Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr11
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 61124829
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 1263459 characters in sequence are not A, C, G, or T
File 141 of 205
Found at i:42816112 original size:36 final size:37
Alignment explanation
Indices: 42816062--42816136 Score: 93
Period size: 37 Copynumber: 2.1 Consensus size: 37
42816052 ATGATCGATG
* *
42816062 TTGTTGTGATTAGCCAATG-TAT-TGGCTTATAATTAT
1 TTGTTGTGATTAGCC-ATGAGATATGGCTTATAATGAT
42816098 TTGTTGT-ATGTAGCCATGAGATATGGCTTATAATGAT
1 TTGTTGTGAT-TAGCCATGAGATATGGCTTATAATGAT
42816135 TT
1 TT
42816137 TGGCTTGTAA
Statistics
Matches: 34, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
35 5 0.15
36 14 0.41
37 15 0.44
ACGTcount: A:0.25, C:0.08, G:0.21, T:0.45
Consensus pattern (37 bp):
TTGTTGTGATTAGCCATGAGATATGGCTTATAATGAT
Found at i:42818676 original size:30 final size:30
Alignment explanation
Indices: 42818618--42818676 Score: 91
Period size: 30 Copynumber: 2.0 Consensus size: 30
42818608 ATTTTCAGGC
* **
42818618 CTAGGGGTAAAATGGTCATTTTGTCAAAGT
1 CTAGGGGCAAAATGGTCATTTTACCAAAGT
42818648 CTAGGGGCAAAATGGTCATTTTACCAAAG
1 CTAGGGGCAAAATGGTCATTTTACCAAAG
42818677 ATATGAATTT
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.32, C:0.14, G:0.25, T:0.29
Consensus pattern (30 bp):
CTAGGGGCAAAATGGTCATTTTACCAAAGT
Found at i:42821801 original size:13 final size:13
Alignment explanation
Indices: 42821783--42821807 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
42821773 ATGGCATGTG
42821783 AAGGACATGGGCC
1 AAGGACATGGGCC
42821796 AAGGACATGGGC
1 AAGGACATGGGC
42821808 GAGTGCCAGG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.20, G:0.40, T:0.08
Consensus pattern (13 bp):
AAGGACATGGGCC
Found at i:42826742 original size:36 final size:36
Alignment explanation
Indices: 42826695--42826763 Score: 129
Period size: 36 Copynumber: 1.9 Consensus size: 36
42826685 TTGAAAGTTA
42826695 GTGTGTTAGGTATATATAACTTCTGCAATATGTTTG
1 GTGTGTTAGGTATATATAACTTCTGCAATATGTTTG
*
42826731 GTGTGTTAGGTATATATAATTTCTGCAATATGT
1 GTGTGTTAGGTATATATAACTTCTGCAATATGT
42826764 AGTATCATTC
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
36 32 1.00
ACGTcount: A:0.26, C:0.07, G:0.22, T:0.45
Consensus pattern (36 bp):
GTGTGTTAGGTATATATAACTTCTGCAATATGTTTG
Found at i:42827426 original size:16 final size:16
Alignment explanation
Indices: 42827400--42827446 Score: 62
Period size: 16 Copynumber: 3.0 Consensus size: 16
42827390 TAGAATTGGG
42827400 TTGAGAAAATTAATTTA
1 TTGA-AAAATTAATTTA
*
42827417 TTGAAAAATTAATTAA
1 TTGAAAAATTAATTTA
42827433 TT--AAAATTAATTTA
1 TTGAAAAATTAATTTA
42827447 ATAATAATAT
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
14 11 0.39
16 13 0.46
17 4 0.14
ACGTcount: A:0.51, C:0.00, G:0.06, T:0.43
Consensus pattern (16 bp):
TTGAAAAATTAATTTA
Found at i:42827827 original size:14 final size:14
Alignment explanation
Indices: 42827808--42827834 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
42827798 TAGGAATGTC
42827808 ATAAGAAAATTTTG
1 ATAAGAAAATTTTG
42827822 ATAAGAAAATTTT
1 ATAAGAAAATTTT
42827835 ATCGATTTTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.52, C:0.00, G:0.11, T:0.37
Consensus pattern (14 bp):
ATAAGAAAATTTTG
Found at i:42828994 original size:24 final size:24
Alignment explanation
Indices: 42828967--42829013 Score: 60
Period size: 25 Copynumber: 1.9 Consensus size: 24
42828957 AGTAATCCCG
42828967 ATATAGCCTCTT-GAGCATTCTGTT
1 ATATAG-CTCTTAGAGCATTCTGTT
*
42828991 ATATAGTTCTTACGAGCATTCTG
1 ATATAGCTCTTA-GAGCATTCTG
42829014 ATTGGTAGTG
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
23 4 0.20
24 6 0.30
25 10 0.50
ACGTcount: A:0.23, C:0.19, G:0.17, T:0.40
Consensus pattern (24 bp):
ATATAGCTCTTAGAGCATTCTGTT
Found at i:42836141 original size:52 final size:52
Alignment explanation
Indices: 42836071--42836169 Score: 162
Period size: 52 Copynumber: 1.9 Consensus size: 52
42836061 TTCCATTCTG
* *
42836071 GAATAAAAATAGGTTGAACCAACTCGGTGGGAACTTGATATCTGATTCTCTA
1 GAATAAAAATAGGCTGAACCAACTCAGTGGGAACTTGATATCTGATTCTCTA
* *
42836123 GAATAGAAATAGGCTGAACTAACTCAGTGGGAACTTGATATCTGATT
1 GAATAAAAATAGGCTGAACCAACTCAGTGGGAACTTGATATCTGATT
42836170 TTTACAAGCT
Statistics
Matches: 43, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
52 43 1.00
ACGTcount: A:0.35, C:0.14, G:0.22, T:0.28
Consensus pattern (52 bp):
GAATAAAAATAGGCTGAACCAACTCAGTGGGAACTTGATATCTGATTCTCTA
Found at i:42837038 original size:11 final size:11
Alignment explanation
Indices: 42837022--42837046 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
42837012 CTAATATATA
42837022 TGTTTAATGTG
1 TGTTTAATGTG
42837033 TGTTTAATGTG
1 TGTTTAATGTG
42837044 TGT
1 TGT
42837047 CCTAGGAGAG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.16, C:0.00, G:0.28, T:0.56
Consensus pattern (11 bp):
TGTTTAATGTG
Found at i:42838711 original size:24 final size:24
Alignment explanation
Indices: 42838657--42838714 Score: 71
Period size: 24 Copynumber: 2.4 Consensus size: 24
42838647 CTGAAGTAAT
42838657 CAGAGTTTAACTGGAAAAAGATAA
1 CAGAGTTTAACTGGAAAAAGATAA
* * * * *
42838681 TATAGTTTAACTGGGAGAAGATAG
1 CAGAGTTTAACTGGAAAAAGATAA
42838705 CAGAGTTTAA
1 CAGAGTTTAA
42838715 ATTAGAGAAG
Statistics
Matches: 27, Mismatches: 7, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.43, C:0.07, G:0.24, T:0.26
Consensus pattern (24 bp):
CAGAGTTTAACTGGAAAAAGATAA
Found at i:42839751 original size:24 final size:24
Alignment explanation
Indices: 42839705--42839770 Score: 69
Period size: 24 Copynumber: 2.8 Consensus size: 24
42839695 GAGTAATCAG
* * *
42839705 AGTTTAACTGAGAAAAAAGAGCAA
1 AGTTTAACTGGGAGAAGAGAGCAA
* *
42839729 AGTTTAACTGGGAGAAGATAGCAG
1 AGTTTAACTGGGAGAAGAGAGCAA
* *
42839753 AGTTTTACTGGGGGAAGA
1 AGTTTAACTGGGAGAAGA
42839771 AACCTGTTTT
Statistics
Matches: 35, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 35 1.00
ACGTcount: A:0.41, C:0.08, G:0.30, T:0.21
Consensus pattern (24 bp):
AGTTTAACTGGGAGAAGAGAGCAA
Found at i:42840012 original size:15 final size:15
Alignment explanation
Indices: 42839994--42840052 Score: 57
Period size: 15 Copynumber: 3.9 Consensus size: 15
42839984 GAGTAAAGAT
*
42839994 AAATTTAAAATTAAA
1 AAATTTAATATTAAA
* *
42840009 AAATTGAATATTAAT
1 AAATTTAATATTAAA
*
42840024 AATTTTAATATTAAA
1 AAATTTAATATTAAA
*
42840039 ATAAATTAAT-TTAA
1 A-AATTTAATATTAA
42840053 CAATATATGA
Statistics
Matches: 35, Mismatches: 8, Indels: 2
0.78 0.18 0.04
Matches are distributed among these distances:
15 29 0.83
16 6 0.17
ACGTcount: A:0.58, C:0.00, G:0.02, T:0.41
Consensus pattern (15 bp):
AAATTTAATATTAAA
Found at i:42841387 original size:17 final size:17
Alignment explanation
Indices: 42841361--42841394 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
42841351 AGTTATAATC
*
42841361 AAATTGTAATTAATGAT
1 AAATTCTAATTAATGAT
42841378 AAATTCTAATTAATGAT
1 AAATTCTAATTAATGAT
42841395 GGGTTAATTA
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:0.47, C:0.03, G:0.09, T:0.41
Consensus pattern (17 bp):
AAATTCTAATTAATGAT
Found at i:42841478 original size:35 final size:35
Alignment explanation
Indices: 42841432--42841499 Score: 127
Period size: 35 Copynumber: 1.9 Consensus size: 35
42841422 ATATGCCAAT
*
42841432 GTTATAAATATTAGGGTTATGGTTTCCAAATTAAG
1 GTTATAAATATTAGGGTTATGGTTCCCAAATTAAG
42841467 GTTATAAATATTAGGGTTATGGTTCCCAAATTA
1 GTTATAAATATTAGGGTTATGGTTCCCAAATTA
42841500 TACATGAGAT
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
35 32 1.00
ACGTcount: A:0.34, C:0.07, G:0.19, T:0.40
Consensus pattern (35 bp):
GTTATAAATATTAGGGTTATGGTTCCCAAATTAAG
Found at i:42843813 original size:49 final size:49
Alignment explanation
Indices: 42843757--42843933 Score: 196
Period size: 49 Copynumber: 3.6 Consensus size: 49
42843747 GTTGCGTGTT
* *
42843757 AGTGTAAGACCTGTCTAGGACATGGCATCTACACCGATAGATGAGAGTC
1 AGTGTAAGACCTGTCTGGGACATGGCATCTACATCGATAGATGAGAGTC
* * * * *
42843806 AGTGTAAGACCTGTCTGGGACACGACATCGGT-C-TCGATATATGAAAGTT
1 AGTGTAAGACCTGTCTGGGACATGGCATC--TACATCGATAGATGAGAGTC
* * *
42843855 AGTGTAAAACCTGTCTGGGATATGGCATCGACATCGATAGATGAGAGTC
1 AGTGTAAGACCTGTCTGGGACATGGCATCTACATCGATAGATGAGAGTC
* * *
42843904 AATGTAAGACCATGTTTGGGACATTGCATC
1 AGTGTAAGACC-TGTCTGGGACATGGCATC
42843934 GGCATCTTAT
Statistics
Matches: 103, Mismatches: 20, Indels: 9
0.78 0.15 0.07
Matches are distributed among these distances:
48 1 0.01
49 85 0.83
50 16 0.16
51 1 0.01
ACGTcount: A:0.30, C:0.18, G:0.27, T:0.25
Consensus pattern (49 bp):
AGTGTAAGACCTGTCTGGGACATGGCATCTACATCGATAGATGAGAGTC
Found at i:42851139 original size:49 final size:49
Alignment explanation
Indices: 42851073--42851249 Score: 200
Period size: 49 Copynumber: 3.6 Consensus size: 49
42851063 CTTGTTGCGT
* * *
42851073 GTCAGTGCAATACCTGTCTGGGACATGGCATCGACACCGATATATGAGA
1 GTCAGTGTAAGACATGTCTGGGACATGGCATCGACACCGATATATGAGA
* * *
42851122 GTCAGTGTAAGTTC-TGTCTGGGAC-TCGACATCGAC-CTCGATATATGAAA
1 GTCAGTGTAAG-ACATGTCTGGGACAT-GGCATCGACAC-CGATATATGAGA
* *
42851171 GTCAGTGTAAGACTTGTCTGGGACATGGCATCGACAACGATAGT-TGAGA
1 GTCAGTGTAAGACATGTCTGGGACATGGCATCGACACCGATA-TATGAGA
*
42851220 GTCGGTGTAAGACCATGTCTGGGACATGGC
1 GTCAGTGTAAGA-CATGTCTGGGACATGGC
42851250 GTTGGTATCT
Statistics
Matches: 109, Mismatches: 11, Indels: 15
0.81 0.08 0.11
Matches are distributed among these distances:
48 3 0.03
49 87 0.80
50 19 0.17
ACGTcount: A:0.27, C:0.20, G:0.29, T:0.25
Consensus pattern (49 bp):
GTCAGTGTAAGACATGTCTGGGACATGGCATCGACACCGATATATGAGA
Found at i:42857080 original size:52 final size:52
Alignment explanation
Indices: 42856967--42857066 Score: 164
Period size: 52 Copynumber: 1.9 Consensus size: 52
42856957 ATAGACCAAA
* *
42856967 ATGTCATCAATTAACACCACTACGAACCGATCCAAATACGGTCTGAAGCAAG
1 ATGTCATCAATGAACACAACTACGAACCGATCCAAATACGGTCTGAAGCAAG
* *
42857019 ATGTCATCAATGAACACAACTATGAACCGATCCAAATATGGTCTGAAG
1 ATGTCATCAATGAACACAACTACGAACCGATCCAAATACGGTCTGAAG
42857067 ATCCGATTCA
Statistics
Matches: 44, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
52 44 1.00
ACGTcount: A:0.39, C:0.24, G:0.16, T:0.21
Consensus pattern (52 bp):
ATGTCATCAATGAACACAACTACGAACCGATCCAAATACGGTCTGAAGCAAG
Found at i:42857482 original size:66 final size:66
Alignment explanation
Indices: 42857376--42857508 Score: 248
Period size: 66 Copynumber: 2.0 Consensus size: 66
42857366 ACTGGTGCAC
* *
42857376 CCCAAGGTGAGAAACTTGGTCGAGCGAAACCTCTATCCGTCAGTTCTTGCAACTGAGCTTTCAAC
1 CCCAAGGTGAGAAACTTGGTCGAGCAAAACCTCTATCCGTCAATTCTTGCAACTGAGCTTTCAAC
42857441 T
66 T
42857442 CCCAAGGTGAGAAACTTGGTCGAGCAAAACCTCTATCCGTCAATTCTTGCAACTGAGCTTTCAAC
1 CCCAAGGTGAGAAACTTGGTCGAGCAAAACCTCTATCCGTCAATTCTTGCAACTGAGCTTTCAAC
42857507 T
66 T
42857508 C
1 C
42857509 TTTTAACTCG
Statistics
Matches: 65, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
66 65 1.00
ACGTcount: A:0.27, C:0.28, G:0.20, T:0.26
Consensus pattern (66 bp):
CCCAAGGTGAGAAACTTGGTCGAGCAAAACCTCTATCCGTCAATTCTTGCAACTGAGCTTTCAAC
T
Found at i:42860156 original size:112 final size:112
Alignment explanation
Indices: 42859954--42860177 Score: 403
Period size: 112 Copynumber: 2.0 Consensus size: 112
42859944 CCTTTTCCCA
*
42859954 TTACGACTTGGATATCTCTCTGCACAGAGCTTCAATACAGATGCCGTTTCTTTCTATGGAAACTA
1 TTACGACTTGGATATCTCTCTGCACAGAGCTTCAATACAGATGCCGTTTCTTTATATGGAAACTA
* *
42860019 GACTCAGGGAGGAATCCATACATATATGGTATGACCCCTAATTATCT
66 GACTCAGAGAGGAATCCATAAATATATGGTATGACCCCTAATTATCT
* *
42860066 TTACGACTTGGATATCTCTCTGCACAGAGCTTCAATACTGATGCCGTTTGTTTATATGGAAACTA
1 TTACGACTTGGATATCTCTCTGCACAGAGCTTCAATACAGATGCCGTTTCTTTATATGGAAACTA
