Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr11
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: 102024878
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 3234766 characters in sequence are not A, C, G, or T
File 192 of 310
Found at i:62593657 original size:21 final size:21
Alignment explanation
Indices: 62593614--62593659 Score: 67
Period size: 21 Copynumber: 2.2 Consensus size: 21
62593604 TACCATTTTC
*
62593614 ATTACTATTATTTTTATTTTT
1 ATTACTATTATTTTTATTATT
62593635 ATTACTATTATCTTTT-TTATT
1 ATTACTATTAT-TTTTATTATT
62593656 ATTA
1 ATTA
62593660 TTACCTTTTT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 19 0.83
22 4 0.17
ACGTcount: A:0.26, C:0.07, G:0.00, T:0.67
Consensus pattern (21 bp):
ATTACTATTATTTTTATTATT
Found at i:62594026 original size:23 final size:22
Alignment explanation
Indices: 62593996--62594040 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 22
62593986 ACCTCTTTAT
*
62593996 TATTATTACTATTGTATTATTCC
1 TATTATTACTATTATATT-TTCC
*
62594019 TATTATTATTATTATATTTTCC
1 TATTATTACTATTATATTTTCC
62594041 CTTTTTATTT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
22 4 0.20
23 16 0.80
ACGTcount: A:0.27, C:0.11, G:0.02, T:0.60
Consensus pattern (22 bp):
TATTATTACTATTATATTTTCC
Found at i:62600531 original size:34 final size:34
Alignment explanation
Indices: 62600472--62600545 Score: 112
Period size: 34 Copynumber: 2.2 Consensus size: 34
62600462 AGTGCCACGA
*
62600472 TTCACAACTCAGTATGGAAACACCATACCTACGT
1 TTCACAACTCAGTATAGAAACACCATACCTACGT
* * *
62600506 TTCACAGCTCGGTATAGAAATACCATACCTACGT
1 TTCACAACTCAGTATAGAAACACCATACCTACGT
62600540 TTCACA
1 TTCACA
62600546 CTTTGCCATG
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
34 36 1.00
ACGTcount: A:0.34, C:0.28, G:0.12, T:0.26
Consensus pattern (34 bp):
TTCACAACTCAGTATAGAAACACCATACCTACGT
Found at i:62600630 original size:27 final size:27
Alignment explanation
Indices: 62600600--62600664 Score: 103
Period size: 27 Copynumber: 2.4 Consensus size: 27
62600590 GATCACTGAA
* *
62600600 CACTTTGCTATGTTTGGCACACTATAT
1 CACTTTGCCATGATTGGCACACTATAT
*
62600627 CACTTTGCCATGATTGGCACACTTTAT
1 CACTTTGCCATGATTGGCACACTATAT
62600654 CACTTTGCCAT
1 CACTTTGCCAT
62600665 AGTTCAACTA
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 35 1.00
ACGTcount: A:0.22, C:0.26, G:0.14, T:0.38
Consensus pattern (27 bp):
CACTTTGCCATGATTGGCACACTATAT
Found at i:62600807 original size:31 final size:31
Alignment explanation
Indices: 62600772--62600911 Score: 199
Period size: 31 Copynumber: 4.5 Consensus size: 31
62600762 AGCTACCTGG
62600772 AGCTACCACTTTTCACTAATCAGGTAGCCGA
1 AGCTACCACTTTTCACTAATCAGGTAGCCGA
* * * *
62600803 AGCTACTATTTTTCACTCATCAAGTAGCCGA
1 AGCTACCACTTTTCACTAATCAGGTAGCCGA
* * *
62600834 AGCTATCATTTTTCACTAATCAGGTAGCTGA
1 AGCTACCACTTTTCACTAATCAGGTAGCCGA
*
62600865 AGCTACCACTTTTCACTGATCAGGTAGCCGA
1 AGCTACCACTTTTCACTAATCAGGTAGCCGA
*
62600896 AGCTATCACTTTTCAC
1 AGCTACCACTTTTCAC
62600912 ATTGTACACA
Statistics
Matches: 95, Mismatches: 14, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
31 95 1.00
ACGTcount: A:0.28, C:0.26, G:0.15, T:0.31
Consensus pattern (31 bp):
AGCTACCACTTTTCACTAATCAGGTAGCCGA
Found at i:62600969 original size:32 final size:33
Alignment explanation
Indices: 62600904--62601016 Score: 131
Period size: 33 Copynumber: 3.5 Consensus size: 33
62600894 GAAGCTATCA
* **
62600904 CTTTTCACA-TTGTACACACAAGGCATACATTTC
1 CTTTTCA-AGTTGTACACACAAAGTGTACATTTC
* *
62600937 CTTTTCAAG-TGTACATACAAAGTGTACTTTTC
1 CTTTTCAAGTTGTACACACAAAGTGTACATTTC
* *
62600969 CTTTTTAAGTTGTACACACACAGTGTACATTTC
1 CTTTTCAAGTTGTACACACAAAGTGTACATTTC
*
62601002 CTTTTCTAGTTGTAC
1 CTTTTCAAGTTGTAC
62601017 CTTTTAGGTA
Statistics
Matches: 67, Mismatches: 11, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
32 27 0.40
33 40 0.60
ACGTcount: A:0.27, C:0.22, G:0.12, T:0.40
Consensus pattern (33 bp):
CTTTTCAAGTTGTACACACAAAGTGTACATTTC
Found at i:62602743 original size:31 final size:32
Alignment explanation
Indices: 62602703--62602780 Score: 90
Period size: 31 Copynumber: 2.5 Consensus size: 32
62602693 ATACTAAATA
*
62602703 AATAATATTAAAATAATAATAAATATCTCATT
1 AATAATATTAAAATAATAATAAATATCTAATT
**
62602735 AA-AATATTAATAA-AATAATATTTATCTAATT
1 AATAATATTAA-AATAATAATAAATATCTAATT
62602766 AATTAAT-TTAAAATA
1 AA-TAATATTAAAATA
62602781 TCATCAACAT
Statistics
Matches: 39, Mismatches: 3, Indels: 8
0.78 0.06 0.16
Matches are distributed among these distances:
31 27 0.69
32 9 0.23
33 3 0.08
ACGTcount: A:0.56, C:0.04, G:0.00, T:0.40
Consensus pattern (32 bp):
AATAATATTAAAATAATAATAAATATCTAATT
Found at i:62606220 original size:21 final size:21
Alignment explanation
Indices: 62606196--62606235 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
62606186 TAGAATAGTT
* *
62606196 TTTTTTACTAATGTTTGTAAG
1 TTTTATACTAATATTTGTAAG
*
62606217 TTTTATACTATTATTTGTA
1 TTTTATACTAATATTTGTA
62606236 TTGGTTGTAA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.25, C:0.05, G:0.10, T:0.60
Consensus pattern (21 bp):
TTTTATACTAATATTTGTAAG
Found at i:62613229 original size:37 final size:37
Alignment explanation
Indices: 62613107--62613664 Score: 503
Period size: 36 Copynumber: 15.2 Consensus size: 37
62613097 ATTGAGTATA
* * *
62613107 ATCAGTGGATAATGCTCGTTTGAGCACGTATTCAGT-GTA
1 ATCAGTAGATATTGCTCGTTTGAGCAC--ATTCAGTAG-G
* * * *
62613146 ATCAGTGGATATTACTTGTTTGAGCAACTATTCAGTAGA
1 ATCAGTAGATATTGCTCGTTTGAGC-AC-ATTCAGTAGG
* *
62613185 ATCAGTAGACATTGCTTGTTTGAGCACATTCAGTAGG
1 ATCAGTAGATATTGCTCGTTTGAGCACATTCAGTAGG
* * *
62613222 A-CGAGTAGATATTCCTTG-TTGAGCAC-TTCTAGTAGA
1 ATC-AGTAGATATTGCTCGTTTGAGCACATTC-AGTAGG
* * * *
62613258 ATTAGTAGATATTACTCTTTTGTA-CAC-TTCATTAGG
1 ATCAGTAGATATTGCTCGTTTG-AGCACATTCAGTAGG
* *
62613294 ATCAGTAGACATTGCTCGTTTGAGCACATTTAGTAGG
1 ATCAGTAGATATTGCTCGTTTGAGCACATTCAGTAGG
*
62613331 ATCAGTAGATATTGCTCG-TTGAGCACTTTCAGTAGG
1 ATCAGTAGATATTGCTCGTTTGAGCACATTCAGTAGG
* * * * *
62613367 ACCAGTAGATATTGTTCG-TTGAGCACTTTCAATAGA
1 ATCAGTAGATATTGCTCGTTTGAGCACATTCAGTAGG
* * *
62613403 ATCAGTAGATATTGTTCTTTTGAGCACATTCAGTAGA
1 ATCAGTAGATATTGCTCGTTTGAGCACATTCAGTAGG
* * * *
62613440 ATAAGTAGACATTGCTCGTTTGAGCATATTCAATAGG
1 ATCAGTAGATATTGCTCGTTTGAGCACATTCAGTAGG
* *
62613477 ATCAGTAGATATTGCTCG-TTGAGCACTTTCAGTAGT
1 ATCAGTAGATATTGCTCGTTTGAGCACATTCAGTAGG
* *
62613513 ATCAGTAGATATTGCTCGTTTGAGCACTTTCAGTAGA
1 ATCAGTAGATATTGCTCGTTTGAGCACATTCAGTAGG
* ** * *
62613550 ATCAATAGGCATTGCTCGTTTGAGCTCGTTCAGTAGG
1 ATCAGTAGATATTGCTCGTTTGAGCACATTCAGTAGG
* *** * *
62613587 ATCAATAGATATTGCT--TATTGAGCTTTTTCAATAGT
1 ATCAGTAGATATTGCTCGT-TTGAGCACATTCAGTAGG
* * *
62613623 ATCAGTAGATATTACTTG-TTGAGCAC-TTCAGTAGA
1 ATCAGTAGATATTGCTCGTTTGAGCACATTCAGTAGG
62613658 ATCAGTA
1 ATCAGTA
62613665 TTCCATTTTT
Statistics
Matches: 440, Mismatches: 65, Indels: 32
0.82 0.12 0.06
Matches are distributed among these distances:
35 19 0.04
36 182 0.41
37 180 0.41
38 3 0.01
39 53 0.12
40 3 0.01
ACGTcount: A:0.28, C:0.15, G:0.21, T:0.35
Consensus pattern (37 bp):
ATCAGTAGATATTGCTCGTTTGAGCACATTCAGTAGG
Found at i:62613317 original size:73 final size:72
Alignment explanation
Indices: 62613101--62613664 Score: 455
Period size: 73 Copynumber: 7.7 Consensus size: 72
62613091 AATCTTATTG
* * * * * * * *
62613101 AGTATAATCAGTGGATAATGCTCGTTTGAGCACGTATTCAGT-GTAATCAGTGGATATTACTTGT
1 AGTAGAATCAGTAGATATTGCTCG-TTGAGCAC-T-TTCAGTAG-GATCAGTAGACATTGCTCGT
62613165 TTGAGCAACTATT
62 TTGAGC-ACT-TT
* * * * * *
62613178 CAGTAGAATCAGTAGACATTGCTTGTTTGAGCACATTCAGTAGGA-CGAGTAGATATTCCTTG-T
1 -AGTAGAATCAGTAGATATTGCTCG-TTGAGCACTTTCAGTAGGATC-AGTAGACATTGCTCGTT
62613241 TGAGCACTTCT
63 TGAGCACTT-T
* * * *
62613252 AGTAGAATTAGTAGATATTACTCTTTTGTA-CAC-TTCATTAGGATCAGTAGACATTGCTCGTTT
1 AGTAGAATCAGTAGATATTGCTC-GTTG-AGCACTTTCAGTAGGATCAGTAGACATTGCTCGTTT
62613315 GAGCACATTT
64 GAGCAC-TTT
* * * *
62613325 AGTAGGATCAGTAGATATTGCTCGTTGAGCACTTTCAGTAGGACCAGTAGATATTGTTCG-TTGA
1 AGTAGAATCAGTAGATATTGCTCGTTGAGCACTTTCAGTAGGATCAGTAGACATTGCTCGTTTGA
62613389 GCACTTT
66 GCACTTT
* * * * * *
62613396 CAATAGAATCAGTAGATATTGTTCTTTTGAGCACATTCAGTAGAATAAGTAGACATTGCTCGTTT
1 -AGTAGAATCAGTAGATATTGCTC-GTTGAGCACTTTCAGTAGGATCAGTAGACATTGCTCGTTT
62613461 GAGCA-TATT
64 GAGCACT-TT
* * * *
62613470 CAATAGGATCAGTAGATATTGCTCGTTGAGCACTTTCAGTAGTATCAGTAGATATTGCTCGTTTG
1 -AGTAGAATCAGTAGATATTGCTCGTTGAGCACTTTCAGTAGGATCAGTAGACATTGCTCGTTTG
62613535 AGCACTTT
65 AGCACTTT
* ** * * * *
62613543 CAGTAGAATCAATAGGCATTGCTCGTTTGAGCTCGTTCAGTAGGATCAATAGATATTGCT--TAT
1 -AGTAGAATCAGTAGATATTGCTCG-TTGAGCACTTTCAGTAGGATCAGTAGACATTGCTCGT-T
**
62613606 TGAGCTTTTT
63 TGAGCACTTT
* * * * *
62613616 CAATAGTATCAGTAGATATTACTTGTTGAGCAC-TTCAGTAGAATCAGTA
1 -AGTAGAATCAGTAGATATTGCTCGTTGAGCACTTTCAGTAGGATCAGTA
62613665 TTCCATTTTT
Statistics
Matches: 405, Mismatches: 64, Indels: 41
0.79 0.13 0.08
Matches are distributed among these distances:
71 18 0.04
72 63 0.16
73 199 0.49
74 69 0.17
75 7 0.02
76 20 0.05
77 1 0.00
78 28 0.07
ACGTcount: A:0.28, C:0.15, G:0.21, T:0.35
Consensus pattern (72 bp):
AGTAGAATCAGTAGATATTGCTCGTTGAGCACTTTCAGTAGGATCAGTAGACATTGCTCGTTTGA
GCACTTT
Found at i:62613376 original size:109 final size:110
Alignment explanation
Indices: 62613101--62613664 Score: 536
Period size: 110 Copynumber: 5.1 Consensus size: 110
62613091 AATCTTATTG
* * * * * * * *
62613101 AGTATAATCAGTGGATAATGCTCGTTTGAGCACGTATTCAGT-GTAATCAGTGGATATTACTTGT
1 AGTAGAATCAGTAGACATTGCTCGTTTGAGCAC-T-TTCAGTAG-GATCAGTAGATATTGCTCG-
*
62613165 TTGAGCAACTATTCAGTAGAATCAGTAGACATTGCTTGTTTGAGCACATTC
62 TTGAGC-ACT-TTCAGTAGAATCAGTAGACATTGCTCGTTTGAGCACATTC
* * * * * * * *
62613216 AGTAGGA-CGAGTAGATATTCCTTG-TTGAGCAC-TTCTAGTAGAATTAGTAGATATTACTCTTT
1 AGTAGAATC-AGTAGACATTGCTCGTTTGAGCACTTTC-AGTAGGATCAGTAGATATTGCTC-GT
* * *
62613278 TGTA-CAC-TTCATTAGGATCAGTAGACATTGCTCGTTTGAGCACATTT
63 TG-AGCACTTTCAGTAGAATCAGTAGACATTGCTCGTTTGAGCACATTC
* * * *
62613325 AGTAGGATCAGTAGATATTGCTCG-TTGAGCACTTTCAGTAGGACCAGTAGATATTGTTCGTTGA
1 AGTAGAATCAGTAGACATTGCTCGTTTGAGCACTTTCAGTAGGATCAGTAGATATTGCTCGTTGA
* * * *
62613389 GCACTTTCAATAGAATCAGTAGATATTGTTCTTTTGAGCACATTC
66 GCACTTTCAGTAGAATCAGTAGACATTGCTCGTTTGAGCACATTC
* *
62613434 AGTAGAATAAGTAGACATTGCTCGTTTGAGCA-TATTCAATAGGATCAGTAGATATTGCTCGTTG
1 AGTAGAATCAGTAGACATTGCTCGTTTGAGCACT-TTCAGTAGGATCAGTAGATATTGCTCGTTG
* * *
62613498 AGCACTTTCAGTAGTATCAGTAGATATTGCTCGTTTGAGCACTTTC
65 AGCACTTTCAGTAGAATCAGTAGACATTGCTCGTTTGAGCACATTC
* * * * * **
62613544 AGTAGAATCAATAGGCATTGCTCGTTTGAGCTCGTTCAGTAGGATCAATAGATATTGCTTATTGA
1 AGTAGAATCAGTAGACATTGCTCGTTTGAGCACTTTCAGTAGGATCAGTAGATATTGCTCGTTGA
** * * * * *
62613609 GCTTTTTCAATAGTATCAGTAGATATTACTTG-TTGAGCAC-TTC
66 GCACTTTCAGTAGAATCAGTAGACATTGCTCGTTTGAGCACATTC
62613652 AGTAGAATCAGTA
1 AGTAGAATCAGTA
62613665 TTCCATTTTT
Statistics
Matches: 383, Mismatches: 54, Indels: 31
0.82 0.12 0.07
Matches are distributed among these distances:
107 1 0.00
108 21 0.05
109 146 0.38
110 161 0.42
111 5 0.01
112 22 0.06
113 2 0.01
114 9 0.02
115 16 0.04
ACGTcount: A:0.28, C:0.15, G:0.21, T:0.35
Consensus pattern (110 bp):
AGTAGAATCAGTAGACATTGCTCGTTTGAGCACTTTCAGTAGGATCAGTAGATATTGCTCGTTGA
GCACTTTCAGTAGAATCAGTAGACATTGCTCGTTTGAGCACATTC
Found at i:62617818 original size:26 final size:26
Alignment explanation
Indices: 62617782--62617891 Score: 175
Period size: 26 Copynumber: 4.2 Consensus size: 26
62617772 TGATACAAAT
* *
62617782 TGATAATAGGTTAGGTAAATGTTCCG
1 TGATAATAGGTTAGGTAAATGTTTCA
62617808 TGATAATAGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTTCA
