Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr5
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: 55438857
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1812582 characters in sequence are not A, C, G, or T
File 113 of 167
Found at i:37899711 original size:17 final size:18
Alignment explanation
Indices: 37899689--37899722 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
37899679 ATAATTGTAA
*
37899689 TTTAAAT-TCTAATTATT
1 TTTAAATGTATAATTATT
37899706 TTTAAATGTATAATTAT
1 TTTAAATGTATAATTAT
37899723 CCCAACTTTA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 7 0.47
18 8 0.53
ACGTcount: A:0.38, C:0.03, G:0.03, T:0.56
Consensus pattern (18 bp):
TTTAAATGTATAATTATT
Found at i:37904001 original size:19 final size:19
Alignment explanation
Indices: 37903979--37904052 Score: 51
Period size: 19 Copynumber: 3.7 Consensus size: 19
37903969 TAATAATAAT
37903979 ATAAAATAAAAATATGTAC
1 ATAAAATAAAAATATGTAC
* * *
37903998 ATAAAAATACATATATATATGC
1 AT-AAAATA-A-AAATATGTAC
* *
37904020 ATATAATAAATATATGTA-
1 ATAAAATAAAAATATGTAC
*
37904038 ATAATAATAATAATA
1 ATAA-AATAAAAATA
37904053 ATATCTACAA
Statistics
Matches: 42, Mismatches: 9, Indels: 8
0.71 0.15 0.14
Matches are distributed among these distances:
18 3 0.07
19 17 0.40
20 7 0.17
21 6 0.14
22 9 0.21
ACGTcount: A:0.59, C:0.04, G:0.04, T:0.32
Consensus pattern (19 bp):
ATAAAATAAAAATATGTAC
Found at i:37904151 original size:17 final size:17
Alignment explanation
Indices: 37904129--37904189 Score: 60
Period size: 17 Copynumber: 3.8 Consensus size: 17
37904119 ACAATAATAT
37904129 AAAATA-ATGATATGTAC
1 AAAATATAT-ATATGTAC
37904146 AAAATATATATATGTAC
1 AAAATATATATATGTAC
*
37904163 ATAATATAGT-TA--TA-
1 AAAATATA-TATATGTAC
37904177 AAAATATATATAT
1 AAAATATATATAT
37904190 TAAATTCGGA
Statistics
Matches: 38, Mismatches: 2, Indels: 10
0.76 0.04 0.20
Matches are distributed among these distances:
13 1 0.03
14 9 0.24
15 2 0.05
17 23 0.61
18 3 0.08
ACGTcount: A:0.54, C:0.03, G:0.07, T:0.36
Consensus pattern (17 bp):
AAAATATATATATGTAC
Found at i:37904981 original size:15 final size:17
Alignment explanation
Indices: 37904947--37904988 Score: 61
Period size: 15 Copynumber: 2.6 Consensus size: 17
37904937 TTTTTTGTTG
37904947 TTTTTTTGCTGGAAAAT
1 TTTTTTTGCTGGAAAAT
*
37904964 TTTTTTTGCT-G-AATT
1 TTTTTTTGCTGGAAAAT
37904979 TTTTTTTGCT
1 TTTTTTTGCT
37904989 CTTTTTTCTC
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
15 13 0.54
16 1 0.04
17 10 0.42
ACGTcount: A:0.14, C:0.07, G:0.14, T:0.64
Consensus pattern (17 bp):
TTTTTTTGCTGGAAAAT
Found at i:37905257 original size:28 final size:28
Alignment explanation
Indices: 37905197--37905265 Score: 77
Period size: 28 Copynumber: 2.4 Consensus size: 28
37905187 CAAATGCAGC
*
37905197 AAAACTTTAGAGGCTAAATGTAATTTTTAG
1 AAAA-TTTAG-GGCTAAATGTAATTTTAAG
*
37905227 AAAATTTAGGGTTAAATGTAA-TTTAAGG
1 AAAATTTAGGGCTAAATGTAATTTTAA-G
*
37905255 AAAGTTTAGGG
1 AAAATTTAGGG
37905266 GTCAAAATGC
Statistics
Matches: 35, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
27 4 0.11
28 22 0.63
29 5 0.14
30 4 0.11
ACGTcount: A:0.41, C:0.03, G:0.22, T:0.35
Consensus pattern (28 bp):
AAAATTTAGGGCTAAATGTAATTTTAAG
Found at i:37905745 original size:80 final size:75
Alignment explanation
Indices: 37905492--37905760 Score: 258
Period size: 77 Copynumber: 3.5 Consensus size: 75
37905482 GCGACTCGAA
* * * * *
37905492 GTTCAACTCACCTCTC-AAATTATGAGTTGA-TCTTTGAAAAAGCAAAAAATTGAAAATACCTCA
1 GTTCAACTCACCTCTCGCAA-TATGAGTTGATTTTTTTAAAAAAC-AGAAATTGAAAATACCTCA
*
37905555 ACGTGTGACCTGATG
64 TC--GTGACCTGA-G
* * *
37905570 CTT-AACTCACCTTTCGCAATATGAGTTGATTTTTTTGAAAAACAGAAATTGAAAATACCTCAAT
1 GTTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTAAAAAACAGAAATTGAAAATACCTC-AT
**
37905634 GCGTGATTTGAG
65 -CGTGACCTGAG
* * *
37905646 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTAAAAAAAAAAACATAAATTGGAAATACC
1 GTTCAACTCACCTCTCGCAATATGAGTTGATTTTTTT-----AAAAAACAGAAATTGAAAATACC
*
37905711 TCATCGTGACCTGGG
61 TCATCGTGACCTGAG
*
37905726 GTTCAACTCACCTCTCGCAATATGAGCT-ATTTTTT
1 GTTCAACTCACCTCTCGCAATATGAGTTGATTTTTT
37905761 GAAATACGAA
Statistics
Matches: 159, Mismatches: 22, Indels: 19
0.80 0.11 0.09
Matches are distributed among these distances:
76 2 0.01
77 77 0.48
78 14 0.09
79 8 0.05
80 34 0.21
81 2 0.01
82 22 0.14
ACGTcount: A:0.34, C:0.19, G:0.15, T:0.32
Consensus pattern (75 bp):
GTTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTAAAAAACAGAAATTGAAAATACCTCATC
GTGACCTGAG
Found at i:37906074 original size:77 final size:74
Alignment explanation
Indices: 37905832--37906093 Score: 357
Period size: 76 Copynumber: 3.5 Consensus size: 74
37905822 TGGCCCGAGA
* *
37905832 CTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAAACAGAAATTGAAAA-CACTTCAGCG
1 CTCAACTCACCTCTCGCAATATGAGTTGATTTTTTG-AAAACAGAAATTGAAAATTACCTCAGCG
37905896 TGTGACCTGAGG
65 TGT--CCTGAGG
* * * *
37905908 CTCAACTCGCCTCTCGCAATACGAGTTGATTTTTTGACAAACAAAAATTG-AAATTACCTTAGCG
1 CTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGA-AAACAGAAATTGAAAATTACCTCAGCG
37905972 TGTCCTGAGG
65 TGTCCTGAGG
*
37905982 CTCAACTCACCTCTCGCAATATGAGTTGATTTTTTCTGAATGACAGAAATTGAAAATTACCTCAG
1 CTCAACTCACCTCTCGCAATATGAGTTGA-TTTTT-TGAA-AACAGAAATTGAAAATTACCTCAG
* *
37906047 CATGTCTTGAGG
63 CGTGTCCTGAGG
*
37906059 CTCAACTCACTTCTCGCAATATGAGTTGATTTTTT
1 CTCAACTCACCTCTCGCAATATGAGTTGATTTTTT
37906094 TTAAAATACC
Statistics
Matches: 166, Mismatches: 14, Indels: 13
0.86 0.07 0.07
Matches are distributed among these distances:
74 34 0.20
75 11 0.07
76 72 0.43
77 49 0.30
ACGTcount: A:0.30, C:0.22, G:0.17, T:0.32
Consensus pattern (74 bp):
CTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAACAGAAATTGAAAATTACCTCAGCGT
GTCCTGAGG
Found at i:37906135 original size:61 final size:61
Alignment explanation
Indices: 37906034--37906159 Score: 209
Period size: 61 Copynumber: 2.1 Consensus size: 61
37906024 ACAGAAATTG
*
37906034 AAAATTACCTCAGCATGTCTTGAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTTTT
1 AAAATTACCTCAGCATGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTTT
* *
37906096 AAAA-TACCTCATCGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTT
1 AAAATTACCTCAGCATGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTT
37906156 AAAA
1 AAAA
37906160 GACAGAAATT
Statistics
Matches: 61, Mismatches: 3, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
60 11 0.18
61 46 0.75
62 4 0.07
ACGTcount: A:0.28, C:0.21, G:0.14, T:0.37
Consensus pattern (61 bp):
AAAATTACCTCAGCATGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTT
Found at i:37906229 original size:75 final size:75
Alignment explanation
Indices: 37906096--37906234 Score: 244
Period size: 75 Copynumber: 1.9 Consensus size: 75
37906086 GATTTTTTTT
* *
37906096 AAAATACCTCATCGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTAAAAG
1 AAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAAG
37906161 ACAGAAATTG
66 ACAGAAATTG
37906171 AAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCCTCGCAATATGAGTTGA-TTTTTGAAAA
1 AAAATACCTCAACGTGTCTTGAGGCTCAACTCACCT-CTCGCAATATGAGTTGATTTTTTGAAAA
37906235 CAGATTTTGA
Statistics
Matches: 61, Mismatches: 2, Indels: 2
0.94 0.03 0.03
Matches are distributed among these distances:
75 44 0.72
76 17 0.28
ACGTcount: A:0.32, C:0.22, G:0.16, T:0.31
Consensus pattern (75 bp):
AAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAAG
ACAGAAATTG
Found at i:37906244 original size:13 final size:13
Alignment explanation
Indices: 37906226--37906263 Score: 67
Period size: 14 Copynumber: 2.8 Consensus size: 13
37906216 ATGAGTTGAT
37906226 TTTTGAAAACAGA
1 TTTTGAAAACAGA
37906239 TTTTGAAAAACAGA
1 TTTTG-AAAACAGA
37906253 TTTTGAAAACA
1 TTTTGAAAACA
37906264 CCTCAGCGTG
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
13 11 0.46
14 13 0.54
ACGTcount: A:0.47, C:0.08, G:0.13, T:0.32
Consensus pattern (13 bp):
TTTTGAAAACAGA
Found at i:37916670 original size:43 final size:43
Alignment explanation
Indices: 37916609--37916694 Score: 127
Period size: 43 Copynumber: 2.0 Consensus size: 43
37916599 CTATCCCCTC
* *
37916609 TTTCTTTCTGAGTCTTTAGAGACCAGTCTCAAACCGCGGCATT
1 TTTCTTTCTGAGTCTTTAGAGACCAGTCCCAAACCACGGCATT
* * *
37916652 TTTCTTTTTGAGTTTTTAGAGACCAGTCCCGAACCACGGCATT
1 TTTCTTTCTGAGTCTTTAGAGACCAGTCCCAAACCACGGCATT
37916695 CCTCTTGGTT
Statistics
Matches: 38, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
43 38 1.00
ACGTcount: A:0.21, C:0.24, G:0.19, T:0.36
Consensus pattern (43 bp):
TTTCTTTCTGAGTCTTTAGAGACCAGTCCCAAACCACGGCATT
Found at i:37924264 original size:19 final size:19
Alignment explanation
Indices: 37924240--37924294 Score: 65
Period size: 19 Copynumber: 2.9 Consensus size: 19
37924230 AAATGGTAGC
* *
37924240 AAAATAGTGAAAAAATAAG
1 AAAATAGTAAAAAAATAAA
* *
37924259 AAAATAGCAATAAAATAAA
1 AAAATAGTAAAAAAATAAA
*
37924278 AAAAAAGTAAAAAAATA
1 AAAATAGTAAAAAAATA
37924295 GATATTTAAG
Statistics
Matches: 29, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
19 29 1.00
ACGTcount: A:0.75, C:0.02, G:0.09, T:0.15
Consensus pattern (19 bp):
AAAATAGTAAAAAAATAAA
Found at i:37932500 original size:12 final size:13
Alignment explanation
Indices: 37932466--37932503 Score: 51
Period size: 12 Copynumber: 2.9 Consensus size: 13
37932456 GTAGTCTTAA
37932466 AATAGAATAAAAGT
1 AATA-AATAAAAGT
*
37932480 AAAAAATAAAA-T
1 AATAAATAAAAGT
37932492 AATAAATAAAAG
1 AATAAATAAAAG
37932504 ATTTTAAACA
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
12 11 0.52
13 7 0.33
14 3 0.14
ACGTcount: A:0.74, C:0.00, G:0.08, T:0.18
Consensus pattern (13 bp):
AATAAATAAAAGT
Found at i:37933420 original size:28 final size:28
Alignment explanation
Indices: 37933378--37933435 Score: 107
Period size: 28 Copynumber: 2.1 Consensus size: 28
37933368 CAAGACTTAG
*
37933378 TTAATAGGTTTGATGTGAAAAACTAGAA
1 TTAATAGGTTAGATGTGAAAAACTAGAA
37933406 TTAATAGGTTAGATGTGAAAAACTAGAA
1 TTAATAGGTTAGATGTGAAAAACTAGAA
37933434 TT
1 TT
37933436 TAAATAAGTC
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.43, C:0.03, G:0.21, T:0.33
Consensus pattern (28 bp):
TTAATAGGTTAGATGTGAAAAACTAGAA
Found at i:37941577 original size:433 final size:430
Alignment explanation
Indices: 37940489--37941959 Score: 1832
Period size: 431 Copynumber: 3.4 Consensus size: 430
37940479 TTCAAATAAA
** * * *
37940489 CAAGCAAATTGGGAAAAATTGGAACGAGAAGCAAT-AAATGGGTCAAATTGAAAAGTTTCAGAAT
1 CAAGCAAATTGGGCTAAATTGGAACGAGAAGCAATAAAATGGGCCAAATTGAAAAGTTGCATAAT
* ** * * *
37940553 TAAG-GACTGATTAATTATTAGATTGTGAACTTGTCAAACTCCATGAATAGAAAAAAAAATCTGA
66 T-AGTGGCTGATTAAAAATCAGATTGTGAATTTGTCAAACTCTATGAATAG-AAAAAAAATCTGA
* * * * * * *
37940617 TTTTAGTTAATCATTAGGTATAATCTTATGAAGAATCATGCTAAATTTTACATATGAAAAATGTA
129 TTTTAGTTGATTATTAGGCATAATCTTAGGAGGAATCATGCTAAATTGT-CATATGGAAAATGTA
* * * * *
37940682 TAAATACCTTGAAATGGTGGCTTGGAAAAAGCACACTAAAATAAAATTAAAAGCAATTCTTTTCT
193 TAAATACCTTGTAATGGTGGCTTGGAAAAAACACACTATAATAGAATTAAAAGCAATTTTTTTCT
* * * * *
37940747 TTTTCATGCATCAATAGTTATTTAAGTTTACTGCCAATTTTTTTCTAGTTTTTTATTTTTGGTTC
258 TTTTCATGCATCAGTAGATA-TTCAGTTTACTGCCAATTTTTTTCTAGTTTCTTATTTTTTGTTC
* **
37940812 AATTGCCTTTCAAGTCTTTTCTCATTTTCACCTATCACCATTACGTTCAAATCCACTTTTAAGTC
322 AATTGCCTTTTAAGTCTTTTCTCATTTTCACCTATCACCATTAC-TTCAAATCCACTTTTAAACC
* * * *
37940877 CCAATTGAGTATGATTAATTTCATGCTCAACTAAACCCATTTAGT
386 CCAATCGAGTATGATTAATTTCATGTTCAACTAAACGCATTTAGC
* * *
37940922 TAAGCAAATTGGGCT-AATTGGAATGAGAAGCAATAAAAGGGGCCAAATTGAAAAGTTGCATAAT
1 CAAGCAAATTGGGCTAAATTGGAACGAGAAGCAATAAAATGGGCCAAATTGAAAAGTTGCATAAT
** * *
37940986 TAAAGGCTGATTAAAAATCAGATTGTGAATTTGTCAAACTCTATGAATAGAAAACAAATGTGATT
66 TAGTGGCTGATTAAAAATCAGATTGTGAATTTGTCAAACTCTATGAATAGAAAAAAAATCTGATT
* * *
37941051 TT-GTTGGTTATTAGGCGTAACCTTAGGAGGAATCATGCTAAATTTGAT-ATAT-GAAAATGGTA
131 TTAGTTGATTATTAGGCATAATCTTAGGAGGAATCATGCTAAA-TTG-TCATATGGAAAAT-GTA
37941113 TAAATACCTTGTAATGGTGGCTTGGAAAAAACACACTATAATAGAATTAAAAGCAATTTTTTTCT
193 TAAATACCTTGTAATGGTGGCTTGGAAAAAACACACTATAATAGAATTAAAAGCAATTTTTTTCT
* * *
37941178 TTTTCACGCATCTGTAGATATTCGAGTTTACTGCCAATTTTTTTCTAGTTCCTTATTTTTTGTTC
258 TTTTCATGCATCAGTAGATATTC-AGTTTACTGCCAATTTTTTTCTAGTTTCTTATTTTTTGTTC
* * *
37941243 AATTACCTTTTAAGT-TCTTTCTCATTTTCACCCATCATCATTACATTCAAATCCACTTTTAAAC
322 AATTGCCTTTTAAGTCT-TTTCTCATTTTCACCTATCACCATTAC-TTCAAATCCACTTTTAAAC
* *
37941307 CCCAATCAAGTATGATTAATTTCATGTTCAACTAAACGACATTTGGC
385 CCCAATCGAGTATGATTAATTTCATGTTCAACTAAACG-CATTTAGC
* * *
37941354 CAAGCAAATTGGGCTAAATTGGAAC-AGGAAGCAATAAAATGGACCAAATTGAAAATTTTCATAA
1 CAAGCAAATTGGGCTAAATTGGAACGA-GAAGCAATAAAATGGGCCAAATTGAAAAGTTGCATAA
*
37941418 TTAGTGGCTGATTAAAAATCAGATTGTGAATTTGTCAAACTCTATGAATAG-AAAAAAATCTAAT
65 TTAGTGGCTGATTAAAAATCAGATTGTGAATTTGTCAAACTCTATGAATAGAAAAAAAATCTGAT
* * *
37941482 TTTAGTTGATTATTAGGCATAATCTTAGGAGGAATCATGCTCAATATGTCATATGGAAAGTCTAT
130 TTTAGTTGATTATTAGGCATAATCTTAGGAGGAATCATGCTAAAT-TGTCATATGGAAAATGTAT
* ** * ** * *
37941547 CAATACCTTGTAATGGTGGCTTCAAAAAAACATACTATAATAGAATTAAAAATAACTTTTTTCTC
194 AAATACCTTGTAATGGTGGCTTGGAAAAAACACACTATAATAGAATTAAAAGCAATTTTTTTCTT
* * * * * * * *
37941612 TTTCATGCATCAGTAGCTATTCAGGTTTATTGTC-ATTTTTTACCATTTTCTTACTTTTTGTCCA
259 TTTCATGCATCAGTAGATATTCA-GTTTACTGCCAATTTTTTTCTAGTTTCTTATTTTTTGTTCA
* * * * *
37941676 ATTGCTTTTTAAGTCTTTTCTCTTTTTCACTTATCACCTTTACTTCCAAATTCACTTTTAAACCC
323 ATTGCCTTTTAAGTCTTTTCTCATTTTCACCTATCACCATTACTT-CAAATCCACTTTTAAACCC
37941741 CAATCGAGTATGATTAATTTCAT-TCTCAACTAAATCGCATTTAGC
387 CAATCGAGTATGATTAATTTCATGT-TCAACTAAA-CGCATTTAGC
* * * * * ** *
37941786 CAAGCAAATTTGGCTAACTTGGAATGGGAAGAAATAAAA-CAGCCAAATTGAAAAGTTGCAAAAT
1 CAAGCAAATTGGGCTAAATTGGAACGAGAAGCAATAAAATGGGCCAAATTGAAAAGTTGCATAAT
* * * *
37941850 TAGTGGTTGATTAAAAATCCGATTGTGAATTTGTTAAACTCTATGAATAGAAAAAAAATCTTATT
66 TAGTGGCTGATTAAAAATCAGATTGTGAATTTGTCAAACTCTATGAATAGAAAAAAAATCTGATT
* * *
37941915 TTAATTGGTTGTTAGGCATAATCTTAGGAGGAATCATGCTAAATT
131 TTAGTTGATTATTAGGCATAATCTTAGGAGGAATCATGCTAAATT
37941960 TGGTATATAA
Statistics
Matches: 899, Mismatches: 118, Indels: 44
0.85 0.11 0.04
