Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: CP032245.1 Gossypioides kirkii chromosome KI_2_4
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: 41238926
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 6100 characters in sequence are not A, C, G, or T
File 75 of 132
Found at i:22124406 original size:4 final size:4
Alignment explanation
Indices: 22124389--22124971 Score: 743
Period size: 4 Copynumber: 145.5 Consensus size: 4
22124379 CAAAACACAA
* *
22124389 GTAT GTAT GCAT GTAT GTAT GTAT GTAT GCAT GTAT GTAT GTAT GTAT
1 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
* * *
22124437 GTAT GTAT GTAT GTAT GTAT GCAT GCAT GTAT GTAT GCAT GTAT GTAT
1 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
* * * * *
22124485 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GGAT GGAT GGAT GGAT GGAT
1 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
* * * * * * * * *
22124533 GGAT GGAT GGAT GGAT GGAT GGAT GGAT GTAT GTAT GTAT GGAT GGAT
1 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
* * * *
22124581 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GCAT GCAT GAAT GTAT GAAT
1 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
* * * **
22124629 GCAT GTAT GCAT GCAT GTAT GCTAT GTAT GTAT GTAT GTAT ACAT GTAT
1 GTAT GTAT GTAT GTAT GTAT G-TAT GTAT GTAT GTAT GTAT GTAT GTAT
* * *
22124678 GTAT GTAT GTAT GTAT GTAT GTAT GCAT GTAT GCAT GTAT GCAT GTAT
1 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
* *
22124726 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GCAT GTAT GTAT GCAT
1 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
* * *
22124774 GTAT GTAT GTAT GCAT GTAT GTAT GTAT GCAT GTAT GAAT GTAT GTAT
1 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
* * * * *
22124822 GTAT GTAT GTAT GCAT GTAT GAAT GTAT GCAT GTAT GTAT GCAT GCAT
1 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
* * *
22124870 GCAT GTAT GCAT GTAT GTAT GTAT GTAT GCAT GTAT GTAT GTAT GTAT
1 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
* *
22124918 GTAT GTAT GTAT GTAT GCAT GTAT GTAT GCAT GTAT GTAT GTAT GTAT
1 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
22124966 GTAT GT
1 GTAT GT
22124972 GTATTTATTT
Statistics
Matches: 522, Mismatches: 56, Indels: 2
0.90 0.10 0.00
Matches are distributed among these distances:
4 518 0.99
5 4 0.01
ACGTcount: A:0.26, C:0.05, G:0.27, T:0.42
Consensus pattern (4 bp):
GTAT
Found at i:22133942 original size:15 final size:15
Alignment explanation
Indices: 22133912--22133945 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
22133902 AAATATTATA
22133912 AAATTTAAAATAAAT
1 AAATTTAAAATAAAT
22133927 AAATTATAAAAT-AAT
1 AAATT-TAAAATAAAT
22133942 AAAT
1 AAAT
22133946 ACAATATTGA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
15 12 0.67
16 6 0.33
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (15 bp):
AAATTTAAAATAAAT
Found at i:22133945 original size:23 final size:24
Alignment explanation
Indices: 22133906--22133951 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 24
22133896 ACTTAAAAAT
*
22133906 ATTATAAAATTTAAAATA-AATAA
1 ATTATAAAATATAAAATACAATAA
22133929 ATTATAAAATA-ATAAATACAATA
1 ATTATAAAATATA-AAATACAATA
22133952 TTGAGCTCAT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
22 1 0.05
23 15 0.75
24 4 0.20
ACGTcount: A:0.65, C:0.02, G:0.00, T:0.33
Consensus pattern (24 bp):
ATTATAAAATATAAAATACAATAA
Found at i:22137073 original size:19 final size:18
Alignment explanation
Indices: 22137016--22137067 Score: 68
Period size: 18 Copynumber: 2.9 Consensus size: 18
22137006 TTTAGTAATG
**
22137016 TTTTTATTTTTAAAATAT
1 TTTTTATTTAAAAAATAT
* *
22137034 TTTTTATTTCAAAAGTAT
1 TTTTTATTTAAAAAATAT
22137052 TTTTTATTTAAAAAAT
1 TTTTTATTTAAAAAAT
22137068 GCTTTTGAAA
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
18 29 1.00
ACGTcount: A:0.37, C:0.02, G:0.02, T:0.60
Consensus pattern (18 bp):
TTTTTATTTAAAAAATAT
Found at i:22140215 original size:24 final size:25
Alignment explanation
Indices: 22140169--22140215 Score: 60
Period size: 24 Copynumber: 1.9 Consensus size: 25
22140159 CAAGGAGATG
* * *
22140169 AAAGGTTTAAGGAATATGGAAGGTT
1 AAAGGTTTAAAGAAGATGAAAGGTT
22140194 AAAGG-TTAAAGAAGATGAAAGG
1 AAAGGTTTAAAGAAGATGAAAGG
22140216 GGGAAGGTGG
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
24 14 0.74
25 5 0.26
ACGTcount: A:0.47, C:0.00, G:0.32, T:0.21
Consensus pattern (25 bp):
AAAGGTTTAAAGAAGATGAAAGGTT
Found at i:22146513 original size:24 final size:25
Alignment explanation
Indices: 22146471--22146518 Score: 71
Period size: 24 Copynumber: 2.0 Consensus size: 25
22146461 CAAGGAGATG
* *
22146471 AAAGGTTTAAGGAATATGAAAGGTT
1 AAAGGTTTAAAGAAGATGAAAGGTT
22146496 AAAGG-TTAAAGAAGATGAAAGGT
1 AAAGGTTTAAAGAAGATGAAAGGT
22146519 GGAAGGTGGA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
24 16 0.76
25 5 0.24
ACGTcount: A:0.48, C:0.00, G:0.29, T:0.23
Consensus pattern (25 bp):
AAAGGTTTAAAGAAGATGAAAGGTT
Found at i:22146524 original size:24 final size:24
Alignment explanation
Indices: 22146469--22146525 Score: 69
Period size: 24 Copynumber: 2.3 Consensus size: 24
22146459 TACAAGGAGA
* *
22146469 TGAAAGGTTTAAGGAATATGAAAGG
1 TGAAAGG-TTAAAGAAGATGAAAGG
*
22146494 TTAAAGGTTAAAGAAGATGAAAGG
1 TGAAAGGTTAAAGAAGATGAAAGG
*
22146518 TGGAAGGT
1 TGAAAGGT
22146526 GGAAGGTCAA
Statistics
Matches: 27, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
24 21 0.78
25 6 0.22
ACGTcount: A:0.44, C:0.00, G:0.33, T:0.23
Consensus pattern (24 bp):
TGAAAGGTTAAAGAAGATGAAAGG
Found at i:22146532 original size:31 final size:31
Alignment explanation
Indices: 22146487--22146556 Score: 77
Period size: 31 Copynumber: 2.3 Consensus size: 31
22146477 TTAAGGAATA
** * *
22146487 TGAAAGGTTAAAGGTTAAAGAAGATGAAAGG
1 TGAAAGGTGGAAGGTCAAAGAAGATAAAAGG
* * *
22146518 TGGAAGGTGGAAGGTCAAGGGAGATAAAAGG
1 TGAAAGGTGGAAGGTCAAAGAAGATAAAAGG
22146549 TGAAAGGT
1 TGAAAGGT
22146557 TGAACATCCA
Statistics
Matches: 31, Mismatches: 8, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.43, C:0.01, G:0.39, T:0.17
Consensus pattern (31 bp):
TGAAAGGTGGAAGGTCAAAGAAGATAAAAGG
Found at i:22150342 original size:14 final size:14
Alignment explanation
Indices: 22150323--22150350 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
22150313 AGTGATCACA
22150323 TTAGCCATGAGAAT
1 TTAGCCATGAGAAT
22150337 TTAGCCATGAGAAT
1 TTAGCCATGAGAAT
22150351 GGCTAAGTAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.36, C:0.14, G:0.21, T:0.29
Consensus pattern (14 bp):
TTAGCCATGAGAAT
Found at i:22151212 original size:15 final size:16
Alignment explanation
Indices: 22151194--22151228 Score: 54
Period size: 15 Copynumber: 2.2 Consensus size: 16
22151184 CTAAAGTATT
22151194 CTAAGATAAATT-AAA
1 CTAAGATAAATTAAAA
*
22151209 CTAAGTTAAATTAAAA
1 CTAAGATAAATTAAAA
22151225 CTAA
1 CTAA
22151229 ATTAAATTCC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 11 0.61
16 7 0.39
ACGTcount: A:0.57, C:0.09, G:0.06, T:0.29
Consensus pattern (16 bp):
CTAAGATAAATTAAAA
Found at i:22151227 original size:16 final size:15
Alignment explanation
Indices: 22151194--22151236 Score: 59
Period size: 16 Copynumber: 2.8 Consensus size: 15
22151184 CTAAAGTATT
*
22151194 CTAAGATAAATTAAA
1 CTAAGTTAAATTAAA
22151209 CTAAGTTAAATTAAAA
1 CTAAGTTAAATT-AAA
*
22151225 CTAAATTAAATT
1 CTAAGTTAAATT
22151237 CCTATGCACG
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
15 11 0.44
16 14 0.56
ACGTcount: A:0.56, C:0.07, G:0.05, T:0.33
Consensus pattern (15 bp):
CTAAGTTAAATTAAA
Found at i:22151857 original size:17 final size:18
Alignment explanation
Indices: 22151837--22151871 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
22151827 CCTATAACAG
*
22151837 TATAAACATGA-ATTAAA
1 TATAAACAAGATATTAAA
22151854 TATAAACAAGATATTAAA
1 TATAAACAAGATATTAAA
22151872 CACAATCAAC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 10 0.62
18 6 0.38
ACGTcount: A:0.60, C:0.06, G:0.06, T:0.29
Consensus pattern (18 bp):
TATAAACAAGATATTAAA
Found at i:22154795 original size:21 final size:18
Alignment explanation
Indices: 22154747--22154790 Score: 70
Period size: 18 Copynumber: 2.4 Consensus size: 18
22154737 CTCCACAGGA
*
22154747 TCTTCCTCAGGATCCTCT
1 TCTTCTTCAGGATCCTCT
*
22154765 TCTTCTTCAGGATCTTCT
1 TCTTCTTCAGGATCCTCT
22154783 TCTTCTTC
1 TCTTCTTC
22154791 TTCAGCTTGC
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.09, C:0.34, G:0.09, T:0.48
Consensus pattern (18 bp):
TCTTCTTCAGGATCCTCT
Found at i:22156457 original size:5 final size:6
Alignment explanation
Indices: 22156442--22156466 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
22156432 CAAATTTTTG
22156442 AAAAAT AAAAAT AAAAAT AAAAAT A
1 AAAAAT AAAAAT AAAAAT AAAAAT A
22156467 TATAAAAATG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.84, C:0.00, G:0.00, T:0.16
Consensus pattern (6 bp):
AAAAAT
Found at i:22160723 original size:24 final size:22
Alignment explanation
Indices: 22160696--22160751 Score: 60
Period size: 23 Copynumber: 2.5 Consensus size: 22
22160686 TATTAATGAA
*
22160696 ATAATTTATGTTTAATTATTAAAT
1 ATAATTTATG-TCAA-TATTAAAT
*
22160720 ATAATTTTATGTCAATATTTAAT
1 ATAA-TTTATGTCAATATTAAAT
22160743 -TAATTTATG
1 ATAATTTATG
22160752 CATGACCCAC
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
21 6 0.21
22 3 0.10
23 7 0.24
24 7 0.24
25 6 0.21
ACGTcount: A:0.39, C:0.02, G:0.05, T:0.54
Consensus pattern (22 bp):
ATAATTTATGTCAATATTAAAT
Found at i:22183591 original size:13 final size:13
Alignment explanation
Indices: 22183565--22183598 Score: 50
Period size: 13 Copynumber: 2.5 Consensus size: 13
22183555 CTCGTTTCAC
*
22183565 AACTGAAAATTAAA
1 AACT-AAAACTAAA
22183579 AACTAAAACTAAA
1 AACTAAAACTAAA
22183592 AACTAAA
1 AACTAAA
22183599 GTCTAAACAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 15 0.79
14 4 0.21
ACGTcount: A:0.68, C:0.12, G:0.03, T:0.18
Consensus pattern (13 bp):
AACTAAAACTAAA
Found at i:22196748 original size:58 final size:58
Alignment explanation
Indices: 22196678--22196794 Score: 234
Period size: 58 Copynumber: 2.0 Consensus size: 58
22196668 CTGTAACAAA
22196678 ACTATATTACAACCTGACCTGTATTTTTGCAGAAGCCCTAAAACACACACCGAATGGG
1 ACTATATTACAACCTGACCTGTATTTTTGCAGAAGCCCTAAAACACACACCGAATGGG
22196736 ACTATATTACAACCTGACCTGTATTTTTGCAGAAGCCCTAAAACACACACCGAATGGG
1 ACTATATTACAACCTGACCTGTATTTTTGCAGAAGCCCTAAAACACACACCGAATGGG
22196794 A
1 A
22196795 GTACGGTTGG
Statistics
Matches: 59, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
58 59 1.00
ACGTcount: A:0.35, C:0.26, G:0.15, T:0.24
Consensus pattern (58 bp):
ACTATATTACAACCTGACCTGTATTTTTGCAGAAGCCCTAAAACACACACCGAATGGG
Found at i:22200689 original size:3 final size:3
Alignment explanation
Indices: 22200681--22200711 Score: 62
Period size: 3 Copynumber: 10.3 Consensus size: 3
22200671 TTGTATCAGA
22200681 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG A
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG A
22200712 GCTAGTGGAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.68, C:0.00, G:0.32, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:22207540 original size:52 final size:52
Alignment explanation
Indices: 22207458--22207693 Score: 382
Period size: 52 Copynumber: 4.5 Consensus size: 52
22207448 ATGCAAAAGA
* * *
22207458 TCCGATGACTATGTGTCATCGTGAGCATATGAATCCTTCACAGATTATGAGG
1 TCCGATGACTATGTGTCATCGTGAGTATATGAATCCTTTACGGATTATGAGG
*
22207510 TCCGATGACTATGTGTCATCGTGAGTATATGAATCCTTTACGGATTATAAGG
1 TCCGATGACTATGTGTCATCGTGAGTATATGAATCCTTTACGGATTATGAGG
*
22207562 TCCGATGACTATGTGTCATCGTGAGTATATGAATCCTTTACGGATTATGGGG
