Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr8
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: 78745976
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 2640508 characters in sequence are not A, C, G, or T
File 189 of 235
Found at i:64407827 original size:57 final size:57
Alignment explanation
Indices: 64407739--64407854 Score: 214
Period size: 57 Copynumber: 2.0 Consensus size: 57
64407729 GACATACAAA
*
64407739 ATCTTAACTGATATAGAATATCAGTATTTTAGGTAACTAATTTCCTAAGAATCAACT
1 ATCTTAACTAATATAGAATATCAGTATTTTAGGTAACTAATTTCCTAAGAATCAACT
*
64407796 ATCTTAACTAATATAGAATATCAGTATTTTAGGTAACTAATTTCTTAAGAATCAACT
1 ATCTTAACTAATATAGAATATCAGTATTTTAGGTAACTAATTTCCTAAGAATCAACT
64407853 AT
1 AT
64407855 ATAGTGTGAT
Statistics
Matches: 57, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
57 57 1.00
ACGTcount: A:0.40, C:0.13, G:0.09, T:0.38
Consensus pattern (57 bp):
ATCTTAACTAATATAGAATATCAGTATTTTAGGTAACTAATTTCCTAAGAATCAACT
Found at i:64416059 original size:30 final size:30
Alignment explanation
Indices: 64416025--64416097 Score: 83
Period size: 31 Copynumber: 2.4 Consensus size: 30
64416015 ATTATATATA
*
64416025 AAACTTTAATTTGGTGCAATTATACACATG
1 AAACTTTAATTTGGTGCAAATATACACATG
* * * * *
64416055 AAACTCTAATTGTGGTTCAAATGTATACTTG
1 AAACTTTAATT-TGGTGCAAATATACACATG
64416086 AAACTTTAATTT
1 AAACTTTAATTT
64416098 TGATTTAATC
Statistics
Matches: 35, Mismatches: 7, Indels: 2
0.80 0.16 0.05
Matches are distributed among these distances:
30 11 0.31
31 24 0.69
ACGTcount: A:0.36, C:0.12, G:0.12, T:0.40
Consensus pattern (30 bp):
AAACTTTAATTTGGTGCAAATATACACATG
Found at i:64421452 original size:16 final size:17
Alignment explanation
Indices: 64421431--64421464 Score: 61
Period size: 16 Copynumber: 2.1 Consensus size: 17
64421421 TGCAATATTT
64421431 ATAAATTTAAAT-GGAA
1 ATAAATTTAAATAGGAA
64421447 ATAAATTTAAATAGGAA
1 ATAAATTTAAATAGGAA
64421464 A
1 A
64421465 ACTCATAAAC
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 12 0.71
17 5 0.29
ACGTcount: A:0.59, C:0.00, G:0.12, T:0.29
Consensus pattern (17 bp):
ATAAATTTAAATAGGAA
Found at i:64423976 original size:41 final size:42
Alignment explanation
Indices: 64423931--64424010 Score: 110
Period size: 41 Copynumber: 1.9 Consensus size: 42
64423921 ATACAGGGGA
64423931 CACACGGTCT-ATCAACATGCCCGTGT-ACAAGCCGTGTGTCT
1 CACACGGTCTGATC-ACATGCCCGTGTGACAAGCCGTGTGTCT
** *
64423972 CACACGGTCTGATCACATGCTTGTGTGACATGCCGTGTG
1 CACACGGTCTGATCACATGCCCGTGTGACAAGCCGTGTG
64424011 GACTCAAAAT
Statistics
Matches: 34, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
41 20 0.59
42 14 0.41
ACGTcount: A:0.20, C:0.29, G:0.25, T:0.26
Consensus pattern (42 bp):
CACACGGTCTGATCACATGCCCGTGTGACAAGCCGTGTGTCT
Found at i:64425299 original size:277 final size:275
Alignment explanation
Indices: 64424106--64425448 Score: 2098
Period size: 275 Copynumber: 4.9 Consensus size: 275
64424096 GTCCAAAACA
* *
64424106 TGATTAAACATATCTAATACACACTAAAACCACTAGTATAATTATTTAACTCACGTATTTTTTAT
1 TGATTAAACATATCTAATACACA-TAAAACCACTAGTATAATGATTTAACTCACGTATTTTTGAT
64424171 AACTATTTAACATAGAGTTTCCAAACATTATACTTAAATACCATCCAAATCAATTCAAAATAAAC
65 AACTATTTAACATAGAGTTTCCAAACATTATACTTAAATACCATCCAAATCAATTCAAAATAAAC
64424236 TATATAAGTGACTATTTTATAAACATAAATTTTGCTTATATAGATTAACCTTTATCATCCTTACA
130 TATATAAGTGACTATTTTATAAACATAAATTTTGCTTATATAGATTAACCTTTATCATCCTTACA
64424301 CTAGTAATATTCATACTCAAAATAACATTAAGACAACTTAGGTACAATGATTTATAAAATAGTCA
195 CTAGTAATATTCATACTCAAAATAACATTAAGACAACTTAGGTACAATGATTTATAAAATAGTCA
64424366 CTTATATAGTTTATTT
260 CTTATATAGTTTATTT
*** * * * * *
64424382 TGAATTGATTTGGATGGTATTTAAGTATA-ATGTTTGGAAA-CTCTATGT-TAAAT-AGTT-A-T
1 TG-ATT-A-----AACATATCTAA-TACACA----T-AAAACCACTA-GTAT-AATGATTTAACT
*** *** * * * * *
64424441 CAAAAATACGTGAGTTAAATCA-TTATAC-TAGTGGTTT-----TATGTGTA-TTAGAT---AT-
51 CACGTATTTTTGA--TAACT-ATTTA-ACATAG-AGTTTCCAAACAT-TATACTTAAATACCATC
** *
64424494 --GTTTAA-TCAAAATAAACTATATAAGTGACTATTTTATAAACATAAATTTTGCTTATATAGAT
110 CAAATCAATTCAAAATAAACTATATAAGTGACTATTTTATAAACATAAATTTTGCTTATATAGAT
64424556 TAACCTTTATCATCCTTACACTAGTAATATTCATACTCAAAATAACATTAAGACAACTTAGGTAC
175 TAACCTTTATCATCCTTACACTAGTAATATTCATACTCAAAATAACATTAAGACAACTTAGGTAC
64424621 AATGATTTATAAAATAGTCACTTATATAGTTTATTT
240 AATGATTTATAAAATAGTCACTTATATAGTTTATTT
64424657 TGATTAAACATATCTAATACACATAAAACCACTAGTATAATGATTTAACTCACGTATTTTTGATA
1 TGATTAAACATATCTAATACACATAAAACCACTAGTATAATGATTTAACTCACGTATTTTTGATA
64424722 ACTATTTAACATAGAGTTTCCAAACATTATACTTAAATACCATCCAAATCAATTCAAAATAAACT
66 ACTATTTAACATAGAGTTTCCAAACATTATACTTAAATACCATCCAAATCAATTCAAAATAAACT
64424787 ATATAAGTGACTATTTTATAAACATAAATTTTGCTTATATAGATTAACCTTTATCATCCTTACAC
131 ATATAAGTGACTATTTTATAAACATAAATTTTGCTTATATAGATTAACCTTTATCATCCTTACAC
64424852 TAGTAATATTCATACTCAAAATAACATTAAGACAACTTAGGTACAATGATTTATAAAATAGTCAC
196 TAGTAATATTCATACTCAAAATAACATTAAGACAACTTAGGTACAATGATTTATAAAATAGTCAC
64424917 TTATATAGTTTATTT
261 TTATATAGTTTATTT
64424932 TGATTAAACATATCTAATACACATAAAACCACTAGTATAATGATTTAACTCACGTATTTTTGATA
1 TGATTAAACATATCTAATACACATAAAACCACTAGTATAATGATTTAACTCACGTATTTTTGATA
64424997 ACTATTTAACATAGAGTTTCCAAACATTATACTTAAATACCATCCAAATCAATTCAAAATAAACT
66 ACTATTTAACATAGAGTTTCCAAACATTATACTTAAATACCATCCAAATCAATTCAAAATAAACT
64425062 ATATAAGTGACTATTTTGATTAAACATAAATTTTGCTTATATAGATTAACCTTTATCATCCTTAC
131 ATATAAGTGACTATTTT-A-TAAACATAAATTTTGCTTATATAGATTAACCTTTATCATCCTTAC
64425127 ACTAGTAATATTCATACTCAAAATAACATTAAGACAACTTAGGTACAATGATTTATAAAATAGTC
194 ACTAGTAATATTCATACTCAAAATAACATTAAGACAACTTAGGTACAATGATTTATAAAATAGTC
64425192 ACTTATATAGTTTATTT
259 ACTTATATAGTTTATTT
64425209 TGATTAAACATATCTAATACACATAAAACCACTAGTATAATGATTTAACTCACGTATTTTTGATA
1 TGATTAAACATATCTAATACACATAAAACCACTAGTATAATGATTTAACTCACGTATTTTTGATA
64425274 ACTATTTAACATAGAGTTTCCAAACATTATACTTAAATACCATCCAAATCAATTCAAAATAAACT
66 ACTATTTAACATAGAGTTTCCAAACATTATACTTAAATACCATCCAAATCAATTCAAAATAAACT
64425339 ATATAAGTGACTATTTTATAAACATAAATTTTGCTTATATAGATTAACCTTTATCATCCTTACAC
131 ATATAAGTGACTATTTTATAAACATAAATTTTGCTTATATAGATTAACCTTTATCATCCTTACAC
*
64425404 TAGTAATATTCATACTCAAAATAACATTAAGACAACCTAGGTACA
196 TAGTAATATTCATACTCAAAATAACATTAAGACAACTTAGGTACA
64425449 TATCATTCCT
Statistics
Matches: 977, Mismatches: 47, Indels: 87
0.88 0.04 0.08
Matches are distributed among these distances:
263 15 0.02
264 19 0.02
265 1 0.00
266 8 0.01
267 6 0.01
268 15 0.02
271 2 0.00
273 1 0.00
274 6 0.01
275 554 0.57
276 7 0.01
277 277 0.28
278 1 0.00
279 2 0.00
282 7 0.01
283 11 0.01
284 10 0.01
285 1 0.00
286 19 0.02
287 15 0.02
ACGTcount: A:0.41, C:0.15, G:0.08, T:0.37
Consensus pattern (275 bp):
TGATTAAACATATCTAATACACATAAAACCACTAGTATAATGATTTAACTCACGTATTTTTGATA
ACTATTTAACATAGAGTTTCCAAACATTATACTTAAATACCATCCAAATCAATTCAAAATAAACT
ATATAAGTGACTATTTTATAAACATAAATTTTGCTTATATAGATTAACCTTTATCATCCTTACAC
TAGTAATATTCATACTCAAAATAACATTAAGACAACTTAGGTACAATGATTTATAAAATAGTCAC
TTATATAGTTTATTT
Found at i:64425326 original size:552 final size:542
Alignment explanation
Indices: 64424106--64425448 Score: 2082
Period size: 552 Copynumber: 2.4 Consensus size: 542
64424096 GTCCAAAACA
* *
64424106 TGATTAAACATATCTAATACACACTAAAACCACTAGTATAATTATTTAACTCACGTATTTTTTAT
1 TGATTAAACATATCTAATACACA-TAAAACCACTAGTATAATGATTTAACTCACGTATTTTTGAT
64424171 AACTATTTAACATAGAGTTTCCAAACATTATACTTAAATACCATCCAAATCAATTCAAAATAAAC
65 AACTATTTAACATAGAGTTTCCAAACATTATACTTAAATACCATCCAAATCAATTCAAAATAAAC
64424236 TATATAAGTGACTATTTTATAAACATAAATTTTGCTTATATAGATTAACCTTTATCATCCTTACA
130 TATATAAGTGACTATTTTATAAACATAAATTTTGCTTATATAGATTAACCTTTATCATCCTTACA
64424301 CTAGTAATATTCATACTCAAAATAACATTAAGACAACTTAGGTACAATGATTTATAAAATAGTCA
195 CTAGTAATATTCATACTCAAAATAACATTAAGACAACTTAGGTACAATGATTTATAAAATAGTCA
*** * * * *
64424366 CTTATATAGTTTATTTTGAATTGATTTGGATGGTATTTAAGTATAATGTTTGGAAACTCTATGTT
260 CTTATATAGTTTATTTTGAATTGA--T--AACATATCTAAGTACAA---TTGAAAACACTATGTT
* * * * **
64424431 AAATAGTTATCAAAAATACGTGAGTTAAATCATTATACTAGTGGTTTTATGTGTATTAGATATGT
318 AAATAGTTATCAAAAATACGTGAG-TAAATCATTATACTAGTAGTTTCATGTATATTAAATATAA
*
64424496 TTAATCAAAATAAACTATATAAGTGACTATTTTATAAACATAAATTTTGCTTATATAGATTAACC
382 TCAATCAAAATAAACTATATAAGTGACTATTTTATAAACATAAATTTTGCTTATATAGATTAACC
64424561 TTTATCATCCTTACACTAGTAATATTCATACTCAAAATAACATTAAGACAACTTAGGTACAATGA
447 TTTATCATCCTTACACTAGTAATATTCATACTCAAAATAACATTAAGACAACTTAGGTACAATGA
64424626 TTTATAAAATAGTCACTTATATAGTTTATTT
512 TTTATAAAATAGTCACTTATATAGTTTATTT
64424657 TGATTAAACATATCTAATACACATAAAACCACTAGTATAATGATTTAACTCACGTATTTTTGATA
1 TGATTAAACATATCTAATACACATAAAACCACTAGTATAATGATTTAACTCACGTATTTTTGATA
64424722 ACTATTTAACATAGAGTTTCCAAACATTATACTTAAATACCATCCAAATCAATTCAAAATAAACT
66 ACTATTTAACATAGAGTTTCCAAACATTATACTTAAATACCATCCAAATCAATTCAAAATAAACT
64424787 ATATAAGTGACTATTTTATAAACATAAATTTTGCTTATATAGATTAACCTTTATCATCCTTACAC
131 ATATAAGTGACTATTTTATAAACATAAATTTTGCTTATATAGATTAACCTTTATCATCCTTACAC
64424852 TAGTAATATTCATACTCAAAATAACATTAAGACAACTTAGGTACAATGATTTATAAAATAGTCAC
196 TAGTAATATTCATACTCAAAATAACATTAAGACAACTTAGGTACAATGATTTATAAAATAGTCAC
64424917 TTATATAGTTTATTTTG-ATT-A-AACATATCTAA-TACACA-T-AAAACCACTA-G-TATAATG
261 TTATATAGTTTATTTTGAATTGATAACATATCTAAGTACA-ATTGAAAA-CACTATGTTA-AAT-
* *** *** *
64424974 ATTTAACTCACGTATTTTTGA-TAACT-ATT-TAACATAG-AGTTTCCAAACAT-TATACTTAAA
322 AGTT-A-TCAAAAATACGTGAGTAAATCATTAT-AC-TAGTAGTTT-----CATGTATA-TTAAA
64425034 TACCATCCAAATCAATTCAAAATAAACTATATAAGTGACTATTTTGATTAAACATAAATTTTGCT
377 T---AT---AATCAA-TCAAAATAAACTATATAAGTGACTATTTT-A-TAAACATAAATTTTGCT
64425099 TATATAGATTAACCTTTATCATCCTTACACTAGTAATATTCATACTCAAAATAACATTAAGACAA
433 TATATAGATTAACCTTTATCATCCTTACACTAGTAATATTCATACTCAAAATAACATTAAGACAA
64425164 CTTAGGTACAATGATTTATAAAATAGTCACTTATATAGTTTATTT
498 CTTAGGTACAATGATTTATAAAATAGTCACTTATATAGTTTATTT
64425209 TGATTAAACATATCTAATACACATAAAACCACTAGTATAATGATTTAACTCACGTATTTTTGATA
1 TGATTAAACATATCTAATACACATAAAACCACTAGTATAATGATTTAACTCACGTATTTTTGATA
64425274 ACTATTTAACATAGAGTTTCCAAACATTATACTTAAATACCATCCAAATCAATTCAAAATAAACT
66 ACTATTTAACATAGAGTTTCCAAACATTATACTTAAATACCATCCAAATCAATTCAAAATAAACT
64425339 ATATAAGTGACTATTTTATAAACATAAATTTTGCTTATATAGATTAACCTTTATCATCCTTACAC
131 ATATAAGTGACTATTTTATAAACATAAATTTTGCTTATATAGATTAACCTTTATCATCCTTACAC
*
64425404 TAGTAATATTCATACTCAAAATAACATTAAGACAACCTAGGTACA
196 TAGTAATATTCATACTCAAAATAACATTAAGACAACTTAGGTACA
64425449 TATCATTCCT
Statistics
Matches: 744, Mismatches: 25, Indels: 45
0.91 0.03 0.06
Matches are distributed among these distances:
537 3 0.00
538 16 0.02
539 15 0.02
540 1 0.00
541 8 0.01
542 6 0.01
543 15 0.02
546 2 0.00
548 1 0.00
549 6 0.01
550 281 0.38
551 24 0.03
552 366 0.49
ACGTcount: A:0.41, C:0.15, G:0.08, T:0.37
Consensus pattern (542 bp):
TGATTAAACATATCTAATACACATAAAACCACTAGTATAATGATTTAACTCACGTATTTTTGATA
ACTATTTAACATAGAGTTTCCAAACATTATACTTAAATACCATCCAAATCAATTCAAAATAAACT
ATATAAGTGACTATTTTATAAACATAAATTTTGCTTATATAGATTAACCTTTATCATCCTTACAC
TAGTAATATTCATACTCAAAATAACATTAAGACAACTTAGGTACAATGATTTATAAAATAGTCAC
TTATATAGTTTATTTTGAATTGATAACATATCTAAGTACAATTGAAAACACTATGTTAAATAGTT
ATCAAAAATACGTGAGTAAATCATTATACTAGTAGTTTCATGTATATTAAATATAATCAATCAAA
ATAAACTATATAAGTGACTATTTTATAAACATAAATTTTGCTTATATAGATTAACCTTTATCATC
CTTACACTAGTAATATTCATACTCAAAATAACATTAAGACAACTTAGGTACAATGATTTATAAAA
TAGTCACTTATATAGTTTATTT
Found at i:64426762 original size:3 final size:3
Alignment explanation
Indices: 64426744--64426796 Score: 60
Period size: 3 Copynumber: 19.0 Consensus size: 3
64426734 TTTACTTTTA
* *
64426744 ATT ATT A-T ATT A-T ATT ATT ATT A-T ATT -TT AGT AAT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
64426788 ATT ATT ATT
1 ATT ATT ATT
64426797 TACTTATAAT
Statistics
Matches: 43, Mismatches: 3, Indels: 8
0.80 0.06 0.15
Matches are distributed among these distances:
2 8 0.19
3 35 0.81
ACGTcount: A:0.36, C:0.00, G:0.02, T:0.62
Consensus pattern (3 bp):
ATT
Found at i:64426765 original size:16 final size:16
Alignment explanation
Indices: 64426744--64426796 Score: 61
Period size: 16 Copynumber: 3.2 Consensus size: 16
64426734 TTTACTTTTA
64426744 ATTATTATATTATATT
1 ATTATTATATTATATT
* *
64426760 ATTATTATATTTTAGT
1 ATTATTATATTATATT
*
64426776 AATATTATTATTATTATT
1 ATTATTA-TATTA-TATT
64426794 ATT
1 ATT
64426797 TACTTATAAT
Statistics
Matches: 29, Mismatches: 6, Indels: 2
0.78 0.16 0.05
Matches are distributed among these distances:
16 20 0.69
17 4 0.14
18 5 0.17
ACGTcount: A:0.36, C:0.00, G:0.02, T:0.62
Consensus pattern (16 bp):
ATTATTATATTATATT
Found at i:64433562 original size:25 final size:27
Alignment explanation
Indices: 64433525--64433577 Score: 74
Period size: 26 Copynumber: 2.0 Consensus size: 27
64433515 TCAAACATGC
64433525 ATTTAAGTCAATTTAAC-CCTAGGGGT
1 ATTTAAGTCAATTTAACTCCTAGGGGT
* *
64433551 ATTTCAGT-AATTTATCTCCTAGGGGT
1 ATTTAAGTCAATTTAACTCCTAGGGGT
64433577 A
1 A
64433578 AAACTGTAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 7 0.29
26 17 0.71
ACGTcount: A:0.28, C:0.15, G:0.19, T:0.38
Consensus pattern (27 bp):
ATTTAAGTCAATTTAACTCCTAGGGGT
Found at i:64446444 original size:31 final size:31
Alignment explanation
Indices: 64446406--64446484 Score: 140
Period size: 31 Copynumber: 2.5 Consensus size: 31
64446396 TTTAACGGTT
64446406 ACTAGGCCGAAGCCTTTTCATAAATCAAATC
1 ACTAGGCCGAAGCCTTTTCATAAATCAAATC
*
64446437 ACTAGGCCGAAGCCTTTTCATAAATCATATC
1 ACTAGGCCGAAGCCTTTTCATAAATCAAATC
*
64446468 ACTGGGCCGAAGCCTTT
1 ACTAGGCCGAAGCCTTT
64446485 ATTATAAACA
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
31 46 1.00
ACGTcount: A:0.30, C:0.27, G:0.16, T:0.27
Consensus pattern (31 bp):
ACTAGGCCGAAGCCTTTTCATAAATCAAATC
Found at i:64446572 original size:42 final size:42
Alignment explanation
Indices: 64446508--64446599 Score: 148
Period size: 42 Copynumber: 2.2 Consensus size: 42
64446498 TGGCCCATAG
*
64446508 GCCCATTTCAATAACACATGAAATATCAATGAATGTATGCAA
1 GCCCATTTCAATAACACATGAAATACCAATGAATGTATGCAA
* * *
64446550 GCCCATTTCAATATCACCTGAAATACCAATGAATGTGTGCAA
1 GCCCATTTCAATAACACATGAAATACCAATGAATGTATGCAA
64446592 GCCCATTT
1 GCCCATTT
64446600 GGGGAGACTA
Statistics
Matches: 46, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
42 46 1.00