*
62617834 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTTCA
**
62617860 TGATAACGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTTCA
62617886 TGATAA
1 TGATAA
62617892 GAATTTCATG
Statistics
Matches: 80, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
26 80 1.00
ACGTcount: A:0.33, C:0.05, G:0.25, T:0.36
Consensus pattern (26 bp):
TGATAATAGGTTAGGTAAATGTTTCA
Found at i:62626893 original size:48 final size:48
Alignment explanation
Indices: 62626837--62626938 Score: 181
Period size: 48 Copynumber: 2.2 Consensus size: 48
62626827 ATAAAAAAAA
*
62626837 GTAT-AAAAAATGAAACTAAAAAGGTTAAGGATTGAATTGCAAATTGG
1 GTATAAAAAAATGAAACTAAAAAGGTTAAGGATTGAATTGAAAATTGG
62626884 GTATAAAAAAATGAAACTAAAAAGGTTAAGGATTGAATTGAAAATTGG
1 GTATAAAAAAATGAAACTAAAAAGGTTAAGGATTGAATTGAAAATTGG
62626932 G-ATAAAA
1 GTATAAAA
62626939 TTAGGGGGTA
Statistics
Matches: 53, Mismatches: 1, Indels: 2
0.95 0.02 0.04
Matches are distributed among these distances:
47 10 0.19
48 43 0.81
ACGTcount: A:0.52, C:0.03, G:0.21, T:0.25
Consensus pattern (48 bp):
GTATAAAAAAATGAAACTAAAAAGGTTAAGGATTGAATTGAAAATTGG
Found at i:62635778 original size:18 final size:18
Alignment explanation
Indices: 62635752--62635786 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
62635742 ATAAGGATTT
*
62635752 TAAAGATAAATTAAATCG
1 TAAAAATAAATTAAATCG
62635770 TAAAAATAAATTAAATC
1 TAAAAATAAATTAAATC
62635787 ATTTGCAAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.60, C:0.06, G:0.06, T:0.29
Consensus pattern (18 bp):
TAAAAATAAATTAAATCG
Found at i:62642052 original size:21 final size:23
Alignment explanation
Indices: 62642005--62642058 Score: 60
Period size: 23 Copynumber: 2.5 Consensus size: 23
62641995 CATTCAAGAT
**
62642005 AAAATAATATATAAAACTCTTTA
1 AAAATAATATATAAAACTAATTA
*
62642028 AAAATAATATAT-AAAC-AATTC
1 AAAATAATATATAAAACTAATTA
62642049 AAAAT-ATATA
1 AAAATAATATA
62642059 ATGTGTAAAA
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
20 5 0.18
21 7 0.25
22 4 0.14
23 12 0.43
ACGTcount: A:0.61, C:0.07, G:0.00, T:0.31
Consensus pattern (23 bp):
AAAATAATATATAAAACTAATTA
Found at i:62642274 original size:52 final size:52
Alignment explanation
Indices: 62642218--62642343 Score: 145
Period size: 52 Copynumber: 2.4 Consensus size: 52
62642208 CAAAAGTAAA
* * *
62642218 AAAAATATAAGAAAAATAATAATGAAAATAATATTAG-TATATAAATAG-AAAT
1 AAAAATAT-AGATAAATAATAAT-AAAATAATAGTAGAAATATAAATAGAAAAT
*
62642270 AAAAATATA-ATAAATAGA-AATATAATAATAGTAGAAATATAAATAGATAAAT
1 AAAAATATAGATAAATA-ATAATAAAATAATAGTAGAAATATAAATAGA-AAAT
62642322 AAAAAT-TAGATAAATAATAATA
1 AAAAATATAGATAAATAATAATA
62642344 GTATTAGAAT
Statistics
Matches: 64, Mismatches: 4, Indels: 12
0.80 0.05 0.15
Matches are distributed among these distances:
49 11 0.17
50 19 0.30
51 5 0.08
52 29 0.45
ACGTcount: A:0.66, C:0.00, G:0.07, T:0.27
Consensus pattern (52 bp):
AAAAATATAGATAAATAATAATAAAATAATAGTAGAAATATAAATAGAAAAT
Found at i:62642290 original size:15 final size:15
Alignment explanation
Indices: 62642266--62642311 Score: 65
Period size: 15 Copynumber: 2.9 Consensus size: 15
62642256 ATATAAATAG
*
62642266 AAATAAAAATATAAT
1 AAATAGAAATATAAT
62642281 AAATAGAAATATAAT
1 AAATAGAAATATAAT
62642296 AATAGTAGAAATATAA
1 AA-A-TAGAAATATAA
62642312 ATAGATAAAT
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
15 16 0.57
16 1 0.04
17 11 0.39
ACGTcount: A:0.67, C:0.00, G:0.07, T:0.26
Consensus pattern (15 bp):
AAATAGAAATATAAT
Found at i:62642312 original size:29 final size:28
Alignment explanation
Indices: 62642279--62642386 Score: 85
Period size: 29 Copynumber: 3.8 Consensus size: 28
62642269 TAAAAATATA
*
62642279 ATAAATAGAAATATAATAATAGTAGAAAT
1 ATAAATAGAAATATAATAATAG-ATAAAT
*
62642308 ATAAATAGATAA-ATAAAAATTAGATAAAT
1 ATAAATAGA-AATATAATAA-TAGATAAAT
* * * * *
62642337 A-ATAATAGTATTAGAATAACAAAATAAAT
1 ATA-AATAGAAATATAATAA-TAGATAAAT
*
62642366 ATAAATAGAAACATAATAATA
1 ATAAATAGAAATATAATAATA
62642387 ATAGCAAAAA
Statistics
Matches: 60, Mismatches: 14, Indels: 11
0.71 0.16 0.13
Matches are distributed among these distances:
28 3 0.05
29 51 0.85
30 6 0.10
ACGTcount: A:0.64, C:0.02, G:0.07, T:0.27
Consensus pattern (28 bp):
ATAAATAGAAATATAATAATAGATAAAT
Found at i:62642314 original size:44 final size:44
Alignment explanation
Indices: 62642260--62642346 Score: 108
Period size: 44 Copynumber: 2.0 Consensus size: 44
62642250 ATTAGTATAT
62642260 AAATAGAAATA-A-AAATATAATAAATAGA-AATATAATAATAGTAG
1 AAATAGAAATAGATAAATA-AA-AAATAGATAA-ATAATAATAGTAG
* *
62642304 AAATATAAATAGATAAATAAAAATTAGATAAATAATAATAGTA
1 AAATAGAAATAGATAAATAAAAAATAGATAAATAATAATAGTA
62642347 TTAGAATAAC
Statistics
Matches: 38, Mismatches: 2, Indels: 6
0.83 0.04 0.13
Matches are distributed among these distances:
44 28 0.74
45 5 0.13
46 5 0.13
ACGTcount: A:0.66, C:0.00, G:0.08, T:0.26
Consensus pattern (44 bp):
AAATAGAAATAGATAAATAAAAAATAGATAAATAATAATAGTAG
Found at i:62642331 original size:15 final size:14
Alignment explanation
Indices: 62642258--62642374 Score: 62
Period size: 15 Copynumber: 8.1 Consensus size: 14
62642248 ATATTAGTAT
*
62642258 ATAAATAGAAATA-
1 ATAAATAAAAATAG
*
62642271 AAAATATAATAAATAG
1 ATAA-ATAA-AAATAG
*
62642287 A-AATATAATAATAG
1 ATAA-ATAAAAATAG
* *
62642301 TAGAAATATAAATAG
1 -ATAAATAAAAATAG
62642316 ATAAATAAAAATTAG
1 ATAAATAAAAA-TAG
*
62642331 ATAAATAATAATAG
1 ATAAATAAAAATAG
*
62642345 TATTAGAATAACAA-A-
1 -A-TA-AATAAAAATAG
*
62642360 ATAAATATAAATAG
1 ATAAATAAAAATAG
62642374 A
1 A
62642375 AACATAATAA
Statistics
Matches: 82, Mismatches: 11, Indels: 21
0.72 0.10 0.18
Matches are distributed among these distances:
12 6 0.07
13 6 0.07
14 22 0.27
15 35 0.43
16 6 0.07
17 7 0.09
ACGTcount: A:0.65, C:0.01, G:0.08, T:0.26
Consensus pattern (14 bp):
ATAAATAAAAATAG
Found at i:62649203 original size:12 final size:13
Alignment explanation
Indices: 62649188--62649217 Score: 53
Period size: 12 Copynumber: 2.4 Consensus size: 13
62649178 AAGGCATCTT
62649188 AAAAAAAAG-GAA
1 AAAAAAAAGAGAA
62649200 AAAAAAAAGAGAA
1 AAAAAAAAGAGAA
62649213 AAAAA
1 AAAAA
62649218 GGGTGATCAA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 9 0.53
13 8 0.47
ACGTcount: A:0.87, C:0.00, G:0.13, T:0.00
Consensus pattern (13 bp):
AAAAAAAAGAGAA
Found at i:62650448 original size:75 final size:74
Alignment explanation
Indices: 62650178--62650711 Score: 544
Period size: 75 Copynumber: 7.3 Consensus size: 74
62650168 CGATTTCTGT
* * * * * * *
62650178 TTTTCAATTTATGTTTTC-AAA-AATCAATTCATATTGCTATAGGTGAATTGAGCCTCGGGGCAC
1 TTTTCAATTTCTGTTTTCAAAATAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACAC
62650241 GCTGAGGTA
66 GCTGAGGTA
**
62650250 TTTTCAATTAT-TGTTTGTCAAAA-AATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGGAC
1 TTTTCAATT-TCTGTTT-TCAAAATAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGAC
*
62650313 ACGCTGAGATAA
64 ACGCTGAGGT-A
* * * * *
62650325 TTTT-TATTTCTG-TTTCAAAAT--TCAACTCATACTGCAAGAAGTGAGTTGAGCCTCAAGACAC
1 TTTTCAATTTCTGTTTTCAAAATAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACAC
*
62650386 GTTGAGGTA
66 GCTGAGGTA
* **
62650395 TTTTCAATTTCTATCTTTCAAAATAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGGACA
1 TTTTCAATTTCTGT-TTTCAAAATAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACA
*
62650460 CGCTGAGATAA
65 CGCTGAGGT-A
* * * * *
62650471 TTTT-TATTTCTG-TTTCAAAAT--TCAACTCATACTGCAAGAAGTGAGTTGAGCCTCAAGACAC
1 TTTTCAATTTCTGTTTTCAAAATAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACAC
*
62650532 GTTGAGGTA
66 GCTGAGGTA
*
62650541 TTTTCAATTTCTATCTTTCAAAATAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACA
1 TTTTCAATTTCTGT-TTTCAAAATAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACA
62650606 CGCTGAGGTAA
65 CGCTGAGGT-A
* * * * *
62650617 TTTT-GATCTCCGTTTTC-GAA-AATCAACTCATATTGCGAGAGGTGAGTGGAGCCTCA-GATCA
1 TTTTCAATTTCTGTTTTCAAAATAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGA-CA
62650678 CATG-TCGAGGTA
65 C--GCT-GAGGTA
*
62650690 TTTTCAAATTCTGCTTTTCAAA
1 TTTTCAATTTCTG-TTTTCAAA
62650712 TTAAGTTTCA
Statistics
Matches: 383, Mismatches: 54, Indels: 46
0.79 0.11 0.10
Matches are distributed among these distances:
70 10 0.03
71 94 0.25
72 58 0.15
73 41 0.11
74 65 0.17
75 104 0.27
76 11 0.03
ACGTcount: A:0.29, C:0.17, G:0.20, T:0.34
Consensus pattern (74 bp):
TTTTCAATTTCTGTTTTCAAAATAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACAC
GCTGAGGTA
Found at i:62650457 original size:146 final size:146
Alignment explanation
Indices: 62650192--62650701 Score: 706
Period size: 146 Copynumber: 3.5 Consensus size: 146
62650182 CAATTTATGT
* * * * * * * ** * *
62650192 TTTCAAAAATCAATTCATATTGCTATAGGTGAATTGAGCCTCGGGGCACGCTGAGGTATTTTCAA
1 TTTCAAAATTCAACTCATACTGCAAGAAGTGAGTTGAGCCTCAAGACACGTTGAGGTATTTTCAA
*
62650257 TTAT-TGT-TTGTCAAAA-AATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGGACACGCTG
66 TT-TCTATCTT-TCAAAATAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGGACACGCTG
62650319 AGATAATTTTTATTTCTG
129 AGATAATTTTTATTTCTG
62650337 TTTCAAAATTCAACTCATACTGCAAGAAGTGAGTTGAGCCTCAAGACACGTTGAGGTATTTTCAA
1 TTTCAAAATTCAACTCATACTGCAAGAAGTGAGTTGAGCCTCAAGACACGTTGAGGTATTTTCAA
62650402 TTTCTATCTTTCAAAATAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGGACACGCTGAG
66 TTTCTATCTTTCAAAATAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGGACACGCTGAG
62650467 ATAATTTTTATTTCTG
131 ATAATTTTTATTTCTG
62650483 TTTCAAAATTCAACTCATACTGCAAGAAGTGAGTTGAGCCTCAAGACACGTTGAGGTATTTTCAA
1 TTTCAAAATTCAACTCATACTGCAAGAAGTGAGTTGAGCCTCAAGACACGTTGAGGTATTTTCAA
**
62650548 TTTCTATCTTTCAAAATAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAG
66 TTTCTATCTTTCAAAATAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGGACACGCTGAG
* * * *
62650613 GTAATTTTGATCTCCG
131 ATAATTTTTATTTCTG
* * * * *
62650629 TTTTCGAAAA-TCAACTCATATTGCGAGAGGTGAGTGGAGCCTC-AGATCACATGTCGAGGTATT
1 -TTTC-AAAATTCAACTCATACTGCAAGAAGTGAGTTGAGCCTCAAGA-CAC--GTTGAGGTATT
*
62650692 TTCAAATTCT
61 TTCAATTTCT
62650702 GCTTTTCAAA
Statistics
Matches: 333, Mismatches: 24, Indels: 12
0.90 0.07 0.03
Matches are distributed among these distances:
144 1 0.00
145 64 0.19
146 209 0.63
147 36 0.11
148 4 0.01
149 19 0.06
ACGTcount: A:0.29, C:0.17, G:0.21, T:0.33
Consensus pattern (146 bp):
TTTCAAAATTCAACTCATACTGCAAGAAGTGAGTTGAGCCTCAAGACACGTTGAGGTATTTTCAA
TTTCTATCTTTCAAAATAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGGACACGCTGAG
ATAATTTTTATTTCTG
Found at i:62655030 original size:88 final size:88
Alignment explanation
Indices: 62654879--62655264 Score: 549
Period size: 88 Copynumber: 4.4 Consensus size: 88
62654869 GCTTATGATT
* *
62654879 TGTAATCTTCAGCCTGCTT-CCTTACTGCTTAGGGGGATAAGGCTCACCGTCTTCAATCCGCTCC
1 TGTAATCTTCAGCCTG-TTACCCTACTGCTTAGGGGGTTAAGGCTCACCGTCTTCAATCCGCTCC
* *
62654943 ACTATTGCTTAGGGAGATAAGATT
65 ACTACTGCTTAGGGAGATAAGATC
* * * * * * *
62654967 TGTAATTTTCAGCCTATTTCCCTACTACTTAGGGGGTTAAGGCTCATCGTCTTCGATCTGCTCCA
1 TGTAATCTTCAGCCTGTTACCCTACTGCTTAGGGGGTTAAGGCTCACCGTCTTCAATCCGCTCCA
*
62655032 TTACTGCTTAGGGAGATAAGATC
66 CTACTGCTTAGGGAGATAAGATC
* * * * * **
62655055 TGTAATCTCCAGCCTGCTAACCTACTGCTTAGGGGGTTAAGGCTCACTGCCTTTGATCCGCTCCA
1 TGTAATCTTCAGCCTGTTACCCTACTGCTTAGGGGGTTAAGGCTCACCGTCTTCAATCCGCTCCA
62655120 CTACTGCTTAGGGAGATAAGATC
66 CTACTGCTTAGGGAGATAAGATC
* *
62655143 TGTAATCTTCAGCCTGTTACCCTACTGCTTAGGGGGTTAAGGCTCACCATTTTCAATCCGCTCCA
1 TGTAATCTTCAGCCTGTTACCCTACTGCTTAGGGGGTTAAGGCTCACCGTCTTCAATCCGCTCCA
*
62655208 CTACTGCTTAGGGAGATAAGATA
66 CTACTGCTTAGGGAGATAAGATC
*
