Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr13
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 55873576
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.32
Warning! 1239791 characters in sequence are not A, C, G, or T
File 74 of 182
Found at i:22328478 original size:81 final size:78
Alignment explanation
Indices: 22328339--22328528 Score: 237
Period size: 81 Copynumber: 2.4 Consensus size: 78
22328329 ATAAAAATTA
* * *
22328339 CCTT-TTTTTCTTTTTTTTTTCCTTCCTTCCTTCCCTCTTCTTCTTTTTTTTTTCTTTTCTCTTC
1 CCTTCTTTTTCTTTCTTTTTTCC-T-C-TCCTTTCCTCTTCTTCTTTTTTTTTTCTTTTCGCTTC
*
22328403 TCCTTTCCTTTTCTTT
63 TCCTGTCCTTTTCTTT
*
22328419 TCTTCTTTTTCTTTCTTTTTTCCTCTCCTTTCCTCTTCTTCTTCTTTCTTTCTGT-TTTTCGCTT
1 CCTTCTTTTTCTTTCTTTTTTCCTCTCCTTTCCTCTTCTTCTT-TTT-TTT-T-TCTTTTCGCTT
22328483 CTCCTGTCCTTTTCTTT
62 CTCCTGTCCTTTTCTTT
22328500 CCTTCTTTTTCTTTC---TTTCCTCTCCTTTC
1 CCTTCTTTTTCTTTCTTTTTTCCTCTCCTTTC
22328529 TTTCTTTCTT
Statistics
Matches: 99, Mismatches: 6, Indels: 12
0.85 0.05 0.10
Matches are distributed among these distances:
78 31 0.31
79 4 0.04
80 7 0.07
81 56 0.57
82 1 0.01
ACGTcount: A:0.00, C:0.32, G:0.02, T:0.67
Consensus pattern (78 bp):
CCTTCTTTTTCTTTCTTTTTTCCTCTCCTTTCCTCTTCTTCTTTTTTTTTTCTTTTCGCTTCTCC
TGTCCTTTTCTTT
Found at i:22328514 original size:18 final size:18
Alignment explanation
Indices: 22328493--22328536 Score: 63
Period size: 18 Copynumber: 2.4 Consensus size: 18
22328483 CTCCTGTCCT
*
22328493 TTTCTTTCCT-TCTTTTTC
1 TTTCTTTCCTCTC-CTTTC
22328511 TTTCTTTCCTCTCCTTTC
1 TTTCTTTCCTCTCCTTTC
22328529 TTTCTTTC
1 TTTCTTTC
22328537 TTTCCCCTCC
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
18 22 0.92
19 2 0.08
ACGTcount: A:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (18 bp):
TTTCTTTCCTCTCCTTTC
Found at i:22328541 original size:22 final size:21
Alignment explanation
Indices: 22328493--22328548 Score: 73
Period size: 22 Copynumber: 2.8 Consensus size: 21
22328483 CTCCTGTCCT
22328493 TTTCTTTCCT-T-C-TTTTTC
1 TTTCTTTCCTCTCCTTTTTTC
22328511 TTTCTTTCCTCTCCTTTCTTTC
1 TTTCTTTCCTCTCCTTT-TTTC
*
22328533 TTTCTTTCCCCTCCTT
1 TTTCTTTCCTCTCCTT
22328549 CTCCCCCAAC
Statistics
Matches: 33, Mismatches: 1, Indels: 4
0.87 0.03 0.11
Matches are distributed among these distances:
18 10 0.30
19 1 0.03
20 1 0.03
21 2 0.06
22 19 0.58
ACGTcount: A:0.00, C:0.36, G:0.00, T:0.64
Consensus pattern (21 bp):
TTTCTTTCCTCTCCTTTTTTC
Found at i:22328721 original size:25 final size:27
Alignment explanation
Indices: 22328687--22328745 Score: 104
Period size: 27 Copynumber: 2.3 Consensus size: 27
22328677 TTTGTTTTTT
22328687 TTTTGGTAAAT-AAAAAA-TTATAATA
1 TTTTGGTAAATAAAAAAAGTTATAATA
22328712 TTTTGGTAAATAAAAAAAGTTATAATA
1 TTTTGGTAAATAAAAAAAGTTATAATA
22328739 TTTTGGT
1 TTTTGGT
22328746 TGTTTTTTAT
Statistics
Matches: 32, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
25 11 0.34
26 6 0.19
27 15 0.47
ACGTcount: A:0.46, C:0.00, G:0.12, T:0.42
Consensus pattern (27 bp):
TTTTGGTAAATAAAAAAAGTTATAATA
Found at i:22333753 original size:71 final size:71
Alignment explanation
Indices: 22333670--22333840 Score: 324
Period size: 71 Copynumber: 2.4 Consensus size: 71
22333660 AAAATCATTT
*
22333670 ATAAACAACTATTGATAAAACTAATTTAGTATAAATAAGTAGAACATAAATTCAATATCCAAAAA
1 ATAAATAACTATTGATAAAACTAATTTAGTATAAATAAGTAGAACATAAATTCAATATCCAAAAA
22333735 CCAAAC
66 CCAAAC
22333741 ATAAATAACTATTGATAAAACTAATTTAGTATAAATAAGTAGAACATAAATTCAATATCCAAAAA
1 ATAAATAACTATTGATAAAACTAATTTAGTATAAATAAGTAGAACATAAATTCAATATCCAAAAA
22333806 CCAAAC
66 CCAAAC
*
22333812 ATAAATAACTATTGATAAAACTAGTTTAG
1 ATAAATAACTATTGATAAAACTAATTTAG
22333841 CATTATTGTT
Statistics
Matches: 98, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
71 98 1.00
ACGTcount: A:0.54, C:0.12, G:0.06, T:0.27
Consensus pattern (71 bp):
ATAAATAACTATTGATAAAACTAATTTAGTATAAATAAGTAGAACATAAATTCAATATCCAAAAA
CCAAAC
Found at i:22334286 original size:18 final size:18
Alignment explanation
Indices: 22334265--22334312 Score: 87
Period size: 18 Copynumber: 2.7 Consensus size: 18
22334255 CCCATCAATT
*
22334265 TGAACATCATTTGAAATG
1 TGAACATCATTTAAAATG
22334283 TGAACATCATTTAAAATG
1 TGAACATCATTTAAAATG
22334301 TGAACATCATTT
1 TGAACATCATTT
22334313 CTCATATTTT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
18 29 1.00
ACGTcount: A:0.40, C:0.12, G:0.12, T:0.35
Consensus pattern (18 bp):
TGAACATCATTTAAAATG
Found at i:22338368 original size:23 final size:23
Alignment explanation
Indices: 22338342--22338440 Score: 171
Period size: 23 Copynumber: 4.3 Consensus size: 23
22338332 ATAAGTGCCA
22338342 CACTGATATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
*
22338365 CACTGATATGTAGCCGTAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
*
22338388 CACTGAAATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
*
22338411 CACTGAAATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
22338434 CACTGAT
1 CACTGAT
22338441 CAATAACACT
Statistics
Matches: 72, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 72 1.00
ACGTcount: A:0.31, C:0.26, G:0.21, T:0.21
Consensus pattern (23 bp):
CACTGATATGTAGCCGAAGCTAC
Found at i:22338543 original size:8 final size:8
Alignment explanation
Indices: 22338530--22338555 Score: 52
Period size: 8 Copynumber: 3.2 Consensus size: 8
22338520 CGGGACTCAG
22338530 TGTAACAC
1 TGTAACAC
22338538 TGTAACAC
1 TGTAACAC
22338546 TGTAACAC
1 TGTAACAC
22338554 TG
1 TG
22338556 GTCTCTAGTG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 18 1.00
ACGTcount: A:0.35, C:0.23, G:0.15, T:0.27
Consensus pattern (8 bp):
TGTAACAC
Found at i:22338700 original size:18 final size:17
Alignment explanation
Indices: 22338674--22338712 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 17
22338664 ATTTTCCTTC
22338674 CACATTC-AATATTAATT
1 CACATTCAAATA-TAATT
22338691 CACATATCAAATATAATT
1 CACAT-TCAAATATAATT
22338709 CACA
1 CACA
22338713 ATTTATAAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
17 5 0.25
18 11 0.55
19 4 0.20
ACGTcount: A:0.46, C:0.21, G:0.00, T:0.33
Consensus pattern (17 bp):
CACATTCAAATATAATT
Found at i:22341483 original size:21 final size:21
Alignment explanation
Indices: 22341458--22341498 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
22341448 TGTAAATTTA
* *
22341458 ATTCAATTTAATGAAATTCAT
1 ATTCAATTCAATCAAATTCAT
22341479 ATTCAATTCAATCAAATTCA
1 ATTCAATTCAATCAAATTCA
22341499 AATTTTAGGC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.44, C:0.15, G:0.02, T:0.39
Consensus pattern (21 bp):
ATTCAATTCAATCAAATTCAT
Found at i:22346520 original size:39 final size:39
Alignment explanation
Indices: 22346466--22346592 Score: 142
Period size: 39 Copynumber: 3.4 Consensus size: 39
22346456 AGGCTGAGTC
22346466 TTTTCTAGCCAAAATAATTCATCCAGAACTTTGATAGTG
1 TTTTCTAGCCAAAATAATTCATCCAGAACTTTGATAGTG
*
22346505 TTTTCTAGCCAAAATAATTCATCCAGAACATTCG-TCAG-G
1 TTTTCTAGCCAAAATAATTCATCCAGAAC-TTTGAT-AGTG
* * * *
22346544 ---TGT-G-CAAGACAATTCATCCAGAACTCTGATAGTG
1 TTTTCTAGCCAAAATAATTCATCCAGAACTTTGATAGTG
22346578 TTTTCTAGCCAAAAT
1 TTTTCTAGCCAAAAT
22346593 TCAGCCCTTT
Statistics
Matches: 70, Mismatches: 9, Indels: 18
0.72 0.09 0.19
Matches are distributed among these distances:
33 4 0.06
34 20 0.29
35 1 0.01
36 2 0.03
37 2 0.03
38 1 0.01
39 35 0.50
40 5 0.07
ACGTcount: A:0.33, C:0.20, G:0.14, T:0.32
Consensus pattern (39 bp):
TTTTCTAGCCAAAATAATTCATCCAGAACTTTGATAGTG
Found at i:22352610 original size:30 final size:30
Alignment explanation
Indices: 22352576--22352638 Score: 117
Period size: 30 Copynumber: 2.1 Consensus size: 30
22352566 ACTTATTTTA
22352576 TTGTTAATTTTGTTATTATTTTAAAGGCAT
1 TTGTTAATTTTGTTATTATTTTAAAGGCAT
*
22352606 TTGTTAATTTTGTTATTATTTTAGAGGCAT
1 TTGTTAATTTTGTTATTATTTTAAAGGCAT
22352636 TTG
1 TTG
22352639 CTTGTTAAGT
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 32 1.00
ACGTcount: A:0.24, C:0.03, G:0.16, T:0.57
Consensus pattern (30 bp):
TTGTTAATTTTGTTATTATTTTAAAGGCAT
Found at i:22352765 original size:13 final size:12
Alignment explanation
Indices: 22352746--22352777 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
22352736 TATATATTTT
22352746 AAAAAT-ATAT-
1 AAAAATAATATA
22352756 AAAAATAATATA
1 AAAAATAATATA
22352768 AAAAATAATA
1 AAAAATAATA
22352778 CGGGCGGGCC
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
10 6 0.30
11 4 0.20
12 10 0.50
ACGTcount: A:0.75, C:0.00, G:0.00, T:0.25
Consensus pattern (12 bp):
AAAAATAATATA
Found at i:22353955 original size:17 final size:18
Alignment explanation
Indices: 22353935--22353972 Score: 53
Period size: 17 Copynumber: 2.2 Consensus size: 18
22353925 GGGAACATTC
22353935 AAAAAACAT-AAAA-GAAA
1 AAAAAAC-TCAAAATGAAA
22353952 AAAAAACTCAAAATGAAA
1 AAAAAACTCAAAATGAAA
22353970 AAA
1 AAA
22353973 TATAGGGACC
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
16 1 0.05
17 11 0.58
18 7 0.37
ACGTcount: A:0.79, C:0.08, G:0.05, T:0.08
Consensus pattern (18 bp):
AAAAAACTCAAAATGAAA
Found at i:22354877 original size:5 final size:6
Alignment explanation
Indices: 22354861--22354886 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
22354851 TAAATTATTT
22354861 TAAAAA TAAAAA TAAAAA TAAAAA TA
1 TAAAAA TAAAAA TAAAAA TAAAAA TA
22354887 TATATTTATT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (6 bp):
TAAAAA
Found at i:22359300 original size:12 final size:13
Alignment explanation
Indices: 22359271--22359300 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
22359261 AGTTCTCGAC
22359271 TTTTTTATATTAA
1 TTTTTTATATTAA
*
22359284 TTTTTTGTATTAA
1 TTTTTTATATTAA
22359297 TTTT
1 TTTT
22359301 CTGGTCACCC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.23, C:0.00, G:0.03, T:0.73
