTGCATATTGAGCCTGCTCCACTGCAACTTCAGAGAGATAAGGCTG
131 CTTGCATATTGAGCCTGCTCC-TTGCTACCTCAGAGAGATAAGGTTG
*
60641456 GTGGCTAAAATCTACTCCATAGCCGATACATGGAGATAAGACTTGCCATTTTCGATCTGCTCCAT
1 GTGGCTAAAATCTACTCCATAGCCGATACATGGAGATAAGACTCGCCATTTTCGATCTGCTCCAT
* *
60641521 AGCCGATACATGGAGATAAGATCTGTAATTTTCAGTCTGCTTCCTGCAACTTCAAGAAGATAAGA
66 AGCCGATACATGGAGATAAGATCTGTAATTTTTAGTCTGCTTCCTGCAACTTCAGGAAGATAAGA
* *
60641586 CTTGCATATTGAGCCTGCTCCCTTGCTACCTTAGAGAGATATGGTTG
131 CTTGCATATTGAGCCTGCT-CCTTGCTACCTCAGAGAGATAAGGTTG
*
60641633 GTGACTAAAATCTACTCCATAGCCGATACATGGAGATAAGA
1 GTGGCTAAAATCTACTCCATAGCCGATACATGGAGATAAGA
60641674 TCTGTAATTT
Statistics
Matches: 356, Mismatches: 37, Indels: 4
0.90 0.09 0.01
Matches are distributed among these distances:
176 1 0.00
177 353 0.99
178 2 0.01
ACGTcount: A:0.29, C:0.22, G:0.20, T:0.29
Consensus pattern (176 bp):
GTGGCTAAAATCTACTCCATAGCCGATACATGGAGATAAGACTCGCCATTTTCGATCTGCTCCAT
AGCCGATACATGGAGATAAGATCTGTAATTTTTAGTCTGCTTCCTGCAACTTCAGGAAGATAAGA
CTTGCATATTGAGCCTGCTCCTTGCTACCTCAGAGAGATAAGGTTG
Found at i:60641375 original size:45 final size:44
Alignment explanation
Indices: 60641288--60641384 Score: 124
Period size: 45 Copynumber: 2.2 Consensus size: 44
60641278 GGTGGCTAAA
* *
60641288 ATCTGCTCCATAGCCAATACATGGAGATAAGACTCGCCATTTTT
1 ATCTGCTCCATAGCCAATACATGGAGATAAAACTCGCAATTTTT
* *
60641332 GATCTGCTCCATAGCCGATACATGGAGATAAAA-TCTGTAATTTTT
1 -ATCTGCTCCATAGCCAATACATGGAGATAAAACTC-GCAATTTTT
60641377 AGTCTGCT
1 A-TCTGCT
60641385 TCCTGCAACT
Statistics
Matches: 46, Mismatches: 4, Indels: 4
0.85 0.07 0.07
Matches are distributed among these distances:
44 3 0.07
45 43 0.93
ACGTcount: A:0.29, C:0.22, G:0.18, T:0.32
Consensus pattern (44 bp):
ATCTGCTCCATAGCCAATACATGGAGATAAAACTCGCAATTTTT
Found at i:60641552 original size:45 final size:44
Alignment explanation
Indices: 60641465--60641561 Score: 133
Period size: 45 Copynumber: 2.2 Consensus size: 44
60641455 GGTGGCTAAA
* *
60641465 ATCTACTCCATAGCCGATACATGGAGATAAGACTTGCCATTTTC
1 ATCTGCTCCATAGCCGATACATGGAGATAAGACTTGCAATTTTC
*
60641509 GATCTGCTCCATAGCCGATACATGGAGATAAGA-TCTGTAATTTTC
1 -ATCTGCTCCATAGCCGATACATGGAGATAAGACT-TGCAATTTTC
60641554 AGTCTGCT
1 A-TCTGCT
60641562 TCCTGCAACT
Statistics
Matches: 47, Mismatches: 3, Indels: 4
0.87 0.06 0.07
Matches are distributed among these distances:
44 2 0.04
45 45 0.96
ACGTcount: A:0.28, C:0.23, G:0.19, T:0.31
Consensus pattern (44 bp):
ATCTGCTCCATAGCCGATACATGGAGATAAGACTTGCAATTTTC
Found at i:60641687 original size:309 final size:310
Alignment explanation
Indices: 60641333--60641899 Score: 750
Period size: 309 Copynumber: 1.8 Consensus size: 310
60641323 GCCATTTTTG
* * *
60641333 ATCTGCTCCATAGCCGATACATGGAGATAAAATCTGTAATTTTTAGTCTGCTT-CC-TGCAACTT
1 ATCTACTCCATAGCCGATACATGGAGATAAAATCTGTAATTTTTAGCCTG-TTACCATACAACTT
* * * * * * * * *
60641396 TAGGAAAATT-AGACTTGCATATTGAGCCTGCTC-CACTGCAACTTCAGAGAGATAAGGCTGGTG
65 AAGG--AATTAAGACTCGCATATTCAACCTGCTCTC-CTACAACCTCAAAGAGATAAGACCGGTG
*
60641459 GCTAAAATCTACTCCATAGCCGATACATGGAGATAAGACTTGCCATTT-TCGATCTGCTCCATAG
127 GCTAAAATCTACTCCATAGCCGATACATGGAGATAAGACTCGCCATTTCT-GATCTGCTCCATAG
* * *
60641523 CCGATACATGGAGATAAGATCTGTAATTTTCAGTCTGCTTCC-TGCAACTTCAAGAAGATAAGAC
191 CCGATACATGAAGATAAGATCTGTAATTTTCAGTCTACTTCCTTGCAACCTCAAGAAGATAAGAC
60641587 TTGCATATTGAGCCTGCTCCCTTGCTACCTTAGAGAGATATGGTTGGTGACTAAA
256 TTGCATATTGAGCCTGCTCCCTTGCTACCTTAGAGAGATATGGTTGGTGACTAAA
* **
60641642 ATCTACTCCATAGCCGATACATGGAGATAAGATCTGTAATTTTTAGCCTGTTACCATACTGCTTA
1 ATCTACTCCATAGCCGATACATGGAGATAAAATCTGTAATTTTTAGCCTGTTACCATACAACTTA
** * * * * * * *
60641707 AGGGGTTAAGGCTCGTATCTTCAACGTGCTCTCTTACTACCTCAAAGAGATAAGACCGGTGGTTA
66 AGGAATTAAGACTCGCATATTCAACCTGCTCTCCTACAACCTCAAAGAGATAAGACCGGTGGCTA
* **
60641772 AGATCTGTTCCATAGCCGATACATGGAGATAAGACTCGCCATTTCTGATCTGCTCCATAGCCGAT
131 AAATCTACTCCATAGCCGATACATGGAGATAAGACTCGCCATTTCTGATCTGCTCCATAGCCGAT
* *
60641837 ACATGAAGATAAGATCTGTAATTTTCAGTCTACTTCCTTGCTACCTCAGGAAGATAAGACTTG
196 ACATGAAGATAAGATCTGTAATTTTCAGTCTACTTCCTTGCAACCTCAAGAAGATAAGACTTG
60641900 TGAATTCACC
Statistics
Matches: 219, Mismatches: 33, Indels: 11
0.83 0.13 0.04
Matches are distributed among these distances:
308 4 0.02
309 183 0.84
310 32 0.15
ACGTcount: A:0.29, C:0.22, G:0.20, T:0.30
Consensus pattern (310 bp):
ATCTACTCCATAGCCGATACATGGAGATAAAATCTGTAATTTTTAGCCTGTTACCATACAACTTA
AGGAATTAAGACTCGCATATTCAACCTGCTCTCCTACAACCTCAAAGAGATAAGACCGGTGGCTA
AAATCTACTCCATAGCCGATACATGGAGATAAGACTCGCCATTTCTGATCTGCTCCATAGCCGAT
ACATGAAGATAAGATCTGTAATTTTCAGTCTACTTCCTTGCAACCTCAAGAAGATAAGACTTGCA
TATTGAGCCTGCTCCCTTGCTACCTTAGAGAGATATGGTTGGTGACTAAA
Found at i:60641756 original size:132 final size:132
Alignment explanation
Indices: 60641510--60641805 Score: 308
Period size: 132 Copynumber: 2.2 Consensus size: 132
60641500 GCCATTTTCG
* *
60641510 ATCTGCTCCATAGCCGATACATGGAGATAAGATCTGTAATTTTCAGTCTGCTTCCTGCAACTTCA
1 ATCTGCTCCATAGCCGATACATGGAGATAAGATCTGTAATTTTCAGCCTGCTTCCTACAACTTCA
* * * * * * * ***
60641575 AGAAGATAAGACTTGCATATTGAGCCTGCTCCCTTGCTACCTTAGAGAGATATGGTTGGTGACTA
66 AGAAGATAAGACTCGCATATTCAACCTGCTCCCTTACTACCTCAAAGAGATAAGACCGGTGACTA
60641640 AA
131 AA
* * **
60641642 ATCTACTCCATAGCCGATACATGGAGATAAGATCTGTAATTTTTAGCCTG-TTACCATACTGCTT
1 ATCTGCTCCATAGCCGATACATGGAGATAAGATCTGTAATTTTCAGCCTGCTT-CC-TACAACTT
** * * * * * * **
60641706 -AAGGGGTTAAGGCTCGTATCTTCAACGTGCTCTCTTACTACCTCAAAGAGATAAGACCGGTGGT
64 CAAGAAGATAAGACTCGCATATTCAACCTGCTCCCTTACTACCTCAAAGAGATAAGACCGGTGAC
*
60641770 TAAG
129 TAAA
*
60641774 ATCTGTTCCATAGCCGATACATGGAGATAAGA
1 ATCTGCTCCATAGCCGATACATGGAGATAAGA
60641806 CTCGCCATTT
Statistics
Matches: 133, Mismatches: 29, Indels: 4
0.80 0.17 0.02
Matches are distributed among these distances:
131 2 0.02
132 126 0.95
133 5 0.04
ACGTcount: A:0.29, C:0.21, G:0.21, T:0.30
Consensus pattern (132 bp):
ATCTGCTCCATAGCCGATACATGGAGATAAGATCTGTAATTTTCAGCCTGCTTCCTACAACTTCA
AGAAGATAAGACTCGCATATTCAACCTGCTCCCTTACTACCTCAAAGAGATAAGACCGGTGACTA
AA
Found at i:60653826 original size:17 final size:17
Alignment explanation
Indices: 60653800--60653833 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
60653790 AGAAATTTCT
*
60653800 CCCTTTCTACTCTGCTA
1 CCCTTCCTACTCTGCTA
60653817 CCCTTCCTACTCTGCTA
1 CCCTTCCTACTCTGCTA
60653834 GGGCGCAAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.12, C:0.44, G:0.06, T:0.38
Consensus pattern (17 bp):
CCCTTCCTACTCTGCTA
Found at i:60656440 original size:14 final size:14
Alignment explanation
Indices: 60656421--60656449 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
