Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr09 85040211
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: 85040211
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 160 characters in sequence are not A, C, G, or T
File 215 of 292
Found at i:63211435 original size:397 final size:394
Alignment explanation
Indices: 63210724--63211566 Score: 1301
Period size: 397 Copynumber: 2.1 Consensus size: 394
63210714 GGACAATTTC
* * * *
63210724 AAATAAATAATATATAAAAAAACTT-ATAATAA-ATAATAATAAAACAGTTTCAAATATACAATA
1 AAATAGATAATATATAAAATAATTTAAAAATAATAT-ATAATAAAACAGTTTCAAATATACAATA
63210787 TAAAAATTTTAAATAAATAACATATAAAACAGTTTAAACTAAATAATATATAAAAATAATAACAT
65 TAAAAATTTTAAATAAATAACATATAAAACAGTTTAAACTAAATAATATATAAAAATAATAACAT
*
63210852 ATGTAAAAGTTTGAAATAAATAATATATGAAAAAAAGGTTTAAAATACATAATATATAAAAAAAA
130 ATGTAAAAGTTTGAAATAAATAATATAT-AAAAAAAGGTTTAAAATAAATAATATATAAAAAAAA
*
63210917 CTTAAAATAGATAATATATAAATAATTTAAAAATAATATATAATAAAACAATTTCAAATATAAAA
194 CTTAAAATAGATAATATATAAATAATTTAAAAATAATATATAACAAAACAATTTCAAATATAAAA
* *
63210982 TATAATTTTTTTTAAAATAAGTAACATATAAAACAGTTTAAACTAAATAATATATAAAATAAATA
259 TATAATATTTTTAAAAATAAGTAACATATAAAACAGTTTAAACTAAATAATATATAAAATAAATA
*
63211047 ACATATGTAAAAGTTTGACAT-AATAATATATGAAAAAAAGGTTTAAAATAAATAATATATAAAA
324 ACATATGTAAAAGTTTGAAATAAATAATATAT-AAAAAAA-GTTTAAAATAAATAATATATAAAA
63211111 AAAACTTA
387 AAAACTTA
63211119 AAATAGATAATATATAAAATAATTTAAAAATAATATATAATAAAACAGTTTCAAATATACAATAT
1 AAATAGATAATATATAAAATAATTTAAAAATAATATATAATAAAACAGTTTCAAATATACAATAT
**** * *
63211184 ATTTTTTTTAAAAAAAATAAGTAACATATAAAACAGTTTAAACTAGATAATATAT-AAAATAGAT
66 AAAAATTTT-----AAATAAATAACATATAAAACAGTTTAAACTAAATAATATATAAAAATA-AT
63211248 AA-ATTATGTAAAAGTTTGAAATAAATAATATAT-AAAAAA-GTTTAAAATAAATAATATAT-AA
125 AACA-TATGTAAAAGTTTGAAATAAATAATATATAAAAAAAGGTTTAAAATAAATAATATATAAA
* **
63211309 AAAAACTTAAAATAGATAATATATAAAATAATTTAAAAATCATATATAACAAAACTGTTTCAAAT
189 AAAAACTTAAAATAGATAATATAT-AAATAATTTAAAAATAATATATAACAAAACAATTTCAAAT
63211374 ATACAAA-ATAA-ATTTTTAAAAATAAGTAACATATAAAACAGTTTAAACTAAATAATATATAAA
253 ATA-AAATATAATATTTTTAAAAATAAGTAACATATAAAACAGTTTAAACTAAATAATATATAAA
*
63211437 ATAGATAACATATGTAAAAGTTTGAAATAAATAATATATAAAAAAAGTTTAAAATAAATAATATA
317 ATAAATAACATATGTAAAAGTTTGAAATAAATAATATATAAAAAAAGTTTAAAATAAATAATATA
63211502 TAAAAAAAACTTA
382 TAAAAAAAACTTA
* *
63211515 AAATAGATCATATATAAAATAATTTAAAAAATAATATATAATAAAATAGTTT
1 AAATAGATAATATATAAAATAATTT-AAAAATAATATATAATAAAACAGTTT
63211567 AAAGTAAAAA
Statistics
Matches: 414, Mismatches: 21, Indels: 24
0.90 0.05 0.05
Matches are distributed among these distances:
395 22 0.05
396 96 0.23
397 136 0.33
398 72 0.17
399 9 0.02
400 7 0.02
401 72 0.17
ACGTcount: A:0.60, C:0.04, G:0.05, T:0.31
Consensus pattern (394 bp):
AAATAGATAATATATAAAATAATTTAAAAATAATATATAATAAAACAGTTTCAAATATACAATAT
AAAAATTTTAAATAAATAACATATAAAACAGTTTAAACTAAATAATATATAAAAATAATAACATA
TGTAAAAGTTTGAAATAAATAATATATAAAAAAAGGTTTAAAATAAATAATATATAAAAAAAACT
TAAAATAGATAATATATAAATAATTTAAAAATAATATATAACAAAACAATTTCAAATATAAAATA
TAATATTTTTAAAAATAAGTAACATATAAAACAGTTTAAACTAAATAATATATAAAATAAATAAC
ATATGTAAAAGTTTGAAATAAATAATATATAAAAAAAGTTTAAAATAAATAATATATAAAAAAAA
CTTA
Found at i:63211439 original size:42 final size:42
Alignment explanation
Indices: 63211392--63211484 Score: 120
Period size: 42 Copynumber: 2.2 Consensus size: 42
63211382 TAAATTTTTA
63211392 AAAATAAGTAACATAT-AAAACAGTTT-AAACTAAATAATATAT
1 AAAATAAGTAACATATGAAAA-AGTTTGAAA-TAAATAATATAT
*
63211434 AAAAT-AGATAACATATGTAAAAGTTTGAAATAAATAATATAT
1 AAAATAAG-TAACATATGAAAAAGTTTGAAATAAATAATATAT
*
63211476 AAAAAAAGT
1 AAAATAAGT
63211485 TTAAAATAAA
Statistics
Matches: 45, Mismatches: 2, Indels: 8
0.82 0.04 0.15
Matches are distributed among these distances:
41 2 0.04
42 35 0.78
43 8 0.18
ACGTcount: A:0.60, C:0.04, G:0.08, T:0.28
Consensus pattern (42 bp):
AAAATAAGTAACATATGAAAAAGTTTGAAATAAATAATATAT
Found at i:63211483 original size:27 final size:26
Alignment explanation
Indices: 63211452--63211574 Score: 133
Period size: 27 Copynumber: 4.6 Consensus size: 26
63211442 TAACATATGT
63211452 AAAAGTTTGAAATAAATAATATATAAA
1 AAAAGTTT-AAATAAATAATATATAAA
63211479 AAAAGTTTAAAATAAATAATATATAAAA
1 AAAAGTTT-AAATAAATAATATAT-AAA
* * * *
63211507 AAAACTTAAAATAGATCATATATAAA
1 AAAAGTTTAAATAAATAATATATAAA
*
63211533 ATAA-TTTAAA-AAATAATATATAATA
1 AAAAGTTTAAATAAATAATATATAA-A
63211558 AAATAGTTTAAAGTAAA
1 AAA-AGTTTAAA-TAAA
63211575 AAGTCAAGGA
Statistics
Matches: 80, Mismatches: 10, Indels: 10
0.80 0.10 0.10
Matches are distributed among these distances:
24 11 0.14
25 8 0.10
26 7 0.09
27 42 0.52
28 9 0.11
29 3 0.04
ACGTcount: A:0.63, C:0.02, G:0.05, T:0.30
Consensus pattern (26 bp):
AAAAGTTTAAATAAATAATATATAAA
Found at i:63216554 original size:18 final size:18
Alignment explanation
Indices: 63216531--63216573 Score: 86
Period size: 18 Copynumber: 2.4 Consensus size: 18
63216521 TGTTACATGA
63216531 GCTTACTAAGCACAAAGT
1 GCTTACTAAGCACAAAGT
63216549 GCTTACTAAGCACAAAGT
1 GCTTACTAAGCACAAAGT
63216567 GCTTACT
1 GCTTACT
63216574 CTGTTTCATT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 25 1.00
ACGTcount: A:0.35, C:0.23, G:0.16, T:0.26
Consensus pattern (18 bp):
GCTTACTAAGCACAAAGT
Found at i:63220044 original size:3 final size:3
Alignment explanation
Indices: 63220038--63220065 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
63220028 ATAACAACAC
63220038 TAA TAA TAA TAA TAA TAA TAA TAA TAA T
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA T
63220066 GTAAAAGTGA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (3 bp):
TAA
Found at i:63222268 original size:54 final size:55
Alignment explanation
Indices: 63222168--63222273 Score: 126
Period size: 54 Copynumber: 1.9 Consensus size: 55
63222158 ACCCCGAGGC
* * * *
63222168 TCAACTCACCTTTGGCAATATGAGCTGATTTTGAAAAAGTAGAAATT-AAAAGGT
1 TCAACCCACCTCTCGCAATATGAGCTGATTTTGAAAAAGCAGAAATTGAAAAGGT
* * *
63222222 TCAACCCACCTCTCGCAATATGAGTTGATTCTTGAACAA-CATAAATTGAAAA
1 TCAACCCACCTCTCGCAATATGAGCTGATT-TTGAAAAAGCAGAAATTGAAAA
63222274 CAGAAATTGA
Statistics
Matches: 43, Mismatches: 7, Indels: 3
0.81 0.13 0.06
Matches are distributed among these distances:
54 32 0.74
55 11 0.26
ACGTcount: A:0.39, C:0.18, G:0.15, T:0.28
Consensus pattern (55 bp):
TCAACCCACCTCTCGCAATATGAGCTGATTTTGAAAAAGCAGAAATTGAAAAGGT
Found at i:63222280 original size:13 final size:13
Alignment explanation
Indices: 63222253--63222286 Score: 50
Period size: 13 Copynumber: 2.5 Consensus size: 13
63222243 GAGTTGATTC
*
63222253 TTGAACAACATAAA
1 TTGAA-AACAGAAA
63222267 TTGAAAACAGAAA
1 TTGAAAACAGAAA
63222280 TTGAAAA
1 TTGAAAA
63222287 TACCTCAGCG
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 14 0.74
14 5 0.26
ACGTcount: A:0.59, C:0.09, G:0.12, T:0.21
Consensus pattern (13 bp):
TTGAAAACAGAAA
Found at i:63222360 original size:14 final size:14
Alignment explanation
Indices: 63222341--63222375 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 14
63222331 GCTGATTTTT
* *
63222341 TTGAAAAGTAGGAA
1 TTGAAAAGCAGAAA
63222355 TTGAAAAGCAGAAA
1 TTGAAAAGCAGAAA
63222369 TTGAAAA
1 TTGAAAA
63222376 TACCTCAGCG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.54, C:0.03, G:0.23, T:0.20
Consensus pattern (14 bp):
TTGAAAAGCAGAAA
Found at i:63222466 original size:14 final size:14
Alignment explanation
Indices: 63222447--63222473 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
63222437 AAAAATTAAA
63222447 AACAGAATTTGAAT
1 AACAGAATTTGAAT
63222461 AACAGAATTTGAA
1 AACAGAATTTGAA
63222474 AATACCTCGA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.52, C:0.07, G:0.15, T:0.26
Consensus pattern (14 bp):
AACAGAATTTGAAT
Found at i:63222550 original size:102 final size:99
Alignment explanation
Indices: 63222353--63222563 Score: 230
Period size: 102 Copynumber: 2.1 Consensus size: 99
63222343 GAAAAGTAGG
* **
63222353 AATTGAAAAGCAGAAATTGAAAATACCTCAGCGTGCCCCGAGGCTTGACTCACCTCTCGCAATAT
1 AATTGAAAAGCAGAAATTGAAAATACCTCAGCGTGACCCGAGGCTCAACTCACCTCTCGCAATAT
* *
63222418 GAGTTGGTTTTAGGAAAGTAAAAATTAAAAACAGA
66 GAGTTGATTTTACGAAAG-AAAAATTAAAAACAGA
* * * *
63222453 ATTTGAATAA-CAGAATTTGAAAATACCTC-GACATGTGACCCGAGGCTCAACTCATCTCTTGCA
1 AATTGAA-AAGCAGAAATTGAAAATACCTCAG-C--GTGACCCGAGGCTCAACTCACCTCTCGCA
* * *
63222516 ATATGAGTTGATTTTGACGAACG-GAATTTGAAAAACAGA
62 ATATGAGTTGATTTT-ACGAAAGAAAAATT-AAAAACAGA
63222555 AATTGAAAA
1 AATTGAAAA
63222564 TAGCTCAGCA
Statistics
Matches: 92, Mismatches: 13, Indels: 11
0.79 0.11 0.09
Matches are distributed among these distances:
99 1 0.01
100 25 0.27
101 8 0.09
102 53 0.58
103 5 0.05
ACGTcount: A:0.39, C:0.17, G:0.19, T:0.25
Consensus pattern (99 bp):
AATTGAAAAGCAGAAATTGAAAATACCTCAGCGTGACCCGAGGCTCAACTCACCTCTCGCAATAT
GAGTTGATTTTACGAAAGAAAAATTAAAAACAGA
Found at i:63222605 original size:88 final size:88
Alignment explanation
Indices: 63222451--63222618 Score: 257
Period size: 88 Copynumber: 1.9 Consensus size: 88
63222441 ATTAAAAACA
* * * * *
63222451 GAATTTGAATAACAGAATTTGAAAATACCTCGACATGTGACCCGAGGCTCAACTCATCTCTTGCA
1 GAATTTGAAAAACAGAAATTGAAAATACCTCGACACGTGACCCAAGGCTCAACTCATCTCTCGCA
63222516 ATATGAGTTGATTTTGACGAACG
66 ATATGAGTTGATTTTGACGAACG
* *
63222539 GAATTTGAAAAACAGAAATTGAAAATAGCTC-AGCACGTGAGCCAAGGCTCAACTCATCTCTCGC
1 GAATTTGAAAAACAGAAATTGAAAATACCTCGA-CACGTGACCCAAGGCTCAACTCATCTCTCGC
63222603 AATATGAGTTGATTTT
65 AATATGAGTTGATTTT
63222619 TGAAAAACAG
Statistics
Matches: 72, Mismatches: 7, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
87 1 0.01
88 71 0.99
ACGTcount: A:0.35, C:0.19, G:0.19, T:0.27
Consensus pattern (88 bp):
GAATTTGAAAAACAGAAATTGAAAATACCTCGACACGTGACCCAAGGCTCAACTCATCTCTCGCA
ATATGAGTTGATTTTGACGAACG
Found at i:63222789 original size:70 final size:70
Alignment explanation
Indices: 63222637--63222964 Score: 323
Period size: 70 Copynumber: 4.5 Consensus size: 70
63222627 AGAAATTAAA
* * * ** *
63222637 AGGCTGAACTCACCTTTCGCAAGATGAGTCAATTTTCTAAACATAAACTAAAAATACCTCAGCGT
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTT-GAAACATAAACTAAAAATACCTCAGCGT
* *
63222702 GCCCCG
65 GACCTG
** * * * * *
63222708 AGGCTTGACTCACCTCTCGCAATATGAGTTGATTTTGGAACATAAATTGAAATTACCTCAACGTG
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTGAAACATAAACTAAAAATACCTCAGCGTG
* *
63222773 TCTTG
66 ACCTG
* * * *
63222778 AGGCTCAACTCACCTCTCGCAATATGCGCTGATTTTTGAAACAACAGGAATTAAAAATACCTCAG
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTGAAAC-ATA--AACTAAAAATACCTCAG
63222843 CGTGACCTG
62 CGTGACCTG
** **
63222852 AGGCTTGACTCACCTCTCGCAATATGAGTCAATTTTTTTGAAACATAAACTAAAAATACCTCAGC
1 AGGCTCAACTCACCTCTCGCAATATGAGT---TGATTTTGAAACATAAACTAAAAATACCTCAG-
63222917 CTGTGACCTG
62 C-GTGACCTG
* *
63222927 AGGCTCAACTCATCTCTTGCAATATGAGTTGATTTTGA
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTGA
63222965 CGAACGGAAT
Statistics
Matches: 208, Mismatches: 40, Indels: 17
0.78 0.15 0.06
Matches are distributed among these distances:
70 53 0.25
71 38 0.18
72 9 0.04
73 16 0.08
74 47 0.23
75 35 0.17
76 9 0.04
77 1 0.00
ACGTcount: A:0.31, C:0.23, G:0.17, T:0.29
Consensus pattern (70 bp):
AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTGAAACATAAACTAAAAATACCTCAGCGTG
ACCTG
Found at i:63222870 original size:74 final size:71
Alignment explanation
Indices: 63222637--63223851 Score: 368
Period size: 74 Copynumber: 16.9 Consensus size: 71
63222627 AGAAATTAAA
* * * * *
63222637 AGGCTGAACTCACCTTTCGCAAGATGAG-TCAATTTTCT-AAACATAAACTAAAAATACCTCAGC
1 AGGCTCAACTCACCTCTCGCAATATGAGCT-GATTTT-TGAAACATAAATTAAAAATACCTCAGC
* *
63222700 GTGCCCCG
64 GTGACCTG
** * * * * *
63222708 AGGCTTGACTCACCTCTCGCAATATGAGTTGA-TTTTGGAACATAAATTGAAATTACCTCAACGT
1 AGGCTCAACTCACCTCTCGCAATATGAGCTGATTTTTGAAACATAAATTAAAAATACCTCAGCGT
* *
63222772 GTCTTG
66 GACCTG
* *
63222778 AGGCTCAACTCACCTCTCGCAATATGCGCTGATTTTTGAAACAACAGGAATTAAAAATACCTCAG
1 AGGCTCAACTCACCTCTCGCAATATGAGCTGATTTTTGAAAC-ATA--AATTAAAAATACCTCAG
63222843 CGTGACCTG
63 CGTGACCTG
** * *
63222852 AGGCTTGACTCACCTCTCGCAATATGAGTCAAT-TTTTTTGAAACATAAACTAAAAATACCTCAG
1 AGGCTCAACTCACCTCTCGCAATATGAG-C--TGATTTTTGAAACATAAATTAAAAATACCTCAG
63222916 CCTGTGACCTG
63 -C-GTGACCTG
* * * ** * * ** **
63222927 AGGCTCAACTCATCTCTTGCAATATGAGTTGA-TTTTGACGAACGGAATTTGAAAA-A-CAGAAA
1 AGGCTCAACTCACCTCTCGCAATATGAGCTGATTTTTGA--AACATAAATTAAAAATACCTCAGC
* **
63222989 TTGAAAAT-
64 GTG-ACCTG
* * ** ** * * * * * * * * * **** ***
63222997 A-GCTC-A-GCACGT-GAGCCAAGGCTCAACTCATCTCTCGCAATATGAGTTGATTTTTGAAAAA
1 AGGCTCAACTCACCTCTCG-CAA-TATGAGCTGAT-TTTTGAAACATAAATT-AAAAAT--ACCT
** * **
63223058 CAGAAATTA--AA
60 CAG-CGTGACCTG
* * * * * *
63223069 AGGCTGAACTCACCTTTCGCAAGATGAG-TCAATTTTCT-AAATATAAACTAAAAATACCTCAGC
1 AGGCTCAACTCACCTCTCGCAATATGAGCT-GATTTT-TGAAACATAAATTAAAAATACCTCAGC
