Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A07
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: 93829987
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 4250000 characters in sequence are not A, C, G, or T
File 107 of 295
Found at i:31978587 original size:25 final size:25
Alignment explanation
Indices: 31978559--31978613 Score: 67
Period size: 26 Copynumber: 2.2 Consensus size: 25
31978549 TAGAGTTAGG
31978559 AGTTGATT-TGGCAAAAGCTTTCTGA
1 AGTT-ATTATGGCAAAAGCTTTCTGA
* *
31978584 AGTTCTTCATTGCAAAAGCTTTCTGA
1 AGTTATT-ATGGCAAAAGCTTTCTGA
31978610 AGTT
1 AGTT
31978614 CTTCATTCAT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
24 2 0.08
25 4 0.15
26 20 0.77
ACGTcount: A:0.27, C:0.15, G:0.20, T:0.38
Consensus pattern (25 bp):
AGTTATTATGGCAAAAGCTTTCTGA
Found at i:31978598 original size:26 final size:26
Alignment explanation
Indices: 31978569--31978620 Score: 104
Period size: 26 Copynumber: 2.0 Consensus size: 26
31978559 AGTTGATTTG
31978569 GCAAAAGCTTTCTGAAGTTCTTCATT
1 GCAAAAGCTTTCTGAAGTTCTTCATT
31978595 GCAAAAGCTTTCTGAAGTTCTTCATT
1 GCAAAAGCTTTCTGAAGTTCTTCATT
31978621 CATTATCTTG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.27, C:0.19, G:0.15, T:0.38
Consensus pattern (26 bp):
GCAAAAGCTTTCTGAAGTTCTTCATT
Found at i:31985533 original size:29 final size:29
Alignment explanation
Indices: 31985496--31985596 Score: 123
Period size: 29 Copynumber: 3.5 Consensus size: 29
31985486 CACTAAACCT
* *
31985496 AATCTCATTCATATGGACCGTTAGGCCCA
1 AATCACATTCATATGGACCATTAGGCCCA
*
31985525 AATCACATTCGTAT-GACCCATTAGGCCCA
1 AATCACATTCATATGGA-CCATTAGGCCCA
* * *
31985554 AATTACATTCATACGGCCCATTAGGCCCA
1 AATCACATTCATATGGACCATTAGGCCCA
*
31985583 AATCACAATCATAT
1 AATCACATTCATAT
31985597 ACATGCTTTC
Statistics
Matches: 60, Mismatches: 10, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
28 2 0.03
29 57 0.95
30 1 0.02
ACGTcount: A:0.33, C:0.29, G:0.13, T:0.26
Consensus pattern (29 bp):
AATCACATTCATATGGACCATTAGGCCCA
Found at i:31985676 original size:17 final size:18
Alignment explanation
Indices: 31985654--31985687 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
31985644 TGCCTATTAT
31985654 GAGCCCA-ATAGCCCATC
1 GAGCCCACATAGCCCATC
*
31985671 GAGCCCACTTAGCCCAT
1 GAGCCCACATAGCCCAT
31985688 TCTATCCCGG
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 7 0.47
18 8 0.53
ACGTcount: A:0.26, C:0.41, G:0.18, T:0.15
Consensus pattern (18 bp):
GAGCCCACATAGCCCATC
Found at i:31985865 original size:24 final size:24
Alignment explanation
Indices: 31985815--31985865 Score: 57
Period size: 24 Copynumber: 2.1 Consensus size: 24
31985805 ACTTTCACCT
* * *
31985815 TTTCAGCATTTTGGCTTTTCGGTA
1 TTTCAGCATTTTGGCATTTCAGAA
* *
31985839 TTTCAGCTTTTTGTCATTTCAGAA
1 TTTCAGCATTTTGGCATTTCAGAA
31985863 TTT
1 TTT
31985866 ACCGATCTAC
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.16, C:0.16, G:0.16, T:0.53
Consensus pattern (24 bp):
TTTCAGCATTTTGGCATTTCAGAA
Found at i:31990200 original size:19 final size:19
Alignment explanation
Indices: 31990165--31990202 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
31990155 TTGCAATTTA
*
31990165 AATTTTTATTTTCTTTTCT
1 AATTTTTATTTTATTTTCT
31990184 AATTTTTCA-TTTATTTTCT
1 AATTTTT-ATTTTATTTTCT
31990203 TCTGACAGGT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 16 0.94
20 1 0.06
ACGTcount: A:0.18, C:0.11, G:0.00, T:0.71
Consensus pattern (19 bp):
AATTTTTATTTTATTTTCT
Found at i:31992655 original size:31 final size:31
Alignment explanation
Indices: 31992608--31992677 Score: 97
Period size: 31 Copynumber: 2.3 Consensus size: 31
31992598 ATACTGGGCT
*
31992608 GAAGCC-TTTCATAATTCATAACACTAGGCC
1 GAAGCCTTTTCAAAATTCATAACACTAGGCC
* * *
31992638 GAAGCCTTTTCAAAATTCATATCACTGGGTC
1 GAAGCCTTTTCAAAATTCATAACACTAGGCC
31992669 GAAGCCTTT
1 GAAGCCTTT
31992678 ATTGTAAGCG
Statistics
Matches: 35, Mismatches: 4, Indels: 1
0.88 0.10 0.03
Matches are distributed among these distances:
30 6 0.17
31 29 0.83
ACGTcount: A:0.30, C:0.24, G:0.16, T:0.30
Consensus pattern (31 bp):
GAAGCCTTTTCAAAATTCATAACACTAGGCC
Found at i:31992916 original size:24 final size:25
Alignment explanation
Indices: 31992889--31992941 Score: 81
Period size: 25 Copynumber: 2.2 Consensus size: 25
31992879 GCCTAGCCTC
*
31992889 TTTTAAT-AACTGGGGTAAAGCCCT
1 TTTTAATAAACTGGGGCAAAGCCCT
*
31992913 TTTTGATAAACTGGGGCAAAGCCCT
1 TTTTAATAAACTGGGGCAAAGCCCT
31992938 TTTT
1 TTTT
31992942 GCACTTCCTC
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
24 6 0.23
25 20 0.77
ACGTcount: A:0.26, C:0.17, G:0.21, T:0.36
Consensus pattern (25 bp):
TTTTAATAAACTGGGGCAAAGCCCT
Found at i:31993012 original size:21 final size:21
Alignment explanation
Indices: 31992987--31993037 Score: 66
Period size: 21 Copynumber: 2.4 Consensus size: 21
31992977 TATAATGAGT
*
31992987 ATATCATGTGCATCTCATAAC
1 ATATCATGTGCATATCATAAC
* **
31993008 ATATCAAGTGCATATCATGTC
1 ATATCATGTGCATATCATAAC
31993029 ATATCATGT
1 ATATCATGT
31993038 ATATCAAAAT
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.33, C:0.20, G:0.12, T:0.35
Consensus pattern (21 bp):
ATATCATGTGCATATCATAAC
Found at i:31994113 original size:22 final size:22
Alignment explanation
Indices: 31994085--31994126 Score: 75
Period size: 22 Copynumber: 1.9 Consensus size: 22
31994075 TCGGCAAGGG
31994085 AGATGAAAAGAAAGGAAGTAGT
1 AGATGAAAAGAAAGGAAGTAGT
*
31994107 AGATGAAAAGAAAGGGAGTA
1 AGATGAAAAGAAAGGAAGTA
31994127 TTGGTTTGTT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.55, C:0.00, G:0.33, T:0.12
Consensus pattern (22 bp):
AGATGAAAAGAAAGGAAGTAGT
Found at i:32004981 original size:29 final size:29
Alignment explanation
Indices: 32004911--32005034 Score: 146
Period size: 29 Copynumber: 4.3 Consensus size: 29
32004901 GAGTCTACAT
* *
32004911 ACATGCATATGGCCCACTAGG-CT-AATC
1 ACATTCATATGGCCCATTAGGCCTAAATC
* * *
32004938 TCATTCATATAGCCCATTTGGCCTAAATC
1 ACATTCATATGGCCCATTAGGCCTAAATC
* *
32004967 ACATTCGTATGGCCCATTAGGCCCAAATC
1 ACATTCATATGGCCCATTAGGCCTAAATC
*
32004996 ACATTCATACGGCCCATTAGGCAC-AAATC
1 ACATTCATATGGCCCATTAGGC-CTAAATC
32005025 ACATTCATAT
1 ACATTCATAT
32005035 ACATGCTTTC
Statistics
Matches: 81, Mismatches: 13, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
27 16 0.20
28 2 0.02
29 62 0.77
30 1 0.01
ACGTcount: A:0.31, C:0.29, G:0.14, T:0.27
Consensus pattern (29 bp):
ACATTCATATGGCCCATTAGGCCTAAATC
Found at i:32007318 original size:16 final size:17
Alignment explanation
Indices: 32007297--32007329 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
32007287 CATATTGAAG
32007297 TGTTTT-TTGAAAACCA
1 TGTTTTATTGAAAACCA
32007313 TGTTTTCATTGAAAACC
1 TGTTTT-ATTGAAAACC
32007330 CTTCTTGTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 6 0.40
18 9 0.60
ACGTcount: A:0.30, C:0.15, G:0.12, T:0.42
Consensus pattern (17 bp):
TGTTTTATTGAAAACCA
Found at i:32008703 original size:27 final size:27
Alignment explanation
Indices: 32008670--32008758 Score: 99
Period size: 27 Copynumber: 3.3 Consensus size: 27
32008660 CAAAATAGTC
* * *
32008670 ATTTTACCCTACAGGGGTATTTCGGTA
1 ATTTTACACTACAAGGGTATTTCAGTA
32008697 ATTTTACACTACAAGGGTATTTCAGTA
1 ATTTTACACTACAAGGGTATTTCAGTA
* ** *
32008724 ATTTTACA-AACTGGGGGTATTTCAATA
1 ATTTTACACTAC-AAGGGTATTTCAGTA
32008751 ATTTTACA
1 ATTTTACA
32008759 ATTTGCGAGT
Statistics
Matches: 54, Mismatches: 7, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
26 2 0.04
27 52 0.96
ACGTcount: A:0.30, C:0.15, G:0.17, T:0.38
Consensus pattern (27 bp):
ATTTTACACTACAAGGGTATTTCAGTA
Found at i:32008759 original size:27 final size:27
Alignment explanation
Indices: 32008711--32008869 Score: 194
Period size: 27 Copynumber: 5.9 Consensus size: 27
32008701 TACACTACAA
*
32008711 GGGTATTTCAGTAATTTTACAAACTGG
1 GGGTATTTCAATAATTTTACAAACTGG
** *
32008738 GGGTATTTCAATAATTTTACAATTTGC
1 GGGTATTTCAATAATTTTACAAACTGG
* * *
32008765 GAGTATTTTAGTAATTTTACAAACTGG
1 GGGTATTTCAATAATTTTACAAACTGG
** * *
32008792 GGGTATTTTGATAATTTTACAAATTGA
1 GGGTATTTCAATAATTTTACAAACTGG
32008819 GGGTATTTCAATAATTTTACAAACCT-G
1 GGGTATTTCAATAATTTTACAAA-CTGG
*
32008846 GGGTATTTCGATAATTTTACAAAC
1 GGGTATTTCAATAATTTTACAAAC
32008870 CGAGGTCTTA
Statistics
Matches: 111, Mismatches: 20, Indels: 3
0.83 0.15 0.02
Matches are distributed among these distances:
26 1 0.01
27 109 0.98
28 1 0.01
ACGTcount: A:0.32, C:0.10, G:0.18, T:0.40
Consensus pattern (27 bp):
GGGTATTTCAATAATTTTACAAACTGG
Found at i:32008867 original size:54 final size:54
Alignment explanation
Indices: 32008683--32008868 Score: 241
Period size: 54 Copynumber: 3.4 Consensus size: 54
32008673 TTACCCTACA
* * **
32008683 GGGGTATTTCGGTAATTTTAC-ACTACAAGGGTATTTCAGTAATTTTACAAACTG
1 GGGGTATTTCGATAATTTTACAAAT-TGAGGGTATTTCAGTAATTTTACAAACTG
* * * * *
32008737 GGGGTATTTCAATAATTTTACAATTTGCGAGTATTTTAGTAATTTTACAAACTG
1 GGGGTATTTCGATAATTTTACAAATTGAGGGTATTTCAGTAATTTTACAAACTG
* *
32008791 GGGGTATTTTGATAATTTTACAAATTGAGGGTATTTCAATAATTTTACAAACCT-
1 GGGGTATTTCGATAATTTTACAAATTGAGGGTATTTCAGTAATTTTACAAA-CTG
32008845 GGGGTATTTCGATAATTTTACAAA
1 GGGGTATTTCGATAATTTTACAAA
32008869 CCGAGGTCTT
Statistics
Matches: 114, Mismatches: 16, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
54 110 0.96
55 4 0.04
ACGTcount: A:0.32, C:0.10, G:0.18, T:0.40
Consensus pattern (54 bp):
GGGGTATTTCGATAATTTTACAAATTGAGGGTATTTCAGTAATTTTACAAACTG
Found at i:32008870 original size:27 final size:26
Alignment explanation
Indices: 32008683--32008869 Score: 180
Period size: 27 Copynumber: 7.0 Consensus size: 26
32008673 TTACCCTACA
* * *
32008683 GGGGTATTTCGGTAATTTTACACTACA
1 GGGGTATTTCGATAATTTTACA-AACT
*
32008710 AGGGTATTTC-AGTAATTTTACAAACT
1 GGGGTATTTCGA-TAATTTTACAAACT
* **
32008736 GGGGGTATTTCAATAATTTTACAATTT
1 -GGGGTATTTCGATAATTTTACAAACT
* *
32008763 GCGAGTATTT-TAGTAATTTTACAAACT
1 G-GGGTATTTCGA-TAATTTTACAAACT
* *
32008790 GGGGGTATTTTGATAATTTTACAAATT
1 -GGGGTATTTCGATAATTTTACAAACT
*
32008817 GAGGGTATTTCAATAATTTTACAAACCT
1 G-GGGTATTTCGATAATTTTACAAA-CT
32008845 GGGGTATTTCGATAATTTTACAAAC
1 GGGGTATTTCGATAATTTTACAAAC
32008870 CGAGGTCTTA
Statistics
Matches: 133, Mismatches: 18, Indels: 19
0.78 0.11 0.11
Matches are distributed among these distances:
26 6 0.05
27 122 0.92
28 5 0.04
ACGTcount: A:0.32, C:0.11, G:0.18, T:0.40
Consensus pattern (26 bp):
GGGGTATTTCGATAATTTTACAAACT
Found at i:32019842 original size:27 final size:27
Alignment explanation
Indices: 32019809--32019897 Score: 99
Period size: 27 Copynumber: 3.3 Consensus size: 27
32019799 CAAAATAGTC
* * *
32019809 ATTTTACCCTACAGGGGTATTTCGGTA
1 ATTTTACACTACAAGGGTATTTCAGTA
32019836 ATTTTACACTACAAGGGTATTTCAGTA
1 ATTTTACACTACAAGGGTATTTCAGTA
* ** *
32019863 ATTTTTACA-AACTGGGGTATTTCAATA
1 A-TTTTACACTACAAGGGTATTTCAGTA
32019890 ATTTTACA
1 ATTTTACA
32019898 ATTTGCGAGT
Statistics
Matches: 54, Mismatches: 7, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
26 7 0.13
27 40 0.74
28 7 0.13
ACGTcount: A:0.30, C:0.15, G:0.16, T:0.39
