Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167993.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_25, 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: 17943224
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Warning! 94000 characters in sequence are not A, C, G, or T
File 11 of 100
Found at i:1982835 original size:25 final size:26
Alignment explanation
Indices: 1982786--1982833 Score: 82
Period size: 25 Copynumber: 1.9 Consensus size: 26
1982776 TTTCAAAAAT
1982786 TAAAAGTTTTCAAACTTATATTTTAA
1 TAAAAGTTTTCAAACTTATATTTTAA
1982812 TAAAA-TTTTCAAAC-TATATTTT
1 TAAAAGTTTTCAAACTTATATTTT
1982834 TATTTTTTAG
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
24 8 0.36
25 9 0.41
26 5 0.23
ACGTcount: A:0.42, C:0.08, G:0.02, T:0.48
Consensus pattern (26 bp):
TAAAAGTTTTCAAACTTATATTTTAA
Found at i:1983405 original size:19 final size:20
Alignment explanation
Indices: 1983383--1983423 Score: 57
Period size: 19 Copynumber: 2.1 Consensus size: 20
1983373 CCCCCCAACA
1983383 CCCCACCACACCCAATC-CT
1 CCCCACCACACCCAATCTCT
* *
1983402 CCCCACCCCATCCAATCTCT
1 CCCCACCACACCCAATCTCT
1983422 CC
1 CC
1983424 ACGTGCCTAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
19 15 0.79
20 4 0.21
ACGTcount: A:0.22, C:0.63, G:0.00, T:0.15
Consensus pattern (20 bp):
CCCCACCACACCCAATCTCT
Found at i:1985015 original size:15 final size:15
Alignment explanation
Indices: 1984995--1985027 Score: 50
Period size: 15 Copynumber: 2.2 Consensus size: 15
1984985 AAAATTATTT
1984995 AAAAAT-TTTGATTAA
1 AAAAATATTT-ATTAA
1985010 AAAAATATTTATTAA
1 AAAAATATTTATTAA
1985025 AAA
1 AAA
1985028 TTTTCAATGG
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 14 0.82
16 3 0.18
ACGTcount: A:0.61, C:0.00, G:0.03, T:0.36
Consensus pattern (15 bp):
AAAAATATTTATTAA
Found at i:1985506 original size:20 final size:21
Alignment explanation
Indices: 1985470--1985521 Score: 79
Period size: 21 Copynumber: 2.5 Consensus size: 21
1985460 CCCGAAATTA
1985470 ATAAAATATTATTTTTTAAAAT
1 ATAAAATATTA-TTTTTAAAAT
*
1985492 ATAAAATATTATTTTTTAAAT
1 ATAAAATATTATTTTTAAAAT
1985513 AT-AAATATT
1 ATAAAATATT
1985522 TAAAAATATC
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
20 7 0.24
21 11 0.38
22 11 0.38
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (21 bp):
ATAAAATATTATTTTTAAAAT
Found at i:1985512 original size:21 final size:22
Alignment explanation
Indices: 1985470--1985521 Score: 90
Period size: 22 Copynumber: 2.5 Consensus size: 22
1985460 CCCGAAATTA
1985470 ATAAAATATTATTTTTTAAAAT
1 ATAAAATATTATTTTTTAAAAT
1985492 ATAAAATATTATTTTTT-AAAT
1 ATAAAATATTATTTTTTAAAAT
1985513 AT-AAATATT
1 ATAAAATATT
1985522 TAAAAATATC
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
20 7 0.23
21 6 0.20
22 17 0.57
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (22 bp):
ATAAAATATTATTTTTTAAAAT
Found at i:1985530 original size:16 final size:16
Alignment explanation
Indices: 1985509--1985556 Score: 51
Period size: 16 Copynumber: 3.0 Consensus size: 16
1985499 ATTATTTTTT
*
1985509 AAATATAAATATTTAA
1 AAATATAAATATATAA
* *
1985525 AAATATCATTATATAA
1 AAATATAAATATATAA
* *
1985541 ATATATAAATAAATAA
1 AAATATAAATATATAA
1985557 TTAAATAATT
Statistics
Matches: 25, Mismatches: 7, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
16 25 1.00
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.35
Consensus pattern (16 bp):
AAATATAAATATATAA
Found at i:1985540 original size:24 final size:23
Alignment explanation
Indices: 1985511--1985581 Score: 79
Period size: 24 Copynumber: 3.0 Consensus size: 23
1985501 TATTTTTTAA
*
1985511 ATATAAATATTTAAAAATATCATT
1 ATATAAATATTTAAAAA-ATAATT
*
1985535 ATATAAATATATAAATAAATAATT
1 ATATAAATATTTAAA-AAATAATT
* * *
1985559 AAATAATTAATTAAAAAATAATT
1 ATATAAATATTTAAAAAATAATT
1985582 TTTTATATAA
Statistics
Matches: 40, Mismatches: 6, Indels: 3
0.82 0.12 0.06
Matches are distributed among these distances:
23 8 0.20
24 30 0.75
25 2 0.05
ACGTcount: A:0.61, C:0.01, G:0.00, T:0.38
Consensus pattern (23 bp):
ATATAAATATTTAAAAAATAATT
Found at i:1985554 original size:12 final size:12
Alignment explanation
Indices: 1985513--1985581 Score: 63
Period size: 12 Copynumber: 5.8 Consensus size: 12
1985503 TTTTTTAAAT
*
1985513 ATAAATATTTAA
1 ATAAATAATTAA
* *
1985525 A-AATATCATTAT
1 ATAA-ATAATTAA
1985537 ATAAAT-ATATAA
1 ATAAATAAT-TAA
1985549 ATAAATAATTAA
1 ATAAATAATTAA
*
1985561 ATAATTAATTAA
1 ATAAATAATTAA
1985573 A-AAATAATT
1 ATAAATAATT
1985582 TTTTATATAA
Statistics
Matches: 47, Mismatches: 6, Indels: 9
0.76 0.10 0.15
Matches are distributed among these distances:
11 11 0.23
12 32 0.68
13 4 0.09
ACGTcount: A:0.61, C:0.01, G:0.00, T:0.38
Consensus pattern (12 bp):
ATAAATAATTAA
Found at i:1987604 original size:2 final size:2
Alignment explanation
Indices: 1987597--1987629 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
1987587 CAGCAGATTC
1987597 TA TA TA 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 TA TA TA T
1987630 GTATTTTTTT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:1989515 original size:13 final size:13
Alignment explanation
Indices: 1989497--1989547 Score: 61
Period size: 13 Copynumber: 4.1 Consensus size: 13
1989487 TATTTATTTT
1989497 ATATTAAATTTAA
1 ATATTAAATTTAA
* *
1989510 ATATTAAATGTAT
1 ATATTAAATTTAA
*
1989523 ATATTAGATTT-A
1 ATATTAAATTTAA
1989535 A-ATTAAATTTAA
1 ATATTAAATTTAA
1989547 A
1 A
1989548 ATCAAAAAAT
Statistics
Matches: 31, Mismatches: 6, Indels: 3
0.77 0.15 0.08
Matches are distributed among these distances:
11 8 0.26
12 3 0.10
13 20 0.65
ACGTcount: A:0.51, C:0.00, G:0.04, T:0.45
Consensus pattern (13 bp):
ATATTAAATTTAA
Found at i:1990057 original size:23 final size:23
Alignment explanation
Indices: 1990026--1990072 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 23
1990016 CTTACGAACC
* *
1990026 TAATCAAAT-TTTTATATTTTAAT
1 TAATAAAATATTTTA-AATTTAAT
1990049 TAATAAAATATTTTAAATTTAAT
1 TAATAAAATATTTTAAATTTAAT
1990072 T
1 T
1990073 TTAAATTTAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
23 16 0.76
24 5 0.24
ACGTcount: A:0.45, C:0.02, G:0.00, T:0.53
Consensus pattern (23 bp):
TAATAAAATATTTTAAATTTAAT
Found at i:1990075 original size:12 final size:12
Alignment explanation
Indices: 1990058--1990082 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
1990048 TTAATAAAAT
1990058 ATTTTAAATTTA
1 ATTTTAAATTTA
1990070 ATTTTAAATTTA
1 ATTTTAAATTTA
1990082 A
1 A
1990083 ATACAAATAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (12 bp):
ATTTTAAATTTA
Found at i:1998569 original size:60 final size:60
Alignment explanation
Indices: 1998496--1998615 Score: 204
Period size: 60 Copynumber: 2.0 Consensus size: 60
1998486 CATAATACCC
* * *
1998496 CCATTAGACTTCCTTCCATTTGACAGCCTGCCCTTTGTTCCTTCTACCGAGGTTATCTTG
1 CCATTAGACTTCCTTCCATTTGAAAGCCTGCCATTTGTTCCTTCTACCGAGATTATCTTG
*
1998556 CCATTAGACTTCCTTCCATTTGAAAGCCTGCCATTTGTTCCTTCTACTGAGATTATCTTG
1 CCATTAGACTTCCTTCCATTTGAAAGCCTGCCATTTGTTCCTTCTACCGAGATTATCTTG
1998616 TAATTTTCTC
Statistics
Matches: 56, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
60 56 1.00
ACGTcount: A:0.17, C:0.29, G:0.14, T:0.39
Consensus pattern (60 bp):
CCATTAGACTTCCTTCCATTTGAAAGCCTGCCATTTGTTCCTTCTACCGAGATTATCTTG
Found at i:2003029 original size:30 final size:30
Alignment explanation
Indices: 2002950--2003029 Score: 81
Period size: 30 Copynumber: 2.6 Consensus size: 30
2002940 GATAGGTATG
*
2002950 ATAATTTTTATAT-TTATATTATATAAAAT
1 ATAAATTTTATATATTATATTATATAAAAT
* ***
2002979 ATTAAAATTTATATATTTATATTATATTTTAT
1 A-TAAATTTTATATA-TTATATTATATAAAAT
*
2003011 ATAAATTTTATGTATTATA
1 ATAAATTTTATATATTATA
2003030 AATTATGTTG
Statistics
Matches: 41, Mismatches: 7, Indels: 5
0.77 0.13 0.09
Matches are distributed among these distances:
29 1 0.02
30 15 0.37
31 11 0.27
32 14 0.34
ACGTcount: A:0.42, C:0.00, G:0.01, T:0.56
Consensus pattern (30 bp):
ATAAATTTTATATATTATATTATATAAAAT
Found at i:2003116 original size:24 final size:22
Alignment explanation
Indices: 2003066--2003127 Score: 65
Period size: 24 Copynumber: 2.8 Consensus size: 22
2003056 TATTTTTTTT
2003066 TAATT-TTATTAAATTTAAATA
1 TAATTATTATTAAATTTAAATA
2003087 TAATTATTATTAAAATTTTAAAT-
1 TAATTATTATT-AAA-TTTAAATA
* *
2003110 TATATTATTTTTATATTT
1 TA-ATTATTATTAAATTT
2003128 TATATTTTTA
Statistics
Matches: 35, Mismatches: 2, Indels: 7
0.80 0.05 0.16
Matches are distributed among these distances:
21 5 0.14
22 8 0.23
23 7 0.20
24 15 0.43
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (22 bp):
TAATTATTATTAAATTTAAATA
Found at i:2003167 original size:24 final size:25
Alignment explanation
Indices: 2003108--2003169 Score: 76
Period size: 24 Copynumber: 2.6 Consensus size: 25
2003098 AAAATTTTAA
*
2003108 ATTATATTATTTTTATATTTTATATT
1 ATTATATTATATTTATA-TTTATATT
*
2003134 -TT-TATCATATTTATA-TTATATT
1 ATTATATTATATTTATATTTATATT
2003156 ATTATATTATATTT
1 ATTATATTATATTT
2003170 TAAATTATTA
Statistics
Matches: 31, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
22 7 0.23
23 2 0.06
24 20 0.65
25 2 0.06
ACGTcount: A:0.32, C:0.02, G:0.00, T:0.66
Consensus pattern (25 bp):
ATTATATTATATTTATATTTATATT
Found at i:2003187 original size:24 final size:24
Alignment explanation
Indices: 2003074--2003187 Score: 71
Period size: 24 Copynumber: 4.8 Consensus size: 24
2003064 TTTAATTTTA
2003074 TTAAA-TTTAAA-TATAATTAT-TAT
1 TTAAATTTTAAATTAT-ATTATAT-T
*
2003097 TAAAATTTTAAATTATATTAT-TT
1 TTAAATTTTAAATTATATTATATT
* *
2003120 TTATATTTTATATT-T-TTATCATAT
1 TTAAATTTTAAATTATATTAT-AT-T
* * *
2003144 TTATATTATATTATTATATTATATT
1 TTAAATTTTA-AATTATATTATATT
2003169 TTAAATTATTAAATT-TATT
1 TTAAATT-TTAAATTATATT
2003188 TTAAGGTACG
Statistics
Matches: 74, Mismatches: 8, Indels: 17
0.75 0.08 0.17
Matches are distributed among these distances:
21 4 0.05
22 1 0.01
23 17 0.23
24 26 0.35
25 17 0.23
26 5 0.07
27 4 0.05
ACGTcount: A:0.39, C:0.01, G:0.00, T:0.60
Consensus pattern (24 bp):