60656411 TGAAACAAAC
60656421 TTTGTAATATAAAT
1 TTTGTAATATAAAT
60656435 TTTGTAATATAAAT
1 TTTGTAATATAAAT
60656449 T
1 T
60656450 AAATATATTA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.41, C:0.00, G:0.07, T:0.52
Consensus pattern (14 bp):
TTTGTAATATAAAT
Found at i:60657590 original size:18 final size:18
Alignment explanation
Indices: 60657567--60657603 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
60657557 AATAATGTGG
* *
60657567 TGTTTTAGTATATTTTAA
1 TGTTTTAATATATTGTAA
60657585 TGTTTTAATATATTGTAA
1 TGTTTTAATATATTGTAA
60657603 T
1 T
60657604 AAATTTTTTA
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:0.30, C:0.00, G:0.11, T:0.59
Consensus pattern (18 bp):
TGTTTTAATATATTGTAA
Found at i:60657893 original size:42 final size:42
Alignment explanation
Indices: 60657844--60658009 Score: 147
Period size: 43 Copynumber: 3.7 Consensus size: 42
60657834 TCCGAACCCA
60657844 TTGAGAGGTCCGAGTTCATTATGGATGCGAGCATTTGAGTCT
1 TTGAGAGGTCCGAGTTCATTATGGATGCGAGCATTTGAGTCT
* *
60657886 TTAAGAGGTCCGAGTTCA-TAGTGGATGCGATTCATGTAACATCCGAG-CTT
1 TTGAGAGGTCCGAGTTCATTA-TGGATGCGA-GCAT-T----T--GAGTC-T
* * *
60657936 GTTGAGAGGCCCGAGTTCATTATGGATGCGAGCATTCGAGCTCG
1 -TTGAGAGGTCCGAGTTCATTATGGATGCGAGCATTTGAG-TCT
* *
60657980 TTGAGAGGTCCGAGTTTATAATGGATGCGA
1 TTGAGAGGTCCGAGTTCATTATGGATGCGA
60658010 TTCACGTAAC
Statistics
Matches: 100, Mismatches: 10, Indels: 27
0.73 0.07 0.20
Matches are distributed among these distances:
41 2 0.02
42 26 0.26
43 33 0.33
44 1 0.01
45 1 0.01
48 1 0.01
49 2 0.02
50 7 0.07
51 25 0.25
52 2 0.02
ACGTcount: A:0.23, C:0.16, G:0.31, T:0.30
Consensus pattern (42 bp):
TTGAGAGGTCCGAGTTCATTATGGATGCGAGCATTTGAGTCT
Found at i:60657965 original size:51 final size:50
Alignment explanation
Indices: 60657889--60658057 Score: 201
Period size: 51 Copynumber: 3.5 Consensus size: 50
60657879 TGAGTCTTTA
*
60657889 AGAGGTCCGAGTTCA-TAGTGGATGCGATTCATGTAACATCCGAGCTTGTTG
1 AGAGGTCCGAGTTCATTA-TGGATGCGATTCA-GTAACATCCGAGCTCGTTG
* *
60657940 AGAGGCCCGAGTTCATTATGGATGCG----AG---CATTCGAGCTCGTTG
1 AGAGGTCCGAGTTCATTATGGATGCGATTCAGTAACATCCGAGCTCGTTG
* * *
60657983 AGAGGTCCGAGTTTATAATGGATGCGATTCACGTAACATCCGAGCTCATTG
1 AGAGGTCCGAGTTCATTATGGATGCGATTCA-GTAACATCCGAGCTCGTTG
60658034 AGAGGTCCGAGTTCATTATGGATG
1 AGAGGTCCGAGTTCATTATGGATG
60658058 TCTTACATGT
Statistics
Matches: 99, Mismatches: 10, Indels: 18
0.78 0.08 0.14
Matches are distributed among these distances:
43 36 0.36
46 1 0.01
47 2 0.02
48 1 0.01
51 57 0.58
52 2 0.02
ACGTcount: A:0.24, C:0.18, G:0.30, T:0.28
Consensus pattern (50 bp):
AGAGGTCCGAGTTCATTATGGATGCGATTCAGTAACATCCGAGCTCGTTG
Found at i:60657993 original size:43 final size:46
Alignment explanation
Indices: 60657844--60658057 Score: 174
Period size: 51 Copynumber: 4.6 Consensus size: 46
60657834 TCCGAACCCA
** *
60657844 TTGAGAGGTCCGAGTTCATTATGGATGCG-A-G-CATTTGAG-TCT
1 TTGAGAGGTCCGAGTTCATTATGGATGCGTACGACATCCGAGCTCG
* * *
60657886 TTAAGAGGTCCGAGTTCA-TAGTGGATGCGATTCATGTAACATCCGAGCTTG
1 TTGAGAGGTCCGAGTTCATTA-TGGATGCG--T-ACG--ACATCCGAGCTCG
* *
60657937 TTGAGAGGCCCGAGTTCATTATGGATGCG-A-G-CATTCGAGCTCG
1 TTGAGAGGTCCGAGTTCATTATGGATGCGTACGACATCCGAGCTCG
* * *
60657980 TTGAGAGGTCCGAGTTTATAATGGATGCGATTCACGTAACATCCGAGCTCA
1 TTGAGAGGTCCGAGTTCATTATGGATGCG--T-ACG--ACATCCGAGCTCG
60658031 TTGAGAGGTCCGAGTTCATTATGGATG
1 TTGAGAGGTCCGAGTTCATTATGGATG
60658058 TCTTACATGT
Statistics
Matches: 137, Mismatches: 16, Indels: 29
0.75 0.09 0.16
Matches are distributed among these distances:
41 2 0.01
42 25 0.18
43 36 0.26
46 2 0.01
47 3 0.02
48 1 0.01
50 6 0.04
51 60 0.44
52 2 0.01
ACGTcount: A:0.24, C:0.17, G:0.29, T:0.29
Consensus pattern (46 bp):
TTGAGAGGTCCGAGTTCATTATGGATGCGTACGACATCCGAGCTCG
Found at i:60658024 original size:94 final size:93
Alignment explanation
Indices: 60657832--60658057 Score: 344
Period size: 94 Copynumber: 2.4 Consensus size: 93
60657822 AGATATGTGG
* * * *
60657832 CATCCGAACCCATTGAGAGGTCCGAGTTCATTATGGATGCGAGCATTTGAGTCTTTAAGAGGTCC
1 CATCCGAGCTCATTGAGAGGTCCGAGTTCATTATGGATGCGAGCATTCGAGTCGTTAAGAGGTCC
* *
60657897 GAGTTCATAGTGGATGCGATTCATGTAA
66 GAGTTCATAATGGATGCGATTCACGTAA
** * *
60657925 CATCCGAGCTTGTTGAGAGGCCCGAGTTCATTATGGATGCGAGCATTCGAGCTCGTTGAGAGGTC
1 CATCCGAGCTCATTGAGAGGTCCGAGTTCATTATGGATGCGAGCATTCGAG-TCGTTAAGAGGTC
*
60657990 CGAGTTTATAATGGATGCGATTCACGTAA
65 CGAGTTCATAATGGATGCGATTCACGTAA
60658019 CATCCGAGCTCATTGAGAGGTCCGAGTTCATTATGGATG
1 CATCCGAGCTCATTGAGAGGTCCGAGTTCATTATGGATG
60658058 TCTTACATGT
Statistics
Matches: 118, Mismatches: 14, Indels: 1
0.89 0.11 0.01
Matches are distributed among these distances:
93 45 0.38
94 73 0.62
ACGTcount: A:0.24, C:0.19, G:0.28, T:0.28
Consensus pattern (93 bp):
CATCCGAGCTCATTGAGAGGTCCGAGTTCATTATGGATGCGAGCATTCGAGTCGTTAAGAGGTCC
GAGTTCATAATGGATGCGATTCACGTAA
Found at i:60662982 original size:26 final size:26
Alignment explanation
Indices: 60662946--60663022 Score: 77
Period size: 27 Copynumber: 3.0 Consensus size: 26
60662936 AATGGGACTG
* *
60662946 GTGCCACCTATTAGATAAGGTCACCA
1 GTGCCGCCTATCAGATAAGGTCACCA
* *
60662972 GTGCCGCCTATCAGATAGGGGTCACTA
1 GTGCCGCCTATCAGATA-AGGTCACCA
**
60662999 GTGTTGCCTATCAGAT-AGG-CACCA
1 GTGCCGCCTATCAGATAAGGTCACCA
60663023 TACCTACCAT
Statistics
Matches: 42, Mismatches: 8, Indels: 4
0.78 0.15 0.07
Matches are distributed among these distances:
24 4 0.10
25 2 0.05
26 15 0.36
27 21 0.50
ACGTcount: A:0.26, C:0.26, G:0.25, T:0.23
Consensus pattern (26 bp):
GTGCCGCCTATCAGATAAGGTCACCA
Found at i:60670312 original size:26 final size:25
Alignment explanation
Indices: 60670283--60670353 Score: 72
Period size: 26 Copynumber: 2.7 Consensus size: 25
60670273 TATTTTAAAT
60670283 TTTTATTCTAATTTAGTATATT-GGTA
1 TTTTATT-TAATTTAGTAT-TTAGGTA
* * *
60670309 TTTTTTATTAATTTAGTATTTAAGTTT
1 TTTTAT-TTAATTTAGTATTT-AGGTA
60670336 TTTTATTTAATTTAGTAT
1 TTTTATTTAATTTAGTAT
60670354 CTAAACTTAT
Statistics
Matches: 38, Mismatches: 4, Indels: 6
0.79 0.08 0.12
Matches are distributed among these distances:
25 2 0.05
26 28 0.74
27 8 0.21
ACGTcount: A:0.27, C:0.01, G:0.08, T:0.63
Consensus pattern (25 bp):
TTTTATTTAATTTAGTATTTAGGTA
Found at i:60674419 original size:41 final size:42
Alignment explanation
Indices: 60674368--60674448 Score: 103
Period size: 41 Copynumber: 2.0 Consensus size: 42
60674358 AGTTCTTATT
***
60674368 TTTTTCAATTTTTTAAAAAAATATATTTTT-AAACTTTTATGA
1 TTTTTCAATTTGAAAAAAAAATA-ATTTTTGAAACTTTTATGA
*
60674410 TTTTT-AATTTGAAAAAAAAATAATTTTTGATACTTTTAT
1 TTTTTCAATTTGAAAAAAAAATAATTTTTGAAACTTTTAT
60674449 TTGTATTTTT
Statistics
