Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr8
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 70076365
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 3341059 characters in sequence are not A, C, G, or T
File 102 of 210
Found at i:34722847 original size:43 final size:43
Alignment explanation
Indices: 34722766--34722866 Score: 123
Period size: 43 Copynumber: 2.3 Consensus size: 43
34722756 CGATTTATCC
*
34722766 AATGATGTATTGTGTGTGTCAGTATAATTACTCCGGCTTGTCC-
1 AATGATGTACTGTGTGTGTCAGTATAATTACTCCGGCTTG-CCT
* * * **
34722809 GATGATGTACTGTGTGTGTTAGTATAATTATTTTGGCTTGCCT
1 AATGATGTACTGTGTGTGTCAGTATAATTACTCCGGCTTGCCT
*
34722852 AATGATGCACTGTGT
1 AATGATGTACTGTGT
34722867 ATGCCAATAT
Statistics
Matches: 49, Mismatches: 8, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
42 2 0.04
43 47 0.96
ACGTcount: A:0.21, C:0.13, G:0.25, T:0.42
Consensus pattern (43 bp):
AATGATGTACTGTGTGTGTCAGTATAATTACTCCGGCTTGCCT
Found at i:34723023 original size:23 final size:23
Alignment explanation
Indices: 34722987--34723030 Score: 70
Period size: 23 Copynumber: 1.9 Consensus size: 23
34722977 ATAGGGTTAT
34722987 TGTAATAACACGAAAATTACTGC
1 TGTAATAACACGAAAATTACTGC
* *
34723010 TGTAATACCCCGAAAATTACT
1 TGTAATAACACGAAAATTACT
34723031 ATAGTAAGAA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.41, C:0.20, G:0.11, T:0.27
Consensus pattern (23 bp):
TGTAATAACACGAAAATTACTGC
Found at i:34724320 original size:23 final size:23
Alignment explanation
Indices: 34724294--34724340 Score: 76
Period size: 23 Copynumber: 2.0 Consensus size: 23
34724284 GTAATTATAA
34724294 ATACATGTGTAATAAATATATGT
1 ATACATGTGTAATAAATATATGT
* *
34724317 ATACATTTGTAATTAATATATGT
1 ATACATGTGTAATAAATATATGT
34724340 A
1 A
34724341 CATACTTATT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.43, C:0.04, G:0.11, T:0.43
Consensus pattern (23 bp):
ATACATGTGTAATAAATATATGT
Found at i:34724420 original size:19 final size:19
Alignment explanation
Indices: 34724396--34724434 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
34724386 TTAATTAAAT
34724396 AAAAGA-AATAAAAGATAGA
1 AAAAGAGAATAAAA-ATAGA
*
34724415 AAAAGAGAATAGAAATAGA
1 AAAAGAGAATAAAAATAGA
34724434 A
1 A
34724435 TAACAAAACT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 12 0.67
20 6 0.33
ACGTcount: A:0.72, C:0.00, G:0.18, T:0.10
Consensus pattern (19 bp):
AAAAGAGAATAAAAATAGA
Found at i:34724683 original size:12 final size:12
Alignment explanation
Indices: 34724668--34724695 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
34724658 TTAATTGATG
34724668 AATTAGGGGTTA
1 AATTAGGGGTTA
34724680 AATTAGGGGTTA
1 AATTAGGGGTTA
34724692 AATT
1 AATT
34724696 GATTTAATTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.36, C:0.00, G:0.29, T:0.36
Consensus pattern (12 bp):
AATTAGGGGTTA
Found at i:34725266 original size:15 final size:15
Alignment explanation
Indices: 34725246--34725275 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
34725236 TGAATATCGA
34725246 TATTGAATTAAATGT
1 TATTGAATTAAATGT
*
34725261 TATTGAATTATATGT
1 TATTGAATTAAATGT
34725276 GAATTGAATG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.37, C:0.00, G:0.13, T:0.50
Consensus pattern (15 bp):
TATTGAATTAAATGT
Found at i:34729762 original size:30 final size:30
Alignment explanation
Indices: 34729701--34729778 Score: 84
Period size: 30 Copynumber: 2.6 Consensus size: 30
34729691 AAATGTAATC
* * ** *
34729701 CTCACACAAGCTGATAGTATTTTAGGGTTG
1 CTCACACAAGCTGACATTATAATAGGATTG
*
34729731 CTCACACAAGCTGACATTATAATCGGATTG
1 CTCACACAAGCTGACATTATAATAGGATTG
* *
34729761 CTCACAAAAGCTAACATT
1 CTCACACAAGCTGACATT
34729779 GTATCGAGGT
Statistics
Matches: 40, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
30 40 1.00
ACGTcount: A:0.33, C:0.22, G:0.17, T:0.28
Consensus pattern (30 bp):
CTCACACAAGCTGACATTATAATAGGATTG
Found at i:34730979 original size:28 final size:28
Alignment explanation
Indices: 34730944--34731016 Score: 128
Period size: 28 Copynumber: 2.6 Consensus size: 28
34730934 TATTTGTTTA
* *
34730944 AAAACTAAATTAATTTATTTAACAATAG
1 AAAACTAATTTAAATTATTTAACAATAG
34730972 AAAACTAATTTAAATTATTTAACAATAG
1 AAAACTAATTTAAATTATTTAACAATAG
34731000 AAAACTAATTTAAATTA
1 AAAACTAATTTAAATTA
34731017 AAGGTAAATT
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
28 43 1.00
ACGTcount: A:0.55, C:0.07, G:0.03, T:0.36
Consensus pattern (28 bp):
AAAACTAATTTAAATTATTTAACAATAG
Found at i:34731460 original size:31 final size:31
Alignment explanation
Indices: 34731425--34731487 Score: 108
Period size: 31 Copynumber: 2.0 Consensus size: 31
34731415 AACAACATAG
34731425 TAACTTAAATAAAAACTTTGGAATAATTCAA
1 TAACTTAAATAAAAACTTTGGAATAATTCAA
* *
34731456 TAACTTAAATAAAAACTTTTGAATAGTTCAA
1 TAACTTAAATAAAAACTTTGGAATAATTCAA
34731487 T
1 T
34731488 GACCGTTTTG
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.49, C:0.10, G:0.06, T:0.35
Consensus pattern (31 bp):
TAACTTAAATAAAAACTTTGGAATAATTCAA
Found at i:34742049 original size:49 final size:49
Alignment explanation
Indices: 34741932--34742050 Score: 123
Period size: 49 Copynumber: 2.4 Consensus size: 49
34741922 TACCACCCCA
* * * *
34741932 GGTTGCCCGACAACTATGACTTTCACAATTTGATTATTCTATCATATTG
1 GGTTGTCCGACAACAATGACTTTCACAATCTGATTATTCTATCATATCG
* * * * *
34741981 AGTT-TCCCGACAACAATGACTTTCATAATCTGATTATTTTGTCATCTCG
1 GGTTGT-CCGACAACAATGACTTTCACAATCTGATTATTCTATCATATCG
* *
34742030 GGTTGTCCGAGAACGATGACT
1 GGTTGTCCGACAACAATGACT
34742051 ATTGGCATAT
Statistics
Matches: 56, Mismatches: 12, Indels: 4
0.78 0.17 0.06
Matches are distributed among these distances:
49 55 0.98
50 1 0.02
ACGTcount: A:0.26, C:0.21, G:0.17, T:0.36
Consensus pattern (49 bp):
GGTTGTCCGACAACAATGACTTTCACAATCTGATTATTCTATCATATCG
Found at i:34744878 original size:11 final size:11
Alignment explanation
Indices: 34744862--34744888 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
34744852 GCAATATAAT
34744862 AACAAAATAGC
1 AACAAAATAGC
34744873 AACAAAATAGC
1 AACAAAATAGC
34744884 AACAA
1 AACAA
34744889 CAAATAACAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.67, C:0.19, G:0.07, T:0.07
Consensus pattern (11 bp):
AACAAAATAGC
Found at i:34758314 original size:2 final size:2
Alignment explanation
Indices: 34758307--34758332 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
34758297 ATTCAGAAGG
34758307 TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA
34758333 NNNNNNNNNN
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:34758412 original size:2 final size:2
Alignment explanation
Indices: 34758405--34758431 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
34758395 NNNNNNNNNN
34758405 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
34758432 TTATGTTTAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:34772192 original size:27 final size:27
Alignment explanation
Indices: 34772153--34772204 Score: 72
Period size: 27 Copynumber: 1.9 Consensus size: 27
34772143 GTGCACATAT
34772153 TGGAGAAGATGGG-GTTCGGAAAATAAG
1 TGGAGAAGATGGGTGTT-GGAAAATAAG
34772180 TGGAGAATG-TGGGTGTTGGAAAATA
1 TGGAGAA-GATGGGTGTTGGAAAATA
34772205 TATCAGTTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
27 19 0.83
28 4 0.17
ACGTcount: A:0.35, C:0.02, G:0.40, T:0.23
Consensus pattern (27 bp):
TGGAGAAGATGGGTGTTGGAAAATAAG
Found at i:34773673 original size:16 final size:16
Alignment explanation
Indices: 34773652--34773683 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
34773642 GAAATTAAAG
*
34773652 AAAAATATTATAGAAT
1 AAAAATATTAAAGAAT
34773668 AAAAATATTAAAGAAT
1 AAAAATATTAAAGAAT
34773684 GTATATATGA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.66, C:0.00, G:0.06, T:0.28
Consensus pattern (16 bp):
AAAAATATTAAAGAAT
Found at i:34773979 original size:3 final size:3
Alignment explanation
Indices: 34773971--34773999 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
34773961 TTTAAAGTAC
34773971 AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
34774000 GTTTAGTTGT
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:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:34774129 original size:23 final size:22
Alignment explanation
Indices: 34774082--34774130 Score: 55
Period size: 23 Copynumber: 2.1 Consensus size: 22
34774072 GTAATCGCAT
34774082 TAAAATTACAACATTCAAAGGAC
1 TAAAATTACAACATTCAAA-GAC
*
34774105 TAAATTTACAATCAATTCAAA-AC
1 TAAAATTACAA-C-ATTCAAAGAC
34774128 TAA
1 TAA
34774131 GGACTAAAGT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
23 15 0.65
24 1 0.04
25 7 0.30
ACGTcount: A:0.53, C:0.16, G:0.04, T:0.27
Consensus pattern (22 bp):
TAAAATTACAACATTCAAAGAC
Found at i:34775779 original size:182 final size:182
Alignment explanation
Indices: 34775472--34775837 Score: 669
Period size: 182 Copynumber: 2.0 Consensus size: 182
34775462 GTTCCCCCTT
* * **
34775472 AAATATCTTGGTAGTTGGTATTCCTCTTGGAATCATCCTGAGAAAACGGGTAGTTTGGATCAAGG
1 AAATATCTTGGTAGTTGGTATTCCTCTTGGAATCAACCCGAGAAAACAAGTAGTTTGGATCAAGG
*
34775537 CTGCAGACGATAAATTACTTGTTATGGAGTCAGCTTGGTGGGATTGCCCACTGCTTTGCTTCTCG
66 CTGCAGACGATAAATTACTTGCTATGGAGTCAGCTTGGTGGGATTGCCCACTGCTTTGCTTCTCG
34775602 GCTACTCCTGTTAAAGCAGTTCGGAGGGATATCTGTTGGACGCCTCCAGCTC
131 GCTACTCCTGTTAAAGCAGTTCGGAGGGATATCTGTTGGACGCCTCCAGCTC
*
34775654 AAATATCTTGGTAGTTGGTATTCCTCTTGGAATCAACCCGAGAAAACAAGTCGTTTGGATCAAGG
1 AAATATCTTGGTAGTTGGTATTCCTCTTGGAATCAACCCGAGAAAACAAGTAGTTTGGATCAAGG
34775719 CTGCAGACGATAAATTACTTGCTATGGAGTCAGCTTGGTGGGATTGCCCACTGCTTTGCTTCTCG
66 CTGCAGACGATAAATTACTTGCTATGGAGTCAGCTTGGTGGGATTGCCCACTGCTTTGCTTCTCG
*
34775784 GCTACTCCTGTTAAAGCAGTTTGGAGGGATATCTGTTGGACGCCTCCAGCTC
131 GCTACTCCTGTTAAAGCAGTTCGGAGGGATATCTGTTGGACGCCTCCAGCTC
34775836 AA
1 AA
34775838 GGTTTTCTCA
Statistics
Matches: 177, Mismatches: 7, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
182 177 1.00
ACGTcount: A:0.23, C:0.21, G:0.26, T:0.31
Consensus pattern (182 bp):
AAATATCTTGGTAGTTGGTATTCCTCTTGGAATCAACCCGAGAAAACAAGTAGTTTGGATCAAGG
CTGCAGACGATAAATTACTTGCTATGGAGTCAGCTTGGTGGGATTGCCCACTGCTTTGCTTCTCG
GCTACTCCTGTTAAAGCAGTTCGGAGGGATATCTGTTGGACGCCTCCAGCTC
Found at i:34777659 original size:57 final size:57
Alignment explanation
Indices: 34777561--34777716 Score: 235
Period size: 57 Copynumber: 2.7 Consensus size: 57
34777551 TGGTAAAAAC
* * *
34777561 AAAAACAAAAATAAAGGTCAAATTTTGCAGTCA-TTTTTGAATAAGCTTATAAAGGTG
1 AAAAAC-AAAATAAAGGTCAAATTTTGCAATCACATTTTGAATAAACTTATAAAGGTG
*
34777618 AAAAACAAAATAAAGG-CAAAATTTTGCAATCACATTTTGAATAAACTTATAATGGTG
1 AAAAACAAAATAAAGGTC-AAATTTTGCAATCACATTTTGAATAAACTTATAAAGGTG
*
34777675 AAAAACAAAATAAAGGTCAAATTTTGCAACCACATTTTGAAT
1 AAAAACAAAATAAAGGTCAAATTTTGCAATCACATTTTGAAT
34777717 TTTAAGGTTG
Statistics
Matches: 91, Mismatches: 5, Indels: 6
0.89 0.05 0.06
Matches are distributed among these distances:
55 1 0.01
56 23 0.25
57 66 0.73
58 1 0.01
ACGTcount: A:0.48, C:0.11, G:0.13, T:0.28
Consensus pattern (57 bp):
AAAAACAAAATAAAGGTCAAATTTTGCAATCACATTTTGAATAAACTTATAAAGGTG
Found at i:34779296 original size:21 final size:21
Alignment explanation
Indices: 34779270--34779309 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
