Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167937.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_2, 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: 35885061
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 165000 characters in sequence are not A, C, G, or T
File 18 of 195
Found at i:4119742 original size:24 final size:24
Alignment explanation
Indices: 4119715--4119768 Score: 99
Period size: 24 Copynumber: 2.2 Consensus size: 24
4119705 AAAATAAATT
4119715 AATAAATTAAAATTAACTCATAAA
1 AATAAATTAAAATTAACTCATAAA
*
4119739 AATAAATTGAAATTAACTCATAAA
1 AATAAATTAAAATTAACTCATAAA
4119763 AATAAA
1 AATAAA
4119769 ATATTTAATA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
24 29 1.00
ACGTcount: A:0.63, C:0.07, G:0.02, T:0.28
Consensus pattern (24 bp):
AATAAATTAAAATTAACTCATAAA
Found at i:4120320 original size:17 final size:16
Alignment explanation
Indices: 4120298--4120340 Score: 59
Period size: 17 Copynumber: 2.6 Consensus size: 16
4120288 TTGATTATTT
4120298 TAAATTAAATATAAAAA
1 TAAATTAAA-ATAAAAA
4120315 TAAATTTAAAATAAAAA
1 TAAA-TTAAAATAAAAA
*
4120332 TAATTTAAA
1 TAAATTAAA
4120341 CAAATATTAA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
16 5 0.21
17 14 0.58
18 5 0.21
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (16 bp):
TAAATTAAAATAAAAA
Found at i:4121167 original size:23 final size:23
Alignment explanation
Indices: 4121122--4121235 Score: 67
Period size: 23 Copynumber: 5.0 Consensus size: 23
4121112 TAATAAAATA
* *
4121122 ATATTTATATATATATATATATATT
1 ATATTAATAAATAT-TAT-TATATT
4121147 ATATTAATAAATATTATTATATT
1 ATATTAATAAATATTATTATATT
* * *
4121170 -TGTTGTATAAATAATATTATATT
1 ATATT-AATAAATATTATTATATT
** * *
4121193 A-AGAAAT-TATA-TATTATTTT
1 ATATTAATAAATATTATTATATT
4121213 A-ATTAATAAATAATATATTATAT
1 ATATTAATAAAT-AT-TATTATAT
4121236 ATAAATACAT
Statistics
Matches: 68, Mismatches: 15, Indels: 13
0.71 0.16 0.14
Matches are distributed among these distances:
20 13 0.19
21 5 0.07
22 6 0.09
23 22 0.32
24 10 0.15
25 12 0.18
ACGTcount: A:0.46, C:0.00, G:0.03, T:0.51
Consensus pattern (23 bp):
ATATTAATAAATATTATTATATT
Found at i:4121211 original size:41 final size:42
Alignment explanation
Indices: 4121133--4121235 Score: 113
Period size: 42 Copynumber: 2.4 Consensus size: 42
4121123 TATTTATATA
* *
4121133 TATATATATATATTATATTAATAAATATTATTATATTTGTTG
1 TATAAATATATATTATATTAAGAAATATTATTATATTTGTTG
*
4121175 TATAAATA-ATATTATATTAAGAAATTATATATTAT-TTTAATT-
1 TATAAATATATATTATATTAAGAAA-TAT-TATTATATTT-GTTG
*
4121217 AATAAATAATATATTATAT
1 TATAAAT-ATATATTATAT
4121236 ATAAATACAT
Statistics
Matches: 52, Mismatches: 4, Indels: 8
0.81 0.06 0.12
Matches are distributed among these distances:
41 15 0.29
42 19 0.37
43 9 0.17
44 9 0.17
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (42 bp):
TATAAATATATATTATATTAAGAAATATTATTATATTTGTTG
Found at i:4122609 original size:46 final size:46
Alignment explanation
Indices: 4122539--4122632 Score: 161
Period size: 46 Copynumber: 2.0 Consensus size: 46
4122529 AGTAATAGTT
* *
4122539 TTGGTTTGTGATCTTTCTTAACAAGATGTTGACAAGGCAGATTGCC
1 TTGGTTTGTGATCTTTCTTAACAAGATGATGACAAGGCAGAGTGCC
*
4122585 TTGGTTTGTGATCTTTCTTTACAAGATGATGACAAGGCAGAGTGCC
1 TTGGTTTGTGATCTTTCTTAACAAGATGATGACAAGGCAGAGTGCC
4122631 TT
1 TT
4122633 TATGTAATAG
Statistics
Matches: 45, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
46 45 1.00
ACGTcount: A:0.23, C:0.15, G:0.24, T:0.37
Consensus pattern (46 bp):
TTGGTTTGTGATCTTTCTTAACAAGATGATGACAAGGCAGAGTGCC
Found at i:4127840 original size:21 final size:20
Alignment explanation
Indices: 4127814--4127876 Score: 56
Period size: 21 Copynumber: 3.0 Consensus size: 20
4127804 TAAAAAAATA
4127814 ATAATAATAAAATTAATTATT
1 ATAATAATAAAATTAA-TATT
* *
4127835 ATAATATTAAACATGAATATT
1 ATAATAATAAA-ATTAATATT
* *
4127856 GTAACT-ATAAAATTAAAATT
1 ATAA-TAATAAAATTAATATT
4127876 A
1 A
4127877 ATAGTGAAAT
Statistics
Matches: 33, Mismatches: 7, Indels: 5
0.73 0.16 0.11
Matches are distributed among these distances:
20 7 0.21
21 21 0.64
22 5 0.15
ACGTcount: A:0.56, C:0.03, G:0.03, T:0.38
Consensus pattern (20 bp):
ATAATAATAAAATTAATATT
Found at i:4127938 original size:19 final size:19
Alignment explanation
Indices: 4127916--4127984 Score: 65
Period size: 19 Copynumber: 3.7 Consensus size: 19
4127906 CAATAATAAC
* *
4127916 AAAATTATTTAATATTTAT
1 AAAATTAATAAATATTTAT
4127935 AAAATTAATAAATATTTA-
1 AAAATTAATAAATATTTAT
4127953 AAATATT-A-AAATATTTTAT
1 AAA-ATTAATAAATA-TTTAT
4127972 ATAAA-TAATAAAT
1 A-AAATTAATAAAT
4127985 CATGAGAGTT
Statistics
Matches: 42, Mismatches: 2, Indels: 11
0.76 0.04 0.20
Matches are distributed among these distances:
17 5 0.12
18 9 0.21
19 22 0.52
20 6 0.14
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (19 bp):
AAAATTAATAAATATTTAT
Found at i:4132377 original size:14 final size:14
Alignment explanation
Indices: 4132358--4132384 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
4132348 AAAGTTTGAG
4132358 TTTCTTATAGTTTA
1 TTTCTTATAGTTTA
4132372 TTTCTTATAGTTT
1 TTTCTTATAGTTT
4132385 GATCAGGTTC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.19, C:0.07, G:0.07, T:0.67
Consensus pattern (14 bp):
TTTCTTATAGTTTA
Found at i:4133468 original size:20 final size:21
Alignment explanation
Indices: 4133445--4133493 Score: 59
Period size: 20 Copynumber: 2.5 Consensus size: 21
4133435 TTTTAATAAA
*
4133445 AAAATTAA-AAATTAAAAATT
1 AAAATTAATAAATGAAAAATT
*
4133465 AAAA-TAATATATGAAAAATT
1 AAAATTAATAAATGAAAAATT
4133485 AAAA-TAATA
1 AAAATTAATA
4133494 CAAATTTTAA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
19 3 0.12
20 23 0.88
ACGTcount: A:0.69, C:0.00, G:0.02, T:0.29
Consensus pattern (21 bp):
AAAATTAATAAATGAAAAATT
Found at i:4133488 original size:6 final size:7
Alignment explanation
Indices: 4133444--4133468 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
4133434 ATTTTAATAA
4133444 AAAAATT
1 AAAAATT
4133451 AAAAATT
1 AAAAATT
4133458 AAAAATT
1 AAAAATT
4133465 AAAA
1 AAAA
4133469 TAATATATGA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (7 bp):
AAAAATT
Found at i:4133612 original size:9 final size:9
Alignment explanation
Indices: 4133600--4133631 Score: 55
Period size: 9 Copynumber: 3.6 Consensus size: 9
4133590 TTTTGAAAAA
4133600 TAAAAAATC
1 TAAAAAATC
*
4133609 TAAAACATC
1 TAAAAAATC
4133618 TAAAAAATC
1 TAAAAAATC
4133627 TAAAA
1 TAAAA
4133632 TTTTCATAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 21 1.00
ACGTcount: A:0.66, C:0.12, G:0.00, T:0.22
Consensus pattern (9 bp):
TAAAAAATC
Found at i:4133668 original size:10 final size:10
Alignment explanation
Indices: 4133655--4133719 Score: 59
Period size: 10 Copynumber: 7.0 Consensus size: 10
4133645 TATTAAAAAT
4133655 TAATTTTTTA
1 TAATTTTTTA
4133665 TAATTTTTT-
1 TAATTTTTTA
*
4133674 T-ATTTTTTT
1 TAATTTTTTA
**
4133683 TAAAATTTTA
1 TAATTTTTTA
4133693 T-A-TTTTTA
1 TAATTTTTTA
*
4133701 T-ATATTTTA
1 TAATTTTTTA
4133710 TAATTTTTTA
1 TAATTTTTTA
4133720 AATATTTCAA
Statistics
Matches: 45, Mismatches: 6, Indels: 8
0.76 0.10 0.14
Matches are distributed among these distances:
8 14 0.31
9 9 0.20
10 22 0.49
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (10 bp):
TAATTTTTTA
Found at i:4133691 original size:9 final size:9
Alignment explanation
Indices: 4133679--4133798 Score: 52
Period size: 9 Copynumber: 13.4 Consensus size: 9
4133669 TTTTTTATTT
4133679 TTTTTAAAA
1 TTTTTAAAA
*
4133688 -TTTT-ATA
1 TTTTTAAAA
*
4133695 TTTTT-ATA
1 TTTTTAAAA
*
4133703 TATTTTATAA
1 T-TTTTAAAA
*
4133713 TTTTTTAAA
1 TTTTTAAAA
* *
4133722 TATTT-CAA
1 TTTTTAAAA
**
4133730 TTTTT-AGT
1 TTTTTAAAA
*
4133738 TTTTTAATA
1 TTTTTAAAA
4133747 TTTTTAAAAA
1 TTTTT-AAAA
* *
4133757 TATTTCAAA
1 TTTTTAAAA
4133766 TTTTTAAAAA
1 TTTTT-AAAA
* *
4133776 ATTTTAGAAC
1 TTTTTA-AAA
4133786 TTTTTAAAA
1 TTTTTAAAA
4133795 TTTT
1 TTTT
4133799 GTGAATTTTG
Statistics
Matches: 82, Mismatches: 22, Indels: 14
0.69 0.19 0.12
Matches are distributed among these distances:
7 2 0.02
8 23 0.28
9 34 0.41
10 23 0.28
ACGTcount: A:0.37, C:0.03, G:0.02, T:0.59
Consensus pattern (9 bp):
TTTTTAAAA
Found at i:4133691 original size:17 final size:17
Alignment explanation
Indices: 4133671--4133726 Score: 51
Period size: 17 Copynumber: 3.2 Consensus size: 17
4133661 TTTATAATTT
4133671 TTTTATTTTTTTTAAAA
1 TTTTATTTTTTTTAAAA
* *
4133688 TTTTA-TATTTTTATATA
1 TTTTATTTTTTTTA-AAA
*
4133705 TTTTATAATTTTTTAAATA
1 TTTTAT-TTTTTTTAAA-A
4133724 TTT
1 TTT
4133727 CAATTTTTAG
Statistics
Matches: 30, Mismatches: 5, Indels: 6
0.73 0.12 0.15
Matches are distributed among these distances:
16 7 0.23
17 12 0.40
18 1 0.03
19 10 0.33
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (17 bp):
TTTTATTTTTTTTAAAA
Found at i:4133699 original size:20 final size:20
Alignment explanation
Indices: 4133658--4133699 Score: 59
Period size: 19 Copynumber: 2.1 Consensus size: 20
4133648 TAAAAATTAA
* *
4133658 TTTTTTATAATTTTTTTATT
1 TTTTTTAAAATTTTTATATT
4133678 TTTTTTAAAA-TTTTATATT
1 TTTTTTAAAATTTTTATATT
4133697 TTT
1 TTT
4133700 ATATATTTTA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
19 11 0.55
20 9 0.45
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (20 bp):
TTTTTTAAAATTTTTATATT
Found at i:4133719 original size:19 final size:19
Alignment explanation
Indices: 4133655--4133726 Score: 69
Period size: 18 Copynumber: 3.9 Consensus size: 19
4133645 TATTAAAAAT
*
4133655 TAATTTTTTATA-ATTTTT
1 TAATTTTTTATATATTTTA
* * *
4133673 TTATTTTTTTTAAAATTTTA
1 TAATTTTTTAT-ATATTTTA
4133693 T-A-TTTTTATATATTTTA
1 TAATTTTTTATATATTTTA
*
4133710 TAATTTTTTAAATATTT
1 TAATTTTTTATATATTT
4133727 CAATTTTTAG
Statistics
Matches: 44, Mismatches: 6, Indels: 7
0.77 0.11 0.12
Matches are distributed among these distances:
17 8 0.18
18 16 0.36
19 14 0.32
20 6 0.14
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (19 bp):
TAATTTTTTATATATTTTA
Found at i:4133746 original size:23 final size:25
Alignment explanation
Indices: 4133704--4133749 Score: 69
Period size: 24 Copynumber: 1.9 Consensus size: 25
4133694 ATTTTTATAT
4133704 ATTTTATAATTTTTTAAATATTTCA
1 ATTTTATAATTTTTTAAATATTTCA
*