* *
63223132 GTGCCCCG
64 GTGACCTG
** * * * * *
63223140 AGGCTTGACTCACCTCTCGCAATATGAGTTGA-TTTTGGAACATAAATTGAAATTACCTCAACGT
1 AGGCTCAACTCACCTCTCGCAATATGAGCTGATTTTTGAAACATAAATTAAAAATACCTCAGCGT
* *
63223204 GTCTTG
66 GACCTG
* * *
63223210 AGGCTCCACTCACCTCTCGCAATATGCGCTGATTTTTGAAACAACAAGAATTAAAAATACCTCAG
1 AGGCTCAACTCACCTCTCGCAATATGAGCTGATTTTTGAAAC-A-TA-AATTAAAAATACCTCAG
63223275 CGTGACCTG
63 CGTGACCTG
** * *
63223284 AGGCTTGACTCACCTCTCGCAATATGAG-TCAATTTTTTGAAACATAAACTAAAAATACCTCAGC
1 AGGCTCAACTCACCTCTCGCAATATGAGCT-GA-TTTTTGAAACATAAATTAAAAATACCTCAG-
63223348 CTGTGACCTG
63 C-GTGACCTG
* * * ** * * ** **
63223358 AGGCTCAACTCATCTCTTGCAATATGAGTTGA-TTTTGACGAACGGAATTTGAAAA-A-CAGAAA
1 AGGCTCAACTCACCTCTCGCAATATGAGCTGATTTTTGA--AACATAAATTAAAAATACCTCAGC
* **
63223420 TTGAAAAT-
64 GTG-ACCTG
* * ** ** * * * * * * * * * **** ***
63223428 A-GCTC-A-GCACGT-GAGCCAAGGCTCAACTCATCTCTCGCAATATGAGTTGATTTTTGAAAAA
1 AGGCTCAACTCACCTCTCG-CAA-TATGAGCTGAT-TTTTGAAACATAAATT-AAAAAT--ACCT
** * **
63223489 CAGAAATTA--AA
60 CAG-CGTGACCTG
* * * * * *
63223500 AGGCTGAACTCACCTTTCGCAAGATGAG-TCAATTTTTTAAACATAAACTAAAAATACCTCAGCG
1 AGGCTCAACTCACCTCTCGCAATATGAGCT-GATTTTTGAAACATAAATTAAAAATACCTCAGCG
* *
63223564 TGCCCCG
65 TGACCTG
** * * * * *
63223571 AGGCTTGACTCACCTCTCGCAATATGAGTTGA-TTTTGGAACATAAATTGAAATTACCTCAACGT
1 AGGCTCAACTCACCTCTCGCAATATGAGCTGATTTTTGAAACATAAATTAAAAATACCTCAGCGT
* *
63223635 GTCTTG
66 GACCTG
*
63223641 AGGCTCAACTCACCTCTCGCAATATGAGCTGATTTTTGAAACAACAAGAATTAAAAATACCTCAG
1 AGGCTCAACTCACCTCTCGCAATATGAGCTGATTTTTGAAAC-A-TA-AATTAAAAATACCTCAG
*
63223706 CATGACCTG
63 CGTGACCTG
** * *
63223715 AGGCTTGACTCACCTCTCGCAATATGAG-TCAATTTTTTGAAACATAAACTAAAAATACCTCAGT
1 AGGCTCAACTCACCTCTCGCAATATGAGCT-GA-TTTTTGAAACATAAATTAAAAATACCTCA--
*
63223779 GTGTGACCTG
62 GCGTGACCTG
** * * *
63223789 AGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTTGAAAACATGAATTAAAGATACCTCAG
1 AGGCTCAACTCACCTCTCGCAATATGAGCTGATTTTTG-AAACATAAATTAAAAATACCTCAG
63223852 AGTACCCAAA
Statistics
Matches: 813, Mismatches: 254, Indels: 153
0.67 0.21 0.13
Matches are distributed among these distances:
66 2 0.00
67 12 0.01
68 20 0.02
69 12 0.01
70 189 0.23
71 103 0.13
72 64 0.08
73 62 0.08
74 265 0.33
75 71 0.09
76 12 0.01
77 1 0.00
ACGTcount: A:0.33, C:0.22, G:0.17, T:0.28
Consensus pattern (71 bp):
AGGCTCAACTCACCTCTCGCAATATGAGCTGATTTTTGAAACATAAATTAAAAATACCTCAGCGT
GACCTG
Found at i:63223548 original size:431 final size:431
Alignment explanation
Indices: 63222472--63223824 Score: 2573
Period size: 431 Copynumber: 3.1 Consensus size: 431
63222462 ACAGAATTTG
* *
63222472 AAAATACCTC-GACATGTGACCCGAGGCTCAACTCATCTCTTGCAATATGAGTTGATTTTGACGA
1 AAAATACCTCAG-CCTGTGACCTGAGGCTCAACTCATCTCTTGCAATATGAGTTGATTTTGACGA
63222536 ACGGAATTTGAAAAACAGAAATTGAAAATAGCTCAGCACGTGAGCCAAGGCTCAACTCATCTCTC
65 ACGGAATTTGAAAAACAGAAATTGAAAATAGCTCAGCACGTGAGCCAAGGCTCAACTCATCTCTC
63222601 GCAATATGAGTTGATTTTTGAAAAACAGAAATTAAAAGGCTGAACTCACCTTTCGCAAGATGAGT
130 GCAATATGAGTTGATTTTTGAAAAACAGAAATTAAAAGGCTGAACTCACCTTTCGCAAGATGAGT
63222666 CAATTTTCTAAACATAAACTAAAAATACCTCAGCGTGCCCCGAGGCTTGACTCACCTCTCGCAAT
195 CAATTTTCTAAACATAAACTAAAAATACCTCAGCGTGCCCCGAGGCTTGACTCACCTCTCGCAAT
63222731 ATGAGTTGATTTTGGAACATAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCACCTCTC
260 ATGAGTTGATTTTGGAACATAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCACCTCTC
*
63222796 GCAATATGCGCTGATTTTTGAAACAACAGGAATTAAAAATACCTCAGCGTGACCTGAGGCTTGAC
325 GCAATATGCGCTGATTTTTGAAACAACAAGAATTAAAAATACCTCAGCGTGACCTGAGGCTTGAC
63222861 TCACCTCTCGCAATATGAGTCAATTTTTTTGAAACATAAACTA
390 TCACCTCTCGCAATATGAGTCAA-TTTTTTGAAACATAAACTA
63222904 AAAATACCTCAGCCTGTGACCTGAGGCTCAACTCATCTCTTGCAATATGAGTTGATTTTGACGAA
1 AAAATACCTCAGCCTGTGACCTGAGGCTCAACTCATCTCTTGCAATATGAGTTGATTTTGACGAA
63222969 CGGAATTTGAAAAACAGAAATTGAAAATAGCTCAGCACGTGAGCCAAGGCTCAACTCATCTCTCG
66 CGGAATTTGAAAAACAGAAATTGAAAATAGCTCAGCACGTGAGCCAAGGCTCAACTCATCTCTCG
63223034 CAATATGAGTTGATTTTTGAAAAACAGAAATTAAAAGGCTGAACTCACCTTTCGCAAGATGAGTC
131 CAATATGAGTTGATTTTTGAAAAACAGAAATTAAAAGGCTGAACTCACCTTTCGCAAGATGAGTC
*
63223099 AATTTTCTAAATATAAACTAAAAATACCTCAGCGTGCCCCGAGGCTTGACTCACCTCTCGCAATA
196 AATTTTCTAAACATAAACTAAAAATACCTCAGCGTGCCCCGAGGCTTGACTCACCTCTCGCAATA
*
63223164 TGAGTTGATTTTGGAACATAAATTGAAATTACCTCAACGTGTCTTGAGGCTCCACTCACCTCTCG
261 TGAGTTGATTTTGGAACATAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCG
63223229 CAATATGCGCTGATTTTTGAAACAACAAGAATTAAAAATACCTCAGCGTGACCTGAGGCTTGACT
326 CAATATGCGCTGATTTTTGAAACAACAAGAATTAAAAATACCTCAGCGTGACCTGAGGCTTGACT
63223294 CACCTCTCGCAATATGAGTCAATTTTTTGAAACATAAACTA
391 CACCTCTCGCAATATGAGTCAATTTTTTGAAACATAAACTA
63223335 AAAATACCTCAGCCTGTGACCTGAGGCTCAACTCATCTCTTGCAATATGAGTTGATTTTGACGAA
1 AAAATACCTCAGCCTGTGACCTGAGGCTCAACTCATCTCTTGCAATATGAGTTGATTTTGACGAA
63223400 CGGAATTTGAAAAACAGAAATTGAAAATAGCTCAGCACGTGAGCCAAGGCTCAACTCATCTCTCG
66 CGGAATTTGAAAAACAGAAATTGAAAATAGCTCAGCACGTGAGCCAAGGCTCAACTCATCTCTCG
63223465 CAATATGAGTTGATTTTTGAAAAACAGAAATTAAAAGGCTGAACTCACCTTTCGCAAGATGAGTC
131 CAATATGAGTTGATTTTTGAAAAACAGAAATTAAAAGGCTGAACTCACCTTTCGCAAGATGAGTC
*
63223530 AATTTTTTAAACATAAACTAAAAATACCTCAGCGTGCCCCGAGGCTTGACTCACCTCTCGCAATA
196 AATTTTCTAAACATAAACTAAAAATACCTCAGCGTGCCCCGAGGCTTGACTCACCTCTCGCAATA
63223595 TGAGTTGATTTTGGAACATAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCG
261 TGAGTTGATTTTGGAACATAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCG
* *
63223660 CAATATGAGCTGATTTTTGAAACAACAAGAATTAAAAATACCTCAGCATGACCTGAGGCTTGACT
326 CAATATGCGCTGATTTTTGAAACAACAAGAATTAAAAATACCTCAGCGTGACCTGAGGCTTGACT
63223725 CACCTCTCGCAATATGAGTCAATTTTTTGAAACATAAACTA
391 CACCTCTCGCAATATGAGTCAATTTTTTGAAACATAAACTA
** * *
63223766 AAAATACCTCAGTGTGTGACCTGAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTT
1 AAAATACCTCAGCCTGTGACCTGAGGCTCAACTCATCTCTTGCAATATGAGTTGATTTT
63223825 TGAAAACATG
Statistics
Matches: 906, Mismatches: 14, Indels: 3
0.98 0.02 0.00
Matches are distributed among these distances:
431 500 0.55
432 405 0.45
433 1 0.00
ACGTcount: A:0.34, C:0.22, G:0.17, T:0.28
Consensus pattern (431 bp):
AAAATACCTCAGCCTGTGACCTGAGGCTCAACTCATCTCTTGCAATATGAGTTGATTTTGACGAA
CGGAATTTGAAAAACAGAAATTGAAAATAGCTCAGCACGTGAGCCAAGGCTCAACTCATCTCTCG
CAATATGAGTTGATTTTTGAAAAACAGAAATTAAAAGGCTGAACTCACCTTTCGCAAGATGAGTC
AATTTTCTAAACATAAACTAAAAATACCTCAGCGTGCCCCGAGGCTTGACTCACCTCTCGCAATA
TGAGTTGATTTTGGAACATAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCG
CAATATGCGCTGATTTTTGAAACAACAAGAATTAAAAATACCTCAGCGTGACCTGAGGCTTGACT
CACCTCTCGCAATATGAGTCAATTTTTTGAAACATAAACTA
Found at i:63235941 original size:35 final size:31
Alignment explanation
Indices: 63235902--63235971 Score: 86
Period size: 35 Copynumber: 2.1 Consensus size: 31
63235892 ATATACATAT
* *
63235902 AATAAAATACATGTATTGATAATATATATGATAAG
1 AATAAAATAAATGTA---ATAATATACAT-ATAAG
63235937 AATAAAATAAATGTAATAATATACATATAAG
1 AATAAAATAAATGTAATAATATACATATAAG
63235968 AATA
1 AATA
63235972 TAAAATCTAG
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
31 9 0.27
32 10 0.30
35 14 0.42
ACGTcount: A:0.57, C:0.03, G:0.09, T:0.31
Consensus pattern (31 bp):
AATAAAATAAATGTAATAATATACATATAAG
Found at i:63237740 original size:16 final size:16
Alignment explanation
Indices: 63237719--63237750 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
63237709 TTTTGTGTAA
*
63237719 TGGGCTGTTAGTTTAG
1 TGGGCTGGTAGTTTAG
63237735 TGGGCTGGTAGTTTAG
1 TGGGCTGGTAGTTTAG
63237751 GTTATTGGGT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.12, C:0.06, G:0.41, T:0.41
Consensus pattern (16 bp):
TGGGCTGGTAGTTTAG
Found at i:63237774 original size:15 final size:16
Alignment explanation
Indices: 63237753--63237791 Score: 55
Period size: 14 Copynumber: 2.6 Consensus size: 16
63237743 TAGTTTAGGT
*
63237753 TATTGGGTTTCAGGTA
1 TATTGGGTTTCAGGGA
63237769 TA-TGGG-TTCAGGGA
1 TATTGGGTTTCAGGGA
63237783 TATTGGGTT
1 TATTGGGTT
63237792 CTGGTTGTAA
Statistics
Matches: 20, Mismatches: 1, Indels: 4
0.80 0.04 0.16
Matches are distributed among these distances:
14 9 0.45
15 8 0.40
16 3 0.15
ACGTcount: A:0.18, C:0.05, G:0.36, T:0.41
Consensus pattern (16 bp):
TATTGGGTTTCAGGGA
Found at i:63237792 original size:15 final size:15
Alignment explanation
Indices: 63237753--63237792 Score: 55
Period size: 15 Copynumber: 2.7 Consensus size: 15
63237743 TAGTTTAGGT
*
63237753 TATTGGGTTTCAGGTA
1 TATTGGG-TTCAGGGA
63237769 TA-TGGGTTCAGGGA
1 TATTGGGTTCAGGGA
63237783 TATTGGGTTC
1 TATTGGGTTC
63237793 TGGTTGTAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
14 9 0.41
15 11 0.50
16 2 0.09
ACGTcount: A:0.17, C:0.07, G:0.35, T:0.40
Consensus pattern (15 bp):
TATTGGGTTCAGGGA
Found at i:63240209 original size:25 final size:25
Alignment explanation
Indices: 63240150--63240238 Score: 90
Period size: 25 Copynumber: 3.6 Consensus size: 25
63240140 ATTCATATAT
* *
63240150 GCTCATACGAGCTGTA-AACTGGAA
1 GCTCATGCGAGCTGTATAACAGGAA
* * *
63240174 GCTCCTCCGAGCTGAATAACAGGAA
1 GCTCATGCGAGCTGTATAACAGGAA
* **
63240199 GCTCATGCGAGTTGTATAATGGGAA
1 GCTCATGCGAGCTGTATAACAGGAA
*
63240224 GCTCATGCAAGCTGT
1 GCTCATGCGAGCTGT
63240239 GGTGTGCCCG
Statistics
Matches: 52, Mismatches: 12, Indels: 1
0.80 0.18 0.02
Matches are distributed among these distances:
24 13 0.25
25 39 0.75
ACGTcount: A:0.29, C:0.21, G:0.27, T:0.22
Consensus pattern (25 bp):
GCTCATGCGAGCTGTATAACAGGAA
Found at i:63244524 original size:16 final size:15
Alignment explanation
Indices: 63244488--63244534 Score: 51
Period size: 16 Copynumber: 3.1 Consensus size: 15
63244478 TATTATTTAA
63244488 ATAAAAATT-AAAAT
1 ATAAAAATTAAAAAT
* *
63244502 TTTAAAATTCAAAAAT
1 ATAAAAATT-AAAAAT
63244518 ATAAAAATATAAAAAT
1 ATAAAAAT-TAAAAAT
63244534 A
1 A
63244535 AATCTGTAAA
Statistics
Matches: 26, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
14 7 0.27
16 18 0.69
17 1 0.04
ACGTcount: A:0.68, C:0.02, G:0.00, T:0.30
Consensus pattern (15 bp):
ATAAAAATTAAAAAT
Found at i:63252011 original size:28 final size:28
Alignment explanation
Indices: 63251979--63252035 Score: 114
Period size: 28 Copynumber: 2.0 Consensus size: 28
63251969 GCCTTAGTAT
63251979 TTACAATTTTTTTCAATTTAGTCCTATC
1 TTACAATTTTTTTCAATTTAGTCCTATC
63252007 TTACAATTTTTTTCAATTTAGTCCTATC
1 TTACAATTTTTTTCAATTTAGTCCTATC
63252035 T
1 T
63252036 CTAAAAATTT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.25, C:0.18, G:0.04, T:0.54
Consensus pattern (28 bp):
TTACAATTTTTTTCAATTTAGTCCTATC
Found at i:63252045 original size:30 final size:28
Alignment explanation
Indices: 63251983--63252046 Score: 101
Period size: 28 Copynumber: 2.2 Consensus size: 28
63251973 TAGTATTTAC
*
63251983 AATTTTTTTCAATTTAGTCCTATCTTAC
1 AATTTTTTTCAATTTAGTCCTATCTTAA
63252011 AATTTTTTTCAATTTAGTCCTATCTCTAA
1 AATTTTTTTCAATTTAGTCCTATCT-TAA
*
63252040 AAATTTT
1 AATTTTT
63252047 AAAAATATTT
Statistics
Matches: 33, Mismatches: 2, Indels: 1
0.92 0.06 0.03
Matches are distributed among these distances:
28 25 0.76
29 8 0.24
ACGTcount: A:0.28, C:0.16, G:0.03, T:0.53
Consensus pattern (28 bp):
AATTTTTTTCAATTTAGTCCTATCTTAA
Found at i:63266456 original size:25 final size:25
Alignment explanation
Indices: 63266398--63266447 Score: 100
Period size: 25 Copynumber: 2.0 Consensus size: 25
63266388 TAAGTTGGGA
63266398 AGTTGTTTCTTAAAACGTACTTCAT
1 AGTTGTTTCTTAAAACGTACTTCAT
63266423 AGTTGTTTCTTAAAACGTACTTCAT
1 AGTTGTTTCTTAAAACGTACTTCAT
63266448 TTCTGTTTCC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.28, C:0.16, G:0.12, T:0.44
Consensus pattern (25 bp):
AGTTGTTTCTTAAAACGTACTTCAT
Found at i:63270081 original size:35 final size:35
Alignment explanation
Indices: 63270042--63270155 Score: 115
Period size: 35 Copynumber: 3.1 Consensus size: 35
63270032 GATTTATTCG
*
63270042 ACTAGCGCTGGGCGTAAATATCGTTGGTTTATCCA
1 ACTAGCGCTGGGCGTAAATATCATTGGTTTATCCA
* * *
63270077 ACTAGAGCTGGGC-TCACTAATTAT-TTTGTTGTTTATCTA
1 ACTAGCGCTGGGCGT-A--AA-TATCATTG--GTTTATCCA
*
63270116 ACTAGCGCTAGGCGTAAATATCATTGGTTTATCCA
1 ACTAGCGCTGGGCGTAAATATCATTGGTTTATCCA
63270151 ACTAG
1 ACTAG
63270156 AGCTAGGCTA
Statistics
Matches: 64, Mismatches: 7, Indels: 16
0.74 0.08 0.18
Matches are distributed among these distances:
34 1 0.02
35 26 0.41
36 3 0.05
37 10 0.16
38 3 0.05
39 20 0.31
40 1 0.02
ACGTcount: A:0.25, C:0.18, G:0.21, T:0.35
Consensus pattern (35 bp):
ACTAGCGCTGGGCGTAAATATCATTGGTTTATCCA
Found at i:63270229 original size:75 final size:75
Alignment explanation
Indices: 63270041--63270281 Score: 335
Period size: 74 Copynumber: 3.2 Consensus size: 75
63270031 CGATTTATTC
* * * *
63270041 GACTAGCGCTGGGCGTAAATATCGTTGGTTTATCCAACTAGAGCTGGGCTCACTAATTATTTTGT
1 GACTAGCGCTGGGCGCAAATATCATTGGTTTATCCAACTAGAGCTAGGCTCACTAATTATTTCGT
* *
63270106 -TGTTTATCT
66 CGGTTTACCT
* * * *
