Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr09 85040211
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: 85040211
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 160 characters in sequence are not A, C, G, or T
File 248 of 292
Found at i:72200914 original size:29 final size:30
Alignment explanation
Indices: 72200839--72200938 Score: 114
Period size: 30 Copynumber: 3.4 Consensus size: 30
72200829 ATTTAGGGTT
* *
72200839 AAATGCAATTTAAGGAAAGTTT-AGGGTCT
1 AAATGAAATTTAAGGAAAGTTTAAGGGTCA
* *
72200868 AAGTGAAATTTAAAGAAAGTTTAAGGGTCA
1 AAATGAAATTTAAGGAAAGTTTAAGGGTCA
* *
72200898 AAATGAAATTT-AGGAAAAATTTAGGGGTCA
1 AAATGAAATTTAAGG-AAAGTTTAAGGGTCA
*
72200928 AAATGCAATTT
1 AAATGAAATTT
72200939 TTATTTTTTG
Statistics
Matches: 60, Mismatches: 9, Indels: 3
0.83 0.12 0.04
Matches are distributed among these distances:
29 21 0.35
30 39 0.65
ACGTcount: A:0.44, C:0.05, G:0.22, T:0.29
Consensus pattern (30 bp):
AAATGAAATTTAAGGAAAGTTTAAGGGTCA
Found at i:72200962 original size:24 final size:24
Alignment explanation
Indices: 72200935--72200980 Score: 74
Period size: 24 Copynumber: 1.9 Consensus size: 24
72200925 TCAAAATGCA
*
72200935 ATTTTTATTTTTTGAAATTTTTTT
1 ATTTTTATTTTTTGAAAATTTTTT
*
72200959 ATTTTTATTTTTTTAAAATTTT
1 ATTTTTATTTTTTGAAAATTTT
72200981 GAAAATTAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.24, C:0.00, G:0.02, T:0.74
Consensus pattern (24 bp):
ATTTTTATTTTTTGAAAATTTTTT
Found at i:72201253 original size:78 final size:77
Alignment explanation
Indices: 72201129--72201453 Score: 310
Period size: 78 Copynumber: 4.2 Consensus size: 77
72201119 ATTGAAAAAC
* * * *
72201129 AAAA-AAAAAATTGAAAATAGCTCAGGATGCGACCCGAAGTTCAACTCACCTCTCG-AATTATGA
1 AAAACAAAAAATTGAAAATACCTCAGG-TGTGACCCGAGGCTCAACTCACCTCTCGCAA-TATGA
*
72201192 GTTGA-TCTTTTGA
64 GTTGATTTTTTTGA
* *
72201205 AAAAGCAAAAAATTGAAAATACCTCAGCGTGTGACCTGAGGCTTAACTCACCTCTCGCAATATGA
1 AAAA-CAAAAAATTGAAAATACCTCAG-GTGTGACCCGAGGCTCAACTCACCTCTCGCAATATGA
72201270 GTTGATTTTTTTGA
64 GTTGATTTTTTTGA
* * * * ** **
72201284 AAGAC-AGAAATTGAAAATACCTCA-ATGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGT
1 AAAACAAAAAATTGAAAATACCTCAGGTGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGT
*
72201347 TGACTTTTTTTTAA
66 TGA--TTTTTTTGA
* * *
72201361 AAAAAAAAAGGAATTGAAATTACCTCAGCGTGT--CCCGAGGCTCAACTCACCTCTCGTAATATG
1 AAAACAAAA--AATTGAAAATACCTCAG-GTGTGACCCGAGGCTCAACTCACCTCTCGCAATATG
*
72201424 AATTGA--TTTTTGA
63 AGTTGATTTTTTTGA
*
72201437 AAAAC-ATAAATTGAAAA
1 AAAACAAAAAATTGAAAA
72201454 ACGGAAATCG
Statistics
Matches: 206, Mismatches: 31, Indels: 27
0.78 0.12 0.10
Matches are distributed among these distances:
73 8 0.04
75 38 0.18
76 14 0.07
77 29 0.14
78 56 0.27
79 13 0.06
80 45 0.22
82 3 0.01
ACGTcount: A:0.37, C:0.18, G:0.16, T:0.29
Consensus pattern (77 bp):
AAAACAAAAAATTGAAAATACCTCAGGTGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGT
TGATTTTTTTGA
Found at i:72201339 original size:75 final size:74
Alignment explanation
Indices: 72201169--72201453 Score: 286
Period size: 80 Copynumber: 3.7 Consensus size: 74
72201159 GACCCGAAGT
* *
72201169 TCAACTCACCTCTCG-AATTATGAGTTGATCTTTTGAAAAAGCAAAAAATTGAAAATACCTCAGC
1 TCAACTCACCTCTCGCAA-TATGAGTTGATTTTTTGAAAAA-C-AGAAATTGAAAATACCTCA--
*
72201233 GTGTGACCTGAGGC
61 GTGTGTCCTGAGGC
* * *
72201247 TTAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAGACAGAAATTGAAAATACCTCAATGT
1 TCAACTCACCTCTCGCAATATGAGTTGA-TTTTTTGAAAAACAGAAATTGAAAATACCTCAGTGT
*
72201312 GTCTTGAGGC
65 GTCCTGAGGC
** * * * *
72201322 TCAACTCATTTCTCGCAATATGAGTTGACTTTTTTTTAAAAAAAAAAAGGAATTGAAATTACCTC
1 TCAACTCACCTCTCGCAATATGAGTTGA---TTTTTT---GAAAAACAGAAATTGAAAATACCTC
* *
72201387 AGCGTGTCCCGAGGC
60 AGTGTGTCCTGAGGC
* * *
72201402 TCAACTCACCTCTCGTAATATGAATTGA-TTTTTGAAAAACATAAATTGAAAA
1 TCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAAACAGAAATTGAAAA
72201454 ACGGAAATCG
Statistics
Matches: 172, Mismatches: 28, Indels: 19
0.79 0.13 0.09
Matches are distributed among these distances:
73 14 0.08
75 36 0.21
76 5 0.03
77 25 0.15
78 25 0.15
79 12 0.07
80 55 0.32
ACGTcount: A:0.35, C:0.18, G:0.16, T:0.31
Consensus pattern (74 bp):
TCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAAACAGAAATTGAAAATACCTCAGTGTG
TCCTGAGGC
Found at i:72201718 original size:14 final size:14
Alignment explanation
Indices: 72201696--72201725 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
72201686 TGATTTTTGC
*
72201696 AAAATATAAATTGA
1 AAAACATAAATTGA
72201710 AAAACATAAATTGA
1 AAAACATAAATTGA
72201724 AA
1 AA
72201726 TTACCTCAAC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.67, C:0.03, G:0.07, T:0.23
Consensus pattern (14 bp):
AAAACATAAATTGA
Found at i:72201874 original size:259 final size:252
Alignment explanation
Indices: 72201372--72201853 Score: 668
Period size: 259 Copynumber: 1.9 Consensus size: 252
72201362 AAAAAAAAGG
* * *
72201372 AATTGAAATTACCTCAGCGTGTCCCGAGGCTCAACTCACCTCTCGTAATATGAATTGATTTTTGA
1 AATTAAAAATACCTCAGCGTGTCCCGAGGCTCAACTCACCTCTCATAATATGAATTGATTTTTGA
* * *
72201437 AAAACATAAATTGAAAAACGGAAATCGAAAATACCTCAACGTGTCCTGAGGCTCAATTCACCTCT
66 AAAACATAAATTGAAAAACAGAAATCGAAAATACCTCAACGTGTCCTAAGGCTCAACTCACCTCT
* *
72201502 CGCAATATGAGTTGATTTTTGAAAAATATAGATTGGAAAAAACAGAAATTGAAAATACCTCAGCG
131 CGCAATATAAGTCGATTTTT-----ATAT--ATTGGAAAAAACAGAAATTGAAAATACCTCAGCG
* *
72201567 TGTCCTAAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTAAAAACAGTCATTAAGAATAGA
189 TGCCCCAAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTAAAAACAGTCATTAAGAATAGA
* *
72201631 AATTAAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCATAATATGAATTGATTTTTGC
1 AATTAAAAATACCTCAGCGTGTCCCGAGGCTCAACTCACCTCTCATAATATGAATTGATTTTTGA
* * * *
72201696 AAAATATAAATTGAAAAACATAAATTGAAATTACCTCAACGTGTCCTAAGGCTCAACTCACCTCT
66 AAAACATAAATTGAAAAACAGAAATCGAAAATACCTCAACGTGTCCTAAGGCTCAACTCACCTCT
* * *
72201761 CGCAATATAAGTCGACTTTTT-T-T-TT-G-ACAAACAGTAATTGAAAATACCTCGGCGTGCCCC
131 CGCAATATAAGTCGA-TTTTTATATATTGGAAAAAACAGAAATTGAAAATACCTCAGCGTGCCCC
* *
72201821 GAGGCTCAACTCACTTCTCGCAATATGAGTTGA
195 AAGGCTCAACTCACCTCTCGCAATATGAGTTGA
72201854 ATTTTGAAAA
Statistics
Matches: 201, Mismatches: 21, Indels: 13
0.86 0.09 0.06
Matches are distributed among these distances:
248 60 0.30
249 1 0.00
250 2 0.01
253 1 0.00
254 1 0.00
259 131 0.65
260 5 0.02
ACGTcount: A:0.36, C:0.21, G:0.15, T:0.28
Consensus pattern (252 bp):
AATTAAAAATACCTCAGCGTGTCCCGAGGCTCAACTCACCTCTCATAATATGAATTGATTTTTGA
AAAACATAAATTGAAAAACAGAAATCGAAAATACCTCAACGTGTCCTAAGGCTCAACTCACCTCT
CGCAATATAAGTCGATTTTTATATATTGGAAAAAACAGAAATTGAAAATACCTCAGCGTGCCCCA
AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTAAAAACAGTCATTAAGAATAGA
Found at i:72204958 original size:5 final size:5
Alignment explanation
Indices: 72204948--72204999 Score: 97
Period size: 5 Copynumber: 10.6 Consensus size: 5
72204938 TTTAGTACAT
72204948 TATTA TATTA TATTA TATTA TATTA TATTA TATTA TATTA TATTA TA-TA
1 TATTA TATTA TATTA TATTA TATTA TATTA TATTA TATTA TATTA TATTA
72204997 TAT
1 TAT
72205000 AAACTAAAGA
Statistics
Matches: 46, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
4 4 0.09
5 42 0.91
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (5 bp):
TATTA
Found at i:72206247 original size:15 final size:15
Alignment explanation
Indices: 72206227--72206298 Score: 101
Period size: 15 Copynumber: 4.9 Consensus size: 15
72206217 CGATGAATTT
*
72206227 ATTGAATTTATATTG
1 ATTGAAATTATATTG
*
72206242 ATTGAAATTATTTTG
1 ATTGAAATTATATTG
*
72206257 ATTGAAATTATTTTG
1 ATTGAAATTATATTG
*
72206272 ATTGAATTTATATTG
1 ATTGAAATTATATTG
72206287 ATTG-AATTATAT
1 ATTGAAATTATAT
72206299 AATATATATG
Statistics
Matches: 52, Mismatches: 5, Indels: 1
0.90 0.09 0.02
Matches are distributed among these distances:
14 7 0.13
15 45 0.87
ACGTcount: A:0.35, C:0.00, G:0.12, T:0.53
Consensus pattern (15 bp):
ATTGAAATTATATTG
Found at i:72206700 original size:23 final size:23
Alignment explanation
Indices: 72206670--72206756 Score: 92
Period size: 21 Copynumber: 4.0 Consensus size: 23
72206660 GCTTTATCGA
* *
72206670 TCAGGCACTTTATGTGTCGTATT
1 TCAGGCACCTCATGTGTCGTATT
*
72206693 TCAGGCACCTCGTGTGTCGTA--
1 TCAGGCACCTCATGTGTCGTATT
*
72206714 TCAGGCACCTCGTGTGTCGT-TT
1 TCAGGCACCTCATGTGTCGTATT
* *
72206736 T-AGGCACTTTATGTGTCGTAT
1 TCAGGCACCTCATGTGTCGTAT
72206757 ACTGATCTGG
Statistics
Matches: 55, Mismatches: 6, Indels: 7
0.81 0.09 0.10
Matches are distributed among these distances:
21 35 0.64
22 2 0.04
23 18 0.33
ACGTcount: A:0.15, C:0.22, G:0.25, T:0.38
Consensus pattern (23 bp):
TCAGGCACCTCATGTGTCGTATT
Found at i:72220666 original size:17 final size:17
Alignment explanation
Indices: 72220644--72220704 Score: 60
Period size: 17 Copynumber: 3.8 Consensus size: 17
72220634 ACAATAATAT
72220644 AAAATA-ATGATATGTAC
1 AAAATATAT-ATATGTAC
72220661 AAAATATATATATGTAC
1 AAAATATATATATGTAC
*
72220678 ATAATATAGT-TA--TA-
1 AAAATATA-TATATGTAC
72220692 AAAATATATATAT
1 AAAATATATATAT
72220705 TAAATTCGGA
Statistics
Matches: 38, Mismatches: 2, Indels: 10
0.76 0.04 0.20
Matches are distributed among these distances:
13 1 0.03
14 9 0.24
15 2 0.05
17 23 0.61
18 3 0.08
ACGTcount: A:0.54, C:0.03, G:0.07, T:0.36
Consensus pattern (17 bp):
AAAATATATATATGTAC
Found at i:72221787 original size:30 final size:30
Alignment explanation
Indices: 72221730--72221845 Score: 144
Period size: 30 Copynumber: 3.9 Consensus size: 30
72221720 GTAATTTTTA
* * *
72221730 GAAAATTTA-GGGTTAAAATGCAATTTAAG
1 GAAAGTTTAGGGGTCAAAATGAAATTTAAG
* * *
72221759 GAAAGTTTAGGGGTCTAAGTGAAATTTAAA
1 GAAAGTTTAGGGGTCAAAATGAAATTTAAG
*
72221789 GAAAGTTTAAGGGTCAAAATGAAATTTAAG
1 GAAAGTTTAGGGGTCAAAATGAAATTTAAG
* *
72221819 AAAAGTTTAGGGGTCAAAATGCAATTT
1 GAAAGTTTAGGGGTCAAAATGAAATTT
72221846 TTATTTTTTG
Statistics
Matches: 73, Mismatches: 13, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
29 8 0.11
30 65 0.89
ACGTcount: A:0.43, C:0.04, G:0.23, T:0.29
Consensus pattern (30 bp):
GAAAGTTTAGGGGTCAAAATGAAATTTAAG
Found at i:72221845 original size:60 final size:59
Alignment explanation
Indices: 72221729--72221845 Score: 162
Period size: 60 Copynumber: 2.0 Consensus size: 59
72221719 TGTAATTTTT
* * * * *
72221729 AGAAAATTTAGGGTTAAAATGCAATTTAAGGAAAGTTTAGGGGTCTAAGTGAAATTTAA
1 AGAAAATTTAGGGTCAAAATGAAATTTAAGAAAAGTTTAGGGGTCAAAATGAAATTTAA
* *
72221788 AGAAAGTTTAAGGGTCAAAATGAAATTTAAGAAAAGTTTAGGGGTCAAAATGCAATTT
1 AGAAAATTT-AGGGTCAAAATGAAATTTAAGAAAAGTTTAGGGGTCAAAATGAAATTT
72221846 TTATTTTTTG
Statistics
Matches: 50, Mismatches: 7, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
59 8 0.16
60 42 0.84
ACGTcount: A:0.44, C:0.04, G:0.23, T:0.29
Consensus pattern (59 bp):
AGAAAATTTAGGGTCAAAATGAAATTTAAGAAAAGTTTAGGGGTCAAAATGAAATTTAA
Found at i:72221869 original size:24 final size:24
Alignment explanation
Indices: 72221842--72221887 Score: 74
Period size: 24 Copynumber: 1.9 Consensus size: 24
72221832 TCAAAATGCA
*
72221842 ATTTTTATTTTTTGAAATTTTTTT
1 ATTTTTATTTTTTGAAAATTTTTT
*
72221866 ATTTTTATTTTTTTAAAATTTT
1 ATTTTTATTTTTTGAAAATTTT
72221888 GAAAATTAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.24, C:0.00, G:0.02, T:0.74
Consensus pattern (24 bp):
ATTTTTATTTTTTGAAAATTTTTT