Consensus pattern (27 bp):
ATTTTACACTACAAGGGTATTTCAGTA
Found at i:32019880 original size:54 final size:53
Alignment explanation
Indices: 32019822--32020001 Score: 197
Period size: 54 Copynumber: 3.4 Consensus size: 53
32019812 TTACCCTACA
* **
32019822 GGGGTATTTCGGTAATTTTACACTACAAGGGTATTTCAGTAATTTTTACAAACT
1 GGGGTATTTCGATAATTTTACA-TATGAGGGTATTTCAGTAATTTTTACAAACT
* * * * *
32019876 GGGGTATTTCAATAATTTTACAATTTGCGAGTATTTTAGTAA-TTTTACAAACT
1 GGGGTATTTCGATAATTTTAC-ATATGAGGGTATTTCAGTAATTTTTACAAACT
* *
32019929 GGGGGTATTTTGATAA-TTTACAAATTGAGGGTATTTCA--AATTTTTACAAACCT
1 -GGGGTATTTCGATAATTTTACATA-TGAGGGTATTTCAGTAATTTTTACAAA-CT
32019982 GGGGTATTTCGATAATTTTA
1 GGGGTATTTCGATAATTTTA
32020002 AAACCGAGGT
Statistics
Matches: 104, Mismatches: 16, Indels: 13
0.78 0.12 0.10
Matches are distributed among these distances:
51 2 0.02
52 24 0.23
53 32 0.31
54 45 0.43
55 1 0.01
ACGTcount: A:0.31, C:0.10, G:0.18, T:0.41
Consensus pattern (53 bp):
GGGGTATTTCGATAATTTTACATATGAGGGTATTTCAGTAATTTTTACAAACT
Found at i:32019909 original size:27 final size:26
Alignment explanation
Indices: 32019822--32020005 Score: 149
Period size: 27 Copynumber: 7.0 Consensus size: 26
32019812 TTACCCTACA
** * *
32019822 GGGGTATTTCGGTAATTTTACACTACA
1 GGGGTATTTCAATAATTTTACA-AACT
* *
32019849 AGGGTATTTCAGTAATTTTTACAAACT
1 GGGGTATTTCAATAA-TTTTACAAACT
**
32019876 GGGGTATTTCAATAATTTTACAATTT
1 GGGGTATTTCAATAATTTTACAAACT
* * *
32019902 GCGAGTATTTTAGTAATTTTACAAACT
1 G-GGGTATTTCAATAATTTTACAAACT
** *
32019929 GGGGGTATTTTGATAA-TTTACAAATT
1 -GGGGTATTTCAATAATTTTACAAACT
*
32019955 GAGGGTATTTCAA-ATTTTTACAAACCT
1 G-GGGTATTTCAATAATTTTACAAA-CT
*
32019982 GGGGTATTTCGATAATTTTA-AAAC
1 GGGGTATTTCAATAATTTTACAAAC
32020006 CGAGGTCTTA
Statistics
Matches: 127, Mismatches: 23, Indels: 16
0.77 0.14 0.10
Matches are distributed among these distances:
25 3 0.02
26 49 0.39
27 67 0.53
28 8 0.06
ACGTcount: A:0.32, C:0.10, G:0.18, T:0.40
Consensus pattern (26 bp):
GGGGTATTTCAATAATTTTACAAACT
Found at i:32019949 original size:53 final size:53
Alignment explanation
Indices: 32019852--32019999 Score: 194
Period size: 53 Copynumber: 2.8 Consensus size: 53
32019842 CACTACAAGG
* * *
32019852 GTATTTCAGTAATTTTTACAAACTGGGGTATTTCAATAATTTTACAATTTGCGA
1 GTATTTCAGTAATTTTTACAAACTGGGGTATTTCGATAA-TTTACAAATTGAGA
* * *
32019906 GTATTTTAGTAA-TTTTACAAACTGGGGGTATTTTGATAATTTACAAATTGAGG
1 GTATTTCAGTAATTTTTACAAACT-GGGGTATTTCGATAATTTACAAATTGAGA
32019959 GTATTTCA--AATTTTTACAAACCTGGGGTATTTCGATAATTT
1 GTATTTCAGTAATTTTTACAAA-CTGGGGTATTTCGATAATTT
32020000 TAAAACCGAG
Statistics
Matches: 83, Mismatches: 8, Indels: 8
0.84 0.08 0.08
Matches are distributed among these distances:
51 2 0.02
52 26 0.31
53 31 0.37
54 24 0.29
ACGTcount: A:0.31, C:0.09, G:0.17, T:0.43
Consensus pattern (53 bp):
GTATTTCAGTAATTTTTACAAACTGGGGTATTTCGATAATTTACAAATTGAGA
Found at i:32029413 original size:29 final size:29
Alignment explanation
Indices: 32029350--32029417 Score: 93
Period size: 29 Copynumber: 2.3 Consensus size: 29
32029340 TAATCAACCG
32029350 CGCACACTTAGTGCCATGCACTTTAAACT
1 CGCACACTTAGTGCCATGCACTTTAAACT
* **
32029379 CACACACTTAGTGCCATGCA-TTTCAAGTT
1 CGCACACTTAGTGCCATGCACTTT-AAACT
32029408 CGCACACTTA
1 CGCACACTTA
32029418 CCTTTTCCGC
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
28 3 0.09
29 31 0.91
ACGTcount: A:0.28, C:0.31, G:0.13, T:0.28
Consensus pattern (29 bp):
CGCACACTTAGTGCCATGCACTTTAAACT
Found at i:32029531 original size:173 final size:174
Alignment explanation
Indices: 32029239--32029565 Score: 584
Period size: 173 Copynumber: 1.9 Consensus size: 174
32029229 AACTCAAGGT
* *
32029239 ACTTACCTTTTCCGCTGTCCAAAATTGACTCGGTAAAGTCGCACCCTTCATGTAAATAATTTATA
1 ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
*
32029304 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCGCGCACACTTAGTGCCATGC
66 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCACGCACACTTAGTGCCATGC
32029369 ACTTTAAACTCACACACTTAGTGCCATGCATTTCAAGTTCGCAC
131 ACTTTAAACTCACACACTTAGTGCCATGCATTTCAAGTTCGCAC
*
32029413 ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAGGTCGCACCCTTAATGTAAATAA-TTATA
1 ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
* *
32029477 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCATGCACACTTAGTGCCATGT
66 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCACGCACACTTAGTGCCATGC
*
32029542 ACTTTAAACTCGCACACTTAGTGC
131 ACTTTAAACTCACACACTTAGTGC
32029566 TGTACAATTT
Statistics
Matches: 146, Mismatches: 7, Indels: 1
0.95 0.05 0.01
Matches are distributed among these distances:
173 90 0.62
174 56 0.38
ACGTcount: A:0.31, C:0.24, G:0.15, T:0.30
Consensus pattern (174 bp):
ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCACGCACACTTAGTGCCATGC
ACTTTAAACTCACACACTTAGTGCCATGCATTTCAAGTTCGCAC
Found at i:32029558 original size:29 final size:30
Alignment explanation
Indices: 32029524--32029596 Score: 107
Period size: 29 Copynumber: 2.5 Consensus size: 30
32029514 AATCAACCAT
*
32029524 GCACACTTAGTGCCATGTAC-TTTAAACTC
1 GCACACTTAGTGCCATGTACATTTAAACCC
32029553 GCACACTTAGTG-C-TGTACAATTTAAACCC
1 GCACACTTAGTGCCATGTAC-ATTTAAACCC
32029582 GCACACTTAGTGCCA
1 GCACACTTAGTGCCA
32029597 ATCTCATGAC
Statistics
Matches: 39, Mismatches: 1, Indels: 6
0.85 0.02 0.13
Matches are distributed among these distances:
27 5 0.13
28 1 0.03
29 32 0.82
30 1 0.03
ACGTcount: A:0.29, C:0.29, G:0.15, T:0.27
Consensus pattern (30 bp):
GCACACTTAGTGCCATGTACATTTAAACCC
Found at i:32037540 original size:29 final size:29
Alignment explanation
Indices: 32037477--32037544 Score: 93
Period size: 29 Copynumber: 2.3 Consensus size: 29
32037467 TAATCAACCG
32037477 CGCACACTTAGTGCCATGCACTTTAAACT
1 CGCACACTTAGTGCCATGCACTTTAAACT
* **
32037506 CACACACTTAGTGCCATGCA-TTTCAAGTT
1 CGCACACTTAGTGCCATGCACTTT-AAACT
32037535 CGCACACTTA
1 CGCACACTTA
32037545 CCTTTTCCGC
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
28 3 0.09
29 31 0.91
ACGTcount: A:0.28, C:0.31, G:0.13, T:0.28
Consensus pattern (29 bp):
CGCACACTTAGTGCCATGCACTTTAAACT
Found at i:32037657 original size:174 final size:174
Alignment explanation
Indices: 32037366--32037693 Score: 593
Period size: 174 Copynumber: 1.9 Consensus size: 174
32037356 AACTCAAGGT
* *
32037366 ACTTACCTTTTCCGCTATCCAAAATTGACTCGGTAAAGTCGCACCCTTCATGTAAATAATTTATA
1 ACTTACCTTTTCCGCTATCCAAAATCGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
*
32037431 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCGCGCACACTTAGTGCCATGC
66 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCACGCACACTTAGTGCCATGC
32037496 ACTTTAAACTCACACACTTAGTGCCATGCATTTCAAGTTCGCAC
131 ACTTTAAACTCACACACTTAGTGCCATGCATTTCAAGTTCGCAC
* *
32037540 ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAGGTCGCACCCTTAATGTAAATAATTTATA
1 ACTTACCTTTTCCGCTATCCAAAATCGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
*
32037605 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCACGCACACTTAGTGCCATGT
66 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCACGCACACTTAGTGCCATGC
*
32037670 ACTTTAAACTCGCACACTTAGTGC
131 ACTTTAAACTCACACACTTAGTGC
32037694 TGTACAATTT
Statistics
Matches: 147, Mismatches: 7, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
174 147 1.00
ACGTcount: A:0.31, C:0.25, G:0.14, T:0.30
Consensus pattern (174 bp):
ACTTACCTTTTCCGCTATCCAAAATCGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCACGCACACTTAGTGCCATGC
ACTTTAAACTCACACACTTAGTGCCATGCATTTCAAGTTCGCAC
Found at i:32037685 original size:29 final size:30
Alignment explanation
Indices: 32037646--32037724 Score: 110
Period size: 29 Copynumber: 2.7 Consensus size: 30
32037636 CTTAATAATC
32037646 AACCACGCACACTTAGTGCCATGTAC-TTTA
1 AACC-CGCACACTTAGTGCCATGTACATTTA
*
32037676 AACTCGCACACTTAGTG-C-TGTACAATTTA
1 AACCCGCACACTTAGTGCCATGTAC-ATTTA
32037705 AACCCGCACACTTAGTGCCA
1 AACCCGCACACTTAGTGCCA
32037725 ATCTCATGAC
Statistics
Matches: 43, Mismatches: 2, Indels: 7
0.83 0.04 0.13
Matches are distributed among these distances:
27 5 0.12
28 1 0.02
29 33 0.77
30 4 0.09
ACGTcount: A:0.30, C:0.30, G:0.14, T:0.25
Consensus pattern (30 bp):
AACCCGCACACTTAGTGCCATGTACATTTA
Found at i:32044212 original size:21 final size:19
Alignment explanation
Indices: 32044175--32044229 Score: 65
Period size: 21 Copynumber: 2.8 Consensus size: 19
32044165 ATTAGAATGT
*
32044175 AAAAAATTAAATTAAAATA
1 AAAAAATTAAATCAAAATA
32044194 AAAAATATTAAAATCAAAATA
1 AAAAA-ATT-AAATCAAAATA
**
32044215 AAAAAGCTAAATCAA
1 AAAAAATTAAATCAA
32044230 TAAAAATAAA
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
19 12 0.39
20 4 0.13
21 15 0.48
ACGTcount: A:0.71, C:0.05, G:0.02, T:0.22
Consensus pattern (19 bp):
AAAAAATTAAATCAAAATA
Found at i:32044633 original size:21 final size:21
Alignment explanation
Indices: 32044604--32044646 Score: 77
Period size: 21 Copynumber: 2.0 Consensus size: 21
32044594 TTCGAAAGTA
32044604 AAAGAAATTGACTCTAGGTTG
1 AAAGAAATTGACTCTAGGTTG
*
32044625 AAAGCAATTGACTCTAGGTTG
1 AAAGAAATTGACTCTAGGTTG
32044646 A
1 A
32044647 TTAATTGAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.37, C:0.12, G:0.23, T:0.28
Consensus pattern (21 bp):
AAAGAAATTGACTCTAGGTTG
Found at i:32046863 original size:13 final size:14
Alignment explanation
Indices: 32046845--32046875 Score: 55
Period size: 14 Copynumber: 2.3 Consensus size: 14
32046835 GTTAAAATTG
32046845 TAAATT-AGTAAAA
1 TAAATTAAGTAAAA
32046858 TAAATTAAGTAAAA
1 TAAATTAAGTAAAA
32046872 TAAA
1 TAAA
32046876 GAAAACCAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 6 0.35
14 11 0.65
ACGTcount: A:0.65, C:0.00, G:0.06, T:0.29
Consensus pattern (14 bp):
TAAATTAAGTAAAA
Found at i:32054862 original size:16 final size:16
Alignment explanation
Indices: 32054837--32054869 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
32054827 TAATTTGCTT
32054837 AAGGCATACTAAGCTA
1 AAGGCATACTAAGCTA
*
32054853 AAGGCTTACTAAGCTA
1 AAGGCATACTAAGCTA
32054869 A
1 A
32054870 GTTAGCTTAC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.42, C:0.18, G:0.18, T:0.21
Consensus pattern (16 bp):
AAGGCATACTAAGCTA
Found at i:32059364 original size:27 final size:27
Alignment explanation
Indices: 32059280--32059367 Score: 115
Period size: 27 Copynumber: 3.3 Consensus size: 27
32059270 TTAGTTTACT
* *
32059280 AAATTACCGAAATACGCTTAG-TTTGTA
1 AAATTACTGAAATAC-CTTCGATTTGTA
* *
32059307 AAAATACTGAAATACCCTCGATTTGTA
1 AAATTACTGAAATACCTTCGATTTGTA
*
32059334 AAATTACTGAAATACCTTCGACTTGTA
1 AAATTACTGAAATACCTTCGATTTGTA
32059361 AAATTAC
1 AAATTAC
32059368 CAAAGTACCC
Statistics
Matches: 53, Mismatches: 7, Indels: 2
0.85 0.11 0.03
Matches are distributed among these distances:
26 3 0.06
27 50 0.94
ACGTcount: A:0.40, C:0.17, G:0.11, T:0.32
Consensus pattern (27 bp):
AAATTACTGAAATACCTTCGATTTGTA
Found at i:32059377 original size:54 final size:54
Alignment explanation
Indices: 32059280--32059384 Score: 124
Period size: 54 Copynumber: 1.9 Consensus size: 54
32059270 TTAGTTTACT
