Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A11
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: 114316535
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 4920000 characters in sequence are not A, C, G, or T
File 46 of 356
Found at i:15016511 original size:22 final size:24
Alignment explanation
Indices: 15016485--15016528 Score: 74
Period size: 22 Copynumber: 1.9 Consensus size: 24
15016475 AAATGGAATC
15016485 GAATTTTTT-TAT-TATATTTATT
1 GAATTTTTTATATATATATTTATT
15016507 GAATTTTTTATATATATATTTA
1 GAATTTTTTATATATATATTTA
15016529 ATGATTGAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
22 9 0.45
23 3 0.15
24 8 0.40
ACGTcount: A:0.32, C:0.00, G:0.05, T:0.64
Consensus pattern (24 bp):
GAATTTTTTATATATATATTTATT
Found at i:15018557 original size:11 final size:11
Alignment explanation
Indices: 15018541--15018567 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
15018531 TGTGATTTTT
15018541 TTTAAAATTTA
1 TTTAAAATTTA
15018552 TTTAAAATTTA
1 TTTAAAATTTA
15018563 TTTAA
1 TTTAA
15018568 TTAAAATAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (11 bp):
TTTAAAATTTA
Found at i:15018645 original size:27 final size:27
Alignment explanation
Indices: 15018610--15018864 Score: 133
Period size: 27 Copynumber: 10.1 Consensus size: 27
15018600 ATCTTAATGT
*
15018610 TAAAAATATATCATATAATAACTTACA
1 TAAATATATATCATATAATAACTTACA
15018637 TAAATATATATCATATAATAACTTACA
1 TAAATATATATCATATAATAACTTACA
* * * *
15018664 TAACTTATATACCTTACAA-AA--TACA
1 TAA-ATATATATCATATAATAACTTACA
15018689 TAAATATATATC-T-T-A-AA--T--A
1 TAAATATATATCATATAATAACTTACA
*
15018708 TATATCATATA--ATATAATAACTTACA
1 TAAAT-ATATATCATATAATAACTTACA
* *
15018734 TAAATATATATCATATGATAACTTACG
1 TAAATATATATCATATAATAACTTACA
* * * *
15018761 TAACTTATATACCTTACAA-AA--TACA
1 TAA-ATATATATCATATAATAACTTACA
* *
15018786 TAAATATATATCTTA-AAT-A--TATA
1 TAAATATATATCATATAATAACTTACA
* * * * *
15018809 T-CATATCATAACTTA-CATACCTTACA
1 TAAATAT-ATATCATATAATAACTTACA
15018835 TAAATATATATCATA-ACATAACTTACA
1 TAAATATATATCATATA-ATAACTTACA
15018862 TAA
1 TAA
15018865 CTTACAAAGC
Statistics
Matches: 177, Mismatches: 31, Indels: 40
0.71 0.12 0.16
Matches are distributed among these distances:
19 6 0.03
20 6 0.03
21 5 0.03
22 6 0.03
23 17 0.10
24 18 0.10
25 18 0.10
26 15 0.08
27 65 0.37
28 21 0.12
ACGTcount: A:0.49, C:0.14, G:0.01, T:0.36
Consensus pattern (27 bp):
TAAATATATATCATATAATAACTTACA
Found at i:15018665 original size:14 final size:14
Alignment explanation
Indices: 15018621--15018665 Score: 51
Period size: 14 Copynumber: 3.3 Consensus size: 14
15018611 AAAAATATAT
15018621 CATATAATAACTTA
1 CATATAATAACTTA
15018635 CATA-AAT-A-TATA
1 CATATAATAACT-TA
15018647 TCATATAATAACTTA
1 -CATATAATAACTTA
15018662 CATA
1 CATA
15018666 ACTTATATAC
Statistics
Matches: 26, Mismatches: 0, Indels: 10
0.72 0.00 0.28
Matches are distributed among these distances:
11 1 0.04
12 3 0.12
13 7 0.27
14 11 0.42
15 3 0.12
16 1 0.04
ACGTcount: A:0.51, C:0.13, G:0.00, T:0.36
Consensus pattern (14 bp):
CATATAATAACTTA
Found at i:15018680 original size:45 final size:45
Alignment explanation
Indices: 15018631--15018783 Score: 127
Period size: 45 Copynumber: 3.3 Consensus size: 45
15018621 CATATAATAA
15018631 CTTACATAAATATATATCATATAATAACTTACATAACTTATATAC
1 CTTACATAAATATATATCATATAATAACTTACATAACTTATATAC
* * *
15018676 CTTACAAAATACATAAATATATATCTTA-AAT-A-TATATCATATA-ATATAATAA
1 C-T------TACATAAATATATATCATATAATAACT-TA-CATA-ACTTAT-ATAC
* *
15018728 CTTACATAAATATATATCATATGATAACTTACGTAACTTATATAC
1 CTTACATAAATATATATCATATAATAACTTACATAACTTATATAC
15018773 CTTACA-AAATA
1 CTTACATAAATA
15018784 CATAAATATA
Statistics
Matches: 85, Mismatches: 8, Indels: 31
0.69 0.06 0.25
Matches are distributed among these distances:
44 5 0.06
45 29 0.34
46 9 0.11
47 3 0.04
48 1 0.01
49 1 0.01
50 3 0.04
51 11 0.13
52 23 0.27
ACGTcount: A:0.48, C:0.14, G:0.01, T:0.37
Consensus pattern (45 bp):
CTTACATAAATATATATCATATAATAACTTACATAACTTATATAC
Found at i:15018707 original size:13 final size:13
Alignment explanation
Indices: 15018687--15018748 Score: 61
Period size: 13 Copynumber: 4.3 Consensus size: 13
15018677 TTACAAAATA
15018687 CATAAATATATAT
1 CATAAATATATAT
*
15018700 CTTAAATATATAT
1 CATAAATATATAT
15018713 CATATAATATAATAACTT
1 CATA-AATAT-AT-A--T
15018731 ACATAAATATATAT
1 -CATAAATATATAT
15018745 CATA
1 CATA
15018749 TGATAACTTA
Statistics
Matches: 41, Mismatches: 2, Indels: 12
0.75 0.04 0.22
Matches are distributed among these distances:
13 19 0.46
14 6 0.15
15 2 0.05
16 2 0.05
17 2 0.05
18 6 0.15
19 4 0.10
ACGTcount: A:0.52, C:0.10, G:0.00, T:0.39
Consensus pattern (13 bp):
CATAAATATATAT
Found at i:15018765 original size:97 final size:97
Alignment explanation
Indices: 15018617--15018868 Score: 416
Period size: 97 Copynumber: 2.6 Consensus size: 97
15018607 TGTTAAAAAT
15018617 ATATCATATAATAACTTACATAAATATATATCATATAATAACTTACATAACTTATATACCTTACA
1 ATATCATATAATAACTTACATAAATATATATCATATAATAACTTACATAACTTATATACCTTACA
15018682 AAATACATAAATATATATCTTAAATATATATC
66 AAATACATAAATATATATCTTAAATATATATC
* * *
15018714 ATATAATATAATAACTTACATAAATATATATCATATGATAACTTACGTAACTTATATACCTTACA
1 ATATCATATAATAACTTACATAAATATATATCATATAATAACTTACATAACTTATATACCTTACA
15018779 AAATACATAAATATATATCTTAAATATATATC
66 AAATACATAAATATATATCTTAAATATATATC
*
15018811 ATATCATAACTTACATACCTTACATAAATATATATCATA-ACATAACTTACATAACTTA
1 ATATCAT-A--TA-ATAACTTACATAAATATATATCATATA-ATAACTTACATAACTTA
15018869 CAAAGCTTCC
Statistics
Matches: 143, Mismatches: 7, Indels: 6
0.92 0.04 0.04
Matches are distributed among these distances:
97 100 0.70
98 1 0.01
100 2 0.01
101 40 0.28
ACGTcount: A:0.48, C:0.14, G:0.01, T:0.37
Consensus pattern (97 bp):
ATATCATATAATAACTTACATAAATATATATCATATAATAACTTACATAACTTATATACCTTACA
AAATACATAAATATATATCTTAAATATATATC
Found at i:15018804 original size:13 final size:13
Alignment explanation
Indices: 15018786--15018810 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
15018776 ACAAAATACA
15018786 TAAATATATATCT
1 TAAATATATATCT
15018799 TAAATATATATC
1 TAAATATATATC
15018811 ATATCATAAC
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:0.48, C:0.08, G:0.00, T:0.44
Consensus pattern (13 bp):
TAAATATATATCT
Found at i:15018827 original size:9 final size:9
Alignment explanation
Indices: 15018815--15018870 Score: 51
Period size: 9 Copynumber: 6.2 Consensus size: 9
15018805 TATATCATAT
15018815 CATAACTTA
1 CATAACTTA
*
15018824 CATACCTTA
1 CATAACTTA
*
15018833 CATAA-ATA
1 CATAACTTA
* * *
15018841 TATATCATAA
1 CATAAC-TTA
15018851 CATAACTTA
1 CATAACTTA
15018860 CATAACTTA
1 CATAACTTA
15018869 CA
1 CA
15018871 AAGCTTCCTT
Statistics
Matches: 35, Mismatches: 10, Indels: 4
0.71 0.20 0.08
Matches are distributed among these distances:
8 5 0.14
9 25 0.71
10 5 0.14
ACGTcount: A:0.46, C:0.21, G:0.00, T:0.32
Consensus pattern (9 bp):
CATAACTTA
Found at i:15018840 original size:36 final size:36
Alignment explanation
Indices: 15018799--15018870 Score: 126
Period size: 36 Copynumber: 2.0 Consensus size: 36
15018789 ATATATATCT
* *
15018799 TAAATATATATCATATCATAACTTACATACCTTACA
1 TAAATATATATCATAACATAACTTACATAACTTACA
15018835 TAAATATATATCATAACATAACTTACATAACTTACA
1 TAAATATATATCATAACATAACTTACATAACTTACA
15018871 AAGCTTCCTT
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
36 34 1.00
ACGTcount: A:0.47, C:0.18, G:0.00, T:0.35
Consensus pattern (36 bp):
TAAATATATATCATAACATAACTTACATAACTTACA
Found at i:15024457 original size:15 final size:16
Alignment explanation
Indices: 15024432--15024462 Score: 55
Period size: 15 Copynumber: 2.0 Consensus size: 16
15024422 ACAACAACTT
15024432 AGAGTGGAGGCAGCAG
1 AGAGTGGAGGCAGCAG
15024448 AGAG-GGAGGCAGCAG
1 AGAGTGGAGGCAGCAG
15024463 CAGCAGCAAG
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 11 0.73
16 4 0.27
ACGTcount: A:0.32, C:0.13, G:0.52, T:0.03
Consensus pattern (16 bp):
AGAGTGGAGGCAGCAG
Found at i:15024533 original size:21 final size:21
Alignment explanation
Indices: 15024438--15024534 Score: 117
Period size: 21 Copynumber: 4.6 Consensus size: 21
15024428 ACTTAGAGTG
*
15024438 GAGGCAGCAGAGAGGGAGGCA
1 GAGGCAGCAGCGAGGGAGGCA
*
15024459 GCA-GCAGCAGCAAGGGAGGCA
1 G-AGGCAGCAGCGAGGGAGGCA
* *
15024480 GCGACAGCAGCGAGGGAGGCA
1 GAGGCAGCAGCGAGGGAGGCA
*
15024501 AAGGCA-CGAGCGAGGGAGGCA
1 GAGGCAGC-AGCGAGGGAGGCA
15024522 GAGGCAGCAGCGA
1 GAGGCAGCAGCGA
15024535 TGGCAGCAGA
Statistics
Matches: 63, Mismatches: 9, Indels: 8
0.79 0.11 0.10
Matches are distributed among these distances:
20 1 0.02
21 60 0.95
22 2 0.03
ACGTcount: A:0.32, C:0.21, G:0.47, T:0.00
Consensus pattern (21 bp):
GAGGCAGCAGCGAGGGAGGCA
Found at i:15024828 original size:31 final size:31
Alignment explanation
Indices: 15024782--15024848 Score: 80
Period size: 31 Copynumber: 2.2 Consensus size: 31
15024772 TGGTTGTATT
* *
15024782 TTTTATGCTAAATTTGCTGTTTTTGGCTGCA
1 TTTTATACTAAATTTGCTGTATTTGGCTGCA
* * * *
15024813 TTTTATACTATATTTGTTGTATTTGGTTGGA
1 TTTTATACTAAATTTGCTGTATTTGGCTGCA
15024844 TTTTA
1 TTTTA
15024849 AGGCAAGAAG
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.18, C:0.07, G:0.18, T:0.57
Consensus pattern (31 bp):
TTTTATACTAAATTTGCTGTATTTGGCTGCA
Found at i:15025917 original size:23 final size:23
Alignment explanation
Indices: 15025890--15025941 Score: 104
Period size: 23 Copynumber: 2.3 Consensus size: 23
15025880 AAGATGTAAA
15025890 TCATGGAAGAAACGTATTCGTTT
1 TCATGGAAGAAACGTATTCGTTT
15025913 TCATGGAAGAAACGTATTCGTTT
1 TCATGGAAGAAACGTATTCGTTT
15025936 TCATGG
1 TCATGG
15025942 CTTCTCCGAC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 29 1.00
ACGTcount: A:0.29, C:0.13, G:0.23, T:0.35
Consensus pattern (23 bp):
TCATGGAAGAAACGTATTCGTTT
Found at i:15035192 original size:16 final size:16
Alignment explanation
Indices: 15035170--15035238 Score: 120
Period size: 16 Copynumber: 4.2 Consensus size: 16
15035160 TTTGGTTCGC
15035170 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
*
15035186 CGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
15035202 TGTATTGGGATTAGAGG
1 TGTATT-GGATTAGAGG
15035219 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
15035235 TGTA
1 TGTA
15035239 ATAGCTAATC
Statistics
Matches: 50, Mismatches: 2, Indels: 2
0.93 0.04 0.04
Matches are distributed among these distances:
16 34 0.68
17 16 0.32
ACGTcount: A:0.25, C:0.01, G:0.38, T:0.36
Consensus pattern (16 bp):
TGTATTGGATTAGAGG
Found at i:15035216 original size:33 final size:32
Alignment explanation
Indices: 15035170--15035238 Score: 120
Period size: 33 Copynumber: 2.1 Consensus size: 32
15035160 TTTGGTTCGC
15035170 TGTATTGGATTAGAGGCGTATTGGATTAGAGG
1 TGTATTGGATTAGAGGCGTATTGGATTAGAGG
*
15035202 TGTATTGGGATTAGAGGTGTATTGGATTAGAGG
1 TGTATT-GGATTAGAGGCGTATTGGATTAGAGG
15035235 TGTA
1 TGTA
15035239 ATAGCTAATC
Statistics
Matches: 35, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
32 6 0.17
33 29 0.83
ACGTcount: A:0.25, C:0.01, G:0.38, T:0.36
Consensus pattern (32 bp):
TGTATTGGATTAGAGGCGTATTGGATTAGAGG
Found at i:15035303 original size:44 final size:45
Alignment explanation
Indices: 15035219--15035309 Score: 121
Period size: 45 Copynumber: 2.0 Consensus size: 45
15035209 GGATTAGAGG
* * *
15035219 TGTATTGGATTAGAGGTGTAATAGCTAATCCACTGTTTGGTTGAA
1 TGTAATGGAATAGAGGCGTAATAGCTAATCCACTGTTTGGTTGAA
***
15035264 TGTAATGGAATAGAGGCGTAATAG-TAATCTTGTGTTTGGTTGAA
1 TGTAATGGAATAGAGGCGTAATAGCTAATCCACTGTTTGGTTGAA
15035308 TG
1 TG
15035310 GAATAGAGGT
Statistics
Matches: 40, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