Found at i:72226807 original size:30 final size:30
Alignment explanation
Indices: 72226773--72226832 Score: 111
Period size: 30 Copynumber: 2.0 Consensus size: 30
72226763 CAAATTATGA
*
72226773 TTGTTTATGTTCCTTTTTTTTTTGTGTGTG
1 TTGTTTATGTTCCCTTTTTTTTTGTGTGTG
72226803 TTGTTTATGTTCCCTTTTTTTTTGTGTGTG
1 TTGTTTATGTTCCCTTTTTTTTTGTGTGTG
72226833 ATAAAGCAAT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.03, C:0.08, G:0.20, T:0.68
Consensus pattern (30 bp):
TTGTTTATGTTCCCTTTTTTTTTGTGTGTG
Found at i:72228412 original size:2 final size:2
Alignment explanation
Indices: 72228405--72228440 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
72228395 AAAATGCTCC
72228405 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
72228441 TGATTTGTTT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:72232015 original size:17 final size:17
Alignment explanation
Indices: 72231993--72232031 Score: 55
Period size: 16 Copynumber: 2.4 Consensus size: 17
72231983 TCAGGACACT
72231993 AATTTGAGT-TAATCAAC
1 AATTTG-GTCTAATCAAC
72232010 AATTT-GTCTAATCAAC
1 AATTTGGTCTAATCAAC
72232026 AATTTG
1 AATTTG
72232032 TCAATATTGG
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
15 2 0.10
16 13 0.65
17 5 0.25
ACGTcount: A:0.38, C:0.13, G:0.10, T:0.38
Consensus pattern (17 bp):
AATTTGGTCTAATCAAC
Found at i:72232023 original size:16 final size:16
Alignment explanation
Indices: 72232002--72232033 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
72231992 TAATTTGAGT
72232002 TAATCAACAATTTGTC
1 TAATCAACAATTTGTC
72232018 TAATCAACAATTTGTC
1 TAATCAACAATTTGTC
72232034 AATATTGGTG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.38, C:0.19, G:0.06, T:0.38
Consensus pattern (16 bp):
TAATCAACAATTTGTC
Found at i:72236948 original size:22 final size:23
Alignment explanation
Indices: 72236905--72236948 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 23
72236895 TGAATATCTT
*
72236905 AAAAATGTTTTAATCATTATTTA
1 AAAAATGTTTTAATCATAATTTA
* *
72236928 AAAAAT-TTTTTATTATAATTT
1 AAAAATGTTTTAATCATAATTT
72236949 TTTAAATTGA
Statistics
Matches: 18, Mismatches: 3, Indels: 1
0.82 0.14 0.05
Matches are distributed among these distances:
22 12 0.67
23 6 0.33
ACGTcount: A:0.43, C:0.02, G:0.02, T:0.52
Consensus pattern (23 bp):
AAAAATGTTTTAATCATAATTTA
Found at i:72237619 original size:3 final size:3
Alignment explanation
Indices: 72237613--72237646 Score: 68
Period size: 3 Copynumber: 11.3 Consensus size: 3
72237603 ATAATGTCAT
72237613 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
72237647 ATGACTACTA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:72240539 original size:21 final size:21
Alignment explanation
Indices: 72240510--72240732 Score: 164
Period size: 21 Copynumber: 10.6 Consensus size: 21
72240500 GAAGCTTGTA
*
72240510 AGCTGAACAGAAACTCTTAAG
1 AGCTGAACAGAAACTCATAAG
*
72240531 AGTTGAACA-AAAGCTCATAAG
1 AGCTGAACAGAAA-CTCATAAG
*
72240552 AGCTGAACAAAAACTCATAAG
1 AGCTGAACAGAAACTCATAAG
* *
72240573 AGCTGAA-AAAAAGCTCGTAAG
1 AGCTGAACAGAAA-CTCATAAG
* * *
72240594 AGCTAAACAGAAACTCGTATG
1 AGCTGAACAGAAACTCATAAG
* * *
72240615 AGTTAAACAGAAGCTCATAAG
1 AGCTGAACAGAAACTCATAAG
* * *
72240636 AGCTAAACAGAAACTCTTAAA
1 AGCTGAACAGAAACTCATAAG
* * **
72240657 AGTTGAATAGAAGGTCA-ATAG
1 AGCTGAACAGAAACTCATA-AG
* *
72240678 AGTTGAACGGAAACTCATAAG
1 AGCTGAACAGAAACTCATAAG
* * * **
72240699 AGTTAAATAGAAACTGGTAAG
1 AGCTGAACAGAAACTCATAAG
*
72240720 AGCTAAACAGAAA
1 AGCTGAACAGAAA
72240733 GTAAAACATA
Statistics
Matches: 163, Mismatches: 33, Indels: 12
0.78 0.16 0.06
Matches are distributed among these distances:
20 9 0.06
21 146 0.90
22 8 0.05
ACGTcount: A:0.48, C:0.14, G:0.20, T:0.18
Consensus pattern (21 bp):
AGCTGAACAGAAACTCATAAG
Found at i:72240558 original size:42 final size:42
Alignment explanation
Indices: 72240510--72240702 Score: 208
Period size: 42 Copynumber: 4.6 Consensus size: 42
72240500 GAAGCTTGTA
*
72240510 AGCTGAACAGAAACTCTTAAGAGTTGAACAAAAGCTCATAAG
1 AGCTGAACAGAAACTCATAAGAGTTGAACAAAAGCTCATAAG
* * * *
72240552 AGCTGAACAAAAACTCATAAGAGCTGAAAAAAAGCTCGTAAG
1 AGCTGAACAGAAACTCATAAGAGTTGAACAAAAGCTCATAAG
* * * * *
72240594 AGCTAAACAGAAACTCGTATGAGTTAAACAGAAGCTCATAAG
1 AGCTGAACAGAAACTCATAAGAGTTGAACAAAAGCTCATAAG
* * * * * *
72240636 AGCTAAACAGAAACTCTTAAAAGTTGAATAGAAGGTCA-ATAG
1 AGCTGAACAGAAACTCATAAGAGTTGAACAAAAGCTCATA-AG
* *
72240678 AGTTGAACGGAAACTCATAAGAGTT
1 AGCTGAACAGAAACTCATAAGAGTT
72240703 AAATAGAAAC
Statistics
Matches: 125, Mismatches: 25, Indels: 2
0.82 0.16 0.01
Matches are distributed among these distances:
41 1 0.01
42 124 0.99
ACGTcount: A:0.46, C:0.15, G:0.20, T:0.19
Consensus pattern (42 bp):
AGCTGAACAGAAACTCATAAGAGTTGAACAAAAGCTCATAAG
Found at i:72240650 original size:84 final size:84
Alignment explanation
Indices: 72240510--72240732 Score: 241
Period size: 84 Copynumber: 2.7 Consensus size: 84
72240500 GAAGCTTGTA
* * * * * *
72240510 AGCTGAACAGAAACTCTTAAGAGTTGAACAAAAGCTCATAAGAGCTGAACAAAAACTCATAAGAG
1 AGCTGAACAGAAACTCATAAGAGTTAAACAGAAGCTCATAAGAGCTAAACAGAAACTCATAAAAG
*
72240575 CTGAAAAAAAGCTC-GTAAG
66 CTGAAAAAAAGCTCAAT-AG
* * * *
72240594 AGCTAAACAGAAACTCGTATGAGTTAAACAGAAGCTCATAAGAGCTAAACAGAAACTCTTAAAAG
1 AGCTGAACAGAAACTCATAAGAGTTAAACAGAAGCTCATAAGAGCTAAACAGAAACTCATAAAAG
* * * *
72240659 TTGAATAGAAGGTCAATAG
66 CTGAAAAAAAGCTCAATAG
* * * * **
72240678 AGTTGAACGGAAACTCATAAGAGTTAAATAGAAACTGGTAAGAGCTAAACAGAAA
1 AGCTGAACAGAAACTCATAAGAGTTAAACAGAAGCTCATAAGAGCTAAACAGAAA
72240733 GTAAAACATA
Statistics
Matches: 115, Mismatches: 23, Indels: 2
0.82 0.16 0.01
Matches are distributed among these distances:
84 114 0.99
85 1 0.01
ACGTcount: A:0.48, C:0.14, G:0.20, T:0.18
Consensus pattern (84 bp):
AGCTGAACAGAAACTCATAAGAGTTAAACAGAAGCTCATAAGAGCTAAACAGAAACTCATAAAAG
CTGAAAAAAAGCTCAATAG
Found at i:72240708 original size:42 final size:42
Alignment explanation
Indices: 72240510--72240732 Score: 207
Period size: 42 Copynumber: 5.3 Consensus size: 42
72240500 GAAGCTTGTA
* * * * *
72240510 AGCTGAACAGAAACTCTTAAGAGTTGAACAAAAGCTCATAAG
1 AGCTAAACAGAAACTCATAAGAGTTAAATAGAAGCTCATAAG
* * * * *
72240552 AGCTGAACAAAAACTCATAAGAGCTGAAA-AAAAGCTCGTAAG
1 AGCTAAACAGAAACTCATAAGAG-TTAAATAGAAGCTCATAAG
* * *
72240594 AGCTAAACAGAAACTCGTATGAGTTAAACAGAAGCTCATAAG
1 AGCTAAACAGAAACTCATAAGAGTTAAATAGAAGCTCATAAG
* * * *
72240636 AGCTAAACAGAAACTCTTAAAAGTTGAATAGAAGGTCA-ATAG
1 AGCTAAACAGAAACTCATAAGAGTTAAATAGAAGCTCATA-AG
* * * * **
72240678 AGTTGAACGGAAACTCATAAGAGTTAAATAGAAACTGGTAAG
1 AGCTAAACAGAAACTCATAAGAGTTAAATAGAAGCTCATAAG
72240720 AGCTAAACAGAAA
1 AGCTAAACAGAAA
72240733 GTAAAACATA
Statistics
Matches: 146, Mismatches: 31, Indels: 8
0.79 0.17 0.04
Matches are distributed among these distances:
41 5 0.03
42 137 0.94
43 4 0.03
ACGTcount: A:0.48, C:0.14, G:0.20, T:0.18
Consensus pattern (42 bp):
AGCTAAACAGAAACTCATAAGAGTTAAATAGAAGCTCATAAG
Found at i:72241990 original size:20 final size:21
Alignment explanation
Indices: 72241943--72241990 Score: 57
Period size: 20 Copynumber: 2.4 Consensus size: 21
72241933 GTAATAAAAT
72241943 ATAAA-TAA-ATTTGATTTAA
1 ATAAACTAATATTTGATTTAA
72241962 ATAAACTAATATTT-ATTTAA
1 ATAAACTAATATTTGATTTAA
* *
72241982 TTAATCTAA
1 ATAAACTAA
72241991 AATATCACCA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
19 5 0.20
20 16 0.64
21 4 0.16
ACGTcount: A:0.50, C:0.04, G:0.02, T:0.44
Consensus pattern (21 bp):
ATAAACTAATATTTGATTTAA
Found at i:72243714 original size:3 final size:3
Alignment explanation
Indices: 72243379--72243697 Score: 198
Period size: 3 Copynumber: 104.7 Consensus size: 3
72243369 TGAATTTCTA
* * * *
72243379 TAT TAT TAT TAT TAT TAT TAT TGT TACT TAT TAT TAC TGT TAT GTACA
1 TAT TAT TAT TAT TAT TAT TAT TAT TA-T TAT TAT TAT TAT TAT -TA-T
* * *
72243427 TAT TAT T-T ATAC TA- TACT TAA TAT TAT TAT TAT TAT TAT CAT TAT
1 TAT TAT TAT -TAT TAT TA-T TAT TAT TAT TAT TAT TAT TAT TAT TAT
72243472 TATT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TA-T TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* * *
72243518 TAT TAT TA- TATT TAC TAT TAT TATT TAT AAA TAT TAGT GTA- TAT T-T
1 TAT TAT TAT TA-T TAT TAT TAT TA-T TAT TAT TAT TA-T -TAT TAT TAT
* *
72243564 TAT T-T TAA TAT CAT TA- TAT TAT GT-T TACT T-T T-T TGAAT T-T CTA-
1 TAT TAT TAT TAT TAT TAT TAT TAT -TAT TA-T TAT TAT T--AT TAT -TAT
* * * *
72243607 TAT TAT TAT TAT TAT TAT TGT TACT TAT TAT TAT TAC TGT TAT GTACA
1 TAT TAT TAT TAT TAT TAT TAT TA-T TAT TAT TAT TAT TAT TAT -TA-T
* * *
72243655 TAT TAT T-T AAC TA- TACT TAA TAT TAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TA-T TAT TAT TAT TAT TAT TAT TAT TAT TA
72243698 CATTTACTAT
Statistics
Matches: 248, Mismatches: 36, Indels: 64
0.71 0.10 0.18
Matches are distributed among these distances:
2 24 0.10
3 190 0.77
4 30 0.12
5 4 0.02
ACGTcount: A:0.32, C:0.05, G:0.03, T:0.60
Consensus pattern (3 bp):
TAT
Found at i:72243742 original size:228 final size:228
Alignment explanation
Indices: 72243331--72243742 Score: 670
Period size: 228 Copynumber: 1.8 Consensus size: 228
72243321 ATTTTTAAAT
* *
72243331 TATTTTATTTTAATATTATTATATTATGTTTATTTTTTTGAATTTCTATATTATTATTATTATTA
1 TATTTTATTTTAATATCATTATATTATGTTTACTTTTTTGAATTTCTATATTATTATTATTATTA
*
72243396 TTATTGTTACTTATTATTACTGTTATGTACATATTATTTATACTATACTTAATATTATTATTATT
66 TTATTCTTACTTATTATTACTGTTATGTACATATTATTTATACTATACTTAATATTATTATTATT
* * * *
72243461 ATTATCATTATTATTTATTATTATTATTATTATTATTATTATTATTATTATTATTATTATTATTA
131 ATTATCATTATCATTTACTATTATTATTATAAATATTATTATTATTATTATTATTATTATTATTA
72243526 TATTTACTATTATTATTTATAAATATTAGTGTA
196 TATTTACTATTATTATTTATAAATATTAGTGTA
72243559 TATTTTATTTTAATATCATTATATTATGTTTACTTTTTTGAATTTCTATATTATTATTATTATTA
1 TATTTTATTTTAATATCATTATATTATGTTTACTTTTTTGAATTTCTATATTATTATTATTATTA
*
72243624 TTGTTACTTA-TTATTATTACTGTTATGTACATATTATTTA-ACTATACTTAATATTATTATTAT
66 TTATT-CTTACTTATTATTACTGTTATGTACATATTATTTATACTATACTTAATATTATTATTAT
* *
72243687 TATTATTATTA-CATTTACTATTATTATTTATAAATATTAGTGTA-TATTTTTATTAT
130 TATTATCATTATCATTTACTATTATTA-TTATAAATATTA-T-TATTATTATTATTAT
72243743 ATATGTTTAT
Statistics
Matches: 170, Mismatches: 10, Indels: 8
0.90 0.05 0.04
Matches are distributed among these distances:
226 13 0.08
227 43 0.25
228 109 0.64
229 5 0.03
ACGTcount: A:0.32, C:0.04, G:0.03, T:0.60
Consensus pattern (228 bp):
TATTTTATTTTAATATCATTATATTATGTTTACTTTTTTGAATTTCTATATTATTATTATTATTA
TTATTCTTACTTATTATTACTGTTATGTACATATTATTTATACTATACTTAATATTATTATTATT
ATTATCATTATCATTTACTATTATTATTATAAATATTATTATTATTATTATTATTATTATTATTA
TATTTACTATTATTATTTATAAATATTAGTGTA
Found at i:72243891 original size:3 final size:3
Alignment explanation
Indices: 72243885--72243962 Score: 97
Period size: 3 Copynumber: 25.7 Consensus size: 3
72243875 CTATTATTGC
*
72243885 TAT TAT TGT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA- TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
*
72243932 TAT TATT TAT TA- TATT TAT ATAA TAT TAT TA
1 TAT TA-T TAT TAT TA-T TAT -TAT TAT TAT TA
72243963 ATAGGTACTT
Statistics
Matches: 66, Mismatches: 4, Indels: 10
0.82 0.05 0.12
Matches are distributed among these distances:
2 4 0.06
3 55 0.83
4 7 0.11
ACGTcount: A:0.35, C:0.00, G:0.01, T:0.64
Consensus pattern (3 bp):
TAT
Found at i:72244386 original size:2 final size:2