1 TCCGATGACTATGTGTCATCGTGAGTATATGAATCCTTTACGGATTATGAGG
* * * * *
22207614 TCCGATGTCTATGTGTCATCGTGAGTGTAAGAATCCTTTTCGGGTTATGAGG
1 TCCGATGACTATGTGTCATCGTGAGTATATGAATCCTTTACGGATTATGAGG
22207666 TCCGATGACTATGTGTCATCGTGAGTAT
1 TCCGATGACTATGTGTCATCGTGAGTAT
22207694 CAAATGAGAA
Statistics
Matches: 170, Mismatches: 14, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
52 170 1.00
ACGTcount: A:0.24, C:0.17, G:0.25, T:0.34
Consensus pattern (52 bp):
TCCGATGACTATGTGTCATCGTGAGTATATGAATCCTTTACGGATTATGAGG
Found at i:22211734 original size:15 final size:16
Alignment explanation
Indices: 22211706--22211735 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
22211696 TTTTAGTTCC
22211706 TTTTTATTTCTTGTTA
1 TTTTTATTTCTTGTTA
22211722 TTTTTATTT-TTGTT
1 TTTTTATTTCTTGTT
22211736 CTAAGTGGAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.10, C:0.03, G:0.07, T:0.80
Consensus pattern (16 bp):
TTTTTATTTCTTGTTA
Found at i:22219680 original size:52 final size:52
Alignment explanation
Indices: 22219602--22219940 Score: 475
Period size: 52 Copynumber: 6.6 Consensus size: 52
22219592 AAATACAAAA
*
22219602 AGGTCCGATGACTATGTGTCATCGTGAGTATATGAATCCTTTATGGATTATG
1 AGGTCCGATGACTATGTGTCATCGTGAGTATATGAATCCTTTACGGATTATG
* * * * * *
22219654 AGGTCCGATGACTATGTGCCATCGTGATTATAAGAGTTCTTTATGGATTATG
1 AGGTCCGATGACTATGTGTCATCGTGAGTATATGAATCCTTTACGGATTATG
* *
22219706 AGGTCCAATGACTATGTGTCATTGTGAGTATATGAATCCTTTACGGATTATG
1 AGGTCCGATGACTATGTGTCATCGTGAGTATATGAATCCTTTACGGATTATG
* * * * * *
22219758 AGATCCAATGACTATGTGTCGTTGTGAGTATATGAATCCTATACGGATTATA
1 AGGTCCGATGACTATGTGTCATCGTGAGTATATGAATCCTTTACGGATTATG
22219810 AGGTCCGATGACTA--TGTCATCGTGAGTATATGAATCCTTTACGGATTATG
1 AGGTCCGATGACTATGTGTCATCGTGAGTATATGAATCCTTTACGGATTATG
* * * * * *
22219860 AGGTTCGATGACTATGTGTCATCATGAGTACATGAATCCTTTACGAACTAAG
1 AGGTCCGATGACTATGTGTCATCGTGAGTATATGAATCCTTTACGGATTATG
22219912 AGGTCCGATGACTATGTGTCATCGTGAGT
1 AGGTCCGATGACTATGTGTCATCGTGAGT
22219941 GTTAAATAAA
Statistics
Matches: 254, Mismatches: 31, Indels: 4
0.88 0.11 0.01
Matches are distributed among these distances:
50 45 0.18
52 209 0.82
ACGTcount: A:0.27, C:0.15, G:0.24, T:0.35
Consensus pattern (52 bp):
AGGTCCGATGACTATGTGTCATCGTGAGTATATGAATCCTTTACGGATTATG
Found at i:22220711 original size:21 final size:21
Alignment explanation
Indices: 22220687--22220743 Score: 78
Period size: 21 Copynumber: 2.7 Consensus size: 21
22220677 TAGAAGTAAG
* *
22220687 ACTTGTTTTAGTAGAAGAGTC
1 ACTTGTATTAGTAGAACAGTC
* *
22220708 ACTTGTATTGGTAGAACTGTC
1 ACTTGTATTAGTAGAACAGTC
22220729 ACTTGTATTAGTAGA
1 ACTTGTATTAGTAGA
22220744 GGACTGCACT
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 31 1.00
ACGTcount: A:0.28, C:0.11, G:0.23, T:0.39
Consensus pattern (21 bp):
ACTTGTATTAGTAGAACAGTC
Found at i:22233628 original size:11 final size:11
Alignment explanation
Indices: 22233612--22233636 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
22233602 CTATGTTTTC
22233612 TTTTTTTTGTT
1 TTTTTTTTGTT
22233623 TTTTTTTTGTT
1 TTTTTTTTGTT
22233634 TTT
1 TTT
22233637 GTTTGCTTGA
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:0.00, C:0.00, G:0.08, T:0.92
Consensus pattern (11 bp):
TTTTTTTTGTT
Found at i:22235469 original size:25 final size:26
Alignment explanation
Indices: 22235441--22235497 Score: 91
Period size: 25 Copynumber: 2.3 Consensus size: 26
22235431 ACAATCGTAT
22235441 TCAAGTAAT-AAAGTGACAAGTAATG
1 TCAAGTAATCAAAGTGACAAGTAATG
*
22235466 TCAAGT-ATCGAAGTGACAAGTAATG
1 TCAAGTAATCAAAGTGACAAGTAATG
22235491 TCAAGTA
1 TCAAGTA
22235498 TCGTACCCAT
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
24 2 0.07
25 27 0.93
ACGTcount: A:0.44, C:0.11, G:0.21, T:0.25
Consensus pattern (26 bp):
TCAAGTAATCAAAGTGACAAGTAATG
Found at i:22235498 original size:25 final size:25
Alignment explanation
Indices: 22235451--22235500 Score: 100
Period size: 25 Copynumber: 2.0 Consensus size: 25
22235441 TCAAGTAATA
22235451 AAGTGACAAGTAATGTCAAGTATCG
1 AAGTGACAAGTAATGTCAAGTATCG
22235476 AAGTGACAAGTAATGTCAAGTATCG
1 AAGTGACAAGTAATGTCAAGTATCG
22235501 TACCCATAGG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.40, C:0.12, G:0.24, T:0.24
Consensus pattern (25 bp):
AAGTGACAAGTAATGTCAAGTATCG
Found at i:22244835 original size:20 final size:20
Alignment explanation
Indices: 22244810--22244855 Score: 58
Period size: 20 Copynumber: 2.3 Consensus size: 20
22244800 ATTTCGTATT
*
22244810 GATACTGATT-TAAAATTATC
1 GATACT-ATTCTAAAAATATC
*
22244830 GATACTTTTCTAAAAATATC
1 GATACTATTCTAAAAATATC
22244850 GATACT
1 GATACT
22244856 CGCATAAAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
19 2 0.09
20 21 0.91
ACGTcount: A:0.39, C:0.13, G:0.09, T:0.39
Consensus pattern (20 bp):
GATACTATTCTAAAAATATC
Found at i:22247852 original size:18 final size:18
Alignment explanation
Indices: 22247831--22247865 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
22247821 ATCTTCCTCA
22247831 GGATATTCTTCTTCTTCG
1 GGATATTCTTCTTCTTCG
*
22247849 GGATCTTCTTCTTCTTC
1 GGATATTCTTCTTCTTC
22247866 TTCAACTTGC
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:0.09, C:0.26, G:0.14, T:0.51
Consensus pattern (18 bp):
GGATATTCTTCTTCTTCG
Found at i:22259098 original size:227 final size:227
Alignment explanation
Indices: 22258710--22259133 Score: 521
Period size: 227 Copynumber: 1.9 Consensus size: 227
22258700 TTTGGTCCTT
*
22258710 CTAATTAATCATCTCTACTTTTACACCTATTACAATTTAATCCTTTCTACTCAATTAACTATCTA
1 CTAATTAATCAACTCTACTTTTACACCTATTACAATTTAATCCTTTCTACTCAATTAACTATCTA
* * ** *
22258775 AACATTAAAATTTCATTACCAACTTTTAATACGATGCTAACGAAGTTATAAATATTTAAATAGAT
66 AACATTAAAACTTCATTACCAACTTTTAATACGATGCTAACGAAATTATAAATATCAAAATAAAT
* * * ** *
22258840 AAATTAACAACTCGACTCGTCGGAGTTGTGATCCTAAAATCACTATTTTTGACACCATTAAAAAT
131 AAATTAACAACTCGACTCGTCAGAATTGTGATCCCAAAATCACTATTTCCGACACCACTAAAAAT
22258905 CGAGCTGTCACATATTTGTTCATTTGATCCCA
196 CGAGCTGTCACATATTTGTTCATTTGATCCCA
* ** * * * * *
22258937 CTAATTTATCAACTCTACTTTTGTACCTTTTACGATTTAGTCCTTTCTACTCAATTCATTATCTA
1 CTAATTAATCAACTCTACTTTTACACCTATTACAATTTAATCCTTTCTACTCAATTAACTATCTA
* * ** *
22259002 GACATTAAAACTTC-CTATCCGAA-TTTTAATGTGATGCTAA-TAACATTATAAATATCAAAATA
66 AACATTAAAACTTCATTA-CC-AACTTTTAATACGATGCTAACGAA-ATTATAAATATCAAAATA
**** * *
22259064 AATAAATTTTTGACTCGACTCGTCAGAATTGTGATCCCGAAATCACTGTTTCCGACACCACTAAA
128 AATAAATTAACAACTCGACTCGTCAGAATTGTGATCCCAAAATCACTATTTCCGACACCACTAAA
22259129 AATCG
193 AATCG
22259134 GGCTATTACA
Statistics
Matches: 163, Mismatches: 31, Indels: 6
0.81 0.16 0.03
Matches are distributed among these distances:
226 4 0.02
227 157 0.96
228 2 0.01
ACGTcount: A:0.35, C:0.20, G:0.08, T:0.37
Consensus pattern (227 bp):
CTAATTAATCAACTCTACTTTTACACCTATTACAATTTAATCCTTTCTACTCAATTAACTATCTA
AACATTAAAACTTCATTACCAACTTTTAATACGATGCTAACGAAATTATAAATATCAAAATAAAT
AAATTAACAACTCGACTCGTCAGAATTGTGATCCCAAAATCACTATTTCCGACACCACTAAAAAT
CGAGCTGTCACATATTTGTTCATTTGATCCCA
Found at i:22262725 original size:52 final size:52
Alignment explanation
Indices: 22262663--22262766 Score: 208
Period size: 52 Copynumber: 2.0 Consensus size: 52
22262653 GAGTAAAAAG
22262663 GGGTTTCACATTCTACTCCTCTTTCACATTCGAAGTCATCAGGCAATTCCAC
1 GGGTTTCACATTCTACTCCTCTTTCACATTCGAAGTCATCAGGCAATTCCAC
22262715 GGGTTTCACATTCTACTCCTCTTTCACATTCGAAGTCATCAGGCAATTCCAC
1 GGGTTTCACATTCTACTCCTCTTTCACATTCGAAGTCATCAGGCAATTCCAC
22262767 ATGAAATGAT
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
52 52 1.00
ACGTcount: A:0.23, C:0.31, G:0.13, T:0.33
Consensus pattern (52 bp):
GGGTTTCACATTCTACTCCTCTTTCACATTCGAAGTCATCAGGCAATTCCAC
Found at i:22267249 original size:5 final size:5
Alignment explanation
Indices: 22267239--22267324 Score: 79
Period size: 5 Copynumber: 17.4 Consensus size: 5
22267229 GGTTGTTTGG
* *
22267239 AAGAA AAGAA AAG-A AACAA AAGAA ACGAA AA-AA AAGAA AAGAA AAGAA
1 AAGAA AAGAA AAGAA AAGAA AAGAA AAGAA AAGAA AAGAA AAGAA AAGAA
* * * *
22267287 ACGAA AA-ATA AAGAA ATGAA AATGAA ATGAA ATGAA AA
1 AAGAA AAGA-A AAGAA AAGAA AA-GAA AAGAA AAGAA AA
22267325 ATATCAAGTT
Statistics
Matches: 66, Mismatches: 10, Indels: 10
0.77 0.12 0.12
Matches are distributed among these distances:
4 8 0.12
5 53 0.80
6 5 0.08
ACGTcount: A:0.74, C:0.03, G:0.16, T:0.06
Consensus pattern (5 bp):
AAGAA
Found at i:22267261 original size:14 final size:14
Alignment explanation
Indices: 22267242--22267293 Score: 68
Period size: 14 Copynumber: 3.6 Consensus size: 14
22267232 TGTTTGGAAG
*
22267242 AAAAGAAAAGAAAC
1 AAAAGAAAAGAAAA
*
22267256 AAAAGAAACGAAAA
1 AAAAGAAAAGAAAA
22267270 AAAAGAAAAGAAAA
1 AAAAGAAAAGAAAA
*
22267284 GAAACGAAAA
1 -AAAAGAAAA
22267294 ATAAAGAAAT
Statistics
Matches: 33, Mismatches: 4, Indels: 1
0.87 0.11 0.03
Matches are distributed among these distances:
14 25 0.76
15 8 0.24
ACGTcount: A:0.79, C:0.06, G:0.15, T:0.00
Consensus pattern (14 bp):
AAAAGAAAAGAAAA
Found at i:22267283 original size:24 final size:24
Alignment explanation
Indices: 22267241--22267318 Score: 95
Period size: 24 Copynumber: 3.2 Consensus size: 24
22267231 TTGTTTGGAA
*
22267241 GAAAAGAAAAG-AAACAAAAGAAAC
1 GAAAA-AAAAGAAAAGAAAAGAAAC
22267265 GAAAAAAAAGAAAAGAAAAGAAAC
1 GAAAAAAAAGAAAAGAAAAGAAAC
* *
22267289 GAAAAATAAAGAAATGAAAATGAAAT
1 GAAAAA-AAAGAAAAGAAAA-GAAAC
22267315 GAAA
1 GAAA
22267319 TGAAAAATAT
Statistics
Matches: 48, Mismatches: 3, Indels: 4
0.87 0.05 0.07
Matches are distributed among these distances:
23 5 0.10
24 23 0.48
25 12 0.25
26 8 0.17
ACGTcount: A:0.74, C:0.04, G:0.17, T:0.05
Consensus pattern (24 bp):
GAAAAAAAAGAAAAGAAAAGAAAC
Found at i:22274354 original size:57 final size:58
Alignment explanation
Indices: 22274266--22274396 Score: 180
Period size: 58 Copynumber: 2.3 Consensus size: 58
22274256 TTTTTTAAAC
* * * *
22274266 TAAAAAA-TATTTTTTTTGGTGTTTGCAAGCCATGGTCGACA-TCCAAAAAATACAAA
1 TAAAAAATTACTTTTTTGGGTGTTTGCAAGCCATGATCGACACTCAAAAAAATACAAA
22274322 TAAAAAATTA-TTTTTTGGGT-TTCTGTCAAGCCATGATCGACACTCAAAAAAATACAAA
1 TAAAAAATTACTTTTTTGGGTGTT-TG-CAAGCCATGATCGACACTCAAAAAAATACAAA
22274380 TAAAAAATTACTTTTTT
1 TAAAAAATTACTTTTTT
22274397 AGTGTCTGCC
Statistics
Matches: 67, Mismatches: 3, Indels: 7
0.87 0.04 0.09
Matches are distributed among these distances:
55 2 0.03
56 18 0.27
57 17 0.25
58 24 0.36
59 6 0.09
ACGTcount: A:0.40, C:0.14, G:0.11, T:0.34
Consensus pattern (58 bp):
TAAAAAATTACTTTTTTGGGTGTTTGCAAGCCATGATCGACACTCAAAAAAATACAAA
Found at i:22279420 original size:86 final size:86
Alignment explanation
Indices: 22279289--22279509 Score: 209
Period size: 86 Copynumber: 2.5 Consensus size: 86
22279279 TAAGTTTTTG
* * * **
22279289 TTTTTTT-ACTTAATTAAGTACTTGAACTTTTAAAATGTTTTAAAAAGG-TTCTTAAACTTTTT-
1 TTTTTTTCACTCAATTAAATACTTGAAC-TTTCAAATGCATTAAAAAGGCTTC--AAACTTTTTC
*
22279351 AAAAAAAATAATTAAACCCCT-A-T
63 AAAAAAAA-AATTAAACCCATGATT
*
22279374 TTTTTTTCACTCAATTAAATACTTGAACTTTCCAAATGCATCAAAAAAGGCTTCAAACTTTTTCG
1 TTTTTTTCACTCAATTAAATACTTGAACTTT-CAAATGCAT-TAAAAAGGCTTCAAACTTTTTC-
* **
22279439 AAAAAAGAAATTAAACTTATGATT
63 AAAAAAAAAATTAAACCCATGATT
* * * *
22279463 TTTTTTTCCACTCAATTAGACAGTTGAACTGTCAAATGCATTAAAAA
1 TTTTTTT-CACTCAATTAAATACTTGAACTTTCAAATGCATTAAAAA
22279510 ATTAACAGTT
Statistics
Matches: 112, Mismatches: 15, Indels: 15
0.79 0.11 0.11
Matches are distributed among these distances:
85 10 0.09
86 33 0.29
87 16 0.14
88 16 0.14
89 17 0.15
90 20 0.18
ACGTcount: A:0.39, C:0.14, G:0.08, T:0.39
Consensus pattern (86 bp):
TTTTTTTCACTCAATTAAATACTTGAACTTTCAAATGCATTAAAAAGGCTTCAAACTTTTTCAAA
AAAAAAATTAAACCCATGATT
Found at i:22279641 original size:19 final size:19
Alignment explanation
Indices: 22279619--22279659 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