Consensus pattern (13 bp):
TTTTTTATATTAA
Found at i:22364467 original size:11 final size:11
Alignment explanation
Indices: 22364445--22364502 Score: 50
Period size: 11 Copynumber: 5.4 Consensus size: 11
22364435 AAACTATCTC
22364445 TTTTTTAGTATA
1 TTTTTTA-TATA
22364457 TTTTTTATATA
1 TTTTTTATATA
22364468 TTTTTTCAT-T-
1 TTTTTT-ATATA
* *
22364478 TTGTTTCTATA
1 TTTTTTATATA
*
22364489 -TTTTTATTTA
1 TTTTTTATATA
22364499 TTTT
1 TTTT
22364503 ATCATTATTA
Statistics
Matches: 37, Mismatches: 5, Indels: 9
0.73 0.10 0.18
Matches are distributed among these distances:
9 1 0.03
10 13 0.35
11 14 0.38
12 9 0.24
ACGTcount: A:0.19, C:0.03, G:0.03, T:0.74
Consensus pattern (11 bp):
TTTTTTATATA
Found at i:22364702 original size:17 final size:19
Alignment explanation
Indices: 22364682--22364722 Score: 52
Period size: 17 Copynumber: 2.3 Consensus size: 19
22364672 TCTTGTCTTT
22364682 TTTTTTA-TCTTATT-TT-
1 TTTTTTACTCTTATTATTC
*
22364698 GTTTTTACTCTTATTATTC
1 TTTTTTACTCTTATTATTC
22364717 TTTTTT
1 TTTTTT
22364723 TATTTTAATT
Statistics
Matches: 20, Mismatches: 2, Indels: 3
0.80 0.08 0.12
Matches are distributed among these distances:
16 6 0.30
17 7 0.35
18 2 0.10
19 5 0.25
ACGTcount: A:0.12, C:0.10, G:0.02, T:0.76
Consensus pattern (19 bp):
TTTTTTACTCTTATTATTC
Found at i:22365236 original size:16 final size:16
Alignment explanation
Indices: 22365214--22365282 Score: 120
Period size: 16 Copynumber: 4.2 Consensus size: 16
22365204 TTTGGTTCGC
22365214 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
*
22365230 CGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
22365246 TGTATTGGGATTAGAGG
1 TGTATT-GGATTAGAGG
22365263 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
22365279 TGTA
1 TGTA
22365283 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:22365260 original size:33 final size:32
Alignment explanation
Indices: 22365214--22365282 Score: 120
Period size: 33 Copynumber: 2.1 Consensus size: 32
22365204 TTTGGTTCGC
22365214 TGTATTGGATTAGAGGCGTATTGGATTAGAGG
1 TGTATTGGATTAGAGGCGTATTGGATTAGAGG
*
22365246 TGTATTGGGATTAGAGGTGTATTGGATTAGAGG
1 TGTATT-GGATTAGAGGCGTATTGGATTAGAGG
22365279 TGTA
1 TGTA
22365283 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:22365347 original size:44 final size:45
Alignment explanation
Indices: 22365263--22365353 Score: 121
Period size: 45 Copynumber: 2.0 Consensus size: 45
22365253 GGATTAGAGG
* * *
22365263 TGTATTGGATTAGAGGTGTAATAGCTAATCCACTGTTTGGTTGAA
1 TGTAATGGAATAGAGGCGTAATAGCTAATCCACTGTTTGGTTGAA
***
22365308 TGTAATGGAATAGAGGCGTAATAG-TAATCTTGTGTTTGGTTGAA
1 TGTAATGGAATAGAGGCGTAATAGCTAATCCACTGTTTGGTTGAA
22365352 TG
1 TG
22365354 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:22365539 original size:18 final size:17
Alignment explanation
Indices: 22365518--22365552 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
22365508 TTATTATTAA
*
22365518 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
22365536 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
22365553 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:22365659 original size:18 final size:17
Alignment explanation
Indices: 22365638--22365672 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
22365628 TTATTATTAA
*
22365638 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
22365656 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
22365673 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:22365920 original size:120 final size:120
Alignment explanation
Indices: 22365501--22365899 Score: 764
Period size: 120 Copynumber: 3.3 Consensus size: 120
22365491 ATCATATTTA
22365501 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
1 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
22365566 TATTCTTATATTAATTTACTGAAATCATAATATATGATACTGTAAAATATAAATT
66 TATTCTTATATTAATTTACTGAAATCATAATATATGATACTGTAAAATATAAATT
22365621 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
1 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
22365686 TATTCTTATATTAATTTACTGAAATCATAATATATGATACTGTAAAATATAAATT
66 TATTCTTATATTAATTTACTGAAATCATAATATATGATACTGTAAAATATAAATT
* *
22365741 AACATAATTATTATTAAATATATTTTAATTAAACTATATAATTTAAAAAAATTCTTAATAATTAA
1 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
22365806 TATTCTTATATTAATTTACTGAAATCATAATATATGATACTGTAAAATATAAATT
66 TATTCTTATATTAATTTACTGAAATCATAATATATGATACTGTAAAATATAAATT
*
22365861 AACATAATTATTATTAAATATAATTTAA-TAAAATATATA
1 AACATAATTATTATTAAATATATTTTAATTAAAATATATA
22365900 TTTTCAATTA
Statistics
Matches: 275, Mismatches: 4, Indels: 1
0.98 0.01 0.00
Matches are distributed among these distances:
119 10 0.04
120 265 0.96
ACGTcount: A:0.49, C:0.05, G:0.02, T:0.44
Consensus pattern (120 bp):
AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
TATTCTTATATTAATTTACTGAAATCATAATATATGATACTGTAAAATATAAATT
Found at i:22368083 original size:14 final size:14
Alignment explanation
Indices: 22368064--22368101 Score: 58
Period size: 14 Copynumber: 2.7 Consensus size: 14
22368054 GATTGGCTGT
22368064 AAAATGTTTTCCGG
1 AAAATGTTTTCCGG
* *
22368078 AAAATGATTTCTGG
1 AAAATGTTTTCCGG
22368092 AAAATGTTTT
1 AAAATGTTTT
22368102 ACTTTTCTAT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.34, C:0.08, G:0.18, T:0.39
Consensus pattern (14 bp):
AAAATGTTTTCCGG
Found at i:22368236 original size:20 final size:20
Alignment explanation
Indices: 22368214--22368287 Score: 80
Period size: 20 Copynumber: 3.7 Consensus size: 20
22368204 GGAAAAGTTG
*
22368214 TTTTTACATATATTAAATTG
1 TTTTTACATATATTAAATTA
* *
22368234 TTTTTACATATATATTAATAAA
1 TTTTTACATATAT-TAAAT-TA
*
22368256 TTTTT--ATATTTTAAATTA
1 TTTTTACATATATTAAATTA
22368274 TTTTTACATATATT
1 TTTTTACATATATT
22368288 GCAATGATTT
Statistics
Matches: 43, Mismatches: 7, Indels: 8
0.74 0.12 0.14
Matches are distributed among these distances:
18 6 0.14
19 4 0.09
20 24 0.56
21 4 0.09
22 5 0.12
ACGTcount: A:0.36, C:0.04, G:0.01, T:0.58
Consensus pattern (20 bp):
TTTTTACATATATTAAATTA
Found at i:22368326 original size:18 final size:18
Alignment explanation
Indices: 22368303--22368338 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
22368293 GATTTATTTA
22368303 TAAATAAATAAATCAAAT
1 TAAATAAATAAATCAAAT
* *
22368321 TAAATATATCAATCAAAT
1 TAAATAAATAAATCAAAT
22368339 GGTTTAATTG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.61, C:0.08, G:0.00, T:0.31
Consensus pattern (18 bp):
TAAATAAATAAATCAAAT
Found at i:22370610 original size:21 final size:22
Alignment explanation
Indices: 22370576--22370621 Score: 85
Period size: 21 Copynumber: 2.1 Consensus size: 22
22370566 GAGGATGTGG
22370576 AAGAAGATTTGCTTAGAAGAGA
1 AAGAAGATTTGCTTAGAAGAGA
22370598 AAGAAGA-TTGCTTAGAAGAGA
1 AAGAAGATTTGCTTAGAAGAGA
22370619 AAG
1 AAG
22370622 GAGAAAGGGA
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
21 17 0.71
22 7 0.29
ACGTcount: A:0.48, C:0.04, G:0.28, T:0.20
Consensus pattern (22 bp):
AAGAAGATTTGCTTAGAAGAGA
Found at i:22378761 original size:22 final size:21
Alignment explanation
Indices: 22378723--22378765 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 21
22378713 ATCTTTGAAT
22378723 CAAAATTATGTCAAATTTTGA
1 CAAAATTATGTCAAATTTTGA
22378744 CAAAATTCATGT-ATAATTTTGA
1 CAAAATT-ATGTCA-AATTTTGA
22378766 GATAGTTTTC
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
21 8 0.40
22 12 0.60
ACGTcount: A:0.42, C:0.09, G:0.09, T:0.40
Consensus pattern (21 bp):
CAAAATTATGTCAAATTTTGA
Found at i:22381789 original size:48 final size:48
Alignment explanation
Indices: 22381733--22381851 Score: 195
Period size: 48 Copynumber: 2.5 Consensus size: 48
22381723 GATTATTAAA
* *
22381733 GCTCCTATC-AGACACTTACATAACACGAGTTCAAACCAATCTTGTAAT
1 GCTCCTATCTAG-CACTTATATAACACGAGTTCAAACCAATATTGTAAT
*
22381781 GCTCCTATCTAGCACTTATATAACACGAGTTCAAACCAATATTGTACT
1 GCTCCTATCTAGCACTTATATAACACGAGTTCAAACCAATATTGTAAT
22381829 GCTCCTATCTAGCACTTATATAA
1 GCTCCTATCTAGCACTTATATAA
22381852 TTTTCCATAA
Statistics
Matches: 67, Mismatches: 3, Indels: 2
0.93 0.04 0.03
Matches are distributed among these distances:
48 65 0.97
49 2 0.03
ACGTcount: A:0.34, C:0.26, G:0.10, T:0.30
Consensus pattern (48 bp):
GCTCCTATCTAGCACTTATATAACACGAGTTCAAACCAATATTGTAAT
Found at i:22389050 original size:23 final size:25
Alignment explanation
Indices: 22389010--22389055 Score: 69
Period size: 23 Copynumber: 1.9 Consensus size: 25
22389000 ATAACTATGA
22389010 TTTAAAAATTAAATTATGATCTATT
1 TTTAAAAATTAAATTATGATCTATT
*
22389035 TTTAAAAA-TATA-TATGATCTA
1 TTTAAAAATTAAATTATGATCTA
22389056 ATAGGTAATA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 9 0.45
24 3 0.15
25 8 0.40
ACGTcount: A:0.46, C:0.04, G:0.04, T:0.46
Consensus pattern (25 bp):
TTTAAAAATTAAATTATGATCTATT
Found at i:22406411 original size:16 final size:16
Alignment explanation
Indices: 22406390--22406422 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
22406380 AAAAAAACGG
22406390 TCTATTTCTCTAAATT
1 TCTATTTCTCTAAATT
22406406 TCTATTTCTCTAAATT
1 TCTATTTCTCTAAATT
22406422 T
1 T
22406423 TTTTTAAAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.24, C:0.18, G:0.00, T:0.58
Consensus pattern (16 bp):
TCTATTTCTCTAAATT
Found at i:22413175 original size:18 final size:17
Alignment explanation
Indices: 22413147--22413181 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
22413137 ATTATTAAGA
*
22413147 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
22413164 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
22413182 TTAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:22413189 original size:75 final size:75
Alignment explanation
Indices: 22413108--22413343 Score: 212
