Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr13
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: 46006518
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 2011935 characters in sequence are not A, C, G, or T
File 49 of 141
Found at i:15649925 original size:43 final size:43
Alignment explanation
Indices: 15649878--15649972 Score: 138
Period size: 43 Copynumber: 2.2 Consensus size: 43
15649868 GACCTTTAGT
15649878 GGCGTTTTTAGG-AAAAGCGCCGCTAAAGGTCATGTCCTACAGC
1 GGCGTTTTT-GGAAAAAGCGCCGCTAAAGGTCATGTCCTACAGC
* * * *
15649921 GGCGTTTGTGGAAAAAGCGCTGCTAAAGGTCATGTTCTATAGC
1 GGCGTTTTTGGAAAAAGCGCCGCTAAAGGTCATGTCCTACAGC
15649964 GGCGTTTTT
1 GGCGTTTTT
15649973 CCACATAAAC
Statistics
Matches: 46, Mismatches: 5, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
42 2 0.04
43 44 0.96
ACGTcount: A:0.23, C:0.19, G:0.29, T:0.28
Consensus pattern (43 bp):
GGCGTTTTTGGAAAAAGCGCCGCTAAAGGTCATGTCCTACAGC
Found at i:15655385 original size:44 final size:42
Alignment explanation
Indices: 15655337--15655432 Score: 97
Period size: 44 Copynumber: 2.2 Consensus size: 42
15655327 GATCGGGTCA
* *
15655337 GCTGTTGGCCT-ACTGCTGGCTTGTTG-GGCCTTGACTGGACTGTT
1 GCTGTTGG-CTGACTG-TGGCTTGCTGCGG-CTTG-CTGGACTGCT
*
15655381 GCTGTTAGGCTGGCTGTGGCTTGCTGCTGGCTTGCTGGACTGCT
1 GCTGTT-GGCTGACTGTGGCTTGCTGC-GGCTTGCTGGACTGCT
15655425 GCTGTTGG
1 GCTGTTGG
15655433 GTCAGTTGGC
Statistics
Matches: 45, Mismatches: 3, Indels: 9
0.79 0.05 0.16
Matches are distributed among these distances:
43 2 0.04
44 32 0.71
45 9 0.20
46 2 0.04
ACGTcount: A:0.05, C:0.22, G:0.38, T:0.35
Consensus pattern (42 bp):
GCTGTTGGCTGACTGTGGCTTGCTGCGGCTTGCTGGACTGCT
Found at i:15655558 original size:28 final size:31
Alignment explanation
Indices: 15655524--15655581 Score: 95
Period size: 30 Copynumber: 2.0 Consensus size: 31
15655514 TTATTATTTT
15655524 TCCTTTC-TTTTC-TTTCTTTTT-TTTCTTG
1 TCCTTTCTTTTTCTTTTCTTTTTATTTCTTG
15655552 TCCTTTCTTTTTCTTTTCTTTTTATTTCTT
1 TCCTTTCTTTTTCTTTTCTTTTTATTTCTT
15655582 TTCTCTACTT
Statistics
Matches: 27, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
28 7 0.26
29 5 0.19
30 9 0.33
31 6 0.22
ACGTcount: A:0.02, C:0.21, G:0.02, T:0.76
Consensus pattern (31 bp):
TCCTTTCTTTTTCTTTTCTTTTTATTTCTTG
Found at i:15655570 original size:5 final size:5
Alignment explanation
Indices: 15655521--15655585 Score: 64
Period size: 5 Copynumber: 13.2 Consensus size: 5
15655511 TTATTATTAT
* * *
15655521 TTTTC CTTTC TTTTC -TTTC TTTT- TTTTC TTGTC CTTTC TTTTTC TTTTC
1 TTTTC TTTTC TTTTC TTTTC TTTTC TTTTC TTTTC TTTTC -TTTTC TTTTC
15655570 TTTT- TATTTC TTTTC T
1 TTTTC T-TTTC TTTTC T
15655586 CTACTTTTAA
Statistics
Matches: 49, Mismatches: 6, Indels: 10
0.75 0.09 0.15
Matches are distributed among these distances:
4 9 0.18
5 35 0.71
6 5 0.10
ACGTcount: A:0.02, C:0.20, G:0.02, T:0.77
Consensus pattern (5 bp):
TTTTC
Found at i:15655701 original size:19 final size:19
Alignment explanation
Indices: 15655677--15655717 Score: 73
Period size: 19 Copynumber: 2.2 Consensus size: 19
15655667 CTTCCCTCTC
*
15655677 CCTCCTCTTTCTTTCTTTT
1 CCTCCTCTTTCTTTCTTCT
15655696 CCTCCTCTTTCTTTCTTCT
1 CCTCCTCTTTCTTTCTTCT
15655715 CCT
1 CCT
15655718 TTTGTTTATT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.00, C:0.41, G:0.00, T:0.59
Consensus pattern (19 bp):
CCTCCTCTTTCTTTCTTCT
Found at i:15656096 original size:58 final size:58
Alignment explanation
Indices: 15655999--15656132 Score: 173
Period size: 58 Copynumber: 2.3 Consensus size: 58
15655989 TAGCAGTTGG
* *
15655999 GGGATCAAAATGTAAATAGTAAAAAATTAGGGGTCAAAAT-TTAATTTTAGGAAAGTTAA
1 GGGA-CAAAATGTAAATAGTAAAAAATTAGGGGTCAAAATGTAAATTTTA-AAAAGTTAA
* * *
15656058 GGGACAAAATGTAAATAGTAAAAAGTTAGGGGTTAAAATGTAAATTTTAAAAAGTTGA
1 GGGACAAAATGTAAATAGTAAAAAATTAGGGGTCAAAATGTAAATTTTAAAAAGTTAA
15656116 GGGTTA-AAAATGTAAAT
1 GGG--ACAAAATGTAAAT
15656133 TTTTAGTTTT
Statistics
Matches: 67, Mismatches: 5, Indels: 6
0.86 0.06 0.08
Matches are distributed among these distances:
58 43 0.64
59 23 0.34
60 1 0.01
ACGTcount: A:0.48, C:0.02, G:0.22, T:0.28
Consensus pattern (58 bp):
GGGACAAAATGTAAATAGTAAAAAATTAGGGGTCAAAATGTAAATTTTAAAAAGTTAA
Found at i:15656128 original size:30 final size:29
Alignment explanation
Indices: 15656005--15656135 Score: 122
Period size: 29 Copynumber: 4.5 Consensus size: 29
15655995 TTGGGGGATC
** * *
15656005 AAAATGTAAATAGTAAAAAATTAGGGGTC
1 AAAATGTAAATTTTAAAAAGTTAGGGGTT
* * * **
15656034 AAAAT-TTAATTTTAGGAAAGTTAAGGGAC
1 AAAATGTAAATTTTA-AAAAGTTAGGGGTT
**
15656063 AAAATGTAAATAGTAAAAAGTTAGGGGTT
1 AAAATGTAAATTTTAAAAAGTTAGGGGTT
15656092 AAAATGTAAATTTTAAAAAGTT-GAGGGTT
1 AAAATGTAAATTTTAAAAAGTTAG-GGGTT
15656121 AAAAATGTAAATTTT
1 -AAAATGTAAATTTT
15656136 TAGTTTTTGT
Statistics
Matches: 82, Mismatches: 16, Indels: 7
0.78 0.15 0.07
Matches are distributed among these distances:
28 7 0.09
29 55 0.67
30 20 0.24
ACGTcount: A:0.48, C:0.02, G:0.20, T:0.31
Consensus pattern (29 bp):
AAAATGTAAATTTTAAAAAGTTAGGGGTT
Found at i:15656897 original size:76 final size:75
Alignment explanation
Indices: 15656625--15657377 Score: 731
Period size: 76 Copynumber: 10.0 Consensus size: 75
15656615 ATTGAAATTT
* * * * *
15656625 AAAATTCCTCGGCGTGCAACCCGAGGCTCAACTCATCTCTCGGATTATGGGTTGATCTTTG-AAA
1 AAAATACCTCGACGTGCGACCCGAGGCTCAACTCACCTCTCGGATTATGAGTTGAT-TTTGAAAA
15656689 A-A-AAA-T-A
65 ATAGAAATTGA
* * * * *
15656696 TAAAATATCTCCACGTGCGACCTGAGGCTCAACTCACCTCTTGGACTATGAGTTGATATTTGAAA
1 -AAAATACCTCGACGTGCGACCCGAGGCTCAACTCACCTCTCGGATTATGAGTTGAT-TTTGAAA
* *
15656761 AAGAAAAATT-A
64 AATAGAAATTGA
* * *
15656772 AAAATAGCTCGACGTGCGACCCGAGGCTCAACTCACCTCTCGGACTATGAGTCGATCTTTGAAAA
1 AAAATACCTCGACGTGCGACCCGAGGCTCAACTCACCTCTCGGATTATGAGTTGAT-TTTGAAAA
15656837 ATAGAAATTGA
65 ATAGAAATTGA
* * * *
15656848 AAAATACCTCGACATGCGACCCGAGGCTCAACTCACATCTCAGATTATGAGTTGATTTTCAAAAA
1 AAAATACCTCGACGTGCGACCCGAGGCTCAACTCACCTCTCGGATTATGAGTTGATTTT-GAAAA
*
15656913 ATAGAAATAGAA
65 ATAGAAATTG-A
* * *
15656925 AAAATACCTCGGCATGCGACCCTAGGCTCAACTCACCTCTCGGATTATGAGTTGATTTTCGAAAA
1 AAAATACCTCGACGTGCGACCCGAGGCTCAACTCACCTCTCGGATTATGAGTTGATTTT-GAAAA
15656990 ACT-GAAATTGA
65 A-TAGAAATTGA
* ** * *
15657001 AAATATACCTC-AGCGTGTGACTTGAGGTTCAACTCACCTCTCAGATTATGAGTTGATTTTTGAA
1 AAA-ATACCTCGA-CGTGCGACCCGAGGCTCAACTCACCTCTCGGATTATGAGTTGA-TTTTG--
* *
15657065 AAAAAACAAAAATTG-
61 -AAAAATAGAAATTGA
* * * *
15657080 AAAACACCTC-AGCGTGCGACCCGAGGCTCAACTCACCTTTCGGACTATGAGTTGATCTTTCAAA
1 AAAATACCTCGA-CGTGCGACCCGAGGCTCAACTCACCTCTCGGATTATGAGTTGAT-TTTGAAA
* *
15657144 AACAAAAATTGA
64 AATAGAAATTGA
* * * * *
15657156 AAAATATCTCGGCATGCGACCCGAGGCTCAACTCATCTCTCGGATTATGAGTTGATTTTCAAAAA
1 AAAATACCTCGACGTGCGACCCGAGGCTCAACTCACCTCTCGGATTATGAGTTGATTTT-GAAAA
*
15657221 ATAGAAATAGA
65 ATAGAAATTGA
* * * * * ** * *
15657232 AAAATATCTCGGCATGCAACCCAAGGCTCAACTCAGTTCTCAGATTATGAGTTGATTTTAAAAAA
1 AAAATACCTCGACGTGCGACCCGAGGCTCAACTCACCTCTCGGATTATGAGTTGATTTTGAAAAA
*
15657297 TATAAATTG-
66 TAGAAATTGA
* * * * *
15657306 AAAACACCT-TAGCGTGTGACCCGATGCTTAACTCACCTCTCGGATTATGAGTTGATTTTTGAAA
1 AAAATACCTCGA-CGTGCGACCCGAGGCTCAACTCACCTCTCGGATTATGAGTTGA-TTTTGAAA
15657370 AAT-GAAAT
64 AATAGAAAT
15657378 AGGAAATGAT
Statistics
Matches: 575, Mismatches: 85, Indels: 40
0.82 0.12 0.06
Matches are distributed among these distances:
72 50 0.09
73 4 0.01
74 46 0.08
75 112 0.19
76 184 0.32
77 113 0.20
78 52 0.09
79 3 0.01
80 11 0.02
ACGTcount: A:0.35, C:0.21, G:0.18, T:0.27
Consensus pattern (75 bp):
AAAATACCTCGACGTGCGACCCGAGGCTCAACTCACCTCTCGGATTATGAGTTGATTTTGAAAAA
TAGAAATTGA
Found at i:15657181 original size:308 final size:304
Alignment explanation
Indices: 15656625--15657371 Score: 980
Period size: 308 Copynumber: 2.5 Consensus size: 304
15656615 ATTGAAATTT
* * * * *
15656625 AAAATTCCTCGGCGTGCAACCCGAGGCTCAACTCATCTCTCGGATTATGGGTTGATCTTTGAAAA
1 AAAATACCTCGGCATGCAACCCAAGGCTCAACTCACCTCTCGGATTATGAGTTGAT-TTTGAAAA
* * * *
15656690 A-AAATAT-AAAATAT--CTCCA-CGTGCGACCTGAGGCTCAACTCACCTCTTGGACTATGAGTT
65 ATAAAT-TGAAAATATACCT-CAGCGTGTGACCTGAGGTTCAACTCACCTCTCGGATTATGAGTT
* * * *
15656750 GATATTTG---AAAAAGAAAAATTAAAAATAGCTCGACGTGCGACCCGAGGCTCAACTCACCTCT
128 GATTTTTGAAAAAAAACAAAAATTAAAAACACCTCGACGTGCGACCCGAGGCTCAACTCACCTCT
* * *
15656812 CGGACTATGAGTCGATCTTTGAAAAATAGAAATTGAAAAATACCTCGACATGCGACCCGAGGCTC
193 CGGACTATGAGTCGATCTTTCAAAAACAAAAATTGAAAAATACCTCGACATGCGACCCGAGGCTC
15656877 AACTCA-CATCTCAGATTATGAGTTGATTTTCAAAAAATAGAAATAGAA
258 AACTCATC-TCTCAGATTATGAGTTGATTTTCAAAAAATAGAAATAG-A
* *
15656925 AAAATACCTCGGCATGCGACCCTAGGCTCAACTCACCTCTCGGATTATGAGTTGATTTTCGAAAA
1 AAAATACCTCGGCATGCAACCCAAGGCTCAACTCACCTCTCGGATTATGAGTTGATTTT-GAAAA
* *
15656990 ACTGAAATTGAAAATATACCTCAGCGTGTGACTTGAGGTTCAACTCACCTCTCAGATTATGAGTT
65 A-T-AAATTGAAAATATACCTCAGCGTGTGACCTGAGGTTCAACTCACCTCTCGGATTATGAGTT
* *
15657055 GATTTTTGAAAAAAAACAAAAATTGAAAACACCTC-AGCGTGCGACCCGAGGCTCAACTCACCTT
128 GATTTTTGAAAAAAAACAAAAATTAAAAACACCTCGA-CGTGCGACCCGAGGCTCAACTCACCTC
* * *
15657119 TCGGACTATGAGTTGATCTTTCAAAAACAAAAATTGAAAAATATCTCGGCATGCGACCCGAGGCT
192 TCGGACTATGAGTCGATCTTTCAAAAACAAAAATTGAAAAATACCTCGACATGCGACCCGAGGCT
*
15657184 CAACTCATCTCTCGGATTATGAGTTGATTTTCAAAAAATAGAAATAGA
257 CAACTCATCTCTCAGATTATGAGTTGATTTTCAAAAAATAGAAATAGA
* ** * *
15657232 AAAATATCTCGGCATGCAACCCAAGGCTCAACTCAGTTCTCAGATTATGAGTTGATTTTAAAAAA
1 AAAATACCTCGGCATGCAACCCAAGGCTCAACTCACCTCTCGGATTATGAGTTGATTTT-GAAAA
* * * *
15657297 TATAAATTG-AAA-ACACCTTAGCGTGTGACCCGATGCTT-AACTCACCTCTCGGATTATGAGTT
65 -ATAAATTGAAAATATACCTCAGCGTGTGACCTGA-GGTTCAACTCACCTCTCGGATTATGAGTT
15657359 GATTTTTGAAAAA
128 GATTTTTGAAAAA
15657372 TGAAATAGGA
Statistics
Matches: 393, Mismatches: 39, Indels: 26
0.86 0.09 0.06
Matches are distributed among these distances:
299 3 0.01
300 56 0.14
302 1 0.00
303 11 0.03
304 55 0.14
305 50 0.13
306 6 0.02
307 60 0.15
308 150 0.38
309 1 0.00
ACGTcount: A:0.35, C:0.21, G:0.18, T:0.27
Consensus pattern (304 bp):
AAAATACCTCGGCATGCAACCCAAGGCTCAACTCACCTCTCGGATTATGAGTTGATTTTGAAAAA
TAAATTGAAAATATACCTCAGCGTGTGACCTGAGGTTCAACTCACCTCTCGGATTATGAGTTGAT
TTTTGAAAAAAAACAAAAATTAAAAACACCTCGACGTGCGACCCGAGGCTCAACTCACCTCTCGG
ACTATGAGTCGATCTTTCAAAAACAAAAATTGAAAAATACCTCGACATGCGACCCGAGGCTCAAC
TCATCTCTCAGATTATGAGTTGATTTTCAAAAAATAGAAATAGA
Found at i:15665702 original size:4 final size:4
Alignment explanation
Indices: 15665695--15665733 Score: 53
Period size: 4 Copynumber: 10.0 Consensus size: 4
15665685 ATGTACATAC
* *
15665695 AATG AATG AATG AATG AGTG AATG AATG ACT- AATG AATG
1 AATG AATG AATG AATG AATG AATG AATG AATG AATG AATG
15665734 TTAGTCATGC
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
3 2 0.07
4 28 0.93
ACGTcount: A:0.46, C:0.03, G:0.26, T:0.26
Consensus pattern (4 bp):
AATG
Found at i:15669996 original size:15 final size:14
Alignment explanation
Indices: 15669949--15669998 Score: 64
Period size: 15 Copynumber: 3.4 Consensus size: 14
15669939 TTTATTATTT
15669949 TTTTCTTTTTTTTC
1 TTTTCTTTTTTTTC
*
15669963 TTTTCCTTCTTTTTC
1 TTTT-CTTTTTTTTC
*
15669978 TTTTCTTTTTATTTA
1 TTTTCTTTTT-TTTC
15669993 TTTTCT
1 TTTTCT
15669999 CTACTTTTAC
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
14 9 0.29
15 22 0.71
ACGTcount: A:0.04, C:0.16, G:0.00, T:0.80
Consensus pattern (14 bp):
TTTTCTTTTTTTTC
Found at i:15676305 original size:297 final size:297
Alignment explanation
Indices: 15675488--15676672 Score: 1842
Period size: 297 Copynumber: 4.0 Consensus size: 297
15675478 CTTTGGTTGG
* *
15675488 CACATGTGCCAACTCTTTAAAAGTCGGACTAAGTGTGACCTAACTCGACTATTTTTATGTCACCT
1 CACATGTGCCAACTCTTTAAAAGTTGGACTAAGTGCGACCTAACTCGACTATTTTTATGTCACCT
* * ** * *
15675553 TTGATGAGGGCATGAACCAACTCTTTATAAGTCAACATATGAATTCTTTATTCTGACTTTTTTTT
66 TTGACGGGGGCATGAACCAACTCTTTATAAGTCGGCATATGAATGCTTTATTCTGAC-TTTTTTC
* * *
15675618 G-TCTCCTAATTCCTGCTATGCCAACCTTTTTTAAACGTTGACCTTGACTAGGTCTTTACCAACC
130 GATCGCCTAATTCCTCCTATCCCAACCTTTTTTAAACGTTGACCTTGACTAGGTCTTTACCAACC
* *
15675682 CTTAAATAAAGGTTGACCTAGGTTGAATTATGCCGACGCTTTTTCCAAAGTGTCATGGTACCTAT
195 CTTGAATAAAGGTTGACCTAGGTTGAATTATGCCGACGCTTTTTCCAAAGCGTCATGGTACCTAT
* * * *
15675747 GCTAATGGTGCTAACAACAATGTTTTCAGAAGAGTTGA
260 GCCAATGGTGCTAACAACGATGTTTTCAGAAGCGTCGA
* * *
15675785 CACATGTGCCAATTCTTTAAAAGTTGGACTAAGTGCGACCTAACTCGGCTATTTTT-TGTC-CTT
1 CACATGTGCCAACTCTTTAAAAGTTGGACTAAGTGCGACCTAACTCGACTATTTTTATGTCACCT
* * * ** * *
15675848 TTGACTGGGGCATGAACCAACTCTTTATAAGTCGGTATATGAATGTTTTATTCCAAATTTTTTTG
66 TTGACGGGGGCATGAACCAACTCTTTATAAGTCGGCATATGAATGCTTTATTCTGACTTTTTTCG
* * * *
15675913 ATCGCCTAATTCCTCCTATCCCAACCTGTTTTACATGTTAACCTTGACTAGGTCTTTACCAACCC
