Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D11
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: 73211361
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 1690000 characters in sequence are not A, C, G, or T
File 28 of 240
Found at i:9800848 original size:25 final size:24
Alignment explanation
Indices: 9800820--9800867 Score: 69
Period size: 25 Copynumber: 2.0 Consensus size: 24
9800810 ATCAGGAAAA
9800820 TATAACGGGAAACTCACAAAGAGCC
1 TATAACGGGAAACTC-CAAAGAGCC
* *
9800845 TATAACGGGTAGCTCCAAAGAGC
1 TATAACGGGAAACTCCAAAGAGC
9800868 AATTAACAGG
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
24 8 0.38
25 13 0.62
ACGTcount: A:0.40, C:0.23, G:0.23, T:0.15
Consensus pattern (24 bp):
TATAACGGGAAACTCCAAAGAGCC
Found at i:9800874 original size:24 final size:24
Alignment explanation
Indices: 9800847--9800897 Score: 75
Period size: 24 Copynumber: 2.1 Consensus size: 24
9800837 AAAGAGCCTA
*
9800847 TAACGGGTAGCTCCAAAGAGCAAT
1 TAACAGGTAGCTCCAAAGAGCAAT
* *
9800871 TAACAGGTAGCTCCGAAGAGCACT
1 TAACAGGTAGCTCCAAAGAGCAAT
9800895 TAA
1 TAA
9800898 ACAGAAAGCT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.37, C:0.22, G:0.24, T:0.18
Consensus pattern (24 bp):
TAACAGGTAGCTCCAAAGAGCAAT
Found at i:9800907 original size:25 final size:24
Alignment explanation
Indices: 9800855--9800908 Score: 63
Period size: 24 Copynumber: 2.2 Consensus size: 24
9800845 TATAACGGGT
**
9800855 AGCTCCAAAGAGCAATTAACAGGT
1 AGCTCCAAAGAGCAATTAACAGAA
* *
9800879 AGCTCCGAAGAGCACTTAAACAGAA
1 AGCTCCAAAGAGCAATT-AACAGAA
9800904 AGCTC
1 AGCTC
9800909 TCACTCAAGC
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
24 15 0.60
25 10 0.40
ACGTcount: A:0.41, C:0.24, G:0.20, T:0.15
Consensus pattern (24 bp):
AGCTCCAAAGAGCAATTAACAGAA
Found at i:9801012 original size:150 final size:149
Alignment explanation
Indices: 9800738--9801047 Score: 523
Period size: 150 Copynumber: 2.1 Consensus size: 149
9800728 CTACTTTTAT
* *
9800738 GAGCACTTAAACAGAAAGCTCTCACTCAAGCATTATAACAGGAAGCTTATTGAGCCTTGTAACGG
1 GAGCACTTAAACAGAAAGCTCTCACTCAAGCACTATAACAGGAAGCTCATTGAGCCTTGTAACGG
*
9800803 GAAGCTTATCAGGAAAATATAACGGGAAACTCACAAAGAGCCTATAACGGGTAGCTCCAAAGAGC
66 GAAGCTTATCA-GAAAATATAACGGGAAACTCACAAAGAGCCTATAACGGGTAGATCCAAAGAGC
9800868 AATTAACAGGTAGCTCCGAA
130 AATTAACAGGTAGCTCCGAA
*
9800888 GAGCACTTAAACAGAAAGCTCTCACTCAAGCACTATAACGGGAAGCTCATTGAGCCTTGTAACGG
1 GAGCACTTAAACAGAAAGCTCTCACTCAAGCACTATAACAGGAAGCTCATTGAGCCTTGTAACGG
9800953 GAAGCTTATTC-GAACAATATAACGGGAAACTCACAAAGAGCCTATAACGGGTAGATCCAAAGAG
66 GAAGCTTA-TCAGAA-AATATAACGGGAAACTCACAAAGAGCCTATAACGGGTAGATCCAAAGAG
**
9801017 CAATTAATGGGTAGCTCCGAA
129 CAATTAACAGGTAGCTCCGAA
*
9801038 GAGCAATTAA
1 GAGCACTTAA
9801048 CGGGAAGCAC
Statistics
Matches: 151, Mismatches: 7, Indels: 4
0.93 0.04 0.02
Matches are distributed among these distances:
149 3 0.02
150 146 0.97
151 2 0.01
ACGTcount: A:0.38, C:0.21, G:0.22, T:0.19
Consensus pattern (149 bp):
GAGCACTTAAACAGAAAGCTCTCACTCAAGCACTATAACAGGAAGCTCATTGAGCCTTGTAACGG
GAAGCTTATCAGAAAATATAACGGGAAACTCACAAAGAGCCTATAACGGGTAGATCCAAAGAGCA
ATTAACAGGTAGCTCCGAA
Found at i:9801028 original size:24 final size:24
Alignment explanation
Indices: 9801001--9801047 Score: 76
Period size: 24 Copynumber: 2.0 Consensus size: 24
9800991 AGCCTATAAC
9801001 GGGTAGATCCAAAGAGCAATTAAT
1 GGGTAGATCCAAAGAGCAATTAAT
* *
9801025 GGGTAGCTCCGAAGAGCAATTAA
1 GGGTAGATCCAAAGAGCAATTAA
9801048 CGGGAAGCAC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.38, C:0.15, G:0.28, T:0.19
Consensus pattern (24 bp):
GGGTAGATCCAAAGAGCAATTAAT
Found at i:9804177 original size:14 final size:13
Alignment explanation
Indices: 9804158--9804189 Score: 55
Period size: 14 Copynumber: 2.4 Consensus size: 13
9804148 ATTTTCATAA
9804158 TTTTAAATTTTAAT
1 TTTTAAATTTT-AT
9804172 TTTTAAATTTTAT
1 TTTTAAATTTTAT
9804185 TTTTA
1 TTTTA
9804190 GGAATTTAGT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
13 7 0.39
14 11 0.61
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (13 bp):
TTTTAAATTTTAT
Found at i:9809370 original size:51 final size:53
Alignment explanation
Indices: 9809315--9809423 Score: 152
Period size: 52 Copynumber: 2.1 Consensus size: 53
9809305 AATTGAAAGA
*
9809315 AAGTAAAAGTT-TTGGGGAAAATAAAAAGAAAA-TAGTTTTTGGGGTTT-GGGG
1 AAGTAAAAGTTATGGGGGAAAAT-AAAAGAAAATTAGTTTTTGGGGTTTGGGGG
* **
9809366 AAGTAAAAGTTATGGGGGAAACTAAAAGAAAATTTTTTTTTGGGGTTTGGGGG
1 AAGTAAAAGTTATGGGGGAAAATAAAAGAAAATTAGTTTTTGGGGTTTGGGGG
9809419 AAGTA
1 AAGTA
9809424 CAATTTTTTA
Statistics
Matches: 51, Mismatches: 4, Indels: 4
0.86 0.07 0.07
Matches are distributed among these distances:
51 20 0.39
52 22 0.43
53 9 0.18
ACGTcount: A:0.38, C:0.01, G:0.31, T:0.30
Consensus pattern (53 bp):
AAGTAAAAGTTATGGGGGAAAATAAAAGAAAATTAGTTTTTGGGGTTTGGGGG
Found at i:9810693 original size:18 final size:19
Alignment explanation
Indices: 9810654--9810697 Score: 56
Period size: 18 Copynumber: 2.3 Consensus size: 19
9810644 GTAGATGTAA
9810654 TAAAATGTGCATAATAAAAT
1 TAAAATGT-CATAATAAAAT
9810674 TAAAATGT-ATAA-AAATAT
1 TAAAATGTCATAATAAA-AT
9810692 TAAAAT
1 TAAAAT
9810698 AAAGTTTTAG
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
17 3 0.13
18 12 0.52
20 8 0.35
ACGTcount: A:0.59, C:0.02, G:0.07, T:0.32
Consensus pattern (19 bp):
TAAAATGTCATAATAAAAT
Found at i:9811333 original size:42 final size:41
Alignment explanation
Indices: 9811287--9811398 Score: 134
Period size: 42 Copynumber: 2.7 Consensus size: 41
9811277 ATAAACGCCA
*
9811287 CTAAAGGTCATGTTCTTTAGCGGCGCTTAGAAAAAAAAGCAG
1 CTAAAGATCATGTTCTTTAGCGGCGCTTA-AAAAAAAAGCAG
* * * *
9811329 CTAAAGATCATGTTCTTTAGCGACGCTTTAAGAAAAACGCCG
1 CTAAAGATCATGTTCTTTAGCGGCGC-TTAAAAAAAAAGCAG
* * *
9811371 CGAAAGAACATGATCTTTAGCGGCGCTT
1 CTAAAGATCATGTTCTTTAGCGGCGCTT
9811399 TCTTCACAAA
Statistics
Matches: 60, Mismatches: 9, Indels: 3
0.83 0.12 0.04
Matches are distributed among these distances:
41 2 0.03
42 55 0.92
43 3 0.05
ACGTcount: A:0.33, C:0.20, G:0.22, T:0.25
Consensus pattern (41 bp):
CTAAAGATCATGTTCTTTAGCGGCGCTTAAAAAAAAAGCAG
Found at i:9811453 original size:43 final size:43
Alignment explanation
Indices: 9811331--9811455 Score: 121
Period size: 43 Copynumber: 2.9 Consensus size: 43
9811321 AAAAGCAGCT
* * * **
9811331 AAAGATCATGTTCTTTAGCGACGCTTT-AAGAAAAACGCCGCG
1 AAAGAACATGATCTTTAGCGGCGCTTTCTTGAAAAACGCCGCG
* * *
9811373 AAAGAACATGATCTTTAGCGGCGCTTTCTTCACAAACGCCGCT
1 AAAGAACATGATCTTTAGCGGCGCTTTCTTGAAAAACGCCGCG
* *
9811416 ATAGAATATGA-CTTTTAGCGGCGCTTT-TGTGAAAAACGCC
1 AAAGAACATGATC-TTTAGCGGCGCTTTCT-TGAAAAACGCC
9811456 ACTAATTTGG
Statistics
Matches: 68, Mismatches: 12, Indels: 5
0.80 0.14 0.06
Matches are distributed among these distances:
42 26 0.38
43 42 0.62
ACGTcount: A:0.30, C:0.22, G:0.21, T:0.26
Consensus pattern (43 bp):
AAAGAACATGATCTTTAGCGGCGCTTTCTTGAAAAACGCCGCG
Found at i:9811875 original size:65 final size:66
Alignment explanation
Indices: 9811762--9811895 Score: 198
Period size: 65 Copynumber: 2.0 Consensus size: 66
9811752 TTCTGCTCTG
* * * *
9811762 CTCTGCTTCTCTCGATGCCGCATCTGCTTTAAGTTGTAGCTGGAGTTCTTCATATTTCTTTTGAG
1 CTCTGCTTCTCTCGATGCAGCATCTGCTCTAAGTTGTAGCTGGAGTTCTTCATATTTCCTTTGAA
9811827 C
66 C
* * *
9811828 CTCTGCTTCTCTCGCTGCAGCCTCTGCTCTAA-TTGTAGTTGGAGTTCTTCATATTTCCTTTGAA
1 CTCTGCTTCTCTCGATGCAGCATCTGCTCTAAGTTGTAGCTGGAGTTCTTCATATTTCCTTTGAA
9811892 C
66 C
9811893 CTC
1 CTC
9811896 AACTGTGGTC
Statistics
Matches: 61, Mismatches: 7, Indels: 1
0.88 0.10 0.01
Matches are distributed among these distances:
65 33 0.54
66 28 0.46
ACGTcount: A:0.13, C:0.27, G:0.18, T:0.42
Consensus pattern (66 bp):
CTCTGCTTCTCTCGATGCAGCATCTGCTCTAAGTTGTAGCTGGAGTTCTTCATATTTCCTTTGAA
C
Found at i:9814274 original size:19 final size:20
Alignment explanation
Indices: 9814225--9814280 Score: 73
Period size: 19 Copynumber: 3.0 Consensus size: 20
9814215 GAATGGAAAG
9814225 TAAACAAATT-AATA-TAAA
1 TAAACAAATTAAATAGTAAA
* *
9814243 TAAAAAAACTAAATAGTAAA
1 TAAACAAATTAAATAGTAAA
9814263 T-AACAAATTAAATAGTAA
1 TAAACAAATTAAATAGTAA
9814281 CCTATTGAAT
Statistics
Matches: 32, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
18 8 0.25
19 19 0.59
20 5 0.16
ACGTcount: A:0.66, C:0.05, G:0.04, T:0.25
Consensus pattern (20 bp):
TAAACAAATTAAATAGTAAA
Found at i:9814631 original size:115 final size:113
Alignment explanation
Indices: 9814426--9814982 Score: 546
Period size: 114 Copynumber: 4.9 Consensus size: 113
9814416 AAAGGTTTTT
** * * ** * * * * * *
9814426 GCGGCGCTTTTTTAAAAACGCCGCTAAAGCCCTAAAAGTTTAGAAAATGACGCCGTTGAGCTTAG
1 GCGGCGCTTACTTAAAAACGCCACTAAATCCCCGAAAGCTCAGAAAACGGCGTCGTTGGGCTTA-
* * * *
9814491 GTTTTTTTTGCGGCGC-TTCAACAAAAACGCTGCTAAAGACCTAAGCATTA
65 G-TTTTTTTGCGGCGCTTTC-TCAAAAACGCCGCTAAAGCCCTGAGCATTA
* * * * * *
9814541 GCGGCGCATT-CTTAAAAATGCCGCTAAAGCCCACGAATTG-TCAGAAAACGGTGTCGTTGGACT
1 GCGGCGC-TTACTTAAAAACGCCACTAAATCCC-CGAA-AGCTCAGAAAACGGCGTCGTTGGGCT
* *
9814604 TAGTTTTTGTTGCGGCGGTTTCTCAAAAACGCCGCTAAAGCCCCGAGCATTA
63 TAGTTTTT-TTGCGGCGCTTTCTCAAAAACGCCGCTAAAGCCCTGAGCATTA
* * * *
9814656 GCGGCACTTACTTAAAAACGCCACTAAATCCCCGAAAGCTCAAAAAACGGCGTCATTGGGCTCTG
1 GCGGCGCTTACTTAAAAACGCCACTAAATCCCCGAAAGCTCAGAAAACGGCGTCGTTGGGCT-TA
* * **
9814721 GTTTTTTTGTGGCACTTTCTCAAAAACGATGCTAAAGCCCTGAGCATTA
65 GTTTTTTTGCGGCGCTTTCTCAAAAACGCCGCTAAAGCCCTGAGCATTA
* *
9814770 GCGGCGCTTACTTAATAACGCCACTAAATCCCCGAAAGCTCAGAAAACGGCGTCGTTGGGCTTTG
1 GCGGCGCTTACTTAAAAACGCCACTAAATCCCCGAAAGCTCAGAAAACGGCGTCGTTGGGC-TTA
* * * *
9814835 GTTTTTTTGTGGCGCTTTCTCGAAAACGCCACGAAAGCCCTGAGCATTA
65 GTTTTTTTGCGGCGCTTTCTCAAAAACGCCGCTAAAGCCCTGAGCATTA
* * * * * * *
9814884 GCGGCGCTTTCTTAAAATCG-CAGCTAAATCCCCTAAGGCTCGGGAAACGGTGTCGTTGGGCTTA
1 GCGGCGCTTACTTAAAAACGCCA-CTAAATCCCCGAAAGCTCAGAAAACGGCGTCGTTGGGCTTA
* * * **
9814948 GGTATTTTGCGGCGCTTTATGGAAAACGCCGCTAA
65 GTTTTTTTGCGGCGCTTTCTCAAAAACGCCGCTAA
9814983 TGCTTTTTTT
Statistics
Matches: 372, Mismatches: 60, Indels: 22
0.82 0.13 0.05
Matches are distributed among these distances:
113 33 0.09
114 219 0.59
115 94 0.25
116 25 0.07
117 1 0.00
ACGTcount: A:0.27, C:0.24, G:0.23, T:0.26
Consensus pattern (113 bp):
GCGGCGCTTACTTAAAAACGCCACTAAATCCCCGAAAGCTCAGAAAACGGCGTCGTTGGGCTTAG
TTTTTTTGCGGCGCTTTCTCAAAAACGCCGCTAAAGCCCTGAGCATTA
Found at i:9819259 original size:20 final size:19
Alignment explanation
Indices: 9819236--9819279 Score: 52
Period size: 20 Copynumber: 2.3 Consensus size: 19
9819226 AAAAATTCAA
*
9819236 AAAAAATCAAAATAATTTTT
1 AAAAAATCAAAAT-ATTTAT
* *
9819256 AAAAATTTAAAATATTTAT
1 AAAAAATCAAAATATTTAT
9819275 AAAAA
1 AAAAA
9819280 TTTCAAAATT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
19 10 0.48
20 11 0.52
ACGTcount: A:0.64, C:0.02, G:0.00, T:0.34
Consensus pattern (19 bp):
AAAAAATCAAAATATTTAT
Found at i:9819261 original size:19 final size:18