TTAAATTTTAAATTATATTATATT
Found at i:2004797 original size:23 final size:22
Alignment explanation
Indices: 2004741--2004798 Score: 59
Period size: 24 Copynumber: 2.6 Consensus size: 22
2004731 TATATATAAT
2004741 TATATA-TTTA-TATTTAAAAA
1 TATATATTTTATTATTTAAAAA
*
2004761 TA-ATATTTTATATTTTTTAAAAAA
1 TATATA-TTT-TATTATTT-AAAAA
2004785 TATATATTTTATTA
1 TATATATTTTATTA
2004799 ATTTCAGATC
Statistics
Matches: 30, Mismatches: 2, Indels: 9
0.73 0.05 0.22
Matches are distributed among these distances:
19 3 0.10
20 2 0.07
21 2 0.07
22 2 0.07
23 8 0.27
24 10 0.33
25 3 0.10
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (22 bp):
TATATATTTTATTATTTAAAAA
Found at i:2009595 original size:25 final size:23
Alignment explanation
Indices: 2009567--2009626 Score: 66
Period size: 24 Copynumber: 2.5 Consensus size: 23
2009557 AAATCCATCC
**
2009567 ATTAAATGTAATTTATATAATAAAA
1 ATTAAATAAAATTT-TA-AATAAAA
2009592 ATTAAATAAAATTTTAAATAAAA
1 ATTAAATAAAATTTTAAATAAAA
*
2009615 TATAAAATAAAA
1 -ATTAAATAAAA
2009627 ATTCACATAT
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
23 7 0.23
24 12 0.39
25 12 0.39
ACGTcount: A:0.63, C:0.00, G:0.02, T:0.35
Consensus pattern (23 bp):
ATTAAATAAAATTTTAAATAAAA
Found at i:2009610 original size:12 final size:12
Alignment explanation
Indices: 2009585--2009626 Score: 59
Period size: 12 Copynumber: 3.6 Consensus size: 12
2009575 TAATTTATAT
2009585 AATAAAA-ATTA
1 AATAAAATATTA
*
2009596 AATAAAATTTTA
1 AATAAAATATTA
*
2009608 AATAAAATATAA
1 AATAAAATATTA
2009620 AATAAAA
1 AATAAAA
2009627 ATTCACATAT
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
11 7 0.26
12 20 0.74
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (12 bp):
AATAAAATATTA
Found at i:2011296 original size:23 final size:21
Alignment explanation
Indices: 2011270--2011317 Score: 53
Period size: 23 Copynumber: 2.2 Consensus size: 21
2011260 ATCTCAACTT
2011270 ATATATT-ATAATAAAATTTTAAA
1 ATATATTGAT-ATAAAA--TTAAA
*
2011293 ATATCTTGATATAAAATTAAA
1 ATATATTGATATAAAATTAAA
2011314 ATAT
1 ATAT
2011318 CATAATTATA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
21 9 0.39
23 12 0.52
24 2 0.09
ACGTcount: A:0.54, C:0.02, G:0.02, T:0.42
Consensus pattern (21 bp):
ATATATTGATATAAAATTAAA
Found at i:2011312 original size:21 final size:21
Alignment explanation
Indices: 2011288--2011335 Score: 62
Period size: 21 Copynumber: 2.3 Consensus size: 21
2011278 TAATAAAATT
* *
2011288 TTAAAATATCTTGA-TATAAAA
1 TTAAAATATCATAATTAT-AAA
2011309 TTAAAATATCATAATTATAAA
1 TTAAAATATCATAATTATAAA
2011330 TTAAAA
1 TTAAAA
2011336 ACAAAAAATG
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
21 21 0.88
22 3 0.12
ACGTcount: A:0.56, C:0.04, G:0.02, T:0.38
Consensus pattern (21 bp):
TTAAAATATCATAATTATAAA
Found at i:2020844 original size:19 final size:21
Alignment explanation
Indices: 2020820--2020862 Score: 63
Period size: 19 Copynumber: 2.1 Consensus size: 21
2020810 AGAAATAAGT
*
2020820 AAATCAAAAT-TA-AAATTAA
1 AAATCAAAATCAATAAATTAA
2020839 AAATCAAAATCAATAAATTAA
1 AAATCAAAATCAATAAATTAA
2020860 AAA
1 AAA
2020863 ATTTCATCAC
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 10 0.48
20 1 0.05
21 10 0.48
ACGTcount: A:0.70, C:0.07, G:0.00, T:0.23
Consensus pattern (21 bp):
AAATCAAAATCAATAAATTAA
Found at i:2021743 original size:11 final size:11
Alignment explanation
Indices: 2021729--2021815 Score: 54
Period size: 11 Copynumber: 7.6 Consensus size: 11
2021719 AATAATAATT
2021729 TTATAATTAAA
1 TTATAATTAAA
2021740 TTATGAATTATTTAAA
1 TTAT--A--AT-TAAA
2021756 TTATAATTAAA
1 TTATAATTAAA
2021767 TT-TAATTAAA
1 TTATAATTAAA
* * *
2021777 TAATGATCAAA
1 TTATAATTAAA
2021788 TTA-AATTTAAA
1 TTATAA-TTAAA
* *
2021799 TTTTATTTAAA
1 TTATAATTAAA
2021810 TT-TAAT
1 TTATAAT
2021816 CGATATAATA
Statistics
Matches: 59, Mismatches: 9, Indels: 17
0.69 0.11 0.20
Matches are distributed among these distances:
10 13 0.22
11 31 0.53
12 3 0.05
13 1 0.02
14 1 0.02
15 2 0.03
16 8 0.14
ACGTcount: A:0.48, C:0.01, G:0.02, T:0.48
Consensus pattern (11 bp):
TTATAATTAAA
Found at i:2021756 original size:16 final size:15
Alignment explanation
Indices: 2021735--2021764 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
2021725 AATTTTATAA
2021735 TTAAATTATGAATTAT
1 TTAAATTAT-AATTAT
2021751 TTAAATTATAATTA
1 TTAAATTATAATTA
2021765 AATTTAATTA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (15 bp):
TTAAATTATAATTAT
Found at i:2034367 original size:27 final size:26
Alignment explanation
Indices: 2034337--2034406 Score: 68
Period size: 27 Copynumber: 2.6 Consensus size: 26
2034327 ATAATATTTA
2034337 AATTTTAAAATTTAAAATTTAATGAAT
1 AATTTTAAAATTTAAAA-TTAATGAAT
* * * *
2034364 AATTTTTTAAATATAATATTAATTAAT
1 AA-TTTTAAAATTTAAAATTAATGAAT
* *
2034391 AAATTTATAATTTAAA
1 AATTTTAAAATTTAAA
2034407 TATCATATTA
Statistics
Matches: 33, Mismatches: 9, Indels: 3
0.73 0.20 0.07
Matches are distributed among these distances:
26 9 0.27
27 12 0.36
28 12 0.36
ACGTcount: A:0.51, C:0.00, G:0.01, T:0.47
Consensus pattern (26 bp):
AATTTTAAAATTTAAAATTAATGAAT
Found at i:2034408 original size:27 final size:27
Alignment explanation
Indices: 2034335--2034423 Score: 67
Period size: 27 Copynumber: 3.3 Consensus size: 27
2034325 ATATAATATT
* *
2034335 TAAATTTTAAAATTTAAA-ATTTAATGAA
1 TAAA-TTTATAATTTAAATA-TTAATTAA
* * *
2034363 TAATTTTTTAA-ATATAATATTAATTAA
1 TAAATTTATAATTTA-AATATTAATTAA
*
2034390 TAAATTTATAATTTAAATATCATATTAA
1 TAAATTTATAATTTAAATATTA-ATTAA
2034418 -AAATTT
1 TAAATTT
2034424 TTAAAATTCA
Statistics
Matches: 48, Mismatches: 9, Indels: 9
0.73 0.14 0.14
Matches are distributed among these distances:
26 2 0.04
27 35 0.73
28 11 0.23
ACGTcount: A:0.51, C:0.01, G:0.01, T:0.47
Consensus pattern (27 bp):
TAAATTTATAATTTAAATATTAATTAA
Found at i:2048336 original size:16 final size:16
Alignment explanation
Indices: 2048315--2048379 Score: 53
Period size: 16 Copynumber: 3.9 Consensus size: 16
2048305 TTCTGTTAAT
2048315 TATTATTATTAATTTG
1 TATTATTATTAATTTG
*
2048331 TATTATT-TGTTATTAATG
1 TATTATTAT-TAATT--TG
*
2048349 TTATTAATATTCAATTTG
1 -TATTATTATT-AATTTG
2048367 -ATTATTATTAATT
1 TATTATTATTAATT
2048380 GTTTTGTTTA
Statistics
Matches: 39, Mismatches: 4, Indels: 13
0.70 0.07 0.23
Matches are distributed among these distances:
15 5 0.13
16 19 0.49
18 4 0.10
19 7 0.18
20 4 0.10
ACGTcount: A:0.32, C:0.02, G:0.06, T:0.60
Consensus pattern (16 bp):
TATTATTATTAATTTG
Found at i:2052515 original size:31 final size:33
Alignment explanation
Indices: 2052480--2052541 Score: 92
Period size: 34 Copynumber: 1.9 Consensus size: 33
2052470 GGTTAAAAGA
2052480 AACCTCATT-AAT-GTTAAAAAAAAAAAAGCAT
1 AACCTCATTGAATGGTTAAAAAAAAAAAAGCAT
*
2052511 AACCTCATTGATTGGGTTAAAAAAAAAAAAG
1 AACCTCATTGAAT-GGTTAAAAAAAAAAAAG
2052542 AAACAGAAAG
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
31 9 0.33
32 2 0.07
34 16 0.59
ACGTcount: A:0.55, C:0.11, G:0.11, T:0.23
Consensus pattern (33 bp):
AACCTCATTGAATGGTTAAAAAAAAAAAAGCAT
Found at i:2052858 original size:26 final size:25
Alignment explanation
Indices: 2052808--2052867 Score: 68
Period size: 26 Copynumber: 2.3 Consensus size: 25
2052798 ATAACTTTTT
2052808 AATTTTTATATAATATAAATTATATA
1 AATTTTTATATAATATAAA-TATATA
*
2052834 AATTGTTTATTTAATAATAAA-ATATA
1 AATT-TTTATATAAT-ATAAATATATA
2052860 AATATTTT
1 AAT-TTTT
2052868 TTTATTTTAT
Statistics
Matches: 30, Mismatches: 1, Indels: 6
0.81 0.03 0.16
Matches are distributed among these distances:
26 15 0.50
27 10 0.33
28 5 0.17
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (25 bp):
AATTTTTATATAATATAAATATATA
Found at i:2052872 original size:29 final size:27
Alignment explanation
Indices: 2052810--2052874 Score: 69
Period size: 27 Copynumber: 2.3 Consensus size: 27
2052800 AACTTTTTAA
* *
2052810 TTTTTATATAATATAAATTATATAAAT
1 TTTTTATTTAATATAAAATATATAAAT
*
2052837 TGTTTATTTAATAATAAAATATA-AATATT
1 TTTTTATTTAAT-ATAAAATATATAA-A-T
2052866 TTTTTATTT
1 TTTTTATTT
2052875 TATTTTTAAA
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
27 12 0.39
28 10 0.32
29 9 0.29
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.55
Consensus pattern (27 bp):
TTTTTATTTAATATAAAATATATAAAT
Found at i:2061462 original size:30 final size:29
Alignment explanation
Indices: 2061426--2061494 Score: 79
Period size: 30 Copynumber: 2.3 Consensus size: 29
2061416 TTTAATTTTA
2061426 TTAAATTCATA-TATA-ATTATCATTAAAATT
1 TTAAATT-ATATTATATATTAT-ATT-AAATT
*
2061456 TTAAATTATATTATATTATTATATTATATT
1 TTAAATTATATTATA-TATTATATTAAATT
2061486 TTAAATTAT
1 TTAAATTAT
2061495 TATGTTTAGA
Statistics
Matches: 35, Mismatches: 1, Indels: 6
0.83 0.02 0.14
Matches are distributed among these distances:
29 3 0.09
30 24 0.69
31 3 0.09
32 5 0.14
ACGTcount: A:0.43, C:0.03, G:0.00, T:0.54
Consensus pattern (29 bp):
TTAAATTATATTATATATTATATTAAATT
Found at i:2061476 original size:13 final size:13
Alignment explanation
Indices: 2061460--2061494 Score: 54
Period size: 13 Copynumber: 2.8 Consensus size: 13
2061450 AAAATTTTAA
2061460 ATTATATTATATT
1 ATTATATTATATT
2061473 ATTATATTATATT
1 ATTATATTATATT
*
2061486 -TTAAATTAT
1 ATTATATTAT
2061495 TATGTTTAGA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
12 8 0.38
13 13 0.62
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (13 bp):
ATTATATTATATT
Found at i:2062121 original size:18 final size:18
Alignment explanation
Indices: 2062098--2062135 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
2062088 TATATATATA
*
2062098 AATTTT-TATTATTTATTT
1 AATTTTATATT-TATATTT
2062116 AATTTTATATTTATATTT
1 AATTTTATATTTATATTT
2062134 AA
1 AA
2062136 AAATAATATT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 14 0.78
19 4 0.22
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (18 bp):
AATTTTATATTTATATTT
Found at i:2062148 original size:20 final size:20
Alignment explanation
Indices: 2062125--2062165 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
2062115 TAATTTTATA