131 ATCGCCTAATTCCTCCTATCCCAACCTTTTTTAAACGTTGACCTTGACTAGGTCTTTACCAACCC
** *
15675978 TTGAATAAAGGTTGACCTAGGTTGAATTATGCTTACGATTTTTCCAAAGCGTCATGGTACCTATG
196 TTGAATAAAGGTTGACCTAGGTTGAATTATGCCGACGCTTTTTCCAAAGCGTCATGGTACCTATG
*
15676043 CCAATGGTGCTAAGAACGATGTTTTCAGAAGCGTCGA
261 CCAATGGTGCTAACAACGATGTTTTCAGAAGCGTCGA
* *
15676080 CACATGTGCCAACTCTTTAAAAGTTAGACTAAGTGCGACCTAACTCAACTATTTTTATGTCACCT
1 CACATGTGCCAACTCTTTAAAAGTTGGACTAAGTGCGACCTAACTCGACTATTTTTATGTCACCT
*
15676145 TTGACGGGGGCATGAACCAACTCTTTATAAGTCGGCATATGAATACTTTATTCTGACTTTTTTCG
66 TTGACGGGGGCATGAACCAACTCTTTATAAGTCGGCATATGAATGCTTTATTCTGACTTTTTTCG
* * *
15676210 GTCGCTTAATTCCTCCTATCCCAACCTTTTTTAAACGTCGACCTTGACTAGGTCTTTACCAACCC
131 ATCGCCTAATTCCTCCTATCCCAACCTTTTTTAAACGTTGACCTTGACTAGGTCTTTACCAACCC
*
15676275 TTGAATAAAGGTTGACCTAGGTTAAATTATGCCGACGCTTTTTCCAAAGCGTCATGGTACCTATG
196 TTGAATAAAGGTTGACCTAGGTTGAATTATGCCGACGCTTTTTCCAAAGCGTCATGGTACCTATG
*
15676340 CCAATGGTGCTAACAACGATGTTTTCAGAAGTGTCGA
261 CCAATGGTGCTAACAACGATGTTTTCAGAAGCGTCGA
15676377 CACATGTGCCAACTCTTTAAAAGTCT-GACTAAGTGCGACCTAACTCGACTATTTTTATGT-AGC
1 CACATGTGCCAACTCTTTAAAAGT-TGGACTAAGTGCGACCTAACTCGACTATTTTTATGTCA-C
*
15676440 CTTTGACGGGGGCATGAACCAACTCTTTCTAAGTCGGCATATGAATGCTTTATT-TCGACTTTTT
64 CTTTGACGGGGGCATGAACCAACTCTTTATAAGTCGGCATATGAATGCTTTATTCT-GACTTTTT
* *
15676504 TCGATCGTCTAATTCCTCCTATCCCAACCTTTTTTAAACGTTGACCTTGACTAGGTTTTTACCAA
128 TCGATCGCCTAATTCCTCCTATCCCAACCTTTTTTAAACGTTGACCTTGACTAGGTCTTTACCAA
* ** *
15676569 CCCTTGAATAAAGGTTGACTTAGGTTGAATTATGCTAATGCTTTTTCCAAAGCGTCATGGTACCT
193 CCCTTGAATAAAGGTTGACCTAGGTTGAATTATGCCGACGCTTTTTCCAAAGCGTCATGGTACCT
15676634 ATGCCAATGGTGCTAACAACGATGTTTTCAGAAGCGTCG
258 ATGCCAATGGTGCTAACAACGATGTTTTCAGAAGCGTCG
15676673 TGAGAATCGT
Statistics
Matches: 809, Mismatches: 73, Indels: 12
0.90 0.08 0.01
Matches are distributed among these distances:
294 8 0.01
295 249 0.31
296 10 0.01
297 541 0.67
298 1 0.00
ACGTcount: A:0.26, C:0.22, G:0.17, T:0.35
Consensus pattern (297 bp):
CACATGTGCCAACTCTTTAAAAGTTGGACTAAGTGCGACCTAACTCGACTATTTTTATGTCACCT
TTGACGGGGGCATGAACCAACTCTTTATAAGTCGGCATATGAATGCTTTATTCTGACTTTTTTCG
ATCGCCTAATTCCTCCTATCCCAACCTTTTTTAAACGTTGACCTTGACTAGGTCTTTACCAACCC
TTGAATAAAGGTTGACCTAGGTTGAATTATGCCGACGCTTTTTCCAAAGCGTCATGGTACCTATG
CCAATGGTGCTAACAACGATGTTTTCAGAAGCGTCGA
Found at i:15678542 original size:43 final size:43
Alignment explanation
Indices: 15678483--15678834 Score: 342
Period size: 43 Copynumber: 8.2 Consensus size: 43
15678473 AAGAAAAAAG
15678483 CGCCGCTAAAGATCATGTCCTTTAGCGGCGCTTTTTCTACAAA
1 CGCCGCTAAAGATCATGTCCTTTAGCGGCGCTTTTTCTACAAA
* * * *
15678526 TGCCACTAAAGGTCATGTCCTTTAGCGGCGC-TTTTCTCCAAGA
1 CGCCGCTAAAGATCATGTCCTTTAGCGGCGCTTTTTCTACAA-A
* * * * * * **
15678569 -GCCGCTAAAGACCATGACTTTTAGCGCCG-TTTGTGTGGAAA
1 CGCCGCTAAAGATCATGTCCTTTAGCGGCGCTTTTTCTACAAA
* * *
15678610 GCGCCGCTAAAGATAATGTCCTTTAGCGGCGCTTTTCCCACAAA
1 -CGCCGCTAAAGATCATGTCCTTTAGCGGCGCTTTTTCTACAAA
* * ** * * *
15678654 CGCCGCTAAAGACCATGACCTTTAGTAGCGCTTTTCCCACAAC
1 CGCCGCTAAAGATCATGTCCTTTAGCGGCGCTTTTTCTACAAA
* * *
15678697 CGCCGCTAAAGACCATGAT-CTTTAGCGGCGCTTTTCCCACAAA
1 CGCCGCTAAAGATCATG-TCCTTTAGCGGCGCTTTTTCTACAAA
15678740 CGCCGCTAAAGATCATGAT-CTTTAGCGGCGCTTTTT-TCACAAA
1 CGCCGCTAAAGATCATG-TCCTTTAGCGGCGCTTTTTCT-ACAAA
*
15678783 CGCCGCTAAA-AGTCATGGT-CTTTAGCGGCGCTTTTTTTACAAA
1 CGCCGCTAAAGA-TCAT-GTCCTTTAGCGGCGCTTTTTCTACAAA
*
15678826 CGCCACTAA
1 CGCCGCTAA
15678835 TTTTGGCAGA
Statistics
Matches: 260, Mismatches: 39, Indels: 20
0.82 0.12 0.06
Matches are distributed among these distances:
41 1 0.00
42 39 0.15
43 212 0.82
44 8 0.03
ACGTcount: A:0.24, C:0.28, G:0.20, T:0.27
Consensus pattern (43 bp):
CGCCGCTAAAGATCATGTCCTTTAGCGGCGCTTTTTCTACAAA
Found at i:15678806 original size:129 final size:128
Alignment explanation
Indices: 15678478--15678817 Score: 379
Period size: 129 Copynumber: 2.6 Consensus size: 128
15678468 GTTTTAAGAA
* * *
15678478 AAAAGCGCCGCTAAAGATCATGTCCTTTAGCGGCGC-TTTTTCTACAAATGCCACTAAAGGTCAT
1 AAAA-CGCCGCTAAAGATCATGTCCTTTAGCGGCGCTTTTTTC-ACAAACGCCGCTAAAAGTCAT
* * **
15678542 -GTCCTTTAGCGGCGCTTTTCTCCAAGAGCCGCTAAAGACCATGACTTTTAGCGCCGTTTGTGTG
64 GGT-CTTTAGCGGCGCTTTTCCCCAACAGCCGCTAAAGACCATGACTTTTAGCGCCGTTTGTGCC
*
15678606 G
128 C
* * ** *
15678607 AAAGCGCCGCTAAAGATAATGTCCTTTAGCGGCGCTTTTCCCACAAACGCCGCT-AAAGACCATG
1 AAAACGCCGCTAAAGATCATGTCCTTTAGCGGCGCTTTTTTCACAAACGCCGCTAAAAG-TCATG
** ** * *
15678671 ACCTTTAGTAGCGCTTTTCCCACAACCGCCGCTAAAGACCATGA-TCTTTAGCGGCGCTTT-T-C
65 GTCTTTAGCGGCGCTTTTCCC-CAACAGCCGCTAAAGACCATGACT-TTTAGCGCCG-TTTGTGC
15678733 CC
127 CC
15678735 ACAAACGCCGCTAAAGATCATGAT-CTTTAGCGGCGCTTTTTTCACAAACGCCGCTAAAAGTCAT
1 A-AAACGCCGCTAAAGATCATG-TCCTTTAGCGGCGCTTTTTTCACAAACGCCGCTAAAAGTCAT
15678799 GGTCTTTAGCGGCGCTTTT
64 GGTCTTTAGCGGCGCTTTT
15678818 TTTACAAACG
Statistics
Matches: 174, Mismatches: 28, Indels: 18
0.79 0.13 0.08
Matches are distributed among these distances:
127 3 0.02
128 61 0.35
129 102 0.59
130 8 0.05
ACGTcount: A:0.24, C:0.28, G:0.21, T:0.27
Consensus pattern (128 bp):
AAAACGCCGCTAAAGATCATGTCCTTTAGCGGCGCTTTTTTCACAAACGCCGCTAAAAGTCATGG
TCTTTAGCGGCGCTTTTCCCCAACAGCCGCTAAAGACCATGACTTTTAGCGCCGTTTGTGCCC
Found at i:15679034 original size:19 final size:19
Alignment explanation
Indices: 15679010--15679048 Score: 69
Period size: 19 Copynumber: 2.1 Consensus size: 19
15679000 TTACAAAAAT
*
15679010 ATTAAAAGTTAAAATGATA
1 ATTAAAAGTCAAAATGATA
15679029 ATTAAAAGTCAAAATGATA
1 ATTAAAAGTCAAAATGATA
15679048 A
1 A
15679049 AAATATTTAC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.59, C:0.03, G:0.10, T:0.28
Consensus pattern (19 bp):
ATTAAAAGTCAAAATGATA
Found at i:15679178 original size:21 final size:21
Alignment explanation
Indices: 15679152--15679200 Score: 62
Period size: 21 Copynumber: 2.3 Consensus size: 21
15679142 TCTACGCTGG
* *
15679152 TCTGCTTCCCTTGCTGCAGCC
1 TCTGCTTCCCTCGATGCAGCC
* *
15679173 TCTGCTTCTCTCGATGCCGCC
1 TCTGCTTCCCTCGATGCAGCC
15679194 TCTGCTT
1 TCTGCTT
15679201 TAAGCTGCAG
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.04, C:0.41, G:0.18, T:0.37
Consensus pattern (21 bp):
TCTGCTTCCCTCGATGCAGCC
Found at i:15690605 original size:17 final size:17
Alignment explanation
Indices: 15690583--15690615 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
15690573 AACATGACCG
15690583 TTGAAACCCTAAATCTA
1 TTGAAACCCTAAATCTA
*
15690600 TTGAAACCCTATATCT
1 TTGAAACCCTAAATCT
15690616 CAAACTCCTA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.36, C:0.24, G:0.06, T:0.33
Consensus pattern (17 bp):
TTGAAACCCTAAATCTA
Found at i:15691222 original size:41 final size:41
Alignment explanation
Indices: 15691158--15691439 Score: 246
Period size: 41 Copynumber: 6.9 Consensus size: 41
15691148 TTTTGTTACT
* ** * *
15691158 ATTAGCGGCGCTTCGGCAAAAACGCCGCTAAAGG-TAAATGC
1 ATTAGCGGCGCTTAGATAAAAACGCCGCTAAAGGCTAGA-GA
* *
15691199 ATTAGCGGCACTTAGATACAAACGCCGCTAAAGGCTAGAGA
1 ATTAGCGGCGCTTAGATAAAAACGCCGCTAAAGGCTAGAGA
* * * * * *
15691240 ATTAGTGGCGCTCAGATAAAAATGCCGCTAAA-GATCCGAGC
1 ATTAGCGGCGCTTAGATAAAAACGCCGCTAAAGGCT-AGAGA
* * *
15691281 ATTAGCGACGCTTAGATAAAAACGCCGCAAAAGGCCAGAGA
1 ATTAGCGGCGCTTAGATAAAAACGCCGCTAAAGGCTAGAGA
* ** * *
15691322 ATTAGCGGCGCTTAGATAAAAACGTCGCTAAAGATTCGAGC
1 ATTAGCGGCGCTTAGATAAAAACGCCGCTAAAGGCTAGAGA
** **
15691363 ATTAGCGATGCTTAGATAAAAACGCCGCT-AAGTGCCGGAGA
1 ATTAGCGGCGCTTAGATAAAAACGCCGCTAAAG-GCTAGAGA
* * * * *
15691404 ATTAGCGGCGTTTTGTTGAAAGCGCCGCTAAAGGCT
1 ATTAGCGGCGCTTAGATAAAAACGCCGCTAAAGGCT
15691440 CAAAAAATCG
Statistics
Matches: 188, Mismatches: 48, Indels: 10
0.76 0.20 0.04
Matches are distributed among these distances:
40 5 0.03
41 176 0.94
42 7 0.04
ACGTcount: A:0.34, C:0.21, G:0.26, T:0.19
Consensus pattern (41 bp):
ATTAGCGGCGCTTAGATAAAAACGCCGCTAAAGGCTAGAGA
Found at i:15691295 original size:82 final size:82
Alignment explanation
Indices: 15691158--15691413 Score: 311
Period size: 82 Copynumber: 3.1 Consensus size: 82
15691148 TTTTGTTACT
** * ** * * *
15691158 ATTAGCGGCGCTTC-GGCAAAAACGCCGCTAAAGGT-AAATGCATTAGCGGCACTTAGATACAAA
1 ATTAGCGGCGC-TCAGATAAAAACGCCGCTAAAGATCCGA-GCATTAGCGACGCTTAGATAAAAA
*
15691221 CGCCGCTAAAGGCTAGAGA
64 CGCCGCTAAAGGCCAGAGA
* *
15691240 ATTAGTGGCGCTCAGATAAAAATGCCGCTAAAGATCCGAGCATTAGCGACGCTTAGATAAAAACG
1 ATTAGCGGCGCTCAGATAAAAACGCCGCTAAAGATCCGAGCATTAGCGACGCTTAGATAAAAACG
*
15691305 CCGCAAAAGGCCAGAGA
66 CCGCTAAAGGCCAGAGA
* * * *
15691322 ATTAGCGGCGCTTAGATAAAAACGTCGCTAAAGATTCGAGCATTAGCGATGCTTAGATAAAAACG
1 ATTAGCGGCGCTCAGATAAAAACGCCGCTAAAGATCCGAGCATTAGCGACGCTTAGATAAAAACG
*
15691387 CCGCT-AAGTGCCGGAGA
66 CCGCTAAAG-GCCAGAGA
15691404 ATTAGCGGCG
1 ATTAGCGGCG
15691414 TTTTGTTGAA
Statistics
Matches: 151, Mismatches: 20, Indels: 6
0.85 0.11 0.03
Matches are distributed among these distances:
81 5 0.03
82 145 0.96
83 1 0.01
ACGTcount: A:0.35, C:0.21, G:0.26, T:0.18
Consensus pattern (82 bp):
ATTAGCGGCGCTCAGATAAAAACGCCGCTAAAGATCCGAGCATTAGCGACGCTTAGATAAAAACG
CCGCTAAAGGCCAGAGA
Found at i:15691557 original size:15 final size:15
Alignment explanation
Indices: 15691537--15691567 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
15691527 TTCCGGGAAT
*
15691537 GCGCCGCTGATGCTC
1 GCGCCGCTAATGCTC
15691552 GCGCCGCTAATGCTC
1 GCGCCGCTAATGCTC
15691567 G
1 G
15691568 ATTTTTAGTG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.10, C:0.39, G:0.32, T:0.19
Consensus pattern (15 bp):
GCGCCGCTAATGCTC
Found at i:15693880 original size:12 final size:12
Alignment explanation
Indices: 15693855--15693953 Score: 52
Period size: 12 Copynumber: 8.6 Consensus size: 12
15693845 ATCTATAAGA
15693855 TAAATATTAAAT
1 TAAATATTAAAT
15693867 TAAAT-TTAATAT
1 TAAATATTAA-AT
* * *
15693879 TAAGATAATCACT
1 TAA-ATATTAAAT
*
15693892 TTAATATTAAAT
1 TAAATATTAAAT
15693904 T-AATA--AAA-
1 TAAATATTAAAT
*
15693912 T-ACTATTAAGA-
1 TAAATATTAA-AT
*
15693923 TAAGTATTAAAT
1 TAAATATTAAAT
15693935 TAAAT-TTAATAT
1 TAAATATTAA-AT
15693947 TAAATAT
1 TAAATAT
15693954 ATTAAAATAA
Statistics
Matches: 67, Mismatches: 10, Indels: 19
0.70 0.10 0.20
Matches are distributed among these distances:
8 4 0.06
9 3 0.04
10 2 0.03
11 15 0.22
12 35 0.52
13 6 0.09
14 2 0.03
ACGTcount: A:0.53, C:0.03, G:0.03, T:0.41
Consensus pattern (12 bp):
TAAATATTAAAT
Found at i:15693907 original size:20 final size:18
Alignment explanation
Indices: 15693857--15693951 Score: 64
Period size: 17 Copynumber: 5.6 Consensus size: 18
15693847 CTATAAGATA
15693857 AATATTAAATTAA-ATTT
1 AATATTAAATTAATATTT
15693874 AATATTAAGA-TAATCACTTT
1 AATATTAA-ATTAAT-A-TTT
*
15693894 AATATTAAATTAATA--A
1 AATATTAAATTAATATTT
* *
15693910 AATACT--ATTAAGA--T
1 AATATTAAATTAATATTT
15693924 AAGTATTAAATTAA-ATTT
1 AA-TATTAAATTAATATTT
15693942 AATATTAAAT
1 AATATTAAAT
15693952 ATATTAAAAT
Statistics
Matches: 63, Mismatches: 5, Indels: 20
0.72 0.06 0.23
Matches are distributed among these distances:
14 8 0.13
15 3 0.05
16 6 0.10
17 24 0.38
18 4 0.06
19 3 0.05
20 15 0.24
ACGTcount: A:0.53, C:0.03, G:0.03, T:0.41
Consensus pattern (18 bp):
AATATTAAATTAATATTT
Found at i:15693942 original size:68 final size:71
Alignment explanation
Indices: 15693812--15693949 Score: 212
Period size: 68 Copynumber: 2.0 Consensus size: 71
15693802 TGATTAAATT
15693812 TAATCACTTTAATAGTAAATTAATAGAATATTTATCTATAAGATAAATATTAAATTAAATTTAAT
1 TAATCACTTTAATAGTAAATTAATAGAATA-TTATCTATAAGATAAATATTAAATTAAATTTAAT
15693877 ATTAAGA
65 ATTAAGA
* *
15693884 TAATCACTTTAATATTAAATTAATA-AA-A-TA-CTATTAAGATAAGTATTAAATTAAATTTAAT
1 TAATCACTTTAATAGTAAATTAATAGAATATTATCTA-TAAGATAAATATTAAATTAAATTTAAT
15693945 ATTAA
65 ATTAA
15693950 ATATATTAAA
Statistics
Matches: 63, Mismatches: 2, Indels: 6
0.89 0.03 0.08
Matches are distributed among these distances:
67 3 0.05
68 33 0.52
70 1 0.02
71 2 0.03
72 24 0.38
ACGTcount: A:0.51, C:0.04, G:0.04, T:0.41
Consensus pattern (71 bp):
TAATCACTTTAATAGTAAATTAATAGAATATTATCTATAAGATAAATATTAAATTAAATTTAATA
TTAAGA
Found at i:15700526 original size:8 final size:8
Alignment explanation
Indices: 15700503--15700536 Score: 54
Period size: 8 Copynumber: 4.5 Consensus size: 8
15700493 TCCACCAATT
15700503 CACGACTC
1 CACGACTC
15700511 CACG--TC
1 CACGACTC
15700517 CACGACTC
1 CACGACTC
15700525 CACGACTC
1 CACGACTC
15700533 CACG
1 CACG
15700537 GTGCTTCACT
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
6 6 0.25
8 18 0.75
ACGTcount: A:0.24, C:0.50, G:0.15, T:0.12
Consensus pattern (8 bp):
CACGACTC
Found at i:15700536 original size:22 final size:22
Alignment explanation
Indices: 15700485--15700536 Score: 68
Period size: 22 Copynumber: 2.4 Consensus size: 22
15700475 ATCGGATCCA
* *