Matches are distributed among these distances:
430 8 0.01
431 312 0.35
432 273 0.30
433 301 0.33
434 5 0.01
ACGTcount: A:0.35, C:0.14, G:0.14, T:0.36
Consensus pattern (430 bp):
CAAGCAAATTGGGCTAAATTGGAACGAGAAGCAATAAAATGGGCCAAATTGAAAAGTTGCATAAT
TAGTGGCTGATTAAAAATCAGATTGTGAATTTGTCAAACTCTATGAATAGAAAAAAAATCTGATT
TTAGTTGATTATTAGGCATAATCTTAGGAGGAATCATGCTAAATTGTCATATGGAAAATGTATAA
ATACCTTGTAATGGTGGCTTGGAAAAAACACACTATAATAGAATTAAAAGCAATTTTTTTCTTTT
TCATGCATCAGTAGATATTCAGTTTACTGCCAATTTTTTTCTAGTTTCTTATTTTTTGTTCAATT
GCCTTTTAAGTCTTTTCTCATTTTCACCTATCACCATTACTTCAAATCCACTTTTAAACCCCAAT
CGAGTATGATTAATTTCATGTTCAACTAAACGCATTTAGC
Found at i:37942407 original size:6 final size:5
Alignment explanation
Indices: 37942377--37942406 Score: 51
Period size: 5 Copynumber: 5.8 Consensus size: 5
37942367 AATTTGTGTT
37942377 TTTTA TTTTTA TTTTA TTTTA TTTTA TTTT
1 TTTTA -TTTTA TTTTA TTTTA TTTTA TTTT
37942407 TCTCAAATTG
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
5 19 0.79
6 5 0.21
ACGTcount: A:0.17, C:0.00, G:0.00, T:0.83
Consensus pattern (5 bp):
TTTTA
Found at i:37948131 original size:440 final size:431
Alignment explanation
Indices: 37946859--37948177 Score: 1735
Period size: 432 Copynumber: 3.0 Consensus size: 431
37946849 TATTTTTCTC
* * *
37946859 AAAAAGTGTATAAATACCTTGTAATGATGGCTTCGAAAAAACACATTGGAATAG--TTAAAAAGA
1 AAAAA-TGTATAAATACCTTGTAATGATGACTTGGAAAAAACACATTGGAATAGAATTAAAAACA
* * ** *
37946922 ATTGTTATCTCTTTCACACATCAGTAGCTATTCAAGTTTACTGCCATTTT-TTCCATTTTCTTAT
65 ATTCTTTTCTCTTTCATGCATCAGTAGCTATTCAAGTTTACTGCCATTTTCTTCCATTTCCTTAT
*
37946986 TTTTGGTTCAATTGCTTTTTAAGTCC-T-T-TATCCTTTTCACTTATCACCATTACGTTCAAATC
130 TTTTGGTTCAATTGCTTTTTAAGTCCTTCTCTTTCCTTTTCACTTATCACCATTACGTTCAAATC
* * *
37947048 CACTTTTAAACCCCAATTGAGTATGATTAGTTTCATGCTCAACTAAACCCCATTTAGCCAAGAAA
195 CACTTTTAAA-CCCAATCGAGTATGATTAATTTCATGCTCAACTAAACCCCATTTAGCCAAGCAA
* * *
37947113 ATTGGGCTAAATTGGAACGGGGAGCAATAAAAAGGGCAAAATTGAAAAGTTGTAGAATAAGTGGT
259 ATTGGGCTAAATTGGAACGGGAAGCAATAAAAAGGGCAAAATTGAAAAGTTGCAGAATTAGTGGT
* *
37947178 TGATTAAAAATTACATTGTGAAATTTTCAAACTCCATGAATAGAAAAAAAATCTGATTTTAGTTG
324 TGATTAAAAATCAAATTGTG-AATTTTCAAACTCCATGAAT--AAAAAAAATCTGATTTTAGTTG
* * * * *
37947243 GCTGTTAAGCATAATCTTAGGAGGAA--AGTGCTAATTTTGACAGATG
386 GTTGTTAGGCATAATCTTA-GAAGAATCA-TGCTAAATTTGACATATG
* *
37947289 AAAAGTGTATAAATACCTTGTAATGATGACTTGGAAAAAACACATTGGAATAGAATGAAAAACAA
1 AAAAATGTATAAATACCTTGTAATGATGACTTGGAAAAAACACATTGGAATAGAATTAAAAACAA
*
37947354 TTCTTTTCTCTTTAATGCATCAGTAGCTATTCAAGTTTACTGCCA-TTTCTTTCCATTTCCTTAT
66 TTCTTTTCTCTTTCATGCATCAGTAGCTATTCAAGTTTACTGCCATTTTC-TTCCATTTCCTTAT
* * *
37947418 TTTTGGTTCAATTGCTTTTTACGTCCTT-TC--TCCTTTTCACCTATTACCATTACGTTCAAATC
130 TTTTGGTTCAATTGCTTTTTAAGTCCTTCTCTTTCCTTTTCACTTATCACCATTACGTTCAAATC
* * * *
37947480 CAATTTTAAATCCCTATCGAGCATGATTAATTTCATGCTCAACTAAACCCCATTTAGCTAAGCAA
195 CACTTTTAAA-CCCAATCGAGTATGATTAATTTCATGCTCAACTAAACCCCATTTAGCCAAGCAA
* * * * * ** * *
37947545 ATTGGGCTAAATTGAAACGGGAAGCAATAAAATGAGCTAAATTGAAAGGTTGCTTAACTAGTGGC
259 ATTGGGCTAAATTGGAACGGGAAGCAATAAAAAGGGCAAAATTGAAAAGTTGCAGAATTAGTGGT
* *
37947610 TGATTAAAAATCAGATTGTGAATTTTTCAAACTCCATGAATAGAAAAAAGATCTGATTTTTGTTG
324 TGATTAAAAATCAAATTGTGAA-TTTTCAAACTCCATGAATA-AAAAAA-ATCTGATTTTAGTTG
* *
37947675 GTTGTTAGGCATAATCTTATAAGTAATCATGCTAAATTTGGCATATG
386 GTTGTTAGGCATAATCTTAGAAG-AATCATGCTAAATTTGACATATG
* * * * ** * *
37947722 AAAAATTTGTAAATACCTTTTAATGGTGTTTTGGAAAAAACACACTGAAATAGAATTAAAAACAA
1 AAAAATGTATAAATACCTTGTAATGATGACTTGGAAAAAACACATTGGAATAGAATTAAAAACAA
* * *
37947787 TTTTTTTCTCTTTCATGCATTAGTAGCTATTCAAGTTTACTGCCATTTTCTCCCATTTCCTTATT
66 TTCTTTTCTCTTTCATGCATCAGTAGCTATTCAAGTTTACTGCCATTTTCTTCCATTTCCTTATT
* * * *
37947852 TTTGGTTCAATTGTTTTTTAAGTCCTTTCTCCTTTTCCTTTTTCACTTATCACCAGTACATTTAA
131 TTTGGTTCAATTGCTTTTTAAGTCC-TTCT-C-TTTCC-TTTTCACTTATCACCATTACGTTCAA
* *
37947917 ATCCACTTTTAAACCACAATCGAGTATAATTAATTTCATGCTCAACTAAACCTCATTTAGCCAAG
192 ATCCACTTTTAAACC-CAATCGAGTATGATTAATTTCATGCTCAACTAAACCCCATTTAGCCAAG
* *
37947982 CAAGTTGGGCTAAATTGGAACGGGAAGCAATAAAAGGGGCAAAATTGAAAAGTTGCAGAATTAGT
256 CAAATTGGGCTAAATTGGAACGGGAAGCAATAAAAAGGGCAAAATTGAAAAGTTGCAGAATTAGT
**
37948047 GGTTGATTAAAAATCAAATTGTGAATTTGTCAAACTCTGTGAATAAAAAAAATCTGATTTTAGTT
321 GGTTGATTAAAAATCAAATTGTGAATTT-TCAAACTCCATGAATAAAAAAAATCTGATTTTAGTT
* *
37948112 GGTTTTTAGGCATATAATCTTAGGAAGAATCATGCTAAATTTGACATATT
385 GGTTGTTAGGC--ATAATCTTA-GAAGAATCATGCTAAATTTGACATATG
*
37948162 AAAAGTGTATAAATAC
1 AAAAATGTATAAATAC
37948178 TGTCGAAACC
Statistics
Matches: 772, Mismatches: 92, Indels: 40
0.85 0.10 0.04
Matches are distributed among these distances:
429 46 0.06
430 8 0.01
431 58 0.08
432 247 0.32
433 151 0.20
434 7 0.01
435 1 0.00
436 1 0.00
438 23 0.03
439 14 0.02
440 213 0.28
441 3 0.00
ACGTcount: A:0.34, C:0.15, G:0.15, T:0.36
Consensus pattern (431 bp):
AAAAATGTATAAATACCTTGTAATGATGACTTGGAAAAAACACATTGGAATAGAATTAAAAACAA
TTCTTTTCTCTTTCATGCATCAGTAGCTATTCAAGTTTACTGCCATTTTCTTCCATTTCCTTATT
TTTGGTTCAATTGCTTTTTAAGTCCTTCTCTTTCCTTTTCACTTATCACCATTACGTTCAAATCC
ACTTTTAAACCCAATCGAGTATGATTAATTTCATGCTCAACTAAACCCCATTTAGCCAAGCAAAT
TGGGCTAAATTGGAACGGGAAGCAATAAAAAGGGCAAAATTGAAAAGTTGCAGAATTAGTGGTTG
ATTAAAAATCAAATTGTGAATTTTCAAACTCCATGAATAAAAAAAATCTGATTTTAGTTGGTTGT
TAGGCATAATCTTAGAAGAATCATGCTAAATTTGACATATG
Found at i:37950836 original size:27 final size:27
Alignment explanation
Indices: 37950788--37950941 Score: 112
Period size: 27 Copynumber: 5.9 Consensus size: 27
37950778 GCGAGGCTGC
* *
37950788 CAGATATTGTGAC-GAAGTCACCAGATA
1 CAGATATTGTGGCAG-AGCCACCAGATA
*
37950815 CAGATATTGTGGCAGAGCCACCA-AAA
1 CAGATATTGTGGCAGAGCCACCAGATA
*
37950841 CAAATATATGTGGCAGAGCCACCAGAT-
1 CAGATAT-TGTGGCAGAGCCACCAGATA
* * *
37950868 CAGATAATTGTGGCATAG-----TG-GA
1 CAGAT-ATTGTGGCAGAGCCACCAGATA
*
37950890 CAGATATATGTGACAGAGCCACCAGAT-
1 CAGATAT-TGTGGCAGAGCCACCAGATA
*
37950917 CAGATAATTGTGGCATAGCCACCAG
1 CAGAT-ATTGTGGCAGAGCCACCAG
37950942 GACGCTTCCT
Statistics
Matches: 99, Mismatches: 15, Indels: 26
0.71 0.11 0.19
Matches are distributed among these distances:
21 2 0.02
22 14 0.14
26 8 0.08
27 69 0.70
28 6 0.06
ACGTcount: A:0.36, C:0.20, G:0.24, T:0.20
Consensus pattern (27 bp):
CAGATATTGTGGCAGAGCCACCAGATA
Found at i:37951347 original size:8 final size:8
Alignment explanation
Indices: 37951331--37951360 Score: 51
Period size: 8 Copynumber: 3.8 Consensus size: 8
37951321 CTCAAAATAC
37951331 CGGCTTTT
1 CGGCTTTT
*
37951339 CGGCATTT
1 CGGCTTTT
37951347 CGGCTTTT
1 CGGCTTTT
37951355 CGGCTT
1 CGGCTT
37951361 GTGCCAATCT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
8 20 1.00
ACGTcount: A:0.03, C:0.27, G:0.27, T:0.43
Consensus pattern (8 bp):
CGGCTTTT
Found at i:37952569 original size:26 final size:26
Alignment explanation
Indices: 37952540--37952647 Score: 171
Period size: 26 Copynumber: 4.2 Consensus size: 26
37952530 TGAAATGCCC
*
37952540 ATCATGGAACATTTACCTAAATCATT
1 ATCATGGAACATTTACCTAAACCATT
*
37952566 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAAACCATT
* *
37952592 ATCATGGAATATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAAACCATT
*
37952618 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAAACCATT
37952644 ATCA
1 ATCA
37952648 ATTTGTACCA
Statistics
Matches: 76, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 76 1.00
ACGTcount: A:0.36, C:0.23, G:0.07, T:0.33
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAAACCATT
Found at i:37952618 original size:52 final size:52
Alignment explanation
Indices: 37952540--37952647 Score: 191
Period size: 52 Copynumber: 2.1 Consensus size: 52
37952530 TGAAATGCCC
37952540 ATCATGGAACATTTACCTAAATCATTATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAAATCATTATCATGGAACATTTACCTAACCCATT
*
37952592 ATCATGGAATATTTACCT-AATCCATTATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAAAT-CATTATCATGGAACATTTACCTAACCCATT
37952644 ATCA
1 ATCA
37952648 ATTTGTACCA
Statistics
Matches: 54, Mismatches: 1, Indels: 2
0.95 0.02 0.04
Matches are distributed among these distances:
51 3 0.06
52 51 0.94
ACGTcount: A:0.36, C:0.23, G:0.07, T:0.33
Consensus pattern (52 bp):
ATCATGGAACATTTACCTAAATCATTATCATGGAACATTTACCTAACCCATT
Found at i:37955016 original size:94 final size:94
Alignment explanation
Indices: 37954783--37955035 Score: 240
Period size: 94 Copynumber: 2.7 Consensus size: 94
37954773 AGTATCACAT
* * * * * * * *
37954783 CTTCATCTTGCTCAATTGCAACTTTAAGGAGATAAGATTTGTTGTTGTAATTTCATTCTAACCCA
1 CTTCATCTTGCTCCACTGCAACTTTAGGGAGAAAAGATTTGCTATTATAATTTCATTCCAACCCA
* * *
37954848 CTGAAACTTCAGTGGTATAGGATTTGTAG
66 CTGAAACTTAAGTGGCATAGGACTTGTAG
* * * * ** * ** *
37954877 CTTTATCTTACTCCACTACAACTTCAGGGA-AATAAGATTCACTATTATAGTTTTGTTCCAACCT
1 CTTCATCTTGCTCCACTGCAACTTTAGGGAGAA-AAGATTTGCTATTATAATTTCATTCCAACCC
* *
37954941 ACTGCAACTTTAAG-GGCATATGACTTGTAG
65 ACTGAAAC-TTAAGTGGCATAGGACTTGTAG
* **
37954971 CTTCATCTTGCTCCACTGCAACTTTAGGGAGAAAAGATTTGCTATTGTAGCTTCATTCCAACCCA
1 CTTCATCTTGCTCCACTGCAACTTTAGGGAGAAAAGATTTGCTATTATAATTTCATTCCAACCCA
37955036 GTGCTGTAAC
Statistics
Matches: 122, Mismatches: 34, Indels: 6
0.75 0.21 0.04
Matches are distributed among these distances:
93 1 0.01
94 115 0.94
95 6 0.05
ACGTcount: A:0.28, C:0.21, G:0.16, T:0.36
Consensus pattern (94 bp):
CTTCATCTTGCTCCACTGCAACTTTAGGGAGAAAAGATTTGCTATTATAATTTCATTCCAACCCA
CTGAAACTTAAGTGGCATAGGACTTGTAG
Found at i:37956223 original size:40 final size:42
Alignment explanation
Indices: 37956158--37956336 Score: 167
Period size: 41 Copynumber: 4.4 Consensus size: 42
37956148 ACTAAGATTG
** *
37956158 GCACTTAGTGTGCGTTTC-GAGATAGCTTTGGCTAT-ATAGA
1 GCACTTAGTGTGCGAGTCAGAGATAGCTTCGGCTATGATAGA
37956198 GCACTTAGTGTGCGAGTCAGA-ATAGCTTCGGCTAT-ATACG-
1 GCACTTAGTGTGCGAGTCAGAGATAGCTTCGGCTATGATA-GA
* * * *
37956238 GCGCTTAGTGTGTGAGGT-TGAGATAGCTTCGGCTATGA-AAA
1 GCACTTAGTGTGCGA-GTCAGAGATAGCTTCGGCTATGATAGA
* * * **
37956279 GCACTTAGTGTGCGAGATTATA-ATAGCTTCGGCTATGCTTTA
1 GCACTTAGTGTGCGAG-TCAGAGATAGCTTCGGCTATGATAGA
37956321 GCACTTAGTGTGCGAG
1 GCACTTAGTGTGCGAG
37956337 ATATCGAGTA
Statistics
Matches: 116, Mismatches: 14, Indels: 16
0.79 0.10 0.11
Matches are distributed among these distances:
40 48 0.41
41 49 0.42
42 19 0.16
ACGTcount: A:0.23, C:0.16, G:0.29, T:0.31
Consensus pattern (42 bp):
GCACTTAGTGTGCGAGTCAGAGATAGCTTCGGCTATGATAGA
Found at i:37956332 original size:81 final size:80
Alignment explanation
Indices: 37956158--37956332 Score: 192
Period size: 81 Copynumber: 2.1 Consensus size: 80
37956148 ACTAAGATTG
* * * *
37956158 GCACTTAGTGTGCGTTTCGAGATAGCTTTGGCTATATAGAGCACTTAGTGTGCGAGTCAGAATAG
1 GCACTTAGTGTGAGGTTCGAGATAGCTTCGGCTATATAAAGCACTTAGTGTGCGAGTCAGAATAG
*
37956223 CTTCGGCTATATACG
66 CTTCGGCTATATACA
* * *
37956238 GCGCTTAGTGTGTGAGGTT-GAGATAGCTTCGGCTATGA-AAAGCACTTAGTGTGCGAGATTATA
1 GCACTTA--GTGTGAGGTTCGAGATAGCTTCGGCTAT-ATAAAGCACTTAGTGTGCGAG-TCAGA
* **
37956301 ATAGCTTCGGCTATGCTTTA
62 ATAGCTTCGGCTAT-ATACA
37956321 GCACTTAGTGTG
1 GCACTTAGTGTG
37956333 CGAGATATCG
Statistics
Matches: 78, Mismatches: 12, Indels: 9
0.79 0.12 0.09
Matches are distributed among these distances:
80 6 0.08
81 39 0.50
82 26 0.33
83 7 0.09
ACGTcount: A:0.23, C:0.16, G:0.29, T:0.32
Consensus pattern (80 bp):
GCACTTAGTGTGAGGTTCGAGATAGCTTCGGCTATATAAAGCACTTAGTGTGCGAGTCAGAATAG
CTTCGGCTATATACA
Found at i:37959747 original size:16 final size:16
Alignment explanation
Indices: 37959726--37959780 Score: 83
Period size: 16 Copynumber: 3.4 Consensus size: 16
37959716 GTTTGGTTCA
*
37959726 CTGTAATGGAATAGGG
1 CTGTAATGGAATAGAG
*
37959742 CTGTAATTGAATAGAG
1 CTGTAATGGAATAGAG
37959758 CTGTAATGGAATAGAG
1 CTGTAATGGAATAGAG
*
37959774 CTATAAT
1 CTGTAAT
37959781 AAGTAATTCA
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 35 1.00
ACGTcount: A:0.36, C:0.07, G:0.27, T:0.29
Consensus pattern (16 bp):
CTGTAATGGAATAGAG
Found at i:37960101 original size:54 final size:53
Alignment explanation
Indices: 37959959--37960102 Score: 121
Period size: 54 Copynumber: 2.6 Consensus size: 53
37959949 TTTTAATAAG
* * *
37959959 ATTATTATTGAAAATAATTTAATAAAAATAATAAATAGTTTAACCACATTTTAACATA
1 ATTATTATT-AATATAA-TT-A-AAAAATAA-AAATAATTTAACAACATTTTAACATA
* * * *
37960017 ATTATTATTAAATATAATTTAATAA-AAAAATAATTTAATAACATTCTTAATATA
1 ATTATTATT-AATATAATTAAAAAATAAAAATAATTTAACAACATT-TTAACATA
* *
37960071 ATTATTGTT-ATATGGATTAAAAAATAAAAATA
1 ATTATTATTAATAT-AATTAAAAAATAAAAATA
37960103 TATAATACTA
Statistics
Matches: 71, Mismatches: 12, Indels: 10
0.76 0.13 0.11
Matches are distributed among these distances:
52 4 0.06
53 22 0.31
54 24 0.34
55 4 0.06
57 2 0.03
58 15 0.21
ACGTcount: A:0.53, C:0.04, G:0.03, T:0.40
Consensus pattern (53 bp):
ATTATTATTAATATAATTAAAAAATAAAAATAATTTAACAACATTTTAACATA
Found at i:37964756 original size:23 final size:23
Alignment explanation
Indices: 37964726--37964770 Score: 90
Period size: 23 Copynumber: 2.0 Consensus size: 23
37964716 AGTGTTGGAC
37964726 AAATATGTTAAATAGACCTACAT
1 AAATATGTTAAATAGACCTACAT
37964749 AAATATGTTAAATAGACCTACA
1 AAATATGTTAAATAGACCTACA
37964771 CTACTCGGAC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.49, C:0.13, G:0.09, T:0.29
Consensus pattern (23 bp):
AAATATGTTAAATAGACCTACAT
Found at i:37965459 original size:37 final size:37
Alignment explanation
Indices: 37965387--37965456 Score: 124
Period size: 37 Copynumber: 1.9 Consensus size: 37
37965377 TAATTACCAC
37965387 AAAAATATCCCTAAACCAAATCAAACTCTAGAAACCT
1 AAAAATATCCCTAAACCAAATCAAACTCTAGAAACCT
*
37965424 AAAAATATCCCTAAGCCAAATCAAACT-TAGAAA
1 AAAAATATCCCTAAACCAAATCAAACTCTAGAAA
37965457 ACCAGCAAAA
Statistics
Matches: 32, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
36 6 0.19
37 26 0.81
ACGTcount: A:0.53, C:0.24, G:0.04, T:0.19
Consensus pattern (37 bp):
AAAAATATCCCTAAACCAAATCAAACTCTAGAAACCT
Found at i:37966200 original size:13 final size:13
Alignment explanation
Indices: 37966182--37966206 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
37966172 TGTGGATTTG
37966182 GGTTTTAAAGAAT
1 GGTTTTAAAGAAT
37966195 GGTTTTAAAGAA
1 GGTTTTAAAGAA
37966207 ATTATTTATG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.40, C:0.00, G:0.24, T:0.36