ACGTcount: A:0.37, C:0.23, G:0.13, T:0.27
Consensus pattern (42 bp):
GCCCATTTCAATAACACATGAAATACCAATGAATGTATGCAA
Found at i:64446772 original size:25 final size:26
Alignment explanation
Indices: 64446744--64446891 Score: 230
Period size: 26 Copynumber: 5.8 Consensus size: 26
64446734 CCTCTTTAAT
**
64446744 AACTGGGGCA-AAGCCCTTTTCGGTA
1 AACTGGGGCATAAGCCCTTTTCAATA
*
64446769 AACTAGGGCA-AAGCCCTTTTCAATA
1 AACTGGGGCATAAGCCCTTTTCAATA
64446794 AACTGGGGCA-AAGCCCTTTTCAATA
1 AACTGGGGCATAAGCCCTTTTCAATA
**
64446819 AACTGGGGCATAAGCCCTTTTCGGTA
1 AACTGGGGCATAAGCCCTTTTCAATA
64446845 AACTGGGGCATAAGCCCTTTTCAATA
1 AACTGGGGCATAAGCCCTTTTCAATA
64446871 AACTGGGGCATAAGCCCTTTT
1 AACTGGGGCATAAGCCCTTTT
64446892 GCACTTCCTC
Statistics
Matches: 114, Mismatches: 8, Indels: 1
0.93 0.07 0.01
Matches are distributed among these distances:
25 56 0.49
26 58 0.51
ACGTcount: A:0.28, C:0.24, G:0.22, T:0.26
Consensus pattern (26 bp):
AACTGGGGCATAAGCCCTTTTCAATA
Found at i:64446966 original size:20 final size:20
Alignment explanation
Indices: 64446941--64447016 Score: 104
Period size: 20 Copynumber: 3.9 Consensus size: 20
64446931 TTATGAATTC
*
64446941 ATCATGTGCATTTCATACAT
1 ATCATGTGCATATCATACAT
*
64446961 ATCATGTGCATATCATGCAT
1 ATCATGTGCATATCATACAT
64446981 ATCATGTGCATATCATATCA-
1 ATCATGTGCATATCATA-CAT
64447001 ATCATGT--ATATCATAC
1 ATCATGTGCATATCATAC
64447017 CCCACGTATC
Statistics
Matches: 52, Mismatches: 3, Indels: 5
0.87 0.05 0.08
Matches are distributed among these distances:
17 1 0.02
18 8 0.15
20 41 0.79
21 2 0.04
ACGTcount: A:0.33, C:0.20, G:0.11, T:0.37
Consensus pattern (20 bp):
ATCATGTGCATATCATACAT
Found at i:64446972 original size:11 final size:11
Alignment explanation
Indices: 64446941--64446996 Score: 66
Period size: 11 Copynumber: 5.5 Consensus size: 11
64446931 TTATGAATTC
64446941 ATCATGTGCAT
1 ATCATGTGCAT
* *
64446952 TTCA--TACAT
1 ATCATGTGCAT
64446961 ATCATGTGCAT
1 ATCATGTGCAT
64446972 ATCA--TGCAT
1 ATCATGTGCAT
64446981 ATCATGTGCAT
1 ATCATGTGCAT
64446992 ATCAT
1 ATCAT
64446997 ATCAATCATG
Statistics
Matches: 37, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
9 16 0.43
11 21 0.57
ACGTcount: A:0.30, C:0.20, G:0.12, T:0.38
Consensus pattern (11 bp):
ATCATGTGCAT
Found at i:64447779 original size:26 final size:27
Alignment explanation
Indices: 64447714--64447780 Score: 68
Period size: 27 Copynumber: 2.5 Consensus size: 27
64447704 GGGCATATTC
64447714 GTCA-TTTTACCATACAAGGGTATTACG
1 GTCACTTTTACC-TACAAGGGTATTACG
* *
64447741 GTCACTTTAACCTACAGGGGCT-TTACG
1 GTCACTTTTACCTACAAGGG-TATTACG
*
64447768 GT-ATTTTTACCTA
1 GTCACTTTTACCTA
64447781 TTAGGGGATT
Statistics
Matches: 34, Mismatches: 4, Indels: 5
0.79 0.09 0.12
Matches are distributed among these distances:
26 9 0.26
27 18 0.53
28 7 0.21
ACGTcount: A:0.25, C:0.21, G:0.18, T:0.36
Consensus pattern (27 bp):
GTCACTTTTACCTACAAGGGTATTACG
Found at i:64447861 original size:27 final size:27
Alignment explanation
Indices: 64447808--64448140 Score: 231
Period size: 27 Copynumber: 12.3 Consensus size: 27
64447798 TTTCATCCTA
* * * *
64447808 CAAGGGTGTTTTGGTAAATCTACAAAC
1 CAAGGGTATTTTGGTAATTTTATAAAC
** *
64447835 CAAGGGTATTTCAGTAATTTTGTAAAC
1 CAAGGGTATTTTGGTAATTTTATAAAC
* * * * *
64447862 TAATGGTATTTCT-ATAATTTTTAGAAAGT
1 CAAGGGTATTT-TGGTAA-TTTTATAAA-C
* * *
64447891 CAAGGGTATTTTTGTAATTTTGTAAAT
1 CAAGGGTATTTTGGTAATTTTATAAAC
* * * *
64447918 TAGGGGTATTTTGGTAATTTTACAAAT
1 CAAGGGTATTTTGGTAATTTTATAAAC
** * * *
64447945 TGAGGGTATTTCGGTAATTTCACAAAC
1 CAAGGGTATTTTGGTAATTTTATAAAC
* * *
64447972 CAATGGTATTTTGGTAACTTTACAAAC
1 CAAGGGTATTTTGGTAATTTTATAAAC
* *
64447999 TAGGGGTATTTTGGTAATTTTATAAAC
1 CAAGGGTATTTTGGTAATTTTATAAAC
* * * * *
64448026 CAGGGGTATTTTAGCAATTTTACAGAC
1 CAAGGGTATTTTGGTAATTTTATAAAC
* *
64448053 C-AGGGTATTTTGGTAATTTTACT-GAT
1 CAAGGGTATTTTGGTAATTTTA-TAAAC
* *
64448079 CGAGGGTATTTTGGTAATTTTGTAAAC
1 CAAGGGTATTTTGGTAATTTTATAAAC
* * *
64448106 CAAGGGTATTTTAGTAATTTTGTAAAT
1 CAAGGGTATTTTGGTAATTTTATAAAC
*
64448133 CGAGGGTA
1 CAAGGGTA
64448141 AAATAGTAAT
Statistics
Matches: 242, Mismatches: 57, Indels: 14
0.77 0.18 0.04
Matches are distributed among these distances:
26 21 0.09
27 194 0.80
28 15 0.06
29 12 0.05
ACGTcount: A:0.30, C:0.09, G:0.21, T:0.40
Consensus pattern (27 bp):
CAAGGGTATTTTGGTAATTTTATAAAC
Found at i:64448098 original size:80 final size:81
Alignment explanation
Indices: 64447808--64448126 Score: 259
Period size: 81 Copynumber: 3.9 Consensus size: 81
64447798 TTTCATCCTA
* * * * * ** * * **
64447808 CAAGGGTGTTTTGGTAAATCTACAAACCAAGGGTATTTCAGTAATTTTGTAAACTAATGGTATTT
1 CAAGGGTATTTTGGTAACTTTACAAACGAGGGGTATTTTGGTAATTTTATAAACCAGGGGTATTT
* *
64447873 CTA-TAATTTTTAGAAAGT
66 -TAGTAA-TTTTACAAA-C
* * ** ** * **
64447891 CAAGGGTATTTTTGTAATTTTGTAAATTAGGGGTATTTTGGTAATTTTACAAA-TTGAGGGTATT
1 CAAGGGTATTTTGGTAACTTTACAAACGAGGGGTATTTTGGTAATTTTATAAACCAG-GGGTATT
** *
64447955 TCGGTAATTTCACAAAC
65 TTAGTAATTTTACAAAC
* *
64447972 CAATGGTATTTTGGTAACTTTACAAACTAGGGGTATTTTGGTAATTTTATAAACCAGGGGTATTT
1 CAAGGGTATTTTGGTAACTTTACAAACGAGGGGTATTTTGGTAATTTTATAAACCAGGGGTATTT
* *
64448037 TAGCAATTTTACAGAC
66 TAGTAATTTTACAAAC
* * * * *
64448053 C-AGGGTATTTTGGTAATTTTACTGATCGA-GGGTATTTTGGTAATTTTGTAAACCAAGGGTATT
1 CAAGGGTATTTTGGTAACTTTAC-AAACGAGGGGTATTTTGGTAATTTTATAAACCAGGGGTATT
64448116 TTAGTAATTTT
65 TTAGTAATTTT
64448127 GTAAATCGAG
Statistics
Matches: 189, Mismatches: 43, Indels: 11
0.78 0.18 0.05
Matches are distributed among these distances:
80 61 0.32
81 69 0.37
82 9 0.05
83 50 0.26
ACGTcount: A:0.30, C:0.09, G:0.20, T:0.41
Consensus pattern (81 bp):
CAAGGGTATTTTGGTAACTTTACAAACGAGGGGTATTTTGGTAATTTTATAAACCAGGGGTATTT
TAGTAATTTTACAAAC
Found at i:64448135 original size:54 final size:54
Alignment explanation
Indices: 64447808--64448167 Score: 260
Period size: 54 Copynumber: 6.6 Consensus size: 54
64447798 TTTCATCCTA
* * * **
64447808 CAAGGGTGTTTTGGTAAATCTACAAACCAAGGGTATTTCAGTAATTTTGTAAA-
1 CAAGGGTATTTTGGTAATTTTACAAACCAAGGGTATTTTGGTAATTTTGTAAAT
* * * * *
64447861 CTAATGGTATTTCT-ATAATTTTTAGAAAGTCAAGGGTATTTTTGTAATTTTGTAAAT
1 C-AAGGGTATTT-TGGTAA-TTTTACAAA-CCAAGGGTATTTTGGTAATTTTGTAAAT
* * *** * *** *
64447918 TAGGGGTATTTTGGTAATTTTACAAATTGAGGGTATTTCGGTAATTTCACAAAC
1 CAAGGGTATTTTGGTAATTTTACAAACCAAGGGTATTTTGGTAATTTTGTAAAT
* * * * * *
64447972 CAATGGTATTTTGGTAACTTTACAAACTAGGGGTATTTTGGTAATTTTATAAAC
1 CAAGGGTATTTTGGTAATTTTACAAACCAAGGGTATTTTGGTAATTTTGTAAAT
* * * * * *
64448026 CAGGGGTATTTTAGCAATTTTACAGACC-AGGGTATTTTGGTAATTTTACT-GAT
1 CAAGGGTATTTTGGTAATTTTACAAACCAAGGGTATTTTGGTAATTTT-GTAAAT
* ** *
64448079 CGAGGGTATTTTGGTAATTTTGTAAACCAAGGGTATTTTAGTAATTTTGTAAAT
1 CAAGGGTATTTTGGTAATTTTACAAACCAAGGGTATTTTGGTAATTTTGTAAAT
* *** * * *
64448133 CGAGGGTAAAATAGTAATTCTACAAATCAAGGGTA
1 CAAGGGTATTTTGGTAATTTTACAAACCAAGGGTA
64448168 AAATGGTAAT
Statistics
Matches: 237, Mismatches: 61, Indels: 17
0.75 0.19 0.05
Matches are distributed among these distances:
53 42 0.18
54 144 0.61
55 16 0.07
56 35 0.15
ACGTcount: A:0.32, C:0.09, G:0.21, T:0.39
Consensus pattern (54 bp):
CAAGGGTATTTTGGTAATTTTACAAACCAAGGGTATTTTGGTAATTTTGTAAAT
Found at i:64448167 original size:134 final size:134
Alignment explanation
Indices: 64447921--64448167 Score: 289
Period size: 134 Copynumber: 1.8 Consensus size: 134
64447911 TGTAAATTAG
* * *
64447921 GGGTATTTTGGTAATTTTACAAATTGAGGGTATTTCGGTAATTTCACAAACCAATGGTATTTTGG
1 GGGTATTTTGGTAATTTTACAAATCGAGGGTATTTCGGTAATTTCACAAACCAAGGGTATTTTAG
* *** * * * *
64447986 TAACTTTACAAACTAGGGGTATTTTGGTAATTTTATAAACCAGGGGTATTTTAGCAATTTTACAG
66 TAACTTTACAAACGAGGGGTAAAATAGTAATTCTACAAACCAAGGGTATTTTAGCAATTTTACAG
64448051 ACCA
131 ACCA
** * ***
64448055 GGGTATTTTGGTAATTTTACTGATCGAGGGTATTTTGGTAATTTTGTAAACCAAGGGTATTTTAG
1 GGGTATTTTGGTAATTTTACAAATCGAGGGTATTTCGGTAATTTCACAAACCAAGGGTATTTTAG
* ** *
64448120 TAATTTTGTAAATCGA-GGGTAAAATAGTAATTCTACAAATCAAGGGTA
66 TAACTTTACAAA-CGAGGGGTAAAATAGTAATTCTACAAACCAAGGGTA
64448168 AAATGGTAAT
Statistics
Matches: 91, Mismatches: 21, Indels: 2
0.80 0.18 0.02
Matches are distributed among these distances:
134 89 0.98
135 2 0.02
ACGTcount: A:0.31, C:0.09, G:0.21, T:0.38
Consensus pattern (134 bp):
GGGTATTTTGGTAATTTTACAAATCGAGGGTATTTCGGTAATTTCACAAACCAAGGGTATTTTAG
TAACTTTACAAACGAGGGGTAAAATAGTAATTCTACAAACCAAGGGTATTTTAGCAATTTTACAG
ACCA
Found at i:64448177 original size:54 final size:54
Alignment explanation
Indices: 64448119--64448327 Score: 285
Period size: 54 Copynumber: 3.9 Consensus size: 54
64448109 GGGTATTTTA
* *
64448119 GTAATTTTGTAAATCGAGGGTAAAATAGTAATTCTACAAATCAAGGGTAAAATG
1 GTAATTCTGTAAATCGAGGGTAAAATAGTAATTCTACAAATCGAGGGTAAAATG
* ** * ** *
64448173 GTAATTCTTTAAATCGACAGTAAAATGGTAATTCTGTAAATCGAGGGTAAAACG
1 GTAATTCTGTAAATCGAGGGTAAAATAGTAATTCTACAAATCGAGGGTAAAATG
* *
64448227 GTAATTCTGTAAATTGAGGGTAAAAT-GATAATTCTATAAATCGAGGGTAAAATG
1 GTAATTCTGTAAATCGAGGGTAAAATAG-TAATTCTACAAATCGAGGGTAAAATG
* *
64448281 GTAATTCTGTAAATCGAGGGTAAAACAATAATTCTACAAATCGAGGG
1 GTAATTCTGTAAATCGAGGGTAAAATAGTAATTCTACAAATCGAGGG
64448328 CATTTCAGTA
Statistics
Matches: 134, Mismatches: 19, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
53 1 0.01
54 133 0.99
ACGTcount: A:0.41, C:0.09, G:0.21, T:0.29
Consensus pattern (54 bp):
GTAATTCTGTAAATCGAGGGTAAAATAGTAATTCTACAAATCGAGGGTAAAATG
Found at i:64448204 original size:81 final size:81
Alignment explanation
Indices: 64448119--64448327 Score: 310
Period size: 81 Copynumber: 2.6 Consensus size: 81
64448109 GGGTATTTTA
* * * * *
64448119 GTAATTTTGTAAATCGAGGGTAAAATAGTAATTCTACAAATCAAGGGTAAAATGGTAATTCTTTA
1 GTAATTCTGTAAATCGAGGGTAAAACAGTAATTCTACAAATCGAGGGTAAAATGATAATTCTATA
64448184 AATCGACAGTAAAATG
66 AATCGACAGTAAAATG
* ** *
64448200 GTAATTCTGTAAATCGAGGGTAAAACGGTAATTCTGTAAATTGAGGGTAAAATGATAATTCTATA
1 GTAATTCTGTAAATCGAGGGTAAAACAGTAATTCTACAAATCGAGGGTAAAATGATAATTCTATA
**
64448265 AATCGAGGGTAAAATG
66 AATCGACAGTAAAATG
*
64448281 GTAATTCTGTAAATCGAGGGTAAAACAATAATTCTACAAATCGAGGG
1 GTAATTCTGTAAATCGAGGGTAAAACAGTAATTCTACAAATCGAGGG
64448328 CATTTCAGTA
Statistics
Matches: 112, Mismatches: 16, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
81 112 1.00
ACGTcount: A:0.41, C:0.09, G:0.21, T:0.29
Consensus pattern (81 bp):
GTAATTCTGTAAATCGAGGGTAAAACAGTAATTCTACAAATCGAGGGTAAAATGATAATTCTATA
AATCGACAGTAAAATG
Found at i:64448315 original size:27 final size:27
Alignment explanation
Indices: 64448119--64448305 Score: 266
Period size: 27 Copynumber: 6.9 Consensus size: 27
64448109 GGGTATTTTA
* *
64448119 GTAATTTTGTAAATCGAGGGTAAAATA
1 GTAATTCTGTAAATCGAGGGTAAAATG
** *
64448146 GTAATTCTACAAATCAAGGGTAAAATG
1 GTAATTCTGTAAATCGAGGGTAAAATG
* **
64448173 GTAATTCTTTAAATCGACAGTAAAATG
1 GTAATTCTGTAAATCGAGGGTAAAATG
*
64448200 GTAATTCTGTAAATCGAGGGTAAAACG
1 GTAATTCTGTAAATCGAGGGTAAAATG
*
64448227 GTAATTCTGTAAATTGAGGGTAAAATG
1 GTAATTCTGTAAATCGAGGGTAAAATG
* *
64448254 ATAATTCTATAAATCGAGGGTAAAATG
1 GTAATTCTGTAAATCGAGGGTAAAATG
64448281 GTAATTCTGTAAATCGAGGGTAAAA
1 GTAATTCTGTAAATCGAGGGTAAAA
64448306 CAATAATTCT
Statistics
Matches: 139, Mismatches: 21, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
27 139 1.00
ACGTcount: A:0.41, C:0.08, G:0.21, T:0.30
Consensus pattern (27 bp):
GTAATTCTGTAAATCGAGGGTAAAATG
Found at i:64448321 original size:27 final size:27
Alignment explanation
Indices: 64448119--64448327 Score: 256
Period size: 27 Copynumber: 7.7 Consensus size: 27
64448109 GGGTATTTTA
* * *
64448119 GTAATTTTGTAAATCGAGGGTAAAATA
1 GTAATTCTATAAATCGAGGGTAAAATG
* *
64448146 GTAATTCTACAAATCAAGGGTAAAATG
1 GTAATTCTATAAATCGAGGGTAAAATG
* **
64448173 GTAATTCTTTAAATCGACAGTAAAATG
1 GTAATTCTATAAATCGAGGGTAAAATG
* *
64448200 GTAATTCTGTAAATCGAGGGTAAAACG
1 GTAATTCTATAAATCGAGGGTAAAATG
* *
64448227 GTAATTCTGTAAATTGAGGGTAAAATG
1 GTAATTCTATAAATCGAGGGTAAAATG
*
64448254 ATAATTCTATAAATCGAGGGTAAAATG
1 GTAATTCTATAAATCGAGGGTAAAATG
* **
64448281 GTAATTCTGTAAATCGAGGGTAAAACA
1 GTAATTCTATAAATCGAGGGTAAAATG
* *
64448308 ATAATTCTACAAATCGAGGG
1 GTAATTCTATAAATCGAGGG
64448328 CATTTCAGTA
Statistics
Matches: 156, Mismatches: 26, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 156 1.00
ACGTcount: A:0.41, C:0.09, G:0.21, T:0.29
Consensus pattern (27 bp):
GTAATTCTATAAATCGAGGGTAAAATG
Found at i:64453534 original size:43 final size:43
Alignment explanation
Indices: 64453474--64453647 Score: 183
Period size: 43 Copynumber: 4.1 Consensus size: 43
64453464 TAAGCTCGTA
* * *
64453474 CAATGCC-ATATCCCAGATATGGTCTTACATGTTATCACATAT
1 CAATGCCAATATCCCAGACATGGTCTTACACGTAATCACATAT
* * * * * *
64453516 CAATGCCACTATCCCAGATAGGGTCTTACACGAAATCGA-TTAA
1 CAATGCCAATATCCCAGACATGGTCTTACACGTAATC-ACATAT
* * *
64453559 CGATGCCAATGTCCCAGACATGGTCTTACACGTAATCTCA-AT
1 CAATGCCAATATCCCAGACATGGTCTTACACGTAATCACATAT
* * *
64453601 CAATGCCAATGTCCCAGACATGGTCTTACATGTAATCACATCT
1 CAATGCCAATATCCCAGACATGGTCTTACACGTAATCACATAT
64453644 CAAT
1 CAAT
64453648 AACCTAATGT
Statistics
Matches: 108, Mismatches: 20, Indels: 7
0.80 0.15 0.05
Matches are distributed among these distances:
42 45 0.42
43 62 0.57
44 1 0.01
ACGTcount: A:0.32, C:0.26, G:0.14, T:0.28
Consensus pattern (43 bp):
CAATGCCAATATCCCAGACATGGTCTTACACGTAATCACATAT
Found at i:64458123 original size:47 final size:45
Alignment explanation
Indices: 64458052--64458791 Score: 467
Period size: 47 Copynumber: 15.8 Consensus size: 45
64458042 TGATTTGTGC
* *
64458052 GCCAGTGTAAGACATGTCTGGGACATGCTTCGGCCACATTATGAGA
1 GCCAGTGTAAGACATGTCTGGGACATGCATCGGCCACA-GATGAGA
* * *
64458098 GCCAGTGTAAGACCATGTCTGGGACATGGCATCAGCACAGAGATGAGT
1 GCCAGTGTAAGA-CATGTCTGGGACAT-GCATCGGC-CACAGATGAGA
** * * *
64458146 GCCAGTGTAAGATTTGTCTAGGACATGCATCGGCCTCGAAAGA-GATA
1 GCCAGTGTAAGACATGTCTGGGACATGCATCGG-C-C-ACAGATGAGA
* * * * * *
64458193 GCCAGTGTAAGACCATGTTTGGAACATGGCATCGGTACAGAGATAAGT
1 GCCAGTGTAAGA-CATGTCTGGGACAT-GCATCGG-CCACAGATGAGA
* *
64458241 GCCAGTGTAAGACATGTTTGGGACATGCATCGGCCTCGACAGAT-ATA
1 GCCAGTGTAAGACATGTCTGGGACATGCATCGG-C-C-ACAGATGAGA
* ** * * *
64458288 GCCAGTGTAAGACGTGTCTGGGACACACATCGGCTA-AGA-GTTGT
1 GCCAGTGTAAGACATGTCTGGGACATGCATCGGCCACAGATG-AGA
