Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167871.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_14, whole genome shotgun sequence
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: 22631831
ACGTcount: A:0.34, C:0.15, G:0.15, T:0.34
Warning! 114000 characters in sequence are not A, C, G, or T
File 30 of 125
Found at i:5885368 original size:20 final size:21
Alignment explanation
Indices: 5885343--5885382 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
5885333 TTATGGTGAA
*
5885343 CATTTT-TCTAGGCACTTGTG
1 CATTTTATATAGGCACTTGTG
*
5885363 CATTTTATATAGGCATTTGT
1 CATTTTATATAGGCACTTGT
5885383 ATAGCAGATA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 6 0.35
21 11 0.65
ACGTcount: A:0.20, C:0.15, G:0.17, T:0.47
Consensus pattern (21 bp):
CATTTTATATAGGCACTTGTG
Found at i:5886355 original size:21 final size:21
Alignment explanation
Indices: 5886331--5886372 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
5886321 AATTTTCATA
5886331 TATTATGTGTAATAA-ATAATT
1 TATT-TGTGTAATAATATAATT
* *
5886352 TATTTTTTTAATAATATAATT
1 TATTTGTGTAATAATATAATT
5886373 ATATAATATG
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
20 8 0.44
21 10 0.56
ACGTcount: A:0.40, C:0.00, G:0.05, T:0.55
Consensus pattern (21 bp):
TATTTGTGTAATAATATAATT
Found at i:5886679 original size:84 final size:85
Alignment explanation
Indices: 5886585--5886752 Score: 266
Period size: 85 Copynumber: 2.0 Consensus size: 85
5886575 GATGCCTACG
*
5886585 TGCTAGCTTTCTGAATAAGGGATATCCACATAATAAATTTT-TTTTATTTATATAAATTTGACTA
1 TGCTAACTTTCTGAATAAGGGATATCCACATAATAAATTTTATTTTATTTATATAAATTTGACTA
*
5886649 AAATATAGTTTTATGTTTGT
66 AAATATAGTTTTATATTTGT
* * *
5886669 TGCTAACTTTCTGTATGAGGGATATCCATATAATAAATTTTATTTTATTTATATAAATTTGACTA
1 TGCTAACTTTCTGAATAAGGGATATCCACATAATAAATTTTATTTTATTTATATAAATTTGACTA
* *
5886734 CAATATGGTTTTATATTTG
66 AAATATAGTTTTATATTTG
5886753 CTTCTATGGA
Statistics
Matches: 76, Mismatches: 7, Indels: 1
0.90 0.08 0.01
Matches are distributed among these distances:
84 37 0.49
85 39 0.51
ACGTcount: A:0.33, C:0.08, G:0.12, T:0.47
Consensus pattern (85 bp):
TGCTAACTTTCTGAATAAGGGATATCCACATAATAAATTTTATTTTATTTATATAAATTTGACTA
AAATATAGTTTTATATTTGT
Found at i:5889115 original size:24 final size:24
Alignment explanation
Indices: 5889070--5889116 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
5889060 AAATTGAATA
**
5889070 TAAAATTTGTTGAATATTATTTTT
1 TAAAATTTGTTGAATACGATTTTT
5889094 TAAAA-TTGATTGAATACGATTTT
1 TAAAATTTG-TTGAATACGATTTT
5889117 GAAATCTATC
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 3 0.15
24 17 0.85
ACGTcount: A:0.36, C:0.02, G:0.11, T:0.51
Consensus pattern (24 bp):
TAAAATTTGTTGAATACGATTTTT
Found at i:5916517 original size:13 final size:13
Alignment explanation
Indices: 5916490--5916539 Score: 57
Period size: 16 Copynumber: 3.7 Consensus size: 13
5916480 TTTAAATATG
5916490 ATAATTTAA-AAT
1 ATAATTTAATAAT
5916502 ATAATTTAATAAT
1 ATAATTTAATAAT
*
5916515 ATAATATAAAAATAAT
1 ATAAT-T--TAATAAT
5916531 ATAATTTAA
1 ATAATTTAA
5916540 AATTATATTA
Statistics
Matches: 32, Mismatches: 2, Indels: 7
0.78 0.05 0.17
Matches are distributed among these distances:
12 9 0.28
13 10 0.31
14 1 0.03
15 1 0.03
16 11 0.34
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (13 bp):
ATAATTTAATAAT
Found at i:5916546 original size:13 final size:13
Alignment explanation
Indices: 5916480--5916558 Score: 58
Period size: 12 Copynumber: 5.9 Consensus size: 13
5916470 CAAGTAATTG
*
5916480 TTTAAATATGATAA
1 TTTAAA-ATTATAA
5916494 TTTAAAA-TATAA
1 TTTAAAATTATAA
5916506 TTTAATAA-TATAA
1 TTTAA-AATTATAA
*
5916519 TATAAAAATAATATAA
1 T-TTAAAAT--TATAA
5916535 TTTAAAATTAT-A
1 TTTAAAATTATAA
5916547 -TTAATAATTATA
1 TTTAA-AATTATA
5916559 TATAAATTTA
Statistics
Matches: 55, Mismatches: 3, Indels: 15
0.75 0.04 0.21
Matches are distributed among these distances:
11 4 0.07
12 16 0.29
13 14 0.25
14 9 0.16
15 6 0.11
16 6 0.11
ACGTcount: A:0.56, C:0.00, G:0.01, T:0.43
Consensus pattern (13 bp):
TTTAAAATTATAA
Found at i:5917695 original size:13 final size:12
Alignment explanation
Indices: 5917670--5917712 Score: 61
Period size: 13 Copynumber: 3.6 Consensus size: 12
5917660 ATTTCATTTG
*
5917670 ATAATTTAAAAT
1 ATAATATAAAAT
5917682 ATAATATAATAAT
1 ATAATATAA-AAT
5917695 ATAATATAAAA-
1 ATAATATAAAAT
5917706 ATAATAT
1 ATAATAT
5917713 GATTTTATAT
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
11 7 0.24
12 10 0.34
13 12 0.41
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (12 bp):
ATAATATAAAAT
Found at i:5932533 original size:22 final size:23
Alignment explanation
Indices: 5932501--5932547 Score: 60
Period size: 23 Copynumber: 2.1 Consensus size: 23
5932491 ACTTTCGGAA
**
5932501 TTAATTAATT-ATTAAATTAACT
1 TTAATTAATTAACAAAATTAACT
*
5932523 TTAATTGATTAACAAAATTAACT
1 TTAATTAATTAACAAAATTAACT
5932546 TT
1 TT
5932548 TAAAAAATTT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
22 9 0.43
23 12 0.57
ACGTcount: A:0.45, C:0.06, G:0.02, T:0.47
Consensus pattern (23 bp):
TTAATTAATTAACAAAATTAACT
Found at i:5936699 original size:24 final size:22
Alignment explanation
Indices: 5936672--5936716 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
5936662 ATTTTTAATC
*
5936672 ATATCATTATTATATTTTATATTT
1 ATATCA-TATT-TATATTATATTT
5936696 ATATCATATTTATATTATATT
1 ATATCATATTTATATTATATT
5936717 ACTGTTTTAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
22 10 0.50
23 4 0.20
24 6 0.30
ACGTcount: A:0.36, C:0.04, G:0.00, T:0.60
Consensus pattern (22 bp):
ATATCATATTTATATTATATTT
Found at i:5936704 original size:18 final size:18
Alignment explanation
Indices: 5936683--5936729 Score: 53
Period size: 18 Copynumber: 2.7 Consensus size: 18
5936673 TATCATTATT
5936683 ATATTTTATATTTATATC
1 ATATTTTATATTTATATC
*
5936701 ATA-TTTATA-TTATATT
1 ATATTTTATATTTATATC
*
5936717 ACTGTTTTATATT
1 A-TATTTTATATT
5936730 GAATCACCCT
Statistics
Matches: 24, Mismatches: 2, Indels: 5
0.77 0.06 0.16
Matches are distributed among these distances:
16 7 0.29
17 7 0.29
18 9 0.38
19 1 0.04
ACGTcount: A:0.32, C:0.04, G:0.02, T:0.62
Consensus pattern (18 bp):
ATATTTTATATTTATATC
Found at i:5938443 original size:18 final size:18
Alignment explanation
Indices: 5938422--5938456 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
5938412 TAATATTTAT
* *
5938422 AAAATTAATAGATTATTA
1 AAAAGTAATAAATTATTA
5938440 AAAAGTAATAAATTATT
1 AAAAGTAATAAATTATT
5938457 TTTAAATAAA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.57, C:0.00, G:0.06, T:0.37
Consensus pattern (18 bp):
AAAAGTAATAAATTATTA
Found at i:5938549 original size:25 final size:25
Alignment explanation
Indices: 5938515--5938572 Score: 89
Period size: 25 Copynumber: 2.3 Consensus size: 25
5938505 ATGTAAAAAT
* *
5938515 TAATAAAATAATTATTATCTTAAAC
1 TAATAAAATAATTATAATATTAAAC
*
5938540 TAATAAAATAATTATAATATTAAAT
1 TAATAAAATAATTATAATATTAAAC
5938565 TAATAAAA
1 TAATAAAA
5938573 ACAAAGGTTA
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 30 1.00
ACGTcount: A:0.59, C:0.03, G:0.00, T:0.38
Consensus pattern (25 bp):
TAATAAAATAATTATAATATTAAAC
Found at i:5940181 original size:23 final size:22
Alignment explanation
Indices: 5940155--5940207 Score: 61
Period size: 23 Copynumber: 2.3 Consensus size: 22
5940145 TCTAAGTGGG
*
5940155 TAAAAATTTATGTAAAATGTTTT
1 TAAAAATTT-TGTAAAATATTTT
* *
5940178 TAAAAAAGTTTGTGAAATATTTT
1 T-AAAAATTTTGTAAAATATTTT
5940201 TAAAAAT
1 TAAAAAT
5940208 AATTTATTAA
Statistics
Matches: 25, Mismatches: 4, Indels: 3
0.78 0.12 0.09
Matches are distributed among these distances:
22 5 0.20
23 13 0.52
24 7 0.28
ACGTcount: A:0.47, C:0.00, G:0.09, T:0.43
Consensus pattern (22 bp):
TAAAAATTTTGTAAAATATTTT
Found at i:5940234 original size:12 final size:12
Alignment explanation
Indices: 5940200--5940237 Score: 58
Period size: 12 Copynumber: 3.0 Consensus size: 12
5940190 TGAAATATTT
5940200 TTAAAAATAATTTA
1 TTAAAAAT--TTTA
5940214 TTAAAAATTTTA
1 TTAAAAATTTTA
5940226 TTAAAAATTTTA
1 TTAAAAATTTTA
5940238 AAGTAATGAT
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
12 16 0.67
14 8 0.33
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (12 bp):
TTAAAAATTTTA
Found at i:5940359 original size:25 final size:29
Alignment explanation
Indices: 5940289--5940359 Score: 71
Period size: 25 Copynumber: 2.5 Consensus size: 29
5940279 AAATAAAATT
*
5940289 ATTAAAAATATATTTAATCAATATTTATTTA
1 ATTATAAA-ATATTT-ATCAATATTTATTTA
5940320 ATTATAAAA-ATTTTATCAATA-TT-TTT-
1 ATTATAAAATA-TTTATCAATATTTATTTA
5940346 ATT-TAAAATATTTA
1 ATTATAAAATATTTA
5940360 GGATATATCT
Statistics
Matches: 37, Mismatches: 1, Indels: 10
0.77 0.02 0.21
Matches are distributed among these distances:
25 9 0.24
26 4 0.11
27 3 0.08
28 2 0.05
29 8 0.22
30 4 0.11
31 7 0.19
ACGTcount: A:0.46, C:0.03, G:0.00, T:0.51
Consensus pattern (29 bp):
ATTATAAAATATTTATCAATATTTATTTA
Found at i:5940439 original size:27 final size:29
Alignment explanation
Indices: 5940391--5940449 Score: 68
Period size: 28 Copynumber: 2.1 Consensus size: 29
5940381 AGTTTTAAAA
**
5940391 TTTTAATCATTTAATTTGTAA-TAATTAT
1 TTTTAATCATTTAATTACTAATTAATTAT
* *
5940419 TTTTAATTA-TTAATTACTAATTATTTAT
1 TTTTAATCATTTAATTACTAATTAATTAT
5940447 TTT
1 TTT
5940450 AGTGACGAGT
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
27 9 0.35
28 17 0.65
ACGTcount: A:0.34, C:0.03, G:0.02, T:0.61
Consensus pattern (29 bp):
TTTTAATCATTTAATTACTAATTAATTAT
Found at i:5947180 original size:2 final size:2
Alignment explanation
Indices: 5947173--5947206 Score: 59
Period size: 2 Copynumber: 17.0 Consensus size: 2
5947163 TCAAAAGCAT
*
5947173 TA TA TA TA TA TA TA TA TA TA TA TA TA TA AA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
5947207 AAAGCACCAC
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (2 bp):
TA
Found at i:5948383 original size:2 final size:2
Alignment explanation