22279609 TACAAATCAA
22279619 TAAAAGTT-ATAAAAATTAT
1 TAAAAGTTAAT-AAAATTAT
*
22279638 TAAAATTTAATAAAATTAT
1 TAAAAGTTAATAAAATTAT
22279657 TAA
1 TAA
22279660 TAATTAGAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
19 18 0.90
20 2 0.10
ACGTcount: A:0.59, C:0.00, G:0.02, T:0.39
Consensus pattern (19 bp):
TAAAAGTTAATAAAATTAT
Found at i:22279650 original size:29 final size:29
Alignment explanation
Indices: 22279617--22279691 Score: 73
Period size: 29 Copynumber: 2.6 Consensus size: 29
22279607 ATTACAAATC
*
22279617 AATAAAAGTTATAAAAATTATTAAA-ATTT
1 AATAAAAGTTATAAAAATTA-GAAATATTT
* *
22279646 AATAAAA-TTATTAATAATTAGAAATTTTT
1 AATAAAAGTTA-TAAAAATTAGAAATATTT
* *
22279675 TATAAAAGTCATAAAAA
1 AATAAAAGTTATAAAAA
22279692 AATTATAAAA
Statistics
Matches: 37, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
28 6 0.16
29 29 0.78
30 2 0.05
ACGTcount: A:0.57, C:0.01, G:0.04, T:0.37
Consensus pattern (29 bp):
AATAAAAGTTATAAAAATTAGAAATATTT
Found at i:22279694 original size:41 final size:39
Alignment explanation
Indices: 22279649--22279739 Score: 96
Period size: 38 Copynumber: 2.3 Consensus size: 39
22279639 AAAATTTAAT
* * *
22279649 AAAATTATTAATAATTAGAAATTTTTTATAAAAGTCATAAA
1 AAAATTATTAAAAAAT-G-AATTTTTTATAAAAATCATAAA
* *
22279690 AAAATTA-TAAAAAATGTATTTTTTTTAAAAATCATAAA
1 AAAATTATTAAAAAATGAATTTTTTATAAAAATCATAAA
*
22279728 AATATTA-TAAAA
1 AAAATTATTAAAA
22279740 TAAAACAAAA
Statistics
Matches: 44, Mismatches: 6, Indels: 3
0.83 0.11 0.06
Matches are distributed among these distances:
38 30 0.68
39 1 0.02
40 6 0.14
41 7 0.16
ACGTcount: A:0.56, C:0.02, G:0.03, T:0.38
Consensus pattern (39 bp):
AAAATTATTAAAAAATGAATTTTTTATAAAAATCATAAA
Found at i:22279924 original size:19 final size:18
Alignment explanation
Indices: 22279894--22279944 Score: 57
Period size: 19 Copynumber: 2.7 Consensus size: 18
22279884 GAAAAATTAT
22279894 AAAATGTTTATTTTAATAC
1 AAAAT-TTTATTTTAATAC
**
22279913 ATAAATTTTATTTTTTTAC
1 A-AAATTTTATTTTAATAC
22279932 AAAATTTATATTT
1 AAAATTT-TATTT
22279945 CTTTACATTT
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
18 6 0.21
19 18 0.64
20 4 0.14
ACGTcount: A:0.39, C:0.04, G:0.02, T:0.55
Consensus pattern (18 bp):
AAAATTTTATTTTAATAC
Found at i:22279949 original size:19 final size:19
Alignment explanation
Indices: 22279910--22279952 Score: 61
Period size: 19 Copynumber: 2.3 Consensus size: 19
22279900 TTTATTTTAA
*
22279910 TACATAAATTTTATTTTTT
1 TACATAAATTTTATTTCTT
22279929 TACA-AAATTTATATTTCTT
1 TACATAAATTT-TATTTCTT
22279948 TACAT
1 TACAT
22279953 TTTTTATAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
18 6 0.29
19 15 0.71
ACGTcount: A:0.35, C:0.09, G:0.00, T:0.56
Consensus pattern (19 bp):
TACATAAATTTTATTTCTT
Found at i:22280014 original size:9 final size:9
Alignment explanation
Indices: 22280002--22280048 Score: 51
Period size: 9 Copynumber: 5.1 Consensus size: 9
22279992 TTTTGTACGA
22280002 TTTTTATAT
1 TTTTTATAT
*
22280011 TTTTTCTATT
1 TTTTTATA-T
22280021 TTTTTAATAT
1 TTTTT-ATAT
*
22280031 TTTCTATAT
1 TTTTTATAT
22280040 TTTTT-TAT
1 TTTTTATAT
22280048 T
1 T
22280049 AAAATTTAAT
Statistics
Matches: 32, Mismatches: 4, Indels: 5
0.78 0.10 0.12
Matches are distributed among these distances:
8 4 0.12
9 15 0.47
10 11 0.34
11 2 0.06
ACGTcount: A:0.19, C:0.04, G:0.00, T:0.77
Consensus pattern (9 bp):
TTTTTATAT
Found at i:22280015 original size:29 final size:28
Alignment explanation
Indices: 22279946--22280044 Score: 83
Period size: 29 Copynumber: 3.4 Consensus size: 28
22279936 TTTATATTTC
* *
22279946 TTTACATTTTTTATAATTTTCTTACGA-C
1 TTTATATTTTTTATAATTTT-TTACGATT
**
22279974 TTTATAAAATTTTATAATTTTTGTACGATT
1 TTTAT-ATTTTTTATAATTTTT-TACGATT
* * **
22280004 TTTATATTTTTTCTATTTTTTTAATATT
1 TTTATATTTTTTATAATTTTTTACGATT
22280032 TTCTATATTTTTT
1 TT-TATATTTTTT
22280045 TATTAAAATT
Statistics
Matches: 57, Mismatches: 10, Indels: 7
0.77 0.14 0.09
Matches are distributed among these distances:
28 12 0.21
29 40 0.70
30 5 0.09
ACGTcount: A:0.25, C:0.07, G:0.03, T:0.65
Consensus pattern (28 bp):
TTTATATTTTTTATAATTTTTTACGATT
Found at i:22280025 original size:20 final size:20
Alignment explanation
Indices: 22280002--22280046 Score: 65
Period size: 20 Copynumber: 2.3 Consensus size: 20
22279992 TTTTGTACGA
* *
22280002 TTTTT-ATATTTTTTCTATT
1 TTTTTAATATTTTCTATATT
22280021 TTTTTAATATTTTCTATATT
1 TTTTTAATATTTTCTATATT
22280041 TTTTTA
1 TTTTTA
22280047 TTAAAATTTA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 5 0.22
20 18 0.78
ACGTcount: A:0.20, C:0.04, G:0.00, T:0.76
Consensus pattern (20 bp):
TTTTTAATATTTTCTATATT
Found at i:22292797 original size:128 final size:128
Alignment explanation
Indices: 22292569--22292818 Score: 437
Period size: 128 Copynumber: 2.0 Consensus size: 128
22292559 GGTAACAATA
* *
22292569 TTAGGTCAACAAAAAATTCACAGCCCTGGACTTTCAGTGGACATTTACGACATATTAAATTAACA
1 TTAGGTCAACAAAAAATTCACAACCCTGGACTTTCAGTGGACATTTACGACATATCAAATTAACA
*
22292634 ATGACACTATGATCCAATAGGTTTGTGACTTGAACATCAAATCCAGTCGATTCTACTGACAGT
66 ATGACACTATGATCCAACAGGTTTGTGACTTGAACATCAAATCCAGTCGATTCTACTGACAGT
* *
22292697 TTAGGTCAACGAAAAATTCACAACCCTGGACTTTCAGTGGACATTTATGACATATCAAATTAACA
1 TTAGGTCAACAAAAAATTCACAACCCTGGACTTTCAGTGGACATTTACGACATATCAAATTAACA
* *
22292762 ATGACACTATGATCCAACGGGTTTGTGACTTGAACATCAAATCCTGTCGATTCTACT
66 ATGACACTATGATCCAACAGGTTTGTGACTTGAACATCAAATCCAGTCGATTCTACT
22292819 AATAGTTTCT
Statistics
Matches: 115, Mismatches: 7, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
128 115 1.00
ACGTcount: A:0.34, C:0.21, G:0.16, T:0.29
Consensus pattern (128 bp):
TTAGGTCAACAAAAAATTCACAACCCTGGACTTTCAGTGGACATTTACGACATATCAAATTAACA
ATGACACTATGATCCAACAGGTTTGTGACTTGAACATCAAATCCAGTCGATTCTACTGACAGT
Found at i:22294864 original size:195 final size:192
Alignment explanation
Indices: 22294447--22294891 Score: 483
Period size: 195 Copynumber: 2.3 Consensus size: 192
22294437 CCAGTACTCG
* * * *
22294447 ATGCTGCTCACATGAGCTGTCGATGACTCGTAACATACGCGGTACC-CTAGCCATCGATACGGTG
1 ATGCTGCTCACATGAACTGTCGAGGACTCGCAACATATGCGGTACCTC-AGCCATCGATA--GTG
* * *
22294511 CCTATCTATACTATAAACTATTCCCTAAAGATGTTTCTCACACGAGCTGTCGAGAGTATGCATAA
63 CATATCTATACTATAAACTATTCCCTAAAGATGCTGCTCACACGAGCTGTCGAGAGTATGCATAA
* * * *
22294576 AACATAGTCCCAGCCATCGTAGGGCCTATAATCCATTAGGATCTATATCTCTTTCCCAGGTCACG
128 AACATAATCCCAGCCATCGTAAGGCCTATAATCCATTAGGATCTATATCTCTTTCCCAGCTCACA
* *
22294641 ATGCTGCTCACA-CAAGCTGTCGAGGACTCGCAACATATGCGGTACCTCACCCATCGATA-TG-A
1 ATGCTGCTCACATGAA-CTGTCGAGGACTCGCAACATATGCGGTACCTCAGCCATCGATAGTGCA
* * * * *
22294703 TATCTGTGC-ATATAACTATTTCCTAACGATGCTGCTCACACGAGCTGTCGAG-GATATGCACTT
65 TATCTATACTATA-AACTATTCCCTAAAGATGCTGCTCACACGAGCTGTCGAGAG-TATGCA-TA
** * * * * * *
22294766 ATGCATAAATCTCAGCCATCGTAAGGCTTGTAATCCATTCTTGGATTCT-TTTTTCATTTCCC-G
127 AAACAT-AATCCCAGCCATCGTAAGGCCTATAATCCA-T-TAGGA-TCTATATCTC-TTTCCCAG
22294829 ACTCACA
187 -CTCACA
22294836 ATGCTGCTCACATGAACTGTCGAGGACTCGCAACATATGCGGTACCTCAGCCATCG
1 ATGCTGCTCACATGAACTGTCGAGGACTCGCAACATATGCGGTACCTCAGCCATCG
22294892 CGTCGATTTC
Statistics
Matches: 211, Mismatches: 28, Indels: 23
0.81 0.11 0.09
Matches are distributed among these distances:
189 4 0.02
190 48 0.23
191 7 0.03
192 25 0.12
193 2 0.01
194 58 0.27
195 65 0.31
196 2 0.01
ACGTcount: A:0.26, C:0.27, G:0.19, T:0.28
Consensus pattern (192 bp):
ATGCTGCTCACATGAACTGTCGAGGACTCGCAACATATGCGGTACCTCAGCCATCGATAGTGCAT
ATCTATACTATAAACTATTCCCTAAAGATGCTGCTCACACGAGCTGTCGAGAGTATGCATAAAAC
ATAATCCCAGCCATCGTAAGGCCTATAATCCATTAGGATCTATATCTCTTTCCCAGCTCACA
Found at i:22298369 original size:21 final size:21
Alignment explanation
Indices: 22298324--22298398 Score: 73
Period size: 21 Copynumber: 3.6 Consensus size: 21
22298314 TAGTGCAGAT
* *
22298324 TTCTATCGATACAAGTGATAG
1 TTCTACCGATACAAGTGATAC
22298345 TTCTACCGATACAAGTGACT-C
1 TTCTACCGATACAAGTGA-TAC
* *
22298366 TTCTACCAATACAAGT-TTCAC
1 TTCTACCGATACAAGTGAT-AC
*
22298387 CTCTACCGATAC
1 TTCTACCGATAC
22298399 TAAAAACTCT
Statistics
Matches: 45, Mismatches: 6, Indels: 6
0.79 0.11 0.11
Matches are distributed among these distances:
19 1 0.02
21 43 0.96
22 1 0.02
ACGTcount: A:0.31, C:0.27, G:0.12, T:0.31
Consensus pattern (21 bp):
TTCTACCGATACAAGTGATAC
Found at i:22304098 original size:37 final size:37
Alignment explanation
Indices: 22304048--22304119 Score: 135
Period size: 37 Copynumber: 1.9 Consensus size: 37
22304038 AATGCAAAGA
22304048 AAGTTAAAACTAAAAAGATTGTGATGAATAATGTCGG
1 AAGTTAAAACTAAAAAGATTGTGATGAATAATGTCGG
*
22304085 AAGTTAAAACTAAAGAGATTGTGATGAATAATGTC
1 AAGTTAAAACTAAAAAGATTGTGATGAATAATGTC
22304120 AGAGAAAATT
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 34 1.00
ACGTcount: A:0.46, C:0.06, G:0.21, T:0.28
Consensus pattern (37 bp):
AAGTTAAAACTAAAAAGATTGTGATGAATAATGTCGG
Found at i:22305494 original size:16 final size:16
Alignment explanation
Indices: 22305473--22305506 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 16
22305463 AACACATCAT
22305473 TTATTA-TATATATTTA
1 TTATTATTAT-TATTTA
22305489 TTATTATTATTATTTA
1 TTATTATTATTATTTA
22305505 TT
1 TT
22305507 TGATTGAGGG
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 14 0.82
17 3 0.18
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (16 bp):
TTATTATTATTATTTA
Found at i:22311448 original size:51 final size:51
Alignment explanation
Indices: 22311368--22311662 Score: 482
Period size: 51 Copynumber: 5.8 Consensus size: 51
22311358 GCTATAAACG
22311368 AAAGAGTCCGATGACTAAGTGTCATCGTGAGTAAATGAATCCTTTACGGATT
1 AAAG-GTCCGATGACTAAGTGTCATCGTGAGTAAATGAATCCTTTACGGATT
*
22311420 AAAAGTCCGATGACTAAGTGTCATCGTGAGTAAATGAATCCTTTACGGATT
1 AAAGGTCCGATGACTAAGTGTCATCGTGAGTAAATGAATCCTTTACGGATT
* *
22311471 AAAGGTCCGATGACTAAGTGTCATCATGAGTAAATGAATCTTTTACGGATT
1 AAAGGTCCGATGACTAAGTGTCATCGTGAGTAAATGAATCCTTTACGGATT
* *
22311522 AAAGGTCCGATAACTAAGTGACATCGTGAGTAAATGAATCCTTTACGGATT
1 AAAGGTCCGATGACTAAGTGTCATCGTGAGTAAATGAATCCTTTACGGATT
*** *
22311573 AAAGGTCCGATGACTAAGTGTCATCGTGAGTAAATGAATCCACGACGAATT
1 AAAGGTCCGATGACTAAGTGTCATCGTGAGTAAATGAATCCTTTACGGATT
* *
22311624 AAAGGTCCGATGACTCAGTGTCATCGTGAGTATATGAAT
1 AAAGGTCCGATGACTAAGTGTCATCGTGAGTAAATGAAT
22311663 TTCTATACGG
Statistics
Matches: 227, Mismatches: 16, Indels: 1
0.93 0.07 0.00
Matches are distributed among these distances:
51 224 0.99
52 3 0.01
ACGTcount: A:0.34, C:0.16, G:0.23, T:0.28
Consensus pattern (51 bp):
AAAGGTCCGATGACTAAGTGTCATCGTGAGTAAATGAATCCTTTACGGATT
Found at i:22312408 original size:21 final size:21
Alignment explanation
Indices: 22312382--22312435 Score: 74
Period size: 21 Copynumber: 2.6 Consensus size: 21
22312372 GGAGTTTTTA
*
22312382 GTATCGGTAGATA-CATGACTT
1 GTATCGGTAGAAATCAT-ACTT
*
22312403 GTATCGGTAGAAATTATACTT
1 GTATCGGTAGAAATCATACTT
22312424 GTATCGGTAGAA
1 GTATCGGTAGAA
22312436 CTAGTACAGG
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
21 28 0.93
22 2 0.07
ACGTcount: A:0.31, C:0.11, G:0.24, T:0.33
Consensus pattern (21 bp):
GTATCGGTAGAAATCATACTT
Found at i:22318676 original size:42 final size:42
Alignment explanation
Indices: 22318629--22319155 Score: 664
Period size: 42 Copynumber: 13.0 Consensus size: 42
22318619 GCAAATATGC
* * *
22318629 CATCCAATCTCCTACCCCGACCATTGGGAAGATTGAAGACAT
1 CATCCAATCTCTTACCCCGACCATGGGGCAGATTGAAGACAT
*
22318671 CATCCAATCTCTTACCTCGACCATGGGGCAGATTGAAG-C--
1 CATCCAATCTCTTACCCCGACCATGGGGCAGATTGAAGACAT
*
22318710 CATCCAATCTCTAACCCCGACCATGGGGCAGATTGAAGACAT
1 CATCCAATCTCTTACCCCGACCATGGGGCAGATTGAAGACAT
* *
22318752 CATCCAATCTCTTACCCCAACCATGGGGTAGATTGAAGACAT
1 CATCCAATCTCTTACCCCGACCATGGGGCAGATTGAAGACAT
22318794 CATCCAATCTCTTACCCCGACCATGGGGCAGATTGAAG-C--