Alignment explanation
Indices: 9819237--9819280 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 18
9819227 AAAATTCAAA
*
9819237 AAAAATCAAAATAATTTTT
1 AAAAATCAAAAT-ATTTAT
*
9819256 AAAAATTTAAAATATTTAT
1 AAAAA-TCAAAATATTTAT
9819275 AAAAAT
1 AAAAAT
9819281 TTCAAAATTT
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
18 1 0.05
19 15 0.68
20 6 0.27
ACGTcount: A:0.61, C:0.02, G:0.00, T:0.36
Consensus pattern (18 bp):
AAAAATCAAAATATTTAT
Found at i:9819287 original size:20 final size:21
Alignment explanation
Indices: 9819242--9819288 Score: 71
Period size: 19 Copynumber: 2.3 Consensus size: 21
9819232 TCAAAAAAAA
*
9819242 TCAAAATAATTTTTAAAAATT
1 TCAAAATAATTTATAAAAATT
9819263 T-AAAAT-ATTTATAAAAATT
1 TCAAAATAATTTATAAAAATT
9819282 TCAAAAT
1 TCAAAAT
9819289 TTATATATAT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
19 13 0.54
20 10 0.42
21 1 0.04
ACGTcount: A:0.55, C:0.04, G:0.00, T:0.40
Consensus pattern (21 bp):
TCAAAATAATTTATAAAAATT
Found at i:9819443 original size:3 final size:3
Alignment explanation
Indices: 9819435--9819484 Score: 55
Period size: 3 Copynumber: 16.7 Consensus size: 3
9819425 CTAAAGTATC
* * * * *
9819435 TTA TTA TTA TAA TAA TAA TAA TAA 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
9819483 TT
1 TT
9819485 TACTTTGAAA
Statistics
Matches: 45, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
3 45 1.00
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (3 bp):
TTA
Found at i:9819606 original size:22 final size:22
Alignment explanation
Indices: 9819556--9819607 Score: 59
Period size: 22 Copynumber: 2.4 Consensus size: 22
9819546 GTTATACTAT
*
9819556 AACAATATTTTAATTTAACATG
1 AACAATTTTTTAATTTAACATG
*** *
9819578 TTTAATTTTTTAATTTAACTTG
1 AACAATTTTTTAATTTAACATG
9819600 AACAATTT
1 AACAATTT
9819608 CACTTGATTC
Statistics
Matches: 22, Mismatches: 8, Indels: 0
0.73 0.27 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.38, C:0.08, G:0.04, T:0.50
Consensus pattern (22 bp):
AACAATTTTTTAATTTAACATG
Found at i:9821096 original size:5 final size:5
Alignment explanation
Indices: 9821086--9821111 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
9821076 TTTTTGCTCG
9821086 GGCCC GGCCC GGCCC GGCCC GGCCC G
1 GGCCC GGCCC GGCCC GGCCC GGCCC G
9821112 AATATAATAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.00, C:0.58, G:0.42, T:0.00
Consensus pattern (5 bp):
GGCCC
Found at i:9821177 original size:37 final size:37
Alignment explanation
Indices: 9821127--9821248 Score: 115
Period size: 26 Copynumber: 3.5 Consensus size: 37
9821117 AATAAATATA
9821127 TATTTTTTATTTTAAAATATTTTTAAAATACTTTTTT
1 TATTTTTTATTTTAAAATATTTTTAAAATACTTTTTT
9821164 TA-----T-TTTT----TA-TTTTAAAATACTTTTTT
1 TATTTTTTATTTTAAAATATTTTTAAAATACTTTTTT
9821190 AT-TTTTTTATTTTAAAATATTTTTAAAATACTTATTTT
1 -TATTTTTTATTTTAAAATATTTTTAAAATACTT-TTTT
*
9821228 AATTTTTTTATTTTTAAAATA
1 TA-TTTTTTA-TTTTAAAATA
9821249 AATTTTTGGT
Statistics
Matches: 68, Mismatches: 1, Indels: 29
0.69 0.01 0.30
Matches are distributed among these distances:
26 17 0.25
27 3 0.04
31 5 0.07
32 5 0.07
36 2 0.03
37 15 0.22
38 4 0.06
39 7 0.10
40 10 0.15
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.65
Consensus pattern (37 bp):
TATTTTTTATTTTAAAATATTTTTAAAATACTTTTTT
Found at i:9821268 original size:63 final size:62
Alignment explanation
Indices: 9821132--9821270 Score: 163
Period size: 63 Copynumber: 2.2 Consensus size: 62
9821122 ATATATATTT
* ** ** *
9821132 TTTATTTTAAAATATTTTTAAAATACTTTTTTTATTTTTTATTTTAAAATACTTTTTTATTTT
1 TTTA-TTTAAAATATTTTTAAAATACTTTTTTAATTTTTTATTTTAAAATAAATTTTTAGGTG
9821195 TTTATTTTAAAATATTTTTAAAATACTTATTTTAATTTTTTTATTTTTAAAATAAATTTTT-GGT
1 TTTA-TTTAAAATATTTTTAAAATACTT-TTTTAA-TTTTTTA-TTTTAAAATAAATTTTTAGGT
9821259 G
62 G
*
9821260 TTTATTAAAAA
1 TTTATTTAAAA
9821271 AATTGGCCGG
Statistics
Matches: 66, Mismatches: 7, Indels: 5
0.85 0.09 0.06
Matches are distributed among these distances:
63 28 0.42
64 11 0.17
65 12 0.18
66 15 0.23
ACGTcount: A:0.34, C:0.02, G:0.02, T:0.62
Consensus pattern (62 bp):
TTTATTTAAAATATTTTTAAAATACTTTTTTAATTTTTTATTTTAAAATAAATTTTTAGGTG
Found at i:9827196 original size:37 final size:37
Alignment explanation
Indices: 9827139--9827242 Score: 111
Period size: 37 Copynumber: 2.8 Consensus size: 37
9827129 TATGACTTGT
* ** *
9827139 ATAAAAAACAAATATACTTTTTGACTCATACTTTTATG
1 ATAACAAACAAACCTACTTTTTGACTCATACTTTTA-C
* * *
9827177 AT-TCAAACAAACCTGCTTTTTGACTTATACTTTTAC
1 ATAACAAACAAACCTACTTTTTGACTCATACTTTTAC
*
9827213 ATAAGAAACAAACCTACTTTTATGACTCAT
1 ATAACAAACAAACCTACTTTT-TGACTCAT
9827243 TTAACAAACA
Statistics
Matches: 53, Mismatches: 11, Indels: 4
0.78 0.16 0.06
Matches are distributed among these distances:
36 2 0.04
37 42 0.79
38 9 0.17
ACGTcount: A:0.38, C:0.18, G:0.06, T:0.38
Consensus pattern (37 bp):
ATAACAAACAAACCTACTTTTTGACTCATACTTTTAC
Found at i:9837999 original size:49 final size:49
Alignment explanation
Indices: 9837942--9838045 Score: 172
Period size: 49 Copynumber: 2.1 Consensus size: 49
9837932 TCATGTGTTA
* * * *
9837942 TAATTTTATACAGTGTTGAGCTTTTGATTCATGATATTGAACTTAATTT
1 TAATTTTATAAAGTGTTCACCTTTTGATTCATGATATTAAACTTAATTT
9837991 TAATTTTATAAAGTGTTCACCTTTTGATTCATGATATTAAACTTAATTT
1 TAATTTTATAAAGTGTTCACCTTTTGATTCATGATATTAAACTTAATTT
9838040 TAATTT
1 TAATTT
9838046 GTTTTTTTTC
Statistics
Matches: 51, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
49 51 1.00
ACGTcount: A:0.31, C:0.09, G:0.11, T:0.50
Consensus pattern (49 bp):
TAATTTTATAAAGTGTTCACCTTTTGATTCATGATATTAAACTTAATTT
Found at i:9839537 original size:61 final size:61
Alignment explanation
Indices: 9839472--9839788 Score: 312
Period size: 61 Copynumber: 5.3 Consensus size: 61
9839462 ATTTTATAGT
*
9839472 ATTATATATTATGATTTTAGTAAATTCATATAAGAATATTTAATATTAAGAATTTTATTAA
1 ATTATATATTATAATTTTAGTAAATTCATATAAGAATATTTAATATTAAGAATTTTATTAA
* ** * * * * * *
9839533 ATTATATATTTTAATTAAAATATATTTA-ATAATAATTATTTTAA-ATT-A-TATTTTA-TAGT
1 ATTATATATTATAATTTTAGTAAATTCATATAAGAA-TA-TTTAATATTAAGAATTTTATTA-A
*
9839592 ATTATATATTATAATTTTAGTAAATTCATATAAGAATATTTATTATTAAGAATTTTATTAA
1 ATTATATATTATAATTTTAGTAAATTCATATAAGAATATTTAATATTAAGAATTTTATTAA
* ** * * * * * *
9839653 ATTATATATTTTAATTAAAATATATTTA-ATAATAATTATTTTAA-ATT-A-TATTTTA-TAGT
1 ATTATATATTATAATTTTAGTAAATTCATATAAGAA-TA-TTTAATATTAAGAATTTTATTA-A
*
9839712 ATTATATATTATGATTTTAGTAAATTCATATAAGAATATTTAATATTAAGAATTTTATTAA
1 ATTATATATTATAATTTTAGTAAATTCATATAAGAATATTTAATATTAAGAATTTTATTAA
*
9839773 ATTATATATTTTAATT
1 ATTATATATTATAATT
9839789 AAAATATATT
Statistics
Matches: 198, Mismatches: 42, Indels: 32
0.73 0.15 0.12
Matches are distributed among these distances:
58 13 0.07
59 65 0.33
60 28 0.14
61 79 0.40
62 13 0.07
ACGTcount: A:0.44, C:0.01, G:0.04, T:0.51
Consensus pattern (61 bp):
ATTATATATTATAATTTTAGTAAATTCATATAAGAATATTTAATATTAAGAATTTTATTAA
Found at i:9839549 original size:18 final size:17
Alignment explanation
Indices: 9839523--9839557 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
9839513 AATATTAAGA
*
9839523 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
9839540 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
9839558 TTAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:9839557 original size:16 final size:16
Alignment explanation
Indices: 9839523--9839576 Score: 53
Period size: 15 Copynumber: 3.4 Consensus size: 16
9839513 AATATTAAGA
9839523 ATTTT-ATTAAATTATAT
1 ATTTTAATTAAA--ATAT
9839540 ATTTTAATTAAAATAT
1 ATTTTAATTAAAATAT
9839556 A-TTTAA-TAATAAT-T
1 ATTTTAATTAA-AATAT
9839570 ATTTTAA
1 ATTTTAA
9839577 ATTATATTTT
Statistics
Matches: 34, Mismatches: 0, Indels: 8
0.81 0.00 0.19
Matches are distributed among these distances:
14 5 0.15
15 13 0.38
16 5 0.15
17 5 0.15
18 6 0.18
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (16 bp):
ATTTTAATTAAAATAT
Found at i:9839572 original size:120 final size:120
Alignment explanation
Indices: 9839431--9839818 Score: 737
Period size: 120 Copynumber: 3.3 Consensus size: 120
9839421 AAGTAGATTA
9839431 TAAAATATA-TT--TAATAATTATTTTAAATTATATTTTATAGTATTATATATTATGATTTTAGT
1 TAAAATATATTTAATAATAATTATTTTAAATTATATTTTATAGTATTATATATTATGATTTTAGT
9839493 AAATTCATATAAGAATATTTAATATTAAGAATTTTATTAAATTATATATTTTAAT
66 AAATTCATATAAGAATATTTAATATTAAGAATTTTATTAAATTATATATTTTAAT
*
9839548 TAAAATATATTTAATAATAATTATTTTAAATTATATTTTATAGTATTATATATTATAATTTTAGT
1 TAAAATATATTTAATAATAATTATTTTAAATTATATTTTATAGTATTATATATTATGATTTTAGT
*
9839613 AAATTCATATAAGAATATTTATTATTAAGAATTTTATTAAATTATATATTTTAAT
66 AAATTCATATAAGAATATTTAATATTAAGAATTTTATTAAATTATATATTTTAAT
9839668 TAAAATATATTTAATAATAATTATTTTAAATTATATTTTATAGTATTATATATTATGATTTTAGT
1 TAAAATATATTTAATAATAATTATTTTAAATTATATTTTATAGTATTATATATTATGATTTTAGT
9839733 AAATTCATATAAGAATATTTAATATTAAGAATTTTATTAAATTATATATTTTAAT
66 AAATTCATATAAGAATATTTAATATTAAGAATTTTATTAAATTATATATTTTAAT
9839788 TAAAATATATTTAATAATAATTATTTTAAAT
1 TAAAATATATTTAATAATAATTATTTTAAAT
9839819 ATGATTAAAT
Statistics
Matches: 264, Mismatches: 4, Indels: 3
0.97 0.01 0.01
Matches are distributed among these distances:
117 9 0.03
118 2 0.01
120 253 0.96
ACGTcount: A:0.45, C:0.01, G:0.04, T:0.51
Consensus pattern (120 bp):
TAAAATATATTTAATAATAATTATTTTAAATTATATTTTATAGTATTATATATTATGATTTTAGT
AAATTCATATAAGAATATTTAATATTAAGAATTTTATTAAATTATATATTTTAAT
Found at i:9839650 original size:15 final size:16
Alignment explanation
Indices: 9839622--9839651 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
9839612 TAAATTCATA
9839622 TAAGAATATTTATTAT
1 TAAGAATATTTATTAT
9839638 TAAGAAT-TTTATTA
1 TAAGAATATTTATTA
9839652 AATTATATAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 7 0.50
16 7 0.50
ACGTcount: A:0.43, C:0.00, G:0.07, T:0.50
Consensus pattern (16 bp):
TAAGAATATTTATTAT
Found at i:9839671 original size:18 final size:17
Alignment explanation
Indices: 9839643--9839677 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
9839633 ATTATTAAGA
*
9839643 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
9839660 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
9839678 TTAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:9839677 original size:16 final size:16
Alignment explanation
Indices: 9839643--9839696 Score: 53
Period size: 15 Copynumber: 3.4 Consensus size: 16
9839633 ATTATTAAGA
9839643 ATTTT-ATTAAATTATAT
1 ATTTTAATTAAA--ATAT
9839660 ATTTTAATTAAAATAT
1 ATTTTAATTAAAATAT
9839676 A-TTTAA-TAATAAT-T
1 ATTTTAATTAA-AATAT
9839690 ATTTTAA
1 ATTTTAA
9839697 ATTATATTTT
Statistics
Matches: 34, Mismatches: 0, Indels: 8
0.81 0.00 0.19
Matches are distributed among these distances:
14 5 0.15
15 13 0.38
16 5 0.15
17 5 0.15
18 6 0.18
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (16 bp):
ATTTTAATTAAAATAT