44 19 0.47
45 21 0.52
ACGTcount: A:0.27, C:0.07, G:0.29, T:0.37
Consensus pattern (45 bp):
TGTAATGGAATAGAGGCGTAATAGCTAATCCACTGTTTGGTTGAA
Found at i:15035495 original size:18 final size:17
Alignment explanation
Indices: 15035474--15035508 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
15035464 TTATTATTAA
*
15035474 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
15035492 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
15035509 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:15035670 original size:120 final size:120
Alignment explanation
Indices: 15035457--15035719 Score: 517
Period size: 120 Copynumber: 2.2 Consensus size: 120
15035447 ATCATATTTA
15035457 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
1 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
15035522 TATTCTTATATTAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATT
66 TATTCTTATATTAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATT
*
15035577 AACATAATTATTATTAAATATATTTTAATTAAACTATATAATTTAATAAAATTCTTAATAATTAA
1 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
15035642 TATTCTTATATTAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATT
66 TATTCTTATATTAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATT
15035697 AACATAATTATTATTAAATATAT
1 AACATAATTATTATTAAATATAT
15035720 AACTTGAAAA
Statistics
Matches: 142, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
120 142 1.00
ACGTcount: A:0.48, C:0.06, G:0.02, T:0.44
Consensus pattern (120 bp):
AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
TATTCTTATATTAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATT
Found at i:15044254 original size:17 final size:17
Alignment explanation
Indices: 15044218--15044255 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 17
15044208 TATATATGTT
*
15044218 TTATTGTTGGAATTAAA
1 TTATTGTTGGAATAAAA
15044235 TTATTGTTGGAA-AAATA
1 TTATTGTTGGAATAAA-A
15044252 TTAT
1 TTAT
15044256 CGAAACTAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
16 2 0.11
17 17 0.89
ACGTcount: A:0.37, C:0.00, G:0.16, T:0.47
Consensus pattern (17 bp):
TTATTGTTGGAATAAAA
Found at i:15047254 original size:52 final size:51
Alignment explanation
Indices: 15047183--15047489 Score: 400
Period size: 52 Copynumber: 6.1 Consensus size: 51
15047173 ATCAAGTGAT
* *
15047183 AAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTGG
1 AAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGACAAGT-G
* * *
15047235 AAAGTGATAAGTAATAGCTTCGGCTATACTTATCTGATCAAGTG---A-T-
1 AAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGACAAGTG
* * *
15047281 AAAGTGATAAGTTATAGCTTCGGCTATACTTATCTGATCAAGTGAC-----
1 AAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGACAAGTG
15047327 AAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGACAAGTGG
1 AAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGACAAGT-G
*
15047379 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTG
1 AAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGACAAGTG
* *
15047430 AAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGAGACAAAGTG
1 -AAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGAC-AAGTG
15047483 ATAAGTG
1 A-AAGTG
15047490 GCTACACTTA
Statistics
Matches: 231, Mismatches: 13, Indels: 21
0.87 0.05 0.08
Matches are distributed among these distances:
46 86 0.37
48 1 0.00
49 1 0.00
51 1 0.00
52 132 0.57
53 10 0.04
ACGTcount: A:0.35, C:0.14, G:0.22, T:0.29
Consensus pattern (51 bp):
AAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGACAAGTG
Found at i:15047289 original size:98 final size:97
Alignment explanation
Indices: 15047169--15047489 Score: 436
Period size: 98 Copynumber: 3.3 Consensus size: 97
15047159 TTTGAGTACT
* **
15047169 TCTGATCAAGTGATAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTG
1 TCTGATCAAGTGATAAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGT-
* * *
15047234 GAAAGTGATAAGTAATAGCTTCGGCTATACTTA
65 GAAAGTGATAAGTGATAGCTTCAGCTACACTTA
* *
15047267 TCTGATCAAGTGATAAAGTGATAAGTTATAGCTTCGGCTATACTTATCTGATCAAGTGAC-----
1 TCTGATCAAGTGATAAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTG
15047327 AAAGTGATAAGTGATAGCTTCAGCTACACTTA
66 AAAGTGATAAGTGATAGCTTCAGCTACACTTA
15047359 TCTGATCAAGTGACAAGTGGAAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGA
1 TCTGATCAAGTG---A-T--AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGA
*
15047424 CAAGTGAAAAGTGATAAGTGATAGCTTTAGCTACACTTA
60 CAAGTG-AAAGTGATAAGTGATAGCTTCAGCTACACTTA
* *
15047463 TCTGATCAAGAGACAAAGTGATAAGTG
1 TCTGATCAAGTGATAAAGTGATAAGTG
15047490 GCTACACTTA
Statistics
Matches: 198, Mismatches: 13, Indels: 24
0.84 0.06 0.10
Matches are distributed among these distances:
92 41 0.21
95 1 0.01
96 1 0.01
98 112 0.57
101 1 0.01
104 42 0.21
ACGTcount: A:0.35, C:0.14, G:0.22, T:0.29
Consensus pattern (97 bp):
TCTGATCAAGTGATAAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTG
AAAGTGATAAGTGATAGCTTCAGCTACACTTA
Found at i:15047497 original size:37 final size:37
Alignment explanation
Indices: 15047453--15047561 Score: 177
Period size: 37 Copynumber: 3.0 Consensus size: 37
15047443 GATAGCTTTA
15047453 GCTACACTTATCTGATCAAGAGACAAAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAGACAAAGTGATAAGTG
* *
15047490 GCTACACTTATCTGATCAAGAAACAAAGTGATAGGTG
1 GCTACACTTATCTGATCAAGAGACAAAGTGATAAGTG
*
15047527 GCTACACTTATCTGATC-AGGGAC-AAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAGACAAAGTGATAAGTG
15047562 ATCATACGTA
Statistics
Matches: 67, Mismatches: 5, Indels: 2
0.91 0.07 0.03
Matches are distributed among these distances:
35 11 0.16
36 4 0.06
37 52 0.78
ACGTcount: A:0.36, C:0.17, G:0.23, T:0.25
Consensus pattern (37 bp):
GCTACACTTATCTGATCAAGAGACAAAGTGATAAGTG
Found at i:15054392 original size:55 final size:55
Alignment explanation
Indices: 15054209--15054425 Score: 147
Period size: 55 Copynumber: 3.8 Consensus size: 55
15054199 AGTATTAGGA
* * **
15054209 TTAGGCTCTTTTAT-TTGTGAGAGTTAGGATTAGGGATTTAGTTGAGAGTTAAAAGG
1 TTAGGCTCTTTTATAAT-TGAAAGTTAGGATTAAAGATTTAGTTGAGAGTT-AAAGG
* * * * *
15054265 CTAGGCTTCTTTATAGTTGAGAGTT-AAGGTTAGAGAGTTACAGATTTACTTGAGAG--ATAGG
1 TTAGGC-TCTTT-TA--T-A-A-TTGAAAGTTAG-GA-TTAAAGATTTAGTTGAGAGTTAAAGG
* *
15054326 CTTAAGCTCTTTTATAATTGAAAGTTAGGATTAAAGATTTAGTTGGGAGTTAAAGG
1 -TTAGGCTCTTTTATAATTGAAAGTTAGGATTAAAGATTTAGTTGAGAGTTAAAGG
* * * *
15054382 TTAGGCTCTTTAATAGTTGAAGGTTAAGG-TTAAAAATTTAGTTG
1 TTAGGCTCTTTTATAATTGAAAGTT-AGGATTAAAGATTTAGTTG
15054426 GGATTTGAGA
Statistics
Matches: 126, Mismatches: 20, Indels: 31
0.71 0.11 0.18
Matches are distributed among these distances:
54 16 0.13
55 39 0.31
56 20 0.16
57 6 0.05
58 3 0.02
60 3 0.02
61 9 0.07
62 10 0.08
63 3 0.02
64 17 0.13
ACGTcount: A:0.30, C:0.06, G:0.26, T:0.38
Consensus pattern (55 bp):
TTAGGCTCTTTTATAATTGAAAGTTAGGATTAAAGATTTAGTTGAGAGTTAAAGG
Found at i:15056118 original size:29 final size:29
Alignment explanation
Indices: 15056052--15056124 Score: 85
Period size: 29 Copynumber: 2.5 Consensus size: 29
15056042 ATAAGCATTT
* *
15056052 AATTAATTTTTTAAAATTTAAAATTATAAA
1 AATT-ATTTTTAAAAATTAAAAATTATAAA
**
15056082 AACCATTTTTAAAAATTAAAAATTACT-AA
1 AATTATTTTTAAAAATTAAAAATTA-TAAA
15056111 AATTATTTTTAAAA
1 AATTATTTTTAAAA
15056125 TTTTTTAAAA
Statistics
Matches: 36, Mismatches: 6, Indels: 3
0.80 0.13 0.07
Matches are distributed among these distances:
29 33 0.92
30 3 0.08
ACGTcount: A:0.53, C:0.04, G:0.00, T:0.42
Consensus pattern (29 bp):
AATTATTTTTAAAAATTAAAAATTATAAA
Found at i:15056127 original size:9 final size:9
Alignment explanation
Indices: 15056115--15056155 Score: 55
Period size: 10 Copynumber: 4.3 Consensus size: 9
15056105 TACTAAAATT
15056115 ATTTTTAAA
1 ATTTTTAAA
15056124 ATTTTTTAAA
1 A-TTTTTAAA
15056134 ATTTTTTAAA
1 A-TTTTTAAA
*
15056144 ATTTTAAAA
1 ATTTTTAAA
15056153 ATT
1 ATT
15056156 AATTAAATGT
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
9 11 0.37
10 19 0.63
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (9 bp):
ATTTTTAAA
Found at i:15056129 original size:10 final size:10
Alignment explanation
Indices: 15056116--15056148 Score: 66
Period size: 10 Copynumber: 3.3 Consensus size: 10
15056106 ACTAAAATTA
15056116 TTTTTAAAAT
1 TTTTTAAAAT
15056126 TTTTTAAAAT
1 TTTTTAAAAT
15056136 TTTTTAAAAT
1 TTTTTAAAAT
15056146 TTT
1 TTT
15056149 AAAAATTAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 23 1.00
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (10 bp):
TTTTTAAAAT
Found at i:15056161 original size:19 final size:20
Alignment explanation
Indices: 15056119--15056162 Score: 54
Period size: 19 Copynumber: 2.2 Consensus size: 20
15056109 AAAATTATTT
* **
15056119 TTAAAATTTTTTAAAATTTT
1 TTAAAATTTTTAAAAATTAA
15056139 TTAAAA-TTTTAAAAATTAA
1 TTAAAATTTTTAAAAATTAA
15056158 TTAAA
1 TTAAA
15056163 TGTTGATACA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
19 15 0.71
20 6 0.29
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (20 bp):
TTAAAATTTTTAAAAATTAA
Found at i:15060410 original size:16 final size:16
Alignment explanation
Indices: 15060389--15060440 Score: 77
Period size: 16 Copynumber: 3.2 Consensus size: 16
15060379 TTTGGTTCGC
15060389 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
15060405 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
* * *
15060421 TGTAATGGAATAGATG
1 TGTATTGGATTAGAGG
15060437 TGTA
1 TGTA
15060441 ATAGCAAATC
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 33 1.00
ACGTcount: A:0.29, C:0.00, G:0.35, T:0.37
Consensus pattern (16 bp):
TGTATTGGATTAGAGG
Found at i:15060487 original size:45 final size:44
Alignment explanation
Indices: 15060421--15060518 Score: 124
Period size: 45 Copynumber: 2.2 Consensus size: 44
15060411 GGATTAGAGG
* * * *
15060421 TGTAATGGAATAGATGTGTAATAGCAAATCAACTGTTTGGTTGAA
1 TGTAATAGAATAGAGGCGTAATAGCAAAAC-ACTGTTTGGTTGAA
* **
15060466 TGTAATAGAATAGAGGCGTAATAGTAAAACTGTGTTTGGTTGAA
1 TGTAATAGAATAGAGGCGTAATAGCAAAACACTGTTTGGTTGAA
15060510 TGTAATAGA
1 TGTAATAGA
15060519 GGTGTAATAG
Statistics
Matches: 46, Mismatches: 7, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
44 21 0.46
45 25 0.54
ACGTcount: A:0.37, C:0.05, G:0.26, T:0.33
Consensus pattern (44 bp):
TGTAATAGAATAGAGGCGTAATAGCAAAACACTGTTTGGTTGAA
Found at i:15060698 original size:18 final size:17
Alignment explanation
Indices: 15060677--15060711 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
15060667 TTATTATTTA
*
15060677 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
15060695 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
15060712 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:15060705 original size:28 final size:27
Alignment explanation
Indices: 15060635--15060707 Score: 76
Period size: 27 Copynumber: 2.7 Consensus size: 27
15060625 TTTATTATCA
*
15060635 AAAATAAATAATTTAATCATATTTAAAC
1 AAAATATATAATTTAAT-ATATTTAAAC
* * **
15060663 ATAAT-TATTATTTAATATATTTTAATT
1 AAAATATATAATTTAATATA-TTTAAAC
15060690 AAAATATATAATTTAATA
1 AAAATATATAATTTAATA
15060708 AAATTCTTAA
Statistics
Matches: 36, Mismatches: 7, Indels: 4
0.77 0.15 0.09
Matches are distributed among these distances:
26 3 0.08
27 18 0.50
28 15 0.42
ACGTcount: A:0.52, C:0.03, G:0.00, T:0.45
Consensus pattern (27 bp):
AAAATATATAATTTAATATATTTAAAC
Found at i:15060845 original size:18 final size:17
Alignment explanation
Indices: 15060824--15060858 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
15060814 TTATTATTAA
*
15060824 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