* * *
64458332 GCTAGTGTAAGACATGTCTGGGACATGCATCAG-CATGCGTATATGAGA
1 GCCAGTGTAAGACATGTCTGGGACATGCATCGGCCA--C--AGATGAGA
* *
64458380 GCCAGTGTAAGACCATGTCTGGGACATGGCATCGG-CATCCAGACGAGG
1 GCCAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCA--CAGATGAGA
* * * * * * * *
64458428 GCTAGTGTAAAACATGTTTAGGACATGCATCAGCCATACTATGATA
1 GCCAGTGTAAGACATGTCTGGGACATGCATCGGCCACA-GATGAGA
* * *
64458474 GCCAGTGTAAGACCATGTCTGGGACATGGCATCAGCACAGAGATGAGT
1 GCCAGTGTAAGA-CATGTCTGGGACAT-GCATCGGC-CACAGATGAGA
** * * *
64458522 GCCAGTGTAAGATTTGTCTAGGACATGCATCGGCCTCGAAAGA-GATA
1 GCCAGTGTAAGACATGTCTGGGACATGCATCGG-C-C-ACAGATGAGA
* * * * * *
64458569 GCCAGTGTAAGACCATGTTTGGAACATGGCATCGGTACAGAGATAAGT
1 GCCAGTGTAAGA-CATGTCTGGGACAT-GCATCGG-CCACAGATGAGA
* *
64458617 GCCAGTGTAAGACATGTTTGGGACATGCATCGGCCTCGACAGAT-ATA
1 GCCAGTGTAAGACATGTCTGGGACATGCATCGG-C-C-ACAGATGAGA
* ** * * *
64458664 GCCAGTGTAAGACGTGTCTGGGACACACATCGGCTA-AGA-GTTGT
1 GCCAGTGTAAGACATGTCTGGGACATGCATCGGCCACAGATG-AGA
* * *
64458708 GCTAGTGTAAGACATGTCTGGGACATGCATCAG-CATGCGTATATGAGA
1 GCCAGTGTAAGACATGTCTGGGACATGCATCGGCCA--C--AGATGAGA
64458756 GCCAGTGTAAGACCATGTCTGGGACATGGCATCGGC
1 GCCAGTGTAAGA-CATGTCTGGGACAT-GCATCGGC
64458792 AATATATCCC
Statistics
Matches: 536, Mismatches: 115, Indels: 81
0.73 0.16 0.11
Matches are distributed among these distances:
43 8 0.01
44 58 0.11
45 1 0.00
46 59 0.11
47 190 0.35
48 154 0.29
49 50 0.09
50 16 0.03
ACGTcount: A:0.28, C:0.20, G:0.29, T:0.23
Consensus pattern (45 bp):
GCCAGTGTAAGACATGTCTGGGACATGCATCGGCCACAGATGAGA
Found at i:64458233 original size:95 final size:95
Alignment explanation
Indices: 64458052--64458790 Score: 746
Period size: 95 Copynumber: 7.9 Consensus size: 95
64458042 TGATTTGTGC
* * *
64458052 GCCAGTGTAAGACATGTCTGGGACATGCTTCGGCCAC-ATTATGAG--AGCCAGTGTAAGACCAT
1 GCCAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGA--AAGAGATAGCCAGTGTAAGACCAT
* *
64458114 GTCTGGGACATGGCATCAGCACAGAGATGAGT
64 GTCTGGGACATGGCATCGGTACAGAGATGAGT
** *
64458146 GCCAGTGTAAGATTTGTCTAGGACATGCATCGGCCTCGAAAGAGATAGCCAGTGTAAGACCATGT
1 GCCAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAAAGAGATAGCCAGTGTAAGACCATGT
* * *
64458211 TTGGAACATGGCATCGGTACAGAGATAAGT
66 CTGGGACATGGCATCGGTACAGAGATGAGT
* * * *
64458241 GCCAGTGTAAGACATGTTTGGGACATGCATCGGCCTCGACAGATATAGCCAGTGTAAGA-CGTGT
1 GCCAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAAAGAGATAGCCAGTGTAAGACCATGT
** *
64458305 CTGGGACA-CACATCGGCTA-AGAG-T-TGT
66 CTGGGACATGGCATCGG-TACAGAGATGAGT
* * * *
64458332 GCTAGTGTAAGACATGTCTGGGACATGCATCAGCATGCGTATATGAG--AGCCAGTGTAAGACCA
1 GCCAGTGTAAGACATGTCTGGGACATGCATCGGCCT-CG-A-AAGAGATAGCCAGTGTAAGACCA
* * * *
64458395 TGTCTGGGACATGGCATCGGCATC-CAGACGAGG
63 TGTCTGGGACATGGCATCGGTA-CAGAGATGAGT
* * * * * * *
64458428 GCTAGTGTAAAACATGTTTAGGACATGCATCAGCCAT--ACTA-TGATAGCCAGTGTAAGACCAT
1 GCCAGTGTAAGACATGTCTGGGACATGCATCGGCC-TCGA-AAGAGATAGCCAGTGTAAGACCAT
* *
64458490 GTCTGGGACATGGCATCAGCACAGAGATGAGT
64 GTCTGGGACATGGCATCGGTACAGAGATGAGT
** *
64458522 GCCAGTGTAAGATTTGTCTAGGACATGCATCGGCCTCGAAAGAGATAGCCAGTGTAAGACCATGT
1 GCCAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAAAGAGATAGCCAGTGTAAGACCATGT
* * *
64458587 TTGGAACATGGCATCGGTACAGAGATAAGT
66 CTGGGACATGGCATCGGTACAGAGATGAGT
* * * *
64458617 GCCAGTGTAAGACATGTTTGGGACATGCATCGGCCTCGACAGATATAGCCAGTGTAAGA-CGTGT
1 GCCAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAAAGAGATAGCCAGTGTAAGACCATGT
** *
64458681 CTGGGACA-CACATCGGCTA-AGAG-T-TGT
66 CTGGGACATGGCATCGG-TACAGAGATGAGT
* * * *
64458708 GCTAGTGTAAGACATGTCTGGGACATGCATCAGCATGCGTATATGAG--AGCCAGTGTAAGACCA
1 GCCAGTGTAAGACATGTCTGGGACATGCATCGGCCT-CG-A-AAGAGATAGCCAGTGTAAGACCA
64458771 TGTCTGGGACATGGCATCGG
63 TGTCTGGGACATGGCATCGG
64458791 CAATATATCC
Statistics
Matches: 534, Mismatches: 85, Indels: 52
0.80 0.13 0.08
Matches are distributed among these distances:
91 68 0.13
92 33 0.06
93 54 0.10
94 147 0.28
95 199 0.37
96 32 0.06
97 1 0.00
ACGTcount: A:0.28, C:0.20, G:0.29, T:0.23
Consensus pattern (95 bp):
GCCAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAAAGAGATAGCCAGTGTAAGACCATGT
CTGGGACATGGCATCGGTACAGAGATGAGT
Found at i:64458748 original size:376 final size:376
Alignment explanation
Indices: 64458055--64458792 Score: 1404
Period size: 376 Copynumber: 2.0 Consensus size: 376
64458045 TTTGTGCGCC
* * * * *
64458055 AGTGTAAGACATGTCTGGGACATGCTTCGGCCACATTATGAGAGCCAGTGTAAGACCATGTCTGG
1 AGTGTAAAACATGTCTAGGACATGCATCAGCCACACTATGAGAGCCAGTGTAAGACCATGTCTGG
64458120 GACATGGCATCAGCACAGAGATGAGTGCCAGTGTAAGATTTGTCTAGGACATGCATCGGCCTCGA
66 GACATGGCATCAGCACAGAGATGAGTGCCAGTGTAAGATTTGTCTAGGACATGCATCGGCCTCGA
64458185 AAGAGATAGCCAGTGTAAGACCATGTTTGGAACATGGCATCGGTACAGAGATAAGTGCCAGTGTA
131 AAGAGATAGCCAGTGTAAGACCATGTTTGGAACATGGCATCGGTACAGAGATAAGTGCCAGTGTA
64458250 AGACATGTTTGGGACATGCATCGGCCTCGACAGATATAGCCAGTGTAAGACGTGTCTGGGACACA
196 AGACATGTTTGGGACATGCATCGGCCTCGACAGATATAGCCAGTGTAAGACGTGTCTGGGACACA
64458315 CATCGGCTAAGAGTTGTGCTAGTGTAAGACATGTCTGGGACATGCATCAGCATGCGTATATGAGA
261 CATCGGCTAAGAGTTGTGCTAGTGTAAGACATGTCTGGGACATGCATCAGCATGCGTATATGAGA
64458380 GCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCATCCAGACGAGGGCT
326 GCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCATCCAGACGAGGGCT
* * *
64458431 AGTGTAAAACATGTTTAGGACATGCATCAGCCATACTATGATAGCCAGTGTAAGACCATGTCTGG
1 AGTGTAAAACATGTCTAGGACATGCATCAGCCACACTATGAGAGCCAGTGTAAGACCATGTCTGG
64458496 GACATGGCATCAGCACAGAGATGAGTGCCAGTGTAAGATTTGTCTAGGACATGCATCGGCCTCGA
66 GACATGGCATCAGCACAGAGATGAGTGCCAGTGTAAGATTTGTCTAGGACATGCATCGGCCTCGA
64458561 AAGAGATAGCCAGTGTAAGACCATGTTTGGAACATGGCATCGGTACAGAGATAAGTGCCAGTGTA
131 AAGAGATAGCCAGTGTAAGACCATGTTTGGAACATGGCATCGGTACAGAGATAAGTGCCAGTGTA
64458626 AGACATGTTTGGGACATGCATCGGCCTCGACAGATATAGCCAGTGTAAGACGTGTCTGGGACACA
196 AGACATGTTTGGGACATGCATCGGCCTCGACAGATATAGCCAGTGTAAGACGTGTCTGGGACACA
64458691 CATCGGCTAAGAGTTGTGCTAGTGTAAGACATGTCTGGGACATGCATCAGCATGCGTATATGAGA
261 CATCGGCTAAGAGTTGTGCTAGTGTAAGACATGTCTGGGACATGCATCAGCATGCGTATATGAGA
64458756 GCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCA
326 GCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCA
64458793 ATATATCCCA
Statistics
Matches: 354, Mismatches: 8, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
376 354 1.00
ACGTcount: A:0.29, C:0.20, G:0.29, T:0.23
Consensus pattern (376 bp):
AGTGTAAAACATGTCTAGGACATGCATCAGCCACACTATGAGAGCCAGTGTAAGACCATGTCTGG
GACATGGCATCAGCACAGAGATGAGTGCCAGTGTAAGATTTGTCTAGGACATGCATCGGCCTCGA
AAGAGATAGCCAGTGTAAGACCATGTTTGGAACATGGCATCGGTACAGAGATAAGTGCCAGTGTA
AGACATGTTTGGGACATGCATCGGCCTCGACAGATATAGCCAGTGTAAGACGTGTCTGGGACACA
CATCGGCTAAGAGTTGTGCTAGTGTAAGACATGTCTGGGACATGCATCAGCATGCGTATATGAGA
GCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCATCCAGACGAGGGCT
Found at i:64466100 original size:47 final size:46
Alignment explanation
Indices: 64466026--64466433 Score: 225
Period size: 47 Copynumber: 8.7 Consensus size: 46
64466016 TGCTAAGGCA
* *
64466026 GCCAGTGTAAGACCATGTTTGGAACATGGCATCGG-TACAGAGATAAGT
1 GCCAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCTACAGAGAT-AGT
* *
64466074 GCCAGTGTAAGACATGTTTGGGACATGCATCGGCCT-CGACAGATA-T
1 GCCAGTGTAAGACATGTCTGGGACATGCATCGG-CTAC-AGAGATAGT
* ** *
64466120 AGCCAGTGTAAGACGTGTCTGGGACACACATCGGCTA-AGAG-TTGT
1 -GCCAGTGTAAGACATGTCTGGGACATGCATCGGCTACAGAGATAGT
* * * * * *
64466165 GCTAGTGTAAGACATGTCTGGGACATGCTTCGGCCACATTA-TTAGA
1 GCCAGTGTAAGACATGTCTGGGACATGCATCGGCTACA-GAGATAGT
* *
64466211 GCCAGTGTAAGACCATGTTTGGGACATGGCATCGGC-ATCTAGACG--AGG
1 GCCAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCTA-C-AGA-GATAGT
* *
64466259 GCTAGTGTAAGACATGTCTGGGACATGCATCAGCCTCGACAGAGATA--
1 GCCAGTGTAAGACATGTCTGGGACATGCATC-GGCT--ACAGAGATAGT
* * * * * *
64466306 GCTAGTGTGAGACGA-GTCTAGGAAATGCATCAGCTA-AGAG-TTGT
1 GCCAGTGTAAGAC-ATGTCTGGGACATGCATCGGCTACAGAGATAGT
* * * * * * * *
64466350 GCTAGTATAAGACTTGTTTGGGACATGCATCAGC-ACGCGTATATGAGA
1 GCCAGTGTAAGACATGTCTGGGACATGCATCGGCTAC-AG-AGAT-AGT
*
64466398 GCTAGTGTAAGACCATGTCTGGGACATGACATCGGC
1 GCCAGTGTAAGA-CATGTCTGGGACATG-CATCGGC
64466434 AATATATCCC
Statistics
Matches: 283, Mismatches: 45, Indels: 62
0.73 0.12 0.16
Matches are distributed among these distances:
42 1 0.00
43 5 0.02
44 59 0.21
45 6 0.02
46 32 0.11
47 101 0.36
48 56 0.20
49 16 0.06
50 7 0.02
ACGTcount: A:0.28, C:0.19, G:0.29, T:0.24
Consensus pattern (46 bp):
GCCAGTGTAAGACATGTCTGGGACATGCATCGGCTACAGAGATAGT
Found at i:64466187 original size:91 final size:91
Alignment explanation
Indices: 64466072--64466380 Score: 311
Period size: 91 Copynumber: 3.4 Consensus size: 91
64466062 ACAGAGATAA
* *
64466072 GTGCCAGTGTAAGACATGTTTGGGACATGCATCGGCCTCGACAGATATAGCCAGTGTAAGACGTG
1 GTGCTAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGACAGATATAGCCAGTGTAAGACGTG
*
64466137 TCTGGGACACACATCGGCTAAGAGTT
66 TCTGGGACACGCATCGGCTAAGAGTT
* * *
64466163 GTGCTAGTGTAAGACATGTCTGGGACATGCTTCGG-C-C-ACATTATTAGAGCCAGTGTAAGACC
1 GTGCTAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGACA-GA-TATAGCCAGTGTAAGA-C
* * * * *
64466225 ATGTTTGGGACATGGCATCGGCATCTAGACG-A
63 GTGTCTGGGACA-CGCATCGGC-T-AAGA-GTT
* * * * * *
64466257 GGGCTAGTGTAAGACATGTCTGGGACATGCATCAGCCTCGACAGAGATAGCTAGTGTGAGACGAG
1 GTGCTAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGACAGATATAGCCAGTGTAAGACGTG
* * * *
64466322 TCTAGGAAATGCATCAGCTAAGAGTT
66 TCTGGGACACGCATCGGCTAAGAGTT
* * *
64466348 GTGCTAGTATAAGACTTGTTTGGGACATGCATC
1 GTGCTAGTGTAAGACATGTCTGGGACATGCATC
64466381 AGCACGCGTA
Statistics
Matches: 175, Mismatches: 32, Indels: 22
0.76 0.14 0.10
Matches are distributed among these distances:
88 3 0.02
89 2 0.01
90 17 0.10
91 75 0.43
92 8 0.05
93 8 0.05
94 43 0.25
95 14 0.08
96 2 0.01
97 3 0.02
ACGTcount: A:0.27, C:0.19, G:0.29, T:0.25
Consensus pattern (91 bp):
GTGCTAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGACAGATATAGCCAGTGTAAGACGTG
TCTGGGACACGCATCGGCTAAGAGTT
Found at i:64466344 original size:185 final size:187
Alignment explanation
Indices: 64466025--64466434 Score: 529
Period size: 185 Copynumber: 2.2 Consensus size: 187
64466015 GTGCTAAGGC
* * * *
64466025 AGCCAGTGTAAGACCATGTTTGGAACATGGCATCGGTACAGAGATAAGTGCCAGTGTAAGACATG
1 AGCCAGTGTAAGACCATGTTTGGGACATGGCATCGGCACAGAGACAAGGGCCAGTGTAAGACATG
* * * * * * *
64466090 TTTGGGACATGCATCGGCCTCGACAGATATAGCCAGTGTAAGACGTGTCTGGGACACACATCGGC
66 TCTGGGACATGCATCAGCCTCGACAGAGATAGCCAGTGTAAGACGAGTCTAGGAAACACATCAGC
* * * *
64466155 TAAGAGTTGTGCTAGTGTAAGACATGTCTGGGACATGCTTCGGC-CACAT-TATTAG
131 TAAGAGTTGTGCTAGTATAAGACATGTCTGGGACATGCATCAGCACACATATATGAG
* * *
64466210 AGCCAGTGTAAGACCATGTTTGGGACATGGCATCGGCATC-TAGACGAGGGCTAGTGTAAGACAT
1 AGCCAGTGTAAGACCATGTTTGGGACATGGCATCGGCA-CAGAGACAAGGGCCAGTGTAAGACAT
* * **
64466274 GTCTGGGACATGCATCAGCCTCGACAGAGATAGCTAGTGTGAGACGAGTCTAGGAAATGCATCAG
65 GTCTGGGACATGCATCAGCCTCGACAGAGATAGCCAGTGTAAGACGAGTCTAGGAAACACATCAG
* * * *
64466339 CTAAGAGTTGTGCTAGTATAAGACTTGTTTGGGACATGCATCAGCACGCGTATATGAG
130 CTAAGAGTTGTGCTAGTATAAGACATGTCTGGGACATGCATCAGCACACATATATGAG
* * *
64466397 AGCTAGTGTAAGACCATGTCTGGGACATGACATCGGCA
1 AGCCAGTGTAAGACCATGTTTGGGACATGGCATCGGCA
64466435 ATATATCCCA
Statistics
Matches: 193, Mismatches: 29, Indels: 4
0.85 0.13 0.02
Matches are distributed among these distances:
185 149 0.77
186 4 0.02
187 40 0.21
ACGTcount: A:0.28, C:0.19, G:0.29, T:0.24
Consensus pattern (187 bp):
AGCCAGTGTAAGACCATGTTTGGGACATGGCATCGGCACAGAGACAAGGGCCAGTGTAAGACATG
TCTGGGACATGCATCAGCCTCGACAGAGATAGCCAGTGTAAGACGAGTCTAGGAAACACATCAGC
TAAGAGTTGTGCTAGTATAAGACATGTCTGGGACATGCATCAGCACACATATATGAG
Found at i:64474272 original size:18 final size:20
Alignment explanation
Indices: 64474230--64474266 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
64474220 ATATTTTATG
*
64474230 ATTA-TTTAATTAGATATAT
1 ATTATTTTAATGAGATATAT
64474249 ATTATTTTAATGAGATAT
1 ATTATTTTAATGAGATAT
64474267 TTTATTATTA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
19 4 0.25
20 12 0.75
ACGTcount: A:0.41, C:0.00, G:0.08, T:0.51
Consensus pattern (20 bp):
ATTATTTTAATGAGATATAT
Found at i:64476511 original size:46 final size:46
Alignment explanation
Indices: 64476459--64477513 Score: 1873
Period size: 46 Copynumber: 23.0 Consensus size: 46
64476449 AGTGTGCTCT
64476459 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
64476505 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
64476551 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
64476597 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
64476643 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
64476689 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
64476735 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
64476781 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
64476827 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
64476873 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
64476919 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
64476965 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
64477011 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
64477057 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
64477103 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
64477149 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
64477195 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
64477241 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
64477287 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGC-AC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
* * * *
64477332 CCGATATGAAACGTGTAAGACCACGGTTGAAAGATACCATGGCAAT
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
* *** *** *
64477378 ATGACGGGAAATAAATAAGACCATGGTTGAAAGATACCATGGCAGC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
* * **
64477424 GTGACA-GAAAATGAATAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATG-AAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
* * * * * *
64477470 ATGACA-GAAAATGAGTAAGACCATAGTTGAAAGACACTATGGCA
1 CTGATATG-AAATGTGTAAGACCATGGTTGAAAGATACCATGGCA
64477514 TCATGTCAAA
