Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: CP032252.1 Gossypioides kirkii chromosome KI_10
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: 47257441
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 3600 characters in sequence are not A, C, G, or T
File 134 of 163
Found at i:36516625 original size:61 final size:59
Alignment explanation
Indices: 36516518--36516720 Score: 191
Period size: 61 Copynumber: 3.4 Consensus size: 59
36516508 GCAAGTTCAA
* * * *
36516518 GGGT-AAAATAGAATTTTT-AGAAGTTTGGGGGTGAAAATGGAATTTTTGAGAAGTTTAG
1 GGGTCAAAATATAATTTTTGAGAAATTTGGGGGTTAAAAT-GTATTTTTGAGAAGTTTAG
36516576 GGGTCAAAATATAATTTTTGAGAAATTTGAGGGGTTAAAATGTATTTTTTG-GAAAGTTTAG
1 GGGTCAAAATATAATTTTTGAGAAATTTG-GGGGTTAAAATGTA-TTTTTGAG-AAGTTTAG
* * * * * * * *
36516637 TGGTTAAAATGTAATTTTTAAGAAGTTTGGGGGCTAAAATGTGATTTTTGAGAA-ATTCG
1 GGGTCAAAATATAATTTTTGAGAAATTTGGGGGTTAAAATGT-ATTTTTGAGAAGTTTAG
* *
36516696 AGGATCAAAATGTAATTTTTG-GAAA
1 -GGGTCAAAATATAATTTTTGAGAAA
36516721 GTTTAAAGGT
Statistics
Matches: 120, Mismatches: 17, Indels: 15
0.79 0.11 0.10
Matches are distributed among these distances:
58 4 0.03
59 19 0.16
60 47 0.39
61 50 0.42
ACGTcount: A:0.35, C:0.02, G:0.26, T:0.37
Consensus pattern (59 bp):
GGGTCAAAATATAATTTTTGAGAAATTTGGGGGTTAAAATGTATTTTTGAGAAGTTTAG
Found at i:36516653 original size:91 final size:90
Alignment explanation
Indices: 36516529--36516725 Score: 245
Period size: 91 Copynumber: 2.2 Consensus size: 90
36516519 GGTAAAATAG
* * * * * *
36516529 AATTTTTAG-AAGTTTGGGGGTGAAAATGGAATTTTTGAGAAGTTTAGGGG-TCAAAATATAATT
1 AATTTTTGGAAAGTTTAGTGGTTAAAATGGAATTTTTAAGAAGTTTGGGGGCT-AAAATATAATT
* * *
36516592 TTTGAGAAATTTGAGGGGTTAAAATGT
65 TTTGAGAAATTCGA-GGATCAAAATGT
* * * *
36516619 ATTTTTTGGAAAGTTTAGTGGTTAAAATGTAATTTTTAAGAAGTTTGGGGGCTAAAATGTGATTT
1 AATTTTTGGAAAGTTTAGTGGTTAAAATGGAATTTTTAAGAAGTTTGGGGGCTAAAATATAATTT
36516684 TTGAGAAATTCGAGGATCAAAATGT
66 TTGAGAAATTCGAGGATCAAAATGT
36516709 AATTTTTGGAAAGTTTA
1 AATTTTTGGAAAGTTTA
36516726 AAGGTTGAAT
Statistics
Matches: 91, Mismatches: 14, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
90 33 0.36
91 57 0.63
92 1 0.01
ACGTcount: A:0.34, C:0.02, G:0.25, T:0.39
Consensus pattern (90 bp):
AATTTTTGGAAAGTTTAGTGGTTAAAATGGAATTTTTAAGAAGTTTGGGGGCTAAAATATAATTT
TTGAGAAATTCGAGGATCAAAATGT
Found at i:36516723 original size:60 final size:58
Alignment explanation
Indices: 36516406--36516724 Score: 189
Period size: 60 Copynumber: 5.4 Consensus size: 58
36516396 TTTAGGCATA
* * * * * * *
36516406 AAAATGTCATTTTTAG-AAGTTCGGGGGCAAAAATATGATTTTTGGAAGTTT-GGAGGC
1 AAAATGTAATTTTTGGAAAGTTTGGGGGCTAAAATGTGATTTTTGGAAATTTAGG-GTC
* * * *
36516463 AAAAACGTGAA-TTTTGG-AA-TTTCGAGGGGC-AAATATGTGATTTTTGCAAGTTCAAGGGT-
1 -AAAATGT-AATTTTTGGAAAGTTT-G-GGGGCTAAA-ATGTGATTTTTGGAAATT-TAGGGTC
* *
36516522 AAAATAG-AATTTTTAG-AAGTTTGGGGG-TGAAAATG-GAATTTTTGAGAAGTTTAGGGGTC
1 AAAAT-GTAATTTTTGGAAAGTTTGGGGGCT-AAAATGTG-ATTTTTG-GAAATTTA-GGGTC
* * *
36516581 AAAATATAATTTTTGAGAAA-TTTGAGGGGTTAAAATGT-ATTTTTTGGAAAGTTTAGTGGTT
1 AAAATGTAATTTTTG-GAAAGTTTG-GGGGCTAAAATGTGA-TTTTTGGAAA-TTTAG-GGTC
* * *
36516642 AAAATGTAATTTTT-AAGAAGTTTGGGGGCTAAAATGTGATTTTTGAGAAATTCGAGGATC
1 AAAATGTAATTTTTGGA-AAGTTTGGGGGCTAAAATGTGATTTTTG-GAAATT-TAGGGTC
36516702 AAAATGTAATTTTTGGAAAGTTT
1 AAAATGTAATTTTTGGAAAGTTT
36516725 AAAGGTTGAA
Statistics
Matches: 208, Mismatches: 23, Indels: 58
0.72 0.08 0.20
Matches are distributed among these distances:
56 1 0.00
57 19 0.09
58 41 0.20
59 39 0.19
60 55 0.26
61 52 0.25
62 1 0.00
ACGTcount: A:0.34, C:0.04, G:0.26, T:0.36
Consensus pattern (58 bp):
AAAATGTAATTTTTGGAAAGTTTGGGGGCTAAAATGTGATTTTTGGAAATTTAGGGTC
Found at i:36516754 original size:90 final size:91
Alignment explanation
Indices: 36516551--36516754 Score: 225
Period size: 91 Copynumber: 2.3 Consensus size: 91
36516541 TTTGGGGGTG
* * * * * * * * *
36516551 AAAATGGAATTTTTGAGAAGTTTAGGGG-TCAAAATATAATTTTTGAGAAATTTGAGGGGTTAAA
1 AAAATGCAATTTCTAAGAAGTTTGGGGGCT-AAAATGTGATTTTTGAGAAATTCGAGGGATCAAA
* **
36516615 ATGTATTTTTTGGAAAGTTTAGTGGTT
65 ATGTAATTTTTGGAAAGTTTAAAGGTT
* *
36516642 AAAATGTAATTTTTAAGAAGTTTGGGGGCTAAAATGTGATTTTTGAGAAATTCGA-GGATCAAAA
1 AAAATGCAATTTCTAAGAAGTTTGGGGGCTAAAATGTGATTTTTGAGAAATTCGAGGGATCAAAA
36516706 TGTAATTTTTGGAAAGTTTAAAGGTT
66 TGTAATTTTTGGAAAGTTTAAAGGTT
* *
36516732 GAATTGCAATTTCT-AGAGAGTTT
1 AAAATGCAATTTCTAAGA-AGTTT
36516755 AAGGACCATC
Statistics
Matches: 96, Mismatches: 15, Indels: 5
0.83 0.13 0.04
Matches are distributed among these distances:
89 3 0.03
90 45 0.47
91 47 0.49
92 1 0.01
ACGTcount: A:0.35, C:0.03, G:0.24, T:0.38
Consensus pattern (91 bp):
AAAATGCAATTTCTAAGAAGTTTGGGGGCTAAAATGTGATTTTTGAGAAATTCGAGGGATCAAAA
TGTAATTTTTGGAAAGTTTAAAGGTT
Found at i:36517819 original size:3 final size:3
Alignment explanation
Indices: 36517811--36517876 Score: 123
Period size: 3 Copynumber: 22.0 Consensus size: 3
36517801 CAAATTTCCT
36517811 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
*
36517859 TTA TTA TTG TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA
36517877 CTAATCGTTT
Statistics
Matches: 61, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
3 61 1.00
ACGTcount: A:0.32, C:0.00, G:0.02, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:36518551 original size:17 final size:17
Alignment explanation
Indices: 36518531--36518614 Score: 107
Period size: 17 Copynumber: 5.0 Consensus size: 17
36518521 GACTTTTAAT
*
36518531 TAAATTTTAATTTAAAA
1 TAAATTTAAATTTAAAA
* *
36518548 TAAATTTAAACTCAAAA
1 TAAATTTAAATTTAAAA
*
36518565 TAAGTTTAAATTTAAAA
1 TAAATTTAAATTTAAAA
*
36518582 TAAATTTAAACTT-AAA
1 TAAATTTAAATTTAAAA
*
36518598 TAAATTAAAATTTAAAA
1 TAAATTTAAATTTAAAA
36518615 ATCTAAAATT
Statistics
Matches: 56, Mismatches: 10, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
16 14 0.25
17 42 0.75
ACGTcount: A:0.57, C:0.04, G:0.01, T:0.38
Consensus pattern (17 bp):
TAAATTTAAATTTAAAA
Found at i:36518557 original size:6 final size:6
Alignment explanation
Indices: 36518530--36518613 Score: 52
Period size: 6 Copynumber: 14.8 Consensus size: 6
36518520 GGACTTTTAA
* * * * * *
36518530 TTAAAT TTTAAT TTAAA- ATAAAT TTAAAC TCAAA- ATAAGT TTAAAT
1 TTAAAT TTAAAT TTAAAT TTAAAT TTAAAT TTAAAT TTAAAT TTAAAT
* * *
36518576 TTAAA- ATAAAT TTAAAC TTAAA- -TAAAT TAAAAT TTAAA
1 TTAAAT TTAAAT TTAAAT TTAAAT TTAAAT TTAAAT TTAAA
36518614 AATCTAAAAT
Statistics
Matches: 57, Mismatches: 16, Indels: 10
0.69 0.19 0.12
Matches are distributed among these distances:
4 4 0.07
5 10 0.18
6 43 0.75
ACGTcount: A:0.56, C:0.04, G:0.01, T:0.39
Consensus pattern (6 bp):
TTAAAT
Found at i:36518616 original size:34 final size:34
Alignment explanation
Indices: 36518539--36518614 Score: 118
Period size: 34 Copynumber: 2.3 Consensus size: 34
36518529 ATTAAATTTT
* *
36518539 AATTTAAAATAAATTTAAACTCAAAATAAGTTTA
1 AATTTAAAATAAATTTAAACTCAAAATAAATTAA
*
36518573 AATTTAAAATAAATTTAAACT-TAAATAAATTAA
1 AATTTAAAATAAATTTAAACTCAAAATAAATTAA
36518606 AATTTAAAA
1 AATTTAAAA
36518615 ATCTAAAATT
Statistics
Matches: 39, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
33 18 0.46
34 21 0.54
ACGTcount: A:0.59, C:0.04, G:0.01, T:0.36
Consensus pattern (34 bp):
AATTTAAAATAAATTTAAACTCAAAATAAATTAA
Found at i:36519419 original size:206 final size:208
Alignment explanation
Indices: 36518932--36519434 Score: 848
Period size: 209 Copynumber: 2.4 Consensus size: 208
36518922 TGGTTTGGGG
36518932 TCATTGATTTGGTCTACTTCTCAGTATCTCATCAGGAAGATGACCGCATCACTTGTTTTGATCCA
1 TCATTGATTTGGTCTACTTCTCAGTATCTCATCAGGAAGATGACCGCATCACTTGTTTTGATCCA
*
36518997 CTTCTCTGTGTCTCATCAGGAAGACGGATCTGGTTCACTTCTCTGTATCTCAACAGGAAGGTAAT
66 CTTCTCTGTGTCTCATCAGGAAGACGAATCTGGTTCACTTCTCTGTATCTCAACAGGAAGGTAAT
*
36519062 CGCTTTATTGCTTCGACCTGCTTCTCAGTATCTCATCAGGAAGATGAGGTTCGAAGATTTGCTCG
131 CGCTTTATTGCTTCGACC-GCTTCTCAGTATCTCATCAGGAAGATGAGGTTAGAAGATTTGCTCG
*
36519127 CTTTGAGCCTGGTT
195 CTTTGAGCCTGATT
*
36519141 TCATTGATTTGGTCTACTTCTTAGTATCTCATCAGGAAGATGACCGCATCACTTGTTTTGATCCA
1 TCATTGATTTGGTCTACTTCTCAGTATCTCATCAGGAAGATGACCGCATCACTTGTTTTGATCCA
* *
36519206 GTTCTCTGTGTCTCATCAGGAAGACGAATCTGGTTCACTTCTCTGTATCTCATCAGGAAGGTAAT
66 CTTCTCTGTGTCTCATCAGGAAGACGAATCTGGTTCACTTCTCTGTATCTCAACAGGAAGGTAAT
* * * *
36519271 TGCTTTTTTGCTTCGA-C-CTTCTCAGTATCTCATCAGGAAGTTGGGGTTAGAAGATTTGCTCGC
131 CGCTTTATTGCTTCGACCGCTTCTCAGTATCTCATCAGGAAGATGAGGTTAGAAGATTTGCTCGC
36519334 TTTGAGCCTGATT
196 TTTGAGCCTGATT
* * **
36519347 TCATTGATTTGGTCCACTTCTCAGTATCTCATCAGGAAGATGACCGCATCACTTATTTCAATCCA
1 TCATTGATTTGGTCTACTTCTCAGTATCTCATCAGGAAGATGACCGCATCACTTGTTTTGATCCA
*
36519412 CTTCTCTGTATCTCATCAGGAAG
66 CTTCTCTGTGTCTCATCAGGAAG
36519435 CTGACCATTT
Statistics
Matches: 277, Mismatches: 17, Indels: 3
0.93 0.06 0.01
Matches are distributed among these distances:
206 136 0.49
208 1 0.00
209 140 0.51
ACGTcount: A:0.22, C:0.23, G:0.20, T:0.36
Consensus pattern (208 bp):
TCATTGATTTGGTCTACTTCTCAGTATCTCATCAGGAAGATGACCGCATCACTTGTTTTGATCCA
CTTCTCTGTGTCTCATCAGGAAGACGAATCTGGTTCACTTCTCTGTATCTCAACAGGAAGGTAAT
CGCTTTATTGCTTCGACCGCTTCTCAGTATCTCATCAGGAAGATGAGGTTAGAAGATTTGCTCGC
TTTGAGCCTGATT
Found at i:36519559 original size:173 final size:168
Alignment explanation
Indices: 36519241--36519573 Score: 454
Period size: 173 Copynumber: 1.9 Consensus size: 168
36519231 GAATCTGGTT
* *
36519241 CACTTCTCTGTATCTCATCAGGAAGGTAATTGCTTTTTTGCTTCGACCTTCTCAGTATCTCATCA
1 CACTTCTCTGTATCTCATCAGGAAGCTAA-TCCTTTTTTGCTTCGACCTTCTCAGTATCTCATCA
* * *
36519306 GGAAGTTGGGGTTAGAAGATTTGCTCGCTTTGAGCCTGATTTCATTGATTTGGTCCACTTCTCAG
65 GGAAGCTGGGGTTAGAAGATTTGCTCGCATTGAGCCTGACTTCATTGATTTGGTCCACTTCTCAG
*
36519371 TATCTCATCAGGAAGATGACCGCATCACTTATTTCAATC
130 TATCTCATCAGGAAGATAACCGCATCACTTATTTCAATC
* *
36519410 CACTTCTCTGTATCTCATCAGGAAGCTGA-CCATTTTATTGCTTCGACTTGCTTCTTAGTATCTC
1 CACTTCTCTGTATCTCATCAGGAAGCTAATCC-TTTT-TTGCTTCGAC---CTTCTCAGTATCTC
* * * * **
36519474 ATCAGGAAGCTGGGGTTCGAAGTTTTGCTCGCATTGAGCTTTTG-CTTCTTTGATTTGGTCTTCT
61 ATCAGGAAGCTGGGGTTAGAAGATTTGCTCGCATTGAGC--CTGACTTCATTGATTTGGTCCACT
36519538 TCTCAGTATCTCATCAGGAAGATAACCGCATCACTT
124 TCTCAGTATCTCATCAGGAAGATAACCGCATCACTT
36519574 GTTTTGATTC
Statistics
Matches: 143, Mismatches: 14, Indels: 10
0.86 0.08 0.06
Matches are distributed among these distances:
167 1 0.01
168 4 0.03
169 37 0.26
172 48 0.34
173 51 0.36
174 2 0.01
ACGTcount: A:0.21, C:0.23, G:0.19, T:0.38
Consensus pattern (168 bp):
CACTTCTCTGTATCTCATCAGGAAGCTAATCCTTTTTTGCTTCGACCTTCTCAGTATCTCATCAG
GAAGCTGGGGTTAGAAGATTTGCTCGCATTGAGCCTGACTTCATTGATTTGGTCCACTTCTCAGT
ATCTCATCAGGAAGATAACCGCATCACTTATTTCAATC
Found at i:36521758 original size:3 final size:3
Alignment explanation
Indices: 36521750--36521862 Score: 181
Period size: 3 Copynumber: 37.0 Consensus size: 3
36521740 GGTCATCCCT
*
36521750 TTC TTC TTC TTC TTC TTC TTC TTC TTTC TTC TTC TTC TTT TTC TTC
1 TTC TTC TTC TTC TTC TTC TTC TTC -TTC TTC TTC TTC TTC TTC TTC
*
36521796 TTC TTC TTTC TTC TTC TTC TTC TTC TTC TTT TTC TTC TTC TTC TTC
1 TTC TTC -TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC
*
36521842 TTC TTC TTC TTC TTC TGC TTC
1 TTC TTC TTC TTC TTC TTC TTC
36521863 GATATCATAA
Statistics
Matches: 102, Mismatches: 6, Indels: 4
0.91 0.05 0.04
Matches are distributed among these distances:
3 96 0.94
4 6 0.06
ACGTcount: A:0.00, C:0.31, G:0.01, T:0.68
Consensus pattern (3 bp):
TTC
Found at i:36533095 original size:15 final size:14
Alignment explanation
Indices: 36533059--36533101 Score: 50
Period size: 15 Copynumber: 2.8 Consensus size: 14
36533049 ATAATAAAAA
36533059 TATAATTTTATTATTT
1 TATAA-TTT-TTATTT
36533075 TAATAATTTTTATGTT
1 T-ATAATTTTTAT-TT
36533091 TATAATTTTTA
1 TATAATTTTTA
36533102 AAAAATTAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
15 14 0.56
16 7 0.28
17 4 0.16
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.65
Consensus pattern (14 bp):
TATAATTTTTATTT
Found at i:36533173 original size:78 final size:78
Alignment explanation
Indices: 36533026--36533191 Score: 203
Period size: 80 Copynumber: 2.1 Consensus size: 78
36533016 TTTTTTTTCG
* **
36533026 AAATTAAA-TTATATATTTTTATAATAATAAAAATATAATTTTATTATTTTAATAATTTTTATGT
1 AAATTAAATTTATATATTTTTAAAATAATAAAAATATAATTTTATTATTTT-ATAATTTAAATGT
* *
36533090 TTATAATTTTTAAA
65 TTATAAATTATAAA
* * *
36533104 AAATTAAATTTTTATTATTTTTAAAATAGTTAAAATATAATTTTATTATTTT-TAATTTAAAAT-
1 AAATTAAATTTATA-TATTTTTAAAATAATAAAAATATAATTTTATTATTTTATAATTT-AAATG
36533167 TTTATAAATTATAAA
64 TTTATAAATTATAAA
36533182 AAATTTAAAT
1 AAA-TTAAAT
36533192 AAAAAAATTT
Statistics
Matches: 76, Mismatches: 8, Indels: 7
0.84 0.09 0.08
Matches are distributed among these distances:
78 30 0.39
79 12 0.16
80 34 0.45
ACGTcount: A:0.46, C:0.00, G:0.01, T:0.52
Consensus pattern (78 bp):
AAATTAAATTTATATATTTTTAAAATAATAAAAATATAATTTTATTATTTTATAATTTAAATGTT
TATAAATTATAAA
Found at i:36538074 original size:11 final size:11
Alignment explanation
Indices: 36538055--36538098 Score: 52
Period size: 11 Copynumber: 3.9 Consensus size: 11
36538045 TTAAGTTTAT
36538055 GAATGAATTTG
1 GAATGAATTTG
* *
36538066 GAATTAATTTAT
1 GAATGAATTT-G
36538078 GAATGAATTTG
1 GAATGAATTTG
*
36538089 GAATTAATTT
1 GAATGAATTT
36538099 ATTAAATAAT
Statistics
Matches: 27, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
11 18 0.67
12 9 0.33
ACGTcount: A:0.39, C:0.00, G:0.18, T:0.43
Consensus pattern (11 bp):
GAATGAATTTG
Found at i:36538110 original size:23 final size:23
Alignment explanation
Indices: 36538043--36538100 Score: 107
Period size: 23 Copynumber: 2.5 Consensus size: 23
36538033 ACTTGAAATT
36538043 AATTAAGTTTATGAATGAATTTGG
1 AATTAA-TTTATGAATGAATTTGG
36538067 AATTAATTTATGAATGAATTTGG
1 AATTAATTTATGAATGAATTTGG
36538090 AATTAATTTAT
1 AATTAATTTAT
36538101 TAAATAATTT
Statistics
Matches: 34, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
23 28 0.82
24 6 0.18
ACGTcount: A:0.40, C:0.00, G:0.16, T:0.45
Consensus pattern (23 bp):
AATTAATTTATGAATGAATTTGG
Found at i:36538789 original size:15 final size:15
Alignment explanation
Indices: 36538769--36538803 Score: 61
Period size: 15 Copynumber: 2.3 Consensus size: 15
36538759 AGTTATAAAT
36538769 TTTTAAGGTTTAAGG
1 TTTTAAGGTTTAAGG
*
36538784 TTTTAATGTTTAAGG
1 TTTTAAGGTTTAAGG
36538799 TTTTA
1 TTTTA
36538804 GTTTTTTAAG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.26, C:0.00, G:0.20, T:0.54
Consensus pattern (15 bp):
TTTTAAGGTTTAAGG
Found at i:36538794 original size:8 final size:8
Alignment explanation
Indices: 36538769--36538833 Score: 64
Period size: 8 Copynumber: 8.4 Consensus size: 8
36538759 AGTTATAAAT
36538769 TTTTAAGG
1 TTTTAAGG
36538777 -TTTAAGG
1 TTTTAAGG
*
36538784 TTTTAATG
1 TTTTAAGG
36538792 -TTTAAGG
1 TTTTAAGG
*
36538799 TTTT-AGTT
1 TTTTAAG-G
36538807 TTTTAAGG
1 TTTTAAGG
* *
36538815 GTTTAAAG
1 TTTTAAGG
36538823 TTTTAAGG
1 TTTTAAGG
36538831 TTT
1 TTT
36538834 AGTGTTTAAA
Statistics
Matches: 45, Mismatches: 8, Indels: 8
0.74 0.13 0.13
Matches are distributed among these distances:
7 15 0.33
8 28 0.62
9 2 0.04
ACGTcount: A:0.25, C:0.00, G:0.22, T:0.54
Consensus pattern (8 bp):
TTTTAAGG
Found at i:36538813 original size:16 final size:15
Alignment explanation
Indices: 36538777--36538833 Score: 60
Period size: 15 Copynumber: 3.7 Consensus size: 15
36538767 ATTTTTAAGG
*
36538777 TTTAAGGTTTTAATG
1 TTTAAGGTTTTAATT
*
36538792 TTTAAGGTTTTAGTTT
1 TTTAAGGTTTTA-ATT
* *
36538808 TTTAAGGGTTTAAAGT
1 TTTAA-GGTTTTAATT
36538824 TTTAAGGTTT
1 TTTAAGGTTT
36538834 AGTGTTTAAA
Statistics
Matches: 35, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
15 17 0.49
16 12 0.34
17 6 0.17
ACGTcount: A:0.25, C:0.00, G:0.21, T:0.54
Consensus pattern (15 bp):
TTTAAGGTTTTAATT
Found at i:36538840 original size:15 final size:16
Alignment explanation
Indices: 36538777--36538833 Score: 71
Period size: 16 Copynumber: 3.6 Consensus size: 16
36538767 ATTTTTAAGG
36538777 TTTAAGGTTTTAATG-
1 TTTAAGGTTTTAATGT
* *
36538792 TTTAAGGTTTTAGTTT
1 TTTAAGGTTTTAATGT
* *
36538808 TTTAAGGGTTTAAAGT
1 TTTAAGGTTTTAATGT
36538824 TTTAAGGTTT
1 TTTAAGGTTT
36538834 AGTGTTTAAA
Statistics
Matches: 34, Mismatches: 7, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
15 13 0.38
16 21 0.62
ACGTcount: A:0.25, C:0.00, G:0.21, T:0.54
Consensus pattern (16 bp):
TTTAAGGTTTTAATGT
Found at i:36541664 original size:209 final size:203
Alignment explanation
Indices: 36541294--36541854 Score: 891
Period size: 209 Copynumber: 2.8 Consensus size: 203
36541284 AATGCAAATA
*
36541294 AATTTTGGAAACCATTTTAGCACTATTGTAATTTTATGAATCATAATTTTTTTTATTTCAAATAA
1 AATTTTGG-GACCATTTTAGCACTATTGTAATTTTATGAATCATAATTTTTTTTATTTCAAATAA
*
36541359 ATTAATGTTAAATTTCAAGGGTTTACACTAACTAAGATTAAATTAAATAGATAAAATTTAAATTT
65 ATTAATGTTAAATTTCAAGGGTTTACACTAACTAAGATTAAATTTAATAGATAAAATTTAAATTT
* * *
36541424 AAATAACATTTAAATAAAAATGAATCCTAAAACTTTGTATCAAAAATAAAATTTTTATTTTTATT
130 AAATAACATTTAAATAAAAATCAACCCTAAAACTTTGTATC-AAAATAAAATTTTAATTTTTATT
36541489 TAATAATTTTTTTT
194 TAATAA----TTTT
*
36541503 AATTTTGGGACCATTTTAGCACTATTGTAATTTTATGAATCATAATTTTTTTTTATTCCAAATAA
1 AATTTTGGGACCATTTTAGCACTATTGTAATTTTATGAATCATAA-TTTTTTTTATTTCAAATAA
* * * *
36541568 ATTAATGTTAAATTTCAATGATTTACACTAACTAAGATCAAATTTAATAGATAAAATTTATATTT
65 ATTAATGTTAAATTTCAAGGGTTTACACTAACTAAGATTAAATTTAATAGATAAAATTTAAATTT
* * *
36541633 AAATAACATTTAAATAAAAATCAGCCCTAAAATTTTGTATCAAAATAAAGTTTTAATTTTTATTT
130 AAATAACATTTAAATAAAAATCAACCCTAAAACTTTGTATCAAAATAAAATTTTAATTTTTATTT
36541698 AATAATTTT
195 AATAATTTT
36541707 --TTTTGGGACCATTTTAGCACTATTGTAATTTTATGAATCATAA---TTTTTATTTCAAATAAA
1 AATTTTGGGACCATTTTAGCACTATTGTAATTTTATGAATCATAATTTTTTTTATTTCAAATAAA
36541767 TTAATGTTAAATTTCAAGGGTTTACACTAACTAAGATTAAA-TTATATAGATAAAATTTAAATTT
66 TTAATGTTAAATTTCAAGGGTTTACACTAACTAAGATTAAATTTA-ATAGATAAAATTTAAATTT
36541831 AAATAACATTTAAATAAAAATCAA
130 AAATAACATTTAAATAAAAATCAA
36541855 ACACAAACAA
Statistics
Matches: 331, Mismatches: 19, Indels: 15
0.91 0.05 0.04
Matches are distributed among these distances:
197 3 0.01
198 95 0.29
202 43 0.13
204 4 0.01
208 63 0.19
209 123 0.37
ACGTcount: A:0.42, C:0.08, G:0.07, T:0.43
Consensus pattern (203 bp):
AATTTTGGGACCATTTTAGCACTATTGTAATTTTATGAATCATAATTTTTTTTATTTCAAATAAA
TTAATGTTAAATTTCAAGGGTTTACACTAACTAAGATTAAATTTAATAGATAAAATTTAAATTTA
AATAACATTTAAATAAAAATCAACCCTAAAACTTTGTATCAAAATAAAATTTTAATTTTTATTTA
ATAATTTT
Found at i:36542661 original size:22 final size:22
Alignment explanation
Indices: 36542636--36542677 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
36542626 ATAATATAAA
*
36542636 TAAAAAATATAAATTAAAATTT
1 TAAAAAATAAAAATTAAAATTT
*
36542658 TAAAATATAAAAATTAAAAT
1 TAAAAAATAAAAATTAAAAT
36542678 AATCAGTTTT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (22 bp):
TAAAAAATAAAAATTAAAATTT
Found at i:36543056 original size:18 final size:18
Alignment explanation
Indices: 36543033--36543073 Score: 64
Period size: 18 Copynumber: 2.3 Consensus size: 18
36543023 AATAAATACA
*
36543033 AAATACTCATATTAAAAG
1 AAATACTCAAATTAAAAG
*
36543051 AAATACTCAAATTTAAAG
1 AAATACTCAAATTAAAAG
36543069 AAATA
1 AAATA
36543074 TTTTTTCGAA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.59, C:0.10, G:0.05, T:0.27
Consensus pattern (18 bp):
AAATACTCAAATTAAAAG
Found at i:36544424 original size:15 final size:16
Alignment explanation
Indices: 36544404--36544435 Score: 57
Period size: 15 Copynumber: 2.1 Consensus size: 16
36544394 GAAATAATAA
36544404 TTTGAAAA-TTAAATT
1 TTTGAAAACTTAAATT
36544419 TTTGAAAACTTAAATT
1 TTTGAAAACTTAAATT
36544435 T
1 T
36544436 GATTTGGTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 8 0.50
16 8 0.50
ACGTcount: A:0.44, C:0.03, G:0.06, T:0.47
Consensus pattern (16 bp):
TTTGAAAACTTAAATT
Found at i:36545018 original size:17 final size:16
Alignment explanation
Indices: 36544995--36545066 Score: 72
Period size: 17 Copynumber: 4.3 Consensus size: 16
36544985 ATTTTTAATT
36544995 TTTAATTTACTTTAAG
1 TTTAATTTACTTTAAG
* *
36545011 TTTGAATTTATTTTAAA
1 TTT-AATTTACTTTAAG
* *
36545028 TTTAAATTCATTTTAAG
1 TTT-AATTTACTTTAAG
*
36545045 TTTAAGTTTACTTTAAA
1 TTTAA-TTTACTTTAAG
36545062 TTTAA
1 TTTAA
36545067 AATTATTTTA
Statistics
Matches: 46, Mismatches: 8, Indels: 3
0.81 0.14 0.05
Matches are distributed among these distances:
16 5 0.11
17 41 0.89
ACGTcount: A:0.35, C:0.04, G:0.06, T:0.56
Consensus pattern (16 bp):
TTTAATTTACTTTAAG
Found at i:36545026 original size:34 final size:34
Alignment explanation
Indices: 36544987--36545067 Score: 101
Period size: 34 Copynumber: 2.4 Consensus size: 34
36544977 GAGTCCAAAT
* * *
36544987 TTTTAATTTTTAATTTACTTTAAGTTTGAA-TTTA
1 TTTTAAATTTAAATTCACTTTAAGTTT-AAGTTTA
*
36545021 TTTTAAATTTAAATTCATTTTAAGTTTAAGTTTA
1 TTTTAAATTTAAATTCACTTTAAGTTTAAGTTTA
*
36545055 CTTTAAATTTAAA
1 TTTTAAATTTAAA
36545068 ATTATTTTAA
Statistics
Matches: 41, Mismatches: 5, Indels: 2
0.85 0.10 0.04
Matches are distributed among these distances:
33 2 0.05
34 39 0.95
ACGTcount: A:0.35, C:0.04, G:0.05, T:0.57
Consensus pattern (34 bp):
TTTTAAATTTAAATTCACTTTAAGTTTAAGTTTA
Found at i:36545075 original size:34 final size:34
Alignment explanation
Indices: 36545005--36545077 Score: 105
Period size: 34 Copynumber: 2.1 Consensus size: 34
36544995 TTTAATTTAC
*
36545005 TTTAAGTTTGAATTTATTTTAAATTTAAATTCAT
1 TTTAAGTTTGAATTTACTTTAAATTTAAATTCAT
36545039 TTTAAGTTT-AAGTTTACTTTAAATTTAAAATT-AT
1 TTTAAGTTTGAA-TTTACTTTAAATTT-AAATTCAT
36545073 TTTAA
1 TTTAA
36545078 ATTAAAACTT
Statistics
Matches: 36, Mismatches: 1, Indels: 4
0.88 0.02 0.10
Matches are distributed among these distances:
33 2 0.06
34 29 0.81
35 5 0.14
ACGTcount: A:0.37, C:0.03, G:0.05, T:0.55
Consensus pattern (34 bp):
TTTAAGTTTGAATTTACTTTAAATTTAAATTCAT
Found at i:36545076 original size:17 final size:17
Alignment explanation
Indices: 36545018--36545084 Score: 75
Period size: 17 Copynumber: 4.0 Consensus size: 17
36545008 AAGTTTGAAT
36545018 TTATTTTAAATTT-AAA
1 TTATTTTAAATTTAAAA
* **
36545034 TTCATTTTAAGTTTAAGT
1 TT-ATTTTAAATTTAAAA
*
36545052 TTACTTTAAATTTAAAA
1 TTATTTTAAATTTAAAA
36545069 TTATTTTAAA-TTAAAA
1 TTATTTTAAATTTAAAA
36545085 CTTAACTTTG
Statistics
Matches: 41, Mismatches: 8, Indels: 4
0.77 0.15 0.08
Matches are distributed among these distances:
16 8 0.20
17 30 0.73
18 3 0.07
ACGTcount: A:0.42, C:0.03, G:0.03, T:0.52
Consensus pattern (17 bp):
TTATTTTAAATTTAAAA
Found at i:36546864 original size:30 final size:30
Alignment explanation
Indices: 36546822--36546923 Score: 118
Period size: 30 Copynumber: 3.5 Consensus size: 30
36546812 GTAGATCCCT
* ** *
36546822 AAACTATCCAAAAATCATGTTTTGGCCCCC
1 AAACTTTCCAAAAATCACATTTTGACCCCC
* *
36546852 AAACTTTTCAAAAATTACATTTTGACCCCC
1 AAACTTTCCAAAAATCACATTTTGACCCCC
*
36546882 AAACTTTCCAAAAATCACATTTTG-CCCTC
1 AAACTTTCCAAAAATCACATTTTGACCCCC
*
36546911 AAA-TTTCTAAAAA
1 AAACTTTCCAAAAA
36546924 ATTCCATTTT
Statistics
Matches: 62, Mismatches: 10, Indels: 2
0.84 0.14 0.03
Matches are distributed among these distances:
28 9 0.15
29 7 0.11
30 46 0.74
ACGTcount: A:0.38, C:0.26, G:0.05, T:0.30
Consensus pattern (30 bp):
AAACTTTCCAAAAATCACATTTTGACCCCC
Found at i:36546889 original size:29 final size:29
Alignment explanation
Indices: 36546841--36546938 Score: 101
Period size: 30 Copynumber: 3.3 Consensus size: 29
36546831 AAAAATCATG
*
36546841 TTTTGGCCCCCAAACTTTTCAAAAATTACA
1 TTTTGACCCCCAAAC-TTTCAAAAATTACA
*
36546871 TTTTGACCCCCAAACTTTCCAAAAATCACA
1 TTTTGACCCCCAAACTTT-CAAAAATTACA
* *
36546901 TTTTG-CCCTCAAA-TTTCTAAAAAATTCCA
1 TTTTGACCCCCAAACTTTC--AAAAATTACA
36546930 TTTTTGACC
1 -TTTTGACC
36546939 TCGATTTCTC
Statistics
Matches: 58, Mismatches: 5, Indels: 9
0.81 0.07 0.12
Matches are distributed among these distances:
27 1 0.02
28 3 0.05
29 18 0.31
30 34 0.59
31 2 0.03
ACGTcount: A:0.33, C:0.28, G:0.05, T:0.35
Consensus pattern (29 bp):
TTTTGACCCCCAAACTTTCAAAAATTACA
Found at i:36546993 original size:62 final size:60
Alignment explanation
Indices: 36546886--36547080 Score: 183
Period size: 62 Copynumber: 3.3 Consensus size: 60
36546876 ACCCCCAAAC
* ** *
36546886 TTTCCAAAAATCA-CATTTTGCCCTCAAATTTCTAAAAAATTCCATTTTTGACCTCG-AT
1 TTTCCAAAAATTACCATTTACCCCTCAAATTTCTAAAAAATTCCATTTTTAACCTCGAAT
*
36546944 TTCTCCAAATAAAATTACCATTTTACCCCT-AAATTT-TCAAAAATTCCATTTTTAACCTCGAAT
1 TT-TCC--A-AAAATTACCA-TTTACCCCTCAAATTTCTAAAAAATTCCATTTTTAACCTCGAAT
* * * * * *
36547007 TTTCCAAAAATTACCATTTA-CCC-CGAATGTCT-AAAATTTCCATTTTT-ACCCCTAAA
1 TTTCCAAAAATTACCATTTACCCCTCAAATTTCTAAAAAATTCCATTTTTAACCTCGAAT
36547063 TTTCCAAAAATT-CCATTT
1 TTTCCAAAAATTACCATTT
36547081 TTAACCTCGA
Statistics
Matches: 117, Mismatches: 11, Indels: 21
0.79 0.07 0.14
Matches are distributed among these distances:
55 6 0.05
56 18 0.15
57 21 0.18
58 7 0.06
59 13 0.11
60 1 0.01
61 1 0.01
62 31 0.26
63 12 0.10
64 7 0.06
ACGTcount: A:0.34, C:0.25, G:0.03, T:0.38
Consensus pattern (60 bp):
TTTCCAAAAATTACCATTTACCCCTCAAATTTCTAAAAAATTCCATTTTTAACCTCGAAT
Found at i:36547064 original size:86 final size:88
Alignment explanation
Indices: 36546953--36547141 Score: 303
Period size: 86 Copynumber: 2.2 Consensus size: 88
36546943 TTTCTCCAAA
* *
36546953 TAAAATTACCA-TTTTACCCCTAAATTTTCAAAAATTCCATTTTTAACCTCGAATTTTCCAAAAA
1 TAAAATTTCCATTTTTACCCCTAAATTTCCAAAAATTCCATTTTTAACCTCGAATTTTCCAAAAA
*
36547017 TTACCA-TTTACCC-CGAATGTC
