Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A01
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: 104050246
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 4660000 characters in sequence are not A, C, G, or T
File 22 of 316
Found at i:6491243 original size:28 final size:26
Alignment explanation
Indices: 6491211--6491290 Score: 106
Period size: 27 Copynumber: 3.0 Consensus size: 26
6491201 TTTCTTGGTT
6491211 TTTTTTTTGGGGTTAGGTTTTTCTTTTC
1 TTTTTTTT-GGGTTAGGTTTTT-TTTTC
*
6491239 TTTTTTTTGGGTTAGGTTTTTTCTTC
1 TTTTTTTTGGGTTAGGTTTTTTTTTC
**
6491265 TTTTTTTTTTAGTTAGGTTTTTTTTT
1 -TTTTTTTTGGGTTAGGTTTTTTTTT
6491291 GGGGAGGGCT
Statistics
Matches: 47, Mismatches: 4, Indels: 3
0.87 0.07 0.06
Matches are distributed among these distances:
26 4 0.09
27 35 0.74
28 8 0.17
ACGTcount: A:0.05, C:0.05, G:0.17, T:0.72
Consensus pattern (26 bp):
TTTTTTTTGGGTTAGGTTTTTTTTTC
Found at i:6492050 original size:88 final size:83
Alignment explanation
Indices: 6491947--6493536 Score: 549
Period size: 88 Copynumber: 19.0 Consensus size: 83
6491937 AACAGACATT
** * *
6491947 AAAAACAGAAATTGAAAATAGCTCAGCGTGTGAGCCAAGGCTCAACTCACCTCTCGCAATATGAG
1 AAAAACAGATTTTGAAAATACCTCAGCATGTGA-CCAAGGCTCAACTCACCTCTCGCAATATGAG
6492012 TTGATTTTTTGAAACTTAACTTG
65 TTGATTTTTTGAAA---AAC-TG
* ** ** *
6492035 AAAAGCAGATTTTGAAAATACCTCAATATGTGACTGGAGGTTCAACTCACCTCTCGCAATATGAG
1 AAAAACAGATTTTGAAAATACCTCAGCATGTGAC-CAAGGCTCAACTCACCTCTCGCAATATGAG
*
6492100 TTGA-TTTTTGAAAAACAG
65 TTGATTTTTTGAAAAACTG
* * * * * * *
6492118 AAATTAAAAGA-CTT--AACTCAACTCTC-GCA-GAAATTA-AAAAGCTCAACTCACCTCTAGCA
1 AAA--AACAGATTTTGAAAAT--AC-CTCAGCATG---TGACCAAGGCTCAACTCACCTCTCGCA
6492177 ATATGAGTTGAATTTTTTTGAAAAA---
58 ATATGAGTTG-A-TTTTTTGAAAAACTG
** * * *
6492202 AAAAACAGAAATTGAAAATAGCTCAGCACGTGAGCCAAGGCTCAACTCACTTCTCGCAATATGAG
1 AAAAACAGATTTTGAAAATACCTCAGCATGTGA-CCAAGGCTCAACTCACCTCTCGCAATATGAG
*
6492267 TTGA-TTTTTGAAAACAGATTTTG
65 TTGATTTTTTG-AAA-A-A--CTG
* * *
6492290 AAAAACAGATTTTGAAAATACCTC-GACATGTGACCCGAGGCTCAACTCACATCTCGCAATGTGA
1 AAAAACAGATTTTGAAAATACCTCAG-CATGTGA-CCAAGGCTCAACTCACCTCTCGCAATATGA
6492354 GTTGATTTTTTTGAAAAA-T-
64 GTTGA-TTTTTTGAAAAACTG
* *** ** *
6492373 --ATA-A-ATTGAAAAAATACCTCAGTGTGTGATCTGAA-GCTCAACTCACCTCTCGCAATATGA
1 AAAAACAGATTTTGAAAATACCTCAGCATGTGA-C-CAAGGCTCAACTCACCTCTCGCAATATGA
6492433 GTTGATTTTTT-------TG
64 GTTGATTTTTTGAAAAACTG
* ** * ** *
6492446 AAAGACAGAAATTGAAAATAGCTCAGCGCGTGAGCCAAGGCTCAACTCACCTCTCGCAATATAAG
1 AAAAACAGATTTTGAAAATACCTCAGCATGTGA-CCAAGGCTCAACTCACCTCTCGCAATATGAG
6492511 TTGATTTTTTG-AAAAC--
65 TTGATTTTTTGAAAAACTG
* * * ** **
6492527 --AGA-A-A--TTGAAAATACCTCA--ACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAG
1 AAAAACAGATTTTGAAAATACCTCAGCATGTGAC-CAAGGCTCAACTCACCTCTCGCAATATGAG
* *
6492584 TTGA-ATTTTGAAAACAGAAATTG
65 TTGATTTTTTG---A-A-AAACTG
** ** ** *
6492607 AAAAATGGAAATTGAAAATACCTCAGCATGTGATCTGAGGCTCAACTCAACTCTCGCAATATGAG
1 AAAAACAGATTTTGAAAATACCTCAGCATGTGA-CCAAGGCTCAACTCACCTCTCGCAATATGAG
6492672 TTGA-TTTTTGAAAAA-T-
65 TTGATTTTTTGAAAAACTG
* ** **** ** *
6492688 ATAAATTGAAGTAAAAAAAAATACCTCAGTGTGTGATCTGAA-GCTCAACTCACCTCTCGCAATA
1 AAAAACAG-A-T-TTTGAAAATACCTCAGCATGTGA-C-CAAGGCTCAACTCACCTCTCGCAATA
*
6492752 TGAGTTGATTTTTTTGAAAGACAGAAATTG
61 TGAGTTGA-TTTTTT----GA-A-AAACTG
* ** * * **
6492782 AAAAACGGAAATTGAAAATACCTCGGCGTGTGATCTGAGGCTCAACTCACCTCTCGCAATATGAG
1 AAAAACAGATTTTGAAAATACCTCAGCATGTGA-CCAAGGCTCAACTCACCTCTCGCAATATGAG
6492847 TTGATTTTTT-------TG
65 TTGATTTTTTGAAAAACTG
* ** * **
6492859 AAAGACAGAAATTGAAAATAGCTCAGCGCGTGAGCCAAGGCTCAACTCACCTCTCGCAATATGAG
1 AAAAACAGATTTTGAAAATACCTCAGCATGTGA-CCAAGGCTCAACTCACCTCTCGCAATATGAG
* * *
6492924 TCGATTTTTTTTTAAAGGTAGAAATTG
65 TTGA---TTTTTT----G-AAAAACTG
* ** * * * * * *
6492951 AAAAACGGAAATTGAAAATACCTCGGCGTGTGACCTGAGGCTCAACTCGCCGCTCGCAATAGGAG
1 AAAAACAGATTTTGAAAATACCTCAGCATGTGACC-AAGGCTCAACTCACCTCTCGCAATATGAG
6493016 TTGACTTTTTTG----AC--
65 TTGA-TTTTTTGAAAAACTG
** * * * *
6493030 ---AACAGAAATTGAAATTACCTCAGC--GTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAT
1 AAAAACAGATTTTGAAAATACCTCAGCATGTGACC-AAGGCTCAACTCACCTCTCGCAATATGAG
*
6493090 TTGATTTTTTTGAAAGGCAGAAATTG
65 TTGA-TTTTTTG--A---A-AAACTG
* ** * * * * * *
6493116 AAAAACGGAAATTGAAAATACCTCGGCGTGTGACCTGAGGCTCAACTCGCCACTCGCAATACGAG
1 AAAAACAGATTTTGAAAATACCTCAGCATGTGACC-AAGGCTCAACTCACCTCTCGCAATATGAG
6493181 TTGATTTTTT-------TG
65 TTGATTTTTTGAAAAACTG
* ** * * * *
6493193 -ACAACAGAAATTGAAATTACCTTAGC--GTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAG
1 AAAAACAGATTTTGAAAATACCTCAGCATGTGACC-AAGGCTCAACTCACCTCTCGCAATATGAG
*
6493255 TTGATTTTTTTTGAAAGAGAGAAATTG
65 TTGA--TTTTTT----GA-A-AAACTG
* ** * * * * *
6493282 AAAAACGGAAATTGAAAATACCTCGGCGTGTGACCTGAGGCTCAACTCGCCTCTCGCAATACGAG
1 AAAAACAGATTTTGAAAATACCTCAGCATGTGACC-AAGGCTCAACTCACCTCTCGCAATATGAG
* * *
6493347 TTGATTCTTTCAAAAACATAATA
65 TTGATTTTTTGAAAAAC----TG
** * * *
6493370 ATGAAAACAGAAATTGAAAATACCTCGGC--GTGACCTGAGGCTTAACTCACCTCTCGCAATATG
1 A--AAAACAGATTTTGAAAATACCTCAGCATGTGACC-AAGGCTCAACTCACCTCTCGCAATATG
* * * *
6493433 AGCTGATTCTTTCAAAAACATAAT
63 AGTTGATTTTTTGAAAAAC-T--G
** * *
6493457 AATGAAGACAGAAATTGAAAATACCTCGGC--GTGACCTGAGGCTCAACTCACCTCTCGCAATAT
1 AA--AA-ACAGATTTTGAAAATACCTCAGCATGTGACC-AAGGCTCAACTCACCTCTCGCAATAT
*
6493520 GAGTTGA-ATTTTGAAAA
62 GAGTTGATTTTTTGAAAA
6493537 CAGAAATTGA
Statistics
Matches: 1190, Mismatches: 173, Indels: 279
0.72 0.11 0.17
Matches are distributed among these distances:
72 7 0.01
73 33 0.03
74 78 0.07
75 15 0.01
76 51 0.04
77 119 0.10
78 10 0.01
79 50 0.04
80 15 0.01
81 14 0.01
82 17 0.01
83 44 0.04
84 96 0.08
85 17 0.01
86 23 0.02
87 33 0.03
88 270 0.23
89 27 0.02
90 78 0.07
91 88 0.07
92 98 0.08
93 2 0.00
94 5 0.00
ACGTcount: A:0.35, C:0.19, G:0.18, T:0.28
Consensus pattern (83 bp):
AAAAACAGATTTTGAAAATACCTCAGCATGTGACCAAGGCTCAACTCACCTCTCGCAATATGAGT
TGATTTTTTGAAAAACTG
Found at i:6492166 original size:30 final size:30
Alignment explanation
Indices: 6492115--6492172 Score: 82
Period size: 30 Copynumber: 1.9 Consensus size: 30
6492105 TTTTGAAAAA
*
6492115 CAGAAATTAAAAGACTTAACTCAACTCTCG
1 CAGAAATTAAAAGACTCAACTCAACTCTCG
*
6492145 CAGAAATTAAAA-AGCTCAACTCACCTCT
1 CAGAAATTAAAAGA-CTCAACTCAACTCT
6492173 AGCAATATGA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
29 1 0.04
30 24 0.96
ACGTcount: A:0.43, C:0.26, G:0.09, T:0.22
Consensus pattern (30 bp):
CAGAAATTAAAAGACTCAACTCAACTCTCG
Found at i:6492290 original size:13 final size:13
Alignment explanation
Indices: 6492272--6492307 Score: 63
Period size: 14 Copynumber: 2.7 Consensus size: 13
6492262 ATGAGTTGAT
6492272 TTTTGAAAACAGA
1 TTTTGAAAACAGA
6492285 TTTTGAAAAACAGA
1 TTTTG-AAAACAGA
6492299 TTTTGAAAA
1 TTTTGAAAA
6492308 TACCTCGACA
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
13 9 0.41
14 13 0.59
ACGTcount: A:0.47, C:0.06, G:0.14, T:0.33
Consensus pattern (13 bp):
TTTTGAAAACAGA
Found at i:6492495 original size:77 final size:75
Alignment explanation
Indices: 6492327--6492610 Score: 326
Period size: 77 Copynumber: 3.7 Consensus size: 75
6492317 ATGTGACCCG
* * * *
6492327 AGGCTCAACTCACATCTCGCAATGTGAGTTGATTTTTTTGAAAAATATAAATTGAAAAAATACCT
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTTG-AAAACAGAAATTG--AAAATACCT
* *
6492392 CAGTGTGTGATCTGA
62 CAG-GCGTGATCTCA
*
6492407 A-GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAGACAGAAATTGAAAATAGCTCA
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTTGAAA-ACAGAAATTGAAAATACCTCA
*
6492471 GCGCGTGAGC-CA
64 G-GCGTGATCTCA
* *
6492483 AGGCTCAACTCACCTCTCGCAATATAAGTTGATTTTTTGAAAACAGAAATTGAAAATACCTCA-A
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAACAGAAATTGAAAATACCTCAGG
**
6492547 CGTG-TCTTG
66 CGTGATCTCA
** *
6492556 AGGCTCAACTCATTTCTCGCAATATGAGTTGA-ATTTTGAAAACAGAAATTGAAAA
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAACAGAAATTGAAAA
6492611 ATGGAAATTG
Statistics
Matches: 182, Mismatches: 19, Indels: 14
0.85 0.09 0.07
Matches are distributed among these distances:
72 23 0.13
73 33 0.18
75 20 0.11
76 12 0.07
77 46 0.25
78 3 0.02
79 44 0.24
80 1 0.01
ACGTcount: A:0.35, C:0.18, G:0.17, T:0.30
Consensus pattern (75 bp):
AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAACAGAAATTGAAAATACCTCAGG
CGTGATCTCA
Found at i:6492612 original size:73 final size:73
Alignment explanation
Indices: 6492326--6492610 Score: 313
Period size: 79 Copynumber: 3.8 Consensus size: 73
6492316 CATGTGACCC
* * * *
6492326 GAGGCTCAACTCACATCTCGCAATGTGAGTTGATTTTTTTGAAAAATATAAATTGAAAAAATACC
1 GAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTTG-AAAACAGAAATTG--AAAATACC
* *
6492391 TCAGTGTGTGATCT
62 TCAGCGTGT-CT-T
* *
6492405 GAAGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAGACAGAAATTGAAAATAGCTC
1 GAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTTGAAA-ACAGAAATTGAAAATACCTC
* *
6492470 AGCGCGTGAGC-C
64 A--GCGTG-TCTT
* * *
6492482 AAGGCTCAACTCACCTCTCGCAATATAAGTTGATTTTTTGAAAACAGAAATTGAAAATACCTCAA
1 GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAACAGAAATTGAAAATACCTCAG
6492547 CGTGTCTT
66 CGTGTCTT
** *
6492555 GAGGCTCAACTCATTTCTCGCAATATGAGTTGA-ATTTTGAAAACAGAAATTGAAAA
1 GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAACAGAAATTGAAAA
6492611 ATGGAAATTG
Statistics
Matches: 179, Mismatches: 22, Indels: 17
0.82 0.10 0.08
Matches are distributed among these distances:
72 23 0.13
73 33 0.18
75 20 0.11
76 10 0.06
77 40 0.22
78 3 0.02
79 50 0.28
ACGTcount: A:0.35, C:0.18, G:0.18, T:0.29
Consensus pattern (73 bp):
GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAACAGAAATTGAAAATACCTCAG
CGTGTCTT
Found at i:6492762 original size:84 final size:85
Alignment explanation
Indices: 6492519--6493548 Score: 721
Period size: 88 Copynumber: 12.1 Consensus size: 85
6492509 AGTTGATTTT
* * **
6492519 TTGAAAACAGAAATTGAAAATACCTCAACGTGT-CT-TGAGGCTCAACTCATTTCTCGCAATATG
1 TTGAAAA-AGAAA-T-AAAATACCTCAGCGTGTGATCTGAGGCTCAACTCACCTCTCGCAATATG
*
6492582 AGTTGAATTTTG-AAAACAGAAA
63 AGTTGATTTTTGAAAAACAGAAA
* *
6492604 TTGAAAAATGGAAATTGAAAATACCTCAGCATGTGATCTGAGGCTCAACTCAACTCTCGCAATAT
1 TTGAAAAA--GAAA-T-AAAATACCTCAGCGTGTGATCTGAGGCTCAACTCACCTCTCGCAATAT
* *
6492669 GAGTTGATTTTTGAAAAATATAAA
62 GAGTTGATTTTTGAAAAACAGAAA
* * *
6492693 TTGAAGTAA-AAA-AAAATACCTCAGTGTGTGATCTGAAGCTCAACTCACCTCTCGCAATATGAG
1 TTGAA-AAAGAAATAAAATACCTCAGCGTGTGATCTGAGGCTCAACTCACCTCTCGCAATATGAG
*
6492756 TTGATTTTTTTGAAAGACAGAAA
65 TTGA--TTTTTGAAAAACAGAAA
*
6492779 TTGAAAAACGGAAATTGAAAATACCTCGGCGTGTGATCTGAGGCTCAACTCACCTCTCGCAATAT
1 TTGAAAAA--GAAA-T-AAAATACCTCAGCGTGTGATCTGAGGCTCAACTCACCTCTCGCAATAT
*
6492844 GAGTTGATTTTTTTGAAAGACAGAAA
62 GAGTTGA--TTTTTGAAAAACAGAAA
* * * **
6492870 TT------G----AAAATAGCTCAGCGCGTGAGCCAAGGCTCAACTCACCTCTCGCAATATGAGT
1 TTGAAAAAGAAATAAAATACCTCAGCGTGTGATCTGAGGCTCAACTCACCTCTCGCAATATGAGT
* * ***
6492925 CGATTTTTTTTTAAAGGTAGAAA
66 TGA---TTTTTGAAAAACAGAAA
* * * * *
6492948 TTGAAAAACGGAAATTGAAAATACCTCGGCGTGTGACCTGAGGCTCAACTCGCCGCTCGCAATAG
1 TTGAAAAA--GAAA-T-AAAATACCTCAGCGTGTGATCTGAGGCTCAACTCACCTCTCGCAATAT
*
6493013 GAGTTGACTTTTTTG-ACAACAGAAA
62 GAGTTGA--TTTTTGAAAAACAGAAA
* *
6493038 TT------GAAAT----TACCTCAGCGTGT--CCTGAGGCTCAACTCACCTCTCGCAATATGATT
1 TTGAAAAAGAAATAAAATACCTCAGCGTGTGATCTGAGGCTCAACTCACCTCTCGCAATATGAGT
**
6493091 TGATTTTTTTGAAAGGCAGAAA
66 TGA--TTTTTGAAAAACAGAAA
* * * * *
6493113 TTGAAAAACGGAAATTGAAAATACCTCGGCGTGTGACCTGAGGCTCAACTCGCCACTCGCAATAC
1 TTGAAAAA--GAAA-T-AAAATACCTCAGCGTGTGATCTGAGGCTCAACTCACCTCTCGCAATAT
*
6493178 GAGTTGATTTTTTTG-ACAACAGAAA
62 GAGTTGA--TTTTTGAAAAACAGAAA
* *
6493203 TT------GAAAT----TACCTTAGCGTGT--CCTGAGGCTCAACTCACCTCTCGCAATATGAGT
1 TTGAAAAAGAAATAAAATACCTCAGCGTGTGATCTGAGGCTCAACTCACCTCTCGCAATATGAGT
* *
6493256 TGATTTTTTTTGAAAGAGAGAAA
66 TGA---TTTTTGAAAAACAGAAA
* * * *
6493279 TTGAAAAACGGAAATTGAAAATACCTCGGCGTGTGACCTGAGGCTCAACTCGCCTCTCGCAATAC
1 TTGAAAAA--GAAA-T-AAAATACCTCAGCGTGTGATCTGAGGCTCAACTCACCTCTCGCAATAT
* *
6493344 GAGTTGATTCTTTCAAAAACATAATA
62 GAGTTGATT-TTTGAAAAACAGAA-A
* * * *
6493370 ATGAAAACAGAAATTGAAAATACCTC-G-GCGTGACCTGAGGCTTAACTCACCTCTCGCAATATG
1 TTGAAAA-AGAAA-T-AAAATACCTCAGCGTGTGATCTGAGGCTCAACTCACCTCTCGCAATATG
* * *
6493433 AGCTGATTCTTTCAAAAACATAATA
63 AGTTGATT-TTTGAAAAACAGAA-A
* * * *
6493458 ATGAAGACAGAAATTGAAAATACCTC-G-GCGTGACCTGAGGCTCAACTCACCTCTCGCAATATG
1 TTGAA-AAAGAAA-T-AAAATACCTCAGCGTGTGATCTGAGGCTCAACTCACCTCTCGCAATATG
*
6493521 AGTTGAATTTTG-AAAACAGAAA
63 AGTTGATTTTTGAAAAACAGAAA
6493543 TTGAAA
1 TTGAAA
6493549 TTACCTCAGC
Statistics
Matches: 785, Mismatches: 92, Indels: 137
0.77 0.09 0.14
Matches are distributed among these distances:
74 72 0.09
75 17 0.02
76 32 0.04
77 48 0.06
78 18 0.02
81 2 0.00
82 8 0.01
83 5 0.01
84 58 0.07
85 15 0.02
86 50 0.06
87 7 0.01
88 161 0.21
89 29 0.04
90 57 0.07
91 126 0.16
92 80 0.10
ACGTcount: A:0.35, C:0.19, G:0.19, T:0.27
Consensus pattern (85 bp):
TTGAAAAAGAAATAAAATACCTCAGCGTGTGATCTGAGGCTCAACTCACCTCTCGCAATATGAGT
TGATTTTTGAAAAACAGAAA
Found at i:6492784 original size:14 final size:14
Alignment explanation
Indices: 6492765--6492799 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 14
6492755 GTTGATTTTT
*
6492765 TTGAAAGACAGAAA
1 TTGAAAAACAGAAA
*
6492779 TTGAAAAACGGAAA
1 TTGAAAAACAGAAA
6492793 TTGAAAA
1 TTGAAAA
6492800 TACCTCGGCG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.57, C:0.06, G:0.20, T:0.17
Consensus pattern (14 bp):
TTGAAAAACAGAAA
Found at i:6492826 original size:91 final size:89
Alignment explanation
Indices: 6492522--6492876 Score: 458
Period size: 91 Copynumber: 4.0 Consensus size: 89
6492512 TGATTTTTTG
* * * **
6492522 AAAACAGAAATTGAAAATACCTCAACGTGT-CT-TGAGGCTCAACTCATTTCTCGCAATATGAGT
1 AAAACGGAAATTGAAAATACCTCAGCGTGTGATCTGAGGCTCAACTCACCTCTCGCAATATGAGT
*
6492585 TGAATTTTGAAA-ACAGAAATTGA
66 TGATTTTTGAAAGACAGAAATTGA
* * *
6492608 AAAATGGAAATTGAAAATACCTCAGCATGTGATCTGAGGCTCAACTCAACTCTCGCAATATGAGT
1 AAAACGGAAATTGAAAATACCTCAGCGTGTGATCTGAGGCTCAACTCACCTCTCGCAATATGAGT