* * *
32059280 AAATTACCGAAATACGCTTAGTTTGTAAAAATACTGAAATACCCTCGATTTGTA
1 AAATTACCGAAATACGCTTAGCTTGTAAAAATACTCAAATACCCCCGATTTGTA
* * *
32059334 AAATTACTGAAATAC-CTTCGACTTGTAAAATTAC-CAAAGTACCCCCGATTT
1 AAATTACCGAAATACGCTTAG-CTTGTAAAAATACTCAAA-TACCCCCGATTT
32059385 ACATAATTAC
Statistics
Matches: 43, Mismatches: 6, Indels: 4
0.81 0.11 0.08
Matches are distributed among these distances:
53 7 0.16
54 36 0.84
ACGTcount: A:0.38, C:0.20, G:0.11, T:0.30
Consensus pattern (54 bp):
AAATTACCGAAATACGCTTAGCTTGTAAAAATACTCAAATACCCCCGATTTGTA
Found at i:32059503 original size:27 final size:27
Alignment explanation
Indices: 32059373--32059503 Score: 172
Period size: 27 Copynumber: 4.9 Consensus size: 27
32059363 ATTACCAAAG
* * *
32059373 TACCCCCGATTTACATAATTACCGTTT
1 TACCCTCGATTTACAGAATTACTGTTT
* *
32059400 TACCCTCGATTTACAGAAGTACCGTTT
1 TACCCTCGATTTACAGAATTACTGTTT
* *
32059427 TACCCTTGATTTATAGAATTACTGTTT
1 TACCCTCGATTTACAGAATTACTGTTT
* *
32059454 TACCCTTGATTTATAGAATTACTGTTT
1 TACCCTCGATTTACAGAATTACTGTTT
*
32059481 TACCCTCGATTTACAAAATTACT
1 TACCCTCGATTTACAGAATTACT
32059504 AGAATACCGT
Statistics
Matches: 94, Mismatches: 10, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 94 1.00
ACGTcount: A:0.27, C:0.22, G:0.10, T:0.40
Consensus pattern (27 bp):
TACCCTCGATTTACAGAATTACTGTTT
Found at i:32059552 original size:27 final size:27
Alignment explanation
Indices: 32059518--32059786 Score: 179
Period size: 27 Copynumber: 9.9 Consensus size: 27
32059508 TACCGTAGTC
* *
32059518 TGTAAAATTGCTAAAATACCCTTGGTT
1 TGTAAAATTACCAAAATACCCTTGGTT
***
32059545 TGTAAAATTA-CAGAAATACCCTCAATT
1 TGTAAAATTACCA-AAATACCCTTGGTT
* *
32059572 TGTAAAATTACCAAAATACCCCTAGTT
1 TGTAAAATTACCAAAATACCCTTGGTT
* *
32059599 TGTAAAAGTACAAAAATACCAC-TGGTT
1 TGTAAAATTACCAAAATACC-CTTGGTT
* * ***
32059626 TGTGAAATTACCGAAATACCCTCAATT
1 TGTAAAATTACCAAAATACCCTTGGTT
*
32059653 TGTAAAATTACCAAAATA-CCTCTGATT
1 TGTAAAATTACCAAAATACCCT-TGGTT
** * *
32059680 TACAAAGTTA-CAGAAATACCCTTGACTT
1 TGTAAAATTACCA-AAATACCCTTG-GTT
* * *
32059708 TCTAAAAATTA-TAGAAATACCATTGGTT
1 TGT-AAAATTACCA-AAATACCCTTGGTT
** **
32059736 TACAAAATTACTGAAATACCCTTGGTT
1 TGTAAAATTACCAAAATACCCTTGGTT
* * *
32059763 TGTAGATTTACCAAAACACCCTTG
1 TGTAAAATTACCAAAATACCCTTG
32059787 TAGGATGAAA
Statistics
Matches: 189, Mismatches: 43, Indels: 20
0.75 0.17 0.08
Matches are distributed among these distances:
26 7 0.04
27 151 0.80
28 13 0.07
29 18 0.10
ACGTcount: A:0.39, C:0.19, G:0.11, T:0.31
Consensus pattern (27 bp):
TGTAAAATTACCAAAATACCCTTGGTT
Found at i:32059634 original size:81 final size:81
Alignment explanation
Indices: 32059481--32059728 Score: 254
Period size: 81 Copynumber: 3.0 Consensus size: 81
32059471 ATTACTGTTT
* ** * * * * * *
32059481 TACCCTCGATTTACAAAATTACTAGAATA-CCGTAGTCTGTAAAATTGCTAAAATACCCTTGGTT
1 TACCCTCAATTTGTAAAATTACCAAAATACCCCTAGTCTGTAAAAGTACAAAAATACCCTTGGTT
32059545 TGTAAAATTACAGAAA
66 TGTAAAATTACAGAAA
*
32059561 TACCCTCAATTTGTAAAATTACCAAAATACCCCTAGTTTGTAAAAGTACAAAAATACCAC-TGGT
1 TACCCTCAATTTGTAAAATTACCAAAATACCCCTAGTCTGTAAAAGTACAAAAATACC-CTTGGT
* *
32059625 TTGTGAAATTACCGAAA
65 TTGTAAAATTACAGAAA
* *
32059642 TACCCTCAATTTGTAAAATTACCAAAATACCTCT-GAT-T-TACAAAGTTACAGAAATACCCTTG
1 TACCCTCAATTTGTAAAATTACCAAAATACCCCTAG-TCTGTA-AAAG-TACAAAAATACCCTTG
* * *
32059704 ACTTTCTAAAAATTATAGAAA
63 -GTTTGT-AAAATTACAGAAA
32059725 TACC
1 TACC
32059729 ATTGGTTTAC
Statistics
Matches: 141, Mismatches: 19, Indels: 13
0.82 0.11 0.08
Matches are distributed among these distances:
79 2 0.01
80 31 0.22
81 89 0.63
82 5 0.04
83 14 0.10
ACGTcount: A:0.40, C:0.19, G:0.10, T:0.30
Consensus pattern (81 bp):
TACCCTCAATTTGTAAAATTACCAAAATACCCCTAGTCTGTAAAAGTACAAAAATACCCTTGGTT
TGTAAAATTACAGAAA
Found at i:32059847 original size:27 final size:27
Alignment explanation
Indices: 32059804--32059877 Score: 71
Period size: 27 Copynumber: 2.7 Consensus size: 27
32059794 AAATGACTAA
*
32059804 AATACCCCTATTA-GGTAAAAAGACCGT
1 AATACCCC-AGTAGGGTAAAAAGACCGT
**
32059831 AA-AGCCCCAGTAGGGTAAAGTGACCGT
1 AATA-CCCCAGTAGGGTAAAAAGACCGT
* *
32059858 AATACCCCTGTATGGTAAAA
1 AATACCCCAGTAGGGTAAAA
32059878 TGATGAATTT
Statistics
Matches: 38, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
26 4 0.11
27 33 0.87
28 1 0.03
ACGTcount: A:0.38, C:0.22, G:0.20, T:0.20
Consensus pattern (27 bp):
AATACCCCAGTAGGGTAAAAAGACCGT
Found at i:32061191 original size:20 final size:20
Alignment explanation
Indices: 32061125--32061191 Score: 107
Period size: 20 Copynumber: 3.4 Consensus size: 20
32061115 ATTTTGATAA
*
32061125 ACATGGTATGTATGATATGC
1 ACATGATATGTATGATATGC
*
32061145 ACATGACATGTATGATATGC
1 ACATGATATGTATGATATGC
32061165 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
*
32061185 ACTTGAT
1 ACATGAT
32061192 GTATTCATAA
Statistics
Matches: 43, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 43 1.00
ACGTcount: A:0.33, C:0.12, G:0.21, T:0.34
Consensus pattern (20 bp):
ACATGATATGTATGATATGC
Found at i:32061340 original size:47 final size:46
Alignment explanation
Indices: 32061242--32061385 Score: 198
Period size: 47 Copynumber: 3.1 Consensus size: 46
32061232 AGGAAGTGAA
** *
32061242 AAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATCA
1 AAAGGGCTTATGCCCCAGTTAAAAAAGGGCTTATGCCCCAGTTAT-T
* *
32061289 AAAGGGCTTATGCCCCAGTTACCAAAAGGGCTTACGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTA-AAAAAGGGCTTATGCCCCAGTTATT
* *
32061336 AAAGGGCTTATGCCCCAGTTATAAAAAGGGCTTTTGCCTCAGTTATT
1 AAAGGGCTTATGCCCCAGTTA-AAAAAGGGCTTATGCCCCAGTTATT
32061383 AAA
1 AAA
32061386 AGAGGCTAGG
Statistics
Matches: 87, Mismatches: 9, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
47 66 0.76
48 21 0.24
ACGTcount: A:0.29, C:0.23, G:0.21, T:0.27
Consensus pattern (46 bp):
AAAGGGCTTATGCCCCAGTTAAAAAAGGGCTTATGCCCCAGTTATT
Found at i:32061387 original size:71 final size:71
Alignment explanation
Indices: 32061241--32061380 Score: 244
Period size: 71 Copynumber: 2.0 Consensus size: 71
32061231 GAGGAAGTGA
* *
32061241 AAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCA
1 AAAAGGGCTTACGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATAAAAAGGGCTTATGCCCCA
32061306 GTTACC
66 GTTACC
* *
32061312 AAAAGGGCTTACGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATAAAAAGGGCTTTTGCCTCA
1 AAAAGGGCTTACGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATAAAAAGGGCTTATGCCCCA
32061377 GTTA
66 GTTA
32061381 TTAAAAGAGG
Statistics
Matches: 65, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
71 65 1.00
ACGTcount: A:0.29, C:0.24, G:0.21, T:0.26
Consensus pattern (71 bp):
AAAAGGGCTTACGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATAAAAAGGGCTTATGCCCCA
GTTACC
Found at i:32061400 original size:24 final size:24
Alignment explanation
Indices: 32061241--32061392 Score: 218
Period size: 24 Copynumber: 6.4 Consensus size: 24
32061231 GAGGAAGTGA
32061241 AAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
*
32061265 -AAAGGGCTTATGCCCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTATT
**
32061288 AAAAGGGCTTATGCCCCAGTTACC
1 AAAAGGGCTTATGCCCCAGTTATT
*
32061312 AAAAGGGCTTACGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
*
32061336 -AAAGGGCTTATGCCCCAGTTATA
1 AAAAGGGCTTATGCCCCAGTTATT
* *
32061359 AAAAGGGCTTTTGCCTCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
32061383 AAAAGAGGCT
1 AAAAG-GGCT
32061393 AGGCCTCAAG
Statistics
Matches: 115, Mismatches: 10, Indels: 5
0.88 0.08 0.04
Matches are distributed among these distances:
23 43 0.37
24 68 0.59
25 4 0.03
ACGTcount: A:0.30, C:0.22, G:0.22, T:0.26
Consensus pattern (24 bp):
AAAAGGGCTTATGCCCCAGTTATT
Found at i:32061636 original size:31 final size:31
Alignment explanation
Indices: 32061600--32061663 Score: 101
Period size: 31 Copynumber: 2.1 Consensus size: 31
32061590 CGTTTACAGT
*
32061600 AAAGGCTTCGGCCTAGTAATATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
**
32061631 AAAGGCTTCGGCCCAGTGTTATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
32061662 AA
1 AA
32061664 TATGAAAAGG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.38, C:0.14, G:0.23, T:0.25
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTAATATGAAATATGA
Found at i:32064411 original size:28 final size:27
Alignment explanation
Indices: 32064378--32064430 Score: 70
Period size: 27 Copynumber: 1.9 Consensus size: 27
32064368 TTAGAATACT
*
32064378 TTAGTTTACTAAAATTACCGAAATACGC
1 TTAGTTT-CTAAAAATACCGAAATACGC
* *
32064406 TTAGTTTGTAAAAATACTGAAATAC
1 TTAGTTTCTAAAAATACCGAAATAC
32064431 CCTCGATTTG
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
27 15 0.68
28 7 0.32
ACGTcount: A:0.42, C:0.13, G:0.11, T:0.34
Consensus pattern (27 bp):
TTAGTTTCTAAAAATACCGAAATACGC
Found at i:32064417 original size:27 final size:27
Alignment explanation
Indices: 32064387--32064485 Score: 103
Period size: 27 Copynumber: 3.7 Consensus size: 27
32064377 TTTAGTTTAC
32064387 TAAAATTACCGAAATACGCTTAG-TTTG
1 TAAAATTACCGAAATAC-CTTAGATTTG
* * * *
32064414 TAAAAATACTGAAATACCCTCGATTTG
1 TAAAATTACCGAAATACCTTAGATTTG
* * *
32064441 TAAAATTACTGAAATACCTTCGACTTG
1 TAAAATTACCGAAATACCTTAGATTTG
32064468 TAAAATTACC-AAAGTACC
1 TAAAATTACCGAAA-TACC
32064486 CCCAATTTAC
Statistics
Matches: 62, Mismatches: 8, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
26 6 0.10
27 56 0.90
ACGTcount: A:0.40, C:0.18, G:0.11, T:0.30
Consensus pattern (27 bp):
TAAAATTACCGAAATACCTTAGATTTG
Found at i:32064512 original size:27 final size:27
Alignment explanation
Indices: 32064482--32064540 Score: 82
Period size: 27 Copynumber: 2.2 Consensus size: 27
32064472 ATTACCAAAG
* *
32064482 TACCCCCAATTTACATAATTACCGTTT
1 TACCCCCAATTTACAGAAGTACCGTTT
* *
32064509 TACCCTCGATTTACAGAAGTACCGTTT
1 TACCCCCAATTTACAGAAGTACCGTTT
32064536 TACCC
1 TACCC
32064541 TTGATTTTAT
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.27, C:0.31, G:0.08, T:0.34
Consensus pattern (27 bp):
TACCCCCAATTTACAGAAGTACCGTTT
Found at i:32064567 original size:55 final size:55
Alignment explanation
Indices: 32064498--32064602 Score: 165
Period size: 55 Copynumber: 1.9 Consensus size: 55
32064488 CAATTTACAT
*
32064498 AATTACCGTTTTACCCTCGATTTACAGAAGTACCGTTTTACCCTTGATTTTATAG
1 AATTACCGCTTTACCCTCGATTTACAGAAGTACCGTTTTACCCTTGATTTTATAG
* * * *
32064553 AATTACTGCTTTACCCTTGATTTACAGAATTACTGTTTTACCCTTGATTT
1 AATTACCGCTTTACCCTCGATTTACAGAAGTACCGTTTTACCCTTGATTT
32064603 ACAAAATTAC
Statistics
Matches: 45, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
55 45 1.00
ACGTcount: A:0.25, C:0.21, G:0.11, T:0.43
Consensus pattern (55 bp):
AATTACCGCTTTACCCTCGATTTACAGAAGTACCGTTTTACCCTTGATTTTATAG
Found at i:32064613 original size:27 final size:27
Alignment explanation
Indices: 32064490--32064613 Score: 167
Period size: 27 Copynumber: 4.6 Consensus size: 27
32064480 AGTACCCCCA
* * *
32064490 ATTTACATAATTACCGTTTTACCCTCG
1 ATTTACAGAATTACTGTTTTACCCTTG
* *
32064517 ATTTACAGAAGTACCGTTTTACCCTTG