42860131 GACTCAGAGAGGAATCCATAAATATATGGTATGACCCCTAATTATCT
66 GACTCAGAGAGGAATCCATAAATATATGGTATGACCCCTAATTATCT
42860178 CTGATAAATT
Statistics
Matches: 107, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
112 107 1.00
ACGTcount: A:0.29, C:0.21, G:0.18, T:0.32
Consensus pattern (112 bp):
TTACGACTTGGATATCTCTCTGCACAGAGCTTCAATACAGATGCCGTTTCTTTATATGGAAACTA
GACTCAGAGAGGAATCCATAAATATATGGTATGACCCCTAATTATCT
Found at i:42861169 original size:39 final size:40
Alignment explanation
Indices: 42861124--42861255 Score: 185
Period size: 40 Copynumber: 3.3 Consensus size: 40
42861114 GCTCCTCGTT
* * * *
42861124 CAAATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACA
1 CAAATGCCTTCGGGACATAACCCGGATTTAATAACTCGCA
*
42861164 C-AATGCCTTCGGGACATAACCCGGATTTAACAACTCGCA
1 CAAATGCCTTCGGGACATAACCCGGATTTAATAACTCGCA
* *
42861203 CGAATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCA
1 CAAATGCCTTCGGGACATAACCCGGATTTAATAACTCGCA
*
42861243 CAAAGGCCTTCGG
1 CAAATGCCTTCGG
42861256 ATCTTAGTCC
Statistics
Matches: 82, Mismatches: 9, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
39 34 0.41
40 48 0.59
ACGTcount: A:0.28, C:0.29, G:0.20, T:0.23
Consensus pattern (40 bp):
CAAATGCCTTCGGGACATAACCCGGATTTAATAACTCGCA
Found at i:42861268 original size:40 final size:39
Alignment explanation
Indices: 42861124--42861308 Score: 183
Period size: 40 Copynumber: 4.6 Consensus size: 39
42861114 GCTCCTCGTT
* * * *
42861124 CAAATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACA
1 CAAA-GCCTTCGGGACTTAGCCCGGATTTAATAACTCGCA
* * * *
42861164 CAATGCCTTCGGGACATAACCCGGATTTAACAACTCGCA
1 CAAAGCCTTCGGGACTTAGCCCGGATTTAATAACTCGCA
* *
42861203 CGAATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCA
1 C-AAAGCCTTCGGGACTTAGCCCGGATTTAATAACTCGCA
* * * * *
42861243 CAAAGGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCA
1 CAAA-GCCTTCGGGA-CTTAGCCCGGATTTAATAAC-TCGCA
42861284 CAAAGCCTTCGGGACTTAGCCCGGA
1 CAAAGCCTTCGGGACTTAGCCCGGA
42861309 CAGCATTCAA
Statistics
Matches: 124, Mismatches: 16, Indels: 10
0.83 0.11 0.07
Matches are distributed among these distances:
39 36 0.29
40 77 0.62
41 11 0.09
ACGTcount: A:0.28, C:0.28, G:0.21, T:0.24
Consensus pattern (39 bp):
CAAAGCCTTCGGGACTTAGCCCGGATTTAATAACTCGCA
Found at i:42861317 original size:41 final size:41
Alignment explanation
Indices: 42861240--42861317 Score: 97
Period size: 40 Copynumber: 1.9 Consensus size: 41
42861230 TTAATAACTC
* * *
42861240 GCACAAAGGCCTTCGGATCTTAGTCCGGATATATTCACTTA
1 GCACAAAGGCCTTCGGATCTTAGCCCGGACACATTCACTTA
42861281 GCACAAA-GCCTTCGGGA-CTTAGCCCGGACAGCATTCA
1 GCACAAAGGCCTTC-GGATCTTAGCCCGGACA-CATTCA
42861318 ATTAATCATG
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
40 17 0.53
41 15 0.47
ACGTcount: A:0.27, C:0.28, G:0.22, T:0.23
Consensus pattern (41 bp):
GCACAAAGGCCTTCGGATCTTAGCCCGGACACATTCACTTA
Found at i:42870841 original size:27 final size:27
Alignment explanation
Indices: 42870807--42870861 Score: 110
Period size: 27 Copynumber: 2.0 Consensus size: 27
42870797 GGTTGTATGA
42870807 ACATAGACATTGCACTAAGGGAAGAAC
1 ACATAGACATTGCACTAAGGGAAGAAC
42870834 ACATAGACATTGCACTAAGGGAAGAAC
1 ACATAGACATTGCACTAAGGGAAGAAC
42870861 A
1 A
42870862 ACTTGCACCT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.45, C:0.18, G:0.22, T:0.15
Consensus pattern (27 bp):
ACATAGACATTGCACTAAGGGAAGAAC
Found at i:42881220 original size:22 final size:22
Alignment explanation
Indices: 42881189--42881230 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
42881179 CCACATGTTT
42881189 CATTTAATAA-CACTTTTACACA
1 CATTTAATAACCA-TTTTACACA
*
42881211 CATTTTATAACCATTTTACA
1 CATTTAATAACCATTTTACA
42881231 AATTGGTCCT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
22 16 0.89
23 2 0.11
ACGTcount: A:0.38, C:0.21, G:0.00, T:0.40
Consensus pattern (22 bp):
CATTTAATAACCATTTTACACA
Found at i:42888440 original size:42 final size:42
Alignment explanation
Indices: 42888381--42888546 Score: 181
Period size: 42 Copynumber: 3.9 Consensus size: 42
42888371 CATTAGGGTT
*
42888381 AATGAGACTACGTGTAAGACCATATCTGGGATATGGCATCAA
1 AATGAGACTACATGTAAGACCATATCTGGGATATGGCATCAA
* * * *
42888423 AATGAGACTACGTGTAAGACCGTATCTGGGATATGGCACCGA
1 AATGAGACTACATGTAAGACCATATCTGGGATATGGCATCAA
* * * * * *
42888465 TATGAGATTTCATTTAAGACCAGAGCT-GGACTATTGGCATCAA
1 AATGAGACTACATGTAAGACCATATCTGGGA-TA-TGGCATCAA
* * *
42888508 TACGAGATTACATGTAAGACCATATCTGGGATATGGCAT
1 AATGAGACTACATGTAAGACCATATCTGGGATATGGCAT
42888547 TGGTATGGTA
Statistics
Matches: 103, Mismatches: 18, Indels: 6
0.81 0.14 0.05
Matches are distributed among these distances:
41 3 0.03
42 66 0.64
43 31 0.30
44 3 0.03
ACGTcount: A:0.33, C:0.17, G:0.24, T:0.26
Consensus pattern (42 bp):
AATGAGACTACATGTAAGACCATATCTGGGATATGGCATCAA
Found at i:42911136 original size:17 final size:18
Alignment explanation
Indices: 42911114--42911147 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
42911104 TTACATTGAA
42911114 GTGTTTT-AGTGAAAACT
1 GTGTTTTCAGTGAAAACT
*
42911131 GTGTTTTCATTGAAAAC
1 GTGTTTTCAGTGAAAAC
42911148 CCTTCTTAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 7 0.47
18 8 0.53
ACGTcount: A:0.29, C:0.09, G:0.21, T:0.41
Consensus pattern (18 bp):
GTGTTTTCAGTGAAAACT
Found at i:42912272 original size:29 final size:29
Alignment explanation
Indices: 42912200--42912281 Score: 103
Period size: 30 Copynumber: 2.8 Consensus size: 29
42912190 TACCTGTATC
* * *
42912200 TGGCCCATTAAGCCC-AATTATATTCATA
1 TGGCCCATTAAGCCCAAATCACATACATA
* *
42912228 TGGCCCATTAGGGCCCAAATCACCTACATA
1 TGGCCCATTA-AGCCCAAATCACATACATA
42912258 TGGCCCATTAAGCCCAAATCACAT
1 TGGCCCATTAAGCCCAAATCACAT
42912282 TTATATAGCC
Statistics
Matches: 45, Mismatches: 7, Indels: 3
0.82 0.13 0.05
Matches are distributed among these distances:
28 10 0.22
29 16 0.36
30 19 0.42
ACGTcount: A:0.32, C:0.30, G:0.13, T:0.24
Consensus pattern (29 bp):
TGGCCCATTAAGCCCAAATCACATACATA
Found at i:42912287 original size:29 final size:28
Alignment explanation
Indices: 42912200--42912315 Score: 115
Period size: 29 Copynumber: 4.0 Consensus size: 28
42912190 TACCTGTATC
* *
42912200 TGGCCCATTAAGCCCAATTATATTCATA
1 TGGCCCATTAAGCCCAATCACATTCATA
* * *
42912228 TGGCCCATTAGGGCCCAAATCACCTACATA
1 TGGCCCATTA-AGCCC-AATCACATTCATA
*
42912258 TGGCCCATTAAGCCCAAATCACATTTATA
1 TGGCCCATTAAGCCC-AATCACATTCATA
* * * *
42912287 TAGCCCGTTAGGCCCAGTCACATTCATA
1 TGGCCCATTAAGCCCAATCACATTCATA
42912315 T
1 T
42912316 TCATGCTCAC
Statistics
Matches: 72, Mismatches: 14, Indels: 4
0.80 0.16 0.04
Matches are distributed among these distances:
28 22 0.31
29 31 0.43
30 19 0.26
ACGTcount: A:0.30, C:0.29, G:0.14, T:0.27
Consensus pattern (28 bp):
TGGCCCATTAAGCCCAATCACATTCATA
Found at i:42913853 original size:16 final size:16
Alignment explanation
Indices: 42913828--42913858 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
42913818 GAAAGTTCGG
*
42913828 GATTTTGGGATTTTTT
1 GATTTCGGGATTTTTT
42913844 GATTTCGGGATTTTT
1 GATTTCGGGATTTTT
42913859 GGGGCGTTAC
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:0.13, C:0.03, G:0.26, T:0.58
Consensus pattern (16 bp):
GATTTCGGGATTTTTT
Found at i:42916765 original size:28 final size:29
Alignment explanation
Indices: 42916725--42916835 Score: 120
Period size: 29 Copynumber: 3.9 Consensus size: 29
42916715 TGTATCTGGA
* *
42916725 CCATTAAGCCC-AATCATATTCATATGGC
1 CCATTAGGCCCAAATCACATTCATATGGC
* *
42916753 CCATTAGGCCCAAATCAC-TTGTACATGGC
1 CCATTAGGCCCAAATCACATT-CATATGGC
* *
42916782 CCATTAGGCCCAAATAACATTTATATGGC
1 CCATTAGGCCCAAATCACATTCATATGGC
* *
42916811 CCGTTAGGCCC-AGTCACATTCATAT
1 CCATTAGGCCCAAATCACATTCATAT
42916836 TCATGCTCAC
Statistics
Matches: 70, Mismatches: 10, Indels: 6
0.81 0.12 0.07
Matches are distributed among these distances:
28 23 0.33
29 45 0.64
30 2 0.03
ACGTcount: A:0.30, C:0.29, G:0.14, T:0.27
Consensus pattern (29 bp):
CCATTAGGCCCAAATCACATTCATATGGC
Found at i:42920383 original size:50 final size:50
Alignment explanation
Indices: 42920225--42920590 Score: 294
Period size: 50 Copynumber: 7.6 Consensus size: 50
42920215 GATATGTGTA
* * * *
42920225 CTAGTGTAAGA-CATGTCTGGCACAT-GCATTGGCCAC-A-TTATGAGAG
1 CTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGAGATATGAGAG
* * ** * *
42920271 CTAGTGTAAGACCATGTTTGGGACATGACATCGGTATTGAG--ACGAGAG
1 CTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGAGATATGAGAG
* * *
42920319 CTAGTGTAAGACCATGTCTGGGAGATGGCATCAGCCTCGAGATATGAAAG
1 CTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGAGATATGAGAG
* * * * * *
42920369 CTAGCGTAAGACCATGTCTGGGACATAGCATCGG-CT-TA-AGATGTG-T
1 CTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGAGATATGAGAG
* * * * * *
42920415 C-AGAGTAAGAACATGTCTGGGACATGGTATTGGCACT-GACAGATGAGAG
1 CTAGTGTAAGACCATGTCTGGGACATGGCATCGGC-CTCGAGATATGAGAG
* *
42920464 CCAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGATATATGAGAG
1 CTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGAGATATGAGAG
* * ** * *
42920514 -TCAGTGTAAGACCATGTCTGGGACATGGCAT-TGACT-TTGATGTGCGAG
1 CT-AGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGAGATATGAGAG
* *
42920562 CCAGTGTAAGACCATGTCCGGGACATGGC
1 CTAGTGTAAGACCATGTCTGGGACATGGC
42920591 GTCGACATCT
Statistics
Matches: 255, Mismatches: 51, Indels: 26
0.77 0.15 0.08
Matches are distributed among these distances:
45 27 0.11
46 12 0.05
47 19 0.07
48 85 0.33
49 9 0.04
50 103 0.40
ACGTcount: A:0.28, C:0.19, G:0.30, T:0.24
Consensus pattern (50 bp):
CTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGAGATATGAGAG
Found at i:42920586 original size:98 final size:95
Alignment explanation
Indices: 42920264--42920590 Score: 277
Period size: 98 Copynumber: 3.4 Consensus size: 95
42920254 TGGCCACATT
* * * * * * * *
42920264 ATGAGAGCTAGTGTAAGACCATGTTTGGGACATGACATCGGTATTGAGACGAGAGCTAGTGTAAG
1 ATGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGG-CTTAAGATGAG-TC-AGAGTAAG
* * * * *
42920329 ACCATGTCTGGGAGATGGCA-TCAGC-CTCGAGAT
63 AACATGTCTGGGACATGGCATTGA-CACT-GACAG
* * * * *
42920362 ATGAAAGCTAGCGTAAGACCATGTCTGGGACATAGCATCGGCTTAAGATGTGTCAGAGTAAGAAC
1 ATGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCTTAAGATGAGTCAGAGTAAGAAC
* *
42920427 ATGTCTGGGACATGGTATTGGCACTGACAG
66 ATGTCTGGGACATGGCATTGACACTGACAG
*
42920457 ATGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGATATATGA-GAGTCAGTGT
1 ATGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGG-CT---TA-A-GATGAGTCAGAGT
* ** *
42920521 AAGACCATGTCTGGGACATGGCATTGACTTTGA-TG
60 AAGAACATGTCTGGGACATGGCATTGACACTGACAG
* *
42920556 -TGCGAGCCAGTGTAAGACCATGTCCGGGACATGGC
1 ATGAGAGCCAGTGTAAGACCATGTCTGGGACATGGC
42920591 GTCGACATCT
Statistics
Matches: 189, Mismatches: 32, Indels: 16
0.80 0.14 0.07
Matches are distributed among these distances:
95 65 0.34
96 6 0.03
97 7 0.04
98 69 0.37
99 3 0.02
100 37 0.20
101 2 0.01
ACGTcount: A:0.28, C:0.18, G:0.31, T:0.23
Consensus pattern (95 bp):
ATGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCTTAAGATGAGTCAGAGTAAGAAC
ATGTCTGGGACATGGCATTGACACTGACAG
Found at i:42932787 original size:29 final size:29
Alignment explanation
Indices: 42932753--42932826 Score: 96
Period size: 29 Copynumber: 2.6 Consensus size: 29
42932743 TAATCAACCA
* *
42932753 CGCACACTTAGTGCCATGTACTTT-AAAAT
1 CGCACACTTAGTGCCATGCA-TTTCAAAAC
**
42932782 CGCACACTTAGTGCCATGCATTTCAAGCC
1 CGCACACTTAGTGCCATGCATTTCAAAAC
42932811 CGCACACTTAGTGCCA
1 CGCACACTTAGTGCCA
42932827 ATCTCACAAC
Statistics
Matches: 40, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
28 3 0.08
29 37 0.93
ACGTcount: A:0.27, C:0.31, G:0.16, T:0.26