Statistics
Matches: 982, Mismatches: 25, Indels: 4
0.97 0.02 0.00
Matches are distributed among these distances:
45 43 0.04
46 939 0.96
ACGTcount: A:0.38, C:0.15, G:0.24, T:0.23
Consensus pattern (46 bp):
CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
Found at i:64482424 original size:18 final size:18
Alignment explanation
Indices: 64482401--64482442 Score: 66
Period size: 18 Copynumber: 2.3 Consensus size: 18
64482391 GAGAGACGAG
64482401 AGAAAAAGAAATCGAAAA
1 AGAAAAAGAAATCGAAAA
* *
64482419 ATAAAAAGAAATTGAAAA
1 AGAAAAAGAAATCGAAAA
64482437 AGAAAA
1 AGAAAA
64482443 GGAGAGTGAG
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.74, C:0.02, G:0.14, T:0.10
Consensus pattern (18 bp):
AGAAAAAGAAATCGAAAA
Found at i:64482468 original size:21 final size:20
Alignment explanation
Indices: 64482435--64482474 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
64482425 AGAAATTGAA
64482435 AAAGAAAAGGAGAGTGAGAG
1 AAAGAAAAGGAGAGTGAGAG
* *
64482455 AAAGCAAAATGAGATTGAGA
1 AAAG-AAAAGGAGAGTGAGA
64482475 TTGAAAAAGA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 4 0.24
21 13 0.76
ACGTcount: A:0.55, C:0.03, G:0.33, T:0.10
Consensus pattern (20 bp):
AAAGAAAAGGAGAGTGAGAG
Found at i:64491212 original size:43 final size:43
Alignment explanation
Indices: 64491143--64491226 Score: 114
Period size: 43 Copynumber: 2.0 Consensus size: 43
64491133 GAGTGAACCA
* * * *
64491143 CTCATTCATCATTTGGAAAAAAGCTTGGTTAGCCTCTCCCTCG
1 CTCAGTCATCATCTGGAAAAAAGCTTGCTTAACCTCTCCCTCG
* *
64491186 CTCAGTCATCATCTGGAAGAAGGCTTGCTTAACCTCTCCCT
1 CTCAGTCATCATCTGGAAAAAAGCTTGCTTAACCTCTCCCT
64491227 TATGGCTACT
Statistics
Matches: 35, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
43 35 1.00
ACGTcount: A:0.23, C:0.30, G:0.17, T:0.31
Consensus pattern (43 bp):
CTCAGTCATCATCTGGAAAAAAGCTTGCTTAACCTCTCCCTCG
Found at i:64493139 original size:43 final size:43
Alignment explanation
Indices: 64493046--64493192 Score: 127
Period size: 43 Copynumber: 3.4 Consensus size: 43
64493036 TATCCTAGAT
** * ** * *
64493046 ATGGTCTTACATGTCATCATATATCAATGCCAACATCCTAGAC
1 ATGGTCTTACATGAAATCATATAACAATGCCAATGTCCCAAAC
* * * *
64493089 GTAGTCTTACATGAAATCATATAACGATGCCAATGTCCCACAC
1 ATGGTCTTACATGAAATCATATAACAATGCCAATGTCCCAAAC
* * *
64493132 ATGGTCTTACAGGTAAAAACA-AT-ACAATTCCAATGTCCCAAAC
1 ATGGTCTTACA--TGAAATCATATAACAATGCCAATGTCCCAAAC
*
64493175 ATGGTCTTACATGTAATC
1 ATGGTCTTACATGAAATC
64493193 TCATCTCGAT
Statistics
Matches: 82, Mismatches: 20, Indels: 6
0.76 0.19 0.06
Matches are distributed among these distances:
41 4 0.05
43 70 0.85
44 2 0.02
45 6 0.07
ACGTcount: A:0.35, C:0.24, G:0.13, T:0.28
Consensus pattern (43 bp):
ATGGTCTTACATGAAATCATATAACAATGCCAATGTCCCAAAC
Found at i:64493737 original size:28 final size:29
Alignment explanation
Indices: 64493686--64493742 Score: 80
Period size: 28 Copynumber: 2.0 Consensus size: 29
64493676 TATTTCACAT
*
64493686 TTTAACCCCTCAATTTACATTTTTCTCAA
1 TTTAACCCCTCAATTGACATTTTTCTCAA
* *
64493715 TTTAATCCCT-AATTGACATTTTTGTCAA
1 TTTAACCCCTCAATTGACATTTTTCTCAA
64493743 AAGTCACTTT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
28 16 0.64
29 9 0.36
ACGTcount: A:0.28, C:0.23, G:0.04, T:0.46
Consensus pattern (29 bp):
TTTAACCCCTCAATTGACATTTTTCTCAA
Found at i:64498170 original size:21 final size:21
Alignment explanation
Indices: 64498144--64498189 Score: 92
Period size: 21 Copynumber: 2.2 Consensus size: 21
64498134 CATTTAAAGA
64498144 ACATAAGTAAAAATAAGTATT
1 ACATAAGTAAAAATAAGTATT
64498165 ACATAAGTAAAAATAAGTATT
1 ACATAAGTAAAAATAAGTATT
64498186 ACAT
1 ACAT
64498190 TCAAATCAAC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.57, C:0.07, G:0.09, T:0.28
Consensus pattern (21 bp):
ACATAAGTAAAAATAAGTATT
Found at i:64499208 original size:21 final size:20
Alignment explanation
Indices: 64499169--64499208 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
64499159 CAAAACTTGT
*
64499169 ATAACTATCATTAAACATTC
1 ATAACTATCATCAAACATTC
*
64499189 ATAATCTATCATCAATCATT
1 ATAA-CTATCATCAAACATT
64499209 AAAGCTCATA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 4 0.24
21 13 0.76
ACGTcount: A:0.42, C:0.20, G:0.00, T:0.38
Consensus pattern (20 bp):
ATAACTATCATCAAACATTC
Found at i:64500830 original size:47 final size:47
Alignment explanation
Indices: 64500732--64500859 Score: 152
Period size: 47 Copynumber: 2.7 Consensus size: 47
64500722 AATCGATAAG
* * *** *
64500732 TACCTATACCATGGCCTATAGCCAAATCAAGGTAACTTATTCTGGAG
1 TACCTATACTATGGCCTATAGCCAAATCAAGGTAACTTACTCCAAAA
*
64500779 TACCTATACTATGGCCTGTAGCCAAATCAAGGTAACTT-CTCACAAAA
1 TACCTATACTATGGCCTATAGCCAAATCAAGGTAACTTACTC-CAAAA
*
64500826 TACCTATA-TCATGGCCCATAGCCAAATCAAGGTA
1 TACCTATACT-ATGGCCTATAGCCAAATCAAGGTA
64500860 TTATTCGCAC
Statistics
Matches: 70, Mismatches: 9, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
46 3 0.04
47 67 0.96
ACGTcount: A:0.34, C:0.25, G:0.15, T:0.26
Consensus pattern (47 bp):
TACCTATACTATGGCCTATAGCCAAATCAAGGTAACTTACTCCAAAA
Found at i:64506822 original size:63 final size:63
Alignment explanation
Indices: 64506743--64506993 Score: 484
Period size: 63 Copynumber: 4.0 Consensus size: 63
64506733 ACACTAACTT
*
64506743 TTAGTTTTGTACTAGGATTAATTTGTTAATTAACCTTCATTAACTATGTTTTAATTAAATAAG
1 TTAGTTTTATACTAGGATTAATTTGTTAATTAACCTTCATTAACTATGTTTTAATTAAATAAG
64506806 TTAGTTTTATACTAGGATTAATTTGTTAATTAACCTTCATTAACTATGTTTTAATTAAATAAG
1 TTAGTTTTATACTAGGATTAATTTGTTAATTAACCTTCATTAACTATGTTTTAATTAAATAAG
64506869 TTAGTTTTATACTAGGATTAATTTGTTAATTAACCTTCATTAACTATGTTTTAATTAAATAAG
1 TTAGTTTTATACTAGGATTAATTTGTTAATTAACCTTCATTAACTATGTTTTAATTAAATAAG
*
64506932 TTAGTTTTATACTAGGATTAATTTGTTAATTAACCTTAATTAACTATGTTTTAATTAAATAA
1 TTAGTTTTATACTAGGATTAATTTGTTAATTAACCTTCATTAACTATGTTTTAATTAAATAA
64506994 ACCTTTAATT
Statistics
Matches: 186, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
63 186 1.00
ACGTcount: A:0.35, C:0.08, G:0.10, T:0.48
Consensus pattern (63 bp):
TTAGTTTTATACTAGGATTAATTTGTTAATTAACCTTCATTAACTATGTTTTAATTAAATAAG
Found at i:64507258 original size:22 final size:22
Alignment explanation
Indices: 64507224--64507272 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 22
64507214 CGGGTTGATG
* *
64507224 ACACAGGCGTGTCATATCAGAC
1 ACACAGGCATGTCATATAAGAC
* *
64507246 ACACGGGCATGTCATATAAGCC
1 ACACAGGCATGTCATATAAGAC
64507268 ACACA
1 ACACA
64507273 AGCGTGTGGT
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.35, C:0.29, G:0.20, T:0.16
Consensus pattern (22 bp):
ACACAGGCATGTCATATAAGAC
Found at i:64510412 original size:6 final size:6
Alignment explanation
Indices: 64510403--64510434 Score: 55
Period size: 6 Copynumber: 5.3 Consensus size: 6
64510393 CACCGTAAGG
*
64510403 GTAACA GTAATA GTAACA GTAACA GTAACA GT
1 GTAACA GTAACA GTAACA GTAACA GTAACA GT
64510435 CAGGTACGGA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
6 24 1.00
ACGTcount: A:0.47, C:0.12, G:0.19, T:0.22
Consensus pattern (6 bp):
GTAACA
Found at i:64511301 original size:15 final size:16
Alignment explanation
Indices: 64511281--64511319 Score: 53
Period size: 15 Copynumber: 2.5 Consensus size: 16
64511271 CCGTTTTCTT
*
64511281 TTTCTTTCATTTTTC-
1 TTTCTTTCATATTTCG
*
64511296 TTTCTTTCCTATTTCG
1 TTTCTTTCATATTTCG
64511312 TTTCTTTC
1 TTTCTTTC
64511320 TCTGTTCTTA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
15 13 0.62
16 8 0.38
ACGTcount: A:0.05, C:0.23, G:0.03, T:0.69
Consensus pattern (16 bp):
TTTCTTTCATATTTCG
Found at i:64518099 original size:5 final size:5
Alignment explanation
Indices: 64518091--64518150 Score: 75
Period size: 5 Copynumber: 11.4 Consensus size: 5
64518081 AGACGAGAGA
* *
64518091 GGAGG GGAGG GGGGG GGAGG GGNAGACG AGAGG GGAGG GGAGG GGAGG
1 GGAGG GGAGG GGAGG GGAGG GG-AG--G GGAGG GGAGG GGAGG GGAGG
64518139 GGAGG GGAGG GG
1 GGAGG GGAGG GG
64518151 GAGAGAATAA
Statistics
Matches: 48, Mismatches: 4, Indels: 6
0.83 0.07 0.10
Matches are distributed among these distances:
5 42 0.88
6 2 0.04
7 2 0.04
8 2 0.04
ACGTcount: A:0.20, C:0.02, G:0.77, T:0.00
Consensus pattern (5 bp):
GGAGG
Found at i:64518119 original size:33 final size:32
Alignment explanation
Indices: 64518080--64518147 Score: 109
Period size: 33 Copynumber: 2.1 Consensus size: 32
64518070 TATGGGGAGA
*
64518080 GAGACGAGAGAGGAGGGGAGGGGGGGGGAGGG
1 GAGACGAGAGAGGAGGGGAGGGGAGGGGAGGG
*
64518112 GNAGACGAGAGGGGAGGGGAGGGGAGGGGAGGG
1 G-AGACGAGAGAGGAGGGGAGGGGAGGGGAGGG
64518145 GAG
1 GAG
64518148 GGGGAGAGAA
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
32 3 0.09
33 30 0.91
ACGTcount: A:0.25, C:0.03, G:0.71, T:0.00
Consensus pattern (32 bp):
GAGACGAGAGAGGAGGGGAGGGGAGGGGAGGG
Found at i:64524898 original size:29 final size:29
Alignment explanation
Indices: 64524866--64524924 Score: 109
Period size: 29 Copynumber: 2.0 Consensus size: 29
64524856 TGAGTATGCT
64524866 TGGTTTAGGGAAGACAAGGGTTGCATGAG
1 TGGTTTAGGGAAGACAAGGGTTGCATGAG
*
64524895 TGGTTTAGGTAAGACAAGGGTTGCATGAG
1 TGGTTTAGGGAAGACAAGGGTTGCATGAG
64524924 T
1 T
64524925 AAATTTTGGC
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:0.27, C:0.07, G:0.39, T:0.27
Consensus pattern (29 bp):
TGGTTTAGGGAAGACAAGGGTTGCATGAG
Found at i:64530278 original size:40 final size:39
Alignment explanation
Indices: 64530234--64530310 Score: 109
Period size: 39 Copynumber: 1.9 Consensus size: 39
64530224 AGTGACCATA
* *
64530234 TCCGGACTAAGATCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGACTAAG-CCCAAAGGCATTTGTGCGAGATACTAAT
* *
64530274 TCCGGGCTAAGCCCAAAGGCATTTGTGCGAGTTACTA
1 TCCGGACTAAGCCCAAAGGCATTTGTGCGAGATACTA
64530311 TAACCGGGCT
Statistics
Matches: 33, Mismatches: 4, Indels: 1
0.87 0.11 0.03
Matches are distributed among these distances:
39 23 0.70
40 10 0.30
ACGTcount: A:0.27, C:0.22, G:0.26, T:0.25
Consensus pattern (39 bp):
TCCGGACTAAGCCCAAAGGCATTTGTGCGAGATACTAAT
Found at i:64530345 original size:40 final size:39
Alignment explanation
Indices: 64530196--64530338 Score: 130
Period size: 40 Copynumber: 3.6 Consensus size: 39
64530186 GAATGATGTT
* * *
64530196 CGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAC-CATATC
1 CGGGCTAAG-CCCGAAGGCATTTGTGC-GAGTTACTAATA-C
* * * *
64530236 CGGACTAAGATCCGAAGGCATTTGTGCGAGATACTAATTC
1 CGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAATAC
*
64530276 CGGGCTAAGCCCAAAGGCATTTGTGCGAGTTACT-ATAAC
1 CGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAAT-AC
*
64530315 CGGGCTATGTCCCGAAGGCATTTG
1 CGGGCTAAG-CCCGAAGGCATTTG
64530339 AACGAGTAGC
Statistics
Matches: 84, Mismatches: 15, Indels: 8
0.79 0.14 0.07
Matches are distributed among these distances:
38 2 0.02
39 31 0.37
40 42 0.50
41 9 0.11
ACGTcount: A:0.25, C:0.23, G:0.27, T:0.24
Consensus pattern (39 bp):
CGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAATAC
Found at i:64538381 original size:79 final size:81
Alignment explanation
Indices: 64538245--64538429 Score: 236
Period size: 79 Copynumber: 2.3 Consensus size: 81
64538235 TTGAATGATG
*
64538245 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGATTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGATTAAGATCCGAAGGCATT
64538309 TGTGCGAGATACTA-A
66 TGTGCGAGATACTATA
* * * *
64538324 TTCCGGGCTAAG-CCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCA
1 -TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGATTAAGAT-CCGAAGGCA
*
64538386 TTTGTGCGAGTTACTATA
64 TTTGTGCGAGATACTATA
* * *
64538404 ACTGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
64538430 AACGAGTAGC
Statistics
Matches: 92, Mismatches: 9, Indels: 8
0.84 0.08 0.07
Matches are distributed among these distances:
78 1 0.01
79 58 0.63
80 33 0.36
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGATTAAGATCCGAAGGCATT
TGTGCGAGATACTATA
Found at i:64538436 original size:40 final size:40
Alignment explanation
Indices: 64538245--64538429 Score: 216
Period size: 40 Copynumber: 4.7 Consensus size: 40
64538235 TTGAATGATG
* * * *
64538245 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
** * *
64538285 TCCGGATTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
64538325 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
64538364 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
* *
64538405 -CTGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
64538430 AACGAGTAGC
Statistics
Matches: 124, Mismatches: 16, Indels: 10
0.83 0.11 0.07
Matches are distributed among these distances:
39 35 0.28
40 79 0.64
41 10 0.08
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:64538451 original size:79 final size:77
Alignment explanation
Indices: 64538246--64538462 Score: 206
Period size: 79 Copynumber: 2.7 Consensus size: 77
64538236 TGAATGATGT
** * * *
64538246 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGATTAAGATCCGAAGGCATTT
1 CCGGGCTAAG-CCCGAAGGCATTTGAAC-GAGTTACTATATCCGG-TTAAG-TCCGAAGGCATTT
*
64538310 GTGCGAGATACTAATT
62 GTGCGAGATACTAATA
** *
64538326 CCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTTGT
1 CCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTATATCC-GGTTAAGT-CCGAAGGCATTTGT
*
64538391 GCGAGTTACT-ATAA
64 GCGAGATACTAAT-A
* * *
64538405 CTGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGCTATATCCGGTTAAATTCCGAAGG
1 CCGGGCTAAG-CCCGAAGGCATTTGAACGAGTTA-CTATATCCGGTT-AAGTCCGAAGG
64538463 TACGTGATTT
Statistics
Matches: 118, Mismatches: 12, Indels: 15
0.81 0.08 0.10
Matches are distributed among these distances:
78 3 0.03
79 68 0.58
80 47 0.40
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.26
Consensus pattern (77 bp):
CCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTATATCCGGTTAAGTCCGAAGGCATTTGTGC
GAGATACTAATA
Found at i:64547963 original size:42 final size:42
Alignment explanation
Indices: 64547894--64548015 Score: 174
Period size: 42 Copynumber: 2.9 Consensus size: 42
64547884 ATGTTATAGT
* **
64547894 ATATCGATGCCAATAG-CCCAGCTATGGTCTTACACGAATCTC
1 ATATCGATGCCAAT-GTCACAGAAATGGTCTTACACGAATCTC
* *
64547936 ATATCGATGCCAATGTTACAGACATGGTCTTACACGAATCTC
1 ATATCGATGCCAATGTCACAGAAATGGTCTTACACGAATCTC
*
