Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: CP032244.1 Gossypioides kirkii chromosome KI_01
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: 38174113
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 1000 characters in sequence are not A, C, G, or T
File 34 of 126
Found at i:10393685 original size:29 final size:29
Alignment explanation
Indices: 10393650--10393714 Score: 103
Period size: 29 Copynumber: 2.2 Consensus size: 29
10393640 ACGGTCTTGT
* *
10393650 TGACGTGGTCGTTAGTTGACTAACGGTGC
1 TGACGTGGCCATTAGTTGACTAACGGTGC
*
10393679 TGACGTGGCCATTAGTTGACTAACGGTGT
1 TGACGTGGCCATTAGTTGACTAACGGTGC
10393708 TGACGTG
1 TGACGTG
10393715 ACAATTTTTT
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
29 33 1.00
ACGTcount: A:0.18, C:0.17, G:0.34, T:0.31
Consensus pattern (29 bp):
TGACGTGGCCATTAGTTGACTAACGGTGC
Found at i:10397337 original size:3 final size:3
Alignment explanation
Indices: 10397329--10397358 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
10397319 TTTTAATATT
10397329 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
10397359 GTTGTCATAT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:10397523 original size:24 final size:24
Alignment explanation
Indices: 10397478--10397524 Score: 58
Period size: 24 Copynumber: 2.0 Consensus size: 24
10397468 ATTAATTATG
* **
10397478 TAAAAAAACCCAAAAATGAAGAAC
1 TAAAAAAACCAAAAAACAAAGAAC
*
10397502 TAAAAATACCAAAAAACAAAGAA
1 TAAAAAAACCAAAAAACAAAGAA
10397525 AAGAAAAAGA
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.70, C:0.15, G:0.06, T:0.09
Consensus pattern (24 bp):
TAAAAAAACCAAAAAACAAAGAAC
Found at i:10402638 original size:23 final size:25
Alignment explanation
Indices: 10402612--10402657 Score: 78
Period size: 25 Copynumber: 1.9 Consensus size: 25
10402602 CCAATTAGGG
10402612 AATTAT-TTTTTAG-ATTTAATTCA
1 AATTATCTTTTTAGAATTTAATTCA
10402635 AATTATCTTTTTAGAATTTAATT
1 AATTATCTTTTTAGAATTTAATT
10402658 TGGATCCAAC
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
23 6 0.29
24 7 0.33
25 8 0.38
ACGTcount: A:0.35, C:0.04, G:0.04, T:0.57
Consensus pattern (25 bp):
AATTATCTTTTTAGAATTTAATTCA
Found at i:10425951 original size:18 final size:18
Alignment explanation
Indices: 10425910--10425945 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
10425900 CAGAGAAGGG
10425910 CCTCTTGACTGCATCTGA
1 CCTCTTGACTGCATCTGA
10425928 CCTCTTGACTGCATCTGA
1 CCTCTTGACTGCATCTGA
10425946 TTTCTTTAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.17, C:0.33, G:0.17, T:0.33
Consensus pattern (18 bp):
CCTCTTGACTGCATCTGA
Found at i:10430322 original size:20 final size:19
Alignment explanation
Indices: 10430299--10430336 Score: 58
Period size: 19 Copynumber: 1.9 Consensus size: 19
10430289 TTTATATATT
10430299 TTTAGATATTTTTTAAAAAA
1 TTTAGA-ATTTTTTAAAAAA
*
10430319 TTTATAATTTTTTAAAAA
1 TTTAGAATTTTTTAAAAA
10430337 TTCAAATTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 12 0.71
20 5 0.29
ACGTcount: A:0.45, C:0.00, G:0.03, T:0.53
Consensus pattern (19 bp):
TTTAGAATTTTTTAAAAAA
Found at i:10430367 original size:20 final size:20
Alignment explanation
Indices: 10430328--10430405 Score: 88
Period size: 20 Copynumber: 3.8 Consensus size: 20
10430318 ATTTATAATT
10430328 TTTTAAAAATTCAAATTTTAAAA
1 TTTTAAAAATT---ATTTTAAAA
10430351 TTTTAATAAA-TATTTTAAAA
1 TTTTAA-AAATTATTTTAAAA
* *
10430371 -TTTAAAAATTATTTTCAAT
1 TTTTAAAAATTATTTTAAAA
10430390 TTTTAAAAATTATTTT
1 TTTTAAAAATTATTTT
10430406 GATTTTTTTT
Statistics
Matches: 50, Mismatches: 2, Indels: 9
0.82 0.03 0.15
Matches are distributed among these distances:
18 3 0.06
19 13 0.26
20 24 0.48
23 7 0.14
24 3 0.06
ACGTcount: A:0.46, C:0.03, G:0.00, T:0.51
Consensus pattern (20 bp):
TTTTAAAAATTATTTTAAAA
Found at i:10451710 original size:20 final size:20
Alignment explanation
Indices: 10451685--10451725 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 20
10451675 TTGGAAAAAT
10451685 ATATTTTATA-AATATTTTGA
1 ATATTTTA-AGAATATTTTGA
*
10451705 ATATTTTAAGACTATTTTGA
1 ATATTTTAAGAATATTTTGA
10451725 A
1 A
10451726 CTTTTGTACT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
19 1 0.05
20 18 0.95
ACGTcount: A:0.39, C:0.02, G:0.07, T:0.51
Consensus pattern (20 bp):
ATATTTTAAGAATATTTTGA
Found at i:10458105 original size:12 final size:12
Alignment explanation
Indices: 10458088--10458128 Score: 57
Period size: 12 Copynumber: 3.3 Consensus size: 12
10458078 TTTTAATATT
10458088 AAAATATTAAAA
1 AAAATATTAAAA
10458100 AAAATA-TAAAA
1 AAAATATTAAAA
10458111 AATAATATTAATAA
1 AA-AATATTAA-AA
10458125 AAAA
1 AAAA
10458129 AGAAAACGGG
Statistics
Matches: 26, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
11 7 0.27
12 10 0.38
13 5 0.19
14 4 0.15
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (12 bp):
AAAATATTAAAA
Found at i:10461183 original size:14 final size:14
Alignment explanation
Indices: 10461166--10461308 Score: 53
Period size: 14 Copynumber: 9.9 Consensus size: 14
10461156 CTAATTACCA
10461166 TAAATCTTAAACTC
1 TAAATCTTAAACTC
*
10461180 TAAACTCTT-AACCC
1 TAAA-TCTTAAACTC
* * * *
10461194 TTAACCATAAACCC
1 TAAATCTTAAACTC
*
10461208 TAAATCTTAACCT-
1 TAAATCTTAAACTC
10461221 TAACATTAAACTCTAAACTC
1 TAA-A-T---CT-TAAACTC
* * *
10461241 TAAACCCTAATC-C
1 TAAATCTTAAACTC
*
10461254 TAAATCCTTTAACAT-
1 TAAAT-CTTAAAC-TC
*
10461269 TAAACCTTAAA-TC
1 TAAATCTTAAACTC
*
10461282 TCAAATCTAAAACTC
1 T-AAATCTTAAACTC
10461297 TAAATCTTAAAC
1 TAAATCTTAAAC
10461309 ATTAAAAACT
Statistics
Matches: 92, Mismatches: 22, Indels: 30
0.64 0.15 0.21
Matches are distributed among these distances:
12 1 0.01
13 11 0.12
14 56 0.61
15 13 0.14
18 2 0.02
19 6 0.07
20 3 0.03
ACGTcount: A:0.43, C:0.27, G:0.00, T:0.31
Consensus pattern (14 bp):
TAAATCTTAAACTC
Found at i:10464504 original size:25 final size:25
Alignment explanation
Indices: 10464472--10464540 Score: 120
Period size: 26 Copynumber: 2.7 Consensus size: 25
10464462 TCTCTGAACT
10464472 CTTCTTCAAAAATTTGCTTCCTTTC
1 CTTCTTCAAAAATTTGCTTCCTTTC
*
10464497 CTTTTTCAAAAATTTTGCTTCCTTTC
1 CTTCTTCAAAAA-TTTGCTTCCTTTC
10464523 CTTCTTCAAAAATTTGCT
1 CTTCTTCAAAAATTTGCT
10464541 GTTAAAATTT
Statistics
Matches: 41, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
25 17 0.41
26 24 0.59
ACGTcount: A:0.22, C:0.25, G:0.04, T:0.49
Consensus pattern (25 bp):
CTTCTTCAAAAATTTGCTTCCTTTC
Found at i:10464693 original size:27 final size:27
Alignment explanation
Indices: 10464642--10464694 Score: 70
Period size: 27 Copynumber: 2.0 Consensus size: 27
10464632 CCCAGTAGGC
* * *
10464642 ACCATTGGTACCGCCTATCCGAAAGGT
1 ACCATTGGTACCGCATACCCCAAAGGT
*
10464669 ACCATTGGTGCCGCATACCCCAAAGG
1 ACCATTGGTACCGCATACCCCAAAGG
10464695 CATCACTCGC
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 22 1.00
ACGTcount: A:0.26, C:0.32, G:0.23, T:0.19
Consensus pattern (27 bp):
ACCATTGGTACCGCATACCCCAAAGGT
Found at i:10465001 original size:10 final size:10
Alignment explanation
Indices: 10464986--10465011 Score: 52
Period size: 10 Copynumber: 2.6 Consensus size: 10
10464976 GGATTAAAAA
10464986 TATATTTGTT
1 TATATTTGTT
10464996 TATATTTGTT
1 TATATTTGTT
10465006 TATATT
1 TATATT
10465012 ATTTAAGTTA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 16 1.00
ACGTcount: A:0.23, C:0.00, G:0.08, T:0.69
Consensus pattern (10 bp):
TATATTTGTT
Found at i:10465166 original size:11 final size:11
Alignment explanation
Indices: 10465152--10465176 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
10465142 AATTTTTTTA
10465152 ATTATTTTAAT
1 ATTATTTTAAT
10465163 ATTATTTTAAT
1 ATTATTTTAAT
10465174 ATT
1 ATT
10465177 TTAAATATTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (11 bp):
ATTATTTTAAT
Found at i:10465172 original size:20 final size:20
Alignment explanation
Indices: 10465147--10465186 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
10465137 ATGCCAATTT
10465147 TTTTAATTATTTT-AATATTA
1 TTTTAA-TATTTTAAATATTA
10465167 TTTTAATATTTTAAATATTA
1 TTTTAATATTTTAAATATTA
10465187 AAAAATTAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 6 0.32
20 13 0.68
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (20 bp):
TTTTAATATTTTAAATATTA
Found at i:10481824 original size:24 final size:24
Alignment explanation
Indices: 10481792--10481839 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
10481782 ATAGATGTTC
10481792 AATCGTTCATCTACTTTAACCTTT
1 AATCGTTCATCTACTTTAACCTTT
* * *
10481816 AATCTTTCATCTTCTTTAATCTTT
1 AATCGTTCATCTACTTTAACCTTT
10481840 CATATTCTTG
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.23, C:0.23, G:0.02, T:0.52
Consensus pattern (24 bp):
AATCGTTCATCTACTTTAACCTTT
Found at i:10481832 original size:17 final size:17
Alignment explanation
Indices: 10481812--10481848 Score: 65
Period size: 17 Copynumber: 2.2 Consensus size: 17
10481802 CTACTTTAAC
*
10481812 CTTTAATCTTTCATCTT
1 CTTTAATCTTTCATATT
10481829 CTTTAATCTTTCATATT
1 CTTTAATCTTTCATATT
10481846 CTT
1 CTT
10481849 GTAACTATTT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.19, C:0.22, G:0.00, T:0.59
Consensus pattern (17 bp):
CTTTAATCTTTCATATT
Found at i:10483346 original size:59 final size:59
Alignment explanation
Indices: 10483208--10483573 Score: 470
Period size: 59 Copynumber: 6.2 Consensus size: 59
10483198 TTCCGATGGC
* * * *
10483208 AAAATGGTAATTTTGGGTGAAATTAGGGTTAAAAATGGAATTTTGGAAA-TTT-GAGGGT
1 AAAATGGTAATTTTTGGTGAAACTGGGGTCAAAAATGGAATTTTGGAAAGTTTAG-GGGT
* * * *
10483266 AAAATGGTAATTTTAGGTGAAACTGGGGTTAAAAAT-GAGATTTTGGAAAGTTCAGGGAT
1 AAAATGGTAATTTTTGGTGAAACTGGGGTCAAAAATGGA-ATTTTGGAAAGTTTAGGGGT
* *
10483325 AAAATGGTAATTTTTGGTGAAACTAGGGTCGAAAATGGAATTTTGGAAAGTTTAGGGGT
1 AAAATGGTAATTTTTGGTGAAACTGGGGTCAAAAATGGAATTTTGGAAAGTTTAGGGGT
* * * *
10483384 AAAATGGTAATCTTTGGTGAAACCGAGGTCAAAAATGGAATTTTGAAAAGTTTAGGGGT
1 AAAATGGTAATTTTTGGTGAAACTGGGGTCAAAAATGGAATTTTGGAAAGTTTAGGGGT
* * * **
10483443 AAAATAGTAATTTTTGGTGAAA-TCGGGGTTAAAAATGGAATTTTGGAAAGATCGGGGGT
1 AAAATGGTAATTTTTGGTGAAACT-GGGGTCAAAAATGGAATTTTGGAAAGTTTAGGGGT
* * *
10483502 AAAATGGTAATTTTTGGTGAAACCGAGGTCAAAAATGGAATTTTGGAAAGTTTGGGGGT
1 AAAATGGTAATTTTTGGTGAAACTGGGGTCAAAAATGGAATTTTGGAAAGTTTAGGGGT
*
10483561 AAAATGATAATTT
1 AAAATGGTAATTT
10483574 ATGAACAATT
Statistics
Matches: 269, Mismatches: 33, Indels: 11
0.86 0.11 0.04
Matches are distributed among these distances:
57 2 0.01
58 43 0.16
59 221 0.82
60 3 0.01
ACGTcount: A:0.36, C:0.04, G:0.29, T:0.31
Consensus pattern (59 bp):
AAAATGGTAATTTTTGGTGAAACTGGGGTCAAAAATGGAATTTTGGAAAGTTTAGGGGT
Found at i:10483501 original size:30 final size:29
Alignment explanation
Indices: 10483356--10483564 Score: 101
Period size: 29 Copynumber: 7.1 Consensus size: 29
10483346 ACTAGGGTCG
* **
10483356 AAAATGGAATTTTGGAAAGTTTAGGGGT-
1 AAAATGGAATTTTGGAAAGATCGGGGGTA
* * *
10483384 AAAATGGTAATCTTTGGTGAA-A-CCGAGGTCA
1 AAAATGG-AAT-TTTGG-AAAGATCGGGGGT-A
* * **
10483415 AAAATGGAATTTTGAAAAGTTTAGGGGT-
1 AAAATGGAATTTTGGAAAGATCGGGGGTA
* * *
10483443 AAAATAGTAATTTTTGGTGAA-ATCGGGGTTA
1 AAAAT-GGAA-TTTTGG-AAAGATCGGGGGTA
10483474 AAAATGGAATTTTGGAAAGATCGGGGGT-
1 AAAATGGAATTTTGGAAAGATCGGGGGTA
* * *
10483502 AAAATGGTAATTTTTGGTGAA-A-CCGAGGTCA
1 AAAATGG-AA-TTTTGG-AAAGATCGGGGGT-A
* *
10483533 AAAATGGAATTTTGGAAAGTTTGGGGGTA
1 AAAATGGAATTTTGGAAAGATCGGGGGTA
10483562 AAA
1 AAA
10483565 TGATAATTTA
Statistics
Matches: 133, Mismatches: 29, Indels: 37
0.67 0.15 0.19
Matches are distributed among these distances:
28 25 0.19
29 45 0.34
30 38 0.29
31 25 0.19
ACGTcount: A:0.37, C:0.04, G:0.29, T:0.30
Consensus pattern (29 bp):
AAAATGGAATTTTGGAAAGATCGGGGGTA
Found at i:10485492 original size:34 final size:34
Alignment explanation
Indices: 10485440--10485504 Score: 94