Consensus pattern (29 bp):
CGCACACTTAGTGCCATGCATTTCAAAAC
Found at i:42947364 original size:30 final size:29
Alignment explanation
Indices: 42947321--42947384 Score: 101
Period size: 30 Copynumber: 2.2 Consensus size: 29
42947311 CAAGTAGCCG
*
42947321 AAGCTAGTTAAATCACACACTTAGTGCTA
1 AAGCTAGTTAAATCACACACTTAGTGCCA
*
42947350 AAGCTAGTTTAAATCGCACACTTAGTGCCA
1 AAGCTAG-TTAAATCACACACTTAGTGCCA
42947380 AAGCT
1 AAGCT
42947385 TCCGATTCAT
Statistics
Matches: 32, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
29 7 0.22
30 25 0.78
ACGTcount: A:0.36, C:0.22, G:0.16, T:0.27
Consensus pattern (29 bp):
AAGCTAGTTAAATCACACACTTAGTGCCA
Found at i:42953435 original size:20 final size:20
Alignment explanation
Indices: 42953399--42953438 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
42953389 AAACTGAACC
*
42953399 TAACCAAAATTTTCAAAACT
1 TAACCAAAATTTCCAAAACT
42953419 TAACC-AAATCTTCCAAAACT
1 TAACCAAAAT-TTCCAAAACT
42953439 GTTCAAGTCA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 4 0.22
20 14 0.78
ACGTcount: A:0.47, C:0.25, G:0.00, T:0.28
Consensus pattern (20 bp):
TAACCAAAATTTCCAAAACT
Found at i:42961376 original size:48 final size:48
Alignment explanation
Indices: 42961291--42961552 Score: 250
Period size: 48 Copynumber: 5.5 Consensus size: 48
42961281 ACATGTGGAC
* * * * * ** *
42961291 GCCATATCCCAGATATGGTCTTATACGAAGC-CTCATATCGGTGCCTAT
1 GCCATGTCCCAGACATGGTCTTACAC-TAGCACACATATCAATGCCGAT
* *
42961339 GCCATGTCCCAGACATGGTCTTACACTAGCACACATATCATTGCTGAT
1 GCCATGTCCCAGACATGGTCTTACACTAGCACACATATCAATGCCGAT
* * * *
42961387 GCCATGTCCTAGACATGGTCTTACACTGGCACACATATTAAAGCCGAT
1 GCCATGTCCCAGACATGGTCTTACACTAGCACACATATCAATGCCGAT
* **
42961435 GCCATGTCCCAGACATGGTCTTACACT-GACACATATATCAACACCGAT
1 GCCATGTCCCAGACATGGTCTTACACTAG-CACACATATCAATGCCGAT
* * *
42961483 GCCATGTCCTAGACATGGTCTTACACT-GC-CTC-TCGTC--TCGCCGAT
1 GCCATGTCCCAGACATGGTCTTACACTAGCACACAT-ATCAAT-GCCGAT
*
42961528 GCCATGTCCTAGACATGGTCTTACA
1 GCCATGTCCCAGACATGGTCTTACA
42961553 TGGGATCTTA
Statistics
Matches: 184, Mismatches: 26, Indels: 11
0.83 0.12 0.05
Matches are distributed among these distances:
45 31 0.17
46 3 0.02
47 5 0.03
48 145 0.79
ACGTcount: A:0.26, C:0.30, G:0.18, T:0.27
Consensus pattern (48 bp):
GCCATGTCCCAGACATGGTCTTACACTAGCACACATATCAATGCCGAT
Found at i:42961439 original size:96 final size:93
Alignment explanation
Indices: 42961337--42961552 Score: 281
Period size: 96 Copynumber: 2.3 Consensus size: 93
42961327 ATCGGTGCCT
*** *
42961337 ATGCCATGTCCCAGACATGGTCTTACACT-AGCACACATATCATTGCTGATGCCATGTCCTAGAC
1 ATGCCATGTCCCAGACATGGTCTTACACTGA-CACACATATCAACACCGATGCCATGTCCTAGAC
*
42961401 ATGGTCTTACACTGGCACACATATTAAAGCCG
65 ATGGTCTTACACT-GC-CAC-TAGTAAAGCCG
*
42961433 ATGCCATGTCCCAGACATGGTCTTACACTGACACATATATCAACACCGATGCCATGTCCTAGACA
1 ATGCCATGTCCCAGACATGGTCTTACACTGACACACATATCAACACCGATGCCATGTCCTAGACA
* * ***
42961498 TGGTCTTACACTGCCTCTCGTCTCGCCG
66 TGGTCTTACACTGCCACTAGTAAAGCCG
*
42961526 ATGCCATGTCCTAGACATGGTCTTACA
1 ATGCCATGTCCCAGACATGGTCTTACA
42961553 TGGGATCTTA
Statistics
Matches: 107, Mismatches: 12, Indels: 5
0.86 0.10 0.04
Matches are distributed among these distances:
93 32 0.30
94 2 0.02
95 2 0.02
96 70 0.65
97 1 0.01
ACGTcount: A:0.26, C:0.30, G:0.18, T:0.26
Consensus pattern (93 bp):
ATGCCATGTCCCAGACATGGTCTTACACTGACACACATATCAACACCGATGCCATGTCCTAGACA
TGGTCTTACACTGCCACTAGTAAAGCCG
Found at i:42970061 original size:48 final size:48
Alignment explanation
Indices: 42970005--42970150 Score: 211
Period size: 48 Copynumber: 3.0 Consensus size: 48
42969995 CACGATGTCT
* * * * * *
42970005 CATATCGATGCAAATGTCATATCCCAAATATGGTCTTACATGGGATCA
1 CATATCGATGCCAATGCCATGTCCTAGACATGGTCTTACATGGGATCA
* *
42970053 CATGTCGATGCCAATGCCATGTCCTAGACATGGTCTTACATGGGATCT
1 CATATCGATGCCAATGCCATGTCCTAGACATGGTCTTACATGGGATCA
*
42970101 CATAACGATGCCAATGCCATGTCCTAGACATGGTCTTACATGGGATCA
1 CATATCGATGCCAATGCCATGTCCTAGACATGGTCTTACATGGGATCA
42970149 CA
1 CA
42970151 CATAACCTTA
Statistics
Matches: 87, Mismatches: 11, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
48 87 1.00
ACGTcount: A:0.29, C:0.24, G:0.20, T:0.27
Consensus pattern (48 bp):
CATATCGATGCCAATGCCATGTCCTAGACATGGTCTTACATGGGATCA
Found at i:42972984 original size:40 final size:40
Alignment explanation
Indices: 42972906--42973123 Score: 282
Period size: 40 Copynumber: 5.5 Consensus size: 40
42972896 AAACCAAGTA
* **
42972906 CCTTCGGGATTTAG-CCGGATATAGCT-ACTCGCTTAAATG
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATG
*
42972945 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
*
42972985 CCTTCGGGACTTAGCCCGGATATAGTAACTCACACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
*
42973025 CCTTCGGGACTTAGCTCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* * *
42973065 CCTTCAGGG-CTTAGCCTGGA-ATTAGTCACTAGCACAAATG
1 CCTTC-GGGACTTAGCCCGGATA-TAGTAACTCGCACAAATG
* *
42973105 CCTTTGGGACTCAGCCCGG
1 CCTTCGGGACTTAGCCCGG
42973124 TTATTCATGC
Statistics
Matches: 159, Mismatches: 15, Indels: 9
0.87 0.08 0.05
Matches are distributed among these distances:
39 18 0.11
40 138 0.87
41 3 0.02
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:42981192 original size:40 final size:40
Alignment explanation
Indices: 42981115--42981292 Score: 306
Period size: 40 Copynumber: 4.5 Consensus size: 40
42981105 AAACCAAGTA
* *
42981115 CCTTCGGGATTTAG-CCGGATATAGCT-ACTCGCTCAAATG
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATG
*
42981154 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
42981194 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
42981234 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
42981274 CCTTCGGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
42981293 TTATCATCTG
Statistics
Matches: 133, Mismatches: 4, Indels: 3
0.95 0.03 0.02
Matches are distributed among these distances:
39 14 0.11
40 119 0.89
ACGTcount: A:0.24, C:0.28, G:0.24, T:0.24
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:42983312 original size:44 final size:41
Alignment explanation
Indices: 42983244--42983408 Score: 123
Period size: 43 Copynumber: 3.9 Consensus size: 41
42983234 TTCCAATATG
* * **
42983244 TGATTTAGTGTAAGATCACATCTGGGACATTGGCATCGATT
1 TGATTTCGTGTAAGACCATGTCTGGGACATTGGCATCGATT
* * * *
42983285 TGAGATTTACGTGTAAGGCTATGTCTGGGACATCGGCATCACATT
1 T--GATTT-CGTGTAAGACCATGTCTGGGACATTGGCATC-GATT
* * *
42983330 TGATTTCGTGTGAGACCCTGTCTGGGACAGTGGCATCGATATT
1 TGATTTCGTGTAAGACCATGTCTGGGACATTGGCATCG--ATT
* * * * **
42983373 TGAGTACATGTAAGACCACGTCTGGGATGTTGGCAT
1 TGATTTCGTGTAAGACCATGTCTGGGACATTGGCAT
42983409 TATACGAGCT
Statistics
Matches: 94, Mismatches: 24, Indels: 10
0.73 0.19 0.08
Matches are distributed among these distances:
41 1 0.01
42 25 0.27
43 40 0.43
44 24 0.26
45 4 0.04
ACGTcount: A:0.24, C:0.17, G:0.28, T:0.32
Consensus pattern (41 bp):
TGATTTCGTGTAAGACCATGTCTGGGACATTGGCATCGATT
Found at i:42984136 original size:23 final size:22
Alignment explanation
Indices: 42984105--42984150 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 22
42984095 TTATGAATCA
* *
42984105 TATGTTTTGTTATGATTTTGGTT
1 TATGATTTGGTATG-TTTTGGTT
42984128 TATGATTTGGTATGTTTTGGTT
1 TATGATTTGGTATGTTTTGGTT
42984150 T
1 T
42984151 GAATATAAGC
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
22 9 0.43
23 12 0.57
ACGTcount: A:0.13, C:0.00, G:0.24, T:0.63
Consensus pattern (22 bp):
TATGATTTGGTATGTTTTGGTT
Found at i:42984764 original size:27 final size:27
Alignment explanation
Indices: 42984734--42984786 Score: 90
Period size: 27 Copynumber: 2.0 Consensus size: 27
42984724 TTTAGTCTCG
42984734 ACCTCTTTCTAAAGCACA-TTTAAGGTA
1 ACCTCTTTCTAAAGCA-AGTTTAAGGTA
42984761 ACCTCTTTCTAAAGCAAGTTTAAGGT
1 ACCTCTTTCTAAAGCAAGTTTAAGGT
42984787 CTTGTTAACC
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
26 1 0.04
27 24 0.96
ACGTcount: A:0.32, C:0.21, G:0.13, T:0.34
Consensus pattern (27 bp):
ACCTCTTTCTAAAGCAAGTTTAAGGTA
Found at i:42991011 original size:27 final size:27
Alignment explanation
Indices: 42990980--42991085 Score: 124
Period size: 27 Copynumber: 3.9 Consensus size: 27
42990970 TTTTTTTTAA
42990980 GATTCTCCACAAAGGCTTTCATTTCAT
1 GATTCTCCACAAAGGCTTTCATTTCAT
** * *
42991007 GATTCTTTATAAAGGTTTTCATTTCAT
1 GATTCTCCACAAAGGCTTTCATTTCAT
* *
42991034 GATT-TGCCACAAAAGCTTTCATTTTAT
1 GATTCT-CCACAAAGGCTTTCATTTCAT
* *
42991061 GATTTTCCACAAAGGCTCTCATTTC
1 GATTCTCCACAAAGGCTTTCATTTC
42991086 CTTTCCTGAT
Statistics
Matches: 64, Mismatches: 13, Indels: 4
0.79 0.16 0.05
Matches are distributed among these distances:
26 1 0.02
27 62 0.97
28 1 0.02
ACGTcount: A:0.26, C:0.21, G:0.11, T:0.42
Consensus pattern (27 bp):
GATTCTCCACAAAGGCTTTCATTTCAT
Found at i:43003349 original size:42 final size:44
Alignment explanation
Indices: 43003270--43003375 Score: 110
Period size: 42 Copynumber: 2.5 Consensus size: 44
43003260 CATCGACTTA
* *** *
43003270 TGATTTACGTGTAAGACCATGTCTGGGATGTTAGCATC-GTATT
1 TGATTTACGTGTAAGACCATGCCTGGGACAATAGCATCAATATT
* *
43003313 TGATTT-CGTGTAAGACCCTGCCTGGGACAATGGCATCAATATT
1 TGATTTACGTGTAAGACCATGCCTGGGACAATAGCATCAATATT
* *
43003356 TGA-TTACATGTAACACCATG
1 TGATTTACGTGTAAGACCATG
43003376 TTTGGGACGT
Statistics
Matches: 51, Mismatches: 10, Indels: 4
0.78 0.15 0.06
Matches are distributed among these distances:
42 27 0.53
43 24 0.47
ACGTcount: A:0.26, C:0.18, G:0.23, T:0.33
Consensus pattern (44 bp):
TGATTTACGTGTAAGACCATGCCTGGGACAATAGCATCAATATT
Found at i:43008657 original size:641 final size:641
Alignment explanation
Indices: 43007436--43009363 Score: 3703
Period size: 641 Copynumber: 3.0 Consensus size: 641
43007426 AAGTGTAGCA
* * *
43007436 AATGTGAATTCTGGTTATAAGAAGTCGATTTTATAGGCCATATTGTGTCAGCATCAGGTATCCAA
1 AATGTGAATTCTGGTTATAAGAAGTCGGTTTTATAGGCCATATGGTGTCAGCATCAGATATCCAA
*
43007501 GTTGGTCTGAGCAAAATTTTAGCTATTTTGGATTGGAAGCCTCTGAGAAATGTCTCCGAAGTCTG
66 GTTGATCTGAGCAAAATTTTAGCTATTTTGGATTGGAAGCCTCTGAGAAATGTCTCCGAAGTCTG
* *
43007566 CAATTTTCTGGGACTTGCCGGTTATTATAGGAGTTTTGTAAAAGGCTTTTTAATGATCACGACTC
131 CAATTTTCTGGGACTTGCCGGTTATTATAGGAGTTTTGTAAAAGGCTTTTTGATGATCACGATTC
**
43007631 CATTGATGAAACTACTTTAGAAAGATGTGAAATTTGATTGGTTTAAAAAGTGTCAGAAAAGCTTT
196 CATTGACAAAACTACTTTAGAAAGATGTGAAATTTGATTGGTTTAAAAAGTGTCAGAAAAGCTTT
* *
43007696 GATCAGTTGAAAGCTCTATTGACTGAAGCCCTAGTGTTAGTACAACCAGAATAGGGTAAAGAATT
261 GATCAGTTGAAAGCTCTATTAACTGAAGCCCCAGTGTTAGTACAACCAGAATAGGGTAAAGAATT
*
43007761 TGTGATCTACAGTGATGCTTCATTAAACTGTCTAGGATGTGTTTTGATGCTAGAAGACAAAGTCA
326 TGTGATCTACAGTGATGCTTCATTAAACTGTCTAGGATGTGTTTTGATGCTGGAAGACAAAGTCA
* *
43007826 TTGCTTATGTTTTGAGACAGTTAAAGCCACATGAAAAGAACTAGCCGACGCATAACCTTGAGTTA
391 TTGCTTATGTTTTGAGATAGTTAAAGCCACATGAAAAGAACTAGCCGACGCATGACCTTGAGTTA
*
43007891 GCTGGGATTGTATTTGCTTTGAAGATTTGGCGCCACTATTGTTTTGGAGAGAAATGTCTCGTATA
456 GCTGCGATTGTATTTGCTTTGAAGATTTGGCGCCACTATTGTTTTGGAGAGAAATGTCTCGTATA
43007956 TTCTGATCATAAGAGTTTGAAATATCTGATGACTCAGAAAGATCTGAATCTGTGACAAAGAAGAC
521 TTCTGATCATAAGAGTTTGAAATATCTGATGACTCAGAAAGATCTGAATCTGTGACAAAGAAGAC
43008021 GACTAGAGTTACTGAAAGACTATGAGCTTGTTATTGATTATCATCCAGGAAAAGCT
586 GACTAGAGTTACTGAAAGACTATGAGCTTGTTATTGATTATCATCCAGGAAAAGCT
43008077 AATGTGAATTCTGGTTATAAGAAGTCGGTTTTATAGGCCATATGGTGTCAGCATCAGATATCCAA
1 AATGTGAATTCTGGTTATAAGAAGTCGGTTTTATAGGCCATATGGTGTCAGCATCAGATATCCAA
43008142 GTTGATCTGAGCAAAATTTTAGCTATTTTGGATTGGAAGCCTCTGAGAAATGTCTCCGAAGTCTG
66 GTTGATCTGAGCAAAATTTTAGCTATTTTGGATTGGAAGCCTCTGAGAAATGTCTCCGAAGTCTG
43008207 CAATTTTCTGGGACTTGCCGGTTATTATAGGAGTTTTGTAAAAGGCTTTTTGATGATCACGATTC
131 CAATTTTCTGGGACTTGCCGGTTATTATAGGAGTTTTGTAAAAGGCTTTTTGATGATCACGATTC