Alignment explanation
Indices: 72244379--72244403 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
72244369 TATTACTATT
72244379 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 T
72244404 TTTACGTGCA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:72256342 original size:72 final size:72
Alignment explanation
Indices: 72256256--72256756 Score: 524
Period size: 72 Copynumber: 6.8 Consensus size: 72
72256246 GTATTTTGAT
* * * * *
72256256 ATTTTTATTTCTATTTTCAAAATTCAACTCATATTACGAGAAATGAGTTGAGCCTTAAGACACGT
1 ATTTTAATTTCTATTTTCAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGC
72256321 TGAGGTA
66 TGAGGTA
* * *
72256328 ATTTTTATTTCTATTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGT
1 ATTTTAATTTCTATTTTCAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGC
72256393 TGAGGTA
66 TGAGGTA
* * * * *
72256400 ATTTCAATTTTTATTTTCAAAATTCAACTCAGATTGCGAGAAATGAGTTGAGCCTCAAGACATGC
1 ATTTTAATTTCTATTTTCAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGC
72256465 TGAGGT-
66 TGAGGTA
* * **
72256471 ATTTTCAATTTCTGTTTTTCAAAAAAAACAATCGACTCATATTGCGAGAGGTGAGTTGAGCCTCA
1 ATTTT-AATTTCT-ATTTTC-----AAA-AATCAACTCATATTGCGAGAAATGAGTTGAGCCTCA
*
72256536 AGACATGCTGAGGTA
58 AGACACGCTGAGGTA
* * * * *
72256551 ATTTTAATTTCTGTTTTCAAAATTCAACTCATATTGCGAGTAATGAGTTGAACCTCAAGACACGT
1 ATTTTAATTTCTATTTTCAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGC
72256616 TGAGGT-
66 TGAGGTA
* * *** *
72256622 ATTTTCAATTTATGTTTTCAAAAATCAACTCATATTGCGAGTGGTGAGTTGAGCCTC-GGTTCAC
1 ATTTT-AATTTCTATTTTCAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAG---AC
*
72256686 ATGCTGAGGT-
62 ACGCTGAGGTA
* **
72256696 ATTTTCAATTTCTATCTTTCAAAAAAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTC
1 ATTTT-AATTTCTAT-TTTC---AAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTC
72256757 GGGGCATGCT
Statistics
Matches: 375, Mismatches: 37, Indels: 28
0.85 0.08 0.06
Matches are distributed among these distances:
71 10 0.03
72 229 0.61
73 8 0.02
74 23 0.06
75 4 0.01
78 44 0.12
79 52 0.14
80 5 0.01
ACGTcount: A:0.32, C:0.16, G:0.18, T:0.35
Consensus pattern (72 bp):
ATTTTAATTTCTATTTTCAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGC
TGAGGTA
Found at i:72256573 original size:151 final size:145
Alignment explanation
Indices: 72256262--72257093 Score: 823
Period size: 151 Copynumber: 5.6 Consensus size: 145
72256252 TGATATTTTT
* * * *
72256262 ATTTCTATTTTCAAAATTCAACTCATATTACGAGAAATGAGTTGAGCCTTAAGACACGTTGAGGT
1 ATTTCTATTTTCAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGCTGAGGT
* * * **
72256327 AATTTT-TATTTCT-ATTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACA
66 -ATTTTCAATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACA
*
72256390 CGTTGAGGTAATTTCA
130 CGCTGAGGTAATTTCA
* * * *
72256406 ATTTTTATTTTCAAAATTCAACTCAGATTGCGAGAAATGAGTTGAGCCTCAAGACATGCTGAGGT
1 ATTTCTATTTTCAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGCTGAGGT
*
72256471 ATTTTCAATTTCTGTTTTTCAAAAAAAACAATCGACTCATATTGCGAGAGGTGAGTTGAGCCTCA
66 ATTTTCAATTTCTGTTTTTC-----AAA-AATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCA
* *
72256536 AGACATGCTGAGGTAATTTTA
125 AGACACGCTGAGGTAATTTCA
* * * * *
72256557 ATTTCTGTTTTCAAAATTCAACTCATATTGCGAGTAATGAGTTGAACCTCAAGACACGTTGAGGT
1 ATTTCTATTTTCAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGCTGAGGT
* * *
72256622 ATTTTCAATTTATG-TTTTCAAAAATCAACTCATATTGCGAGTGGTGAGTTGAGCCTC-GGTTCA
66 ATTTTCAATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAG---A
* *
72256685 CATGCTGAGGTATTTTCA
128 CACGCTGAGGTAATTTCA
* ** ** * *
72256703 ATTTCTATCTTTCAAAAAAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTCGGGGCATGCTG
1 ATTTCTAT-TTTC---AAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGCTG
** * * **
72256768 AGGTATTGGCAATTTTTGTTTATTAATTTATGTTTCAAAATTCAACTCATATTGCGAGAAATGAG
62 AGGTATTTTCAATTTCTG----------T-T-TTTCAAAAATCAACTCATATTGCGAGAGGTGAG
* *
72256833 TTGAGCCTTAAGACACGTTGAGGTAATTTCA
115 TTGAGCCTCAAGACACGCTGAGGTAATTTCA
* * * *
72256864 ATTTATGTTTTCAAAAAAATCAACTCATATTGCGATAAATGAGTTGAGCCTCAAGACATGCTGAG
1 ATTTCTATTTTC--AAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGCTGAG
* * *
72256929 GTATTTTCAATTTTTGTCTTTCAAAAAAATCAACTC--ATTGCGAGAGG-GAGTTGAGCCTCAGG
64 GTATTTTCAATTTCTGTTTTTC--AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAG
*
72256991 ACGCGCTGAGGTAATTTCA
127 ACACGCTGAGGTAATTTCA
* ** * * * *
72257010 ATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCGTCAGGGCACGCTAAGG
1 ATTTCT-ATTTTCAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGCTGAGG
72257075 TATTTTCAATTTCTGTTTT
65 TATTTTCAATTTCTGTTTT
72257094 CCAATTTCTG
Statistics
Matches: 573, Mismatches: 83, Indels: 63
0.80 0.12 0.09
Matches are distributed among these distances:
143 6 0.01
144 98 0.17
145 69 0.12
146 59 0.10
147 22 0.04
149 12 0.02
150 61 0.11
151 121 0.21
159 60 0.10
160 4 0.01
161 22 0.04
162 1 0.00
163 37 0.06
164 1 0.00
ACGTcount: A:0.31, C:0.16, G:0.19, T:0.34
Consensus pattern (145 bp):
ATTTCTATTTTCAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGCTGAGGT
ATTTTCAATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACAC
GCTGAGGTAATTTCA
Found at i:72256642 original size:223 final size:220
Alignment explanation
Indices: 72256274--72257094 Score: 988
Period size: 223 Copynumber: 3.7 Consensus size: 220
72256264 TTCTATTTTC
* * ** * * *
72256274 AAAATTCAACTCATATTACGAGAAATGAGTTGAGCCTTAAGACACGTTGAGGTAATTTTTATTTC
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGCTGAGGTAATTTTAATTTC
*
72256339 TATTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTAATTT
66 TGTTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTAATTT
* * * *
72256404 CAATTTTTATTTTCAAAATTCAACTCAGATTGCGAGAAATGAGTTGAGCCTCAAGACATGCTGAG
131 CAATTTATGTTTTCAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACATGCTGAG
*
72256469 GTATTTTCAATTTCTGTTTTTCAAAAA
196 GTATTTTCAATTTCTGTCTTTC--AAA
* *
72256496 AAACAATCGACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACATGCTGAGGTAATTTTAATTT
1 AAA-AATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGCTGAGGTAATTTTAATTT
* * *
72256561 CTGTTTTCAAAATTCAACTCATATTGCGAGTAATGAGTTGAACCTCAAGACACGTTGAGGTATTT
65 CTGTTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTAATT
*** *
72256626 TCAATTTATGTTTTCAAAAATCAACTCATATTGCGAGTGGTGAGTTGAGCCTC-GGTTCACATGC
130 TCAATTTATGTTTTCAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAG---ACATGC
*
72256690 TGAGGTATTTTCAATTTCTATCTTTCAAA
192 TGAGGTATTTTCAATTTCTGTCTTTCAAA
* ** * *
72256719 AAAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTCGGGGCATGCTGAGGTATTGGCAATTTT
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGCTGAGG---T---AA----
* *
72256784 TGTTTATTAATTTATG-TTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTTAAGACA
56 ---TT-TTAATTTCTGTTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACA
*
72256848 CGTTGAGGTAATTTCAATTTATGTTTTCAAAAAAATCAACTCATATTGCGATAAATGAGTTGAGC
117 CGTTGAGGTAATTTCAATTTATGTTTTC--AAAAATCAACTCATATTGCGAGAAATGAGTTGAGC
*
72256913 CTCAAGACATGCTGAGGTATTTTCAATTTTTGTCTTTC-AA
180 CTCAAGACATGCTGAGGTATTTTCAATTTCTGTCTTTCAAA
* * *
72256953 AAAAATCAACTC--ATTGCGAGAGG-GAGTTGAGCCTCAGGACGCGCTGAGGTAATTTCAATTTC
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGCTGAGGTAATTTTAATTTC
* ** * * * * * *
72257015 TGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCGTCAGGGCACGCTAAGGTATTT
66 TG-TTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTAATT
*
72257080 TCAATTTCTGTTTTC
130 TCAATTTATGTTTTC
72257095 CAATTTCTGC
Statistics
Matches: 518, Mismatches: 58, Indels: 49
0.83 0.09 0.08
Matches are distributed among these distances:
217 8 0.02
218 2 0.00
219 65 0.13
222 48 0.09
223 165 0.32
225 33 0.06
228 3 0.01
231 22 0.04
232 10 0.02
234 14 0.03
235 104 0.20
236 9 0.02
237 34 0.07
238 1 0.00
ACGTcount: A:0.31, C:0.16, G:0.19, T:0.34
Consensus pattern (220 bp):
AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGCTGAGGTAATTTTAATTTC
TGTTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTAATTT
CAATTTATGTTTTCAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACATGCTGAG
GTATTTTCAATTTCTGTCTTTCAAA
Found at i:72256867 original size:85 final size:74
Alignment explanation
Indices: 72256804--72257094 Score: 331
Period size: 74 Copynumber: 4.0 Consensus size: 74
72256794 TTTATGTTTC
* * * * *
72256804 AAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTTAAGACACGTTGAGGTAATTTCAATTTA
1 AAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACATGCTGAGGTAATTTCAATTTT
72256869 TGTTTTCAA
66 TGTTTTCAA
* *
72256878 AAAAATCAACTCATATTGCGATAAATGAGTTGAGCCTCAAGACATGCTGAGGTATTTTCAATTTT
1 AAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACATGCTGAGGTAATTTCAATTTT
72256943 TGTCTTTCAA
66 TGT-TTTCAA
** * ** *
72256953 AAAAATCAACTC--ATTGCGAG-AGGGAGTTGAGCCTCAGGACGCGCTGAGGTAATTTCAATTTC
1 AAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACATGCTGAGGTAATTTCAATTTT
72257015 TGTTTTTC--
66 TG-TTTTCAA
** * * * * * * *
72257023 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCGTCAGGGCACGCTAAGGTATTTTCAATTTC
1 AAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACATGCTGAGGTAATTTCAATTTT
72257088 TGTTTTC
66 TGTTTTC
72257095 CAATTTCTGC
Statistics
Matches: 190, Mismatches: 22, Indels: 12
0.85 0.10 0.05
Matches are distributed among these distances:
70 12 0.06
72 54 0.28
73 45 0.24
74 61 0.32
75 18 0.09
ACGTcount: A:0.31, C:0.16, G:0.20, T:0.33
Consensus pattern (74 bp):
AAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACATGCTGAGGTAATTTCAATTTT
TGTTTTCAA
Found at i:72256930 original size:159 final size:162
Alignment explanation
Indices: 72256628--72256945 Score: 401
Period size: 159 Copynumber: 2.0 Consensus size: 162
72256618 AGGTATTTTC
*** * *
72256628 AATTTATGTTTTCAAAAATCAACTCATATTGCGAGTGGTGAGTTGAGCCTCGGTTCACATGCTGA
1 AATTTATGTTTTCAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCT--GTACACACGCTGA
* * ** *
72256693 GGTATTTTCAATTTCTATCTTTCAAAAAAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTCG
64 GGTAATTTCAATTTATATCTTTCAAAAAAAATCAACTCATAATGCGAGAAATGAGTTGAGCCTCA
* *
72256758 GGGCATGCTGAGGTATTGGCAATTTTTGTTTATT
129 AGACATGCTGAGGTATTGGCAATTTTTGTTTATT
* * *
72256792 AATTTATG-TTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCT-TAAGACACGTTGAG
1 AATTTATGTTTTCAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTGT-ACACACGCTGAG
* * *
72256855 GTAATTTCAATTTATGT-TTTC-AAAAAAATCAACTCATATTGCGATAAATGAGTTGAGCCTCAA
65 GTAATTTCAATTTATATCTTTCAAAAAAAATCAACTCATAATGCGAGAAATGAGTTGAGCCTCAA
**
72256918 GACATGCTGAGGTATTTTCAATTTTTGT
130 GACATGCTGAGGTATTGGCAATTTTTGT
72256946 CTTTCAAAAA
Statistics
Matches: 133, Mismatches: 20, Indels: 7
0.83 0.12 0.04
Matches are distributed among these distances:
159 61 0.46
160 5 0.04
161 22 0.17
163 37 0.28
164 8 0.06
ACGTcount: A:0.31, C:0.14, G:0.19, T:0.36
Consensus pattern (162 bp):
AATTTATGTTTTCAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTGTACACACGCTGAGG
TAATTTCAATTTATATCTTTCAAAAAAAATCAACTCATAATGCGAGAAATGAGTTGAGCCTCAAG
ACATGCTGAGGTATTGGCAATTTTTGTTTATT
Found at i:72259345 original size:192 final size:193
Alignment explanation
Indices: 72259089--72259435 Score: 626