4133729 ATTTT-TAGTTTTTT-AATATTT
1 ATTTTATAATTTTTTAAATATTT
4133750 TTAAAAATAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 7 0.35
24 8 0.40
25 5 0.25
ACGTcount: A:0.30, C:0.02, G:0.02, T:0.65
Consensus pattern (25 bp):
ATTTTATAATTTTTTAAATATTTCA
Found at i:4133775 original size:20 final size:19
Alignment explanation
Indices: 4133746--4133794 Score: 64
Period size: 19 Copynumber: 2.5 Consensus size: 19
4133736 GTTTTTTAAT
*
4133746 ATTTTTAAAAATATTTCA-A
1 ATTTTTAAAAA-ATTTTAGA
4133765 ATTTTTAAAAAATTTTAGA
1 ATTTTTAAAAAATTTTAGA
4133784 ACTTTTTAAAA
1 A-TTTTTAAAA
4133795 TTTTGTGAAT
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
18 5 0.19
19 13 0.48
20 9 0.33
ACGTcount: A:0.47, C:0.04, G:0.02, T:0.47
Consensus pattern (19 bp):
ATTTTTAAAAAATTTTAGA
Found at i:4133990 original size:33 final size:33
Alignment explanation
Indices: 4133952--4134018 Score: 100
Period size: 33 Copynumber: 2.0 Consensus size: 33
4133942 TGTACGATGG
4133952 AATGAAAATTAA-AATATCAAATTAACAAAAAAA
1 AATGAAAATTAAGAATAT-AAATTAACAAAAAAA
* *
4133985 AATGAAAGTTAAGAGTATAAATTAACAAAAAAA
1 AATGAAAATTAAGAATATAAATTAACAAAAAAA
4134018 A
1 A
4134019 TAGTTCAGAG
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
33 27 0.87
34 4 0.13
ACGTcount: A:0.67, C:0.04, G:0.07, T:0.21
Consensus pattern (33 bp):
AATGAAAATTAAGAATATAAATTAACAAAAAAA
Found at i:4134261 original size:13 final size:13
Alignment explanation
Indices: 4134243--4134267 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
4134233 TTGATAAAGT
4134243 AAATAAAAAATAG
1 AAATAAAAAATAG
4134256 AAATAAAAAATA
1 AAATAAAAAATA
4134268 ATAGGAATGT
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:0.80, C:0.00, G:0.04, T:0.16
Consensus pattern (13 bp):
AAATAAAAAATAG
Found at i:4138361 original size:11 final size:11
Alignment explanation
Indices: 4138345--4138369 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
4138335 TGATCTTTAA
4138345 CTTTTGAATCC
1 CTTTTGAATCC
4138356 CTTTTGAATCC
1 CTTTTGAATCC
4138367 CTT
1 CTT
4138370 ATAGTAGTAA
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:0.28, G:0.08, T:0.48
Consensus pattern (11 bp):
CTTTTGAATCC
Found at i:4148915 original size:21 final size:19
Alignment explanation
Indices: 4148872--4148910 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 19
4148862 TGATTCAATC
4148872 ATTTTAAATATAAAAAATT
1 ATTTTAAATATAAAAAATT
* *
4148891 ATTTTTAATATATAAAATT
1 ATTTTAAATATAAAAAATT
4148910 A
1 A
4148911 AATTTATATG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (19 bp):
ATTTTAAATATAAAAAATT
Found at i:4148916 original size:19 final size:19
Alignment explanation
Indices: 4148878--4148916 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
4148868 AATCATTTTA
**
4148878 AATATAAAAAATTATTTTT
1 AATATAAAAAATTAAATTT
*
4148897 AATATATAAAATTAAATTT
1 AATATAAAAAATTAAATTT
4148916 A
1 A
4148917 TATGTTTTAT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (19 bp):
AATATAAAAAATTAAATTT
Found at i:4149296 original size:19 final size:19
Alignment explanation
Indices: 4149274--4149322 Score: 55
Period size: 20 Copynumber: 2.5 Consensus size: 19
4149264 AATATGATTA
4149274 TTTAAATTTATCATAAT-TT
1 TTTAAATTTAT-ATAATGTT
*
4149293 TTTAAATATTATTTAATGTT
1 TTTAAAT-TTATATAATGTT
4149313 TTTAATATTT
1 TTTAA-ATTT
4149323 TTGATAAATA
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
19 11 0.42
20 13 0.50
21 2 0.08
ACGTcount: A:0.35, C:0.02, G:0.02, T:0.61
Consensus pattern (19 bp):
TTTAAATTTATATAATGTT
Found at i:4149314 original size:20 final size:20
Alignment explanation
Indices: 4149274--4149321 Score: 57
Period size: 19 Copynumber: 2.5 Consensus size: 20
4149264 AATATGATTA
4149274 TTTAAAT-TTATCATAATTT
1 TTTAAATATTATCATAATTT
*
4149293 TTTAAATATTAT-TTAATGTT
1 TTTAAATATTATCATAAT-TT
4149313 TTT-AATATT
1 TTTAAATATT
4149322 TTTGATAAAT
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
19 17 0.65
20 9 0.35
ACGTcount: A:0.35, C:0.02, G:0.02, T:0.60
Consensus pattern (20 bp):
TTTAAATATTATCATAATTT
Found at i:4155647 original size:17 final size:18
Alignment explanation
Indices: 4155614--4155649 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 18
4155604 GATATTTTTT
*
4155614 AATTTTATTTGTAAAAAA
1 AATTTTATTTATAAAAAA
4155632 AATTTTA-TTATAAAAAA
1 AATTTTATTTATAAAAAA
4155649 A
1 A
4155650 TTATAAAAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 10 0.59
18 7 0.41
ACGTcount: A:0.56, C:0.00, G:0.03, T:0.42
Consensus pattern (18 bp):
AATTTTATTTATAAAAAA
Found at i:4173513 original size:24 final size:25
Alignment explanation
Indices: 4173468--4173523 Score: 60
Period size: 24 Copynumber: 2.3 Consensus size: 25
4173458 TATTTTATTA
* * *
4173468 ATAAAATAATATCATTTAATAATGT
1 ATAAAATAATATAAGTTAATAATAT
*
4173493 ATAAAAT-ATATAAGTTGATAATAT
1 ATAAAATAATATAAGTTAATAATAT
*
4173517 ATTAAAT
1 ATAAAAT
4173524 TTAAATCATG
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
24 19 0.73
25 7 0.27
ACGTcount: A:0.54, C:0.02, G:0.05, T:0.39
Consensus pattern (25 bp):
ATAAAATAATATAAGTTAATAATAT
Found at i:4175374 original size:14 final size:14
Alignment explanation
Indices: 4175355--4175382 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
4175345 AAGATTCGTT
4175355 ATAGTTGACTATAA
1 ATAGTTGACTATAA
4175369 ATAGTTGACTATAA
1 ATAGTTGACTATAA
4175383 TTGTAATTGT
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:0.07, G:0.14, T:0.36
Consensus pattern (14 bp):
ATAGTTGACTATAA
Found at i:4176083 original size:40 final size:40
Alignment explanation
Indices: 4176028--4176109 Score: 146
Period size: 40 Copynumber: 2.0 Consensus size: 40
4176018 ATTGACAACA
*
4176028 TTGTATGAGAGAAAAATAAGTATGAATAAAGTTGTGTTTG
1 TTGTATGAGAGAAAAATAAGTATGAATAAAGTTATGTTTG
*
4176068 TTGTATGAGAGAAAAATAGGTATGAATAAAGTTATGTTTG
1 TTGTATGAGAGAAAAATAAGTATGAATAAAGTTATGTTTG
4176108 TT
1 TT
4176110 AAAAAGCTTA
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
40 40 1.00
ACGTcount: A:0.39, C:0.00, G:0.24, T:0.37
Consensus pattern (40 bp):
TTGTATGAGAGAAAAATAAGTATGAATAAAGTTATGTTTG
Found at i:4179126 original size:17 final size:16
Alignment explanation
Indices: 4179087--4179128 Score: 52
Period size: 15 Copynumber: 2.6 Consensus size: 16
4179077 TAAAAGCAAC
4179087 TAATTGATTTGAAATA
1 TAATTGATTTGAAATA
4179103 T-ATTGATTT-AAATCA
1 TAATTGATTTGAAAT-A
4179118 TCAATTGATTT
1 T-AATTGATTT
4179129 CTTCTTTGAT
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
14 4 0.17
15 10 0.43
16 1 0.04
17 8 0.35
ACGTcount: A:0.38, C:0.05, G:0.10, T:0.48
Consensus pattern (16 bp):
TAATTGATTTGAAATA
Found at i:4186454 original size:24 final size:23
Alignment explanation
Indices: 4186422--4186467 Score: 74
Period size: 24 Copynumber: 2.0 Consensus size: 23
4186412 AGTTAATGAT
4186422 AAAAAAATATTTAATAAAAAATA
1 AAAAAAATATTTAATAAAAAATA
*
4186445 AAAAAGAATATTTTATAAAAAAT
1 AAAAA-AATATTTAATAAAAAAT
4186468 TATCATTTTT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
23 5 0.24
24 16 0.76
ACGTcount: A:0.70, C:0.00, G:0.02, T:0.28
Consensus pattern (23 bp):
AAAAAAATATTTAATAAAAAATA
Found at i:4196015 original size:19 final size:21
Alignment explanation
Indices: 4195991--4196032 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 21
4195981 CCTCAAACCC
4195991 TTCCAA-TTAAGCAA-TTCTT
1 TTCCAATTTAAGCAATTTCTT
4196010 TTCCAATTTTAAGCAATTTCTT
1 TTCCAA-TTTAAGCAATTTCTT
4196032 T
1 T
4196033 CATTCCCCCC
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
19 6 0.30
21 8 0.40
22 6 0.30
ACGTcount: A:0.29, C:0.19, G:0.05, T:0.48
Consensus pattern (21 bp):
TTCCAATTTAAGCAATTTCTT
Found at i:4198597 original size:15 final size:16
Alignment explanation
Indices: 4198577--4198610 Score: 52
Period size: 15 Copynumber: 2.2 Consensus size: 16
4198567 TTAATTTGAA
*
4198577 AATATAAAA-ATTTAT
1 AATATAAAATAATTAT
4198592 AATATAAAATAATTAT
1 AATATAAAATAATTAT
4198608 AAT
1 AAT
4198611 TTTTAAAAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 9 0.53
16 8 0.47
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (16 bp):
AATATAAAATAATTAT
Found at i:4214664 original size:24 final size:24
Alignment explanation
Indices: 4214637--4214686 Score: 66
Period size: 24 Copynumber: 2.1 Consensus size: 24
4214627 TATAAATTTG
4214637 ATTTATATTTAT-TTAATAATAAAA
1 ATTT-TATTTATATTAATAATAAAA
**
4214661 ATTTTATTTATATTTTTAATAAAA
1 ATTTTATTTATATTAATAATAAAA
4214685 AT
1 AT
4214687 ATCTATCTAA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
23 7 0.30
24 16 0.70
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (24 bp):
ATTTTATTTATATTAATAATAAAA
Found at i:4214678 original size:27 final size:29
Alignment explanation
Indices: 4214624--4214682 Score: 86
Period size: 29 Copynumber: 2.1 Consensus size: 29
4214614 AAATTATTTT
*
4214624 TAATATAAATTTGATTTATATTTATTTAA
1 TAATAAAAATTTGATTTATATTTATTTAA
*
4214653 TAATAAAAATTTTATTTATA-TT-TTTAA
1 TAATAAAAATTTGATTTATATTTATTTAA
4214680 TAA
1 TAA
4214683 AAATATCTAT
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
27 8 0.29
28 2 0.07
29 18 0.64
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (29 bp):
TAATAAAAATTTGATTTATATTTATTTAA
Found at i:4217117 original size:14 final size:14
Alignment explanation
Indices: 4217100--4217130 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
4217090 TTCATTTTAT
*
4217100 TAAAATAATAAATA
1 TAAAATAATAAAAA
4217114 TAAAATAATAAAAA
1 TAAAATAATAAAAA
4217128 TAA
1 TAA
4217131 TTAAATGAGA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (14 bp):
TAAAATAATAAAAA
Found at i:4218275 original size:63 final size:59
Alignment explanation
Indices: 4218173--4218393 Score: 167
Period size: 63 Copynumber: 3.5 Consensus size: 59
4218163 TGACACTTTG
* * *
4218173 AATGCCTTAATTGATCCTTTTTATAAATTA-AAAACAAGATAAATTAAAGCATTTGTGTAACCA
1 AATGCCTTAATTGAT--TTTTTTTAATTTATAAAA-AAGATAAATTAAGGCATTTG-GT-ACCA
* * * ** *
4218236 AATGCCTTAATTGATGTTATTTTTAATTTATAAAAAAGATTATTTAAGGCGTTCAAAGTACTA
1 AATGCCTTAATTGAT-TT-TTTTTAATTTATAAAAAAGATAAATTAAGGCATT--TGGTACCA
* * *
4218299 AATGCCTTAATTGATTATTTTTTTTATTTAT-AAAATGATCAATTAAGGCATTTGGTTACACA
1 AATGCCTTAATTGA-T-TTTTTTTAATTTATAAAAAAGATAAATTAAGGCATTTGG-TAC-CA
**
4218361 AACACCTTAATTGATTTTTTTTAAAATTTATAA
1 AATGCCTTAATTGATTTTTTTT--AATTTATAA