* * *
6492673 TGATTTTTGAAAAATATAAATTGA
66 TGATTTTTGAAAGACAGAAATTGA
* * *
6492697 AGTAA---AAA---AAAATACCTCAGTGTGTGATCTGAAGCTCAACTCACCTCTCGCAATATGAG
1 A-AAACGGAAATTGAAAATACCTCAGCGTGTGATCTGAGGCTCAACTCACCTCTCGCAATATGAG
6492756 TTGATTTTTTTGAAAGACAGAAATTGA
65 TTGA--TTTTTGAAAGACAGAAATTGA
*
6492783 AAAACGGAAATTGAAAATACCTCGGCGTGTGATCTGAGGCTCAACTCACCTCTCGCAATATGAGT
1 AAAACGGAAATTGAAAATACCTCAGCGTGTGATCTGAGGCTCAACTCACCTCTCGCAATATGAGT
6492848 TGATTTTTTTGAAAGACAGAAATTGA
66 TGA--TTTTTGAAAGACAGAAATTGA
6492874 AAA
1 AAA
6492877 TAGCTCAGCG
Statistics
Matches: 235, Mismatches: 22, Indels: 19
0.85 0.08 0.07
Matches are distributed among these distances:
84 51 0.22
85 2 0.01
86 45 0.19
87 4 0.02
88 43 0.18
89 10 0.04
90 2 0.01
91 78 0.33
ACGTcount: A:0.38, C:0.16, G:0.18, T:0.28
Consensus pattern (89 bp):
AAAACGGAAATTGAAAATACCTCAGCGTGTGATCTGAGGCTCAACTCACCTCTCGCAATATGAGT
TGATTTTTGAAAGACAGAAATTGA
Found at i:6492906 original size:77 final size:78
Alignment explanation
Indices: 6492779--6492954 Score: 237
Period size: 77 Copynumber: 2.3 Consensus size: 78
6492769 AAGACAGAAA
* * * * * **
6492779 TTGAAAAACGGAAATTGAAAATACCTCGGCGTGTGATCTGAGGCTCAACTCACCTCTCGCAATAT
1 TTGAAAGACAGAAATTGAAAATACCTCAGCGCGTGAGCCAAGGCTCAACTCACCTCTCGCAATAT
*
6492844 GAGTTGA-TTTTT
66 GAGTCGATTTTTT
*
6492856 TTGAAAGACAGAAATTGAAAATAGCTCAGCGCGTGAGCCAAGGCTCAACTCACCTCTCGCAATAT
1 TTGAAAGACAGAAATTGAAAATACCTCAGCGCGTGAGCCAAGGCTCAACTCACCTCTCGCAATAT
6492921 GAGTCGATTTTTT
66 GAGTCGATTTTTT
* **
6492934 TTTAAAGGTAGAAATTGAAAA
1 TTGAAAGACAGAAATTGAAAA
6492955 ACGGAAATTG
Statistics
Matches: 86, Mismatches: 12, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
77 63 0.73
78 23 0.27
ACGTcount: A:0.34, C:0.18, G:0.20, T:0.28
Consensus pattern (78 bp):
TTGAAAGACAGAAATTGAAAATACCTCAGCGCGTGAGCCAAGGCTCAACTCACCTCTCGCAATAT
GAGTCGATTTTTT
Found at i:6493025 original size:92 final size:92
Alignment explanation
Indices: 6492856--6493026 Score: 227
Period size: 92 Copynumber: 1.9 Consensus size: 92
6492846 GTTGATTTTT
* * * *
6492856 TTGAAAGACAGAAATTGAAAATAGCTCAGCGCGTGAGCCAAGGCTCAACTCACCTCTCGCAATAT
1 TTGAAAAACAGAAATTGAAAATACCTCAGCGCGTGAGCCAAGGCTCAACTCACCGCTCGCAATAG
*
6492921 GAGTCGATTTTTTTTTAAAGGTAGAAA
66 GAGTCGACTTTTTTTTAAAGGTAGAAA
* * * * *
6492948 TTGAAAAACGGAAATTGAAAATACCTCGGCGTGTGA-CCTGAGGCTCAACTCGCCGCTCGCAATA
1 TTGAAAAACAGAAATTGAAAATACCTCAGCGCGTGAGCC-AAGGCTCAACTCACCGCTCGCAATA
*
6493012 GGAGTTGACTTTTTT
65 GGAGTCGACTTTTTT
6493027 GACAACAGAA
Statistics
Matches: 67, Mismatches: 11, Indels: 2
0.84 0.14 0.03
Matches are distributed among these distances:
91 2 0.03
92 65 0.97
ACGTcount: A:0.32, C:0.20, G:0.22, T:0.26
Consensus pattern (92 bp):
TTGAAAAACAGAAATTGAAAATACCTCAGCGCGTGAGCCAAGGCTCAACTCACCGCTCGCAATAG
GAGTCGACTTTTTTTTAAAGGTAGAAA
Found at i:6493083 original size:74 final size:75
Alignment explanation
Indices: 6492958--6493119 Score: 220
Period size: 74 Copynumber: 2.1 Consensus size: 75
6492948 TTGAAAAACG
* *
6492958 GAAATTGAAAATACCTCGGCGTGTGACCTGAGGCTCAACTCGCCGCTCGCAATAGGAGTTGACTT
1 GAAATTGAAAATACCTCAGCGTGT-ACCTGAGGCTCAACTCACCGCTCGCAATAGGAGTTGACTT
6493023 TTTTGACAA-CA
65 TTTTGA-AAGCA
* * * * *
6493034 GAAATTGAAATTACCTCAGCGTGT-CCTGAGGCTCAACTCACCTCTCGCAATATGATTTGATTTT
1 GAAATTGAAAATACCTCAGCGTGTACCTGAGGCTCAACTCACCGCTCGCAATAGGAGTTGACTTT
6493098 TTTGAAAGGCA
66 TTTGAAA-GCA
6493109 GAAATTGAAAA
1 GAAATTGAAAA
6493120 ACGGAAATTG
Statistics
Matches: 76, Mismatches: 8, Indels: 5
0.85 0.09 0.06
Matches are distributed among these distances:
73 2 0.03
74 40 0.53
75 12 0.16
76 22 0.29
ACGTcount: A:0.30, C:0.21, G:0.21, T:0.28
Consensus pattern (75 bp):
GAAATTGAAAATACCTCAGCGTGTACCTGAGGCTCAACTCACCGCTCGCAATAGGAGTTGACTTT
TTTGAAAGCA
Found at i:6493247 original size:74 final size:77
Alignment explanation
Indices: 6493113--6493285 Score: 226
Period size: 76 Copynumber: 2.3 Consensus size: 77
6493103 AAGGCAGAAA
* * * *
6493113 TTGAAAAACGGAAATTGAAAATACCTCGGCGTGTGACCTGAGGCTCAACTCGCCACTCGCAATAC
1 TTGAAAGACAGAAATTGAAAATACCTCAGCGTGT-ACCTGAGGCTCAACTCACCACTCGCAATAC
6493178 GAGTTGA-TTTTT
65 GAGTTGATTTTTT
* * * * *
6493190 TTGACA-ACAGAAATTGAAATTACCTTAGCGTGT-CCTGAGGCTCAACTCACCTCTCGCAATATG
1 TTGAAAGACAGAAATTGAAAATACCTCAGCGTGTACCTGAGGCTCAACTCACCACTCGCAATACG
6493253 AGTTGATTTTTT
66 AGTTGATTTTTT
*
6493265 TTGAAAGAGAGAAATTGAAAA
1 TTGAAAGACAGAAATTGAAAA
6493286 ACGGAAATTG
Statistics
Matches: 83, Mismatches: 11, Indels: 5
0.84 0.11 0.05
Matches are distributed among these distances:
74 33 0.40
75 10 0.12
76 35 0.42
77 5 0.06
ACGTcount: A:0.32, C:0.19, G:0.20, T:0.28
Consensus pattern (77 bp):
TTGAAAGACAGAAATTGAAAATACCTCAGCGTGTACCTGAGGCTCAACTCACCACTCGCAATACG
AGTTGATTTTTT
Found at i:6493347 original size:166 final size:164
Alignment explanation
Indices: 6492443--6493578 Score: 1304
Period size: 165 Copynumber: 6.8 Consensus size: 164
6492433 GTTGATTTTT
* * * * * *
6492443 TTGAAAGACAGAAATTGAAAATAGCTCAGCGCGTGAGCC-AAGGCTCAACTCACCTCTCGCAATA
1 TTGAAAAACGGAAATTGAAAATACCTCGGCGTGTGA-CCTGAGGCTCAACTCACCTCTCGCAATA
* * * **
6492507 TAAGTTGATTTTTTGAAAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTC
65 TGAGTTGATTTTTTGAAAACAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTC
*
6492572 TCGCAATATGAGTTGA--ATTTTGAAA-ACAGAAA
130 TCGCAATATGAGTTGATTTTTTTGAAAGACAGAAA
* * * * *
6492604 TTGAAAAATGGAAATTGAAAATACCTCAGCATGTGATCTGAGGCTCAACTCAACTCTCGCAATAT
1 TTGAAAAACGGAAATTGAAAATACCTCGGCGTGTGACCTGAGGCTCAACTCACCTCTCGCAATAT
* * * * *
6492669 GAGTTGA-TTTTTGAAAAATATAAATTGAAGTAAAAAAAAATACCTCAGTGTGTGATCTGAAGCT
66 GAGTTGATTTTTTG-AAAACAGAAATT---G------AAAATACCTCAGCGTGT--CCTGAGGCT
6492733 CAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAGACAGAAA
119 CAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAGACAGAAA
*
6492779 TTGAAAAACGGAAATTGAAAATACCTCGGCGTGTGATCTGAGGCTCAACTCACCTCTCGCAATAT
1 TTGAAAAACGGAAATTGAAAATACCTCGGCGTGTGACCTGAGGCTCAACTCACCTCTCGCAATAT
* * *
6492844 GAGTTGATTTTTTTGAAAGACAGAAATTGAAAATAGCTCAGCGCGTGAGCC-AAGGCTCAACTCA
66 GAGTTGA-TTTTTTGAAA-ACAGAAATTGAAAATACCTCA--GCGTG-TCCTGAGGCTCAACTCA
* * **
6492908 CCTCTCGCAATATGAGTCGATTTTTTTTTAAAGGTAGAAA
126 CCTCTCGCAATATGAGTTGA-TTTTTTTGAAAGACAGAAA
* * *
6492948 TTGAAAAACGGAAATTGAAAATACCTCGGCGTGTGACCTGAGGCTCAACTCGCCGCTCGCAATAG
1 TTGAAAAACGGAAATTGAAAATACCTCGGCGTGTGACCTGAGGCTCAACTCACCTCTCGCAATAT
* *
6493013 GAGTTGACTTTTTTGACAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTC
66 GAGTTGA-TTTTTTGAAAACAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTC
* *
6493078 TCGCAATATGATTTGATTTTTTTGAAAGGCAGAAA
130 TCGCAATATGAGTTGATTTTTTTGAAAGACAGAAA
* * *
6493113 TTGAAAAACGGAAATTGAAAATACCTCGGCGTGTGACCTGAGGCTCAACTCGCCACTCGCAATAC
1 TTGAAAAACGGAAATTGAAAATACCTCGGCGTGTGACCTGAGGCTCAACTCACCTCTCGCAATAT
* * *
6493178 GAGTTGATTTTTTTGACAACAGAAATTGAAATTACCTTAGCGTGTCCTGAGGCTCAACTCACCTC
66 GAGTTGA-TTTTTTGAAAACAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTC
*
6493243 TCGCAATATGAGTTGATTTTTTTTGAAAGAGAGAAA
130 TCGCAATATGAGTTGA-TTTTTTTGAAAGACAGAAA
* *
6493279 TTGAAAAACGGAAATTGAAAATACCTCGGCGTGTGACCTGAGGCTCAACTCGCCTCTCGCAATAC
1 TTGAAAAACGGAAATTGAAAATACCTCGGCGTGTGACCTGAGGCTCAACTCACCTCTCGCAATAT
* *
6493344 GAGTTGATTCTTTCAAAAACATAATAATGAAAACAGAAATTGAAAATACCTCGGCGTGACCTGAG
66 GAGTTGA---TTT--------T--T--TGAAAACAGAAATTGAAAATACCTCAGCGTGTCCTGAG
* * * * * *
6493409 GCTTAACTCACCTCTCGCAATATGAGCTGA-TTCTTTCAAAAACATAATA
116 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAGACAGAA-A
* * *
6493458 ATG-AAGACAGAAATTGAAAATACCTCGGC--GTGACCTGAGGCTCAACTCACCTCTCGCAATAT
1 TTGAAAAACGGAAATTGAAAATACCTCGGCGTGTGACCTGAGGCTCAACTCACCTCTCGCAATAT
* * * *
6493520 GAGTTGA-ATTTTGAAAACAGAAATTGAAATTACCTCAGCCTGTCTTGAGGCTCAACTCA
66 GAGTTGATTTTTTGAAAACAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCA
6493579 TTTTGAACAG
Statistics
Matches: 852, Mismatches: 83, Indels: 81
0.84 0.08 0.08
Matches are distributed among these distances:
160 49 0.06
161 70 0.08
162 1 0.00
164 2 0.00
165 160 0.19
166 123 0.14
168 62 0.07
169 94 0.11
170 19 0.02
172 32 0.04
174 9 0.01
175 75 0.09
176 42 0.05
177 13 0.02
178 37 0.04
179 3 0.00
180 61 0.07
ACGTcount: A:0.34, C:0.20, G:0.19, T:0.27
Consensus pattern (164 bp):
TTGAAAAACGGAAATTGAAAATACCTCGGCGTGTGACCTGAGGCTCAACTCACCTCTCGCAATAT
GAGTTGATTTTTTGAAAACAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCT
CGCAATATGAGTTGATTTTTTTGAAAGACAGAAA
Found at i:6493428 original size:180 final size:176
Alignment explanation
Indices: 6493195--6493526 Score: 468
Period size: 180 Copynumber: 1.9 Consensus size: 176
6493185 TTTTTTTGAC
* * * *
6493195 AACAGAAATTGAAATTACCTTAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGAT
1 AACAGAAATTGAAAATACCTCAGCGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAGCTGA-
* * * * * *
6493260 TTTTTTTGAAAGAGAGAA-ATTGAAAAACGGAAATTGAAAATACCTCGGCGTGTGACCTGAGGCT
65 -TTCTTTCAAAAACAGAATAATG-AAAACAGAAATTGAAAATACCTCGGC--GTGACCTGAGGCT
*
6493324 CAACTCGCCTCTCGCAATACGAGTTGATTCTTTCAAAAACATAATAATGAA
126 CAACTCACCTCTCGCAATACGAGTTGATTCTTTCAAAAACATAATAATGAA
* *
6493375 AACAGAAATTGAAAATACCTCGGCGTGACCTGAGGCTTAACTCACCTCTCGCAATATGAGCTGAT
1 AACAGAAATTGAAAATACCTCAGCGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAGCTGAT
* *
6493440 TCTTTCAAAAACATAATAATGAAGACAGAAATTGAAAATACCTCGGCGTGACCTGAGGCTCAACT
66 TCTTTCAAAAACAGAATAATGAAAACAGAAATTGAAAATACCTCGGCGTGACCTGAGGCTCAACT
*
6493505 CACCTCTCGCAATATGAGTTGA
131 CACCTCTCGCAATACGAGTTGA
6493527 ATTTTGAAAA
Statistics
Matches: 135, Mismatches: 16, Indels: 6
0.86 0.10 0.04
Matches are distributed among these distances:
176 38 0.28
178 36 0.27
179 3 0.02
180 58 0.43
ACGTcount: A:0.35, C:0.21, G:0.19, T:0.26
Consensus pattern (176 bp):
AACAGAAATTGAAAATACCTCAGCGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAGCTGAT
TCTTTCAAAAACAGAATAATGAAAACAGAAATTGAAAATACCTCGGCGTGACCTGAGGCTCAACT
CACCTCTCGCAATACGAGTTGATTCTTTCAAAAACATAATAATGAA
Found at i:6493592 original size:49 final size:49
Alignment explanation
Indices: 6493535--6493630 Score: 174
Period size: 49 Copynumber: 2.0 Consensus size: 49
6493525 GAATTTTGAA
*
6493535 AACAGAAATTGAAATTACCTCAGCCTGTCTTGAGGCTCAACTCATTTTG
1 AACAGAAATTGAAATTACCTCAACCTGTCTTGAGGCTCAACTCATTTTG
*
6493584 AACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTT
1 AACAGAAATTGAAATTACCTCAACCTGTCTTGAGGCTCAACTCATTT
6493631 CTCGCAATAT
Statistics
Matches: 45, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
49 45 1.00
ACGTcount: A:0.32, C:0.22, G:0.16, T:0.30
Consensus pattern (49 bp):
AACAGAAATTGAAATTACCTCAACCTGTCTTGAGGCTCAACTCATTTTG
Found at i:6493664 original size:72 final size:72
Alignment explanation
Indices: 6493584--6493807 Score: 272
Period size: 72 Copynumber: 3.0 Consensus size: 72
6493574 ACTCATTTTG
6493584 AACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAA
1 AACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAA
6493649 TTTTGAA
66 TTTTGAA
*
6493656 AACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTTATTTCTCGCAATATGAGTTGAT
1 AACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGA-
*
6493721 TTTTTTTTGAA
65 ---ATTTTGAA
* ** * * ** *
6493732 AGACAGAAATTGAAAATACCTCAGCATATGAAC-CGAGGCTCAACTCACCTCTCGCAATATGAGC
1 A-ACAGAAATTGAAATTACCTCA--ACGTG-TCTTGAGGCTCAACTCATTTCTCGCAATATGAGT
6493796 TG-ATTTTGAA
62 TGAATTTTGAA
6493806 AA
1 AA
6493808 AGTAGAAATT
Statistics
Matches: 132, Mismatches: 12, Indels: 15
0.83 0.08 0.09
Matches are distributed among these distances:
72 63 0.48
73 1 0.01
74 8 0.06
76 8 0.06
77 20 0.15
79 31 0.23
80 1 0.01
ACGTcount: A:0.34, C:0.19, G:0.17, T:0.31
Consensus pattern (72 bp):
AACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAA
TTTTGAA
Found at i:6493685 original size:121 final size:121
Alignment explanation
Indices: 6493464--6493702 Score: 388
Period size: 121 Copynumber: 2.0 Consensus size: 121
6493454 AATAATGAAG
**
6493464 ACAGAAATTGAAAATACCTCGGCGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGAAT
1 ACAGAAATTGAAAATACCTCAACGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGAAT
*
6493529 TTTGAAAACAGAAATTGAAATTACCTCAGCCTGTCTTGAGGCTCAACTCATTTTGA
66 TTTGAAAACAGAAATTGAAATTACCTCAACCTGTCTTGAGGCTCAACTCATTTTGA
* * * **
6493585 ACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAAT
1 ACAGAAATTGAAAATACCTCAACGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGAAT
* *
6493650 TTTGAAAACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTTATTT
66 TTTGAAAACAGAAATTGAAATTACCTCAACCTGTCTTGAGGCTCAACTCATTT
6493703 CTCGCAATAT
Statistics
Matches: 108, Mismatches: 10, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
121 108 1.00
ACGTcount: A:0.33, C:0.21, G:0.17, T:0.30
Consensus pattern (121 bp):
ACAGAAATTGAAAATACCTCAACGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGAAT
TTTGAAAACAGAAATTGAAATTACCTCAACCTGTCTTGAGGCTCAACTCATTTTGA
Found at i:6493871 original size:54 final size:54
Alignment explanation
Indices: 6493771--6493876 Score: 144
Period size: 54 Copynumber: 1.9 Consensus size: 54
6493761 GAACCGAGGC
*
6493771 TCAACTCACCTCTCGCAATATGAGCTGATTTTGAAAAAGTAGAAATT-AAAAGGT
1 TCAACACACCTCTCGCAATATGAGCTGATTTTGAAAAAGTA-AAATTGAAAAGGT
* *
6493825 TCAACACACCTCTCGCAATATGAGTTGATTCTTGAACAACGT-AAATTGAAAA
1 TCAACACACCTCTCGCAATATGAGCTGATT-TTGAA-AAAGTAAAATTGAAAA
6493877 CAGAAATTGA
Statistics
Matches: 46, Mismatches: 3, Indels: 5
0.85 0.06 0.09
Matches are distributed among these distances:
54 33 0.72
55 9 0.20
56 4 0.09
ACGTcount: A:0.39, C:0.19, G:0.15, T:0.27
Consensus pattern (54 bp):
TCAACACACCTCTCGCAATATGAGCTGATTTTGAAAAAGTAAAATTGAAAAGGT
Found at i:6494025 original size:72 final size:71
Alignment explanation
Indices: 6493867--6494008 Score: 212
Period size: 72 Copynumber: 2.0 Consensus size: 71
6493857 TGAACAACGT
* * * * *
6493867 AAATTGAAAACAGAAATTGAAAATACCTCAGCATGACCTGAGGCTCAACTCACCTCTCGCAATAT
1 AAATTAAAAACAAAAATTGAAAATACCTCAACATGACCCGAGGCTCAACTCACCTCTAGCAATAT
6493932 GAGTTA
66 GAGTTA
* *
6493938 AAATTAAAACACAAAAATTGAAAATACCTCAACGTGCCCCGAGGCTCAACTCACCTCTAGCAATA