63270115 AACTAGCGCTAGGCGTAAATATCATTGGTTTATCCAACTAGAGCTAGGCTAACTAATTATTTCGT
1 GACTAGCGCTGGGCGCAAATATCATTGGTTTATCCAACTAGAGCTAGGCTCACTAATTATTTCGT
63270180 CGGTTTACCT
66 CGGTTTACCT
* * *
63270190 GACTAGCGCTGGACGCAAATATCATTGGCTTATCGAACTAGAGCTAGGCTCACTAATTA-TTCGT
1 GACTAGCGCTGGGCGCAAATATCATTGGTTTATCCAACTAGAGCTAGGCTCACTAATTATTTCGT
63270254 CGGTTTAGCC-
66 CGGTTTA-CCT
63270264 GACTAGCGCTGGGCGCAA
1 GACTAGCGCTGGGCGCAA
63270282 CTTCCACCAT
Statistics
Matches: 149, Mismatches: 16, Indels: 4
0.88 0.09 0.02
Matches are distributed among these distances:
74 88 0.59
75 61 0.41
ACGTcount: A:0.25, C:0.21, G:0.23, T:0.32
Consensus pattern (75 bp):
GACTAGCGCTGGGCGCAAATATCATTGGTTTATCCAACTAGAGCTAGGCTCACTAATTATTTCGT
CGGTTTACCT
Found at i:63271049 original size:18 final size:18
Alignment explanation
Indices: 63271026--63271063 Score: 76
Period size: 18 Copynumber: 2.1 Consensus size: 18
63271016 TTTGGTTGTT
63271026 AGTTGTTTTGTGAATGTG
1 AGTTGTTTTGTGAATGTG
63271044 AGTTGTTTTGTGAATGTG
1 AGTTGTTTTGTGAATGTG
63271062 AG
1 AG
63271064 GTAAATTGGT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.18, C:0.00, G:0.34, T:0.47
Consensus pattern (18 bp):
AGTTGTTTTGTGAATGTG
Found at i:63276336 original size:3 final size:3
Alignment explanation
Indices: 63276330--63276471 Score: 179
Period size: 3 Copynumber: 49.0 Consensus size: 3
63276320 CTTGGGTAGT
* *
63276330 AGA AGA AGA AGA A-A A-A AAA AGA ATA AG- AGA AGA A-A CAG- AGA
1 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA -AGA AGA
63276371 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA
1 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA
* * *
63276419 AGA AGA AGA AGA AGA AGA AGA AGA AGA AG- AGG AGG AGG AGA AGA AGA
1 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA
*
63276466 ATA AGA
1 AGA AGA
63276472 GAAAATGGAA
Statistics
Matches: 127, Mismatches: 6, Indels: 12
0.88 0.04 0.08
Matches are distributed among these distances:
2 11 0.09
3 116 0.91
ACGTcount: A:0.65, C:0.01, G:0.32, T:0.01
Consensus pattern (3 bp):
AGA
Found at i:63277648 original size:14 final size:15
Alignment explanation
Indices: 63277622--63277650 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
63277612 GCTTCATCAT
63277622 CTTCTTCTTCCTCTG
1 CTTCTTCTTCCTCTG
63277637 CTTCTT-TTCCTCTG
1 CTTCTTCTTCCTCTG
63277651 GTTTTTGGTG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 8 0.57
15 6 0.43
ACGTcount: A:0.00, C:0.38, G:0.07, T:0.55
Consensus pattern (15 bp):
CTTCTTCTTCCTCTG
Found at i:63278068 original size:21 final size:21
Alignment explanation
Indices: 63278042--63278082 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
63278032 CAACGTGGCA
63278042 AGTTAACTGGCCACATCAGCT
1 AGTTAACTGGCCACATCAGCT
* *
63278063 AGTTAACTTGCCACGTCAGC
1 AGTTAACTGGCCACATCAGC
63278083 GTTCCCGTTA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.27, C:0.29, G:0.20, T:0.24
Consensus pattern (21 bp):
AGTTAACTGGCCACATCAGCT
Found at i:63281035 original size:6 final size:6
Alignment explanation
Indices: 63281024--63281052 Score: 58
Period size: 6 Copynumber: 4.8 Consensus size: 6
63281014 CAATTTTCTA
63281024 TATTTT TATTTT TATTTT TATTTT TATTT
1 TATTTT TATTTT TATTTT TATTTT TATTT
63281053 ATAATTATTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.17, C:0.00, G:0.00, T:0.83
Consensus pattern (6 bp):
TATTTT
Found at i:63284382 original size:2 final size:2
Alignment explanation
Indices: 63284375--63284412 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
63284365 AAATATAAAC
63284375 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
63284413 TAACATATAA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:63284496 original size:15 final size:15
Alignment explanation
Indices: 63284476--63284558 Score: 65
Period size: 15 Copynumber: 5.9 Consensus size: 15
63284466 GAATTCTAAT
*
63284476 ATAAATAATCATAAC
1 ATAAATAATAATAAC
63284491 ATAAATAATAAT-A-
1 ATAAATAATAATAAC
63284504 AT-AATAATAAT-A-
1 ATAAATAATAATAAC
*
63284516 AT-AATAATAATAAT
1 ATAAATAATAATAAC
*
63284530 A-ATAATAATAATAAT
1 ATA-AATAATAATAAC
63284545 A-ATAATAATAATAA
1 ATA-AATAATAATAA
63284559 TAGGGGTGAC
Statistics
Matches: 63, Mismatches: 1, Indels: 8
0.88 0.01 0.11
Matches are distributed among these distances:
12 21 0.33
13 3 0.05
14 2 0.03
15 37 0.59
ACGTcount: A:0.66, C:0.02, G:0.00, T:0.31
Consensus pattern (15 bp):
ATAAATAATAATAAC
Found at i:63284502 original size:3 final size:3
Alignment explanation
Indices: 63284494--63284560 Score: 134
Period size: 3 Copynumber: 22.3 Consensus size: 3
63284484 TCATAACATA
63284494 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
63284542 AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT A
63284561 GGGGTGACAA
Statistics
Matches: 64, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 64 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:63286021 original size:136 final size:137
Alignment explanation
Indices: 63285777--63286062 Score: 502
Period size: 136 Copynumber: 2.1 Consensus size: 137
63285767 CATTGGGCCT
** * *
63285777 AAGCCCATTCAGGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAAATTACAATAAACTGGGCCTT
1 AAGCCCATTTGGGTAACAGTGATACTGGGCCAAAGCCCTTTTCAAATTACAATAAACTGGGCCTT
*
63285842 AGGCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAAT-AA
66 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAATAAA
63285906 CATATGC
131 CATATGC
*
63285913 AAGCCCATTTGGGTAACAGTGATACTGGGCCAAAGCCCTTTTCAGATTACAATAAACTGGGCCTT
1 AAGCCCATTTGGGTAACAGTGATACTGGGCCAAAGCCCTTTTCAAATTACAATAAACTGGGCCTT
*
63285978 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAGTAAA
66 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAATAAA
63286043 CATATGC
131 CATATGC
63286050 AAGCCCATTTGGG
1 AAGCCCATTTGGG
63286063 GAGACTACTC
Statistics
Matches: 142, Mismatches: 7, Indels: 1
0.95 0.05 0.01
Matches are distributed among these distances:
136 120 0.85
137 22 0.15
ACGTcount: A:0.33, C:0.25, G:0.18, T:0.24
Consensus pattern (137 bp):
AAGCCCATTTGGGTAACAGTGATACTGGGCCAAAGCCCTTTTCAAATTACAATAAACTGGGCCTT
AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAATAAA
CATATGC
Found at i:63287880 original size:26 final size:26
Alignment explanation
Indices: 63287851--63287986 Score: 218
Period size: 26 Copynumber: 5.2 Consensus size: 26
63287841 CATGATATTC
*
63287851 TTATAATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
63287877 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* *
63287903 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
*
63287929 TTATCATGAAATATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* *
63287955 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
63287981 TTATCA
1 TTATCA
63287987 ATTTGTATCA
Statistics
Matches: 101, Mismatches: 9, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 101 1.00
ACGTcount: A:0.38, C:0.24, G:0.05, T:0.34
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:63293864 original size:127 final size:127
Alignment explanation
Indices: 63293651--63293946 Score: 375
Period size: 127 Copynumber: 2.3 Consensus size: 127
63293641 AATATTTGAT
*
63293651 GTTTGGAAATTCGGGAAATCGTGCCCTACCGTGCTGGGTTTCGATTTCCCATTTGATCAAAATAA
1 GTTTGGAAATTCGGGAAATCGTGCCCTACCATGCTGGGTTTCGATTTCCCATTTGATCAAAATAA
*
63293716 TTGAATATTCCTTTAGAATTTCACTCGTGTTTTCCAAATTCTAAAACAAGGCAATGTTCAAG
66 TTGAATATTCCTTTAGAATTTCACTCGTGTTTTACAAATTCTAAAACAAGGCAATGTTCAAG
* ** * * *
63293778 GTTTGGAAATTCAGGG-AATCGTGCCCTATCATGCTGGGTTTCGATTTCCGGTTTGTTCCACATA
1 GTTTGGAAATTC-GGGAAATCGTGCCCTACCATGCTGGGTTTCGATTTCCCATTTGATCAAAATA
* * * * *
63293842 ATTGAATGTTTCTTTAGTATTTCACTCGTGTTTTATAAATTCTAAAGCAAGGCAATGTTCAA-
65 ATTGAATATTCCTTTAGAATTTCACTCGTGTTTTACAAATTCTAAAACAAGGCAATGTTCAAG
* * ** *
63293904 -TAATGGAAGTTCGAGG-AATCGTGCCCTACTGTGCCGGGTTTCG
1 GT-TTGGAAATTCG-GGAAATCGTGCCCTACCATGCTGGGTTTCG
63293947 GTTTTTTGTT
Statistics
Matches: 147, Mismatches: 19, Indels: 7
0.85 0.11 0.04
Matches are distributed among these distances:
125 2 0.01
126 33 0.22
127 109 0.74
128 3 0.02
ACGTcount: A:0.25, C:0.18, G:0.21, T:0.35
Consensus pattern (127 bp):
GTTTGGAAATTCGGGAAATCGTGCCCTACCATGCTGGGTTTCGATTTCCCATTTGATCAAAATAA
TTGAATATTCCTTTAGAATTTCACTCGTGTTTTACAAATTCTAAAACAAGGCAATGTTCAAG
Found at i:63302569 original size:64 final size:64
Alignment explanation
Indices: 63302495--63302618 Score: 185
Period size: 64 Copynumber: 1.9 Consensus size: 64
63302485 ACATTCATAA
* * *
63302495 CACATCTAGTTAGGAGCATTTGATTCATTTCGATCATAGCATCCTAATTATTTGACATAAGCAT
1 CACATCTAGTTAGGAGCATTTAATTCATTTCGATCATAACATCCTAATCATTTGACATAAGCAT
* * * *
63302559 CACATCTAGTTAGGAGTATTTAATTCATTTTGATCATAACATCCTAGTCATTTGGCATAA
1 CACATCTAGTTAGGAGCATTTAATTCATTTCGATCATAACATCCTAATCATTTGACATAA
63302619 ACATAGGCAT
Statistics
Matches: 53, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
64 53 1.00
ACGTcount: A:0.31, C:0.18, G:0.14, T:0.37
Consensus pattern (64 bp):
CACATCTAGTTAGGAGCATTTAATTCATTTCGATCATAACATCCTAATCATTTGACATAAGCAT
Found at i:63302824 original size:44 final size:44
Alignment explanation
Indices: 63302776--63302919 Score: 100
Period size: 44 Copynumber: 3.3 Consensus size: 44
63302766 GATCTTGTCT
63302776 CCCTAAACAGTAGTGGAGCAGATCGAAGAAAGTAAGCCTTAACC
1 CCCTAAACAGTAGTGGAGCAGATCGAAGAAAGTAAGCCTTAACC
** * * ** * ** *
63302820 CCCTAAGTAGTAG-GGTAACAG-GCTGAAGATTGT-AGATCTTGTCT
1 CCCTAAACAGTAGTGG-AGCAGATC-GAAGAAAGTAAG-CCTTAACC
* *
63302864 CCCTAAACAGTAGTGGAGCAAATC--AGAGAAGCAAGCCTTAACC
1 CCCTAAACAGTAGTGGAGCAGATCGAAGA-AAGTAAGCCTTAACC
*
63302907 CCCTAAATAGTAG
1 CCCTAAACAGTAG
63302920 GGTAACAGGC
Statistics
Matches: 70, Mismatches: 23, Indels: 15
0.65 0.21 0.14
Matches are distributed among these distances:
42 3 0.04
43 22 0.31
44 42 0.60
45 3 0.04
ACGTcount: A:0.35, C:0.22, G:0.23, T:0.20
Consensus pattern (44 bp):
CCCTAAACAGTAGTGGAGCAGATCGAAGAAAGTAAGCCTTAACC
Found at i:63302935 original size:87 final size:87
Alignment explanation
Indices: 63302664--63303283 Score: 659
Period size: 87 Copynumber: 7.1 Consensus size: 87
63302654 TGTAGCGACT
* * **
63302664 AGGCTGAAGATTGTAGATCTTGTCTCCTTAAACAGTAGTGGAGTA-AGTC-GAAGAAGCAAGTTT
1 AGGCTGAAGATTGTAGATCTTGTCTCCCTAAACAGTAGTGGAGCAGA-TCAG-AGAAGCAAGCCT
*
63302727 TAACCCTCTAAGTAGTAGGGTAAC
64 TAACCCCCTAAGTAGTAGGGTAAC
* *
63302751 AGGCTAAAGATTGTAGATCTTGTCTCCCTAAACAGTAGTGGAGCAGATC-GAAGAAAGTAAGCCT
1 AGGCTGAAGATTGTAGATCTTGTCTCCCTAAACAGTAGTGGAGCAGATCAG-AG-AAGCAAGCCT
63302815 TAACCCCCTAAGTAGTAGGGTAAC
64 TAACCCCCTAAGTAGTAGGGTAAC
*
63302839 AGGCTGAAGATTGTAGATCTTGTCTCCCTAAACAGTAGTGGAGCAAATCAGAGAAGCAAGCCTTA
1 AGGCTGAAGATTGTAGATCTTGTCTCCCTAAACAGTAGTGGAGCAGATCAGAGAAGCAAGCCTTA
*
63302904 ACCCCCTAAATAGTAGGGTAAC
66 ACCCCCTAAGTAGTAGGGTAAC
* * * * * *
63302926 AGGCTGAAGATTGCAGATCTTGTCTCCC-AGA-AGTTACAGTGGAACAGATCAAAGACGGCGAGC
1 AGGCTGAAGATTGTAGATCTTGTCTCCCTAAACAG-T--AGTGGAGCAGATCAGAGA-AGCAAGC
63302989 CTTAACCCCCTAAGTAGTAGGGTAAC
62 CTTAACCCCCTAAGTAGTAGGGTAAC
* * * *
63303015 AGGCTAAAGATTGTAGATCTTGTCTCCCTAAATAGTAGTAGAGCAAATC-GAAGAAGCAAGCCTT
1 AGGCTGAAGATTGTAGATCTTGTCTCCCTAAACAGTAGTGGAGCAGATCAG-AGAAGCAAGCCTT
*
63303079 AACCCCCTAGGTAGTAGGGTAAC
65 AACCCCCTAAGTAGTAGGGTAAC
* ** * * * **
63303102 GGGCTGAAGATTGTAGATCTTGTCTCCC-AGAAGTTGTAGTGGAACAGATCAAAGACGGTGAGCC
1 AGGCTGAAGATTGTAGATCTTGTCTCCCTA-AA-CAGTAGTGGAGCAGATCAGAGA-AGCAAGCC
* * *
63303166 TTGACCCCCTAAGCAATAGGGTAAC
63 TTAACCCCCTAAGTAGTAGGGTAAC
** * * * * * * *
63303191 AGGCTG-A-ATTACAGATCTTATCTCCCTAAACAATAGTTGAGCGGATCAAAGACGGTGAA-CCT
1 AGGCTGAAGATTGTAGATCTTGTCTCCCTAAACAGTAGTGGAGCAGATCAGAGA-AG-CAAGCCT
*
63303253 TAACCCCCTGAA-TAGTAGGGTAGC
64 TAACCCCCT-AAGTAGTAGGGTAAC
63303277 AGGCTGA
1 AGGCTGA
63303284 GAATTACAAG
Statistics
Matches: 456, Mismatches: 59, Indels: 36
0.83 0.11 0.07
Matches are distributed among these distances:
85 2 0.00
86 49 0.11
87 186 0.41
88 126 0.28
89 88 0.19
90 3 0.01
91 2 0.00
ACGTcount: A:0.33, C:0.20, G:0.25, T:0.23
Consensus pattern (87 bp):
AGGCTGAAGATTGTAGATCTTGTCTCCCTAAACAGTAGTGGAGCAGATCAGAGAAGCAAGCCTTA
ACCCCCTAAGTAGTAGGGTAAC
Found at i:63303061 original size:176 final size:174
Alignment explanation
Indices: 63302664--63303283 Score: 791
Period size: 176 Copynumber: 3.5 Consensus size: 174
63302654 TGTAGCGACT
* * * **
63302664 AGGCTGAAGATTGTAGATCTTGTCTCCTTAAACAGTAGTGGAGTAAGTCGAAGAAGCAAGTTTTA
1 AGGCTGAAGATTGTAGATCTTGTCTCCCTAAACAGTAGTGGAGCAAATCGAAGAAGCAAGCCTTA
* * * *
63302729 ACCCTCTAAGTAGTAGGGTAACAGGCTAAAGATTGTAGATCTTGTCTCCCTAAACAG-TAGTGGA
66 ACCCCCTAAATAGTAGGGTAACAGGCTGAAGATTGTAGATCTTGTCTCCC-AGA-AGTTAGTGGA
* * ** *
63302793 GCAGATCGAAGAAAGTAAGCCTTAACCCCCTAAGTAGTAGGGTAAC
129 ACAGATCAAAGACGGTGAGCCTTAACCCCCTAAGTAGTAGGGTAAC
63302839 AGGCTGAAGATTGTAGATCTTGTCTCCCTAAACAGTAGTGGAGCAAATC-AGAGAAGCAAGCCTT