1 CATCCAATCTCTTACCCCGACCATGGGGCAGATTGAAGACAT
* *
22318833 CATCCAATCTCTTACCCCGACCATGAGGCAAATTGAAGACAT
1 CATCCAATCTCTTACCCCGACCATGGGGCAGATTGAAGACAT
*
22318875 CATCCAATCTCTTACCTCGACCATGGGGCAGATTGAAG-C--
1 CATCCAATCTCTTACCCCGACCATGGGGCAGATTGAAGACAT
* * * *
22318914 CATCCAATCTCTTACCCAGACCATAGGGTAGATTAAAGACAT
1 CATCCAATCTCTTACCCCGACCATGGGGCAGATTGAAGACAT
* * *
22318956 CATTCAATCTCTTACCCCGACTATGGGGTAGATTG-A-AC--
1 CATCCAATCTCTTACCCCGACCATGGGGCAGATTGAAGACAT
*
22318994 CATCCAATCTCTTACACCGACCATGGGGCAGATTGAAGACAT
1 CATCCAATCTCTTACCCCGACCATGGGGCAGATTGAAGACAT
* ** *
22319036 CATCAAAT-TCTTACCTTGACCACT-GGGCAAATTGAAG-C--
1 CATCCAATCTCTTACCCCGACCA-TGGGGCAGATTGAAGACAT
*
22319074 CATCCAATCTCTTACCCCGACCATGAGGCAGATTGAAGACAT
1 CATCCAATCTCTTACCCCGACCATGGGGCAGATTGAAGACAT
** *
22319116 C-T--AATCTCTTACCCTAACCATGGGGCAGATTGAAGTCAT
1 CATCCAATCTCTTACCCCGACCATGGGGCAGATTGAAGACAT
22319155 C
1 C
22319156 CGATCTTTTA
Statistics
Matches: 422, Mismatches: 44, Indels: 41
0.83 0.09 0.08
Matches are distributed among these distances:
38 39 0.09
39 163 0.39
40 9 0.02
41 28 0.07
42 183 0.43
ACGTcount: A:0.30, C:0.29, G:0.18, T:0.23
Consensus pattern (42 bp):
CATCCAATCTCTTACCCCGACCATGGGGCAGATTGAAGACAT
Found at i:22318762 original size:81 final size:80
Alignment explanation
Indices: 22318629--22319166 Score: 667
Period size: 81 Copynumber: 6.7 Consensus size: 80
22318619 GCAAATATGC
* * * *
22318629 CATCCAATCTCCTACCCCGACCATTGGGAAGATTGAAGACATCATCCAATCTCTTACCTCGACCA
1 CATCCAATCTCTTACCCCGACCATGGGGCAGATTGAAG-C--CATCCAATCTCTTACCCCGACCA
22318694 TGGGGCAGATTGAAG-C-
63 TGGGGCAGATTGAAGACA
* *
22318710 CATCCAATCTCTAACCCCGACCATGGGGCAGATTGAAGACATCATCCAATCTCTTACCCCAACCA
1 CATCCAATCTCTTACCCCGACCATGGGGCAGATTGAAG-C--CATCCAATCTCTTACCCCGACCA
*
22318775 TGGGGTAGATTGAAGACA
63 TGGGGCAGATTGAAGACA
22318793 TCATCCAATCTCTTACCCCGACCATGGGGCAGATTGAAGCCATCCAATCTCTTACCCCGACCATG
1 -CATCCAATCTCTTACCCCGACCATGGGGCAGATTGAAGCCATCCAATCTCTTACCCCGACCATG
* *
22318858 AGGCAAATTGAAGACA
65 GGGCAGATTGAAGACA
* * *
22318874 TCATCCAATCTCTTACCTCGACCATGGGGCAGATTGAAGCCATCCAATCTCTTACCCAGACCATA
1 -CATCCAATCTCTTACCCCGACCATGGGGCAGATTGAAGCCATCCAATCTCTTACCCCGACCATG
* *
22318939 GGGTAGATTAAAGACA
65 GGGCAGATTGAAGACA
* * * *
22318955 TCATTCAATCTCTTACCCCGACTATGGGGTAGATTGAA-CCATCCAATCTCTTACACCGACCATG
1 -CATCCAATCTCTTACCCCGACCATGGGGCAGATTGAAGCCATCCAATCTCTTACCCCGACCATG
22319019 GGGCAGATTGAAGACA
65 GGGCAGATTGAAGACA
* ** *
22319035 TCATCAAAT-TCTTACCTTGACCACT-GGGCAAATTGAAGCCATCCAATCTCTTACCCCGACCAT
1 -CATCCAATCTCTTACCCCGACCA-TGGGGCAGATTGAAGCCATCCAATCTCTTACCCCGACCAT
*
22319098 GAGGCAGATTGAAG--A
64 GGGGCAGATTGAAGACA
* ** * * *
22319113 CATCTAATCTCTTACCCTAACCATGGGGCAGATTGAAGTCATCCGATCTTTTAC
1 CATCCAATCTCTTACCCCGACCATGGGGCAGATTGAAGCCATCCAATCTCTTAC
22319167 TCATTTAGAG
Statistics
Matches: 406, Mismatches: 44, Indels: 17
0.87 0.09 0.04
Matches are distributed among these distances:
77 8 0.02
78 38 0.09
79 21 0.05
80 82 0.20
81 218 0.54
82 1 0.00
83 1 0.00
84 37 0.09
ACGTcount: A:0.30, C:0.29, G:0.17, T:0.24
Consensus pattern (80 bp):
CATCCAATCTCTTACCCCGACCATGGGGCAGATTGAAGCCATCCAATCTCTTACCCCGACCATGG
GGCAGATTGAAGACA
Found at i:22318850 original size:123 final size:123
Alignment explanation
Indices: 22318629--22319155 Score: 700
Period size: 123 Copynumber: 4.3 Consensus size: 123
22318619 GCAAATATGC
* * * *
22318629 CATCCAATCTCCTACCCCGACCATTGGGAAGATTGAAGACATCATCCAATCTCTTACCTCGACCA
1 CATCCAATCTCTTACCCCGACCATGGGGCAGATTGAAGACATCATCCAATCTCTTACCCCGACCA
* *
22318694 TGGGGCAGATTGAAGCCATCCAATCTCTAACCCCGACCATGGGGCAGATTGAAGACAT
66 TGGGGCAGATTGAAGCCATCCAATCTCTTACCCCGACCATGAGGCAGATTGAAGACAT
* *
22318752 CATCCAATCTCTTACCCCAACCATGGGGTAGATTGAAGACATCATCCAATCTCTTACCCCGACCA
1 CATCCAATCTCTTACCCCGACCATGGGGCAGATTGAAGACATCATCCAATCTCTTACCCCGACCA
*
22318817 TGGGGCAGATTGAAGCCATCCAATCTCTTACCCCGACCATGAGGCAAATTGAAGACAT
66 TGGGGCAGATTGAAGCCATCCAATCTCTTACCCCGACCATGAGGCAGATTGAAGACAT
* *
22318875 CATCCAATCTCTTACCTCGACCATGGGGCAGATTGAAG-C--CATCCAATCTCTTACCCAGACCA
1 CATCCAATCTCTTACCCCGACCATGGGGCAGATTGAAGACATCATCCAATCTCTTACCCCGACCA
* * * * * * *
22318937 TAGGGTAGATTAAAGACATCATTCAATCTCTTACCCCGACTATGGGGTAGATTG-A-AC--
66 TGGGGCAGATTGAAG-C--CATCCAATCTCTTACCCCGACCATGAGGCAGATTGAAGACAT
* * **
22318994 CATCCAATCTCTTACACCGACCATGGGGCAGATTGAAGACATCATCAAAT-TCTTACCTTGACCA
1 CATCCAATCTCTTACCCCGACCATGGGGCAGATTGAAGACATCATCCAATCTCTTACCCCGACCA
*
22319058 CT-GGGCAAATTGAAGCCATCCAATCTCTTACCCCGACCATGAGGCAGATTGAAGACAT
66 -TGGGGCAGATTGAAGCCATCCAATCTCTTACCCCGACCATGAGGCAGATTGAAGACAT
** *
22319116 C-T--AATCTCTTACCCTAACCATGGGGCAGATTGAAGTCATC
1 CATCCAATCTCTTACCCCGACCATGGGGCAGATTGAAGACATC
22319156 CGATCTTTTA
Statistics
Matches: 357, Mismatches: 36, Indels: 26
0.85 0.09 0.06
Matches are distributed among these distances:
118 31 0.09
119 71 0.20
120 38 0.11
121 26 0.07
122 11 0.03
123 180 0.50
ACGTcount: A:0.30, C:0.29, G:0.18, T:0.23
Consensus pattern (123 bp):
CATCCAATCTCTTACCCCGACCATGGGGCAGATTGAAGACATCATCCAATCTCTTACCCCGACCA
TGGGGCAGATTGAAGCCATCCAATCTCTTACCCCGACCATGAGGCAGATTGAAGACAT
Found at i:22339841 original size:18 final size:17
Alignment explanation
Indices: 22339818--22339869 Score: 59
Period size: 17 Copynumber: 3.0 Consensus size: 17
22339808 CATTAATTTA
22339818 CAATGATATATGGAAATG
1 CAATGATA-ATGGAAATG
**
22339836 CAATGATAATAAAAATG
1 CAATGATAATGGAAATG
* *
22339853 TAATGATAAAGGAAATG
1 CAATGATAATGGAAATG
22339870 TGGTGACAAT
Statistics
Matches: 28, Mismatches: 6, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
17 20 0.71
18 8 0.29
ACGTcount: A:0.52, C:0.04, G:0.19, T:0.25
Consensus pattern (17 bp):
CAATGATAATGGAAATG
Found at i:22340321 original size:12 final size:12
Alignment explanation
Indices: 22340303--22340335 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
22340293 AGTTCCTTTC
22340303 TTTCTTCCTC-T
1 TTTCTTCCTCAT
22340314 TTTCCTTCCTCAT
1 TTT-CTTCCTCAT
22340327 TTTCTTCCT
1 TTTCTTCCT
22340336 TTGTCTCCAC
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
11 3 0.15
12 13 0.65
13 4 0.20
ACGTcount: A:0.03, C:0.36, G:0.00, T:0.61
Consensus pattern (12 bp):
TTTCTTCCTCAT
Found at i:22353726 original size:12 final size:14
Alignment explanation
Indices: 22353711--22353767 Score: 64
Period size: 14 Copynumber: 4.2 Consensus size: 14
22353701 GGTGGTAAAG
22353711 TATGT-TGTA-ATA
1 TATGTATGTATATA
22353723 TATGTATGTATATA
1 TATGTATGTATATA
* *
22353737 TATATATATATATA
1 TATGTATGTATATA
* *
22353751 TATATATATATATA
1 TATGTATGTATATA
22353765 TAT
1 TAT
22353768 AAGAAAGAAA
Statistics
Matches: 41, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
12 5 0.12
13 4 0.10
14 32 0.78
ACGTcount: A:0.42, C:0.00, G:0.07, T:0.51
Consensus pattern (14 bp):
TATGTATGTATATA
Found at i:22353736 original size:2 final size:2
Alignment explanation
Indices: 22353720--22353768 Score: 80
Period size: 2 Copynumber: 24.5 Consensus size: 2
22353710 GTATGTTGTA
* *
22353720 AT AT AT GT AT GT 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 AT AT AT
22353762 AT AT AT A
1 AT AT AT A
22353769 AGAAAGAAAG
Statistics
Matches: 43, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
2 43 1.00
ACGTcount: A:0.47, C:0.00, G:0.04, T:0.49
Consensus pattern (2 bp):
AT
Found at i:22355240 original size:14 final size:15
Alignment explanation
Indices: 22355215--22355244 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 15
22355205 TAATTTCAAT
22355215 TATTTTTATTGTTTA
1 TATTTTTATTGTTTA
22355230 TATTTTT-TTGTTTA
1 TATTTTTATTGTTTA
22355244 T
1 T
22355245 TTTAGCATTT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 8 0.53
15 7 0.47
ACGTcount: A:0.17, C:0.00, G:0.07, T:0.77
Consensus pattern (15 bp):
TATTTTTATTGTTTA
Found at i:22355744 original size:36 final size:39
Alignment explanation
Indices: 22355689--22355761 Score: 98
Period size: 36 Copynumber: 1.9 Consensus size: 39
22355679 TCTATTGTGT
*
22355689 TATTAATTGTATTTGATTATCTT-CATT-TAATTATTTA
1 TATTAATTATATTTGATTATCTTCCATTATAATTATTTA
*
22355726 TATTAA-TATATTTTATTATCTTGCCATTATAATTAT
1 TATTAATTATATTTGATTATCTT-CCATTATAATTAT
22355762 AAATTATGTA
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
36 14 0.45
37 6 0.19
38 4 0.13
39 7 0.23
ACGTcount: A:0.32, C:0.07, G:0.04, T:0.58
Consensus pattern (39 bp):
TATTAATTATATTTGATTATCTTCCATTATAATTATTTA
Found at i:22356544 original size:26 final size:26
Alignment explanation
Indices: 22356515--22356566 Score: 86
Period size: 26 Copynumber: 2.0 Consensus size: 26
22356505 ATTTGTGATC
*
22356515 CTTTTCATTTTATTTTATATATGTTG
1 CTTTGCATTTTATTTTATATATGTTG
*
22356541 CTTTGCATTTTATTTTATGTATGTTG
1 CTTTGCATTTTATTTTATATATGTTG
22356567 TATTTGTGGT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.17, C:0.08, G:0.12, T:0.63
Consensus pattern (26 bp):
CTTTGCATTTTATTTTATATATGTTG
Found at i:22363214 original size:5 final size:5
Alignment explanation
Indices: 22363200--22363247 Score: 53
Period size: 5 Copynumber: 9.2 Consensus size: 5
22363190 AAACTAGCAA
*
22363200 AAAAG GAAAG AAAAG AAAAG AAAAG AGAAAG AGAAAG AGAAA- AAAAG
1 AAAAG AAAAG AAAAG AAAAG AAAAG A-AAAG A-AAAG A-AAAG AAAAG
22363247 A
1 A
22363248 GGGGTCGAGA
Statistics
Matches: 39, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
4 3 0.08
5 21 0.54
6 15 0.38
ACGTcount: A:0.75, C:0.00, G:0.25, T:0.00
Consensus pattern (5 bp):
AAAAG
Found at i:22363219 original size:10 final size:11
Alignment explanation
Indices: 22363200--22363248 Score: 68
Period size: 10 Copynumber: 4.6 Consensus size: 11
22363190 AAACTAGCAA
22363200 AAAAG-GAAAG
1 AAAAGAGAAAG
22363210 AAAAGA-AAAG
1 AAAAGAGAAAG
22363220 AAAAGAGAAAG
1 AAAAGAGAAAG
22363231 AGAAAGAGAAA-
1 A-AAAGAGAAAG
22363242 AAAAGAG
1 AAAAGAG
22363249 GGGTCGAGAT
Statistics
Matches: 36, Mismatches: 0, Indels: 6
0.86 0.00 0.14
Matches are distributed among these distances:
10 21 0.58
11 6 0.17
12 9 0.25
ACGTcount: A:0.73, C:0.00, G:0.27, T:0.00
Consensus pattern (11 bp):
AAAAGAGAAAG
Found at i:22363232 original size:6 final size:6
Alignment explanation
Indices: 22363201--22363241 Score: 54
Period size: 5 Copynumber: 7.5 Consensus size: 6
22363191 AACTAGCAAA
22363201 AAAG-G AAAGA- AAAGA- AAAGA- AAAGAG AAAGAG AAAGAG AAA
1 AAAGAG AAAGAG AAAGAG AAAGAG AAAGAG AAAGAG AAAGAG AAA
22363242 AAAAGAGGGG
Statistics
Matches: 34, Mismatches: 0, Indels: 3
0.92 0.00 0.08
Matches are distributed among these distances:
5 19 0.56
6 15 0.44
ACGTcount: A:0.73, C:0.00, G:0.27, T:0.00
Consensus pattern (6 bp):
AAAGAG
Found at i:22364349 original size:49 final size:49
Alignment explanation
Indices: 22364276--22364959 Score: 415
Period size: 49 Copynumber: 14.0 Consensus size: 49
22364266 TCCTAGAGTT
* * * * *
22364276 GAAGAGGGATAGGTTGAACCCGCAACGGTGAACCTAACACCTTAAAATC
1 GAAGAGGGATAGATTGAAGCCGCAACGGCGGATCTAACACCTTAAAATC
* ** * * * *
22364325 GAAGAGGGATAGATTAAAATCGCAATGGCAGATATAACACCCTAAAATC
1 GAAGAGGGATAGATTGAAGCCGCAACGGCGGATCTAACACCTTAAAATC
* *** *
22364374 GAAGAGGGAAAGATTGAAGCCGCAACGATAGATCTTACACCTTAAAA-C
1 GAAGAGGGATAGATTGAAGCCGCAACGGCGGATCTAACACCTTAAAATC
* * * * * * * * *
22364422 TAAGGAAGGATAGGTGGAAGTCGCAATGACGGACCTAACACCCTAAAATC
1 GAA-GAGGGATAGATTGAAGCCGCAACGGCGGATCTAACACCTTAAAATC
* * * ** ** * *
22364472 AAAGAGGGAAAGATTGAAGTCGCAACAACAAATCTTACACCTTAAAATT
1 GAAGAGGGATAGATTGAAGCCGCAACGGCGGATCTAACACCTTAAAATC
* * * * * * * *
22364521 GAAGAGGGATAGGTTAAAGCCGCAATGACGGATCGAGCACCCTAAAACC
1 GAAGAGGGATAGATTGAAGCCGCAACGGCGGATCTAACACCTTAAAATC
* ** * * * *
22364570 AAAGAGGGA-AGGATTGAAGTTGCAACGACGGATCTTACACCTTTAAATT
1 GAAGAGGGATA-GATTGAAGCCGCAACGGCGGATCTAACACCTTAAAATC
* * * * * *
22364619 AAAGAGGGATAGGTTGAAGCCGTAATGGTGGACCTAACATCC-TAAAATC