Matches: 34, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
40 6 0.18
41 23 0.68
42 5 0.15
ACGTcount: A:0.40, C:0.04, G:0.04, T:0.53
Consensus pattern (42 bp):
TTTTTCAATTTGAAAAAAAAATAATTTTTGAAACTTTTATGA
Found at i:60675373 original size:32 final size:33
Alignment explanation
Indices: 60675299--60675363 Score: 123
Period size: 33 Copynumber: 2.0 Consensus size: 33
60675289 GTGGCCGACA
60675299 CCACTTTTTGATTTTAAAACAAAAAAAAATGGT
1 CCACTTTTTGATTTTAAAACAAAAAAAAATGGT
60675332 CCACTTTTTGATTTTAAAAC-AAAAAAAATGGT
1 CCACTTTTTGATTTTAAAACAAAAAAAAATGGT
60675364 TTTGTTTTTG
Statistics
Matches: 32, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
32 12 0.38
33 20 0.62
ACGTcount: A:0.45, C:0.12, G:0.09, T:0.34
Consensus pattern (33 bp):
CCACTTTTTGATTTTAAAACAAAAAAAAATGGT
Found at i:60675411 original size:48 final size:48
Alignment explanation
Indices: 60675352--60675454 Score: 152
Period size: 48 Copynumber: 2.1 Consensus size: 48
60675342 ATTTTAAAAC
** * *
60675352 AAAAAAAATGGTTTTGTTTTTGTGGTGGCAAACACCATTTTTTTATTT
1 AAAAAAAATGGTTTTGGCTTTGTGGTGGCAAACACAACTTTTTTATTT
**
60675400 AAAAAAAATGGTTTTGGCTTTGTGGTGGCCGACACAACTTTTTTATTT
1 AAAAAAAATGGTTTTGGCTTTGTGGTGGCAAACACAACTTTTTTATTT
60675448 AAAAAAA
1 AAAAAAA
60675455 TATTTTTTTT
Statistics
Matches: 49, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
48 49 1.00
ACGTcount: A:0.33, C:0.10, G:0.17, T:0.40
Consensus pattern (48 bp):
AAAAAAAATGGTTTTGGCTTTGTGGTGGCAAACACAACTTTTTTATTT
Found at i:60676385 original size:16 final size:14
Alignment explanation
Indices: 60676357--60676406 Score: 50
Period size: 13 Copynumber: 3.6 Consensus size: 14
60676347 TCCTTCCTTC
60676357 CTTTTTTTTTTGTT
1 CTTTTTTTTTTGTT
*
60676371 C-TTTCTTTTTGTT
1 CTTTTTTTTTTGTT
*
60676384 GTTTTTATTTTT-TT
1 CTTTTT-TTTTTGTT
60676398 CATTTTTTT
1 C-TTTTTTT
60676407 CGTTTTGATT
Statistics
Matches: 29, Mismatches: 4, Indels: 6
0.74 0.10 0.15
Matches are distributed among these distances:
13 11 0.38
14 8 0.28
15 10 0.34
ACGTcount: A:0.04, C:0.08, G:0.06, T:0.82
Consensus pattern (14 bp):
CTTTTTTTTTTGTT
Found at i:60676403 original size:24 final size:23
Alignment explanation
Indices: 60676372--60676421 Score: 57
Period size: 24 Copynumber: 2.1 Consensus size: 23
60676362 TTTTTTGTTC
* *
60676372 TTTCTTTTTGTT-GTTTTTATTTT
1 TTTCTTTTT-TTCGTTTTGATTAT
60676395 TTTCATTTTTTTCGTTTTGATTAT
1 TTTC-TTTTTTTCGTTTTGATTAT
60676419 TTT
1 TTT
60676422 GTTAACCGGA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
23 6 0.26
24 17 0.74
ACGTcount: A:0.08, C:0.06, G:0.08, T:0.78
Consensus pattern (23 bp):
TTTCTTTTTTTCGTTTTGATTAT
Found at i:60685978 original size:43 final size:43
Alignment explanation
Indices: 60685925--60686009 Score: 134
Period size: 43 Copynumber: 2.0 Consensus size: 43
60685915 CTAAGAAAGT
* *
60685925 AAAAAAAATTGATTATATATTAATGAAAAGCATCAATATTTTC
1 AAAAAAAATTGATTATATATTAATAAAAAACATCAATATTTTC
* *
60685968 AAAACAAATTGATTATATATTAATAAAAAATATCAATATTTT
1 AAAAAAAATTGATTATATATTAATAAAAAACATCAATATTTT
60686010 GATTTACATT
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
43 38 1.00
ACGTcount: A:0.53, C:0.06, G:0.05, T:0.36
Consensus pattern (43 bp):
AAAAAAAATTGATTATATATTAATAAAAAACATCAATATTTTC
Found at i:60687912 original size:30 final size:30
Alignment explanation
Indices: 60687876--60687938 Score: 108
Period size: 30 Copynumber: 2.1 Consensus size: 30
60687866 ACTTAACAAG
60687876 CAAATGTCTCTAAAATAATAACAAAATTAA
1 CAAATGTCTCTAAAATAATAACAAAATTAA
* *
60687906 CAAATGTCTTTAAAATATTAACAAAATTAA
1 CAAATGTCTCTAAAATAATAACAAAATTAA
60687936 CAA
1 CAA
60687939 TAAAATAAGT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.56, C:0.13, G:0.03, T:0.29
Consensus pattern (30 bp):
CAAATGTCTCTAAAATAATAACAAAATTAA
Found at i:60689128 original size:23 final size:23
Alignment explanation
Indices: 60689108--60689175 Score: 73
Period size: 23 Copynumber: 3.0 Consensus size: 23
60689098 TGTGTTGTCT
* *
60689108 CACTGTTGTTTTTAATATTGTTC
1 CACTATTGCTTTTAATATTGTTC
* * *
60689131 CACTATTGCTTTTAATGTTATTT
1 CACTATTGCTTTTAATATTGTTC
**
60689154 CACTACCGCTTTTAATATTGTT
1 CACTATTGCTTTTAATATTGTT
60689176 TGGATATAGT
Statistics
Matches: 36, Mismatches: 9, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
23 36 1.00
ACGTcount: A:0.21, C:0.16, G:0.10, T:0.53
Consensus pattern (23 bp):
CACTATTGCTTTTAATATTGTTC
Found at i:60692769 original size:18 final size:18
Alignment explanation
Indices: 60692746--60692793 Score: 78
Period size: 18 Copynumber: 2.7 Consensus size: 18
60692736 GAAATGTGAG
* *
60692746 AAATGATGTTCGCATTTT
1 AAATGATGTTCACATTTC
60692764 AAATGATGTTCACATTTC
1 AAATGATGTTCACATTTC
60692782 AAATGATGTTCA
1 AAATGATGTTCA
60692794 AATTGATGGA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
18 28 1.00
ACGTcount: A:0.33, C:0.12, G:0.15, T:0.40
Consensus pattern (18 bp):
AAATGATGTTCACATTTC
Found at i:60695874 original size:49 final size:49
Alignment explanation
Indices: 60695620--60695966 Score: 553
Period size: 47 Copynumber: 7.0 Consensus size: 49
60695610 GTGAACATGC
* *
60695620 ATATATGAGATAAGGCCTAATGGCCGATGTGATGAGTGTGAAAGTG--T
1 ATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTAT
60695667 ATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--T
1 ATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTAT
*
60695714 ATACATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--T
1 ATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTAT
60695761 ATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGT
1 ATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG------TA--T
60695818 ATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTAT
1 ATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTAT
60695867 ATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTAT
1 ATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTAT
60695916 ATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTAT
1 ATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTAT
60695965 AT
1 AT
60695967 CACGTGATGA
Statistics
Matches: 286, Mismatches: 4, Indels: 18
0.93 0.01 0.06
Matches are distributed among these distances:
47 136 0.48
49 101 0.35
51 2 0.01
57 47 0.16
ACGTcount: A:0.33, C:0.08, G:0.29, T:0.30
Consensus pattern (49 bp):
ATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTAT
Found at i:60696018 original size:122 final size:121
Alignment explanation
Indices: 60695846--60696085 Score: 410
Period size: 120 Copynumber: 2.0 Consensus size: 121
60695836 AATGGCCGAT