Found at i:9839789 original size:18 final size:17
Alignment explanation
Indices: 9839763--9839797 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
9839753 AATATTAAGA
*
9839763 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
9839780 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
9839798 TTAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:9839797 original size:16 final size:16
Alignment explanation
Indices: 9839763--9839816 Score: 53
Period size: 15 Copynumber: 3.4 Consensus size: 16
9839753 AATATTAAGA
9839763 ATTTT-ATTAAATTATAT
1 ATTTTAATTAAA--ATAT
9839780 ATTTTAATTAAAATAT
1 ATTTTAATTAAAATAT
9839796 A-TTTAA-TAATAAT-T
1 ATTTTAATTAA-AATAT
9839810 ATTTTAA
1 ATTTTAA
9839817 ATATGATTAA
Statistics
Matches: 34, Mismatches: 0, Indels: 8
0.81 0.00 0.19
Matches are distributed among these distances:
14 5 0.15
15 13 0.38
16 5 0.15
17 5 0.15
18 6 0.18
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (16 bp):
ATTTTAATTAAAATAT
Found at i:9862186 original size:26 final size:26
Alignment explanation
Indices: 9862157--9862213 Score: 87
Period size: 26 Copynumber: 2.2 Consensus size: 26
9862147 CGATATATGA
9862157 CTCTTTGTGAGCTTCCTAATTAAAGG
1 CTCTTTGTGAGCTTCCTAATTAAAGG
* * *
9862183 CTCTTTTTGAGCTTCCTGATTAATGG
1 CTCTTTGTGAGCTTCCTAATTAAAGG
9862209 CTCTT
1 CTCTT
9862214 CGGAGCTACC
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
26 28 1.00
ACGTcount: A:0.18, C:0.21, G:0.18, T:0.44
Consensus pattern (26 bp):
CTCTTTGTGAGCTTCCTAATTAAAGG
Found at i:9862265 original size:24 final size:24
Alignment explanation
Indices: 9862181--9862266 Score: 66
Period size: 24 Copynumber: 3.5 Consensus size: 24
9862171 CCTAATTAAA
* *
9862181 GGCTCTTTTTGAGCTTCCTGATTAAT
1 GGCTC-TTATGAGCTTCCCGATT-AT
** *
9862207 GGCTCTTCGGAGCTACCCG-TTATT
1 GGCTCTTATGAGCTTCCCGATTA-T
* **
9862231 GACTCGCATGAGCTTCCCGATTAT
1 GGCTCTTATGAGCTTCCCGATTAT
9862255 GGCTCTTATGAG
1 GGCTCTTATGAG
9862267 TTTCTTGTTA
Statistics
Matches: 45, Mismatches: 13, Indels: 6
0.70 0.20 0.09
Matches are distributed among these distances:
23 1 0.02
24 26 0.58
25 13 0.29
26 5 0.11
ACGTcount: A:0.16, C:0.24, G:0.23, T:0.36
Consensus pattern (24 bp):
GGCTCTTATGAGCTTCCCGATTAT
Found at i:9875474 original size:30 final size:32
Alignment explanation
Indices: 9875433--9875492 Score: 88
Period size: 30 Copynumber: 1.9 Consensus size: 32
9875423 TGTTTGATAG
* *
9875433 AAAAATATAAATTTAAAGATTAAAA-AATTAA
1 AAAAATATAAATATAAAAATTAAAATAATTAA
9875464 AAAAAT-TAAATATAAAAATTAAAATAATT
1 AAAAATATAAATATAAAAATTAAAATAATT
9875493 TTTTTTATAA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
30 16 0.62
31 10 0.38
ACGTcount: A:0.68, C:0.00, G:0.02, T:0.30
Consensus pattern (32 bp):
AAAAATATAAATATAAAAATTAAAATAATTAA
Found at i:9880577 original size:5 final size:5
Alignment explanation
Indices: 9880556--9880595 Score: 53
Period size: 5 Copynumber: 8.0 Consensus size: 5
9880546 TATCTTGCAA
* * *
9880556 TAGAT TAGAG TGGAG TAAAG TAGAG TAGAG TAGAG TAGAG
1 TAGAG TAGAG TAGAG TAGAG TAGAG TAGAG TAGAG TAGAG
9880596 ATAGCTAATT
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
5 30 1.00
ACGTcount: A:0.40, C:0.00, G:0.38, T:0.23
Consensus pattern (5 bp):
TAGAG
Found at i:9881469 original size:20 final size:19
Alignment explanation
Indices: 9881431--9881470 Score: 62
Period size: 19 Copynumber: 2.1 Consensus size: 19
9881421 CTAAAAATTC
*
9881431 AAAATAAAAAATAACTTGA
1 AAAATAAAAAATAAATTGA
9881450 AAAATAAAAAATCAAATTGA
1 AAAATAAAAAAT-AAATTGA
9881470 A
1 A
9881471 CAGAATCGAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 12 0.63
20 7 0.37
ACGTcount: A:0.70, C:0.05, G:0.05, T:0.20
Consensus pattern (19 bp):
AAAATAAAAAATAAATTGA
Found at i:9883522 original size:46 final size:46
Alignment explanation
Indices: 9883469--9883559 Score: 173
Period size: 46 Copynumber: 2.0 Consensus size: 46
9883459 TATATTTAAT
9883469 ATTTCTCATTTTCATTTCTATTTAGAGAATTCCTTATTCCTTATTC
1 ATTTCTCATTTTCATTTCTATTTAGAGAATTCCTTATTCCTTATTC
*
9883515 ATTTCTCATTTTCATTTCTATTTTGAGAATTCCTTATTCCTTATT
1 ATTTCTCATTTTCATTTCTATTTAGAGAATTCCTTATTCCTTATT
9883560 TAAAATTTTA
Statistics
Matches: 44, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
46 44 1.00
ACGTcount: A:0.21, C:0.19, G:0.04, T:0.56
Consensus pattern (46 bp):
ATTTCTCATTTTCATTTCTATTTAGAGAATTCCTTATTCCTTATTC
Found at i:9885212 original size:21 final size:21
Alignment explanation
Indices: 9885174--9885241 Score: 73
Period size: 21 Copynumber: 3.2 Consensus size: 21
9885164 AAATAAGTGC
*
9885174 TAAACGGAAACCCGTAAGGGT
1 TAAACGGAAACCCATAAGGGT
* * * *
9885195 TAAACGGAAGCTCATAAGAGC
1 TAAACGGAAACCCATAAGGGT
* *
9885216 TGAACGAAAACCCATAAGGGT
1 TAAACGGAAACCCATAAGGGT
9885237 TAAAC
1 TAAAC
9885242 TGAAGCTTAA
Statistics
Matches: 35, Mismatches: 12, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
21 35 1.00
ACGTcount: A:0.43, C:0.19, G:0.24, T:0.15
Consensus pattern (21 bp):
TAAACGGAAACCCATAAGGGT
Found at i:9885228 original size:42 final size:41
Alignment explanation
Indices: 9885166--9885283 Score: 146
Period size: 42 Copynumber: 2.8 Consensus size: 41
9885156 ACAGAAGAAA
* * *
9885166 ATAAGTGCTAAACGGAAACCCGTAAGGGTTAAACGGAAGCTC
1 ATAAGAGCTGAAC-GAAACCCATAAGGGTTAAACGGAAGCTC
* *
9885208 ATAAGAGCTGAACGAAAACCCATAAGGGTTAAACTGAAGCTT
1 ATAAGAGCTGAACG-AAACCCATAAGGGTTAAACGGAAGCTC
* *
9885250 AAAAGAGCTGAACTGAAACCCATAAGGATTAAAC
1 ATAAGAGCTGAAC-GAAACCCATAAGGGTTAAAC
9885284 TAAAACTCAT
Statistics
Matches: 67, Mismatches: 7, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
41 1 0.01
42 65 0.97
43 1 0.01
ACGTcount: A:0.43, C:0.18, G:0.22, T:0.17
Consensus pattern (41 bp):
ATAAGAGCTGAACGAAACCCATAAGGGTTAAACGGAAGCTC
Found at i:9885284 original size:42 final size:41
Alignment explanation
Indices: 9885180--9885284 Score: 147
Period size: 42 Copynumber: 2.5 Consensus size: 41
9885170 GTGCTAAACG
* * *
9885180 GAAACCCGTAAGGGTTAAACGGAAGCTCATAAGAGCTGAAC
1 GAAACCCATAAGGGTTAAACTGAAGCTCAAAAGAGCTGAAC
*
9885221 GAAAACCCATAAGGGTTAAACTGAAGCTTAAAAGAGCTGAAC
1 G-AAACCCATAAGGGTTAAACTGAAGCTCAAAAGAGCTGAAC
*
9885263 TGAAACCCATAAGGATTAAACT
1 -GAAACCCATAAGGGTTAAACT
9885285 AAAACTCATA
Statistics
Matches: 57, Mismatches: 5, Indels: 3
0.88 0.08 0.05
Matches are distributed among these distances:
41 1 0.02
42 55 0.96
43 1 0.02
ACGTcount: A:0.43, C:0.18, G:0.22, T:0.17
Consensus pattern (41 bp):
GAAACCCATAAGGGTTAAACTGAAGCTCAAAAGAGCTGAAC
Found at i:9889066 original size:17 final size:17
Alignment explanation
Indices: 9889040--9889077 Score: 58
Period size: 17 Copynumber: 2.2 Consensus size: 17
9889030 CGATTGCATG
9889040 TTTCTATTGCTGTTTAT
1 TTTCTATTGCTGTTTAT
* *
9889057 TTTCTGTTGCTGTTTTT
1 TTTCTATTGCTGTTTAT
9889074 TTTC
1 TTTC
9889078 CTTTGAGTCA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.05, C:0.13, G:0.13, T:0.68
Consensus pattern (17 bp):
TTTCTATTGCTGTTTAT
Found at i:9889855 original size:22 final size:24
Alignment explanation
Indices: 9889825--9889872 Score: 66
Period size: 23 Copynumber: 2.1 Consensus size: 24
9889815 GTTTTGATAA
9889825 TGTTCTTGATTTGT-T-CTGGAAAT
1 TGTTCTTGA-TTGTCTGCTGGAAAT
9889848 TGTT-TTGATTGTCTGCTGGAAAT
1 TGTTCTTGATTGTCTGCTGGAAAT
9889871 TG
1 TG
9889873 AATTTGTTTA
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
21 4 0.17
22 5 0.22
23 14 0.61
ACGTcount: A:0.17, C:0.08, G:0.25, T:0.50
Consensus pattern (24 bp):
TGTTCTTGATTGTCTGCTGGAAAT
Found at i:9891098 original size:25 final size:25
Alignment explanation
Indices: 9891064--9891217 Score: 149
Period size: 25 Copynumber: 6.2 Consensus size: 25
9891054 TGCATCAATA
9891064 ATTAAAATAAGGACTTTAATATTTT
1 ATTAAAATAAGGACTTTAATATTTT
* *
9891089 ATTAAAATAAGGAC--TAATCA-ATA
1 ATTAAAATAAGGACTTTAAT-ATTTT
*
9891112 ATTAAAATAAGGATTTTAATATTTT
1 ATTAAAATAAGGACTTTAATATTTT
* * *
9891137 ATTAAAATAAAGAC--TAATCA-ATA
1 ATTAAAATAAGGACTTTAAT-ATTTT
9891160 ATTAAAATAAGGACTTTAATATTTT
1 ATTAAAATAAGGACTTTAATATTTT
* *
9891185 ATTAAAAATCAAGAAATTTAATATTTT
1 ATT-AAAAT-AAGGACTTTAATATTTT
*
9891212 AATAAA
1 ATTAAA
9891218 GAATTTTAAA
Statistics
Matches: 104, Mismatches: 15, Indels: 19
0.75 0.11 0.14
Matches are distributed among these distances:
23 36 0.35
24 4 0.04
25 39 0.38
26 8 0.08
27 17 0.16
ACGTcount: A:0.51, C:0.05, G:0.06, T:0.38
Consensus pattern (25 bp):
ATTAAAATAAGGACTTTAATATTTT
Found at i:9891113 original size:48 final size:48
Alignment explanation
Indices: 9891057--9891191 Score: 252
Period size: 48 Copynumber: 2.8 Consensus size: 48
9891047 AAAAAAATGC
*
9891057 ATCAATAATTAAAATAAGGACTTTAATATTTTATTAAAATAAGGACTA
1 ATCAATAATTAAAATAAGGACTTTAATATTTTATTAAAATAAAGACTA
*
9891105 ATCAATAATTAAAATAAGGATTTTAATATTTTATTAAAATAAAGACTA
1 ATCAATAATTAAAATAAGGACTTTAATATTTTATTAAAATAAAGACTA
9891153 ATCAATAATTAAAATAAGGACTTTAATATTTTATTAAAA
1 ATCAATAATTAAAATAAGGACTTTAATATTTTATTAAAA
9891192 ATCAAGAAAT
Statistics
Matches: 84, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
48 84 1.00
ACGTcount: A:0.51, C:0.05, G:0.07, T:0.37
Consensus pattern (48 bp):
ATCAATAATTAAAATAAGGACTTTAATATTTTATTAAAATAAAGACTA
Found at i:9891115 original size:23 final size:23
Alignment explanation
Indices: 9891057--9891174 Score: 114
Period size: 23 Copynumber: 5.0 Consensus size: 23
9891047 AAAAAAATGC
9891057 ATCAATAATTAAAATAAGGACTTTA
1 ATCAATAATTAAAATAAGGAC--TA
* *
9891082 AT-ATTTTATTAAAATAAGGACTA
1 ATCA-ATAATTAAAATAAGGACTA
*
9891105 ATCAATAATTAAAATAAGGATTTTA
1 ATCAATAATTAAAATAAGGA--CTA
* * *
9891130 AT-ATTTTATTAAAATAAAGACTA
1 ATCA-ATAATTAAAATAAGGACTA
9891153 ATCAATAATTAAAATAAGGACT
1 ATCAATAATTAAAATAAGGACT
9891175 TTAATATTTT
Statistics
Matches: 75, Mismatches: 12, Indels: 14
0.74 0.12 0.14
Matches are distributed among these distances:
23 37 0.49
24 4 0.05
25 34 0.45
ACGTcount: A:0.52, C:0.06, G:0.08, T:0.35
Consensus pattern (23 bp):
ATCAATAATTAAAATAAGGACTA
Found at i:9891245 original size:27 final size:25
Alignment explanation
Indices: 9891198--9891252 Score: 58
Period size: 27 Copynumber: 2.1 Consensus size: 25
9891188 AAAAATCAAG
* *
9891198 AAATTTAATATTTTAATAAAGAATTTT
1 AAATTTAAAATGTTAATAAAG--TTTT
9891225 AAATTTAAAATGTT-ATAAAAGTTTT
1 AAATTTAAAATGTTAAT-AAAGTTTT
9891250 AAA
1 AAA
9891253 ACAAGAGAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
25 7 0.28
26 2 0.08
27 16 0.64
ACGTcount: A:0.51, C:0.00, G:0.05, T:0.44
Consensus pattern (25 bp):
AAATTTAAAATGTTAATAAAGTTTT
Found at i:9894910 original size:47 final size:45
Alignment explanation
Indices: 9894859--9895023 Score: 121
Period size: 47 Copynumber: 3.6 Consensus size: 45
9894849 TATTTAATAT
9894859 TAATTATTTTAAATTGTATAAATTCATATAAGAAAAATTATTATCAA
1 TAATTATTTTAAATT-TATAAATTCATATAAGAAAAATTATTAT-AA
* * **
9894906 TAATT-TTATGAAA-TTATATATT-AT-T-A-AATTA-TATGTAATAA
1 TAATTATT-TTAAATTTATAAATTCATATAAGAAAAATTAT-T-ATAA