34779260 AAGCTCCTTT
34779270 AAATAATATA-AAATAATTTAA
1 AAATAA-ATACAAATAATTTAA
*
34779291 AAATAAATACTAATAATTT
1 AAATAAATACAAATAATTT
34779310 TATTTAAATA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 3 0.18
21 14 0.82
ACGTcount: A:0.62, C:0.03, G:0.00, T:0.35
Consensus pattern (21 bp):
AAATAAATACAAATAATTTAA
Found at i:34780709 original size:18 final size:18
Alignment explanation
Indices: 34780686--34780722 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
34780676 CTTGCCGGAA
34780686 AATGAATTATAAAAAATG
1 AATGAATTATAAAAAATG
*
34780704 AATGAATTATAGAAAATG
1 AATGAATTATAAAAAATG
34780722 A
1 A
34780723 CTTACTTTTC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.59, C:0.00, G:0.14, T:0.27
Consensus pattern (18 bp):
AATGAATTATAAAAAATG
Found at i:34780973 original size:16 final size:16
Alignment explanation
Indices: 34780954--34781004 Score: 50
Period size: 16 Copynumber: 3.1 Consensus size: 16
34780944 TTTTATTTGG
34780954 TTTATATATTATATTA
1 TTTATATATTATATTA
**
34780970 TTTATATCA-TATAAAA
1 TTTATAT-ATTATATTA
34780986 TTTCAATATATTATATTA
1 TTT--ATATATTATATTA
34781004 T
1 T
34781005 AATATAAATA
Statistics
Matches: 27, Mismatches: 4, Indels: 6
0.73 0.11 0.16
Matches are distributed among these distances:
16 15 0.56
17 2 0.07
18 10 0.37
ACGTcount: A:0.41, C:0.04, G:0.00, T:0.55
Consensus pattern (16 bp):
TTTATATATTATATTA
Found at i:34781080 original size:16 final size:17
Alignment explanation
Indices: 34781043--34781084 Score: 59
Period size: 17 Copynumber: 2.5 Consensus size: 17
34781033 TTATATTTAG
*
34781043 AAATTTAATAGAAGTAA
1 AAATATAATAGAAGTAA
*
34781060 AAATATAATAGTAGT-A
1 AAATATAATAGAAGTAA
34781076 AAATATAAT
1 AAATATAAT
34781085 TAGGTATTTT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
16 10 0.43
17 13 0.57
ACGTcount: A:0.60, C:0.00, G:0.10, T:0.31
Consensus pattern (17 bp):
AAATATAATAGAAGTAA
Found at i:34782252 original size:31 final size:31
Alignment explanation
Indices: 34782192--34782255 Score: 78
Period size: 31 Copynumber: 2.1 Consensus size: 31
34782182 TTTTGGGATC
*
34782192 AAGTTTTAAGGAGATTTAGTAAAGTTTTTAA
1 AAGTTTTAAGGAGATTTAATAAAGTTTTTAA
*
34782223 AAGTTTT-AGGAG-TTTAATGAAATTGTTTTAA
1 AAGTTTTAAGGAGATTTAAT-AAAGT-TTTTAA
34782254 AA
1 AA
34782256 AAATGTTGGG
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
29 5 0.17
30 9 0.31
31 15 0.52
ACGTcount: A:0.39, C:0.00, G:0.19, T:0.42
Consensus pattern (31 bp):
AAGTTTTAAGGAGATTTAATAAAGTTTTTAA
Found at i:34783161 original size:3 final size:3
Alignment explanation
Indices: 34783153--34783192 Score: 80
Period size: 3 Copynumber: 13.3 Consensus size: 3
34783143 ATCTCAACTA
34783153 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
34783193 TAACCAATGT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 37 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:34785927 original size:6 final size:6
Alignment explanation
Indices: 34785916--34785940 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
34785906 ATAAATTCTC
34785916 TTCATT TTCATT TTCATT TTCATT T
1 TTCATT TTCATT TTCATT TTCATT T
34785941 ATGGAAACCT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.16, C:0.16, G:0.00, T:0.68
Consensus pattern (6 bp):
TTCATT
Found at i:34787288 original size:20 final size:19
Alignment explanation
Indices: 34787249--34787288 Score: 62
Period size: 19 Copynumber: 2.1 Consensus size: 19
34787239 TAAAAATAAA
*
34787249 AAAATAAAAAAAGTATTTT
1 AAAATAAAAAAAATATTTT
34787268 AAAATAAAAAAAATATATTT
1 AAAATAAAAAAAATAT-TTT
34787288 A
1 A
34787289 TCATATTCGG
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 15 0.79
20 4 0.21
ACGTcount: A:0.68, C:0.00, G:0.03, T:0.30
Consensus pattern (19 bp):
AAAATAAAAAAAATATTTT
Found at i:34787948 original size:16 final size:16
Alignment explanation
Indices: 34787927--34787978 Score: 77
Period size: 16 Copynumber: 3.2 Consensus size: 16
34787917 TTTGGTTCGC
*
34787927 TGTATTGGATTAGATG
1 TGTATTGGATTAGAGG
34787943 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
* *
34787959 TGTAATGGAATAGAGG
1 TGTATTGGATTAGAGG
34787975 TGTA
1 TGTA
34787979 ATAGCAAATC
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 33 1.00
ACGTcount: A:0.29, C:0.00, G:0.35, T:0.37
Consensus pattern (16 bp):
TGTATTGGATTAGAGG
Found at i:34788064 original size:39 final size:43
Alignment explanation
Indices: 34787959--34788068 Score: 129
Period size: 45 Copynumber: 2.6 Consensus size: 43
34787949 GGATTAGAGG
34787959 TGTAATGGAATAGAGGTGTAATAGCAAATCAACTGTTTGGTTGAA
1 TGTAATGGAATAGAGGTGTAATAGCAAATCAACTGTTTGGTT--A
* * ***
34788004 TGTAATGGAATAGAGGCGTAATAG-TAATCTTGTGTTTGG-T-
1 TGTAATGGAATAGAGGTGTAATAGCAAATCAACTGTTTGGTTA
34788044 TG-AATGGAATAGAGGTGTAATAGCA
1 TGTAATGGAATAGAGGTGTAATAGCA
34788069 TAATGGAAAA
Statistics
Matches: 57, Mismatches: 7, Indels: 7
0.80 0.10 0.10
Matches are distributed among these distances:
39 20 0.35
40 2 0.04
43 1 0.02
44 11 0.19
45 23 0.40
ACGTcount: A:0.34, C:0.05, G:0.29, T:0.32
Consensus pattern (43 bp):
TGTAATGGAATAGAGGTGTAATAGCAAATCAACTGTTTGGTTA
Found at i:34788347 original size:137 final size:137
Alignment explanation
Indices: 34788101--34790249 Score: 4255
Period size: 137 Copynumber: 15.7 Consensus size: 137
34788091 TAGAATACCC
34788101 TAACAAAAGATGGATATAACACTAACTACAAAAGTAATTTAACAATATCATGTGGTAACAAGTTC
1 TAACAAAAGATGGATATAACACTAACTACAAAAGTAATTTAACAATATCATGTGGTAACAAGTTC
34788166 ACCTGAAAGTGAGATATGAAAGATATGCCCAAATGAAATCATTTATGGCATGAGTTACATTCAAA
66 ACCTGAAAGTGAGATATGAAAGATATGCCCAAATGAAATCATTTATGGCATGAGTTACATTCAAA
34788231 ATAACAA
131 ATAACAA
34788238 TAACAAAAGATGGATATAACACTAACTACAAAAGTAATTTAACAATATCATGTGGTAACAAGTTC
1 TAACAAAAGATGGATATAACACTAACTACAAAAGTAATTTAACAATATCATGTGGTAACAAGTTC
34788303 ACCTGAAAGTGAGATATGAAAGATATGCCCAAATGAAATCATTTATGGCATGAGTTACATTCAAA
66 ACCTGAAAGTGAGATATGAAAGATATGCCCAAATGAAATCATTTATGGCATGAGTTACATTCAAA
34788368 ATAACAA
131 ATAACAA
34788375 TAACAAAAGATGGATATAACACTAACTACAAAAGTAATTTAACAATATCATGTGGTAACAAGTTC
1 TAACAAAAGATGGATATAACACTAACTACAAAAGTAATTTAACAATATCATGTGGTAACAAGTTC
34788440 ACCTGAAAGTGAGATATGAAAGATATGCCCAAATGAAATCATTTATGGCATGAGTTACATTCAAA
66 ACCTGAAAGTGAGATATGAAAGATATGCCCAAATGAAATCATTTATGGCATGAGTTACATTCAAA
34788505 ATAACAA
131 ATAACAA
34788512 TAACAAAAGATGGATATAACACTAACTACAAAAGTAATTTAACAATATCATGTGGTAACAAGTTC
1 TAACAAAAGATGGATATAACACTAACTACAAAAGTAATTTAACAATATCATGTGGTAACAAGTTC
34788577 ACCTGAAAGTGAGATATGAAAGATATGCCCAAATGAAATCATTTATGGCATGAGTTACATTCAAA
66 ACCTGAAAGTGAGATATGAAAGATATGCCCAAATGAAATCATTTATGGCATGAGTTACATTCAAA
34788642 ATAACAA
131 ATAACAA
34788649 TAACAAAAGATGGATATAACACTAACTACAAAAGTAATTTAACAATATCATGTGGTAACAAGTTC
1 TAACAAAAGATGGATATAACACTAACTACAAAAGTAATTTAACAATATCATGTGGTAACAAGTTC
34788714 ACCTGAAAGTGAGATATGAAAGATATGCCCAAATGAAATCATTTATGGCATGAGTTACATTCAAA
66 ACCTGAAAGTGAGATATGAAAGATATGCCCAAATGAAATCATTTATGGCATGAGTTACATTCAAA
34788779 ATAACAA
131 ATAACAA
34788786 TAACAAAAGATGGATATAACACTAACTACAAAAGTAATTTAACAATATCATGTGGTAACAAGTTC
1 TAACAAAAGATGGATATAACACTAACTACAAAAGTAATTTAACAATATCATGTGGTAACAAGTTC
34788851 ACCTGAAAGTGAGATATGAAAGATATGCCCAAATGAAATCATTTATGGCATGAGTTACATTCAAA
66 ACCTGAAAGTGAGATATGAAAGATATGCCCAAATGAAATCATTTATGGCATGAGTTACATTCAAA
34788916 ATAACAA
131 ATAACAA
34788923 TAACAAAAGATGGATATAACACTAACTACAAAAGTAATTTAACAATATCATGTGGTAACAAGTTC
1 TAACAAAAGATGGATATAACACTAACTACAAAAGTAATTTAACAATATCATGTGGTAACAAGTTC
34788988 ACCTGAAAGTGAGATATGAAAGATATGCCCAAATGAAATCATTTATGGCATGAGTTACATTCAAA
66 ACCTGAAAGTGAGATATGAAAGATATGCCCAAATGAAATCATTTATGGCATGAGTTACATTCAAA
34789053 ATAACAA
131 ATAACAA
34789060 TAACAAAAGATGGATATAACACTAACTACAAAAGTAATTTAACAATATCATGTGGTAACAAGTTC
1 TAACAAAAGATGGATATAACACTAACTACAAAAGTAATTTAACAATATCATGTGGTAACAAGTTC
34789125 ACCTGAAAGTGAGATATGAAAGATATGCCCAAATGAAATCATTTATGGCATGAGTTACATTCAAA
66 ACCTGAAAGTGAGATATGAAAGATATGCCCAAATGAAATCATTTATGGCATGAGTTACATTCAAA
34789190 ATAACAA
131 ATAACAA
34789197 TAACAAAAGATGGATATAACACTAACTACAAAAGTAATTTAACAATATCATGTGGTAACAAGTTC
1 TAACAAAAGATGGATATAACACTAACTACAAAAGTAATTTAACAATATCATGTGGTAACAAGTTC
34789262 ACCTGAAAGTGAGATATGAAAGATATGCCCAAATGAAATCATTTATGGCATGAGTTACATTCAAA
66 ACCTGAAAGTGAGATATGAAAGATATGCCCAAATGAAATCATTTATGGCATGAGTTACATTCAAA
34789327 ATAACAA
131 ATAACAA
34789334 TAACAAAAGATGGATATAACACTAACTACAAAAGTAATTTAACAATATCATGTGGTAACAAGTTC
1 TAACAAAAGATGGATATAACACTAACTACAAAAGTAATTTAACAATATCATGTGGTAACAAGTTC
34789399 ACCTGAAAGTGAGATATGAAAGATATGCCCAAATGAAATCATTTATGGCATGAGTTACATTCAAA
66 ACCTGAAAGTGAGATATGAAAGATATGCCCAAATGAAATCATTTATGGCATGAGTTACATTCAAA
34789464 ATAACAA
131 ATAACAA
34789471 TAACAAAAGATGGATATAACACTAACTACAAAAGTAATTTAACAATATCATGTGGTAACAAGTTC
1 TAACAAAAGATGGATATAACACTAACTACAAAAGTAATTTAACAATATCATGTGGTAACAAGTTC
34789536 ACCTGAAAGTGAGATATGAAAGATATGCCCAAATGAAATCATTTATGGCATGAGTTACATTCAAA
66 ACCTGAAAGTGAGATATGAAAGATATGCCCAAATGAAATCATTTATGGCATGAGTTACATTCAAA
34789601 ATAACAA
131 ATAACAA
34789608 TAACAAAAGATGGATATAACACTAACTACAAAAGTAATTTAACAATATCATGTGGTAACAAGTTC
1 TAACAAAAGATGGATATAACACTAACTACAAAAGTAATTTAACAATATCATGTGGTAACAAGTTC
34789673 ACCTGAAAGTGAGATATGAAAGATATGCCCAAATGAAATCATTTATGGCATGAGTTACATTCAAA
66 ACCTGAAAGTGAGATATGAAAGATATGCCCAAATGAAATCATTTATGGCATGAGTTACATTCAAA
34789738 ATAACAA
131 ATAACAA
34789745 TAACAAAAGATGGATATAACACTAACTACAAAAGTAATTTAACAATATCATGTGGTAACAAGTTC
1 TAACAAAAGATGGATATAACACTAACTACAAAAGTAATTTAACAATATCATGTGGTAACAAGTTC
34789810 ACCTGAAAGTGAGATATGAAAGATATGCCCAAATGAAATCATTTATGGCATGAGTTACATTCAAA
66 ACCTGAAAGTGAGATATGAAAGATATGCCCAAATGAAATCATTTATGGCATGAGTTACATTCAAA
34789875 ATAACAA
131 ATAACAA
34789882 TAACAAAAGATGGATATAACACTAACTACAAAAGTAATTTAACAATATCATGTGGTAACAAGTTC
1 TAACAAAAGATGGATATAACACTAACTACAAAAGTAATTTAACAATATCATGTGGTAACAAGTTC
34789947 ACCTGAAAGTGAGATATGAAAGATATGCCCAAATGAAATCATTTATGGCATGAGTTACATTCAAA
66 ACCTGAAAGTGAGATATGAAAGATATGCCCAAATGAAATCATTTATGGCATGAGTTACATTCAAA
34790012 ATAACAA
131 ATAACAA
34790019 TAACAAAAGATGGATATAACACTAACTACAAAAGTAATTTAACAATATCATGTGGTAACAAGTTC
1 TAACAAAAGATGGATATAACACTAACTACAAAAGTAATTTAACAATATCATGTGGTAACAAGTTC
34790084 ACCTGAAAGTGAGATATGAAAGATATGCCCAAATGAAATCATTTATGGCATGAGTTACATTCAAA
66 ACCTGAAAGTGAGATATGAAAGATATGCCCAAATGAAATCATTTATGGCATGAGTTACATTCAAA
34790149 ATAACAA
131 ATAACAA
*
34790156 TAACAAAAGATGGATATAACACTAACTACAAAAGTAATTTAACAATATCATGTAGTAACAAGTTC
1 TAACAAAAGATGGATATAACACTAACTACAAAAGTAATTTAACAATATCATGTGGTAACAAGTTC
* *
34790221 ACATGAAAGTGCA-ATATGAAAGACATGCC
66 ACCTGAAAGTG-AGATATGAAAGATATGCC
34790250 ATTTTCTGAA
Statistics
Matches: 2008, Mismatches: 3, Indels: 2
1.00 0.00 0.00
Matches are distributed among these distances:
137 2007 1.00
138 1 0.00
ACGTcount: A:0.46, C:0.14, G:0.15, T:0.25
Consensus pattern (137 bp):
TAACAAAAGATGGATATAACACTAACTACAAAAGTAATTTAACAATATCATGTGGTAACAAGTTC
ACCTGAAAGTGAGATATGAAAGATATGCCCAAATGAAATCATTTATGGCATGAGTTACATTCAAA
ATAACAA
Found at i:34792267 original size:21 final size:21
Alignment explanation
Indices: 34792243--34792284 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
34792233 AAGTCCTACC
*
34792243 CCTATCTTCTACACACTATCT
1 CCTATCCTCTACACACTATCT
34792264 CCTATCCTCTACACACTATCT
1 CCTATCCTCTACACACTATCT
34792285 TCGACCATCC