4218394 TTTATAAATT
Statistics
Matches: 126, Mismatches: 22, Indels: 20
0.75 0.13 0.12
Matches are distributed among these distances:
60 8 0.06
61 4 0.03
62 38 0.30
63 67 0.53
64 9 0.07
ACGTcount: A:0.38, C:0.10, G:0.10, T:0.42
Consensus pattern (59 bp):
AATGCCTTAATTGATTTTTTTTAATTTATAAAAAAGATAAATTAAGGCATTTGGTACCA
Found at i:4218538 original size:28 final size:28
Alignment explanation
Indices: 4218498--4218551 Score: 90
Period size: 28 Copynumber: 1.9 Consensus size: 28
4218488 AAACACCTTA
* *
4218498 ATTGATCTTTCATATATTATTTATAAGT
1 ATTGATCATTCATATATAATTTATAAGT
4218526 ATTGATCATTCATATATAATTTATAA
1 ATTGATCATTCATATATAATTTATAA
4218552 ATTGGATGAA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
28 24 1.00
ACGTcount: A:0.37, C:0.07, G:0.06, T:0.50
Consensus pattern (28 bp):
ATTGATCATTCATATATAATTTATAAGT
Found at i:4219068 original size:88 final size:88
Alignment explanation
Indices: 4218959--4219135 Score: 293
Period size: 88 Copynumber: 2.0 Consensus size: 88
4218949 CCTTGAAAAG
* *
4218959 CAAAACGGCTAATACAATTAAATGATAAAAAGCTGCAATACGTGTATTTCCCTAAACCCATCAA-
1 CAAAACGACTAATACAATTAAATGATAAAAAGCTGCAATACATGTATTTCCCTAAACCCAT-AAG
4219023 CTCATTTACTTTGCATTTTGGTTT
65 CTCATTTACTTTGCATTTTGGTTT
* **
4219047 CAAAACGACTAATACAATTAAATGATATAAAGCTGCAATACATGTATTTTTCTAAACCCATAAGC
1 CAAAACGACTAATACAATTAAATGATAAAAAGCTGCAATACATGTATTTCCCTAAACCCATAAGC
4219112 TCATTTACTTTGCATTTTGGTTT
66 TCATTTACTTTGCATTTTGGTTT
4219135 C
1 C
4219136 TTCATCTCTC
Statistics
Matches: 83, Mismatches: 5, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
87 2 0.02
88 81 0.98
ACGTcount: A:0.36, C:0.19, G:0.11, T:0.34
Consensus pattern (88 bp):
CAAAACGACTAATACAATTAAATGATAAAAAGCTGCAATACATGTATTTCCCTAAACCCATAAGC
TCATTTACTTTGCATTTTGGTTT
Found at i:4227954 original size:47 final size:46
Alignment explanation
Indices: 4227879--4227970 Score: 130
Period size: 47 Copynumber: 2.0 Consensus size: 46
4227869 AAAAGTTTTT
* ** *
4227879 AAACTACTTTTCAAAAAGGTAATGACTATTTGATAATTTTTTATTC
1 AAACTACTTTTCAAAAAAGTAACAACTATGTGATAATTTTTTATTC
*
4227925 AAACATACTTTTTAAAAAAGTAACAACTATGTGATAATTTTTTATT
1 AAAC-TACTTTTCAAAAAAGTAACAACTATGTGATAATTTTTTATT
4227971 TAGGTTAAAT
Statistics
Matches: 40, Mismatches: 5, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
46 4 0.10
47 36 0.90
ACGTcount: A:0.40, C:0.10, G:0.08, T:0.42
Consensus pattern (46 bp):
AAACTACTTTTCAAAAAAGTAACAACTATGTGATAATTTTTTATTC
Found at i:4235424 original size:124 final size:126
Alignment explanation
Indices: 4235274--4235523 Score: 416
Period size: 125 Copynumber: 2.0 Consensus size: 126
4235264 ATAATTATTA
4235274 ACTCATTCCTAAAATTTTATAAAGTTTATTTA-TTTTTTATTGTGAAAACAAATACTAATTATTG
1 ACTCATTCCTAAAATTTTATAAAGTTTATTTATTTTTTTATTGTGAAAACAAATACTAATTATTG
*
4235338 TTA-TAAAATTTTGATTTAAAATTTTCCTTCATTTATGTCAAATTTAGAAAATTCTCTCACC
66 TTATTAAAATTTT-ATTTAAAATTTTCCTTCATTTATGTCAAATTTAGAAAAATCTCTCACC
* *
4235399 ACTCATTCCTAAAA-TTTATAAAGTTTATTTATTTTTTTATTTTGAAAACAAATACTGATTATTG
1 ACTCATTCCTAAAATTTTATAAAGTTTATTTATTTTTTTATTGTGAAAACAAATACTAATTATTG
* * *
4235463 TTATTAAAATTTTATTTAAAATTTTTCTTTATTTGTGTCAAATTTAGAAAAATCTCTCACC
66 TTATTAAAATTTTATTTAAAATTTTCCTTCATTTATGTCAAATTTAGAAAAATCTCTCACC
4235524 TAGAAAGTTC
Statistics
Matches: 117, Mismatches: 6, Indels: 4
0.92 0.05 0.03
Matches are distributed among these distances:
124 17 0.15
125 91 0.78
126 9 0.08
ACGTcount: A:0.36, C:0.11, G:0.06, T:0.48
Consensus pattern (126 bp):
ACTCATTCCTAAAATTTTATAAAGTTTATTTATTTTTTTATTGTGAAAACAAATACTAATTATTG
TTATTAAAATTTTATTTAAAATTTTCCTTCATTTATGTCAAATTTAGAAAAATCTCTCACC
Found at i:4235694 original size:21 final size:20
Alignment explanation
Indices: 4235670--4235750 Score: 85
Period size: 21 Copynumber: 4.0 Consensus size: 20
4235660 ATTTAATACA
4235670 AAAATAAATAAATAATAAAAT
1 AAAA-AAATAAATAATAAAAT
*
4235691 AAAACAAATAAATAAAAAAAT
1 AAAA-AAATAAATAATAAAAT
*
4235712 AAAAGCAA-AAATAA-AAAAT
1 AAAA-AAATAAATAATAAAAT
*
4235731 AAAAAAATATATATATAAAA
1 AAAAAAATAAATA-ATAAAA
4235751 AAAGAATCGG
Statistics
Matches: 51, Mismatches: 6, Indels: 6
0.81 0.10 0.10
Matches are distributed among these distances:
18 2 0.04
19 13 0.25
20 7 0.14
21 29 0.57
ACGTcount: A:0.78, C:0.02, G:0.01, T:0.19
Consensus pattern (20 bp):
AAAAAAATAAATAATAAAAT
Found at i:4235705 original size:13 final size:12
Alignment explanation
Indices: 4235654--4235739 Score: 66
Period size: 12 Copynumber: 6.8 Consensus size: 12
4235644 TTAACTTTTC
* *
4235654 TAAAAAATTTAA
1 TAAAAAAATAAA
*
4235666 TACAAAAATAAA
1 TAAAAAAATAAA
*
4235678 T-AAATAATAAAA
1 TAAAAAAAT-AAA
4235690 TAAAACAAATAAA
1 TAAAA-AAATAAA
4235703 TAAAAAAATAAAA
1 TAAAAAAAT-AAA
* *
4235716 GCAAAAATAAAAAA
1 -TAAAAA-AATAAA
4235730 TAAAAAAATA
1 TAAAAAAATA
4235740 TATATATAAA
Statistics
Matches: 58, Mismatches: 10, Indels: 12
0.73 0.12 0.15
Matches are distributed among these distances:
11 5 0.09
12 21 0.36
13 19 0.33
14 11 0.19
15 2 0.03
ACGTcount: A:0.77, C:0.03, G:0.01, T:0.19
Consensus pattern (12 bp):
TAAAAAAATAAA
Found at i:4238837 original size:2 final size:2
Alignment explanation
Indices: 4238830--4238859 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
4238820 AAACGCATAA
*
4238830 AT AT AT AT AT AT AT AT AT AT AT GT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
4238860 GTATGGCATT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (2 bp):
AT
Found at i:4242734 original size:21 final size:20
Alignment explanation
Indices: 4242673--4242735 Score: 56
Period size: 21 Copynumber: 3.0 Consensus size: 20
4242663 ATTTCTATTT
*
4242673 AATTTTT-ATTTCTCTTTTAAA
1 AATTTTTAATTT-T-TTTAAAA
* *
4242694 AATATTTAATATTTTGTAAAA
1 AATTTTTAAT-TTTTTTAAAA
4242715 AATTTTTAATTTTGTTTAAAA
1 AATTTTTAATTTT-TTTAAAA
4242736 TGGGGCCTAT
Statistics
Matches: 34, Mismatches: 5, Indels: 6
0.76 0.11 0.13
Matches are distributed among these distances:
20 3 0.09
21 26 0.76
22 3 0.09
23 2 0.06
ACGTcount: A:0.38, C:0.03, G:0.03, T:0.56
Consensus pattern (20 bp):
AATTTTTAATTTTTTTAAAA
Found at i:4242974 original size:15 final size:15
Alignment explanation
Indices: 4242938--4242976 Score: 51
Period size: 15 Copynumber: 2.5 Consensus size: 15
4242928 AACTCAATTT
*
4242938 TTTTTTCATTTTTTTG
1 TTTTTT-ATTTTTTTC
*
4242954 TCTTTTATTTTTTTC
1 TTTTTTATTTTTTTC
4242969 TTTTTTAT
1 TTTTTTAT
4242977 AACTAAGATC
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
15 15 0.75
16 5 0.25
ACGTcount: A:0.08, C:0.08, G:0.03, T:0.82
Consensus pattern (15 bp):
TTTTTTATTTTTTTC
Found at i:4244124 original size:26 final size:29
Alignment explanation
Indices: 4244102--4244161 Score: 81
Period size: 29 Copynumber: 2.1 Consensus size: 29
4244092 TTTTATTATT
*
4244102 AATT-TTATTTTATATATTATATTAATAA
1 AATTGTTATTTAATATATTATATTAATAA
4244130 AATTGTTATTTAATATATTA-ATTTAA-AA
1 AATTGTTATTTAATATATTATA-TTAATAA
4244158 AATT
1 AATT
4244162 AATATTTTAA
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
28 11 0.38
29 18 0.62
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.53
Consensus pattern (29 bp):
AATTGTTATTTAATATATTATATTAATAA
Found at i:4244170 original size:29 final size:30
Alignment explanation
Indices: 4244107--4244171 Score: 75
Period size: 29 Copynumber: 2.3 Consensus size: 30
4244097 TTATTAATTT
**
4244107 TATTTT-ATATATTATATTAATAAAATTGT
1 TATTTTAATATATTATATTAATAAAATTAA
4244136 TA-TTTAATATATTA-ATTTAA-AAAATTAA
1 TATTTTAATATATTATA-TTAATAAAATTAA
4244164 TATTTTAA
1 TATTTTAA
4244172 GCTCGGGTGT
Statistics
Matches: 31, Mismatches: 2, Indels: 6
0.79 0.05 0.15
Matches are distributed among these distances:
28 12 0.39
29 19 0.61
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.52
Consensus pattern (30 bp):
TATTTTAATATATTATATTAATAAAATTAA
Found at i:4244345 original size:16 final size:15
Alignment explanation
Indices: 4244318--4244349 Score: 55
Period size: 16 Copynumber: 2.1 Consensus size: 15
4244308 TATTATTTTC
4244318 TTTTAATTTTTTAAT
1 TTTTAATTTTTTAAT
4244333 TTTTAAGTTTTTTAAT
1 TTTTAA-TTTTTTAAT
4244349 T
1 T
4244350 AAGTAAAATT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 6 0.38
16 10 0.62
ACGTcount: A:0.25, C:0.00, G:0.03, T:0.72
Consensus pattern (15 bp):
TTTTAATTTTTTAAT
Found at i:4244728 original size:3 final size:3
Alignment explanation
Indices: 4244720--4244749 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
4244710 AGGTGCCGGT
4244720 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
4244750 CAAAGGAAAT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:4259409 original size:21 final size:21
Alignment explanation
Indices: 4259369--4259409 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
4259359 TTATATATGT
* *
4259369 TATAAATTTTAAATATTTAAA
1 TATAAATTTTAAAAAATTAAA
*
4259390 TATAATTTTTAAAAAATTAA
1 TATAAATTTTAAAAAATTAA
4259410 TTTATATATA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (21 bp):
TATAAATTTTAAAAAATTAAA
Found at i:4261642 original size:22 final size:23
Alignment explanation
Indices: 4261617--4261660 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
4261607 TATTATCCAG
4261617 TTTGATTTGA-AAG-TCTTACAAT
1 TTTG-TTTGATAAGATCTTACAAT
*
4261639 TTTGTTTTATAAGATCTTACAA
1 TTTGTTTGATAAGATCTTACAA
4261661 GTTTAAGTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
21 4 0.21
22 7 0.37
23 8 0.42
ACGTcount: A:0.32, C:0.09, G:0.11, T:0.48
Consensus pattern (23 bp):
TTTGTTTGATAAGATCTTACAAT
Found at i:4263443 original size:10 final size:10
Alignment explanation
Indices: 4263428--4263474 Score: 51
Period size: 10 Copynumber: 4.6 Consensus size: 10
4263418 TCAGAAATAG
*
4263428 AATTTTATGT
1 AATTTTATAT
4263438 AATTTTGAATAT
1 AATTTT--ATAT
4263450 AATTTT-TAT
1 AATTTTATAT
*
4263459 ATTTTTATAT
1 AATTTTATAT
4263469 AATTTT
1 AATTTT
4263475 TATTTTGATA
Statistics
Matches: 31, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
9 8 0.26
10 14 0.45
12 9 0.29
ACGTcount: A:0.34, C:0.00, G:0.04, T:0.62
Consensus pattern (10 bp):
AATTTTATAT
Found at i:4263478 original size:17 final size:19
Alignment explanation
Indices: 4263439--4263485 Score: 62
Period size: 17 Copynumber: 2.5 Consensus size: 19
4263429 ATTTTATGTA
4263439 ATTTTGAATATAATTTTTAT