1 AAATTAAAA-ACAAAAATTGAAAATACCTCAACATGACCCGAGGCTCAACTCACCTCTAGCAATA
6494003 TGAGTT
65 TGAGTT
6494009 GATTTTGAAA
Statistics
Matches: 63, Mismatches: 7, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
71 8 0.13
72 55 0.87
ACGTcount: A:0.40, C:0.24, G:0.14, T:0.22
Consensus pattern (71 bp):
AAATTAAAAACAAAAATTGAAAATACCTCAACATGACCCGAGGCTCAACTCACCTCTAGCAATAT
GAGTTA
Found at i:6494124 original size:121 final size:124
Alignment explanation
Indices: 6493907--6494152 Score: 374
Period size: 121 Copynumber: 2.0 Consensus size: 124
6493897 GCATGACCTG
* *
6493907 AGGCTCAACTCACCTCTCGCAATATGAGTTAAAATTAAAACACAAAAATTGAAAATACCTCAACG
1 AGGCTCAACTCACCTCTCGCAATATGAGTTAAAATTAAAACACAAAAACTAAAAATACCTCAACG
6493972 TGCCCCGAGGCTCAACTCACCTCTAGCAATATGAGTTGATTTTGAAAA-ACAAAATTAAA
66 TGCCCCGAGGCTCAACTCACCTCTAGCAATATGAGTTGATTTTGAAAACA-AAAATTAAA
* * * * *
6494031 AGGCTTAACTCACCTCTCGCAATATGAG-T-CAATTTAAA-ACATAAACTAAAAATACCTCAGCG
1 AGGCTCAACTCACCTCTCGCAATATGAGTTAAAATTAAAACACAAAAACTAAAAATACCTCAACG
* *
6494093 TGCCCCGAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTGAAAACAAAAATTAAA
66 TGCCCCGAGGCTCAACTCACCTCTAGCAATATGAGTTGATTTTGAAAACAAAAATTAAA
6494152 A
1 A
6494153 ATACCTCAAC
Statistics
Matches: 112, Mismatches: 9, Indels: 5
0.89 0.07 0.04
Matches are distributed among these distances:
121 76 0.68
122 8 0.07
123 1 0.01
124 27 0.24
ACGTcount: A:0.40, C:0.23, G:0.13, T:0.24
Consensus pattern (124 bp):
AGGCTCAACTCACCTCTCGCAATATGAGTTAAAATTAAAACACAAAAACTAAAAATACCTCAACG
TGCCCCGAGGCTCAACTCACCTCTAGCAATATGAGTTGATTTTGAAAACAAAAATTAAA
Found at i:6494174 original size:71 final size:70
Alignment explanation
Indices: 6494031--6494205 Score: 228
Period size: 71 Copynumber: 2.5 Consensus size: 70
6494021 CAAAATTAAA
* * * * * *
6494031 AGGCTTAACTCACCTCTCGCAATATGAG-TCAATTTAAAACATAAACTAAAAATACCTCAGCGTG
1 AGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTAAAACAAAAACTAAAAATACCTCAACGTG
6494095 CCCCG
66 CCCCG
*
6494100 AGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTGAAAACAAAAATTAAAAATACCTCAACGT
1 AGGCTCAACTCACTTCTCGCAATATGAGTTGATTTT-AAAACAAAAACTAAAAATACCTCAACGT
* **
6494165 GTCTTG
65 GCCCCG
6494171 AGGCTCAACTCA-TCTCTCGCAATATGAGTTGATTT
1 AGGCTCAACTCACT-TCTCGCAATATGAGTTGATTT
6494206 CCCTTGAAAG
Statistics
Matches: 93, Mismatches: 10, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
69 26 0.28
70 6 0.06
71 61 0.66
ACGTcount: A:0.34, C:0.23, G:0.14, T:0.28
Consensus pattern (70 bp):
AGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTAAAACAAAAACTAAAAATACCTCAACGTG
CCCCG
Found at i:6502430 original size:12 final size:12
Alignment explanation
Indices: 6502410--6502445 Score: 63
Period size: 12 Copynumber: 3.0 Consensus size: 12
6502400 TGGGATATGC
*
6502410 AATGTATGAATG
1 AATGCATGAATG
6502422 AATGCATGAATG
1 AATGCATGAATG
6502434 AATGCATGAATG
1 AATGCATGAATG
6502446 TCAAAATGTT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
12 23 1.00
ACGTcount: A:0.42, C:0.06, G:0.25, T:0.28
Consensus pattern (12 bp):
AATGCATGAATG
Found at i:6504500 original size:15 final size:15
Alignment explanation
Indices: 6504476--6504521 Score: 60
Period size: 15 Copynumber: 3.1 Consensus size: 15
6504466 CTAATGGCAT
6504476 TAAA-AATATATATA
1 TAAATAATATATATA
*
6504490 TACATAATATATATA
1 TAAATAATATATATA
6504505 -AAATACATATATATA
1 TAAATA-ATATATATA
6504520 TA
1 TA
6504522 TATACGTATT
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
14 7 0.26
15 19 0.70
16 1 0.04
ACGTcount: A:0.59, C:0.04, G:0.00, T:0.37
Consensus pattern (15 bp):
TAAATAATATATATA
Found at i:6504861 original size:11 final size:11
Alignment explanation
Indices: 6504827--6504868 Score: 50
Period size: 11 Copynumber: 3.9 Consensus size: 11
6504817 AAATCATTTT
6504827 GAAGAGAGAAA
1 GAAGAGAGAAA
* *
6504838 GAA-AAAAAAA
1 GAAGAGAGAAA
*
6504848 GAAGGGAGAAA
1 GAAGAGAGAAA
6504859 GAAGAGAGAA
1 GAAGAGAGAA
6504869 GGGAGGGGGG
Statistics
Matches: 24, Mismatches: 6, Indels: 2
0.75 0.19 0.06
Matches are distributed among these distances:
10 8 0.33
11 16 0.67
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (11 bp):
GAAGAGAGAAA
Found at i:6505374 original size:24 final size:24
Alignment explanation
Indices: 6505338--6505400 Score: 99
Period size: 24 Copynumber: 2.6 Consensus size: 24
6505328 TTTTTTTGGG
*
6505338 GGGTTAGGTTTTTCTTTTTTTTTTT
1 GGGTTAGGTTTTT-TCTTTTTTTTT
6505363 GGGTTAGGTTTTTTCTTTTTTTTT
1 GGGTTAGGTTTTTTCTTTTTTTTT
*
6505387 TGGTTAGGTTTTTT
1 GGGTTAGGTTTTTT
6505401 TGGGGGAAGG
Statistics
Matches: 36, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
24 23 0.64
25 13 0.36
ACGTcount: A:0.05, C:0.03, G:0.22, T:0.70
Consensus pattern (24 bp):
GGGTTAGGTTTTTTCTTTTTTTTT
Found at i:6505401 original size:25 final size:24
Alignment explanation
Indices: 6505338--6505401 Score: 103
Period size: 25 Copynumber: 2.6 Consensus size: 24
6505328 TTTTTTTGGG
6505338 GGGTTAGGTTTTTCTTTTTTTTTTT
1 GGGTTAGGTTTTT-TTTTTTTTTTT
6505363 GGGTTAGGTTTTTTCTTTTTTTTTT
1 GGGTTAGGTTTTTT-TTTTTTTTTT
6505388 -GGTTAGGTTTTTTT
1 GGGTTAGGTTTTTTT
6505402 GGGGGAAGGC
Statistics
Matches: 38, Mismatches: 0, Indels: 4
0.90 0.00 0.10
Matches are distributed among these distances:
23 1 0.03
24 14 0.37
25 23 0.61
ACGTcount: A:0.05, C:0.03, G:0.22, T:0.70
Consensus pattern (24 bp):
GGGTTAGGTTTTTTTTTTTTTTTT
Found at i:6506829 original size:13 final size:13
Alignment explanation
Indices: 6506811--6506838 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
6506801 AAAAAATTTA
6506811 TTGATATTTTTTG
1 TTGATATTTTTTG
6506824 TTGATATTTTTTG
1 TTGATATTTTTTG
6506837 TT
1 TT
6506839 ATGAAAAAAC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.14, C:0.00, G:0.14, T:0.71
Consensus pattern (13 bp):
TTGATATTTTTTG
Found at i:6510964 original size:20 final size:20
Alignment explanation
Indices: 6510919--6510970 Score: 70
Period size: 19 Copynumber: 2.6 Consensus size: 20
6510909 CCCCACCCAA
*
6510919 ATTTCCCCAAATCCCTAACT
1 ATTTCCCCAAATCCCTAAAT
*
6510939 -TTTCCCCTAATCCCTAAAT
1 ATTTCCCCAAATCCCTAAAT
*
6510958 ATTTCCCCGAATC
1 ATTTCCCCAAATC
6510971 AAAATCAAAA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
19 17 0.61
20 11 0.39
ACGTcount: A:0.27, C:0.38, G:0.02, T:0.33
Consensus pattern (20 bp):
ATTTCCCCAAATCCCTAAAT
Found at i:6513108 original size:10 final size:10
Alignment explanation
Indices: 6513093--6513122 Score: 53
Period size: 10 Copynumber: 3.1 Consensus size: 10
6513083 GGTTAGCTAC
6513093 TCTTTTATTT
1 TCTTTTATTT
6513103 TCTTTTATTT
1 TCTTTTATTT
6513113 TCTTTT-TTT
1 TCTTTTATTT
6513122 T
1 T
6513123 AAATTACCAT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
9 4 0.20
10 16 0.80
ACGTcount: A:0.07, C:0.10, G:0.00, T:0.83
Consensus pattern (10 bp):
TCTTTTATTT
Found at i:6513547 original size:64 final size:64
Alignment explanation
Indices: 6513475--6513608 Score: 259
Period size: 64 Copynumber: 2.1 Consensus size: 64
6513465 TAATATTTCT
*
6513475 ATATTTCTATCACGATTTTTAATAAATTTATTTATTGATATAATATGTCCCATCTAATATACAA
1 ATATTTCTATCACGATTTTTAATAAATTTATTTATTAATATAATATGTCCCATCTAATATACAA
6513539 ATATTTCTATCACGATTTTTAATAAATTTATTTATTAATATAATATGTCCCATCTAATATACAA
1 ATATTTCTATCACGATTTTTAATAAATTTATTTATTAATATAATATGTCCCATCTAATATACAA
6513603 ATATTT
1 ATATTT
6513609 AATAAAATAT
Statistics
Matches: 69, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
64 69 1.00
ACGTcount: A:0.38, C:0.12, G:0.04, T:0.46
Consensus pattern (64 bp):
ATATTTCTATCACGATTTTTAATAAATTTATTTATTAATATAATATGTCCCATCTAATATACAA
Found at i:6513621 original size:64 final size:64
Alignment explanation
Indices: 6513488--6513622 Score: 211
Period size: 64 Copynumber: 2.1 Consensus size: 64
6513478 TTTCTATCAC
* * * *
6513488 GATTTTTAATAAATTTATTTATTGATATAATATGTCCCATCTAATATACAAATATTTCTATCAC
1 GATTTTTAATAAATTTATTTATTAATATAATATGTCCCATCTAATATACAAATATTTATATAAA
6513552 GATTTTTAATAAATTTATTTATTAATATAATATGTCCCATCTAATATACAAATATTTA-ATAAA
1 GATTTTTAATAAATTTATTTATTAATATAATATGTCCCATCTAATATACAAATATTTATATAAA
6513615 -ATATTTTA
1 GAT-TTTTA
6513623 TATAGTTTTG
Statistics
Matches: 66, Mismatches: 4, Indels: 3
0.90 0.05 0.04
Matches are distributed among these distances:
62 2 0.03
63 8 0.12
64 56 0.85
ACGTcount: A:0.41, C:0.10, G:0.04, T:0.46
Consensus pattern (64 bp):
GATTTTTAATAAATTTATTTATTAATATAATATGTCCCATCTAATATACAAATATTTATATAAA
Found at i:6513683 original size:24 final size:24
Alignment explanation
Indices: 6513656--6513726 Score: 115
Period size: 24 Copynumber: 3.0 Consensus size: 24
6513646 ATTATTATTG
*
6513656 AAATATTCTCGTCCGTTTTATCAC
1 AAATATTATCGTCCGTTTTATCAC
*
6513680 AAATATTATTGTCCGTTTTATCAC
1 AAATATTATCGTCCGTTTTATCAC
*
6513704 AAATATTATCGTTCGTTTTATCA
1 AAATATTATCGTCCGTTTTATCA
6513727 TTTAAGTTAA
Statistics
Matches: 43, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 43 1.00
ACGTcount: A:0.28, C:0.18, G:0.08, T:0.45
Consensus pattern (24 bp):
AAATATTATCGTCCGTTTTATCAC
Found at i:6513953 original size:15 final size:15
Alignment explanation
Indices: 6513900--6513983 Score: 95
Period size: 15 Copynumber: 5.8 Consensus size: 15
6513890 AACGACATGT
6513900 ATATTATTTAATTAA
1 ATATTATTTAATTAA
* ** *
6513915 A-ATAATTTTTTTCA
1 ATATTATTTAATTAA
6513929 ATATTATTTAATTAAA
1 ATATTATTTAATT-AA
6513945 ATATT-TTT-A-TAA
1 ATATTATTTAATTAA
6513957 ATATTATTTAATTAA
1 ATATTATTTAATTAA
6513972 ATATTATTTAAT
1 ATATTATTTAAT
6513984 CCGCAACTTA
Statistics
Matches: 56, Mismatches: 8, Indels: 10
0.76 0.11 0.14
Matches are distributed among these distances:
12 7 0.12
13 4 0.07
14 12 0.21
15 27 0.48
16 6 0.11
ACGTcount: A:0.44, C:0.01, G:0.00, T:0.55
Consensus pattern (15 bp):
ATATTATTTAATTAA
Found at i:6513959 original size:28 final size:28
Alignment explanation
Indices: 6513900--6513981 Score: 121
Period size: 28 Copynumber: 2.9 Consensus size: 28
6513890 AACGACATGT
* *
6513900 ATATTATTTAATTAAAATAATTTTTTTCA
1 ATATTATTTAATTAAAAT-ATTTTTATAA
6513929 ATATTATTTAATTAAAATATTTTTATAA
1 ATATTATTTAATTAAAATATTTTTATAA
6513957 ATATTATTTAATT-AAATATTATTTA
1 ATATTATTTAATTAAAATATT-TTTA
6513982 ATCCGCAACT
Statistics
Matches: 50, Mismatches: 2, Indels: 3
0.91 0.04 0.05
Matches are distributed among these distances:
27 7 0.14
28 25 0.50
29 18 0.36
ACGTcount: A:0.44, C:0.01, G:0.00, T:0.55
Consensus pattern (28 bp):
ATATTATTTAATTAAAATATTTTTATAA
Found at i:6514112 original size:9 final size:9
Alignment explanation
Indices: 6514096--6514512 Score: 406
Period size: 9 Copynumber: 47.4 Consensus size: 9
6514086 AATATTTAAC
*
6514096 ATAACTTAC
1 ATAACTTAT
* *
6514105 AAAACTTAC
1 ATAACTTAT
6514114 ATAACTTAT
1 ATAACTTAT
*
6514123 ATAACTTAG
1 ATAACTTAT
**
6514132 A-AAAATAT
1 ATAACTTAT
*
6514140 AAAACTTAT
1 ATAACTTAT
*
6514149 ATAACTTAC
1 ATAACTTAT
6514158 ATAACTTAT
1 ATAACTTAT
*
6514167 ATAACTTAG
1 ATAACTTAT
*
6514176 ATAACTTAG
1 ATAACTTAT
*
6514185 ATAA-ATAT
1 ATAACTTAT
*
6514193 ATAACTTAC
1 ATAACTTAT
*
6514202 ATAACTTAC
1 ATAACTTAT
6514211 ATAACTTAT
1 ATAACTTAT
6514220 ATAACTTAT
1 ATAACTTAT
*
6514229 ATAACTTAG
1 ATAACTTAT
*
6514238 ATAA-ATAT
1 ATAACTTAT
*
6514246 ATAACTTAC
1 ATAACTTAT
*
6514255 ATAACTTAC
1 ATAACTTAT
6514264 ATAACTTAT
1 ATAACTTAT
*
6514273 ATAACTTAG
1 ATAACTTAT
*
6514282 ATAA-ATAT
1 ATAACTTAT
6514290 ATAACTTAT
1 ATAACTTAT
*
6514299 ATAACTTAC
1 ATAACTTAT
6514308 ATAACTTAT
1 ATAACTTAT
6514317 ATAACTTAT
1 ATAACTTAT
6514326 ATAACTTAT
1 ATAACTTAT
6514335 AT---TTAT
1 ATAACTTAT
* *
6514341 CTAACTTAC
1 ATAACTTAT
6514350 ATAACTTAT
1 ATAACTTAT
*
6514359 ATAACTTAG
1 ATAACTTAT
*
6514368 ATAA-ATAT
1 ATAACTTAT
6514376 ATAACTTAT
1 ATAACTTAT
*
6514385 ATAACTTAC
1 ATAACTTAT
6514394 ATAACTTAT
1 ATAACTTAT
*
6514403 ATAACTGAT
1 ATAACTTAT
* *
6514412 ATATCTTAG
1 ATAACTTAT
*
6514421 ATAA-ATAT
1 ATAACTTAT
*
6514429 ATAACTTAC
1 ATAACTTAT
6514438 ATAACTTAT
1 ATAACTTAT
*
6514447 ATAACTTAG
1 ATAACTTAT
*
6514456 ATAA-ATAT
1 ATAACTTAT
*
6514464 ATAACTTAC
1 ATAACTTAT
*
6514473 ATAA-ATAT
1 ATAACTTAT
* *
6514481 ATATCATAT
1 ATAACTTAT
*
6514490 CATAACTTAC
1 -ATAACTTAT
*
6514500 ATAACTTAC
1 ATAACTTAT
6514509 ATAA
1 ATAA
6514513 TACTTAAATA
Statistics
Matches: 335, Mismatches: 61, Indels: 24
0.80 0.15 0.06
Matches are distributed among these distances:
6 5 0.01
8 46 0.14
9 278 0.83
10 6 0.02
ACGTcount: A:0.47, C:0.13, G:0.02, T:0.37
Consensus pattern (9 bp):
ATAACTTAT
Found at i:6514164 original size:53 final size:53
Alignment explanation
Indices: 6514096--6514476 Score: 394
Period size: 53 Copynumber: 7.4 Consensus size: 53
6514086 AATATTTAAC
* * *
6514096 ATAACTTACAAAACTTACATAACTTATATAACTTAGAAAAATATAAAACTTAT
1 ATAACTTACATAACTTACATAACTTATATAACTTAGATAAATATATAACTTAT
* * *
6514149 ATAACTTACATAACTTATATAACTTAGATAACTTAGATAAATATATAACTTAC
1 ATAACTTACATAACTTACATAACTTATATAACTTAGATAAATATATAACTTAT
*
6514202 ATAACTTACATAACTTATATAACTTATATAACTTAG------ATA-AA--TAT
1 ATAACTTACATAACTTACATAACTTATATAACTTAGATAAATATATAACTTAT
6514246 ATAACTTACATAACTTACATAACTTATATAACTTAGATAAATATATAACTTAT
1 ATAACTTACATAACTTACATAACTTATATAACTTAGATAAATATATAACTTAT
* ** * *
6514299 ATAACTTACATAACTTATATAACTTATATAACTT--ATATTTATCTAACTTAC
1 ATAACTTACATAACTTACATAACTTATATAACTTAGATAAATATATAACTTAT
* * * * * *
6514350 ATAACTTATATAACTTAGATAA-ATATATAACTTATATAACTTACATAACTTAT
1 ATAACTTACATAACTTACATAACTTATATAACTTAGATAA-ATATATAACTTAT
* * * * * * * *
6514403 ATAACTGATATATCTTAGATAA-ATATATAACTTACATAACTTATATAACTTAG
1 ATAACTTACATAACTTACATAACTTATATAACTTAGATAA-ATATATAACTTAT
* *
6514456 ATAA-ATATATAACTTACATAA
1 ATAACTTACATAACTTACATAA
6514477 ATATATATCA
Statistics
Matches: 286, Mismatches: 30, Indels: 25
0.84 0.09 0.07
Matches are distributed among these distances:
44 37 0.13
46 2 0.01
47 3 0.01
50 13 0.05
51 35 0.12
52 16 0.06
53 180 0.63
ACGTcount: A:0.48, C:0.13, G:0.02, T:0.38
Consensus pattern (53 bp):
ATAACTTACATAACTTACATAACTTATATAACTTAGATAAATATATAACTTAT
Found at i:6514345 original size:24 final size:24
Alignment explanation
Indices: 6514264--6514507 Score: 95
Period size: 26 Copynumber: 9.7 Consensus size: 24
6514254 CATAACTTAC