1 GAAGAGGGATAGATTGAAGCCGCAACGGCGGATCTAACA-CCTTAAAATC
* * * * * * *
22364668 AAAGTGGGATAGATTGAAGTCGTAACGGTGGATCTAACACCCTAAAATT
1 GAAGAGGGATAGATTGAAGCCGCAACGGCGGATCTAACACCTTAAAATC
* * * * * *
22364717 GAATAGGGGA-AGATTAAAGCCGTAGCAGCGGATCTTACACCTTAAAA-C
1 GAAGA-GGGATAGATTGAAGCCGCAACGGCGGATCTAACACCTTAAAATC
* * * * * *
22364765 TGAAGAGGGATAGGTTGAAACCGTAACGGCGGACCTAGCACCTTAAAACC
1 -GAAGAGGGATAGATTGAAGCCGCAACGGCGGATCTAACACCTTAAAATC
* ** *** * *
22364815 GAAGAGGGAAAGATTGAAGTTGCAACAATGGATCTTACACCTTAAAATT
1 GAAGAGGGATAGATTGAAGCCGCAACGGCGGATCTAACACCTTAAAATC
* * * * * *
22364864 GAAGAGGGATAGATTGAAGCTGCAATGGCGAACCTAACACCCTAAAACC
1 GAAGAGGGATAGATTGAAGCCGCAACGGCGGATCTAACACCTTAAAATC
* * * * * * * *
22364913 AAAAAGGGATAAATTGAAGCCACGATGGTGGATCTAACACCCTAAAA
1 GAAGAGGGATAGATTGAAGCCGCAACGGCGGATCTAACACCTTAAAA
22364960 CCAAAGAGTG
Statistics
Matches: 479, Mismatches: 146, Indels: 20
0.74 0.23 0.03
Matches are distributed among these distances:
48 10 0.02
49 458 0.96
50 11 0.02
ACGTcount: A:0.39, C:0.18, G:0.24, T:0.19
Consensus pattern (49 bp):
GAAGAGGGATAGATTGAAGCCGCAACGGCGGATCTAACACCTTAAAATC
Found at i:22364716 original size:196 final size:196
Alignment explanation
Indices: 22364277--22364738 Score: 539
Period size: 196 Copynumber: 2.4 Consensus size: 196
22364267 CCTAGAGTTG
* ** * *
22364277 AAGAGGGATAGGTTGAACCCGCAACGGTGAACCTAACACCTTAAAATCGAAGAGGGATAGATTAA
1 AAGAGGGATAGATTGAAGTCGCAACGGTGAATCTAACACCTTAAAATTGAAGAGGGATAGATTAA
** * * * * *
22364342 AATCGCAATGGCAGATATAACACCCTAAAATCGAAGAGGGAAAGATTGAAGCCGCAACGATAGAT
66 AGCCGCAATGACAGATAGAACACCCTAAAACCAAAGAGGGAAAGATTGAAGCCGCAACGACAGAT
* *
22364407 CTTACACCTTAAAACTAAGGAAGGATAGGTGGAAGTCGCAATGACGGACCTAACACCCTAAAATC
131 CTTACACCTTAAAACTAAAGAAGGATAGGTGGAAGCCGCAATGACGGACCTAACACCCTAAAATC
22364472 A
196 A
* **** * *
22364473 AAGAGGGAAAGATTGAAGTCGCAACAACAAATCTTACACCTTAAAATTGAAGAGGGATAGGTTAA
1 AAGAGGGATAGATTGAAGTCGCAACGGTGAATCTAACACCTTAAAATTGAAGAGGGATAGATTAA
* * * * ** *
22364538 AGCCGCAATGACGGATCGAGCACCCTAAAACCAAAGAGGGAAGGATTGAAGTTGCAACGACGGAT
66 AGCCGCAATGACAGATAGAACACCCTAAAACCAAAGAGGGAAAGATTGAAGCCGCAACGACAGAT
* * * * * ** *
22364603 CTTACACCTTTAAATTAAAGAGGGATAGGTTGAAGCCGTAATGGTGGACCTAACATCCTAAAATC
131 CTTACACCTTAAAACTAAAGAAGGATAGGTGGAAGCCGCAATGACGGACCTAACACCCTAAAATC
22364668 A
196 A
* * * * *
22364669 AAGTGGGATAGATTGAAGTCGTAACGGTGGATCTAACACCCTAAAATTGAATAGGGGA-AGATTA
1 AAGAGGGATAGATTGAAGTCGCAACGGTGAATCTAACACCTTAAAATTGAAGA-GGGATAGATTA
22364733 AAGCCG
65 AAGCCG
22364739 TAGCAGCGGA
Statistics
Matches: 217, Mismatches: 48, Indels: 2
0.81 0.18 0.01
Matches are distributed among these distances:
196 213 0.98
197 4 0.02
ACGTcount: A:0.40, C:0.18, G:0.24, T:0.19
Consensus pattern (196 bp):
AAGAGGGATAGATTGAAGTCGCAACGGTGAATCTAACACCTTAAAATTGAAGAGGGATAGATTAA
AGCCGCAATGACAGATAGAACACCCTAAAACCAAAGAGGGAAAGATTGAAGCCGCAACGACAGAT
CTTACACCTTAAAACTAAAGAAGGATAGGTGGAAGCCGCAATGACGGACCTAACACCCTAAAATC
A
Found at i:22364904 original size:147 final size:147
Alignment explanation
Indices: 22364274--22364930 Score: 464
Period size: 147 Copynumber: 4.5 Consensus size: 147
22364264 AATCCTAGAG
* * * * * *
22364274 TTGAAGAGGGATAGGTTGAACCCGCAACGGTGAACCTAACACCTTAAAATCGAAGAGGGATAGAT
1 TTGAAGAGGGATAGATTGAAGCTGCAACGGCGGACCTAACACCTTAAAATCAAAGAGGGATAGAT
* * * ** * *
22364339 TAAAATCGCAATGGCAGATATAACACCCTAAAATCGAAGAGGGAAAGATTGAAGCCGCAACGATA
66 TGAAACCGCAACGGCAGACCTAACACCTTAAAATCGAAGAGGGAAAGATTGAAGCCGCAACGATG
*
22364404 GATCTTACACCTTAAAA
131 GATCTTACACCCTAAAA
* * * * * * * *
22364421 CT-AAGGAAGGATAGGTGGAAG-TCGCAATGACGGACCTAACACCCTAAAATCAAAGAGGGAAAG
1 TTGAA-GAGGGATAGATTGAAGCT-GCAACGGCGGACCTAACACCTTAAAATCAAAGAGGGATAG
** ** * * * * * * * *
22364484 ATTGAAGTCGCAACAACAAATCTTACACCTTAAAATTGAAGAGGGATAGGTTAAAGCCGCAATGA
64 ATTGAAACCGCAACGGCAGACCTAACACCTTAAAATCGAAGAGGGAAAGATTGAAGCCGCAACGA
* *
22364549 CGGATC-GAGCACCCTAAAA
129 TGGATCTTA-CACCCTAAAA
*** * * * * * * *
22364568 CCAAAGAGGGA-AGGATTGAAGTTGCAACGACGGATCTTACACCTTTAAATTAAAGAGGGATAGG
1 TTGAAGAGGGATA-GATTGAAGCTGCAACGGCGGACCTAACACCTTAAAATCAAAGAGGGATAGA
* * * ** * * * * * *
22364632 TTGAAGCCGTAATGGTGGACCTAACATCC-TAAAATCAAAGTGGGATAGATTGAAGTCGTAACGG
65 TTGAAACCGCAACGGCAGACCTAACA-CCTTAAAATCGAAGAGGGAAAGATTGAAGCCGCAACGA
*
22364696 TGGATCTAACACCCTAAAA
129 TGGATCTTACACCCTAAAA
* * * * * * * * *
22364715 TTGAATAGGGGA-AGATTAAAGCCGTAGCAGCGGATCTTACACCTTAAAA-CTGAAGAGGGATAG
1 TTGAAGA-GGGATAGATTGAAGCTGCAACGGCGGACCTAACACCTTAAAATC-AAAGAGGGATAG
* * * * * ** *
22364778 GTTGAAACCGTAACGGCGGACCTAGCACCTTAAAACCGAAGAGGGAAAGATTGAAGTTGCAACAA
64 ATTGAAACCGCAACGGCAGACCTAACACCTTAAAATCGAAGAGGGAAAGATTGAAGCCGCAACGA
*
22364843 TGGATCTTACACCTTAAAA
129 TGGATCTTACACCCTAAAA
* * * * * *
22364862 TTGAAGAGGGATAGATTGAAGCTGCAATGGCGAACCTAACACCCTAAAACCAAAAAGGGATAAAT
1 TTGAAGAGGGATAGATTGAAGCTGCAACGGCGGACCTAACACCTTAAAATCAAAGAGGGATAGAT
22364927 TGAA
66 TGAA
22364931 GCCACGATGG
Statistics
Matches: 391, Mismatches: 106, Indels: 26
0.75 0.20 0.05
Matches are distributed among these distances:
146 10 0.03
147 369 0.94
148 12 0.03
ACGTcount: A:0.39, C:0.18, G:0.24, T:0.19
Consensus pattern (147 bp):
TTGAAGAGGGATAGATTGAAGCTGCAACGGCGGACCTAACACCTTAAAATCAAAGAGGGATAGAT
TGAAACCGCAACGGCAGACCTAACACCTTAAAATCGAAGAGGGAAAGATTGAAGCCGCAACGATG
GATCTTACACCCTAAAA
Found at i:22365062 original size:49 final size:49
Alignment explanation
Indices: 22364874--22365063 Score: 145
Period size: 49 Copynumber: 3.9 Consensus size: 49
22364864 GAAGAGGGAT
* *
22364874 AGATTGAAGCTGCAATGGCGAACCTAACACCCTAAAACCAAAAAGGGATA-
1 AGATTGAAGCCGCAATGGCGAATCTAACACCCTAAAA-CAAAAAGGGA-AC
* * * * * *
22364924 A-ATTGAAGCCACGATGGTGGATCTAACACCCTAAAACCAAAGAGTGAAC
1 AGATTGAAGCCGCAATGGCGAATCTAACACCCTAAAA-CAAAAAGGGAAC
* * * * * **
22364973 ATATTGAAGCCGTAATGACGAATCTTACACCTTTTGAA-AAAAAGGGAAC
1 AGATTGAAGCCGCAATGGCGAATCTAACACC-CTAAAACAAAAAGGGAAC
* * *
22365022 AGATTGAAGCCGCAACGGTGAATCTTACACCCCTAAAA-AAAA
1 AGATTGAAGCCGCAATGGCGAATCTAACA-CCCTAAAACAAAA
22365064 CTGTAGAGGG
Statistics
Matches: 108, Mismatches: 28, Indels: 9
0.74 0.19 0.06
Matches are distributed among these distances:
48 1 0.01
49 79 0.73
50 25 0.23
51 3 0.03
ACGTcount: A:0.42, C:0.21, G:0.19, T:0.18
Consensus pattern (49 bp):
AGATTGAAGCCGCAATGGCGAATCTAACACCCTAAAACAAAAAGGGAAC
Found at i:22366177 original size:4 final size:4
Alignment explanation
Indices: 22366049--22366158 Score: 57
Period size: 4 Copynumber: 26.2 Consensus size: 4
22366039 TTTAATTTTT
* * * *
22366049 TTTA TTTT TTTG TTTA TTTA TCTT- GTTA -TTA TTTA TTTTCA TGTCA
1 TTTA TTTA TTTA TTTA TTTA T-TTA TTTA TTTA TTTA -TTT-A T-TTA
* *
22366095 TTTA -TTA TTT- TTTA TTTA CTTTACA TTTA TTTT TATTA TCTTG TTTA
1 TTTA TTTA TTTA TTTA TTTA -TTT--A TTTA TTTA T-TTA T-TTA TTTA
22366142 TTTA TTTA TTTA TTTA T
1 TTTA TTTA TTTA TTTA T
22366159 CATTAATTTT
Statistics
Matches: 83, Mismatches: 11, Indels: 24
0.70 0.09 0.20
Matches are distributed among these distances:
3 11 0.13
4 49 0.59
5 17 0.20
6 5 0.06
7 1 0.01
ACGTcount: A:0.20, C:0.05, G:0.04, T:0.71
Consensus pattern (4 bp):
TTTA
Found at i:22367334 original size:23 final size:23
Alignment explanation
Indices: 22367300--22367343 Score: 63
Period size: 23 Copynumber: 1.9 Consensus size: 23
22367290 TAACATTTGA
22367300 TATGCTTTAAATGCTAGCAAAAG
1 TATGCTTTAAATGCTAGCAAAAG
*
22367323 TATG-TTTCAAATGCTATCAAA
1 TATGCTTT-AAATGCTAGCAAA
22367344 GTAATATTTA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 3 0.16
23 16 0.84
ACGTcount: A:0.39, C:0.14, G:0.14, T:0.34
Consensus pattern (23 bp):
TATGCTTTAAATGCTAGCAAAAG
Found at i:22367356 original size:22 final size:22
Alignment explanation
Indices: 22367305--22367357 Score: 63
Period size: 23 Copynumber: 2.4 Consensus size: 22
22367295 TTTGATATGC
*
22367305 TTTAAATGCTAGCAAAAGTATG
1 TTTAAATGCTAGCAAAAGTATA
*
22367327 TTTCAAATGCTATC-AAAGTAATA
1 TTT-AAATGCTAGCAAAAGT-ATA
22367350 TTTAAATG
1 TTTAAATG
22367358 GTGTCTAAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
22 13 0.48
23 14 0.52
ACGTcount: A:0.42, C:0.09, G:0.13, T:0.36
Consensus pattern (22 bp):
TTTAAATGCTAGCAAAAGTATA
Found at i:22368186 original size:41 final size:40
Alignment explanation
Indices: 22368086--22368224 Score: 133
Period size: 41 Copynumber: 3.4 Consensus size: 40
22368076 GTTTGGACAG
* * *
22368086 AAAATGCCGCAAAAGGTAAAGCAATAGTGGCGTTTTTCCA-T-
1 AAAACGCCGCAAAAGGTAAAGCAATA-TGACGTTTAT--AGTA
* * *
22368127 AAAA-GTCGCAAAAGGTAAAGTAGTA-GCAGCGTTTATAGTA
1 AAAACGCCGCAAAAGGTAAAGCAATATG-A-CGTTTATAGTA
22368167 AAAACGCCGCAAAAGGTAAAGCAATATTGACGTTTATAGTA
1 AAAACGCCGCAAAAGGTAAAGCAATA-TGACGTTTATAGTA
*
22368208 AAAACGCCGCTAAAGGT
1 AAAACGCCGCAAAAGGT
22368225 CAGAGCATTA
Statistics
Matches: 82, Mismatches: 9, Indels: 14
0.78 0.09 0.13
Matches are distributed among these distances:
38 2 0.02
39 1 0.01
40 28 0.34
41 49 0.60
42 1 0.01
43 1 0.01
ACGTcount: A:0.41, C:0.15, G:0.22, T:0.22
Consensus pattern (40 bp):
AAAACGCCGCAAAAGGTAAAGCAATATGACGTTTATAGTA
Found at i:22368595 original size:41 final size:41
Alignment explanation
Indices: 22368212--22368593 Score: 500
Period size: 41 Copynumber: 9.3 Consensus size: 41
22368202 ATAGTAAAAA
*
22368212 CGCCGCTAAAGGTCAGAGCATTAGCGGCGCTTATGAGGAAG
1 CGCCGCTAAAGGTCAGAGCATTAGCGGCGTTTATGAGGAAG
* * *
22368253 TGCTGCTAAAGGTCAGAGCATTAGTGGCGTTTATGAGGAAG
1 CGCCGCTAAAGGTCAGAGCATTAGCGGCGTTTATGAGGAAG
* *
22368294 CGCTGCTAAAGTTCAGAGCATTAGCGGCGCTTT-TGAGGAAG
1 CGCCGCTAAAGGTCAGAGCATTAGCGGCG-TTTATGAGGAAG
* *
22368335 TGCCGCTAAAGGTCAGAGCATTAGCGGCGTTTATGAGTAAG
1 CGCCGCTAAAGGTCAGAGCATTAGCGGCGTTTATGAGGAAG
* * * *
22368376 CGCCGCTAAAGTTCAGAGCATTAGCGGCATTTATCAAGAAG
1 CGCCGCTAAAGGTCAGAGCATTAGCGGCGTTTATGAGGAAG
* *
22368417 CGCCGCTAAAGGTTAGAGTATTAGCGGCGTTTATGAGGAAG
1 CGCCGCTAAAGGTCAGAGCATTAGCGGCGTTTATGAGGAAG
*
22368458 CGCCGCTAAAGATCAGAGCATTAGCGGCGTTTATGAGGAAG
1 CGCCGCTAAAGGTCAGAGCATTAGCGGCGTTTATGAGGAAG
* * *
22368499 CGCCGCTAAAGGTCAAAG-ATTTAGCAGCGTTTATGAGAAAG
1 CGCCGCTAAAGGTCAGAGCA-TTAGCGGCGTTTATGAGGAAG
* * * * * *
22368540 AGCCACTAAAGGTTAGAGCATTAGCTGCATTTATG-GGAAAA
1 CGCCGCTAAAGGTCAGAGCATTAGCGGCGTTTATGAGG-AAG
22368581 CGCCGCTAAAGGT
1 CGCCGCTAAAGGT
22368594 TAAGCAATAG
Statistics
Matches: 296, Mismatches: 40, Indels: 10
0.86 0.12 0.03
Matches are distributed among these distances:
40 5 0.02
41 287 0.97
42 4 0.01
ACGTcount: A:0.29, C:0.18, G:0.30, T:0.23
Consensus pattern (41 bp):
CGCCGCTAAAGGTCAGAGCATTAGCGGCGTTTATGAGGAAG
Found at i:22370147 original size:21 final size:21
Alignment explanation
Indices: 22370122--22370167 Score: 67
Period size: 21 Copynumber: 2.2 Consensus size: 21
22370112 TGAATGTTTC
*
22370122 AAAATTAAAATTTAAACGG-AA
1 AAAATCAAAATTTAAA-GGCAA
22370143 AAAATCAAAATTTAAAGGCAA
1 AAAATCAAAATTTAAAGGCAA
22370164 AAAA
1 AAAA
22370168 GGCTCGTTTT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 2 0.09
21 21 0.91
ACGTcount: A:0.65, C:0.07, G:0.09, T:0.20
Consensus pattern (21 bp):
AAAATCAAAATTTAAAGGCAA
Found at i:22370580 original size:41 final size:41
Alignment explanation
Indices: 22370532--22370774 Score: 254
Period size: 41 Copynumber: 6.0 Consensus size: 41
22370522 TCCCATAAAC
* *
22370532 GCCGCTAAAAGTCAGAGCATTAACGGCGTTTATGAGAAAGT
1 GCCGCTAAAGGTCAGAGCATTAGCGGCGTTTATGAGAAAGT
* * **
22370573 GCCGCTAAATGTCAGAGCATTAGCGGCGTTTATGGGAAAAC
1 GCCGCTAAAGGTCAGAGCATTAGCGGCGTTTATGAGAAAGT
* * *
22370614 GCCGCTAAAGGTTAGAGCATTAGCGGGGTTTATGGGAAAGT
1 GCCGCTAAAGGTCAGAGCATTAGCGGCGTTTATGAGAAAGT
* * * * *
22370655 GCCGTTAAAGGTCAGAGTATTAGCGGCGTTTATTAAAAAGC
1 GCCGCTAAAGGTCAGAGCATTAGCGGCGTTTATGAGAAAGT
* * ** * *
22370696 ACCGTTAAAAATCAGAGCATTAACGGCGTTTATGA-AAAAT