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:0.24, C:0.40, G:0.00, T:0.36
Consensus pattern (21 bp):
CCTATCCTCTACACACTATCT
Found at i:34792471 original size:17 final size:18
Alignment explanation
Indices: 34792428--34792473 Score: 58
Period size: 18 Copynumber: 2.6 Consensus size: 18
34792418 ATCACTTTCT
*
34792428 CCACATATACAAATCTCA
1 CCACATATACAAATCACA
*
34792446 CCCCATATACAAAT-ACA
1 CCACATATACAAATCACA
*
34792463 TCACATATACA
1 CCACATATACA
34792474 GATATAACAA
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
17 11 0.46
18 13 0.54
ACGTcount: A:0.46, C:0.33, G:0.00, T:0.22
Consensus pattern (18 bp):
CCACATATACAAATCACA
Found at i:34807425 original size:45 final size:45
Alignment explanation
Indices: 34807357--34807444 Score: 131
Period size: 45 Copynumber: 2.0 Consensus size: 45
34807347 GGATCAGTAG
* **
34807357 CTTCAGTCTGTTCCATTGCAACTTCAGGGAGATAAGACTTGTATT
1 CTTCAGTCTGTTCCACTGCAACTTCAGAAAGATAAGACTTGTATT
* *
34807402 CTTCAGTCTGTTCCACTGTAACTTCAGAAAGATATGACTTGTA
1 CTTCAGTCTGTTCCACTGCAACTTCAGAAAGATAAGACTTGTA
34807445 GCTTCAATCC
Statistics
Matches: 38, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
45 38 1.00
ACGTcount: A:0.26, C:0.20, G:0.18, T:0.35
Consensus pattern (45 bp):
CTTCAGTCTGTTCCACTGCAACTTCAGAAAGATAAGACTTGTATT
Found at i:34808036 original size:88 final size:88
Alignment explanation
Indices: 34807955--34808124 Score: 198
Period size: 88 Copynumber: 1.9 Consensus size: 88
34807945 GATAAGATTC
** * * * *
34807955 ACCGTCTTTAATCTGCTCCACT-ACTTTTTAGGGAGATAGGATCTACAATCTTCAACCTACTCCA
1 ACCGTCTTTAATCTGCTCCACTGACAGTATAGGAAGACAAGATCTACAATCTTCAACCTACTCCA
*
34808019 TTACTGCTCAAGGAGATAAGACA
66 CTACTGCTCAAGGAGATAAGACA
** * * * * *
34808042 AGTGTTTTTGATCTGCTTCACTGCCAGTATAGGAAGACAAGATCTACAATCTTTAACCTACTCCA
1 ACCGTCTTTAATCTGCTCCACTGACAGTATAGGAAGACAAGATCTACAATCTTCAACCTACTCCA
*
34808107 CTACTGCTCAGGGAGATA
66 CTACTGCTCAAGGAGATA
34808125 GGACTGGTGG
Statistics
Matches: 67, Mismatches: 15, Indels: 1
0.81 0.18 0.01
Matches are distributed among these distances:
87 17 0.25
88 50 0.75
ACGTcount: A:0.29, C:0.24, G:0.16, T:0.30
Consensus pattern (88 bp):
ACCGTCTTTAATCTGCTCCACTGACAGTATAGGAAGACAAGATCTACAATCTTCAACCTACTCCA
CTACTGCTCAAGGAGATAAGACA
Found at i:34808172 original size:88 final size:88
Alignment explanation
Indices: 34807983--34808172 Score: 202
Period size: 88 Copynumber: 2.2 Consensus size: 88
34807973 CACTACTTTT
* * * **
34807983 TAGGGAGATAGGATCTACAATCTTCAACCTACTCCATTACTGCTCAAGGAGATAAGACAAGTGTT
1 TAGGAAGATAAGATCTACAATCTTCAACCTACTCCACTACTGCTCAAGGAGATAAGACAAGTGGC
** * *
34808048 TTTGATCTGCTTCACTGCCAGTA
66 TTAAATCTGCTTCACTACCACTA
* * * * **
34808071 TAGGAAGACAAGATCTACAATCTTTAACCTACTCCACTACTGCTCAGGGAGATAGGACTGGTGGC
1 TAGGAAGATAAGATCTACAATCTTCAACCTACTCCACTACTGCTCAAGGAGATAAGACAAGTGGC
* *
34808136 TTAAATCTGCTTCCCTACTACCT-
66 TTAAATCTGCTTCACTACCA-CTA
*
34808159 TGGGAAGATAAGAT
1 TAGGAAGATAAGAT
34808173 TCATAGTCTT
Statistics
Matches: 82, Mismatches: 19, Indels: 2
0.80 0.18 0.02
Matches are distributed among these distances:
88 81 0.99
89 1 0.01
ACGTcount: A:0.30, C:0.22, G:0.20, T:0.28
Consensus pattern (88 bp):
TAGGAAGATAAGATCTACAATCTTCAACCTACTCCACTACTGCTCAAGGAGATAAGACAAGTGGC
TTAAATCTGCTTCACTACCACTA
Found at i:34808569 original size:132 final size:131
Alignment explanation
Indices: 34808071--34808526 Score: 615
Period size: 132 Copynumber: 3.5 Consensus size: 131
34808061 ACTGCCAGTA
* * *
34808071 TAGGAAGACAAGATCTACAATCTTTAACCTACTCCACTACTGCTCAGGGAGATAGGACTGGTGGC
1 TAGGGAGACAAGATCTACAATCTTCAACCTACTCCACTACTGCTCAGGGAGATAGGACTAGTGGC
* * * * *
34808136 TTAAATCTGCTTCCCTACTACCTTGGGAAGATAAGATTCATAGTCTTTGATATGCTCCACTACTA
66 TTAAATCTGCTTCACTACCACCTTGGGAAGATAAGATTCCT-GTCTTTGATCTGCTCCACTACTG
34808201 CT
130 CT
* * * *
34808203 TAGGGAGACATGATATACAAATCTTCAACCTACTCCACTGCTGCTCAGGGAGATATGACTAGTGG
1 TAGGGAGACAAGATCTAC-AATCTTCAACCTACTCCACTACTGCTCAGGGAGATAGGACTAGTGG
* ** * *
34808268 CTTAAATCTGCTTCCCTACTGCCTTGGGAAGATAAGATTCACCGTCTTTGATCTGTTCCACTACT
65 CTTAAATCTGCTTCACTACCACCTTGGGAAGATAAGATTC-CTGTCTTTGATCTGCTCCACTACT
*
34808333 GTT
129 GCT
* * * * *
34808336 TAGAGAGACAAGATCTGCAATCTTTAACCTACTCCACTGCTGCTTAGGGAGATAGGACTAGTGGC
1 TAGGGAGACAAGATCTACAATCTTCAACCTACTCCACTACTGCTCAGGGAGATAGGACTAGTGGC
* * *
34808401 TTAAATCTGCTTCCCTACTACCTTGGGAAGATAAGATTCGCTGTCTTTGATCTACTCCACTACTG
66 TTAAATCTGCTTCACTACCACCTTGGGAAGATAAGATTC-CTGTCTTTGATCTGCTCCACTACTG
34808466 CT
130 CT
* * *
34808468 TAGGGAGACAGGATCTACAATCTTCAACTTACTCCACCACTGCTCAGGGAGATAGGACT
1 TAGGGAGACAAGATCTACAATCTTCAACCTACTCCACTACTGCTCAGGGAGATAGGACT
34808527 GGTGCTTTCG
Statistics
Matches: 287, Mismatches: 35, Indels: 4
0.88 0.11 0.01
Matches are distributed among these distances:
132 171 0.60
133 116 0.40
ACGTcount: A:0.27, C:0.24, G:0.20, T:0.29
Consensus pattern (131 bp):
TAGGGAGACAAGATCTACAATCTTCAACCTACTCCACTACTGCTCAGGGAGATAGGACTAGTGGC
TTAAATCTGCTTCACTACCACCTTGGGAAGATAAGATTCCTGTCTTTGATCTGCTCCACTACTGC
T
Found at i:34808918 original size:24 final size:24
Alignment explanation
Indices: 34808885--34808942 Score: 62
Period size: 24 Copynumber: 2.4 Consensus size: 24
34808875 CGGATTGCCC
* * *
34808885 CCACTCTAATCTTCAAGGTTCGAT
1 CCACTGTAATCTTCAAAGTTCAAT
* *
34808909 CCACTGTAATTTTTAAAGTTCAAT
1 CCACTGTAATCTTCAAAGTTCAAT
*
34808933 CAACTGTAAT
1 CCACTGTAAT
34808943 TTTGGGACAT
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.31, C:0.22, G:0.10, T:0.36
Consensus pattern (24 bp):
CCACTGTAATCTTCAAAGTTCAAT
Found at i:34817573 original size:24 final size:24
Alignment explanation
Indices: 34817516--34817573 Score: 73
Period size: 24 Copynumber: 2.4 Consensus size: 24
34817506 GTGACCCATG
* *
34817516 TAACGGGAAACTCTAGGGAGCCAA
1 TAACGGGAAGCTCTAGCGAGCCAA
*
34817540 TAGCGGGAAGCTCATA-CGAGCCAA
1 TAACGGGAAGCTC-TAGCGAGCCAA
34817564 TAACGGGAAG
1 TAACGGGAAG
34817574 TTCAGGCGAC
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
24 27 0.93
25 2 0.07
ACGTcount: A:0.36, C:0.21, G:0.31, T:0.12
Consensus pattern (24 bp):
TAACGGGAAGCTCTAGCGAGCCAA
Found at i:34817587 original size:24 final size:24
Alignment explanation
Indices: 34817536--34817589 Score: 63
Period size: 24 Copynumber: 2.2 Consensus size: 24
34817526 CTCTAGGGAG
* * *
34817536 CCAATAGCGGGAAGCTCATACGAG
1 CCAATAACGGGAAGCTCAGACGAC
* *
34817560 CCAATAACGGGAAGTTCAGGCGAC
1 CCAATAACGGGAAGCTCAGACGAC
34817584 CCAATA
1 CCAATA
34817590 TCCGAGAGCT
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.35, C:0.26, G:0.26, T:0.13
Consensus pattern (24 bp):
CCAATAACGGGAAGCTCAGACGAC
Found at i:34825341 original size:25 final size:25
Alignment explanation
Indices: 34825312--34825379 Score: 75
Period size: 25 Copynumber: 2.8 Consensus size: 25
34825302 AGCCCTCTTT
* *
34825312 CGAGCCATATAACGGGAATCTCATG
1 CGAGCCATATAACGGGAAGCTCATA
* * *
34825337 TGAGCCATGTAATGGGAAGCTCATA
1 CGAGCCATATAACGGGAAGCTCATA
*
34825362 CGAGCCA-ATAACGAGAAG
1 CGAGCCATATAACGGGAAG
34825380 TTCAAGTGAA
Statistics
Matches: 34, Mismatches: 9, Indels: 1
0.77 0.20 0.02
Matches are distributed among these distances:
24 8 0.24
25 26 0.76
ACGTcount: A:0.35, C:0.21, G:0.26, T:0.18
Consensus pattern (25 bp):
CGAGCCATATAACGGGAAGCTCATA
Found at i:34827257 original size:19 final size:17
Alignment explanation
Indices: 34827213--34827258 Score: 56
Period size: 18 Copynumber: 2.5 Consensus size: 17
34827203 GTATCGTTCG
34827213 TTTCCGAAACATTATTCA
1 TTTCC-AAACATTATTCA
*
34827231 TTTACAAATCATTATTCAA
1 TTTCCAAA-CATTATTC-A
34827250 TTTCCAAAC
1 TTTCCAAAC
34827259 GTTTTTTTAT
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
17 3 0.12
18 13 0.54
19 8 0.33
ACGTcount: A:0.37, C:0.22, G:0.02, T:0.39
Consensus pattern (17 bp):
TTTCCAAACATTATTCA
Found at i:34829492 original size:20 final size:20
Alignment explanation
Indices: 34829467--34829517 Score: 84
Period size: 20 Copynumber: 2.5 Consensus size: 20
34829457 CTTAAAATCG
34829467 CTTCCCCACTTCCCACTACA
1 CTTCCCCACTTCCCACTACA
34829487 CTTCCCCACTTCCCACTACA
1 CTTCCCCACTTCCCACTACA
*
34829507 CATCCACCACT
1 CTTCC-CCACT
34829518 CAGAAACCCA
Statistics
Matches: 29, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
20 24 0.83
21 5 0.17
ACGTcount: A:0.22, C:0.55, G:0.00, T:0.24
Consensus pattern (20 bp):
CTTCCCCACTTCCCACTACA
Found at i:34830341 original size:16 final size:17
Alignment explanation
Indices: 34830309--34830347 Score: 62
Period size: 16 Copynumber: 2.4 Consensus size: 17
34830299 TTCCCACCCC
*
34830309 AATATTGTATAAAAAAT
1 AATATTCTATAAAAAAT
34830326 AATATTCTAT-AAAAAT
1 AATATTCTATAAAAAAT
34830342 AATATT
1 AATATT
34830348 TATTTATAAG
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
16 12 0.57
17 9 0.43
ACGTcount: A:0.56, C:0.03, G:0.03, T:0.38
Consensus pattern (17 bp):
AATATTCTATAAAAAAT
Found at i:34833915 original size:27 final size:26
Alignment explanation
Indices: 34833853--34833916 Score: 67
Period size: 29 Copynumber: 2.3 Consensus size: 26
34833843 AATTTACATG
*
34833853 TTAT-AAAAGTATTATAATATATTCT
1 TTATAAAAAGTATTACAATATATTCT
*
34833878 TAGTCTAAAAAAGTATTACAATATATTCAT
1 T--TAT-AAAAAGTATTACAATATATTC-T
34833908 TTATAAAAA
1 TTATAAAAA
34833917 ATTATGGCCA
Statistics
Matches: 31, Mismatches: 3, Indels: 8
0.74 0.07 0.19
Matches are distributed among these distances:
25 1 0.03
27 7 0.23
28 2 0.06
29 19 0.61
30 2 0.06
ACGTcount: A:0.48, C:0.06, G:0.05, T:0.41
Consensus pattern (26 bp):
TTATAAAAAGTATTACAATATATTCT
Found at i:34838235 original size:48 final size:46
Alignment explanation
Indices: 34838177--34838293 Score: 171
Period size: 48 Copynumber: 2.5 Consensus size: 46
34838167 ATAGTTCCTA
34838177 GTTACTCGTTTGGGTTAAACCTACATGAATAATGAATAATAGTGTCTG
1 GTTACTCGTTTGGGTTAAACCTACATGAATAATGAAT-A-AGTGTCTG
* *
34838225 GTTACCCGTTTGGGTTAAACCTACATGATTAATGAATAAGTGTCTG
1 GTTACTCGTTTGGGTTAAACCTACATGAATAATGAATAAGTGTCTG
* * *
34838271 GTGACTTGTTTAGGTTAAACCTA
1 GTTACTCGTTTGGGTTAAACCTA
34838294 AACCCTAAAA
Statistics
Matches: 63, Mismatches: 6, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
46 27 0.43
47 1 0.02
48 35 0.56
ACGTcount: A:0.29, C:0.14, G:0.21, T:0.36
Consensus pattern (46 bp):
GTTACTCGTTTGGGTTAAACCTACATGAATAATGAATAAGTGTCTG
Found at i:34840729 original size:21 final size:21
Alignment explanation
Indices: 34840702--34840744 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
34840692 TGGGGTTGAA
*
34840702 ATTTTTTTGTTTATTTTATTTT
1 ATTTTTTT-ATTATTTTATTTT
*
34840724 ATTTTTTTATTTTTTTATTTT
1 ATTTTTTTATTATTTTATTTT
34840745 CAAATTCCCA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
21 11 0.58
22 8 0.42
ACGTcount: A:0.14, C:0.00, G:0.02, T:0.84
Consensus pattern (21 bp):
ATTTTTTTATTATTTTATTTT
Found at i:34840733 original size:8 final size:8
Alignment explanation
Indices: 34840706--34840744 Score: 51
Period size: 8 Copynumber: 4.5 Consensus size: 8
34840696 GTTGAAATTT
34840706 TTTTGTTTA
1 TTTT-TTTA
34840715 TTTTATTTTA
1 -TTT-TTTTA
34840725 TTTTTTTA
1 TTTTTTTA
34840733 TTTTTTTA
1 TTTTTTTA
34840741 TTTT
1 TTTT
34840745 CAAATTCCCA
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
8 17 0.61
9 3 0.11
10 7 0.25
11 1 0.04
ACGTcount: A:0.13, C:0.00, G:0.03, T:0.85
Consensus pattern (8 bp):