60695846 GTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAG
1 GTGATGAATGTGAAAGTG-ATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAG
* * *
60695911 TGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATCAC
65 TG--TATATATGTGATAAGGCCTAATAGCCAACGTGATGAATGTGAAAGTGTATATCAC
60695970 GTGATGAATGTGAAAGTG-TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGT
1 GTGATGAATGTGAAAGTGATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGT
*
60696034 GTATATATGTGATAAGGCCTAATAGCCAACGTGATGGATGTGAAAGTGTATA
66 GTATATATGTGATAAGGCCTAATAGCCAACGTGATGAATGTGAAAGTGTATA
60696086 AATGTGATAA
Statistics
Matches: 112, Mismatches: 4, Indels: 4
0.93 0.03 0.03
Matches are distributed among these distances:
120 47 0.42
122 47 0.42
124 18 0.16
ACGTcount: A:0.33, C:0.08, G:0.29, T:0.30
Consensus pattern (121 bp):
GTGATGAATGTGAAAGTGATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGT
GTATATATGTGATAAGGCCTAATAGCCAACGTGATGAATGTGAAAGTGTATATCAC
Found at i:60696023 original size:47 final size:47
Alignment explanation
Indices: 60695968--60696096 Score: 213
Period size: 47 Copynumber: 2.7 Consensus size: 47
60695958 AGTGTATATC
* *
60695968 ACGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ACGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCA
*
60696015 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCA
1 ACGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCA
* *
60696062 ACGTGATGGATGTGAAAGTGTATAAATGTGATAAG
1 ACGTGATGAATGTGAAAGTGTATATATGTGATAAG
60696097 TCCCGAAGGG
Statistics
Matches: 76, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
47 76 1.00
ACGTcount: A:0.35, C:0.08, G:0.29, T:0.29
Consensus pattern (47 bp):
ACGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCA
Found at i:60696041 original size:75 final size:74
Alignment explanation
Indices: 60695895--60696039 Score: 274
Period size: 73 Copynumber: 2.0 Consensus size: 74
60695885 AATGGCCGAT
60695895 GTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAG
1 GTGATGAATGTGAAAGTG-ATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAG
60695960 TGTATATCAC
65 TGTATATCAC
60695970 GTGATGAATGTGAAAGTG-TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGT
1 GTGATGAATGTGAAAGTGATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGT
60696034 GTATAT
66 GTATAT
60696040 ATGTGATAAG
Statistics
Matches: 70, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
73 52 0.74
75 18 0.26
ACGTcount: A:0.33, C:0.07, G:0.29, T:0.31
Consensus pattern (74 bp):
GTGATGAATGTGAAAGTGATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGT
GTATATCAC
Found at i:60696271 original size:37 final size:37
Alignment explanation
Indices: 60696215--60696293 Score: 113
Period size: 37 Copynumber: 2.1 Consensus size: 37
60696205 CCGAGCTCTA
* * *
60696215 AAGACCCGATGACTACGTGTGGGGATTTTGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
* *
60696252 AAGATCCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
60696289 AAGAC
1 AAGAC
60696294 TTCGTAATAA
Statistics
Matches: 36, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
37 36 1.00
ACGTcount: A:0.24, C:0.18, G:0.32, T:0.27
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
Found at i:60699435 original size:13 final size:13
Alignment explanation
Indices: 60699417--60699451 Score: 61
Period size: 13 Copynumber: 2.7 Consensus size: 13
60699407 CTTAAAATTT
*
60699417 TCAAAAGTACTTC
1 TCAAAAGCACTTC
60699430 TCAAAAGCACTTC
1 TCAAAAGCACTTC
60699443 TCAAAAGCA
1 TCAAAAGCA
60699452 TTGCCAAACT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 21 1.00
ACGTcount: A:0.43, C:0.26, G:0.09, T:0.23
Consensus pattern (13 bp):
TCAAAAGCACTTC
Found at i:60700159 original size:21 final size:21
Alignment explanation
Indices: 60700135--60700175 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
60700125 GAACCAAACC
*
60700135 CTAAAACAACCTAAACCGACA
1 CTAAAACAACCTAAAACGACA
* *
60700156 CTAATACAATCTAAAACGAC
1 CTAAAACAACCTAAAACGAC
60700176 CCAAACCAAA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.51, C:0.29, G:0.05, T:0.15
Consensus pattern (21 bp):
CTAAAACAACCTAAAACGACA
Found at i:60701372 original size:14 final size:14
Alignment explanation
Indices: 60701353--60701419 Score: 62
Period size: 14 Copynumber: 4.7 Consensus size: 14
60701343 GTTTGCAGGT
*
60701353 AAAATGTTTTCCGG
1 AAAATGATTTCCGG
*
60701367 AAAATGATTTCTGG
1 AAAATGATTTCCGG
* * *
60701381 AAAATAATTTCTTGA
1 AAAATGATTTC-CGG
* *
60701396 AAAATAATTTCTGG
1 AAAATGATTTCCGG
60701410 AAAATGATTT
1 AAAATGATTT
60701420 ACTTTTCTGG
Statistics
Matches: 46, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
14 33 0.72
15 13 0.28
ACGTcount: A:0.40, C:0.07, G:0.15, T:0.37
Consensus pattern (14 bp):
AAAATGATTTCCGG
Found at i:60701401 original size:15 final size:15
Alignment explanation
Indices: 60701367--60701413 Score: 60
Period size: 15 Copynumber: 3.2 Consensus size: 15
60701357 TGTTTTCCGG
* *
60701367 AAAATGATTTC-TGG
1 AAAATAATTTCTTGA
60701381 AAAATAATTTCTTGA
1 AAAATAATTTCTTGA
*
60701396 AAAATAATTTCTGGA
1 AAAATAATTTCTTGA
60701411 AAA
1 AAA
60701414 TGATTTACTT
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
14 10 0.34
15 19 0.66
ACGTcount: A:0.47, C:0.06, G:0.13, T:0.34
Consensus pattern (15 bp):
AAAATAATTTCTTGA
Found at i:60706671 original size:2 final size:2
Alignment explanation
Indices: 60706664--60706701 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
60706654 TTCCTGCAGT
60706664 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
60706702 TGTGTGTGTG
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
AG
Found at i:60708937 original size:20 final size:20
Alignment explanation
Indices: 60708891--60708938 Score: 69
Period size: 20 Copynumber: 2.4 Consensus size: 20
60708881 CAGTAGTCCA
*
60708891 ACCGGTACCATAAAACCGAC
1 ACCGGTTCCATAAAACCGAC
**
60708911 AGTGGTTCCATAAAACCGAC
1 ACCGGTTCCATAAAACCGAC
60708931 ACCGGTTC
1 ACCGGTTC
60708939 AACTAGTAAA
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.33, C:0.31, G:0.19, T:0.17
Consensus pattern (20 bp):
ACCGGTTCCATAAAACCGAC
Found at i:60712221 original size:22 final size:22
Alignment explanation
Indices: 60712151--60712234 Score: 62
Period size: 22 Copynumber: 3.7 Consensus size: 22
60712141 ATATGTGAAT
* *
60712151 TTATAAATTTATTTAATAAAATA
1 TTATAAATAT-TTTAATAAATTA
* **
60712174 TTAAAATGTATATTTTAATATTTTA
1 TTATAA---ATATTTTAATAAATTA
60712199 TTATAAATATTTTAATAAATTA
1 TTATAAATATTTTAATAAATTA
* *
60712221 -TATAATTAATTTAA
1 TTATAAATATTTTAA
60712235 ATTATTTATT
Statistics
Matches: 48, Mismatches: 10, Indels: 8