Period size: 75 Copynumber: 3.1 Consensus size: 75
22413098 ACAATAACAA
22413108 TAATAATTTACCAAAACAAATTTATGCTAATTATTAAGAATTTTATTAAATTATATATTTTAATT
1 TAATAATTTACCAAAACAAATTTATGCTAATTATTAAGAATTTTATTAAATTATATATTTTAATT
22413173 AAAATATATT
66 AAAATATATT
***** * * ** * * * *
22413183 TAATAATAATTA--TGTTTAAA--TATGATTAAATTATTTATTATTGATATTAATCTTATTAAAA
1 TAATAAT--TTACCAAAACAAATTTATG-CT-AATTATTAAGAATT-TTATTAA-ATTA-TATAT
* **
22413244 TTTAAATAACAATA-ACAA
59 TTTAATTAA-AATATA-TT
22413262 TAATAATTTACCAAAACAAATTTATGCTAATTATTAAGAATTTTATTAAATTATATATTTTAATT
1 TAATAATTTACCAAAACAAATTTATGCTAATTATTAAGAATTTTATTAAATTATATATTTTAATT
22413327 AAAATATATT
66 AAAATATATT
22413337 TAATAAT
1 TAATAAT
22413344 AATTATGTTT
Statistics
Matches: 115, Mismatches: 32, Indels: 28
0.66 0.18 0.16
Matches are distributed among these distances:
73 4 0.03
74 1 0.01
75 32 0.28
76 18 0.16
77 12 0.10
78 18 0.16
79 25 0.22
80 1 0.01
81 4 0.03
ACGTcount: A:0.47, C:0.05, G:0.03, T:0.45
Consensus pattern (75 bp):
TAATAATTTACCAAAACAAATTTATGCTAATTATTAAGAATTTTATTAAATTATATATTTTAATT
AAAATATATT
Found at i:22413225 original size:154 final size:154
Alignment explanation
Indices: 22413046--22413448 Score: 752
Period size: 154 Copynumber: 2.6 Consensus size: 154
22413036 TCTTTTGTAC
22413046 AAATATGATTAAATTATTTATTATTGATATTAATCTTATTAAAATTTAAATAACAATAACAATAA
1 AAATATGATTAAATTATTTATTATTGATATTAATCTTATTAAAATTTAAATAACAATAACAATAA
22413111 TAATTTACCAAAACAAATTTATGCTAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAA
66 TAATTTACCAAAACAAATTTATGCTAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAA
22413176 ATATATTTAATAATAATTATGTTT
131 ATATATTTAATAATAATTATGTTT
22413200 AAATATGATTAAATTATTTATTATTGATATTAATCTTATTAAAATTTAAATAACAATAACAATAA
1 AAATATGATTAAATTATTTATTATTGATATTAATCTTATTAAAATTTAAATAACAATAACAATAA
22413265 TAATTTACCAAAACAAATTTATGCTAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAA
66 TAATTTACCAAAACAAATTTATGCTAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAA
22413330 ATATATTTAATAATAATTATGTTT
131 ATATATTTAATAATAATTATGTTT
22413354 AAATATGATTAAATTATTTATTATTGATAATAATAATCTTATTAAAATTTAAATAACAATAACAA
1 AAATATGATTAAATTATTTATTATTGAT-AT--TAATCTTATTAAAATTTAAATAACAATAACAA
* * *
22413419 TAATCATTTACTAAAACAAATTTCTGCTAA
63 TAATAATTTACCAAAACAAATTTATGCTAA
22413449 GGGTATTCTA
Statistics
Matches: 243, Mismatches: 3, Indels: 3
0.98 0.01 0.01
Matches are distributed among these distances:
154 182 0.75
155 2 0.01
157 59 0.24
ACGTcount: A:0.48, C:0.05, G:0.03, T:0.43
Consensus pattern (154 bp):
AAATATGATTAAATTATTTATTATTGATATTAATCTTATTAAAATTTAAATAACAATAACAATAA
TAATTTACCAAAACAAATTTATGCTAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAA
ATATATTTAATAATAATTATGTTT
Found at i:22413329 original size:18 final size:17
Alignment explanation
Indices: 22413301--22413335 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
22413291 ATTATTAAGA
*
22413301 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
22413318 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
22413336 TTAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:22413369 original size:75 final size:75
Alignment explanation
Indices: 22413136--22413371 Score: 221
Period size: 75 Copynumber: 3.1 Consensus size: 75
22413126 AATTTATGCT
22413136 AATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTTA
1 AATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTTA
22413201 AATATGATTA
66 AATATGATTA
* ** * * * * * * *
22413211 AATTATTTATTATTGATATTAATCTTATTAAAATTTAAATAACAATA-A--CAATAATAATT-TA
1 AATTATTAAGAATT-TTATTAA-ATTA-TATATTTTAATTAA-AATATATTTAATAATAATTATG
*** * *
22413272 CCAAAACA-AATTTA
62 TTTAAATATGA-TTA
22413286 TGCTAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATG
1 ----AATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATG
22413351 TTTAAATATGATTA
62 TTTAAATATGATTA
22413365 AATTATT
1 AATTATT
22413372 TATTATTGAT
Statistics
Matches: 117, Mismatches: 30, Indels: 28
0.67 0.17 0.16
Matches are distributed among these distances:
74 1 0.01
75 30 0.26
76 28 0.24
77 6 0.05
78 28 0.24
79 23 0.20
80 1 0.01
ACGTcount: A:0.47, C:0.03, G:0.03, T:0.47
Consensus pattern (75 bp):
AATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTTA
AATATGATTA
Found at i:22413589 original size:16 final size:16
Alignment explanation
Indices: 22413568--22413606 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
22413558 TTGATTTGCT
*
22413568 ATTACACAGCTTTTCC
1 ATTACACAGCTATTCC
**
22413584 ATTACACCTCTATTCC
1 ATTACACAGCTATTCC
22413600 ATTACAC
1 ATTACAC
22413607 CTCTAATCCA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.28, C:0.33, G:0.03, T:0.36
Consensus pattern (16 bp):
ATTACACAGCTATTCC
Found at i:22413607 original size:16 final size:16
Alignment explanation
Indices: 22413581--22413637 Score: 87
Period size: 16 Copynumber: 3.6 Consensus size: 16
22413571 ACACAGCTTT
* *
22413581 TCCATTACACCTCTAT
1 TCCAATACACCTCTAA
*
22413597 TCCATTACACCTCTAA
1 TCCAATACACCTCTAA
22413613 TCCAATACACCTCTAA
1 TCCAATACACCTCTAA
22413629 TCCAATACA
1 TCCAATACA
22413638 GCGAACCAAA
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 39 1.00
ACGTcount: A:0.33, C:0.37, G:0.00, T:0.30
Consensus pattern (16 bp):
TCCAATACACCTCTAA
Found at i:22417451 original size:8 final size:7
Alignment explanation
Indices: 22417408--22417452 Score: 63
Period size: 7 Copynumber: 6.0 Consensus size: 7
22417398 TTTATAGTTG
22417408 TTTTTAA
1 TTTTTAA
22417415 TTTTTAA
1 TTTTTAA
22417422 TTTTTAA
1 TTTTTAA
22417429 TTTTTGAA
1 TTTTT-AA
22417437 TATTTTATA
1 T-TTTTA-A
22417446 TTTTTAA
1 TTTTTAA
22417453 AATTACTTGT
Statistics
Matches: 35, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
7 20 0.57
8 9 0.26
9 6 0.17
ACGTcount: A:0.29, C:0.00, G:0.02, T:0.69
Consensus pattern (7 bp):
TTTTTAA
Found at i:22423598 original size:27 final size:26
Alignment explanation
Indices: 22423561--22423611 Score: 84
Period size: 27 Copynumber: 1.9 Consensus size: 26
22423551 GAATATAAAG
22423561 GGGGTTACTAAGTTCTGATTTCCCCAA
1 GGGGTTACTAAGTTCTGA-TTCCCCAA
*
22423588 GGGGTTGCTAAGTTCTGATTCCCC
1 GGGGTTACTAAGTTCTGATTCCCC
22423612 GACTCATTGG
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
26 6 0.26
27 17 0.74
ACGTcount: A:0.18, C:0.24, G:0.25, T:0.33
Consensus pattern (26 bp):
GGGGTTACTAAGTTCTGATTCCCCAA
Found at i:22423732 original size:33 final size:33
Alignment explanation
Indices: 22423695--22423929 Score: 124
Period size: 33 Copynumber: 6.7 Consensus size: 33
22423685 CCTCAAGGGA
22423695 TTGCTAAGTGCTGATTCCCCGATTCATTGGTGG
1 TTGCTAAGTGCTGATTCCCCGATTCATTGGTGG
* * * *
22423728 TTGCTAAGTGTTGATCCCACCGTATTTTAAATGTGAAGGGGG
1 TTGCTAAGTGCTGATTCC-CCG-A--TT-CAT-T---GGTGG
*
22423770 TTGCTAAGTGCTGATTCCCC---T-A-AGG-GG
1 TTGCTAAGTGCTGATTCCCCGATTCATTGGTGG
* *
22423797 TTGCTAAGTGCTGATTCTCCGAATCATTGGTGG
1 TTGCTAAGTGCTGATTCCCCGATTCATTGGTGG
* *
22423830 TTGCTAAGTGCTGATTCCACC-ATATCTTTGAATGAGAAAGGGG
1 TTGCTAAGTGCTGATTCC-CCGAT-TC-----AT-TG---GTGG
* *
22423873 TTGCTAAGTGCTGATTCCCCGAATCACTGGTGG
1 TTGCTAAGTGCTGATTCCCCGATTCATTGGTGG
*
22423906 TTGCTAAGTGCTGAATCCACCGAT
1 TTGCTAAGTGCTGATTCC-CCGAT
22423930 AACGGTTAAC
Statistics
Matches: 155, Mismatches: 19, Indels: 55
0.68 0.08 0.24
Matches are distributed among these distances:
27 21 0.14
28 2 0.01
30 1 0.01
31 1 0.01
32 2 0.01
33 57 0.37
34 11 0.07
35 2 0.01
36 1 0.01
37 3 0.02
38 2 0.01
39 3 0.02
40 1 0.01
41 2 0.01
42 24 0.15
43 22 0.14
ACGTcount: A:0.21, C:0.20, G:0.27, T:0.32
Consensus pattern (33 bp):
TTGCTAAGTGCTGATTCCCCGATTCATTGGTGG
Found at i:22423733 original size:103 final size:102
Alignment explanation
Indices: 22423549--22423892 Score: 494
Period size: 103 Copynumber: 3.4 Consensus size: 102
22423539 CCGGAGTACA
* * *
22423549 TTGAATATAAAGGGGGTTACTAAGTTCTGATTTCCCCAAGGGGTTGCTAAGTTCTGATTCCCCGA
1 TTGAATATAAAGGGGGTTGCTAAGTGCTGA-TTCCCCAAGGGGTTGCTAAGTGCTGATTCCCCGA
* *
22423614 CTCATTGGTGGATGCTAAGTGCTGATTCCACCGTATCT
65 ATCATTGGTGGTTGCTAAGTGCTGATTCCACCGTATCT
* *
22423652 TTGAATATAAAGGGGGTTGCTAAGTGTTGATTCCCTCAAGGGATTGCTAAGTGCTGATTCCCCGA
1 TTGAATATAAAGGGGGTTGCTAAGTGCTGATTCCC-CAAGGGGTTGCTAAGTGCTGATTCCCCGA
* * *
22423717 TTCATTGGTGGTTGCTAAGTGTTGATCCCACCGTAT-T
65 ATCATTGGTGGTTGCTAAGTGCTGATTCCACCGTATCT
* * * *
22423754 TTAAATGTGAAGGGGGTTGCTAAGTGCTGATTCCCCTAAGGGGTTGCTAAGTGCTGATTCTCCGA
1 TTGAATATAAAGGGGGTTGCTAAGTGCTGATTCCCC-AAGGGGTTGCTAAGTGCTGATTCCCCGA
*
22423819 ATCATTGGTGGTTGCTAAGTGCTGATTCCACCATATCT
65 ATCATTGGTGGTTGCTAAGTGCTGATTCCACCGTATCT
*
22423857 TTGAATGAGAAA-GGGGTTGCTAAGTGCTGATTCCCC
1 TTGAAT-ATAAAGGGGGTTGCTAAGTGCTGATTCCCC
22423893 GAATCACTGG
Statistics
Matches: 214, Mismatches: 23, Indels: 8
0.87 0.09 0.03
Matches are distributed among these distances:
101 1 0.00
102 95 0.44
103 116 0.54
104 2 0.01
ACGTcount: A:0.22, C:0.19, G:0.26, T:0.33
Consensus pattern (102 bp):
TTGAATATAAAGGGGGTTGCTAAGTGCTGATTCCCCAAGGGGTTGCTAAGTGCTGATTCCCCGAA
TCATTGGTGGTTGCTAAGTGCTGATTCCACCGTATCT
Found at i:22427347 original size:28 final size:28
Alignment explanation
Indices: 22427299--22427352 Score: 65
Period size: 28 Copynumber: 1.9 Consensus size: 28
22427289 GGGATGGGGG
* *
22427299 ATTTTTAAATTAGGATAAAATTGATAAT
1 ATTTTAAAATTAGGATAAAATAGATAAT
*
22427327 ATTTTAAAATTATGACT-AAATAGATA
1 ATTTTAAAATTAGGA-TAAAATAGATA
22427353 TAATATGTAG
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
28 21 0.95
29 1 0.05
ACGTcount: A:0.48, C:0.02, G:0.09, T:0.41
Consensus pattern (28 bp):
ATTTTAAAATTAGGATAAAATAGATAAT
Found at i:22428877 original size:24 final size:24
Alignment explanation
Indices: 22428848--22428897 Score: 91
Period size: 24 Copynumber: 2.1 Consensus size: 24
22428838 CTTGCATTTT
*