TTTTTTTA
Found at i:34851698 original size:21 final size:21
Alignment explanation
Indices: 34851656--34851712 Score: 69
Period size: 21 Copynumber: 2.7 Consensus size: 21
34851646 TGGAGGGTCA
* *
34851656 ACACGCCCATGTGGGAGGAGGC
1 ACACGCCCGTGT-GGATGAGGC
* *
34851678 ACATGGCCGTGTGGATGAGGC
1 ACACGCCCGTGTGGATGAGGC
34851699 ACACGCCCGTGTGG
1 ACACGCCCGTGTGG
34851713 GCTAGGGACA
Statistics
Matches: 29, Mismatches: 6, Indels: 1
0.81 0.17 0.03
Matches are distributed among these distances:
21 20 0.69
22 9 0.31
ACGTcount: A:0.19, C:0.26, G:0.40, T:0.14
Consensus pattern (21 bp):
ACACGCCCGTGTGGATGAGGC
Found at i:34852638 original size:21 final size:22
Alignment explanation
Indices: 34852590--34852639 Score: 54
Period size: 20 Copynumber: 2.4 Consensus size: 22
34852580 AGAAAACCAA
34852590 AAATAA-AATAAAATAAACATT
1 AAATAATAATAAAATAAACATT
*
34852611 -AAGAATAAT-AAAT-AACAATT
1 AAATAATAATAAAATAAAC-ATT
34852631 AAATAATAA
1 AAATAATAA
34852640 ACAAAATCTA
Statistics
Matches: 24, Mismatches: 2, Indels: 6
0.75 0.06 0.19
Matches are distributed among these distances:
19 3 0.12
20 11 0.46
21 10 0.42
ACGTcount: A:0.70, C:0.04, G:0.02, T:0.24
Consensus pattern (22 bp):
AAATAATAATAAAATAAACATT
Found at i:34858372 original size:103 final size:104
Alignment explanation
Indices: 34858193--34858404 Score: 401
Period size: 103 Copynumber: 2.0 Consensus size: 104
34858183 ACACTCCATG
34858193 TTAAAAAGAAAATTGCAATTCGGCCCTTGCACATTAAACCACTAAATTTTCATTTTACGCGATTA
1 TTAAAAAGAAAATTGCAATTCGGCCCTTGCACATTAAACCACTAAATTTTCATTTTACGCGATTA
34858258 AGCCATTTTATTAAATCGGACATCTAAA-GATAAAATTT
66 AGCCATTTTATTAAATCGGACATCTAAATGATAAAATTT
34858296 TTAAAAAGACAAA-TGCAATTCGGCCCTTGCACATTAAACCACTAAATTTTCATTTTACGCGATT
1 TTAAAAAGA-AAATTGCAATTCGGCCCTTGCACATTAAACCACTAAATTTTCATTTTACGCGATT
34858360 AAGCCATTTTATTAAATCGGACATCTAAATGATAAAATTT
65 AAGCCATTTTATTAAATCGGACATCTAAATGATAAAATTT
34858400 TTAAA
1 TTAAA
34858405 CGAAATTTTA
Statistics
Matches: 107, Mismatches: 0, Indels: 3
0.97 0.00 0.03
Matches are distributed among these distances:
103 89 0.83
104 18 0.17
ACGTcount: A:0.39, C:0.17, G:0.10, T:0.33
Consensus pattern (104 bp):
TTAAAAAGAAAATTGCAATTCGGCCCTTGCACATTAAACCACTAAATTTTCATTTTACGCGATTA
AGCCATTTTATTAAATCGGACATCTAAATGATAAAATTT
Found at i:34862296 original size:7 final size:7
Alignment explanation
Indices: 34862284--34862337 Score: 108
Period size: 7 Copynumber: 7.7 Consensus size: 7
34862274 GTTTGAAAAT
34862284 TTTATTA
1 TTTATTA
34862291 TTTATTA
1 TTTATTA
34862298 TTTATTA
1 TTTATTA
34862305 TTTATTA
1 TTTATTA
34862312 TTTATTA
1 TTTATTA
34862319 TTTATTA
1 TTTATTA
34862326 TTTATTA
1 TTTATTA
34862333 TTTAT
1 TTTAT
34862338 GAGTTAAATG
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 47 1.00
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (7 bp):
TTTATTA
Found at i:34864864 original size:22 final size:21
Alignment explanation
Indices: 34864821--34864861 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
34864811 GTGTCTCCGA
34864821 TTTTGGAGATTTTGGGAAAAT
1 TTTTGGAGATTTTGGGAAAAT
*
34864842 TTTTTGAGATTTTGGGAAAA
1 TTTTGGAGATTTTGGGAAAA
34864862 ATTCCCTGAG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.29, C:0.00, G:0.27, T:0.44
Consensus pattern (21 bp):
TTTTGGAGATTTTGGGAAAAT
Found at i:34864871 original size:22 final size:21
Alignment explanation
Indices: 34864826--34864871 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
34864816 TCCGATTTTG
***
34864826 GAGATTTTGGGAAAATTTTTT
1 GAGATTTTGGGAAAATTCCCT
34864847 GAGATTTTGGGAAAAATTCCCT
1 GAGATTTTGGG-AAAATTCCCT
34864869 GAG
1 GAG
34864872 TATCCAGTTT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
21 11 0.52
22 10 0.48
ACGTcount: A:0.30, C:0.07, G:0.26, T:0.37
Consensus pattern (21 bp):
GAGATTTTGGGAAAATTCCCT
Found at i:34869187 original size:42 final size:42
Alignment explanation
Indices: 34869141--34869222 Score: 112
Period size: 42 Copynumber: 2.0 Consensus size: 42
34869131 ACGGCCTGTT
* *
34869141 ACACGGCCATGTGTCACAAGTCAGA-GAGTTACACGGTTTGGC
1 ACACGGCCATGTGACACAACTCA-ATGAGTTACACGGTTTGGC
* *
34869183 ACACGGCCGTGTGACCCAACTCAATGAGTTACACGGTTTG
1 ACACGGCCATGTGACACAACTCAATGAGTTACACGGTTTG
34869223 AGACACGAGC
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
41 1 0.03
42 34 0.97
ACGTcount: A:0.26, C:0.26, G:0.27, T:0.22
Consensus pattern (42 bp):
ACACGGCCATGTGACACAACTCAATGAGTTACACGGTTTGGC
Found at i:34871322 original size:92 final size:92
Alignment explanation
Indices: 34871164--34871348 Score: 327
Period size: 92 Copynumber: 2.0 Consensus size: 92
34871154 ACCAAACAAC
*
34871164 ACTTCCATCAACCAACCACCATAAATTTAGTTACCAATCATCATTTTCATGCAAATAGCAACCCA
1 ACTTCCATCAACCAACCACCATAAATTTAGTTACCAATCATCATTTTCATGCAAATAACAACCCA
34871229 ACACATA-TTCAAGTCATACATTAAAAT
66 ACACATACTT-AAGTCATACATTAAAAT
* *
34871256 ACTTCTATCAACCAACCACCATAAATTTAGTTACCAATCATCATTTTCATGCAAATAACAATCCA
1 ACTTCCATCAACCAACCACCATAAATTTAGTTACCAATCATCATTTTCATGCAAATAACAACCCA
34871321 ACACATACTTAAGTCATACATTAAAAT
66 ACACATACTTAAGTCATACATTAAAAT
34871348 A
1 A
34871349 AGCACAATAG
Statistics
Matches: 89, Mismatches: 3, Indels: 2
0.95 0.03 0.02
Matches are distributed among these distances:
92 87 0.98
93 2 0.02
ACGTcount: A:0.42, C:0.26, G:0.04, T:0.28
Consensus pattern (92 bp):
ACTTCCATCAACCAACCACCATAAATTTAGTTACCAATCATCATTTTCATGCAAATAACAACCCA
ACACATACTTAAGTCATACATTAAAAT
Found at i:34874221 original size:2 final size:2
Alignment explanation
Indices: 34874214--34874240 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
34874204 GAATATTATA
34874214 TG TG TG TG TG TG TG TG TG TG TG TG TG T
1 TG TG TG TG TG TG TG TG TG TG TG TG TG T
34874241 TATTATTGGA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.00, C:0.00, G:0.48, T:0.52
Consensus pattern (2 bp):
TG
Found at i:34876201 original size:18 final size:17
Alignment explanation
Indices: 34876160--34876208 Score: 53
Period size: 18 Copynumber: 2.7 Consensus size: 17
34876150 AAAATTATAA
*
34876160 AAAAATATTAATTAAATT
1 AAAAA-ATTAAATAAATT
34876178 ATAAAAATTAAATAATATT
1 A-AAAAATTAAATAA-ATT
*
34876197 AAAAAATAAAAT
1 AAAAAATTAAAT
34876209 TAACCCTTAC
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
18 19 0.70
19 8 0.30
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (17 bp):
AAAAAATTAAATAAATT
Found at i:34877829 original size:37 final size:35
Alignment explanation
Indices: 34877788--34877860 Score: 92
Period size: 37 Copynumber: 2.0 Consensus size: 35
34877778 ATTTTTTGAG
*
34877788 TTTAAAAATGTGAGTTTAATTATTAAGACAATTATTT
1 TTTAAAAATGTAAGTTT-ATTA-TAAGACAATTATTT
* * *
34877825 TTTAAAAATTTAAGTTTATTATAATACTATTATTT
1 TTTAAAAATGTAAGTTTATTATAAGACAATTATTT
34877860 T
1 T
34877861 AGTTATATAA
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
35 13 0.41
36 4 0.12
37 15 0.47
ACGTcount: A:0.40, C:0.03, G:0.07, T:0.51
Consensus pattern (35 bp):
TTTAAAAATGTAAGTTTATTATAAGACAATTATTT
Found at i:34878980 original size:43 final size:43
Alignment explanation
Indices: 34878923--34879149 Score: 276
Period size: 43 Copynumber: 5.3 Consensus size: 43
34878913 TTATGTGAAA
** *
34878923 AAACGCCGCTAAAGATCATGGTCTTTAGCGGCGCTTTTGCCAC
1 AAACGCCGCTAAAGATCATGACCTTTAGCGGCGCTTTTACCAC
* * *
34878966 AAATGCCGCTAAAGATCATGACCTTTAGCGGCGCTTTTACAAA
1 AAACGCCGCTAAAGATCATGACCTTTAGCGGCGCTTTTACCAC
* *
34879009 AAACGCCGCTAAAGATCACGACCTTTAGCGGCGCTTTTA-CAA
1 AAACGCCGCTAAAGATCATGACCTTTAGCGGCGCTTTTACCAC
** * *
34879051 AAACGCCGCTAAAGATCACAAGCTTTAGCGGCGCTTTTTATCAC
1 AAACGCCGCTAAAGATCATGACCTTTAGCGGCGC-TTTTACCAC
* * * * *
34879095 AAACGCCGCTAAAGGTCATGATCTGTAGCGACGCTTTTTGCCAC
1 AAACGCCGCTAAAGATCATGACCTTTAGCGGCGC-TTTTACCAC
34879139 AAACGCCGCTA
1 AAACGCCGCTA
34879150 TAAAACAAGC
Statistics
Matches: 162, Mismatches: 20, Indels: 3
0.88 0.11 0.02
Matches are distributed among these distances:
42 34 0.21
43 79 0.49
44 49 0.30
ACGTcount: A:0.29, C:0.27, G:0.20, T:0.24
Consensus pattern (43 bp):
AAACGCCGCTAAAGATCATGACCTTTAGCGGCGCTTTTACCAC
Found at i:34879015 original size:86 final size:88
Alignment explanation
Indices: 34878901--34879149 Score: 310
Period size: 86 Copynumber: 2.9 Consensus size: 88
34878891 GCGTCACTAA
* * * *
34878901 CTTTAGCGGCG-TTTATGTGAAAAAACGCCGCTAAAGATCATGGTCTTTAGCGGCGCTTTTGCCA
1 CTTTAGCGGCGCTTTTTATCAAAAAACGCCGCTAAAGATCATGATCTTTAGCGGCGCTTTTGCCA
* **
34878965 CAAATGCCGCTAAAGATCATGAC
66 CAAACGCCGCTAAAGATCACAAC
* * *
34878988 CTTTAGCGGCGC-TTTTA-CAAAAAACGCCGCTAAAGATCACGACCTTTAGCGGCGCTTTT-ACA
1 CTTTAGCGGCGCTTTTTATCAAAAAACGCCGCTAAAGATCATGATCTTTAGCGGCGCTTTTGCCA
* *
34879050 AAAACGCCGCTAAAGATCACAAG
66 CAAACGCCGCTAAAGATCACAAC
* * * *
34879073 CTTTAGCGGCGCTTTTTATC-ACAAACGCCGCTAAAGGTCATGATCTGTAGCGACGCTTTTTGCC
1 CTTTAGCGGCGCTTTTTATCAAAAAACGCCGCTAAAGATCATGATCTTTAGCGGCGC-TTTTGCC
34879137 ACAAACGCCGCTA
65 ACAAACGCCGCTA
34879150 TAAAACAAGC
Statistics
Matches: 137, Mismatches: 20, Indels: 9
0.83 0.12 0.05
Matches are distributed among these distances:
85 32 0.23
86 73 0.53
87 19 0.14
88 13 0.09
ACGTcount: A:0.28, C:0.26, G:0.21, T:0.25
Consensus pattern (88 bp):
CTTTAGCGGCGCTTTTTATCAAAAAACGCCGCTAAAGATCATGATCTTTAGCGGCGCTTTTGCCA
CAAACGCCGCTAAAGATCACAAC
Found at i:34879185 original size:86 final size:84
Alignment explanation
Indices: 34878921--34879188 Score: 281
Period size: 86 Copynumber: 3.1 Consensus size: 84
34878911 GTTTATGTGA
* * * *
34878921 AAAAACGCCGCTAAAGATCATGGTCTTTAGCGGCGCTTTTGCCACAAATGCCGCTAAAGATCATG
1 AAAAACGCCGCTAAAGATCATGATCTTTAGCGGCGCTTTTGCCACAAACGCCGCTAAAGAACAAG
*
34878986 ACCTTTAGCGGCGCTTTTACA
66 -CCTTTAGCGGCGCTTTT-CC
* * * *
34879007 AAAAACGCCGCTAAAGATCACGACCTTTAGCGGCGCTTTT-ACAAAAACGCCGCTAAAGATCACA
1 AAAAACGCCGCTAAAGATCATGATCTTTAGCGGCGCTTTTGCCACAAACGCCGCTAAAGA--ACA
*
34879071 AG-CTTTAGCGGCGCTTTTTATC
64 AGCCTTTAGCGGCGC-TTTT-CC
* * * *
34879093 ACAAACGCCGCTAAAGGTCATGATCTGTAGCGACGCTTTTTGCCACAAACGCCGCTATAA-AACA
1 AAAAACGCCGCTAAAGATCATGATCTTTAGCGGCGC-TTTTGCCACAAACGCCGCTA-AAGAACA
* * *
34879157 AGCCTTTAGCGTCACTTCTCGC
64 AGCCTTTAGCGGCGCTTTTC-C
34879179 AAAAACGCCG
1 AAAAACGCCG
34879189 GTTTTTCCAT
Statistics
Matches: 151, Mismatches: 23, Indels: 16
0.79 0.12 0.08
Matches are distributed among these distances:
85 28 0.19
86 90 0.60
87 17 0.11
88 14 0.09
89 2 0.01
ACGTcount: A:0.30, C:0.28, G:0.19, T:0.23
Consensus pattern (84 bp):
AAAAACGCCGCTAAAGATCATGATCTTTAGCGGCGCTTTTGCCACAAACGCCGCTAAAGAACAAG
CCTTTAGCGGCGCTTTTCC
Found at i:34880198 original size:16 final size:16
Alignment explanation
Indices: 34880177--34880207 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
34880167 AGTCCCAAAC
34880177 TATTGTAAACATCAGT
1 TATTGTAAACATCAGT
34880193 TATTGTAAACATCAG
1 TATTGTAAACATCAG
34880208 ATAGGTTACA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.39, C:0.13, G:0.13, T:0.35
Consensus pattern (16 bp):
TATTGTAAACATCAGT
Found at i:34881224 original size:20 final size:21
Alignment explanation
Indices: 34881199--34881237 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
34881189 AAAATTTTAT
*
34881199 TTATTTT-TATTTGTTAAAAA
1 TTATTTTATATATGTTAAAAA
34881219 TTATTTTATATATGTTAAA
1 TTATTTTATATATGTTAAA