Indices: 5948376--5948409 Score: 50
Period size: 2 Copynumber: 17.0 Consensus size: 2
5948366 GTCTAACTCT
* *
5948376 TA TA TA TA AA TA AA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
5948410 AAAGAACTCG
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (2 bp):
TA
Found at i:5950617 original size:11 final size:11
Alignment explanation
Indices: 5950592--5950637 Score: 53
Period size: 13 Copynumber: 4.3 Consensus size: 11
5950582 ATTTATTAAT
5950592 TTTTAAT-TT-
1 TTTTAATATTA
5950601 TTTTAATATTA
1 TTTTAATATTA
5950612 TTTTAATATAATA
1 TTTTAATAT--TA
5950625 TTTTAATA-TA
1 TTTTAATATTA
5950635 TTT
1 TTT
5950638 AAGTAGATAT
Statistics
Matches: 33, Mismatches: 0, Indels: 7
0.82 0.00 0.17
Matches are distributed among these distances:
9 7 0.21
10 7 0.21
11 9 0.27
13 10 0.30
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (11 bp):
TTTTAATATTA
Found at i:5950626 original size:13 final size:12
Alignment explanation
Indices: 5950601--5950635 Score: 54
Period size: 13 Copynumber: 2.9 Consensus size: 12
5950591 TTTTTAATTT
5950601 TTTTAATAT-TA
1 TTTTAATATATA
5950612 TTTTAATATAATA
1 TTTTAATAT-ATA
5950625 TTTTAATATAT
1 TTTTAATATAT
5950636 TTAAGTAGAT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
11 9 0.41
12 2 0.09
13 11 0.50
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (12 bp):
TTTTAATATATA
Found at i:5950694 original size:15 final size:15
Alignment explanation
Indices: 5950671--5950711 Score: 55
Period size: 15 Copynumber: 2.7 Consensus size: 15
5950661 TTATTTTATT
* *
5950671 TATAAAAATTAAATA
1 TATATAAATTAAAAA
5950686 TATATAAATTAAAAA
1 TATATAAATTAAAAA
5950701 TATATATAATT
1 TATATA-AATT
5950712 TGATTTTGAT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
15 19 0.83
16 4 0.17
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (15 bp):
TATATAAATTAAAAA
Found at i:5951088 original size:38 final size:38
Alignment explanation
Indices: 5951037--5951112 Score: 152
Period size: 38 Copynumber: 2.0 Consensus size: 38
5951027 ATATTTCTCA
5951037 TCCTTTTGAGATATGATTGGTTGACAGCAAACGATTCT
1 TCCTTTTGAGATATGATTGGTTGACAGCAAACGATTCT
5951075 TCCTTTTGAGATATGATTGGTTGACAGCAAACGATTCT
1 TCCTTTTGAGATATGATTGGTTGACAGCAAACGATTCT
5951113 AACGAAGGGC
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 38 1.00
ACGTcount: A:0.26, C:0.16, G:0.21, T:0.37
Consensus pattern (38 bp):
TCCTTTTGAGATATGATTGGTTGACAGCAAACGATTCT
Found at i:5954835 original size:29 final size:29
Alignment explanation
Indices: 5954797--5954864 Score: 102
Period size: 29 Copynumber: 2.4 Consensus size: 29
5954787 AATGTTAACT
*
5954797 AATAAATTTATAATTCAAATATTATATTA
1 AATAATTTTATAATTCAAATATTATATTA
* *
5954826 AATAATTTTAAAATTTAAATATTATATTA
1 AATAATTTTATAATTCAAATATTATATTA
5954855 AAT-ATTTTAT
1 AATAATTTTAT
5954865 TATAATTTGA
Statistics
Matches: 35, Mismatches: 4, Indels: 1
0.88 0.10 0.03
Matches are distributed among these distances:
28 6 0.17
29 29 0.83
ACGTcount: A:0.50, C:0.01, G:0.00, T:0.49
Consensus pattern (29 bp):
AATAATTTTATAATTCAAATATTATATTA
Found at i:5956746 original size:83 final size:84
Alignment explanation
Indices: 5956607--5956779 Score: 330
Period size: 83 Copynumber: 2.1 Consensus size: 84
5956597 AAGCACCGAA
5956607 AGAGGAAGATAGAGATGCATCTGCTGCTGCTGGACTACTCGAGAATTTGAGCGTTGAGG-AAAGG
1 AGAGGAAGATAGAGATGCATCTGCTGCTGCTGGACTACTCGAGAATTTGAGCGTTGAGGAAAAGG
5956671 AAACAGAGGATAAAGCTGG
66 AAACAGAGGATAAAGCTGG
*
5956690 AGAGGAAGATAGAGATGCATCTGCTGCTGCTGGACTACTTGAGAATTTGAGCGTTGAGGAAAAGG
1 AGAGGAAGATAGAGATGCATCTGCTGCTGCTGGACTACTCGAGAATTTGAGCGTTGAGGAAAAGG
5956755 AAACAGAGGATAAAGCTGG
66 AAACAGAGGATAAAGCTGG
5956774 AGAGGA
1 AGAGGA
5956780 GAAGCCTGTT
Statistics
Matches: 88, Mismatches: 1, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
83 58 0.66
84 30 0.34
ACGTcount: A:0.35, C:0.12, G:0.34, T:0.19
Consensus pattern (84 bp):
AGAGGAAGATAGAGATGCATCTGCTGCTGCTGGACTACTCGAGAATTTGAGCGTTGAGGAAAAGG
AAACAGAGGATAAAGCTGG
Found at i:5958049 original size:2 final size:2
Alignment explanation
Indices: 5958042--5958072 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
5958032 TGATATAAAC
5958042 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
5958073 AACTATAGTC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:5973637 original size:16 final size:16
Alignment explanation
Indices: 5973616--5973656 Score: 57
Period size: 16 Copynumber: 2.6 Consensus size: 16
5973606 TATTTAAATT
5973616 TTTGTGAGTTGTTTTC
1 TTTGTGAGTTGTTTTC
* *
5973632 TTTGTGAGTTTTTTTG
1 TTTGTGAGTTGTTTTC
5973648 TTTGT-AGTT
1 TTTGTGAGTT
5973657 AATTTTCACA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
15 4 0.17
16 19 0.83
ACGTcount: A:0.07, C:0.02, G:0.24, T:0.66
Consensus pattern (16 bp):
TTTGTGAGTTGTTTTC
Found at i:5975602 original size:2 final size:2
Alignment explanation
Indices: 5975595--5975628 Score: 50
Period size: 2 Copynumber: 17.0 Consensus size: 2
5975585 TAAATTGGGG
* *
5975595 AT AT AT AT AT AT AT AT AT AT AT GT AT GT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
5975629 CGAGCTTTTT
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.44, C:0.00, G:0.06, T:0.50
Consensus pattern (2 bp):
AT
Found at i:5975997 original size:2 final size:2
Alignment explanation
Indices: 5975990--5976014 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
5975980 ACATACATAC
5975990 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
5976015 GAGAGAGAGA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:5976019 original size:2 final size:2
Alignment explanation
Indices: 5976014--5976044 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
5976004 ATATATATAT
5976014 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
5976045 TGTACAAAAT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.48, T:0.00
Consensus pattern (2 bp):
AG
Found at i:5993225 original size:21 final size:22
Alignment explanation
Indices: 5993201--5993241 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
5993191 TAAATTAAAC
5993201 AAGTTATTT-TTATGTTTAATT
1 AAGTTATTTGTTATGTTTAATT
* *
5993222 AAGTTGTTTGTTATTTTTAA
1 AAGTTATTTGTTATGTTTAA
5993242 GACTTTGGCG
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 8 0.47
22 9 0.53
ACGTcount: A:0.27, C:0.00, G:0.12, T:0.61
Consensus pattern (22 bp):
AAGTTATTTGTTATGTTTAATT
Found at i:5996751 original size:13 final size:13
Alignment explanation
Indices: 5996733--5996757 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
5996723 TTTTGGTTAA
5996733 AGAAAAGGAAAAG
1 AGAAAAGGAAAAG
5996746 AGAAAAGGAAAA
1 AGAAAAGGAAAA
5996758 AAAAGCTAAG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.72, C:0.00, G:0.28, T:0.00
Consensus pattern (13 bp):
AGAAAAGGAAAAG
Found at i:5998056 original size:14 final size:15
Alignment explanation
Indices: 5998050--5998078 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
5998040 TATTTGTTTA
5998050 AATTTATTTAGTTAT
1 AATTTATTTAGTTAT
5998065 AATTTATTTA-TTAT
1 AATTTATTTAGTTAT
5998079 TGATGAATAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 4 0.29
15 10 0.71
ACGTcount: A:0.34, C:0.00, G:0.03, T:0.62
Consensus pattern (15 bp):
AATTTATTTAGTTAT
Found at i:6005004 original size:63 final size:61
Alignment explanation
Indices: 6004877--6005006 Score: 156
Period size: 63 Copynumber: 2.1 Consensus size: 61
6004867 TCACTAGAAG
* * *
6004877 ATGCCTTTAATAATTTTAAAAATTTTTAAAAGAAAATTATTAAAGGCGTTTGTTCTAAAAAA
1 ATGCCTTCAATAATTTTAAAAA-TTTTAAAAAAAAATTATTAAAGGCATTTGTTCTAAAAAA
* *
6004939 ATGCCTTCAATAATTATGTACAAAA-TTTAAAAAAAAATTATTAAAGGTATTT-TTCTAGAATAA
1 ATGCCTTCAATAATT-T-TA-AAAATTTTAAAAAAAAATTATTAAAGGCATTTGTTCTA-AAAAA
6005002 ATGCC
1 ATGCC
6005007 CTCACTAACC
Statistics
Matches: 59, Mismatches: 5, Indels: 7
0.83 0.07 0.10
Matches are distributed among these distances:
62 19 0.32
63 34 0.58
64 2 0.03
65 4 0.07
ACGTcount: A:0.45, C:0.08, G:0.09, T:0.37
Consensus pattern (61 bp):
ATGCCTTCAATAATTTTAAAAATTTTAAAAAAAAATTATTAAAGGCATTTGTTCTAAAAAA
Found at i:6005104 original size:188 final size:187
Alignment explanation
Indices: 6004690--6005410 Score: 882
Period size: 187 Copynumber: 3.9 Consensus size: 187
6004680 ATACTAAAAG
*
6004690 ACGCCTTTAATAATC-CAAAAAATTTTTAAAAGAAAATTATTGAAA-GCGTTTGTTCTCAAAAAA
1 ACGCCTTTAATAATCTC-AAAAATTTTTAAAAGAAAATTATT-AAAGGCGTTTGTTCACAAAAAA
* * * ** *
6004753 CGCCTTCAATAATTATGTACAAAAATTAAAACGAATTAGCGAAGGCATTTTTTTAGAATAAACGC
64 CACCTTCAATAATTATGTACATAAATTAAAAAGAATTAGTAAAGGCATTTTTCTAGAATAAACGC
* * * * *
6004818 CTTCACTAACCGTCTTAAAATTTGAGTAGTAAAATATTAAAAATATTTTTCACTAGAAG
129 CTTCACTAACCGTCTTAAAATTTGAGTAGTGAAATATTGAATACATTTTTCACTAGAAT
* * * *
6004877 ATGCCTTTAATAATTTTAAAAATTTTTAAAAGAAAATTATTAAAGGCGTTTGTTCTA-AAAAAAT
1 ACGCCTTTAATAATCTCAAAAATTTTTAAAAGAAAATTATTAAAGGCGTTTGTTC-ACAAAAAAC
* * * * *
6004941 GCCTTCAATAATTATGTACA-AAATTTAAAAAAAAATTATTAAAGGTATTTTTCTAGAATAAATG
65 ACCTTCAATAATTATGTACATAAA-TT-AAAAAGAATTAGTAAAGGCATTTTTCTAGAATAAACG
* * * ** * * *
6005005 CCCTCACTAACCATCTTAAAATTTGAGTATTGGTATATTGAATGCGTTTTTCATTAGAAT
128 CCTTCACTAACCGTCTTAAAATTTGAGTAGTGAAATATTGAATACATTTTTCACTAGAAT
* * * *
6005065 ACGCCTTTAATAATCTCAAAATTTTTTTAAATG-AAATTATTAAAGACATTTGTTCACAAAAAAC
1 ACGCCTTTAATAATCTCAAAA-ATTTTTAAAAGAAAATTATTAAAGGCGTTTGTTCACAAAAAAC
* * ** * * * *
6005129 ACTTTCAATAAGTATGTACATAAATTAAATGGAATCAATGAAGGCATTTTTCTAGAATAAATGCC
65 ACCTTCAATAATTATGTACATAAATTAAAAAGAATTAGTAAAGGCATTTTTCTAGAATAAACGCC
* *
6005194 TTCGCTAACCGTTTTAAAATTTGAGTAGTGAAATATTGAATACATTTTTCACTAGAAT
130 TTCACTAACCGTCTTAAAATTTGAGTAGTGAAATATTGAATACATTTTTCACTAGAAT
* *
6005252 ACGCCTTTAATAATCTCAAAAA-TTTTAAAA-AAATTTATTAAAGGCGTTTGTTCACAAAAAATA
1 ACGCCTTTAATAATCTCAAAAATTTTTAAAAGAAAATTATTAAAGGCGTTTGTTCACAAAAAACA
* * *
6005315 CCTTTAATAATTATGTACATAAATT-AAAAGAATTAGTAAAGGTATTTTTTTAGAATAAACGCCT
66 CCTTCAATAATTATGTACATAAATTAAAAAGAATTAGTAAAGGCATTTTTCTAGAATAAACGCCT
* *
6005379 TCACTAGCCGTCTTAAAAATTGAGTAGTGAAA