Consensus pattern (13 bp):
GGTTTTAAAGAAT
Found at i:37967719 original size:20 final size:20
Alignment explanation
Indices: 37967681--37967728 Score: 62
Period size: 20 Copynumber: 2.5 Consensus size: 20
37967671 TAAATTCTAA
* **
37967681 AAAGATAAATACATTTAATT
1 AAAGATAAATAAAGATAATT
37967701 AAAGATAAATAAAGATAATT
1 AAAGATAAATAAAGATAATT
37967721 AAA-ATAAA
1 AAAGATAAA
37967729 ATTCTAAAAT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
19 5 0.20
20 20 0.80
ACGTcount: A:0.65, C:0.02, G:0.06, T:0.27
Consensus pattern (20 bp):
AAAGATAAATAAAGATAATT
Found at i:37967772 original size:15 final size:15
Alignment explanation
Indices: 37967752--37967781 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
37967742 ATAATCCTAA
*
37967752 TAATTATCTTAATAT
1 TAATTATCCTAATAT
37967767 TAATTATCCTAATAT
1 TAATTATCCTAATAT
37967782 AAATAAAATG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.40, C:0.10, G:0.00, T:0.50
Consensus pattern (15 bp):
TAATTATCCTAATAT
Found at i:37973594 original size:18 final size:17
Alignment explanation
Indices: 37973566--37973601 Score: 54
Period size: 18 Copynumber: 2.1 Consensus size: 17
37973556 TCTGGGCCAT
37973566 GTGGGCCACACGAGCAG
1 GTGGGCCACACGAGCAG
*
37973583 GTGGGTCCACACGGGCAG
1 GTGGG-CCACACGAGCAG
37973601 G
1 G
37973602 CCACATGGGT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 5 0.29
18 12 0.71
ACGTcount: A:0.19, C:0.28, G:0.44, T:0.08
Consensus pattern (17 bp):
GTGGGCCACACGAGCAG
Found at i:37974879 original size:94 final size:94
Alignment explanation
Indices: 37974769--37975377 Score: 688
Period size: 94 Copynumber: 6.5 Consensus size: 94
37974759 AACTTTAGGA
* **
37974769 AGATAAGATTCGCTATTGTAGCTTCATTCCAACCTACTGCAACTTTAGATGTATAGGATTTGTAG
1 AGATAAGATTCGCTATTGTAGCTTCATTCCAACCCACTGCAACTTTAGGGGTATAGGATTTGTAG
37974834 CTTCATCTTGCTCCACTGCAACTTCAAGG
66 CTTCATCTTGCTCCACTGCAACTTCAAGG
** * * * *
37974863 TCATAAAATGT-GCTATTGTAGCTTCATTCCAACCCACTACAACTTTAGGGTTGTAGGATTTGTA
1 AGATAAGAT-TCGCTATTGTAGCTTCATTCCAACCCACTGCAACTTTAGGGGTATAGGATTTGTA
* * * * * *
37974927 GCTTTATCTTTCTCTACTACAACTT-TAGCA
65 GCTTCATCTTGCTCCACTGCAACTTCAAG-G
* * * *
37974957 AGATAAGATTTGCTATTGTAGCTTTATTCCAACCCATTGCAACTTCAGGGGTATAGGATTTGTAG
1 AGATAAGATTCGCTATTGTAGCTTCATTCCAACCCACTGCAACTTTAGGGGTATAGGATTTGTAG
* * * *
37975022 CTTCATCTTACTTCATTGCAACTTCAAGA
66 CTTCATCTTGCTCCACTGCAACTTCAAGG
* * * * * *
37975051 AGATAAGATTTGCTATGGTAGCTTCATTCCAATCCATTGTAACTTCAGGGGTATAGGATTTGTAG
1 AGATAAGATTCGCTATTGTAGCTTCATTCCAACCCACTGCAACTTTAGGGGTATAGGATTTGTAG
**
37975116 CTTCATCTTGCTCCACTATAACTTC-AGTG
66 CTTCATCTTGCTCCACTGCAACTTCAAG-G
* * * * * * * *
37975145 AGATAAGAGTCGCTATAGTAGTTTCATTCCAACCCACTACAACTTCAAGAGTATTGGATTTGTAG
1 AGATAAGATTCGCTATTGTAGCTTCATTCCAACCCACTGCAACTTTAGGGGTATAGGATTTGTAG
37975210 CTTCATCTTGCTCCACTGCAACTTC-AGG
66 CTTCATCTTGCTCCACTGCAACTTCAAGG
* * * *
37975238 ATGATAAGATTCGTTA-TGATAACTTCATTCCAACCCACTGTAACTTTAGGGGTATAGGATTTAT
1 A-GATAAGATTCGCTATTG-TAGCTTCATTCCAACCCACTGCAACTTTAGGGGTATAGGATTTGT
* * * *
37975302 AGCTTCACCTTGTTTCACTGCAACTTCAGGG
64 AGCTTCATCTTGCTCCACTGCAACTTCAAGG
* * *
37975333 AGATAAGATTCGCCATTGTAGCTTTATTCCAACCCACTACAACTT
1 AGATAAGATTCGCTATTGTAGCTTCATTCCAACCCACTGCAACTT
37975378 CAGGTGGACT
Statistics
Matches: 430, Mismatches: 76, Indels: 18
0.82 0.15 0.03
Matches are distributed among these distances:
93 8 0.02
94 414 0.96
95 8 0.02
ACGTcount: A:0.27, C:0.21, G:0.17, T:0.35
Consensus pattern (94 bp):
AGATAAGATTCGCTATTGTAGCTTCATTCCAACCCACTGCAACTTTAGGGGTATAGGATTTGTAG
CTTCATCTTGCTCCACTGCAACTTCAAGG
Found at i:37975017 original size:50 final size:50
Alignment explanation
Indices: 37974963--37975112 Score: 136
Period size: 50 Copynumber: 3.1 Consensus size: 50
37974953 AGCAAGATAA
*
37974963 GATTTGCTATTGTAGCTTTATTCCAACCCATTGCAACTTCAGGGGTATAG
1 GATTTGCTATTGTAGCTTCATTCCAACCCATTGCAACTTCAGGGGTATAG
** * ** *
37975013 GA-----T-TTGTAGCTTCA-TCTTACTTCATTGCAACTTCAAGAAG-ATAA
1 GATTTGCTATTGTAGCTTCATTCCAAC-CCATTGCAACTTC-AGGGGTATAG
* * *
37975057 GATTTGCTATGGTAGCTTCATTCCAATCCATTGTAACTTCAGGGGTATAG
1 GATTTGCTATTGTAGCTTCATTCCAACCCATTGCAACTTCAGGGGTATAG
37975107 GATTTG
1 GATTTG
37975113 TAGCTTCATC
Statistics
Matches: 74, Mismatches: 16, Indels: 20
0.67 0.15 0.18
Matches are distributed among these distances:
43 4 0.05
44 27 0.36
45 4 0.05
49 4 0.05
50 32 0.43
51 3 0.04
ACGTcount: A:0.26, C:0.18, G:0.19, T:0.37
Consensus pattern (50 bp):
GATTTGCTATTGTAGCTTCATTCCAACCCATTGCAACTTCAGGGGTATAG
Found at i:37975044 original size:188 final size:187
Alignment explanation
Indices: 37974741--37975381 Score: 763
Period size: 188 Copynumber: 3.4 Consensus size: 187
37974731 AATTTAAAGT
* * * * *
37974741 TTCATGTTTTTCTACTACAACTTTAGGAAGATAAGATTCGCTATTGTAGCTTCATTCCAACCTAC
1 TTCATCTTTCTCTACTACAACTTCAGGAAGATAAGATTCGCTATTGTAGCTTTATTCCAACCCAC
* * * *
37974806 TGCAACTTTA-GATGTATAGGATTTGTAGCTTCATCTTGCTCCACTGCAACTTCAAGGTCATAAA
66 TACAACTTCAGGA-GTATAGGATTTGTAGCTTCATCTTGCTCCACTGCAACTTCAAGGTGATAAG
** * *
37974870 ATGTGCTATTGTAGCTTCATTCCAACCCACTACAACTTTAGGGTTGTAGGATTTGTAGC
130 AT-TGCTATTGTAGCTTCATTCCAACCCACTGTAACTTTAGGGGTATAGGATTTGTAGC
* * * * *
37974929 TTTATCTTTCTCTACTACAACTTTAGCAAGATAAGATTTGCTATTGTAGCTTTATTCCAACCCAT
1 TTCATCTTTCTCTACTACAACTTCAGGAAGATAAGATTCGCTATTGTAGCTTTATTCCAACCCAC
* * * * * **
37974994 TGCAACTTCAGGGGTATAGGATTTGTAGCTTCATCTTACTTCATTGCAACTTCAAGAAGATAAGA
66 TACAACTTCAGGAGTATAGGATTTGTAGCTTCATCTTGCTCCACTGCAACTTCAAGGTGATAAGA
* * * *
37975059 TTTGCTATGGTAGCTTCATTCCAATCCATTGTAACTTCAGGGGTATAGGATTTGTAGC
131 -TTGCTATTGTAGCTTCATTCCAACCCACTGTAACTTTAGGGGTATAGGATTTGTAGC
* * * * *
37975117 TTCATCTTGCTCCACTATAACTTCAGTG-AGATAAGAGTCGCTATAGTAG-TTTCATTCCAACCC
1 TTCATCTTTCTCTACTACAACTTCAG-GAAGATAAGATTCGCTATTGTAGCTTT-ATTCCAACCC
* *
37975180 ACTACAACTTCAAGAGTATTGGATTTGTAGCTTCATCTTGCTCCACTGCAACTTC-AGGATGATA
64 ACTACAACTTCAGGAGTATAGGATTTGTAGCTTCATCTTGCTCCACTGCAACTTCAAGG-TGATA
* * *
37975244 AGATTCGTTA-TGATAACTTCATTCCAACCCACTGTAACTTTAGGGGTATAGGATTTATAGC
128 AGATT-GCTATTG-TAGCTTCATTCCAACCCACTGTAACTTTAGGGGTATAGGATTTGTAGC
* * * * *
37975305 TTCACCTTGTTTC-ACTGCAACTTCAGGGAGATAAGATTCGCCATTGTAGCTTTATTCCAACCCA
1 TTCATCTT-TCTCTACTACAACTTCAGGAAGATAAGATTCGCTATTGTAGCTTTATTCCAACCCA
37975369 CTACAACTTCAGG
65 CTACAACTTCAGG
37975382 TGGACTAGAA
Statistics
Matches: 383, Mismatches: 60, Indels: 20
0.83 0.13 0.04
Matches are distributed among these distances:
187 9 0.02
188 367 0.96
189 7 0.02
ACGTcount: A:0.27, C:0.21, G:0.17, T:0.35
Consensus pattern (187 bp):
TTCATCTTTCTCTACTACAACTTCAGGAAGATAAGATTCGCTATTGTAGCTTTATTCCAACCCAC
TACAACTTCAGGAGTATAGGATTTGTAGCTTCATCTTGCTCCACTGCAACTTCAAGGTGATAAGA
TTGCTATTGTAGCTTCATTCCAACCCACTGTAACTTTAGGGGTATAGGATTTGTAGC
Found at i:37975381 original size:282 final size:282
Alignment explanation
Indices: 37974749--37975381 Score: 781
Period size: 282 Copynumber: 2.2 Consensus size: 282
37974739 GTTTCATGTT
* * *
37974749 TTTCTACTACAACTTTAGGAAGATAAGATTCGCTATTGTAGCTTCATTCCAACCTACTGCAACTT
1 TTTC-ACTGCAACTTCAGGAAGATAAGATTCGCTATTGTAGCTTCATTCCAACCCACTGCAACTT
* ** * *
37974814 TAGATGTATAGGATTTGTAGCTTCATCTTGCTCCACTGCAACTTCAAGGTCATAAAATGTGCTAT
65 CAGGGGTATAGGATTTGTAGCTTCATCTTGCTCCACTACAACTTCAAGGACATAAAATGTGCTAT
* * * * * *
37974879 TGTAGCTTCATTCCAACCCACTACAACTTTAGGGTTGTAGGATTTGTAGCTTTATCTTTCTCTAC
130 AGTAGCTTCATTCCAACCCACTACAACTTAAGAGTTGTAGGATTTGTAGCTTCATCTTGCTCCAC
* * * * *
37974944 TACAACTTTAGCAAGATAAGATTTGCTATTGTAGCTTTATTCCAACCCATTGCAACTTCAGGGGT
195 TACAACTTCAGCAAGATAAGATTCGCTATTGTAACTTCATTCCAACCCACTGCAACTTCAGGGGT
* *
37975009 ATAGGATTTGTAGCTTCATCTTA
260 ATAGGATTTATAGCTTCACCTTA
* * * * * * * *
37975032 CTTCATTGCAACTTCAAGAAGATAAGATTTGCTATGGTAGCTTCATTCCAATCCATTGTAACTTC
1 TTTCACTGCAACTTCAGGAAGATAAGATTCGCTATTGTAGCTTCATTCCAACCCACTGCAACTTC
* * *
37975097 AGGGGTATAGGATTTGTAGCTTCATCTTGCTCCACTATAACTTC-AGTGAGATAAGA-GTCGCTA
66 AGGGGTATAGGATTTGTAGCTTCATCTTGCTCCACTACAACTTCAAG-GACATAAAATGT-GCTA
*
37975160 TAGTAGTTTCATTCCAACCCACTACAACTTCAAGAGTAT-T-GGATTTGTAGCTTCATCTTGCTC
129 TAGTAGCTTCATTCCAACCCACTACAACTT-AAGAGT-TGTAGGATTTGTAGCTTCATCTTGCTC
* * * * * *
37975223 CACTGCAACTTCAGGATGATAAGATTCGTTA-TGATAACTTCATTCCAACCCACTGTAACTTTAG
192 CACTACAACTTCAGCAAGATAAGATTCGCTATTG-TAACTTCATTCCAACCCACTGCAACTTCAG
*
37975287 GGGTATAGGATTTATAGCTTCACCTTG
256 GGGTATAGGATTTATAGCTTCACCTTA
* * * *
37975314 TTTCACTGCAACTTCAGGGAGATAAGATTCGCCATTGTAGCTTTATTCCAACCCACTACAACTTC
1 TTTCACTGCAACTTCAGGAAGATAAGATTCGCTATTGTAGCTTCATTCCAACCCACTGCAACTTC
37975379 AGG
66 AGG
37975382 TGGACTAGAA
Statistics
Matches: 293, Mismatches: 52, Indels: 11
0.82 0.15 0.03
Matches are distributed among these distances:
281 6 0.02
282 278 0.95
283 8 0.03
284 1 0.00
ACGTcount: A:0.27, C:0.21, G:0.17, T:0.35
Consensus pattern (282 bp):
TTTCACTGCAACTTCAGGAAGATAAGATTCGCTATTGTAGCTTCATTCCAACCCACTGCAACTTC
AGGGGTATAGGATTTGTAGCTTCATCTTGCTCCACTACAACTTCAAGGACATAAAATGTGCTATA
GTAGCTTCATTCCAACCCACTACAACTTAAGAGTTGTAGGATTTGTAGCTTCATCTTGCTCCACT
ACAACTTCAGCAAGATAAGATTCGCTATTGTAACTTCATTCCAACCCACTGCAACTTCAGGGGTA
TAGGATTTATAGCTTCACCTTA
Found at i:37978286 original size:14 final size:14
Alignment explanation
Indices: 37978247--37978290 Score: 54
Period size: 14 Copynumber: 3.2 Consensus size: 14
37978237 TACTGTATTT
*
37978247 AATGAAAATAAAAA
1 AATGAAAATATAAA
*
37978261 AAT-AAAAAATAAA
1 AATGAAAATATAAA
*
37978274 AATGAAAGTATAAA
1 AATGAAAATATAAA
37978288 AAT
1 AAT
37978291 AATAAAAAAT
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
13 11 0.44
14 14 0.56
ACGTcount: A:0.75, C:0.00, G:0.07, T:0.18
Consensus pattern (14 bp):
AATGAAAATATAAA
Found at i:37978297 original size:30 final size:28
Alignment explanation
Indices: 37978247--37978311 Score: 87
Period size: 30 Copynumber: 2.3 Consensus size: 28
37978237 TACTGTATTT
37978247 AATGAAA-ATAAAAAAATAAAAAATAAA
1 AATGAAAGATAAAAAAATAAAAAATAAA
*
37978274 AATGAAAGTATAAAAATAATAAAAAATATA
1 AATGAAAG-ATAAAAA-AATAAAAAATAAA
*
37978304 AATTAAAG
1 AATGAAAG
37978312 GCGGAAAATG
Statistics
Matches: 33, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
27 7 0.21
29 7 0.21
30 19 0.58
ACGTcount: A:0.74, C:0.00, G:0.06, T:0.20
Consensus pattern (28 bp):
AATGAAAGATAAAAAAATAAAAAATAAA
Found at i:37978956 original size:11 final size:11
Alignment explanation
Indices: 37978940--37978964 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
37978930 TCACAGGCCG
37978940 TCGCAGCTCCA
1 TCGCAGCTCCA
37978951 TCGCAGCTCCA
1 TCGCAGCTCCA
37978962 TCG
1 TCG
37978965 TAGCCACCGA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.16, C:0.44, G:0.20, T:0.20
Consensus pattern (11 bp):
TCGCAGCTCCA
Found at i:37980851 original size:435 final size:431
Alignment explanation
Indices: 37979793--37980896 Score: 1385
Period size: 432 Copynumber: 2.5 Consensus size: 431
37979783 GGCCTATTAC
* * * * *
37979793 AAATACCTTGTAATGGTGGCTTGGAAAAAACCACACTATAATAAAATTAAAAACCATTGTTTTAT
1 AAATACCTTGT-ATGGTGGCTTTGAAAAAA-CACACTATAATAGAATTAAAAACAATTCTTTTCT
* ** * * *
37979858 CTTTCACGCATCTGTAGCTATTCAAGTTTAAAGCTAATTTTTTTTCATTTCCTTATTTTTTGTTC
64 CTTTCACGCATCAGTAGCTATTCAAGTTTACTGC-CATTTTTTTCCATTTCCTTATTTTTGGTTC
* *** ** * *
37979923 AATTGCTTTTTAAGTCCTTTCTCCTTTTCACTTATCATTGTTACAATCAAATCCACTATTAAATC
128 AATT-CTTTTTAAGTCCTTTCTCCTTTTCACCTATCACAATTACGTTCAAATCCACTTTTAAACC
* * *
37979988 TCAATCGAGTATGATTAAATTCATGCTCAACTAAACCCCATTTAACCAAGCAAATTGGGCTAAAT
192 CCAATCGAGTATGATTAATTTCATTCTCAACTAAACCCCATTTAACCAAGCAAATTGGGCTAAAT
* ** * ** * *
37980053 TGGAACGGGAAGTAATAAAATGGGCCAAATTGAAAAGTTACAGAATTATCGGCTAATTAAAAATC
257 TAGAACAAGAAGCAATAAAAAAGGCCAAATTGAAAAGTTACAGAATTATCGACTAATAAAAAATC
* * * ** * *
37980118 AAATTGTGAATTTTTCAAACTTTATAAATAAATAAAAATTCTTATTTTAGTTGGTTGTTAGGAAT
322 AAATTGTGAATTTGTCAAACTCTATAAATAAAAAAAAAAACTGATTTTAGTTGGTTGTTAAGAAT
* *
37980183 AATCTTAGGAGGAATAATACTAAATTTGGTATATGAAAAGAGTAT
387 AATCTAAGGAGGAATAATACTAAATTTGGCATATGAAAAGAGTAT
** *
37980228 AAATACCTTGTATGGTGGCTTTGAAAAAACACACTGGAATAG-ATTAAAAAGAATTCTTTTCTCT
1 AAATACCTTGTATGGTGGCTTTGAAAAAACACACTATAATAGAATTAAAAACAATTCTTTTCTCT
* *
37980292 TTCACGCATTAGTAGCTACTCAAGTTTACTGCCATTTTCTTTCCATTTCCTTATTTTTGGTTCAA
66 TTCACGCATCAGTAGCTATTCAAGTTTACTGCCATTTT-TTTCCATTTCCTTATTTTTGGTTCAA
** * * * *
37980357 TT-TCTGCTAAATCTTTTATCCTTTTCACCTATCACAATTACGTTGAAATCCACTTTTAAACCCC
130 TTCT-TTTTAAGTCCTTTCTCCTTTTCACCTATCACAATTACGTTCAAATCCACTTTTAAACCCC
* * * * *
37980421 AATAGAGTGTGATTAATTTCATTCTTAACTAAACACCATTT-ACCAAGCCAATTGGGCTAAATTA
194 AATCGAGTATGATTAATTTCATTCTCAACTAAACCCCATTTAACCAAGCAAATTGGGCTAAATTA
* *
37980485 GAACAAGAAGCAATAAAAAAAGGCCAAATTGAAAAGTTGCAGAATTAAT-GACTGACTAAAAAAT
259 GAACAAGAAGCAAT-AAAAAAGGCCAAATTGAAAAGTTACAGAATT-ATCGACT-AATAAAAAAT
* ** *
37980549 -AGATTGTGAATTTGTCAAACTCTATGGATAGAAAAAAAAAACTGATTTTAGTTGGTTGTTAAGC
321 CAAATTGTGAATTTGTCAAACTCTATAAATA-AAAAAAAAAACTGATTTTAGTTGGTTGTTAAGA
* * *
37980613 ATAGTCTAAGGAGGAATCATGCTAAATTTGGCATATGAAAAGAGTAT
385 ATAATCTAAGGAGGAATAATACTAAATTTGGCATATGAAAAGAGTAT
* *
37980660 AAATGCCTACCTTGTATGGTGGATTTG-AAAAACACACTATAATAGAATTAATAACAATTCTTTT
1 AAA----TACCTTGTATGGTGGCTTTGAAAAAACACACTATAATAGAATTAAAAACAATTCTTTT
* *
37980724 CTCTTTCACGCATCAGTCGTTATTCAAGTTTACTGCCATTTTTTTCCATTTCCTTATTTTTGGTT
62 CTCTTTCACGCATCAGTAGCTATTCAAGTTTACTGCCATTTTTTTCCATTTCCTTATTTTTGGTT
* *
37980789 CAATTCTTTTTAAGTCCTTTCTCCTTTTCACCTATCACAATTACGTTCAAATCAAATTTTAAACC
127 CAATTCTTTTTAAGTCCTTTCTCCTTTTCACCTATCACAATTACGTTCAAATCCACTTTTAAACC
*
37980854 CCAATCGAGTATGATTAATTTCATGT-TGAACTAAACCCCATTT
192 CCAATCGAGTATGATTAATTTCAT-TCTCAACTAAACCCCATTT
37980897 TGTAACACCC
Statistics
Matches: 571, Mismatches: 85, Indels: 26
0.84 0.12 0.04
Matches are distributed among these distances:
430 33 0.06
431 141 0.25
432 153 0.27
433 10 0.02
434 17 0.03
435 142 0.25
436 75 0.13
ACGTcount: A:0.35, C:0.16, G:0.13, T:0.36
Consensus pattern (431 bp):
AAATACCTTGTATGGTGGCTTTGAAAAAACACACTATAATAGAATTAAAAACAATTCTTTTCTCT
TTCACGCATCAGTAGCTATTCAAGTTTACTGCCATTTTTTTCCATTTCCTTATTTTTGGTTCAAT
TCTTTTTAAGTCCTTTCTCCTTTTCACCTATCACAATTACGTTCAAATCCACTTTTAAACCCCAA
TCGAGTATGATTAATTTCATTCTCAACTAAACCCCATTTAACCAAGCAAATTGGGCTAAATTAGA
