Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D11
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: 73211361
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 1690000 characters in sequence are not A, C, G, or T
File 175 of 240
Found at i:54195737 original size:22 final size:20
Alignment explanation
Indices: 54195701--54195759 Score: 57
Period size: 21 Copynumber: 2.8 Consensus size: 20
54195691 GGCCCGTCCC
54195701 ATTT-TTTTAATAAATACCAAAA
1 ATTTATTTTAA-AAATA--AAAA
54195723 ATTTATTTTAAAAATTAAAAA
1 ATTTATTTTAAAAA-TAAAAA
**
54195744 AAGTATTTTAAAAATA
1 ATTTATTTTAAAAATA
54195760 TTTTAAAATT
Statistics
Matches: 33, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
20 2 0.06
21 16 0.48
22 7 0.21
23 8 0.24
ACGTcount: A:0.54, C:0.03, G:0.02, T:0.41
Consensus pattern (20 bp):
ATTTATTTTAAAAATAAAAA
Found at i:54195761 original size:11 final size:12
Alignment explanation
Indices: 54195741--54195807 Score: 64
Period size: 12 Copynumber: 5.3 Consensus size: 12
54195731 TAAAAATTAA
54195741 AAAAAGTATTTT
1 AAAAAGTATTTT
54195753 AAAAA-TATTTT
1 AAAAAGTATTTT
** *
54195764 AAAATTAAAAAAATTT
1 --AA--AAAGTATTTT
54195780 AAAAAGTATTTT
1 AAAAAGTATTTT
54195792 AAAAAGTATTTT
1 AAAAAGTATTTT
54195804 AAAA
1 AAAA
54195808 TTTAAAAAAT
Statistics
Matches: 45, Mismatches: 5, Indels: 10
0.75 0.08 0.17
Matches are distributed among these distances:
11 6 0.13
12 28 0.62
13 2 0.04
14 2 0.04
15 3 0.07
16 4 0.09
ACGTcount: A:0.58, C:0.00, G:0.04, T:0.37
Consensus pattern (12 bp):
AAAAAGTATTTT
Found at i:54195773 original size:17 final size:18
Alignment explanation
Indices: 54195750--54195837 Score: 65
Period size: 17 Copynumber: 4.8 Consensus size: 18
54195740 AAAAAAGTAT
*
54195750 TTTAAAAATATTTTAAAA
1 TTTAAAAATATTTAAAAA
*
54195768 -TTAAAAAAATTTAAAAAGTA
1 TTTAAAAATATTT-AAAA--A
*
54195788 TTTTAAAAAGTATTTTAAAA
1 -TTTAAAAA-TATTTAAAAA
54195808 TTTAAAAA-ATTTAAAAA
1 TTTAAAAATATTTAAAAA
* *
54195825 -ATAAATATATTTA
1 TTTAAAAATATTTA
54195838 TTATATCGGG
Statistics
Matches: 56, Mismatches: 7, Indels: 15
0.72 0.09 0.19
Matches are distributed among these distances:
16 5 0.09
17 24 0.43
18 3 0.05
19 8 0.14
20 2 0.04
22 10 0.18
23 4 0.07
ACGTcount: A:0.58, C:0.00, G:0.02, T:0.40
Consensus pattern (18 bp):
TTTAAAAATATTTAAAAA
Found at i:54195784 original size:40 final size:41
Alignment explanation
Indices: 54195732--54195825 Score: 156
Period size: 40 Copynumber: 2.3 Consensus size: 41
54195722 AATTTATTTT
*
54195732 AAAAATTAAAAAAAGTATTTTAAAAA-TATTTTAAAATTAA
1 AAAAATTTAAAAAAGTATTTTAAAAAGTATTTTAAAATTAA
*
54195772 AAAAATTT-AAAAAGTATTTTAAAAAGTATTTTAAAATTTA
1 AAAAATTTAAAAAAGTATTTTAAAAAGTATTTTAAAATTAA
54195812 AAAAATTTAAAAAA
1 AAAAATTTAAAAAA
54195826 TAAATATATT
Statistics
Matches: 50, Mismatches: 2, Indels: 3
0.91 0.04 0.05
Matches are distributed among these distances:
39 17 0.34
40 28 0.56
41 5 0.10
ACGTcount: A:0.62, C:0.00, G:0.03, T:0.35
Consensus pattern (41 bp):
AAAAATTTAAAAAAGTATTTTAAAAAGTATTTTAAAATTAA
Found at i:54195826 original size:9 final size:9
Alignment explanation
Indices: 54195750--54195826 Score: 59
Period size: 9 Copynumber: 8.1 Consensus size: 9
54195740 AAAAAAGTAT
54195750 TTTAAAAATA
1 TTTAAAAA-A
*
54195760 TTT-TAAAA
1 TTTAAAAAA
*
54195768 TTAAAAAAA
1 TTTAAAAAA
54195777 TTTAAAAAGTA
1 TTTAAAAA--A
54195788 TTTTAAAAAGTA
1 -TTTAAAAA--A
*
54195800 TTT-TAAAA
1 TTTAAAAAA
54195808 TTTAAAAAA
1 TTTAAAAAA
54195817 TTTAAAAAA
1 TTTAAAAAA
54195826 T
1 T
54195827 AAATATATTT
Statistics
Matches: 56, Mismatches: 6, Indels: 11
0.77 0.08 0.15
Matches are distributed among these distances:
8 7 0.12
9 28 0.50
10 6 0.11
11 4 0.07
12 11 0.20
ACGTcount: A:0.58, C:0.00, G:0.03, T:0.39
Consensus pattern (9 bp):
TTTAAAAAA
Found at i:54208385 original size:3 final size:3
Alignment explanation
Indices: 54208377--54208424 Score: 96
Period size: 3 Copynumber: 16.0 Consensus size: 3
54208367 CAAATGCTCA
54208377 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
54208425 GAAGGAAGAG
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 45 1.00
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:54208761 original size:41 final size:40
Alignment explanation
Indices: 54208652--54208934 Score: 194
Period size: 41 Copynumber: 6.8 Consensus size: 40
54208642 ATATTTTTGG
* * * *
54208652 GCCTTTAGCGGCGTTTTTTACAAATCGCCGCTAATTCTC-C
1 GCCTTTAGCGGCGTTTTTTA-TAAGCGCCGCTAATGCTCTA
* **
54208692 GACCTTTTAGCGGCGATTTTCGTGAAGCGCCGCTAATGCTCTA
1 G-CC-TTTAGCGGCGTTTTTTAT-AAGCGCCGCTAATGCTCTA
54208735 GCCTTTAGCGGCGTTTTCTTATAAGCGCCGCTAATGCTCTA
1 GCCTTTAGCGGCGTTTT-TTATAAGCGCCGCTAATGCTCTA
* * *
54208776 GCCTTTAGCGGCGTTTTTTAATAAGCGCCACTAATGATCTG
1 GCCTTTAGCGGCGTTTTTT-ATAAGCGCCGCTAATGCTCTA
* * ** * * * *
54208817 GTCATTAGCGGCGTCTTTGAAAAAGCGCCGGTAATACTGT-
1 GCCTTTAGCGGCGT-TTTTTATAAGCGCCGCTAATGCTCTA
* * * * * *
54208857 GTCATTTAGCGGCGCTTGTTTAAAAACGCCGCTATTGTTCGT-
1 G-CCTTTAGCGGCG-TTTTTTATAAGCGCCGCTAATGCTC-TA
* * *
54208899 TCTTTTAGCGGCGTTTTTTGTGAAAGCGCCGCTAAT
1 GCCTTTAGCGGCGTTTTTTAT--AAGCGCCGCTAAT
54208935 AATAAAATCT
Statistics
Matches: 189, Mismatches: 42, Indels: 22
0.75 0.17 0.09
Matches are distributed among these distances:
40 9 0.05
41 130 0.69
42 49 0.26
43 1 0.01
ACGTcount: A:0.19, C:0.24, G:0.23, T:0.34
Consensus pattern (40 bp):
GCCTTTAGCGGCGTTTTTTATAAGCGCCGCTAATGCTCTA
Found at i:54213729 original size:43 final size:42
Alignment explanation
Indices: 54213627--54213854 Score: 257
Period size: 43 Copynumber: 5.4 Consensus size: 42
54213617 GTTTGTAAAA
* * *
54213627 TAAGCGCCACTAAAGAACACT-A-CTGTTAGCAGCGTTTTTGACC
1 TAAGCGCCGCTAAAGAACA-TGATCT-TTAGCGGCGTTTTT-TCC
* *
54213670 -AAGCGCCGCTATAGAACATTA-CTTTTAGCGGCGTTTTCTTCC
1 TAAGCGCCGCTAAAGAACATGATC-TTTAGCGGCGTTTT-TTCC
54213712 TAAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTTCC
1 TAAGCGCCGCTAAAGAACATGATCTTTAGCGGCG-TTTTTTCC
* * * *
54213755 CAAGCGCCACTAGAGAACATGATCTTTAGCGGCATTTTTTCC
1 TAAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTCC
**
54213797 TAAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTTTG
1 TAAGCGCCGCTAAAGAACATGATCTTTAGCGGCG-TTTTTTCC
*
54213840 TAAGCGCCGCAAAAG
1 TAAGCGCCGCTAAAG
54213855 TTAGCGACGT
Statistics
Matches: 161, Mismatches: 17, Indels: 14
0.84 0.09 0.07
Matches are distributed among these distances:
41 1 0.01
42 70 0.43
43 85 0.53
44 5 0.03
ACGTcount: A:0.26, C:0.24, G:0.21, T:0.29
Consensus pattern (42 bp):
TAAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTCC
Found at i:54213847 original size:85 final size:86
Alignment explanation
Indices: 54213627--54213837 Score: 288
Period size: 85 Copynumber: 2.5 Consensus size: 86
54213617 GTTTGTAAAA
* * ** * *
54213627 TAAGCGCCACTAAAGAACACT-A-CTGTTAGCAGCG-TTTTTGACCAAGCGCCGCTATAGAACAT
1 TAAGCGCCGCTAAAGAACA-TGATCT-TTAGCGGCGTTTTTTTCCCAAGCGCCACTAGAGAACAT
* *
54213689 TACTTTTAGCGGCGTTTTCTTCC
64 GACTTTTAGCGGCATTTTCTTCC
54213712 TAAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTTCCCAAGCGCCACTAGAGAACATGA
1 TAAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTTCCCAAGCGCCACTAGAGAACATGA
54213777 -TCTTTAGCGGCATTTT-TTCC
66 CT-TTTAGCGGCATTTTCTTCC
54213797 TAAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTT
1 TAAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTT
54213838 TGTAAGCGCC
Statistics
Matches: 114, Mismatches: 8, Indels: 8
0.88 0.06 0.06
Matches are distributed among these distances:
84 1 0.01
85 73 0.64
86 40 0.35
ACGTcount: A:0.25, C:0.24, G:0.20, T:0.31
Consensus pattern (86 bp):
TAAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTTCCCAAGCGCCACTAGAGAACATGA
CTTTTAGCGGCATTTTCTTCC
Found at i:54218238 original size:23 final size:22
Alignment explanation
Indices: 54218196--54218262 Score: 86
Period size: 23 Copynumber: 3.0 Consensus size: 22
54218186 AAAAAATTTG
54218196 AAATGTTTTATAATATTATTTTTA
1 AAAT-TTTTA-AATATTATTTTTA
54218220 AAATTTTTAAATATATATTTTTA
1 AAATTTTTAAATAT-TATTTTTA
54218243 AAA--TTTAAATATT-TTTTTA
1 AAATTTTTAAATATTATTTTTA
54218262 A
1 A
54218263 TAATATAAAA
Statistics
Matches: 42, Mismatches: 0, Indels: 7
0.86 0.00 0.14
Matches are distributed among these distances:
19 7 0.17
20 1 0.02
21 9 0.21
22 5 0.12
23 16 0.38
24 4 0.10
ACGTcount: A:0.42, C:0.00, G:0.01, T:0.57
Consensus pattern (22 bp):
AAATTTTTAAATATTATTTTTA
Found at i:54218251 original size:21 final size:20
Alignment explanation
Indices: 54218202--54218276 Score: 80
Period size: 21 Copynumber: 3.5 Consensus size: 20
54218192 TTTGAAATGT
54218202 TTTATAATATTATTTTTAAAA
1 TTTA-AATATTATTTTTAAAA
54218223 TTTTTAAATATATATTTTTAAAA
1 --TTTAAATAT-TATTTTTAAAA
54218246 TTTAAATATT-TTTTTAATAA
1 TTTAAATATTATTTTTAA-AA
*
54218266 TATAAAATATT
1 T-TTAAATATT
54218277 TAAATATTTT
Statistics
Matches: 48, Mismatches: 1, Indels: 8
0.84 0.02 0.14
Matches are distributed among these distances:
19 7 0.15
20 4 0.08
21 17 0.35
22 5 0.10
23 15 0.31
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (20 bp):
TTTAAATATTATTTTTAAAA
Found at i:54218277 original size:21 final size:19
Alignment explanation
Indices: 54218207--54218277 Score: 61
Period size: 19 Copynumber: 3.4 Consensus size: 19
54218197 AATGTTTTAT
54218207 AATATTATTTTTAAAATTTTTAA
1 AATATT-TTTTTAAAA---TTAA
* *
54218230 ATATATATTTTTAAAATTTA
1 A-ATATTTTTTTAAAATTAA
54218250 AATATTTTTTTAATAATATAA
1 AATATTTTTTTAA-AAT-TAA
54218271 AATATTT
1 AATATTT
54218278 AAATATTTTA
Statistics
Matches: 41, Mismatches: 4, Indels: 8
0.77 0.08 0.15
Matches are distributed among these distances:
19 11 0.27
20 7 0.17
21 9 0.22
23 10 0.24
24 4 0.10
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (19 bp):
AATATTTTTTTAAAATTAA
Found at i:54218361 original size:18 final size:19
Alignment explanation
Indices: 54218338--54218374 Score: 58
Period size: 18 Copynumber: 2.0 Consensus size: 19
54218328 TTTAAATGTA
54218338 AATTTTAAATAT-CTTTTT
1 AATTTTAAATATACTTTTT
*
54218356 AATTTTACATATACTTTTT
1 AATTTTAAATATACTTTTT
54218375 TAAATTATGA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 11 0.65
19 6 0.35
ACGTcount: A:0.32, C:0.08, G:0.00, T:0.59
Consensus pattern (19 bp):
AATTTTAAATATACTTTTT
Found at i:54219852 original size:90 final size:90
Alignment explanation
Indices: 54219525--54219832 Score: 447
Period size: 90 Copynumber: 3.4 Consensus size: 90
54219515 ATAAAATATA
* * ** *
54219525 AAATTCAAACAAGA-ATAATACACACTAAATTAAATTTAAACACCCAACAAACTACAAACAGATG
1 AAATTCAAACTACATATAATACGGACTAAATTAAATTTAAACACCCAACAAATTACAAACAGATG
54219589 GGTAAAATTAATAAACGAAAATTTT
66 GGTAAAATTAATAAACGAAAATTTT
*
54219614 AAATTCAAACTACATATAATACGGGCTAAATTAAATTTAAACACCCAACAAATTACAAACAGATG
1 AAATTCAAACTACATATAATACGGACTAAATTAAATTTAAACACCCAACAAATTACAAACAGATG
* * ** *
54219679 GATAAAATTAGTGTACGAAATTTTT
66 GGTAAAATTAATAAACGAAAATTTT
* * **
54219704 AAATTCAAACTATATATAACACAAACTAAATTAAATTTAAACACCCAACAAATTACAAACAGATG
1 AAATTCAAACTACATATAATACGGACTAAATTAAATTTAAACACCCAACAAATTACAAACAGATG
*
54219769 GGTAAAATTAATACACGAAAATTTT
66 GGTAAAATTAATAAACGAAAATTTT
* *
54219794 AAATTCAATCTACATATAATACGGACTAGATTAAATTTA
1 AAATTCAAACTACATATAATACGGACTAAATTAAATTTA
54219833 TAAATACAAA
Statistics
Matches: 191, Mismatches: 27, Indels: 1
0.87 0.12 0.00
Matches are distributed among these distances:
89 12 0.06
90 179 0.94
ACGTcount: A:0.51, C:0.15, G:0.07, T:0.26
Consensus pattern (90 bp):
AAATTCAAACTACATATAATACGGACTAAATTAAATTTAAACACCCAACAAATTACAAACAGATG
GGTAAAATTAATAAACGAAAATTTT
Found at i:54222461 original size:18 final size:18
Alignment explanation
Indices: 54222430--54222479 Score: 64
Period size: 18 Copynumber: 2.7 Consensus size: 18
54222420 ATAAGAAAAC
*
54222430 ATTTTGAAATTGAATAATG
1 ATTTGGAAA-TGAATAATG
*
54222449 ATTTGTAAATGAATAATG
1 ATTTGGAAATGAATAATG
*
54222467 TTTTGGAAATGAA
1 ATTTGGAAATGAA
54222480 CGACACGATT
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
18 20 0.74
19 7 0.26
ACGTcount: A:0.42, C:0.00, G:0.18, T:0.40
Consensus pattern (18 bp):
ATTTGGAAATGAATAATG
Found at i:54223343 original size:112 final size:111
Alignment explanation
Indices: 54223207--54223425 Score: 298
Period size: 112 Copynumber: 2.0 Consensus size: 111
54223197 CCGAAAAAGG
* * *
54223207 TGGTGTCAGCCATCAGTGTTCCAAAATTAAAAAAAAAT-TG-CATTGGGAGTCAAAAAATGTACT
1 TGGTGTCAGCCATCAGTGTCCCAAAA-TAAAAAAAAATGTGTC-TTGGGAGCCAAAAAATGTACC
** * *
54223270 TGGTGTTGGCCATCTACTTGCCAGCACCCAAATTTTTTTTAAATGACAC
64 TGGTGCCGGCCATCTACTGGCCAGCAACCAAA-TTTTTTTAAATGACAC
* *
54223319 TGGTGTCAGCCATCAGTGTCCCAAAATAAAAAAAAATGTGTCTTGGGAGCCGAAATATGTACCTG
1 TGGTGTCAGCCATCAGTGTCCCAAAATAAAAAAAAATGTGTCTTGGGAGCCAAAAAATGTACCTG
* *
54223384 GTGCCGGCCATCTACTGGCGAGCAACTAAATTTTTTTAAATG
66 GTGCCGGCCATCTACTGGCCAGCAACCAAATTTTTTTAAATG
54223426 TCTCTAGTGC
Statistics
Matches: 94, Mismatches: 11, Indels: 5
0.85 0.10 0.05
Matches are distributed among these distances:
111 23 0.24
112 70 0.74
113 1 0.01
ACGTcount: A:0.32, C:0.19, G:0.20, T:0.29
Consensus pattern (111 bp):
TGGTGTCAGCCATCAGTGTCCCAAAATAAAAAAAAATGTGTCTTGGGAGCCAAAAAATGTACCTG
GTGCCGGCCATCTACTGGCCAGCAACCAAATTTTTTTAAATGACAC
Found at i:54226374 original size:30 final size:30
Alignment explanation
Indices: 54226332--54226428 Score: 108
Period size: 30 Copynumber: 3.2 Consensus size: 30
54226322 GTCACAAAGT
* *
54226332 AGTTCATTTCACCCGTATATGGGCGGTTCG
1 AGTTCATATCACCCGTACATGGGCGGTTCG
* * *
54226362 ACTTCATATCA-CCTTGACATGGGCAGTTCG
1 AGTTCATATCACCCGT-ACATGGGCGGTTCG
*
54226392 AGTTCATATCACCCAG-ACATAGGCGGTTCG
1 AGTTCATATCACCC-GTACATGGGCGGTTCG
54226422 AGTTCAT
1 AGTTCAT
54226429 TTCTCTTCAC
Statistics