131 TCACTAACCGTCTTAAAATTTGAGTAGTGAAA
6005411 GATTAAAGGC
Statistics
Matches: 450, Mismatches: 75, Indels: 21
0.82 0.14 0.04
Matches are distributed among these distances:
184 59 0.13
185 57 0.13
186 6 0.01
187 177 0.39
188 139 0.31
189 12 0.03
ACGTcount: A:0.42, C:0.12, G:0.11, T:0.35
Consensus pattern (187 bp):
ACGCCTTTAATAATCTCAAAAATTTTTAAAAGAAAATTATTAAAGGCGTTTGTTCACAAAAAACA
CCTTCAATAATTATGTACATAAATTAAAAAGAATTAGTAAAGGCATTTTTCTAGAATAAACGCCT
TCACTAACCGTCTTAAAATTTGAGTAGTGAAATATTGAATACATTTTTCACTAGAAT
Found at i:6016979 original size:7 final size:7
Alignment explanation
Indices: 6016967--6017000 Score: 59
Period size: 7 Copynumber: 4.9 Consensus size: 7
6016957 GTGAGGCAAG
6016967 CTTCAAC
1 CTTCAAC
6016974 CTTCAAC
1 CTTCAAC
6016981 CTTCAAC
1 CTTCAAC
*
6016988 CTTTAAC
1 CTTCAAC
6016995 CTTCAA
1 CTTCAA
6017001 AAACACTGCC
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
7 25 1.00
ACGTcount: A:0.29, C:0.38, G:0.00, T:0.32
Consensus pattern (7 bp):
CTTCAAC
Found at i:6028426 original size:220 final size:219
Alignment explanation
Indices: 6028033--6028434 Score: 533
Period size: 220 Copynumber: 1.8 Consensus size: 219
6028023 ATCATACCAA
* * * * * * *
6028033 ACATTAGGTAAACCCAACATAAAGCACATACAGATCATAAGATCTACCGATGTTGGGATTCTAGA
1 ACATTAGGCAAACCCAACATAAAGCACATACAAATCACAAGATCCACCGATATTGAGATTCTAAA
* * * * *
6028098 GGTAGCTTCATCGTGTATTTAGCTTCCACATGATTCTAAAAATGGTTCCCACTACAGACCAAATT
66 GGTAGCTCCATCGTATACTTAGCTTCCACAAGATTCT-AAAATGGTTCCCACCACAGACCAAATT
* *
6028163 TTGTAGAGACTCACACCCAACTTGTGAGGTATTTATATGCTTTGACCCGAAGACCTTATGATTTT
130 TTGTAGAAACTCACACCCAACTTGCGAGGTATTTATATGCTTTGACCCGAAGACCTTATGATTTT
6028228 ATCTTATAAAAGGACTCTCACAAGT
195 ATCTTATAAAAGGACTCTCACAAGT
*
6028253 ACATTAGGCAAACCCAACATAAAGCACATACAAATCACAAGATCACACCGATATTGAGATTTTAA
1 ACATTAGGCAAACCCAACATAAAGCACATACAAATCACAAGATC-CACCGATATTGAGATTCTAA
* *
6028318 AGGTAGCTCCCATCGTATACTTAGCTTCCGCAAGATTCT-AAATGGTTCCCACCATC-GATCAAA
65 AGGTAGCT-CCATCGTATACTTAGCTTCCACAAGATTCTAAAATGGTTCCCACCA-CAGACCAAA
** * *
6028381 TTTTTGT-GAAAACTCGTACCCAACTTGCGAGGTA-TTGTCTGCTTTGACCCGAAG
128 -TTTTGTAG-AAACTCACACCCAACTTGCGAGGTATTTATATGCTTTGACCCGAAG
6028435 GTTTCACGGT
Statistics
Matches: 156, Mismatches: 21, Indels: 10
0.83 0.11 0.05
Matches are distributed among these distances:
220 80 0.51
221 51 0.33
222 25 0.16
ACGTcount: A:0.33, C:0.23, G:0.16, T:0.28
Consensus pattern (219 bp):
ACATTAGGCAAACCCAACATAAAGCACATACAAATCACAAGATCCACCGATATTGAGATTCTAAA
GGTAGCTCCATCGTATACTTAGCTTCCACAAGATTCTAAAATGGTTCCCACCACAGACCAAATTT
TGTAGAAACTCACACCCAACTTGCGAGGTATTTATATGCTTTGACCCGAAGACCTTATGATTTTA
TCTTATAAAAGGACTCTCACAAGT
Found at i:6030383 original size:57 final size:57
Alignment explanation
Indices: 6030314--6030425 Score: 188
Period size: 57 Copynumber: 2.0 Consensus size: 57
6030304 TTTACTTATT
* * *
6030314 TATTATAACATAATTTCAAATTATTTGAAATTGAAACGTCATGCATTTGATAGCATA
1 TATTATAACATAACTTCAAATTATCTAAAATTGAAACGTCATGCATTTGATAGCATA
*
6030371 TATTATAACATAACTTCAAATTATCTAAAATTGAACCGTCATGCATTTGATAGCA
1 TATTATAACATAACTTCAAATTATCTAAAATTGAAACGTCATGCATTTGATAGCA
6030426 GTGACTTCCA
Statistics
Matches: 51, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
57 51 1.00
ACGTcount: A:0.40, C:0.13, G:0.10, T:0.37
Consensus pattern (57 bp):
TATTATAACATAACTTCAAATTATCTAAAATTGAAACGTCATGCATTTGATAGCATA
Found at i:6036755 original size:13 final size:13
Alignment explanation
Indices: 6036739--6036791 Score: 67
Period size: 13 Copynumber: 4.2 Consensus size: 13
6036729 CAAAATATTC
6036739 ATTTTTAATAGAA
1 ATTTTTAATAGAA
6036752 ATTTCTTAAT-G--
1 ATTT-TTAATAGAA
6036763 ATTATTTAATAGAA
1 ATT-TTTAATAGAA
6036777 ATTTTTAATAGAA
1 ATTTTTAATAGAA
6036790 AT
1 AT
6036792 AATTCATTTT
Statistics
Matches: 35, Mismatches: 0, Indels: 10
0.78 0.00 0.22
Matches are distributed among these distances:
11 8 0.23
12 2 0.06
13 17 0.49
14 8 0.23
ACGTcount: A:0.43, C:0.02, G:0.08, T:0.47
Consensus pattern (13 bp):
ATTTTTAATAGAA
Found at i:6046029 original size:7 final size:7
Alignment explanation
Indices: 6046017--6046050 Score: 68
Period size: 7 Copynumber: 4.9 Consensus size: 7
6046007 CTTATGTCGT
6046017 TTTTTTA
1 TTTTTTA
6046024 TTTTTTA
1 TTTTTTA
6046031 TTTTTTA
1 TTTTTTA
6046038 TTTTTTA
1 TTTTTTA
6046045 TTTTTT
1 TTTTTT
6046051 TGTACAGAAC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 27 1.00
ACGTcount: A:0.12, C:0.00, G:0.00, T:0.88
Consensus pattern (7 bp):
TTTTTTA
Found at i:6059836 original size:20 final size:20
Alignment explanation
Indices: 6059811--6059873 Score: 76
Period size: 19 Copynumber: 3.2 Consensus size: 20
6059801 AAAAATTTTT
6059811 ATTATTTATTTAATTTTATA
1 ATTATTTATTTAATTTTATA
* *
6059831 ATTATTTATAT-ATTTTTTA
1 ATTATTTATTTAATTTTATA
*
6059850 A-TATATATTTAATTTTATA
1 ATTATTTATTTAATTTTATA
*
6059869 TTTAT
1 ATTAT
6059874 ATTAAAAATA
Statistics
Matches: 35, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
18 7 0.20
19 15 0.43
20 13 0.37
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (20 bp):
ATTATTTATTTAATTTTATA
Found at i:6059856 original size:26 final size:28
Alignment explanation
Indices: 6059804--6059878 Score: 79
Period size: 26 Copynumber: 2.8 Consensus size: 28
6059794 TATAAATAAA
*
6059804 AATT-TTTAT-TATTTATTTAATTTTAT
1 AATTATTTATATATTTATTTAATTATAT
6059830 AATTATTTATATATTT-TTTAA-TATAT
1 AATTATTTATATATTTATTTAATTATAT
*
6059856 ATTTAATTT-TATATTTATATTAA
1 AATT-ATTTATATATTTAT-TTAA
6059879 AAATAATATT
Statistics
Matches: 42, Mismatches: 2, Indels: 8
0.81 0.04 0.15
Matches are distributed among these distances:
26 18 0.43
27 15 0.36
28 9 0.21
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (28 bp):
AATTATTTATATATTTATTTAATTATAT
Found at i:6064672 original size:2 final size:2
Alignment explanation
Indices: 6064665--6064696 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
6064655 TCATGCTGTG
6064665 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
6064697 ATTATGGAAA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
CT
Found at i:6068538 original size:6 final size:6
Alignment explanation
Indices: 6068527--6068560 Score: 50
Period size: 6 Copynumber: 5.7 Consensus size: 6
6068517 GGTTCATCAT
* *
6068527 CAGCTA CAGCTA CAGCTA CAGCTT CAGCTT CAGC
1 CAGCTA CAGCTA CAGCTA CAGCTA CAGCTA CAGC
6068561 ACCGCCTCCC
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
6 27 1.00
ACGTcount: A:0.26, C:0.35, G:0.18, T:0.21
Consensus pattern (6 bp):
CAGCTA
Found at i:6070503 original size:19 final size:19
Alignment explanation
Indices: 6070479--6070518 Score: 80
Period size: 19 Copynumber: 2.1 Consensus size: 19
6070469 CAAGCATCAA
6070479 TGAATATTAAAATAATCCT
1 TGAATATTAAAATAATCCT
6070498 TGAATATTAAAATAATCCT
1 TGAATATTAAAATAATCCT
6070517 TG
1 TG
6070519 TGATTGCTGC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.45, C:0.10, G:0.07, T:0.38
Consensus pattern (19 bp):
TGAATATTAAAATAATCCT
Found at i:6072620 original size:13 final size:13
Alignment explanation
Indices: 6072602--6072627 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
6072592 TTTTCTTGTT
6072602 GTACTCTACATGA
1 GTACTCTACATGA
6072615 GTACTCTACATGA
1 GTACTCTACATGA
6072628 ATAAGGTTAC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.23, G:0.15, T:0.31
Consensus pattern (13 bp):
GTACTCTACATGA
Found at i:6073105 original size:3 final size:3
Alignment explanation
Indices: 6073097--6073125 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
6073087 GATAATTCTT
6073097 TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
6073126 TTGTATTTTA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:6074330 original size:23 final size:24
Alignment explanation
Indices: 6074303--6074353 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
6074293 TAAAAGGGAT
6074303 TCATTTACGCAA-TACATATCATC
1 TCATTTACGCAATTACATATCATC
* *
6074326 TCATTTAGGCAATTAGATATCATC
1 TCATTTACGCAATTACATATCATC
6074350 TCAT
1 TCAT
6074354 ATGGATGATC
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
23 11 0.44
24 14 0.56
ACGTcount: A:0.33, C:0.22, G:0.08, T:0.37
Consensus pattern (24 bp):
TCATTTACGCAATTACATATCATC
Found at i:6074832 original size:6 final size:6
Alignment explanation
Indices: 6074823--6074860 Score: 51
Period size: 6 Copynumber: 6.3 Consensus size: 6
6074813 TTTAATTTTA
*
6074823 TATATT TATATA TATATT TA-ATTT TATATT TATATT TA
1 TATATT TATATT TATATT TATA-TT TATATT TATATT TA
6074861 AAATAATATT
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
5 1 0.04
6 26 0.93
7 1 0.04
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (6 bp):
TATATT
Found at i:6074850 original size:18 final size:18
Alignment explanation
Indices: 6074827--6074861 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
6074817 ATTTTATATA
6074827 TTTATATATATATTTAAT
1 TTTATATATATATTTAAT
*
6074845 TTTATATTTATATTTAA
1 TTTATATATATATTTAA
6074862 AATAATATTT
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:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (18 bp):
TTTATATATATATTTAAT
Found at i:6075168 original size:12 final size:12
Alignment explanation
Indices: 6075151--6075180 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
6075141 CGAGAAATAC
6075151 TTTTAAAAAAAT
1 TTTTAAAAAAAT
*
6075163 TTTTAAAAAATT
1 TTTTAAAAAAAT
6075175 TTTTAA
1 TTTTAA
6075181 TTTATTCTTA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (12 bp):
TTTTAAAAAAAT
Found at i:6086290 original size:186 final size:186
Alignment explanation
Indices: 6086071--6086683 Score: 527
Period size: 186 Copynumber: 3.4 Consensus size: 186
6086061 AGACATCTTT
* ** * * * * *
6086071 AATATTTTTTTTCTAAAAATTTTGGGCATTATTAAAGGTATTTTCTACTATAAAATACCTTCAAT
1 AATAATTTTTTTAAAAAAATTTTGAGAATTATTAAAGGCATTTT-TATTATAAAATGCCTTCAAT
*
6086136 ATACCATCACACAAAATTTAACATGGTTATTGAAGGCGTATATTCAAGAAAAAATACCTTTAATA
65 ATACCATCACACAAAATTTAACATGATTATTGAAGGCGTATATTCAAGAAAAAATACCTTTAATA