66 GTACCATTTTACCCTCGAATGTC
*
36547038 TAAAATTTCCATTTTTACCCCTAAATTTCCAAAAATTCCATTTTTAACCTCGATTTTTCCAAAAA
1 TAAAATTTCCATTTTTACCCCTAAATTTCCAAAAATTCCATTTTTAACCTCGAATTTTCCAAAAA
*
36547103 GTACCATTTTACCCTTGAATGTC
66 GTACCATTTTACCCTCGAATGTC
*
36547126 TAAAAATTCCATTTTT
1 TAAAATTTCCATTTTT
36547142 GCCCTCGAGC
Statistics
Matches: 95, Mismatches: 6, Indels: 3
0.91 0.06 0.03
Matches are distributed among these distances:
85 10 0.11
86 56 0.59
87 7 0.07
88 22 0.23
ACGTcount: A:0.34, C:0.23, G:0.04, T:0.39
Consensus pattern (88 bp):
TAAAATTTCCATTTTTACCCCTAAATTTCCAAAAATTCCATTTTTAACCTCGAATTTTCCAAAAA
GTACCATTTTACCCTCGAATGTC
Found at i:36547093 original size:28 final size:29
Alignment explanation
Indices: 36546920--36547170 Score: 147
Period size: 29 Copynumber: 8.5 Consensus size: 29
36546910 CAAATTTCTA
*
36546920 AAAAATTCCATTTTTGACCTCGATTTCTCC
1 AAAAATTCCATTTTTAACCTCGATTT-TCC
* **
36546950 AAATAAAATTACCA-TTTTACCCCTAAATTTT-C
1 --A-AAAATT-CCATTTTTA-ACCTCGATTTTCC
36546982 AAAAATTCCATTTTTAACCTCGAATTTTCC
1 AAAAATTCCATTTTTAACCTCG-ATTTTCC
* * * *
36547012 AAAAATTACCA--TTT-ACCCCGAATGTCT
1 AAAAATT-CCATTTTTAACCTCGATTTTCC
* * * *
36547039 AAAATTTCCATTTTT-ACCCCTAAATTTCC
1 AAAAATTCCATTTTTAACCTC-GATTTTCC
36547068 AAAAATTCCATTTTTAACCTCGATTTTTCC
1 AAAAATTCCATTTTTAACCTCGA-TTTTCC
* * * * * *
36547098 AAAAAGTACCA-TTTTACCCTTGAATGTCT
1 AAAAA-TTCCATTTTTAACCTCGATTTTCC
** **
36547127 AAAAATTCCATTTTTGCCCTCGAGCTTCC
1 AAAAATTCCATTTTTAACCTCGATTTTCC
36547156 AAAAATTACCATTTT
1 AAAAATT-CCATTTT
36547171 ATACCCGAAC
Statistics
Matches: 172, Mismatches: 32, Indels: 32
0.73 0.14 0.14
Matches are distributed among these distances:
26 3 0.02
27 10 0.06
28 23 0.13
29 66 0.38
30 40 0.23
31 7 0.04
32 2 0.01
33 11 0.06
34 10 0.06
ACGTcount: A:0.33, C:0.24, G:0.05, T:0.38
Consensus pattern (29 bp):
AAAAATTCCATTTTTAACCTCGATTTTCC
Found at i:36547131 original size:59 final size:58
Alignment explanation
Indices: 36547050--36547171 Score: 154
Period size: 59 Copynumber: 2.1 Consensus size: 58
36547040 AAATTTCCAT
* **
36547050 TTTTACCCCTAAATTTCCAAAAATTCCATTTTTAACCTCGATTTTTCCAAAAAGTACCA
1 TTTTACCCCTAAATGTCCAAAAATTCCATTTTTAACCTCGA-GCTTCCAAAAAGTACCA
* * * ** *
36547109 TTTTACCCTTGAATGTCTAAAAATTCCATTTTTGCCCTCGAGCTTCCAAAAATTACCA
1 TTTTACCCCTAAATGTCCAAAAATTCCATTTTTAACCTCGAGCTTCCAAAAAGTACCA
36547167 TTTTA
1 TTTTA
36547172 TACCCGAACA
Statistics
Matches: 54, Mismatches: 9, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
58 19 0.35
59 35 0.65
ACGTcount: A:0.31, C:0.25, G:0.06, T:0.39
Consensus pattern (58 bp):
TTTTACCCCTAAATGTCCAAAAATTCCATTTTTAACCTCGAGCTTCCAAAAAGTACCA
Found at i:36547231 original size:60 final size:57
Alignment explanation
Indices: 36547138--36547278 Score: 162
Period size: 60 Copynumber: 2.4 Consensus size: 57
36547128 AAAATTCCAT
*
36547138 TTTTGCCCTCGAGCT-TCCAAAAATTACCATTTTA-TACCCGAACATCCAAAAATTAGCAT-
1 TTTTGCCC-CGAG-TATTCAAAAATTACCATTTTAGT-CCCGAACATCCAAAAATTA-C-TG
* * *
36547197 TTTTGCCCCCTGAGTGTTCAAAAATTACCGTTTTAGTCCCGAACCTCCAAAAATTACTG
1 TTTTG-CCCC-GAGTATTCAAAAATTACCATTTTAGTCCCGAACATCCAAAAATTACTG
36547256 TTTTGCCCCGAGTATTCAAAAAT
1 TTTTGCCCCGAGTATTCAAAAAT
36547279 CGCATTTTTG
Statistics
Matches: 73, Mismatches: 4, Indels: 12
0.82 0.04 0.13
Matches are distributed among these distances:
57 13 0.18
58 5 0.07
59 13 0.18
60 41 0.56
61 1 0.01
ACGTcount: A:0.30, C:0.26, G:0.11, T:0.32
Consensus pattern (57 bp):
TTTTGCCCCGAGTATTCAAAAATTACCATTTTAGTCCCGAACATCCAAAAATTACTG
Found at i:36547252 original size:29 final size:29
Alignment explanation
Indices: 36547127--36547253 Score: 87
Period size: 29 Copynumber: 4.3 Consensus size: 29
36547117 TTGAATGTCT
* * * *
36547127 AAAAATT-CCATTTTTGCCCTCGAGCTTCC
1 AAAAATTACCATTTTAGTCC-CGAACATCC
36547156 AAAAATTACCATTTTA-TACCCGAACATCC
1 AAAAATTACCATTTTAGT-CCCGAACATCC
* * * *** *
36547185 AAAAATTAGCATTTTTGCCCCCTGAGTGTTC
1 AAAAATTACCATTTTAG-TCCC-GAACATCC
* *
36547216 AAAAATTACCGTTTTAGTCCCGAACCTCC
1 AAAAATTACCATTTTAGTCCCGAACATCC
36547245 AAAAATTAC
1 AAAAATTAC
36547254 TGTTTTGCCC
Statistics
Matches: 74, Mismatches: 19, Indels: 10
0.72 0.18 0.10
Matches are distributed among these distances:
29 41 0.55
30 15 0.20
31 18 0.24
ACGTcount: A:0.33, C:0.27, G:0.09, T:0.31
Consensus pattern (29 bp):
AAAAATTACCATTTTAGTCCCGAACATCC
Found at i:36547275 original size:28 final size:28
Alignment explanation
Indices: 36547184--36547278 Score: 75
Period size: 29 Copynumber: 3.2 Consensus size: 28
36547174 CCCGAACATC
*
36547184 CAAAAATTAGCAT-TTTTGCCCCCTGAGTGTT
1 CAAAAATTA-C-TGTTTTG-CCCC-GAGTATT
* * *** *
36547215 CAAAAATTACCGTTTTAGTCCCGAACCTC
1 CAAAAATTACTGTTTT-GCCCCGAGTATT
36547244 CAAAAATTACTGTTTTGCCCCGAGTATT
1 CAAAAATTACTGTTTTGCCCCGAGTATT
36547272 CAAAAAT
1 CAAAAAT
36547279 CGCATTTTTG
Statistics
Matches: 50, Mismatches: 12, Indels: 7
0.72 0.17 0.10
Matches are distributed among these distances:
28 14 0.28
29 18 0.36
30 8 0.16
31 10 0.20
ACGTcount: A:0.32, C:0.24, G:0.13, T:0.32
Consensus pattern (28 bp):
CAAAAATTACTGTTTTGCCCCGAGTATT
Found at i:36550068 original size:14 final size:15
Alignment explanation
Indices: 36550044--36550076 Score: 50
Period size: 14 Copynumber: 2.3 Consensus size: 15
36550034 TTGTTTTTAT
36550044 TGATGGATAATTGTA
1 TGATGGATAATTGTA
*
36550059 TGAT-GATAATTTTA
1 TGATGGATAATTGTA
36550073 TGAT
1 TGAT
36550077 TTCTACTACT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 13 0.76
15 4 0.24
ACGTcount: A:0.33, C:0.00, G:0.21, T:0.45
Consensus pattern (15 bp):
TGATGGATAATTGTA
Found at i:36558678 original size:11 final size:11
Alignment explanation
Indices: 36558629--36558678 Score: 59
Period size: 11 Copynumber: 4.6 Consensus size: 11
36558619 CAGCAAAAAA
36558629 TTAATAATT-TT
1 TTAA-AATTATT
36558640 TTAAAA-TATT
1 TTAAAATTATT
*
36558650 TTAAAATTAAT
1 TTAAAATTATT
36558661 TTAAAATTATT
1 TTAAAATTATT
*
36558672 TTTAAAT
1 TTAAAAT
36558679 ATAAAATTAT
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
9 1 0.03
10 10 0.29
11 23 0.68
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (11 bp):
TTAAAATTATT
Found at i:36561440 original size:25 final size:25
Alignment explanation
Indices: 36561387--36561440 Score: 81
Period size: 25 Copynumber: 2.2 Consensus size: 25
36561377 TATGAATTTT
* **
36561387 AATTAAATTTATAATGTAATATATT
1 AATTAAATTTATAATGTAACATAAA
36561412 AATTAAATTTATAATGTAACATAAA
1 AATTAAATTTATAATGTAACATAAA
36561437 AATT
1 AATT
36561441 TTGATTGTGT
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.52, C:0.02, G:0.04, T:0.43
Consensus pattern (25 bp):
AATTAAATTTATAATGTAACATAAA
Found at i:36561560 original size:31 final size:31
Alignment explanation
Indices: 36561529--36561600 Score: 87
Period size: 31 Copynumber: 2.4 Consensus size: 31
36561519 AGATGAATTA
*
36561529 AAATTAAAATTTTATAT-TTATAATT-ATATT
1 AAATTAAAATTTTACATATTA-AATTAATATT
*
36561559 AAATCAAAA-TTTACATATTAAATTACATATT
1 AAATTAAAATTTTACATATTAAATTA-ATATT
36561590 AAATTAAAATT
1 AAATTAAAATT
36561601 AAAGTATAAT
Statistics
Matches: 35, Mismatches: 3, Indels: 6
0.80 0.07 0.14
Matches are distributed among these distances:
29 10 0.29
30 11 0.31
31 13 0.37
32 1 0.03
ACGTcount: A:0.51, C:0.04, G:0.00, T:0.44
Consensus pattern (31 bp):
AAATTAAAATTTTACATATTAAATTAATATT
Found at i:36561586 original size:12 final size:12
Alignment explanation
Indices: 36561569--36561595 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
36561559 AAATCAAAAT
36561569 TTACATATTAAA
1 TTACATATTAAA
36561581 TTACATATTAAA
1 TTACATATTAAA
36561593 TTA
1 TTA
36561596 AAATTAAAGT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.48, C:0.07, G:0.00, T:0.44
Consensus pattern (12 bp):
TTACATATTAAA
Found at i:36565306 original size:13 final size:13
Alignment explanation
Indices: 36565284--36565317 Score: 52
Period size: 13 Copynumber: 2.6 Consensus size: 13
36565274 CATTATGAAG
36565284 AAAGAAAAAAGATA
1 AAAGAAAAAAGA-A
36565298 AAA-AAAAAAGAA
1 AAAGAAAAAAGAA
36565310 AAAGAAAA
1 AAAGAAAA
36565318 GGTGTATTAT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
12 4 0.21
13 12 0.63
14 3 0.16
ACGTcount: A:0.85, C:0.00, G:0.12, T:0.03
Consensus pattern (13 bp):
AAAGAAAAAAGAA
Found at i:36567266 original size:29 final size:29
Alignment explanation
Indices: 36567203--36567271 Score: 86
Period size: 29 Copynumber: 2.3 Consensus size: 29
36567193 ATTAAAATTA
* *
36567203 AACTTTTGGAAAGTTTGAGGTCGAAAATGT
1 AACTTTT-GAAAATTTGAGGGCGAAAATGT
*
36567233 GACTTTTGAAAATTTGAGGGC-AAAATGGT
1 AACTTTTGAAAATTTGAGGGCGAAAAT-GT
36567262 AACTTTTGAA
1 AACTTTTGAA
36567272 TGTTCGGGGG
Statistics
Matches: 34, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
28 5 0.15
29 23 0.68
30 6 0.18
ACGTcount: A:0.35, C:0.07, G:0.25, T:0.33
Consensus pattern (29 bp):
AACTTTTGAAAATTTGAGGGCGAAAATGT
Found at i:36567320 original size:26 final size:26
Alignment explanation
Indices: 36567298--36567370 Score: 85
Period size: 29 Copynumber: 2.7 Consensus size: 26
36567288 TAATTTTGAG
36567298 AAAGTTT-AGAGTTAAAAATTTTTGGA
1 AAAGTTTAAG-GTTAAAAATTTTTGGA
36567324 AAAGTTTAAGGTTAAAATGTATTTTTGGA
1 AAAGTTTAAGGTTAAAA---ATTTTTGGA
*
36567353 AAAGTTTAGGGATTAAAA
1 AAAGTTTAAGG-TTAAAA
36567371 TGTAATTTTG
Statistics
Matches: 41, Mismatches: 1, Indels: 6
0.85 0.02 0.12
Matches are distributed among these distances:
26 14 0.34
27 2 0.05
29 19 0.46
30 6 0.15
ACGTcount: A:0.42, C:0.00, G:0.21, T:0.37
Consensus pattern (26 bp):
AAAGTTTAAGGTTAAAAATTTTTGGA
Found at i:36567371 original size:30 final size:29
Alignment explanation
Indices: 36567283--36567592 Score: 280
Period size: 30 Copynumber: 10.6 Consensus size: 29
36567273 GTTCGGGGGC
*
36567283 AAATGTAATTTT-GAGAAAGTTTAGAGTTA
1 AAATGTAATTTTGGA-AAAGTTTAGGGTTA
* *
36567312 AAA---ATTTTTGGAAAAGTTTAAGGTTA
1 AAATGTAATTTTGGAAAAGTTTAGGGTTA
*
36567338 AAATGTATTTTTGGAAAAGTTTAGGGATTA
1 AAATGTAATTTTGGAAAAGTTTAGGG-TTA
**
36567368 AAATGTAATTTTGGAAATTTTTAGGGGTTA
1 AAATGTAATTTTGGAAAAGTTTA-GGGTTA
*
36567398 AAATGTAATTTTGG-AAAGTTTAAGGGTCA
1 AAATGTAATTTTGGAAAAGTTT-AGGGTTA
* *
36567427 AAATGTAATGTTGGAAAAGTTTAAAGGTT-
1 AAATGTAATTTTGGAAAAGTTT-AGGGTTA
* *
36567456 AAATATAGTTTTGGAAATA-TTTAGGGGTTA
1 AAATGTAATTTTGGAAA-AGTTTA-GGGTTA
*
36567486 AAATGTAATTTT-TAAGAAGTTCTAGGGTTA
1 AAATGTAATTTTGGAA-AAGTT-TAGGGTTA
* *
36567516 AAA-GATAATTTTGGAAAGGTTTGAGGG-TC
1 AAATG-TAATTTTGGAAAAGTTT-AGGGTTA
* *
36567545 AAATGTAATTTTAGAAAGGTTTGAGGGTTA
1 AAATGTAATTTTGGAAAAGTTT-AGGGTTA
* *
36567575 AAATGTGATTTTTGAAAA
1 AAATGTAATTTTGGAAAA
36567593 CTTCAGGGAT
Statistics
Matches: 234, Mismatches: 28, Indels: 37
0.78 0.09 0.12
Matches are distributed among these distances:
26 20 0.09
27 2 0.01
28 1 0.00
29 96 0.41
30 108 0.46
31 7 0.03
ACGTcount: A:0.38, C:0.01, G:0.23, T:0.38
Consensus pattern (29 bp):
AAATGTAATTTTGGAAAAGTTTAGGGTTA
Found at i:36567430 original size:59 final size:57
Alignment explanation
Indices: 36567283--36567591 Score: 281
Period size: 59 Copynumber: 5.3 Consensus size: 57
36567273 GTTCGGGGGC
* * *
36567283 AAATGTAATTTTGAGAAAGTTTAGAGTTAAAA---ATTTTTGGAAAAGTTTAAGGTTA
1 AAATGTAATTTTG-GAAAGTTTAGGGTTAAAATGTAATTTTGGAAAAGTTTAGGGTTA
* **
36567338 AAATGTATTTTTGGAAAAGTTTAGGGATTAAAATGTAATTTTGGAAATTTTTAGGGGTTA
1 AAATGTAATTTTGG-AAAGTTTAGGG-TTAAAATGTAATTTTGGAAAAGTTTA-GGGTTA
* * *
36567398 AAATGTAATTTTGGAAAGTTTAAGGGTCAAAATGTAATGTTGGAAAAGTTTAAAGGTT-
1 AAATGTAATTTTGGAAAGTTT-AGGGTTAAAATGTAATTTTGGAAAAGTTT-AGGGTTA
* * * *
36567456 AAATATAGTTTTGGAAATATTTAGGGGTTAAAATGTAATTTT-TAAGAAGTTCTAGGGTTA
1 AAATGTAATTTTGGAAA-GTTTA-GGGTTAAAATGTAATTTTGGAA-AAGTT-TAGGGTTA
* * *
36567516 AAA-GATAATTTTGGAAAGGTTTGAGGG-TCAAATGTAATTTTAGAAAGGTTTGAGGGTTA
1 AAATG-TAATTTTGGAAA-GTTT-AGGGTTAAAATGTAATTTTGGAAAAGTTT-AGGGTTA
* *
36567575 AAATGTGATTTTTGAAA
1 AAATGTAATTTTGGAAA
36567592 ACTTCAGGGA
Statistics
Matches: 208, Mismatches: 28, Indels: 32
0.78 0.10 0.12
Matches are distributed among these distances:
54 1 0.00
55 22 0.11
56 6 0.03
58 19 0.09
59 112 0.54
60 47 0.23
61 1 0.00
ACGTcount: A:0.38, C:0.01, G:0.23, T:0.38
Consensus pattern (57 bp):
AAATGTAATTTTGGAAAGTTTAGGGTTAAAATGTAATTTTGGAAAAGTTTAGGGTTA
Found at i:36568066 original size:22 final size:22
Alignment explanation
Indices: 36568024--36568076 Score: 54
Period size: 22 Copynumber: 2.4 Consensus size: 22
36568014 TCAAGGGTGT
**
36568024 CGTCGTCCTTCCGTCGTACGCG
1 CGTCGTCCTTCCGTCACACGCG
36568046 CGTCGTGCC-TCCGTCACACGCG
1 CGTCGT-CCTTCCGTCACACGCG
*
36568068 TCGCCGTCC
1 -CGTCGTCC
36568077 ACGGCTATAG
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
22 19 0.73
23 7 0.27
ACGTcount: A:0.06, C:0.45, G:0.26, T:0.23
Consensus pattern (22 bp):