Period size: 34 Copynumber: 1.9 Consensus size: 34
10485430 ATTTAATTTA
* * * *
10485440 AAATTTTAATTTATAATAAATTTAAATTTTATAC
1 AAATTTAAATTCAAAATAAATCTAAATTTTATAC
10485474 AAATTTAAATTCAAAATAAATCTAAATTTTA
1 AAATTTAAATTCAAAATAAATCTAAATTTTA
10485505 AAACTAAATT
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
34 27 1.00
ACGTcount: A:0.51, C:0.05, G:0.00, T:0.45
Consensus pattern (34 bp):
AAATTTAAATTCAAAATAAATCTAAATTTTATAC
Found at i:10485494 original size:17 final size:17
Alignment explanation
Indices: 10485440--10485514 Score: 69
Period size: 17 Copynumber: 4.3 Consensus size: 17
10485430 ATTTAATTTA
* *
10485440 AAATTTTAATTTATAAT
1 AAATTTAAATTTAAAAT
* * *
10485457 AAATTTAAATTTTATAC
1 AAATTTAAATTTAAAAT
*
10485474 AAATTTAAATTCAAAAT
1 AAATTTAAATTTAAAAT
*
10485491 AAATCTAAATTTTAAAACT
1 AAATTTAAA-TTTAAAA-T
10485510 AAATT
1 AAATT
10485515 CATTGGGCCC
Statistics
Matches: 44, Mismatches: 12, Indels: 2
0.76 0.21 0.03
Matches are distributed among these distances:
17 33 0.75
18 6 0.14
19 5 0.11
ACGTcount: A:0.52, C:0.05, G:0.00, T:0.43
Consensus pattern (17 bp):
AAATTTAAATTTAAAAT
Found at i:10485636 original size:17 final size:18
Alignment explanation
Indices: 10485614--10485656 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 18
10485604 ATTTTATAAC
*
10485614 AAAATA-ATATTAAAATT
1 AAAATATATATAAAAATT
*
10485631 AAAATATTTATAAAAATT
1 AAAATATATATAAAAATT
*
10485649 AAATTATA
1 AAAATATA
10485657 AATTATAAAC
Statistics
Matches: 21, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
17 6 0.29
18 15 0.71
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (18 bp):
AAAATATATATAAAAATT
Found at i:10485680 original size:22 final size:21
Alignment explanation
Indices: 10485638--10485682 Score: 63
Period size: 22 Copynumber: 2.1 Consensus size: 21
10485628 ATTAAAATAT
10485638 TTATAAAAATTAAATTATAAA
1 TTATAAAAATTAAATTATAAA
* *
10485659 TTATAAACAATTAATTTTTAAA
1 TTATAAA-AATTAAATTATAAA
10485681 TT
1 TT
10485683 TTTATTTTCT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 7 0.33
22 14 0.67
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.44
Consensus pattern (21 bp):
TTATAAAAATTAAATTATAAA
Found at i:10487962 original size:17 final size:17
Alignment explanation
Indices: 10487932--10487976 Score: 65
Period size: 17 Copynumber: 2.7 Consensus size: 17
10487922 ATATATTTTT
*
10487932 TAATTTTTT-TAAAATA
1 TAATTTTTTAAAAAATA
10487948 TAATTTTTTAAAAAATA
1 TAATTTTTTAAAAAATA
*
10487965 TAATTTTATAAA
1 TAATTTTTTAAA
10487977 TATTTTGAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
16 9 0.35
17 17 0.65
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (17 bp):
TAATTTTTTAAAAAATA
Found at i:10487999 original size:19 final size:20
Alignment explanation
Indices: 10487977--10488025 Score: 55
Period size: 20 Copynumber: 2.5 Consensus size: 20
10487967 ATTTTATAAA
10487977 TATTTTGAA-ATTTAAAAAT
1 TATTTTGAATATTTAAAAAT
* * *
10487996 TATTTTTAATTTTTGAAAAT
1 TATTTTGAATATTTAAAAAT
*
10488016 TAGTTTGAAT
1 TATTTTGAAT
10488026 TTTTTTTTGT
Statistics
Matches: 24, Mismatches: 5, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
19 8 0.33
20 16 0.67
ACGTcount: A:0.39, C:0.00, G:0.08, T:0.53
Consensus pattern (20 bp):
TATTTTGAATATTTAAAAAT
Found at i:10488014 original size:20 final size:20
Alignment explanation
Indices: 10487991--10488029 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
10487981 TTGAAATTTA
* *
10487991 AAAATTATTTTTAATTTTTG
1 AAAATTAGTTTGAATTTTTG
10488011 AAAATTAGTTTGAATTTTT
1 AAAATTAGTTTGAATTTTT
10488030 TTTTGTAATT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.36, C:0.00, G:0.08, T:0.56
Consensus pattern (20 bp):
AAAATTAGTTTGAATTTTTG
Found at i:10491565 original size:41 final size:41
Alignment explanation
Indices: 10491520--10491775 Score: 194
Period size: 41 Copynumber: 6.3 Consensus size: 41
10491510 GCTCTGACCT
* * * *
10491520 TTAGCGGCGTTCATGAAAAAACGTCGCTAAAAGTCATATCA
1 TTAGCGGCGTTCATGAGAAAACGTCGCTAAAGGTCAAAGCA
*** * * *
10491561 TTAGCGGCG-TCTATGAGAAAATACCACTAAAGGTTAGAGCA
1 TTAGCGGCGTTC-ATGAGAAAACGTCGCTAAAGGTCAAAGCA
* * *
10491602 TTAGCGGCGTTCATGTGAAAACGCCGCTAAAGGTCAGAGCA
1 TTAGCGGCGTTCATGAGAAAACGTCGCTAAAGGTCAAAGCA
* * * * * * *
10491643 TTAGCGGCGTTTATGAGAAGATG-CACTAAAAGTTAAAACA
1 TTAGCGGCGTTCATGAGAAAACGTCGCTAAAGGTCAAAGCA
** * * *
10491683 TTAGCGATGTTTATGAGAAAATGTCGCTAAAGGTCAAACCA
1 TTAGCGGCGTTCATGAGAAAACGTCGCTAAAGGTCAAAGCA
* * * * *
10491724 TTAGCGGCTTTTATTAGAAAACGTCGTTAAAGG-GAAGAGCA
1 TTAGCGGCGTTCATGAGAAAACGTCGCTAAAGGTCAA-AGCA
*
10491765 TTAACGGCGTT
1 TTAGCGGCGTT
10491776 TATAGGAAAA
Statistics
Matches: 171, Mismatches: 40, Indels: 8
0.78 0.18 0.04
Matches are distributed among these distances:
40 36 0.21
41 133 0.78
42 2 0.01
ACGTcount: A:0.35, C:0.16, G:0.24, T:0.25
Consensus pattern (41 bp):
TTAGCGGCGTTCATGAGAAAACGTCGCTAAAGGTCAAAGCA
Found at i:10491713 original size:81 final size:82
Alignment explanation
Indices: 10491520--10491744 Score: 254
Period size: 81 Copynumber: 2.8 Consensus size: 82
10491510 GCTCTGACCT
* * * * * *
10491520 TTAGCGGCGTTCATGAAAAAACGTCGCTAAAAGTCATATCATTAGCGGCGTCTATGAGAAAATAC
1 TTAGCGACGTTCATGAGAAAACGTCGCTAAAGGTCAAACCATTAGCGGCGTTTATGAGAAAATAC
* * *
10491585 CACTAAAGGTTAGAGCA
66 CACTAAAAGTTAAAACA
* * * * * * *
10491602 TTAGCGGCGTTCATGTGAAAACGCCGCTAAAGGTCAGAGCATTAGCGGCGTTTATGAGAAGAT-G
1 TTAGCGACGTTCATGAGAAAACGTCGCTAAAGGTCAAACCATTAGCGGCGTTTATGAGAAAATAC
10491666 CACTAAAAGTTAAAACA
66 CACTAAAAGTTAAAACA
* * * * *
10491683 TTAGCGATGTTTATGAGAAAATGTCGCTAAAGGTCAAACCATTAGCGGCTTTTATTAGAAAA
1 TTAGCGACGTTCATGAGAAAACGTCGCTAAAGGTCAAACCATTAGCGGCGTTTATGAGAAAA
10491745 CGTCGTTAAA
Statistics
Matches: 120, Mismatches: 23, Indels: 1
0.83 0.16 0.01
Matches are distributed among these distances:
81 65 0.54
82 55 0.46
ACGTcount: A:0.36, C:0.16, G:0.23, T:0.25
Consensus pattern (82 bp):
TTAGCGACGTTCATGAGAAAACGTCGCTAAAGGTCAAACCATTAGCGGCGTTTATGAGAAAATAC
CACTAAAAGTTAAAACA
Found at i:10492261 original size:18 final size:20
Alignment explanation
Indices: 10492224--10492261 Score: 53
Period size: 19 Copynumber: 2.0 Consensus size: 20
10492214 ACTTATTTCT
*
10492224 ATTTATATTTTTCATTTTAA
1 ATTTATATTTTTCATGTTAA
10492244 ATTTAT-TTTTTCA-GTTAA
1 ATTTATATTTTTCATGTTAA
10492262 GAATTTCATA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
18 4 0.24
19 7 0.41
20 6 0.35
ACGTcount: A:0.29, C:0.05, G:0.03, T:0.63
Consensus pattern (20 bp):
ATTTATATTTTTCATGTTAA
Found at i:10492266 original size:20 final size:20
Alignment explanation
Indices: 10492224--10492267 Score: 54
Period size: 20 Copynumber: 2.2 Consensus size: 20
10492214 ACTTATTTCT
* *
10492224 ATTTATATTTTTCATTTTAA
1 ATTTATATTTTTCAGTTAAA
10492244 ATTTAT-TTTTTCAGTTAAGA
1 ATTTATATTTTTCAGTTAA-A
10492264 ATTT
1 ATTT
10492268 CATAACACTG
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
19 10 0.48
20 11 0.52
ACGTcount: A:0.30, C:0.05, G:0.05, T:0.61
Consensus pattern (20 bp):
ATTTATATTTTTCAGTTAAA
Found at i:10493877 original size:15 final size:15
Alignment explanation
Indices: 10493857--10493886 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
10493847 AATTTCTAAT
10493857 TAAATCCCTAATTTC
1 TAAATCCCTAATTTC
10493872 TAAATCCCTAATTTC
1 TAAATCCCTAATTTC
10493887 ATCTTAGCCC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.33, C:0.27, G:0.00, T:0.40
Consensus pattern (15 bp):
TAAATCCCTAATTTC
Found at i:10497375 original size:28 final size:27
Alignment explanation
Indices: 10497335--10497399 Score: 78
Period size: 28 Copynumber: 2.3 Consensus size: 27
10497325 AAAGTTGGTT
* *
10497335 AAAAAAAATTTGGGGCC-CTTAAAAACTA
1 AAAAAAAAATT-GGACCTCTTAAAAA-TA
10497363 AAAAAAAAATTGGACCTCTTAAAAATA
1 AAAAAAAAATTGGACCTCTTAAAAATA
10497390 AAAAATAAAA
1 AAAAA-AAAA
10497400 CAAAAAATTA
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
27 11 0.33
28 22 0.67
ACGTcount: A:0.60, C:0.11, G:0.09, T:0.20
Consensus pattern (27 bp):
AAAAAAAAATTGGACCTCTTAAAAATA
Found at i:10502657 original size:27 final size:27
Alignment explanation
Indices: 10502626--10502680 Score: 83
Period size: 27 Copynumber: 2.0 Consensus size: 27
10502616 ATTTTTTTTA
*
10502626 ATTTAGAGTTAAATTGATTTTAAATTT
1 ATTTAAAGTTAAATTGATTTTAAATTT
* *
10502653 ATTTAAATTTAAATTTATTTTAAATTT
1 ATTTAAAGTTAAATTGATTTTAAATTT
10502680 A
1 A
10502681 AATTTAATTA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.40, C:0.00, G:0.05, T:0.55
Consensus pattern (27 bp):
ATTTAAAGTTAAATTGATTTTAAATTT
Found at i:10502662 original size:6 final size:6
Alignment explanation
Indices: 10502644--10502743 Score: 91
Period size: 6 Copynumber: 16.8 Consensus size: 6
10502634 TTAAATTGAT
*
10502644 TTTAAA TTT--A TTTAAA TTTAAA TTT-AT TTTAAA TTTAAA TTTAATTA
1 TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAA--A
* * ** *
10502691 TTTAAA TTT-AC TTTGAA TTTAAA TTTAAA TAAAAA TTAAAA TATTAAA
1 TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA T-TTAAA
10502739 TTTAA
1 TTTAA
10502744 CATTAAAAAT
Statistics
Matches: 78, Mismatches: 9, Indels: 14
0.77 0.09 0.14
Matches are distributed among these distances:
4 4 0.05
5 8 0.10
6 55 0.71
7 5 0.06
8 6 0.08
ACGTcount: A:0.47, C:0.01, G:0.01, T:0.51
Consensus pattern (6 bp):
TTTAAA
Found at i:10502662 original size:17 final size:17
Alignment explanation
Indices: 10502644--10502717 Score: 93
Period size: 17 Copynumber: 4.6 Consensus size: 17
10502634 TTAAATTGAT
10502644 TTTAAATTTA-TTTAAA
1 TTTAAATTTACTTTAAA
*
10502660 TTTAAATTTATTTTAAA
1 TTTAAATTTACTTTAAA
*
10502677 TTTAAATTTA-ATT--A
1 TTTAAATTTACTTTAAA
*
10502691 TTTAAATTTACTTTGAA
1 TTTAAATTTACTTTAAA
10502708 TTTAAATTTA
1 TTTAAATTTA
10502718 AATAAAAATT
Statistics
Matches: 52, Mismatches: 2, Indels: 7
0.85 0.03 0.11
Matches are distributed among these distances:
14 11 0.21
15 2 0.04
16 12 0.23
17 27 0.52
ACGTcount: A:0.41, C:0.01, G:0.01, T:0.57
Consensus pattern (17 bp):
TTTAAATTTACTTTAAA
Found at i:10502674 original size:11 final size:10
Alignment explanation
Indices: 10502634--10502711 Score: 51
Period size: 11 Copynumber: 7.9 Consensus size: 10
10502624 TAATTTAGAG
*
10502634 TTAAATTGATT
1 TTAAATTTA-T
10502645 TTAAATTTAT
1 TTAAATTTAT
10502655 TT-AA---AT
1 TTAAATTTAT
10502661 TTAAATTTATT
1 TTAAATTTA-T
10502672 TTAAATTTAAAT
1 TTAAATTT--AT
10502684 TT-AA-TTAT
1 TTAAATTTAT
10502692 TTAAATTTACT
1 TTAAATTTA-T
*
10502703 TTGAATTTA
1 TTAAATTTA
10502712 AATTTAAATA
Statistics
Matches: 55, Mismatches: 2, Indels: 20
0.71 0.03 0.26
Matches are distributed among these distances:
6 4 0.07
7 2 0.04
8 4 0.07
9 4 0.07
10 9 0.16
11 28 0.51
12 3 0.05
13 1 0.02
ACGTcount: A:0.40, C:0.01, G:0.03, T:0.56
Consensus pattern (10 bp):
TTAAATTTAT
Found at i:10504302 original size:30 final size:30
Alignment explanation
Indices: 10504268--10504570 Score: 446
Period size: 30 Copynumber: 10.1 Consensus size: 30
10504258 AATTGTCTAG
* *
10504268 AAATTACATTTTAACCTCAAAACTTTTCCA
1 AAATTACATTTTGACCCCAAAACTTTTCCA
*
10504298 AAATTACATTTTGACCCCAAAACTTTACCA
1 AAATTACATTTTGACCCCAAAACTTTTCCA
* *
10504328 AAATTATATTTTGACCCCGAAACTTTAT-CA
1 AAATTACATTTTGACCCCAAAACTTT-TCCA
*
10504358 AAATTACATTTTGACCCTAAAACTTTTCCA
1 AAATTACATTTTGACCCCAAAACTTTTCCA
*
10504388 AAATTACATTTTGACCCCAAAACTTTACCA
1 AAATTACATTTTGACCCCAAAACTTTTCCA
**
10504418 AAATTACATTTTGACCCTGAAACTTTTCCA
1 AAATTACATTTTGACCCCAAAACTTTTCCA
* *
10504448 AAATTACATTTTGACCCCGAAACTTTTCTA
1 AAATTACATTTTGACCCCAAAACTTTTCCA
*
10504478 AAATTACATTTTAACCCCAAAACTTTTCCCA
1 AAATTACATTTTGACCCCAAAACTTTT-CCA
* *
10504509 AAATTACATTTTGACCCAAAAACCTTTCCA
1 AAATTACATTTTGACCCCAAAACTTTTCCA
*
10504539 AAATTACATTTTGACCTCAAAACTTTTCCA
1 AAATTACATTTTGACCCCAAAACTTTTCCA
10504569 AA
1 AA
10504571 TTCCATTCTT
Statistics
Matches: 245, Mismatches: 25, Indels: 6