6086201 ATTCCTATTAGATTTTGTAGATAATTAGTGAAGGCATTTGTAGATAACAACGCCTTC
130 ATTCCTATTAGATTTTGTAGATAATTAGTGAAGGCATTTGTAGATAACAACGCCTTC
* * *
6086258 AATAATTTTTTTAAAAAAATTTTGAG-ATTATTAAAGGCGTCTTTTATTATAAAACGTCTTC-A-
1 AATAATTTTTTTAAAAAAATTTTGAGAATTATTAAAGGCAT-TTTTATTATAAAATGCCTTCAAT
** * * ***
6086320 AT---AT-AC-C---A--T--GGTGATTATAGAAGGCGTTTATTCAA-AAAGGCT--CTTTCAAT
65 ATACCATCACACAAAATTTAACATGATTATTGAAGGCGTATATTCAAGAAAAAATACCTTT-AAT
* * * * **** * * * *
6086370 -ATACCT-TTAAACTTAGTAATCCATTATTGAAGGTATTTGTTA-ATAATAGACGCTTTC
129 AATTCCTATTAGATTTTGTAGATAATTAGTGAAGGCATTTG-TAGATAACA-ACGCCTTC
*** * *
6086427 AAT-ATTTTTTTCTCTAAAATTTTGAGAATTATTAAAGGCATCTTCTATTGTAAAATGCCTTCAA
1 AATAATTTTTTT-AAAAAAATTTTGAGAATTATTAAAGGCAT-TTTTATTATAAAATGCCTTCAA
** * *
6086491 TATACTGTCACACAAATTTTAACATGATTATTGAAGGCGTATATTCAAG-ACAAATACCTTTAAT
64 TATACCATCACACAAAATTTAACATGATTATTGAAGGCGTATATTCAAGAAAAAATACCTTTAAT
* ** * *
6086555 AATTCCTATTAGATTTTGTAGATAATTAGTGTAGGCATTTACAGATAACAATGCCTTT
129 AATTCCTATTAGATTTTGTAGATAATTAGTGAAGGCATTTGTAGATAACAACGCCTTC
* * * * *
6086613 AATAATTTTCATAAAAAAAATTTTG-GGATTGTTAAAGGCGTATTTTATTATAAAATGCCTTCAA
1 AATAATTTT-TTTAAAAAAATTTTGAGAATTATTAAAGGCAT-TTTTATTATAAAATGCCTTCAA
6086677 TATACCA
64 TATACCA
6086684 CAATGGTTAT
Statistics
Matches: 320, Mismatches: 78, Indels: 57
0.70 0.17 0.13
Matches are distributed among these distances:
168 37 0.12
169 32 0.10
170 33 0.10
171 5 0.02
172 23 0.07
174 1 0.00
175 1 0.00
176 3 0.01
177 1 0.00
179 1 0.00
180 2 0.01
181 2 0.01
182 1 0.00
184 26 0.08
185 4 0.01
186 81 0.25
187 66 0.21
188 1 0.00
ACGTcount: A:0.37, C:0.13, G:0.12, T:0.39
Consensus pattern (186 bp):
AATAATTTTTTTAAAAAAATTTTGAGAATTATTAAAGGCATTTTTATTATAAAATGCCTTCAATA
TACCATCACACAAAATTTAACATGATTATTGAAGGCGTATATTCAAGAAAAAATACCTTTAATAA
TTCCTATTAGATTTTGTAGATAATTAGTGAAGGCATTTGTAGATAACAACGCCTTC
Found at i:6086632 original size:356 final size:355
Alignment explanation
Indices: 6085951--6086693 Score: 1053
Period size: 356 Copynumber: 2.1 Consensus size: 355
6085941 TTTTCTACAG
* * * *
6085951 TAAAATGCCTTCAATACACCACGATGGTTATAGAAGGTGTTTATTCAAAAAAGTACCTTTAATAT
1 TAAAACGCCTTCAATATACCACGATGATTATAGAAGGCGTTTATTCAAAAAAGTA-CTTTAATAT
* * *
6086016 ATCTTTAAACTTAGTAATCCATTACGGAAGGTATTTTTTAATAACAGACATCTTTAATATTTTTT
65 ACCTTTAAACTTAGTAATCCATTACGGAAGGTATTTGTTAATAACAGACAGCTTTAATATTTTTT
* * * *
6086081 TTCTAAAAATTTTGGGCATTATTAAAGGTATTTTCTACTATAAAATACCTTCAATATACCATCAC
130 TTCTAAAAATTTTGAGAATTATTAAAGGCATCTTCTACTATAAAATACCTTCAATATACCATCAC
*
6086146 ACAAAATTTAACATGGTTATTGAAGGCGTATATTCAAGAAAAAATACCTTTAATAATTCCTATTA
195 ACAAAATTTAACATGATTATTGAAGGCGTATATTCAAGAAAAAATACCTTTAATAATTCCTATTA
** * *
6086211 GATTTTGTAGATAATTAGTGAAGGCATTTGTAGATAACAACGCCTTCAATAATTTTTTTAAAAAA
260 GATTTTGTAGATAATTAGTGAAGGCATTTACAGATAACAACGCCTTCAATAATTTTATAAAAAAA
*
6086276 ATTTTGAGATTATTAAAGGCGTCTTTTATTA
325 ATTTTGAGATTATTAAAGGCGTATTTTATTA
* * * *
6086307 TAAAACGTCTTCAATATACCATGGTGATTATAGAAGGCGTTTATTCAAAAAGGCT-CTTTCAATA
1 TAAAACGCCTTCAATATACCACGATGATTATAGAAGGCGTTTATTCAAAAAAG-TACTTT-AATA
** *
6086371 TACCTTTAAACTTAGTAATCCATTATTGAAGGTATTTGTTAATAATAGAC-GCTTTCAATATTTT
64 TACCTTTAAACTTAGTAATCCATTACGGAAGGTATTTGTTAATAACAGACAGCTTT-AATATTTT
* * * **
6086435 TTTCTCT-AAAATTTTGAGAATTATTAAAGGCATCTTCTATTGTAAAATGCCTTCAATATACTGT
128 TTT-TCTAAAAATTTTGAGAATTATTAAAGGCATCTTCTACTATAAAATACCTTCAATATACCAT
* *
6086499 CACACAAATTTTAACATGATTATTGAAGGCGTATATTCAAG-ACAAATACCTTTAATAATTCCTA
192 CACACAAAATTTAACATGATTATTGAAGGCGTATATTCAAGAAAAAATACCTTTAATAATTCCTA
* * *
6086563 TTAGATTTTGTAGATAATTAGTGTAGGCATTTACAGATAACAATGCCTTTAATAATTTTCATAAA
257 TTAGATTTTGTAGATAATTAGTGAAGGCATTTACAGATAACAACGCCTTCAATAATTTT-ATAAA
* *
6086628 AAAAATTTTGGGATTGTTAAAGGCGTATTTTATTA
321 AAAAATTTTGAGATTATTAAAGGCGTATTTTATTA
* * *
6086663 TAAAATGCCTTCAATATACCACAATGGTTAT
1 TAAAACGCCTTCAATATACCACGATGATTAT
6086694 TATTAGCCTT
Statistics
Matches: 340, Mismatches: 42, Indels: 10
0.87 0.11 0.03
Matches are distributed among these distances:
355 84 0.25
356 252 0.74
357 4 0.01
ACGTcount: A:0.37, C:0.13, G:0.12, T:0.38
Consensus pattern (355 bp):
TAAAACGCCTTCAATATACCACGATGATTATAGAAGGCGTTTATTCAAAAAAGTACTTTAATATA
CCTTTAAACTTAGTAATCCATTACGGAAGGTATTTGTTAATAACAGACAGCTTTAATATTTTTTT
TCTAAAAATTTTGAGAATTATTAAAGGCATCTTCTACTATAAAATACCTTCAATATACCATCACA
CAAAATTTAACATGATTATTGAAGGCGTATATTCAAGAAAAAATACCTTTAATAATTCCTATTAG
ATTTTGTAGATAATTAGTGAAGGCATTTACAGATAACAACGCCTTCAATAATTTTATAAAAAAAA
TTTTGAGATTATTAAAGGCGTATTTTATTA
Found at i:6090237 original size:18 final size:18
Alignment explanation
Indices: 6090214--6090248 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
6090204 ACCATCGGAT
*
6090214 AGCAAGAAAGGGATATGC
1 AGCAAGAAAAGGATATGC
6090232 AGCAAGAAAAGGATATG
1 AGCAAGAAAAGGATATG
6090249 TAATATGAAG
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:0.49, C:0.09, G:0.31, T:0.11
Consensus pattern (18 bp):
AGCAAGAAAAGGATATGC
Found at i:6092382 original size:24 final size:24
Alignment explanation
Indices: 6092342--6092387 Score: 67
Period size: 24 Copynumber: 1.9 Consensus size: 24
6092332 GTATTGGTTT
6092342 AATATTATTATTATACTTAATATG
1 AATATTATTATTATACTTAATATG
*
6092366 AATA-TATTATGTGTACTTAATA
1 AATATTATTAT-TATACTTAATA
6092388 AATTACTAAG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 6 0.30
24 14 0.70
ACGTcount: A:0.41, C:0.04, G:0.07, T:0.48
Consensus pattern (24 bp):
AATATTATTATTATACTTAATATG
Found at i:6094569 original size:12 final size:13
Alignment explanation
Indices: 6094548--6094576 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
6094538 GAAATCCAAC
6094548 AAAAATTAAAAAT
1 AAAAATTAAAAAT
6094561 AAAAA-TAAAAAT
1 AAAAATTAAAAAT
6094573 AAAA
1 AAAA
6094577 GAAAAAGAGA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 11 0.69
13 5 0.31
ACGTcount: A:0.83, C:0.00, G:0.00, T:0.17
Consensus pattern (13 bp):
AAAAATTAAAAAT
Found at i:6098064 original size:16 final size:15
Alignment explanation
Indices: 6098039--6098092 Score: 65
Period size: 16 Copynumber: 3.5 Consensus size: 15
6098029 AAAAGGTCTC
*
6098039 AAAGATAGAAAGAAAA
1 AAAGAAAGAAA-AAAA
6098055 AAAGAAAGAAAAACAA
1 AAAGAAAGAAAAA-AA
6098071 AACA-AAAGAAAAAAA
1 AA-AGAAAGAAAAAAA
6098086 AAAGAAA
1 AAAGAAA
6098093 AATGAATGTC
Statistics
Matches: 34, Mismatches: 1, Indels: 7
0.81 0.02 0.17
Matches are distributed among these distances:
14 1 0.03
15 9 0.26
16 23 0.68
17 1 0.03
ACGTcount: A:0.81, C:0.04, G:0.13, T:0.02
Consensus pattern (15 bp):
AAAGAAAGAAAAAAA
Found at i:6098083 original size:11 final size:11
Alignment explanation
Indices: 6098045--6098094 Score: 50
Period size: 11 Copynumber: 4.6 Consensus size: 11
6098035 TCTCAAAGAT
6098045 AGAAAGAAAAAA
1 AGAAA-AAAAAA
*
6098057 AG-AAAGAAAA
1 AGAAAAAAAAA
* *
6098067 A-CAAAACAAA
1 AGAAAAAAAAA
6098077 AGAAAAAAAAA
1 AGAAAAAAAAA
6098088 AGAAAAA
1 AGAAAAA
6098095 TGAATGTCAC
Statistics
Matches: 31, Mismatches: 5, Indels: 5
0.76 0.12 0.12
Matches are distributed among these distances:
10 13 0.42
11 16 0.52
12 2 0.06
ACGTcount: A:0.84, C:0.04, G:0.12, T:0.00
Consensus pattern (11 bp):
AGAAAAAAAAA
Found at i:6098492 original size:23 final size:23
Alignment explanation
Indices: 6098441--6098508 Score: 72
Period size: 21 Copynumber: 3.0 Consensus size: 23
6098431 CATTAATGGG
*
6098441 TGAAAAAAAAAAGAAG-AAAAAAA
1 TGAAAGAAAAAA-AAGAAAAAAAA
6098464 TG--AGAAAAAAAAGAAAAAAAA
1 TGAAAGAAAAAAAAGAAAAAAAA
6098485 TGAAAGAATGAAAAAA-AAAAAAAA
1 TGAAAGAA--AAAAAAGAAAAAAAA
6098509 GACTCAAATT
Statistics
Matches: 39, Mismatches: 1, Indels: 9
0.80 0.02 0.18
Matches are distributed among these distances:
20 3 0.08
21 16 0.41
23 6 0.15
24 8 0.21
25 6 0.15
ACGTcount: A:0.81, C:0.00, G:0.13, T:0.06
Consensus pattern (23 bp):
TGAAAGAAAAAAAAGAAAAAAAA
Found at i:6099197 original size:70 final size:70
Alignment explanation
Indices: 6099065--6099200 Score: 202
Period size: 70 Copynumber: 1.9 Consensus size: 70
6099055 ATTTGTGAAA
* * * * *
6099065 GGTGATCAAATGATGAGGATCAGTGGATGAAATTCATTTTGGAATGGCTAGTGCTATGAAACCTG
1 GGTGATCAAATGATGAGAATCAGTGGATAAAATTCATTTTGAAATGGCTAATGCTATCAAACCTG
6099130 TCAAT
66 TCAAT
*
6099135 GGTGATCAAATGATGAGAATCAGTGGATAAAATTCATTTTGAAATGGTTAATGCTGA-CAAACCT
1 GGTGATCAAATGATGAGAATCAGTGGATAAAATTCATTTTGAAATGGCTAATGCT-ATCAAACCT
6099199 GT
65 GT
6099201 GAGTTATGAT
Statistics
Matches: 59, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
70 58 0.98
71 1 0.02
ACGTcount: A:0.34, C:0.11, G:0.25, T:0.30
Consensus pattern (70 bp):
GGTGATCAAATGATGAGAATCAGTGGATAAAATTCATTTTGAAATGGCTAATGCTATCAAACCTG
TCAAT
Found at i:6099216 original size:70 final size:70
Alignment explanation
Indices: 6099067--6099218 Score: 189
Period size: 70 Copynumber: 2.2 Consensus size: 70
6099057 TTGTGAAAGG
* * * * *
6099067 TGATCAAATGATGAGGATCAGTGGATGAAATTCATTTTGGAATGGCTAGTGCTATGAAACCTGTC
1 TGATCAAATGATGAGAATCAGTGGATAAAATTCATTTTGAAATGGCTAATGCTATCAAACCTGTC
*
6099132 AATGG
66 AATGA
*
6099137 TGATCAAATGATGAGAATCAGTGGATAAAATTCATTTTGAAATGGTTAATGCTGA-CAAACCTGT
1 TGATCAAATGATGAGAATCAGTGGATAAAATTCATTTTGAAATGGCTAATGCT-ATCAAACCTGT
* * *
6099201 GAGTTA
65 CAATGA
*
6099207 TGATTAAATGAT
1 TGATCAAATGAT
6099219 ATAGGATAAT
Statistics
Matches: 70, Mismatches: 11, Indels: 2
0.84 0.13 0.02
Matches are distributed among these distances:
70 69 0.99
71 1 0.01
ACGTcount: A:0.35, C:0.10, G:0.24, T:0.32
Consensus pattern (70 bp):
TGATCAAATGATGAGAATCAGTGGATAAAATTCATTTTGAAATGGCTAATGCTATCAAACCTGTC
AATGA
Found at i:6099702 original size:21 final size:21
Alignment explanation
Indices: 6099676--6100314 Score: 250
Period size: 21 Copynumber: 28.4 Consensus size: 21
6099666 TTGAATCCTC
*
6099676 AAATGAGAATCTCTGAGTCTT
1 AAATGAGAATCTTTGAGTCTT
*
6099697 AAATGAGAATCTTTAAGACGTTTTT
1 AAATGAGAATCTTT--GA-G-TCTT
* *
6099722 AAATAAGAA-CCTTG-GTCTT
1 AAATGAGAATCTTTGAGTCTT
*
6099741 AAATGA-AAACTTTTGAGTCTT
1 AAATGAGAATC-TTTGAGTCTT
*
6099762 AAATGAGAATCTTTAAGTCTT