ACAAGAAGCAATAAAAAAGGCCAAATTGAAAAGTTACAGAATTATCGACTAATAAAAAATCAAAT
TGTGAATTTGTCAAACTCTATAAATAAAAAAAAAAACTGATTTTAGTTGGTTGTTAAGAATAATC
TAAGGAGGAATAATACTAAATTTGGCATATGAAAAGAGTAT
Found at i:37984429 original size:15 final size:16
Alignment explanation
Indices: 37984390--37984419 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
37984380 ATCCTGGACG
37984390 CTCTCT-TTTCTTTTT
1 CTCTCTGTTTCTTTTT
37984405 CTCTCTGTTTCTTTT
1 CTCTCTGTTTCTTTT
37984420 CTTTTTGTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 6 0.43
16 8 0.57
ACGTcount: A:0.00, C:0.27, G:0.03, T:0.70
Consensus pattern (16 bp):
CTCTCTGTTTCTTTTT
Found at i:37985053 original size:20 final size:21
Alignment explanation
Indices: 37985030--37985068 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
37985020 GTCTGGTGGG
*
37985030 CACACAGC-GTGTGAGACCCT
1 CACACAGCTGTGTCAGACCCT
*
37985050 CACACGGCTGTGTCAGACC
1 CACACAGCTGTGTCAGACC
37985069 TGTACTCTAT
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 7 0.44
21 9 0.56
ACGTcount: A:0.23, C:0.36, G:0.26, T:0.15
Consensus pattern (21 bp):
CACACAGCTGTGTCAGACCCT
Found at i:37987612 original size:424 final size:423
Alignment explanation
Indices: 37986534--37988228 Score: 1646
Period size: 434 Copynumber: 3.9 Consensus size: 423
37986524 GGGCGTTACA
* * *
37986534 AGGCAAAATTGAAAAGTTGCAGAATTAGTGACTGATTAAGAACCAGATTGTGAATTTTTCAAACT
1 AGGC-AAATTGAAAAGTTGCAGAATTAGTGGCTGATTAAAAACCAGATTGTGAATTTGTCAAACT
* *
37986599 CTATTAATAGAAAAAAAATCTGATTTTAGTTGGTTGTTAGGCATAATCTTAGG-AGGAATCATAC
65 CTATGAATAGAAAAAAAAT-TGATTTTAGTTGGTTGTTAGGCATAATCTTAGGAAGGAATCATGC
* * * * * * * *
37986663 TAATTTTTGCATATGAAAAAAAAAAAGAGATAAATACCTTGTAAGGGTGGCTTCGAAAAAGCACG
129 TAAATTTGGCATATG------AAAAATATATAAATACCTTGTAATGGTGGCTTGGAAAAAACACA
* ** * *
37986728 TTGTTAA-AGAATTAAAAACAATTCTTTTCTCTTTCATATATCAGTAGGTATTCAAGTGTACTGT
188 CT-TTAATAGAATTAAAAACAATTCTTTTCTCTTTCATGCATCAGTAGCTATTCAAGTTTACTG-
* * *
37986792 CATTTTTTTTTCCATTTTTCTTATTTTTGGTTCAATTGCTTTTTAAGTCC-TTTCTCCCTTTCAC
251 CA-ATTTTTTTCCA--TTTC---CTTTT-GTTCAATT-CTTTTT-AG-CCTTTTCTCCTTTTCA-
** * * ** * *
37986856 CTATCACCATTATTTTTAAATCCACTTTCCAACCCCAATAGAGTATGATTAGTTTCATGCTCAAC
305 CTATCACCATTATAATCAAATCCAATTTTAAACCACAATAGAGTATGATTAATTTCATGCTCAAC
* *
37986921 TAAACCCAATTTGGCCAAGCAAATTGGGCTAAATTGGAACA-AGAAGTAATAAAAT
370 TAAACCC-ATTTAGCCAAGCAAATTGGGCTAAATTGGAA-AGAGAAGCAATAAAAT
* * *
37986976 AGGCGAAATTG-AAAGTTGGAGAACTAGTGGCTAATTAAAAACCAGATTGTGAATTTGTCAAAC-
1 AGGC-AAATTGAAAAGTTGCAGAATTAGTGGCTGATTAAAAACCAGATTGTGAATTTGTCAAACT
* * *
37987039 CTTATGAATAGAAAGAAAATTTGATTTTAGTTGATTGTTAGACATAATCTTAGGAA-GAATCATG
65 C-TATGAATAGAAA-AAAAATTGATTTTAGTTGGTTGTTAGGCATAATCTTAGGAAGGAATCATG
* * * * **
37987103 CTAAATTTGGCAGATGAAAAATATATAAATACCCTGTAATGGTGACTTGGAAAAAACAAACTGGA
128 CTAAATTTGGCATATGAAAAATATATAAATACCTTGTAATGGTGGCTTGGAAAAAACACACTTTA
* *
37987168 ATAGAATTAAAAATAATTCTTTTCTCTTTCATGCATCAGTAGCTATTCAAGTTTGCTAGCAATTT
193 ATAGAATTAAAAACAATTCTTTTCTCTTTCATGCATCAGTAGCTATTCAAGTTTACT-GCAATTT
* * * *
37987233 TTTTCCATTTGC-TTT-TT-AAGTCTATTT-GCCTTTTCTCCTTTTCACTTATCACCATTACAAT
257 TTTTCCATTTCCTTTTGTTCAATTCTTTTTAGCCTTTTCTCCTTTTCAC-TATCACCATTATAAT
* * *
37987294 CAAATCCAATTTTAAACCTCAATCGAGTATGATCAATTTCATGCTCAACTAAAACCCATTTAGCC
321 CAAATCCAATTTTAAACCACAATAGAGTATGATTAATTTCATGCTCAACT-AAACCCATTTAGCC
* *
37987359 AAGCAAATTGGGCTAAATTGGAAAGGGAAACAATAAAAT
385 AAGCAAATTGGGCTAAATTGGAAAGAGAAGCAATAAAAT
* * * * * * ** *
37987398 TGGTCAAATTGAAAAGTTGCAGAATTAGTGGCTGATAAAAAATCATAATATGGTTTTGTCAAGCT
1 AGG-CAAATTGAAAAGTTGCAGAATTAGTGGCTGATTAAAAACCAGATTGTGAATTTGTCAAACT
* * * * *
37987463 CTATGAATATAAAAAAAAATCTTATTTTAGTTGGTTGTTAGGCATAATCGTATG-AGTAATCATG
65 CTATGAATA-GAAAAAAAAT-TGATTTTAGTTGGTTGTTAGGCATAATCTTAGGAAGGAATCATG
* * * * * *
37987527 CTAAACTTGGCAAATGAAAAGTGTGTAAATACCTTGTAATGGTGGCTTGGAAAAAACACACTTAA
128 CTAAATTTGGCATATGAAAAATATATAAATACCTTGTAATGGTGGCTTGGAAAAAACACACTTTA
* *
37987592 ATAGAATTAAAAACAATTCTTTTCTCTTTCATGCATCAGTAGCTATTGAAGTTTACTGCCATTTT
193 ATAGAATTAAAAACAATTCTTTTCTCTTTCATGCATCAGTAGCTATTCAAGTTTACTGCAATTTT
* * *
37987657 TTTCTCATTTCCTTATTTTTAGTTCAATTTCTTTTTAAGTCTTTTCTCCTTTTCAACTATCATCT
258 TTTC-CATTTCC----TTTT-GTTCAA-TTCTTTTT-AGCCTTTTCTCCTTTTC-ACTATCACCA
* ** * * * * *
37987722 TTGTGCTGAAATTC-ATTTTAAACCAAAATTGAGTATGATTAATTTCATGCTCAACTAAACCTTA
314 TTATAATCAAATCCAATTTTAAACCACAATAGAGTATGATTAATTTCATGCTCAACTAAACC-CA
* * * *
37987786 TTTAGCCTAGCAAATTGGGCTACAAATTGGAACGATAAGCAATAAAAG
378 TTTAGCCAAGCAAATTGGGCT--AAATTGGAAAGAGAAGCAATAAAAT
* ** * * *
37987834 GGGCCAAATTGAAAAGTTGTTGAATTAGTGGCTGACTAAAAATCAGATTGTGAATTTGTCAAAAT
1 AGG-CAAATTGAAAAGTTGCAGAATTAGTGGCTGATTAAAAACCAGATTGTGAATTTGTCAAACT
* * *
37987899 CTAGGAATATAAAAAAAATTGACTTTAGTTGGTTGTTAGGCATAATCTTA-GAAGGAATCATGCT
65 CTATGAATAGAAAAAAAATTGATTTTAGTTGGTTGTTAGGCATAATCTTAGGAAGGAATCATGCT
* *
37987963 AAATTTGTCATATGAAAAATATATAAATACCTTGTAATGGTAGCTTGGAAAAAACACACTTTAAT
130 AAATTTGGCATATGAAAAATATATAAATACCTTGTAATGGTGGCTTGGAAAAAACACACTTTAAT
* * * * *
37988028 AGAATTAACAACAATTCTTTTCTTTTTCACT-CATTAGTAGCTATTCAAGTTTACTTCCATTTTT
195 AGAATTAAAAACAATTCTTTTCTCTTTCA-TGCATCAGTAGCTATTCAAGTTTAC-TGCA-ATTT
* * * * * *
37988092 TTTTCGATTTTCTTATTTTTGGTTCAATTGTTTTTTAAGTCC-TTCCTCATTTTCACTCATTACC
257 TTTTCCA-TTTC---CTTTT-GTTCAATT-CTTTTT-AG-CCTTTTCTCCTTTTCACT-ATCACC
** * * *
37988156 ATTA-CGTGCAAATCCATTTTTAAATCC-CAATCGAGTATGCTTAATTTCATGCTCGAA-TAAAC
313 ATTATAAT-CAAATCCAATTTTAAA-CCACAATAGAGTATGATTAATTTCATGCTC-AACTAAAC
37988218 TCCATTTAGCC
375 -CCATTTAGCC
37988229 TTAGGCTAGT
Statistics
Matches: 1041, Mismatches: 165, Indels: 100
0.80 0.13 0.08
Matches are distributed among these distances:
421 4 0.00
422 116 0.11
423 73 0.07
424 159 0.15
425 3 0.00
426 2 0.00
428 3 0.00
429 3 0.00
431 2 0.00
432 5 0.00
433 12 0.01
434 221 0.21
435 168 0.16
436 140 0.13
437 5 0.00
440 1 0.00
441 108 0.10
442 16 0.02
ACGTcount: A:0.34, C:0.15, G:0.14, T:0.36
Consensus pattern (423 bp):
AGGCAAATTGAAAAGTTGCAGAATTAGTGGCTGATTAAAAACCAGATTGTGAATTTGTCAAACTC
TATGAATAGAAAAAAAATTGATTTTAGTTGGTTGTTAGGCATAATCTTAGGAAGGAATCATGCTA
AATTTGGCATATGAAAAATATATAAATACCTTGTAATGGTGGCTTGGAAAAAACACACTTTAATA
GAATTAAAAACAATTCTTTTCTCTTTCATGCATCAGTAGCTATTCAAGTTTACTGCAATTTTTTT
CCATTTCCTTTTGTTCAATTCTTTTTAGCCTTTTCTCCTTTTCACTATCACCATTATAATCAAAT
CCAATTTTAAACCACAATAGAGTATGATTAATTTCATGCTCAACTAAACCCATTTAGCCAAGCAA
ATTGGGCTAAATTGGAAAGAGAAGCAATAAAAT
Found at i:37990800 original size:18 final size:18
Alignment explanation
Indices: 37990765--37990798 Score: 61
Period size: 17 Copynumber: 1.9 Consensus size: 18
37990755 TATTTTATTT
37990765 TTTAAAAATTAATTTTTA
1 TTTAAAAATTAATTTTTA
37990783 TTTAAAAA-TAATTTTT
1 TTTAAAAATTAATTTTT
37990799 TAAAAAATAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 8 0.50
18 8 0.50
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (18 bp):
TTTAAAAATTAATTTTTA
Found at i:37990810 original size:17 final size:16
Alignment explanation
Indices: 37990761--37990811 Score: 52
Period size: 17 Copynumber: 3.1 Consensus size: 16
37990751 CCAATATTTT
37990761 ATTTTTTAAAAAT-TA
1 ATTTTTTAAAAATATA
*
37990776 ATTTTTATTTAAAA-ATA
1 A-TTTT-TTAAAAATATA
37990793 ATTTTTTAAAAAATATA
1 ATTTTTT-AAAAATATA
37990810 AT
1 AT
37990812 ACATTAAATA
Statistics
Matches: 29, Mismatches: 2, Indels: 8
0.74 0.05 0.21
Matches are distributed among these distances:
15 3 0.10
16 12 0.41
17 14 0.48
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (16 bp):
ATTTTTTAAAAATATA
Found at i:37998529 original size:3 final size:3
Alignment explanation
Indices: 37998521--37998644 Score: 248
Period size: 3 Copynumber: 41.3 Consensus size: 3
37998511 NNNNNNNNNN
37998521 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
37998569 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
37998617 TAA TAA TAA TAA TAA TAA TAA TAA TAA T
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA T
37998645 TTAATTTAAT
Statistics
Matches: 121, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 121 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:37998669 original size:5 final size:5
Alignment explanation
Indices: 37998644--37998687 Score: 52
Period size: 5 Copynumber: 8.8 Consensus size: 5
37998634 ATAATAATAA
* * * *
37998644 TTTAA TTTAA TTTAA TTTAC TATAC TTTAC TTTAC TTTAC TTTA
1 TTTAC TTTAC TTTAC TTTAC TTTAC TTTAC TTTAC TTTAC TTTA
37998688 TTTTTAGGAT
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
5 36 1.00
ACGTcount: A:0.30, C:0.11, G:0.00, T:0.59
Consensus pattern (5 bp):
TTTAC
Found at i:38002441 original size:667 final size:667
Alignment explanation
Indices: 38001168--38002501 Score: 2668
Period size: 667 Copynumber: 2.0 Consensus size: 667
38001158 TGATAGACCA
38001168 TCCAAAATACCCCATAATTCAACCTCCAAAATTGAGCATTTTCCTAGTTGACGACTAATGCCAAT
1 TCCAAAATACCCCATAATTCAACCTCCAAAATTGAGCATTTTCCTAGTTGACGACTAATGCCAAT
38001233 GATCCATACCCCGTGTTCGTCCCTCAAGGTTCCTCCTGCAGCAACATGACTTGAATCCACTTTAA
66 GATCCATACCCCGTGTTCGTCCCTCAAGGTTCCTCCTGCAGCAACATGACTTGAATCCACTTTAA
38001298 CTGAACCATGTTGGACAAAACACGTTAGCGAACAAAAATAATTAATAATAAATAAAAACATATAA
131 CTGAACCATGTTGGACAAAACACGTTAGCGAACAAAAATAATTAATAATAAATAAAAACATATAA
38001363 AATAAAATATGAACATAATTATTTATAGTTAATTTATCAAATATGAAAATCAAATAAAGCCATAA
196 AATAAAATATGAACATAATTATTTATAGTTAATTTATCAAATATGAAAATCAAATAAAGCCATAA
38001428 TAAACAATTAAAACAAATGAGAATTGAGATTTTATGAAATGTTGAGGCCCGTGAAACACGGTTTC
261 TAAACAATTAAAACAAATGAGAATTGAGATTTTATGAAATGTTGAGGCCCGTGAAACACGGTTTC
38001493 CTTAAGATAGATTCGACCGCTCCTACGATATTTAGAGTAACGTTGTTCGAAAATCTCCTAAGATA
326 CTTAAGATAGATTCGACCGCTCCTACGATATTTAGAGTAACGTTGTTCGAAAATCTCCTAAGATA
38001558 CAACAACAATAGTAATCGAAGTAGTAGCACCTCTACCACGATCAATGGAACGAACAATGCCTTTT
391 CAACAACAATAGTAATCGAAGTAGTAGCACCTCTACCACGATCAATGGAACGAACAATGCCTTTT
38001623 TTTATCACCGGAATATTTATAAAACACAAATGATGAAAAAAGAGATTTTTGAAAGCAACATAATT
456 TTTATCACCGGAATATTTATAAAACACAAATGATGAAAAAAGAGATTTTTGAAAGCAACATAATT
38001688 TCGGTCGGAAAAATTCTAAGAGGGTATGAAAGTGTGTAAAAACCCTTAAGAATCATGGCCTTTTA
521 TCGGTCGGAAAAATTCTAAGAGGGTATGAAAGTGTGTAAAAACCCTTAAGAATCATGGCCTTTTA
38001753 TAGGCATAGATAGTGTTGGGATTTTAGAAAAAAAACCTCAAAATCTGCTATTAAATAAAAAATTT
586 TAGGCATAGATAGTGTTGGGATTTTAGAAAAAAAACCTCAAAATCTGCTATTAAATAAAAAATTT
38001818 AAACAACCCAATCAGTC
651 AAACAACCCAATCAGTC
38001835 TCCAAAATACCCCATAATTCAACCTCCAAAATTGAGCATTTTCCTAGTTGACGACTAATGCCAAT
1 TCCAAAATACCCCATAATTCAACCTCCAAAATTGAGCATTTTCCTAGTTGACGACTAATGCCAAT
38001900 GATCCATACCCCGTGTTCGTCCCTCAAGGTTCCTCCTGCAGCAACATGACTTGAATCCACTTTAA
66 GATCCATACCCCGTGTTCGTCCCTCAAGGTTCCTCCTGCAGCAACATGACTTGAATCCACTTTAA
38001965 CTGAACCATGTTGGACAAAACACGTTAGCGAACAAAAATAATTAATAATAAATAAAAACATATAA
131 CTGAACCATGTTGGACAAAACACGTTAGCGAACAAAAATAATTAATAATAAATAAAAACATATAA
38002030 AATAAAATATGAACATAATTATTTATAGTTAATTTATCAAATATGAAAATCAAATAAAGCCATAA
196 AATAAAATATGAACATAATTATTTATAGTTAATTTATCAAATATGAAAATCAAATAAAGCCATAA
38002095 TAAACAATTAAAACAAATGAGAATTGAGATTTTATGAAATGTTGAGGCCCGTGAAACACGGTTTC
261 TAAACAATTAAAACAAATGAGAATTGAGATTTTATGAAATGTTGAGGCCCGTGAAACACGGTTTC
38002160 CTTAAGATAGATTCGACCGCTCCTACGATATTTAGAGTAACGTTGTTCGAAAATCTCCTAAGATA
326 CTTAAGATAGATTCGACCGCTCCTACGATATTTAGAGTAACGTTGTTCGAAAATCTCCTAAGATA
38002225 CAACAACAATAGTAATCGAAGTAGTAGCACCTCTACCACGATCAATGGAACGAACAATGCCTTTT
391 CAACAACAATAGTAATCGAAGTAGTAGCACCTCTACCACGATCAATGGAACGAACAATGCCTTTT
38002290 TTTATCACCGGAATATTTATAAAACACAAATGATGAAAAAAGAGATTTTTGAAAGCAACATAATT
456 TTTATCACCGGAATATTTATAAAACACAAATGATGAAAAAAGAGATTTTTGAAAGCAACATAATT
38002355 TCGGTCGGAAAAATTCTAAGAGGGTATGAAAGTGTGTAAAAACCCTTAAGAATCATGGCCTTTTA
521 TCGGTCGGAAAAATTCTAAGAGGGTATGAAAGTGTGTAAAAACCCTTAAGAATCATGGCCTTTTA
38002420 TAGGCATAGATAGTGTTGGGATTTTAGAAAAAAAACCTCAAAATCTGCTATTAAATAAAAAATTT
586 TAGGCATAGATAGTGTTGGGATTTTAGAAAAAAAACCTCAAAATCTGCTATTAAATAAAAAATTT
38002485 AAACAACCCAATCAGTC
651 AAACAACCCAATCAGTC
38002502 CAAACATTTT
Statistics
Matches: 667, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
667 667 1.00
ACGTcount: A:0.41, C:0.18, G:0.14, T:0.27
Consensus pattern (667 bp):
TCCAAAATACCCCATAATTCAACCTCCAAAATTGAGCATTTTCCTAGTTGACGACTAATGCCAAT
GATCCATACCCCGTGTTCGTCCCTCAAGGTTCCTCCTGCAGCAACATGACTTGAATCCACTTTAA
CTGAACCATGTTGGACAAAACACGTTAGCGAACAAAAATAATTAATAATAAATAAAAACATATAA
AATAAAATATGAACATAATTATTTATAGTTAATTTATCAAATATGAAAATCAAATAAAGCCATAA
TAAACAATTAAAACAAATGAGAATTGAGATTTTATGAAATGTTGAGGCCCGTGAAACACGGTTTC
CTTAAGATAGATTCGACCGCTCCTACGATATTTAGAGTAACGTTGTTCGAAAATCTCCTAAGATA
CAACAACAATAGTAATCGAAGTAGTAGCACCTCTACCACGATCAATGGAACGAACAATGCCTTTT
TTTATCACCGGAATATTTATAAAACACAAATGATGAAAAAAGAGATTTTTGAAAGCAACATAATT
TCGGTCGGAAAAATTCTAAGAGGGTATGAAAGTGTGTAAAAACCCTTAAGAATCATGGCCTTTTA
TAGGCATAGATAGTGTTGGGATTTTAGAAAAAAAACCTCAAAATCTGCTATTAAATAAAAAATTT
AAACAACCCAATCAGTC
Found at i:38003734 original size:80 final size:81
Alignment explanation
Indices: 38003639--38003893 Score: 284
Period size: 79 Copynumber: 3.1 Consensus size: 81
38003629 CGTCTAATAA
* *
38003639 ATAAATTTATCATTTTATTTTTTTATTTTTTTCTGGTGAAATTT-TGTACACATTTTGAAAGTAA
1 ATAAATTTATTATTTTATTTTTATATTTTTTTCTGGTGAAATTTGTGTACACATTTTGAAAGTAA
38003703 TGCTTTCAATGAAATT
66 TGCTTTCAATGAAATT
* *
38003719 ATAAATTTATTATTTTGTTTATAT-TTTTTTTCTGGTGAAATTTGTGTACACATTTTGAAAGTAA
1 ATAAATTTATTATTTTATTTTTATATTTTTTTCTGGTGAAATTTGTGTACACA---T-----T--
38003783 TTGAAAAGTAATGCTTTCAATGAAATT
56 TTG-AAAGTAATGCTTTCAATGAAATT
* * * * *
38003810 AT--AGTTATTAATTTATTTTTATATTTTTTTCTGGTGAAATTTGTGTACACATTTTGGATGTGA
1 ATAAATTTATTATTTTATTTTTATATTTTTTTCTGGTGAAATTTGTGTACACATTTTGAAAGTAA
* *
38003873 TGCTTTCAATGGAATC
66 TGCTTTCAATGAAATT
38003889 ATAAA
1 ATAAA
38003894 ATGTAGCCAA
Statistics
Matches: 147, Mismatches: 13, Indels: 29
0.78 0.07 0.15
Matches are distributed among these distances:
79 39 0.27
80 31 0.21
81 1 0.01
82 1 0.01
83 1 0.01
87 1 0.01
88 1 0.01
89 16 0.11
90 31 0.21
91 25 0.17
ACGTcount: A:0.31, C:0.07, G:0.13, T:0.50
Consensus pattern (81 bp):
ATAAATTTATTATTTTATTTTTATATTTTTTTCTGGTGAAATTTGTGTACACATTTTGAAAGTAA
TGCTTTCAATGAAATT
Found at i:38003860 original size:90 final size:90
Alignment explanation
Indices: 38003696--38003865 Score: 281