15700485 ACTCCACCTCCACCAATTCACG
1 ACTCCACGTCCACCAATCCACG
* *
15700507 ACTCCACGTCCACGACTCCACG
1 ACTCCACGTCCACCAATCCACG
15700529 ACTCCACG
1 ACTCCACG
15700537 GTGCTTCACT
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
22 26 1.00
ACGTcount: A:0.25, C:0.50, G:0.10, T:0.15
Consensus pattern (22 bp):
ACTCCACGTCCACCAATCCACG
Found at i:15707683 original size:16 final size:17
Alignment explanation
Indices: 15707657--15707692 Score: 56
Period size: 16 Copynumber: 2.2 Consensus size: 17
15707647 AAAAGTATAA
15707657 AAATATATAAAAATGTT
1 AAATATATAAAAATGTT
*
15707674 AAAT-TATAAAAATTTT
1 AAATATATAAAAATGTT
15707690 AAA
1 AAA
15707693 GTTTTCCGAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 14 0.78
17 4 0.22
ACGTcount: A:0.61, C:0.00, G:0.03, T:0.36
Consensus pattern (17 bp):
AAATATATAAAAATGTT
Found at i:15711031 original size:46 final size:46
Alignment explanation
Indices: 15710978--15711072 Score: 163
Period size: 46 Copynumber: 2.1 Consensus size: 46
15710968 TCTCTTTTCT
*
15710978 TTTAATTAGGAGATTAGATGCTAAAGTTTAGGAAATAATGTTTTGG
1 TTTAATTAGGAGATTAGATGCTAAAATTTAGGAAATAATGTTTTGG
* *
15711024 TTTAATTAGGAGATTAGATGCTAAAATTTAGGAGATAATTTTTTGG
1 TTTAATTAGGAGATTAGATGCTAAAATTTAGGAAATAATGTTTTGG
15711070 TTT
1 TTT
15711073 CTATCTTTGT
Statistics
Matches: 46, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
46 46 1.00
ACGTcount: A:0.34, C:0.02, G:0.22, T:0.42
Consensus pattern (46 bp):
TTTAATTAGGAGATTAGATGCTAAAATTTAGGAAATAATGTTTTGG
Found at i:15717419 original size:30 final size:30
Alignment explanation
Indices: 15717383--15717440 Score: 107
Period size: 30 Copynumber: 1.9 Consensus size: 30
15717373 CACCGGCTGG
*
15717383 CACACAGGCGTGTGTCAAGCCCGTGTGGCT
1 CACACAGGCGTGTGCCAAGCCCGTGTGGCT
15717413 CACACAGGCGTGTGCCAAGCCCGTGTGG
1 CACACAGGCGTGTGCCAAGCCCGTGTGG
15717441 AAATGCTCAG
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.17, C:0.31, G:0.34, T:0.17
Consensus pattern (30 bp):
CACACAGGCGTGTGCCAAGCCCGTGTGGCT
Found at i:15718766 original size:19 final size:20
Alignment explanation
Indices: 15718742--15718781 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 20
15718732 GTTTTTTTTT
15718742 TTTGAA-TTTTTTTATAAAA
1 TTTGAAGTTTTTTTATAAAA
*
15718761 TTTGAAGGTTTTTTTTTAAAA
1 TTTGAA-GTTTTTTTATAAAA
15718782 AATTGAAATT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 6 0.33
21 12 0.67
ACGTcount: A:0.33, C:0.00, G:0.10, T:0.57
Consensus pattern (20 bp):
TTTGAAGTTTTTTTATAAAA
Found at i:15733677 original size:43 final size:44
Alignment explanation
Indices: 15733494--15734246 Score: 267
Period size: 44 Copynumber: 17.5 Consensus size: 44
15733484 ACAGATCGAG
* *
15733494 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAATA-AG-CAA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAA-ACCGACAA
* * * * *
15733537 GTCTTAT-TCTCCTGAAGTTGCAG-CGAGGCAGACTGAAGA-GGGCAAA
1 -TCTTATCTC-CCTGAAGTTGCAGTGGA-GCAGA-TTAAAACCGAC-AA
* *
15733583 TCTTATCTCCCTGAAGTTGTAGTGGAGCAGATTAAAGCCGACAA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAACCGACAA
* * ** *
15733627 TCCTATCTCGCTGAAGTTGCAGTGG-GTGGATTAAAACC-TCAGA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAACCGACA-A
* * *** * * *
15733670 TCTTATCTCTCTGAAGTTGCAG-AGAGCAGA-TCGCATC--TAG
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAACCGACAA
* *
15733710 TCTTATCTCCCTGAAGTTGCAGTGGAGC-GAACTGAGTAA--G-CAA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAG-A-TTA-AAACCGACAA
* * * * * *
15733753 GTCTTATC-CTCTTGAAGTTGCAGT-AAGGCAGACTGAAGA-TGGCAAA
1 -TCTTATCTC-CCTGAAGTTGCAGTGGA-GCAGA-TTAAAACCGAC-AA
** **
15733799 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGTCGGTAA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAACCGACAA
* * * * *
15733843 TCCTATCTCGCTGAAGTTGCAGTGG-GCGGATTAAAACCTTA-GA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAACC-GACAA
* * * * * * * * * * *
15733886 TCTTATTTCTCTGAAATTGTAG-AGAGCAG-GTCACATC--TAG
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAACCGACAA
* *
15733926 TCTTATCTCCCTGAAGTTGCAGTGGAGCGGACTAAGTAA--G-CAA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAA--AACCGACAA
* * *
15733969 GTCTTATC-CTCCTGAAGTTGCAGT-GAGGCAGACTGAAGA-TGACAAA
1 -TCTTATCTC-CCTGAAGTTGCAGTGGA-GCAGA-TTAAAACCGAC-AA
* * * **
15734015 TATTATCTCCCTG-A-----AGTGGAGCATATTAAAGCCGGTAA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAACCGACAA
* * * * *
15734053 TCCTATCTCCCTGAAGTTGCAGTAGAGCGGATTGAAATC-ACAGA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAACCGACA-A
* * * ** * *
15734097 TCTTATCTCTCTGAAATTGCAG-AGAGCAGATT-GCATC--TAA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAACCGACAA
**
15734137 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAACCGGTAA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAACCGACAA
* * * * *
15734181 TCCTATCTTCCTGAAGTTGCAGTGGAGCGGATTGAAATC-ACAGA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAACCGACA-A
*
15734225 TCTTATCTCTCTGAAGTTGCAG
1 TCTTATCTCCCTGAAGTTGCAG
15734247 AGAGCAAATC
Statistics
Matches: 527, Mismatches: 126, Indels: 112
0.69 0.16 0.15
Matches are distributed among these distances:
38 16 0.03
39 9 0.02
40 63 0.12
41 21 0.04
42 18 0.03
43 89 0.17
44 228 0.43
45 70 0.13
46 13 0.02
ACGTcount: A:0.28, C:0.20, G:0.24, T:0.28
Consensus pattern (44 bp):
TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAACCGACAA
Found at i:15733866 original size:216 final size:215
Alignment explanation
Indices: 15733492--15734164 Score: 1016
Period size: 216 Copynumber: 3.1 Consensus size: 215
15733482 TAACAGATCG
* *
15733492 AGTCTTATCTCCCTGAAGTTGCAGTGGAGC-AGACTAAATAAGCAAGTCTTATTCTCCTGAAGTT
1 AGTCTTATCTCCCTGAAGTTGCAGTGGAGCGA-ACTAAGTAAGCAAGTCTTATCCTCCTGAAGTT
* *
15733556 GCAGCGAGGCAGACTGAAGAGGGCAAATCTTATCTCCCTGAAGTTGTAGTGGAGCAGATTAAAGC
65 GCAGTGAGGCAGACTGAAGATGGCAAATCTTATCTCCCTGAAGTTG-AGTGGAGCAGATTAAAGC
** * *
15733621 CGACAATCCTATCTCGCTGAAGTTGCAGTGGGTGGATTAAAACCTCAGATCTTATCTCTCTGAAG
129 CGGTAATCCTATCTCGCTGAAGTTGCAGTGGGCGGATTAAAACCTCAGATCTTATCTCTCTGAAA
15733686 TTGCAGAGAGCAGATCGCATCT
194 TTGCAGAGAGCAGATCGCATCT
* *
15733708 AGTCTTATCTCCCTGAAGTTGCAGTGGAGCGAACTGAGTAAGCAAGTCTTATCCTCTTGAAGTTG
1 AGTCTTATCTCCCTGAAGTTGCAGTGGAGCGAACTAAGTAAGCAAGTCTTATCCTCCTGAAGTTG
* *
15733773 CAGTAAGGCAGACTGAAGATGGCAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGTC
66 CAGTGAGGCAGACTGAAGATGGCAAATCTTATCTCCCTGAAGTTG-AGTGGAGCAGATTAAAGCC
* *
15733838 GGTAATCCTATCTCGCTGAAGTTGCAGTGGGCGGATTAAAACCTTAGATCTTATTTCTCTGAAAT
130 GGTAATCCTATCTCGCTGAAGTTGCAGTGGGCGGATTAAAACCTCAGATCTTATCTCTCTGAAAT
* * *
15733903 TGTAGAGAGCAGGTCACATCT
195 TGCAGAGAGCAGATCGCATCT
*
15733924 AGTCTTATCTCCCTGAAGTTGCAGTGGAGCGGACTAAGTAAGCAAGTCTTATCCTCCTGAAGTTG
1 AGTCTTATCTCCCTGAAGTTGCAGTGGAGCGAACTAAGTAAGCAAGTCTTATCCTCCTGAAGTTG
* * *
15733989 CAGTGAGGCAGACTGAAGATGACAAATATTATCTCCCTG-A----AGTGGAGCATATTAAAGCCG
66 CAGTGAGGCAGACTGAAGATGGCAAATCTTATCTCCCTGAAGTTGAGTGGAGCAGATTAAAGCCG
* * * * *
15734049 GTAATCCTATCTCCCTGAAGTTGCAGTAGAGCGGATTGAAATCACAGATCTTATCTCTCTGAAAT
131 GTAATCCTATCTCGCTGAAGTTGCAGT-GGGCGGATTAAAACCTCAGATCTTATCTCTCTGAAAT
*
15734114 TGCAGAGAGCAGATTGCATCT
195 TGCAGAGAGCAGATCGCATCT
*
15734135 AATCTTATCTCCCTGAAGTTGCAGTGGAGC
1 AGTCTTATCTCCCTGAAGTTGCAGTGGAGC
15734165 AGATTAAAAC
Statistics
Matches: 417, Mismatches: 38, Indels: 9
0.90 0.08 0.02
Matches are distributed among these distances:
210 44 0.11
211 77 0.18
215 1 0.00
216 294 0.71
217 1 0.00
ACGTcount: A:0.28, C:0.20, G:0.24, T:0.27
Consensus pattern (215 bp):
AGTCTTATCTCCCTGAAGTTGCAGTGGAGCGAACTAAGTAAGCAAGTCTTATCCTCCTGAAGTTG
CAGTGAGGCAGACTGAAGATGGCAAATCTTATCTCCCTGAAGTTGAGTGGAGCAGATTAAAGCCG
GTAATCCTATCTCGCTGAAGTTGCAGTGGGCGGATTAAAACCTCAGATCTTATCTCTCTGAAATT
GCAGAGAGCAGATCGCATCT
Found at i:15734195 original size:84 final size:87
Alignment explanation
Indices: 15734050--15734252 Score: 213
Period size: 84 Copynumber: 2.4 Consensus size: 87
15734040 TTAAAGCCGG
* * * *
15734050 TAATCCTATCTCCCTGAAGTTGCAGTAGAGCGGATTGAAATCACAGATCTTATCTCTCTGAAATT
1 TAATCTTATCTCCCTGAAGTTGCAGTAGAGCAGATTGAAAACACAGATCCTATCTCTCTGAAATT
*
15734115 GCAG-AGAGCAGATTG-CATC-
66 GCAGTAGAGCAGATTGAAATCA
* *
15734134 TAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATT-AAAAC-CGGTAATCCTATCT-TCCTGAA
1 TAATCTTATCTCCCTGAAGTTGCAGTAGAGCAGATTGAAAACACAG--ATCCTATCTCT-CTGAA
* * *
15734196 GTTGCAGTGGAGCGGATTGAAATCA
63 ATTGCAGTAGAGCAGATTGAAATCA
* *
15734221 CAGATCTTATCTCTCTGAAGTTGCAG-AGAGCA
1 TA-ATCTTATCTCCCTGAAGTTGCAGTAGAGCA
15734253 AATCGTATCT
Statistics
Matches: 99, Mismatches: 13, Indels: 11
0.80 0.11 0.09
Matches are distributed among these distances:
82 2 0.02
83 5 0.05
84 52 0.53
85 9 0.09
86 3 0.03
87 6 0.06
88 22 0.22
ACGTcount: A:0.29, C:0.21, G:0.22, T:0.29
Consensus pattern (87 bp):
TAATCTTATCTCCCTGAAGTTGCAGTAGAGCAGATTGAAAACACAGATCCTATCTCTCTGAAATT
GCAGTAGAGCAGATTGAAATCA
Found at i:15734202 original size:128 final size:129
Alignment explanation
Indices: 15734029--15734296 Score: 439
Period size: 128 Copynumber: 2.1 Consensus size: 129
15734019 ATCTCCCTGA
* *
15734029 AGTGGAGCATATTAAAGCCGGTAATCCTATCTCCCTGAAGTTGCAGTAGAGCGGATTGAAATCAC
1 AGTGGAGCAGATTAAAACCGGTAATCCTATCTCCCTGAAGTTGCAGTAGAGCGGATTGAAATCAC
* *
15734094 AGATCTTATCTCTCTGAAATTGCAGAGAGCAGATTGCATCTAATCTTATCTCCCTGAAG-TTGC
66 AGATCTTATCTCTCTGAAATTGCAGAGAGCAAATCGCATCTAATCTTATCTCCCTGAAGATTGC
* *
15734157 AGTGGAGCAGATTAAAACCGGTAATCCTATCTTCCTGAAGTTGCAGTGGAGCGGATTGAAATCAC
1 AGTGGAGCAGATTAAAACCGGTAATCCTATCTCCCTGAAGTTGCAGTAGAGCGGATTGAAATCAC
* * * *
15734222 AGATCTTATCTCTCTGAAGTTGCAGAGAGCAAATCGTATCTAGTCTTATTTCCCTGAAGATTGC
66 AGATCTTATCTCTCTGAAATTGCAGAGAGCAAATCGCATCTAATCTTATCTCCCTGAAGATTGC
15734286 AGTGGAGCAGA
1 AGTGGAGCAGA
15734297 CTAAGATAGC
Statistics
Matches: 129, Mismatches: 10, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
128 114 0.88
129 15 0.12
ACGTcount: A:0.29, C:0.20, G:0.23, T:0.28
Consensus pattern (129 bp):
AGTGGAGCAGATTAAAACCGGTAATCCTATCTCCCTGAAGTTGCAGTAGAGCGGATTGAAATCAC
AGATCTTATCTCTCTGAAATTGCAGAGAGCAAATCGCATCTAATCTTATCTCCCTGAAGATTGC
Found at i:15737616 original size:25 final size:21
Alignment explanation
Indices: 15737605--15737644 Score: 64
Period size: 22 Copynumber: 1.9 Consensus size: 21
15737595 AATTCTTATA
15737605 AAAAAATAAATTAGAAAATTCT
1 AAAAAATAAATTAG-AAATTCT
15737627 AAAAAATAAA-TAGAAATT
1 AAAAAATAAATTAGAAATT
15737645 AAAAAACTTA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 5 0.28
21 3 0.17
22 10 0.56
ACGTcount: A:0.68, C:0.03, G:0.05, T:0.25
Consensus pattern (21 bp):
AAAAAATAAATTAGAAATTCT
Found at i:15737637 original size:26 final size:25
Alignment explanation
Indices: 15737588--15737638 Score: 68
Period size: 25 Copynumber: 2.0 Consensus size: 25
15737578 TTTAGAAACT
*
15737588 AATTAGAAATTCTTATAAAAAAATA
1 AATTAGAAATTCTTAAAAAAAAATA
15737613 AATTAGAAAATTC-TAAAAAATAAATA
1 AATTAG-AAATTCTTAAAAAA-AAATA
15737639 GAAATTAAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
25 12 0.52
26 11 0.48
ACGTcount: A:0.63, C:0.04, G:0.04, T:0.29
Consensus pattern (25 bp):
AATTAGAAATTCTTAAAAAAAAATA
Found at i:15739727 original size:48 final size:48
Alignment explanation
Indices: 15739655--15739748 Score: 152
Period size: 48 Copynumber: 2.0 Consensus size: 48
15739645 TGGGTATTAG
* * *
15739655 TCATGTGCTTAATGATGTTCAGGATTCATAGTTATCTCTGTAACAATA
1 TCATGTGCTGAATGATATTCAGGATTCATAGTTATCTCTCTAACAATA
*
15739703 TCATGTGCTGAATGATATTTAGGATTCATAGTTATCTCTCTAACAA
1 TCATGTGCTGAATGATATTCAGGATTCATAGTTATCTCTCTAACAA
15739749 CATTGTTTTT
Statistics
Matches: 42, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
48 42 1.00
ACGTcount: A:0.30, C:0.15, G:0.16, T:0.39
Consensus pattern (48 bp):
TCATGTGCTGAATGATATTCAGGATTCATAGTTATCTCTCTAACAATA
Found at i:15740923 original size:22 final size:22
Alignment explanation
Indices: 15740898--15740944 Score: 60
Period size: 22 Copynumber: 2.1 Consensus size: 22
15740888 AGAGTTATAT
15740898 AATA-TAAAAAGAATAATAACAA
1 AATAGTAAAAAG-ATAATAACAA
**
15740920 AATAGTAGCAAGATAATAACAA
1 AATAGTAAAAAGATAATAACAA
15740942 AAT
1 AAT
15740945 GACAAGCAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
22 17 0.77
23 5 0.23
ACGTcount: A:0.66, C:0.06, G:0.09, T:0.19
Consensus pattern (22 bp):
AATAGTAAAAAGATAATAACAA
Found at i:15744027 original size:15 final size:14
Alignment explanation
Indices: 15744002--15744054 Score: 65
Period size: 15 Copynumber: 3.7 Consensus size: 14
15743992 ATATAAGTAA
15744002 ATAT-AATAATAAT
1 ATATAAATAATAAT
15744015 ATATAATATAATAAT
1 ATATAA-ATAATAAT
15744030 AT-TAAACTAATAAT
1 ATATAAA-TAATAAT
15744044 AATATAAATAA
1 -ATATAAATAA
15744055 ACAGTATTAA