1 AGGCTGAAGATTGTAGATCTTGTCTCCCTAAACAGTAGTGGAGCAAATCGA-AGAAGCAAGCCTT
*
63302903 AACCCCCTAAATAGTAGGGTAACAGGCTGAAGATTGCAGATCTTGTCTCCCAGAAGTTACAGTGG
65 AACCCCCTAAATAGTAGGGTAACAGGCTGAAGATTGTAGATCTTGTCTCCCAGAAGTT--AGTGG
*
63302968 AACAGATCAAAGACGGCGAGCCTTAACCCCCTAAGTAGTAGGGTAAC
128 AACAGATCAAAGACGGTGAGCCTTAACCCCCTAAGTAGTAGGGTAAC
* * *
63303015 AGGCTAAAGATTGTAGATCTTGTCTCCCTAAATAGTAGTAGAGCAAATCGAAGAAGCAAGCCTTA
1 AGGCTGAAGATTGTAGATCTTGTCTCCCTAAACAGTAGTGGAGCAAATCGAAGAAGCAAGCCTTA
** *
63303080 ACCCCCTAGGTAGTAGGGTAACGGGCTGAAGATTGTAGATCTTGTCTCCCAGAAGTTGTAGTGGA
66 ACCCCCTAAATAGTAGGGTAACAGGCTGAAGATTGTAGATCTTGTCTCCCAGAAG-T-TAGTGGA
* * *
63303145 ACAGATCAAAGACGGTGAGCCTTGACCCCCTAAGCAATAGGGTAAC
129 ACAGATCAAAGACGGTGAGCCTTAACCCCCTAAGTAGTAGGGTAAC
** * * * ** * * *
63303191 AGGCTG-A-ATTACAGATCTTATCTCCCTAAACAATAGTTGAGCGGATCAAAGACGGTGAA-CCT
1 AGGCTGAAGATTGTAGATCTTGTCTCCCTAAACAGTAGTGGAGCAAATCGAAGA-AG-CAAGCCT
* *
63303253 TAACCCCCTGAATAGTAGGGTAGCAGGCTGA
64 TAACCCCCTAAATAGTAGGGTAACAGGCTGA
63303284 GAATTACAAG
Statistics
Matches: 392, Mismatches: 44, Indels: 18
0.86 0.10 0.04
Matches are distributed among these distances:
173 2 0.01
174 40 0.10
175 135 0.34
176 212 0.54
177 2 0.01
178 1 0.00
ACGTcount: A:0.33, C:0.20, G:0.25, T:0.23
Consensus pattern (174 bp):
AGGCTGAAGATTGTAGATCTTGTCTCCCTAAACAGTAGTGGAGCAAATCGAAGAAGCAAGCCTTA
ACCCCCTAAATAGTAGGGTAACAGGCTGAAGATTGTAGATCTTGTCTCCCAGAAGTTAGTGGAAC
AGATCAAAGACGGTGAGCCTTAACCCCCTAAGTAGTAGGGTAAC
Found at i:63306556 original size:127 final size:127
Alignment explanation
Indices: 63306383--63306665 Score: 395
Period size: 127 Copynumber: 2.2 Consensus size: 127
63306373 AATGTTTGAT
* * *
63306383 GTTTGAAAATTCGGGAAATCATGCCCTACCGTACTGTGTTTCGATTTCCCGTTTGTTCAAAATAA
1 GTTTGAAAATTCGGGGAATCGTGCCCTACCGTACTGGGTTTCGATTTCCCGTTTGTTCAAAATAA
*
63306448 TTGAATATTCCTTTAGAATTTCACTCGTGTTTTCCAAATTCTAAAACAAGACAATGTTCAAG
66 TTGAATATTCCTTTAGAATTTCACTCGTGTTTTACAAATTCTAAAACAAGACAATGTTCAAG
* * * * * *
63306510 GTTTGGAAATTCGGGGAATCGTGCCCTATCGTGCTGGGTTTTGATTTCCGGTTTGTTCCAAATAA
1 GTTTGAAAATTCGGGGAATCGTGCCCTACCGTACTGGGTTTCGATTTCCCGTTTGTTCAAAATAA
* * * * * *
63306575 TTGAATGTTCCTTTAGTATTTCACTCGTGTTTTATAAATTCTAAAGCAAGGCAATGTTCAAT
66 TTGAATATTCCTTTAGAATTTCACTCGTGTTTTACAAATTCTAAAACAAGACAATGTTCAAG
* * *
63306637 GTTTGTAAGTTCGAGGAATCGTGCCCTAC
1 GTTTGAAAATTCGGGGAATCGTGCCCTAC
63306666 TGTGCCAGGT
Statistics
Matches: 136, Mismatches: 20, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
127 136 1.00
ACGTcount: A:0.26, C:0.18, G:0.19, T:0.37
Consensus pattern (127 bp):
GTTTGAAAATTCGGGGAATCGTGCCCTACCGTACTGGGTTTCGATTTCCCGTTTGTTCAAAATAA
TTGAATATTCCTTTAGAATTTCACTCGTGTTTTACAAATTCTAAAACAAGACAATGTTCAAG
Found at i:63306677 original size:127 final size:126
Alignment explanation
Indices: 63306361--63306679 Score: 381
Period size: 127 Copynumber: 2.5 Consensus size: 126
63306351 GAAAATTCCT
** * * * *
63306361 TAAAGCGAAGGCAATGTTTGATGTTTGAAAATTCGGGAAATCATGCCCTACCGT-ACTGTGTTTC
1 TAAAGC-AAGGCAATGTTCAATGTTTGAAAATTCGGG-AATCGTGCCCTACTGTGCCAG-GTTTC
*
63306425 GATTTCCCGTTTGTTCAAAATAATTGAATATTCCTTTAGAATTTCACTCGTGTTTTCCAAATTC
63 GATTTCCCGTTTGTTCAAAATAATTGAATATTCCTTTAGAATTTCACTCGTGTTTTACAAATTC
* * * * ** *
63306489 TAAAACAAGACAATGTTCAAGGTTTGGAAATTCGGGGAATCGTGCCCTA-TCGTGCTGGGTTTTG
1 TAAAGCAAGGCAATGTTCAATGTTTGAAAATTC-GGGAATCGTGCCCTACT-GTGCCAGGTTTCG
* * * * *
63306553 ATTTCCGGTTTGTTCCAAATAATTGAATGTTCCTTTAGTATTTCACTCGTGTTTTATAAATTC
64 ATTTCCCGTTTGTTCAAAATAATTGAATATTCCTTTAGAATTTCACTCGTGTTTTACAAATTC
* *
63306616 TAAAGCAAGGCAATGTTCAATGTTTGTAAGTTCGAGGAATCGTGCCCTACTGTGCCAGGTTTCG
1 TAAAGCAAGGCAATGTTCAATGTTTGAAAATTCG-GGAATCGTGCCCTACTGTGCCAGGTTTCG
63306680 GTTTTTCAGT
Statistics
Matches: 160, Mismatches: 26, Indels: 11
0.81 0.13 0.06
Matches are distributed among these distances:
126 1 0.01
127 149 0.93
128 10 0.06
ACGTcount: A:0.26, C:0.17, G:0.20, T:0.36
Consensus pattern (126 bp):
TAAAGCAAGGCAATGTTCAATGTTTGAAAATTCGGGAATCGTGCCCTACTGTGCCAGGTTTCGAT
TTCCCGTTTGTTCAAAATAATTGAATATTCCTTTAGAATTTCACTCGTGTTTTACAAATTC
Found at i:63310894 original size:12 final size:12
Alignment explanation
Indices: 63310877--63310903 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
63310867 TTAATCCAAA
63310877 TAATTGATATAT
1 TAATTGATATAT
63310889 TAATTGATATAT
1 TAATTGATATAT
63310901 TAA
1 TAA
63310904 CATGAATTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.44, C:0.00, G:0.07, T:0.48
Consensus pattern (12 bp):
TAATTGATATAT
Found at i:63312125 original size:2 final size:2
Alignment explanation
Indices: 63312118--63312147 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
63312108 TAATGAAACC
63312118 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
63312148 CTGCATTAAG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:63325892 original size:26 final size:26
Alignment explanation
Indices: 63325824--63325930 Score: 180
Period size: 26 Copynumber: 4.2 Consensus size: 26
63325814 TGAAATTCCA
63325824 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
63325850 ATCAT-GAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
* * *
63325875 ATCATGAAACATTTACCTAGCCTATT
1 ATCATGGAACATTTACCTAACCCATT
63325901 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
63325927 ATCA
1 ATCA
63325931 ATTTGTATCA
Statistics
Matches: 74, Mismatches: 6, Indels: 2
0.90 0.07 0.02
Matches are distributed among these distances:
25 25 0.34
26 49 0.66
ACGTcount: A:0.36, C:0.26, G:0.07, T:0.32
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:63331814 original size:50 final size:51
Alignment explanation
Indices: 63331739--63331859 Score: 183
Period size: 50 Copynumber: 2.4 Consensus size: 51
63331729 CCATGGCAAC
63331739 AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGA-AAA-GAGA
1 AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATGA-A
* *
63331789 AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAATGACAAATGAC
1 AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATGAA
* *
63331840 AAGTGAAAAGTGGTAGCTTC
1 AAGTGATAAGTGATAGCTTC
63331860 AACTACCTGA
Statistics
Matches: 65, Mismatches: 4, Indels: 3
0.90 0.06 0.04
Matches are distributed among these distances:
50 42 0.65
51 21 0.32
52 2 0.03
ACGTcount: A:0.36, C:0.15, G:0.23, T:0.26
Consensus pattern (51 bp):
AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATGAA
Found at i:63331879 original size:31 final size:31
Alignment explanation
Indices: 63331841--63332020 Score: 272
Period size: 31 Copynumber: 5.8 Consensus size: 31
63331831 ACAAATGACA
* **
63331841 AGTGAAAAGTGGTAGCTTCAACTACCTGATC
1 AGTGAAAAGTGGTAGCTCCGGCTACCTGATC
*
63331872 AGTGAAAAGTGGTAGCTCTGGCTACCTGATC
1 AGTGAAAAGTGGTAGCTCCGGCTACCTGATC
*
63331903 AATGAAAAGTGGTAGCTCCGGCTACCTGATC
1 AGTGAAAAGTGGTAGCTCCGGCTACCTGATC
*
63331934 AATGAAAAGTGGTAGCTCCGGCTACCTGATC
1 AGTGAAAAGTGGTAGCTCCGGCTACCTGATC
*
63331965 AGTGAAACGTGGTAG-TACCGGCTACCTGATC
1 AGTGAAAAGTGGTAGCT-CCGGCTACCTGATC
*
63331996 AGTGAAAAGTGGTAGCTTCGGCTAC
1 AGTGAAAAGTGGTAGCTCCGGCTAC
63332021 AAGTGACAAG
Statistics
Matches: 137, Mismatches: 10, Indels: 4
0.91 0.07 0.03
Matches are distributed among these distances:
30 1 0.01
31 135 0.99
32 1 0.01
ACGTcount: A:0.28, C:0.21, G:0.27, T:0.24
Consensus pattern (31 bp):
AGTGAAAAGTGGTAGCTCCGGCTACCTGATC
Found at i:63332174 original size:48 final size:49
Alignment explanation
Indices: 63332120--63332225 Score: 169
Period size: 49 Copynumber: 2.2 Consensus size: 49
63332110 ACATCAGTGA
* *
63332120 GATATGTGATT-CGTGTACGACCATAGCTAGGCTATGGCATCGATATGT
1 GATATGTGATTACGTGTAAGACCATAGCTAGGCTATGGCATCGATATAT
*
63332168 GATATGTGATTACGTGTAAGACCATAGCTGGGCTATGGCATCGATATAT
1 GATATGTGATTACGTGTAAGACCATAGCTAGGCTATGGCATCGATATAT
63332217 GAATATGTG
1 G-ATATGTG
63332226 TAAGACCATA
Statistics
Matches: 53, Mismatches: 3, Indels: 2
0.91 0.05 0.03
Matches are distributed among these distances:
48 11 0.21
49 35 0.66
50 7 0.13
ACGTcount: A:0.27, C:0.14, G:0.27, T:0.31
Consensus pattern (49 bp):
GATATGTGATTACGTGTAAGACCATAGCTAGGCTATGGCATCGATATAT
Found at i:63332191 original size:49 final size:48
Alignment explanation
Indices: 63332120--63332251 Score: 168
Period size: 49 Copynumber: 2.9 Consensus size: 48
63332110 ACATCAGTGA
* *
63332120 GATATGTGATTCGTGTACGACCATAGCTAGGCTATGGCATCGATATGT
1 GATATGTGATTCGTGTAAGACCATAGCTAGGCTATGGCATCGATATAT
*
63332168 GATATGTGATTACGTGTAAGACCATAGCTGGGCTATGGCATCGATATAT
1 GATATGTGATT-CGTGTAAGACCATAGCTAGGCTATGGCATCGATATAT
* *
63332217 GA-A--T-A-T-GTGTAAGACCATAGCTGGGCTATAGCATC
1 GATATGTGATTCGTGTAAGACCATAGCTAGGCTATGGCATC
63332252 ATTATGTGAA
Statistics
Matches: 79, Mismatches: 4, Indels: 8
0.87 0.04 0.09
Matches are distributed among these distances:
42 28 0.35
44 1 0.01
45 1 0.01
46 1 0.01
48 12 0.15
49 36 0.46
ACGTcount: A:0.28, C:0.16, G:0.27, T:0.30
Consensus pattern (48 bp):
GATATGTGATTCGTGTAAGACCATAGCTAGGCTATGGCATCGATATAT
Found at i:63332227 original size:42 final size:43
Alignment explanation
Indices: 63332132--63332295 Score: 163
Period size: 42 Copynumber: 3.7 Consensus size: 43
63332122 TATGTGATTC
* * *
63332132 GTGTACGACCATAGCTAGGCTATGGCATCGATATGTGATATG-TGATT
1 GTGTAAGACCATAGCTGGGCTATGGCATCG--AT-T-ATATGAAGA-T
*
63332179 ACGTGTAAGACCATAGCTGGGCTATGGCATCGA-TATATGAATAT
1 --GTGTAAGACCATAGCTGGGCTATGGCATCGATTATATGAAGAT
* *
63332223 GTGTAAGACCATAGCTGGGCTATAGCATC-ATTATGTGAAGAT
1 GTGTAAGACCATAGCTGGGCTATGGCATCGATTATATGAAGAT
* **
63332265 GTGTAAGACCATAGTTGAACTATGGCATCGA
1 GTGTAAGACCATAGCTGGGCTATGGCATCGA
63332296 GAAAACGAAG
Statistics
Matches: 101, Mismatches: 11, Indels: 12
0.81 0.09 0.10
Matches are distributed among these distances:
41 1 0.01
42 62 0.61
43 1 0.01
44 6 0.06
45 2 0.02
47 1 0.01
49 28 0.28
ACGTcount: A:0.30, C:0.15, G:0.26, T:0.29
Consensus pattern (43 bp):
GTGTAAGACCATAGCTGGGCTATGGCATCGATTATATGAAGAT
Found at i:63335897 original size:5 final size:5
Alignment explanation
Indices: 63335889--63335922 Score: 50
Period size: 5 Copynumber: 6.6 Consensus size: 5
63335879 AACCTAAATT
*
63335889 AATAA AATAAA AATAA AATAA AACAA AATAA AAT
1 AATAA AAT-AA AATAA AATAA AATAA AATAA AAT
63335923 CTTTCTATTT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
5 21 0.81
6 5 0.19
ACGTcount: A:0.79, C:0.03, G:0.00, T:0.18
Consensus pattern (5 bp):
AATAA
Found at i:63335905 original size:11 final size:11
Alignment explanation
Indices: 63335889--63335921 Score: 50
Period size: 11 Copynumber: 3.1 Consensus size: 11
63335879 AACCTAAATT
63335889 AATAAAATAAA
1 AATAAAATAAA
63335900 AATAAAAT-AA
1 AATAAAATAAA
*
63335910 AACAAAATAAA
1 AATAAAATAAA
63335921 A
1 A
63335922 TCTTTCTATT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
10 9 0.45
11 11 0.55
ACGTcount: A:0.82, C:0.03, G:0.00, T:0.15
Consensus pattern (11 bp):
AATAAAATAAA
Found at i:63336300 original size:44 final size:45
Alignment explanation
Indices: 63336237--63336326 Score: 139
Period size: 44 Copynumber: 2.0 Consensus size: 45
63336227 GCCAAACATG
* *
63336237 TGTCATATATATCATGAACTCAG-GCTACAACTC-ATGAGTTCAGA
1 TGTCACATATATCATGAACTCAGATC-ACAACTCGATGAGTTCAGA
63336281 TGTCACATATATCATGAACTCAGATCACAACTCGATGAGTTCAGA
1 TGTCACATATATCATGAACTCAGATCACAACTCGATGAGTTCAGA
63336326 T
1 T
63336327 CACATAATTC
Statistics
Matches: 42, Mismatches: 2, Indels: 3
0.89 0.04 0.06
Matches are distributed among these distances:
44 29 0.69
45 13 0.31
ACGTcount: A:0.34, C:0.21, G:0.16, T:0.29
Consensus pattern (45 bp):
TGTCACATATATCATGAACTCAGATCACAACTCGATGAGTTCAGA
Found at i:63336535 original size:2 final size:2
Alignment explanation
Indices: 63336528--63336564 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
63336518 ATCACATTAA
63336528 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
63336565 CTTACCATAC
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:63343612 original size:10 final size:10
Alignment explanation
Indices: 63343582--63343614 Score: 57
Period size: 10 Copynumber: 3.3 Consensus size: 10
63343572 ACTCATTCTT
63343582 CATATATATA
1 CATATATATA
*
63343592 TATATATATA
1 CATATATATA
63343602 CATATATATA
1 CATATATATA
63343612 CAT
1 CAT
63343615 TTCTCACCAA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
10 21 1.00
ACGTcount: A:0.48, C:0.09, G:0.00, T:0.42
Consensus pattern (10 bp):
CATATATATA
Found at i:63344979 original size:58 final size:58
Alignment explanation
Indices: 63344886--63345004 Score: 211
Period size: 58 Copynumber: 2.1 Consensus size: 58
63344876 TTTCATAGAA
*
63344886 TAACTTTCAATATTAGCCATTTACCATGGCCTTATACAAAATGAATCAAATGTTAAAG
1 TAACTTTCAATATTAGCCATTTACCATGGCCTTATACAAAATGAATCAAATGCTAAAG
**
63344944 TAACTTTCAATATTAGCCATTTACCATGGTTTTATACAAAATGAATCAAATGCTAAAG
1 TAACTTTCAATATTAGCCATTTACCATGGCCTTATACAAAATGAATCAAATGCTAAAG
63345002 TAA
1 TAA
63345005 GCTAACACAT
Statistics