22428848 AAAATTTAGAAAGTAGAGAGATTA
1 AAAATTTAAAAAGTAGAGAGATTA
22428872 AAAATTTAAAAAGTAGAGAGATTA
1 AAAATTTAAAAAGTAGAGAGATTA
22428896 AA
1 AA
22428898 TTCCTCAAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.58, C:0.00, G:0.18, T:0.24
Consensus pattern (24 bp):
AAAATTTAAAAAGTAGAGAGATTA
Found at i:22434641 original size:48 final size:48
Alignment explanation
Indices: 22434559--22434652 Score: 138
Period size: 48 Copynumber: 2.0 Consensus size: 48
22434549 TTTCTTGGCT
* *
22434559 TAAAAACGCCTAAGTCAGCCTAACTTCCACCAATAATGGATTCAACCG
1 TAAAAACGCCTAAGTCAGCCTAACTTCCAACAATAAAGGATTCAACCG
22434607 TAAAAACGCCTAAGTCAG-CTCAAC-TCGCAACAATAAAGGATTCAAC
1 TAAAAACGCCTAAGTCAGCCT-AACTTC-CAACAATAAAGGATTCAAC
22434653 AGAATTCCCT
Statistics
Matches: 42, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
47 4 0.10
48 38 0.90
ACGTcount: A:0.40, C:0.28, G:0.13, T:0.19
Consensus pattern (48 bp):
TAAAAACGCCTAAGTCAGCCTAACTTCCAACAATAAAGGATTCAACCG
Found at i:22436420 original size:158 final size:160
Alignment explanation
Indices: 22436129--22436429 Score: 471
Period size: 158 Copynumber: 1.9 Consensus size: 160
22436119 ACTTTTGAGG
* * *
22436129 AAGATTGGTAGAGGCATGCAAAATTTCAAATGAGAGGAAAAGTATTGCATATATATATTTCAAAG
1 AAGATTGGTAGAAGCATGCAAAATTTCAAATGAGAGGAAAAATATTGCATAGATATATTTCAAAG
* * *
22436194 TAGGGAAAAATATTAATTTTGTCATTGTTGGAAAAATATTTGTTAATTTTACGAGATATATTTCA
66 TAGGGAAAAATATTAATTTTGTCATTGTTGAAAAAAGATTTATTAATTTTACGAGATATATTTCA
22436259 TTAAACCATATCTTGACATTGTCTTGTTAA
131 TTAAACCATATCTTGACATTGTCTTGTTAA
* *
22436289 AAGATTGGTAGAAGCATGCAAAATTTCAAATGAGGGGAAAAATATTGCATAGA-AT-TTTCAAAT
1 AAGATTGGTAGAAGCATGCAAAATTTCAAATGAGAGGAAAAATATTGCATAGATATATTTCAAAG
* * * *
22436352 TAGGGGAAAATATTAATTTTGTCATTGTTGAAAAAAGATTTATTAGTTTTATGAGATATATTTGA
66 TAGGGAAAAATATTAATTTTGTCATTGTTGAAAAAAGATTTATTAATTTTACGAGATATATTTCA
*
22436417 TTAAACGATATCT
131 TTAAACCATATCT
22436430 AATATTAATT
Statistics
Matches: 128, Mismatches: 13, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
158 77 0.60
159 2 0.02
160 49 0.38
ACGTcount: A:0.39, C:0.07, G:0.18, T:0.36
Consensus pattern (160 bp):
AAGATTGGTAGAAGCATGCAAAATTTCAAATGAGAGGAAAAATATTGCATAGATATATTTCAAAG
TAGGGAAAAATATTAATTTTGTCATTGTTGAAAAAAGATTTATTAATTTTACGAGATATATTTCA
TTAAACCATATCTTGACATTGTCTTGTTAA
Found at i:22438649 original size:22 final size:21
Alignment explanation
Indices: 22438614--22438654 Score: 55
Period size: 22 Copynumber: 1.9 Consensus size: 21
22438604 ATTTGGAAAT
*
22438614 TTTTATTGAATTTCTTTAGAG
1 TTTTATTGAATTTCCTTAGAG
*
22438635 TTTTATTGGATTTTCCTTAG
1 TTTTATT-GAATTTCCTTAG
22438655 TCTCCGCAAT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 7 0.41
22 10 0.59
ACGTcount: A:0.20, C:0.07, G:0.15, T:0.59
Consensus pattern (21 bp):
TTTTATTGAATTTCCTTAGAG
Found at i:22439937 original size:16 final size:18
Alignment explanation
Indices: 22439898--22439931 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
22439888 TAAATTTATA
22439898 ATATTT-TATATTATGTT
1 ATATTTATATATTATGTT
*
22439915 ATTTTTATATATTATGT
1 ATATTTATATATTATGT
22439932 AATTTAGAAC
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 5 0.33
18 10 0.67
ACGTcount: A:0.29, C:0.00, G:0.06, T:0.65
Consensus pattern (18 bp):
ATATTTATATATTATGTT
Found at i:22440080 original size:21 final size:21
Alignment explanation
Indices: 22440047--22440088 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
22440037 TAAAAAATGT
*
22440047 ATAAAATTATTAAATAATAAA
1 ATAAAATTATTAAAAAATAAA
22440068 ATAAATATT-TTAAAAAATAAA
1 ATAAA-ATTATTAAAAAATAAA
22440089 TTTAAAAATA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 16 0.84
22 3 0.16
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (21 bp):
ATAAAATTATTAAAAAATAAA
Found at i:22440089 original size:20 final size:20
Alignment explanation
Indices: 22440037--22440089 Score: 54
Period size: 21 Copynumber: 2.6 Consensus size: 20
22440027 TTTCAATAAA
**
22440037 TAAAAAATGTATAAAATTAT
1 TAAAAAATAAATAAAATTAT
*
22440057 TAAATAATAAAATAAATATT-T
1 TAAAAAAT-AAATAAA-ATTAT
22440078 TAAAAAATAAAT
1 TAAAAAATAAAT
22440090 TTAAAAATAA
Statistics
Matches: 27, Mismatches: 4, Indels: 4
0.77 0.11 0.11
Matches are distributed among these distances:
20 11 0.41
21 13 0.48
22 3 0.11
ACGTcount: A:0.64, C:0.00, G:0.02, T:0.34
Consensus pattern (20 bp):
TAAAAAATAAATAAAATTAT
Found at i:22441532 original size:2 final size:2
Alignment explanation
Indices: 22441525--22441560 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
22441515 GACAAACCTC
22441525 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
22441561 GTCAAAACTT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:22441948 original size:18 final size:19
Alignment explanation
Indices: 22441913--22441949 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 19
22441903 AAGTGGTTTA
22441913 TTTTCAACTATCACATTCAC
1 TTTTCAACTA-CACATTCAC
22441933 TTTTCAACTA-ACATTCA
1 TTTTCAACTACACATTCA
22441950 TTTCTTATGT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 7 0.41
20 10 0.59
ACGTcount: A:0.32, C:0.27, G:0.00, T:0.41
Consensus pattern (19 bp):
TTTTCAACTACACATTCAC
Found at i:22444112 original size:15 final size:15
Alignment explanation
Indices: 22444092--22444123 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
22444082 TCATGTGAAA
22444092 GTACTGTTTCCAGTT
1 GTACTGTTTCCAGTT
*
22444107 GTACTGTTTCTAGTT
1 GTACTGTTTCCAGTT
22444122 GT
1 GT
22444124 GCGTTTGTAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.12, C:0.16, G:0.22, T:0.50
Consensus pattern (15 bp):
GTACTGTTTCCAGTT
Found at i:22448823 original size:18 final size:18
Alignment explanation
Indices: 22448800--22448834 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
22448790 AATTTTAAAA
22448800 AATTATTAAAAATATAAG
1 AATTATTAAAAATATAAG
*
22448818 AATTATTGAAAATATAA
1 AATTATTAAAAATATAA
22448835 AAATATTTTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.60, C:0.00, G:0.06, T:0.34
Consensus pattern (18 bp):
AATTATTAAAAATATAAG
Found at i:22448837 original size:27 final size:27
Alignment explanation
Indices: 22448781--22448837 Score: 64
Period size: 27 Copynumber: 2.1 Consensus size: 27
22448771 TTAATTTTTT
*
22448781 AAAATATAAAATTTTAAAAAATTATTA
1 AAAATATAAAATTTTAAAAAATTATAA
*
22448808 AAAATATAAGAATTATT-GAAAA-TATAA
1 AAAATATAA-AATT-TTAAAAAATTATAA
22448835 AAA
1 AAA
22448838 TATTTTTTTT
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
27 16 0.62
28 8 0.31
29 2 0.08
ACGTcount: A:0.65, C:0.00, G:0.04, T:0.32
Consensus pattern (27 bp):
AAAATATAAAATTTTAAAAAATTATAA
Found at i:22448970 original size:17 final size:17
Alignment explanation
Indices: 22448950--22448982 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
22448940 AAATAATATA
*
22448950 AAACTAAAAATTAAAAG
1 AAACGAAAAATTAAAAG
22448967 AAACGAAAAATTAAAA
1 AAACGAAAAATTAAAA
22448983 TAATTTTTTA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.73, C:0.06, G:0.06, T:0.15
Consensus pattern (17 bp):
AAACGAAAAATTAAAAG
Found at i:22454652 original size:27 final size:27
Alignment explanation
Indices: 22454622--22454675 Score: 108
Period size: 27 Copynumber: 2.0 Consensus size: 27
22454612 GAAAAGGAAA
22454622 CAAAAGAAATGTTAATCTTGCATTCTT
1 CAAAAGAAATGTTAATCTTGCATTCTT
22454649 CAAAAGAAATGTTAATCTTGCATTCTT
1 CAAAAGAAATGTTAATCTTGCATTCTT
22454676 TACTATCTTC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.37, C:0.15, G:0.11, T:0.37
Consensus pattern (27 bp):
CAAAAGAAATGTTAATCTTGCATTCTT
Found at i:22457403 original size:17 final size:17
Alignment explanation
Indices: 22457377--22457410 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
22457367 AGATTTAGTC
*
22457377 TTATATTTTTAAAATTT
1 TTATACTTTTAAAATTT
*
22457394 TTATACTTTTTAAATTT
1 TTATACTTTTAAAATTT
22457411 ATTAATTTAA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.32, C:0.03, G:0.00, T:0.65
Consensus pattern (17 bp):
TTATACTTTTAAAATTT
Found at i:22457767 original size:4 final size:4
Alignment explanation
Indices: 22457758--22457792 Score: 61
Period size: 4 Copynumber: 8.8 Consensus size: 4
22457748 GACGCCAAAT
*
22457758 TTTA TTTA TTTA TTTA TTTA TTTA TTTA CTTA TTT
1 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTT
22457793 CATTAAAGCC
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
4 29 1.00
ACGTcount: A:0.23, C:0.03, G:0.00, T:0.74
Consensus pattern (4 bp):
TTTA
Found at i:22465887 original size:6 final size:6
Alignment explanation
Indices: 22465876--22465923 Score: 69
Period size: 6 Copynumber: 8.0 Consensus size: 6
22465866 AAGTTTTATT
* * *
22465876 AATATA AATATA AATACA AATTCA AATACA AATACA AATACA AATACA
1 AATACA AATACA AATACA AATACA AATACA AATACA AATACA AATACA
22465924 TGTCTGATCA
Statistics
Matches: 39, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
6 39 1.00
ACGTcount: A:0.65, C:0.12, G:0.00, T:0.23
Consensus pattern (6 bp):
AATACA
Found at i:22472483 original size:5 final size:5
Alignment explanation
Indices: 22472473--22472502 Score: 60
Period size: 5 Copynumber: 6.0 Consensus size: 5
22472463 AACAACAGAC
22472473 AGAGA AGAGA AGAGA AGAGA AGAGA AGAGA
1 AGAGA AGAGA AGAGA AGAGA AGAGA AGAGA
22472503 CGTACAAAGG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 25 1.00
ACGTcount: A:0.60, C:0.00, G:0.40, T:0.00
Consensus pattern (5 bp):
AGAGA
Found at i:22473752 original size:20 final size:18
Alignment explanation
Indices: 22473711--22473759 Score: 55
Period size: 20 Copynumber: 2.7 Consensus size: 18
22473701 GTAGTTTTAT
22473711 ATTTATAA-ATTTTAAAA
1 ATTTATAATATTTTAAAA
22473728 ATTTATAATACTTTGTAAAA
1 ATTTATAATA-TTT-TAAAA
* *
22473748 GTTTAAAATATT
1 ATTTATAATATT
22473760 ATACAAATAA
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