Matches: 55, Mismatches: 9, Indels: 6
0.79 0.13 0.09
Matches are distributed among these distances:
29 3 0.05
30 50 0.91
31 2 0.04
ACGTcount: A:0.23, C:0.25, G:0.23, T:0.30
Consensus pattern (30 bp):
AGTTCATATCACCCGTACATGGGCGGTTCG
Found at i:54229373 original size:40 final size:40
Alignment explanation
Indices: 54229329--54229409 Score: 153
Period size: 40 Copynumber: 2.0 Consensus size: 40
54229319 GATCTTCCTT
*
54229329 TTCATTTATGCTAGCTTCACATTTTTTTGAAACGCAAACC
1 TTCATTTATGCTAGCTTCACATCTTTTTGAAACGCAAACC
54229369 TTCATTTATGCTAGCTTCACATCTTTTTGAAACGCAAACC
1 TTCATTTATGCTAGCTTCACATCTTTTTGAAACGCAAACC
54229409 T
1 T
54229410 ACTCTTTTCC
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
40 40 1.00
ACGTcount: A:0.27, C:0.23, G:0.10, T:0.40
Consensus pattern (40 bp):
TTCATTTATGCTAGCTTCACATCTTTTTGAAACGCAAACC
Found at i:54229705 original size:8 final size:8
Alignment explanation
Indices: 54229694--54229722 Score: 58
Period size: 8 Copynumber: 3.6 Consensus size: 8
54229684 ATAAAACATT
54229694 AAATTTTA
1 AAATTTTA
54229702 AAATTTTA
1 AAATTTTA
54229710 AAATTTTA
1 AAATTTTA
54229718 AAATT
1 AAATT
54229723 AATTTAAAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 21 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (8 bp):
AAATTTTA
Found at i:54229724 original size:29 final size:29
Alignment explanation
Indices: 54229685--54229829 Score: 95
Period size: 29 Copynumber: 4.9 Consensus size: 29
54229675 CTCCACCAAA
54229685 TAAAACATTAAATTTTAAAATTTTAAAAT-T
1 TAAAA-ATTAAA-TTTAAAATTTTAAAATAT
* *
54229715 TTAAAATT-AATTTAAAAATGTTTAAATATCT
1 TAAAAATTAAATTT-AAAAT-TTTAAA-ATAT
* *
54229746 TAAAAATT-AA-TTAAAAATTAAAAAT-T
1 TAAAAATTAAATTTAAAATTTTAAAATAT
* *
54229772 ATAAAAATTATATTTAAAA-TTAAAAATAT
1 -TAAAAATTAAATTTAAAATTTTAAAATAT
* *
54229801 TTAAAATATACATTTAAAATATTATAAAA
1 TAAAAAT-TAAATTTAAAAT-TT-TAAAA
54229830 CAAATAATAA
Statistics
Matches: 95, Mismatches: 8, Indels: 22
0.76 0.06 0.18
Matches are distributed among these distances:
26 1 0.01
27 13 0.14
28 27 0.28
29 30 0.32
30 8 0.08
31 12 0.13
32 4 0.04
ACGTcount: A:0.57, C:0.02, G:0.01, T:0.40
Consensus pattern (29 bp):
TAAAAATTAAATTTAAAATTTTAAAATAT
Found at i:54229760 original size:30 final size:28
Alignment explanation
Indices: 54229685--54229829 Score: 109
Period size: 28 Copynumber: 4.9 Consensus size: 28
54229675 CTCCACCAAA
*
54229685 TAAAACATTAAATTTTAAAATTTTAAAATT
1 TAAAA-ATT-AATTTAAAAATTTTAAAATT
*
54229715 TTAAAATTAATTTAAAAATGTTTAAATATCT
1 TAAAAATTAATTTAAAAAT-TTTAAA-AT-T
*
54229746 TAAAAATTAA-TTAAAAA-TTAAAAATT
1 TAAAAATTAATTTAAAAATTTTAAAATT
*
54229772 ATAAAAATTATATTT-AAAA-TTAAAAATAT
1 -TAAAAATTA-ATTTAAAAATTTTAAAAT-T
* *
54229801 TTAAAATATACATTTAAAATATTATAAAA
1 TAAAAAT-TA-ATTTAAAA-ATTTTAAAA
54229830 CAAATAATAA
Statistics
Matches: 96, Mismatches: 8, Indels: 20
0.77 0.06 0.16
Matches are distributed among these distances:
26 1 0.01
27 11 0.11
28 34 0.35
29 18 0.19
30 16 0.17
31 11 0.11
32 5 0.05
ACGTcount: A:0.57, C:0.02, G:0.01, T:0.40
Consensus pattern (28 bp):
TAAAAATTAATTTAAAAATTTTAAAATT
Found at i:54229766 original size:18 final size:16
Alignment explanation
Indices: 54229745--54229781 Score: 56
Period size: 16 Copynumber: 2.2 Consensus size: 16
54229735 TTTAAATATC
54229745 TTAAAAATTAATTAAAAA
1 TTAAAAATT-A-TAAAAA
54229763 TTAAAAATTATAAAAA
1 TTAAAAATTATAAAAA
54229779 TTA
1 TTA
54229782 TATTTAAAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 9 0.47
17 1 0.05
18 9 0.47
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (16 bp):
TTAAAAATTATAAAAA
Found at i:54229799 original size:57 final size:56
Alignment explanation
Indices: 54229699--54229806 Score: 130
Period size: 57 Copynumber: 1.9 Consensus size: 56
54229689 ACATTAAATT
* * * **
54229699 TTAAAATTTTAAAATTTTAAAATTAATTTAAAAATGTTTAAATATCTTAAAAATTAA
1 TTAAAAATTAAAAATTTAAAAATTAATTTAAAAATGTAAAAATAT-TTAAAAATTAA
54229756 TTAAAAATTAAAAATTATAAAAATTATATTT-AAAAT-TAAAAATATTTAAAA
1 TTAAAAATTAAAAATT-TAAAAATTA-ATTTAAAAATGTAAAAATATTTAAAA
54229807 TATACATTTA
Statistics
Matches: 44, Mismatches: 5, Indels: 5
0.81 0.09 0.09
Matches are distributed among these distances:
56 6 0.14
57 21 0.48
58 13 0.30
59 4 0.09
ACGTcount: A:0.57, C:0.01, G:0.01, T:0.41
Consensus pattern (56 bp):
TTAAAAATTAAAAATTTAAAAATTAATTTAAAAATGTAAAAATATTTAAAAATTAA
Found at i:54229808 original size:9 final size:9
Alignment explanation
Indices: 54229694--54229809 Score: 50
Period size: 8 Copynumber: 12.7 Consensus size: 9
54229684 ATAAAACATT
54229694 AAAT-TTTA
1 AAATATTTA
54229702 AAAT-TTTA
1 AAATATTTA
54229710 AAAT-TTTA
1 AAATATTTA
54229718 AAATTAATTTA
1 AAA-T-ATTTA
*
54229729 AAA-ATGTTT
1 AAATAT-TTA
54229738 AAATATCTTAA
1 AAATAT-TT-A
*
54229749 AAATTAATTA
1 AAA-TATTTA
54229759 AAA-A-TTA
1 AAATATTTA
54229766 AAA-ATTATAA
1 AAATATT-T-A
*
54229776 AAATTATATTT
1 AAA-TAT-TTA
*
54229787 AAA-ATTAA
1 AAATATTTA
54229795 AAATATTTA
1 AAATATTTA
54229804 AAATAT
1 AAATAT
54229810 ACATTTAAAA
Statistics
Matches: 86, Mismatches: 8, Indels: 27
0.71 0.07 0.22
Matches are distributed among these distances:
7 7 0.08
8 27 0.31
9 19 0.22
10 12 0.14
11 15 0.17
12 5 0.06
13 1 0.01
ACGTcount: A:0.57, C:0.01, G:0.01, T:0.41
Consensus pattern (9 bp):
AAATATTTA
Found at i:54229820 original size:57 final size:57
Alignment explanation
Indices: 54229698--54229820 Score: 128
Period size: 57 Copynumber: 2.1 Consensus size: 57
54229688 AACATTAAAT
* * **
54229698 TTTAAAATTTTAAAATTTTAAAATTAATTTAAAAATGTTTAAATATCTTAAAAATTAA
1 TTTAAAA-TTAAAAATTTAAAAATTAATTTAAAAATGTAAAAATATCTTAAAAATTAA
*
54229756 TTAAAAATTAAAAATTATAAAAATTATATTT-AAAAT-TAAAAATAT-TT-AAAATATACA
1 TTTAAAATTAAAAATT-TAAAAATTA-ATTTAAAAATGTAAAAATATCTTAAAAAT-TA-A
54229813 TTTAAAAT
1 TTTAAAAT
54229821 ATTATAAAAC
Statistics
Matches: 55, Mismatches: 6, Indels: 9
0.79 0.09 0.13
Matches are distributed among these distances:
55 5 0.09
56 4 0.07
57 23 0.42
58 19 0.35
59 4 0.07
ACGTcount: A:0.56, C:0.02, G:0.01, T:0.41
Consensus pattern (57 bp):
TTTAAAATTAAAAATTTAAAAATTAATTTAAAAATGTAAAAATATCTTAAAAATTAA
Found at i:54229900 original size:12 final size:12
Alignment explanation
Indices: 54229883--54229931 Score: 61
Period size: 12 Copynumber: 4.4 Consensus size: 12
54229873 TTTAAAAAAT
54229883 TAAAACAAATTA
1 TAAAACAAATTA
54229895 TAAAACAAA-T-
1 TAAAACAAATTA
*
54229905 TAAAA-ATATTA
1 TAAAACAAATTA
54229916 TAAAACAAATTA
1 TAAAACAAATTA
54229928 -AAAA
1 TAAAA
54229932 TTAAAAATTG
Statistics
Matches: 32, Mismatches: 2, Indels: 7
0.78 0.05 0.17
Matches are distributed among these distances:
9 2 0.06
10 6 0.19
11 10 0.31
12 14 0.44
ACGTcount: A:0.69, C:0.06, G:0.00, T:0.24
Consensus pattern (12 bp):
TAAAACAAATTA
Found at i:54229917 original size:21 final size:21
Alignment explanation
Indices: 54229879--54229964 Score: 95
Period size: 21 Copynumber: 4.0 Consensus size: 21
54229869 ATATTTTAAA
*
54229879 AAATTAAAACAAATTATAAAAC
1 AAATTAAAA-ATATTATAAAAC
54229901 AAATTAAAAATATTATAAAAC
1 AAATTAAAAATATTATAAAAC
* *
54229922 AAATT-AAAA-ATTAAAAATTGAA
1 AAATTAAAAATATTATAAA---AC
54229944 AAATTAAAAATATTATAAAAC
1 AAATTAAAAATATTATAAAAC
54229965 TAATAATAAA
Statistics
Matches: 54, Mismatches: 5, Indels: 11
0.77 0.07 0.16
Matches are distributed among these distances:
19 7 0.13
20 4 0.07
21 17 0.31
22 15 0.28
23 4 0.07
24 7 0.13
ACGTcount: A:0.67, C:0.05, G:0.01, T:0.27
Consensus pattern (21 bp):
AAATTAAAAATATTATAAAAC
Found at i:54229934 original size:7 final size:7
Alignment explanation
Indices: 54229922--54229954 Score: 57
Period size: 7 Copynumber: 4.6 Consensus size: 7
54229912 ATTATAAAAC
54229922 AAATTAA
1 AAATTAA
54229929 AAATTAA
1 AAATTAA
54229936 AAATTGAA
1 AAATT-AA
54229944 AAATTAA
1 AAATTAA
54229951 AAAT
1 AAAT
54229955 ATTATAAAAC
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
7 18 0.72
8 7 0.28
ACGTcount: A:0.70, C:0.00, G:0.03, T:0.27
Consensus pattern (7 bp):
AAATTAA
Found at i:54229947 original size:15 final size:14
Alignment explanation
Indices: 54229922--54229954 Score: 57
Period size: 15 Copynumber: 2.3 Consensus size: 14
54229912 ATTATAAAAC
54229922 AAATTAAAAATTAA
1 AAATTAAAAATTAA
54229936 AAATTGAAAAATTAA
1 AAATT-AAAAATTAA
54229951 AAAT
1 AAAT
54229955 ATTATAAAAC
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 5 0.28
15 13 0.72
ACGTcount: A:0.70, C:0.00, G:0.03, T:0.27
Consensus pattern (14 bp):
AAATTAAAAATTAA
Found at i:54231377 original size:7 final size:7
Alignment explanation
Indices: 54231365--54231390 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
54231355 TATGAGATAC
54231365 GATACTT
1 GATACTT
54231372 GATACTT
1 GATACTT
54231379 GATACTT
1 GATACTT
54231386 GATAC
1 GATAC
54231391 CTGAGTCAGC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (7 bp):
GATACTT
Found at i:54234765 original size:21 final size:20
Alignment explanation
Indices: 54234736--54234775 Score: 55
Period size: 19 Copynumber: 1.9 Consensus size: 20
54234726 GTCTGAGGAC
54234736 TAAAGTGGAAACAAATTAAAAT
1 TAAAGTGG-AA-AAATTAAAAT
54234758 TAAA-TGGAAAAATTAAAA
1 TAAAGTGGAAAAATTAAAA
54234776 AGAAAAGAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 9 0.50
20 2 0.11
21 3 0.17
22 4 0.22
ACGTcount: A:0.62, C:0.03, G:0.12, T:0.23
Consensus pattern (20 bp):
TAAAGTGGAAAAATTAAAAT
Found at i:54236254 original size:94 final size:94
Alignment explanation
Indices: 54236111--54237510 Score: 1299
Period size: 94 Copynumber: 14.9 Consensus size: 94
54236101 CAGTTTCATC
* * * * ** * **
54236111 TTACTCCATTGCAACTTCAAGGAGATAATG-TTTGTTATTATAG-TCTCAATCCGACCCACTGTA
1 TTACTCCACTGCAACTTCAGGGAGATAA-GATTCGCTATGGTAGAT-TCAATCTGACCCACTACA
* **
54236174 ACTTCAGGGGTATAGGATTTGTAGCTTCACC
64 ACTTTAGGGGTATAGGATTTGTAGCTTCAAA
* * ** * *
54236205 TTACTCCATTGCAACTTCAGGGAGATAATATTTTCTATGGCAGATTCAATCTGACCCACTAAAAC
1 TTACTCCACTGCAACTTCAGGGAGATAAGATTCGCTATGGTAGATTCAATCTGACCCACTACAAC
* * *
54236270 TTCAAGGATATAGGATTTGTAG-TTC-AA
66 TTTAGGGGTATAGGATTTGTAGCTTCAAA
* * * *
54236297 TCTACTCCACTGCAACTTCAGGAAGATAAGATTTGCTATGGTAGATTCAATCTGATCCACTGCAA
1 T-TACTCCACTGCAACTTCAGGGAGATAAGATTCGCTATGGTAGATTCAATCTGACCCACTACAA
54236362 CTTTTTAGGGGTATAGGATTTGTAGCTT-AAA
65 C--TTTAGGGGTATAGGATTTGTAGCTTCAAA
** * * * * * * *
54236393 TTTGTTCCATTGCAACTTCAAGGAGATAAGATT-TCTATGGCAGATTCAATTTGACGCATTGA-A
1 -TTACTCCACTGCAACTTCAGGGAGATAAGATTCGCTATGGTAGATTCAATCTGACCCACT-ACA
* * *
54236456 ACTTTAGAGGTATAGAATTTTTAGCTT-AAA
64 ACTTTAGGGGTATAGGATTTGTAGCTTCAAA
* * *
54236486 TATACTCTACTGCAACTTCAGAGAGATAAGATTCGCTATGGTAGATTCAATCTGATCCACTACAA
1 T-TACTCCACTGCAACTTCAGGGAGATAAGATTCGCTATGGTAGATTCAATCTGACCCACTACAA
54236551 CTTTTTAGGGGTATAGGATTTGTAGCTT-AAA
65 C--TTTAGGGGTATAGGATTTGTAGCTTCAAA
** * * * * * *
54236582 TTTGTTCCATTGCAACTTCAAGGAGATAAGATT-TCTATGGCAGATTCAATCTGACGCATTGA-A
1 -TTACTCCACTGCAACTTCAGGGAGATAAGATTCGCTATGGTAGATTCAATCTGACCCACT-ACA
* *
54236645 ACTTTAGGGGTATAGAATTTTTAGCTT-AAA
64 ACTTTAGGGGTATAGGATTTGTAGCTTCAAA
* * * *
54236675 TCTACTCTACTGCAACTTCAGAGAGATAAGATTCGCTATGGTAGATTCAATTTGACCCATTACAA
1 T-TACTCCACTGCAACTTCAGGGAGATAAGATTCGCTATGGTAGATTCAATCTGACCCACTACAA
* *
54236740 CTTCAGGGGTATAGGATTTGTAGCTTCAAT
65 CTTTAGGGGTATAGGATTTGTAGCTTCAAA
* * * * **
54236770 TTGCTCCACTAG-AACTTCAGGGAGATAAGATTTGCTATGGCA-ACTTCAATCCGACCCGTTACA
1 TTACTCCACT-GCAACTTCAGGGAGATAAGATTCGCTATGGTAGA-TTCAATCTGACCCACTACA
*
54236833 ACTTTAGGGGTATAGGATTTGTAGCTT-TAA
64 ACTTTAGGGGTATAGGATTTGTAGCTTCAAA
* * * *
54236863 TCTACTTCACTGCAGCTTCAGAGAGATAAGATTCGCTATGGTAGATTCAATTTGACCCACTACAA
1 T-TACTCCACTGCAACTTCAGGGAGATAAGATTCGCTATGGTAGATTCAATCTGACCCACTACAA
*
54236928 CTTTAGGGATATAGGATTTGTAGCTTC--A
65 CTTTAGGGGTATAGGATTTGTAGCTTCAAA
* * * *
54236956 TCTGCTCCACTACAACTTCAGGGAGATAA-ATTTTGCTATGGTAGATTCAATC-CAGCCCACTAC
1 T-TACTCCACTGCAACTTCAGGGAGATAAGA-TTCGCTATGGTAGATTCAATCTGA-CCCACTAC
* * *
54237019 AAGTTCAGGGGTATAGGATTTGTAACTTC--A
63 AACTTTAGGGGTATAGGATTTGTAGCTTCAAA
* * ** * * * **
54237049 TCTGCTCCACTGCAACTTCAGGAAGATAAGATTCATTATGGTAGATTTAATCCGACCTACTGTAA
1 T-TACTCCACTGCAACTTCAGGGAGATAAGATTCGCTATGGTAGATTCAATCTGACCCACTACAA
*
54237114 CTTTAGGGGTATAGGATTTTTAGCTTC-AA
65 CTTTAGGGGTATAGGATTTGTAGCTTCAAA
* * * * * **
54237143 TCGT-CTCCACTACAACTTCAAGGATATAAGATTCACTATGGTAGATTCAATCCGACCCACTTTA
1 T--TACTCCACTGCAACTTCAGGGAGATAAGATTCGCTATGGTAGATTCAATCTGACCCACTACA
* * *
54237207 ACTTCAGGGGTATAGGATTTGTAACTT-TAA
64 ACTTTAGGGGTATAGGATTTGTAGCTTCAAA
* * * * * * * *
54237237 TCTACTCCACTGTAACTTTAGGGAAATAAGATTCGCTATGGTA-ACTTTAATGTAACCCATTGCA
1 T-TACTCCACTGCAACTTCAGGGAGATAAGATTCGCTATGGTAGA-TTCAATCTGACCCACTACA
*
54237301 ACTTTAGGGGTATAGGATTTGTAGCTTCAAT
64 ACTTTAGGGGTATAGGATTTGTAGCTTCAAA
* * *
54237332 TTGCTCCACTACAACTTCAGGGAGATAAGATTCGCTATGGTA-ACTTCAATCTGACCCACTGCAA
1 TTACTCCACTGCAACTTCAGGGAGATAAGATTCGCTATGGTAGA-TTCAATCTGACCCACTACAA
* * * *
54237396 CGTCAAGGGTATAAGATTTGTAGCTTC-AA
65 CTTTAGGGGTATAGGATTTGTAGCTTCAAA
* * ** *
54237425 TATGCTCCACTACAACTTCAAAGAGATAAGATTCGCTATGGTA-ACTTCAACCTGACCCACTACA
1 T-TACTCCACTGCAACTTCAGGGAGATAAGATTCGCTATGGTAGA-TTCAATCTGACCCACTACA
* *
54237489 ACTTCATGGGTATAGGATTTGT
64 ACTTTAGGGGTATAGGATTTGT
54237511 GATTTTACTG
Statistics
Matches: 1088, Mismatches: 181, Indels: 74
0.81 0.13 0.06
Matches are distributed among these distances:
92 5 0.00
93 322 0.30
94 601 0.55
95 77 0.07
96 81 0.07
97 2 0.00
ACGTcount: A:0.30, C:0.19, G:0.19, T:0.33
Consensus pattern (94 bp):
TTACTCCACTGCAACTTCAGGGAGATAAGATTCGCTATGGTAGATTCAATCTGACCCACTACAAC
TTTAGGGGTATAGGATTTGTAGCTTCAAA
Found at i:54236330 original size:43 final size:43
Alignment explanation