15060842 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
15060859 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:15060870 original size:147 final size:149
Alignment explanation
Indices: 15060596--15060870 Score: 509
Period size: 147 Copynumber: 1.9 Consensus size: 149
15060586 ATGATTATTG
*
15060596 TTATTGTTATTTAAATTTTAATAAGATTATTTATTATCAAAAATAAATAATTTAATCATATTTAA
1 TTATTGTTATTTAAATTTTAATAAGATTATTTAATATCAAAAATAAATAATTTAATCATATTTAA
*
15060661 ACATAATTATTATTTAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAGC
66 ACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAGC
15060726 AGAAATTTTTTTTGGTAAA
131 AGAAATTTTTTTTGGTAAA
*
15060745 TTATT-TTATTTAAATTTTAATAAGATTA-TTAATATCAATAATAAATAATTTAATCATATTTAA
1 TTATTGTTATTTAAATTTTAATAAGATTATTTAATATCAAAAATAAATAATTTAATCATATTTAA
15060808 ACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTA
66 ACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTA
15060871 ATATTCTTAT
Statistics
Matches: 123, Mismatches: 3, Indels: 2
0.96 0.02 0.02
Matches are distributed among these distances:
147 95 0.77
148 23 0.19
149 5 0.04
ACGTcount: A:0.47, C:0.03, G:0.03, T:0.48
Consensus pattern (149 bp):
TTATTGTTATTTAAATTTTAATAAGATTATTTAATATCAAAAATAAATAATTTAATCATATTTAA
ACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAGC
AGAAATTTTTTTTGGTAAA
Found at i:15060904 original size:61 final size:61
Alignment explanation
Indices: 15060839--15061026 Score: 185
Period size: 61 Copynumber: 3.1 Consensus size: 61
15060829 TTTTAATTAA
15060839 AATATATAATTTAATAAAATTCTTAATAATTAATATTCTTATATGAATTTACTCAAATCAT
1 AATATATAATTTAATAAAATTCTTAATAATTAATATTCTTATATGAATTTACTCAAATCAT
* * ** * * *
15060900 AATATATGATACTGTAA-AATATAAATTAA-AA-TAATAATTATTAAAT--ATATTA-T--AATT
1 AATATAT-A-A-TTTAATAAAAT-TCTTAATAATTAAT-ATTCTTATATGAAT-TTACTCAAATC
*
15060957 AA
60 AT
*
15060959 AATATATAATTTAATAAAATTCTTAATAATTAATAGTCTTATATGAATTTACTCAAATCAT
1 AATATATAATTTAATAAAATTCTTAATAATTAATATTCTTATATGAATTTACTCAAATCAT
15061020 AATATAT
1 AATATAT
15061027 GATACTATAA
Statistics
Matches: 96, Mismatches: 17, Indels: 28
0.68 0.12 0.20
Matches are distributed among these distances:
56 8 0.08
57 14 0.15
58 8 0.08
59 14 0.15
61 21 0.22
62 8 0.08
63 15 0.16
64 8 0.08
ACGTcount: A:0.49, C:0.06, G:0.03, T:0.42
Consensus pattern (61 bp):
AATATATAATTTAATAAAATTCTTAATAATTAATATTCTTATATGAATTTACTCAAATCAT
Found at i:15060946 original size:120 final size:120
Alignment explanation
Indices: 15060802--15061099 Score: 492
Period size: 120 Copynumber: 2.5 Consensus size: 120
15060792 ATTTAATCAT
*
15060802 ATTTAAACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATA
1 ATTTAAA-ATAATAATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATA
* * *
15060867 ATTAATATTCTTATATGAATTTACTCAAATCATAATATATGATACTGTAAAATATAA
65 ATTAATAGTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAAGA-AA
*
15060924 A-TTAAAATAATAATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAA
1 ATTTAAAATAATAATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAA
15060988 TTAATAGTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAAGAAA
66 TTAATAGTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAAGAAA
* *
15061043 ATTTGAAATAATTAA-TATTAAATATATTTTAATTAAAATATATGATTTAATAAAATT
1 ATTTAAAATAA-TAATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATT
15061100 TAAAATAATT
Statistics
Matches: 166, Mismatches: 8, Indels: 6
0.92 0.04 0.03
Matches are distributed among these distances:
119 3 0.02
120 154 0.93
121 8 0.05
122 1 0.01
ACGTcount: A:0.50, C:0.04, G:0.03, T:0.42
Consensus pattern (120 bp):
ATTTAAAATAATAATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAA
TTAATAGTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAAGAAA
Found at i:15060963 original size:16 final size:16
Alignment explanation
Indices: 15060923--15060968 Score: 60
Period size: 15 Copynumber: 3.0 Consensus size: 16
15060913 GTAAAATATA
15060923 AATTAAAATA-ATAAT
1 AATTAAAATATATAAT
* *
15060938 TATT-AAATATATTAT
1 AATTAAAATATATAAT
15060953 AATTAAAATATATAAT
1 AATTAAAATATATAAT
15060969 TTAATAAAAT
Statistics
Matches: 25, Mismatches: 4, Indels: 3
0.78 0.12 0.09
Matches are distributed among these distances:
14 5 0.20
15 10 0.40
16 10 0.40
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (16 bp):
AATTAAAATATATAAT
Found at i:15061110 original size:54 final size:54
Alignment explanation
Indices: 15060917--15061110 Score: 144
Period size: 54 Copynumber: 3.4 Consensus size: 54
15060907 GATACTGTAA
* *
15060917 AATATAAA-TTAAAATAA-TAATTATTAAATATATTATAATTAAAATATATAATTT
1 AATA-AAATTTAAAATAATTAA-TATTAAATATATTTTAATTAAAATATATGATTT
* * * *
15060971 AATAAAATTCT-TAATAATTAATAGTCT-TATATGAATTTACTCAAATCATAATATATGATACTA
1 AATAAAATT-TAAAATAATTAATA-T-TAAATAT--ATTT--T--AATTAAAATATATGAT--T-
15061034 T
54 T
* *
15061035 AAAAGAAAATTTGAAATAATTAATATTAAATATATTTTAATTAAAATATATGATTT
1 --AATAAAATTTAAAATAATTAATATTAAATATATTTTAATTAAAATATATGATTT
15061091 AATAAAATTTAAAATAATTA
1 AATAAAATTTAAAATAATTA
15061111 TAACTAATAA
Statistics
Matches: 109, Mismatches: 13, Indels: 36
0.69 0.08 0.23
Matches are distributed among these distances:
53 3 0.03
54 30 0.28
55 9 0.08
56 2 0.02
57 4 0.04
59 15 0.14
61 14 0.13
63 5 0.05
64 2 0.02
65 6 0.06
66 19 0.17
ACGTcount: A:0.53, C:0.03, G:0.03, T:0.41
Consensus pattern (54 bp):
AATAAAATTTAAAATAATTAATATTAAATATATTTTAATTAAAATATATGATTT
Found at i:15065411 original size:28 final size:28
Alignment explanation
Indices: 15065379--15065581 Score: 173
Period size: 28 Copynumber: 7.2 Consensus size: 28
15065369 ATGAATTTTA
* *
15065379 AAAAATAAGGGTAAAATTATAAAATCTG
1 AAAAATAAGGGCAAAACTATAAAATCTG
* *
15065407 AAAAATAATGGCAAAACTGTAAAATCT-
1 AAAAATAAGGGCAAAACTATAAAATCTG
15065434 AAAAAGTAAGGGCAAAACTATAAAATCTG
1 AAAAA-TAAGGGCAAAACTATAAAATCTG
* * * *
15065463 -AAAATCAGTGGCAAAACTATAGATTTTG
1 AAAAATAAG-GGCAAAACTATAAAATCTG
* * * * *
15065491 AAAAATAATGGTAAAATTGTAAAATTTG
1 AAAAATAAGGGCAAAACTATAAAATCTG
* *
15065519 AAAAAT-AGGGGAAAACTATAAAAATCTA
1 AAAAATAAGGGCAAAACTAT-AAAATCTG
* *
15065547 AAAAAT-AGAAG-AAAACCTGTAAAATCTG
1 AAAAATAAG-GGCAAAA-CTATAAAATCTG
15065575 AAAAATA
1 AAAAATA
15065582 GGGGACACAC
Statistics
Matches: 141, Mismatches: 26, Indels: 15
0.77 0.14 0.08
Matches are distributed among these distances:
27 17 0.12
28 114 0.81
29 10 0.07
ACGTcount: A:0.56, C:0.07, G:0.14, T:0.23
Consensus pattern (28 bp):
AAAAATAAGGGCAAAACTATAAAATCTG
Found at i:15065437 original size:56 final size:56
Alignment explanation
Indices: 15065377--15065553 Score: 196
Period size: 56 Copynumber: 3.2 Consensus size: 56
15065367 ATATGAATTT
*
15065377 TAAAAAATAAGGGTAAAATTATAAAATCTGAAAAATAATGGCAAAACTGTAAAATC
1 TAAAAAATAAGGGTAAAATTATAAAATCTGAAAAATAATGGCAAAACTATAAAATC
* * * * * * *
15065433 TAAAAAGTAAGGGCAAAACTATAAAATCTG-AAAATCAGTGGCAAAACTATAGATTT
1 TAAAAAATAAGGGTAAAATTATAAAATCTGAAAAAT-AATGGCAAAACTATAAAATC
* * * * * *
15065489 TGAAAAATAATGGTAAAATTGTAAAATTTGAAAAAT-AGGGGAAAACTATAAAAATC
1 TAAAAAATAAGGGTAAAATTATAAAATCTGAAAAATAATGGCAAAACTAT-AAAATC
15065545 TAAAAAATA
1 TAAAAAATA
15065554 GAAGAAAACC
Statistics
Matches: 96, Mismatches: 22, Indels: 6
0.77 0.18 0.05
Matches are distributed among these distances:
55 15 0.16
56 76 0.79
57 5 0.05
ACGTcount: A:0.55, C:0.07, G:0.14, T:0.24
Consensus pattern (56 bp):
TAAAAAATAAGGGTAAAATTATAAAATCTGAAAAATAATGGCAAAACTATAAAATC
Found at i:15065570 original size:112 final size:112
Alignment explanation
Indices: 15065373--15065578 Score: 274
Period size: 112 Copynumber: 1.8 Consensus size: 112
15065363 AAAAATATGA
* *
15065373 ATTTTAAAAAATAAGGGTAAAATTATAAAATCTGAAAAATAATGGCAAAACTGTAAAATCTAAAA
1 ATTTTAAAAAATAAGGGTAAAATTATAAAATCTGAAAAATAAGGGCAAAACTATAAAATCTAAAA
* *
15065438 AGTAAGGGCAAAACTATAAAATCTGAAAATCAGTGGCAAAACTATAG
66 AATAAGAGCAAAACTATAAAATCTGAAAATCAGTGGCAAAACTATAG
* * * * *
15065485 ATTTTGAAAAATAATGGTAAAATTGTAAAATTTGAAAAAT-AGGGGAAAACTATAAAAATCTAAA
1 ATTTTAAAAAATAAGGGTAAAATTATAAAATCTGAAAAATAAGGGCAAAACTAT-AAAATCTAAA
*
15065549 AAAT-AGAAG-AAAACCTGTAAAATCTGAAAA
65 AAATAAG-AGCAAAA-CTATAAAATCTGAAAA
15065579 ATAGGGGACA
Statistics
Matches: 81, Mismatches: 10, Indels: 6
0.84 0.10 0.06
Matches are distributed among these distances:
111 16 0.20
112 65 0.80
ACGTcount: A:0.55, C:0.07, G:0.14, T:0.24
Consensus pattern (112 bp):
ATTTTAAAAAATAAGGGTAAAATTATAAAATCTGAAAAATAAGGGCAAAACTATAAAATCTAAAA
AATAAGAGCAAAACTATAAAATCTGAAAATCAGTGGCAAAACTATAG
Found at i:15065577 original size:84 final size:84
Alignment explanation
Indices: 15065391--15065581 Score: 210
Period size: 84 Copynumber: 2.3 Consensus size: 84
15065381 AAATAAGGGT
*
15065391 AAAATTATAAAATCTGAAAAATAATGGCAAAACTGTAAAATCTAAAAAGTAAGGGCAAAACTATA
1 AAAACTATAAAATCTGAAAAATAATGGCAAAACTGTAAAATCTAAAAAGTAAGGGCAAAACTATA
* **
15065456 AAATCTGAAAATCAGTGGC
66 AAATCTAAAAATCAGAAGC
* * * * * * *
15065475 AAAACTATAGATTTTGAAAAATAATGGTAAAATTGTAAAATTTGAAAAA-T-AGGGGAAAACTAT
1 AAAACTATAAAATCTGAAAAATAATGGCAAAACTGTAAAATCT-AAAAAGTAAGGGCAAAACTAT
15065538 AAAAATCTAAAAAAT-AGAAG-
65 -AAAATCT-AAAAATCAGAAGC
*
15065558 AAAACCTGTAAAATCTGAAAAATA
1 AAAA-CTATAAAATCTGAAAAATA
15065582 GGGGACACAC
Statistics
Matches: 88, Mismatches: 15, Indels: 8
0.79 0.14 0.07
Matches are distributed among these distances:
83 16 0.18
84 62 0.70
85 10 0.11
ACGTcount: A:0.55, C:0.08, G:0.14, T:0.23
Consensus pattern (84 bp):
AAAACTATAAAATCTGAAAAATAATGGCAAAACTGTAAAATCTAAAAAGTAAGGGCAAAACTATA
AAATCTAAAAATCAGAAGC
Found at i:15075393 original size:27 final size:27
Alignment explanation
Indices: 15075354--15075451 Score: 133
Period size: 27 Copynumber: 3.6 Consensus size: 27
15075344 CCCTAAAATA
* * *
15075354 GGTAAAATAACCGTAATGTCTTTGTAG
1 GGTAAAATGACCGTAATGCCCTTGTAG
*
15075381 GGTAAAATGACCGTAATGCCCTTATAG
1 GGTAAAATGACCGTAATGCCCTTGTAG
* *
15075408 GGTAAAATGACCGTAATACCCCTGTAG
1 GGTAAAATGACCGTAATGCCCTTGTAG
*
15075435 GATAAAATGACCGTAAT
1 GGTAAAATGACCGTAAT
15075452 ATTCTTGTAC
Statistics
Matches: 63, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 63 1.00
ACGTcount: A:0.36, C:0.16, G:0.21, T:0.27
Consensus pattern (27 bp):
GGTAAAATGACCGTAATGCCCTTGTAG
Found at i:15075460 original size:27 final size:27
Alignment explanation
Indices: 15075352--15075469 Score: 121
Period size: 27 Copynumber: 4.4 Consensus size: 27
15075342 AACCCTAAAA
* ** *
15075352 TAGG-TAAAATAACCGTAATGTCTTTG
1 TAGGATAAAATGACCGTAATACCCTTG
* * *
15075378 TAGGGTAAAATGACCGTAATGCCCTTA
1 TAGGATAAAATGACCGTAATACCCTTG
* *
15075405 TAGGGTAAAATGACCGTAATACCCCTG
1 TAGGATAAAATGACCGTAATACCCTTG
**
15075432 TAGGATAAAATGACCGTAATATTCTTG
1 TAGGATAAAATGACCGTAATACCCTTG
*
15075459 TACGATAAAAT
1 TAGGATAAAAT
15075470 AACGATTATG
Statistics
Matches: 79, Mismatches: 12, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
26 4 0.05
27 75 0.95
ACGTcount: A:0.36, C:0.15, G:0.19, T:0.29
Consensus pattern (27 bp):
TAGGATAAAATGACCGTAATACCCTTG
Found at i:15075658 original size:27 final size:27
Alignment explanation
Indices: 15075609--15075672 Score: 76
Period size: 27 Copynumber: 2.4 Consensus size: 27
15075599 TGAAAGAAGT
*
15075609 ACTG-TACTGGTGACTATGTCACATTC
1 ACTGTTACTGGTGACTATGCCACATTC
* * *
15075635 ACTGTTACTGGTGGCTTTGCCACATTT
1 ACTGTTACTGGTGACTATGCCACATTC
*
15075662 ACTGTTTCTGG
1 ACTGTTACTGG
15075673 CAACTATACT
Statistics
Matches: 32, Mismatches: 5, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
26 4 0.12
27 28 0.88
ACGTcount: A:0.17, C:0.22, G:0.22, T:0.39
Consensus pattern (27 bp):
ACTGTTACTGGTGACTATGCCACATTC