* * * *
9894947 TAATTATTTTAAATTATACAAATTCATATAAGATAATTTATTAGTTA
1 TAATTATTTTAAATT-TATAAATTCATATAAGAAAAATTATTA-TAA
9894994 TAATTATTTTAAATTTTATTAAA-TCATATA
1 TAATTATTTTAAA-TTTA-TAAATTCATATA
9895024 TTTTAATTAA
Statistics
Matches: 91, Mismatches: 13, Indels: 28
0.69 0.10 0.21
Matches are distributed among these distances:
40 3 0.03
41 15 0.16
42 6 0.07
43 7 0.08
44 4 0.04
45 8 0.09
46 5 0.05
47 35 0.38
48 8 0.09
ACGTcount: A:0.46, C:0.03, G:0.04, T:0.47
Consensus pattern (45 bp):
TAATTATTTTAAATTTATAAATTCATATAAGAAAAATTATTATAA
Found at i:9894935 original size:25 final size:24
Alignment explanation
Indices: 9894907--9894964 Score: 62
Period size: 25 Copynumber: 2.3 Consensus size: 24
9894897 TATTATCAAT
* *
9894907 AATTTTATGAAATTATATATTATTA
1 AATTATATGAAATAATA-ATTATTA
*
9894932 AATTATATGTAATAATAATTATTTTA
1 AATTATATGAAATAATAATTA--TTA
9894958 AATTATA
1 AATTATA
9894965 CAAATTCATA
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
24 4 0.14
25 14 0.50
26 10 0.36
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (24 bp):
AATTATATGAAATAATAATTATTA
Found at i:9894945 original size:88 final size:91
Alignment explanation
Indices: 9894785--9894989 Score: 299
Period size: 88 Copynumber: 2.3 Consensus size: 91
9894775 TTGATTTTAG
* *
9894785 TAAATTCATATAAGAACATTTTATTATTAAGAATTTTATGAAATTATATATCATTATTAAATTAT
1 TAAATTCATATAAGAA-AATTTATTATCAAGAATTTTATGAAATTATATATCATTATTAAATTAT
* * *
9894850 ATTTAATATTAATTATTTTAAATTGTA
65 ATGTAATAATAATTATTTTAAATTATA
* *
9894877 TAAATTCATATAAGAAAAATTATTATCAATAATTTTATGAAA-T-TATAT-ATTATTAAATTATA
1 TAAATTCATATAAGAAAATTTATTATCAAGAATTTTATGAAATTATATATCATTATTAAATTATA
9894939 TGTAATAATAATTATTTTAAATTATA
66 TGTAATAATAATTATTTTAAATTATA
* *
9894965 CAAATTCATATAAGATAATTTATTA
1 TAAATTCATATAAGAAAATTTATTA
9894990 GTTATAATTA
Statistics
Matches: 103, Mismatches: 10, Indels: 4
0.88 0.09 0.03
Matches are distributed among these distances:
88 59 0.57
89 5 0.05
90 1 0.01
91 22 0.21
92 16 0.16
ACGTcount: A:0.46, C:0.03, G:0.04, T:0.46
Consensus pattern (91 bp):
TAAATTCATATAAGAAAATTTATTATCAAGAATTTTATGAAATTATATATCATTATTAAATTATA
TGTAATAATAATTATTTTAAATTATA
Found at i:9895031 original size:47 final size:49
Alignment explanation
Indices: 9894907--9895032 Score: 123
Period size: 47 Copynumber: 2.6 Consensus size: 49
9894897 TATTATCAAT
* *
9894907 AATTTTATGAAATTATATATTATTAAATTATATGTAATAATAATTATTTTA
1 AATTTTATCAAATCATATATT-TT-AATTATATGTAATAATAATTATTTTA
* *** * *
9894958 AATTATA-CAAATTCATATAAGATAATT-TAT-TAGTTATAATTATTTTA
1 AATTTTATCAAA-TCATATATTTTAATTATATGTAATAATAATTATTTTA
*
9895005 AATTTTATTAAATCATATATTTTAATTA
1 AATTTTATCAAATCATATATTTTAATTA
9895033 AAATATATTT
Statistics
Matches: 59, Mismatches: 13, Indels: 9
0.73 0.16 0.11
Matches are distributed among these distances:
47 33 0.56
48 6 0.10
49 4 0.07
50 4 0.07
51 12 0.20
ACGTcount: A:0.44, C:0.02, G:0.03, T:0.50
Consensus pattern (49 bp):
AATTTTATCAAATCATATATTTTAATTATATGTAATAATAATTATTTTA
Found at i:9895171 original size:25 final size:26
Alignment explanation
Indices: 9895139--9895193 Score: 71
Period size: 24 Copynumber: 2.2 Consensus size: 26
9895129 TTATTAAATT
*
9895139 ATATATTTTAATTATAA-TATATTTA
1 ATATATTTTAATAATAATTATATTTA
*
9895164 ATATA-TTTAATAATAATTATGTTTA
1 ATATATTTTAATAATAATTATATTTA
9895189 A-ATAT
1 ATATAT
9895194 GATTAAATTA
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
24 13 0.50
25 13 0.50
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.53
Consensus pattern (26 bp):
ATATATTTTAATAATAATTATATTTA
Found at i:9895415 original size:45 final size:44
Alignment explanation
Indices: 9895334--9895425 Score: 132
Period size: 45 Copynumber: 2.1 Consensus size: 44
9895324 ACCTCTATTC
9895334 CATTCAACCAAACACAAGATTACTATTACGCCTCTATTCCATTA
1 CATTCAACCAAACACAAGATTACTATTACGCCTCTATTCCATTA
* * *
9895378 CATTCAACCAAACA-ATTGATTTGCTATTATGCCTCTATTCCATTA
1 CATTCAACCAAACACA-AGA-TTACTATTACGCCTCTATTCCATTA
9895423 CAT
1 CAT
9895426 CTCTATTCCA
Statistics
Matches: 43, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
43 1 0.02
44 16 0.37
45 26 0.60
ACGTcount: A:0.34, C:0.27, G:0.05, T:0.34
Consensus pattern (44 bp):
CATTCAACCAAACACAAGATTACTATTACGCCTCTATTCCATTA
Found at i:9895429 original size:16 final size:16
Alignment explanation
Indices: 9895409--9895456 Score: 69
Period size: 16 Copynumber: 3.0 Consensus size: 16
9895399 TGCTATTATG
9895409 CCTCTATTCCATTACA
1 CCTCTATTCCATTACA
*
9895425 TCTCTATTCCATTACA
1 CCTCTATTCCATTACA
* *
9895441 CCTCTAATCCAATACA
1 CCTCTATTCCATTACA
9895457 GCGAACCAAA
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
16 28 1.00
ACGTcount: A:0.29, C:0.35, G:0.00, T:0.35
Consensus pattern (16 bp):
CCTCTATTCCATTACA
Found at i:9896485 original size:123 final size:124
Alignment explanation
Indices: 9896324--9896548 Score: 375
Period size: 123 Copynumber: 1.8 Consensus size: 124
9896314 GTTGACCCAA
*
9896324 ATATTTAATATTATAACTCTTTGCCAGTGATAAAGATTCCATACATGTTTTTTTTATTAAAACAT
1 ATATTTAATATTATAACTCTTTGCCAGTGATAAAGATTCCATACATGTTTATTTTATTAAAACAT
9896389 AA-ATTTAATAAATAAATA-AGTAAAATGTTAAAATCATATGTTTGTTTTAATCTATAAAT
66 AATA-TTAATAAATAAATATA-TAAAATGTTAAAATCATATGTTTGTTTTAATCTATAAAT
** *
9896448 ATATTTAATATTATAACTCTTTG-TTGTGATAAAGATTCCATGCATGTTTATTTTATTAAAACAT
1 ATATTTAATATTATAACTCTTTGCCAGTGATAAAGATTCCATACATGTTTATTTTATTAAAACAT
9896512 AATATTAATAAATAAATATATAAAATGTTAAAATCAT
66 AATATTAATAAATAAATATATAAAATGTTAAAATCAT
9896549 TTTATTACCT
Statistics
Matches: 95, Mismatches: 4, Indels: 5
0.91 0.04 0.05
Matches are distributed among these distances:
123 70 0.74
124 25 0.26
ACGTcount: A:0.43, C:0.08, G:0.07, T:0.43
Consensus pattern (124 bp):
ATATTTAATATTATAACTCTTTGCCAGTGATAAAGATTCCATACATGTTTATTTTATTAAAACAT
AATATTAATAAATAAATATATAAAATGTTAAAATCATATGTTTGTTTTAATCTATAAAT
Found at i:9922675 original size:24 final size:24
Alignment explanation
Indices: 9922648--9922694 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 24
9922638 AATATGGACC
* *
9922648 GATTCTATGTTGATATAATGAATT
1 GATTCGATGCTGATATAATGAATT
*
9922672 GATTCGATGCTGATATAGTGAAT
1 GATTCGATGCTGATATAATGAAT
9922695 AGTTGATATT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.32, C:0.06, G:0.21, T:0.40
Consensus pattern (24 bp):
GATTCGATGCTGATATAATGAATT
Found at i:9939623 original size:24 final size:24
Alignment explanation
Indices: 9939596--9939647 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
9939586 TTAGTAAGTC
*
9939596 AAATAAACTATACTAATAAATGCT
1 AAATAAACTATACTAATAAATACT
* *
9939620 AAATATATTATACTAATAAATACT
1 AAATAAACTATACTAATAAATACT
9939644 AAAT
1 AAAT
9939648 CTTCTAGAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.56, C:0.10, G:0.02, T:0.33
Consensus pattern (24 bp):
AAATAAACTATACTAATAAATACT
Found at i:9941595 original size:24 final size:24
Alignment explanation
Indices: 9941568--9941619 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
9941558 TTAGTAAGTC
*
9941568 AAATAAACTATACTAATAAATGCT
1 AAATAAACTATACTAATAAATACT
* *
9941592 AAATATATTATACTAATAAATACT
1 AAATAAACTATACTAATAAATACT
9941616 AAAT
1 AAAT
9941620 CTTCTAGAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.56, C:0.10, G:0.02, T:0.33
Consensus pattern (24 bp):
AAATAAACTATACTAATAAATACT
Found at i:9947784 original size:39 final size:40
Alignment explanation
Indices: 9947580--9947802 Score: 218
Period size: 40 Copynumber: 5.6 Consensus size: 40
9947570 TTGAATGCTG
* * * * * *
9947580 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGC-GAGTTACTAAA
* * * *
9947620 TCCGGATTAAGAT-CCGAAGGCCTTTGTGCGAGATACTAAA
1 TCCGGGTTAAG-TCCCGAAGGCATTCGTGCGAGTTACTAAA
* *
9947660 TCCGGGTTAAGTCCCGAGGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAA
* **
9947700 GCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAA
* * *
9947740 TCCGGGTTACGTCCCGAAGGCA-TGGTGTGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAA
* * *
9947779 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
9947803 TGAACGAGGA
Statistics
Matches: 154, Mismatches: 25, Indels: 8
0.82 0.13 0.04
Matches are distributed among these distances:
39 33 0.21
40 113 0.73
41 8 0.05
ACGTcount: A:0.24, C:0.21, G:0.29, T:0.26
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAA
Found at i:9947822 original size:79 final size:80
Alignment explanation
Indices: 9947655--9947837 Score: 208
Period size: 79 Copynumber: 2.3 Consensus size: 80
9947645 GTGCGAGATA
* * * *
9947655 CTAAATCCGGGTTAAGTCCCGAGGGCATTCGTGCGAGTTATTAAAGCCGGGTTAAGTCCCGAAGG
1 CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGG
** **
9947720 CATTCGTGCGAGTTG
66 CATTCGAACGAGGAG
* * * * *
9947735 TTAAATCCGGGTTACGTCCCGAAGGCA-TGGTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGG
1 CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGG
*
9947799 CATTTGAACGAGGAG
66 CATTCGAACGAGGAG
* *
9947814 CTATATCC-GGTTAAATCCCGAAGG
1 CTAAATCCGGGTTAAGTCCCGAAGG
9947838 TACGTGATTT
Statistics
Matches: 85, Mismatches: 18, Indels: 2
0.81 0.17 0.02
Matches are distributed among these distances:
78 14 0.16
79 47 0.55
80 24 0.28
ACGTcount: A:0.25, C:0.21, G:0.30, T:0.24
Consensus pattern (80 bp):
CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGG
CATTCGAACGAGGAG
Found at i:9954965 original size:39 final size:40
Alignment explanation
Indices: 9954761--9954983 Score: 218
Period size: 40 Copynumber: 5.6 Consensus size: 40
9954751 TTGAATGCTG
* * * * * *
9954761 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGC-GAGTTACTAAA
* * * *
9954801 TCCGGATTAAGAT-CCGAAGGCCTTTGTGCGAGATACTAAA
1 TCCGGGTTAAG-TCCCGAAGGCATTCGTGCGAGTTACTAAA
* *
9954841 TCCGGGTTAAGTCCCGAGGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAA
* **
9954881 GCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAA
* * *
9954921 TCCGGGTTACGTCCCGAAGGCA-TGGTGTGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAA
* * *
9954960 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
9954984 TGAACGAGGA
Statistics
Matches: 154, Mismatches: 25, Indels: 8
0.82 0.13 0.04
Matches are distributed among these distances:
39 33 0.21
40 113 0.73
41 8 0.05
ACGTcount: A:0.24, C:0.21, G:0.29, T:0.26
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAA
Found at i:9955003 original size:79 final size:80
Alignment explanation
Indices: 9954836--9955018 Score: 208
Period size: 79 Copynumber: 2.3 Consensus size: 80
9954826 GTGCGAGATA
* * * *
9954836 CTAAATCCGGGTTAAGTCCCGAGGGCATTCGTGCGAGTTATTAAAGCCGGGTTAAGTCCCGAAGG
1 CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGG
** **
9954901 CATTCGTGCGAGTTG
66 CATTCGAACGAGGAG
* * * * *
9954916 TTAAATCCGGGTTACGTCCCGAAGGCA-TGGTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGG
1 CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGG
*
9954980 CATTTGAACGAGGAG
66 CATTCGAACGAGGAG
* *