Period size: 90 Copynumber: 1.9 Consensus size: 90
38003686 ACACATTTTG
*
38003696 AAAGTAATGCTTTCAATGAAATTATAAATTTATTATTTTGTTTATATTTTTTTTCTGGTGAAATT
1 AAAGTAATGCTTTCAATGAAATTAT-AAGTTATTATTTTGTTTATATTTTTTTTCTGGTGAAATT
38003761 TGTGTACACATTTTGAAAGTAATTGA
65 TGTGTACACATTTTGAAAGTAATTGA
*
38003787 AAAGTAATGCTTTCAATGAAATTAT-AGTTATTAATTTATTTTTATA-TTTTTTTCTGGTGAAAT
1 AAAGTAATGCTTTCAATGAAATTATAAGTTATT-ATTT-TGTTTATATTTTTTTTCTGGTGAAAT
38003850 TTGTGTACACATTTTG
64 TTGTGTACACATTTTG
38003866 GATGTGATGC
Statistics
Matches: 75, Mismatches: 2, Indels: 5
0.91 0.02 0.06
Matches are distributed among these distances:
89 6 0.08
90 37 0.49
91 32 0.43
ACGTcount: A:0.32, C:0.06, G:0.13, T:0.49
Consensus pattern (90 bp):
AAAGTAATGCTTTCAATGAAATTATAAGTTATTATTTTGTTTATATTTTTTTTCTGGTGAAATTT
GTGTACACATTTTGAAAGTAATTGA
Found at i:38007967 original size:55 final size:55
Alignment explanation
Indices: 38007883--38007986 Score: 208
Period size: 55 Copynumber: 1.9 Consensus size: 55
38007873 GTTCACATCT
38007883 CACAATCTTCGAGCAAAACTACAACCAGCCTAAGGCTAAATGGGGTTTAAAGGTC
1 CACAATCTTCGAGCAAAACTACAACCAGCCTAAGGCTAAATGGGGTTTAAAGGTC
38007938 CACAATCTTCGAGCAAAACTACAACCAGCCTAAGGCTAAATGGGGTTTA
1 CACAATCTTCGAGCAAAACTACAACCAGCCTAAGGCTAAATGGGGTTTA
38007987 GTTGAGCATA
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
55 49 1.00
ACGTcount: A:0.37, C:0.24, G:0.19, T:0.20
Consensus pattern (55 bp):
CACAATCTTCGAGCAAAACTACAACCAGCCTAAGGCTAAATGGGGTTTAAAGGTC
Found at i:38011627 original size:22 final size:22
Alignment explanation
Indices: 38011584--38011627 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
38011574 AATTATTCTA
* *
38011584 TTTTTTAATTTCTTGCTGTTAT
1 TTTTTTAATTTCTTGATCTTAT
*
38011606 TTTTTTAATTTCTTTATCTTAT
1 TTTTTTAATTTCTTGATCTTAT
38011628 CTTATGTTTA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.16, C:0.09, G:0.05, T:0.70
Consensus pattern (22 bp):
TTTTTTAATTTCTTGATCTTAT
Found at i:38014917 original size:102 final size:102
Alignment explanation
Indices: 38014740--38014941 Score: 314
Period size: 102 Copynumber: 2.0 Consensus size: 102
38014730 GGTAACTAGA
* * * * *
38014740 GGTGTTATTGTTGCTTCATCAGTTGTTGAAGGTGTCGCTCTTGTCAATGCGGACCAGGGTGTTGG
1 GGTGTTACTGTTGCTTCATCAGCTGTTGAAGGTGTCGCTCCTATCAATGCGGACCAGGGTATTGG
38014805 GGGTTAGTGATGTAATTGAATAATAATCTTGTATTGG
66 GGGTTAGTGATGTAATTGAATAATAATCTTGTATTGG
* * * *
38014842 GGTGTTACTGTTGCTTCATCAGCTGTTGAGGGTGTCGCTCCTATCAATGCTGTCTAGGGTATTGG
1 GGTGTTACTGTTGCTTCATCAGCTGTTGAAGGTGTCGCTCCTATCAATGCGGACCAGGGTATTGG
*
38014907 GGGTTGGTGATGTAATTGAATAATAATCTTGTATT
66 GGGTTAGTGATGTAATTGAATAATAATCTTGTATT
38014942 CTTGTTTTTC
Statistics
Matches: 90, Mismatches: 10, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
102 90 1.00
ACGTcount: A:0.19, C:0.12, G:0.30, T:0.39
Consensus pattern (102 bp):
GGTGTTACTGTTGCTTCATCAGCTGTTGAAGGTGTCGCTCCTATCAATGCGGACCAGGGTATTGG
GGGTTAGTGATGTAATTGAATAATAATCTTGTATTGG
Found at i:38015273 original size:69 final size:69
Alignment explanation
Indices: 38015160--38015432 Score: 314
Period size: 69 Copynumber: 4.0 Consensus size: 69
38015150 TTATTGTGCA
* * ** * *
38015160 GCTGGGAGCTTTGCTCTCACTAACTGTTTTGGAGGTCGCAACTCTTTGCTTGCGATCCTTGGTTT
1 GCTGGGAGCTTTGCTCTCGCTAACTGTTTTGGAGGTCGCGACTCTTCACTTGCGAACCTTGATTT
38015225 TACT
66 TACT
* * * *
38015229 GCTGGGAGCTTTGCTCTCGCTAACTGTTTTGAAGGTCGCGACTCTTCACCTACGAACCTTAATTT
1 GCTGGGAGCTTTGCTCTCGCTAACTGTTTTGGAGGTCGCGACTCTTCACTTGCGAACCTTGATTT
38015294 TACAT
66 TAC-T
* * * *
38015299 -TTGGGAGCTTTGCTCTAGCTAACTTTTTTGGAGTTCGCGACTCTTCACTTGCGAACCTTGATTT
1 GCTGGGAGCTTTGCTCTCGCTAACTGTTTTGGAGGTCGCGACTCTTCACTTGCGAACCTTGATTT
*
38015363 TACA
66 TACT
* ** * * * * * *
38015367 ACTAAGAGCTTTGCTCTCGCTAACTATTTTGGAGGTCGCGGCTCTTCGCCTACGAACCTCGATTT
1 GCTGGGAGCTTTGCTCTCGCTAACTGTTTTGGAGGTCGCGACTCTTCACTTGCGAACCTTGATTT
38015432 T
66 T
38015433 GTCGACAATA
Statistics
Matches: 172, Mismatches: 30, Indels: 4
0.83 0.15 0.02
Matches are distributed among these distances:
69 171 0.99
70 1 0.01
ACGTcount: A:0.17, C:0.25, G:0.22, T:0.37
Consensus pattern (69 bp):
GCTGGGAGCTTTGCTCTCGCTAACTGTTTTGGAGGTCGCGACTCTTCACTTGCGAACCTTGATTT
TACT
Found at i:38015388 original size:138 final size:138
Alignment explanation
Indices: 38015162--38015425 Score: 377
Period size: 138 Copynumber: 1.9 Consensus size: 138
38015152 ATTGTGCAGC
** * *
38015162 TGGGAGCTTTGCTCTCACTAACTGTTTTGGAGGTCGCAACTCTTTGCTTGCGATCCTTGGTTTTA
1 TGGGAGCTTTGCTCTCACTAACTGTTTTGGAGGTCGCAACTCTTCACTTGCGAACCTTGATTTTA
** ** *
38015227 CTGCTGGGAGCTTTGCTCTCGCTAACTGTTTTGAAGGTCGCGACTCTTCACCTACGAACCTTAAT
66 CAACTAAGAGCTTTGCTCTCGCTAACTATTTTGAAGGTCGCGACTCTTCACCTACGAACCTTAAT
38015292 TTTACATT
131 TTTACATT
* * *
38015300 TGGGAGCTTTGCTCT-AGCTAACTTTTTTGGAGTTCGCGACTCTTCACTTGCGAACCTTGATTTT
1 TGGGAGCTTTGCTCTCA-CTAACTGTTTTGGAGGTCGCAACTCTTCACTTGCGAACCTTGATTTT
* * *
38015364 ACAACTAAGAGCTTTGCTCTCGCTAACTATTTTGGAGGTCGCGGCTCTTCGCCTACGAACCT
65 ACAACTAAGAGCTTTGCTCTCGCTAACTATTTTGAAGGTCGCGACTCTTCACCTACGAACCT
38015426 CGATTTTGTC
Statistics
Matches: 110, Mismatches: 15, Indels: 2
0.87 0.12 0.02
Matches are distributed among these distances:
137 1 0.01
138 109 0.99
ACGTcount: A:0.17, C:0.25, G:0.22, T:0.36
Consensus pattern (138 bp):
TGGGAGCTTTGCTCTCACTAACTGTTTTGGAGGTCGCAACTCTTCACTTGCGAACCTTGATTTTA
CAACTAAGAGCTTTGCTCTCGCTAACTATTTTGAAGGTCGCGACTCTTCACCTACGAACCTTAAT
TTTACATT
Found at i:38017333 original size:42 final size:43
Alignment explanation
Indices: 38017283--38017380 Score: 108
Period size: 42 Copynumber: 2.3 Consensus size: 43
38017273 TAGCTCTCAC
* * * *
38017283 GAGCTTCTGTTTAACTCATATGAGTTTTC-GTTCAGCTCTTTT
1 GAGCTTCTGTTTAACCCATATGAGGTTTCTGTTCAGCACTTAT
* * * *
38017325 GAGCTTCTGTTCAACCCTTATGGGGTTTCTGTTTAGCACTTAT
1 GAGCTTCTGTTTAACCCATATGAGGTTTCTGTTCAGCACTTAT
*
38017368 GTGCTTCTGTTTA
1 GAGCTTCTGTTTA
38017381 GCCTTCGGGC
Statistics
Matches: 45, Mismatches: 10, Indels: 1
0.80 0.18 0.02
Matches are distributed among these distances:
42 24 0.53
43 21 0.47
ACGTcount: A:0.15, C:0.19, G:0.19, T:0.46
Consensus pattern (43 bp):
GAGCTTCTGTTTAACCCATATGAGGTTTCTGTTCAGCACTTAT
Found at i:38017366 original size:22 final size:21
Alignment explanation
Indices: 38017327--38017395 Score: 61
Period size: 22 Copynumber: 3.3 Consensus size: 21
38017317 GCTCTTTTGA
* * *
38017327 GCTTCTGTTCAACCCTTATGGG
1 GCTTCTGTTTAGCACTTAT-GG
* *
38017349 GTTTCTGTTTAGCACTTATGT
1 GCTTCTGTTTAGCACTTATGG
*
38017370 GCTTCTGTTTAGC-CTT-CGG
1 GCTTCTGTTTAGCACTTATGG
38017389 GCTTCTG
1 GCTTCTG
38017396 AAAATGATGT
Statistics
Matches: 39, Mismatches: 8, Indels: 3
0.78 0.16 0.06
Matches are distributed among these distances:
19 8 0.21
20 3 0.08
21 13 0.33
22 15 0.38
ACGTcount: A:0.10, C:0.23, G:0.23, T:0.43
Consensus pattern (21 bp):
GCTTCTGTTTAGCACTTATGG
Found at i:38017394 original size:19 final size:21
Alignment explanation
Indices: 38017351--38017395 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
38017341 CTTATGGGGT
* *
38017351 TTCTGTTTAGCACTTATGTGC
1 TTCTGTTTAGCACTTACGGGC
38017372 TTCTGTTTAGC-CTT-CGGGC
1 TTCTGTTTAGCACTTACGGGC
38017391 TTCTG
1 TTCTG
38017396 AAAATGATGT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
19 8 0.36
20 3 0.14
21 11 0.50
ACGTcount: A:0.09, C:0.22, G:0.22, T:0.47
Consensus pattern (21 bp):
TTCTGTTTAGCACTTACGGGC
Found at i:38019552 original size:18 final size:18
Alignment explanation
Indices: 38019531--38019597 Score: 55
Period size: 18 Copynumber: 3.6 Consensus size: 18
38019521 TTTATCAATA
38019531 TCATTCAGTAACAGTTAG
1 TCATTCAGTAACAGTTAG
** *
38019549 TCATTCAG-AACCTTTATAATA
1 TCATTCAGTAA-CAGT-T-A-G
*
38019570 TCATTCAGTAACAGTCAG
1 TCATTCAGTAACAGTTAG
38019588 TCATTCAGTA
1 TCATTCAGTA
38019598 CCTTTATTTA
Statistics
Matches: 37, Mismatches: 7, Indels: 10
0.69 0.13 0.19
Matches are distributed among these distances:
17 2 0.05
18 20 0.54
19 2 0.05
20 1 0.03
21 10 0.27
22 2 0.05
ACGTcount: A:0.34, C:0.19, G:0.12, T:0.34
Consensus pattern (18 bp):
TCATTCAGTAACAGTTAG
Found at i:38019576 original size:39 final size:40
Alignment explanation
Indices: 38019521--38019604 Score: 143
Period size: 39 Copynumber: 2.1 Consensus size: 40
38019511 TATCAATCAA
*
38019521 TTTATCAATATCATTCAGTAACAGTTAGTCATTCAGAACC
1 TTTATCAATATCATTCAGTAACAGTCAGTCATTCAGAACC
*
38019561 TTTAT-AATATCATTCAGTAACAGTCAGTCATTCAGTACC
1 TTTATCAATATCATTCAGTAACAGTCAGTCATTCAGAACC
38019600 TTTAT
1 TTTAT
38019605 TTACCCCTAT
Statistics
Matches: 42, Mismatches: 2, Indels: 1
0.93 0.04 0.02
Matches are distributed among these distances:
39 37 0.88
40 5 0.12
ACGTcount: A:0.33, C:0.19, G:0.10, T:0.38
Consensus pattern (40 bp):
TTTATCAATATCATTCAGTAACAGTCAGTCATTCAGAACC
Found at i:38019841 original size:44 final size:44
Alignment explanation
Indices: 38019756--38019841 Score: 111
Period size: 44 Copynumber: 2.0 Consensus size: 44
38019746 TAACAGTAGT
* *
38019756 AGTACGACACACATGGTGCCTCATCGACTCGAAGTCGAAGTAAC
1 AGTACGACACACATAGTGCCTCATCGACTCGAAGTCAAAGTAAC
** *
38019800 AGTACGACACTTATAGTGCCTTATCGACTC-AAGGTCAAAGTA
1 AGTACGACACACATAGTGCCTCATCGACTCGAA-GTCAAAGTA
38019842 TCCATGAACA
Statistics
Matches: 36, Mismatches: 5, Indels: 2
0.84 0.12 0.05
Matches are distributed among these distances:
43 2 0.06
44 34 0.94
ACGTcount: A:0.33, C:0.24, G:0.21, T:0.22
Consensus pattern (44 bp):
AGTACGACACACATAGTGCCTCATCGACTCGAAGTCAAAGTAAC
Found at i:38024601 original size:40 final size:41
Alignment explanation
Indices: 38024515--38024611 Score: 110
Period size: 40 Copynumber: 2.4 Consensus size: 41
38024505 CGACTATGCT
*
38024515 TGGCACTTAGTGCGCG-ATTCGAGATAACTTCGGCTATAGA
1 TGGCACTTAGTGTGCGAATTCGAGATAACTTCGGCTATAGA
** * *
38024555 AAGCACTTAGTGTGCGAATTGGA-ATAGCTTCGGCTATATG-
1 TGGCACTTAGTGTGCGAATTCGAGATAACTTCGGCTATA-GA
*
38024595 TGGCACTAAGTGTGCGA
1 TGGCACTTAGTGTGCGA
38024612 TACTGAGATA
Statistics
Matches: 47, Mismatches: 8, Indels: 4
0.80 0.14 0.07
Matches are distributed among these distances:
40 41 0.87
41 6 0.13
ACGTcount: A:0.26, C:0.18, G:0.29, T:0.28
Consensus pattern (41 bp):
TGGCACTTAGTGTGCGAATTCGAGATAACTTCGGCTATAGA
Found at i:38026151 original size:46 final size:45
Alignment explanation
Indices: 38026006--38026180 Score: 170
Period size: 46 Copynumber: 3.8 Consensus size: 45
38025996 TGCTTGTGTG
* * * * ** *
38026006 AGCTAGTGCAAGACATGTCTGGGACATGCATTGGCCACATTATGAA
1 AGCTAGTGTAAAACATGTCTGGGACATGCATCGGCCTCAAGACG-A
* * * **
38026052 AGCCAGTGTAAAACCATGTCTGGGACATGGCATCAGCATTGAGACGA
1 AGCTAGTGTAAAA-CATGTCTGGGACAT-GCATCGGCCTCAAGACGA
*
38026099 GTGCTAGTGTAAAACATGTCTGGGACATGCATCGGCCTCAAGACGTA
1 -AGCTAGTGTAAAACATGTCTGGGACATGCATCGGCCTCAAGACG-A
* *
38026146 AGCTAGTGTAAGACATGTCTGGAACATGCATCGGC
1 AGCTAGTGTAAAACATGTCTGGGACATGCATCGGC
38026181 TACGAGACGT
Statistics
Matches: 104, Mismatches: 21, Indels: 8
0.78 0.16 0.06
Matches are distributed among these distances:
46 55 0.53
47 30 0.29
48 19 0.18
ACGTcount: A:0.30, C:0.21, G:0.27, T:0.22
Consensus pattern (45 bp):
AGCTAGTGTAAAACATGTCTGGGACATGCATCGGCCTCAAGACGA
Found at i:38026225 original size:92 final size:94
Alignment explanation
Indices: 38026007--38026226 Score: 225
Period size: 94 Copynumber: 2.4 Consensus size: 94
38025997 GCTTGTGTGA
* * * * ** * *
38026007 GCTAGTGCAAGACATGTCTGGGACATGCATTGGCCACATTATGAAAGCCAGTGTAAAACCATGTC
1 GCTAGTGTAAAACATGTCTGGGACATGCATCGGCCTCAAGACGTAAGCCAGTGTAAAACCATGTC
* *
38026072 TGGGACATGGCATCAGCATTGAGACGAGT
66 TGGAACATGGCATCAGCATCGAGACGAGT
* *
38026101 GCTAGTGTAAAACATGTCTGGGACATGCATCGGCCTCAAGACGTAAGCTAGTGTAAGA-CATGTC
1 GCTAGTGTAAAACATGTCTGGGACATGCATCGGCCTCAAGACGTAAGCCAGTGTAAAACCATGTC
* *
38026165 TGGAACAT-GCATCGGC-TACGAGACGTGT
66 TGGAACATGGCATCAGCAT-CGAGACGAGT
* * *
38026193 -C-AGTGTAAGACCATGTTTGGGACATAGTATCGGC
1 GCTAGTGTAA-AACATGTCTGGGACAT-GCATCGGC
38026227 ACAGATATAC
Statistics
Matches: 106, Mismatches: 17, Indels: 8
0.81 0.13 0.06
Matches are distributed among these distances:
90 7 0.07
91 16 0.15
92 22 0.21
93 13 0.12
94 48 0.45
ACGTcount: A:0.29, C:0.20, G:0.28, T:0.23
Consensus pattern (94 bp):
GCTAGTGTAAAACATGTCTGGGACATGCATCGGCCTCAAGACGTAAGCCAGTGTAAAACCATGTC
TGGAACATGGCATCAGCATCGAGACGAGT
Found at i:38031906 original size:46 final size:46
Alignment explanation
Indices: 38031747--38031967 Score: 143
Period size: 46 Copynumber: 4.8 Consensus size: 46
38031737 CACTTGTGTG
* * * *
38031747 AGCTAGTGCAAGACATGTCTGGGACATGCATTGGCCAT--ATTACGAA
1 AGCTAGTGTAAGACATGTCTGGGACATGCATCGGCC-TCGA-GACGTA
* * * *
38031793 AG-TCAGTGTAAGACCATGTCTGGGACATGGCATTGGCATTGAGA-GGA
1 AGCT-AGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCTCGAGACGTA
*
38031840 GTGCTAGTGTATA-ACATGTCTGGGACATGCATCGGCCTCGAGACGTA
1 -AGCTAGTGTA-AGACATGTCTGGGACATGCATCGGCCTCGAGACGTA
* ** ** *
38031887 AGCTAGTGTAAGAAATGTCTGAAACATATATCGGCTTCGAGACGT-
1 AGCTAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGACGTA
* *
38031932 -G-TCAGTGTAAGACCATTTCTGGGATATGGCATCGGC
1 AGCT-AGTGTAAGA-CATGTCTGGGACAT-GCATCGGC
38031968 ATAGATATAC
Statistics
Matches: 139, Mismatches: 23, Indels: 26
0.74 0.12 0.14
Matches are distributed among these distances:
43 1 0.01
44 10 0.07
45 11 0.08
46 64 0.46
47 33 0.24
48 17 0.12
49 3 0.02
ACGTcount: A:0.28, C:0.18, G:0.29, T:0.25
Consensus pattern (46 bp):
AGCTAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGACGTA
Found at i:38033019 original size:21 final size:20
Alignment explanation
Indices: 38032993--38033032 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 20
38032983 GGACACAGGT
38032993 GTGTCATGGCCGTGTGAAGGC
1 GTGTCATGGCCGTGT-AAGGC
*
38033014 GTGTCATGGTCGTGTAAGG
1 GTGTCATGGCCGTGTAAGG
38033033 ACACGGGCCA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 4 0.22
21 14 0.78
ACGTcount: A:0.15, C:0.15, G:0.42, T:0.28
Consensus pattern (20 bp):
GTGTCATGGCCGTGTAAGGC
Found at i:38054244 original size:22 final size:21
Alignment explanation
Indices: 38054219--38054266 Score: 62
Period size: 21 Copynumber: 2.2 Consensus size: 21
38054209 CAATTAGCTT
38054219 ATAAATCAA-GAAAATAATATAC
1 ATAAAT-AAGGAAAA-AATATAC
*
38054241 ATAAATAAGGAAAAGATATAC
1 ATAAATAAGGAAAAAATATAC
38054262 ATAAA
1 ATAAA