Period size: 192 Copynumber: 1.8 Consensus size: 193
72259079 TTTTTTAAAT
* *
72259089 TATTTTATTTTAATATTATTATATTATGTTTAGTTTTTTTGAATTTCTATATTATTATTATTATT
1 TATTTTATTTTAATATCATTATATTATGTTTAGCTTTTTTGAATTTCTATATTATTATTATTATT
*
72259154 ATTGTTACTTATTATTATTACTGTTATGTATATATTATTTATACTATACTTAATATTATTATTAT
66 ATTGTTACTTATTATTATTACTGTTATGTACATATTATTTATACTATACTTAATATTATTATTAT
* *
72259219 TATTATTA-TTATTATTATTATTATTATTATTATTTACTATTATTATTTATAAATATTAGTGTA
131 TATTATTACAT-TTACTATTATTATTATTATTATTTACTATTATTATTTATAAATATTAGTGTA
72259282 TATTTTATTTTAATATCATTATATTATGTTTA-CTTTTTTGAATTTCTATATTATTATTATTATT
1 TATTTTATTTTAATATCATTATATTATGTTTAGCTTTTTTGAATTTCTATATTATTATTATTATT
72259346 ATTGTTACTTATTATTATTACTGTTATGTACATATTATTTATACTATACTTAATATTATTATTAT
66 ATTGTTACTTATTATTATTACTGTTATGTACATATTATTTATACTATACTTAATATTATTATTAT
72259411 TATTATTACATTTACTATTATTATT
131 TATTATTACATTTACTATTATTATT
72259436 TATAAATATT
Statistics
Matches: 148, Mismatches: 5, Indels: 3
0.95 0.03 0.02
Matches are distributed among these distances:
192 116 0.78
193 32 0.22
ACGTcount: A:0.31, C:0.05, G:0.04, T:0.61
Consensus pattern (193 bp):
TATTTTATTTTAATATCATTATATTATGTTTAGCTTTTTTGAATTTCTATATTATTATTATTATT
ATTGTTACTTATTATTATTACTGTTATGTACATATTATTTATACTATACTTAATATTATTATTAT
TATTATTACATTTACTATTATTATTATTATTATTTACTATTATTATTTATAAATATTAGTGTA
Found at i:72259359 original size:19 final size:19
Alignment explanation
Indices: 72259335--72259371 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
72259325 TTCTATATTA
*
72259335 TTATTATTATTATTGTTAC
1 TTATTATTATTACTGTTAC
72259354 TTATTATTATTACTGTTA
1 TTATTATTATTACTGTTA
72259372 TGTACATATT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.27, C:0.05, G:0.05, T:0.62
Consensus pattern (19 bp):
TTATTATTATTACTGTTAC
Found at i:72259435 original size:3 final size:3
Alignment explanation
Indices: 72259138--72259418 Score: 156
Period size: 3 Copynumber: 91.7 Consensus size: 3
72259128 TGAATTTCTA
* * *
72259138 TAT TAT TAT TAT TAT TAT TGT TACT TAT TAT TAT TAC TGT TAT GTAT
1 TAT TAT TAT TAT TAT TAT TAT TA-T TAT TAT TAT TAT TAT TAT -TAT
* *
72259185 ATAT TAT T-T ATAC TA- TACT TAA TAT TAT TAT TAT TAT TAT TAT TAT
1 -TAT TAT TAT -TAT TAT TA-T TAT TAT TAT TAT TAT TAT TAT TAT TAT
* * *
72259231 TAT TAT TAT TAT TAT TAT TATT TAC TAT TAT TATT TAT AAA TAT TAGT
1 TAT TAT TAT TAT TAT TAT TA-T TAT TAT TAT TA-T TAT TAT TAT TA-T
* *
72259279 GTA- TAT T-T TAT T-T TAA TAT CAT TA- TAT TAT GT-T TACT T-T T-T
1 -TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT -TAT TA-T TAT TAT
* *
72259320 TGAAT T-T CTA- TAT TAT TAT TAT TAT TAT TGT TACT TAT TAT TAT TAC
1 T--AT TAT -TAT TAT TAT TAT TAT TAT TAT TAT TA-T TAT TAT TAT TAT
* * * *
72259367 TGT TAT GTACA TAT TAT T-T ATAC TA- TACT TAA TAT TAT TAT TAT TAT
1 TAT TAT -TA-T TAT TAT TAT -TAT TAT TA-T TAT TAT TAT TAT TAT TAT
72259414 TAT TA
1 TAT TA
72259419 CATTTACTAT
Statistics
Matches: 217, Mismatches: 31, Indels: 60
0.70 0.10 0.19
Matches are distributed among these distances:
2 22 0.10
3 161 0.74
4 30 0.14
5 4 0.02
ACGTcount: A:0.32, C:0.05, G:0.04, T:0.60
Consensus pattern (3 bp):
TAT
Found at i:72259603 original size:3 final size:3
Alignment explanation
Indices: 72259597--72259641 Score: 72
Period size: 3 Copynumber: 14.7 Consensus size: 3
72259587 GTATTTTTAC
*
72259597 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT ATAA TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT -TAT TAT TAT TA
72259642 ATAGGTACTT
Statistics
Matches: 39, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
3 37 0.95
4 2 0.05
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (3 bp):
TAT
Found at i:72263789 original size:18 final size:17
Alignment explanation
Indices: 72263766--72263816 Score: 57
Period size: 18 Copynumber: 2.8 Consensus size: 17
72263756 TTAAAATTTA
72263766 TTTAATATTTTTATATAT
1 TTTAATATTTTTATA-AT
72263784 TTTAATAATGTTTTATAAT
1 TTTAAT-AT-TTTTATAAT
*
72263803 TTTATAAATTTTTA
1 TTTA-ATATTTTTA
72263817 AAGAAATGCA
Statistics
Matches: 29, Mismatches: 1, Indels: 6
0.81 0.03 0.17
Matches are distributed among these distances:
18 11 0.38
19 10 0.34
20 8 0.28
ACGTcount: A:0.35, C:0.00, G:0.02, T:0.63
Consensus pattern (17 bp):
TTTAATATTTTTATAAT
Found at i:72264834 original size:2 final size:2
Alignment explanation
Indices: 72264823--72264859 Score: 53
Period size: 2 Copynumber: 20.0 Consensus size: 2
72264813 TTTGACTTAA
72264823 AT AT -T AT AT AT AT AT AT -T AT AT AT AT AT AT A- AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
72264860 TTGTGATTGA
Statistics
Matches: 32, Mismatches: 0, Indels: 6
0.84 0.00 0.16
Matches are distributed among these distances:
1 3 0.09
2 29 0.91
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
AT
Found at i:72264839 original size:13 final size:13
Alignment explanation
Indices: 72264823--72264859 Score: 65
Period size: 13 Copynumber: 2.8 Consensus size: 13
72264813 TTTGACTTAA
72264823 ATATTATATATAT
1 ATATTATATATAT
72264836 ATATTATATATAT
1 ATATTATATATAT
*
72264849 ATATAATATAT
1 ATATTATATAT
72264860 TTGTGATTGA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 23 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (13 bp):
ATATTATATATAT
Found at i:72264843 original size:11 final size:11
Alignment explanation
Indices: 72264829--72264860 Score: 50
Period size: 11 Copynumber: 3.1 Consensus size: 11
72264819 TTAAATATTA
72264829 TATATATATAT
1 TATATATATAT
72264840 TATATATATA-
1 TATATATATAT
72264850 TATA-ATATAT
1 TATATATATAT
72264860 T
1 T
72264861 TGTGATTGAT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
9 5 0.25
10 5 0.25
11 10 0.50
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (11 bp):
TATATATATAT
Found at i:72264847 original size:15 final size:15
Alignment explanation
Indices: 72264822--72264859 Score: 58
Period size: 15 Copynumber: 2.5 Consensus size: 15
72264812 ATTTGACTTA
72264822 AATATTATATATATAT
1 AATA-TATATATATAT
*
72264838 ATTATATATATATAT
1 AATATATATATATAT
72264853 AATATAT
1 AATATAT
72264860 TTGTGATTGA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
15 17 0.85
16 3 0.15
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (15 bp):
AATATATATATATAT
Found at i:72274020 original size:17 final size:15
Alignment explanation
Indices: 72273982--72274013 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
72273972 TTAAGAAACG
72273982 TACATAAAAAATATA
1 TACATAAAAAATATA
*
72273997 TACATAAAAAATTTA
1 TACATAAAAAATATA
72274012 TA
1 TA
72274014 ACAATAATAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.62, C:0.06, G:0.00, T:0.31
Consensus pattern (15 bp):
TACATAAAAAATATA
Found at i:72274091 original size:31 final size:31
Alignment explanation
Indices: 72274033--72274091 Score: 75
Period size: 31 Copynumber: 1.9 Consensus size: 31
72274023 TAAAATAATG
*
72274033 ATATGTACAAAAAAAATATATATATATATAC
1 ATATGTACAAAAAAAATACATATATATATAC
* *
72274064 ATATGTACATAAAATATACACTA-ATATA
1 ATATGTACAAAAAAAATACA-TATATATA
72274092 ATAATAGTTA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
31 22 0.92
32 2 0.08
ACGTcount: A:0.56, C:0.08, G:0.03, T:0.32
Consensus pattern (31 bp):
ATATGTACAAAAAAAATACATATATATATAC
Found at i:72274296 original size:11 final size:11
Alignment explanation
Indices: 72274269--72274311 Score: 50
Period size: 11 Copynumber: 3.9 Consensus size: 11
72274259 ATGGTATTAA
*
72274269 AAAATATATAC
1 AAAATATATAT
*
72274280 ATAATATATAT
1 AAAATATATAT
*
72274291 AAAATACATAT
1 AAAATATATAT
*
72274302 AATATATATA
1 AAAATATATA
72274312 CGTATTAGAA
Statistics
Matches: 26, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
11 26 1.00
ACGTcount: A:0.60, C:0.05, G:0.00, T:0.35
Consensus pattern (11 bp):
AAAATATATAT
Found at i:72274853 original size:11 final size:12
Alignment explanation
Indices: 72274837--72274872 Score: 58
Period size: 11 Copynumber: 3.2 Consensus size: 12
72274827 GAAAAAAAAA
72274837 GAAGAGAG-AGG
1 GAAGAGAGAAGG
72274848 GAAGAGAGAAGG
1 GAAGAGAGAAGG
72274860 G-AGAGAGAAGG
1 GAAGAGAGAAGG
72274871 GA
1 GA
72274873 GGGGGGAAGG
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
11 19 0.83
12 4 0.17
ACGTcount: A:0.47, C:0.00, G:0.53, T:0.00
Consensus pattern (12 bp):
GAAGAGAGAAGG
Found at i:72274966 original size:6 final size:6
Alignment explanation
Indices: 72274955--72275018 Score: 58
Period size: 6 Copynumber: 10.3 Consensus size: 6
72274945 CACCGTAAAT
* * * *
72274955 TTTTTA TTTTTA TTTTTA TTTTTTA TATTTG TTTTGTA TATATA TTTTTA
1 TTTTTA TTTTTA TTTTTA -TTTTTA TTTTTA TTTT-TA TTTTTA TTTTTA
72275005 TTATTT- TTTTTA TT
1 TT-TTTA TTTTTA TT
72275019 ATGATGTATA
Statistics
Matches: 46, Mismatches: 8, Indels: 8
0.74 0.13 0.13
Matches are distributed among these distances:
5 3 0.07
6 31 0.67
7 12 0.26
ACGTcount: A:0.19, C:0.00, G:0.03, T:0.78
Consensus pattern (6 bp):
TTTTTA
Found at i:72275090 original size:17 final size:17
Alignment explanation
Indices: 72275070--72275108 Score: 53
Period size: 17 Copynumber: 2.3 Consensus size: 17
72275060 AAATAAAATA
*
72275070 AAAATAA-AAATAAGAGT
1 AAAATAATAAAGAAGA-T
72275087 AAAATAATAAAGAAGAT
1 AAAATAATAAAGAAGAT
72275104 AAAAT
1 AAAAT
72275109 CACCTTTAGG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
17 13 0.65
18 7 0.35
ACGTcount: A:0.72, C:0.00, G:0.10, T:0.18
Consensus pattern (17 bp):
AAAATAATAAAGAAGAT
Found at i:72282130 original size:33 final size:34
Alignment explanation
Indices: 72282066--72282136 Score: 85
Period size: 33 Copynumber: 2.1 Consensus size: 34
72282056 AAAATATTTT
* * *
72282066 TAAAAATTCTAAAATTTATATTTTTAAAAAGTTA
1 TAAAAATTCTAAAATATATATTATAAAAAAGTTA
72282100 TAAAAATTCT-AAATATATA-TATAAATAAAGTTA
1 TAAAAATTCTAAAATATATATTATAAA-AAAGTTA
72282133 -AAAA
1 TAAAA
72282137 TTAAAAATTT
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
32 8 0.24
33 15 0.45
34 10 0.30
ACGTcount: A:0.56, C:0.03, G:0.03, T:0.38
Consensus pattern (34 bp):
TAAAAATTCTAAAATATATATTATAAAAAAGTTA
Found at i:72289033 original size:35 final size:35
Alignment explanation
Indices: 72288971--72289056 Score: 106
Period size: 35 Copynumber: 2.5 Consensus size: 35
72288961 TTTTATTTGT
*
72288971 TTTA-ATTATATAATTAATGATATTTAAA-TATAA
1 TTTATATTATATAATTAATGATAATTAAATTATAA
*
72289004 TTTATATTATATGAATTTATGATAATTAAATTATAA
1 TTTATATTATAT-AATTAATGATAATTAAATTATAA
* *
72289040 -TGATATTATATTATTAA
1 TTTATATTATATAATTAA
72289057 ATAAATTAAA
Statistics
Matches: 45, Mismatches: 5, Indels: 5
0.82 0.09 0.09
Matches are distributed among these distances:
33 4 0.09
34 11 0.24
35 25 0.56
36 5 0.11
ACGTcount: A:0.45, C:0.00, G:0.05, T:0.50
Consensus pattern (35 bp):
TTTATATTATATAATTAATGATAATTAAATTATAA
Found at i:72289042 original size:25 final size:23
Alignment explanation
Indices: 72288998--72289058 Score: 61
Period size: 24 Copynumber: 2.5 Consensus size: 23
72288988 TGATATTTAA
*
72288998 ATATAATTTATATTATATGA-ATTT
1 ATATAA-TTAAATTATATGATA-TT
72289022 ATGATAATTAAATTATAATGATATT
1 AT-ATAATTAAATTAT-ATGATATT
*
72289047 ATATTATTAAAT
1 ATATAATTAAAT
72289059 AAATTAAAAT
Statistics
Matches: 32, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
24 19 0.59
25 12 0.38
26 1 0.03
ACGTcount: A:0.46, C:0.00, G:0.05, T:0.49
Consensus pattern (23 bp):