17 8 0.30
18 1 0.04
19 5 0.19
20 13 0.48
ACGTcount: A:0.47, C:0.02, G:0.04, T:0.47
Consensus pattern (18 bp):
ATTTATAATATTTTAAAA
Found at i:22483454 original size:3 final size:3
Alignment explanation
Indices: 22483446--22483471 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
22483436 CAATTAGCAA
22483446 CAT CAT CAT CAT CAT CAT CAT CAT CA
1 CAT CAT CAT CAT CAT CAT CAT CAT CA
22483472 CATATATAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.35, C:0.35, G:0.00, T:0.31
Consensus pattern (3 bp):
CAT
Found at i:22484117 original size:29 final size:28
Alignment explanation
Indices: 22484045--22484128 Score: 74
Period size: 28 Copynumber: 3.1 Consensus size: 28
22484035 TTATTTTTAA
22484045 AATTTATT-AAAT--TAAAATAT-TAAAT
1 AATTTATTAAAATACTAAAATATAT-AAT
*
22484070 AATTTATTAAAATATTAAAATATATTAAT
1 AATTTATTAAAATACTAAAATATA-TAAT
*
22484099 AATTTATT-ATATAACT-AAATATA-AAT
1 AATTTATTAAAAT-ACTAAAATATATAAT
22484125 AATT
1 AATT
22484129 AAATATGTAT
Statistics
Matches: 51, Mismatches: 2, Indels: 11
0.80 0.03 0.17
Matches are distributed among these distances:
25 8 0.16
26 11 0.22
28 18 0.35
29 13 0.25
30 1 0.02
ACGTcount: A:0.55, C:0.01, G:0.00, T:0.44
Consensus pattern (28 bp):
AATTTATTAAAATACTAAAATATATAAT
Found at i:22485977 original size:15 final size:16
Alignment explanation
Indices: 22485945--22485983 Score: 53
Period size: 15 Copynumber: 2.5 Consensus size: 16
22485935 AGCCATATCA
*
22485945 TGGAAATAGAGTTTTG
1 TGGAAGTAGAGTTTTG
*
22485961 TGGTAGTAGAG-TTTG
1 TGGAAGTAGAGTTTTG
22485976 TGGAAGTA
1 TGGAAGTA
22485984 AGTGGTAAAC
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
15 11 0.55
16 9 0.45
ACGTcount: A:0.28, C:0.00, G:0.36, T:0.36
Consensus pattern (16 bp):
TGGAAGTAGAGTTTTG
Found at i:22486290 original size:20 final size:20
Alignment explanation
Indices: 22486265--22486304 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
22486255 TCTGCATATA
*
22486265 GAGCAAATTAGACCTGATCT
1 GAGCAAACTAGACCTGATCT
22486285 GAGCAAACTAGACCTGATCT
1 GAGCAAACTAGACCTGATCT
22486305 TATGATTATA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.35, C:0.23, G:0.20, T:0.23
Consensus pattern (20 bp):
GAGCAAACTAGACCTGATCT
Found at i:22486932 original size:23 final size:23
Alignment explanation
Indices: 22486905--22486968 Score: 76
Period size: 23 Copynumber: 2.8 Consensus size: 23
22486895 TTATTAACAT
* *
22486905 TGTTCATGAACATGTTTGTTTAA
1 TGTTCATGAACATGTTCGATTAA
*
22486928 TGTTCGTGAACATGTTCGATTAA
1 TGTTCATGAACATGTTCGATTAA
*
22486951 -GTTAAATGAACATGTTCG
1 TGTT-CATGAACATGTTCG
22486969 TGAACTTAAA
Statistics
Matches: 35, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
22 3 0.09
23 32 0.91
ACGTcount: A:0.28, C:0.11, G:0.20, T:0.41
Consensus pattern (23 bp):
TGTTCATGAACATGTTCGATTAA
Found at i:22489946 original size:39 final size:39
Alignment explanation
Indices: 22489892--22489969 Score: 156
Period size: 39 Copynumber: 2.0 Consensus size: 39
22489882 CATAACTCAC
22489892 TCAATGGGGGCCATCCCCCTCTTTATAATTTTTTTTTTA
1 TCAATGGGGGCCATCCCCCTCTTTATAATTTTTTTTTTA
22489931 TCAATGGGGGCCATCCCCCTCTTTATAATTTTTTTTTTA
1 TCAATGGGGGCCATCCCCCTCTTTATAATTTTTTTTTTA
22489970 CTCTTCTCAC
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 39 1.00
ACGTcount: A:0.18, C:0.23, G:0.13, T:0.46
Consensus pattern (39 bp):
TCAATGGGGGCCATCCCCCTCTTTATAATTTTTTTTTTA
Found at i:22490884 original size:12 final size:12
Alignment explanation
Indices: 22490867--22490891 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
22490857 GGATAATGTG
22490867 TTTCGGCGTACT
1 TTTCGGCGTACT
22490879 TTTCGGCGTACT
1 TTTCGGCGTACT
22490891 T
1 T
22490892 GAACTCACGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.08, C:0.24, G:0.24, T:0.44
Consensus pattern (12 bp):
TTTCGGCGTACT
Found at i:22495937 original size:12 final size:12
Alignment explanation
Indices: 22495906--22495940 Score: 54
Period size: 11 Copynumber: 3.0 Consensus size: 12
22495896 TACGAGGTGT
22495906 TGAATATAACAC
1 TGAATATAACAC
*
22495918 -GCATATAACAC
1 TGAATATAACAC
22495929 TGAATATAACAC
1 TGAATATAACAC
22495941 GTGTAAAGTG
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
11 10 0.50
12 10 0.50
ACGTcount: A:0.49, C:0.20, G:0.09, T:0.23
Consensus pattern (12 bp):
TGAATATAACAC
Found at i:22497092 original size:23 final size:23
Alignment explanation
Indices: 22497062--22497110 Score: 98
Period size: 23 Copynumber: 2.1 Consensus size: 23
22497052 CAAACTTGGT
22497062 TATAGAAAGTGACTTAGTCATCA
1 TATAGAAAGTGACTTAGTCATCA
22497085 TATAGAAAGTGACTTAGTCATCA
1 TATAGAAAGTGACTTAGTCATCA
22497108 TAT
1 TAT
22497111 CTGCAGGATT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 26 1.00
ACGTcount: A:0.39, C:0.12, G:0.16, T:0.33
Consensus pattern (23 bp):
TATAGAAAGTGACTTAGTCATCA
Found at i:22504711 original size:19 final size:19
Alignment explanation
Indices: 22504671--22504734 Score: 51
Period size: 19 Copynumber: 3.3 Consensus size: 19
22504661 TTTCTTTTAC
*
22504671 TGTTTTGTTGCTATTTTCT
1 TGTTTTGTTGCTATATTCT
*
22504690 TGTTTTTTTGCTACTATT-T
1 TGTTTTGTTGCTA-TATTCT
* *
22504709 TGTTGTTCTTG-TATAACTCT
1 TGTT-TTGTTGCTAT-ATTCT
22504729 TGTTTT
1 TGTTTT
22504735 ATTGTTAATT
Statistics
Matches: 37, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
18 1 0.03
19 23 0.62
20 13 0.35
ACGTcount: A:0.09, C:0.11, G:0.14, T:0.66
Consensus pattern (19 bp):
TGTTTTGTTGCTATATTCT
Found at i:22505421 original size:21 final size:22
Alignment explanation
Indices: 22505369--22505423 Score: 58
Period size: 21 Copynumber: 2.5 Consensus size: 22
22505359 GTCTTATCGA
*
22505369 TTAAAATTAAAATTAAAATTAAT
1 TTAAAA-TAAAATTAAAATAAAT
** *
22505392 TTATTATAAAA-TACAATAAAT
1 TTAAAATAAAATTAAAATAAAT
22505413 TTAAAATAAAA
1 TTAAAATAAAA
22505424 ATATTCGGAT
Statistics
Matches: 26, Mismatches: 6, Indels: 2
0.76 0.18 0.06
Matches are distributed among these distances:
21 17 0.65
22 5 0.19
23 4 0.15
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.36
Consensus pattern (22 bp):
TTAAAATAAAATTAAAATAAAT
Found at i:22506006 original size:71 final size:71
Alignment explanation
Indices: 22505925--22506066 Score: 257
Period size: 71 Copynumber: 2.0 Consensus size: 71
22505915 ACCAAATTCA
* *
22505925 TTTGAATTTGATTGAGTTGAAATTATTTATTCAATTAAATTCGTACTATTCATTCAATTGGGTTT
1 TTTGAATTTGATTGAGTTGAAATTATTTATTCAATCAAATTCGTACTACTCATTCAATTGGGTTT
22505990 CAACTT
66 CAACTT
*
22505996 TTTGAATTTGATTGAGTTGAAATTATTTATTCAATCAAATTCGTACTACTCATTTAATTGGGTTT
1 TTTGAATTTGATTGAGTTGAAATTATTTATTCAATCAAATTCGTACTACTCATTCAATTGGGTTT
22506061 CAACTT
66 CAACTT
22506067 ATTGGAATCA
Statistics
Matches: 68, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
71 68 1.00
ACGTcount: A:0.30, C:0.11, G:0.13, T:0.47
Consensus pattern (71 bp):
TTTGAATTTGATTGAGTTGAAATTATTTATTCAATCAAATTCGTACTACTCATTCAATTGGGTTT
CAACTT
Found at i:22506277 original size:30 final size:30
Alignment explanation
Indices: 22506241--22506299 Score: 84
Period size: 30 Copynumber: 2.0 Consensus size: 30
22506231 TAAAAATATA
22506241 AATTTTAAAGAATTA-AATTAAAATTTTATC
1 AATTTTAAAGAATTATAA-TAAAATTTTATC
* *
22506271 AATTTTAAAGAGTTATAATACAATTTTAT
1 AATTTTAAAGAATTATAATAAAATTTTAT
22506300 TTTAAAGGGT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
30 24 0.92
31 2 0.08
ACGTcount: A:0.47, C:0.03, G:0.05, T:0.44
Consensus pattern (30 bp):
AATTTTAAAGAATTATAATAAAATTTTATC
Found at i:22506664 original size:18 final size:18
Alignment explanation
Indices: 22506643--22506692 Score: 57
Period size: 21 Copynumber: 2.6 Consensus size: 18
22506633 AATACATTAT
22506643 TTATTCTTAA-ATTTAATA
1 TTATT-TTAATATTTAATA
22506661 TTATTAATATAATATTTAATA
1 TTATT--T-TAATATTTAATA
22506682 TTATTTTAATA
1 TTATTTTAATA
22506693 ATTTTGGATA
Statistics
Matches: 28, Mismatches: 1, Indels: 6
0.80 0.03 0.17
Matches are distributed among these distances:
18 10 0.36
19 2 0.07
20 3 0.11
21 13 0.46
ACGTcount: A:0.42, C:0.02, G:0.00, T:0.56
Consensus pattern (18 bp):
TTATTTTAATATTTAATA
Found at i:22508164 original size:30 final size:30
Alignment explanation
Indices: 22508111--22508168 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
22508101 ATTTGTGGAA
*
22508111 ACTAGGTTGTTAGGCTACAAGCTTTCCACT
1 ACTAGGTTGTTAGGCAACAAGCTTTCCACT
**
22508141 ACTAGGTTGTTAGGCAATTAGCTTTCCA
1 ACTAGGTTGTTAGGCAACAAGCTTTCCA
22508169 AATATGTAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.24, C:0.21, G:0.21, T:0.34
Consensus pattern (30 bp):
ACTAGGTTGTTAGGCAACAAGCTTTCCACT
Found at i:22513120 original size:16 final size:17
Alignment explanation
Indices: 22513099--22513130 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
22513089 TAGAATTGAG
22513099 TTGAGAAATT-ATTTAA
1 TTGAGAAATTAATTTAA
22513115 TTGAGAAATTAATTTA
1 TTGAGAAATTAATTTA
22513131 GTTAATTAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 10 0.67
17 5 0.33
ACGTcount: A:0.44, C:0.00, G:0.12, T:0.44
Consensus pattern (17 bp):
TTGAGAAATTAATTTAA
Found at i:22519078 original size:15 final size:15
Alignment explanation
Indices: 22519052--22519086 Score: 54
Period size: 15 Copynumber: 2.3 Consensus size: 15
22519042 GTAAAAGTAC
22519052 AATTTGATAATTTACT
1 AATTTGATAATTTA-T
22519068 AATTT-ATAATTTAT
1 AATTTGATAATTTAT
22519082 AATTT
1 AATTT
22519087 TCTCATTTTA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 6 0.32
15 8 0.42
16 5 0.26
ACGTcount: A:0.40, C:0.03, G:0.03, T:0.54
Consensus pattern (15 bp):
AATTTGATAATTTAT
Found at i:22519079 original size:7 final size:7
Alignment explanation
Indices: 22519052--22519086 Score: 52
Period size: 7 Copynumber: 4.7 Consensus size: 7
22519042 GTAAAAGTAC
22519052 AATTTGAT
1 AATTT-AT
22519060 AATTTACT