43008272 CATTGACAAAACTACTTTAGAAAGATGTGAAATTTGATTGGTTTAAAAAGTGTCAGAAAAGCTTT
196 CATTGACAAAACTACTTTAGAAAGATGTGAAATTTGATTGGTTTAAAAAGTGTCAGAAAAGCTTT
43008337 GATCAGTTGAAAGCTCTATTAACTGAAGCCCCAGTGTTAGTACAACCAGAATAGGGTAAAGAATT
261 GATCAGTTGAAAGCTCTATTAACTGAAGCCCCAGTGTTAGTACAACCAGAATAGGGTAAAGAATT
43008402 TGTGATCTACAGTGATGCTTCATTAAACTGTCTAGGATGTGTTTTGATGCTGGAAGACAAAGTCA
326 TGTGATCTACAGTGATGCTTCATTAAACTGTCTAGGATGTGTTTTGATGCTGGAAGACAAAGTCA
43008467 TTGCTTATGTTTTGAGATAGTTAAAGCCACATGAAAAGAACTAGCCGACGCATGACCTTGAGTTA
391 TTGCTTATGTTTTGAGATAGTTAAAGCCACATGAAAAGAACTAGCCGACGCATGACCTTGAGTTA
43008532 GCTGCGATTGTATTTGCTTTGAAGATTTGGCGCCACTATTGTTTTGGAGAGAAATGTCTCGTATA
456 GCTGCGATTGTATTTGCTTTGAAGATTTGGCGCCACTATTGTTTTGGAGAGAAATGTCTCGTATA
43008597 TTCTGATCATAAGAGTTTGAAATATCTGATGACTCAGAAAGATCTGAATCTGTGACAAAGAAGAC
521 TTCTGATCATAAGAGTTTGAAATATCTGATGACTCAGAAAGATCTGAATCTGTGACAAAGAAGAC
43008662 GACTAGAGTTACTGAAAGACTATGAGCTTGTTATTGATTATCATCCAGGAAAAGCT
586 GACTAGAGTTACTGAAAGACTATGAGCTTGTTATTGATTATCATCCAGGAAAAGCT
43008718 AATGTGAATTCTGGTTATAAGAAGTCGGTTTTATAGGCCATATGGTGTCAGCATCAGATATCCAA
1 AATGTGAATTCTGGTTATAAGAAGTCGGTTTTATAGGCCATATGGTGTCAGCATCAGATATCCAA
43008783 GTTGATCTGAGCAAAATTTTAGCTATTTTGGATTGGAAGCCTCTGAGAAATGTCTCCGAAGTCTG
66 GTTGATCTGAGCAAAATTTTAGCTATTTTGGATTGGAAGCCTCTGAGAAATGTCTCCGAAGTCTG
43008848 CAATTTTCTGGGACTTGCCGGTTATTATAGGAGTTTTGTAAAAGGCTTTTTGATGATCACGATTC
131 CAATTTTCTGGGACTTGCCGGTTATTATAGGAGTTTTGTAAAAGGCTTTTTGATGATCACGATTC
43008913 CATTGACAAAACTACTTTAGAAAGATGTGAAATTTGATTGGTTTAAAAAGTGTCAGAAAAGCTTT
196 CATTGACAAAACTACTTTAGAAAGATGTGAAATTTGATTGGTTTAAAAAGTGTCAGAAAAGCTTT
43008978 GATCAGTTGAAAGCTCTATTAACTGAAGCCCCAGTGTTAGTACAACCAGAATAGGGTAAAGAATT
261 GATCAGTTGAAAGCTCTATTAACTGAAGCCCCAGTGTTAGTACAACCAGAATAGGGTAAAGAATT
43009043 TGTGATCTACAGTGATGCTTCATTAAACTGTCTAGGATGTGTTTTGATGCTGGAAGACAAAGTCA
326 TGTGATCTACAGTGATGCTTCATTAAACTGTCTAGGATGTGTTTTGATGCTGGAAGACAAAGTCA
43009108 TTGCTTATGTTTTGAGATAGTTAAAGCCACATGAAAAGAACTAGCCGACGCATGACCTTGAGTTA
391 TTGCTTATGTTTTGAGATAGTTAAAGCCACATGAAAAGAACTAGCCGACGCATGACCTTGAGTTA
43009173 GCTGCGATTGTATTTGCTTTGAAGATTTGGCGCCACTATTGTTTTGGAGAGAAATGTCTCGTATA
456 GCTGCGATTGTATTTGCTTTGAAGATTTGGCGCCACTATTGTTTTGGAGAGAAATGTCTCGTATA
43009238 TTCTGATCATAAGAGTTTGAAATATCTGATGACTCAGAAAGATCTGAATCTGTGACAAAGAAGAC
521 TTCTGATCATAAGAGTTTGAAATATCTGATGACTCAGAAAGATCTGAATCTGTGACAAAGAAGAC
** *
43009303 GACTAGAGTTACTGAAAGACTATGAGCTTGTTATTGATTATCATCTGGGAAAGGCT
586 GACTAGAGTTACTGAAAGACTATGAGCTTGTTATTGATTATCATCCAGGAAAAGCT
43009359 AATGT
1 AATGT
43009364 TGTTGCTGAT
Statistics
Matches: 1270, Mismatches: 17, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
641 1270 1.00
ACGTcount: A:0.31, C:0.14, G:0.23, T:0.32
Consensus pattern (641 bp):
AATGTGAATTCTGGTTATAAGAAGTCGGTTTTATAGGCCATATGGTGTCAGCATCAGATATCCAA
GTTGATCTGAGCAAAATTTTAGCTATTTTGGATTGGAAGCCTCTGAGAAATGTCTCCGAAGTCTG
CAATTTTCTGGGACTTGCCGGTTATTATAGGAGTTTTGTAAAAGGCTTTTTGATGATCACGATTC
CATTGACAAAACTACTTTAGAAAGATGTGAAATTTGATTGGTTTAAAAAGTGTCAGAAAAGCTTT
GATCAGTTGAAAGCTCTATTAACTGAAGCCCCAGTGTTAGTACAACCAGAATAGGGTAAAGAATT
TGTGATCTACAGTGATGCTTCATTAAACTGTCTAGGATGTGTTTTGATGCTGGAAGACAAAGTCA
TTGCTTATGTTTTGAGATAGTTAAAGCCACATGAAAAGAACTAGCCGACGCATGACCTTGAGTTA
GCTGCGATTGTATTTGCTTTGAAGATTTGGCGCCACTATTGTTTTGGAGAGAAATGTCTCGTATA
TTCTGATCATAAGAGTTTGAAATATCTGATGACTCAGAAAGATCTGAATCTGTGACAAAGAAGAC
GACTAGAGTTACTGAAAGACTATGAGCTTGTTATTGATTATCATCCAGGAAAAGCT
Found at i:43012342 original size:43 final size:42
Alignment explanation
Indices: 43012185--43012347 Score: 170
Period size: 43 Copynumber: 3.8 Consensus size: 42
43012175 TATGTGTTCT
* * **
43012185 CGTGTATGACAACGTCTGGGACGTTGGCATTGCCTTATGATTTA
1 CGTGTAAGACCACGTCTGGGACGTTGGCATTGTATT-TGA-TTA
* * *
43012229 CGTGTAAGACCACGTCTGGGACGTTGCCATCGTATTTGATTT
1 CGTGTAAGACCACGTCTGGGACGTTGGCATTGTATTTGATTA
*
43012271 CGTGTAAGACC-CTGTCTAGGACAG-TGGCATTGATATTTGATTA
1 CGTGTAAGACCAC-GTCTGGGAC-GTTGGCATTG-TATTTGATTA
*
43012314 CATGTAAGACCACGTCTAGGG-CGTTGGCATTGTA
1 CGTGTAAGACCACGTCT-GGGACGTTGGCATTGTA
43012348 CGAGCTTTCC
Statistics
Matches: 100, Mismatches: 13, Indels: 14
0.79 0.10 0.11
Matches are distributed among these distances:
41 1 0.01
42 30 0.30
43 36 0.36
44 33 0.33
ACGTcount: A:0.22, C:0.19, G:0.27, T:0.32
Consensus pattern (42 bp):
CGTGTAAGACCACGTCTGGGACGTTGGCATTGTATTTGATTA
Found at i:43016702 original size:43 final size:43
Alignment explanation
Indices: 43016648--43016815 Score: 266
Period size: 43 Copynumber: 3.9 Consensus size: 43
43016638 GTTGGTATTA
*
43016648 TATTCGGGCCTTCGTGCCTAGCAGGCTTAGTGCCGGTGATGTG
1 TATTCAGGCCTTCGTGCCTAGCAGGCTTAGTGCCGGTGATGTG
*
43016691 TATTCAGGCCTTCGTGCCTAGCAGGCTTAGTGTCGGTGATGTG
1 TATTCAGGCCTTCGTGCCTAGCAGGCTTAGTGCCGGTGATGTG
*
43016734 TATTCAGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTG
1 TATTCAGGCCTTCGTGCCTAGCAGGCTTAGTGCCGGTGATGTG
* * *
43016777 TATTC-GTGCCTTCGTGCCTAGTAGGCGTAATGCCGGTGA
1 TATTCAG-GCCTTCGTGCCTAGCAGGCTTAGTGCCGGTGA
43016816 AATGATATGT
Statistics
Matches: 116, Mismatches: 8, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
42 1 0.01
43 115 0.99
ACGTcount: A:0.13, C:0.23, G:0.33, T:0.31
Consensus pattern (43 bp):
TATTCAGGCCTTCGTGCCTAGCAGGCTTAGTGCCGGTGATGTG
Found at i:43016749 original size:86 final size:84
Alignment explanation
Indices: 43016627--43016802 Score: 264
Period size: 86 Copynumber: 2.1 Consensus size: 84
43016617 GATAAATCCC
* *
43016627 GCAGGCCTAGTGTTGGTATTATATTCGGGCCTTCGTGCCTAGCAGGCTTAGTGCCGGTGATGTGT
1 GCAGGCCTAGTGTCGGTATTATATTCAGGCCTTCGTGCCTAGCAGGCTTAGTGCCGGTGATGTGT
43016692 ATTCAG-GCCTTCGTGCCTA
66 ATTC-GTGCCTTCGTGCCTA
* * *
43016711 GCAGGCTTAGTGTCGGTGATGTGTATTCAGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGT
1 GCAGGCCTAGTGTCGGT-AT-TATATTCAGGCCTTCGTGCCTAGCAGGCTTAGTGCCGGTGATGT
43016776 GTATTCGTGCCTTCGTGCCTA
64 GTATTCGTGCCTTCGTGCCTA
*
43016797 GTAGGC
1 GCAGGC
43016803 GTAATGCCGG
Statistics
Matches: 83, Mismatches: 6, Indels: 4
0.89 0.06 0.04
Matches are distributed among these distances:
84 15 0.18
85 3 0.04
86 65 0.78
ACGTcount: A:0.13, C:0.23, G:0.32, T:0.32
Consensus pattern (84 bp):
GCAGGCCTAGTGTCGGTATTATATTCAGGCCTTCGTGCCTAGCAGGCTTAGTGCCGGTGATGTGT
ATTCGTGCCTTCGTGCCTA
Found at i:43017206 original size:45 final size:44
Alignment explanation
Indices: 43017132--43017258 Score: 138
Period size: 45 Copynumber: 2.9 Consensus size: 44
43017122 TTGACTTGAT
* **
43017132 TATTCGGGCCTTTGAG-CTAAGCAAACTATAATGCCGGTGAGATAC
1 TATTCGGGCCTTCGAGCCT-AGCAGGCTATAATGCCGGTGAGA-AC
43017177 TATTCGGGCCTTCGAGCCTAGCAGGCTATAATGCCGGT--GAAC
1 TATTCGGGCCTTCGAGCCTAGCAGGCTATAATGCCGGTGAGAAC
* *
43017219 TGATATCGGGCC-TCGAGCCTAACAGGCGA-AATGCCGGTGA
1 T-AT-TCGGGCCTTCGAGCCTAGCAGGCTATAATGCCGGTGA
43017259 TTTGAGAAAA
Statistics
Matches: 72, Mismatches: 5, Indels: 11
0.82 0.06 0.12
Matches are distributed among these distances:
42 12 0.17
43 19 0.26
44 7 0.10
45 32 0.44
46 2 0.03
ACGTcount: A:0.25, C:0.24, G:0.28, T:0.23
Consensus pattern (44 bp):
TATTCGGGCCTTCGAGCCTAGCAGGCTATAATGCCGGTGAGAAC
Found at i:43022140 original size:38 final size:38
Alignment explanation
Indices: 43022076--43022155 Score: 106
Period size: 38 Copynumber: 2.1 Consensus size: 38
43022066 GATGTGTATT
* * * *
43022076 CGGGTTAAATCCCGCAGGCTTCGTGCTGGTATTATATC
1 CGGGATAAATCCCGCAGGCCTAGTGCTAGTATTATATC
* *
43022114 CGGGATAAATCCCGCAGTCCTAGTGCTAGTATTATATT
1 CGGGATAAATCCCGCAGGCCTAGTGCTAGTATTATATC
43022152 CGGG
1 CGGG
43022156 CCTTCGGGCC
Statistics
Matches: 36, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
38 36 1.00
ACGTcount: A:0.21, C:0.23, G:0.26, T:0.30
Consensus pattern (38 bp):
CGGGATAAATCCCGCAGGCCTAGTGCTAGTATTATATC
Found at i:43022215 original size:27 final size:27
Alignment explanation
Indices: 43022177--43022235 Score: 109
Period size: 27 Copynumber: 2.2 Consensus size: 27
43022167 AGCAGGCTTA
43022177 GTGCCGGTGATGTGTATTCGAGCCTTC
1 GTGCCGGTGATGTGTATTCGAGCCTTC
*
43022204 GTGCCGGTGATGTGTATTCGGGCCTTC
1 GTGCCGGTGATGTGTATTCGAGCCTTC
43022231 GTGCC
1 GTGCC
43022236 TAGCAAGCTT
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
27 31 1.00
ACGTcount: A:0.08, C:0.24, G:0.36, T:0.32
Consensus pattern (27 bp):
GTGCCGGTGATGTGTATTCGAGCCTTC
Found at i:43022228 original size:70 final size:70
Alignment explanation
Indices: 43022148--43022278 Score: 235
Period size: 70 Copynumber: 1.9 Consensus size: 70
43022138 GCTAGTATTA
*
43022148 TATTCGGGCCTTCGGGCCTAGCAGGCTTAGTGCCGGTGATGTGTATTCGAGCCTTCGTGCCGGTG
1 TATTCGGGCCTTCGGGCCTAGCAAGCTTAGTGCCGGTGATGTGTATTCGAGCCTTCGTGCCGGTG
43022213 ATGTG
66 ATGTG
* *
43022218 TATTCGGGCCTTCGTGCCTAGCAAGCTTCGTGCCGGTGATGTGTATTCGAGCCTTCGTGCC
1 TATTCGGGCCTTCGGGCCTAGCAAGCTTAGTGCCGGTGATGTGTATTCGAGCCTTCGTGCC
43022279 TAGCAGGCGT
Statistics
Matches: 58, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
70 58 1.00
ACGTcount: A:0.11, C:0.25, G:0.33, T:0.31
Consensus pattern (70 bp):
TATTCGGGCCTTCGGGCCTAGCAAGCTTAGTGCCGGTGATGTGTATTCGAGCCTTCGTGCCGGTG
ATGTG
Found at i:43022261 original size:43 final size:43
Alignment explanation
Indices: 43022200--43022283 Score: 159
Period size: 43 Copynumber: 2.0 Consensus size: 43
43022190 GTATTCGAGC
*
43022200 CTTCGTGCCGGTGATGTGTATTCGGGCCTTCGTGCCTAGCAAG
1 CTTCGTGCCGGTGATGTGTATTCGAGCCTTCGTGCCTAGCAAG
43022243 CTTCGTGCCGGTGATGTGTATTCGAGCCTTCGTGCCTAGCA
1 CTTCGTGCCGGTGATGTGTATTCGAGCCTTCGTGCCTAGCA
43022284 GGCGTAATGC
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
43 40 1.00
ACGTcount: A:0.12, C:0.26, G:0.31, T:0.31
Consensus pattern (43 bp):
CTTCGTGCCGGTGATGTGTATTCGAGCCTTCGTGCCTAGCAAG
Found at i:43022295 original size:43 final size:43
Alignment explanation
Indices: 43022205--43022299 Score: 145
Period size: 43 Copynumber: 2.2 Consensus size: 43
43022195 CGAGCCTTCG
* * **
43022205 TGCCGGTGATGTGTATTCGGGCCTTCGTGCCTAGCAAGCTTCG
1 TGCCGGTGATGTGTATTCGAGCCTTCGTGCCTAGCAAGCGTAA
*
43022248 TGCCGGTGATGTGTATTCGAGCCTTCGTGCCTAGCAGGCGTAA
1 TGCCGGTGATGTGTATTCGAGCCTTCGTGCCTAGCAAGCGTAA
43022291 TGCCGGTGA
1 TGCCGGTGA
43022300 AATGATATGT
Statistics
Matches: 47, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
43 47 1.00
ACGTcount: A:0.14, C:0.24, G:0.34, T:0.28
Consensus pattern (43 bp):
TGCCGGTGATGTGTATTCGAGCCTTCGTGCCTAGCAAGCGTAA
Found at i:43022683 original size:45 final size:42
Alignment explanation
Indices: 43022616--43022723 Score: 119
Period size: 45 Copynumber: 2.5 Consensus size: 42
43022606 TTGACTTGAT
* *
43022616 TATTCGGGCCTTTGAGCTTAGCAAACTATAATGCCGGTGAGATAC
1 TATTCGGGCCTTCGAGCCTAGCAAACTATAATGCCGGT--GA-AC
***
43022661 TATTCGGGCCTTCGAGCCTAGCAGGTTATAATGCCGGTGAAC
1 TATTCGGGCCTTCGAGCCTAGCAAACTATAATGCCGGTGAAC
43022703 TGATATCGGGCC-TCGAGCCTA
1 T-AT-TCGGGCCTTCGAGCCTA
43022724 ACAGGCGAAA
Statistics
Matches: 56, Mismatches: 5, Indels: 6
0.84 0.07 0.09
Matches are distributed among these distances:
42 3 0.05
43 13 0.23
44 7 0.12
45 33 0.59
ACGTcount: A:0.23, C:0.23, G:0.27, T:0.27
Consensus pattern (42 bp):
TATTCGGGCCTTCGAGCCTAGCAAACTATAATGCCGGTGAAC
Found at i:43029903 original size:33 final size:32
Alignment explanation
Indices: 43029850--43029921 Score: 83
Period size: 33 Copynumber: 2.2 Consensus size: 32
43029840 GGCCCTGCCG
**
43029850 TGGTCTTTCATTCACATGCCATAACCCGGTTA
1 TGGTCTTTCATTCACATGCCATAACCCGACTA
* *
43029882 TGGTCTTGTTATTCA-ATTGCCATAGCCCGACTA
1 TGGTCTT-TCATTCACA-TGCCATAACCCGACTA
43029915 TGGTCTT
1 TGGTCTT
43029922 ATTTGGCAAC
Statistics
Matches: 34, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
32 8 0.24
33 26 0.76
ACGTcount: A:0.19, C:0.25, G:0.18, T:0.38
Consensus pattern (32 bp):
TGGTCTTTCATTCACATGCCATAACCCGACTA