64547978 ATATCGATGCCAATGTCCCAGAAATGGTCTTACACGAA
1 ATATCGATGCCAATGTCACAGAAATGGTCTTACACGAA
64548016 ATCACATCCC
Statistics
Matches: 72, Mismatches: 7, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
41 1 0.01
42 71 0.99
ACGTcount: A:0.31, C:0.25, G:0.17, T:0.26
Consensus pattern (42 bp):
ATATCGATGCCAATGTCACAGAAATGGTCTTACACGAATCTC
Found at i:64552187 original size:47 final size:46
Alignment explanation
Indices: 64552069--64552325 Score: 198
Period size: 47 Copynumber: 5.5 Consensus size: 46
64552059 ATTGACGATT
* * *
64552069 AAGGATACCATGTAAGACCATGTCAAGACATGGCATTGGTAAG-GC
1 AAGGATACCATGTAAGACCATGTCAAGACATGGCATTGGCATGATC
* * * *
64552114 AAGGATCCCTTGTAAGACCATGTCAAGACATGGCATCGGCATTGATT
1 AAGGATACCATGTAAGACCATGTCAAGACATGGCATTGGCA-TGATC
** ** *
64552161 AAGGACT-CCATGTAAGACCACATCAAGATGTGGCATTGGCACTAATAC
1 AAGGA-TACCATGTAAGACCATGTCAAGACATGGCATTGGCA-TGAT-C
*** * * *
64552209 AAGGATACCATGTAAGACCATGTTTGGAACATGGCATTTGGTAAGA-G
1 AAGGATACCATGTAAGACCATGTCAAG-ACATGGCA-TTGGCATGATC
* *** * *
64552256 ATGGATACCATGTAAGACCATGTTTGGAACATGGCATTTGGTAAGA-C
1 AAGGATACCATGTAAGACCATGTCAAG-ACATGGCA-TTGGCATGATC
64552303 AAGGATACCATGTAAGACCATGT
1 AAGGATACCATGTAAGACCATGT
64552326 TTGGAACATG
Statistics
Matches: 175, Mismatches: 30, Indels: 12
0.81 0.14 0.06
Matches are distributed among these distances:
45 37 0.21
46 1 0.01
47 104 0.59
48 21 0.12
49 7 0.04
50 5 0.03
ACGTcount: A:0.34, C:0.18, G:0.25, T:0.24
Consensus pattern (46 bp):
AAGGATACCATGTAAGACCATGTCAAGACATGGCATTGGCATGATC
Found at i:64552326 original size:47 final size:47
Alignment explanation
Indices: 64552207--64552367 Score: 277
Period size: 47 Copynumber: 3.4 Consensus size: 47
64552197 TGGCACTAAT
64552207 ACAAGGATACCATGTAAGACCATGTTTGGAACATGGCATTTGGTAAG
1 ACAAGGATACCATGTAAGACCATGTTTGGAACATGGCATTTGGTAAG
* *
64552254 AGATGGATACCATGTAAGACCATGTTTGGAACATGGCATTTGGTAAG
1 ACAAGGATACCATGTAAGACCATGTTTGGAACATGGCATTTGGTAAG
*
64552301 ACAAGGATACCATGTAAGACCATGTTTGGAACATGGCATTTGGTAAC
1 ACAAGGATACCATGTAAGACCATGTTTGGAACATGGCATTTGGTAAG
* *
64552348 ATAAGGATATCATGTAAGAC
1 ACAAGGATACCATGTAAGAC
64552368 ATGCCAAGGC
Statistics
Matches: 107, Mismatches: 7, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
47 107 1.00
ACGTcount: A:0.35, C:0.14, G:0.25, T:0.26
Consensus pattern (47 bp):
ACAAGGATACCATGTAAGACCATGTTTGGAACATGGCATTTGGTAAG
Found at i:64552469 original size:55 final size:53
Alignment explanation
Indices: 64552358--64552541 Score: 203
Period size: 55 Copynumber: 3.5 Consensus size: 53
64552348 ATAAGGATAT
* * * * * ***
64552358 CATGTAAGA-CATGCCAAGGCA-AGCATTGATAAGTTCTATAAGGCAAGGAAAT
1 CATGTAAGACCATGTCAAGACATGGCATTGATGAGTTC-ATAAGGAAAGGATCC
64552410 CATGTAAGACCATGTCAAGACATGGCATTGATGAGTTACTATAAGGTAAAGG-TCC
1 CATGTAAGACCATGTCAAGACATGGCATTGATGAGTT-C-ATAAGG-AAAGGATCC
* * *
64552465 CATGTAAGACCATGCCAAGACATGGCATTGGTGAGTTCATAAGGCAAGGATCC
1 CATGTAAGACCATGTCAAGACATGGCATTGATGAGTTCATAAGGAAAGGATCC
*
64552518 CACGTAAGACCATGTCAAGACATG
1 CATGTAAGACCATGTCAAGACATG
64552542 ACAATGGTAA
Statistics
Matches: 114, Mismatches: 13, Indels: 9
0.84 0.10 0.07
Matches are distributed among these distances:
52 13 0.11
53 41 0.36
54 13 0.11
55 43 0.38
56 4 0.04
ACGTcount: A:0.36, C:0.18, G:0.24, T:0.22
Consensus pattern (53 bp):
CATGTAAGACCATGTCAAGACATGGCATTGATGAGTTCATAAGGAAAGGATCC
Found at i:64552556 original size:53 final size:54
Alignment explanation
Indices: 64552358--64552555 Score: 215
Period size: 53 Copynumber: 3.7 Consensus size: 54
64552348 ATAAGGATAT
* * * * ***
64552358 CATGTAAGA-CATGCCAAGGCA-AGCATTGATAAGTTCTATAAGGCAAGGAAAT
1 CATGTAAGACCATGTCAAGACATGGCATTGGTAAGTTCTATAAGGCAAGGATCC
* * *
64552410 CATGTAAGACCATGTCAAGACATGGCATTGATGAGTTACTATAAGGTAAAGG-TCC
1 CATGTAAGACCATGTCAAGACATGGCATTGGTAAGTT-CTATAAGG-CAAGGATCC
* *
64552465 CATGTAAGACCATGCCAAGACATGGCATTGGTGAGTTC-ATAAGGCAAGGATCC
1 CATGTAAGACCATGTCAAGACATGGCATTGGTAAGTTCTATAAGGCAAGGATCC
* * *
64552518 CACGTAAGACCATGTCAAGACATGACAATGGTAAGTTC
1 CATGTAAGACCATGTCAAGACATGGCATTGGTAAGTTC
64552556 AAAAGGGAAA
Statistics
Matches: 125, Mismatches: 16, Indels: 9
0.83 0.11 0.06
Matches are distributed among these distances:
52 13 0.10
53 52 0.42
54 13 0.10
55 43 0.34
56 4 0.03
ACGTcount: A:0.36, C:0.18, G:0.24, T:0.22
Consensus pattern (54 bp):
CATGTAAGACCATGTCAAGACATGGCATTGGTAAGTTCTATAAGGCAAGGATCC
Found at i:64558295 original size:42 final size:42
Alignment explanation
Indices: 64558263--64558357 Score: 181
Period size: 42 Copynumber: 2.3 Consensus size: 42
64558253 TAGCCCAGCT
64558263 ATGGTCTTACATGAATCTCATATCGATGCCAATGTCTCAAAC
1 ATGGTCTTACATGAATCTCATATCGATGCCAATGTCTCAAAC
*
64558305 ATGGTCTTACATGAATCTCATATCGATGCCAATGTCCCAAAC
1 ATGGTCTTACATGAATCTCATATCGATGCCAATGTCTCAAAC
64558347 ATGGTCTTACA
1 ATGGTCTTACA
64558358 CGAAATCACA
Statistics
Matches: 52, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
42 52 1.00
ACGTcount: A:0.31, C:0.24, G:0.15, T:0.31
Consensus pattern (42 bp):
ATGGTCTTACATGAATCTCATATCGATGCCAATGTCTCAAAC
Found at i:64562056 original size:19 final size:19
Alignment explanation
Indices: 64562029--64562065 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
64562019 GTCATCATAG
64562029 ATTCATAGGCATAACTTAA
1 ATTCATAGGCATAACTTAA
*
64562048 ATTCGTAGGCATAACTTA
1 ATTCATAGGCATAACTTA
64562066 CACATTTTCA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.38, C:0.16, G:0.14, T:0.32
Consensus pattern (19 bp):
ATTCATAGGCATAACTTAA
Found at i:64569109 original size:130 final size:130
Alignment explanation
Indices: 64568876--64569138 Score: 517
Period size: 130 Copynumber: 2.0 Consensus size: 130
64568866 GATGTCATCA
64568876 ACATAATTAGGGTCACACGGCCGAGGCACACGTCCGTGTTCTTAGGCCATGTGGCGAATCAAATT
1 ACATAATTAGGGTCACACGGCCGAGGCACACGTCCGTGTTCTTAGGCCATGTGGCGAATCAAATT
64568941 CCAATAATTAAGTGCAGACTTCATACTGCCTGGGCACACACCCATGTCCTGAGGCCGTACCCTTT
66 CCAATAATTAAGTGCAGACTTCATACTGCCTGGGCACACACCCATGTCCTGAGGCCGTACCCTTT
*
64569006 ACATAATTAGGGTCACACGGCTGAGGCACACGTCCGTGTTCTTAGGCCATGTGGCGAATCAAATT
1 ACATAATTAGGGTCACACGGCCGAGGCACACGTCCGTGTTCTTAGGCCATGTGGCGAATCAAATT
64569071 CCAATAATTAAGTGCAGACTTCATACTGCCTGGGCACACACCCATGTCCTGAGGCCGTACCCTTT
66 CCAATAATTAAGTGCAGACTTCATACTGCCTGGGCACACACCCATGTCCTGAGGCCGTACCCTTT
64569136 ACA
1 ACA
64569139 AGGTTGAGAC
Statistics
Matches: 132, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
130 132 1.00
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (130 bp):
ACATAATTAGGGTCACACGGCCGAGGCACACGTCCGTGTTCTTAGGCCATGTGGCGAATCAAATT
CCAATAATTAAGTGCAGACTTCATACTGCCTGGGCACACACCCATGTCCTGAGGCCGTACCCTTT
Found at i:64570050 original size:19 final size:19
Alignment explanation
Indices: 64570026--64570065 Score: 71
Period size: 19 Copynumber: 2.1 Consensus size: 19
64570016 TGTGTCATCA
64570026 TAAATTCATAGGCATAACT
1 TAAATTCATAGGCATAACT
*
64570045 TAAATTCGTAGGCATAACT
1 TAAATTCATAGGCATAACT
64570064 TA
1 TA
64570066 CACATTTTCA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.40, C:0.15, G:0.12, T:0.33
Consensus pattern (19 bp):
TAAATTCATAGGCATAACT
Found at i:64572024 original size:20 final size:21
Alignment explanation
Indices: 64571974--64572072 Score: 60
Period size: 20 Copynumber: 4.9 Consensus size: 21
64571964 GCTTGTACAG
* *
64571974 GTTTGCCCTTCGGTGCCTCTA
1 GTTTGCACTTCGGTGCCCCTA
*
64571995 TTTTGCACTTCGGTGCCCCT-
1 GTTTGCACTTCGGTGCCCCTA
* ** * **
64572015 GTTTGTACTTTTGTACTTCTA
1 GTTTGCACTTCGGTGCCCCTA
* **
64572036 -TTTTCACTTTTGTGCCCCT-
1 GTTTGCACTTCGGTGCCCCTA
*
64572055 GTTTGCACTACGGTGCCC
1 GTTTGCACTTCGGTGCCC
64572073 TTGCTTGTAG
Statistics
Matches: 57, Mismatches: 19, Indels: 5
0.70 0.23 0.06
Matches are distributed among these distances:
20 40 0.70
21 17 0.30
ACGTcount: A:0.08, C:0.29, G:0.19, T:0.43
Consensus pattern (21 bp):
GTTTGCACTTCGGTGCCCCTA
Found at i:64575130 original size:12 final size:12
Alignment explanation
Indices: 64575113--64575153 Score: 52
Period size: 12 Copynumber: 3.7 Consensus size: 12
64575103 ATCACATTAC
64575113 ACTTAACCACAT
1 ACTTAACCACAT
*
64575125 ACTTAA-C-C-G
1 ACTTAACCACAT
64575134 ACTTAACCACAT
1 ACTTAACCACAT
64575146 ACTTAACC
1 ACTTAACC
64575154 GACCGGACAC
Statistics
Matches: 24, Mismatches: 2, Indels: 6
0.75 0.06 0.19
Matches are distributed among these distances:
9 6 0.25
10 2 0.08
11 2 0.08
12 14 0.58
ACGTcount: A:0.39, C:0.34, G:0.02, T:0.24
Consensus pattern (12 bp):
ACTTAACCACAT
Found at i:64575139 original size:21 final size:21
Alignment explanation
Indices: 64575113--64575156 Score: 88
Period size: 21 Copynumber: 2.1 Consensus size: 21
64575103 ATCACATTAC
64575113 ACTTAACCACATACTTAACCG
1 ACTTAACCACATACTTAACCG
64575134 ACTTAACCACATACTTAACCG
1 ACTTAACCACATACTTAACCG
64575155 AC
1 AC
64575157 CGGACACATT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.39, C:0.34, G:0.05, T:0.23
Consensus pattern (21 bp):
ACTTAACCACATACTTAACCG
Found at i:64581794 original size:37 final size:37
Alignment explanation
Indices: 64581744--64581822 Score: 115
Period size: 37 Copynumber: 2.1 Consensus size: 37
64581734 TTATTACGAA
* *
64581744 GTCTTACCCGGACATAA-TCTCCACACGAAGTTATCGG
1 GTCTTACCCGGACAAAATTC-CCACACGAAGTCATCGG
*
64581781 GTCTTACCCGGACAAAATTCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATTCCCACACGAAGTCATCGG
64581818 GTCTT
1 GTCTT
64581823 TAGAGCTCAG
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
37 36 0.95
38 2 0.05
ACGTcount: A:0.25, C:0.30, G:0.19, T:0.25
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATTCCCACACGAAGTCATCGG
Found at i:64582019 original size:47 final size:47
Alignment explanation
Indices: 64581941--64582263 Score: 547
Period size: 47 Copynumber: 6.9 Consensus size: 47
64581931 CCCTTCGGGA
* * * * * * *
64581941 CTTATCACATTTATGCACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
64581988 CCTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
64582035 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
64582082 CTTATTACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
64582129 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
64582176 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
64582223 CTTATCACATATATACACTTTCACATTCATCACATCGGCCA
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCA
64582264 ACATTCATCA
Statistics
Matches: 261, Mismatches: 15, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
47 261 1.00
ACGTcount: A:0.28, C:0.30, G:0.09, T:0.32
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:64582195 original size:141 final size:141
Alignment explanation
Indices: 64581941--64582426 Score: 747
Period size: 141 Copynumber: 3.4 Consensus size: 141
64581931 CCCTTCGGGA
* * * * * * * * *
64581941 CTTATCACATTTATGCACTTTCACATCCATCACGTTGGCCACTCGGCCCTGTCACATATATACAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
64582006 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATC
66 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATC
64582071 GGCCATTAGGC
131 GGCCATTAGGC
* *
64582082 CTTATTACATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACATATATACAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
64582147 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATC
66 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATC
64582212 GGCCATTAGGC
131 GGCCATTAGGC
64582223 CTTATCACATATATACACTTTCACATTCATCACATCGGCCAACATTCATCACATCGGCCCTTATC
1 CTTATCACATATATACACTTTCACATTCATCACATCGG-C--CA-T--T---A--GG-CCTTATC
*
64582288 ACATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACATATATACACTTTCAC
54 ACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCAC
*
64582353 ATTCATCACATCGGCTATTAGGC
119 ATTCATCACATCGGCCATTAGGC
64582376 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTA
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTA
64582427 CTATCATTTC
Statistics
Matches: 318, Mismatches: 15, Indels: 24
0.89 0.04 0.07
Matches are distributed among these distances:
141 172 0.54
142 3 0.01
144 2 0.01
145 1 0.00
147 2 0.01
149 1 0.00
150 3 0.01
152 3 0.01
153 131 0.41
ACGTcount: A:0.29, C:0.30, G:0.09, T:0.32
Consensus pattern (141 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATC
GGCCATTAGGC
Found at i:64582269 original size:19 final size:19
Alignment explanation
Indices: 64582245--64582281 Score: 74
Period size: 19 Copynumber: 1.9 Consensus size: 19
64582235 ATACACTTTC
64582245 ACATTCATCACATCGGCCA
1 ACATTCATCACATCGGCCA
64582264 ACATTCATCACATCGGCC
1 ACATTCATCACATCGGCC
64582282 CTTATCACAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.30, C:0.38, G:0.11, T:0.22
Consensus pattern (19 bp):
ACATTCATCACATCGGCCA
Found at i:64582298 original size:106 final size:106
Alignment explanation
Indices: 64582175--64582367 Score: 377
Period size: 106 Copynumber: 1.8 Consensus size: 106
64582165 GGCCATTAGG
64582175 CCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACA
1 CCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACA
64582240 CTTTCACATTCATCACATCGGCCAACATTCATCACATCGGC
66 CTTTCACATTCATCACATCGGCCAACATTCATCACATCGGC
*
64582281 CCTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACATATATACA
1 CCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACA
64582346 CTTTCACATTCATCACATCGGC
66 CTTTCACATTCATCACATCGGC
64582368 TATTAGGCCT
Statistics
Matches: 86, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
106 86 1.00
ACGTcount: A:0.30, C:0.31, G:0.07, T:0.32
Consensus pattern (106 bp):
CCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACA
CTTTCACATTCATCACATCGGCCAACATTCATCACATCGGC
Found at i:64582306 original size:153 final size:153
Alignment explanation
Indices: 64582128--64582416 Score: 560
Period size: 153 Copynumber: 1.9 Consensus size: 153
64582118 GGCTATTAGG
64582128 CCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACA
1 CCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACA
64582193 CTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACAT
66 CTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACAT
64582258 CGGCCAACATTCATCACATCGGC
131 CGGCCAACATTCATCACATCGGC
*
64582281 CCTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACATATATACA
1 CCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACA
*
64582346 CTTTCACATTCATCACATCGGCTATTAGGCCTTATCACATATATACACTTTCACATTCATCACAT
66 CTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACAT
64582411 CGGCCA
131 CGGCCA
64582417 TTAGGCCTTA
Statistics
Matches: 134, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
153 134 1.00
ACGTcount: A:0.30, C:0.30, G:0.08, T:0.32
Consensus pattern (153 bp):
CCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACA
CTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACAT
CGGCCAACATTCATCACATCGGC
Found at i:64582310 original size:40 final size:41
Alignment explanation
Indices: 64582264--64582414 Score: 187
Period size: 47 Copynumber: 3.4 Consensus size: 41
64582254 ACATCGGCCA
64582264 ACATTCATCACATCGGC-CCTTATCACATATATACACTTTC
1 ACATTCATCACATCGGCTCCTTATCACATATATACACTTTC
64582304 ACATTCATCACATCGGCTATTAGGCCTTATCACATATATACACTTTC
1 ACATTCATCACATCGGC---T---CCTTATCACATATATACACTTTC
64582351 ACATTCATCACATCGGCTATTAGGCCTTATCACATATATACACTTTC
1 ACATTCATCACATCGGC---T---CCTTATCACATATATACACTTTC
64582398 ACATTCATCACATCGGC
1 ACATTCATCACATCGGC
64582415 CATTAGGCCT
Statistics
Matches: 104, Mismatches: 0, Indels: 7
0.94 0.00 0.06
Matches are distributed among these distances:
40 17 0.16
47 87 0.84
ACGTcount: A:0.30, C:0.30, G:0.08, T:0.32
Consensus pattern (41 bp):
ACATTCATCACATCGGCTCCTTATCACATATATACACTTTC
Found at i:64582334 original size:47 final size:47
Alignment explanation
Indices: 64582281--64582426 Score: 283
Period size: 47 Copynumber: 3.1 Consensus size: 47
64582271 TCACATCGGC
64582281 CCTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGG
1 CCTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGG
64582328 CCTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGG
1 CCTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGG
*
64582375 CCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGG
1 CCTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGG
64582422 CCTTA
1 CCTTA
64582427 CTATCATTTC
Statistics
Matches: 98, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
47 98 1.00
ACGTcount: A:0.29, C:0.29, G:0.08, T:0.34
Consensus pattern (47 bp):
CCTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGG
Found at i:64586704 original size:21 final size:21
Alignment explanation
Indices: 64586680--64586720 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
64586670 GAGATTTTTT
*
64586680 TATTTGTTAATTTCATTTTAG
1 TATTTGTTAATTTCACTTTAG
* *
64586701 TATTTTTTATTTTCACTTTA
1 TATTTGTTAATTTCACTTTA
64586721 TGACTTTAAT
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:0.22, C:0.07, G:0.05, T:0.66
Consensus pattern (21 bp):
TATTTGTTAATTTCACTTTAG
Found at i:64591475 original size:27 final size:27
Alignment explanation
Indices: 64591445--64591622 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
64591435 ATATTGAGTC
* * * *
64591445 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
64591472 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
64591499 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
64591527 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
64591554 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
64591581 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
64591608 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
64591623 GTACAATTTA
Statistics
Matches: 130, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 24 0.18
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:64591584 original size:82 final size:81
Alignment explanation
Indices: 64591466--64591621 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
64591456 TGCTATATAA
* *
64591466 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
64591531 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
64591548 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
64591612 CACTTAGTGC
65 CACTTAGTGC
64591622 TGTACAATTT
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 16 0.24
82 51 0.76
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:64598351 original size:27 final size:27
Alignment explanation
Indices: 64598321--64598498 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
64598311 ATATTGAGTC
* * * *
64598321 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
64598348 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
64598375 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
64598403 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
64598430 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
64598457 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
64598484 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
64598499 GTACAATTTA
Statistics
Matches: 130, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 24 0.18
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:64598460 original size:82 final size:81
Alignment explanation
Indices: 64598342--64598497 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
64598332 TGCTATATAA
* *
64598342 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
64598407 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
64598424 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
64598488 CACTTAGTGC
65 CACTTAGTGC
64598498 TGTACAATTT
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 16 0.24
82 51 0.76
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:64607795 original size:12 final size:13
Alignment explanation
Indices: 64607777--64607810 Score: 52
Period size: 12 Copynumber: 2.7 Consensus size: 13
64607767 GGCATCTTAA
64607777 AAAAAGAGAAAAG
1 AAAAAGAGAAAAG
*
64607790 -AAAAGAAAAAAG
1 AAAAAGAGAAAAG
64607802 AAAAAGAGA
1 AAAAAGAGA
64607811 GAGGGATCAA
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
12 11 0.61
13 7 0.39
ACGTcount: A:0.79, C:0.00, G:0.21, T:0.00
Consensus pattern (13 bp):
AAAAAGAGAAAAG
Found at i:64608866 original size:13 final size:13
Alignment explanation
Indices: 64608824--64608866 Score: 54
Period size: 13 Copynumber: 3.4 Consensus size: 13
64608814 CGCCGAGGTA
64608824 TTTTTAATTT-T-
1 TTTTTAATTTCTG
64608835 TTTTTCAATTTCTG
1 TTTTT-AATTTCTG
*
64608849 CTTTTAATTTCTG
1 TTTTTAATTTCTG
64608862 TTTTT
1 TTTTT
64608867 CAAAAATCAA
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
11 5 0.19
12 5 0.19
13 13 0.48
14 4 0.15
ACGTcount: A:0.14, C:0.09, G:0.05, T:0.72
Consensus pattern (13 bp):
TTTTTAATTTCTG
Found at i:64608911 original size:98 final size:98
Alignment explanation
Indices: 64608736--64609130 Score: 429
Period size: 98 Copynumber: 4.1 Consensus size: 98
64608726 CGCTGAGGTA
* *
64608736 TTTTCAATTTCTGTTTTTTCAATTTATGCTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGCT
1 TTTTCAATTTCTG-CTTTT-AATTTATGCTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTT
** * * *
64608801 GAGCCTTGGGGCACGCCGAGGTATTTTTAATTTTT
64 GAGCCTCAGGACACGCTGAGGTATTTTCAATTTTT
* *
64608836 TTTTCAATTTCTGCTTTTAATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGA
1 TTTTCAATTTCTGCTTTTAATTTATGCTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGA
* *
64608901 GCCTCAGGGCACGCTGAGGTATTTTCAATTTCCGT
66 GCCTCAGGACACGCTGAGGTATTTTCAATTT--TT
* ** * * *
64608936 TTTTCAATTTTTGCGTTACAAATTCTGCTTTTC--AAATCAACTCATATTGCGAAAGGTGAGTTG
1 TTTTCAATTTCTGC-TTTTAATTTATGCTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTG
64608999 AGCCTCAGGACACGCTGAGGTATTTTCAA-----
65 AGCCTCAGGACACGCTGAGGTATTTTCAATTTTT
* *
64609028 TTTTC-A-TT-T--TTTTAATTTATG-TTTCTAAAAAAATCAACTCATATTGCGAGAAGTGAGTT
1 TTTTCAATTTCTGCTTTTAATTTATGCTTT-T-CAAAAATCAACTCATATTGCGAGAGGTGAGTT
* *
64609087 GAGCCTCCGGACACGCTGAGGTAATTTCAATTTTT
64 GAGCCTCAGGACACGCTGAGGTATTTTCAATTTTT
64609122 GTTTGTCAA
1 -TTT-TCAA
64609131 AACTCAACTC
Statistics
Matches: 255, Mismatches: 25, Indels: 33
0.81 0.08 0.11
Matches are distributed among these distances:
85 3 0.01
86 9 0.04
89 56 0.22
90 2 0.01
91 1 0.00
92 5 0.02
95 3 0.01
96 2 0.01
97 1 0.00
98 71 0.28
99 61 0.24
100 27 0.11
101 14 0.05
ACGTcount: A:0.25, C:0.17, G:0.18, T:0.40
Consensus pattern (98 bp):
TTTTCAATTTCTGCTTTTAATTTATGCTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGA
GCCTCAGGACACGCTGAGGTATTTTCAATTTTT
Found at i:64609237 original size:148 final size:147
Alignment explanation
Indices: 64609036--64609646 Score: 766
Period size: 148 Copynumber: 4.1 Consensus size: 147
64609026 AATTTTCATT
* * * * **
64609036 TTTTTAATTTATGTTTCT-AAAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCCGGACA
1 TTTTCAATTTCTGTTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACA
* * *
64609100 CGCTGAGGTAATTTCAATTTTTGTTTGTC-AAAACTCAACTCATATTGCAAGAGGTGAGTTGAAC
66 CGCTGAGGTAATTTCAATTTCTGTTTGTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAAC
*
64609164 CTCAAGACACGTTGAGGTA
131 CTCAAG--ACGCTGAGGTA
* * * *
64609183 TTTTCAATTTCTGTTTTTCAAAAAAATCAACTCATATTGCGATAGGAGAATTGAGCCTCAGGACA
1 TTTTCAATTTCTGTTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACA
* *
64609248 CGCTGAGGTAATTTCAATTTTTGTTTGTC-AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGC
66 CGCTGAGGTAATTTCAATTTCTGTTTGTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAAC
* *
64609312 CTCAAGACACGTTAGGTA
131 CTCAAGACGC-TGAGGTA
** * * *
64609330 TTTTCAATTTCTGTCTTTAAAAAAAAATTAGCTCATATTGCGAGAGGTGAGTTGAACCTCAAGAC
1 TTTTCAATTTCTGT-TTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGAC
* * * * *
64609395 ACGTTTAGGTATTTTCAATTTCTGTTTTTCAAAAAAATCAACTCATATTGCGATAGGTGAGTTGA
65 ACGCTGAGGTAATTTCAATTTCTGTTTGTC-AAAAAATCAACTCATATTGCGAGAGGTGAGTTGA
64609460 ACCTCAAGACGCTGAGGTA
129 ACCTCAAGACGCTGAGGTA
* * *
64609479 ATTTCAATTTTTGTTTGTC--AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACA
1 TTTTCAATTTCTGTTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACA
* * * *
64609542 CGTTGAGGTATTTTCAATTTCTGTCTT-CCAAAAAAAATCAGCTCATATTGCGAGAGGTGAGTTG
66 CGCTGAGGTAATTTCAATTTCTGT-TTGTC--AAAAAATCAACTCATATTGCGAGAGGTGAGTTG
*
64609606 AACCTCAAGACGCTGAGGTG
128 AACCTCAAGACGCTGAGGTA
* *
64609626 TTTTCCATTTCTGTTCTTCAA
1 TTTTCAATTTCTGTTTTTCAA
64609647 TTTCTGTGTT
Statistics
Matches: 405, Mismatches: 50, Indels: 16
0.86 0.11 0.03
Matches are distributed among these distances:
146 67 0.17
147 102 0.25
148 176 0.43
149 18 0.04
150 42 0.10
ACGTcount: A:0.31, C:0.17, G:0.19, T:0.34
Consensus pattern (147 bp):
TTTTCAATTTCTGTTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACA
CGCTGAGGTAATTTCAATTTCTGTTTGTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAAC
CTCAAGACGCTGAGGTA
Found at i:64609255 original size:75 final size:75
Alignment explanation
Indices: 64609036--64609646 Score: 751
Period size: 73 Copynumber: 8.3 Consensus size: 75
64609026 AATTTTCATT
* * * * * **
64609036 TTTTTAATTTATGTTTCT-AAAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCCGGACA
1 TTTTCAATTTCTGTTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAACCTCAAGACA
64609100 CGCTGAGGTA
66 CGCTGAGGTA
* * * * *
64609110 ATTTCAATTTTTGTTTGTC--AAAACTCAACTCATATTGCAAGAGGTGAGTTGAACCTCAAGACA
1 TTTTCAATTTCTGTTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAACCTCAAGACA
*
64609173 CGTTGAGGTA
66 CGCTGAGGTA
* * * * *
64609183 TTTTCAATTTCTGTTTTTCAAAAAAATCAACTCATATTGCGATAGGAGAATTGAGCCTCAGGACA
1 TTTTCAATTTCTGTTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAACCTCAAGACA
64609248 CGCTGAGGTA
66 CGCTGAGGTA
* * * *
64609258 ATTTCAATTTTTGTTTGTC--AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACA
1 TTTTCAATTTCTGTTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAACCTCAAGACA
*
64609321 CG-TTAGGTA
66 CGCTGAGGTA
** * *
64609330 TTTTCAATTTCTGTCTTTAAAAAAAAATTAGCTCATATTGCGAGAGGTGAGTTGAACCTCAAGAC
1 TTTTCAATTTCTGT-TTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAACCTCAAGAC
* *
64609395 ACGTTTAGGTA
65 ACGCTGAGGTA
*
64609406 TTTTCAATTTCTGTTTTTCAAAAAAATCAACTCATATTGCGATAGGTGAGTTGAACCTCAAG--A
1 TTTTCAATTTCTGTTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAACCTCAAGACA
64609469 CGCTGAGGTA
66 CGCTGAGGTA
* * * *
64609479 ATTTCAATTTTTGTTTGTC--AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACA
1 TTTTCAATTTCTGTTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAACCTCAAGACA
*
64609542 CGTTGAGGTA
66 CGCTGAGGTA
* * *
64609552 TTTTCAATTTCTGTCTTCCAAAAAAAATCAGCTCATATTGCGAGAGGTGAGTTGAACCTCAAG--
1 TTTTCAATTTCTGTTTTTC-AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAACCTCAAGAC
*
64609615 ACGCTGAGGTG
65 ACGCTGAGGTA
* *
64609626 TTTTCCATTTCTGTTCTTCAA
1 TTTTCAATTTCTGTTTTTCAA
64609647 TTTCTGTGTT
Statistics
Matches: 461, Mismatches: 64, Indels: 25
0.84 0.12 0.05
Matches are distributed among these distances:
71 39 0.08
72 18 0.04
73 158 0.34
74 38 0.08
75 148 0.32
76 60 0.13
ACGTcount: A:0.31, C:0.17, G:0.19, T:0.34
Consensus pattern (75 bp):
TTTTCAATTTCTGTTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAACCTCAAGACA
CGCTGAGGTA
Found at i:64609753 original size:15 final size:14
Alignment explanation
Indices: 64609717--64609749 Score: 57
Period size: 14 Copynumber: 2.4 Consensus size: 14
64609707 CGCTGAGGTA
64609717 TTTTCAAATTCTGT
1 TTTTCAAATTCTGT
*
64609731 TTTTCAAATTTTGT
1 TTTTCAAATTCTGT
64609745 TTTTC
1 TTTTC
64609750 CAAAAAATCA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.18, C:0.12, G:0.06, T:0.64
Consensus pattern (14 bp):
TTTTCAAATTCTGT
Found at i:64609863 original size:90 final size:88
Alignment explanation
Indices: 64609552--64610141 Score: 434
Period size: 87 Copynumber: 6.5 Consensus size: 88
64609542 CGTTGAGGTA
* * *
64609552 TTTTCAATTTCTGTCTTCCAAAAAAAATCAGCTCATATTGCGAGAGGTGAGTTGAACCTC--A-A
1 TTTTCAATTT-TGT-TTTC-AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGACA
* * *
64609614 GACGCTGAGGTGTTTTCCATTTCTGT
63 CACGCTGAGGTATTTTCAATTTCTGT
* * * * * *
64609640 TCTTCAATTTCTGTGTTTCAAAAACATCAGCTCATATTGTGAGTGGTGAGTTGAGCCT-TGACTC
1 TTTTCAATTT-TGT-TTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGA--C
*
64609704 ACACGCTGAGGTATTTTCAAATTCTGT
62 ACACGCTGAGGTATTTTCAATTTCTGT
* *