62655231 TGTAATCTTCAGCCTGTTACCCTACTGCTCAGGG
1 TGTAATCTTCAGCCTGTTACCCTACTGCTTAGGG
62655265 AGATAAGATC
Statistics
Matches: 262, Mismatches: 35, Indels: 2
0.88 0.12 0.01
Matches are distributed among these distances:
87 2 0.01
88 260 0.99
ACGTcount: A:0.22, C:0.25, G:0.21, T:0.32
Consensus pattern (88 bp):
TGTAATCTTCAGCCTGTTACCCTACTGCTTAGGGGGTTAAGGCTCACCGTCTTCAATCCGCTCCA
CTACTGCTTAGGGAGATAAGATC
Found at i:62655072 original size:44 final size:44
Alignment explanation
Indices: 62655033--62655275 Score: 187
Period size: 44 Copynumber: 5.5 Consensus size: 44
62655023 TCTGCTCCAT
* *
62655033 TACTGCTTAGGGAGATAAGATCTGTAATCTCCAGCCTGCTAACC
1 TACTGCTTAGGGAGATAAGATCTGTAATCTTCAGCCTGCTACCC
* * * * * * *
62655077 TACTGCTTAGGGGGTTAAG-GCT-CACTGCCTTTGATCC-GCT-CCAC
1 TACTGCTTAGGGAGATAAGATCTGTAAT--C-TTCAGCCTGCTACC-C
*
62655121 TACTGCTTAGGGAGATAAGATCTGTAATCTTCAGCCTGTTACCC
1 TACTGCTTAGGGAGATAAGATCTGTAATCTTCAGCCTGCTACCC
* * * * * *
62655165 TACTGCTTAGGGGGTTAAG-GCT-CACCATTTTCAATCC-GCT-CCAC
1 TACTGCTTAGGGAGATAAGATCTGTA--ATCTTC-AGCCTGCTACC-C
* *
62655209 TACTGCTTAGGGAGATAAGATATGTAATCTTCAGCCTGTTACCC
1 TACTGCTTAGGGAGATAAGATCTGTAATCTTCAGCCTGCTACCC
*
62655253 TACTGCTCAGGGAGATAAGATCT
1 TACTGCTTAGGGAGATAAGATCT
62655276 AAAATTTTCA
Statistics
Matches: 149, Mismatches: 34, Indels: 32
0.69 0.16 0.15
Matches are distributed among these distances:
42 3 0.02
43 15 0.10
44 114 0.77
45 14 0.09
46 3 0.02
ACGTcount: A:0.24, C:0.25, G:0.22, T:0.30
Consensus pattern (44 bp):
TACTGCTTAGGGAGATAAGATCTGTAATCTTCAGCCTGCTACCC
Found at i:62655492 original size:178 final size:178
Alignment explanation
Indices: 62655263--62656538 Score: 1714
Period size: 178 Copynumber: 7.2 Consensus size: 178
62655253 TACTGCTCAG
** *
62655263 GGAGATAAGATCTAAAATTTTCAGTCTGCTTCCTTGTTACCTCAGGAAGATAAGACTTGTATCTT
1 GGAGATAAGATCTGTAATTTTCAGTCTGCTTCCTTGCTACCTCAGGAAGATAAGACTTGTATCTT
* * * *
62655328 CGACTTGCTCTCTTGCTACCTTAGAGAGATAAAGCCGGTGGTTAAAATCTGCTCTATAGCTGATA
66 CAACTTGCTCTCTTGCTACCTTAGAGAGATAAGGCCGGTGGCTAAAATCTGCTCCATAGCTGATA
* * **
62655393 CATGGAGATAAGACTCGCCATTTTTTATCTGCTCTATAGTCGATATGT
131 CATGGAGATAAGACTCGCCATTTTTGATCTGCTCTATAGCCGATACAT
* * * *
62655441 GGAGATAAGATCTGTAATTTTCAGTTTGCTTCTTTGCTACCTCAAGAAGATAAGACTTGTATCAT
1 GGAGATAAGATCTGTAATTTTCAGTCTGCTTCCTTGCTACCTCAGGAAGATAAGACTTGTATCTT
* * * *
62655506 CAACCTGCTCTCTTACTACCTTAGAGAGATAAGGCCGATGGCTAAAATCTGCTCCATAGCCGATA
66 CAACTTGCTCTCTTGCTACCTTAGAGAGATAAGGCCGGTGGCTAAAATCTGCTCCATAGCTGATA
* * * * *
62655571 CATAGAGACAAGACTCGCCATTTTTTATTTGCTCTATAGCCGATATAT
131 CATGGAGATAAGACTCGCCATTTTTGATCTGCTCTATAGCCGATACAT
*
62655619 GGAGATAAGATCTGTAATTTTCAGTCTGCTTCTTTGCTACCTCAGGAAGATAAGACTTGTATCTT
1 GGAGATAAGATCTGTAATTTTCAGTCTGCTTCCTTGCTACCTCAGGAAGATAAGACTTGTATCTT
* *
62655684 CAACTTGCTCTCTTGCTACCTTAGAGAGATAAGGCTGATGGCTAAAATCTGCTCCATAG-TCGAT
66 CAACTTGCTCTCTTGCTACCTTAGAGAGATAAGGCCGGTGGCTAAAATCTGCTCCATAGCT-GAT
* * * *
62655748 ACATGGAGACAAGACTCGCCATTTCTGATATGCTCCATAGCCGATACAT
130 ACATGGAGATAAGACTCGCCATTTTTGATCTGCTCTATAGCCGATACAT
* * *
62655797 GGAGACAAGATCTGTAATTTTCAATCTGCTTCCTTGCTACCTTAGGAAGATAAGACTTGTATCTT
1 GGAGATAAGATCTGTAATTTTCAGTCTGCTTCCTTGCTACCTCAGGAAGATAAGACTTGTATCTT
*
62655862 CAACTTGCTCTCTTGCTACCTTAGAGAGATAAGGCCGATGGCTAAAATCTGCTCCATAGAC-GAT
66 CAACTTGCTCTCTTGCTACCTTAGAGAGATAAGGCCGGTGGCTAAAATCTGCTCCATAG-CTGAT
* * * *
62655926 ACATGGAGACAAGACTCGCCATTTTTGATATGTTCCATAGCCGATACAT
130 ACATGGAGATAAGACTCGCCATTTTTGATCTGCTCTATAGCCGATACAT
*
62655975 GGAGATAAGATCTGTAATTTTTAGTCTGCTTCCTTGCTACCTCAGGAAGATAAGACTTGTATCTT
1 GGAGATAAGATCTGTAATTTTCAGTCTGCTTCCTTGCTACCTCAGGAAGATAAGACTTGTATCTT
* * * * * * *
62656040 CAACTTGCTCTTTTGCTACCTCAAAGAGATAAGGCTGGTGGCTAACATATGCTCCATAGCCGATA
66 CAACTTGCTCTCTTGCTACCTTAGAGAGATAAGGCCGGTGGCTAAAATCTGCTCCATAGCTGATA
* * * *
62656105 CATGGAGATAAAACTCGTCATTTCTGATCTGCTCTATAGCCGATACAC
131 CATGGAGATAAGACTCGCCATTTTTGATCTGCTCTATAGCCGATACAT
* * * * *
62656153 AGAGATAAGGTCTGTAATTTTCAGTCTGCTTCCTTGCCACCTCAAGAAGATAAGACTTGTGA-AT
1 GGAGATAAGATCTGTAATTTTCAGTCTGCTTCCTTGCTACCTCAGGAAGATAAGACTTGT-ATCT
* * * * ** * * * *
62656217 TCAACCTGTTCTCTTGCTTCCTCAGAGAGATAAGGTTGGTGGCTAAAATGTACTCTATAGCGGAT
65 TCAACTTGCTCTCTTGCTACCTTAGAGAGATAAGGCCGGTGGCTAAAATCTGCTCCATAGCTGAT
* * * *
62656282 ACATGGAGATAAGACTCGCCATTTTCGATCTACTCCATAGTCGATACAT
130 ACATGGAGATAAGACTCGCCATTTTTGATCTGCTCTATAGCCGATACAT
*
62656331 GGAGATAAGATTTGTAATTTTCAGTCTGCTTCCTTGCTACCTCAGGAAGATAAGACTTGTATCTT
1 GGAGATAAGATCTGTAATTTTCAGTCTGCTTCCTTGCTACCTCAGGAAGATAAGACTTGTATCTT
* * * * * **
62656396 CAACCTGCTCTCTTGCTACCTCAGAGAGATAAGGCAGGTGCCTAAAATCTACTAGATAG-TCGAT
66 CAACTTGCTCTCTTGCTACCTTAGAGAGATAAGGCCGGTGGCTAAAATCTGCTCCATAGCT-GAT
* *
62656460 ACATGGAGATAAGACTCGCCATTTCTGATCTACTCTATAGCCGATACAT
130 ACATGGAGATAAGACTCGCCATTTTTGATCTGCTCTATAGCCGATACAT
** * * * *
62656509 AAAGATAAAATCTATAATTTTTAGCCTGCT
1 GGAGATAAGATCTGTAATTTTCAGTCTGCT
62656539 ACCCTACTGC
Statistics
Matches: 981, Mismatches: 110, Indels: 14
0.89 0.10 0.01
Matches are distributed among these distances:
177 2 0.00
178 978 1.00
179 1 0.00
ACGTcount: A:0.28, C:0.21, G:0.19, T:0.32
Consensus pattern (178 bp):
GGAGATAAGATCTGTAATTTTCAGTCTGCTTCCTTGCTACCTCAGGAAGATAAGACTTGTATCTT
CAACTTGCTCTCTTGCTACCTTAGAGAGATAAGGCCGGTGGCTAAAATCTGCTCCATAGCTGATA
CATGGAGATAAGACTCGCCATTTTTGATCTGCTCTATAGCCGATACAT
Found at i:62656382 original size:45 final size:44
Alignment explanation
Indices: 62656332--62656428 Score: 117
Period size: 44 Copynumber: 2.2 Consensus size: 44
62656322 TCGATACATG
* * **
62656332 GAGATAAGATTTGTAATTTTCAGTCTGCT-TCCTTGCTACCTCAG-
1 GAGATAAGACTTGT-ATCTTCAACCTGCTCT-CTTGCTACCTCAGA
62656376 GAAGATAAGACTTGTATCTTCAACCTGCTCTCTTGCTACCTCAGA
1 G-AGATAAGACTTGTATCTTCAACCTGCTCTCTTGCTACCTCAGA
62656421 GAGATAAG
1 GAGATAAG
62656429 GCAGGTGCCT
Statistics
Matches: 46, Mismatches: 4, Indels: 6
0.82 0.07 0.11
Matches are distributed among these distances:
44 32 0.70
45 14 0.30
ACGTcount: A:0.27, C:0.22, G:0.19, T:0.33
Consensus pattern (44 bp):
GAGATAAGACTTGTATCTTCAACCTGCTCTCTTGCTACCTCAGA
Found at i:62663816 original size:5 final size:5
Alignment explanation
Indices: 62663808--62663851 Score: 56
Period size: 5 Copynumber: 9.0 Consensus size: 5
62663798 ATAATTTAAT
*
62663808 AATAA AATAA AATAA AATAA AGTAA AATAA AA-ACA AA-AA AATAA
1 AATAA AATAA AATAA AATAA AATAA AATAA AATA-A AATAA AATAA
62663852 TATATTACTA
Statistics
Matches: 35, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
4 4 0.11
5 31 0.89
ACGTcount: A:0.80, C:0.02, G:0.02, T:0.16
Consensus pattern (5 bp):
AATAA
Found at i:62664342 original size:47 final size:47
Alignment explanation
Indices: 62664277--62664375 Score: 164
Period size: 47 Copynumber: 2.1 Consensus size: 47
62664267 AATATAAATT
*
62664277 ATATGAAATTTTTAGTAAACTAATAAAATAAAGTAG-AAAATAATTTG
1 ATATGAAATTTGTAGTAAACTAATAAAATAAAGT-GTAAAATAATTTG
*
62664324 ATATGAAATTTGTGGTAAACTAATAAAATAAAGTGTAAAATAATTTG
1 ATATGAAATTTGTAGTAAACTAATAAAATAAAGTGTAAAATAATTTG
62664371 ATATG
1 ATATG
62664376 TGAAATAATA
Statistics
Matches: 49, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
46 1 0.02
47 48 0.98
ACGTcount: A:0.51, C:0.02, G:0.13, T:0.34
Consensus pattern (47 bp):
ATATGAAATTTGTAGTAAACTAATAAAATAAAGTGTAAAATAATTTG
Found at i:62669414 original size:16 final size:16
Alignment explanation
Indices: 62669393--62669430 Score: 67
Period size: 16 Copynumber: 2.4 Consensus size: 16
62669383 CAACTAACCC
62669393 AATCATCACACAAGTT
1 AATCATCACACAAGTT
62669409 AATCATCACACAAGTT
1 AATCATCACACAAGTT
*
62669425 ATTCAT
1 AATCAT
62669431 TTACGCACGA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.42, C:0.24, G:0.05, T:0.29
Consensus pattern (16 bp):
AATCATCACACAAGTT
Found at i:62669508 original size:27 final size:27
Alignment explanation
Indices: 62669478--62669565 Score: 115
Period size: 27 Copynumber: 3.3 Consensus size: 27
62669468 TGGGCAAAAT
* *
62669478 GGTAATTTTACCCCACAAGGGTATCTC
1 GGTAATTTTACCCTACAAGGGTATTTC
* * *
62669505 GGTAATTCTACCATACAGGGGTATTTC
1 GGTAATTTTACCCTACAAGGGTATTTC
62669532 GGTAATTTTACCCTAC-AGAGGTATTTC
1 GGTAATTTTACCCTACAAG-GGTATTTC
62669559 GGTAATT
1 GGTAATT
62669566 CTACAACTTA
Statistics
Matches: 52, Mismatches: 8, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
26 1 0.02
27 51 0.98
ACGTcount: A:0.26, C:0.19, G:0.20, T:0.34
Consensus pattern (27 bp):
GGTAATTTTACCCTACAAGGGTATTTC
Found at i:62677341 original size:31 final size:31
Alignment explanation
Indices: 62677303--62677361 Score: 102
Period size: 31 Copynumber: 1.9 Consensus size: 31
62677293 GTCAAATTTT
62677303 AAAAAGTA-AAAGAATTAAAATTAATCAATTC
1 AAAAAGTATAAA-AATTAAAATTAATCAATTC
62677334 AAAAAGTATAAAAATTAAAATTAATCAA
1 AAAAAGTATAAAAATTAAAATTAATCAA
62677362 AATAAAGTAG
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
31 24 0.89
32 3 0.11
ACGTcount: A:0.64, C:0.05, G:0.05, T:0.25
Consensus pattern (31 bp):
AAAAAGTATAAAAATTAAAATTAATCAATTC
Found at i:62679054 original size:31 final size:29
Alignment explanation
Indices: 62679013--62679075 Score: 81
Period size: 31 Copynumber: 2.1 Consensus size: 29
62679003 AACAGCGAAA
* *
62679013 TTATATATAAACTTTAGTTCAATGTGTAATT
1 TTATACATAAACTTTAATT--ATGTGTAATT
*
62679044 TTATACATAAACTTTAATTTTGTGTAATT
1 TTATACATAAACTTTAATTATGTGTAATT
62679073 TTA
1 TTA
62679076 CATAAAAGAA
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
29 12 0.41
31 17 0.59
ACGTcount: A:0.35, C:0.06, G:0.08, T:0.51
Consensus pattern (29 bp):
TTATACATAAACTTTAATTATGTGTAATT
Found at i:62685002 original size:3 final size:3
Alignment explanation
Indices: 62684994--62685031 Score: 76
Period size: 3 Copynumber: 12.7 Consensus size: 3
62684984 NNNNNNNNNN
62684994 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
62685032 GGACTAAATC
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:62687512 original size:16 final size:16
Alignment explanation
Indices: 62687491--62687521 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
62687481 ACAATTATGT
*
62687491 AAATAATATTAAAATC
1 AAATAATAGTAAAATC
62687507 AAATAATAGTAAAAT
1 AAATAATAGTAAAAT
62687522 TATTGAATAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.65, C:0.03, G:0.03, T:0.29
Consensus pattern (16 bp):
AAATAATAGTAAAATC
Found at i:62687818 original size:22 final size:22
Alignment explanation
Indices: 62687771--62687823 Score: 54
Period size: 22 Copynumber: 2.4 Consensus size: 22
62687761 CAATTAAGTT
* **
62687771 ATAATTAACAATTATTACATTG
1 ATAATTAAAAATTATTACATAA
62687793 ATAATTAAAATATTATTA-ATAA
1 ATAATTAAAA-ATTATTACATAA
*
62687815 ATAAATAAA
1 ATAATTAAA
62687824 TTTATACATT
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
22 19 0.73
23 7 0.27
ACGTcount: A:0.57, C:0.04, G:0.02, T:0.38
Consensus pattern (22 bp):
ATAATTAAAAATTATTACATAA
Found at i:62688056 original size:35 final size:38
Alignment explanation
Indices: 62687981--62688057 Score: 88
Period size: 39 Copynumber: 2.1 Consensus size: 38
62687971 TATAAAAATA
* * *
62687981 TATTTATTTAATTAAATTTTTTGGATTTTTATTATTATT
1 TATTTATTTAATTAAATTTATT-GAATTTTATTATGATT
*
62688020 TATTTATTTAATTATATTTATT-AATTTTA-TA-GATT
1 TATTTATTTAATTAAATTTATTGAATTTTATTATGATT
62688055 TAT
1 TAT
62688058 AATTTTATTA
Statistics
Matches: 34, Mismatches: 4, Indels: 4
0.81 0.10 0.10
Matches are distributed among these distances:
35 6 0.18
36 2 0.06
37 6 0.18
39 20 0.59
ACGTcount: A:0.31, C:0.00, G:0.04, T:0.65
Consensus pattern (38 bp):
TATTTATTTAATTAAATTTATTGAATTTTATTATGATT
Found at i:62699260 original size:12 final size:12
Alignment explanation