1 ATTTTG-ATATAATTTTTAT
*
4263459 ATTTTTATATAA-TTTT-T
1 ATTTTGATATAATTTTTAT
4263476 ATTTTGATAT
1 ATTTTGATAT
4263486 GAAAAATTAT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
17 10 0.40
18 4 0.16
19 6 0.24
20 5 0.20
ACGTcount: A:0.32, C:0.00, G:0.04, T:0.64
Consensus pattern (19 bp):
ATTTTGATATAATTTTTAT
Found at i:4263512 original size:21 final size:20
Alignment explanation
Indices: 4263488--4263556 Score: 75
Period size: 21 Copynumber: 3.4 Consensus size: 20
4263478 TTTGATATGA
4263488 AAAATTATATCAATTGTTATT
1 AAAATTATATCAATT-TTATT
**
4263509 AAAATTATATCATATACTATT
1 AAAATTATATCA-ATTTTATT
* *
4263530 AAAATAATATCAAATTTATT
1 AAAATTATATCAATTTTATT
*
4263550 AAGATTA
1 AAAATTA
4263557 CTAATATTTT
Statistics
Matches: 39, Mismatches: 8, Indels: 3
0.78 0.16 0.06
Matches are distributed among these distances:
20 10 0.26
21 27 0.69
22 2 0.05
ACGTcount: A:0.49, C:0.06, G:0.03, T:0.42
Consensus pattern (20 bp):
AAAATTATATCAATTTTATT
Found at i:4264387 original size:2 final size:2
Alignment explanation
Indices: 4264370--4264412 Score: 70
Period size: 2 Copynumber: 22.0 Consensus size: 2
4264360 TCCCTTTTAT
*
4264370 TA TA TA AA TA TA -A TA TA 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 TA TA TA TA TA TA
4264411 TA
1 TA
4264413 ACTCCTTTTC
Statistics
Matches: 38, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
1 1 0.03
2 37 0.97
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (2 bp):
TA
Found at i:4267844 original size:27 final size:26
Alignment explanation
Indices: 4267806--4267881 Score: 134
Period size: 27 Copynumber: 2.8 Consensus size: 26
4267796 GGTTGGGTAG
4267806 GTTGAGAATCTGGTTTTGAAGGAATT
1 GTTGAGAATCTGGTTTTGAAGGAATT
4267832 AGTTGAGAATCTGGTTTTGAAGGAATT
1 -GTTGAGAATCTGGTTTTGAAGGAATT
4267859 GCTTGAGAATCTGGTTTTGAAGG
1 G-TTGAGAATCTGGTTTTGAAGG
4267882 GGCTGGCTTA
Statistics
Matches: 48, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
26 1 0.02
27 47 0.98
ACGTcount: A:0.26, C:0.05, G:0.32, T:0.37
Consensus pattern (26 bp):
GTTGAGAATCTGGTTTTGAAGGAATT
Found at i:4276937 original size:16 final size:16
Alignment explanation
Indices: 4276899--4276933 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
4276889 TCATCTTTTA
*
4276899 TTTACTTTTATATATT
1 TTTATTTTTATATATT
4276915 TTTATTTTTATAT-TT
1 TTTATTTTTATATATT
4276930 TTTA
1 TTTA
4276934 ATTTGTGTTC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 6 0.33
16 12 0.67
ACGTcount: A:0.23, C:0.03, G:0.00, T:0.74
Consensus pattern (16 bp):
TTTATTTTTATATATT
Found at i:4280172 original size:38 final size:38
Alignment explanation
Indices: 4280130--4280216 Score: 156
Period size: 38 Copynumber: 2.3 Consensus size: 38
4280120 TTTATGTTTC
*
4280130 CATTGTGGTTTGGTGATGACTTGAAGGTCAGGGTAAAT
1 CATTGTGGTTTGATGATGACTTGAAGGTCAGGGTAAAT
*
4280168 CATTGTGGTTTGATGTTGACTTGAAGGTCAGGGTAAAT
1 CATTGTGGTTTGATGATGACTTGAAGGTCAGGGTAAAT
4280206 CATTGTGGTTT
1 CATTGTGGTTT
4280217 AATTAGGTAT
Statistics
Matches: 47, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
38 47 1.00
ACGTcount: A:0.22, C:0.08, G:0.32, T:0.38
Consensus pattern (38 bp):
CATTGTGGTTTGATGATGACTTGAAGGTCAGGGTAAAT
Found at i:4283634 original size:2 final size:2
Alignment explanation
Indices: 4283629--4283655 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
4283619 GATAAGTGTG
4283629 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
4283656 GTGCATGAAT
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:4285359 original size:3 final size:3
Alignment explanation
Indices: 4285351--4285384 Score: 68
Period size: 3 Copynumber: 11.3 Consensus size: 3
4285341 TACTCTATTG
4285351 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
4285385 TGAACTTTTA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:4294152 original size:20 final size:21
Alignment explanation
Indices: 4294128--4294173 Score: 56
Period size: 21 Copynumber: 2.2 Consensus size: 21
4294118 ATTTATTCCC
* *
4294128 AAAAATTTTTTTATTTTGTTT
1 AAAAATTTCTTAATTTTGTTT
* *
4294149 AAAAAATTCTTAATTTTTTTT
1 AAAAATTTCTTAATTTTGTTT
4294170 AAAA
1 AAAA
4294174 TTTAATCATG
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.39, C:0.02, G:0.02, T:0.57
Consensus pattern (21 bp):
AAAAATTTCTTAATTTTGTTT
Found at i:4294464 original size:20 final size:20
Alignment explanation
Indices: 4294424--4294464 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 20
4294414 TATAAAACGC
*
4294424 TAAATTTCCTCTTTTTCCTT
1 TAAATTTCCTCTTCTTCCTT
4294444 TAAATTT-CTCTTCTTCTCTT
1 TAAATTTCCTCTTCTTC-CTT
4294464 T
1 T
4294465 CTCATATTCT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
19 8 0.42
20 11 0.58
ACGTcount: A:0.15, C:0.24, G:0.00, T:0.61
Consensus pattern (20 bp):
TAAATTTCCTCTTCTTCCTT
Found at i:4295524 original size:2 final size:2
Alignment explanation
Indices: 4295517--4295541 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
4295507 ACATACATAC
4295517 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
4295542 AATTATGATA
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:4298497 original size:51 final size:51
Alignment explanation
Indices: 4298441--4298543 Score: 163
Period size: 51 Copynumber: 2.0 Consensus size: 51
4298431 ATTTATACCC
* *
4298441 TTTGAAAGTATGACTGTTT-TGTCTATGGCAGATACCATCTGTTCATATCTA
1 TTTGAAAATATGACT-TTTGTGTCTATGGCAGATACCATATGTTCATATCTA
*
4298492 TTTGAAAATGTGACTTTTGTGTCTATGGCAGATACCATATGTTCATATCTA
1 TTTGAAAATATGACTTTTGTGTCTATGGCAGATACCATATGTTCATATCTA
4298543 T
1 T
4298544 CAGTATACAA
Statistics
Matches: 48, Mismatches: 3, Indels: 2
0.91 0.06 0.04
Matches are distributed among these distances:
50 3 0.06
51 45 0.94
ACGTcount: A:0.26, C:0.15, G:0.17, T:0.42
Consensus pattern (51 bp):
TTTGAAAATATGACTTTTGTGTCTATGGCAGATACCATATGTTCATATCTA
Found at i:4298976 original size:29 final size:29
Alignment explanation
Indices: 4298917--4298982 Score: 71
Period size: 29 Copynumber: 2.3 Consensus size: 29
4298907 ATTTTTATTT
* *
4298917 AAAATAAGGGTTTATATGATACAAATGAA
1 AAAATAAGGATTTATATGATACAAATAAA
* *
4298946 AAAATGAGGATTTATTTAGATAC-AATAAA
1 AAAATAAGGATTTATAT-GATACAAATAAA
*
4298975 AATATAAG
1 AAAATAAG
4298983 AGCTTATTTA
Statistics
Matches: 30, Mismatches: 6, Indels: 2
0.79 0.16 0.05
Matches are distributed among these distances:
29 25 0.83
30 5 0.17
ACGTcount: A:0.53, C:0.03, G:0.15, T:0.29
Consensus pattern (29 bp):
AAAATAAGGATTTATATGATACAAATAAA
Found at i:4299081 original size:3 final size:3
Alignment explanation
Indices: 4299073--4299097 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
4299063 TTGTACTCTA
4299073 TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT T
4299098 TGAACTTTTA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:4299260 original size:10 final size:10
Alignment explanation
Indices: 4299233--4299270 Score: 53
Period size: 10 Copynumber: 4.0 Consensus size: 10
4299223 AATTTATCAT
*
4299233 TTTAATAAAA
1 TTTATTAAAA
4299243 -TT-TTAAAA
1 TTTATTAAAA
4299251 TTTATTAAAA
1 TTTATTAAAA
4299261 TTTATTAAAA
1 TTTATTAAAA
4299271 AGATAAATTT
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
8 5 0.20
9 4 0.16
10 16 0.64
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (10 bp):
TTTATTAAAA
Found at i:4301759 original size:62 final size:62
Alignment explanation
Indices: 4301657--4301777 Score: 215
Period size: 62 Copynumber: 2.0 Consensus size: 62
4301647 TATAGTTACC
* * *
4301657 TTTCTAATTCTCTGACTATTACCGATACACAAGGGTGGATGGTTATATAAGCTAGAGGGGCT
1 TTTCTAATTCTCTGACTATTACCAATACACAAGGGCGGATGATTATATAAGCTAGAGGGGCT
4301719 TTTCTAATTCTCTGACTATTACCAATACACAAGGGCGGATGATTATATAAGCTAGAGGG
1 TTTCTAATTCTCTGACTATTACCAATACACAAGGGCGGATGATTATATAAGCTAGAGGG
4301778 AGGCTTCAGT
Statistics
Matches: 56, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
62 56 1.00
ACGTcount: A:0.30, C:0.17, G:0.22, T:0.31
Consensus pattern (62 bp):
TTTCTAATTCTCTGACTATTACCAATACACAAGGGCGGATGATTATATAAGCTAGAGGGGCT
Found at i:4304070 original size:23 final size:23
Alignment explanation
Indices: 4304040--4304086 Score: 94
Period size: 23 Copynumber: 2.0 Consensus size: 23
4304030 AAGCTTCGAC
4304040 ATTGCTTTACAATTGACTGATTA
1 ATTGCTTTACAATTGACTGATTA
4304063 ATTGCTTTACAATTGACTGATTA
1 ATTGCTTTACAATTGACTGATTA
4304086 A
1 A
4304087 ATTAACTTGG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.32, C:0.13, G:0.13, T:0.43
Consensus pattern (23 bp):
ATTGCTTTACAATTGACTGATTA
Found at i:4305285 original size:21 final size:20
Alignment explanation
Indices: 4305259--4305318 Score: 70
Period size: 21 Copynumber: 3.0 Consensus size: 20
4305249 TTATTTCAGT
4305259 ATAATATCAATAATTTTAATA
1 ATAATAT-AATAATTTTAATA
4305280 ATAATAATAATAATTTTAA-A
1 ATAAT-ATAATAATTTTAATA
*
4305300 A-AATAAAATAATTATTAAT
1 ATAATATAATAATT-TTAAT
4305319 TATATAAAAA
Statistics
Matches: 35, Mismatches: 1, Indels: 7
0.81 0.02 0.16
Matches are distributed among these distances:
18 8 0.23
19 7 0.20
20 2 0.06
21 16 0.46
22 2 0.06
ACGTcount: A:0.58, C:0.02, G:0.00, T:0.40
Consensus pattern (20 bp):
ATAATATAATAATTTTAATA
Found at i:4305326 original size:27 final size:24
Alignment explanation
Indices: 4305276--4305334 Score: 64
Period size: 25 Copynumber: 2.3 Consensus size: 24
4305266 CAATAATTTT
4305276 AATAATAATAATAATAATTTTAAAA
1 AATAA-AATAATAATAATTTTAAAA
*
4305301 AATAAAATAATTATTAATTATATAAAA
1 AATAAAATAA-TAATAATT-T-TAAAA
*
4305328 AACAAAA
1 AATAAAA
4305335 AAACAGAAAA
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
24 5 0.17
25 12 0.41
26 1 0.03
27 11 0.38
ACGTcount: A:0.66, C:0.02, G:0.00, T:0.32
Consensus pattern (24 bp):
AATAAAATAATAATAATTTTAAAA
Found at i:4305328 original size:21 final size:20
Alignment explanation
Indices: 4305267--4305328 Score: 65
Period size: 21 Copynumber: 3.1 Consensus size: 20
4305257 GTATAATATC
*
4305267 AATAATTTTAATAATAATAAT
1 AATAATTTTAATAAT-ATAAA
*
4305288 AATAATTTTAA-AAAAT-AA
1 AATAATTTTAATAATATAAA
*
4305306 AATAATTATTAATTATATAAA
1 AATAATT-TTAATAATATAAA
4305327 AA
1 AA
4305329 ACAAAAAAAC
Statistics
Matches: 34, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
18 8 0.24
19 6 0.18
20 5 0.15
21 15 0.44
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (20 bp):