1 ATTTACAGAATTACTGTTTTACCCTTG
* *
32064544 ATTTTATAGAATTACTGCTTTACCCTTG
1 A-TTTACAGAATTACTGTTTTACCCTTG
32064572 ATTTACAGAATTACTGTTTTACCCTTG
1 ATTTACAGAATTACTGTTTTACCCTTG
*
32064599 ATTTACAAAATTACT
1 ATTTACAGAATTACT
32064614 AGAATACCGT
Statistics
Matches: 86, Mismatches: 10, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
27 63 0.73
28 23 0.27
ACGTcount: A:0.28, C:0.20, G:0.10, T:0.42
Consensus pattern (27 bp):
ATTTACAGAATTACTGTTTTACCCTTG
Found at i:32064621 original size:27 final size:28
Alignment explanation
Indices: 32064591--32064876 Score: 177
Period size: 27 Copynumber: 10.5 Consensus size: 28
32064581 ATTACTGTTT
**
32064591 TACCCTTGATTTACAAAATTACTAG-AA
1 TACCCTTGATTTGTAAAATTACTAGAAA
* * * *
32064618 TACCGTAG-TCTGTAAAATTGCTA-AAA
1 TACCCTTGATTTGTAAAATTACTAGAAA
*
32064644 TACCCTTGGTTTGTAAAATTAC-AGAAA
1 TACCCTTGATTTGTAAAATTACTAGAAA
** *
32064671 TACCCTCAATTTGTAAAATTACCA-AAA
1 TACCCTTGATTTGTAAAATTACTAGAAA
* * *
32064698 TACCCCT-AGTTTGTAAAAGTACCA-AAA
1 TACCCTTGA-TTTGTAAAATTACTAGAAA
* * *
32064725 TACCAC-TGGTTTGTGAAATTA-TCGAAA
1 TACC-CTTGATTTGTAAAATTACTAGAAA
** *
32064752 TACCCTCAATTTGTAAAATTACCA-AAA
1 TACCCTTGATTTGTAAAATTACTAGAAA
** *
32064779 TA-CCTCTGATTTACAAAGTTAC-AGAAA
1 TACCCT-TGATTTGTAAAATTACTAGAAA
*
32064806 TACCCTTGACTTTCTAAAAATTA-TAGAAA
1 TACCCTTGA-TTTGT-AAAATTACTAGAAA
* * **
32064835 TACCATTGGTTTACAAAATTACT-GAAA
1 TACCCTTGATTTGTAAAATTACTAGAAA
*
32064862 TACCCTTGGTTTGTA
1 TACCCTTGATTTGTA
32064877 GATTTACCAA
Statistics
Matches: 200, Mismatches: 42, Indels: 34
0.72 0.15 0.12
Matches are distributed among these distances:
26 26 0.13
27 144 0.72
28 12 0.06
29 18 0.09
ACGTcount: A:0.39, C:0.18, G:0.11, T:0.32
Consensus pattern (28 bp):
TACCCTTGATTTGTAAAATTACTAGAAA
Found at i:32064744 original size:81 final size:81
Alignment explanation
Indices: 32064605--32064782 Score: 245
Period size: 81 Copynumber: 2.2 Consensus size: 81
32064595 CTTGATTTAC
* * * * * *
32064605 AAAATTACTAGAATA-CCGTAGTCTGTAAAATTGCTAAAATACCCTTGGTTTGTAAAATTA-CAG
1 AAAATTACCAAAATACCCCTAGTCTGTAAAAGTACCAAAATACCCTTGGTTTGTAAAATTATC-G
32064668 AAATACCCTCAATTTGT
65 AAATACCCTCAATTTGT
* *
32064685 AAAATTACCAAAATACCCCTAGTTTGTAAAAGTACCAAAATACCAC-TGGTTTGTGAAATTATCG
1 AAAATTACCAAAATACCCCTAGTCTGTAAAAGTACCAAAATACC-CTTGGTTTGTAAAATTATCG
32064749 AAATACCCTCAATTTGT
65 AAATACCCTCAATTTGT
32064766 AAAATTACCAAAATACC
1 AAAATTACCAAAATACC
32064783 TCTGATTTAC
Statistics
Matches: 87, Mismatches: 8, Indels: 5
0.87 0.08 0.05
Matches are distributed among these distances:
80 13 0.15
81 72 0.83
82 2 0.02
ACGTcount: A:0.41, C:0.19, G:0.11, T:0.30
Consensus pattern (81 bp):
AAAATTACCAAAATACCCCTAGTCTGTAAAAGTACCAAAATACCCTTGGTTTGTAAAATTATCGA
AATACCCTCAATTTGT
Found at i:32064807 original size:81 final size:81
Alignment explanation
Indices: 32064640--32064838 Score: 246
Period size: 81 Copynumber: 2.4 Consensus size: 81
32064630 TAAAATTGCT
32064640 AAAATACCCTTGGTTTGTAAAATTACAGAAATACCCTCAATTTGTAAAATTACCAAAATACCCCT
1 AAAATACCCTTGGTTTGTAAAATTACAGAAATACCCTCAATTTGTAAAATTACCAAAATACCCCT
*
32064705 AGTTTGTAAAAGTACC
66 AGATTGTAAAAGTACC
* *
32064721 AAAATACCAC-TGGTTTGTGAAATTATC-GAAATACCCTCAATTTGTAAAATTACCAAAATACCT
1 AAAATACC-CTTGGTTTGTAAAATTA-CAGAAATACCCTCAATTTGTAAAATTACCAAAATACCC
32064784 CT-GATT-TACAAAGTTA-C
64 CTAGATTGTA-AAAG-TACC
* * *
32064801 AGAAATACCCTTGACTTTCTAAAAATTATAGAAATACC
1 A-AAATACCCTTG-GTTTGT-AAAATTACAGAAATACC
32064839 ATTGGTTTAC
Statistics
Matches: 102, Mismatches: 7, Indels: 16
0.82 0.06 0.13
Matches are distributed among these distances:
79 2 0.02
80 10 0.10
81 70 0.69
82 6 0.06
83 14 0.14
ACGTcount: A:0.41, C:0.19, G:0.10, T:0.30
Consensus pattern (81 bp):
AAAATACCCTTGGTTTGTAAAATTACAGAAATACCCTCAATTTGTAAAATTACCAAAATACCCCT
AGATTGTAAAAGTACC
Found at i:32064957 original size:27 final size:27
Alignment explanation
Indices: 32064927--32064987 Score: 70
Period size: 27 Copynumber: 2.3 Consensus size: 27
32064917 GCCCCTATTA
32064927 GGTAAAAAGACCGTAA-AGCCCCAGTAG
1 GGTAAAAAGACCGTAATA-CCCCAGTAG
** * *
32064954 GGTAAAGTGACCGTAATACCCCTGTAT
1 GGTAAAAAGACCGTAATACCCCAGTAG
32064981 GGTAAAA
1 GGTAAAA
32064988 TGATGAATAT
Statistics
Matches: 28, Mismatches: 5, Indels: 2
0.80 0.14 0.06
Matches are distributed among these distances:
27 27 0.96
28 1 0.04
ACGTcount: A:0.38, C:0.20, G:0.25, T:0.18
Consensus pattern (27 bp):
GGTAAAAAGACCGTAATACCCCAGTAG
Found at i:32066179 original size:25 final size:25
Alignment explanation
Indices: 32066150--32066197 Score: 78
Period size: 25 Copynumber: 1.9 Consensus size: 25
32066140 TTATAACATG
* *
32066150 AAAATGACCATTTTGCCCCTAGGTA
1 AAAATGACCATTATACCCCTAGGTA
32066175 AAAATGACCATTATACCCCTAGG
1 AAAATGACCATTATACCCCTAGG
32066198 GTTTATGTAT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.35, C:0.25, G:0.15, T:0.25
Consensus pattern (25 bp):
AAAATGACCATTATACCCCTAGGTA
Found at i:32066300 original size:20 final size:20
Alignment explanation
Indices: 32066234--32066300 Score: 107
Period size: 20 Copynumber: 3.4 Consensus size: 20
32066224 ATTTTGATAA
*
32066234 ACATGGTATGTATGATATGC
1 ACATGATATGTATGATATGC
*
32066254 ACATGACATGTATGATATGC
1 ACATGATATGTATGATATGC
32066274 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
*
32066294 ACTTGAT
1 ACATGAT
32066301 GTATTCATAA
Statistics
Matches: 43, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 43 1.00
ACGTcount: A:0.33, C:0.12, G:0.21, T:0.34
Consensus pattern (20 bp):
ACATGATATGTATGATATGC
Found at i:32066406 original size:24 final size:23
Alignment explanation
Indices: 32066350--32066501 Score: 196
Period size: 24 Copynumber: 6.4 Consensus size: 23
32066340 GAGGAAGTGA
*
32066350 AAAAGGGCTCATGCCCCAGTTAT
1 AAAAGGGCTTATGCCCCAGTTAT
*
32066373 TAAAGGGCTTATGCCCCAGTTAT
1 AAAAGGGCTTATGCCCCAGTTAT
32066396 CAAAAGGGCTTATGCCCCAGTTAT
1 -AAAAGGGCTTATGCCCCAGTTAT
* *
32066420 CAAAAGGGATTACGCCCCAGTTAT
1 -AAAAGGGCTTATGCCCCAGTTAT
* *
32066444 TAAAGGGTTTATGCCCCAGTTAT
1 AAAAGGGCTTATGCCCCAGTTAT
*
32066467 AAAAAGGGCTTTTGCCCCAGTTATT
1 -AAAAGGGCTTATGCCCCAGTTA-T
32066492 AAAAGAGGCT
1 AAAAG-GGCT
32066502 AGGCCTCAAG
Statistics
Matches: 114, Mismatches: 11, Indels: 6
0.87 0.08 0.05
Matches are distributed among these distances:
23 41 0.36
24 68 0.60
25 5 0.04
ACGTcount: A:0.30, C:0.22, G:0.22, T:0.26
Consensus pattern (23 bp):
AAAAGGGCTTATGCCCCAGTTAT
Found at i:32066419 original size:47 final size:47
Alignment explanation
Indices: 32066350--32066501 Score: 198
Period size: 47 Copynumber: 3.2 Consensus size: 47
32066340 GAGGAAGTGA
* *
32066350 AAAAGGGCTCATGCCCCAGTTAT-TAAAGGGCTTATGCCCCAGTTAT
1 AAAAGGGCTTATGCCCCAGTTATAAAAAGGGCTTATGCCCCAGTTAT
* * *
32066396 CAAAAGGGCTTATGCCCCAGTTATCAAAAGGGATTACGCCCCAGTTAT
1 -AAAAGGGCTTATGCCCCAGTTATAAAAAGGGCTTATGCCCCAGTTAT
* * *
32066444 TAAAGGGTTTATGCCCCAGTTATAAAAAGGGCTTTTGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATAAAAAGGGCTTATGCCCCAGTTA-T
32066492 AAAAGAGGCT
1 AAAAG-GGCT
32066502 AGGCCTCAAG
Statistics
Matches: 90, Mismatches: 12, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
47 62 0.69
48 25 0.28
49 3 0.03
ACGTcount: A:0.30, C:0.22, G:0.22, T:0.26
Consensus pattern (47 bp):
AAAAGGGCTTATGCCCCAGTTATAAAAAGGGCTTATGCCCCAGTTAT
Found at i:32066466 original size:71 final size:71
Alignment explanation
Indices: 32066362--32066496 Score: 234
Period size: 71 Copynumber: 1.9 Consensus size: 71
32066352 AAGGGCTCAT
*
32066362 GCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATCAAAAGG
1 GCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATAAAAAGGGCTTATGCCCCAGTTATCAAAAGG
32066427 GATTAC
66 GATTAC
* * *
32066433 GCCCCAGTTATTAAAGGGTTTATGCCCCAGTTATAAAAAGGGCTTTTGCCCCAGTTATTAAAAG
1 GCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATAAAAAGGGCTTATGCCCCAGTTATCAAAAG
32066497 AGGCTAGGCC
Statistics
Matches: 60, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
71 60 1.00
ACGTcount: A:0.30, C:0.22, G:0.21, T:0.27
Consensus pattern (71 bp):
GCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATAAAAAGGGCTTATGCCCCAGTTATCAAAAGG
GATTAC
Found at i:32066745 original size:31 final size:31
Alignment explanation
Indices: 32066709--32066772 Score: 101
Period size: 31 Copynumber: 2.1 Consensus size: 31
32066699 CGTTTACAGT
*
32066709 AAAGGCTTCGGCCTAGTAATATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
**
32066740 AAAGGCTTCGGCCCAGTGTTATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
32066771 AA
1 AA
32066773 TATGAAAAGG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.38, C:0.14, G:0.23, T:0.25
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTAATATGAAATATGA
Found at i:32074954 original size:13 final size:14
Alignment explanation
Indices: 32074936--32074966 Score: 55
Period size: 14 Copynumber: 2.3 Consensus size: 14
32074926 GTTAAAATTG
32074936 TAAATT-AGTAAAA
1 TAAATTAAGTAAAA
32074949 TAAATTAAGTAAAA
1 TAAATTAAGTAAAA
32074963 TAAA
1 TAAA
32074967 GAAAACCAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 6 0.35
14 11 0.65
ACGTcount: A:0.65, C:0.00, G:0.06, T:0.29
Consensus pattern (14 bp):
TAAATTAAGTAAAA
Found at i:32077601 original size:6 final size:6
Alignment explanation
Indices: 32077590--32077618 Score: 58
Period size: 6 Copynumber: 4.8 Consensus size: 6
32077580 TATGTTAAAT
32077590 ATATAG ATATAG ATATAG ATATAG ATATA
1 ATATAG ATATAG ATATAG ATATAG ATATA
32077619 TGAACATGGC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.14, T:0.34
Consensus pattern (6 bp):
ATATAG
Found at i:32079189 original size:19 final size:19
Alignment explanation
Indices: 32079153--32079191 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
32079143 TTTCCATCAT
* *
32079153 AGTAAAATAAAATAATAAA
1 AGTAAAACAAAACAATAAA
*
32079172 AGTAAAACAAAACCATAAA
1 AGTAAAACAAAACAATAAA
32079191 A
1 A
32079192 ATAATTAAAA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.72, C:0.08, G:0.05, T:0.15
Consensus pattern (19 bp):
AGTAAAACAAAACAATAAA
Found at i:32079707 original size:27 final size:28
Alignment explanation
Indices: 32079655--32079724 Score: 106
Period size: 27 Copynumber: 2.5 Consensus size: 28
32079645 GTGACAGAGT
* *
32079655 CACCAGATACAGATATGTTGTGGCAGTGC
1 CACCAGA-ACAGATATGATGTGGCAGGGC
32079684 CACCAGAACAGATAT-ATGTGGCAGGGC
1 CACCAGAACAGATATGATGTGGCAGGGC
32079711 CACCAGAACAGATA
1 CACCAGAACAGATA
32079725 ATTTATGGCA
Statistics
Matches: 39, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
27 24 0.62
28 8 0.21
29 7 0.18
ACGTcount: A:0.34, C:0.23, G:0.26, T:0.17
Consensus pattern (28 bp):
CACCAGAACAGATATGATGTGGCAGGGC
Found at i:32079742 original size:28 final size:26
Alignment explanation
Indices: 32079655--32079744 Score: 99
Period size: 28 Copynumber: 3.2 Consensus size: 26
32079645 GTGACAGAGT
32079655 CACCAGATACAGATATGTTGTGGCAGTGC
1 CACCAGA-ACAGATAT-TTGTGGCA-TGC
* *
32079684 CACCAGAACAGATATATGTGGCAGGGC
1 CACCAGAACAGATATTTGTGGCA-TGC
*
32079711 CACCAGAACAGATAATTTATGGCATAGC