0.89 0.09 0.02
Matches are distributed among these distances:
29 1 0.00
30 218 0.89
31 26 0.11
ACGTcount: A:0.38, C:0.24, G:0.04, T:0.34
Consensus pattern (30 bp):
AAATTACATTTTGACCCCAAAACTTTTCCA
Found at i:10518433 original size:137 final size:136
Alignment explanation
Indices: 10518164--10518718 Score: 778
Period size: 137 Copynumber: 4.0 Consensus size: 136
10518154 CTGCAGGTCT
*
10518164 CAACGTCATCCCCTTGAAA-TGAAGTAGAGTGGATAACACGTCTTCATCTCTGAAATTGAAGTAG
1 CAACGTCATCCTCTTGAAATTGAAGTAGAGTGGATAACACGTCTTCATCTCTGAAATTG-A--AG
* * * *
10518228 TAAGAGCAACGTC-TCCCCTCGAAATTGAAGAGTAGTAGAGTGGATAACATATCTTCATCTCTGA
63 TAAGAGCAACGTCATCCTCTTGAAATT---GA--AGTAGAGTGGATAACACATCTTTATCTCTGA
10518292 AATTGAAGTAAGAG
123 AATTGAAGTAAGAG
* *
10518306 CAACGTCATCCTCTTGAAATTGAAGTAGAGTGGATAAACATGTCTTTATCTCTGAAATTGAAGTA
1 CAACGTCATCCTCTTGAAATTGAAGTAGAGTGGAT-AACACGTCTTCATCTCTGAAATTGAAGTA
*
10518371 AGAGCAACGTCATCCTCTTGAAATTGAAGTAGAGTGGATAACACATTTTTATCTCTGAAATTGAA
65 AGAGCAACGTCATCCTCTTGAAATTGAAGTAGAGTGGATAACACATCTTTATCTCTGAAATTGAA
10518436 GTAAGAG
130 GTAAGAG
* * * * * *
10518443 CAACATCATCCTCTTGAAGTTGAAGTAGAGTGGATAACATGTCTTTATTTCTGAAATTGAGGTAA
1 CAACGTCATCCTCTTGAAATTGAAGTAGAGTGGATAACACGTCTTCATCTCTGAAATTGAAGTAA
* *
10518508 GAGCAGCGTCATCCTCTTGAAGTTGAAGTAGAGTGGATAAACACATCTTTATCTCTGAAATTGAA
66 GAGCAACGTCATCCTCTTGAAATTGAAGTAGAGTGGAT-AACACATCTTTATCTCTGAAATTGAA
10518573 GTAAGAG
130 GTAAGAG
* *
10518580 CAACGTCATCCTCTTGAAAATTGAAGTAGAGTTGGATAACACGTCTACATTTCTGAAATTGAAGT
1 CAACGTCATCCTCTTG-AAATTGAAGTAGAG-TGGATAACACGTCTTCATCTCTGAAATTGAAGT
* *
10518645 AAGAGCAACCTCAT-C-CTTGAAATTGAAGTAGAGTTGGATAACACACCTTTATC-CTGAAATTG
64 AAGAGCAACGTCATCCTCTTGAAATTGAAGTAGAG-TGGATAACACATCTTTATCTCTGAAATTG
10518707 AAGTAAGAG
128 AAGTAAGAG
10518716 CAA
1 CAA
10518719 GATCATTTTC
Statistics
Matches: 381, Mismatches: 25, Indels: 20
0.89 0.06 0.05
Matches are distributed among these distances:
136 85 0.22
137 152 0.40
138 19 0.05
139 43 0.11
141 15 0.04
142 29 0.08
143 16 0.04
144 22 0.06
ACGTcount: A:0.35, C:0.16, G:0.20, T:0.29
Consensus pattern (136 bp):
CAACGTCATCCTCTTGAAATTGAAGTAGAGTGGATAACACGTCTTCATCTCTGAAATTGAAGTAA
GAGCAACGTCATCCTCTTGAAATTGAAGTAGAGTGGATAACACATCTTTATCTCTGAAATTGAAG
TAAGAG
Found at i:10518459 original size:68 final size:68
Alignment explanation
Indices: 10518164--10518718 Score: 744
Period size: 68 Copynumber: 8.0 Consensus size: 68
10518154 CTGCAGGTCT
* * *
10518164 CAACGTCATCCCCTTGAAA-TGAAGTAGAGTGGATAACACGTCTTCATCTCTGAAATTGAAGTAG
1 CAACGTCATCCTCTTGAAATTGAAGTAGAGTGGATAACACATCTTTATCTCTGAAATTG-A--AG
10518228 TAAGAG
63 TAAGAG
* * * *
10518234 CAACGTC-TCCCCTCGAAATTGAAGAGTAGTAGAGTGGATAACATATCTTCATCTCTGAAATTGA
1 CAACGTCATCCTCTTGAAATT---GA--AGTAGAGTGGATAACACATCTTTATCTCTGAAATTGA
10518298 AGTAAGAG
61 AGTAAGAG
10518306 CAACGTCATCCTCTTGAAATTGAAGTAGAGTGGATAA-ACATGTCTTTATCTCTGAAATTGAAGT
1 CAACGTCATCCTCTTGAAATTGAAGTAGAGTGGATAACACA--TCTTTATCTCTGAAATTGAAGT
10518370 AAGAG
64 AAGAG
*
10518375 CAACGTCATCCTCTTGAAATTGAAGTAGAGTGGATAACACATTTTTATCTCTGAAATTGAAGTAA
1 CAACGTCATCCTCTTGAAATTGAAGTAGAGTGGATAACACATCTTTATCTCTGAAATTGAAGTAA
10518440 GAG
66 GAG
* * ** * *
10518443 CAACATCATCCTCTTGAAGTTGAAGTAGAGTGGATAACATGTCTTTATTTCTGAAATTGAGGTAA
1 CAACGTCATCCTCTTGAAATTGAAGTAGAGTGGATAACACATCTTTATCTCTGAAATTGAAGTAA
10518508 GAG
66 GAG
* *
10518511 CAGCGTCATCCTCTTGAAGTTGAAGTAGAGTGGATAAACACATCTTTATCTCTGAAATTGAAGTA
1 CAACGTCATCCTCTTGAAATTGAAGTAGAGTGGAT-AACACATCTTTATCTCTGAAATTGAAGTA
10518576 AGAG
65 AGAG
* ** *
10518580 CAACGTCATCCTCTTGAAAATTGAAGTAGAGTTGGATAACACGTCTACATTTCTGAAATTGAAGT
1 CAACGTCATCCTCTTG-AAATTGAAGTAGAG-TGGATAACACATCTTTATCTCTGAAATTGAAGT
10518645 AAGAG
64 AAGAG
* *
10518650 CAACCTCAT-C-CTTGAAATTGAAGTAGAGTTGGATAACACACCTTTATC-CTGAAATTGAAGTA
1 CAACGTCATCCTCTTGAAATTGAAGTAGAG-TGGATAACACATCTTTATCTCTGAAATTGAAGTA
10518712 AGAG
65 AGAG
10518716 CAA
1 CAA
10518719 GATCATTTTC
Statistics
Matches: 439, Mismatches: 33, Indels: 30
0.87 0.07 0.06
Matches are distributed among these distances:
66 21 0.05
67 31 0.07
68 138 0.31
69 118 0.27
70 63 0.14
71 5 0.01
72 15 0.03
73 13 0.03
74 1 0.00
75 34 0.08
ACGTcount: A:0.35, C:0.16, G:0.20, T:0.29
Consensus pattern (68 bp):
CAACGTCATCCTCTTGAAATTGAAGTAGAGTGGATAACACATCTTTATCTCTGAAATTGAAGTAA
GAG
Found at i:10518522 original size:205 final size:204
Alignment explanation
Indices: 10518164--10518718 Score: 776
Period size: 205 Copynumber: 2.7 Consensus size: 204
10518154 CTGCAGGTCT
*
10518164 CAACGTCATCCCCTTGAAA-TGAAGTAGAGTGGATAACACGTCTTCATCTCTGAAATTGAAGTAG
1 CAACGTCATCCTCTTGAAATTGAAGTAGAGTGGATAACACGTCTTCATCTCTGAAATTG-A--AG
* * * *
10518228 TAAGAGCAACGTC-TCCCCTCGAAATTGAAGAGTAGTAGAGTGGATAACATATCTTCATCTCTGA
63 TAAGAGCAACATCAT-CCCTTGAAATT---GA--AGTAGAGTGGATAACATATCTTTATTTCTGA
**
10518292 AATTGAAGTAAGAGCAACGTCATCCTCTTGAAATTGAAGTAGAGTGGATAAACATGTCTTTATCT
122 AATTGAAGTAAGAGCAACGTCATCCTCTTGAAATTGAAGTAGAGTGGATAAACACATCTTTATCT
10518357 CTGAAATTGAAGTAAGAG
187 CTGAAATTGAAGTAAGAG
* * *
10518375 CAACGTCATCCTCTTGAAATTGAAGTAGAGTGGATAACACATTTTTATCTCTGAAATTGAAGTAA
1 CAACGTCATCCTCTTGAAATTGAAGTAGAGTGGATAACACGTCTTCATCTCTGAAATTGAAGTAA
* * *
10518440 GAGCAACATCATCCTCTTGAAGTTGAAGTAGAGTGGATAACATGTCTTTATTTCTGAAATTGAGG
66 GAGCAACATCATCC-CTTGAAATTGAAGTAGAGTGGATAACATATCTTTATTTCTGAAATTGAAG
* *
10518505 TAAGAGCAGCGTCATCCTCTTGAAGTTGAAGTAGAGTGGATAAACACATCTTTATCTCTGAAATT
130 TAAGAGCAACGTCATCCTCTTGAAATTGAAGTAGAGTGGATAAACACATCTTTATCTCTGAAATT
10518570 GAAGTAAGAG
195 GAAGTAAGAG
* *
10518580 CAACGTCATCCTCTTGAAAATTGAAGTAGAGTTGGATAACACGTCTACATTTCTGAAATTGAAGT
1 CAACGTCATCCTCTTG-AAATTGAAGTAGAG-TGGATAACACGTCTTCATCTCTGAAATTGAAGT
* * * *
10518645 AAGAGCAACCTCAT-CCTTGAAATTGAAGTAGAGTTGGATAACACACCTTTA-TCCTGAAATTGA
64 AAGAGCAACATCATCCCTTGAAATTGAAGTAGAG-TGGATAACATATCTTTATTTCTGAAATTGA
10518708 AGTAAGAGCAA
128 AGTAAGAGCAA
10518719 GATCATTTTC
Statistics
Matches: 310, Mismatches: 28, Indels: 18
0.87 0.08 0.05
Matches are distributed among these distances:
205 159 0.51
206 29 0.09
207 43 0.14
209 16 0.05
210 8 0.03
211 19 0.06
212 36 0.12
ACGTcount: A:0.35, C:0.16, G:0.20, T:0.29
Consensus pattern (204 bp):
CAACGTCATCCTCTTGAAATTGAAGTAGAGTGGATAACACGTCTTCATCTCTGAAATTGAAGTAA
GAGCAACATCATCCCTTGAAATTGAAGTAGAGTGGATAACATATCTTTATTTCTGAAATTGAAGT
AAGAGCAACGTCATCCTCTTGAAATTGAAGTAGAGTGGATAAACACATCTTTATCTCTGAAATTG
AAGTAAGAG
Found at i:10519085 original size:17 final size:17
Alignment explanation
Indices: 10519067--10519138 Score: 89
Period size: 17 Copynumber: 4.5 Consensus size: 17
10519057 TTAAATTGAT
10519067 TTTAAATTTA-TTTAAA
1 TTTAAATTTACTTTAAA
*
10519083 TTTAAATTTATTTTAAA
1 TTTAAATTTACTTTAAA
*
10519100 TTTAAATTTA-ATT--A
1 TTTAAATTTACTTTAAA
*
10519114 TTTAAATTTACTTTGAA
1 TTTAAATTTACTTTAAA
10519131 TTTAAATT
1 TTTAAATT
10519139 AAATAAAAAT
Statistics
Matches: 50, Mismatches: 2, Indels: 7
0.85 0.03 0.12
Matches are distributed among these distances:
14 11 0.22
15 2 0.04
16 12 0.24
17 25 0.50
ACGTcount: A:0.40, C:0.01, G:0.01, T:0.57
Consensus pattern (17 bp):
TTTAAATTTACTTTAAA
Found at i:10519087 original size:27 final size:29
Alignment explanation
Indices: 10519076--10519140 Score: 60
Period size: 31 Copynumber: 2.2 Consensus size: 29
10519066 TTTTAAATTT
*
10519076 ATTTAA-ATTTAAATTTATTTTAAATTTAA
1 ATTTAATATTTAAATTGATTTTAAATTT-A
* * *
10519105 ATTTAATTATTTAAATTTACTTTGAATTTA
1 ATTTAA-TATTTAAATTGATTTTAAATTTA
*
10519135 AATTAA
1 ATTTAA
10519141 ATAAAAATTA
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
29 6 0.19
30 6 0.19
31 19 0.61
ACGTcount: A:0.43, C:0.02, G:0.02, T:0.54
Consensus pattern (29 bp):
ATTTAATATTTAAATTGATTTTAAATTTA
Found at i:10519097 original size:11 final size:10
Alignment explanation
Indices: 10519057--10519134 Score: 51
Period size: 11 Copynumber: 7.9 Consensus size: 10
10519047 TAATTTAGAG
*
10519057 TTAAATTGATT
1 TTAAATTTA-T
10519068 TTAAATTTAT
1 TTAAATTTAT
10519078 TT-AA---AT
1 TTAAATTTAT
10519084 TTAAATTTATT
1 TTAAATTTA-T
10519095 TTAAATTTAAAT
1 TTAAATTT--AT
10519107 TT-AA-TTAT
1 TTAAATTTAT
10519115 TTAAATTTACT
1 TTAAATTTA-T
*
10519126 TTGAATTTA
1 TTAAATTTA
10519135 AATTAAATAA
Statistics
Matches: 55, Mismatches: 2, Indels: 20
0.71 0.03 0.26
Matches are distributed among these distances:
6 4 0.07
7 2 0.04
8 4 0.07
9 4 0.07
10 9 0.16
11 28 0.51
12 3 0.05
13 1 0.02
ACGTcount: A:0.40, C:0.01, G:0.03, T:0.56
Consensus pattern (10 bp):
TTAAATTTAT
Found at i:10519150 original size:37 final size:37
Alignment explanation
Indices: 10519069--10519165 Score: 94
Period size: 37 Copynumber: 2.7 Consensus size: 37
10519059 AAATTGATTT
* *
10519069 TAAATTTATTTAAATTTAAATTTATTTTAAATTTAAA
1 TAAAATTATTTAAATTTAAATTTAATTTAAATTTAAA
** *
10519106 TTTAATTATTTAAATTT-ACTTTGAATTTAAA-TTAAA
1 TAAAATTATTTAAATTTAAATTT-AATTTAAATTTAAA
*
10519142 TAAAA--ATTAAAATATTAAATTTAA
1 TAAAATTATTTAAAT-TTAAATTTAA
10519166 CATTAAAAAT
Statistics
Matches: 48, Mismatches: 9, Indels: 8
0.74 0.14 0.12
Matches are distributed among these distances:
34 7 0.15
35 4 0.08
36 16 0.33
37 21 0.44
ACGTcount: A:0.48, C:0.01, G:0.01, T:0.49
Consensus pattern (37 bp):
TAAAATTATTTAAATTTAAATTTAATTTAAATTTAAA
Found at i:10519161 original size:7 final size:6
Alignment explanation
Indices: 10519067--10519165 Score: 82
Period size: 6 Copynumber: 16.8 Consensus size: 6
10519057 TTAAATTGAT
*
10519067 TTTAAA TTT--A TTTAAA TTTAAA TTT-AT TTTAAA TTTAAA TTTAATTA
1 TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAA--A
* * ** *
10519114 TTTAAA TTT-AC TTTGAA TTTAAA -TTAAA TAAAAA TTAAAA TATTAAA
1 TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA T-TTAAA
10519161 TTTAA
1 TTTAA
10519166 CATTAAAAAT
Statistics
Matches: 76, Mismatches: 9, Indels: 16
0.75 0.09 0.16
Matches are distributed among these distances:
4 4 0.05
5 13 0.17
6 48 0.63
7 5 0.07
8 6 0.08
ACGTcount: A:0.47, C:0.01, G:0.01, T:0.51
Consensus pattern (6 bp):
TTTAAA
Found at i:10520892 original size:30 final size:29
Alignment explanation
Indices: 10520857--10521000 Score: 184
Period size: 31 Copynumber: 4.8 Consensus size: 29
10520847 ATTTTACATG
*
10520857 ATTTTGACCTGAAAACTTTTCCAAAATTAC
1 ATTTTGACC-CAAAACTTTTCCAAAATTAC
*
10520887 ATTTTGACCCCGAAACTTTTCCCAAAATTAC
1 ATTTTGA-CCCAAAACTTTT-CCAAAATTAC
*
10520918 ATTTTAACCCCAAAACTTTTCCCAAAATTAC
1 ATTTTGA-CCCAAAACTTTT-CCAAAATTAC
*
10520949 ATTTTGACCCAAAAACCTTTCCAAAATTAC
1 ATTTTGACCC-AAAACTTTTCCAAAATTAC
10520979 ATTTTGA-CCAAAAC-TTTCCAAA
1 ATTTTGACCCAAAACTTTTCCAAA
10521001 TTCCATTCTT
Statistics
Matches: 105, Mismatches: 6, Indels: 9
0.88 0.05 0.08
Matches are distributed among these distances:
27 8 0.08
28 5 0.05
29 2 0.02
30 35 0.33
31 55 0.52
ACGTcount: A:0.38, C:0.26, G:0.04, T:0.33
Consensus pattern (29 bp):
ATTTTGACCCAAAACTTTTCCAAAATTAC
Found at i:10520915 original size:31 final size:30
Alignment explanation
Indices: 10520692--10521000 Score: 340
Period size: 30 Copynumber: 10.1 Consensus size: 30
10520682 AATTGTCTAG
*
10520692 AAATTACATTTTGACCTCAAAACTTTTCCA
1 AAATTACATTTTGACCCCAAAACTTTTCCA
* *
10520722 AAATTAC-TTTTGACCCTAAAACTTTACCA
1 AAATTACATTTTGACCCCAAAACTTTTCCA
* *
10520751 AAATTATATTTTGACCCCGAAACTTTAT-CA
1 AAATTACATTTTGACCCCAAAACTTT-TCCA
* *
10520781 AAATTACATTTTAACCCTAAAACTTTTCCA
1 AAATTACATTTTGACCCCAAAACTTTTCCA
* *
10520811 AAATTACATTTTGACCCCAAAACTTTACAAAA
1 AAATTACATTTTGACCCCAAAACTTTTC--CA
**
10520843 TACAATTTTACATGATTTTGACCTGAAAACTTTTCCA
1 -A-AA--TTAC---ATTTTGACCCCAAAACTTTTCCA
*
10520880 AAATTACATTTTGACCCCGAAACTTTTCCCA
1 AAATTACATTTTGACCCCAAAACTTTT-CCA
*
10520911 AAATTACATTTTAACCCCAAAACTTTTCCCA
1 AAATTACATTTTGACCCCAAAACTTTT-CCA
* *
10520942 AAATTACATTTTGACCCAAAAACCTTTCCA
1 AAATTACATTTTGACCCCAAAACTTTTCCA
10520972 AAATTACATTTTGA--CCAAAAC-TTTCCA