64609731 TTTTCAAATTTTGTTTTTCCAAAAAATCAACTCATATTGCGAGAGGTGAGTTCAGCCTCAGA-AC
1 TTTTC-AATTTTG-TTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGACAC
* *
64609795 ACGCTGAGATATTTTCAATTTCTTTT
64 ACGCTGAGGTATTTTCAATTTC-TGT
*
64609821 TTTTCAATTTATGTTTGTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTAGATCA
1 TTTTCAATTT-TGTTT-TCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGA-CA
* *
64609886 CACGCCGAGGTATTTTCAATTGAT-TTT
63 CACGCTGAGGTATTTTCAATT--TCTGT
** *
64609913 TATTTTTATTTT-TTTTCAATTTATGCTTTTCAAAAATCAACTCATATTACGAGAGGTGAGTTGA
1 T-TTTCAATTTTGTTTTC-A---A--------AAAAATCAACTCATATTGCGAGAGGTGAGTTGA
* * ** **
64609977 GCCTCGGGTCACATACTGAGGTATTTTCAAAATCTGT
53 GCCTC-AGACACACGCTGAGGTATTTTCAATTTCTGT
* * * * *
64610014 TTTACAAATTTTGTTTT---AAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCT-TGGCTCA
1 TTTTC-AATTTTGTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGACACA
*
64610075 CGTGCTGAGCTATTTTCAATTTCTGT
65 C--GCTGAGGTATTTTCAATTTCTGT
* * *
64610101 TTTT-AATGTTTAGTTTT--AAAGAGTCAATTCATATTGCGAGA
1 TTTTCAAT-TTT-GTTTTCAAAAAAATCAACTCATATTGCGAGA
64610142 AATGAGTTAA
Statistics
Matches: 409, Mismatches: 56, Indels: 74
0.76 0.10 0.14
Matches are distributed among these distances:
85 7 0.02
86 3 0.01
87 97 0.24
88 37 0.09
89 30 0.07
90 53 0.13
91 70 0.17
92 33 0.08
93 7 0.02
94 2 0.00
100 3 0.01
101 8 0.02
102 58 0.14
103 1 0.00
ACGTcount: A:0.27, C:0.16, G:0.18, T:0.39
Consensus pattern (88 bp):
TTTTCAATTTTGTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGACACAC
GCTGAGGTATTTTCAATTTCTGT
Found at i:64609989 original size:102 final size:103
Alignment explanation
Indices: 64609817--64610006 Score: 285
Period size: 102 Copynumber: 1.8 Consensus size: 103
64609807 TTTCAATTTC
* *
64609817 TTTTTTTTCAATTTATGTTTGTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTAG
1 TTTTTTTTCAATTTATGTTTGTC-AAAAAATCAACTCATATTACGAGAGGTGAGTTGAGCCTCAG
*
64609882 ATCACACGCCGAGGTATTTTCAATTGATTTTTATTTTTA
65 ATCACACACCGAGGTATTTTCAATTGATTTTTATTTTTA
*
64609921 TTTTTTTTCAATTTATGCTTT-TC-AAAAATCAACTCATATTACGAGAGGTGAGTTGAGCCTCGG
1 TTTTTTTTCAATTTATG-TTTGTCAAAAAATCAACTCATATTACGAGAGGTGAGTTGAGCCTCAG
* * *
64609984 GTCACATACTGAGGTATTTTCAA
65 ATCACACACCGAGGTATTTTCAA
64610007 AATCTGTTTT
Statistics
Matches: 78, Mismatches: 7, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
102 56 0.72
104 19 0.24
105 3 0.04
ACGTcount: A:0.28, C:0.15, G:0.17, T:0.41
Consensus pattern (103 bp):
TTTTTTTTCAATTTATGTTTGTCAAAAAATCAACTCATATTACGAGAGGTGAGTTGAGCCTCAGA
TCACACACCGAGGTATTTTCAATTGATTTTTATTTTTA
Found at i:64610821 original size:30 final size:30
Alignment explanation
Indices: 64610785--64610853 Score: 120
Period size: 30 Copynumber: 2.3 Consensus size: 30
64610775 CCAGCCTTTG
64610785 CCACCACCAACTCCACTAGCCACACTTGCT
1 CCACCACCAACTCCACTAGCCACACTTGCT
* *
64610815 CCACCACCTACTCCATTAGCCACACTTGCT
1 CCACCACCAACTCCACTAGCCACACTTGCT
64610845 CCACCACCA
1 CCACCACCA
64610854 CTTGTACCTA
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
30 36 1.00
ACGTcount: A:0.26, C:0.51, G:0.06, T:0.17
Consensus pattern (30 bp):
CCACCACCAACTCCACTAGCCACACTTGCT
Found at i:64611344 original size:14 final size:14
Alignment explanation
Indices: 64611325--64611353 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
64611315 TCTTTTTTTG
64611325 TTATTATTATATTA
1 TTATTATTATATTA
64611339 TTATTATTATATTA
1 TTATTATTATATTA
64611353 T
1 T
64611354 ATATATTCTT
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:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (14 bp):
TTATTATTATATTA
Found at i:64611360 original size:14 final size:14
Alignment explanation
Indices: 64611329--64611458 Score: 53
Period size: 14 Copynumber: 9.2 Consensus size: 14
64611319 TTTTTGTTAT
64611329 TATTATATTAT-TA
1 TATTATATTATATA
64611342 TTATTATATTATATA
1 -TATTATATTATATA
* *
64611357 TATTCTTTTAATATA
1 TATTATATT-ATATA
* * *
64611372 TTAGGTATATTCTAAA
1 -TA-TTATATTATATA
64611388 T-TCTATATTACGTATA
1 TAT-TATATTA--TATA
64611404 TA-TATATTATACTA
1 TATTATATTATA-TA
64611418 T-TT-TATGTATATA
1 TATTATAT-TATATA
*
64611431 TCTT-TA--ATACTA
1 TATTATATTATA-TA
64611443 TATTAT-TTATATA
1 TATTATATTATATA
64611456 TAT
1 TAT
64611459 ATTTTTTTCT
Statistics
Matches: 89, Mismatches: 11, Indels: 33
0.67 0.08 0.25
Matches are distributed among these distances:
11 3 0.03
12 5 0.06
13 14 0.16
14 39 0.44
15 15 0.17
16 9 0.10
17 4 0.04
ACGTcount: A:0.36, C:0.05, G:0.03, T:0.55
Consensus pattern (14 bp):
TATTATATTATATA
Found at i:64611380 original size:22 final size:23
Alignment explanation
Indices: 64611332--64611384 Score: 63
Period size: 22 Copynumber: 2.3 Consensus size: 23
64611322 TTGTTATTAT
* * *
64611332 TATATTATTATTATTATATTATA
1 TATATTCTTATTAATATATTAGA
*
64611355 TATATTCTT-TTAATATATTAGG
1 TATATTCTTATTAATATATTAGA
64611377 TATATTCT
1 TATATTCT
64611385 AAATTCTATA
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
22 18 0.69
23 8 0.31
ACGTcount: A:0.34, C:0.04, G:0.04, T:0.58
Consensus pattern (23 bp):
TATATTCTTATTAATATATTAGA
Found at i:64611430 original size:27 final size:26
Alignment explanation
Indices: 64611390--64611461 Score: 94
Period size: 25 Copynumber: 2.8 Consensus size: 26
64611380 ATTCTAAATT
*
64611390 CTATATTACGTATATATATATT-ATA
1 CTATATTATGTATATATATATTAATA
* *
64611415 CTATTTTATGTATATATCT-TTAATA
1 CTATATTATGTATATATATATTAATA
*
64611440 CTATATTATTTATATATATATT
1 CTATATTATGTATATATATATT
64611462 TTTTTCTACA
Statistics
Matches: 39, Mismatches: 6, Indels: 3
0.81 0.12 0.06
Matches are distributed among these distances:
24 2 0.05
25 35 0.90
26 2 0.05
ACGTcount: A:0.36, C:0.07, G:0.03, T:0.54
Consensus pattern (26 bp):
CTATATTATGTATATATATATTAATA
Found at i:64611631 original size:25 final size:24
Alignment explanation
Indices: 64611603--64611658 Score: 62
Period size: 25 Copynumber: 2.3 Consensus size: 24
64611593 GTTATATTTT
*
64611603 CACTATTTTAT-GTATATACTTCAAA
1 CACTATTATATAGTATAT--TTCAAA
*
64611628 CACTA-TATATAGTATATTTCTAA
1 CACTATTATATAGTATATTTCAAA
64611651 CACTATTA
1 CACTATTA
64611659 CTATTTATAA
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
23 10 0.37
24 6 0.22
25 11 0.41
ACGTcount: A:0.38, C:0.16, G:0.04, T:0.43
Consensus pattern (24 bp):
CACTATTATATAGTATATTTCAAA
Found at i:64613736 original size:20 final size:21
Alignment explanation
Indices: 64613707--64613748 Score: 59
Period size: 20 Copynumber: 2.0 Consensus size: 21
64613697 AGCACATGTA
*
64613707 TTCATGAAATTTCA-AAATTT
1 TTCATCAAATTTCACAAATTT
*
64613727 TTCATCAAATTTTACAAATTT
1 TTCATCAAATTTCACAAATTT
64613748 T
1 T
64613749 CATTTTAGTC
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
20 12 0.63
21 7 0.37
ACGTcount: A:0.38, C:0.12, G:0.02, T:0.48
Consensus pattern (21 bp):
TTCATCAAATTTCACAAATTT
Found at i:64627780 original size:33 final size:33
Alignment explanation
Indices: 64627738--64627803 Score: 132
Period size: 33 Copynumber: 2.0 Consensus size: 33
64627728 AACCAAAGAA
64627738 AACAGAATTAGATCGTGGAAAGTCAAAAGTAGT
1 AACAGAATTAGATCGTGGAAAGTCAAAAGTAGT
64627771 AACAGAATTAGATCGTGGAAAGTCAAAAGTAGT
1 AACAGAATTAGATCGTGGAAAGTCAAAAGTAGT
64627804 TGAATAGCCG
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.45, C:0.09, G:0.24, T:0.21
Consensus pattern (33 bp):
AACAGAATTAGATCGTGGAAAGTCAAAAGTAGT
Found at i:64640725 original size:22 final size:21
Alignment explanation
Indices: 64640685--64640725 Score: 55
Period size: 22 Copynumber: 1.9 Consensus size: 21
64640675 CACTAGACAT
**
64640685 AGGGGCACACGCCTGTGTGGG
1 AGGGGCACACGCCCATGTGGG
64640706 AGGGGCAACACGCCCATGTG
1 AGGGGC-ACACGCCCATGTG
64640726 ACCACTTCGA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 6 0.35
22 11 0.65
ACGTcount: A:0.20, C:0.27, G:0.41, T:0.12
Consensus pattern (21 bp):
AGGGGCACACGCCCATGTGGG
Found at i:64641960 original size:94 final size:92
Alignment explanation
Indices: 64641843--64642014 Score: 231
Period size: 94 Copynumber: 1.8 Consensus size: 92
64641833 ATATCTGTGT
* *
64641843 CGATGCATGTCCCAGACATGTCTTACACTGGCT-TACAT-CTCGAGGCCGATGCATGTCCCAGAC
1 CGATGCATGTCCCAGACATGTCTTACACTGGCTCT-CATAAT-GAGGCCGATGCATGTCACAGAC
*
64641906 ATGTCTTACACTAGCTCTAATTTCTATGC
64 ATGCCTTACACTAGCTCTAATTTCTATGC
* * * *
64641935 CGATGCCATGTCTCAGACATGGTCTTACACTGGCTCTCATAATGTGGCCGATGCATGTGATAGAC
1 CGATG-CATGTCCCAGACAT-GTCTTACACTGGCTCTCATAATGAGGCCGATGCATGTCACAGAC
64642000 ATGCCTTACACTAGC
64 ATGCCTTACACTAGC
64642015 ACACAATTAA
Statistics
Matches: 69, Mismatches: 7, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
92 5 0.07
93 13 0.19
94 49 0.71
95 2 0.03
ACGTcount: A:0.23, C:0.28, G:0.20, T:0.28
Consensus pattern (92 bp):
CGATGCATGTCCCAGACATGTCTTACACTGGCTCTCATAATGAGGCCGATGCATGTCACAGACAT
GCCTTACACTAGCTCTAATTTCTATGC
Found at i:64641971 original size:48 final size:47
Alignment explanation
Indices: 64641843--64642011 Score: 184
Period size: 46 Copynumber: 3.6 Consensus size: 47
64641833 ATATCTGTGT
64641843 CGATGCATGTCCCAGACATGTCTTACACTGGCT-TACATCTCGAGGC
1 CGATGCATGTCCCAGACATGTCTTACACTGGCTCTACATCTCGAGGC
* * * *
64641889 CGATGCATGTCCCAGACATGTCTTACACTAGCTCTA-ATTTCTATGC
1 CGATGCATGTCCCAGACATGTCTTACACTGGCTCTACATCTCGAGGC
* * *
64641935 CGATGCCATGTCTCAGACATGGTCTTACACTGGCTCT-CATAAT-GTGGC
1 CGATG-CATGTCCCAGACAT-GTCTTACACTGGCTCTACAT-CTCGAGGC
*** *
64641983 CGATGCATGTGATAGACATGCCTTACACT
1 CGATGCATGTCCCAGACATGTCTTACACT
64642012 AGCACACAAT
Statistics
Matches: 104, Mismatches: 14, Indels: 10
0.81 0.11 0.08
Matches are distributed among these distances:
46 53 0.51
47 26 0.25
48 24 0.23
49 1 0.01
ACGTcount: A:0.23, C:0.28, G:0.20, T:0.29
Consensus pattern (47 bp):
CGATGCATGTCCCAGACATGTCTTACACTGGCTCTACATCTCGAGGC
Found at i:64647991 original size:39 final size:40
Alignment explanation
Indices: 64647882--64648067 Score: 268
Period size: 40 Copynumber: 4.7 Consensus size: 40
64647872 TTCGAATGAT
* *
64647882 ATCCGGGTTAGGTCCCGAAGGAATTTGTGCGAGTTACTAA
1 ATCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAA
64647922 ATCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAA
1 ATCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAA
* * *
64647962 TTCCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTAA
1 ATCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAA
64648001 ATCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA
1 ATCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-A
* * **
64648042 A-CCGGGCTATGTCCTTAAGGCATTTG
1 ATCCGGGTTAAGTCCCGAAGGCATTTG
64648068 AGCAAGTAGC
Statistics
Matches: 132, Mismatches: 12, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
39 36 0.27
40 94 0.71
41 2 0.02
ACGTcount: A:0.24, C:0.20, G:0.28, T:0.27
Consensus pattern (40 bp):
ATCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAA
Found at i:64648047 original size:79 final size:79
Alignment explanation
Indices: 64647895--64648050 Score: 269
Period size: 79 Copynumber: 2.0 Consensus size: 79
64647885 CGGGTTAGGT
*
64647895 CCCGAAGGAATTTGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACT
1 CCCGAAGGAATTGGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACT
*
64647960 AATTCCGGGCTAAG
66 AATACCGGGCTAAG
*
64647974 CCCGAAGGCATTGGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACT
1 CCCGAAGGAATTGGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACT
64648039 -ATAACCGGGCTA
66 AAT-ACCGGGCTA
64648051 TGTCCTTAAG
Statistics
Matches: 73, Mismatches: 3, Indels: 2
0.94 0.04 0.03
Matches are distributed among these distances:
78 2 0.03
79 71 0.97
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (79 bp):
CCCGAAGGAATTGGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACT
AATACCGGGCTAAG
Found at i:64648089 original size:79 final size:79
Alignment explanation
Indices: 64647895--64648090 Score: 236
Period size: 79 Copynumber: 2.5 Consensus size: 79
64647885 CGGGTTAGGT
* * * *
64647895 CCCGAAGGAATTTGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACT
1 CCCGAAGGCATTGGAGCAAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACT
*
64647960 AATTCCGGGCTAAG
66 AATACCGGGCTAAG
* *
64647974 CCCGAAGGCATTGGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACT
1 CCCGAAGGCATTGGAGCAAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACT
*
64648039 -ATAACCGGGCTATG
66 AAT-ACCGGGCTAAG
** * *
64648053 TCCTTAAGGCATTTGAGCAAG-TAGCTATATCC-GGTTAA
1 -CCCGAAGGCATTGGAGCAAGTTA-CTAAATCCGGGTTAA
64648091 ATTCTGAAGG
Statistics
Matches: 104, Mismatches: 10, Indels: 6
0.87 0.08 0.05
Matches are distributed among these distances:
78 2 0.02
79 80 0.77
80 22 0.21
ACGTcount: A:0.26, C:0.20, G:0.27, T:0.27
Consensus pattern (79 bp):
CCCGAAGGCATTGGAGCAAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACT
AATACCGGGCTAAG
Found at i:64655535 original size:12 final size:12
Alignment explanation
Indices: 64655518--64655543 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
64655508 CATTCCGAAG
64655518 TATATATATACA
1 TATATATATACA
64655530 TATATATATACA
1 TATATATATACA
64655542 TA
1 TA
64655544 AGTATGCCAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.50, C:0.08, G:0.00, T:0.42
Consensus pattern (12 bp):
TATATATATACA
Found at i:64656058 original size:27 final size:27
Alignment explanation
Indices: 64656027--64656204 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
64656017 TAAATTGTAC
64656027 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
64656054 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
64656080 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
64656108 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
64656136 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
64656163 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
64656190 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
64656205 GACTCAATAT
Statistics
Matches: 129, Mismatches: 19, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 23 0.18
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:64656141 original size:82 final size:81
Alignment explanation
Indices: 64656028--64656183 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