Statistics
Matches: 35, Mismatches: 0, Indels: 8
0.81 0.00 0.19
Matches are distributed among these distances:
13 5 0.14
14 11 0.31
15 15 0.43
16 4 0.11
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.36
Consensus pattern (14 bp):
ATATAAATAATAAT
Found at i:15744073 original size:30 final size:32
Alignment explanation
Indices: 15743999--15744075 Score: 88
Period size: 30 Copynumber: 2.4 Consensus size: 32
15743989 CGCATATAAG
*
15743999 TAAATATAATAATAATATATAATATAATAATAT
1 TAAA-ATAATAATAATATATAATATAACAATAT
* *
15744032 TAAACTAATAATAATATA-AATA-AACAGTAT
1 TAAAATAATAATAATATATAATATAACAATAT
15744062 TAACAAT-ATAATAA
1 TAA-AATAATAATAA
15744076 AAAAAAACTA
Statistics
Matches: 39, Mismatches: 4, Indels: 5
0.81 0.08 0.10
Matches are distributed among these distances:
30 16 0.41
31 6 0.15
32 13 0.33
33 4 0.10
ACGTcount: A:0.61, C:0.04, G:0.01, T:0.34
Consensus pattern (32 bp):
TAAAATAATAATAATATATAATATAACAATAT
Found at i:15745343 original size:82 final size:82
Alignment explanation
Indices: 15745252--15745432 Score: 224
Period size: 82 Copynumber: 2.2 Consensus size: 82
15745242 CACTGCAATT
* ** * *
15745252 TTAGGGAGATAAGA-CTTGT-AGCTTCAACTTATTCTGCTGCAATTTTAAAAATAAGTTTGATGC
1 TTAGAGAGATAAGATC-TGTCA-CTTCAACTTATTCCACTGCAATTTTAAAAATAAGTCTGATAC
*
15745315 GATCTGCTCTATTGCAAC-
64 AATCTGCTCTATTGCAACA
* * *
15745333 TTCAGAGAGATAAGATCTGTCATTTCAACTTATTCCACTGCAATTTTAAAGATGAGTCTGATACA
1 TT-AGAGAGATAAGATCTGTCACTTCAACTTATTCCACTGCAATTTTAAAAATAAGTCTGATACA
15745398 ATCTGCTCTATTGCAACA
65 ATCTGCTCTATTGCAACA
*
15745416 TTAGAGAGATGAGATCT
1 TTAGAGAGATAAGATCT
15745433 ATCATTTTGA
Statistics
Matches: 86, Mismatches: 10, Indels: 7
0.83 0.10 0.07
Matches are distributed among these distances:
81 2 0.02
82 80 0.93
83 4 0.05
ACGTcount: A:0.31, C:0.17, G:0.18, T:0.34
Consensus pattern (82 bp):
TTAGAGAGATAAGATCTGTCACTTCAACTTATTCCACTGCAATTTTAAAAATAAGTCTGATACAA
TCTGCTCTATTGCAACA
Found at i:15745438 original size:82 final size:82
Alignment explanation
Indices: 15745274--15745439 Score: 235
Period size: 82 Copynumber: 2.0 Consensus size: 82
15745264 GACTTGTAGC
** * * *
15745274 TTCAACTTATTCTGCTGCAATTTTAAAAATAAGTTTGATGCGATCTGCTCTATTGCAACTTCAGA
1 TTCAACTTATTCCACTGCAATTTTAAAAATAAGTCTGATACAATCTGCTCTATTGCAACTTCAGA
*
15745339 GAGATAAGATCTGTCAT
66 GAGATAAGATCTATCAT
* *
15745356 TTCAACTTATTCCACTGCAATTTTAAAGATGAGTCTGATACAATCTGCTCTATTGCAACATT-AG
1 TTCAACTTATTCCACTGCAATTTTAAAAATAAGTCTGATACAATCTGCTCTATTGCAAC-TTCAG
*
15745420 AGAGATGAGATCTATCAT
65 AGAGATAAGATCTATCAT
15745438 TT
1 TT
15745440 TGATCCGCTC
Statistics
Matches: 74, Mismatches: 9, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
82 72 0.97
83 2 0.03
ACGTcount: A:0.31, C:0.17, G:0.15, T:0.36
Consensus pattern (82 bp):
TTCAACTTATTCCACTGCAATTTTAAAAATAAGTCTGATACAATCTGCTCTATTGCAACTTCAGA
GAGATAAGATCTATCAT
Found at i:15745654 original size:100 final size:100
Alignment explanation
Indices: 15745481--15745788 Score: 413
Period size: 100 Copynumber: 3.1 Consensus size: 100
15745471 GAATTATTTA
* * * *
15745481 CTTCAAT-TTGTTTAACTGCAATGTCAGGGAAACAAGATTCACCGTCGT-GACTTCAATCTATTC
1 CTTCAATCTT-TTAAACTGCAATGTCGGGGAAACAAGATCCGCCGTCGTAG-CTTCAATCTATTC
* * *
15745544 CACTACACCGCCAGAGAGGTAAGATTCGTCGTTGTGG
64 CACTACACCGCCAGGGAAGTAAGATTCGCCGTTGTGG
* * *
15745581 CTTCAATCTTTTAAATTGCAATGTCGGGGAAACTAGATCCGCCGTCGTAGCTTCAATCTGTTCCA
1 CTTCAATCTTTTAAACTGCAATGTCGGGGAAACAAGATCCGCCGTCGTAGCTTCAATCTATTCCA
*
15745646 CTACACCGCCAGGGAAGTAAGATCCGCCGTTGTGG
66 CTACACCGCCAGGGAAGTAAGATTCGCCGTTGTGG
* * *
15745681 CTTCAATATTTTTAACTGCAATGTCGGGGAAACCAGATCCGCCGTCGTAGCTTCAATCTATTCCA
1 CTTCAATCTTTTAAACTGCAATGTCGGGGAAACAAGATCCGCCGTCGTAGCTTCAATCTATTCCA
* * ** *
15745746 CAACACTGCCAGGGAAACAAGATTCACCGTTGTGG
66 CTACACCGCCAGGGAAGTAAGATTCGCCGTTGTGG
15745781 CTTCAATC
1 CTTCAATC
15745789 CGTTCCACTG
Statistics
Matches: 183, Mismatches: 23, Indels: 4
0.87 0.11 0.02
Matches are distributed among these distances:
100 180 0.98
101 3 0.02
ACGTcount: A:0.26, C:0.25, G:0.21, T:0.28
Consensus pattern (100 bp):
CTTCAATCTTTTAAACTGCAATGTCGGGGAAACAAGATCCGCCGTCGTAGCTTCAATCTATTCCA
CTACACCGCCAGGGAAGTAAGATTCGCCGTTGTGG
Found at i:15745806 original size:50 final size:50
Alignment explanation
Indices: 15745495--15745806 Score: 210
Period size: 50 Copynumber: 6.2 Consensus size: 50
15745485 AATTTGTTTA
* * * *
15745495 ACTGCAATGTCAGGGAAACAAGATTCACCGTCGTGACTTCAATCTATTCC
1 ACTGCAATGCCAGGGAAACAAGATCCGCCGTCGTGGCTTCAATCTATTCC
* ** * *** * * * * **
15745545 ACTACACCGCCAGAGAGGTAAGATTCGTCGTTGTGGCTTCAATCTTTTAA
1 ACTGCAATGCCAGGGAAACAAGATCCGCCGTCGTGGCTTCAATCTATTCC
* * * * * *
15745595 ATTGCAATGTCGGGGAAACTAGATCCGCCGTCGTAGCTTCAATCTGTTCC
1 ACTGCAATGCCAGGGAAACAAGATCCGCCGTCGTGGCTTCAATCTATTCC
* ** ** * * * **
15745645 ACTACACCGCCAGGGAAGTAAGATCCGCCGTTGTGGCTTCAATATTTTTA
1 ACTGCAATGCCAGGGAAACAAGATCCGCCGTCGTGGCTTCAATCTATTCC
* * * *
15745695 ACTGCAATGTCGGGGAAACCAGATCCGCCGTCGTAGCTTCAATCTATTCC
1 ACTGCAATGCCAGGGAAACAAGATCCGCCGTCGTGGCTTCAATCTATTCC
** * * * * **
15745745 ACAACACTGCCAGGGAAACAAGATTCACCGTTGTGGCTTCAATCCGTTCC
1 ACTGCAATGCCAGGGAAACAAGATCCGCCGTCGTGGCTTCAATCTATTCC
*
15745795 ACTGTAATGCCA
1 ACTGCAATGCCA
15745807 AAAAGATAGG
Statistics
Matches: 184, Mismatches: 78, Indels: 0
0.70 0.30 0.00
Matches are distributed among these distances:
50 184 1.00
ACGTcount: A:0.26, C:0.26, G:0.21, T:0.26
Consensus pattern (50 bp):
ACTGCAATGCCAGGGAAACAAGATCCGCCGTCGTGGCTTCAATCTATTCC
Found at i:15750836 original size:23 final size:24
Alignment explanation
Indices: 15750802--15750864 Score: 58
Period size: 24 Copynumber: 2.6 Consensus size: 24
15750792 TGAACAAAAT
* *
15750802 ATGATTATG-AAATGAATAAAAGA
1 ATGATTATGAAAAAGAAAAAAAGA
15750825 ATGATGTA-GAAAAAGAAAAAAAGA
1 ATGAT-TATGAAAAAGAAAAAAAGA
*
15750849 ATAATTACTCGAAAAA
1 ATGATTA-T-GAAAAA
15750865 ATATTAAAAG
Statistics
Matches: 32, Mismatches: 3, Indels: 7
0.76 0.07 0.17
Matches are distributed among these distances:
23 8 0.25
24 18 0.56
26 6 0.19
ACGTcount: A:0.60, C:0.03, G:0.16, T:0.21
Consensus pattern (24 bp):
ATGATTATGAAAAAGAAAAAAAGA
Found at i:15750894 original size:14 final size:14
Alignment explanation
Indices: 15750875--15750907 Score: 66
Period size: 14 Copynumber: 2.4 Consensus size: 14
15750865 ATATTAAAAG
15750875 AATACTGGCTCAAA
1 AATACTGGCTCAAA
15750889 AATACTGGCTCAAA
1 AATACTGGCTCAAA
15750903 AATAC
1 AATAC
15750908 ATACGAAAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.45, C:0.21, G:0.12, T:0.21
Consensus pattern (14 bp):
AATACTGGCTCAAA
Found at i:15754364 original size:24 final size:24
Alignment explanation
Indices: 15754332--15754389 Score: 98
Period size: 24 Copynumber: 2.4 Consensus size: 24
15754322 CTCGAGCTGC
*
15754332 TCCTACATTTGCTACTGAAGTTGA
1 TCCTGCATTTGCTACTGAAGTTGA
*
15754356 TCCTGCATTTGCTGCTGAAGTTGA
1 TCCTGCATTTGCTACTGAAGTTGA
15754380 TCCTGCATTT
1 TCCTGCATTT
15754390 CTTTCTGGAA
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
24 32 1.00
ACGTcount: A:0.19, C:0.22, G:0.19, T:0.40
Consensus pattern (24 bp):
TCCTGCATTTGCTACTGAAGTTGA
Found at i:15758377 original size:15 final size:14
Alignment explanation
Indices: 15758352--15758404 Score: 65
Period size: 15 Copynumber: 3.7 Consensus size: 14
15758342 ATATAAGTAA
15758352 ATAT-AATAATAAT
1 ATATAAATAATAAT
15758365 ATATAATATAATAAT
1 ATATAA-ATAATAAT
15758380 AT-TAAACTAATAAT
1 ATATAAA-TAATAAT
15758394 AATATAAATAA
1 -ATATAAATAA
15758405 ACAGTATTAA
Statistics
Matches: 35, Mismatches: 0, Indels: 8
0.81 0.00 0.19
Matches are distributed among these distances:
13 5 0.14
14 11 0.31
15 15 0.43
16 4 0.11
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.36
Consensus pattern (14 bp):
ATATAAATAATAAT
Found at i:15758423 original size:30 final size:32
Alignment explanation
Indices: 15758349--15758425 Score: 88
Period size: 30 Copynumber: 2.4 Consensus size: 32
15758339 CGCATATAAG
*
15758349 TAAATATAATAATAATATATAATATAATAATAT
1 TAAA-ATAATAATAATATATAATATAACAATAT
* *
15758382 TAAACTAATAATAATATA-AATA-AACAGTAT
1 TAAAATAATAATAATATATAATATAACAATAT
15758412 TAACAAT-ATAATAA
1 TAA-AATAATAATAA
15758426 AAAAAAACTA
Statistics
Matches: 39, Mismatches: 4, Indels: 5
0.81 0.08 0.10
Matches are distributed among these distances:
30 16 0.41
31 6 0.15
32 13 0.33
33 4 0.10
ACGTcount: A:0.61, C:0.04, G:0.01, T:0.34
Consensus pattern (32 bp):
TAAAATAATAATAATATATAATATAACAATAT
Found at i:15759841 original size:44 final size:44
Alignment explanation
Indices: 15759789--15759921 Score: 266
Period size: 44 Copynumber: 3.0 Consensus size: 44
15759779 ACATGATGAG
15759789 AATTATGATATAATTATACTCTGCCAATCAAATAGATGGAAACT
1 AATTATGATATAATTATACTCTGCCAATCAAATAGATGGAAACT
15759833 AATTATGATATAATTATACTCTGCCAATCAAATAGATGGAAACT
1 AATTATGATATAATTATACTCTGCCAATCAAATAGATGGAAACT
15759877 AATTATGATATAATTATACTCTGCCAATCAAATAGATGGAAACT
1 AATTATGATATAATTATACTCTGCCAATCAAATAGATGGAAACT
15759921 A
1 A
15759922 TAGTGAAAAC
Statistics
Matches: 89, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
44 89 1.00
ACGTcount: A:0.44, C:0.14, G:0.11, T:0.32
Consensus pattern (44 bp):
AATTATGATATAATTATACTCTGCCAATCAAATAGATGGAAACT
Found at i:15766976 original size:13 final size:13
Alignment explanation
Indices: 15766958--15766983 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
15766948 AAAGAAATTT
15766958 GTTTTCTAGTAAA
1 GTTTTCTAGTAAA
15766971 GTTTTCTAGTAAA
1 GTTTTCTAGTAAA
15766984 AAATTGAACA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.08, G:0.15, T:0.46
Consensus pattern (13 bp):
GTTTTCTAGTAAA
Found at i:15767053 original size:19 final size:19
Alignment explanation
Indices: 15767013--15767054 Score: 50
Period size: 19 Copynumber: 2.2 Consensus size: 19
15767003 GTCTCTTTTC
* *
15767013 GCATTCATTTCATGCATTT
1 GCATTCATTACATGCATAT
15767032 GCATTACATTACAT-CATAT
1 GCATT-CATTACATGCATAT
15767051 GCAT
1 GCAT
15767055 CAAAGATTAT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
19 13 0.65
20 7 0.35
ACGTcount: A:0.29, C:0.21, G:0.10, T:0.40
Consensus pattern (19 bp):
GCATTCATTACATGCATAT
Found at i:15769936 original size:7 final size:7
Alignment explanation
Indices: 15769911--15769943 Score: 50
Period size: 7 Copynumber: 4.7 Consensus size: 7
15769901 AATGATGGGA
15769911 AAAAATG
1 AAAAATG
15769918 AAAAGATG
1 AAAA-ATG
15769926 -AAAATG
1 AAAAATG
15769932 AAAAATG
1 AAAAATG
15769939 AAAAA
1 AAAAA
15769944 GTAAAATGGA
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
6 3 0.12
7 18 0.75
8 3 0.12
ACGTcount: A:0.73, C:0.00, G:0.15, T:0.12
Consensus pattern (7 bp):
AAAAATG
Found at i:15771265 original size:44 final size:44
Alignment explanation
Indices: 15771199--15771982 Score: 433
Period size: 44 Copynumber: 17.8 Consensus size: 44
15771189 ATGATAAAGC
* * * *
15771199 CTTATCTCCCTGGGCAACAGTGGAATAGACTGAAGATTACAGAT
1 CTTATCTCCCTAGGCAGCAGTGGAGTAGATTGAAGATTACAGAT
* * * * ** *
15771243 CTTATCTCCCTAAGTAGTAGTGGAGCAGATCAAAGATGACAGAT
1 CTTATCTCCCTAGGCAGCAGTGGAGTAGATTGAAGATTACAGAT
* * * * * * *
15771287 TTTACCTCCCTGAGGTTA-CAGTGGAGTATATTAAAGCCAGTA-A-TT
1 CTTATCTCCCT-AGG-CAGCAGTGGAGTAGATTGAAG--ATTACAGAT
* *
15771332 C-TATCTCCCTAAGCAGCAGTGGAATAGATTGAAGATTACAGAT
1 CTTATCTCCCTAGGCAGCAGTGGAGTAGATTGAAGATTACAGAT
* * * * ** *
15771375 CTTATCTCCCTAAGTAGTAGTGGAGCAGATCAAAGATGACAGAT
1 CTTATCTCCCTAGGCAGCAGTGGAGTAGATTGAAGATTACAGAT
* * * * * *
15771419 TTTACCTCCCTGAGGTTA-CAGTGGAGTACATTGAAGCCTGTA-A-TT
1 CTTATCTCCCT-AGG-CAGCAGTGGAGTAGATTGAAG-AT-TACAGAT
* *
15771464 C-TATCTCCCTGGGCAGCAGTGGAATAGATTGAAGATTACAGAT
1 CTTATCTCCCTAGGCAGCAGTGGAGTAGATTGAAGATTACAGAT
* * * ** *
15771507 CTTATCTCCCTGGGCAGTAGTGGAGTAGATCGAAGATGGCGGAT
1 CTTATCTCCCTAGGCAGCAGTGGAGTAGATTGAAGATTACAGAT
* * * * * * *
15771551 TTTACCTCCCTAAGGTTA-TAGTGGAGTACATTGAAGCCAATA-A-TT
1 CTTATCTCCCT-AGG-CAGCAGTGGAGTAGATTGAAG--ATTACAGAT
* * *
15771596 C-TATCTCCCTGGGCAGCAGTGGAATAGATTGTAGATTACAGAT
1 CTTATCTCCCTAGGCAGCAGTGGAGTAGATTGAAGATTACAGAT
* * * * ** *
15771639 CTTATCTCCCTAGGCAGTAGTGGAGCATA-TCAATGATGGCGGAT
1 CTTATCTCCCTAGGCAGCAGTGGAGTAGATTGAA-GATTACAGAT
* * * * * *
15771683 TTTACCTCCCTGAGGTTA-CAGTGGAGTACATTGAAGCCAGTA-A-TT
1 CTTATCTCCCT-AGG-CAGCAGTGGAGTAGATTGAAG--ATTACAGAT
* * *
15771728 C-TATCTCCCTGGGCAGCAGTGGAATAGATTGTAGATTACAGAT
1 CTTATCTCCCTAGGCAGCAGTGGAGTAGATTGAAGATTACAGAT
* ** *
15771771 CTTATCTCCCTAGGCAGTAGTGGAGTAGATCAAAGATGACAGAT
1 CTTATCTCCCTAGGCAGCAGTGGAGTAGATTGAAGATTACAGAT
* * * * * *
15771815 TTTACCTCCCTGAGGTTA-CAGTGGAGTACATTGAAGCCAGTA-A-TT
1 CTTATCTCCCT-AGG-CAGCAGTGGAGTAGATTGAAG--ATTACAGAT
* *
15771860 C-TATCTCCCTGGGCAGCAGTGGAATAGATTGAAGATTACAGAT
1 CTTATCTCCCTAGGCAGCAGTGGAGTAGATTGAAGATTACAGAT