Indices: 62699243--62699272 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
62699233 TTGTAACCCC
62699243 TTTTTCTTTTTT
1 TTTTTCTTTTTT
62699255 TTTTTCTTTTTT
1 TTTTTCTTTTTT
*
62699267 ATTTTC
1 TTTTTC
62699273 CCTCCTGTTC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.03, C:0.10, G:0.00, T:0.87
Consensus pattern (12 bp):
TTTTTCTTTTTT
Found at i:62700813 original size:17 final size:17
Alignment explanation
Indices: 62700791--62700825 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
62700781 TAAAAGTTAA
62700791 ATATAAAATTAGTACCC
1 ATATAAAATTAGTACCC
62700808 ATATAAAATTAGTACCC
1 ATATAAAATTAGTACCC
62700825 A
1 A
62700826 AATTTGTTCA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.49, C:0.17, G:0.06, T:0.29
Consensus pattern (17 bp):
ATATAAAATTAGTACCC
Found at i:62703302 original size:20 final size:21
Alignment explanation
Indices: 62703273--62703311 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
62703263 AATTTTTTAA
62703273 CTTTAAAA-TTTTTATAATTT
1 CTTTAAAATTTTTTATAATTT
*
62703293 CTTTACAATTTTTTATAAT
1 CTTTAAAATTTTTTATAAT
62703312 GTTTATATTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 7 0.41
21 10 0.59
ACGTcount: A:0.33, C:0.08, G:0.00, T:0.59
Consensus pattern (21 bp):
CTTTAAAATTTTTTATAATTT
Found at i:62722275 original size:44 final size:44
Alignment explanation
Indices: 62722192--62722275 Score: 109
Period size: 44 Copynumber: 1.9 Consensus size: 44
62722182 TTCATTTTTA
*
62722192 TTTCTATTTTGGGAAAACCACATCATTTTCAAATGATTTTATTT
1 TTTCTATTTTGGGAAAACCAAATCATTTTCAAATGATTTTATTT
* *
62722236 TTTC-ATTTTGGAGAAAACCATAATTATTTTTAAAT-ATTTT
1 TTTCTATTTTGG-GAAAACCA-AATCATTTTCAAATGATTTT
62722276 TCATTTCTCT
Statistics
Matches: 35, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
43 7 0.20
44 17 0.49
45 11 0.31
ACGTcount: A:0.32, C:0.11, G:0.08, T:0.49
Consensus pattern (44 bp):
TTTCTATTTTGGGAAAACCAAATCATTTTCAAATGATTTTATTT
Found at i:62728168 original size:12 final size:12
Alignment explanation
Indices: 62728142--62728185 Score: 61
Period size: 12 Copynumber: 3.6 Consensus size: 12
62728132 CTTTTTCCAG
*
62728142 TTTTCTTCTTCTT
1 TTTTCTT-TTTTT
62728155 TTTTCTTTTTTT
1 TTTTCTTTTTTT
*
62728167 TTTTCCTTTTTT
1 TTTTCTTTTTTT
62728179 TTTTCTT
1 TTTTCTT
62728186 CTCTCACTTT
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
12 21 0.75
13 7 0.25
ACGTcount: A:0.00, C:0.16, G:0.00, T:0.84
Consensus pattern (12 bp):
TTTTCTTTTTTT
Found at i:62746521 original size:195 final size:196
Alignment explanation
Indices: 62746189--62746554 Score: 725
Period size: 195 Copynumber: 1.9 Consensus size: 196
62746179 TCAATCAAAC
62746189 AGTCCGACATAAATCATATCACATTTAAGTGCTAATATTCTTCTTGATTTTTGTGGAGAGGGAGC
1 AGTCCGACATAAATCATATCACATTTAAGTGCTAATATTCTTCTTGATTTTTGTGGAGAGGGAGC
62746254 AATCATACTTACGTAACTAGCCATGCTTGTCTTTATGCCTATAAGCAGAGCCTAGAACTCAAACT
66 AATCATACTTACGTAACTAGCCATGCTTGTCTTTATGCCTATAAGCAGAGCCTAGAACTCAAACT
62746319 AATTGATGCATTAATTGCCCAAAGCAGACATTGAT-TTTTTGTGGGGAGGGAGCAATTATACTTA
131 AATTGATGCATTAATTGCCCAAAGCAGACATTGATCTTTTTGTGGGGAGGGAGCAATTATACTTA
62746383 T
196 T
62746384 AGTCCGACATAAATCATATCACATTTAAGTGCTAATATTCTTCTTGATTTTTGTGGAGAGGGAGC
1 AGTCCGACATAAATCATATCACATTTAAGTGCTAATATTCTTCTTGATTTTTGTGGAGAGGGAGC
62746449 AATCATACTTACGTAACTAGCCATGCTTGTCTTTATGCCTATAAGCAGAGCCTAGAACTCAAACT
66 AATCATACTTACGTAACTAGCCATGCTTGTCTTTATGCCTATAAGCAGAGCCTAGAACTCAAACT
62746514 AATTGATGCATTAATTGCCCAAAGCAGACATTGATCTTTTT
131 AATTGATGCATTAATTGCCCAAAGCAGACATTGATCTTTTT
62746555 TTCTTTTTCT
Statistics
Matches: 170, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
195 165 0.97
196 5 0.03
ACGTcount: A:0.31, C:0.18, G:0.18, T:0.33
Consensus pattern (196 bp):
AGTCCGACATAAATCATATCACATTTAAGTGCTAATATTCTTCTTGATTTTTGTGGAGAGGGAGC
AATCATACTTACGTAACTAGCCATGCTTGTCTTTATGCCTATAAGCAGAGCCTAGAACTCAAACT
AATTGATGCATTAATTGCCCAAAGCAGACATTGATCTTTTTGTGGGGAGGGAGCAATTATACTTA
T
Found at i:62749715 original size:17 final size:16
Alignment explanation
Indices: 62749669--62749716 Score: 51
Period size: 16 Copynumber: 2.9 Consensus size: 16
62749659 TCTCAAATAG
* *
62749669 AAAATAAAAGGAAAAC
1 AAAAAAAAAGAAAAAC
* *
62749685 AAATAACAAGAAAAAC
1 AAAAAAAAAGAAAAAC
62749701 AAAAAAAATAGAAAAA
1 AAAAAAAA-AGAAAAA
62749717 AACCCAAAAA
Statistics
Matches: 25, Mismatches: 6, Indels: 1
0.78 0.19 0.03
Matches are distributed among these distances:
16 18 0.72
17 7 0.28
ACGTcount: A:0.79, C:0.06, G:0.08, T:0.06
Consensus pattern (16 bp):
AAAAAAAAAGAAAAAC
Found at i:62750287 original size:22 final size:21
Alignment explanation
Indices: 62750262--62750325 Score: 56
Period size: 22 Copynumber: 2.9 Consensus size: 21
62750252 TTAAGTATTC
62750262 TTTTTATATTTGAAATTTAATA
1 TTTTTAT-TTTGAAATTTAATA
* **
62750284 TTTTTATTTTAGAAGTTTGGTA
1 TTTTTATTTT-GAAATTTAATA
* *
62750306 CTTTTATTTTTCAAATTTAA
1 TTTTTA-TTTTGAAATTTAA
62750326 AAATTCAAAT
Statistics
Matches: 32, Mismatches: 8, Indels: 4
0.73 0.18 0.09
Matches are distributed among these distances:
21 3 0.09
22 25 0.78
23 4 0.12
ACGTcount: A:0.30, C:0.03, G:0.08, T:0.59
Consensus pattern (21 bp):
TTTTTATTTTGAAATTTAATA
Found at i:62753319 original size:9 final size:9
Alignment explanation
Indices: 62753307--62753394 Score: 74
Period size: 9 Copynumber: 9.4 Consensus size: 9
62753297 ATTAAATATG
62753307 AAAAATTAT
1 AAAAATTAT
62753316 AAAAATTCCAT
1 AAAAATT--AT
*
62753327 AAAAAGTAT
1 AAAAATTAT
62753336 AAAAATT-T
1 AAAAATTAT
62753344 AAAAAAGTTAT
1 -AAAAA-TTAT
62753355 AAATAATTAT
1 AAA-AATTAT
*
62753365 -AAAATAAT
1 AAAAATTAT
*
62753373 AAAAATTAC
1 AAAAATTAT
62753382 AAGAAA-TAT
1 AA-AAATTAT
62753391 AAAA
1 AAAA
62753395 TACATTAAAA
Statistics
Matches: 65, Mismatches: 6, Indels: 17
0.74 0.07 0.19
Matches are distributed among these distances:
8 8 0.12
9 34 0.52
10 12 0.18
11 11 0.17
ACGTcount: A:0.66, C:0.03, G:0.03, T:0.27
Consensus pattern (9 bp):
AAAAATTAT
Found at i:62753330 original size:20 final size:18
Alignment explanation
Indices: 62753307--62753394 Score: 74
Period size: 20 Copynumber: 4.7 Consensus size: 18
62753297 ATTAAATATG
62753307 AAAAATTATAAAAATTCCAT
1 AAAAATTATAAAAATT--AT
*
62753327 AAAAAGTATAAAAATT-T
1 AAAAATTATAAAAATTAT
62753344 AAAAAAGTTATAAATAATTAT
1 -AAAAA-TTATAAA-AATTAT
* *
62753365 -AAAATAATAAAAATTAC
1 AAAAATTATAAAAATTAT
62753382 AAGAAA-TATAAAA
1 AA-AAATTATAAAA
62753395 TACATTAAAA
Statistics
Matches: 57, Mismatches: 5, Indels: 14
0.75 0.07 0.18
Matches are distributed among these distances:
17 6 0.11
18 18 0.32
19 13 0.23
20 19 0.33
21 1 0.02
ACGTcount: A:0.66, C:0.03, G:0.03, T:0.27
Consensus pattern (18 bp):
AAAAATTATAAAAATTAT
Found at i:62753945 original size:21 final size:20
Alignment explanation
Indices: 62753921--62753965 Score: 72
Period size: 21 Copynumber: 2.2 Consensus size: 20
62753911 TCGTTATTAA
*
62753921 TTTTATAATCTTTTTAAATAG
1 TTTTACAATCTTTTT-AATAG
62753942 TTTTACAATCTTTTTAATAG
1 TTTTACAATCTTTTTAATAG
62753962 TTTT
1 TTTT
62753966 GATGTAATTT
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
20 9 0.39
21 14 0.61
ACGTcount: A:0.29, C:0.07, G:0.04, T:0.60
Consensus pattern (20 bp):
TTTTACAATCTTTTTAATAG
Found at i:62756259 original size:1 final size:1
Alignment explanation
Indices: 62756255--62756283 Score: 58
Period size: 1 Copynumber: 29.0 Consensus size: 1
62756245 GTTTTGCAAT
62756255 AAAAAAAAAAAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAA
62756284 CAAGAAGGCA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 28 1.00
ACGTcount: A:1.00, C:0.00, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:62762936 original size:1 final size:1
Alignment explanation
Indices: 62762930--62762959 Score: 60
Period size: 1 Copynumber: 30.0 Consensus size: 1
62762920 GGGCCCCGGG
62762930 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
62762960 GGGGGGCGGG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 29 1.00
ACGTcount: A:0.00, C:0.00, G:0.00, T:1.00
Consensus pattern (1 bp):
T
Found at i:62775681 original size:47 final size:47
Alignment explanation
Indices: 62775627--62775722 Score: 174
Period size: 47 Copynumber: 2.0 Consensus size: 47
62775617 GTTAACAAGA
*
62775627 AAAGATGCCTGAGTTTCAGTTCATTTAATGAACTTTAATGCCAAGCT
1 AAAGATGCCTGAGTTTCAGTTCATTTAACGAACTTTAATGCCAAGCT
*
62775674 AAAGATGCCTGAGTTTCAGTTTATTTAACGAACTTTAATGCCAAGCT
1 AAAGATGCCTGAGTTTCAGTTCATTTAACGAACTTTAATGCCAAGCT
62775721 AA
1 AA
62775723 CTGAATTTGG
Statistics
Matches: 47, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
47 47 1.00
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Consensus pattern (47 bp):
AAAGATGCCTGAGTTTCAGTTCATTTAACGAACTTTAATGCCAAGCT
Found at i:62781013 original size:76 final size:75
Alignment explanation
Indices: 62780880--62781030 Score: 266
Period size: 76 Copynumber: 2.0 Consensus size: 75
62780870 TTCTCCCAAT
62780880 TCTTACTGCACAAAAGCTCTTGCAAACGAGCAAAATATTCATCGTTTCAATAAATATTCAAAGCA
1 TCTTACTGCACAAAAGCTCTTGCAAACGAGCAAAATATTCATCGTTTCAATAAATATTCAAAGCA
62780945 AACAGGGGTA
66 AACAGGGGTA
** *
62780955 NTCTTACTGCACAAAAGCTCTTGCAAACGAGCAAAATATTCATCGTTTCCCTACATATTCAAAGC
1 -TCTTACTGCACAAAAGCTCTTGCAAACGAGCAAAATATTCATCGTTTCAATAAATATTCAAAGC
62781020 AAACAGGGGTA
65 AAACAGGGGTA
62781031 GAAGTTACAT
Statistics
Matches: 72, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
76 72 1.00
ACGTcount: A:0.38, C:0.22, G:0.15, T:0.25
Consensus pattern (75 bp):
TCTTACTGCACAAAAGCTCTTGCAAACGAGCAAAATATTCATCGTTTCAATAAATATTCAAAGCA
AACAGGGGTA
Found at i:62788402 original size:20 final size:20
Alignment explanation
Indices: 62788373--62788482 Score: 71
Period size: 20 Copynumber: 5.5 Consensus size: 20
62788363 TGATAAATTC
* * *
62788373 AAAATTTTAGTTATTTTGTT
1 AAAATATTAGATATTTTGGT
62788393 AAAATATTAGATATTTTGGT
1 AAAATATTAGATATTTTGGT
* * * * *
62788413 -AAATTTATAAAAATATTAG-
1 AAAATAT-TAGATATTTTGGT
* * *
62788432 CAAATCAATAGATATGTTGGT
1 AAAAT-ATTAGATATTTTGGT
*
62788453 AAAATATTAGATATTTTGAT
1 AAAATATTAGATATTTTGGT
62788473 AAAAATATTA
1 -AAAATATTA
62788483 ACTATATTGG
Statistics
Matches: 67, Mismatches: 18, Indels: 9
0.71 0.19 0.10
Matches are distributed among these distances:
19 5 0.07
20 49 0.73
21 13 0.19
ACGTcount: A:0.45, C:0.02, G:0.11, T:0.43
Consensus pattern (20 bp):
AAAATATTAGATATTTTGGT
Found at i:62788997 original size:21 final size:23
Alignment explanation
Indices: 62788955--62789014 Score: 61
Period size: 22 Copynumber: 2.7 Consensus size: 23
62788945 TTTGAACATT
62788955 TTTTTTTATTCTTCTAACTTTC-
1 TTTTTTTATTCTTCTAACTTTCA
* **
62788977 TTTTTTTGTTCTT-TATTTTTCA
1 TTTTTTTATTCTTCTAACTTTCA
*
62788999 TTTTTTTTTTGCTTCT
1 TTTTTTTATT-CTTCT
62789015 CCTCGTATTT
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
21 6 0.19
22 21 0.68
23 3 0.10
24 1 0.03
ACGTcount: A:0.08, C:0.13, G:0.03, T:0.75
Consensus pattern (23 bp):
TTTTTTTATTCTTCTAACTTTCA
Found at i:62790044 original size:24 final size:26
Alignment explanation
Indices: 62790016--62790074 Score: 77
Period size: 24 Copynumber: 2.3 Consensus size: 26
62790006 ATGGAGAAGG
62790016 AAAGAAAATAGAAAG-AG-AAAAAAA
1 AAAGAAAATAGAAAGAAGAAAAAAAA
*
62790040 AAAGAGAATAGAAAGTAAAGAAAAAAAA
1 AAAGAAAATAGAAAG--AAGAAAAAAAA
62790068 AAAGAAA
1 AAAGAAA
62790075 GTTCAAAGAA
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
24 14 0.48
27 2 0.07
28 13 0.45
ACGTcount: A:0.78, C:0.00, G:0.17, T:0.05
Consensus pattern (26 bp):
AAAGAAAATAGAAAGAAGAAAAAAAA
Found at i:62790116 original size:23 final size:23
Alignment explanation
Indices: 62790086--62790131 Score: 83