34881238 TGAGATATAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 7 0.41
21 10 0.59
ACGTcount: A:0.36, C:0.00, G:0.05, T:0.59
Consensus pattern (21 bp):
TTATTTTATATATGTTAAAAA
Found at i:34883526 original size:41 final size:41
Alignment explanation
Indices: 34883468--34883665 Score: 258
Period size: 41 Copynumber: 4.8 Consensus size: 41
34883458 GAGCATTAGC
34883468 GCATTAGCGGCGCTTTTTCAAAAACGCCGCTAAAGACCC-GA
1 GCATTAGCGGCGCTTTTTCAAAAACGCCGCTAAA-ACCCTGA
* * * *
34883509 TCATTAGTGGCGTTTTTTAAAAAACGCCGCTAAAACCCTGA
1 GCATTAGCGGCGCTTTTTCAAAAACGCCGCTAAAACCCTGA
*
34883550 GCATTAGCGGCGCATTTTCAAAAACGCCGCTAAATA-CCTGA
1 GCATTAGCGGCGCTTTTTCAAAAACGCCGCTAAA-ACCCTGA
* * *
34883591 GCATTAGCGACGC-TTTACAAAAAACGCCGCTAAAACCCTAA
1 GCATTAGCGGCGCTTTTTC-AAAAACGCCGCTAAAACCCTGA
* *
34883632 GCATTAGCGGCGCTTTTTAAAAAACGCCACTAAA
1 GCATTAGCGGCGCTTTTTCAAAAACGCCGCTAAA
34883666 TCCCCGAATA
Statistics
Matches: 136, Mismatches: 16, Indels: 10
0.84 0.10 0.06
Matches are distributed among these distances:
40 9 0.07
41 123 0.90
42 4 0.03
ACGTcount: A:0.33, C:0.26, G:0.18, T:0.22
Consensus pattern (41 bp):
GCATTAGCGGCGCTTTTTCAAAAACGCCGCTAAAACCCTGA
Found at i:34883613 original size:82 final size:82
Alignment explanation
Indices: 34883468--34883842 Score: 321
Period size: 82 Copynumber: 4.5 Consensus size: 82
34883458 GAGCATTAGC
* * * * * **
34883468 GCATTAGCGGCGCTTTTTCAAAAACGCCGCTAAAGACCCGATCATTAGTGGCGTTTTTTAAAAAA
1 GCATTAGCGGCGCTTTTTCAAAAACGCCGCTAAATACCCGAGCATTAGCGACGCTTTACAAAAAA
*
34883533 CGCCGCTAAAACCCTGA
66 CGCCGCTAAAACCCTAA
* *
34883550 GCATTAGCGGCGCATTTTCAAAAACGCCGCTAAATACCTGAGCATTAGCGACGCTTTACAAAAAA
1 GCATTAGCGGCGCTTTTTCAAAAACGCCGCTAAATACCCGAGCATTAGCGACGCTTTACAAAAAA
34883615 CGCCGCTAAAACCCTAA
66 CGCCGCTAAAACCCTAA
* * * * ** *
34883632 GCATTAGCGGCGCTTTTTAAAAAACGCCACTAAATCCCCGAATACCAAAAAAGTGTCGTAGGGC-
1 GCATTAGCGGCGCTTTTTCAAAAACGCCGCTAAATACCCG---AGC--ATTA--G-CG-A-CGCT
******* * *
34883696 TTAGGTTTTTGCGGCGC-----CTCCTGA
56 TTA-CAAAAAACGCCGCTAAAAC-CCTAA
* *
34883720 GCATTAGCGGCGCATTTTCAAAAACGCCGCTAAATACCTGAGCATTAGCGACGCTTTACAAAAAA
1 GCATTAGCGGCGCTTTTTCAAAAACGCCGCTAAATACCCGAGCATTAGCGACGCTTTACAAAAAA
34883785 CGCCGCTAAAACCCTAA
66 CGCCGCTAAAACCCTAA
* * *
34883802 GCATTAGCGGCGCTTTTTAAAAAACGCCACTAAATCCCCGA
1 GCATTAGCGGCGCTTTTTCAAAAACGCCGCTAAATACCCGA
34883843 ATACCAAAAA
Statistics
Matches: 224, Mismatches: 51, Indels: 36
0.72 0.16 0.12
Matches are distributed among these distances:
78 7 0.03
79 4 0.02
80 2 0.01
81 1 0.00
82 147 0.66
83 3 0.01
85 4 0.02
87 3 0.01
88 39 0.17
89 1 0.00
90 2 0.01
91 4 0.02
92 7 0.03
ACGTcount: A:0.32, C:0.27, G:0.19, T:0.22
Consensus pattern (82 bp):
GCATTAGCGGCGCTTTTTCAAAAACGCCGCTAAATACCCGAGCATTAGCGACGCTTTACAAAAAA
CGCCGCTAAAACCCTAA
Found at i:34883743 original size:170 final size:171
Alignment explanation
Indices: 34883545--34883883 Score: 671
Period size: 170 Copynumber: 2.0 Consensus size: 171
34883535 CCGCTAAAAC
34883545 CCTGAGCATTAGCGGCGCATTTTCAAAAACGCCGCTAAATACCTGAGCATTAGCGACGCTTTACA
1 CCTGAGCATTAGCGGCGCATTTTCAAAAACGCCGCTAAATACCTGAGCATTAGCGACGCTTTACA
34883610 AAAAACGCCGCTAAAACCCTAAGCATTAGCGGCGCTTTTTAAAAAACGCCACTAAATCCCCGAAT
66 AAAAACGCCGCTAAAACCCTAAGCATTAGCGGCGCTTTTTAAAAAACGCCACTAAATCCCCGAAT
34883675 ACCAAAAAAGTGTCGTAGGGCTTAGG-TTTTTGCGGCGCCT
131 ACCAAAAAAGTGTCGTAGGGCTTAGGTTTTTTGCGGCGCCT
34883715 CCTGAGCATTAGCGGCGCATTTTCAAAAACGCCGCTAAATACCTGAGCATTAGCGACGCTTTACA
1 CCTGAGCATTAGCGGCGCATTTTCAAAAACGCCGCTAAATACCTGAGCATTAGCGACGCTTTACA
34883780 AAAAACGCCGCTAAAACCCTAAGCATTAGCGGCGCTTTTTAAAAAACGCCACTAAATCCCCGAAT
66 AAAAACGCCGCTAAAACCCTAAGCATTAGCGGCGCTTTTTAAAAAACGCCACTAAATCCCCGAAT
34883845 ACCAAAAAAGTGTCGTAGGGCTTAGGTTTTTTGCGGCGC
131 ACCAAAAAAGTGTCGTAGGGCTTAGGTTTTTTGCGGCGC
34883884 TTTTTGAAAA
Statistics
Matches: 168, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
170 156 0.93
171 12 0.07
ACGTcount: A:0.31, C:0.26, G:0.20, T:0.22
Consensus pattern (171 bp):
CCTGAGCATTAGCGGCGCATTTTCAAAAACGCCGCTAAATACCTGAGCATTAGCGACGCTTTACA
AAAAACGCCGCTAAAACCCTAAGCATTAGCGGCGCTTTTTAAAAAACGCCACTAAATCCCCGAAT
ACCAAAAAAGTGTCGTAGGGCTTAGGTTTTTTGCGGCGCCT
Found at i:34883784 original size:41 final size:42
Alignment explanation
Indices: 34883715--34883836 Score: 169
Period size: 41 Copynumber: 3.0 Consensus size: 42
34883705 TGCGGCGCCT
34883715 CCTGAGCATTAGCGGCGCATTTTC-AAAAACGCCGCTAAATA-
1 CCTGAGCATTAGCGGCGC-TTTTCAAAAAACGCCGCTAAATAC
* *
34883756 CCTGAGCATTAGCGACGCTTTACAAAAAACGCCGCTAAA-AC
1 CCTGAGCATTAGCGGCGCTTTTCAAAAAACGCCGCTAAATAC
* * *
34883797 CCTAAGCATTAGCGGCGCTTTTTAAAAAACGCCACTAAAT
1 CCTGAGCATTAGCGGCGCTTTTCAAAAAACGCCGCTAAAT
34883837 CCCCGAATAC
Statistics
Matches: 71, Mismatches: 7, Indels: 5
0.86 0.08 0.06
Matches are distributed among these distances:
40 5 0.07
41 66 0.93
ACGTcount: A:0.34, C:0.27, G:0.17, T:0.21
Consensus pattern (42 bp):
CCTGAGCATTAGCGGCGCTTTTCAAAAAACGCCGCTAAATAC
Found at i:34883914 original size:39 final size:40
Alignment explanation
Indices: 34883871--34883966 Score: 117
Period size: 39 Copynumber: 2.4 Consensus size: 40
34883861 AGGGCTTAGG
* *
34883871 TTTTTTGCGGCGCTTTTTGAAAAACGC-CGCTAATGC-TCA
1 TTTTTAGCGGCG-TTTTTCAAAAACGCGCGCTAATGCTTCA
* *
34883910 TTTTTAGCGGCG-TTTTCCAAAACGCGTCGCTAATGCTTGA
1 TTTTTAGCGGCGTTTTTCAAAAACGCG-CGCTAATGCTTCA
34883950 TTTTTAGCGGCGTTTTT
1 TTTTTAGCGGCGTTTTT
34883967 TATCCAAACG
Statistics
Matches: 49, Mismatches: 4, Indels: 6
0.83 0.07 0.10
Matches are distributed among these distances:
37 11 0.22
39 20 0.41
40 14 0.29
41 4 0.08
ACGTcount: A:0.18, C:0.21, G:0.22, T:0.40
Consensus pattern (40 bp):
TTTTTAGCGGCGTTTTTCAAAAACGCGCGCTAATGCTTCA
Found at i:34883960 original size:40 final size:37
Alignment explanation
Indices: 34883891--34883965 Score: 114
Period size: 40 Copynumber: 1.9 Consensus size: 37
34883881 CGCTTTTTGA
34883891 AAAACGCCGCTAATGCTCATTTTTAGCGGCGTTTTCC
1 AAAACGCCGCTAATGCTCATTTTTAGCGGCGTTTTCC
*
34883928 AAAACGCGTCGCTAATGCTTGATTTTTAGCGGCGTTTT
1 AAAACGC--CGCTAATGC-TCATTTTTAGCGGCGTTTT
34883966 TTATCCAAAC
Statistics
Matches: 34, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
37 7 0.21
39 9 0.26
40 18 0.53
ACGTcount: A:0.21, C:0.23, G:0.21, T:0.35
Consensus pattern (37 bp):
AAAACGCCGCTAATGCTCATTTTTAGCGGCGTTTTCC
Found at i:34890488 original size:19 final size:19
Alignment explanation
Indices: 34890466--34890503 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
34890456 TCACTTTCAC
34890466 CCACTGTAATCAAATTTGT
1 CCACTGTAATCAAATTTGT
34890485 CCACTGTAATCAAATTTGT
1 CCACTGTAATCAAATTTGT
34890504 TATTAACTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.32, C:0.21, G:0.11, T:0.37
Consensus pattern (19 bp):
CCACTGTAATCAAATTTGT
Found at i:34897308 original size:19 final size:19
Alignment explanation
Indices: 34897281--34897317 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
34897271 ATGTTTTACT
* *
34897281 TTTAGTTTTTTTATTAATG
1 TTTAATTTTTTCATTAATG
34897300 TTTAATTTTTTCATTAAT
1 TTTAATTTTTTCATTAAT
34897318 ACTAAATTTT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.24, C:0.03, G:0.05, T:0.68
Consensus pattern (19 bp):
TTTAATTTTTTCATTAATG
Found at i:34897442 original size:22 final size:22
Alignment explanation
Indices: 34897412--34897468 Score: 78
Period size: 22 Copynumber: 2.6 Consensus size: 22
34897402 AGTTTTAAAT
*
34897412 TGGGATTAGGTTTGGGTGGTAC
1 TGGGTTTAGGTTTGGGTGGTAC
* *
34897434 TGGGTTTAGGTTTTGTTGGTAC
1 TGGGTTTAGGTTTGGGTGGTAC
*
34897456 TGGGTTTGGGTTT
1 TGGGTTTAGGTTT
34897469 AAATATATAT
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
22 31 1.00
ACGTcount: A:0.09, C:0.04, G:0.42, T:0.46
Consensus pattern (22 bp):
TGGGTTTAGGTTTGGGTGGTAC
Found at i:34897940 original size:31 final size:31
Alignment explanation
Indices: 34897905--34897987 Score: 80
Period size: 31 Copynumber: 2.6 Consensus size: 31
34897895 TATTTAGGTC
34897905 AGGACTAAATTGTCAAATTTC-AAAAAGTACA
1 AGGACTAAATTGTCAAATTTCGAAAAA-TACA
** *
34897936 AGGACTAAAATTAACTAA-TTCGAAAAATACA
1 AGGACT-AAATTGTCAAATTTCGAAAAATACA
*
34897967 AGAACTAAATTGGGTCAAATT
1 AGGACTAAATT--GTCAAATT
34897988 AAAGTATTGG
Statistics
Matches: 40, Mismatches: 7, Indels: 8
0.73 0.13 0.15
Matches are distributed among these distances:
30 5 0.12
31 18 0.45
32 16 0.40
33 1 0.03
ACGTcount: A:0.49, C:0.12, G:0.13, T:0.25
Consensus pattern (31 bp):
AGGACTAAATTGTCAAATTTCGAAAAATACA
Found at i:34898882 original size:13 final size:13
Alignment explanation
Indices: 34898866--34898891 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
34898856 TATTTTGCCC
34898866 TAATTCATTTTTG
1 TAATTCATTTTTG
34898879 TAATTCATTTTTG
1 TAATTCATTTTTG
34898892 GGGAAAATTA
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:0.23, C:0.08, G:0.08, T:0.62
Consensus pattern (13 bp):
TAATTCATTTTTG
Found at i:34899982 original size:19 final size:19
Alignment explanation
Indices: 34899955--34899991 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
34899945 ATGTTTTACT
* *
34899955 TTTAGTTTTTTTATTAATG
1 TTTAATTTTTTCATTAATG
34899974 TTTAATTTTTTCATTAAT
1 TTTAATTTTTTCATTAAT
34899992 ACTAAATTTT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.24, C:0.03, G:0.05, T:0.68
Consensus pattern (19 bp):
TTTAATTTTTTCATTAATG
Found at i:34900116 original size:22 final size:22
Alignment explanation
Indices: 34900086--34900142 Score: 78
Period size: 22 Copynumber: 2.6 Consensus size: 22
34900076 AGTTTTAAAT
*
34900086 TGGGATTAGGTTTGGGTGGTAC
1 TGGGTTTAGGTTTGGGTGGTAC
* *
34900108 TGGGTTTAGGTTTTGTTGGTAC
1 TGGGTTTAGGTTTGGGTGGTAC
*
34900130 TGGGTTTGGGTTT
1 TGGGTTTAGGTTT
34900143 AAATATATAT
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
22 31 1.00
ACGTcount: A:0.09, C:0.04, G:0.42, T:0.46
Consensus pattern (22 bp):
TGGGTTTAGGTTTGGGTGGTAC
Found at i:34900614 original size:31 final size:31
Alignment explanation
Indices: 34900579--34900661 Score: 80
Period size: 31 Copynumber: 2.6 Consensus size: 31
34900569 TATTTAGGTC
34900579 AGGACTAAATTGTCAAATTTC-AAAAAGTACA
1 AGGACTAAATTGTCAAATTTCGAAAAA-TACA
** *
34900610 AGGACTAAAATTAACTAA-TTCGAAAAATACA
1 AGGACT-AAATTGTCAAATTTCGAAAAATACA
*
34900641 AGAACTAAATTGGGTCAAATT
1 AGGACTAAATT--GTCAAATT
34900662 AAAGTATTGG
Statistics
Matches: 40, Mismatches: 7, Indels: 8
0.73 0.13 0.15
Matches are distributed among these distances:
30 5 0.12
31 18 0.45
32 16 0.40
33 1 0.03
ACGTcount: A:0.49, C:0.12, G:0.13, T:0.25
Consensus pattern (31 bp):
AGGACTAAATTGTCAAATTTCGAAAAATACA
Found at i:34901456 original size:134 final size:135
Alignment explanation
Indices: 34901197--34901473 Score: 522
Period size: 134 Copynumber: 2.1 Consensus size: 135
34901187 TATAACTATT
34901197 ATTATATTATATATTATAATAAAAGATACAATATTAACAATTATGGTTAATTTAGTATATAATAC
1 ATTATA-TATATATTATAATAAAAGATACAATATTAACAATTATGGTTAATTTAGTATATAATAC
34901262 ATGCCTATAACTAGTAATACATAAAATATTATTAAAATTTTGATATCTTGATAAAATATTGTTTT
65 ATGCCTATAACTAGTAATACATAAAATATTATTAAAATTTTGATATCTTGATAAAATATTGTTTT
34901327 TA-TAA
130 TATTAA
34901332 ATTATATATATATTATAATAAAAGATACAATATTAACAATTAT-GTGTAATTTAGTATATAATAC
1 ATTATATATATATTATAATAAAAGATACAATATTAACAATTATGGT-TAATTTAGTATATAATAC
34901396 ATGCCTATAACTAGTAATACATAAAATATTATTAAAATTTTGATATCTTGATAAAATATTGTTTT