AATAATTTTAATAATATAAA
Found at i:4306793 original size:16 final size:16
Alignment explanation
Indices: 4306774--4306952 Score: 108
Period size: 16 Copynumber: 11.5 Consensus size: 16
4306764 CTAGGTTTCT
*
4306774 AAAACCCTTAAAATCC
1 AAAACCCCTAAAATCC
*
4306790 AAAATCTCCTAAAATCC
1 AAAA-CCCCTAAAATCC
* *
4306807 AAAATCCCTTAAATCC
1 AAAACCCCTAAAATCC
*
4306823 -AAACCACCTAAAATCT
1 AAAACC-CCTAAAATCC
*
4306839 GAAACCCCTAAAATCC
1 AAAACCCCTAAAATCC
*
4306855 AAAACCCCCCAAAATCC
1 AAAA-CCCCTAAAATCC
* **
4306872 GAAATTCC--AAA-CC
1 AAAACCCCTAAAATCC
* * *
4306885 TTTAAA-CTCTTAAATCC
1 --AAAACCCCTAAAATCC
4306902 -AAACCCC-AAAATCC
1 AAAACCCCTAAAATCC
*
4306916 AAAATCCCTAAAATCC
1 AAAACCCCTAAAATCC
*
4306932 -AAA-CCCTTAAAT-C
1 AAAACCCCTAAAATCC
4306945 AAAACCCC
1 AAAACCCC
4306953 AAACCTCAAA
Statistics
Matches: 128, Mismatches: 21, Indels: 29
0.72 0.12 0.16
Matches are distributed among these distances:
13 3 0.02
14 24 0.19
15 21 0.16
16 45 0.35
17 35 0.27
ACGTcount: A:0.46, C:0.34, G:0.01, T:0.18
Consensus pattern (16 bp):
AAAACCCCTAAAATCC
Found at i:4306913 original size:14 final size:14
Alignment explanation
Indices: 4306896--4306955 Score: 66
Period size: 14 Copynumber: 4.1 Consensus size: 14
4306886 TTAAACTCTT
4306896 AAATCCAAACCCCA
1 AAATCCAAACCCCA
*
4306910 AAATCCAAAATCCCTA
1 AAATCC-AAA-CCCCA
**
4306926 AAATCCAAACCCTT
1 AAATCCAAACCCCA
*
4306940 AAATCAAAACCCCA
1 AAATCCAAACCCCA
4306954 AA
1 AA
4306956 CCTCAAAATC
Statistics
Matches: 39, Mismatches: 5, Indels: 4
0.81 0.10 0.08
Matches are distributed among these distances:
14 23 0.59
15 6 0.15
16 10 0.26
ACGTcount: A:0.52, C:0.35, G:0.00, T:0.13
Consensus pattern (14 bp):
AAATCCAAACCCCA
Found at i:4306977 original size:14 final size:14
Alignment explanation
Indices: 4306951--4307006 Score: 51
Period size: 14 Copynumber: 3.9 Consensus size: 14
4306941 AATCAAAACC
4306951 CCAAA-CCTCAAAAT
1 CCAAACCCT-AAAAT
4306965 CCAAACCCTAAAATCT
1 CCAAACCCTAAAA--T
**
4306981 CCAAACTTTAAAAT
1 CCAAACCCTAAAAT
*
4306995 CAAAACCCTAAA
1 CCAAACCCTAAA
4307007 CCTTTCATAT
Statistics
Matches: 34, Mismatches: 5, Indels: 6
0.76 0.11 0.13
Matches are distributed among these distances:
14 19 0.56
15 3 0.09
16 12 0.35
ACGTcount: A:0.50, C:0.32, G:0.00, T:0.18
Consensus pattern (14 bp):
CCAAACCCTAAAAT
Found at i:4306984 original size:51 final size:51
Alignment explanation
Indices: 4306900--4307009 Score: 145
Period size: 51 Copynumber: 2.2 Consensus size: 51
4306890 ACTCTTAAAT
*
4306900 CCAAACCCCAAAATCCAAAATCCCTAAAATCCAAACCCTT-AAATCAAAACC
1 CCAAACCTCAAAATCCAAAATCCCTAAAATCCAAA-CCTTAAAATCAAAACC
*
4306951 CCAAACCTCAAAATCC-AAA-CCCTAAAATCTCCAAACTTTAAAATCAAAACC
1 CCAAACCTCAAAATCCAAAATCCCTAAAA--TCCAAACCTTAAAATCAAAACC
*
4307002 CTAAACCT
1 CCAAACCT
4307010 TTCATATCCT
Statistics
Matches: 53, Mismatches: 3, Indels: 6
0.85 0.05 0.10
Matches are distributed among these distances:
49 8 0.15
50 6 0.11
51 39 0.74
ACGTcount: A:0.48, C:0.35, G:0.00, T:0.16
Consensus pattern (51 bp):
CCAAACCTCAAAATCCAAAATCCCTAAAATCCAAACCTTAAAATCAAAACC
Found at i:4312363 original size:26 final size:26
Alignment explanation
Indices: 4312334--4312386 Score: 70
Period size: 26 Copynumber: 2.0 Consensus size: 26
4312324 CAATGGTTGG
4312334 ATTTAATTGATTTTATTTGATATTTA
1 ATTTAATTGATTTTATTTGATATTTA
** * *
4312360 ATTTAATTTCTTTTATTTTATTTTTA
1 ATTTAATTGATTTTATTTGATATTTA
4312386 A
1 A
4312387 AACATTCATG
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.28, C:0.02, G:0.04, T:0.66
Consensus pattern (26 bp):
ATTTAATTGATTTTATTTGATATTTA
Found at i:4319674 original size:22 final size:20
Alignment explanation
Indices: 4319648--4319709 Score: 70
Period size: 22 Copynumber: 2.9 Consensus size: 20
4319638 TTGAGATTTA
4319648 TAAGACCTCCAGGCATAATCTT
1 TAAGACCTCC-GGCATAA-CTT
*
4319670 TAAGACCTTCGAGCATAACTT
1 TAAGACCTCCG-GCATAACTT
4319691 TCAAGACCTCCGGGCATAA
1 T-AAGACCTCC-GGCATAA
4319710 ATTTGATTCG
Statistics
Matches: 35, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
21 5 0.14
22 29 0.83
23 1 0.03
ACGTcount: A:0.32, C:0.27, G:0.16, T:0.24
Consensus pattern (20 bp):
TAAGACCTCCGGCATAACTT
Found at i:4319804 original size:23 final size:23
Alignment explanation
Indices: 4319774--4319847 Score: 87
Period size: 23 Copynumber: 3.2 Consensus size: 23
4319764 ATTTCAATTG
4319774 ATTCTGTAAGACCTCCGAGCATA
1 ATTCTGTAAGACCTCCGAGCATA
* *
4319797 ATTCTGTAAGACCTCCGGGCATG
1 ATTCTGTAAGACCTCCGAGCATA
* * *
4319820 ATT-TATAAGACTTTCGAGCATAA
1 ATTCTGTAAGACCTCCGAGCAT-A
4319843 ATTCT
1 ATTCT
4319848 ATTCGTAATG
Statistics
Matches: 42, Mismatches: 7, Indels: 3
0.81 0.13 0.06
Matches are distributed among these distances:
22 14 0.33
23 27 0.64
24 1 0.02
ACGTcount: A:0.30, C:0.22, G:0.18, T:0.31
Consensus pattern (23 bp):
ATTCTGTAAGACCTCCGAGCATA
Found at i:4319911 original size:133 final size:133
Alignment explanation
Indices: 4319648--4320217 Score: 640
Period size: 133 Copynumber: 4.3 Consensus size: 133
4319638 TTGAGATTTA
* * * *
4319648 TAAGACCTCC-AGGCAT-AATCTTTAAGACCTTCGAGCATAACTTTC-AAGAC-CTCCGGGCATA
1 TAAGACCTCCGA-GCATGATTCTGTAAGACCTCCGAGCATAA-TTTCTAAGACTCT-CGAGCATA
* * * *
4319709 AATTTGATTCGTGGTGTTATCTCGATCGATTCTTTATCTTTTAACTTGTGGTGTTATTTCAATTG
63 AATTTGATTCGTGGTGTTATCCCGATCGATTCTTTATCTTTTGACTTGTGGTGTTATCTCAATCG
4319774 ATTCTG
128 ATTCTG
* * * * *
4319780 TAAGACCTCCGAGCATAATTCTGTAAGACCTCCGGGCATGATTTATAAGACTTTCGAGCATAAAT
1 TAAGACCTCCGAGCATGATTCTGTAAGACCTCCGAGCATAATTTCTAAGACTCTCGAGCATAAAT
** * * * * *
4319845 TCT-ATTCGTAATGTTATCCCGATCAATTATTTATCTTTTGACTTGTGGTGTTATCCCAGTCAAT
66 T-TGATTCGTGGTGTTATCCCGATCGATTCTTTATCTTTTGACTTGTGGTGTTATCTCAATCGAT
4319909 TCTG
130 TCTG
* ** * * *
4319913 TAAGACCTTC-AGACATGATTCTGTAAGATTTTCGAACATAATTTCTAAGA-TCTCTGGGCATAA
1 TAAGACCTCCGAG-CATGATTCTGTAAGACCTCCGAGCATAATTTCTAAGACTCTC-GAGCATAA
* * *
4319976 ATTCGATTTGTGGTGTTATCCCGATCGATTCTTTATCTTTTGACTTGTGGTGTTATTTCAATCGA
64 ATTTGATTCGTGGTGTTATCCCGATCGATTCTTTATCTTTTGACTTGTGGTGTTATCTCAATCGA
4320041 TTCTG
129 TTCTG
* * * *
4320046 TAAGACCTCCGAGCATGATTCTATAAGACCTCCTAGCATGATTTCTAAGAC-CTCCAGGCATAAA
1 TAAGACCTCCGAGCATGATTCTGTAAGACCTCCGAGCATAATTTCTAAGACTCTCGA-GCATAAA
* **
4320110 TTTGATTCGTTGTGTTATCTTGATCGATTCTTTA-CTTTTGACTTGTGGTGTTATCT-AAGTCGA
65 TTTGATTCGTGGTGTTATCCCGATCGATTCTTTATCTTTTGACTTGTGGTGTTATCTCAA-TCGA
4320173 TTCTG
129 TTCTG
* * *
4320178 TAAGACCTTCGAGCATGATT-TTTAAGACCTCCGGGCATAA
1 TAAGACCTCCGAGCATGATTCTGTAAGACCTCCGAGCATAA
4320218 ATTTGATTTA
Statistics
Matches: 365, Mismatches: 61, Indels: 25
0.81 0.14 0.06
Matches are distributed among these distances:
131 18 0.05
132 71 0.19
133 272 0.75
134 4 0.01
ACGTcount: A:0.25, C:0.19, G:0.18, T:0.38
Consensus pattern (133 bp):
TAAGACCTCCGAGCATGATTCTGTAAGACCTCCGAGCATAATTTCTAAGACTCTCGAGCATAAAT
TTGATTCGTGGTGTTATCCCGATCGATTCTTTATCTTTTGACTTGTGGTGTTATCTCAATCGATT
CTG
Found at i:4320097 original size:22 final size:23
Alignment explanation
Indices: 4320039--4320100 Score: 90
Period size: 23 Copynumber: 2.7 Consensus size: 23
4320029 TATTTCAATC
*
4320039 GATTCTGTAAGACCTCCGAGCAT
1 GATTCTATAAGACCTCCGAGCAT
*
4320062 GATTCTATAAGACCTCCTAGCAT
1 GATTCTATAAGACCTCCGAGCAT
*
4320085 GATT-TCTAAGACCTCC
1 GATTCTATAAGACCTCC
4320101 AGGCATAAAT
Statistics
Matches: 36, Mismatches: 3, Indels: 1
0.90 0.08 0.03
Matches are distributed among these distances:
22 11 0.31
23 25 0.69
ACGTcount: A:0.27, C:0.27, G:0.16, T:0.29
Consensus pattern (23 bp):
GATTCTATAAGACCTCCGAGCAT
Found at i:4320343 original size:22 final size:22
Alignment explanation
Indices: 4320281--4320362 Score: 85
Period size: 22 Copynumber: 3.6 Consensus size: 22
4320271 TATCCCAGTC
*
4320281 GATTCTATAAGACCTCTC-GACAT
1 GATT-TATAAGACCT-TCGGCCAT
4320304 GATTCTATAAGACCTTCGGCCAT
1 GATT-TATAAGACCTTCGGCCAT
* * *
4320327 GATTTTTAAGACTTTCGGGCAT
1 GATTTATAAGACCTTCGGCCAT
*
4320349 GATTTCTAAGACCT
1 GATTTATAAGACCT
4320363 CCGATCATAA
Statistics
Matches: 52, Mismatches: 6, Indels: 3
0.85 0.10 0.05
Matches are distributed among these distances:
22 29 0.56
23 23 0.44
ACGTcount: A:0.27, C:0.22, G:0.17, T:0.34
Consensus pattern (22 bp):
GATTTATAAGACCTTCGGCCAT
Found at i:4320467 original size:23 final size:23
Alignment explanation
Indices: 4320436--4320509 Score: 103
Period size: 23 Copynumber: 3.2 Consensus size: 23
4320426 TATTCCAATC
*
4320436 GATTCTGTAAGACCTCTGGGCAT
1 GATTTTGTAAGACCTCTGGGCAT
* *
4320459 GATTTTGTAAGACCTTTGGACAT
1 GATTTTGTAAGACCTCTGGGCAT
* *
4320482 GATTTTGTAAGACCTCCGAGCAT
1 GATTTTGTAAGACCTCTGGGCAT
4320505 GATTT
1 GATTT
4320510 CTAAGATTTT
Statistics
Matches: 44, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 44 1.00
ACGTcount: A:0.24, C:0.18, G:0.23, T:0.35
Consensus pattern (23 bp):
GATTTTGTAAGACCTCTGGGCAT
Found at i:4320470 original size:133 final size:132
Alignment explanation
Indices: 4320304--4320750 Score: 342
Period size: 133 Copynumber: 3.2 Consensus size: 132
4320294 CTCTCGACAT
* * * * *
4320304 GATTCTATAAGACCTTCG-GCCATGATTTTTAAGACTTTCGGGCATGATTTCTAAGACCTCCGAT
1 GATTCTGTAAGACCTCCGAG-CATGATTCTTAAGACCTTCGGGCATGATTTCTAAGACCTCCGAG
* * *
4320368 CATAAATTTGATTCGCGATGTTATCTCGATCGATTCTTTATTTTTTGACTTGTGGTATTATTCCA
65 CATAAATTTGATTCGTGATGTTATCTCGATCGATTCTTTATCTTTTGACTTGTGGTGTTATTCCA
4320433 ATC
130 ATC
* * * * * *
4320436 GATTCTGTAAGACCTCTGGGCATGATTTTGTAAGACCTTTGGACATGATTTTGTAAGACCTCCGA
1 GATTCTGTAAGACCTCCGAGCATGATTCT-TAAGACCTTCGGGCATGA-TTTCTAAGACCTCCGA
* * * * *
4320501 GCATGATTTCTAAGATTTTCGAGCATAAATTCGATTCGCGAT-GTTATCCCGATCGATTTTTTAT
64 GCATAAATT-T--GA--TTCGTG-AT--GTT--A-TCTCGATCG--AT-----TC---TTT--AT
*
4320565 CTTTTGACTTGTGGTGTTA-TCCAGTC
106 CTTTTGACTTGTGGTGTTATTCCAATC
* * * *
4320591 GATTCTGTAAGACCTCCGAACATGATTCTATAAGACCTTCGGGTATGATTTCTAAGATCTCCGGG
1 GATTCTGTAAGACCTCCGAGCATGATTCT-TAAGACCTTCGGGCATGATTTCTAAGACCTCCGAG
* ** * * *
4320656 TATAAATTTGATTCACGATATTATCTTGATCGATTCTTTATCTTTTGACTTGTGATGTTATTCCA
65 CATAAATTTGATTCGTGATGTTATCTCGATCGATTCTTTATCTTTTGACTTGTGGTGTTATTCCA
4320721 ATC
130 ATC
* *
4320724 GATTCTGTAAGACCTCCAAACATGATT
1 GATTCTGTAAGACCTCCGAGCATGATT
4320751 TCTAAAATCT
Statistics
Matches: 250, Mismatches: 37, Indels: 55
0.73 0.11 0.16
Matches are distributed among these distances:
132 44 0.18
133 48 0.19
134 24 0.10
135 1 0.00
137 4 0.02
139 5 0.02
140 2 0.01
142 4 0.02
143 5 0.02
144 4 0.02
145 6 0.02
146 5 0.02
148 2 0.01
149 4 0.02
151 4 0.02
153 1 0.00
154 22 0.09
155 46 0.18
156 19 0.08
ACGTcount: A:0.24, C:0.19, G:0.18, T:0.39
Consensus pattern (132 bp):
GATTCTGTAAGACCTCCGAGCATGATTCTTAAGACCTTCGGGCATGATTTCTAAGACCTCCGAGC
ATAAATTTGATTCGTGATGTTATCTCGATCGATTCTTTATCTTTTGACTTGTGGTGTTATTCCAA
TC
Found at i:4320578 original size:156 final size:156
Alignment explanation
Indices: 4320171--4320641 Score: 640
Period size: 155 Copynumber: 3.0 Consensus size: 156
4320161 TATCTAAGTC
* * * *** *
4320171 GATTCTGTAAGACCTTCGAGCATGATTTTTAAGACCTCCGGGCATAAATTTGATTTATGGTGTTA
1 GATTTTGTAAGACCTTCGAGCATGATTTCTAAGACCTCCGAGCATAAATTTGATTCGCGATGTTA
* * *
4320236 TCCCGATCGATTCTTTATTTTTTGACTTGTGGTGTTATCCCAGTCGATTCTATAAGACCTCTCGA
66 TCCCGATCGATTCTTTATTTTTTGACTTGTGGTGTTATTCCAGTCGATTCTGTAAGACCTCTGGA
*
4320301 CATGATTCTATAAGACCTTCGGCCAT
131 CATGATTCTATAAGACCTTCGGACAT
* * *
4320327 GATTTT-TAAGACTTTCGGGCATGATTTCTAAGACCTCCGATCATAAATTTGATTCGCGATGTTA
1 GATTTTGTAAGACCTTCGAGCATGATTTCTAAGACCTCCGAGCATAAATTTGATTCGCGATGTTA
* * * *
4320391 TCTCGATCGATTCTTTATTTTTTGACTTGTGGTATTATTCCAATCGATTCTGTAAGACCTCTGGG
66 TCCCGATCGATTCTTTATTTTTTGACTTGTGGTGTTATTCCAGTCGATTCTGTAAGACCTCTGGA
* * *
4320456 CATGATTTTGTAAGACCTTTGGACAT
131 CATGATTCTATAAGACCTTCGGACAT
* ** * *
4320482 GATTTTGTAAGACCTCCGAGCATGATTTCTAAGATTTTCGAGCATAAATTCGATTCGCGATGTTA
1 GATTTTGTAAGACCTTCGAGCATGATTTCTAAGACCTCCGAGCATAAATTTGATTCGCGATGTTA
* * * *
4320547 TCCCGATCGATTTTTTATCTTTTGACTTGTGGTGTTA-TCCAGTCGATTCTGTAAGACCTCCGAA
66 TCCCGATCGATTCTTTATTTTTTGACTTGTGGTGTTATTCCAGTCGATTCTGTAAGACCTCTGGA
**
4320611 CATGATTCTATAAGACCTTCGGGTAT
131 CATGATTCTATAAGACCTTCGGACAT
4320637 GATTT
1 GATTT
4320642 CTAAGATCTC
Statistics
Matches: 272, Mismatches: 42, Indels: 3
0.86 0.13 0.01
Matches are distributed among these distances:
155 184 0.68
156 88 0.32
ACGTcount: A:0.23, C:0.19, G:0.19, T:0.39
Consensus pattern (156 bp):
GATTTTGTAAGACCTTCGAGCATGATTTCTAAGACCTCCGAGCATAAATTTGATTCGCGATGTTA
TCCCGATCGATTCTTTATTTTTTGACTTGTGGTGTTATTCCAGTCGATTCTGTAAGACCTCTGGA
CATGATTCTATAAGACCTTCGGACAT
Found at i:4320655 original size:22 final size:23
Alignment explanation
Indices: 4320591--4320658 Score: 66
Period size: 23 Copynumber: 3.0 Consensus size: 23
4320581 TTATCCAGTC
* ***
4320591 GATTCTGTAAGACCTCCGAACAT
1 GATTCTATAAGACCTCCGGGTAT
*
4320614 GATTCTATAAGACCTTCGGGTAT
1 GATTCTATAAGACCTCCGGGTAT
* *
4320637 GATT-TCTAAGATCTCCGGGTAT
1 GATTCTATAAGACCTCCGGGTAT
4320659 AAATTTGATT
Statistics
Matches: 37, Mismatches: 8, Indels: 1
0.80 0.17 0.02
Matches are distributed among these distances:
22 15 0.41
23 22 0.59
ACGTcount: A:0.26, C:0.21, G:0.21, T:0.32
Consensus pattern (23 bp):
GATTCTATAAGACCTCCGGGTAT
Found at i:4320701 original size:132 final size:133
Alignment explanation
Indices: 4320459--4320768 Score: 383
Period size: 132 Copynumber: 2.3 Consensus size: 133
4320449 CTCTGGGCAT
* ** * * * * *
4320459 GATTTTGTAAGACCTTTGGACATGATTTTGTAAGACCTCCGAGCATGATTTCTAAGATTTTCGAG
1 GATTCTGTAAGACCTCCGAACATGATTCTATAAGACCTCCGAGCATGATTTCTAAGATCTCCGAG
* * * *
4320524 CATAAATTCGATTCGCGATGTTATCCCGATCGATTTTTTATCTTTTGACTTGTGGTGTTA-TCCA
66 CATAAATTCGATTCACGATATTATCCCGATCGATTCTTTATCTTTTGACTTGTGATGTTATTCCA
*
4320588 GTC
131 ATC
* * * *
4320591 GATTCTGTAAGACCTCCGAACATGATTCTATAAGACCTTCGGGTATGATTTCTAAGATCTCCGGG
1 GATTCTGTAAGACCTCCGAACATGATTCTATAAGACCTCCGAGCATGATTTCTAAGATCTCCGAG
* * **
4320656 TATAAATTTGATTCACGATATTATCTTGATCGATTCTTTATCTTTTGACTTGTGATGTTATTCCA
66 CATAAATTCGATTCACGATATTATCCCGATCGATTCTTTATCTTTTGACTTGTGATGTTATTCCA
4320721 ATC
131 ATC
* *
4320724 GATTCTGTAAGACCTCCAAACATGATTTCTA-AA-ATCTCCGAGCAT
1 GATTCTGTAAGACCTCCGAACATGA-TTCTATAAGACCTCCGAGCAT
4320769 AAATTCGATT
Statistics
Matches: 150, Mismatches: 26, Indels: 4
0.83 0.14 0.02
Matches are distributed among these distances:
132 113 0.75
133 32 0.21
134 5 0.03
ACGTcount: A:0.25, C:0.19, G:0.17, T:0.38
Consensus pattern (133 bp):
GATTCTGTAAGACCTCCGAACATGATTCTATAAGACCTCCGAGCATGATTTCTAAGATCTCCGAG
CATAAATTCGATTCACGATATTATCCCGATCGATTCTTTATCTTTTGACTTGTGATGTTATTCCA
ATC
Found at i:4320807 original size:110 final size:110
Alignment explanation
Indices: 4320635--4320860 Score: 285
Period size: 110 Copynumber: 2.1 Consensus size: 110
4320625 ACCTTCGGGT
* * * * *
4320635 ATGATTTCTAAGATCTCCGGGTATAAATTTGATTCACGATATTATCTTGATCGATTCTTTATCTT
1 ATGATTTCTAAAATCTCCGAGCATAAATTCGATTCACGATATTATCTCGATCGATTCTTTATCTT
* * *
4320700 TTGACTTGTGATGTTAT-TCCAATCGATTCTGTAAGACCTCCAAAC
66 TCGACTTATGATGTTATCT-CAATCGATTCTATAAGACCTCCAAAC
* * *
4320745 ATGATTTCTAAAATCTCCGAGCATAAATTCGATTCGC-AGTGTTATCTCGATCGATTTTTTATCT
1 ATGATTTCTAAAATCTCCGAGCATAAATTCGATTCACGA-TATTATCTCGATCGATTCTTTATCT
* * **
4320809 TTCGACTTATGGTGTTATCTCAGTCGATTCTATAAGACCTCCGGAC
65 TTCGACTTATGATGTTATCTCAATCGATTCTATAAGACCTCCAAAC
4320855 ATGATT
1 ATGATT
4320861 CTGTAAGACC
Statistics
Matches: 99, Mismatches: 15, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
109 1 0.01
110 97 0.98
111 1 0.01
ACGTcount: A:0.26, C:0.19, G:0.15, T:0.40
Consensus pattern (110 bp):
ATGATTTCTAAAATCTCCGAGCATAAATTCGATTCACGATATTATCTCGATCGATTCTTTATCTT
TCGACTTATGATGTTATCTCAATCGATTCTATAAGACCTCCAAAC
Found at i:4321137 original size:21 final size:20
Alignment explanation
Indices: 4321111--4321170 Score: 70
Period size: 21 Copynumber: 3.0 Consensus size: 20
4321101 TCATTTCAGT
4321111 ATAATATTAATAATTTTAATA
1 ATAATA-TAATAATTTTAATA
4321132 ATAATAATAATAATTTTAA-A
1 ATAAT-ATAATAATTTTAATA
*
4321152 A-AATAAAATAATTATTAAT
1 ATAATATAATAATT-TTAAT
4321171 TATATAAAAA
Statistics
Matches: 35, Mismatches: 1, Indels: 7
0.81 0.02 0.16
Matches are distributed among these distances:
18 8 0.23
19 7 0.20
20 2 0.06
21 17 0.49
22 1 0.03
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (20 bp):
ATAATATAATAATTTTAATA
Found at i:4321170 original size:25 final size:26
Alignment explanation
Indices: 4321128--4321191 Score: 69
Period size: 27 Copynumber: 2.5 Consensus size: 26
4321118 TAATAATTTT
4321128 AATAATAATAATAATAATT-T-TAAAA
1 AATAA-AATAATAATAATTATATAAAA
*
4321153 AATAAAATAATTATTAATTATATAAAA
1 AATAAAATAA-TAATAATTATATAAAA
* *
4321180 AAAAAAAAAATA
1 AATAAAATAATA
4321192 GAAAAACAAA
Statistics
Matches: 33, Mismatches: 3, Indels: 5
0.80 0.07 0.12
Matches are distributed among these distances:
24 5 0.15
25 12 0.36
26 3 0.09
27 13 0.39
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (26 bp):
AATAAAATAATAATAATTATATAAAA
Found at i:4321180 original size:21 final size:20
Alignment explanation
Indices: 4321119--4321180 Score: 65
Period size: 21 Copynumber: 3.1 Consensus size: 20
4321109 GTATAATATT
*
4321119 AATAATTTTAATAATAATAAT
1 AATAATTTTAATAAT-ATAAA
*
4321140 AATAATTTTAA-AAAAT-AA
1 AATAATTTTAATAATATAAA
*
4321158 AATAATTATTAATTATATAAA
1 AATAATT-TTAATAATATAAA
4321179 AA
1 AA
4321181 AAAAAAAAAT
Statistics
Matches: 34, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
18 8 0.24
19 6 0.18
20 5 0.15
21 15 0.44
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (20 bp):
AATAATTTTAATAATATAAA
Found at i:4321196 original size:15 final size:15
Alignment explanation
Indices: 4321178--4321207 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
4321168 AATTATATAA
4321178 AAAAAAAAAAAATAG
1 AAAAAAAAAAAATAG
*
4321193 AAAAACAAAAAATAG
1 AAAAAAAAAAAATAG
4321208 GGTGGCTGCC
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.83, C:0.03, G:0.07, T:0.07
Consensus pattern (15 bp):
AAAAAAAAAAAATAG
Found at i:4322617 original size:16 final size:16
Alignment explanation
Indices: 4322601--4322780 Score: 134
Period size: 17 Copynumber: 11.2 Consensus size: 16
4322591 CTAGGTTTCT
*
4322601 AAAACCCCTAAAATCT
1 AAAACCCCTAAAATCC
* *
4322617 AAAATCTCATAAAATCC
1 AAAA-CCCCTAAAATCC
* *
4322634 AAAA-TCCAAAAATCC
1 AAAACCCCTAAAATCC
*
4322649 AAAA-TCCTAAAATCC
1 AAAACCCCTAAAATCC
* *
4322664 GAAACCCTTAAAAATCC
1 AAAACCCCT-AAAATCC
*
4322681 AAAA-TCCTAAAATCC
1 AAAACCCCTAAAATCC
* *
4322696 GAAACCCCTAAAAATTC
1 AAAACCCCT-AAAATCC
* *
4322713 AAAATCCCTTAAATCC
1 AAAACCCCTAAAATCC
*
4322729 -AAACCATCTAAAATCC
1 AAAACC-CCTAAAATCC
* *
4322745 GAAACTCCTAAAATCC
1 AAAACCCCTAAAATCC
*
4322761 AAAACCCACAAAAATCC
1 AAAACCC-CTAAAATCC
4322778 AAA
1 AAA
4322781 TTCCAAACCT
Statistics
Matches: 129, Mismatches: 27, Indels: 15
0.75 0.16 0.09
Matches are distributed among these distances:
15 40 0.31
16 38 0.29
17 51 0.40
ACGTcount: A:0.52, C:0.29, G:0.02, T:0.18
Consensus pattern (16 bp):
AAAACCCCTAAAATCC
Found at i:4322646 original size:32 final size:31
Alignment explanation
Indices: 4322601--4322780 Score: 170
Period size: 32 Copynumber: 5.6 Consensus size: 31
4322591 CTAGGTTTCT
*
4322601 AAAACCCCT-AAAATCTAAAATCTCATAAAATCC
1 AAAA-CCCTAAAAATCCAAAATC-C-TAAAATCC
*
4322634 AAAATCC-AAAAATCCAAAATCCTAAAATCC
1 AAAACCCTAAAAATCCAAAATCCTAAAATCC
*
4322664 GAAACCCTTAAAAATCCAAAATCCTAAAATCC
1 AAAACCC-TAAAAATCCAAAATCCTAAAATCC
* * *
4322696 GAAACCCCTAAAAATTCAAAATCCCTTAAATCC
1 -AAAACCCTAAAAATCCAAAAT-CCTAAAATCC
*
4322729 -AAACCATCT-AAAATCCGAAACTCCTAAAATCC
1 AAAACC--CTAAAAATCC-AAAATCCTAAAATCC
*
4322761 AAAACCCACAAAAATCCAAA
1 AAAACCC-TAAAAATCCAAA
4322781 TTCCAAACCT
Statistics
Matches: 123, Mismatches: 13, Indels: 23
0.77 0.08 0.14
Matches are distributed among these distances:
30 13 0.11
31 6 0.05
32 68 0.55
33 36 0.29
ACGTcount: A:0.52, C:0.29, G:0.02, T:0.18
Consensus pattern (31 bp):
AAAACCCTAAAAATCCAAAATCCTAAAATCC
Found at i:4322647 original size:8 final size:8
Alignment explanation
Indices: 4322617--4322780 Score: 61
Period size: 8 Copynumber: 20.2 Consensus size: 8
4322607 CCTAAAATCT
4322617 AAAATCTCA
1 AAAATC-CA
4322626 TAAAATCC-
1 -AAAATCCA
4322634 AAAATCCA
1 AAAATCCA
4322642 AAAATCC-
1 AAAATCCA
*
4322649 AAAATCCT
1 AAAATCCA
4322657 AAAATCC-
1 AAAATCCA
* *
4322664 GAAACCCTTA
1 AAAATCC--A
4322674 AAAATCC-
1 AAAATCCA
*
4322681 AAAATCCT
1 AAAATCCA
*
4322689 AAAATCCG
1 AAAATCCA
**
4322697 AAACCCCTA
1 AAAATCC-A
*
4322706 AAAATTC-
1 AAAATCCA
*
4322713 AAAATCCCT
1 AAAAT-CCA
*
4322722 TAAATCCA
1 AAAATCCA
* *
4322730 AACCAT-CT
1 AA-AATCCA
*
4322738 AAAATCCG