Indices: 54236249--54236331 Score: 98
Period size: 43 Copynumber: 1.9 Consensus size: 43
54236239 CTATGGCAGA
* *
54236249 TTCAATCTGACCCACTAAAACTTCAAGGATATAGGATTTGTAG
1 TTCAATCTGACCCACTAAAACTTCAAGGAGATAAGATTTGTAG
**
54236292 TTCAATCT-ACTCCACTGCAACTTC-AGGAAGATAAGATTTG
1 TTCAATCTGAC-CCACTAAAACTTCAAGG-AGATAAGATTTG
54236332 CTATGGTAGA
Statistics
Matches: 34, Mismatches: 4, Indels: 4
0.81 0.10 0.10
Matches are distributed among these distances:
42 5 0.15
43 29 0.85
ACGTcount: A:0.34, C:0.20, G:0.16, T:0.30
Consensus pattern (43 bp):
TTCAATCTGACCCACTAAAACTTCAAGGAGATAAGATTTGTAG
Found at i:54236802 original size:44 final size:44
Alignment explanation
Indices: 54236156--54237494 Score: 242
Period size: 50 Copynumber: 28.5 Consensus size: 44
54236146 TATTATAGTC
* ** *
54236156 TCAATCCGACCCACTGTAACTTCAGGG-GTATAGGATTTGTAGCT
1 TCAATCTGACCCACTACAACTTCAGGGAG-ATAAGATTTGTAGCT
* * * * * *
54236200 TC-ACCTTACTCCATTGCAACTTCAGGGAGATAATATTTTCTATGGCAGAT
1 TCAATCTGAC-CCACTACAACTTCAGGGAGATAAGA-TTTGTA--GC---T
* * * *
54236250 TCAATCTGACCCACTAAAACTTCAAGGATATAGGATTTGTAG-T
1 TCAATCTGACCCACTACAACTTCAGGGAGATAAGATTTGTAGCT
* * *
54236293 TCAATCT-ACTCCACTGCAACTTCAGGAAGATAAGATTTGCTATGGTAGAT
1 TCAATCTGAC-CCACTACAACTTCAGGGAGATAAGA--T--T-T-GTAGCT
* * * *
54236343 TCAATCTGATCCACTGCAACTTTTTAGGG-GTATAGGATTTGTAGCT
1 TCAATCTGACCCACTACAAC--TTCAGGGAG-ATAAGATTTGTAGCT
* * ** * * * *
54236389 TAAATTTGTTCCATTGCAACTTCAAGGAGATAAGATTTCTATGGCAGAT
1 TCAATCTGACCCACTACAACTTCAGGGAGATAAGATTTGTA--GC---T
* * * * * *
54236438 TCAATTTGACGCATTGA-AACTTTA--GAGGTATAGAATTTTTAGCT
1 TCAATCTGACCCACT-ACAACTTCAGGGAGATA-AG-ATTTGTAGCT
* * * * * *
54236482 TAAATAT-ACTCTACTGCAACTTCAGAGAGATAAGATTCGCTATGGTAGAT
1 TCAATCTGAC-CCACTACAACTTCAGGGAGATAAGA-T---T-T-GTAGCT
* * *
54236532 TCAATCTGATCCACTACAACTTTTTAGGG-GTATAGGATTTGTAGCT
1 TCAATCTGACCCACTACAAC--TTCAGGGAG-ATAAGATTTGTAGCT
* * ** * * * *
54236578 TAAATTTGTTCCATTGCAACTTCAAGGAGATAAGATTTCTATGGCAGAT
1 TCAATCTGACCCACTACAACTTCAGGGAGATAAGATTTGTA--GC---T
* * * *
54236627 TCAATCTGACGCATTGA-AACTTTAGGG-G-TATAGAATTTTTAGCT
1 TCAATCTGACCCACT-ACAACTTCAGGGAGATA-AG-ATTTGTAGCT
* * * * *
54236671 TAAATCT-ACTCTACTGCAACTTCAGAGAGATAAGATTCGCTATGGTAGAT
1 TCAATCTGAC-CCACTACAACTTCAGGGAGATAAGA-T---T-T-GTAGCT
* * *
54236721 TCAATTTGACCCATTACAACTTCAGGG-GTATAGGATTTGTAGCT
1 TCAATCTGACCCACTACAACTTCAGGGAG-ATAAGATTTGTAGCT
* *
54236765 TCAATTTG-CTCCACTAGAACTTCAGGGAGATAAGATTTGCTATGGCAACT
1 TCAATCTGAC-CCACTACAACTTCAGGGAGATAAGATTTG-TA--G---CT
* ** * *
54236815 TCAATCCGACCCGTTACAACTTTAGGG-GTATAGGATTTGTAGCT
1 TCAATCTGACCCACTACAACTTCAGGGAG-ATAAGATTTGTAGCT
* * * * * *
54236859 TTAATCT-ACTTCACTGCAGCTTCAGAGAGATAAGATTCGCTATGGTAGAT
1 TCAATCTGAC-CCACTACAACTTCAGGGAGATAAGA-T---T-T-GTAGCT
* * * *
54236909 TCAATTTGACCCACTACAACTTTAGGGATATAGGATTTGTAGCT
1 TCAATCTGACCCACTACAACTTCAGGGAGATAAGATTTGTAGCT
*
54236953 TC-ATCTG-CTCCACTACAACTTCAGGGAGATAA-ATTTTGCTATGGTAGAT
1 TCAATCTGAC-CCACTACAACTTCAGGGAGATAAGA---T--T-T-GTAGCT
* * * *
54237002 TCAATC-CAGCCCACTACAAGTTCAGGG-GTATAGGATTTGTAACT
1 TCAATCTGA-CCCACTACAACTTCAGGGAG-ATAAGATTTGTAGCT
* * *
54237046 TC-ATCTG-CTCCACTGCAACTTCAGGAAGATAAGATTCATTATGGTAGAT
1 TCAATCTGAC-CCACTACAACTTCAGGGAGATAAG----ATT-T-GTAGCT
* * * ** * * *
54237095 TTAATCCGACCTACTGTAACTTTAGGG-GTATAGGATTTTTAGCT
1 TCAATCTGACCCACTACAACTTCAGGGAG-ATAAGATTTGTAGCT
* * * *
54237139 TCAATC-GTCTCCACTACAACTTCAAGGATATAAGATTCACTATGGTAGAT
1 TCAATCTGAC-CCACTACAACTTCAGGGAGATAAGA-T---T-T-GTAGCT
* ** * *
54237189 TCAATCCGACCCACTTTAACTTCAGGG-GTATAGGATTTGTAACT
1 TCAATCTGACCCACTACAACTTCAGGGAG-ATAAGATTTGTAGCT
* ** * * *
54237233 TTAATCT-ACTCCACTGTAACTTTAGGGAAATAAGATTCGCTATGGTAACT
1 TCAATCTGAC-CCACTACAACTTCAGGGAGATAAGA-T---T-T-GTAGCT
* * * * * * *
54237283 TTAATGTAACCCATTGCAACTTTAGGG-GTATAGGATTTGTAGCT
1 TCAATCTGACCCACTACAACTTCAGGGAG-ATAAGATTTGTAGCT
* *
54237327 TCAATTTG-CTCCACTACAACTTCAGGGAGATAAGATTCGCTATGGTAACT
1 TCAATCTGAC-CCACTACAACTTCAGGGAGATAAGA-T---T-T-GTAGCT
* * *
54237377 TCAATCTGACCCACTGCAACGTCAAGGG-TATAAGATTTGTAGCT
1 TCAATCTGACCCACTACAACTTC-AGGGAGATAAGATTTGTAGCT
* ** *
54237421 TCAATATG-CTCCACTACAACTTCAAAGAGATAAGATTCGCTATGGTAACT
1 TCAATCTGAC-CCACTACAACTTCAGGGAGATAAGA-T---T-T-GTAGCT
*
54237471 TCAACCTGACCCACTACAACTTCA
1 TCAATCTGACCCACTACAACTTCA
54237495 TGGGTATAGG
Statistics
Matches: 938, Mismatches: 209, Indels: 290
0.65 0.15 0.20
Matches are distributed among these distances:
42 5 0.01
43 91 0.10
44 270 0.29
45 34 0.04
46 61 0.07
47 23 0.02
48 18 0.02
49 88 0.09
50 300 0.32
51 28 0.03
52 20 0.02
ACGTcount: A:0.30, C:0.19, G:0.19, T:0.32
Consensus pattern (44 bp):
TCAATCTGACCCACTACAACTTCAGGGAGATAAGATTTGTAGCT
Found at i:54236895 original size:188 final size:188
Alignment explanation
Indices: 54236156--54237510 Score: 1463
Period size: 188 Copynumber: 7.2 Consensus size: 188
54236146 TATTATAGTC
* ** * ** * *
54236156 TCAATCCGACCCACTGTAACTTCAGGGGTATAGGATTTGTAGCTTCACCTTACTCCA-TTGCAAC
1 TCAATCTGACCCACTACAACTTTAGGGGTATAGGATTTGTAGCTTCAATTTGCTCCACTAG-AAC
* * * * * *
54236220 TTCAGGGAGATAATATTTTCTATGGCAGATTCAATCTGACCCACTAAAACTTCAAGGATATAGGA
65 TTCAGGGAGATAAGATTTGCTATGGCAGATTCAATCTGACCCATTACAACTTCAGGGGTATAGGA
* *
54236285 TTTGTAG-TTCAATCTACTCCACTGCAACTTCAG-GAAGATAAGATTTGCTATGGTAGAT
130 TTTGTAGCTTTAATCTACTCCACTGCAACTTCAGAG-AGATAAGATTCGCTATGGTAGAT
* * * * *
54236343 TCAATCTGATCCACTGCAACTTTTTAGGGGTATAGGATTTGTAGCTTAAATTTGTTCCA-TTGCA
1 TCAATCTGACCCACTACAAC--TTTAGGGGTATAGGATTTGTAGCTTCAATTTGCTCCACTAG-A
* * * * *
54236407 ACTTCAAGGAGATAAGATTT-CTATGGCAGATTCAATTTGACGCATTGA-AACTTTAGAGGTATA
63 ACTTCAGGGAGATAAGATTTGCTATGGCAGATTCAATCTGACCCATT-ACAACTTCAGGGGTATA
* * * * *
54236470 GAATTTTTAGCTTAAATATACTCTACTGCAACTTCAGAGAGATAAGATTCGCTATGGTAGAT
127 GGATTTGTAGCTTTAATCTACTCCACTGCAACTTCAGAGAGATAAGATTCGCTATGGTAGAT
* * * *
54236532 TCAATCTGATCCACTACAACTTTTTAGGGGTATAGGATTTGTAGCTTAAATTTGTTCCA-TTGCA
1 TCAATCTGACCCACTACAAC--TTTAGGGGTATAGGATTTGTAGCTTCAATTTGCTCCACTAG-A
* * *
54236596 ACTTCAAGGAGATAAGATTT-CTATGGCAGATTCAATCTGACGCATTGA-AACTTTAGGGGTATA
63 ACTTCAGGGAGATAAGATTTGCTATGGCAGATTCAATCTGACCCATT-ACAACTTCAGGGGTATA
* * * *
54236659 GAATTTTTAGCTTAAATCTACTCTACTGCAACTTCAGAGAGATAAGATTCGCTATGGTAGAT
127 GGATTTGTAGCTTTAATCTACTCCACTGCAACTTCAGAGAGATAAGATTCGCTATGGTAGAT
* * *
54236721 TCAATTTGACCCATTACAACTTCAGGGGTATAGGATTTGTAGCTTCAATTTGCTCCACTAGAACT
1 TCAATCTGACCCACTACAACTTTAGGGGTATAGGATTTGTAGCTTCAATTTGCTCCACTAGAACT
* * *
54236786 TCAGGGAGATAAGATTTGCTATGGCA-ACTTCAATCCGACCCGTTACAACTTTAGGGGTATAGGA
66 TCAGGGAGATAAGATTTGCTATGGCAGA-TTCAATCTGACCCATTACAACTTCAGGGGTATAGGA
* *
54236850 TTTGTAGCTTTAATCTACTTCACTGCAGCTTCAGAGAGATAAGATTCGCTATGGTAGAT
130 TTTGTAGCTTTAATCTACTCCACTGCAACTTCAGAGAGATAAGATTCGCTATGGTAGAT
* * * *
54236909 TCAATTTGACCCACTACAACTTTAGGGATATAGGATTTGTAGCTTC-ATCTGCTCCACTACAACT
1 TCAATCTGACCCACTACAACTTTAGGGGTATAGGATTTGTAGCTTCAATTTGCTCCACTAGAACT
* * * *
54236973 TCAGGGAGATAA-ATTTTGCTATGGTAGATTCAATC-CAGCCCACTACAAGTTCAGGGGTATAGG
66 TCAGGGAGATAAGA-TTTGCTATGGCAGATTCAATCTGA-CCCATTACAACTTCAGGGGTATAGG
* * * **
54237036 ATTTGTAAC-TTCATCTGCTCCACTGCAACTTCAG-GAAGATAAGATTCATTATGGTAGAT
129 ATTTGTAGCTTTAATCTACTCCACTGCAACTTCAGAG-AGATAAGATTCGCTATGGTAGAT
* * * ** * * *
54237095 TTAATCCGACCTACTGTAACTTTAGGGGTATAGGATTTTTAGCTTCAA-TCGTCTCCACTACAAC
1 TCAATCTGACCCACTACAACTTTAGGGGTATAGGATTTGTAGCTTCAATTTG-CTCCACTAGAAC
* * ** * * *
54237159 TTCAAGGATATAAGATTCACTATGGTAGATTCAATCCGACCCACTT-TAACTTCAGGGGTATAGG
65 TTCAGGGAGATAAGATTTGCTATGGCAGATTCAATCTGACCCA-TTACAACTTCAGGGGTATAGG
* * * * *
54237223 ATTTGTAACTTTAATCTACTCCACTGTAACTTTAGGGAAATAAGATTCGCTATGGTA-ACT
129 ATTTGTAGCTTTAATCTACTCCACTGCAACTTCAGAGAGATAAGATTCGCTATGGTAGA-T
* * * * * *
54237283 TTAATGTAACCCATTGCAACTTTAGGGGTATAGGATTTGTAGCTTCAATTTGCTCCACTACAACT
1 TCAATCTGACCCACTACAACTTTAGGGGTATAGGATTTGTAGCTTCAATTTGCTCCACTAGAACT
* * * * * * *
54237348 TCAGGGAGATAAGATTCGCTATGGTA-ACTTCAATCTGACCCACTGCAACGTCAAGGGTATAAGA
66 TCAGGGAGATAAGATTTGCTATGGCAGA-TTCAATCTGACCCATTACAACTTCAGGGGTATAGGA
* * * * *
54237412 TTTGTAGCTTCAATATGCTCCACTACAACTTCAAAGAGATAAGATTCGCTATGGTA-ACT
130 TTTGTAGCTTTAATCTACTCCACTGCAACTTCAGAGAGATAAGATTCGCTATGGTAGA-T
* * *
54237471 TCAACCTGACCCACTACAACTTCATGGGTATAGGATTTGT
1 TCAATCTGACCCACTACAACTTTAGGGGTATAGGATTTGT
54237511 GATTTTACTG
Statistics
Matches: 1021, Mismatches: 123, Indels: 47
0.86 0.10 0.04
Matches are distributed among these distances:
185 1 0.00
186 83 0.08
187 223 0.22
188 408 0.40
189 305 0.30
190 1 0.00
ACGTcount: A:0.30, C:0.19, G:0.19, T:0.32
Consensus pattern (188 bp):
TCAATCTGACCCACTACAACTTTAGGGGTATAGGATTTGTAGCTTCAATTTGCTCCACTAGAACT
TCAGGGAGATAAGATTTGCTATGGCAGATTCAATCTGACCCATTACAACTTCAGGGGTATAGGAT
TTGTAGCTTTAATCTACTCCACTGCAACTTCAGAGAGATAAGATTCGCTATGGTAGAT
Found at i:54239628 original size:17 final size:17
Alignment explanation
Indices: 54239608--54239646 Score: 51
Period size: 17 Copynumber: 2.3 Consensus size: 17
54239598 ATTAATTCTA
54239608 TAATTATAGAATTAAAT
1 TAATTATAGAATTAAAT
* * *
54239625 TAATTCTATAATTAATT
1 TAATTATAGAATTAAAT
54239642 TAATT
1 TAATT
54239647 CAAGCGACAA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.46, C:0.03, G:0.03, T:0.49
Consensus pattern (17 bp):
TAATTATAGAATTAAAT
Found at i:54247349 original size:74 final size:74
Alignment explanation
Indices: 54247255--54247406 Score: 259
Period size: 74 Copynumber: 2.1 Consensus size: 74
54247245 GTCACTCCCC
* *
54247255 AAAAGGTCGATAGTCTGAAGACTAAAGAGGAAACAAATTAAAATTGAATGGAAAAATTAAAAAGA
1 AAAAGGTCGATAGTCTGAAGACTAAAGAAGAAACAAATTAAAATTAAATGGAAAAATTAAAAAGA
54247320 AAAGAAAAA
66 AAAGAAAAA
* *
54247329 AAAAGGTCGATAGTCTGAAGACTAAAGAAGAAACAAATTAAAATTAAATGGCACAATTAAAAAGA
1 AAAAGGTCGATAGTCTGAAGACTAAAGAAGAAACAAATTAAAATTAAATGGAAAAATTAAAAAGA
*
54247394 AAAGAAAAG
66 AAAGAAAAA
54247403 AAAA
1 AAAA
54247407 TTCAAAGTTT
Statistics
Matches: 73, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
74 73 1.00
ACGTcount: A:0.60, C:0.07, G:0.18, T:0.16
Consensus pattern (74 bp):
AAAAGGTCGATAGTCTGAAGACTAAAGAAGAAACAAATTAAAATTAAATGGAAAAATTAAAAAGA
AAAGAAAAA
Found at i:54248086 original size:3 final size:3
Alignment explanation
Indices: 54248080--54248129 Score: 100
Period size: 3 Copynumber: 16.7 Consensus size: 3
54248070 TGTATTCCAT
54248080 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC
54248128 TT
1 TT
54248130 TTTTGTTTAC
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 47 1.00
ACGTcount: A:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (3 bp):
TTC
Found at i:54248419 original size:32 final size:32
Alignment explanation
Indices: 54248383--54248446 Score: 112
Period size: 32 Copynumber: 2.0 Consensus size: 32
54248373 GGCAGTTGGT
54248383 GAACAATTAAAT-GGAGCAGTTAAATTATACAA
1 GAACAATTAAATAGG-GCAGTTAAATTATACAA
54248415 GAACAATTAAATAGGGCAGTTAAATTATACAA
1 GAACAATTAAATAGGGCAGTTAAATTATACAA
54248447 TTAAAATATA
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
32 29 0.94
33 2 0.06
ACGTcount: A:0.50, C:0.09, G:0.16, T:0.25
Consensus pattern (32 bp):
GAACAATTAAATAGGGCAGTTAAATTATACAA
Found at i:54254697 original size:16 final size:14
Alignment explanation
Indices: 54254676--54254714 Score: 60
Period size: 16 Copynumber: 2.6 Consensus size: 14
54254666 TGAACCAAAA
54254676 AAATTAATTAATTT
1 AAATTAATTAATTT
54254690 AGAAATTAATTAATTT
1 --AAATTAATTAATTT
54254706 AAATTAATT
1 AAATTAATT
54254715 GAACAAATAA
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
14 9 0.39
16 14 0.61
ACGTcount: A:0.51, C:0.00, G:0.03, T:0.46
Consensus pattern (14 bp):
AAATTAATTAATTT
Found at i:54259864 original size:30 final size:29
Alignment explanation
Indices: 54259823--54259923 Score: 89
Period size: 30 Copynumber: 3.3 Consensus size: 29
54259813 AATAAATTAA
54259823 CATGAATTAATATAAAATGTGAATGAAAAT
1 CATGAATTAATATAAAAT-TGAATGAAAAT
* * * *
54259853 CATGCATTAATACATACATT-AAT-AAATTAA
1 CATGAATTAATATA-AAATTGAATGAAA--AT
*
54259883 CATGAATTAATATAAAATATGCATGAAAAT
1 CATGAATTAATATAAAAT-TGAATGAAAAT
54259913 CATGTAATTAA
1 CATG-AATTAA
54259924 GCATAATTTC
Statistics
Matches: 55, Mismatches: 9, Indels: 13
0.71 0.12 0.17
Matches are distributed among these distances:
28 3 0.05
29 6 0.11
30 32 0.58
31 11 0.20
32 3 0.05
ACGTcount: A:0.51, C:0.08, G:0.09, T:0.32
Consensus pattern (29 bp):
CATGAATTAATATAAAATTGAATGAAAAT
Found at i:54260934 original size:5 final size:5
Alignment explanation
Indices: 54260918--54260948 Score: 53
Period size: 5 Copynumber: 6.2 Consensus size: 5
54260908 TGAGCATTCG
*
54260918 ATCGA ATTGA ATCGA ATCGA ATCGA ATCGA A
1 ATCGA ATCGA ATCGA ATCGA ATCGA ATCGA A
54260949 AATTTTCGAG
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
5 24 1.00
ACGTcount: A:0.42, C:0.16, G:0.19, T:0.23
Consensus pattern (5 bp):
ATCGA
Found at i:54261311 original size:18 final size:19
Alignment explanation
Indices: 54261290--54261330 Score: 50
Period size: 18 Copynumber: 2.3 Consensus size: 19
54261280 ATTAAATGTA
*
54261290 AAAATATGATTTTT-TAAT
1 AAAATATGATTTTTAAAAT
*
54261308 AAAA-ATTATTTTTAAAAT
1 AAAATATGATTTTTAAAAT
54261326 AAAAT
1 AAAAT
54261331 GTGAAATTGA
Statistics
Matches: 19, Mismatches: 2, Indels: 3
0.79 0.08 0.12
Matches are distributed among these distances:
17 8 0.42
18 11 0.58
ACGTcount: A:0.54, C:0.00, G:0.02, T:0.44
Consensus pattern (19 bp):
AAAATATGATTTTTAAAAT
Found at i:54261988 original size:9 final size:9
Alignment explanation
Indices: 54261974--54262010 Score: 65
Period size: 9 Copynumber: 4.1 Consensus size: 9
54261964 TATAGTTTGA
54261974 TATTCGAAT
1 TATTCGAAT
54261983 TATTCGAAT
1 TATTCGAAT
*
54261992 TATTCGAGT
1 TATTCGAAT