1 AATTTA-T
22519068 AATTTAT
1 AATTTAT
22519075 AATTTAT
1 AATTTAT
22519082 AATTT
1 AATTT
22519087 TCTCATTTTA
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
7 14 0.54
8 12 0.46
ACGTcount: A:0.40, C:0.03, G:0.03, T:0.54
Consensus pattern (7 bp):
AATTTAT
Found at i:22519870 original size:21 final size:21
Alignment explanation
Indices: 22519832--22519872 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
22519822 AAAGCATGTT
* **
22519832 ATTAAATATATATTTAAAAAG
1 ATTAAATAAATAAATAAAAAG
22519853 ATTAAATAAATAAATAAAAA
1 ATTAAATAAATAAATAAAAA
22519873 TTAAGTTTTT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.66, C:0.00, G:0.02, T:0.32
Consensus pattern (21 bp):
ATTAAATAAATAAATAAAAAG
Found at i:22522603 original size:3 final size:3
Alignment explanation
Indices: 22522595--22522620 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
22522585 AAAATGGTCC
22522595 TAA TAA TAA TAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TA
22522621 CATTACTAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:22532812 original size:13 final size:13
Alignment explanation
Indices: 22532794--22532818 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
22532784 GGGTAAATAA
22532794 AATGTTGGTAAGT
1 AATGTTGGTAAGT
22532807 AATGTTGGTAAG
1 AATGTTGGTAAG
22532819 CAAGCCCTCG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.00, G:0.32, T:0.36
Consensus pattern (13 bp):
AATGTTGGTAAGT
Found at i:22533910 original size:102 final size:105
Alignment explanation
Indices: 22533785--22533984 Score: 291
Period size: 106 Copynumber: 1.9 Consensus size: 105
22533775 AAAATTATTT
*
22533785 TTTGGGTGCTGGCCTGTCAATGGCCGGCACCC-TAC-A-GTAAAAAAAAATTCCTTTTTTTTTTG
1 TTTGGGTGCTGGCCTGTCAATGGCCGGCACCCATACAATGTAAAAAAAAATT-CTTTTTTTTTCG
* *
22533847 -GTTAGAATAAGATATAAATATACGAAAAAAATAAAAAAAA
65 TGTCAGAATAAGATATAAATATACAAAAAAAATAAAAAAAA
* *
22533887 TTTGGGTGCTGGCTTGTCAATGGCCGGCACCCAGTACAATTTAAAAAAAAATTCTTTTTTTTTCG
1 TTTGGGTGCTGGCCTGTCAATGGCCGGCACCCA-TACAATGTAAAAAAAAATTCTTTTTTTTTCG
* *
22533952 TGTCAGAGTCAGATATAAATATACAAAAAAAAT
65 TGTCAGAATAAGATATAAATATACAAAAAAAAT
22533985 TTTGGCCAGT
Statistics
Matches: 86, Mismatches: 7, Indels: 6
0.87 0.07 0.06
Matches are distributed among these distances:
102 31 0.36
104 3 0.03
105 12 0.14
106 40 0.47
ACGTcount: A:0.38, C:0.14, G:0.17, T:0.31
Consensus pattern (105 bp):
TTTGGGTGCTGGCCTGTCAATGGCCGGCACCCATACAATGTAAAAAAAAATTCTTTTTTTTTCGT
GTCAGAATAAGATATAAATATACAAAAAAAATAAAAAAAA
Found at i:22534035 original size:72 final size:73
Alignment explanation
Indices: 22533917--22534056 Score: 221
Period size: 72 Copynumber: 1.9 Consensus size: 73
22533907 TGGCCGGCAC
*
22533917 CCAGTACAATTTAAAAAAAAATTCTTTTTTTTTCGTGTCAGAGTCAGATATAAATATACAAAAAA
1 CCAGTACAACTTAAAAAAAAATTCTTTTTTTTTCGTGTCAGAGTCAGATATAAATATACAAAAAA
22533982 AATTTTGG
66 AATTTTGG
* * *
22533990 CCAGTACAACTT-AAAAAAAATTAC-TTTTTTTTCGTGTCTGAGTCAGATATAAATGTACGAAAA
1 CCAGTACAACTTAAAAAAAAATT-CTTTTTTTTTCGTGTCAGAGTCAGATATAAATATACAAAAA
22534053 AAAT
65 AAAT
22534057 AAATAAAAAA
Statistics
Matches: 62, Mismatches: 4, Indels: 3
0.90 0.06 0.04
Matches are distributed among these distances:
72 50 0.81
73 12 0.19
ACGTcount: A:0.42, C:0.12, G:0.11, T:0.34
Consensus pattern (73 bp):
CCAGTACAACTTAAAAAAAAATTCTTTTTTTTTCGTGTCAGAGTCAGATATAAATATACAAAAAA
AATTTTGG
Found at i:22534204 original size:107 final size:106
Alignment explanation
Indices: 22533991--22534424 Score: 592
Period size: 107 Copynumber: 4.1 Consensus size: 106
22533981 AAATTTTGGC
* * * *
22533991 CAGTACAACTTAAAAAAAATTACTTTTTTTTCGTGTCTGAGTCAGATATAAATGTACGAAAAAAA
1 CAGTACAAATTAAAAAAAATT-CTTTTTTTTCGTGTCAGAATCAGATATAAATATACGAAAAAAA
* * * *
22534056 TAAATAAAAAAATTTCGAGTGCTGGCCTATCAATGGCCGGCACT
65 TTAA-AAAAAAATTT-GGGTGCTGGCCTGTCAATGGTCGGCACT
*
22534100 CAGTACAAATTAAAAAAAATTTCTTTTTTTTCGTGTCAGAATCAGATATAAATATGCGAAAAAAA
1 CAGTACAAATTAAAAAAAA-TTCTTTTTTTTCGTGTCAGAATCAGATATAAATATACGAAAAAAA
22534165 TTAAAAAAAAATTTGGGTGCTGGCCTGTCAATGGTCGGCAC-
65 TTAAAAAAAAATTTGGGTGCTGGCCTGTCAATGGTCGGCACT
*
22534206 CTAGTACAAATTTAAAAAAAATTCTTTTTTTTCGTGTCAGAGTCAGATATAAATATACG-AAAAA
1 C-AGTACAAA-TTAAAAAAAATTCTTTTTTTTCGTGTCAGAATCAGATATAAATATACGAAAAAA
* *
22534270 A-T-AAAAAAATTTTGGGTGCTGGCCTGTCAATGGTCGGCACC
64 ATTAAAAAAAAATTTGGGTGCTGGCCTGTCAATGGTCGGCACT
22534311 CAGTACAAATT-AAAAAAATTCTTTTTTTTTCGTGTCAGAATCAGATATAAATATACGAAAAAAA
1 CAGTACAAATTAAAAAAAATTC-TTTTTTTTCGTGTCAGAATCAGATATAAATATACGAAAAAAA
* * * * * *
22534375 TTAAAAAAAATTTTTGTTGATGGCCTGTTAATGG-CTGACACT
65 TTAAAAAAAAATTTGGGTGCTGGCCTGTCAATGGTC-GGCACT
22534417 CAGTACAA
1 CAGTACAA
22534425 TCATATATAT
Statistics
Matches: 297, Mismatches: 19, Indels: 21
0.88 0.06 0.06
Matches are distributed among these distances:
102 10 0.03
103 36 0.12
104 51 0.17
105 4 0.01
106 46 0.15
107 68 0.23
108 20 0.07
109 60 0.20
110 2 0.01
ACGTcount: A:0.39, C:0.14, G:0.16, T:0.31
Consensus pattern (106 bp):
CAGTACAAATTAAAAAAAATTCTTTTTTTTCGTGTCAGAATCAGATATAAATATACGAAAAAAAT
TAAAAAAAAATTTGGGTGCTGGCCTGTCAATGGTCGGCACT
Found at i:22534380 original size:210 final size:213
Alignment explanation
Indices: 22533992--22534408 Score: 628
Period size: 210 Copynumber: 2.0 Consensus size: 213
22533982 AATTTTGGCC
* *
22533992 AGTACAACTTAAAAAAAATTACTTTTTTTTCGTGTCTGAGTCAGATATAAATGTACGAAAAAAAT
1 AGTACAACTTAAAAAAAATTACTTTTTTTTCGTGTCAGAGTCAGATATAAATATACG---AAAAT
*
22534057 AAATAAAAAAATTTCGAGTGCTGGCCTATCAATGGCCGGCACTCAGTACAAATTAAAAAAAATTT
63 AAATAAAAAAATTTCGAGTGCTGGCCTATCAATGGCCGGCACCCAGTACAAATTAAAAAAAATTT
* *
22534122 CTTTTTTTTCGTGTCAGAATCAGATATAAATATGCGAAAAAAATTAAAAAAAAATTTGGGTGCTG
128 CTTTTTTTTCGTGTCAGAATCAGATATAAATATACGAAAAAAATTAAAAAAAAATTTGGGTGATG
22534187 GCCTGTCAATGGTCGGCACCT
193 GCCTGTCAATGGTCGGCACCT
*
22534208 AGTACAAATTTAAAAAAAATT-CTTTTTTTTCGTGTCAGAGTCAGATATAAATATACG-AAA-AA
1 AGTAC-AACTTAAAAAAAATTACTTTTTTTTCGTGTCAGAGTCAGATATAAATATACGAAAATAA
* * * *
22534270 ATAAAAAAATTTTGGGTGCTGGCCTGTCAATGGTCGGCACCCAGTACAAATT-AAAAAAA-TTCT
65 ATAAAAAAATTTCGAGTGCTGGCCTATCAATGGCCGGCACCCAGTACAAATTAAAAAAAATTTC-
* * *
22534333 TTTTTTTTCGTGTCAGAATCAGATATAAATATACGAAAAAAATTAAAAAAAATTTTTGTTGATGG
129 TTTTTTTTCGTGTCAGAATCAGATATAAATATACGAAAAAAATTAAAAAAAAATTTGGGTGATGG
*
22534398 CCTGTTAATGG
194 CCTGTCAATGG
22534409 CTGACACTCA
Statistics
Matches: 185, Mismatches: 14, Indels: 10
0.89 0.07 0.05
Matches are distributed among these distances:
209 3 0.02
210 77 0.42
211 49 0.26
212 3 0.02
216 39 0.21
217 14 0.08
ACGTcount: A:0.40, C:0.13, G:0.16, T:0.32
Consensus pattern (213 bp):
AGTACAACTTAAAAAAAATTACTTTTTTTTCGTGTCAGAGTCAGATATAAATATACGAAAATAAA
TAAAAAAATTTCGAGTGCTGGCCTATCAATGGCCGGCACCCAGTACAAATTAAAAAAAATTTCTT
TTTTTTCGTGTCAGAATCAGATATAAATATACGAAAAAAATTAAAAAAAAATTTGGGTGATGGCC
TGTCAATGGTCGGCACCT
Found at i:22535265 original size:105 final size:104
Alignment explanation
Indices: 22535148--22535370 Score: 328
Period size: 105 Copynumber: 2.1 Consensus size: 104
22535138 TAATTGTATT
*
22535148 GGCCGGCACCCAAAATTTTTTT-TTATTTTTTTCGTATATTTATATCTGATTCTGACACGAAAAA
1 GGCCAGCACCCAAAATTTTTTTATTATTTTTTTCGTATATTTATATCTGATTCTGACA--AAAAA
22535212 AAAG-AA-TTTTTTTAAACTGTACTGGGTGCCGACCATTGACA
64 AAAGAAACTTTTTTTAAACTGT--TGGGTGCCGACCATTGACA
*
22535253 GGCCAGCACCC-AAATTTTTTTATTATTTTTTTCGTATATTTATATCTTATTCTGACAAAAAAAA
1 GGCCAGCACCCAAAATTTTTTTATTATTTTTTTCGTATATTTATATCTGATTCTGACAAAAAAAA
* ** *
22535317 GGAAACTTTTTTTTTACTGTTGGGTGCCGGCCATTGACA
66 AGAAACTTTTTTTAAACTGTTGGGTGCCGACCATTGACA
22535356 GGCCAGCACCCAAAA
1 GGCCAGCACCCAAAA
22535371 AATAAATTTT
Statistics
Matches: 108, Mismatches: 6, Indels: 9
0.88 0.05 0.07
Matches are distributed among these distances:
103 37 0.34
104 15 0.14
105 56 0.52
ACGTcount: A:0.29, C:0.18, G:0.15, T:0.37
Consensus pattern (104 bp):
GGCCAGCACCCAAAATTTTTTTATTATTTTTTTCGTATATTTATATCTGATTCTGACAAAAAAAA
AGAAACTTTTTTTAAACTGTTGGGTGCCGACCATTGACA
Found at i:22535316 original size:194 final size:193
Alignment explanation
Indices: 22534962--22535316 Score: 563
Period size: 194 Copynumber: 1.8 Consensus size: 193
22534952 CCCGCCAACT
*
22534962 CCAAAATTTTTTTTAATTTTTTTCGTATATTTATATATGATTTTGACACAAAAAAAAGAATTTTT
1 CCAAAATTTTTTTTAATTTTTTTCGTATATTTATATATGATTCTGACACAAAAAAAAGAA-TTTT
**
22535027 TTTTAATTTGTACTGGGTGCCAGCCATTGACAGGCCAGCACCCAAATTTTTTTTATTTTTTTCAT
65 TTTTAAACTGTACTGGGTGCCAGCCATTGACAGGCCAGCACCCAAATTTTTTTTATTTTTTTCAT
22535092 ATATTTATATCTGACTCTGACACGAAAAAAAAGTAAAAACTTTTTTTAATTGTATTGGCCGGCAC
130 ATATTTATATCTGACTCTGACAC-AAAAAAAAGTAAAAACTTTTTTTAATTGTATTGGCCGGCAC
* *
22535157 CCAAAATTTTTTTTTATTTTTTTCGTATATTTATATCTGATTCTGACACGAAAAAAAAGAA-TTT
1 CCAAAATTTTTTTTAATTTTTTTCGTATATTTATATATGATTCTGACAC-AAAAAAAAGAATTTT
22535221 TTTTAAACTGTACTGGGTGCC-GACCATTGACAGGCCAGCACCCAAATTTTTTTATTATTTTTTT
65 TTTTAAACTGTACTGGGTGCCAG-CCATTGACAGGCCAGCACCCAAA-TTTTTT-TTATTTTTTT
* * *
22535285 CGTATATTTATATCTTATTCTGACA-AAAAAAA
127 CATATATTTATATCTGACTCTGACACAAAAAAA
22535317 GGAAACTTTT
Statistics
Matches: 148, Mismatches: 8, Indels: 9
0.90 0.05 0.05
Matches are distributed among these distances:
193 1 0.01
194 52 0.35
195 52 0.35
196 43 0.29
ACGTcount: A:0.32, C:0.15, G:0.11, T:0.42
Consensus pattern (193 bp):
CCAAAATTTTTTTTAATTTTTTTCGTATATTTATATATGATTCTGACACAAAAAAAAGAATTTTT
TTTAAACTGTACTGGGTGCCAGCCATTGACAGGCCAGCACCCAAATTTTTTTTATTTTTTTCATA
TATTTATATCTGACTCTGACACAAAAAAAAGTAAAAACTTTTTTTAATTGTATTGGCCGGCAC
Found at i:22539648 original size:42 final size:42
Alignment explanation
Indices: 22539602--22539698 Score: 108
Period size: 42 Copynumber: 2.3 Consensus size: 42
22539592 ACGCTCTTTT
* *
22539602 GAGCTTCTGTTTAACCCTTATGGGTTTTTG-TTATGCTCAT-AC
1 GAGCTTCTGTTCAACCCTTATGGGTTTCTGTTTA-GCTC-TCAC
