Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D05
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: 63323194
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1953226 characters in sequence are not A, C, G, or T
File 193 of 199
Found at i:61184108 original size:80 final size:80
Alignment explanation
Indices: 61183975--61184137 Score: 308
Period size: 80 Copynumber: 2.0 Consensus size: 80
61183965 AAAAAATTCC
* *
61183975 AAATTGAGTTTGAATGATAAAATAGAACTCGTGAACTCGATTAACTCGAAATTTTTTTACTCGAT
1 AAATTGAGTTTGAATGATAAAATAAAACTCGTGAACTCGATTAACTCGAAATTTTTTCACTCGAT
61184040 TCGAGTAAATTCGAT
66 TCGAGTAAATTCGAT
61184055 AAATTGAGTTTGAATGATAAAATAAAACTCGTGAACTCGATTAACTCGAAATTTTTTCACTCGAT
1 AAATTGAGTTTGAATGATAAAATAAAACTCGTGAACTCGATTAACTCGAAATTTTTTCACTCGAT
61184120 TCGAGTAAATTCGAT
66 TCGAGTAAATTCGAT
61184135 AAA
1 AAA
61184138 ACATTCACCT
Statistics
Matches: 81, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
80 81 1.00
ACGTcount: A:0.38, C:0.13, G:0.15, T:0.34
Consensus pattern (80 bp):
AAATTGAGTTTGAATGATAAAATAAAACTCGTGAACTCGATTAACTCGAAATTTTTTCACTCGAT
TCGAGTAAATTCGAT
Found at i:61185740 original size:17 final size:17
Alignment explanation
Indices: 61185702--61185741 Score: 53
Period size: 17 Copynumber: 2.4 Consensus size: 17
61185692 TTGTTAGATC
61185702 TAATAAATTAAAGTGAA
1 TAATAAATTAAAGTGAA
* * *
61185719 CAATAAATTAATGTGGA
1 TAATAAATTAAAGTGAA
61185736 TAATAA
1 TAATAA
61185742 TATTTATATT
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.55, C:0.03, G:0.12, T:0.30
Consensus pattern (17 bp):
TAATAAATTAAAGTGAA
Found at i:61190835 original size:3 final size:3
Alignment explanation
Indices: 61190827--61190868 Score: 84
Period size: 3 Copynumber: 14.0 Consensus size: 3
61190817 TCATTCATGG
61190827 CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT
1 CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT
61190869 TATTTCGATG
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 39 1.00
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (3 bp):
CTT
Found at i:61202600 original size:16 final size:16
Alignment explanation
Indices: 61202570--61202603 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
61202560 CTTTCTCTTA
**
61202570 TTTGTTGATGGAACTT
1 TTTGTTGATCCAACTT
61202586 TTTGTTGATCCAACTT
1 TTTGTTGATCCAACTT
61202602 TT
1 TT
61202604 CATTGTCAGA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.18, C:0.12, G:0.18, T:0.53
Consensus pattern (16 bp):
TTTGTTGATCCAACTT
Found at i:61205580 original size:14 final size:14
Alignment explanation
Indices: 61205561--61205591 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
61205551 GAAAAGAGCA
*
61205561 CACAATTGTCAACG
1 CACAATTATCAACG
61205575 CACAATTATCAACG
1 CACAATTATCAACG
61205589 CAC
1 CAC
61205592 CTGTTTTAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.39, C:0.32, G:0.10, T:0.19
Consensus pattern (14 bp):
CACAATTATCAACG
Found at i:61207463 original size:22 final size:22
Alignment explanation
Indices: 61207431--61207482 Score: 86
Period size: 22 Copynumber: 2.4 Consensus size: 22
61207421 GCTCCAGATT
61207431 TTCCTTCAGGCGAAGACCTATC
1 TTCCTTCAGGCGAAGACCTATC
*
61207453 TTCCTTTAGGCGAAGACCTATC
1 TTCCTTCAGGCGAAGACCTATC
*
61207475 TTTCTTCA
1 TTCCTTCA
61207483 CAAAACATTT
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 27 1.00
ACGTcount: A:0.21, C:0.29, G:0.15, T:0.35
Consensus pattern (22 bp):
TTCCTTCAGGCGAAGACCTATC
Found at i:61213184 original size:340 final size:340
Alignment explanation
Indices: 61212564--61213197 Score: 1178
Period size: 340 Copynumber: 1.9 Consensus size: 340
61212554 GTAATGGCGC
* *
61212564 GCACAATTTAAAGTAATATGTCATTAAAATTTTATATTTTTCAAAATAAAAAATTGAATCTAATT
1 GCACAATTTAAAGTAATATGTAATTAAAATTTTATATTTTTCAAAACAAAAAATTGAATCTAATT
* * *
61212629 GTCAGACACCAAATAAAAGTTACAAATATTAAAGTAAATTTCCATATATTAACCCAAAAGGGAAC
66 ATCAGACACCAAATAAAAATTACAAATATTAAAGTAAATTTCCATATATTAACCCAAAAAGGAAC
61212694 GCTTATTTTTGTTTCTTTAAATCTTCCATGGACAATAGTCTCCTTTTCACATGGAGCTTTTGATA
131 GCTTATTTTTGTTTCTTTAAATCTTCCATGGACAATAGTCTCCTTTTCACATGGAGCTTTTGATA
*
61212759 TGCACATGACACGTTAAATTTTCCATTGAAATCATCTTTGATTGGTAGAATCCTTCCTCCTTTTT
196 TGCACATGACACGTTAAATTTTCCAGTGAAATCATCTTTGATTGGTAGAATCCTTCCTCCTTTTT
61212824 TTGGTTATATATGCACATTAATAATTCTTATCTTTAATTATTTTAGTCTTAATTTTTAAAATATA
261 TTGGTTATATATGCACATTAATAATTCTTATCTTTAATTATTTTAGTCTTAATTTTTAAAATATA
61212889 TTTTTTAATTTTCGT
326 TTTTTTAATTTTCGT
61212904 GCACAATTTAAAGTAATATGTAATTAAAATTTTATATTTTTCAAAACAAAAAATTGAATCTAATT
1 GCACAATTTAAAGTAATATGTAATTAAAATTTTATATTTTTCAAAACAAAAAATTGAATCTAATT
* *
61212969 ATCAGACATCAAATAAAAATTACAAATATTAAAGTAAATTTCCATTTATTAACCCAAAAAGGAAC
66 ATCAGACACCAAATAAAAATTACAAATATTAAAGTAAATTTCCATATATTAACCCAAAAAGGAAC
* *
61213034 TCTTATTTTTGTTTCTTTAAATCTTCTATGGACAATAGTCTCCTTTTCACATGGAGCTTTTGATA
131 GCTTATTTTTGTTTCTTTAAATCTTCCATGGACAATAGTCTCCTTTTCACATGGAGCTTTTGATA
61213099 TGCACATGACACGTTAAATTTTCCAGTGAAATCATCTTTGATTGGTAGAATCCTTCCTCCTTTTT
196 TGCACATGACACGTTAAATTTTCCAGTGAAATCATCTTTGATTGGTAGAATCCTTCCTCCTTTTT
61213164 TTGGTTATATATGCACATTAATAATTCTTATCTT
261 TTGGTTATATATGCACATTAATAATTCTTATCTT
61213198 GTCTTAATTT
Statistics
Matches: 284, Mismatches: 10, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
340 284 1.00
ACGTcount: A:0.35, C:0.15, G:0.10, T:0.41
Consensus pattern (340 bp):
GCACAATTTAAAGTAATATGTAATTAAAATTTTATATTTTTCAAAACAAAAAATTGAATCTAATT
ATCAGACACCAAATAAAAATTACAAATATTAAAGTAAATTTCCATATATTAACCCAAAAAGGAAC
GCTTATTTTTGTTTCTTTAAATCTTCCATGGACAATAGTCTCCTTTTCACATGGAGCTTTTGATA
TGCACATGACACGTTAAATTTTCCAGTGAAATCATCTTTGATTGGTAGAATCCTTCCTCCTTTTT
TTGGTTATATATGCACATTAATAATTCTTATCTTTAATTATTTTAGTCTTAATTTTTAAAATATA
TTTTTTAATTTTCGT
Found at i:61213747 original size:24 final size:24
Alignment explanation
Indices: 61213720--61213765 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
61213710 CTAATTAAAT
* *
61213720 CTTATAAATAATTAATATTTATTG
1 CTTAAAAATAATTAAAATTTATTG
*
61213744 CTTAAAAATATTTAAAATTTAT
1 CTTAAAAATAATTAAAATTTAT
61213766 ATTTCATATA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.46, C:0.04, G:0.02, T:0.48
Consensus pattern (24 bp):
CTTAAAAATAATTAAAATTTATTG
Found at i:61214015 original size:13 final size:13
Alignment explanation
Indices: 61213958--61214023 Score: 69
Period size: 13 Copynumber: 5.1 Consensus size: 13
61213948 TTTAAACCAA
*
61213958 ACTTTTCAGAAGC
1 ACTTTTCAAAAGC
**
61213971 ACTCCTCAAAAGC
1 ACTTTTCAAAAGC
* *
61213984 ACTTTTCCATAGC
1 ACTTTTCAAAAGC
* *
61213997 ATTTTTCAAAAGT
1 ACTTTTCAAAAGC
61214010 ACTTTTCAAAAGC
1 ACTTTTCAAAAGC
61214023 A
1 A
61214024 TTGCCAAACT
Statistics
Matches: 40, Mismatches: 13, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
13 40 1.00
ACGTcount: A:0.35, C:0.24, G:0.09, T:0.32
Consensus pattern (13 bp):
ACTTTTCAAAAGC
Found at i:61223041 original size:21 final size:21
Alignment explanation
Indices: 61223009--61223049 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
61222999 AGGCTCGAGG
61223009 GGCCTGTTTTAGGCC-ATACAA
1 GGCCTGTTTTA-GCCTATACAA
61223030 GGCCT-TTCTTAGCCTATACA
1 GGCCTGTT-TTAGCCTATACA
61223050 CCAATTGTTC
Statistics
Matches: 18, Mismatches: 0, Indels: 4
0.82 0.00 0.18
Matches are distributed among these distances:
20 5 0.28
21 13 0.72
ACGTcount: A:0.22, C:0.27, G:0.20, T:0.32
Consensus pattern (21 bp):
GGCCTGTTTTAGCCTATACAA
Found at i:61232068 original size:26 final size:26
Alignment explanation
Indices: 61232038--61232089 Score: 104
Period size: 26 Copynumber: 2.0 Consensus size: 26
61232028 TAAGAAGTAT
61232038 ATCTGATAGCAAGGATTCACCCAAAA
1 ATCTGATAGCAAGGATTCACCCAAAA
61232064 ATCTGATAGCAAGGATTCACCCAAAA
1 ATCTGATAGCAAGGATTCACCCAAAA
61232090 GCCTTTGATT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.42, C:0.23, G:0.15, T:0.19
Consensus pattern (26 bp):
ATCTGATAGCAAGGATTCACCCAAAA
Found at i:61233142 original size:22 final size:24
Alignment explanation
Indices: 61233086--61233145 Score: 65
Period size: 22 Copynumber: 2.6 Consensus size: 24
61233076 TAAATTTTGA
61233086 AAAATAAAAATTCTAAAGAATATAT
1 AAAAT-AAAATTCTAAAGAATATAT
*
61233111 AAAA-AAAATT-TAAA-AAT-TCT
1 AAAATAAAATTCTAAAGAATATAT
61233131 AAAATAATAATTCTA
1 AAAATAA-AATTCTA
61233146 GGACTTAAAT
Statistics
Matches: 31, Mismatches: 1, Indels: 8
0.77 0.03 0.20
Matches are distributed among these distances:
20 6 0.19
21 5 0.16
22 8 0.26
23 8 0.26
25 4 0.13
ACGTcount: A:0.63, C:0.05, G:0.02, T:0.30
Consensus pattern (24 bp):
AAAATAAAATTCTAAAGAATATAT
Found at i:61234482 original size:14 final size:15
Alignment explanation
Indices: 61234465--61234496 Score: 50
Period size: 13 Copynumber: 2.3 Consensus size: 15
61234455 TCCATTTTTT
61234465 AAATTTATTTTAA-A
1 AAATTTATTTTAAGA
61234479 AAA-TTATTTTAAGA
1 AAATTTATTTTAAGA
61234493 AAAT
1 AAAT
61234497 AAAAAATTAG
Statistics
Matches: 16, Mismatches: 0, Indels: 3
0.84 0.00 0.16
Matches are distributed among these distances:
13 9 0.56
14 7 0.44
ACGTcount: A:0.53, C:0.00, G:0.03, T:0.44
Consensus pattern (15 bp):
AAATTTATTTTAAGA
Found at i:61239174 original size:44 final size:41
Alignment explanation
Indices: 61239012--61239179 Score: 120
Period size: 44 Copynumber: 4.0 Consensus size: 41
61239002 AGACCCATCA
* * * *
61239012 TTTTAATCCGCTTCACTGCAACTTCAAGAAGATAGGATTGG
1 TTTTAATCCGCTCCACTGCAACTTCAGGGAGATAAGATTGG
** * *
61239053 TTTCTTCAATCTACCCCACTACAACTTCAGGGAGATAAGATTGG
1 -TT-TT-AATCCGCTCCACTGCAACTTCAGGGAGATAAGATTGG
* *** * * * **
61239097 ATGCGATCTGCTCTACTACAACTTCAGATAGATAAGATCAATGG
1 TTTTAATCCGCTCCACTGCAACTTCAGGGAGATAAGAT---TGG
*
61239141 TTTTAATCCGCTCCACTGCAACTTCAGGGAGATAGGATT
1 TTTTAATCCGCTCCACTGCAACTTCAGGGAGATAAGATT
61239180 TTTGGCTTCA
Statistics
Matches: 94, Mismatches: 27, Indels: 11
0.71 0.20 0.08
Matches are distributed among these distances:
41 29 0.31
42 2 0.02
43 3 0.03
44 60 0.64
ACGTcount: A:0.30, C:0.22, G:0.18, T:0.30
Consensus pattern (41 bp):
TTTTAATCCGCTCCACTGCAACTTCAGGGAGATAAGATTGG
Found at i:61239216 original size:129 final size:128
Alignment explanation
Indices: 61238967--61239223 Score: 320
Period size: 129 Copynumber: 2.0 Consensus size: 128
61238957 TATAAAATCT
* * * * *
61238967 GATGTGATCTGTTCTACTGCAACTTCAGAGAAATAAGACCCATCATTTTAATCCGCTTCACTGCA
1 GATGCGATCTGCTCTACTACAACTTCAGAGAAATAAGACCAATCATTTTAATCCGCTCCACTGCA
*
61239032 ACTTCAAGAAGATAGGATTGGTTTCTTCAATCTACCCCACTACAACTTCAGGGAGATAAGATTG
66 ACTTCAAGAAGATAGGATT-GTTTCTTCAATCTACCCCACTACAACTTCAAGGAGATAAGATTG
* * * **
61239096 GATGCGATCTGCTCTACTACAACTTCAGATAGATAAGATCAATGGTTTTAATCCGCTCCACTGCA
1 GATGCGATCTGCTCTACTACAACTTCAGAGAAATAAGACCAATCATTTTAATCCGCTCCACTGCA
* * ** *
61239161 ACTTCAGGGAGATAGGATT-TTTGGCTTCAATCTATTCCACTGCAAACTT-AAGGAGATAAGATT
66 ACTTCAAGAAGATAGGATTGTTT--CTTCAATCTACCCCACTAC-AACTTCAAGGAGATAAGATT
61239224 CACCATCTTC
Statistics
Matches: 109, Mismatches: 16, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
127 3 0.03
129 101 0.93
130 5 0.05
ACGTcount: A:0.31, C:0.21, G:0.18, T:0.30
Consensus pattern (128 bp):
GATGCGATCTGCTCTACTACAACTTCAGAGAAATAAGACCAATCATTTTAATCCGCTCCACTGCA
ACTTCAAGAAGATAGGATTGTTTCTTCAATCTACCCCACTACAACTTCAAGGAGATAAGATTG
Found at i:61253317 original size:23 final size:23
Alignment explanation
Indices: 61253267--61253317 Score: 59
Period size: 23 Copynumber: 2.2 Consensus size: 23
61253257 ACGGCGGGGA
* *
61253267 ACGTGGCATGTACAGAGGCGCGG
1 ACGTGGCATGTACAGAGGAGAGG
*
61253290 ACGTGGCATGTACATGGGGAGAGG
1 ACGTGGCATGTACA-GAGGAGAGG
61253314 -CGTG
1 ACGTG
61253318 CGTGGCAGCG
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
23 18 0.75
24 6 0.25
ACGTcount: A:0.22, C:0.18, G:0.45, T:0.16
Consensus pattern (23 bp):