0.73 0.15 0.12
Matches are distributed among these distances:
21 12 0.25
22 14 0.29
23 5 0.10
25 14 0.29
26 3 0.06
ACGTcount: A:0.48, C:0.00, G:0.01, T:0.51
Consensus pattern (22 bp):
TTATAAATATTTTAATAAATTA
Found at i:60713615 original size:26 final size:27
Alignment explanation
Indices: 60713575--60713632 Score: 84
Period size: 26 Copynumber: 2.2 Consensus size: 27
60713565 TGAATTTTGA
60713575 ATTTTTATATATTTTTA-AATCTTTTTT
1 ATTTTTATATATTTTTATAAT-TTTTTT
*
60713602 ATTTTT-TATTTTTTTATAATTTTTTT
1 ATTTTTATATATTTTTATAATTTTTTT
60713628 ATTTT
1 ATTTT
60713633 AAAAAAATTA
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
26 20 0.69
27 9 0.31
ACGTcount: A:0.22, C:0.02, G:0.00, T:0.76
Consensus pattern (27 bp):
ATTTTTATATATTTTTATAATTTTTTT
Found at i:60713626 original size:10 final size:9
Alignment explanation
Indices: 60713576--60713632 Score: 57
Period size: 10 Copynumber: 6.3 Consensus size: 9
60713566 GAATTTTGAA
60713576 TTTTTATAT
1 TTTTTATAT
*
60713585 ATTTTTAAAT
1 -TTTTTATAT
60713595 CTTTTT-TAT
1 -TTTTTATAT
60713604 TTTTTAT-T
1 TTTTTATAT
60713612 TTTTTATAAT
1 TTTTTAT-AT
60713622 TTTTT-TAT
1 TTTTTATAT
60713630 TTT
1 TTT
60713633 AAAAAAATTA
Statistics
Matches: 41, Mismatches: 3, Indels: 8
0.79 0.06 0.15
Matches are distributed among these distances:
8 18 0.44
9 4 0.10
10 19 0.46
ACGTcount: A:0.21, C:0.02, G:0.00, T:0.77
Consensus pattern (9 bp):
TTTTTATAT
Found at i:60716803 original size:29 final size:30
Alignment explanation
Indices: 60716771--60716829 Score: 75
Period size: 31 Copynumber: 2.0 Consensus size: 30
60716761 TAATGAATAA
*
60716771 AATTATAC-AAAATCAAAATTTATATATAT
1 AATTACACGAAAATCAAAATTTATATATAT
* *
60716800 AATTACACGTTAAATCATAATTTATATATA
1 AATTACACG-AAAATCAAAATTTATATATA
60716830 ATTTTAGGAT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
29 7 0.28
31 18 0.72
ACGTcount: A:0.51, C:0.08, G:0.02, T:0.39
Consensus pattern (30 bp):
AATTACACGAAAATCAAAATTTATATATAT
Found at i:60719400 original size:129 final size:127
Alignment explanation
Indices: 60719214--60719460 Score: 345
Period size: 130 Copynumber: 1.9 Consensus size: 127
60719204 CTTGGATTCC
*
60719214 CAAACGTTGAACATTGCCTTGTTTTAGAATTTAGAAAACATGAGTGAAATGCTAAAGGAATATTC
1 CAAACGTTGAACATTGCCTTGTTTTAGAATTTAGAAAACATGAGTGAAATGCCAAAGGAATATTC
* * *
60719279 GATTA-TTTGAACAAACGGGAAATTACAACCCAGCACAATAGAGTACGATTCCCCGAATTTT
66 GATCATTTTGAACAAACGAGAAATTACAACCCAGCACAATAGAGCACGATTCCCCGAATTTT
* ** *
60719340 CAAAC-TTCGAACGTTGCCTTCGTTTTAAAGAATTTTTAAAACATGAGTGAAATTCCAAAGGAAT
1 CAAACGTT-GAACATTGCCTT-GTTTT--AGAATTTAGAAAACATGAGTGAAATGCCAAAGGAAT
* * *
60719404 ATTCGATCATTTTGAACAAACGAGAAATTGCAACCCAGCACGATAGGGCACGATTCC
62 ATTCGATCATTTTGAACAAACGAGAAATTACAACCCAGCACAATAGAGCACGATTCC
60719461 TTGAATTTCT
Statistics
Matches: 105, Mismatches: 11, Indels: 6
0.86 0.09 0.05
Matches are distributed among these distances:
125 2 0.02
126 16 0.15
127 5 0.05
129 40 0.38
130 42 0.40
ACGTcount: A:0.37, C:0.18, G:0.17, T:0.27
Consensus pattern (127 bp):
CAAACGTTGAACATTGCCTTGTTTTAGAATTTAGAAAACATGAGTGAAATGCCAAAGGAATATTC
GATCATTTTGAACAAACGAGAAATTACAACCCAGCACAATAGAGCACGATTCCCCGAATTTT
Found at i:60719495 original size:130 final size:129
Alignment explanation
Indices: 60719232--60719497 Score: 322
Period size: 130 Copynumber: 2.1 Consensus size: 129
60719222 GAACATTGCC
* *
60719232 TTGTTTT--AGAATTTAGAAAACATGAGTGAAATGCTAAAGGAATATTCGATTATTTGAACAAAC
1 TTGTTTTAAAGAATTTAGAAAACATGAGTGAAATGCCAAAGGAATATTCGATCATTTGAACAAAC
* * * * ** *
60719295 GGGAAATTACAACCCAGCACAATAGAGTACGATTCCCCGAATTTTCAAACTTCGAACGTTGCCT
66 GAGAAATTACAACCCAGCACAATAGAGCACGATTCCCCGAATTTTCAAACATCAAAAATCGCCT
* ** *
60719359 TCGTTTTAAAGAATTTTTAAAACATGAGTGAAATTCCAAAGGAATATTCGATCATTTTGAACAAA
1 TTGTTTTAAAGAATTTAGAAAACATGAGTGAAATGCCAAAGGAATATTCGATCA-TTTGAACAAA
* * * ** *
60719424 CGAGAAATTGCAACCCAGCACGATAGGGCACGATTCCTTGAA-TTTCTAAACATCAAAAATCGCT
65 CGAGAAATTACAACCCAGCACAATAGAGCACGATTCCCCGAATTTTC-AAACATCAAAAATCGCC
60719488 T
129 T
60719489 TTGTTTTAA
1 TTGTTTTAA
60719498 GGTTTAGAAA
Statistics
Matches: 115, Mismatches: 20, Indels: 5
0.82 0.14 0.04
Matches are distributed among these distances:
127 6 0.05
129 44 0.38
130 65 0.57
ACGTcount: A:0.37, C:0.17, G:0.16, T:0.30
Consensus pattern (129 bp):
TTGTTTTAAAGAATTTAGAAAACATGAGTGAAATGCCAAAGGAATATTCGATCATTTGAACAAAC
GAGAAATTACAACCCAGCACAATAGAGCACGATTCCCCGAATTTTCAAACATCAAAAATCGCCT
Found at i:60720451 original size:3 final size:3
Alignment explanation
Indices: 60720443--60720487 Score: 90
Period size: 3 Copynumber: 15.0 Consensus size: 3
60720433 GTTGCTCAAA
60720443 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
60720488 GTAAATAAAT
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 42 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:60720577 original size:3 final size:3
Alignment explanation
Indices: 60720566--60720700 Score: 77
Period size: 3 Copynumber: 45.7 Consensus size: 3
60720556 TGATGATAGC
* * *
60720566 AAT AGT AAT AAT -AT AAT AAT AA- AGT AGAA AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT A-AT AAT AAT AAT AAT AAT
* * * * *
60720610 AAT AAT ACGTT AAT AAG AAT AAT AAT AGT -AT ATT AAT AAT AAC AAT
1 AAT AAT A--AT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
* * *
60720656 AAT AGA- AGGT AAT GAT AA- AAT AAT AA- AAA AAT AAT AAT AA- AAT
1 AAT A-AT A-AT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
60720699 AA
1 AA
60720701 AGAATAGTGC
Statistics
Matches: 100, Mismatches: 21, Indels: 22
0.70 0.15 0.15
Matches are distributed among these distances:
2 10 0.10
3 85 0.85
4 3 0.03
5 2 0.02
ACGTcount: A:0.63, C:0.01, G:0.07, T:0.28
Consensus pattern (3 bp):
AAT
Found at i:60720624 original size:26 final size:25
Alignment explanation
Indices: 60720566--60720659 Score: 90
Period size: 23 Copynumber: 3.9 Consensus size: 25
60720556 TGATGATAGC
60720566 AATAG-TAATAAT-ATAATAATAA-
1 AATAGTTAATAATAATAATAATAAT
* **
60720588 AGTAGAAAATAATAATAATAATAAT
1 AATAGTTAATAATAATAATAATAAT
* *
60720613 AATACGTTAATAAGAATAATAATAGT
1 AATA-GTTAATAATAATAATAATAAT
*
60720639 -ATA-TTAATAATAACAATAATA
1 AATAGTTAATAATAATAATAATA
60720660 GAAGGTAATG
Statistics
Matches: 59, Mismatches: 9, Indels: 7
0.79 0.12 0.09
Matches are distributed among these distances:
22 4 0.07
23 22 0.37
24 10 0.17
25 6 0.10
26 17 0.29
ACGTcount: A:0.61, C:0.02, G:0.06, T:0.31
Consensus pattern (25 bp):
AATAGTTAATAATAATAATAATAAT
Found at i:60720625 original size:20 final size:20
Alignment explanation
Indices: 60720599--60720656 Score: 73