64656018 AAATTGTACA
* *
64656028 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
64656092 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
64656109 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
64656174 TGCGAGTTGA
65 TGCGAATTGA
64656184 TTATATAGCA
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 15 0.22
82 51 0.76
83 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:64656195 original size:82 final size:81
Alignment explanation
Indices: 64656024--64656204 Score: 229
Period size: 82 Copynumber: 2.2 Consensus size: 81
64656014 GATTAAATTG
* *
64656024 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
64656089 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
64656105 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
64656169 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
64656187 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
64656205 GACTCAATAT
Statistics
Matches: 84, Mismatches: 14, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
81 18 0.21
82 66 0.79
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:64662155 original size:27 final size:27
Alignment explanation
Indices: 64662125--64662268 Score: 139
Period size: 27 Copynumber: 5.3 Consensus size: 27
64662115 TACTGAAATG
* * * *
64662125 CCCTTGATTTGTAGAATTGCCATTTTA
1 CCCTCGATTTATAAAATTACCATTTTA
* * * *
64662152 CCCTCGATATATAGAATTACCGTTTCA
1 CCCTCGATTTATAAAATTACCATTTTA
*
64662179 CCCTCGATTTATAAAATTACCGTTTTA
1 CCCTCGATTTATAAAATTACCATTTTA
*
64662206 CCCTCAATTT-TAAAAATTACCATTTTA
1 CCCTCGATTTAT-AAAATTACCATTTTA
* **
64662233 CCCTC-AGTTTAAAAAATTACTGTTTTA
1 CCCTCGA-TTTATAAAATTACCATTTTA
64662260 CCCTCGATT
1 CCCTCGATT
64662269 GTGAAATTAC
Statistics
Matches: 99, Mismatches: 14, Indels: 8
0.82 0.12 0.07
Matches are distributed among these distances:
26 2 0.02
27 96 0.97
28 1 0.01
ACGTcount: A:0.29, C:0.23, G:0.08, T:0.40
Consensus pattern (27 bp):
CCCTCGATTTATAAAATTACCATTTTA
Found at i:64662330 original size:27 final size:27
Alignment explanation
Indices: 64662300--64662450 Score: 155
Period size: 27 Copynumber: 5.6 Consensus size: 27
64662290 TATAGGATAG
64662300 AATTACCAAAATACCCCTAGTTTGTAA
1 AATTACCAAAATACCCCTAGTTTGTAA
*
64662327 AATTACCAAAATACCCCTAGTTAGTAA
1 AATTACCAAAATACCCCTAGTTTGTAA
* * * * * *
64662354 AATTATCGATATACCACTGGTTTGTGA
1 AATTACCAAAATACCCCTAGTTTGTAA
* *
64662381 AATTACCGAAATA-CCCTCAATTTGTAA
1 AATTACCAAAATACCCCT-AGTTTGTAA
**
64662408 AATTACCAAAATACCCCT-GATTTACAA
1 AATTACCAAAATACCCCTAG-TTTGTAA
64662435 AATTA-CAGAAATACCC
1 AATTACCA-AAATACCC
64662451 TTGACTTTCT
Statistics
Matches: 102, Mismatches: 18, Indels: 8
0.80 0.14 0.06
Matches are distributed among these distances:
26 5 0.05
27 93 0.91
28 4 0.04
ACGTcount: A:0.41, C:0.22, G:0.09, T:0.28
Consensus pattern (27 bp):
AATTACCAAAATACCCCTAGTTTGTAA
Found at i:64662343 original size:54 final size:51
Alignment explanation
Indices: 64662267--64662450 Score: 138
Period size: 54 Copynumber: 3.4 Consensus size: 51
64662257 TTACCCTCGA
* * *
64662267 TTGTGAAATTACTGAAAA-ACCCCTATAGGATAGAATTACCAAAATACCCCTAGT
1 TTGTAAAATTAC-CAAAATACCCCTATA-G-TAAAATTACCAAAATACCCCT-GT
* * * *
64662321 TTGTAAAATTACCAAAATACCCCTAGTTAGTAAAATTATCGATATACCACTGGT
1 TTGTAAAATTACCAAAATACCCCTA--TAGTAAAATTACCAAAATACCCCT-GT
* * * *
64662375 TTGTGAAATTACCGAAATACCCTCAATTTGTAAAATTACCAAAATACCCCTGAT
1 TTGTAAAATTACCAAAATACCC-CTA-TAGTAAAATTACCAAAATACCCCTG-T
**
64662429 TTACAAAATTA-CAGAAATACCC
1 TTGTAAAATTACCA-AAATACCC
64662451 TTGACTTTCT
Statistics
Matches: 104, Mismatches: 20, Indels: 12
0.76 0.15 0.09
Matches are distributed among these distances:
53 6 0.06
54 93 0.89
55 3 0.03
56 2 0.02
ACGTcount: A:0.41, C:0.21, G:0.10, T:0.28
Consensus pattern (51 bp):
TTGTAAAATTACCAAAATACCCCTATAGTAAAATTACCAAAATACCCCTGT
Found at i:64662449 original size:81 final size:81
Alignment explanation
Indices: 64662300--64662449 Score: 207
Period size: 81 Copynumber: 1.9 Consensus size: 81
64662290 TATAGGATAG
* * *
64662300 AATTACCAAAATACCCCTAGTTTGTAAAATTACCAAAATACCCCTAGTTAGTAAAATTATCGATA
1 AATTACCAAAATACCCCTAATTTGTAAAATTACCAAAATACCCCTAGTTAGCAAAATTATCGAAA
64662365 TACCACTGGTTTGTGA
66 TACCACTGGTTTGTGA
* *
64662381 AATTACCGAAATA-CCCTCAATTTGTAAAATTACCAAAATACCCCTGATTTA-CAAAATTA-CAG
1 AATTACCAAAATACCCCT-AATTTGTAAAATTACCAAAATACCCCT-AGTTAGCAAAATTATC-G
64662443 AAATACC
63 AAATACC
64662450 CTTGACTTTC
Statistics
Matches: 61, Mismatches: 5, Indels: 6
0.85 0.07 0.08
Matches are distributed among these distances:
80 5 0.08
81 52 0.85
82 4 0.07
ACGTcount: A:0.41, C:0.21, G:0.09, T:0.29
Consensus pattern (81 bp):
AATTACCAAAATACCCCTAATTTGTAAAATTACCAAAATACCCCTAGTTAGCAAAATTATCGAAA
TACCACTGGTTTGTGA
Found at i:64662502 original size:27 final size:28
Alignment explanation
Indices: 64662462--64662513 Score: 81
Period size: 27 Copynumber: 1.9 Consensus size: 28
64662452 TGACTTTCTA
*
64662462 AAAATTA-TAGAAATACCATTGGTTTAC
1 AAAATTACTAGAAATACCCTTGGTTTAC
64662489 AAAATTACTA-AAATACCCTTGGTTT
1 AAAATTACTAGAAATACCCTTGGTTT
64662514 GTAGATTTAC
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
27 21 0.91
28 2 0.09
ACGTcount: A:0.42, C:0.13, G:0.10, T:0.35
Consensus pattern (28 bp):
AAAATTACTAGAAATACCCTTGGTTTAC
Found at i:64663722 original size:42 final size:42
Alignment explanation
Indices: 64663657--64663790 Score: 214
Period size: 42 Copynumber: 3.2 Consensus size: 42
64663647 TAGTCTCCCC
*
64663657 AAATGGGCTTGCATACATTCATTGACATTACATGTGATATTG
1 AAATGGGCTTGCATACATCCATTGACATTACATGTGATATTG
* * * *
64663699 AATTGGGCTTTCATACATCCATTGACATTACATGTGACATTA
1 AAATGGGCTTGCATACATCCATTGACATTACATGTGATATTG
*
64663741 AAACGGGCTTGCATACATCCATTGACATTACATGTGATATTG
1 AAATGGGCTTGCATACATCCATTGACATTACATGTGATATTG
64663783 AAATGGGC
1 AAATGGGC
64663791 CTAAAGGCCA
Statistics
Matches: 81, Mismatches: 11, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
42 81 1.00
ACGTcount: A:0.31, C:0.17, G:0.19, T:0.33
Consensus pattern (42 bp):
AAATGGGCTTGCATACATCCATTGACATTACATGTGATATTG
Found at i:64663849 original size:31 final size:31
Alignment explanation
Indices: 64663814--64663919 Score: 185
Period size: 31 Copynumber: 3.4 Consensus size: 31
64663804 CGTTTACAAT
64663814 AAAGGCTTCGGCCCAGTGATATGATTTATGA
1 AAAGGCTTCGGCCCAGTGATATGATTTATGA
* *
64663845 AAAGGCTTCAGCCTAGTGATATGATTTATGA
1 AAAGGCTTCGGCCCAGTGATATGATTTATGA
*
64663876 AAAGGCTTCGGCCCAGTGATATGATTTATGG
1 AAAGGCTTCGGCCCAGTGATATGATTTATGA
64663907 AAAGGCTTCGGCC
1 AAAGGCTTCGGCC
64663920 TTGTATATGT
Statistics
Matches: 70, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 70 1.00
ACGTcount: A:0.28, C:0.17, G:0.26, T:0.28
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTGATATGATTTATGA
Found at i:64666157 original size:27 final size:27
Alignment explanation
Indices: 64666127--64666223 Score: 97
Period size: 27 Copynumber: 3.6 Consensus size: 27
64666117 TGTAATGCCC
* * *
64666127 TCGATTTGTAGAATTGCCATTTTACCA
1 TCGATTTATAAAATTACCATTTTACCA
* *
64666154 TCGATTTATAAAATTACCGTTTTACCC
1 TCGATTTATAAAATTACCATTTTACCA
* *
64666181 TCGATTTACAAAATTACCGTTTTACGC-
1 TCGATTTATAAAATTACCATTTTAC-CA
* *
64666208 TCAATTTACAAAATTA
1 TCGATTTATAAAATTA
64666224 TTGTTTTACC
Statistics
Matches: 62, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
27 61 0.98
28 1 0.02
ACGTcount: A:0.32, C:0.20, G:0.09, T:0.39
Consensus pattern (27 bp):
TCGATTTATAAAATTACCATTTTACCA
Found at i:64666229 original size:27 final size:27
Alignment explanation
Indices: 64666146--64666236 Score: 119
Period size: 27 Copynumber: 3.4 Consensus size: 27
64666136 AGAATTGCCA
* * *
64666146 TTTTACCATCGATTTATAAAATTACCG
1 TTTTACCCTCAATTTACAAAATTACCG
*
64666173 TTTTACCCTCGATTTACAAAATTACCG
1 TTTTACCCTCAATTTACAAAATTACCG
* **
64666200 TTTTACGCTCAATTTACAAAATTATTG
1 TTTTACCCTCAATTTACAAAATTACCG
64666227 TTTTACCCTC
1 TTTTACCCTC
64666237 GATTGGGAAA
Statistics
Matches: 57, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 57 1.00
ACGTcount: A:0.30, C:0.22, G:0.07, T:0.42
Consensus pattern (27 bp):
TTTTACCCTCAATTTACAAAATTACCG
Found at i:64666402 original size:27 final size:27
Alignment explanation
Indices: 64666244--64666397 Score: 150
Period size: 27 Copynumber: 5.7 Consensus size: 27
64666234 CTCGATTGGG
** *
64666244 AAATTACTGAAATACCCCT-GTATGATA
1 AAATTACCAAAATACCCCTAGTTTG-TA
* *
64666271 GAATTACCAAAATATCCCTAGTTTGTA
1 AAATTACCAAAATACCCCTAGTTTGTA
*
64666298 CAATTACCAAAATACCCCTAGTTTGTA
1 AAATTACCAAAATACCCCTAGTTTGTA
* *** *
64666325 AAATTACCGAAATACTATTAGTTTGTG
1 AAATTACCAAAATACCCCTAGTTTGTA
* *
64666352 AAATTACCGAAATA-CCCTCAATTTGTA
1 AAATTACCAAAATACCCCT-AGTTTGTA
*
64666379 AAATTGCCAAAATACCCCT
1 AAATTACCAAAATACCCCT
64666398 GATTTACAAA
Statistics
Matches: 104, Mismatches: 20, Indels: 5
0.81 0.16 0.04
Matches are distributed among these distances:
26 1 0.01
27 95 0.91
28 8 0.08
ACGTcount: A:0.39, C:0.21, G:0.10, T:0.31
Consensus pattern (27 bp):
AAATTACCAAAATACCCCTAGTTTGTA
Found at i:64666418 original size:27 final size:27
Alignment explanation
Indices: 64666388--64666481 Score: 100
Period size: 27 Copynumber: 3.4 Consensus size: 27
64666378 AAAATTGCCA
*
64666388 AAATACCCCTGATTTACAAAAATACAG
1 AAATACCCTTGATTTACAAAAATACAG
*
64666415 AAATACCCTTGACTTT-CTAAAAATTATAG
1 AAATACCCTTGA-TTTAC-AAAAA-TACAG
* * * *
64666444 AAATACCATTGGTTTACAAAATTACTG
1 AAATACCCTTGATTTACAAAAATACAG
64666471 AAATACCCTTG
1 AAATACCCTTG
64666482 GTTTGTAGAT
Statistics
Matches: 55, Mismatches: 8, Indels: 8
0.77 0.11 0.11
Matches are distributed among these distances:
27 25 0.45
28 15 0.27
29 15 0.27
ACGTcount: A:0.43, C:0.19, G:0.09, T:0.30
Consensus pattern (27 bp):
AAATACCCTTGATTTACAAAAATACAG
Found at i:64666418 original size:81 final size:81
Alignment explanation
Indices: 64666272--64666420 Score: 194
Period size: 81 Copynumber: 1.8 Consensus size: 81
64666262 TGTATGATAG
* * ** * *
64666272 AATTACCAAAATATCCCTAGTTTGTACAATTACCAAAATACCCCTAGTTTGTAAAATTACCGAAA
1 AATTACCAAAATATCCCTAATTTGTAAAATTACCAAAATACCCCTAGTTTACAAAAATACAGAAA
64666337 TACTATTAGTTTGTGA
66 TACTATTAGTTTGTGA
* *
64666353 AATTACCGAAATA-CCCTCAATTTGTAAAATTGCCAAAATACCCCT-GATTTACAAAAATACAGA
1 AATTACCAAAATATCCCT-AATTTGTAAAATTACCAAAATACCCCTAG-TTTACAAAAATACAGA
64666416 AATAC
64 AATAC
64666421 CCTTGACTTT
Statistics
Matches: 58, Mismatches: 8, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
80 5 0.09
81 53 0.91
ACGTcount: A:0.42, C:0.20, G:0.09, T:0.30
Consensus pattern (81 bp):
AATTACCAAAATATCCCTAATTTGTAAAATTACCAAAATACCCCTAGTTTACAAAAATACAGAAA
TACTATTAGTTTGTGA
Found at i:64666581 original size:27 final size:27
Alignment explanation
Indices: 64666507--64666603 Score: 72
Period size: 27 Copynumber: 3.6 Consensus size: 27
64666497 AAAACACTCT
* * **
64666507 TGTAGGATGAAATGACTAAAATACCCC
1 TGTAGGGTAAAATGACTGTAATACCCC
* * *
64666534 TAATA-GGTAAAAAGACCGTAA-AGCCCC
1 T-GTAGGGTAAAATGACTGTAATA-CCCC
* *
64666561 TGTAGGGTAAAGTGACTGTAATACCCT
1 TGTAGGGTAAAATGACTGTAATACCCC
*
64666588 TGTATGGTAAAATGAC
1 TGTAGGGTAAAATGAC
64666604 GAATATGCCC
Statistics
Matches: 52, Mismatches: 14, Indels: 8
0.70 0.19 0.11
Matches are distributed among these distances:
26 3 0.06
27 46 0.88
28 3 0.06
ACGTcount: A:0.38, C:0.16, G:0.22, T:0.24
Consensus pattern (27 bp):
TGTAGGGTAAAATGACTGTAATACCCC
Found at i:64666955 original size:20 final size:22
Alignment explanation
Indices: 64666916--64666956 Score: 59
Period size: 20 Copynumber: 2.0 Consensus size: 22
64666906 GTGCATGATG
*
64666916 GTAAGTTGGGCCTCAATGGGCA
1 GTAAGTTGGGCCTAAATGGGCA
64666938 GTAA-TTGGGCC-AAATGGGC
1 GTAAGTTGGGCCTAAATGGGC
64666957 TTTTGGGCCT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 7 0.39
21 7 0.39
22 4 0.22
ACGTcount: A:0.24, C:0.17, G:0.37, T:0.22
Consensus pattern (22 bp):
GTAAGTTGGGCCTAAATGGGCA
Found at i:64668245 original size:43 final size:43
Alignment explanation
Indices: 64668191--64668363 Score: 170
Period size: 43 Copynumber: 4.0 Consensus size: 43
64668181 AGCTTGTACA
* *
64668191 ATGCC-ATATCCCAGATATGGTCTTACATGTTATCACATATCG
1 ATGCCAATATCCCAGACATGGTCTTACATGTAATCACATATCG
* * ** * ** *
64668233 ATGCCACTATCCCAAACAAAGTCTTACATGAAATCAGTTAACG
1 ATGCCAATATCCCAGACATGGTCTTACATGTAATCACATATCG
* * * * *
64668276 ATGCCAATGTCCCCGACATGGTCTTACACGTAATCTCAATAT-A
1 ATGCCAATATCCCAGACATGGTCTTACATGTAATCAC-ATATCG
* *
64668319 ATGCCAATGTCCCAGACATGGTCTTACATGTAATCACATCTCG
1 ATGCCAATATCCCAGACATGGTCTTACATGTAATCACATATCG
64668362 AT
1 AT
64668364 AACCTAATGT
Statistics
Matches: 100, Mismatches: 28, Indels: 5
0.75 0.21 0.04
Matches are distributed among these distances:
42 8 0.08
43 90 0.90
44 2 0.02
ACGTcount: A:0.32, C:0.26, G:0.14, T:0.28
Consensus pattern (43 bp):
ATGCCAATATCCCAGACATGGTCTTACATGTAATCACATATCG
Found at i:64676093 original size:40 final size:40
Alignment explanation
Indices: 64676049--64676144 Score: 138
Period size: 40 Copynumber: 2.4 Consensus size: 40
64676039 CGGTTATTTG
64676049 TGGCACTTAGTGTGCAATTCGACATAGCTTCGGCTATATA
1 TGGCACTTAGTGTGCAATTCGACATAGCTTCGGCTATATA
* * *
64676089 TGGCACTTAGTGTGCAATTTGAGATAGCTTCGGCTATGTA
1 TGGCACTTAGTGTGCAATTCGACATAGCTTCGGCTATATA
* * *
64676129 CGACACTTAATGTGCA
1 TGGCACTTAGTGTGCA
64676145 TGATATCAAG
Statistics
Matches: 50, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
40 50 1.00
ACGTcount: A:0.25, C:0.19, G:0.24, T:0.32
Consensus pattern (40 bp):
TGGCACTTAGTGTGCAATTCGACATAGCTTCGGCTATATA
Found at i:64676178 original size:28 final size:28
Alignment explanation
Indices: 64676147--64676241 Score: 127
Period size: 28 Copynumber: 3.4 Consensus size: 28
64676137 AATGTGCATG
* *
64676147 ATATCAAGTATGGCACTTAGTGTGTGAA
1 ATATCGAGTATGGCACTTAGTGTGCGAA
* *
64676175 ATATCGAGTGTGGCACTTAGTGTGCGAG
1 ATATCGAGTATGGCACTTAGTGTGCGAA
* *
64676203 ATATCGAGTTTGGCACTTAGTGTGCGAG
1 ATATCGAGTATGGCACTTAGTGTGCGAA
*
64676231 ATATTGAGTAT
1 ATATCGAGTAT
64676242 TTAACTGCAT
Statistics
Matches: 60, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
28 60 1.00
ACGTcount: A:0.26, C:0.12, G:0.29, T:0.33
Consensus pattern (28 bp):
ATATCGAGTATGGCACTTAGTGTGCGAA
Done.