Found at i:15075891 original size:32 final size:34
Alignment explanation
Indices: 15075855--15075919 Score: 89
Period size: 33 Copynumber: 2.0 Consensus size: 34
15075845 GCCATATTAT
*
15075855 TACTGTATA-GGCTAAGGCCCAGACTG-TACTGA
1 TACTGAATAGGGCTAAGGCCCAGACTGTTACTGA
* *
15075887 TACTGAATAGGGCTCATGCCCAGACTGTTACTG
1 TACTGAATAGGGCTAAGGCCCAGACTGTTACTG
15075920 CACGCACTGT
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
32 8 0.29
33 15 0.54
34 5 0.18
ACGTcount: A:0.26, C:0.23, G:0.25, T:0.26
Consensus pattern (34 bp):
TACTGAATAGGGCTAAGGCCCAGACTGTTACTGA
Found at i:15083662 original size:22 final size:23
Alignment explanation
Indices: 15083617--15083663 Score: 60
Period size: 22 Copynumber: 2.1 Consensus size: 23
15083607 TTTGTGCCCA
**
15083617 TTTTCAATTTAATCCTGTTCTTT
1 TTTTCAATTTAATCCTGTGATTT
*
15083640 TTTTTAATTT-ATCCTGTGATTT
1 TTTTCAATTTAATCCTGTGATTT
15083662 TT
1 TT
15083664 GCATTGTTTC
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
22 12 0.57
23 9 0.43
ACGTcount: A:0.17, C:0.13, G:0.06, T:0.64
Consensus pattern (23 bp):
TTTTCAATTTAATCCTGTGATTT
Found at i:15084092 original size:12 final size:12
Alignment explanation
Indices: 15084077--15084101 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
15084067 GTTATGGTTG
15084077 TTTTATTATTTC
1 TTTTATTATTTC
15084089 TTTTATTATTTC
1 TTTTATTATTTC
15084101 T
1 T
15084102 AATATCTTCA
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:0.16, C:0.08, G:0.00, T:0.76
Consensus pattern (12 bp):
TTTTATTATTTC
Found at i:15091567 original size:20 final size:20
Alignment explanation
Indices: 15091504--15091589 Score: 88
Period size: 20 Copynumber: 4.4 Consensus size: 20
15091494 ATATAAAAAT
* *
15091504 ATATATTATATATTATATTA
1 ATATATAATATATAATATTA
*
15091524 AT-T-TAATATTTAAGTATTA
1 ATATATAATATATAA-TATTA
*
15091543 ATATATAATATATCATATTA
1 ATATATAATATATAATATTA
* *
15091563 TTATATTATATATAATA-TA
1 ATATATAATATATAATATTA
15091582 ATATATAA
1 ATATATAA
15091590 AACATAAGTA
Statistics
Matches: 53, Mismatches: 10, Indels: 7
0.76 0.14 0.10
Matches are distributed among these distances:
18 7 0.13
19 16 0.30
20 22 0.42
21 8 0.15
ACGTcount: A:0.48, C:0.01, G:0.01, T:0.50
Consensus pattern (20 bp):
ATATATAATATATAATATTA
Found at i:15091589 original size:7 final size:7
Alignment explanation
Indices: 15091501--15091589 Score: 64
Period size: 7 Copynumber: 13.3 Consensus size: 7
15091491 TTAATATAAA
15091501 AATATAT
1 AATATAT
*
15091508 ATTATAT
1 AATATAT
*
15091515 ATTATATT
1 AATATA-T
15091523 AAT-T-T
1 AATATAT
*
15091528 AATATTT
1 AATATAT
15091535 AAGTAT-T
1 AA-TATAT
15091542 AATATAT
1 AATATAT
15091549 AATATAT
1 AATATAT
*
15091556 CATAT-T
1 AATATAT
*
15091562 ATTATAT
1 AATATAT
*
15091569 TATATAT
1 AATATAT
15091576 -A-ATAT
1 AATATAT
15091581 AATATAT
1 AATATAT
15091588 AA
1 AA
15091590 AACATAAGTA
Statistics
Matches: 67, Mismatches: 7, Indels: 16
0.74 0.08 0.18
Matches are distributed among these distances:
5 8 0.12
6 10 0.15
7 43 0.64
8 6 0.09
ACGTcount: A:0.48, C:0.01, G:0.01, T:0.49
Consensus pattern (7 bp):
AATATAT
Found at i:15092775 original size:22 final size:22
Alignment explanation
Indices: 15092735--15092802 Score: 93
Period size: 22 Copynumber: 3.0 Consensus size: 22
15092725 CGTTCTATTA
*
15092735 TTAGCACGTTAAGTGCTCTCTGT
1 TTAGCAC-TTTAGTGCTCTCTGT
15092758 TTAGCACATTT-GTGCTCTCTGT
1 TTAGCAC-TTTAGTGCTCTCTGT
*
15092780 ATAGCACTTTAGTGCTCTCTGT
1 TTAGCACTTTAGTGCTCTCTGT
15092802 T
1 T
15092803 CGTTTGTGCA
Statistics
Matches: 40, Mismatches: 4, Indels: 3
0.85 0.09 0.06
Matches are distributed among these distances:
21 3 0.08
22 28 0.70
23 9 0.22
ACGTcount: A:0.16, C:0.22, G:0.19, T:0.43
Consensus pattern (22 bp):
TTAGCACTTTAGTGCTCTCTGT
Found at i:15093431 original size:10 final size:11
Alignment explanation
Indices: 15093405--15093429 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
15093395 AAATGCTGCC
15093405 AAAATTAAAAA
1 AAAATTAAAAA
15093416 AAAATTAAAAA
1 AAAATTAAAAA
15093427 AAA
1 AAA
15093430 TTCGTTCCAC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.84, C:0.00, G:0.00, T:0.16
Consensus pattern (11 bp):
AAAATTAAAAA
Found at i:15098536 original size:94 final size:94
Alignment explanation
Indices: 15098372--15098748 Score: 377
Period size: 94 Copynumber: 4.0 Consensus size: 94
15098362 AAGAAACTAT
* * * * * * *
15098372 AAATCTTATACCTCTGAAGTTGTAGTGGGACAGATTGAAGTTATCATGGTGAATCTTATCTCCCT
1 AAATCCTATACCTCTGAAGTTGCAGTGAGACGGATTGAAGTCAACATGGCGAATCTTATCTCCCT
*
15098437 AAAGTTGTAGTGGAGCAGATTAAAGCCAC
66 GAAGTTGTAGTGGAGCAGATTAAAGCCAC
* *
15098466 AAATCCTATACCGCTGAAGTTACAGTGAGACGGATTGAAGTCAACATGGCGAATCTTATCTCCCT
1 AAATCCTATACCTCTGAAGTTGCAGTGAGACGGATTGAAGTCAACATGGCGAATCTTATCTCCCT
15098531 GAAGTTGTAGTGGAGCAGATTAAAGCCAC
66 GAAGTTGTAGTGGAGCAGATTAAAGCCAC
* * * *
15098560 AAATCCTATACCTCTGAAGTTGCAGT-AGGTCGGATT-AAATCTACCATAGCGAATCTTATCTCC
1 AAATCCTATACCTCTGAAGTTGCAGTGA-GACGGATTGAAGTC-AACATGGCGAATCTTATCTCC
* ** * * * *
15098623 CTGAAGTTGCAGTGGAATAAATTGAAGCGAT
64 CTGAAGTTGTAGTGGAGCAGATTAAAGCCAC
* * * * * * * * *
15098654 AAATCCTATACTTCTGAAATTGCAGT-ATGTCGGATT-AAATCTATCGTAGCGAGTCTTATTTCC
1 AAATCCTATACCTCTGAAGTTGCAGTGA-GACGGATTGAAGTC-AACATGGCGAATCTTATCTCC
* ** *
15098717 TTGAAG-TGTAGTGGAATAGATTAAAGCTAC
64 CTGAAGTTGTAGTGGAGCAGATTAAAGCCAC
15098747 AA
1 AA
15098749 GTTACAAATC
Statistics
Matches: 245, Mismatches: 36, Indels: 5
0.86 0.13 0.02
Matches are distributed among these distances:
93 26 0.11
94 219 0.89
ACGTcount: A:0.32, C:0.18, G:0.21, T:0.29
Consensus pattern (94 bp):
AAATCCTATACCTCTGAAGTTGCAGTGAGACGGATTGAAGTCAACATGGCGAATCTTATCTCCCT
GAAGTTGTAGTGGAGCAGATTAAAGCCAC
Found at i:15098834 original size:45 final size:45
Alignment explanation
Indices: 15098753--15099542 Score: 385
Period size: 44 Copynumber: 17.2 Consensus size: 45
15098743 CTACAAGTTA
* * * *
15098753 CAAATCTTATCTCCCTGAAGTTGTAGTGGAGTAGATTGAAGATAG
1 CAAATCTTATCTCCCTAAAGTTGCAGTAGAGCAGATTGAAGATAG
* * * * *
15098798 CGAATCTTAT-TCCCCTAAAGTTGCAGTAGAACAGATTAAAGCTACAAAC
1 CAAATCTTATCT-CCCTAAAGTTGCAGTAGAGCAGATTGAAG----ATAG
* * * *
15098847 CACAAGTCTTATCTCCATGAAGTTACAGTGGAGCAGATTGAAGATAG
1 CA-AA-TCTTATCTCCCTAAAGTTGCAGTAGAGCAGATTGAAGATAG
* * * *
15098894 CAAATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATTAAAGCTA-
1 CAAATCTTATCTCCCTAAAGTTGCAGTAGAGCAGATTGAAGATAG
* * *
15098938 TAAA-CTTTATCTCCCTAAAGTTACAGTAGAGCAGATTGAAAATAG
1 CAAATC-TTATCTCCCTAAAGTTGCAGTAGAGCAGATTGAAGATAG
* * * * *
15098983 TAAATCTTATCTCTCTAAAGTTGCAATAGAGCAGATTAAAGCTA-
1 CAAATCTTATCTCCCTAAAGTTGCAGTAGAGCAGATTGAAGATAG
* * * * ** *
15099027 TAAACCTTATCTCAC-AGAAGTTGCAGT-GCAGTAGATCAAAGTTA-
1 CAAATCTTATCTCCCTA-AAGTTGCAGTAG-AGCAGATTGAAGATAG
* * * *
15099071 CAAATCCTATAC-CCCTAAAGTTGTAGT-GGGACGGATTGAAGTTATCATGG
1 CAAATCTTAT-CTCCCTAAAGTTGCAGTAGAG-CAGATTGAAG--AT-A--G
* * * **
15099121 TAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCCA-
1 CAAATCTTATCTCCCTAAAGTTGCAGTAGAGCAGATTGAAGATAG
* ** * * * * *
15099165 CAGATCTTATCTCTTTGAAGTTGCAATTGAGCAGATTAAAGTTA-
1 CAAATCTTATCTCCCTAAAGTTGCAGTAGAGCAGATTGAAGATAG
* * *
15099209 CAAATCTTATCTCCTTAAAGTTGCAGTAGAGTAGATTAAAGATAG
1 CAAATCTTATCTCCCTAAAGTTGCAGTAGAGCAGATTGAAGATAG
* * * * * *
15099254 CAAATCTTATTTCCTTGAAGTTGTAG-AGGAACAGATT-AAAATTACAAG
1 CAAATCTTATCTCCCTAAAGTTGCAGTA-GAGCAGATTGAAGA-T---AG
* * * *
15099302 TTACAAATCTTATCTCTCTGAAGTTGCAGTAGAGTAGATTAAAGATAG
1 ---CAAATCTTATCTCCCTAAAGTTGCAGTAGAGCAGATTGAAGATAG
* * * * * *
15099350 CAAATCTTATTTCCTTGAAGTTGTAG-AGGAACAGATT-AAAATTACAAG
1 CAAATCTTATCTCCCTAAAGTTGCAGTA-GAGCAGATTGAAGA-T---AG
* * * * *
15099398 TTACAAATCTTATCTCTCTGAAGTTACAGTGGAGTAGATTGAA-ATTA-
1 ---CAAATCTTATCTCCCTAAAGTTGCAGTAGAGCAGATTGAAGA-TAG
* * * * * ** * *
15099445 CAAATCTTATCTTCTTGATGTTGCAGTGGAATAGATGGAAGCTA-
1 CAAATCTTATCTCCCTAAAGTTGCAGTAGAGCAGATTGAAGATAG
* *
15099489 CAAATCTTATCTCCCTAAAGTTGCAGTGGAGCAGATTGAAGCTA-
1 CAAATCTTATCTCCCTAAAGTTGCAGTAGAGCAGATTGAAGATAG
15099533 CAAATCTTAT
1 CAAATCTTAT
15099543 TTTTGTAAAG
Statistics
Matches: 578, Mismatches: 121, Indels: 93
0.73 0.15 0.12
Matches are distributed among these distances:
43 4 0.01
44 257 0.44
45 165 0.29
46 4 0.01
47 6 0.01
48 7 0.01
49 4 0.01
50 32 0.06
51 92 0.16
52 7 0.01
ACGTcount: A:0.35, C:0.16, G:0.19, T:0.30
Consensus pattern (45 bp):
CAAATCTTATCTCCCTAAAGTTGCAGTAGAGCAGATTGAAGATAG
Found at i:15098843 original size:96 final size:96
Alignment explanation
Indices: 15098707--15099543 Score: 552
Period size: 96 Copynumber: 9.1 Consensus size: 96
15098697 TCGTAGCGAG
* * * * *
15098707 TCTTATTTCCTTGAAG-TGTAGTGGAATAGATTAAAGCTACAAGTTACAAATCTTATCTCCCTGA
1 TCTTATTCCCCTGAAGTTGCAGTAGAACAGATTAAAGCTACAAGTTACAAATCTTATCTCCCTGA
* *
15098771 AGTTGTAGTGGAGTAGATTGAAGATAGCGAA
66 AGTTGCAGTGGAGTAGATTGAAGATAGCAAA
* *** * *
15098802 TCTTATTCCCCTAAAGTTGCAGTAGAACAGATTAAAGCTACAAACCACAAGTCTTATCTCCATGA
1 TCTTATTCCCCTGAAGTTGCAGTAGAACAGATTAAAGCTACAAGTTACAAATCTTATCTCCCTGA
* *
15098867 AGTTACAGTGGAGCAGATTGAAGATAGCAAA
66 AGTTGCAGTGGAGTAGATTGAAGATAGCAAA
* * * *
15098898 TCTTA-TCTCTCTGAAGTTGCAGTAGAGCAGATTAAAGCT---A--TA-AACT-TTATCTCCCTA
1 TCTTATTC-CCCTGAAGTTGCAGTAGAACAGATTAAAGCTACAAGTTACAAATCTTATCTCCCTG
* * * * *
15098955 AAGTTACAGTAGAGCAGATTGAAAATAGTAAA
65 AAGTTGCAGTGGAGTAGATTGAAGATAGCAAA
* * * * * * *
15098987 TCTTA-TCTCTCTAAAGTTGCAATAGAGCAGATTAAAGCT---A--T--AAACCTTATCTCACAG
1 TCTTATTC-CCCTGAAGTTGCAGTAGAACAGATTAAAGCTACAAGTTACAAATCTTATCTCCCTG
* ** *
15099044 AAGTTGCAGTGCAGTAGATCAAAGTTA-CAAA
65 AAGTTGCAGTGGAGTAGATTGAAGATAGCAAA
* * * * * * * * * * *
15099075 TCCTATACCCCTAAAGTTGTAGTGGGACGGATTGAAGTTATCATGGT--AAATCTTATCTCCCTG
1 TCTTATTCCCCTGAAGTTGCAGTAGAACAGATTAAAGCTA-CAAGTTACAAATCTTATCTCCCTG
* ** *
15099138 AAGTTGCAGTGGAGCAGATTGAAGCCA-CAGA
65 AAGTTGCAGTGGAGTAGATTGAAGATAGCAAA
** * * * * *
15099169 TCTTA-TCTCTTTGAAGTTGCAATTGAGCAGA-T-----TA-AAGTTACAAATCTTATCTCCTTA
1 TCTTATTC-CCCTGAAGTTGCAGTAGAACAGATTAAAGCTACAAGTTACAAATCTTATCTCCCTG
* *
15099226 AAGTTGCAGTAGAGTAGATTAAAGATAGCAAA
65 AAGTTGCAGTGGAGTAGATTGAAGATAGCAAA
* * * ** *
15099258 TCTTATTTCCTTGAAGTTGTAG-AGGAACAGATTAAAATTACAAGTTACAAATCTTATCTCTCTG
1 TCTTATTCCCCTGAAGTTGCAGTA-GAACAGATTAAAGCTACAAGTTACAAATCTTATCTCCCTG
* *
15099322 AAGTTGCAGTAGAGTAGATTAAAGATAGCAAA
65 AAGTTGCAGTGGAGTAGATTGAAGATAGCAAA
* * * ** *
15099354 TCTTATTTCCTTGAAGTTGTAG-AGGAACAGATTAAAATTACAAGTTACAAATCTTATCTCTCTG
1 TCTTATTCCCCTGAAGTTGCAGTA-GAACAGATTAAAGCTACAAGTTACAAATCTTATCTCCCTG
*
15099418 AAGTTACAGTGGAGTAGATTGAA-ATTA-CAAA
65 AAGTTGCAGTGGAGTAGATTGAAGA-TAGCAAA
* * * * * * * *
15099449 TCTTA-TCTTCTTGATGTTGCAGTGGAATAGA-T---G---GAAGCTACAAATCTTATCTCCCTA
1 TCTTATTC-CCCTGAAGTTGCAGTAGAACAGATTAAAGCTACAAGTTACAAATCTTATCTCCCTG
* *
15099506 AAGTTGCAGTGGAGCAGATTGAAGCTA-CAAA
65 AAGTTGCAGTGGAGTAGATTGAAGATAGCAAA
15099537 TCTTATT
1 TCTTATT
15099544 TTTGTAAAGT
Statistics
Matches: 604, Mismatches: 110, Indels: 62
0.78 0.14 0.08
Matches are distributed among these distances:
86 3 0.00
88 121 0.20
89 131 0.22
90 5 0.01
91 1 0.00
93 3 0.00
94 58 0.10
95 44 0.07
96 238 0.39
ACGTcount: A:0.35, C:0.16, G:0.19, T:0.31
Consensus pattern (96 bp):
TCTTATTCCCCTGAAGTTGCAGTAGAACAGATTAAAGCTACAAGTTACAAATCTTATCTCCCTGA
AGTTGCAGTGGAGTAGATTGAAGATAGCAAA
Found at i:15099006 original size:89 final size:89
Alignment explanation
Indices: 15098854--15099263 Score: 305
Period size: 89 Copynumber: 4.6 Consensus size: 89
15098844 AACCACAAGT
* * * *
15098854 CTTATCTCCATGAAGTTACAGTGGAGCAGATTGAAGATAGCAAATCTTATCTCTCTGAAGTTGCA
1 CTTATCTCCATAAAGTTACAGTAGAGCAGATTGAAAATAGCAAATCTTATCTCTCTAAAGTTGCA
*