9954995 CTATATCC-GGTTAAATCCCGAAGG
1 CTAAATCCGGGTTAAGTCCCGAAGG
9955019 TACGTGATTT
Statistics
Matches: 85, Mismatches: 18, Indels: 2
0.81 0.17 0.02
Matches are distributed among these distances:
78 14 0.16
79 47 0.55
80 24 0.28
ACGTcount: A:0.25, C:0.21, G:0.30, T:0.24
Consensus pattern (80 bp):
CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGG
CATTCGAACGAGGAG
Found at i:9957852 original size:17 final size:17
Alignment explanation
Indices: 9957807--9957858 Score: 52
Period size: 17 Copynumber: 3.0 Consensus size: 17
9957797 GGTATTTTTA
*
9957807 ACACAAATATGAAATT-
1 ACACAAATATTAAATTC
* *
9957823 AAAAAAATGATTAAATTC
1 ACACAAAT-ATTAAATTC
9957841 ACACAAATATTATAATTC
1 ACACAAATATTA-AATTC
9957859 TTGAAACTGA
Statistics
Matches: 28, Mismatches: 5, Indels: 4
0.76 0.14 0.11
Matches are distributed among these distances:
16 6 0.21
17 11 0.39
18 11 0.39
ACGTcount: A:0.56, C:0.12, G:0.04, T:0.29
Consensus pattern (17 bp):
ACACAAATATTAAATTC
Found at i:9959254 original size:43 final size:42
Alignment explanation
Indices: 9959163--9959258 Score: 111
Period size: 42 Copynumber: 2.3 Consensus size: 42
9959153 TGTGATTTCG
* * * * **
9959163 TGTAAGACAATGTCTGGGACATTGGCATTGTATATGATTTCA
1 TGTAAGACCATGTCTAGGACAGTGGCATCGTATATGATAACA
* *
9959205 TGTAAGACCCTGTCTAGGACAGTGGCATCGATATATTATAACA
1 TGTAAGACCATGTCTAGGACAGTGGCATCG-TATATGATAACA
9959248 TGTAAGACCAT
1 TGTAAGACCAT
9959259 ATCTGGGATA
Statistics
Matches: 44, Mismatches: 9, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
42 25 0.57
43 19 0.43
ACGTcount: A:0.31, C:0.16, G:0.22, T:0.31
Consensus pattern (42 bp):
TGTAAGACCATGTCTAGGACAGTGGCATCGTATATGATAACA
Found at i:9959892 original size:48 final size:48
Alignment explanation
Indices: 9959816--9960066 Score: 362
Period size: 48 Copynumber: 5.2 Consensus size: 48
9959806 TGATGATAAG
* * *
9959816 ATGCTGTCTAAATTGGTGTTTAATTGCTGTCCATTTTTTAGCATATTA
1 ATGCTGTCCAAATTGGTGCTTAAATGCTGTCCATTTTTTAGCATATTA
*
9959864 ATGCTGTCCAAATTAGTGCTTAAATGCTGTCCATTTTTTAGCATATTA
1 ATGCTGTCCAAATTGGTGCTTAAATGCTGTCCATTTTTTAGCATATTA
* *
9959912 ATGTTGTCCAAATTAGTGCTTAAATGCTGTCCATTTTTTTTAGCATATTA
1 ATGCTGTCCAAATTGGTGCTTAAATGCTGTCCA--TTTTTTAGCATATTA
* *
9959962 ATGCTGTCCAAA-TGGATGCTTAATTGCTGTCCATTTTTTAGTATATTA
1 ATGCTGTCCAAATTGG-TGCTTAAATGCTGTCCATTTTTTAGCATATTA
* *
9960010 ATGCTGTCCAAATTGGTGCTTAAATGCTGTCCATTTTTGTA-CAAATCA
1 ATGCTGTCCAAATTGGTGCTTAAATGCTGTCCATTTTT-TAGCATATTA
9960058 ATGCTGTCC
1 ATGCTGTCC
9960067 GAATGTTTTT
Statistics
Matches: 185, Mismatches: 13, Indels: 10
0.89 0.06 0.05
Matches are distributed among these distances:
48 136 0.74
49 7 0.04
50 42 0.23
ACGTcount: A:0.25, C:0.16, G:0.16, T:0.43
Consensus pattern (48 bp):
ATGCTGTCCAAATTGGTGCTTAAATGCTGTCCATTTTTTAGCATATTA
Found at i:9959992 original size:98 final size:98
Alignment explanation
Indices: 9959816--9960047 Score: 362
Period size: 98 Copynumber: 2.4 Consensus size: 98
9959806 TGATGATAAG
* * * *
9959816 ATGCTGTCTAAATTGGTGTTTAATTGCTGTCCA--TTTTTTAGCATATTAATGCTGTCCAAATTA
1 ATGCTGTCCAAATTGGTGCTTAAATGCTGTCCATTTTTTTTAGCATATTAATGCTGTCCAAATGA
9959879 GTGCTTAAATGCTGTCCATTTTTTAGCATATTA
66 GTGCTTAAATGCTGTCCATTTTTTAGCATATTA
* *
9959912 ATGTTGTCCAAATTAGTGCTTAAATGCTGTCCATTTTTTTTAGCATATTAATGCTGTCCAAATG-
1 ATGCTGTCCAAATTGGTGCTTAAATGCTGTCCATTTTTTTTAGCATATTAATGCTGTCCAAATGA
* *
9959976 GATGCTTAATTGCTGTCCATTTTTTAGTATATTA
66 G-TGCTTAAATGCTGTCCATTTTTTAGCATATTA
9960010 ATGCTGTCCAAATTGGTGCTTAAATGCTGTCCATTTTT
1 ATGCTGTCCAAATTGGTGCTTAAATGCTGTCCATTTTT
9960048 GTACAAATCA
Statistics
Matches: 123, Mismatches: 10, Indels: 4
0.90 0.07 0.03
Matches are distributed among these distances:
96 28 0.23
97 1 0.01
98 94 0.76
ACGTcount: A:0.25, C:0.15, G:0.16, T:0.44
Consensus pattern (98 bp):
ATGCTGTCCAAATTGGTGCTTAAATGCTGTCCATTTTTTTTAGCATATTAATGCTGTCCAAATGA
GTGCTTAAATGCTGTCCATTTTTTAGCATATTA
Found at i:9960789 original size:13 final size:13
Alignment explanation
Indices: 9960771--9960795 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
9960761 TTTAAATTAG
9960771 TTATGTGTTTTAA
1 TTATGTGTTTTAA
9960784 TTATGTGTTTTA
1 TTATGTGTTTTA
9960796 TTGATATGGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.20, C:0.00, G:0.16, T:0.64
Consensus pattern (13 bp):
TTATGTGTTTTAA
Found at i:9965236 original size:33 final size:33
Alignment explanation
Indices: 9965194--9965258 Score: 121
Period size: 33 Copynumber: 2.0 Consensus size: 33
9965184 GAAATATATA
*
9965194 TCATCTAAAGCTAACCCATGCACCAACTAAACT
1 TCATCTAAAGCTAACCCAAGCACCAACTAAACT
9965227 TCATCTAAAGCTAACCCAAGCACCAACTAAAC
1 TCATCTAAAGCTAACCCAAGCACCAACTAAAC
9965259 ATAATAATAC
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 31 1.00
ACGTcount: A:0.42, C:0.34, G:0.06, T:0.18
Consensus pattern (33 bp):
TCATCTAAAGCTAACCCAAGCACCAACTAAACT
Found at i:9972955 original size:9 final size:9
Alignment explanation
Indices: 9972941--9972974 Score: 50
Period size: 9 Copynumber: 3.7 Consensus size: 9
9972931 TGCACTCCAT
9972941 GCCAGCCAA
1 GCCAGCCAA
9972950 GCCAGCCAA
1 GCCAGCCAA
*
9972959 GCCATGCCAT
1 GCCA-GCCAA
9972969 GCCAGC
1 GCCAGC
9972975 ATTAGCATTA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
9 15 0.65
10 8 0.35
ACGTcount: A:0.26, C:0.44, G:0.24, T:0.06
Consensus pattern (9 bp):
GCCAGCCAA
Found at i:9988189 original size:25 final size:25
Alignment explanation
Indices: 9988158--9988223 Score: 123
Period size: 25 Copynumber: 2.6 Consensus size: 25
9988148 AACCATTCAT
*
9988158 AAACGACGTCGTTTAAGTGCCCTTC
1 AAACGACGTCGTTTAAGTGCCCATC
9988183 AAACGACGTCGTTTAAGTGCCCATC
1 AAACGACGTCGTTTAAGTGCCCATC
9988208 AAACGACGTCGTTTAA
1 AAACGACGTCGTTTAA
9988224 AGGCTGATTC
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
25 40 1.00
ACGTcount: A:0.29, C:0.26, G:0.20, T:0.26
Consensus pattern (25 bp):
AAACGACGTCGTTTAAGTGCCCATC
Found at i:9989062 original size:14 final size:13
Alignment explanation
Indices: 9989025--9989080 Score: 51
Period size: 14 Copynumber: 4.1 Consensus size: 13
9989015 ACCTTTTTCA
9989025 TATCTATATACTTT
1 TATCTATATA-TTT
9989039 ATATCT-TATATATT
1 -TATCTATATAT-TT
9989053 TATCTATATATCTT
1 TATCTATATAT-TT
* *
9989067 TATATACATATTT
1 TATCTATATATTT
9989080 T
1 T
9989081 TAATTTTCAT
Statistics
Matches: 36, Mismatches: 3, Indels: 6
0.80 0.07 0.13
Matches are distributed among these distances:
13 9 0.25
14 22 0.61
15 5 0.14
ACGTcount: A:0.32, C:0.11, G:0.00, T:0.57
Consensus pattern (13 bp):
TATCTATATATTT
Found at i:9989082 original size:28 final size:27
Alignment explanation
Indices: 9989008--9989082 Score: 73
Period size: 28 Copynumber: 2.7 Consensus size: 27
9988998 TATTTACGTA
*
9989008 TTTATATACCT-TTTTCATATCTATATAC
1 TTTATATACATATTTT--TATCTATATAC
*
9989036 TTTATAT-CTTATATATTTATCTATATATC
1 TTTATATAC--ATATTTTTATCTATATA-C
9989065 TTTATATACATATTTTTA
1 TTTATATACATATTTTTA
9989083 ATTTTCATAT
Statistics
Matches: 39, Mismatches: 3, Indels: 10
0.75 0.06 0.19
Matches are distributed among these distances:
27 1 0.03
28 25 0.64
29 9 0.23
30 4 0.10
ACGTcount: A:0.31, C:0.12, G:0.00, T:0.57
Consensus pattern (27 bp):
TTTATATACATATTTTTATCTATATAC
Found at i:9996205 original size:42 final size:42
Alignment explanation
Indices: 9996140--9996287 Score: 152
Period size: 42 Copynumber: 3.5 Consensus size: 42
9996130 TCAGGAGCCC
* * * *
9996140 AAAGGTTGCACAGAAGCACATAAGTGCTAAACAGAAACCCAT
1 AAAGGTTGAACAGAAGCTCATAAGAGCTAAACGGAAACCCAT
* * * *
9996182 AAAGGTTGAACGGAAGCTTATAAGAGCTGAACGGAAACCCGT
1 AAAGGTTGAACAGAAGCTCATAAGAGCTAAACGGAAACCCAT
* * * *
9996224 AAAGGTTAAACTGAAGCTCAAAAGAGCTAAACGGAAACCTAT
1 AAAGGTTGAACAGAAGCTCATAAGAGCTAAACGGAAACCCAT
* * * *
9996266 TAGGGTTGAACAAAAACTCATA
1 AAAGGTTGAACAGAAGCTCATA
9996288 TGAGTTAACA
Statistics
Matches: 84, Mismatches: 22, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
42 84 1.00
ACGTcount: A:0.44, C:0.18, G:0.22, T:0.17
Consensus pattern (42 bp):
AAAGGTTGAACAGAAGCTCATAAGAGCTAAACGGAAACCCAT
Found at i:10004775 original size:33 final size:32
Alignment explanation
Indices: 10004738--10004814 Score: 91
Period size: 33 Copynumber: 2.3 Consensus size: 32
10004728 TGGCCCTGCC
** * *
10004738 ATGGTCTTACATTTGTAGTGTCATAACCCAGTT
1 ATGGTCTTACA-TTAAAATGTCATAACCCAGCT
*
10004771 ATGGTCTTATCATTAAAATGTCATAGCCCAGCT
1 ATGGTCTTA-CATTAAAATGTCATAACCCAGCT
10004804 ATGGTCTTACA
1 ATGGTCTTACA
10004815 CATGTATTTA
Statistics
Matches: 38, Mismatches: 5, Indels: 3
0.83 0.11 0.07
Matches are distributed among these distances:
32 2 0.05
33 34 0.89
34 2 0.05
ACGTcount: A:0.27, C:0.19, G:0.17, T:0.36
Consensus pattern (32 bp):
ATGGTCTTACATTAAAATGTCATAACCCAGCT
Found at i:10005232 original size:18 final size:19
Alignment explanation
Indices: 10005188--10005236 Score: 55
Period size: 18 Copynumber: 2.6 Consensus size: 19
10005178 AAATTATTCA
10005188 ATTTATTTTATTATATATAT
1 ATTTA-TTTATTATATATAT
** *
10005208 AAATATTT-TTATATTTAT
1 ATTTATTTATTATATATAT
10005226 ATTTATTTATT
1 ATTTATTTATT
10005237 TTTGTTCGCT
Statistics
Matches: 23, Mismatches: 5, Indels: 3
0.74 0.16 0.10
Matches are distributed among these distances:
18 15 0.65
19 5 0.22
20 3 0.13
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (19 bp):
ATTTATTTATTATATATAT
Found at i:10007793 original size:12 final size:11
Alignment explanation
Indices: 10007746--10007797 Score: 50
Period size: 12 Copynumber: 4.5 Consensus size: 11
10007736 TTTTTTTGAT
*
10007746 ATTTTTTAAAT
1 ATTTTTTAAAA
*
10007757 ATTTTCTTAATA
1 ATTTT-TTAAAA
*
10007769 ATTATTCTAAAA
1 ATT-TTTTAAAA
10007781 AGTTTTTTAAAA
1 A-TTTTTTAAAA
10007793 ATTTT
1 ATTTT
10007798 AAAATTAAAT
Statistics
Matches: 33, Mismatches: 5, Indels: 6
0.75 0.11 0.14
Matches are distributed among these distances:
11 9 0.27
12 20 0.61
13 4 0.12
ACGTcount: A:0.38, C:0.04, G:0.02, T:0.56
Consensus pattern (11 bp):
ATTTTTTAAAA
Found at i:10007986 original size:29 final size:27
Alignment explanation
Indices: 10007921--10007989 Score: 75
Period size: 29 Copynumber: 2.4 Consensus size: 27
10007911 CCCACCCTTG
10007921 TCCCTCACCTCTCCCCCACCATCTCCCC
1 TCCCTC-CCTCTCCCCCACCATCTCCCC
* *
10007949 TCCTACTCCCTCTTCCCCACCGTCTCCCCC
1 TCC--CTCCCTCTCCCCCACCATCT-CCCC
10007979 TCACCTCCCTC
1 TC-CCTCCCTC
10007990 CCTCTCCATC
Statistics
Matches: 35, Mismatches: 2, Indels: 7
0.80 0.05 0.16
Matches are distributed among these distances:
28 3 0.09
29 22 0.63
30 9 0.26
31 1 0.03
ACGTcount: A:0.09, C:0.65, G:0.01, T:0.25
Consensus pattern (27 bp):
TCCCTCCCTCTCCCCCACCATCTCCCC
Found at i:10008144 original size:6 final size:6
Alignment explanation
Indices: 10008129--10008168 Score: 55
Period size: 6 Copynumber: 6.8 Consensus size: 6
10008119 GGAAAAGATG
* *
10008129 GAGGGA GAGGGC GAGGGC GAGGGA GAGGGA GAGGG- GAGGG
1 GAGGGA GAGGGA GAGGGA GAGGGA GAGGGA GAGGGA GAGGG
10008169 TTTTATTAAT