1 CACCAGAACAGAT-ATTTGTGGCAT-GC
32079739 CACCAG
1 CACCAG
32079745 GACGCTTCCT
Statistics
Matches: 54, Mismatches: 5, Indels: 5
0.84 0.08 0.08
Matches are distributed among these distances:
27 23 0.43
28 24 0.44
29 7 0.13
ACGTcount: A:0.33, C:0.23, G:0.24, T:0.19
Consensus pattern (26 bp):
CACCAGAACAGATATTTGTGGCATGC
Found at i:32090958 original size:29 final size:29
Alignment explanation
Indices: 32090916--32090997 Score: 155
Period size: 29 Copynumber: 2.8 Consensus size: 29
32090906 TGCAATGAAA
*
32090916 TCGCACACTTAGTGCTCGATAGTTTTACT
1 TCGCACACTTAGTGCTCGATAATTTTACT
32090945 TCGCACACTTAGTGCTCGATAATTTTACT
1 TCGCACACTTAGTGCTCGATAATTTTACT
32090974 TCGCACACTTAGTGCTCGATAATT
1 TCGCACACTTAGTGCTCGATAATT
32090998 CATATATATA
Statistics
Matches: 52, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
29 52 1.00
ACGTcount: A:0.23, C:0.24, G:0.16, T:0.37
Consensus pattern (29 bp):
TCGCACACTTAGTGCTCGATAATTTTACT
Found at i:32095110 original size:17 final size:16
Alignment explanation
Indices: 32095088--32095119 Score: 55
Period size: 17 Copynumber: 1.9 Consensus size: 16
32095078 TTTTCATACT
32095088 TTTAATTTTTAGTTTTC
1 TTTAATTTTTA-TTTTC
32095105 TTTAATTTTTATTTT
1 TTTAATTTTTATTTT
32095120 ATCATTTCTT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 4 0.27
17 11 0.73
ACGTcount: A:0.19, C:0.03, G:0.03, T:0.75
Consensus pattern (16 bp):
TTTAATTTTTATTTTC
Found at i:32095731 original size:29 final size:29
Alignment explanation
Indices: 32095698--32095766 Score: 86
Period size: 29 Copynumber: 2.4 Consensus size: 29
32095688 TAGGAACAGG
*
32095698 AAATTTCATTAGGATATCTTAGGTTAATT
1 AAATTTCATTAGGATATCTTAGATTAATT
* * *
32095727 AAATTTCGTTAGGTTATTTTAGATTAATT
1 AAATTTCATTAGGATATCTTAGATTAATT
*
32095756 -AATTTAATTAG
1 AAATTTCATTAG
32095767 TTTAATTAAT
Statistics
Matches: 34, Mismatches: 6, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
28 9 0.26
29 25 0.74
ACGTcount: A:0.35, C:0.04, G:0.13, T:0.48
Consensus pattern (29 bp):
AAATTTCATTAGGATATCTTAGATTAATT
Found at i:32098201 original size:27 final size:28
Alignment explanation
Indices: 32098117--32098214 Score: 135
Period size: 27 Copynumber: 3.5 Consensus size: 28
32098107 CATGAGATTG
* * * *
32098117 GCACTAAGTGTGCGGGTTTAAATTGTACA
1 GCACTAAGTGTGCGAGTTT-GATTATATA
32098146 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
32098174 GCACTAAGTGTGCGAG-TTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
32098201 GCACTGAGTGTGCG
1 GCACTAAGTGTGCG
32098215 GACTTAATAT
Statistics
Matches: 64, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
27 24 0.38
28 22 0.34
29 18 0.28
ACGTcount: A:0.27, C:0.13, G:0.29, T:0.32
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATATA
Found at i:32098225 original size:27 final size:27
Alignment explanation
Indices: 32098145--32098227 Score: 96
Period size: 27 Copynumber: 3.0 Consensus size: 27
32098135 TAAATTGTAC
* *
32098145 AGCACTAAGTGTGCGAGTTTGATTATAT
1 AGCACTAAGTGTGCGA-CTTGAATATAT
* *
32098173 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGACTTGAATATAT
*
32098200 AGCACTGAGTGTGCGGACTT-AATATAT
1 AGCACTAAGTGTGC-GACTTGAATATAT
32098227 A
1 A
32098228 TTTTTGAATC
Statistics
Matches: 50, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
27 30 0.60
28 20 0.40
ACGTcount: A:0.30, C:0.12, G:0.25, T:0.33
Consensus pattern (27 bp):
AGCACTAAGTGTGCGACTTGAATATAT
Found at i:32098228 original size:29 final size:27
Alignment explanation
Indices: 32098117--32098228 Score: 98
Period size: 28 Copynumber: 4.0 Consensus size: 27
32098107 CATGAGATTG
** * *
32098117 GCACTAAGTGTGCGGGTTTAAATTGTACA
1 GCACTAAGTGTGC-GACTT-AATTATATA
* *
32098146 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGA-CTTAATTATATA
* *
32098174 GCACTAAGTGTGCGAGTTGATTATATA
1 GCACTAAGTGTGCGACTTAATTATATA
*
32098201 GCACTGAGTGTGCGGACTTAATATATAT
1 GCACTAAGTGTGC-GACTTAAT-TATAT
32098229 TTTTGAATCA
Statistics
Matches: 72, Mismatches: 8, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
27 23 0.32
28 28 0.39
29 21 0.29
ACGTcount: A:0.29, C:0.12, G:0.26, T:0.33
Consensus pattern (27 bp):
GCACTAAGTGTGCGACTTAATTATATA
Found at i:32099950 original size:13 final size:13
Alignment explanation
Indices: 32099932--32099956 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
32099922 TAATTTATAT
32099932 GTGTGAAAATTTC
1 GTGTGAAAATTTC
32099945 GTGTGAAAATTT
1 GTGTGAAAATTT
32099957 TATCGTTTGA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.04, G:0.24, T:0.40
Consensus pattern (13 bp):
GTGTGAAAATTTC
Found at i:32101177 original size:43 final size:43
Alignment explanation
Indices: 32101058--32101177 Score: 138
Period size: 44 Copynumber: 2.8 Consensus size: 43
32101048 CATAGGATTC
32101058 CGATATGTGATT-CGTGTAAGACCACGTCTGGGACGTTGGCAT
1 CGATATGTGATTACGTGTAAGACCACGTCTGGGACGTTGGCAT
* * * *
32101100 CGATTTGTAATTTACGTGTAAGACC-CTATTTGGGACAG-TGGCAT
1 CGATATGTGA-TTACGTGTAAGACCAC-GTCTGGGAC-GTTGGCAT
* *
32101144 TGATATGTGATTACATGTAAGACCACGTCTGGGA
1 CGATATGTGATTACGTGTAAGACCACGTCTGGGA
32101178 TGTTTGCGTT
Statistics
Matches: 63, Mismatches: 10, Indels: 9
0.77 0.12 0.11
Matches are distributed among these distances:
42 8 0.13
43 22 0.35
44 32 0.51
45 1 0.02
ACGTcount: A:0.25, C:0.17, G:0.28, T:0.31
Consensus pattern (43 bp):
CGATATGTGATTACGTGTAAGACCACGTCTGGGACGTTGGCAT
Found at i:32107553 original size:32 final size:32
Alignment explanation
Indices: 32107516--32107579 Score: 128
Period size: 32 Copynumber: 2.0 Consensus size: 32
32107506 GATCTGAATT
32107516 TTAGATAGTGAGGTTAAAGAATTAAGAAATAA
1 TTAGATAGTGAGGTTAAAGAATTAAGAAATAA
32107548 TTAGATAGTGAGGTTAAAGAATTAAGAAATAA
1 TTAGATAGTGAGGTTAAAGAATTAAGAAATAA
32107580 GAAAATCTCT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.22, T:0.28
Consensus pattern (32 bp):
TTAGATAGTGAGGTTAAAGAATTAAGAAATAA
Found at i:32110601 original size:46 final size:46
Alignment explanation
Indices: 32110551--32110723 Score: 190
Period size: 46 Copynumber: 3.7 Consensus size: 46
32110541 TGGTTGAGCA
* *
32110551 TCCGAACTCGTTGAGTTGAGTCCAAGTTCACTTATGGATGCAAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* * * *
32110597 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAA--A--CG
* * *
32110644 TCCGAACTCGTTGAGTTGAGTCCGAGTTCATTTATGGATACGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* *
32110690 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
32110724 GGGGCGGGTT
Statistics
Matches: 105, Mismatches: 15, Indels: 14
0.78 0.11 0.10
Matches are distributed among these distances:
43 6 0.06
45 3 0.03
46 60 0.57
47 29 0.28
48 3 0.03
50 4 0.04
ACGTcount: A:0.23, C:0.21, G:0.27, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
Found at i:32110707 original size:93 final size:93
Alignment explanation
Indices: 32110548--32110718 Score: 279
Period size: 93 Copynumber: 1.8 Consensus size: 93
32110538 GGATGGTTGA
* * *
32110548 GCATCCGAACTCGTTGAGTTGAGTCCAAGTTCACTTATGGATGCAAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCAAGTTCACTTATGGATACAAACGCCCGAACTCGTTGAGT
32110613 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
* * * *
32110641 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCATTTATGGATACGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCAAGTTCACTTATGGATACAAACGCCCGAACTCGTTGAGT
32110706 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
32110719 ACTTAGGGGC
Statistics
Matches: 71, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
93 71 1.00
ACGTcount: A:0.23, C:0.21, G:0.27, T:0.29
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCAAGTTCACTTATGGATACAAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:32118190 original size:46 final size:46
Alignment explanation
Indices: 32118140--32118312 Score: 208
Period size: 46 Copynumber: 3.7 Consensus size: 46
32118130 TGGTTGAGCA
* *
32118140 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTAAACG
* * *
32118186 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTAA--A--CG
* *
32118233 TCCGAACTCGTTGAGTTGAGTCCGAGTTCATTTATGGATGTGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTAAACG
* *
32118279 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
32118313 GGGGCGGGTT
Statistics
Matches: 108, Mismatches: 12, Indels: 14
0.81 0.09 0.10
Matches are distributed among these distances:
43 6 0.06
45 3 0.03
46 61 0.56
47 29 0.27
48 3 0.03
50 6 0.06
ACGTcount: A:0.22, C:0.20, G:0.28, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTAAACG
Found at i:32118296 original size:93 final size:93
Alignment explanation
Indices: 32118137--32118307 Score: 288
Period size: 93 Copynumber: 1.8 Consensus size: 93
32118127 GGATGGTTGA
* *
32118137 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCGTTGAGT
32118202 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
* ** *
32118230 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCATTTATGGATGTGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCGTTGAGT
32118295 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
32118308 ACTTAGGGGC
Statistics
Matches: 72, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
93 72 1.00
ACGTcount: A:0.22, C:0.20, G:0.29, T:0.29
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:32118574 original size:19 final size:20
Alignment explanation
Indices: 32118537--32118574 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
32118527 ATAAGGTGGT
32118537 AAGATGATGAATGATGTTTA
1 AAGATGATGAATGATGTTTA
32118557 AAGATG-TGATAT-ATGTTT
1 AAGATGATGA-ATGATGTTT
32118575 TGGTGGTACC
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.37, C:0.00, G:0.24, T:0.39
Consensus pattern (20 bp):
AAGATGATGAATGATGTTTA
Found at i:32122732 original size:37 final size:37
Alignment explanation
Indices: 32122682--32122760 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
32122672 TTATTACGAA
* * *
32122682 GTCTTACCCGGACATAATCTCCACACGAAGTTATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
*
32122719 GTCTTACCCGGACAAAATCCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
32122756 GTCTT
1 GTCTT
32122761 TAGAGCTCGG
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.25, C:0.32, G:0.19, T:0.24
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
Found at i:32123029 original size:47 final size:47
Alignment explanation
Indices: 32122878--32123279 Score: 657
Period size: 47 Copynumber: 8.6 Consensus size: 47
32122868 GCCCTTGGGA
* * * * * *
32122878 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACT-CGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
32122924 CCTGTCACATATATACACTTTCACATTCAACACATC-GCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
32122970 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
32123017 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAAGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
32123064 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
32123111 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