Matches: 58, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
58 58 1.00
ACGTcount: A:0.40, C:0.16, G:0.10, T:0.34
Consensus pattern (58 bp):
TAACTTTCAATATTAGCCATTTACCATGGCCTTATACAAAATGAATCAAATGCTAAAG
Found at i:63345679 original size:46 final size:44
Alignment explanation
Indices: 63345581--63345695 Score: 142
Period size: 46 Copynumber: 2.5 Consensus size: 44
63345571 AGGCCGACAC
*
63345581 CATGTCCCAGACATGGTCTTACACTGACATATCTCGTAGCCGATG
1 CATGTCCCAGACAT-GTCTTACACTGACATATCACGTAGCCGATG
* * *
63345626 CATGTCCCAGACATGTCTTACATTGGCTTACGTCACG-AGGCCGATG
1 CATGTCCCAGACATGTCTTACACTGACATA--TCACGTA-GCCGATG
*
63345672 CATGTCCCAAACATGTCTTACACT
1 CATGTCCCAGACATGTCTTACACT
63345696 AGCTCTCGTC
Statistics
Matches: 61, Mismatches: 6, Indels: 5
0.85 0.08 0.07
Matches are distributed among these distances:
44 13 0.21
45 15 0.25
46 33 0.54
ACGTcount: A:0.24, C:0.30, G:0.19, T:0.27
Consensus pattern (44 bp):
CATGTCCCAGACATGTCTTACACTGACATATCACGTAGCCGATG
Found at i:63349975 original size:33 final size:33
Alignment explanation
Indices: 63349878--63349967 Score: 135
Period size: 33 Copynumber: 2.7 Consensus size: 33
63349868 TACTTTTTAT
*
63349878 TTGGTGTGATGGTTAGATTAGCTCTTATGAGCA
1 TTGGTGTGATGGTTGGATTAGCTCTTATGAGCA
* *
63349911 TTGGTGTAATGGTTGGTTTAGCTCTTATGAGCA
1 TTGGTGTGATGGTTGGATTAGCTCTTATGAGCA
* *
63349944 TTGGTGTGATGGATGGATTGGCTC
1 TTGGTGTGATGGTTGGATTAGCTC
63349968 GAGTGAGCGT
Statistics
Matches: 50, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 50 1.00
ACGTcount: A:0.18, C:0.09, G:0.33, T:0.40
Consensus pattern (33 bp):
TTGGTGTGATGGTTGGATTAGCTCTTATGAGCA
Found at i:63351664 original size:25 final size:24
Alignment explanation
Indices: 63351636--63351689 Score: 72
Period size: 25 Copynumber: 2.2 Consensus size: 24
63351626 CATCCCGTTA
63351636 TATGGATCTCACGAGCTTCCTAATT
1 TATGGATCTCACGAGCTTCCT-ATT
* **
63351661 TATGGCTCTCTTGAGCTTCCTATT
1 TATGGATCTCACGAGCTTCCTATT
63351685 TATGG
1 TATGG
63351690 CTCGTATGAG
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
24 8 0.31
25 18 0.69
ACGTcount: A:0.19, C:0.22, G:0.19, T:0.41
Consensus pattern (24 bp):
TATGGATCTCACGAGCTTCCTATT
Found at i:63351699 original size:24 final size:25
Alignment explanation
Indices: 63351636--63351704 Score: 88
Period size: 24 Copynumber: 2.8 Consensus size: 25
63351626 CATCCCGTTA
* *
63351636 TATGGATCTCACGAGCTTCCTAATT
1 TATGGCTCTCATGAGCTTCCTAATT
*
63351661 TATGGCTCTCTTGAGCTTCCT-ATT
1 TATGGCTCTCATGAGCTTCCTAATT
63351685 TATGGCTCGT-ATGAGCTTCC
1 TATGGCTC-TCATGAGCTTCC
63351705 CGATAATTAG
Statistics
Matches: 39, Mismatches: 4, Indels: 3
0.85 0.09 0.07
Matches are distributed among these distances:
24 20 0.51
25 19 0.49
ACGTcount: A:0.17, C:0.25, G:0.19, T:0.39
Consensus pattern (25 bp):
TATGGCTCTCATGAGCTTCCTAATT
Found at i:63351843 original size:25 final size:25
Alignment explanation
Indices: 63351812--63351867 Score: 94
Period size: 25 Copynumber: 2.2 Consensus size: 25
63351802 TTCTCGAATG
63351812 TGGCTCACATGAGCTTCCCGTTACA
1 TGGCTCACATGAGCTTCCCGTTACA
* *
63351837 TGGCTCACATGAGCTTCCTGTTATA
1 TGGCTCACATGAGCTTCCCGTTACA
63351862 TGGCTC
1 TGGCTC
63351868 GAAAGAGCTA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
25 29 1.00
ACGTcount: A:0.18, C:0.29, G:0.21, T:0.32
Consensus pattern (25 bp):
TGGCTCACATGAGCTTCCCGTTACA
Found at i:63351900 original size:25 final size:25
Alignment explanation
Indices: 63351812--63351900 Score: 92
Period size: 25 Copynumber: 3.6 Consensus size: 25
63351802 TTCTCGAATG
* * *
63351812 TGGCTCACATGAGCTTCCCGTTACA
1 TGGCTCACATGAGCTACCTGTTATA
*
63351837 TGGCTCACATGAGCTTCCTGTTATA
1 TGGCTCACATGAGCTACCTGTTATA
* *
63351862 TGGCTCGA-AAGAGCTACCTATTTATA
1 TGGCTC-ACATGAGCTACCT-GTTATA
63351888 T-GCTCACATGAGC
1 TGGCTCACATGAGC
63351901 ATTCCTGAAT
Statistics
Matches: 55, Mismatches: 6, Indels: 6
0.82 0.09 0.09
Matches are distributed among these distances:
24 1 0.02
25 47 0.85
26 7 0.13
ACGTcount: A:0.24, C:0.26, G:0.20, T:0.30
Consensus pattern (25 bp):
TGGCTCACATGAGCTACCTGTTATA
Found at i:63359611 original size:7 final size:7
Alignment explanation
Indices: 63359601--63359638 Score: 58
Period size: 7 Copynumber: 5.4 Consensus size: 7
63359591 AAGTTCGGAA
63359601 TTCGGGG
1 TTCGGGG
63359608 TTCGGGG
1 TTCGGGG
*
63359615 TTCGGGT
1 TTCGGGG
63359622 TTCGGGG
1 TTCGGGG
*
63359629 TTCAGGG
1 TTCGGGG
63359636 TTC
1 TTC
63359639 AACTTACAAA
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
7 28 1.00
ACGTcount: A:0.03, C:0.16, G:0.47, T:0.34
Consensus pattern (7 bp):
TTCGGGG
Found at i:63359617 original size:21 final size:21
Alignment explanation
Indices: 63359593--63359638 Score: 65
Period size: 21 Copynumber: 2.2 Consensus size: 21
63359583 CGAGTTTAAA
*
63359593 GTTCGGAATTCGGGGTTCGGG
1 GTTCGGAATTCGGGGTTCAGG
**
63359614 GTTCGGGTTTCGGGGTTCAGG
1 GTTCGGAATTCGGGGTTCAGG
63359635 GTTC
1 GTTC
63359639 AACTTACAAA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.07, C:0.15, G:0.46, T:0.33
Consensus pattern (21 bp):
GTTCGGAATTCGGGGTTCAGG
Found at i:63360075 original size:2 final size:2
Alignment explanation
Indices: 63360031--63360060 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
63360021 GAGAGGCTGA
63360031 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
63360061 TCTTGTGCTA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:63361425 original size:32 final size:33
Alignment explanation
Indices: 63361375--63361437 Score: 94
Period size: 32 Copynumber: 1.9 Consensus size: 33
63361365 TTTTTTAAGA
*
63361375 AATTATGATTTTTTTTAAATTTTTAGAAAATTTT
1 AATTATGATTTTTTTTAAATATTTA-AAAATTTT
63361409 AATTA-GA-TTTTTTTAAATATTTAAAAATT
1 AATTATGATTTTTTTTAAATATTTAAAAATT
63361438 CTCATTATAG
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
31 6 0.21
32 15 0.54
33 2 0.07
34 5 0.18
ACGTcount: A:0.40, C:0.00, G:0.05, T:0.56
Consensus pattern (33 bp):
AATTATGATTTTTTTTAAATATTTAAAAATTTT
Found at i:63372904 original size:20 final size:20
Alignment explanation
Indices: 63372876--63372918 Score: 68
Period size: 20 Copynumber: 2.1 Consensus size: 20
63372866 ATTTTACTTA
* *
63372876 TAAATAAATTTCTTTTTATT
1 TAAAAAAATTTCTTTTTAAT
63372896 TAAAAAAATTTCTTTTTAAT
1 TAAAAAAATTTCTTTTTAAT
63372916 TAA
1 TAA
63372919 TTGAATCTAT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.42, C:0.05, G:0.00, T:0.53
Consensus pattern (20 bp):
TAAAAAAATTTCTTTTTAAT
Found at i:63382883 original size:16 final size:17
Alignment explanation
Indices: 63382848--63382882 Score: 56
Period size: 16 Copynumber: 2.2 Consensus size: 17
63382838 TAGAAGGGAC
63382848 TTTGTATTTGTTTTTGT
1 TTTGTATTTGTTTTTGT
63382865 TTTGT-TTTGTTTTT-T
1 TTTGTATTTGTTTTTGT
63382880 TTT
1 TTT
63382883 TTTCTTTTTG
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
15 4 0.22
16 9 0.50
17 5 0.28
ACGTcount: A:0.03, C:0.00, G:0.14, T:0.83
Consensus pattern (17 bp):
TTTGTATTTGTTTTTGT
Found at i:63396244 original size:21 final size:22
Alignment explanation
Indices: 63396220--63396262 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
63396210 TTACATGTAA
* *
63396220 TTATTTAG-TAAATTATATTGT
1 TTATGTAGTTAAATAATATTGT
63396241 TTATGTAGTTAAATAATATTGT
1 TTATGTAGTTAAATAATATTGT
63396263 ACTTTATTTA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
21 7 0.37
22 12 0.63
ACGTcount: A:0.35, C:0.00, G:0.12, T:0.53
Consensus pattern (22 bp):
TTATGTAGTTAAATAATATTGT
Found at i:63405293 original size:18 final size:17
Alignment explanation
Indices: 63405270--63405328 Score: 52
Period size: 18 Copynumber: 3.5 Consensus size: 17
63405260 TTTTTTGAAA
63405270 AATAATTATAACTATTTG
1 AATAATTATAA-TATTTG
63405288 AATAA-TAT--TATTTG
1 AATAATTATAATATTTG
* **
63405302 AATAGTTATAATTAAATG
1 AATAATTATAA-TATTTG
63405320 AATAATTAT
1 AATAATTAT
63405329 GTGTTTATTT
Statistics
Matches: 33, Mismatches: 4, Indels: 8
0.73 0.09 0.18
Matches are distributed among these distances:
14 10 0.30
15 3 0.09
17 3 0.09
18 17 0.52
ACGTcount: A:0.47, C:0.02, G:0.07, T:0.44
Consensus pattern (17 bp):
AATAATTATAATATTTG
Found at i:63406536 original size:17 final size:18
Alignment explanation
Indices: 63406500--63406536 Score: 67
Period size: 18 Copynumber: 2.1 Consensus size: 18
63406490 TCCAGACCAG
63406500 TTACAAACCCAAATAAAA
1 TTACAAACCCAAATAAAA
63406518 TTACAAACCCAAA-AAAA
1 TTACAAACCCAAATAAAA
63406535 TT
1 TT
63406537 TAAAGCCTAG
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
17 6 0.32
18 13 0.68
ACGTcount: A:0.59, C:0.22, G:0.00, T:0.19
Consensus pattern (18 bp):
TTACAAACCCAAATAAAA
Found at i:63407640 original size:4 final size:4
Alignment explanation
Indices: 63407620--63407734 Score: 52
Period size: 4 Copynumber: 27.8 Consensus size: 4
63407610 TTTTAATTCT
* * * * * *
63407620 TTTA TGTA TTCA TTTA TTTA TTTA CTTG TTTA TTTA TTCA -TTA TTTCT
1 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTT-A
* * * * * * **
63407668 TTTA TTTTA TTCA TTTG TTTG TTCA TTTA CTTA TCTA TTTA TAAA TTGCTCA
1 TTTA -TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TT--T-A
63407720 TTTA TTTA TTTA TTT
1 TTTA TTTA TTTA TTT
63407735 TTATTTTTTT
Statistics
Matches: 79, Mismatches: 26, Indels: 12
0.68 0.22 0.10
Matches are distributed among these distances:
3 2 0.03
4 66 0.84
5 8 0.10
7 3 0.04
ACGTcount: A:0.22, C:0.09, G:0.04, T:0.65
Consensus pattern (4 bp):
TTTA
Found at i:63407841 original size:3 final size:3
Alignment explanation
Indices: 63407833--63407874 Score: 59
Period size: 3 Copynumber: 14.0 Consensus size: 3
63407823 TTATGCCTTC
*
63407833 ATT ATT ATT ACT ATT -TT ATT ATCT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT AT-T ATT ATT ATT ATT ATT ATT
63407875 TATTCATTTA
Statistics
Matches: 35, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
2 2 0.06
3 30 0.86
4 3 0.09
ACGTcount: A:0.31, C:0.05, G:0.00, T:0.64
Consensus pattern (3 bp):
ATT
Found at i:63407885 original size:8 final size:7
Alignment explanation
Indices: 63407834--63407894 Score: 56
Period size: 6 Copynumber: 8.7 Consensus size: 7
63407824 TATGCCTTCA
63407834 TTATTA-
1 TTATTAT
*
63407840 TTACTATT
1 TTATTA-T
63407848 TTATTAT
1 TTATTAT
*
63407855 CTATTA-
1 TTATTAT
63407861 TTATTA-
1 TTATTAT
63407867 TTATTAT
1 TTATTAT
63407874 TTATTCAT
1 TTATT-AT
63407882 TTATTTAT
1 TTA-TTAT
63407890 TTATT
1 TTATT
63407895 TTGCATTCTT
Statistics
Matches: 46, Mismatches: 4, Indels: 9
0.78 0.07 0.15
Matches are distributed among these distances:
6 16 0.35
7 13 0.28
8 15 0.33
9 2 0.04
ACGTcount: A:0.28, C:0.05, G:0.00, T:0.67
Consensus pattern (7 bp):
TTATTAT
Found at i:63407885 original size:24 final size:24
Alignment explanation
Indices: 63407809--63407886 Score: 61
Period size: 27 Copynumber: 3.1 Consensus size: 24
63407799 TCTTTCATAG
* * *
63407809 ATTATTTATT-TTATTTATGCCTTC
1 ATTA-TTATTATTATTTATTCATTT
*
63407833 ATTATTATTACTATTTTATT-ATCTATT
1 ATTATTATTATTA-TTTATTCA--T-TT
63407860 ATTATTATTATTATTTATTCATTT
1 ATTATTATTATTATTTATTCATTT
63407884 ATT
1 ATT
63407887 TATTTATTTT
Statistics
Matches: 43, Mismatches: 5, Indels: 12
0.72 0.08 0.20
Matches are distributed among these distances:
23 5 0.12
24 11 0.26
25 6 0.14
26 7 0.16
27 14 0.33
ACGTcount: A:0.27, C:0.08, G:0.01, T:0.64
Consensus pattern (24 bp):
ATTATTATTATTATTTATTCATTT
Found at i:63407958 original size:3 final size:3
Alignment explanation
Indices: 63407947--63408037 Score: 114
Period size: 3 Copynumber: 29.3 Consensus size: 3
63407937 TTTTTTTTAC
63407947 TTA TATA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA T-TA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
*
63407993 TT- TTA TCTA TTA TTA TTT TTA TTA TTTA TTTA TGTA TT- TTA TTA T
1 TTA TTA T-TA TTA TTA TTA TTA TTA -TTA -TTA T-TA TTA TTA TTA T
63408038 AAATTGTACC
Statistics
Matches: 80, Mismatches: 2, Indels: 12
0.85 0.02 0.13
Matches are distributed among these distances:
2 4 0.05
3 60 0.75
4 16 0.20
ACGTcount: A:0.30, C:0.01, G:0.01, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:63408201 original size:3 final size:3
Alignment explanation
Indices: 63408193--63408276 Score: 168
Period size: 3 Copynumber: 28.0 Consensus size: 3
63408183 ATATTTTGTC
63408193 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
63408241 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
63408277 CACTTCATTA
Statistics
Matches: 81, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 81 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:63414001 original size:18 final size:19
Alignment explanation
Indices: 63413978--63414028 Score: 61
Period size: 18 Copynumber: 2.7 Consensus size: 19
63413968 TGATACGTGG
63413978 GATATGATATACATGA-AT
1 GATATGATATACATGATAT
63413996 GATATGATATGCACATGATAT
1 GATATGATAT--ACATGATAT
*
63414017 G-TATGAAATACA