2062125 TTTATATTTAAAAATAATAT
1 TTTATATTTAAAAATAATAT
2062145 TTTATATTTAAAAATAATAT
1 TTTATATTTAAAAATAATAT
2062165 T
1 T
2062166 AAATAATATT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (20 bp):
TTTATATTTAAAAATAATAT
Found at i:2062170 original size:30 final size:31
Alignment explanation
Indices: 2062136--2062196 Score: 97
Period size: 30 Copynumber: 2.0 Consensus size: 31
2062126 TTATATTTAA
*
2062136 AAATAATATTTTATATTTAAAAA-TAATATT
1 AAATAATATTTTATATTAAAAAATTAATATT
*
2062166 AAATAATATTTTGTATTAAAAAATTAATATT
1 AAATAATATTTTATATTAAAAAATTAATATT
2062197 TTATTAATTT
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
30 21 0.75
31 7 0.25
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.46
Consensus pattern (31 bp):
AAATAATATTTTATATTAAAAAATTAATATT
Found at i:2062301 original size:23 final size:22
Alignment explanation
Indices: 2062255--2062322 Score: 70
Period size: 23 Copynumber: 3.2 Consensus size: 22
2062245 AACCATATTG
2062255 AATTTAAATAT-AAA-A-ATAA
1 AATTTAAATATCAAATATATAA
* *
2062274 TATTTTAATATCAAATCATATAA
1 AATTTAAATATCAAAT-ATATAA
* *
2062297 AATTTAAATATTAAATTTATAA
1 AATTTAAATATCAAATATATAA
2062319 AATT
1 AATT
2062323 AAGTCGAATT
Statistics
Matches: 39, Mismatches: 6, Indels: 5
0.78 0.12 0.10
Matches are distributed among these distances:
19 9 0.23
20 3 0.08
22 10 0.26
23 17 0.44
ACGTcount: A:0.56, C:0.03, G:0.00, T:0.41
Consensus pattern (22 bp):
AATTTAAATATCAAATATATAA
Found at i:2062795 original size:21 final size:20
Alignment explanation
Indices: 2062756--2062794 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 20
2062746 ACATAATATC
2062756 TCATTTGTTTTTTTTTTTTG
1 TCATTTGTTTTTTTTTTTTG
2062776 TCATTT-TTTTTTATTTTTT
1 TCATTTGTTTTTT-TTTTTT
2062795 TAATTAGATA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 6 0.33
20 12 0.67
ACGTcount: A:0.08, C:0.05, G:0.05, T:0.82
Consensus pattern (20 bp):
TCATTTGTTTTTTTTTTTTG
Found at i:2063183 original size:15 final size:15
Alignment explanation
Indices: 2063163--2063196 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
2063153 GAATTTTATC
* *
2063163 AATATTTTTATTAAA
1 AATATTTATATAAAA
2063178 AATATTTATATAAAA
1 AATATTTATATAAAA
2063193 AATA
1 AATA
2063197 CATATAAAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (15 bp):
AATATTTATATAAAA
Found at i:2072036 original size:2 final size:2
Alignment explanation
Indices: 2072025--2072055 Score: 55
Period size: 2 Copynumber: 16.0 Consensus size: 2
2072015 AGAAGTTGCC
2072025 AT AT -T AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
2072056 TTGTACTTTT
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 27 0.96
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
AT
Found at i:2086247 original size:18 final size:18
Alignment explanation
Indices: 2086224--2086261 Score: 76
Period size: 18 Copynumber: 2.1 Consensus size: 18
2086214 CTTGTTGTAC
2086224 ATATAAATGAAAGATCGT
1 ATATAAATGAAAGATCGT
2086242 ATATAAATGAAAGATCGT
1 ATATAAATGAAAGATCGT
2086260 AT
1 AT
2086262 TTTGAAAGGG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.50, C:0.05, G:0.16, T:0.29
Consensus pattern (18 bp):
ATATAAATGAAAGATCGT
Found at i:2093911 original size:15 final size:14
Alignment explanation
Indices: 2093891--2093923 Score: 57
Period size: 14 Copynumber: 2.4 Consensus size: 14
2093881 ATTATTATTA
*
2093891 TTTTTTTTTCTTTC
1 TTTTTTTTTCCTTC
2093905 TTTTTTTTTCCTTC
1 TTTTTTTTTCCTTC
2093919 TTTTT
1 TTTTT
2093924 CTTCCTTATC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.00, C:0.15, G:0.00, T:0.85
Consensus pattern (14 bp):
TTTTTTTTTCCTTC
Found at i:2094196 original size:20 final size:20
Alignment explanation
Indices: 2094171--2094234 Score: 73
Period size: 19 Copynumber: 3.4 Consensus size: 20
2094161 AGACCCACAA
2094171 AAAAAAGATTTTTTCAGAAT
1 AAAAAAGATTTTTTCAGAAT
* *
2094191 AAAAAAG-TGTTTCCAGAAT
1 AAAAAAGATTTTTTCAGAAT
*
2094210 AAAAAA-TTTTTTTCAG--T
1 AAAAAAGATTTTTTCAGAAT
2094227 AAAAAAGA
1 AAAAAAGA
2094235 CAAATAAAAA
Statistics
Matches: 37, Mismatches: 5, Indels: 6
0.77 0.10 0.12
Matches are distributed among these distances:
17 7 0.19
19 23 0.62
20 7 0.19
ACGTcount: A:0.52, C:0.06, G:0.11, T:0.31
Consensus pattern (20 bp):
AAAAAAGATTTTTTCAGAAT
Found at i:2094894 original size:10 final size:11
Alignment explanation
Indices: 2094872--2094896 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
2094862 AAAAAAAATA
2094872 TTTTTGAATTT
1 TTTTTGAATTT
2094883 TTTTTGAATTT
1 TTTTTGAATTT
2094894 TTT
1 TTT
2094897 ATATTATTTT
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:0.16, C:0.00, G:0.08, T:0.76
Consensus pattern (11 bp):
TTTTTGAATTT
Found at i:2095219 original size:18 final size:16
Alignment explanation
Indices: 2095173--2095222 Score: 55
Period size: 18 Copynumber: 2.9 Consensus size: 16
2095163 TTTTTATTAT
2095173 AAAATAATAATAAATA
1 AAAATAATAATAAATA
2095189 AAAACTAATTAATAAATTA
1 AAAA-TAA-TAATAAA-TA
*
2095208 AGAATAAGTAATAAA
1 AAAATAA-TAATAAA
2095223 AAATGAGACA
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
16 4 0.14
17 3 0.10
18 17 0.59
19 5 0.17
ACGTcount: A:0.68, C:0.02, G:0.04, T:0.26
Consensus pattern (16 bp):
AAAATAATAATAAATA
Found at i:2096162 original size:18 final size:19
Alignment explanation
Indices: 2096139--2096178 Score: 57
Period size: 17 Copynumber: 2.2 Consensus size: 19
2096129 ATTTTCAACC
*
2096139 AAAAAAAAGT-AAAAA-AA
1 AAAAAAAAATCAAAAACAA
2096156 AAAAAAAAATCAAAAACAA
1 AAAAAAAAATCAAAAACAA
2096175 AAAA
1 AAAA
2096179 GTTCACACAC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
17 9 0.45
18 5 0.25
19 6 0.30
ACGTcount: A:0.88, C:0.05, G:0.03, T:0.05
Consensus pattern (19 bp):
AAAAAAAAATCAAAAACAA
Found at i:2107457 original size:138 final size:137
Alignment explanation
Indices: 2107194--2107675 Score: 594
Period size: 138 Copynumber: 3.5 Consensus size: 137
2107184 AACAAATAGA
* * * *
2107194 TTTTTAAAGTTGTTGAGTCTCTGCTGAGAGGAGCTTTTTCAAGAGAATTTTAAAGTTGTTGAGCC
1 TTTTTAAAGTTGTTGAGCCTCTACTGAGAGGAGCTTTTT---TA-AATTTCAAAGTTGTTGAGCC
* * *
2107259 TCTACTGAGAGGAGCTTTTCCAAGATAGATTTTTAAAGTTATTGAGCCTCTGCTGAGATGAGCTT
62 TCTACTGA-AAGAGCTTTTTCAAG--AGATTTTTAAAGTTATTGAGCCTCTACTGAGATGAGCTT
2107324 TTTCAAGATGAGAT
124 TTTCAAGATGAGAT
* * *
2107338 TTTTTAAAGTTGTTGAGCCTTTACTGAGAAGAGCTTTTTTAAATTTCAAAGTTTTTGAGCCTCTA
1 TTTTTAAAGTTGTTGAGCCTCTACTGAGAGGAGCTTTTTTAAATTTCAAAGTTGTTGAGCCTCTA
* *
2107403 CTGATATGAGCTTTTTTAAGAGATTTTTAAAGTTATTGAGCCTCTACTGAGATGAGCTTTTTCAA
66 CTGA-AAGAGCTTTTTCAAGAGATTTTTAAAGTTATTGAGCCTCTACTGAGATGAGCTTTTTCAA
2107468 GATGAGAT
130 GATGAGAT
* * * *
2107476 TTTTTAAAGTTGTTGAGCCTCTATTAAGAGGAGCTTTTTTAAATTTCAAAGTTGTTGAGCCTTTG
1 TTTTTAAAGTTGTTGAGCCTCTACTGAGAGGAGCTTTTTTAAATTTCAAAGTTGTTGAGCCTCTA
* * * *
2107541 CTGAAAGACGCTTTTTCAAGAGAATTTTAAAGTTGTTGAGCCTCTACTGAGAGGAGCTTTTTTAA
66 CTGAAAGA-GCTTTTTCAAGAGATTTTTAAAGTTATTGAGCCTCTACTGAGATGAGCTTTTTCAA
2107606 GA-GA-A-
130 GATGAGAT
* * * * * * *
2107611 -TTTCAAAATTATTAAGCCTCTACTTAGATGAGCTTTTTTAAATTTTCAAAAATTGTTGAGCCTC
1 TTTTTAAAGTTGTTGAGCCTCTACTGAGAGGAGCTTTTTTAAA-TTTC-AAAGTTGTTGAGCCTC
2107675 T
64 T
2107676 GCTTAGAAAA
Statistics
Matches: 301, Mismatches: 34, Indels: 14
0.86 0.10 0.04
Matches are distributed among these distances:
134 35 0.12
135 4 0.01
136 16 0.05
137 5 0.02
138 167 0.55
140 38 0.13
141 1 0.00
144 35 0.12
ACGTcount: A:0.28, C:0.12, G:0.20, T:0.40
Consensus pattern (137 bp):
TTTTTAAAGTTGTTGAGCCTCTACTGAGAGGAGCTTTTTTAAATTTCAAAGTTGTTGAGCCTCTA
CTGAAAGAGCTTTTTCAAGAGATTTTTAAAGTTATTGAGCCTCTACTGAGATGAGCTTTTTCAAG
ATGAGAT
Found at i:2107651 original size:46 final size:46
Alignment explanation
Indices: 2107195--2107648 Score: 458
Period size: 46 Copynumber: 9.8 Consensus size: 46
2107185 ACAAATAGAT
* * *
2107195 TTTTAAAGTTGTTGAGTCTCTGCTGAGAGGAGCTTTTTCAAGAGAA
1 TTTTAAAGTTGTTGAGCCTCTACTGAGATGAGCTTTTTCAAGAGAA
* * *
2107241 TTTTAAAGTTGTTGAGCCTCTACTGAGAGGAGCTTTTCCAAGATAGAT
1 TTTTAAAGTTGTTGAGCCTCTACTGAGATGAGCTTTTTCAAG--AGAA
* *
2107289 TTTTAAAGTTATTGAGCCTCTGCTGAGATGAGCTTTTTCAAGATGAGA
1 TTTTAAAGTTGTTGAGCCTCTACTGAGATGAGCTTTTTCAAGA-GA-A
* * *
2107337 TTTTTTAAAGTTGTTGAGCCTTTACTGAGAAGAGCTTTTT---TA-AA
1 --TTTTAAAGTTGTTGAGCCTCTACTGAGATGAGCTTTTTCAAGAGAA
* * * * *
2107381 TTTCAAAGTTTTTGAGCCTCTACTGATATGAGCTTTTTTAAGAGAT
1 TTTTAAAGTTGTTGAGCCTCTACTGAGATGAGCTTTTTCAAGAGAA
*
2107427 TTTTAAAGTTATTGAGCCTCTACTGAGATGAGCTTTTTCAAGATGAGA
1 TTTTAAAGTTGTTGAGCCTCTACTGAGATGAGCTTTTTCAAGA-GA-A
* * * *
2107475 TTTTTTAAAGTTGTTGAGCCTCTATTAAGAGGAGCTTTTT---TA-AA
1 --TTTTAAAGTTGTTGAGCCTCTACTGAGATGAGCTTTTTCAAGAGAA
* * * *
2107519 TTTCAAAGTTGTTGAGCCTTTGCTGA-AAGACGCTTTTTCAAGAGAA
1 TTTTAAAGTTGTTGAGCCTCTACTGAGATGA-GCTTTTTCAAGAGAA
* *
2107565 TTTTAAAGTTGTTGAGCCTCTACTGAGAGGAGCTTTTTTAAGAGAA
1 TTTTAAAGTTGTTGAGCCTCTACTGAGATGAGCTTTTTCAAGAGAA
* * * * *
2107611 TTTCAAAATTATTAAGCCTCTACTTAGATGAGCTTTTT
1 TTTTAAAGTTGTTGAGCCTCTACTGAGATGAGCTTTTT
2107649 TAAATTTTCA
Statistics
Matches: 339, Mismatches: 49, Indels: 40
0.79 0.11 0.09
Matches are distributed among these distances:
41 3 0.01
42 61 0.18
44 2 0.01
45 4 0.01
46 151 0.45
47 9 0.03
48 41 0.12
50 68 0.20
ACGTcount: A:0.28, C:0.12, G:0.20, T:0.40
Consensus pattern (46 bp):
TTTTAAAGTTGTTGAGCCTCTACTGAGATGAGCTTTTTCAAGAGAA
Found at i:2107898 original size:12 final size:11
Alignment explanation
Indices: 2107883--2107917 Score: 52
Period size: 11 Copynumber: 3.1 Consensus size: 11
2107873 ATTATTATTA
*
2107883 TTTTTTTTCCT
1 TTTTTTTTTCT
2107894 TTTTTTTTTCT
1 TTTTTTTTTCT
2107905 TTTTTTTCTTCT
1 TTTTTTT-TTCT
2107917 T
1 T
2107918 CTTCTTTCTT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
11 17 0.77
12 5 0.23
ACGTcount: A:0.00, C:0.14, G:0.00, T:0.86
Consensus pattern (11 bp):
TTTTTTTTTCT
Found at i:2108193 original size:20 final size:21
Alignment explanation
Indices: 2108168--2108215 Score: 64
Period size: 20 Copynumber: 2.3 Consensus size: 21
2108158 GAGACCCACG
*
2108168 AAAAAAGAGT-TTTTCAGAA-T
1 AAAAAA-AGTGTTTCCAGAATT
2108188 AAAAAAAGTGTTTCCAGAATT