1 AAATGAGAATCTTTGAGTCTT
** * *
6099783 AAACAAGAATCTTTAAGACATTTT
1 AAATGAGAATCTTT--GA-GTCTT
* * *
6099807 CAAATGAGAACCTTTAAGTTTT
1 -AAATGAGAATCTTTGAGTCTT
* *
6099829 AAATGAAAATCTTTAAGATGTTCTC
1 AAATGAGAATCTTT--GA-G-TCTT
*
6099854 AAATGATAATCTTTGAGTCTT
1 AAATGAGAATCTTTGAGTCTT
* *
6099875 AAATGAGAATATTTAAGATGTTTT
1 AAATGAGAATCTTT--GA-GTCTT
* * *
6099899 CAA--A-AACCTTTGAGTTTT
1 AAATGAGAATCTTTGAGTCTT
* * * *
6099917 AAATGTGAATCTTTAAAATTTTTT
1 AAATGAGAATCTTT--GA-GTCTT
* * *
6099941 CAAATGAAAATCTTTAAAACGTTTT
1 -AAATGAGAATCTTT--GA-GTCTT
* *
6099966 CAAATGAGAATCTTTAAGATATTTT
1 -AAATGAGAATCTTT--GA-GTCTT
*
6099991 CAAATGAGAA-CTTTTGAGTCCT
1 -AAATGAGAATC-TTTGAGTCTT
* * *
6100013 AACTGAGAATCTTTAAAATGTTTT
1 AAATGAGAATCTTT--GA-GTCTT
* *
6100037 CAAATGAGAACCTTTAAGTCTT
1 -AAATGAGAATCTTTGAGTCTT
*
6100059 AAATGAGAATCTTTAAGACGTTTT
1 AAATGAGAATCTTT--GA-GTCTT
* * *
6100083 CAAATGAGAACCTTTTAGTTTT
1 -AAATGAGAATCTTTGAGTCTT
*
6100105 AAATGAGAATCTTTAAGATGCTTT
1 AAATGAGAATCTTTGAG-T-C-TT
* *
6100129 CAAATGAAAATTTTTGAGTCTT
1 -AAATGAGAATCTTTGAGTCTT
* * *
6100151 AAATGAGAATTTTTAATATGTTTT
1 AAATGAGAATCTTT--GA-GTCTT
*
6100175 CAAATGAGAATCTTTTAGTCTT
1 -AAATGAGAATCTTTGAGTCTT
*
6100197 AAATGAAAATCTTTGAGTCTT
1 AAATGAGAATCTTTGAGTCTT
* * *
6100218 AAATGAAAATCTTTAAAAAAATCTT
1 AAATGAGAATCTTT----GAGTCTT
*
6100243 CAAATGAGAATCTTTGAGTCAT
1 -AAATGAGAATCTTTGAGTCTT
* * *
6100265 AAATAAGTATTTTTGAGT-TT
1 AAATGAGAATCTTTGAGTCTT
* *
6100285 CAATTGAGAATCTTTGAGTTTT
1 -AAATGAGAATCTTTGAGTCTT
6100307 AAATGAGA
1 AAATGAGA
6100315 GTTTTAAATG
Statistics
Matches: 479, Mismatches: 88, Indels: 102
0.72 0.13 0.15
Matches are distributed among these distances:
18 9 0.02
19 11 0.02
20 5 0.01
21 204 0.43
22 35 0.07
23 21 0.04
24 33 0.07
25 148 0.31
26 13 0.03
ACGTcount: A:0.38, C:0.10, G:0.14, T:0.38
Consensus pattern (21 bp):
AAATGAGAATCTTTGAGTCTT
Found at i:6099815 original size:46 final size:46
Alignment explanation
Indices: 6099674--6100210 Score: 547
Period size: 46 Copynumber: 11.8 Consensus size: 46
6099664 TCTTGAATCC
* *
6099674 TCAAATGAGAATCTCTGAGTCTTAAATGAGAATCTTTAAGACGTTT
1 TCAAATGAGAATCTTTGAGTCTTAAATGAGAATCTTTAAGATGTTT
* * * * * *
6099720 TTAAATAAGAA-CCTTG-GTCTTAAATGA-AAACTTT-TGA-GTCT
1 TCAAATGAGAATCTTTGAGTCTTAAATGAGAATCTTTAAGATGTTT
* ** **
6099761 T-AAATGAGAATCTTTAAGTCTTAAACAAGAATCTTTAAGACATTT
1 TCAAATGAGAATCTTTGAGTCTTAAATGAGAATCTTTAAGATGTTT
* * * * *
6099806 TCAAATGAGAACCTTTAAGTTTTAAATGAAAATCTTTAAGATGTTC
1 TCAAATGAGAATCTTTGAGTCTTAAATGAGAATCTTTAAGATGTTT
* *
6099852 TCAAATGATAATCTTTGAGTCTTAAATGAGAATATTTAAGATGTTT
1 TCAAATGAGAATCTTTGAGTCTTAAATGAGAATCTTTAAGATGTTT
* * * * *
6099898 TC-AA--A-AACCTTTGAGTTTTAAATGTGAATCTTTAAAATTTTT
1 TCAAATGAGAATCTTTGAGTCTTAAATGAGAATCTTTAAGATGTTT
* * * *
6099940 TCAAATGAAAATCTTTAAAACGTTTTCAAATGAGAATCTTTAAGATATTT
1 TCAAATGAGAATCTTT--GA-GTCTT-AAATGAGAATCTTTAAGATGTTT
* * *
6099990 TCAAATGAGAA-CTTTTGAGTCCTAACTGAGAATCTTTAAAATGTTT
1 TCAAATGAGAATC-TTTGAGTCTTAAATGAGAATCTTTAAGATGTTT
* * *
6100036 TCAAATGAGAACCTTTAAGTCTTAAATGAGAATCTTTAAGACGTTT
1 TCAAATGAGAATCTTTGAGTCTTAAATGAGAATCTTTAAGATGTTT
* * * *
6100082 TCAAATGAGAACCTTTTAGTTTTAAATGAGAATCTTTAAGATGCTT
1 TCAAATGAGAATCTTTGAGTCTTAAATGAGAATCTTTAAGATGTTT
* * * *
6100128 TCAAATGAAAATTTTTGAGTCTTAAATGAGAATTTTTAATATGTTT
1 TCAAATGAGAATCTTTGAGTCTTAAATGAGAATCTTTAAGATGTTT
* *
6100174 TCAAATGAGAATCTTTTAGTCTTAAATGAAAATCTTT
1 TCAAATGAGAATCTTTGAGTCTTAAATGAGAATCTTT
6100211 GAGTCTTAAA
Statistics
Matches: 404, Mismatches: 71, Indels: 32
0.80 0.14 0.06
Matches are distributed among these distances:
40 8 0.02
41 7 0.02
42 44 0.11
43 15 0.04
44 13 0.03
45 9 0.02
46 263 0.65
47 4 0.01
48 2 0.00
49 6 0.01
50 33 0.08
ACGTcount: A:0.37, C:0.10, G:0.13, T:0.39
Consensus pattern (46 bp):
TCAAATGAGAATCTTTGAGTCTTAAATGAGAATCTTTAAGATGTTT
Found at i:6100179 original size:25 final size:25
Alignment explanation
Indices: 6099912--6100189 Score: 230
Period size: 25 Copynumber: 11.8 Consensus size: 25
6099902 AAACCTTTGA
* *
6099912 GTTTT-AAATGTGAATCTTTAAAAT
1 GTTTTCAAATGAGAATCTTTAAGAT
* * * *
6099936 TTTTTCAAATGAAAATCTTTAAAAC
1 GTTTTCAAATGAGAATCTTTAAGAT
6099961 GTTTTCAAATGAGAATCTTTAAGAT
1 GTTTTCAAATGAGAATCTTTAAGAT
* *
6099986 ATTTTCAAATGAGAA-CTTT-TGA-
1 GTTTTCAAATGAGAATCTTTAAGAT
** * *
6100008 GTCCT-AACTGAGAATCTTTAAAAT
1 GTTTTCAAATGAGAATCTTTAAGAT
*
6100032 GTTTTCAAATGAGAACCTTT-A-A-
1 GTTTTCAAATGAGAATCTTTAAGAT
* *
6100054 GTCTT-AAATGAGAATCTTTAAGAC
1 GTTTTCAAATGAGAATCTTTAAGAT
* *
6100078 GTTTTCAAATGAGAACCTTT--TA-
1 GTTTTCAAATGAGAATCTTTAAGAT
6100100 GTTTT-AAATGAGAATCTTTAAGAT
1 GTTTTCAAATGAGAATCTTTAAGAT
* * *
6100124 GCTTTCAAATGAAAAT-TTT-TGA-
1 GTTTTCAAATGAGAATCTTTAAGAT
* * *
6100146 GTCTT-AAATGAGAATTTTTAATAT
1 GTTTTCAAATGAGAATCTTTAAGAT
6100170 GTTTTCAAATGAGAATCTTT
1 GTTTTCAAATGAGAATCTTT
6100190 TAGTCTTAAA
Statistics
Matches: 200, Mismatches: 37, Indels: 33
0.74 0.14 0.12
Matches are distributed among these distances:
21 43 0.22
22 22 0.11
23 10 0.05
24 27 0.14
25 98 0.49
ACGTcount: A:0.37, C:0.10, G:0.13, T:0.40
Consensus pattern (25 bp):
GTTTTCAAATGAGAATCTTTAAGAT
Found at i:6100282 original size:68 final size:68
Alignment explanation
Indices: 6100130--6100299 Score: 202
Period size: 68 Copynumber: 2.5 Consensus size: 68
6100120 AGATGCTTTC
* * ** * *
6100130 AAATGAAAATTTTTGAGTCTTAAATGAGAAT-TTTTAATATGTTTTCAAATGAGAATCTTTTAGT
1 AAATGAAAATTTTTGAGTCTTAAATGAGAATCTTTAAAAAAATCTTCAAATGAGAATCTTTGAGT
*
6100194 CTT
66 CAT
* *
6100197 AAATGAAAATCTTTGAGTCTTAAATGAAAATCTTTAAAAAAATCTTCAAATGAGAATCTTTGAGT
1 AAATGAAAATTTTTGAGTCTTAAATGAGAATCTTTAAAAAAATCTTCAAATGAGAATCTTTGAGT
6100262 CAT
66 CAT
* *
6100265 AAAT-AAGTATTTTTGAGT-TTCAATTGAGAATCTTT
1 AAATGAA-AATTTTTGAGTCTT-AAATGAGAATCTTT
6100300 GAGTTTTAAA
Statistics
Matches: 87, Mismatches: 13, Indels: 5
0.83 0.12 0.05
Matches are distributed among these distances:
67 33 0.38
68 54 0.62
ACGTcount: A:0.39, C:0.08, G:0.13, T:0.41
Consensus pattern (68 bp):
AAATGAAAATTTTTGAGTCTTAAATGAGAATCTTTAAAAAAATCTTCAAATGAGAATCTTTGAGT
CAT
Found at i:6100318 original size:13 final size:13
Alignment explanation
Indices: 6100300--6100327 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
6100290 GAGAATCTTT
6100300 GAGTTTTAAATGA
1 GAGTTTTAAATGA
6100313 GAGTTTTAAATGA
1 GAGTTTTAAATGA
6100326 GA
1 GA
6100328 ATCTTTAAGA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.39, C:0.00, G:0.25, T:0.36
Consensus pattern (13 bp):
GAGTTTTAAATGA
Found at i:6100347 original size:24 final size:23
Alignment explanation
Indices: 6100320--6100381 Score: 65
Period size: 21 Copynumber: 2.7 Consensus size: 23
6100310 TGAGAGTTTT
6100320 AAATGAGAATCTTTAAGAATCCTC
1 AAATGAGAATCTTTAAGAATCC-C
* * *
6100344 AAATGTGAATCTTT--GAGTTCC
1 AAATGAGAATCTTTAAGAATCCC
*
6100365 AAACGAGAATCTTTAAG
1 AAATGAGAATCTTTAAG
6100382 TTTTCAAATA
Statistics
Matches: 31, Mismatches: 5, Indels: 5
0.76 0.12 0.12
Matches are distributed among these distances:
21 13 0.42
22 4 0.13
23 1 0.03
24 13 0.42
ACGTcount: A:0.39, C:0.15, G:0.16, T:0.31
Consensus pattern (23 bp):
AAATGAGAATCTTTAAGAATCCC
Found at i:6100374 original size:21 final size:22
Alignment explanation
Indices: 6100342--6100446 Score: 115
Period size: 22 Copynumber: 4.9 Consensus size: 22
6100332 TTAAGAATCC
* *
6100342 TCAAATGTGAATCTTTGAG-TT
1 TCAAATGAGAATATTTGAGTTT
* * * *
6100363 CCAAACGAGAATCTTTAAGTTT
1 TCAAATGAGAATATTTGAGTTT
* *
6100385 TCAAATAAGAATATTTAAGTTT
1 TCAAATGAGAATATTTGAGTTT
6100407 TCAAATGAGAATATTTGAG-TT
1 TCAAATGAGAATATTTGAGTTT
*
6100428 TCAAATGAGAATTTTTGAG
1 TCAAATGAGAATATTTGAG
6100447 ATGTGAAACC
Statistics
Matches: 72, Mismatches: 11, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
21 35 0.49
22 37 0.51
ACGTcount: A:0.37, C:0.09, G:0.16, T:0.38
Consensus pattern (22 bp):
TCAAATGAGAATATTTGAGTTT
Found at i:6100395 original size:22 final size:22
Alignment explanation
Indices: 6100314--6100439 Score: 114
Period size: 22 Copynumber: 5.8 Consensus size: 22
6100304 TTTAAATGAG
*
6100314 AGTTTT-AAATGAGAATCTTTA
1 AGTTTTCAAATGAGAATATTTA
** * * *
6100335 AGAATCCTCAAATGTGAATCTTTG
1 AG--TTTTCAAATGAGAATATTTA
* * *
6100359 AG-TTCCAAACGAGAATCTTTA
1 AGTTTTCAAATGAGAATATTTA
*
6100380 AGTTTTCAAATAAGAATATTTA
1 AGTTTTCAAATGAGAATATTTA
*
6100402 AGTTTTCAAATGAGAATATTTG
1 AGTTTTCAAATGAGAATATTTA
6100424 AG-TTTCAAATGAGAAT
1 AGTTTTCAAATGAGAAT
6100440 TTTTGAGATG
Statistics
Matches: 85, Mismatches: 16, Indels: 8
0.78 0.15 0.07
Matches are distributed among these distances:
21 31 0.36
22 37 0.44
23 2 0.02
24 15 0.18
ACGTcount: A:0.39, C:0.10, G:0.15, T:0.37
Consensus pattern (22 bp):
AGTTTTCAAATGAGAATATTTA
Found at i:6100415 original size:102 final size:101
Alignment explanation
Indices: 6100211--6100416 Score: 227
Period size: 100 Copynumber: 2.0 Consensus size: 101
6100201 GAAAATCTTT
* * * * *
6100211 GAGTCTTAAATGAAAATCTTTAAAAAAATCTTCAAATGAGAATCTTTGAGTCATAAATAAGTATT
1 GAGTCTTAAATGAAAATCTTT-AAAAAATCCTCAAATGAGAATCTTTGAGTCACAAACAAGAATC
* * * * *
6100276 TTTGAGTTTCAATTGAGAATCTTTGAGTTTTAAATGA
65 TTTAAGTTTCAAATAAGAATATTTAAGTTTTAAATGA
* * * * *
6100313 GAGTTTTAAATGAGAATCTTT-AAGAATCCTCAAATGTGAATCTTTGAGTTC-CAAACGAGAATC
1 GAGTCTTAAATGAAAATCTTTAAAAAATCCTCAAATGAGAATCTTTGAG-TCACAAACAAGAATC
6100376 TTTAAGTTTTCAAATAAGAATATTTAAGTTTTCAAATGA
65 TTTAAG-TTTCAAATAAGAATATTTAAGTTTT-AAATGA
6100415 GA
1 GA
6100417 ATATTTGAGT
Statistics
Matches: 86, Mismatches: 15, Indels: 6
0.80 0.14 0.06
Matches are distributed among these distances:
100 36 0.42
101 23 0.27
102 27 0.31
ACGTcount: A:0.39, C:0.09, G:0.15, T:0.37
Consensus pattern (101 bp):
GAGTCTTAAATGAAAATCTTTAAAAAATCCTCAAATGAGAATCTTTGAGTCACAAACAAGAATCT
TTAAGTTTCAAATAAGAATATTTAAGTTTTAAATGA
Found at i:6100999 original size:41 final size:42
Alignment explanation
Indices: 6100901--6101024 Score: 130
Period size: 41 Copynumber: 3.0 Consensus size: 42
6100891 GTGATTGTCG
* * *