Found at i:43038395 original size:21 final size:21
Alignment explanation
Indices: 43038371--43038413 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
43038361 ACAACATCAT
43038371 TCACACACTTGACATAATAAG
1 TCACACACTTGACATAATAAG
43038392 TCACACACTTGACATAATAAG
1 TCACACACTTGACATAATAAG
43038413 T
1 T
43038414 AATCATATAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.42, C:0.23, G:0.09, T:0.26
Consensus pattern (21 bp):
TCACACACTTGACATAATAAG
Found at i:43046077 original size:38 final size:38
Alignment explanation
Indices: 43046035--43046243 Score: 166
Period size: 38 Copynumber: 5.0 Consensus size: 38
43046025 TTTCAAATTA
*
43046035 ACATGTATAACCGTGGCATATCCACTTAGCACCACGTT
1 ACATGTATAACCGTGGTATATCCACTTAGCACCACGTT
*
43046073 ACATGTTTAACCGTGGTATATCCACTTAGCACCACGTTAAT
1 ACATGTATAACCGTGGTATATCCACTTAGCACCACG-T--T
* *
43046114 GAATCGATATATGTAACCGTGGCATATCCACTTAGCACCACGTT
1 --A-C-ATGTA--TAACCGTGGTATATCCACTTAGCACCACGTT
* * *
43046158 ACATGTATCAATATGTGTAATCGTGGTATATCCACTTAGAACCACATT
1 ACATG------TA----TAACCGTGGTATATCCACTTAGCACCACGTT
* *
43046206 ACACGTTTAACCGTGGTATATCCACTTAGCACCACGTT
1 ACATGTATAACCGTGGTATATCCACTTAGCACCACGTT
43046244 TTTCCATTAC
Statistics
Matches: 139, Mismatches: 15, Indels: 34
0.74 0.08 0.18
Matches are distributed among these distances:
38 62 0.45
39 1 0.01
40 2 0.01
41 2 0.01
42 2 0.01
43 1 0.01
44 2 0.01
45 3 0.02
46 3 0.02
47 28 0.20
48 33 0.24
ACGTcount: A:0.30, C:0.25, G:0.16, T:0.30
Consensus pattern (38 bp):
ACATGTATAACCGTGGTATATCCACTTAGCACCACGTT
Found at i:43046196 original size:48 final size:48
Alignment explanation
Indices: 43046075--43046208 Score: 189
Period size: 48 Copynumber: 2.8 Consensus size: 48
43046065 ACCACGTTAC
* *
43046075 ATGTTTAACCGTGGTATATCCACTTAGCACCACGTTA-ATGAATCGAT
1 ATGTGTAACCGTGGTATATCCACTTAGCACCACGTTACATGAATCAAT
* * *
43046122 ATATGTAACCGTGGCATATCCACTTAGCACCACGTTACATGTATCAAT
1 ATGTGTAACCGTGGTATATCCACTTAGCACCACGTTACATGAATCAAT
* * *
43046170 ATGTGTAATCGTGGTATATCCACTTAGAACCACATTACA
1 ATGTGTAACCGTGGTATATCCACTTAGCACCACGTTACA
43046209 CGTTTAACCG
Statistics
Matches: 76, Mismatches: 10, Indels: 1
0.87 0.11 0.01
Matches are distributed among these distances:
47 34 0.45
48 42 0.55
ACGTcount: A:0.31, C:0.22, G:0.16, T:0.31
Consensus pattern (48 bp):
ATGTGTAACCGTGGTATATCCACTTAGCACCACGTTACATGAATCAAT
Found at i:43053315 original size:16 final size:16
Alignment explanation
Indices: 43053294--43053324 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
43053284 CAATGGAATA
*
43053294 GAATAGGGTTGTAATG
1 GAATAGAGTTGTAATG
43053310 GAATAGAGTTGTAAT
1 GAATAGAGTTGTAAT
43053325 CAATAATTCA
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:0.00, G:0.32, T:0.32
Consensus pattern (16 bp):
GAATAGAGTTGTAATG
Found at i:43066947 original size:18 final size:18
Alignment explanation
Indices: 43066924--43067021 Score: 117
Period size: 18 Copynumber: 5.4 Consensus size: 18
43066914 ATATGAAAAC
*
43066924 AAAATAAACATGAAA-AGA
1 AAAATAAAAAT-AAACAGA
*
43066942 AAAATAAAAATAAACATA
1 AAAATAAAAATAAACAGA
* *
43066960 AAAATAAACATAAAGAGA
1 AAAATAAAAATAAACAGA
*
43066978 AAAATAAAAATAAACATA
1 AAAATAAAAATAAACAGA
*
43066996 AAAATAAAAATAAACATA
1 AAAATAAAAATAAACAGA
*
43067014 AAGATAAA
1 AAAATAAA
43067022 TGGACTCAAT
Statistics
Matches: 70, Mismatches: 9, Indels: 2
0.86 0.11 0.02
Matches are distributed among these distances:
17 3 0.04
18 67 0.96
ACGTcount: A:0.76, C:0.05, G:0.05, T:0.14
Consensus pattern (18 bp):
AAAATAAAAATAAACAGA
Found at i:43066951 original size:12 final size:12
Alignment explanation
Indices: 43066924--43067021 Score: 106
Period size: 12 Copynumber: 8.2 Consensus size: 12
43066914 ATATGAAAAC
* *
43066924 AAAATAAACATG
1 AAAATAAAAATA
*
43066936 AAAAGAAAAATA
1 AAAATAAAAATA
*
43066948 AAAATAAACATA
1 AAAATAAAAATA
*
43066960 AAAATAAACATA
1 AAAATAAAAATA
* *
43066972 AAGAGAAAAATA
1 AAAATAAAAATA
*
43066984 AAAATAAACATA
1 AAAATAAAAATA
43066996 AAAATAAAAATA
1 AAAATAAAAATA
* *
43067008 AACATAAAGATA
1 AAAATAAAAATA
43067020 AA
1 AA
43067022 TGGACTCAAT
Statistics
Matches: 72, Mismatches: 14, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
12 72 1.00
ACGTcount: A:0.76, C:0.05, G:0.05, T:0.14
Consensus pattern (12 bp):
AAAATAAAAATA
Found at i:43066964 original size:36 final size:36
Alignment explanation
Indices: 43066924--43067009 Score: 147
Period size: 36 Copynumber: 2.4 Consensus size: 36
43066914 ATATGAAAAC
43066924 AAAATAAACATGAAA-AGAAAAATAAAAATAAACATA
1 AAAATAAACAT-AAAGAGAAAAATAAAAATAAACATA
43066960 AAAATAAACATAAAGAGAAAAATAAAAATAAACATA
1 AAAATAAACATAAAGAGAAAAATAAAAATAAACATA
*
43066996 AAAATAAAAATAAA
1 AAAATAAACATAAA
43067010 CATAAAGATA
Statistics
Matches: 48, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
35 3 0.06
36 45 0.94
ACGTcount: A:0.77, C:0.05, G:0.05, T:0.14
Consensus pattern (36 bp):
AAAATAAACATAAAGAGAAAAATAAAAATAAACATA
Found at i:43068682 original size:21 final size:21
Alignment explanation
Indices: 43068648--43068710 Score: 65
Period size: 21 Copynumber: 2.9 Consensus size: 21
43068638 ATGAAATAAC
*
43068648 AAAT-AAGAATTAAAGAAAGA
1 AAATAAAGAAATAAAGAAAGA
*
43068668 AAATAAAGAAATAAAGAATGA
1 AAATAAAGAAATAAAGAAAGA
*
43068689 AAATGAAACAAAAATAAAGAAA
1 AAAT--AA-AGAAATAAAGAAA
43068711 AAGTTAAGGA
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
20 4 0.11
21 18 0.51
23 2 0.06
24 11 0.31
ACGTcount: A:0.73, C:0.02, G:0.13, T:0.13
Consensus pattern (21 bp):
AAATAAAGAAATAAAGAAAGA
Found at i:43085739 original size:47 final size:47
Alignment explanation
Indices: 43085697--43086795 Score: 1850
Period size: 47 Copynumber: 23.3 Consensus size: 47
43085687 TATACACTTC
* * *
43085697 CACATCCATCACATTGGCCATTCGGCCTTATCACATATATACACT-TT
1 CACATTCATCACATTGGCCATTCGGCCTTATCACACATACACA-TGTT
* *
43085744 CACATTCATCACATTGGCCATTCGGCCTTATCACATATATACACT-TT
1 CACATTCATCACATTGGCCATTCGGCCTTATCACACATACACA-TGTT
* * **
43085791 CACATTCATCACATTGGCCATTCGGCCTTATCTCATATATGCATGTT
1 CACATTCATCACATTGGCCATTCGGCCTTATCACACATACACATGTT
43085838 CACATTCATCACATTGGCCATTCGGCCTTATCACACATACACATGTT
1 CACATTCATCACATTGGCCATTCGGCCTTATCACACATACACATGTT
* * **
43085885 CACATTCATCACATTGGCCATTCGGCCTTATCTCATATATGCATGTT
1 CACATTCATCACATTGGCCATTCGGCCTTATCACACATACACATGTT
*
43085932 CCCATTCATCACATTGGCCATTCGGCCTTATCACACATACACATGTT
1 CACATTCATCACATTGGCCATTCGGCCTTATCACACATACACATGTT
* *
43085979 CACATTCATCACATTGGCCATTCGGCCTTATCACATATATATACACT-TT
1 CACATTCATCACATTGGCCATTCGGCCTTATCAC--ACATACACA-TGTT
* *
43086028 CACATTCATCACATTGGCCATTCGGCCTTATCACATATATACACT-TT
1 CACATTCATCACATTGGCCATTCGGCCTTATCACACATACACA-TGTT
43086075 CACATTCATCACATTGGCCATTCGGCCTTATCACACATACACATGTT
1 CACATTCATCACATTGGCCATTCGGCCTTATCACACATACACATGTT
43086122 CACATTCATCACATTGGCCATTCGGCCTTATCACACATACACATGTT
1 CACATTCATCACATTGGCCATTCGGCCTTATCACACATACACATGTT
43086169 CACATTCATCACATTGGCCATTCGGCCTTATCACACATACACATGTT
1 CACATTCATCACATTGGCCATTCGGCCTTATCACACATACACATGTT
43086216 CACATTCATCACATTGGCCATTCGGCCTTATCACACATACACATGTT
1 CACATTCATCACATTGGCCATTCGGCCTTATCACACATACACATGTT
43086263 CACATTCATCACATTGGCCATTCGGCCTTATCACACATACACATGTT
1 CACATTCATCACATTGGCCATTCGGCCTTATCACACATACACATGTT
43086310 CACATTCATCACATTGGCCATTCGGCCTTATCACACATACACATGTT
1 CACATTCATCACATTGGCCATTCGGCCTTATCACACATACACATGTT
43086357 CACATTCATCACATTGGCCATTCGGCCTTATCACACATACACATGTT
1 CACATTCATCACATTGGCCATTCGGCCTTATCACACATACACATGTT
43086404 CACATTCATCACATTGGCCATTCGGCCTTATCACACATACACATGTT
1 CACATTCATCACATTGGCCATTCGGCCTTATCACACATACACATGTT
43086451 CACATTCATCACATTGGCCATTCGGCCTTATCACACATACACATGTT
1 CACATTCATCACATTGGCCATTCGGCCTTATCACACATACACATGTT
43086498 CACATTCATCACATTGGCCATTCGGCCTTATCACACATACACATGTT
1 CACATTCATCACATTGGCCATTCGGCCTTATCACACATACACATGTT
43086545 CACATTCATCACATTGGCCATTCGGCCTTATCACACATACACATGTT
1 CACATTCATCACATTGGCCATTCGGCCTTATCACACATACACATGTT
43086592 CACATTCATCACATTGGCCATTCGGCCTTATCACACATACACATGTT
1 CACATTCATCACATTGGCCATTCGGCCTTATCACACATACACATGTT
43086639 CACATTCATCACATTGGCCATTCGGCCTTATCACACATACACATGTT
1 CACATTCATCACATTGGCCATTCGGCCTTATCACACATACACATGTT
* *
43086686 CACATTCATCACATTGGCCATTCGGCCTTATCACATATATACACT-TT
1 CACATTCATCACATTGGCCATTCGGCCTTATCACACATACACA-TGTT
* * * *
43086733 CACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACT-TT
1 CACATTCATCACATTGGCCATTCGGCCTTATCAC--ACATACACA-TGTT
43086782 CACATTCATCACAT
1 CACATTCATCACAT
43086796 CATGTACAGA
Statistics
Matches: 1019, Mismatches: 25, Indels: 14
0.96 0.02 0.01
Matches are distributed among these distances:
46 2 0.00
47 945 0.93
48 1 0.00
49 70 0.07
50 1 0.00
ACGTcount: A:0.27, C:0.31, G:0.10, T:0.31
Consensus pattern (47 bp):
CACATTCATCACATTGGCCATTCGGCCTTATCACACATACACATGTT
Found at i:43086063 original size:22 final size:22
Alignment explanation
Indices: 43086035--43086109 Score: 62
Period size: 22 Copynumber: 3.3 Consensus size: 22
43086025 TTTCACATTC
43086035 ATCACATTGGCCATTCGGCCTT
1 ATCACATTGGCCATTCGGCCTT
** * * *
43086057 ATCACATATATACACTTTC-ACATT
1 ATCACAT-T-GGC-CATTCGGCCTT
43086081 CATCACATTGGCCATTCGGCCTT
1 -ATCACATTGGCCATTCGGCCTT
43086104 ATCACA
1 ATCACA
43086110 CATACACATG
Statistics
Matches: 38, Mismatches: 10, Indels: 10
0.66 0.17 0.17
Matches are distributed among these distances:
22 17 0.45
23 5 0.13
24 5 0.13
25 11 0.29
ACGTcount: A:0.27, C:0.31, G:0.11, T:0.32
Consensus pattern (22 bp):
ATCACATTGGCCATTCGGCCTT
Found at i:43094766 original size:13 final size:13
Alignment explanation
Indices: 43094750--43094784 Score: 52
Period size: 14 Copynumber: 2.6 Consensus size: 13
43094740 TCTTATTATT
43094750 TTATTATTTTTTA
1 TTATTATTTTTTA
43094763 TTATTAATTTTTTA
1 TTATT-ATTTTTTA
*
43094777 TAATTATT
1 TTATTATT
43094785 AAGTATTTTA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
13 8 0.40
14 12 0.60
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (13 bp):
TTATTATTTTTTA
Found at i:43106381 original size:17 final size:17
Alignment explanation
Indices: 43106359--43106395 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 17
43106349 GATAAGTATC
**
43106359 CATTGTCATTGCATTTT
1 CATTGTCATTAAATTTT
43106376 CATTGTCATTAAATTTT
1 CATTGTCATTAAATTTT
43106393 CAT
1 CAT
43106396 GTTAGTGCAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.24, C:0.16, G:0.08, T:0.51
Consensus pattern (17 bp):
CATTGTCATTAAATTTT
Found at i:43109008 original size:15 final size:15
Alignment explanation
Indices: 43108990--43109021 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
43108980 GCCTCAAATT
43108990 TTGGGCCTAGAAGAA
1 TTGGGCCTAGAAGAA
*
43109005 TTGGGTCTAGAAGAA
1 TTGGGCCTAGAAGAA
43109020 TT
1 TT
43109022 TAGATAGGAG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.31, C:0.09, G:0.31, T:0.28
Consensus pattern (15 bp):
TTGGGCCTAGAAGAA
Found at i:43111010 original size:27 final size:27
Alignment explanation
Indices: 43110869--43111012 Score: 171
Period size: 27 Copynumber: 5.3 Consensus size: 27
43110859 ACTTACAAAC
* *
43110869 TAAAATGACCAAAATACCCCTATAGGG
1 TAAAATGACCGAAATACCCCCATAGGG
* * *
43110896 TAAAATAATCGAAATACCCCCATAGAG
1 TAAAATGACCGAAATACCCCCATAGGG
* * *
43110923 TAAAATAACCAAAATACCCTCATAGGG
1 TAAAATGACCGAAATACCCCCATAGGG
*
43110950 TAAAATGACCGAAATACCCCCATCGGG
1 TAAAATGACCGAAATACCCCCATAGGG
* * *
43110977 TAGAATGACCGTAATACCCCCATCGGG
1 TAAAATGACCGAAATACCCCCATAGGG
*
43111004 TTAAATGAC
1 TAAAATGAC
43111013 TAAAATTGAT
Statistics
Matches: 100, Mismatches: 17, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 100 1.00
ACGTcount: A:0.42, C:0.24, G:0.15, T:0.19
Consensus pattern (27 bp):
TAAAATGACCGAAATACCCCCATAGGG
Found at i:43112647 original size:32 final size:32
Alignment explanation