ACGTGGCATGTACAGAGGAGAGG
Found at i:61254161 original size:54 final size:54
Alignment explanation
Indices: 61254058--61254161 Score: 129
Period size: 54 Copynumber: 1.9 Consensus size: 54
61254048 TTTAAATTCT
* * *
61254058 AAATTTAAATTCATTAATTTTTATATTTAGTTTTAAAGTTAAAATTTTAATAGA
1 AAATTTAAATTAATTAATTTTTATATTTAGTTATAAAGTTAAAAGTTTAATAGA
* * * *
61254112 AAATTTAATTTAATTAATATTTTTTATTTAG-TATATAGTTTAAAGTTTAA
1 AAATTTAAATTAATTAAT-TTTTATATTTAGTTATAAAGTTAAAAGTTTAA
61254162 ATTCTAAAAA
Statistics
Matches: 42, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
54 31 0.74
55 11 0.26
ACGTcount: A:0.41, C:0.01, G:0.06, T:0.52
Consensus pattern (54 bp):
AAATTTAAATTAATTAATTTTTATATTTAGTTATAAAGTTAAAAGTTTAATAGA
Found at i:61258763 original size:22 final size:22
Alignment explanation
Indices: 61258713--61258765 Score: 56
Period size: 23 Copynumber: 2.4 Consensus size: 22
61258703 TTAAACTTCC
*
61258713 TTAAT-TAATTTTTATTTAATA
1 TTAATATATTTTTTATTTAATA
*
61258734 TTATATATATTTTTATATTTACT-
1 TTA-ATATATTTTT-TATTTAATA
61258757 TTAATATAT
1 TTAATATAT
61258766 ATAACACTTA
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
21 3 0.11
22 8 0.30
23 9 0.33
24 7 0.26
ACGTcount: A:0.36, C:0.02, G:0.00, T:0.62
Consensus pattern (22 bp):
TTAATATATTTTTTATTTAATA
Found at i:61262377 original size:17 final size:17
Alignment explanation
Indices: 61262355--61262388 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
61262345 ATCCACTAAT
*
61262355 CCACTACCACCAACAAC
1 CCACTACCAACAACAAC
61262372 CCACTACCAACAACAAC
1 CCACTACCAACAACAAC
61262389 AATCCACTAC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.44, C:0.50, G:0.00, T:0.06
Consensus pattern (17 bp):
CCACTACCAACAACAAC
Found at i:61267005 original size:17 final size:17
Alignment explanation
Indices: 61266983--61267016 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
61266973 ATCCACTAAT
*
61266983 CCACTACCACCAACAAC
1 CCACTACCAACAACAAC
61267000 CCACTACCAACAACAAC
1 CCACTACCAACAACAAC
61267017 AATCCACTAC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.44, C:0.50, G:0.00, T:0.06
Consensus pattern (17 bp):
CCACTACCAACAACAAC
Found at i:61267638 original size:21 final size:21
Alignment explanation
Indices: 61267614--61267655 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
61267604 AAAACCATTA
61267614 AGTTAAAAGACAAAATTATGT
1 AGTTAAAAGACAAAATTATGT
*
61267635 AGTTAAAAGGCAAAATTATGT
1 AGTTAAAAGACAAAATTATGT
61267656 CATTTTGATA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.50, C:0.05, G:0.17, T:0.29
Consensus pattern (21 bp):
AGTTAAAAGACAAAATTATGT
Found at i:61268409 original size:44 final size:44
Alignment explanation
Indices: 61268319--61268420 Score: 150
Period size: 44 Copynumber: 2.3 Consensus size: 44
61268309 ATGATCACAT
* *
61268319 ACAGATTTCAGAATATGGAAGCAAAAAAGGAAATGACCACAGAC
1 ACAGATTTGAGAATATGGAAGCAAAAAAGGAAATGACCACAAAC
** *
61268363 ACAGATTTGAGAATATGGAAGCAAAAAAGGAAATGATGAGAAAC
1 ACAGATTTGAGAATATGGAAGCAAAAAAGGAAATGACCACAAAC
*
61268407 ACAGATTCGAGAAT
1 ACAGATTTGAGAAT
61268421 TAGAAAGCCA
Statistics
Matches: 52, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
44 52 1.00
ACGTcount: A:0.50, C:0.12, G:0.23, T:0.16
Consensus pattern (44 bp):
ACAGATTTGAGAATATGGAAGCAAAAAAGGAAATGACCACAAAC
Found at i:61268434 original size:44 final size:44
Alignment explanation
Indices: 61268337--61268486 Score: 149
Period size: 44 Copynumber: 3.2 Consensus size: 44
61268327 CAGAATATGG
** * * * *
61268337 AAGCAAAAAAGGAAATGACCACAGACACAGATTTGAGAA-TATGG
1 AAGCAAAAAAGGAAATGATGAGAAACACAGATTCGAGAATTA-GA
61268381 AAGCAAAAAAGGAAATGATGAGAAACACAGATTCGAGAATTAGA
1 AAGCAAAAAAGGAAATGATGAGAAACACAGATTCGAGAATTAGA
*
61268425 AAGCCAAAAACAAAGAGTGGAAATGATGAGAACCACAGATTCGAGAATTAGA
1 AAG-C---AA-AAA-A--GGAAATGATGAGAAACACAGATTCGAGAATTAGA
61268477 AAGCAAAAAA
1 AAGCAAAAAA
61268487 CAAAGAGTGG
Statistics
Matches: 90, Mismatches: 7, Indels: 16
0.80 0.06 0.14
Matches are distributed among these distances:
44 38 0.42
45 3 0.03
46 1 0.01
47 3 0.03
48 4 0.04
49 3 0.03
50 1 0.01
51 1 0.01
52 36 0.40
ACGTcount: A:0.53, C:0.12, G:0.22, T:0.13
Consensus pattern (44 bp):
AAGCAAAAAAGGAAATGATGAGAAACACAGATTCGAGAATTAGA
Found at i:61268452 original size:52 final size:52
Alignment explanation
Indices: 61268391--61268540 Score: 230
Period size: 52 Copynumber: 2.9 Consensus size: 52
61268381 AAGCAAAAAA
*
61268391 GGAAATGATGAGAAACACAGATTCGAGAATTAGAAAGCCAAAAACAAAGAGT
1 GGAAATGATGAGAAACACAGATTCGAGAATTAGAAAGCAAAAAACAAAGAGT
*
61268443 GGAAATGATGAGAACCACAGATTCGAGAATTAGAAAGCAAAAAACAAAGAGT
1 GGAAATGATGAGAAACACAGATTCGAGAATTAGAAAGCAAAAAACAAAGAGT
* * * *
61268495 GGAAATGATGAGAAACACGGGTTTGAGAACTT-GGAAGCAAAAAACA
1 GGAAATGATGAGAAACACAGATTCGAGAA-TTAGAAAGCAAAAAACA
61268541 CTTTGGATGA
Statistics
Matches: 90, Mismatches: 7, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
52 88 0.98
53 2 0.02
ACGTcount: A:0.50, C:0.11, G:0.25, T:0.14
Consensus pattern (52 bp):
GGAAATGATGAGAAACACAGATTCGAGAATTAGAAAGCAAAAAACAAAGAGT
Found at i:61268897 original size:42 final size:42
Alignment explanation
Indices: 61268851--61268931 Score: 144
Period size: 42 Copynumber: 1.9 Consensus size: 42
61268841 ATTGGGTCAC
* *
61268851 CTTGTAAAATGGTTGTTTTTAATAAACGATTTGATTTTACAA
1 CTTGTAAAATAGTTATTTTTAATAAACGATTTGATTTTACAA
61268893 CTTGTAAAATAGTTATTTTTAATAAACGATTTGATTTTA
1 CTTGTAAAATAGTTATTTTTAATAAACGATTTGATTTTA
61268932 TTAAAACAAC
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
42 37 1.00
ACGTcount: A:0.35, C:0.06, G:0.12, T:0.47
Consensus pattern (42 bp):
CTTGTAAAATAGTTATTTTTAATAAACGATTTGATTTTACAA
Found at i:61269762 original size:44 final size:45
Alignment explanation
Indices: 61269714--61269811 Score: 119
Period size: 44 Copynumber: 2.2 Consensus size: 45
61269704 CGACCTATTG
* * * *
61269714 CAACTTCAGAGG-TATAGGATTCATCGTTTTAATCCGCTCCACAA
1 CAACTTCAGAGGATATAGGATTAATAGCTTCAATCCGCTCCACAA
* **
61269758 CAACTTCAG-GGATATAGGATTAATAGCTTCAATCTGCTCCATTA
1 CAACTTCAGAGGATATAGGATTAATAGCTTCAATCCGCTCCACAA
61269802 CAACTTCAGA
1 CAACTTCAGA
61269812 AAGATAAGAT
Statistics
Matches: 45, Mismatches: 7, Indels: 3
0.82 0.13 0.05
Matches are distributed among these distances:
43 2 0.04
44 43 0.96
ACGTcount: A:0.32, C:0.23, G:0.15, T:0.30
Consensus pattern (45 bp):
CAACTTCAGAGGATATAGGATTAATAGCTTCAATCCGCTCCACAA
Found at i:61269889 original size:45 final size:44
Alignment explanation
Indices: 61269745--61269909 Score: 156
Period size: 44 Copynumber: 3.8 Consensus size: 44
61269735 CATCGTTTTA
* * * * ** *
61269745 ATCC-GCTCCACAACAACTTCAGGGATATAGGATTAATAGCTTC
1 ATCCTGCTCCACTACAACTTTAGGGAGATAAGATTGGTATCTTC
* * **
61269788 AAT-CTGCTCCATTACAACTTCAGAAAGATAAGATTGGTATCTTC
1 -ATCCTGCTCCACTACAACTTTAGGGAGATAAGATTGGTATCTTC
* *
61269832 ATCCTGCTCCACTGCAACTTTAGGGAGATAAGGTTGGTTATCTTC
1 ATCCTGCTCCACTACAACTTTAGGGAGATAAGATTGG-TATCTTC
*
61269877 AGT-TTGCTCCACTACAACTTTAGGGAGATAAGA
1 A-TCCTGCTCCACTACAACTTTAGGGAGATAAGA
61269910 CTTGTTATGG
Statistics
Matches: 99, Mismatches: 18, Indels: 7
0.80 0.15 0.06
Matches are distributed among these distances:
43 3 0.03
44 60 0.61
45 35 0.35
46 1 0.01
ACGTcount: A:0.30, C:0.22, G:0.18, T:0.30
Consensus pattern (44 bp):
ATCCTGCTCCACTACAACTTTAGGGAGATAAGATTGGTATCTTC
Found at i:61270411 original size:44 final size:44
Alignment explanation
Indices: 61270363--61270502 Score: 104
Period size: 44 Copynumber: 3.2 Consensus size: 44
61270353 TATTGCTGCT
*
61270363 CAGGAAGATAAGGCTGGTGTTTTGGATCTACTTCACTGCCAGTA
1 CAGGAAGATAAGGCTGGTGTTTTGGATCTACTTCACTGACAGTA
* * **** * * * * *
61270407 CAGGAAGACAAGATCTACAATCTTGAACCTACTCCACT-ACTGCT-
1 CAGGAAGATAAG-GCTGGTGTTTTGGATCTACTTCACTGACAG-TA
* * * *
61270451 CAGGGAGATAAGGCTGGTGTTTTTGATCTACTTCACTGTCAATA
1 CAGGAAGATAAGGCTGGTGTTTTGGATCTACTTCACTGACAGTA
61270495 CAGGAAGA
1 CAGGAAGA
61270503 CAAGATCTAC
Statistics
Matches: 64, Mismatches: 28, Indels: 8
0.64 0.28 0.08
Matches are distributed among these distances:
43 16 0.25
44 31 0.48
45 17 0.27
ACGTcount: A:0.29, C:0.21, G:0.23, T:0.27
Consensus pattern (44 bp):
CAGGAAGATAAGGCTGGTGTTTTGGATCTACTTCACTGACAGTA
Found at i:61270411 original size:88 final size:88
Alignment explanation
Indices: 61270270--61271141 Score: 1116
Period size: 88 Copynumber: 9.9 Consensus size: 88
61270260 CTCTCTACTG
* * *
61270270 CTGCTCAGGGAGATAAGGCTGGTGTTTTTGATCTACTTC-CATACCAATACAGGAAGATAAGATC
1 CTGCTCAGGGAGATAAGGCTGGTGTTTTTGATCTACTTCAC-TGCCAGTACAGGAAGACAAGATC
* * * * * *
61270334 TATAATCTTCATCTTACTCTATTG
65 TACAATCTTCAACCTACTCCACTA
* *
61270358 CTGCTCAGGAAGATAAGGCTGGTGTTTTGGATCTACTTCACTGCCAGTACAGGAAGACAAGATCT
1 CTGCTCAGGGAGATAAGGCTGGTGTTTTTGATCTACTTCACTGCCAGTACAGGAAGACAAGATCT
*
61270423 ACAATCTTGAACCTACTCCACTA
66 ACAATCTTCAACCTACTCCACTA
* *
61270446 CTGCTCAGGGAGATAAGGCTGGTGTTTTTGATCTACTTCACTGTCAATACAGGAAGACAAGATCT
1 CTGCTCAGGGAGATAAGGCTGGTGTTTTTGATCTACTTCACTGCCAGTACAGGAAGACAAGATCT
* * *
61270511 ACAATATTTAACCTACTTCACTA
66 ACAATCTTCAACCTACTCCACTA
* * * * ** * * * *
61270534 CTGCTCAGTGAGATAAGGTTGGTGCTTTCGATCTACTTCACTATCAATACATGAAGAAAAGGTCT
1 CTGCTCAGGGAGATAAGGCTGGTGTTTTTGATCTACTTCACTGCCAGTACAGGAAGACAAGATCT
61270599 ACAATCTTCAACCTACTCCACTA
66 ACAATCTTCAACCTACTCCACTA
* * * *
61270622 TTGCTCAGGGAGATAAGGCTGGTGTTTTCGGTCTACTTCACTGCCAGTACAGGAAAACAAGATCT
1 CTGCTCAGGGAGATAAGGCTGGTGTTTTTGATCTACTTCACTGCCAGTACAGGAAGACAAGATCT
*
61270687 ACAATCTTCAACCTACTCCACTG
66 ACAATCTTCAACCTACTCCACTA
* * * * *
61270710 CTGCTCATGGAGATAAGGCTGGTGTTTTCGATCTACTTCACTGCCAATATAGGAAGATAAGATCT
1 CTGCTCAGGGAGATAAGGCTGGTGTTTTTGATCTACTTCACTGCCAGTACAGGAAGACAAGATCT
* *
61270775 ACAATTTTCAACCTACTCCACTG
66 ACAATCTTCAACCTACTCCACTA
* * * * * *
61270798 CTGCTCAGGGAGATAAGACTGATGTTTTCGATCTACTTCACTACCAGTATAGGTAGACAAGATCT
1 CTGCTCAGGGAGATAAGGCTGGTGTTTTTGATCTACTTCACTGCCAGTACAGGAAGACAAGATCT
61270863 ACAATCTTCAACCTACTCCACTA
66 ACAATCTTCAACCTACTCCACTA
* * * * * * * *
61270886 CTACTTAGGGAGATAAGGCTAGTATTTTGGATTTACTTCACTGCCAGTATAAGAAGACAAGATCT
1 CTGCTCAGGGAGATAAGGCTGGTGTTTTTGATCTACTTCACTGCCAGTACAGGAAGACAAGATCT
*
61270951 ACAATCTTCAACCTACTCTACTA
66 ACAATCTTCAACCTACTCCACTA
* * * * * * * *
61270974 TTGCTCAGGGAGATAAGACTGATATTTTTGATCTACTTCACTGCTAGTATAGGAAGATAAGAGCT
1 CTGCTCAGGGAGATAAGGCTGGTGTTTTTGATCTACTTCACTGCCAGTACAGGAAGACAAGATCT
*
61271039 ACAATCTTCAACCTACTCCACTG
66 ACAATCTTCAACCTACTCCACTA
* * * * *
61271062 TTGCTCAGGGAGATAAGGTTGATGTTTTTGATCTACTTCACTGCCAGTACAAGAAGATAAGATCT
1 CTGCTCAGGGAGATAAGGCTGGTGTTTTTGATCTACTTCACTGCCAGTACAGGAAGACAAGATCT
61271127 ACAATCTTCAACCTA
66 ACAATCTTCAACCTA
61271142 TTCAAAACTT
Statistics
Matches: 690, Mismatches: 93, Indels: 2
0.88 0.12 0.00
Matches are distributed among these distances:
88 689 1.00
89 1 0.00
ACGTcount: A:0.30, C:0.22, G:0.18, T:0.30
Consensus pattern (88 bp):
CTGCTCAGGGAGATAAGGCTGGTGTTTTTGATCTACTTCACTGCCAGTACAGGAAGACAAGATCT
ACAATCTTCAACCTACTCCACTA
Found at i:61270752 original size:43 final size:43
Alignment explanation
Indices: 61270699--61270839 Score: 124
Period size: 43 Copynumber: 3.2 Consensus size: 43
61270689 AATCTTCAAC
* *
61270699 CTACTCCACTGCTGCTCATGGAGATAAGGCTGGTGTTTTCGAT
1 CTACTCCACTGCTGCTCATGGAGATAAGACTGATGTTTTCGAT
* *** ** * *
61270742 CTACTTCACTGCCAAT-ATAGGAAGATAAGATCT-ACAATTTTCAAC
1 CTACTCCACTGCTGCTCAT-GG-AGATAAGA-CTGA-TGTTTTCGAT
*
61270787 CTACTCCACTGCTGCTCAGGGAGATAAGACTGATGTTTTCGAT
1 CTACTCCACTGCTGCTCATGGAGATAAGACTGATGTTTTCGAT
*
61270830 CTACTTCACT
1 CTACTCCACT
61270840 ACCAGTATAG
Statistics
Matches: 72, Mismatches: 20, Indels: 12
0.69 0.19 0.12
Matches are distributed among these distances:
42 2 0.03
43 31 0.43
44 16 0.22
45 22 0.31
46 1 0.01
ACGTcount: A:0.26, C:0.24, G:0.18, T:0.31