Statistics
Matches: 32, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
5 5 0.16
6 27 0.84
ACGTcount: A:0.25, C:0.05, G:0.70, T:0.00
Consensus pattern (6 bp):
GAGGGA
Found at i:10008152 original size:18 final size:17
Alignment explanation
Indices: 10008128--10008168 Score: 64
Period size: 18 Copynumber: 2.4 Consensus size: 17
10008118 GGGAAAAGAT
*
10008128 GGAGGGAGAGGGCGAGG
1 GGAGGGAGAGGGAGAGG
10008145 GCGAGGGAGAGGGAGAGG
1 G-GAGGGAGAGGGAGAGG
10008163 GGAGGG
1 GGAGGG
10008169 TTTTATTAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 6 0.27
18 16 0.73
ACGTcount: A:0.24, C:0.05, G:0.71, T:0.00
Consensus pattern (17 bp):
GGAGGGAGAGGGAGAGG
Found at i:10008210 original size:12 final size:12
Alignment explanation
Indices: 10008178--10008215 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
10008168 GTTTTATTAA
10008178 TTTTATTT-AAT
1 TTTTATTTAAAT
* *
10008189 ATTAATTTAAAT
1 TTTTATTTAAAT
10008201 TTTTATTTAAAT
1 TTTTATTTAAAT
10008213 TTT
1 TTT
10008216 ACAATAATAA
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
11 6 0.27
12 16 0.73
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (12 bp):
TTTTATTTAAAT
Found at i:10008235 original size:21 final size:21
Alignment explanation
Indices: 10008205--10008273 Score: 63
Period size: 21 Copynumber: 3.3 Consensus size: 21
10008195 TTAAATTTTT
10008205 ATTTA-AATTTTACAATAATA
1 ATTTATAATTTTACAATAATA
10008225 ATTTATAATTTT-C-ATAATA
1 ATTTATAATTTTACAATAATA
* **
10008244 CATTTTATATTTTTAACAATTTTA
1 -A-TTTATAATTTT-ACAATAATA
10008268 ATTTAT
1 ATTTAT
10008274 TTTTAAGATT
Statistics
Matches: 40, Mismatches: 3, Indels: 10
0.75 0.06 0.19
Matches are distributed among these distances:
19 6 0.15
20 7 0.17
21 16 0.40
22 5 0.12
23 2 0.05
24 4 0.10
ACGTcount: A:0.41, C:0.06, G:0.00, T:0.54
Consensus pattern (21 bp):
ATTTATAATTTTACAATAATA
Found at i:10008248 original size:20 final size:20
Alignment explanation
Indices: 10008205--10008248 Score: 56
Period size: 20 Copynumber: 2.2 Consensus size: 20
10008195 TTAAATTTTT
10008205 ATTTAAATTTTACAATAATA
1 ATTTAAATTTTACAATAATA
10008225 ATTTATAATTTT-C-ATAATA
1 ATTTA-AATTTTACAATAATA
10008244 CATTT
1 -ATTT
10008249 TATATTTTTA
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
19 6 0.27
20 10 0.45
21 6 0.27
ACGTcount: A:0.43, C:0.07, G:0.00, T:0.50
Consensus pattern (20 bp):
ATTTAAATTTTACAATAATA
Found at i:10012847 original size:4 final size:4
Alignment explanation
Indices: 10012838--10012892 Score: 110
Period size: 4 Copynumber: 13.8 Consensus size: 4
10012828 TTTGGTTTCT
10012838 TTAG TTAG TTAG TTAG TTAG TTAG TTAG TTAG TTAG TTAG TTAG TTAG
1 TTAG TTAG TTAG TTAG TTAG TTAG TTAG TTAG TTAG TTAG TTAG TTAG
10012886 TTAG TTA
1 TTAG TTA
10012893 TAAGTTACTA
Statistics
Matches: 51, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 51 1.00
ACGTcount: A:0.25, C:0.00, G:0.24, T:0.51
Consensus pattern (4 bp):
TTAG
Found at i:10014316 original size:9 final size:10
Alignment explanation
Indices: 10014304--10014351 Score: 53
Period size: 10 Copynumber: 4.8 Consensus size: 10
10014294 TTTCTATATA
10014304 TTTTATAATT
1 TTTTATAATT
*
10014314 TTTTATGA-T
1 TTTTATAATT
10014323 TTTTATAATCT
1 TTTTATAAT-T
*
10014334 TTTTCTAATT
1 TTTTATAATT
*
10014344 TTTAATAA
1 TTTTATAA
10014352 AATTAAATAT
Statistics
Matches: 31, Mismatches: 5, Indels: 4
0.77 0.12 0.10
Matches are distributed among these distances:
9 8 0.26
10 14 0.45
11 9 0.29
ACGTcount: A:0.29, C:0.04, G:0.02, T:0.65
Consensus pattern (10 bp):
TTTTATAATT
Found at i:10014326 original size:19 final size:20
Alignment explanation
Indices: 10014304--10014347 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
10014294 TTTCTATATA
*
10014304 TTTTATAAT-TTTTTATGAT
1 TTTTATAATCTTTTTATAAT
*
10014323 TTTTATAATCTTTTTCTAAT
1 TTTTATAATCTTTTTATAAT
10014343 TTTTA
1 TTTTA
10014348 ATAAAATTAA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 9 0.41
20 13 0.59
ACGTcount: A:0.25, C:0.05, G:0.02, T:0.68
Consensus pattern (20 bp):
TTTTATAATCTTTTTATAAT
Found at i:10014389 original size:29 final size:30
Alignment explanation
Indices: 10014342--10014408 Score: 77
Period size: 30 Copynumber: 2.3 Consensus size: 30
10014332 CTTTTTCTAA
* *
10014342 TTTTTAATAAAATTAAAT-ATTTCTTATA-T
1 TTTTTATTAAAATTAAATAATTT-TTATAGC
10014371 TTTTTATTAAAAATT-AATAATTTTTATAGC
1 TTTTTATT-AAAATTAAATAATTTTTATAGC
10014401 TTTTTATT
1 TTTTTATT
10014409 TGTATCAGTT
Statistics
Matches: 33, Mismatches: 2, Indels: 5
0.82 0.05 0.12
Matches are distributed among these distances:
29 15 0.45
30 18 0.55
ACGTcount: A:0.37, C:0.03, G:0.01, T:0.58
Consensus pattern (30 bp):
TTTTTATTAAAATTAAATAATTTTTATAGC
Found at i:10027792 original size:17 final size:17
Alignment explanation
Indices: 10027770--10027825 Score: 62
Period size: 17 Copynumber: 3.4 Consensus size: 17
10027760 TTTAAATCCG
10027770 AATTGACTTGAACCTAA
1 AATTGACTTGAACCTAA
10027787 AATTGA-TCT-AACCTAA
1 AATTGACT-TGAACCTAA
* * *
10027803 AATTTACTTGATCCCAA
1 AATTGACTTGAACCTAA
10027820 AATTGA
1 AATTGA
10027826 GAGAAAAAAC
Statistics
Matches: 32, Mismatches: 4, Indels: 6
0.76 0.10 0.14
Matches are distributed among these distances:
16 14 0.44
17 18 0.56
ACGTcount: A:0.41, C:0.18, G:0.09, T:0.32
Consensus pattern (17 bp):
AATTGACTTGAACCTAA
Found at i:10029387 original size:99 final size:100
Alignment explanation
Indices: 10029257--10029444 Score: 245
Period size: 99 Copynumber: 1.9 Consensus size: 100
10029247 ACCGATTGTA
* * * * * *
10029257 ATGTTAGAATATTGTTTTTTTAATCGATTATTTTTATGTTTAAAT-TGATTGTCATGTTAGAATA
1 ATGTTAGAATACTGATTTTTTAATCGATTATTTATATATTTAAATCT-ATTGTCATATTAAAATA
*
10029321 CTGCTTCTTTTGAATTGATTGTTTAAATCGATTATT
65 CTGCTTCTTTTAAATTGATTGTTTAAATCGATTATT
* * *
10029357 ATGTTAGAATACT-ATTTTTTAATCGATTATTTATATATTTATATCTATTGTTATATTAAAATAT
1 ATGTTAGAATACTGATTTTTTAATCGATTATTTATATATTTAAATCTATTGTCATATTAAAATAC
**
10029421 TTTTTCTTTTAAATTGATTGTTTA
66 TGCTTCTTTTAAATTGATTGTTTA
10029445 TTATGTAGTA
Statistics
Matches: 75, Mismatches: 12, Indels: 3
0.83 0.13 0.03
Matches are distributed among these distances:
99 62 0.83
100 13 0.17
ACGTcount: A:0.29, C:0.05, G:0.11, T:0.55
Consensus pattern (100 bp):
ATGTTAGAATACTGATTTTTTAATCGATTATTTATATATTTAAATCTATTGTCATATTAAAATAC
TGCTTCTTTTAAATTGATTGTTTAAATCGATTATT
Found at i:10030177 original size:30 final size:29
Alignment explanation
Indices: 10030134--10030217 Score: 73
Period size: 30 Copynumber: 2.7 Consensus size: 29
10030124 AAAATTTAAA
*
10030134 TTAATAATGATAAAATTATACTTTAATTTC-T
1 TTAA-AATTATAAAATTATACTTTAA--TCAT
*
10030165 TTAAAATTATAAAAATT-TAATTTAATCAT
1 TTAAAATTAT-AAAATTATACTTTAATCAT
10030194 TTAAAAATTATAAAGATATATACT
1 TT-AAAATTATAAA-AT-TATACT
10030218 ATATAAAAAA
Statistics
Matches: 44, Mismatches: 3, Indels: 11
0.76 0.05 0.19
Matches are distributed among these distances:
28 2 0.05
29 6 0.14
30 22 0.50
31 11 0.25
32 3 0.07
ACGTcount: A:0.49, C:0.05, G:0.02, T:0.44
Consensus pattern (29 bp):
TTAAAATTATAAAATTATACTTTAATCAT
Found at i:10031072 original size:17 final size:14
Alignment explanation
Indices: 10031031--10031085 Score: 56
Period size: 16 Copynumber: 3.6 Consensus size: 14
10031021 AAGATAATGG
10031031 AAAATAAAGAGAGAAA
1 AAAATAAA-AGA-AAA
*
10031047 AAAAGAAAAGTTAAAA
1 AAAATAAAAG--AAAA
10031063 AAACATAAAAGAAAA
1 AAA-ATAAAAGAAAA
10031078 AAAATAAA
1 AAAATAAA
10031086 TTGCTCAAAA
Statistics
Matches: 34, Mismatches: 2, Indels: 8
0.77 0.05 0.18
Matches are distributed among these distances:
14 5 0.15
15 9 0.26
16 13 0.38
17 7 0.21
ACGTcount: A:0.78, C:0.02, G:0.11, T:0.09
Consensus pattern (14 bp):
AAAATAAAAGAAAA
Found at i:10049955 original size:31 final size:33
Alignment explanation
Indices: 10049918--10049983 Score: 82
Period size: 33 Copynumber: 2.1 Consensus size: 33
10049908 AAAGGAAAAG
* * *
10049918 TATTTTTTTAA-TT-TTATAATATTTAATATTT
1 TATTTTTATAACTTCTTACAATATTTAATAATT
*
10049949 TATTTTTATAACTTCTTACAATTTTTAATAATT
1 TATTTTTATAACTTCTTACAATATTTAATAATT
10049982 TA
1 TA
10049984 AGAAAAAATT
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
31 10 0.34
32 2 0.07
33 17 0.59
ACGTcount: A:0.33, C:0.05, G:0.00, T:0.62
Consensus pattern (33 bp):
TATTTTTATAACTTCTTACAATATTTAATAATT
Found at i:10050315 original size:18 final size:18
Alignment explanation
Indices: 10050280--10050390 Score: 64
Period size: 18 Copynumber: 5.8 Consensus size: 18
10050270 TTTTTGTAAC
* *
10050280 TTTTTAATAATATTTAATG
1 TTTTT-ATAATTTTTAATA
10050299 TGTTTTA-AATTTTTAATA
1 T-TTTTATAATTTTTAATA
*
10050317 TTTTTATAATTTTTTATTA
1 TTTTTATAA-TTTTTAATA
* ** *
10050336 TGTCAATAAATTTTATATAA
1 TTTTTATAATTTTTA-AT-A
10050356 TTTTCTATAACTTTTT-ATAA
1 TTTT-TATAA-TTTTTAAT-A
*
10050376 TTTTTGTAATTTTTA
1 TTTTTATAATTTTTA
10050391 TAATCATTCA
Statistics
Matches: 71, Mismatches: 13, Indels: 16
0.71 0.13 0.16
Matches are distributed among these distances:
17 5 0.07
18 22 0.31
19 21 0.30
20 15 0.21
21 4 0.06
22 4 0.06
ACGTcount: A:0.32, C:0.03, G:0.04, T:0.61
Consensus pattern (18 bp):
TTTTTATAATTTTTAATA
Found at i:10050435 original size:10 final size:9
Alignment explanation
Indices: 10050261--10050433 Score: 84
Period size: 10 Copynumber: 18.0 Consensus size: 9
10050251 ATTAACAAAA
10050261 TTTTATATAT
1 TTTTATA-AT
*
10050271 TTTTGTAACT
1 TTTTATAA-T
10050281 TTTTAATAAT
1 TTTT-ATAAT
* *
10050291 ATTTA-ATGT
1 TTTTATA-AT
10050300 GTTTTA-AAT
1 -TTTTATAAT
10050309 TTTTA-ATAT
1 TTTTATA-AT
10050318 TTTTATAATT
1 TTTTATAA-T
*
10050328 TTTTATTAT
1 TTTTATAAT
* **
10050337 GTCAATAAAT
1 TTTTAT-AAT
10050347 TTTATATAAT
1 TTT-TATAAT
10050357 TTTCTATAACT
1 TTT-TATAA-T
10050368 TTTTATAAT
1 TTTTATAAT
*
10050377 TTTTGTAAT
1 TTTTATAAT
10050386 TTTTATAAT
1 TTTTATAAT
* *
10050395 CATTCAT-AT
1 -TTTTATAAT
10050404 TTTTATAAT
1 TTTTATAAT
*
10050413 ATATTGATAAT
1 -T-TTTATAAT
10050424 ATTTTATAAT
1 -TTTTATAAT
10050434 ATCTAATACA
Statistics
Matches: 126, Mismatches: 23, Indels: 28
0.71 0.13 0.16
Matches are distributed among these distances:
8 11 0.09
9 37 0.29
10 60 0.48
11 18 0.14
ACGTcount: A:0.34, C:0.03, G:0.03, T:0.60
Consensus pattern (9 bp):
TTTTATAAT
Found at i:10050435 original size:21 final size:19
Alignment explanation
Indices: 10050344--10050433 Score: 78
Period size: 18 Copynumber: 4.6 Consensus size: 19
10050334 TATGTCAATA
*
10050344 AATTTTATATAATT-TTCTAT
1 AATTTT-TATAATTATT-GAT
*
10050364 AACTTTTTATAATTTTTG-T
1 AA-TTTTTATAATTATTGAT
* *
10050383 AATTTTTATAATCATTCAT
1 AATTTTTATAATTATTGAT
10050402 -ATTTTTATAATATATTGAT
1 AATTTTTATAAT-TATTGAT
10050421 AATATTTTATAAT
1 AAT-TTTTATAAT
10050434 ATCTAATACA
Statistics
Matches: 58, Mismatches: 6, Indels: 11
0.77 0.08 0.15
Matches are distributed among these distances:
18 23 0.40
19 9 0.16
20 11 0.19
21 15 0.26
ACGTcount: A:0.36, C:0.04, G:0.02, T:0.58