ATATAATTAAATTATATGATATT
Found at i:72289435 original size:16 final size:15
Alignment explanation
Indices: 72289409--72289439 Score: 53
Period size: 16 Copynumber: 2.0 Consensus size: 15
72289399 AACAGAGCAG
72289409 GAAAGAAAAAGGAAA
1 GAAAGAAAAAGGAAA
72289424 GAAAGAAGAAAGGAAA
1 GAAAGAA-AAAGGAAA
72289440 AATTCAGGTT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 7 0.47
16 8 0.53
ACGTcount: A:0.71, C:0.00, G:0.29, T:0.00
Consensus pattern (15 bp):
GAAAGAAAAAGGAAA
Found at i:72299544 original size:43 final size:44
Alignment explanation
Indices: 72299495--72299641 Score: 192
Period size: 43 Copynumber: 3.4 Consensus size: 44
72299485 GATTACCGAG
* * *
72299495 ATGTGATTACATGTAAGAACATGTCTGGGACATTGGCATTGTAT
1 ATGTGATTACATGTAAGACCATGTCTAGGACATTGGCATCGTAT
*
72299539 -TGTGATTACGTGTAAGACCATGTCTAGGACATTGGCATCGT-T
1 ATGTGATTACATGTAAGACCATGTCTAGGACATTGGCATCGTAT
* * * *
72299581 ATGTGATTTCGTGTAAGACCCTGTCTAGGACAGTGGCATCG-AT
1 ATGTGATTACATGTAAGACCATGTCTAGGACATTGGCATCGTAT
*
72299624 ATGTGATAACATGTAAGA
1 ATGTGATTACATGTAAGA
72299642 TCATATTTGG
Statistics
Matches: 91, Mismatches: 10, Indels: 5
0.86 0.09 0.05
Matches are distributed among these distances:
42 1 0.01
43 90 0.99
ACGTcount: A:0.28, C:0.14, G:0.26, T:0.32
Consensus pattern (44 bp):
ATGTGATTACATGTAAGACCATGTCTAGGACATTGGCATCGTAT
Found at i:72303913 original size:75 final size:75
Alignment explanation
Indices: 72303794--72303965 Score: 205
Period size: 75 Copynumber: 2.4 Consensus size: 75
72303784 CATGGCAAAG
** *
72303794 TGTGAAATGTAGGTATGG---TATC--ATCCATACTGAGTTGTGAAATGTAGGTATGGTATTAT-
1 TGTGAAATGTAGGTATGGTATTATCAAATCCATACTGAGTTAAGAAATGTAGGTATGGCATT-TC
*
72303853 CCATACTGAGC
65 CCATACCGAGC
72303864 TGTGAAATGTAGGTATGGTATTATCAAATCCATACTGAGTTAAGAAATGTAGGTATGGCATTTCC
1 TGTGAAATGTAGGTATGGTATTATCAAATCCATACTGAGTTAAGAAATGTAGGTATGGCATTTCC
*
72303929 CATACCGAGT
66 CATACCGAGC
***
72303939 TAAAAAAATGTAGGTATGGTATT-TCAA
1 T-GTGAAATGTAGGTATGGTATTATCAA
72303966 TGAGGAAAAC
Statistics
Matches: 87, Mismatches: 8, Indels: 9
0.84 0.08 0.09
Matches are distributed among these distances:
70 18 0.21
73 4 0.05
74 1 0.01
75 46 0.53
76 18 0.21
ACGTcount: A:0.33, C:0.11, G:0.23, T:0.33
Consensus pattern (75 bp):
TGTGAAATGTAGGTATGGTATTATCAAATCCATACTGAGTTAAGAAATGTAGGTATGGCATTTCC
CATACCGAGC
Found at i:72303932 original size:35 final size:35
Alignment explanation
Indices: 72303797--72303963 Score: 167
Period size: 35 Copynumber: 4.6 Consensus size: 35
72303787 GGCAAAGTGT
* **
72303797 GAAATGTAGGTATGGTATCAT-CCATACTGAGTTGT
1 GAAATGTAGGTATGGTAT-TTCCCATACTGAGTTAA
* **
72303832 GAAATGTAGGTATGGTATTAT-CCATACTGAGCTGT
1 GAAATGTAGGTATGGTATT-TCCCATACTGAGTTAA
72303867 GAAATGTAGGTATGGTATTATCAAATCCATACTGAGTTAA
1 GAAATGTAGGTATGGTATT-TC----CCATACTGAGTTAA
* *
72303907 GAAATGTAGGTATGGCATTTCCCATACCGAGTTAAA
1 GAAATGTAGGTATGGTATTTCCCATACTGAGTT-AA
*
72303943 AAAATGTAGGTATGGTATTTC
1 GAAATGTAGGTATGGTATTTC
72303964 AATGAGGAAA
Statistics
Matches: 116, Mismatches: 9, Indels: 13
0.84 0.07 0.09
Matches are distributed among these distances:
35 64 0.55
36 21 0.18
39 2 0.02
40 29 0.25
ACGTcount: A:0.32, C:0.11, G:0.23, T:0.33
Consensus pattern (35 bp):
GAAATGTAGGTATGGTATTTCCCATACTGAGTTAA
Found at i:72303955 original size:36 final size:35
Alignment explanation
Indices: 72303893--72303963 Score: 106
Period size: 36 Copynumber: 2.0 Consensus size: 35
72303883 ATTATCAAAT
* *
72303893 CCATACTGAGTTAAGAAATGTAGGTATGGCATTTC
1 CCATACCGAGTTAAAAAATGTAGGTATGGCATTTC
*
72303928 CCATACCGAGTTAAAAAAATGTAGGTATGGTATTTC
1 CCATACCGAGTT-AAAAAATGTAGGTATGGCATTTC
72303964 AATGAGGAAA
Statistics
Matches: 32, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
35 11 0.34
36 21 0.66
ACGTcount: A:0.34, C:0.14, G:0.21, T:0.31
Consensus pattern (35 bp):
CCATACCGAGTTAAAAAATGTAGGTATGGCATTTC
Found at i:72311410 original size:75 final size:75
Alignment explanation
Indices: 72311291--72311461 Score: 212
Period size: 75 Copynumber: 2.4 Consensus size: 75
72311281 CATGGCAAAG
** *
72311291 TGTGAAATGTAGGTATGG---TATC--ATCCATACTGAGTTGTGAAATGTAGGTATGGTATTAT-
1 TGTGAAATGTAGGTATGGTATTATCAAATCCATACTGAGTTAAGAAATGTAGGTATGGCATT-TC
*
72311350 CCATACTGAGC
65 CCATACCGAGC
72311361 TGTGAAATGTAGGTATGGTATTATCAAATCCATACTGAGTTAAGAAATGTAGGTATGGCATTTCC
1 TGTGAAATGTAGGTATGGTATTATCAAATCCATACTGAGTTAAGAAATGTAGGTATGGCATTTCC
*
72311426 CATACCGAGT
66 CATACCGAGC
***
72311436 TAAAAAATGTAGGTATGGTATT-TCAA
1 TGTGAAATGTAGGTATGGTATTATCAA
72311462 TGAGGAAAAC
Statistics
Matches: 87, Mismatches: 8, Indels: 8
0.84 0.08 0.08
Matches are distributed among these distances:
70 18 0.21
73 4 0.05
74 5 0.06
75 60 0.69
ACGTcount: A:0.32, C:0.11, G:0.23, T:0.33
Consensus pattern (75 bp):
TGTGAAATGTAGGTATGGTATTATCAAATCCATACTGAGTTAAGAAATGTAGGTATGGCATTTCC
CATACCGAGC
Found at i:72311429 original size:35 final size:35
Alignment explanation
Indices: 72311294--72311459 Score: 174
Period size: 35 Copynumber: 4.6 Consensus size: 35
72311284 GGCAAAGTGT
* **
72311294 GAAATGTAGGTATGGTATCAT-CCATACTGAGTTGT
1 GAAATGTAGGTATGGTAT-TTCCCATACTGAGTTAA
* **
72311329 GAAATGTAGGTATGGTATTAT-CCATACTGAGCTGT
1 GAAATGTAGGTATGGTATT-TCCCATACTGAGTTAA
72311364 GAAATGTAGGTATGGTATTATCAAATCCATACTGAGTTAA
1 GAAATGTAGGTATGGTATT-TC----CCATACTGAGTTAA
* *
72311404 GAAATGTAGGTATGGCATTTCCCATACCGAGTTAA
1 GAAATGTAGGTATGGTATTTCCCATACTGAGTTAA
*
72311439 AAAATGTAGGTATGGTATTTC
1 GAAATGTAGGTATGGTATTTC
72311460 AATGAGGAAA
Statistics
Matches: 116, Mismatches: 9, Indels: 12
0.85 0.07 0.09
Matches are distributed among these distances:
35 85 0.73
39 2 0.02
40 29 0.25
ACGTcount: A:0.32, C:0.11, G:0.23, T:0.33
Consensus pattern (35 bp):
GAAATGTAGGTATGGTATTTCCCATACTGAGTTAA
Found at i:72313435 original size:47 final size:47
Alignment explanation
Indices: 72313366--72313660 Score: 464
Period size: 47 Copynumber: 6.3 Consensus size: 47
72313356 CCCTTTGAGA
* * * *
72313366 CTTATCACATTTACACACTTTCACATCCATCACATTGGCCATTAGGT
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTAGGC
* * ** *
72313413 CTTATCTCATATATACACTTTCATATTCATCACATCAGCCATTAGGT
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTAGGC
* *
72313460 CTTATCTCATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTAGGC
*
72313507 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTAGGC
72313554 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTAGGC
* *
72313601 TTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTAGGC
72313648 CTTATCACATATA
1 CTTATCACATATA
72313661 CATATCTTGT
Statistics
Matches: 231, Mismatches: 17, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
47 231 1.00
ACGTcount: A:0.28, C:0.28, G:0.08, T:0.36
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTAGGC
Found at i:72313516 original size:22 final size:22
Alignment explanation
Indices: 72313488--72313563 Score: 64
Period size: 22 Copynumber: 3.3 Consensus size: 22
72313478 TTTCACATTC
72313488 ATCACATTGGCCATTCGGCCTT
1 ATCACATTGGCCATTCGGCCTT
** * * *
72313510 ATCACATATATACACTTTC-ACATT
1 ATCACAT-T-GGC-CATTCGGCCTT
72313534 CATCACATTGGCCATTCGGCCTT
1 -ATCACATTGGCCATTCGGCCTT
72313557 ATCACAT
1 ATCACAT
72313564 ATATACACTT
Statistics
Matches: 39, Mismatches: 10, Indels: 10
0.66 0.17 0.17
Matches are distributed among these distances:
22 18 0.46
23 5 0.13
24 5 0.13
25 11 0.28
ACGTcount: A:0.26, C:0.30, G:0.11, T:0.33
Consensus pattern (22 bp):
ATCACATTGGCCATTCGGCCTT
Found at i:72322062 original size:2 final size:2
Alignment explanation
Indices: 72322055--72322079 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
72322045 TTATATTTTG
72322055 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
72322080 AATTTTCTAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:72322284 original size:2 final size:2
Alignment explanation
Indices: 72322277--72322308 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
72322267 AATAGTATTC
72322277 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
72322309 TCCTATTAAA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:72327771 original size:30 final size:30
Alignment explanation
Indices: 72327736--72327832 Score: 149
Period size: 30 Copynumber: 3.1 Consensus size: 30
72327726 ACTTATTTTA
*
72327736 TTGTTAATTTTATTATTATTTTAGAGGCAT
1 TTGTTAATTTTGTTATTATTTTAGAGGCAT
72327766 TTGTTAATTTTGTTATTATTTTAGAGGCATTT
1 TTGTTAATTTTGTTATTATTTTAGAGGCA--T
72327798 GCTTGTTAATTTTGTTATTATTTTAGAGGCAT
1 --TTGTTAATTTTGTTATTATTTTAGAGGCAT
72327830 TTG
1 TTG
72327833 CTTGTTAAGT
Statistics
Matches: 62, Mismatches: 1, Indels: 8
0.87 0.01 0.11
Matches are distributed among these distances:
30 31 0.50
32 2 0.03
34 29 0.47
ACGTcount: A:0.23, C:0.04, G:0.16, T:0.57
Consensus pattern (30 bp):
TTGTTAATTTTGTTATTATTTTAGAGGCAT
Found at i:72327809 original size:34 final size:34
Alignment explanation
Indices: 72327736--72327840 Score: 173
Period size: 34 Copynumber: 3.2 Consensus size: 34
72327726 ACTTATTTTA
*
72327736 TTGTTAATTTTATTATTATTTTAGAGGCA--T--
1 TTGTTAATTTTGTTATTATTTTAGAGGCATTTGC
72327766 TTGTTAATTTTGTTATTATTTTAGAGGCATTTGC
1 TTGTTAATTTTGTTATTATTTTAGAGGCATTTGC
72327800 TTGTTAATTTTGTTATTATTTTAGAGGCATTTGC
1 TTGTTAATTTTGTTATTATTTTAGAGGCATTTGC
72327834 TTGTTAA
1 TTGTTAA
72327841 GTTGCATTTA
Statistics
Matches: 70, Mismatches: 1, Indels: 4
0.93 0.01 0.05
Matches are distributed among these distances:
30 28 0.40
32 1 0.01
34 41 0.59
ACGTcount: A:0.23, C:0.05, G:0.16, T:0.56
Consensus pattern (34 bp):
TTGTTAATTTTGTTATTATTTTAGAGGCATTTGC
Found at i:72327864 original size:33 final size:34
Alignment explanation
Indices: 72327736--72327856 Score: 130
Period size: 34 Copynumber: 3.7 Consensus size: 34
72327726 ACTTATTTTA
*
72327736 TTGTTAAT-TTTATTATTATTTTAGAGGCA--T--
1 TTGTTAATGTTGA-TATTATTTTAGAGGCATTTGC
* *
72327766 TTGTTAATTTTGTTATTATTTTAGAGGCATTTGC
1 TTGTTAATGTTGATATTATTTTAGAGGCATTTGC
* *
72327800 TTGTTAATTTTGTTATTATTTTAGAGGCATTTGC
1 TTGTTAATGTTGATATTATTTTAGAGGCATTTGC
72327834 TTGTTAA-GTTGCAT-TTATTTTAG
1 TTGTTAATGTTG-ATATTATTTTAG
72327857 TGTCATTTAA
Statistics
Matches: 81, Mismatches: 4, Indels: 9
0.86 0.04 0.10
Matches are distributed among these distances:
30 24 0.30
31 2 0.02
32 1 0.01
33 12 0.15
34 42 0.52
ACGTcount: A:0.22, C:0.05, G:0.17, T:0.56
Consensus pattern (34 bp):
TTGTTAATGTTGATATTATTTTAGAGGCATTTGC
Found at i:72329095 original size:20 final size:21
Alignment explanation
Indices: 72329072--72329113 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
72329062 CAAAAAACAT
*
72329072 TTAC-GGGCCTTAAAAAGAGC
1 TTACGGGGCCCTAAAAAGAGC
*
72329092 TTACGGGGCCCTAAAAATAGC
1 TTACGGGGCCCTAAAAAGAGC
72329113 T
1 T
72329114 CGGGAATAAC
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
20 4 0.21
21 15 0.79
ACGTcount: A:0.33, C:0.21, G:0.24, T:0.21
Consensus pattern (21 bp):
TTACGGGGCCCTAAAAAGAGC
Found at i:72335537 original size:21 final size:21
Alignment explanation
Indices: 72335508--72335547 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
72335498 TAATGCCACA
*
72335508 TCAACATTTTCATCTTGAATT
1 TCAACATTTTCATCGTGAATT
*
72335529 TCAAGATTTTCATCGTGAA
1 TCAACATTTTCATCGTGAA
72335548 AAAAAATCAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.30, C:0.17, G:0.10, T:0.42
Consensus pattern (21 bp):