1 AAAAAAAGTGTTTCCAGAATT
2108209 AAAAAAA
1 AAAAAAA
2108216 AATTTCTTTC
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
19 3 0.12
20 14 0.56
21 8 0.32
ACGTcount: A:0.56, C:0.06, G:0.12, T:0.25
Consensus pattern (21 bp):
AAAAAAAGTGTTTCCAGAATT
Found at i:2108194 original size:21 final size:21
Alignment explanation
Indices: 2108168--2108215 Score: 62
Period size: 21 Copynumber: 2.3 Consensus size: 21
2108158 GAGACCCACG
*
2108168 AAAAAAGAGTTTTTCAGAA-TA
1 AAAAAAGAG-TTTCCAGAATTA
*
2108189 AAAAAAGTGTTTCCAGAATTA
1 AAAAAAGAGTTTCCAGAATTA
2108210 AAAAAA
1 AAAAAA
2108216 AATTTCTTTC
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
20 8 0.33
21 16 0.67
ACGTcount: A:0.56, C:0.06, G:0.12, T:0.25
Consensus pattern (21 bp):
AAAAAAGAGTTTCCAGAATTA
Found at i:2109217 original size:18 final size:16
Alignment explanation
Indices: 2109171--2109220 Score: 55
Period size: 18 Copynumber: 2.9 Consensus size: 16
2109161 TTTTTATTAT
2109171 AAAATAATAATAAATA
1 AAAATAATAATAAATA
2109187 AAAACTAATTAATAAATTA
1 AAAA-TAA-TAATAAA-TA
*
2109206 AGAATAAGTAATAAA
1 AAAATAA-TAATAAA
2109221 AAATGAGACA
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
16 4 0.14
17 3 0.10
18 17 0.59
19 5 0.17
ACGTcount: A:0.68, C:0.02, G:0.04, T:0.26
Consensus pattern (16 bp):
AAAATAATAATAAATA
Found at i:2117596 original size:21 final size:19
Alignment explanation
Indices: 2117563--2117625 Score: 54
Period size: 20 Copynumber: 3.1 Consensus size: 19
2117553 TCATTTGTTG
2117563 ATTAAAAAAGTTTCTTTTTT
1 ATTAAAAAAGTTT-TTTTTT
* *
2117583 ATTAAAAATGGTTTTTTTTC
1 ATTAAAAA-AGTTTTTTTTT
* *
2117603 AATAAAAGAAGTGATTTTTTT
1 ATTAAAA-AAGT-TTTTTTTT
2117624 AT
1 AT
2117626 GGTGATCCGT
Statistics
Matches: 33, Mismatches: 7, Indels: 5
0.73 0.16 0.11
Matches are distributed among these distances:
20 21 0.64
21 12 0.36
ACGTcount: A:0.37, C:0.03, G:0.10, T:0.51
Consensus pattern (19 bp):
ATTAAAAAAGTTTTTTTTT
Found at i:2120324 original size:78 final size:78
Alignment explanation
Indices: 2120203--2120468 Score: 307
Period size: 78 Copynumber: 3.4 Consensus size: 78
2120193 TATATTAGGA
** * * *
2120203 GAAATACCAGGAACAACTAGGGTAGTCACTTCGTCTTCGTCAACAGAAACATTGGCTTCCACCAT
1 GAAA-ACCAGGAGGAACTAGGGGAGTCACTTCGTCTTCATCAACAGAACCATTGGCTTCCACCAT
2120268 ATTGCATTTGGGAG
65 ATTGCATTTGGGAG
* * * * *
2120282 GAAAACCAGGAGGGACTAGGGGAGTCACTTCGGCTTCATCAACAGAACCTTTGGCTTCAACTATA
1 GAAAACCAGGAGGAACTAGGGGAGTCACTTCGTCTTCATCAACAGAACCATTGGCTTCCACCATA
* * *
2120347 CTGCGTTTGGAAG
66 TTGCATTTGGGAG
* * * * * * * * *
2120360 GAAGACCAGGAGTAAGTAGGGGAGTGACTTCATCTTCATGAACAGAACCCTCGCCTTCCACCATA
1 GAAAACCAGGAGGAACTAGGGGAGTCACTTCGTCTTCATCAACAGAACCATTGGCTTCCACCATA
2120425 TTGCATTTGGGAG
66 TTGCATTTGGGAG
**
2120438 GAAAACCAGGAGGAACTAATGGAGTCACTTC
1 GAAAACCAGGAGGAACTAGGGGAGTCACTTC
2120469 TTCATCAACA
Statistics
Matches: 152, Mismatches: 35, Indels: 1
0.81 0.19 0.01
Matches are distributed among these distances:
78 148 0.97
79 4 0.03
ACGTcount: A:0.30, C:0.22, G:0.25, T:0.23
Consensus pattern (78 bp):
GAAAACCAGGAGGAACTAGGGGAGTCACTTCGTCTTCATCAACAGAACCATTGGCTTCCACCATA
TTGCATTTGGGAG
Found at i:2120770 original size:78 final size:77
Alignment explanation
Indices: 2120521--2120779 Score: 224
Period size: 78 Copynumber: 3.3 Consensus size: 77
2120511 AGTCATTTTG
* * ** *
2120521 TCTTCATTAATCA-AACTTTCGGTTTCTACCACATTGCATTTGGGGGTAAAGTCACGAGGAACTG
1 TCTTCATTAA-CAGAACTTTTGGCTTCTACCACATTGCATTTGGGGGTAAAACCA-GAAGAACTG
2120585 GAGCAGTCACCTTA
64 GAGCAGTCACCTTA
* * * ** *
2120599 T-TGTCATGAACAAAACTTTTGGCTT-TCAGCATGTTTGC-TTTAGGAGG-AAAACCAGAAGGAA
1 TCT-TCATTAACAGAACTTTTGGCTTCT-ACCA-CATTGCATTT-GGGGGTAAAACCAGAA-GAA
* * * *
2120660 ATGAAAG-AGTCACTTTT
61 CTG-GAGCAGTCACCTTA
*
2120677 TCTTCATTAAAAGAACTTTTGGCTTCTACCACATTGCATTTGGGGGTAAAACCAGGAAGAACTGG
1 TCTTCATTAACAGAACTTTTGGCTTCTACCACATTGCATTTGGGGGTAAAACCA-GAAGAACTGG
*
2120742 GGCAGTCACCTTA
65 AGCAGTCACCTTA
**
2120755 TCTTCATTAACAGAACCATTGGCTT
1 TCTTCATTAACAGAACTTTTGGCTT
2120780 GCAACATATT
Statistics
Matches: 139, Mismatches: 29, Indels: 26
0.72 0.15 0.13
Matches are distributed among these distances:
77 15 0.11
78 109 0.78
79 15 0.11
ACGTcount: A:0.30, C:0.19, G:0.20, T:0.31
Consensus pattern (77 bp):
TCTTCATTAACAGAACTTTTGGCTTCTACCACATTGCATTTGGGGGTAAAACCAGAAGAACTGGA
GCAGTCACCTTA
Found at i:2120777 original size:156 final size:156
Alignment explanation
Indices: 2120510--2120815 Score: 395
Period size: 156 Copynumber: 2.0 Consensus size: 156
2120500 TTAATCAAGG
* * **
2120510 GAGTCATTTTGTCTTCATTAATCAAACTTTCGGTTTCTACCACATTGCATTTGGGGGTAAAGTCA
1 GAGTCATTTTGTCTTCATTAATAAAACTTTCGGCTTCTACCACATTGCATTTGGGGGTAAAACCA
* ** * * *
2120575 CGAGGAACTGGAGCAGTCACCTTATTGTCATGAACAAAACTTTTGGCTTTCAGCATGTTTG-CTT
66 CGAAGAACTGGAGCAGTCACCTTATTGTCATGAACAAAACCATTGGCTTGCAACAT-ATTGCCTT
*
2120639 TAGGAGGAAAACCAGAAGGAAATGAAA
130 CAGGAGGAAAACCAGAAGGAAATGAAA
*
2120666 GAGTCACTTTT-TCTTCATTAA-AAGAACTTTTGGCTTCTACCACATTGCATTTGGGGGTAAAAC
1 GAGTCA-TTTTGTCTTCATTAATAA-AACTTTCGGCTTCTACCACATTGCATTTGGGGGTAAAAC
* * * *
2120729 CAGGAAGAACTGGGGCAGTCACCTTATCT-TCATTAACAGAACCATTGGCTTGCAACATATTGCC
64 CACGAAGAACTGGAGCAGTCACCTTAT-TGTCATGAACAAAACCATTGGCTTGCAACATATTGCC
*
2120793 TTCAGGAGGAAAACCAGGAGGAA
128 TTCAGGAGGAAAACCAGAAGGAA
2120816 CTGCAGAATT
Statistics
Matches: 129, Mismatches: 17, Indels: 8
0.84 0.11 0.05
Matches are distributed among these distances:
155 4 0.03
156 120 0.93
157 5 0.04
ACGTcount: A:0.30, C:0.19, G:0.22, T:0.29
Consensus pattern (156 bp):
GAGTCATTTTGTCTTCATTAATAAAACTTTCGGCTTCTACCACATTGCATTTGGGGGTAAAACCA
CGAAGAACTGGAGCAGTCACCTTATTGTCATGAACAAAACCATTGGCTTGCAACATATTGCCTTC
AGGAGGAAAACCAGAAGGAAATGAAA
Found at i:2120791 original size:78 final size:76
Alignment explanation
Indices: 2120521--2120818 Score: 201
Period size: 78 Copynumber: 3.8 Consensus size: 76
2120511 AGTCATTTTG
* * * * * ** * *
2120521 TCTTCATTAATCA-AACTTTCGGTTTCTACCACATTGCATTTGGGGGTAAAGTCACGAGGAACTG
1 TCTTCATTAA-CAGAACTTTTGGCTTC-AACATATTGCATTTGGAGG-AAAACCAGGAAGAACTG
2120585 GAGCAGTCACCTTA
63 GAGCAGTCACCTTA
* * * * *
2120599 T-TGTCATGAACAAAACTTTTGGCTTTCAGCATGTTTGC-TTTAGGAGGAAAACCA-GAAGGAAA
1 TCT-TCATTAACAGAACTTTTGGC-TTCAACAT-ATTGCATTT-GGAGGAAAACCAGGAA-GAAC
* * *
2120661 TGAAAG-AGTCACTTTT
61 TG-GAGCAGTCACCTTA
* * * *
2120677 TCTTCATTAAAAGAACTTTTGGCTTCTACCACATTGCATTTGGGGGTAAAACCAGGAAGAACTGG
1 TCTTCATTAACAGAACTTTTGGCTTC-AACATATTGCATTTGGAGG-AAAACCAGGAAGAACTGG
*
2120742 GGCAGTCACCTTA
64 AGCAGTCACCTTA
** * * *
2120755 TCTTCATTAACAGAACCATTGGCTTGCAACATATTGCCTTCAGGAGGAAAACCAGGAGGAACTG
1 TCTTCATTAACAGAACTTTTGGCTT-CAACATATTGCATT-TGGAGGAAAACCAGGAAGAACTG
2120819 CAGAATTATT
Statistics
Matches: 170, Mismatches: 35, Indels: 30
0.72 0.15 0.13
Matches are distributed among these distances:
77 17 0.10
78 131 0.77
79 22 0.13
ACGTcount: A:0.31, C:0.19, G:0.21, T:0.29
Consensus pattern (76 bp):
TCTTCATTAACAGAACTTTTGGCTTCAACATATTGCATTTGGAGGAAAACCAGGAAGAACTGGAG
CAGTCACCTTA
Found at i:2123648 original size:13 final size:13
Alignment explanation
Indices: 2123618--2123678 Score: 56
Period size: 13 Copynumber: 4.8 Consensus size: 13
2123608 ATTTATATAA
2123618 AAATTAATTT-TTT
1 AAATT-ATTTATTT
*
2123631 TAATTATTTATTT
1 AAATTATTTATTT
*
2123644 AAATTATTTATAT
1 AAATTATTTATTT
* *
2123657 ATATT-TATATTT
1 AAATTATTTATTT
2123669 AAA-TATTTAT
1 AAATTATTTAT
2123679 ATTTAAAAAA
Statistics
Matches: 38, Mismatches: 8, Indels: 5
0.75 0.16 0.10
Matches are distributed among these distances:
11 1 0.03
12 15 0.39
13 22 0.58
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (13 bp):
AAATTATTTATTT
Found at i:2123674 original size:14 final size:14
Alignment explanation
Indices: 2123657--2123685 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
2123647 TTATTTATAT
2123657 ATATTTATATTTAA
1 ATATTTATATTTAA
2123671 ATATTTATATTTAA
1 ATATTTATATTTAA
2123685 A
1 A
2123686 AAATAATATT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (14 bp):
ATATTTATATTTAA
Found at i:2129443 original size:28 final size:28
Alignment explanation
Indices: 2129389--2129445 Score: 114
Period size: 28 Copynumber: 2.0 Consensus size: 28
2129379 GACCATTGCT
2129389 ACAATTTCAATGCAAAACTCAACATGGA
1 ACAATTTCAATGCAAAACTCAACATGGA
2129417 ACAATTTCAATGCAAAACTCAACATGGA
1 ACAATTTCAATGCAAAACTCAACATGGA
2129445 A
1 A
2129446 GCATGTATGT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.47, C:0.21, G:0.11, T:0.21
Consensus pattern (28 bp):
ACAATTTCAATGCAAAACTCAACATGGA
Found at i:2130840 original size:12 final size:12
Alignment explanation
Indices: 2130825--2130871 Score: 67
Period size: 12 Copynumber: 3.7 Consensus size: 12
2130815 AAATTATTTT
2130825 TTTAATTTTATA
1 TTTAATTTTATA
2130837 TTTAATTATATATA
1 TTTAATT-T-TATA
2130851 TTTAATTTTATA
1 TTTAATTTTATA
2130863 TTTATATTT
1 TTTA-ATTT
2130872 AAAATAATAT
Statistics
Matches: 32, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
12 15 0.47
13 6 0.19
14 11 0.34
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (12 bp):
TTTAATTTTATA
Found at i:2136243 original size:2 final size:2
Alignment explanation
Indices: 2136230--2136277 Score: 60
Period size: 2 Copynumber: 24.0 Consensus size: 2
2136220 TTGATTCAGC
* * * *
2136230 AT AT AT AC AT AT AT AT AC AT AT AT AT AC AT AA AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
2136272 AT AT AT
1 AT AT AT
2136278 TTATGCATAC
Statistics
Matches: 38, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.52, C:0.06, G:0.00, T:0.42
Consensus pattern (2 bp):
AT
Found at i:2136267 original size:26 final size:26
Alignment explanation
Indices: 2136238--2136298 Score: 77
Period size: 26 Copynumber: 2.3 Consensus size: 26
2136228 GCATATATAC
2136238 ATATATATACATATATATACATAAAT
1 ATATATATACATATATATACATAAAT
* * * *
2136264 ATATATATATATATTTATGCATACAT
1 ATATATATACATATATATACATAAAT
*
2136290 ATGTATATA
1 ATATATATA
2136299 AATGACCTTT
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
26 30 1.00
ACGTcount: A:0.48, C:0.07, G:0.03, T:0.43