32123158 CTTATCACATATATACAC-TTCACATTCATCACATTGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
32123204 CTTATCACATATATATACACTTTCACATTTATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
32123253 CTTATCACATATATACACTTTCACATT
1 CTTATCACATATATACACTTTCACATT
32123280 ACCAACCCTT
Statistics
Matches: 334, Mismatches: 17, Indels: 9
0.93 0.05 0.03
Matches are distributed among these distances:
45 5 0.01
46 99 0.30
47 186 0.56
48 10 0.03
49 34 0.10
ACGTcount: A:0.30, C:0.30, G:0.08, T:0.33
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:32123615 original size:79 final size:82
Alignment explanation
Indices: 32123504--32123688 Score: 229
Period size: 79 Copynumber: 2.3 Consensus size: 82
32123494 GCTACTCGTT
* *
32123504 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCACACAAATGCCTTCGGGA-CTTAACCC
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCACACAAATGCCTTC-GGATCTTAACCC
* *
32123567 GGATTTAGTAAC-TCGCA
65 GGATATAGTAACTTAGCA
* * **
32123584 CAAATGCCTTCGGG-CTTAGCCCGGAAT-TAGTATCTCGCACAAATGCCTTCGGATCTTAGTCCG
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCACACAAATGCCTTCGGATCTTAACCCG
* *
32123647 GATATGGTCACTTAGCA
66 GATATAGTAACTTAGCA
32123664 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
32123689 CATCATTCAA
Statistics
Matches: 91, Mismatches: 10, Indels: 8
0.83 0.09 0.07
Matches are distributed among these distances:
78 3 0.03
79 54 0.59
80 34 0.37
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (82 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCACACAAATGCCTTCGGATCTTAACCCG
GATATAGTAACTTAGCA
Found at i:32123688 original size:40 final size:41
Alignment explanation
Indices: 32123504--32123688 Score: 204
Period size: 40 Copynumber: 4.6 Consensus size: 41
32123494 GCTACTCGTT
* * *
32123504 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCA-CA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTTAGCA
* * *
32123544 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAAC-TCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTTAGCA
* *
32123584 CAAATGCCTTCGGG-CTTAGCCCGGA-ATTAGTATC-TCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATA-TAGTAACTTAGCA
* * *
32123623 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATATAGTAACTTAGCA
32123664 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
32123689 CATCATTCAA
Statistics
Matches: 123, Mismatches: 15, Indels: 14
0.81 0.10 0.09
Matches are distributed among these distances:
38 2 0.02
39 32 0.26
40 77 0.63
41 12 0.10
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (41 bp):
CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTTAGCA
Found at i:32128693 original size:43 final size:43
Alignment explanation
Indices: 32128632--32128719 Score: 176
Period size: 43 Copynumber: 2.0 Consensus size: 43
32128622 TTCTGGACAT
32128632 ATTGGTGGACATGGTCGAGGACATACTAGTAATTGTTATCATG
1 ATTGGTGGACATGGTCGAGGACATACTAGTAATTGTTATCATG
32128675 ATTGGTGGACATGGTCGAGGACATACTAGTAATTGTTATCATG
1 ATTGGTGGACATGGTCGAGGACATACTAGTAATTGTTATCATG
32128718 AT
1 AT
32128720 GTTCATAGTA
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
43 45 1.00
ACGTcount: A:0.28, C:0.11, G:0.27, T:0.33
Consensus pattern (43 bp):
ATTGGTGGACATGGTCGAGGACATACTAGTAATTGTTATCATG
Found at i:32129146 original size:65 final size:64
Alignment explanation
Indices: 32129042--32129162 Score: 190
Period size: 65 Copynumber: 1.9 Consensus size: 64
32129032 ATCATTAGAA
* *
32129042 AAGTTGGTGTTATTTTAGCATTTTATGTTATTTTTAAGTATGTTTCGTTTTCTTGCATAAATAAT
1 AAGTTGGTGTTATTTTAGCATTTTATGATATTTTTAAGTATGTTT-ATTTTCTTGCATAAATAAT
*
32129107 AAGTTGGTGTTATTTTGGCATTTTTATGATA-TTTTAAGTATGTTTATTTTCTTGCA
1 AAGTTGGTGTTATTTTAGCA-TTTTATGATATTTTTAAGTATGTTTATTTTCTTGCA
32129163 AATTATACAT
Statistics
Matches: 52, Mismatches: 3, Indels: 3
0.90 0.05 0.05
Matches are distributed among these distances:
64 10 0.19
65 33 0.63
66 9 0.17
ACGTcount: A:0.23, C:0.06, G:0.17, T:0.55
Consensus pattern (64 bp):
AAGTTGGTGTTATTTTAGCATTTTATGATATTTTTAAGTATGTTTATTTTCTTGCATAAATAAT
Found at i:32131542 original size:18 final size:18
Alignment explanation
Indices: 32131519--32131568 Score: 100
Period size: 18 Copynumber: 2.8 Consensus size: 18
32131509 AATTTATATG
32131519 AAAATCCTAGAAGGGTTT
1 AAAATCCTAGAAGGGTTT
32131537 AAAATCCTAGAAGGGTTT
1 AAAATCCTAGAAGGGTTT
32131555 AAAATCCTAGAAGG
1 AAAATCCTAGAAGG
32131569 ATATAGAGTT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 32 1.00
ACGTcount: A:0.42, C:0.12, G:0.22, T:0.24
Consensus pattern (18 bp):
AAAATCCTAGAAGGGTTT
Found at i:32136089 original size:123 final size:123
Alignment explanation
Indices: 32135598--32136081 Score: 923
Period size: 123 Copynumber: 3.9 Consensus size: 123
32135588 ATGAGGTGAA
*
32135598 AAGTGCAATTATGGAGGATTCTGTTGAATGTAAGAAATGCACACATAGTGATTATGATGTTGTGA
1 AAGTGCAATTATGGAGGATTCTGTTGAATGTAAGAAATGCACACATAGTGATGATGATGTTGTGA
32135663 AGTTGGATTCAAGTGACATTAAGGAAAAATTGTCTTCAAATAAGAGGAAGAGGGATTC
66 AGTTGGATTCAAGTGACATTAAGGAAAAATTGTCTTCAAATAAGAGGAAGAGGGATTC
*
32135721 AAGTGCAATTATGGAGGATTCTGTTGAATGTAAGAAATGCACACATTGTGATGATGATGTTGTGA
1 AAGTGCAATTATGGAGGATTCTGTTGAATGTAAGAAATGCACACATAGTGATGATGATGTTGTGA
32135786 AGTTGGATTCAAGTGACATTAAGGAAAAATTGTCTTCAAATAAGAGGAAGAGGGATTC
66 AGTTGGATTCAAGTGACATTAAGGAAAAATTGTCTTCAAATAAGAGGAAGAGGGATTC
32135844 AAGTGCAATTATGGAGGATTCTGTTGAATGTAAGAAATGCACACATAGTGATGATGATGTTGTGA
1 AAGTGCAATTATGGAGGATTCTGTTGAATGTAAGAAATGCACACATAGTGATGATGATGTTGTGA
32135909 AGTTGGATTCAAGTGACATTAAGGAAAAATTGTCTTCAAATAAGAGGAAGAGGGATTC
66 AGTTGGATTCAAGTGACATTAAGGAAAAATTGTCTTCAAATAAGAGGAAGAGGGATTC
*
32135967 AAGTGCAATTATGGAGGATTCTGTTGAATGTAAGAAATACACACATAGTGATGATGATGTTGTGA
1 AAGTGCAATTATGGAGGATTCTGTTGAATGTAAGAAATGCACACATAGTGATGATGATGTTGTGA
* *
32136032 AGTTGGATTCAAGTGACATTAAGGAAAACTTTTCTTCAAATAAGAGGAAG
66 AGTTGGATTCAAGTGACATTAAGGAAAAATTGTCTTCAAATAAGAGGAAG
32136082 CTGGATTCTA
Statistics
Matches: 355, Mismatches: 6, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
123 355 1.00
ACGTcount: A:0.37, C:0.08, G:0.26, T:0.29
Consensus pattern (123 bp):
AAGTGCAATTATGGAGGATTCTGTTGAATGTAAGAAATGCACACATAGTGATGATGATGTTGTGA
AGTTGGATTCAAGTGACATTAAGGAAAAATTGTCTTCAAATAAGAGGAAGAGGGATTC
Found at i:32144511 original size:18 final size:18
Alignment explanation
Indices: 32144488--32144523 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
32144478 GAGTATTTGT
32144488 TTCTTAGTCAAACAAGAA
1 TTCTTAGTCAAACAAGAA
* *
32144506 TTCTTAGTTAAATAAGAA
1 TTCTTAGTCAAACAAGAA
32144524 AGTTTAGTTT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.44, C:0.11, G:0.11, T:0.33
Consensus pattern (18 bp):
TTCTTAGTCAAACAAGAA
Found at i:32145235 original size:28 final size:27
Alignment explanation
Indices: 32145203--32145256 Score: 72
Period size: 28 Copynumber: 2.0 Consensus size: 27
32145193 TTCGTCAGTT
* *
32145203 TATTTAGTGAGCTAGGGGTTCTCTAGTC
1 TATTTAGCGAGCTA-GGGTTCGCTAGTC
*
32145231 TATTTGGCGAGCTAGGGTTCGCTAGT
1 TATTTAGCGAGCTAGGGTTCGCTAGT
32145257 TTGTTTGGCG
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
27 11 0.48
28 12 0.52
ACGTcount: A:0.17, C:0.15, G:0.31, T:0.37
Consensus pattern (27 bp):
TATTTAGCGAGCTAGGGTTCGCTAGTC
Found at i:32145256 original size:27 final size:28
Alignment explanation
Indices: 32145211--32145280 Score: 81
Period size: 27 Copynumber: 2.5 Consensus size: 28
32145201 TTTATTTAGT
*
32145211 GAGCTAGGGGTTCTCTAGTCTATTTGGC
1 GAGCTAGGGGTTCGCTAGTCTATTTGGC
* *
32145239 GAGCTA-GGGTTCGCTAGTTTGTTTGGC
1 GAGCTAGGGGTTCGCTAGTCTATTTGGC
*
32145266 GAACT-GGTGGTTCGC
1 GAGCTAGG-GGTTCGC
32145281 CATGTAAGTT
Statistics
Matches: 36, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
27 23 0.64
28 13 0.36
ACGTcount: A:0.13, C:0.17, G:0.36, T:0.34
Consensus pattern (28 bp):
GAGCTAGGGGTTCGCTAGTCTATTTGGC
Found at i:32148088 original size:18 final size:18
Alignment explanation
Indices: 32148052--32148089 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
32148042 TCAAGTATGT
*
32148052 ATGATACCTATGTGGTAA
1 ATGATACCTATGTGATAA
32148070 ATGATA-CTATGTGAATAA
1 ATGATACCTATGTG-ATAA
32148088 AT
1 AT
32148090 CTTCATAAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
17 7 0.39
18 11 0.61
ACGTcount: A:0.39, C:0.08, G:0.18, T:0.34
Consensus pattern (18 bp):
ATGATACCTATGTGATAA
Found at i:32169030 original size:30 final size:30
Alignment explanation
Indices: 32168994--32169054 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 30
32168984 TTCCCGAGCC
32168994 TAGGGGCAAAAGTGTAAATATGCAAAAGTT
1 TAGGGGCAAAAGTGTAAATATGCAAAAGTT
* * * *
32169024 TAGGGGCAAAATTGTAATTTTGCCAAAGTT
1 TAGGGGCAAAAGTGTAAATATGCAAAAGTT
32169054 T
1 T
32169055 GAGTTAAGGA
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.38, C:0.08, G:0.25, T:0.30
Consensus pattern (30 bp):
TAGGGGCAAAAGTGTAAATATGCAAAAGTT
Found at i:32173890 original size:46 final size:49
Alignment explanation
Indices: 32173746--32174156 Score: 310
Period size: 47 Copynumber: 8.7 Consensus size: 49
32173736 TTAGTGTGCT
* *
32173746 AGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCAC-ATTATG-AGAGCC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGA-GATGTAGAGCC
* * * **
32173792 AGTGTAAGACCATGTCTGGGACATGGCATCGGCATTGAAATG-AGAGAT
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGAGATGTAGAGCC
32173840 AGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCTCGAGATGTA-AGCC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGAGATGTAGAGCC
* *
32173886 AGTGTACGA-CATGTCTGGGACAT-GCATCGG-CTACAAGATGT---GCC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCCT-CGAGATGTAGAGCC
* * * * *
32173930 AGTATAAGACCATGTCTGGGACATGGAATCAGTACCT-GTAG-TG--GTGTC
1 AGTGTAAGACCATGTCTGGGACATGGCATC-G-GCCTCG-AGATGTAGAGCC
* * * * *
32173978 AATGTAAGACCATGTCTGGGAAATGGCATCGGCAC-AGATATGTGAGAGCT
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGC-CTCGAGATGT-AGAGCC
* * * *
32174028 AGTGTAAGACCATGTCTGGGACATGGCGTCGGCCTCGA-ATTTGATAGTC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGAGATGT-AGAGCC
** ** *
32174077 AGTGTAAGACCATGTCTGGGACATGGCATC--TAT-TTGATGGATGAGCC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGAGATGTA-GAGCC
* *
32174124 AGTGTAAAACCATGTTTGGGACATGGCATCGGC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGC
32174157 ATTATACCCT
Statistics
Matches: 293, Mismatches: 48, Indels: 45
0.76 0.12 0.12
Matches are distributed among these distances:
44 10 0.03
45 16 0.05
46 68 0.23
47 71 0.24
48 54 0.18
49 40 0.14
50 34 0.12
ACGTcount: A:0.27, C:0.19, G:0.30, T:0.24
Consensus pattern (49 bp):
AGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGAGATGTAGAGCC
Found at i:32182558 original size:27 final size:27
Alignment explanation
Indices: 32182520--32182694 Score: 172
Period size: 27 Copynumber: 6.4 Consensus size: 27
32182510 TTGAGTCCGT
* * * *
32182520 ACACTCAGTGCTATATAATCAACTCGC
1 ACACTTAGTGCTACATAGTCAAATCGC
* * *
32182547 ACACTTAGTGCTACGTAATCAAATTGC
1 ACACTTAGTGCTACATAGTCAAATCGC
*