* **
6514264 ATAACTTATATAACTTAGATAAATAT
1 ATAACTTACATAACTT--ATATTTAT
* *
6514290 ATAACTTATATAACTTACATAACTTAT
1 ATAACTTACATAACTT--AT-ATTTAT
*
6514317 ATAACTTATATAACTTATATTTAT
1 ATAACTTACATAACTTATATTTAT
*
6514341 CTAACTTACATAAC------TTAT
1 ATAACTTACATAACTTATATTTAT
* ** *
6514359 ATAACTTAGATAAATATATAACTTAT
1 ATAACTTACAT-AACTTAT-ATTTAT
*
6514385 ATAACTTACATAACTTATATAACTGAT
1 ATAACTTACATAACTTATAT---TTAT
* * * * *
6514412 ATATCTTAGATAAATATATAACTTAC
1 ATAACTTACATAACT-TAT-ATTTAT
* **
6514438 ATAACTTATATAACTTAGATAAATAT
1 ATAACTTACATAACTT--ATATTTAT
* *
6514464 ATAACTTACATAAATATATATCATAT
1 ATAACTTACATAACT-TATAT-TTAT
6514490 CATAACTTACATAACTTA
1 -ATAACTTACATAACTTA
6514508 CATAATACTT
Statistics
Matches: 169, Mismatches: 30, Indels: 38
0.71 0.13 0.16
Matches are distributed among these distances:
18 13 0.08
19 2 0.01
24 18 0.11
25 11 0.07
26 69 0.41
27 52 0.31
28 3 0.02
29 1 0.01
ACGTcount: A:0.46, C:0.12, G:0.02, T:0.39
Consensus pattern (24 bp):
ATAACTTACATAACTTATATTTAT
Found at i:6514405 original size:44 final size:44
Alignment explanation
Indices: 6514114--6514476 Score: 421
Period size: 44 Copynumber: 8.3 Consensus size: 44
6514104 CAAAACTTAC
* ** * * * *
6514114 ATAACTTATATAACTTAGA-AAAATATAAAACTTATATAACTTAC
1 ATAACTTATATAACTTACATAACTTATATAACTTAGATAA-ATAT
* * * * * *
6514158 ATAACTTATATAACTTAGATAACTTAGATAA-ATATATAACTTAC
1 ATAACTTATATAACTTACATAACTTATATAACTTAGATAA-ATAT
* *
6514202 ATAACTTACATAACTTATATAACTTATATAACTTAGATAAATAT
1 ATAACTTATATAACTTACATAACTTATATAACTTAGATAAATAT
*
6514246 ATAACTTACATAACTTACATAACTTATATAACTTAGATAAATAT
1 ATAACTTATATAACTTACATAACTTATATAACTTAGATAAATAT
* *
6514290 ATAACTTATATAACTTACATAACTTATATAACTTATATAACT-T
1 ATAACTTATATAACTTACATAACTTATATAACTTAGATAAATAT
* *
6514333 AT-ATTTATCTAACTTACATAACTTATATAACTTAGATAAATAT
1 ATAACTTATATAACTTACATAACTTATATAACTTAGATAAATAT
* * ** *
6514376 ATAACTTATATAACTTACATAACTTATATAACTGATATATCTTAG
1 ATAACTTATATAACTTACATAACTTATATAACTTAGATA-AATAT
*
6514421 ATAA-ATATATAACTTACATAACTTATATAACTTAGATAAATAT
1 ATAACTTATATAACTTACATAACTTATATAACTTAGATAAATAT
*
6514464 ATAACTTACATAA
1 ATAACTTATATAA
6514477 ATATATATCA
Statistics
Matches: 278, Mismatches: 35, Indels: 12
0.86 0.11 0.04
Matches are distributed among these distances:
42 35 0.13
43 12 0.04
44 212 0.76
45 19 0.07
ACGTcount: A:0.47, C:0.12, G:0.02, T:0.38
Consensus pattern (44 bp):
ATAACTTATATAACTTACATAACTTATATAACTTAGATAAATAT
Found at i:6514543 original size:34 final size:34
Alignment explanation
Indices: 6514499--6514620 Score: 113
Period size: 34 Copynumber: 3.4 Consensus size: 34
6514489 TCATAACTTA
6514499 CATAACTTACATAATACTTAAATATATTTGATAT
1 CATAACTTACATAATACTTAAATATATTTGATAT
* ** *
6514533 CATAATTTACATAACTAGCTTACGAA-ACTTACCTAACT-T
1 CATAACTTACATAA-TA-CTTA--AATA--TATTTGA-TAT
6514572 ACATAACTTACATAATACTTAAATATATTTGATAT
1 -CATAACTTACATAATACTTAAATATATTTGATAT
*
6514607 CATAATTTACATAA
1 CATAACTTACATAA
6514621 CTAGCTTACG
Statistics
Matches: 69, Mismatches: 9, Indels: 20
0.70 0.09 0.20
Matches are distributed among these distances:
34 27 0.39
35 7 0.10
36 6 0.09
37 2 0.03
38 6 0.09
39 7 0.10
40 14 0.20
ACGTcount: A:0.43, C:0.16, G:0.03, T:0.38
Consensus pattern (34 bp):
CATAACTTACATAATACTTAAATATATTTGATAT
Found at i:6514578 original size:74 final size:74
Alignment explanation
Indices: 6514492--6514651 Score: 311
Period size: 74 Copynumber: 2.2 Consensus size: 74
6514482 TATCATATCA
6514492 TAACTTACATAACTTACATAATACTTAAATATATTTGATATCATAATTTACATAACTAGCTTACG
1 TAACTTACATAACTTACATAATACTTAAATATATTTGATATCATAATTTACATAACTAGCTTACG
6514557 AAACTTACC
66 AAACTTACC
6514566 TAACTTACATAACTTACATAATACTTAAATATATTTGATATCATAATTTACATAACTAGCTTACG
1 TAACTTACATAACTTACATAATACTTAAATATATTTGATATCATAATTTACATAACTAGCTTACG
*
6514631 AAACTTACT
66 AAACTTACC
6514640 TAACTTACATAA
1 TAACTTACATAA
6514652 TACACAAATC
Statistics
Matches: 85, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
74 85 1.00
ACGTcount: A:0.42, C:0.17, G:0.04, T:0.37
Consensus pattern (74 bp):
TAACTTACATAACTTACATAATACTTAAATATATTTGATATCATAATTTACATAACTAGCTTACG
AAACTTACC
Found at i:6522656 original size:22 final size:22
Alignment explanation
Indices: 6522631--6522674 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
6522621 TTCAAAGATG
6522631 GCTGGATAAAGATTGAAGGGTT
1 GCTGGATAAAGATTGAAGGGTT
*
6522653 GCTGGATAAATATTGAAGGGTT
1 GCTGGATAAAGATTGAAGGGTT
6522675 TTTTATATTA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.32, C:0.05, G:0.34, T:0.30
Consensus pattern (22 bp):
GCTGGATAAAGATTGAAGGGTT
Found at i:6522797 original size:13 final size:13
Alignment explanation
Indices: 6522743--6522798 Score: 55
Period size: 13 Copynumber: 4.5 Consensus size: 13
6522733 AATTTAGAAT
*
6522743 TATTTTGTGATAA
1 TATTTAGTGATAA
* *
6522756 TATTTTGTAATAA
1 TATTTAGTGATAA
*
6522769 TATTTA--GA-AT
1 TATTTAGTGATAA
6522779 TATTTAGTGATAA
1 TATTTAGTGATAA
6522792 TATTTAG
1 TATTTAG
6522799 GAAAAATCTA
Statistics
Matches: 35, Mismatches: 5, Indels: 6
0.76 0.11 0.13
Matches are distributed among these distances:
10 7 0.20
11 1 0.03
12 2 0.06
13 25 0.71
ACGTcount: A:0.36, C:0.00, G:0.12, T:0.52
Consensus pattern (13 bp):
TATTTAGTGATAA
Found at i:6527663 original size:50 final size:50
Alignment explanation
Indices: 6527588--6527764 Score: 248
Period size: 50 Copynumber: 3.5 Consensus size: 50
6527578 CCATGGAACC
6527588 AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATGA
1 AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATGA
* * * * *
6527638 AAGTGATAAGTAATAACTTCGGCTACACTTATCTAATTAAGGACAAGTGA
1 AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATGA
6527688 AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAATGG-CAAATGA
1 AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAA-GGACAAATGA
* * * *
6527738 CAACTGAAAAGTGGTAGCTTCAGCTAC
1 -AAGTGATAAGTGATAGCTTCGGCTAC
6527765 CTGATTAGTG
Statistics
Matches: 111, Mismatches: 14, Indels: 3
0.87 0.11 0.02
Matches are distributed among these distances:
50 87 0.78
51 24 0.22
ACGTcount: A:0.36, C:0.16, G:0.21, T:0.27
Consensus pattern (50 bp):
AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATGA
Found at i:6527950 original size:31 final size:31
Alignment explanation
Indices: 6527742--6527943 Score: 305
Period size: 31 Copynumber: 6.5 Consensus size: 31
6527732 AAATGACAAC
*
6527742 TGAAAAGTGGTAGCTTCAGCTACCTGATTAG
1 TGAAAAGTGGTAGCTTCAGCTACCTGATCAG
*
6527773 TGAAAAGTGGTAGTTTCAGCTACCTGATCAG
1 TGAAAAGTGGTAGCTTCAGCTACCTGATCAG
* *
6527804 TGAAAAGTGGTAGCTTCTGCTACCTAATCAG
1 TGAAAAGTGGTAGCTTCAGCTACCTGATCAG
*
6527835 TGAAAAGTGGTAGCTTCGGCTACCTGATCAG
1 TGAAAAGTGGTAGCTTCAGCTACCTGATCAG
* *
6527866 TGAAAAGTGGTAGCTCCGGCTACCTGATCAG
1 TGAAAAGTGGTAGCTTCAGCTACCTGATCAG
* **
6527897 TGAAAAATGGTAGCACCAGCTACCTGATCAG
1 TGAAAAGTGGTAGCTTCAGCTACCTGATCAG
*
6527928 TGAATAGTGGTAGCTT
1 TGAAAAGTGGTAGCTT
6527944 TGGCTACAAG
Statistics
Matches: 156, Mismatches: 15, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 156 1.00
ACGTcount: A:0.29, C:0.18, G:0.26, T:0.27
Consensus pattern (31 bp):
TGAAAAGTGGTAGCTTCAGCTACCTGATCAG
Found at i:6527961 original size:7 final size:7
Alignment explanation
Indices: 6527949--6527991 Score: 86
Period size: 7 Copynumber: 6.1 Consensus size: 7
6527939 AGCTTTGGCT
6527949 ACAAGTG
1 ACAAGTG
6527956 ACAAGTG
1 ACAAGTG
6527963 ACAAGTG
1 ACAAGTG
6527970 ACAAGTG
1 ACAAGTG
6527977 ACAAGTG
1 ACAAGTG
6527984 ACAAGTG
1 ACAAGTG
6527991 A
1 A
6527992 TTTCTGTATA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 36 1.00
ACGTcount: A:0.44, C:0.14, G:0.28, T:0.14
Consensus pattern (7 bp):
ACAAGTG
Found at i:6528064 original size:47 final size:48
Alignment explanation
Indices: 6527995--6528120 Score: 157
Period size: 47 Copynumber: 2.7 Consensus size: 48
6527985 CAAGTGATTT
* *
6527995 CTGTATAAGACCATATCTGGGATATGGCATCGGTGTGATATATG-CTA
1 CTGTATAAGACCATATCTGGGATATGGCATCAGTGAGATATATGACTA
* * *
6528042 CTGTATAAGACCATATCTGGGATATGACATCAGTGAGATATGTGATTA
1 CTGTATAAGACCATATCTGGGATATGGCATCAGTGAGATATATGACTA
* * * *
6528090 C-GTGTAAGACCATAGCTAGGCTATGGCATCA
1 CTGTATAAGACCATATCTGGGATATGGCATCA
6528121 TTATGTAAAG
Statistics
Matches: 68, Mismatches: 10, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
47 65 0.96
48 3 0.04
ACGTcount: A:0.30, C:0.16, G:0.25, T:0.29
Consensus pattern (48 bp):
CTGTATAAGACCATATCTGGGATATGGCATCAGTGAGATATATGACTA
Found at i:6530622 original size:22 final size:22
Alignment explanation
Indices: 6530548--6530626 Score: 72
Period size: 22 Copynumber: 3.5 Consensus size: 22
6530538 TTATTTATCA
*
6530548 ATTTATTTTATTTTCTTAAATTT
1 ATTTATTTTATTTT-TTGAATTT
* *
6530571 ATTT-TTATA-TTTTCGAATATGT
1 ATTTATTTTATTTTTTGAAT-T-T
*
6530593 TTTTATTTTATTTTTTGAATTT
1 ATTTATTTTATTTTTTGAATTT
*
6530615 CTTTATTTTATT
1 ATTTATTTTATT
6530627 ATCTTAATCA
Statistics
Matches: 45, Mismatches: 7, Indels: 9
0.74 0.11 0.15
Matches are distributed among these distances:
20 4 0.09
21 4 0.09
22 20 0.44
23 9 0.20
24 8 0.18
ACGTcount: A:0.23, C:0.04, G:0.04, T:0.70
Consensus pattern (22 bp):
ATTTATTTTATTTTTTGAATTT
Found at i:6537271 original size:33 final size:32
Alignment explanation
Indices: 6537233--6537324 Score: 96
Period size: 33 Copynumber: 2.8 Consensus size: 32
6537223 AAGTTGTACA
*
6537233 TTCCTTTCCAATTGGTACACACAAATTATACCT
1 TTCCTTTCC-ATTGGTACACACAAAGTATACCT
* *
6537266 TTCCTTTTCATATGGTATACACAAAGTATACCT
1 TTCCTTTCCAT-TGGTACACACAAAGTATACCT
** *
6537299 AACCTTTCCGAGT-GTACACACAAAGT
1 TTCCTTTCC-ATTGGTACACACAAAGT
6537325 GTACATAACC
Statistics
Matches: 49, Mismatches: 8, Indels: 5
0.79 0.13 0.08
Matches are distributed among these distances:
32 14 0.29
33 34 0.69
34 1 0.02
ACGTcount: A:0.32, C:0.25, G:0.10, T:0.34
Consensus pattern (32 bp):
TTCCTTTCCATTGGTACACACAAAGTATACCT
Found at i:6538551 original size:13 final size:13
Alignment explanation
Indices: 6538533--6538558 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
6538523 ACACATAATT
6538533 GATAAAAATTTTC
1 GATAAAAATTTTC
6538546 GATAAAAATTTTC
1 GATAAAAATTTTC
6538559 ATGCAATATT
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:0.46, C:0.08, G:0.08, T:0.38
Consensus pattern (13 bp):
GATAAAAATTTTC
Found at i:6539389 original size:23 final size:23
Alignment explanation
Indices: 6539363--6539437 Score: 123
Period size: 23 Copynumber: 3.3 Consensus size: 23
6539353 TAATTTTTGA
* *
6539363 ATTTTGAATTATTTAATGATAAT
1 ATTTAGAATTATTTAGTGATAAT
6539386 ATTTAGAATTATTTAGTGATAAT
1 ATTTAGAATTATTTAGTGATAAT
*
6539409 ATTTAGAATTATTTAGCGATAAT
1 ATTTAGAATTATTTAGTGATAAT
6539432 ATTTAG
1 ATTTAG
6539438 GAAAAATCTA
Statistics
Matches: 49, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
23 49 1.00
ACGTcount: A:0.39, C:0.01, G:0.12, T:0.48
Consensus pattern (23 bp):
ATTTAGAATTATTTAGTGATAAT
Found at i:6539414 original size:13 final size:12
Alignment explanation
Indices: 6539380--6539439 Score: 56
Period size: 13 Copynumber: 5.2 Consensus size: 12
6539370 ATTATTTAAT
6539380 GATAATATTTA-
1 GATAATATTTAG
*
6539391 GA-ATTATTTAG
1 GATAATATTTAG
6539402 TGATAATATTTA-
1 -GATAATATTTAG
*
6539414 GA-ATTATTTAG
1 GATAATATTTAG
6539425 CGATAATATTTAG
1 -GATAATATTTAG
6539438 GA
1 GA
6539440 AAAATCTAAC
Statistics
Matches: 39, Mismatches: 4, Indels: 11
0.72 0.07 0.20
Matches are distributed among these distances:
10 14 0.36
11 4 0.10
12 6 0.15
13 15 0.38
ACGTcount: A:0.40, C:0.02, G:0.15, T:0.43
Consensus pattern (12 bp):
GATAATATTTAG
Found at i:6540873 original size:17 final size:17
Alignment explanation
Indices: 6540851--6540905 Score: 51
Period size: 17 Copynumber: 3.2 Consensus size: 17
6540841 GGTTTTTTTT
6540851 AAATATTTTATTTATAA
1 AAATATTTTATTTATAA
*
6540868 AAATATTGTT-TTAATAA
1 AAATATT-TTATTTATAA
*
6540885 ATAA-ATTTTATGTTAGAA
1 A-AATATTTTAT-TTATAA
6540903 AAA
1 AAA
6540906 AGAGAAAATG
Statistics
Matches: 31, Mismatches: 3, Indels: 8
0.74 0.07 0.19
Matches are distributed among these distances:
16 2 0.06
17 20 0.65
18 9 0.29
ACGTcount: A:0.49, C:0.00, G:0.05, T:0.45
Consensus pattern (17 bp):
AAATATTTTATTTATAA
Found at i:6540965 original size:20 final size:20
Alignment explanation
Indices: 6540940--6540977 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
6540930 TATAATTGTG
6540940 TTATGTATTTTTATAAAACT
1 TTATGTATTTTTATAAAACT
*
6540960 TTATGTGTTTTTATAAAA
1 TTATGTATTTTTATAAAA
6540978 AAAAATGAAC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.34, C:0.03, G:0.08, T:0.55
Consensus pattern (20 bp):
TTATGTATTTTTATAAAACT
Found at i:6543807 original size:15 final size:14
Alignment explanation
Indices: 6543777--6543822 Score: 56
Period size: 15 Copynumber: 3.1 Consensus size: 14
6543767 TTATTATTAC
*
6543777 TATTACTTTTATTAT
1 TATTACTTTT-CTAT
6543792 TATTACTGTTTCTAT
1 TATTACT-TTTCTAT
*
6543807 TATTGCTTTTCTAT
1 TATTACTTTTCTAT
6543821 TA
1 TA
6543823 CTATTTATGT
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
14 9 0.32
15 16 0.57
16 3 0.11
ACGTcount: A:0.22, C:0.11, G:0.04, T:0.63
Consensus pattern (14 bp):
TATTACTTTTCTAT
Found at i:6543809 original size:21 final size:21
Alignment explanation
Indices: 6543767--6543983 Score: 78
Period size: 21 Copynumber: 10.2 Consensus size: 21
6543757 TTTTAATCAT
*
6543767 TTATTATTACTATTACTTTTA
1 TTATTATTACTATTACTATTA
* *
6543788 TTATTATTACTGTTTCTATTA
1 TTATTATTACTATTACTATTA
*
6543809 TTGCTT-TT-CTATTACTATTTA
1 TT-ATTATTACTATTACTA-TTA
*
6543830 TGTTATTGTTGGCACTATT-CTGTATT-
1 --TTATTATT---ACTATTAC--TATTA
* *
6543856 TTATTATTATTATTTATTATT-
1 TTATTATTACTA-TTACTATTA
* *
6543877 TTATCATTCCT-TT-CTATTA
1 TTATTATTACTATTACTATTA
* *
6543896 TTGTTATTATTAGTATACTATTA
1 TTATTATTACTA-T-TACTATTA
* *
6543919 TTATTCTTA-T-TAACGTATTA
1 TTATTATTACTATTAC-TATTA
* *
6543939 TTATTATTATTTTCTACT-TTA
1 TTATTATTACTAT-TACTATTA
* *
6543960 TTATTA-TATTATTACTATTG
1 TTATTATTACTATTACTATTA
6543980 TTAT
1 TTAT
6543984 CATCTTATTA
Statistics
Matches: 148, Mismatches: 25, Indels: 47
0.67 0.11 0.21
Matches are distributed among these distances:
18 4 0.03