1 AAATTACATTTTGACCCCAAAACTTTTCCA
10520999 AA
1 AA
10521001 TTCCATTCTT
Statistics
Matches: 238, Mismatches: 28, Indels: 29
0.81 0.09 0.10
Matches are distributed among these distances:
27 8 0.03
28 6 0.03
29 26 0.11
30 108 0.45
31 56 0.24
32 1 0.00
33 5 0.02
34 2 0.01
35 2 0.01
36 5 0.02
37 1 0.00
39 18 0.08
ACGTcount: A:0.39, C:0.24, G:0.04, T:0.34
Consensus pattern (30 bp):
AAATTACATTTTGACCCCAAAACTTTTCCA
Found at i:10533071 original size:31 final size:31
Alignment explanation
Indices: 10533028--10533418 Score: 153
Period size: 31 Copynumber: 11.7 Consensus size: 31
10533018 TAACACGTCT
10533028 TCAT-CTCT-GAAATTGAAGTAAGAGCAACG
1 TCATCCTCTCGAAATTGAAGTAAGAGCAACG
* * *
10533057 TCATCCCCTCGAAATTGAAGTAGAGTGGATAAC-
1 TCATCCTCTCGAAATTGAAGTA-AG-AG-CAACG
*
10533090 ACATCTTCATCTCTGAAATTGAAGTAAGAGCAACG
1 TCATC--C-TCTC-GAAATTGAAGTAAGAGCAACG
* * *
10533125 TCATCCTCTTGAAATTGAAGTAGAGTGGATAACATG
1 TCATCCTCTCGAAATTGAAGTA-AG-AG-CAAC--G
* **
10533161 TCTTTATCTCTGAAATTGAAGTAAGAGCAACG
1 TCATCCTCTC-GAAATTGAAGTAAGAGCAACG
* * *
10533193 TCATCCTCTTGAAATTGAAGTAGAGTGGATAAC-
1 TCATCCTCTCGAAATTGAAGTA-AG-AG-CAACG
* **
10533226 ACATTTTTATCTCTGAAATTGAAGTAAGAGCAACG
1 TCA---TCCTCTC-GAAATTGAAGTAAGAGCAACG
* * * *
10533261 TCATCCTCTTGAAGTTGAAGTAGAGTGGATAACATG
1 TCATCCTCTCGAAATTGAAGTA-AG-AG-CAAC--G
* ** * * *
10533297 TCTTTATTTCTGAAATTGAGGTAAGAGCAGCG
1 TCATCCTCTC-GAAATTGAAGTAAGAGCAACG
* * * *
10533329 TCATCCTCTTGAAGTTGAAGTAGAGTGGATAAC-
1 TCATCCTCTCGAAATTGAAGTA-AG-AG-CAACG
* *
10533362 ACATCTTTATCTCTGAAATTGAAGTAAGAGCAACG
1 TCATC---CTCTC-GAAATTGAAGTAAGAGCAACG
*
10533397 TCATCCTCTTGAAATTGAAGTA
1 TCATCCTCTCGAAATTGAAGTA
10533419 GAGTTGGATA
Statistics
Matches: 259, Mismatches: 65, Indels: 74
0.65 0.16 0.19
Matches are distributed among these distances:
29 4 0.02
30 3 0.01
31 69 0.27
32 33 0.13
33 16 0.06
34 28 0.11
35 16 0.06
36 33 0.13
37 57 0.22
ACGTcount: A:0.34, C:0.16, G:0.20, T:0.30
Consensus pattern (31 bp):
TCATCCTCTCGAAATTGAAGTAAGAGCAACG
Found at i:10533097 original size:68 final size:68
Alignment explanation
Indices: 10532984--10533463 Score: 798
Period size: 68 Copynumber: 7.0 Consensus size: 68
10532974 CTGCAGGTCT
* * *
10532984 CAACGTCATCCCCTTGAAATTGAAGTAGAGTGGATAACACGTCTTCATCTCTGAAATTGAAGTAA
1 CAACGTCATCCTCTTGAAATTGAAGTAGAGTGGATAACACATCTTTATCTCTGAAATTGAAGTAA
10533049 GAG
66 GAG
* * *
10533052 CAACGTCATCCCCTCGAAATTGAAGTAGAGTGGATAACACATCTTCATCTCTGAAATTGAAGTAA
1 CAACGTCATCCTCTTGAAATTGAAGTAGAGTGGATAACACATCTTTATCTCTGAAATTGAAGTAA
10533117 GAG
66 GAG
**
10533120 CAACGTCATCCTCTTGAAATTGAAGTAGAGTGGATAACATGTCTTTATCTCTGAAATTGAAGTAA
1 CAACGTCATCCTCTTGAAATTGAAGTAGAGTGGATAACACATCTTTATCTCTGAAATTGAAGTAA
10533185 GAG
66 GAG
*
10533188 CAACGTCATCCTCTTGAAATTGAAGTAGAGTGGATAACACATTTTTATCTCTGAAATTGAAGTAA
1 CAACGTCATCCTCTTGAAATTGAAGTAGAGTGGATAACACATCTTTATCTCTGAAATTGAAGTAA
10533253 GAG
66 GAG
* ** * *
10533256 CAACGTCATCCTCTTGAAGTTGAAGTAGAGTGGATAACATGTCTTTATTTCTGAAATTGAGGTAA
1 CAACGTCATCCTCTTGAAATTGAAGTAGAGTGGATAACACATCTTTATCTCTGAAATTGAAGTAA
10533321 GAG
66 GAG
* *
10533324 CAGCGTCATCCTCTTGAAGTTGAAGTAGAGTGGATAACACATCTTTATCTCTGAAATTGAAGTAA
1 CAACGTCATCCTCTTGAAATTGAAGTAGAGTGGATAACACATCTTTATCTCTGAAATTGAAGTAA
10533389 GAG
66 GAG
*
10533392 CAACGTCATCCTCTTGAAATTGAAGTAGAGTTGGATAACACACCTTTATCTCTGAAATTGAAGTA
1 CAACGTCATCCTCTTGAAATTGAAGTAGAG-TGGATAACACATCTTTATCTCTGAAATTGAAGTA
10533457 AGAG
65 AGAG
10533461 CAA
1 CAA
10533464 GATCATTTTC
Statistics
Matches: 387, Mismatches: 24, Indels: 1
0.94 0.06 0.00
Matches are distributed among these distances:
68 347 0.90
69 40 0.10
ACGTcount: A:0.34, C:0.17, G:0.20, T:0.29
Consensus pattern (68 bp):
CAACGTCATCCTCTTGAAATTGAAGTAGAGTGGATAACACATCTTTATCTCTGAAATTGAAGTAA
GAG
Found at i:10533828 original size:27 final size:27
Alignment explanation
Indices: 10533797--10533851 Score: 83
Period size: 27 Copynumber: 2.0 Consensus size: 27
10533787 ATTTTTTTTA
*
10533797 ATTTAGAGTTAAATTGATTTTAAATTT
1 ATTTAAAGTTAAATTGATTTTAAATTT
* *
10533824 ATTTAAATTTAAATTTATTTTAAATTT
1 ATTTAAAGTTAAATTGATTTTAAATTT
10533851 A
1 A
10533852 AATTTAATTA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.40, C:0.00, G:0.05, T:0.55
Consensus pattern (27 bp):
ATTTAAAGTTAAATTGATTTTAAATTT
Found at i:10533833 original size:6 final size:6
Alignment explanation
Indices: 10533815--10533914 Score: 91
Period size: 6 Copynumber: 16.8 Consensus size: 6
10533805 TTAAATTGAT
*
10533815 TTTAAA TTT--A TTTAAA TTTAAA TTT-AT TTTAAA TTTAAA TTTAATTA
1 TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAA--A
* * ** *
10533862 TTTAAA TTT-AC TTTGAA TTTAAA TTTAAA TAAAAA TTAAAA TATTAAA
1 TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA T-TTAAA
10533910 TTTAA
1 TTTAA
10533915 CATTAAAAAT
Statistics
Matches: 78, Mismatches: 9, Indels: 14
0.77 0.09 0.14
Matches are distributed among these distances:
4 4 0.05
5 8 0.10
6 55 0.71
7 5 0.06
8 6 0.08
ACGTcount: A:0.47, C:0.01, G:0.01, T:0.51
Consensus pattern (6 bp):
TTTAAA
Found at i:10533833 original size:17 final size:17
Alignment explanation
Indices: 10533815--10533888 Score: 93
Period size: 17 Copynumber: 4.6 Consensus size: 17
10533805 TTAAATTGAT
10533815 TTTAAATTTA-TTTAAA
1 TTTAAATTTACTTTAAA
*
10533831 TTTAAATTTATTTTAAA
1 TTTAAATTTACTTTAAA
*
10533848 TTTAAATTTA-ATT--A
1 TTTAAATTTACTTTAAA
*
10533862 TTTAAATTTACTTTGAA
1 TTTAAATTTACTTTAAA
10533879 TTTAAATTTA
1 TTTAAATTTA
10533889 AATAAAAATT
Statistics
Matches: 52, Mismatches: 2, Indels: 7
0.85 0.03 0.11
Matches are distributed among these distances:
14 11 0.21
15 2 0.04
16 12 0.23
17 27 0.52
ACGTcount: A:0.41, C:0.01, G:0.01, T:0.57
Consensus pattern (17 bp):
TTTAAATTTACTTTAAA
Found at i:10533845 original size:11 final size:10
Alignment explanation
Indices: 10533805--10533882 Score: 51
Period size: 11 Copynumber: 7.9 Consensus size: 10
10533795 TAATTTAGAG
*
10533805 TTAAATTGATT
1 TTAAATTTA-T
10533816 TTAAATTTAT
1 TTAAATTTAT
10533826 TT-AA---AT
1 TTAAATTTAT
10533832 TTAAATTTATT
1 TTAAATTTA-T
10533843 TTAAATTTAAAT
1 TTAAATTT--AT
10533855 TT-AA-TTAT
1 TTAAATTTAT
10533863 TTAAATTTACT
1 TTAAATTTA-T
*
10533874 TTGAATTTA
1 TTAAATTTA
10533883 AATTTAAATA
Statistics
Matches: 55, Mismatches: 2, Indels: 20
0.71 0.03 0.26
Matches are distributed among these distances:
6 4 0.07
7 2 0.04
8 4 0.07
9 4 0.07
10 9 0.16
11 28 0.51
12 3 0.05
13 1 0.02
ACGTcount: A:0.40, C:0.01, G:0.03, T:0.56
Consensus pattern (10 bp):
TTAAATTTAT
Found at i:10535487 original size:30 final size:30
Alignment explanation
Indices: 10535446--10535778 Score: 508
Period size: 30 Copynumber: 11.1 Consensus size: 30
10535436 AATTATCTAG
10535446 AAATTACATTTTGACCCCAAAACTTTTCCA
1 AAATTACATTTTGACCCCAAAACTTTTCCA
* *
10535476 AAATTATATTTTGACCCTAAAACTTTTCCA
1 AAATTACATTTTGACCCCAAAACTTTTCCA
* *
10535506 AAATTACATTTTGACCCTAAAACTTTACCA
1 AAATTACATTTTGACCCCAAAACTTTTCCA
* *
10535536 AAATTATATTTTAACCCCAAAACTTTAT-CA
1 AAATTACATTTTGACCCCAAAACTTT-TCCA
*
10535566 AAATTACATTTTGACCCTAAAACTTTTCCA
1 AAATTACATTTTGACCCCAAAACTTTTCCA
*
10535596 AAATTACATTTTGACCCCAAAACTTTACCA
1 AAATTACATTTTGACCCCAAAACTTTTCCA
*
10535626 AAATTACATTTTGACCCTAAAACTTTTCCA
1 AAATTACATTTTGACCCCAAAACTTTTCCA
*
10535656 AAATTACATTTTGACCCCGAAACTTTTCCA
1 AAATTACATTTTGACCCCAAAACTTTTCCA
*
10535686 AAATTACATTTTAACCCCAAAACTTTTCCCA
1 AAATTACATTTTGACCCCAAAACTTTT-CCA
*
10535717 AAATTACATTTTGACCCAAAAACCTTTT-CA
1 AAATTACATTTTGACCCCAAAA-CTTTTCCA
*
10535747 AAATTACATTTTGACCTCAAAACTTTTCCA
1 AAATTACATTTTGACCCCAAAACTTTTCCA
10535777 AA
1 AA
10535779 TTCCATTCTT
Statistics
Matches: 275, Mismatches: 23, Indels: 10
0.89 0.07 0.03
Matches are distributed among these distances:
29 6 0.02
30 241 0.88
31 23 0.08
32 5 0.02
ACGTcount: A:0.38, C:0.24, G:0.03, T:0.35
Consensus pattern (30 bp):
AAATTACATTTTGACCCCAAAACTTTTCCA
Found at i:10540756 original size:3 final size:3
Alignment explanation
Indices: 10540748--10540779 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
10540738 TTCCTGGGCA
10540748 TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TT
1 TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TT
10540780 CTTTGTACTC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.00, C:0.00, G:0.31, T:0.69
Consensus pattern (3 bp):
TTG
Found at i:10545471 original size:21 final size:22
Alignment explanation
Indices: 10545447--10545489 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 22
10545437 ACTATTTTGA
10545447 TTACTGGTTTGG-TGCTGTTTT
1 TTACTGGTTTGGTTGCTGTTTT
* *
10545468 TTACTGTTTTGGTTGTTGTTTT
1 TTACTGGTTTGGTTGCTGTTTT
10545490 GATGCTAATT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
21 11 0.58
22 8 0.42
ACGTcount: A:0.05, C:0.07, G:0.26, T:0.63
Consensus pattern (22 bp):
TTACTGGTTTGGTTGCTGTTTT
Found at i:10545522 original size:20 final size:21
Alignment explanation
Indices: 10545483--10545522 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
10545473 GTTTTGGTTG
10545483 TTGTTTTGATGCTAATTTTTA
1 TTGTTTTGATGCTAATTTTTA
*
10545504 TTGTTTTGGTGCT-ATTTTT
1 TTGTTTTGATGCTAATTTTT
10545523 GCTGCTTGGA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 6 0.33
21 12 0.67
ACGTcount: A:0.12, C:0.05, G:0.17, T:0.65
Consensus pattern (21 bp):
TTGTTTTGATGCTAATTTTTA
Found at i:10551615 original size:21 final size:21
Alignment explanation
Indices: 10551566--10551615 Score: 55
Period size: 21 Copynumber: 2.4 Consensus size: 21
10551556 ATAATAGCAT
* *
10551566 AATTCAAATATAAAGTTTAGC
1 AATTCAAACATAAAGTTTAGA
* **
10551587 AATCCAAACATAAAGTTTTTA
1 AATTCAAACATAAAGTTTAGA
10551608 AATTCAAA
1 AATTCAAA
10551616 TTACATAATC
Statistics
Matches: 23, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.50, C:0.12, G:0.06, T:0.32
Consensus pattern (21 bp):
AATTCAAACATAAAGTTTAGA
Found at i:10552574 original size:22 final size:23
Alignment explanation
Indices: 10552549--10552604 Score: 69
Period size: 22 Copynumber: 2.5 Consensus size: 23
10552539 AATTAAATTG
10552549 TATATTTTTATTATAGTAA-AAA
1 TATATTTTTATTATAGTAATAAA
* ** *
10552571 TATAATTTTATTATTTTAATAAT
1 TATATTTTTATTATAGTAATAAA
10552594 TATATTTTTAT
1 TATATTTTTAT
10552605 AATTTTTGTA
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
22 16 0.57
23 12 0.43
ACGTcount: A:0.39, C:0.00, G:0.02, T:0.59
Consensus pattern (23 bp):
TATATTTTTATTATAGTAATAAA
Found at i:10553278 original size:54 final size:54
Alignment explanation
Indices: 10553210--10553318 Score: 209
Period size: 54 Copynumber: 2.0 Consensus size: 54
10553200 ATAATCCCAC
10553210 ACTTAAAGATCATAACCTAGCAATCATCCAACCAATTATAAATAATATATATAT
1 ACTTAAAGATCATAACCTAGCAATCATCCAACCAATTATAAATAATATATATAT
*
10553264 ACTTAGAGATCATAACCTAGCAATCATCCAACCAATTATAAATAATATATATAT
1 ACTTAAAGATCATAACCTAGCAATCATCCAACCAATTATAAATAATATATATAT
10553318 A
1 A
10553319 TGCTACCATC
Statistics
Matches: 54, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
54 54 1.00
ACGTcount: A:0.48, C:0.18, G:0.05, T:0.29
Consensus pattern (54 bp):
ACTTAAAGATCATAACCTAGCAATCATCCAACCAATTATAAATAATATATATAT
Found at i:10562589 original size:23 final size:23
Alignment explanation
Indices: 10562551--10562627 Score: 79
Period size: 24 Copynumber: 3.3 Consensus size: 23
10562541 CGTTAATATT
*
10562551 ATCTTTCATATATTTAAAATTTTA
1 ATCTTTTAT-TATTTAAAATTTTA
10562575 ATCTTTTATTATTTATAAATTTTTA
1 ATCTTTTATTATTTA-AAA-TTTTA
*
10562600 AT-TTTT-TTATTGAAAA-TTTA
1 ATCTTTTATTATTTAAAATTTTA
*
10562620 ATTTTTTA
1 ATCTTTTA
10562628 ATAATTTTCT
Statistics
Matches: 47, Mismatches: 2, Indels: 10
0.80 0.03 0.17
Matches are distributed among these distances:
20 6 0.13
21 4 0.09
22 3 0.06
23 12 0.26
24 15 0.32
25 7 0.15
ACGTcount: A:0.34, C:0.04, G:0.01, T:0.61
Consensus pattern (23 bp):
ATCTTTTATTATTTAAAATTTTA