54262001 TATTCGAAT
1 TATTCGAAT
54262010 T
1 T
54262011 CGAAAACTCA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
9 26 1.00
ACGTcount: A:0.30, C:0.11, G:0.14, T:0.46
Consensus pattern (9 bp):
TATTCGAAT
Found at i:54265560 original size:7 final size:7
Alignment explanation
Indices: 54265548--54265574 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
54265538 AATCGATTGG
54265548 ATTAAAA
1 ATTAAAA
54265555 ATTAAAA
1 ATTAAAA
54265562 ATTAAAA
1 ATTAAAA
54265569 ATTAAA
1 ATTAAA
54265575 TTAATTTAAC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 20 1.00
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (7 bp):
ATTAAAA
Found at i:54268815 original size:9 final size:9
Alignment explanation
Indices: 54268801--54268831 Score: 62
Period size: 9 Copynumber: 3.4 Consensus size: 9
54268791 TTACTAATTT
54268801 AAAATTTTA
1 AAAATTTTA
54268810 AAAATTTTA
1 AAAATTTTA
54268819 AAAATTTTA
1 AAAATTTTA
54268828 AAAA
1 AAAA
54268832 GCCTATATGA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 22 1.00
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (9 bp):
AAAATTTTA
Found at i:54279586 original size:21 final size:21
Alignment explanation
Indices: 54279556--54279623 Score: 66
Period size: 21 Copynumber: 3.1 Consensus size: 21
54279546 CTCTCAAAGA
*
54279556 AAAAAG-GAAGTGAGTTAGAC
1 AAAAAGAGAAGTGACTTAGAC
** *
54279576 AAAAAGAGAAGCAACTTGGAC
1 AAAAAGAGAAGTGACTTAGAC
54279597 AAAAAGAAACGAAGTGACTTAGAC
1 AAAAAG--A-GAAGTGACTTAGAC
54279621 AAA
1 AAA
54279624 TGTTTTTTGT
Statistics
Matches: 37, Mismatches: 7, Indels: 4
0.77 0.15 0.08
Matches are distributed among these distances:
20 6 0.16
21 16 0.43
23 1 0.03
24 14 0.38
ACGTcount: A:0.54, C:0.10, G:0.24, T:0.12
Consensus pattern (21 bp):
AAAAAGAGAAGTGACTTAGAC
Found at i:54289553 original size:21 final size:21
Alignment explanation
Indices: 54289527--54289569 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
54289517 ATACTTTTTC
* *
54289527 AAAGTATTTTCTTTTGGGTTA
1 AAAGTATTTTCCTTTGGATTA
54289548 AAAGTATTTTCCTTTGGATTA
1 AAAGTATTTTCCTTTGGATTA
54289569 A
1 A
54289570 TAAATGAATA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.28, C:0.07, G:0.16, T:0.49
Consensus pattern (21 bp):
AAAGTATTTTCCTTTGGATTA
Found at i:54296894 original size:41 final size:41
Alignment explanation
Indices: 54296739--54296884 Score: 217
Period size: 41 Copynumber: 3.6 Consensus size: 41
54296729 TGATTCAGTA
54296739 CACCGGCACTT-AGCCTGCTAGACATATAGTCTGAAATGTAT
1 CACCGGCA-TTAAGCCTGCTAGACATATAGTCTGAAATGTAT
54296780 CACCGGCATTAAGCCTGCTAGACATATAGTCTGAAATGTAT
1 CACCGGCATTAAGCCTGCTAGACATATAGTCTGAAATGTAT
* * *
54296821 CACCGGCATTAAACCTGCTAGACTTAAAGTCTG-AAT-TACTT
1 CACCGGCATTAAGCCTGCTAGACATATAGTCTGAAATGTA--T
54296862 CACCGGCATTAAGCCTGCTAGAC
1 CACCGGCATTAAGCCTGCTAGAC
54296885 GTAACGTCTG
Statistics
Matches: 98, Mismatches: 4, Indels: 6
0.91 0.04 0.06
Matches are distributed among these distances:
39 2 0.02
40 5 0.05
41 91 0.93
ACGTcount: A:0.30, C:0.25, G:0.18, T:0.26
Consensus pattern (41 bp):
CACCGGCATTAAGCCTGCTAGACATATAGTCTGAAATGTAT
Found at i:54296900 original size:41 final size:40
Alignment explanation
Indices: 54296739--54296905 Score: 173
Period size: 41 Copynumber: 4.0 Consensus size: 40
54296729 TGATTCAGTA
54296739 CACCGGCACTT-AGCCTGCTAGACATATAGTCTGAAATGTA--T
1 CACCGGCA-TTAAGCCTGCTAGACATA-AGTCTG-AAT-TACTT
54296780 CACCGGCATTAAGCCTGCTAGACATATAGTCTGAAATGTA--T
1 CACCGGCATTAAGCCTGCTAGACATA-AGTCTG-AAT-TACTT
* *
54296821 CACCGGCATTAAACCTGCTAGACTTAAAGTCTGAATTACTT
1 CACCGGCATTAAGCCTGCTAGACAT-AAGTCTGAATTACTT
* *
54296862 CACCGGCATTAAGCCTGCTAGACGTAACGTCTGTATTACATT
1 CACCGGCATTAAGCCTGCTAGACATAA-GTCTGAATTAC-TT
54296904 CA
1 CA
54296906 ATCACTTTAT
Statistics
Matches: 115, Mismatches: 5, Indels: 11
0.88 0.04 0.08
Matches are distributed among these distances:
39 2 0.02
40 7 0.06
41 101 0.88
42 5 0.04
ACGTcount: A:0.30, C:0.25, G:0.18, T:0.28
Consensus pattern (40 bp):
CACCGGCATTAAGCCTGCTAGACATAAGTCTGAATTACTT
Found at i:54299511 original size:17 final size:17
Alignment explanation
Indices: 54299491--54299551 Score: 63
Period size: 17 Copynumber: 3.6 Consensus size: 17
54299481 TGGGTTTAGA
54299491 AATAATATATAAAAAAT
1 AATAATATATAAAAAAT
* *
54299508 AATAAAATATATAAAAT
1 AATAATATATAAAAAAT
* *
54299525 AATTAATA-ATAACATAT
1 AA-TAATATATAAAAAAT
54299542 AAT-ATATATA
1 AATAATATATA
54299552 TGATTTAAAA
Statistics
Matches: 36, Mismatches: 6, Indels: 5
0.77 0.13 0.11
Matches are distributed among these distances:
15 3 0.08
16 4 0.11
17 25 0.69
18 4 0.11
ACGTcount: A:0.66, C:0.02, G:0.00, T:0.33
Consensus pattern (17 bp):
AATAATATATAAAAAAT
Found at i:54303656 original size:110 final size:108
Alignment explanation
Indices: 54303522--54303809 Score: 367
Period size: 105 Copynumber: 2.7 Consensus size: 108
54303512 GATTTTGGGT
* *
54303522 TATTCAATTACTCATC-AGGAAGATTTGATTTTCTTGATTTTTTTTCCTTTTCTTCATCATCTTC
1 TATTTAATTTCTCATCAAGG-AGATTTGATTTTCTTGA-TTTTTTTCC-TTTCTTCATCATCTTC
*
54303586 ACTGTTAGAAAAAAAAAAGATTTAG-GATTTT-AGGCAATTCAACATC
63 ACTGTTAGAAAAAAAAAAGATTTAGTG-TTTTGA-ACAATTCAACATC
* * *
54303632 TATTTAATTTCTCATCAAGGAGATTTGATTTTCTTGATTTTTTTCCATTCTTTATTATCTTCACT
1 TATTTAATTTCTCATCAAGGAGATTTGATTTTCTTGATTTTTTTCCTTTCTTCATCATCTTCACT
*
54303697 GTT---AAAAAAAATGATTTAGTGTTTTGAACAATTCAACATC
66 GTTAGAAAAAAAAAAGATTTAGTGTTTTGAACAATTCAACATC
* * * *
54303737 TATTTAATTTCTTATCAAGGAGATTTGATTTTCCT-A-TTTTTCCCTTTCTTCATCCTCTTCACT
1 TATTTAATTTCTCATCAAGGAGATTTGATTTTCTTGATTTTTTTCCTTTCTTCATCATCTTCACT
*
54303800 ATTAGAAAAA
66 GTTAGAAAAA
54303810 TGAATTTAGG
Statistics
Matches: 157, Mismatches: 15, Indels: 16
0.84 0.08 0.09
Matches are distributed among these distances:
103 24 0.15
104 1 0.01
105 64 0.41
106 6 0.04
108 19 0.12
109 9 0.06
110 31 0.20
111 3 0.02
ACGTcount: A:0.29, C:0.16, G:0.09, T:0.46
Consensus pattern (108 bp):
TATTTAATTTCTCATCAAGGAGATTTGATTTTCTTGATTTTTTTCCTTTCTTCATCATCTTCACT
GTTAGAAAAAAAAAAGATTTAGTGTTTTGAACAATTCAACATC
Found at i:54309955 original size:20 final size:20
Alignment explanation
Indices: 54309917--54309953 Score: 58
Period size: 19 Copynumber: 1.9 Consensus size: 20
54309907 TTTATATATA
54309917 ATTTAAAGAAAATATTTTAG
1 ATTTAAAGAAAATATTTTAG
*
54309937 ATTTAAA-ATAATATTTT
1 ATTTAAAGAAAATATTTT
54309954 TATCTACAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
19 9 0.56
20 7 0.44
ACGTcount: A:0.49, C:0.00, G:0.05, T:0.46
Consensus pattern (20 bp):
ATTTAAAGAAAATATTTTAG
Found at i:54310804 original size:16 final size:16
Alignment explanation
Indices: 54310783--54310815 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
54310773 TTCGCTGTAT
54310783 TGGAATAGAGGCGTAA
1 TGGAATAGAGGCGTAA
54310799 TGGAATAGAGGCGTAA
1 TGGAATAGAGGCGTAA
54310815 T
1 T
54310816 AGCAAATCAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.36, C:0.06, G:0.36, T:0.21
Consensus pattern (16 bp):
TGGAATAGAGGCGTAA
Found at i:54311070 original size:18 final size:17
Alignment explanation
Indices: 54311049--54311083 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
54311039 TTATTATTAA
*
54311049 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
54311067 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
54311084 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:54311166 original size:120 final size:117
Alignment explanation
Indices: 54311029--54311455 Score: 514
Period size: 120 Copynumber: 3.7 Consensus size: 117
54311019 TTAATCATAT
54311029 TTTAACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAAT
1 TTTAA-ATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAAT
54311094 CAATATTCTTATATGAATTTACTCAAATCATAATATATGATACTATGAAATATAA
65 CAATATTCTTATATGAATTTACT-AAATCATAATATATGATA-TATGAAATATAA
*
54311149 TTTAAGATAATTATTATTAAATATATTTTAATTAAAATATATGATTTAATAAAATTCTTAATAAT
1 TTTAA-ATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAAT
*
54311214 CAATATTCTTATATGAATTTACTAAAATCATAATATATGATAGTATAAAATATAA
65 CAATATTCTTATATGAATTTACT-AAATCATAATATATGATA-TATGAAATATAA
* *
54311269 TTTGAAATAATTATTATTAAATATATTTTAATTAAAATATATGATTTAATCAAA-T-TTAA-AAT
1 TTT-AAATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAAT
** *
54311331 -AATTATTAGTA-AT-AATTT--T---TC-T--TATATGA-ATTTG---TATAA
65 CAA-TATTCTTATATGAATTTACTAAATCATAATATATGATATATGAAATATAA
* * **
54311370 TTTAATATAATTATTATTAAATATAATTTAA-TAATAATATATAATTTCATAAAATTCTTGGTAA
1 TTTAA-ATAATTATTATTAAATATATTTTAATTAA-AATATATAATTTAATAAAATTCTTAATAA
* *
54311434 TAAATTTTCTTATATGAATTTA
64 TCAATATTCTTATATGAATTTA
54311456 TATAATTTAA
Statistics
Matches: 277, Mismatches: 19, Indels: 35
0.84 0.06 0.11
Matches are distributed among these distances:
100 5 0.02
101 48 0.17
102 1 0.00
103 2 0.01
104 10 0.04
105 5 0.02
106 12 0.04
108 1 0.00
109 2 0.01
113 1 0.00
115 5 0.02
116 4 0.01
117 9 0.03
118 4 0.01
119 1 0.00
120 165 0.60
121 2 0.01
ACGTcount: A:0.46, C:0.04, G:0.04, T:0.46
Consensus pattern (117 bp):
TTTAAATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATC
AATATTCTTATATGAATTTACTAAATCATAATATATGATATATGAAATATAA
Found at i:54311188 original size:59 final size:58
Alignment explanation
Indices: 54311029--54311313 Score: 182
Period size: 61 Copynumber: 4.8 Consensus size: 58
54311019 TTAATCATAT
* * *
54311029 TTTAACATAATTATTATTAAATATATTTTAATTAAAATATATAAT-TTAATAAAATTCTTAA
1 TTTAA-ATAATTATTATTAAATATATTTTAATTAAAATATATGATACT-ATAAAA-T-ATAA
* * * * * * ** * * *
54311090 TAATCAAT-ATTCTTATATGAATTTACTCAAATCATAATATATGATACTATGAAATATAA
1 T-TTAAATAATTATTAT-TAAATATATTTTAATTAAAATATATGATACTATAAAATATAA
* *
54311149 TTTAAGATAATTATTATTAAATATATTTTAATTAAAATATATGAT-TTAATAAAATTCTTAA
1 TTTAA-ATAATTATTATTAAATATATTTTAATTAAAATATATGATACT-ATAAAA-T-ATAA
* * * * * * ** * * *
54311210 TAATCAAT-ATTCTTATATGAATTTACTAAAATCATAATATATGATAGTATAAAATATAA
1 T-TTAAATAATTATTAT-TAAATATATTTTAATTAAAATATATGATACTATAAAATATAA
54311269 TTTGAAATAATTATTATTAAATATATTTTAATTAAAATATATGAT
1 TTT-AAATAATTATTATTAAATATATTTTAATTAAAATATATGAT
54311314 TTAATCAAAT
Statistics
Matches: 162, Mismatches: 49, Indels: 28
0.68 0.21 0.12
Matches are distributed among these distances:
58 4 0.02
59 60 0.37
60 31 0.19
61 61 0.38
62 6 0.04
ACGTcount: A:0.48, C:0.05, G:0.04, T:0.44
Consensus pattern (58 bp):
TTTAAATAATTATTATTAAATATATTTTAATTAAAATATATGATACTATAAAATATAA
Found at i:54311190 original size:18 final size:17
Alignment explanation
Indices: 54311167--54311203 Score: 51
Period size: 16 Copynumber: 2.2 Consensus size: 17
54311157 AATTATTATT
54311167 AAATATAT--TTTAATTA
1 AAATATATGATTTAA-TA
54311183 AAATATATGATTTAATA
1 AAATATATGATTTAATA
54311200 AAAT
1 AAAT
54311204 TCTTAATAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
16 8 0.42
17 6 0.32
18 5 0.26
ACGTcount: A:0.54, C:0.00, G:0.03, T:0.43
Consensus pattern (17 bp):
AAATATATGATTTAATA
Found at i:54311380 original size:101 final size:91
Alignment explanation
Indices: 54311263--54311637 Score: 438
Period size: 91 Copynumber: 4.0 Consensus size: 91
54311253 ATAGTATAAA
* * * *
54311263 ATATAATTTGAAATAATTATTATTAAATATATTTTAATTAAAATATATGATTTAATCAAATTTAA
1 ATATAATTTAAAATAATTAATATTAAATATAATTTAA-T--AATATAT-A--TAAT--AATTTAT
* *
54311328 AATAATTATTAGTAATAATTTTTCTTATATGAATTT
58 AA-AATTCTT-GTAATAAATTTTCTTATATGAATTT
* * *
54311364 GTATAATTTAATATAATTATTATTAAATATAATTTAATAATA-ATAT-ATAATTTCATAAAATTC
1 ATATAATTTAAAATAATTAATATTAAATATAATTTAATAATATATATAATAATTT-ATAAAATTC
54311427 TTGGTAATAAATTTTCTTATATGAATTT
65 TT-GTAATAAATTTTCTTATATGAATTT
*
54311455 ATATAATTTAAAATAATTAATATTAAATATAATTTAATAATGATATATAAT--TTCATAAAATTC
1 ATATAATTTAAAATAATTAATATTAAATATAATTTAATAAT-ATATATAATAATTTATAAAATTC
54311518 TTGATAATAAATTTTCTTATATGAATTT
65 TTG-TAATAAATTTTCTTATATGAATTT
* *
54311546 ATATAATTTAAAATAATTAATATTAAATATAATTTAATAATGATATAT-A-AGTTCATAAAATTC
1 ATATAATTTAAAATAATTAATATTAAATATAATTTAATAAT-ATATATAATAATTTATAAAATTC
* *
54311609 TTAATAATAAATATTCTTATATGAATTT
65 TT-GTAATAAATTTTCTTATATGAATTT
54311637 A
1 A
54311638 CTAAAATCAT
Statistics
Matches: 252, Mismatches: 14, Indels: 26
0.86 0.05 0.09
Matches are distributed among these distances:
90 2 0.01
91 194 0.77
92 6 0.02
93 6 0.02
94 3 0.01
96 1 0.00
97 2 0.01
98 4 0.02
100 1 0.00
101 33 0.13
ACGTcount: A:0.47, C:0.03, G:0.04, T:0.47
Consensus pattern (91 bp):
ATATAATTTAAAATAATTAATATTAAATATAATTTAATAATATATATAATAATTTATAAAATTCT
TGTAATAAATTTTCTTATATGAATTT
Found at i:54311434 original size:91 final size:91
Alignment explanation
Indices: 54311340--54311637 Score: 515
Period size: 91 Copynumber: 3.3 Consensus size: 91
54311330 TAATTATTAG
* * * *
54311340 TAATAATTTTTCTTATATGAATTTGTATAATTTAATATAATTATTATTAAATATAATTTAATAAT
1 TAATAAATTTTCTTATATGAATTTATATAATTTAAAATAATTAATATTAAATATAATTTAATAAT
* *
54311405 AATATATAATTTCATAAAATTCTTGG
66 GATATATAATTTCATAAAATTCTTGA
54311431 TAATAAATTTTCTTATATGAATTTATATAATTTAAAATAATTAATATTAAATATAATTTAATAAT
1 TAATAAATTTTCTTATATGAATTTATATAATTTAAAATAATTAATATTAAATATAATTTAATAAT
54311496 GATATATAATTTCATAAAATTCTTGA
66 GATATATAATTTCATAAAATTCTTGA
54311522 TAATAAATTTTCTTATATGAATTTATATAATTTAAAATAATTAATATTAAATATAATTTAATAAT
1 TAATAAATTTTCTTATATGAATTTATATAATTTAAAATAATTAATATTAAATATAATTTAATAAT
* *
54311587 GATATATAAGTTCATAAAATTCTTAA
66 GATATATAATTTCATAAAATTCTTGA
*
54311613 TAATAAATATTCTTATATGAATTTA
1 TAATAAATTTTCTTATATGAATTTA
54311638 CTAAAATCAT
Statistics
Matches: 198, Mismatches: 9, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
91 198 1.00
ACGTcount: A:0.46, C:0.03, G:0.04, T:0.47
Consensus pattern (91 bp):
TAATAAATTTTCTTATATGAATTTATATAATTTAAAATAATTAATATTAAATATAATTTAATAAT
GATATATAATTTCATAAAATTCTTGA