6100901 ATGAGACTTTTATTTTTCAAAGTTATGGTA-CCTCTATTTAG-
1 ATGAGCCTTTTATTTTTCAAAGTTGTTG-AGCCTCTATTTAGA
6100942 ATGAGCCTTTTATTTTTCAAAGTTGTTGAGCCTCTATTTAGA
1 ATGAGCCTTTTATTTTTCAAAGTTGTTGAGCCTCTATTTAGA
* * * * *
6100984 AT-AG-CTTTATTTTTTTAAAAGTCGTTGAGCTTCTGTTTAGA
1 ATGAGCCTTT-TATTTTTCAAAGTTGTTGAGCCTCTATTTAGA
6101025 TGAATTTTTA
Statistics
Matches: 72, Mismatches: 8, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
40 5 0.07
41 65 0.90
42 2 0.03
ACGTcount: A:0.25, C:0.12, G:0.16, T:0.47
Consensus pattern (42 bp):
ATGAGCCTTTTATTTTTCAAAGTTGTTGAGCCTCTATTTAGA
Found at i:6103464 original size:11 final size:11
Alignment explanation
Indices: 6103448--6103479 Score: 55
Period size: 11 Copynumber: 2.9 Consensus size: 11
6103438 AATCCCATAA
6103448 GAGATTTGTTT
1 GAGATTTGTTT
*
6103459 GAGATTAGTTT
1 GAGATTTGTTT
6103470 GAGATTTGTT
1 GAGATTTGTT
6103480 ATATATTGCT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
11 19 1.00
ACGTcount: A:0.22, C:0.00, G:0.28, T:0.50
Consensus pattern (11 bp):
GAGATTTGTTT
Found at i:6103590 original size:52 final size:51
Alignment explanation
Indices: 6103533--6103659 Score: 173
Period size: 52 Copynumber: 2.5 Consensus size: 51
6103523 TAAGAGAAAG
* * *
6103533 AGGATTCTTAATAGGTAAGTTTGACTTGCAAGAGAATAATTCTAAAAGGAA
1 AGGATTCTTAATAGGCAAGTTTGACTTACAAGAGAAGAATTCTAAAAGGAA
* * *
6103584 ATGGATTCTTAATAGGCAAGTTTGACTTACAGGAGAAGAATTCTAAGAGGAG
1 A-GGATTCTTAATAGGCAAGTTTGACTTACAAGAGAAGAATTCTAAAAGGAA
*
6103636 AGAGATTCTTAATGGGCAAGTTTG
1 AG-GATTCTTAATAGGCAAGTTTG
6103660 TATGATTATA
Statistics
Matches: 67, Mismatches: 7, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
51 2 0.03
52 65 0.97
ACGTcount: A:0.37, C:0.09, G:0.25, T:0.29
Consensus pattern (51 bp):
AGGATTCTTAATAGGCAAGTTTGACTTACAAGAGAAGAATTCTAAAAGGAA
Found at i:6104220 original size:25 final size:26
Alignment explanation
Indices: 6104192--6104249 Score: 66
Period size: 25 Copynumber: 2.3 Consensus size: 26
6104182 AAGTGGTATT
6104192 AGAGCTGAAA-GTTTGAAACGTGGGA
1 AGAGCTGAAAGGTTTGAAACGTGGGA
* * *
6104217 AGAG-TCAAAGGTTTGAGATGTGGGA
1 AGAGCTGAAAGGTTTGAAACGTGGGA
*
6104242 ATAGCTGA
1 AGAGCTGA
6104250 TGGTTCGGGA
Statistics
Matches: 26, Mismatches: 5, Indels: 3
0.76 0.15 0.09
Matches are distributed among these distances:
24 4 0.15
25 20 0.77
26 2 0.08
ACGTcount: A:0.34, C:0.07, G:0.36, T:0.22
Consensus pattern (26 bp):
AGAGCTGAAAGGTTTGAAACGTGGGA
Found at i:6104551 original size:11 final size:11
Alignment explanation
Indices: 6104533--6104571 Score: 60
Period size: 11 Copynumber: 3.5 Consensus size: 11
6104523 ATCCCATAAA
6104533 AGATTTGTTTG
1 AGATTTGTTTG
*
6104544 AAATTTGTTTG
1 AGATTTGTTTG
*
6104555 AGATTTATTTG
1 AGATTTGTTTG
6104566 AGATTT
1 AGATTT
6104572 ATTAGATATT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
11 25 1.00
ACGTcount: A:0.26, C:0.00, G:0.21, T:0.54
Consensus pattern (11 bp):
AGATTTGTTTG
Found at i:6106489 original size:15 final size:15
Alignment explanation
Indices: 6106469--6106502 Score: 59
Period size: 15 Copynumber: 2.3 Consensus size: 15
6106459 GGAGGAGACC
6106469 GTGGTGGAAGAGGCG
1 GTGGTGGAAGAGGCG
*
6106484 GTGGTGGAAGAGGTG
1 GTGGTGGAAGAGGCG
6106499 GTGG
1 GTGG
6106503 CCGTGGTGGA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.18, C:0.03, G:0.62, T:0.18
Consensus pattern (15 bp):
GTGGTGGAAGAGGCG
Found at i:6112835 original size:2 final size:2
Alignment explanation
Indices: 6112830--6112857 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
6112820 AAACATGTTA
6112830 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
6112858 TCTCAAAAGT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:6115425 original size:21 final size:22
Alignment explanation
Indices: 6115401--6115441 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
6115391 GAGGAGAGGG
6115401 AAAGAAAAGAAAA-AAAAAAGA
1 AAAGAAAAGAAAACAAAAAAGA
* *
6115422 AAAGTAATGAAAACAAAAAA
1 AAAGAAAAGAAAACAAAAAA
6115442 ACTTTTTTTT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 11 0.65
22 6 0.35
ACGTcount: A:0.80, C:0.02, G:0.12, T:0.05
Consensus pattern (22 bp):
AAAGAAAAGAAAACAAAAAAGA
Found at i:6115933 original size:16 final size:17
Alignment explanation
Indices: 6115912--6115944 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
6115902 TATATGTTAC
6115912 TTTATAA-GAAAAAAAG
1 TTTATAATGAAAAAAAG
6115928 TTTATAATTGAAAAAAA
1 TTTATAA-TGAAAAAAA
6115945 AATTATAACA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 7 0.47
18 8 0.53
ACGTcount: A:0.61, C:0.00, G:0.09, T:0.30
Consensus pattern (17 bp):
TTTATAATGAAAAAAAG
Found at i:6119503 original size:2 final size:2
Alignment explanation
Indices: 6119498--6119523 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
6119488 GTTCATAGCC
6119498 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
6119524 TTCAATTTTC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:6128777 original size:20 final size:19
Alignment explanation
Indices: 6128752--6128789 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 19
6128742 TTCGTATCAT
*
6128752 ATTATCTTATCATATTTTAA
1 ATTATCATATC-TATTTTAA
6128772 ATTATCATATCTATTTTA
1 ATTATCATATCTATTTTA
6128790 TTTGAGTCAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 7 0.41
20 10 0.59
ACGTcount: A:0.34, C:0.11, G:0.00, T:0.55
Consensus pattern (19 bp):
ATTATCATATCTATTTTAA
Found at i:6129685 original size:5 final size:5
Alignment explanation
Indices: 6129677--6129711 Score: 52
Period size: 5 Copynumber: 7.0 Consensus size: 5
6129667 TAGAAAAAAC
* *
6129677 TTTTG TTTTG TTTTG TTTTG TTTTT TTTTT TTTTG
1 TTTTG TTTTG TTTTG TTTTG TTTTG TTTTG TTTTG
6129712 GGATAAGAAG
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
5 28 1.00
ACGTcount: A:0.00, C:0.00, G:0.14, T:0.86
Consensus pattern (5 bp):
TTTTG
Found at i:6132407 original size:71 final size:72
Alignment explanation
Indices: 6132310--6132458 Score: 275
Period size: 71 Copynumber: 2.1 Consensus size: 72
6132300 GAATATTAAT
6132310 AATAATTAAATAATACTTAAATATTAAAAAATAAGTATTATTTTTCTAGCCAAAGGTATTATTTA
1 AATAATTAAATAATACTTAAATATTAAAAAATAAGTATTATTTTTCTAGCCAAAGGTATTATTTA
6132375 ATACTTA
66 ATACTTA
6132382 AATAATTAAA-AATA-TGTAAATATTAAAAAATAAGTATTATTTTTCTAGCCAAAGGTATTATTT
1 AATAATTAAATAATACT-TAAATATTAAAAAATAAGTATTATTTTTCTAGCCAAAGGTATTATTT
6132445 AATACTTA
65 AATACTTA
6132453 AATAAT
1 AATAAT
6132459 CTTTTACATA
Statistics
Matches: 76, Mismatches: 0, Indels: 3
0.96 0.00 0.04
Matches are distributed among these distances:
70 1 0.01
71 65 0.86
72 10 0.13
ACGTcount: A:0.48, C:0.06, G:0.06, T:0.40
Consensus pattern (72 bp):
AATAATTAAATAATACTTAAATATTAAAAAATAAGTATTATTTTTCTAGCCAAAGGTATTATTTA
ATACTTA
Found at i:6134899 original size:24 final size:24
Alignment explanation
Indices: 6134859--6134905 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
6134849 AAACCATATC
6134859 ATATTATAATTATAAATA-AATTA
1 ATATTATAATTATAAATATAATTA
6134882 ATATTAATAATTGA-AAATATAATT
1 ATATT-ATAATT-ATAAATATAATT
6134906 CAAAAAAAAG
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
23 5 0.24
24 11 0.52
25 5 0.24
ACGTcount: A:0.55, C:0.00, G:0.02, T:0.43
Consensus pattern (24 bp):
ATATTATAATTATAAATATAATTA
Found at i:6135649 original size:22 final size:23
Alignment explanation
Indices: 6135604--6135649 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 23
6135594 TGTTCAATTT
*
6135604 ATTAAAATAAATAAAAAATTAAA
1 ATTAAAATAAATAAAAAATGAAA
* *
6135627 ATTAAATTAATTAAAAAA-GAAA
1 ATTAAAATAAATAAAAAATGAAA
6135649 A
1 A
6135650 CACTATGATT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
22 4 0.20
23 16 0.80
ACGTcount: A:0.72, C:0.00, G:0.02, T:0.26
Consensus pattern (23 bp):
ATTAAAATAAATAAAAAATGAAA
Found at i:6135874 original size:6 final size:6
Alignment explanation
Indices: 6135865--6135923 Score: 57
Period size: 6 Copynumber: 9.8 Consensus size: 6
6135855 TTAAAAACCA
* * * *
6135865 AAAATT AAAATT AAAA-T CAAATAA AAAACT AAAATT AAAATT AAAATC
1 AAAATT AAAATT AAAATT AAAAT-T AAAATT AAAATT AAAATT AAAATT
*
6135913 ATAATT AAAAT
1 AAAATT AAAAT
6135924 CTTTGGGCCC
Statistics
Matches: 41, Mismatches: 10, Indels: 4
0.75 0.18 0.07
Matches are distributed among these distances:
5 4 0.10
6 34 0.83
7 3 0.07
ACGTcount: A:0.68, C:0.05, G:0.00, T:0.27
Consensus pattern (6 bp):
AAAATT
Found at i:6135899 original size:30 final size:31
Alignment explanation
Indices: 6135856--6135922 Score: 100
Period size: 30 Copynumber: 2.2 Consensus size: 31
6135846 AAATTAAAGT
*
6135856 TAAAAACCAAAAATTAAAATTAAAATCA-AA
1 TAAAAAACAAAAATTAAAATTAAAATCATAA
*
6135886 TAAAAAACTAAAATTAAAATTAAAATCATAA
1 TAAAAAACAAAAATTAAAATTAAAATCATAA
*
6135917 TTAAAA
1 TAAAAA
6135923 TCTTTGGGCC
Statistics
Matches: 33, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
30 26 0.79
31 7 0.21
ACGTcount: A:0.69, C:0.07, G:0.00, T:0.24
Consensus pattern (31 bp):
TAAAAAACAAAAATTAAAATTAAAATCATAA
Found at i:6136152 original size:18 final size:18
Alignment explanation
Indices: 6136129--6136168 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
6136119 ATTCACAATT
* *
6136129 TAAAATTTCGAGGATTCA
1 TAAAATTTCAAAGATTCA
*
6136147 TAAAATTTTAAAGATTCA
1 TAAAATTTCAAAGATTCA
6136165 TAAA
1 TAAA
6136169 GCTCCATAAC
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.47, C:0.07, G:0.10, T:0.35
Consensus pattern (18 bp):
TAAAATTTCAAAGATTCA
Found at i:6136238 original size:18 final size:20
Alignment explanation
Indices: 6136204--6136244 Score: 59
Period size: 19 Copynumber: 2.1 Consensus size: 20
6136194 CTAAGACTCT
6136204 AAAATTCATAAAAAATTT-A
1 AAAATTCATAAAAAATTTCA
*
6136223 AAAATTCAT-AATAATTTCA
1 AAAATTCATAAAAAATTTCA
6136242 AAA
1 AAA
6136245 CTAAAAATTC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
18 7 0.35
19 13 0.65
ACGTcount: A:0.61, C:0.07, G:0.00, T:0.32
Consensus pattern (20 bp):
AAAATTCATAAAAAATTTCA
Found at i:6136404 original size:17 final size:17