CGTCGTCCTTCCGTCACACGCG
Found at i:36569506 original size:39 final size:39
Alignment explanation
Indices: 36569463--36570034 Score: 288
Period size: 39 Copynumber: 14.7 Consensus size: 39
36569453 GATGGTTGTA
* * * *
36569463 ATCTGCCCTTGTCGCGGGGTAAGAGATTGACTGACGGTG
1 ATCTGCCCTAGGCTCGGGGTAAGAGATTGACTGATGGTG
* * * * * * * *
36569502 ATCTGCCAC-ATGATCAGGGTAAAAGATTGAATGGTTGTA
1 ATCTGCC-CTAGGCTCGGGGTAAGAGATTGACTGATGGTG
* *
36569541 ATCTGCCCCAGGCTCGGGGTAAGAGATTGGCTGATGGTG
1 ATCTGCCCTAGGCTCGGGGTAAGAGATTGACTGATGGTG
*
36569580 ATCTG-TCTCAGGCTCGGGGTAAGAGATTGACTGATGGTG
1 ATCTGCCCT-AGGCTCGGGGTAAGAGATTGACTGATGGTG
*
36569619 ATCTGCCCTAGGCTCGGGGTAAG-GATCGA---ATGGCTG
1 ATCTGCCCTAGGCTCGGGGTAAGAGATTGACTGATGG-TG
* * * *
36569655 CAATCTGCCCCAGGCTCGAGGTAAGAGATTGGCTAATGGTG
1 --ATCTGCCCTAGGCTCGGGGTAAGAGATTGACTGATGGTG
* * * * * * *
36569696 ATTTGCCCCAGGTTTGGGGTAAAAGATCAGA-TGACT-GTA
1 ATCTGCCCTAGGCTCGGGGTAAGAGAT-TGACTGA-TGGTG
* * * *
36569735 ATCTACCGTAGGCTCGAGGTAAGAGATT-AGTTGATGGTG
1 ATCTGCCCTAGGCTCGGGGTAAGAGATTGA-CTGATGGTG
* * * * * * *
36569774 ATCTGCCCCAGGTTCGGGGTAAAAGATCGAATGGCT-GTA
1 ATCTGCCCTAGGCTCGGGGTAAGAGATTGACT-GATGGTG
* * * *
36569813 ATCTACCCCAGGCTCGGGGTTAGAGATTGGCTGATGGTG
1 ATCTGCCCTAGGCTCGGGGTAAGAGATTGACTGATGGTG
* * * * * * * **
36569852 ATCTACCCCAGGTTCGAGGTAAAAGATCGGA-TGATTGCA
1 ATCTGCCCTAGGCTCGGGGTAAGAGAT-TGACTGATGGTG
* * * * *
36569891 ATATACCCCAAGCTCGGGGTAAGAGATTAACTGATGGTG
1 ATCTGCCCTAGGCTCGGGGTAAGAGATTGACTGATGGTG
* * ** * * * * *
36569930 ATCTGCCCGAGGTTCAAGGTAAAAGATCGAATGGCT-GTA
1 ATCTGCCCTAGGCTCGGGGTAAGAGATTGACT-GATGGTG
* * * * * **
36569969 ATTTGCCCCAAGCTCAGAGTAAGAGATTGTTTGATGGTG
1 ATCTGCCCTAGGCTCGGGGTAAGAGATTGACTGATGGTG
*
36570008 ATCTGCTCC-AAGCTCGGGGTAAGAGAT
1 ATCTGC-CCTAGGCTCGGGGTAAGAGAT
36570035 CGGAGGGCAG
Statistics
Matches: 394, Mismatches: 115, Indels: 48
0.71 0.21 0.09
Matches are distributed among these distances:
35 4 0.01
36 2 0.01
37 1 0.00
38 34 0.09
39 334 0.85
40 13 0.03
41 2 0.01
42 4 0.01
ACGTcount: A:0.25, C:0.18, G:0.31, T:0.25
Consensus pattern (39 bp):
ATCTGCCCTAGGCTCGGGGTAAGAGATTGACTGATGGTG
Found at i:36569694 original size:116 final size:117
Alignment explanation
Indices: 36569477--36569697 Score: 329
Period size: 116 Copynumber: 1.9 Consensus size: 117
36569467 GCCCTTGTCG
* * * *
36569477 CGGGGTAAGAGATTGACTGACGGTGATCTGCCACATGATCAGGGTAAAAGATTGAATGGTTGTAA
1 CGGGGTAAGAGATTGACTGACGGTGATCTGCCACAGGATCAGGGTAAAAGATCGAATGGCTGCAA
* *
36569542 TCTGCCCCAGGCTCGGGGTAAGAGATTGGCTGATGGTGATCTGTCTCAGGCT
66 TCTGCCCCAGGCTCGAGGTAAGAGATTGGCTAATGGTGATCTGTCTCAGGCT
* * * *
36569594 CGGGGTAAGAGATTGACTGATGGTGATCTGCC-CTAGGCTCGGGGT-AAGGATCGAATGGCTGCA
1 CGGGGTAAGAGATTGACTGACGGTGATCTGCCAC-AGGATCAGGGTAAAAGATCGAATGGCTGCA
36569657 ATCTGCCCCAGGCTCGAGGTAAGAGATTGGCTAATGGTGAT
65 ATCTGCCCCAGGCTCGAGGTAAGAGATTGGCTAATGGTGAT
36569698 TTGCCCCAGG
Statistics
Matches: 93, Mismatches: 10, Indels: 3
0.88 0.09 0.03
Matches are distributed among these distances:
116 54 0.58
117 39 0.42
ACGTcount: A:0.24, C:0.18, G:0.34, T:0.24
Consensus pattern (117 bp):
CGGGGTAAGAGATTGACTGACGGTGATCTGCCACAGGATCAGGGTAAAAGATCGAATGGCTGCAA
TCTGCCCCAGGCTCGAGGTAAGAGATTGGCTAATGGTGATCTGTCTCAGGCT
Found at i:36569715 original size:116 final size:117
Alignment explanation
Indices: 36569477--36569937 Score: 332
Period size: 117 Copynumber: 3.9 Consensus size: 117
36569467 GCCCTTGTCG
* * * *
36569477 CGGGGTAAGAGATTGACTGACGGTGATCTGCCACATGATCAGGGTAAAAGATTGAATGGTTGTAA
1 CGGGGTAAGAGATTGACTGACGGTGATCTGCCACAGGATCAGGGTAAAAGATCGAATGGCTGCAA
* * * *
36569542 TCTGCCCCAGGCTCGGGGTAAGAGATTGGCTGATGGTGATCTGTCTCAGGCT
66 TCTGCCCCAGGCTCGAGGTAAGAGATTGGCTAATGGTGATCTGCCCCAGGCT
* * * *
36569594 CGGGGTAAGAGATTGACTGATGGTGATCTGCC-CTAGGCTCGGGGT-AAGGATCGAATGGCTGCA
1 CGGGGTAAGAGATTGACTGACGGTGATCTGCCAC-AGGATCAGGGTAAAAGATCGAATGGCTGCA
* *
36569657 ATCTGCCCCAGGCTCGAGGTAAGAGATTGGCTAATGGTGATTTGCCCCAGGTT
65 ATCTGCCCCAGGCTCGAGGTAAGAGATTGGCTAATGGTGATCTGCCCCAGGCT
* * * * * * ** * * * *
36569710 TGGGGTAAAAGATCAGA-TGACTGTAATCTACCGTAGGCTC-GAGGTAAGAGATTAGTTGATGG-
1 CGGGGTAAGAGAT-TGACTGACGGTGATCTGCCACAGGATCAG-GGTAAAAGA-TCG--AATGGC
* * * * *
36569772 TG--ATCTGCCCCAGGTTCGGGGTAAAAGA-T--CGAATGGCTGTAATCTACCCCAGGCT
61 TGCAATCTGCCCCAGGCTCGAGGTAAGAGATTGGCTAATGG-TG--ATCTGCCCCAGGCT
* * * * * * * **
36569827 CGGGGTTAGAGATTGGCTGATGGTGATCTACCCCAGGTTC-GAGGTAAAAGATCGGATGATTGCA
1 CGGGGTAAGAGATTGACTGACGGTGATCTGCCACAGGATCAG-GGTAAAAGATCGAATGGCTGCA
* * * * ** *
36569891 ATATACCCCAAGCTCGGGGTAAGAGATTAACTGATGGTGATCTGCCC
65 ATCTGCCCCAGGCTCGAGGTAAGAGATTGGCTAATGGTGATCTGCCC
36569938 GAGGTTCAAG
Statistics
Matches: 271, Mismatches: 55, Indels: 36
0.75 0.15 0.10
Matches are distributed among these distances:
114 10 0.04
115 5 0.02
116 97 0.36
117 143 0.53
118 3 0.01
119 4 0.01
120 9 0.03
ACGTcount: A:0.25, C:0.18, G:0.32, T:0.25
Consensus pattern (117 bp):
CGGGGTAAGAGATTGACTGACGGTGATCTGCCACAGGATCAGGGTAAAAGATCGAATGGCTGCAA
TCTGCCCCAGGCTCGAGGTAAGAGATTGGCTAATGGTGATCTGCCCCAGGCT
Found at i:36569762 original size:78 final size:78
Alignment explanation
Indices: 36569588--36570073 Score: 508
Period size: 78 Copynumber: 6.2 Consensus size: 78
36569578 TGATCTGTCT
* * * *
36569588 CAGGCTCGGGGTAAGAGATTGACTGATGGTGATCTGCCCTAGGCTCGGGGT-AAGGATCGAATGG
1 CAGGCTCGGGGTAAGAGATTGGCTGATGGTGATCTGCCCCAGGTTCGGGGTAAAAGATCGAATGG
* *
36569652 CTGCAATCTGCCC
66 CTGTAATCTACCC
* * * *
36569665 CAGGCTCGAGGTAAGAGATTGGCTAATGGTGATTTGCCCCAGGTTTGGGGTAAAAGATC-AGATG
1 CAGGCTCGGGGTAAGAGATTGGCTGATGGTGATCTGCCCCAGGTTCGGGGTAAAAGATCGA-ATG
* *
36569729 ACTGTAATCTACCG
65 GCTGTAATCTACCC
* * * *
36569743 TAGGCTCGAGGTAAGAGATTAGTTGATGGTGATCTGCCCCAGGTTCGGGGTAAAAGATCGAATGG
1 CAGGCTCGGGGTAAGAGATTGGCTGATGGTGATCTGCCCCAGGTTCGGGGTAAAAGATCGAATGG
36569808 CTGTAATCTACCC
66 CTGTAATCTACCC
* * * * *
36569821 CAGGCTCGGGGTTAGAGATTGGCTGATGGTGATCTACCCCAGGTTCGAGGTAAAAGATCGGATGA
1 CAGGCTCGGGGTAAGAGATTGGCTGATGGTGATCTGCCCCAGGTTCGGGGTAAAAGATCGAATGG
* * *
36569886 TTGCAATATACCC
66 CTGTAATCTACCC
* ** * **
36569899 CAAGCTCGGGGTAAGAGATTAACTGATGGTGATCTGCCCGAGGTTCAAGGTAAAAGATCGAATGG
1 CAGGCTCGGGGTAAGAGATTGGCTGATGGTGATCTGCCCCAGGTTCGGGGTAAAAGATCGAATGG
* *
36569964 CTGTAATTTGCCC
66 CTGTAATCTACCC
* * * ** * * * * * *
36569977 CAAGCTCAGAGTAAGAGATTGTTTGATGGTGATCTGCTCCAAGCTCGGGGTAAGAGATCGGAGGG
1 CAGGCTCGGGGTAAGAGATTGGCTGATGGTGATCTGCCCCAGGTTCGGGGTAAAAGATCGAATGG
* **
36570042 CAGTAATCTGTCC
66 CTGTAATCTACCC
* * *
36570055 CATGATTGGGGTAAGAGAT
1 CAGGCTCGGGGTAAGAGAT
36570074 CGGAATCTTC
Statistics
Matches: 339, Mismatches: 67, Indels: 5
0.82 0.16 0.01
Matches are distributed among these distances:
77 45 0.13
78 293 0.86
79 1 0.00
ACGTcount: A:0.26, C:0.18, G:0.32, T:0.24
Consensus pattern (78 bp):
CAGGCTCGGGGTAAGAGATTGGCTGATGGTGATCTGCCCCAGGTTCGGGGTAAAAGATCGAATGG
CTGTAATCTACCC
Found at i:36577968 original size:15 final size:15
Alignment explanation
Indices: 36577948--36577981 Score: 68
Period size: 15 Copynumber: 2.3 Consensus size: 15
36577938 TAGTTACGGT
36577948 TGCCGCCTGTGTTTG
1 TGCCGCCTGTGTTTG
36577963 TGCCGCCTGTGTTTG
1 TGCCGCCTGTGTTTG
36577978 TGCC
1 TGCC
36577982 TCCAGTGGAG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.00, C:0.29, G:0.32, T:0.38
Consensus pattern (15 bp):
TGCCGCCTGTGTTTG
Found at i:36582382 original size:29 final size:30
Alignment explanation
Indices: 36582326--36582391 Score: 89
Period size: 29 Copynumber: 2.2 Consensus size: 30
36582316 ATTTTTGAGG
* * *
36582326 AATTTAGGGGTTAAAATTGAAATTTTTGGAA
1 AATTT-GGGATTAAAATTCAAAATTTTGGAA
36582357 AATTTGGGATTAAAA-TCAAAATTTTGGAA
1 AATTTGGGATTAAAATTCAAAATTTTGGAA
36582386 AATTTG
1 AATTTG
36582392 AGGTCAAAAA
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
29 18 0.56
30 9 0.28
31 5 0.16
ACGTcount: A:0.41, C:0.02, G:0.20, T:0.38
Consensus pattern (30 bp):
AATTTGGGATTAAAATTCAAAATTTTGGAA
Found at i:36582547 original size:30 final size:30
Alignment explanation
Indices: 36582449--36582645 Score: 201
Period size: 30 Copynumber: 6.7 Consensus size: 30
36582439 TTTGATGTTC
**
36582449 GAGGGT-AAAATGTAATTTT-AGAAATTTTT
1 GAGGGTCAAAATGTAATTTTGA-AAAGGTTT
36582478 G-GGGTCAAAATGTAATTTTGAAAAGGTTT
1 GAGGGTCAAAATGTAATTTTGAAAAGGTTT
* *
36582507 GA-GGTCAAAATATAATTTTGAAAAAGTTT
1 GAGGGTCAAAATGTAATTTTGAAAAGGTTT
* * *
36582536 AAGGGTTAAAATGTAATTTTTAAGAA-G-TT
1 GAGGGTCAAAATGTAATTTTGAA-AAGGTTT
* *
36582565 CAGAGGTCAAAA-GTAAATTTTGGAAAGGTTT
1 GAG-GGTCAAAATGT-AATTTTGAAAAGGTTT
* *
36582596 GAGGGTTAAAATGTAATTTTGGAAAGGTTT
1 GAGGGTCAAAATGTAATTTTGAAAAGGTTT
*
36582626 GAGGGTCAAAATGTGATTTT
1 GAGGGTCAAAATGTAATTTT
36582646 TGGAAACTTT
Statistics
Matches: 142, Mismatches: 16, Indels: 19
0.80 0.09 0.11
Matches are distributed among these distances:
28 4 0.03
29 55 0.39
30 75 0.53
31 8 0.06
ACGTcount: A:0.38, C:0.03, G:0.24, T:0.36
Consensus pattern (30 bp):
GAGGGTCAAAATGTAATTTTGAAAAGGTTT
Found at i:36583967 original size:13 final size:14
Alignment explanation
Indices: 36583949--36583979 Score: 55
Period size: 13 Copynumber: 2.3 Consensus size: 14
36583939 AATAAATAAA
36583949 ATTTATTTA-TTTT
1 ATTTATTTATTTTT
36583962 ATTTATTTATTTTT
1 ATTTATTTATTTTT
36583976 ATTT
1 ATTT
36583980 GGGTTTAATG
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 9 0.53
14 8 0.47
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (14 bp):
ATTTATTTATTTTT
Found at i:36587288 original size:18 final size:19
Alignment explanation
Indices: 36587252--36587293 Score: 50
Period size: 18 Copynumber: 2.3 Consensus size: 19
36587242 CTAAAATGGA
* *
36587252 AAATTTTTATTTAAGTTTT
1 AAATTTTTATTAAAATTTT
*
36587271 TAATTTTT-TTAAAATTTT
1 AAATTTTTATTAAAATTTT
36587289 AAATT
1 AAATT
36587294 AATAAAAGTA
Statistics
Matches: 19, Mismatches: 4, Indels: 1
0.79 0.17 0.04
Matches are distributed among these distances:
18 12 0.63
19 7 0.37
ACGTcount: A:0.36, C:0.00, G:0.02, T:0.62
Consensus pattern (19 bp):
AAATTTTTATTAAAATTTT
Found at i:36588287 original size:15 final size:15
Alignment explanation
Indices: 36588269--36588318 Score: 57
Period size: 15 Copynumber: 3.3 Consensus size: 15
36588259 ATGTGAATTC
36588269 AAATTAAATGAATAT
1 AAATTAAATGAATAT
***
36588284 AAATTTGGTGAAT-T
1 AAATTAAATGAATAT
36588298 CAAATTAAATGAATAT
1 -AAATTAAATGAATAT
36588314 AAATT
1 AAATT
36588319 TGGTTCTTTG
Statistics
Matches: 27, Mismatches: 6, Indels: 4
0.73 0.16 0.11
Matches are distributed among these distances:
14 1 0.04
15 25 0.93
16 1 0.04
ACGTcount: A:0.52, C:0.02, G:0.10, T:0.36
Consensus pattern (15 bp):
AAATTAAATGAATAT
Found at i:36588297 original size:30 final size:30
Alignment explanation
Indices: 36588261--36588322 Score: 124
Period size: 30 Copynumber: 2.1 Consensus size: 30
36588251 TGGACAATAT
36588261 GTGAATTCAAATTAAATGAATATAAATTTG
1 GTGAATTCAAATTAAATGAATATAAATTTG
36588291 GTGAATTCAAATTAAATGAATATAAATTTG
1 GTGAATTCAAATTAAATGAATATAAATTTG
36588321 GT
1 GT
36588323 TCTTTGGTTA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 32 1.00
ACGTcount: A:0.45, C:0.03, G:0.15, T:0.37
Consensus pattern (30 bp):
GTGAATTCAAATTAAATGAATATAAATTTG
Found at i:36589886 original size:14 final size:13
Alignment explanation
Indices: 36589853--36589892 Score: 53
Period size: 13 Copynumber: 3.0 Consensus size: 13
36589843 TTTCAATTAT
*
36589853 ATTTAAATTTTAA
1 ATTTAATTTTTAA
36589866 ATTTAATTTTTACA
1 ATTTAATTTTTA-A
*
36589880 CTTTAATTTTTAA
1 ATTTAATTTTTAA
36589893 TATAATATAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
13 12 0.50
14 12 0.50
ACGTcount: A:0.38, C:0.05, G:0.00, T:0.57
Consensus pattern (13 bp):
ATTTAATTTTTAA
Found at i:36604710 original size:30 final size:29
Alignment explanation
Indices: 36604637--36604839 Score: 196
Period size: 29 Copynumber: 6.9 Consensus size: 29
36604627 AGAGTTCTAG
* *
36604637 GGTTAAAATAG-AATTTTTGGAAGTTTGGG
1 GGTTAAAAT-GTAATTTTTGGAAGTTTCGA
** *
36604666 GGCAAAAATGTAATTTTTGGTAA-TTTCAA
1 GGTTAAAATGTAATTTTTGG-AAGTTTCGA
36604695 GGTTAAAATTGTAATTTTTGGAAG-TTCGA
1 GGTTAAAA-TGTAATTTTTGGAAGTTTCGA
* * * *
36604724 GGGTAAAAATGTAATTTTGGGAAGTTTTGG
1 -GGTTAAAATGTAATTTTTGGAAGTTTCGA
* * *
36604754 GGTTAAAATGTAATTTTTAGAAGTTTTGG
1 GGTTAAAATGTAATTTTTGGAAGTTTCGA
* *
36604783 GGTCAAAATGTAATTTTAGAGAAGTTTCGA
1 GGTTAAAATGTAATTTTTG-GAAGTTTCGA
*
36604813 GGTTAAAATGTAATTTTTAGACAGTTT
1 GGTTAAAATGTAATTTTTGGA-AGTTT
36604840 AGGGACCTCT
Statistics
Matches: 143, Mismatches: 23, Indels: 15
0.79 0.13 0.08
Matches are distributed among these distances:
28 1 0.01
29 89 0.62
30 53 0.37
ACGTcount: A:0.33, C:0.03, G:0.25, T:0.39
Consensus pattern (29 bp):
GGTTAAAATGTAATTTTTGGAAGTTTCGA
Found at i:36604720 original size:59 final size:58
Alignment explanation