65 ATGCCTATAACTAGTAATACATAAAATATTATTAAAATTTTGATATCTTGATAAAATATTGTTTT
34901461 TATTAA
130 TATTAA
34901467 ATTATAT
1 ATTATAT
34901474 TTTGAATTGG
Statistics
Matches: 140, Mismatches: 0, Indels: 4
0.97 0.00 0.03
Matches are distributed among these distances:
133 2 0.01
134 122 0.87
135 16 0.11
ACGTcount: A:0.45, C:0.06, G:0.06, T:0.43
Consensus pattern (135 bp):
ATTATATATATATTATAATAAAAGATACAATATTAACAATTATGGTTAATTTAGTATATAATACA
TGCCTATAACTAGTAATACATAAAATATTATTAAAATTTTGATATCTTGATAAAATATTGTTTTT
ATTAA
Found at i:34902422 original size:63 final size:65
Alignment explanation
Indices: 34902342--34902469 Score: 206
Period size: 66 Copynumber: 2.0 Consensus size: 65
34902332 ATAAAAACTC
34902342 TATTATATATAAATTTTACATACATATAT-ATAT-TATTTATCTTTTTTATAAGAGAAATTTAAT
1 TATTATATATAAATTTTACATACATATATAATATATATTTATCTTTTTTATAAGAGAAATTTAAT
* * *
34902405 TATTGTATATAACTTTTACATACATATATAATATAATATTTATCTTTTTTATAAGATAAATTTAA
1 TATTATATATAAATTTTACATACATATATAATAT-ATATTTATCTTTTTTATAAGAGAAATTTAA
34902470 ATTAAGTTGT
Statistics
Matches: 59, Mismatches: 3, Indels: 3
0.91 0.05 0.05
Matches are distributed among these distances:
63 27 0.46
64 4 0.07
66 28 0.47
ACGTcount: A:0.41, C:0.05, G:0.03, T:0.50
Consensus pattern (65 bp):
TATTATATATAAATTTTACATACATATATAATATATATTTATCTTTTTTATAAGAGAAATTTAAT
Found at i:34903066 original size:3 final size:3
Alignment explanation
Indices: 34903058--34903088 Score: 62
Period size: 3 Copynumber: 10.3 Consensus size: 3
34903048 CAGTATATCA
34903058 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
34903089 TCTAGGCATA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:34903363 original size:23 final size:25
Alignment explanation
Indices: 34903323--34903377 Score: 60
Period size: 24 Copynumber: 2.3 Consensus size: 25
34903313 ATAATTTGAA
**
34903323 AAAAAATATAAATTTAAA-AGTTTT
1 AAAAAATATAAAAATAAATAGTTTT
*
34903347 AAAAAATA-AAAAATAAATATTTTT
1 AAAAAATATAAAAATAAATAGTTTT
*
34903371 ATAAAAT
1 AAAAAAT
34903378 TGGAATACCA
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
23 7 0.27
24 19 0.73
ACGTcount: A:0.64, C:0.00, G:0.02, T:0.35
Consensus pattern (25 bp):
AAAAAATATAAAAATAAATAGTTTT
Found at i:34903872 original size:14 final size:14
Alignment explanation
Indices: 34903853--34903891 Score: 53
Period size: 15 Copynumber: 2.8 Consensus size: 14
34903843 CTCAAATTTG
34903853 ATATTTAATTTTTT
1 ATATTTAATTTTTT
34903867 ATATTTTAATTTTTT
1 ATA-TTTAATTTTTT
*
34903882 -TATATAATTT
1 ATATTTAATTT
34903892 AGTACCTCAA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
13 7 0.30
14 5 0.22
15 11 0.48
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (14 bp):
ATATTTAATTTTTT
Found at i:34903876 original size:15 final size:16
Alignment explanation
Indices: 34903856--34903886 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
34903846 AAATTTGATA
34903856 TTTAA-TTTTTTATAT
1 TTTAATTTTTTTATAT
34903871 TTTAATTTTTTTATAT
1 TTTAATTTTTTTATAT
34903887 AATTTAGTAC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 5 0.33
16 10 0.67
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (16 bp):
TTTAATTTTTTTATAT
Found at i:34911147 original size:3 final size:3
Alignment explanation
Indices: 34911139--34911207 Score: 93
Period size: 3 Copynumber: 23.0 Consensus size: 3
34911129 GTATATATAG
* *
34911139 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TGA TAA TGA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
* * *
34911187 TAA CAA CAA CAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA
34911208 CTTAATAACA
Statistics
Matches: 60, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
3 60 1.00
ACGTcount: A:0.64, C:0.04, G:0.03, T:0.29
Consensus pattern (3 bp):
TAA
Found at i:34911561 original size:23 final size:24
Alignment explanation
Indices: 34911531--34911577 Score: 69
Period size: 23 Copynumber: 2.0 Consensus size: 24
34911521 AAATTAAATC
34911531 TCTAAGATTACA-AAATCATATCT
1 TCTAAGATTACATAAATCATATCT
* *
34911554 TCTAAGATTGCATATATCATATCT
1 TCTAAGATTACATAAATCATATCT
34911578 AAGATCATAT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
23 11 0.52
24 10 0.48
ACGTcount: A:0.38, C:0.17, G:0.06, T:0.38
Consensus pattern (24 bp):
TCTAAGATTACATAAATCATATCT
Found at i:34911602 original size:14 final size:12
Alignment explanation
Indices: 34911569--34911594 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
34911559 GATTGCATAT
34911569 ATCATATCTAAG
1 ATCATATCTAAG
34911581 ATCATATCTAAG
1 ATCATATCTAAG
34911593 AT
1 AT
34911595 TGCATATCCT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.42, C:0.15, G:0.08, T:0.35
Consensus pattern (12 bp):
ATCATATCTAAG
Found at i:34911739 original size:15 final size:14
Alignment explanation
Indices: 34911708--34911738 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
34911698 GGATTTAGAC
*
34911708 TTTGTTTTATTATT
1 TTTGGTTTATTATT
34911722 TTTGGTTTATTATT
1 TTTGGTTTATTATT
34911736 TTT
1 TTT
34911739 TTGTGAGCCC
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:0.13, C:0.00, G:0.10, T:0.77
Consensus pattern (14 bp):
TTTGGTTTATTATT
Found at i:34911861 original size:3 final size:3
Alignment explanation
Indices: 34911853--34911905 Score: 106
Period size: 3 Copynumber: 17.7 Consensus size: 3
34911843 CTTGTTTCCT
34911853 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
34911901 TTA TT
1 TTA TT
34911906 TCTATTTTAG
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 50 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:34931908 original size:23 final size:23
Alignment explanation
Indices: 34931848--34931935 Score: 56
Period size: 23 Copynumber: 3.7 Consensus size: 23
34931838 AGAAAAAGTA
34931848 AAATTTTAATATCTATTATAGTT--T
1 AAATTTTAAT-T-T-TTATAGTTGGT
*
34931872 TAATTTTAATATTTT-TCAAGTTGGT
1 AAATTTTAAT-TTTTAT--AGTTGGT
* * *
34931897 AAATTTTAATTTCTATATTTGTT
1 AAATTTTAATTTTTATAGTTGGT
34931920 AAATTTTAATATTTTA
1 AAATTTTAAT-TTTTA
34931936 GTCTTGACTG
Statistics
Matches: 52, Mismatches: 6, Indels: 12
0.74 0.09 0.17
Matches are distributed among these distances:
21 1 0.02
22 2 0.04
23 20 0.38
24 18 0.35
25 11 0.21
ACGTcount: A:0.34, C:0.03, G:0.06, T:0.57
Consensus pattern (23 bp):
AAATTTTAATTTTTATAGTTGGT
Found at i:34933077 original size:23 final size:23
Alignment explanation
Indices: 34933042--34933086 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
34933032 TTTGGTTCTG
34933042 TTTTTTTTCCTTTTAC-TGTTTT
1 TTTTTTTTCCTTTTACTTGTTTT
*
34933064 TTTTTGTTTTCTTTTACTTGTTT
1 TTTTT-TTTCCTTTTACTTGTTT
34933087 CTTAAAATAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
22 5 0.25
23 10 0.50
24 5 0.25
ACGTcount: A:0.04, C:0.11, G:0.07, T:0.78
Consensus pattern (23 bp):
TTTTTTTTCCTTTTACTTGTTTT
Found at i:34933910 original size:17 final size:19
Alignment explanation
Indices: 34933888--34933933 Score: 51
Period size: 18 Copynumber: 2.5 Consensus size: 19
34933878 CATGTATCTG
34933888 TTTTATATATTTTT-T-AT
1 TTTTATATATTTTTATAAT
*
34933905 TTTTATTTTATTTTTATAAT
1 TTTTA-TATATTTTTATAAT
*
34933925 TTTTGTATA
1 TTTTATATA
34933934 CATGTGTATA
Statistics
Matches: 23, Mismatches: 3, Indels: 4
0.77 0.10 0.13
Matches are distributed among these distances:
17 5 0.22
18 8 0.35
19 4 0.17
20 6 0.26
ACGTcount: A:0.24, C:0.00, G:0.02, T:0.74
Consensus pattern (19 bp):
TTTTATATATTTTTATAAT
Found at i:34935050 original size:88 final size:88
Alignment explanation
Indices: 34934892--34935061 Score: 241
Period size: 88 Copynumber: 1.9 Consensus size: 88
34934882 AACCATAAAC
* * * * *
34934892 CCTTATCTCCCTGAGTAGCAGTGGAGTAGGTTGAAAATAGCAGATATTGTCTTCCTGTATTGGTA
1 CCTTATCTCCATGAGCAGCAGTGGAGTAGGTTGAAAATAGCAGATATTGCCTTCCTGTACTGGCA
*
34934957 ACGAAGTAGATCGAAGATATCAG
66 ACGAAGCAGATCGAAGATATCAG
* * *
34934980 CCTTGTCTCCATGAGCAGCAGTGGAGTAGGTTGAAAATGGCAGATATTGCCTTCTTGTACTGGCA
1 CCTTATCTCCATGAGCAGCAGTGGAGTAGGTTGAAAATAGCAGATATTGCCTTCCTGTACTGGCA
* *
34935045 GCGAAGCAGATTGAAGA
66 ACGAAGCAGATCGAAGA
34935062 CACCAGTCTT
Statistics
Matches: 71, Mismatches: 11, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
88 71 1.00
ACGTcount: A:0.28, C:0.17, G:0.27, T:0.28
Consensus pattern (88 bp):
CCTTATCTCCATGAGCAGCAGTGGAGTAGGTTGAAAATAGCAGATATTGCCTTCCTGTACTGGCA
ACGAAGCAGATCGAAGATATCAG
Found at i:34935185 original size:50 final size:50
Alignment explanation
Indices: 34935082--34935185 Score: 111
Period size: 50 Copynumber: 2.1 Consensus size: 50
34935072 ATTGCCTTGA
* * * *
34935082 CGTTGCAGTGGAATAGATTGAAGCCACAACGACGAATCTTACTTTCCTAG
1 CGTTGCAGCGGAACAGATTGAAGCCACAACGACAAATCTTACTTCCCTAG
* ** * *
34935132 CGTTGCAGCGGAGCAGATTGAAGCCATGACGGCAAATCTTA-TCTCCCTGG
1 CGTTGCAGCGGAACAGATTGAAGCCACAACGACAAATCTTACT-TCCCTAG
34935182 CGTT
1 CGTT
34935186 AAGACTTGGA
Statistics
Matches: 44, Mismatches: 9, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
49 1 0.02
50 43 0.98
ACGTcount: A:0.26, C:0.24, G:0.25, T:0.25
Consensus pattern (50 bp):
CGTTGCAGCGGAACAGATTGAAGCCACAACGACAAATCTTACTTCCCTAG
Found at i:34935309 original size:50 final size:50
Alignment explanation
Indices: 34935255--34935394 Score: 129
Period size: 50 Copynumber: 2.8 Consensus size: 50
34935245 TTGGCATTAC
* ***
34935255 AGTGGAATAGATTGAAGCCACTACGGCGAATCTTGCTTCCCTGGCGA-TGT
1 AGTGGAATAGATTGAAGCCACAACGGCGAATCTTGCTTCCCAAAC-ATTGT
* * * * * * *
34935305 AGTGGAACAGGTTGAAGCTACGACGGTGGATCTTGTTTCCCAAACATTGT
1 AGTGGAATAGATTGAAGCCACAACGGCGAATCTTGCTTCCCAAACATTGT
** * *
34935355 AGTTAAATAGATTGAAGCCACAACGGCGAGTCTTACTTCC
1 AGTGGAATAGATTGAAGCCACAACGGCGAATCTTGCTTCC
34935395 TTAGTAGTGC
Statistics
Matches: 68, Mismatches: 21, Indels: 2
0.75 0.23 0.02
Matches are distributed among these distances:
49 1 0.01
50 67 0.99
ACGTcount: A:0.27, C:0.21, G:0.26, T:0.26
Consensus pattern (50 bp):
AGTGGAATAGATTGAAGCCACAACGGCGAATCTTGCTTCCCAAACATTGT
Found at i:34935382 original size:100 final size:100
Alignment explanation
Indices: 34935263--34935771 Score: 591
Period size: 100 Copynumber: 5.1 Consensus size: 100
34935253 ACAGTGGAAT
* * * * *
34935263 AGATTGAAGCCACTACGGCGAATCTTGCTTCCCTGGCGATGTAGTGGAACAGGTTGAAGCTACGA
1 AGATTGAAGCCACAACGGCGAATCTTACTTCCCTGGCGGTGCAGTGGAACAGATTGAAGCTACGA
* * * * *
34935328 CGGTGGATCTTGTTTCCCAAACATTGTAGTTAAAT
66 CGGTGAATCTTGTTTCCCAGACATTGCAATTAAAA
* * * ** *
34935363 AGATTGAAGCCACAACGGCGAGTCTTACTTCCTTAGTAGTGCAGTGGAACAGATTGAAGCTATGA
1 AGATTGAAGCCACAACGGCGAATCTTACTTCCCTGGCGGTGCAGTGGAACAGATTGAAGCTACGA
**
34935428 CAATGAATCTTGTTTCCCAGACATTGCAATTAAAA
66 CGGTGAATCTTGTTTCCCAGACATTGCAATTAAAA
* * *
34935463 AGATTGAAGCCACAACGGC-AAGTCTTACTTCCTTAGCGGTGCAGTGGAACAAATTGAAGCTACG
1 AGATTGAAGCCACAACGGCGAA-TCTTACTTCCCTGGCGGTGCAGTGGAACAGATTGAAGCTACG
* ** *
34935527 ACGGCGAATCTAATTTCCCCGACATTGCAATTAAAA
65 ACGGTGAATCTTGTTTCCCAGACATTGCAATTAAAA
*
34935563 AGATTGAAGCCACAACGAC-AGATCTTACTTCCCTGGCGGTGCAGTGGAACAGATTGAAGCTACG
1 AGATTGAAGCCACAACGGCGA-ATCTTACTTCCCTGGCGGTGCAGTGGAACAGATTGAAGCTACG
*
34935627 ACGGT-AGAT-TTGGTTTCCCCGACATTGCAATTAAAA
65 ACGGTGA-ATCTT-GTTTCCCAGACATTGCAATTAAAA
* * * * *
34935663 AGATTGAAGCCACAACGGTGGATCTTACTTCCCTGGCGGTGTAATGGAATAGATTGAAG-T-CGT