19 15 0.10
20 32 0.22
21 51 0.34
22 10 0.07
23 19 0.13
24 7 0.05
26 1 0.01
27 7 0.05
28 2 0.01
ACGTcount: A:0.25, C:0.09, G:0.05, T:0.61
Consensus pattern (21 bp):
TTATTATTACTATTACTATTA
Found at i:6543819 original size:14 final size:15
Alignment explanation
Indices: 6543789--6543822 Score: 52
Period size: 14 Copynumber: 2.3 Consensus size: 15
6543779 TTACTTTTAT
6543789 TATTATTACTGTTTC
1 TATTATTACTGTTTC
*
6543804 TATTATTGCT-TTTC
1 TATTATTACTGTTTC
6543818 TATTA
1 TATTA
6543823 CTATTTATGT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 9 0.50
15 9 0.50
ACGTcount: A:0.21, C:0.12, G:0.06, T:0.62
Consensus pattern (15 bp):
TATTATTACTGTTTC
Found at i:6543864 original size:3 final size:3
Alignment explanation
Indices: 6543852--6543983 Score: 69
Period size: 3 Copynumber: 44.0 Consensus size: 3
6543842 CACTATTCTG
* *
6543852 TAT T-T TAT TAT TAT TATT TAT TAT T-T TAT CAT TCCT T-T CTAT TAT
1 TAT TAT TAT TAT TAT TA-T TAT TAT TAT TAT TAT T-AT TAT -TAT TAT
* * * * *
6543897 TGT TAT TAT TAG TA- TAC TAT TAT TAT TCT TAT TAACG TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T-A-T TAT TAT TAT
* * * *
6543943 TAT TAT TTT CTAC T-T TAT TAT TA- TAT TAT TAC TAT TGT TAT
1 TAT TAT TAT -TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
6543984 CATCTTATTA
Statistics
Matches: 98, Mismatches: 19, Indels: 24
0.70 0.13 0.17
Matches are distributed among these distances:
2 10 0.10
3 78 0.80
4 9 0.09
5 1 0.01
ACGTcount: A:0.27, C:0.08, G:0.03, T:0.62
Consensus pattern (3 bp):
TAT
Found at i:6543948 original size:20 final size:20
Alignment explanation
Indices: 6543894--6543983 Score: 78
Period size: 20 Copynumber: 4.5 Consensus size: 20
6543884 TCCTTTCTAT
* *
6543894 TATTGTTATTATTAGTATAC
1 TATTATTATTATTATTATAC
*
6543914 TATTATTATTCTTATTA-AC
1 TATTATTATTATTATTATAC
*
6543933 GTATTATTATTATTATT-TTC
1 -TATTATTATTATTATTATAC
6543953 TACTTTATTATTA-TATTATTAC
1 TA--TTATTATTATTATTA-TAC
*
6543975 TATTGTTAT
1 TATTATTAT
6543984 CATCTTATTA
Statistics
Matches: 57, Mismatches: 7, Indels: 12
0.75 0.09 0.16
Matches are distributed among these distances:
19 4 0.07
20 40 0.70
21 9 0.16
22 4 0.07
ACGTcount: A:0.29, C:0.07, G:0.04, T:0.60
Consensus pattern (20 bp):
TATTATTATTATTATTATAC
Found at i:6544079 original size:3 final size:3
Alignment explanation
Indices: 6544073--6544116 Score: 88
Period size: 3 Copynumber: 14.7 Consensus size: 3
6544063 GCTATTACAT
6544073 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
6544117 CTCTTAAAAT
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 41 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:6554677 original size:76 final size:76
Alignment explanation
Indices: 6554585--6555570 Score: 903
Period size: 76 Copynumber: 13.1 Consensus size: 76
6554575 GCTAAAGCAT
6554585 AGCAGATCTGACCTTCATTGAAGCAGATCCAAGATGATTTGGCATCTCTGTATTAGACGGGGAGC
1 AGCAGATCTGACCTTCATTGAAGCAGATCCAAGATGATTTGGCATCTCTGTATTAGACGGGGAGC
6554650 AGATCGAAGAC
66 AGATCGAAGAC
*
6554661 AGCAGATCTGACCTTCATTGAAACAGATCCAAGATGATTTGGCATCTCTGTATTAGACGGGGAGC
1 AGCAGATCTGACCTTCATTGAAGCAGATCCAAGATGATTTGGCATCTCTGTATTAGACGGGGAGC
*
6554726 ACATCGAAGAC
66 AGATCGAAGAC
*
6554737 AGCAGATCTGACCTTCATTGAAACAGATCCAAGATGATTTGGCATCTCTGTATTAGACGGGGAGC
1 AGCAGATCTGACCTTCATTGAAGCAGATCCAAGATGATTTGGCATCTCTGTATTAGACGGGGAGC
6554802 AGATCGAAGAC
66 AGATCGAAGAC
*
6554813 AGCAGATCTGACCTTCATTGAAGCAGATCCAAGATGATTTGGCATCTCTGTATTAGACGGTGAGC
1 AGCAGATCTGACCTTCATTGAAGCAGATCCAAGATGATTTGGCATCTCTGTATTAGACGGGGAGC
* *
6554878 AGATCAAATAC
66 AGATCGAAGAC
* * *
6554889 ATAACAGATCTGACCTTTATTGAAGTAGATCCAAGATGATTTGGCATCTCTGTATTAGACGGGGA
1 --AGCAGATCTGACCTTCATTGAAGCAGATCCAAGATGATTTGGCATCTCTGTATTAGACGGGGA
*
6554954 GCAAATCGAAGAC
64 GCAGATCGAAGAC
* *
6554967 AACAGATCTGACCTTCATTGAAGCAGATCTAAGATGATTTGGCATCTCTGTATTAGACGGGGAGC
1 AGCAGATCTGACCTTCATTGAAGCAGATCCAAGATGATTTGGCATCTCTGTATTAGACGGGGAGC
*
6555032 AGATCAAAGAC
66 AGATCGAAGAC
* * **
6555043 ATAGCAGATCTAACCTTCATTGAAGCAGATCCAAGATGATTTGGCATCTCTATATTAGACGGACA
1 --AGCAGATCTGACCTTCATTGAAGCAGATCCAAGATGATTTGGCATCTCTGTATTAGACGGGGA
6555108 GCAGATCAGACCTTCATTGA-
64 GCAGATC-GA-----A--GAC
* *** * * * ** * **
6555128 AGCAGATC-CAAGATGATTTG--GC--ATCTC-TG-T-A-TTAG-A-C-GGGGAGCAGATCGAAG
1 AGCAGATCTGACCTTCA-TTGAAGCAGATC-CAAGATGATTTGGCATCTCTGTATTAGA-CG--G
**
6555181 ACAGCAGATCTGACCTTCATTGA-
61 GGAGCAGATC-GA-----A--GAC
* * *** * * * ** * **
6555204 AACAGATC-CAAGATGATTTG--GC--ATCTC-TG-T-A-TTAG-A-C-GGGGAGCAGATC---G
1 AGCAGATCTGACCTTCA-TTGAAGCAGATC-CAAGATGATTTGGCATCTCTGTATTAGA-CGGGG
*
6555254 A--AGA-C--ATA-
63 AGCAGATCGAAGAC
* * *
6555262 A-CAGATCTGACCTTCATTGAAGCAGATCCAAGATGATTTGGCATCTCTGTATTAGACGAGAATC
1 AGCAGATCTGACCTTCATTGAAGCAGATCCAAGATGATTTGGCATCTCTGTATTAGACGGGGAGC
6555326 AGATCGAAGAC
66 AGATCGAAGAC
* * *
6555337 AGCAGATCTGACCTTCATTGAAACAAATCTAAGATGATTTGGCATCTCTGTATTAGACGGGGAGC
1 AGCAGATCTGACCTTCATTGAAGCAGATCCAAGATGATTTGGCATCTCTGTATTAGACGGGGAGC
6555402 AGATCGAAGAC
66 AGATCGAAGAC
* * * * *
6555413 AGTAGACCTGAACTTCATTGAAGCAGATCCAAGATAATTTGGCATCTCTGTATTAGATGGGGAGC
1 AGCAGATCTGACCTTCATTGAAGCAGATCCAAGATGATTTGGCATCTCTGTATTAGACGGGGAGC
6555478 AGATCGAAGAC
66 AGATCGAAGAC
* * * *
6555489 AGCAGATCTGACCTTCATTGAAGCAGCTCCAAGATGATTTGGCATCTCTGTATT-GTCAGAGAGC
1 AGCAGATCTGACCTTCATTGAAGCAGATCCAAGATGATTTGGCATCTCTGTATTAGACGGGGAGC
* *
6555553 AGATTGAAGAT
66 AGATCGAAGAC
6555564 AGCAGAT
1 AGCAGAT
6555571 TTGGCATCTC
Statistics
Matches: 789, Mismatches: 82, Indels: 79
0.83 0.09 0.08
Matches are distributed among these distances:
57 9 0.01
58 5 0.01
59 2 0.00
60 2 0.00
61 4 0.01
62 1 0.00
63 1 0.00
64 3 0.00
65 1 0.00
66 2 0.00
67 5 0.01
68 1 0.00
69 4 0.01
71 4 0.01
72 1 0.00
73 4 0.01
74 5 0.01
75 24 0.03
76 551 0.70
77 1 0.00
78 134 0.17
79 5 0.01
80 1 0.00
81 2 0.00
82 3 0.00
83 11 0.01
84 1 0.00
86 2 0.00
ACGTcount: A:0.32, C:0.19, G:0.24, T:0.25
Consensus pattern (76 bp):
AGCAGATCTGACCTTCATTGAAGCAGATCCAAGATGATTTGGCATCTCTGTATTAGACGGGGAGC
AGATCGAAGAC
Found at i:6554986 original size:154 final size:152
Alignment explanation
Indices: 6554585--6555114 Score: 871
Period size: 154 Copynumber: 3.5 Consensus size: 152
6554575 GCTAAAGCAT
6554585 AGCAGATCTGACCTTCATTGAAGCAGATCCAAGATGATTTGGCATCTCTGTATTAGACGGGGAGC
1 AGCAGATCTGACCTTCATTGAAGCAGATCCAAGATGATTTGGCATCTCTGTATTAGACGGGGAGC
*
6554650 AGATCGAAGACAGCAGATCTGACCTTCATTGAAACAGATCCAAGATGATTTGGCATCTCTGTATT
66 AGATCGAAGACAGCAGATCTGACCTTCATTGAAGCAGATCCAAGATGATTTGGCATCTCTGTATT
*
6554715 AGACGGGGAGCACATCGAAGAC
131 AGACGGGGAGCAGATCGAAGAC
*
6554737 AGCAGATCTGACCTTCATTGAAACAGATCCAAGATGATTTGGCATCTCTGTATTAGACGGGGAGC
1 AGCAGATCTGACCTTCATTGAAGCAGATCCAAGATGATTTGGCATCTCTGTATTAGACGGGGAGC
6554802 AGATCGAAGACAGCAGATCTGACCTTCATTGAAGCAGATCCAAGATGATTTGGCATCTCTGTATT
66 AGATCGAAGACAGCAGATCTGACCTTCATTGAAGCAGATCCAAGATGATTTGGCATCTCTGTATT
* * *
6554867 AGACGGTGAGCAGATCAAATAC
131 AGACGGGGAGCAGATCGAAGAC
* * *
6554889 ATAACAGATCTGACCTTTATTGAAGTAGATCCAAGATGATTTGGCATCTCTGTATTAGACGGGGA
1 --AGCAGATCTGACCTTCATTGAAGCAGATCCAAGATGATTTGGCATCTCTGTATTAGACGGGGA
* * *
6554954 GCAAATCGAAGACAACAGATCTGACCTTCATTGAAGCAGATCTAAGATGATTTGGCATCTCTGTA
64 GCAGATCGAAGACAGCAGATCTGACCTTCATTGAAGCAGATCCAAGATGATTTGGCATCTCTGTA
*
6555019 TTAGACGGGGAGCAGATCAAAGAC
129 TTAGACGGGGAGCAGATCGAAGAC
* * **
6555043 ATAGCAGATCTAACCTTCATTGAAGCAGATCCAAGATGATTTGGCATCTCTATATTAGACGGACA
1 --AGCAGATCTGACCTTCATTGAAGCAGATCCAAGATGATTTGGCATCTCTGTATTAGACGGGGA
6555108 GCAGATC
64 GCAGATC
6555115 AGACCTTCAT
Statistics
Matches: 353, Mismatches: 23, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
152 146 0.41
154 207 0.59
ACGTcount: A:0.32, C:0.19, G:0.23, T:0.25
Consensus pattern (152 bp):
AGCAGATCTGACCTTCATTGAAGCAGATCCAAGATGATTTGGCATCTCTGTATTAGACGGGGAGC
AGATCGAAGACAGCAGATCTGACCTTCATTGAAGCAGATCCAAGATGATTTGGCATCTCTGTATT
AGACGGGGAGCAGATCGAAGAC
Found at i:6555142 original size:62 final size:62
Alignment explanation
Indices: 6555045--6555176 Score: 221
Period size: 62 Copynumber: 2.1 Consensus size: 62
6555035 TCAAAGACAT
6555045 AGCAGATCTAACCTTCATTGAAGCAGATCCAAGATGATTTGGCATCTCTATATTAGACGGAC
1 AGCAGATCTAACCTTCATTGAAGCAGATCCAAGATGATTTGGCATCTCTATATTAGACGGAC
* **
6555107 AGCAGATC-AGACCTTCATTGAAGCAGATCCAAGATGATTTGGCATCTCTGTATTAGACGGGG
1 AGCAGATCTA-ACCTTCATTGAAGCAGATCCAAGATGATTTGGCATCTCTATATTAGACGGAC
6555169 AGCAGATC
1 AGCAGATC
6555177 GAAGACAGCA
Statistics
Matches: 66, Mismatches: 3, Indels: 2
0.93 0.04 0.03
Matches are distributed among these distances:
61 1 0.02
62 65 0.98
ACGTcount: A:0.31, C:0.20, G:0.23, T:0.26
Consensus pattern (62 bp):
AGCAGATCTAACCTTCATTGAAGCAGATCCAAGATGATTTGGCATCTCTATATTAGACGGAC
Found at i:6555191 original size:216 final size:214
Alignment explanation
Indices: 6554893--6555755 Score: 1116
Period size: 216 Copynumber: 4.0 Consensus size: 214
6554883 AAATACATAA
* * * *
6554893 CAGATCTGACCTTTATTGAAGTAGATCCAAGATGATTTGGCATCTCTGTATTAGACGGGGAGCAA
1 CAGATCAGACCTTCATTGAAGCAGATCCAAGATGATTTGGCATCTCTGTATTAGACGGGGAGCAG
* *
6554958 ATCGAAGACAACAGATCTGACCTTCATTGAAGCAGATCTAAGATGATTTGGCATCTCTGTATTAG
66 ATCGAAGACAGCAGATCTGACCTTCATTGAAGCAGATCCAAGATGATTTGGCATCTCTGTATTAG
* *
6555023 ACGGGGAGCAGATCAAAGACATAGCAGATCTAACCTTCATTGAAGCAGATCCAAGATGATTTGGC
131 ACGGGGAGCAGATCGAAGAC--AGCAGATCTGACCTTCATTGAAGCAGATCCAAGATGATTTGGC
6555088 ATCTCTATATTAGACGGACAG
194 ATCTCTATATTAGACGGACAG
6555109 CAGATCAGACCTTCATTGAAGCAGATCCAAGATGATTTGGCATCTCTGTATTAGACGGGGAGCAG
1 CAGATCAGACCTTCATTGAAGCAGATCCAAGATGATTTGGCATCTCTGTATTAGACGGGGAGCAG
*
6555174 ATCGAAGACAGCAGATCTGACCTTCATTGAAACAGATCCAAGATGATTTGGCATCTCTGTATTAG
66 ATCGAAGACAGCAGATCTGACCTTCATTGAAGCAGATCCAAGATGATTTGGCATCTCTGTATTAG
*
6555239 ACGGGGAGCAGATCGAAGACATAACAGATCTGACCTTCATTGAAGCAGATCCAAGATGATTTGGC
131 ACGGGGAGCAGATCGAAGAC--AGCAGATCTGACCTTCATTGAAGCAGATCCAAGATGATTTGGC
*
6555304 ATCTCTGTATTAGACGAGAATCAGATCGAAGACAG
194 ATCTC--TA-T--------ATTAGA-CG--GACAG
* * * *
6555339 CAGATCTGACCTTCATTGAAACAAATCTAAGATGATTTGGCATCTCTGTATTAGACGGGGAGCAG
1 CAGATCAGACCTTCATTGAAGCAGATCCAAGATGATTTGGCATCTCTGTATTAGACGGGGAGCAG
* * * *
6555404 ATCGAAGACAGTAGACCTGAACTTCATTGAAGCAGATCCAAGATAATTTGGCATCTCTGTATTAG
66 ATCGAAGACAGCAGATCTGACCTTCATTGAAGCAGATCCAAGATGATTTGGCATCTCTGTATTAG
* *
6555469 ATGGGGAGCAGATCGAAGACAGCAGATCTGACCTTCATTGAAGCAGCTCCAAGATGATTTGGCAT
131 ACGGGGAGCAGATCGAAGACAGCAGATCTGACCTTCATTGAAGCAGATCCAAGATGATTTGGCAT
* *
6555534 CTCTGTATT-----GTCAG
196 CTCTATATTAGACGGACAG
* *
6555548 -AGAGCAG------ATTG-A--AGAT---AGCA-GATTTGGCATCTCTGTATTAGACGGAGAGCA
1 CAGATCAGACCTTCATTGAAGCAGATCCAAG-ATGATTTGGCATCTCTGTATTAGACGGGGAGCA
** * * *
6555599 GATTAAAGACGCAGCAGATCTTACCTTCATTGAAGCAGATCCGAGATGATTTGGCATTTCTGTAT
65 GATCGAAGA--CAGCAGATCTGACCTTCATTGAAGCAGATCCAAGATGATTTGGCATCTCTGTAT
*
6555664 TAGACGGGGAGCAGATCGAAGACAGCAGATCTGACCTTCATTGAAACAGATCCAAGATGATTTGG
128 TAGACGGGGAGCAGATCGAAGACAGCAGATCTGACCTTCATTGAAGCAGATCCAAGATGATTTGG
*
6555729 CATCTCTATATTAGACGGAGAG
193 CATCTCTATATTAGACGGACAG
6555751 CAGAT
1 CAGAT
6555756 TGAAGACAGC
Statistics
Matches: 578, Mismatches: 46, Indels: 58
0.85 0.07 0.09
Matches are distributed among these distances:
196 39 0.07
197 1 0.00
198 120 0.21
199 3 0.01
201 1 0.00
202 4 0.01
203 3 0.01
204 3 0.01
208 5 0.01
209 4 0.01
216 190 0.33
217 2 0.00
218 2 0.00
219 1 0.00
225 1 0.00
226 1 0.00
227 5 0.01
228 48 0.08
230 145 0.25
ACGTcount: A:0.32, C:0.19, G:0.24, T:0.25
Consensus pattern (214 bp):
CAGATCAGACCTTCATTGAAGCAGATCCAAGATGATTTGGCATCTCTGTATTAGACGGGGAGCAG
ATCGAAGACAGCAGATCTGACCTTCATTGAAGCAGATCCAAGATGATTTGGCATCTCTGTATTAG
ACGGGGAGCAGATCGAAGACAGCAGATCTGACCTTCATTGAAGCAGATCCAAGATGATTTGGCAT
CTCTATATTAGACGGACAG
Found at i:6555283 original size:370 final size:374
Alignment explanation
Indices: 6554587--6555570 Score: 1417
Period size: 370 Copynumber: 2.6 Consensus size: 374
6554577 TAAAGCATAG
* * *
6554587 CAGATCTGACCTTCATTGAAGCAGATCCAAGATGATTTGGCATCTCTGTATTAGACGGGGAGCAG
1 CAGATCTGACCTTCATTGAAACAAATCTAAGATGATTTGGCATCTCTGTATTAGACGGGGAGCAG
* * * * *
6554652 ATCGAAGACAGCAGATCTGACCTTCATTGAAACAGATCCAAGATGATTTGGCATCTCTGTATTAG
66 ATCAAAGACAGCAGACCTGAACTTCATTGAAGCAGATCCAAGATAATTTGGCATCTC-GTATTA-
* * *
6554717 ACGGGGAGCACATCGAAGACAGCAGATCTGACCTTCATTGAAACAGATCCAAGATGATTTGGCAT
129 A-----TGCAGATCG-AGACAGCAGATCTGACCTTCATTGAAGCAGATCCAAGATGATTTGGCAT
*
6554782 CTCTGTATTAGACGGGGAGCAGATCGAAGACAGCAGATCTGACCTTCATTGAAGCAGATCCAAGA
188 CTCTGTATTAGACGGGGAGCAGATCGAAGACAGCAGATCTGACCTTCATTGAAACAGATCCAAGA
* * *
6554847 TGATTTGGCATCTCTGTATTAGACGGTGAGCAGATCAAATACATAACAGATCTGACCTTTATTGA
253 TGATTTGGCATCTCTGTATTAGACGGGGAGCAGATCAAAGACATAACAGATCTGACCTTCATTGA
* * *
6554912 AGTAGATCCAAGATGATTTGGCATCTCTGTATTAGACGGGGAGCAAATCGAAGACAA
318 AGCAGATCCAAGATGATTTGGCATCTCTGTATTAGACGAGAAGCAAATCGAAGACAA
* *
6554969 CAGATCTGACCTTCATTGAAGCAGATCTAAGATGATTTGGCATCTCTGTATTAGACGGGGAGCAG
1 CAGATCTGACCTTCATTGAAACAAATCTAAGATGATTTGGCATCTCTGTATTAGACGGGGAGCAG
* *
6555034 ATCAAAGACATAGCAGATCT-AACCTTCATTGAAGCAGATCCAAGATGATTTGGCATCTC-TA-T
66 ATCAAAGAC--AGCAGACCTGAA-CTTCATTGAAGCAGATCCAAGATAATTTGGCATCTCGTATT
* *
6555096 -AT-TAGA-CG-GACAGCAGATCAGACCTTCATTGAAGCAGATCCAAGATGATTTGGCATCTCTG
128 AATGCAGATCGAGACAGCAGATCTGACCTTCATTGAAGCAGATCCAAGATGATTTGGCATCTCTG
6555157 TATTAGACGGGGAGCAGATCGAAGACAGCAGATCTGACCTTCATTGAAACAGATCCAAGATGATT
193 TATTAGACGGGGAGCAGATCGAAGACAGCAGATCTGACCTTCATTGAAACAGATCCAAGATGATT
*
6555222 TGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGACATAACAGATCTGACCTTCATTGAAGCAG
258 TGGCATCTCTGTATTAGACGGGGAGCAGATCAAAGACATAACAGATCTGACCTTCATTGAAGCAG
* * *
6555287 ATCCAAGATGATTTGGCATCTCTGTATTAGACGAGAATCAGATCGAAGACAG
323 ATCCAAGATGATTTGGCATCTCTGTATTAGACGAGAAGCAAATCGAAGACAA
6555339 CAGATCTGACCTTCATTGAAACAAATCTAAGATGATTTGGCATCTCTGTATTAGACGGGGAGCAG
1 CAGATCTGACCTTCATTGAAACAAATCTAAGATGATTTGGCATCTCTGTATTAGACGGGGAGCAG
* *
6555404 ATCGAAGACAGTAGACCTGAACTTCATTGAAGCAGATCCAAGATAATTTGGCATCTCTGTATTAG
66 ATCAAAGACAGCAGACCTGAACTTCATTGAAGCAGATCCAAGATAATTTGGCATCTC-GTATTA-
*
6555469 ATGGGGAGCAGATCGAAGACAGCAGATCTGACCTTCATTGAAGCAGCTCCAAGATGATTTGGCAT