TCAACATTTTCATCGTGAATT
Found at i:72339379 original size:16 final size:17
Alignment explanation
Indices: 72339360--72339399 Score: 66
Period size: 16 Copynumber: 2.5 Consensus size: 17
72339350 TAAAAACTCT
72339360 TTAAAATTA-AAAAAAA
1 TTAAAATTATAAAAAAA
72339376 TTAAAA-TATAAAAAAA
1 TTAAAATTATAAAAAAA
72339392 TTAAAATT
1 TTAAAATT
72339400 CAATGTCATC
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
15 2 0.09
16 19 0.86
17 1 0.05
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (17 bp):
TTAAAATTATAAAAAAA
Found at i:72341574 original size:26 final size:25
Alignment explanation
Indices: 72341545--72341625 Score: 83
Period size: 26 Copynumber: 3.2 Consensus size: 25
72341535 TATCCCAAGC
72341545 TCCTGATTAAAGGTTCTTCATGAGCT
1 TCCTGATTAAAGGTTCTT-ATGAGCT
** * *
72341571 TCCTGATTAAAAATTCTTTGTGAACT
1 TCCTGATTAAAGGTTC-TTATGAGCT
* *
72341597 TCCTGATT-ATGGCTCTTATGAGCT
1 TCCTGATTAAAGGTTCTTATGAGCT
72341621 TCCTG
1 TCCTG
72341626 TTATATGAAT
Statistics
Matches: 44, Mismatches: 10, Indels: 4
0.76 0.17 0.07
Matches are distributed among these distances:
24 12 0.27
25 3 0.07
26 27 0.61
27 2 0.05
ACGTcount: A:0.22, C:0.20, G:0.17, T:0.41
Consensus pattern (25 bp):
TCCTGATTAAAGGTTCTTATGAGCT
Found at i:72343884 original size:22 final size:22
Alignment explanation
Indices: 72343845--72343903 Score: 70
Period size: 21 Copynumber: 2.8 Consensus size: 22
72343835 GTTTTAAGAA
*
72343845 TTGTTTTAGTA-TTATTTTTAT
1 TTGTTTTAATATTTATTTTTAT
72343866 TTGTTTTAATATTTATTTTTAT
1 TTGTTTTAATATTTATTTTTAT
* *
72343888 GT-TTTTAA-ATATATTT
1 TTGTTTTAATATTTATTT
72343904 GATTTATTAT
Statistics
Matches: 34, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
20 7 0.21
21 16 0.47
22 11 0.32
ACGTcount: A:0.24, C:0.00, G:0.07, T:0.69
Consensus pattern (22 bp):
TTGTTTTAATATTTATTTTTAT
Found at i:72343920 original size:26 final size:24
Alignment explanation
Indices: 72343874--72343921 Score: 69
Period size: 26 Copynumber: 1.9 Consensus size: 24
72343864 ATTTGTTTTA
*
72343874 ATATTTATTTTTATGTTTTTAAAT
1 ATATTTATTTTTATATTTTTAAAT
72343898 ATATTTGATTTATTATATTTTTAA
1 ATATTT-ATTT-TTATATTTTTAA
72343922 TTTTTTTTAT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 6 0.29
25 4 0.19
26 11 0.52
ACGTcount: A:0.31, C:0.00, G:0.04, T:0.65
Consensus pattern (24 bp):
ATATTTATTTTTATATTTTTAAAT
Found at i:72343933 original size:25 final size:26
Alignment explanation
Indices: 72343877--72343934 Score: 66
Period size: 25 Copynumber: 2.3 Consensus size: 26
72343867 TGTTTTAATA
*
72343877 TTTATTT-TTATGTTTTTAAATATAT
1 TTTATTTATTATATTTTTAAATATAT
* * *
72343902 TTGATTTATTATATTTTT-AATTTTT
1 TTTATTTATTATATTTTTAAATATAT
72343927 TTTATTTA
1 TTTATTTA
72343935 ATAAAATAAG
Statistics
Matches: 27, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
25 18 0.67
26 9 0.33
ACGTcount: A:0.26, C:0.00, G:0.03, T:0.71
Consensus pattern (26 bp):
TTTATTTATTATATTTTTAAATATAT
Found at i:72348472 original size:52 final size:52
Alignment explanation
Indices: 72348416--72348554 Score: 147
Period size: 52 Copynumber: 2.7 Consensus size: 52
72348406 TATGTGCTTT
* *
72348416 CGTATAAGACCATAGTTGGGCTATGGCATCGGTACAATGTGATTCATGT-TCC
1 CGTATAAGACCATAGTTGGGCTATGGCATCGGTACAATATGA-TAATGTATCC
* * * *** *
72348468 CGTATAAGACCATAGCTAGGCTATGGCATCAGTGTGATATGATAATGTGATTC
1 CGTATAAGACCATAGTTGGGCTATGGCATCGGTACAATATGATAATGT-ATCC
*
72348521 CGTATAAGACCATA-TCTGGGATATGGCATCGGTA
1 CGTATAAGACCATAGT-TGGGCTATGGCATCGGTA
72348555 TGTTATGTGA
Statistics
Matches: 70, Mismatches: 14, Indels: 5
0.79 0.16 0.06
Matches are distributed among these distances:
51 5 0.07
52 35 0.50
53 30 0.43
ACGTcount: A:0.28, C:0.17, G:0.25, T:0.29
Consensus pattern (52 bp):
CGTATAAGACCATAGTTGGGCTATGGCATCGGTACAATATGATAATGTATCC
Found at i:72348592 original size:46 final size:47
Alignment explanation
Indices: 72348407--72348609 Score: 124
Period size: 46 Copynumber: 4.1 Consensus size: 47
72348397 AAGATGTGAT
* * ** *
72348407 ATGTGCTTTCGTATAAGACCATAGTTGGGCTATGGCATCGGTACAATGTG
1 ATGTGATTCCGTATAAGACCATAGCAGGGATATGGCATCGGT---ATGTG
* * *
72348457 AT-TCATGTTCCCGTATAAGACCATAGCTA-GGCTATGGCATCAGTGTGATATGATA
1 ATGTGA--TT-CCGTATAAGACCATAGC-AGGGATATGGCATC---G-G-TATG-TG
* * *
72348512 ATGTGATTCCGTATAAGACCATATCTGGGATATGGCATCGGTATGTT
1 ATGTGATTCCGTATAAGACCATAGCAGGGATATGGCATCGGTATGTG
* * * * *
72348559 ATGTGA-TCCGTGTAAGACCATGGCAGGGCTATGGCTTCGGTGTGTG
1 ATGTGATTCCGTATAAGACCATAGCAGGGATATGGCATCGGTATGTG
72348605 ATGTG
1 ATGTG
72348610 TGACAATATG
Statistics
Matches: 122, Mismatches: 19, Indels: 28
0.72 0.11 0.17
Matches are distributed among these distances:
46 37 0.30
47 7 0.06
48 4 0.03
49 2 0.02
50 3 0.02
51 2 0.02
52 27 0.22
53 27 0.22
54 5 0.04
55 4 0.03
56 3 0.02
57 1 0.01
ACGTcount: A:0.24, C:0.16, G:0.28, T:0.32
Consensus pattern (47 bp):
ATGTGATTCCGTATAAGACCATAGCAGGGATATGGCATCGGTATGTG
Found at i:72349399 original size:13 final size:13
Alignment explanation
Indices: 72349381--72349413 Score: 66
Period size: 13 Copynumber: 2.5 Consensus size: 13
72349371 GACAGATCTG
72349381 CCCACGGGCTGGC
1 CCCACGGGCTGGC
72349394 CCCACGGGCTGGC
1 CCCACGGGCTGGC
72349407 CCCACGG
1 CCCACGG
72349414 CCATGGGAGC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 20 1.00
ACGTcount: A:0.09, C:0.48, G:0.36, T:0.06
Consensus pattern (13 bp):
CCCACGGGCTGGC
Found at i:72359747 original size:23 final size:23
Alignment explanation
Indices: 72359721--72359779 Score: 59
Period size: 23 Copynumber: 2.6 Consensus size: 23
72359711 TCAAATTTTG
72359721 AGTTAA-TTGAATCAAGTTA-TTTA
1 AGTTAACTTGAAT-AAG-TAGTTTA
* *
72359744 AGTTAACTTAAATAAGTAGTTTG
1 AGTTAACTTGAATAAGTAGTTTA
*
72359767 AGTTAAGTTGAAT
1 AGTTAACTTGAAT
72359780 TTTACAATTT
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
22 2 0.07
23 23 0.77
24 5 0.17
ACGTcount: A:0.39, C:0.03, G:0.17, T:0.41
Consensus pattern (23 bp):
AGTTAACTTGAATAAGTAGTTTA
Found at i:72363335 original size:21 final size:21
Alignment explanation
Indices: 72363309--72363349 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
72363299 AGACGAGCGA
* *
72363309 TACTCCACAGCAGGTGGAGTG
1 TACTCCAAAACAGGTGGAGTG
72363330 TACTCCAAAACAGGTGGAGT
1 TACTCCAAAACAGGTGGAGT
72363350 TTGAGCAGAT
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:0.29, C:0.22, G:0.29, T:0.20
Consensus pattern (21 bp):
TACTCCAAAACAGGTGGAGTG
Found at i:72367865 original size:18 final size:18
Alignment explanation
Indices: 72367842--72367879 Score: 60
Period size: 18 Copynumber: 2.1 Consensus size: 18
72367832 TCGAAATTTT
72367842 ATTTTAATATTT-TTATGC
1 ATTTTAAT-TTTATTATGC
72367860 ATTTTAATTTTATTATGC
1 ATTTTAATTTTATTATGC
72367878 AT
1 AT
72367880 AATTTTATTT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 3 0.16
18 16 0.84
ACGTcount: A:0.29, C:0.05, G:0.05, T:0.61
Consensus pattern (18 bp):
ATTTTAATTTTATTATGC
Found at i:72368162 original size:18 final size:18
Alignment explanation
Indices: 72368116--72368175 Score: 54
Period size: 18 Copynumber: 3.3 Consensus size: 18
72368106 CACCTCTATA
72368116 TTTTAAGTATAT-ATAA-T
1 TTTTAA-TATATAATAATT
*
72368133 TTTTACA-CTATAATAATT
1 TTTTA-ATATATAATAATT
*
72368151 TTTTAATATATAATTATT
1 TTTTAATATATAATAATT
72368169 ATTTTAA
1 -TTTTAA
72368176 AAGAATAAAA
Statistics
Matches: 35, Mismatches: 3, Indels: 8
0.76 0.07 0.17
Matches are distributed among these distances:
16 3 0.09
17 10 0.29
18 16 0.46
19 6 0.17
ACGTcount: A:0.40, C:0.03, G:0.02, T:0.55
Consensus pattern (18 bp):
TTTTAATATATAATAATT
Found at i:72369406 original size:17 final size:17
Alignment explanation
Indices: 72369384--72369418 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
72369374 AATTAAAAAA
*
72369384 ATTTATTATAATAATTT
1 ATTTATAATAATAATTT
*
72369401 ATTTATAATTATAATTT
1 ATTTATAATAATAATTT
72369418 A
1 A
72369419 AAGAATAATA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (17 bp):
ATTTATAATAATAATTT
Found at i:72375925 original size:7 final size:7
Alignment explanation
Indices: 72375909--72375939 Score: 55
Period size: 7 Copynumber: 4.6 Consensus size: 7
72375899 GTTTTTCATA
72375909 TTAA-TT
1 TTAATTT
72375915 TTAATTT
1 TTAATTT
72375922 TTAATTT
1 TTAATTT
72375929 TTAATTT
1 TTAATTT
72375936 TTAA
1 TTAA
72375940 ACTTATTTTG
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
6 4 0.17
7 20 0.83
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (7 bp):
TTAATTT
Found at i:72377110 original size:9 final size:9
Alignment explanation
Indices: 72377096--72377162 Score: 68
Period size: 9 Copynumber: 7.6 Consensus size: 9
72377086 ATATGTGATA
72377096 AAAAATTAT
1 AAAAATTAT
72377105 AAAAA-TA-
1 AAAAATTAT
*
72377112 AAAAATCAT
1 AAAAATTAT
72377121 AAAAA-TAT
1 AAAAATTAT
*
72377129 AAAAAATTGT
1 -AAAAATTAT
*
72377139 AAAATTTTAT
1 AAAA-ATTAT
72377149 AAAAATTAT
1 AAAAATTAT
72377158 AAAAA
1 AAAAA
72377163 GGCATAAAAA
Statistics
Matches: 47, Mismatches: 6, Indels: 10
0.75 0.10 0.16
Matches are distributed among these distances:
7 5 0.11
8 5 0.11
9 28 0.60
10 9 0.19
ACGTcount: A:0.69, C:0.01, G:0.01, T:0.28
Consensus pattern (9 bp):
AAAAATTAT
Found at i:72377135 original size:18 final size:16
Alignment explanation
Indices: 72377093--72377133 Score: 64
Period size: 16 Copynumber: 2.5 Consensus size: 16
72377083 TTGATATGTG
*
72377093 ATAAAAAATTATAAAA
1 ATAAAAAATCATAAAA
72377109 ATAAAAAATCATAAAA
1 ATAAAAAATCATAAAA
72377125 ATATAAAAA
1 ATA-AAAAA
72377134 ATTGTAAAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
16 18 0.78
17 5 0.22
ACGTcount: A:0.76, C:0.02, G:0.00, T:0.22
Consensus pattern (16 bp):
ATAAAAAATCATAAAA
Found at i:72384438 original size:14 final size:14
Alignment explanation
Indices: 72384419--72384450 Score: 64
Period size: 14 Copynumber: 2.3 Consensus size: 14
72384409 AAGGGTCCGA
72384419 AGAAAGATGAGTGT
1 AGAAAGATGAGTGT
72384433 AGAAAGATGAGTGT
1 AGAAAGATGAGTGT
72384447 AGAA
1 AGAA
72384451 TAAATTTTGG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.47, C:0.00, G:0.34, T:0.19
Consensus pattern (14 bp):
AGAAAGATGAGTGT
Found at i:72385929 original size:26 final size:28
Alignment explanation
Indices: 72385892--72385951 Score: 65
Period size: 26 Copynumber: 2.2 Consensus size: 28
72385882 AATATTTGTA
72385892 TTATAC-TATTTTAATAT-TTAATAA-TT
1 TTATACATATTTTAATATATTAA-AATTT
* *
72385918 TTATACAT-TTTTTATTTATTAAAATTT
1 TTATACATATTTTAATATATTAAAATTT
72385945 TTATACA
1 TTATACA
72385952 GTCATCCTAA
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
26 15 0.52
27 14 0.48
ACGTcount: A:0.37, C:0.05, G:0.00, T:0.58
Consensus pattern (28 bp):
TTATACATATTTTAATATATTAAAATTT
Found at i:72393040 original size:26 final size:24
Alignment explanation
Indices: 72393000--72393059 Score: 75
Period size: 26 Copynumber: 2.4 Consensus size: 24
72392990 TTATTTCATT
* * *
72393000 AAATAAAAAAATTTAAAAATATAA
1 AAATAAATATATTTAAAAACATAA
72393024 TAAATCAAATATATTTAAAAACATAA
1 -AAAT-AAATATATTTAAAAACATAA
72393050 AAATAAATAT
1 AAATAAATAT
72393060 TAAAACAAAT
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
24 6 0.19
25 8 0.26
26 17 0.55
ACGTcount: A:0.68, C:0.03, G:0.00, T:0.28
Consensus pattern (24 bp):
AAATAAATATATTTAAAAACATAA
Found at i:72393071 original size:22 final size:22
Alignment explanation