Indices: 36604637--36604839 Score: 232
Period size: 59 Copynumber: 3.4 Consensus size: 58
36604627 AGAGTTCTAG
* *
36604637 GGTTAAAATAG-AATTTTTGGAAGTTTGGGGGCAAAAATGTAATTTTTGGTAA-TTTCAA
1 GGTTAAAAT-GTAATTTTTAGAAGTTTGGGGGCAAAAATGTAATTTTTGG-AAGTTTCGA
* * * * * * *
36604695 GGTTAAAATTGTAATTTTTGGAAGTTCGAGGGTAAAAATGTAATTTTGGGAAGTTTTGG
1 GGTTAAAA-TGTAATTTTTAGAAGTTTGGGGGCAAAAATGTAATTTTTGGAAGTTTCGA
* *
36604754 GGTTAAAATGTAATTTTTAGAAGTTTTGGGGTC-AAAATGTAATTTTAGAGAAGTTTCGA
1 GGTTAAAATGTAATTTTTAGAAG-TTTGGGGGCAAAAATGTAATTTTTG-GAAGTTTCGA
36604813 GGTTAAAATGTAATTTTTAGACAGTTT
1 GGTTAAAATGTAATTTTTAGA-AGTTT
36604840 AGGGACCTCT
Statistics
Matches: 124, Mismatches: 15, Indels: 11
0.83 0.10 0.07
Matches are distributed among these distances:
58 39 0.31
59 83 0.67
60 2 0.02
ACGTcount: A:0.33, C:0.03, G:0.25, T:0.39
Consensus pattern (58 bp):
GGTTAAAATGTAATTTTTAGAAGTTTGGGGGCAAAAATGTAATTTTTGGAAGTTTCGA
Found at i:36604791 original size:88 final size:88
Alignment explanation
Indices: 36604612--36604829 Score: 232
Period size: 88 Copynumber: 2.5 Consensus size: 88
36604602 ATTCGGGGGT
* *
36604612 AAATTGGTAA-TTTT-GAGAGTTCTAGGGTTAAAATAG-AATTTTTGGAAGTTTGGGGGCAAAAA
1 AAATT-GTAATTTTTGGA-AGTTCGAGGGTTAAAAT-GTAATTTTGGGAAGTTTGGGGGCAAAAA
* *
36604674 TGTAATTTTTGGTAATTTCAAGGTTA
63 TGTAATTTTTAGTAATTTCAAGGTCA
* * **
36604700 AAATTGTAATTTTTGGAAGTTCGAGGGTAAAAATGTAATTTTGGGAAGTTTTGGGGTTAAAATGT
1 AAATTGTAATTTTTGGAAGTTCGAGGGTTAAAATGTAATTTTGGGAAGTTTGGGGGCAAAAATGT
***
36604765 AATTTTTAG-AAGTTTTGGGGTCA
66 AATTTTTAGTAA-TTTCAAGGTCA
*
36604788 AAA-TGTAATTTTAGAGAAGTTTCGA-GGTTAAAATGTAATTTT
1 AAATTGTAATTTTTG-GAAG-TTCGAGGGTTAAAATGTAATTTT
36604830 TAGACAGTTT
Statistics
Matches: 111, Mismatches: 13, Indels: 12
0.82 0.10 0.09
Matches are distributed among these distances:
87 17 0.15
88 87 0.78
89 7 0.06
ACGTcount: A:0.33, C:0.03, G:0.25, T:0.39
Consensus pattern (88 bp):
AAATTGTAATTTTTGGAAGTTCGAGGGTTAAAATGTAATTTTGGGAAGTTTGGGGGCAAAAATGT
AATTTTTAGTAATTTCAAGGTCA
Found at i:36606124 original size:13 final size:13
Alignment explanation
Indices: 36606106--36606136 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
36606096 TTTACTTTAA
36606106 AATAAATAAGAAT
1 AATAAATAAGAAT
*
36606119 AATAAATAATAAT
1 AATAAATAAGAAT
36606132 AATAA
1 AATAA
36606137 TAACAGTACA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.71, C:0.00, G:0.03, T:0.26
Consensus pattern (13 bp):
AATAAATAAGAAT
Found at i:36606883 original size:11 final size:11
Alignment explanation
Indices: 36606867--36606900 Score: 50
Period size: 11 Copynumber: 3.0 Consensus size: 11
36606857 TTACAATGAT
36606867 ATTAAATTTAA
1 ATTAAATTTAA
*
36606878 ATTAAATTCAA
1 ATTAAATTTAA
36606889 ATTTAAATTTAA
1 A-TTAAATTTAA
36606901 TTTCAAAGTA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
11 11 0.55
12 9 0.45
ACGTcount: A:0.53, C:0.03, G:0.00, T:0.44
Consensus pattern (11 bp):
ATTAAATTTAA
Found at i:36606890 original size:17 final size:18
Alignment explanation
Indices: 36606870--36606918 Score: 66
Period size: 17 Copynumber: 2.8 Consensus size: 18
36606860 CAATGATATT
36606870 AAATTTAAA-TTAAATTC
1 AAATTTAAATTTAAATTC
*
36606887 AAATTTAAATTTAATTTC
1 AAATTTAAATTTAAATTC
*
36606905 AAA-GTAAATTTAAA
1 AAATTTAAATTTAAA
36606919 ATGGTTTGGG
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
17 18 0.64
18 10 0.36
ACGTcount: A:0.53, C:0.04, G:0.02, T:0.41
Consensus pattern (18 bp):
AAATTTAAATTTAAATTC
Found at i:36606894 original size:23 final size:23
Alignment explanation
Indices: 36606870--36606918 Score: 64
Period size: 23 Copynumber: 2.1 Consensus size: 23
36606860 CAATGATATT
*
36606870 AAATTTAAATT-AAATTCAAATTT
1 AAATTTAAATTCAAAGT-AAATTT
*
36606893 AAATTTAATTTCAAAGTAAATTT
1 AAATTTAAATTCAAAGTAAATTT
36606916 AAA
1 AAA
36606919 ATGGTTTGGG
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
23 19 0.83
24 4 0.17
ACGTcount: A:0.53, C:0.04, G:0.02, T:0.41
Consensus pattern (23 bp):
AAATTTAAATTCAAAGTAAATTT
Found at i:36606903 original size:5 final size:6
Alignment explanation
Indices: 36606868--36606918 Score: 54
Period size: 6 Copynumber: 8.8 Consensus size: 6
36606858 TACAATGATA
* *
36606868 TTAAAT TTAAA- TTAAAT TCAAAT TTAAAT TT-AAT TTCAAA- GTAAAT
1 TTAAAT TTAAAT TTAAAT TTAAAT TTAAAT TTAAAT TT-AAAT TTAAAT
36606914 TTAAA
1 TTAAA
36606919 ATGGTTTGGG
Statistics
Matches: 37, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
5 13 0.35
6 22 0.59
7 2 0.05
ACGTcount: A:0.51, C:0.04, G:0.02, T:0.43
Consensus pattern (6 bp):
TTAAAT
Found at i:36607325 original size:92 final size:92
Alignment explanation
Indices: 36607175--36607494 Score: 550
Period size: 92 Copynumber: 3.5 Consensus size: 92
36607165 ATGTCGAGGT
36607175 TTCATCTTGCTCTTACTACAACTTCAGAGATAGATAAAGACTTGCTATCCAACTTTACTACAACT
1 TTCATCTTGCTCTTACTACAACTTCAGAG--AGATAAAGACTTGCTATCCAACTTTACTACAACT
* *
36607240 TCAAAATGATAGGAATTGATGTTTGATGC
64 TCAAGAGGATAGGAATTGATGTTTGATGC
*
36607269 TTCATCTTGCTCTTACTATAACTTCAGAGAGATAAAGACTTGCTATCCAACTTTACTACAACTTC
1 TTCATCTTGCTCTTACTACAACTTCAGAGAGATAAAGACTTGCTATCCAACTTTACTACAACTTC
36607334 AAGAGGATAGGAATTGATGTTTGATGC
66 AAGAGGATAGGAATTGATGTTTGATGC
36607361 TTCATCTTGCTCTTACTACAACTTCAGAGAGATAAAGACTTGCTATCCAACTTTACTACAACTTC
1 TTCATCTTGCTCTTACTACAACTTCAGAGAGATAAAGACTTGCTATCCAACTTTACTACAACTTC
* **
36607426 AAGAGGATAGAAATTGATGTTTGAAAC
66 AAGAGGATAGGAATTGATGTTTGATGC
* *
36607453 TTTATCTTGCTCTTACTACAACTTCAAAGAGATAAAGACTTG
1 TTCATCTTGCTCTTACTACAACTTCAGAGAGATAAAGACTTG
36607495 TTATTTTGAT
Statistics
Matches: 217, Mismatches: 9, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
92 189 0.87
94 28 0.13
ACGTcount: A:0.33, C:0.19, G:0.14, T:0.33
Consensus pattern (92 bp):
TTCATCTTGCTCTTACTACAACTTCAGAGAGATAAAGACTTGCTATCCAACTTTACTACAACTTC
AAGAGGATAGGAATTGATGTTTGATGC
Found at i:36608956 original size:6 final size:6
Alignment explanation
Indices: 36608942--36608989 Score: 60
Period size: 6 Copynumber: 7.5 Consensus size: 6
36608932 CATCTCGACC
*
36608942 TTTCAT TTTCTT TTTCTT TTTCTTT TTTCTTT TTTCTTT TTTCTT TTT
1 TTTCTT TTTCTT TTTCTT TTTC-TT TTTC-TT TTTC-TT TTTCTT TTT
36608990 TTACATATAT
Statistics
Matches: 40, Mismatches: 1, Indels: 2
0.93 0.02 0.05
Matches are distributed among these distances:
6 20 0.50
7 20 0.50
ACGTcount: A:0.02, C:0.15, G:0.00, T:0.83
Consensus pattern (6 bp):
TTTCTT
Found at i:36608968 original size:7 final size:7
Alignment explanation
Indices: 36608947--36608990 Score: 74
Period size: 7 Copynumber: 6.6 Consensus size: 7
36608937 CGACCTTTCA
36608947 TTTTC-T
1 TTTTCTT
36608953 TTTTC-T
1 TTTTCTT
36608959 TTTTCTT
1 TTTTCTT
36608966 TTTTCTT
1 TTTTCTT
36608973 TTTTCTT
1 TTTTCTT
36608980 TTTTCTT
1 TTTTCTT
36608987 TTTT
1 TTTT
36608991 TACATATATA
Statistics
Matches: 37, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
6 11 0.30
7 26 0.70
ACGTcount: A:0.00, C:0.14, G:0.00, T:0.86
Consensus pattern (7 bp):
TTTTCTT
Found at i:36614687 original size:59 final size:57
Alignment explanation
Indices: 36614494--36614691 Score: 191
Period size: 59 Copynumber: 3.4 Consensus size: 57
36614484 CTTGGATACC
* * * * *
36614494 CGGGGGCAAAATGGTAATTTTGGGAAAATTCAGGGTTAAAAATGACATTTTGGACGTC
1 CGGGGGCAAAATGGTAATTTTAGGAAAAATCGGGGTCAAAAATGA-ATTTTGGACGTT
* * * * *
36614552 CGAGGGTAAAATGGT-ATTTTTGGAAAAATCGGGATCAAAAATGAAATATTTGGACATT
1 CGGGGGCAAAATGGTAATTTTAGGAAAAATCGGGGTCAAAAATG-AAT-TTTGGACGTT
* * * * * *
36614610 CGGGGGTAGAATGTTAATTTTAAGAAAAATCGGGGTGAAAAATAGAATTTTCGGATGTT
1 CGGGGGCAAAATGGTAATTTTAGGAAAAATCGGGGTCAAAAAT-GAATTTT-GGACGTT
*
36614669 CGGGGGCAAAATTGTAATTTTAG
1 CGGGGGCAAAATGGTAATTTTAG
36614692 ACTTTAAGGG
Statistics
Matches: 112, Mismatches: 23, Indels: 9
0.78 0.16 0.06
Matches are distributed among these distances:
57 25 0.22
58 37 0.33
59 49 0.44
60 1 0.01
ACGTcount: A:0.35, C:0.08, G:0.28, T:0.29
Consensus pattern (57 bp):
CGGGGGCAAAATGGTAATTTTAGGAAAAATCGGGGTCAAAAATGAATTTTGGACGTT
Found at i:36614843 original size:50 final size:50
Alignment explanation
Indices: 36614768--36614868 Score: 202
Period size: 50 Copynumber: 2.0 Consensus size: 50
36614758 AGGGTAAATT
36614768 GGTAATTTCGAGAGTTTCGAGGTCAAAAATAGAATTTTTGGAAGTTCGGG
1 GGTAATTTCGAGAGTTTCGAGGTCAAAAATAGAATTTTTGGAAGTTCGGG
36614818 GGTAATTTCGAGAGTTTCGAGGTCAAAAATAGAATTTTTGGAAGTTCGGG
1 GGTAATTTCGAGAGTTTCGAGGTCAAAAATAGAATTTTTGGAAGTTCGGG
36614868 G
1 G
36614869 TCAAAAATGG
Statistics
Matches: 51, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
50 51 1.00
ACGTcount: A:0.30, C:0.08, G:0.31, T:0.32
Consensus pattern (50 bp):
GGTAATTTCGAGAGTTTCGAGGTCAAAAATAGAATTTTTGGAAGTTCGGG
Found at i:36614865 original size:29 final size:29
Alignment explanation
Indices: 36614830--36614953 Score: 137
Period size: 29 Copynumber: 4.2 Consensus size: 29
36614820 TAATTTCGAG
36614830 AGTTTCGAGGTCAAAAATAG-AATTTTTGGA
1 AGTTTCGAGGTC-AAAAT-GTAATTTTTGGA
* *
36614860 AG-TTCGGGGTCAAAAATGGAATTTTTGGA
1 AGTTTCGAGGTC-AAAATGTAATTTTTGGA
*
36614889 AGTTTCG-GAGTCAAAATGTAATTTTGGAGA
1 AGTTTCGAG-GTCAAAATGTAATTTTTG-GA
*
36614919 AGTTTCGAAGTCAAAATGTAATTTTTGGA
1 AGTTTCGAGGTCAAAATGTAATTTTTGGA
36614948 CAGTTT
1 -AGTTT
36614954 AGGAACCTTC
Statistics
Matches: 83, Mismatches: 5, Indels: 12
0.83 0.05 0.12
Matches are distributed among these distances:
28 1 0.01
29 42 0.51
30 40 0.48
ACGTcount: A:0.33, C:0.07, G:0.25, T:0.35
Consensus pattern (29 bp):
AGTTTCGAGGTCAAAATGTAATTTTTGGA
Found at i:36614902 original size:30 final size:29
Alignment explanation
Indices: 36614830--36614953 Score: 135
Period size: 30 Copynumber: 4.2 Consensus size: 29
36614820 TAATTTCGAG
*
36614830 AGTTTC-GAGGTCAAAAATAGAATTTTTGGA
1 AGTTTCGGA-GTC-AAAATGGAATTTTTGGA
*
36614860 AG-TTCGGGGTCAAAAATGGAATTTTTGGA
1 AGTTTCGGAGTC-AAAATGGAATTTTTGGA
* *
36614889 AGTTTCGGAGTCAAAATGTAATTTTGGAGA
1 AGTTTCGGAGTCAAAATGGAATTTTTG-GA
* *
36614919 AGTTTCGAAGTCAAAATGTAATTTTTGGA
1 AGTTTCGGAGTCAAAATGGAATTTTTGGA
36614948 CAGTTT
1 -AGTTT
36614954 AGGAACCTTC
Statistics
Matches: 83, Mismatches: 7, Indels: 8
0.85 0.07 0.08
Matches are distributed among these distances:
29 40 0.48
30 43 0.52
ACGTcount: A:0.33, C:0.07, G:0.25, T:0.35
Consensus pattern (29 bp):
AGTTTCGGAGTCAAAATGGAATTTTTGGA
Found at i:36616247 original size:3 final size:3
Alignment explanation
Indices: 36616224--36616263 Score: 53
Period size: 3 Copynumber: 12.7 Consensus size: 3
36616214 TTTTCTTTAA
*
36616224 AAT AAGT AAG AAT AAT AAAT AAT AAT AAT AAT AAT AAT AA
1 AAT AA-T AAT AAT AAT -AAT AAT AAT AAT AAT AAT AAT AA
36616264 CAGTACAACT
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
3 27 0.82
4 6 0.18
ACGTcount: A:0.68, C:0.00, G:0.05, T:0.28
Consensus pattern (3 bp):
AAT
Found at i:36616918 original size:11 final size:11
Alignment explanation
Indices: 36616902--36616958 Score: 69
Period size: 11 Copynumber: 5.1 Consensus size: 11
36616892 TTACAATGAT
36616902 ATTAAATTTAA
1 ATTAAATTTAA
*
36616913 ATTAAATTCAA
1 ATTAAATTTAA
*
36616924 ATTAAAATTAAA
1 ATT-AAATTTAA
*
36616936 ATTGAATTTAA
1 ATTAAATTTAA
*
36616947 AATAAATTTAA
1 ATTAAATTTAA
36616958 A
1 A
36616959 ATGATTTGGC
Statistics
Matches: 39, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
11 29 0.74
12 10 0.26
ACGTcount: A:0.58, C:0.02, G:0.02, T:0.39
Consensus pattern (11 bp):
ATTAAATTTAA
Found at i:36616925 original size:17 final size:16
Alignment explanation
Indices: 36616886--36616954 Score: 66
Period size: 17 Copynumber: 4.1 Consensus size: 16
36616876 ATTTTGTAAT
* *
36616886 TTAAATTTACAATGATA
1 TTAAATTTA-AATTAAA
36616903 TTAAATTTAAATTAAA
1 TTAAATTTAAATTAAA
*
36616919 TTCAAATTAAAATTAAAA
1 TT-AAATTTAAATT-AAA
* *
36616937 TTGAATTTAAAATAAA
1 TTAAATTTAAATTAAA
36616953 TT
1 TT
36616955 TAAAATGATT
Statistics
Matches: 44, Mismatches: 6, Indels: 5
0.80 0.11 0.09
Matches are distributed among these distances:
16 12 0.27
17 27 0.61
18 5 0.11
ACGTcount: A:0.54, C:0.03, G:0.03, T:0.41
Consensus pattern (16 bp):
TTAAATTTAAATTAAA
Found at i:36616959 original size:23 final size:23
Alignment explanation
Indices: 36616904--36616960 Score: 71
Period size: 23 Copynumber: 2.5 Consensus size: 23
36616894 ACAATGATAT
*
36616904 TAAATTT-AAATTAAATTCAAAT
1 TAAATTTAAAATTAAATTCAAAA
* * *
36616926 TAAAATTAAAATTGAATTTAAAA
1 TAAATTTAAAATTAAATTCAAAA
36616949 TAAATTTAAAAT
1 TAAATTTAAAAT
36616961 GATTTGGCCC
Statistics
Matches: 29, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
22 6 0.21
23 23 0.79
ACGTcount: A:0.58, C:0.02, G:0.02, T:0.39
Consensus pattern (23 bp):
TAAATTTAAAATTAAATTCAAAA
Found at i:36619105 original size:17 final size:18
Alignment explanation
Indices: 36619085--36619120 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 18