Consensus pattern (19 bp):
AATTTTTATAATTATTGAT
Found at i:10064625 original size:37 final size:35
Alignment explanation
Indices: 10064584--10064677 Score: 100
Period size: 36 Copynumber: 2.5 Consensus size: 35
10064574 TATATGTGTA
*
10064584 GAATTGAATTGAATAT-TGACTTGAAAAATGGAAAAGT
1 GAATTGAATTGAAT-TGTGA-TTG-AAAATGAAAAAGT
*
10064621 GAATTTTGAATTGAATTGTGATTGAAAGTGAAAAAGT
1 GAA--TTGAATTGAATTGTGATTGAAAATGAAAAAGT
*
10064658 GAAATTGAATTGAAATGTGA
1 G-AATTGAATTGAATTGTGA
10064678 ATTTGGAGAC
Statistics
Matches: 50, Mismatches: 3, Indels: 9
0.81 0.05 0.15
Matches are distributed among these distances:
36 15 0.30
37 15 0.30
38 6 0.12
39 14 0.28
ACGTcount: A:0.44, C:0.01, G:0.23, T:0.32
Consensus pattern (35 bp):
GAATTGAATTGAATTGTGATTGAAAATGAAAAAGT
Found at i:10069594 original size:37 final size:37
Alignment explanation
Indices: 10069553--10069623 Score: 106
Period size: 37 Copynumber: 1.9 Consensus size: 37
10069543 TTTAAATAAC
10069553 AAGTATATGGTTACTTGATAAGTGAACGAAAATGAAT
1 AAGTATATGGTTACTTGATAAGTGAACGAAAATGAAT
** * *
10069590 AAGTATATGGTTTTTTGATATGTGTACGAAAATG
1 AAGTATATGGTTACTTGATAAGTGAACGAAAATG
10069624 TTAAAAAGAA
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
37 30 1.00
ACGTcount: A:0.38, C:0.04, G:0.23, T:0.35
Consensus pattern (37 bp):
AAGTATATGGTTACTTGATAAGTGAACGAAAATGAAT
Found at i:10070674 original size:26 final size:23
Alignment explanation
Indices: 10070620--10070664 Score: 74
Period size: 23 Copynumber: 2.0 Consensus size: 23
10070610 AGTTATTTTG
10070620 GATGTTGATGATCTTGGTATAAC
1 GATGTTGATGATCTTGGTATAAC
10070643 GATGTTGATGATC-TGGATATAA
1 GATGTTGATGATCTTGG-TATAA
10070665 GTGTAATGTT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
22 3 0.14
23 18 0.86
ACGTcount: A:0.29, C:0.07, G:0.27, T:0.38
Consensus pattern (23 bp):
GATGTTGATGATCTTGGTATAAC
Found at i:10072412 original size:51 final size:51
Alignment explanation
Indices: 10072265--10072401 Score: 175
Period size: 51 Copynumber: 2.7 Consensus size: 51
10072255 CTACCATCAA
* * *
10072265 ATCTCTAAGAATATAATATCATATCTTCTAAGATTCCATATCTTAGATAAG
1 ATCTCTAAGATTATAATATCATATCTTCTAAGATTCCATATCATATATAAG
* * ** * * * *
10072316 ATATGTAATCTTATAAAATAATATCTTATAAGATTCCATATCATATCTAAG
1 ATCTCTAAGATTATAATATCATATCTTCTAAGATTCCATATCATATATAAG
10072367 ATCTCTAAGATTATAATATCATATCTTCTAAGATT
1 ATCTCTAAGATTATAATATCATATCTTCTAAGATT
10072402 AGTTACCATA
Statistics
Matches: 68, Mismatches: 18, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
51 68 1.00
ACGTcount: A:0.40, C:0.14, G:0.07, T:0.39
Consensus pattern (51 bp):
ATCTCTAAGATTATAATATCATATCTTCTAAGATTCCATATCATATATAAG
Found at i:10073478 original size:96 final size:96
Alignment explanation
Indices: 10073288--10073481 Score: 280
Period size: 96 Copynumber: 2.0 Consensus size: 96
10073278 TCGCTTCTCT
* *
10073288 TTGCTCCTCTTAGCCCTCTTGGCTTCGGCTTTACCCTTGCTCGAACCAAGCTTTTTGGGCTCCTT
1 TTGCTCCTCTTAGCCCTCTTGGCTTCGGCTTTACCCTTGCTCGAACCAAGCTTCTTGGGCTCCGT
* * * * * *
10073353 GTCTGCTCCATCGTTTCCTTTGATGACAGAC
66 ATCTGCTCCATCATTCCCATCGATAACAGAC
* * *
10073384 TTGCTCCTCTTTGCCCTCTTGGCTTCGGCTTTTCCTTTGCTCGAACCAAGCTTCTTGGGCTCCGT
1 TTGCTCCTCTTAGCCCTCTTGGCTTCGGCTTTACCCTTGCTCGAACCAAGCTTCTTGGGCTCCGT
*
10073449 ATCTGCTCGATCATTCCCATCGATAACAGAC
66 ATCTGCTCCATCATTCCCATCGATAACAGAC
10073480 TT
1 TT
10073482 CCTCGGACAC
Statistics
Matches: 86, Mismatches: 12, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
96 86 1.00
ACGTcount: A:0.12, C:0.32, G:0.18, T:0.37
Consensus pattern (96 bp):
TTGCTCCTCTTAGCCCTCTTGGCTTCGGCTTTACCCTTGCTCGAACCAAGCTTCTTGGGCTCCGT
ATCTGCTCCATCATTCCCATCGATAACAGAC
Found at i:10075279 original size:51 final size:51
Alignment explanation
Indices: 10075163--10075299 Score: 166
Period size: 51 Copynumber: 2.7 Consensus size: 51
10075153 CTACCATCAA
* *
10075163 ATCTCTAAGAATATAATATCATATCTTCTAAGATTCCATATCTTAGATAAG
1 ATCTCTAAGATTATAATATCATATCTTCTAAGATTCCATATCATAGATAAG
* * ** * * * **
10075214 ATATGTAATCTTATAAAATAATATCTTATAAGATTCCATATCATATCTAAG
1 ATCTCTAAGATTATAATATCATATCTTCTAAGATTCCATATCATAGATAAG
*
10075265 ATCTCTAAGATTATAATACCATATCTTCTAAGATT
1 ATCTCTAAGATTATAATATCATATCTTCTAAGATT
10075300 AGTTACCATA
Statistics
Matches: 67, Mismatches: 19, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
51 67 1.00
ACGTcount: A:0.40, C:0.15, G:0.07, T:0.39
Consensus pattern (51 bp):
ATCTCTAAGATTATAATATCATATCTTCTAAGATTCCATATCATAGATAAG
Found at i:10075306 original size:22 final size:22
Alignment explanation
Indices: 10075268--10075310 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 22
10075258 ATCTAAGATC
10075268 TCTAAGATTATAATACCATATCT
1 TCTAAGATTAT-ATACCATATCT
10075291 TCTAAGATTAGT-TACCATAT
1 TCTAAGATTA-TATACCATAT
10075311 TAGCCTAAGT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
22 8 0.42
23 10 0.53
24 1 0.05
ACGTcount: A:0.37, C:0.16, G:0.07, T:0.40
Consensus pattern (22 bp):
TCTAAGATTATATACCATATCT
Found at i:10076354 original size:20 final size:21
Alignment explanation
Indices: 10076314--10076354 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
10076304 AAAATTAATA
*
10076314 ATTAAAATGACATGTTTATAT
1 ATTAAAATGACATGATTATAT
*
10076335 ATTAAAATTACA-GATTATAT
1 ATTAAAATGACATGATTATAT
10076355 CTATATATAT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 7 0.39
21 11 0.61
ACGTcount: A:0.46, C:0.05, G:0.07, T:0.41
Consensus pattern (21 bp):
ATTAAAATGACATGATTATAT
Found at i:10078642 original size:10 final size:11
Alignment explanation
Indices: 10078620--10078657 Score: 51
Period size: 10 Copynumber: 3.5 Consensus size: 11
10078610 ACCTCAGTGT
10078620 AGAACAGAAAAA
1 AGAACA-AAAAA
10078632 AGAACAAAAAA
1 AGAACAAAAAA
*
10078643 AGAA-AAAAAG
1 AGAACAAAAAA
10078653 AGAAC
1 AGAAC
10078658 GTATATGTAT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
10 9 0.38
11 9 0.38
12 6 0.25
ACGTcount: A:0.76, C:0.08, G:0.16, T:0.00
Consensus pattern (11 bp):
AGAACAAAAAA
Found at i:10100457 original size:7 final size:7
Alignment explanation
Indices: 10100445--10100491 Score: 94
Period size: 7 Copynumber: 6.7 Consensus size: 7
10100435 CAAATATACA
10100445 TAAAAAT
1 TAAAAAT
10100452 TAAAAAT
1 TAAAAAT
10100459 TAAAAAT
1 TAAAAAT
10100466 TAAAAAT
1 TAAAAAT
10100473 TAAAAAT
1 TAAAAAT
10100480 TAAAAAT
1 TAAAAAT
10100487 TAAAA
1 TAAAA
10100492 TATACCCACT
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 40 1.00
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (7 bp):
TAAAAAT
Found at i:10101238 original size:26 final size:23
Alignment explanation
Indices: 10101209--10101276 Score: 59
Period size: 21 Copynumber: 2.9 Consensus size: 23
10101199 TATATTTATC
*
10101209 AAATATATATTATCTTTTATAAAATT
1 AAATAAATATTAT-TTTT-T-AAATT
*
10101235 AAATAAATTTTATTTTTTAAATT
1 AAATAAATATTATTTTTTAAATT
* *
10101258 -AATGAA-ATTATTTTATAAA
1 AAATAAATATTATTTTTTAAA
10101277 ACATTTCATC
Statistics
Matches: 37, Mismatches: 5, Indels: 5
0.79 0.11 0.11
Matches are distributed among these distances:
21 11 0.30
22 5 0.14
23 5 0.14
24 1 0.03
25 4 0.11
26 11 0.30
ACGTcount: A:0.47, C:0.01, G:0.01, T:0.50
Consensus pattern (23 bp):
AAATAAATATTATTTTTTAAATT
Found at i:10101255 original size:24 final size:25
Alignment explanation
Indices: 10101209--10101259 Score: 61
Period size: 26 Copynumber: 2.1 Consensus size: 25
10101199 TATATTTATC
*
10101209 AAATATATATTATCTTTTATAAAATT
1 AAATAAATATTATCTTTTAT-AAATT
*
10101235 AAATAAATTTTAT-TTTT-TAAATT
1 AAATAAATATTATCTTTTATAAATT
10101258 AA
1 AA
10101260 TGAAATTATT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
23 7 0.30
24 1 0.04
25 4 0.17
26 11 0.48
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.51
Consensus pattern (25 bp):
AAATAAATATTATCTTTTATAAATT
Found at i:10128315 original size:7 final size:7
Alignment explanation
Indices: 10128303--10128351 Score: 98
Period size: 7 Copynumber: 7.0 Consensus size: 7
10128293 CAAATATACA
10128303 TAAAAAT
1 TAAAAAT
10128310 TAAAAAT
1 TAAAAAT
10128317 TAAAAAT
1 TAAAAAT
10128324 TAAAAAT
1 TAAAAAT
10128331 TAAAAAT
1 TAAAAAT
10128338 TAAAAAT
1 TAAAAAT
10128345 TAAAAAT
1 TAAAAAT
10128352 ATACCCACTG
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 42 1.00
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (7 bp):
TAAAAAT
Found at i:10129099 original size:26 final size:24
Alignment explanation
Indices: 10129070--10129139 Score: 72
Period size: 22 Copynumber: 2.9 Consensus size: 24
10129060 TATATTTATC
*
10129070 AAATATATATTATCTTTTATAAAATT
1 AAATAAATATTAT-TTTT-TAAAATT
*
10129096 AAATAAATTTTATTTTTTAAAATT
1 AAATAAATATTATTTTTTAAAATT
* *
10129120 -AATGAA-ATTATTTTATAAAA
1 AAATAAATATTATTTTTTAAAA
10129140 CATTTCATCA
Statistics
Matches: 39, Mismatches: 5, Indels: 4
0.81 0.10 0.08
Matches are distributed among these distances:
22 12 0.31
23 5 0.13
24 7 0.18
25 4 0.10
26 11 0.28
ACGTcount: A:0.49, C:0.01, G:0.01, T:0.49
Consensus pattern (24 bp):
AAATAAATATTATTTTTTAAAATT
Found at i:10129128 original size:24 final size:26
Alignment explanation
Indices: 10129070--10129121 Score: 72
Period size: 26 Copynumber: 2.1 Consensus size: 26
10129060 TATATTTATC
* *
10129070 AAATATATATTATCTTTTATAAAATT
1 AAATAAATTTTATCTTTTATAAAATT
10129096 AAATAAATTTTAT-TTTT-TAAAATT
1 AAATAAATTTTATCTTTTATAAAATT
10129120 AA
1 AA
10129122 TGAAATTATT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
24 9 0.38
25 4 0.17
26 11 0.46
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (26 bp):
AAATAAATTTTATCTTTTATAAAATT
Found at i:10137294 original size:97 final size:99
Alignment explanation
Indices: 10137154--10137375 Score: 281
Period size: 97 Copynumber: 2.2 Consensus size: 99
10137144 AGGGAAAAAA
*
10137154 GAAAAACAA-AAAAAAAA-TTTGGGTGCTGGCTTGTCAATAGCCGGCACCCAGTACAATTTAAAA
1 GAAAAA-AATAAAAAAAATTTTGGGTGCTGGCCTGTCAATAGCCGGCACCCAGTACAATTTAAAA
*
10137217 AAAA-ATTT-GTGTCAGAGTCAGATATCAGTATAC
65 AAAATATTTCGTGTCAGAATCAGATATCAGTATAC
* * *
10137250 GAAAAAAATAAAAAAAATTTTGGGTGTTGGCCTGTTAATGGCCGGCACCCAGTACAATTTAAAAA
1 GAAAAAAATAAAAAAAATTTTGGGTGCTGGCCTGTCAATAGCCGGCACCCAGTACAATTTAAAAA
*
10137315 AAATTCTTTTTTTTTCGTGTCAGAATCAGATATCAGTATAC
66 AAA-------TATTTCGTGTCAGAATCAGATATCAGTATAC
*
10137356 GAAAAAAATTAAAAAAATTT
1 GAAAAAAATAAAAAAAATTT
10137376 AGGTGCTTAA
Statistics
Matches: 108, Mismatches: 7, Indels: 12
0.85 0.06 0.09
Matches are distributed among these distances:
95 2 0.02
96 14 0.13
97 46 0.43
105 3 0.03
106 43 0.40
ACGTcount: A:0.42, C:0.14, G:0.17, T:0.28
Consensus pattern (99 bp):
GAAAAAAATAAAAAAAATTTTGGGTGCTGGCCTGTCAATAGCCGGCACCCAGTACAATTTAAAAA
AAATATTTCGTGTCAGAATCAGATATCAGTATAC
Found at i:10137507 original size:179 final size:170
Alignment explanation
Indices: 10137214--10137552 Score: 536
Period size: 179 Copynumber: 1.9 Consensus size: 170
10137204 GTACAATTTA
* **