Period size: 20 Copynumber: 2.9 Consensus size: 20
60720589 GTAGAAAATA
60720599 ATAATAATAATAATAATACGT
1 ATAATAATAATAATAATA-GT
*
60720620 -TAATAAGAATAATAATAGT
1 ATAATAATAATAATAATAGT
* *
60720639 ATATTAATAATAACAATA
1 ATAATAATAATAATAATA
60720657 ATAGAAGGTA
Statistics
Matches: 32, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
19 2 0.06
20 30 0.94
ACGTcount: A:0.59, C:0.03, G:0.05, T:0.33
Consensus pattern (20 bp):
ATAATAATAATAATAATAGT
Found at i:60720748 original size:14 final size:15
Alignment explanation
Indices: 60720729--60720762 Score: 52
Period size: 14 Copynumber: 2.3 Consensus size: 15
60720719 ACGTAAATGG
60720729 TAATAGAAA-AGCAA
1 TAATAGAAACAGCAA
*
60720743 TAATAGAAACAGTAA
1 TAATAGAAACAGCAA
60720758 TAATA
1 TAATA
60720763 ATAAAAGTAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 9 0.50
15 9 0.50
ACGTcount: A:0.62, C:0.06, G:0.12, T:0.21
Consensus pattern (15 bp):
TAATAGAAACAGCAA
Found at i:60720771 original size:15 final size:15
Alignment explanation
Indices: 60720735--60720781 Score: 51
Period size: 15 Copynumber: 3.1 Consensus size: 15
60720725 ATGGTAATAG
*
60720735 AAAAGCAATAATAGA-
1 AAAAGTAATAATA-AT
*
60720750 AACAGTAATAATAAT
1 AAAAGTAATAATAAT
*
60720765 AAAAGTAATAGTAAT
1 AAAAGTAATAATAAT
60720780 AA
1 AA
60720782 TAATAGTGAT
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
14 1 0.04
15 26 0.96
ACGTcount: A:0.64, C:0.04, G:0.11, T:0.21
Consensus pattern (15 bp):
AAAAGTAATAATAAT
Found at i:60720785 original size:12 final size:12
Alignment explanation
Indices: 60720755--60720796 Score: 50
Period size: 12 Copynumber: 3.5 Consensus size: 12
60720745 ATAGAAACAG
*
60720755 TAATAATAATAA
1 TAATAATAGTAA
60720767 -AAGTAATAGTAA
1 TAA-TAATAGTAA
*
60720779 TAATAATAGTGA
1 TAATAATAGTAA
60720791 TAATAA
1 TAATAA
60720797 AAATCATGAT
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
11 2 0.08
12 22 0.85
13 2 0.08
ACGTcount: A:0.60, C:0.00, G:0.10, T:0.31
Consensus pattern (12 bp):
TAATAATAGTAA
Found at i:60720794 original size:15 final size:15
Alignment explanation
Indices: 60720776--60720814 Score: 53
Period size: 15 Copynumber: 2.6 Consensus size: 15
60720766 AAAGTAATAG
60720776 TAATAATAAT-AGTGA
1 TAATAATAATCA-TGA
*
60720791 TAATAAAAATCATGA
1 TAATAATAATCATGA
60720806 TAATAATAA
1 TAATAATAA
60720815 ATATAATATT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
15 20 0.95
16 1 0.05
ACGTcount: A:0.59, C:0.03, G:0.08, T:0.31
Consensus pattern (15 bp):
TAATAATAATCATGA
Found at i:60723103 original size:40 final size:40
Alignment explanation
Indices: 60723020--60723143 Score: 137
Period size: 40 Copynumber: 3.1 Consensus size: 40
60723010 GTTTGAAAAG
* * *
60723020 AAAACGGCACTATAAATTA-AGCATTAGCGGCGCTTTCCT-A
1 AAAACGCCACTATAGA-TAGAGCATTAGCGGCGCTTT-TTAA
*
60723060 AAAACATCC-CTATAGATAGAGCATTAGCGGCGCTTTTTAA
1 AAAAC-GCCACTATAGATAGAGCATTAGCGGCGCTTTTTAA
* * *
60723100 AAAACGCCACTATAGGTCGACCATTAGCGGCGCTTTTTAA
1 AAAACGCCACTATAGATAGAGCATTAGCGGCGCTTTTTAA
60723140 AAAA
1 AAAA
60723144 TGTCGCAAAA
Statistics
Matches: 72, Mismatches: 8, Indels: 8
0.82 0.09 0.09
Matches are distributed among these distances:
39 5 0.07
40 66 0.92
41 1 0.01
ACGTcount: A:0.35, C:0.22, G:0.18, T:0.25
Consensus pattern (40 bp):
AAAACGCCACTATAGATAGAGCATTAGCGGCGCTTTTTAA
Found at i:60723268 original size:40 final size:40
Alignment explanation
Indices: 60723204--60723299 Score: 122
Period size: 40 Copynumber: 2.4 Consensus size: 40
60723194 ACGCTTTCTA
* *
60723204 AAAAATGCCGCTATAAATCAAGCATTAGTGGCGCCTTTTG
1 AAAAACGCCGCTATAGATCAAGCATTAGTGGCGCCTTTTG
* ** *
60723244 ATAAACGCCGCTATAGAT-ATAGCATTAGTGGCGTTTTTTT
1 AAAAACGCCGCTATAGATCA-AGCATTAGTGGCGCCTTTTG
60723284 AAAAACGCCGCTATAG
1 AAAAACGCCGCTATAG
60723300 GTCGACCATT
Statistics
Matches: 48, Mismatches: 7, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
39 1 0.02
40 47 0.98
ACGTcount: A:0.32, C:0.19, G:0.20, T:0.29
Consensus pattern (40 bp):
AAAAACGCCGCTATAGATCAAGCATTAGTGGCGCCTTTTG
Found at i:60723310 original size:40 final size:40
Alignment explanation
Indices: 60723195--60723328 Score: 117
Period size: 40 Copynumber: 3.4 Consensus size: 40
60723185 GCTATAGCGA
* * * * *
60723195 CGCTTTCTAAAAAATGCCGCTATAAATCA-AGCATTAGTGG
1 CGCTTTTTTAAAAACGCCGCTATAGAT-AGACCATTAGTGG
* * * * *
60723235 CGCCTTTTGATAAACGCCGCTATAGATATAGCATTAGTGG
1 CGCTTTTTTAAAAACGCCGCTATAGATAGACCATTAGTGG
* * * *
60723275 CGTTTTTTTAAAAACGCCGCTATAGGTCGACCATTAGAGG
1 CGCTTTTTTAAAAACGCCGCTATAGATAGACCATTAGTGG
*
60723315 CGGTTTTTTAAAAA
1 CGCTTTTTTAAAAA
60723329 ATGCTGCAAA
Statistics
Matches: 77, Mismatches: 16, Indels: 2
0.81 0.17 0.02
Matches are distributed among these distances:
39 1 0.01
40 76 0.99
ACGTcount: A:0.31, C:0.19, G:0.20, T:0.31
Consensus pattern (40 bp):
CGCTTTTTTAAAAACGCCGCTATAGATAGACCATTAGTGG
Found at i:60723422 original size:196 final size:196
Alignment explanation
Indices: 60723162--60723518 Score: 488
Period size: 196 Copynumber: 1.8 Consensus size: 196
60723152 AAAATAAACT
*
60723162 TCGTTTTATGCTGACCTTTAGTGGCTATAGCGACGCTTTCTAAAAAATGCCGCTATAAATCAAGC
1 TCGTTTTATGCTAACCTTTAGTGGCTATAGCGACGCTTTCTAAAAAATGCCGCTATAAATCAAGC
* * * * * *
60723227 ATTAGTGGCGCCTTTTGATAAACGCCGCTATA-GATATAGCATTAGTGGCG-TTTTTTTAAAAAC
66 ATTAGTGGCGCCTTTTAAAAAACGCCGCTATATG-TAGACCATTAGCGGCGCTTTTTTGAAAAAC
* *
60723290 GCCGCTATAGGTCGACCATTAGAGGCGGTTTTTTAAAAAATGCTGCAAAAAAACTAAACACAACG
130 GCCGCTATAGATCAACCATTAGAGGC-GTTTTTTAAAAAATGCTGCAAAAAAACTAAACACAACG
60723355 ACG
194 ACG
* * *
60723358 TCGTTTTATGCTAACCTTTAGTGGCTTTAGC-ATCGCTTTAC-GAAAAATGCCGCTATAGATCAA
1 TCGTTTTATGCTAACCTTTAGTGGCTATAGCGA-CGCTTT-CTAAAAAATGCCGCTATAAATCAA
* * *
60723421 GCATTAGTGGCGCTTTTTAAAAAACGCTGCTATATGTCGACCATTAGCGGCGCTTTTTTGAAAAA
64 GCATTAGTGGCGCCTTTTAAAAAACGCCGCTATATGTAGACCATTAGCGGCGCTTTTTTGAAAAA
* * *
60723486 CGCCGCTGTAGATCAAGCATTAGTGGCGTTTTT
129 CGCCGCTATAGATCAACCATTAGAGGCGTTTTT
60723519 AAAGAAAACC
Statistics
Matches: 139, Mismatches: 18, Indels: 8
0.84 0.11 0.05
Matches are distributed among these distances:
195 1 0.01
196 103 0.74
197 35 0.25
ACGTcount: A:0.29, C:0.20, G:0.20, T:0.31
Consensus pattern (196 bp):
TCGTTTTATGCTAACCTTTAGTGGCTATAGCGACGCTTTCTAAAAAATGCCGCTATAAATCAAGC
ATTAGTGGCGCCTTTTAAAAAACGCCGCTATATGTAGACCATTAGCGGCGCTTTTTTGAAAAACG
CCGCTATAGATCAACCATTAGAGGCGTTTTTTAAAAAATGCTGCAAAAAAACTAAACACAACGAC
G
Found at i:60723507 original size:41 final size:41
Alignment explanation
Indices: 60723399--60723518 Score: 147
Period size: 40 Copynumber: 3.0 Consensus size: 41
60723389 ATCGCTTTAC
*