Found at i:10562644 original size:20 final size:20
Alignment explanation
Indices: 10562592--10562644 Score: 56
Period size: 19 Copynumber: 2.7 Consensus size: 20
10562582 ATTATTTATA
*
10562592 AATTTTTAATTTTTTTATTG
1 AATTTTTAATTTTTTTAATG
**
10562612 AAAATTTAA-TTTTTTAAT-
1 AATTTTTAATTTTTTTAATG
10562630 AATTTTCTAATTTTT
1 AATTTT-TAATTTTT
10562645 AATTTGTTTT
Statistics
Matches: 26, Mismatches: 5, Indels: 4
0.74 0.14 0.11
Matches are distributed among these distances:
18 4 0.15
19 11 0.42
20 11 0.42
ACGTcount: A:0.32, C:0.02, G:0.02, T:0.64
Consensus pattern (20 bp):
AATTTTTAATTTTTTTAATG
Found at i:10563039 original size:16 final size:16
Alignment explanation
Indices: 10563020--10563053 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 16
10563010 TAAATACTAA
10563020 TTTTTTATT-AAACATT
1 TTTTTTATTGAAA-ATT
10563036 TTTTTTATTGAAAATT
1 TTTTTTATTGAAAATT
10563052 TT
1 TT
10563054 ATATTAAGTT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 14 0.82
17 3 0.18
ACGTcount: A:0.29, C:0.03, G:0.03, T:0.65
Consensus pattern (16 bp):
TTTTTTATTGAAAATT
Found at i:10566777 original size:6 final size:6
Alignment explanation
Indices: 10566768--10566846 Score: 74
Period size: 6 Copynumber: 13.2 Consensus size: 6
10566758 ATTTAAATTG
*
10566768 ATTTAA ATTTAA ATTT-- ATCTTAA ATTTAA ATTTAA TTATTTAA ATTT-G
1 ATTTAA ATTTAA ATTTAA AT-TTAA ATTTAA ATTTAA --ATTTAA ATTTAA
* * *
10566816 CTTTAA ATTTAA ATTAAA ATTAAA ATTTAA A
1 ATTTAA ATTTAA ATTTAA ATTTAA ATTTAA A
10566847 CACTAAACAT
Statistics
Matches: 61, Mismatches: 6, Indels: 12
0.77 0.08 0.15
Matches are distributed among these distances:
4 2 0.03
5 5 0.08
6 46 0.75
7 2 0.03
8 6 0.10
ACGTcount: A:0.47, C:0.03, G:0.01, T:0.49
Consensus pattern (6 bp):
ATTTAA
Found at i:10566792 original size:17 final size:17
Alignment explanation
Indices: 10566758--10566830 Score: 75
Period size: 17 Copynumber: 4.5 Consensus size: 17
10566748 TTTAATTTGG
*
10566758 ATTTAAATTGAT-TTAA
1 ATTTAAATTTATCTTAA
10566774 ATTTAAATTTATCTTAA
1 ATTTAAATTTATCTTAA
*
10566791 ATTTAAATTTA-ATT--
1 ATTTAAATTTATCTTAA
*
10566805 ATTTAAATTT-GCTTTAA
1 ATTTAAATTTATC-TTAA
10566822 ATTTAAATT
1 ATTTAAATT
10566831 AAAATTAAAA
Statistics
Matches: 49, Mismatches: 3, Indels: 9
0.80 0.05 0.15
Matches are distributed among these distances:
14 10 0.20
15 2 0.04
16 13 0.27
17 24 0.49
ACGTcount: A:0.41, C:0.03, G:0.03, T:0.53
Consensus pattern (17 bp):
ATTTAAATTTATCTTAA
Found at i:10566804 original size:11 final size:11
Alignment explanation
Indices: 10566768--10566838 Score: 51
Period size: 11 Copynumber: 6.5 Consensus size: 11
10566758 ATTTAAATTG
10566768 ATTTAAATTTAA
1 ATTT-AATTTAA
10566780 ATTT-ATCTTAA
1 ATTTAAT-TTAA
10566791 ATTTAAATTT-A
1 ATTT-AATTTAA
10566802 A-TT-ATTTAA
1 ATTTAATTTAA
**
10566811 ATTTGCTTTAA
1 ATTTAATTTAA
*
10566822 ATTTAAATTAA
1 ATTTAATTTAA
*
10566833 AATTAA
1 ATTTAA
10566839 AATTTAAACA
Statistics
Matches: 48, Mismatches: 5, Indels: 13
0.73 0.08 0.20
Matches are distributed among these distances:
8 4 0.08
9 2 0.04
10 6 0.12
11 28 0.58
12 6 0.12
13 2 0.04
ACGTcount: A:0.45, C:0.03, G:0.01, T:0.51
Consensus pattern (11 bp):
ATTTAATTTAA
Found at i:10566838 original size:17 final size:17
Alignment explanation
Indices: 10566770--10566846 Score: 70
Period size: 17 Copynumber: 4.6 Consensus size: 17
10566760 TTAAATTGAT
**
10566770 TTAAATTTAAATTTATC
1 TTAAATTTAAATTTAAA
10566787 TTAAATTTAAATTT-AA
1 TTAAATTTAAATTTAAA
***
10566803 TT--ATTTAAATTTGCT
1 TTAAATTTAAATTTAAA
*
10566818 TTAAATTTAAATTAAAA
1 TTAAATTTAAATTTAAA
10566835 TTAAAATTTAAA
1 TT-AAATTTAAA
10566847 CACTAAACAT
Statistics
Matches: 48, Mismatches: 8, Indels: 7
0.76 0.13 0.11
Matches are distributed among these distances:
14 10 0.21
15 2 0.04
16 2 0.04
17 25 0.52
18 9 0.19
ACGTcount: A:0.47, C:0.03, G:0.01, T:0.49
Consensus pattern (17 bp):
TTAAATTTAAATTTAAA
Found at i:10566964 original size:14 final size:14
Alignment explanation
Indices: 10566945--10566994 Score: 57
Period size: 14 Copynumber: 3.6 Consensus size: 14
10566935 CCCATTTTTC
10566945 GGCCCAATTACAAA
1 GGCCCAATTACAAA
10566959 GGCCCAATTACAAA
1 GGCCCAATTACAAA
* * * *
10566973 TGACCAAATAC-AT
1 GGCCCAATTACAAA
10566986 GGCCCAATT
1 GGCCCAATT
10566995 GGCCCAATCC
Statistics
Matches: 29, Mismatches: 7, Indels: 1
0.78 0.19 0.03
Matches are distributed among these distances:
13 7 0.24
14 22 0.76
ACGTcount: A:0.40, C:0.28, G:0.14, T:0.18
Consensus pattern (14 bp):
GGCCCAATTACAAA
Found at i:10568796 original size:29 final size:27
Alignment explanation
Indices: 10568761--10569041 Score: 186
Period size: 29 Copynumber: 9.6 Consensus size: 27
10568751 CCAAACAACC
10568761 CAAAAATTACCATTTTACCCCTGAATCTT
1 CAAAAATT-CCATTTTACCCC-GAATCTT
** * **
10568790 TTAAAATTCCATTTTTAACCCCGATTTCAC
1 CAAAAATTCCA-TTTT-ACCCCGA-ATCTT
10568820 CAAAAATTACCATTTTACCCTCCGAATCTT
1 CAAAAATT-CCATTTTA-CC-CCGAATCTT
*
10568850 CTAAAATTCCATTTTAACCCCGAA-CTT
1 CAAAAATTCCATTTT-ACCCCGAATCTT
*
10568877 CCAAAAATTACCGTTTTACCCCCGAATCTT
1 -CAAAAATT-CCATTTTA-CCCCGAATCTT
** * *
10568907 TTAAAATTCCATTTTTAACCCCGATTTCAT
1 CAAAAATTCCA-TTTT-ACCCCGA-ATCTT
10568937 CAAAAATTACCATTTTACCCCCGAATCTT
1 CAAAAATT-CCATTTTA-CCCCGAATCTT
* * **
10568966 CCAAAATTCCATTTTTAACCCCGACTTCAC
1 CAAAAATTCCA-TTTT-ACCCCGA-ATCTT
*
10568996 CAAAAAATTACCATTTTACCCCCGTATCTT
1 C-AAAAATT-CCATTTTA-CCCCGAATCTT
**
10569026 TTAAAATTCCATTTTA
1 CAAAAATTCCATTTTA
10569042 ACTCCGATTT
Statistics
Matches: 197, Mismatches: 33, Indels: 45
0.72 0.12 0.16
Matches are distributed among these distances:
27 3 0.02
28 29 0.15
29 78 0.40
30 59 0.30
31 25 0.13
32 3 0.02
ACGTcount: A:0.32, C:0.29, G:0.04, T:0.35
Consensus pattern (27 bp):
CAAAAATTCCATTTTACCCCGAATCTT
Found at i:10568865 original size:59 final size:59
Alignment explanation
Indices: 10568760--10569069 Score: 459
Period size: 59 Copynumber: 5.3 Consensus size: 59
10568750 CCCAAACAAC
*
10568760 CCAAAAATTACCATTTTACCCCTGAATCTTTTAAAATTCCATTTTTAACCCCGATTTCA
1 CCAAAAATTACCATTTTACCCCCGAATCTTTTAAAATTCCATTTTTAACCCCGATTTCA
* *
10568819 CCAAAAATTACCATTTTACCCTCCGAATCTTCTAAAATTCCA-TTTTAACCCCGAACTT--
1 CCAAAAATTACCATTTTACCC-CCGAATCTTTTAAAATTCCATTTTTAACCCCG-ATTTCA
*
10568877 CCAAAAATTACCGTTTTACCCCCGAATCTTTTAAAATTCCATTTTTAACCCCGATTTCA
1 CCAAAAATTACCATTTTACCCCCGAATCTTTTAAAATTCCATTTTTAACCCCGATTTCA
* ** *
10568936 TCAAAAATTACCATTTTACCCCCGAATCTTCCAAAATTCCATTTTTAACCCCGACTTCA
1 CCAAAAATTACCATTTTACCCCCGAATCTTTTAAAATTCCATTTTTAACCCCGATTTCA
* * *
10568995 CCAAAAAATTACCATTTTACCCCCGTATCTTTTAAAATTCCA-TTTTAACTCCGATTTTA
1 CC-AAAAATTACCATTTTACCCCCGAATCTTTTAAAATTCCATTTTTAACCCCGATTTCA
10569054 CC-AAAATTACCATTTT
1 CCAAAAATTACCATTTT
10569070 GCCCTCGAGT
Statistics
Matches: 227, Mismatches: 18, Indels: 14
0.88 0.07 0.05
Matches are distributed among these distances:
57 36 0.16
58 31 0.14
59 103 0.45
60 57 0.25
ACGTcount: A:0.32, C:0.29, G:0.04, T:0.35
Consensus pattern (59 bp):
CCAAAAATTACCATTTTACCCCCGAATCTTTTAAAATTCCATTTTTAACCCCGATTTCA
Found at i:10568982 original size:117 final size:116
Alignment explanation
Indices: 10568760--10569075 Score: 485
Period size: 117 Copynumber: 2.7 Consensus size: 116
10568750 CCCAAACAAC
*
10568760 CCAAAAATTACCATTTTACCCCTGAATCTTTTAAAATTCCATTTTTAACCCCGATTTCACCAAAA
1 CCAAAAATTACCATTTTACCCCCGAATCTTTTAAAATTCCATTTTTAACCCCGATTTCA-CAAAA
*
10568825 ATTACCATTTTACCCTCCGAATCTTCTAAAATTCCATTTTAACCCCGAACTT-
65 ATTACCATTTTACCCTCCGAATCTTCCAAAATTCCATTTTAACCCCG-ACTTA
*
10568877 CCAAAAATTACCGTTTTACCCCCGAATCTTTTAAAATTCCATTTTTAACCCCGATTTCATCAAAA
1 CCAAAAATTACCATTTTACCCCCGAATCTTTTAAAATTCCATTTTTAACCCCGATTTCA-CAAAA
10568942 ATTACCATTTTACCC-CCGAATCTTCCAAAATTCCATTTTTAACCCCGACTTCA
65 ATTACCATTTTACCCTCCGAATCTTCCAAAATTCCA-TTTTAACCCCGACTT-A
* * * *
10568995 CCAAAAAATTACCATTTTACCCCCGTATCTTTTAAAATTCCA-TTTTAACTCCGATTTTACCAAA
1 CC-AAAAATTACCATTTTACCCCCGAATCTTTTAAAATTCCATTTTTAACCCCGATTTCACAAAA
*
10569059 ATTACCATTTTGCCCTC
65 ATTACCATTTTACCCTC
10569076 GAGTATCCAA
Statistics
Matches: 184, Mismatches: 10, Indels: 9
0.91 0.05 0.04
Matches are distributed among these distances:
116 23 0.12
117 106 0.58
118 18 0.10
119 37 0.20
ACGTcount: A:0.32, C:0.29, G:0.04, T:0.35
Consensus pattern (116 bp):
CCAAAAATTACCATTTTACCCCCGAATCTTTTAAAATTCCATTTTTAACCCCGATTTCACAAAAA
TTACCATTTTACCCTCCGAATCTTCCAAAATTCCATTTTAACCCCGACTTA
Found at i:10569069 original size:29 final size:27
Alignment explanation
Indices: 10568792--10569069 Score: 173
Period size: 29 Copynumber: 9.5 Consensus size: 27
10568782 TGAATCTTTT
*
10568792 AAAATTCCATTTTTAACCCCGATTTCACC
1 AAAATTCCA-TTTTAACCCCGATTT-TCC
* * *
10568821 AAAAATTACCATTTTACCCTCCGAATCTTCT
1 -AAAATT-CCATTTTAACC-CCG-ATTTTCC
**
10568852 AAAATTCCATTTTAACCCCGAACTTCC
1 AAAATTCCATTTTAACCCCGATTTTCC
* * *
10568879 AAAAATTACCGTTTTACCCCCGAATCTTT-T
1 -AAAATT-CCATTTTAACCCCG-AT-TTTCC
*
10568909 AAAATTCCATTTTTAACCCCGATTTCATCA
1 AAAATTCCA-TTTTAACCCCGATTT--TCC
* *
10568939 AAAATTACCATTTTACCCCCGAATCTTCC
1 AAAATT-CCATTTTAACCCCG-ATTTTCC
**
10568968 AAAATTCCATTTTTAACCCCGACTTCACC
1 AAAATTCCA-TTTTAACCCCGA-TTTTCC
* *
10568997 AAAAAATTACCATTTTACCCCCGTATCTTT-T
1 --AAAATT-CCATTTTAACCCCG-AT-TTTCC
*
10569028 AAAATTCCATTTTAACTCCGATTTTACC
1 AAAATTCCATTTTAACCCCGATTTT-CC
10569056 AAAATTACCATTTT
1 AAAATT-CCATTTT
10569070 GCCCTCGAGT
Statistics
Matches: 196, Mismatches: 29, Indels: 47
0.72 0.11 0.17
Matches are distributed among these distances:
26 3 0.02
27 9 0.05
28 35 0.18
29 73 0.37
30 36 0.18
31 32 0.16
32 8 0.04
ACGTcount: A:0.32, C:0.29, G:0.04, T:0.35
Consensus pattern (27 bp):
AAAATTCCATTTTAACCCCGATTTTCC
Found at i:10569112 original size:176 final size:176
Alignment explanation
Indices: 10568761--10569113 Score: 469
Period size: 176 Copynumber: 2.0 Consensus size: 176
10568751 CCAAACAACC
* ** *
10568761 CAAAAATTACCATTTTACCCCTGAATCTTTTAAAATTCCATTTTTAACCCCGATTTCACCAAAAA
1 CAAAAATTACCATTTTACCCCCGAATCTTCCAAAATTCCATTTTTAACCCCGACTTCACCAAAAA
*
10568826 TTACCATTTTACCCTCCGAATCTTCTAAAATTCCATTTTAACCCCGAACTTCCAAAAATTACCGT
66 TTACCATTTTACCCTCCGAATCTTCTAAAATTCCATTTTAACCCCGAACTTCCAAAAATTACCAT
* ** * *
10568891 TTTACCCCCGAATCTTTTAAAATTCCATTTTTAACCCCGATTTCAT
131 TTTACCCCCGAATCATCCAAAAGTCCATTTTTAACCCAGATTTCAT
10568937 CAAAAATTACCATTTTACCCCCGAATCTTCCAAAATTCCATTTTTAACCCCGACTTCACCAAAAA
1 CAAAAATTACCATTTTACCCCCGAATCTTCCAAAATTCCATTTTTAACCCCGACTTCACC-AAAA
* * * **
10569002 ATTACCATTTTACCC-CCGTATCTTTTAAAATTCCATTTTAACTCCGATTTTACC-AAAATTACC
65 ATTACCATTTTACCCTCCGAATCTTCTAAAATTCCATTTTAACCCCGAACTT-CCAAAAATTACC
* * * * * *
10569065 ATTTTGCCCTCGAGT-ATCCAAAAGTCTCGTTTTTCACCCATATTTCAT
129 ATTTTACCCCCGAATCATCCAAAAGTC-CATTTTTAACCCAGATTTCAT
10569113 C
1 C
10569114 GCTTATCAAT
Statistics
Matches: 153, Mismatches: 21, Indels: 6
0.85 0.12 0.03
Matches are distributed among these distances:
175 7 0.05
176 125 0.82
177 21 0.14
ACGTcount: A:0.31, C:0.29, G:0.05, T:0.35
Consensus pattern (176 bp):
CAAAAATTACCATTTTACCCCCGAATCTTCCAAAATTCCATTTTTAACCCCGACTTCACCAAAAA
TTACCATTTTACCCTCCGAATCTTCTAAAATTCCATTTTAACCCCGAACTTCCAAAAATTACCAT
TTTACCCCCGAATCATCCAAAAGTCCATTTTTAACCCAGATTTCAT
Found at i:10585460 original size:30 final size:31
Alignment explanation
Indices: 10585381--10585451 Score: 92
Period size: 31 Copynumber: 2.3 Consensus size: 31
10585371 AACAACTCAG
* * *
10585381 TAACTTAAAT-AAAAATATTTGAATAGTTCAA
1 TAACTTAAATGAAAACT-TTCGAATAATTCAA
10585412 TAACTTAAATGAAAACTTTCGAATAATTCAA
1 TAACTTAAATGAAAACTTTCGAATAATTCAA
10585443 TAAC-TAAAT
1 TAACTTAAAT
10585452 TGTAACTTTT
Statistics
Matches: 36, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
30 5 0.14
31 26 0.72
32 5 0.14
ACGTcount: A:0.51, C:0.10, G:0.06, T:0.34
Consensus pattern (31 bp):
TAACTTAAATGAAAACTTTCGAATAATTCAA