Consensus pattern (26 bp):
ATATATATACATATATATACATAAAT
Found at i:2136277 original size:10 final size:10
Alignment explanation
Indices: 2136230--2136276 Score: 76
Period size: 10 Copynumber: 4.7 Consensus size: 10
2136220 TTGATTCAGC
2136230 ATATATACAT
1 ATATATACAT
2136240 ATATATACAT
1 ATATATACAT
2136250 ATATATACAT
1 ATATATACAT
* *
2136260 AAATATATAT
1 ATATATACAT
2136270 ATATATA
1 ATATATA
2136277 TTTATGCATA
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
10 34 1.00
ACGTcount: A:0.53, C:0.06, G:0.00, T:0.40
Consensus pattern (10 bp):
ATATATACAT
Found at i:2136365 original size:8 final size:8
Alignment explanation
Indices: 2136354--2136380 Score: 54
Period size: 8 Copynumber: 3.4 Consensus size: 8
2136344 TATACATATG
2136354 ATACATAC
1 ATACATAC
2136362 ATACATAC
1 ATACATAC
2136370 ATACATAC
1 ATACATAC
2136378 ATA
1 ATA
2136381 TATATATATA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 19 1.00
ACGTcount: A:0.52, C:0.22, G:0.00, T:0.26
Consensus pattern (8 bp):
ATACATAC
Found at i:2136393 original size:12 final size:12
Alignment explanation
Indices: 2136325--2136396 Score: 54
Period size: 12 Copynumber: 5.9 Consensus size: 12
2136315 GATTCAGCAT
**
2136325 ATATATATATGT
1 ATATATATATAC
* *
2136337 ATGTATGTATAC
1 ATATATATATAC
*
2136349 ATATGATACATAC
1 ATAT-ATATATAC
* *
2136362 ATACATACATAC
1 ATATATATATAC
* *
2136374 ATACATATATAT
1 ATATATATATAC
2136386 ATATATATATA
1 ATATATATATA
2136397 GTTTAACCCT
Statistics
Matches: 48, Mismatches: 11, Indels: 2
0.79 0.18 0.03
Matches are distributed among these distances:
12 39 0.81
13 9 0.19
ACGTcount: A:0.46, C:0.10, G:0.06, T:0.39
Consensus pattern (12 bp):
ATATATATATAC
Found at i:2146933 original size:2 final size:2
Alignment explanation
Indices: 2146926--2146956 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
2146916 ATGCACTCAA
2146926 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT C
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT C
2146957 ACATCCTCTC
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:0.00, C:0.52, G:0.00, T:0.48
Consensus pattern (2 bp):
CT
Found at i:2153745 original size:21 final size:20
Alignment explanation
Indices: 2153709--2153747 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
2153699 AAAAAATTAT
2153709 TTTTTAATTAATTATTTAAA
1 TTTTTAATTAATTATTTAAA
2153729 TTTTT-ATTATATATATTTA
1 TTTTTAATTA-AT-TATTTA
2153748 TATAATGATA
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 4 0.24
20 7 0.41
21 6 0.35
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (20 bp):
TTTTTAATTAATTATTTAAA
Found at i:2153809 original size:22 final size:21
Alignment explanation
Indices: 2153763--2153815 Score: 81
Period size: 21 Copynumber: 2.5 Consensus size: 21
2153753 TGATATTTTT
*
2153763 AAATA-TTTATATTTTTAAAA
1 AAATATTTTATATTTTAAAAA
2153783 AAATATTTTATATTTTAAAAA
1 AAATATTTTATATTTTAAAAA
2153804 ATAATATTTTAT
1 A-AATATTTTAT
2153816 TAATTTCGTA
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
20 5 0.17
21 15 0.50
22 10 0.33
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (21 bp):
AAATATTTTATATTTTAAAAA
Found at i:2159081 original size:8 final size:8
Alignment explanation
Indices: 2159070--2159100 Score: 53
Period size: 8 Copynumber: 3.8 Consensus size: 8
2159060 AATTTATATT
2159070 AATATAAA
1 AATATAAA
2159078 AATATAAA
1 AATATAAA
2159086 AATATAAAA
1 AATAT-AAA
2159095 AATATA
1 AATATA
2159101 TTTTTAATTT
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
8 14 0.64
9 8 0.36
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (8 bp):
AATATAAA
Found at i:2159193 original size:24 final size:24
Alignment explanation
Indices: 2159161--2159207 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 24
2159151 TGTTAATTTT
*
2159161 ATATATTATTTTTATATTATATTC
1 ATATATTATTATTATATTATATTC
* *
2159185 ATATTTTATTATTATATTTTATT
1 ATATATTATTATTATATTATATT
2159208 TTAAATTATT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.32, C:0.02, G:0.00, T:0.66
Consensus pattern (24 bp):
ATATATTATTATTATATTATATTC
Found at i:2164621 original size:2 final size:2
Alignment explanation
Indices: 2164564--2164608 Score: 60
Period size: 2 Copynumber: 24.0 Consensus size: 2
2164554 CGTTTTAACG
*
2164564 TA TA -A TA TA TA TA TA TA TA TA TA TA TA TG TA TA T- TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
2164604 T- TA TA
1 TA TA TA
2164609 ATTGTTTTAT
Statistics
Matches: 38, Mismatches: 2, Indels: 6
0.83 0.04 0.13
Matches are distributed among these distances:
1 3 0.08
2 35 0.92
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (2 bp):
TA
Found at i:2169535 original size:65 final size:65
Alignment explanation
Indices: 2169460--2169588 Score: 186
Period size: 65 Copynumber: 2.0 Consensus size: 65
2169450 TTAATCTCTT
* * *
2169460 ATCATAATATTTTAAAAATTTATTATAATCATAAGATATATGATACTTAATCTCGTATTAAGATA
1 ATCAAAATATTTTAAAAATTTATTATAATCATAAGATATATGACACTTAATCTCATATTAAGATA
* * * * *
2169525 ATCAAAATATTTTAAAAATTTATTATAATTATATGATATGTGACATTTAATCTCATTTTAAGAT
1 ATCAAAATATTTTAAAAATTTATTATAATCATAAGATATATGACACTTAATCTCATATTAAGAT
2169589 GTTTTGAAAA
Statistics
Matches: 56, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
65 56 1.00
ACGTcount: A:0.43, C:0.07, G:0.06, T:0.43
Consensus pattern (65 bp):
ATCAAAATATTTTAAAAATTTATTATAATCATAAGATATATGACACTTAATCTCATATTAAGATA
Found at i:2177340 original size:18 final size:20
Alignment explanation
Indices: 2177302--2177341 Score: 57
Period size: 18 Copynumber: 2.1 Consensus size: 20
2177292 TAAAGTATAT
*
2177302 TTAAAAATATAAAATTTTAA
1 TTAAAAATATAAAATTCTAA
2177322 TTAAAAA-AT-AAATTCTAA
1 TTAAAAATATAAAATTCTAA
2177340 TT
1 TT
2177342 TTTAAAAAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 10 0.53
19 2 0.11
20 7 0.37
ACGTcount: A:0.57, C:0.03, G:0.00, T:0.40
Consensus pattern (20 bp):
TTAAAAATATAAAATTCTAA
Found at i:2178414 original size:117 final size:117
Alignment explanation
Indices: 2178282--2178513 Score: 392
Period size: 117 Copynumber: 2.0 Consensus size: 117
2178272 TATGAGATAG
* *
2178282 GAGATTTTGAATTTAAGTTATCACAGGTCAATCTTAAAAAATTAAAATTAATCTCATAAATTTAA
1 GAGATTTTGAATTTAAGTTATCACAAGTCAATCTTAAAAAATTAAAATTAATCTCATAAATTCAA
* *
2178347 ATTAAATTGATAGTTAATTATCCATTTAAGATACGATAAATAAATATATTAA
66 ACTAAATTGATAATTAATTATCCATTTAAGATACGATAAATAAATATATTAA
* *
2178399 GAGATTTTGAATTTAAGTTATCACAAGTCAATCTTAAAAAATTAGAATTAATCTCGTAAATTCAA
1 GAGATTTTGAATTTAAGTTATCACAAGTCAATCTTAAAAAATTAAAATTAATCTCATAAATTCAA
* *
2178464 GCTAAATTGATAATTAATTATCCATTTAAGATACGATAAATAAGTATATT
66 ACTAAATTGATAATTAATTATCCATTTAAGATACGATAAATAAATATATT
2178514 GTGACACTAG
Statistics
Matches: 107, Mismatches: 8, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
117 107 1.00
ACGTcount: A:0.45, C:0.09, G:0.09, T:0.37
Consensus pattern (117 bp):
GAGATTTTGAATTTAAGTTATCACAAGTCAATCTTAAAAAATTAAAATTAATCTCATAAATTCAA
ACTAAATTGATAATTAATTATCCATTTAAGATACGATAAATAAATATATTAA
Found at i:2183373 original size:30 final size:30
Alignment explanation
Indices: 2183339--2183395 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
2183329 CTCACAAAAA
2183339 ATCATAAAAATTTAAAT-TTAAATATTTTTC
1 ATCAT-AAAATTTAAATGTTAAATATTTTTC
* *
2183369 ATCATAAACTTTAAATGTTAATTATTT
1 ATCATAAAATTTAAATGTTAAATATTT
2183396 GCGCCAACTT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
29 10 0.42
30 14 0.58
ACGTcount: A:0.44, C:0.07, G:0.02, T:0.47
Consensus pattern (30 bp):
ATCATAAAATTTAAATGTTAAATATTTTTC
Found at i:2187214 original size:21 final size:20
Alignment explanation
Indices: 2187183--2187248 Score: 73
Period size: 21 Copynumber: 3.3 Consensus size: 20
2187173 GATCACAAAA
*
2187183 AAAATAATAAATAAAATAAT
1 AAAATATTAAATAAAATAAT
*
2187203 AATAATATTAAATACAATAAT
1 AA-AATATTAAATAAAATAAT
*
2187224 AAAA-CTTAAATAAAA-ATAT
1 AAAATATTAAATAAAATA-AT
2187243 AAAATA
1 AAAATA
2187249 CAAAAAAAAT
Statistics
Matches: 38, Mismatches: 5, Indels: 6
0.78 0.10 0.12
Matches are distributed among these distances:
18 1 0.03
19 15 0.39
20 4 0.11
21 18 0.47
ACGTcount: A:0.70, C:0.03, G:0.00, T:0.27
Consensus pattern (20 bp):
AAAATATTAAATAAAATAAT
Found at i:2187258 original size:24 final size:24
Alignment explanation
Indices: 2187231--2187306 Score: 84
Period size: 24 Copynumber: 3.1 Consensus size: 24
2187221 AATAAAACTT
*
2187231 AAATAAAAATATAAAATACAAAAA
1 AAATAAAAATACAAAATACAAAAA
*
2187255 AAATCAAAATACAAAATAC--AAA
1 AAATAAAAATACAAAATACAAAAA
*
2187277 ATATCAAAAATACCAAAATATCAAAAA
1 AAAT-AAAAATA-CAAAATA-CAAAAA
2187304 AAA
1 AAA
2187307 CAAACAGAAC
Statistics
Matches: 42, Mismatches: 5, Indels: 7
0.78 0.09 0.13
Matches are distributed among these distances:
22 6 0.14
23 6 0.14
24 24 0.57
25 1 0.02
27 5 0.12
ACGTcount: A:0.74, C:0.11, G:0.00, T:0.16
Consensus pattern (24 bp):
AAATAAAAATACAAAATACAAAAA
Found at i:2187295 original size:17 final size:16
Alignment explanation
Indices: 2187235--2187303 Score: 72
Period size: 17 Copynumber: 4.3 Consensus size: 16
2187225 AAACTTAAAT
*
2187235 AAAAATATAAAATA-C
1 AAAAATACAAAATATC
*
2187250 AAAAAAAATCAAAATA-C
1 -AAAAATA-CAAAATATC
2187267 -AAAATACAAAATATC
1 AAAAATACAAAATATC
2187282 AAAAATACCAAAATATC
1 AAAAATA-CAAAATATC
2187299 AAAAA
1 AAAAA
2187304 AAACAAACAG
Statistics
Matches: 46, Mismatches: 3, Indels: 7
0.82 0.05 0.12
Matches are distributed among these distances:
14 7 0.15
15 6 0.13
16 12 0.26
17 21 0.46
ACGTcount: A:0.72, C:0.12, G:0.00, T:0.16
Consensus pattern (16 bp):
AAAAATACAAAATATC
Found at i:2187310 original size:17 final size:16
Alignment explanation
Indices: 2187243--2187310 Score: 68
Period size: 17 Copynumber: 4.2 Consensus size: 16
2187233 ATAAAAATAT
2187243 AAAATACAAAAAAAATC
1 AAAATACAAAAAAAA-C
*
2187260 AAAATAC--AAAATAC
1 AAAATACAAAAAAAAC
* *
2187274 AAAATATCAAAAATACC
1 AAAATA-CAAAAAAAAC
2187291 AAAATATCAAAAAAAAC
1 AAAATA-CAAAAAAAAC
2187308 AAA
1 AAA
2187311 CAGAACAGAA
Statistics
Matches: 42, Mismatches: 6, Indels: 6
0.78 0.11 0.11