1 AGATTGAAGCCACAACGGCGAATCTTACTTCCCTGGCGGTGCAGTGGAACAGATTGAAGCTAC--
* * *
34935726 GACGGCGAATCTTGTTTCCCTGACATTGCAGTTAAACA
64 GACGGTGAATCTTGTTTCCCAGACATTGCAATTAAA-A
34935764 A-ATTGAAG
1 AGATTGAAG
34935772 TAAATAATCC
Statistics
Matches: 354, Mismatches: 45, Indels: 20
0.84 0.11 0.05
Matches are distributed among these distances:
98 1 0.00
99 4 0.01
100 343 0.97
101 6 0.02
ACGTcount: A:0.30, C:0.20, G:0.24, T:0.26
Consensus pattern (100 bp):
AGATTGAAGCCACAACGGCGAATCTTACTTCCCTGGCGGTGCAGTGGAACAGATTGAAGCTACGA
CGGTGAATCTTGTTTCCCAGACATTGCAATTAAAA
Found at i:34935417 original size:50 final size:49
Alignment explanation
Indices: 34935363--34935622 Score: 153
Period size: 50 Copynumber: 5.2 Consensus size: 49
34935353 GTAGTTAAAT
*
34935363 AGATTGAAGCCACAACGGCGAGTCTTACTTCCTTAGTAGTGCAGTGGAAC
1 AGATTGAAGCCACAACGGCGAGTCTTACTTCC-TAGCAGTGCAGTGGAAC
* ** *** * ** * * * ** *
34935413 AGATTGAAGCTATGACAATGAATCTTGTTTCCCAGACATTGCAATTAAAA
1 AGATTGAAGCCACAACGGCGAGTCTTACTTCCTAG-CAGTGCAGTGGAAC
* *
34935463 AGATTGAAGCCACAACGGCAAGTCTTACTTCCTTAGCGGTGCAGTGGAAC
1 AGATTGAAGCCACAACGGCGAGTCTTACTTCC-TAGCAGTGCAGTGGAAC
* * * * * * ** * * ** *
34935513 AAATTGAAGCTACGACGGCGAATCTAATTTCCCCGACATTGCAATTAAAA
1 AGATTGAAGCCACAACGGCGAGTCTTACTTCCTAG-CAGTGCAGTGGAAC
* * *
34935563 AGATTGAAGCCACAACGAC-AGATCTTACTTCCCTGGCGGTGCAGTGGAAC
1 AGATTGAAGCCACAACGGCGAG-TCTTACTT-CCTAGCAGTGCAGTGGAAC
34935613 AGATTGAAGC
1 AGATTGAAGC
34935623 TACGACGGTA
Statistics
Matches: 142, Mismatches: 63, Indels: 10
0.66 0.29 0.05
Matches are distributed among these distances:
49 4 0.03
50 133 0.94
51 5 0.04
ACGTcount: A:0.32, C:0.22, G:0.22, T:0.24
Consensus pattern (49 bp):
AGATTGAAGCCACAACGGCGAGTCTTACTTCCTAGCAGTGCAGTGGAAC
Found at i:34935717 original size:50 final size:50
Alignment explanation
Indices: 34935460--34935721 Score: 172
Period size: 50 Copynumber: 5.2 Consensus size: 50
34935450 ATTGCAATTA
* * * *
34935460 AAAAGATTGAAGCCACAACGGCA-AGTCTTACTTCCTTAGCGGTGCAGTGG
1 AAAAGATTGAAGCCACAACGGTAGA-TCTTACTTCCCTGGCGGTGCAATGG
* * * * * * * ** **
34935510 AACAA-ATTGAAGCTACGACGG-CGAATCTAATTTCCCCGACATTGCAATTA
1 AA-AAGATTGAAGCCACAACGGTAG-ATCTTACTTCCCTGGCGGTGCAATGG
** *
34935560 AAAAGATTGAAGCCACAACGACAGATCTTACTTCCCTGGCGGTGCAGTGG
1 AAAAGATTGAAGCCACAACGGTAGATCTTACTTCCCTGGCGGTGCAATGG
* * * ** * * ** **
34935610 AACAGATTGAAGCTACGACGGTAGAT-TTGGTTTCCCCGACATTGCAATTA
1 AAAAGATTGAAGCCACAACGGTAGATCTT-ACTTCCCTGGCGGTGCAATGG
* *
34935660 AAAAGATTGAAGCCACAACGGTGGATCTTACTTCCCTGGCGGTGTAATGG
1 AAAAGATTGAAGCCACAACGGTAGATCTTACTTCCCTGGCGGTGCAATGG
*
34935710 AATAGATTGAAG
1 AAAAGATTGAAG
34935722 TCGTGACGGC
Statistics
Matches: 150, Mismatches: 55, Indels: 14
0.68 0.25 0.06
Matches are distributed among these distances:
49 4 0.03
50 140 0.93
51 6 0.04
ACGTcount: A:0.32, C:0.21, G:0.24, T:0.24
Consensus pattern (50 bp):
AAAAGATTGAAGCCACAACGGTAGATCTTACTTCCCTGGCGGTGCAATGG
Found at i:34935977 original size:129 final size:127
Alignment explanation
Indices: 34935777--34936017 Score: 338
Period size: 129 Copynumber: 1.9 Consensus size: 127
34935767 TGAAGTAAAT
* * * *
34935777 AATCCTATTTCTCTGAAGTTGCAGTAGAGCGGATTAACATCCAGATCTTATTTTTCTGAGGTTAC
1 AATCCTATCTCCCTGAAGTTGCAGTAGAGCGGATTAACATACAGATCTTATCTTTCTGAGGTTAC
* *
34935842 AGAGAGCAGATCACATCAAGTTTTATCTCCCTGAAGTTGCAGTGGAGCAAACTGAAGACCTA
66 AGAGAGCAGATCACATCAAGTCTTATCTCCCTAAAGTTGCAGTGGAGCAAACTGAAGACCTA
* * * *
34935904 AATCCTATCTCCCTGAGGTTGTAGTGGAGTGGATTAAAACATACAGATCTTATCTTTCTGAGGTT
1 AATCCTATCTCCCTGAAGTTGCAGTAGAGCGGATT--AACATACAGATCTTATCTTTCTGAGGTT
* * **
34935969 GCAGAGAGCAGATCGCATTTAGTCTTATCTCCCTAAAGTTGCAGTGGAG
64 ACAGAGAGCAGATCACATCAAGTCTTATCTCCCTAAAGTTGCAGTGGAG
34936018 TAGACTAAAT
Statistics
Matches: 98, Mismatches: 14, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
127 29 0.30
129 69 0.70
ACGTcount: A:0.28, C:0.19, G:0.22, T:0.31
Consensus pattern (127 bp):
AATCCTATCTCCCTGAAGTTGCAGTAGAGCGGATTAACATACAGATCTTATCTTTCTGAGGTTAC
AGAGAGCAGATCACATCAAGTCTTATCTCCCTAAAGTTGCAGTGGAGCAAACTGAAGACCTA
Found at i:34936818 original size:21 final size:21
Alignment explanation
Indices: 34936784--34936827 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
34936774 TTTGGTTCTG
34936784 TTTTTTTTTCCTTTTAC-TGT
1 TTTTTTTTTCCTTTTACTTGT
*
34936804 TTTTTTGTTTTCTTTTACTTGT
1 TTTTTT-TTTCCTTTTACTTGT
34936826 TT
1 TT
34936828 CTTAAAATAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 6 0.29
21 10 0.48
22 5 0.24
ACGTcount: A:0.05, C:0.11, G:0.07, T:0.77
Consensus pattern (21 bp):
TTTTTTTTTCCTTTTACTTGT
Found at i:34937426 original size:14 final size:15
Alignment explanation
Indices: 34937407--34937440 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
34937397 TTTTTTATAT
*
34937407 TATTAATT-CTGTTA
1 TATTAATTACTATTA
34937421 TATTAATTACTATTA
1 TATTAATTACTATTA
34937436 TATTA
1 TATTA
34937441 TTTTATTATT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 8 0.44
15 10 0.56
ACGTcount: A:0.35, C:0.06, G:0.03, T:0.56
Consensus pattern (15 bp):
TATTAATTACTATTA
Found at i:34937438 original size:15 final size:14
Alignment explanation
Indices: 34937407--34937449 Score: 52
Period size: 14 Copynumber: 3.1 Consensus size: 14
34937397 TTTTTTATAT
*
34937407 TATTAATTCTGTTA
1 TATTAATTCTATTA
34937421 TATTAATTACTATTA
1 TATTAATT-CTATTA
*
34937436 TATT-ATTTTATTA
1 TATTAATTCTATTA
34937449 T
1 T
34937450 TATGCCTATA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
13 6 0.23
14 11 0.42
15 9 0.35
ACGTcount: A:0.33, C:0.05, G:0.02, T:0.60
Consensus pattern (14 bp):
TATTAATTCTATTA
Found at i:34938461 original size:189 final size:189
Alignment explanation
Indices: 34938141--34938572 Score: 855
Period size: 189 Copynumber: 2.3 Consensus size: 189
34938131 GAGAAAGATC
34938141 GTGCCCTAACTTACTGGGTTTCGATTCTCTTCATTTTACCTAAATAACCAAATAAAAGCTTATTC
1 GTGCCCTAACTTACTGGGTTTCGATTCTCTTCATTTTACCTAAATAACCAAATAAAAGCTTATTC
34938206 TCGGGAATTCGAACATGTTGGGTCCTAACTTACTGGACATGACATTTTGTCATCTCGAAATAAGA
66 TCGGGAATTCGAACATGTTGGGTCCTAACTTACTGGACATGACATTTTGTCATCTCGAAATAAGA
34938271 ATTTTTAAAAAAGGTAAATAAATAAAGGCAATGTTCGGTATTTGGAATTTTGAGAAATT
131 ATTTTTAAAAAAGGTAAATAAATAAAGGCAATGTTCGGTATTTGGAATTTTGAGAAATT
34938330 GTGCCCTAACTTACTGGGTTTCGATTCTCTTCATTTTACCTAAATAACCAAATAAAAGCTTATTC
1 GTGCCCTAACTTACTGGGTTTCGATTCTCTTCATTTTACCTAAATAACCAAATAAAAGCTTATTC
34938395 TCGGGAATTCGAACATGTTGGGTCCTAACTTACTGGACATGACATTTTGTCATCTCGAAATAAGA
66 TCGGGAATTCGAACATGTTGGGTCCTAACTTACTGGACATGACATTTTGTCATCTCGAAATAAGA
34938460 ATTTTTAAAAAAGGTAAATAAATAAAGGCAATGTTCGGTATTTGGAATTTTGAGAAATT
131 ATTTTTAAAAAAGGTAAATAAATAAAGGCAATGTTCGGTATTTGGAATTTTGAGAAATT
*
34938519 GTGCCCTAACTTACTGGGTTTCGATTTTCTTCATTTTACCTAAATAACCAAATA
1 GTGCCCTAACTTACTGGGTTTCGATTCTCTTCATTTTACCTAAATAACCAAATA
34938573 CCCTTCTTAG
Statistics
Matches: 242, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
189 242 1.00
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.35
Consensus pattern (189 bp):
GTGCCCTAACTTACTGGGTTTCGATTCTCTTCATTTTACCTAAATAACCAAATAAAAGCTTATTC
TCGGGAATTCGAACATGTTGGGTCCTAACTTACTGGACATGACATTTTGTCATCTCGAAATAAGA
ATTTTTAAAAAAGGTAAATAAATAAAGGCAATGTTCGGTATTTGGAATTTTGAGAAATT
Found at i:34945217 original size:136 final size:137
Alignment explanation
Indices: 34945058--34945330 Score: 539
Period size: 136 Copynumber: 2.0 Consensus size: 137
34945048 CTATAAGTCC
34945058 TGCCCAATATATGGATATTAAATTGTACTCAAATTAATTCATATTTTAATTGATTAATTTAAATT
1 TGCCCAATATATGGATATTAAATTGTACTCAAATTAATTCATATTTTAATTGATTAATTTAAATT
34945123 CATTTATTTAAAATTTTATATAAATATAGATTTAAGTTTTAATTTAATATTTATTAACTTA-TTT
66 CATTTATTTAAAATTTTATATAAATATAGATTTAAGTTTTAATTTAATATTTATTAACTTATTTT
34945187 TTATTAA
131 TTATTAA
34945194 TGCCCAATATATGGATATTAAATTGTACTCAAATTAATTCATATTTTAATTGATTAATTTAAATT
1 TGCCCAATATATGGATATTAAATTGTACTCAAATTAATTCATATTTTAATTGATTAATTTAAATT
34945259 CATTTATTTAAAATTTTATATAAATATAGATTTAAGTTTTAATTTAATATTTATTAACTTATTTT
66 CATTTATTTAAAATTTTATATAAATATAGATTTAAGTTTTAATTTAATATTTATTAACTTATTTT
34945324 TTATTAA
131 TTATTAA
34945331 AATTTAAAAC
Statistics
Matches: 136, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
136 126 0.93
137 10 0.07
ACGTcount: A:0.39, C:0.06, G:0.05, T:0.50
Consensus pattern (137 bp):
TGCCCAATATATGGATATTAAATTGTACTCAAATTAATTCATATTTTAATTGATTAATTTAAATT
CATTTATTTAAAATTTTATATAAATATAGATTTAAGTTTTAATTTAATATTTATTAACTTATTTT
TTATTAA
Found at i:34953467 original size:12 final size:12
Alignment explanation
Indices: 34953450--34953483 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
34953440 TAGGTTTCCA
34953450 AAAATGTAAATG
1 AAAATGTAAATG
*
34953462 AAAATGAAAATG
1 AAAATGTAAATG
*
34953474 AAAATTTAAA
1 AAAATGTAAA
34953484 ATCATATATA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.65, C:0.00, G:0.12, T:0.24
Consensus pattern (12 bp):
AAAATGTAAATG
Found at i:34955369 original size:29 final size:30
Alignment explanation
Indices: 34955327--34955397 Score: 92
Period size: 33 Copynumber: 2.3 Consensus size: 30
34955317 ATACTTTATC
34955327 TTGAATTTTGTCACT-TTAT-TTTTGTTTGA
1 TTGAATTTTGTCACTATTATATTTT-TTTGA
34955356 TTGAATTTTGTCACTAAAATTATATTTTTTTGA
1 TTGAATTTTGTCACT---ATTATATTTTTTTGA
34955389 TTGAATTTT
1 TTGAATTTT
34955398 ACTATTAATT
Statistics
Matches: 37, Mismatches: 0, Indels: 6
0.86 0.00 0.14
Matches are distributed among these distances:
29 15 0.41
33 18 0.49
34 4 0.11
ACGTcount: A:0.24, C:0.06, G:0.11, T:0.59
Consensus pattern (30 bp):
TTGAATTTTGTCACTATTATATTTTTTTGA
Found at i:34955471 original size:17 final size:17
Alignment explanation
Indices: 34955429--34955471 Score: 50
Period size: 17 Copynumber: 2.5 Consensus size: 17
34955419 TAAATTATAG
34955429 AAAAATTTAATAATAAAT
1 AAAAA-TTAATAATAAAT
* * *
34955447 TAATATTAATAATTAAT
1 AAAAATTAATAATAAAT
34955464 AAAAATTA
1 AAAAATTA
34955472 TCAATAAAAT
Statistics
Matches: 20, Mismatches: 5, Indels: 1
0.77 0.19 0.04
Matches are distributed among these distances:
17 17 0.85
18 3 0.15
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (17 bp):
AAAAATTAATAATAAAT
Found at i:34961342 original size:44 final size:44
Alignment explanation
Indices: 34961187--34961826 Score: 279
Period size: 44 Copynumber: 14.7 Consensus size: 44
34961177 CTGTTGTCAG
* * * * *
34961187 TCTGCCCCACTGCAACTGCAGGGGGATAAGA-CT-TGCTTTCTCAG
1 TCTGCTCCACTGCAACTTCAGGGAGATAAGATCTATG-ATT-TCAA
* * * * *
34961231 TCTGCTCCATTGCAACCTCAGGGAGATAAGA-C-CTGA-TGCGA
1 TCTGCTCCACTGCAACTTCAGGGAGATAAGATCTATGATTTCAA
* * * * * * *
34961272 TCTACTCTATTGCAACTTTAGAGAGATAAGATCTATTATTTTAA
1 TCTGCTCCACTGCAACTTCAGGGAGATAAGATCTATGATTTCAA
* * * **
34961316 TCCGCTCCACTACAACTTCAGGGAGATAGGAT-TATCGGCTTCAA
1 TCTGCTCCACTGCAACTTCAGGGAGATAAGATCTAT-GATTTCAA
* * *
34961360 TCTGCTCTACTACAAGC-TCAGGGAGATAAGAT-T-TGCCATCTTCGA
1 TCTGCTCCACTGCAA-CTTCAGGGAGATAAGATCTATG--AT-TTCAA
* * * * *
34961405 TCTGCCCCACCGCAACTTCAGAGG-GATAAGA-C-CTGCTTACTCAG
1 TCTGCTCCACTGCAACTTCAG-GGAGATAAGATCTATGATT--TCAA
* * * * *
34961449 TCTGCTCCGCTGTAACTTCAGGGAGATAAGA-C-CTGA-TGCTA
1 TCTGCTCCACTGCAACTTCAGGGAGATAAGATCTATGATTTCAA
* * * * * *
34961490 TCTACTCTACTGTAACTTCAGAGAGATAAGATCTATTATTTTAA
1 TCTGCTCCACTGCAACTTCAGGGAGATAAGATCTATGATTTCAA
* * **
34961534 TCTGCTCCACTACAACTTCAGGGAGATAGGAT-TATCGGCTTCAA