15098919 GTAGAGCAGATTAAAGCTATAAAC
66 ATAGAGCAGATTAAAGCTATAAAC
* * *
15098943 TTTATCTCCCTAAAGTTACAGTAGAGCAGATTGAAAATAGTAAATCTTATCTCTCTAAAGTTGCA
1 CTTATCTCCATAAAGTTACAGTAGAGCAGATTGAAAATAGCAAATCTTATCTCTCTAAAGTTGCA
15099008 ATAGAGCAGATTAAAGCTATAAAC
66 ATAGAGCAGATTAAAGCTATAAAC
* * * * * * *
15099032 CTTATCTCACA-GAAGTTGCAGT-GCAGTAGA-TCAAAGTTA-CAAATCCTATAC-CCCTAAAGT
1 CTTATCTC-CATAAAGTTACAGTAG-AGCAGATTGAAA-ATAGCAAATCTTAT-CTCTCTAAAGT
* * * * * * *
15099092 TGTAGT-GGGACGGATTGAAGTTATCATGGTAAAT
62 TGCAATAGAG-CAGATT-AA---AGC-T-ATAAAC
* * * * *** * * *
15099126 CTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCCA-CAGATCTTATCTCTTTGAAGTTGCA
1 CTTATCTCCATAAAGTTACAGTAGAGCAGATTGAAAATAGCAAATCTTATCTCTCTAAAGTTGCA
* * * *
15099190 ATTGAGCAGATTAAAGTTACAAAT
66 ATAGAGCAGATTAAAGCTATAAAC
* * *
15099214 CTTATCTCCTTAAAGTTGCAGTAGAGTAGATT-AAAGATAGCAAATCTTAT
1 CTTATCTCCATAAAGTTACAGTAGAGCAGATTGAAA-ATAGCAAATCTTAT
15099264 TTCCTTGAAG
Statistics
Matches: 251, Mismatches: 52, Indels: 36
0.74 0.15 0.11
Matches are distributed among these distances:
87 4 0.02
88 63 0.25
89 117 0.47
90 2 0.01
92 2 0.01
93 5 0.02
94 52 0.21
95 6 0.02
ACGTcount: A:0.35, C:0.17, G:0.19, T:0.30
Consensus pattern (89 bp):
CTTATCTCCATAAAGTTACAGTAGAGCAGATTGAAAATAGCAAATCTTATCTCTCTAAAGTTGCA
ATAGAGCAGATTAAAGCTATAAAC
Found at i:15099174 original size:138 final size:138
Alignment explanation
Indices: 15098982--15099231 Score: 315
Period size: 138 Copynumber: 1.8 Consensus size: 138
15098972 ATTGAAAATA
* * *
15098982 GTAAATCTTATCTCTCTAAAGTTGCAATAGAGCAGATTAAAGCTATAAACCTTATCTCACAGAAG
1 GTAAATCTTATCTCCCTAAAGTTGCAATAGAGCAGATTAAAGCCACAAACCTTATCTCACAGAAG
*
15099047 TTGC-AGTGCAGTAGATCAAAGTTACAAATCCTATAC-CCCTAAAGTTGTAGTGGGACGGATTGA
66 TTGCAAGTG-AGCAGATCAAAGTTACAAATCCTAT-CTCCCTAAAGTTGTAGTGGGACGGATTGA
15099110 AGTTATCATG
129 AGTTATCATG
* * * * * * ***
15099120 GTAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCCACAGATCTTATCTCTTTGAAG
1 GTAAATCTTATCTCCCTAAAGTTGCAATAGAGCAGATTAAAGCCACAAACCTTATCTCACAGAAG
* * * *
15099185 TTGCAATTGAGCAGATTAAAGTTACAAATCTTATCTCCTTAAAGTTG
66 TTGCAAGTGAGCAGATCAAAGTTACAAATCCTATCTCCCTAAAGTTG
15099232 CAGTAGAGTA
Statistics
Matches: 93, Mismatches: 17, Indels: 4
0.82 0.15 0.04
Matches are distributed among these distances:
137 1 0.01
138 89 0.96
139 3 0.03
ACGTcount: A:0.33, C:0.18, G:0.19, T:0.31
Consensus pattern (138 bp):
GTAAATCTTATCTCCCTAAAGTTGCAATAGAGCAGATTAAAGCCACAAACCTTATCTCACAGAAG
TTGCAAGTGAGCAGATCAAAGTTACAAATCCTATCTCCCTAAAGTTGTAGTGGGACGGATTGAAG
TTATCATG
Found at i:15099199 original size:182 final size:183
Alignment explanation
Indices: 15098723--15099359 Score: 467
Period size: 182 Copynumber: 3.5 Consensus size: 183
15098713 TTCCTTGAAG
* * ** * * * *
15098723 TGTAGTGGAATAGATTAAAGCTACAAGTTACAAATCTTATCTCCCTGAAGTTGTAGTGGAGTAGA
1 TGTAGAGGAACAGATTAAAATTACAAGGTA-AAATCTTATCTCCCTGAAGTTGCAGTAGAGCAGA
* * * * * *
15098788 TTGAAGATAGCGAATCTTAT-TCCCCTAAAGTTGCAGTAGAACAGATTAAAGCTACAAACCACAA
65 TTGAAAACAGCAAATCTTATCT-CTCTAAAGTTGCAATAGAGCAGATTAAAGCTAC-AA--AC--
* * * * ** * * *
15098852 GTCTTATCTCCATGAAGTTACAGTGGAGCAGATTGAAGATAGCAAATCTTAT-CTCTCTGAAGT
124 --CTTATCTCC-TAAAGTTGCAGTAGAGTAGATCAAAGATAGCAAATCCTATAC-CCCTAAAGT
* * * * * * *
15098915 TGCAGTA-GAGCAGATT-AAA--GCTA--TAAACT-TTATCTCCCTAAAGTTACAGTAGAGCAGA
1 TGTAG-AGGAACAGATTAAAATTACAAGGTAAAATCTTATCTCCCTGAAGTTGCAGTAGAGCAGA
* * *
15098973 TTGAAAATAGTAAATCTTATCTCTCTAAAGTTGCAATAGAGCAGATTAAAGCTATAAACCTTATC
65 TTGAAAACAGCAAATCTTATCTCTCTAAAGTTGCAATAGAGCAGATTAAAGCTACAAACCTTATC
*
15099038 TCAC-AGAAGTTGCAGT-GCAGTAGATCAAAGTTA-CAAATCCTATACCCCTAAAGT
130 TC-CTA-AAGTTGCAGTAG-AGTAGATCAAAGATAGCAAATCCTATACCCCTAAAGT
* * * * * * *
15099092 TGTAGTGGGACGGATTGAAGTTATCATGGT-AAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGA
1 TGTAGAGGAACAGATTAAAATTA-CAAGGTAAAATCTTATCTCCCTGAAGTTGCAGTAGAGCAGA
** * * * * * *
15099156 TTGAAGCCA-CAGATCTTATCTCTTTGAAGTTGCAATTGAGCAGATTAAAGTTACAAATCTTATC
65 TTGAAAACAGCAAATCTTATCTCTCTAAAGTTGCAATAGAGCAGATTAAAGCTACAAACCTTATC
* * ** * *
15099220 TCCTTAAAGTTGCAGTAGAGTAGATTAAAGATAGCAAATCTTATTTCCTTGAAGT
130 TCC-TAAAGTTGCAGTAGAGTAGATCAAAGATAGCAAATCCTATACCCCTAAAGT
* * *
15099275 TGTAGAGGAACAGATTAAAATTACAAGTTACAAATCTTATCTCTCTGAAGTTGCAGTAGAGTAGA
1 TGTAGAGGAACAGATTAAAATTACAAGGTA-AAATCTTATCTCCCTGAAGTTGCAGTAGAGCAGA
*
15099340 TT-AAAGATAGCAAATCTTAT
65 TTGAAA-ACAGCAAATCTTAT
15099360 TTCCTTGAAG
Statistics
Matches: 349, Mismatches: 74, Indels: 51
0.74 0.16 0.11
Matches are distributed among these distances:
177 27 0.08
178 31 0.09
179 1 0.00
181 2 0.01
182 81 0.23
183 71 0.20
184 36 0.10
185 79 0.23
186 4 0.01
187 2 0.01
189 2 0.01
191 2 0.01
192 11 0.03
ACGTcount: A:0.35, C:0.16, G:0.19, T:0.30
Consensus pattern (183 bp):
TGTAGAGGAACAGATTAAAATTACAAGGTAAAATCTTATCTCCCTGAAGTTGCAGTAGAGCAGAT
TGAAAACAGCAAATCTTATCTCTCTAAAGTTGCAATAGAGCAGATTAAAGCTACAAACCTTATCT
CCTAAAGTTGCAGTAGAGTAGATCAAAGATAGCAAATCCTATACCCCTAAAGT
Found at i:15099552 original size:44 final size:44
Alignment explanation
Indices: 15099399--15099569 Score: 184
Period size: 44 Copynumber: 3.9 Consensus size: 44
15099389 AATTACAAGT
* * **
15099399 TACAAATCTTATCTCTCTGAAGTTACAGTGGAGTAGATTGAAAT
1 TACAAATCTTATCTCTCTAAAGTTGCAGTGGAGTAGATTGAAGC
* * * *
15099443 TACAAATCTTATCT-TCTTGATGTTGCAGTGGAATAGATGGAAGC
1 TACAAATCTTATCTCTC-TAAAGTTGCAGTGGAGTAGATTGAAGC
* *
15099487 TACAAATCTTATCTCCCTAAAGTTGCAGTGGAGCAGATTGAAGC
1 TACAAATCTTATCTCTCTAAAGTTGCAGTGGAGTAGATTGAAGC
* * * *
15099531 TACAAATCTTATTTTTGTAAAGTTGTAGTAGG-GTAGATT
1 TACAAATCTTATCTCTCTAAAGTTGCAGT-GGAGTAGATT
15099570 AAAATAACAA
Statistics
Matches: 106, Mismatches: 18, Indels: 6
0.82 0.14 0.05
Matches are distributed among these distances:
43 2 0.02
44 101 0.95
45 3 0.03
ACGTcount: A:0.32, C:0.13, G:0.20, T:0.35
Consensus pattern (44 bp):
TACAAATCTTATCTCTCTAAAGTTGCAGTGGAGTAGATTGAAGC
Found at i:15101196 original size:12 final size:12
Alignment explanation
Indices: 15101179--15101203 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
15101169 GTTTTTGTTG
15101179 TTTTATTATTTC
1 TTTTATTATTTC
15101191 TTTTATTATTTC
1 TTTTATTATTTC
15101203 T
1 T
15101204 AATATCTTCA
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:0.16, C:0.08, G:0.00, T:0.76
Consensus pattern (12 bp):
TTTTATTATTTC
Found at i:15105526 original size:13 final size:13
Alignment explanation
Indices: 15105508--15105532 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
15105498 TGTAAAATCA
15105508 AAAATATTTTTTC
1 AAAATATTTTTTC
15105521 AAAATATTTTTT
1 AAAATATTTTTT
15105533 ATTGTAAAAT
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:0.40, C:0.04, G:0.00, T:0.56
Consensus pattern (13 bp):
AAAATATTTTTTC
Found at i:15106637 original size:26 final size:26
Alignment explanation
Indices: 15106601--15106678 Score: 129
Period size: 26 Copynumber: 3.0 Consensus size: 26
15106591 GCCTAGTGAG
**
15106601 CTTGAGTTTAAGTGGGTTAGAGGACC
1 CTTGAGTTTAAGTGGGTCGGAGGACC
*
15106627 CTTGAGTTTAAATGGGTCGGAGGACC
1 CTTGAGTTTAAGTGGGTCGGAGGACC
15106653 CTTGAGTTTAAGTGGGTCGGAGGACC
1 CTTGAGTTTAAGTGGGTCGGAGGACC
15106679 ATGAGCGGAT
Statistics
Matches: 48, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 48 1.00
ACGTcount: A:0.22, C:0.14, G:0.36, T:0.28
Consensus pattern (26 bp):
CTTGAGTTTAAGTGGGTCGGAGGACC
Found at i:15111572 original size:41 final size:42
Alignment explanation
Indices: 15111513--15111605 Score: 143
Period size: 41 Copynumber: 2.2 Consensus size: 42
15111503 GATATTCTAA
* *
15111513 AAATATTTTATTTTATCTTTTAGTAGTTTATTAAAATAAGGG
1 AAATATTTTATCTTATCTTTTAGTAGTTTATTAAAATAAGAG
* *
15111555 AATTATTTT-TCTTATCTTTTAGTAGTTTATTAGAATAAGAG
1 AAATATTTTATCTTATCTTTTAGTAGTTTATTAAAATAAGAG
15111596 AAATATTTTA
1 AAATATTTTA
15111606 CCAATTAGGT
Statistics
Matches: 45, Mismatches: 5, Indels: 2
0.87 0.10 0.04
Matches are distributed among these distances:
41 37 0.82
42 8 0.18
ACGTcount: A:0.35, C:0.03, G:0.11, T:0.51
Consensus pattern (42 bp):
AAATATTTTATCTTATCTTTTAGTAGTTTATTAAAATAAGAG
Found at i:15118855 original size:11 final size:11
Alignment explanation
Indices: 15118839--15118864 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
15118829 CTGAAATTGT
15118839 TTATTAAATAA
1 TTATTAAATAA
15118850 TTATTAAATAA
1 TTATTAAATAA
15118861 TTAT
1 TTAT
15118865 ACAATTATAC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (11 bp):
TTATTAAATAA
Found at i:15119074 original size:29 final size:29
Alignment explanation
Indices: 15119029--15119099 Score: 83
Period size: 29 Copynumber: 2.4 Consensus size: 29
15119019 CAAATGTGTA
*
15119029 TATAATTT-TTAAAAATT-TTAATCATTATT
1 TATAATTTCTT-AAAATTATTAATAATTA-T
*
15119058 TATAATTTCTTATAATTATTAATAATTAT
1 TATAATTTCTTAAAATTATTAATAATTAT
*
15119087 TATAATTACTTAA
1 TATAATTTCTTAA
15119100 GAAACTGTTC
Statistics
Matches: 36, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
29 25 0.69
30 11 0.31
ACGTcount: A:0.42, C:0.04, G:0.00, T:0.54
Consensus pattern (29 bp):
TATAATTTCTTAAAATTATTAATAATTAT
Found at i:15119082 original size:10 final size:10
Alignment explanation
Indices: 15119030--15119099 Score: 56
Period size: 10 Copynumber: 7.1 Consensus size: 10
15119020 AAATGTGTAT
*
15119030 ATAATTTTTA
1 ATAATTATTA
*
15119040 AAAATT-TTA
1 ATAATTATTA
* *
15119049 ATCATTATTT
1 ATAATTATTA
*
15119059 ATAATT-TCTT
1 ATAATTAT-TA
15119069 ATAATTATTA
1 ATAATTATTA
15119079 ATAATTATT-
1 ATAATTATTA
15119088 ATAATTACTTA
1 ATAATTA-TTA
15119099 A
1 A
15119100 GAAACTGTTC
Statistics
Matches: 49, Mismatches: 6, Indels: 9
0.77 0.09 0.14
Matches are distributed among these distances:
9 15 0.31
10 32 0.65
11 2 0.04
ACGTcount: A:0.43, C:0.04, G:0.00, T:0.53
Consensus pattern (10 bp):
ATAATTATTA
Found at i:15119214 original size:17 final size:18
Alignment explanation
Indices: 15119187--15119227 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
15119177 TTCTGGATGT
*
15119187 TTTTAATATTTTTTAA-TA
1 TTTT-ATATTTCTTAATTA
15119205 TTTTATATTTCTTAATTA
1 TTTTATATTTCTTAATTA
15119223 TTTTA
1 TTTTA
15119228 AATAATTCTA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 10 0.48
18 11 0.52
ACGTcount: A:0.29, C:0.02, G:0.00, T:0.68
Consensus pattern (18 bp):
TTTTATATTTCTTAATTA
Found at i:15120090 original size:13 final size:13
Alignment explanation
Indices: 15120074--15120099 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
15120064 ATACATAACA
15120074 GGTTCACATGTAT
1 GGTTCACATGTAT
15120087 GGTTCACATGTAT
1 GGTTCACATGTAT
15120100 AGGGTTTGCA
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:0.23, C:0.15, G:0.23, T:0.38
Consensus pattern (13 bp):
GGTTCACATGTAT
Found at i:15120202 original size:15 final size:15
Alignment explanation
Indices: 15120182--15120267 Score: 72
Period size: 15 Copynumber: 5.8 Consensus size: 15
15120172 TTTTGGATTT
15120182 GGGTTCACACATATA
1 GGGTTCACACATATA
*
15120197 GGGTTCATAC--ATA
1 GGGTTCACACATATA
* *
15120210 GGGATTCATACATACA
1 GGG-TTCACACATATA
15120226 GGGTTCACACATATA
1 GGGTTCACACATATA
*
15120241 GAGTTTGCACAC-T-TA
1 G-GGTT-CACACATATA
*
15120256 GGGTTCGCACAT
1 GGGTTCACACAT
15120268 CAATAGTTCA
Statistics
Matches: 58, Mismatches: 7, Indels: 13
0.74 0.09 0.17
Matches are distributed among these distances:
13 10 0.17
14 11 0.19
15 23 0.40
16 9 0.16
17 5 0.09
ACGTcount: A:0.30, C:0.20, G:0.22, T:0.28
Consensus pattern (15 bp):
GGGTTCACACATATA
Found at i:15120219 original size:14 final size:13
Alignment explanation
Indices: 15120194--15120238 Score: 54
Period size: 14 Copynumber: 3.2 Consensus size: 13
15120184 GTTCACACAT