Found at i:54311458 original size:47 final size:47
Alignment explanation
Indices: 54311331--54311637 Score: 207
Period size: 44 Copynumber: 6.7 Consensus size: 47
54311321 AATTTAAAAT
* * * * *
54311331 AATTATTAGTAATAATTTTTCTTATATGAATTTGTATAATTTAATAT
1 AATTATTAATAATAAATTTTCTTATATGAATTTATATAATTTCATAA
* **
54311378 AATTATTATTAAATATAA-TTTAATA-AT-AA--TATATAATTTCATAA
1 AATTATTAAT-AATA-AATTTTCTTATATGAATTTATATAATTTCATAA
* **
54311422 AATTCTTGGTAATAAATTTTCTTATATGAATTTATATAA-TT--TAA
1 AATTATTAATAATAAATTTTCTTATATGAATTTATATAATTTCATAA
* * * *
54311466 AATAATTAATATTAAATATAAT-TTA-AT-AATGATATATAATTTCATAA
1 AATTATTAATAATAAAT-T-TTCTTATATGAAT-TTATATAATTTCATAA
* *
54311513 AATTCTTGATAATAAATTTTCTTATATGAATTTATATAA-TT--TAA
1 AATTATTAATAATAAATTTTCTTATATGAATTTATATAATTTCATAA
* * * * *
54311557 AATAATTAATATTAAATATAAT-TTA-AT-AATGATATATAAGTTCATAA
1 AATTATTAATAATAAAT-T-TTCTTATATGAAT-TTATATAATTTCATAA
* *
54311604 AATTCTTAATAATAAATATTCTTATATGAATTTA
1 AATTATTAATAATAAATTTTCTTATATGAATTTA
54311638 CTAAAATCAT
Statistics
Matches: 198, Mismatches: 37, Indels: 50
0.69 0.13 0.18
Matches are distributed among these distances:
42 2 0.01
43 15 0.08
44 70 0.35
45 16 0.08
46 15 0.08
47 64 0.32
48 15 0.08
49 1 0.01
ACGTcount: A:0.46, C:0.03, G:0.04, T:0.47
Consensus pattern (47 bp):
AATTATTAATAATAAATTTTCTTATATGAATTTATATAATTTCATAA
Found at i:54316148 original size:53 final size:53
Alignment explanation
Indices: 54316085--54316190 Score: 185
Period size: 53 Copynumber: 2.0 Consensus size: 53
54316075 GCAGTGGATT
*
54316085 TCAAAAACCACAAAAAATGACAGGAAAAAAATGAAAAAAGAGCCCGAGAGAGA
1 TCAAAAACCACAAAAAATGACAGGAAAAAAATGAAAAAAGAGACCGAGAGAGA
* *
54316138 TCAAAAACCACAACAAATGACAGGGAAAAAATGAAAAAAGAGACCGAGAGAGA
1 TCAAAAACCACAAAAAATGACAGGAAAAAAATGAAAAAAGAGACCGAGAGAGA
54316191 GAATTGTTAA
Statistics
Matches: 50, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
53 50 1.00
ACGTcount: A:0.59, C:0.15, G:0.20, T:0.06
Consensus pattern (53 bp):
TCAAAAACCACAAAAAATGACAGGAAAAAAATGAAAAAAGAGACCGAGAGAGA
Found at i:54317714 original size:25 final size:26
Alignment explanation
Indices: 54317662--54317710 Score: 66
Period size: 26 Copynumber: 2.0 Consensus size: 26
54317652 TATATATTAC
54317662 TTTTTTTATTAATATTAAGATTTAAT
1 TTTTTTTATTAATATTAAGATTTAAT
* *
54317688 TTTTTTTGTT-ATTTTAAG-TTTAA
1 TTTTTTTATTAATATTAAGATTTAA
54317711 ATTTAAGTTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
24 5 0.24
25 7 0.33
26 9 0.43
ACGTcount: A:0.29, C:0.00, G:0.06, T:0.65
Consensus pattern (26 bp):
TTTTTTTATTAATATTAAGATTTAAT
Found at i:54320502 original size:5 final size:5
Alignment explanation
Indices: 54320492--54320516 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
54320482 ATATGGTCAA
54320492 CGGGT CGGGT CGGGT CGGGT CGGGT
1 CGGGT CGGGT CGGGT CGGGT CGGGT
54320517 GGCACCTGTC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.00, C:0.20, G:0.60, T:0.20
Consensus pattern (5 bp):
CGGGT
Found at i:54320750 original size:17 final size:16
Alignment explanation
Indices: 54320706--54320753 Score: 53
Period size: 17 Copynumber: 2.9 Consensus size: 16
54320696 AATGAACGGT
*
54320706 AGAGAAAAA-AAAAAG
1 AGAGAAAAAGAAGAAG
*
54320721 AGAGAAAGGAGAAGAAG
1 AGAGAAA-AAGAAGAAG
54320738 AGAAGAAAAAGAAGAA
1 AG-AGAAAAAGAAGAA
54320754 AGGTAATGTA
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
15 7 0.26
16 1 0.04
17 14 0.52
18 5 0.19
ACGTcount: A:0.71, C:0.00, G:0.29, T:0.00
Consensus pattern (16 bp):
AGAGAAAAAGAAGAAG
Found at i:54320908 original size:82 final size:81
Alignment explanation
Indices: 54320839--54321058 Score: 286
Period size: 80 Copynumber: 2.7 Consensus size: 81
54320829 TATTAATTAT
*
54320839 TAATTATAAATTAT-TTATATTTAGTGTTTATAG-TTTGGATTAGTATTTTGTATGAATATTCTA
1 TAATTAT--ATTATATTA-ATTTAGTATTTATAGTTTTGGATTAGTATTTTGTATGAATATTCTA
54320902 ATTTTTTGTATGAATATTG
63 ATTTTTTGTATGAATATTG
* * *
54320921 TAATTATTTTATAATTAATTTTGTATTTATAGTTTTGGATTAGTATTTTGTATGAATATTGTAA-
1 TAATTATATTAT-ATTAATTTAGTATTTATAGTTTTGGATTAGTATTTTGTATGAATATTCTAAT
*
54320985 -TATTGTATGAATATTG
65 TTTTTGTATGAATATTG
* *
54321001 TAATTATTTTATAATTAATTTTGTATTTATAGTTTTGGATTAGTATTTATGTAATGAA
1 TAATTATATTAT-ATTAATTTAGTATTTATAGTTTTGGATTAGTATTT-TGT-ATGAA
54321059 GTACATATCA
Statistics
Matches: 128, Mismatches: 5, Indels: 10
0.90 0.03 0.07
Matches are distributed among these distances:
80 67 0.52
81 16 0.12
82 45 0.35
ACGTcount: A:0.31, C:0.00, G:0.13, T:0.55
Consensus pattern (81 bp):
TAATTATATTATATTAATTTAGTATTTATAGTTTTGGATTAGTATTTTGTATGAATATTCTAATT
TTTTGTATGAATATTG
Found at i:54320909 original size:21 final size:22
Alignment explanation
Indices: 54320882--54320930 Score: 82
Period size: 21 Copynumber: 2.3 Consensus size: 22
54320872 TTTGGATTAG
54320882 TATTTTGTATGAATATTCTAAT
1 TATTTTGTATGAATATTCTAAT
*
54320904 T-TTTTGTATGAATATTGTAAT
1 TATTTTGTATGAATATTCTAAT
54320925 TATTTT
1 TATTTT
54320931 ATAATTAATT
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
21 20 0.80
22 5 0.20
ACGTcount: A:0.29, C:0.02, G:0.10, T:0.59
Consensus pattern (22 bp):
TATTTTGTATGAATATTCTAAT
Found at i:54320992 original size:19 final size:19
Alignment explanation
Indices: 54320968--54321004 Score: 74
Period size: 19 Copynumber: 1.9 Consensus size: 19
54320958 GATTAGTATT
54320968 TTGTATGAATATTGTAATA
1 TTGTATGAATATTGTAATA
54320987 TTGTATGAATATTGTAAT
1 TTGTATGAATATTGTAAT
54321005 TATTTTATAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.35, C:0.00, G:0.16, T:0.49
Consensus pattern (19 bp):
TTGTATGAATATTGTAATA
Found at i:54321013 original size:80 final size:81
Alignment explanation
Indices: 54320865--54321058 Score: 329
Period size: 80 Copynumber: 2.4 Consensus size: 81
54320855 ATATTTAGTG
*
54320865 TTTATAG-TTTGGATTAGTATTTTGTATGAATATTCTAATTTTTTGTATGAATATTGTAATTATT
1 TTTATAGTTTTGGATTAGTATTTTGTATGAATATTCTAA-TTATTGTATGAATATTGTAATTATT
54320929 TTATAATTAATTTTGTA
65 TTATAATTAATTTTGTA
*
54320946 TTTATAGTTTTGGATTAGTATTTTGTATGAATATTGTAA-TATTGTATGAATATTGTAATTATTT
1 TTTATAGTTTTGGATTAGTATTTTGTATGAATATTCTAATTATTGTATGAATATTGTAATTATTT
54321010 TATAATTAATTTTGTA
66 TATAATTAATTTTGTA
54321026 TTTATAGTTTTGGATTAGTATTTATGTAATGAA
1 TTTATAGTTTTGGATTAGTATTT-TGT-ATGAA
54321059 GTACATATCA
Statistics
Matches: 108, Mismatches: 2, Indels: 5
0.94 0.02 0.04
Matches are distributed among these distances:
80 63 0.58
81 10 0.09
82 35 0.32
ACGTcount: A:0.30, C:0.01, G:0.14, T:0.55
Consensus pattern (81 bp):
TTTATAGTTTTGGATTAGTATTTTGTATGAATATTCTAATTATTGTATGAATATTGTAATTATTT
TATAATTAATTTTGTA
Found at i:54321431 original size:15 final size:15
Alignment explanation
Indices: 54321411--54321443 Score: 66
Period size: 15 Copynumber: 2.2 Consensus size: 15
54321401 CTGCCACGAC
54321411 ATGTGTACATGGATA
1 ATGTGTACATGGATA
54321426 ATGTGTACATGGATA
1 ATGTGTACATGGATA
54321441 ATG
1 ATG
54321444 AAGTGTTTGA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.33, C:0.06, G:0.27, T:0.33
Consensus pattern (15 bp):
ATGTGTACATGGATA
Found at i:54324135 original size:27 final size:27
Alignment explanation
Indices: 54324073--54324141 Score: 77
Period size: 27 Copynumber: 2.6 Consensus size: 27
54324063 GAAAAATCAG
*
54324073 ACCATTGGCGCCTCTTAACATGGCACC
1 ACCATTGGCGCCTCTCAACATGGCACC
* * *
54324100 ACTAATGGCGCCTCTC-AGATAGGCACC
1 ACCATTGGCGCCTCTCAACAT-GGCACC
*
54324127 ACCATTGGCACCTCT
1 ACCATTGGCGCCTCT
54324142 GAACTATGTA
Statistics
Matches: 34, Mismatches: 7, Indels: 2
0.79 0.16 0.05
Matches are distributed among these distances:
26 3 0.09
27 31 0.91
ACGTcount: A:0.23, C:0.36, G:0.19, T:0.22
Consensus pattern (27 bp):
ACCATTGGCGCCTCTCAACATGGCACC
Found at i:54329319 original size:51 final size:51
Alignment explanation
Indices: 54329230--54329358 Score: 131
Period size: 51 Copynumber: 2.5 Consensus size: 51
54329220 AAAGGTCGCA
*
54329230 TGTGTAGTACTATGTGCAGGCTAGT--ATGCGTACCGGATAGCTT-CGATCACG
1 TGTGTAGTACTATGTGCAGGCTACTACATGCGTA-CGGATA--TTACGATCACG
* * * *
54329281 TGTGTAGTACTATGTGCAGGCTACTACATGTGT-TGGATATTAATGGTCACG
1 TGTGTAGTACTATGTGCAGGCTACTACATGCGTACGGATATT-ACGATCACG
* *
54329332 GGTTTAGTACTATGTGCAGGCTACTAC
1 TGTGTAGTACTATGTGCAGGCTACTAC
54329359 GTGAACCGAA
Statistics
Matches: 67, Mismatches: 7, Indels: 8
0.82 0.09 0.10
Matches are distributed among these distances:
49 2 0.03
51 60 0.90
53 5 0.07
ACGTcount: A:0.22, C:0.17, G:0.28, T:0.33
Consensus pattern (51 bp):
TGTGTAGTACTATGTGCAGGCTACTACATGCGTACGGATATTACGATCACG
Found at i:54343947 original size:77 final size:81
Alignment explanation
Indices: 54343866--54344037 Score: 226
Period size: 83 Copynumber: 2.1 Consensus size: 81
54343856 ACGACATGAT
* * *
54343866 TAAATCCTGAAACAAAATTATTTAATTAAATCTT-GTTTGGAAACAAAATC-A-A-AATAAAATT
1 TAAATCCCGAAACAAAATTATTTAATTAAATATTCGTTTGGAAACAAAATCAAGACAATAAAATC
54343927 TATTAAACGGTAGGAA
66 TATTAAACGGTAGGAA
* * *
54343943 TAAATCCCAAAACAAAATTATTTGATTAAGTATTCGTTTGGAAACAAAATCAAGATCGAATAAAA
1 TAAATCCCGAAACAAAATTATTTAATTAAATATTCGTTTGGAAACAAAATCAAGA-C-AATAAAA
* *
54344008 TCTGTTAAATGGTAGGAA
64 TCTATTAAACGGTAGGAA
54344026 TAAATCCCGAAA
1 TAAATCCCGAAA
54344038 AAATTAGTCA
Statistics
Matches: 80, Mismatches: 9, Indels: 6
0.84 0.09 0.06
Matches are distributed among these distances:
77 29 0.36
78 16 0.20
79 1 0.01
80 1 0.01
83 33 0.41
ACGTcount: A:0.48, C:0.11, G:0.12, T:0.29
Consensus pattern (81 bp):
TAAATCCCGAAACAAAATTATTTAATTAAATATTCGTTTGGAAACAAAATCAAGACAATAAAATC
TATTAAACGGTAGGAA
Found at i:54344026 original size:83 final size:77
Alignment explanation
Indices: 54343828--54344038 Score: 215
Period size: 77 Copynumber: 2.6 Consensus size: 77
54343818 ATTAAATTCT
* * * * ** * * **
54343828 GAAACATAATCAAAATCAAGTCTGTTAAACGACATGATTAAATCCTGAAACAAAATTATTTAATT
1 GAAACAAAATCAAAATAAAATCTATTAAACGGTAGGAATAAATCCCAAAACAAAATTATTTAATT
*
54343893 AAATCTTGTTTG
66 AAATATTGTTTG
* *
54343905 GAAACAAAATCAAAATAAAATTTATTAAACGGTAGGAATAAATCCCAAAACAAAATTATTTGATT
1 GAAACAAAATCAAAATAAAATCTATTAAACGGTAGGAATAAATCCCAAAACAAAATTATTTAATT
*
54343970 AAGTATTCGTTTG
66 AAATATT-GTTTG
* *
54343983 GAAACAAAATCAAGATCGAATAAAATCTGTTAAATGGTAGGAATAAATCCCGAAAA
1 GAAACAAAATC-A-A---AATAAAATCTATTAAACGGTAGGAATAAATCCC-AAAA
54344039 AATTAGTCAA
Statistics
Matches: 110, Mismatches: 17, Indels: 7
0.82 0.13 0.05
Matches are distributed among these distances:
77 58 0.53
78 16 0.15
79 1 0.01
80 1 0.01
83 30 0.27
84 4 0.04
ACGTcount: A:0.48, C:0.12, G:0.12, T:0.28
Consensus pattern (77 bp):
GAAACAAAATCAAAATAAAATCTATTAAACGGTAGGAATAAATCCCAAAACAAAATTATTTAATT
AAATATTGTTTG
Found at i:54344259 original size:86 final size:84
Alignment explanation
Indices: 54344070--54344263 Score: 194
Period size: 86 Copynumber: 2.2 Consensus size: 84
54344060 TTTGGGAGCA
* * * * * *
54344070 AAATAAAAATTGAATAAAATCTGTTAAATGGCGGGAATAAATCCCGAAATATATTTTATTTTATT
1 AAATAAAAAATGAATAAAAT-TGTTAAACGACGAGAATAAATCCCGAAATAGATTTTATTTAATT
* *
54344135 TAATTTCTCGTTTGGCAACT
65 TAATTACTCGTTTGGCAAAT
* ***
54344155 AAATATAAAACTGGAATAAAATTGTTAAACGACGAGAATAAATTTTGAAATAGATTTTATTTAAT
1 AAATA-AAAAAT-GAATAAAATTGTTAAACGACGAGAATAAATCCCGAAATAGATTTTATTTAA-
*
54344220 TTTAA-TACTCATTTTGG-AAAT
63 TTTAATTACTC-GTTTGGCAAAT
54344241 AACATAAAAAATGAAATAAAATT
1 AA-ATAAAAAATG-AATAAAATT
54344264 TATTAAACAA
Statistics
Matches: 90, Mismatches: 13, Indels: 11
0.79 0.11 0.10
Matches are distributed among these distances:
85 6 0.07
86 62 0.69
87 22 0.24
ACGTcount: A:0.45, C:0.08, G:0.11, T:0.36
Consensus pattern (84 bp):
AAATAAAAAATGAATAAAATTGTTAAACGACGAGAATAAATCCCGAAATAGATTTTATTTAATTT
AATTACTCGTTTGGCAAAT
Found at i:54344313 original size:65 final size:66
Alignment explanation
Indices: 54344211--54344336 Score: 173
Period size: 65 Copynumber: 1.9 Consensus size: 66
54344201 GAAATAGATT
* * * *
54344211 TTATTTAATTTTAATACTCATTTTGGAAATAACATAAAAAATGAAATAAAATTTATTAAACAAAT
1 TTATTTAATTTTAATACTCAGTTTGGAAACAAAATAAAAAATGAAATAAAATCTATTAAACAAAT
54344276 C
66 C
* * * *
54344277 TTATTTAATTTTAATTCTC-GTTTGGAAACAAAATAAAAAATGGAGTAAAATCTGTTAAAC
1 TTATTTAATTTTAATACTCAGTTTGGAAACAAAATAAAAAATGAAATAAAATCTATTAAAC
54344337 GGTGGGAATA
Statistics
Matches: 52, Mismatches: 8, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
65 34 0.65
66 18 0.35
ACGTcount: A:0.47, C:0.08, G:0.08, T:0.37
Consensus pattern (66 bp):
TTATTTAATTTTAATACTCAGTTTGGAAACAAAATAAAAAATGAAATAAAATCTATTAAACAAAT
C
Found at i:54345020 original size:20 final size:20
Alignment explanation
Indices: 54344992--54345045 Score: 63
Period size: 20 Copynumber: 2.7 Consensus size: 20
54344982 TTTAAAGGAG
* *
54344992 AAATTAAATCAATTTGATTA
1 AAATCAAATCAATTTAATTA
* *
54345012 AAATCAAATCAAATTAATTG
1 AAATCAAATCAATTTAATTA
*
54345032 AAATCAAATAAATT
1 AAATCAAATCAATT
54345046 AGGATATATG
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.56, C:0.07, G:0.04, T:0.33
Consensus pattern (20 bp):
AAATCAAATCAATTTAATTA
Found at i:54346215 original size:17 final size:18
Alignment explanation
Indices: 54346178--54346215 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
54346168 TAATATTTTA
*
54346178 ATTTATTAAATAAATAAC
1 ATTTATTAAATAAAGAAC
*
54346196 ATTTATTAAAT-TAGAAC
1 ATTTATTAAATAAAGAAC
54346213 ATT
1 ATT
54346216 AACTAAAAAT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
17 7 0.39
18 11 0.61
ACGTcount: A:0.50, C:0.05, G:0.03, T:0.42
Consensus pattern (18 bp):
ATTTATTAAATAAAGAAC
Found at i:54355539 original size:25 final size:24
Alignment explanation
Indices: 54355459--54355540 Score: 67
Period size: 25 Copynumber: 3.3 Consensus size: 24
54355449 CATATAAACA
* *
54355459 GGAAGCTCTTACGAGCCATATAACG