1 GATATGATATACA
63414029 CATGATGTGT
Statistics
Matches: 29, Mismatches: 1, Indels: 6
0.81 0.03 0.17
Matches are distributed among these distances:
18 13 0.45
20 13 0.45
21 3 0.10
ACGTcount: A:0.43, C:0.08, G:0.18, T:0.31
Consensus pattern (19 bp):
GATATGATATACATGATAT
Found at i:63414013 original size:20 final size:20
Alignment explanation
Indices: 63413988--63414053 Score: 73
Period size: 20 Copynumber: 3.3 Consensus size: 20
63413978 GATATGATAT
*
63413988 ACATGAATGATATGATATGC
1 ACATGAATGATATGAAATGC
*
63414008 ACATGATATG-TATGAAATAC
1 ACATGA-ATGATATGAAATGC
*
63414028 ACATG-ATGTGTATGAAATGC
1 ACATGAATG-ATATGAAATGC
63414048 ACATGA
1 ACATGA
63414054 TGTAATCATA
Statistics
Matches: 39, Mismatches: 3, Indels: 7
0.80 0.06 0.14
Matches are distributed among these distances:
18 3 0.08
20 33 0.85
21 3 0.08
ACGTcount: A:0.41, C:0.11, G:0.20, T:0.29
Consensus pattern (20 bp):
ACATGAATGATATGAAATGC
Found at i:63414054 original size:20 final size:20
Alignment explanation
Indices: 63413998--63414056 Score: 91
Period size: 20 Copynumber: 3.0 Consensus size: 20
63413988 ACATGAATGA
* *
63413998 TATGATATGCACATGATATG
1 TATGAAATGCACATGATGTG
*
63414018 TATGAAATACACATGATGTG
1 TATGAAATGCACATGATGTG
63414038 TATGAAATGCACATGATGT
1 TATGAAATGCACATGATGT
63414057 AATCATAAAT
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 35 1.00
ACGTcount: A:0.37, C:0.10, G:0.20, T:0.32
Consensus pattern (20 bp):
TATGAAATGCACATGATGTG
Found at i:63414132 original size:26 final size:26
Alignment explanation
Indices: 63414103--63414226 Score: 187
Period size: 26 Copynumber: 4.8 Consensus size: 26
63414093 GAGGAAGTGC
**
63414103 AAAAGGGCTTATGCCCCAGTTTATTG
1 AAAAGGGCTTATGCCCCAGTTTACCG
*
63414129 AAAATGGCTTATGCCCCAGTTTACCG
1 AAAAGGGCTTATGCCCCAGTTTACCG
* **
63414155 AAAAGGGCTTATGCCCTAGTTTATTG
1 AAAAGGGCTTATGCCCCAGTTTACCG
63414181 AAAAGGGCTTATGCCCCAGTTTACCG
1 AAAAGGGCTTATGCCCCAGTTTACCG
63414207 AAAAGGGCTT-TGCCCCAGTT
1 AAAAGGGCTTATGCCCCAGTT
63414227 ATTAAAGAGG
Statistics
Matches: 88, Mismatches: 10, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
25 10 0.11
26 78 0.89
ACGTcount: A:0.27, C:0.23, G:0.23, T:0.28
Consensus pattern (26 bp):
AAAAGGGCTTATGCCCCAGTTTACCG
Found at i:63414181 original size:52 final size:52
Alignment explanation
Indices: 63414103--63414226 Score: 223
Period size: 52 Copynumber: 2.4 Consensus size: 52
63414093 GAGGAAGTGC
*
63414103 AAAAGGGCTTATGCCCCAGTTTATTGAAAATGGCTTATGCCCCAGTTTACCG
1 AAAAGGGCTTATGCCCCAGTTTATTGAAAAGGGCTTATGCCCCAGTTTACCG
*
63414155 AAAAGGGCTTATGCCCTAGTTTATTGAAAAGGGCTTATGCCCCAGTTTACCG
1 AAAAGGGCTTATGCCCCAGTTTATTGAAAAGGGCTTATGCCCCAGTTTACCG
63414207 AAAAGGGCTT-TGCCCCAGTT
1 AAAAGGGCTTATGCCCCAGTT
63414227 ATTAAAGAGG
Statistics
Matches: 69, Mismatches: 3, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
51 9 0.13
52 60 0.87
ACGTcount: A:0.27, C:0.23, G:0.23, T:0.28
Consensus pattern (52 bp):
AAAAGGGCTTATGCCCCAGTTTATTGAAAAGGGCTTATGCCCCAGTTTACCG
Found at i:63418328 original size:94 final size:94
Alignment explanation
Indices: 63418165--63418676 Score: 306
Period size: 96 Copynumber: 5.5 Consensus size: 94
63418155 GTTAAAAATA
* * *
63418165 ACAAATCTTATCTCCCTGAAGTTGCAGTGGAGTAGATCGAAG---TTACAAATCCCATAC-CCCT
1 ACAAATCTTATCTCCCTGAAGTTGCAGTGGAGTAGATTGAAGCCATTA-ACAT--TAT-CTCCCT
*
63418226 AAAGTTGCAGTAGGACAGATCAAAGCTATTATG
62 GAAGTTGCAGTAGGACAGATCAAAGCTATTATG
* *
63418259 AAAAATCTTATCTCTCTGAAGTTGCAGTGGAGTAGATTGAAGCCATTAACATTATCTCCCTGAAG
1 ACAAATCTTATCTCCCTGAAGTTGCAGTGGAGTAGATTGAAGCCATTAACATTATCTCCCTGAAG
* **
63418324 TTGCAGTAGAACAGATTGAAG--A-TA-G
66 TTGCAGTAGGACAGATCAAAGCTATTATG
* * * * * * *
63418349 -CGAATCTTATTTCCCTGAAGTTGTAGTGGAATAGATTAAAGCTACAAGTCACAAATCCTATACT
1 ACAAATCTTATCTCCCTGAAGTTGCAGTGGAGTAGATTGAAGC--C-A-TTA-ACAT--TAT-CT
* * * * **
63418413 -TCTGAAGTTGCAGTAGGTCGGATCAAATCTACCATG
58 CCCTGAAGTTGCAGTAGGACAGATCAAAGCTATTATG
* * * * * * *
63418449 ACAAATTTTATCTCCCTGAAATTGTAGTGAAGCAGATTGAAGCCACTAATC-TTATCTCTCTGAA
1 ACAAATCTTATCTCCCTGAAGTTGCAGTGGAGTAGATTGAAGCCATTAA-CATTATCTCCCTGAA
* *
63418513 GTTACAGT-GGAACAGAT-ATTGAAGTTATTATG
65 GTTGCAGTAGG-ACAGATCA---AAGCTATTATG
* * * ** * * * *
63418545 GCGAATCTTATCTCCCTGAAGTTGCAGTAGAACATATTGAAGCCACTAACCTTATCTCCTTGAAG
1 ACAAATCTTATCTCCCTGAAGTTGCAGTGGAGTAGATTGAAGCCATTAACATTATCTCCCTGAAG
* *
63418610 TTGCAGTA-GAGCAGATTAAA---AATA-G
66 TTGCAGTAGGA-CAGATCAAAGCTATTATG
* * * * *
63418635 -CGAATCTTATTTCCCTGAAGTTGTAGTGGAATAGATTAAAGC
1 ACAAATCTTATCTCCCTGAAGTTGCAGTGGAGTAGATTGAAGC
63418677 TACAAGTCAC
Statistics
Matches: 328, Mismatches: 63, Indels: 59
0.73 0.14 0.13
Matches are distributed among these distances:
89 71 0.22
90 2 0.01
91 6 0.02
92 2 0.01
93 8 0.02
94 91 0.28
95 2 0.01
96 100 0.30
97 7 0.02
98 2 0.01
99 2 0.01
100 1 0.00
101 34 0.10
ACGTcount: A:0.33, C:0.18, G:0.19, T:0.29
Consensus pattern (94 bp):
ACAAATCTTATCTCCCTGAAGTTGCAGTGGAGTAGATTGAAGCCATTAACATTATCTCCCTGAAG
TTGCAGTAGGACAGATCAAAGCTATTATG
Found at i:63418385 original size:45 final size:44
Alignment explanation
Indices: 63418262--63418671 Score: 148
Period size: 44 Copynumber: 8.8 Consensus size: 44
63418252 TATTATGAAA
* * * **
63418262 AATCTTATCTCTCTGAAGTTGCAGTGGAGTAGATTGAAGCCATT
1 AATCTTATCTCCCTGAAGTTGCAGTGGAATAGATTGAAGACACG
* * *
63418306 AA-CATTATCTCCCTGAAGTTGCAGTAGAACAGATTGAAGATAGCG
1 AATC-TTATCTCCCTGAAGTTGCAGTGGAATAGATTGAAGACA-CG
* * * *
63418351 AATCTTATTTCCCTGAAGTTGTAGTGGAATAGATTAAAGCTACAAGTCACA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAATAGATT---G----AAGACACG
* * * *
63418402 AATCCTATACT-TCTGAAGTTGCAGTAGGTCGGATCAAATCT-ACCATGACA--
1 AATCTTAT-CTCCCTGAAGTTGCAGT--G--GAAT-AGAT-TGA--A-GACACG
* * * * * *
63418452 AATTTTATCTCCCTGAAATTGTAGT-GAAGCAGATTGAAGCCACT
1 AATCTTATCTCCCTGAAGTTGCAGTGGAA-TAGATTGAAGACACG
* * * *
63418496 AATCTTATCTCTCTGAAGTTACAGTGGAACAGATATTGAAGTTATTATGGCG
1 AATCTTATCTCCCTGAAGTTGCAGTGGAATAG--ATTGAAG--A-CA---CG
* * * * *
63418548 AATCTTATCTCCCTGAAGTTGCAGTAGAACATATTGAAGCCACT
1 AATCTTATCTCCCTGAAGTTGCAGTGGAATAGATTGAAGACACG
* * * ** * * *
63418592 AACCTTATCTCCTTGAAGTTGCAGTAGAGCAGATTAAAAATAGCG
1 AATCTTATCTCCCTGAAGTTGCAGTGGAATAGATTGAAGACA-CG
* *
63418637 AATCTTATTTCCCTGAAGTTGTAGTGGAATAGATT
1 AATCTTATCTCCCTGAAGTTGCAGTGGAATAGATT
63418672 AAAGCTACAA
Statistics
Matches: 269, Mismatches: 62, Indels: 69
0.67 0.16 0.17
Matches are distributed among these distances:
42 3 0.01
43 2 0.01
44 93 0.35
45 67 0.25
46 8 0.03
47 1 0.00
48 1 0.00
49 4 0.01
50 24 0.09
51 21 0.08
52 37 0.14
53 1 0.00
55 3 0.01
56 3 0.01
57 1 0.00
ACGTcount: A:0.32, C:0.17, G:0.20, T:0.31
Consensus pattern (44 bp):
AATCTTATCTCCCTGAAGTTGCAGTGGAATAGATTGAAGACACG
Found at i:63418462 original size:190 final size:194
Alignment explanation
Indices: 63418204--63418568 Score: 461
Period size: 190 Copynumber: 1.9 Consensus size: 194
63418194 GAGTAGATCG
* **
63418204 AAGTTACAAATCCCATACCCCTAAAGTTGCAGTAGGACAGATCAAAGCTATTATGAAAAATCTTA
1 AAGTCACAAATCCCATACCCCTAAAGTTGCAGTAGGACAGATCAAAGCTACCATGAAAAATCTTA
* * * * * *
63418269 TCTCTCTGAAGTTGCAGTGGAGTAGATTGAAGCCATTAA-CATTATCTCCCTGAAGTTGCAGTAG
66 TCTCCCTGAAATTGCAGTGAAGCAGATTGAAGCCACTAATC-TTATCTCCCTGAAGTTACAGTAG
*
63418333 AACAG-ATTGAAG-A-TA-GCGAATCTTATTTCCCTGAAGTTGTAGTGGAATAGATTAAAGCTAC
130 AACAGAATTGAAGTATTAGGCGAATCTTATCTCCCTGAAGTTGTAGTGGAATAGATTAAAGCTAC
* ** * * * * * *
63418394 AAGTCACAAATCCTATACTTCTGAAGTTGCAGTAGGTCGGATCAAATCTACCATGACAAATTTTA
1 AAGTCACAAATCCCATACCCCTAAAGTTGCAGTAGGACAGATCAAAGCTACCATGAAAAATCTTA
* * *
63418459 TCTCCCTGAAATTGTAGTGAAGCAGATTGAAGCCACTAATCTTATCTCTCTGAAGTTACAGTGGA
66 TCTCCCTGAAATTGCAGTGAAGCAGATTGAAGCCACTAATCTTATCTCCCTGAAGTTACAGTAGA
63418524 ACAGATATTGAAGTTATTATGGCGAATCTTATCTCCCTGAAGTTG
131 ACAGA-ATTGAAG-TATTA-GGCGAATCTTATCTCCCTGAAGTTG
63418569 CAGTAGAACA
Statistics
Matches: 145, Mismatches: 22, Indels: 9
0.82 0.12 0.05
Matches are distributed among these distances:
190 111 0.77
191 1 0.01
192 7 0.05
194 1 0.01
195 2 0.01
197 23 0.16
ACGTcount: A:0.33, C:0.18, G:0.19, T:0.30
Consensus pattern (194 bp):
AAGTCACAAATCCCATACCCCTAAAGTTGCAGTAGGACAGATCAAAGCTACCATGAAAAATCTTA
TCTCCCTGAAATTGCAGTGAAGCAGATTGAAGCCACTAATCTTATCTCCCTGAAGTTACAGTAGA
ACAGAATTGAAGTATTAGGCGAATCTTATCTCCCTGAAGTTGTAGTGGAATAGATTAAAGCTAC
Found at i:63418524 original size:145 final size:145
Alignment explanation
Indices: 63418310--63418954 Score: 546
Period size: 145 Copynumber: 4.5 Consensus size: 145
63418300 GCCATTAACA
* ** *
63418310 TTATCTCCCTGAAGTTGCAGTAGAA-CAGATTGAAGATAGCGAATCTTATTTCCCTGAAGTTGTA
1 TTATCTCCCTGAAATTGCAGT-GAAGCAGATTGAAGCCA-CGAATCTTATTTCCCTGAAGTTGCA
63418374 GTGGAATAGATTAAAGCTACAAGTCACAAATCCTATACTTCTGAAGTTGCAGTAGGTCGGATCAA
64 GTGGAATAGATTAAAGCTACAAGTCACAAATCCTATACTTCTGAAGTTGCAGTAGGTCGGATCAA
* *
63418439 ATCTACCATGACAAATT
129 ATCTACCATGACGAATC
* * * * *
63418456 TTATCTCCCTGAAATTGTAGTGAAGCAGATTGAAGCCACTAATCTTATCTCTCTGAAGTTACAGT
1 TTATCTCCCTGAAATTGCAGTGAAGCAGATTGAAGCCACGAATCTTATTTCCCTGAAGTTGCAGT
* * * ** ** * * * **
63418521 GGAACAGATATTGAAGTTATTA-TGGCGAATCTTAT-CTCCCTGAAGTTGCAGTAGAAC--AT--
66 GGAATAG--ATTAAAGCTACAAGTCACAAATCCTATACT-TCTGAAGTTGCAGTAGGTCGGATCA
* ** * *
63418580 ATTGAAGCC---ACTAACC
128 AATCTA-CCATGACGAATC
* * * *** *
63418596 TTATCTCCTTGAAGTTGCAGT-AGAGCAGATTAAAAATAGCGAATCTTATTTCCCTGAAGTTGTA
1 TTATCTCCCTGAAATTGCAGTGA-AGCAGATTGAAGCCA-CGAATCTTATTTCCCTGAAGTTGCA
** **
63418660 GTGGAATAGATTAAAGCTACAAGTCACAAATCAC-ATACTTCTGAAGTTATAGTAGGTTAGATCA
64 GTGGAATAGATTAAAGCTACAAGTCACAAATC-CTATACTTCTGAAGTTGCAGTAGGTCGGATCA
**
63418724 AATCTACCATGGTGAATC
128 AATCTACCATGACGAATC
* * * * * *
63418742 TTTTCTCCCTAAAATTGCAGTGGAGCAGATTGAAGCCATGAATCTTATTTCCCCGAAGTTGCAAT
1 TTATCTCCCTGAAATTGCAGTGAAGCAGATTGAAGCCACGAATCTTATTTCCCTGAAGTTGCAGT
* * * *
63418807 GGAATAGATTAAAGCTACAAGTCACAAATCCTATACCTCTAAAGTTGCAGTAGGTTGGATCAAGG
66 GGAATAGATTAAAGCTACAAGTCACAAATCCTATACTTCTGAAGTTGCAGTAGGTCGGATCAA-A
* * **
63418872 TC-ATCGTGGTGAATC
130 TCTACCATGACGAATC
* * * *
63418887 TTATCTCCCT-AAAGTTGCAGTGGAGCAGATTAAAGCCAC-AAGTCTTATCTCCCTGAAGTTACA
1 TTATCTCCCTGAAA-TTGCAGTGAAGCAGATTGAAGCCACGAA-TCTTATTTCCCTGAAGTTGCA
63418950 GTGGA
64 GTGGA
63418955 GCAGACTGAA
Statistics
Matches: 388, Mismatches: 89, Indels: 45
0.74 0.17 0.09
Matches are distributed among these distances:
139 10 0.03
140 54 0.14
141 30 0.08
142 5 0.01
143 4 0.01
144 11 0.03
145 177 0.46
146 88 0.23
147 9 0.02
ACGTcount: A:0.32, C:0.18, G:0.19, T:0.30
Consensus pattern (145 bp):
TTATCTCCCTGAAATTGCAGTGAAGCAGATTGAAGCCACGAATCTTATTTCCCTGAAGTTGCAGT
GGAATAGATTAAAGCTACAAGTCACAAATCCTATACTTCTGAAGTTGCAGTAGGTCGGATCAAAT
CTACCATGACGAATC
Found at i:63418611 original size:190 final size:186
Alignment explanation
Indices: 63418218--63418618 Score: 400
Period size: 190 Copynumber: 2.1 Consensus size: 186
63418208 TACAAATCCC
* * ** * *
63418218 ATACCCCTAAAGTTGCAGTAGGACAGATCAAAGCTATTATGAAAAATCTTATCTCTCTGAAGTTG
1 ATACTCCTGAAGTTGCAGTAGGACAGATCAAAGCTACCATGAAAAATCTTATCTCCCTGAAATTG
* * * *
63418283 CAGTGGAGTAGATTGAAGCCATTAACATTATCTCCCTGAAGTTGCAGTAGAACAGATTGAAGATA
66 CAGTGAAGCAGATTGAAGCCACTAACATTATCTCCCTGAAGTTACAGTAGAACAGATTGAAGATA
* * * * *
63418348 GCGAATCTTATTTCCCTGAAGTTGTAGTGGAATAGATTAAAGCTACAAGTCACAAATCCT
131 GCGAATCTTATCTCCCTGAAGTTGCAGTAGAACAGATTAAAGCCACAAG-CAC--AT-CT
* * * * * *
63418408 ATACTTCTGAAGTTGCAGTAGGTCGGATCAAATCTACCATGACAAATTTTATCTCCCTGAAATTG
1 ATACTCCTGAAGTTGCAGTAGGACAGATCAAAGCTACCATGAAAAATCTTATCTCCCTGAAATTG
* * *
63418473 TAGTGAAGCAGATTGAAGCCACTAATC-TTATCTCTCTGAAGTTACAGTGGAACAGATATTGAAG
66 CAGTGAAGCAGATTGAAGCCACTAA-CATTATCTCCCTGAAGTTACAGTAGAACAG--ATTGAAG
* *
63418537 TTATTATGGCGAATCTTATCTCCCTGAAGTTGCAGTAGAACATATTGAAGCCACTAA-C-C-T-T
128 --A-TA--GCGAATCTTATCTCCCTGAAGTTGCAGTAGAACAGATTAAAGCCAC-AAGCACATCT
63418598 AT-CTCCTTGAAGTTGCAGTAG
1 ATACTCC-TGAAGTTGCAGTAG
63418619 AGCAGATTAA
Statistics
Matches: 174, Mismatches: 27, Indels: 20
0.79 0.12 0.09
Matches are distributed among these distances:
189 3 0.02
190 116 0.67
191 1 0.01
192 8 0.05
194 1 0.01
195 3 0.02
196 1 0.01
197 39 0.22
198 2 0.01
ACGTcount: A:0.33, C:0.18, G:0.19, T:0.30
Consensus pattern (186 bp):
ATACTCCTGAAGTTGCAGTAGGACAGATCAAAGCTACCATGAAAAATCTTATCTCCCTGAAATTG
CAGTGAAGCAGATTGAAGCCACTAACATTATCTCCCTGAAGTTACAGTAGAACAGATTGAAGATA
GCGAATCTTATCTCCCTGAAGTTGCAGTAGAACAGATTAAAGCCACAAGCACATCT
Found at i:63418771 original size:286 final size:286
Alignment explanation
Indices: 63418262--63418789 Score: 819
Period size: 286 Copynumber: 1.8 Consensus size: 286
63418252 TATTATGAAA
* * ** *
63418262 AATCTTATCTCTCTGAAGTTGCAGTGGAGTAGATTGAAGCCATTAACATTATCTCCCTGAAGTTG
1 AATCTTATCTCCCTGAAGTTGCAGTAGAACAGATTGAAGCCACTAACATTATCTCCCTGAAGTTG
* *
63418327 CAGTAGAACAGATTGAAGATAGCGAATCTTATTTCCCTGAAGTTGTAGTGGAATAGATTAAAGCT