10137214 AAAAAAAATTTGTGTCAGAGTCAGATATCAGTATACGAAAAAAATAAAAAAAATTTTGGGTGTTG
1 AAAAAAAATTTGTGTCAGAATCAGATATCAGTATACGAAAAAAATAAAAAAAATTTTGGGTACTG
*
10137279 GCCTGTTAATGGCCGGCACCCAGTACAATTTAAAAAAAATTCTTTTTTTTTCGTGTCAGAATCAG
66 GCCTGTCAATGGCCGGCACCCAGTACAATTTAAAAAAAATTCTTTTTTTTTCGTGTCAGAATCAG
*
10137344 ATATCAGTATACGAAAAAAATTAAAAAAATTTAGGTGCTT
131 ATATCAGTATACGAAAAAAATAAAAAAAATTTAGGTGCTT
10137384 AAAAAAAATTTCGTGTCAGAATCAGATATCAGTATACGAAAAAAATAAAAAAAAATAAAAATTTT
1 AAAAAAAATTT-GTGTCAGAATCAGATATCAGTATACGAAAAAAAT------AAA-AAAAA-TTT
10137449 TGGGTACTGGCCTGTCAATGGCCGGCACCCAGTACAATTTAAAAAAAATT-TCTTTTTTTTCGTG
57 TGGGTACTGGCCTGTCAATGGCCGGCACCCAGTACAATTTAAAAAAAATTCT-TTTTTTTTCGTG
10137513 TCAGAATCAGATATCAGTATACGAAAAAAATAAAAAAAAT
121 TCAGAATCAGATATCAGTATACGAAAAAAATAAAAAAAAT
10137553 AAAAATTTGG
Statistics
Matches: 154, Mismatches: 5, Indels: 11
0.91 0.03 0.06
Matches are distributed among these distances:
170 11 0.07
171 33 0.21
177 3 0.02
178 6 0.04
179 101 0.66
ACGTcount: A:0.44, C:0.12, G:0.15, T:0.29
Consensus pattern (170 bp):
AAAAAAAATTTGTGTCAGAATCAGATATCAGTATACGAAAAAAATAAAAAAAATTTTGGGTACTG
GCCTGTCAATGGCCGGCACCCAGTACAATTTAAAAAAAATTCTTTTTTTTTCGTGTCAGAATCAG
ATATCAGTATACGAAAAAAATAAAAAAAATTTAGGTGCTT
Found at i:10137668 original size:101 final size:106
Alignment explanation
Indices: 10137392--10137759 Score: 525
Period size: 101 Copynumber: 3.4 Consensus size: 106
10137382 TTAAAAAAAA
*
10137392 TTTCGTGTCAGAATCAGATATCAGTATACGAAAAAAATAAAAAAAAATAAAAATTTTTGGGTACT
1 TTTCGTGTCAGAATCAGATATCAGTATACGAAAAAAAT------AAATAAAAA--TTTGGGTGCT
10137457 GGCCTGTCAATGGCCGGCACCCAGTACAATTTAAAAAAAATTTCTTTTT
58 GGCCTGTCAATGGCCGGCACCCAGTACAATTTAAAAAAAATTTCTTTTT
10137506 TTTCGTGTCAGAATCAGATATCAGTATACGAAAAAAATAAAAAAAATAAAAATTTGGGTGCTGGC
1 TTTCGTGTCAGAATCAGATATCAGTATACGAAAAAAAT-----AAATAAAAATTTGGGTGCTGGC
* * *
10137571 CTGTCAATGGCCAGCACCCAGTACAAATT-AAAAAAATATT-ATTTT
61 CTGTCAATGGCCGGCACCCAGTACAATTTAAAAAAAAT-TTCTTTTT
10137616 TTTCGTGTCAGAATCAGATATCAGTATACG-AAAAAATAAA-AAAAA-TT-GGTGCTGGCCTGTC
1 TTTCGTGTCAGAATCAGATATCAGTATACGAAAAAAATAAATAAAAATTTGGGTGCTGGCCTGTC
10137677 AATGGCCGGCACCCAGTAC-ATTTAAAAAAAATTTCTTTTT
66 AATGGCCGGCACCCAGTACAATTTAAAAAAAATTTCTTTTT
10137717 TTTCGTGTCAGAATCAGATATCAGTATACGAAAAAAATAAATA
1 TTTCGTGTCAGAATCAGATATCAGTATACGAAAAAAATAAATA
10137760 TAATTATATA
Statistics
Matches: 242, Mismatches: 7, Indels: 21
0.90 0.03 0.08
Matches are distributed among these distances:
100 5 0.02
101 74 0.31
102 12 0.05
103 6 0.02
104 3 0.01
109 7 0.03
110 42 0.17
111 41 0.17
113 14 0.06
114 38 0.16
ACGTcount: A:0.41, C:0.15, G:0.15, T:0.29
Consensus pattern (106 bp):
TTTCGTGTCAGAATCAGATATCAGTATACGAAAAAAATAAATAAAAATTTGGGTGCTGGCCTGTC
AATGGCCGGCACCCAGTACAATTTAAAAAAAATTTCTTTTT
Found at i:10140950 original size:52 final size:48
Alignment explanation
Indices: 10140931--10141133 Score: 265
Period size: 46 Copynumber: 4.3 Consensus size: 48
10140921 TGACAAGTGG
* *
10140931 AAAGTGATAAGTAATAGCTTCGGCTATACTTATCTGATCAAGTGAC--
1 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAA
10140977 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTGA
1 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGAC-A---A
* *
10141029 AAAGTGATAAGTGATAGCTTCGGCTATACTTATCTGATCAAGAGAC--
1 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAA
** *
10141075 AAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGAGAC--
1 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAA
10141121 AAAGTGATAAGTG
1 AAAGTGATAAGTG
10141134 GCTACACTTA
Statistics
Matches: 144, Mismatches: 7, Indels: 12
0.88 0.04 0.07
Matches are distributed among these distances:
46 100 0.69
52 44 0.31
ACGTcount: A:0.36, C:0.14, G:0.22, T:0.28
Consensus pattern (48 bp):
AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAA
Found at i:10140985 original size:98 final size:98
Alignment explanation
Indices: 10140865--10141133 Score: 457
Period size: 98 Copynumber: 2.7 Consensus size: 98
10140855 TTTGAGTACT
*
10140865 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTG
1 TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTG
*
10140930 GAAAGTGATAAGTAATAGCTTCGGCTATACTTA
66 AAAAGTGATAAGTAATAGCTTCGGCTATACTTA
**
10140963 TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTG
1 TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTG
*
10141028 AAAAGTGATAAGTGATAGCTTCGGCTATACTTA
66 AAAAGTGATAAGTAATAGCTTCGGCTATACTTA
* *
10141061 TCTGATCAAGAGACAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGAGACAAAGT
1 TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGTGAC-AAGT
*
10141126 GATAAGTG
65 GAAAAGTG
10141134 GCTACACTTA
Statistics
Matches: 160, Mismatches: 10, Indels: 1
0.94 0.06 0.01
Matches are distributed among these distances:
98 149 0.93
99 11 0.07
ACGTcount: A:0.35, C:0.14, G:0.22, T:0.28
Consensus pattern (98 bp):
TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTG
AAAAGTGATAAGTAATAGCTTCGGCTATACTTA
Found at i:10141141 original size:37 final size:37
Alignment explanation
Indices: 10141097--10141237 Score: 197
Period size: 37 Copynumber: 4.0 Consensus size: 37
10141087 GATAGCTTTA
*
10141097 GCTACACTTATCTGATCAAGAGACAAAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
10141134 GCTACACTTATCTGATCAAGAAACAAA-TGATAA---
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
*
10141167 -CTACACTTATCTGATCAAGAAACAAAGTGATAGGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
**
10141203 GCTACACTTATCTGATC-AGGGAC-AAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
10141238 ATCATACGTA
Statistics
Matches: 94, Mismatches: 5, Indels: 12
0.85 0.05 0.11
Matches are distributed among these distances:
32 26 0.28
33 5 0.05
35 11 0.12
36 10 0.11
37 42 0.45
ACGTcount: A:0.38, C:0.17, G:0.20, T:0.25
Consensus pattern (37 bp):
GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
Found at i:10143231 original size:37 final size:37
Alignment explanation
Indices: 10143174--10143360 Score: 243
Period size: 37 Copynumber: 4.9 Consensus size: 37
10143164 TATGATCACT
*
10143174 TATCAC-TTGTC-CCTGATCAGATAAGTGTAGCCACC
1 TATCACTTTGTCTCTTGATCAGATAAGTGTAGCCACC
* *
10143209 TATCACTTTGTTTCTTGATCAGATAAGTGTAGCCACT
1 TATCACTTTGTCTCTTGATCAGATAAGTGTAGCCACC
* *
10143246 TATCACTTTGTTTCTTGATCAGATAAGTGTAGCCACT
1 TATCACTTTGTCTCTTGATCAGATAAGTGTAGCCACC
10143283 TATCACTTTGTCTCTTGATCAGATAAGTGTAGCAAGCTATCAC
1 TATCACTTTGTCTCTTGATCAGATAAGTGTAGC---C-A-C-C
*
10143326 TTATCACTTTGTCTCTTGATCAGATAAGTATAGCC
1 -TATCACTTTGTCTCTTGATCAGATAAGTGTAGCC
10143361 GAAGCTATCA
Statistics
Matches: 137, Mismatches: 6, Indels: 12
0.88 0.04 0.08
Matches are distributed among these distances:
35 6 0.04
36 4 0.03
37 91 0.66
40 1 0.01
41 2 0.01
42 1 0.01
44 32 0.23
ACGTcount: A:0.26, C:0.21, G:0.16, T:0.37
Consensus pattern (37 bp):
TATCACTTTGTCTCTTGATCAGATAAGTGTAGCCACC
Found at i:10143400 original size:52 final size:52
Alignment explanation
Indices: 10143320--10143539 Score: 299
Period size: 52 Copynumber: 4.3 Consensus size: 52
10143310 TGTAGCAAGC
* *
10143320 TATCACTTATCACTTTGTCTCTTGATCAGATAAGTATAGCCGAAGCTATCACT
1 TATCACTTTTCAC-TTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
*
10143373 TATCACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTATCACT
1 TATCACTTTTCACTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
*
10143425 TATCAC---T---TTGTCACTTGATCAGATAAGTATAGCCGAAGCTATTACT
1 TATCACTTTTCACTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
* * ** *
10143471 TATCACTTTCCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACT
1 TATCACTTTTCACTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
10143523 TATCACTTTGTCACTTG
1 TATCACTTT-TCACTTG
10143540 ATCAGAAGTA
Statistics
Matches: 148, Mismatches: 12, Indels: 14
0.85 0.07 0.08
Matches are distributed among these distances:
46 43 0.29
49 1 0.01
52 86 0.58
53 18 0.12
ACGTcount: A:0.28, C:0.23, G:0.14, T:0.35
Consensus pattern (52 bp):
TATCACTTTTCACTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
Found at i:10143445 original size:46 final size:46
Alignment explanation
Indices: 10143373--10143545 Score: 231
Period size: 46 Copynumber: 3.7 Consensus size: 46
10143363 AGCTATCACT
*
10143373 TATCACTTTTCAC-TTGTCACTTGATCAGATAAGTGTAGCCGAAGC
1 TATCACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCCGAAGC
*
10143418 TATCACTTATCACTTTGTCACTTGATCAGATAAGTATAGCCGAAGC
1 TATCACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCCGAAGC
* **
10143464 TATTACTTATCACTTTCCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGC
1 TATCACTTATCAC--T----TTGTCACTTGATCAGATAAGTGTAGCCGAAGC
*
10143516 TACCACTTATCACTTTGTCACTTGATCAGA
1 TATCACTTATCACTTTGTCACTTGATCAGA
10143546 AGTACTCAAA
Statistics
Matches: 113, Mismatches: 8, Indels: 13
0.84 0.06 0.10
Matches are distributed among these distances:
45 12 0.11
46 59 0.52
48 1 0.01
50 1 0.01
52 40 0.35
ACGTcount: A:0.28, C:0.23, G:0.14, T:0.35
Consensus pattern (46 bp):
TATCACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCCGAAGC
Found at i:10143447 original size:98 final size:97
Alignment explanation
Indices: 10143279--10143545 Score: 437
Period size: 98 Copynumber: 2.7 Consensus size: 97
10143269 TAAGTGTAGC
* * *
10143279 CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAG-CAAGCTATCACTTATCACTTTGTCTCTT
1 CACTTTTCAC-TTGTCACTTGATCAGATAAGTGTAGCCAAGCTATCACTTATCACTTTGTCACTT
10143343 GATCAGATAAGTATAGCCGAAGCTATCACTTAT
65 GATCAGATAAGTATAGCCGAAGCTATCACTTAT
10143376 CACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTATCACTTATCACTTTGTCACTT
1 CACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCC-AAGCTATCACTTATCACTTTGTCACTT
*
10143441 GATCAGATAAGTATAGCCGAAGCTATTACTTAT
65 GATCAGATAAGTATAGCCGAAGCTATCACTTAT
* * *
10143474 CACTTTCCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTGTCACTT
1 CACTTTTCACTTGTCACTTGATCAGATAAGTGTAGC-CAAGCTATCACTTATCACTTTGTCACTT
10143539 GATCAGA
65 GATCAGA
10143546 AGTACTCAAA
Statistics
Matches: 160, Mismatches: 7, Indels: 5
0.93 0.04 0.03
Matches are distributed among these distances:
96 24 0.15
97 10 0.06
98 126 0.79
ACGTcount: A:0.28, C:0.22, G:0.15, T:0.35
Consensus pattern (97 bp):
CACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCAAGCTATCACTTATCACTTTGTCACTTG
ATCAGATAAGTATAGCCGAAGCTATCACTTAT
Found at i:10145975 original size:24 final size:23
Alignment explanation
Indices: 10145940--10145984 Score: 63
Period size: 24 Copynumber: 1.9 Consensus size: 23
10145930 AGTCGCGACT
* *
10145940 TTAAATTTTTATGTTAATATTTTC
1 TTAAATTATTATG-AAATATTTTC
10145964 TTAAATTATTATGAAATATTT
1 TTAAATTATTATGAAATATTT
10145985 CTTTATTTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
23 7 0.37
24 12 0.63
ACGTcount: A:0.36, C:0.02, G:0.04, T:0.58
Consensus pattern (23 bp):
TTAAATTATTATGAAATATTTTC
Done.