* * *
15771903 CTTATCTCCCTAGGCAGTAGTGGAGTAGATCGAAGATGACAGAT
1 CTTATCTCCCTAGGCAGCAGTGGAGTAGATTGAAGATTACAGAT
* * * *
15771947 TTTACCTCCCTGAGGTTA-CAGTGGAGTATATTGAAG
1 CTTATCTCCCT-AGG-CAGCAGTGGAGTAGATTGAAG
15771983 CCAGCAATTC
Statistics
Matches: 546, Mismatches: 150, Indels: 87
0.70 0.19 0.11
Matches are distributed among these distances:
41 14 0.03
42 11 0.02
43 98 0.18
44 299 0.55
45 102 0.19
46 15 0.03
47 7 0.01
ACGTcount: A:0.29, C:0.19, G:0.24, T:0.28
Consensus pattern (44 bp):
CTTATCTCCCTAGGCAGCAGTGGAGTAGATTGAAGATTACAGAT
Found at i:15772065 original size:132 final size:132
Alignment explanation
Indices: 15771201--15772026 Score: 1337
Period size: 132 Copynumber: 6.3 Consensus size: 132
15771191 GATAAAGCCT
* * * *
15771201 TATCTCCCTGGGCAACAGTGGAATAGACTGAAGATTACAGATCTTATCTCCCTAAGTAGTAGTGG
1 TATCTCCCTGGGCAGCAGTGGAATAGATTGAAGATTACAGATCTTATCTCCCTAGGCAGTAGTGG
* * *
15771266 AGCAGATCAAAGATGACAGATTTTACCTCCCTGAGGTTACAGTGGAGTATATTAAAGCCAGTAAT
66 AGTAGATCAAAGATGACAGATTTTACCTCCCTGAGGTTACAGTGGAGTACATTGAAGCCAGTAAT
15771331 TC
131 TC
** * *
15771333 TATCTCCCTAAGCAGCAGTGGAATAGATTGAAGATTACAGATCTTATCTCCCTAAGTAGTAGTGG
1 TATCTCCCTGGGCAGCAGTGGAATAGATTGAAGATTACAGATCTTATCTCCCTAGGCAGTAGTGG
* *
15771398 AGCAGATCAAAGATGACAGATTTTACCTCCCTGAGGTTACAGTGGAGTACATTGAAGCCTGTAAT
66 AGTAGATCAAAGATGACAGATTTTACCTCCCTGAGGTTACAGTGGAGTACATTGAAGCCAGTAAT
15771463 TC
131 TC
*
15771465 TATCTCCCTGGGCAGCAGTGGAATAGATTGAAGATTACAGATCTTATCTCCCTGGGCAGTAGTGG
1 TATCTCCCTGGGCAGCAGTGGAATAGATTGAAGATTACAGATCTTATCTCCCTAGGCAGTAGTGG
* * * * * *
15771530 AGTAGATCGAAGATGGCGGATTTTACCTCCCTAAGGTTATAGTGGAGTACATTGAAGCCAATAAT
66 AGTAGATCAAAGATGACAGATTTTACCTCCCTGAGGTTACAGTGGAGTACATTGAAGCCAGTAAT
15771595 TC
131 TC
*
15771597 TATCTCCCTGGGCAGCAGTGGAATAGATTGTAGATTACAGATCTTATCTCCCTAGGCAGTAGTGG
1 TATCTCCCTGGGCAGCAGTGGAATAGATTGAAGATTACAGATCTTATCTCCCTAGGCAGTAGTGG
* * * * *
15771662 AGCATATCAATGATGGCGGATTTTACCTCCCTGAGGTTACAGTGGAGTACATTGAAGCCAGTAAT
66 AGTAGATCAAAGATGACAGATTTTACCTCCCTGAGGTTACAGTGGAGTACATTGAAGCCAGTAAT
15771727 TC
131 TC
*
15771729 TATCTCCCTGGGCAGCAGTGGAATAGATTGTAGATTACAGATCTTATCTCCCTAGGCAGTAGTGG
1 TATCTCCCTGGGCAGCAGTGGAATAGATTGAAGATTACAGATCTTATCTCCCTAGGCAGTAGTGG
15771794 AGTAGATCAAAGATGACAGATTTTACCTCCCTGAGGTTACAGTGGAGTACATTGAAGCCAGTAAT
66 AGTAGATCAAAGATGACAGATTTTACCTCCCTGAGGTTACAGTGGAGTACATTGAAGCCAGTAAT
15771859 TC
131 TC
15771861 TATCTCCCTGGGCAGCAGTGGAATAGATTGAAGATTACAGATCTTATCTCCCTAGGCAGTAGTGG
1 TATCTCCCTGGGCAGCAGTGGAATAGATTGAAGATTACAGATCTTATCTCCCTAGGCAGTAGTGG
* * *
15771926 AGTAGATCGAAGATGACAGATTTTACCTCCCTGAGGTTACAGTGGAGTATATTGAAGCCAGCAAT
66 AGTAGATCAAAGATGACAGATTTTACCTCCCTGAGGTTACAGTGGAGTACATTGAAGCCAGTAAT
15771991 TC
131 TC
* * * * *
15771993 TATCTCCCTGGTCGGTAGTGGAATCGATCGAAGA
1 TATCTCCCTGGGCAGCAGTGGAATAGATTGAAGA
15772027 AAGCAGATCT
Statistics
Matches: 651, Mismatches: 43, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
132 651 1.00
ACGTcount: A:0.29, C:0.19, G:0.24, T:0.28
Consensus pattern (132 bp):
TATCTCCCTGGGCAGCAGTGGAATAGATTGAAGATTACAGATCTTATCTCCCTAGGCAGTAGTGG
AGTAGATCAAAGATGACAGATTTTACCTCCCTGAGGTTACAGTGGAGTACATTGAAGCCAGTAAT
TC
Found at i:15773739 original size:3 final size:3
Alignment explanation
Indices: 15773731--15773787 Score: 105
Period size: 3 Copynumber: 19.0 Consensus size: 3
15773721 TGCTATGATT
*
15773731 TTA TTA TTA TTA TTA CTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
15773779 TTA TTA TTA
1 TTA TTA TTA
15773788 CTATACATAT
Statistics
Matches: 52, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
3 52 1.00
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.65
Consensus pattern (3 bp):
TTA
Found at i:15776298 original size:18 final size:18
Alignment explanation
Indices: 15776275--15776315 Score: 55
Period size: 18 Copynumber: 2.3 Consensus size: 18
15776265 TAATTGATAT
* *
15776275 GGAGGATATATTAGAGGA
1 GGAGGATACATGAGAGGA
*
15776293 GGAGGATACATGAGAGGT
1 GGAGGATACATGAGAGGA
15776311 GGAGG
1 GGAGG
15776316 TGGTGATACA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.34, C:0.02, G:0.46, T:0.17
Consensus pattern (18 bp):
GGAGGATACATGAGAGGA
Found at i:15777026 original size:14 final size:14
Alignment explanation
Indices: 15776988--15777030 Score: 54
Period size: 13 Copynumber: 3.1 Consensus size: 14
15776978 CAAAATGTAC
15776988 AATATAATTAAA-T
1 AATATAATTAAATT
15777001 AATATAAATTAAATT
1 AATAT-AATTAAATT
*
15777016 AA-ATAATTTAATT
1 AATATAATTAAATT
15777029 AA
1 AA
15777031 CTGTTTACCC
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
13 15 0.56
14 9 0.33
15 3 0.11
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (14 bp):
AATATAATTAAATT
Found at i:15780368 original size:46 final size:46
Alignment explanation
Indices: 15780302--15781220 Score: 1815
Period size: 46 Copynumber: 20.0 Consensus size: 46
15780292 NNNNNNNNNN
15780302 TTTAGCTACA-TTATCTGATCAAGTGACAAAGTGATAAGTGGTAGC
1 TTTAGCTACACTTATCTGATCAAGTGACAAAGTGATAAGTGGTAGC
15780347 TTTAGCTACACTTATCTGATCAAGTGACAAAGTGATAAGTGGTAGGC
1 TTTAGCTACACTTATCTGATCAAGTGACAAAGTGATAAGTGGTA-GC
15780394 -TTAGCTACACTTATCTGATCAAGTGACAAAGTGATAAGTGGTAGC
1 TTTAGCTACACTTATCTGATCAAGTGACAAAGTGATAAGTGGTAGC
15780439 TTTAGCTACACTTATCTGATCAAGTGACAAAGTGATAAGTGGTAGC
1 TTTAGCTACACTTATCTGATCAAGTGACAAAGTGATAAGTGGTAGC
15780485 TTTAGCTACACTTATCTGATCAAGTGACAAAGTGATAAGTGGTAGC
1 TTTAGCTACACTTATCTGATCAAGTGACAAAGTGATAAGTGGTAGC
15780531 TTTAGCTACACTTATCTGATCAAGTGACAAAGTGATAAGTGGTAGC
1 TTTAGCTACACTTATCTGATCAAGTGACAAAGTGATAAGTGGTAGC
15780577 TTTAGCTACACTTATCTGATCAAGTGACAAAGTGATAAGTGGTAGC
1 TTTAGCTACACTTATCTGATCAAGTGACAAAGTGATAAGTGGTAGC
15780623 TTTAGCTACACTTATCTGATCAAGTGACAAAGTGATAAGTGGTAGC
1 TTTAGCTACACTTATCTGATCAAGTGACAAAGTGATAAGTGGTAGC
15780669 TTTAGCTACACTTATCTGATCAAGTGACAAAGTGATAAGTGGTAGC
1 TTTAGCTACACTTATCTGATCAAGTGACAAAGTGATAAGTGGTAGC
15780715 TTTAGCTACACTTATCTGATCAAGTGACAAAGTGATAAGTGGTAGC
1 TTTAGCTACACTTATCTGATCAAGTGACAAAGTGATAAGTGGTAGC
15780761 TTTAGCTACACTTATCTGATCAAGTGACAAAGTGATAAGTGGTAGC
1 TTTAGCTACACTTATCTGATCAAGTGACAAAGTGATAAGTGGTAGC
15780807 TTTAGCTACACTTATCTGATCAAGTGACAAAGTGATAAGTGGTAGC
1 TTTAGCTACACTTATCTGATCAAGTGACAAAGTGATAAGTGGTAGC
15780853 TTTAGCTACACTTATCTGATCAAGTGACAAAGTGATAAGTGGTAGC
1 TTTAGCTACACTTATCTGATCAAGTGACAAAGTGATAAGTGGTAGC
15780899 TTTAGCTACACTTATCTGATCAAGTGACAAAGTGATAAGTGGTAGC
1 TTTAGCTACACTTATCTGATCAAGTGACAAAGTGATAAGTGGTAGC
15780945 TTTAGCTACACTTATCTGATCAAGTGACAAAGTGATAAGTGGTAGC
1 TTTAGCTACACTTATCTGATCAAGTGACAAAGTGATAAGTGGTAGC
15780991 TTTAGCTACACTTATCTGATCAAGTGACAAAGTGATAAGTGGTAGC
1 TTTAGCTACACTTATCTGATCAAGTGACAAAGTGATAAGTGGTAGC
15781037 TTTAGCTACACTTATCTGATCAAGTGACAAAGTGATAAGTGGTAGC
1 TTTAGCTACACTTATCTGATCAAGTGACAAAGTGATAAGTGGTAGC
15781083 TTTAGCTACACTTATCTGATCAAGTGACAAAGTGATAAGTGGTAGC
1 TTTAGCTACACTTATCTGATCAAGTGACAAAGTGATAAGTGGTAGC
15781129 TTTAGCTACACTTATCTGATCAAGTGACAAAGTGATAAGTGGTAGC
1 TTTAGCTACACTTATCTGATCAAGTGACAAAGTGATAAGTGGTAGC
15781175 TTTAGCTACACTTATCTGATCAAGTGACAAAGTGATAAGTGGTAGC
1 TTTAGCTACACTTATCTGATCAAGTGACAAAGTGATAAGTGGTAGC
15781221 NNNNNNNNNN
Statistics
Matches: 871, Mismatches: 0, Indels: 5
0.99 0.00 0.01
Matches are distributed among these distances:
45 12 0.01
46 857 0.98
47 2 0.00
ACGTcount: A:0.33, C:0.15, G:0.22, T:0.30
Consensus pattern (46 bp):
TTTAGCTACACTTATCTGATCAAGTGACAAAGTGATAAGTGGTAGC
Found at i:15782606 original size:17 final size:18
Alignment explanation
Indices: 15782564--15782604 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
15782554 TAAAAATTAT
*
15782564 ATAAAAGGATATAGATAA
1 ATAAAATGATATAGATAA
15782582 ATAAAATGATATA-ATAAA
1 ATAAAATGATATAGAT-AA
15782600 ATAAA
1 ATAAA
15782605 TGTATTTAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 2 0.10
18 19 0.90
ACGTcount: A:0.66, C:0.00, G:0.10, T:0.24
Consensus pattern (18 bp):
ATAAAATGATATAGATAA
Found at i:15785243 original size:23 final size:23
Alignment explanation
Indices: 15785217--15785260 Score: 54
Period size: 23 Copynumber: 1.9 Consensus size: 23
15785207 GTTTAGTACC
15785217 TTAAAAAATAATGAAAT-TATAAA
1 TTAAAAAATAAT-AAATATATAAA
* *
15785240 TTAATACATAATAAATATATA
1 TTAAAAAATAATAAATATATA
15785261 TTTTGGTCTA
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
22 4 0.22
23 14 0.78
ACGTcount: A:0.61, C:0.02, G:0.02, T:0.34
Consensus pattern (23 bp):
TTAAAAAATAATAAATATATAAA
Found at i:15787900 original size:5 final size:5
Alignment explanation
Indices: 15787892--15787917 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
15787882 TTTCATTCGA
15787892 TTTTC TTTTC TTTTC TTTTC TTTTC T
1 TTTTC TTTTC TTTTC TTTTC TTTTC T
15787918 GCCGATTTGC
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:0.19, G:0.00, T:0.81
Consensus pattern (5 bp):
TTTTC
Found at i:15792019 original size:44 final size:44
Alignment explanation
Indices: 15791961--15792051 Score: 146
Period size: 44 Copynumber: 2.1 Consensus size: 44
15791951 ATTTTTGTAT
* *
15791961 AAAAGCGCCACTAAAGAATATGTTCTTTAGCGGCATTTGTAAAA
1 AAAAACGCCACTAAAGAACATGTTCTTTAGCGGCATTTGTAAAA
* *
15792005 AAAAACGCCGCTAAATAACATGTTCTTTAGCGGCATTTGTAAAA
1 AAAAACGCCACTAAAGAACATGTTCTTTAGCGGCATTTGTAAAA
15792049 AAA
1 AAA
15792052 CGCCGTTCCT
Statistics
Matches: 43, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
44 43 1.00
ACGTcount: A:0.41, C:0.16, G:0.16, T:0.26
Consensus pattern (44 bp):
AAAAACGCCACTAAAGAACATGTTCTTTAGCGGCATTTGTAAAA
Found at i:15792119 original size:43 final size:44
Alignment explanation
Indices: 15792057--15792143 Score: 158
Period size: 43 Copynumber: 2.0 Consensus size: 44
15792047 AAAAACGCCG
15792057 TTCCTTAAGCGCCGCTAAAGAACATGTTCTTTAGCGGCGTTTTT
1 TTCCTTAAGCGCCGCTAAAGAACATGTTCTTTAGCGGCGTTTTT
*
15792101 TTCC-TAAGCGTCGCTAAAGAACATGTTCTTTAGCGGCGTTTTT
1 TTCCTTAAGCGCCGCTAAAGAACATGTTCTTTAGCGGCGTTTTT
15792144 GTTTTGTAAA
Statistics
Matches: 42, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
43 38 0.90
44 4 0.10
ACGTcount: A:0.21, C:0.22, G:0.21, T:0.37
Consensus pattern (44 bp):
TTCCTTAAGCGCCGCTAAAGAACATGTTCTTTAGCGGCGTTTTT
Found at i:15792277 original size:20 final size:21
Alignment explanation
Indices: 15792235--15792277 Score: 52
Period size: 20 Copynumber: 2.1 Consensus size: 21
15792225 TTAGTGGCGT
**
15792235 TAAAAAGCGCCACTAAAGGCC
1 TAAAAAGCGCCACTAAAAACC
*
15792256 TAAAAA-CGCCGCTAAAAACC
1 TAAAAAGCGCCACTAAAAACC
15792276 TA
1 TA
15792278 TTTTGGTGTA
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
20 13 0.68
21 6 0.32
ACGTcount: A:0.47, C:0.28, G:0.14, T:0.12
Consensus pattern (21 bp):
TAAAAAGCGCCACTAAAAACC
Found at i:15797199 original size:29 final size:29
Alignment explanation
Indices: 15797157--15797216 Score: 93
Period size: 29 Copynumber: 2.1 Consensus size: 29
15797147 TTATAAACAC
*
15797157 TATCACATGGCATGACTAACATACCCACA
1 TATCACATGGCATGAATAACATACCCACA
* *
15797186 TATCACATGGCATGAATAGCATATCCACA
1 TATCACATGGCATGAATAACATACCCACA
15797215 TA
1 TA
15797217 CGTACTTTCA
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.38, C:0.27, G:0.12, T:0.23
Consensus pattern (29 bp):
TATCACATGGCATGAATAACATACCCACA
Found at i:15798390 original size:14 final size:14
Alignment explanation
Indices: 15798366--15798404 Score: 51
Period size: 14 Copynumber: 2.8 Consensus size: 14
15798356 AAAGGTATTT
*
15798366 AAAACTGATTTTCA
1 AAAATTGATTTTCA
* *
15798380 AATATTGATTTTTA
1 AAAATTGATTTTCA
15798394 AAAATTGATTT
1 AAAATTGATTT
15798405 AATTTCCTAA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.41, C:0.05, G:0.08, T:0.46
Consensus pattern (14 bp):
AAAATTGATTTTCA
Found at i:15802560 original size:39 final size:39
Alignment explanation
Indices: 15802506--15802622 Score: 130
Period size: 39 Copynumber: 3.0 Consensus size: 39
15802496 TAATTTAGTT
*
15802506 TGAGTCTTTAATTATGTCATAATTTGAACATCATTAATA
1 TGAGTTTTTAATTATGTCATAATTTGAACATCATTAATA
* *
15802545 TGAGTTTTTAATTATGTCATAATCT-AAGCAACATTAATA
1 TGAGTTTTTAATTATGTCATAATTTGAA-CATCATTAATA
* * * * *
15802584 AG-GGTTTTAATTATGTCATAGTTTAGGACATCTTTAATA
1 TGAGTTTTTAATTATGTCATAATTT-GAACATCATTAATA
15802623 CATATTTTAA
Statistics
Matches: 65, Mismatches: 10, Indels: 6
0.80 0.12 0.07
Matches are distributed among these distances:
38 21 0.32
39 43 0.66
40 1 0.02
ACGTcount: A:0.35, C:0.09, G:0.13, T:0.43
Consensus pattern (39 bp):
TGAGTTTTTAATTATGTCATAATTTGAACATCATTAATA
Found at i:15809500 original size:82 final size:82
Alignment explanation
Indices: 15809363--15809526 Score: 265
Period size: 82 Copynumber: 2.0 Consensus size: 82
15809353 TTTGCCTTAG
* ** *
15809363 AGGTATCACAATAAGTCAAACAGAATACAAGTTGCTACATTTCTAGGTAGTTGTTTCGCAACATG
1 AGGTATCACAATAAGTCAAACAGAATACAAATCACTACATTTCAAGGTAGTTGTTTCGCAACATG