66 CAGTAGAACAGATTAAAAATAGCGAATCTTATTTCCCTGAAGTTGTAGTGGAATAGATTAAAGCT
* *
63418392 ACAAGTCACAAATCCTATACTTCTGAAGTTGCAGTAGGTCGGATCAAATCTACCATGACAAATTT
131 ACAAGTCACAAATCCTATACTTCTGAAGTTACAGTAGGTCAGATCAAATCTACCATGACAAATTT
* *
63418457 TATCTCCCTGAAATTGTAGTGAAGCAGATTGAAGCCACT-AATCTTATCTCTCTGAAGTTACAGT
196 TATCTCCCTAAAATTGCAGTGAAGCAGATTGAAGCCA-TGAATCTTATCTCTCTGAAGTTACAGT
63418521 GGAACAGATATTGAAGTTATTATGGCG
260 GGAACAGATATTGAAGTTATTATGGCG
* * *
63418548 AATCTTATCTCCCTGAAGTTGCAGTAGAACATATTGAAGCCACTAACCTTATCTCCTTGAAGTTG
1 AATCTTATCTCCCTGAAGTTGCAGTAGAACAGATTGAAGCCACTAACATTATCTCCCTGAAGTTG
*
63418613 CAGTAGAGCAGATTAAAAATAGCGAATCTTATTTCCCTGAAGTTGTAGTGGAATAGATTAAAGCT
66 CAGTAGAACAGATTAAAAATAGCGAATCTTATTTCCCTGAAGTTGTAGTGGAATAGATTAAAGCT
* * ***
63418678 ACAAGTCACAAATCAC-ATACTTCTGAAGTTATAGTAGGTTAGATCAAATCTACCATGGTGAATC
131 ACAAGTCACAAATC-CTATACTTCTGAAGTTACAGTAGGTCAGATCAAATCTACCATGACAAAT-
*
63418742 TTT-TCTCCCTAAAATTGCAGTGGAGCAGATTGAAGCCATGAATCTTAT
194 TTTATCTCCCTAAAATTGCAGTGAAGCAGATTGAAGCCATGAATCTTAT
63418790 TTCCCCGAAG
Statistics
Matches: 218, Mismatches: 21, Indels: 6
0.89 0.09 0.02
Matches are distributed among these distances:
285 1 0.00
286 213 0.98
287 4 0.02
ACGTcount: A:0.33, C:0.18, G:0.19, T:0.31
Consensus pattern (286 bp):
AATCTTATCTCCCTGAAGTTGCAGTAGAACAGATTGAAGCCACTAACATTATCTCCCTGAAGTTG
CAGTAGAACAGATTAAAAATAGCGAATCTTATTTCCCTGAAGTTGTAGTGGAATAGATTAAAGCT
ACAAGTCACAAATCCTATACTTCTGAAGTTACAGTAGGTCAGATCAAATCTACCATGACAAATTT
TATCTCCCTAAAATTGCAGTGAAGCAGATTGAAGCCATGAATCTTATCTCTCTGAAGTTACAGTG
GAACAGATATTGAAGTTATTATGGCG
Found at i:63419076 original size:44 final size:44
Alignment explanation
Indices: 63418999--63419121 Score: 149
Period size: 44 Copynumber: 2.8 Consensus size: 44
63418989 ATGACGAATA
* *
63418999 TTATCTTTCTGAAGTTGCAGTGGAGCAAATTGAAGCCACTAA-CC
1 TTATCTCTCTGAAGTTGCAGTGGAGCAGATTGAAGCCAC-AAGCC
* ** **
63419043 TTATCTCTCTGAAGTTGCAGTGGAGCAGGTTGAAGTTACAAGTT
1 TTATCTCTCTGAAGTTGCAGTGGAGCAGATTGAAGCCACAAGCC
* *
63419087 TTATCTCCCTGAAGTTGCAGTGGAACAGATTGAAG
1 TTATCTCTCTGAAGTTGCAGTGGAGCAGATTGAAG
63419122 GTAGTGAATT
Statistics
Matches: 68, Mismatches: 10, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
43 2 0.03
44 66 0.97
ACGTcount: A:0.28, C:0.17, G:0.24, T:0.31
Consensus pattern (44 bp):
TTATCTCTCTGAAGTTGCAGTGGAGCAGATTGAAGCCACAAGCC
Found at i:63419166 original size:89 final size:88
Alignment explanation
Indices: 63419007--63419179 Score: 211
Period size: 89 Copynumber: 2.0 Consensus size: 88
63418997 TATTATCTTT
* * * * *
63419007 CTGAAGTTGCAGTGGAGCAAATTGAAGCCACTAACCTTATCTCTCTGAAGTTGCAGTGGAGCAGG
1 CTGAAGTTGCAGTGGAACAAATTGAAGCCACTAACCTTATCTCCCCGAAGTTACAGTGGAGCAGA
* *
63419072 TTGAAGTTACAAGTTTTATCTCC
66 TTGAAGCTACAAATTTTATCTCC
* ** * ** *
63419095 CTGAAGTTGCAGTGGAACAGATTGAAGGTAGTGAATTTTATCTCCCCGAAGTTATAGTGGAGCAG
1 CTGAAGTTGCAGTGGAACAAATTGAAGCCACT-AACCTTATCTCCCCGAAGTTACAGTGGAGCAG
63419160 ATTGAAGCTACAAATTTTAT
65 ATTGAAGCTACAAATTTTAT
63419180 ACAAATTTTA
Statistics
Matches: 70, Mismatches: 14, Indels: 1
0.82 0.16 0.01
Matches are distributed among these distances:
88 27 0.39
89 43 0.61
ACGTcount: A:0.29, C:0.16, G:0.24, T:0.30
Consensus pattern (88 bp):
CTGAAGTTGCAGTGGAACAAATTGAAGCCACTAACCTTATCTCCCCGAAGTTACAGTGGAGCAGA
TTGAAGCTACAAATTTTATCTCC
Found at i:63420169 original size:5 final size:5
Alignment explanation
Indices: 63420150--63420193 Score: 70
Period size: 5 Copynumber: 8.4 Consensus size: 5
63420140 AAAATTTTTA
63420150 TTTGTT TTTGTT TTTGT TTTGT TTTGT TTTGT TTTGT TTTGT TT
1 TTTG-T TTTG-T TTTGT TTTGT TTTGT TTTGT TTTGT TTTGT TT
63420194 CACTTAGGTC
Statistics
Matches: 38, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
5 28 0.74
6 10 0.26
ACGTcount: A:0.00, C:0.00, G:0.18, T:0.82
Consensus pattern (5 bp):
TTTGT
Found at i:63420591 original size:4 final size:4
Alignment explanation
Indices: 63420571--63420685 Score: 52
Period size: 4 Copynumber: 27.8 Consensus size: 4
63420561 TTTTAATTCT
* * * * * *
63420571 TTTA TGTA TTCA TTTA TTTA TTTA CTTG TTTA TTTA TTCA -TTA TTTCT
1 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTT-A
* * * * * * * *
63420619 TTTA TTTTA TTCA TTTG TTTG TTCA TTTA CTTA TCTA TTGA TATA TTGCTCA
1 TTTA -TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TT--T-A
63420671 TTTA TTTA TTTA TTT
1 TTTA TTTA TTTA TTT
63420686 TTATTTTTTA
Statistics
Matches: 79, Mismatches: 26, Indels: 12
0.68 0.22 0.10
Matches are distributed among these distances:
3 2 0.03
4 65 0.82
5 8 0.10
6 1 0.01
7 3 0.04
ACGTcount: A:0.21, C:0.09, G:0.05, T:0.65
Consensus pattern (4 bp):
TTTA
Found at i:63420794 original size:3 final size:3
Alignment explanation
Indices: 63420786--63420825 Score: 80
Period size: 3 Copynumber: 13.3 Consensus size: 3
63420776 ATACCTTCAC
63420786 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
63420826 TATCTATTTA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 37 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:63420835 original size:8 final size:7
Alignment explanation
Indices: 63420788--63420837 Score: 56
Period size: 6 Copynumber: 7.7 Consensus size: 7
63420778 ACCTTCACTA
63420788 TTATTA-
1 TTATTAT
63420794 TTATTA-
1 TTATTAT
63420800 TTATTA-
1 TTATTAT
63420806 TTATTA-
1 TTATTAT
63420812 TTATTA-
1 TTATTAT
63420818 TTATTAT
1 TTATTAT
63420825 TTATCTAT
1 TTAT-TAT
63420833 TTATT
1 TTATT
63420838 TATTACCCAT
Statistics
Matches: 42, Mismatches: 0, Indels: 3
0.93 0.00 0.07
Matches are distributed among these distances:
6 30 0.71
7 5 0.12
8 7 0.17
ACGTcount: A:0.30, C:0.02, G:0.00, T:0.68
Consensus pattern (7 bp):
TTATTAT
Found at i:63423221 original size:77 final size:77
Alignment explanation
Indices: 63423126--63423274 Score: 219
Period size: 77 Copynumber: 1.9 Consensus size: 77
63423116 TTTTTCATAG
* *
63423126 TAATGTATAAAAACAAAAAAAAAAT-TAAATTGAAAGTATAATATAAAAGAAAATGAGATAGGAG
1 TAATGTATAAAAAC-AAAAAAAAATCTAAATTGAAAGTATAAGAGAAAAGAAAATGAGATAGGAG
63423190 TATATGTTAGTAC
65 TATATGTTAGTAC
* ** *
63423203 TAATGTATAAAAATAAAAAAGTATCTAAATTGAAATTATAAGAGAAAAGAAAATGAGATAGGAGT
1 TAATGTATAAAAACAAAAAAAAATCTAAATTGAAAGTATAAGAGAAAAGAAAATGAGATAGGAGT
*
63423268 ATCTGTT
66 ATATGTT
63423275 TGTTCAAAAT
Statistics
Matches: 64, Mismatches: 7, Indels: 2
0.88 0.10 0.03
Matches are distributed among these distances:
76 8 0.12
77 56 0.88
ACGTcount: A:0.55, C:0.03, G:0.15, T:0.27
Consensus pattern (77 bp):
TAATGTATAAAAACAAAAAAAAATCTAAATTGAAAGTATAAGAGAAAAGAAAATGAGATAGGAGT
ATATGTTAGTAC
Found at i:63426091 original size:4 final size:4
Alignment explanation
Indices: 63426082--63426110 Score: 58
Period size: 4 Copynumber: 7.2 Consensus size: 4
63426072 CCCACTCTTC
63426082 CACT CACT CACT CACT CACT CACT CACT C
1 CACT CACT CACT CACT CACT CACT CACT C
63426111 CCTCTCTCTC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 25 1.00
ACGTcount: A:0.24, C:0.52, G:0.00, T:0.24
Consensus pattern (4 bp):
CACT
Found at i:63428021 original size:16 final size:16
Alignment explanation
Indices: 63427995--63428043 Score: 57
Period size: 16 Copynumber: 3.1 Consensus size: 16
63427985 TAAAATTGAG
63427995 TTGAGAAAATTATTTAA
1 TTGA-AAAATTATTTAA
*
63428012 TTGAAAAATTAATTAA
1 TTGAAAAATTATTTAA
63428028 TT--AAAATTAATTTAA
1 TTGAAAAATT-ATTTAA
63428043 T
1 T
63428044 AAATAATATT
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
14 6 0.21
15 6 0.21
16 13 0.45
17 4 0.14
ACGTcount: A:0.51, C:0.00, G:0.06, T:0.43
Consensus pattern (16 bp):
TTGAAAAATTATTTAA
Found at i:63432706 original size:112 final size:115
Alignment explanation
Indices: 63432590--63432814 Score: 402
Period size: 116 Copynumber: 2.0 Consensus size: 115
63432580 TATTTCCGGT
63432590 TAGCGGAGTTTTAC-CACGTCACACAACCTTTTGACGCGAAGTAGAATGACAACCCAAGCACCCT
1 TAGCGGAGTTTTACTCACGTCACACAACCTTTTGACGCGAAGTAGAATGACAACCCAAGCACCCT
63432654 ACCCCGGTTACTCAGTCAGTCACGAT-T-AGCTGTACTCATAACCTCGGC
66 ACCCCGGTTACTCAGTCAGTCACGATCTAAGCTGTACTCATAACCTCGGC
63432702 TAGCGGAGTTTTACTTGTCACGTCACACAACCTTTTGACGCGAAGTAGAATGACAACCCAAGCAC
1 TAGCGGAGTTTTAC---TCACGTCACACAACCTTTTGACGCGAAGTAGAATGACAACCCAAGCAC
63432767 CCTACCCCGGTTACTCAGTCAGTCACGATCTAAGCTGTACTCATAACC
63 CCTACCCCGGTTACTCAGTCAGTCACGATCTAAGCTGTACTCATAACC
63432815 ATGGAAAACA
Statistics
Matches: 107, Mismatches: 0, Indels: 6
0.95 0.00 0.05
Matches are distributed among these distances:
112 14 0.13
116 76 0.71
117 1 0.01
118 16 0.15
ACGTcount: A:0.28, C:0.31, G:0.18, T:0.23
Consensus pattern (115 bp):
TAGCGGAGTTTTACTCACGTCACACAACCTTTTGACGCGAAGTAGAATGACAACCCAAGCACCCT
ACCCCGGTTACTCAGTCAGTCACGATCTAAGCTGTACTCATAACCTCGGC
Found at i:63433789 original size:30 final size:30
Alignment explanation
Indices: 63433766--63433855 Score: 102
Period size: 29 Copynumber: 3.1 Consensus size: 30
63433756 AATATTTAAC
*
63433766 TAAAATAAAATAAA-AAAAATAATAAATAA
1 TAAAAGAAAATAAAGAAAAATAATAAATAA
*
63433795 TAAAAGAAAATAAAGGAAAATAATAAATAA
1 TAAAAGAAAATAAAGAAAAATAATAAATAA
63433825 -AAATA-AAAATAAA-AATAAA-AATAAA-AA
1 TAAA-AGAAAATAAAGAA-AAATAATAAATAA
63433852 TAAA
1 TAAA
63433856 GATTGGGTTG
Statistics
Matches: 54, Mismatches: 3, Indels: 9
0.82 0.05 0.14
Matches are distributed among these distances:
27 2 0.04
28 10 0.19
29 27 0.50
30 15 0.28
ACGTcount: A:0.79, C:0.00, G:0.03, T:0.18
Consensus pattern (30 bp):
TAAAAGAAAATAAAGAAAAATAATAAATAA
Found at i:63433830 original size:6 final size:6
Alignment explanation
Indices: 63433767--63433855 Score: 92
Period size: 6 Copynumber: 14.3 Consensus size: 6
63433757 ATATTTAACT
* **
63433767 AAAAT- AAAATA AAAA-A AATAATA AATAATA AAAGAAA ATAAAGG AAAATA
1 AAAATA AAAATA AAAATA AA-AATA AA-AATA AAA-ATA A-AAATA AAAATA
63433817 ATAAATA AAAATA AAAATA AAAATA AAAATA AAAATA AA
1 A-AAATA AAAATA AAAATA AAAATA AAAATA AAAATA AA
63433856 GATTGGGTTG
Statistics
Matches: 73, Mismatches: 5, Indels: 11
0.82 0.06 0.12
Matches are distributed among these distances:
5 8 0.11
6 42 0.58
7 21 0.29
8 2 0.03
ACGTcount: A:0.80, C:0.00, G:0.03, T:0.17
Consensus pattern (6 bp):
AAAATA
Found at i:63440473 original size:417 final size:417
Alignment explanation
Indices: 63439699--63440536 Score: 1676
Period size: 417 Copynumber: 2.0 Consensus size: 417
63439689 TGATCTTTTC
63439699 AATTGTATATCAGCATCTACACCCATAGATCCTCAAATAAAATTAGTATCTAATGCTGGTAGAAA
1 AATTGTATATCAGCATCTACACCCATAGATCCTCAAATAAAATTAGTATCTAATGCTGGTAGAAA
63439764 AATTGATCAATTGAAATATGCAAGTCTAATTGGTTGTCTTATGTACATAATGACTTGTACAATAC
66 AATTGATCAATTGAAATATGCAAGTCTAATTGGTTGTCTTATGTACATAATGACTTGTACAATAC
63439829 TAGATATTGCATATGCTGTTGGGAAATTGAATAGGTACACAAGTAATCTAAGTAGTTGCATTGAC
131 TAGATATTGCATATGCTGTTGGGAAATTGAATAGGTACACAAGTAATCTAAGTAGTTGCATTGAC
63439894 AAGCTTTGAATAGAGAACTTAGGTACTTAAAGAAAACTATTAACTATGGATTGTGTTATAATGGA
196 AAGCTTTGAATAGAGAACTTAGGTACTTAAAGAAAACTATTAACTATGGATTGTGTTATAATGGA
63439959 TATCCTCCAGTTTTAGAAGGGCATTCGGATGCTAGTTGGATTACAAGTTTGGAAGATCATGCATC
261 TATCCTCCAGTTTTAGAAGGGCATTCGGATGCTAGTTGGATTACAAGTTTGGAAGATCATGCATC
63440024 TACTAGTGGATGGATTTTCATTCTTGGTGGAGGAGCCATTTCTTGGGGTTCCAAGAAACAAACAT
326 TACTAGTGGATGGATTTTCATTCTTGGTGGAGGAGCCATTTCTTGGGGTTCCAAGAAACAAACAT
63440089 GTATTCCTGATTCCACCATGGCAGCAG
391 GTATTCCTGATTCCACCATGGCAGCAG
63440116 AATTGTATATCAGCATCTACACCCATAGATCCTCAAATAAAATTAGTATCTAATGCTGGTAGAAA
1 AATTGTATATCAGCATCTACACCCATAGATCCTCAAATAAAATTAGTATCTAATGCTGGTAGAAA
63440181 AATTGATCAATTGAAATATGCAAGTCTAATTGGTTGTCTTATGTACATAATGACTTGTACAATAC
66 AATTGATCAATTGAAATATGCAAGTCTAATTGGTTGTCTTATGTACATAATGACTTGTACAATAC
63440246 TAGATATTGCATATGCTGTTGGGAAATTGAATAGGTACACAAGTAATCTAAGTAGTTGCATTGAC
131 TAGATATTGCATATGCTGTTGGGAAATTGAATAGGTACACAAGTAATCTAAGTAGTTGCATTGAC
63440311 AAGCTTTGAATAGAGAACTTAGGTACTTAAAGAAAACTATTAACTATGGATTGTGTTATAATGGA
196 AAGCTTTGAATAGAGAACTTAGGTACTTAAAGAAAACTATTAACTATGGATTGTGTTATAATGGA
63440376 TATCCTCCAGTTTTAGAAGGGCATTCGGATGCTAGTTGGATTACAAGTTTGGAAGATCATGCATC
261 TATCCTCCAGTTTTAGAAGGGCATTCGGATGCTAGTTGGATTACAAGTTTGGAAGATCATGCATC
63440441 TACTAGTGGATGGATTTTCATTCTTGGTGGAGGAGCCATTTCTTGGGGTTCCAAGAAACAAACAT
326 TACTAGTGGATGGATTTTCATTCTTGGTGGAGGAGCCATTTCTTGGGGTTCCAAGAAACAAACAT
63440506 GTATTCCTGATTCCACCATGGCAGCAG
391 GTATTCCTGATTCCACCATGGCAGCAG
63440533 AATT
1 AATT
63440537 TATTGCATTA
Statistics
Matches: 421, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
417 421 1.00
ACGTcount: A:0.33, C:0.15, G:0.20, T:0.32
Consensus pattern (417 bp):
AATTGTATATCAGCATCTACACCCATAGATCCTCAAATAAAATTAGTATCTAATGCTGGTAGAAA
AATTGATCAATTGAAATATGCAAGTCTAATTGGTTGTCTTATGTACATAATGACTTGTACAATAC
TAGATATTGCATATGCTGTTGGGAAATTGAATAGGTACACAAGTAATCTAAGTAGTTGCATTGAC
AAGCTTTGAATAGAGAACTTAGGTACTTAAAGAAAACTATTAACTATGGATTGTGTTATAATGGA
TATCCTCCAGTTTTAGAAGGGCATTCGGATGCTAGTTGGATTACAAGTTTGGAAGATCATGCATC
TACTAGTGGATGGATTTTCATTCTTGGTGGAGGAGCCATTTCTTGGGGTTCCAAGAAACAAACAT
GTATTCCTGATTCCACCATGGCAGCAG