Matches are distributed among these distances:
14 7 0.17
15 6 0.14
17 29 0.69
ACGTcount: A:0.74, C:0.13, G:0.00, T:0.13
Consensus pattern (16 bp):
AAAATACAAAAAAAAC
Found at i:2187865 original size:16 final size:17
Alignment explanation
Indices: 2187844--2187879 Score: 56
Period size: 16 Copynumber: 2.2 Consensus size: 17
2187834 TAATTTTTTT
*
2187844 CGGTCATCGA-TGACGA
1 CGGTCAACGACTGACGA
2187860 CGGTCAACGACTGACGA
1 CGGTCAACGACTGACGA
2187877 CGG
1 CGG
2187880 CAGTAACGAC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 9 0.50
17 9 0.50
ACGTcount: A:0.25, C:0.28, G:0.33, T:0.14
Consensus pattern (17 bp):
CGGTCAACGACTGACGA
Found at i:2188421 original size:10 final size:10
Alignment explanation
Indices: 2188407--2188440 Score: 50
Period size: 10 Copynumber: 3.4 Consensus size: 10
2188397 TAAATCTTAT
2188407 AAAATAATAA
1 AAAATAATAA
*
2188417 TAAATAATAA
1 AAAATAATAA
*
2188427 AAAATAAGAA
1 AAAATAATAA
2188437 AAAA
1 AAAA
2188441 AATTTTTGTC
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
10 21 1.00
ACGTcount: A:0.79, C:0.00, G:0.03, T:0.18
Consensus pattern (10 bp):
AAAATAATAA
Found at i:2196024 original size:19 final size:19
Alignment explanation
Indices: 2196002--2196038 Score: 58
Period size: 19 Copynumber: 1.9 Consensus size: 19
2195992 GAAAGCGAAG
2196002 GAAAG-CCCATAAAGAAAAT
1 GAAAGACCCA-AAAGAAAAT
2196021 GAAAGACCCAAAAGAAAA
1 GAAAGACCCAAAAGAAAA
2196039 GTCATCGCTT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
19 13 0.76
20 4 0.24
ACGTcount: A:0.62, C:0.16, G:0.16, T:0.05
Consensus pattern (19 bp):
GAAAGACCCAAAAGAAAAT
Found at i:2197028 original size:21 final size:24
Alignment explanation
Indices: 2197004--2197051 Score: 66
Period size: 24 Copynumber: 2.1 Consensus size: 24
2196994 TTAATTTTTT
*
2197004 ATTAAAAAT-AAA-T-AATTAAAA
1 ATTAAAAATGAAAGTAAAATAAAA
2197025 ATTAAAAATGAAAGTAAAATAAAA
1 ATTAAAAATGAAAGTAAAATAAAA
2197049 ATT
1 ATT
2197052 GATAAATTAA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
21 9 0.39
22 3 0.13
23 1 0.04
24 10 0.43
ACGTcount: A:0.69, C:0.00, G:0.04, T:0.27
Consensus pattern (24 bp):
ATTAAAAATGAAAGTAAAATAAAA
Found at i:2197198 original size:27 final size:27
Alignment explanation
Indices: 2197168--2197221 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 27
2197158 TACCTGAATC
*
2197168 GATTCAATATTATATAAAATCTTATTT
1 GATTCAATATTATATAAAATCGTATTT
* * *
2197195 GATTCGATATTGTATAAATTCGTATTT
1 GATTCAATATTATATAAAATCGTATTT
2197222 AATTATATTT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.35, C:0.07, G:0.09, T:0.48
Consensus pattern (27 bp):
GATTCAATATTATATAAAATCGTATTT
Found at i:2202486 original size:246 final size:242
Alignment explanation
Indices: 2202053--2202530 Score: 744
Period size: 246 Copynumber: 2.0 Consensus size: 242
2202043 AACACCAAAT
2202053 TTATTCAAGAGTTGAAACAGTAGCAGAGACACAGCATTAATATATCCTAGACCAAGGGAACCAAC
1 TTATTCAAGAGTTGAAACAGTAGCAGAGACACAGCATTAATATATCCTAGACCAAGGGAACCAAC
*
2202118 CAGAAGACTACACAATTAGTAGCCAAGTCATCGATTCAATTCTCCTTTATTGTGTGTTCGTTCCA
66 CAGAAGACTACACAATTAGTAGCCAAATCATCGATTCAATTCTCCTTTATTGTGTGTTCGTTCCA
* * * *
2202183 TTTTTTCACTTAGATATTGTCACTTGTTAGAGCTCCGACAAAGTTCCAAAATCTTACATGCAGTC
131 TTTTTTCACTAAGAAATTGTCACTTGTTAGAGCTACAACAAAGTTCCAAAATCTTACATGCA--C
* *
2202248 GTTCTTACTACGATATGCTATAGACCTTATCATTATGGAAGGTACCAGTG
194 -TCCTTACTACGATATGCTATAGACCTTATCATTACGGAAGGTACCAGTG
* *
2202298 TTATTCAAGAGTT-AGACCAGTAGCAGAGACACGGCATTAATATATCCTAGACCAAGGGAACCAA
1 TTATTCAAGAGTTGA-AACAGTAGCAGAGACACAGCATTAATATATCCTAGACCAAGGGAACCAA
* * * *
2202362 CCTAGAGGACTATACAATTAGTAGCTAAATCATCGATTCAGTAT-TCCTTTATTGTGTGTTCGTT
65 CC-AGAAGACTACACAATTAGTAGCCAAATCATCGATTCAAT-TCTCCTTTATTGTGTGTTCGTT
* **
2202426 CCTTTTTTTGGCTAAGAAATTGTCACTTGTTAGAGCTACAACAAAGTTCCAAAATCTTACATGCA
128 CCATTTTTTCACTAAGAAATTGTCACTTGTTAGAGCTACAACAAAGTTCCAAAATCTTACATGCA
2202491 CTCCTTACTACGATATGCTATAGACCTTATCATTACGGAA
193 CTCCTTACTACGATATGCTATAGACCTTATCATTACGGAA
2202531 AATATCCTCC
Statistics
Matches: 214, Mismatches: 16, Indels: 8
0.90 0.07 0.03
Matches are distributed among these distances:
243 37 0.17
244 2 0.01
245 62 0.29
246 112 0.52
247 1 0.00
ACGTcount: A:0.32, C:0.21, G:0.17, T:0.31
Consensus pattern (242 bp):
TTATTCAAGAGTTGAAACAGTAGCAGAGACACAGCATTAATATATCCTAGACCAAGGGAACCAAC
CAGAAGACTACACAATTAGTAGCCAAATCATCGATTCAATTCTCCTTTATTGTGTGTTCGTTCCA
TTTTTTCACTAAGAAATTGTCACTTGTTAGAGCTACAACAAAGTTCCAAAATCTTACATGCACTC
CTTACTACGATATGCTATAGACCTTATCATTACGGAAGGTACCAGTG
Found at i:2204106 original size:14 final size:14
Alignment explanation
Indices: 2204087--2204114 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
2204077 TGAAAAATCA
2204087 TATGAAGGGGAAAT
1 TATGAAGGGGAAAT
2204101 TATGAAGGGGAAAT
1 TATGAAGGGGAAAT
2204115 GAGGGCCAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.43, C:0.00, G:0.36, T:0.21
Consensus pattern (14 bp):
TATGAAGGGGAAAT
Found at i:2205949 original size:23 final size:23
Alignment explanation
Indices: 2205902--2205948 Score: 69
Period size: 22 Copynumber: 2.1 Consensus size: 23
2205892 TGATTCTATT
*
2205902 AATGATCAAGGCAATATAAAGAA
1 AATGATCAAGGCAAAATAAAGAA
*
2205925 AATGATCAA-GCAAAATTAAGAA
1 AATGATCAAGGCAAAATAAAGAA
2205947 AA
1 AA
2205949 AAGAGATTTT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
22 13 0.59
23 9 0.41
ACGTcount: A:0.60, C:0.09, G:0.15, T:0.17
Consensus pattern (23 bp):
AATGATCAAGGCAAAATAAAGAA
Found at i:2216169 original size:14 final size:13
Alignment explanation
Indices: 2216123--2216165 Score: 50
Period size: 16 Copynumber: 3.0 Consensus size: 13
2216113 AACATTTTGG
2216123 TAAATAATATTAAA
1 TAAAT-ATATTAAA
2216137 TAAATATATTGGGAAA
1 TAAATATATT---AAA
2216153 TAAATATATTAAA
1 TAAATATATTAAA
2216166 ATAATGGCTT
Statistics
Matches: 26, Mismatches: 0, Indels: 7
0.79 0.00 0.21
Matches are distributed among these distances:
13 8 0.31
14 5 0.19
16 13 0.50
ACGTcount: A:0.58, C:0.00, G:0.07, T:0.35
Consensus pattern (13 bp):
TAAATATATTAAA
Found at i:2224145 original size:27 final size:27
Alignment explanation
Indices: 2224099--2224180 Score: 71
Period size: 26 Copynumber: 3.0 Consensus size: 27
2224089 ATAAATTCGA
2224099 ATTTAAATAATAATATTAAAT-TTAAAAAAT
1 ATTTAAAT-A-AAT-TTAAATATT-AAAAAT
*
2224129 ATTTAAATAAATTTAAATATTATAAAT
1 ATTTAAATAAATTTAAATATTAAAAAT
* **
2224156 A-TTAAATGAATTCGAATA-TAAAAAT
1 ATTTAAATAAATTTAAATATTAAAAAT
2224181 CACAAAAATA
Statistics
Matches: 46, Mismatches: 5, Indels: 7
0.79 0.09 0.12
Matches are distributed among these distances:
25 6 0.13
26 14 0.30
27 12 0.26
28 5 0.11
29 1 0.02
30 8 0.17
ACGTcount: A:0.57, C:0.01, G:0.02, T:0.39
Consensus pattern (27 bp):
ATTTAAATAAATTTAAATATTAAAAAT
Found at i:2233576 original size:19 final size:19
Alignment explanation
Indices: 2233549--2233588 Score: 55
Period size: 19 Copynumber: 2.1 Consensus size: 19
2233539 TTTAAAAAAA
2233549 AAAAAAAACTT-CATAAATT
1 AAAAAAAACTTACA-AAATT
*
2233568 AAAATAAACTTACAAAATT
1 AAAAAAAACTTACAAAATT
2233587 AA
1 AA
2233589 GTTGTAAAAG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
19 17 0.89
20 2 0.11
ACGTcount: A:0.65, C:0.10, G:0.00, T:0.25
Consensus pattern (19 bp):
AAAAAAAACTTACAAAATT
Found at i:2236169 original size:10 final size:10
Alignment explanation
Indices: 2236156--2236199 Score: 63
Period size: 10 Copynumber: 4.4 Consensus size: 10
2236146 TAGTGTTTGG
2236156 ATTTGTTTAT
1 ATTTGTTTAT
*
2236166 ATTTGTTTAGG
1 ATTTGTTTA-T
2236177 ATTTGTTTAT
1 ATTTGTTTAT
2236187 ATTTGTTTA-
1 ATTTGTTTAT
2236196 ATTT
1 ATTT
2236200 TATTTGGTTA
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
9 4 0.13
10 18 0.58
11 9 0.29
ACGTcount: A:0.20, C:0.00, G:0.14, T:0.66
Consensus pattern (10 bp):
ATTTGTTTAT
Found at i:2236180 original size:21 final size:21
Alignment explanation
Indices: 2236141--2236195 Score: 87
Period size: 21 Copynumber: 2.7 Consensus size: 21
2236131 TTTAAGGTTC
*
2236141 GTTTATA-GTGTTT-GGATTT
1 GTTTATATTTGTTTAGGATTT
2236160 GTTTATATTTGTTTAGGATTT
1 GTTTATATTTGTTTAGGATTT
2236181 GTTTATATTTGTTTA
1 GTTTATATTTGTTTA
2236196 ATTTTATTTG
Statistics
Matches: 33, Mismatches: 1, Indels: 2
0.92 0.03 0.06
Matches are distributed among these distances:
19 7 0.21
20 5 0.15
21 21 0.64
ACGTcount: A:0.18, C:0.00, G:0.20, T:0.62
Consensus pattern (21 bp):
GTTTATATTTGTTTAGGATTT
Found at i:2236293 original size:23 final size:23
Alignment explanation
Indices: 2236242--2236293 Score: 68
Period size: 23 Copynumber: 2.2 Consensus size: 23
2236232 CATATTCGTT
*
2236242 TTTATATGTTCATGAATATATTCA
1 TTTA-ATGTTCATGAATAAATTCA
* *
2236266 CTTAATGTTCATGAATAAATTTA
1 TTTAATGTTCATGAATAAATTCA
2236289 TTTAA
1 TTTAA
2236294 CTTAATTGAA
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
23 21 0.88
24 3 0.12
ACGTcount: A:0.37, C:0.08, G:0.08, T:0.48
Consensus pattern (23 bp):
TTTAATGTTCATGAATAAATTCA
Found at i:2236681 original size:21 final size:21
Alignment explanation
Indices: 2236656--2236705 Score: 59
Period size: 21 Copynumber: 2.3 Consensus size: 21
2236646 TTTATCTTAT
2236656 TATTTATTTGATTAAAAA-ATTA
1 TATTTATTT--TTAAAAATATTA
2236678 -ATTTAATTTTTAAAAATATTA
1 TATTT-ATTTTTAAAAATATTA
2236699 TATTTAT
1 TATTTAT
2236706 AAATACTTTC
Statistics
Matches: 25, Mismatches: 0, Indels: 7
0.78 0.00 0.22
Matches are distributed among these distances:
20 7 0.28
21 10 0.40
22 8 0.32
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (21 bp):
TATTTATTTTTAAAAATATTA
Found at i:2237989 original size:14 final size:15
Alignment explanation
Indices: 2237972--2238004 Score: 59
Period size: 14 Copynumber: 2.3 Consensus size: 15
2237962 TTTAAATATA
2237972 TTTATAAAAT-AATT
1 TTTATAAAATGAATT
2237986 TTTATAAAATGAATT
1 TTTATAAAATGAATT
2238001 TTTA
1 TTTA
2238005 AAATTTTTTA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 10 0.56
15 8 0.44
ACGTcount: A:0.45, C:0.00, G:0.03, T:0.52
Consensus pattern (15 bp):
TTTATAAAATGAATT
Found at i:2238356 original size:24 final size:24
Alignment explanation
Indices: 2238328--2238377 Score: 66