Indices: 43112607--43112710 Score: 129
Period size: 32 Copynumber: 3.2 Consensus size: 32
43112597 ACGATGCTAT
* **
43112607 TGATGGCTTTGTACCGATCATATTACCATTTT
1 TGATGGCTTTGTACCAATCATATTACCATTAC
** * *
43112639 TGATGGCTTTGTGTCAATTATATTACCGTTAC
1 TGATGGCTTTGTACCAATCATATTACCATTAC
43112671 TGATGGCTTTG-AGCCAATCATATTACCATTAC
1 TGATGGCTTTGTA-CCAATCATATTACCATTAC
43112703 TGATGGCT
1 TGATGGCT
43112711 GTAAGTCGAT
Statistics
Matches: 60, Mismatches: 11, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
32 60 1.00
ACGTcount: A:0.23, C:0.18, G:0.18, T:0.40
Consensus pattern (32 bp):
TGATGGCTTTGTACCAATCATATTACCATTAC
Found at i:43112708 original size:64 final size:64
Alignment explanation
Indices: 43112607--43112760 Score: 186
Period size: 64 Copynumber: 2.4 Consensus size: 64
43112597 ACGATGCTAT
* ** * ** * *
43112607 TGATGGCTTTGTA-CCGATCATATTACCATTTTTGATGGCTTTGTGTCAATTATATTAC-CGTTA
1 TGATGGCTTTG-AGCCAATCATATTACCATTACTGATGGCTGTAAGTCAATTATATCACTC-CTA
43112670 C
64 C
*
43112671 TGATGGCTTTGAGCCAATCATATTACCATTACTGATGGCTGTAAGTCGATTATATCACTCCTAC
1 TGATGGCTTTGAGCCAATCATATTACCATTACTGATGGCTGTAAGTCAATTATATCACTCCTAC
*
43112735 TGATGGCTTTGTGCCAATCATATTAC
1 TGATGGCTTTGAGCCAATCATATTAC
43112761 TGTACTTATG
Statistics
Matches: 78, Mismatches: 10, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
63 1 0.01
64 76 0.97
65 1 0.01
ACGTcount: A:0.24, C:0.19, G:0.18, T:0.39
Consensus pattern (64 bp):
TGATGGCTTTGAGCCAATCATATTACCATTACTGATGGCTGTAAGTCAATTATATCACTCCTAC
Found at i:43112791 original size:22 final size:21
Alignment explanation
Indices: 43112766--43112839 Score: 60
Period size: 22 Copynumber: 3.3 Consensus size: 21
43112756 ATTACTGTAC
43112766 TTATGGCTTGTAGCCATTCTGT
1 TTATGGCTT-TAGCCATTCTGT
* *
43112788 TTATAGCTTATAGCTA-TCTTGT
1 TTATGGCTT-TAGCCATTC-TGT
* *
43112810 TTACGGCTCTTAGCCATTCTGG
1 TTATGGCT-TTAGCCATTCTGT
43112832 TTACTGGC
1 TTA-TGGC
43112840 AGCTTTGCTG
Statistics
Matches: 40, Mismatches: 8, Indels: 7
0.73 0.15 0.13
Matches are distributed among these distances:
21 2 0.05
22 32 0.80
23 6 0.15
ACGTcount: A:0.16, C:0.20, G:0.20, T:0.43
Consensus pattern (21 bp):
TTATGGCTTTAGCCATTCTGT
Found at i:43121728 original size:18 final size:18
Alignment explanation
Indices: 43121705--43121749 Score: 65
Period size: 18 Copynumber: 2.5 Consensus size: 18
43121695 ATTTTGAAAA
*
43121705 TGGTCAAAATTAT-GTTCC
1 TGGTCAAAATTATAATT-C
43121723 TGGTCAAAATTATAATTC
1 TGGTCAAAATTATAATTC
43121741 TGGTCAAAA
1 TGGTCAAAA
43121750 GTGGCTTGCT
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
18 23 0.92
19 2 0.08
ACGTcount: A:0.36, C:0.13, G:0.16, T:0.36
Consensus pattern (18 bp):
TGGTCAAAATTATAATTC
Found at i:43121984 original size:69 final size:69
Alignment explanation
Indices: 43121868--43122004 Score: 220
Period size: 69 Copynumber: 2.0 Consensus size: 69
43121858 GCGCCGAACA
* * * *
43121868 TATAGGCCTCAAGAGTATGGGCCGCATGATGGGATTGATGGTGCTGTTGGGCCGAATGGTGGTGT
1 TATAGGCCTCAAAAGTATGGGCCACATGATGGGATTGATGGTACTGTTGGGCCGAATGGTGGCGT
43121933 TGGT
66 TGGT
* *
43121937 TATAGGCCTCAAAATTATGGGCCACATGATGGGATTGGTGGTACTGTTGGGCCGAATGGTGGCGT
1 TATAGGCCTCAAAAGTATGGGCCACATGATGGGATTGATGGTACTGTTGGGCCGAATGGTGGCGT
43122002 TGG
66 TGG
43122005 GCCGAAGGAT
Statistics
Matches: 62, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
69 62 1.00
ACGTcount: A:0.19, C:0.14, G:0.39, T:0.28
Consensus pattern (69 bp):
TATAGGCCTCAAAAGTATGGGCCACATGATGGGATTGATGGTACTGTTGGGCCGAATGGTGGCGT
TGGT
Found at i:43121998 original size:21 final size:20
Alignment explanation
Indices: 43121972--43122010 Score: 55
Period size: 18 Copynumber: 2.0 Consensus size: 20
43121962 ATGATGGGAT
43121972 TGGTGGTACTGTTGGGCCGAA
1 TGGTGGTAC-GTTGGGCCGAA
43121993 TGGTGG--CGTTGGGCCGAA
1 TGGTGGTACGTTGGGCCGAA
43122011 GGATGGTATT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
18 11 0.61
19 1 0.06
21 6 0.33
ACGTcount: A:0.13, C:0.15, G:0.46, T:0.26
Consensus pattern (20 bp):
TGGTGGTACGTTGGGCCGAA
Found at i:43122022 original size:18 final size:18
Alignment explanation
Indices: 43121983--43122025 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 18
43121973 GGTGGTACTG
*
43121983 TTGGGCCGAATGGTGGCG
1 TTGGGCCGAATGGTGGCA
*
43122001 TTGGGCCGAA-GGATGGTA
1 TTGGGCCGAATGG-TGGCA
43122019 TTGGGCC
1 TTGGGCC
43122026 AAATATTGGT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
17 2 0.09
18 20 0.91
ACGTcount: A:0.14, C:0.16, G:0.47, T:0.23
Consensus pattern (18 bp):
TTGGGCCGAATGGTGGCA
Found at i:43129671 original size:18 final size:18
Alignment explanation
Indices: 43129623--43129691 Score: 86
Period size: 18 Copynumber: 3.8 Consensus size: 18
43129613 TTTAAAATTA
*
43129623 AAAATTA-TAACAAATATTT
1 AAAATTATTAA-AAAT-TGT
*
43129642 AAAAATATTAAAAATTGT
1 AAAATTATTAAAAATTGT
*
43129660 AAAATTACTAAAAATTGT
1 AAAATTATTAAAAATTGT
43129678 AAAATTATTAAAAA
1 AAAATTATTAAAAA
43129692 CATTAACAAT
Statistics
Matches: 44, Mismatches: 5, Indels: 3
0.85 0.10 0.06
Matches are distributed among these distances:
18 31 0.70
19 10 0.23
20 3 0.07
ACGTcount: A:0.61, C:0.03, G:0.03, T:0.33
Consensus pattern (18 bp):
AAAATTATTAAAAATTGT
Found at i:43129691 original size:10 final size:10
Alignment explanation
Indices: 43129619--43129691 Score: 52
Period size: 10 Copynumber: 7.8 Consensus size: 10
43129609 TTATTTTAAA
43129619 ATTAAAAATT
1 ATTAAAAATT
43129629 A-TAACAAA-T
1 ATTAA-AAATT
43129638 ATTTAAAAA-T
1 A-TTAAAAATT
43129648 ATTAAAAATT
1 ATTAAAAATT
*
43129658 -GT-AAAATT
1 ATTAAAAATT
*
43129666 ACTAAAAATT
1 ATTAAAAATT
*
43129676 -GT-AAAATT
1 ATTAAAAATT
43129684 ATTAAAAA
1 ATTAAAAA
43129692 CATTAACAAT
Statistics
Matches: 51, Mismatches: 4, Indels: 16
0.72 0.06 0.23
Matches are distributed among these distances:
8 12 0.24
9 16 0.31
10 20 0.39
11 3 0.06
ACGTcount: A:0.60, C:0.03, G:0.03, T:0.34
Consensus pattern (10 bp):
ATTAAAAATT
Found at i:43132284 original size:24 final size:23
Alignment explanation
Indices: 43132257--43132373 Score: 90
Period size: 23 Copynumber: 4.9 Consensus size: 23
43132247 TTACCAATTT
*
43132257 TTTTTTATTAAGTTTTGCATCAAG
1 TTTTTTATCAAGTTTT-CATCAAG
* *
43132281 TTTTTTTTTAAGCTTTTCATCAAG
1 TTTTTTATCAAG-TTTTCATCAAG
* * *
43132305 TCTTTCATCAAGTGTTTTTCATAAAG
1 TTTTTTATCAA--G-TTTTCATCAAG
* * *
43132331 TTTTTAAGCAAGTTTCCATCAAG
1 TTTTTTATCAAGTTTTCATCAAG
* *
43132354 TTTTTAATCAAGCTTTCATC
1 TTTTTTATCAAGTTTTCATC
43132374 TTCTAAAATA
Statistics
Matches: 75, Mismatches: 15, Indels: 7
0.77 0.15 0.07
Matches are distributed among these distances:
23 26 0.35
24 26 0.35
25 4 0.05
26 19 0.25
ACGTcount: A:0.26, C:0.15, G:0.10, T:0.50
Consensus pattern (23 bp):
TTTTTTATCAAGTTTTCATCAAG
Found at i:43132310 original size:12 final size:12
Alignment explanation
Indices: 43132266--43132365 Score: 76
Period size: 12 Copynumber: 8.2 Consensus size: 12
43132256 TTTTTTTATT
*
43132266 AAGTTTTGCATC
1 AAGTTTTTCATC
** *
43132278 AAGTTTTTTTTT
1 AAGTTTTTCATC
*
43132290 AAGCTTTTCATC
1 AAGTTTTTCATC
*
43132302 AAGTCTTTCATC
1 AAGTTTTTCATC
*
43132314 AAGTGTTTTTCATA
1 AA--GTTTTTCATC
* *
43132328 AAGTTTTTAAGC
1 AAGTTTTTCATC
*
43132340 AAG-TTTCCATC
1 AAGTTTTTCATC
*
43132351 AAGTTTTTAATC
1 AAGTTTTTCATC
43132363 AAG
1 AAG
43132366 CTTTCATCTT
Statistics
Matches: 65, Mismatches: 20, Indels: 6
0.71 0.22 0.07
Matches are distributed among these distances:
11 8 0.12
12 47 0.72
14 10 0.15
ACGTcount: A:0.28, C:0.14, G:0.12, T:0.46
Consensus pattern (12 bp):
AAGTTTTTCATC
Found at i:43132342 original size:26 final size:26
Alignment explanation
Indices: 43132294--43132343 Score: 64
Period size: 26 Copynumber: 1.9 Consensus size: 26
43132284 TTTTTTAAGC
* * *
43132294 TTTTCATCAAGTCTTTCATCAAGTGT
1 TTTTCATAAAGTCTTTAAGCAAGTGT
*
43132320 TTTTCATAAAGTTTTTAAGCAAGT
1 TTTTCATAAAGTCTTTAAGCAAGT
43132344 TTCCATCAAG
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
26 20 1.00
ACGTcount: A:0.28, C:0.14, G:0.12, T:0.46
Consensus pattern (26 bp):
TTTTCATAAAGTCTTTAAGCAAGTGT
Found at i:43139513 original size:21 final size:21
Alignment explanation
Indices: 43139464--43139516 Score: 63
Period size: 22 Copynumber: 2.5 Consensus size: 21
43139454 ATACCTTAAC
*
43139464 CTTTCACCCATCAAATCCTAAT
1 CTTTCACCTATCAAATCC-AAT
*
43139486 CTTTCACCTATCACATCC-AT
1 CTTTCACCTATCAAATCCAAT
43139506 CTTTTCACCTA
1 C-TTTCACCTA
43139517 GAAAACTACA
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
20 3 0.11
21 9 0.32
22 16 0.57
ACGTcount: A:0.26, C:0.38, G:0.00, T:0.36
Consensus pattern (21 bp):
CTTTCACCTATCAAATCCAAT
Found at i:43142693 original size:23 final size:22
Alignment explanation
Indices: 43142657--43142701 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 22
43142647 AATTTTTTTA
43142657 TTAAGTTTTGCATCAAGTTCTTT
1 TTAAGTTTTGCATCAAG-TCTTT
43142680 TTAAGCTTTT-CATCAAGTCTTT
1 TTAAG-TTTTGCATCAAGTCTTT
43142702 CATCAAGTGT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
22 5 0.24
23 12 0.57
24 4 0.19
ACGTcount: A:0.22, C:0.16, G:0.11, T:0.51
Consensus pattern (22 bp):
TTAAGTTTTGCATCAAGTCTTT
Found at i:43142704 original size:12 final size:12
Alignment explanation
Indices: 43142659--43142757 Score: 69
Period size: 12 Copynumber: 8.2 Consensus size: 12
43142649 TTTTTTTATT
*
43142659 AAGTTTTGCATC
1 AAGTTTTTCATC
*
43142671 AAGTTCTTT--TT
1 AAGTT-TTTCATC
*
43142682 AAGCTTTTCATC
1 AAGTTTTTCATC
*
43142694 AAGTCTTTCATC
1 AAGTTTTTCATC
*
43142706 AAGTGTTTTTTATC
1 AA--GTTTTTCATC
* *
43142720 AAGTTTTTAAGC
1 AAGTTTTTCATC
*
43142732 AAG-TTTCCATC
1 AAGTTTTTCATC
*
43142743 AAGTTTTTAATC
1 AAGTTTTTCATC
43142755 AAG
1 AAG
43142758 CTTTCATCTT
Statistics
Matches: 66, Mismatches: 15, Indels: 12
0.71 0.16 0.13
Matches are distributed among these distances:
10 3 0.05
11 13 0.20
12 38 0.58
13 2 0.03
14 10 0.15
ACGTcount: A:0.27, C:0.15, G:0.12, T:0.45
Consensus pattern (12 bp):
AAGTTTTTCATC
Found at i:43142734 original size:26 final size:26
Alignment explanation
Indices: 43142686--43142735 Score: 64
Period size: 26 Copynumber: 1.9 Consensus size: 26
43142676 CTTTTTAAGC
* *
43142686 TTTTCATCAAGTCTTTCATCAAGTGT
1 TTTTCATCAAGTCTTTAAGCAAGTGT
* *
43142712 TTTTTATCAAGTTTTTAAGCAAGT
1 TTTTCATCAAGTCTTTAAGCAAGT
43142736 TTCCATCAAG
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
26 20 1.00
ACGTcount: A:0.26, C:0.14, G:0.12, T:0.48
Consensus pattern (26 bp):
TTTTCATCAAGTCTTTAAGCAAGTGT
Found at i:43142747 original size:23 final size:24
Alignment explanation
Indices: 43142717--43142762 Score: 76
Period size: 23 Copynumber: 2.0 Consensus size: 24
43142707 AGTGTTTTTT
43142717 ATCAAGTTTTTAAGCAAG-TTTCC
1 ATCAAGTTTTTAAGCAAGCTTTCC
*
43142740 ATCAAGTTTTTAATCAAGCTTTC
1 ATCAAGTTTTTAAGCAAGCTTTC
43142763 ATCTTTTGAA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
23 17 0.81
24 4 0.19
ACGTcount: A:0.30, C:0.17, G:0.11, T:0.41
Consensus pattern (24 bp):
ATCAAGTTTTTAAGCAAGCTTTCC
Found at i:43152085 original size:63 final size:61
Alignment explanation
Indices: 43152018--43152192 Score: 188
Period size: 63 Copynumber: 2.8 Consensus size: 61
43152008 ACTTAACGAA
* * *
43152018 TTTGGATTTGGGTCATACGGGCAAGCCACACGGGTATGTGTCCAGGCTGTATAACTCATTGAC
1 TTTGGATTTGGGTCACACGGGCAAGCCACAC-GGT-TGTGTCCAGGCTGTATAACTCACTAAC
* * * ** *
43152081 TTTGGATTTAGGTTACACGGGCAAGCCACACAGGTGTGTGTCTAGGCCATGTAACTCACTAAC
1 TTTGGATTTGGGTCACACGGGCAAGCCACAC-GGT-TGTGTCCAGGCTGTATAACTCACTAAC
** * *
43152144 TTCAGATTTGGGTCACACAGGCAAGCCACACGATTGTGTGCCAGGCTGT
1 TTTGGATTTGGGTCACACGGGCAAGCCACACGGTTGTGT-CCAGGCTGT
43152193 GTAGAGGCAC
Statistics
Matches: 91, Mismatches: 20, Indels: 3
0.80 0.18 0.03