36619075 AAAATTTTTA
*
36619085 AAAATATAAAA-AAATAG
1 AAAATAGAAAACAAATAG
36619102 AAAATAGAAAACAAATAG
1 AAAATAGAAAACAAATAG
36619120 A
1 A
36619121 GCCTAAATAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 10 0.59
18 7 0.41
ACGTcount: A:0.75, C:0.03, G:0.08, T:0.14
Consensus pattern (18 bp):
AAAATAGAAAACAAATAG
Found at i:36620304 original size:23 final size:22
Alignment explanation
Indices: 36620270--36620319 Score: 59
Period size: 22 Copynumber: 2.3 Consensus size: 22
36620260 TAATAATGAT
36620270 AAAA-TTACATTTTAATTTTAATA
1 AAAATTTACA-TTTAATTTT-ATA
*
36620293 AAAATTTA-ATTTAATTTTTTA
1 AAAATTTACATTTAATTTTATA
36620314 AAAATT
1 AAAATT
36620320 ATAAAAATTT
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
21 8 0.32
22 9 0.36
23 5 0.20
24 3 0.12
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (22 bp):
AAAATTTACATTTAATTTTATA
Found at i:36620347 original size:75 final size:75
Alignment explanation
Indices: 36620216--36620372 Score: 196
Period size: 75 Copynumber: 2.1 Consensus size: 75
36620206 ATACTACTCC
* * * *
36620216 TAAAATTTTAAATTAGATTTTTTATAATTTATAAAATTTAAAATTAATAATGATAAAATTACATT
1 TAAAAATTTAAATTAGATTTTTTAAAAATTATAAAATTTAAAATTAATAATAATAAAATTACATT
36620281 TTAATT-TTAA
66 TTAATTATT-A
*
36620291 TAAAAATTTAATTTA-ATTTTTTAAAAATTATAAAAATTTAAACTATTAA-AA-AATAAAATTAC
1 TAAAAATTTAAATTAGATTTTTTAAAAATTAT-AAAATTTAAA--ATTAATAATAATAAAATTAC
*
36620353 ATTTTTATTATTA
63 ATTTTAATTATTA
36620366 TAAAAAT
1 TAAAAAT
36620373 ATACAATTGA
Statistics
Matches: 72, Mismatches: 6, Indels: 8
0.84 0.07 0.09
Matches are distributed among these distances:
74 14 0.19
75 49 0.68
76 4 0.06
77 5 0.07
ACGTcount: A:0.51, C:0.02, G:0.01, T:0.46
Consensus pattern (75 bp):
TAAAAATTTAAATTAGATTTTTTAAAAATTATAAAATTTAAAATTAATAATAATAAAATTACATT
TTAATTATTA
Found at i:36624223 original size:30 final size:30
Alignment explanation
Indices: 36624205--36624502 Score: 317
Period size: 30 Copynumber: 9.9 Consensus size: 30
36624195 AAAATTTGGG
* *
36624205 AAAGTTTTGGGGTTAAAATATAATTTTGGA
1 AAAGTTTTGGGGTCAAAATATAATTTTGAA
* * * * *
36624235 AAAGTTTTAGGGTTAAAATGTAATTTTTAG
1 AAAGTTTTGGGGTCAAAATATAATTTTGAA
* * *
36624265 AAAGTTTTGAGGTTAAAATATAATTTTGGA
1 AAAGTTTTGGGGTCAAAATATAATTTTGAA
* * *
36624295 AAAGTTTTGGGGTCAAAATGTAATTTTTAG
1 AAAGTTTTGGGGTCAAAATATAATTTTGAA
* * *
36624325 AAAGTTTTGAGGTCAAAATATAATTTTTAG
1 AAAGTTTTGGGGTCAAAATATAATTTTGAA
* *
36624355 AAAGTTTTGAGGTCAAAATATAATTTTGGA
1 AAAGTTTTGGGGTCAAAATATAATTTTGAA
* * *
36624385 AAAGTTTTAGGGTCAAAATGTAATTTTTAA
1 AAAGTTTTGGGGTCAAAATATAATTTTGAA
* *
36624415 AAAGTTTCGGGGTCAAAATATAATTTTGGA
1 AAAGTTTTGGGGTCAAAATATAATTTTGAA
* * ** * *
36624445 AAAGTTTTTGGGTTAAAATGCAATTTTTAG
1 AAAGTTTTGGGGTCAAAATATAATTTTGAA
*
36624475 AAAGTTTTGGGGTCAAAAATGTAATTTT
1 AAAGTTTTGGGGTC-AAAATATAATTTT
36624503 TAGACAACTT
Statistics
Matches: 224, Mismatches: 43, Indels: 1
0.84 0.16 0.00
Matches are distributed among these distances:
30 212 0.95
31 12 0.05
ACGTcount: A:0.37, C:0.03, G:0.20, T:0.40
Consensus pattern (30 bp):
AAAGTTTTGGGGTCAAAATATAATTTTGAA
Found at i:36624293 original size:90 final size:88
Alignment explanation
Indices: 36624199--36624502 Score: 371
Period size: 90 Copynumber: 3.4 Consensus size: 88
36624189 AAAATGAAAA
* * * * * *
36624199 TTTGGGAAAGTTTTGGGGTTAAAATATAATTTTGGAAAAGTTTTAGGGTTAAAATGTAATTTTTA
1 TTTGGAAAAGTTTTGGGGTCAAAATGTAATTTT-AAAAAGTTTT-GGGTCAAAATATAATTTTTA
36624264 GAAAGTTTTGAGGTTAAAATATAAT
64 GAAAGTTTTGAGGTTAAAATATAAT
*
36624289 TTTGGAAAAGTTTTGGGGTCAAAATGTAATTTTTAGAAAGTTTTGAGGTCAAAATATAATTTTTA
1 TTTGGAAAAGTTTTGGGGTCAAAATGTAA-TTTTAAAAAGTTTTG-GGTCAAAATATAATTTTTA
*
36624354 GAAAGTTTTGAGGTCAAAATATAAT
64 GAAAGTTTTGAGGTTAAAATATAAT
* * *
36624379 TTTGGAAAAGTTTTAGGGTCAAAATGTAATTTTTAAAAAGTTTCGGGGTCAAAATATAA-TTTTG
1 TTTGGAAAAGTTTTGGGGTCAAAATGTAA-TTTTAAAAAGTTT-TGGGTCAAAATATAATTTTTA
**
36624443 GAAAAGTTTTTG-GGTTAAAATGCAAT
64 G-AAAG-TTTTGAGGTTAAAATATAAT
*
36624469 TTT-TAGAAAGTTTTGGGGTCAAAAATGTAATTTT
1 TTTGGA-AAAGTTTTGGGGTC-AAAATGTAATTTT
36624503 TAGACAACTT
Statistics
Matches: 190, Mismatches: 17, Indels: 14
0.86 0.08 0.06
Matches are distributed among these distances:
89 7 0.04
90 164 0.86
91 19 0.10
ACGTcount: A:0.37, C:0.03, G:0.21, T:0.40
Consensus pattern (88 bp):
TTTGGAAAAGTTTTGGGGTCAAAATGTAATTTTAAAAAGTTTTGGGTCAAAATATAATTTTTAGA
AAGTTTTGAGGTTAAAATATAAT
Found at i:36624929 original size:19 final size:18
Alignment explanation
Indices: 36624868--36624929 Score: 56
Period size: 19 Copynumber: 3.4 Consensus size: 18
36624858 TATTTTTTTG
36624868 ATATTATT--AATTATTA
1 ATATTATTACAATTATTA
* * *
36624884 ATATTAATTATAATCATAA
1 ATATT-ATTACAATTATTA
36624903 ATATTTATTACAATTATTA
1 ATA-TTATTACAATTATTA
36624922 ATTATTAT
1 A-TATTAT
36624930 GATTATTAAT
Statistics
Matches: 36, Mismatches: 5, Indels: 7
0.75 0.10 0.15
Matches are distributed among these distances:
16 5 0.14
17 3 0.08
19 24 0.67
20 4 0.11
ACGTcount: A:0.45, C:0.03, G:0.00, T:0.52
Consensus pattern (18 bp):
ATATTATTACAATTATTA
Found at i:36624952 original size:15 final size:15
Alignment explanation
Indices: 36624932--36624961 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
36624922 ATTATTATGA
36624932 TTATTAATAATATTT
1 TTATTAATAATATTT
*
36624947 TTATTAATGATATTT
1 TTATTAATAATATTT
36624962 ATGAAATTAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.37, C:0.00, G:0.03, T:0.60
Consensus pattern (15 bp):
TTATTAATAATATTT
Found at i:36625433 original size:20 final size:20
Alignment explanation
Indices: 36625395--36625433 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
36625385 CAGGGCATGG
*
36625395 TGGAGCTTGGTGGTGGCAGA
1 TGGAGCTTGGTGGTAGCAGA
36625415 TGGAGC-TGGTGGTCAGCAG
1 TGGAGCTTGGTGGT-AGCAG
36625434 CAGCATAGGC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 7 0.41
20 10 0.59
ACGTcount: A:0.15, C:0.13, G:0.49, T:0.23
Consensus pattern (20 bp):
TGGAGCTTGGTGGTAGCAGA
Found at i:36625640 original size:6 final size:6
Alignment explanation
Indices: 36625629--36625712 Score: 61
Period size: 6 Copynumber: 14.3 Consensus size: 6
36625619 AATTTAATTG
* * *
36625629 AATTTA AATTTA AA-ATA AATTTA AATAAGTG AATTTA AATTTA AGA--TA
1 AATTTA AATTTA AATTTA AATTTA AAT--TTA AATTTA AATTTA A-ATTTA
* *
36625677 AATTTA AATTTA AAATTA AA-TTA AAATT- AATTTA AA
1 AATTTA AATTTA AATTTA AATTTA AATTTA AATTTA AA
36625713 CTTTTAAATA
Statistics
Matches: 62, Mismatches: 8, Indels: 16
0.72 0.09 0.19
Matches are distributed among these distances:
4 1 0.02
5 16 0.26
6 40 0.65
7 1 0.02
8 4 0.06
ACGTcount: A:0.56, C:0.00, G:0.04, T:0.40
Consensus pattern (6 bp):
AATTTA
Found at i:36625649 original size:17 final size:17
Alignment explanation
Indices: 36625629--36625704 Score: 86
Period size: 17 Copynumber: 4.6 Consensus size: 17
36625619 AATTTAATTG
36625629 AATTTAAATTTAAAATA
1 AATTTAAATTTAAAATA
* *
36625646 AATTTAAA--T-AAGTG
1 AATTTAAATTTAAAATA
*
36625660 AATTTAAATTTAAGATA
1 AATTTAAATTTAAAATA
36625677 AATTTAAATTTAAAATTA
1 AATTTAAATTTAAAA-TA
*
36625695 AATTAAAATT
1 AATTTAAATT
36625705 AATTTAAACT
Statistics
Matches: 48, Mismatches: 7, Indels: 7
0.77 0.11 0.11
Matches are distributed among these distances:
14 11 0.23
15 1 0.02
16 1 0.02
17 24 0.50
18 11 0.23
ACGTcount: A:0.55, C:0.00, G:0.04, T:0.41
Consensus pattern (17 bp):
AATTTAAATTTAAAATA
Found at i:36625664 original size:31 final size:31
Alignment explanation
Indices: 36625627--36625685 Score: 109
Period size: 31 Copynumber: 1.9 Consensus size: 31
36625617 TTAATTTAAT
36625627 TGAATTTAAATTTAAAATAAATTTAAATAAG
1 TGAATTTAAATTTAAAATAAATTTAAATAAG
*
36625658 TGAATTTAAATTTAAGATAAATTTAAAT
1 TGAATTTAAATTTAAAATAAATTTAAAT
36625686 TTAAAATTAA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
31 27 1.00
ACGTcount: A:0.53, C:0.00, G:0.07, T:0.41
Consensus pattern (31 bp):
TGAATTTAAATTTAAAATAAATTTAAATAAG
Found at i:36625721 original size:29 final size:28
Alignment explanation
Indices: 36625632--36625731 Score: 83
Period size: 29 Copynumber: 3.4 Consensus size: 28
36625622 TTAATTGAAT
* * *
36625632 TTAAATTTAAAATAAATTTAAATAAGTGAAT
1 TTAAA-TTAAAATAAATTTAAAT--TTAAAA
*
36625663 TTAAATTTAAGATAAATTTAAATTTAAAA
1 TTAAA-TTAAAATAAATTTAAATTTAAAA
* *
36625692 TTAAATTAAAATTAATTTAAACTTTTAAA
1 TTAAATTAAAATAAATTTAAA-TTTAAAA
* *
36625721 TAAAATCAAAA
1 TTAAATTAAAA
36625732 GCCTAGGCCC
Statistics
Matches: 59, Mismatches: 9, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
28 14 0.24
29 23 0.39
31 22 0.37
ACGTcount: A:0.56, C:0.02, G:0.03, T:0.39
Consensus pattern (28 bp):
TTAAATTAAAATAAATTTAAATTTAAAA
Found at i:36625724 original size:23 final size:22
Alignment explanation
Indices: 36625644--36625726 Score: 73
Period size: 23 Copynumber: 3.7 Consensus size: 22
36625634 AAATTTAAAA
* *
36625644 TAAATTTAAAT--AAGTGAATT
1 TAAATTTAAATAAAATTAAATT
*
36625664 TAAATTTAAGATAAATTTAAATT
1 TAAATTTAA-ATAAAATTAAATT
*
36625687 TAAAATTAAATTAAAATT-AATT
1 TAAATTTAAA-TAAAATTAAATT
36625709 TAAACTTTTAAATAAAAT
1 TAAA--TTTAAATAAAAT
36625727 CAAAAGCCTA
Statistics
Matches: 51, Mismatches: 6, Indels: 9
0.77 0.09 0.14
Matches are distributed among these distances:
20 9 0.18
21 2 0.04
22 9 0.18
23 26 0.51
24 5 0.10
ACGTcount: A:0.54, C:0.01, G:0.04, T:0.41
Consensus pattern (22 bp):
TAAATTTAAATAAAATTAAATT
Found at i:36626202 original size:68 final size:68
Alignment explanation
Indices: 36626093--36627318 Score: 2015
Period size: 68 Copynumber: 17.9 Consensus size: 68
36626083 GGAAATGATC
* * *
36626093 TTGCTCTTACTTCAATTTCAGAGATAAAGACATGTTATCCACTCTACTCCAATTTCAAGAGGATG
1 TTGCTCTTACTTCAATTTCAGAGATAAAGACGTATTATCCACTCTACTTCAATTTCAAGAGGATG
36626158 ACG
66 ACG
*
36626161 TTGCTCTTACTTCAATTTCAGAGATAAAGACGTATTATCCACTCTACTTCAACTTCAAGAGGATG
1 TTGCTCTTACTTCAATTTCAGAGATAAAGACGTATTATCCACTCTACTTCAATTTCAAGAGGATG
36626226 ACG
66 ACG
*
36626229 TTGCTCTTACTTCAATTTCAGAGATAAAGACGTATTATCCACTCTACTTCAACTTCAAGAGGATG
1 TTGCTCTTACTTCAATTTCAGAGATAAAGACGTATTATCCACTCTACTTCAATTTCAAGAGGATG
36626294 ACG
66 ACG
* *
36626297 TTGCTCTTACTTCAATTTCAAAGATAAAGACGTATTATCCACTCTACTTCAATTTCAAGGGGATG
1 TTGCTCTTACTTCAATTTCAGAGATAAAGACGTATTATCCACTCTACTTCAATTTCAAGAGGATG
*
36626362 ACA
66 ACG
*
36626365 TTGCTCTTACTTCAATTTCAGAGATAAAGACGTGTTATCCACTCTACTTCAATTTCAAGAGGATG
1 TTGCTCTTACTTCAATTTCAGAGATAAAGACGTATTATCCACTCTACTTCAATTTCAAGAGGATG
36626430 ACG
66 ACG
* * *
36626433 TTGCTCTTACTTCAATTTCAGAGATAAAGACATGTTATCCAACTCTACTTCAATTTCAAGCGGAT
1 TTGCTCTTACTTCAATTTCAGAGATAAAGACGTATTATCC-ACTCTACTTCAATTTCAAGAGGAT
36626498 GACG
65 GACG
* *
36626502 TTGCTCTTACTTCAATTTCAAAGATAAAGACGTATTATCCACTCTACTTCAACTTCAAGAGGATG
1 TTGCTCTTACTTCAATTTCAGAGATAAAGACGTATTATCCACTCTACTTCAATTTCAAGAGGATG
36626567 ACG
66 ACG
*
36626570 TTGCTCTTACTTCAATTTCAGAGATAAAGACGTATTATCCACTCTACTTCAATTTCAAGGGGATG
1 TTGCTCTTACTTCAATTTCAGAGATAAAGACGTATTATCCACTCTACTTCAATTTCAAGAGGATG
*
36626635 ACA
66 ACG
*
36626638 TTGCTCTTACTTCAATTTCAGAGATAAAGACGTGTTATCCACTCTACTTCAATTTCAAGAGGATG
1 TTGCTCTTACTTCAATTTCAGAGATAAAGACGTATTATCCACTCTACTTCAATTTCAAGAGGATG
36626703 ACG
66 ACG
* *
36626706 TTGCTCTTACTTCAATTTTAGAGATAAAGACGTGTTATCCACTCTACTTCAATTTCAAGAGGATG
1 TTGCTCTTACTTCAATTTCAGAGATAAAGACGTATTATCCACTCTACTTCAATTTCAAGAGGATG
36626771 ACG
66 ACG
* * *
36626774 TTGCTCTTACTTCAATTTCAGAGATAAAGACATGTTATCCAACTCTACTTCAATTTCAAGGGGAT
1 TTGCTCTTACTTCAATTTCAGAGATAAAGACGTATTATCC-ACTCTACTTCAATTTCAAGAGGAT
36626839 GACG
65 GACG
* * * *
36626843 TTGCTCTTACTTCAATTTCAGAGATAATGACTTGA-TATCCAGCTTTACTTCAATTTCAAGCGGA
1 TTGCTCTTACTTCAATTTCAGAGATAAAGACGT-ATTATCCA-CTCTACTTCAATTTCAAGAGGA
36626907 TGACG
64 TGACG
* * *
36626912 TTGCTCTTACTTCAATTTCAGAGATAAAGACATGTTATCCAACTCTACTTCAATTTCAAGCGGAT
1 TTGCTCTTACTTCAATTTCAGAGATAAAGACGTATTATCC-ACTCTACTTCAATTTCAAGAGGAT
36626977 GACG
65 GACG
*
36626981 TTGCTCTTACTTCAATTTCAGAGATAAAGACGTATTATCCACTCTACTTCAAATTCAAGAGGATG
1 TTGCTCTTACTTCAATTTCAGAGATAAAGACGTATTATCCACTCTACTTCAATTTCAAGAGGATG
*
36627046 GCG
66 ACG
*
36627049 TTGCTCTTACTTCAATTTCAGAGATAAAGACGTATTATCCACTCTACTTCAATTTCAAGGGGATG
1 TTGCTCTTACTTCAATTTCAGAGATAAAGACGTATTATCCACTCTACTTCAATTTCAAGAGGATG
*
36627114 ACA
66 ACG
36627117 TTGCTCTTACTTCAATTTCAGAGATAAAGACGTATTATCCACTCTACTTCAATTTCAAGAGGATG
1 TTGCTCTTACTTCAATTTCAGAGATAAAGACGTATTATCCACTCTACTTCAATTTCAAGAGGATG
36627182 ACG
66 ACG
* * *
36627185 TTGCTCTTACTTCAATTTCAGAGATAAAGACATGTTATCCAACTCTACTTCAATTTCAAGCGGAT
1 TTGCTCTTACTTCAATTTCAGAGATAAAGACGTATTATCC-ACTCTACTTCAATTTCAAGAGGAT
36627250 GACG
65 GACG
* * *
36627254 TTGCTCTTACTTCAATTTCAGAGATAAAGACTTGA-TATCCAGCTTTACTTCAATTTCAAGCGGA
1 TTGCTCTTACTTCAATTTCAGAGATAAAGACGT-ATTATCCA-CTCTACTTCAATTTCAAGAGGA
36627318 T
64 T
36627319 TGGAAATGAT
Statistics