Found at i:10585868 original size:21 final size:23
Alignment explanation
Indices: 10585828--10585872 Score: 67
Period size: 21 Copynumber: 2.0 Consensus size: 23
10585818 CAGCAAATGA
10585828 TTTTAAAAATAATTTAAAATTATT
1 TTTTAAAAATAA-TTAAAATTATT
10585852 TTTTAAAAAT-A-TAAAATTATT
1 TTTTAAAAATAATTAAAATTATT
10585873 ATATTATTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
21 10 0.48
23 1 0.05
24 10 0.48
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (23 bp):
TTTTAAAAATAATTAAAATTATT
Found at i:10585909 original size:30 final size:30
Alignment explanation
Indices: 10585841--10585910 Score: 106
Period size: 29 Copynumber: 2.4 Consensus size: 30
10585831 TAAAAATAAT
10585841 TTAAAATTATTTTTTAAAAATATAAAATTA
1 TTAAAATTATTTTTTAAAAATATAAAATTA
* **
10585871 TT-ATATTATTTTTTTGAAATATAAAATTA
1 TTAAAATTATTTTTTAAAAATATAAAATTA
10585900 TTAAAATTATT
1 TTAAAATTATT
10585911 AAATAATTTT
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
29 26 0.74
30 9 0.26
ACGTcount: A:0.47, C:0.00, G:0.01, T:0.51
Consensus pattern (30 bp):
TTAAAATTATTTTTTAAAAATATAAAATTA
Found at i:10586446 original size:16 final size:16
Alignment explanation
Indices: 10586408--10586439 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
10586398 CCCACTTTTC
10586408 ATCTTTGATTATTGTT
1 ATCTTTGATTATTGTT
10586424 ATCTTTGATTATTGTT
1 ATCTTTGATTATTGTT
10586440 GTTTTTGTTC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.19, C:0.06, G:0.12, T:0.62
Consensus pattern (16 bp):
ATCTTTGATTATTGTT
Found at i:10586917 original size:6 final size:6
Alignment explanation
Indices: 10586888--10586916 Score: 51
Period size: 6 Copynumber: 5.0 Consensus size: 6
10586878 ACTTGAAATT
10586888 TGAAAA TGAAAA TGAAAA TGAAAA T-AAAA
1 TGAAAA TGAAAA TGAAAA TGAAAA TGAAAA
10586917 AAAATAACAA
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
5 4 0.17
6 19 0.83
ACGTcount: A:0.69, C:0.00, G:0.14, T:0.17
Consensus pattern (6 bp):
TGAAAA
Found at i:10591096 original size:2 final size:2
Alignment explanation
Indices: 10591080--10591114 Score: 56
Period size: 2 Copynumber: 18.5 Consensus size: 2
10591070 TTTAATCTTT
10591080 TA TA T- TA TA -A TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
10591115 TATTTAATAA
Statistics
Matches: 31, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
1 2 0.06
2 29 0.94
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:10591989 original size:25 final size:24
Alignment explanation
Indices: 10591947--10591998 Score: 61
Period size: 25 Copynumber: 2.1 Consensus size: 24
10591937 TGCTAATATC
*
10591947 ATATAAATCATTACATAAATATTAA
1 ATATAAATCATTACATAAA-AGTAA
*
10591972 ATATAAATTATTTA-ATAAAAGTAA
1 ATATAAATCA-TTACATAAAAGTAA
10591996 ATA
1 ATA
10591999 AATAACAATA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
24 7 0.29
25 14 0.58
26 3 0.12
ACGTcount: A:0.58, C:0.04, G:0.02, T:0.37
Consensus pattern (24 bp):
ATATAAATCATTACATAAAAGTAA
Found at i:10592576 original size:17 final size:17
Alignment explanation
Indices: 10592544--10592578 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
10592534 AAATTTACTT
* *
10592544 ATTTAAATTTATTTTAA
1 ATTTAAACTTAATTTAA
10592561 ATTTAAACTTAATTTAA
1 ATTTAAACTTAATTTAA
10592578 A
1 A
10592579 ATAATATTAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.46, C:0.03, G:0.00, T:0.51
Consensus pattern (17 bp):
ATTTAAACTTAATTTAA
Found at i:10593595 original size:16 final size:16
Alignment explanation
Indices: 10593574--10593604 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
10593564 CAAAATGATT
*
10593574 CCAGATCTGGGTTTTC
1 CCAGATCTGGATTTTC
10593590 CCAGATCTGGATTTT
1 CCAGATCTGGATTTT
10593605 GAAAAGACAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.16, C:0.23, G:0.23, T:0.39
Consensus pattern (16 bp):
CCAGATCTGGATTTTC
Found at i:10594521 original size:19 final size:19
Alignment explanation
Indices: 10594497--10594551 Score: 54
Period size: 15 Copynumber: 3.3 Consensus size: 19
10594487 CAAAACTTTT
10594497 CCAAAATTACATTTTGACC
1 CCAAAATTACATTTTGACC
10594516 CC-AAA--AC-TTTT----
1 CCAAAATTACATTTTGACC
10594527 CCAAAATTACATTTTGACC
1 CCAAAATTACATTTTGACC
10594546 CCAAAA
1 CCAAAA
10594552 CTTTCAAAAA
Statistics
Matches: 28, Mismatches: 0, Indels: 16
0.64 0.00 0.36
Matches are distributed among these distances:
11 2 0.07
12 3 0.11
14 2 0.07
15 8 0.29
16 2 0.07
18 3 0.11
19 8 0.29
ACGTcount: A:0.40, C:0.27, G:0.04, T:0.29
Consensus pattern (19 bp):
CCAAAATTACATTTTGACC
Found at i:10594605 original size:30 final size:30
Alignment explanation
Indices: 10594409--10594584 Score: 282
Period size: 30 Copynumber: 5.9 Consensus size: 30
10594399 AAATTGTCCA
*
10594409 AAAATTACATTTTAACCCCAAAACTTTTCC
1 AAAATTACATTTTGACCCCAAAACTTTTCC
* *
10594439 AAAATTACATTTTGACCCTAAAACTTTTCT
1 AAAATTACATTTTGACCCCAAAACTTTTCC
*
10594469 AAAATTATATTTTGACCCCAAAACTTTTCC
1 AAAATTACATTTTGACCCCAAAACTTTTCC
10594499 AAAATTACATTTTGACCCCAAAACTTTTCC
1 AAAATTACATTTTGACCCCAAAACTTTTCC
*
10594529 AAAATTACATTTTGACCCCAAAAC-TTTCA
1 AAAATTACATTTTGACCCCAAAACTTTTCC
* *
10594558 AAAATTACATTTTAACCCTAAAACTTT
1 AAAATTACATTTTGACCCCAAAACTTT
10594585 CCTAAATCCC
Statistics
Matches: 135, Mismatches: 10, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
29 26 0.19
30 109 0.81
ACGTcount: A:0.39, C:0.23, G:0.02, T:0.35
Consensus pattern (30 bp):
AAAATTACATTTTGACCCCAAAACTTTTCC
Found at i:10594619 original size:59 final size:58
Alignment explanation
Indices: 10594556--10594846 Score: 288
Period size: 58 Copynumber: 5.0 Consensus size: 58
10594546 CCAAAACTTT
** * *
10594556 CAAAAATTA-CATTTTAACCCTAAAACTTTCCT-AAATCCCATTTTTAACCCCGATTTCAC
1 CAAAAATTACCATTTTAACCCCGAAGC-TT-CTAAAATTCCA-TTTTAACCCCGATTTCAC
* * * *
10594615 CAAAATTTACCATTTT-ACCTCCGAAGCTTTTAAAATTCCATTCTAACCTCGATTTCAC
1 CAAAAATTACCATTTTAACC-CCGAAGCTTCTAAAATTCCATTTTAACCCCGATTTCAC
* * *
10594673 CAAAAATTACCATTTTACCCCCGAAGCTTCTAAAATTCCGTTTTTAACCCTGATTTCAC
1 CAAAAATTACCATTTTAACCCCGAAGCTTCTAAAATTCC-ATTTTAACCCCGATTTCAC
* * * * *
10594732 CGAAAATTACCATTTTACCCCCGAATCTTCCAAAATTCCATTTTAACCCCGATTTTAC
1 CAAAAATTACCATTTTAACCCCGAAGCTTCTAAAATTCCATTTTAACCCCGATTTCAC
* * * *
10594790 C-AAAATTACCATTTTACCCCCG-AG-TATCCAAAAGTCTCATTTTTCACCCCGATTTCA
1 CAAAAATTACCATTTTAACCCCGAAGCT-TCTAAAATTC-CA-TTTTAACCCCGATTTCA
10594847 TCGCTTATCA
Statistics
Matches: 199, Mismatches: 25, Indels: 17
0.83 0.10 0.07
Matches are distributed among these distances:
55 1 0.01
56 10 0.05
57 23 0.12
58 82 0.41
59 73 0.37
60 10 0.05
ACGTcount: A:0.32, C:0.30, G:0.05, T:0.34
Consensus pattern (58 bp):
CAAAAATTACCATTTTAACCCCGAAGCTTCTAAAATTCCATTTTAACCCCGATTTCAC
Found at i:10594668 original size:58 final size:57
Alignment explanation
Indices: 10594588--10594846 Score: 315
Period size: 58 Copynumber: 4.4 Consensus size: 57
10594578 AAACTTTCCT
* * *
10594588 AAATCCCATTTTTAACCCCGATTTCACCAAAATTTACCATTTTACCTCCGAAGCTTTTA
1 AAATTCCA-TTTTAACCCCGATTTCACCAAAA-TTACCATTTTACCCCCGAAGCTTCTA
* *
10594647 AAATTCCATTCTAACCTCGATTTCACCAAAAATTACCATTTTACCCCCGAAGCTTCTA
1 AAATTCCATTTTAACCCCGATTTCACC-AAAATTACCATTTTACCCCCGAAGCTTCTA
* * * *
10594705 AAATTCCGTTTTTAACCCTGATTTCACCGAAAATTACCATTTTACCCCCGAATCTTCCA
1 AAATTCC-ATTTTAACCCCGATTTCACC-AAAATTACCATTTTACCCCCGAAGCTTCTA
* *
10594764 AAATTCCATTTTAACCCCGATTTTACCAAAATTACCATTTTACCCCCG-AG-TATCCA
1 AAATTCCATTTTAACCCCGATTTCACCAAAATTACCATTTTACCCCCGAAGCT-TCTA
* *
10594820 AAAGTCTCATTTTTCACCCCGATTTCA
1 AAATTC-CA-TTTTAACCCCGATTTCA
10594847 TCGCTTATCA
Statistics
Matches: 176, Mismatches: 19, Indels: 11
0.85 0.09 0.05
Matches are distributed among these distances:
55 1 0.01
56 10 0.06
57 23 0.13
58 80 0.45
59 62 0.35
ACGTcount: A:0.31, C:0.30, G:0.06, T:0.34
Consensus pattern (57 bp):
AAATTCCATTTTAACCCCGATTTCACCAAAATTACCATTTTACCCCCGAAGCTTCTA
Found at i:10594717 original size:117 final size:116
Alignment explanation
Indices: 10594594--10594846 Score: 341
Period size: 117 Copynumber: 2.2 Consensus size: 116
10594584 TCCTAAATCC
* **
10594594 CATTTTTAACCCCGATTTCACC-AAAATTTACCATTTTACCTCCGAAGCTTTTAAAATTCCATTC
1 CATTTTTAACCCCGATTTCACCGAAAA-TTACCATTTTACCCCCGAAGCTTCCAAAATTCCATTC
* * *
10594658 TAACCTCGATTTCACCAAAAATTACCATTTTACCCCCGAAGCT-TCTAAAATTC-
65 TAACCCCGATTTCACC-AAAATTACCATTTTACCCCCG-AG-TATCCAAAAGTCT
* * * *
10594711 CGTTTTTAACCCTGATTTCACCGAAAATTACCATTTTACCCCCGAATCTTCCAAAATTCCATTTT
1 CATTTTTAACCCCGATTTCACCGAAAATTACCATTTTACCCCCGAAGCTTCCAAAATTCCATTCT
*
10594776 AACCCCGATTTTACCAAAATTACCATTTTACCCCCGAGTATCCAAAAGTCT
66 AACCCCGATTTCACCAAAATTACCATTTTACCCCCGAGTATCCAAAAGTCT
*
10594827 CATTTTTCACCCCGATTTCA
1 CATTTTTAACCCCGATTTCA
10594847 TCGCTTATCA
Statistics
Matches: 119, Mismatches: 14, Indels: 7
0.85 0.10 0.05
Matches are distributed among these distances:
114 1 0.01
115 10 0.08
116 38 0.32
117 66 0.55
118 4 0.03
ACGTcount: A:0.30, C:0.30, G:0.06, T:0.34
Consensus pattern (116 bp):
CATTTTTAACCCCGATTTCACCGAAAATTACCATTTTACCCCCGAAGCTTCCAAAATTCCATTCT
AACCCCGATTTCACCAAAATTACCATTTTACCCCCGAGTATCCAAAAGTCT
Found at i:10594820 original size:28 final size:28
Alignment explanation
Indices: 10594494--10594822 Score: 149
Period size: 29 Copynumber: 11.3 Consensus size: 28
10594484 CCCCAAAACT
**
10594494 TTTCCAAAATTA-CATTTTGACCCCAAAA
1 TTTCCAAAATTACCATTTT-ACCCCCGAA
**
10594522 CTTTTCCAAAATTA-CATTTTGACCCCAAAA
1 --TTTCCAAAATTACCATTTT-ACCCCCGAA
* ***
10594552 CTTTCAAAAATTA-CATTTTAACCCTAAAA
1 -TTTCCAAAATTACCATTTT-ACCCCCGAA
* * *
10594581 CTTTCCTAAA-TCCCATTTTTAACCCCG-A
1 -TTTCCAAAATTACCA-TTTTACCCCCGAA
*
10594609 TTTCACCAAAATTTACCATTTTACCTCCGAA
1 TTT--CCAAAA-TTACCATTTTACCCCCGAA
* * * *
10594640 GCTTT-TAAAATT-CCATTCTAACCTCG-A
1 --TTTCCAAAATTACCATTTTACCCCCGAA
10594667 TTTCACCAAAAATTACCATTTTACCCCCGAA
1 TTT--CC-AAAATTACCATTTTACCCCCGAA
* * * * *
10594698 GCTTCTAAAATT-CCGTTTTTAACCCTG-A
1 -TTTCCAAAATTACC-ATTTTACCCCCGAA
10594726 TTTCACCGAAAATTACCATTTTACCCCCGAA
1 TTT--CC-AAAATTACCATTTTACCCCCGAA
* *
10594757 TCTTCCAAAATT-CCATTTTAACCCCGAT
1 T-TTCCAAAATTACCATTTTACCCCCGAA
*
10594785 TTTACCAAAATTACCATTTTACCCCCGAG
1 TTT-CCAAAATTACCATTTTACCCCCGAA
*
10594814 TATCCAAAA
1 TTTCCAAAA
10594823 GTCTCATTTT
Statistics
Matches: 235, Mismatches: 39, Indels: 52
0.72 0.12 0.16
Matches are distributed among these distances:
25 3 0.01
27 8 0.03
28 44 0.19
29 89 0.38
30 74 0.31
31 10 0.04
32 4 0.02
33 3 0.01
ACGTcount: A:0.33, C:0.29, G:0.05, T:0.33
Consensus pattern (28 bp):
TTTCCAAAATTACCATTTTACCCCCGAA
Found at i:10596112 original size:21 final size:21
Alignment explanation
Indices: 10596077--10596117 Score: 57
Period size: 23 Copynumber: 1.9 Consensus size: 21
10596067 TATTTTCTTG
10596077 CTCAAGCATTCAAAATTATAATA
1 CTCAAGCA-TCAAAA-TATAATA
10596100 CTCAAGC-TCAAAATATAA
1 CTCAAGCATCAAAATATAA
10596118 CCATGGATTT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 5 0.28
21 6 0.33
23 7 0.39
ACGTcount: A:0.49, C:0.20, G:0.05, T:0.27
Consensus pattern (21 bp):
CTCAAGCATCAAAATATAATA
Found at i:10597065 original size:18 final size:18
Alignment explanation
Indices: 10597025--10597065 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
10597015 TCTTATATTT
10597025 TATATTATTATATAATAA
1 TATATTATTATATAATAA
*
10597043 AATATTATTAT-TAAGTAA
1 TATATTATTATATAA-TAA
10597061 TATAT
1 TATAT
10597066 CTTTTGATAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
17 3 0.15
18 17 0.85
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (18 bp):
TATATTATTATATAATAA
Found at i:10607461 original size:22 final size:22
Alignment explanation
Indices: 10607436--10607491 Score: 76
Period size: 22 Copynumber: 2.5 Consensus size: 22
10607426 TTTTGTCTCG
* * *
10607436 GTACTGGCATTCCCCGTCTTTA
1 GTACTGACATTCCCCATCCTTA
10607458 GTACTGACATTCCCCATCCTTA
1 GTACTGACATTCCCCATCCTTA
*
10607480 GTACTAACATTC