Alignment explanation
Indices: 6136374--6136416 Score: 50
Period size: 17 Copynumber: 2.5 Consensus size: 17
6136364 TGAGATTCGT
* *
6136374 AAAAGTTTGAAGATTTTC
1 AAAAGTTT-CAGATTTAC
*
6136392 AAAGGTTTCAGATTTAC
1 AAAAGTTTCAGATTTAC
6136409 AAAAGTTT
1 AAAAGTTT
6136417 TAAGTTTCAC
Statistics
Matches: 21, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
17 14 0.67
18 7 0.33
ACGTcount: A:0.40, C:0.07, G:0.16, T:0.37
Consensus pattern (17 bp):
AAAAGTTTCAGATTTAC
Found at i:6136476 original size:17 final size:17
Alignment explanation
Indices: 6136454--6136517 Score: 67
Period size: 17 Copynumber: 3.8 Consensus size: 17
6136444 AAGAATTTTC
6136454 AGATTCGCAAGAATGGA
1 AGATTCGCAAGAATGGA
* **
6136471 AGATTCGCAAGACTTTA
1 AGATTCGCAAGAATGGA
**
6136488 A-ATTCATAAGAATGGA
1 AGATTCGCAAGAATGGA
*
6136504 ACATTCGCAAGAAT
1 AGATTCGCAAGAAT
6136518 TTAGACTCAC
Statistics
Matches: 36, Mismatches: 10, Indels: 2
0.75 0.21 0.04
Matches are distributed among these distances:
16 11 0.31
17 25 0.69
ACGTcount: A:0.42, C:0.14, G:0.20, T:0.23
Consensus pattern (17 bp):
AGATTCGCAAGAATGGA
Found at i:6136549 original size:16 final size:17
Alignment explanation
Indices: 6136507--6136600 Score: 66
Period size: 17 Copynumber: 5.6 Consensus size: 17
6136497 GAATGGAACA
*
6136507 TTCGCAAGAA-TTTAGA
1 TTCGCAAGAACTTTAGG
* * *
6136523 CTCACATGAA-TTTAGG
1 TTCGCAAGAACTTTAGG
* *
6136539 TTCGCAAGAATTTTGGG
1 TTCGCAAGAACTTTAGG
* *
6136556 TTCGCAAGAACTTCAAG
1 TTCGCAAGAACTTTAGG
* *
6136573 TTCACAAGAACTTTTAGA
1 TTCGCAAGAAC-TTTAGG
*
6136591 TTTGCAAGAA
1 TTCGCAAGAA
6136601 TTCAAATTCG
Statistics
Matches: 58, Mismatches: 18, Indels: 2
0.74 0.23 0.03
Matches are distributed among these distances:
16 19 0.33
17 28 0.48
18 11 0.19
ACGTcount: A:0.34, C:0.16, G:0.19, T:0.31
Consensus pattern (17 bp):
TTCGCAAGAACTTTAGG
Found at i:6136575 original size:17 final size:16
Alignment explanation
Indices: 6136555--6136626 Score: 54
Period size: 17 Copynumber: 4.2 Consensus size: 16
6136545 AGAATTTTGG
6136555 GTTCGCAAGAACTTCAA
1 GTTCGCAAGAA-TTCAA
* **
6136572 GTTCACAAGAACTTTTA
1 GTTCGCAAGAA-TTCAA
*
6136589 GATTTGCAAGAATTCAA
1 G-TTCGCAAGAATTCAA
* *
6136606 ATTCGAAAGAGATTCAA
1 GTTCGCAAGA-ATTCAA
6136623 GTTC
1 GTTC
6136627 ATAAAAACCT
Statistics
Matches: 42, Mismatches: 11, Indels: 4
0.74 0.19 0.07
Matches are distributed among these distances:
16 7 0.17
17 27 0.64
18 8 0.19
ACGTcount: A:0.38, C:0.17, G:0.17, T:0.29
Consensus pattern (16 bp):
GTTCGCAAGAATTCAA
Found at i:6137282 original size:130 final size:130
Alignment explanation
Indices: 6137111--6137421 Score: 421
Period size: 130 Copynumber: 2.4 Consensus size: 130
6137101 ATTTTCATCC
* *
6137111 AAAAAATTTTAGGGTTTCA-CAT-TATAATTTCAAATATTCACATTCAAAAAATTTTAGAGAGTC
1 AAAAAATTTTAGGGTTT-AGCATCTATAATTTCAAAGATTCACATTCGAAAAATTTTAGAGAGTC
** * * * *
6137174 ATTTCTAGAGTTTC-AGAGGTTCTTTTTTAAAAACTTTATAGCTTTACATCCAAAGATTCTTATT
65 ACATCTAAAGTTTCAAG-GGTTCTTTTTCAAAAACTTTATAGCTTCACATCCAAAGATTCTGATT
6137238 CA
129 CA
* * * *
6137240 AAAAAATTTTAGGGTTTAGCATCCATAATTTCAAAGACTCACATTTGAAAATTTTTAGAGAGTCA
1 AAAAAATTTTAGGGTTTAGCATCTATAATTTCAAAGATTCACATTCGAAAAATTTTAGAGAGTCA
* * *
6137305 CATCTAAAGTTTCAAGGGTTCTTTTTCAAAAACTTTATGGCTTCACATTCAAAGATTCTGATTCG
66 CATCTAAAGTTTCAAGGGTTCTTTTTCAAAAACTTTATAGCTTCACATCCAAAGATTCTGATTCA
* * *
6137370 AAAAAATTTTAGAGTTTTGCATCTATAATTTCAAAGATTCTCATTCGAAAAA
1 AAAAAATTTTAGGGTTTAGCATCTATAATTTCAAAGATTCACATTCGAAAAA
6137422 GCTCATTTAG
Statistics
Matches: 157, Mismatches: 22, Indels: 5
0.85 0.12 0.03
Matches are distributed among these distances:
128 1 0.01
129 20 0.13
130 134 0.85
131 2 0.01
ACGTcount: A:0.37, C:0.14, G:0.12, T:0.38
Consensus pattern (130 bp):
AAAAAATTTTAGGGTTTAGCATCTATAATTTCAAAGATTCACATTCGAAAAATTTTAGAGAGTCA
CATCTAAAGTTTCAAGGGTTCTTTTTCAAAAACTTTATAGCTTCACATCCAAAGATTCTGATTCA
Found at i:6141969 original size:3 final size:3
Alignment explanation
Indices: 6141961--6142034 Score: 116
Period size: 3 Copynumber: 25.3 Consensus size: 3
6141951 AAGAAAAGAA
*
6141961 AAT AAT AAT AAT AAT -AT AAT AAT AAT AAT AAT AAT AAT AAT CAT -AT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
*
6142007 AGT AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT A
6142035 GTGACATTAA
Statistics
Matches: 66, Mismatches: 3, Indels: 4
0.90 0.04 0.05
Matches are distributed among these distances:
2 4 0.06
3 62 0.94
ACGTcount: A:0.64, C:0.01, G:0.01, T:0.34
Consensus pattern (3 bp):
AAT
Found at i:6142006 original size:29 final size:29
Alignment explanation
Indices: 6141961--6142034 Score: 130
Period size: 29 Copynumber: 2.6 Consensus size: 29
6141951 AAGAAAAGAA
6141961 AATAATAATAATAATATAATAATAATAAT
1 AATAATAATAATAATATAATAATAATAAT
* *
6141990 AATAATAATAATCATATAGTAATAATAAT
1 AATAATAATAATAATATAATAATAATAAT
6142019 AATAATAATAATAATA
1 AATAATAATAATAATA
6142035 GTGACATTAA
Statistics
Matches: 42, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 42 1.00
ACGTcount: A:0.64, C:0.01, G:0.01, T:0.34
Consensus pattern (29 bp):
AATAATAATAATAATATAATAATAATAAT
Found at i:6142446 original size:56 final size:56
Alignment explanation
Indices: 6142386--6142565 Score: 125
Period size: 56 Copynumber: 3.2 Consensus size: 56
6142376 TGATCGAAAT
6142386 GAAACCATGAATCATAAGAAATGATCTAGACTGTGCCAAGATCAAGTGATTGGGAC
1 GAAACCATGAATCATAAGAAATGATCTAGACTGTGCCAAGATCAAGTGATTGGGAC
* * * * * * * * * *
6142442 GAAACTA-CAAGTCAAAATGAAGTGA-CTAGATCAAGTTG--AGGTTAAAAATGATTGAGAC
1 GAAACCATGAA-TCATAA-GAAATGATCTAGA-C-TG-TGCCAAGAT-CAAGTGATTGGGAC
* * * * * *
6142500 GAAATCATGAATCATAATAAATGATCTGGACTGAGCCAAGATCAAGTGATCGGGAT
1 GAAACCATGAATCATAAGAAATGATCTAGACTGTGCCAAGATCAAGTGATTGGGAC
*
6142556 AAAACCATGA
1 GAAACCATGA
6142566 GTCAAAATGA
Statistics
Matches: 86, Mismatches: 28, Indels: 20
0.64 0.21 0.15
Matches are distributed among these distances:
55 3 0.03
56 34 0.40
57 19 0.22
58 26 0.30
59 4 0.05
ACGTcount: A:0.42, C:0.14, G:0.22, T:0.22
Consensus pattern (56 bp):
GAAACCATGAATCATAAGAAATGATCTAGACTGTGCCAAGATCAAGTGATTGGGAC
Found at i:6142575 original size:114 final size:114
Alignment explanation
Indices: 6142386--6142777 Score: 423
Period size: 114 Copynumber: 3.4 Consensus size: 114
6142376 TGATCGAAAT
* * * * * * *
6142386 GAAACCATGAATCATAAGAAATGATCTAGACTGTGCCAAGATCAAGTGATTGGGACGAAACTACA
1 GAAACCATGAATCATAATAAATGATCTGGACTGAGCCAAGATCAAGTGATCGGGATGAAACCACG
* * *
6142451 AGTCAAAATGAAGTGACTAGATCAAGTTGAGGTTAAAAATGATTGAGAC
66 AGTCAAAATGAAGTGACAAGATCAAGTCGAGGTTAAAAATGACTGAGAC
* * *
6142500 GAAATCATGAATCATAATAAATGATCTGGACTGAGCCAAGATCAAGTGATCGGGATAAAACCATG
1 GAAACCATGAATCATAATAAATGATCTGGACTGAGCCAAGATCAAGTGATCGGGATGAAACCACG
* *
6142565 AGTCAAAATGAAGTGACCAGGATCGAGTCGAGGTCT-AAAATGACT-AGAC
66 AGTCAAAATGAAGTGA-CAAGATCAAGTCGAGGT-TAAAAATGACTGAGAC
* * * * * * *
6142614 AAAACCATGAATTATAA-AGAATGATTTGGACTAAGCTAAGATCATGTGATCGAGATGAAACCAC
1 GAAACCATGAATCATAATA-AATGATCTGGACTGAGCCAAGATCAAGTGATCGGGATGAAACCAC
* * * * * *
6142678 GAGTCAAAATAAAGCGACCAAGAT-AGAGTCGAGGTCAAAAATGACCGGGAT
65 GAGTCAAAATGAAGTGA-CAAGATCA-AGTCGAGGTTAAAAATGACTGAGAC
** * *
6142729 GAAACCACAAATCATAATAAATGATTTGGACTGAGCTAAGATCAAGTGA
1 GAAACCATGAATCATAATAAATGATCTGGACTGAGCCAAGATCAAGTGA
6142778 ATGATATAAA
Statistics
Matches: 232, Mismatches: 39, Indels: 13
0.82 0.14 0.05
Matches are distributed among these distances:
113 1 0.00
114 165 0.71
115 64 0.28
116 2 0.01
ACGTcount: A:0.42, C:0.15, G:0.22, T:0.21
Consensus pattern (114 bp):
GAAACCATGAATCATAATAAATGATCTGGACTGAGCCAAGATCAAGTGATCGGGATGAAACCACG
AGTCAAAATGAAGTGACAAGATCAAGTCGAGGTTAAAAATGACTGAGAC
Found at i:6154074 original size:17 final size:16
Alignment explanation
Indices: 6154052--6154090 Score: 60
Period size: 17 Copynumber: 2.4 Consensus size: 16
6154042 TTTTAAAAAC
6154052 TTTATTTGAAAAGATTT
1 TTTATTTGAAAA-ATTT
*
6154069 TTTATTTGAAAATTTT
1 TTTATTTGAAAAATTT
6154085 TTTATT
1 TTTATT
6154091 GAATCATTTT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
16 9 0.43
17 12 0.57
ACGTcount: A:0.31, C:0.00, G:0.08, T:0.62
Consensus pattern (16 bp):
TTTATTTGAAAAATTT
Found at i:6154092 original size:15 final size:16
Alignment explanation
Indices: 6154052--6154103 Score: 61
Period size: 16 Copynumber: 3.2 Consensus size: 16
6154042 TTTTAAAAAC
*
6154052 TTTATTTGAAAAGATTT
1 TTTATTTGAAAA-TTTT
6154069 TTTATTTGAAAATTTT
1 TTTATTTGAAAATTTT
*
6154085 TTTA-TTGAATCATTTT
1 TTTATTTGAA-AATTTT
6154101 TTT
1 TTT
6154104 CTTTTTTTTT
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
15 5 0.16
16 15 0.47
17 12 0.38
ACGTcount: A:0.29, C:0.02, G:0.08, T:0.62
Consensus pattern (16 bp):
TTTATTTGAAAATTTT
Found at i:6154212 original size:21 final size:21
Alignment explanation
Indices: 6154169--6154217 Score: 64
Period size: 21 Copynumber: 2.3 Consensus size: 21
6154159 AAAAAACCAA
6154169 AAAATAGTAAAAAATAAAAAAT
1 AAAATAGTAAAAAAT-AAAAAT
*
6154191 AAAATGAGTTAAAAAT-AAAAT
1 AAAAT-AGTAAAAAATAAAAAT
6154212 AAAATA
1 AAAATA
6154218 AATAAAATTA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
20 1 0.04
21 10 0.40
22 5 0.20
23 9 0.36
ACGTcount: A:0.73, C:0.00, G:0.06, T:0.20
Consensus pattern (21 bp):
AAAATAGTAAAAAATAAAAAT
Found at i:6154250 original size:16 final size:16
Alignment explanation
Indices: 6154184--6154250 Score: 66
Period size: 16 Copynumber: 4.2 Consensus size: 16
6154174 AGTAAAAAAT
**
6154184 AAAAAATAAAATGAGT
1 AAAAAATAAAATGAAA
*
6154200 TAAAAATAAAAT--AA
1 AAAAAATAAAATGAAA
* *
6154214 AATAAATAAAATTAGAA
1 AAAAAATAAAATGA-AA
6154231 AAAAAATAAAATGAAA
1 AAAAAATAAAATGAAA
6154247 AAAA
1 AAAA
6154251 GGAAAAACAT
Statistics
Matches: 41, Mismatches: 7, Indels: 6
0.76 0.13 0.11
Matches are distributed among these distances:
14 10 0.24
16 17 0.41
17 14 0.34
ACGTcount: A:0.76, C:0.00, G:0.06, T:0.18
Consensus pattern (16 bp):
AAAAAATAAAATGAAA
Found at i:6154494 original size:20 final size:19
Alignment explanation
Indices: 6154471--6154534 Score: 67