1 GCCGCTAAAGGTCAGAGCATTAGCGGCGTTTATGAGAAAGT
* * * * *
22370736 GCCGCTAAAGGTCAAAGCGTTAGCGACGCTTATGGGAAA
1 GCCGCTAAAGGTCAGAGCATTAGCGGCGTTTATGAGAAA
22370775 AACGCCACTA
Statistics
Matches: 165, Mismatches: 36, Indels: 2
0.81 0.18 0.01
Matches are distributed among these distances:
40 28 0.17
41 137 0.83
ACGTcount: A:0.33, C:0.16, G:0.28, T:0.23
Consensus pattern (41 bp):
GCCGCTAAAGGTCAGAGCATTAGCGGCGTTTATGAGAAAGT
Found at i:22370646 original size:82 final size:82
Alignment explanation
Indices: 22370528--22370786 Score: 315
Period size: 82 Copynumber: 3.2 Consensus size: 82
22370518 TTTTTCCCAT
*
22370528 AAACGCCGCTAAAAGTCAGAGCATTAACGGCGTTTATGAGAAAGTGCCGCTAAATGTCAGAGCAT
1 AAACGCCGCTAAAAGTCAGAGCATTAACGGCGTTTATGAGAAAGTGCCGCTAAAGGTCAGAGCAT
22370593 TAGCGGCGTTTATGGGA
66 TAGCGGCGTTTATGGGA
* * * * * * *
22370610 AAACGCCGCTAAAGGTTAGAGCATTAGCGGGGTTTATGGGAAAGTGCCGTTAAAGGTCAGAGTAT
1 AAACGCCGCTAAAAGTCAGAGCATTAACGGCGTTTATGAGAAAGTGCCGCTAAAGGTCAGAGCAT
**
22370675 TAGCGGCGTTTAT-TAA
66 TAGCGGCGTTTATGGGA
* * * * * *
22370691 AAAGCACCGTTAAAAATCAGAGCATTAACGGCGTTTATGA-AAAATGCCGCTAAAGGTCAAAGCG
1 AAA-CGCCGCTAAAAGTCAGAGCATTAACGGCGTTTATGAGAAAGTGCCGCTAAAGGTCAGAGCA
* *
22370755 TTAGCGACGCTTATGGGAA
65 TTAGCGGCGTTTATGGG-A
*
22370774 AAACGCCACTAAA
1 AAACGCCGCTAAA
22370787 GATTAAACAA
Statistics
Matches: 144, Mismatches: 30, Indels: 6
0.80 0.17 0.03
Matches are distributed among these distances:
81 35 0.24
82 105 0.73
83 4 0.03
ACGTcount: A:0.34, C:0.17, G:0.27, T:0.22
Consensus pattern (82 bp):
AAACGCCGCTAAAAGTCAGAGCATTAACGGCGTTTATGAGAAAGTGCCGCTAAAGGTCAGAGCAT
TAGCGGCGTTTATGGGA
Found at i:22370787 original size:123 final size:123
Alignment explanation
Indices: 22370528--22370787 Score: 297
Period size: 123 Copynumber: 2.1 Consensus size: 123
22370518 TTTTTCCCAT
* * ** **
22370528 AAACGCCGCTAAAAGTCAGAGCATTAACGGCGTTTATGAGAAAGTGCCGCTAAATGTCAGAGCAT
1 AAACGCCGCTAAAGGTCAGAGCATTAACGGCGTTTATGAAAAAGCACCGCTAAAAATCAGAGCAT
* * * * ** *
22370593 TAGCGGCGTTTATGGGAAAACGCCGCTAAAGGTTAGAGCATTAGCGGGGTTTATGGGA
66 TAACGGCGTTTATGGAAAAACGCCGCTAAAGGTCAAAGCATTAGCGACGCTTATGGGA
** * * * * *
22370651 AAGTGCCGTTAAAGGTCAGAGTATTAGCGGCGTTTATTAAAAAGCACCGTTAAAAATCAGAGCAT
1 AAACGCCGCTAAAGGTCAGAGCATTAACGGCGTTTATGAAAAAGCACCGCTAAAAATCAGAGCAT
* *
22370716 TAACGGCGTTTAT-GAAAAATGCCGCTAAAGGTCAAAGCGTTAGCGACGCTTATGGGAA
66 TAACGGCGTTTATGGAAAAACGCCGCTAAAGGTCAAAGCATTAGCGACGCTTATGGG-A
*
22370774 AAACGCCACTAAAG
1 AAACGCCGCTAAAG
22370788 ATTAAACAAT
Statistics
Matches: 110, Mismatches: 26, Indels: 2
0.80 0.19 0.01
Matches are distributed among these distances:
122 35 0.32
123 75 0.68
ACGTcount: A:0.34, C:0.17, G:0.27, T:0.22
Consensus pattern (123 bp):
AAACGCCGCTAAAGGTCAGAGCATTAACGGCGTTTATGAAAAAGCACCGCTAAAAATCAGAGCAT
TAACGGCGTTTATGGAAAAACGCCGCTAAAGGTCAAAGCATTAGCGACGCTTATGGGA
Found at i:22374154 original size:43 final size:43
Alignment explanation
Indices: 22374093--22374233 Score: 165
Period size: 43 Copynumber: 3.3 Consensus size: 43
22374083 TTTGTTAATG
* * * * * *
22374093 TTAGCGGCGTTTATGGGAAAAGTGCCGCTGAATACCACGTTTT
1 TTAGCGACGTTTGTGGGAAAAGCGCCGCTAAAGATCACGTTTT
* *
22374136 TTAGCGACGTTTGTGGGAAAAGCGCCGCTAAAGATCACATTCT
1 TTAGCGACGTTTGTGGGAAAAGCGCCGCTAAAGATCACGTTTT
* * * *
22374179 TTAGCGGCATTTGTGGGGAAAGCACCGCTAAAGATCACGTTTT
1 TTAGCGACGTTTGTGGGAAAAGCGCCGCTAAAGATCACGTTTT
*
22374222 ATAGCGACGTTT
1 TTAGCGACGTTT
22374234 TCCCTCATAA
Statistics
Matches: 81, Mismatches: 17, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
43 81 1.00
ACGTcount: A:0.26, C:0.19, G:0.27, T:0.28
Consensus pattern (43 bp):
TTAGCGACGTTTGTGGGAAAAGCGCCGCTAAAGATCACGTTTT
Found at i:22377409 original size:18 final size:17
Alignment explanation
Indices: 22377380--22377428 Score: 62
Period size: 17 Copynumber: 2.8 Consensus size: 17
22377370 AACTATGAAA
* *
22377380 ACAAATAAAATGCAGGG
1 ACAAAAAAAATGCAAGG
*
22377397 ACAATAAAAAATGCAATG
1 ACAA-AAAAAATGCAAGG
22377415 ACAAAAAAAATGCA
1 ACAAAAAAAATGCA
22377429 TGCAACTAAC
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
17 14 0.50
18 14 0.50
ACGTcount: A:0.61, C:0.12, G:0.14, T:0.12
Consensus pattern (17 bp):
ACAAAAAAAATGCAAGG
Found at i:22377841 original size:15 final size:15
Alignment explanation
Indices: 22377814--22377865 Score: 63
Period size: 15 Copynumber: 3.5 Consensus size: 15
22377804 GGGTAAAATA
22377814 TTCTTCTTCTTTTTCT
1 TTCTTC-TCTTTTTCT
*
22377830 TCCTTCTCTTTTT-T
1 TTCTTCTCTTTTTCT
22377844 TTCTTCT-TATTTTCT
1 TTCTTCTCT-TTTTCT
22377859 TTCTTCT
1 TTCTTCT
22377866 TCTTCTGCTT
Statistics
Matches: 32, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
13 1 0.03
14 11 0.34
15 15 0.47
16 5 0.16
ACGTcount: A:0.02, C:0.25, G:0.00, T:0.73
Consensus pattern (15 bp):
TTCTTCTCTTTTTCT
Found at i:22392055 original size:21 final size:21
Alignment explanation
Indices: 22392031--22392104 Score: 64
Period size: 21 Copynumber: 3.5 Consensus size: 21
22392021 GTTTTTAGTA
22392031 TCGGTAGAAGTAAGACTTGTT
1 TCGGTAGAAGTAAGACTTGTT
22392052 TCGGTAGAAG--AGCCACTTGTAT
1 TCGGTAGAAGTAAG--ACTTGT-T
* ** *
22392074 T-GGTAGAACTATCACTTGTA
1 TCGGTAGAAGTAAGACTTGTT
22392094 TCGGTAGAAGT
1 TCGGTAGAAGT
22392105 CTGCACTATT
Statistics
Matches: 42, Mismatches: 5, Indels: 12
0.71 0.08 0.20
Matches are distributed among these distances:
19 2 0.05
20 1 0.02
21 37 0.88
22 2 0.05
ACGTcount: A:0.28, C:0.14, G:0.27, T:0.31
Consensus pattern (21 bp):
TCGGTAGAAGTAAGACTTGTT
Found at i:22397835 original size:18 final size:18
Alignment explanation
Indices: 22397809--22397856 Score: 51
Period size: 18 Copynumber: 2.7 Consensus size: 18
22397799 GCCTGATCAC
* *
22397809 ATGCGATCACATACCCAG
1 ATGCAATCACATAACCAG
* *
22397827 ATGCAATCATATAATCAG
1 ATGCAATCACATAACCAG
*
22397845 ATGCAACCACAT
1 ATGCAATCACAT
22397857 GTTCGAATGT
Statistics
Matches: 24, Mismatches: 6, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.40, C:0.27, G:0.12, T:0.21
Consensus pattern (18 bp):
ATGCAATCACATAACCAG
Found at i:22403390 original size:22 final size:22
Alignment explanation
Indices: 22403363--22403414 Score: 68
Period size: 22 Copynumber: 2.4 Consensus size: 22
22403353 CAAATGAACG
*
22403363 GAGAGCACCAAGGTGCTAAACA
1 GAGAGCACAAAGGTGCTAAACA
* * *
22403385 GAGAGCATAAATGTGCTAAATA
1 GAGAGCACAAAGGTGCTAAACA
22403407 GAGAGCAC
1 GAGAGCAC
22403415 TTTGCGTGCT
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.42, C:0.17, G:0.27, T:0.13
Consensus pattern (22 bp):
GAGAGCACAAAGGTGCTAAACA
Found at i:22405989 original size:13 final size:13
Alignment explanation
Indices: 22405971--22405995 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
22405961 AAGTTGTTCT
22405971 GACAAATTTATCA
1 GACAAATTTATCA
22405984 GACAAATTTATC
1 GACAAATTTATC
22405996 TATACACCTG
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:0.44, C:0.16, G:0.08, T:0.32
Consensus pattern (13 bp):
GACAAATTTATCA
Found at i:22412225 original size:21 final size:22
Alignment explanation
Indices: 22412196--22412272 Score: 97
Period size: 21 Copynumber: 3.6 Consensus size: 22
22412186 GGAATTTTTA
*
22412196 GTATCGGTAGAAGTAAT-ACTT
1 GTATCGGTAGAAGTAGTCACTT
*
22412217 GTTTCGGTAGAAG-AGTCACTT
1 GTATCGGTAGAAGTAGTCACTT
* *
22412238 GTATCAGTAGAACT-GTCACTT
1 GTATCGGTAGAAGTAGTCACTT
22412259 GTATCGGTAGAAGT
1 GTATCGGTAGAAGT
22412273 CTGCACTATT
Statistics
Matches: 47, Mismatches: 7, Indels: 4
0.81 0.12 0.07
Matches are distributed among these distances:
20 2 0.04
21 45 0.96
ACGTcount: A:0.29, C:0.13, G:0.26, T:0.32
Consensus pattern (22 bp):
GTATCGGTAGAAGTAGTCACTT
Found at i:22416791 original size:14 final size:14
Alignment explanation
Indices: 22416760--22416791 Score: 55
Period size: 14 Copynumber: 2.3 Consensus size: 14
22416750 AGAAGAACAG
*
22416760 AAAAGAAAAAGAGA
1 AAAAGAAAAAGAAA
22416774 AAAAGAAAAAGAAA
1 AAAAGAAAAAGAAA
22416788 AAAA
1 AAAA
22416792 ATCGAATGTC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.84, C:0.00, G:0.16, T:0.00
Consensus pattern (14 bp):
AAAAGAAAAAGAAA
Found at i:22417221 original size:151 final size:152
Alignment explanation
Indices: 22417012--22417356 Score: 429
Period size: 152 Copynumber: 2.3 Consensus size: 152
22417002 TTTTTACCCC
* * *
22417012 AAACCTCCAAACCTTTTTACTTTTCCCCCAAAACTTTTACTCCCCTTCCATCCTACCCCCATATA
1 AAACCCCCAAAACTTTTTA-TTTTCCCCCAAAACTTTTACTCCCCTT-CATCCCACCCCCATATA
*
22417077 -CCCTAAACCCATTTCCCC-CGAATTTTTT-TAATATTTTCCCTCCAAAATTTTACT-CCCC-AT
64 TCCC-AAACCCA-TTCCCCTCG--TTTTTTGGAATATTTTCCCTCCAAAATTTTACTCCCCCTAT
22417137 TTACTTTCCCCCAAAATTTTACT-CC-CAA
125 TTACTTTCCCCC-AAATTTTACTACCTC-A
* * *
22417165 AAACCCTCAAAA-TATTTTATTTTCCCCCAAAACTTTTACTCACCCTT-ATCCCACCCCTATCTA
1 AAACCCCCAAAACT-TTTTATTTTCCCCCAAAACTTTTACTC-CCCTTCATCCCACCCCCATATA
* *
22417228 TCCCAAACTCATTCCCCTCGTTTTTTGGAATATTTTTCCTCCAAAATTTTACTCCCCCTATTTAC
64 TCCCAAACCCATTCCCCTCGTTTTTTGGAATATTTTCCCTCCAAAATTTTACTCCCCCTATTTAC
*
22417293 TTTCCCTCAAATTTTACTACCTCA
129 TTTCCCCCAAATTTTACTACCTCA
* *
22417317 TAACCCCCAAAACTTTTTATTTTCCCCCTAAACTTTTACT
1 AAACCCCCAAAACTTTTTATTTTCCCCCAAAACTTTTACT
22417357 TCTCACCCTT
Statistics
Matches: 169, Mismatches: 13, Indels: 21
0.83 0.06 0.10
Matches are distributed among these distances:
149 6 0.04
150 30 0.18
151 35 0.21
152 77 0.46
153 21 0.12
ACGTcount: A:0.26, C:0.36, G:0.01, T:0.37
Consensus pattern (152 bp):
AAACCCCCAAAACTTTTTATTTTCCCCCAAAACTTTTACTCCCCTTCATCCCACCCCCATATATC
CCAAACCCATTCCCCTCGTTTTTTGGAATATTTTCCCTCCAAAATTTTACTCCCCCTATTTACTT
TCCCCCAAATTTTACTACCTCA
Found at i:22421485 original size:20 final size:19
Alignment explanation
Indices: 22421460--22421515 Score: 55
Period size: 16 Copynumber: 3.0 Consensus size: 19
22421450 ATTTATATCA
22421460 AATATTTATATTATTAAATT
1 AATATTTATATTATT-AATT
* *
22421480 AATATTCATATT-TT--GT
1 AATATTTATATTATTAATT
22421496 AATATTTATATTATTGAATT
1 AATATTTATATTATT-AATT
22421516 GTTTAATTAT
Statistics
Matches: 28, Mismatches: 4, Indels: 8
0.70 0.10 0.20
Matches are distributed among these distances:
16 12 0.43
17 2 0.07
19 2 0.07
20 12 0.43
ACGTcount: A:0.39, C:0.02, G:0.04, T:0.55
Consensus pattern (19 bp):
AATATTTATATTATTAATT
Found at i:22421542 original size:18 final size:18
Alignment explanation
Indices: 22421496--22421542 Score: 55
Period size: 17 Copynumber: 2.7 Consensus size: 18
22421486 CATATTTTGT
22421496 AATATTTATA-T-TATTG
1 AATATTTATATTATATTG
*
22421512 AATTGTTTA-ATTATATTG
1 AA-TATTTATATTATATTG
22421530 AATATTTATATTA
1 AATATTTATATTA
22421543 AAATTGAATT
Statistics
Matches: 25, Mismatches: 2, Indels: 6
0.76 0.06 0.18
Matches are distributed among these distances:
16 3 0.12
17 11 0.44
18 11 0.44
ACGTcount: A:0.38, C:0.00, G:0.06, T:0.55
Consensus pattern (18 bp):
AATATTTATATTATATTG
Found at i:22434698 original size:27 final size:27
Alignment explanation
Indices: 22434666--22434724 Score: 100
Period size: 27 Copynumber: 2.2 Consensus size: 27
22434656 ATTATAATAG
*
22434666 CTAATTCCTAATAATTAGAAATTAAAT
1 CTAATTCCTAATAATCAGAAATTAAAT
*
22434693 CTAATTCTTAATAATCAGAAATTAAAT
1 CTAATTCCTAATAATCAGAAATTAAAT
22434720 CTAAT
1 CTAAT
22434725 ATTCTAAATA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
27 30 1.00
ACGTcount: A:0.47, C:0.12, G:0.03, T:0.37
Consensus pattern (27 bp):
CTAATTCCTAATAATCAGAAATTAAAT
Found at i:22440202 original size:25 final size:23
Alignment explanation
Indices: 22440161--22440206 Score: 65
Period size: 25 Copynumber: 1.9 Consensus size: 23
22440151 TCAATTAGGG
22440161 AATTATTGTTTAGATTTAATTCA
1 AATTATTGTTTAGATTTAATTCA
*
22440184 AATTATTTTTTTAGAATTTAATT
1 AATTA-TTGTTTAG-ATTTAATT
22440207 TGAATCCAAC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 5 0.25
24 7 0.35
25 8 0.40