15120194 ATAGGGTTCATAC
1 ATAGGGTTCATAC
15120207 ATAGGGATTCATAC
1 ATAGGG-TTCATAC
*
15120221 ATACAGGGTTCACAC
1 AT--AGGGTTCATAC
15120236 ATA
1 ATA
15120239 TAGAGTTTGC
Statistics
Matches: 28, Mismatches: 1, Indels: 6
0.80 0.03 0.17
Matches are distributed among these distances:
13 7 0.25
14 9 0.32
15 8 0.29
16 4 0.14
ACGTcount: A:0.36, C:0.18, G:0.20, T:0.27
Consensus pattern (13 bp):
ATAGGGTTCATAC
Found at i:15126010 original size:16 final size:16
Alignment explanation
Indices: 15125982--15126014 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
15125972 AAGTAATTAA
15125982 AAATAGTACTATATAT
1 AAATAGTACTATATAT
15125998 AAATA-TACATATATAT
1 AAATAGTAC-TATATAT
15126014 A
1 A
15126015 TACATATATA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 3 0.19
16 13 0.81
ACGTcount: A:0.55, C:0.06, G:0.03, T:0.36
Consensus pattern (16 bp):
AAATAGTACTATATAT
Found at i:15126015 original size:12 final size:12
Alignment explanation
Indices: 15125994--15126024 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
15125984 ATAGTACTAT
*
15125994 ATATAAATATAC
1 ATATATATATAC
15126006 ATATATATATAC
1 ATATATATATAC
15126018 ATATATA
1 ATATATA
15126025 ATAATAATAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.55, C:0.06, G:0.00, T:0.39
Consensus pattern (12 bp):
ATATATATATAC
Found at i:15126080 original size:110 final size:109
Alignment explanation
Indices: 15125936--15126137 Score: 334
Period size: 110 Copynumber: 1.8 Consensus size: 109
15125926 AATACAAAAA
* * *
15125936 AAAAAGCAAATATAATATAATAATAATGTTAAAATAAAGTAATTAAA-AATAGTACTATATATAA
1 AAAAAGCAAATATAATATAATAAAAATATTAAAATAAAGTAATTAAATAATAATACTATATATAA
*
15126000 ATATACATATATATATACATATATAATAATAATAATAATGAAATAC
66 ATAT--ATATACATATACATATATAATAATAATAATAATGAAATAC
*
15126046 AAAAAGCAAATATAATATAATAAAAATATTAAAATAAAGTAATTAAATAATAATACTATGTATAA
1 AAAAAGCAAATATAATATAATAAAAATATTAAAATAAAGTAATTAAATAATAATACTATATATAA
15126111 ATATATATACATATACATATATAATAA
66 ATATATATACATATACATATATAATAA
15126138 AAAATATAAA
Statistics
Matches: 86, Mismatches: 5, Indels: 3
0.91 0.05 0.03
Matches are distributed among these distances:
109 22 0.26
110 45 0.52
111 19 0.22
ACGTcount: A:0.60, C:0.04, G:0.04, T:0.32
Consensus pattern (109 bp):
AAAAAGCAAATATAATATAATAAAAATATTAAAATAAAGTAATTAAATAATAATACTATATATAA
ATATATATACATATACATATATAATAATAATAATAATGAAATAC
Found at i:15126230 original size:22 final size:22
Alignment explanation
Indices: 15126188--15126237 Score: 59
Period size: 22 Copynumber: 2.3 Consensus size: 22
15126178 ATTGAAATAC
*
15126188 AAAAAACTAATATAATATAA-T
1 AAAAAACTAAAATAATATAATT
15126209 AAAAATACTAAAATAA-AGTAATT
1 AAAAA-ACTAAAATAATA-TAATT
15126232 AAAAAA
1 AAAAAA
15126238 TAATACTTAT
Statistics
Matches: 25, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
21 6 0.24
22 13 0.52
23 6 0.24
ACGTcount: A:0.70, C:0.04, G:0.02, T:0.24
Consensus pattern (22 bp):
AAAAAACTAAAATAATATAATT
Found at i:15126307 original size:3 final size:3
Alignment explanation
Indices: 15126293--15126322 Score: 51
Period size: 3 Copynumber: 9.7 Consensus size: 3
15126283 AAATGTACAC
15126293 TAA TATA TAA TAA TAA TAA TAA TAA TAA TA
1 TAA TA-A TAA TAA TAA TAA TAA TAA TAA TA
15126323 GTGATTAGAT
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
3 23 0.88
4 3 0.12
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (3 bp):
TAA
Found at i:15126440 original size:31 final size:31
Alignment explanation
Indices: 15126405--15126464 Score: 79
Period size: 31 Copynumber: 1.9 Consensus size: 31
15126395 ACTTATGTAT
*
15126405 AAATATATA-TAC-ATATACATATATAATAAAA
1 AAATATACACTACTATATA-ATA-ATAATAAAA
15126436 AAATATACACTACTATATAATAATAATAA
1 AAATATACACTACTATATAATAATAATAA
15126465 TAATAGTGAT
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
31 15 0.58
32 6 0.23
33 5 0.19
ACGTcount: A:0.60, C:0.08, G:0.00, T:0.32
Consensus pattern (31 bp):
AAATATACACTACTATATAATAATAATAAAA
Found at i:15126505 original size:153 final size:148
Alignment explanation
Indices: 15125998--15126485 Score: 680
Period size: 153 Copynumber: 3.3 Consensus size: 148
15125988 TACTATATAT
* * *
15125998 AAATATACA-TATATAT-ATACAT-AT-ATAATAAT-AATA-A-TAATGAAATACAAAAAGCAAA
1 AAATATACACTATATATAATA-ATAATAATAATAATGATTAGATTAAT-AAATACAAAAAACTAA
* *
15126056 TATAATATAATAAAAATATTAAAATAAAGTAATTAAATAATAATAC-TATGTATAAATATATATA
64 TATAATATAATAAAAATACTAAAATAAAGTAATTAAAAAATAATACTTATGTATAAATATATATA
15126120 CATATACATATATAAT-AAA
129 CATATACATATATAATAAAA
* * *
15126139 AAATATAAATTA-ATAT-ATAATAATAATAATAATGATTAGATT--GAAATACAAAAAACTAATA
1 AAATATACACTATATATAATAATAATAATAATAATGATTAGATTAATAAATACAAAAAACTAATA
15126200 TAATATAATAAAAATACTAAAATAAAGTAATTAAAAAATAATACTTATGTATAAATATATATACA
66 TAATATAATAAAAATACTAAAATAAAGTAATTAAAAAATAATACTTATGTATAAATATATATACA
15126265 TATACATATATAATAAAA
131 TATACATATATAATAAAA
* * *
15126283 AAATGTACACTAATATATAATAATAATAATAATAAT-AATAGTGATTAGATTGAAATACAAAAAG
1 AAATATACACT-ATATATAATAATAATAATAATAATGATTA--GATTA-A-T-AAATACAAAAAA
*
15126347 CTAATATAATATAACAAAAATACTAAAATAAAGTAATTAAAAAATAATACTTATGTATAAATATA
60 CTAATATAATATAATAAAAATACTAAAATAAAGTAATTAAAAAATAATACTTATGTATAAATATA
15126412 TATACATATACATATATAATAAAA
125 TATACATATACATATATAATAAAA
*
15126436 AAATATACACTACTATATAATAATAATAATAATAGTGATTAGATTAATAA
1 AAATATACACTA-TATATAATAATAATAATAATAATGATTAGATTAATAA
15126486 TATTAGAAAT
Statistics
Matches: 310, Mismatches: 17, Indels: 32
0.86 0.05 0.09
Matches are distributed among these distances:
140 2 0.01
141 17 0.05
142 68 0.22
143 37 0.12
144 12 0.04
145 2 0.01
146 7 0.02
147 17 0.05
148 4 0.01
149 2 0.01
150 1 0.00
151 1 0.00
152 6 0.02
153 131 0.42
154 3 0.01
ACGTcount: A:0.59, C:0.05, G:0.04, T:0.32
Consensus pattern (148 bp):
AAATATACACTATATATAATAATAATAATAATAATGATTAGATTAATAAATACAAAAAACTAATA
TAATATAATAAAAATACTAAAATAAAGTAATTAAAAAATAATACTTATGTATAAATATATATACA
TATACATATATAATAAAA
Found at i:15127078 original size:10 final size:10
Alignment explanation
Indices: 15127063--15127092 Score: 51
Period size: 10 Copynumber: 3.0 Consensus size: 10
15127053 CCCCGAAAGG
15127063 TATATTTTTT
1 TATATTTTTT
15127073 TATATTTTTT
1 TATATTTTTT
*
15127083 TGTATTTTTT
1 TATATTTTTT
15127093 ATGTGTTTAT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.17, C:0.00, G:0.03, T:0.80
Consensus pattern (10 bp):
TATATTTTTT
Found at i:15127171 original size:22 final size:23
Alignment explanation
Indices: 15127136--15127178 Score: 79
Period size: 22 Copynumber: 1.9 Consensus size: 23
15127126 ACAAATTCAA
15127136 AAATAGAAAAGAAAATAATAAAT
1 AAATAGAAAAGAAAATAATAAAT
15127159 AAATAG-AAAGAAAATAATAA
1 AAATAGAAAAGAAAATAATAA
15127179 TAATAAGATA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
22 14 0.70
23 6 0.30
ACGTcount: A:0.74, C:0.00, G:0.09, T:0.16
Consensus pattern (23 bp):
AAATAGAAAAGAAAATAATAAAT
Found at i:15127757 original size:16 final size:15
Alignment explanation
Indices: 15127727--15127912 Score: 117
Period size: 16 Copynumber: 12.1 Consensus size: 15
15127717 GGGTCTTACA
**
15127727 ATGGGGTTCGTATAT
1 ATGGGGTTCACATAT
15127742 ATGGGTGTTCACATAT
1 ATGGG-GTTCACATAT
**
15127758 ATGGGGGTTCACATGC
1 AT-GGGGTTCACATAT
* *
15127774 ATGGGGTTTGA-ATGT
1 ATGGGG-TTCACATAT
15127789 AT-GGGTTCACATAT
1 ATGGGGTTCACATAT
* *
15127803 ATGAGGGTTTACATGT
1 ATG-GGGTTCACATAT
*** *
15127819 ATGGGGTTTGTATGT
1 ATGGGGTTCACATAT
* *
15127834 AT-GGGTTTACATAC
1 ATGGGGTTCACATAT
*
15127848 ATGGGGGTTCGCATAT
1 AT-GGGGTTCACATAT
*
15127864 ATAGGGGTTCACATAC
1 AT-GGGGTTCACATAT
* *
15127880 ATGGGGATTCATATAC
1 ATGGGG-TTCACATAT
15127896 ATGGGGGTTCACATAT
1 AT-GGGGTTCACATAT
15127912 A
1 A
15127913 CAAATTACAT
Statistics
Matches: 136, Mismatches: 25, Indels: 19
0.76 0.14 0.11
Matches are distributed among these distances:
13 3 0.02
14 18 0.13
15 30 0.22
16 78 0.57
17 7 0.05
ACGTcount: A:0.24, C:0.11, G:0.31, T:0.34
Consensus pattern (15 bp):
ATGGGGTTCACATAT
Found at i:15127799 original size:29 final size:30
Alignment explanation
Indices: 15127762--15127823 Score: 83
Period size: 30 Copynumber: 2.1 Consensus size: 30
15127752 ACATATATGG
*
15127762 GGGTTCACATGCATG-GGGTTTGA-ATGTAT
1 GGGTTCACATACATGAGGGTTT-ACATGTAT
*
15127791 GGGTTCACATATATGAGGGTTTACATGTAT
1 GGGTTCACATACATGAGGGTTTACATGTAT
15127821 GGG
1 GGG
15127824 GTTTGTATGT
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
29 14 0.48
30 15 0.52
ACGTcount: A:0.23, C:0.10, G:0.34, T:0.34
Consensus pattern (30 bp):
GGGTTCACATACATGAGGGTTTACATGTAT
Found at i:15127811 original size:45 final size:45
Alignment explanation
Indices: 15127748--15127857 Score: 166
Period size: 45 Copynumber: 2.4 Consensus size: 45
15127738 ATATATGGGT
15127748 GTTCACATATATGGGGGTTCACATGCATGGGGTTTGAATGTATGG
1 GTTCACATATATGGGGGTTCACATGCATGGGGTTTGAATGTATGG
* * * *
15127793 GTTCACATATATGAGGGTTTACATGTATGGGGTTTGTATGTATGG
1 GTTCACATATATGGGGGTTCACATGCATGGGGTTTGAATGTATGG
* *
15127838 GTTTACATACATGGGGGTTC
1 GTTCACATATATGGGGGTTC
15127858 GCATATATAG
Statistics
Matches: 57, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
45 57 1.00
ACGTcount: A:0.22, C:0.10, G:0.32, T:0.36
Consensus pattern (45 bp):
GTTCACATATATGGGGGTTCACATGCATGGGGTTTGAATGTATGG
Found at i:15129537 original size:38 final size:38
Alignment explanation
Indices: 15129485--15129612 Score: 186
Period size: 38 Copynumber: 3.4 Consensus size: 38
15129475 CCTACTAAAA
* *
15129485 ACATGATAAGCATGTCTACTATTAATGATGAATTGAGT
1 ACATGTTAAACATGTCTACTATTAATGATGAATTGAGT
* *
15129523 ACATGTTTAACATGTTTACTATTAATGAT-AATTTGAGT
1 ACATGTTAAACATGTCTACTATTAATGATGAA-TTGAGT
* *
15129561 ACATGTTAAACATGTCTACTATTAATGATGATTTGAAT
1 ACATGTTAAACATGTCTACTATTAATGATGAATTGAGT
15129599 ACATGTTAAACATG
1 ACATGTTAAACATG
15129613 CCTGCTGCTA
Statistics
Matches: 80, Mismatches: 8, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
37 2 0.03
38 77 0.96
39 1 0.01
ACGTcount: A:0.37, C:0.10, G:0.15, T:0.38
Consensus pattern (38 bp):
ACATGTTAAACATGTCTACTATTAATGATGAATTGAGT
Found at i:15131063 original size:28 final size:27
Alignment explanation
Indices: 15131005--15131099 Score: 84
Period size: 28 Copynumber: 3.4 Consensus size: 27
15130995 TTAAATATAG
** * *
15131005 AAAATATAAAAGTTAGAAAATTATTAGA
1 AAAATATAAAACATAGAAAAATATT-TA
15131033 AAAATATAAAACATAGAAAAAATATTTA
1 AAAATATAAAACATAG-AAAAATATTTA
* * *
15131061 AAATTTTAAAATATAGAAAAAT-TTTAA
1 AAAATATAAAACATAGAAAAATATTT-A
15131088 AAAATTATAAAA
1 AAAA-TATAAAA
15131100 ATTAACTATC
Statistics
Matches: 55, Mismatches: 9, Indels: 6
0.79 0.13 0.09
Matches are distributed among these distances:
26 3 0.05
27 10 0.18
28 34 0.62
29 8 0.15
ACGTcount: A:0.64, C:0.01, G:0.05, T:0.29
Consensus pattern (27 bp):
AAAATATAAAACATAGAAAAATATTTA
Found at i:15131071 original size:18 final size:18
Alignment explanation
Indices: 15131050--15131099 Score: 50
Period size: 18 Copynumber: 2.8 Consensus size: 18
15131040 AAAACATAGA
15131050 AAAAATATTTAAAATTTT
1 AAAAATATTTAAAATTTT
**
15131068 -AAAATATAGAAAAATTTT
1 AAAAATAT-TTAAAATTTT
15131086 AAAAA-ATTATAAAA
1 AAAAATATT-TAAAA
15131100 ATTAACTATC
Statistics
Matches: 25, Mismatches: 4, Indels: 6
0.71 0.11 0.17
Matches are distributed among these distances:
17 7 0.28
18 14 0.56
19 4 0.16
ACGTcount: A:0.64, C:0.00, G:0.02, T:0.34
Consensus pattern (18 bp):
AAAAATATTTAAAATTTT
Found at i:15131099 original size:19 final size:18
Alignment explanation
Indices: 15131060--15131102 Score: 59
Period size: 18 Copynumber: 2.3 Consensus size: 18
15131050 AAAAATATTT
*
15131060 AAAATTTTAAAATATAGA
1 AAAATTTTAAAAAATAGA
*
15131078 AAAATTTTAAAAAATTATA
1 AAAATTTTAAAAAA-TAGA