Period size: 20 Copynumber: 3.3 Consensus size: 19
6154461 AATAGAATCT
*
6154471 GAAAACTTTGTCGAATTCTA
1 GAAAATTTTGTCGAATT-TA
* *
6154491 GAAATTTTTGTCGAATTTT
1 GAAAATTTTGTCGAATTTA
*
6154510 GAAAATTTTGTTGAAATTTA
1 GAAAATTTTGTCG-AATTTA
6154530 -AAAAT
1 GAAAAT
6154535 CTTCGTCAGA
Statistics
Matches: 37, Mismatches: 6, Indels: 3
0.80 0.13 0.07
Matches are distributed among these distances:
19 17 0.46
20 20 0.54
ACGTcount: A:0.38, C:0.06, G:0.14, T:0.42
Consensus pattern (19 bp):
GAAAATTTTGTCGAATTTA
Found at i:6154518 original size:19 final size:19
Alignment explanation
Indices: 6154470--6154534 Score: 67
Period size: 19 Copynumber: 3.4 Consensus size: 19
6154460 AAATAGAATC
*
6154470 TGAAAACTTTGTCGAATTCT
1 TGAAAATTTTGTCGAATT-T
* *
6154490 AGAAATTTTTGTCGAATTT
1 TGAAAATTTTGTCGAATTT
* *
6154509 TGAAAATTTTGTTGAAATT
1 TGAAAATTTTGTCGAATTT
*
6154528 TAAAAAT
1 TGAAAAT
6154535 CTTCGTCAGA
Statistics
Matches: 37, Mismatches: 8, Indels: 1
0.80 0.17 0.02
Matches are distributed among these distances:
19 22 0.59
20 15 0.41
ACGTcount: A:0.37, C:0.06, G:0.14, T:0.43
Consensus pattern (19 bp):
TGAAAATTTTGTCGAATTT
Found at i:6154614 original size:32 final size:32
Alignment explanation
Indices: 6154554--6154629 Score: 91
Period size: 32 Copynumber: 2.4 Consensus size: 32
6154544 ATTCTAGGAA
** * *
6154554 TCTCGTCG-AAATCTCACTGAAAACTTCAAAC
1 TCTCGTCGAAAAAATCACCGAAAAATTCAAAC
6154585 TCTCGTCGAAAAAATCACCGAAAAATTCAAAC
1 TCTCGTCGAAAAAATCACCGAAAAATTCAAAC
* *
6154617 TTTCATCGAAAAA
1 TCTCGTCGAAAAA
6154630 TTCATCATAA
Statistics
Matches: 38, Mismatches: 6, Indels: 1
0.84 0.13 0.02
Matches are distributed among these distances:
31 8 0.21
32 30 0.79
ACGTcount: A:0.42, C:0.25, G:0.09, T:0.24
Consensus pattern (32 bp):
TCTCGTCGAAAAAATCACCGAAAAATTCAAAC
Found at i:6155158 original size:3 final size:3
Alignment explanation
Indices: 6155109--6155146 Score: 69
Period size: 3 Copynumber: 13.0 Consensus size: 3
6155099 AAAAAATGAA
6155109 AAT AA- AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
6155147 GACATTAATA
Statistics
Matches: 34, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
2 2 0.06
3 32 0.94
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:6156362 original size:21 final size:21
Alignment explanation
Indices: 6156338--6156424 Score: 74
Period size: 20 Copynumber: 4.1 Consensus size: 21
6156328 CATTAATCAA
*
6156338 ATAATACCATGCAATAATAAT
1 ATAATATCATGCAATAATAAT
6156359 ATAATATATCATGCAATAATAAT
1 AT-A-ATATCATGCAATAATAAT
*
6156382 A-AACTATCATACAATAAT-AT
1 ATAA-TATCATGCAATAATAAT
* *
6156402 -TAATTATCATACAATTA-AAT
1 ATAA-TATCATGCAATAATAAT
6156422 ATA
1 ATA
6156425 TTTAATAGAT
Statistics
Matches: 56, Mismatches: 4, Indels: 12
0.78 0.06 0.17
Matches are distributed among these distances:
20 19 0.34
21 18 0.32
22 1 0.02
23 18 0.32
ACGTcount: A:0.53, C:0.11, G:0.02, T:0.33
Consensus pattern (21 bp):
ATAATATCATGCAATAATAAT
Found at i:6156378 original size:20 final size:20
Alignment explanation
Indices: 6156353--6156416 Score: 78
Period size: 21 Copynumber: 3.1 Consensus size: 20
6156343 ACCATGCAAT
*
6156353 AATAATATAATATATCATGC
1 AATAATATAATATATCATAC
6156373 AATAATAATAA-ACTATCATAC
1 AATAAT-ATAATA-TATCATAC
6156394 AATAATATTAAT-TATCATAC
1 AATAATA-TAATATATCATAC
6156414 AAT
1 AAT
6156417 TAAATATATT
Statistics
Matches: 39, Mismatches: 1, Indels: 8
0.81 0.02 0.17
Matches are distributed among these distances:
20 19 0.49
21 20 0.51
ACGTcount: A:0.53, C:0.11, G:0.02, T:0.34
Consensus pattern (20 bp):
AATAATATAATATATCATAC
Found at i:6158956 original size:44 final size:44
Alignment explanation
Indices: 6158902--6159002 Score: 132
Period size: 44 Copynumber: 2.3 Consensus size: 44
6158892 TTTCTTTCCA
* *
6158902 AAAAAAAAAAAATTTTCTAAATAGACCCAAATAAT-AGAAAATTT
1 AAAAATAAAAAATATTCTAAATAGACCCAAATAATGA-AAAATTT
* **
6158946 AAAAATAAAAAATATTCTAAATAGGCCCAAATGGTGAAAAATTT
1 AAAAATAAAAAATATTCTAAATAGACCCAAATAATGAAAAATTT
6158990 AAAAATTAAAAAA
1 AAAAA-TAAAAAA
6159003 AAGATATTTC
Statistics
Matches: 50, Mismatches: 5, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
44 42 0.84
45 8 0.16
ACGTcount: A:0.61, C:0.08, G:0.07, T:0.24
Consensus pattern (44 bp):
AAAAATAAAAAATATTCTAAATAGACCCAAATAATGAAAAATTT
Found at i:6166694 original size:30 final size:27
Alignment explanation
Indices: 6166640--6166694 Score: 65
Period size: 27 Copynumber: 1.9 Consensus size: 27
6166630 TTTAATAAAA
*
6166640 ATAATATATTTTTTATCAATATATATT
1 ATAATATATTTTTTATCAAAATATATT
*
6166667 ATAATATATAATTTTTATGTAAAATATA
1 ATAATATAT--TTTTTAT-CAAAATATA
6166695 ATGTTAACAT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
27 9 0.39
29 7 0.30
30 7 0.30
ACGTcount: A:0.45, C:0.02, G:0.02, T:0.51
Consensus pattern (27 bp):
ATAATATATTTTTTATCAAAATATATT
Found at i:6166721 original size:28 final size:27
Alignment explanation
Indices: 6166690--6166750 Score: 63
Period size: 28 Copynumber: 2.3 Consensus size: 27
6166680 TTTATGTAAA
*
6166690 ATATAATGT-TAACATATAATTATTAAT
1 ATATAATGTATAAAATATAA-TATTAAT
* *
6166717 -TATATTTTTATAAAATATAATATTAAT
1 ATATA-ATGTATAAAATATAATATTAAT
6166744 ATATAAT
1 ATATAAT
6166751 TATTAATATT
Statistics
Matches: 27, Mismatches: 4, Indels: 6
0.73 0.11 0.16
Matches are distributed among these distances:
26 4 0.15
27 10 0.37
28 13 0.48
ACGTcount: A:0.49, C:0.02, G:0.02, T:0.48
Consensus pattern (27 bp):
ATATAATGTATAAAATATAATATTAAT
Found at i:6166748 original size:41 final size:44
Alignment explanation
Indices: 6166657--6166759 Score: 144
Period size: 41 Copynumber: 2.4 Consensus size: 44
6166647 ATTTTTTATC
*
6166657 AATATAT-ATTA-TAATATATAATTTTTATGTAAAATATAATGTT
1 AATATATAATTATTAATATATAATTTTTA-GTAAAATATAATATT
*
6166700 AACATATAATTATTAAT-TAT-ATTTTTA-TAAAATATAATATT
1 AATATATAATTATTAATATATAATTTTTAGTAAAATATAATATT
6166741 AATATATAATTATTAATAT
1 AATATATAATTATTAATAT
6166760 TTTGCGAACT
Statistics
Matches: 54, Mismatches: 3, Indels: 7
0.84 0.05 0.11
Matches are distributed among these distances:
41 29 0.54
42 1 0.02
43 13 0.24
44 7 0.13
45 4 0.07
ACGTcount: A:0.49, C:0.01, G:0.02, T:0.49
Consensus pattern (44 bp):
AATATATAATTATTAATATATAATTTTTAGTAAAATATAATATT
Found at i:6175115 original size:2 final size:2
Alignment explanation
Indices: 6175108--6175136 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
6175098 ATATGTGTTA
6175108 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
6175137 GTTGTTATTG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:6175232 original size:2 final size:2
Alignment explanation
Indices: 6175225--6175251 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
6175215 GTATTTTATC
6175225 TA 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 T
6175252 GTTGCGTGCG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:6175457 original size:2 final size:2
Alignment explanation
Indices: 6175450--6175476 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
6175440 TGAAAAGCTC
6175450 TA 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 T
6175477 TTGAGTAGTG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:6178694 original size:2 final size:2
Alignment explanation
Indices: 6178687--6178716 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
6178677 TCCATGAACC
6178687 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
6178717 TTTATTGGTG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:6182985 original size:3 final size:3
Alignment explanation
Indices: 6182964--6182998 Score: 52
Period size: 3 Copynumber: 11.7 Consensus size: 3
6182954 TAATTCACTG
* *
6182964 TTC TTT TTC TTC TTT TTC TTC TTC TTC TTC TTC TT
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TT
6182999 TAATATGATC
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.00, C:0.26, G:0.00, T:0.74
Consensus pattern (3 bp):
TTC
Found at i:6191394 original size:12 final size:12
Alignment explanation
Indices: 6191373--6191401 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
6191363 GAGTGAGTGG
6191373 TTTT-TAATTAA
1 TTTTATAATTAA
6191384 TTTTATAATTAA
1 TTTTATAATTAA
6191396 TTTTAT
1 TTTTAT
6191402 TAAAATTTAA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
11 4 0.24
12 13 0.76
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (12 bp):
TTTTATAATTAA
Found at i:6195241 original size:18 final size:18
Alignment explanation
Indices: 6195218--6195261 Score: 79
Period size: 18 Copynumber: 2.4 Consensus size: 18
6195208 TCATTGTCAT
6195218 CCTCAAATATATCCTCCA
1 CCTCAAATATATCCTCCA
*
6195236 CCTCAAATATATCTTCCA
1 CCTCAAATATATCCTCCA
6195254 CCTCAAAT
1 CCTCAAAT
6195262 GCATTAAGAA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 25 1.00
ACGTcount: A:0.34, C:0.36, G:0.00, T:0.30
Consensus pattern (18 bp):
CCTCAAATATATCCTCCA
Found at i:6198031 original size:26 final size:26
Alignment explanation
Indices: 6197984--6198037 Score: 74
Period size: 26 Copynumber: 2.0 Consensus size: 26
6197974 GTTGGGTCGT
*
6197984 ATTTGATTTTTATTTATCTTAAATTTA
1 ATTTAATTTTTATTTA-CTTAAATTTA
6198011 ATTTAATTTTATATTTA-TTAAATTTA
1 ATTTAATTTT-TATTTACTTAAATTTA
6198037 A
1 A
6198038 ATTCGATCTT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
26 10 0.40
27 9 0.36
28 6 0.24
ACGTcount: A:0.35, C:0.02, G:0.02, T:0.61
Consensus pattern (26 bp):
ATTTAATTTTTATTTACTTAAATTTA
Found at i:6198178 original size:21 final size:22
Alignment explanation
Indices: 6198136--6198188 Score: 76
Period size: 22 Copynumber: 2.5 Consensus size: 22
6198126 TCTAAAATTA
6198136 ATAAAATATTTTATTTTAAAAT
1 ATAAAATATTTTATTTTAAAAT
6198158 ATAAAATATTATT-TTTT-AAAT
1 ATAAAATATT-TTATTTTAAAAT
6198179 AT-AAATATTT
1 ATAAAATATTT
6198189 AAATATATAA
Statistics
Matches: 30, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
19 1 0.03
20 7 0.23
21 6 0.20
22 14 0.47
23 2 0.07
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (22 bp):
ATAAAATATTTTATTTTAAAAT
Done.