ACGTcount: A:0.35, C:0.02, G:0.07, T:0.57
Consensus pattern (23 bp):
AATTATTGTTTAGATTTAATTCA
Found at i:22446781 original size:11 final size:11
Alignment explanation
Indices: 22446767--22446799 Score: 50
Period size: 11 Copynumber: 3.1 Consensus size: 11
22446757 TTATTTTTCT
22446767 AAAAAAATTGA
1 AAAAAAATTGA
22446778 AAAAAAATT-A
1 AAAAAAATTGA
*
22446788 AAAAAATTTGA
1 AAAAAAATTGA
22446799 A
1 A
22446800 TTTTTTTTTG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
10 9 0.45
11 11 0.55
ACGTcount: A:0.73, C:0.00, G:0.06, T:0.21
Consensus pattern (11 bp):
AAAAAAATTGA
Found at i:22447828 original size:11 final size:11
Alignment explanation
Indices: 22447801--22447865 Score: 62
Period size: 10 Copynumber: 5.7 Consensus size: 11
22447791 AAAAAAAGAC
*
22447801 AAAAAAATCG-
1 AAAAAAATTGA
22447811 AAAAAAATTGAAA
1 AAAAAAATTG--A
22447824 AAAAAGAATTGA
1 AAAAA-AATTGA
22447836 AAAAAAATTGA
1 AAAAAAATTGA
*
22447847 GAAAAAAAAT-A
1 -AAAAAAATTGA
22447858 AAAAAAAT
1 AAAAAAAT
22447866 AAAAGTGTGT
Statistics
Matches: 47, Mismatches: 3, Indels: 10
0.78 0.05 0.17
Matches are distributed among these distances:
10 16 0.34
11 7 0.15
12 14 0.30
13 5 0.11
14 5 0.11
ACGTcount: A:0.75, C:0.02, G:0.09, T:0.14
Consensus pattern (11 bp):
AAAAAAATTGA
Found at i:22447833 original size:14 final size:13
Alignment explanation
Indices: 22447811--22447864 Score: 62
Period size: 13 Copynumber: 4.4 Consensus size: 13
22447801 AAAAAAATCG
22447811 AAAAAAATTGAAA
1 AAAAAAATTGAAA
22447824 AAAAAGAATTG--A
1 AAAAA-AATTGAAA
*
22447836 AAAAAAATTGAGA
1 AAAAAAATTGAAA
22447849 AAAAAAA-T-AAA
1 AAAAAAATTGAAA
22447860 AAAAA
1 AAAAA
22447865 TAAAAGTGTG
Statistics
Matches: 37, Mismatches: 1, Indels: 8
0.80 0.02 0.17
Matches are distributed among these distances:
11 12 0.32
12 7 0.19
13 13 0.35
14 5 0.14
ACGTcount: A:0.78, C:0.00, G:0.09, T:0.13
Consensus pattern (13 bp):
AAAAAAATTGAAA
Found at i:22447845 original size:25 final size:22
Alignment explanation
Indices: 22447801--22447865 Score: 76
Period size: 25 Copynumber: 2.8 Consensus size: 22
22447791 AAAAAAAGAC
*
22447801 AAAAAAATCGAAAAAAATTGAAA
1 AAAAAAAT-AAAAAAAATTGAAA
*
22447824 AAAAAGAATTGAAAAAAAATTGAGA
1 AAAAA-AA-T-AAAAAAAATTGAAA
22447849 AAAAAAATAAAAAAAAT
1 AAAAAAATAAAAAAAAT
22447866 AAAAGTGTGT
Statistics
Matches: 37, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
22 9 0.24
23 6 0.16
24 4 0.11
25 18 0.49
ACGTcount: A:0.75, C:0.02, G:0.09, T:0.14
Consensus pattern (22 bp):
AAAAAAATAAAAAAAATTGAAA
Found at i:22448209 original size:9 final size:9
Alignment explanation
Indices: 22448195--22448221 Score: 54
Period size: 9 Copynumber: 3.0 Consensus size: 9
22448185 ACCTTAAACA
22448195 CTTTGAGTG
1 CTTTGAGTG
22448204 CTTTGAGTG
1 CTTTGAGTG
22448213 CTTTGAGTG
1 CTTTGAGTG
22448222 AATCTTTAGT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 18 1.00
ACGTcount: A:0.11, C:0.11, G:0.33, T:0.44
Consensus pattern (9 bp):
CTTTGAGTG
Found at i:22448920 original size:25 final size:23
Alignment explanation
Indices: 22448879--22448924 Score: 65
Period size: 25 Copynumber: 1.9 Consensus size: 23
22448869 TCAATTAGGG
22448879 AATTATTGTTTAGATTTAATTCA
1 AATTATTGTTTAGATTTAATTCA
*
22448902 AATTATCTTTTTAGAATTTAATT
1 AATTAT-TGTTTAG-ATTTAATT
22448925 TGGATCCAAC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 6 0.30
24 6 0.30
25 8 0.40
ACGTcount: A:0.35, C:0.04, G:0.07, T:0.54
Consensus pattern (23 bp):
AATTATTGTTTAGATTTAATTCA
Found at i:22469689 original size:75 final size:76
Alignment explanation
Indices: 22469556--22469711 Score: 251
Period size: 75 Copynumber: 2.1 Consensus size: 76
22469546 AACTAAAGAA
* * * * *
22469556 ACAAGTAATGATGTGAGGTTTCGAACTTTGAGGGATCGAAAAATAGCTTGTTGGAAGAATCGTCT
1 ACAAGTAATGATGTGAGCTTCCGAACTTTAAGGGATCGAAAAATAGCTTGCTGAAAGAATCGTCT
22469621 TGAAATGGTTC
66 TGAAATGGTTC
*
22469632 ACAAG-AATGATGTGAGCTTCCGAACTTTAAGGGTTCGAAAAATAGCTTGCTGAAAGAATCGTCT
1 ACAAGTAATGATGTGAGCTTCCGAACTTTAAGGGATCGAAAAATAGCTTGCTGAAAGAATCGTCT
22469696 TGAAATGGTTC
66 TGAAATGGTTC
22469707 ACAAG
1 ACAAG
22469712 GTAGAAACCT
Statistics
Matches: 74, Mismatches: 6, Indels: 1
0.91 0.07 0.01
Matches are distributed among these distances:
75 69 0.93
76 5 0.07
ACGTcount: A:0.33, C:0.13, G:0.26, T:0.28
Consensus pattern (76 bp):
ACAAGTAATGATGTGAGCTTCCGAACTTTAAGGGATCGAAAAATAGCTTGCTGAAAGAATCGTCT
TGAAATGGTTC
Found at i:22470904 original size:50 final size:50
Alignment explanation
Indices: 22470791--22470904 Score: 122
Period size: 50 Copynumber: 2.3 Consensus size: 50
22470781 TGATTTAATA
* *
22470791 ATGCAAACTTTAACTAACATGGGAGTTACATAATGCATGATAGGATTTATG
1 ATGCAAAC-TTAACTAACATGGAAGTTACATAATGCATGATAGGACTTATG
* * * * * **
22470842 ATACATATTTAACTAACATGTAAGTTACTTAATGCATG-TCATTACTTATG
1 ATGCAAACTTAACTAACATGGAAGTTACATAATGCATGAT-AGGACTTATG
22470892 ATGCAAACTTAAC
1 ATGCAAACTTAAC
22470905 CGATATTACA
Statistics
Matches: 50, Mismatches: 12, Indels: 3
0.77 0.18 0.05
Matches are distributed among these distances:
49 1 0.02
50 44 0.88
51 5 0.10
ACGTcount: A:0.38, C:0.14, G:0.14, T:0.34
Consensus pattern (50 bp):
ATGCAAACTTAACTAACATGGAAGTTACATAATGCATGATAGGACTTATG
Found at i:22471125 original size:17 final size:17
Alignment explanation
Indices: 22471094--22471126 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
22471084 CGAACACTTA
22471094 TTAAACTAAAATAAAAC
1 TTAAACTAAAATAAAAC
22471111 TTAAA-TAAAATTAAAA
1 TTAAACTAAAA-TAAAA
22471127 TGTCCTTAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 5 0.33
17 10 0.67
ACGTcount: A:0.67, C:0.06, G:0.00, T:0.27
Consensus pattern (17 bp):
TTAAACTAAAATAAAAC
Found at i:22473633 original size:28 final size:26
Alignment explanation
Indices: 22473561--22473680 Score: 74
Period size: 27 Copynumber: 4.6 Consensus size: 26
22473551 AATACTCGAA
* * *
22473561 TTTTTTTC-ATCTTTCAATTTTTTTA
1 TTTTTTTCAAACTTTCGATTTTTTTT
22473586 TTTTTTT--AA--TTCGAATTTTTTTCTT
1 TTTTTTTCAAACTTTCG-A-TTTTTT-TT
*
22473611 TTTTTTTCAAACTTT-GAAATTTTTTTA
1 TTTTTTTCAAACTTTCG--ATTTTTTTT
*
22473638 TTTTTTTCAATA-TTTCGGTTTTTTTTT
1 TTTTTTTCAA-ACTTTC-GATTTTTTTT
22473665 CTTTTTTTCAAACTTT
1 -TTTTTTTCAAACTTT
22473681 TTTTTTCAAT
Statistics
Matches: 76, Mismatches: 6, Indels: 23
0.72 0.06 0.22
Matches are distributed among these distances:
22 3 0.04
23 1 0.01
24 7 0.09
25 15 0.20
27 24 0.32
28 21 0.28
29 5 0.07
ACGTcount: A:0.17, C:0.10, G:0.03, T:0.69
Consensus pattern (26 bp):
TTTTTTTCAAACTTTCGATTTTTTTT
Found at i:22473680 original size:55 final size:52
Alignment explanation
Indices: 22473576--22473680 Score: 142
Period size: 55 Copynumber: 2.0 Consensus size: 52
22473566 TTCATCTTTC
22473576 AATTTTTTTATTTTTTTAATTCGAATTTTTTTCTTTTTTTTTCAAACTTTGA
1 AATTTTTTTATTTTTTTAATTCGAATTTTTTTCTTTTTTTTTCAAACTTTGA
*
22473628 AATTTTTTTATTTTTTTCAATATTTCG-GTTTTTTT-TTCTTTTTTTCAAACTTT
1 AATTTTTTTATTTTTTT--A-A-TTCGAATTTTTTTCTT-TTTTTTTCAAACTTT
22473681 TTTTTTCAAT
Statistics
Matches: 47, Mismatches: 1, Indels: 7
0.85 0.02 0.13
Matches are distributed among these distances:
52 17 0.36
54 3 0.06
55 23 0.49
56 4 0.09
ACGTcount: A:0.19, C:0.09, G:0.04, T:0.69
Consensus pattern (52 bp):
AATTTTTTTATTTTTTTAATTCGAATTTTTTTCTTTTTTTTTCAAACTTTGA
Found at i:22473686 original size:27 final size:26
Alignment explanation
Indices: 22473601--22473686 Score: 77
Period size: 28 Copynumber: 3.2 Consensus size: 26
22473591 TTAATTCGAA
*
22473601 TTTTTTTCTTTTTTTTTCAAACTTTG
1 TTTTTTTTTTTTTTTTTCAAACTTTG
** *
22473627 AAATTTTTTTATTTTTTTCAATA-TTTCGG
1 -TTTTTTTTTTTTTTTTTCAA-ACTTT--G
*
22473656 TTTTTTTTTCTTTTTTTCAAACTTT-
1 TTTTTTTTTTTTTTTTTCAAACTTTG
22473681 TTTTTT
1 TTTTTT
22473687 CAATTTTTTG
Statistics
Matches: 48, Mismatches: 7, Indels: 10
0.74 0.11 0.15
Matches are distributed among these distances:
25 6 0.12
27 20 0.42
28 21 0.44
29 1 0.02
ACGTcount: A:0.15, C:0.09, G:0.03, T:0.72
Consensus pattern (26 bp):
TTTTTTTTTTTTTTTTTCAAACTTTG
Found at i:22473693 original size:23 final size:22
Alignment explanation
Indices: 22473656--22473700 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
22473646 AATATTTCGG
*
22473656 TTTTTTTTTCTTTTTTTCAAAC
1 TTTTTTTTTCATTTTTTCAAAC
*
22473678 TTTTTTTTTCAATTTTTTGAAAC
1 TTTTTTTTTC-ATTTTTTCAAAC
22473701 ACGAAATAAC
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
22 10 0.50
23 10 0.50
ACGTcount: A:0.18, C:0.11, G:0.02, T:0.69
Consensus pattern (22 bp):
TTTTTTTTTCATTTTTTCAAAC
Found at i:22473884 original size:75 final size:75
Alignment explanation
Indices: 22473761--22473906 Score: 229
Period size: 75 Copynumber: 1.9 Consensus size: 75
22473751 TCTGATACCA
*
22473761 AATGAGGTGAGCTTTCGAACTTTGAGGGTTCAAAAAACAGCTTGTTGGAAGAATCGTCTTGAAAT
1 AATGAGGTGAACTTTCGAACTTTGAGGGTTCAAAAAACAGCTTGTTGGAAGAATCGTCTTGAAAT
*
22473826 GGTTCATAAG
66 GATTCATAAG
* * ** *
22473836 AATGATGTGAACTTTTGAACTTTGAGGGTTCGTAAAATAGCTTGTTGGAAGAATCGTCTTGAAAT
1 AATGAGGTGAACTTTCGAACTTTGAGGGTTCAAAAAACAGCTTGTTGGAAGAATCGTCTTGAAAT
22473901 GATTCA
66 GATTCA
22473907 CAAGGTAGAA
Statistics
Matches: 64, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
75 64 1.00
ACGTcount: A:0.32, C:0.11, G:0.25, T:0.32
Consensus pattern (75 bp):
AATGAGGTGAACTTTCGAACTTTGAGGGTTCAAAAAACAGCTTGTTGGAAGAATCGTCTTGAAAT
GATTCATAAG
Found at i:22475054 original size:50 final size:52
Alignment explanation
Indices: 22474968--22475065 Score: 146
Period size: 50 Copynumber: 1.9 Consensus size: 52
22474958 TGCATGACTT
*
22474968 GATTTAATGATGCAAACTTTAACTAACATGGGAGTTACATAATGCATGATAG
1 GATTTAATGATGCAAACTTTAACTAACATGGAAGTTACATAATGCATGATAG
* * *
22475020 GATTT-ATGATGCATA-TTTAACTAACATGTAAGTTACTTAATGCATG
1 GATTTAATGATGCAAACTTTAACTAACATGGAAGTTACATAATGCATG
22475066 TCATTATTAT
Statistics
Matches: 42, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
50 28 0.67
51 9 0.21
52 5 0.12
ACGTcount: A:0.37, C:0.11, G:0.17, T:0.35
Consensus pattern (52 bp):
GATTTAATGATGCAAACTTTAACTAACATGGAAGTTACATAATGCATGATAG
Found at i:22475104 original size:50 final size:50
Alignment explanation
Indices: 22474968--22475104 Score: 145
Period size: 50 Copynumber: 2.7 Consensus size: 50
22474958 TGCATGACTT
*
22474968 GATTTAATGATGCAAACTTTAACTAACATGGGAGTTACATAATGCATGATAG
1 GATTT-ATGATGCAAAC-TTAACTAACATGAGAGTTACATAATGCATGATAG
* * * *
22475020 GATTTATGATGCATATTTAACTAACATGTA-AGTTACTTAATGCATG-TCAT
1 GATTTATGATGCAAACTTAACTAACATG-AGAGTTACATAATGCATGAT-AG
* *
22475070 TA-TTATGATGCAAACTTAACTGATCATGAGAGTTA
1 GATTTATGATGCAAACTTAACT-AACATGAGAGTTA
22475105 ATGGATGTCA
Statistics
Matches: 72, Mismatches: 9, Indels: 10
0.79 0.10 0.11
Matches are distributed among these distances:
49 19 0.26
50 39 0.54
51 9 0.12
52 5 0.07
ACGTcount: A:0.36, C:0.12, G:0.17, T:0.35
Consensus pattern (50 bp):
GATTTATGATGCAAACTTAACTAACATGAGAGTTACATAATGCATGATAG
Found at i:22475291 original size:19 final size:19
Alignment explanation
Indices: 22475267--22475304 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
22475257 AAAACACTTA
22475267 ATGCAAGACA-TAATTAAAC
1 ATGCAA-ACACTAATTAAAC
*
22475286 ATGCAAACACTTATTAAAC
1 ATGCAAACACTAATTAAAC
22475305 TAAAATAAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
18 3 0.18
19 14 0.82
ACGTcount: A:0.50, C:0.18, G:0.08, T:0.24
Consensus pattern (19 bp):
ATGCAAACACTAATTAAAC
Found at i:22475330 original size:17 final size:17
Alignment explanation
Indices: 22475299--22475331 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
22475289 CAAACACTTA
22475299 TTAAACTAAAATAAAAC
1 TTAAACTAAAATAAAAC
22475316 TTAAA-TAAAATTAAAA
1 TTAAACTAAAA-TAAAA
22475332 AGTCCTTAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 5 0.33
17 10 0.67
ACGTcount: A:0.67, C:0.06, G:0.00, T:0.27