1 GGAAGCTCATACGAGCC-TATAATG
**
54355484 GGAAGCTCATGTGAG-CTAAGTAATG
1 GGAAGCTCATACGAGCCT-A-TAATG
* *
54355509 GAAAGCTCATACGAGCCGTATATTG
1 GGAAGCTCATACGAGCC-TATAATG
54355534 GGAAGCT
1 GGAAGCT
54355541 TTTGCAAGCC
Statistics
Matches: 44, Mismatches: 9, Indels: 8
0.72 0.15 0.13
Matches are distributed among these distances:
23 1 0.02
24 2 0.05
25 38 0.86
26 2 0.05
27 1 0.02
ACGTcount: A:0.32, C:0.18, G:0.28, T:0.22
Consensus pattern (24 bp):
GGAAGCTCATACGAGCCTATAATG
Found at i:54371702 original size:13 final size:13
Alignment explanation
Indices: 54371684--54371710 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
54371674 AATATAAGAC
54371684 ACATAAAAATCAA
1 ACATAAAAATCAA
54371697 ACATAAAAATCAA
1 ACATAAAAATCAA
54371710 A
1 A
54371711 GCATGATTAC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.70, C:0.15, G:0.00, T:0.15
Consensus pattern (13 bp):
ACATAAAAATCAA
Found at i:54376844 original size:23 final size:23
Alignment explanation
Indices: 54376777--54376844 Score: 54
Period size: 19 Copynumber: 3.1 Consensus size: 23
54376767 AATATGAAAA
*
54376777 AAAAGAAATACATAACAATTTTTT
1 AAAA-AAATACATAATAATTTTTT
** * *
54376801 AAAACTATA-AT-AT-A-GTGTT
1 AAAAAAATACATAATAATTTTTT
54376820 AAAAAAATACATAATAATTTTTT
1 AAAAAAATACATAATAATTTTTT
54376843 AA
1 AA
54376845 TACTACTTAT
Statistics
Matches: 31, Mismatches: 9, Indels: 9
0.63 0.18 0.18
Matches are distributed among these distances:
19 10 0.32
20 3 0.10
21 3 0.10
22 3 0.10
23 8 0.26
24 4 0.13
ACGTcount: A:0.54, C:0.06, G:0.04, T:0.35
Consensus pattern (23 bp):
AAAAAAATACATAATAATTTTTT
Found at i:54377584 original size:15 final size:16
Alignment explanation
Indices: 54377557--54377588 Score: 57
Period size: 15 Copynumber: 2.1 Consensus size: 16
54377547 CTTTTTACTC
54377557 TAATATAACATACTTG
1 TAATATAACATACTTG
54377573 TAATATAA-ATACTTG
1 TAATATAACATACTTG
54377588 T
1 T
54377589 GGAATAAATA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 8 0.50
16 8 0.50
ACGTcount: A:0.44, C:0.09, G:0.06, T:0.41
Consensus pattern (16 bp):
TAATATAACATACTTG
Found at i:54379817 original size:15 final size:15
Alignment explanation
Indices: 54379788--54379818 Score: 55
Period size: 14 Copynumber: 2.1 Consensus size: 15
54379778 ATAGATGTAT
54379788 AATATAATATTAAAA
1 AATATAATATTAAAA
54379803 AATA-AATATTAAAA
1 AATATAATATTAAAA
54379817 AA
1 AA
54379819 GACATATGTC
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 12 0.75
15 4 0.25
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (15 bp):
AATATAATATTAAAA
Found at i:54386887 original size:37 final size:35
Alignment explanation
Indices: 54386844--54386941 Score: 106
Period size: 36 Copynumber: 2.7 Consensus size: 35
54386834 ATCATTAAAA
* *
54386844 ACAGGTCTAACCCAACTTTTTTTAAAATTACTTTAG
1 ACAGGTCTATCCCAAC-TTTTTTAAAATTACTTTAC
* ** *
54386880 ACAAGGTCTATCTCAACTTTTTTAAGGTTGCTTTAC
1 AC-AGGTCTATCCCAACTTTTTTAAAATTACTTTAC
*
54386916 ACAGGTCTATCCTAACCTTTTTTAAA
1 ACAGGTCTATCCCAA-CTTTTTTAAA
54386942 GGTTGCCTTA
Statistics
Matches: 51, Mismatches: 9, Indels: 4
0.80 0.14 0.06
Matches are distributed among these distances:
35 11 0.22
36 28 0.55
37 12 0.24
ACGTcount: A:0.30, C:0.20, G:0.10, T:0.40
Consensus pattern (35 bp):
ACAGGTCTATCCCAACTTTTTTAAAATTACTTTAC
Found at i:54386975 original size:73 final size:73
Alignment explanation
Indices: 54386844--54387201 Score: 322
Period size: 73 Copynumber: 4.9 Consensus size: 73
54386834 ATCATTAAAA
* * * * * * * *
54386844 ACAGGTCTAACCCAACTTTTTTTAAA-ATTACTTTAGACAAGGT-CTATCTCAACTTTTTTAAGG
1 ACAGGTCTATCCCAACCTTTTTTAAAGGTTGCCTTAGACATGGTGC-ATCCCAACCTTTTTAAGG
* *
54386907 TTGCTTTAC
65 TTGCCTTAG
* *
54386916 ACAGGTCTATCCTAACCTTTTTTAAAGGTTGCCTTAGACATGGTGCAACCCAACCTTTTTAAGGT
1 ACAGGTCTATCCCAACCTTTTTTAAAGGTTGCCTTAGACATGGTGCATCCCAACCTTTTTAAGGT
* *
54386981 TGTCTTAA
66 TGCCTTAG
* * * *
54386989 ACAGGTCTAT-CCAACCTTTTCTTATAGGTTGTCTTAGACAAGGT-CTATCCTAACCTTTTTAAG
1 ACAGGTCTATCCCAACCTTTT-TTAAAGGTTGCCTTAGACATGGTGC-ATCCCAACCTTTTTAAG
54387052 GTTGCCTTAG
64 GTTGCCTTAG
* * * * *
54387062 ACAGCTCTATCCCAATCATTTTTAAAAGTTTCCTTAGACAAGTGGTG--TCCCAACCTTTTTAAG
1 ACAGGTCTATCCCAACCTTTTTTAAAGGTTGCCTTAGAC-A-TGGTGCATCCCAACCTTTTTAAG
*
54387125 GTTACCTTAG
64 GTTGCCTTAG
* **
54387135 ACAAGGTTTATCCCAACC-TTTTT-AAGGTTGCCTTAG--ATGGGTTTATCCCAACCTATTTTAA
1 AC-AGGTCTATCCCAACCTTTTTTAAAGGTTGCCTTAGACAT-GGTGCATCCCAACCT-TTTT-A
54387196 AGGTTG
62 AGGTTG
54387202 GTCTTGATTA
Statistics
Matches: 234, Mismatches: 38, Indels: 27
0.78 0.13 0.09
Matches are distributed among these distances:
68 1 0.00
69 4 0.02
71 9 0.04
72 48 0.21
73 147 0.63
74 22 0.09
75 3 0.01
ACGTcount: A:0.26, C:0.21, G:0.15, T:0.37
Consensus pattern (73 bp):
ACAGGTCTATCCCAACCTTTTTTAAAGGTTGCCTTAGACATGGTGCATCCCAACCTTTTTAAGGT
TGCCTTAG
Found at i:54387048 original size:146 final size:145
Alignment explanation
Indices: 54386876--54387171 Score: 368
Period size: 146 Copynumber: 2.0 Consensus size: 145
54386866 TAAAATTACT
* * * * *
54386876 TTAGACAAGGTCTATCTCAACTTTTTTAAGGTTGCTTTACACAGGTCTATCCTAACCTTTTTTAA
1 TTAGACAAGGTCTATCTCAACCTTTTTAAGGTTGCCTTACACAGCTCTATCCCAACCATTTTTAA
* **
54386941 AGGTTGCCTTAGAC-A-TGGTGCAACCCAACCTTTTTAAGGTTGTCTTAAAC-AGGTCTAT-CCA
66 AAGTTGCCTTAGACAAGTGGTG--ACCCAACCTTTTTAAGGTTACCTTAAACAAGGTCTATCCCA
*
54387002 ACCTTTTCTTATAGGTTGTC
129 ACC-TTT-TTA-AGGTTGCC
* *
54387022 TTAGACAAGGTCTATC-CTAACCTTTTTAAGGTTGCCTTAGACAGCTCTATCCCAATCATTTTTA
1 TTAGACAAGGTCTATCTC-AACCTTTTTAAGGTTGCCTTACACAGCTCTATCCCAACCATTTTTA
* * * *
54387086 AAAGTTTCCTTAGACAAGTGGTGTCCCAACCTTTTTAAGGTTACCTTAGACAAGGTTTATCCCAA
65 AAAGTTGCCTTAGACAAGTGGTGACCCAACCTTTTTAAGGTTACCTTAAACAAGGTCTATCCCAA
54387151 CCTTTTTAAGGTTGCC
130 CCTTTTTAAGGTTGCC
54387167 TTAGA
1 TTAGA
54387172 TGGGTTTATC
Statistics
Matches: 130, Mismatches: 15, Indels: 11
0.83 0.10 0.07
Matches are distributed among these distances:
145 13 0.10
146 95 0.73
147 11 0.08
148 11 0.08
ACGTcount: A:0.26, C:0.22, G:0.16, T:0.37
Consensus pattern (145 bp):
TTAGACAAGGTCTATCTCAACCTTTTTAAGGTTGCCTTACACAGCTCTATCCCAACCATTTTTAA
AAGTTGCCTTAGACAAGTGGTGACCCAACCTTTTTAAGGTTACCTTAAACAAGGTCTATCCCAAC
CTTTTTAAGGTTGCC
Found at i:54387061 original size:36 final size:36
Alignment explanation
Indices: 54386876--54387201 Score: 306
Period size: 36 Copynumber: 8.9 Consensus size: 36
54386866 TAAAATTACT
* * *
54386876 TTAGACAAGGTCTATCTCAACTTTTTTAAGGTTGCT
1 TTAGACAAGGTCTATCCCAACCTTTTTAAGGTTGCC
* *
54386912 TTACAC-AGGTCTATCCTAACCTTTTTTAAAGGTTGCC
1 TTAGACAAGGTCTATCCCAACC-TTTTT-AAGGTTGCC
* * *
54386949 TTAGACATGGTGC-AACCCAACCTTTTTAAGGTTGTC
1 TTAGACAAGGT-CTATCCCAACCTTTTTAAGGTTGCC
* *
54386985 TTAAAC-AGGTCTAT-CCAACCTTTTCTTATAGGTTGTC
1 TTAGACAAGGTCTATCCCAACC-TTT-TTA-AGGTTGCC
*
54387022 TTAGACAAGGTCTATCCTAACCTTTTTAAGGTTGCC
1 TTAGACAAGGTCTATCCCAACCTTTTTAAGGTTGCC
* * * *
54387058 TTAGAC-AGCTCTATCCCAATCATTTTTAAAAGTTTCC
1 TTAGACAAGGTCTATCCCAA-CCTTTTT-AAGGTTGCC
* * *
54387095 TTAGACAA-GTGGTGTCCCAACCTTTTTAAGGTTACC
1 TTAGACAAGGT-CTATCCCAACCTTTTTAAGGTTGCC
*
54387131 TTAGACAAGGTTTATCCCAACCTTTTTAAGGTTGCC
1 TTAGACAAGGTCTATCCCAACCTTTTTAAGGTTGCC
** *
54387167 TTAGA-TGGGTTTATCCCAACCTATTTTAAAGGTTG
1 TTAGACAAGGTCTATCCCAACCT-TTTT-AAGGTTG
54387202 GTCTTGATTA
Statistics
Matches: 241, Mismatches: 32, Indels: 33
0.79 0.10 0.11
Matches are distributed among these distances:
34 7 0.03
35 45 0.19
36 91 0.38
37 63 0.26
38 29 0.12
39 6 0.02
ACGTcount: A:0.25, C:0.21, G:0.16, T:0.37
Consensus pattern (36 bp):
TTAGACAAGGTCTATCCCAACCTTTTTAAGGTTGCC
Found at i:54387225 original size:109 final size:105
Alignment explanation
Indices: 54386883--54387208 Score: 295
Period size: 109 Copynumber: 3.0 Consensus size: 105
54386873 ACTTTAGACA
* * *
54386883 AGGTCTATCTCAACTTTTTTAAGGTTGCTTTACAC-AGGTCTATCCTAACCTTTTTTAAAGGTTG
1 AGGTCTATC-CAACCTTTTTAAGGTTGCCTTAGACAAGGTCTATCCTAACC-TTTTT-AAGGTTG
* *
54386947 CCTTAGACATGGTGC-AACCCAACCT-TTTT-AAGGTTGTCTTAAAC
63 CCTTAG--ATGGT-CTATCCCAACCTATTTTAAAGGTTGTCTT-GAC
*
54386991 AGGTCTATCCAACCTTTTCTTATAGGTTGTCTTAGACAAGGTCTATCCTAACCTTTTTAAGGTTG
1 AGGTCTATCCAACC-TTT-TTA-AGGTTGCCTTAGACAAGGTCTATCCTAACCTTTTTAAGGTTG
* * * *
54387056 CCTTAGACAGCTCTATCCCAATC-ATTTTTAAAAGTT-TCCTTAGAC
63 CCTTAGA-TGGTCTATCCCAACCTA-TTTTAAAGGTTGT-CTT-GAC
* * * * * *
54387101 AAGTGGTGTCCCAACCTTTTTAAGGTTACCTTAGACAAGGTTTATCCCAACCTTTTTAAGGTTGC
1 AGGT-CTAT-CCAACCTTTTTAAGGTTGCCTTAGACAAGGTCTATCCTAACCTTTTTAAGGTTGC
*
54387166 CTTAGATGGGTTTATCCCAACCTATTTTAAAGGTTGGTCTTGA
64 CTTAGAT-GGTCTATCCCAACCTATTTTAAAGGTT-GTCTTGA
54387209 TTAGGTTTTT
Statistics
Matches: 180, Mismatches: 22, Indels: 31
0.77 0.09 0.13
Matches are distributed among these distances:
107 6 0.03
108 21 0.12
109 89 0.49
110 37 0.21
111 21 0.12
112 6 0.03
ACGTcount: A:0.25, C:0.21, G:0.16, T:0.38
Consensus pattern (105 bp):
AGGTCTATCCAACCTTTTTAAGGTTGCCTTAGACAAGGTCTATCCTAACCTTTTTAAGGTTGCCT
TAGATGGTCTATCCCAACCTATTTTAAAGGTTGTCTTGAC
Found at i:54387913 original size:13 final size:13
Alignment explanation
Indices: 54387895--54387926 Score: 64
Period size: 13 Copynumber: 2.5 Consensus size: 13
54387885 ATATATATAC
54387895 GCAGTTGAAAAAG
1 GCAGTTGAAAAAG
54387908 GCAGTTGAAAAAG
1 GCAGTTGAAAAAG
54387921 GCAGTT
1 GCAGTT
54387927 CCATTCAAGA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.41, C:0.09, G:0.31, T:0.19
Consensus pattern (13 bp):
GCAGTTGAAAAAG
Found at i:54388717 original size:21 final size:21
Alignment explanation
Indices: 54388691--54388743 Score: 60
Period size: 18 Copynumber: 2.7 Consensus size: 21
54388681 TCATTTTCAG
54388691 CAACTTTTTCTTCTTTAGCAA
1 CAACTTTTTCTTCTTTAGCAA
*
54388712 CAAC--TTTC-ACTTTAGCAA
1 CAACTTTTTCTTCTTTAGCAA
54388730 CAA-TTTCTTCTTCT
1 CAACTTT-TTCTTCT
54388744 ACAACATCAA
Statistics
Matches: 26, Mismatches: 2, Indels: 8
0.72 0.06 0.22
Matches are distributed among these distances:
18 12 0.46
19 5 0.19
20 3 0.12
21 6 0.23
ACGTcount: A:0.25, C:0.26, G:0.04, T:0.45
Consensus pattern (21 bp):
CAACTTTTTCTTCTTTAGCAA
Found at i:54388749 original size:18 final size:19
Alignment explanation
Indices: 54388697--54388741 Score: 67
Period size: 18 Copynumber: 2.5 Consensus size: 19
54388687 TCAGCAACTT
54388697 TTTCTTCTTTAGCAACAAC
1 TTTCTTCTTTAGCAACAAC
*
54388716 TTTC-ACTTTAGCAACAA-
1 TTTCTTCTTTAGCAACAAC
54388733 TTTCTTCTT
1 TTTCTTCTT
54388742 CTACAACATC
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
17 4 0.17
18 15 0.65
19 4 0.17
ACGTcount: A:0.24, C:0.24, G:0.04, T:0.47
Consensus pattern (19 bp):
TTTCTTCTTTAGCAACAAC
Found at i:54397012 original size:17 final size:19
Alignment explanation
Indices: 54396987--54397023 Score: 51
Period size: 17 Copynumber: 2.1 Consensus size: 19
54396977 AAGCAAAAGA
54396987 ATTTCATA-TTA-TGAGAT
1 ATTTCATATTTAGTGAGAT
*
54397004 ATTTGATATTTAGTGAGAT
1 ATTTCATATTTAGTGAGAT
54397023 A
1 A
54397024 GGGTCAGAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
17 7 0.41
18 3 0.18
19 7 0.41
ACGTcount: A:0.35, C:0.03, G:0.16, T:0.46
Consensus pattern (19 bp):
ATTTCATATTTAGTGAGAT
Found at i:54398804 original size:25 final size:25
Alignment explanation
Indices: 54398758--54398805 Score: 62
Period size: 25 Copynumber: 1.9 Consensus size: 25
54398748 CTTTCTTTGA
*
54398758 TAGTATATCTTGAAACTGCTATAGG
1 TAGTATATCTTGAAACTACTATAGG
*
54398783 TAGTATATAC-TGAGACTACTATA
1 TAGTATAT-CTTGAAACTACTATA
54398806 AATAGACTAT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
25 19 0.95
26 1 0.05
ACGTcount: A:0.35, C:0.12, G:0.17, T:0.35
Consensus pattern (25 bp):
TAGTATATCTTGAAACTACTATAGG
Found at i:54405334 original size:18 final size:18
Alignment explanation
Indices: 54405313--54405348 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
54405303 GTTTTGAAAT
54405313 TGAATAATGATTTGTAAA
1 TGAATAATGATTTGTAAA
*
54405331 TGAATAATGTTTTGTAAA
1 TGAATAATGATTTGTAAA
54405349 CGAACGTCAC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.42, C:0.00, G:0.17, T:0.42
Consensus pattern (18 bp):
TGAATAATGATTTGTAAA
Found at i:54412763 original size:28 final size:28
Alignment explanation
Indices: 54412722--54412818 Score: 151
Period size: 28 Copynumber: 3.5 Consensus size: 28
54412712 CTATGCAGTA
*
54412722 ACAGT-ACAGTGTGGGCCTTAGCCCGAT
1 ACAGTAACAGTGTGGGCCTTAGCCCAAT
*
54412749 ATAGTAACAGTGTGGGCCTTAGCCCAAT
1 ACAGTAACAGTGTGGGCCTTAGCCCAAT
*
54412777 ACAGTAACAGTGTGGGCCTTAGCTCAAT
1 ACAGTAACAGTGTGGGCCTTAGCCCAAT
*
54412805 ACAGTAACCGTGTG
1 ACAGTAACAGTGTG
54412819 ATAATGCAAC
Statistics
Matches: 64, Mismatches: 5, Indels: 1
0.91 0.07 0.01
Matches are distributed among these distances:
27 4 0.06
28 60 0.94
ACGTcount: A:0.27, C:0.23, G:0.27, T:0.24
Consensus pattern (28 bp):
ACAGTAACAGTGTGGGCCTTAGCCCAAT
Found at i:54413215 original size:27 final size:26
Alignment explanation
Indices: 54413157--54413287 Score: 113
Period size: 27 Copynumber: 4.9 Consensus size: 26
54413147 TATAACAATC
* *
54413157 ATTTTACCCTCTGGA-GGTATTTCGAT
1 ATTTTACCCT-TCGAGGGTATTTCGTT
54413183 AGTTTTACCCTTCGAGGGTATTTCAGTT
1 A-TTTTACCCTTCGAGGGTATTTC-GTT
* * *
54413211 ATTTTATCCTTTG-GGAGTATTTCGGTC
1 ATTTTACCCTTCGAGG-GTATTTC-GTT
* *
54413238 ATTTTACCCTTCAAGGTTATTTCGATT
1 ATTTTACCCTTCGAGGGTATTTCG-TT
* *
54413265 ATTTTACCTTTTGAGGGTATTTC
1 ATTTTACCCTTCGAGGGTATTTC
54413288 AGTCATTTAT
Statistics
Matches: 84, Mismatches: 15, Indels: 11
0.76 0.14 0.10
Matches are distributed among these distances:
26 7 0.08
27 72 0.86
28 5 0.06
ACGTcount: A:0.18, C:0.17, G:0.18, T:0.47
Consensus pattern (26 bp):
ATTTTACCCTTCGAGGGTATTTCGTT
Found at i:54413285 original size:54 final size:53
Alignment explanation