38054267 ATATTCCTGA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
21 13 0.54
22 11 0.46
ACGTcount: A:0.65, C:0.06, G:0.08, T:0.21
Consensus pattern (21 bp):
ATAAATAAGGAAAAAATATAC
Found at i:38063311 original size:46 final size:45
Alignment explanation
Indices: 38063225--38063394 Score: 134
Period size: 46 Copynumber: 3.7 Consensus size: 45
38063215 TCTCGTAGTT
* * *
38063225 GATGCATGTCCCAGACATGTTTTACACTAGTTTAC-CTCTCAAGGCC
1 GATGCATGTCCCAAACATGTCTTACACTAG--CACTCTCTCAAGGCC
* *
38063271 GATGCATGTCCCAAACATGTCTTACACTAGCACTCGTCTCAATGCT
1 GATGCATGTCCCAAACATGTCTTACACTAGCACTC-TCTCAAGGCC
* * * * *
38063317 GATGCCATGTCCTAGAGATGGTCTTA-ACCAG--CTTTCAT-AATGTGGCC
1 GATG-CATGTCCCAAACAT-GTCTTACACTAGCACTCTC-TCAA---GGCC
38063364 GATGCATGTCCCAAACATGTCTTACACTAGC
1 GATGCATGTCCCAAACATGTCTTACACTAGC
38063395 TCACACAAGT
Statistics
Matches: 98, Mismatches: 16, Indels: 19
0.74 0.12 0.14
Matches are distributed among these distances:
44 6 0.06
45 10 0.10
46 55 0.56
47 21 0.21
48 6 0.06
ACGTcount: A:0.25, C:0.28, G:0.18, T:0.29
Consensus pattern (45 bp):
GATGCATGTCCCAAACATGTCTTACACTAGCACTCTCTCAAGGCC
Found at i:38066765 original size:26 final size:26
Alignment explanation
Indices: 38066702--38066766 Score: 69
Period size: 26 Copynumber: 2.5 Consensus size: 26
38066692 AGCGAGTCAT
* *
38066702 ATCGGGAAGCTCACAAAGAGCCTTTA
1 ATCGAGAAGCTCACAAAGAGCCTATA
* *
38066728 ATCGGGAAGCTCACGAAGAGCCATATA
1 ATCGAGAAGCTCACAAAGAGCC-TATA
*
38066755 A-CGAGATGCTCA
1 ATCGAGAAGCTCA
38066767 TAAGAGTTGC
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
26 30 0.88
27 4 0.12
ACGTcount: A:0.35, C:0.23, G:0.25, T:0.17
Consensus pattern (26 bp):
ATCGAGAAGCTCACAAAGAGCCTATA
Found at i:38071727 original size:17 final size:17
Alignment explanation
Indices: 38071702--38071737 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
38071692 ATATAAAAAT
*
38071702 AAAATCTTTAAATATAA
1 AAAAACTTTAAATATAA
*
38071719 AAAAACTTTTAATATAA
1 AAAAACTTTAAATATAA
38071736 AA
1 AA
38071738 TAGTATTCTT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.61, C:0.06, G:0.00, T:0.33
Consensus pattern (17 bp):
AAAAACTTTAAATATAA
Found at i:38079275 original size:19 final size:18
Alignment explanation
Indices: 38079245--38079289 Score: 72
Period size: 19 Copynumber: 2.4 Consensus size: 18
38079235 AATTTAGAAT
*
38079245 ATAAAAATTAAATTAAAA
1 ATAAAAATTAAAATAAAA
38079263 ATAAAACATTAAAATAAAA
1 ATAAAA-ATTAAAATAAAA
38079282 ATAAAAAT
1 ATAAAAAT
38079290 AAGACTAAAT
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
18 8 0.32
19 17 0.68
ACGTcount: A:0.73, C:0.02, G:0.00, T:0.24
Consensus pattern (18 bp):
ATAAAAATTAAAATAAAA
Found at i:38079282 original size:6 final size:6
Alignment explanation
Indices: 38079245--38079291 Score: 58
Period size: 6 Copynumber: 7.7 Consensus size: 6
38079235 AATTTAGAAT
* * *
38079245 ATAAAA ATTAAA TTAAAA ATAAAA CATTAAA ATAAAA ATAAAA ATAA
1 ATAAAA ATAAAA ATAAAA ATAAAA -ATAAAA ATAAAA ATAAAA ATAA
38079292 GACTAAATTA
Statistics
Matches: 34, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
6 29 0.85
7 5 0.15
ACGTcount: A:0.74, C:0.02, G:0.00, T:0.23
Consensus pattern (6 bp):
ATAAAA
Found at i:38079298 original size:12 final size:12
Alignment explanation
Indices: 38079246--38079298 Score: 52
Period size: 12 Copynumber: 4.3 Consensus size: 12
38079236 ATTTAGAATA
* *
38079246 TAAAAATTAAAT
1 TAAAAATAAAAC
38079258 TAAAAATAAAAC
1 TAAAAATAAAAC
* *
38079270 ATTAAAATAAAAA
1 -TAAAAATAAAAC
*
38079283 TAAAAATAAGAC
1 TAAAAATAAAAC
38079295 TAAA
1 TAAA
38079299 TTAATAGAAA
Statistics
Matches: 33, Mismatches: 7, Indels: 2
0.79 0.17 0.05
Matches are distributed among these distances:
12 23 0.70
13 10 0.30
ACGTcount: A:0.72, C:0.04, G:0.02, T:0.23
Consensus pattern (12 bp):
TAAAAATAAAAC
Found at i:38082416 original size:18 final size:17
Alignment explanation
Indices: 38082384--38082418 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
38082374 TGCTTTTGTA
*
38082384 CTTTTTACTATTTAATC
1 CTTTTTACTAATTAATC
38082401 CTTTTTACTTAATTAATC
1 CTTTTTAC-TAATTAATC
38082419 ATGCAAACAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 8 0.50
18 8 0.50
ACGTcount: A:0.26, C:0.17, G:0.00, T:0.57
Consensus pattern (17 bp):
CTTTTTACTAATTAATC
Found at i:38087978 original size:70 final size:69
Alignment explanation
Indices: 38087862--38088886 Score: 547
Period size: 70 Copynumber: 14.7 Consensus size: 69
38087852 TGAATTTGTG
* * * * ** * * * * * *
38087862 AGCCTTAATATTACAACTAGGAGCTTGAGCTCGTGTTAATTATTTTGAAGGTTGTAGTACTGGAC
1 AGCCTTAAGATTTCAGCTGGGAGCTTGAGCTCACGCTAACTATTTTGGAGGCTG-AGTATTGAAC
*
38087927 CTGCA
65 CTACA
* * * *
38087932 AGCCTTAAGATTTCAGCTGGGAGCTTAAGCTCACGCTAACTGTTTTGGAGGCTGCGACATTGAAC
1 AGCCTTAAGATTTCAGCTGGGAGCTTGAGCTCACGCTAACTATTTTGGAGGCTGAG-TATTGAAC
38087997 CTACA
65 CTACA
* * * * * *
38088002 AGCCTTAAGA-TTCAAGTTTGGAGCTT--G-TCACGCTAATTGTTTTGGAGGTTGCGATATTGAA
1 AGCCTTAAGATTTC-AGCTGGGAGCTTGAGCTCACGCTAACTATTTTGGAGGCTGAG-TATTGAA
*
38088063 TCTACGA
64 CCTAC-A
** * * * * * * * * *
38088070 TCCCTT-ATATTACAGTTGGGATCTTAAACTCACACTAAC-AGTTTTAGAGGCTGCGATATTGAA
1 AGCCTTAAGATTTCAGCTGGGAGCTTGAGCTCACGCTAACTA-TTTTGGAGGCTGAG-TATTGAA
38088133 CCTACGA
64 CCTAC-A
* * * * *
38088140 A-CCTTAAGATTTCAGCTAGGAGCTTGAGCTCAAGCTAACTGTTTTGGAGGCT-ACGACATTAAA
1 AGCCTTAAGATTTCAGCTGGGAGCTTGAGCTCACGCTAACTATTTTGGAGGCTGA-G-TATTGAA
38088203 CCTACA
64 CCTACA
* * *
38088209 AGCCTTAAGA-TTCAAGCTTGGAGCTTGAGCTCACGCTAACTATTTTGGAGGTTGCGATATTGAA
1 AGCCTTAAGATTTC-AGCTGGGAGCTTGAGCTCACGCTAACTATTTTGGAGGCTGAG-TATTGAA
* * *
38088273 TCTGCG
64 CCTACA
** * * * * * * *
38088279 AGCCTTAAGATTAAAGCTAGGATCTTAAACTCACACTAAC-AGTTTTAGAAGCT-ACGGTATTGA
1 AGCCTTAAGATTTCAGCTGGGAGCTTGAGCTCACGCTAACTA-TTTTGGAGGCTGA--GTATTGA
* *
38088342 ACCTGCG
63 ACCTACA
* * ** * ** * * *
38088349 AGCCTTAAGACTTCAGTTAAGAGCTTGAGCTCGCATTAACTATTTTGAAGGTTGCGGTATTGAAC
1 AGCCTTAAGATTTCAGCTGGGAGCTTGAGCTCACGCTAACTATTTTGGAGGCTG-AGTATTGAAC
* ***
38088414 TTGTG
65 CTACA
* ** * * * * * * * *
38088419 AGCCTTAATATTTCAAATGGGAACTTGATCTCATGCTAACTTTTTTTGAGGCTGGGACATTGACC
1 AGCCTTAAGATTTCAGCTGGGAGCTTGAGCTCACGCTAACTATTTTGGAGGCTGAG-TATTGAAC
38088484 CTACA
65 CTACA
* * * *
38088489 AGCCTTAAGATTTCAGTTGGGAGCTTAAGCTCGCGTTAACTATTTTAGGA-GCTGCAGTATTGAA
1 AGCCTTAAGATTTCAGCTGGGAGCTTGAGCTCACGCTAACTATTTT-GGAGGCTG-AGTATTGAA
**
38088553 CCTATG
64 CCTACA
* ** * * * * * * * *
38088559 AGCCTTAATATTAT-AATTTGGAGATTAAGCTCAAGCTAAATATTTTGGAGGCTGCGGCATTCAA
1 AGCCTTAAGATT-TCAGCTGGGAGCTTGAGCTCACGCTAACTATTTTGGAGGCTG-AGTATTGAA
38088623 CCTACA
64 CCTACA
*
38088629 AGCCTTAAGA-TTCTAGCTGGGAGCTTGAGCTCGAC-CTAACTATTTTGGAGGCTGCAGTTTTGA
1 AGCCTTAAGATTTC-AGCTGGGAGCTTGAGCTC-ACGCTAACTATTTTGGAGGCTG-AGTATTGA
* * *
38088692 GCCTGCG
63 ACCTACA
* * * * * *
38088699 AGCTTTAATATTTTAGCTGGGAGCTTGAGCTCACGCTAACTATTTTGGAGGCTGTGGTACTAAAC
1 AGCCTTAAGATTTCAGCTGGGAGCTTGAGCTCACGCTAACTATTTTGGAGGCTG-AGTATTGAAC
**
38088764 CTGTA
65 CTACA
* * * * * * * *
38088769 AGCCTTAATATTTTAGCTAGGAGCTTGAGCTCGCGTTAATTGTTTTGAAGGCTGCTA-TATTGAA
1 AGCCTTAAGATTTCAGCTGGGAGCTTGAGCTCACGCTAACTATTTTGGAGGCTG--AGTATTGAA
* *
38088833 TCTACG
64 CCTACA
* * *
38088839 AGCCTTAAGATTAT-AGC-GGGAAGCTTGAACTCGCGCTAACTTTTTTGG
1 AGCCTTAAGATT-TCAGCTGGG-AGCTTGAGCTCACGCTAACTATTTTGG
38088887 GAGGGATCAT
Statistics
Matches: 733, Mismatches: 188, Indels: 68
0.74 0.19 0.07
Matches are distributed among these distances:
67 47 0.06
68 9 0.01
69 24 0.03
70 641 0.87
71 12 0.02
ACGTcount: A:0.27, C:0.19, G:0.23, T:0.32
Consensus pattern (69 bp):
AGCCTTAAGATTTCAGCTGGGAGCTTGAGCTCACGCTAACTATTTTGGAGGCTGAGTATTGAACC
TACA
Found at i:38088265 original size:140 final size:139
Alignment explanation
Indices: 38087925--38088850 Score: 658
Period size: 140 Copynumber: 6.6 Consensus size: 139
38087915 GTAGTACTGG
* * * * *
38087925 ACCTGCAAGCCTTAAGATTTCAGCTGGGAGCTTAAGCTCACGCTAACTGTTTTGGAGGCTGCGAC
1 ACCTACAAGCCTTAAGA-TTCAGCTTGGAGCTTGAGCTCACGCTAACTATTTTGGAGGCTGCGAT
* * * * * *
38087990 ATTGAACCTACAAGCCTTAAGA-TTCAAGTTTGGAGCTT--G-TCACGCTAATTGTTTTGGAGGT
65 ATTGAACCTACGAGCCTTAAGATTTC-AGCTAGGAGCTTGAGCTCAAGCTAACTGTTTTGGAGGC
*
38088051 TGCGATATTGA
129 TGCGACATTGA
* ** * * * * * *
38088062 ATCTACGATCCCTT-ATATTACAG-TTGGGATCTTAAACTCACACTAAC-AGTTTTAGAGGCTGC
1 ACCTAC-AAGCCTTAAGATT-CAGCTT-GGAGCTTGAGCTCACGCTAACTA-TTTTGGAGGCTGC
*
38088124 GATATTGAACCTACGAACCTTAAGATTTCAGCTAGGAGCTTGAGCTCAAGCTAACTGTTTTGGAG
62 GATATTGAACCTACGAGCCTTAAGATTTCAGCTAGGAGCTTGAGCTCAAGCTAACTGTTTTGGAG
* *
38088189 GCTACGACATTAA
127 GCTGCGACATTGA
*
38088202 ACCTACAAGCCTTAAGATTCAAGCTTGGAGCTTGAGCTCACGCTAACTATTTTGGAGGTTGCGAT
1 ACCTACAAGCCTTAAGATTC-AGCTTGGAGCTTGAGCTCACGCTAACTATTTTGGAGGCTGCGAT
* * ** * * * * * *
38088267 ATTGAATCTGCGAGCCTTAAGATTAAAGCTAGGATCTTAAACTCACA-CTAACAGTTTTAGAAGC
65 ATTGAACCTACGAGCCTTAAGATTTCAGCTAGGAGCTTGAGCTCA-AGCTAACTGTTTTGGAGGC
* **
38088331 TACGGTATTGA
129 TGCGACATTGA
* * * * ** * * *
38088342 ACCTGCGAGCCTTAAGACTTCAG-TTAAGAGCTTGAGCTCGCATTAACTATTTTGAAGGTTGCGG
1 ACCTACAAGCCTTAAGA-TTCAGCTT-GGAGCTTGAGCTCACGCTAACTATTTTGGAGGCTGCGA
* ** * ** * * * * * *
38088406 TATTGAACTTGTGAGCCTTAATATTTCAAATGGGAACTTGATCTCATGCTAACTTTTTTTGAGGC
64 TATTGAACCTACGAGCCTTAAGATTTCAGCTAGGAGCTTGAGCTCAAGCTAACTGTTTTGGAGGC
*
38088471 TGGGACATTGA
129 TGCGACATTGA
* * * *
38088482 CCCTACAAGCCTTAAGATTTCAG-TTGGGAGCTTAAGCTCGCGTTAACTATTTTAGGA-GCTGC-
1 ACCTACAAGCCTTAAGA-TTCAGCTT-GGAGCTTGAGCTCACGCTAACTATTTT-GGAGGCTGCG
* * ** * * * * *
38088544 AGTATTGAACCTATGAGCCTTAATATTAT-AATTTGGAGATTAAGCTCAAGCTAAATATTTTGGA
63 A-TATTGAACCTACGAGCCTTAAGATT-TCAGCTAGGAGCTTGAGCTCAAGCTAACTGTTTTGGA
* *
38088608 GGCTGCGGCATTCA
126 GGCTGCGACATTGA
*
38088622 ACCTACAAGCCTTAAGATTCTAGCTGGGAGCTTGAGCTCGAC-CTAACTATTTTGGAGGCTGC-A
1 ACCTACAAGCCTTAAGATTC-AGCTTGGAGCTTGAGCTC-ACGCTAACTATTTTGGAGGCTGCGA
* * * * * * * * *
38088685 GTTTTGAGCCTGCGAGCTTTAATATTTTAGCTGGGAGCTTGAGCTCACGCTAACTATTTTGGAGG
64 -TATTGAACCTACGAGCCTTAAGATTTCAGCTAGGAGCTTGAGCTCAAGCTAACTGTTTTGGAGG
* ** * *
38088750 CTGTGGTACTAA
128 CTGCGACATTGA
** * * * * * * * * *
38088762 ACCTGTAAGCCTTAATATTTTAGCTAGGAGCTTGAGCTCGCGTTAATTGTTTTGAAGGCTGCTAT
1 ACCTACAAGCCTTAAGA-TTCAGCTTGGAGCTTGAGCTCACGCTAACTATTTTGGAGGCTGCGAT
*
38088827 ATTGAATCTACGAGCCTTAAGATT
65 ATTGAACCTACGAGCCTTAAGATT
38088851 ATAGCGGGAA
Statistics
Matches: 624, Mismatches: 138, Indels: 51
0.77 0.17 0.06
Matches are distributed among these distances:
136 3 0.00
137 71 0.11
138 8 0.01
139 17 0.03
140 510 0.82
141 15 0.02
ACGTcount: A:0.27, C:0.19, G:0.22, T:0.32
Consensus pattern (139 bp):
ACCTACAAGCCTTAAGATTCAGCTTGGAGCTTGAGCTCACGCTAACTATTTTGGAGGCTGCGATA
TTGAACCTACGAGCCTTAAGATTTCAGCTAGGAGCTTGAGCTCAAGCTAACTGTTTTGGAGGCTG
CGACATTGA
Found at i:38088375 original size:210 final size:210
Alignment explanation
Indices: 38087932--38088886 Score: 777
Period size: 210 Copynumber: 4.6 Consensus size: 210
38087922 TGGACCTGCA
* * *
38087932 AGCCTTAAGATTTCAGCTGGGAGCTTAAGCTCACGCTAACTGTTTTGGAGGCTGCGACATTGAAC
1 AGCCTTAAGATTTCAGCTAGGAGCTTAAGCTCAAGCTAACTATTTTGGAGGCTGCGACATTGAAC
* * * *
38087997 CTACAAGCCTTAAGATTCAAGTTTGGAGCTT--G-TCACGCTAATTGTTTTGGAGGTTGCGATAT
66 CTACAAGCCTTAAGATTCAAGCTGGGAGCTTGAGCTCACGCTAACTATTTTGGAGGTTGCGATAT
* * *
38088059 TGAATCTACGATCCCTT-ATATTACAGTTGGGATCTTAAACTCACACTAACAGTTTTAGAGGCTG
131 TGAATCTACGA-GCCTTAAGATTACAGTTGGGATCTTAAACTCACACTAACAGTTTTAGAAGCTG
*
38088123 CGATATTGAACCTACG
195 CGGTATTGAACCTACG
* * * * *
38088139 AACCTTAAGATTTCAGCTAGGAGCTTGAGCTCAAGCTAACTGTTTTGGAGGCTACGACATTAAAC
1 AGCCTTAAGATTTCAGCTAGGAGCTTAAGCTCAAGCTAACTATTTTGGAGGCTGCGACATTGAAC
*
38088204 CTACAAGCCTTAAGATTCAAGCTTGGAGCTTGAGCTCACGCTAACTATTTTGGAGGTTGCGATAT
66 CTACAAGCCTTAAGATTCAAGCTGGGAGCTTGAGCTCACGCTAACTATTTTGGAGGTTGCGATAT
* * * * *
38088269 TGAATCTGCGAGCCTTAAGATTAAAGCTAGGATCTTAAACTCACACTAACAGTTTTAGAAGCTAC
131 TGAATCTACGAGCCTTAAGATTACAGTTGGGATCTTAAACTCACACTAACAGTTTTAGAAGCTGC
*
38088334 GGTATTGAACCTGCG
196 GGTATTGAACCTACG
* * * * * * **
38088349 AGCCTTAAGACTTCAGTTAAGAGCTTGAGCTC--GCATTAACTATTTTGAAGGTTGCGGTATTGA
1 AGCCTTAAGATTTCAGCTAGGAGCTTAAGCTCAAGC--TAACTATTTTGGAGGCTGCGACATTGA
* *** * * * * * * * * *
38088412 ACTTGTGAGCCTTAATATTTCAA-ATGGGAACTTGATCTCATGCTAACTTTTTTTGAGGCTGGGA
64 ACCTACAAGCCTTAAGA-TTCAAGCTGGGAGCTTGAGCTCACGCTAACTATTTTGGAGGTTGCGA
* ** * * * * * ** *
38088476 CATTGACCCTACAAGCCTTAAGATTTCAGTTGGGAGCTTAAGCTCGCGTTAACTA-TTTTAGGAG
128 TATTGAATCTACGAGCCTTAAGATTACAGTTGGGATCTTAAACTCACACTAAC-AGTTTTAGAAG
* *
38088540 CTGCAGTATTGAACCTATG
192 CTGCGGTATTGAACCTACG
* ** * * * * *
38088559 AGCCTTAATATTAT-AATTTGGAGATTAAGCTCAAGCTAAATATTTTGGAGGCTGCGGCATTCAA
1 AGCCTTAAGATT-TCAGCTAGGAGCTTAAGCTCAAGCTAACTATTTTGGAGGCTGCGACATTGAA
* *
38088623 CCTACAAGCCTTAAGATTCTAGCTGGGAGCTTGAGCTCGAC-CTAACTATTTTGGAGGCTGC-AG
65 CCTACAAGCCTTAAGATTCAAGCTGGGAGCTTGAGCTC-ACGCTAACTATTTTGGAGGTTGCGA-
* ** * * * ** * * * * * * *
38088686 TTTTGAGCCTGCGAGCTTTAATATTTTAGCTGGGAGCTTGAGCTCACGCTAACTA-TTTTGGAGG
128 TATTGAATCTACGAGCCTTAAGATTACAGTTGGGATCTTAAACTCACACTAAC-AGTTTTAGAAG
* * * ***
38088750 CTGTGGTACTAAACCTGTA
192 CTGCGGTATTGAACCTACG
* * * ** * * * * * * *
38088769 AGCCTTAATATTTTAGCTAGGAGCTTGAGCTCGCGTTAATTGTTTTGAAGGCTGCTATATTGAAT
1 AGCCTTAAGATTTCAGCTAGGAGCTTAAGCTCAAGCTAACTATTTTGGAGGCTGCGACATTGAAC
* * * *
38088834 CTACGAGCCTTAAGATT-ATAGC-GGGAAGCTTGAACTCGCGCTAACTTTTTTGG
66 CTACAAGCCTTAAGATTCA-AGCTGGG-AGCTTGAGCTCACGCTAACTATTTTGG
38088887 GAGGGATCAT
Statistics
Matches: 600, Mismatches: 130, Indels: 33
0.79 0.17 0.04
Matches are distributed among these distances:
207 89 0.15
208 2 0.00
209 15 0.03
210 484 0.81
211 8 0.01
212 2 0.00
ACGTcount: A:0.27, C:0.19, G:0.23, T:0.32
Consensus pattern (210 bp):
AGCCTTAAGATTTCAGCTAGGAGCTTAAGCTCAAGCTAACTATTTTGGAGGCTGCGACATTGAAC
CTACAAGCCTTAAGATTCAAGCTGGGAGCTTGAGCTCACGCTAACTATTTTGGAGGTTGCGATAT
TGAATCTACGAGCCTTAAGATTACAGTTGGGATCTTAAACTCACACTAACAGTTTTAGAAGCTGC
GGTATTGAACCTACG
Found at i:38092706 original size:64 final size:65
Alignment explanation
Indices: 38092629--38092749 Score: 147
Period size: 63 Copynumber: 1.9 Consensus size: 65
38092619 TCTGCCATTT
* * ** *
38092629 TTTATTTATAATTTATCCCCTTAAATTTCATTTGAATTTTGATTTAGTCC-TTATTTATTTATTC