1 GTACTGACATTC
10607492 TCTTGAGTTC
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 30 1.00
ACGTcount: A:0.21, C:0.32, G:0.12, T:0.34
Consensus pattern (22 bp):
GTACTGACATTCCCCATCCTTA
Found at i:10610948 original size:14 final size:15
Alignment explanation
Indices: 10610902--10610940 Score: 78
Period size: 15 Copynumber: 2.6 Consensus size: 15
10610892 ACTATGCTGT
10610902 GTTTGGTGAAGGTCA
1 GTTTGGTGAAGGTCA
10610917 GTTTGGTGAAGGTCA
1 GTTTGGTGAAGGTCA
10610932 GTTTGGTGA
1 GTTTGGTGA
10610941 TTTCAGTTAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 24 1.00
ACGTcount: A:0.18, C:0.05, G:0.41, T:0.36
Consensus pattern (15 bp):
GTTTGGTGAAGGTCA
Found at i:10612989 original size:31 final size:28
Alignment explanation
Indices: 10612921--10612989 Score: 75
Period size: 31 Copynumber: 2.4 Consensus size: 28
10612911 ATAAACATTA
10612921 TTTTTAAAAATTAAAAAAAATTTAAATT
1 TTTTTAAAAATTAAAAAAAATTTAAATT
** * *
10612949 AATTTAAAAAGTATAAAAATATATTTTAATT
1 TTTTTAAAAA-T-TAAAAA-AAATTTAAATT
10612980 TTTTTAAAAA
1 TTTTTAAAAA
10612990 ATAATTAATT
Statistics
Matches: 32, Mismatches: 6, Indels: 3
0.78 0.15 0.07
Matches are distributed among these distances:
28 8 0.25
29 1 0.03
30 6 0.19
31 17 0.53
ACGTcount: A:0.55, C:0.00, G:0.01, T:0.43
Consensus pattern (28 bp):
TTTTTAAAAATTAAAAAAAATTTAAATT
Found at i:10615296 original size:31 final size:31
Alignment explanation
Indices: 10615261--10615328 Score: 118
Period size: 31 Copynumber: 2.2 Consensus size: 31
10615251 ATTACAATTG
*
10615261 GTCACTGAATTATTCAAAAGTTTTCATTTAA
1 GTCACTGAACTATTCAAAAGTTTTCATTTAA
*
10615292 GTCACTGAACTATTCAAAAGTTTTTATTTAA
1 GTCACTGAACTATTCAAAAGTTTTCATTTAA
10615323 GTCACT
1 GTCACT
10615329 AAGATGTTAA
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
31 35 1.00
ACGTcount: A:0.34, C:0.15, G:0.10, T:0.41
Consensus pattern (31 bp):
GTCACTGAACTATTCAAAAGTTTTCATTTAA
Found at i:10620139 original size:29 final size:29
Alignment explanation
Indices: 10620107--10620162 Score: 76
Period size: 29 Copynumber: 1.9 Consensus size: 29
10620097 AGCTTAAGAT
*
10620107 AATTCGGGATGAAAACGTAATTTTTGAGG
1 AATTCGGGATCAAAACGTAATTTTTGAGG
* * *
10620136 AATTTGGGGTCAAAATGTAATTTTTGA
1 AATTCGGGATCAAAACGTAATTTTTGA
10620163 AAAAATTAGG
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
29 23 1.00
ACGTcount: A:0.34, C:0.05, G:0.25, T:0.36
Consensus pattern (29 bp):
AATTCGGGATCAAAACGTAATTTTTGAGG
Found at i:10620247 original size:28 final size:29
Alignment explanation
Indices: 10620118--10620364 Score: 116
Period size: 29 Copynumber: 8.4 Consensus size: 29
10620108 ATTCGGGATG
* * *
10620118 AAAACGTAATTTTTGAGGAATTT-GGGGTC
1 AAAATGTAATTTTGGA-AAATTTAGGGGTC
* * * *
10620147 AAAATGTAATTTTTGAAAAAATTA-GGATT
1 AAAATGTAA-TTTTGGAAAATTTAGGGGTC
*
10620176 AAAA-GCGAACTTTTGGAAAATTT-GGGGTC
1 AAAATG-TAA-TTTTGGAAAATTTAGGGGTC
*
10620205 GAAAATGTGACTTTTGG-AAATTTAGGGGT-
1 -AAAATGT-AATTTTGGAAAATTTAGGGGTC
* * * * *
10620234 AAAATGGTAATTTTAGATCAGTTTGGGGGTTA
1 AAAAT-GTAATTTTGGA-AAATTTAGGGG-TC
* * *
10620266 AAAATGCAATTTTGGAAAAGTTTA-AGGTT
1 AAAATGTAATTTTGGAAAA-TTTAGGGGTC
* *
10620295 AAAATGTAA-TTTGGAAAAGTTTA-AGGTT
1 AAAATGTAATTTTGGAAAA-TTTAGGGGTC
* * * * *
10620323 TAAATGTGATTTTTGAGAAGTTAGGGGTC
1 AAAATGTAATTTTGGAAAATTTAGGGGTC
10620352 AAAATGTAATTTT
1 AAAATGTAATTTT
10620365 ACGAAGTTCG
Statistics
Matches: 165, Mismatches: 37, Indels: 32
0.71 0.16 0.14
Matches are distributed among these distances:
28 41 0.25
29 73 0.44
30 31 0.19
31 15 0.09
32 5 0.03
ACGTcount: A:0.36, C:0.04, G:0.24, T:0.36
Consensus pattern (29 bp):
AAAATGTAATTTTGGAAAATTTAGGGGTC
Found at i:10620329 original size:117 final size:117
Alignment explanation
Indices: 10620207--10620547 Score: 318
Period size: 117 Copynumber: 2.9 Consensus size: 117
10620197 TTGGGGTCGA
* * *
10620207 AAATGTGACTTTTGGA-AATTTAGGGGT-AAAATGGTAATTTTA-GATCAGTTTGGGGGTTAAAA
1 AAATGTGA-TTTTGGAGAAGTTAGGGGTCAAAAT-GTAATTTTACGA--AGTTCGAGGGTTAAAA
** *
10620269 -ATGCAATTTTGGAAAAGTTTAA-GGTTAAAATGTAA-TTTGGAAAAGTTTAAGGTTT
62 TAT--AATTTTGGAAAAGTTTAAGGGTTAAAATGTAATTTTCAAAAAGTTTAAGGGTT
* *
10620324 AAATGTGATTTTTGAGAAGTTAGGGGTCAAAATGTAATTTTACGAAGTTCGATGGTTAAAATATA
1 AAATGTGATTTTGGAGAAGTTAGGGGTCAAAATGTAATTTTACGAAGTTCGAGGGTTAAAATATA
**
10620389 ATTTTTTAAAAGTTTAAGGGTTAAAATGTAATTTTCAAAAAGTTTAAGGGTT
66 ATTTTGGAAAAGTTTAAGGGTTAAAATGTAATTTTCAAAAAGTTTAAGGGTT
* * * * * * ** *
10620441 AAAATATAATTTTTGG-GATGTTTGAGAGTTAAAATGTAATTTTTGGGAAGTTCGGGGGTTAAAA
1 -AAATGTGA-TTTTGGAGAAGTTAG-GGGTCAAAATGTAA-TTTTACGAAGTTCGAGGGTTAAAA
* * * * *
10620505 TGTAATTTTTGAGAAGTTTAAGGGTTTAAAATATGATTTTCAA
62 TATAATTTTGGAAAAGTTTAAGGG-TTAAAATGTAATTTTCAA
10620548 GGAGAACAGG
Statistics
Matches: 187, Mismatches: 26, Indels: 18
0.81 0.11 0.08
Matches are distributed among these distances:
115 16 0.09
116 32 0.17
117 46 0.25
118 19 0.10
119 17 0.09
120 41 0.22
121 16 0.09
ACGTcount: A:0.36, C:0.03, G:0.23, T:0.38
Consensus pattern (117 bp):
AAATGTGATTTTGGAGAAGTTAGGGGTCAAAATGTAATTTTACGAAGTTCGAGGGTTAAAATATA
ATTTTGGAAAAGTTTAAGGGTTAAAATGTAATTTTCAAAAAGTTTAAGGGTT
Found at i:10620411 original size:30 final size:30
Alignment explanation
Indices: 10620266--10620536 Score: 239
Period size: 30 Copynumber: 9.2 Consensus size: 30
10620256 TTGGGGGTTA
* * *
10620266 AAAATGCAATTTTGGAAAAGTTTAA-GGTT
1 AAAATGTAATTTTTGAGAAGTTTAAGGGTT
* *
10620295 AAAATGTAA-TTTGGAAAAGTTTAA-GGTT
1 AAAATGTAATTTTTGAGAAGTTTAAGGGTT
* * * *
10620323 TAAATGTGATTTTTGAGAAG-TTAGGGGTC
1 AAAATGTAATTTTTGAGAAGTTTAAGGGTT
** *
10620352 AAAATGTAA-TTTT-ACGAAGTTCGATGGTT
1 AAAATGTAATTTTTGA-GAAGTTTAAGGGTT
* * *
10620381 AAAATATAATTTTTTAAAAGTTTAAGGGTT
1 AAAATGTAATTTTTGAGAAGTTTAAGGGTT
** *
10620411 AAAATGTAATTTTCAAAAAGTTTAAGGGTT
1 AAAATGTAATTTTTGAGAAGTTTAAGGGTT
* * * * *
10620441 AAAATATAATTTTTGGGATGTTTGAGAGTT
1 AAAATGTAATTTTTGAGAAGTTTAAGGGTT
* ***
10620471 AAAATGTAATTTTTGGGAAGTTCGGGGGTT
1 AAAATGTAATTTTTGAGAAGTTTAAGGGTT
10620501 AAAATGTAATTTTTGAGAAGTTTAAGGGTTT
1 AAAATGTAATTTTTGAGAAGTTTAAGGG-TT
10620532 AAAAT
1 AAAAT
10620537 ATGATTTTCA
Statistics
Matches: 196, Mismatches: 39, Indels: 12
0.79 0.16 0.05
Matches are distributed among these distances:
27 1 0.01
28 37 0.19
29 38 0.19
30 112 0.57
31 8 0.04
ACGTcount: A:0.37, C:0.02, G:0.22, T:0.38
Consensus pattern (30 bp):
AAAATGTAATTTTTGAGAAGTTTAAGGGTT
Found at i:10621619 original size:15 final size:15
Alignment explanation
Indices: 10621599--10621629 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
10621589 TCGTTCTTAA
10621599 AATTATATATTTATT
1 AATTATATATTTATT
*
10621614 AATTATGTATTTATT
1 AATTATATATTTATT
10621629 A
1 A
10621630 TACTTTGTAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.39, C:0.00, G:0.03, T:0.58
Consensus pattern (15 bp):
AATTATATATTTATT
Found at i:10621695 original size:2 final size:2
Alignment explanation
Indices: 10621688--10621734 Score: 76
Period size: 2 Copynumber: 23.5 Consensus size: 2
10621678 TTATGTATTA
* *
10621688 AT AT AT AT AT AT AT AT AT GT AT AT AT AT AT AT AT AT AT TT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
10621730 AT AT A
1 AT AT A
10621735 AATAAAAACA
Statistics
Matches: 41, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
2 41 1.00
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (2 bp):
AT
Found at i:10622807 original size:39 final size:39
Alignment explanation
Indices: 10622764--10622887 Score: 121
Period size: 39 Copynumber: 3.2 Consensus size: 39
10622754 CCCCTGGCTA
*
10622764 GGGGTAAGATATTGGCTAATGATGATCTGTCCT-AAGCTC
1 GGGGTAAGAGATTGGCTAATGATGATCTG-CCTAAAGCTC
* * * *
10622803 GGGGTAAAAGATTGG---ATGGATGCAATCTACCTCAAGCTT
1 GGGGTAAGAGATTGGCTAAT-GATG--ATCTGCCTAAAGCTC
*
10622842 GGGGTAAGAGATTGGCTAATGGTGATCTGCCTAAAGCTC
1 GGGGTAAGAGATTGGCTAATGATGATCTGCCTAAAGCTC
*
10622881 GCGGTAA
1 GGGGTAA
10622888 ATGATTGAAT
Statistics
Matches: 68, Mismatches: 10, Indels: 14
0.74 0.11 0.15
Matches are distributed among these distances:
36 2 0.03
37 4 0.06
38 3 0.04
39 54 0.79
41 3 0.04
42 2 0.03
ACGTcount: A:0.27, C:0.15, G:0.31, T:0.27
Consensus pattern (39 bp):
GGGGTAAGAGATTGGCTAATGATGATCTGCCTAAAGCTC
Found at i:10622830 original size:78 final size:78
Alignment explanation
Indices: 10622735--10622899 Score: 224
Period size: 78 Copynumber: 2.1 Consensus size: 78
10622725 TTTTTTTTAA
* ** *
10622735 ATTGGATGGTTGCAATCTACCCCTGGCTAGGGGTAAGATATTGGCTAATGATGATCTGTCCT-AA
1 ATTGGATGGATGCAATCTACCCCAAGCTAGGGGTAAGAGATTGGCTAATGATGATCTG-CCTAAA
*
10622799 GCTCGGGGTAAAAG
65 GCTCGCGGTAAAAG
* * *
10622813 ATTGGATGGATGCAATCTACCTCAAGCTTGGGGTAAGAGATTGGCTAATGGTGATCTGCCTAAAG
1 ATTGGATGGATGCAATCTACCCCAAGCTAGGGGTAAGAGATTGGCTAATGATGATCTGCCTAAAG
*
10622878 CTCGCGGTAAATG
66 CTCGCGGTAAAAG
*
10622891 ATTGAATGG
1 ATTGGATGG
10622900 CTGTAATTTG
Statistics
Matches: 76, Mismatches: 10, Indels: 2
0.86 0.11 0.02
Matches are distributed among these distances:
77 3 0.04
78 73 0.96
ACGTcount: A:0.27, C:0.16, G:0.30, T:0.28
Consensus pattern (78 bp):
ATTGGATGGATGCAATCTACCCCAAGCTAGGGGTAAGAGATTGGCTAATGATGATCTGCCTAAAG
CTCGCGGTAAAAG
Found at i:10622920 original size:39 final size:39
Alignment explanation
Indices: 10622877--10622989 Score: 115
Period size: 39 Copynumber: 2.9 Consensus size: 39
10622867 TCTGCCTAAA
* * * * *
10622877 GCTCGCGGTAAATGATTGAATGGCTGT-AATTTGTCCCAG
1 GCTCGAGGTAAAAGATCGAATGGCT-TCAATCTGCCCCAG
10622916 GCTCGAGGTAAAAGATCGAATGGCTTCAATCTGCCCCAG
1 GCTCGAGGTAAAAGATCGAATGGCTTCAATCTGCCCCAG
* * *
10622955 GCTGGGGGTAAGAGATCAGAAT--CTTCAATCTGCCC
1 GCTCGAGGTAAAAGATC-GAATGGCTTCAATCTGCCC
10622990 TTCTTGATTA
Statistics
Matches: 64, Mismatches: 8, Indels: 5
0.83 0.10 0.06
Matches are distributed among these distances:
38 14 0.22
39 46 0.72
40 4 0.06
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (39 bp):
GCTCGAGGTAAAAGATCGAATGGCTTCAATCTGCCCCAG
Found at i:10632204 original size:29 final size:29
Alignment explanation
Indices: 10632154--10632523 Score: 183
Period size: 30 Copynumber: 12.5 Consensus size: 29
10632144 ATTCGAGATG
* * *
10632154 AAAACGTAATTTTTGAGGAA-TTTGGGGTC
1 AAAATGTAATTTTT-AGAAAGTTTGGGGTT
* *
10632183 AAAATGTAATTTTTAGAAAATTTGGGATT
1 AAAATGTAATTTTTAGAAAGTTTGGGGTT
* * * * *
10632212 ACAAT-TGAACTTTTGGAAAATTTGGGGTCG
1 AAAATGT-AATTTTTAGAAAGTTTGGGGT-T
* * * *
10632242 AAAATGTGACTTTTGGAAA-TTTAGGGG-C
1 AAAATGTAATTTTTAGAAAGTTT-GGGGTT
* *
10632270 AAAATGGTAATTTTGGTTG--AGTTTGAGGGTCA
1 AAAAT-GTAATTTT--TAGAAAGTTTG-GGGT-T
* * *
10632302 AAAATGCAA-TTTTGGAAAAGTTTAGGG-T
1 AAAATGTAATTTTTAG-AAAGTTTGGGGTT
10632330 AAAATGTAATTTTATA-AAAGTTTAGGGGTT
1 AAAATGTAATTTT-TAGAAAGTTT-GGGGTT
* *
10632360 AAAATGTGATTTTT-GATAAGTTTAGGG-T
1 AAAATGTAATTTTTAGA-AAGTTTGGGGTT
*
10632388 AATAATGTAATTTTTATG-AAGTTTAAGGGTT
1 AA-AATGTAATTTTTA-GAAAGTTT-GGGGTT
* *
10632419 AAAATATAATTTTT-GAGAAGTTTAAGGGTT
1 AAAATGTAATTTTTAGA-AAGTTT-GGGGTT
* *
10632449 AAAATGTAATTTTTAGGAAGTTTATGGGTT
1 AAAATGTAATTTTTAGAAAGTTT-GGGGTT
* *
10632479 AAAATGTGATTTTT-GAGAAGTTTGAGGATT
1 AAAATGTAATTTTTAGA-AAGTTTG-GGGTT
* *
10632509 AAAATTTGATTTTTA
1 AAAATGTAATTTTTA
10632524 AGCAGAATAA
Statistics
Matches: 274, Mismatches: 35, Indels: 62
0.74 0.09 0.17
Matches are distributed among these distances:
28 31 0.11
29 82 0.30
30 140 0.51
31 16 0.06
32 5 0.02
ACGTcount: A:0.35, C:0.02, G:0.24, T:0.39
Consensus pattern (29 bp):
AAAATGTAATTTTTAGAAAGTTTGGGGTT
Found at i:10632256 original size:30 final size:29
Alignment explanation
Indices: 10632172--10632275 Score: 106
Period size: 29 Copynumber: 3.6 Consensus size: 29
10632162 ATTTTTGAGG
* * *
10632172 AATTTGGGGTCAAAATGTAATTTTTAGAA
1 AATTTGGGGTCAAAATGTGACTTTTGGAA
* * *
10632201 AATTTGGGATTACAAT-TGAACTTTTGGAA
1 AATTTGGGGTCAAAATGTG-ACTTTTGGAA
10632230 AATTTGGGGTCGAAAATGTGACTTTTGG-A