32182574 ACACTTAGTGCTACATAGTCAACCTCGC
1 ACACTTAGTGCTACATAGTCAA-ATCGC
** * *
32182602 ACACTTAGTGCCGCATGGTCAATTCGC
1 ACACTTAGTGCTACATAGTCAAATCGC
* **
32182629 ACACTTAGTGC-ATCATATTCATTTCGC
1 ACACTTAGTGCTA-CATAGTCAAATCGC
* *
32182656 ACACTTAGTGCAACATAGTTAAATCGC
1 ACACTTAGTGCTACATAGTCAAATCGC
32182683 ACACTTAGTGCT
1 ACACTTAGTGCT
32182695 GTACAATTTA
Statistics
Matches: 123, Mismatches: 22, Indels: 6
0.81 0.15 0.04
Matches are distributed among these distances:
27 100 0.81
28 23 0.19
ACGTcount: A:0.30, C:0.27, G:0.15, T:0.29
Consensus pattern (27 bp):
ACACTTAGTGCTACATAGTCAAATCGC
Found at i:32182658 original size:82 final size:81
Alignment explanation
Indices: 32182538--32182693 Score: 208
Period size: 82 Copynumber: 1.9 Consensus size: 81
32182528 TGCTATATAA
* * *
32182538 TCAACTCGCACACTTAGTGCTACGTAATCAAATTGCACACTTAGTGCTACATAGTCAACCTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATTGCACACTTAGTGCAACATAGTCAA-ATCGCA
32182603 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * * *
32182620 TCAATTCGCACACTTAGTGC-ATCATATTC-ATTTCGCACACTTAGTGCAACATAGTTAAATCGC
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATT-GCACACTTAGTGCAACATAGTCAAATCGC
32182683 ACACTTAGTGC
64 ACACTTAGTGC
32182694 TGTACAATTT
Statistics
Matches: 65, Mismatches: 7, Indels: 5
0.84 0.09 0.06
Matches are distributed among these distances:
81 19 0.29
82 46 0.71
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.28
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATTGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:32183456 original size:2 final size:2
Alignment explanation
Indices: 32183449--32183479 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
32183439 ATGGGCTTAC
*
32183449 AT AT AT AT GT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
32183480 GCCGAATATG
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.03, T:0.48
Consensus pattern (2 bp):
AT
Found at i:32184247 original size:21 final size:20
Alignment explanation
Indices: 32184214--32184253 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
32184204 ATTCATCCTT
* *
32184214 TTTTCTTTTTAATTCACTTC
1 TTTTATTTTTAATCCACTTC
32184234 TTTTATTTTCTAATCCACTT
1 TTTTATTTT-TAATCCACTT
32184254 ACCAATATTA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 8 0.47
21 9 0.53
ACGTcount: A:0.17, C:0.20, G:0.00, T:0.62
Consensus pattern (20 bp):
TTTTATTTTTAATCCACTTC
Found at i:32199005 original size:46 final size:47
Alignment explanation
Indices: 32198810--32199079 Score: 223
Period size: 46 Copynumber: 5.7 Consensus size: 47
32198800 TTAAGTTGCT
* *
32198810 GATGCCATGTCCTAGACATGGTCTTACACTAGCTATCCTCATCGAGGCC
1 GATGCCATGTCCTAGACATGGTCTTACACTGGCTA-CATC-TCGAGGCC
* * * * * *
32198859 GATGCCATGT-CTCAGACATGGTCTTACACTAGTTCTTGCATATCCATGTC
1 GATGCCATGTCCT-AGACATGGTCTTACACT-G-GC-TACATCTCGAGGCC
* ** * **
32198909 GATACCATGTCCCGGACATGGTCTTACACTGAC-ATGTCTCGTA-GCC
1 GATGCCATGTCCTAGACATGGTCTTACACTGGCTACATCTCG-AGGCC
32198955 GATG-CATGTCCTAGACAT-GTCTTACACTGGCTTACATCTCGAGGCC
1 GATGCCATGTCCTAGACATGGTCTTACACTGGC-TACATCTCGAGGCC
** * * *
32199001 GATG-CATGTCCCGGACAT-GTCTTACACTGGC-ACTCGTCTCAATGCC
1 GATGCCATGTCCTAGACATGGTCTTACACTGGCTA--CATCTCGAGGCC
32199047 GATGCCATGTCCTAGACATGGTCTTACACTGGC
1 GATGCCATGTCCTAGACATGGTCTTACACTGGC
32199080 ACACAAATTA
Statistics
Matches: 177, Mismatches: 31, Indels: 27
0.75 0.13 0.11
Matches are distributed among these distances:
44 13 0.07
45 13 0.07
46 59 0.33
47 13 0.07
48 16 0.09
49 28 0.16
50 30 0.17
51 4 0.02
52 1 0.01
ACGTcount: A:0.21, C:0.29, G:0.21, T:0.28
Consensus pattern (47 bp):
GATGCCATGTCCTAGACATGGTCTTACACTGGCTACATCTCGAGGCC
Found at i:32215322 original size:12 final size:13
Alignment explanation
Indices: 32215305--32215342 Score: 51
Period size: 14 Copynumber: 2.9 Consensus size: 13
32215295 ATCCTAGAAT
32215305 ATTAAG-ACAAGA
1 ATTAAGAACAAGA
*
32215317 ATTAAGAACACATA
1 ATTAAGAACA-AGA
32215331 ATTAAGAACAAG
1 ATTAAGAACAAG
32215343 TCAAATATTT
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
12 6 0.27
13 4 0.18
14 12 0.55
ACGTcount: A:0.58, C:0.11, G:0.13, T:0.18
Consensus pattern (13 bp):
ATTAAGAACAAGA
Found at i:32216183 original size:44 final size:46
Alignment explanation
Indices: 32216116--32216279 Score: 151
Period size: 46 Copynumber: 3.6 Consensus size: 46
32216106 TATTCATGTT
32216116 GATGCCATGTCCCAGA-ATGGTCTTACACTGACATGTCTCGTA-GCC
1 GATGCCATGTCCCAGACATGGTCTTACACTGACATGTCTCG-AGGCC
* * *
32216161 GATG-CATGTCCCAGACAT-GTCTTACACTGGCTTACGTCTAGAGGCC
1 GATGCCATGTCCCAGACATGGTCTTACACTGAC--ATGTCTCGAGGCC
* * * * * * *
32216207 GAT-ACAAGTCCCAGACAT-GTCTGACACTGGCACTTGTATCAATGCC
1 GATGCCATGTCCCAGACATGGTCTTACACT-G-ACATGTCTCGAGGCC
32216253 GATGCCATGTCCCAGACATGGTCTTAC
1 GATGCCATGTCCCAGACATGGTCTTAC
32216280 GCTGGCACAC
Statistics
Matches: 95, Mismatches: 15, Indels: 15
0.76 0.12 0.12
Matches are distributed among these distances:
44 23 0.24
45 7 0.07
46 44 0.46
47 14 0.15
48 7 0.07
ACGTcount: A:0.24, C:0.29, G:0.22, T:0.26
Consensus pattern (46 bp):
GATGCCATGTCCCAGACATGGTCTTACACTGACATGTCTCGAGGCC
Found at i:32217020 original size:12 final size:12
Alignment explanation
Indices: 32217003--32217027 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
32216993 CAAAAATGTA
32217003 AAAATCATCAAG
1 AAAATCATCAAG
32217015 AAAATCATCAAG
1 AAAATCATCAAG
32217027 A
1 A
32217028 TCACTTACTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.60, C:0.16, G:0.08, T:0.16
Consensus pattern (12 bp):
AAAATCATCAAG
Found at i:32227830 original size:13 final size:13
Alignment explanation
Indices: 32227812--32227841 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
32227802 GCCTGGACTT
*
32227812 TGTCACACGGGCG
1 TGTCACACGGCCG
32227825 TGTCACACGGCCG
1 TGTCACACGGCCG
32227838 TGTC
1 TGTC
32227842 CTTTTGGCAG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.13, C:0.33, G:0.33, T:0.20
Consensus pattern (13 bp):
TGTCACACGGCCG
Found at i:32230695 original size:30 final size:30
Alignment explanation
Indices: 32230661--32230721 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
32230651 TCCTTAACTC
32230661 AAACTTTGGAAAAATTACAATTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
* * * * *
32230691 AAACTTTTGCATATTTACACTTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
32230721 A
1 A
32230722 GGCTCAGGAA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.31, C:0.23, G:0.08, T:0.38
Consensus pattern (30 bp):
AAACTTTGGAAAAATTACAATTTTGCCCCT
Found at i:32241650 original size:17 final size:17
Alignment explanation
Indices: 32241628--32241666 Score: 53
Period size: 17 Copynumber: 2.3 Consensus size: 17
32241618 TCACTTACCA
*
32241628 TGTGTCACGCAC-AGCTG
1 TGTGTCACACACGA-CTG
32241645 TGTGTCACACACGACTG
1 TGTGTCACACACGACTG
32241662 TGTGT
1 TGTGT
32241667 TAGCCCATGT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
17 19 0.95
18 1 0.05
ACGTcount: A:0.18, C:0.26, G:0.28, T:0.28
Consensus pattern (17 bp):
TGTGTCACACACGACTG
Found at i:32242590 original size:19 final size:20
Alignment explanation
Indices: 32242566--32242607 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
32242556 GTCCCAAAGC
*
32242566 CATTC-AATTTATACAATGT
1 CATTCAAATTAATACAATGT
*
32242585 CATTCAAATTAATTCAATGT
1 CATTCAAATTAATACAATGT
32242605 CAT
1 CAT
32242608 CTAATAAGTA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
19 5 0.25
20 15 0.75
ACGTcount: A:0.38, C:0.17, G:0.05, T:0.40
Consensus pattern (20 bp):
CATTCAAATTAATACAATGT
Found at i:32245872 original size:79 final size:81
Alignment explanation
Indices: 32245736--32245920 Score: 227
Period size: 79 Copynumber: 2.3 Consensus size: 81
32245726 TTGAATGATG
* *
32245736 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCAAT
32245800 TGTGCGAGATACTA-A
66 TGTGCGAGATACTATA
* * * **
32245815 TTCCGGGCTAAG-CCCGAAGGCATTTGTG-TGAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCA
1 -TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCA
*
32245877 ATTGTGCGAGTTACTATA
64 ATTGTGCGAGATACTATA
* *
32245895 ACCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
32245921 AACGAGTAGC
Statistics
Matches: 91, Mismatches: 10, Indels: 8
0.83 0.09 0.07
Matches are distributed among these distances:
78 1 0.01
79 58 0.64
80 32 0.35
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCAAT
TGTGCGAGATACTATA
Found at i:32245934 original size:40 final size:40
Alignment explanation
Indices: 32245737--32245920 Score: 198
Period size: 40 Copynumber: 4.6 Consensus size: 40
32245727 TGAATGATGT
* * * *
32245737 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTATAA
* * *
32245777 CCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTA-ATT
1 CCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTATA-A
*
32245817 CCGGGCTAAG-CCCGAAGGCATTTGTGTGAGTTACTA-AA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
* *
32245855 TCCGGGTTAAGTCCCGAAGGCAATTGTGCGAGTTACTATAA
1 -CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
*
32245896 CCGGGCTATGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
32245921 AACGAGTAGC
Statistics
Matches: 122, Mismatches: 15, Indels: 14
0.81 0.10 0.09
Matches are distributed among these distances:
39 34 0.28
40 78 0.64
41 10 0.08
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
Found at i:32245942 original size:79 final size:79
Alignment explanation
Indices: 32245789--32245953 Score: 192
Period size: 79 Copynumber: 2.1 Consensus size: 79
32245779 GGACTAAGAT
* * ***
32245789 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTTGTGTGAGTTACTAA
1 CCGAAGGCAATTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAA
*
32245854 ATCCGGGTTAAGTC
66 ATCCGGGTTAAATC
* *
32245868 CCGAAGGCAATTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGC
1 CCGAAGGCAATTGTGCGAGATACTAAT-ACCGGGCTAAG-CCCGAAGGCATTTGAACGAGTTA-C
* *
32245931 TATATCC-GGTTAAATT
63 TAAATCCGGGTTAAATC
32245947 CCGAAGG
1 CCGAAGG
32245954 TACGTGATTT
Statistics
Matches: 73, Mismatches: 10, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
78 2 0.03
79 47 0.64
80 24 0.33
ACGTcount: A:0.27, C:0.21, G:0.27, T:0.25
Consensus pattern (79 bp):
CCGAAGGCAATTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAA
ATCCGGGTTAAATC
Found at i:32253807 original size:79 final size:81
Alignment explanation
Indices: 32253671--32253855 Score: 227
Period size: 79 Copynumber: 2.3 Consensus size: 81
32253661 TTGAATGATG
* *
32253671 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCAAT
32253735 TGTGCGAGATACTA-A
66 TGTGCGAGATACTATA
* * * **
32253750 TTCCGGGCTAAG-CCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCA
1 -TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCA
*
32253812 ATTGTGCGAGTTACTATA
64 ATTGTGCGAGATACTATA
* *
32253830 ACCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
32253856 AACGAGTAGC
Statistics
Matches: 91, Mismatches: 10, Indels: 8
0.83 0.09 0.07
Matches are distributed among these distances:
78 1 0.01