Consensus pattern (43 bp):
CTACTCCACTGCTGCTCATGGAGATAAGACTGATGTTTTCGAT
Found at i:61272145 original size:104 final size:106
Alignment explanation
Indices: 61271943--61272158 Score: 274
Period size: 104 Copynumber: 2.0 Consensus size: 106
61271933 AAAGTGCTTG
* *
61271943 AAAGAGATTATCACAATGGATAAGATGAAATTTTATTAAGAGCAAAGCTCGAAATGAACAAATTA
1 AAAGAGATTATCACAATAGACAAGATGAAATTTTATTAAGAGCAAAGCTCGAAAT--A-AAATTA
* * *
61272008 ATCAAGATAGAAAATTTTGCTAAGATTTAAAATGAATAAGATGA
63 ATCAAGATAGAAAATTTTGCCAAGATTCAAAATGAATAAGACGA
* * * * **
61272052 AAAG-GATTATCACAATAGACAGGATGGAATTTTATTGATAGCAAAGCTTTAAAT-AAATTAATC
1 AAAGAGATTATCACAATAGACAAGATGAAATTTTATTAAGAGCAAAGCTCGAAATAAAATTAATC
* *
61272115 AAGATAGCAAATTTTTCCAAGATTCAAAATGAATAAGACGA
66 AAGATAGAAAATTTTGCCAAGATTCAAAATGAATAAGACGA
61272156 AAA
1 AAA
61272159 TAGGTGCCCC
Statistics
Matches: 94, Mismatches: 13, Indels: 5
0.84 0.12 0.04
Matches are distributed among these distances:
104 48 0.51
108 42 0.45
109 4 0.04
ACGTcount: A:0.49, C:0.09, G:0.16, T:0.27
Consensus pattern (106 bp):
AAAGAGATTATCACAATAGACAAGATGAAATTTTATTAAGAGCAAAGCTCGAAATAAAATTAATC
AAGATAGAAAATTTTGCCAAGATTCAAAATGAATAAGACGA
Found at i:61273669 original size:11 final size:10
Alignment explanation
Indices: 61273645--61273697 Score: 54
Period size: 11 Copynumber: 5.0 Consensus size: 10
61273635 TTCACCTTAG
61273645 CTTCTTTTTT
1 CTTCTTTTTT
61273655 CTTCTTTTCTT
1 CTTCTTTT-TT
61273666 CTTCTTCTTTT
1 CTTCTT-TTTT
*
61273677 TTTCTTTCTTT
1 CTTCTTT-TTT
61273688 CCTT-TTTTTT
1 -CTTCTTTTTT
61273698 AAAAATATTT
Statistics
Matches: 37, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
10 12 0.32
11 21 0.57
12 4 0.11
ACGTcount: A:0.00, C:0.23, G:0.00, T:0.77
Consensus pattern (10 bp):
CTTCTTTTTT
Found at i:61273672 original size:14 final size:14
Alignment explanation
Indices: 61273653--61273682 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
61273643 AGCTTCTTTT
61273653 TTCTTCTTTTCTTC
1 TTCTTCTTTTCTTC
*
61273667 TTCTTCTTTTTTTC
1 TTCTTCTTTTCTTC
61273681 TT
1 TT
61273683 TCTTTCCTTT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.00, C:0.23, G:0.00, T:0.77
Consensus pattern (14 bp):
TTCTTCTTTTCTTC
Found at i:61273679 original size:17 final size:17
Alignment explanation
Indices: 61273651--61273696 Score: 58
Period size: 17 Copynumber: 2.7 Consensus size: 17
61273641 TTAGCTTCTT
*
61273651 TTTTCTTCTTTTC-TTC
1 TTTTCTTTTTTTCTTTC
61273667 TTCTTCTTTTTTTCTTTC
1 TT-TTCTTTTTTTCTTTC
*
61273685 TTTCCTTTTTTT
1 TTTTCTTTTTTT
61273697 TAAAAATATT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
16 2 0.08
17 19 0.73
18 5 0.19
ACGTcount: A:0.00, C:0.22, G:0.00, T:0.78
Consensus pattern (17 bp):
TTTTCTTTTTTTCTTTC
Found at i:61275524 original size:27 final size:27
Alignment explanation
Indices: 61275494--61275671 Score: 214
Period size: 27 Copynumber: 6.6 Consensus size: 27
61275484 ATATTGAGTC
* * * *
61275494 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
*
61275521 CGCACACTTAGTGCTACATAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
61275548 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
61275576 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
61275603 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
61275630 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
61275657 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
61275672 GTACAATTTA
Statistics
Matches: 132, Mismatches: 16, Indels: 6
0.86 0.10 0.04
Matches are distributed among these distances:
27 108 0.82
28 24 0.18
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:61275633 original size:82 final size:81
Alignment explanation
Indices: 61275515--61275670 Score: 242
Period size: 82 Copynumber: 1.9 Consensus size: 81
61275505 TGCTATATAA
*
61275515 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
61275580 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
61275597 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
61275661 CACTTAGTGC
65 CACTTAGTGC
61275671 TGTACAATTT
Statistics
Matches: 68, Mismatches: 5, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
81 16 0.24
82 52 0.76
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:61279954 original size:26 final size:26
Alignment explanation
Indices: 61279905--61279959 Score: 67
Period size: 26 Copynumber: 2.1 Consensus size: 26
61279895 TGTTGTTCTC
61279905 TTTCTTCTTCTCCTTCTTCATTTCCT
1 TTTCTTCTTCTCCTTCTTCATTTCCT
* * *
61279931 TTTCTTTTTCGTCCTTTTTC-TTTCTT
1 TTTCTTCTTC-TCCTTCTTCATTTCCT
61279957 TTT
1 TTT
61279960 ATTGTGTTGA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
26 17 0.68
27 8 0.32
ACGTcount: A:0.02, C:0.27, G:0.02, T:0.69
Consensus pattern (26 bp):
TTTCTTCTTCTCCTTCTTCATTTCCT
Found at i:61280664 original size:62 final size:62
Alignment explanation
Indices: 61280466--61280670 Score: 178
Period size: 62 Copynumber: 3.3 Consensus size: 62
61280456 GTGTACCCAA
* * * * * *
61280466 GCCGTGTGACTCACTGTCATTTTTAAATACCATACTGGCCAGAGACATGGACGTGTGTCTAG
1 GCCGTGTGACTCACTATCATTTTTAGATACCATACGGGCCAAAGACACGGGCGTGTGTCTAG
* *** * * * * * * * * *
61280528 GCCGTGTAACTCACTAAGTTCAAAATGAG-GACCACACGGGCCAAGGACACAGGCATTTGCCCAG
1 GCCGTGTGACTCACT-A--TCATTTTTAGATACCATACGGGCCAAAGACACGGGCGTGTGTCTAG
* *
61280592 GCCGTATGACTCACTATCATTTTTAGATACCATAGGGGCCAAAGACACGGGCGTGTGTCTAG
1 GCCGTGTGACTCACTATCATTTTTAGATACCATACGGGCCAAAGACACGGGCGTGTGTCTAG
*
61280654 GCTGTGTGACTCACTAT
1 GCCGTGTGACTCACTAT
61280671 TCACAATTTA
Statistics
Matches: 103, Mismatches: 36, Indels: 8
0.70 0.24 0.05
Matches are distributed among these distances:
61 6 0.06
62 55 0.53
63 1 0.01
64 36 0.35
65 5 0.05
ACGTcount: A:0.26, C:0.24, G:0.25, T:0.24
Consensus pattern (62 bp):
GCCGTGTGACTCACTATCATTTTTAGATACCATACGGGCCAAAGACACGGGCGTGTGTCTAG
Found at i:61280687 original size:125 final size:125
Alignment explanation
Indices: 61280385--61280669 Score: 417
Period size: 126 Copynumber: 2.3 Consensus size: 125
61280375 TGCAGAGTTC
*
61280385 ACACGGGCATGTGTCTAGGCCGTGTAACTCACTAAGTTCAAAATGAGGACCACACGGGCCAAGGA
1 ACACGGGCGTGTGTCTAGGCCGTGTAACTCACTAAGTTCAAAATGAGGACCACACGGGCCAAGGA
** * * * *
61280450 CACGGTGTGTACCCAAGCCGTGTGACTCACTGTCATTTTTAAATACCATACTGGCCAGAG
66 CACGGCATGTACCCAAGCCGTATGACTCACTATCATTTTTAAATACCATACGGGCCAAAG
* *
61280510 ACATGGACGTGTGTCTAGGCCGTGTAACTCACTAAGTTCAAAATGAGGACCACACGGGCCAAGGA
1 ACACGGGCGTGTGTCTAGGCCGTGTAACTCACTAAGTTCAAAATGAGGACCACACGGGCCAAGGA
* * * * *
61280575 CACAGGCATTTGCCCAGGCCGTATGACTCACTATCATTTTTAGATACCATAGGGGCCAAAG
66 CAC-GGCATGTACCCAAGCCGTATGACTCACTATCATTTTTAAATACCATACGGGCCAAAG
* *
61280636 ACACGGGCGTGTGTCTAGGCTGTGTGACTCACTA
1 ACACGGGCGTGTGTCTAGGCCGTGTAACTCACTA
61280670 TTCACAATTT
Statistics
Matches: 141, Mismatches: 18, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
125 65 0.46
126 76 0.54
ACGTcount: A:0.27, C:0.25, G:0.26, T:0.22
Consensus pattern (125 bp):
ACACGGGCGTGTGTCTAGGCCGTGTAACTCACTAAGTTCAAAATGAGGACCACACGGGCCAAGGA
CACGGCATGTACCCAAGCCGTATGACTCACTATCATTTTTAAATACCATACGGGCCAAAG
Found at i:61282057 original size:21 final size:20
Alignment explanation
Indices: 61282025--61282064 Score: 55
Period size: 19 Copynumber: 1.9 Consensus size: 20
61282015 AATGGTAATT
61282025 ATATATTTTTTTAA-AAATA
1 ATATATTTTTTTAACAAATA
61282044 ATATATTTAATTTTAACAAAT
1 ATATATTT--TTTTAACAAAT
61282065 TTAGGTAACT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 8 0.44
21 6 0.33
22 4 0.22
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.50
Consensus pattern (20 bp):
ATATATTTTTTTAACAAATA
Found at i:61284672 original size:23 final size:20
Alignment explanation
Indices: 61284634--61284693 Score: 59
Period size: 21 Copynumber: 2.9 Consensus size: 20
61284624 TATTATTATA
*
61284634 TTATATTTTTTATTTACTTTT
1 TTATATTATTTATTTA-TTTT
*
61284655 TTATATATATTTATTT-TATT
1 TTATAT-TATTTATTTATTTT
61284675 TTATCATCTATTTATTTAT
1 TTAT-AT-TATTTATTTAT
61284694 ATCCTTTTAT
Statistics
Matches: 33, Mismatches: 3, Indels: 5
0.80 0.07 0.12
Matches are distributed among these distances:
20 7 0.21
21 17 0.52
22 9 0.27
ACGTcount: A:0.25, C:0.05, G:0.00, T:0.70
Consensus pattern (20 bp):
TTATATTATTTATTTATTTT
Found at i:61284874 original size:14 final size:15
Alignment explanation
Indices: 61284846--61284882 Score: 51
Period size: 14 Copynumber: 2.6 Consensus size: 15
61284836 TTTGTTATCC
*
61284846 TTATTATTTGTCTTT
1 TTATTATTTGGCTTT
61284861 TTATT-TTTGGCTTT
1 TTATTATTTGGCTTT
61284875 TT-TTATTT
1 TTATTATTT
61284883 TATTTTATTT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
13 2 0.10
14 13 0.65
15 5 0.25
ACGTcount: A:0.11, C:0.05, G:0.08, T:0.76
Consensus pattern (15 bp):
TTATTATTTGGCTTT
Found at i:61284911 original size:15 final size:14
Alignment explanation
Indices: 61284846--61284911 Score: 62
Period size: 15 Copynumber: 4.4 Consensus size: 14
61284836 TTTGTTATCC
*
61284846 TTATTATTTGTCTTT
1 TTATT-TTTGTTTTT
61284861 TTATTTTTGGCTTTTT
1 TTATTTTT-G-TTTTT
61284877 TTATTTTAT-TTTATT
1 TTATTTT-TGTTT-TT
61284892 TTATTTTTGTTTTT
1 TTATTTTTGTTTTT
61284906 TATATT
1 T-TATT
61284912 ATCGTTCACA
Statistics
Matches: 44, Mismatches: 1, Indels: 12
0.77 0.02 0.21
Matches are distributed among these distances:
14 10 0.23
15 22 0.50
16 11 0.25
17 1 0.02
ACGTcount: A:0.14, C:0.03, G:0.06, T:0.77
Consensus pattern (14 bp):
TTATTTTTGTTTTT
Found at i:61289519 original size:21 final size:22
Alignment explanation
Indices: 61289490--61289536 Score: 78
Period size: 21 Copynumber: 2.2 Consensus size: 22
61289480 CAGAAGGAGT
*
61289490 GAGTAGTACTTCGCAGCAGGTG
1 GAGTAGTACTCCGCAGCAGGTG
61289512 GAGT-GTACTCCGCAGCAGGTG
1 GAGTAGTACTCCGCAGCAGGTG
61289533 GAGT
1 GAGT
61289537 TTGAGCAGAG
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
21 20 0.83
22 4 0.17
ACGTcount: A:0.21, C:0.19, G:0.38, T:0.21
Consensus pattern (22 bp):
GAGTAGTACTCCGCAGCAGGTG
Found at i:61293144 original size:27 final size:26
Alignment explanation
Indices: 61293114--61293180 Score: 91
Period size: 27 Copynumber: 2.5 Consensus size: 26
61293104 TAAAAATATA
*
61293114 TATCCAAAATGTTATAATTTTTTTATT
1 TATCCAAAAT-ATATAATTTTTTTATT
*
61293141 TATCAAAAAATATATAATTTTTTTATT
1 TATC-CAAAATATATAATTTTTTTATT
61293168 TA-CCAAAATATAT
1 TATCCAAAATATAT
61293181 CAAAAAAATA
Statistics
Matches: 36, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
25 9 0.25
26 1 0.03
27 21 0.58
28 5 0.14
ACGTcount: A:0.42, C:0.07, G:0.01, T:0.49
Consensus pattern (26 bp):
TATCCAAAATATATAATTTTTTTATT
Found at i:61293292 original size:27 final size:27
Alignment explanation
Indices: 61293253--61293330 Score: 122
Period size: 27 Copynumber: 2.9 Consensus size: 27
61293243 TTCCTGGGTG
*
61293253 AAGGGAATACTGTTGGCGGCACCAAAC
1 AAGGGAATCCTGTTGGCGGCACCAAAC
61293280 AAGGGAATCCTGTTGGCGGCACCAAAC
1 AAGGGAATCCTGTTGGCGGCACCAAAC
*
61293307 AAGGG-TTCCCTGTTGGCGGCACCA
1 AAGGGAAT-CCTGTTGGCGGCACCA
61293331 CCTTGAATTT
Statistics
Matches: 48, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
26 1 0.02
27 47 0.98
ACGTcount: A:0.27, C:0.26, G:0.31, T:0.17
Consensus pattern (27 bp):
AAGGGAATCCTGTTGGCGGCACCAAAC
Found at i:61293402 original size:12 final size:12
Alignment explanation
Indices: 61293382--61293456 Score: 56
Period size: 12 Copynumber: 6.6 Consensus size: 12
61293372 AGGGGAAGAA
61293382 GAAGAAAGAAAG
1 GAAGAAAGAAAG
*
61293394 GAAGGAAGAAA-
1 GAAGAAAGAAAG
61293405 GAA-AAAG-AAG
1 GAAGAAAGAAAG
*
61293415 GAA-AAGGAAAG
1 GAAGAAAGAAAG
61293426 GAGAGGAAAGAAA-
1 GA-A-GAAAGAAAG
61293439 GAA-AAAG-AAG
1 GAAGAAAGAAAG
61293449 GAAAGAAA
1 G-AAGAAA
61293457 AGGAAAGGGG
Statistics
Matches: 51, Mismatches: 4, Indels: 16
0.72 0.06 0.23