Indices: 72393030--72393088 Score: 70
Period size: 21 Copynumber: 2.8 Consensus size: 22
72393020 ATAATAAATC
* *
72393030 AAATATAT-TTAAAA-ACATAA
1 AAATAAATATTAAAACAAATAA
72393050 AAATAAATATTAAAACAAATAA
1 AAATAAATATTAAAACAAATAA
*
72393072 AAAT-AATACTAAAACAA
1 AAATAAATATTAAAACAA
72393089 TTCTTAAAAC
Statistics
Matches: 34, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
20 7 0.21
21 18 0.53
22 9 0.26
ACGTcount: A:0.69, C:0.07, G:0.00, T:0.24
Consensus pattern (22 bp):
AAATAAATATTAAAACAAATAA
Found at i:72393165 original size:15 final size:16
Alignment explanation
Indices: 72393135--72393167 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
72393125 AAATAGTTAT
72393135 ATTAAAAATTTAAAATA
1 ATTAAAAA-TTAAAATA
72393152 ATTAAAAA-TAAAATA
1 ATTAAAAATTAAAATA
72393167 A
1 A
72393168 AAATATATAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 8 0.50
17 8 0.50
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (16 bp):
ATTAAAAATTAAAATA
Found at i:72405504 original size:2 final size:2
Alignment explanation
Indices: 72405497--72405540 Score: 88
Period size: 2 Copynumber: 22.0 Consensus size: 2
72405487 TGCTTAATAC
72405497 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
72405539 TA
1 TA
72405541 CACATGAAGA
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 42 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:72407177 original size:20 final size:20
Alignment explanation
Indices: 72407152--72407191 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
72407142 ACATGGCTGA
*
72407152 TTTGATGCTTATGTGATCCC
1 TTTGATGCTTATATGATCCC
72407172 TTTGATGCTTATATGATCCC
1 TTTGATGCTTATATGATCCC
72407192 CTGCAAGATC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.17, C:0.20, G:0.17, T:0.45
Consensus pattern (20 bp):
TTTGATGCTTATATGATCCC
Found at i:72409932 original size:2 final size:2
Alignment explanation
Indices: 72409925--72409951 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
72409915 TATGAAAGGA
72409925 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
72409952 AAATATAGTT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:72412496 original size:2 final size:2
Alignment explanation
Indices: 72412489--72412526 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
72412479 CTCCAAAATT
72412489 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
72412527 CCAAAAAGAA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:72412923 original size:17 final size:17
Alignment explanation
Indices: 72412901--72412936 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
72412891 CACTTAATTT
*
72412901 ACATATATTACTGAAAC
1 ACATATATCACTGAAAC
*
72412918 ACATATATCACTGTAAC
1 ACATATATCACTGAAAC
72412935 AC
1 AC
72412937 TTTCATCACT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.44, C:0.22, G:0.06, T:0.28
Consensus pattern (17 bp):
ACATATATCACTGAAAC
Found at i:72412944 original size:17 final size:17
Alignment explanation
Indices: 72412924--72412961 Score: 58
Period size: 17 Copynumber: 2.2 Consensus size: 17
72412914 AAACACATAT
* *
72412924 ATCACTGTAACACTTTC
1 ATCACTATAACACTTGC
72412941 ATCACTATAACACTTGC
1 ATCACTATAACACTTGC
72412958 ATCA
1 ATCA
72412962 GTGAAGCACT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.34, C:0.29, G:0.05, T:0.32
Consensus pattern (17 bp):
ATCACTATAACACTTGC
Found at i:72414628 original size:43 final size:43
Alignment explanation
Indices: 72414569--72414707 Score: 181
Period size: 43 Copynumber: 3.2 Consensus size: 43
72414559 AAAATGCCAC
* * *
72414569 AAAGATCATGACTTTTAGCGGCGTTTGTGGGAAAAGCGCCGTTA
1 AAAG-TCATGGCTTTTAGCGGCATTTGTGGGAAAAGCGCCGCTA
* * *
72414613 AAAGTCATGGCTTTTAGCGGCATTTGTGGGATAAGCACCACTA
1 AAAGTCATGGCTTTTAGCGGCATTTGTGGGAAAAGCGCCGCTA
* *
72414656 AAAGTCTTGGCTTTTAACGGCATTTGTGGGATAAA-CGCCGCTA
1 AAAGTCATGGCTTTTAGCGGCATTTGTGGGA-AAAGCGCCGCTA
72414699 AAAGTCATG
1 AAAGTCATG
72414708 AGCGGCGCTT
Statistics
Matches: 82, Mismatches: 12, Indels: 3
0.85 0.12 0.03
Matches are distributed among these distances:
43 76 0.93
44 6 0.07
ACGTcount: A:0.28, C:0.17, G:0.27, T:0.28
Consensus pattern (43 bp):
AAAGTCATGGCTTTTAGCGGCATTTGTGGGAAAAGCGCCGCTA
Found at i:72417451 original size:15 final size:15
Alignment explanation
Indices: 72417427--72417460 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
72417417 AATTTTAATC
72417427 ATTTTTTTAAAT-TT
1 ATTTTTTTAAATATT
72417441 ATTTATTTTAAATATT
1 ATTT-TTTTAAATATT
72417457 ATTT
1 ATTT
72417461 GTTATTTATT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 4 0.22
15 8 0.44
16 6 0.33
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (15 bp):
ATTTTTTTAAATATT
Found at i:72417538 original size:7 final size:7
Alignment explanation
Indices: 72417521--72417597 Score: 56
Period size: 7 Copynumber: 11.4 Consensus size: 7
72417511 TATTTTCAAG
72417521 TATAT-T
1 TATATAT
72417527 TATATAT
1 TATATAT
72417534 TATATTAT
1 TATA-TAT
*
72417542 T-TATTAA
1 TATA-TAT
72417549 TATATAT
1 TATATAT
72417556 TAT-T-T
1 TATATAT
*
72417561 TATATTT
1 TATATAT
*
72417568 TA-AAAT
1 TATATAT
*
72417574 TATACAT
1 TATATAT
72417581 TATATAT
1 TATATAT
*
72417588 TACATAT
1 TATATAT
72417595 TAT
1 TAT
72417598 CATGTATAAT
Statistics
Matches: 57, Mismatches: 8, Indels: 11
0.75 0.11 0.14
Matches are distributed among these distances:
5 4 0.07
6 11 0.19
7 36 0.63
8 6 0.11
ACGTcount: A:0.40, C:0.03, G:0.00, T:0.57
Consensus pattern (7 bp):
TATATAT
Found at i:72417566 original size:20 final size:22
Alignment explanation
Indices: 72417527--72417594 Score: 68
Period size: 22 Copynumber: 3.1 Consensus size: 22
72417517 CAAGTATATT
*
72417527 TATATATTATATTATTTATTAA
1 TATATATTATATTATATATTAA
* *
72417549 TATATATTATTTTATATTTTAA
1 TATATATTATATTATATATTAA
* *
72417571 AAT-TA-TACATTATATATTACA
1 TATATATTATATTATATATTA-A
72417592 TAT
1 TAT
72417595 TATCATGTAT
Statistics
Matches: 37, Mismatches: 8, Indels: 3
0.77 0.17 0.06
Matches are distributed among these distances:
20 11 0.30
21 5 0.14
22 21 0.57
ACGTcount: A:0.41, C:0.03, G:0.00, T:0.56
Consensus pattern (22 bp):
TATATATTATATTATATATTAA
Found at i:72417729 original size:22 final size:22
Alignment explanation
Indices: 72417695--72417755 Score: 65
Period size: 22 Copynumber: 2.8 Consensus size: 22
72417685 ATTACATTAT
*
72417695 TTTATTCTT-TTATAT-TTTATA
1 TTTATT-TTATTATATATATATA
72417716 TGTTATTTTATTATATATATATA
1 T-TTATTTTATTATATATATATA
*
72417739 TTTATATTATTA-ATATA
1 TTTATTTTATTATATATA
72417756 GTATTACACT
Statistics
Matches: 35, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
21 8 0.23
22 21 0.60
23 6 0.17
ACGTcount: A:0.33, C:0.02, G:0.02, T:0.64
Consensus pattern (22 bp):
TTTATTTTATTATATATATATA
Found at i:72417734 original size:19 final size:19
Alignment explanation
Indices: 72417703--72417748 Score: 60
Period size: 17 Copynumber: 2.5 Consensus size: 19
72417693 ATTTTATTCT
* *
72417703 TTTATATTTTATATGT-TA
1 TTTATATTATATATATATA
72417721 TTT-TATTATATATATATA
1 TTTATATTATATATATATA
72417739 TTTATATTAT
1 TTTATATTAT
72417749 TAATATAGTA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
17 10 0.42
18 8 0.33
19 6 0.25
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.65
Consensus pattern (19 bp):
TTTATATTATATATATATA
Found at i:72417748 original size:27 final size:25
Alignment explanation
Indices: 72417690--72417749 Score: 66
Period size: 27 Copynumber: 2.2 Consensus size: 25
72417680 TTATCATTAC
* *
72417690 ATTATTTTATTCTTTTATATTTTAT
1 ATTATTTTATTATTATATATTTTAT
72417715 ATGTTATTTTATTATATATATATATTTAT
1 A--TTATTTTATTAT-TATATAT-TTTAT
72417744 ATTATT
1 ATTATT
72417750 AATATAGTAT
Statistics
Matches: 29, Mismatches: 2, Indels: 6
0.78 0.05 0.16
Matches are distributed among these distances:
25 1 0.03
27 16 0.55
28 6 0.21
29 6 0.21
ACGTcount: A:0.30, C:0.02, G:0.02, T:0.67
Consensus pattern (25 bp):
ATTATTTTATTATTATATATTTTAT
Found at i:72417754 original size:19 final size:19
Alignment explanation
Indices: 72417719--72417760 Score: 52
Period size: 19 Copynumber: 2.2 Consensus size: 19
72417709 TTTTATATGT
72417719 TATTTTATTATATATATA-
1 TATTTTATTATATATATAG
72417737 TATTTATATTAT-TAATATAG
1 TATTT-TATTATAT-ATATAG
72417757 TATT
1 TATT
72417761 ACACTATTAT
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
18 6 0.29
19 11 0.52
20 4 0.19
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.60
Consensus pattern (19 bp):
TATTTTATTATATATATAG
Found at i:72417812 original size:22 final size:23
Alignment explanation
Indices: 72417786--72417836 Score: 61
Period size: 22 Copynumber: 2.3 Consensus size: 23
72417776 TTATAAATTA
* *
72417786 TTATTAAGCAT-TA-TATTTATG
1 TTATTAAACATGTAGTATGTATG
72417807 TGTATTAAACATGTAGTATGTATG
1 T-TATTAAACATGTAGTATGTATG
72417831 TTATTA
1 TTATTA
72417837 TAAAGTTCTA
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
21 1 0.04
22 9 0.36
23 7 0.28
24 8 0.32
ACGTcount: A:0.33, C:0.04, G:0.14, T:0.49
Consensus pattern (23 bp):
TTATTAAACATGTAGTATGTATG
Found at i:72423341 original size:46 final size:44
Alignment explanation
Indices: 72423237--72423344 Score: 144
Period size: 44 Copynumber: 2.4 Consensus size: 44
72423227 TGTCTTTGAC
** * * *
72423237 ATGGACTTACATGAATTATTCCTGTCTCCAATGCCATATATAAT
1 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATATAAT
*
72423281 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATTTCTAAT
1 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATA--TATAAT
72423327 ATGGACTTACATGGCTCA
1 ATGGACTTACATGGCTCA
72423345 TTTCTGTTCT
Statistics
Matches: 56, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
44 33 0.59
46 23 0.41
ACGTcount: A:0.30, C:0.23, G:0.14, T:0.33
Consensus pattern (44 bp):
ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATATAAT
Found at i:72427792 original size:26 final size:26
Alignment explanation
Indices: 72427756--72427807 Score: 104
Period size: 26 Copynumber: 2.0 Consensus size: 26
72427746 GTCTATAGGA
72427756 ATTTTTCAGAGTAATTCTCGAAACAT
1 ATTTTTCAGAGTAATTCTCGAAACAT
72427782 ATTTTTCAGAGTAATTCTCGAAACAT
1 ATTTTTCAGAGTAATTCTCGAAACAT
72427808 TCTTGTTACT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.35, C:0.15, G:0.12, T:0.38
Consensus pattern (26 bp):
ATTTTTCAGAGTAATTCTCGAAACAT
Found at i:72432708 original size:94 final size:94
Alignment explanation
Indices: 72432538--72432729 Score: 269
Period size: 94 Copynumber: 2.1 Consensus size: 94
72432528 GAACAAATCG
* * * * * *
72432538 AAGA-AACAGATTTGGCATCTCCGTATTTGAAAGGGAGCAGATCGGAGACATAGTAGATCTGACA
1 AAGATAACAGATTTGGCATCTCCATATTCGAAAGAGAGCAGATCGAAGACATAGCAGATCTAACA
*
72432602 TTCGGATGTTTTCACATCGAAGCAGATCC
66 TTCGGATATTTTCACATCGAAGCAGATCC
* * * *
72432631 AAGATAACAGATTTGGCATCTCTATATTCGACAGAGAGTAGATCGAAGACATAGCAGATCTAACC
1 AAGATAACAGATTTGGCATCTCCATATTCGAAAGAGAGCAGATCGAAGACATAGCAGATCTAACA
*
72432696 TTCGGATATTTTCACATCGAAGTAGATCC
66 TTCGGATATTTTCACATCGAAGCAGATCC
72432725 AAGAT
1 AAGAT
72432730 GATTTGGCAT
Statistics
Matches: 86, Mismatches: 12, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
93 4 0.05
94 82 0.95
ACGTcount: A:0.34, C:0.18, G:0.22, T:0.26
Consensus pattern (94 bp):
AAGATAACAGATTTGGCATCTCCATATTCGAAAGAGAGCAGATCGAAGACATAGCAGATCTAACA
TTCGGATATTTTCACATCGAAGCAGATCC
Found at i:72432845 original size:86 final size:88