15809428 GAATAGTTGTATCGGAA
66 GAATAGTTGTATCGGAA
* *
15809445 AGGTATCATAATAAGTCAAACAGAATACAAATCACTACATTTCAAGGTAGTTGTTTTGCAACATG
1 AGGTATCACAATAAGTCAAACAGAATACAAATCACTACATTTCAAGGTAGTTGTTTCGCAACATG
*
15809510 GAATAGTTGTATTGGAA
66 GAATAGTTGTATCGGAA
15809527 CAATTATCCC
Statistics
Matches: 75, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
82 75 1.00
ACGTcount: A:0.37, C:0.13, G:0.20, T:0.30
Consensus pattern (82 bp):
AGGTATCACAATAAGTCAAACAGAATACAAATCACTACATTTCAAGGTAGTTGTTTCGCAACATG
GAATAGTTGTATCGGAA
Found at i:15811016 original size:40 final size:41
Alignment explanation
Indices: 15810928--15811026 Score: 148
Period size: 40 Copynumber: 2.4 Consensus size: 41
15810918 AGAGCATAAT
* *
15810928 CAGGGGCACGTAAGTGCATTCAGGGAATATCGAAGTACAAA
1 CAGGGGCACGTATGTGCATTCAGGGAATACCGAAGTACAAA
*
15810969 CTA-GGGCACGTATGTGCATTCAGGG-GTACCGAAGTACAAA
1 C-AGGGGCACGTATGTGCATTCAGGGAATACCGAAGTACAAA
15811009 CAGGGGCACGTATGTGCA
1 CAGGGGCACGTATGTGCA
15811027 ATCATCAATA
Statistics
Matches: 53, Mismatches: 3, Indels: 5
0.87 0.05 0.08
Matches are distributed among these distances:
39 1 0.02
40 29 0.55
41 22 0.42
42 1 0.02
ACGTcount: A:0.31, C:0.19, G:0.31, T:0.18
Consensus pattern (41 bp):
CAGGGGCACGTATGTGCATTCAGGGAATACCGAAGTACAAA
Found at i:15824000 original size:30 final size:30
Alignment explanation
Indices: 15823966--15824056 Score: 121
Period size: 30 Copynumber: 3.0 Consensus size: 30
15823956 AGGTGATTAA
* *
15823966 GTTGCTCACACAAGCTAACATTATATTAGG
1 GTTGCTCACACAAGCTAACATTATATCAAG
15823996 GTTGCTCACACAAGCTAACATTATATCAAG
1 GTTGCTCACACAAGCTAACATTATATCAAG
* *
15824026 GATGCTCACACAAGTTGAA-ATTTATATCAAG
1 GTTGCTCACACAAGCT-AACA-TTATATCAAG
15824057 TTCCTCGTCC
Statistics
Matches: 55, Mismatches: 4, Indels: 3
0.89 0.06 0.05
Matches are distributed among these distances:
30 43 0.78
31 12 0.22
ACGTcount: A:0.36, C:0.20, G:0.15, T:0.29
Consensus pattern (30 bp):
GTTGCTCACACAAGCTAACATTATATCAAG
Found at i:15839108 original size:2 final size:2
Alignment explanation
Indices: 15839101--15839131 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
15839091 GATGATTTAG
15839101 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
15839132 GTGGTAAGTC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:15839348 original size:272 final size:275
Alignment explanation
Indices: 15838858--15839381 Score: 822
Period size: 272 Copynumber: 1.9 Consensus size: 275
15838848 TTTATGATAA
*
15838858 TGGTAAGTCCTTTGAGAAGGGGTTATTATGATATGTTTAGATATGTGAAAAGTAATAATAATATG
1 TGGTAAGTCCTTTGAGAAGGGGTGATTATGATATGTTTAGATATGTGAAAAGTAATAATAATATG
** * *
15838923 GTGTGTTTAAAGAATTAAATGGTTTATGAGTATTTTTTGAGTATTCGAGGTTGATCCATTTTGTT
66 GTGACTTTAAAGAATTAAATGGTTTATGAGTATTTTTCGAGTACTCGAGGTTGATCCATTTTGTT
* * * * *
15838988 CAATGGGTAAATAGAGCTTAAAAGGGTATGTGATTACATAAAATGAACTATGATTTTTGAGTAAT
131 CAACGGGCAAATAAAGCTTAAAAGGGTATGTGACTACATAAAATAAACTATGATTTTTGAGTAAT
**
15839053 TTTATGAATAATGATGAAATGTGTAATTGAAAGGAAAAGATGATTTAGTATATATATATATATAT
196 GATATGAATAATGATGAAATGTGTAATTGAAAGGAAAAGATGATTTAGTATATATATATATATAT
15839118 ATATATATATATATG
261 ATATATATATATATG
*
15839133 TGGTAAGTCCTTTGAGAAGGGGTGATTATGATATGTTTAGATATGTG-AAA-T-A-AATAATGTG
1 TGGTAAGTCCTTTGAGAAGGGGTGATTATGATATGTTTAGATATGTGAAAAGTAATAATAATATG
* *
15839194 GTGACTTTAAAGAATTAAATGGTTTATGAGTATTTTTCGAGTACTCGAGGTTGTTCCATTTTTTT
66 GTGACTTTAAAGAATTAAATGGTTTATGAGTATTTTTCGAGTACTCGAGGTTGATCCATTTTGTT
* * * *
15839259 CAACGGGCAAATAAAGCTTTAAAAGGTTGTTTGACTACATGAAATAAACTATGATTTTTGAGTAA
131 CAACGGGCAAATAAAGC-TTAAAAGGGTATGTGACTACATAAAATAAACTATGATTTTTGAGTAA
* *
15839324 TGATATGAATTATGATGAAATGTGTAATTGAAAGGAAAAGATGGTTTAGTATATATAT
195 TGATATGAATAATGATGAAATGTGTAATTGAAAGGAAAAGATGATTTAGTATATATAT
15839382 GTTTGTGATG
Statistics
Matches: 227, Mismatches: 21, Indels: 5
0.90 0.08 0.02
Matches are distributed among these distances:
271 81 0.36
272 96 0.42
273 1 0.00
274 3 0.01
275 46 0.20
ACGTcount: A:0.36, C:0.05, G:0.21, T:0.38
Consensus pattern (275 bp):
TGGTAAGTCCTTTGAGAAGGGGTGATTATGATATGTTTAGATATGTGAAAAGTAATAATAATATG
GTGACTTTAAAGAATTAAATGGTTTATGAGTATTTTTCGAGTACTCGAGGTTGATCCATTTTGTT
CAACGGGCAAATAAAGCTTAAAAGGGTATGTGACTACATAAAATAAACTATGATTTTTGAGTAAT
GATATGAATAATGATGAAATGTGTAATTGAAAGGAAAAGATGATTTAGTATATATATATATATAT
ATATATATATATATG
Found at i:15841832 original size:12 final size:11
Alignment explanation
Indices: 15841815--15841841 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
15841805 ACCATTTCTA
15841815 TTTTTTTTTTG
1 TTTTTTTTTTG
15841826 TTTTTTTTTTG
1 TTTTTTTTTTG
15841837 TTTTT
1 TTTTT
15841842 GGTTATATAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.00, C:0.00, G:0.07, T:0.93
Consensus pattern (11 bp):
TTTTTTTTTTG
Found at i:15858104 original size:22 final size:20
Alignment explanation
Indices: 15858076--15858120 Score: 72
Period size: 22 Copynumber: 2.1 Consensus size: 20
15858066 GAATTTTAAT
15858076 AAAAAATTATTAAAAATCATAA
1 AAAAAATTA-TAAAAAT-ATAA
15858098 AAAAAATTATAAAAATATAA
1 AAAAAATTATAAAAATATAA
15858118 AAA
1 AAA
15858121 TATAGAAAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
20 7 0.30
21 7 0.30
22 9 0.39
ACGTcount: A:0.73, C:0.02, G:0.00, T:0.24
Consensus pattern (20 bp):
AAAAAATTATAAAAATATAA
Found at i:15858136 original size:30 final size:31
Alignment explanation
Indices: 15858077--15858138 Score: 85
Period size: 29 Copynumber: 2.0 Consensus size: 31
15858067 AATTTTAATA
15858077 AAAAATTATTAAAAATCATAAAAAAAATTAT
1 AAAAATTATTAAAAATCATAAAAAAAATTAT
15858108 AAAAA-TA-TAAAAAT-ATAGAAAAACAATTAT
1 AAAAATTATTAAAAATCATA-AAAAA-AATTAT
15858138 A
1 A
15858139 CAATTTTATA
Statistics
Matches: 29, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
28 3 0.10
29 12 0.41
30 9 0.31
31 5 0.17
ACGTcount: A:0.69, C:0.03, G:0.02, T:0.26
Consensus pattern (31 bp):
AAAAATTATTAAAAATCATAAAAAAAATTAT
Found at i:15858164 original size:21 final size:21
Alignment explanation
Indices: 15858148--15858211 Score: 55
Period size: 21 Copynumber: 3.1 Consensus size: 21
15858138 ACAATTTTAT
15858148 AAAGTTGT-AAGAAAATTATAA
1 AAAG-TGTAAAGAAAATTATAA
*
15858169 AAAGTGTAAAG-AAA-TACAA
1 AAAGTGTAAAGAAAATTATAA
**
15858188 AATTTGT-AAGAAAAATTATAA
1 AAAGTGTAAAG-AAAATTATAA
15858209 AAA
1 AAA
15858212 TTATCGTATC
Statistics
Matches: 34, Mismatches: 5, Indels: 8
0.72 0.11 0.17
Matches are distributed among these distances:
18 3 0.09
19 9 0.26
20 9 0.26
21 13 0.38
ACGTcount: A:0.61, C:0.02, G:0.12, T:0.25
Consensus pattern (21 bp):
AAAGTGTAAAGAAAATTATAA
Found at i:15858476 original size:20 final size:21
Alignment explanation
Indices: 15858453--15858502 Score: 59
Period size: 20 Copynumber: 2.5 Consensus size: 21
15858443 TTTTTACTAT
*
15858453 TTTTTATAAAAAAATT-CTAA
1 TTTTTATAAAAAAATTAATAA
* *
15858473 TTTTTA-ATAAAATTTAATAA
1 TTTTTATAAAAAAATTAATAA
15858493 TTTTTATAAA
1 TTTTTATAAA
15858503 TTTTATAAAT
Statistics
Matches: 24, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
19 7 0.29
20 15 0.62
21 2 0.08
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (21 bp):
TTTTTATAAAAAAATTAATAA
Found at i:15858507 original size:19 final size:18
Alignment explanation
Indices: 15858470--15858518 Score: 62
Period size: 19 Copynumber: 2.6 Consensus size: 18
15858460 AAAAAAATTC
15858470 TAATTTTTAATAAAATTTAA
1 TAATTTTT-ATAAAATTT-A
*
15858490 TAATTTTTATAAATTTTA
1 TAATTTTTATAAAATTTA
15858508 TAAATTTTTAT
1 T-AATTTTTAT
15858519 TTTTTATATT
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
18 2 0.07
19 17 0.63
20 8 0.30
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (18 bp):
TAATTTTTATAAAATTTA
Found at i:15858518 original size:10 final size:10
Alignment explanation
Indices: 15858471--15858518 Score: 55
Period size: 9 Copynumber: 4.9 Consensus size: 10
15858461 AAAAAATTCT
15858471 AATTTTTAATA
1 AATTTTT-ATA
* *
15858482 AAATTTAAT-
1 AATTTTTATA
15858491 AATTTTTATA
1 AATTTTTATA
15858501 AA-TTTTATA
1 AATTTTTATA
15858510 AATTTTTAT
1 AATTTTTAT
15858519 TTTTTATATT
Statistics
Matches: 31, Mismatches: 4, Indels: 5
0.77 0.10 0.12
Matches are distributed among these distances:
9 16 0.52
10 10 0.32
11 5 0.16
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (10 bp):
AATTTTTATA
Found at i:15867573 original size:42 final size:42
Alignment explanation
Indices: 15867503--15867614 Score: 131
Period size: 42 Copynumber: 2.6 Consensus size: 42
15867493 AGGATTTTTT
*
15867503 ATATATGTTATCGTGTAAGACCACGTCTGGGAC-GTTGACATCG
1 ATATGTGTTA-CGTGTAAGACCACGTCTGGGACAG-TGACATCG
*
15867546 ACT-TGTGTTACGTGTAAGACC-CTGTCTGGGACAGTGGCATCG
1 A-TATGTGTTACGTGTAAGACCAC-GTCTGGGACAGTGACATCG
*
15867588 ATATGTGATTACATGTAAGACCACGTC
1 ATATGTG-TTACGTGTAAGACCACGTC
15867615 AAGGACGTAG
Statistics
Matches: 60, Mismatches: 3, Indels: 12
0.80 0.04 0.16
Matches are distributed among these distances:
41 2 0.03
42 32 0.53
43 24 0.40
44 2 0.03
ACGTcount: A:0.25, C:0.20, G:0.26, T:0.29
Consensus pattern (42 bp):
ATATGTGTTACGTGTAAGACCACGTCTGGGACAGTGACATCG
Found at i:15867628 original size:43 final size:41
Alignment explanation
Indices: 15867516--15867628 Score: 122
Period size: 42 Copynumber: 2.7 Consensus size: 41
15867506 TATGTTATCG
* *
15867516 TGTAAGACCACGTCTGGGACGTTGACATCGACTTGTGTTACG
1 TGTAAGACCACGTCTGGGACG-TGGCATCGACTTGTGTTACA
15867558 TGTAAGACC-CTGTCTGGGACAGTGGCATCGA-TATGTGATTACA
1 TGTAAGACCAC-GTCTGGGAC-GTGGCATCGACT-TGTG-TTACA
**
15867601 TGTAAGACCACGTCAAGGACGTAGGCAT
1 TGTAAGACCACGTCTGGGACGT-GGCAT
15867629 TGTACGAGCT
Statistics
Matches: 61, Mismatches: 4, Indels: 11
0.80 0.05 0.14
Matches are distributed among these distances:
41 2 0.03
42 32 0.52
43 26 0.43
44 1 0.02
ACGTcount: A:0.26, C:0.20, G:0.28, T:0.26
Consensus pattern (41 bp):
TGTAAGACCACGTCTGGGACGTGGCATCGACTTGTGTTACA
Found at i:15875639 original size:21 final size:21
Alignment explanation
Indices: 15875614--15875656 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 21
15875604 TTTAAGAAAT
15875614 TTTTTATTA-AATTATATATTA
1 TTTTTA-TAGAATTATATATTA
*
15875635 TTTTTATAGTATTATATATTA
1 TTTTTATAGAATTATATATTA
15875656 T
1 T
15875657 GATTTTTTAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
20 2 0.10
21 18 0.90
ACGTcount: A:0.35, C:0.00, G:0.02, T:0.63
Consensus pattern (21 bp):
TTTTTATAGAATTATATATTA
Found at i:15875813 original size:16 final size:16
Alignment explanation
Indices: 15875792--15875847 Score: 85
Period size: 16 Copynumber: 3.5 Consensus size: 16
15875782 TTGAATTACT
*
15875792 ATTACAGTTCTATTCC
1 ATTACAGCTCTATTCC
**
15875808 ATTACAGCTCTATTTA
1 ATTACAGCTCTATTCC
15875824 ATTACAGCTCTATTCC
1 ATTACAGCTCTATTCC
15875840 ATTACAGC
1 ATTACAGC
15875848 GAACCAAACG
Statistics
Matches: 35, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
16 35 1.00
ACGTcount: A:0.29, C:0.25, G:0.07, T:0.39
Consensus pattern (16 bp):
ATTACAGCTCTATTCC
Found at i:15877360 original size:27 final size:27
Alignment explanation
Indices: 15877330--15877382 Score: 106
Period size: 27 Copynumber: 2.0 Consensus size: 27
15877320 CATTGGTTAC
15877330 TTAGTCAATTCATATACATTTAACATT
1 TTAGTCAATTCATATACATTTAACATT
15877357 TTAGTCAATTCATATACATTTAACAT
1 TTAGTCAATTCATATACATTTAACAT
15877383 CCATCGTACA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.38, C:0.15, G:0.04, T:0.43
Consensus pattern (27 bp):
TTAGTCAATTCATATACATTTAACATT
Found at i:15901604 original size:13 final size:12
Alignment explanation
Indices: 15901577--15901629 Score: 61
Period size: 12 Copynumber: 4.3 Consensus size: 12
15901567 TGCTTATATT
15901577 AAGAAAAAAAGA
1 AAGAAAAAAAGA
*
15901589 AAGAAAAATAATA
1 AAGAAAAA-AAGA
15901602 AAGAAAAAAAGA
1 AAGAAAAAAAGA
** *
15901614 AACCAAAAAATA
1 AAGAAAAAAAGA
15901626 AAGA
1 AAGA
15901630 GAAAGCAAGA
Statistics
Matches: 33, Mismatches: 7, Indels: 2
0.79 0.17 0.05
Matches are distributed among these distances:
12 22 0.67
13 11 0.33
ACGTcount: A:0.79, C:0.04, G:0.11, T:0.06
Consensus pattern (12 bp):
AAGAAAAAAAGA
Found at i:15901625 original size:24 final size:25
Alignment explanation
Indices: 15901577--15901629 Score: 81
Period size: 25 Copynumber: 2.2 Consensus size: 25
15901567 TGCTTATATT
*
15901577 AAGAAAAAAAGAAAGAAAAATAATA
1 AAGAAAAAAAGAAACAAAAATAATA
*
15901602 AAGAAAAAAAGAAACCAAAA-AATA
1 AAGAAAAAAAGAAACAAAAATAATA
15901626 AAGA
1 AAGA
15901630 GAAAGCAAGA
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
24 8 0.31
25 18 0.69
ACGTcount: A:0.79, C:0.04, G:0.11, T:0.06
Consensus pattern (25 bp):
AAGAAAAAAAGAAACAAAAATAATA
Found at i:15902036 original size:13 final size:13
Alignment explanation
Indices: 15902018--15902042 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
