Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold226
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: 1170647
ACGTcount: A:0.34, C:0.16, G:0.16, T:0.34
File 6 of 8
Found at i:629353 original size:21 final size:19
Alignment explanation
Indices: 629299--629359 Score: 61
Period size: 21 Copynumber: 3.1 Consensus size: 19
629289 TCATATTAAA
* *
629299 ATTTGATCAGTTTAAAT-T
1 ATTTAATCAATTTAAATAT
629317 ATTTAATCAATCTTAAATAT
1 ATTTAATCAAT-TTAAATAT
*
629337 ATATTAATTATATTTAAATAT
1 AT-TTAATCA-ATTTAAATAT
629358 AT
1 AT
629360 CGTATCAAAT
Statistics
Matches: 36, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
18 9 0.25
19 6 0.17
20 3 0.08
21 16 0.44
22 2 0.06
ACGTcount: A:0.43, C:0.05, G:0.03, T:0.49
Consensus pattern (19 bp):
ATTTAATCAATTTAAATAT
Found at i:629581 original size:2 final size:2
Alignment explanation
Indices: 629574--629606 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
629564 TCATTAATAC
629574 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
629607 TTTTTAAATT
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:629951 original size:15 final size:15
Alignment explanation
Indices: 629931--629972 Score: 50
Period size: 15 Copynumber: 2.8 Consensus size: 15
629921 TGAGTGTAAC
*
629931 TTTACAATT-TATGTA
1 TTTAC-ATTATATATA
629946 TTTACATTATATATA
1 TTTACATTATATATA
*
629961 TTTATATTATAT
1 TTTACATTATAT
629973 TTTAATTATT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
14 3 0.12
15 21 0.88
ACGTcount: A:0.36, C:0.05, G:0.02, T:0.57
Consensus pattern (15 bp):
TTTACATTATATATA
Found at i:630148 original size:22 final size:22
Alignment explanation
Indices: 630120--630162 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
630110 GATCTCATTG
*
630120 CGAGAAATTGGTTT-ATAAAATC
1 CGAGAAAAT-GTTTGATAAAATC
630142 CGAGAAAATGTTTGATAAAAT
1 CGAGAAAATGTTTGATAAAAT
630163 ATTGAGTTAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 4 0.21
22 15 0.79
ACGTcount: A:0.44, C:0.07, G:0.19, T:0.30
Consensus pattern (22 bp):
CGAGAAAATGTTTGATAAAATC
Found at i:630432 original size:13 final size:13
Alignment explanation
Indices: 630414--630438 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
630404 CCATGCAGAG
630414 AAAAGAAAAAAAA
1 AAAAGAAAAAAAA
630427 AAAAGAAAAAAA
1 AAAAGAAAAAAA
630439 GAAGCATGTG
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:0.92, C:0.00, G:0.08, T:0.00
Consensus pattern (13 bp):
AAAAGAAAAAAAA
Found at i:632023 original size:2 final size:2
Alignment explanation
Indices: 632018--632077 Score: 111
Period size: 2 Copynumber: 30.0 Consensus size: 2
632008 AAAAAATTAA
*
632018 AT AT AT CT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
632060 AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT
632078 CTCCGTATTC
Statistics
Matches: 56, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
2 56 1.00
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:632523 original size:2 final size:2
Alignment explanation
Indices: 632516--632553 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
632506 AAGAAAACAC
632516 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
632554 GCAGAGGCAT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
AG
Found at i:642640 original size:2 final size:2
Alignment explanation
Indices: 642633--642660 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
642623 GCGCCCGCCC
642633 GT GT GT GT GT GT GT GT GT GT GT GT GT GT
1 GT GT GT GT GT GT GT GT GT GT GT GT GT GT
642661 ATATATATAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.00, C:0.00, G:0.50, T:0.50
Consensus pattern (2 bp):
GT
Found at i:642665 original size:2 final size:2
Alignment explanation
Indices: 642660--642686 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
642650 TGTGTGTGTG
642660 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
642687 GTTTAAGTTG