Matches are distributed among these distances:
9 4 0.08
10 14 0.27
11 10 0.20
12 15 0.29
13 2 0.04
14 6 0.12
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (12 bp):
GAAGAAAGAAAG
Found at i:61293402 original size:22 final size:21
Alignment explanation
Indices: 61293375--61293417 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 21
61293365 GAAGGAGAGG
61293375 GGAAG-AAGAAGAAAGAAAGGAA
1 GGAAGAAAGAA-AAAG-AAGGAA
61293397 GGAAGAAAGAAAAAGAAGGAA
1 GGAAGAAAGAAAAAGAAGGAA
61293418 AAGGAAAGGA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
21 6 0.30
22 9 0.45
23 5 0.25
ACGTcount: A:0.65, C:0.00, G:0.35, T:0.00
Consensus pattern (21 bp):
GGAAGAAAGAAAAAGAAGGAA
Found at i:61293418 original size:10 final size:10
Alignment explanation
Indices: 61293377--61293514 Score: 52
Period size: 10 Copynumber: 13.2 Consensus size: 10
61293367 AGGAGAGGGG
61293377 AAGAA-GAAGA
1 AAGAAGGAA-A
*
61293387 AAGAAAGGAAGG
1 AAG-AAGGAA-A
*
61293399 AAGAAAGAAA
1 AAGAAGGAAA
61293409 AAGAAGGAAA
1 AAGAAGGAAA
*
61293419 AGGAAAGGAGAGGA
1 AAG-AAGGA-A--A
*
61293433 AAGAAAGAAA
1 AAGAAGGAAA
61293443 AAGAAGGAAA
1 AAGAAGGAAA
61293453 GAA-AAGGAAA
1 -AAGAAGGAAA
** *
61293463 GGGGAGG--A
1 AAGAAGGAAA
*
61293471 AAGAAAGAAA
1 AAGAAGGAAA
*
61293481 AATAAGGAAA
1 AAGAAGGAAA
61293491 GAA-AAGGAAA
1 -AAGAAGGAAA
*
61293501 GGAGAAGAGAAA
1 -AAGAAG-GAAA
61293513 AA
1 AA
61293515 AAAAAGAAAG
Statistics
Matches: 96, Mismatches: 19, Indels: 25
0.69 0.14 0.18
Matches are distributed among these distances:
8 4 0.04
10 52 0.54
11 20 0.21
12 13 0.14
13 4 0.04
14 3 0.03
ACGTcount: A:0.66, C:0.00, G:0.33, T:0.01
Consensus pattern (10 bp):
AAGAAGGAAA
Found at i:61293439 original size:28 final size:28
Alignment explanation
Indices: 61293377--61293463 Score: 79
Period size: 34 Copynumber: 3.0 Consensus size: 28
61293367 AGGAGAGGGG
* * *
61293377 AAGAAGAAGAAAGAAAG-GAAGG-AAGA
1 AAGAAAAAGAAGGAAAGAAAAGGAAAGA
61293403 AAGAAAAAGAAGGAAAAGGAAAGGAGAGGAAAGA
1 AAGAAAAAGAAGG-AAA-G-AA--A-AGGAAAGA
61293437 AAGAAAAAGAAGGAAAGAAAAGGAAAG
1 AAGAAAAAGAAGGAAAGAAAAGGAAAG
61293464 GGGAGGAAAG
Statistics
Matches: 50, Mismatches: 3, Indels: 14
0.75 0.04 0.21
Matches are distributed among these distances:
26 11 0.22
27 3 0.06
28 8 0.16
29 1 0.02
31 2 0.04
32 2 0.04
33 6 0.12
34 17 0.34
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (28 bp):
AAGAAAAAGAAGGAAAGAAAAGGAAAGA
Found at i:61293457 original size:38 final size:38
Alignment explanation
Indices: 61293380--61293558 Score: 187
Period size: 38 Copynumber: 4.8 Consensus size: 38
61293370 AGAGGGGAAG
*
61293380 AAGAAGAAAGAAAGGA-AGG-AAGAAAGAAAAAGAA-G-
1 AAGAA-AAGGAAAGGAGAGGAAAGAAAGAAAAAGAAGGA
61293415 --GAAAAGGAAAGGAGAGGAAAGAAAGAAAAAGAAGGA
1 AAGAAAAGGAAAGGAGAGGAAAGAAAGAAAAAGAAGGA
* *
61293451 AAGAAAAGGAAAGGGGAGGAAAGAAAGAAAAATAAGGA
1 AAGAAAAGGAAAGGAGAGGAAAGAAAGAAAAAGAAGGA
* *
61293489 AAGAAAAGGAAAGGAGAAGAGAA-AAA-AAAAAGAAAGAA
1 AAGAAAAGGAAAGGAGAGGA-AAGAAAGAAAAAG-AAGGA
* *
61293527 GAAGAAAAGGGAAGGA-AGGAAAAAAAAGAAAA
1 -AAGAAAAGGAAAGGAGAGG-AAAGAAAGAAAA
61293559 TAAGGTAATT
Statistics
Matches: 123, Mismatches: 9, Indels: 19
0.81 0.06 0.13
Matches are distributed among these distances:
32 9 0.07
33 6 0.05
34 15 0.12
35 1 0.01
37 5 0.04
38 63 0.51
39 20 0.16
40 4 0.03
ACGTcount: A:0.68, C:0.00, G:0.32, T:0.01
Consensus pattern (38 bp):
AAGAAAAGGAAAGGAGAGGAAAGAAAGAAAAAGAAGGA
Found at i:61293559 original size:76 final size:75
Alignment explanation
Indices: 61293376--61293563 Score: 214
Period size: 76 Copynumber: 2.6 Consensus size: 75
61293366 AAGGAGAGGG
* *
61293376 GAAGAAGAAG-AAA-GAAAGGAAGG-AAGAAAG-AAA-AA-GAAGGAAAAGGAAAGGAGAGGAAA
1 GAAGAAGAAGAAAAGGAAAGGAAGGAAAGAAAGAAAATAAGGAAAGAAAAGGAAAGGAGAAGAAA
61293435 GAAAGAAAAA
66 GAAAGAAAAA
* *
61293445 GAAGGA-AAGAAAAGGAAAGGGGAGGAAAGAAAGAAAAATAAGGAAAGAAAAGGAAAGGAGAAGA
1 GAAGAAGAAGAAAAGGAAA-GGAAGGAAAGAAAG-AAAATAAGGAAAGAAAAGGAAAGGAGAAGA
61293509 GAA-AAA-AAAAA
64 -AAGAAAGAAAAA
* *
61293520 GAAAGAAGAAGAAAAGGGAAGGAAGGAAAAAAAAGAAAATAAGG
1 G-AAGAAGAAGAAAAGGAAAGGAAGG-AAAGAAAGAAAATAAGG
61293564 TAATTTTTAT
Statistics
Matches: 99, Mismatches: 8, Indels: 17
0.80 0.06 0.14
Matches are distributed among these distances:
68 3 0.03
69 8 0.08
70 4 0.04
71 5 0.05
72 7 0.07
74 3 0.03
75 8 0.08
76 41 0.41
77 20 0.20
ACGTcount: A:0.66, C:0.00, G:0.32, T:0.01
Consensus pattern (75 bp):
GAAGAAGAAGAAAAGGAAAGGAAGGAAAGAAAGAAAATAAGGAAAGAAAAGGAAAGGAGAAGAAA
GAAAGAAAAA
Found at i:61294285 original size:19 final size:19
Alignment explanation
Indices: 61294237--61294288 Score: 68
Period size: 19 Copynumber: 2.7 Consensus size: 19
61294227 AAAAAATATA
** *
61294237 TAATATTTTGGTATTTTTT
1 TAATATTTTATTATTTTTG
61294256 TAATATTTTATTATTTTTG
1 TAATATTTTATTATTTTTG
*
61294275 TAATGTTTTATTAT
1 TAATATTTTATTAT
61294289 GGTTTTTATA
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
19 29 1.00
ACGTcount: A:0.25, C:0.00, G:0.08, T:0.67
Consensus pattern (19 bp):
TAATATTTTATTATTTTTG
Found at i:61294380 original size:26 final size:27
Alignment explanation
Indices: 61294324--61294391 Score: 104
Period size: 26 Copynumber: 2.5 Consensus size: 27
61294314 AAATAAAAAA
61294324 TTACCAAAATAT-TATAACTTTTTTTTAT
1 TTACCAAAATATATATAA--TTTTTTTAT
61294352 TTACCAAAATATATATAA-TTTTTTAT
1 TTACCAAAATATATATAATTTTTTTAT
61294378 TTACCAAAATATAT
1 TTACCAAAATATAT
61294392 CAAAAAAGTA
Statistics
Matches: 39, Mismatches: 0, Indels: 4
0.91 0.00 0.09
Matches are distributed among these distances:
26 22 0.56
28 12 0.31
29 5 0.13
ACGTcount: A:0.41, C:0.10, G:0.00, T:0.49
Consensus pattern (27 bp):
TTACCAAAATATATATAATTTTTTTAT
Found at i:61299134 original size:18 final size:18
Alignment explanation
Indices: 61299108--61299145 Score: 67
Period size: 18 Copynumber: 2.1 Consensus size: 18
61299098 ATCCCAATGA
*
61299108 TCGCCACCACCTTCTTCT
1 TCGCAACCACCTTCTTCT
61299126 TCGCAACCACCTTCTTCT
1 TCGCAACCACCTTCTTCT
61299144 TC
1 TC
61299146 ACCACCAACA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.13, C:0.47, G:0.05, T:0.34
Consensus pattern (18 bp):
TCGCAACCACCTTCTTCT
Found at i:61299152 original size:18 final size:18
Alignment explanation
Indices: 61299111--61299152 Score: 66
Period size: 18 Copynumber: 2.3 Consensus size: 18
61299101 CCAATGATCG
*
61299111 CCACCACCTTCTTCTTCG
1 CCACCACCTTCTTCTTCA
*
61299129 CAACCACCTTCTTCTTCA
1 CCACCACCTTCTTCTTCA
61299147 CCACCA
1 CCACCA
61299153 ACAATATCAG
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.19, C:0.50, G:0.02, T:0.29
Consensus pattern (18 bp):
CCACCACCTTCTTCTTCA
Found at i:61299832 original size:26 final size:26
Alignment explanation
Indices: 61299803--61299854 Score: 104
Period size: 26 Copynumber: 2.0 Consensus size: 26
61299793 TAGTTAGTAT
61299803 TATTTTGTATATAAAATTATTAATAA
1 TATTTTGTATATAAAATTATTAATAA
61299829 TATTTTGTATATAAAATTATTAATAA
1 TATTTTGTATATAAAATTATTAATAA
61299855 CTAACTACAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.46, C:0.00, G:0.04, T:0.50
Consensus pattern (26 bp):
TATTTTGTATATAAAATTATTAATAA
Found at i:61299917 original size:3 final size:3
Alignment explanation
Indices: 61299909--61299937 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
61299899 AGTAACATCT
61299909 TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
61299938 CTATAAAATT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:61300321 original size:17 final size:17
Alignment explanation
Indices: 61300299--61300331 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
61300289 AGTCCAGGTT
61300299 TTTTTTTCTGTTTTTTA
1 TTTTTTTCTGTTTTTTA
61300316 TTTTTTTCTGTTTTTT
1 TTTTTTTCTGTTTTTT
61300332 TGATATATTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.03, C:0.06, G:0.06, T:0.85
Consensus pattern (17 bp):
TTTTTTTCTGTTTTTTA
Found at i:61300365 original size:28 final size:28
Alignment explanation
Indices: 61300334--61300399 Score: 98
Period size: 28 Copynumber: 2.4 Consensus size: 28
61300324 TGTTTTTTTG
*
61300334 ATATATTTTGGTAAATAAAAAACATTAT
1 ATATATTTTGGTAAATAAAAAAAATTAT
*
61300362 ATATTTTTTGGTAAATAAAAAAAATTAT
1 ATATATTTTGGTAAATAAAAAAAATTAT
*
61300390 A-ACATTTTGG
1 ATATATTTTGG
61300400 ATATTTTTTT
Statistics
Matches: 34, Mismatches: 4, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
27 7 0.21
28 27 0.79
ACGTcount: A:0.47, C:0.03, G:0.09, T:0.41
Consensus pattern (28 bp):
ATATATTTTGGTAAATAAAAAAAATTAT
Found at i:61303158 original size:16 final size:16
Alignment explanation
Indices: 61303128--61303161 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
61303118 CTTTCTCTTA
**
61303128 TTTGTTGATGGAACTT
1 TTTGTTGATCCAACTT
61303144 TTTGTTGATCCAACTT
1 TTTGTTGATCCAACTT
61303160 TT
1 TT
61303162 CTCTGTCAGA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.18, C:0.12, G:0.18, T:0.53
Consensus pattern (16 bp):
TTTGTTGATCCAACTT
Found at i:61309395 original size:21 final size:21
Alignment explanation
Indices: 61309370--61309425 Score: 94
Period size: 21 Copynumber: 2.7 Consensus size: 21
61309360 AATAGTGGTG
*
61309370 GCGGTGAGATTAGTTACTGTA
1 GCGGTGAGATTAGATACTGTA
61309391 GCGGTGAGATTAGATACTGTA
1 GCGGTGAGATTAGATACTGTA
*
61309412 GCGGTGAAATTAGA
1 GCGGTGAGATTAGA
61309426 AACAATGGTA
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
21 33 1.00
ACGTcount: A:0.29, C:0.09, G:0.34, T:0.29
Consensus pattern (21 bp):
GCGGTGAGATTAGATACTGTA
Found at i:61310409 original size:25 final size:25
Alignment explanation
Indices: 61310375--61310424 Score: 91
Period size: 25 Copynumber: 2.0 Consensus size: 25
61310365 CGGTTGATGT
*
61310375 TAGCCAATGAGCAAAATCTCGAACC
1 TAGCCAATGAGCAAAATCTCAAACC
61310400 TAGCCAATGAGCAAAATCTCAAACC
1 TAGCCAATGAGCAAAATCTCAAACC
61310425 ACATCATGTA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.42, C:0.28, G:0.14, T:0.16
Consensus pattern (25 bp):
TAGCCAATGAGCAAAATCTCAAACC
Found at i:61318202 original size:18 final size:18
Alignment explanation
Indices: 61318167--61318203 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
61318157 AACTTTTTCC
**
61318167 ATTTGAATAACTTGAATA
1 ATTTGAATAACTCAAATA
61318185 ATTTGAATAACTCAAATA
1 ATTTGAATAACTCAAATA
61318203 A
1 A
61318204 CAGATGGATA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.49, C:0.08, G:0.08, T:0.35
Consensus pattern (18 bp):
ATTTGAATAACTCAAATA
Found at i:61318470 original size:16 final size:16
Alignment explanation
Indices: 61318451--61318481 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
61318441 TTGAAAAAGT
61318451 TTTCAAATATATATGG
1 TTTCAAATATATATGG
*
61318467 TTTCAAATTTATATG
1 TTTCAAATATATATG
61318482 CAGTAAAATA
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:0.35, C:0.06, G:0.10, T:0.48
Consensus pattern (16 bp):
TTTCAAATATATATGG
Found at i:61319339 original size:34 final size:34
Alignment explanation
Indices: 61319296--61319371 Score: 100
Period size: 34 Copynumber: 2.2 Consensus size: 34
61319286 AATACATGTA
* *
61319296 AAGCATGTTTATTGCTACCGTATTAA-TCTGTTTT
1 AAGCATGTTTATTGCTACCATATTAATTC-GTTAT
* *
61319330 AAGCATGTTTATTGTTACCATATTGATTCGTTAT
1 AAGCATGTTTATTGCTACCATATTAATTCGTTAT
61319364 AAGCATGT
1 AAGCATGT
61319372 CATATTGTAT
Statistics
Matches: 37, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
34 35 0.95
35 2 0.05
ACGTcount: A:0.26, C:0.13, G:0.16, T:0.45
Consensus pattern (34 bp):
AAGCATGTTTATTGCTACCATATTAATTCGTTAT
Found at i:61322922 original size:33 final size:33
Alignment explanation
Indices: 61322867--61323015 Score: 124
Period size: 33 Copynumber: 4.5 Consensus size: 33
61322857 TTTCACACAG
* * * *
61322867 CATATAGGCTCACATGTACCTAGGGTTCGCATA
1 CATATAGGCTCGCTTATTCCTAGGGTTCGCATA