Found at i:63441538 original size:14 final size:14
Alignment explanation
Indices: 63441519--63441546 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
63441509 AAGAATTATA
63441519 ATTATTTAAATAAT
1 ATTATTTAAATAAT
63441533 ATTATTTAAATAAT
1 ATTATTTAAATAAT
63441547 TATAATTAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (14 bp):
ATTATTTAAATAAT
Found at i:63442061 original size:13 final size:13
Alignment explanation
Indices: 63442039--63442076 Score: 51
Period size: 13 Copynumber: 2.9 Consensus size: 13
63442029 AATTTCATTG
63442039 AAAATAAATTTTAA
1 AAAAT-AATTTTAA
*
63442053 AAAATAATTTTGA
1 AAAATAATTTTAA
63442066 AAAAT-ATTTTA
1 AAAATAATTTTA
63442077 CATAAAATCA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
12 5 0.23
13 12 0.55
14 5 0.23
ACGTcount: A:0.58, C:0.00, G:0.03, T:0.39
Consensus pattern (13 bp):
AAAATAATTTTAA
Found at i:63442163 original size:13 final size:14
Alignment explanation
Indices: 63442130--63442161 Score: 55
Period size: 14 Copynumber: 2.2 Consensus size: 14
63442120 AAAAAATCTA
63442130 TTTTCTAAAAATTGT
1 TTTTC-AAAAATTGT
63442145 TTTTCAAAAATTGT
1 TTTTCAAAAATTGT
63442159 TTT
1 TTT
63442162 CAGTACAACA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 12 0.71
15 5 0.29
ACGTcount: A:0.31, C:0.06, G:0.06, T:0.56
Consensus pattern (14 bp):
TTTTCAAAAATTGT
Found at i:63454396 original size:26 final size:24
Alignment explanation
Indices: 63454352--63454400 Score: 71
Period size: 26 Copynumber: 2.0 Consensus size: 24
63454342 ATTTGTTTTA
*
63454352 ATATTTGTTTTTATGTTTTTAAAT
1 ATATTTGTTTTTATATTTTTAAAT
63454376 ATATTTGATTTATTATATTTTTAAA
1 ATATTTG-TTT-TTATATTTTTAAA
63454401 ATTTTTATTT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 7 0.32
25 3 0.14
26 12 0.55
ACGTcount: A:0.31, C:0.00, G:0.06, T:0.63
Consensus pattern (24 bp):
ATATTTGTTTTTATATTTTTAAAT
Found at i:63458066 original size:6 final size:7
Alignment explanation
Indices: 63458049--63458075 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
63458039 TTTTCATTTA
63458049 AAAAATT
1 AAAAATT
63458056 AAAAATT
1 AAAAATT
63458063 AAAAATT
1 AAAAATT
63458070 AAAAAT
1 AAAAAT
63458076 ATATTTTAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 20 1.00
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (7 bp):
AAAAATT
Found at i:63459712 original size:4 final size:4
Alignment explanation
Indices: 63459703--63459755 Score: 106
Period size: 4 Copynumber: 13.2 Consensus size: 4
63459693 TAGATAAGGC
63459703 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
63459751 CATA C
1 CATA C
63459756 CTTTTTTTTT
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 49 1.00
ACGTcount: A:0.49, C:0.26, G:0.00, T:0.25
Consensus pattern (4 bp):
CATA
Found at i:63474066 original size:29 final size:30
Alignment explanation
Indices: 63474029--63474086 Score: 82
Period size: 29 Copynumber: 2.0 Consensus size: 30
63474019 AAATTGATCC
* *
63474029 AATCAAAATTTCATGTGTAAAATTACACAA
1 AATCAAAATTTCAAGTATAAAATTACACAA
*
63474059 AATC-AAATTTTAAGTATAAAATTACACA
1 AATCAAAATTTCAAGTATAAAATTACACA
63474087 TTAGATCAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
29 21 0.84
30 4 0.16
ACGTcount: A:0.52, C:0.12, G:0.05, T:0.31
Consensus pattern (30 bp):
AATCAAAATTTCAAGTATAAAATTACACAA
Found at i:63484683 original size:36 final size:36
Alignment explanation
Indices: 63484643--63484718 Score: 86
Period size: 34 Copynumber: 2.1 Consensus size: 36
63484633 GTGTTATTTT
** *
63484643 ATAAAAATTATTTAAATTAAG-GTTTAGGGTTTATAA
1 ATAAAAATTAAATAAATTAAGACTTTAGGGTTT-TAA
63484679 AT--AAATTAAATAAATTAAGATCTTTAGGGTTTTAA
1 ATAAAAATTAAATAAATTAAGA-CTTTAGGGTTTTAA
63484714 ATAAA
1 ATAAA
63484719 GTAGGGTTTA
Statistics
Matches: 33, Mismatches: 3, Indels: 7
0.77 0.07 0.16
Matches are distributed among these distances:
34 15 0.45
35 5 0.15
36 12 0.36
37 1 0.03
ACGTcount: A:0.47, C:0.01, G:0.12, T:0.39
Consensus pattern (36 bp):
ATAAAAATTAAATAAATTAAGACTTTAGGGTTTTAA
Found at i:63485130 original size:127 final size:127
Alignment explanation
Indices: 63484865--63485236 Score: 488
Period size: 127 Copynumber: 3.0 Consensus size: 127
63484855 TGTACCCTAG
* * * *
63484865 AAAAATTATTTTGAGAAA-ACATTTCTGAATAAATAGTGTCAAAAACGCTTGAAGCAGGATGCAC
1 AAAAATAATTTTGA-AAAGACGTTTCTGAACAAATAGTGTCAAAAACGCTTCAAGCAGGATGCAC
* * * * *
63484929 TGTCAGC-AAAATTACAGAAAAAAGTTACCACGTGAACGCTCTTTTTCTACAGTAATTCCTGA
65 TGTCAGCAAAAATCACAGAAAAAAGCTCCCACGTGGACGCTCTTTTTCTACAGTAGTTCCTGA
*
63484991 AAAAATAATTTTGAAAAGACGTTTCTGAACAAATAGTGTCAAAAACGCTTCAAGCAGGATGTACT
1 AAAAATAATTTTGAAAAGACGTTTCTGAACAAATAGTGTCAAAAACGCTTCAAGCAGGATGCACT
63485056 GTCAGCAAAAATCACAGAAAAAAGCTCCCACGTGGACGCTCTTTTTCTACAGTAGTTCCTGA
66 GTCAGCAAAAATCACAGAAAAAAGCTCCCACGTGGACGCTCTTTTTCTACAGTAGTTCCTGA
* * * * * * *
63485118 AAAAATAATTTTGAGAAGATGTTTCTAAACAAGTAGTGT--TAAA-GCTTCAAGTAGGATGCAAT
1 AAAAATAATTTTGAAAAGACGTTTCTGAACAAATAGTGTCAAAAACGCTTCAAGCAGGATGCACT
* * * *
63485180 GTCAGCAAAATTTC-TA-AAAAAAGCTCTCACGTGGACGTTCTTTTTCTACAGTAGTTC
66 GTCAGCAAAA-ATCACAGAAAAAAGCTCCCACGTGGACGCTCTTTTTCTACAGTAGTTC
63485237 ATGATTGGCC
Statistics
Matches: 221, Mismatches: 22, Indels: 9
0.88 0.09 0.04
Matches are distributed among these distances:
123 39 0.18
124 27 0.12
125 8 0.04
126 62 0.28
127 85 0.38
ACGTcount: A:0.38, C:0.17, G:0.17, T:0.28
Consensus pattern (127 bp):
AAAAATAATTTTGAAAAGACGTTTCTGAACAAATAGTGTCAAAAACGCTTCAAGCAGGATGCACT
GTCAGCAAAAATCACAGAAAAAAGCTCCCACGTGGACGCTCTTTTTCTACAGTAGTTCCTGA
Found at i:63488770 original size:18 final size:18
Alignment explanation
Indices: 63488744--63488785 Score: 66
Period size: 18 Copynumber: 2.3 Consensus size: 18
63488734 GACTGAAAAA
* *
63488744 AGGAAACATATAAGGGTT
1 AGGATACATATAAGGGCT
63488762 AGGATACATATAAGGGCT
1 AGGATACATATAAGGGCT
63488780 AGGATA
1 AGGATA
63488786 TACACCTGAC
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.43, C:0.07, G:0.29, T:0.21
Consensus pattern (18 bp):
AGGATACATATAAGGGCT
Found at i:63488901 original size:30 final size:30
Alignment explanation
Indices: 63488858--63488935 Score: 95
Period size: 30 Copynumber: 2.6 Consensus size: 30
63488848 GTGATTGTAG
* *
63488858 GGCACTATTGATGGGCC-AGGTGATTGTTTA
1 GGCACTGTTGATGGGCCTA-ATGATTGTTTA
* *
63488888 GGCCCTGTTGATGGGCCTAATGATTGTTTG
1 GGCACTGTTGATGGGCCTAATGATTGTTTA
*
63488918 GGCACTGTTGATAGGCCT
1 GGCACTGTTGATGGGCCT
63488936 GTGCCATCAT
Statistics
Matches: 41, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
30 40 0.98
31 1 0.02
ACGTcount: A:0.17, C:0.17, G:0.33, T:0.33
Consensus pattern (30 bp):
GGCACTGTTGATGGGCCTAATGATTGTTTA
Found at i:63492408 original size:47 final size:47
Alignment explanation
Indices: 63492299--63492409 Score: 154
Period size: 47 Copynumber: 2.4 Consensus size: 47
63492289 CCGGGATAAG
*
63492299 CACATAGTGCTTCATCGGAACAAATCCGGAACTTTAACATTATAGTA
1 CACATAGTGCTTCATCGGAACAAATCCGGAACTTTAACAGTATAGTA
* * *
63492346 CACAAAGTACTTCATCGGAACAAATCCGGAACTTTAACAGTAGTCG-A
1 CACATAGTGCTTCATCGGAACAAATCCGGAACTTTAACAGTA-TAGTA
63492393 CACATAGTG-TCTCATCG
1 CACATAGTGCT-TCATCG
63492410 ACTCAATGTC
Statistics
Matches: 56, Mismatches: 6, Indels: 4
0.85 0.09 0.06
Matches are distributed among these distances:
46 1 0.02
47 53 0.95
48 2 0.04
ACGTcount: A:0.35, C:0.23, G:0.16, T:0.25
Consensus pattern (47 bp):
CACATAGTGCTTCATCGGAACAAATCCGGAACTTTAACAGTATAGTA
Found at i:63499662 original size:47 final size:47
Alignment explanation
Indices: 63499553--63499663 Score: 154
Period size: 47 Copynumber: 2.4 Consensus size: 47
63499543 CCGGGATAAG
*
63499553 CACATAGTGCTTCATCGGAACAAATCCGGAACTTTAACATTATAGTA
1 CACATAGTGCTTCATCGGAACAAATCCGGAACTTTAACAGTATAGTA
* * *
63499600 CACAAAGTACTTCATCGGAACAAATCCGGAACTTTAACAGTAGTCG-A
1 CACATAGTGCTTCATCGGAACAAATCCGGAACTTTAACAGTA-TAGTA
63499647 CACATAGTG-TCTCATCG
1 CACATAGTGCT-TCATCG
63499664 ACTCAATGTC
Statistics
Matches: 56, Mismatches: 6, Indels: 4
0.85 0.09 0.06
Matches are distributed among these distances:
46 1 0.02
47 53 0.95
48 2 0.04
ACGTcount: A:0.35, C:0.23, G:0.16, T:0.25
Consensus pattern (47 bp):
CACATAGTGCTTCATCGGAACAAATCCGGAACTTTAACAGTATAGTA
Found at i:63504242 original size:26 final size:26
Alignment explanation
Indices: 63504206--63504317 Score: 188
Period size: 26 Copynumber: 4.3 Consensus size: 26
63504196 CATGAATTTC
*
63504206 TTATCATGAAACATTTACCTAAACCA
1 TTATCATGAAACATTTACCTAACCCA
63504232 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* * *
63504258 TTATCATGGAATATTTACCTAATCCA
1 TTATCATGAAACATTTACCTAACCCA
63504284 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
63504310 TTATCATG
1 TTATCATG
63504318 GATAACCCAT
Statistics
Matches: 79, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 79 1.00
ACGTcount: A:0.38, C:0.23, G:0.05, T:0.34
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:63504285 original size:52 final size:51
Alignment explanation
Indices: 63504206--63504410 Score: 246
Period size: 52 Copynumber: 4.1 Consensus size: 51
63504196 CATGAATTTC
63504206 TTATCATGAAACATTTACCTAAACCATTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCT-AACCATTATCATGAAACATTTACCTAACCCA
* *
63504258 TTATCATGGAATATTTACCTAATCCATTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAA-CCATTATCATGAAACATTTACCTAACCCA
* * * *
63504310 TTATCATG---GA--TA---ACCCATTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCATTATCATGAAACATTTACCTAACCCA
* * *
63504353 TTATTATGAAACATTTACCTAACCCATTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAA-CCATTATCATGAAACATTTACCTAACCCA
63504405 TTATCA
1 TTATCA
63504411 ATTTGTATCA
Statistics
Matches: 133, Mismatches: 10, Indels: 20
0.82 0.06 0.12
Matches are distributed among these distances:
43 34 0.26
44 1 0.01
46 1 0.01
47 2 0.02
48 2 0.02
49 1 0.01
51 3 0.02
52 89 0.67
ACGTcount: A:0.37, C:0.23, G:0.06, T:0.34
Consensus pattern (51 bp):
TTATCATGAAACATTTACCTAACCATTATCATGAAACATTTACCTAACCCA
Found at i:63504325 original size:17 final size:17
Alignment explanation
Indices: 63504303--63504336 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
63504293 AACATTTACC
63504303 TAACCCATTATCATGGA
1 TAACCCATTATCATGGA
63504320 TAACCCATTATCATGGA
1 TAACCCATTATCATGGA
63504337 ACATTTACCT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.35, C:0.24, G:0.12, T:0.29
Consensus pattern (17 bp):
TAACCCATTATCATGGA
Found at i:63504356 original size:26 final size:26
Alignment explanation
Indices: 63504320--63504410 Score: 146
Period size: 26 Copynumber: 3.5 Consensus size: 26
63504310 TTATCATGGA
63504320 TAACCCATTATCATGGAACATTTACC
1 TAACCCATTATCATGGAACATTTACC
* * *
63504346 TAACCTATTATTATGAAACATTTACC
1 TAACCCATTATCATGGAACATTTACC
63504372 TAACCCATTATCATGGAACATTTACC
1 TAACCCATTATCATGGAACATTTACC
*
63504398 TAACCTATTATCA
1 TAACCCATTATCA
63504411 ATTTGTATCA
Statistics
Matches: 58, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
26 58 1.00
ACGTcount: A:0.36, C:0.24, G:0.05, T:0.34
Consensus pattern (26 bp):
TAACCCATTATCATGGAACATTTACC
Found at i:63504362 original size:69 final size:69
Alignment explanation
Indices: 63504251--63504388 Score: 242
Period size: 69 Copynumber: 2.0 Consensus size: 69
63504241 AACATTTACC
*
63504251 TAACCCATTATCATGGAATATTTACCTAATCCATTATCATGAAACATTTACCTAACCCATTATCA
1 TAACCCATTATCATGGAACATTTACCTAATCCATTATCATGAAACATTTACCTAACCCATTATCA
63504316 TGGA
66 TGGA
*
63504320 TAACCCATTATCATGGAACATTTACCTAA-CCTATTATTATGAAACATTTACCTAACCCATTATC
1 TAACCCATTATCATGGAACATTTACCTAATCC-ATTATCATGAAACATTTACCTAACCCATTATC
63504384 ATGGA
65 ATGGA
63504389 ACATTTACCT
Statistics
Matches: 66, Mismatches: 2, Indels: 2
0.94 0.03 0.03
Matches are distributed among these distances:
68 2 0.03
69 64 0.97
ACGTcount: A:0.36, C:0.23, G:0.07, T:0.33
Consensus pattern (69 bp):
TAACCCATTATCATGGAACATTTACCTAATCCATTATCATGAAACATTTACCTAACCCATTATCA
TGGA
Found at i:63504392 original size:95 final size:95
Alignment explanation
Indices: 63504229--63504410 Score: 292
Period size: 95 Copynumber: 1.9 Consensus size: 95
63504219 TTTACCTAAA
* * *
63504229 CCATTATCATGAAACATTTACCTAACCCATTATCATGGAATATTTACCTAATCCATTATCATGAA
1 CCATTATCATGAAACATTTACCTAACCCATTATCATGAAACATTTACCTAACCCATTATCATGAA
63504294 ACATTTACCTAACCCATTATCATGGATAAC
66 ACATTTACCTAACCCATTATCATGGATAAC
* * * *
63504324 CCATTATCATGGAACATTTACCTAACCTATTATTATGAAACATTTACCTAACCCATTATCATGGA
1 CCATTATCATGAAACATTTACCTAACCCATTATCATGAAACATTTACCTAACCCATTATCATGAA
*
63504389 ACATTTACCTAACCTATTATCA
66 ACATTTACCTAACCCATTATCA
63504411 ATTTGTATCA
Statistics
Matches: 79, Mismatches: 8, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
95 79 1.00
ACGTcount: A:0.36, C:0.24, G:0.06, T:0.34
Consensus pattern (95 bp):
CCATTATCATGAAACATTTACCTAACCCATTATCATGAAACATTTACCTAACCCATTATCATGAA
ACATTTACCTAACCCATTATCATGGATAAC
Done.