79 57 0.63
80 33 0.36
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.25
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCAAT
TGTGCGAGATACTATA
Found at i:32253869 original size:40 final size:40
Alignment explanation
Indices: 32253672--32253855 Score: 207
Period size: 40 Copynumber: 4.6 Consensus size: 40
32253662 TGAATGATGT
* * * *
32253672 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTATAA
* * *
32253712 CCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTA-ATT
1 CCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTATA-A
32253752 CCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTA-AA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
* *
32253790 TCCGGGTTAAGTCCCGAAGGCAATTGTGCGAGTTACTATAA
1 -CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
*
32253831 CCGGGCTATGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
32253856 AACGAGTAGC
Statistics
Matches: 124, Mismatches: 13, Indels: 14
0.82 0.09 0.09
Matches are distributed among these distances:
39 35 0.28
40 79 0.64
41 10 0.08
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.24
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
Found at i:32253877 original size:79 final size:79
Alignment explanation
Indices: 32253724--32253888 Score: 201
Period size: 79 Copynumber: 2.1 Consensus size: 79
32253714 GGACTAAGAT
* * **
32253724 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAA
1 CCGAAGGCAATTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAA
*
32253789 ATCCGGGTTAAGTC
66 ATCCGGGTTAAATC
* *
32253803 CCGAAGGCAATTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGC
1 CCGAAGGCAATTGTGCGAGATACTAAT-ACCGGGCTAAG-CCCGAAGGCATTTGAACGAGTTA-C
* *
32253866 TATATCC-GGTTAAATT
63 TAAATCCGGGTTAAATC
32253882 CCGAAGG
1 CCGAAGG
32253889 TACGTGATTT
Statistics
Matches: 74, Mismatches: 9, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
78 2 0.03
79 47 0.64
80 25 0.34
ACGTcount: A:0.27, C:0.21, G:0.27, T:0.25
Consensus pattern (79 bp):
CCGAAGGCAATTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAA
ATCCGGGTTAAATC
Found at i:32256554 original size:41 final size:41
Alignment explanation
Indices: 32256509--32256591 Score: 157
Period size: 41 Copynumber: 2.0 Consensus size: 41
32256499 TACTTGAGTT
32256509 AGTGCGTGAAAAAGAAGAAAAAGTCTATGTTATCCATAGTC
1 AGTGCGTGAAAAAGAAGAAAAAGTCTATGTTATCCATAGTC
*
32256550 AGTGCGTGAAACAGAAGAAAAAGTCTATGTTATCCATAGTC
1 AGTGCGTGAAAAAGAAGAAAAAGTCTATGTTATCCATAGTC
32256591 A
1 A
32256592 TTTGAAAGAT
Statistics
Matches: 41, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 41 1.00
ACGTcount: A:0.41, C:0.13, G:0.22, T:0.24
Consensus pattern (41 bp):
AGTGCGTGAAAAAGAAGAAAAAGTCTATGTTATCCATAGTC
Found at i:32260328 original size:15 final size:15
Alignment explanation
Indices: 32260293--32260321 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
32260283 TTGGATCGTA
32260293 CATACTAGCATGTTG
1 CATACTAGCATGTTG
32260308 CATACTAGCATGTT
1 CATACTAGCATGTT
32260322 CTGTACTTTG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.28, C:0.21, G:0.17, T:0.34
Consensus pattern (15 bp):
CATACTAGCATGTTG
Found at i:32267894 original size:23 final size:23
Alignment explanation
Indices: 32267864--32267910 Score: 85
Period size: 23 Copynumber: 2.0 Consensus size: 23
32267854 TGACGATTGT
*
32267864 TTAATGTTCAGAAATCGGATATG
1 TTAATGTTCAGAAATCAGATATG
32267887 TTAATGTTCAGAAATCAGATATG
1 TTAATGTTCAGAAATCAGATATG
32267910 T
1 T
32267911 GTACCAAATA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.36, C:0.09, G:0.19, T:0.36
Consensus pattern (23 bp):
TTAATGTTCAGAAATCAGATATG
Found at i:32270588 original size:55 final size:55
Alignment explanation
Indices: 32270454--32270590 Score: 138
Period size: 55 Copynumber: 2.5 Consensus size: 55
32270444 TTTAAGGATA
* * *
32270454 CCAA-GTAAGACCATGCCAAGGCATGGCATTGGTAAGTTCTAAAAGGCAAGGAAAT
1 CCAATGTAAGACCATGCCAAGGCATGGCATTGATAACTACTAAAAGGCAA-GAAAT
* * ** * * *
32270509 -C-ATGTAATACCGTGTTAAGACATGGCATTGATAAACTACTATAAGGCAA-AGAT
1 CCAATGTAAGACCATGCCAAGGCATGGCATTGAT-AACTACTAAAAGGCAAGAAAT
32270562 CCAATGTAAGACCATGCCAAGGCATGGCA
1 CCAATGTAAGACCATGCCAAGGCATGGCA
32270591 ATGGTGAGTT
Statistics
Matches: 63, Mismatches: 15, Indels: 8
0.73 0.17 0.09
Matches are distributed among these distances:
53 4 0.06
54 25 0.40
55 34 0.54
ACGTcount: A:0.38, C:0.19, G:0.23, T:0.20
Consensus pattern (55 bp):
CCAATGTAAGACCATGCCAAGGCATGGCATTGATAACTACTAAAAGGCAAGAAAT
Found at i:32272959 original size:18 final size:17
Alignment explanation
Indices: 32272930--32272981 Score: 59
Period size: 18 Copynumber: 2.9 Consensus size: 17
32272920 ATTTCAGAAT
* *
32272930 TATGGACCCACATGCCTG
1 TATGG-CCCACACGCCCG
32272948 TATAGGCCCACACGCCCG
1 TAT-GGCCCACACGCCCG
*
32272966 TATGGCCGACACGCCC
1 TATGGCCCACACGCCC
32272982 AGATTGGCCT
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
17 12 0.40
18 16 0.53
19 2 0.07
ACGTcount: A:0.21, C:0.40, G:0.23, T:0.15
Consensus pattern (17 bp):
TATGGCCCACACGCCCG
Found at i:32279995 original size:38 final size:38
Alignment explanation
Indices: 32279925--32280025 Score: 123
Period size: 38 Copynumber: 2.6 Consensus size: 38
32279915 ATTTGATGTG
* *
32279925 TATCCGGGCTTAAAGACCTGCAGGCTATATGCTGGAAATA
1 TATCCGGG-TTAAA-TCCCGCAGGCTATATGCTGGAAATA
* *
32279965 TATCCGGGTTAAATCCCGCAGGCT-TCATGCTGGTATTA
1 TATCCGGGTTAAATCCCGCAGGCTAT-ATGCTGGAAATA
*
32280003 TATCCGGGTTAAATCCCGTAGGC
1 TATCCGGGTTAAATCCCGCAGGC
32280026 CTAGTACTGG
Statistics
Matches: 55, Mismatches: 5, Indels: 4
0.86 0.08 0.06
Matches are distributed among these distances:
37 1 0.02
38 41 0.75
39 5 0.09
40 8 0.15
ACGTcount: A:0.25, C:0.23, G:0.25, T:0.28
Consensus pattern (38 bp):
TATCCGGGTTAAATCCCGCAGGCTATATGCTGGAAATA
Found at i:32280036 original size:38 final size:38
Alignment explanation
Indices: 32279963--32280044 Score: 121
Period size: 38 Copynumber: 2.2 Consensus size: 38
32279953 ATGCTGGAAA
* *
32279963 TATATCCGGGTTAAATCCCGCAGGCTTCATGCTGGTAT
1 TATATCCGGGTTAAATCCCGCAGGCCTCATACTGGTAT
*
32280001 TATATCCGGGTTAAATCCCGTAGGCCT-AGTACTGGTAT
1 TATATCCGGGTTAAATCCCGCAGGCCTCA-TACTGGTAT
32280039 TATATC
1 TATATC
32280045 TGAGCTTAAA
Statistics
Matches: 40, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
37 1 0.03
38 39 0.98
ACGTcount: A:0.23, C:0.22, G:0.22, T:0.33
Consensus pattern (38 bp):
TATATCCGGGTTAAATCCCGCAGGCCTCATACTGGTAT
Found at i:32281960 original size:27 final size:26
Alignment explanation
Indices: 32281882--32281993 Score: 98
Period size: 27 Copynumber: 4.2 Consensus size: 26
32281872 AGCATGGCTT
* * **
32281882 CCAGAACAGATAATATGACAGAGTAA
1 CCAGAACAGATAATGTGGCAGAGCCA
* *
32281908 CCAGATACAAATAATCCTGGCAGAGCCA
1 CCAGA-ACAGATAAT-GTGGCAGAGCCA
32281936 CCAGAACAGATATATGTGGCAGAGCCA
1 CCAGAACAGATA-ATGTGGCAGAGCCA
** * *
32281963 CCAGATTAGATCATTGTGGCATAGCCA
1 CCAGAACAGAT-AATGTGGCAGAGCCA
32281990 CCAG
1 CCAG
32281994 GACGCTTCCT
Statistics
Matches: 71, Mismatches: 11, Indels: 7
0.80 0.12 0.08
Matches are distributed among these distances:
26 5 0.07
27 50 0.70
28 16 0.23
ACGTcount: A:0.38, C:0.23, G:0.21, T:0.17
Consensus pattern (26 bp):
CCAGAACAGATAATGTGGCAGAGCCA
Found at i:32289682 original size:27 final size:26
Alignment explanation
Indices: 32289645--32289753 Score: 112
Period size: 27 Copynumber: 4.0 Consensus size: 26
32289635 AGCATGGTTG
* *
32289645 CCAGAACAGATAATGTGACAGAGTCA
1 CCAGAACAGATAATGTGGCAGAGCCA
*
32289671 CCAGATACAGATAATCGTGGTAGAGCCA
1 CCAGA-ACAGATAAT-GTGGCAGAGCCA
* *
32289699 CTAGAACAAATATATGTGGCAGAGCCA
1 CCAGAACAGATA-ATGTGGCAGAGCCA
*
32289726 CCAGATCAGATAATTGTGGC-GTAGCCA
1 CCAGAACAGATAA-TGTGGCAG-AGCCA
32289753 C
1 C
32289754 TAGGACGCTT
Statistics
Matches: 69, Mismatches: 9, Indels: 9
0.79 0.10 0.10
Matches are distributed among these distances:
26 7 0.10
27 47 0.68
28 15 0.22
ACGTcount: A:0.37, C:0.21, G:0.24, T:0.18
Consensus pattern (26 bp):
CCAGAACAGATAATGTGGCAGAGCCA
Found at i:32313124 original size:26 final size:26
Alignment explanation
Indices: 32313034--32313169 Score: 145
Period size: 26 Copynumber: 5.3 Consensus size: 26
32313024 CTGGAGGCCT
*
32313034 AGCCTCTTTT-AAT-AACTGGGACA-A
1 AGCC-CTTTTCAATAAACTGGGGCATA
**
32313058 AGCCCTTTTCGGTAAACTGGGGCA-A
1 AGCCCTTTTCAATAAACTGGGGCATA
* *
32313083 AGTCGTTTTCAATAAACTGGGGCATA
1 AGCCCTTTTCAATAAACTGGGGCATA
*** * *
32313109 AGCCCTTTTTGGTAAACTGAGGAATA
1 AGCCCTTTTCAATAAACTGGGGCATA
32313135 AGCCCTTTTCAATAAACTGGGGCATA
1 AGCCCTTTTCAATAAACTGGGGCATA
32313161 AGCCCTTTT
1 AGCCCTTTT
32313170 GCACTTCCTC
Statistics
Matches: 90, Mismatches: 19, Indels: 4
0.80 0.17 0.04
Matches are distributed among these distances:
23 5 0.06
24 5 0.06
25 30 0.33
26 50 0.56
ACGTcount: A:0.29, C:0.21, G:0.21, T:0.29
Consensus pattern (26 bp):
AGCCCTTTTCAATAAACTGGGGCATA
Found at i:32313158 original size:52 final size:51
Alignment explanation
Indices: 32313034--32313169 Score: 179
Period size: 52 Copynumber: 2.7 Consensus size: 51
32313024 CTGGAGGCCT
* * *
32313034 AGCCTCTTTT-AAT-AACTGGGACA-AAGCCCTTTTCGGTAAACTGGGGCAA
1 AGCC-CTTTTCAATAAACTGGGGCATAAGCCCTTTTCGGTAAACTGAGGAAA
* * *
32313083 AGTCGTTTTCAATAAACTGGGGCATAAGCCCTTTTTGGTAAACTGAGGAATA
1 AGCCCTTTTCAATAAACTGGGGCATAAGCCCTTTTCGGTAAACTGAGGAA-A
32313135 AGCCCTTTTCAATAAACTGGGGCATAAGCCCTTTT
1 AGCCCTTTTCAATAAACTGGGGCATAAGCCCTTTT
32313170 GCACTTCCTC
Statistics
Matches: 75, Mismatches: 8, Indels: 5
0.85 0.09 0.06
Matches are distributed among these distances:
48 4 0.05
49 6 0.08
50 9 0.12
51 22 0.29
52 34 0.45
ACGTcount: A:0.29, C:0.21, G:0.21, T:0.29
Consensus pattern (51 bp):
AGCCCTTTTCAATAAACTGGGGCATAAGCCCTTTTCGGTAAACTGAGGAAA
Found at i:32313244 original size:20 final size:20
Alignment explanation
Indices: 32313219--32313293 Score: 111
Period size: 20 Copynumber: 3.9 Consensus size: 20
32313209 TTATGAATTC
*
32313219 ATCATGTGCATTTCATACAT
1 ATCATGTGCATATCATACAT
32313239 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
32313259 ATCATGTGCATATCATATCA-
1 ATCATGTGCATATCATA-CAT
32313279 ATCATGT--ATATCATA
1 ATCATGTGCATATCATA
32313294 TCCCACGTAT
Statistics
Matches: 53, Mismatches: 1, Indels: 4
0.91 0.02 0.07
Matches are distributed among these distances:
18 8 0.15
20 43 0.81
21 2 0.04
ACGTcount: A:0.35, C:0.19, G:0.09, T:0.37
Consensus pattern (20 bp):
ATCATGTGCATATCATACAT
Found at i:32313250 original size:11 final size:11
Alignment explanation
Indices: 32313219--32313274 Score: 57
Period size: 11 Copynumber: 5.5 Consensus size: 11
32313209 TTATGAATTC
32313219 ATCATGTGCAT
1 ATCATGTGCAT
* *
32313230 TTCA--TACAT
1 ATCATGTGCAT
32313239 ATCATGTGCAT
1 ATCATGTGCAT
*
32313250 ATCA--TACAT
1 ATCATGTGCAT
32313259 ATCATGTGCAT
1 ATCATGTGCAT
32313270 ATCAT
1 ATCAT
32313275 ATCAATCATG
Statistics
Matches: 35, Mismatches: 6, Indels: 8
0.71 0.12 0.16
Matches are distributed among these distances:
9 15 0.43
11 20 0.57
ACGTcount: A:0.32, C:0.20, G:0.11, T:0.38
Consensus pattern (11 bp):
ATCATGTGCAT
Done.