1 AATTTGGGGTC-AAAATGTGACTTTTGGAA
10632259 AATTTAGGGG-CAAAATG
1 AATTT-GGGGTCAAAATG
10632276 GTAATTTTGG
Statistics
Matches: 62, Mismatches: 9, Indels: 9
0.77 0.11 0.11
Matches are distributed among these distances:
28 7 0.11
29 37 0.60
30 16 0.26
31 2 0.03
ACGTcount: A:0.35, C:0.06, G:0.25, T:0.35
Consensus pattern (29 bp):
AATTTGGGGTCAAAATGTGACTTTTGGAA
Found at i:10632342 original size:59 final size:55
Alignment explanation
Indices: 10632252--10632484 Score: 168
Period size: 59 Copynumber: 4.0 Consensus size: 55
10632242 AAAATGTGAC
*
10632252 TTTTGG-AAA-TTTAGGGGCAAAATGGTAATTTTGGT-TGAGTTTGAGGGTCAAAAATGCAA
1 TTTTGGAAAAGTTTA-GGGTAAAAT-GTAATTTT--TATGAGTTT-AGGGT-AAAAATG-AA
** * *
10632311 TTTTGGAAAAGTTTAGGGTAAAATGTAATTTTATAAAAGTTTAGGGGTTAAAATGTGA
1 TTTTGGAAAAGTTTAGGGTAAAATGTAATTTT-TATGAGTTTA-GGGTAAAAATG-AA
* *
10632369 TTTTTGATAAGTTTAGGGTAATAATGTAATTTTTATGAAGTTTAAGGGTTAAAATAT-AA
1 TTTTGGAAAAGTTTAGGGTAA-AATGTAATTTTTATG-AGTTT-AGGG-TAAAA-ATGAA
* * * *
10632428 TTTTTGAGAAGTTTAAGGGTTAAAATGTAATTTTTAGGAAGTTTATGGGTTAAAATG
1 TTTTGGAAAAGTTT-AGGG-TAAAATGTAATTTTTATG-AGTTTA-GGGTAAAAATG
10632485 TGATTTTTGA
Statistics
Matches: 145, Mismatches: 16, Indels: 26
0.78 0.09 0.14
Matches are distributed among these distances:
58 32 0.22
59 61 0.42
60 43 0.30
61 9 0.06
ACGTcount: A:0.35, C:0.01, G:0.24, T:0.39
Consensus pattern (55 bp):
TTTTGGAAAAGTTTAGGGTAAAATGTAATTTTTATGAGTTTAGGGTAAAAATGAA
Found at i:10632365 original size:30 final size:28
Alignment explanation
Indices: 10632319--10632523 Score: 216
Period size: 30 Copynumber: 7.0 Consensus size: 28
10632309 AATTTTGGAA
*
10632319 AAGTTTAGGG-TAAAATGTAATTTTATAA
1 AAGTTTAGGGTTAAAATGTAATTTT-TAG
* *
10632347 AAGTTTAGGGGTTAAAATGTGATTTTTGAT
1 AAGTTTA-GGGTTAAAATGTAATTTTT-AG
10632377 AAGTTTAGGG-TAATAATGTAATTTTTATG
1 AAGTTTAGGGTTAA-AATGTAATTTTTA-G
*
10632406 AAGTTTAAGGGTTAAAATATAATTTTTGAG
1 AAGTTT-AGGGTTAAAATGTAATTTTT-AG
10632436 AAGTTTAAGGGTTAAAATGTAATTTTTAGG
1 AAGTTT-AGGGTTAAAATGTAATTTTTA-G
*
10632466 AAGTTTATGGGTTAAAATGTGATTTTTGAG
1 AAGTTTA-GGGTTAAAATGTAATTTTT-AG
* * *
10632496 AAGTTTGAGGATTAAAATTTGATTTTTA
1 AAGTTT-AGGGTTAAAATGTAATTTTTA
10632524 AGCAGAATAA
Statistics
Matches: 156, Mismatches: 9, Indels: 23
0.83 0.05 0.12
Matches are distributed among these distances:
28 11 0.07
29 27 0.17
30 112 0.72
31 6 0.04
ACGTcount: A:0.36, C:0.00, G:0.22, T:0.42
Consensus pattern (28 bp):
AAGTTTAGGGTTAAAATGTAATTTTTAG
Found at i:10632382 original size:89 final size:89
Alignment explanation
Indices: 10632270--10632484 Score: 215
Period size: 89 Copynumber: 2.4 Consensus size: 89
10632260 ATTTAGGGGC
* * *
10632270 AAAATGGTAATTTTGGTTGAGTTTGAGGGTCAAAAATGCAATTTTGGA-AAAGTTT-AGGG-TAA
1 AAAAT-GTAATTTTTGATAAGTTT-AGGGT-AAAAATGCAATTTT-GATAAAGTTTAAGGGTTAA
* *
10632332 AATGTAATTTTAT-AAAAGTTTAGGGGTT
62 AATATAATTTT-TGAAAAGTTTAAGGGTT
* * * * *
10632360 AAAATGTGATTTTTGATAAGTTTAGGGTAATAATGTAATTTTTATGAAGTTTAAGGGTTAAAATA
1 AAAATGTAATTTTTGATAAGTTTAGGGTAAAAATGCAATTTTGATAAAGTTTAAGGGTTAAAATA
*
10632425 TAATTTTTGAGAAGTTTAAGGGTT
66 TAATTTTTGAAAAGTTTAAGGGTT
* *
10632449 AAAATGTAATTTTT-AGGAAGTTTATGGGTTAAAATG
1 AAAATGTAATTTTTGA-TAAGTTTA-GGGTAAAAATG
10632485 TGATTTTTGA
Statistics
Matches: 104, Mismatches: 15, Indels: 12
0.79 0.11 0.09
Matches are distributed among these distances:
86 1 0.01
87 18 0.17
88 11 0.11
89 60 0.58
90 14 0.13
ACGTcount: A:0.36, C:0.01, G:0.23, T:0.40
Consensus pattern (89 bp):
AAAATGTAATTTTTGATAAGTTTAGGGTAAAAATGCAATTTTGATAAAGTTTAAGGGTTAAAATA
TAATTTTTGAAAAGTTTAAGGGTT
Found at i:10632458 original size:60 final size:58
Alignment explanation
Indices: 10632242--10632501 Score: 258
Period size: 60 Copynumber: 4.4 Consensus size: 58
10632232 TTTGGGGTCG
* * * * * *
10632242 AAAATGTGACTTTTG-GAAATTTAGGGGCAAAATGGTAATTTTGGT-TG-AGTTTGAGGGTCA
1 AAAATGTAATTTTTGAGAAGTTTA-GGGTAAAAT-GTAATTTT--TATGAAGTTTAAGGGT-T
* * * * *
10632302 AAAATGCAATTTTGGAAAAGTTTAGGGTAAAATGTAA-TTTTATAAAAGTTTAGGGGTT
1 AAAATGTAATTTTTGAGAAGTTTAGGGTAAAATGTAATTTTTAT-GAAGTTTAAGGGTT
* *
10632360 AAAATGTGATTTTTGATAAGTTTAGGGTAATAATGTAATTTTTATGAAGTTTAAGGGTT
1 AAAATGTAATTTTTGAGAAGTTTAGGGTAA-AATGTAATTTTTATGAAGTTTAAGGGTT
* * *
10632419 AAAATATAATTTTTGAGAAGTTTAAGGGTTAAAATGTAATTTTTAGGAAGTTTATGGGTT
1 AAAATGTAATTTTTGAGAAGTTT-AGGG-TAAAATGTAATTTTTATGAAGTTTAAGGGTT
*
10632479 AAAATGTGATTTTTGAGAAGTTT
1 AAAATGTAATTTTTGAGAAGTTT
10632502 GAGGATTAAA
Statistics
Matches: 168, Mismatches: 24, Indels: 16
0.81 0.12 0.08
Matches are distributed among these distances:
56 1 0.01
57 1 0.01
58 29 0.17
59 52 0.31
60 76 0.45
61 9 0.05
ACGTcount: A:0.35, C:0.02, G:0.24, T:0.40
Consensus pattern (58 bp):
AAAATGTAATTTTTGAGAAGTTTAGGGTAAAATGTAATTTTTATGAAGTTTAAGGGTT
Found at i:10632511 original size:60 final size:57
Alignment explanation
Indices: 10632310--10632523 Score: 248
Period size: 60 Copynumber: 3.6 Consensus size: 57
10632300 CAAAAATGCA
* * * * *
10632310 ATTTTGGAAAAGTTTAGGGTAAAATGTAATTTTATAAAAGTTTAGGGGTTAAAATGTG
1 ATTTTTGAGAAGTTTAGGTTAAAATGTAATTTT-TAGAAGTTTAAGGGTTAAAATGTG
* * * *
10632368 ATTTTTGATAAGTTTAGGGTAATAATGTAATTTTTATGAAGTTTAAGGGTTAAAATATA
1 ATTTTTGAGAAGTTTAGGTTAA-AATGTAATTTTTA-GAAGTTTAAGGGTTAAAATGTG
*
10632427 ATTTTTGAGAAGTTTAAGGGTTAAAATGTAATTTTTAGGAAGTTTATGGGTTAAAATGTG
1 ATTTTTGAGAAGTTT-A-GGTTAAAATGTAATTTTTA-GAAGTTTAAGGGTTAAAATGTG
* *
10632487 ATTTTTGAGAAGTTTGAGGATTAAAATTTGATTTTTA
1 ATTTTTGAGAAGTTT-AGG-TTAAAATGTAATTTTTA
10632524 AGCAGAATAA
Statistics
Matches: 136, Mismatches: 15, Indels: 8
0.86 0.09 0.05
Matches are distributed among these distances:
58 22 0.16
59 45 0.33
60 64 0.47
61 5 0.04
ACGTcount: A:0.36, C:0.00, G:0.22, T:0.43
Consensus pattern (57 bp):
ATTTTTGAGAAGTTTAGGTTAAAATGTAATTTTTAGAAGTTTAAGGGTTAAAATGTG
Found at i:10633592 original size:15 final size:15
Alignment explanation
Indices: 10633572--10633602 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
10633562 TCTTATTTAA
10633572 AATTATATATTTATT
1 AATTATATATTTATT
*
10633587 AATTATGTATTTATT
1 AATTATATATTTATT
10633602 A
1 A
10633603 TACTTTGAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.39, C:0.00, G:0.03, T:0.58
Consensus pattern (15 bp):
AATTATATATTTATT
Found at i:10633938 original size:17 final size:18
Alignment explanation
Indices: 10633910--10633943 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
10633900 GTAAAAAAAT
*
10633910 TTAAACTTAAAATATAAA
1 TTAAACTTAAAAAATAAA
10633928 TTAAA-TTAAAAAATAA
1 TTAAACTTAAAAAATAA
10633944 TATAATTTTT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 10 0.67
18 5 0.33
ACGTcount: A:0.65, C:0.03, G:0.00, T:0.32
Consensus pattern (18 bp):
TTAAACTTAAAAAATAAA
Found at i:10634327 original size:44 final size:45
Alignment explanation
Indices: 10634277--10634376 Score: 125
Period size: 45 Copynumber: 2.3 Consensus size: 45
10634267 TTTTGGGATT
* *
10634277 TTTAGGG-TTGTT-GGGTTTGGGGAATTTGGTTTAGGTTTAAGAAA
1 TTTAGGGATT-TTGGGGTTTGGAGAATTTGGTTTAAGTTTAAGAAA
* *
10634321 TTTAGGGATTTTGGGGTTTGGAGATTTTGGTTTAAGTTTAA-AAC
1 TTTAGGGATTTTGGGGTTTGGAGAATTTGGTTTAAGTTTAAGAAA
*
10634365 TTTGGGGATTTT
1 TTTAGGGATTTT
10634377 CGGGACTTAG
Statistics
Matches: 49, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
44 22 0.45
45 27 0.55
ACGTcount: A:0.20, C:0.01, G:0.33, T:0.46
Consensus pattern (45 bp):
TTTAGGGATTTTGGGGTTTGGAGAATTTGGTTTAAGTTTAAGAAA
Found at i:10636145 original size:54 final size:54
Alignment explanation
Indices: 10636084--10636237 Score: 159
Period size: 63 Copynumber: 2.7 Consensus size: 54
10636074 TGGCAGTAAG
*
10636084 GGTGGTGAGGGTTCGAGTAAGGGTGCTGTTAGTGAAGGTGTTGAGGGTGAGGGA
1 GGTGGTGAGGGTTCGAGTAAGGGTGCTGTTAGTGAAGGTGTTGAGGGTGAAGGA
10636138 GGTGGTGAGGG-T-GAGGTAAGGGGTGCTGTTAGTAAAGGTGTTGAAGGTGTTGAGGGTGAAGGA
1 GGTGGTGAGGGTTCGA-GTAA-GGGTGCTG-T--T--A---G-TGAAGGTGTTGAGGGTGAAGGA
* * *
10636201 GGTGGTGAGGGTTCGGGTAAAGGTGTTGTTAGTGAAG
1 GGTGGTGAGGGTTCGAGTAAGGGTGCTGTTAGTGAAG
10636238 ATGATATTTA
Statistics
Matches: 83, Mismatches: 4, Indels: 26
0.73 0.04 0.23
Matches are distributed among these distances:
52 2 0.02
53 5 0.06
54 24 0.29
55 2 0.02
57 1 0.01
58 1 0.01
59 1 0.01
60 1 0.01
62 2 0.02
63 38 0.46
64 5 0.06
65 1 0.01
ACGTcount: A:0.20, C:0.03, G:0.51, T:0.27
Consensus pattern (54 bp):
GGTGGTGAGGGTTCGAGTAAGGGTGCTGTTAGTGAAGGTGTTGAGGGTGAAGGA
Found at i:10636146 original size:18 final size:18
Alignment explanation
Indices: 10636119--10636153 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
10636109 CTGTTAGTGA
*
10636119 AGGTGTTGAGGGTGAGGG
1 AGGTGGTGAGGGTGAGGG
10636137 AGGTGGTGAGGGTGAGG
1 AGGTGGTGAGGGTGAGG
10636154 TAAGGGGTGC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.17, C:0.00, G:0.63, T:0.20
Consensus pattern (18 bp):
AGGTGGTGAGGGTGAGGG
Found at i:10636162 original size:18 final size:18
Alignment explanation
Indices: 10636117--10636162 Score: 58
Period size: 18 Copynumber: 2.6 Consensus size: 18
10636107 TGCTGTTAGT
*
10636117 GAAGGTGTTGAGGGTGAG
1 GAAGGTGGTGAGGGTGAG
*
10636135 GGAGGTGGTGAGGGTGAG
1 GAAGGTGGTGAGGGTGAG
10636153 GTAAGG-GGTG
1 G-AAGGTGGTG
10636163 CTGTTAGTAA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
18 21 0.88
19 3 0.12
ACGTcount: A:0.20, C:0.00, G:0.61, T:0.20
Consensus pattern (18 bp):
GAAGGTGGTGAGGGTGAG
Found at i:10638079 original size:36 final size:32
Alignment explanation
Indices: 10638032--10638111 Score: 106
Period size: 32 Copynumber: 2.4 Consensus size: 32
10638022 TAGTGTTCTA
10638032 TTTTAATTTAAAATTGACAACAGATGTACTTATGTT
1 TTTTAATTTAAAATTGACAAC--A--TACTTATGTT
* *
10638068 TTTTAATTTAAAATTGGCAGCATACTTATGTT
1 TTTTAATTTAAAATTGACAACATACTTATGTT
10638100 TTTTAATTTAAA
1 TTTTAATTTAAA
10638112 TTGCAAGGTC
Statistics
Matches: 42, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
32 22 0.52
34 1 0.02
36 19 0.45
ACGTcount: A:0.35, C:0.07, G:0.10, T:0.47
Consensus pattern (32 bp):
TTTTAATTTAAAATTGACAACATACTTATGTT
Found at i:10640411 original size:44 final size:45
Alignment explanation
Indices: 10640361--10640448 Score: 124
Period size: 45 Copynumber: 2.0 Consensus size: 45
10640351 CTAAGTCCCG
* * *
10640361 AAAATCCCCAAATTT-TTAAACTTAAACCAAAATCTCCAAACCCT
1 AAAATCCCCAAATTTCCTAAACCTAAACCAAAATCCCCAAACCCT
* *
10640405 AAAATCCCTAAATTTCCTAAACCTAAACCAAATTCCCCAAACCC
1 AAAATCCCCAAATTTCCTAAACCTAAACCAAAATCCCCAAACCC
10640449 AACAATTTTA
Statistics
Matches: 38, Mismatches: 5, Indels: 1
0.86 0.11 0.02
Matches are distributed among these distances:
44 14 0.37
45 24 0.63
ACGTcount: A:0.44, C:0.33, G:0.00, T:0.23
Consensus pattern (45 bp):
AAAATCCCCAAATTTCCTAAACCTAAACCAAAATCCCCAAACCCT
Found at i:10640517 original size:32 final size:32
Alignment explanation
Indices: 10640460--10640526 Score: 89
Period size: 32 Copynumber: 2.1 Consensus size: 32
10640450 ACAATTTTAA
* * *
10640460 AAATCCCGAAAATCCCTAAATTTTTGAAACCT
1 AAATCCCCAAAATCCCAAAAATTTTGAAACCT
* *
10640492 AAATCCCCAAATTCCCAAAAATTTTGAAATCT
1 AAATCCCCAAAATCCCAAAAATTTTGAAACCT
10640524 AAA
1 AAA
10640527 ACCTAAAAAA
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.45, C:0.24, G:0.04, T:0.27
Consensus pattern (32 bp):
AAATCCCCAAAATCCCAAAAATTTTGAAACCT
Found at i:10648568 original size:40 final size:40
Alignment explanation
Indices: 10648513--10648593 Score: 162
Period size: 40 Copynumber: 2.0 Consensus size: 40
10648503 CGTAATCAAC
10648513 TCTTCCTCATCATCATTGTAATCTTCATCCTTCTTACTAG
1 TCTTCCTCATCATCATTGTAATCTTCATCCTTCTTACTAG
10648553 TCTTCCTCATCATCATTGTAATCTTCATCCTTCTTACTAG
1 TCTTCCTCATCATCATTGTAATCTTCATCCTTCTTACTAG
10648593 T
1 T
10648594 TATCGATTTG
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 41 1.00
ACGTcount: A:0.20, C:0.30, G:0.05, T:0.46
Consensus pattern (40 bp):
TCTTCCTCATCATCATTGTAATCTTCATCCTTCTTACTAG
Done.