1 TTTATTTACAATTTAGCCCCTT-AATTTCATTTGAATTCAGATTTAATCCTTTATTTATTTATTC
38092693 A
65 A
* * *
38092694 TTTA-TTACAATTTAGGCTCTTAATTTCATTTTAATTCAGATTTAATCCTTTATTTA
1 TTTATTTACAATTTAGCCCCTTAATTTCATTTGAATTCAGATTTAATCCTTTATTTA
38092750 ATTTCGACCC
Statistics
Matches: 47, Mismatches: 8, Indels: 3
0.81 0.14 0.05
Matches are distributed among these distances:
63 23 0.49
64 20 0.43
65 4 0.09
ACGTcount: A:0.27, C:0.12, G:0.05, T:0.55
Consensus pattern (65 bp):
TTTATTTACAATTTAGCCCCTTAATTTCATTTGAATTCAGATTTAATCCTTTATTTATTTATTCA
Found at i:38092794 original size:12 final size:13
Alignment explanation
Indices: 38092760--38092810 Score: 54
Period size: 12 Copynumber: 4.2 Consensus size: 13
38092750 ATTTCGACCC
*
38092760 TTTTATAGATTT-
1 TTTTATATATTTA
38092772 TTTTATATA-TTA
1 TTTTATATATTTA
*
38092784 TTTTATTTATTTA
1 TTTTATATATTTA
*
38092797 -TTTATCTATTTA
1 TTTTATATATTTA
38092809 TT
1 TT
38092811 ATCTCTTACC
Statistics
Matches: 33, Mismatches: 3, Indels: 5
0.80 0.07 0.12
Matches are distributed among these distances:
11 2 0.06
12 27 0.82
13 4 0.12
ACGTcount: A:0.25, C:0.02, G:0.02, T:0.71
Consensus pattern (13 bp):
TTTTATATATTTA
Found at i:38092937 original size:3 final size:3
Alignment explanation
Indices: 38092882--38092918 Score: 56
Period size: 3 Copynumber: 12.3 Consensus size: 3
38092872 TTGTTGTTCA
* *
38092882 TAT TAT TCT TAT TAT TAT CAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
38092919 TACTTTTCCT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.30, C:0.05, G:0.00, T:0.65
Consensus pattern (3 bp):
TAT
Found at i:38096494 original size:97 final size:97
Alignment explanation
Indices: 38096374--38096568 Score: 372
Period size: 97 Copynumber: 2.0 Consensus size: 97
38096364 AATGAATTAA
38096374 AATACAAAATTAAAAGCCAATTTTGCTCATCTTCAACCCCATGTCCGAATATAGCAAGGAGAAAC
1 AATACAAAATTAAAAGCCAATTTTGCTCATCTTCAACCCCATGTCCGAATATAGCAAGGAGAAAC
* *
38096439 CATGGCTAGGGTTTTTTATGCTTCCAAGCTCG
66 CATGGCTAGGGTTTTTCAAGCTTCCAAGCTCG
38096471 AATACAAAATTAAAAGCCAATTTTGCTCATCTTCAACCCCATGTCCGAATATAGCAAGGAGAAAC
1 AATACAAAATTAAAAGCCAATTTTGCTCATCTTCAACCCCATGTCCGAATATAGCAAGGAGAAAC
38096536 CATGGCTAGGGTTTTTCAAGCTTCCAAGCTCG
66 CATGGCTAGGGTTTTTCAAGCTTCCAAGCTCG
38096568 A
1 A
38096569 TTGTAAGTCC
Statistics
Matches: 96, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
97 96 1.00
ACGTcount: A:0.34, C:0.23, G:0.16, T:0.27
Consensus pattern (97 bp):
AATACAAAATTAAAAGCCAATTTTGCTCATCTTCAACCCCATGTCCGAATATAGCAAGGAGAAAC
CATGGCTAGGGTTTTTCAAGCTTCCAAGCTCG
Found at i:38097455 original size:46 final size:46
Alignment explanation
Indices: 38097405--38097580 Score: 198
Period size: 46 Copynumber: 3.8 Consensus size: 46
38097395 TGTTTGGGCA
38097405 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
* * *
38097451 TCCGAACTCGTTGAGTTGAGTCCGAGTT--C-GA-GAGATGTAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATG-GATGCAA--ATG
* * *
38097496 CATCCGAGCTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
* * *
38097544 CCCGAGCTCGTTGAGTTGAGTCTGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
38097581 GCGGGTTACA
Statistics
Matches: 109, Mismatches: 12, Indels: 18
0.78 0.09 0.13
Matches are distributed among these distances:
42 1 0.01
43 7 0.06
44 1 0.01
45 2 0.02
46 62 0.57
47 26 0.24
48 2 0.02
49 1 0.01
50 6 0.06
51 1 0.01
ACGTcount: A:0.22, C:0.20, G:0.28, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
Found at i:38097560 original size:93 final size:93
Alignment explanation
Indices: 38097401--38097572 Score: 290
Period size: 93 Copynumber: 1.8 Consensus size: 93
38097391 AGGATGTTTG
* *
38097401 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCCGAACTCGTTGAG
1 GGCATCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGCCCGAACTCGTTGAG
38097466 TTGAGTCCGAGTTCGAGAGATGTAACTA
66 TTGAGTCCGAGTTCGAGAGATGTAACTA
* * *
38097494 GGCATCCGAGCTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGCCCGAGCTCGTTGAG
1 GGCATCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGCCCGAACTCGTTGAG
*
38097559 TTGAGTCTGAGTTC
66 TTGAGTCCGAGTTC
38097573 ACTTATGGGC
Statistics
Matches: 73, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
93 73 1.00
ACGTcount: A:0.22, C:0.20, G:0.29, T:0.28
Consensus pattern (93 bp):
GGCATCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGCCCGAACTCGTTGAG
TTGAGTCCGAGTTCGAGAGATGTAACTA
Found at i:38106669 original size:79 final size:79
Alignment explanation
Indices: 38106571--38106737 Score: 289
Period size: 79 Copynumber: 2.1 Consensus size: 79
38106561 ATAACTTCTC
* * *
38106571 CCTCAGCAGACTAGACTTCTCCTCTGATCGTTCAAGATCTTTTTGCAGAACATCTTTCTCCTCCT
1 CCTCAG-AAACTAGACTTCTCCTCTGATCGCTCAAGAGCTTTTTGCAGAACATCTTTCTCCTCCT
38106636 TCAGTGCAAAAAGTT
65 TCAGTGCAAAAAGTT
*
38106651 CCTCAGAAACTAGACTTCTCCTCTGATTGCTCAAGAGCTTTTTGCAGAACATCTTTCTCCTCCTT
1 CCTCAGAAACTAGACTTCTCCTCTGATCGCTCAAGAGCTTTTTGCAGAACATCTTTCTCCTCCTT
38106716 CAGTGCAAAAAGTT
66 CAGTGCAAAAAGTT
38106730 CCTCAGAA
1 CCTCAGAA
38106738 GTTACTGTCA
Statistics
Matches: 83, Mismatches: 4, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
79 77 0.93
80 6 0.07
ACGTcount: A:0.25, C:0.29, G:0.14, T:0.32
Consensus pattern (79 bp):
CCTCAGAAACTAGACTTCTCCTCTGATCGCTCAAGAGCTTTTTGCAGAACATCTTTCTCCTCCTT
CAGTGCAAAAAGTT
Found at i:38109648 original size:9 final size:9
Alignment explanation
Indices: 38109636--38109679 Score: 52
Period size: 9 Copynumber: 4.8 Consensus size: 9
38109626 TTCACATGTT
38109636 TCTCTCAAC
1 TCTCTCAAC
38109645 TCTCTCAAAC
1 TCTCTC-AAC
* *
38109655 CCTCTCAAG
1 TCTCTCAAC
*
38109664 TCTCTTAAC
1 TCTCTCAAC
38109673 TCTCTCA
1 TCTCTCA
38109680 TTTTGATTGT
Statistics
Matches: 28, Mismatches: 6, Indels: 2
0.78 0.17 0.06
Matches are distributed among these distances:
9 20 0.71
10 8 0.29
ACGTcount: A:0.23, C:0.41, G:0.02, T:0.34
Consensus pattern (9 bp):
TCTCTCAAC
Found at i:38117688 original size:15 final size:15
Alignment explanation
Indices: 38117668--38117698 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
38117658 TCAAGCGTAA
38117668 TAAGAAACAAGTTTT
1 TAAGAAACAAGTTTT
38117683 TAAGAAACAAGTTTT
1 TAAGAAACAAGTTTT
38117698 T
1 T
38117699 TTCTTTCTCT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.45, C:0.06, G:0.13, T:0.35
Consensus pattern (15 bp):
TAAGAAACAAGTTTT
Found at i:38119545 original size:41 final size:40
Alignment explanation
Indices: 38119487--38119591 Score: 156
Period size: 41 Copynumber: 2.6 Consensus size: 40
38119477 GTATTTTTTA
*
38119487 ATCAATGAAAAGGTTGAAAAGGATGTTATCCGAAAAAGAT
1 ATCAATGAAAAGTTTGAAAAGGATGTTATCCGAAAAAGAT
* *
38119527 ATCAAGTGAAAATTTTGAAAAGGATGTTATTCGAAAAAGAT
1 ATCAA-TGAAAAGTTTGAAAAGGATGTTATCCGAAAAAGAT
* *
38119568 GTCAATGAAAAGTTCGAAAAGGAT
1 ATCAATGAAAAGTTTGAAAAGGAT
38119592 AACAATGAAA
Statistics
Matches: 58, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
40 22 0.38
41 36 0.62
ACGTcount: A:0.47, C:0.07, G:0.22, T:0.25
Consensus pattern (40 bp):
ATCAATGAAAAGTTTGAAAAGGATGTTATCCGAAAAAGAT
Found at i:38119584 original size:24 final size:24
Alignment explanation
Indices: 38119556--38119603 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
38119546 AAGGATGTTA
**
38119556 TTCGAAAAAGATGTCAATGAAAAG
1 TTCGAAAAAGATAACAATGAAAAG
*
38119580 TTCGAAAAGGATAACAATGAAAAG
1 TTCGAAAAAGATAACAATGAAAAG
38119604 GTCGGTATCT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.52, C:0.08, G:0.21, T:0.19
Consensus pattern (24 bp):
TTCGAAAAAGATAACAATGAAAAG
Found at i:38121832 original size:28 final size:28
Alignment explanation
Indices: 38121799--38121883 Score: 98
Period size: 28 Copynumber: 3.0 Consensus size: 28
38121789 GATTTCCACT
* *
38121799 TATAAGATAGTTTTGACGCACTTTCACA
1 TATAAGATAGTCTTGACGGACTTTCACA
** * * *
38121827 TATAAGATAGTCCCGATGGACTTCCATA
1 TATAAGATAGTCTTGACGGACTTTCACA
*
38121855 TATAAGATAGTCTTGACGGACTTTTACA
1 TATAAGATAGTCTTGACGGACTTTCACA
38121883 T
1 T
38121884 CTTTCATAAT
Statistics
Matches: 44, Mismatches: 13, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
28 44 1.00
ACGTcount: A:0.32, C:0.18, G:0.16, T:0.34
Consensus pattern (28 bp):
TATAAGATAGTCTTGACGGACTTTCACA
Found at i:38127539 original size:8 final size:8
Alignment explanation
Indices: 38127517--38127560 Score: 52
Period size: 8 Copynumber: 5.4 Consensus size: 8
38127507 AAAAAAAAAG
38127517 AAGAAGAA
1 AAGAAGAA
38127525 GAAGAAGAA
1 -AAGAAGAA
*
38127534 AAGAAGGA
1 AAGAAGAA
*
38127542 AAGAACAA
1 AAGAAGAA
*
38127550 AAGAAGGA
1 AAGAAGAA
38127558 AAG
1 AAG
38127561 GAATACTATT
Statistics
Matches: 30, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
8 22 0.73
9 8 0.27
ACGTcount: A:0.68, C:0.02, G:0.30, T:0.00
Consensus pattern (8 bp):
AAGAAGAA
Found at i:38127551 original size:16 final size:16
Alignment explanation
Indices: 38127526--38127560 Score: 61
Period size: 16 Copynumber: 2.2 Consensus size: 16
38127516 GAAGAAGAAG
*
38127526 AAGAAGAAAAGAAGGA
1 AAGAACAAAAGAAGGA
38127542 AAGAACAAAAGAAGGA
1 AAGAACAAAAGAAGGA
38127558 AAG
1 AAG
38127561 GAATACTATT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.69, C:0.03, G:0.29, T:0.00
Consensus pattern (16 bp):
AAGAACAAAAGAAGGA
Found at i:38134326 original size:6 final size:6
Alignment explanation
Indices: 38134315--38134366 Score: 54
Period size: 6 Copynumber: 9.0 Consensus size: 6
38134305 TTATTTAGTC
* * *
38134315 TTATTT TTA-TT TTA-TT TTATTT TTCTTT TGATTT TGATTT TTATTT
1 TTATTT TTATTT TTATTT TTATTT TTATTT TTATTT TTATTT TTATTT
*
38134361 TCATTT
1 TTATTT
38134367 CAATTTTATT
Statistics
Matches: 40, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
5 10 0.25
6 30 0.75
ACGTcount: A:0.15, C:0.04, G:0.04, T:0.77
Consensus pattern (6 bp):
TTATTT
Found at i:38134329 original size:5 final size:5
Alignment explanation
Indices: 38134319--38134386 Score: 50
Period size: 5 Copynumber: 12.8 Consensus size: 5
38134309 TTAGTCTTAT
* *
38134319 TTTTA TTTTA TTTTA TTTTTC TTTTGA TTTTGA TTTTTA TTTTCA TTTCAA
1 TTTTA TTTTA TTTTA -TTTTA TTTT-A TTTT-A -TTTTA TTTT-A TTT-TA
38134370 TTTTA --TTA TTTTA TTTT
1 TTTTA TTTTA TTTTA TTTT
38134387 GCAAGACATA
Statistics
Matches: 52, Mismatches: 4, Indels: 14
0.74 0.06 0.20
Matches are distributed among these distances:
3 3 0.06
5 26 0.50
6 19 0.37
7 4 0.08
ACGTcount: A:0.18, C:0.04, G:0.03, T:0.75
Consensus pattern (5 bp):
TTTTA
Found at i:38134355 original size:12 final size:11
Alignment explanation
Indices: 38134315--38134386 Score: 58
Period size: 12 Copynumber: 6.2 Consensus size: 11
38134305 TTATTTAGTC
38134315 TTATTTTTATT
1 TTATTTTTATT
38134326 TTA-TTTTATT
1 TTATTTTTATT
38134336 TT-TCTTTTGATT
1 TTAT-TTTT-ATT
38134348 TTGATTTTTATT
1 TT-ATTTTTATT
**
38134360 TTCATTTCAATT
1 TT-ATTTTTATT
38134372 TTATTATTTTATT
1 TTA-T-TTTTATT
38134385 TT
1 TT
38134387 GCAAGACATA
Statistics
Matches: 49, Mismatches: 5, Indels: 12
0.74 0.08 0.18
Matches are distributed among these distances:
10 9 0.18
11 8 0.16
12 20 0.41
13 11 0.22
14 1 0.02
ACGTcount: A:0.18, C:0.04, G:0.03, T:0.75
Consensus pattern (11 bp):
TTATTTTTATT
Found at i:38136393 original size:64 final size:64
Alignment explanation
Indices: 38136292--38136419 Score: 229
Period size: 64 Copynumber: 2.0 Consensus size: 64
38136282 AAAAGATGAC
38136292 ACGGCCTAAGCCTTGCCACACGGGCATCTCACACGCCCGTGGCCTTCGGGGGTATCGACCAAGG
1 ACGGCCTAAGCCTTGCCACACGGGCATCTCACACGCCCGTGGCCTTCGGGGGTATCGACCAAGG
* * *
38136356 ACGGCCTAAGCCTTGCCATACGGGCATCTCACACGCCCGTGTCCTTCGGGGGTGTCGACCAAGG
1 ACGGCCTAAGCCTTGCCACACGGGCATCTCACACGCCCGTGGCCTTCGGGGGTATCGACCAAGG
38136420 TTTTCACGAT
Statistics
Matches: 61, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
64 61 1.00
ACGTcount: A:0.18, C:0.35, G:0.30, T:0.17
Consensus pattern (64 bp):
ACGGCCTAAGCCTTGCCACACGGGCATCTCACACGCCCGTGGCCTTCGGGGGTATCGACCAAGG
Found at i:38138166 original size:22 final size:22
Alignment explanation
Indices: 38138141--38138185 Score: 90
Period size: 22 Copynumber: 2.0 Consensus size: 22
38138131 CTTAACCGAA
38138141 TTAGATTACTTTTAATTTGGAC
1 TTAGATTACTTTTAATTTGGAC
38138163 TTAGATTACTTTTAATTTGGAC
1 TTAGATTACTTTTAATTTGGAC
38138185 T
1 T
38138186 AACATTTTAG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.27, C:0.09, G:0.13, T:0.51
Consensus pattern (22 bp):
TTAGATTACTTTTAATTTGGAC
Found at i:38138664 original size:13 final size:13
Alignment explanation
Indices: 38138646--38138676 Score: 62
Period size: 13 Copynumber: 2.4 Consensus size: 13
38138636 ATTTTTTCTT
38138646 TTAATTAATATAA
1 TTAATTAATATAA
38138659 TTAATTAATATAA
1 TTAATTAATATAA
38138672 TTAAT
1 TTAAT
38138677 AAGTTGTTCT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (13 bp):
TTAATTAATATAA
Found at i:38140966 original size:75 final size:70
Alignment explanation
Indices: 38140801--38140999 Score: 236
Period size: 75 Copynumber: 2.7 Consensus size: 70
38140791 GTTTGTTTAT
* * *
38140801 TTTTCTACATCAATAATATACTTATTTACAATTTATGAAGAAAATGAAAAAAATTATTTGTATTG
1 TTTT-TACATCAATAATATACTTATTTACAATTTA-CAAAAAAATGGAAAAAATTATTTGTATTG
38140866 CAATGTA
64 CAATGTA
* * * *
38140873 TTTTTACATCAATAATATACTTATTTATAATTTACAAAAAAATGGAAACAATTTTTTTTATTGTA
1 TTTTTACATCAATAATATACTTATTTACAATTTACAAAAAAATGGAAAAAATTATTTGTATTG--
*
38140938 TTATATTGTA
64 -CA-A-TGTA
* **
38140948 TTTTTACATAAATAATATACTTATTTACAATTTACCCAAAAATGGAAAAAAT
1 TTTTTACATCAATAATATACTTATTTACAATTTACAAAAAAATGGAAAAAAT
38141000 GAATAAATGA
Statistics
Matches: 109, Mismatches: 13, Indels: 7
0.84 0.10 0.05
Matches are distributed among these distances:
70 23 0.21
71 29 0.27
72 4 0.04
73 1 0.01
74 1 0.01
75 51 0.47
ACGTcount: A:0.43, C:0.09, G:0.06, T:0.42
Consensus pattern (70 bp):
TTTTTACATCAATAATATACTTATTTACAATTTACAAAAAAATGGAAAAAATTATTTGTATTGCA
ATGTA
Found at i:38146127 original size:85 final size:85
Alignment explanation
Indices: 38145973--38146142 Score: 243
Period size: 85 Copynumber: 2.0 Consensus size: 85
38145963 TAGAACTCGC
* * * *
38145973 TTTCACCATAGGTAAGATAATGTCAGAGATCATGTCAGAATCCAATTTTGAATGATCTTGTGACA
1 TTTCACCATAGGTAAGACAATGTCAGAGATCAAGTCAGAATCCAATTTTGAATGATCCTATGACA
38146038 TACCTACAACAACACAAGTA
66 TACCTACAACAACACAAGTA
* * * *