15131097 AAAATT
1 AAAATT
15131103 AACTATCAAC
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
18 13 0.59
19 9 0.41
ACGTcount: A:0.63, C:0.00, G:0.02, T:0.35
Consensus pattern (18 bp):
AAAATTTTAAAAAATAGA
Found at i:15131103 original size:9 final size:9
Alignment explanation
Indices: 15131077--15131264 Score: 73
Period size: 9 Copynumber: 20.2 Consensus size: 9
15131067 TAAAATATAG
*
15131077 AAAAATTTT
1 AAAAATTAT
15131086 AAAAAATTAT
1 -AAAAATTAT
15131096 AAAAATTAACT
1 AAAAATT-A-T
** *
15131107 ATCAACTAT
1 AAAAATTAT
*
15131116 AAAAA-TAC
1 AAAAATTAT
15131124 ATAAAATTATT
1 A-AAAATTA-T
15131135 AAAAATCTAT
1 AAAAAT-TAT
15131145 AAAAA-TAT
1 AAAAATTAT
15131153 AAAAATTAT
1 AAAAATTAT
* * *
15131162 AAATATAAC
1 AAAAATTAT
*
15131171 AAATATATAT
1 AAAAAT-TAT
** * *
15131181 TGAATTTTT
1 AAAAATTAT
*
15131190 TAAAATTAT
1 AAAAATTAT
15131199 AAAAATTATT
1 AAAAATTA-T
* *
15131209 ATAAATTTT
1 AAAAATTAT
15131218 AAAAA--AT
1 AAAAATTAT
15131225 AGAAAATT-T
1 A-AAAATTAT
15131234 -AAAATATAT
1 AAAAAT-TAT
*
15131243 ATAAGATATAT
1 A-AAAAT-TAT
15131254 AAAAATTAT
1 AAAAATTAT
15131263 AA
1 AA
15131265 TTTAATCATT
Statistics
Matches: 134, Mismatches: 28, Indels: 33
0.69 0.14 0.17
Matches are distributed among these distances:
7 7 0.05
8 16 0.12
9 57 0.43
10 37 0.28
11 17 0.13
ACGTcount: A:0.60, C:0.03, G:0.02, T:0.35
Consensus pattern (9 bp):
AAAAATTAT
Found at i:15131119 original size:29 final size:29
Alignment explanation
Indices: 15131087--15131160 Score: 80
Period size: 29 Copynumber: 2.6 Consensus size: 29
15131077 AAAAATTTTA
**
15131087 AAAAATTATAAAAATTAACTATCAA-CTAT
1 AAAAA-TATAAAAATTAACTAAAAATCTAT
* *
15131116 AAAAATACATAAAATT-ATTAAAAATCTAT
1 AAAAATATA-AAAATTAACTAAAAATCTAT
15131145 AAAAATATAAAAATTA
1 AAAAATATAAAAATTA
15131161 TAAATATAAC
Statistics
Matches: 37, Mismatches: 5, Indels: 6
0.77 0.10 0.12
Matches are distributed among these distances:
28 14 0.38
29 23 0.62
ACGTcount: A:0.64, C:0.07, G:0.00, T:0.30
Consensus pattern (29 bp):
AAAAATATAAAAATTAACTAAAAATCTAT
Found at i:15131137 original size:19 final size:18
Alignment explanation
Indices: 15131113--15131164 Score: 63
Period size: 19 Copynumber: 2.9 Consensus size: 18
15131103 AACTATCAAC
*
15131113 TATAAAAATAC-ATAAAAT
1 TATAAAAAT-CTATAAAAA
15131131 TATTAAAAATCTATAAAAA
1 TA-TAAAAATCTATAAAAA
15131150 TATAAAAAT-TATAAA
1 TATAAAAATCTATAAA
15131165 TATAACAAAT
Statistics
Matches: 31, Mismatches: 1, Indels: 5
0.84 0.03 0.14
Matches are distributed among these distances:
17 6 0.19
18 10 0.32
19 15 0.48
ACGTcount: A:0.65, C:0.04, G:0.00, T:0.31
Consensus pattern (18 bp):
TATAAAAATCTATAAAAA
Found at i:15131155 original size:8 final size:8
Alignment explanation
Indices: 15131113--15131177 Score: 51
Period size: 8 Copynumber: 7.5 Consensus size: 8
15131103 AACTATCAAC
15131113 TATAAAAA
1 TATAAAAA
*
15131121 TACATAAAAT
1 T--ATAAAAA
15131131 TATTAAAAA
1 TA-TAAAAA
15131140 TCTATAAAAA
1 --TATAAAAA
15131150 TATAAAAA
1 TATAAAAA
*
15131158 T-TATAAA
1 TATAAAAA
15131165 TATAACAAA
1 TATAA-AAA
15131174 TATA
1 TATA
15131178 TATTGAATTT
Statistics
Matches: 46, Mismatches: 4, Indels: 13
0.73 0.06 0.21
Matches are distributed among these distances:
7 6 0.13
8 13 0.28
9 12 0.26
10 13 0.28
11 2 0.04
ACGTcount: A:0.65, C:0.05, G:0.00, T:0.31
Consensus pattern (8 bp):
TATAAAAA
Found at i:15131167 original size:15 final size:17
Alignment explanation
Indices: 15131142--15131179 Score: 53
Period size: 15 Copynumber: 2.4 Consensus size: 17
15131132 ATTAAAAATC
*
15131142 TATAAAAATATAA-AAA
1 TATATAAATATAACAAA
15131158 T-TATAAATATAACAAA
1 TATATAAATATAACAAA
15131174 TATATA
1 TATATA
15131180 TTGAATTTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
15 10 0.53
16 5 0.26
17 4 0.21
ACGTcount: A:0.66, C:0.03, G:0.00, T:0.32
Consensus pattern (17 bp):
TATATAAATATAACAAA
Found at i:15131715 original size:30 final size:30
Alignment explanation
Indices: 15131679--15131741 Score: 108
Period size: 30 Copynumber: 2.1 Consensus size: 30
15131669 ACTTAACAAG
*
15131679 CAAATGCCTCTATAATAATAATAAAATTAA
1 CAAATGCCTCTAAAATAATAATAAAATTAA
*
15131709 CAAATGCCTTTAAAATAATAATAAAATTAA
1 CAAATGCCTCTAAAATAATAATAAAATTAA
15131739 CAA
1 CAA
15131742 TAAAATAAAT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.56, C:0.13, G:0.03, T:0.29
Consensus pattern (30 bp):
CAAATGCCTCTAAAATAATAATAAAATTAA
Found at i:15131748 original size:17 final size:17
Alignment explanation
Indices: 15131718--15131750 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
15131708 ACAAATGCCT
15131718 TTAAAATAATAATAAAA
1 TTAAAATAATAATAAAA
15131735 TTAACAATAA-AATAAA
1 TTAA-AATAATAATAAA
15131751 TTTTATACAA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
17 10 0.67
18 5 0.33
ACGTcount: A:0.70, C:0.03, G:0.00, T:0.27
Consensus pattern (17 bp):
TTAAAATAATAATAAAA
Found at i:15132251 original size:9 final size:9
Alignment explanation
Indices: 15132234--15132272 Score: 51
Period size: 9 Copynumber: 4.2 Consensus size: 9
15132224 GATGATTAAA
15132234 TTATAATTT
1 TTATAATTT
*
15132243 TTATGATTT
1 TTATAATTT
*
15132252 TTATTATTT
1 TTATAATTT
15132261 TTATAATATT
1 TTATAAT-TT
15132271 TT
1 TT
15132273 TTAAAAAATG
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
9 22 0.85
10 4 0.15
ACGTcount: A:0.28, C:0.00, G:0.03, T:0.69
Consensus pattern (9 bp):
TTATAATTT
Found at i:15132359 original size:10 final size:10
Alignment explanation
Indices: 15132295--15132352 Score: 57
Period size: 10 Copynumber: 5.9 Consensus size: 10
15132285 TTTTTTTATA
15132295 AATTTTTAAT
1 AATTTTTAAT
15132305 AATTTTCT-AT
1 AATTTT-TAAT
**
15132315 AATTTTCCAT
1 AATTTTTAAT
*
15132325 -ATTTATAAT
1 AATTTTTAAT
*
15132334 AAATTTTAAT
1 AATTTTTAAT
15132344 AATTTTTAA
1 AATTTTTAA
15132353 AAGTTTTCTA
Statistics
Matches: 38, Mismatches: 7, Indels: 6
0.75 0.14 0.12
Matches are distributed among these distances:
9 6 0.16
10 31 0.82
11 1 0.03
ACGTcount: A:0.40, C:0.05, G:0.00, T:0.55
Consensus pattern (10 bp):
AATTTTTAAT
Found at i:15132360 original size:39 final size:38
Alignment explanation
Indices: 15132292--15132402 Score: 111
Period size: 39 Copynumber: 2.8 Consensus size: 38
15132282 GTTTTTTTTT
*
15132292 ATAAATTTTTAATAATTTTCTATAATTTTCCATAT-TTA-TA
1 ATAAA-TTTTAATAATTTT-TAAAATTTT-C-TATGTTATTA
*
15132332 ATAAATTTTAATAATTTTTAAAAGTTTTCTATGTTATTT
1 ATAAATTTTAATAATTTTTAAAA-TTTTCTATGTTATTA
*
15132371 ATAAAATTTCAATAA-TTTTAAAATTTTGCTAT
1 AT-AAATTTTAATAATTTTTAAAATTTT-CTAT
15132403 TTTTTATAAG
Statistics
Matches: 63, Mismatches: 3, Indels: 11
0.82 0.04 0.14
Matches are distributed among these distances:
37 3 0.05
38 12 0.19
39 32 0.51
40 16 0.25
ACGTcount: A:0.39, C:0.05, G:0.03, T:0.53
Consensus pattern (38 bp):
ATAAATTTTAATAATTTTTAAAATTTTCTATGTTATTA
Found at i:15132407 original size:18 final size:18
Alignment explanation
Indices: 15132345--15132428 Score: 71
Period size: 18 Copynumber: 4.5 Consensus size: 18
15132335 AATTTTAATA
15132345 ATTTTTAAAAGTTTTCTAT
1 ATTTTTAAAAG-TTTCTAT
* * *
15132364 GTTATTTATAAAATTTCAAT
1 ATT-TTTA-AAAGTTTCTAT
* *
15132384 AATTTTAAAATTTTGCTAT
1 ATTTTTAAAAGTTT-CTAT
*
15132403 -TTTTTATAAGTTTCTAT
1 ATTTTTAAAAGTTTCTAT
15132420 ATTTTTAAA
1 ATTTTTAAA
15132429 TATCTTTTTA
Statistics
Matches: 50, Mismatches: 11, Indels: 9
0.71 0.16 0.13
Matches are distributed among these distances:
17 4 0.08
18 23 0.46
19 9 0.18
20 11 0.22
21 3 0.06
ACGTcount: A:0.35, C:0.05, G:0.05, T:0.56
Consensus pattern (18 bp):
ATTTTTAAAAGTTTCTAT
Found at i:15133051 original size:27 final size:26
Alignment explanation
Indices: 15132981--15133051 Score: 74
Period size: 27 Copynumber: 2.7 Consensus size: 26
15132971 AATATTAAAT
*
15132981 ATTAAAAAATATGAAAATTGATATAA
1 ATTAAAAAATATAAAAATTGATATAA
*
15133007 ACTTATAAAAATA-AAAAATT-CTAATAA
1 A-TTA-AAAAATATAAAAATTGAT-ATAA
15133034 ATTAAAAAATATATAAAA
1 ATTAAAAAATATA-AAAA
15133052 GTAATAAAAA
Statistics
Matches: 38, Mismatches: 2, Indels: 9
0.78 0.04 0.18
Matches are distributed among these distances:
25 7 0.18
26 6 0.16
27 18 0.47
28 7 0.18
ACGTcount: A:0.65, C:0.03, G:0.03, T:0.30
Consensus pattern (26 bp):
ATTAAAAAATATAAAAATTGATATAA
Found at i:15133060 original size:19 final size:19
Alignment explanation
Indices: 15132965--15133130 Score: 81
Period size: 19 Copynumber: 8.8 Consensus size: 19
15132955 TTATTTAAAA
*
15132965 ATAAAAA-ATATTAAATAT
1 ATAAAAATATATAAAATAT
15132983 -TAAAAA-ATATGAAAAT-T
1 ATAAAAATATAT-AAAATAT
*
15133000 GATATAAACT-TATAAAA-AT
1 -ATA-AAAATATATAAAATAT
*
15133019 A-AAAAAT-TCTAATAA-AT
1 ATAAAAATATATAA-AATAT
15133036 -TAAAAAATATATAAAAGTA-
1 AT-AAAAATATATAAAA-TAT
*
15133055 ATAAAAATATTTAAAATTTTAT
1 ATAAAAATATATAAAA---TAT
15133077 ATAAAAATAT-TAAAATCAT
1 ATAAAAATATATAAAAT-AT
15133096 ATAAAAATCATA-AAAATA-
1 ATAAAAAT-ATATAAAATAT
*
15133114 ATTAAAAAAATATAAAA
1 A-TAAAAATATATAAAA
15133131 ACTTGAACTG
Statistics
Matches: 119, Mismatches: 8, Indels: 41
0.71 0.05 0.24
Matches are distributed among these distances:
16 8 0.07
17 16 0.13
18 18 0.15
19 45 0.38
20 15 0.13
21 7 0.06
22 10 0.08
ACGTcount: A:0.65, C:0.02, G:0.02, T:0.31
Consensus pattern (19 bp):
ATAAAAATATATAAAATAT
Found at i:15133098 original size:21 final size:22
Alignment explanation
Indices: 15133055--15133102 Score: 64
Period size: 21 Copynumber: 2.3 Consensus size: 22
15133045 TATAAAAGTA
**
15133055 ATAAAAATATTTAAAATTTTAT
1 ATAAAAATATTTAAAATCATAT
15133077 ATAAAAATA-TTAAAATCATAT
1 ATAAAAATATTTAAAATCATAT
15133098 A-AAAA
1 ATAAAA
15133103 TCATAAAAAT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
20 4 0.17
21 11 0.46
22 9 0.38
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.35
Consensus pattern (22 bp):
ATAAAAATATTTAAAATCATAT
Found at i:15133101 original size:31 final size:31
Alignment explanation
Indices: 15133043--15133130 Score: 78
Period size: 31 Copynumber: 2.9 Consensus size: 31
15133033 AATTAAAAAA
* *
15133043 TATATAAAAGTAATAAAAATATTTAAAATTT
1 TATATAAAAATAATAAAAATATATAAAATTT
*
15133074 TATATAAAAAT-ATTAAAATCATATAAAA---
1 TATATAAAAATAATAAAAAT-ATATAAAATTT
*
15133102 -ATCATAAAAATAATTAAAAAAATATAAAA
1 TAT-ATAAAAATAA-TAAAAATATATAAAA
15133131 ACTTGAACTG
Statistics
Matches: 48, Mismatches: 5, Indels: 10
0.76 0.08 0.16
Matches are distributed among these distances:
27 2 0.04
28 8 0.17
29 9 0.19
30 12 0.25
31 17 0.35
ACGTcount: A:0.65, C:0.02, G:0.01, T:0.32
Consensus pattern (31 bp):
TATATAAAAATAATAAAAATATATAAAATTT
Found at i:15133494 original size:9 final size:9
Alignment explanation
Indices: 15133462--15133533 Score: 53
Period size: 9 Copynumber: 8.1 Consensus size: 9
15133452 TTATATTTCA
*
15133462 TAATATTTT
1 TAATAATTT
15133471 ATAAT-ATTT
1 -TAATAATTT
*
15133480 TTATAATTT
1 TAATAATTT
*
15133489 TAATAAGTT
1 TAATAATTT
15133498 TACATCAATTT
1 TA-AT-AATTT
15133509 TAAT-A-TT
1 TAATAATTT
15133516 TAAT-ATTT
1 TAATAATTT
*
15133524 TTATAATTT
1 TAATAATTT
15133533 T
1 T
15133534 TTCAGATTCT
Statistics
Matches: 51, Mismatches: 6, Indels: 11
0.75 0.09 0.16
Matches are distributed among these distances:
7 7 0.14
8 9 0.18
9 21 0.41
10 8 0.16
11 6 0.12
ACGTcount: A:0.38, C:0.03, G:0.01, T:0.58
Consensus pattern (9 bp):
TAATAATTT
Found at i:15133499 original size:28 final size:27
Alignment explanation
Indices: 15133423--15133499 Score: 77
Period size: 28 Copynumber: 2.8 Consensus size: 27
15133413 TTTAAATAAG
* *
15133423 TTTTATTAA-TTTCATAATTTATTATAT
1 TTTTA-TAATTTTAATAATTTATAATAT
*
15133450 TTTTAT-ATTTCATAATATTTTATAATAT
1 TTTTATAATTT--TAATAATTTATAATAT