* * * *
61322900 CATATTGACTCGCTTATTCCTAGGGTTTGTATA
1 CATATAGGCTCGCTTATTCCTAGGGTTCGCATA
*
61322933 CATATAGGCTCGCATGTA-T-C-AGGGGTTCGTATA
1 CATATAGGCTCGC-T-TATTCCTA-GGGTTCGCATA
* * * *
61322966 CATATAGGCTCACTTATTCATAGGGTTCCCATG
1 CATATAGGCTCGCTTATTCCTAGGGTTCGCATA
*
61322999 CATATAGGCTCACTTAT
1 CATATAGGCTCGCTTAT
61323016 AATAAACACA
Statistics
Matches: 94, Mismatches: 16, Indels: 12
0.77 0.13 0.10
Matches are distributed among these distances:
31 2 0.02
32 3 0.03
33 84 0.89
34 3 0.03
35 2 0.02
ACGTcount: A:0.25, C:0.21, G:0.20, T:0.34
Consensus pattern (33 bp):
CATATAGGCTCGCTTATTCCTAGGGTTCGCATA
Found at i:61322949 original size:66 final size:66
Alignment explanation
Indices: 61322867--61323011 Score: 175
Period size: 66 Copynumber: 2.2 Consensus size: 66
61322857 TTTCACACAG
* * *
61322867 CATATAGGCTCACATGTACCTA-GGGTTCGCATACATATTGACTCGCTTATTCCTAGGGTTTGTA
1 CATATAGGCTCACATGTACC-AGGGGTTCGCATACATATAGACTCACTTATTCATAGGGTTTGTA
61322931 TA
65 TA
* * * * ***
61322933 CATATAGGCTCGCATGTATCAGGGGTTCGTATACATATAGGCTCACTTATTCATAGGGTTCCCAT
1 CATATAGGCTCACATGTACCAGGGGTTCGCATACATATAGACTCACTTATTCATAGGGTTTGTAT
*
61322998 G
66 A
61322999 CATATAGGCTCAC
1 CATATAGGCTCAC
61323012 TTATAATAAA
Statistics
Matches: 66, Mismatches: 12, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
65 1 0.02
66 65 0.98
ACGTcount: A:0.25, C:0.22, G:0.21, T:0.32
Consensus pattern (66 bp):
CATATAGGCTCACATGTACCAGGGGTTCGCATACATATAGACTCACTTATTCATAGGGTTTGTAT
A
Found at i:61323053 original size:36 final size:36
Alignment explanation
Indices: 61323005--61323091 Score: 129
Period size: 36 Copynumber: 2.4 Consensus size: 36
61322995 CATGCATATA
* *
61323005 GGCTCACTTATAATAAACACATGGTTTGCATAACAT
1 GGCTCACATATAATAAACACATGGTTCGCATAACAT
*
61323041 GGCTCACATATAATAAACACATGGTTCGCGTAACAT
1 GGCTCACATATAATAAACACATGGTTCGCATAACAT
* *
61323077 GGCTCGCACATAATA
1 GGCTCACATATAATA
61323092 TCATATAAGT
Statistics
Matches: 46, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
36 46 1.00
ACGTcount: A:0.36, C:0.22, G:0.16, T:0.26
Consensus pattern (36 bp):
GGCTCACATATAATAAACACATGGTTCGCATAACAT
Found at i:61323881 original size:11 final size:11
Alignment explanation
Indices: 61323865--61323890 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
61323855 GAAAAAAAAT
61323865 AAAAATTCTTA
1 AAAAATTCTTA
61323876 AAAAATTCTTA
1 AAAAATTCTTA
61323887 AAAA
1 AAAA
61323891 TATATATAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.62, C:0.08, G:0.00, T:0.31
Consensus pattern (11 bp):
AAAAATTCTTA
Found at i:61324856 original size:34 final size:34
Alignment explanation
Indices: 61324783--61324858 Score: 91
Period size: 34 Copynumber: 2.2 Consensus size: 34
61324773 GAAATACATG
* * *
61324783 TTAAGCATGTTTATTGATACCGTATTAATCTGGT
1 TTAAGCATATTTATTGATACCATATTAATCTCGT
* *
61324817 TTAAGCATATTTATTGTTACCATATTGATC-CGT
1 TTAAGCATATTTATTGATACCATATTAATCTCGT
61324850 TATAAGCAT
1 T-TAAGCAT
61324859 GTCATATTGT
Statistics
Matches: 36, Mismatches: 5, Indels: 2
0.84 0.12 0.05
Matches are distributed among these distances:
33 3 0.08
34 33 0.92
ACGTcount: A:0.29, C:0.13, G:0.14, T:0.43
Consensus pattern (34 bp):
TTAAGCATATTTATTGATACCATATTAATCTCGT
Found at i:61328130 original size:34 final size:34
Alignment explanation
Indices: 61328083--61328158 Score: 89
Period size: 34 Copynumber: 2.2 Consensus size: 34
61328073 CACATTTACA
* * **
61328083 GGTTCGCATAACATACAGGCTTGCATGCACCTAG
1 GGTTCACACAACATACAGGCTCACATGCACCTAG
* * *
61328117 GTTTCACACAACATATAGGCTCACATGTACCTAG
1 GGTTCACACAACATACAGGCTCACATGCACCTAG
61328151 GGTTCACA
1 GGTTCACA
61328159 TACATATTTG
Statistics
Matches: 34, Mismatches: 8, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
34 34 1.00
ACGTcount: A:0.29, C:0.26, G:0.20, T:0.25
Consensus pattern (34 bp):
GGTTCACACAACATACAGGCTCACATGCACCTAG
Found at i:61331013 original size:7 final size:7
Alignment explanation
Indices: 61331003--61331054 Score: 88
Period size: 7 Copynumber: 7.6 Consensus size: 7
61330993 TTTAAATTTT
61331003 AACCCTA
1 AACCCTA
61331010 AACCCTA
1 AACCCTA
61331017 AACCCTA
1 AACCCTA
61331024 AACCCTA
1 AACCCTA
*
61331031 AACCTTA
1 AACCCTA
61331038 AA-CCTA
1 AACCCTA
61331044 AACCCTA
1 AACCCTA
61331051 AACC
1 AACC
61331055 TAGAAACAGG
Statistics
Matches: 42, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
6 5 0.12
7 37 0.88
ACGTcount: A:0.44, C:0.40, G:0.00, T:0.15
Consensus pattern (7 bp):
AACCCTA
Found at i:61331045 original size:20 final size:21
Alignment explanation
Indices: 61331003--61331055 Score: 90
Period size: 20 Copynumber: 2.6 Consensus size: 21
61330993 TTTAAATTTT
*
61331003 AACCCTAAACCCTAAACCCTA
1 AACCCTAAACCTTAAACCCTA
61331024 AACCCTAAACCTTAAA-CCTA
1 AACCCTAAACCTTAAACCCTA
61331044 AACCCTAAACCT
1 AACCCTAAACCT
61331056 AGAAACAGGC
Statistics
Matches: 31, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
20 16 0.52
21 15 0.48
ACGTcount: A:0.43, C:0.40, G:0.00, T:0.17
Consensus pattern (21 bp):
AACCCTAAACCTTAAACCCTA
Found at i:61348164 original size:30 final size:30
Alignment explanation
Indices: 61348130--61348190 Score: 104
Period size: 30 Copynumber: 2.0 Consensus size: 30
61348120 CGGTCTATAA
61348130 TAGACCATACGGCTTGGACACACGGGCGTG
1 TAGACCATACGGCTTGGACACACGGGCGTG
* *
61348160 TAGACTATACGGCTTGGACACACGGGTGTG
1 TAGACCATACGGCTTGGACACACGGGCGTG
61348190 T
1 T
61348191 CCTAGGCCGT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.23, C:0.23, G:0.33, T:0.21
Consensus pattern (30 bp):
TAGACCATACGGCTTGGACACACGGGCGTG
Found at i:61350695 original size:30 final size:30
Alignment explanation
Indices: 61350655--61350711 Score: 87
Period size: 30 Copynumber: 1.9 Consensus size: 30
61350645 CAGCATTTTT
* *
61350655 CACACGGGCTGGGCACAAGCCCATGTGAGA
1 CACACAGGCTGGCCACAAGCCCATGTGAGA
*
61350685 CACACAGGCTGGCCACACGCCCATGTG
1 CACACAGGCTGGCCACAAGCCCATGTG
61350712 CCAGCCCGTG
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.25, C:0.35, G:0.30, T:0.11
Consensus pattern (30 bp):
CACACAGGCTGGCCACAAGCCCATGTGAGA
Found at i:61353039 original size:37 final size:37
Alignment explanation
Indices: 61352988--61353078 Score: 164
Period size: 37 Copynumber: 2.5 Consensus size: 37
61352978 TAGACACTAT
* *
61352988 ATGGTGTATAGGGATGGGTGGGTGTTTTATACCCCAC
1 ATGGTGTGTTGGGATGGGTGGGTGTTTTATACCCCAC
61353025 ATGGTGTGTTGGGATGGGTGGGTGTTTTATACCCCAC
1 ATGGTGTGTTGGGATGGGTGGGTGTTTTATACCCCAC
61353062 ATGGTGTGTTGGGATGG
1 ATGGTGTGTTGGGATGG
61353079 TCGGAGTTGG
Statistics
Matches: 52, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
37 52 1.00
ACGTcount: A:0.15, C:0.11, G:0.40, T:0.34
Consensus pattern (37 bp):
ATGGTGTGTTGGGATGGGTGGGTGTTTTATACCCCAC
Found at i:61357091 original size:26 final size:23
Alignment explanation
Indices: 61357054--61357113 Score: 68
Period size: 22 Copynumber: 2.5 Consensus size: 23
61357044 ACTGATGCCC
*
61357054 GAATAGACATGAAAAGATGTCTCTAT
1 GAATAGAAATGAAAA-AT-TC-CTAT
61357080 GAATAGAAATG-AAAATTCCTAT
1 GAATAGAAATGAAAAATTCCTAT
*
61357102 AAATAGAAATGA
1 GAATAGAAATGA
61357114 GATTTCATTT
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
22 14 0.45
23 2 0.06
24 2 0.06
25 3 0.10
26 10 0.32
ACGTcount: A:0.50, C:0.08, G:0.17, T:0.25
Consensus pattern (23 bp):
GAATAGAAATGAAAAATTCCTAT
Found at i:61372871 original size:17 final size:19
Alignment explanation
Indices: 61372846--61372891 Score: 71
Period size: 17 Copynumber: 2.6 Consensus size: 19
61372836 TCTTTTATGC
61372846 AATTGAAAACTAAAATT-A
1 AATTGAAAACTAAAATTGA
61372864 AA-TGAAAAC-AAAATTGA
1 AATTGAAAACTAAAATTGA
61372881 AATTGAAAACT
1 AATTGAAAACT
61372892 CAAGTCCAAT
Statistics
Matches: 25, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
16 6 0.24
17 10 0.40
18 9 0.36
ACGTcount: A:0.61, C:0.07, G:0.09, T:0.24
Consensus pattern (19 bp):
AATTGAAAACTAAAATTGA
Found at i:61373921 original size:29 final size:30
Alignment explanation
Indices: 61373879--61373953 Score: 86
Period size: 28 Copynumber: 2.5 Consensus size: 30
61373869 TATATGAACT
*
61373879 TAAAGAAATCATTAAAATAT-T-TAAAATTTTA
1 TAAA-AAAT-ATTAAAATATCTATAAAA-GTTA
61373910 TAAAAAATATTAAAA-ATCTATAAAAGTTA
1 TAAAAAATATTAAAATATCTATAAAAGTTA
61373939 T-AAAAATATTAAAAT
1 TAAAAAATATTAAAAT
61373954 TGATATAAAC
Statistics
Matches: 40, Mismatches: 1, Indels: 8
0.82 0.02 0.16
Matches are distributed among these distances:
28 15 0.38
29 12 0.30
30 9 0.22
31 4 0.10
ACGTcount: A:0.60, C:0.03, G:0.03, T:0.35
Consensus pattern (30 bp):
TAAAAAATATTAAAATATCTATAAAAGTTA
Found at i:61373922 original size:20 final size:21
Alignment explanation
Indices: 61373892--61373934 Score: 61
Period size: 20 Copynumber: 2.1 Consensus size: 21
61373882 AGAAATCATT
* *
61373892 AAAATATTTAAAATTTTATAA
1 AAAATATTTAAAAATCTATAA
61373913 AAAATA-TTAAAAATCTATAA
1 AAAATATTTAAAAATCTATAA
61373933 AA
1 AA
61373935 GTTATAAAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
20 14 0.70
21 6 0.30
ACGTcount: A:0.63, C:0.02, G:0.00, T:0.35
Consensus pattern (21 bp):
AAAATATTTAAAAATCTATAA
Found at i:61373933 original size:10 final size:9
Alignment explanation
Indices: 61373907--61373972 Score: 53
Period size: 10 Copynumber: 7.0 Consensus size: 9
61373897 ATTTAAAATT
61373907 TTATAAAAA
1 TTATAAAAA
*
61373916 ATATTAAAAA
1 TTA-TAAAAA
*
61373926 TCTATAAAAG
1 T-TATAAAAA
61373936 TTATAAAAA
1 TTATAAAAA
*
61373945 -TATTAAAA
1 TTATAAAAA
*
61373953 TTGATATAAAC
1 TT-ATA-AAAA
61373964 TTATAAAAA
1 TTATAAAAA
61373973 CTTGAACTGA
Statistics
Matches: 44, Mismatches: 8, Indels: 10
0.71 0.13 0.16
Matches are distributed among these distances:
8 7 0.16
9 13 0.30
10 17 0.39
11 7 0.16
ACGTcount: A:0.61, C:0.03, G:0.03, T:0.33
Consensus pattern (9 bp):
TTATAAAAA
Found at i:61373975 original size:10 final size:9
Alignment explanation
Indices: 61373771--61373972 Score: 62
Period size: 9 Copynumber: 21.7 Consensus size: 9
61373761 ATTTTTTCCC
61373771 TAAAAATTA
1 TAAAAATTA
61373780 TAAAAATTA
1 TAAAAATTA
61373789 TAAAATATATA
1 TAAAA-AT-TA
* *
61373800 TATATATATA
1 TAAAAAT-TA
* *
61373810 TAATAA-GA
1 TAAAAATTA
61373818 -AAAAATTA
1 TAAAAATTA
61373826 TAAAAA-TA
1 TAAAAATTA
*
61373834 TTCAAAATGT-
1 -TAAAAAT-TA
*
61373844 TAAATA-T-
1 TAAAAATTA
61373851 TAAAAATATA
1 TAAAAAT-TA
*
61373861 TGAAAATTTA
1 T-AAAAATTA
* *
61373871 TATGAACTTA
1 TA-AAAATTA
*
61373881 -AAGAAATCA
1 TAA-AAATTA
61373890 TTAAAATATT-
1 -TAAAA-ATTA
*
61373900 TAAAATTTTA
1 TAAAA-ATTA
*
61373910 TAAAAAATA
1 TAAAAATTA
61373919 TTAAAAATCTA
1 -TAAAAAT-TA
*
61373930 TAAAAGTTA
1 TAAAAATTA
61373939 TAAAAA-TA
1 TAAAAATTA
*
61373947 TTAAAATTGA
1 TAAAAATT-A
*
61373957 TATAAACTTA
1 TA-AAAATTA
61373967 TAAAAA
1 TAAAAA
61373973 CTTGAACTGA
Statistics
Matches: 142, Mismatches: 29, Indels: 44
0.66 0.13 0.20
Matches are distributed among these distances:
7 10 0.07
8 11 0.08
9 56 0.39
10 43 0.30
11 22 0.15
ACGTcount: A:0.59, C:0.02, G:0.03, T:0.35
Consensus pattern (9 bp):
TAAAAATTA
Found at i:61374084 original size:17 final size:18
Alignment explanation
Indices: 61374062--61374096 Score: 63
Period size: 17 Copynumber: 2.0 Consensus size: 18
61374052 TGAACAGATT
61374062 TTTTTAATATTTT-TTTA
1 TTTTTAATATTTTATTTA
61374079 TTTTTAATATTTTATTTA
1 TTTTTAATATTTTATTTA
61374097 ATTAAATTGG
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 13 0.76
18 4 0.24
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (18 bp):
TTTTTAATATTTTATTTA
Found at i:61374394 original size:9 final size:9
Alignment explanation
Indices: 61374371--61374491 Score: 67
Period size: 9 Copynumber: 13.6 Consensus size: 9
61374361 TATTTTTCAA
61374371 TTTTATATAT
1 TTTTATA-AT
61374381 TTTTATAAT
1 TTTTATAAT
*