1 AAAATCCA
* *
4322746 AAACTCCT
1 AAAATCCA
4322754 AAAATCCA
1 AAAATCCA
**
4322762 AAACCCACA
1 AAAATC-CA
4322771 AAAATCCA
1 AAAATCCA
4322779 AA
1 AA
4322781 TTCCAAACCT
Statistics
Matches: 115, Mismatches: 27, Indels: 26
0.68 0.16 0.15
Matches are distributed among these distances:
7 33 0.29
8 54 0.47
9 17 0.15
10 11 0.10
ACGTcount: A:0.52, C:0.29, G:0.02, T:0.18
Consensus pattern (8 bp):
AAAATCCA
Found at i:4322818 original size:14 final size:14
Alignment explanation
Indices: 4322801--4322911 Score: 74
Period size: 14 Copynumber: 8.1 Consensus size: 14
4322791 TTAAACTCTT
*
4322801 AAATCCAAACCCAA
1 AAATCCAAACCCTA
4322815 AAATCCAAAATCCCTA
1 AAATCC-AAA-CCCTA
* *
4322831 AAATCTAAACCCTT
1 AAATCCAAACCCTA
*
4322845 AAATCAAAACCCT-
1 AAATCCAAACCCTA
*
4322858 AAA--C---CTC-A
1 AAATCCAAACCCTA
4322866 AAATCCAAACCCTA
1 AAATCCAAACCCTA
*
4322880 AAATCTCCAAACTCTA
1 AAA--TCCAAACCCTA
*
4322896 AAATCAAAACCCTA
1 AAATCCAAACCCTA
4322910 AA
1 AA
4322912 CCTTCCATAT
Statistics
Matches: 76, Mismatches: 10, Indels: 22
0.70 0.09 0.20
Matches are distributed among these distances:
8 5 0.07
10 1 0.01
13 5 0.07
14 37 0.49
15 6 0.08
16 22 0.29
ACGTcount: A:0.51, C:0.32, G:0.00, T:0.17
Consensus pattern (14 bp):
AAATCCAAACCCTA
Found at i:4322841 original size:30 final size:28
Alignment explanation
Indices: 4322801--4322860 Score: 75
Period size: 30 Copynumber: 2.1 Consensus size: 28
4322791 TTAAACTCTT
4322801 AAATCCAAACCCAAAAATCCAAAATCCCTA
1 AAATCCAAACCCAAAAAT-CAAAA-CCCTA
* **
4322831 AAATCTAAACCCTTAAATCAAAACCCTA
1 AAATCCAAACCCAAAAATCAAAACCCTA
4322859 AA
1 AA
4322861 CCTCAAAATC
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
28 7 0.26
29 5 0.19
30 15 0.56
ACGTcount: A:0.53, C:0.30, G:0.00, T:0.17
Consensus pattern (28 bp):
AAATCCAAACCCAAAAATCAAAACCCTA
Found at i:4322869 original size:51 final size:50
Alignment explanation
Indices: 4322814--4322914 Score: 150
Period size: 51 Copynumber: 2.0 Consensus size: 50
4322804 TCCAAACCCA
*
4322814 AAAATCCAAAATCCCTAAAATCT-AAACCCTTAAATCAAAACCCTAAACCTC
1 AAAATCC-AAA-CCCTAAAATCTCAAACCCTAAAATCAAAACCCTAAACCTC
*
4322865 AAAATCCAAACCCTAAAATCTCCAAACTCTAAAATCAAAACCCTAAACCT
1 AAAATCCAAACCCTAAAATCT-CAAACCCTAAAATCAAAACCCTAAACCT
4322915 TCCATATCCT
Statistics
Matches: 46, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
49 11 0.24
50 3 0.07
51 32 0.70
ACGTcount: A:0.50, C:0.32, G:0.00, T:0.19
Consensus pattern (50 bp):
AAAATCCAAACCCTAAAATCTCAAACCCTAAAATCAAAACCCTAAACCTC
Found at i:4322890 original size:16 final size:16
Alignment explanation
Indices: 4322869--4322900 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
4322859 AACCTCAAAA
4322869 TCCAAACCCTAAAATC
1 TCCAAACCCTAAAATC
*
4322885 TCCAAACTCTAAAATC
1 TCCAAACCCTAAAATC
4322901 AAAACCCTAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.44, C:0.34, G:0.00, T:0.22
Consensus pattern (16 bp):
TCCAAACCCTAAAATC
Found at i:4324039 original size:4 final size:4
Alignment explanation
Indices: 4324030--4324054 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
4324020 ATGGTAGGCA
4324030 ACAT ACAT ACAT ACAT ACAT ACAT A
1 ACAT ACAT ACAT ACAT ACAT ACAT A
4324055 TATATATATA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 21 1.00
ACGTcount: A:0.52, C:0.24, G:0.00, T:0.24
Consensus pattern (4 bp):
ACAT
Found at i:4329367 original size:13 final size:13
Alignment explanation
Indices: 4329349--4329374 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
4329339 TACTATAAAC
4329349 ACAAATGTATGAT
1 ACAAATGTATGAT
4329362 ACAAATGTATGAT
1 ACAAATGTATGAT
4329375 GCCATTGTCT
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:0.46, C:0.08, G:0.15, T:0.31
Consensus pattern (13 bp):
ACAAATGTATGAT
Found at i:4329667 original size:25 final size:26
Alignment explanation
Indices: 4329639--4329687 Score: 64
Period size: 25 Copynumber: 1.9 Consensus size: 26
4329629 ATTTAAAATA
4329639 TTAAAATATTAAT-ATAAAATTATTT
1 TTAAAATATTAATAATAAAATTATTT
* * *
4329664 TTAATATTTTAATAATAAATTTAT
1 TTAAAATATTAATAATAAAATTAT
4329688 ATGAAATGGG
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
25 11 0.55
26 9 0.45
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (26 bp):
TTAAAATATTAATAATAAAATTATTT
Found at i:4333337 original size:24 final size:23
Alignment explanation
Indices: 4333301--4333345 Score: 72
Period size: 24 Copynumber: 1.9 Consensus size: 23
4333291 ACATCATCAG
*
4333301 TGTCAATAAAATGCCCATTAGTT
1 TGTCAATAAAATGACCATTAGTT
4333324 TGTCAATTAAAATGACCATTAG
1 TGTCAA-TAAAATGACCATTAG
4333346 GTTCCCATAG
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
23 6 0.30
24 14 0.70
ACGTcount: A:0.38, C:0.16, G:0.13, T:0.33
Consensus pattern (23 bp):
TGTCAATAAAATGACCATTAGTT
Found at i:4335859 original size:28 final size:28
Alignment explanation
Indices: 4335827--4335881 Score: 76
Period size: 28 Copynumber: 2.0 Consensus size: 28
4335817 TCTCAAATGC
4335827 ATTTTTAT-TATGTAATTTATAATAATTA
1 ATTTTTATGTATGTAATTT-TAATAATTA
* *
4335855 ATTTTTATGTATTTAATTTTCATAATT
1 ATTTTTATGTATGTAATTTTAATAATT
4335882 GATAAAATAT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
28 15 0.62
29 9 0.38
ACGTcount: A:0.35, C:0.02, G:0.04, T:0.60
Consensus pattern (28 bp):
ATTTTTATGTATGTAATTTTAATAATTA
Found at i:4336265 original size:2 final size:2
Alignment explanation
Indices: 4336260--4336296 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
4336250 TCTATTTGTC
4336260 AT AT AT 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 AT AT AT A
4336297 AACATATCAC
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:4337192 original size:6 final size:6
Alignment explanation
Indices: 4337181--4337244 Score: 51
Period size: 6 Copynumber: 10.5 Consensus size: 6
4337171 ATTCATGTTG
* * * *
4337181 AAATTT AAATTTT AAATGT AAAATA AAATTAT ACAAATT -AA-TT AAATTT
1 AAATTT AAA-TTT AAATTT AAATTT AAATT-T A-AATTT AAATTT AAATTT
4337230 AAATTT AAATTT AAA
1 AAATTT AAATTT AAA
4337245 AAATATTATA
Statistics
Matches: 46, Mismatches: 7, Indels: 10
0.73 0.11 0.16
Matches are distributed among these distances:
4 2 0.04
5 4 0.09
6 29 0.63
7 8 0.17
8 3 0.07
ACGTcount: A:0.56, C:0.02, G:0.02, T:0.41
Consensus pattern (6 bp):
AAATTT
Found at i:4343755 original size:50 final size:50
Alignment explanation
Indices: 4343680--4343779 Score: 200
Period size: 50 Copynumber: 2.0 Consensus size: 50
4343670 CAAGATAAGA
4343680 GTAAACATGCAGAGATCAACTTTGACTTTGCCTAAGTAACCTTTTCAGGT
1 GTAAACATGCAGAGATCAACTTTGACTTTGCCTAAGTAACCTTTTCAGGT
4343730 GTAAACATGCAGAGATCAACTTTGACTTTGCCTAAGTAACCTTTTCAGGT
1 GTAAACATGCAGAGATCAACTTTGACTTTGCCTAAGTAACCTTTTCAGGT
4343780 ATTCTTTTTG
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
50 50 1.00
ACGTcount: A:0.30, C:0.20, G:0.18, T:0.32
Consensus pattern (50 bp):
GTAAACATGCAGAGATCAACTTTGACTTTGCCTAAGTAACCTTTTCAGGT
Found at i:4347080 original size:24 final size:24
Alignment explanation
Indices: 4347029--4347080 Score: 59
Period size: 24 Copynumber: 2.2 Consensus size: 24
4347019 TTTTTTTTAT
* ** *
4347029 TTTTGTTAAACTTTTATGTGATTT
1 TTTTGTTAAAATTTTAAATGATTA
*
4347053 TTTTGTTAAAATTTTAAATTATTA
1 TTTTGTTAAAATTTTAAATGATTA
4347077 TTTT
1 TTTT
4347081 TTATTATATT
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.27, C:0.02, G:0.08, T:0.63
Consensus pattern (24 bp):
TTTTGTTAAAATTTTAAATGATTA
Found at i:4352118 original size:1 final size:1
Alignment explanation
Indices: 4352112--4352139 Score: 56
Period size: 1 Copynumber: 28.0 Consensus size: 1
4352102 ATTCTTTTAC
4352112 AAAAAAAAAAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAA
4352140 CTTCGAATTA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 27 1.00
ACGTcount: A:1.00, C:0.00, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:4352519 original size:2 final size:2
Alignment explanation
Indices: 4352512--4352545 Score: 50
Period size: 2 Copynumber: 17.0 Consensus size: 2
4352502 CATGGAAGGA
* *
4352512 AT AT AT AT AT AT AT AT AT AT AT AT GT AT GT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
4352546 GGGTCATGGA
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:4353643 original size:2 final size:2
Alignment explanation
Indices: 4353636--4353685 Score: 59
Period size: 2 Copynumber: 25.5 Consensus size: 2
4353626 TATAAATTCG
* *
4353636 AT AT AT AT AT AT AT CT GT AT -T AT AT A- AT CAT 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
4353677 AT AT AT AT A
1 AT AT AT AT A
4353686 GGTGGTTCAA
Statistics
Matches: 42, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
1 2 0.05
2 38 0.90
3 2 0.05
ACGTcount: A:0.46, C:0.04, G:0.02, T:0.48
Consensus pattern (2 bp):
AT
Found at i:4354884 original size:119 final size:122
Alignment explanation
Indices: 4354761--4355014 Score: 310
Period size: 119 Copynumber: 2.1 Consensus size: 122
4354751 TAAGAAAAAG
* * *
4354761 TTTCTTGAAAATAAAAAAAAAAATTT-AAAA-A-TTTTTATGAAAAAGTTGAAAATATCGA-TTT
1 TTTCTTGAAAATAAAAAAAAAAATTTAAAAATATTTTTTAAGAAAAAATTGAAAATATCAATTTT
* *
4354822 TCTTGAAAATAAAA-TTTTCAAAAAAATATTTTTTGAGGAAAAGTTGAAAGTATCAATT
66 TCTTGAAAATAAAATTTTTCAAAAAAA-A-TTTTCGAGGAAAAGTTGAAAGTACCAATT
*** *
4354880 TTTCTTGAAAAT----AAAATTTTTTAAAAAATATTTTTTAAGAAAAAATTGAAATTATCAATTT
1 TTTCTTGAAAATAAAAAAAAAAATTT-AAAAATATTTTTTAAGAAAAAATTGAAAATATCAATTT
** *
4354941 TTCTTGAAAATAAAATTTTTTTAAAAAAATTTTCGAGGAAAAGTTGGAAGTACCAATT
65 TTCTTGAAAATAAAATTTTTCAAAAAAAATTTTCGAGGAAAAGTTGAAAGTACCAATT
4354999 TTTCTTGAAAATAAAA
1 TTTCTTGAAAATAAAA
4355015 TTCTCAAGAA
Statistics
Matches: 113, Mismatches: 12, Indels: 16
0.80 0.09 0.11
Matches are distributed among these distances:
115 7 0.06
117 4 0.04
118 1 0.01
119 73 0.65
120 18 0.16
121 10 0.09
ACGTcount: A:0.48, C:0.05, G:0.09, T:0.38
Consensus pattern (122 bp):
TTTCTTGAAAATAAAAAAAAAAATTTAAAAATATTTTTTAAGAAAAAATTGAAAATATCAATTTT
TCTTGAAAATAAAATTTTTCAAAAAAAATTTTCGAGGAAAAGTTGAAAGTACCAATT
Found at i:4354892 original size:60 final size:59
Alignment explanation
Indices: 4354787--4355059 Score: 327
Period size: 60 Copynumber: 4.6 Consensus size: 59
4354777 AAAAAAATTT
* * * *
4354787 AAAA-ATTTTTATGAAAAAGTTGAAAATATCGA-TTTTCTTGAAAATAAAATTTTCAAA