Alignment explanation
Indices: 72432572--72432854 Score: 238
Period size: 94 Copynumber: 3.2 Consensus size: 88
72432562 ATTTGAAAGG
* * * * * * *
72432572 GAGCAGATCGGAGACATAGTAGATCTGACATTCGGATGTTTTCACATCGAAGCAGATCCAAGATA
1 GAGCAGATCGAAGACATAGCAGATCTAACCTTCCGATATTTGCACATCGAAGCAGATCCAAGAT-
*
72432637 ACAGATTTGGCATCTCTATATTCGACAGA
65 ---GATTTGGCATCTCT-TATT-GTCAGA
* * * *
72432666 GAGTAGATCGAAGACATAGCAGATCTAACCTTCGGATATTTTCACATCGAAGTAGATCCAAGATG
1 GAGCAGATCGAAGACATAGCAGATCTAACCTTCCGATATTTGCACATCGAAGCAGATCCAAGATG
72432731 ATTTGGCATC-CTTACGTT-TACA-A
66 ATTTGGCATCTCTTA--TTGT-CAGA
* ** * * *
72432754 GGAGCAGATCGAAGACATAGCAGGT-TGGCTTTCACG-TGTTTGCGC-T-GAAGCAGATCCAAGA
1 -GAGCAGATCGAAGACATAGCAGATCTAACCTTC-CGATATTTGCACATCGAAGCAGATCCAAGA
72432815 TGATTTGGCATCTCTGTATTGTCAGA
64 TGATTTGGCATCTCT-TATTGTCAGA
*
72432841 GAGCAAATCGAAGA
1 GAGCAGATCGAAGA
72432855 AACTGATTTG
Statistics
Matches: 161, Mismatches: 19, Indels: 26
0.78 0.09 0.13
Matches are distributed among these distances:
86 43 0.27
87 5 0.03
88 16 0.10
89 27 0.17
90 13 0.08
94 57 0.35
ACGTcount: A:0.31, C:0.19, G:0.24, T:0.26
Consensus pattern (88 bp):
GAGCAGATCGAAGACATAGCAGATCTAACCTTCCGATATTTGCACATCGAAGCAGATCCAAGATG
ATTTGGCATCTCTTATTGTCAGA
Found at i:72432978 original size:133 final size:131
Alignment explanation
Indices: 72432759--72433132 Score: 311
Period size: 133 Copynumber: 2.8 Consensus size: 131
72432749 TACAAGGAGC
* **
72432759 AGATCGAAGACATAGCAGGTTGGCTTTCACGTGTTTGCGCTGAAGCAGATCCAAGATGATTTGGC
1 AGATCGAAGACATAGCAGATTAACTTTCACGTGTTTGCGCTGAAGCAGATCCAAGATGATTTGGC
* *
72432824 ATCTCTGTATTGTCAGAGAGCAAATCGAAGA-AACTGATTTGGCATCTCCATATTCGACGGAGAG
66 ATCTCTGCATTGTCAGAGAGCAAATCGAAGATAACAGATTTGGCATCTCCATATTCGACGGAGAG
72432888 A
131 A
**
72432889 AGATCGAAGACATAGCAGATCTAACTTTCA-GATGTTTTTGCATCGAAGCAGATCCAAGATGATT
1 AGATCGAAGACATAGCAGAT-TAACTTTCACG-TGTTTGCGC-T-GAAGCAGATCCAAGATGATT
* * * *** *
72432953 TGGCATC-CTTGCGTT-TACA-AGGAGCAGATCGAAGATAGCAGATTTGGCATCTTGGTATT-GT
62 TGGCATCTC-TGCATTGT-CAGA-GAGCAAATCGAAGATAACAGATTTGGCATCTCCATATTCGA
* *
72433014 CAGAGAGC
124 CGGAGAGA
** * * * * **
72433022 AGATCGAAG--ATAGCAGATTTGGC-GTCTC-TGTATTG-TCAGAGAGCAGATTGAAGATAGCAG
1 AGATCGAAGACATAGCAGA-TTAACTTTCACGTGT-TTGCGCTGA-AGCAGATCCAAGAT----G
* *
72433082 ATTTGGCATCTCTGTATTGTCAGAGAGCAAATCGGAGATAACAGATTTGGC
59 ATTTGGCATCTCTGCATTGTCAGAGAGCAAATCGAAGATAACAGATTTGGC
72433133 TTTCGTGAGT
Statistics
Matches: 195, Mismatches: 30, Indels: 36
0.75 0.11 0.14
Matches are distributed among these distances:
127 2 0.01
128 12 0.06
129 4 0.02
130 24 0.12
131 24 0.12
132 46 0.24
133 65 0.33
134 18 0.09
ACGTcount: A:0.30, C:0.17, G:0.26, T:0.27
Consensus pattern (131 bp):
AGATCGAAGACATAGCAGATTAACTTTCACGTGTTTGCGCTGAAGCAGATCCAAGATGATTTGGC
ATCTCTGCATTGTCAGAGAGCAAATCGAAGATAACAGATTTGGCATCTCCATATTCGACGGAGAG
A
Found at i:72433022 original size:44 final size:44
Alignment explanation
Indices: 72432974--72433132 Score: 257
Period size: 44 Copynumber: 3.6 Consensus size: 44
72432964 CGTTTACAAG
72432974 GAGCAGATCGAAGATAGCAGATTTGGCATCT-TGGTATTGTCAGA
1 GAGCAGATCGAAGATAGCAGATTTGGCATCTCT-GTATTGTCAGA
*
72433018 GAGCAGATCGAAGATAGCAGATTTGGCGTCTCTGTATTGTCAGA
1 GAGCAGATCGAAGATAGCAGATTTGGCATCTCTGTATTGTCAGA
*
72433062 GAGCAGATTGAAGATAGCAGATTTGGCATCTCTGTATTGTCAGA
1 GAGCAGATCGAAGATAGCAGATTTGGCATCTCTGTATTGTCAGA
* * *
72433106 GAGCAAATCGGAGATAACAGATTTGGC
1 GAGCAGATCGAAGATAGCAGATTTGGC
72433133 TTTCGTGAGT
Statistics
Matches: 107, Mismatches: 7, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
44 106 0.99
45 1 0.01
ACGTcount: A:0.30, C:0.14, G:0.29, T:0.26
Consensus pattern (44 bp):
GAGCAGATCGAAGATAGCAGATTTGGCATCTCTGTATTGTCAGA
Found at i:72434567 original size:15 final size:15
Alignment explanation
Indices: 72434543--72434576 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
72434533 AATTTTAATC
72434543 ATTTTTTTAAAT-TT
1 ATTTTTTTAAATATT
72434557 ATTTATTTTAAATATT
1 ATTT-TTTTAAATATT
72434573 ATTT
1 ATTT
72434577 GTTATTTTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 4 0.22
15 8 0.44
16 6 0.33
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (15 bp):
ATTTTTTTAAATATT
Found at i:72434655 original size:5 final size:5
Alignment explanation
Indices: 72434637--72434782 Score: 89
Period size: 5 Copynumber: 31.0 Consensus size: 5
72434627 TATTTTCAAG
* *
72434637 TATAT T-TA- TATAT TATAT TAT-T TAT-T AATA- TATAT TATTT TATAT
1 TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT
* * * * * *
72434682 TTTA- TATTAT TATA- TATAT TATAT TATCT TATGT TTTAA TATA- CAT-T
1 TATAT TA-TAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT
* * * *
72434729 ATATAT TATAT TATAT TATAT TATTT TATTT TATAT TTTAT CATA- TAT-T
1 -TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT
72434778 TATAT
1 TATAT
72434783 CTTATTACAT
Statistics
Matches: 109, Mismatches: 20, Indels: 24
0.71 0.13 0.16
Matches are distributed among these distances:
3 1 0.01
4 26 0.24
5 79 0.72
6 3 0.03
ACGTcount: A:0.36, C:0.02, G:0.01, T:0.62
Consensus pattern (5 bp):
TATAT
Found at i:72434672 original size:17 final size:17
Alignment explanation
Indices: 72434650--72434753 Score: 61
Period size: 17 Copynumber: 5.8 Consensus size: 17
72434640 ATTTATATAT
72434650 TATATTATTTATTAATA
1 TATATTATTTATTAATA
* *
72434667 TATATTATTT-TATATTT
1 TATATTATTTAT-TAATA
72434684 TATATTATTATATATATTATA
1 TATATTATT-TAT-TA--ATA
*
72434705 TTATCTTATGTT-TTAATA
1 -TATATTAT-TTATTAATA
* *
72434723 TACATTATATATT-ATA
1 TATATTATTTATTAATA
72434739 TTATATTATATTATT
1 -TATATTAT-TTATT
72434754 TTATTTTATA
Statistics
Matches: 67, Mismatches: 10, Indels: 19
0.70 0.10 0.20
Matches are distributed among these distances:
16 5 0.07
17 37 0.55
18 8 0.12
19 4 0.06
20 2 0.03
21 2 0.03
22 8 0.12
23 1 0.01
ACGTcount: A:0.37, C:0.02, G:0.01, T:0.61
Consensus pattern (17 bp):
TATATTATTTATTAATA
Found at i:72434680 original size:10 final size:10
Alignment explanation
Indices: 72434600--72434765 Score: 74
Period size: 10 Copynumber: 15.8 Consensus size: 10
72434590 CATATAAAAA
72434600 TTTAT-TTAT
1 TTTATATTAT
72434609 TTGTATATTAT
1 TT-TATATTAT
* *
72434620 TTTTTTTTAT
1 TTTATATTAT
72434630 TTTCA-AGTATAT
1 TTT-ATA-T-TAT
72434642 TTATATATTAT
1 TT-TATATTAT
*
72434653 ATTAT-TTAT
1 TTTATATTAT
72434662 TAATATATATTA-
1 T--T-TATATTAT
72434674 TTT-TA-TAT
1 TTTATATTAT
72434682 TTTATATTAT
1 TTTATATTAT
72434692 TATATATATTAT
1 T-T-TATATTAT
* *
72434704 ATTATCTTATGT
1 TTTATATTA--T
*
72434716 TTTAATATACAT
1 TTT-ATAT-TAT
*
72434728 TATATATTAT
1 TTTATATTAT
*
72434738 ATTATATTAT
1 TTTATATTAT
* *
72434748 ATTATTTTAT
1 TTTATATTAT
72434758 TTTATATT
1 TTTATATT
72434766 TTATCATATA
Statistics
Matches: 119, Mismatches: 18, Indels: 39
0.68 0.10 0.22
Matches are distributed among these distances:
7 2 0.02
8 5 0.04
9 9 0.08
10 51 0.43
11 18 0.15
12 25 0.21
13 8 0.07
14 1 0.01
ACGTcount: A:0.33, C:0.02, G:0.02, T:0.64
Consensus pattern (10 bp):
TTTATATTAT
Found at i:72434687 original size:34 final size:36
Alignment explanation
Indices: 72434641--72434750 Score: 124
Period size: 34 Copynumber: 3.2 Consensus size: 36
72434631 TTCAAGTATA
*
72434641 TTTATATATTATATTATTTATTA-ATA-TATATTAT
1 TTTATATTTTATATTATTTATTATATATTATATTAT
72434675 TTTATATTTTATATTA-TTA-TATATATTATATTAT
1 TTTATATTTTATATTATTTATTATATATTATATTAT
* * **
72434709 CTTATGTTTTA-A-TATACATTATATATTATATTAT
1 TTTATATTTTATATTATTTATTATATATTATATTAT
*
72434743 ATTATATT
1 TTTATATT
72434751 ATTTTATTTT
Statistics
Matches: 65, Mismatches: 7, Indels: 8
0.81 0.09 0.10
Matches are distributed among these distances:
32 4 0.06
33 8 0.12
34 53 0.82
ACGTcount: A:0.36, C:0.02, G:0.01, T:0.61
Consensus pattern (36 bp):
TTTATATTTTATATTATTTATTATATATTATATTAT
Found at i:72436669 original size:22 final size:22
Alignment explanation
Indices: 72436635--72436695 Score: 65
Period size: 22 Copynumber: 2.8 Consensus size: 22
72436625 ATTACATTAT
*
72436635 TTTATTCTT-TTATAT-TTTATA
1 TTTATT-TTATTATATATATATA
72436656 TGTTATTTTATTATATATATATA
1 T-TTATTTTATTATATATATATA
*
72436679 TTTATATTATTA-ATATA
1 TTTATTTTATTATATATA
72436696 GTATTACACT
Statistics
Matches: 35, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
21 8 0.23
22 21 0.60
23 6 0.17
ACGTcount: A:0.33, C:0.02, G:0.02, T:0.64
Consensus pattern (22 bp):
TTTATTTTATTATATATATATA
Found at i:72436674 original size:19 final size:19
Alignment explanation
Indices: 72436643--72436688 Score: 60
Period size: 17 Copynumber: 2.5 Consensus size: 19
72436633 ATTTTATTCT
* *
72436643 TTTATATTTTATATGT-TA
1 TTTATATTATATATATATA
72436661 TTT-TATTATATATATATA
1 TTTATATTATATATATATA
72436679 TTTATATTAT
1 TTTATATTAT
72436689 TAATATAGTA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
17 10 0.42
18 8 0.33
19 6 0.25
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.65
Consensus pattern (19 bp):
TTTATATTATATATATATA
Found at i:72436688 original size:27 final size:25
Alignment explanation
Indices: 72436630--72436689 Score: 66
Period size: 27 Copynumber: 2.2 Consensus size: 25
72436620 TTATCATTAC
* *
72436630 ATTATTTTATTCTTTTATATTTTAT
1 ATTATTTTATTATTATATATTTTAT
72436655 ATGTTATTTTATTATATATATATATTTAT
1 A--TTATTTTATTAT-TATATAT-TTTAT
72436684 ATTATT
1 ATTATT
72436690 AATATAGTAT
Statistics
Matches: 29, Mismatches: 2, Indels: 6
0.78 0.05 0.16
Matches are distributed among these distances:
25 1 0.03
27 16 0.55
28 6 0.21
29 6 0.21
ACGTcount: A:0.30, C:0.02, G:0.02, T:0.67
Consensus pattern (25 bp):
ATTATTTTATTATTATATATTTTAT
Found at i:72436694 original size:19 final size:19
Alignment explanation
Indices: 72436659--72436700 Score: 52
Period size: 19 Copynumber: 2.2 Consensus size: 19
72436649 TTTTATATGT
72436659 TATTTTATTATATATATA-
1 TATTTTATTATATATATAG
72436677 TATTTATATTAT-TAATATAG
1 TATTT-TATTATAT-ATATAG
72436697 TATT
1 TATT
72436701 ACACTATTAT
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
18 6 0.29
19 11 0.52
20 4 0.19
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.60
Consensus pattern (19 bp):
TATTTTATTATATATATAG
Found at i:72436752 original size:22 final size:23
Alignment explanation
Indices: 72436726--72436776 Score: 61
Period size: 22 Copynumber: 2.3 Consensus size: 23
72436716 TTATAAATTA
* *
72436726 TTATTAAGCAT-TA-TATTTATG
1 TTATTAAACATGTAGTATGTATG
72436747 TGTATTAAACATGTAGTATGTATG
1 T-TATTAAACATGTAGTATGTATG
72436771 TTATTA
1 TTATTA
72436777 TAAAGTTCTA
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
21 1 0.04
22 9 0.36
23 7 0.28
24 8 0.32
ACGTcount: A:0.33, C:0.04, G:0.14, T:0.49
Consensus pattern (23 bp):
TTATTAAACATGTAGTATGTATG
Found at i:72441398 original size:49 final size:49
Alignment explanation
Indices: 72441342--72441440 Score: 198
Period size: 49 Copynumber: 2.0 Consensus size: 49
72441332 TAATAAGAGG
72441342 AACTGTTGGTAAATATTGTAGAGAGAAGAAATGAAGATGTTATAAACTT
1 AACTGTTGGTAAATATTGTAGAGAGAAGAAATGAAGATGTTATAAACTT
72441391 AACTGTTGGTAAATATTGTAGAGAGAAGAAATGAAGATGTTATAAACTT
1 AACTGTTGGTAAATATTGTAGAGAGAAGAAATGAAGATGTTATAAACTT
72441440 A
1 A
72441441 GTTATCAACA
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
49 50 1.00
ACGTcount: A:0.43, C:0.04, G:0.22, T:0.30
Consensus pattern (49 bp):
AACTGTTGGTAAATATTGTAGAGAGAAGAAATGAAGATGTTATAAACTT
Done.