129 AT-----GCAGATCG-AGACAGCAGATCTGACCTTCATTGAAGCAGATCCAAGATGATTTGGCAT
* * * * *
6555534 CTCTGTATT-GTCAGAGAGCAGATTGAAGATAGCAGAT
188 CTCTGTATTAGACGGGGAGCAGATCGAAGACAGCAGAT
6555571 TTGGCATCTC
Statistics
Matches: 550, Mismatches: 34, Indels: 37
0.89 0.05 0.06
Matches are distributed among these distances:
368 42 0.08
369 2 0.00
370 295 0.54
371 1 0.00
372 2 0.00
373 4 0.01
379 4 0.01
380 2 0.00
381 24 0.04
382 129 0.23
383 1 0.00
384 44 0.08
ACGTcount: A:0.32, C:0.19, G:0.24, T:0.25
Consensus pattern (374 bp):
CAGATCTGACCTTCATTGAAACAAATCTAAGATGATTTGGCATCTCTGTATTAGACGGGGAGCAG
ATCAAAGACAGCAGACCTGAACTTCATTGAAGCAGATCCAAGATAATTTGGCATCTCGTATTAAT
GCAGATCGAGACAGCAGATCTGACCTTCATTGAAGCAGATCCAAGATGATTTGGCATCTCTGTAT
TAGACGGGGAGCAGATCGAAGACAGCAGATCTGACCTTCATTGAAACAGATCCAAGATGATTTGG
CATCTCTGTATTAGACGGGGAGCAGATCAAAGACATAACAGATCTGACCTTCATTGAAGCAGATC
CAAGATGATTTGGCATCTCTGTATTAGACGAGAAGCAAATCGAAGACAA
Found at i:6555315 original size:154 final size:153
Alignment explanation
Indices: 6555104--6555542 Score: 731
Period size: 154 Copynumber: 2.9 Consensus size: 153
6555094 ATATTAGACG
*
6555104 GACAG-CAGATCAGACCTTCATTGAAGCAGATCCAAGATGATTTGGCATCTCTGTATTAGACGGG
1 GACAGTCAGATCTGACCTTCATTGAAGCAGATCCAAGATGATTTGGCATCTCTGTATTAGACGGG
6555168 GAGCAGATCGAAGACAGCAGATCTGACCTTCATTGAAACAGATCCAAGATGATTTGGCATCTCTG
66 GAGCAGATCGAAGACAGCAGATCTGACCTTCATTGAAACAGATCCAAGATGATTTGGCATCTCTG
6555233 TATTAGACGGGGAGCAGATCGAA
131 TATTAGACGGGGAGCAGATCGAA
6555256 GACA-TAACAGATCTGACCTTCATTGAAGCAGATCCAAGATGATTTGGCATCTCTGTATTAGACG
1 GACAGT--CAGATCTGACCTTCATTGAAGCAGATCCAAGATGATTTGGCATCTCTGTATTAGACG
* * * * *
6555320 AGAATCAGATCGAAGACAGCAGATCTGACCTTCATTGAAACAAATCTAAGATGATTTGGCATCTC
64 GGGAGCAGATCGAAGACAGCAGATCTGACCTTCATTGAAACAGATCCAAGATGATTTGGCATCTC
6555385 TGTATTAGACGGGGAGCAGATCGAA
129 TGTATTAGACGGGGAGCAGATCGAA
* * * *
6555410 GACAGT-AGACCTGAACTTCATTGAAGCAGATCCAAGATAATTTGGCATCTCTGTATTAGATGGG
1 GACAGTCAGATCTGACCTTCATTGAAGCAGATCCAAGATGATTTGGCATCTCTGTATTAGACGGG
* *
6555474 GAGCAGATCGAAGACAGCAGATCTGACCTTCATTGAAGCAGCTCCAAGATGATTTGGCATCTCTG
66 GAGCAGATCGAAGACAGCAGATCTGACCTTCATTGAAACAGATCCAAGATGATTTGGCATCTCTG
6555539 TATT
131 TATT
6555543 GTCAGAGAGC
Statistics
Matches: 266, Mismatches: 17, Indels: 8
0.91 0.06 0.03
Matches are distributed among these distances:
152 120 0.45
154 145 0.55
155 1 0.00
ACGTcount: A:0.32, C:0.19, G:0.24, T:0.25
Consensus pattern (153 bp):
GACAGTCAGATCTGACCTTCATTGAAGCAGATCCAAGATGATTTGGCATCTCTGTATTAGACGGG
GAGCAGATCGAAGACAGCAGATCTGACCTTCATTGAAACAGATCCAAGATGATTTGGCATCTCTG
TATTAGACGGGGAGCAGATCGAA
Found at i:6555649 original size:122 final size:121
Alignment explanation
Indices: 6555449--6555693 Score: 348
Period size: 122 Copynumber: 2.0 Consensus size: 121
6555439 ATCCAAGATA
* * *
6555449 ATTTGGCATCTCTGTATTAGATGGGGAGCAGATCGAAGACAGCAGATCTGACCTTCATTGAAGCA
1 ATTTGGCATCTCTGTATTAGACGGAGAGCAGATCAAAGACAGCAGATCTGACCTTCATTGAAGCA
* * * *
6555514 GCTCCAAGATGATTTGGCATCTCTGTATT-GTCAGAGAGCAGATTGAAGATAGCAG
66 GATCCAAGATGATTTGGCATCTCTGTATTAGACAGAGAGCAGATCGAAGACAGCAG
* *
6555569 ATTTGGCATCTCTGTATTAGACGGAGAGCAGATTAAAGACGCAGCAGATCTTACCTTCATTGAAG
1 ATTTGGCATCTCTGTATTAGACGGAGAGCAGATCAAAGA--CAGCAGATCTGACCTTCATTGAAG
* * * *
6555634 CAGATCCGAGATGATTTGGCATTTCTGTATTAGACGGGGAGCAGATCGAAGACAGCAG
64 CAGATCCAAGATGATTTGGCATCTCTGTATTAGACAGAGAGCAGATCGAAGACAGCAG
6555692 AT
1 AT
6555694 CTGACCTTCA
Statistics
Matches: 109, Mismatches: 13, Indels: 3
0.87 0.10 0.02
Matches are distributed among these distances:
120 35 0.32
122 51 0.47
123 23 0.21
ACGTcount: A:0.30, C:0.18, G:0.27, T:0.26
Consensus pattern (121 bp):
ATTTGGCATCTCTGTATTAGACGGAGAGCAGATCAAAGACAGCAGATCTGACCTTCATTGAAGCA
GATCCAAGATGATTTGGCATCTCTGTATTAGACAGAGAGCAGATCGAAGACAGCAG
Found at i:6555708 original size:198 final size:197
Alignment explanation
Indices: 6555372--6555769 Score: 618
Period size: 198 Copynumber: 2.0 Consensus size: 197
6555362 AATCTAAGAT
* * *
6555372 GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGACAGTAGACCTGAACTTCATTGAAGC
1 GATTTGGCATCTCTGTATTAGACGGAGAGCAGATCAAAGACAGCAGACCTGAACTTCATTGAAGC
*
6555437 AGATCCAAGATAATTTGGCATCTCTGTATTAGATGGGGAGCAGATCGAAGACAGCAGATCTGACC
66 AGATCCAAGATAATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGACAGCAGATCTGACC
* * * * *
6555502 TTCATTGAAGCAGCTCCAAGATGATTTGGCATCTCTGTATT-GTCAGAGAGCAGATTGAAGATAG
131 TTCATTGAAACAGATCCAAGATGATTTGGCATCTCTATATTAGACAGAGAGCAGATTGAAGACAG
6555566 CA
196 CA
* * * *
6555568 GATTTGGCATCTCTGTATTAGACGGAGAGCAGATTAAAGACGCAGCAGATCTTACCTTCATTGAA
1 GATTTGGCATCTCTGTATTAGACGGAGAGCAGATCAAAGA--CAGCAGACCTGAACTTCATTGAA
* * *
6555633 GCAGATCCGAGATGATTTGGCATTTCTGTATTAGACGGGGAGCAGATCGAAGACAGCAGATCTGA
64 GCAGATCCAAGATAATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGACAGCAGATCTGA
*
6555698 CCTTCATTGAAACAGATCCAAGATGATTTGGCATCTCTATATTAGACGGAGAGCAGATTGAAGAC
129 CCTTCATTGAAACAGATCCAAGATGATTTGGCATCTCTATATTAGACAGAGAGCAGATTGAAGAC
6555763 AGCA
194 AGCA
6555767 GAT
1 GAT
6555770 CTGACCTTCA
Statistics
Matches: 182, Mismatches: 17, Indels: 3
0.90 0.08 0.01
Matches are distributed among these distances:
196 37 0.20
198 120 0.66
199 25 0.14
ACGTcount: A:0.31, C:0.18, G:0.26, T:0.25
Consensus pattern (197 bp):
GATTTGGCATCTCTGTATTAGACGGAGAGCAGATCAAAGACAGCAGACCTGAACTTCATTGAAGC
AGATCCAAGATAATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGACAGCAGATCTGACC
TTCATTGAAACAGATCCAAGATGATTTGGCATCTCTATATTAGACAGAGAGCAGATTGAAGACAG
CA
Found at i:6555725 original size:76 final size:76
Alignment explanation
Indices: 6555568--6555796 Score: 359
Period size: 76 Copynumber: 3.0 Consensus size: 76
6555558 GAAGATAGCA
* *
6555568 GATTTGGCATCTCTGTATTAGACGGAGAGCAGATTAAAGACGCAGCAGATCTTACCTTCATTGAA
1 GATTTGGCATCTCTGTATTAGACGGAGAGCAGATTGAAGA--CAGCAGATCTGACCTTCATTGAA
*
6555633 GCAGATCCGAGAT
64 GCAGATCCAAGAT
* * * *
6555646 GATTTGGCATTTCTGTATTAGACGGGGAGCAGATCGAAGACAGCAGATCTGACCTTCATTGAAAC
1 GATTTGGCATCTCTGTATTAGACGGAGAGCAGATTGAAGACAGCAGATCTGACCTTCATTGAAGC
6555711 AGATCCAAGAT
66 AGATCCAAGAT
*
6555722 GATTTGGCATCTCTATATTAGACGGAGAGCAGATTGAAGACAGCAGATCTGACCTTCATTGAAGC
1 GATTTGGCATCTCTGTATTAGACGGAGAGCAGATTGAAGACAGCAGATCTGACCTTCATTGAAGC
*
6555787 AGATCAAAGA
66 AGATCCAAGA
6555797 CATAACAGGT
Statistics
Matches: 138, Mismatches: 13, Indels: 2
0.90 0.08 0.01
Matches are distributed among these distances:
76 102 0.74
78 36 0.26
ACGTcount: A:0.32, C:0.18, G:0.24, T:0.25
Consensus pattern (76 bp):
GATTTGGCATCTCTGTATTAGACGGAGAGCAGATTGAAGACAGCAGATCTGACCTTCATTGAAGC
AGATCCAAGAT
Found at i:6556682 original size:9 final size:9
Alignment explanation
Indices: 6556668--6556693 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
6556658 CATGTACGGT
6556668 GGCGCGTGA
1 GGCGCGTGA
6556677 GGCGCGTGA
1 GGCGCGTGA
6556686 GGCGCGTG
1 GGCGCGTG
6556694 CAGCGGTGGC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.08, C:0.23, G:0.58, T:0.12
Consensus pattern (9 bp):
GGCGCGTGA
Found at i:6564962 original size:16 final size:16
Alignment explanation
Indices: 6564941--6564972 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
6564931 CAAACTCTAA
*
6564941 TTTTTCTTTTTTCTTT
1 TTTTTCTTCTTTCTTT
6564957 TTTTTCTTCTTTCTTT
1 TTTTTCTTCTTTCTTT
6564973 CTATTTCGTT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.00, C:0.16, G:0.00, T:0.84
Consensus pattern (16 bp):
TTTTTCTTCTTTCTTT
Found at i:6565187 original size:3 final size:3
Alignment explanation
Indices: 6565166--6565212 Score: 71
Period size: 3 Copynumber: 16.0 Consensus size: 3
6565156 TTTTCTGAAT
6565166 TAA TAGA TAA -AA T-A TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TA-A TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
6565210 TAA
1 TAA
6565213 GTAAATATCT
Statistics
Matches: 41, Mismatches: 0, Indels: 6
0.87 0.00 0.13
Matches are distributed among these distances:
2 4 0.10
3 34 0.83
4 3 0.07
ACGTcount: A:0.66, C:0.00, G:0.02, T:0.32
Consensus pattern (3 bp):
TAA
Found at i:6572439 original size:33 final size:33
Alignment explanation
Indices: 6572396--6572519 Score: 194
Period size: 33 Copynumber: 3.8 Consensus size: 33
6572386 TTTCTTCTTG
*
6572396 ACATTCCAGCTACTGTCCAGCAACCAAACACTC
1 ACATTCCAGCTCCTGTCCAGCAACCAAACACTC
* *
6572429 ACATTTCAGCTCCTGTCTAGCAACCAAACACTC
1 ACATTCCAGCTCCTGTCCAGCAACCAAACACTC
*
6572462 ACATTCCAGCTCCCGTCCAGCAACCAAACACTC
1 ACATTCCAGCTCCTGTCCAGCAACCAAACACTC
* *
6572495 ACATTCTAGCTCCTATCCAGCAACC
1 ACATTCCAGCTCCTGTCCAGCAACC
6572520 TGAAACAGAG
Statistics
Matches: 82, Mismatches: 9, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
33 82 1.00
ACGTcount: A:0.31, C:0.40, G:0.09, T:0.20
Consensus pattern (33 bp):
ACATTCCAGCTCCTGTCCAGCAACCAAACACTC
Found at i:6575018 original size:89 final size:89
Alignment explanation
Indices: 6574852--6575029 Score: 250
Period size: 88 Copynumber: 2.0 Consensus size: 89
6574842 GCATATGTCT
*
6574852 GGTTACATGTAAAATATTACAGTTAATTATTATCGGATGTAACCTTATTAGCAGATTGAATATAC
1 GGTTACATGTAAAATATTAAAGTTAATTATTATCGGATGTAACCTTATTAGCAGATTGAATATAC
6574917 TATGACATTGTA-TTTCATTTCTC
66 TATGACATTGTATTTTCATTTCTC
* * * * **
6574940 GGTTACATGTAAACTATTAAAGTTAATTCTTATTGGATGTTGACCTTATTAGTGGATTGAATATA
1 GGTTACATGTAAAATATTAAAGTTAATTATTATCGGATG-TAACCTTATTAGCAGATTGAATATA
* * *
6575005 GTGTGACATTGTATTTTCCTTTCTC
65 CTATGACATTGTATTTTCATTTCTC
6575030 AAGGAAAATA
Statistics
Matches: 78, Mismatches: 10, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
88 35 0.45
89 33 0.42
90 10 0.13
ACGTcount: A:0.30, C:0.12, G:0.16, T:0.43
Consensus pattern (89 bp):
GGTTACATGTAAAATATTAAAGTTAATTATTATCGGATGTAACCTTATTAGCAGATTGAATATAC
TATGACATTGTATTTTCATTTCTC
Found at i:6584995 original size:18 final size:18
Alignment explanation
Indices: 6584972--6585006 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
6584962 TTTAAATTAC
6584972 ATAATATAATACAATACA
1 ATAATATAATACAATACA
*
6584990 ATAATATATTACAATAC
1 ATAATATAATACAATAC
6585007 TTAAAAACAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.57, C:0.11, G:0.00, T:0.31
Consensus pattern (18 bp):
ATAATATAATACAATACA
Found at i:6587770 original size:13 final size:13
Alignment explanation
Indices: 6587754--6587778 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
6587744 TTCATAACTA
6587754 CTTTTTAAAAGTC
1 CTTTTTAAAAGTC
6587767 CTTTTTAAAAGT
1 CTTTTTAAAAGT
6587779 ATTGCCAAAC
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:0.12, G:0.08, T:0.48
Consensus pattern (13 bp):
CTTTTTAAAAGTC
Found at i:6590495 original size:21 final size:23
Alignment explanation
Indices: 6590461--6590509 Score: 68
Period size: 22 Copynumber: 2.3 Consensus size: 23
6590451 AAAAAAAATT
6590461 AGAATTTTGAAAAAATTA-AAAA
1 AGAATTTTGAAAAAATTATAAAA
*
6590483 AGAATTTT-TAAAAATTATAAAA
1 AGAATTTTGAAAAAATTATAAAA
6590505 A-AATT
1 AGAATT
6590510 ACTAAAAACA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
21 12 0.48
22 13 0.52
ACGTcount: A:0.61, C:0.00, G:0.06, T:0.33
Consensus pattern (23 bp):
AGAATTTTGAAAAAATTATAAAA
Found at i:6590515 original size:21 final size:22
Alignment explanation
Indices: 6590471--6590525 Score: 62
Period size: 21 Copynumber: 2.6 Consensus size: 22
6590461 AGAATTTTGA
**
6590471 AAAAATTA-AAAAAGAATTTTT
1 AAAAATTATAAAAAGAATTACT
6590492 AAAAATTATAAAAA-AATTACT
1 AAAAATTATAAAAAGAATTACT
*
6590513 AAAAA-CATAAAAA
1 AAAAATTATAAAAA
6590526 TTAGAAAATT
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
20 7 0.23
21 18 0.60
22 5 0.17
ACGTcount: A:0.69, C:0.04, G:0.02, T:0.25
Consensus pattern (22 bp):
AAAAATTATAAAAAGAATTACT
Found at i:6590588 original size:19 final size:19
Alignment explanation
Indices: 6590566--6590605 Score: 62
Period size: 19 Copynumber: 2.1 Consensus size: 19
6590556 TATTATAACT
*
6590566 TTTTAAAAAAAGTATAAAA
1 TTTTAAAAAAAGTAAAAAA
*
6590585 TTTTAAAAAATGTAAAAAA
1 TTTTAAAAAAAGTAAAAAA
6590604 TT
1 TT
6590606 ATAATATACT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.60, C:0.00, G:0.05, T:0.35
Consensus pattern (19 bp):
TTTTAAAAAAAGTAAAAAA
Found at i:6591439 original size:29 final size:29
Alignment explanation
Indices: 6591407--6591463 Score: 80
Period size: 29 Copynumber: 1.9 Consensus size: 29
6591397 AGGTTAAAAT
*
6591407 ATTTATAATTT-TTTTTGTAGTTTTTATAA
1 ATTTAAAATTTATTTTTGTA-TTTTTATAA
6591436 ATTTAAAATTTAATTTTTGTATTTTTAT
1 ATTTAAAATTT-ATTTTTGTATTTTTAT
6591464 TTTTAAGAAT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
29 10 0.40
30 7 0.28
31 8 0.32
ACGTcount: A:0.30, C:0.00, G:0.05, T:0.65
Consensus pattern (29 bp):
ATTTAAAATTTATTTTTGTATTTTTATAA
Found at i:6592243 original size:14 final size:15
Alignment explanation
Indices: 6592219--6592247 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
6592209 GTTACTGTTA
6592219 TGGTAGTTTGCCTTG
1 TGGTAGTTTGCCTTG
6592234 TGGT-GTTTGCCTTG
1 TGGTAGTTTGCCTTG
6592248 AAGCTTAAGA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 10 0.71
15 4 0.29
ACGTcount: A:0.03, C:0.14, G:0.34, T:0.48
Consensus pattern (15 bp):
TGGTAGTTTGCCTTG
Found at i:6595701 original size:31 final size:32
Alignment explanation
Indices: 6595666--6595725 Score: 86
Period size: 31 Copynumber: 1.9 Consensus size: 32
6595656 AATTTTCTTT
*
6595666 AAAATATAATAATT-TTTAAAAAATTAATTCC
1 AAAATATAATAATTATTCAAAAAATTAATTCC
* *
6595697 AAAATTTAATAATTATTCAACAAATTAAT
1 AAAATATAATAATTATTCAAAAAATTAAT
6595726 ATCTATGGAC
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
31 13 0.52
32 12 0.48
ACGTcount: A:0.55, C:0.07, G:0.00, T:0.38
Consensus pattern (32 bp):
AAAATATAATAATTATTCAAAAAATTAATTCC
Found at i:6599779 original size:3 final size:3
Alignment explanation
Indices: 6599773--6599802 Score: 51
Period size: 3 Copynumber: 10.0 Consensus size: 3
6599763 TTCTTTTCCT
*
6599773 TTA TTA TTA TTA TTA TTG TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
6599803 ATTCTTTTTC
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.30, C:0.00, G:0.03, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:6601428 original size:16 final size:16
Alignment explanation