Indices: 54413157--54413295 Score: 149
Period size: 54 Copynumber: 2.6 Consensus size: 53
54413147 TATAACAATC
* * * *
54413157 ATTTTACCCTCTGGAGGTATTTCGAT-AGTTTTACCCTTCGAGGGTATTTCAGTT
1 ATTTTATCCTTTGG-GGTATTTCGGTCA-TTTTACCCTTCAAGGGTATTTCAGTT
*
54413211 ATTTTATCCTTTGGGAGTATTTCGGTCATTTTACCCTTCAAGGTTATTTC-GATT
1 ATTTTATCCTTTGGG-GTATTTCGGTCATTTTACCCTTCAAGGGTATTTCAG-TT
*
54413265 ATTTTA-CCTTTTGAGGGTATTTCAGTCATTT
1 ATTTTATCC-TTTG-GGGTATTTCGGTCATTT
54413296 ATTAACCGCT
Statistics
Matches: 74, Mismatches: 6, Indels: 10
0.82 0.07 0.11
Matches are distributed among these distances:
53 4 0.05
54 67 0.91
55 3 0.04
ACGTcount: A:0.19, C:0.17, G:0.18, T:0.47
Consensus pattern (53 bp):
ATTTTATCCTTTGGGGTATTTCGGTCATTTTACCCTTCAAGGGTATTTCAGTT
Found at i:54417211 original size:16 final size:17
Alignment explanation
Indices: 54417169--54417215 Score: 51
Period size: 16 Copynumber: 2.7 Consensus size: 17
54417159 CATGCAAAGT
54417169 ATAACATATATATACGTAC
1 ATAA-ATATATA-ACGTAC
* *
54417188 ATATATATATAAGGTA-
1 ATAAATATATAACGTAC
54417204 ATAAATATATAA
1 ATAAATATATAA
54417216 ATCATAAAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
16 11 0.44
17 4 0.16
18 7 0.28
19 3 0.12
ACGTcount: A:0.53, C:0.06, G:0.06, T:0.34
Consensus pattern (17 bp):
ATAAATATATAACGTAC
Found at i:54418932 original size:44 final size:43
Alignment explanation
Indices: 54418786--54419507 Score: 202
Period size: 44 Copynumber: 16.7 Consensus size: 43
54418776 TTTTAAACCA
* * * * *
54418786 CTCCACTACAACTTCAGGAAGATAGGA-TTATCGACTTTAATCTG
1 CTCCACTACAACTTCAGGGAGATAAGACTT-GCCAC-TTAGTCTG
* *
54418830 CTCCACTGCAACTTCAGGGAGATAAGATTTGCCATCTTCAGTCTG
1 CTCCACTACAACTTCAGGGAGATAAGACTTGCCA-CTT-AGTCTG
54418875 C-CTCACTACAACTTCA-GGAGGATAAGACTTGCCCACTTAGTCTG
1 CTC-CACTACAACTTCAGGGA-GATAAGACTTG-CCACTTAGTCTG
* * * **
54418919 CTCCACTGCAACTTTAGGGAGATAAGACTAG--A-TGCGATCTG
1 CTCCACTACAACTTCAGGGAGATAAGACTTGCCACTTAG-TCTG
* * * *** * *
54418960 CT-CTCTACAACTTCAGAGAGATAAGATCTAAG-GTTTTAATCCG
1 CTCCACTACAACTTCAGGGAGATAAGA-CT-TGCCACTTAGTCTG
*** ** * * * *
54419003 CT-CACTACAACTTCAACAAGATTGGATTATCGGC-TTTAATCTG
1 CTCCACTACAACTTCAGGGAGATAAGACT-T-GCCACTTAGTCTG
** *
54419046 CTCCACTGTAACTTCAGGGAGATAAGATTTGCCATCTTCAGTCTGG
1 CTCCACTACAACTTCAGGGAGATAAGACTTGCCA-CTT-AGTCT-G
* * * ** *
54419092 CT-CACTGCAACTTCA-AGAGGATAAGACTAGATAC-GA-TCTG
1 CTCCACTACAACTTCAGGGA-GATAAGACTTGCCACTTAGTCTG
* * * * *** * **
54419132 CT-CTCTGCAACTTCAGAGAGATAAGATTTAAG-GTTTTAATCCA
1 CTCCACTACAACTTCAGGGAGATAAGACTT--GCCACTTAGTCTG
* * * * * *
54419175 CT-CACTGCAACTTCAGCGAGATAGGA-TTATCGACTTTAATCTG
1 CTCCACTACAACTTCAGGGAGATAAGACTT-GCCAC-TTAGTCTG
* * *
54419218 CTCCACTGCAACTTCAGGGAGATAAGACTTTCCATCTTCAGTCTA
1 CTCCACTACAACTTCAGGGAGATAAGACTTGCCA-CTT-AGTCTG
* ** *
54419263 C-CTCACTACAACTTCA-GGAGGATAAGACTAGATAC-GA-TCTG
1 CTC-CACTACAACTTCAGGGA-GATAAGACTTGCCACTTAGTCTG
** * * * ****** * *
54419304 CT-TTCTGCAACTTCAGAGAAATAAGATCTAAAGTTTTAATCCG
1 CTCCACTACAACTTCAGGGAGATAAGA-CTTGCCACTTAGTCTG
* * * * *
54419347 CT-CACTGCAACTTCAGCGAGATAGGA-TTACCGACTTTAATCTG
1 CTCCACTACAACTTCAGGGAGATAAGACTTGCC-AC-TTAGTCTG
* * *
54419390 CTCTACTGCAACTTCAGGGAGATAAGATTTGCCATCTTCAGTCTG
1 CTCCACTACAACTTCAGGGAGATAAGACTTGCCA-CTT-AGTCTG
* * *
54419435 C-CTCACTGCAACTTTA-GGAGGATAAGACTTGCCTACTTAGTTTG
1 CTC-CACTACAACTTCAGGGA-GATAAGACTTGCC-ACTTAGTCTG
54419479 CTCCACTACAACTTCAGGGAGATAAGACT
1 CTCCACTACAACTTCAGGGAGATAAGACT
54419508 CGATCTGTTT
Statistics
Matches: 517, Mismatches: 111, Indels: 100
0.71 0.15 0.14
Matches are distributed among these distances:
40 61 0.12
41 28 0.05
42 14 0.03
43 101 0.20
44 171 0.33
45 135 0.26
46 7 0.01
ACGTcount: A:0.29, C:0.24, G:0.18, T:0.29
Consensus pattern (43 bp):
CTCCACTACAACTTCAGGGAGATAAGACTTGCCACTTAGTCTG
Found at i:54419015 original size:43 final size:43
Alignment explanation
Indices: 54418955--54419417 Score: 216
Period size: 43 Copynumber: 10.7 Consensus size: 43
54418945 ACTAGATGCG
* *
54418955 ATCTGCTCTCTACAACTTCAGAGAGATAAGATCTAAGGTTTTA
1 ATCTGCTCACTGCAACTTCAGAGAGATAAGATCTAAGGTTTTA
* * * ** * *
54418998 ATCCGCTCACTACAACTTCA-ACAAGATTGGAT-TATCGGCTTTA
1 ATCTGCTCACTGCAACTTCAGA-GAGATAAGATCTA-AGGTTTTA
* * * **** *
54419041 ATCTGCTCCACTGTAACTTCAGGGAGATAAGATTTGCCATCTTCA
1 ATCTGCT-CACTGCAACTTCAGAGAGATAAGATCTAAGGT-TTTA
* * ***
54419086 GTCTGGCTCACTGCAACTTCA-AGAGGATAAGA-CT-A-GATACG
1 ATCT-GCTCACTGCAACTTCAGAGA-GATAAGATCTAAGGTTTTA
* *
54419127 ATCTGCTCTCTGCAACTTCAGAGAGATAAGATTTAAGGTTTTA
1 ATCTGCTCACTGCAACTTCAGAGAGATAAGATCTAAGGTTTTA
** * * * **
54419170 ATCCACTCACTGCAACTTCAGCGAGATAGGAT-TATCGACTTTA
1 ATCTGCTCACTGCAACTTCAGAGAGATAAGATCTA-AGGTTTTA
* * * *
54419213 ATCTGCTCCACTGCAACTTCAGGGAGATAAGACTTTCCA--TCTTCA
1 ATCTGCT-CACTGCAACTTCAGAGAGATAAGA-TCT-AAGGT-TTTA
* * * * ***
54419258 GTCTACCTCACTACAACTTCAG-GAGGATAAGA-CT-A-GATACG
1 ATCT-GCTCACTGCAACTTCAGAGA-GATAAGATCTAAGGTTTTA
** * *
54419299 ATCTGCTTTCTGCAACTTCAGAGAAATAAGATCTAAAGTTTTA
1 ATCTGCTCACTGCAACTTCAGAGAGATAAGATCTAAGGTTTTA
* * * * **
54419342 ATCCGCTCACTGCAACTTCAGCGAGATAGGAT-TACCGACTTTA
1 ATCTGCTCACTGCAACTTCAGAGAGATAAGATCTA-AGGTTTTA
*
54419385 ATCTGCTCTACTGCAACTTCAGGGAGATAAGAT
1 ATCTGCTC-ACTGCAACTTCAGAGAGATAAGAT
54419418 TTGCCATCTT
Statistics
Matches: 312, Mismatches: 81, Indels: 53
0.70 0.18 0.12
Matches are distributed among these distances:
40 41 0.13
41 19 0.06
42 9 0.03
43 116 0.37
44 68 0.22
45 53 0.17
46 6 0.02
ACGTcount: A:0.30, C:0.23, G:0.18, T:0.29
Consensus pattern (43 bp):
ATCTGCTCACTGCAACTTCAGAGAGATAAGATCTAAGGTTTTA
Found at i:54419083 original size:216 final size:217
Alignment explanation
Indices: 54418708--54419119 Score: 664
Period size: 216 Copynumber: 1.9 Consensus size: 217
54418698 CTACTCCTGG
* *
54418708 TGCAACTTCAGGGAGATTAGACTAAATACGATCTGCTCTCTACAACTTCGGAGAGATAAGATCCA
1 TGCAACTTCAGGGAGATAAGACTAAATACGATCTGCTCTCTACAACTTCAGAGAGATAAGATCCA
* **
54418773 ATGTTTTAAACCACTCCACTACAACTTCAGGAAGATAGGATTATCGACTTTAATCTGCTCCACTG
66 AGGTTTTAAACCACTCCACTACAACTTCAACAAGATAGGATTATCGACTTTAATCTGCTCCACTG
*
54418838 CAACTTCAGGGAGATAAGATTTGCCATCTTCAGTCTGCCTCACTACAACTTCAGGAGGATAAGAC
131 CAACTTCAGGGAGATAAGATTTGCCATCTTCAGTCTGCCTCACTACAACTTCAAGAGGATAAGAC
54418903 TTGCCCACTTAGTCTGCTCCAC
196 TTGCCCACTTAGTCTGCTCCAC
* * * *
54418925 TGCAACTTTAGGGAGATAAGACTAGATGCGATCTGCTCTCTACAACTTCAGAGAGATAAGATCTA
1 TGCAACTTCAGGGAGATAAGACTAAATACGATCTGCTCTCTACAACTTCAGAGAGATAAGATCCA
* * * *
54418990 AGGTTTTAATCCGCT-CACTACAACTTCAACAAGATTGGATTATCGGCTTTAATCTGCTCCACTG
66 AGGTTTTAAACCACTCCACTACAACTTCAACAAGATAGGATTATCGACTTTAATCTGCTCCACTG
* * *
54419054 TAACTTCAGGGAGATAAGATTTGCCATCTTCAGTCTGGCTCACTGCAACTTCAAGAGGATAAGAC
131 CAACTTCAGGGAGATAAGATTTGCCATCTTCAGTCTGCCTCACTACAACTTCAAGAGGATAAGAC
54419119 T
196 T
54419120 AGATACGATC
Statistics
Matches: 178, Mismatches: 17, Indels: 1
0.91 0.09 0.01
Matches are distributed among these distances:
216 107 0.60
217 71 0.40
ACGTcount: A:0.30, C:0.24, G:0.18, T:0.28
Consensus pattern (217 bp):
TGCAACTTCAGGGAGATAAGACTAAATACGATCTGCTCTCTACAACTTCAGAGAGATAAGATCCA
AGGTTTTAAACCACTCCACTACAACTTCAACAAGATAGGATTATCGACTTTAATCTGCTCCACTG
CAACTTCAGGGAGATAAGATTTGCCATCTTCAGTCTGCCTCACTACAACTTCAAGAGGATAAGAC
TTGCCCACTTAGTCTGCTCCAC
Found at i:54419104 original size:172 final size:172
Alignment explanation
Indices: 54418821--54419463 Score: 888
Period size: 172 Copynumber: 3.7 Consensus size: 172
54418811 GATTATCGAC
* * * * * * *
54418821 TTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGATT-TGCCATCTTCAGTCTGC-CTCACTAC
1 TTTAATCCGCT-CACTGCAACTTCAGCGAGATAGGATTAT-CGA-CTTTAATCTGCTC-CACTGC
* *
54418884 AACTTCA-GGAGGATAAGACTTGCCCA-CTT-AGTCTG-CTCCACTGCAACTTTAGG-GAGATAA
62 AACTTCAGGGA-GATAAGATTTG-CCATCTTCAGTCTGCCT-CACTGCAACTTCAGGAG-GATAA
* *
54418944 GACTAGATGCGATCTGCTCTCTACAACTTCAGAGAGATAAGATCTAAGGT
123 GACTAGATACGATCTGCTCTCTGCAACTTCAGAGAGATAAGATCTAAGGT
* * * * * *
54418994 TTTAATCCGCTCACTACAACTTCAACAAGATTGGATTATCGGCTTTAATCTGCTCCACTGTAACT
1 TTTAATCCGCTCACTGCAACTTCAGCGAGATAGGATTATCGACTTTAATCTGCTCCACTGCAACT
* *
54419059 TCAGGGAGATAAGATTTGCCATCTTCAGTCTGGCTCACTGCAACTTCAAGAGGATAAGACTAGAT
66 TCAGGGAGATAAGATTTGCCATCTTCAGTCTGCCTCACTGCAACTTCAGGAGGATAAGACTAGAT
*
54419124 ACGATCTGCTCTCTGCAACTTCAGAGAGATAAGATTTAAGGT
131 ACGATCTGCTCTCTGCAACTTCAGAGAGATAAGATCTAAGGT
*
54419166 TTTAATCCACTCACTGCAACTTCAGCGAGATAGGATTATCGACTTTAATCTGCTCCACTGCAACT
1 TTTAATCCGCTCACTGCAACTTCAGCGAGATAGGATTATCGACTTTAATCTGCTCCACTGCAACT
* *
54419231 TCAGGGAGATAAGACTTT-CCATCTTCAGTCTACCTCACTACAACTTCAGGAGGATAAGACTAGA
66 TCAGGGAGATAAGA-TTTGCCATCTTCAGTCTGCCTCACTGCAACTTCAGGAGGATAAGACTAGA
* * *
54419295 TACGATCTGCTTTCTGCAACTTCAGAGAAATAAGATCTAAAGT
130 TACGATCTGCTCTCTGCAACTTCAGAGAGATAAGATCTAAGGT
* *
54419338 TTTAATCCGCTCACTGCAACTTCAGCGAGATAGGATTACCGACTTTAATCTGCTCTACTGCAACT
1 TTTAATCCGCTCACTGCAACTTCAGCGAGATAGGATTATCGACTTTAATCTGCTCCACTGCAACT
*
54419403 TCAGGGAGATAAGATTTGCCATCTTCAGTCTGCCTCACTGCAACTTTAGGAGGATAAGACT
66 TCAGGGAGATAAGATTTGCCATCTTCAGTCTGCCTCACTGCAACTTCAGGAGGATAAGACT
54419464 TGCCTACTTA
Statistics
Matches: 421, Mismatches: 40, Indels: 19
0.88 0.08 0.04
Matches are distributed among these distances:
170 3 0.01
171 36 0.09
172 365 0.87
173 17 0.04
ACGTcount: A:0.29, C:0.24, G:0.18, T:0.29
Consensus pattern (172 bp):
TTTAATCCGCTCACTGCAACTTCAGCGAGATAGGATTATCGACTTTAATCTGCTCCACTGCAACT
TCAGGGAGATAAGATTTGCCATCTTCAGTCTGCCTCACTGCAACTTCAGGAGGATAAGACTAGAT
ACGATCTGCTCTCTGCAACTTCAGAGAGATAAGATCTAAGGT
Found at i:54419232 original size:216 final size:217
Alignment explanation
Indices: 54418708--54419233 Score: 562
Period size: 216 Copynumber: 2.4 Consensus size: 217
54418698 CTACTCCTGG
* * * * * ** * * *
54418708 TGCAACTTCAGGGAGATTAGACTAAATACGATCTGCTCTCTACAACTTCGGAGAGATAAGATCCA
1 TGCAACTTCAGAGAGATAAGACTAGATGCAATCCACTCACTACAACTTCAGAGAGATAAGATCTA
* * * **
54418773 ATG-TTTTAAACCACTCCACTACAACTTCAGGAAGATAGGATTATCGACTTTAATCTGCTCCACT
66 A-GACTTTAATCCGCTCCACTACAACTTCAACAAGATAGGATTATCGACTTTAATCTGCTCCACT
*
54418837 GCAACTTCAGGGAGATAAGATTTGCCATCTTCAGTCTGCCTCACTACAACTTCAGGAGGATAAGA
130 GCAACTTCAGGGAGATAAGATTTGCCATCTTCAGTCTGCCTCACTACAACTTCAAGAGGATAAGA
* * *
54418902 CTTGCCCACTTAGTCTGCTCCAC
195 CTAGCACACTGAGTCTGCTCCAC
* * * ** *
54418925 TGCAACTTTAGGGAGATAAGACTAGATGCGATCTGCTCTCTACAACTTCAGAGAGATAAGATCTA
1 TGCAACTTCAGAGAGATAAGACTAGATGCAATCCACTCACTACAACTTCAGAGAGATAAGATCTA
** * *
54418990 AGGTTTTAATCCGCT-CACTACAACTTCAACAAGATTGGATTATCGGCTTTAATCTGCTCCACTG
66 AGACTTTAATCCGCTCCACTACAACTTCAACAAGATAGGATTATCGACTTTAATCTGCTCCACTG
* * *
54419054 TAACTTCAGGGAGATAAGATTTGCCATCTTCAGTCTGGCTCACTGCAACTTCAAGAGGATAAGAC
131 CAACTTCAGGGAGATAAGATTTGCCATCTTCAGTCTGCCTCACTACAACTTCAAGAGGATAAGAC
* *
54419119 TAG-ATAC-GA-TCTGCT-CTC
196 TAGCACACTGAGTCTGCTCCAC
* * ** * * *
54419137 TGCAACTTCAGAGAGATAAGATTTAAGGTTTTAATCCACTCACTGCAACTTCAGCGAGATAGGAT
1 TGCAACTTCAGAGAGATAAGA-CT-A-GATGCAATCCACTCACTACAACTTCAGAGAGATAAGAT
* * *
54419202 -TATCGACTTTAATCTGCTCCACTGCAACTTCA
63 CTA-AGACTTTAATCCGCTCCACTACAACTTCA
54419234 GGGAGATAAG
Statistics
Matches: 264, Mismatches: 39, Indels: 13
0.84 0.12 0.04
Matches are distributed among these distances:
212 21 0.08
213 7 0.03
214 4 0.02
215 41 0.16
216 121 0.46
217 70 0.27
ACGTcount: A:0.30, C:0.24, G:0.18, T:0.28
Consensus pattern (217 bp):
TGCAACTTCAGAGAGATAAGACTAGATGCAATCCACTCACTACAACTTCAGAGAGATAAGATCTA
AGACTTTAATCCGCTCCACTACAACTTCAACAAGATAGGATTATCGACTTTAATCTGCTCCACTG
CAACTTCAGGGAGATAAGATTTGCCATCTTCAGTCTGCCTCACTACAACTTCAAGAGGATAAGAC
TAGCACACTGAGTCTGCTCCAC
Found at i:54419498 original size:89 final size:86
Alignment explanation
Indices: 54419041--54419505 Score: 355
Period size: 89 Copynumber: 5.4 Consensus size: 86
54419031 ATCGGCTTTA
* *
54419041 ATCTGCTCCACTGTAACTTCAGGGAGATAAGATTTGCCATCTTCAGTCTGGCTCACTGCAACTTC
1 ATCTGCTCCACTGCAACTTCAGGGAGATAAGATTT-CCATCTTCAGTCTGCCTCACTGCAACTTC
* * * *
54419106 AAGAGGATAAGACTAGATAC-G
65 AGGAGGATAAGACTTGCTACTT
* * * * *
54419127 ATCTGCT-CTCTGCAACTTCAGAGAGATAAGATTT-AAGGT-TTTAATC--CACTCACTGCAACT
1 ATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTCCA--TCTTCAGTCTGC-CTCACTGCAACT
* * *
54419187 TCAGCGA-GATAGGA-TTATCGACTTT
63 TCAG-GAGGATAAGACTT-GCTAC-TT
* *
54419212 AATCTGCTCCACTGCAACTTCAGGGAGATAAGACTTTCCATCTTCAGTCTACCTCACTACAACTT
1 -ATCTGCTCCACTGCAACTTCAGGGAGATAAGA-TTTCCATCTTCAGTCTGCCTCACTGCAACTT
* * *
54419277 CAGGAGGATAAGACTAGATAC-G
64 CAGGAGGATAAGACTTGCTACTT
** * * * ** * * *
54419299 ATCTGCT-TTCTGCAACTTCAGAGAAATAAGATCTAAAGT-TTTAATCCG-CTCACTGCAACTTC
1 ATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTCCA-TCTTCAGTCTGCCTCACTGCAACTTC
* * *
54419361 AGCGA-GATAGGA-TTACCGACTTT
65 AG-GAGGATAAGACTT-GCTAC-TT
*
54419384 AATCTGCTCTACTGCAACTTCAGGGAGATAAGATTTGCCATCTTCAGTCTGCCTCACTGCAACTT
1 -ATCTGCTCCACTGCAACTTCAGGGAGATAAGATTT-CCATCTTCAGTCTGCCTCACTGCAACTT
*
54419449 TAGGAGGATAAGACTTGCCTACTT
64 CAGGAGGATAAGACTTG-CTACTT
* *
54419473 AGTTTGCTCCACTACAACTTCAGGGAGATAAGA
1 A-TCTGCTCCACTGCAACTTCAGGGAGATAAGA
54419506 CTCGATCTGT
Statistics
Matches: 289, Mismatches: 60, Indels: 57
0.71 0.15 0.14
Matches are distributed among these distances:
82 2 0.01
83 47 0.16
84 17 0.06
85 46 0.16
86 28 0.10
87 47 0.16
88 20 0.07
89 75 0.26
90 7 0.02
ACGTcount: A:0.29, C:0.23, G:0.18, T:0.29
Consensus pattern (86 bp):
ATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTCCATCTTCAGTCTGCCTCACTGCAACTTCA
GGAGGATAAGACTTGCTACTT
Found at i:54427742 original size:19 final size:20
Alignment explanation
Indices: 54427705--54427742 Score: 51
Period size: 19 Copynumber: 1.9 Consensus size: 20
54427695 TATAATAAAA
*
54427705 CTTTACTATAAATTAAATTC
1 CTTTACTATAAAGTAAATTC