Period size: 24 Copynumber: 2.1 Consensus size: 24
2238318 ATTTTTTAAA
*
2238328 ATTTTAAATT-ATATTATTTTTAT
1 ATTTTTAATTCATATTATTTTTAT
* *
2238351 ATTTTTTATTCGTATTATTTTTAT
1 ATTTTTAATTCATATTATTTTTAT
2238375 ATT
1 ATT
2238378 GTGTTATTAC
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
23 8 0.35
24 15 0.65
ACGTcount: A:0.28, C:0.02, G:0.02, T:0.68
Consensus pattern (24 bp):
ATTTTTAATTCATATTATTTTTAT
Found at i:2245115 original size:18 final size:17
Alignment explanation
Indices: 2245070--2245214 Score: 106
Period size: 17 Copynumber: 8.5 Consensus size: 17
2245060 AATACTAGAT
2245070 AAAAAAA-GAAAAAAT-
1 AAAAAAATGAAAAAATG
2245085 AAAAAAATG-AAAAATG
1 AAAAAAATGAAAAAATG
*
2245101 AAAAAAGTGAAAAAAGTG
1 AAAAAAATGAAAAAA-TG
*
2245119 AAAAAAGTGAAAAAAGTG
1 AAAAAAATGAAAAAA-TG
2245137 -AAAAAATGAAAAAAAATG
1 AAAAAAATG--AAAAAATG
* *
2245155 AAAGAAGA-GAAAAGATG
1 AAA-AAAATGAAAAAATG
**
2245172 AAAAATAA-G-AAATGTG
1 AAAAA-AATGAAAAAATG
* *
2245188 AAACAAAATAAAAAAATA
1 AAA-AAAATGAAAAAATG
2245206 AAAAAAATG
1 AAAAAAATG
2245215 TTAAAGAAAA
Statistics
Matches: 106, Mismatches: 12, Indels: 22
0.76 0.09 0.16
Matches are distributed among these distances:
15 13 0.12
16 21 0.20
17 31 0.29
18 29 0.27
19 9 0.08
20 3 0.03
ACGTcount: A:0.73, C:0.01, G:0.15, T:0.11
Consensus pattern (17 bp):
AAAAAAATGAAAAAATG
Found at i:2245124 original size:27 final size:26
Alignment explanation
Indices: 2245070--2245176 Score: 123
Period size: 27 Copynumber: 4.2 Consensus size: 26
2245060 AATACTAGAT
*
2245070 AAAAAAA-GAAAAAA-TAAAAAAATG
1 AAAAAAATGAAAAAAGTGAAAAAATG
2245094 --AAAAATGAAAAAAGTGAAAAAAGTG
1 AAAAAAATGAAAAAAGTGAAAAAA-TG
*
2245119 AAAAAAGTGAAAAAAGTGAAAAAATG
1 AAAAAAATGAAAAAAGTGAAAAAATG
* * *
2245145 AAAAAAAATGAAAGAAGAGAAAAGATG
1 -AAAAAAATGAAAAAAGTGAAAAAATG
2245172 AAAAA
1 AAAAA
2245177 TAAGAAATGT
Statistics
Matches: 71, Mismatches: 6, Indels: 10
0.82 0.07 0.11
Matches are distributed among these distances:
22 5 0.07
23 7 0.10
24 7 0.10
25 2 0.03
26 7 0.10
27 43 0.61
ACGTcount: A:0.74, C:0.00, G:0.17, T:0.09
Consensus pattern (26 bp):
AAAAAAATGAAAAAAGTGAAAAAATG
Found at i:2245176 original size:9 final size:8
Alignment explanation
Indices: 2245070--2245150 Score: 101
Period size: 9 Copynumber: 9.8 Consensus size: 8
2245060 AATACTAGAT
*
2245070 AAAAAAAG
1 AAAAAATG
*
2245078 AAAAAATA
1 AAAAAATG
2245086 AAAAAATG
1 AAAAAATG
2245094 -AAAAATG
1 AAAAAATG
2245101 AAAAAAGTG
1 AAAAAA-TG
2245110 AAAAAAGTG
1 AAAAAA-TG
2245119 AAAAAAGTG
1 AAAAAA-TG
2245128 AAAAAAGTG
1 AAAAAA-TG
2245137 AAAAAATG
1 AAAAAATG
2245145 AAAAAA
1 AAAAAA
2245151 AATGAAAGAA
Statistics
Matches: 68, Mismatches: 3, Indels: 4
0.91 0.04 0.05
Matches are distributed among these distances:
7 7 0.10
8 26 0.38
9 35 0.51
ACGTcount: A:0.75, C:0.00, G:0.15, T:0.10
Consensus pattern (8 bp):
AAAAAATG
Found at i:2245213 original size:9 final size:8
Alignment explanation
Indices: 2245068--2245211 Score: 51
Period size: 9 Copynumber: 17.1 Consensus size: 8
2245058 TTAATACTAG
2245068 ATAAAAAA
1 ATAAAAAA
*
2245076 A-GAAAAA
1 ATAAAAAA
2245083 ATAAAAAA
1 ATAAAAAA
*
2245091 AT-GAAAA
1 ATAAAAAA
2245098 ATGAAAAAA
1 AT-AAAAAA
*
2245107 GTGAAAAAA
1 AT-AAAAAA
*
2245116 GTGAAAAAA
1 AT-AAAAAA
*
2245125 GTGAAAAAA
1 AT-AAAAAA
* *
2245134 GTGAAAAA
1 ATAAAAAA
2245142 ATGAAAAAAA
1 AT--AAAAAA
* *
2245152 ATGAAAGA
1 ATAAAAAA
* *
2245160 AGAGAAAAG
1 ATA-AAAAA
*
2245169 AT-GAAAA
1 ATAAAAAA
*
2245176 ATAAGAAAT
1 ATAA-AAAA
*
2245185 GTGAAACAAA
1 AT-AAA-AAA
2245195 ATAAAAAA
1 ATAAAAAA
2245203 ATAAAAAA
1 ATAAAAAA
2245211 A
1 A
2245212 ATGTTAAAGA
Statistics
Matches: 104, Mismatches: 22, Indels: 20
0.71 0.15 0.14
Matches are distributed among these distances:
7 17 0.16
8 31 0.30
9 44 0.42
10 12 0.12
ACGTcount: A:0.74, C:0.01, G:0.15, T:0.11
Consensus pattern (8 bp):
ATAAAAAA
Found at i:2247371 original size:19 final size:20
Alignment explanation
Indices: 2247347--2247392 Score: 69
Period size: 19 Copynumber: 2.4 Consensus size: 20
2247337 TTCAATTTTT
*
2247347 TTTATTTTGGTTTTAT-TTA
1 TTTATTTTGGTTTCATGTTA
2247366 TTTATTTTGGTTTCATGTTA
1 TTTATTTTGGTTTCATGTTA
2247386 -TTATTTT
1 TTTATTTT
2247393 ATTTATTTAT
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
19 22 0.88
20 3 0.12
ACGTcount: A:0.15, C:0.02, G:0.11, T:0.72
Consensus pattern (20 bp):
TTTATTTTGGTTTCATGTTA
Found at i:2247984 original size:23 final size:22
Alignment explanation
Indices: 2247928--2247985 Score: 55
Period size: 23 Copynumber: 2.6 Consensus size: 22
2247918 AAGAATTATT
* *
2247928 TTTAATATTAAATTTAAGATAA
1 TTTAAAATAAAATTTAAGATAA
* *
2247950 -TTAGAATCAAAATCTTAGGATAA
1 TTTAAAAT-AAAAT-TTAAGATAA
2247973 TTTAAAATAAAAT
1 TTTAAAATAAAAT
2247986 GGTACCATCA
Statistics
Matches: 28, Mismatches: 5, Indels: 5
0.74 0.13 0.13
Matches are distributed among these distances:
21 5 0.18
22 4 0.14
23 13 0.46
24 6 0.21
ACGTcount: A:0.52, C:0.03, G:0.07, T:0.38
Consensus pattern (22 bp):
TTTAAAATAAAATTTAAGATAA
Found at i:2249837 original size:40 final size:40
Alignment explanation
Indices: 2249753--2249844 Score: 102
Period size: 40 Copynumber: 2.4 Consensus size: 40
2249743 AATATTGAAT
** *
2249753 AAAAAATGAAAACCAATAAAATTATAAACTAAAAAATAAG
1 AAAAAATGAAAAAAAATAAAATTATAAAATAAAAAATAAG
*
2249793 AAAAAATTAAAAAAAATAAAATCTA-AAAATATAAAAAT--G
1 AAAAAATGAAAAAAAATAAAAT-TATAAAATA-AAAAATAAG
2249832 AAAAAA-GAAAAAA
1 AAAAAATGAAAAAA
2249845 GAAAAAGGAA
Statistics
Matches: 45, Mismatches: 5, Indels: 6
0.80 0.09 0.11
Matches are distributed among these distances:
38 6 0.13
39 7 0.16
40 24 0.53
41 8 0.18
ACGTcount: A:0.75, C:0.04, G:0.04, T:0.16
Consensus pattern (40 bp):
AAAAAATGAAAAAAAATAAAATTATAAAATAAAAAATAAG
Found at i:2250733 original size:13 final size:12
Alignment explanation
Indices: 2250715--2250758 Score: 52
Period size: 13 Copynumber: 3.5 Consensus size: 12
2250705 AAAGAAAAAA
*
2250715 ATAATAGTATACC
1 ATAATA-TATACT
*
2250728 ATAATATTATATT
1 ATAATA-TATACT
2250741 ATAATATATACT
1 ATAATATATACT
2250753 ATAATA
1 ATAATA
2250759 ATAACAAAAA
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
12 11 0.41
13 16 0.59
ACGTcount: A:0.50, C:0.07, G:0.02, T:0.41
Consensus pattern (12 bp):
ATAATATATACT
Found at i:2251303 original size:120 final size:119
Alignment explanation
Indices: 2250920--2251305 Score: 438
Period size: 119 Copynumber: 3.2 Consensus size: 119
2250910 CATGAATATG
* * *
2250920 AAAAATGATCTAGATTGAGCCAAGATCAGGTGA-CTAGGATGAAATCACGAGT-CAAAATAAAAC
1 AAAAATGATCTAGACTGAGCCAAGATCAGGTGATC-AGGATGAAATCACGAGTAAAAAATGAAAC
* *
2250983 GACTAGGATAGAGTCGAGGTCGAAAATAAATGACTGAGACAAAATCATGAGTCATA
65 GACCAAGATAGAGTCGAGGTCGAAAATAAATGACTGAGACAAAA-CATGAGTCATA
* * * * * * *
2251039 AAAAATGATCTAGATTGACCCAAGAGCTAGGTGATCAGGACGAAACCACTAGTAAAAAATGAAGC
1 AAAAATGATCTAGACTGAGCCAAGATC-AGGTGATCAGGATGAAATCACGAGTAAAAAATGAAAC
* ** * * * * * *
2251104 GATCAAGACCGAGTTGAGAT-AAAAATAAATGA-TCAAGATAAAACACGAGTCATA
65 GACCAAGATAGAGTCGAGGTCGAAAATAAATGACT-GAGACAAAACATGAGTCATA
* * * * *
2251158 AAAAATGATTTGGACTAAGCCAAGATCAGGTGATCGGGATGAAATCACGGGTAAAAAATGAAACG
1 AAAAATGATCTAGACTGAGCCAAGATCAGGTGATCAGGATGAAATCACGAGTAAAAAATGAAACG
* *
2251223 ACCAAGATTGAGTCGAGGTCGAAAATAAATGACTGGGACAAAACCATGAGTCATA
66 ACCAAGATAGAGTCGAGGTCGAAAATAAATGACTGAGACAAAA-CATGAGTCATA
*
2251278 AGAAATGATCTAGACTGAGCCAAGATCA
1 AAAAATGATCTAGACTGAGCCAAGATCA
2251306 AGTAAGTGAA
Statistics
Matches: 215, Mismatches: 45, Indels: 13
0.79 0.16 0.05
Matches are distributed among these distances:
118 46 0.21
119 74 0.34
120 73 0.34
121 22 0.10
ACGTcount: A:0.45, C:0.15, G:0.23, T:0.18
Consensus pattern (119 bp):
AAAAATGATCTAGACTGAGCCAAGATCAGGTGATCAGGATGAAATCACGAGTAAAAAATGAAACG
ACCAAGATAGAGTCGAGGTCGAAAATAAATGACTGAGACAAAACATGAGTCATA
Found at i:2262691 original size:28 final size:29
Alignment explanation
Indices: 2262651--2262707 Score: 80
Period size: 28 Copynumber: 2.0 Consensus size: 29
2262641 TCTTGAAAGA
*
2262651 TTTTTATTTAAAAAGATTT-TTTTATTAT
1 TTTTTATTGAAAAAGATTTCTTTTATTAT
* *
2262679 TTTTTATTGAAAAAGGTTTCTTTTTTTAT
1 TTTTTATTGAAAAAGATTTCTTTTATTAT
2262708 ATAAATATAT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
28 17 0.68
29 8 0.32
ACGTcount: A:0.28, C:0.02, G:0.07, T:0.63
Consensus pattern (29 bp):
TTTTTATTGAAAAAGATTTCTTTTATTAT
Found at i:2262863 original size:18 final size:19
Alignment explanation
Indices: 2262842--2262884 Score: 54
Period size: 18 Copynumber: 2.4 Consensus size: 19
2262832 TAAAAAATAA
2262842 GAAAAAAT-AAAATAAAAT
1 GAAAAAATGAAAATAAAAT
**
2262860 G-AAATCTGAAAATAAAAT
1 GAAAAAATGAAAATAAAAT
2262878 GAAAAAA
1 GAAAAAA
2262885 AAAGAAAACC
Statistics
Matches: 19, Mismatches: 4, Indels: 3
0.73 0.15 0.12
Matches are distributed among these distances:
17 4 0.21
18 12 0.63
19 3 0.16
ACGTcount: A:0.72, C:0.02, G:0.09, T:0.16
Consensus pattern (19 bp):
GAAAAAATGAAAATAAAAT
Found at i:2265555 original size:17 final size:17
Alignment explanation
Indices: 2265520--2265555 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
2265510 ATTTTAAAAA
* *
2265520 TTAATATTTTATTATTT
1 TTAATATTTTAGTAATT
2265537 TTAATATTTTAGTAATT
1 TTAATATTTTAGTAATT
2265554 TT
1 TT
2265556 TTATTAAAGA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.31, C:0.00, G:0.03, T:0.67
Consensus pattern (17 bp):
TTAATATTTTAGTAATT
Found at i:2265878 original size:25 final size:26
Alignment explanation
Indices: 2265818--2265869 Score: 77
Period size: 26 Copynumber: 2.0 Consensus size: 26
2265808 AATCTATTTA
*
2265818 AATATATAAAAAAATTATATTAAAAT
1 AATATATAAAAAAATTAAATTAAAAT
*
2265844 AATATATAAAAAATTTAAATTTAAAA
1 AATATATAAAAAAATTAAA-TTAAAA
2265870 ATTGATAAAC
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
26 17 0.74
27 6 0.26
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (26 bp):
AATATATAAAAAAATTAAATTAAAAT
Found at i:2270144 original size:22 final size:23
Alignment explanation
Indices: 2270098--2270146 Score: 66
Period size: 23 Copynumber: 2.2 Consensus size: 23