Indices: 6601407--6601445 Score: 53
Period size: 16 Copynumber: 2.5 Consensus size: 16
6601397 GTAATACATG
6601407 ATATATTAATTATTAT
1 ATATATTAATTATTAT
**
6601423 ATATATTGTTTATTAT
1 ATATATTAATTATTAT
6601439 -TATATTA
1 ATATATTA
6601446 TGTAATGTTA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
15 6 0.30
16 14 0.70
ACGTcount: A:0.38, C:0.00, G:0.03, T:0.59
Consensus pattern (16 bp):
ATATATTAATTATTAT
Found at i:6604070 original size:25 final size:25
Alignment explanation
Indices: 6604036--6604088 Score: 106
Period size: 25 Copynumber: 2.1 Consensus size: 25
6604026 CACCCAGCAC
6604036 CATTCTTACCTCATGTATATATCAT
1 CATTCTTACCTCATGTATATATCAT
6604061 CATTCTTACCTCATGTATATATCAT
1 CATTCTTACCTCATGTATATATCAT
6604086 CAT
1 CAT
6604089 GCAGAGAAAT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 28 1.00
ACGTcount: A:0.28, C:0.25, G:0.04, T:0.43
Consensus pattern (25 bp):
CATTCTTACCTCATGTATATATCAT
Found at i:6605905 original size:24 final size:24
Alignment explanation
Indices: 6605877--6605929 Score: 97
Period size: 24 Copynumber: 2.2 Consensus size: 24
6605867 GGGTGGGCTG
6605877 CTTATGTCACAAACTTAGGCTGTA
1 CTTATGTCACAAACTTAGGCTGTA
6605901 CTTATGTCACAAACTTAGGCTGTA
1 CTTATGTCACAAACTTAGGCTGTA
*
6605925 TTTAT
1 CTTAT
6605930 TATTTTGCTT
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.28, C:0.19, G:0.15, T:0.38
Consensus pattern (24 bp):
CTTATGTCACAAACTTAGGCTGTA
Found at i:6607279 original size:24 final size:24
Alignment explanation
Indices: 6607202--6607282 Score: 62
Period size: 24 Copynumber: 3.4 Consensus size: 24
6607192 ACCCTAATTT
* *
6607202 TAATTTAGATTACTTTATGGTTGT
1 TAATTTAGATTAATTTATGGTTGA
*
6607226 TAA-TTA-ATTAGACTTTA--GTTAAA
1 TAATTTAGATTA-A-TTTATGGTT-GA
*
6607249 CATATTTAGATTAATTTATGGTTGA
1 TA-ATTTAGATTAATTTATGGTTGA
6607274 TAATTTAGA
1 TAATTTAGA
6607283 CTTTATTTTG
Statistics
Matches: 43, Mismatches: 6, Indels: 16
0.66 0.09 0.25
Matches are distributed among these distances:
22 7 0.16
23 4 0.09
24 19 0.44
25 6 0.14
26 7 0.16
ACGTcount: A:0.35, C:0.04, G:0.14, T:0.48
Consensus pattern (24 bp):
TAATTTAGATTAATTTATGGTTGA
Found at i:6609975 original size:21 final size:21
Alignment explanation
Indices: 6609949--6609991 Score: 77
Period size: 21 Copynumber: 2.0 Consensus size: 21
6609939 GCAACATTAA
6609949 CTTAATCTAATAACATTAGCC
1 CTTAATCTAATAACATTAGCC
*
6609970 CTTAATTTAATAACATTAGCC
1 CTTAATCTAATAACATTAGCC
6609991 C
1 C
6609992 CAACTTTTGG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.37, C:0.23, G:0.05, T:0.35
Consensus pattern (21 bp):
CTTAATCTAATAACATTAGCC
Found at i:6614590 original size:18 final size:17
Alignment explanation
Indices: 6614549--6614590 Score: 52
Period size: 18 Copynumber: 2.5 Consensus size: 17
6614539 TAAATTTCGG
6614549 TTATTA-ATTTTAATAT
1 TTATTAGATTTTAATAT
6614565 TTGA-TAGATTTTAAATAT
1 TT-ATTAGATTTT-AATAT
6614583 TTATTAGA
1 TTATTAGA
6614591 ATAACTTATA
Statistics
Matches: 22, Mismatches: 0, Indels: 6
0.79 0.00 0.21
Matches are distributed among these distances:
16 4 0.18
17 7 0.32
18 11 0.50
ACGTcount: A:0.38, C:0.00, G:0.07, T:0.55
Consensus pattern (17 bp):
TTATTAGATTTTAATAT
Found at i:6615157 original size:15 final size:15
Alignment explanation
Indices: 6615137--6615198 Score: 58
Period size: 15 Copynumber: 4.3 Consensus size: 15
6615127 TTATTCTTAT
*
6615137 TTTTTTCCTATATTA
1 TTTTTTCATATATTA
* *
6615152 TTTTTTAAAATA-TA
1 TTTTTTCATATATTA
*
6615166 TTATTTTCATATTTTA
1 TT-TTTTCATATATTA
6615182 TTTTTT--TATATTA
1 TTTTTTCATATATTA
6615195 TTTT
1 TTTT
6615199 AGCAAAAAAT
Statistics
Matches: 38, Mismatches: 7, Indels: 6
0.75 0.14 0.12
Matches are distributed among these distances:
13 10 0.26
14 4 0.11
15 20 0.53
16 4 0.11
ACGTcount: A:0.26, C:0.05, G:0.00, T:0.69
Consensus pattern (15 bp):
TTTTTTCATATATTA
Found at i:6615327 original size:298 final size:300
Alignment explanation
Indices: 6614724--6615937 Score: 1613
Period size: 298 Copynumber: 4.1 Consensus size: 300
6614714 ATAAGTAAAA
* * * * *
6614724 TATTTTCGTATATTATTT-TTTATATTATTTTAGCAAAAAATGTTTCAAATGTATTATGTAAGTA
1 TATTTTCGTATTTTATTTCTTTATATTATTTTAGTACATAATGTTTCAAATGTATTATTTAAGTA
** * * *
6614788 TTTTTTTATATTAATTTAATAAATAACCCTGATTTTGGCACTTTCTTCGTATTTTTTTTAGTTTC
66 TTTTTTTATATTTTTTTAATAAATAACCCTGATTTTAGCACTTTATTC--A-TTATTTT--TTTC
* * ** * * * *
6614853 GTATCTTCTTTTTTAAAATATATTATTTTTGTATTTTATTTCTTTATATTATTTTAGTACATAAT
126 GTATATTATTTTTTAAAATATATTATTTTCATATTTTATTTTTTTATATTATTTTAGCAAAAAAT
* * ** *
6614918 GTTTCAAATGTATTATTTAAAT-ATTTTTTATATTTTTTTAATAAATAACCCTGA-TTTCAGCAC
191 GTTTCAAATGTATTATTTAAGTGTTTTTTTATATTAATTTAATAAATAACCCTGATTTTGA-CAC
* *
6614981 TTTATTCGTA----TTT-TTTT-GTATCTTCTTTTTTAAAATATAT
255 TTTCTTCGTATTTTTTTATTTTCGTATCTTATTTTTTAAAATATAT
*
6615021 TATTTTCGTATTTTATTTCTTTATATTATTTTAGTACATAATGTTTCAAATGTATTATTTGAGT-
1 TATTTTCGTATTTTATTTCTTTATATTATTTTAGTACATAATGTTTCAAATGTATTATTTAAGTA
* * * *
6615085 CTTTTTTATATTTTTTTAATAAATAATCCTTATTTTAGCACTTTATTC-TTATTTTTTTCCTATA
66 TTTTTTTATATTTTTTTAATAAATAACCCTGATTTTAGCACTTTATTCATTATTTTTTTCGTATA
6615149 TTATTTTTTAAAATATATTATTTTCATATTTTATTTTTTTATATTATTTTAGCAAAAAATGTTTC
131 TTATTTTTTAAAATATATTATTTTCATATTTTATTTTTTTATATTATTTTAGCAAAAAATGTTTC
* *
6615214 AAATGTATTATGTAAGTGTTTTTTTATATTAATTGAATAAATAACCCTGATTTTGACACTTTCTT
196 AAATGTATTATTTAAGTGTTTTTTTATATTAATTTAATAAATAACCCTGATTTTGACACTTTCTT
6615279 CGTATTTTTTTATTTTCGTATCTTATTTTTTAAAATATAT
261 CGTATTTTTTTATTTTCGTATCTTATTTTTTAAAATATAT
*
6615319 TATTTTCGTATTTTATTTCTTCATATTATTTTAGTACATAATGTTTCAAATGTATTATTTAAGT-
1 TATTTTCGTATTTTATTTCTTTATATTATTTTAGTACATAATGTTTCAAATGTATTATTTAAGTA
* * *
6615383 GTTTTTTATATTTTTTCAATAAATAACCCTGATTTTAGCACTTTATTC-GTATTTTTTTCGTATA
66 TTTTTTTATATTTTTTTAATAAATAACCCTGATTTTAGCACTTTATTCATTATTTTTTTCGTATA
*
6615447 TTATTTTTTAAAATATATTATTTTCATATATTATTTTTTTATATTATTTTAGCAAAAAATGTTTC
131 TTATTTTTTAAAATATATTATTTTCATATTTTATTTTTTTATATTATTTTAGCAAAAAATGTTTC
* * * * *
6615512 AAATGTATTACTTAAGTATTTCTTTATATTAATTTAATAAATAACCATGATTTTAACACTTTCTT
196 AAATGTATTATTTAAGTGTTTTTTTATATTAATTTAATAAATAACCCTGATTTTGACACTTTCTT
* *
6615577 CGTAATTTTTTTATTTTTGTATCTTATTTTTTAAAATATCT
261 CGT-ATTTTTTTATTTTCGTATCTTATTTTTTAAAATATAT
*
6615618 TATTTTCGTATTTTATTTCTTTATATTATTTTAGTACATAATGTTTCAAATGTATTATTTAAGTG
1 TATTTTCGTATTTTATTTCTTTATATTATTTTAGTACATAATGTTTCAAATGTATTATTTAAGTA
*
6615683 TTTTTTTATATTTTTTTAATAAATAACCCTGATTTTAGCACTTTATTCATATTTTTTATTTTCGT
66 TTTTTTTATATTTTTTTAATAAATAACCCTGATTTTAGCACTTTATTC--ATTATTT-TTTTCGT
* * **
6615748 ATATTATTTTTTAAAATATATTATTTTC-----GTA------T-T-TTATTTTAGCATAAAACCT
128 ATATTATTTTTTAAAATATATTATTTTCATATTTTATTTTTTTATATTATTTTAGCAAAAAATGT
* * *
6615800 TTCAAATGTATTATTTAA--GTTTTTTTATATTAATTTAATAAATAACCCTGAATTTGGCACCTT
193 TTCAAATGTATTATTTAAGTGTTTTTTTATATTAATTTAATAAATAACCCTGATTTTGACACTTT
* * * *
6615863 GTTCGTATTTTTTTATTTTCGGATTTTATTTTTTAAAATATAC
258 CTTCGTATTTTTTTATTTTCGTATCTTATTTTTTAAAATATAT
*
6615906 TATTTTCATATTTTATTT-TTTATATTATTTTA
1 TATTTTCGTATTTTATTTCTTTATATTATTTTA
6615938 ACAAAAAACT
Statistics
Matches: 828, Mismatches: 74, Indels: 40
0.88 0.08 0.04
Matches are distributed among these distances:
287 14 0.02
288 49 0.06
289 43 0.05
291 113 0.14
292 41 0.05
293 11 0.01
296 3 0.00
297 62 0.07
298 307 0.37
299 100 0.12
300 46 0.06
303 4 0.00
304 35 0.04
ACGTcount: A:0.29, C:0.08, G:0.06, T:0.57
Consensus pattern (300 bp):
TATTTTCGTATTTTATTTCTTTATATTATTTTAGTACATAATGTTTCAAATGTATTATTTAAGTA
TTTTTTTATATTTTTTTAATAAATAACCCTGATTTTAGCACTTTATTCATTATTTTTTTCGTATA
TTATTTTTTAAAATATATTATTTTCATATTTTATTTTTTTATATTATTTTAGCAAAAAATGTTTC
AAATGTATTATTTAAGTGTTTTTTTATATTAATTTAATAAATAACCCTGATTTTGACACTTTCTT
CGTATTTTTTTATTTTCGTATCTTATTTTTTAAAATATAT
Found at i:6615335 original size:16 final size:16
Alignment explanation
Indices: 6615277--6615335 Score: 50
Period size: 16 Copynumber: 3.8 Consensus size: 16
6615267 TGACACTTTC
*
6615277 TTCGTATTTTTTTATT
1 TTCGTATTTTATTATT
*
6615293 TTCGTATCTTATT-TT
1 TTCGTATTTTATTATT
** * *
6615308 TT-AAAATATATTATT
1 TTCGTATTTTATTATT
6615323 TTCGTATTTTATT
1 TTCGTATTTTATT
6615336 TCTTCATATT
Statistics
Matches: 30, Mismatches: 11, Indels: 4
0.67 0.24 0.09
Matches are distributed among these distances:
14 5 0.17
15 8 0.27
16 17 0.57
ACGTcount: A:0.22, C:0.07, G:0.05, T:0.66
Consensus pattern (16 bp):
TTCGTATTTTATTATT
Found at i:6615455 original size:15 final size:15
Alignment explanation
Indices: 6615435--6615496 Score: 67
Period size: 15 Copynumber: 4.3 Consensus size: 15
6615425 TTATTCGTAT
*
6615435 TTTTTTCGTATATTA
1 TTTTTTCATATATTA
* *
6615450 TTTTTTAAAATA-TA
1 TTTTTTCATATATTA
6615464 TTATTTTCATATATTA
1 TT-TTTTCATATATTA
6615480 TTTTTT--TATATTA
1 TTTTTTCATATATTA
6615493 TTTT
1 TTTT
6615497 AGCAAAAAAT
Statistics
Matches: 40, Mismatches: 5, Indels: 6
0.78 0.10 0.12
Matches are distributed among these distances:
13 11 0.28
14 4 0.10
15 21 0.52
16 4 0.10
ACGTcount: A:0.27, C:0.03, G:0.02, T:0.68
Consensus pattern (15 bp):
TTTTTTCATATATTA
Found at i:6615477 original size:13 final size:13
Alignment explanation
Indices: 6615459--6615496 Score: 58
Period size: 13 Copynumber: 2.9 Consensus size: 13
6615449 ATTTTTTAAA
6615459 ATATATTATTTTC
1 ATATATTATTTTC
*
6615472 ATATATTATTTTT
1 ATATATTATTTTC
*
6615485 TTATATTATTTT
1 ATATATTATTTT
6615497 AGCAAAAAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
13 23 1.00
ACGTcount: A:0.29, C:0.03, G:0.00, T:0.68
Consensus pattern (13 bp):
ATATATTATTTTC
Found at i:6615919 original size:137 final size:137
Alignment explanation
Indices: 6615661--6615924 Score: 404
Period size: 137 Copynumber: 1.9 Consensus size: 137
6615651 GTACATAATG
** * *
6615661 TTTCAAATGTATTATTTAAGTGTTTTTTTATATTTTTTTAATAAATAACCCTGATTTTAGCACTT
1 TTTCAAATGTATTATTTAAG-GTTTTTTTATATTAATTTAATAAATAACCCTGAATTTAGCACCT
* * *
6615726 TATTCATATTTTTTATTTTCGTATATTATTTTTTAAAATATATTATTTTCGTATTTTATTTTAGC
65 TATTCATATTTTTTATTTTCGGATATTATTTTTTAAAATATACTATTTTCATATTTTATTTTAGC
6615791 ATAAAACC
130 ATAAAACC
*
6615799 TTTCAAATGTATTATTTAA-GTTTTTTTATATTAATTTAATAAATAACCCTGAATTTGGCACCTT
1 TTTCAAATGTATTATTTAAGGTTTTTTTATATTAATTTAATAAATAACCCTGAATTTAGCACCTT
* * *
6615863 GTTCGTATTTTTTTATTTTCGGATTTTATTTTTTAAAATATACTATTTTCATATTTTATTTT
66 ATTCATA-TTTTTTATTTTCGGATATTATTTTTTAAAATATACTATTTTCATATTTTATTTT
6615925 TTATATTATT
Statistics
Matches: 114, Mismatches: 11, Indels: 3
0.89 0.09 0.02
Matches are distributed among these distances:
136 45 0.39
137 50 0.44
138 19 0.17
ACGTcount: A:0.29, C:0.09, G:0.06, T:0.56
Consensus pattern (137 bp):
TTTCAAATGTATTATTTAAGGTTTTTTTATATTAATTTAATAAATAACCCTGAATTTAGCACCTT
ATTCATATTTTTTATTTTCGGATATTATTTTTTAAAATATACTATTTTCATATTTTATTTTAGCA
TAAAACC
Found at i:6616443 original size:17 final size:18
Alignment explanation
Indices: 6616421--6616467 Score: 51
Period size: 19 Copynumber: 2.6 Consensus size: 18
6616411 CTTTTTTTTC
6616421 CTTCTTTTTCCTTC-CCT
1 CTTCTTTTTCCTTCTCCT
*
6616438 CTTCTTCTTCTCCTTCTCTT
1 CTTCTT-TT-TCCTTCTCCT
*
6616458 TTTCTTTTTC
1 CTTCTTTTTC
6616468 TTTTTTCTTC
Statistics
Matches: 25, Mismatches: 2, Indels: 5
0.78 0.06 0.16
Matches are distributed among these distances:
17 6 0.24
18 4 0.16
19 8 0.32
20 7 0.28
ACGTcount: A:0.00, C:0.36, G:0.00, T:0.64
Consensus pattern (18 bp):
CTTCTTTTTCCTTCTCCT
Found at i:6616481 original size:14 final size:14
Alignment explanation
Indices: 6616411--6616477 Score: 59
Period size: 14 Copynumber: 4.8 Consensus size: 14
6616401 AAAAAATTAC
6616411 CTTTTTT-TTCCTT
1 CTTTTTTCTTCCTT
* *
6616424 CTTTTTCCTTCCCT
1 CTTTTTTCTTCCTT
6616438 CTTCTTCTTC-TCCTT
1 CTT-TT-TTCTTCCTT
*
6616453 CTCTTTTTCTT-TTT
1 CT-TTTTTCTTCCTT
6616467 CTTTTTTCTTC
1 CTTTTTTCTTC
6616478 TTTCAACTGC
Statistics
Matches: 43, Mismatches: 5, Indels: 11
0.73 0.08 0.19
Matches are distributed among these distances:
13 14 0.33
14 15 0.35
15 11 0.26
16 3 0.07
ACGTcount: A:0.00, C:0.31, G:0.00, T:0.69
Consensus pattern (14 bp):
CTTTTTTCTTCCTT
Found at i:6616526 original size:3 final size:3
Alignment explanation
Indices: 6616509--6616575 Score: 68
Period size: 3 Copynumber: 23.0 Consensus size: 3
6616499 TCCTCCTCCC
* * *
6616509 CTT CTT TTT CTTT CTT CTT CTT C-T CTT CTT -TC CTT CTT CTC CTT
1 CTT CTT CTT C-TT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT
*
6616553 CTT -TT CTT TTT CTT CTT CTT CTT
1 CTT CTT CTT CTT CTT CTT CTT CTT
6616576 TGTTCCCGAA
Statistics
Matches: 52, Mismatches: 8, Indels: 8
0.76 0.12 0.12
Matches are distributed among these distances:
2 5 0.10
3 44 0.85
4 3 0.06
ACGTcount: A:0.00, C:0.31, G:0.00, T:0.69
Consensus pattern (3 bp):
CTT
Found at i:6616766 original size:17 final size:17
Alignment explanation
Indices: 6616746--6616788 Score: 61
Period size: 17 Copynumber: 2.5 Consensus size: 17
6616736 CATTTTTTTA
6616746 TTTTTTTTATTTTCAGT
1 TTTTTTTTATTTTCAGT
6616763 TTTTTTTCT-TTTTCAGT
1 TTTTTTT-TATTTTCAGT
*
6616780 GTTTTTTTA
1 TTTTTTTTA
6616789 CTGTTGCGGG
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
16 1 0.04
17 21 0.91
18 1 0.04
ACGTcount: A:0.09, C:0.07, G:0.07, T:0.77
Consensus pattern (17 bp):
TTTTTTTTATTTTCAGT
Found at i:6617850 original size:20 final size:20
Alignment explanation
Indices: 6617814--6617852 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
6617804 GAGAATTACA
*
6617814 AAAATATAAAAATTTTAAAG
1 AAAATATAAAAAATTTAAAG
6617834 AAAAT-TAAAATAATTTAAA
1 AAAATATAAAA-AATTTAAA
6617853 TGTTCTTACT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 5 0.29
20 12 0.71
ACGTcount: A:0.67, C:0.00, G:0.03, T:0.31
Consensus pattern (20 bp):
AAAATATAAAAAATTTAAAG
Found at i:6618458 original size:30 final size:31
Alignment explanation
Indices: 6618422--6618481 Score: 77
Period size: 31 Copynumber: 2.0 Consensus size: 31
6618412 TAATTTATAT
* *
6618422 TCGAGTTAAACCAAA-AACTTAATTTTTTAG
1 TCGAGTTAAACAAAATAACTTAATTATTTAG
* *
6618452 TCGAGTTGATCAAAATAACTTAATTATTTA
1 TCGAGTTAAACAAAATAACTTAATTATTTA
6618482 ATTCAAAATT
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
30 12 0.48
31 13 0.52
ACGTcount: A:0.40, C:0.12, G:0.10, T:0.38