38146058 TTTCACCATATGTAAGACAATGTCAGAGATCAAGTTAGAATCCAATTTT-AGATGCTCCTATGAT
1 TTTCACCATAGGTAAGACAATGTCAGAGATCAAGTCAGAATCCAATTTTGA-ATGATCCTATGAC
*
38146122 GTACCTACAACAACACAAGTA
65 ATACCTACAACAACACAAGTA
38146143 CATGAAGTTC
Statistics
Matches: 75, Mismatches: 9, Indels: 2
0.87 0.10 0.02
Matches are distributed among these distances:
84 1 0.01
85 74 0.99
ACGTcount: A:0.38, C:0.19, G:0.15, T:0.28
Consensus pattern (85 bp):
TTTCACCATAGGTAAGACAATGTCAGAGATCAAGTCAGAATCCAATTTTGAATGATCCTATGACA
TACCTACAACAACACAAGTA
Found at i:38146763 original size:5 final size:5
Alignment explanation
Indices: 38146755--38146830 Score: 61
Period size: 5 Copynumber: 15.0 Consensus size: 5
38146745 ATTTAAAATA
*
38146755 TATAT TATAT TATAT T-TAGT TA-AT TA-AT AAGTAT GT-TAT TATAT
1 TATAT TATAT TATAT TATA-T TATAT TATAT TA-TAT -TATAT TATAT
*
38146799 TATAT TATTAT AATAT TATAT TATAT ATATAT
1 TATAT TA-TAT TATAT TATAT TATAT -TATAT
38146831 AACAAAAGAA
Statistics
Matches: 59, Mismatches: 4, Indels: 15
0.76 0.05 0.19
Matches are distributed among these distances:
4 9 0.15
5 39 0.66
6 11 0.19
ACGTcount: A:0.41, C:0.00, G:0.04, T:0.55
Consensus pattern (5 bp):
TATAT
Found at i:38146809 original size:16 final size:16
Alignment explanation
Indices: 38146790--38146827 Score: 58
Period size: 16 Copynumber: 2.3 Consensus size: 16
38146780 AATAAGTATG
*
38146790 TTATTATATTATATTA
1 TTATAATATTATATTA
38146806 TTATAATATTATATTA
1 TTATAATATTATATTA
38146822 TATATA
1 T-TATA
38146828 TATAACAAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
16 16 0.80
17 4 0.20
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (16 bp):
TTATAATATTATATTA
Found at i:38146815 original size:21 final size:21
Alignment explanation
Indices: 38146791--38146832 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
38146781 ATAAGTATGT
38146791 TATTATATTATAT-TATTATAA
1 TATTATATTATATATA-TATAA
38146812 TATTATATTATATATATATAA
1 TATTATATTATATATATATAA
38146833 CAAAAGAAAG
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
21 18 0.90
22 2 0.10
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (21 bp):
TATTATATTATATATATATAA
Found at i:38146897 original size:13 final size:13
Alignment explanation
Indices: 38146881--38146905 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
38146871 TAGAGAGAAA
38146881 GAAAGAAAAAAGG
1 GAAAGAAAAAAGG
38146894 GAAAGAAAAAAG
1 GAAAGAAAAAAG
38146906 AAAATTTGGG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.72, C:0.00, G:0.28, T:0.00
Consensus pattern (13 bp):
GAAAGAAAAAAGG
Found at i:38147962 original size:25 final size:25
Alignment explanation
Indices: 38147934--38148013 Score: 94
Period size: 25 Copynumber: 3.3 Consensus size: 25
38147924 ACCTTAGCGC
*
38147934 GCTCTCTGATTATTAGCACGTCAGT
1 GCTCTCTGATTATTAGCACATCAGT
* **
38147959 GCTCTCTAATTATTAGCACATTGGT
1 GCTCTCTGATTATTAGCACATCAGT
*
38147984 GCTCTCTG---ATTAGCACATCTGT
1 GCTCTCTGATTATTAGCACATCAGT
38148006 GCTCTCTG
1 GCTCTCTG
38148014 TATAGCATTT
Statistics
Matches: 48, Mismatches: 7, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
22 20 0.42
25 28 0.58
ACGTcount: A:0.19, C:0.25, G:0.19, T:0.38
Consensus pattern (25 bp):
GCTCTCTGATTATTAGCACATCAGT
Found at i:38148020 original size:22 final size:22
Alignment explanation
Indices: 38147970--38148013 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 22
38147960 CTCTCTAATT
38147970 ATTAGCACATTGGTGCTCTCTG
1 ATTAGCACATTGGTGCTCTCTG
38147992 ATTAGCACATCT-GTGCTCTCTG
1 ATTAGCACAT-TGGTGCTCTCTG
38148014 TATAGCATTT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
22 20 0.95
23 1 0.05
ACGTcount: A:0.18, C:0.25, G:0.20, T:0.36
Consensus pattern (22 bp):
ATTAGCACATTGGTGCTCTCTG
Found at i:38150897 original size:20 final size:20
Alignment explanation
Indices: 38150858--38150897 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
38150848 ATTTGGGATG
*
38150858 ATTTTTATTTATTTGTTTTT
1 ATTTTTATTTATTTGATTTT
38150878 ATTTTTA-TTATTTAGATTTT
1 ATTTTTATTTATTT-GATTTT
38150898 TAGTATTTTA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 6 0.33
20 12 0.67
ACGTcount: A:0.20, C:0.00, G:0.05, T:0.75
Consensus pattern (20 bp):
ATTTTTATTTATTTGATTTT
Found at i:38154106 original size:72 final size:72
Alignment explanation
Indices: 38154012--38154199 Score: 207
Period size: 72 Copynumber: 2.6 Consensus size: 72
38154002 CATGTAATGT
* * ** *
38154012 GGGTCCGAGTACAGACTTTGTGTATAAACCCGTGAGTAACTCGCTGAGAGAGCA-TATCATGTTA
1 GGGTCCGGGTACTGACTTTGTGTATAAACCCGTGAGTAACTCAATGAGAGAGCATTA-CATGATA
*
38154076 ATGCTTTG
65 ATGCTTTA
* * * * * * * *
38154084 GGGTTCGGGTACTGACTTTGTGTATAAACCTGTAAGCAGCTCAATGAGCGGGTATTACATGATAA
1 GGGTCCGGGTACTGACTTTGTGTATAAACCCGTGAGTAACTCAATGAGAGAGCATTACATGATAA
38154149 TGCTTTA
66 TGCTTTA
* * *
38154156 GGGTCCGGGTGCTGACTTTGTGTATAGACCCGTGAGTAGCTCAA
1 GGGTCCGGGTACTGACTTTGTGTATAAACCCGTGAGTAACTCAA
38154200 ATGCGGGCAT
Statistics
Matches: 95, Mismatches: 20, Indels: 2
0.81 0.17 0.02
Matches are distributed among these distances:
72 93 0.98
73 2 0.02
ACGTcount: A:0.24, C:0.18, G:0.28, T:0.30
Consensus pattern (72 bp):
GGGTCCGGGTACTGACTTTGTGTATAAACCCGTGAGTAACTCAATGAGAGAGCATTACATGATAA
TGCTTTA
Found at i:38161033 original size:40 final size:40
Alignment explanation
Indices: 38160989--38161232 Score: 274
Period size: 40 Copynumber: 6.1 Consensus size: 40
38160979 AACTATTGTA
** * * *
38160989 TGAATGCACATTTATGCCCCTATTTGTACTTCGATACCTC
1 TGAATGCACATACATGCCCCTGTTTGTACTTCGGTACCCC
*
38161029 TGAATGCACATACGTGCCCCTGTTTGTACTTCGGTACCCC
1 TGAATGCACATACATGCCCCTGTTTGTACTTCGGTACCCC
* * * *
38161069 TAAATGCACATATGA-GCTCCTGTTTGTACTTTGGTACCCC
1 TGAATGCACATA-CATGCCCCTGTTTGTACTTCGGTACCCC
* * * * *
38161109 TGAATACACATACGTGCCCTTGTTTGTACTTTGTTACCCC
1 TGAATGCACATACATGCCCCTGTTTGTACTTCGGTACCCC
* * * *
38161149 TGAATACACATACATGCTCTTGTTTGTACTTCGGTACCCT
1 TGAATGCACATACATGCCCCTGTTTGTACTTCGGTACCCC
* * *
38161189 TGAATGCACATACGTGCCCCTCTTTGTACTTCGGTAACCC
1 TGAATGCACATACATGCCCCTGTTTGTACTTCGGTACCCC
38161229 TGAA
1 TGAA
38161233 CAGTTATACA
Statistics
Matches: 172, Mismatches: 30, Indels: 4
0.83 0.15 0.02
Matches are distributed among these distances:
40 172 1.00
ACGTcount: A:0.21, C:0.28, G:0.16, T:0.34
Consensus pattern (40 bp):
TGAATGCACATACATGCCCCTGTTTGTACTTCGGTACCCC
Found at i:38161215 original size:120 final size:120
Alignment explanation
Indices: 38161011--38161232 Score: 309
Period size: 120 Copynumber: 1.9 Consensus size: 120
38161001 TATGCCCCTA
* * *
38161011 TTTGTACTTCGATACCTCTGAATGCACATACGTGCCCCTGTTTGTACTTCGGTACCCCTAAATGC
1 TTTGTACTTCGATACCCCTGAATACACATACATGCCCCTGTTTGTACTTCGGTACCCCTAAATGC
* * * * *
38161076 ACATATGAGCTCCTGTTTGTACTTTGGTACCCCTGAATACACATACGTGCCCTTG
66 ACATACGAGCCCCTCTTTGTACTTCGGTAACCCTGAATACACATACGTGCCCTTG
* * * * * *
38161131 TTTGTACTTTGTTACCCCTGAATACACATACATGCTCTTGTTTGTACTTCGGTACCCTTGAATGC
1 TTTGTACTTCGATACCCCTGAATACACATACATGCCCCTGTTTGTACTTCGGTACCCCTAAATGC
*
38161196 ACATACGTGCCCCTCTTTGTACTTCGGTAACCCTGAA
66 ACATACGAGCCCCTCTTTGTACTTCGGTAACCCTGAA
38161233 CAGTTATACA
Statistics
Matches: 87, Mismatches: 15, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
120 87 1.00
ACGTcount: A:0.21, C:0.28, G:0.17, T:0.35
Consensus pattern (120 bp):
TTTGTACTTCGATACCCCTGAATACACATACATGCCCCTGTTTGTACTTCGGTACCCCTAAATGC
ACATACGAGCCCCTCTTTGTACTTCGGTAACCCTGAATACACATACGTGCCCTTG
Found at i:38161268 original size:80 final size:79
Alignment explanation
Indices: 38161011--38161268 Score: 272
Period size: 80 Copynumber: 3.2 Consensus size: 79
38161001 TATGCCCCTA
* * *
38161011 TTTGTACTTCGATA-CCTCTGAATGCACATACGTGCCCCTGTTTGTACTTCGGTACCCCTAAATG
1 TTTGTACTTTGGTACCCT-TGAATGCACATACGTGCCCCTGTTTGTACTTCGGTACCCCTGAA--
38161075 CACATATGAGC-T-CC-TG
63 CACATAT-A-CATGCCTTG
* * * * * *
38161091 TTTGTACTTTGGTACCCCTGAATACACATACGTGCCCTTGTTTGTACTTTGTTACCCCTGAATAC
1 TTTGTACTTTGGTACCCTTGAATGCACATACGTGCCCCTGTTTGTACTTCGGTACCCCTGAACAC
*
38161156 ACATACATGCTCTTG
66 ATATACATGC-CTTG
* * * *
38161171 TTTGTACTTCGGTACCCTTGAATGCACATACGTGCCCCTCTTTGTACTTCGGTAACCCTGAACAG
1 TTTGTACTTTGGTACCCTTGAATGCACATACGTGCCCCTGTTTGTACTTCGGTACCCCTGAACAC
*
38161236 TTATACATGCCTTG
66 ATATACATGCCTTG
* *
38161250 TTTATATTTTGGTAACCCT
1 TTTGTACTTTGGT-ACCCT
38161269 AAATCAAATA
Statistics
Matches: 147, Mismatches: 25, Indels: 12
0.80 0.14 0.07
Matches are distributed among these distances:
76 1 0.01
77 2 0.01
78 6 0.04
79 15 0.10
80 121 0.82
81 2 0.01
ACGTcount: A:0.21, C:0.27, G:0.16, T:0.36
Consensus pattern (79 bp):
TTTGTACTTTGGTACCCTTGAATGCACATACGTGCCCCTGTTTGTACTTCGGTACCCCTGAACAC
ATATACATGCCTTG
Found at i:38162212 original size:19 final size:21
Alignment explanation
Indices: 38162176--38162214 Score: 64
Period size: 19 Copynumber: 2.0 Consensus size: 21
38162166 TGCCTATGAT
38162176 TAATATATTTTAAATGTCATG
1 TAATATATTTTAAATGTCATG
38162197 TAAT-TATTTT-AATGTCAT
1 TAATATATTTTAAATGTCAT
38162215 ATGCATAAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 8 0.44
20 6 0.33
21 4 0.22
ACGTcount: A:0.36, C:0.05, G:0.08, T:0.51
Consensus pattern (21 bp):
TAATATATTTTAAATGTCATG
Found at i:38167898 original size:14 final size:14
Alignment explanation
Indices: 38167860--38167902 Score: 54
Period size: 13 Copynumber: 3.1 Consensus size: 14
38167850 TCAAATGTAC
38167860 AATATAATTAAA-T
1 AATATAATTAAATT
38167873 AATATAAATTAAATT
1 AATAT-AATTAAATT
*
38167888 AA-ATAATTTAATT
1 AATATAATTAAATT
38167901 AA
1 AA
38167903 CTGTTTACCC
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
13 15 0.56
14 9 0.33
15 3 0.11
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (14 bp):
AATATAATTAAATT
Found at i:38168913 original size:30 final size:30
Alignment explanation
Indices: 38168879--38168943 Score: 121
Period size: 30 Copynumber: 2.2 Consensus size: 30
38168869 ACTTATTTTA
38168879 TTGTTAATTTTGTTATTATTTTAAAGACAT
1 TTGTTAATTTTGTTATTATTTTAAAGACAT
*
38168909 TTGTTAATTTTGTTATTATTTTAGAGACAT
1 TTGTTAATTTTGTTATTATTTTAAAGACAT
38168939 TTGTT
1 TTGTT
38168944 TGTTAAGTTG
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 34 1.00
ACGTcount: A:0.26, C:0.03, G:0.12, T:0.58
Consensus pattern (30 bp):
TTGTTAATTTTGTTATTATTTTAAAGACAT
Found at i:38172425 original size:21 final size:23
Alignment explanation
Indices: 38172399--38172440 Score: 61
Period size: 22 Copynumber: 1.9 Consensus size: 23
38172389 TTGTTTTAGA
*
38172399 GATTTT-TTTTGTTT-GTGTTGT
1 GATTTTGTTTGGTTTGGTGTTGT
38172420 GATTTTGTTTGGTTTGGTGTT
1 GATTTTGTTTGGTTTGGTGTT
38172441 TAGACAGTGA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 6 0.33
22 7 0.39
23 5 0.28
ACGTcount: A:0.05, C:0.00, G:0.29, T:0.67
Consensus pattern (23 bp):
GATTTTGTTTGGTTTGGTGTTGT
Found at i:38174243 original size:18 final size:17
Alignment explanation
Indices: 38174222--38174256 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
38174212 TTATTATTAA
*
38174222 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
38174240 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
38174257 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:38175115 original size:16 final size:16
Alignment explanation
Indices: 38175094--38175125 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
38175084 TAAGAAATCA
38175094 CAGCCATGTACTCCTG
1 CAGCCATGTACTCCTG
38175110 CAGCCATGTACTCCTG
1 CAGCCATGTACTCCTG
38175126 TAGCTCCTGA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.19, C:0.38, G:0.19, T:0.25
Consensus pattern (16 bp):
CAGCCATGTACTCCTG
Found at i:38178723 original size:16 final size:17
Alignment explanation
Indices: 38178694--38178726 Score: 59
Period size: 16 Copynumber: 2.0 Consensus size: 17
38178684 CCTTCCTTAC
38178694 CCGATACTTTTAGGGGT
1 CCGATACTTTTAGGGGT
38178711 CCGATAC-TTTAGGGGT
1 CCGATACTTTTAGGGGT
38178727 GACATCGATT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 9 0.56
17 7 0.44
ACGTcount: A:0.18, C:0.18, G:0.30, T:0.33
Consensus pattern (17 bp):
CCGATACTTTTAGGGGT
Found at i:38183919 original size:46 final size:45
Alignment explanation
Indices: 38183863--38183977 Score: 133
Period size: 45 Copynumber: 2.5 Consensus size: 45
38183853 TGGGTATATG
* * *
38183863 TGAATTGAGACTGTGAACTCCCCTTACGAGCACCCCTTGACATGTAC
1 TGAACTGAGACCGCGAACT-CCCTTACGAGCACCCCTTGACATGT-C
* * * *
38183910 -GAACTGAGACCGCGAGCTCCTTTGCGAGCACCCCTTGGCATGTC
1 TGAACTGAGACCGCGAACTCCCTTACGAGCACCCCTTGACATGTC
*
38183954 TGAACTGAGACCGCGAGCTCCCTT
1 TGAACTGAGACCGCGAACTCCCTT
38183978 TCTTGACCTC
Statistics
Matches: 59, Mismatches: 8, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
44 1 0.02
45 44 0.75
46 14 0.24
ACGTcount: A:0.22, C:0.32, G:0.23, T:0.23
Consensus pattern (45 bp):
TGAACTGAGACCGCGAACTCCCTTACGAGCACCCCTTGACATGTC
Found at i:38183939 original size:45 final size:45
Alignment explanation
Indices: 38183889--38183974 Score: 147
Period size: 45 Copynumber: 1.9 Consensus size: 45
38183879 ACTCCCCTTA
38183889 CGAGCACCCCTTGACATGTAC-GAACTGAGACCGCGAGCTCCTTTG
1 CGAGCACCCCTTGACATGT-CTGAACTGAGACCGCGAGCTCCTTTG
*
38183934 CGAGCACCCCTTGGCATGTCTGAACTGAGACCGCGAGCTCC
1 CGAGCACCCCTTGACATGTCTGAACTGAGACCGCGAGCTCC
38183975 CTTTCTTGAC
Statistics
Matches: 39, Mismatches: 1, Indels: 2
0.93 0.02 0.05
Matches are distributed among these distances:
44 1 0.03
45 38 0.97
ACGTcount: A:0.21, C:0.35, G:0.26, T:0.19
Consensus pattern (45 bp):
CGAGCACCCCTTGACATGTCTGAACTGAGACCGCGAGCTCCTTTG
Found at i:38186903 original size:17 final size:17
Alignment explanation
Indices: 38186877--38186975 Score: 101
Period size: 17 Copynumber: 5.8 Consensus size: 17
38186867 TAAACTCAAG
* *
38186877 CAAATTTTGAATTTAAT
1 CAAATTTTGAACTTAAA
*
38186894 CAAATCTTGAACTTAAA
1 CAAATTTTGAACTTAAA
*
38186911 CACATTTTGAACTTAAA
1 CAAATTTTGAACTTAAA
**
38186928 CAAATTTTGGGCTTAAGA
1 CAAATTTTGAACTTAA-A
* *
38186946 -GAATTTTGAACTTAAG
1 CAAATTTTGAACTTAAA
*
38186962 CAAATTCTGAACTT
1 CAAATTTTGAACTT
38186976 GAGTAGACTT
Statistics
Matches: 66, Mismatches: 14, Indels: 4
0.79 0.17 0.05
Matches are distributed among these distances:
17 65 0.98
18 1 0.02
ACGTcount: A:0.39, C:0.13, G:0.11, T:0.36
Consensus pattern (17 bp):
CAAATTTTGAACTTAAA
Done.