2270088 TTTGCTTATC
*
2270098 TTATTTATTTAGCTTTTAATCTT
1 TTATTTATCTAGCTTTTAATCTT
2270121 TTATTTATCTAG-TTTTAAAT-TT
1 TTATTTATCTAGCTTTT-AATCTT
2270143 TTAT
1 TTAT
2270147 CATAAATCAT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
22 10 0.42
23 14 0.58
ACGTcount: A:0.24, C:0.06, G:0.04, T:0.65
Consensus pattern (23 bp):
TTATTTATCTAGCTTTTAATCTT
Found at i:2271030 original size:38 final size:38
Alignment explanation
Indices: 2270988--2271078 Score: 128
Period size: 38 Copynumber: 2.4 Consensus size: 38
2270978 TTTTTTGCAT
*
2270988 AAAATCCTACCAACAAATTGAAAAATAATTTTCAATAG
1 AAAATCCTACCAACAAATTGAAAAATAATTTTCAATAA
* * *
2271026 AAAATCCTACCAATAAATTGAAAGATAATTTTTAATAA
1 AAAATCCTACCAACAAATTGAAAAATAATTTTCAATAA
* *
2271064 AAAATCTTTCCAACA
1 AAAATCCTACCAACA
2271079 GATTAGGGGA
Statistics
Matches: 46, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
38 46 1.00
ACGTcount: A:0.52, C:0.15, G:0.04, T:0.29
Consensus pattern (38 bp):
AAAATCCTACCAACAAATTGAAAAATAATTTTCAATAA
Found at i:2275884 original size:19 final size:19
Alignment explanation
Indices: 2275857--2275894 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
2275847 AACGGCATGA
*
2275857 TTTAAGAAAAGGAAATATG
1 TTTAAGAAAAAGAAATATG
*
2275876 TTTATGAAAAAGAAATATG
1 TTTAAGAAAAAGAAATATG
2275895 CCTTGGTTTA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.53, C:0.00, G:0.18, T:0.29
Consensus pattern (19 bp):
TTTAAGAAAAAGAAATATG
Found at i:2277429 original size:84 final size:86
Alignment explanation
Indices: 2277282--2277621 Score: 313
Period size: 84 Copynumber: 4.0 Consensus size: 86
2277272 CAAAGTTTGG
* * * * * *
2277282 TTTGTAAAACC-TCTAGGCATAATCTCTAAATCCTT-TGAA-CAAGATTCATAAG-TATTCCAAG
1 TTTGTAAAACCTTCGA-GTATAATCTCTAAGTCCTTCT-AAGCAAGATTCATAAGTTTTTACGAG
*
2277343 CTAAATCTATTTTAGAGTCAAGA
64 CTAAATCTATTTTAGAGTCGAGA
* * **
2277366 TTTGTAAAACCTTCGAGTGTAATCTTTAAGTCCTTC-AAGCAAGATTTGTAAG-TTTTACGAGCT
1 TTTGTAAAACCTTCGAGTATAATCTCTAAGTCCTTCTAAGCAAGATTCATAAGTTTTTACGAGCT
* *
2277429 AAATTTATTTTAGAGTCGCGA
66 AAATCTATTTTAGAGTCGAGA
* * *** *
2277450 TTTGTAAAAGCTTCGAGTATAATCTCCAAGTCC-TCTAAGCAAGATTCATAAGTTTTTTTTAGTT
1 TTTGTAAAACCTTCGAGTATAATCTCTAAGTCCTTCTAAGCAAGATTCATAAGTTTTTACGAGCT
* *
2277514 AAATCTGTTTTAAAGTCGAGA
66 AAATCTATTTTAGAGTCGAGA
* * ** * *
2277535 TTTGTAAGACCTTCAAACATAATCTCTAAGT-CTTCTAAGCAAGATTCATAAGTCTTCTA--AGT
1 TTTGTAAAACCTTCGAGTATAATCTCTAAGTCCTTCTAAGCAAGATTCATAAGT-TTTTACGAGC
* * *
2277597 TGAATCTATTTTAGAATTGAGA
65 TAAATCTATTTTAGAGTCGAGA
2277619 TTT
1 TTT
2277622 ATAAGATCTT
Statistics
Matches: 209, Mismatches: 40, Indels: 14
0.79 0.15 0.05
Matches are distributed among these distances:
83 4 0.02
84 130 0.62
85 72 0.34
86 3 0.01
ACGTcount: A:0.33, C:0.15, G:0.14, T:0.37
Consensus pattern (86 bp):
TTTGTAAAACCTTCGAGTATAATCTCTAAGTCCTTCTAAGCAAGATTCATAAGTTTTTACGAGCT
AAATCTATTTTAGAGTCGAGA
Found at i:2278097 original size:23 final size:23
Alignment explanation
Indices: 2278048--2278101 Score: 67
Period size: 21 Copynumber: 2.4 Consensus size: 23
2278038 ATTTCCTACA
* *
2278048 TTTATTTTTTATATTTTTTTGTC
1 TTTATTTATTATATTTTTTAGTC
2278071 -TTATTTATT-TATTTTTTAGTC
1 TTTATTTATTATATTTTTTAGTC
2278092 TTTTATTTAT
1 -TTTATTTAT
2278102 CTAGTTTTAA
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
21 11 0.41
22 8 0.30
23 8 0.30
ACGTcount: A:0.17, C:0.04, G:0.04, T:0.76
Consensus pattern (23 bp):
TTTATTTATTATATTTTTTAGTC
Found at i:2279007 original size:704 final size:707
Alignment explanation
Indices: 2277751--2279164 Score: 2015
Period size: 704 Copynumber: 2.0 Consensus size: 707
2277741 TAAGACAGTT
* * * *
2277751 GGGTTTAATTTTCAAGTTCTTTGAATGCGATCTATAAGACCTCTGGGTATAATTGTTAAAACCTT
1 GGGTTTAATTTTCAAGTTCTTTGAACGCGATCGATAAGACCTCTGAGCATAATTGTTAAAACCTT
* *
2277816 CAGATATCATCCTTAATTTAAAAAAAAAAAAATTATGTGCCTTTATTTTCAAAGAGCTTTTAAAA
66 CAGATATCATCCTTAATTTAAAAAAAAAAAAATTATATGCCTTTATTTTCAAAGAACTTTTAAAA
** * * *
2277881 AAAAGTTGAATAATTTGGGTCCGGATGTAATGGGTATCTATATCTTTGTATAATTTTTGTTTTAC
131 AAAAGTTGAATAATTTGAATCCGGATGTAATGGGTATCTAAATCTTTGTATAATTCTTGTTTCAC
** *
2277946 AAAAATTGTGCAAAGAGGGATAGTTGTAGCATCCTATTTAGTCTGGGCTTAAAGCCAATTGGGCC
196 AAAAATTGTGCAAAGAGGGATAGTTGTAGCATCCTATTTAGTCTGAACTCAAAGCCAATTGGGCC
* * *
2278011 TAGATCCGATCCAAGCCTAATTGTTCAATTTCCTACATTTATTTTTTATATTTTTTTGTCTTATT
261 TAGATACGATCCAAGCCCAATTGTCCAATTTCCTACATTTATTTTTTATATTTTTTTGTCTTATT
* *
2278076 TATTTATTTTTTAGTCTTTTATTTATCTAGTTTTAAATTTTTATCACAAATCATGTTAATAAAAT
326 TATTTATCTTTTAGTCTTTTATTTATCTAGTTTTAAATTTTTATCACAAATCATGTCAATAAAAT
* * * * **
2278141 TTGTAGAGTAATTTAAGCACTAATCAAGGATGATATCAACAATTAAGACTAAAATTTGATTTCTT
391 TTATAGAGTAATTTAAGCACTAATCAAGGATAATATCAACAATTAAAACTAAAATATGACATCTT
* * * *
2278206 CATATATTAAAAGAAGGTTGAAAAGAAATCAAATTAAGAAATCAAAGTTAGATTTAATTTAGAAA
456 CAAATATTAAAAGAAGGTTAAAAAGAAATCAAATCAAGAAATCAAAGTCAGATTTAATTTAGAAA
* *
2278271 ATTTTAAAAGATTCTGAAAATCAAGGAAAATCGAGACAATTCCATATATTAATTAAA-CATGTTT
521 ATTTTAAAAGATTCTAAAAATCAAGAAAAATCGAGACAATTCCATATATTAATTAAACCA-GTTT
* *** * *
2278335 TAAAGAGAA-TAAAAA-AATTAATTTGGAGCATAATTAGATCTGTAATTCTTTTCATTAAATGTA
585 TAAAAAGAACTAAAAATAATTAATTCAAAGCATAATCAGATCTGTAATTCTTTTCATTAAATGCA
* **
2278398 AATCCCTAAAATTCCTAGCAAAATG-CCTTATATAAACATTAATCAACCACACACAAAA
650 AATCCCTAAAATTCCTAGCAAAA-GACCCTATATAAACACCAATCAACCACACACAAAA
* * * *
2278456 GGGTTTAATTTTCAAGTTCTTTGGACGTGATCGATAAGACCTCTGAGCATGATTGTTAAAACTTT
1 GGGTTTAATTTTCAAGTTCTTTGAACGCGATCGATAAGACCTCTGAGCATAATTGTTAAAACCTT
* **
2278521 CA-AGTATCATCCTTAATTT-TAAAAAAAAAAATTATATGCCTTTATTTTTGAAGAACTTTTAAA
66 CAGA-TATCATCCTTAATTTAAAAAAAAAAAAATTATATGCCTTTATTTTCAAAGAACTTTTAAA
* *
2278584 AAAAAGTTGAATAATTTGAATCCGGATGTAATGGGTATCTAAATCTTTGTA-CATTCTT-TTTCG
130 AAAAAGTTGAATAATTTGAATCCGGATGTAATGGGTATCTAAATCTTTGTATAATTCTTGTTTCA
* * *
2278647 TAAAAATTGTGCAAAGAGAGG-TAGTTGTAGACATCTTATTTAGTCTGAAACTCAAA-CTAATTG
195 CAAAAATTGTGCAAAGAG-GGATAGTTGTAG-CATCCTATTTAGTCTG-AACTCAAAGCCAATTG
* * * *
2278710 GGCCTAGATATGATTCAAGCCCAATTGTCCAATTTTCTACATTTATTTTTTTTATTTTGTTTGTC
257 GGCCTAGATACGATCCAAGCCCAATTGTCCAATTTCCTACATTTATTTTTTATATTTT-TTTGTC
* * * *
2278775 TTATTTATTTATCTTTTAGTCTTTTATTTATTTATTTTTAAATTTTTATCATAAATCATGTCATT
321 TTATTTATTTATCTTTTAGTCTTTTATTTATCTAGTTTTAAATTTTTATCACAAATCATGTCAAT
* * *
2278840 AAAATTTATAGAGTAATTTAAGCACTAATCAAGTATAATATCGATAATTAAAACTAAAATATGAC
386 AAAATTTATAGAGTAATTTAAGCACTAATCAAGGATAATATCAACAATTAAAACTAAAATATGAC
*
2278905 ATCTTCAAATATT-AAAGTAAGGTTAAAAAGAAATTAAATCAAGAAATCAAAGTCAGATTTAATT
451 ATCTTCAAATATTAAAAG-AAGGTTAAAAAGAAATCAAATCAAGAAATCAAAGTCAGATTTAATT
* * *
2278969 T-GAGAAATTTTAAAGGATTCTAAAAATCAAGAAAAATCGAGATAATTTCATATATTAATTAAAC
515 TAGA-AAATTTTAAAAGATTCTAAAAATCAAGAAAAATCGAGACAATTCCATATATTAATTAAAC
*
2279033 CAGTTTTAAAAATAATCTAAAAATAATTAATTCAAAGCATAATCAGATCTGTAATTCTTTTCATT
579 CAGTTTTAAAAAGAA-CTAAAAATAATTAATTCAAAGCATAATCAGATCTGTAATTCTTTTCATT
* * *
2279098 CAATGCAAATCCTTAAAATTCTTAGCAAAAGACCCTATATAAACACCAATCAACCACACACAAAA
643 AAATGCAAATCCCTAAAATTCCTAGCAAAAGACCCTATATAAACACCAATCAACCACACACAAAA
2279163 GG
1 GG
2279165 AAACCAAAAA
Statistics
Matches: 626, Mismatches: 71, Indels: 22
0.87 0.10 0.03
Matches are distributed among these distances:
702 29 0.05
703 85 0.14
704 334 0.53
705 76 0.12
706 7 0.01
707 95 0.15
ACGTcount: A:0.38, C:0.12, G:0.12, T:0.37
Consensus pattern (707 bp):
GGGTTTAATTTTCAAGTTCTTTGAACGCGATCGATAAGACCTCTGAGCATAATTGTTAAAACCTT
CAGATATCATCCTTAATTTAAAAAAAAAAAAATTATATGCCTTTATTTTCAAAGAACTTTTAAAA
AAAAGTTGAATAATTTGAATCCGGATGTAATGGGTATCTAAATCTTTGTATAATTCTTGTTTCAC
AAAAATTGTGCAAAGAGGGATAGTTGTAGCATCCTATTTAGTCTGAACTCAAAGCCAATTGGGCC
TAGATACGATCCAAGCCCAATTGTCCAATTTCCTACATTTATTTTTTATATTTTTTTGTCTTATT
TATTTATCTTTTAGTCTTTTATTTATCTAGTTTTAAATTTTTATCACAAATCATGTCAATAAAAT
TTATAGAGTAATTTAAGCACTAATCAAGGATAATATCAACAATTAAAACTAAAATATGACATCTT
CAAATATTAAAAGAAGGTTAAAAAGAAATCAAATCAAGAAATCAAAGTCAGATTTAATTTAGAAA
ATTTTAAAAGATTCTAAAAATCAAGAAAAATCGAGACAATTCCATATATTAATTAAACCAGTTTT
AAAAAGAACTAAAAATAATTAATTCAAAGCATAATCAGATCTGTAATTCTTTTCATTAAATGCAA
ATCCCTAAAATTCCTAGCAAAAGACCCTATATAAACACCAATCAACCACACACAAAA
Found at i:2280680 original size:2 final size:2
Alignment explanation
Indices: 2280670--2280700 Score: 53
Period size: 2 Copynumber: 15.0 Consensus size: 2
2280660 TTTTTCTCTC
2280670 TA TA CTA TA TA 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
2280701 GTTTTCCAGG
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
2 26 0.93
3 2 0.07
ACGTcount: A:0.48, C:0.03, G:0.00, T:0.48
Consensus pattern (2 bp):
TA
Found at i:2288825 original size:11 final size:12
Alignment explanation
Indices: 2288787--2288827 Score: 50
Period size: 11 Copynumber: 3.5 Consensus size: 12
2288777 CGATAATACA
2288787 ATATAAATAA-G
1 ATATAAATAATG
*
2288798 ATATAAATATATA
1 ATATAAATA-ATG
2288811 ATATAAA-AATG
1 ATATAAATAATG
2288822 ATATAA
1 ATATAA
2288828 TTTAAAATTT
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
11 17 0.65
12 2 0.08
13 7 0.27
ACGTcount: A:0.63, C:0.00, G:0.05, T:0.32
Consensus pattern (12 bp):
ATATAAATAATG
Found at i:2291430 original size:3 final size:3
Alignment explanation
Indices: 2291422--2291463 Score: 84
Period size: 3 Copynumber: 14.0 Consensus size: 3
2291412 TACGTACCAA
2291422 AAT AAT AAT 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 AAT
2291464 GATGATGTGA
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 39 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:2295294 original size:21 final size:24
Alignment explanation
Indices: 2295261--2295315 Score: 71
Period size: 22 Copynumber: 2.4 Consensus size: 24
2295251 ATAGTTATTT
* *
2295261 TATATATAAATC-TATTTAAAT-A
1 TATATAAAAATCTTATTAAAATAA
2295283 TAT-TAAAAATCTTATTAAAATAA
1 TATATAAAAATCTTATTAAAATAA
2295306 TATATAAAAA
1 TATATAAAAA
2295316 ATTAAAATTT
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
21 7 0.25
22 11 0.39
23 4 0.14
24 6 0.21
ACGTcount: A:0.56, C:0.04, G:0.00, T:0.40
Consensus pattern (24 bp):
TATATAAAAATCTTATTAAAATAA
Done.