61374390 ATTTATAAGT
1 TTTTATAA-T
61374400 TTTTATAAT
1 TTTTATAAT
*
61374409 TTTAATAAGT
1 TTTTATAA-T
*
61374419 TTATATCAAT
1 TTTTAT-AAT
*
61374429 TTTAAT-A-
1 TTTTATAAT
*
61374436 TTTAAT-AT
1 TTTTATAAT
*
61374444 CTTTAT--T
1 TTTTATAAT
61374451 TTTTATAAT
1 TTTTATAAT
* *
61374460 TTTTCTGAT
1 TTTTATAAT
61374469 ATTTTAT-AT
1 -TTTTATAAT
61374478 ATTTTAT-AT
1 -TTTTATAAT
61374487 TTTTA
1 TTTTA
61374492 ATTATTTTCA
Statistics
Matches: 91, Mismatches: 13, Indels: 16
0.76 0.11 0.13
Matches are distributed among these distances:
7 13 0.14
8 10 0.11
9 36 0.40
10 30 0.33
11 2 0.02
ACGTcount: A:0.32, C:0.02, G:0.02, T:0.63
Consensus pattern (9 bp):
TTTTATAAT
Found at i:61374396 original size:19 final size:19
Alignment explanation
Indices: 61374372--61374491 Score: 61
Period size: 19 Copynumber: 6.7 Consensus size: 19
61374362 ATTTTTCAAT
61374372 TTTATATATTTTTATAATA
1 TTTATATATTTTTATAATA
61374391 TTTATA-AGTTTTTATAAT-
1 TTTATATA-TTTTTATAATA
*
61374409 TTTA-ATAAGTTTATATCAAT-
1 TTTATAT-A-TTTTTAT-AATA
61374429 TTTA-ATA---TT-TAATA
1 TTTATATATTTTTATAATA
*
61374443 TCTT-TAT-TTTTTATAATT
1 T-TTATATATTTTTATAATA
*
61374461 TTTCTGATA-TTTTAT-ATA
1 TTTAT-ATATTTTTATAATA
61374479 TTT-TATATTTTTA
1 TTTATATATTTTTA
61374492 ATTATTTTCA
Statistics
Matches: 82, Mismatches: 4, Indels: 32
0.69 0.03 0.27
Matches are distributed among these distances:
13 3 0.04
14 2 0.02
15 5 0.06
16 3 0.04
17 11 0.13
18 16 0.20
19 33 0.40
20 9 0.11
ACGTcount: A:0.33, C:0.03, G:0.03, T:0.62
Consensus pattern (19 bp):
TTTATATATTTTTATAATA
Found at i:61374431 original size:20 final size:19
Alignment explanation
Indices: 61374384--61374435 Score: 70
Period size: 19 Copynumber: 2.7 Consensus size: 19
61374374 TATATATTTT
*
61374384 TATAATATTT-ATAAGTTTT
1 TATAAT-TTTAATAAGTTTA
61374403 TATAATTTTAATAAGTTTA
1 TATAATTTTAATAAGTTTA
61374422 TATCAATTTTAATA
1 TAT-AATTTTAATA
61374436 TTTAATATCT
Statistics
Matches: 30, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
18 3 0.10
19 17 0.57
20 10 0.33
ACGTcount: A:0.40, C:0.02, G:0.04, T:0.54
Consensus pattern (19 bp):
TATAATTTTAATAAGTTTA
Found at i:61375972 original size:96 final size:96
Alignment explanation
Indices: 61375864--61376180 Score: 469
Period size: 96 Copynumber: 3.3 Consensus size: 96
61375854 AACAACTAGT
* * * * *
61375864 TTTATTTGA-TTTTTCCTTAAAAACCCTAAATATTAAACCCCAATCTAATTTTTTTAAAATTTAA
1 TTTATTTAATTTTTTCCTTAAAAACCCTAAACACTAAACCCTAATCTAA-TTTTTTAAAATTTAT
61375928 AATTAATTTACTCAAGTAACCCTAAACCCTAA
65 AATTAATTTACTCAAGTAACCCTAAACCCTAA
** *
61375960 TTTATTTAATTTTTTATTTAAAAACCCTAAACACTAAACCCTAATCTAATTTTTAAAAATTTATA
1 TTTATTTAATTTTTTCCTTAAAAACCCTAAACACTAAACCCTAATCTAATTTTTTAAAATTTATA
*
61376025 ATTAATTTACTCAAGTAACCCTAAACTCTAA
66 ATTAATTTACTCAAGTAACCCTAAACCCTAA
* *
61376056 TTTATTTAATTTTTTCCTTAAAAACCATAAACACTAAACCCTAATCTAATTTTTTAATATTTATA
1 TTTATTTAATTTTTTCCTTAAAAACCCTAAACACTAAACCCTAATCTAATTTTTTAAAATTTATA
* * * *
61376121 ATTAATTTAATTAAGAAACCCTAAACCCTTA
66 ATTAATTTACTCAAGTAACCCTAAACCCTAA
61376152 TTTATTTAA-TTTTTCCTT-AAAACCCTAAA
1 TTTATTTAATTTTTTCCTTAAAAACCCTAAA
61376181 ATCTAAAAAT
Statistics
Matches: 200, Mismatches: 20, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
94 10 0.05
95 9 0.05
96 147 0.74
97 34 0.17
ACGTcount: A:0.40, C:0.17, G:0.01, T:0.41
Consensus pattern (96 bp):
TTTATTTAATTTTTTCCTTAAAAACCCTAAACACTAAACCCTAATCTAATTTTTTAAAATTTATA
ATTAATTTACTCAAGTAACCCTAAACCCTAA
Found at i:61389737 original size:30 final size:31
Alignment explanation
Indices: 61389657--61389721 Score: 121
Period size: 31 Copynumber: 2.1 Consensus size: 31
61389647 AACAGCTCAG
*
61389657 TGACTTAAATAAAAACTTTTGAATAGTTCAA
1 TGACTTAAATGAAAACTTTTGAATAGTTCAA
61389688 TGACTTAAATGAAAACTTTTGAATAGTTCAA
1 TGACTTAAATGAAAACTTTTGAATAGTTCAA
61389719 TGA
1 TGA
61389722 TTGAATTGTA
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 33 1.00
ACGTcount: A:0.43, C:0.09, G:0.12, T:0.35
Consensus pattern (31 bp):
TGACTTAAATGAAAACTTTTGAATAGTTCAA
Found at i:61391486 original size:193 final size:193
Alignment explanation
Indices: 61391150--61391544 Score: 720
Period size: 193 Copynumber: 2.0 Consensus size: 193
61391140 TGCGTAAATG
* * *
61391150 TTGATAAAATATGTAAATTTTGCAGACTAAATTTGTTAAATCAAGATCAAATTGATAGAATGTGT
1 TTGATGAAATATGTAAATTTTACAGACTAAATTTGTTAAATCAAGATCAAATTGATAGAATGTAT
61391215 AAAAGTTGTGGACTAAATTTTTAAATTAGAATAAAACTGACATAATATGTAAATGTTGAGATGAA
66 AAAAGTTGTGGACTAAATTTTTAAATTAGAATAAAACTGACATAATATGTAAATGTTGAGATGAA
61391280 ATTGATCAAATGTTTAAACTTAGAAGGCTAAATTTGATATGTTACCAAAAAAAATATGTATAA
131 ATTGATCAAATGTTTAAACTTAGAAGGCTAAATTTGATATGTTACCAAAAAAAATATGTATAA
61391343 TTGATGAAATATGTAAATTTTACAGACTAAATTTGTTAAATCAAGATCAAATTGATAGAATGTAT
1 TTGATGAAATATGTAAATTTTACAGACTAAATTTGTTAAATCAAGATCAAATTGATAGAATGTAT
*
61391408 AAAAGTTGTGGACTAAATTTTTAAATTAGAATAAAATTGACATAATATGTAAATGTTGAGATGAA
66 AAAAGTTGTGGACTAAATTTTTAAATTAGAATAAAACTGACATAATATGTAAATGTTGAGATGAA
* *
61391473 ATTGA-CAAAATGTTTAAACTTAGAGGGCTAAATTTGATATGTTACCAATAAAAATATGTATAA
131 ATTGATC-AAATGTTTAAACTTAGAAGGCTAAATTTGATATGTTACCAAAAAAAATATGTATAA
61391536 TTGATGAAA
1 TTGATGAAA
61391545 AATATTAACA
Statistics
Matches: 195, Mismatches: 6, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
192 1 0.01
193 194 0.99
ACGTcount: A:0.45, C:0.06, G:0.15, T:0.34
Consensus pattern (193 bp):
TTGATGAAATATGTAAATTTTACAGACTAAATTTGTTAAATCAAGATCAAATTGATAGAATGTAT
AAAAGTTGTGGACTAAATTTTTAAATTAGAATAAAACTGACATAATATGTAAATGTTGAGATGAA
ATTGATCAAATGTTTAAACTTAGAAGGCTAAATTTGATATGTTACCAAAAAAAATATGTATAA
Found at i:61392358 original size:13 final size:13
Alignment explanation
Indices: 61392340--61392365 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
61392330 GTATTAACCT
61392340 AAGAAGAAGAAGA
1 AAGAAGAAGAAGA
61392353 AAGAAGAAGAAGA
1 AAGAAGAAGAAGA
61392366 TGCTTAATTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.69, C:0.00, G:0.31, T:0.00
Consensus pattern (13 bp):
AAGAAGAAGAAGA
Found at i:61393227 original size:4 final size:4
Alignment explanation
Indices: 61393218--61393258 Score: 82
Period size: 4 Copynumber: 10.2 Consensus size: 4
61393208 TTATAGAAGT
61393218 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA T
1 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA T
61393259 AAAAACCGGA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 37 1.00
ACGTcount: A:0.24, C:0.00, G:0.24, T:0.51
Consensus pattern (4 bp):
TGTA
Found at i:61393802 original size:13 final size:14
Alignment explanation
Indices: 61393784--61393815 Score: 50
Period size: 13 Copynumber: 2.4 Consensus size: 14
61393774 ACAAAAATAC
61393784 TAAATTTAAA-AAA
1 TAAATTTAAATAAA
61393797 TAAATTTAAATAAA
1 TAAATTTAAATAAA
61393811 -AAATT
1 TAAATT
61393816 AGACTTATAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 15 0.83
14 3 0.17
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (14 bp):
TAAATTTAAATAAA
Found at i:61394136 original size:18 final size:18
Alignment explanation
Indices: 61394109--61394147 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
61394099 ATTAAAAATT
*
61394109 AATTTATTTAACCCTCCA
1 AATTTATTTAAACCTCCA
* *
61394127 AATTTTTTTAAACCTTCA
1 AATTTATTTAAACCTCCA
61394145 AAT
1 AAT
61394148 AAACATGTTT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.36, C:0.21, G:0.00, T:0.44
Consensus pattern (18 bp):
AATTTATTTAAACCTCCA
Found at i:61395229 original size:20 final size:20
Alignment explanation
Indices: 61395191--61395229 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
61395181 GGTAGAATTC
*
61395191 ACATCATGCTATTATATATG
1 ACATCATGCTATTACATATG
61395211 ACATACATGCTA-TACATAT
1 ACAT-CATGCTATTACATAT
61395230 CATGCTTTTA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 10 0.59
21 7 0.41
ACGTcount: A:0.38, C:0.18, G:0.08, T:0.36
Consensus pattern (20 bp):
ACATCATGCTATTACATATG
Found at i:61403269 original size:4 final size:4
Alignment explanation
Indices: 61403252--61403306 Score: 92
Period size: 4 Copynumber: 13.5 Consensus size: 4
61403242 TTACAGAAGT
*
61403252 TGTA TGTA GAGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
1 TGTA TGTA -TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
61403301 TGTA TG
1 TGTA TG
61403307 ATGAGCAACA
Statistics
Matches: 48, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
4 45 0.94
5 3 0.06
ACGTcount: A:0.25, C:0.00, G:0.27, T:0.47
Consensus pattern (4 bp):
TGTA
Found at i:61404824 original size:7 final size:7
Alignment explanation
Indices: 61404812--61404836 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
61404802 CAAGGTTCTT
61404812 GATTCGG
1 GATTCGG
61404819 GATTCGG
1 GATTCGG
61404826 GATTCGG
1 GATTCGG
61404833 GATT
1 GATT
61404837 TAGAGTTCAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.16, C:0.12, G:0.40, T:0.32
Consensus pattern (7 bp):
GATTCGG
Found at i:61407120 original size:21 final size:20
Alignment explanation
Indices: 61407092--61407130 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 20
61407082 AAAGCTGAGC
61407092 TTAGTTTAATTAATTTTTCT
1 TTAGTTTAATTAATTTTTCT
*
61407112 TTAGATTTATTTAATTTTT
1 TTAG-TTTAATTAATTTTT
61407131 TTATTATTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 4 0.24
21 13 0.76
ACGTcount: A:0.26, C:0.03, G:0.05, T:0.67
Consensus pattern (20 bp):
TTAGTTTAATTAATTTTTCT
Found at i:61412384 original size:15 final size:15
Alignment explanation
Indices: 61412364--61412394 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
61412354 TTTGAAGTAT
61412364 ATCTTTAAGAAAATA
1 ATCTTTAAGAAAATA
61412379 ATCTTTAAGAAAATA
1 ATCTTTAAGAAAATA
61412394 A
1 A
61412395 AATAAGGCAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.55, C:0.06, G:0.06, T:0.32
Consensus pattern (15 bp):
ATCTTTAAGAAAATA
Found at i:61412852 original size:25 final size:27
Alignment explanation
Indices: 61412808--61412863 Score: 71
Period size: 26 Copynumber: 2.1 Consensus size: 27
61412798 TCAATTGAAT
* *
61412808 TTAACAAATAAATTGCATAAA-TTTAA
1 TTAAAAAATAAATTACATAAAGTTTAA
*
61412834 TTAAAAAAT-AATTACATAAAGTTTAT
1 TTAAAAAATAAATTACATAAAGTTTAA
61412860 TTAA
1 TTAA
61412864 TTAAAAAAAT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
25 10 0.38
26 16 0.62
ACGTcount: A:0.54, C:0.05, G:0.04, T:0.38
Consensus pattern (27 bp):
TTAAAAAATAAATTACATAAAGTTTAA
Found at i:61417701 original size:20 final size:20
Alignment explanation
Indices: 61417676--61417725 Score: 70
Period size: 17 Copynumber: 2.6 Consensus size: 20
61417666 TGGCTTAAAA
61417676 TTGGTAGTGGATTGTTGTTG
1 TTGGTAGTGGATTGTTGTTG
61417696 TTGGTAGTGG---GTTGTTG
1 TTGGTAGTGGATTGTTGTTG
*
61417713 GTGGTAGTGGATT
1 TTGGTAGTGGATT
61417726 AGTGGATGGT
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
17 16 0.62
20 10 0.38
ACGTcount: A:0.10, C:0.00, G:0.44, T:0.46
Consensus pattern (20 bp):
TTGGTAGTGGATTGTTGTTG
Found at i:61422340 original size:20 final size:20
Alignment explanation
Indices: 61422315--61422364 Score: 70
Period size: 17 Copynumber: 2.6 Consensus size: 20
61422305 TGGCTTAAAA
61422315 TTGGTAGTGGATTGTTGTTG
1 TTGGTAGTGGATTGTTGTTG
61422335 TTGGTAGTGG---GTTGTTG
1 TTGGTAGTGGATTGTTGTTG
*
61422352 GTGGTAGTGGATT
1 TTGGTAGTGGATT
61422365 AGTGGATGGT
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
17 16 0.62
20 10 0.38
ACGTcount: A:0.10, C:0.00, G:0.44, T:0.46
Consensus pattern (20 bp):
TTGGTAGTGGATTGTTGTTG
Found at i:61423502 original size:14 final size:14
Alignment explanation
Indices: 61423483--61423531 Score: 57
Period size: 14 Copynumber: 3.4 Consensus size: 14
61423473 AAAGTATAGT
61423483 TTAAAATACAAAGA
1 TTAAAATACAAAGA
61423497 TTAAAATTGATC-AA-A
1 TTAAAA-T-A-CAAAGA
61423512 TTAAAATACAAAGA