** * *
22539644 GAGCTTCCATTCAACCCTTATGTGTTTCTGTTTAGCTCTCAT
1 GAGCTTCTGTTCAACCCTTATGGGTTTCTGTTTAGCTCTCAC
22539686 GAGCTTCTGTTCA
1 GAGCTTCTGTTCA
22539699 GCCTTCGAGT
Statistics
Matches: 45, Mismatches: 8, Indels: 4
0.79 0.14 0.07
Matches are distributed among these distances:
41 1 0.02
42 41 0.91
43 3 0.07
ACGTcount: A:0.16, C:0.23, G:0.18, T:0.43
Consensus pattern (42 bp):
GAGCTTCTGTTCAACCCTTATGGGTTTCTGTTTAGCTCTCAC
Found at i:22542723 original size:336 final size:341
Alignment explanation
Indices: 22542104--22542781 Score: 1023
Period size: 336 Copynumber: 2.0 Consensus size: 341
22542094 CTAGCTTATT
*
22542104 GGAAAAGAAGAGTTCATCCAATTTCGAGGATCGGTTCAAAGACGAGGAAAATTCGTGTCTAAAGC
1 GGAAAAGAAGAGTTCATCCAATTTCGAGGATCGGTTCAAAGACGAGGAAAATTCGTGCCTAAAGC
*
22542169 TGAGCTCATTCTAATTAATTTCTCTTAATATTCATTTCACGATTTTTATTATTCTGTTTTTCAAC
66 TGAGCTCATTCTAATTAATTTCTCTTAATATTCATTTAACGATTTTTATTATTCTGTTTTTCAAC
* * * * *
22542234 CTTTACTTTTGACGTTATTTTTCTGTTAATTTCAGGTTTTCAAATTTTTATCCCCCCGAACGTCT
131 CTTTACTTTTCACGTCATTTTTATGTTAATTTCAGGTCTTCAAATTTTTATCCCCCCAAACGTCT
*
22542299 TGGGCACGACAACTGCCCCGACATAAATCTGGTCAAACGAGTGACAATTTACAGTAAACCAGTCT
196 TGGGCACGACAACTGCCCCGACATAAATCTGGTCAAAAGAGTGACAATTTACAGTAAACCAGTCT
* * *
22542364 CTGAGGGATCGACCGTACTCCCTATACTGCATAATTTGCAAATTAAGGCGTAGGTTTATATTGGT
261 CTGAGGGATCGACCCTACTCCCTATACTGCATAAATCGCAAATT-AGGCGTAGGTTTATATTGGT
22542429 GGATTCGACACCCATCA
325 GGATTCGACACCCATCA
* *
22542446 GGAAAAGAGGAGTTCATCTAATTTCGAGGATCGGTTCAAAGACGAGGAAAAATTCGTGCCTAAAG
1 GGAAAAGAAGAGTTCATCCAATTTCGAGGATCGGTTCAAAGACGAGG-AAAATTCGTGCCTAAAG
* * * * *
22542511 CTGAGCTTATTCTAATTAATTTTTCTTCATATTTATTTAACTATTTTT-TTATTCTG-TTTTCAA
65 CTGAGCTCATTCTAATTAATTTCTCTTAATATTCATTTAACGATTTTTATTATTCTGTTTTTCAA
* * *
22542574 CTTTTTCTTTTCACG-CA-TTTTAT-TT-ATTTCAGGTCTTCAAA-TTTTATCCCCCCAAACTTC
130 CCTTTACTTTTCACGTCATTTTTATGTTAATTTCAGGTCTTCAAATTTTTATCCCCCCAAACGTC
* *
22542634 TTGGGCACGACAACTGCCCTGACATAAATCTGGTCAAAAGAG-GAACAA-TTGCAGTAAACCCAG
195 TTGGGCACGACAACTGCCCCGACATAAATCTGGTCAAAAGAGTG-ACAATTTACAGTAAA-CCAG
* * *
22542697 TCTCTGAGGTATTGACCCTACTCCCTATACTGCTTAAATCGCAAATTAGGCGTAGGTTTATATTG
258 TCTCTGAGGGATCGACCCTACTCCCTATACTGCATAAATCGCAAATTAGGCGTAGGTTTATATTG
22542762 GTGGATTCGACACCCATCA
323 GTGGATTCGACACCCATCA
22542781 G
1 G
22542782 TTTTCCGCCA
Statistics
Matches: 307, Mismatches: 26, Indels: 13
0.89 0.08 0.04
Matches are distributed among these distances:
335 48 0.16
336 106 0.35
337 15 0.05
338 2 0.01
339 5 0.02
340 1 0.00
341 19 0.06
342 53 0.17
343 58 0.19
ACGTcount: A:0.28, C:0.20, G:0.17, T:0.35
Consensus pattern (341 bp):
GGAAAAGAAGAGTTCATCCAATTTCGAGGATCGGTTCAAAGACGAGGAAAATTCGTGCCTAAAGC
TGAGCTCATTCTAATTAATTTCTCTTAATATTCATTTAACGATTTTTATTATTCTGTTTTTCAAC
CTTTACTTTTCACGTCATTTTTATGTTAATTTCAGGTCTTCAAATTTTTATCCCCCCAAACGTCT
TGGGCACGACAACTGCCCCGACATAAATCTGGTCAAAAGAGTGACAATTTACAGTAAACCAGTCT
CTGAGGGATCGACCCTACTCCCTATACTGCATAAATCGCAAATTAGGCGTAGGTTTATATTGGTG
GATTCGACACCCATCA
Found at i:22547046 original size:11 final size:13
Alignment explanation
Indices: 22547026--22547057 Score: 50
Period size: 12 Copynumber: 2.6 Consensus size: 13
22547016 AATAAAATAA
22547026 TAAAATATC-ATT
1 TAAAATATCAATT
22547038 TAAAA-ATCAATT
1 TAAAATATCAATT
22547050 TAAAATAT
1 TAAAATAT
22547058 TAATAAACTA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
11 3 0.17
12 13 0.72
13 2 0.11
ACGTcount: A:0.56, C:0.06, G:0.00, T:0.38
Consensus pattern (13 bp):
TAAAATATCAATT
Found at i:22548687 original size:22 final size:21
Alignment explanation
Indices: 22548662--22548703 Score: 57
Period size: 22 Copynumber: 2.0 Consensus size: 21
22548652 AAAAAAACAT
*
22548662 TTTAATTTTCCTATTATTATTA
1 TTTAATTTTACTATT-TTATTA
*
22548684 TTTATTTTTACTATTTTATT
1 TTTAATTTTACTATTTTATT
22548704 TTATTTTCAT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 5 0.28
22 13 0.72
ACGTcount: A:0.24, C:0.07, G:0.00, T:0.69
Consensus pattern (21 bp):
TTTAATTTTACTATTTTATTA
Found at i:22548721 original size:6 final size:6
Alignment explanation
Indices: 22548673--22548723 Score: 50
Period size: 6 Copynumber: 8.2 Consensus size: 6
22548663 TTAATTTTCC
* *
22548673 TATTAT TATTATT TATTTT TACTATTT TA-TTT TATTTT CATTTT TATTTT
1 TATTTT TATT-TT TATTTT TA-T-TTT TATTTT TATTTT TATTTT TATTTT
22548723 T
1 T
22548724 GCAGGAAACA
Statistics
Matches: 38, Mismatches: 3, Indels: 8
0.78 0.06 0.16
Matches are distributed among these distances:
5 5 0.13
6 22 0.58
7 6 0.16
8 5 0.13
ACGTcount: A:0.22, C:0.04, G:0.00, T:0.75
Consensus pattern (6 bp):
TATTTT
Found at i:22549176 original size:7 final size:8
Alignment explanation
Indices: 22549157--22549193 Score: 65
Period size: 8 Copynumber: 4.6 Consensus size: 8
22549147 CTTTTCAACA
*
22549157 AAAAAAAC
1 AAAAAAAT
22549165 AAAAAAAT
1 AAAAAAAT
22549173 AAAAAAAT
1 AAAAAAAT
22549181 AAAAAAAT
1 AAAAAAAT
22549189 AAAAA
1 AAAAA
22549194 TACTCCTCTG
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
8 28 1.00
ACGTcount: A:0.89, C:0.03, G:0.00, T:0.08
Consensus pattern (8 bp):
AAAAAAAT
Found at i:22550860 original size:23 final size:23
Alignment explanation
Indices: 22550830--22550876 Score: 94
Period size: 23 Copynumber: 2.0 Consensus size: 23
22550820 ACAAAAGGAA
22550830 GAGTTGGTGTCCGAGGCGTCCTT
1 GAGTTGGTGTCCGAGGCGTCCTT
22550853 GAGTTGGTGTCCGAGGCGTCCTT
1 GAGTTGGTGTCCGAGGCGTCCTT
22550876 G
1 G
22550877 GTAGCTATAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.09, C:0.21, G:0.40, T:0.30
Consensus pattern (23 bp):
GAGTTGGTGTCCGAGGCGTCCTT
Found at i:22557167 original size:31 final size:31
Alignment explanation
Indices: 22557110--22557176 Score: 82
Period size: 31 Copynumber: 2.2 Consensus size: 31
22557100 TCAATATATC
*
22557110 ATTTGGTACTTGAGATTGATTTCAATGCTCA
1 ATTTGGTACTTGAGATTGATTCCAATGCTCA
* * *
22557141 ATTTGGTACTTGAG-TTTAGTTCCAATGTTTA
1 ATTTGGTACTTGAGATTGA-TTCCAATGCTCA
22557172 ATTTG
1 ATTTG
22557177 ATATTCAATT
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
30 3 0.10
31 28 0.90
ACGTcount: A:0.24, C:0.10, G:0.19, T:0.46
Consensus pattern (31 bp):
ATTTGGTACTTGAGATTGATTCCAATGCTCA
Found at i:22557453 original size:31 final size:31
Alignment explanation
Indices: 22557412--22557474 Score: 99
Period size: 31 Copynumber: 2.0 Consensus size: 31
22557402 TATATAATGA
22557412 TCATTAAATTATTTAAAAGTTTTCATTTAAG
1 TCATTAAATTATTTAAAAGTTTTCATTTAAG
* * *
22557443 TCATTGAATTATTTGAAAGTTTTTATTTAAG
1 TCATTAAATTATTTAAAAGTTTTCATTTAAG
22557474 T
1 T
22557475 TACTAGGCTA
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.35, C:0.05, G:0.10, T:0.51
Consensus pattern (31 bp):
TCATTAAATTATTTAAAAGTTTTCATTTAAG
Found at i:22566105 original size:60 final size:60
Alignment explanation
Indices: 22566037--22566217 Score: 362
Period size: 60 Copynumber: 3.0 Consensus size: 60
22566027 TTTGCTTGAT
22566037 CTGAACTAATTCAATATTCAAAGATTTATCGCTCCACAAGTTGGTCCTTCAAATATGGGC
1 CTGAACTAATTCAATATTCAAAGATTTATCGCTCCACAAGTTGGTCCTTCAAATATGGGC
22566097 CTGAACTAATTCAATATTCAAAGATTTATCGCTCCACAAGTTGGTCCTTCAAATATGGGC
1 CTGAACTAATTCAATATTCAAAGATTTATCGCTCCACAAGTTGGTCCTTCAAATATGGGC
22566157 CTGAACTAATTCAATATTCAAAGATTTATCGCTCCACAAGTTGGTCCTTCAAATATGGGC
1 CTGAACTAATTCAATATTCAAAGATTTATCGCTCCACAAGTTGGTCCTTCAAATATGGGC
22566217 C
1 C
22566218 AACACAGGTC
Statistics
Matches: 121, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
60 121 1.00
ACGTcount: A:0.31, C:0.22, G:0.15, T:0.31
Consensus pattern (60 bp):
CTGAACTAATTCAATATTCAAAGATTTATCGCTCCACAAGTTGGTCCTTCAAATATGGGC
Found at i:22567232 original size:20 final size:19
Alignment explanation
Indices: 22567202--22567247 Score: 65
Period size: 19 Copynumber: 2.3 Consensus size: 19
22567192 ATAAAATAAA
*
22567202 TAAATAAATTACTTAAAAATT
1 TAAA-AAATTA-TTAAAAAAT
22567223 TAAAAAATTATTAAAAAAT
1 TAAAAAATTATTAAAAAAT
22567242 TAAAAA
1 TAAAAA
22567248 TCTCCAAAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
19 14 0.58
20 6 0.25
21 4 0.17
ACGTcount: A:0.65, C:0.02, G:0.00, T:0.33
Consensus pattern (19 bp):
TAAAAAATTATTAAAAAAT
Found at i:22568236 original size:27 final size:27
Alignment explanation
Indices: 22568213--22568266 Score: 81
Period size: 27 Copynumber: 2.0 Consensus size: 27
22568203 TGGATCAATG
*
22568213 TGTTGGTATGTAACGCCCAAATCAACA
1 TGTTAGTATGTAACGCCCAAATCAACA
* *
22568240 TGTTAGTATTTAATGCCCAAATCAACA
1 TGTTAGTATGTAACGCCCAAATCAACA
22568267 GAAGGATCTA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.35, C:0.20, G:0.15, T:0.30
Consensus pattern (27 bp):
TGTTAGTATGTAACGCCCAAATCAACA
Found at i:22570235 original size:24 final size:24
Alignment explanation
Indices: 22570193--22570244 Score: 68
Period size: 24 Copynumber: 2.2 Consensus size: 24
22570183 AATCAAAGTC
** *
22570193 AAATATATTATGTTAATAAATGCT
1 AAATATATTATACTAATAAATACT
*
22570217 AAATATATTATACTCATAAATACT
1 AAATATATTATACTAATAAATACT
22570241 AAAT
1 AAAT
22570245 CTTCTAGAAA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.50, C:0.08, G:0.04, T:0.38
Consensus pattern (24 bp):
AAATATATTATACTAATAAATACT
Found at i:22572969 original size:22 final size:22
Alignment explanation
Indices: 22572910--22572980 Score: 74
Period size: 22 Copynumber: 3.2 Consensus size: 22
22572900 TTGCCATATT
*
22572910 TATACACATGCAT-TTTTCATA
1 TATACATATGCATATTTTCATA
*
22572931 TAGTACATACGCATATTTTCCATA
1 TA-TACATATGCATATTTT-CATA
*
22572955 TATA-ATATGCATATTTTTAATA
1 TATACATATGCATA-TTTTCATA
22572977 TATA
1 TATA
22572981 TATACAGTTT
Statistics
Matches: 42, Mismatches: 4, Indels: 7
0.79 0.08 0.13
Matches are distributed among these distances:
21 2 0.05
22 24 0.57
23 10 0.24
24 6 0.14
ACGTcount: A:0.37, C:0.14, G:0.06, T:0.44
Consensus pattern (22 bp):
TATACATATGCATATTTTCATA