60723399 GAAAAATGCCGCTATAGATCAAGCATTAGTGGCGC-TTTTT
1 GAAAAACGCCGCTATAGATCAAGCATTAGTGGCGCTTTTTT
* * * * *
60723439 AAAAAACGCTGCTATATG-TCGACCATTAGCGGCGCTTTTTT
1 GAAAAACGCCGCTATA-GATCAAGCATTAGTGGCGCTTTTTT
*
60723480 GAAAAACGCCGCTGTAGATCAAGCATTAGTGGCG-TTTTT
1 GAAAAACGCCGCTATAGATCAAGCATTAGTGGCGCTTTTT
60723519 AAAGAAAACC
Statistics
Matches: 65, Mismatches: 12, Indels: 6
0.78 0.14 0.07
Matches are distributed among these distances:
40 33 0.51
41 32 0.49
ACGTcount: A:0.28, C:0.19, G:0.23, T:0.30
Consensus pattern (41 bp):
GAAAAACGCCGCTATAGATCAAGCATTAGTGGCGCTTTTTT
Found at i:60723527 original size:41 final size:40
Alignment explanation
Indices: 60723400--60723521 Score: 149
Period size: 41 Copynumber: 3.0 Consensus size: 40
60723390 TCGCTTTACG
*
60723400 AAAAATGCCGCTATAGATCAAGCATTAGTGGCGCTTTTTA
1 AAAAACGCCGCTATAGATCAAGCATTAGTGGCGCTTTTTA
* * * * *
60723440 AAAAACGCTGCTATATG-TCGACCATTAGCGGCGCTTTTTTG
1 AAAAACGCCGCTATA-GATCAAGCATTAGTGGCGC-TTTTTA
*
60723481 AAAAACGCCGCTGTAGATCAAGCATTAGTGGCG-TTTTTA
1 AAAAACGCCGCTATAGATCAAGCATTAGTGGCGCTTTTTA
60723520 AA
1 AA
60723522 GAAAACCCCG
Statistics
Matches: 67, Mismatches: 12, Indels: 7
0.78 0.14 0.08
Matches are distributed among these distances:
39 7 0.10
40 28 0.42
41 32 0.48
ACGTcount: A:0.30, C:0.19, G:0.21, T:0.30
Consensus pattern (40 bp):
AAAAACGCCGCTATAGATCAAGCATTAGTGGCGCTTTTTA
Found at i:60723947 original size:14 final size:14
Alignment explanation
Indices: 60723928--60723962 Score: 61
Period size: 14 Copynumber: 2.5 Consensus size: 14
60723918 AAAGTTTAAG
60723928 GGGTTAGGGGTCAA
1 GGGTTAGGGGTCAA
*
60723942 GGGTTAAGGGTCAA
1 GGGTTAGGGGTCAA
60723956 GGGTTAG
1 GGGTTAG
60723963 ATGTTTATGG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.23, C:0.06, G:0.49, T:0.23
Consensus pattern (14 bp):
GGGTTAGGGGTCAA
Found at i:60724001 original size:13 final size:13
Alignment explanation
Indices: 60723983--60724016 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
60723973 TTTTGAGTGG
60723983 AAGGTTTATGTTT
1 AAGGTTTATGTTT
*
60723996 AAGGTTTTTGTTT
1 AAGGTTTATGTTT
*
60724009 AGGGTTTA
1 AAGGTTTA
60724017 AGGATATTTT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.21, C:0.00, G:0.26, T:0.53
Consensus pattern (13 bp):
AAGGTTTATGTTT
Found at i:60724032 original size:18 final size:18
Alignment explanation
Indices: 60724006--60724053 Score: 62
Period size: 18 Copynumber: 2.7 Consensus size: 18
60723996 AAGGTTTTTG
*
60724006 TTTAGGGTTTA-AGGATAT
1 TTTAGGGTTTAGAGG-TAC
*
60724024 TTTAAGGTTTAGAGGTAC
1 TTTAGGGTTTAGAGGTAC
60724042 TTTAGGGTTTAG
1 TTTAGGGTTTAG
60724054 TGTTTAAGGT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
18 23 0.88
19 3 0.12
ACGTcount: A:0.25, C:0.02, G:0.29, T:0.44
Consensus pattern (18 bp):
TTTAGGGTTTAGAGGTAC
Found at i:60724089 original size:7 final size:7
Alignment explanation
Indices: 60724042--60724089 Score: 60
Period size: 7 Copynumber: 6.7 Consensus size: 7
60724032 TTAGAGGTAC
60724042 TTTAGGG
1 TTTAGGG
*
60724049 TTTAGTG
1 TTTAGGG
*
60724056 TTTAAGG
1 TTTAGGG
*
60724063 TATAGGG
1 TTTAGGG
60724070 TTTAGAGG
1 TTTAG-GG
60724078 TTTAGGG
1 TTTAGGG
60724085 TTTAG
1 TTTAG
60724090 ATTAATTAAT
Statistics
Matches: 34, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
7 27 0.79
8 7 0.21
ACGTcount: A:0.21, C:0.00, G:0.35, T:0.44
Consensus pattern (7 bp):
TTTAGGG
Found at i:60725006 original size:85 final size:84
Alignment explanation
Indices: 60724905--60725087 Score: 219
Period size: 84 Copynumber: 2.2 Consensus size: 84
60724895 AGCATATAAC
* **
60724905 TTTA-GGGCATTAGCGGCATTTATTTGCA-AAACGCCGCAAAAAAACATTATAGTTTAACT-AAA
1 TTTAGGGGCATTAGCGGCATTT-TGTAAATAAACGCCG-AAAAAAACATTATAGTTTAA-TAAAA
* *
60724967 ACGACATTGTTTTAATTTCAGA
63 ACGACATGGTTTTAATTGCAGA
* * * *
60724989 TTTAGGGGCATTAGCGGCGTTTTGTAAATAAACGCTGTAAAAAGCATTATAGTTTAATAAAAACG
1 TTTAGGGGCATTAGCGGCATTTTGTAAATAAACGCCGAAAAAAACATTATAGTTTAATAAAAACG
* *
60725054 ACGTGGTTTTAATTGGAGA
66 ACATGGTTTTAATTGCAGA
60725073 TTTAGGGGCATTAGC
1 TTTAGGGGCATTAGC
60725088 AATAACGCCG
Statistics
Matches: 85, Mismatches: 11, Indels: 6
0.83 0.11 0.06
Matches are distributed among these distances:
83 1 0.01
84 61 0.72
85 23 0.27
ACGTcount: A:0.34, C:0.13, G:0.21, T:0.32
Consensus pattern (84 bp):
TTTAGGGGCATTAGCGGCATTTTGTAAATAAACGCCGAAAAAAACATTATAGTTTAATAAAAACG
ACATGGTTTTAATTGCAGA
Found at i:60725149 original size:71 final size:72
Alignment explanation
Indices: 60725019--60725157 Score: 201
Period size: 71 Copynumber: 1.9 Consensus size: 72
60725009 TTTGTAAATA
* *
60725019 AACGCTGTAAAAAGCATTATAGTTTAATAAAAACGACGTGGTTTTAATTGGAGATTTAGGGGCAT
1 AACGCCGTAAAAAGCATAATAGTTTAATAAAAACGACGTGGTTTTAATTGGAGATTTAGGGGCAT
60725084 TAGCAAT
66 TAGCAAT
* * * *
60725091 AACGCCGTAAAAATCATAATAGTTTACT-AAAAC-ATCGTTGTTTTAATTGGAGATTTAGGGGGA
1 AACGCCGTAAAAAGCATAATAGTTTAATAAAAACGA-CGTGGTTTTAATTGGAGATTTAGGGGCA
60725154 TTAG
65 TTAG
60725158 TGGCGCTATG
Statistics
Matches: 60, Mismatches: 6, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
70 1 0.02
71 35 0.58
72 24 0.40
ACGTcount: A:0.37, C:0.10, G:0.22, T:0.32
Consensus pattern (72 bp):
AACGCCGTAAAAAGCATAATAGTTTAATAAAAACGACGTGGTTTTAATTGGAGATTTAGGGGCAT
TAGCAAT
Found at i:60727295 original size:27 final size:27
Alignment explanation
Indices: 60727242--60727301 Score: 68
Period size: 27 Copynumber: 2.2 Consensus size: 27
60727232 ATTTTGTTTA
* * *
60727242 CAAATTATTTTTAAATTTTTTGCTTTT
1 CAAAATATTTTTAAATTATATGCTTTT
*
60727269 GAAAATATTTTTAAATATATATG-TTTT
1 CAAAATATTTTTAAAT-TATATGCTTTT
60727296 CAAAAT
1 CAAAAT
60727302 TATGTGCTAT
Statistics
Matches: 27, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
27 23 0.85
28 4 0.15
ACGTcount: A:0.37, C:0.05, G:0.05, T:0.53
Consensus pattern (27 bp):
CAAAATATTTTTAAATTATATGCTTTT
Found at i:60728043 original size:9 final size:9
Alignment explanation
Indices: 60728029--60728229 Score: 84
Period size: 9 Copynumber: 22.8 Consensus size: 9
60728019 CTAGCAACTC
60728029 ACATAATTT
1 ACATAATTT
60728038 ACATAATTT
1 ACATAATTT
60728047 ACATAA--T
1 ACATAATTT
*
60728054 ACATAACTT
1 ACATAATTT
60728063 ACATAATTT
1 ACATAATTT
*
60728072 --A-AAGTT
1 ACATAATTT
60728078 -CA-AATTT
1 ACATAATTT
**
60728085 -CATAACCT
1 ACATAATTT
*
60728093 ATATAATTT
1 ACATAATTT
*
60728102 ACATAACTT
1 ACATAATTT
*
60728111 ACAT-A-GT
1 ACATAATTT
* * *
60728118 ACTTAACTA
1 ACATAATTT
60728127 ACATAATTT
1 ACATAATTT
*
60728136 AAAGATCAAATTT
1 --ACAT--AATTT
*
60728149 -CATAAATT
1 ACATAATTT
60728157 ACATAATTT
1 ACATAATTT
*
60728166 ACATAACTT
1 ACATAATTT
*
60728175 AAATAATTT