1 TTAAAATACAAAGA
61423526 TTAAAA
1 TTAAAA
61423532 CTATAAATTT
Statistics
Matches: 30, Mismatches: 0, Indels: 10
0.75 0.00 0.25
Matches are distributed among these distances:
12 1 0.03
13 3 0.10
14 14 0.47
15 8 0.27
16 3 0.10
17 1 0.03
ACGTcount: A:0.61, C:0.06, G:0.06, T:0.27
Consensus pattern (14 bp):
TTAAAATACAAAGA
Found at i:61427922 original size:30 final size:30
Alignment explanation
Indices: 61427888--61427947 Score: 111
Period size: 30 Copynumber: 2.0 Consensus size: 30
61427878 TTTATGAGAG
*
61427888 TTCTTTTATTTTTGAATTTGGTGCTTTTGT
1 TTCTTTTATTTTTGAATTGGGTGCTTTTGT
61427918 TTCTTTTATTTTTGAATTGGGTGCTTTTGT
1 TTCTTTTATTTTTGAATTGGGTGCTTTTGT
61427948 GGTAAATTTA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.10, C:0.07, G:0.18, T:0.65
Consensus pattern (30 bp):
TTCTTTTATTTTTGAATTGGGTGCTTTTGT
Found at i:61430439 original size:30 final size:29
Alignment explanation
Indices: 61430315--61430440 Score: 94
Period size: 29 Copynumber: 4.3 Consensus size: 29
61430305 ACAAAAATAA
61430315 AAAATTATATTTTGACCCCCTAAACTTTT-T
1 AAAATTATATTTTGA-CCCCTAAA-TTTTCT
* ** * * *
61430345 GAAATTGCATTTTCACCCCTAAACTTCCT
1 AAAATTATATTTTGACCCCTAAATTTTCT
* * * * *
61430374 AAAATTACATTTTGGCCCATCAA-CTTCTT
1 AAAATTATATTTTGACCCCTAAATTTTC-T
*
61430403 GAAATTATATTTTGACCCCTAAATTTTCT
1 AAAATTATATTTTGACCCCTAAATTTTCT
61430432 CAAAATTAT
1 -AAAATTAT
61430441 GCTTGGCCCC
Statistics
Matches: 71, Mismatches: 21, Indels: 8
0.71 0.21 0.08
Matches are distributed among these distances:
28 4 0.06
29 46 0.65
30 21 0.30
ACGTcount: A:0.33, C:0.22, G:0.06, T:0.40
Consensus pattern (29 bp):
AAAATTATATTTTGACCCCTAAATTTTCT
Found at i:61430447 original size:58 final size:57
Alignment explanation
Indices: 61430337--61430449 Score: 129
Period size: 58 Copynumber: 1.9 Consensus size: 57
61430327 TGACCCCCTA
* * *
61430337 AACTTTTTGAAATTGCATTTTCACCCCTAAACTTCCTAAAATTACATTTTGGCCCATC
1 AACTTCTTGAAATTACATTTTCACCCCTAAACTTCCTAAAATTA-ATCTTGGCCCATC
* * * *
61430395 AACTTCTTGAAATTATATTTTGACCCCTAAATTTTCTCAAAATT-ATGCTTGGCCC
1 AACTTCTTGAAATTACATTTTCACCCCTAAACTTCCT-AAAATTAAT-CTTGGCCC
61430450 CAAAAGTTTT
Statistics
Matches: 46, Mismatches: 7, Indels: 4
0.81 0.12 0.07
Matches are distributed among these distances:
57 2 0.04
58 38 0.83
59 6 0.13
ACGTcount: A:0.29, C:0.24, G:0.08, T:0.39
Consensus pattern (57 bp):
AACTTCTTGAAATTACATTTTCACCCCTAAACTTCCTAAAATTAATCTTGGCCCATC
Found at i:61430980 original size:10 final size:10
Alignment explanation
Indices: 61430965--61431042 Score: 56
Period size: 10 Copynumber: 7.7 Consensus size: 10
61430955 GAAGAAAGGA
61430965 AAAAAGAAAG
1 AAAAAGAAAG
61430975 AAAAAGAAAG
1 AAAAAGAAAG
61430985 AAAAA-AAGGAG
1 AAAAAGAA--AG
*
61430996 AGAAAAAAATAG
1 A-AAAAGAA-AG
*
61431008 AAAAGGAAAG
1 AAAAAGAAAG
61431018 -AAAAGAAA-
1 AAAAAGAAAG
*
61431026 ATAAAA-AAAT
1 A-AAAAGAAAG
61431036 AAAAAGA
1 AAAAAGA
61431043 TAACAAAAAT
Statistics
Matches: 56, Mismatches: 4, Indels: 16
0.74 0.05 0.21
Matches are distributed among these distances:
9 16 0.29
10 23 0.41
11 8 0.14
12 7 0.12
13 2 0.04
ACGTcount: A:0.78, C:0.00, G:0.18, T:0.04
Consensus pattern (10 bp):
AAAAAGAAAG
Found at i:61430982 original size:22 final size:22
Alignment explanation
Indices: 61430956--61431025 Score: 67
Period size: 22 Copynumber: 3.3 Consensus size: 22
61430946 TAACCCGAAG
61430956 AAGAAAGGAAAAAAGAAAGAAA
1 AAGAAAGGAAAAAAGAAAGAAA
* *
61430978 AAGAAAGAAAAAAAGGAGAGAAA
1 AAGAAAGGAAAAAA-GAAAGAAA
*
61431001 AA-AATA-G-AAAAGGAAAG-AA
1 AAGAA-AGGAAAAAAGAAAGAAA
61431020 AAGAAA
1 AAGAAA
61431026 ATAAAAAAAT
Statistics
Matches: 40, Mismatches: 5, Indels: 9
0.74 0.09 0.17
Matches are distributed among these distances:
19 5 0.12
20 6 0.15
21 4 0.10
22 15 0.38
23 10 0.25
ACGTcount: A:0.76, C:0.00, G:0.23, T:0.01
Consensus pattern (22 bp):
AAGAAAGGAAAAAAGAAAGAAA
Found at i:61430999 original size:13 final size:13
Alignment explanation
Indices: 61430967--61431034 Score: 57
Period size: 13 Copynumber: 4.9 Consensus size: 13
61430957 AGAAAGGAAA
61430967 AAAGAAAGAAAAAG
1 AAAGAAA-AAAAAG
*
61430981 AAAGAAAAAAAGG
1 AAAGAAAAAAAAG
*
61430994 AGAGAAAAAAATAG
1 AAAGAAAAAAA-AG
*
61431008 AAAAGGAAAGAAAAG
1 -AAA-GAAAAAAAAG
61431023 AAA-ATAAAAAAA
1 AAAGA-AAAAAAA
61431035 TAAAAAGATA
Statistics
Matches: 44, Mismatches: 6, Indels: 9
0.75 0.10 0.15
Matches are distributed among these distances:
12 1 0.02
13 21 0.48
14 11 0.25
15 4 0.09
16 7 0.16
ACGTcount: A:0.78, C:0.00, G:0.19, T:0.03
Consensus pattern (13 bp):
AAAGAAAAAAAAG
Found at i:61431448 original size:15 final size:16
Alignment explanation
Indices: 61431430--61431459 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
61431420 TAATTTAGTT
61431430 TTATTT-ATTTAAATA
1 TTATTTCATTTAAATA
61431445 TTATTTCATTTAAAT
1 TTATTTCATTTAAAT
61431460 TTAACTAGCA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 6 0.43
16 8 0.57
ACGTcount: A:0.37, C:0.03, G:0.00, T:0.60
Consensus pattern (16 bp):
TTATTTCATTTAAATA
Found at i:61432031 original size:16 final size:18
Alignment explanation
Indices: 61431995--61432056 Score: 62
Period size: 18 Copynumber: 3.7 Consensus size: 18
61431985 AAAATTTTGC
*
61431995 GTGTTTTAAAAAAATTAT
1 GTGTTTTCAAAAAATTAT
61432013 GTGTTTTCAAAAAA-T-T
1 GTGTTTTCAAAAAATTAT
*
61432029 GTG-TTTC--AAAATTCT
1 GTGTTTTCAAAAAATTAT
61432044 CGTGTTTTCAAAA
1 -GTGTTTTCAAAA
61432057 CAAGAGATTT
Statistics
Matches: 37, Mismatches: 1, Indels: 11
0.76 0.02 0.22
Matches are distributed among these distances:
13 4 0.11
14 1 0.03
15 5 0.14
16 7 0.19
17 5 0.14
18 13 0.35
19 2 0.05
ACGTcount: A:0.35, C:0.08, G:0.13, T:0.44
Consensus pattern (18 bp):
GTGTTTTCAAAAAATTAT
Found at i:61437619 original size:9 final size:9
Alignment explanation
Indices: 61437589--61437647 Score: 50
Period size: 9 Copynumber: 6.7 Consensus size: 9
61437579 TATTATGCTT
61437589 AAAAAACAA
1 AAAAAACAA
**
61437598 AAAAATAGGA
1 AAAAA-ACAA
61437608 AAAAAACAA
1 AAAAAACAA
*
61437617 AAAAAACAG
1 AAAAAACAA
**
61437626 TCAAAAC--
1 AAAAAACAA
61437633 AAAAAACAA
1 AAAAAACAA
61437642 AAAAAA
1 AAAAAA
61437648 TCAAGATGAA
Statistics
Matches: 38, Mismatches: 9, Indels: 6
0.72 0.17 0.11
Matches are distributed among these distances:
7 5 0.13
9 26 0.68
10 7 0.18
ACGTcount: A:0.81, C:0.10, G:0.05, T:0.03
Consensus pattern (9 bp):
AAAAAACAA
Found at i:61438719 original size:82 final size:80
Alignment explanation
Indices: 61438521--61439924 Score: 1636
Period size: 82 Copynumber: 17.5 Consensus size: 80
61438511 TTCTGTTTTC
* * *
61438521 AAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGTCGCACACTAAGGTA----TTTTA
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTC-CACGCTGAGGTATTTCTTTTA
* *
61438582 AATTTCTGTTTTTC-G
65 AATTTCTATTTTTCAA
*
61438597 AAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGTCGCACGCTGAGGTATTTCTTTTA
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTC-CACGCTGAGGTATTTCTTTTA
*
61438662 AATTTTTATTTTTCAAAA
65 AATTTCTATTTTTC--AA
*
61438680 AAAAATCAACTCATATTAC-AGAGGTGAGTTGAGCCTCGGGT-CACGCTGAGGTATTTCTTTTAA
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCCACGCTGAGGTATTTCTTTT-A
* *
61438743 ATTTATGTTTTTTTTTTC-A
65 A---AT-TTCTATTTTTCAA
*
61438762 AAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGTCGCACGCTGAGGTATTTCTTTTA
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTC-CACGCTGAGGTATTTCTTTTA
61438827 AATTTCTATTTTTCAAAA
65 AATTTCTATTTTTC--AA
* *
61438845 AAAAATCAACTCATATTAC-AGAGATGAGTTGAGCCTCGGGT-CACGCTGAGGTATTTCTTTTAA
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCCACGCTGAGGTATTTCTTTTAA
61438908 ATTTCTATTTTTTTTC-A
66 ATTTCTA---TTTTTCAA
** * *
61438925 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-GAACCATGCCGAGGTATTTCTTTTAA
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCCACGCTGAGGTATTTCTTTTAA
*
61438989 ATTTCTGTTTTTC--
66 ATTTCTATTTTTCAA
* * *
61439002 AAAAATCAACTTATATTAC-AGAGGTGAGTTGAGCCTCGGGT-CACACTGAGGTATTTCTTTTAA
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCCACGCTGAGGTATTTCTTTTAA
*
61439065 ATTTCTGTTTTTTTTCAA
66 ATTTC---TATTTTTCAA
* *
61439083 AAAAATCAACTCATATTGCGAAAAGTGAGTTGAGCCTCGGGTCGCACGCTGAGGTATTTCTTTTA
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTC-CACGCTGAGGTATTTCTTTTA
61439148 AATTTCTATTTTTCAAAAA
65 AATTTCTATTTTTC---AA
* ** *
61439167 AAAAATCAACTCATATTAC-AGAAATGAGTTGAGCCTCGGGT-CACGTTGAGGTATTTCTTTTAA
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCCACGCTGAGGTATTTCTTTTAA
61439230 ATTTCTATTTTTTTTCAA
66 ATTTCTA---TTTTTCAA
** * *
61439248 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-GAACCATGCCGAGGTATTTCTTTTAA
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCCACGCTGAGGTATTTCTTTTAA
*
61439312 ATTTCTGTTTTTC--
66 ATTTCTATTTTTCAA
*
61439325 AAAAATCAACTCATATTGCGAGAGGTGAGTTAAGCCTCGGGTCGCACGCTGAGGTA----TTTTA
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTC-CACGCTGAGGTATTTCTTTTA
61439386 AATTTC-AGTTTTTTCAA
65 AATTTCTA--TTTTTCAA
* *
61439403 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGAGTCGCACGCTAAGGTATTTCTTTTA
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTC-CACGCTGAGGTATTTCTTTTA
61439468 AATTTCTATTTTTTCAAA
65 AATTTCTA-TTTTTC-AA
*
61439486 AAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGTCGCACGCTGAGGTATTTCTTTTA
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTC-CACGCTGAGGTATTTCTTTTA
61439551 AATTTCTATTTTTCAAAA
65 AATTTCTATTTTTC--AA
* * *
61439569 AAAAATCAACTTATATTAC-AGAGGTTAGTTGAGCCTCGGGT-CACGCTGAGGTATTTCTTTTAA
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCCACGCTGAGGTATTTCTTTTAA
* *
61439632 ATTTTTGTTTTTTTC-A
66 A--TTTCTATTTTTCAA
** * * * *
61439648 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-GAACCATGCCGAGGTATTTTTTTTAT
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCCACGCTGAGGTATTTCTTTTAA
*
61439712 ATTTCTGTTTTT---
66 ATTTCTATTTTTCAA
** * * * * *
61439724 TTAAATCAACTCATATTGCGAGAGGTGAGTTGAACCTC-GGACACATGCCGAGGTATTTCGTTTA
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTC-CACGCTGAGGTATTTCTTTTA
* *
61439788 AATTTCTGTTTTTTAAA
65 AATTTCT-ATTTTTCAA
* *
61439805 AAAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTCGGGTCACATGCCT-AGGTATTTTCTTT
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTC-CACG-CTGAGGTA-TTTCTTT
*
61439869 TAAATTTCTGTTTTTCAA
63 TAAATTTCTATTTTTCAA
*
61439887 AAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTC
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC
61439925 AGGCCACACG
Statistics
Matches: 1166, Mismatches: 97, Indels: 124
0.84 0.07 0.09
Matches are distributed among these distances:
75 11 0.01
76 140 0.12
77 80 0.07
78 75 0.06
79 42 0.04
80 154 0.13
81 154 0.13
82 231 0.20
83 193 0.17
84 56 0.05
85 30 0.03
ACGTcount: A:0.29, C:0.16, G:0.19, T:0.36
Consensus pattern (80 bp):
AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCCACGCTGAGGTATTTCTTTTAA
ATTTCTATTTTTCAA
Found at i:61438785 original size:165 final size:162
Alignment explanation
Indices: 61438521--61439924 Score: 1655
Period size: 165 Copynumber: 8.7 Consensus size: 162
61438511 TTCTGTTTTC
* * * *
61438521 AAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGTCGCACACTAAGGTA----TTTTA
1 AAAAATCAACTCATATTACGAGAGGTGAGTTGAGCCTCGGGT--CACGCTGAGGTATTTCTTTTA
* *
61438582 AATTTCTG---TTTTTCGAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGTCGCAC
64 AATTT-TGTTTTTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCGCAC
*
61438644 GCTGAGGTATTTCTTTTAAATTTTTATTTTTCAAAA
128 GCTGAGGTATTTCTTTTAAATTTCTATTTTTC-AAA
61438680 AAAAATCAACTCATATTAC-AGAGGTGAGTTGAGCCTCGGGTCACGCTGAGGTATTTCTTTTAAA