*
54427725 CTTTA-TATAAAGTGAATT
1 CTTTACTATAAAGTAAATT
54427743 ACAAATAAGA
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
19 11 0.69
20 5 0.31
ACGTcount: A:0.39, C:0.11, G:0.05, T:0.45
Consensus pattern (20 bp):
CTTTACTATAAAGTAAATTC
Found at i:54431258 original size:23 final size:23
Alignment explanation
Indices: 54431210--54431274 Score: 62
Period size: 23 Copynumber: 2.9 Consensus size: 23
54431200 ATATCGCAAT
* *
54431210 AACAAAT-AACAATAATAAATAC
1 AACAAATAAATAAAAATAAATAC
* **
54431232 AACAATTGTATAAAAATAAGATA-
1 AACAAATAAATAAAAATAA-ATAC
54431255 AACAAATAAATAAAAATAAA
1 AACAAATAAATAAAAATAAA
54431275 AATAAAAAAA
Statistics
Matches: 34, Mismatches: 7, Indels: 4
0.76 0.16 0.09
Matches are distributed among these distances:
22 7 0.21
23 24 0.71
24 3 0.09
ACGTcount: A:0.69, C:0.08, G:0.03, T:0.20
Consensus pattern (23 bp):
AACAAATAAATAAAAATAAATAC
Found at i:54431355 original size:16 final size:16
Alignment explanation
Indices: 54431317--54431382 Score: 55
Period size: 16 Copynumber: 4.2 Consensus size: 16
54431307 ATAAATGAGG
* **
54431317 AAAATAAAAAAATGAA
1 AAAATAAATAAACAAA
* *
54431333 AACATAAATCAACAAA
1 AAAATAAATAAACAAA
*
54431349 CAAATAAATAAACAAA
1 AAAATAAATAAACAAA
*
54431365 AAAAT--ATAAAGAAA
1 AAAATAAATAAACAAA
54431379 AAAA
1 AAAA
54431383 AAGGTGCATA
Statistics
Matches: 40, Mismatches: 10, Indels: 2
0.77 0.19 0.04
Matches are distributed among these distances:
14 12 0.30
16 28 0.70
ACGTcount: A:0.77, C:0.08, G:0.03, T:0.12
Consensus pattern (16 bp):
AAAATAAATAAACAAA
Found at i:54431561 original size:16 final size:17
Alignment explanation
Indices: 54431519--54431565 Score: 51
Period size: 16 Copynumber: 2.7 Consensus size: 17
54431509 GATAGAAAGT
54431519 ATAACATATATATACGTAC
1 ATAA-ATATATA-ACGTAC
* *
54431538 ATATATATATAAGGTA-
1 ATAAATATATAACGTAC
54431554 ATAAATATATAA
1 ATAAATATATAA
54431566 ATCATAAAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
16 11 0.44
17 4 0.16
18 7 0.28
19 3 0.12
ACGTcount: A:0.53, C:0.06, G:0.06, T:0.34
Consensus pattern (17 bp):
ATAAATATATAACGTAC
Found at i:54438870 original size:18 final size:18
Alignment explanation
Indices: 54438847--54438883 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
54438837 TCGGGGTTCT
54438847 CAATAGA-GGAAAGCAAGA
1 CAATAGATGGAAAG-AAGA
54438865 CAATAGATGGAAAGAAGA
1 CAATAGATGGAAAGAAGA
54438883 C
1 C
54438884 CATTGGATGA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 12 0.67
19 6 0.33
ACGTcount: A:0.54, C:0.11, G:0.27, T:0.08
Consensus pattern (18 bp):
CAATAGATGGAAAGAAGA
Found at i:54442881 original size:76 final size:75
Alignment explanation
Indices: 54442747--54443165 Score: 401
Period size: 76 Copynumber: 5.5 Consensus size: 75
54442737 AAGTTTTACA
* * * * *
54442747 CCCAGCGCTAGTTGGATAAACCGACGATATTAAATGTGTGCCCATCACTAGACAGATTAATCGAC
1 CCCAACGCTAGTTGGATAAACCGACGATATTAAATGTGTGCCCA-AACTAGTCGGATTAACCGAC
54442812 AAAGATTTGTG
65 AAAGATTTGTG
* * *
54442823 CCCAACGCTAGTTGGATAAACTGATGATATTAAGTGTGTGCCCAGAACTAGTCGGATTAA-CGAC
1 CCCAACGCTAGTTGGATAAACCGACGATATTAAATGTGTGCCCA-AACTAGTCGGATTAACCGAC
**
54442887 AAAGATTTACG
65 AAAGATTTGTG
* * * * *
54442898 -CCAAGTGCTAGTTGGATAAACCGACAATATTAAATGTTTGCCCAGCACTAGTCCGATTAACCGA
1 CCCAA-CGCTAGTTGGATAAACCGACGATATTAAATGTGTGCCCA-AACTAGTCGGATTAACCGA
54442962 CAAAGATTTGTG
64 CAAAGATTTGTG
** * * * * * *
54442974 CCCAGTGCTAGTCGGATAAACCGACGATACTAAATATGTGTCCAACACTCGTCGGATTAACCGAA
1 CCCAACGCTAGTTGGATAAACCGACGATATTAAATGTGTGCCCAA-ACTAGTCGGATTAACCGAC
* **
54443039 AAATATTTGCA
65 AAAGATTTGTG
* ** * ** * *
54443050 CCCAGCATTGGTCAGATAAACCAACGATATTAAATGTGTTCCCAACACTAGTCGGATTAACCGAC
1 CCCAACGCTAGTTGGATAAACCGACGATATTAAATGTGTGCCCAA-ACTAGTCGGATTAACCGAC
*
54443115 AAAGATTTATG
65 AAAGATTTGTG
*** * * *
54443126 CCCAACGCTAGTCAAATAAACTGACAATATTAAATATGTG
1 CCCAACGCTAGTTGGATAAACCGACGATATTAAATGTGTG
54443166 TTATGTCCTA
Statistics
Matches: 279, Mismatches: 60, Indels: 8
0.80 0.17 0.02
Matches are distributed among these distances:
74 4 0.01
75 60 0.22
76 212 0.76
77 3 0.01
ACGTcount: A:0.35, C:0.21, G:0.19, T:0.25
Consensus pattern (75 bp):
CCCAACGCTAGTTGGATAAACCGACGATATTAAATGTGTGCCCAAACTAGTCGGATTAACCGACA
AAGATTTGTG
Found at i:54442985 original size:36 final size:36
Alignment explanation
Indices: 54442859--54442998 Score: 113
Period size: 36 Copynumber: 3.8 Consensus size: 36
54442849 ATATTAAGTG
* *
54442859 TGTGCCCAGAACTAGTCGGATTAA-CGACAAAGATT
1 TGTGCCCAGTACTAGTCGGATAAACCGACAAAGATT
** * * * *
54442894 TACGCCAAGTGCTAGTTGGATAAACCGAC-AATATT
1 TGTGCCCAGTACTAGTCGGATAAACCGACAAAGATT
* * *
54442929 AAATGTTTGCCCAGCACTAGTCCGATTAACCGACAAAGATT
1 ---TG--TGCCCAGTACTAGTCGGATAAACCGACAAAGATT
*
54442970 TGTGCCCAGTGCTAGTCGGATAAACCGAC
1 TGTGCCCAGTACTAGTCGGATAAACCGAC
54442999 GATACTAAAT
Statistics
Matches: 77, Mismatches: 21, Indels: 13
0.69 0.19 0.12
Matches are distributed among these distances:
35 22 0.29
36 27 0.35
38 3 0.04
40 20 0.26
41 5 0.06
ACGTcount: A:0.32, C:0.23, G:0.21, T:0.24
Consensus pattern (36 bp):
TGTGCCCAGTACTAGTCGGATAAACCGACAAAGATT
Found at i:54443028 original size:151 final size:152
Alignment explanation
Indices: 54442741--54443166 Score: 498
Period size: 151 Copynumber: 2.8 Consensus size: 152
54442731 GTAACCAAGT
* * * *
54442741 TTTACACCCAGCGCTAGTTGGATAAACCGACGATATTAAATGTGTGCCCATCACTAGACAGATTA
1 TTTACACCAAGCGCTAGTTGGATAAACCGACGATATTAAATGTTTGCCCAACACTAGTCAGATTA
* * * * * *
54442806 ATCGACAAAGATTTGTGCCCAACGCTAGTTGGATAAACTGATGATATTAAGTGTGTGCCCAGAAC
66 ACCGACAAAGATTTGTGCCCAACGCTAGTCGGATAAACTGACGATATTAAATATGTGTCCAGAAC
*
54442871 TAGTCGGATTAA-CGACAAAGA
131 TAGTCGGATTAACCGAAAAAGA
* * * * *
54442892 TTTACGCCAAGTGCTAGTTGGATAAACCGACAATATTAAATGTTTGCCCAGCACTAGTCCGATTA
1 TTTACACCAAGCGCTAGTTGGATAAACCGACGATATTAAATGTTTGCCCAACACTAGTCAGATTA
** * *
54442957 ACCGACAAAGATTTGTGCCCAGTGCTAGTCGGATAAACCGACGATACTAAATATGTGTCCA-ACA
66 ACCGACAAAGATTTGTGCCCAACGCTAGTCGGATAAACTGACGATATTAAATATGTGTCCAGA-A
* *
54443021 CTCGTCGGATTAACCGAAAAATA
130 CTAGTCGGATTAACCGAAAAAGA
* * ** * ** * *
54443044 TTTGCACCCAGCATTGGTCAGATAAACCAACGATATTAAATGTGTT-CCCAACACTAGTCGGATT
1 TTTACACCAAGCGCTAGTTGGATAAACCGACGATATTAAATGT-TTGCCCAACACTAGTCAGATT
* ** *
54443108 AACCGACAAAGATTTATGCCCAACGCTAGTCAAATAAACTGACAATATTAAATATGTGT
65 AACCGACAAAGATTTGTGCCCAACGCTAGTCGGATAAACTGACGATATTAAATATGTGT
54443167 TATGTCCTAC
Statistics
Matches: 230, Mismatches: 42, Indels: 5
0.83 0.15 0.02
Matches are distributed among these distances:
150 1 0.00
151 121 0.53
152 106 0.46
153 2 0.01
ACGTcount: A:0.35, C:0.21, G:0.19, T:0.26
Consensus pattern (152 bp):
TTTACACCAAGCGCTAGTTGGATAAACCGACGATATTAAATGTTTGCCCAACACTAGTCAGATTA
ACCGACAAAGATTTGTGCCCAACGCTAGTCGGATAAACTGACGATATTAAATATGTGTCCAGAAC
TAGTCGGATTAACCGAAAAAGA
Found at i:54446435 original size:28 final size:28
Alignment explanation
Indices: 54446403--54446464 Score: 106
Period size: 28 Copynumber: 2.2 Consensus size: 28
54446393 ATAAGAAGGA
* *
54446403 GACGATGGCTTCTGGTGGGGGAGGTGAT
1 GACGATGGCTTCTGGTGAGGGAAGTGAT
54446431 GACGATGGCTTCTGGTGAGGGAAGTGAT
1 GACGATGGCTTCTGGTGAGGGAAGTGAT
54446459 GACGAT
1 GACGAT
54446465 CTTGAGTTTT
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
28 32 1.00
ACGTcount: A:0.19, C:0.11, G:0.45, T:0.24
Consensus pattern (28 bp):
GACGATGGCTTCTGGTGAGGGAAGTGAT
Found at i:54457529 original size:19 final size:18
Alignment explanation
Indices: 54457505--54457547 Score: 52
Period size: 17 Copynumber: 2.4 Consensus size: 18
54457495 TGGGCCTCAT
54457505 TGGGCCAAAATGGGCTGTG
1 TGGGCCAAAATGGGCT-TG
* *
54457524 TGGGCC-CAGTGGGCTTG
1 TGGGCCAAAATGGGCTTG
54457541 TGGGCCA
1 TGGGCCA
54457548 CACAGATAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
17 8 0.38
18 7 0.33
19 6 0.29
ACGTcount: A:0.14, C:0.21, G:0.44, T:0.21
Consensus pattern (18 bp):
TGGGCCAAAATGGGCTTG
Found at i:54457928 original size:27 final size:27
Alignment explanation
Indices: 54457897--54458229 Score: 216
Period size: 27 Copynumber: 12.4 Consensus size: 27
54457887 CCCAATATTT
54457897 GTAAAATGACCATAATACCCCTATAGG
1 GTAAAATGACCATAATACCCCTATAGG
* * *
54457924 GT-AAATGACCAAAAAACTCGC-ATAGG
1 GTAAAATGACCATAATAC-CCCTATAGG
* * * * *
54457950 GTAAAATGACCGTAATGCCCATGTAAG
1 GTAAAATGACCATAATACCCCTATAGG
*
54457977 GTAAAAATGA-CAGTAATGCCCCTATAGG
1 GT-AAAATGACCA-TAATACCCCTATAGG
* * *
54458005 GTAAAATGACCA-AAAAGCCCCCATAAG
1 GTAAAATGACCATAATA-CCCCTATAGG
* *
54458032 GTAAAATGACCGTAATA-CCCTCGTAGG
1 GTAAAATGACCATAATACCCCT-ATAGG
* * * *
54458059 GTAAAATGACCGTAATGCCCCTGTAAG
1 GTAAAATGACCATAATACCCCTATAGG
* * *
54458086 GTAAAATAACCGTAATACCCCTGTAGG
1 GTAAAATGACCATAATACCCCTATAGG
*
54458113 GTAAAATGACCGA-AA-AACCCTCATAGG
1 GTAAAATGACC-ATAATACCCCT-ATAGG
* * * * *
54458140 GTAAAATGATCGTAATGCCCTTGTAGG
1 GTAAAATGACCATAATACCCCTATAGG
** * * **
54458167 GTAAAATGATTA-AAGTACCACTGTAAA
1 GTAAAATGACCATAA-TACCCCTATAGG
* *
54458194 GTAAAATGACCATAATGCCCCTAGAGG
1 GTAAAATGACCATAATACCCCTATAGG
54458221 GT-AAATGAC
1 GTAAAATGAC
54458230 TATTTTGCCC
Statistics
Matches: 236, Mismatches: 54, Indels: 33
0.73 0.17 0.10
Matches are distributed among these distances:
26 40 0.17
27 161 0.68
28 35 0.15
ACGTcount: A:0.40, C:0.20, G:0.20, T:0.21
Consensus pattern (27 bp):
GTAAAATGACCATAATACCCCTATAGG
Found at i:54458062 original size:54 final size:54
Alignment explanation
Indices: 54457946--54458175 Score: 239
Period size: 54 Copynumber: 4.2 Consensus size: 54
54457936 AAAACTCGCA
** * *** * * *
54457946 TAGGGTAAAATGACCGTAATGCCCATGTAAGGTAAAAATGACAGTAATGCCCCTA
1 TAGGGTAAAATGACCAAAAAGCCCCCATAAGGT-AAAATGACCGTAATACCCCTG
54458001 TAGGGTAAAATGACCAAAAAGCCCCCATAAGGTAAAATGACCGTAATA-CCCTCG
1 TAGGGTAAAATGACCAAAAAGCCCCCATAAGGTAAAATGACCGTAATACCCCT-G
** * ** *
54458055 TAGGGTAAAATGACCGTAATGCCCCTGTAAGGTAAAATAACCGTAATACCCCTG
1 TAGGGTAAAATGACCAAAAAGCCCCCATAAGGTAAAATGACCGTAATACCCCTG
* * * * *
54458109 TAGGGTAAAATGACCGAAAAA-CCCTCATAGGGTAAAATGATCGTAATGCCCTTG
1 TAGGGTAAAATGACC-AAAAAGCCCCCATAAGGTAAAATGACCGTAATACCCCTG
54458163 TAGGGTAAAATGA
1 TAGGGTAAAATGA
54458176 TTAAAGTACC
Statistics
Matches: 146, Mismatches: 26, Indels: 7
0.82 0.15 0.04
Matches are distributed among these distances:
53 4 0.03
54 109 0.75
55 33 0.23
ACGTcount: A:0.38, C:0.20, G:0.21, T:0.21
Consensus pattern (54 bp):
TAGGGTAAAATGACCAAAAAGCCCCCATAAGGTAAAATGACCGTAATACCCCTG
Found at i:54458065 original size:81 final size:81
Alignment explanation
Indices: 54457897--54458175 Score: 300
Period size: 81 Copynumber: 3.5 Consensus size: 81
54457887 CCCAATATTT
* * *
54457897 GTAAAATGACCA-TAATACCCCTATAGGGT-AAATGACCAAAAAACTCGCATAGGGTAAAATGAC
1 GTAAAATGACCAGTAATGCCCCTATAGGGTAAAATGACC-AAAAACCCCCATAGGGTAAAATGAC
* *
54457960 CGTAATGCCCAT-GTAAG
65 CGTAATACCC-TCGTAGG
*
54457977 GTAAAAATGA-CAGTAATGCCCCTATAGGGTAAAATGACCAAAAAGCCCCCATAAGGTAAAATGA
1 GT-AAAATGACCAGTAATGCCCCTATAGGGTAAAATGACCAAAAA-CCCCCATAGGGTAAAATGA
54458041 CCGTAATACCCTCGTAGG
64 CCGTAATACCCTCGTAGG
* * * * * **
54458059 GTAAAATGACC-GTAATGCCCCTGTAAGGTAAAATAACCGTAATACCCCTGTAGGGTAAAATGAC
1 GTAAAATGACCAGTAATGCCCCTATAGGGTAAAATGACC-AAAAACCCCCATAGGGTAAAATGAC
* * *
54458123 CGAAAAACCCTCATAGG
65 CGTAATACCCTCGTAGG
* * *
54458140 GTAAAATGATC-GTAATGCCCTTGTAGGGTAAAATGA
1 GTAAAATGACCAGTAATGCCCCTATAGGGTAAAATGA
54458176 TTAAAGTACC
Statistics
Matches: 171, Mismatches: 21, Indels: 13
0.83 0.10 0.06
Matches are distributed among these distances:
80 4 0.02
81 123 0.72
82 44 0.26
ACGTcount: A:0.39, C:0.20, G:0.20, T:0.20
Consensus pattern (81 bp):
GTAAAATGACCAGTAATGCCCCTATAGGGTAAAATGACCAAAAACCCCCATAGGGTAAAATGACC
GTAATACCCTCGTAGG
Found at i:54458285 original size:24 final size:23
Alignment explanation
Indices: 54458258--54458343 Score: 84
Period size: 24 Copynumber: 3.6 Consensus size: 23
54458248 TAAATAATTT
*
54458258 ATTTTTCCGTGATGTAAATGACTG
1 ATTTTTCTGTGAT-TAAATGACTG
54458282 ATTTCTT-TGTGATTTAAATGACTG
1 ATTT-TTCTGTGA-TTAAATGACTG
* *
54458306 ATTTGTCTGTGATTAGTATGACTG
1 ATTTTTCTGTGATTA-AATGACTG
* *
54458330 ATTTGTCTATGATT
1 ATTTTTCTGTGATT
54458344 TGTATGACTG
Statistics
Matches: 54, Mismatches: 4, Indels: 8
0.82 0.06 0.12
Matches are distributed among these distances:
23 4 0.07
24 47 0.87
25 3 0.06
ACGTcount: A:0.23, C:0.09, G:0.20, T:0.48
Consensus pattern (23 bp):
ATTTTTCTGTGATTAAATGACTG
Found at i:54458348 original size:24 final size:24
Alignment explanation
Indices: 54458275--54458356 Score: 110
Period size: 24 Copynumber: 3.4 Consensus size: 24
54458265 CGTGATGTAA
* * **
54458275 ATGACTGATTTCTTTGTGATTTAA
1 ATGACTGATTTGTCTGTGATTTGT
*
54458299 ATGACTGATTTGTCTGTGATTAGT
1 ATGACTGATTTGTCTGTGATTTGT
*
54458323 ATGACTGATTTGTCTATGATTTGT
1 ATGACTGATTTGTCTGTGATTTGT
54458347 ATGACTGATT
1 ATGACTGATT
54458357 CTGAGTATGG
Statistics
Matches: 51, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 51 1.00
ACGTcount: A:0.23, C:0.09, G:0.21, T:0.48
Consensus pattern (24 bp):
ATGACTGATTTGTCTGTGATTTGT
Found at i:54458538 original size:32 final size:32
Alignment explanation
Indices: 54458497--54458589 Score: 132
Period size: 32 Copynumber: 2.9 Consensus size: 32
54458487 GTTACAATGC
54458497 TACTGATGGCTTTGTGCCGATCATATTACCAT
1 TACTGATGGCTTTGTGCCGATCATATTACCAT
* * *
54458529 TACTGATGGCTGTGTGCCGATCATATCACTAT
1 TACTGATGGCTTTGTGCCGATCATATTACCAT
** *
54458561 TGTTGATGGCTTTGTGCCAATCATATTAC
1 TACTGATGGCTTTGTGCCGATCATATTAC
54458590 TGTACTTATG
Statistics
Matches: 53, Mismatches: 8, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
32 53 1.00
ACGTcount: A:0.22, C:0.20, G:0.20, T:0.38
Consensus pattern (32 bp):
TACTGATGGCTTTGTGCCGATCATATTACCAT
Done.