Matches: 1093, Mismatches: 56, Indels: 17
0.94 0.05 0.01
Matches are distributed among these distances:
68 754 0.69
69 338 0.31
70 1 0.00
ACGTcount: A:0.30, C:0.21, G:0.15, T:0.34
Consensus pattern (68 bp):
TTGCTCTTACTTCAATTTCAGAGATAAAGACGTATTATCCACTCTACTTCAATTTCAAGAGGATG
ACG
Found at i:36626586 original size:273 final size:272
Alignment explanation
Indices: 36626093--36627318 Score: 2085
Period size: 273 Copynumber: 4.5 Consensus size: 272
36626083 GGAAATGATC
*
36626093 TTGCTCTTACTTCAATTTCAGAGATAAAGACATGTTATCCACTCTACTCCAATTTCAAGAGGATG
1 TTGCTCTTACTTCAATTTCAGAGATAAAGACATGTTATCCACTCTACTTCAATTTCAAGAGGATG
* *
36626158 ACGTTGCTCTTACTTCAATTTCAGAGATAAAGACGTATTATCCACTCTACTTCAACTTCAAGAGG
66 ACGTTGCTCTTACTTCAATTTCAGAGATAAAGACGTGTTATCCACTCTACTTCAATTTCAAGAGG
36626223 ATGACGTTGCTCTTACTTCAATTTCAGAGATAAAGACGTATTATCCACTCTACTTCAACTTCAAG
131 ATGACGTTGCTCTTACTTCAATTTCAGAGATAAAGACGTATTATCCACTCTACTTCAACTTCAAG
*
36626288 AGGATGACGTTGCTCTTACTTCAATTTCAAAGATAAAGACGTATTATCCACTCTACTTCAATTTC
196 AGGATGACGTTGCTCTTACTTCAATTTCAGAGATAAAGACGTATTATCCACTCTACTTCAATTTC
36626353 AAGGGGATGACA
261 AAGGGGATGACA
*
36626365 TTGCTCTTACTTCAATTTCAGAGATAAAGACGTGTTATCCACTCTACTTCAATTTCAAGAGGATG
1 TTGCTCTTACTTCAATTTCAGAGATAAAGACATGTTATCCACTCTACTTCAATTTCAAGAGGATG
* *
36626430 ACGTTGCTCTTACTTCAATTTCAGAGATAAAGACATGTTATCCAACTCTACTTCAATTTCAAGCG
66 ACGTTGCTCTTACTTCAATTTCAGAGATAAAGACGTGTTATCC-ACTCTACTTCAATTTCAAGAG
*
36626495 GATGACGTTGCTCTTACTTCAATTTCAAAGATAAAGACGTATTATCCACTCTACTTCAACTTCAA
130 GATGACGTTGCTCTTACTTCAATTTCAGAGATAAAGACGTATTATCCACTCTACTTCAACTTCAA
36626560 GAGGATGACGTTGCTCTTACTTCAATTTCAGAGATAAAGACGTATTATCCACTCTACTTCAATTT
195 GAGGATGACGTTGCTCTTACTTCAATTTCAGAGATAAAGACGTATTATCCACTCTACTTCAATTT
36626625 CAAGGGGATGACA
260 CAAGGGGATGACA
*
36626638 TTGCTCTTACTTCAATTTCAGAGATAAAGACGTGTTATCCACTCTACTTCAATTTCAAGAGGATG
1 TTGCTCTTACTTCAATTTCAGAGATAAAGACATGTTATCCACTCTACTTCAATTTCAAGAGGATG
*
36626703 ACGTTGCTCTTACTTCAATTTTAGAGATAAAGACGTGTTATCCACTCTACTTCAATTTCAAGAGG
66 ACGTTGCTCTTACTTCAATTTCAGAGATAAAGACGTGTTATCCACTCTACTTCAATTTCAAGAGG
* * *
36626768 ATGACGTTGCTCTTACTTCAATTTCAGAGATAAAGACATGTTATCCAACTCTACTTCAATTTCAA
131 ATGACGTTGCTCTTACTTCAATTTCAGAGATAAAGACGTATTATCC-ACTCTACTTCAACTTCAA
* * * *
36626833 GGGGATGACGTTGCTCTTACTTCAATTTCAGAGATAATGACTTGA-TATCCAGCTTTACTTCAAT
195 GAGGATGACGTTGCTCTTACTTCAATTTCAGAGATAAAGACGT-ATTATCCA-CTCTACTTCAAT
* *
36626897 TTCAAGCGGATGACG
258 TTCAAGGGGATGACA
*
36626912 TTGCTCTTACTTCAATTTCAGAGATAAAGACATGTTATCCAACTCTACTTCAATTTCAAGCGGAT
1 TTGCTCTTACTTCAATTTCAGAGATAAAGACATGTTATCC-ACTCTACTTCAATTTCAAGAGGAT
* *
36626977 GACGTTGCTCTTACTTCAATTTCAGAGATAAAGACGTATTATCCACTCTACTTCAAATTCAAGAG
65 GACGTTGCTCTTACTTCAATTTCAGAGATAAAGACGTGTTATCCACTCTACTTCAATTTCAAGAG
* *
36627042 GATGGCGTTGCTCTTACTTCAATTTCAGAGATAAAGACGTATTATCCACTCTACTTCAATTTCAA
130 GATGACGTTGCTCTTACTTCAATTTCAGAGATAAAGACGTATTATCCACTCTACTTCAACTTCAA
* *
36627107 GGGGATGACATTGCTCTTACTTCAATTTCAGAGATAAAGACGTATTATCCACTCTACTTCAATTT
195 GAGGATGACGTTGCTCTTACTTCAATTTCAGAGATAAAGACGTATTATCCACTCTACTTCAATTT
* *
36627172 CAAGAGGATGACG
260 CAAGGGGATGACA
*
36627185 TTGCTCTTACTTCAATTTCAGAGATAAAGACATGTTATCCAACTCTACTTCAATTTCAAGCGGAT
1 TTGCTCTTACTTCAATTTCAGAGATAAAGACATGTTATCC-ACTCTACTTCAATTTCAAGAGGAT
* * * *
36627250 GACGTTGCTCTTACTTCAATTTCAGAGATAAAGACTTGATATCCAGCTTTACTTCAATTTCAAGC
65 GACGTTGCTCTTACTTCAATTTCAGAGATAAAGACGTGTTATCCA-CTCTACTTCAATTTCAAGA
36627315 GGAT
129 GGAT
36627319 TGGAAATGAT
Statistics
Matches: 907, Mismatches: 40, Indels: 12
0.95 0.04 0.01
Matches are distributed among these distances:
272 168 0.19
273 462 0.51
274 148 0.16
275 129 0.14
ACGTcount: A:0.30, C:0.21, G:0.15, T:0.34
Consensus pattern (272 bp):
TTGCTCTTACTTCAATTTCAGAGATAAAGACATGTTATCCACTCTACTTCAATTTCAAGAGGATG
ACGTTGCTCTTACTTCAATTTCAGAGATAAAGACGTGTTATCCACTCTACTTCAATTTCAAGAGG
ATGACGTTGCTCTTACTTCAATTTCAGAGATAAAGACGTATTATCCACTCTACTTCAACTTCAAG
AGGATGACGTTGCTCTTACTTCAATTTCAGAGATAAAGACGTATTATCCACTCTACTTCAATTTC
AAGGGGATGACA
Found at i:36628192 original size:16 final size:16
Alignment explanation
Indices: 36628171--36628201 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
36628161 CCTCTCCGAT
36628171 TTTTTTTTGTTTTTTG
1 TTTTTTTTGTTTTTTG
36628187 TTTTTTTTGTTTTTT
1 TTTTTTTTGTTTTTT
36628202 ATTATTATTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.00, C:0.00, G:0.10, T:0.90
Consensus pattern (16 bp):
TTTTTTTTGTTTTTTG
Found at i:36638937 original size:30 final size:30
Alignment explanation
Indices: 36638903--36639186 Score: 229
Period size: 30 Copynumber: 9.4 Consensus size: 30
36638893 GACAAGGTCA
*
36638903 AAAATGAAAATTTGGGAAAGTTTTAGGGTT
1 AAAATGAAATTTTGGGAAAGTTTTAGGGTT
*
36638933 AAAAT-ATAATTTTGGAAAAGTTTTAGGGTT
1 AAAATGA-AATTTTGGGAAAGTTTTAGGGTT
* **
36638963 AAAATGTAATTTTTAGAAAGTTTT-GAGGTT
1 AAAATGAAATTTTGGGAAAGTTTTAG-GGTT
* *
36638993 AAAAT-ATAATTTTGGAAAAGTTTTGGGGTT
1 AAAATGA-AATTTTGGGAAAGTTTTAGGGTT
* **
36639023 AAAATGTAATTTTTAGAAAGTTTT-GAGGTT
1 AAAATGAAATTTTGGGAAAGTTTTAG-GGTT
* * *
36639053 AAAAT-ATAATTTTGGAAAAGTTTTGGGGTC
1 AAAATGA-AATTTTGGGAAAGTTTTAGGGTT
* ** ** *
36639083 AAAATGTAATTTTTAGAAAGTTTCGGGGTC
1 AAAATGAAATTTTGGGAAAGTTTTAGGGTT
* *
36639113 AAAAT-ATAATTTTGGAAAAGTTTTTGGGTT
1 AAAATGA-AATTTTGGGAAAGTTTTAGGGTT
* ** *
36639143 AAAATGCAATTTTTAGAAAGTTTTAGGGTCA
1 AAAATGAAATTTTGGGAAAGTTTTAGGGT-T
*
36639174 AAAATGTAATTTT
1 AAAATGAAATTTT
36639187 TGAACAACTT
Statistics
Matches: 203, Mismatches: 38, Indels: 25
0.76 0.14 0.09
Matches are distributed among these distances:
29 3 0.01
30 186 0.92
31 14 0.07
ACGTcount: A:0.38, C:0.02, G:0.21, T:0.39
Consensus pattern (30 bp):
AAAATGAAATTTTGGGAAAGTTTTAGGGTT
Found at i:36638993 original size:60 final size:60
Alignment explanation
Indices: 36638918--36639166 Score: 419
Period size: 60 Copynumber: 4.2 Consensus size: 60
36638908 GAAAATTTGG
*
36638918 GAAAGTTTT-AGGGTTAAAATATAATTTTGGAAAAGTTTTAGGGTTAAAATGTAATTTTTA
1 GAAAGTTTTGA-GGTTAAAATATAATTTTGGAAAAGTTTTGGGGTTAAAATGTAATTTTTA
36638978 GAAAGTTTTGAGGTTAAAATATAATTTTGGAAAAGTTTTGGGGTTAAAATGTAATTTTTA
1 GAAAGTTTTGAGGTTAAAATATAATTTTGGAAAAGTTTTGGGGTTAAAATGTAATTTTTA
*
36639038 GAAAGTTTTGAGGTTAAAATATAATTTTGGAAAAGTTTTGGGGTCAAAATGTAATTTTTA
1 GAAAGTTTTGAGGTTAAAATATAATTTTGGAAAAGTTTTGGGGTTAAAATGTAATTTTTA
* * * * *
36639098 GAAAGTTTCGGGGTCAAAATATAATTTTGGAAAAGTTTTTGGGTTAAAATGCAATTTTTA
1 GAAAGTTTTGAGGTTAAAATATAATTTTGGAAAAGTTTTGGGGTTAAAATGTAATTTTTA
36639158 GAAAGTTTT
1 GAAAGTTTT
36639167 AGGGTCAAAA
Statistics
Matches: 179, Mismatches: 9, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
60 178 0.99
61 1 0.01
ACGTcount: A:0.37, C:0.02, G:0.21, T:0.41
Consensus pattern (60 bp):
GAAAGTTTTGAGGTTAAAATATAATTTTGGAAAAGTTTTGGGGTTAAAATGTAATTTTTA
Found at i:36640356 original size:19 final size:18
Alignment explanation
Indices: 36640295--36640356 Score: 56
Period size: 19 Copynumber: 3.4 Consensus size: 18
36640285 TATTTTTTTG
36640295 ATATTATT--AATTATTA
1 ATATTATTACAATTATTA
* * *
36640311 ATATTAATTATAATCATAA
1 ATATT-ATTACAATTATTA
36640330 ATATTTATTACAATTATTA
1 ATA-TTATTACAATTATTA
36640349 ATTATTAT
1 A-TATTAT
36640357 GATTATTAAT
Statistics
Matches: 36, Mismatches: 5, Indels: 7
0.75 0.10 0.15
Matches are distributed among these distances:
16 5 0.14
17 3 0.08
19 24 0.67
20 4 0.11
ACGTcount: A:0.45, C:0.03, G:0.00, T:0.52
Consensus pattern (18 bp):
ATATTATTACAATTATTA
Found at i:36640860 original size:20 final size:20
Alignment explanation
Indices: 36640822--36640860 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
36640812 CAGGGCATGG
*
36640822 TGGAGCTTGGTGGTGGCAGA
1 TGGAGCTTGGTGGTAGCAGA
36640842 TGGAGC-TGGTGGTCAGCAG
1 TGGAGCTTGGTGGT-AGCAG
36640861 CAGCATAAGC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 7 0.41
20 10 0.59
ACGTcount: A:0.15, C:0.13, G:0.49, T:0.23
Consensus pattern (20 bp):
TGGAGCTTGGTGGTAGCAGA
Found at i:36641067 original size:6 final size:6
Alignment explanation
Indices: 36641056--36641139 Score: 61
Period size: 6 Copynumber: 14.3 Consensus size: 6
36641046 AATTTAATTG
* * *
36641056 AATTTA AATTTA AA-ATA AATTTA AATAAATG AATTTA AATTTA AGA--TA
1 AATTTA AATTTA AATTTA AATTTA AAT--TTA AATTTA AATTTA A-ATTTA
* *
36641104 AATTTA AATTTA AAATTA AA-TTA AAATT- AATTTA AA
1 AATTTA AATTTA AATTTA AATTTA AATTTA AATTTA AA
36641140 CTTTTAAATA
Statistics
Matches: 62, Mismatches: 8, Indels: 16
0.72 0.09 0.19
Matches are distributed among these distances:
4 1 0.02
5 16 0.26
6 40 0.65
7 1 0.02
8 4 0.06
ACGTcount: A:0.57, C:0.00, G:0.02, T:0.40
Consensus pattern (6 bp):
AATTTA
Found at i:36641076 original size:17 final size:17
Alignment explanation
Indices: 36641056--36641131 Score: 95
Period size: 17 Copynumber: 4.6 Consensus size: 17
36641046 AATTTAATTG
36641056 AATTTAAATTTAAAATA
1 AATTTAAATTTAAAATA
*
36641073 AATTTAAA--T-AAATG
1 AATTTAAATTTAAAATA
*
36641087 AATTTAAATTTAAGATA
1 AATTTAAATTTAAAATA
36641104 AATTTAAATTTAAAATTA
1 AATTTAAATTTAAAA-TA
*
36641122 AATTAAAATT
1 AATTTAAATT
36641132 AATTTAAACT
Statistics
Matches: 50, Mismatches: 5, Indels: 7
0.81 0.08 0.11
Matches are distributed among these distances:
14 12 0.24
15 1 0.02
16 1 0.02
17 25 0.50
18 11 0.22
ACGTcount: A:0.57, C:0.00, G:0.03, T:0.41
Consensus pattern (17 bp):
AATTTAAATTTAAAATA
Found at i:36641091 original size:31 final size:31
Alignment explanation
Indices: 36641054--36641112 Score: 109
Period size: 31 Copynumber: 1.9 Consensus size: 31
36641044 TTAATTTAAT
36641054 TGAATTTAAATTTAAAATAAATTTAAATAAA
1 TGAATTTAAATTTAAAATAAATTTAAATAAA
*
36641085 TGAATTTAAATTTAAGATAAATTTAAAT
1 TGAATTTAAATTTAAAATAAATTTAAAT
36641113 TTAAAATTAA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
31 27 1.00
ACGTcount: A:0.54, C:0.00, G:0.05, T:0.41
Consensus pattern (31 bp):
TGAATTTAAATTTAAAATAAATTTAAATAAA
Found at i:36641127 original size:11 final size:11
Alignment explanation
Indices: 36641059--36641153 Score: 70
Period size: 11 Copynumber: 8.5 Consensus size: 11
36641049 TTAATTGAAT
36641059 TTAAATTTAAA
1 TTAAATTTAAA
*
36641070 ATAAATTTAAA
1 TTAAATTTAAA
* *
36641081 -TAAA-TGAAT
1 TTAAATTTAAA
36641090 TTAAATTTAAGA
1 TTAAATTTAA-A
36641102 -TAAATTTAAA
1 TTAAATTTAAA
*
36641112 TTTAAAATTAAA
1 -TTAAATTTAAA
* *
36641124 TTAAAATTAAT
1 TTAAATTTAAA
36641135 TTAAACTTTTAAA
1 TTAAA--TTTAAA
*
36641148 TAAAAT
1 TTAAAT
36641154 CAAAAGTCTA
Statistics
Matches: 67, Mismatches: 10, Indels: 14
0.74 0.11 0.15
Matches are distributed among these distances:
9 3 0.04
10 9 0.13
11 38 0.57
12 9 0.13
13 8 0.12
ACGTcount: A:0.56, C:0.01, G:0.02, T:0.41
Consensus pattern (11 bp):
TTAAATTTAAA
Found at i:36641148 original size:29 final size:28
Alignment explanation
Indices: 36641059--36641158 Score: 85
Period size: 31 Copynumber: 3.4 Consensus size: 28
36641049 TTAATTGAAT
*
36641059 TTAAATTTAAAATAAATTTAAA-TAAATGAA
1 TTAAA-TTAAAATAAATTTAAATTTAA--AA
*
36641089 TTTAAATTTAAGATAAATTTAAATTTAAAA
1 -TTAAA-TTAAAATAAATTTAAATTTAAAA
* *
36641119 TTAAATTAAAATTAATTTAAACTTTTAAA
1 TTAAATTAAAATAAATTTAAA-TTTAAAA
* *
36641148 TAAAATCAAAA
1 TTAAATTAAAA
36641159 GTCTAGGCCC
Statistics
Matches: 60, Mismatches: 7, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
28 14 0.23
29 20 0.33
30 2 0.03
31 21 0.35
32 3 0.05
ACGTcount: A:0.57, C:0.02, G:0.02, T:0.39
Consensus pattern (28 bp):
TTAAATTAAAATAAATTTAAATTTAAAA
Found at i:36641151 original size:23 final size:21
Alignment explanation
Indices: 36641071--36641153 Score: 87
Period size: 23 Copynumber: 3.8 Consensus size: 21
36641061 AAATTTAAAA
*
36641071 TAAATTTAAAT-AAATGAATT
1 TAAATTTAAATAAAATTAATT
*
36641091 TAAATTTAAGATAAATTTAAATT
1 TAAATTTAA-ATAAAATT-AATT
*
36641114 TAAAATTAAATTAAAATTAATT
1 TAAATTTAAA-TAAAATTAATT
36641136 TAAACTTTTAAATAAAAT
1 TAAA--TTTAAATAAAAT
36641154 CAAAAGTCTA
Statistics
Matches: 52, Mismatches: 5, Indels: 9
0.79 0.08 0.14
Matches are distributed among these distances:
20 9 0.17
21 2 0.04
22 12 0.23
23 24 0.46
24 5 0.10
ACGTcount: A:0.55, C:0.01, G:0.02, T:0.41
Consensus pattern (21 bp):
TAAATTTAAATAAAATTAATT
Found at i:36647338 original size:17 final size:17
Alignment explanation
Indices: 36647306--36647358 Score: 58
Period size: 17 Copynumber: 3.2 Consensus size: 17
36647296 TTTTTTAAAA
36647306 TTTATTTTAAGA-TTAAG
1 TTTATTTTAA-ATTTAAG
36647323 TTTATTTTAAATTTAA-
1 TTTATTTTAAATTTAAG
* *
36647339 ATT-TGTTAAATTTAAG
1 TTTATTTTAAATTTAAG
36647355 TTTA
1 TTTA
36647359 AATTTATTTT
Statistics
Matches: 30, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
15 11 0.37
16 5 0.17
17 14 0.47
ACGTcount: A:0.36, C:0.00, G:0.08, T:0.57
Consensus pattern (17 bp):
TTTATTTTAAATTTAAG
Found at i:36649232 original size:30 final size:29