1 ACATAATTT
*
60728184 AAAGATCAAATTT
1 --ACAT--AATTT
*
60728197 -CATAACTT
1 ACATAATTT
*
60728205 ACACAATTT
1 ACATAATTT
*
60728214 ACATAACTT
1 ACATAATTT
60728223 ACATAAT
1 ACATAAT
60728230 ACATAAATAT
Statistics
Matches: 143, Mismatches: 32, Indels: 34
0.68 0.15 0.16
Matches are distributed among these distances:
6 4 0.03
7 19 0.13
8 13 0.09
9 87 0.61
10 4 0.03
11 6 0.04
13 10 0.07
ACGTcount: A:0.47, C:0.14, G:0.02, T:0.37
Consensus pattern (9 bp):
ACATAATTT
Found at i:60728058 original size:16 final size:16
Alignment explanation
Indices: 60728037--60728069 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
60728027 TCACATAATT
*
60728037 TACATAATTTACATAA
1 TACATAACTTACATAA
60728053 TACATAACTTACATAA
1 TACATAACTTACATAA
60728069 T
1 T
60728070 TTAAAGTTCA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.48, C:0.15, G:0.00, T:0.36
Consensus pattern (16 bp):
TACATAACTTACATAA
Found at i:60728099 original size:64 final size:64
Alignment explanation
Indices: 60728024--60728181 Score: 226
Period size: 64 Copynumber: 2.5 Consensus size: 64
60728014 GTTCACTAGC
* * *
60728024 AACTCACATAATTTACATAATTTACATAATACATAACTTACATAATTTAAAGTTCAAATTTCATA
1 AACT-ACATAATTTACATAACTTACATAATACATAACTAACATAATTTAAAGATCAAATTTCATA
* * * *
60728089 ACCTATATAATTTACATAACTTACATAGTACTTAACTAACATAATTTAAAGATCAAATTTCATA
1 AACTACATAATTTACATAACTTACATAATACATAACTAACATAATTTAAAGATCAAATTTCATA
* *
60728153 AATTACATAATTTACATAACTTAAATAAT
1 AACTACATAATTTACATAACTTACATAAT
60728182 TTAAAGATCA
Statistics
Matches: 81, Mismatches: 12, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
64 78 0.96
65 3 0.04
ACGTcount: A:0.47, C:0.15, G:0.02, T:0.37
Consensus pattern (64 bp):
AACTACATAATTTACATAACTTACATAATACATAACTAACATAATTTAAAGATCAAATTTCATA
Found at i:60728183 original size:48 final size:48
Alignment explanation
Indices: 60728121--60728229 Score: 175
Period size: 48 Copynumber: 2.3 Consensus size: 48
60728111 ACATAGTACT
*
60728121 TAAC-TAACATAATTTAAAGATCAAATTTCATAAATTACATAATTTACA
1 TAACTTAA-ATAATTTAAAGATCAAATTTCATAAATTACACAATTTACA
*
60728169 TAACTTAAATAATTTAAAGATCAAATTTCATAACTTACACAATTTACA
1 TAACTTAAATAATTTAAAGATCAAATTTCATAAATTACACAATTTACA
*
60728217 TAACTTACATAAT
1 TAACTTAAATAAT
60728230 ACATAAATAT
Statistics
Matches: 57, Mismatches: 3, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
48 54 0.95
49 3 0.05
ACGTcount: A:0.49, C:0.14, G:0.02, T:0.36
Consensus pattern (48 bp):
TAACTTAAATAATTTAAAGATCAAATTTCATAAATTACACAATTTACA
Found at i:60737201 original size:218 final size:218
Alignment explanation
Indices: 60736823--60737264 Score: 866
Period size: 218 Copynumber: 2.0 Consensus size: 218
60736813 GTTACTAAAA
60736823 TTTCAACTATTTTATGTGTATTGCTGGAAAAATACGTAGAAGAAGATTACGAGATTTAAGTATTG
1 TTTCAACTATTTTATGTGTATTGCTGGAAAAATACGTAGAAGAAGATTACGAGATTTAAGTATTG
60736888 TCAAGAATACTCCAAATTCGGAAGAAGCAAATAGTGAACAGCAGACAGTTATTGGATCTTCGAAT
66 TCAAGAATACTCCAAATTCGGAAGAAGCAAATAGTGAACAGCAGACAGTTATTGGATCTTCGAAT
60736953 GTGCCGGAGACACTTGACGAGCCTGCAGAATTTCAAAGTAATGTTAAGTTTATTTTACATGTGTG
131 GTGCCGGAGACACTTGACGAGCCTGCAGAATTTCAAAGTAATGTTAAGTTTATTTTACATGTGTG
60737018 TTGACTTTTATTATTGATTTATT
196 TTGACTTTTATTATTGATTTATT
* *
60737041 TTTCAACTATTTTATGTTTATTGCTGGAAAAATGCGTAGAAGAAGATTACGAGATTTAAGTATTG
1 TTTCAACTATTTTATGTGTATTGCTGGAAAAATACGTAGAAGAAGATTACGAGATTTAAGTATTG
60737106 TCAAGAATACTCCAAATTCGGAAGAAGCAAATAGTGAACAGCAGACAGTTATTGGATCTTCGAAT
66 TCAAGAATACTCCAAATTCGGAAGAAGCAAATAGTGAACAGCAGACAGTTATTGGATCTTCGAAT
60737171 GTGCCGGAGACACTTGACGAGCCTGCAGAATTTCAAAGTAATGTTAAGTTTATTTTACATGTGTG
131 GTGCCGGAGACACTTGACGAGCCTGCAGAATTTCAAAGTAATGTTAAGTTTATTTTACATGTGTG
60737236 TTGACTTTTATTATTGATTTATT
196 TTGACTTTTATTATTGATTTATT
60737259 TTTCAA
1 TTTCAA
60737265 TTTTAATATA
Statistics
Matches: 222, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
218 222 1.00
ACGTcount: A:0.33, C:0.12, G:0.20, T:0.35
Consensus pattern (218 bp):
TTTCAACTATTTTATGTGTATTGCTGGAAAAATACGTAGAAGAAGATTACGAGATTTAAGTATTG
TCAAGAATACTCCAAATTCGGAAGAAGCAAATAGTGAACAGCAGACAGTTATTGGATCTTCGAAT
GTGCCGGAGACACTTGACGAGCCTGCAGAATTTCAAAGTAATGTTAAGTTTATTTTACATGTGTG
TTGACTTTTATTATTGATTTATT
Found at i:60738226 original size:13 final size:14
Alignment explanation
Indices: 60738210--60738238 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
60738200 TTATACATAT
60738210 TTATAAT-GTTTAA
1 TTATAATGGTTTAA
60738223 TTATAATGGTTTAA
1 TTATAATGGTTTAA
60738237 TT
1 TT
60738239 CGTCGTTAGT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 7 0.47
14 8 0.53
ACGTcount: A:0.34, C:0.00, G:0.10, T:0.55
Consensus pattern (14 bp):
TTATAATGGTTTAA
Found at i:60739156 original size:43 final size:43
Alignment explanation
Indices: 60739091--60739200 Score: 148
Period size: 43 Copynumber: 2.5 Consensus size: 43
60739081 GTGGAGGAAG
* * *
60739091 CGCCGCTAAAAGTCATGGCTTTTATCGGCGCTTATCCCACAAA
1 CGCCGCTAAAAGCCATGACTTTTACCGGCGCTTATCCCACAAA
* * *
60739134 CGCCGCTAAAAGCCATGACTTTTACCGGTGCTTTTCCTACAAA
1 CGCCGCTAAAAGCCATGACTTTTACCGGCGCTTATCCCACAAA
*
60739177 GGCCGCTAAAAGCCATGATCTTTT
1 CGCCGCTAAAAGCCATGA-CTTTT
60739201 GTGACATTTT
Statistics
Matches: 59, Mismatches: 7, Indels: 1
0.88 0.10 0.01
Matches are distributed among these distances:
43 54 0.92
44 5 0.08
ACGTcount: A:0.25, C:0.29, G:0.18, T:0.27
Consensus pattern (43 bp):
CGCCGCTAAAAGCCATGACTTTTACCGGCGCTTATCCCACAAA
Found at i:60743208 original size:20 final size:20
Alignment explanation
Indices: 60743157--60743208 Score: 56
Period size: 20 Copynumber: 2.6 Consensus size: 20
60743147 AATGGAAAAT
*
60743157 GTTTT-AAGCA-AAGTTACG
1 GTTTTCAAGCACAAGCTACG
60743175 GTTTTTCCAA-CACAAGCTACG
1 G-TTTT-CAAGCACAAGCTACG
60743196 GTTTTCAAGCACA
1 GTTTTCAAGCACA
60743209 CTATCGTGTG
Statistics
Matches: 28, Mismatches: 1, Indels: 8
0.76 0.03 0.22
Matches are distributed among these distances:
18 1 0.04
19 7 0.25
20 10 0.36
21 10 0.36
ACGTcount: A:0.31, C:0.21, G:0.17, T:0.31
Consensus pattern (20 bp):
GTTTTCAAGCACAAGCTACG
Found at i:60744357 original size:39 final size:39
Alignment explanation
Indices: 60744313--60744390 Score: 129
Period size: 39 Copynumber: 2.0 Consensus size: 39
60744303 GACTGAGTAC
* *
60744313 GAGCGATGTATTTGCTTTGAGGATGGCCTCAGGGATAAT
1 GAGCGATGTATTCGCTTCGAGGATGGCCTCAGGGATAAT
*
60744352 GAGCGATGTGTTCGCTTCGAGGATGGCCTCAGGGATAAT
1 GAGCGATGTATTCGCTTCGAGGATGGCCTCAGGGATAAT
60744391 CTGAGGGTTC
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
39 36 1.00
ACGTcount: A:0.22, C:0.15, G:0.35, T:0.28
Consensus pattern (39 bp):
GAGCGATGTATTCGCTTCGAGGATGGCCTCAGGGATAAT
Done.