1 TCTGCTCCACTGCAACTTCAGGGAGATAAGATCTAT-GATTTCAA
* * * *
34961578 TCTGCTCCACTACAACCTCA-GGATATAAGAT-T-TGCCATCTTCGA
1 TCTGCTCCACTGCAACTTCAGGGAGATAAGATCTATG--AT-TTCAA
* * * * * * *
34961622 TCTGCCCCACCGCAACTTTAGGGGGATAAGA-C-CTGCTTACTCAG
1 TCTGCTCCACTGCAACTTCAGGGAGATAAGATCTATGATT--TCAA
* * * * * *
34961666 TCTCCTCCGCTGCAACTTTAGGGAGATAAGA-C-CTGA-TGCGA
1 TCTGCTCCACTGCAACTTCAGGGAGATAAGATCTATGATTTCAA
** * * *
34961707 TCCACTCTACTGCAACTTCAGAGAGATAAGATCTATTACTTT-AA
1 TCTGCTCCACTGCAACTTCAGGGAGATAAGATCTATGA-TTTCAA
* * * **
34961751 TCCGCTCCACTACAACTTCAGGGAGATAGGAT-TATCGGCTTCAA
1 TCTGCTCCACTGCAACTTCAGGGAGATAAGATCTAT-GATTTCAA
*
34961795 TCTGCTCCACTGCAACTTTAGGGAGATAAGAT
1 TCTGCTCCACTGCAACTTCAGGGAGATAAGAT
34961827 TTNNNNNNNN
Statistics
Matches: 444, Mismatches: 118, Indels: 68
0.70 0.19 0.11
Matches are distributed among these distances:
41 82 0.18
42 8 0.02
43 34 0.08
44 278 0.63
45 40 0.09
46 2 0.00
ACGTcount: A:0.27, C:0.25, G:0.19, T:0.28
Consensus pattern (44 bp):
TCTGCTCCACTGCAACTTCAGGGAGATAAGATCTATGATTTCAA
Found at i:34961716 original size:217 final size:218
Alignment explanation
Indices: 34961187--34961828 Score: 1052
Period size: 217 Copynumber: 2.9 Consensus size: 218
34961177 CTGTTGTCAG
* * * * ** *
34961187 TCTGCCCCACTGCAACTGCAGGGGGATAAGACTTGCTTTCTCAGTCTGCTCCATTGCAACCTCAG
1 TCTGCCCCACCGCAACTTCAGGGGGATAAGACCTGCTTACTCAGTCTGCTCCGCTGCAACTTCAG
* *
34961252 GGAGATAAGACCTGATGCGATCTACTCTATTGCAACTTTAGAGAGATAAGATCTATTATTTTAAT
66 GGAGATAAGACCTGATGCGATCTACTCTACTGCAACTTCAGAGAGATAAGATCTATTATTTTAAT
* *
34961317 CCGCTCCACTACAACTTCAGGGAGATAGGATTATCGGCTTCAATCTGCTCTACTACAAGCTCAGG
131 CCGCTCCACTACAACTTCAGGGAGATAGGATTATCGGCTTCAATCTGCTCCACTACAACCTCAGG
34961382 GAGATAAGATTTGCCATCTTCGA
196 GAGATAAGATTTGCCATCTTCGA
* *
34961405 TCTGCCCCACCGCAACTTCAGAGGGATAAGACCTGCTTACTCAGTCTGCTCCGCTGTAACTTCAG
1 TCTGCCCCACCGCAACTTCAGGGGGATAAGACCTGCTTACTCAGTCTGCTCCGCTGCAACTTCAG
* *
34961470 GGAGATAAGACCTGATGCTATCTACTCTACTGTAACTTCAGAGAGATAAGATCTATTATTTTAAT
66 GGAGATAAGACCTGATGCGATCTACTCTACTGCAACTTCAGAGAGATAAGATCTATTATTTTAAT
*
34961535 CTGCTCCACTACAACTTCAGGGAGATAGGATTATCGGCTTCAATCTGCTCCACTACAACCTCA-G
131 CCGCTCCACTACAACTTCAGGGAGATAGGATTATCGGCTTCAATCTGCTCCACTACAACCTCAGG
*
34961599 GATATAAGATTTGCCATCTTCGA
196 GAGATAAGATTTGCCATCTTCGA
* * *
34961622 TCTGCCCCACCGCAACTTTAGGGGGATAAGACCTGCTTACTCAGTCTCCTCCGCTGCAACTTTAG
1 TCTGCCCCACCGCAACTTCAGGGGGATAAGACCTGCTTACTCAGTCTGCTCCGCTGCAACTTCAG
* *
34961687 GGAGATAAGACCTGATGCGATCCACTCTACTGCAACTTCAGAGAGATAAGATCTATTACTTTAAT
66 GGAGATAAGACCTGATGCGATCTACTCTACTGCAACTTCAGAGAGATAAGATCTATTATTTTAAT
* * *
34961752 CCGCTCCACTACAACTTCAGGGAGATAGGATTATCGGCTTCAATCTGCTCCACTGCAACTTTAGG
131 CCGCTCCACTACAACTTCAGGGAGATAGGATTATCGGCTTCAATCTGCTCCACTACAACCTCAGG
34961817 GAGATAAGATTT
196 GAGATAAGATTT
34961829 NNNNNNNNNN
Statistics
Matches: 392, Mismatches: 31, Indels: 2
0.92 0.07 0.00
Matches are distributed among these distances:
217 203 0.52
218 189 0.48
ACGTcount: A:0.27, C:0.25, G:0.19, T:0.28
Consensus pattern (218 bp):
TCTGCCCCACCGCAACTTCAGGGGGATAAGACCTGCTTACTCAGTCTGCTCCGCTGCAACTTCAG
GGAGATAAGACCTGATGCGATCTACTCTACTGCAACTTCAGAGAGATAAGATCTATTATTTTAAT
CCGCTCCACTACAACTTCAGGGAGATAGGATTATCGGCTTCAATCTGCTCCACTACAACCTCAGG
GAGATAAGATTTGCCATCTTCGA
Found at i:34962419 original size:49 final size:49
Alignment explanation
Indices: 34962347--34962445 Score: 189
Period size: 49 Copynumber: 2.0 Consensus size: 49
34962337 CTTCAGGGAG
*
34962347 ATAGGATTATCGACTTCAATCTGCTTCCTTACTCTTGAAGATAAGATTC
1 ATAGGATTATCGACTTCAATCTGCTTCCTTACTCTTAAAGATAAGATTC
34962396 ATAGGATTATCGACTTCAATCTGCTTCCTTACTCTTAAAGATAAGATTC
1 ATAGGATTATCGACTTCAATCTGCTTCCTTACTCTTAAAGATAAGATTC
34962445 A
1 A
34962446 CCGTCTTCGA
Statistics
Matches: 49, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
49 49 1.00
ACGTcount: A:0.30, C:0.20, G:0.13, T:0.36
Consensus pattern (49 bp):
ATAGGATTATCGACTTCAATCTGCTTCCTTACTCTTAAAGATAAGATTC
Found at i:34962692 original size:128 final size:127
Alignment explanation
Indices: 34962413--34962897 Score: 727
Period size: 128 Copynumber: 3.8 Consensus size: 127
34962403 TATCGACTTC
* * *
34962413 AATCTGCTTCCTTACTCTTAAAGATAAGATTCACCGTCTTCGATCTACTCCGCTATTGTTTAGGG
1 AATCTGCTTCCTTACTCTTGAAGATAAGATTCGCCGTCTTCGATCTACTCCGCTATTGCTTAGGG
* **
34962478 AGACAAGATCTGTAATTTCCCAACCTATTCCACTGCTGACCAATGATATAGGACTTGTGGCTTA
66 AGACAAGATCTGTAATTT--TAACCTATTCCACTGCTGACCAGGGATATAGGACTTGTGGCTTA
* *
34962542 AATCTGCTTCCTTACACTTGAAGATAAGATTCGCCGTCTTCGATCTGCTCCGCTATTGCTTAGGG
1 AATCTGCTTCCTTACTCTTGAAGATAAGATTCGCCGTCTTCGATCTACTCCGCTATTGCTTAGGG
* *
34962607 AGAGAAGATCTGTAATTTCTAACCTATTCCACTGCTGACTAGGGATATAGGACTTGTGGCTTA
66 AGACAAGATCTGTAATTT-TAACCTATTCCACTGCTGACCAGGGATATAGGACTTGTGGCTTA
* * **
34962670 AATCTACTTCCTTACTCTTGAAGATAAGATTTGCCGTCTTCGATCTGTTCCGCTATTGCTTAGGG
1 AATCTGCTTCCTTACTCTTGAAGATAAGATTCGCCGTCTTCGATCTACTCCGCTATTGCTTAGGG
* * *
34962735 AGTCAAGATCTATTATTTTCAACCTATTCCACTGCTGACCAGGGATATAGGACTTGTGGCTTA
66 AGACAAGATCTGTAATTTT-AACCTATTCCACTGCTGACCAGGGATATAGGACTTGTGGCTTA
*
34962798 AATCTGCTTCCTTACTCTTGAAGATAAGATTTGCCGTCTTCGATCTACTCCGCTATTGCTTAGGG
1 AATCTGCTTCCTTACTCTTGAAGATAAGATTCGCCGTCTTCGATCTACTCCGCTATTGCTTAGGG
* * **
34962863 AGTCAAGATCTGTTATCTTTAACCTGCTCCACTGC
66 AGACAAGATCTGTAAT-TTTAACCTATTCCACTGC
34962898 AACCGAGGAA
Statistics
Matches: 329, Mismatches: 25, Indels: 5
0.92 0.07 0.01
Matches are distributed among these distances:
127 1 0.00
128 248 0.75
129 80 0.24
ACGTcount: A:0.24, C:0.23, G:0.18, T:0.34
Consensus pattern (127 bp):
AATCTGCTTCCTTACTCTTGAAGATAAGATTCGCCGTCTTCGATCTACTCCGCTATTGCTTAGGG
AGACAAGATCTGTAATTTTAACCTATTCCACTGCTGACCAGGGATATAGGACTTGTGGCTTA
Found at i:34964230 original size:13 final size:14
Alignment explanation
Indices: 34964201--34964237 Score: 58
Period size: 13 Copynumber: 2.7 Consensus size: 14
34964191 GGTCTCTCCA
*
34964201 TTTCTTTTTTCATT
1 TTTCATTTTTCATT
34964215 TTTCATTTTTCA-T
1 TTTCATTTTTCATT
34964228 TTTCATTTTT
1 TTTCATTTTT
34964238 TTATTTTTTT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
13 11 0.50
14 11 0.50
ACGTcount: A:0.11, C:0.14, G:0.00, T:0.76
Consensus pattern (14 bp):
TTTCATTTTTCATT
Found at i:34964238 original size:14 final size:14
Alignment explanation
Indices: 34964201--34964244 Score: 56
Period size: 14 Copynumber: 3.2 Consensus size: 14
34964191 GGTCTCTCCA
34964201 TTTC-TTTTTTCATT
1 TTTCATTTTTTCA-T
34964215 TTTCA-TTTTTCAT
1 TTTCATTTTTTCAT
*
34964228 TTTCATTTTTTTAT
1 TTTCATTTTTTCAT
34964242 TTT
1 TTT
34964245 TTTCTGACTC
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
13 6 0.22
14 21 0.78
ACGTcount: A:0.11, C:0.11, G:0.00, T:0.77
Consensus pattern (14 bp):
TTTCATTTTTTCAT
Found at i:34964246 original size:7 final size:7
Alignment explanation
Indices: 34964201--34964237 Score: 58
Period size: 7 Copynumber: 5.4 Consensus size: 7
34964191 GGTCTCTCCA
*
34964201 TTTCTTT
1 TTTCATT
34964208 TTTCATT
1 TTTCATT
34964215 TTTCATT
1 TTTCATT
34964222 TTTCA-T
1 TTTCATT
34964228 TTTCATT
1 TTTCATT
34964235 TTT
1 TTT
34964238 TTATTTTTTT
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
6 6 0.21
7 22 0.79
ACGTcount: A:0.11, C:0.14, G:0.00, T:0.76
Consensus pattern (7 bp):
TTTCATT
Found at i:34965098 original size:6 final size:6
Alignment explanation
Indices: 34965096--34965167 Score: 90
Period size: 6 Copynumber: 11.7 Consensus size: 6
34965086 CATTTTTATT
* ** *
34965096 TTTTGA CTTTGA TTTTGA TTTTTTCT TTTTGC TTTTGA TTTTGA TTTTGA
1 TTTTGA TTTTGA TTTTGA --TTTTGA TTTTGA TTTTGA TTTTGA TTTTGA
34965146 TTTTGA TTTTGA TTTTGA TTTT
1 TTTTGA TTTTGA TTTTGA TTTT
34965168 TTTTCTTCCC
Statistics
Matches: 57, Mismatches: 7, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
6 53 0.93
8 4 0.07
ACGTcount: A:0.12, C:0.04, G:0.14, T:0.69
Consensus pattern (6 bp):
TTTTGA
Found at i:34969956 original size:30 final size:30
Alignment explanation
Indices: 34969922--34969981 Score: 79
Period size: 30 Copynumber: 2.0 Consensus size: 30
34969912 ATTAATAAGG
34969922 TTATATAAAA-AA-ATTATAAAAATAATAATA
1 TTATA-AAAATAATATTATAAAAA-AATAATA
*
34969952 TTATAAAAATAATGTTATAAAAAAATAATA
1 TTATAAAAATAATATTATAAAAAAATAATA
34969982 GCATATTATG
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
29 4 0.15
30 14 0.52
31 9 0.33
ACGTcount: A:0.65, C:0.00, G:0.02, T:0.33
Consensus pattern (30 bp):
TTATAAAAATAATATTATAAAAAAATAATA
Found at i:34969976 original size:17 final size:16
Alignment explanation
Indices: 34969934--34969981 Score: 64
Period size: 14 Copynumber: 3.1 Consensus size: 16
34969924 ATATAAAAAA
34969934 ATTATAAAAATAATAAT
1 ATTATAAAAA-AATAAT
34969951 ATTAT--AAAAATAAT
1 ATTATAAAAAAATAAT
*
34969965 GTTATAAAAAAATAAT
1 ATTATAAAAAAATAAT
34969981 A
1 A
34969982 GCATATTATG
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
14 10 0.37
15 3 0.11
16 9 0.33
17 5 0.19
ACGTcount: A:0.65, C:0.00, G:0.02, T:0.33
Consensus pattern (16 bp):
ATTATAAAAAAATAAT
Found at i:34970208 original size:25 final size:25
Alignment explanation
Indices: 34970160--34970222 Score: 65
Period size: 25 Copynumber: 2.5 Consensus size: 25
34970150 TGAATTAATA
*
34970160 TATAAAATAAAATAAAATAGTATAT
1 TATAAAATAAAATAAAACAGTATAT
* *
34970185 TATAAAATTAAATAATAACA-TATAA
1 TATAAAATAAAATAA-AACAGTATAT
*
34970210 TAGTAATATAAAA
1 TA-TAAAATAAAA
34970223 AGGAAATAGA
Statistics
Matches: 31, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
25 20 0.65
26 11 0.35
ACGTcount: A:0.63, C:0.02, G:0.03, T:0.32
Consensus pattern (25 bp):
TATAAAATAAAATAAAACAGTATAT
Found at i:34976924 original size:20 final size:19
Alignment explanation
Indices: 34976899--34976948 Score: 64
Period size: 20 Copynumber: 2.5 Consensus size: 19
34976889 AAGTAGAAGT
*
34976899 AATAAATAAATAATATAAA
1 AATAAATAAATAACATAAA
34976918 CAATAAATAACATAACATAAA
1 -AATAAATAA-ATAACATAAA
*
34976939 GATAAATAAA
1 AATAAATAAA
34976949 ACAAGTAAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
19 1 0.04
20 17 0.63
21 9 0.33
ACGTcount: A:0.70, C:0.06, G:0.02, T:0.22
Consensus pattern (19 bp):
AATAAATAAATAACATAAA
Found at i:34981511 original size:3 final size:3
Alignment explanation
Indices: 34981503--34981548 Score: 92
Period size: 3 Copynumber: 15.3 Consensus size: 3
34981493 CTTCTACTAG
34981503 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
34981549 CTGACCCTCA
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 43 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:34981745 original size:40 final size:40
Alignment explanation
Indices: 34981692--34981787 Score: 122
Period size: 40 Copynumber: 2.4 Consensus size: 40
34981682 GTTTGCATAA
* *
34981692 AAAACGCCGCTAAAAATTGAGAATTAGCGGCGCTTTATA-T
1 AAAACGCCGCTAAAAATAGAGAATTAGCGGCGCTTTA-AGG
* **
34981732 AAAACGCCGCTAAAGATAGAGCGTTAGCGGCGCTTTAAGG
1 AAAACGCCGCTAAAAATAGAGAATTAGCGGCGCTTTAAGG
*
34981772 AAAACGCCGCAAAAAA
1 AAAACGCCGCTAAAAA
34981788 CCTAAACCCA
Statistics
Matches: 48, Mismatches: 7, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
39 1 0.02
40 47 0.98
ACGTcount: A:0.40, C:0.20, G:0.23, T:0.18
Consensus pattern (40 bp):
AAAACGCCGCTAAAAATAGAGAATTAGCGGCGCTTTAAGG
Done.