15133478 TTTTATAATTTTAATAAGTTTA
1 TTTTATAATTTTAATAA-TTTA
15133500 CATCAATTTT
Statistics
Matches: 41, Mismatches: 4, Indels: 9
0.76 0.07 0.17
Matches are distributed among these distances:
25 1 0.02
26 3 0.07
27 10 0.24
28 23 0.56
29 4 0.10
ACGTcount: A:0.35, C:0.03, G:0.01, T:0.61
Consensus pattern (27 bp):
TTTTATAATTTTAATAATTTATAATAT
Found at i:15133534 original size:9 final size:9
Alignment explanation
Indices: 15133418--15133577 Score: 57
Period size: 10 Copynumber: 17.2 Consensus size: 9
15133408 TTTATTTTAA
*
15133418 ATAAGTTTT
1 ATAATTTTT
*
15133427 ATTAA-TTTC
1 A-TAATTTTT
15133436 ATAATTTATT
1 ATAATTT-TT
15133446 AT-ATTTTT
1 ATAATTTTT
*
15133454 AT-A-TTTC
1 ATAATTTTT
15133461 ATAATATTTT
1 ATAAT-TTTT
15133471 ATAATATTTTT
1 AT-A-ATTTTT
*
15133482 ATAATTTTA
1 ATAATTTTT
**
15133491 ATAAGTTTAC
1 ATAA-TTTTT
*
15133501 ATCAATTTTA
1 AT-AATTTTT
*
15133511 AT-A-TTTA
1 ATAATTTTT
15133518 AT-ATTTTT
1 ATAATTTTT
15133526 ATAATTTTT
1 ATAATTTTT
*
15133535 -TCAGATTCTAT
1 AT-A-ATT-TTT
15133546 ATAATTTTT
1 ATAATTTTT
*
15133555 AAAATATTTTT
1 -ATA-ATTTTT
15133566 AATAATTTTT
1 -ATAATTTTT
15133576 AT
1 AT
15133578 GAAAAAATTT
Statistics
Matches: 119, Mismatches: 14, Indels: 36
0.70 0.08 0.21
Matches are distributed among these distances:
7 12 0.10
8 16 0.13
9 31 0.26
10 36 0.30
11 21 0.18
12 3 0.03
ACGTcount: A:0.36, C:0.04, G:0.02, T:0.58
Consensus pattern (9 bp):
ATAATTTTT
Found at i:15133687 original size:17 final size:18
Alignment explanation
Indices: 15133665--15133702 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
15133655 AATCAATGCC
*
15133665 ATTAAT-GGAGGGACTTA
1 ATTAATAGGAGGAACTTA
*
15133682 ATTAATAGTAGGAACTTA
1 ATTAATAGGAGGAACTTA
15133700 ATT
1 ATT
15133703 GGATAAAAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
17 6 0.33
18 12 0.67
ACGTcount: A:0.39, C:0.05, G:0.21, T:0.34
Consensus pattern (18 bp):
ATTAATAGGAGGAACTTA
Found at i:15135967 original size:17 final size:18
Alignment explanation
Indices: 15135942--15135979 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 18
15135932 GATATTGTAC
15135942 AAAACTTATT-TTATTGT
1 AAAACTTATTATTATTGT
* *
15135959 AAAATTTATTATTATTTT
1 AAAACTTATTATTATTGT
15135977 AAA
1 AAA
15135980 GGCATTTGTT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
17 9 0.50
18 9 0.50
ACGTcount: A:0.42, C:0.03, G:0.03, T:0.53
Consensus pattern (18 bp):
AAAACTTATTATTATTGT
Found at i:15136003 original size:29 final size:29
Alignment explanation
Indices: 15135961--15136016 Score: 94
Period size: 29 Copynumber: 1.9 Consensus size: 29
15135951 TTTATTGTAA
15135961 AATTTATTATTATTTTAAAGGCATTTGTT
1 AATTTATTATTATTTTAAAGGCATTTGTT
* *
15135990 AATTTTTTATTATTTTAGAGGCATTTG
1 AATTTATTATTATTTTAAAGGCATTTG
15136017 CTTGTTAAGT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 25 1.00
ACGTcount: A:0.29, C:0.04, G:0.12, T:0.55
Consensus pattern (29 bp):
AATTTATTATTATTTTAAAGGCATTTGTT
Found at i:15136040 original size:13 final size:13
Alignment explanation
Indices: 15136022--15136048 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
15136012 ATTTGCTTGT
15136022 TAAGTTGCATTTA
1 TAAGTTGCATTTA
15136035 TAAGTTGCATTTA
1 TAAGTTGCATTTA
15136048 T
1 T
15136049 CTTAGTGTTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.30, C:0.07, G:0.15, T:0.48
Consensus pattern (13 bp):
TAAGTTGCATTTA
Found at i:15136821 original size:9 final size:9
Alignment explanation
Indices: 15136731--15136824 Score: 52
Period size: 9 Copynumber: 10.3 Consensus size: 9
15136721 TATATTATCA
15136731 TTTAATTTT
1 TTTAATTTT
*
15136740 TTT-ATATT
1 TTTAATTTT
* *
15136748 TCTAATTGT
1 TTTAATTTT
*
15136757 TTCAATTTT
1 TTTAATTTT
15136766 TCTTAA-TTT
1 T-TTAATTTT
15136775 TTT-ATATTT
1 TTTAAT-TTT
*
15136784 TATAGATTTT
1 TTTA-ATTTT
*
15136794 ATATAATTTT
1 -TTTAATTTT
*
15136804 TATT-CTTTT
1 T-TTAATTTT
15136813 TTTAATTTT
1 TTTAATTTT
15136822 TTT
1 TTT
15136825 GTTATAACAT
Statistics
Matches: 64, Mismatches: 12, Indels: 18
0.68 0.13 0.19
Matches are distributed among these distances:
7 1 0.02
8 10 0.16
9 35 0.55
10 12 0.19
11 6 0.09
ACGTcount: A:0.23, C:0.04, G:0.02, T:0.70
Consensus pattern (9 bp):
TTTAATTTT
Found at i:15143075 original size:32 final size:30
Alignment explanation
Indices: 15143025--15143088 Score: 83
Period size: 32 Copynumber: 2.1 Consensus size: 30
15143015 CTTATCAAGT
15143025 AAATACCTCTAAAATAATAATAAAAATTTAAC
1 AAATACCTCTAAAATAATAA-AAAAA-TTAAC
* * *
15143057 AAATGCCTTTAAAATAATAACAAAATTAAC
1 AAATACCTCTAAAATAATAAAAAAATTAAC
15143087 AA
1 AA
15143089 GAAAATAAGT
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
30 7 0.24
31 4 0.14
32 18 0.62
ACGTcount: A:0.59, C:0.12, G:0.02, T:0.27
Consensus pattern (30 bp):
AAATACCTCTAAAATAATAAAAAAATTAAC
Found at i:15143192 original size:13 final size:13
Alignment explanation
Indices: 15143176--15143200 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
15143166 GAGAAAACAA
15143176 CAACAAAAAAATT
1 CAACAAAAAAATT
15143189 CAACAAAAAAAT
1 CAACAAAAAAAT
15143201 GCAGATTTTT
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:0.72, C:0.16, G:0.00, T:0.12
Consensus pattern (13 bp):
CAACAAAAAAATT
Found at i:15143836 original size:32 final size:32
Alignment explanation
Indices: 15143800--15143869 Score: 140
Period size: 32 Copynumber: 2.2 Consensus size: 32
15143790 CCAATTAGAA
15143800 TTTCTTACTCTATTCACTATATATCTTCATCT
1 TTTCTTACTCTATTCACTATATATCTTCATCT
15143832 TTTCTTACTCTATTCACTATATATCTTCATCT
1 TTTCTTACTCTATTCACTATATATCTTCATCT
15143864 TTTCTT
1 TTTCTT
15143870 TCTCCCCATT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 38 1.00
ACGTcount: A:0.20, C:0.24, G:0.00, T:0.56
Consensus pattern (32 bp):
TTTCTTACTCTATTCACTATATATCTTCATCT
Found at i:15145821 original size:41 final size:41
Alignment explanation
Indices: 15145768--15145916 Score: 199
Period size: 41 Copynumber: 3.6 Consensus size: 41
15145758 ATAGTGATTC
15145768 AGGCTTTGTGCCTAGCAGGCTTTGTGTCAGTGTATTCATTT
1 AGGCTTTGTGCCTAGCAGGCTTTGTGTCAGTGTATTCATTT
* * *
15145809 AGGCTTTATGCCTAGCAGGCTTTGTGTCAGTCTATTGATTT
1 AGGCTTTGTGCCTAGCAGGCTTTGTGTCAGTGTATTCATTT
* * * *
15145850 AGGTTTTGTGCCTAGCAGGCTTTGTGCCAGTGTATTAATTC
1 AGGCTTTGTGCCTAGCAGGCTTTGTGTCAGTGTATTCATTT
* * * *
15145891 AAGCTTTGTACCTAGTAGACTTTGTG
1 AGGCTTTGTGCCTAGCAGGCTTTGTG
15145917 CTGGTCTAAT
Statistics
Matches: 94, Mismatches: 14, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
41 94 1.00
ACGTcount: A:0.17, C:0.17, G:0.26, T:0.40
Consensus pattern (41 bp):
AGGCTTTGTGCCTAGCAGGCTTTGTGTCAGTGTATTCATTT
Found at i:15145924 original size:82 final size:82
Alignment explanation
Indices: 15145762--15145916 Score: 220
Period size: 82 Copynumber: 1.9 Consensus size: 82
15145752 TTGGAGATAG
* * * * *
15145762 TGATTCAGGCTTTGTGCCTAGCAGGCTTTGTGTCAGTGTATTCATTTAGGCTTTATGCCTAGCAG
1 TGATTCAGGCTTTGTGCCTAGCAGGCTTTGTGCCAGTGTATTAATTCAAGCTTTATACCTAGCAG
*
15145827 GCTTTGTGTCAGTCTAT
66 ACTTTGTGTCAGTCTAT
* * * *
15145844 TGATTTAGGTTTTGTGCCTAGCAGGCTTTGTGCCAGTGTATTAATTCAAGCTTTGTACCTAGTAG
1 TGATTCAGGCTTTGTGCCTAGCAGGCTTTGTGCCAGTGTATTAATTCAAGCTTTATACCTAGCAG
15145909 ACTTTGTG
66 ACTTTGTG
15145917 CTGGTCTAAT
Statistics
Matches: 63, Mismatches: 10, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
82 63 1.00
ACGTcount: A:0.17, C:0.17, G:0.25, T:0.41
Consensus pattern (82 bp):
TGATTCAGGCTTTGTGCCTAGCAGGCTTTGTGCCAGTGTATTAATTCAAGCTTTATACCTAGCAG
ACTTTGTGTCAGTCTAT
Found at i:15148132 original size:21 final size:21
Alignment explanation
Indices: 15148108--15148148 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
15148098 TTGAAACATA
15148108 TGATTT-GTATAATTTTGGTTT
1 TGATTTGGTATAA-TTTGGTTT
*
15148129 TGATTTGGTATGATTTGGTT
1 TGATTTGGTATAATTTGGTT
15148149 GATGAATTGA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 13 0.72
22 5 0.28
ACGTcount: A:0.17, C:0.00, G:0.24, T:0.59
Consensus pattern (21 bp):
TGATTTGGTATAATTTGGTTT
Found at i:15149795 original size:22 final size:22
Alignment explanation
Indices: 15149770--15149811 Score: 75
Period size: 22 Copynumber: 1.9 Consensus size: 22
15149760 ATAATTGTTC
*
15149770 TTATAGAAAAATATAAAAGGTA
1 TTATACAAAAATATAAAAGGTA
15149792 TTATACAAAAATATAAAAGG
1 TTATACAAAAATATAAAAGG
15149812 ATAAACACAT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.60, C:0.02, G:0.12, T:0.26
Consensus pattern (22 bp):
TTATACAAAAATATAAAAGGTA
Found at i:15157041 original size:37 final size:37
Alignment explanation
Indices: 15156981--15157051 Score: 124
Period size: 37 Copynumber: 1.9 Consensus size: 37
15156971 GGTACATTAT
*
15156981 GATGTGTAAGGCTGGGTGAGTGTTTTAAACCCCACAG
1 GATGTGTAAGGCTAGGTGAGTGTTTTAAACCCCACAG
*
15157018 GATGTGTAAGGCTAGGTGGGTGTTTTAAACCCCA
1 GATGTGTAAGGCTAGGTGAGTGTTTTAAACCCCA
15157052 ATGGTGTGTA
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
37 32 1.00
ACGTcount: A:0.24, C:0.15, G:0.32, T:0.28
Consensus pattern (37 bp):
GATGTGTAAGGCTAGGTGAGTGTTTTAAACCCCACAG
Found at i:15157171 original size:35 final size:35
Alignment explanation
Indices: 15157132--15157239 Score: 137
Period size: 35 Copynumber: 3.1 Consensus size: 35
15157122 TGTATATCTA
* *
15157132 TATCTATATCTGAGATGGGCTTAGCCCCAAATATG
1 TATCTGTATCTGAGATGGGCTTAGGCCCAAATATG
* *
15157167 TATCTGTATCTGCA-ATGGGCTTAGGCTCGAATATG
1 TATCTGTATCTG-AGATGGGCTTAGGCCCAAATATG
* * *
15157202 CATCTGTATCTGTGATGGGCTTAGGCCCAAATTTG
1 TATCTGTATCTGAGATGGGCTTAGGCCCAAATATG
15157237 TAT
1 TAT
15157240 TTGATTCATT
Statistics
Matches: 61, Mismatches: 10, Indels: 4
0.81 0.13 0.05
Matches are distributed among these distances:
35 60 0.98
36 1 0.02
ACGTcount: A:0.24, C:0.19, G:0.23, T:0.34
Consensus pattern (35 bp):
TATCTGTATCTGAGATGGGCTTAGGCCCAAATATG
Found at i:15161063 original size:29 final size:29
Alignment explanation
Indices: 15161030--15161087 Score: 82
Period size: 29 Copynumber: 2.0 Consensus size: 29
15161020 TGCACAAAAC
*
15161030 TTTTATAAAATTTTAAATTGA-TTCTTAAA
1 TTTTAAAAAATTTT-AATTGAGTTCTTAAA
*
15161059 TTTTAAAAAATTTTAATTGAGTTTTTAAA
1 TTTTAAAAAATTTTAATTGAGTTCTTAAA
15161088 ATATTATTAT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
28 6 0.23
29 20 0.77
ACGTcount: A:0.41, C:0.02, G:0.05, T:0.52
Consensus pattern (29 bp):
TTTTAAAAAATTTTAATTGAGTTCTTAAA
Found at i:15161908 original size:148 final size:149
Alignment explanation
Indices: 15161616--15161909 Score: 486
Period size: 150 Copynumber: 2.0 Consensus size: 149
15161606 AATAGTATTC
*
15161616 ATAATAGTTTTCTTTCACTCACATTATATTTGGAAACTATAAATTTAACTAATAATTATATTTGA
1 ATAATAGTTTTATTTCACTCACATTATATTTGGAAACTATAAATTTAACTAATAATTATATTTGA
* *
15161681 TACATAATAAGATTTTTCTAAAGCTTTTATAATTATAATTTTATATTGTGTTTGTAAATCAAATT
66 TACATAATAAGATTTTTCTAAAGCTTTTATAATGATAATTTTATATTGTGTTCGTAAATCAAATT
*
15161746 GATAATCAAATTATAAAAT
131 GATAATAAAATTATAAAAT
**
15161765 ATAATAGTTTTTATTTTGCTCACATTATATTTGGAAACTATAAATTTAACTAATAATTATAATTT
1 ATAATAG-TTTTATTTCACTCACATTATATTTGGAAACTATAAATTTAACTAATAATTAT-ATTT
*
15161830 -ATACATAA-AAGATTTTTCTAAAGC-TTTATAATGATAATTTTATATTGTGTTCGTAAATCAAT
64 GATACATAATAAGATTTTTCTAAAGCTTTTATAATGATAATTTTATATTGTGTTCGTAAATCAAA
15161892 TTGATAATAAAATTATAA
129 TTGATAATAAAATTATAA
15161910 TTATTTTTTG
Statistics
Matches: 136, Mismatches: 7, Indels: 5
0.92 0.05 0.03
Matches are distributed among these distances:
148 52 0.38
149 23 0.17
150 57 0.42
151 4 0.03
ACGTcount: A:0.40, C:0.07, G:0.07, T:0.45
Consensus pattern (149 bp):
ATAATAGTTTTATTTCACTCACATTATATTTGGAAACTATAAATTTAACTAATAATTATATTTGA
TACATAATAAGATTTTTCTAAAGCTTTTATAATGATAATTTTATATTGTGTTCGTAAATCAAATT
GATAATAAAATTATAAAAT
Done.