1 AAAAATCAACTCATATTACGAGAGGTGAGTTGAGCCTCGGGTCACGCTGAGGTATTTCTTTTAAA
*
61438744 TTTATGTTTTTTTTTTCAAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGTCGCAC
66 TTT-TG--TTTTTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCGCAC
61438809 GCTGAGGTATTTCTTTTAAATTTCTATTTTTCAAAA
128 GCTGAGGTATTTCTTTTAAATTTCTATTTTTC-AAA
*
61438845 AAAAATCAACTCATATTAC-AGAGATGAGTTGAGCCTCGGGTCACGCTGAGGTATTTCTTTTAAA
1 AAAAATCAACTCATATTACGAGAGGTGAGTTGAGCCTCGGGTCACGCTGAGGTATTTCTTTTAAA
* ** *
61438909 TTTCTATTTTTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-GAAC-CATGC
66 TTT-TGTTTTTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCGCACGC
* *
61438972 CGAGGTATTTCTTTTAAATTTCTGTTTTTC---
130 TGAGGTATTTCTTTTAAATTTCTATTTTTCAAA
* *
61439002 AAAAATCAACTTATATTAC-AGAGGTGAGTTGAGCCTCGGGTCACACTGAGGTATTTCTTTTAAA
1 AAAAATCAACTCATATTACGAGAGGTGAGTTGAGCCTCGGGTCACGCTGAGGTATTTCTTTTAAA
* *
61439066 TTTCTGTTTTTTTTCAAAAAAATCAACTCATATTGCGAAAAGTGAGTTGAGCCTCGGGTCGCACG
66 TTT-TGTTTTTTTTC-AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCGCACG
61439131 CTGAGGTATTTCTTTTAAATTTCTATTTTTCAAAAA
129 CTGAGGTATTTCTTTTAAATTTCTATTTTTC--AAA
** *
61439167 AAAAATCAACTCATATTAC-AGAAATGAGTTGAGCCTCGGGTCACGTTGAGGTATTTCTTTTAAA
1 AAAAATCAACTCATATTACGAGAGGTGAGTTGAGCCTCGGGTCACGCTGAGGTATTTCTTTTAAA
* ** *
61439231 TTTCTATTTTTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-GAAC-CATG
66 TTT-TGTTTTTTTTC-AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCGCACG
* *
61439294 CCGAGGTATTTCTTTTAAATTTCTGTTTTTC---
129 CTGAGGTATTTCTTTTAAATTTCTATTTTTCAAA
* *
61439325 AAAAATCAACTCATATTGCGAGAGGTGAGTTAAGCCTCGGGTCGCACGCTGAGGTA----TTTTA
1 AAAAATCAACTCATATTACGAGAGGTGAGTTGAGCCTCGGGT--CACGCTGAGGTATTTCTTTTA
* *
61439386 AATTTCAG--TTTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGAGTCGCA
64 AATTT-TGTTTTTTTTC-AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCGCA
*
61439449 CGCTAAGGTATTTCTTTTAAATTTCTATTTTTTCAAA
127 CGCTGAGGTATTTCTTTTAAATTTCTA-TTTTTCAAA
* *
61439486 AAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGTCGCACGCTGAGGTATTTCTTTTA
1 AAAAATCAACTCATATTACGAGAGGTGAGTTGAGCCTCGGGT--CACGCTGAGGTATTTCTTTTA
* **** * * *
61439551 AATTTCTATTTTTCAAAAAAAAATCAACTTATATTAC-AGAGGTTAGTTGAGCCTCGGGT--CAC
64 AATTT-TGTTTTTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCGCAC
* * ***
61439613 GCTGAGGTATTTCTTTTAAATTTTTGTTTTTTTCA
128 GCTGAGGTATTTCTTTTAAATTTCTATTTTTCAAA
* *** * * * *
61439648 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGAACCATGCCGAGGTATTTTTTTTATA
1 AAAAATCAACTCATATTACGAGAGGTGAGTTGAGCCTCGGGTCACGCTGAGGTATTTCTTTTAAA
* * * *
61439713 TTTCTG-TTTTTTT----AAATCAACTCATATTGCGAGAGGTGAGTTGAACCTC-GGACACATGC
66 TTT-TGTTTTTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCGCACGC
* * * *
61439772 CGAGGTATTTCGTTTAAATTTCTGTTTTTTAAA
130 TGAGGTATTTCTTTTAAATTTCTATTTTTCAAA
* *
61439805 AAAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTCGGGTCACATGCCT-AGGTATTTTCTTT
1 AAAAATCAACTCATATTACGAGAGGTGAGTTGAGCCTCGGGTCAC--G-CTGAGGTA-TTTCTTT
*
61439869 TAAATTTCTG---TTTTTCAAAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTC
62 TAAATTT-TGTTTTTTTTC-AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC
61439925 AGGCCACACG
Statistics
Matches: 1096, Mismatches: 105, Indels: 84
0.85 0.08 0.07
Matches are distributed among these distances:
155 64 0.06
156 27 0.02
157 183 0.17
158 87 0.08
159 49 0.04
160 84 0.08
161 97 0.09
162 46 0.04
163 139 0.13
164 2 0.00
165 297 0.27
166 18 0.02
167 3 0.00
ACGTcount: A:0.29, C:0.16, G:0.19, T:0.36
Consensus pattern (162 bp):
AAAAATCAACTCATATTACGAGAGGTGAGTTGAGCCTCGGGTCACGCTGAGGTATTTCTTTTAAA
TTTTGTTTTTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCGCACGCT
GAGGTATTTCTTTTAAATTTCTATTTTTCAAA
Found at i:61439606 original size:402 final size:399
Alignment explanation
Indices: 61438503--61439924 Score: 1887
Period size: 402 Copynumber: 3.5 Consensus size: 399
61438493 CAAGAAATAT
* * * *
61438503 TTTTCAATTTCTG-TTTTCAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGTCGCA
1 TTTTAAATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTAAGCCTC-GGACGCA
* ** * *
61438567 CACTAAGGTA-TTTTAAATTTCTGTTTTTCGAAAAATCAACTCATATTGCGAGAAGTGAGTTGAG
65 CGCCGAGGTATTTTTAAATTTCTGTTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAG
*
61438631 CCTCGGGTCGCACGCTGAGGTATTTCTTTTAAATTTTTA-TTTTTCAAAAAAAAATCAACTCATA
130 CCTCGGGTCGCACGCTGAGGTATTTCTTTTAAATTTCTATTTTTTC--AAAAAAATCAACTCATA
* * * *
61438695 TTAC-AGAGGTGAGTTGAGCCTCGGGT--CACGCTGAGGTATTTCTTTTAAATTTATGTTTTTTT
193 TTGCGAGAAGTGAGTTGAGCCTCGGGTCGCACGCTGAGGTATTTCTTTTAAA-TT-TCTATTTTT
**** *
61438757 TTTCAAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGTCGCACGCTGAGGTATTTC
256 CAAAAAAAAATCAACTCATATTAC-AGAAGTGAGTTGAGCCTCGGGT--CACGCTGAGGTATTTC
*** * * **
61438822 TTTTAAATTTCTA-TTTTTCAAAAAAAAATCAACTCATATTAC-AGAGATGAGTTGAGCCTCGGG
318 TTTTAAATTTCTATTTTTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGAA
* * *
61438885 TCACGCTGAGGTATTTC
383 CCATGCCGAGGTATTTC
* * *
61438902 TTTTAAATTTCTATTTTTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGAAC
1 TTTTAAATTTC---TGTTTTTC-AAAAATCAACTCATATTGCGAGAGGTGAGTTAAGCCTCGGAC
* * *
61438967 -CATGCCGAGGTATTTCTTTTAAATTTCTGTTTTTC-AAAAATCAACTTATATTAC-AGAGGTGA
62 GCACGCCGAGGTA--T-TTTTAAATTTCTGTTTTTCAAAAAATCAACTCATATTGCGAGAGGTGA
* *
61439029 GTTGAGCCTCGGGT--CACACTGAGGTATTTCTTTTAAATTTCTGTTTTTTTTCAAAAAAATCAA
124 GTTGAGCCTCGGGTCGCACGCTGAGGTATTTCTTTTAAATTTC--TATTTTTTCAAAAAAATCAA
*
61439092 CTCATATTGCGAAAAGTGAGTTGAGCCTCGGGTCGCACGCTGAGGTATTTCTTTTAAATTTCTAT
187 CTCATATTGCGAGAAGTGAGTTGAGCCTCGGGTCGCACGCTGAGGTATTTCTTTTAAATTTCTAT
* *
61439157 TTTTCAAAAAAAAAATCAACTCATATTACAGAAATGAGTTGAGCCTCGGGTCACGTTGAGGTATT
252 TTTTC-AAAAAAAAATCAACTCATATTACAGAAGTGAGTTGAGCCTCGGGTCACGCTGAGGTATT
61439222 TCTTTTAAATTTCTATTTTTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCG
316 TCTTTTAAATTTCTATTTTTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCG
61439287 AACCATGCCGAGGTATTTC
381 AACCATGCCGAGGTATTTC
*
61439306 TTTTAAATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTAAGCCTCGGGTCGCA
1 TTTTAAATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTAAGCCTC-GGACGCA
* *
61439371 CGCTGAGGTA-TTTTAAATTTCAGTTTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTG
65 CGCCGAGGTATTTTTAAATTTCTG-TTTTTC-AAAAAATCAACTCATATTGCGAGAGGTGAGTTG
* *
61439435 AGCCTCGAGTCGCACGCTAAGGTATTTCTTTTAAATTTCTATTTTTTCAAAAAAAATCAACTCAT
128 AGCCTCGGGTCGCACGCTGAGGTATTTCTTTTAAATTTCTATTTTTTC-AAAAAAATCAACTCAT
61439500 ATTGCGAGAAGTGAGTTGAGCCTCGGGTCGCACGCTGAGGTATTTCTTTTAAATTTCTATTTTTC
192 ATTGCGAGAAGTGAGTTGAGCCTCGGGTCGCACGCTGAGGTATTTCTTTTAAATTTCTATTTTTC
* * *
61439565 AAAAAAAAATCAACTTATATTACAGAGGTTAGTTGAGCCTCGGGTCACGCTGAGGTATTTCTTTT
257 AAAAAAAAATCAACTCATATTACAGAAGTGAGTTGAGCCTCGGGTCACGCTGAGGTATTTCTTTT
61439630 AAATTT-T-TGTTTTTTTC-AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGAACCA
322 AAATTTCTAT-TTTTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGAACCA
*
61439692 TGCCGAGGTATTTT
386 TGCCGAGGTATTTC
* ** *
61439706 TTTTATATTTCTGTTTTT-TTAAATCAACTCATATTGCGAGAGGTGAGTTGAA-CCTCGGACACA
1 TTTTAAATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTT-AAGCCTCGGACGCA
* * *
61439769 TGCCGAGGTATTTCGTTTAAATTTCTGTTTTTTAAAAAAAATCAACTCATAATGCGAGAGGTGAG
65 CGCCGAGGTA-TT--TTTAAATTTCTG-TTTTT-CAAAAAATCAACTCATATTGCGAGAGGTGAG
* * *
61439834 TTGAGCCTCGGGTCACATGCCT-AGGTATTTTCTTTTAAATTTCT-GTTTTTCAAAAAAATCAAC
125 TTGAGCCTCGGGTCGCACG-CTGAGGTA-TTTCTTTTAAATTTCTATTTTTTCAAAAAAATCAAC
61439897 TCATATTGCGAGAAGTGAGTTGAGCCTC
188 TCATATTGCGAGAAGTGAGTTGAGCCTC
61439925 AGGCCACACG
Statistics
Matches: 916, Mismatches: 71, Indels: 70
0.87 0.07 0.07
Matches are distributed among these distances:
398 25 0.03
399 49 0.05
400 116 0.13
401 75 0.08
402 240 0.26
403 150 0.16
404 175 0.19
405 44 0.05
406 42 0.05
ACGTcount: A:0.29, C:0.16, G:0.19, T:0.36
Consensus pattern (399 bp):
TTTTAAATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTAAGCCTCGGACGCAC
GCCGAGGTATTTTTAAATTTCTGTTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGC
CTCGGGTCGCACGCTGAGGTATTTCTTTTAAATTTCTATTTTTTCAAAAAAATCAACTCATATTG
CGAGAAGTGAGTTGAGCCTCGGGTCGCACGCTGAGGTATTTCTTTTAAATTTCTATTTTTCAAAA
AAAAATCAACTCATATTACAGAAGTGAGTTGAGCCTCGGGTCACGCTGAGGTATTTCTTTTAAAT
TTCTATTTTTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGAACCATGCCG
AGGTATTTC
Found at i:61440123 original size:10 final size:9
Alignment explanation
Indices: 61440101--61440131 Score: 55
Period size: 9 Copynumber: 3.6 Consensus size: 9
61440091 GCTTTTTTTT
61440101 AAAAAATAC
1 AAAAAATAC
61440110 AAAAAATAC
1 AAAAAATAC
61440119 AAAAAATA-
1 AAAAAATAC
61440127 AAAAA
1 AAAAA
61440132 TTATATTTTG
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
8 5 0.23
9 17 0.77
ACGTcount: A:0.84, C:0.06, G:0.00, T:0.10
Consensus pattern (9 bp):
AAAAAATAC
Found at i:61440193 original size:30 final size:30
Alignment explanation
Indices: 61440128--61440253 Score: 114
Period size: 29 Copynumber: 4.2 Consensus size: 30
61440118 CAAAAAATAA
* *
61440128 AAAATTATATTTTGACCCCCTAAACTTT-TT
1 AAAATTACATTTTGA-CCCCTAAACTTTCCT
* * *
61440158 GAAATTGCATTTTCACCCCTAAACTTTCCT
1 AAAATTACATTTTGACCCCTAAACTTTCCT
* * * *
61440188 AAAATTACATTTTGGCCCATCAAC-TTCTT
1 AAAATTACATTTTGACCCCTAAACTTTCCT
* *
61440217 AAAATTATATTTTGACCCCTAAA-TTTTCT
1 AAAATTACATTTTGACCCCTAAACTTTCCT
61440246 CAAAATTA
1 -AAAATTA
61440254 TGCTTGACCC
Statistics
Matches: 75, Mismatches: 18, Indels: 6
0.76 0.18 0.06
Matches are distributed among these distances:
29 38 0.51
30 37 0.49
ACGTcount: A:0.33, C:0.22, G:0.05, T:0.40
Consensus pattern (30 bp):
AAAATTACATTTTGACCCCTAAACTTTCCT
Found at i:61440254 original size:30 final size:30
Alignment explanation
Indices: 61440128--61440254 Score: 100
Period size: 30 Copynumber: 4.3 Consensus size: 30
61440118 CAAAAAATAA
61440128 AAAATTATATTTTGACCCCCTAAACTTTT-T-
1 AAAATTATATTTTGA-CCCCTAAA-TTTTCTC
* ** * *
61440158 GAAATTGCATTTTCACCCCTAAACTTTC-C
1 AAAATTATATTTTGACCCCTAAATTTTCTC
* * * * * *
61440187 TAAAATTACATTTTGGCCCATCAA-CTTCTT
1 -AAAATTATATTTTGACCCCTAAATTTTCTC
61440217 AAAATTATATTTTGACCCCTAAATTTTCTC
1 AAAATTATATTTTGACCCCTAAATTTTCTC
61440247 AAAATTAT
1 AAAATTAT
61440255 GCTTGACCCC
Statistics
Matches: 73, Mismatches: 19, Indels: 10
0.72 0.19 0.10
Matches are distributed among these distances:
28 3 0.04
29 30 0.41
30 40 0.55
ACGTcount: A:0.33, C:0.22, G:0.05, T:0.40
Consensus pattern (30 bp):
AAAATTATATTTTGACCCCTAAATTTTCTC
Found at i:61440806 original size:13 final size:12
Alignment explanation
Indices: 61440773--61440811 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
61440763 TAACCCGAAG
*
61440773 AAGAAAGGAAAA
1 AAGAAAGAAAAA
61440785 AAGAAAGAAAAA
1 AAGAAAGAAAAA
*
61440797 AAGGAGAGAAAAA
1 AA-GAAAGAAAAA
61440810 AA
1 AA
61440812 TAGAAAAGGA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
12 13 0.54
13 11 0.46
ACGTcount: A:0.77, C:0.00, G:0.23, T:0.00
Consensus pattern (12 bp):
AAGAAAGAAAAA
Found at i:61440833 original size:22 final size:20
Alignment explanation
Indices: 61440776--61440840 Score: 62
Period size: 20 Copynumber: 3.1 Consensus size: 20
61440766 CCCGAAGAAG
61440776 AAAGGAAA-AAAGAAAGA-AAA
1 AAAGGAAAGAAA-AAA-ATAAA
* *
61440796 AAAGGAGAGAAAAAAATAGA
1 AAAGGAAAGAAAAAAATAAA
61440816 AAAGGAAAGAAAATAAAATAAA
1 AAAGGAAAG-AAA-AAAATAAA
61440838 AAA
1 AAA
61440841 ATAAAAAGAT
Statistics
Matches: 37, Mismatches: 4, Indels: 6
0.79 0.09 0.13
Matches are distributed among these distances:
19 1 0.03
20 20 0.54
21 6 0.16
22 10 0.27
ACGTcount: A:0.77, C:0.00, G:0.18, T:0.05
Consensus pattern (20 bp):
AAAGGAAAGAAAAAAATAAA
Done.