15902008 TAATTTATAT
15902018 GTGTGAAAATTTC
1 GTGTGAAAATTTC
15902031 GTGTGAAAATTT
1 GTGTGAAAATTT
15902043 TATCGTTTGT
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:15903196 original size:44 final size:42
Alignment explanation
Indices: 15903133--15903241 Score: 137
Period size: 44 Copynumber: 2.5 Consensus size: 42
15903123 AATGTGATAT
* * *
15903133 CGTGTAAGACCACGTCTGGGACGTTGGCATCGGTTTAAGATTTA
1 CGTGTAAGACCATGTCTGGGACATTGGCAT-GGTATAAGA-TTA
* * *
15903177 CGTGTAAGACCATGTCTGGGACATTGGCGTTGTATATGATTA
1 CGTGTAAGACCATGTCTGGGACATTGGCATGGTATAAGATTA
*
15903219 CGTGTAAGACCCTGTCTGGGACA
1 CGTGTAAGACCATGTCTGGGACA
15903242 CTGTCTGGGA
Statistics
Matches: 58, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
42 25 0.43
43 6 0.10
44 27 0.47
ACGTcount: A:0.23, C:0.18, G:0.29, T:0.29
Consensus pattern (42 bp):
CGTGTAAGACCATGTCTGGGACATTGGCATGGTATAAGATTA
Found at i:15904962 original size:42 final size:42
Alignment explanation
Indices: 15904889--15905440 Score: 736
Period size: 42 Copynumber: 13.3 Consensus size: 42
15904879 AAGGAAAACA
* * *
15904889 TTCACTGCATTTAGAGGCCTAGGTGTGGAGGTCTATTTACTT
1 TTCATTGCATTTAGAGGCCCAGGTGTGGAGGTCCATTTACTT
* * * *
15904931 TTCATTGCATTTAGAGGCCCAAGCGTAGAGGTCCATTTAATT
1 TTCATTGCATTTAGAGGCCCAGGTGTGGAGGTCCATTTACTT
* * *
15904973 TTTATTGCATTTA-AAG---AGGTGTGGAGGTCCAATTACTT
1 TTCATTGCATTTAGAGGCCCAGGTGTGGAGGTCCATTTACTT
*
15905011 TT-ATTGCATTTAGAGGCCTAGGTGTGGAGGTCCATTTACTT
1 TTCATTGCATTTAGAGGCCCAGGTGTGGAGGTCCATTTACTT
* *
15905052 TTTATTGCATTTAGAGGCCCAGGTGTGGAGTTCCATTTACTT
1 TTCATTGCATTTAGAGGCCCAGGTGTGGAGGTCCATTTACTT
*
15905094 TTCATTGCATTTAGAGGCCCAGGTGTGGATGTCCATTTACTT
1 TTCATTGCATTTAGAGGCCCAGGTGTGGAGGTCCATTTACTT
* * * *
15905136 TTTATTGCATTTAGAGGCTCAGGTGTGGAGTTCCATTCACTT
1 TTCATTGCATTTAGAGGCCCAGGTGTGGAGGTCCATTTACTT
*
15905178 TTCATTGCATTTAGAGGCCCAGGTGTGGAGGTTCATTTACTT
1 TTCATTGCATTTAGAGGCCCAGGTGTGGAGGTCCATTTACTT
* * * ** *
15905220 TTTATTGTATTTAAAAACCCAGGTGTGGAGGTCCATTTGCTT
1 TTCATTGCATTTAGAGGCCCAGGTGTGGAGGTCCATTTACTT
* * *
15905262 TTCATTACATTTAGAGGCCTAGGTGTGGAGGTCCATTCACTT
1 TTCATTGCATTTAGAGGCCCAGGTGTGGAGGTCCATTTACTT
* *
15905304 TTCATTGCATTTAGAGACCCAGGTGTGGAGGTCCATTGACTT
1 TTCATTGCATTTAGAGGCCCAGGTGTGGAGGTCCATTTACTT
* * *
15905346 TTCATTGCATTTAGAGGCCCAAGTGTGGAGGTTCGTTTACTT
1 TTCATTGCATTTAGAGGCCCAGGTGTGGAGGTCCATTTACTT
* * * *
15905388 TTCATTGTATTTAAAGTCTCAGGTGTGGAGGTCCATTTACTT
1 TTCATTGCATTTAGAGGCCCAGGTGTGGAGGTCCATTTACTT
15905430 TTCATTGCATT
1 TTCATTGCATT
15905441 GTATATGAAG
Statistics
Matches: 441, Mismatches: 64, Indels: 10
0.86 0.12 0.02
Matches are distributed among these distances:
37 10 0.02
38 21 0.05
41 25 0.06
42 385 0.87
ACGTcount: A:0.21, C:0.16, G:0.24, T:0.39
Consensus pattern (42 bp):
TTCATTGCATTTAGAGGCCCAGGTGTGGAGGTCCATTTACTT
Found at i:15916544 original size:51 final size:50
Alignment explanation
Indices: 15916448--15916542 Score: 129
Period size: 51 Copynumber: 1.9 Consensus size: 50
15916438 TTTTTAAGAA
** *
15916448 GTGTTGGCACAATGATAGTTGACACCCCTTTTATCTAATTAAAAAATTTGG
1 GTGTTGGCACAACAATAGTTGACACCCCTTTTA-CAAATTAAAAAATTTGG
* *
15916499 GTGTTGGCACACCAATAGTTGGCACCCCTTTTA-AAATTAAAAAA
1 GTGTTGGCACAACAATAGTTGACACCCCTTTTACAAATTAAAAAA
15916543 AAAATTGGAG
Statistics
Matches: 39, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
49 10 0.26
51 29 0.74
ACGTcount: A:0.34, C:0.18, G:0.17, T:0.32
Consensus pattern (50 bp):
GTGTTGGCACAACAATAGTTGACACCCCTTTTACAAATTAAAAAATTTGG
Found at i:15920460 original size:29 final size:29
Alignment explanation
Indices: 15920399--15920467 Score: 86
Period size: 29 Copynumber: 2.3 Consensus size: 29
15920389 TTACTATTTC
* *
15920399 TATATTTATACATGCATTTTTTATATAGTA
1 TATATATATACAT-CATTTTTTATATAATA
*
15920429 TATTTATATACAT-ATTTCTTTATATAATA
1 TATATATATACATCATTT-TTTATATAATA
15920458 TATATATATA
1 TATATATATA
15920468 TAACTTTTAT
Statistics
Matches: 34, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
28 4 0.12
29 19 0.56
30 11 0.32
ACGTcount: A:0.38, C:0.06, G:0.03, T:0.54
Consensus pattern (29 bp):
TATATATATACATCATTTTTTATATAATA
Found at i:15921712 original size:34 final size:33
Alignment explanation
Indices: 15921673--15921752 Score: 101
Period size: 32 Copynumber: 2.4 Consensus size: 33
15921663 AATCAATATT
15921673 TTTTAAAATATTGATTCA-AAAATTTGTAGTCATC
1 TTTTAAAATATT--TTCACAAAATTTGTAGTCATC
*
15921707 TTTTAAAATATTTTTACAAAATTTGTAGTCAT-
1 TTTTAAAATATTTTCACAAAATTTGTAGTCATC
**
15921739 TTGAAAAATATTTT
1 TTTTAAAATATTTT
15921753 TTTTTTAACT
Statistics
Matches: 42, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
32 15 0.36
33 15 0.36
34 12 0.29
ACGTcount: A:0.39, C:0.06, G:0.07, T:0.47
Consensus pattern (33 bp):
TTTTAAAATATTTTCACAAAATTTGTAGTCATC
Found at i:15921733 original size:33 final size:32
Alignment explanation
Indices: 15921672--15921753 Score: 103
Period size: 33 Copynumber: 2.5 Consensus size: 32
15921662 CAATCAATAT
*
15921672 TTTTTAAAATATTGATTCAAAAATTTGTAGTCA
1 TTTTTAAAATATT-TTTCAAAAATTTGTAGTCA
15921705 TCTTTTAAAATATTTTT-ACAAAATTTGTAGTCA
1 T-TTTTAAAATATTTTTCA-AAAATTTGTAGTCA
**
15921738 TTTGAAAAATATTTTT
1 TTTTTAAAATATTTTT
15921754 TTTTTAACTT
Statistics
Matches: 44, Mismatches: 3, Indels: 5
0.85 0.06 0.10
Matches are distributed among these distances:
32 14 0.32
33 18 0.41
34 12 0.27
ACGTcount: A:0.38, C:0.06, G:0.07, T:0.49
Consensus pattern (32 bp):
TTTTTAAAATATTTTTCAAAAATTTGTAGTCA
Found at i:15925830 original size:18 final size:18
Alignment explanation
Indices: 15925763--15925836 Score: 66
Period size: 18 Copynumber: 4.3 Consensus size: 18
15925753 TTTAATTTTA
*
15925763 AAATATGGTTGTATAATT
1 AAATATGGTTGTAAAATT
*
15925781 AATTATGGTTGTAAAA-T
1 AAATATGGTTGTAAAATT
**
15925798 ATTTAAT--TT-TAAAATT
1 AAAT-ATGGTTGTAAAATT
*
15925814 AAATATTGTTGTAAAATT
1 AAATATGGTTGTAAAATT
15925832 AAATA
1 AAATA
15925837 AATTAAAGGG
Statistics
Matches: 46, Mismatches: 5, Indels: 10
0.75 0.08 0.16
Matches are distributed among these distances:
15 7 0.15
16 5 0.11
17 6 0.13
18 28 0.61
ACGTcount: A:0.45, C:0.00, G:0.11, T:0.45
Consensus pattern (18 bp):
AAATATGGTTGTAAAATT
Found at i:15927455 original size:56 final size:59
Alignment explanation
Indices: 15927370--15927524 Score: 219
Period size: 56 Copynumber: 2.7 Consensus size: 59
15927360 CCCTAAATTA
* * *
15927370 AAATGAAATTAATTTT-AAAATTCAAAATTAATTAAAGAAATAAATTAATTACA-ATTT
1 AAATAAAATTAATTTTAAAAAATCAAAATTAATTAAAGAAACAAATTAATTACAGATTT
* * *
15927427 AAA-AATATT-ATTTTAAAAAATCAAAATTAATTAAAGAAACAAGTTAATTACAGTTTT
1 AAATAAAATTAATTTTAAAAAATCAAAATTAATTAAAGAAACAAATTAATTACAGATTT
*
15927484 AAATAAAATTAATTTTAAAAAATCAAAATTAATTATAGAAA
1 AAATAAAATTAATTTTAAAAAATCAAAATTAATTAAAGAAA
15927525 ATGGGATGAC
Statistics
Matches: 86, Mismatches: 8, Indels: 6
0.86 0.08 0.06
Matches are distributed among these distances:
55 5 0.06
56 38 0.44
57 9 0.10
58 5 0.06
59 29 0.34
ACGTcount: A:0.57, C:0.04, G:0.04, T:0.35
Consensus pattern (59 bp):
AAATAAAATTAATTTTAAAAAATCAAAATTAATTAAAGAAACAAATTAATTACAGATTT
Found at i:15927525 original size:20 final size:19
Alignment explanation
Indices: 15927484--15927526 Score: 59
Period size: 20 Copynumber: 2.2 Consensus size: 19
15927474 TTACAGTTTT
*
15927484 AAATAAAATTAATTTTAAA
1 AAATAAAATTAATTATAAA
*
15927503 AAATCAAAATTAATTATAGA
1 AAAT-AAAATTAATTATAAA
15927523 AAAT
1 AAAT
15927527 GGGATGACAG
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 4 0.19
20 17 0.81
ACGTcount: A:0.63, C:0.02, G:0.02, T:0.33
Consensus pattern (19 bp):
AAATAAAATTAATTATAAA
Found at i:15929113 original size:18 final size:19
Alignment explanation
Indices: 15929081--15929119 Score: 55
Period size: 19 Copynumber: 2.1 Consensus size: 19
15929071 GAAATAAATT
15929081 AATTACATTTT-AAAATAA
1 AATTACATTTTAAAAATAA
15929099 AATTA-ATTTTAAAAAATAA
1 AATTACATTTT-AAAAATAA
15929118 AA
1 AA
15929120 ATTTAAAAAC
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
17 5 0.26
18 5 0.26
19 9 0.47
ACGTcount: A:0.62, C:0.03, G:0.00, T:0.36
Consensus pattern (19 bp):
AATTACATTTTAAAAATAA
Found at i:15929142 original size:21 final size:21
Alignment explanation
Indices: 15929118--15929158 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
15929108 TAAAAAATAA
*
15929118 AAATTTAAAAACCAATAAATT
1 AAATTTAAAAACCAAGAAATT
*
15929139 AAATTTAAAAATCAAGAAAT
1 AAATTTAAAAACCAAGAAAT
15929159 AAGTTAATTA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.63, C:0.07, G:0.02, T:0.27
Consensus pattern (21 bp):
AAATTTAAAAACCAAGAAATT
Found at i:15930999 original size:14 final size:14
Alignment explanation
Indices: 15930980--15931008 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
15930970 TTTCAGTAAG
15930980 ATTAAGCATGATAT
1 ATTAAGCATGATAT
15930994 ATTAAGCATGATAT
1 ATTAAGCATGATAT
15931008 A
1 A
15931009 ATCCAATCAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.45, C:0.07, G:0.14, T:0.34
Consensus pattern (14 bp):
ATTAAGCATGATAT
Found at i:15931335 original size:35 final size:35
Alignment explanation
Indices: 15931284--15931386 Score: 154
Period size: 35 Copynumber: 2.9 Consensus size: 35
15931274 ATATCAAATT
* *
15931284 CTCACAAGAGCTAGTCCAACTGTAACACGCCAATG
1 CTCATAAGAGCTAGTCCAACTGAAACACGCCAATG
*
15931319 CTCATAAGAGCTAGTCCAACCGAAACACGCCAATG
1 CTCATAAGAGCTAGTCCAACTGAAACACGCCAATG
*
15931354 CGT-ATAAGAGCTAGTCCAACTGAAACACACCAA
1 C-TCATAAGAGCTAGTCCAACTGAAACACGCCAA
15931387 ACAGAGAGTA
Statistics
Matches: 62, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
35 61 0.98
36 1 0.02
ACGTcount: A:0.38, C:0.30, G:0.17, T:0.16
Consensus pattern (35 bp):
CTCATAAGAGCTAGTCCAACTGAAACACGCCAATG
Found at i:15932978 original size:16 final size:15
Alignment explanation
Indices: 15932957--15932986 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
15932947 AAAATGTAAG
15932957 TTAATATAACATGTTA
1 TTAATATAA-ATGTTA
15932973 TTAATATAAATGTT
1 TTAATATAAATGTT
15932987 TTTTTTCAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.43, C:0.03, G:0.07, T:0.47
Consensus pattern (15 bp):
TTAATATAAATGTTA
Found at i:15938926 original size:51 final size:50
Alignment explanation
Indices: 15938689--15939026 Score: 334
Period size: 51 Copynumber: 6.8 Consensus size: 50
15938679 CTTTTATCAT
* *
15938689 TCGATACACGTAGTAGCCTTCACATAGTACTACACACGTGATCAAGTTTTA
1 TCGATTCACGTAGTAGCCTTCACATAGTACTACACACGTGACCAAG-TTTA
* * *
15938740 T-GGTTCACGTAATAGCCTTCACATAGTACTACACACGTGATCAAGTTT-
1 TCGATTCACGTAGTAGCCTTCACATAGTACTACACACGTGACCAAGTTTA
* *
15938788 TACGATTCACGTAGTAGCCTTCACATAGTACTACACACGTGACCAAAGCTTN
1 T-CGATTCACGTAGTAGCCTTCACATAGTACTACACACGTGACC-AAGTTTA
*** * * *
15938840 NNNA-T----T-GTAGCCTTCACTTAGTACTACACATGTGACCATCGTTTA
1 TCGATTCACGTAGTAGCCTTCACATAGTACTACACACGTGACCA-AGTTTA
* * *
15938885 TCGATTCACGTAGTAGCCTTCACACAGTACTACACACGTGACCAAAGCTTC
1 TCGATTCACGTAGTAGCCTTCACATAGTACTACACACGTGACC-AAGTTTA
* * * * * * *
15938936 TCGGTACACATTGTAGCCTTCACTTAGTAGTACACATGTGACCATCA-TTTA
1 TCGATTCACGTAGTAGCCTTCACATAGTACTACACACGTGACCA--AGTTTA
*
15938987 TCGATTCACGTAGTAGCCTTCACACAGTACTACACACGTG
1 TCGATTCACGTAGTAGCCTTCACATAGTACTACACACGTG
15939027 TTCATCGATA
Statistics
Matches: 231, Mismatches: 42, Indels: 28
0.77 0.14 0.09
Matches are distributed among these distances:
44 1 0.00
45 33 0.14
46 2 0.01
48 1 0.00
49 3 0.01
50 82 0.35
51 107 0.46
52 2 0.01
ACGTcount: A:0.29, C:0.26, G:0.16, T:0.29
Consensus pattern (50 bp):
TCGATTCACGTAGTAGCCTTCACATAGTACTACACACGTGACCAAGTTTA
Found at i:15938994 original size:102 final size:100
Alignment explanation
Indices: 15938689--15939026 Score: 409
Period size: 102 Copynumber: 3.4 Consensus size: 100
15938679 CTTTTATCAT
* * * * * * **
15938689 TCGATACACGTAGTAGCCTTCACATAGTACTACACACGTGATC-AAGTTTTATGGTTCACGTAAT
1 TCGATTCACGTAGTAGCCTTCACACAGTACTACACACGTGACCAAAG--TTCTGGTACACATTGT
* * * ***
15938753 AGCCTTCACATAGTACTACACACGTGATCAAGTTTTA
64 AGCCTTCACTTAGTACTACACATGTGACCATCATTTA
* ****
15938790 -CGATTCACGTAGTAGCCTTCACATAGTACTACACACGTGACCAAAG--CT--TNNNNATTGTAG
1 TCGATTCACGTAGTAGCCTTCACACAGTACTACACACGTGACCAAAGTTCTGGTACACATTGTAG
*
15938850 CCTTCACTTAGTACTACACATGTGACCATCGTTTA
66 CCTTCACTTAGTACTACACATGTGACCATCATTTA
15938885 TCGATTCACGTAGTAGCCTTCACACAGTACTACACACGTGACCAAAGCTTCTCGGTACACATTGT
1 TCGATTCACGTAGTAGCCTTCACACAGTACTACACACGTGACCAAAG-TTCT-GGTACACATTGT
*
15938950 AGCCTTCACTTAGTAGTACACATGTGACCATCATTTA
64 AGCCTTCACTTAGTACTACACATGTGACCATCATTTA
15938987 TCGATTCACGTAGTAGCCTTCACACAGTACTACACACGTG
1 TCGATTCACGTAGTAGCCTTCACACAGTACTACACACGTG
15939027 TTCATCGATA
Statistics
Matches: 206, Mismatches: 23, Indels: 15
0.84 0.09 0.06
Matches are distributed among these distances:
95 34 0.17