Consensus pattern (17 bp):
TTAAACTAAAATAAAAC
Found at i:22475619 original size:17 final size:17
Alignment explanation
Indices: 22475599--22475645 Score: 51
Period size: 17 Copynumber: 2.8 Consensus size: 17
22475589 GACAATGTAG
*
22475599 ATGCAGCGACAATAAAA
1 ATGCAGAGACAATAAAA
* *
22475616 ATGCA-ATGACATTAATA
1 ATGCAGA-GACAATAAAA
22475633 ATGCAGAGACAAT
1 ATGCAGAGACAAT
22475646 TATACTACAG
Statistics
Matches: 24, Mismatches: 4, Indels: 4
0.75 0.12 0.12
Matches are distributed among these distances:
17 23 0.96
18 1 0.04
ACGTcount: A:0.49, C:0.15, G:0.17, T:0.19
Consensus pattern (17 bp):
ATGCAGAGACAATAAAA
Found at i:22475637 original size:34 final size:34
Alignment explanation
Indices: 22475580--22475645 Score: 89
Period size: 34 Copynumber: 1.9 Consensus size: 34
22475570 ATATATATTG
* *
22475580 AAATGCAATGACAATGTAGATGCAGCGACAATAA
1 AAATGCAATGACAATATAGATGCAGAGACAATAA
*
22475614 AAATGCAATGACATTAATA-ATGCAGAGACAAT
1 AAATGCAATGACAAT-ATAGATGCAGAGACAAT
22475646 TATACTACAG
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
34 26 0.93
35 2 0.07
ACGTcount: A:0.48, C:0.14, G:0.18, T:0.20
Consensus pattern (34 bp):
AAATGCAATGACAATATAGATGCAGAGACAATAA
Found at i:22477834 original size:14 final size:14
Alignment explanation
Indices: 22477815--22477841 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
22477805 AACATAATCA
22477815 AGGTTAAATGTCAG
1 AGGTTAAATGTCAG
22477829 AGGTTAAATGTCA
1 AGGTTAAATGTCA
22477842 ATGTACTGAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.37, C:0.07, G:0.26, T:0.30
Consensus pattern (14 bp):
AGGTTAAATGTCAG
Found at i:22483177 original size:48 final size:48
Alignment explanation
Indices: 22483054--22483177 Score: 185
Period size: 48 Copynumber: 2.6 Consensus size: 48
22483044 TATTTATGTT
* *
22483054 TCATTAAGTGTTTTTTTTTGTTAAATGAATCTTTGTTTAATAATCTGCA
1 TCATTAAGTG-TTTTGTTTGTTAAATGCATCTTTGTTTAATAATCTGCA
* *
22483103 TCATTAAGTATTTTGTTTGTTAAATGCATCTTTGTTTAGTAATCTGCA
1 TCATTAAGTGTTTTGTTTGTTAAATGCATCTTTGTTTAATAATCTGCA
* *
22483151 TTATTAACTGTTTTGTTTGTTAAATGC
1 TCATTAAGTGTTTTGTTTGTTAAATGC
22483178 TTTGTTAAAT
Statistics
Matches: 68, Mismatches: 7, Indels: 1
0.89 0.09 0.01
Matches are distributed among these distances:
48 59 0.87
49 9 0.13
ACGTcount: A:0.25, C:0.09, G:0.14, T:0.52
Consensus pattern (48 bp):
TCATTAAGTGTTTTGTTTGTTAAATGCATCTTTGTTTAATAATCTGCA
Found at i:22494183 original size:51 final size:50
Alignment explanation
Indices: 22494122--22494259 Score: 163
Period size: 50 Copynumber: 2.7 Consensus size: 50
22494112 TGCATGACTT
*
22494122 GATTTAATGATGCAAACTTTAACTAACATGGGAGTTACATAATGCATGAT-AG
1 GATTT-ATGATGCAAA-TTTAACTAACATGAGAGTTACATAATGCATG-TCAG
* * *
22494174 GATTTATGATGCATATTTAACTAACATGTA-AGTTACTTAATGCATGTCAT
1 GATTTATGATGCAAATTTAACTAACATG-AGAGTTACATAATGCATGTCAG
* *
22494224 TATTTATGATGCAAATTTAACTGATCATGAGAGTTA
1 GATTTATGATGCAAATTTAACT-AACATGAGAGTTA
22494260 ATGGATGTCA
Statistics
Matches: 75, Mismatches: 7, Indels: 9
0.82 0.08 0.10
Matches are distributed among these distances:
49 1 0.01
50 50 0.67
51 19 0.25
52 5 0.07
ACGTcount: A:0.36, C:0.11, G:0.17, T:0.36
Consensus pattern (50 bp):
GATTTATGATGCAAATTTAACTAACATGAGAGTTACATAATGCATGTCAG
Found at i:22494485 original size:17 final size:17
Alignment explanation
Indices: 22494454--22494486 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
22494444 CAAACACTTA
22494454 TTAAACTAAAATAAAAC
1 TTAAACTAAAATAAAAC
22494471 TTAAA-TAAAATTAAAA
1 TTAAACTAAAA-TAAAA
22494487 AGTCCTTAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 5 0.33
17 10 0.67
ACGTcount: A:0.67, C:0.06, G:0.00, T:0.27
Consensus pattern (17 bp):
TTAAACTAAAATAAAAC
Found at i:22495136 original size:30 final size:30
Alignment explanation
Indices: 22494996--22495139 Score: 139
Period size: 30 Copynumber: 4.8 Consensus size: 30
22494986 TAAATCTGAA
* * *
22494996 TTTTTGGAAAATTTG-GGATCAAATTGGAAT
1 TTTTTAGAAAATTTGAGGGTCAAATT-CAAT
*
22495026 TTTTGA-AAAATTTGAGGGTCAAATTCAAT
1 TTTTTAGAAAATTTGAGGGTCAAATTCAAT
* * * *
22495055 TTTTTAGAAAATTCGGGGGTTAAATTCAAA
1 TTTTTAGAAAATTTGAGGGTCAAATTCAAT
*
22495085 TTTTTGGAAAATTATGAGGGTCAAATTCAAT
1 TTTTTAGAAAATT-TGAGGGTCAAATTCAAT
* * * *
22495116 TTTTTTGATAGTTTGGGGGTCAAA
1 TTTTTAGAAAATTTGAGGGTCAAA
22495140 AAGCAAATTT
Statistics
Matches: 93, Mismatches: 18, Indels: 6
0.79 0.15 0.05
Matches are distributed among these distances:
29 16 0.17
30 54 0.58
31 23 0.25
ACGTcount: A:0.33, C:0.06, G:0.22, T:0.40
Consensus pattern (30 bp):
TTTTTAGAAAATTTGAGGGTCAAATTCAAT
Found at i:22496653 original size:40 final size:40
Alignment explanation
Indices: 22496489--22497024 Score: 512
Period size: 40 Copynumber: 13.5 Consensus size: 40
22496479 TCTTGACTAG
* *
22496489 GGGTAAAAGATTGGATGGTCTTCAATCTGCCCCTCTTGACTA
1 GGGTAAAAGATTGGATGGTCTTCAATCTG-CCCTCTAG-TTA
* * * * *
22496531 GGGTAATAGATTGGATTG-CTTCAATTTGCCCTATGGTTA
1 GGGTAAAAGATTGGATGGTCTTCAATCTGCCCTCTAGTTA
* * * **
22496570 GGGTAAAAGATTGGATTG-CTTCAATTTGCCC-CATGGTCG
1 GGGTAAAAGATTGGATGGTCTTCAATCTGCCCTC-TAGTTA
* *
22496609 GGGTAAGAGATTGGATGGTCTTCAATCTGCCTTCTAGTTA
1 GGGTAAAAGATTGGATGGTCTTCAATCTGCCCTCTAGTTA
* *
22496649 GGGTAAAAGATTGGATTG-CTTCAATCTGCCC-C-ATGGTA
1 GGGTAAAAGATTGGATGGTCTTCAATCTGCCCTCTA-GTTA
*
22496687 GGGGTAAGAGATTGGATGGTCTTCAATCTGCCCTCTAGTTA
1 -GGGTAAAAGATTGGATGGTCTTCAATCTGCCCTCTAGTTA
* * * **
22496728 GGGTAAAAGCTTGGAT--TACTTCAATCTGCCC-CACAATCG
1 GGGTAAAAGATTGGATGGT-CTTCAATCTGCCCTC-TAGTTA
*
22496767 GGGTAAAAGATTGGATGGTCTTCAATTTGCCCTCT-GATTA
1 GGGTAAAAGATTGGATGGTCTTCAATCTGCCCTCTAG-TTA
**
22496807 GGGTAAAAGATTGGAT--TACTTCAATCTGCCC-C-ACGGTCG
1 GGGTAAAAGATTGGATGGT-CTTCAATCTGCCCTCTA--GTTA
** *
22496846 GGGTAAAAGATTGGATGGTCTTCAATCTATCCTCTAATTA
1 GGGTAAAAGATTGGATGGTCTTCAATCTGCCCTCTAGTTA
* *
22496886 GGGTAAAAGATTGGATGGTCATCAATCTGCCCTCT-GAATA
1 GGGTAAAAGATTGGATGGTCTTCAATCTGCCCTCTAG-TTA
* *
22496926 GGGTAAAAGATTGGATGGTCTTTAATTTGCCCTCT-GATTA
1 GGGTAAAAGATTGGATGGTCTTCAATCTGCCCTCTAG-TTA
* *
22496966 GGGTAAAAGATTGAATGGTCTTCAATCTACCCTCT-GATTA
1 GGGTAAAAGATTGGATGGTCTTCAATCTGCCCTCTAG-TTA
*
22497006 GAGTAAAAGATTGGATGGT
1 GGGTAAAAGATTGGATGGT
22497025 TGTAACTTGC
Statistics
Matches: 412, Mismatches: 59, Indels: 48
0.79 0.11 0.09
Matches are distributed among these distances:
37 1 0.00
38 8 0.02
39 139 0.34
40 228 0.55
41 18 0.04
42 18 0.04
ACGTcount: A:0.26, C:0.17, G:0.25, T:0.32
Consensus pattern (40 bp):
GGGTAAAAGATTGGATGGTCTTCAATCTGCCCTCTAGTTA
Found at i:22496653 original size:79 final size:79
Alignment explanation
Indices: 22496489--22497024 Score: 589
Period size: 79 Copynumber: 6.7 Consensus size: 79
22496479 TCTTGACTAG
* * * * * * *
22496489 GGGTAAAAGATTGGATGGTCTTCAATCTGCCCCTCTTGACTAGGGTAATAGATTGGATTG-CTTC
1 GGGTAAAAGATTGGATTG-CTTCAATCTGCCCC-ATGGTC-GGGGTAAAAGATTGGATGGTCTTC
* * *
22496553 AATTTGCCCTATGGTTA
63 AATCTGCCCTCTAGTTA
* *
22496570 GGGTAAAAGATTGGATTGCTTCAATTTGCCCCATGGTCGGGGTAAGAGATTGGATGGTCTTCAAT
1 GGGTAAAAGATTGGATTGCTTCAATCTGCCCCATGGTCGGGGTAAAAGATTGGATGGTCTTCAAT
*
22496635 CTGCCTTCTAGTTA
66 CTGCCCTCTAGTTA
* *
22496649 GGGTAAAAGATTGGATTGCTTCAATCTGCCCCATGGTAGGGGTAAGAGATTGGATGGTCTTCAAT
1 GGGTAAAAGATTGGATTGCTTCAATCTGCCCCATGGTCGGGGTAAAAGATTGGATGGTCTTCAAT
22496714 CTGCCCTCTAGTTA
66 CTGCCCTCTAGTTA
* * ***
22496728 GGGTAAAAGCTTGGATTACTTCAATCTGCCCCACAATCGGGGTAAAAGATTGGATGGTCTTCAAT
1 GGGTAAAAGATTGGATTGCTTCAATCTGCCCCATGGTCGGGGTAAAAGATTGGATGGTCTTCAAT
*
22496793 TTGCCCTCT-GATTA
66 CTGCCCTCTAG-TTA
* *
22496807 GGGTAAAAGATTGGATTACTTCAATCTGCCCCACGGTCGGGGTAAAAGATTGGATGGTCTTCAAT
1 GGGTAAAAGATTGGATTGCTTCAATCTGCCCCATGGTCGGGGTAAAAGATTGGATGGTCTTCAAT
** *
22496872 CTATCCTCTAATTA
66 CTGCCCTCTAGTTA
* * * * *
22496886 GGGTAAAAGATTGGATGGTCATCAATCTGCCCTC-TGAAT-AGGGTAAAAGATTGGATGGTCTTT
1 GGGTAAAAGATTGGATTG-CTTCAATCTGCCC-CATG-GTCGGGGTAAAAGATTGGATGGTCTTC
*
22496949 AATTTGCCCTCT-GATTA
63 AATCTGCCCTCTAG-TTA
* * * * ** *
22496966 GGGTAAAAGATTGAATGGTCTTCAATCTACCCTC-TGATTAGAGTAAAAGATTGGATGGT
1 GGGTAAAAGATTGGATTG-CTTCAATCTGCCC-CATGGTCGGGGTAAAAGATTGGATGGT
22497025 TGTAACTTGC
Statistics
Matches: 402, Mismatches: 45, Indels: 17
0.87 0.10 0.04
Matches are distributed among these distances:
78 17 0.04
79 254 0.63
80 112 0.28
81 19 0.05
ACGTcount: A:0.26, C:0.17, G:0.25, T:0.32
Consensus pattern (79 bp):
GGGTAAAAGATTGGATTGCTTCAATCTGCCCCATGGTCGGGGTAAAAGATTGGATGGTCTTCAAT
CTGCCCTCTAGTTA
Found at i:22497383 original size:49 final size:49
Alignment explanation
Indices: 22497322--22497497 Score: 181
Period size: 49 Copynumber: 3.6 Consensus size: 49
22497312 CATTACGACC
* * *
22497322 TCAATCTTTCCCTTCACATCTCTAGGGTACAAGGTTCGCCGTTGTGGCT
1 TCAACCTTTCCCTTCACATCTCTAGGGTACAAGGTTCACCGTTGCGGCT
* * * * * **
22497371 TCAACCTATCCCTTCATAACTCTAGGGTACAAGATTCATCGTCACGGCT
1 TCAACCTTTCCCTTCACATCTCTAGGGTACAAGGTTCACCGTTGCGGCT
* * * * * * *
22497420 TCAATCTTTCCCATCACGTCCCTAAGGTACGAGGTTCACCGTTGCAGCT
1 TCAACCTTTCCCTTCACATCTCTAGGGTACAAGGTTCACCGTTGCGGCT
* *
22497469 TCAACCTTTCTCTTCATATCTCTAGGGTA
1 TCAACCTTTCCCTTCACATCTCTAGGGTA
22497498 TCAAATTTGC
Statistics
Matches: 96, Mismatches: 31, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
49 96 1.00
ACGTcount: A:0.21, C:0.30, G:0.16, T:0.32
Consensus pattern (49 bp):
TCAACCTTTCCCTTCACATCTCTAGGGTACAAGGTTCACCGTTGCGGCT
Found at i:22497405 original size:98 final size:99
Alignment explanation
Indices: 22497295--22497533 Score: 261
Period size: 98 Copynumber: 2.4 Consensus size: 99
22497285 TCTTCATCTT
* * * *
22497295 TAGGGTGT-AAGATTCGTCATTACGACCTCAATCTTTCCCTTCACATCTCTAGGGTACAAGGTTC
1 TAGGGTATCAAGATTCGTCATTACGACTTCAATCTTTCCCTTCACATCCCTAAGGTACAAGGTTC
* **
22497359 GCCGTTGTGGCTTCAACCTATCCCTTCATAACTC
66 ACCGTTGCAGCTTCAACCTATCCCTTCATAACTC
* * * * * * *
22497393 TAGGGTA-CAAGATTCATCGTCACGGCTTCAATCTTTCCCATCACGTCCCTAAGGTACGAGGTTC
1 TAGGGTATCAAGATTCGTCATTACGACTTCAATCTTTCCCTTCACATCCCTAAGGTACAAGGTTC
* * *
22497457 ACCGTTGCAGCTTCAACCTTTCTCTTCATATCTC
66 ACCGTTGCAGCTTCAACCTATCCCTTCATAACTC
* * *
22497491 TAGGGTATCAA-ATTTG-CTATTGCGACTTCAATCTTTCTCTTCA
1 TAGGGTATCAAGATTCGTC-ATTACGACTTCAATCTTTCCCTTCA
22497534 AACCTGTAGA
Statistics
Matches: 113, Mismatches: 25, Indels: 6
0.78 0.17 0.04
Matches are distributed among these distances:
97 1 0.01
98 109 0.96
99 3 0.03
ACGTcount: A:0.22, C:0.28, G:0.16, T:0.34
Consensus pattern (99 bp):
TAGGGTATCAAGATTCGTCATTACGACTTCAATCTTTCCCTTCACATCCCTAAGGTACAAGGTTC
ACCGTTGCAGCTTCAACCTATCCCTTCATAACTC
Found at i:22498440 original size:8 final size:7
Alignment explanation
Indices: 22498418--22498480 Score: 67
Period size: 8 Copynumber: 8.7 Consensus size: 7
22498408 CGGCCTCCCA
22498418 TTTTTC-
1 TTTTTCT
22498424 TTTTTCT
1 TTTTTCT
22498431 TTTCTTCT
1 TTT-TTCT
22498439 TTTTTC-
1 TTTTTCT
*
22498445 CTTTTCT
1 TTTTTCT
22498452 TTTTCTCT
1 TTTT-TCT
22498460 TTTTCTCT
1 TTTT-TCT
22498468 TTTTTCCT
1 TTTTT-CT
22498476 TTTTT
1 TTTTT
22498481 TATTTTTTTT
Statistics
Matches: 50, Mismatches: 2, Indels: 8
0.83 0.03 0.13
Matches are distributed among these distances:
6 11 0.22
7 10 0.20
8 29 0.58
ACGTcount: A:0.00, C:0.21, G:0.00, T:0.79
Consensus pattern (7 bp):
TTTTTCT
Found at i:22498443 original size:21 final size:21
Alignment explanation
Indices: 22498418--22498471 Score: 74
Period size: 21 Copynumber: 2.5 Consensus size: 21
22498408 CGGCCTCCCA
22498418 TTTTTCTTTTTC-TTTTCTTCT
1 TTTTTCTTTTTCTTTTTC-TCT
*
22498439 TTTTTCCTTTTCTTTTTCTCT
1 TTTTTCTTTTTCTTTTTCTCT
22498460 TTTTCTCTTTTT
1 TTTT-TCTTTTT
22498472 TCCTTTTTTT
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
21 18 0.62
22 11 0.38
ACGTcount: A:0.00, C:0.20, G:0.00, T:0.80
Consensus pattern (21 bp):
TTTTTCTTTTTCTTTTTCTCT
Done.