Consensus pattern (31 bp):
TCGAGTTAAACAAAATAACTTAATTATTTAG
Found at i:6620137 original size:21 final size:21
Alignment explanation
Indices: 6620113--6620160 Score: 64
Period size: 21 Copynumber: 2.3 Consensus size: 21
6620103 ATGATAGCTT
*
6620113 TTAAAATAA-TTATCTTTTAAA
1 TTAAAATAATTTATCTATT-AA
6620134 TT-AAATAATTTATCTATTAA
1 TTAAAATAATTTATCTATTAA
6620154 TTAAAAT
1 TTAAAAT
6620161 TTAATATTAC
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
20 10 0.42
21 14 0.58
ACGTcount: A:0.48, C:0.04, G:0.00, T:0.48
Consensus pattern (21 bp):
TTAAAATAATTTATCTATTAA
Found at i:6620141 original size:20 final size:20
Alignment explanation
Indices: 6620116--6620158 Score: 61
Period size: 20 Copynumber: 2.1 Consensus size: 20
6620106 ATAGCTTTTA
*
6620116 AAATAA-TTATCTTTTAAATT
1 AAATAATTTATCTATT-AATT
6620136 AAATAATTTATCTATTAATT
1 AAATAATTTATCTATTAATT
6620156 AAA
1 AAA
6620159 ATTTAATATT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 13 0.62
21 8 0.38
ACGTcount: A:0.49, C:0.05, G:0.00, T:0.47
Consensus pattern (20 bp):
AAATAATTTATCTATTAATT
Found at i:6621343 original size:22 final size:22
Alignment explanation
Indices: 6621317--6621360 Score: 88
Period size: 22 Copynumber: 2.0 Consensus size: 22
6621307 TGAATGATAG
6621317 ACTTGATTTTTCGCTAAATGAA
1 ACTTGATTTTTCGCTAAATGAA
6621339 ACTTGATTTTTCGCTAAATGAA
1 ACTTGATTTTTCGCTAAATGAA
6621361 TAGCGCTCTG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.32, C:0.14, G:0.14, T:0.41
Consensus pattern (22 bp):
ACTTGATTTTTCGCTAAATGAA
Found at i:6622956 original size:21 final size:21
Alignment explanation
Indices: 6622930--6622970 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
6622920 ATCTGCTCAA
*
6622930 ACTCCACCTGTTTTGGAGTAC
1 ACTCCACCTGTTGTGGAGTAC
6622951 ACTCCACCTGTTGTGGAGTA
1 ACTCCACCTGTTGTGGAGTA
6622971 TCGCTAGTCT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.20, C:0.27, G:0.22, T:0.32
Consensus pattern (21 bp):
ACTCCACCTGTTGTGGAGTAC
Found at i:6624468 original size:12 final size:12
Alignment explanation
Indices: 6624451--6624475 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
6624441 GACTTTGATC
6624451 TTTTCTTCTGAG
1 TTTTCTTCTGAG
6624463 TTTTCTTCTGAG
1 TTTTCTTCTGAG
6624475 T
1 T
6624476 GTATGAACGA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.08, C:0.16, G:0.16, T:0.60
Consensus pattern (12 bp):
TTTTCTTCTGAG
Found at i:6626986 original size:43 final size:43
Alignment explanation
Indices: 6626934--6627536 Score: 946
Period size: 43 Copynumber: 14.1 Consensus size: 43
6626924 CCGGCATTAC
*
6626934 GCCTGCTAGGCACGAAGGCCCGAATACACAACACCGGCACGAA
1 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAA
* *
6626977 GCCTACTAGGCACGAAGGCCCGAATACACATCACTGGCACGAA
1 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAA
*
6627020 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGTACGAA
1 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAA
* * *
6627063 GCCTGCTAGGCACGAAGGCTCGAATATACATCACCGGAACGAA
1 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAA
*
6627106 GCCTGCTAGGCACAAAGGCCCGAATACACATCACCGGCACGAA
1 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAA
*
6627149 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCAAGAA
1 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAA
*
6627192 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCAGCACGAA
1 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAA
*
6627235 GCCTGCTAGGTACGAAGGCCCGAAT--ACA-CACCGGCACGAA
1 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAA
* *
6627275 GCCTGCTAGGCACGAAGGCCCGAATATACATCACCGGAACGAA
1 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAA
* * * *
6627318 ACCTGCTAGGCATGAAGGCCCGAATACATATCACCAGCACGAA
1 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAA
* *
6627361 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCAGCACAAA
1 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAA
*
6627404 GCCTGCTAGGCACGAAGGCCCGAATATACATCACCGGCACGAA
1 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAA
* *
6627447 GCCTGCTAGGCACGAAGGCCCGAATACATATCACCGGCAAGAA
1 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAA
* * *
6627490 GCCTGCTAGGCACGAAGGCCTGAATATA-AT-ACCTGCACGAA
1 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAA
6627531 GCCTGC
1 GCCTGC
6627537 GGGATTTATC
Statistics
Matches: 516, Mismatches: 41, Indels: 8
0.91 0.07 0.01
Matches are distributed among these distances:
40 35 0.07
41 18 0.03
42 5 0.01
43 458 0.89
ACGTcount: A:0.32, C:0.32, G:0.25, T:0.11
Consensus pattern (43 bp):
GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAA
Found at i:6631008 original size:15 final size:15
Alignment explanation
Indices: 6630988--6631022 Score: 54
Period size: 15 Copynumber: 2.3 Consensus size: 15
6630978 ATTTAGCTCA
6630988 TTTATATTAAAAT-TT
1 TTTATATT-AAATGTT
6631003 TTTATATTAAATGTT
1 TTTATATTAAATGTT
6631018 TTTAT
1 TTTAT
6631023 GTTATAGACA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 4 0.21
15 15 0.79
ACGTcount: A:0.34, C:0.00, G:0.03, T:0.63
Consensus pattern (15 bp):
TTTATATTAAATGTT
Found at i:6644686 original size:31 final size:31
Alignment explanation
Indices: 6644651--6644711 Score: 77
Period size: 31 Copynumber: 2.0 Consensus size: 31
6644641 CTTGTCATTT
* *
6644651 GTAGCTGAAGCTACCACTATTCACTGATCAG
1 GTAGCCGAAGCTACCACTATTCACTAATCAG
* * *
6644682 GTAGCCGGAGCTACCATTTTTCACTAATCA
1 GTAGCCGAAGCTACCACTATTCACTAATCA
6644712 AATTACTTAT
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
31 25 1.00
ACGTcount: A:0.28, C:0.26, G:0.18, T:0.28
Consensus pattern (31 bp):
GTAGCCGAAGCTACCACTATTCACTAATCAG
Found at i:6644861 original size:35 final size:35
Alignment explanation
Indices: 6644807--6645083 Score: 261
Period size: 35 Copynumber: 8.0 Consensus size: 35
6644797 TCCTCATTGA
* *
6644807 AATACCATACCTACGTTTCACAACTCGGTATGGAA
1 AATACCATACCTACGTTTCACAACTCAGTATGGAT
* * ** * *
6644842 AACACCATACCTACTTTTCA-TGCTCGGTATGGAC
1 AATACCATACCTACGTTTCACAACTCAGTATGGAT
* ** *
6644876 AATACCATTCCTATATTTCATAACTCAGTATGGAT
1 AATACCATACCTACGTTTCACAACTCAGTATGGAT
* * * * * *
6644911 GATGCCATACCTACGTATCATAGCTCAGTATGGAC
1 AATACCATACCTACGTTTCACAACTCAGTATGGAT
* ** * * *
6644946 GACGCCATACCTACGTTTCATAGCTCGGTATGGA-
1 AATACCATACCTACGTTTCACAACTCAGTATGGAT
* *
6644980 AATACCATACCTACGTTTCACAGCTCAGTATGGTT
1 AATACCATACCTACGTTTCACAACTCAGTATGGAT
* * *
6645015 AATGCCATACCTATGTTTCACAACTCAGTATGGCT
1 AATACCATACCTACGTTTCACAACTCAGTATGGAT
* *
6645050 AATACCATACCTACATTTCACAACTCGGTATGGA
1 AATACCATACCTACGTTTCACAACTCAGTATGGA
6645084 CCAACCACGG
Statistics
Matches: 201, Mismatches: 39, Indels: 4
0.82 0.16 0.02
Matches are distributed among these distances:
34 55 0.27
35 146 0.73
ACGTcount: A:0.30, C:0.26, G:0.15, T:0.29
Consensus pattern (35 bp):
AATACCATACCTACGTTTCACAACTCAGTATGGAT
Found at i:6644919 original size:69 final size:70
Alignment explanation
Indices: 6644811--6645084 Score: 291
Period size: 69 Copynumber: 3.9 Consensus size: 70
6644801 CATTGAAATA
* * * * * * * *
6644811 CCATACCTACGTTTCACAACTCGGTATGGAAAACACCATACCTACTTTTCA-TGCTCGGTATGGA
1 CCATACCTATGTTTCATAACTCAGTATGGATAATACCATACCTACGTTTCACAGCTCAGTATGGA
*
6644875 CAATA
66 CAATG
* * * * * *
6644880 CCATTCCTATATTTCATAACTCAGTATGGATGATGCCATACCTACGTATCATAGCTCAGTATGGA
1 CCATACCTATGTTTCATAACTCAGTATGGATAATACCATACCTACGTTTCACAGCTCAGTATGGA
* *
6644945 CGACG
66 CAATG
* * * *
6644950 CCATACCTACGTTTCATAGCTCGGTATGGA-AATACCATACCTACGTTTCACAGCTCAGTATGGT
1 CCATACCTATGTTTCATAACTCAGTATGGATAATACCATACCTACGTTTCACAGCTCAGTATGGA
*
6645014 TAATG
66 CAATG
* * * * *
6645019 CCATACCTATGTTTCACAACTCAGTATGGCTAATACCATACCTACATTTCACAACTCGGTATGGA
1 CCATACCTATGTTTCATAACTCAGTATGGATAATACCATACCTACGTTTCACAGCTCAGTATGGA
6645084 C
66 C
6645085 CAACCACGGT
Statistics
Matches: 164, Mismatches: 39, Indels: 3
0.80 0.19 0.01
Matches are distributed among these distances:
69 96 0.59
70 68 0.41
ACGTcount: A:0.29, C:0.26, G:0.15, T:0.29
Consensus pattern (70 bp):
CCATACCTATGTTTCATAACTCAGTATGGATAATACCATACCTACGTTTCACAGCTCAGTATGGA
CAATG
Found at i:6644999 original size:104 final size:105
Alignment explanation
Indices: 6644811--6645084 Score: 338
Period size: 104 Copynumber: 2.6 Consensus size: 105
6644801 CATTGAAATA
* * *
6644811 CCATACCTACGTTTCACAACTCGGTATGGAAAACACCATACCTACTTTTCAT-GCTCGGTATGGA
1 CCATACCTACGTTTCACAACTCAGTATGGACAACACCATACCTACATTTCATAGCTCGGTATGGA
* * * *
6644875 CAATACCATTCCTATATTTCATAACTCAGTATGGATGATG
66 CAATACCATACCTACATTTCACAACTCAGTATGGATAATG
* * * * * *
6644915 CCATACCTACGTATCATAGCTCAGTATGGACGACGCCATACCTACGTTTCATAGCTCGGTATGGA
1 CCATACCTACGTTTCACAACTCAGTATGGACAACACCATACCTACATTTCATAGCTCGGTATGGA
* * *
6644980 -AATACCATACCTACGTTTCACAGCTCAGTATGGTTAATG
66 CAATACCATACCTACATTTCACAACTCAGTATGGATAATG
* * * *
6645019 CCATACCTATGTTTCACAACTCAGTATGG-CTAATACCATACCTACATTTCACAACTCGGTATGG
1 CCATACCTACGTTTCACAACTCAGTATGGAC-AACACCATACCTACATTTCATAGCTCGGTATGG
6645083 AC
65 AC
6645085 CAACCACGGT
Statistics
Matches: 142, Mismatches: 25, Indels: 5
0.83 0.15 0.03
Matches are distributed among these distances:
103 1 0.01
104 129 0.91
105 12 0.08
ACGTcount: A:0.29, C:0.26, G:0.15, T:0.29
Consensus pattern (105 bp):
CCATACCTACGTTTCACAACTCAGTATGGACAACACCATACCTACATTTCATAGCTCGGTATGGA
CAATACCATACCTACATTTCACAACTCAGTATGGATAATG
Found at i:6645081 original size:139 final size:139
Alignment explanation
Indices: 6644811--6645084 Score: 352
Period size: 139 Copynumber: 2.0 Consensus size: 139
6644801 CATTGAAATA
* * *
6644811 CCATACCTACGTTTCACAACTCGGTATGGAAAACACCATACCTACTTTTCATGCTCGGTATGGAC
1 CCATACCTACGTTTCACAACTCGGTATGGAAAACACCATACCTACGTTTCAAGCTCAGTATGGAC
* * * * * * *
6644876 AATACCATTCCTATATTTCATAACTCAGTATGGATGATGCCATACCTACGTATCATAGCTCAGTA
66 AATACCATACCTATATTTCACAACTCAGTATGGATAATACCATACCTACATATCACAACTCAGTA
6644941 TGGACGACG
131 TGGACGACG
* * * *
6644950 CCATACCTACGTTTCATAGCTCGGTATGG-AAATACCATACCTACGTTTCACAGCTCAGTATGGT
1 CCATACCTACGTTTCACAACTCGGTATGGAAAACACCATACCTACGTTTCA-AGCTCAGTATGGA
* * * * * *
6645014 TAATGCCATACCTATGTTTCACAACTCAGTATGGCTAATACCATACCTACATTTCACAACTCGGT
65 CAATACCATACCTATATTTCACAACTCAGTATGGATAATACCATACCTACATATCACAACTCAGT
6645079 ATGGAC
130 ATGGAC
6645085 CAACCACGGT
Statistics
Matches: 114, Mismatches: 20, Indels: 2
0.84 0.15 0.01
Matches are distributed among these distances:
138 19 0.17
139 95 0.83
ACGTcount: A:0.29, C:0.26, G:0.15, T:0.29
Consensus pattern (139 bp):
CCATACCTACGTTTCACAACTCGGTATGGAAAACACCATACCTACGTTTCAAGCTCAGTATGGAC
AATACCATACCTATATTTCACAACTCAGTATGGATAATACCATACCTACATATCACAACTCAGTA
TGGACGACG
Found at i:6650681 original size:9 final size:9
Alignment explanation
Indices: 6650627--6650666 Score: 53
Period size: 9 Copynumber: 4.2 Consensus size: 9
6650617 AAATAACTTT
*
6650627 TAAAAATTC
1 TAAAAATTA
6650636 TAAAATATTCA
1 TAAAA-ATT-A
6650647 TAAAAATTA
1 TAAAAATTA
6650656 TAAAAATTA
1 TAAAAATTA
6650665 TA
1 TA
6650667 TTTTTTAAAA
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
9 17 0.61
10 6 0.21
11 5 0.18
ACGTcount: A:0.60, C:0.05, G:0.00, T:0.35
Consensus pattern (9 bp):
TAAAAATTA
Found at i:6660138 original size:21 final size:21
Alignment explanation
Indices: 6660112--6660152 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
6660102 ATCTGCTCAA
* *
6660112 ACTCCACCTGTTTTGGAGTAC
1 ACTCCACCTGCTGTGGAGTAC
6660133 ACTCCACCTGCTGTGGAGTA
1 ACTCCACCTGCTGTGGAGTA
6660153 TTGCTCATCT
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:0.20, C:0.29, G:0.22, T:0.29
Consensus pattern (21 bp):
ACTCCACCTGCTGTGGAGTAC
Found at i:6665713 original size:10 final size:10
Alignment explanation
Indices: 6665698--6665722 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
6665688 AATTTTATAT
6665698 TTTTAAAAAA
1 TTTTAAAAAA
6665708 TTTTAAAAAA
1 TTTTAAAAAA
6665718 TTTTA
1 TTTTA
6665723 TATAAAGAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (10 bp):
TTTTAAAAAA
Found at i:6666456 original size:5 final size:5
Alignment explanation
Indices: 6666446--6666483 Score: 76
Period size: 5 Copynumber: 7.6 Consensus size: 5
6666436 CTTTCCATCC
6666446 TTTAT TTTAT TTTAT TTTAT TTTAT TTTAT TTTAT TTT
1 TTTAT TTTAT TTTAT TTTAT TTTAT TTTAT TTTAT TTT
6666484 GCAAAATTCC
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 33 1.00
ACGTcount: A:0.18, C:0.00, G:0.00, T:0.82
Consensus pattern (5 bp):
TTTAT
Found at i:6669698 original size:18 final size:18
Alignment explanation
Indices: 6669668--6669718 Score: 79
Period size: 17 Copynumber: 2.9 Consensus size: 18
6669658 CGTGATCCGA
6669668 TTGAAAA-ACGAAAATTT
1 TTGAAAACACGAAAATTT
*
6669685 TTTAAAACACGAAAA-TT
1 TTGAAAACACGAAAATTT
6669702 TTGAAAACACGAAAATT
1 TTGAAAACACGAAAATT
6669719 GTTGGGATCC
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
17 22 0.73
18 8 0.27
ACGTcount: A:0.53, C:0.10, G:0.10, T:0.27
Consensus pattern (18 bp):
TTGAAAACACGAAAATTT
Found at i:6670294 original size:26 final size:27
Alignment explanation
Indices: 6670251--6670304 Score: 67
Period size: 26 Copynumber: 2.0 Consensus size: 27
6670241 TATGTATACC
*
6670251 AAATAATACATAATAATACT-AAAATA
1 AAATAATACATAACAATACTGAAAATA
*
6670277 AAATAATA-AGTAACAATAGTGAAAATA
1 AAATAATACA-TAACAATACTGAAAATA
6670304 A
1 A
6670305 TAAGCATAAT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
25 1 0.04
26 16 0.67
27 7 0.29
ACGTcount: A:0.65, C:0.06, G:0.06, T:0.24
Consensus pattern (27 bp):
AAATAATACATAACAATACTGAAAATA
Found at i:6670339 original size:18 final size:17
Alignment explanation
Indices: 6670313--6670365 Score: 54
Period size: 18 Copynumber: 3.0 Consensus size: 17
6670303 AATAAGCATA
6670313 ATAATAAATATAATGATAT
1 ATAA-AAATATAAT-ATAT
*
6670332 ATAAAAATAATACTATAT
1 ATAAAAAT-ATAATATAT
*
6670350 ATAAAAGTAT-ATATAT
1 ATAAAAATATAATATAT
6670366 GTACAATAAA
Statistics
Matches: 30, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
16 5 0.17
17 2 0.07
18 15 0.50
19 8 0.27
ACGTcount: A:0.58, C:0.02, G:0.04, T:0.36
Consensus pattern (17 bp):
ATAAAAATATAATATAT
Done.