Found at i:22573180 original size:11 final size:11
Alignment explanation
Indices: 22573164--22573205 Score: 50
Period size: 11 Copynumber: 3.8 Consensus size: 11
22573154 TTTTCTGTGG
22573164 TATATATATTC
1 TATATATATTC
22573175 TATATATATTC
1 TATATATATTC
* *
22573186 T-TAATTTGTTC
1 TAT-ATATATTC
22573197 TATATATAT
1 TATATATAT
22573206 GTTCTATTAT
Statistics
Matches: 25, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
10 1 0.04
11 23 0.92
12 1 0.04
ACGTcount: A:0.33, C:0.07, G:0.02, T:0.57
Consensus pattern (11 bp):
TATATATATTC
Found at i:22573210 original size:13 final size:13
Alignment explanation
Indices: 22573164--22573212 Score: 52
Period size: 13 Copynumber: 4.1 Consensus size: 13
22573154 TTTTCTGTGG
*
22573164 TATATATATTCTA
1 TATATATGTTCTA
22573177 TATATA--TTCT-
1 TATATATGTTCTA
*
22573187 TA-ATTTGTTCTA
1 TATATATGTTCTA
22573199 TATATATGTTCTA
1 TATATATGTTCTA
22573212 T
1 T
22573213 TATTTTATAC
Statistics
Matches: 30, Mismatches: 2, Indels: 8
0.75 0.05 0.20
Matches are distributed among these distances:
9 2 0.07
10 2 0.07
11 8 0.27
12 2 0.07
13 16 0.53
ACGTcount: A:0.31, C:0.08, G:0.04, T:0.57
Consensus pattern (13 bp):
TATATATGTTCTA
Found at i:22573336 original size:9 final size:10
Alignment explanation
Indices: 22573322--22573347 Score: 52
Period size: 10 Copynumber: 2.6 Consensus size: 10
22573312 CACATATACA
22573322 TTTTTTTATT
1 TTTTTTTATT
22573332 TTTTTTTATT
1 TTTTTTTATT
22573342 TTTTTT
1 TTTTTT
22573348 CACAATCTTC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 16 1.00
ACGTcount: A:0.08, C:0.00, G:0.00, T:0.92
Consensus pattern (10 bp):
TTTTTTTATT
Found at i:22579971 original size:30 final size:30
Alignment explanation
Indices: 22579930--22579990 Score: 113
Period size: 30 Copynumber: 2.0 Consensus size: 30
22579920 CAACAGATTG
*
22579930 AATCGTTAGTATTATTAGATTATTTTATAA
1 AATCGTCAGTATTATTAGATTATTTTATAA
22579960 AATCGTCAGTATTATTAGATTATTTTATAA
1 AATCGTCAGTATTATTAGATTATTTTATAA
22579990 A
1 A
22579991 GTATTACTGT
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.38, C:0.05, G:0.10, T:0.48
Consensus pattern (30 bp):
AATCGTCAGTATTATTAGATTATTTTATAA
Found at i:22593174 original size:24 final size:25
Alignment explanation
Indices: 22593147--22593215 Score: 97
Period size: 24 Copynumber: 2.8 Consensus size: 25
22593137 GACCCATATT
*
22593147 AAATATATATTTAATATATATA-AA
1 AAATATATATTTAATATATAAATAA
* *
22593171 AAATATATATTTGAT-TAAAAATAA
1 AAATATATATTTAATATATAAATAA
22593195 AAATATATATTTAATATATAA
1 AAATATATATTTAATATATAA
22593216 TTCGGGCCGG
Statistics
Matches: 38, Mismatches: 5, Indels: 3
0.83 0.11 0.07
Matches are distributed among these distances:
23 4 0.11
24 30 0.79
25 4 0.11
ACGTcount: A:0.58, C:0.00, G:0.01, T:0.41
Consensus pattern (25 bp):
AAATATATATTTAATATATAAATAA
Found at i:22596564 original size:23 final size:25
Alignment explanation
Indices: 22596524--22596569 Score: 60
Period size: 23 Copynumber: 1.9 Consensus size: 25
22596514 CAATTCTTAA
*
22596524 AAAAACTGTAAAATAATCGTTAACT
1 AAAAACTGTAAAATAATCATTAACT
*
22596549 AAAAATTGT-AAA-AATCATTAA
1 AAAAACTGTAAAATAATCATTAA
22596570 AAAACTGCAG
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 8 0.42
24 3 0.16
25 8 0.42
ACGTcount: A:0.57, C:0.09, G:0.07, T:0.28
Consensus pattern (25 bp):
AAAAACTGTAAAATAATCATTAACT
Found at i:22606661 original size:19 final size:22
Alignment explanation
Indices: 22606637--22606677 Score: 61
Period size: 19 Copynumber: 2.0 Consensus size: 22
22606627 TTACTCACAA
22606637 TTTAATAT-GTA-A-ATTTTAT
1 TTTAATATCGTACATATTTTAT
22606656 TTTAATATCGTACATATTTTAT
1 TTTAATATCGTACATATTTTAT
22606678 GTGTTATTGT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 8 0.42
20 3 0.16
21 1 0.05
22 7 0.37
ACGTcount: A:0.34, C:0.05, G:0.05, T:0.56
Consensus pattern (22 bp):
TTTAATATCGTACATATTTTAT
Found at i:22608531 original size:17 final size:17
Alignment explanation
Indices: 22608509--22608542 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
22608499 ATCCACTAAT
*
22608509 CCACTACCACCAACAAC
1 CCACTACCAACAACAAC
22608526 CCACTACCAACAACAAC
1 CCACTACCAACAACAAC
22608543 AATCCACTAC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.44, C:0.50, G:0.00, T:0.06
Consensus pattern (17 bp):
CCACTACCAACAACAAC
Found at i:22611530 original size:17 final size:17
Alignment explanation
Indices: 22611508--22611541 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
22611498 ATCCACTAAT
*
22611508 CCACTACCACCAACAAC
1 CCACTACCAACAACAAC
22611525 CCACTACCAACAACAAC
1 CCACTACCAACAACAAC
22611542 AATCCACTAC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.44, C:0.50, G:0.00, T:0.06
Consensus pattern (17 bp):
CCACTACCAACAACAAC
Found at i:22617705 original size:89 final size:89
Alignment explanation
Indices: 22617588--22617759 Score: 265
Period size: 89 Copynumber: 1.9 Consensus size: 89
22617578 ACTTCTTAAA
* * * * *
22617588 AAAAAAGCAATTAAGCCTTACGCTTTTTTTTGCACTTATTTGGGTACTTGAACTTTTAAAATGTA
1 AAAAAAGCAATTAAGCCCTACGCTTTTTTTTGCACTCAATTGGGTACTTGAACTTTCAAAATGCA
*
22617653 TAAAAAATACCCTCAAACCTTTTC
66 TAAAAAAGACCCTCAAACCTTTTC
*
22617677 AAAAAAGCAATTAAGCCCCTAC-TTTTTTTTTGCACTCAATTGGGTACTTGAACTTTCAAAATGC
1 AAAAAAGCAATTAAG-CCCTACGCTTTTTTTTGCACTCAATTGGGTACTTGAACTTTCAAAATGC
22617741 ATAAAAAAGACCCTCAAAC
65 ATAAAAAAGACCCTCAAAC
22617760 TTAAAAAAAC
Statistics
Matches: 75, Mismatches: 7, Indels: 2
0.89 0.08 0.02
Matches are distributed among these distances:
89 70 0.93
90 5 0.07
ACGTcount: A:0.37, C:0.20, G:0.10, T:0.33
Consensus pattern (89 bp):
AAAAAAGCAATTAAGCCCTACGCTTTTTTTTGCACTCAATTGGGTACTTGAACTTTCAAAATGCA
TAAAAAAGACCCTCAAACCTTTTC
Found at i:22617847 original size:10 final size:10
Alignment explanation
Indices: 22617834--22617903 Score: 74
Period size: 10 Copynumber: 7.3 Consensus size: 10
22617824 AAAAATTAGA
22617834 AAAAATTTAT
1 AAAAATTTAT
22617844 AAAAATTTAT
1 AAAAATTTAT
*
22617854 -AAAACTTAT
1 AAAAATTTAT
*
22617863 -AAAATATAT
1 AAAAATTTAT
* *
22617872 AGAAATATA-
1 AAAAATTTAT
22617881 AAAAATTTAT
1 AAAAATTTAT
*
22617891 AAAATTTTAT
1 AAAAATTTAT
22617901 AAA
1 AAA
22617904 GTTGTAAGAA
Statistics
Matches: 51, Mismatches: 7, Indels: 4
0.82 0.11 0.06
Matches are distributed among these distances:
9 22 0.43
10 29 0.57
ACGTcount: A:0.61, C:0.01, G:0.01, T:0.36
Consensus pattern (10 bp):
AAAAATTTAT
Found at i:22617877 original size:28 final size:28
Alignment explanation
Indices: 22617835--22617895 Score: 77
Period size: 28 Copynumber: 2.2 Consensus size: 28
22617825 AAAATTAGAA
* * *
22617835 AAAATTTATAAAAATTTATAAAACTTAT
1 AAAATATATAAAAATATAAAAAACTTAT
* *
22617863 AAAATATATAGAAATATAAAAAATTTAT
1 AAAATATATAAAAATATAAAAAACTTAT
22617891 AAAAT
1 AAAAT
22617896 TTTATAAAGT
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.62, C:0.02, G:0.02, T:0.34
Consensus pattern (28 bp):
AAAATATATAAAAATATAAAAAACTTAT
Found at i:22617896 original size:9 final size:9
Alignment explanation
Indices: 22617835--22617903 Score: 75
Period size: 9 Copynumber: 7.3 Consensus size: 9
22617825 AAAATTAGAA
22617835 AAAATTTAT
1 AAAATTTAT
22617844 AAAAATTTAT
1 -AAAATTTAT
*
22617854 AAAACTTAT
1 AAAATTTAT
*
22617863 AAAATATAT
1 AAAATTTAT
* *
22617872 AGAAATATAA
1 A-AAATTTAT
22617882 AAAATTTAT
1 AAAATTTAT
22617891 AAAATTTTAT
1 AAAA-TTTAT
22617901 AAA
1 AAA
22617904 GTTGTAAGAA
Statistics
Matches: 51, Mismatches: 6, Indels: 4
0.84 0.10 0.07
Matches are distributed among these distances:
9 26 0.51
10 25 0.49
ACGTcount: A:0.61, C:0.01, G:0.01, T:0.36
Consensus pattern (9 bp):
AAAATTTAT
Found at i:22618175 original size:20 final size:21
Alignment explanation
Indices: 22618139--22618178 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 21
22618129 TTAAAGGGAC
22618139 TTTTTGATGCATTTTATAAAG
1 TTTTTGATGCATTTTATAAAG
22618160 TTTTT-ATG-ATTATTATAAA
1 TTTTTGATGCATT-TTATAAA
22618179 AATTTAAAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 3 0.17
20 10 0.56
21 5 0.28
ACGTcount: A:0.33, C:0.03, G:0.10, T:0.55
Consensus pattern (21 bp):
TTTTTGATGCATTTTATAAAG
Found at i:22618280 original size:28 final size:28
Alignment explanation
Indices: 22618225--22618289 Score: 73
Period size: 28 Copynumber: 2.4 Consensus size: 28
22618215 AAAATTACTA
* *
22618225 ATTTTTAATAAATTTTATATTTTTTTAT
1 ATTTTTAATAAAATTTATATTTTATTAT
*
22618253 ATTTTTATTAAAATTTAT-TATTTA-T-T
1 ATTTTTAATAAAATTTATAT-TTTATTAT
22618279 ATTTTTAATAA
1 ATTTTTAATAA
22618290 GAGCAATGGC
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
26 11 0.34
27 2 0.06
28 19 0.59
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (28 bp):
ATTTTTAATAAAATTTATATTTTATTAT
Found at i:22627652 original size:121 final size:121
Alignment explanation
Indices: 22627438--22627666 Score: 368
Period size: 121 Copynumber: 1.9 Consensus size: 121
22627428 TGAACAAATT
*
22627438 AAAGATGCATCACTTAAATCAATCATCAATAATGACATCTTAGCATTGCTATTGCCAAATTATTT
1 AAAGATGCATCACCTAAATCAATCATCAATAATGACATCTTAGCATTGCTATTGCCAAATTATTT
* *
22627503 TAACGACAAATTCCGATCAACCAATTGGACACTACCAAAGACCCAAAGAACTAACC
66 TAACGACAAATTACAATCAACCAATTGGACACTACCAAAGACCCAAAGAACTAACC
* * * * *
22627559 AAAGATGCATCACCTAGATCAATCATCAATACTGGCATCTTAGCATTGCTATTGTCAGATTATTT
1 AAAGATGCATCACCTAAATCAATCATCAATAATGACATCTTAGCATTGCTATTGCCAAATTATTT
* *
22627624 TGACGTCAAATTACAATCAACCAATTGGACACTACCAAAGACC
66 TAACGACAAATTACAATCAACCAATTGGACACTACCAAAGACC
22627667 GACAAAAGAC
Statistics
Matches: 98, Mismatches: 10, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
121 98 1.00
ACGTcount: A:0.39, C:0.24, G:0.11, T:0.26
Consensus pattern (121 bp):
AAAGATGCATCACCTAAATCAATCATCAATAATGACATCTTAGCATTGCTATTGCCAAATTATTT
TAACGACAAATTACAATCAACCAATTGGACACTACCAAAGACCCAAAGAACTAACC
Done.