96 45 0.22
97 1 0.00
99 2 0.01
100 40 0.19
101 3 0.01
102 81 0.39
ACGTcount: A:0.29, C:0.26, G:0.16, T:0.29
Consensus pattern (100 bp):
TCGATTCACGTAGTAGCCTTCACACAGTACTACACACGTGACCAAAGTTCTGGTACACATTGTAG
CCTTCACTTAGTACTACACATGTGACCATCATTTA
Found at i:15948898 original size:21 final size:21
Alignment explanation
Indices: 15948874--15948914 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
15948864 AGCGTACATG
*
15948874 GGCATGCCAAGTAGTCACACA
1 GGCATGCCAAGTAGCCACACA
**
15948895 GGCATGTGAAGTAGCCACAC
1 GGCATGCCAAGTAGCCACAC
15948915 GGCCATGTCT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.32, C:0.27, G:0.27, T:0.15
Consensus pattern (21 bp):
GGCATGCCAAGTAGCCACACA
Found at i:15948921 original size:21 final size:21
Alignment explanation
Indices: 15948882--15948922 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
15948872 TGGGCATGCC
*
15948882 AAGTAGTCACACAGGCATGTG
1 AAGTAGCCACACAGGCATGTG
15948903 AAGTAGCCACAC-GGCCATGT
1 AAGTAGCCACACAGG-CATGT
15948923 CTTCAGCCAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 2 0.11
21 16 0.89
ACGTcount: A:0.32, C:0.24, G:0.27, T:0.17
Consensus pattern (21 bp):
AAGTAGCCACACAGGCATGTG
Found at i:15956853 original size:20 final size:20
Alignment explanation
Indices: 15956828--15956881 Score: 90
Period size: 20 Copynumber: 2.7 Consensus size: 20
15956818 TGAGCCCTTC
*
15956828 CATTTACTTACTTTCCATTG
1 CATTTACTTACTTTCCATTA
*
15956848 CATTTACTTACTTTTCATTA
1 CATTTACTTACTTTCCATTA
15956868 CATTTACTTACTTT
1 CATTTACTTACTTT
15956882 AGCTTAAATA
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 32 1.00
ACGTcount: A:0.22, C:0.22, G:0.02, T:0.54
Consensus pattern (20 bp):
CATTTACTTACTTTCCATTA
Found at i:15957803 original size:45 final size:46
Alignment explanation
Indices: 15957739--15957854 Score: 171
Period size: 46 Copynumber: 2.5 Consensus size: 46
15957729 GTGTTTCATG
* *
15957739 GTGTCTTTCAACCATGGTCTTATTTATTCT-CATCTTGATGCCATA
1 GTGTCTTTCAACCATGGTCTTATTCATTCTCCATCGTGATGCCATA
* * * *
15957784 GTGTCTTTCAATCATGGTCTTATTCATTTTCCGTCGTGTTGCCATA
1 GTGTCTTTCAACCATGGTCTTATTCATTCTCCATCGTGATGCCATA
15957830 GTGTCTTTCAACCATGGTCTTATTC
1 GTGTCTTTCAACCATGGTCTTATTC
15957855 GTTTGATTCA
Statistics
Matches: 63, Mismatches: 7, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
45 27 0.43
46 36 0.57
ACGTcount: A:0.17, C:0.22, G:0.16, T:0.45
Consensus pattern (46 bp):
GTGTCTTTCAACCATGGTCTTATTCATTCTCCATCGTGATGCCATA
Found at i:15957839 original size:46 final size:45
Alignment explanation
Indices: 15957739--15957941 Score: 169
Period size: 45 Copynumber: 4.5 Consensus size: 45
15957729 GTGTTTCATG
* *
15957739 GTGTCTTTCAACCATGGTCTTATTTATTCTCATCTTGATGCCATA
1 GTGTCTTTCAACCATGGTCTTATTCATTCTCATCGTGATGCCATA
* * * *
15957784 GTGTCTTTCAATCATGGTCTTATTCATTTTCCGTCGTGTTGCCATA
1 GTGTCTTTCAACCATGGTCTTATTCATTCT-CATCGTGATGCCATA
* * *
15957830 GTGTCTTTCAACCATGGTCTTATTCGTT-TGATTCATGATGCCATA
1 GTGTCTTTCAACCATGGTCTTATTCATTCTCA-TCGTGATGCCATA
** * * * * **
15957875 ACGTATTTCAGCTATGGTCTTACTCGA-T-AGAGTCGTGATGCCATA
1 GTGTCTTTCAACCATGGTCTTATTC-ATTCTCA-TCGTGATGCCATA
* **
15957920 ATGTCTTTCAGTCATGGTCTTA
1 GTGTCTTTCAACCATGGTCTTA
15957942 CTTGATAGAA
Statistics
Matches: 129, Mismatches: 26, Indels: 6
0.80 0.16 0.04
Matches are distributed among these distances:
45 91 0.71
46 38 0.29
ACGTcount: A:0.20, C:0.21, G:0.18, T:0.42
Consensus pattern (45 bp):
GTGTCTTTCAACCATGGTCTTATTCATTCTCATCGTGATGCCATA
Found at i:15957892 original size:45 final size:45
Alignment explanation
Indices: 15957823--15957990 Score: 194
Period size: 45 Copynumber: 3.7 Consensus size: 45
15957813 TCCGTCGTGT
** ** * * * *
15957823 TGCCATAGTGTCTTTCAACCATGGTCTTATTCGTTTGATTCATGA
1 TGCCATAACGTCTTTCAGTCATGGTCTTACTCGATAGAATCATGA
* * *
15957868 TGCCATAACGTATTTCAG-CTATGGTCTTACTCGATAGAGTCGTGA
1 TGCCATAACGTCTTTCAGTC-ATGGTCTTACTCGATAGAATCATGA
* *
15957913 TGCCATAATGTCTTTCAGTCATGGTCTTACTTGATAGAATCATGA
1 TGCCATAACGTCTTTCAGTCATGGTCTTACTCGATAGAATCATGA
*
15957958 TGCCATAACGTCTTTCAGTCATGTTCTTACTCG
1 TGCCATAACGTCTTTCAGTCATGGTCTTACTCG
15957991 TTTCTAGTAT
Statistics
Matches: 104, Mismatches: 17, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
44 1 0.01
45 102 0.98
46 1 0.01
ACGTcount: A:0.23, C:0.21, G:0.18, T:0.38
Consensus pattern (45 bp):
TGCCATAACGTCTTTCAGTCATGGTCTTACTCGATAGAATCATGA
Found at i:15957894 original size:91 final size:89
Alignment explanation
Indices: 15957739--15958032 Score: 251
Period size: 90 Copynumber: 3.3 Consensus size: 89
15957729 GTGTTTCATG
* * * **
15957739 GTGTCTTTCAACCATGGTCTTATTTATTCTCATCTTGATGCCATAGTGTCTTTCA-ATCATGGTC
1 GTGTCTTTCAACCATGGTCTTA-TTGTT-TGATCATGATGCCATAACGTCTTTCAGATCATGGTC
* * * *
15957803 TTATTC-ATTTTCCGTCGTGTTGCCATA
64 TTACTCGA--TACAGTCGTGATGCCATA
* *
15957830 GTGTCTTTCAACCATGGTCTTATTCGTTTGATTCATGATGCCATAACGTATTTCAGCT-ATGGTC
1 GTGTCTTTCAACCATGGTCTTATT-GTTTGA-TCATGATGCCATAACGTCTTTCAGATCATGGTC
*
15957894 TTACTCGATAGAGTCGTGATGCCATA
64 TTACTCGATACAGTCGTGATGCCATA
* ** * * *
15957920 ATGTCTTTCAGTCATGGTCTTACTTGATAGAATCATGATGCCATAACGTCTTTCAG-TCATGTTC
1 GTGTCTTTCAACCATGGTCTTA-TTGTTTG-ATCATGATGCCATAACGTCTTTCAGATCATGGTC
* * *
15957984 TTACTCGTTTCTAGT-AT-AGTGCCA-A
64 TTACTCGATAC-AGTCGTGA-TGCCATA
*
15958009 GTGTCTTTCAACTATGGTCTTATT
1 GTGTCTTTCAACCATGGTCTTATT
15958033 TATTCTTCGG
Statistics
Matches: 167, Mismatches: 27, Indels: 21
0.78 0.13 0.10
Matches are distributed among these distances:
88 2 0.01
89 21 0.13
90 82 0.49
91 60 0.36
92 2 0.01
ACGTcount: A:0.21, C:0.20, G:0.17, T:0.41
Consensus pattern (89 bp):
GTGTCTTTCAACCATGGTCTTATTGTTTGATCATGATGCCATAACGTCTTTCAGATCATGGTCTT
ACTCGATACAGTCGTGATGCCATA
Found at i:15962568 original size:11 final size:11
Alignment explanation
Indices: 15962552--15962613 Score: 54
Period size: 11 Copynumber: 5.6 Consensus size: 11
15962542 AAACTACTTT
15962552 TATTTTGCTAC
1 TATTTTGCTAC
* *
15962563 TATTTTTCCAC
1 TATTTTGCTAC
15962574 TATTTTGCTA-
1 TATTTTGCTAC
** *
15962584 TCATTTCACTAT
1 T-ATTTTGCTAC
*
15962596 TATATTGCTAC
1 TATTTTGCTAC
15962607 TATTTTG
1 TATTTTG
15962614 TTATTGTTTG
Statistics
Matches: 38, Mismatches: 11, Indels: 4
0.72 0.21 0.08
Matches are distributed among these distances:
10 1 0.03
11 36 0.95
12 1 0.03
ACGTcount: A:0.21, C:0.18, G:0.06, T:0.55
Consensus pattern (11 bp):
TATTTTGCTAC
Found at i:15962611 original size:22 final size:22
Alignment explanation
Indices: 15962551--15962611 Score: 61
Period size: 22 Copynumber: 2.8 Consensus size: 22
15962541 AAAACTACTT
**
15962551 TTATTTTGCTACTATTTTTCCA
1 TTATTTTGCTACTATTTCACCA
* *
15962573 CTATTTTGCTA-TCATTTCACTA
1 TTATTTTGCTACT-ATTTCACCA
*
15962595 TTATATTGCTACTATTT
1 TTATTTTGCTACTATTT
15962612 TGTTATTGTT
Statistics
Matches: 31, Mismatches: 6, Indels: 4
0.76 0.15 0.10
Matches are distributed among these distances:
21 1 0.03
22 29 0.94
23 1 0.03
ACGTcount: A:0.21, C:0.18, G:0.05, T:0.56
Consensus pattern (22 bp):
TTATTTTGCTACTATTTCACCA
Found at i:15965277 original size:56 final size:55
Alignment explanation
Indices: 15965192--15965299 Score: 171
Period size: 56 Copynumber: 1.9 Consensus size: 55
15965182 TTATAGATTG
* *
15965192 CAAATTAATTATTCATGAGCACTATTCAAATTAAAAGCGATAATTTATCATCTTA
1 CAAATTAATTATCCATAAGCACTATTCAAATTAAAAGCGATAATTTATCATCTTA
* *
15965247 CAAATTTAATTATCCATAAGCACTATTCAAATTAAAAGTGATGATTTATCATC
1 CAAA-TTAATTATCCATAAGCACTATTCAAATTAAAAGCGATAATTTATCATC
15965300 CAATGGATAC
Statistics
Matches: 48, Mismatches: 4, Indels: 1
0.91 0.08 0.02
Matches are distributed among these distances:
55 4 0.08
56 44 0.92
ACGTcount: A:0.42, C:0.15, G:0.07, T:0.36
Consensus pattern (55 bp):
CAAATTAATTATCCATAAGCACTATTCAAATTAAAAGCGATAATTTATCATCTTA
Found at i:15971878 original size:17 final size:18
Alignment explanation
Indices: 15971851--15971898 Score: 61
Period size: 14 Copynumber: 2.9 Consensus size: 18
15971841 TCTAAATTAA
15971851 TAATTTCATTCAATTTAT
1 TAATTTCATTCAATTTAT
15971869 TAATTT-ATTC-A-TT-T
1 TAATTTCATTCAATTTAT
15971883 T-ATTTCATTCAATTTA
1 TAATTTCATTCAATTTA
15971899 GTCTTTTTTA
Statistics
Matches: 26, Mismatches: 0, Indels: 9
0.74 0.00 0.26
Matches are distributed among these distances:
13 4 0.15
14 6 0.23
15 3 0.12
16 3 0.12
17 4 0.15
18 6 0.23
ACGTcount: A:0.31, C:0.10, G:0.00, T:0.58
Consensus pattern (18 bp):
TAATTTCATTCAATTTAT
Found at i:15974059 original size:56 final size:55
Alignment explanation
Indices: 15973990--15974094 Score: 156
Period size: 56 Copynumber: 1.9 Consensus size: 55
15973980 TTATAGATTG
* *
15973990 CAAATTAATTATTCATGAGAACTATTTAAATTAAAAGTAATGATTTATCATCTTA
1 CAAATTAATTATTCATAAGAACTATTCAAATTAAAAGTAATGATTTATCATCTTA
* * *
15974045 CAAATTTAGTTATTCATAAGCACTATTCAAATTAAAAGTGATGATTTATC
1 CAAA-TTAATTATTCATAAGAACTATTCAAATTAAAAGTAATGATTTATC
15974095 TTCCAATGGA
Statistics
Matches: 44, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
55 4 0.09
56 40 0.91
ACGTcount: A:0.42, C:0.10, G:0.09, T:0.39
Consensus pattern (55 bp):
CAAATTAATTATTCATAAGAACTATTCAAATTAAAAGTAATGATTTATCATCTTA
Found at i:15979824 original size:19 final size:18
Alignment explanation
Indices: 15979775--15979824 Score: 55
Period size: 20 Copynumber: 2.6 Consensus size: 18
15979765 ATAAATTATA
*
15979775 AAAATTAAAAAAGTTTTT
1 AAAATTAAAAAACTTTTT
*
15979793 ATAAATTTGAAAAACTTATTT
1 A-AAA-TTAAAAAACTT-TTT
15979814 AAAATTAAAAA
1 AAAATTAAAAA
15979825 TGTATTAGAA
Statistics
Matches: 26, Mismatches: 3, Indels: 5
0.76 0.09 0.15
Matches are distributed among these distances:
18 1 0.04
19 9 0.35
20 12 0.46
21 4 0.15
ACGTcount: A:0.58, C:0.02, G:0.04, T:0.36
Consensus pattern (18 bp):
AAAATTAAAAAACTTTTT
Found at i:15979855 original size:19 final size:18
Alignment explanation
Indices: 15979841--15979889 Score: 57
Period size: 18 Copynumber: 2.8 Consensus size: 18
15979831 AGAATTCTTA
15979841 AAAAATAATAAAATTTGT
1 AAAAATAATAAAATTTGT
* *
15979859 AAAAATGATAAAATAT-T
1 AAAAATAATAAAATTTGT
*
15979876 -AAAATATTAAAATT
1 AAAAATAATAAAATT
15979890 AATATAAACT
Statistics
Matches: 26, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
16 11 0.42
17 1 0.04
18 14 0.54
ACGTcount: A:0.63, C:0.00, G:0.04, T:0.33
Consensus pattern (18 bp):
AAAAATAATAAAATTTGT
Found at i:15979917 original size:10 final size:9
Alignment explanation
Indices: 15979715--15979917 Score: 51
Period size: 9 Copynumber: 21.4 Consensus size: 9
15979705 AGGGAGAGTT
15979715 AAAATTATA
1 AAAATTATA
15979724 AAAATATATA
1 AAAAT-TATA
*
15979734 TAAATAGTATAA
1 -AAA-ATTAT-A
*
15979746 AAAATATTTA
1 AAAAT-TATA
* *
15979756 AAAAATCTA
1 AAAATTATA
15979765 ATAAATTATA
1 A-AAATTATA
15979775 AAAATTA-A
1 AAAATTATA
*
15979783 AAAAGTTTTTA
1 AAAA--TTATA
*
15979794 TAAATT-TGA
1 AAAATTAT-A
*
15979803 AAAACTTATTT
1 AAAA-TTA-TA
15979814 AAAA-T-TA
1 AAAATTATA
*
15979821 AAAATGTATT
1 AAAAT-TATA
* *
15979831 AGAATTCTTAA
1 AAAATT-AT-A
*
15979842 AAAATAATA
1 AAAATTATA
* *
15979851 AAATTTGTA
1 AAAATTATA
*
15979860 AAAATGAT-
1 AAAATTATA
*
15979868 AAAA-TATT
1 AAAATTATA
*
15979876 AAAA-TATT
1 AAAATTATA
15979884 AAAATTAATA
1 AAAATT-ATA
*
15979894 TAAACTTATA
1 -AAAATTATA
15979904 AAAATTAGTA
1 AAAATTA-TA
15979914 AAAA
1 AAAA
15979918 CTTGAACTGG
Statistics
Matches: 142, Mismatches: 29, Indels: 45
0.66 0.13 0.21
Matches are distributed among these distances:
7 7 0.05
8 22 0.15
9 43 0.30
10 39 0.27
11 28 0.20
12 3 0.02
ACGTcount: A:0.60, C:0.02, G:0.04, T:0.34
Consensus pattern (9 bp):
AAAATTATA
Found at i:15980381 original size:38 final size:38
Alignment explanation
Indices: 15980339--15980413 Score: 89
Period size: 38 Copynumber: 2.0 Consensus size: 38
15980329 TATGAATTTT
*
15980339 TTTTTATAATTTTATAAGTTTATA-ATAATTTTAATATA
1 TTTTTATAATTTTAT-AGTTTATATAGAATTTTAATATA
* * * *
15980377 TTTTTTTATTTTTATGGTTTTTATAGAATTTTAATAT
1 TTTTTATAATTTTATAGTTTATATAGAATTTTAATAT
15980414 GTCGTTATAA
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
37 6 0.19
38 25 0.81
ACGTcount: A:0.32, C:0.00, G:0.05, T:0.63
Consensus pattern (38 bp):
TTTTTATAATTTTATAGTTTATATAGAATTTTAATATA
Found at i:15980442 original size:21 final size:20
Alignment explanation
Indices: 15980395--15980442 Score: 51
Period size: 21 Copynumber: 2.3 Consensus size: 20
15980385 TTTTTATGGT
* *
15980395 TTTTATAGAATTTTAATATG
1 TTTTATAAAATTTAAATATG
*
15980415 TCGTTATAAAATGTTAAATATG
1 T-TTTATAAAAT-TTAAATATG
15980437 TTTTAT
1 TTTTAT
15980443 TTCATTTTTT
Statistics
Matches: 22, Mismatches: 4, Indels: 3
0.76 0.14 0.10
Matches are distributed among these distances:
20 1 0.05
21 12 0.55
22 9 0.41
ACGTcount: A:0.35, C:0.02, G:0.10, T:0.52
Consensus pattern (20 bp):
TTTTATAAAATTTAAATATG
Done.