Period size: 23 Copynumber: 2.0 Consensus size: 23
62790076 TTCAAAGAAC
*
62790086 ATGGGTACATTCATCCATATTTG
1 ATGGGTACACTCATCCATATTTG
62790109 ATGGGTACACTCATCCATATTTG
1 ATGGGTACACTCATCCATATTTG
62790132 TGGTTGATGT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.26, C:0.20, G:0.17, T:0.37
Consensus pattern (23 bp):
ATGGGTACACTCATCCATATTTG
Found at i:62822142 original size:22 final size:23
Alignment explanation
Indices: 62822117--62822162 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 23
62822107 CAACCAAATC
62822117 AATTCA-ACATATTT-TCAAGATA
1 AATTCATACATATTTAT-AAGATA
*
62822139 AATTCATGCATATTTATAAGATA
1 AATTCATACATATTTATAAGATA
62822162 A
1 A
62822163 CGTTATCACA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
22 6 0.29
23 14 0.67
24 1 0.05
ACGTcount: A:0.46, C:0.11, G:0.07, T:0.37
Consensus pattern (23 bp):
AATTCATACATATTTATAAGATA
Found at i:62822878 original size:41 final size:41
Alignment explanation
Indices: 62822790--62822905 Score: 164
Period size: 41 Copynumber: 2.9 Consensus size: 41
62822780 AATAGGGTTT
* * * *
62822790 TAGCGGCGTTTTTGTTAACAA-GCCGCTAAAA-ACAGAGTAA
1 TAGCGGCGCTTTTGGTAA-AACGCCGCTAAAAGTCAGAGCAA
62822830 TAGCGGCGCTTTTGGTAAAACGCCGCTAAAAGTCAGAGCAA
1 TAGCGGCGCTTTTGGTAAAACGCCGCTAAAAGTCAGAGCAA
*
62822871 TAGCGGCGCTTTTAGTAAAACGCCGCTAAAAGTCA
1 TAGCGGCGCTTTTGGTAAAACGCCGCTAAAAGTCA
62822906 TATAACCCCT
Statistics
Matches: 69, Mismatches: 5, Indels: 3
0.90 0.06 0.04
Matches are distributed among these distances:
39 2 0.03
40 26 0.38
41 41 0.59
ACGTcount: A:0.33, C:0.21, G:0.24, T:0.22
Consensus pattern (41 bp):
TAGCGGCGCTTTTGGTAAAACGCCGCTAAAAGTCAGAGCAA
Found at i:62823811 original size:7 final size:7
Alignment explanation
Indices: 62823801--62823863 Score: 108
Period size: 7 Copynumber: 8.7 Consensus size: 7
62823791 ACTCAAAAAA
62823801 TAAAATT
1 TAAAATT
62823808 TAAAAATT
1 T-AAAATT
62823816 TAAAAATT
1 T-AAAATT
62823824 TAAAATT
1 TAAAATT
62823831 TAAAATT
1 TAAAATT
62823838 TAAAATT
1 TAAAATT
62823845 TAAAATT
1 TAAAATT
62823852 TAAAATT
1 TAAAATT
62823859 TAAAA
1 TAAAA
62823864 ATAAAAAAAT
Statistics
Matches: 55, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
7 40 0.73
8 15 0.27
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (7 bp):
TAAAATT
Found at i:62823812 original size:14 final size:14
Alignment explanation
Indices: 62823781--62823889 Score: 67
Period size: 14 Copynumber: 7.6 Consensus size: 14
62823771 TAAACTGAAA
*
62823781 TAAAAAAT-AAACT
1 TAAAAAATAAAATT
*
62823794 CAAAAAATAAAATT
1 TAAAAAATAAAATT
*
62823808 TAAAAATTTAAAAATT
1 TAAAAA-AT-AAAATT
**
62823824 TAAAATTTAAAATT
1 TAAAAAATAAAATT
**
62823838 TAAAATTTAAAATT
1 TAAAAAATAAAATT
** *
62823852 TAAAATTTAAAAAT
1 TAAAAAATAAAATT
*
62823866 AAAAAAATACAAAATT
1 TAAAAAAT--AAAATT
*
62823882 TTAAAAAT
1 TAAAAAAT
62823890 TTGATATTTA
Statistics
Matches: 79, Mismatches: 12, Indels: 7
0.81 0.12 0.07
Matches are distributed among these distances:
13 7 0.09
14 47 0.59
15 3 0.04
16 22 0.28
ACGTcount: A:0.65, C:0.03, G:0.00, T:0.32
Consensus pattern (14 bp):
TAAAAAATAAAATT
Found at i:62823815 original size:8 final size:8
Alignment explanation
Indices: 62823802--62823891 Score: 100
Period size: 8 Copynumber: 11.9 Consensus size: 8
62823792 CTCAAAAAAT
62823802 AAAATTTA
1 AAAATTTA
62823810 AAAATTTA
1 AAAATTTA
62823818 AAAATTT-
1 AAAATTTA
62823825 AAAATTT-
1 AAAATTTA
62823832 AAAATTT-
1 AAAATTTA
62823839 AAAATTT-
1 AAAATTTA
62823846 AAAATTT-
1 AAAATTTA
62823853 AAAATTTA
1 AAAATTTA
**
62823861 AAAATAAA
1 AAAATTTA
**
62823869 AAAATACA
1 AAAATTTA
*
62823877 AAATTTTA
1 AAAATTTA
62823885 AAAATTT
1 AAAATTT
62823892 GATATTTAAT
Statistics
Matches: 74, Mismatches: 7, Indels: 2
0.89 0.08 0.02
Matches are distributed among these distances:
7 35 0.47
8 39 0.53
ACGTcount: A:0.62, C:0.01, G:0.00, T:0.37
Consensus pattern (8 bp):
AAAATTTA
Found at i:62823870 original size:21 final size:21
Alignment explanation
Indices: 62823795--62823870 Score: 107
Period size: 21 Copynumber: 3.5 Consensus size: 21
62823785 AAATAAACTC
*
62823795 AAAAAATAAAATTTAAAAATTT
1 AAAAATTAAAATTT-AAAATTT
62823817 AAAAATTTAAAATTTAAAATTT
1 AAAAA-TTAAAATTTAAAATTT
*
62823839 AAAATTTAAAATTTAAAATTT
1 AAAAATTAAAATTTAAAATTT
*
62823860 AAAAATAAAAA
1 AAAAATTAAAA
62823871 AATACAAAAT
Statistics
Matches: 49, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
21 25 0.51
22 16 0.33
23 8 0.16
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (21 bp):
AAAAATTAAAATTTAAAATTT
Found at i:62823985 original size:18 final size:17
Alignment explanation
Indices: 62823964--62824002 Score: 69
Period size: 18 Copynumber: 2.2 Consensus size: 17
62823954 TTCAAAAGAG
62823964 AAAAATAAAAAAAATGTT
1 AAAAATAAAAAAAAT-TT
62823982 AAAAATAAAAAAAATTT
1 AAAAATAAAAAAAATTT
62823999 AAAA
1 AAAA
62824003 TTAATCAACA
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
17 6 0.29
18 15 0.71
ACGTcount: A:0.77, C:0.00, G:0.03, T:0.21
Consensus pattern (17 bp):
AAAAATAAAAAAAATTT
Found at i:62829591 original size:19 final size:19
Alignment explanation
Indices: 62829569--62829609 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
62829559 TTTATTGATA
62829569 TTTTTA-TATTTAATCTAG
1 TTTTTATTATTTAATCTAG
* *
62829587 TTTTTATTATTTATTTTAG
1 TTTTTATTATTTAATCTAG
62829606 TTTT
1 TTTT
62829610 GATTCTAAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
18 6 0.30
19 14 0.70
ACGTcount: A:0.22, C:0.02, G:0.05, T:0.71
Consensus pattern (19 bp):
TTTTTATTATTTAATCTAG
Found at i:62833619 original size:27 final size:26
Alignment explanation
Indices: 62833571--62833664 Score: 89
Period size: 26 Copynumber: 3.6 Consensus size: 26
62833561 AAAGTAAACA
*
62833571 ATAAAACAATTTAAAATGAATAATAC
1 ATAAAACAATTTAAAATAAATAATAC
**
62833597 ATAAAACAAGTTTAAAATAAATAATGT
1 ATAAAACAA-TTTAAAATAAATAATAC
* * **
62833624 ATAAAGCATTTTAAAATTTATAATAC
1 ATAAAACAATTTAAAATAAATAATAC
* * *
62833650 ACAAAGCAAATTAAA
1 ATAAAACAATTTAAA
62833665 GAATGACATA
Statistics
Matches: 55, Mismatches: 12, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
26 34 0.62
27 21 0.38
ACGTcount: A:0.59, C:0.07, G:0.05, T:0.29
Consensus pattern (26 bp):
ATAAAACAATTTAAAATAAATAATAC
Found at i:62833701 original size:26 final size:27
Alignment explanation
Indices: 62833672--62833727 Score: 78
Period size: 27 Copynumber: 2.1 Consensus size: 27
62833662 AAAGAATGAC
* *
62833672 ATATATGAA-TAATTTTAAAATAAATA
1 ATATATAAATTAATTTAAAAATAAATA
*
62833698 ATATATAAATTAATTTAAAAATAATTA
1 ATATATAAATTAATTTAAAAATAAATA
62833725 ATA
1 ATA
62833728 AGAAGTTTAA
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
26 8 0.31
27 18 0.69
ACGTcount: A:0.59, C:0.00, G:0.02, T:0.39
Consensus pattern (27 bp):
ATATATAAATTAATTTAAAAATAAATA
Found at i:62833859 original size:17 final size:17
Alignment explanation
Indices: 62833837--62833876 Score: 53
Period size: 17 Copynumber: 2.4 Consensus size: 17
62833827 TGAAATATAT
*
62833837 AATATACAATAACTTAA
1 AATATAAAATAACTTAA
* *
62833854 AATATAAAATAATTTGA
1 AATATAAAATAACTTAA
62833871 AATATA
1 AATATA
62833877 TATATATAAC
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.60, C:0.05, G:0.03, T:0.33
Consensus pattern (17 bp):
AATATAAAATAACTTAA
Found at i:62835752 original size:25 final size:26
Alignment explanation
Indices: 62835697--62835753 Score: 66
Period size: 25 Copynumber: 2.3 Consensus size: 26
62835687 TTTAATTTCA
*
62835697 TATATTTATATATTTAAATTTTTATT
1 TATATTTATATATGTAAATTTTTATT
*
62835723 T-TATTTATA-GTGTAAATTATTT-TT
1 TATATTTATATATGTAAATT-TTTATT
62835747 TATATTT
1 TATATTT
62835754 CAATTTTATA
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
24 10 0.37
25 16 0.59
26 1 0.04
ACGTcount: A:0.32, C:0.00, G:0.04, T:0.65
Consensus pattern (26 bp):
TATATTTATATATGTAAATTTTTATT
Found at i:62839186 original size:9 final size:9
Alignment explanation
Indices: 62839169--62839202 Score: 50
Period size: 9 Copynumber: 3.8 Consensus size: 9
62839159 AGATATTGGC
62839169 GGAGGTGGA
1 GGAGGTGGA
*
62839178 GGCGGTGGA
1 GGAGGTGGA
62839187 GGAGGTGGA
1 GGAGGTGGA
*
62839196 GGTGGTG
1 GGAGGTG
62839203 AAGCTGGTGG
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
9 22 1.00
ACGTcount: A:0.15, C:0.03, G:0.68, T:0.15
Consensus pattern (9 bp):
GGAGGTGGA
Found at i:62840638 original size:19 final size:19
Alignment explanation
Indices: 62840601--62840638 Score: 51
Period size: 20 Copynumber: 2.0 Consensus size: 19
62840591 TTTATACACT
*
62840601 AAAATGATTATTTTGTTAA
1 AAAATGATTAATTTGTTAA
62840620 AAAATTGATTAATTT-TTAA
1 AAAA-TGATTAATTTGTTAA
62840639 TTTTAAAAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 8 0.47
20 9 0.53
ACGTcount: A:0.45, C:0.00, G:0.08, T:0.47
Consensus pattern (19 bp):
AAAATGATTAATTTGTTAA
Found at i:62840939 original size:15 final size:15
Alignment explanation
Indices: 62840921--62840953 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
62840911 TTTTAAAAAG
*
62840921 ATATTTTATTAATTA
1 ATATTTTATAAATTA
62840936 ATATTTTATAAATTA
1 ATATTTTATAAATTA
62840951 ATA
1 ATA
62840954 GCGAAATTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (15 bp):
ATATTTTATAAATTA
Found at i:62854650 original size:16 final size:16
Alignment explanation
Indices: 62854629--62854693 Score: 54
Period size: 14 Copynumber: 4.5 Consensus size: 16
62854619 TTCACTAAAA
62854629 AATATATATGTATATT
1 AATATATATGTATATT
62854645 -A-ATATATGTA-ATT
1 AATATATATGTATATT
* * *
62854658 -AT-TAAAT-TCT-TA
1 AATATATATGTATATT
62854670 AATATATATGTATATT
1 AATATATATGTATATT
62854686 AATATATA
1 AATATATA
62854694 GAAATTCTAA
Statistics
Matches: 37, Mismatches: 6, Indels: 12
0.67 0.11 0.22
Matches are distributed among these distances:
12 2 0.05
13 10 0.27
14 13 0.35
15 3 0.08
16 9 0.24
ACGTcount: A:0.46, C:0.02, G:0.05, T:0.48
Consensus pattern (16 bp):
AATATATATGTATATT
Found at i:62857817 original size:23 final size:25
Alignment explanation
Indices: 62857791--62857837 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 25
62857781 TATCATTCAT
*
62857791 TTCATTATATC-A-ATATTTTATGC
1 TTCATCATATCTATATATTTTATGC
*
62857814 TTCATCATTTCTATATATTTTATG
1 TTCATCATATCTATATATTTTATG
62857838 TATATTTATT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 9 0.45
24 1 0.05
25 10 0.50
ACGTcount: A:0.28, C:0.13, G:0.04, T:0.55
Consensus pattern (25 bp):
TTCATCATATCTATATATTTTATGC
Found at i:62858160 original size:46 final size:46
Alignment explanation
Indices: 62858108--62858371 Score: 377
Period size: 46 Copynumber: 5.7 Consensus size: 46
62858098 TGCCGTAGTG
* * * *
62858108 TCTTTCAACTATGGTCTTACTCATTTTC-TGTCATGTTGCCATGGTA
1 TCTTTCAACCATGGTCTTACACA-TTTCATATCAGGTTGCCATGGTA
** ** * * *
62858154 TCTTTCAACTGTGGTCTTATTCTTTTCATGTCACGTTGCCATGGTA
1 TCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATGGTA
* *
62858200 TCTTTCAACCATGGTCTTACACATCTCATATTAGGTTGCCATGGTA
1 TCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATGGTA
* *
62858246 TCTTTCAACCATGGTCTTACACATCTCATATCAGGTTGCCGTGGTA
1 TCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATGGTA
62858292 TCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATGGTA
1 TCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATGGTA
62858338 TCTTTCAACCATGGTCTTACACATTTCATATCAG
1 TCTTTCAACCATGGTCTTACACATTTCATATCAG
62858372 AGAGCACACT
Statistics
Matches: 200, Mismatches: 17, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
45 4 0.02
46 196 0.98
ACGTcount: A:0.21, C:0.24, G:0.15, T:0.40
Consensus pattern (46 bp):
TCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATGGTA
Found at i:62861903 original size:22 final size:22
Alignment explanation
Indices: 62861878--62861922 Score: 65
Period size: 22 Copynumber: 2.0 Consensus size: 22
62861868 TTTAATAAAA
62861878 AAAATATCTACA-AGATATTCCT
1 AAAATATCTACAGA-ATATTCCT
*
62861900 AAAATATTTACAGAATATTCCT
1 AAAATATCTACAGAATATTCCT
62861922 A
1 A
62861923 CACTCCCCCT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 20 0.95
23 1 0.05
ACGTcount: A:0.47, C:0.16, G:0.04, T:0.33
Consensus pattern (22 bp):
AAAATATCTACAGAATATTCCT
Found at i:62866505 original size:22 final size:22
Alignment explanation
Indices: 62866478--62866522 Score: 65
Period size: 22 Copynumber: 2.0 Consensus size: 22
62866468 TTTTAATAAA
62866478 AAAATATCTACA-AGATATTCCT
1 AAAATATCTACAGA-ATATTCCT
*
62866500 AAAATATTTACAGAATATTCCT
1 AAAATATCTACAGAATATTCCT
62866522 A
1 A
62866523 CACAACAACC
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 20 0.95
23 1 0.05
ACGTcount: A:0.47, C:0.16, G:0.04, T:0.33
Consensus pattern (22 bp):
AAAATATCTACAGAATATTCCT
Found at i:62876514 original size:12 final size:13
Alignment explanation
Indices: 62876497--62876526 Score: 53
Period size: 12 Copynumber: 2.4 Consensus size: 13
62876487 TATTTAAATA
62876497 TAAATAAAA-TTT
1 TAAATAAAATTTT
62876509 TAAATAAAATTTT
1 TAAATAAAATTTT
62876522 TAAAT
1 TAAAT
62876527 CAACGACTAA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 9 0.53
13 8 0.47
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (13 bp):
TAAATAAAATTTT
Found at i:62877061 original size:20 final size:19
Alignment explanation
Indices: 62877036--62877078 Score: 61
Period size: 19 Copynumber: 2.3 Consensus size: 19
62877026 TTATATAGTT
*
62877036 TTAATTTTTTAAAAAGAATA
1 TTAATTTATTAAAAA-AATA
62877056 TTAA-TTATTAAAAAAATA
1 TTAATTTATTAAAAAAATA
62877074 TTAAT
1 TTAAT
62877079 GTAATTAATA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
18 8 0.38
19 9 0.43
20 4 0.19
ACGTcount: A:0.53, C:0.00, G:0.02, T:0.44
Consensus pattern (19 bp):
TTAATTTATTAAAAAAATA
Found at i:62878512 original size:21 final size:23
Alignment explanation
Indices: 62878465--62878514 Score: 59
Period size: 23 Copynumber: 2.3 Consensus size: 23
62878455 CATTCAAGAT
**
62878465 AAAATAATATATAAAACTCTTTA
1 AAAATAATATATAAAACTAATTA
*
62878488 AAAATAATATAT-AAAC-AATTC
1 AAAATAATATATAAAACTAATTA
62878509 AAAATA
1 AAAATA
62878515 NNNNNNNNNN
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
21 8 0.33
22 4 0.17
23 12 0.50
ACGTcount: A:0.62, C:0.08, G:0.00, T:0.30
Consensus pattern (23 bp):
AAAATAATATATAAAACTAATTA
Found at i:62891650 original size:3 final size:3
Alignment explanation
Indices: 62891642--62891721 Score: 75
Period size: 3 Copynumber: 28.7 Consensus size: 3
62891632 ACAATATTTA
* *
62891642 AAT AAT AAT AAT AAT AA- AAT AAT AAT AAT -AT AAT AAT -AT AAT GAC
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
*
62891687 AAT AA- AAT AAT AA- AAA AAT AAT AGA- AA- AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT A-AT AAT AAT AAT AA
62891722 AAAATTAAAT
Statistics
Matches: 65, Mismatches: 5, Indels: 14
0.77 0.06 0.17
Matches are distributed among these distances:
2 13 0.20
3 51 0.78
4 1 0.02
ACGTcount: A:0.70, C:0.01, G:0.03, T:0.26
Consensus pattern (3 bp):
AAT
Found at i:62891662 original size:11 final size:11
Alignment explanation
Indices: 62891642--62891726 Score: 93
Period size: 11 Copynumber: 7.7 Consensus size: 11
62891632 ACAATATTTA
62891642 AATAATAATAAT
1 AATAA-AATAAT
62891654 AATAAAATAAT
1 AATAAAATAAT
*
62891665 AATAATATAAT
1 AATAAAATAAT
* * *
62891676 AATATAATGAC
1 AATAAAATAAT
62891687 AATAAAATAAT
1 AATAAAATAAT
*
62891698 AAAAAAATAAT
1 AATAAAATAAT
62891709 AGA-AAAATAAT
1 A-ATAAAATAAT
62891720 AA-AAAAT
1 AATAAAAT
62891727 TAAATTCGAG
Statistics
Matches: 63, Mismatches: 9, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
10 6 0.10
11 51 0.81
12 6 0.10
ACGTcount: A:0.71, C:0.01, G:0.02, T:0.26
Consensus pattern (11 bp):
AATAAAATAAT
Found at i:62891662 original size:14 final size:14
Alignment explanation
Indices: 62891645--62891721 Score: 88
Period size: 14 Copynumber: 5.6 Consensus size: 14
62891635 ATATTTAAAT
62891645 AATAATAATAATAA
1 AATAATAATAATAA
*
62891659 AATAATAATAATAT
1 AATAATAATAATAA
*
62891673 AATAAT-ATAATGAC
1 AATAATAATAAT-AA
62891687 AATAA-AATAATAA
1 AATAATAATAATAA
*
62891700 AAAAATAATAGA-AA
1 AATAATAATA-ATAA
62891714 AATAATAA
1 AATAATAA
62891722 AAAATTAAAT
Statistics
Matches: 54, Mismatches: 5, Indels: 8
0.81 0.07 0.12
Matches are distributed among these distances:
13 10 0.19
14 43 0.80
15 1 0.02
ACGTcount: A:0.70, C:0.01, G:0.03, T:0.26
Consensus pattern (14 bp):
AATAATAATAATAA
Found at i:62897094 original size:29 final size:27
Alignment explanation
Indices: 62897061--62897142 Score: 85
Period size: 29 Copynumber: 2.9 Consensus size: 27
62897051 TAAGATTTAT
62897061 TATATTTTCTACATTTAAAATTTAA-TCTC
1 TATATTTT-TA-ATTTAAAATTTAATTC-C
*
62897090 TATATTTTTATTTTTAAAAATTTAATTCC
1 TATATTTTTA-ATTT-AAAATTTAATTCC
*
62897119 TTTATTTTTTAATTTAAAATTTAA
1 TATA-TTTTTAATTTAAAATTTAA
62897143 AATTTATTTA
Statistics
Matches: 46, Mismatches: 4, Indels: 7
0.81 0.07 0.12
Matches are distributed among these distances:
28 14 0.30
29 24 0.52
30 8 0.17
ACGTcount: A:0.35, C:0.07, G:0.00, T:0.57
Consensus pattern (27 bp):
TATATTTTTAATTTAAAATTTAATTCC
Found at i:62897738 original size:17 final size:17
Alignment explanation
Indices: 62897704--62897738 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
62897694 AATAAATAAA
* *
62897704 TTATTTTTTATAATTTT
1 TTATTTTTTAGAAGTTT
62897721 TTATTTTTTAGAAGTTT
1 TTATTTTTTAGAAGTTT
62897738 T
1 T
62897739 AAATAATTTA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.23, C:0.00, G:0.06, T:0.71
Consensus pattern (17 bp):
TTATTTTTTAGAAGTTT
Found at i:62911169 original size:20 final size:20
Alignment explanation
Indices: 62911128--62911170 Score: 52
Period size: 20 Copynumber: 2.1 Consensus size: 20
62911118 TCCACTTTAC
*
62911128 TTTAATCTATATTTTCACTA
1 TTTAATCTATATTTTCAATA
*
62911148 TTTAAT-TATTATTTTGAATA
1 TTTAATCTA-TATTTTCAATA
62911168 TTT
1 TTT
62911171 TTTCACTTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
19 2 0.10
20 18 0.90
ACGTcount: A:0.30, C:0.07, G:0.02, T:0.60
Consensus pattern (20 bp):
TTTAATCTATATTTTCAATA
Found at i:62911964 original size:18 final size:18
Alignment explanation
Indices: 62911941--62912008 Score: 70
Period size: 18 Copynumber: 3.9 Consensus size: 18
62911931 TTGTTGAGCA
62911941 TGTTGCTGTAGCTGCTGT
1 TGTTGCTGTAGCTGCTGT
* *
62911959 TGTTGCAGTAGTTGCTGT
1 TGTTGCTGTAGCTGCTGT
* *
62911977 TGCTGC--T-GCTGCTGA
1 TGTTGCTGTAGCTGCTGT
*
62911992 TGTTGCTGTGGCTGCTG
1 TGTTGCTGTAGCTGCTG
62912009 CATTTGAGGA
Statistics
Matches: 41, Mismatches: 6, Indels: 6
0.77 0.11 0.11
Matches are distributed among these distances:
15 11 0.27
16 1 0.02
17 1 0.02
18 28 0.68
ACGTcount: A:0.06, C:0.18, G:0.35, T:0.41
Consensus pattern (18 bp):
TGTTGCTGTAGCTGCTGT
Found at i:62920932 original size:43 final size:43
Alignment explanation
Indices: 62920884--62921040 Score: 165
Period size: 43 Copynumber: 3.7 Consensus size: 43
62920874 TATCCTAGAT
* * *
62920884 ATGGTCTTACATGTTATCTCATATCGATCCCAATGTCCCAGAC
1 ATGGTCTTACACGTAATCTCATATCGATGCCAATGTCCCAGAC
* * * *
62920927 ATGGTCCTACACGAAATCAT-ATAACGATGTCAATGTCCCAGAC
1 ATGGTCTTACACGTAATC-TCATATCGATGCCAATGTCCCAGAC
* * *
62920970 ATGGTCTTACACGTAATCACA-ATACAATGCCAATGTCTCAGAC
1 ATGGTCTTACACGTAATCTCATAT-CGATGCCAATGTCCCAGAC
** *
62921013 ATGGTCTTACATATAATCTCATCTCGAT
1 ATGGTCTTACACGTAATCTCATATCGAT
62921041 AATCTAAATG
Statistics
Matches: 91, Mismatches: 19, Indels: 8
0.77 0.16 0.07
Matches are distributed among these distances:
42 1 0.01
43 88 0.97
44 2 0.02
ACGTcount: A:0.31, C:0.25, G:0.14, T:0.29
Consensus pattern (43 bp):
ATGGTCTTACACGTAATCTCATATCGATGCCAATGTCCCAGAC
Found at i:62923917 original size:25 final size:25
Alignment explanation
Indices: 62923888--62923990 Score: 106
Period size: 25 Copynumber: 4.1 Consensus size: 25
62923878 TCTTTCGGTC
62923888 AACAAATAGGTTACATTATTCACCA
1 AACAAATAGGTTACATTATTCACCA
* * *
62923913 AAC-AATCAATGTCACTAACTATTCA--A
1 AACAAAT--AGGTTAC--ATTATTCACCA
*
62923939 CA-AAATAGGTTACATTATTCACCA
1 AACAAATAGGTTACATTATTCACCA
62923963 AACAAATAGGTTACATTATTCACCA
1 AACAAATAGGTTACATTATTCACCA
62923988 AAC
1 AAC
62923991 TCTCTCGATG
Statistics
Matches: 62, Mismatches: 8, Indels: 16
0.72 0.09 0.19
Matches are distributed among these distances:
22 7 0.11
24 10 0.16
25 28 0.45
26 10 0.16
28 7 0.11
ACGTcount: A:0.45, C:0.21, G:0.07, T:0.27
Consensus pattern (25 bp):
AACAAATAGGTTACATTATTCACCA
Found at i:62925410 original size:21 final size:20
Alignment explanation
Indices: 62925363--62925415 Score: 54
Period size: 20 Copynumber: 2.6 Consensus size: 20
62925353 AACTATGCCA
*
62925363 AAAG-AAGCCATAAGAAAAC
1 AAAGAAAGCCACAAGAAAAC
* *
62925382 AAAGAAAGCCACAATAAAAT
1 AAAGAAAGCCACAAGAAAAC
*
62925402 AACAGAAAGTCACA
1 AA-AGAAAGCCACA
62925416 GACAAGAACG
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
19 4 0.14
20 14 0.50
21 10 0.36
ACGTcount: A:0.62, C:0.17, G:0.13, T:0.08
Consensus pattern (20 bp):
AAAGAAAGCCACAAGAAAAC
Found at i:62934672 original size:27 final size:29
Alignment explanation
Indices: 62934616--62934672 Score: 82
Period size: 27 Copynumber: 2.0 Consensus size: 29
62934606 ACATGTATAT
*
62934616 AAAACATATTTATAAATATTAAAGTAATG
1 AAAACATATTTATAAATATTAAAATAATG
*
62934645 AAAACATA-TTCTAAATA-TAAAATAATG
1 AAAACATATTTATAAATATTAAAATAATG
62934672 A
1 A
62934673 TCATTTTTGT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
27 10 0.38
28 8 0.31
29 8 0.31
ACGTcount: A:0.58, C:0.05, G:0.05, T:0.32
Consensus pattern (29 bp):
AAAACATATTTATAAATATTAAAATAATG
Found at i:62945434 original size:28 final size:28
Alignment explanation
Indices: 62945403--62945459 Score: 105
Period size: 28 Copynumber: 2.0 Consensus size: 28
62945393 AGTATAGACC
*
62945403 TATAATCACCAGGTCATCACAAAATCAT
1 TATAATCACAAGGTCATCACAAAATCAT
62945431 TATAATCACAAGGTCATCACAAAATCAT
1 TATAATCACAAGGTCATCACAAAATCAT
62945459 T
1 T
62945460 CTCATAAGCA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.44, C:0.23, G:0.07, T:0.26
Consensus pattern (28 bp):
TATAATCACAAGGTCATCACAAAATCAT
Found at i:62945884 original size:46 final size:47
Alignment explanation
Indices: 62945798--62946017 Score: 179
Period size: 46 Copynumber: 4.7 Consensus size: 47
62945788 ACATATTCAT
* *
62945798 GCCGATGCCATGTCCTAGACATGGTCTTACACTGAC--AT-ATCTTGTA-
1 GCCGATG-CATGTCCCAGACAT-GTCTTACACTGGCTTATAATCTTG-AG
* *
62945844 GCCGATGCATGTTCCAGACATGTCTTACACTGGCTTAT-ATCTCGAG
1 GCCGATGCATGTCCCAGACATGTCTTACACTGGCTTATAATCTTGAG
* * * ** ** *
62945890 GCTGATGCATGTCCCAGACATATCTTACACTAG-TTATCGTCTCAAT
1 GCCGATGCATGTCCCAGACATGTCTTACACTGGCTTATAATCTTGAG
* * *
62945936 GCCAATGCCACGTCCCAGACATGATCTTACACTGGCTCTCATAAT-AT--G
1 GCCGATG-CATGTCCCAGACATG-TCTTACACTGGCT-T-ATAATCTTGAG
62945984 GCCGATGCATGTCCCAGACATGTCTTACACTGGC
1 GCCGATGCATGTCCCAGACATGTCTTACACTGGC
62946018 ACACAAATAA
Statistics
Matches: 142, Mismatches: 23, Indels: 18
0.78 0.13 0.10
Matches are distributed among these distances:
44 12 0.08
45 17 0.12
46 65 0.46
47 27 0.19
48 16 0.11
49 1 0.01
50 1 0.01
51 3 0.02
ACGTcount: A:0.24, C:0.28, G:0.19, T:0.29
Consensus pattern (47 bp):
GCCGATGCATGTCCCAGACATGTCTTACACTGGCTTATAATCTTGAG
Found at i:62953889 original size:23 final size:23
Alignment explanation
Indices: 62953846--62953921 Score: 74
Period size: 21 Copynumber: 3.6 Consensus size: 23