1 AAAATATTTTTAAGGAAAAGTTGAAAGTATCAATTTTTCTTGAAAATAAAATTTTCAAA
* **
4354844 AAAATATTTTTTGAGGAAAAGTTGAAAGTATCAATTTTTCTTGAAAATAAAATTTTTTAA
1 AAAATA-TTTTTAAGGAAAAGTTGAAAGTATCAATTTTTCTTGAAAATAAAATTTTCAAA
* * * **
4354904 AAAATATTTTTTAAGAAAAAATTGAAATTATCAATTTTTCTTGAAAATAAAATTTTTTTAA
1 AAAATA-TTTTTAAGGAAAAGTTGAAAGTATCAATTTTTCTTGAAAATAAAA-TTTTCAAA
** * * *
4354965 AAAA-ATTTTCGAGGAAAAGTTGGAAGTACCAATTTTTCTTGAAAATAAAATTCTCAAGA
1 AAAATATTTTTAAGGAAAAGTTGAAAGTATCAATTTTTCTTGAAAATAAAATTTTCAA-A
*
4355024 AAAATATTTTTAAGGAAAAATTGAAAGTATCAATTT
1 AAAATATTTTTAAGGAAAAGTTGAAAGTATCAATTT
4355060 AAAAAAAAAA
Statistics
Matches: 184, Mismatches: 26, Indels: 9
0.84 0.12 0.04
Matches are distributed among these distances:
57 4 0.02
58 5 0.03
59 65 0.35
60 98 0.53
61 12 0.07
ACGTcount: A:0.47, C:0.05, G:0.10, T:0.38
Consensus pattern (59 bp):
AAAATATTTTTAAGGAAAAGTTGAAAGTATCAATTTTTCTTGAAAATAAAATTTTCAAA
Found at i:4355015 original size:119 final size:120
Alignment explanation
Indices: 4354787--4355059 Score: 367
Period size: 119 Copynumber: 2.3 Consensus size: 120
4354777 AAAAAAATTT
* * *
4354787 AAAA-ATTTTTATGAAAAAGTTGAAAATATCGA-TTTTCTTGAAAATAAAATTTTCAAAAAAATA
1 AAAATATTTTTAAGAAAAAATTGAAAATATCAATTTTTCTTGAAAATAAAATTTTCAAAAAAATA
* * * **
4354850 TTTTTTGAGGAAAAGTTGAAAGTATCAATTTTTCTTGAAAATAAAATTTTTTA-A
66 TTTTTCGAGGAAAAGTTGAAAGTACCAATTTTTCTTGAAAATAAAATTCTCAAGA
* **
4354904 AAAATATTTTTTAAGAAAAAATTGAAATTATCAATTTTTCTTGAAAATAAAATTTTTTTAAAAAA
1 AAAATA-TTTTTAAGAAAAAATTGAAAATATCAATTTTTCTTGAAAATAAAA-TTTTCAAAAAAA
*
4354969 -A-TTTTCGAGGAAAAGTTGGAAGTACCAATTTTTCTTGAAAATAAAATTCTCAAGA
64 TATTTTTCGAGGAAAAGTTGAAAGTACCAATTTTTCTTGAAAATAAAATTCTCAAGA
* *
4355024 AAAATATTTTTAAGGAAAAATTGAAAGTATCAATTT
1 AAAATATTTTTAAGAAAAAATTGAAAATATCAATTT
4355060 AAAAAAAAAA
Statistics
Matches: 137, Mismatches: 14, Indels: 8
0.86 0.09 0.05
Matches are distributed among these distances:
117 4 0.03
118 1 0.01
119 97 0.71
120 25 0.18
121 10 0.07
ACGTcount: A:0.47, C:0.05, G:0.10, T:0.38
Consensus pattern (120 bp):
AAAATATTTTTAAGAAAAAATTGAAAATATCAATTTTTCTTGAAAATAAAATTTTCAAAAAAATA
TTTTTCGAGGAAAAGTTGAAAGTACCAATTTTTCTTGAAAATAAAATTCTCAAGA
Found at i:4358330 original size:15 final size:15
Alignment explanation
Indices: 4358310--4358346 Score: 56
Period size: 15 Copynumber: 2.5 Consensus size: 15
4358300 TTTGTGTGTA
4358310 TGCATTTTCATTCAT
1 TGCATTTTCATTCAT
*
4358325 TGCATTCTCATTCAT
1 TGCATTTTCATTCAT
*
4358340 TACATTT
1 TGCATTT
4358347 AATAAAATAA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.22, C:0.22, G:0.05, T:0.51
Consensus pattern (15 bp):
TGCATTTTCATTCAT
Found at i:4366028 original size:79 final size:79
Alignment explanation
Indices: 4365896--4366507 Score: 350
Period size: 79 Copynumber: 7.5 Consensus size: 79
4365886 CGTATTATAG
* * * * * * *
4365896 CTTAGTCCAAGTTATTCATTTTAGGCTTCGATTTAGTCCAGGTCTTTCAGTTTTGGATTTTAACT
1 CTTAGTCTAAGTTATTCATTTCAGACTTCGATTCAATCCAAGTCTTTCTGTTTTGGATTTTAACT
4365961 TTTGTCAAATCCTT
66 TTTGTCAAATCCTT
* * *
4365975 CTTAGTCTAAGTTATTCATTTCAGGCTTCGATTCAGTCCAAGTCTTTCTGTTTTGGATTTTAATT
1 CTTAGTCTAAGTTATTCATTTCAGACTTCGATTCAATCCAAGTCTTTCTGTTTTGGATTTTAACT
*
4366040 TTTGTTAAATCCTT
66 TTTGTCAAATCCTT
* * * * * * * * *
4366054 CATAGTCCAAGTCATTCATTTCAGACTTCGGTTCAATCCAAGTCATCCTATTTTTGAATTTTGAC
1 CTTAGTCTAAGTTATTCATTTCAGACTTCGATTCAATCCAAGTCTTTCT-GTTTTGGATTTTAAC
* * ** *
4366119 ATATACCAGATCTTTCTT
65 TTTTGTCAAATC---CTT
** * * * * * **
4366137 CGGCTTAACCCAATTTATTCATTTCAGACTT-TAGTTCAATCCAGGT-TATTCTATTTTTTTATT
1 ---CTTAGTCTAAGTTATTCATTTCAGACTTCGA-TTCAATCCAAGTCT-TTCT-GTTTTGGATT
* * * *
4366200 TTGACTTATGCCAAATCTTT
60 TTAACTTTTGTCAAATCCTT
* * * * **
4366220 CTTCGGCCCAGTCTAAGTTATTCACTTCAGACTTCAATTCAATCCAAGTCATTCTATTTTTTAAT
1 CTT------AGTCTAAGTTATTCATTTCAGACTTCGATTCAATCCAAGTCTTTCT-GTTTTGGAT
* * * * *
4366285 TTTGACCTATGCCAGATATTTCTT
59 TTTAACTTTTGTCA-A-A-TCCTT
* * ** * * *
4366309 CGGCTCAATCTAAGTTATTCATTTCAGGTTTCGGTTCAGTCCAAGTCTTTCAGTTTTGGATTTTA
1 ---CTTAGTCTAAGTTATTCATTTCAGACTTCGATTCAATCCAAGTCTTTCTGTTTTGGATTTTA
**
4366374 ACTTTTGTCAAATTTTT
63 ACTTTTGTCAAATCCTT
* * * * * * *
4366391 CTTAATCTAAGTCATTCGTTTCAGGCTTC-AGTTCAATTCAGGTCTTTCTGTTTTAGATTTTAAC
1 CTTAGTCTAAGTTATTCATTTCAGACTTCGA-TTCAATCCAAGTCTTTCTGTTTTGGATTTTAAC
4366455 TTTTGTCAAATCCTT
65 TTTTGTCAAATCCTT
* * * *
4366470 CTTAGT-TCAAATTATTCGTTTCAGACTTCAATTTAATC
1 CTTAGTCT-AAGTTATTCATTTCAGACTTCGATTCAATC
4366508 TTGGTCATTC
Statistics
Matches: 418, Mismatches: 89, Indels: 52
0.75 0.16 0.09
Matches are distributed among these distances:
78 1 0.00
79 207 0.50
80 21 0.05
82 4 0.01
83 6 0.01
84 1 0.00
85 16 0.04
86 154 0.37
87 2 0.00
88 1 0.00
89 3 0.01
92 2 0.00
ACGTcount: A:0.23, C:0.19, G:0.12, T:0.45
Consensus pattern (79 bp):
CTTAGTCTAAGTTATTCATTTCAGACTTCGATTCAATCCAAGTCTTTCTGTTTTGGATTTTAACT
TTTGTCAAATCCTT
Found at i:4366176 original size:86 final size:86
Alignment explanation
Indices: 4366062--4366355 Score: 363
Period size: 86 Copynumber: 3.4 Consensus size: 86
4366052 TTCATAGTCC
* * * * *
4366062 AAGTCATTCATTTCAGACTTCGGTTCAATCCAAGTCATCCTATTTTTGAATTTTGACATATACCA
1 AAGTTATTCATTTCAGACTTCAGTTCAATCCAAGTCATTCTATTTTTTAATTTTGACATATGCCA
* * *
4366127 GATCTTTCTTCGGCTTAACCC
66 GATCTTTCTTCGGCTCAATCT
* * * * * *
4366148 AATTTATTCATTTCAGACTTTAGTTCAATCCAGGTTATTCTATTTTTTTATTTTGACTTATGCCA
1 AAGTTATTCATTTCAGACTTCAGTTCAATCCAAGTCATTCTATTTTTTAATTTTGACATATGCCA
* * *
4366213 AATCTTTCTTCGGCCCAGTCT
66 GATCTTTCTTCGGCTCAATCT
* * *
4366234 AAGTTATTCACTTCAGACTTCAATTCAATCCAAGTCATTCTATTTTTTAATTTTGACCTATGCCA
1 AAGTTATTCATTTCAGACTTCAGTTCAATCCAAGTCATTCTATTTTTTAATTTTGACATATGCCA
*
4366299 GATATTTCTTCGGCTCAATCT
66 GATCTTTCTTCGGCTCAATCT
** * *
4366320 AAGTTATTCATTTCAGGTTTCGGTTCAGTCCAAGTC
1 AAGTTATTCATTTCAGACTTCAGTTCAATCCAAGTC
4366356 TTTCAGTTTT
Statistics
Matches: 173, Mismatches: 35, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
86 173 1.00
ACGTcount: A:0.24, C:0.22, G:0.12, T:0.42
Consensus pattern (86 bp):
AAGTTATTCATTTCAGACTTCAGTTCAATCCAAGTCATTCTATTTTTTAATTTTGACATATGCCA
GATCTTTCTTCGGCTCAATCT
Found at i:4366626 original size:86 final size:85
Alignment explanation
Indices: 4366056--4366713 Score: 257
Period size: 86 Copynumber: 7.9 Consensus size: 85
4366046 AAATCCTTCA
* * * ** * *
4366056 TAGTCCAAGTCATTCATTTCAGACTTCGGTTCAATCCAAGTCATCCTATTTTTGAATTTTGACAT
1 TAGTCCAAGT-ATTCATTTCAGACTTCGATTCCATCCAGGTCATTTTGTTTTTGAATTTTGACTT
** ** *
4366121 ATACCAGATCTTTCTTCGGCT
65 ATGTCAGATCTTTCTTTAGCC
** * * * * * * **
4366142 TAACCCAATTTATTCATTTCAGACTT-TAGTTCAATCCAGGTTATTCTATTTTTTTATTTTGACT
1 TAGTCCAA-GTATTCATTTCAGACTTCGA-TTCCATCCAGGTCATTTTGTTTTTGAATTTTGACT
* * **
4366206 TATGCCAAATCTTTCTTCGGCC
64 TATGTCAGATCTTTCTTTAGCC
* * * * * * * * * *
4366228 CAGTCTAAGTTATTCACTTCAGACTTCAATTCAATCCAAGTCATTCTATTTTTTAATTTTGACCT
1 TAGTCCAAG-TATTCATTTCAGACTTCGATTCCATCCAGGTCATTTTGTTTTTGAATTTTGACTT
* * * *
4366293 ATGCCAGATATTTC-TTCGGC
65 ATGTCAGATCTTTCTTTAGCC
* * ** * * * * *
4366313 TCAATCTAAGTTATTCATTTCAGGTTTCGGTT-CAGTCCAAGTC-TTTCAG-TTTTGGATTTTAA
1 T-AGTCCAAG-TATTCATTTCAGACTTCGATTCCA-TCCAGGTCATTT-TGTTTTTGAATTTTGA
* * *
4366375 CTTTTGTCAAATTTTTC-TTA---
62 CTTATGTCAGATCTTTCTTTAGCC
* * * * * * *
4366395 -A-TCTAAGTCATTCGTTTCAGGCTTC-AGTTCAATTCAGGTC-TTTCTGTTTTAG-ATTTTAAC
1 TAGTCCAAGT-ATTCATTTCAGACTTCGA-TTCCATCCAGGTCATTT-TGTTTTTGAATTTTGAC
* * *
4366455 TTTTGTCAAATCCTTC-TTAG--
63 TTATGTCAGATCTTTCTTTAGCC
* * * * ** ** * * *
4366475 T--TCAAATTATTCGTTTCAGACTTCAATTTAATCTTGGTCATTCTGTTTTTGAA-TTTCAGCAT
1 TAGTCCAAGTATTCATTTCAGACTTCGATTCCATCCAGGTCATTTTGTTTTTGAATTTTGA-CTT
*
4366537 ATGTCAGATCCTTT-TTTGGCC
65 ATGTCAGAT-CTTTCTTTAGCC
* *
4366558 TAGTTCAAGGTATTCATTTCAGACTTCGATTCCATCCATGTCATTTTGTTTTTGAATTTTGACTT
1 TAGTCCAA-GTATTCATTTCAGACTTCGATTCCATCCAGGTCATTTTGTTTTTGAATTTTGACTT
* *
4366623 ATGTCAAATCTTTCTTTAGCT
65 ATGTCAGATCTTTCTTTAGCC
* * * * * *
4366644 TAGTCCAAGTATTCGTTTCATACTTCTATTTCATTCAGGTCA-TTT-TATTTG-ATTTTGACTTA
1 TAGTCCAAGTATTCATTTCAGACTTCGATTCCATCCAGGTCATTTTGTTTTTGAATTTTGACTTA
*
4366706 TGCCAGAT
66 TGTCAGAT
4366714 TTCGGCTCAG
Statistics
Matches: 445, Mismatches: 101, Indels: 56
0.74 0.17 0.09
Matches are distributed among these distances:
78 1 0.00
79 93 0.21
80 24 0.05
81 6 0.01
82 17 0.04
83 6 0.01
84 3 0.01
85 65 0.15
86 224 0.50
87 6 0.01
ACGTcount: A:0.23, C:0.19, G:0.12, T:0.45
Consensus pattern (85 bp):
TAGTCCAAGTATTCATTTCAGACTTCGATTCCATCCAGGTCATTTTGTTTTTGAATTTTGACTTA
TGTCAGATCTTTCTTTAGCC
Found at i:4368021 original size:60 final size:58
Alignment explanation
Indices: 4367910--4368389 Score: 260
Period size: 60 Copynumber: 8.1 Consensus size: 58
4367900 TCAATGATTT
* * *
4367910 TTTAAAATAAAAATTTGAAATAAAATATTTTTGAAGG-AAAGTTGAATGTATCAATTTC-C
1 TTTAAAAT-AAAATTTTAAAAAAAATATTTTTG-AGGAAAAATTGAA-GTATCAATTTCTC
** * *
4367969 TTTTAGCATACAAATTTTAAAAAAAATATTTTTGAGGAAAAATTGAGAGTATCGATTTTTC
1 -TTTAAAATA-AAATTTTAAAAAAAATATTTTTGAGGAAAAATTGA-AGTATCAATTTCTC
* ** * * *
4368030 TTTAAAATAAAATTTTTCAAAAAAGCATTTTTGAGAAAAAATTGAAAGTATCAATTTTTA
1 TTTAAAATAAAA-TTTTAAAAAAAATATTTTTGAGGAAAAATTG-AAGTATCAATTTCTC
* * * *
4368090 TTGAAAATAAAAAAAATTTT--AAAAAATGATTTTATGA--AAAAGTTGAAAATATCAATTTTTC
1 TTTAAAAT----AAAATTTTAAAAAAAAT-ATTTT-TGAGGAAAAATTG-AAGTATCAATTTCTC
* * * * * *
4368151 TTGAAAATAAAAAATTTT--AAAAAATATTTTTG-TGAAAAAGTTAAAAATATTAATTTTTC
1 TTTAAAAT--AAAATTTTAAAAAAAATATTTTTGAGGAAAAA-TT-GAAGTATCAATTTCTC
* * * * * * * *
4368210 TTGAAAATAAAAATTTCAAGAAAACATTTTTAAGGAAAAATTGAAAATATCAATTTTTC
1 TTTAAAATAAAATTTTAAAAAAAATATTTTTGAGGAAAAATTG-AAGTATCAATTTCTC
* * ** * * * *
4368269 TTAAAAATAAAATTTTCAAAAAAGCATTTTCGAGAAAAAATTGAAAATATCAATTTTTC
1 TTTAAAATAAAATTTTAAAAAAAATATTTTTGAGGAAAAATTG-AAGTATCAATTTCTC
* * * * * * * *
4368328 TCTAAAATTAAGATTTCAAGAAGAACATTTTTAAGGAAAAGTTGAAAGTATCAATTT-TC
1 TTTAAAA-TAAAATTTTAAAAAAAATATTTTTGAGGAAAAATTG-AAGTATCAATTTCTC
4368387 TTT
1 TTT
4368390 GAATAATAGT
Statistics
Matches: 347, Mismatches: 52, Indels: 43
0.79 0.12 0.10
Matches are distributed among these distances:
57 9 0.03
58 9 0.03
59 136 0.39
60 140 0.40
61 37 0.11
62 5 0.01
63 7 0.02
64 4 0.01
ACGTcount: A:0.48, C:0.06, G:0.10, T:0.37
Consensus pattern (58 bp):
TTTAAAATAAAATTTTAAAAAAAATATTTTTGAGGAAAAATTGAAGTATCAATTTCTC
Done.