Matches are distributed among these distances:
61 5 0.05
62 8 0.09
63 78 0.86
ACGTcount: A:0.23, C:0.22, G:0.27, T:0.27
Consensus pattern (61 bp):
TTTGGATTTGGGTCACACGGGCAAGCCACACGGTTGTGTCCAGGCTGTATAACTCACTAAC
Found at i:43153471 original size:15 final size:16
Alignment explanation
Indices: 43153438--43153478 Score: 57
Period size: 16 Copynumber: 2.6 Consensus size: 16
43153428 CTTTTCATTG
* *
43153438 CTTAATTTTTCTAGCA
1 CTTAATTTTTCCAGTA
43153454 CTTAATTTTTCCA-TA
1 CTTAATTTTTCCAGTA
43153469 CTTAATTTTT
1 CTTAATTTTT
43153479 ACTTTACCAA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
15 11 0.48
16 12 0.52
ACGTcount: A:0.24, C:0.17, G:0.02, T:0.56
Consensus pattern (16 bp):
CTTAATTTTTCCAGTA
Found at i:43153888 original size:89 final size:89
Alignment explanation
Indices: 43153782--43154049 Score: 500
Period size: 89 Copynumber: 3.0 Consensus size: 89
43153772 TAGATACCAC
*
43153782 TACACCAATAATAATTCTTATATTAATTTAAAAAAATTAAATTTTAACATAAAATATTTTTCTTA
1 TACACCAATAATAATTCTTATATTAATTTTAAAAAATTAAATTTTAACATAAAATATTTTTCTTA
43153847 GCCAATTTACCACTTAACCAAAGT
66 GCCAATTTACCACTTAACCAAAGT
43153871 TACACCAATAATAATTCTTATATTAATTTTAAAAAATTAAATTTTAACATAAAATATTTTTCTTA
1 TACACCAATAATAATTCTTATATTAATTTTAAAAAATTAAATTTTAACATAAAATATTTTTCTTA
43153936 GCCAATTTACCACTTAACCAAAGT
66 GCCAATTTACCACTTAACCAAAGT
*
43153960 TACACCAATAATAATTCTTATATTAATTTTAAAAAATTAAATTTTAACATAAAGTATTTTTCTTA
1 TACACCAATAATAATTCTTATATTAATTTTAAAAAATTAAATTTTAACATAAAATATTTTTCTTA
* *
43154025 GCAAATTTACCACCTAACCAAAGT
66 GCCAATTTACCACTTAACCAAAGT
43154049 T
1 T
43154050 TCATTTTGAT
Statistics
Matches: 175, Mismatches: 4, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
89 175 1.00
ACGTcount: A:0.44, C:0.15, G:0.03, T:0.39
Consensus pattern (89 bp):
TACACCAATAATAATTCTTATATTAATTTTAAAAAATTAAATTTTAACATAAAATATTTTTCTTA
GCCAATTTACCACTTAACCAAAGT
Found at i:43154546 original size:40 final size:40
Alignment explanation
Indices: 43154442--43154547 Score: 108
Period size: 39 Copynumber: 2.7 Consensus size: 40
43154432 TTTGGACAAC
* * *
43154442 AAACGCAGCTAAAAATCGAGCATTAGCGGCACATTAAGGA
1 AAACGCCGCTAAAAATAGAGCATTAGCAGCACATTAAGGA
* * * ***
43154482 AAACTCCGCT-AAAATAAAGAATTAGCAGCAC-TTTTTGA
1 AAACGCCGCTAAAAATAGAGCATTAGCAGCACATTAAGGA
43154520 GAAACGCCGCTAAAAATAGAGCATTAGC
1 -AAACGCCGCTAAAAATAGAGCATTAGC
43154548 GGCGTTTATA
Statistics
Matches: 52, Mismatches: 12, Indels: 4
0.76 0.18 0.06
Matches are distributed among these distances:
38 4 0.08
39 26 0.50
40 22 0.42
ACGTcount: A:0.42, C:0.20, G:0.19, T:0.19
Consensus pattern (40 bp):
AAACGCCGCTAAAAATAGAGCATTAGCAGCACATTAAGGA
Found at i:43154679 original size:41 final size:40
Alignment explanation
Indices: 43154614--43154927 Score: 214
Period size: 41 Copynumber: 7.8 Consensus size: 40
43154604 GCTTTAGGGA
* * *
43154614 CTTTAGCGGCATTTTTCAAAAAGCGCCACTAATGATCTGGG
1 CTTTAGCGGCGTTTTT-AAGAAGCGCCGCTAATGATCTGGG
*
43154655 CTTTAGCTGCGTTTTTGAAGAAGCG-C-C----G-T-TGGG
1 CTTTAGCGGCGTTTTT-AAGAAGCGCCGCTAATGATCTGGG
* *
43154688 CTTTAGCGGCGTTTTTGAATAAGCGCCGCTAATGATTTGGG
1 CTTTAGCGGCGTTTTT-AAGAAGCGCCGCTAATGATCTGGG
* * ** *
43154729 CTTTAGCGGTGTTTTTTAGAAAGCGCCGCTAATTCTTTGGG
1 CTTTAGCGGCGTTTTTAAG-AAGCGCCGCTAATGATCTGGG
* * * * * *
43154770 CTTTAGCGGCATTTTTTAGAAAGCGTCGCTATTGCTTTGGG
1 CTTTAGCGGCGTTTTTAAG-AAGCGCCGCTAATGATCTGGG
* * * *
43154811 CTTTAGCGCCATTTTTTAGGAAGCACCGCTAAT-ACTCTGGG
1 CTTTAGCGGC-GTTTTTAAGAAGCGCCGCTAATGA-TCTGGG
* * * * * *
43154852 CATTAGCAGCGTTTTTAACGAGAGCGCCGATATTGCTCTGGA
1 CTTTAGCGGCGTTTTTAA-GA-AGCGCCGCTAATGATCTGGG
* *
43154894 CTTTAGCAGCGTTTTTGAAAAAGCGCCGCTAATG
1 CTTTAGCGGCGTTTTT-AAGAAGCGCCGCTAATG
43154928 GTGGAAAGTT
Statistics
Matches: 219, Mismatches: 39, Indels: 30
0.76 0.14 0.10
Matches are distributed among these distances:
33 27 0.12
34 2 0.01
35 2 0.01
39 2 0.01
40 9 0.04
41 139 0.63
42 36 0.16
43 2 0.01
ACGTcount: A:0.21, C:0.20, G:0.26, T:0.33
Consensus pattern (40 bp):
CTTTAGCGGCGTTTTTAAGAAGCGCCGCTAATGATCTGGG
Found at i:43154693 original size:33 final size:33
Alignment explanation
Indices: 43154651--43154715 Score: 112
Period size: 33 Copynumber: 2.0 Consensus size: 33
43154641 ACTAATGATC
*
43154651 TGGGCTTTAGCTGCGTTTTTGAAGAAGCGCCGT
1 TGGGCTTTAGCGGCGTTTTTGAAGAAGCGCCGT
*
43154684 TGGGCTTTAGCGGCGTTTTTGAATAAGCGCCG
1 TGGGCTTTAGCGGCGTTTTTGAAGAAGCGCCG
43154716 CTAATGATTT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.15, C:0.18, G:0.34, T:0.32
Consensus pattern (33 bp):
TGGGCTTTAGCGGCGTTTTTGAAGAAGCGCCGT
Found at i:43154826 original size:82 final size:81
Alignment explanation
Indices: 43154683--43154926 Score: 256
Period size: 82 Copynumber: 3.0 Consensus size: 81
43154673 AGAAGCGCCG
* * * *
43154683 TTGGGCTTTAGCGGCGTTTTTGAA-TAAGCGCCGCTAATGATTTGGGCTTTAGCGGTGTTTTTTA
1 TTGGGCTTTAGCGGCGTTTTT-AAGAAAGCGCCGCTATTGCTTTGGGCTTTAGC-GCGTTTTTTA
*
43154747 GAAAGCGCCGCTAATTCT
64 GAAAGCGCCGCTAATACT
* * * *
43154765 TTGGGCTTTAGCGGCATTTTTTAGAAAGCGTCGCTATTGCTTTGGGCTTTAGCGCCATTTTTTAG
1 TTGGGCTTTAGCGGCGTTTTTAAGAAAGCGCCGCTATTGCTTTGGGCTTTAGCG-CGTTTTTTAG
* *
43154830 GAAGCACCGCTAATACT
65 AAAGCGCCGCTAATACT
* * * * * * * *
43154847 CTGGGCATTAGCAGCGTTTTTAACGAGAGCGCCGATATTGCTCTGGACTTTAGCAGCGTTTTTGA
1 TTGGGCTTTAGCGGCGTTTTTAA-GAAAGCGCCGCTATTGCTTTGGGCTTTAGC-GCGTTTTTTA
*
43154912 AAAAGCGCCGCTAAT
64 GAAAGCGCCGCTAAT
43154927 GGTGGAAAGT
Statistics
Matches: 132, Mismatches: 26, Indels: 7
0.80 0.16 0.04
Matches are distributed among these distances:
81 2 0.02
82 85 0.64
83 44 0.33
84 1 0.01
ACGTcount: A:0.20, C:0.19, G:0.26, T:0.34
Consensus pattern (81 bp):
TTGGGCTTTAGCGGCGTTTTTAAGAAAGCGCCGCTATTGCTTTGGGCTTTAGCGCGTTTTTTAGA
AAGCGCCGCTAATACT
Found at i:43155109 original size:7 final size:7
Alignment explanation
Indices: 43155099--43155158 Score: 52
Period size: 7 Copynumber: 8.7 Consensus size: 7
43155089 AGAGTTTTGA
43155099 GTTTAGG
1 GTTTAGG
*
43155106 GTTTATG
1 GTTTAGG
*
43155113 GTGTA-G
1 GTTTAGG
43155119 GTTTAGG
1 GTTTAGG
*
43155126 GTTTGGG
1 GTTTAGG
43155133 GTTT-GG
1 GTTTAGG
*
43155139 GATTTAAG
1 G-TTTAGG
*
43155147 ATTTAGG
1 GTTTAGG
43155154 GTTTA
1 GTTTA
43155159 TGTTTTAATG
Statistics
Matches: 42, Mismatches: 8, Indels: 6
0.75 0.14 0.11
Matches are distributed among these distances:
6 8 0.19
7 33 0.79
8 1 0.02
ACGTcount: A:0.17, C:0.00, G:0.38, T:0.45
Consensus pattern (7 bp):
GTTTAGG
Found at i:43155254 original size:21 final size:21
Alignment explanation
Indices: 43155230--43155270 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
43155220 TAGGGCTTGA
* * *
43155230 TGTTTATGGTTTATGGTTTAG
1 TGTTAATGATTTAAGGTTTAG
43155251 TGTTAATGATTTAAGGTTTA
1 TGTTAATGATTTAAGGTTTA
43155271 CAATGTATGA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.22, C:0.00, G:0.24, T:0.54
Consensus pattern (21 bp):
TGTTAATGATTTAAGGTTTAG
Found at i:43155302 original size:14 final size:14
Alignment explanation
Indices: 43155279--43155333 Score: 56
Period size: 14 Copynumber: 3.9 Consensus size: 14
43155269 TACAATGTAT
*
43155279 GATTTTGGGTTTTG
1 GATTTAGGGTTTTG
*
43155293 GATTTAGGGTTTAG
1 GATTTAGGGTTTTG
* * *
43155307 GGTTTAGTGTTATG
1 GATTTAGGGTTTTG
43155321 GATTTTAGGGTTT
1 GA-TTTAGGGTTT
43155334 AATTACTTTT
Statistics
Matches: 31, Mismatches: 9, Indels: 1
0.76 0.22 0.02
Matches are distributed among these distances:
14 23 0.74
15 8 0.26
ACGTcount: A:0.15, C:0.00, G:0.35, T:0.51
Consensus pattern (14 bp):
GATTTAGGGTTTTG
Found at i:43155667 original size:14 final size:14
Alignment explanation
Indices: 43155643--43155675 Score: 59
Period size: 14 Copynumber: 2.4 Consensus size: 14
43155633 TAAAAATATC
43155643 ATATT-TTTAAATA
1 ATATTATTTAAATA
43155656 ATATTATTTAAATA
1 ATATTATTTAAATA
43155670 ATATTA
1 ATATTA
43155676 ATAAAACTTA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
13 5 0.26
14 14 0.74
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (14 bp):
ATATTATTTAAATA
Found at i:43156746 original size:31 final size:31
Alignment explanation
Indices: 43156708--43156787 Score: 142
Period size: 31 Copynumber: 2.6 Consensus size: 31
43156698 TTGGATTTTA
*
43156708 ATTGGTTTTTGCAGCTAAGATGGTACCTTCT
1 ATTGGTTTTTGCTGCTAAGATGGTACCTTCT
43156739 ATTGGTTTTTGCTGCTAAGATGGTACCTTCT
1 ATTGGTTTTTGCTGCTAAGATGGTACCTTCT
*
43156770 ATTGATTTTTGCTGCTAA
1 ATTGGTTTTTGCTGCTAA
43156788 ATCAACCATG
Statistics
Matches: 47, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
31 47 1.00
ACGTcount: A:0.19, C:0.15, G:0.21, T:0.45
Consensus pattern (31 bp):
ATTGGTTTTTGCTGCTAAGATGGTACCTTCT
Found at i:43157634 original size:12 final size:12
Alignment explanation
Indices: 43157617--43157644 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
43157607 GCTAGCCATG
43157617 ATGTTACTATTA
1 ATGTTACTATTA
43157629 ATGTTACTATTA
1 ATGTTACTATTA
43157641 ATGT
1 ATGT
43157645 CCTTAATCAC
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:0.32, C:0.07, G:0.11, T:0.50
Consensus pattern (12 bp):
ATGTTACTATTA
Found at i:43157776 original size:10 final size:10
Alignment explanation
Indices: 43157763--43157787 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
43157753 TTTTTTCTTT
43157763 TTTTTTTAAG
1 TTTTTTTAAG
43157773 TTTTTTTAAG
1 TTTTTTTAAG
43157783 TTTTT
1 TTTTT
43157788 CATGTGTTTG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.16, C:0.00, G:0.08, T:0.76
Consensus pattern (10 bp):
TTTTTTTAAG
Found at i:43159036 original size:43 final size:43
Alignment explanation
Indices: 43158975--43159072 Score: 133
Period size: 43 Copynumber: 2.3 Consensus size: 43
43158965 TTTGTGGTTA
* * * * * *
43158975 TTAGCGGTGATTGTGGGTAAAGTGCCGCTAAAGATCATGTTCT
1 TTAGCGGCGTTTGTGGGTAAAGCGCCGCAAAAGAACATGATCT
*
43159018 TTAGCGGCGTTTGTGGGTAAAGCGTCGCAAAAGAACATGATCT
1 TTAGCGGCGTTTGTGGGTAAAGCGCCGCAAAAGAACATGATCT
43159061 TTAGCGGCGTTT
1 TTAGCGGCGTTT
43159073 TTTCTCATAA
Statistics
Matches: 48, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
43 48 1.00
ACGTcount: A:0.23, C:0.15, G:0.31, T:0.31
Consensus pattern (43 bp):
TTAGCGGCGTTTGTGGGTAAAGCGCCGCAAAAGAACATGATCT
Found at i:43163418 original size:41 final size:41
Alignment explanation
Indices: 43163350--43163581 Score: 324
Period size: 41 Copynumber: 5.7 Consensus size: 41
43163340 CCATTCGGGG
* ** *
43163350 CTTTAGTGGCGTTTTTTAAAAAAGCGCCGCTAATGCTCAGGGT
1 CTTTAGCGGCG-TTTTTGGAAAAGCGCCGCTAATGCTC-TGGT
*
43163393 -TTTAGCGGCGTTTTTGGAAAAGCGCCGCTAATGCTTTGGT
1 CTTTAGCGGCGTTTTTGGAAAAGCGCCGCTAATGCTCTGGT
* **
43163433 CTTTAGCGACGTTTTTGGGGAAGCGCC-CTAATGCTCTGGT
1 CTTTAGCGGCGTTTTTGGAAAAGCGCCGCTAATGCTCTGGT
* *
43163473 CTTTAGCAGCATTTTTGGAAAAGCGCCGCTAATGCTCTGGT
1 CTTTAGCGGCGTTTTTGGAAAAGCGCCGCTAATGCTCTGGT
*
43163514 CTTTAGCGGCGTTTTTGGGAAAGCGCCGCTAATGCTCTGGT
1 CTTTAGCGGCGTTTTTGGAAAAGCGCCGCTAATGCTCTGGT
*
43163555 CTTTAGCGGCGTTTTTGGGAAAGCGCC
1 CTTTAGCGGCGTTTTTGGAAAAGCGCC
43163582 ACAAAAACAA
Statistics
Matches: 170, Mismatches: 17, Indels: 6
0.88 0.09 0.03
Matches are distributed among these distances:
40 37 0.22
41 124 0.73
42 9 0.05
ACGTcount: A:0.18, C:0.21, G:0.29, T:0.32
Consensus pattern (41 bp):
CTTTAGCGGCGTTTTTGGAAAAGCGCCGCTAATGCTCTGGT
Found at i:43163479 original size:81 final size:82
Alignment explanation
Indices: 43163370--43163581 Score: 338
Period size: 81 Copynumber: 2.6 Consensus size: 82
43163360 GTTTTTTAAA
* *
43163370 AAAGCGCCGCTAATGCTCAGGGT-TTTAGCGGCGTTTTTGGAAAAGCGCCGCTAATGCTTTGGTC
1 AAAGCGCCGCTAATGCTC-TGGTCTTTAGCGGCGTTTTTGGAAAAGCGCCGCTAATGCTCTGGTC
43163434 TTTAGCGACGTTTTTGGG
65 TTTAGCGACGTTTTTGGG
* * *
43163452 GAAGCGCC-CTAATGCTCTGGTCTTTAGCAGCATTTTTGGAAAAGCGCCGCTAATGCTCTGGTCT