Alignment explanation
Indices: 36649196--36649446 Score: 183
Period size: 30 Copynumber: 8.6 Consensus size: 29
36649186 CCGAACTTCA
* *
36649196 CAAAAATTATATTTTTACCCCCATATTTTC
1 CAAAAATTACATTTTTACCCCCA-ACTTTC
* **
36649226 CAAAAATCACATTTTTACCCTTGAAC-TTC
1 CAAAAATTACATTTTTACCC-CCAACTTTC
* * **
36649255 CAAAAATTCCATTTTTAATCCTAAACTTTC
1 CAAAAATTACATTTTT-ACCCCCAACTTTC
36649285 CAAAAATTACCA-TTTTACCCCCGAA-TTTC
1 CAAAAATTA-CATTTTTACCCCC-AACTTTC
* *
36649314 CAAAAATT-CTAGTTTTAACCCCAAACTTTC
1 CAAAAATTAC-A-TTTTTACCCCCAACTTTC
* *
36649344 TAAAAATTATCA-TTTTACCCTCAAAC-TTC
1 CAAAAATTA-CATTTTTACCC-CCAACTTTC
* * *
36649373 CAAAAAATGCATTTTTGACCCCAAACTTTC
1 CAAAAATTACATTTTT-ACCCCCAACTTTC
* * * *
36649403 CAAAAATTGCATTTTTACCTCGAA-TGTC
1 CAAAAATTACATTTTTACCCCCAACTTTC
36649431 CAAAAATTACATTTTT
1 CAAAAATTACATTTTT
36649447 TTCCTCGAGT
Statistics
Matches: 181, Mismatches: 25, Indels: 32
0.76 0.11 0.13
Matches are distributed among these distances:
27 1 0.01
28 21 0.12
29 69 0.38
30 85 0.47
31 4 0.02
32 1 0.01
ACGTcount: A:0.36, C:0.25, G:0.03, T:0.36
Consensus pattern (29 bp):
CAAAAATTACATTTTTACCCCCAACTTTC
Found at i:36649261 original size:59 final size:59
Alignment explanation
Indices: 36649187--36649446 Score: 269
Period size: 59 Copynumber: 4.4 Consensus size: 59
36649177 ATATTGACTC
* * * * *
36649187 CGAACTTCACAAAAATTATATTTTTACCCCCATATTTTCCAAAAATCA-CATTTTTACCCT
1 CGAACTTC-CAAAAATTACATTTTTAACCCCAAACTTTCCAAAAATTACCA-TTTTACCCT
* * * * *
36649247 TGAACTTCCAAAAATTCCATTTTTAATCCTAAACTTTCCAAAAATTACCATTTTACCCC
1 CGAACTTCCAAAAATTACATTTTTAACCCCAAACTTTCCAAAAATTACCATTTTACCCT
* * * *
36649306 CGAATTTCCAAAAATT-CTAGTTTTAACCCCAAACTTTCTAAAAATTATCATTTTACCCT
1 CGAACTTCCAAAAATTAC-ATTTTTAACCCCAAACTTTCCAAAAATTACCATTTTACCCT
* * * * *
36649365 CAAACTTCCAAAAAATGCATTTTTGACCCCAAACTTTCCAAAAATT-GCATTTTTA-CCT
1 CGAACTTCCAAAAATTACATTTTTAACCCCAAACTTTCCAAAAATTACCA-TTTTACCCT
36649423 CGAA-TGTCCAAAAATTACATTTTT
1 CGAACT-TCCAAAAATTACATTTTT
36649447 TTCCTCGAGT
Statistics
Matches: 167, Mismatches: 28, Indels: 12
0.81 0.14 0.06
Matches are distributed among these distances:
57 1 0.01
58 25 0.15
59 131 0.78
60 10 0.06
ACGTcount: A:0.36, C:0.25, G:0.03, T:0.36
Consensus pattern (59 bp):
CGAACTTCCAAAAATTACATTTTTAACCCCAAACTTTCCAAAAATTACCATTTTACCCT
Found at i:36649447 original size:29 final size:28
Alignment explanation
Indices: 36649196--36649469 Score: 119
Period size: 29 Copynumber: 9.4 Consensus size: 28
36649186 CCGAACTTCA
* * * *
36649196 CAAAAATTATATTTTTACCCCCATATTTTC
1 CAAAAATTACATTTTTACCTCGA-A-TGTC
* *
36649226 CAAAAATCACATTTTTACCCTTGAACT-TC
1 CAAAAATTACATTTTTA-CCTCGAA-TGTC
* * *
36649255 CAAAAATTCCATTTTTAATCCT-AAACTTTC
1 CAAAAATTACATTTTT-A-CCTCGAA-TGTC
* *
36649285 CAAAAATTACCA-TTTTACCCCCGAATTTC
1 CAAAAATTA-CATTTTTA-CCTCGAATGTC
* * * *
36649314 CAAAAATT-CTAGTTTTAACCCCAAACTTTC
1 CAAAAATTAC-A-TTTTTACCTCGAA-TGTC
* *
36649344 TAAAAATTATCA-TTTTACCCTCAAACT-TC
1 CAAAAATTA-CATTTTTA-CCTCGAA-TGTC
* * * * *
36649373 CAAAAAATGCATTTTTGACCCCAAACTTTC
1 CAAAAATTACATTTTT-ACCTCGAA-TGTC
*
36649403 CAAAAATTGCATTTTTACCTCGAATGTC
1 CAAAAATTACATTTTTACCTCGAATGTC
* *
36649431 CAAAAATTACATTTTTTTCCTCGAGTGTC
1 CAAAAATTACA-TTTTTACCTCGAATGTC
36649460 CAAAAATTAC
1 CAAAAATTAC
36649470 CGTTTTGCCC
Statistics
Matches: 198, Mismatches: 30, Indels: 33
0.76 0.11 0.13
Matches are distributed among these distances:
27 1 0.01
28 16 0.08
29 96 0.48
30 78 0.39
31 6 0.03
32 1 0.01
ACGTcount: A:0.35, C:0.25, G:0.04, T:0.36
Consensus pattern (28 bp):
CAAAAATTACATTTTTACCTCGAATGTC
Found at i:36649475 original size:29 final size:29
Alignment explanation
Indices: 36649224--36649503 Score: 109
Period size: 29 Copynumber: 9.6 Consensus size: 29
36649214 CCCCATATTT
* *
36649224 TCCAAAAATCA-CATTTTTACCCTTGAACT-
1 TCCAAAAATTACCATTTTTA-CCTCGAA-TG
* *
36649253 TCCAAAAATT-CCATTTTTAATCCT-AAACTT
1 TCCAAAAATTACCATTTTT-A-CCTCGAA-TG
* *
36649283 TCCAAAAATTACCA-TTTTACCCCCGAATT
1 TCCAAAAATTACCATTTTTA-CCTCGAATG
* * * * *
36649312 TCCAAAAATT-CTAGTTTTAACCCCAAACTT
1 TCCAAAAATTACCA-TTTTTACCTCGAA-TG
* * *
36649342 TCTAAAAATTATCA-TTTTACCCTCAAACT-
1 TCCAAAAATTACCATTTTTA-CCTCGAA-TG
* * * * *
36649371 TCCAAAAAAT-GCATTTTTGACCCCAAACTT
1 TCCAAAAATTACCATTTTT-ACCTCGAA-TG
*
36649401 TCCAAAAATT-GCATTTTTACCTCGAATG
1 TCCAAAAATTACCATTTTTACCTCGAATG
* *
36649429 TCCAAAAATTA-CATTTTTTTCCTCGAGTG
1 TCCAAAAATTACCA-TTTTTACCTCGAATG
* ** *
36649458 TCCAAAAATTACCGTTTTGCCCT-GAAGTA
1 TCCAAAAATTACCATTTTTACCTCGAA-TG
36649487 TCC-AAAATTACCATTTT
1 TCCAAAAATTACCATTTT
36649504 ACCCTCGGGC
Statistics
Matches: 204, Mismatches: 30, Indels: 35
0.76 0.11 0.13
Matches are distributed among these distances:
28 32 0.16
29 106 0.52
30 62 0.30
31 4 0.02
ACGTcount: A:0.34, C:0.25, G:0.05, T:0.35
Consensus pattern (29 bp):
TCCAAAAATTACCATTTTTACCTCGAATG
Found at i:36663021 original size:40 final size:40
Alignment explanation
Indices: 36662945--36663026 Score: 110
Period size: 40 Copynumber: 2.0 Consensus size: 40
36662935 CAAATTTGAG
** * *
36662945 TTATAAATTATTATATTATATGCATAAATACGTATTAGTA
1 TTATAAATTATTATATTATACACATAAATACATATTAATA
* *
36662985 TTATAAATTATTATATTATACATATAAATATATATTAATA
1 TTATAAATTATTATATTATACACATAAATACATATTAATA
36663025 TT
1 TT
36663027 TGGGATTGTA
Statistics
Matches: 36, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
40 36 1.00
ACGTcount: A:0.45, C:0.04, G:0.04, T:0.48
Consensus pattern (40 bp):
TTATAAATTATTATATTATACACATAAATACATATTAATA
Found at i:36663491 original size:29 final size:29
Alignment explanation
Indices: 36663456--36663514 Score: 93
Period size: 29 Copynumber: 2.0 Consensus size: 29
36663446 AATATAGAAC
36663456 CTTAAATCTTAAA-CTTGAAACCCCAAACT
1 CTTAAATCTTAAACCTT-AAACCCCAAACT
*
36663485 CTTAAATCTTAAACCTTAAACCCTAAACT
1 CTTAAATCTTAAACCTTAAACCCCAAACT
36663514 C
1 C
36663515 ATACCGTATG
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
29 25 0.89
30 3 0.11
ACGTcount: A:0.41, C:0.29, G:0.02, T:0.29
Consensus pattern (29 bp):
CTTAAATCTTAAACCTTAAACCCCAAACT
Found at i:36663505 original size:7 final size:7
Alignment explanation
Indices: 36663453--36663512 Score: 50
Period size: 7 Copynumber: 8.4 Consensus size: 7
36663443 CAAAATATAG
36663453 AACCTTA
1 AACCTTA
*
36663460 AATCTTA
1 AACCTTA
36663467 AA-CTTGA
1 AACCTT-A
**
36663474 AACCCCA
1 AACCTTA
36663481 AACTCTTA
1 AAC-CTTA
*
36663489 AATCTTA
1 AACCTTA
36663496 AACCTTA
1 AACCTTA
*
36663503 AACCCTA
1 AACCTTA
36663510 AAC
1 AAC
36663513 TCATACCGTA
Statistics
Matches: 42, Mismatches: 8, Indels: 6
0.75 0.14 0.11
Matches are distributed among these distances:
6 3 0.07
7 34 0.81
8 5 0.12
ACGTcount: A:0.43, C:0.28, G:0.02, T:0.27
Consensus pattern (7 bp):
AACCTTA
Found at i:36663505 original size:22 final size:22
Alignment explanation
Indices: 36663453--36663513 Score: 65
Period size: 22 Copynumber: 2.9 Consensus size: 22
36663443 CAAAATATAG
36663453 AACCTTAAA-TCTTAAACTTGA
1 AACCTTAAACTCTTAAACTTGA
**
36663474 AACCCCAAACTCTTAAATCTT-A
1 AACCTTAAACTCTTAAA-CTTGA
*
36663496 AACCTTAAAC-CCTAAACT
1 AACCTTAAACTCTTAAACT
36663514 CATACCGTAT
Statistics
Matches: 33, Mismatches: 5, Indels: 5
0.77 0.12 0.12
Matches are distributed among these distances:
20 2 0.06
21 12 0.36
22 16 0.48
23 3 0.09
ACGTcount: A:0.43, C:0.28, G:0.02, T:0.28
Consensus pattern (22 bp):
AACCTTAAACTCTTAAACTTGA
Found at i:36663627 original size:26 final size:27
Alignment explanation
Indices: 36663578--36663628 Score: 77
Period size: 26 Copynumber: 1.9 Consensus size: 27
36663568 TATAAACCCT
*
36663578 AAACCTAAACCTTGAACCCCAAATCCA
1 AAACCTAAACCTCGAACCCCAAATCCA
*
36663605 AAACCTAAA-CTCGAACCCTAAATC
1 AAACCTAAACCTCGAACCCCAAATC
36663629 TTAAATCTTG
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
26 13 0.59
27 9 0.41
ACGTcount: A:0.45, C:0.35, G:0.04, T:0.16
Consensus pattern (27 bp):
AAACCTAAACCTCGAACCCCAAATCCA
Found at i:36663750 original size:17 final size:18
Alignment explanation
Indices: 36663728--36663761 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
36663718 TTGTTTATAA
36663728 TTTAAA-AAATTAATTAT
1 TTTAAATAAATTAATTAT
*
36663745 TTTAAATAATTTAATTA
1 TTTAAATAAATTAATTA
36663762 AAATTAAATT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (18 bp):
TTTAAATAAATTAATTAT
Found at i:36667322 original size:11 final size:11
Alignment explanation
Indices: 36667296--36667326 Score: 55
Period size: 10 Copynumber: 2.9 Consensus size: 11
36667286 TCAGTCTCTA
36667296 ATAATTTTTCT
1 ATAATTTTTCT
36667307 A-AATTTTTCT
1 ATAATTTTTCT
36667317 ATAATTTTTC
1 ATAATTTTTC
36667327 AAGTCAGAAC
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
10 10 0.53
11 9 0.47
ACGTcount: A:0.29, C:0.10, G:0.00, T:0.61
Consensus pattern (11 bp):
ATAATTTTTCT
Found at i:36667852 original size:84 final size:84
Alignment explanation
Indices: 36667711--36667878 Score: 309
Period size: 84 Copynumber: 2.0 Consensus size: 84
36667701 GTACTTACCC
* *
36667711 CACTTGTAGATAATTTCTTCTCACACCTTAGCTTTCTCCTTTCCTTTTTCTTCAATTTGGTCCTT
1 CACTTGTAGATAATTTCTTCTCACACCTTAGCTCTCTCCTTTCCTTTTTCTTCAATTTGGTCATT
36667776 CTCCTTCTTCCCTCTTTCT
66 CTCCTTCTTCCCTCTTTCT
*
36667795 CACTTGTAGATAATTTCTTCTCACACCTTGGCTCTCTCCTTTCCTTTTTCTTCAATTTGGTCATT
1 CACTTGTAGATAATTTCTTCTCACACCTTAGCTCTCTCCTTTCCTTTTTCTTCAATTTGGTCATT
36667860 CTCCTTCTTCCCTCTTTCT
66 CTCCTTCTTCCCTCTTTCT
36667879 TTGTTCTTGA
Statistics
Matches: 81, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
84 81 1.00
ACGTcount: A:0.12, C:0.32, G:0.07, T:0.49
Consensus pattern (84 bp):
CACTTGTAGATAATTTCTTCTCACACCTTAGCTCTCTCCTTTCCTTTTTCTTCAATTTGGTCATT
CTCCTTCTTCCCTCTTTCT
Found at i:36668981 original size:39 final size:39
Alignment explanation
Indices: 36668933--36669128 Score: 194
Period size: 39 Copynumber: 5.0 Consensus size: 39
36668923 GTTGTATAGT
* * *
36668933 ACTGACAGTGACACTGTAAACACTACAATGTTATACTCA
1 ACTGGCAGTGACACTGTAAACACTACAATGCTATACTGA
* * * * *
36668972 ATTGGCAGTGACACTATAAACACTGCGATACTATACTGA
1 ACTGGCAGTGACACTGTAAACACTACAATGCTATACTGA
* * * * *
36669011 ATTGGCTGTGACATTGTAAACACTACCATGCTTTACTGA
1 ACTGGCAGTGACACTGTAAACACTACAATGCTATACTGA
** * * **
36669050 ACCAGCAGTGACACTATAAACACTGCAAAACTATAACTGA
1 ACTGGCAGTGACACTGTAAACACTACAATGCTAT-ACTGA
* *
36669090 ACTGGAAGTGACACTGTAAACACTACAATGCTACACTGA
1 ACTGGCAGTGACACTGTAAACACTACAATGCTATACTGA
36669129 GCTAATAGTG
Statistics
Matches: 122, Mismatches: 34, Indels: 2
0.77 0.22 0.01
Matches are distributed among these distances:
39 91 0.75
40 31 0.25
ACGTcount: A:0.37, C:0.22, G:0.16, T:0.24
Consensus pattern (39 bp):
ACTGGCAGTGACACTGTAAACACTACAATGCTATACTGA
Found at i:36669031 original size:78 final size:79
Alignment explanation
Indices: 36668939--36669121 Score: 244
Period size: 78 Copynumber: 2.3 Consensus size: 79
36668929 TAGTACTGAC
*** * *
36668939 AGTGACACTGTAAACACTACAATG-TTATACTCAATTGGCAGTGACACTATAAACACTGCGATAC
1 AGTGACACTGTAAACACTACAATGCTT-TACTCAACCAGCAGTGACACTATAAACACTGCAAAAC
* *
36669003 TAT-ACTGAATTGGC
65 TATAACTGAACTGGA
* * * *
36669017 TGTGACATTGTAAACACTACCATGCTTTACTGAACCAGCAGTGACACTATAAACACTGCAAAACT
1 AGTGACACTGTAAACACTACAATGCTTTACTCAACCAGCAGTGACACTATAAACACTGCAAAACT
36669082 ATAACTGAACTGGA
66 ATAACTGAACTGGA
36669096 AGTGACACTGTAAACACTACAATGCT
1 AGTGACACTGTAAACACTACAATGCT
36669122 ACACTGAGCT
Statistics
Matches: 89, Mismatches: 14, Indels: 3
0.84 0.13 0.03
Matches are distributed among these distances:
78 55 0.62
79 34 0.38
ACGTcount: A:0.37, C:0.22, G:0.16, T:0.25
Consensus pattern (79 bp):
AGTGACACTGTAAACACTACAATGCTTTACTCAACCAGCAGTGACACTATAAACACTGCAAAACT
ATAACTGAACTGGA
Found at i:36669121 original size:79 final size:78
Alignment explanation
Indices: 36668939--36669154 Score: 254
Period size: 79 Copynumber: 2.8 Consensus size: 78
36668929 TAGTACTGAC
* * * * *
36668939 AGTGACACTGTAAACACTACAATG-TTATACTCAATTGGCAGTGACACTATAAACACTGCGATAC
1 AGTGACACTGTAAACACTACAATGCTT-TACTGAACTAGCAGTGACACTATAAACACTGCAAAAC
* *
36669003 TATACTGAATTGGC
65 TATACTGAACTGGA
* * * *
36669017 TGTGACATTGTAAACACTACCATGCTTTACTGAACCAGCAGTGACACTATAAACACTGCAAAACT
1 AGTGACACTGTAAACACTACAATGCTTTACTGAACTAGCAGTGACACTATAAACACTGCAAAACT
36669082 ATAACTGAACTGGA
66 AT-ACTGAACTGGA
** * ** *
36669096 AGTGACACTGTAAACACTACAATGCTACACTGAGCTAATAGTGACACTATTAACACTGC
1 AGTGACACTGTAAACACTACAATGCTTTACTGAACTAGCAGTGACACTATAAACACTGC
36669155 TAGGCTATCA
Statistics
Matches: 115, Mismatches: 21, Indels: 3
0.83 0.15 0.02
Matches are distributed among these distances:
78 55 0.48
79 60 0.52
ACGTcount: A:0.37, C:0.22, G:0.16, T:0.25
Consensus pattern (78 bp):
AGTGACACTGTAAACACTACAATGCTTTACTGAACTAGCAGTGACACTATAAACACTGCAAAACT
ATACTGAACTGGA
Done.