62953836 ATATACACAT
*
62953846 TAAAAATATAAAAAA-TT-GAAA
1 TAAATATATAAAAAATTTAGAAA
62953867 TAAATATATAAAAAATTTAGAAA
1 TAAATATATAAAAAATTTAGAAA
* * *
62953890 T--ATATATACATAATCTAGAAA
1 TAAATATATAAAAAATTTAGAAA
62953911 -AAAT-TATAAAA
1 TAAATATATAAAA
62953922 GTAAAGTTAA
Statistics
Matches: 45, Mismatches: 6, Indels: 8
0.76 0.10 0.14
Matches are distributed among these distances:
21 36 0.80
22 4 0.09
23 5 0.11
ACGTcount: A:0.64, C:0.03, G:0.04, T:0.29
Consensus pattern (23 bp):
TAAATATATAAAAAATTTAGAAA
Found at i:62953977 original size:22 final size:21
Alignment explanation
Indices: 62953952--62954002 Score: 50
Period size: 22 Copynumber: 2.4 Consensus size: 21
62953942 GGATAATTGA
**
62953952 AATAAAATTAGTTGAAATTAAT
1 AATAAAATTAGAAGAAATT-AT
**
62953974 AATATTATTAGAAGAAATTAT
1 AATAAAATTAGAAGAAATTAT
62953995 AA-AAAATT
1 AATAAAATT
62954003 GTAAACAAAA
Statistics
Matches: 23, Mismatches: 6, Indels: 2
0.74 0.19 0.06
Matches are distributed among these distances:
20 4 0.17
21 4 0.17
22 15 0.65
ACGTcount: A:0.57, C:0.00, G:0.08, T:0.35
Consensus pattern (21 bp):
AATAAAATTAGAAGAAATTAT
Found at i:62954941 original size:21 final size:20
Alignment explanation
Indices: 62954900--62954948 Score: 53
Period size: 20 Copynumber: 2.4 Consensus size: 20
62954890 AAATTATAAA
* * *
62954900 AATAAAAATTATTAGATTTT
1 AATAAAAAATATTACAATTT
62954920 AATAAAAAATATTAACAATTT
1 AATAAAAAATATT-ACAATTT
*
62954941 ATTAAAAA
1 AATAAAAA
62954949 TTAGAAAATT
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
20 12 0.50
21 12 0.50
ACGTcount: A:0.59, C:0.02, G:0.02, T:0.37
Consensus pattern (20 bp):
AATAAAAAATATTACAATTT
Found at i:62955211 original size:10 final size:10
Alignment explanation
Indices: 62955166--62955348 Score: 60
Period size: 10 Copynumber: 18.6 Consensus size: 10
62955156 AATCATTTTT
62955166 ATTTTTTATA
1 ATTTTTTATA
**
62955176 CAAATTTTAT-
1 -ATTTTTTATA
*
62955186 ATTTCTTTACA
1 ATTT-TTTATA
*
62955197 TTTTTTTATA
1 ATTTTTTATA
*
62955207 ATTTTCTTACA
1 ATTTT-TTATA
*
62955218 A--CTTTATA
1 ATTTTTTATA
*
62955226 AATTTTTATA
1 ATTTTTTATA
* *
62955236 ATTTTTTTTCT
1 ATTTTTTAT-A
*
62955247 ATATTTCTAT-
1 AT-TTTTTATA
* *
62955257 ATATATTATA
1 ATTTTTTATA
* *
62955267 GTTTTTTACA
1 ATTTTTTATA
62955277 ATTTTTTATA
1 ATTTTTTATA
* *
62955287 A-ATTTAAT-
1 ATTTTTTATA
62955295 ATTTTTTAT-
1 ATTTTTTATA
*
62955304 ATTTTTAATA
1 ATTTTTTATA
** * *
62955314 AAATTTAATC
1 ATTTTTTATA
62955324 A-TTTTTATA
1 ATTTTTTATA
62955333 A-TTTTTATTA
1 ATTTTTTA-TA
62955343 ATTTTT
1 ATTTTT
62955349 ATTTTTATAA
Statistics
Matches: 123, Mismatches: 37, Indels: 24
0.67 0.20 0.13
Matches are distributed among these distances:
8 6 0.05
9 37 0.30
10 54 0.44
11 21 0.17
12 5 0.04
ACGTcount: A:0.32, C:0.05, G:0.01, T:0.62
Consensus pattern (10 bp):
ATTTTTTATA
Found at i:62955299 original size:28 final size:27
Alignment explanation
Indices: 62955268--62955364 Score: 83
Period size: 28 Copynumber: 3.5 Consensus size: 27
62955258 TATATTATAG
62955268 TTTTTTACAATTTTTTATAAATTTAATA
1 TTTTTTA-AATTTTTTATAAATTTAATA
* *
62955296 TTTTTTATATTTTTAATAAAATTTAATCA
1 TTTTTTAAATTTTTTAT-AAATTTAAT-A
* *
62955325 -TTTTTATAA-TTTTTATTAATTT-TTA
1 TTTTTTA-AATTTTTTATAAATTTAATA
*
62955350 TTTTTATAACTTTTT
1 TTTTT-TAAATTTTT
62955365 ACCACATGTC
Statistics
Matches: 56, Mismatches: 7, Indels: 13
0.74 0.09 0.17
Matches are distributed among these distances:
25 1 0.02
26 6 0.11
27 19 0.34
28 28 0.50
29 2 0.04
ACGTcount: A:0.32, C:0.03, G:0.00, T:0.65
Consensus pattern (27 bp):
TTTTTTAAATTTTTTATAAATTTAATA
Found at i:62955354 original size:16 final size:16
Alignment explanation
Indices: 62955333--62955365 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
62955323 CATTTTTATA
62955333 ATTTTTATTAA-TTTTT
1 ATTTTTA-TAACTTTTT
62955349 ATTTTTATAACTTTTT
1 ATTTTTATAACTTTTT
62955365 A
1 A
62955366 CCACATGTCA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 3 0.19
16 13 0.81
ACGTcount: A:0.27, C:0.03, G:0.00, T:0.70
Consensus pattern (16 bp):
ATTTTTATAACTTTTT
Found at i:62957201 original size:3 final size:3
Alignment explanation
Indices: 62957195--62957228 Score: 52
Period size: 3 Copynumber: 11.7 Consensus size: 3
62957185 AAAACAAAAA
*
62957195 AAC AAC AAC AAC AAC AAC AAC -AC AAC AAA AAC AA
1 AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AA
62957229 AAACTCAATC
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
2 2 0.07
3 26 0.93
ACGTcount: A:0.71, C:0.29, G:0.00, T:0.00
Consensus pattern (3 bp):
AAC
Found at i:62957847 original size:21 final size:21
Alignment explanation
Indices: 62957823--62957863 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
62957813 CAATGGAATG
* *
62957823 TTTATCACTCGTAATGATCTC
1 TTTATAACTCATAATGATCTC
62957844 TTTATAACTCATAATGATCT
1 TTTATAACTCATAATGATCT
62957864 GTGAGGCCAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.29, C:0.20, G:0.07, T:0.44
Consensus pattern (21 bp):
TTTATAACTCATAATGATCTC
Found at i:62964350 original size:260 final size:260
Alignment explanation
Indices: 62963886--62964406 Score: 943
Period size: 260 Copynumber: 2.0 Consensus size: 260
62963876 ACGATCCGCG
*
62963886 AGGGATGTGGACAACTTCTTGTGGGAAATGGAGCAATACTTTCGAGCGATGGGCATCGAGGATGA
1 AGGGATGTGGACAACTTCTTGTGGGAAATGGAGCAATACTTCCGAGCGATGGGCATCGAGGATGA
* *
62963951 TGGCATTAAGGTAAACACTGCTTCGATTTACTTTTCTGATGTTGCTCTCTTGTGGTGGCGACGTA
66 TGGCATTAAGGTAAACACTGCTTCAATTTACTTTTCTGATGCTGCTCTCTTGTGGTGGCGACGTA
62964016 GGTCCACGGATGAGAAACGTGGAGGAACGGCTATTGGAACTTGGGAGGAGTTTCAAGGAGAGTTG
131 GGTCCACGGATGAGAAACGTGGAGGAACGGCTATTGGAACTTGGGAGGAGTTTCAAGGAGAGTTG
* * *
62964081 AAAAAGCAGTTTTACCCTCAATATGCCGAGAATGAGGCTCGGGCTAAGTTACGTCGTCTCACGCA
196 AAAAAGCAGTTTTACCCTCAATATGCCGAGAAGGAGGCTCGAGCAAAGTTACGTCGTCTCACGCA
62964146 AGGGATGTGGACAACTTCTTGTGGGAAATGGAGCAATACTTCCGAGCGATGGGCATCGAGGATGA
1 AGGGATGTGGACAACTTCTTGTGGGAAATGGAGCAATACTTCCGAGCGATGGGCATCGAGGATGA
62964211 TGGCATTAAGGTAAACACTGCTTCAATTTACTTTTCTGATGCTGCTCTCTTGTGGTGGCGACGTA
66 TGGCATTAAGGTAAACACTGCTTCAATTTACTTTTCTGATGCTGCTCTCTTGTGGTGGCGACGTA
*
62964276 TGTCCACGGATGAGAAACGTGGAGGAACGGCTATTGGAACTTGGGAGGAGTTTCAAGGAGAGTTG
131 GGTCCACGGATGAGAAACGTGGAGGAACGGCTATTGGAACTTGGGAGGAGTTTCAAGGAGAGTTG
* * * *
62964341 AAGAAGCAGTTTTACCCTCAGTTTGCCGAGAAGGAGGCTCGAGCAAAGTTGCGTCGTCTCACGCA
196 AAAAAGCAGTTTTACCCTCAATATGCCGAGAAGGAGGCTCGAGCAAAGTTACGTCGTCTCACGCA
62964406 A
1 A
62964407 CAAGACACTG
Statistics
Matches: 250, Mismatches: 11, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
260 250 1.00
ACGTcount: A:0.26, C:0.18, G:0.31, T:0.26
Consensus pattern (260 bp):
AGGGATGTGGACAACTTCTTGTGGGAAATGGAGCAATACTTCCGAGCGATGGGCATCGAGGATGA
TGGCATTAAGGTAAACACTGCTTCAATTTACTTTTCTGATGCTGCTCTCTTGTGGTGGCGACGTA
GGTCCACGGATGAGAAACGTGGAGGAACGGCTATTGGAACTTGGGAGGAGTTTCAAGGAGAGTTG
AAAAAGCAGTTTTACCCTCAATATGCCGAGAAGGAGGCTCGAGCAAAGTTACGTCGTCTCACGCA
Found at i:62969368 original size:14 final size:15
Alignment explanation
Indices: 62969335--62969382 Score: 55
Period size: 15 Copynumber: 3.3 Consensus size: 15
62969325 TTTAAAATTT
*
62969335 TAAAAATATAAAAAC
1 TAAAAATATATAAAC
*
62969350 AAAAAATAT-TAAA-
1 TAAAAATATATAAAC
*
62969363 TTAAAATATATAAAC
1 TAAAAATATATAAAC
62969378 TAAAA
1 TAAAA
62969383 TGGTAAGGTA
Statistics
Matches: 26, Mismatches: 5, Indels: 4
0.74 0.14 0.11
Matches are distributed among these distances:
13 7 0.27
14 7 0.27
15 12 0.46
ACGTcount: A:0.71, C:0.04, G:0.00, T:0.25
Consensus pattern (15 bp):
TAAAAATATATAAAC
Found at i:62969383 original size:14 final size:14
Alignment explanation
Indices: 62969337--62969383 Score: 51
Period size: 14 Copynumber: 3.4 Consensus size: 14
62969327 TAAAATTTTA
*
62969337 AAAATATAAAAAC-
1 AAAATATATAAACT
* *
62969350 AAAAAATATTAAATT
1 AAAATATA-TAAACT
62969365 AAAATATATAAACT
1 AAAATATATAAACT
62969379 AAAAT
1 AAAAT
62969384 GGTAAGGTAA
Statistics
Matches: 27, Mismatches: 5, Indels: 3
0.77 0.14 0.09
Matches are distributed among these distances:
13 7 0.26
14 13 0.48
15 7 0.26
ACGTcount: A:0.70, C:0.04, G:0.00, T:0.26
Consensus pattern (14 bp):
AAAATATATAAACT
Found at i:62984025 original size:75 final size:75
Alignment explanation
Indices: 62983902--62984052 Score: 266
Period size: 75 Copynumber: 2.0 Consensus size: 75
62983892 TTGGGCCTTC
**
62983902 TTCCTGAAGCAGAAAAGCGATGTGTTTTTTGCATTTAAGTCTTGAAAAATTATGATTGAAAAACA
1 TTCCTGAAGCAGAAAAGCGATGTGTTTTCCGCATTTAAGTCTTGAAAAATTATGATTGAAAAACA
*
62983967 GATGGAAAAA
66 GACGGAAAAA
62983977 TTCCTGAAGCAGAAAAGCGATGTGTTTTCCGCATTTAAGTCTTGAAAAATTATGATTGAAAAACA
1 TTCCTGAAGCAGAAAAGCGATGTGTTTTCCGCATTTAAGTCTTGAAAAATTATGATTGAAAAACA
*
62984042 GACGGGAAAA
66 GACGGAAAAA
62984052 T
1 T
62984053 AGATAAAATA
Statistics
Matches: 72, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
75 72 1.00
ACGTcount: A:0.39, C:0.11, G:0.21, T:0.29
Consensus pattern (75 bp):
TTCCTGAAGCAGAAAAGCGATGTGTTTTCCGCATTTAAGTCTTGAAAAATTATGATTGAAAAACA
GACGGAAAAA
Found at i:62984383 original size:142 final size:142
Alignment explanation
Indices: 62984127--62984410 Score: 514
Period size: 142 Copynumber: 2.0 Consensus size: 142
62984117 CAAGTCAGAA
*
62984127 GGGATCATGAGACATTTGACAGTTCATCATACTCCACAGAAAAACGGCGTTGAAGAACGAATGAA
1 GGGATCATGAGACACTTGACAGTTCATCATACTCCACAGAAAAACGGCGTTGAAGAACGAATGAA
62984192 CAGAACGATCATGGAGAAGGTTCGATGTATGTTGTCAAATGCCAACTTATCGAAGTCATTTTGGG
66 CAGAACGATCATGGAGAAGGTTCGATGTATGTTGTCAAATGCCAACTTATCGAAGTCATTTTGGG
*
62984257 CAGAAGCAGCCT
131 CAAAAGCAGCCT
* * *
62984269 GGGATCATGAGACACTTGACAGTTCGTCATACTCCACAGCAAAACGGCGTTGCAGAACGAATGAA
1 GGGATCATGAGACACTTGACAGTTCATCATACTCCACAGAAAAACGGCGTTGAAGAACGAATGAA
62984334 CAGAACGATCATGGAGAAGGTTCGATGTATGTTGTCAAATGCCAACTTATCGAAGTCATTTTGGG
66 CAGAACGATCATGGAGAAGGTTCGATGTATGTTGTCAAATGCCAACTTATCGAAGTCATTTTGGG
*
62984399 CAAAAGGAGCCT
131 CAAAAGCAGCCT
62984411 CTATTACATG
Statistics
Matches: 136, Mismatches: 6, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
142 136 1.00
ACGTcount: A:0.33, C:0.19, G:0.25, T:0.23
Consensus pattern (142 bp):
GGGATCATGAGACACTTGACAGTTCATCATACTCCACAGAAAAACGGCGTTGAAGAACGAATGAA
CAGAACGATCATGGAGAAGGTTCGATGTATGTTGTCAAATGCCAACTTATCGAAGTCATTTTGGG
CAAAAGCAGCCT
Found at i:62988090 original size:15 final size:16
Alignment explanation
Indices: 62988060--62988092 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
62988050 TTAGTTTGGG
*
62988060 TTTTGGTTTATTGTAA
1 TTTTGGGTTATTGTAA
62988076 TTTTGGGTT-TTGTAA
1 TTTTGGGTTATTGTAA
62988091 TT
1 TT
62988093 CTAAAATTGG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 8 0.50
16 8 0.50
ACGTcount: A:0.15, C:0.00, G:0.21, T:0.64
Consensus pattern (16 bp):
TTTTGGGTTATTGTAA
Found at i:62988648 original size:44 final size:44
Alignment explanation
Indices: 62988506--62988930 Score: 275
Period size: 44 Copynumber: 9.7 Consensus size: 44
62988496 TATTTTTATC
* * ** *
62988506 CTGCTCTACTGCAACTTCAGAGAGATAAGGA-TTG-TGGGTTCGGT
1 CTGCTCCACTGCAACTTCAGGGAGATAA-GACTTGCT-ACTTCAGT
* * * *
62988550 CTGCTCCAATGTAATTTCAGGGAG--AAGA-TCTGCTGTCTTCAGT
1 CTGCTCCACTGCAACTTCAGGGAGATAAGACT-TGCT-ACTTCAGT
**
62988593 CTGCTCCACTGCAACTTCAGGGAGATAAGACTTGCTACTTCAAC
1 CTGCTCCACTGCAACTTCAGGGAGATAAGACTTGCTACTTCAGT
* * ** * *
62988637 CTGCTCTACTGCAACTTTAGGGAGATAAGGTTTG-TATTTTTA-T
1 CTGCTCCACTGCAACTTCAGGGAGATAAGACTTGCTA-CTTCAGT
* * * * *
62988680 CCTGCTCTACTGCAACTTTAGAGAGATAAAGAATATGGT--TTC-GAT
1 -CTGCTCCACTGCAACTTCAGGGAGAT-AAGACT-TGCTACTTCAG-T
* *
62988725 CTACTCCACTACAACTTCAGGGAGATAAGA-TCTGCTATCTTCAGT
1 CTGCTCCACTGCAACTTCAGGGAGATAAGACT-TGCTA-CTTCAGT