1 AAAGCGCCGCTAATGCTCTGGTCTTTAGCGGCGTTTTTGGAAAAGCGCCGCTAATGCTCTGGTCT
*
43163516 TTAGCGGCGTTTTTGGG
66 TTAGCGACGTTTTTGGG
*
43163533 AAAGCGCCGCTAATGCTCTGGTCTTTAGCGGCGTTTTTGGGAAAGCGCC
1 AAAGCGCCGCTAATGCTCTGGTCTTTAGCGGCGTTTTTGGAAAAGCGCC
43163582 ACAAAAACAA
Statistics
Matches: 118, Mismatches: 10, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
80 3 0.03
81 71 0.60
82 44 0.37
ACGTcount: A:0.18, C:0.22, G:0.30, T:0.31
Consensus pattern (82 bp):
AAAGCGCCGCTAATGCTCTGGTCTTTAGCGGCGTTTTTGGAAAAGCGCCGCTAATGCTCTGGTCT
TTAGCGACGTTTTTGGG
Found at i:43163950 original size:22 final size:24
Alignment explanation
Indices: 43163900--43163960 Score: 67
Period size: 22 Copynumber: 2.7 Consensus size: 24
43163890 ATATGATTTA
43163900 GAGTTTAAGGTTTA-GGAGTTACT
1 GAGTTTAAGGTTTATGGAGTTACT
*
43163923 -ATTTTAAGGTTTATGGA-TTA-T
1 GAGTTTAAGGTTTATGGAGTTACT
* *
43163944 GAGTTTAGGGGTTATGG
1 GAGTTTAAGGTTTATGG
43163961 TTTACACTTT
Statistics
Matches: 32, Mismatches: 4, Indels: 5
0.78 0.10 0.12
Matches are distributed among these distances:
21 1 0.03
22 28 0.88
23 3 0.09
ACGTcount: A:0.25, C:0.02, G:0.31, T:0.43
Consensus pattern (24 bp):
GAGTTTAAGGTTTATGGAGTTACT
Found at i:43163978 original size:7 final size:7
Alignment explanation
Indices: 43163925--43164013 Score: 52
Period size: 7 Copynumber: 12.6 Consensus size: 7
43163915 GAGTTACTAT
*
43163925 TTTAAGG
1 TTTATGG
43163932 TTTATGG
1 TTTATGG
*
43163939 ATTATGAG
1 TTTATG-G
*
43163947 TTTAGGG
1 TTTATGG
*
43163954 GTTATGG
1 TTTATGG
***
43163961 TTTACAC
1 TTTATGG
43163968 TTTATGG
1 TTTATGG
* *
43163975 TTTAAGA
1 TTTATGG
*
43163982 TTTAGGG
1 TTTATGG
*
43163989 TTTAAGG
1 TTTATGG
* *
43163996 GTTACGG
1 TTTATGG
43164003 TTTATGG
1 TTTATGG
43164010 TTTA
1 TTTA
43164014 AGGGTATAGA
Statistics
Matches: 59, Mismatches: 22, Indels: 2
0.71 0.27 0.02
Matches are distributed among these distances:
7 54 0.92
8 5 0.08
ACGTcount: A:0.22, C:0.03, G:0.28, T:0.46
Consensus pattern (7 bp):
TTTATGG
Found at i:43163988 original size:35 final size:36
Alignment explanation
Indices: 43163932--43164015 Score: 98
Period size: 35 Copynumber: 2.4 Consensus size: 36
43163922 TATTTTAAGG
* * * *
43163932 TTTATGGATTATGAGTTTAGGGGTTATGGTTTACAC
1 TTTATGGTTTAAGAGTTTAGGGGTTAAGGGTTACAC
* **
43163968 TTTATGGTTTAAGA-TTTAGGGTTTAAGGGTTACGG
1 TTTATGGTTTAAGAGTTTAGGGGTTAAGGGTTACAC
43164003 TTTATGGTTTAAG
1 TTTATGGTTTAAG
43164016 GGTATAGATT
Statistics
Matches: 41, Mismatches: 7, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
35 29 0.71
36 12 0.29
ACGTcount: A:0.23, C:0.04, G:0.29, T:0.45
Consensus pattern (36 bp):
TTTATGGTTTAAGAGTTTAGGGGTTAAGGGTTACAC
Found at i:43164043 original size:14 final size:14
Alignment explanation
Indices: 43163973--43164075 Score: 71
Period size: 14 Copynumber: 6.9 Consensus size: 14
43163963 TACACTTTAT
**
43163973 GGTTTAAGATTTAG
1 GGTTTAAGGGTTAG
*
43163987 GGTTTAAGGGTTAC
1 GGTTTAAGGGTTAG
* *
43164001 GGTTTATGGTTTAAG
1 GGTTTAAGGGTT-AG
43164016 GGTATAGATTAAGGGTTAG
1 GG--T---TTAAGGGTTAG
*
43164035 GGTTTAAGGTTTAG
1 GGTTTAAGGGTTAG
*
43164049 GGATTAAGGGTTAG
1 GGTTTAAGGGTTAG
* *
43164063 GGGTTGAGGGTTA
1 GGTTTAAGGGTTA
43164076 AGAGTTAGGG
Statistics
Matches: 70, Mismatches: 13, Indels: 12
0.74 0.14 0.13
Matches are distributed among these distances:
14 54 0.77
15 3 0.04
17 2 0.03
19 4 0.06
20 7 0.10
ACGTcount: A:0.24, C:0.01, G:0.38, T:0.37
Consensus pattern (14 bp):
GGTTTAAGGGTTAG
Found at i:43164082 original size:21 final size:22
Alignment explanation
Indices: 43164042--43164088 Score: 69
Period size: 21 Copynumber: 2.2 Consensus size: 22
43164032 TAGGGTTTAA
* *
43164042 GGTTTAGGGATTAAGGGTTAGG
1 GGTTGAGGGATTAAGAGTTAGG
43164064 GGTTGAGGG-TTAAGAGTTAGG
1 GGTTGAGGGATTAAGAGTTAGG
43164085 GGTT
1 GGTT
43164089 TAAGATTTAG
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 15 0.65
22 8 0.35
ACGTcount: A:0.21, C:0.00, G:0.47, T:0.32
Consensus pattern (22 bp):
GGTTGAGGGATTAAGAGTTAGG
Found at i:43164104 original size:7 final size:7
Alignment explanation
Indices: 43163968--43164105 Score: 61
Period size: 7 Copynumber: 19.7 Consensus size: 7
43163958 TGGTTTACAC
*
43163968 TTTATGG
1 TTTAGGG
* *
43163975 TTTAAGA
1 TTTAGGG
43163982 TTTAGGG
1 TTTAGGG
43163989 TTTAAGGG
1 TTT-AGGG
*
43163997 -TTACGG
1 TTTAGGG
*
43164003 TTTATGG
1 TTTAGGG
43164010 TTTAAGGG
1 TTT-AGGG
* *
43164018 TATA-GA
1 TTTAGGG
*
43164024 TTAAGGG
1 TTTAGGG
43164031 -TTAGGG
1 TTTAGGG
*
43164037 TTTAAGG
1 TTTAGGG
43164044 TTTAGGG
1 TTTAGGG
*
43164051 ATTAAGGG
1 -TTTAGGG
43164059 -TTAGGGG
1 TTTA-GGG
*
43164066 TTGAGGG
1 TTTAGGG
* *
43164073 TTAAGAG
1 TTTAGGG
43164080 -TTAGGGG
1 TTTA-GGG
* *
43164087 TTTAAGA
1 TTTAGGG
43164094 TTTAGGG
1 TTTAGGG
43164101 TTTAG
1 TTTAG
43164106 ATTAATTAGT
Statistics
Matches: 95, Mismatches: 26, Indels: 20
0.67 0.18 0.14
Matches are distributed among these distances:
6 15 0.16
7 60 0.63
8 20 0.21
ACGTcount: A:0.25, C:0.01, G:0.36, T:0.38
Consensus pattern (7 bp):
TTTAGGG
Found at i:43164495 original size:21 final size:22
Alignment explanation
Indices: 43164479--43164519 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
43164469 ATGGTTTATT
43164479 GTTTAAGGGTT-GGGGTTTAAA
1 GTTTAAGGGTTAGGGGTTTAAA
*
43164500 GTTTAGGGGTTAGGGGTTTA
1 GTTTAAGGGTTAGGGGTTTA
43164520 GGATTTTAGA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 10 0.56
22 8 0.44
ACGTcount: A:0.20, C:0.00, G:0.41, T:0.39
Consensus pattern (22 bp):
GTTTAAGGGTTAGGGGTTTAAA
Found at i:43167118 original size:47 final size:47
Alignment explanation
Indices: 43167066--43167159 Score: 161
Period size: 47 Copynumber: 2.0 Consensus size: 47
43167056 CATGCTGATC
* * *
43167066 GGTTCAGTATCTGCCCATCTGCTTGTTTACTTTGCCTGGTACAATTG
1 GGTTCAGCATCTGCACATCAGCTTGTTTACTTTGCCTGGTACAATTG
43167113 GGTTCAGCATCTGCACATCAGCTTGTTTACTTTGCCTGGTACAATTG
1 GGTTCAGCATCTGCACATCAGCTTGTTTACTTTGCCTGGTACAATTG
43167160 TCAGCAGTGT
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
47 44 1.00
ACGTcount: A:0.17, C:0.23, G:0.21, T:0.38
Consensus pattern (47 bp):
GGTTCAGCATCTGCACATCAGCTTGTTTACTTTGCCTGGTACAATTG
Found at i:43171260 original size:86 final size:86
Alignment explanation
Indices: 43171152--43171318 Score: 212
Period size: 86 Copynumber: 1.9 Consensus size: 86
43171142 AAAGGTTTGT
* * **
43171152 TCTATAGCGGCGTTTGTGGTAAAAGCG-CTGCTAAAGGTCTTTAGT-TATAGCGGCATTTGTGGG
1 TCTATAGCGGCGTTTCTCGTAAAAGCGTC-GCTAAAGG-CCATAGTCTATAGCGGCATTTGTGGG
43171215 AAAAGCGCCGCTAAAGATCCTGA
64 AAAAGCGCCGCTAAAGATCCTGA
* * * * * *
43171238 TCTATAGCGGTGTTTCTCGTAAAAGCGTCGCTAAAGGCCATGGTCTTTAGCGGCGTTTGTTGGAG
1 TCTATAGCGGCGTTTCTCGTAAAAGCGTCGCTAAAGGCCATAGTCTATAGCGGCATTTGTGGGAA
43171303 AAGCGCCGCTAAAGAT
66 AAGCGCCGCTAAAGAT
43171319 TAGGATTTTT
Statistics
Matches: 69, Mismatches: 10, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
85 4 0.06
86 64 0.93
87 1 0.01
ACGTcount: A:0.24, C:0.19, G:0.29, T:0.28
Consensus pattern (86 bp):
TCTATAGCGGCGTTTCTCGTAAAAGCGTCGCTAAAGGCCATAGTCTATAGCGGCATTTGTGGGAA
AAGCGCCGCTAAAGATCCTGA
Found at i:43171332 original size:86 final size:85
Alignment explanation
Indices: 43171199--43171380 Score: 211
Period size: 86 Copynumber: 2.1 Consensus size: 85
43171189 TCTTTAGTTA
* ** ** *
43171199 TAGCGGCATTTGTGGGAAAAGCGCCGCTAAAGATCCTGATCTATAGCGGTGTTTCTCGTAAAAGC
1 TAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGATCAGGATCTATAGCGGCATTT-TCGGAAAAGC
* * *
43171264 GTCGCTAAAGGCCATGGTCTT
65 GCCACTAAAGGCCATGGCCTT
* * * * * *
43171285 TAGCGGCGTTTGTTGGAGAAGCGCCGCTAAAGATTAGGATTTTTAGCGGCATTTTTGGAAAAGCG
1 TAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGATCAGGATCTATAGCGGCATTTTCGGAAAAGCG
*
43171350 CCACTAAAGGTCATGGCCTT
66 CCACTAAAGGCCATGGCCTT
43171370 TAGCGGCGTTT
1 TAGCGGCGTTT
43171381 ATTTCTAAAA
Statistics
Matches: 80, Mismatches: 16, Indels: 1
0.82 0.16 0.01
Matches are distributed among these distances:
85 36 0.45
86 44 0.55
ACGTcount: A:0.24, C:0.19, G:0.29, T:0.28
Consensus pattern (85 bp):
TAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGATCAGGATCTATAGCGGCATTTTCGGAAAAGCG
CCACTAAAGGCCATGGCCTT
Found at i:43171372 original size:42 final size:43
Alignment explanation
Indices: 43171156--43171376 Score: 162
Period size: 43 Copynumber: 5.2 Consensus size: 43
43171146 GTTTGTTCTA
* * * * * *
43171156 TAGCGGCGTTTG-TGGTAAAAGCGCTGCTAAAGGTCTTTAGT-TA
1 TAGCGGCATTTGTTGG-AAAAGCGCCGCTAAAGATC-ATGGTCTT
* * * *
43171199 TAGCGGCATTTGTGGGAAAAGCGCCGCTAAAGATCCTGATCTA
1 TAGCGGCATTTGTTGGAAAAGCGCCGCTAAAGATCATGGTCTT
** * * * * **
43171242 TAGCGGTGTTTCTCGTAAAAGCGTCGCTAAAGGCCATGGTCTT
1 TAGCGGCATTTGTTGGAAAAGCGCCGCTAAAGATCATGGTCTT
* * * *
43171285 TAGCGGCGTTTGTTGGAGAAGCGCCGCTAAAGATTA-GGATTTT
1 TAGCGGCATTTGTTGGAAAAGCGCCGCTAAAGATCATGG-TCTT
* * *
43171328 TAGCGGCATTT-TTGGAAAAGCGCCACTAAAGGTCATGGCCTT
1 TAGCGGCATTTGTTGGAAAAGCGCCGCTAAAGATCATGGTCTT
43171370 TAGCGGC
1 TAGCGGC
43171377 GTTTATTTCT
Statistics
Matches: 139, Mismatches: 35, Indels: 9
0.76 0.19 0.05
Matches are distributed among these distances:
42 33 0.24
43 104 0.75
44 2 0.01
ACGTcount: A:0.24, C:0.19, G:0.29, T:0.28
Consensus pattern (43 bp):
TAGCGGCATTTGTTGGAAAAGCGCCGCTAAAGATCATGGTCTT
Found at i:43174190 original size:42 final size:41
Alignment explanation
Indices: 43174105--43174187 Score: 132
Period size: 41 Copynumber: 2.0 Consensus size: 41
43174095 TATGTTACAA
* *
43174105 TAACAATTAATTTGTTTTAAAAAAATTAAAAACTTTAATTT
1 TAACAATTAATTTGTTTTAAAAAAAATAAAAACCTTAATTT
43174146 TAACAAATT-ATTTGTTTTAAAAAAAATAAAAACCTTAATTT
1 TAAC-AATTAATTTGTTTTAAAAAAAATAAAAACCTTAATTT
43174187 T
1 T
43174188 TAATATTTTT
Statistics
Matches: 39, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
41 35 0.90
42 4 0.10
ACGTcount: A:0.49, C:0.06, G:0.02, T:0.42
Consensus pattern (41 bp):
TAACAATTAATTTGTTTTAAAAAAAATAAAAACCTTAATTT
Found at i:43178693 original size:12 final size:12
Alignment explanation
Indices: 43178676--43178742 Score: 53
Period size: 12 Copynumber: 5.6 Consensus size: 12
43178666 CTTTATACCT
*
43178676 TATATATGTACA
1 TATATATATACA
43178688 TATATATATACA
1 TATATATATACA
* *
43178700 CATATACATACA
1 TATATATATACA
* * **
43178712 TATTTTTATTTA
1 TATATATATACA
*
43178724 TACATATATACA
1 TATATATATACA
*
43178736 TACATAT
1 TATATAT
43178743 TTATCTCTTT
Statistics
Matches: 41, Mismatches: 14, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
12 41 1.00
ACGTcount: A:0.43, C:0.12, G:0.01, T:0.43
Consensus pattern (12 bp):
TATATATATACA
Found at i:43178756 original size:28 final size:28
Alignment explanation
Indices: 43178688--43178746 Score: 91
Period size: 28 Copynumber: 2.1 Consensus size: 28
43178678 TATATGTACA
* *
43178688 TATATATATACACATATACATACATATT
1 TATATTTATACATATATACATACATATT
*
43178716 TTTATTTATACATATATACATACATATT
1 TATATTTATACATATATACATACATATT
43178744 TAT
1 TAT
43178747 CTCTTTACAT
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.42, C:0.12, G:0.00, T:0.46
Consensus pattern (28 bp):
TATATTTATACATATATACATACATATT
Found at i:43183624 original size:27 final size:24
Alignment explanation
Indices: 43183581--43183643 Score: 74
Period size: 25 Copynumber: 2.5 Consensus size: 24
43183571 AAATTGTTAA
43183581 AAAAAAGAAGAGAAAGAAGGAAAAAG
1 AAAAAAGAAGAGAAAGAA-G-AAAAG
43183607 AAAAAAGACAGA-AGAAGAAGAAAAG
1 AAAAAAGA-AGAGA-AAGAAGAAAAG
*
43183632 AAAAAATAAGAG
1 AAAAAAGAAGAG
43183644 GCCAAGATGA
Statistics
Matches: 33, Mismatches: 1, Indels: 7
0.80 0.02 0.17
Matches are distributed among these distances:
24 3 0.09
25 12 0.36
26 10 0.30
27 8 0.24
ACGTcount: A:0.73, C:0.02, G:0.24, T:0.02
Consensus pattern (24 bp):
AAAAAAGAAGAGAAAGAAGAAAAG
Done.