* * * *
62988770 CTGTTCCATTGCAACTTCAGGAAGATAAGACTTACT--TTCAGT
1 CTGCTCCACTGCAACTTCAGGGAGATAAGACTTGCTACTTCAGT
* * *
62988812 CTGCTTCACTGCAACTTCAAGGAGATAAGACTTGCTATCTTTAGT
1 CTGCTCCACTGCAACTTCAGGGAGATAAGACTTGCTA-CTTCAGT
* * * * ** *
62988857 CTACTCCACTACAACTTTAGGAAGATAAGACTTG-TGGTTTCAAT
1 CTGCTCCACTGCAACTTCAGGGAGATAAGACTTGCT-ACTTCAGT
* *
62988901 CTGCTCCACTGCAACTTTAAGGAGATAAGA
1 CTGCTCCACTGCAACTTCAGGGAGATAAGA
62988931 TTGGCCATGA
Statistics
Matches: 301, Mismatches: 59, Indels: 42
0.75 0.15 0.10
Matches are distributed among these distances:
41 3 0.01
42 44 0.15
43 34 0.11
44 136 0.45
45 78 0.26
46 5 0.02
47 1 0.00
ACGTcount: A:0.28, C:0.21, G:0.20, T:0.31
Consensus pattern (44 bp):
CTGCTCCACTGCAACTTCAGGGAGATAAGACTTGCTACTTCAGT
Found at i:62988693 original size:175 final size:178
Alignment explanation
Indices: 62988436--62988840 Score: 516
Period size: 175 Copynumber: 2.3 Consensus size: 178
62988426 GAACTTAAAA
* * * * *
62988436 GAGATAAGAATTGGTAACTTTAACCAGCTCTACTGCAACTTCAGGGAGGTAAGGTTTGTGTATTT
1 GAGATAAGACTTGCT-ACTTCAACCTGCTCTACTGCAACTTCAGGGAGATAAGGTTTGTGTATTT
* * * * * ** *
62988501 TTATCCTGCTCTACTGCAACTTCAGAGAGATAAGGATTGTGGGTTCGGTCTGCTCCAATGTAATT
65 TTATCCTGCTCTACTGCAACTTCAGAGAGATAAAGAATATGGGTTCGATCTACTCCAATACAACT
*
62988566 TCAGGGAG-AAGATCTGCTGTCTTCAGTCTGCTCCACTGCAACTTCAGG
130 TCAGGGAGAAAGATCTGCTATCTTCAGTCTGCTCCACTGCAACTTCAGG
*
62988614 GAGATAAGACTTGCTACTTCAACCTGCTCTACTGCAACTTTAGGGAGATAAGG-TT-TGTATTTT
1 GAGATAAGACTTGCTACTTCAACCTGCTCTACTGCAACTTCAGGGAGATAAGGTTTGTGTATTTT
* * *
62988677 TATCCTGCTCTACTGCAACTTTAGAGAGATAAAGAATATGGTTTCGATCTACTCCACTACAACTT
66 TATCCTGCTCTACTGCAACTTCAGAGAGATAAAGAATATGGGTTCGATCTACTCCAATACAACTT
* *
62988742 CAGGGAGATAAGATCTGCTATCTTCAGTCTGTTCCATTGCAACTTCAGG
131 CAGGGAGA-AAGATCTGCTATCTTCAGTCTGCTCCACTGCAACTTCAGG
* * ** *
62988791 AAGATAAGACTTACT--TTCAGTCTGCT-TCACTGCAACTTCAAGGAGATAAG
1 GAGATAAGACTTGCTACTTCAACCTGCTCT-ACTGCAACTTCAGGGAGATAAG
62988841 ACTTGCTATC
Statistics
Matches: 198, Mismatches: 26, Indels: 9
0.85 0.11 0.04
Matches are distributed among these distances:
174 1 0.01
175 98 0.49
176 2 0.01
177 84 0.42
178 13 0.07
ACGTcount: A:0.27, C:0.20, G:0.21, T:0.32
Consensus pattern (178 bp):
GAGATAAGACTTGCTACTTCAACCTGCTCTACTGCAACTTCAGGGAGATAAGGTTTGTGTATTTT
TATCCTGCTCTACTGCAACTTCAGAGAGATAAAGAATATGGGTTCGATCTACTCCAATACAACTT
CAGGGAGAAAGATCTGCTATCTTCAGTCTGCTCCACTGCAACTTCAGG
Found at i:62988747 original size:88 final size:87
Alignment explanation
Indices: 62988462--62988929 Score: 274
Period size: 87 Copynumber: 5.3 Consensus size: 87
62988452 ACTTTAACCA
* *
62988462 GCTCTACTGCAACTTCAGGGAGGTAAGGTTTGTGTATTTTTATCCTGCTCTACTGCAACTTCAGA
1 GCTCCACTGCAACTTCAGGGAGATAAGG-TT-TGTATTTTTATCCTGCTCTACTGCAACTTCAGA
* * * *
62988527 GAGATAAGGATTGTGGGTTCGGTCT
64 GAGATAAAGAAT-TGGTTTCGATCT
* * * * * * * * * *
62988552 GCTCCAATGTAATTTCAGGGAG--AAGATCTGCTGTCTTCAGT-CTGCTCCACTGCAACTTCAGG
1 GCTCCACTGCAACTTCAGGGAGATAAGGTTTG-TATTTTTA-TCCTGCTCTACTGCAACTTCAGA
* * * *
62988614 GAGAT-AAGACTTGCTACTTCAACCT
64 GAGATAAAGAATTGGT--TTCGATCT
* * *
62988639 GCTCTACTGCAACTTTAGGGAGATAAGGTTTGTATTTTTATCCTGCTCTACTGCAACTTTAGAGA
1 GCTCCACTGCAACTTCAGGGAGATAAGGTTTGTATTTTTATCCTGCTCTACTGCAACTTCAGAGA
62988704 GATAAAGAATATGGTTTCGATCT
66 GATAAAGAAT-TGGTTTCGATCT
* * * * * * * * *
62988727 ACTCCACTACAACTTCAGGGAGATAAGATCTGCTATCTTCAGT-CTGTTCCATTGCAACTTCAG-
1 GCTCCACTGCAACTTCAGGGAGATAAGGTTTG-TATTTTTA-TCCTGCTCTACTGCAACTTCAGA
* **
62988790 GAAGAT-AAGACTTACTTTC-AGTCT
64 G-AGATAAAGAATTGGTTTCGA-TCT
* * ** * * * * *
62988814 GCTTCACTGCAACTTCAAGGAGATAAGACTTGCTATCTTTAGT-CTACTCCACTACAACTTTAG-
1 GCTCCACTGCAACTTCAGGGAGATAAGGTTTG-TATTTTTA-TCCTGCTCTACTGCAACTTCAGA
* *
62988877 GAAGAT-AAGACTTGTGGTTTCAATCT
64 G-AGATAAAGA-AT-TGGTTTCGATCT
* *
62988903 GCTCCACTGCAACTTTAAGGAGATAAG
1 GCTCCACTGCAACTTCAGGGAGATAAG
62988930 ATTGGCCATG
Statistics
Matches: 295, Mismatches: 67, Indels: 33
0.75 0.17 0.08
Matches are distributed among these distances:
85 2 0.01
86 7 0.02
87 122 0.41
88 71 0.24
89 70 0.24
90 23 0.08
ACGTcount: A:0.27, C:0.21, G:0.20, T:0.32
Consensus pattern (87 bp):
GCTCCACTGCAACTTCAGGGAGATAAGGTTTGTATTTTTATCCTGCTCTACTGCAACTTCAGAGA
GATAAAGAATTGGTTTCGATCT
Found at i:62988887 original size:45 final size:45
Alignment explanation
Indices: 62988724--62988890 Score: 175
Period size: 45 Copynumber: 3.8 Consensus size: 45
62988714 ATGGTTTCGA
* *
62988724 TCTACTCCACTACAACTTCAGGGAGATAAGA-TCTGCTATCTTCAG
1 TCTACTCCACTACAACTTCAGGAAGATAAGACT-TGCTATCTTTAG
** * *
62988769 TCTGTTCCATTGCAACTTCAGGAAGATAAGAC-T--TA-CTTTCAG
1 TCTACTCCACTACAACTTCAGGAAGATAAGACTTGCTATCTTT-AG
* * *
62988811 TCTGCTTCACTGCAACTTCAAGG-AGATAAGACTTGCTATCTTTAG
1 TCTACTCCACTACAACTTC-AGGAAGATAAGACTTGCTATCTTTAG
*
62988856 TCTACTCCACTACAACTTTAGGAAGATAAGACTTG
1 TCTACTCCACTACAACTTCAGGAAGATAAGACTTG
62988891 TGGTTTCAAT
Statistics
Matches: 101, Mismatches: 13, Indels: 16
0.78 0.10 0.12
Matches are distributed among these distances:
41 3 0.03
42 29 0.29
43 4 0.04
44 4 0.04
45 57 0.56
46 4 0.04
ACGTcount: A:0.29, C:0.23, G:0.16, T:0.31
Consensus pattern (45 bp):
TCTACTCCACTACAACTTCAGGAAGATAAGACTTGCTATCTTTAG
Found at i:62989494 original size:46 final size:46
Alignment explanation
Indices: 62989423--62989590 Score: 237
Period size: 46 Copynumber: 3.7 Consensus size: 46
62989413 TTTGCAATTT
* * * * *
62989423 AGGGGTACAAGATTTGTAACTTCTTCAATCCATCCCACTGTAGCTC
1 AGGGGTATAGGATTTGTATCATCTTCAATCCATCCCACTGTAACTC
**
62989469 AGGGGTATAGGATTTGTATCATCTTCAATCCATCCCACTACAACTC
1 AGGGGTATAGGATTTGTATCATCTTCAATCCATCCCACTGTAACTC
* *
62989515 AGGGGTGTAGGATTTGTATTATCTTCAATCCATCCCACTGTAACTC
1 AGGGGTATAGGATTTGTATCATCTTCAATCCATCCCACTGTAACTC
* *
62989561 AGGGGTATAGGATTTATATCTTCTTCAATC
1 AGGGGTATAGGATTTGTATCATCTTCAATC
62989591 AACTGATTTG
Statistics
Matches: 107, Mismatches: 15, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
46 107 1.00
ACGTcount: A:0.26, C:0.23, G:0.18, T:0.33
Consensus pattern (46 bp):
AGGGGTATAGGATTTGTATCATCTTCAATCCATCCCACTGTAACTC
Found at i:62990961 original size:5 final size:6
Alignment explanation
Indices: 62990940--62990974 Score: 61
Period size: 6 Copynumber: 5.8 Consensus size: 6
62990930 TCACTATCCT
*
62990940 TTTTTA TTTTTG TTTTTA TTTTTA TTTTTA TTTTT
1 TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA TTTTT
62990975 TGCACCGTTC
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
6 27 1.00
ACGTcount: A:0.11, C:0.00, G:0.03, T:0.86
Consensus pattern (6 bp):
TTTTTA
Found at i:62996564 original size:28 final size:28
Alignment explanation
Indices: 62996517--62996572 Score: 94
Period size: 28 Copynumber: 2.0 Consensus size: 28
62996507 AAATAATCCT
* *
62996517 TCCCCATACGCTCACTGTTTAAAAAAGG
1 TCCCCATACGCGCACCGTTTAAAAAAGG
62996545 TCCCCATACGCGCACCGTTTAAAAAAGG
1 TCCCCATACGCGCACCGTTTAAAAAAGG
62996573 ACCAAAATAA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
28 26 1.00
ACGTcount: A:0.32, C:0.30, G:0.16, T:0.21
Consensus pattern (28 bp):
TCCCCATACGCGCACCGTTTAAAAAAGG
Found at i:63012257 original size:26 final size:27
Alignment explanation
Indices: 63012206--63012256 Score: 70
Period size: 25 Copynumber: 2.0 Consensus size: 27
63012196 CTTAAATTTT
* *
63012206 TTTTCCTTTTTATTTTTCTCTCAAAAC
1 TTTTCCTTTTTATCTTTCTCCCAAAAC
63012233 TTTT-CTTTTTA-CTTTCTCCCAAAA
1 TTTTCCTTTTTATCTTTCTCCCAAAA
63012257 AAATTATTTC
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
25 11 0.50
26 7 0.32
27 4 0.18
ACGTcount: A:0.20, C:0.24, G:0.00, T:0.57
Consensus pattern (27 bp):
TTTTCCTTTTTATCTTTCTCCCAAAAC
Found at i:63015080 original size:29 final size:28
Alignment explanation
Indices: 63015025--63015097 Score: 69
Period size: 28 Copynumber: 2.5 Consensus size: 28
63015015 GTTCTATACA
63015025 TAAAATCATTAAAAAATCATAAAAATAAT-
1 TAAAAT-ATTAAAAAATCATAAAAAT-ATG
*
63015054 TAAAATATTAAAAATTACA-AAAGAATATG
1 TAAAATATTAAAAAAT-CATAAA-AATATG
63015083 TAAAAATATATAAAA
1 T-AAAATAT-TAAAA
63015098 GTGCAAAAAG
Statistics
Matches: 38, Mismatches: 1, Indels: 8
0.81 0.02 0.17
Matches are distributed among these distances:
28 14 0.37
29 12 0.32
30 7 0.18
31 5 0.13
ACGTcount: A:0.66, C:0.04, G:0.03, T:0.27
Consensus pattern (28 bp):
TAAAATATTAAAAAATCATAAAAATATG
Found at i:63015157 original size:30 final size:29
Alignment explanation
Indices: 63015117--63015186 Score: 97
Period size: 30 Copynumber: 2.3 Consensus size: 29
63015107 GATTATAAAA
63015117 AAAATTATTATAAATGACT-AAAAATTTAT
1 AAAATTATTATAAATGA-TAAAAAATTTAT
*
63015146 AAAATTTATTATAAATTATAAAAAATTTAT
1 AAAA-TTATTATAAATGATAAAAAATTTAT
63015176 ATAAATTATTA
1 A-AAATTATTA
63015187 AAAAAATTAA
Statistics
Matches: 37, Mismatches: 1, Indels: 5
0.86 0.02 0.12
Matches are distributed among these distances:
29 5 0.14
30 29 0.78
31 3 0.08
ACGTcount: A:0.56, C:0.01, G:0.01, T:0.41
Consensus pattern (29 bp):
AAAATTATTATAAATGATAAAAAATTTAT
Found at i:63015172 original size:21 final size:20
Alignment explanation
Indices: 63015146--63015191 Score: 74
Period size: 21 Copynumber: 2.2 Consensus size: 20
63015136 AAAAATTTAT
63015146 AAAATTTATTATAAATTATAA
1 AAAATTTA-TATAAATTATAA
63015167 AAAATTTATATAAATTATTAA
1 AAAATTTATATAAATTA-TAA
63015188 AAAA
1 AAAA
63015192 ATTAAAATTT
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
20 9 0.38
21 15 0.62
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (20 bp):
AAAATTTATATAAATTATAA
Found at i:63015762 original size:35 final size:35
Alignment explanation
Indices: 63015716--63015809 Score: 112
Period size: 36 Copynumber: 2.8 Consensus size: 35
63015706 TTTTCATGAG
63015716 TTTTTTCACTTATATAT-TTTA-ATATTTTTAATAA
1 TTTTTTCACTTATATATATTTATA-ATTTTTAATAA
*
63015750 TTTTTTGCACTTATATATATTTATAATTTTTAATAG
1 TTTTTT-CACTTATATATATTTATAATTTTTAATAA
63015786 TTTTTT-A--TA-ATAT-TTTATAATTTT
1 TTTTTTCACTTATATATATTTATAATTTT
63015810 CTATAAGTTT
Statistics
Matches: 56, Mismatches: 1, Indels: 10
0.84 0.01 0.15
Matches are distributed among these distances:
30 11 0.20
31 4 0.07
32 2 0.04
34 7 0.12
35 11 0.20
36 20 0.36
37 1 0.02
ACGTcount: A:0.31, C:0.04, G:0.02, T:0.63
Consensus pattern (35 bp):
TTTTTTCACTTATATATATTTATAATTTTTAATAA
Found at i:63015790 original size:36 final size:34
Alignment explanation
Indices: 63015714--63015791 Score: 113
Period size: 36 Copynumber: 2.2 Consensus size: 34
63015704 AATTTTCATG
63015714 AGTTTTTTCACTTATATATTTTAATATTTTTAAT
1 AGTTTTTTCACTTATATATTTTAATATTTTTAAT
*
63015748 AATTTTTTGCACTTATATATATTT-ATAATTTTTAAT
1 AGTTTTTT-CACTTATATAT-TTTAAT-ATTTTTAAT
63015784 AGTTTTTT
1 AGTTTTTT
63015792 ATAATATTTT
Statistics
Matches: 39, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
34 7 0.18
35 13 0.33
36 19 0.49
ACGTcount: A:0.29, C:0.05, G:0.04, T:0.62
Consensus pattern (34 bp):
AGTTTTTTCACTTATATATTTTAATATTTTTAAT
Found at i:63015801 original size:10 final size:9
Alignment explanation
Indices: 63015769--63015854 Score: 68
Period size: 10 Copynumber: 9.0 Consensus size: 9
63015759 CTTATATATA
63015769 TTTATAATT
1 TTTATAATT
*
63015778 TTTAATAGTTT
1 TTT-ATA-ATT
63015789 TTTATAATAT
1 TTTATAAT-T
63015799 TTTATAATT
1 TTTATAATT
63015808 TTCTATAAGTT
1 TT-TATAA-TT
63015819 TTCTATAATT
1 TT-TATAATT
* *
63015829 TTAATAAAT
1 TTTATAATT
63015838 TTTA-AATT
1 TTTATAATT
63015846 ATTT-TAATT
1 -TTTATAATT
63015855 ATAAAACACC
Statistics
Matches: 64, Mismatches: 6, Indels: 14
0.76 0.07 0.17
Matches are distributed among these distances:
8 3 0.05
9 22 0.34
10 24 0.38
11 15 0.23
ACGTcount: A:0.35, C:0.02, G:0.02, T:0.60
Consensus pattern (9 bp):
TTTATAATT
Done.