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:646078 original size:7 final size:7
Alignment explanation
Indices: 646062--646100 Score: 60
Period size: 7 Copynumber: 5.6 Consensus size: 7
646052 AACAAACAAG
646062 AGTTGCA
1 AGTTGCA
*
646069 AGTTGGA
1 AGTTGCA
646076 AGTTGCA
1 AGTTGCA
646083 AGTTGCA
1 AGTTGCA
*
646090 AGTTGCG
1 AGTTGCA
646097 AGTT
1 AGTT
646101 AAGTCCACCT
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
7 29 1.00
ACGTcount: A:0.26, C:0.10, G:0.33, T:0.31
Consensus pattern (7 bp):
AGTTGCA
Found at i:650440 original size:2 final size:2
Alignment explanation
Indices: 650433--650465 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
650423 ATTTACAGAT
650433 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
650466 GCTTTTTACG
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:650859 original size:21 final size:21
Alignment explanation
Indices: 650830--650869 Score: 64
Period size: 20 Copynumber: 1.9 Consensus size: 21
650820 TCTAGTTTGA
650830 AATAGTATTTTTTAATTTAATT
1 AATAGTA-TTTTTAATTTAATT
650852 AATA-TATTTTTAATTTAA
1 AATAGTATTTTTAATTTAA
650870 ATTTAATTAT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 12 0.67
21 2 0.11
22 4 0.22
ACGTcount: A:0.40, C:0.00, G:0.03, T:0.57
Consensus pattern (21 bp):
AATAGTATTTTTAATTTAATT
Found at i:650886 original size:21 final size:21
Alignment explanation
Indices: 650862--650904 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 21
650852 AATATATTTT
*
650862 TAATTTAAAT-TTAATTATAAA
1 TAATATAAATATTAATTA-AAA
650883 TAATATAAATATTAATTAAAA
1 TAATATAAATATTAATTAAAA
650904 T
1 T
650905 TTTTTAATAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
21 13 0.65
22 7 0.35
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (21 bp):
TAATATAAATATTAATTAAAA
Found at i:650902 original size:32 final size:33
Alignment explanation
Indices: 650840--650924 Score: 92
Period size: 29 Copynumber: 2.7 Consensus size: 33
650830 AATAGTATTT
* * *
650840 TTTAATTTAATTAATAT-ATTTTTAATTT-AAA
1 TTTAATTTAAATAATATAAATATTAATTTAAAA
650871 TTTAATTATAAATAATATAAATATTAA-TTAAAA
1 TTTAATT-TAAATAATATAAATATTAATTTAAAA
650904 TTT--TTT-AATAATATAAATATT
1 TTTAATTTAAATAATATAAATATT
650925 GATTCGAACT
Statistics
Matches: 48, Mismatches: 3, Indels: 8
0.81 0.05 0.14
Matches are distributed among these distances:
29 15 0.31
30 1 0.02
31 9 0.19
32 11 0.23
33 12 0.25
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (33 bp):
TTTAATTTAAATAATATAAATATTAATTTAAAA
Found at i:651084 original size:29 final size:29
Alignment explanation
Indices: 651041--651180 Score: 121
Period size: 29 Copynumber: 4.9 Consensus size: 29
651031 ATAATATTAA
*
651041 ATAT-AATATAAAAAATA-ATTAAAATCTT
1 ATATAAATATTAAAAATATATTAAAAT-TT
* *
651069 ATATAAATATTAAAAA-ATAATAAAATATA
1 ATATAAATATTAAAAATATATTAAAAT-TT
*
651098 ATATAAATA-TAAAAATATTTTAAAATTT
1 ATATAAATATTAAAAATATATTAAAATTT
* **
651126 ATTTAATATAAATTATTAATATATTAAAATTT
1 ATATAA-AT--ATTAAAAATATATTAAAATTT
*
651158 ATATAAATA-T-AAAATATTTTAAA
1 ATATAAATATTAAAAATATATTAAA
651181 TATAATTATA
Statistics
Matches: 90, Mismatches: 15, Indels: 15
0.75 0.12 0.12
Matches are distributed among these distances:
27 10 0.11
28 18 0.20
29 38 0.42
31 3 0.03
32 21 0.23
ACGTcount: A:0.59, C:0.01, G:0.00, T:0.40
Consensus pattern (29 bp):
ATATAAATATTAAAAATATATTAAAATTT
Found at i:651107 original size:11 final size:11
Alignment explanation
Indices: 651031--651109 Score: 60
Period size: 11 Copynumber: 7.4 Consensus size: 11
651021 TTAGGTCTAC
651031 ATAATATTAAAT
1 ATAATA-TAAAT
*
651043 ATAATATAAAAA
1 ATAATAT-AAAT
651055 ATAAT-TAAAAT
1 ATAATAT-AAAT
* *
651066 CTTATATAAAT
1 ATAATATAAAT
*
651077 AT--TA-AAAA
1 ATAATATAAAT
651085 ATAATA-AAAT
1 ATAATATAAAT
651095 ATAATATAAAT
1 ATAATATAAAT
651106 ATAA
1 ATAA
651110 AAATATTTTA
Statistics
Matches: 55, Mismatches: 7, Indels: 11
0.75 0.10 0.15
Matches are distributed among these distances:
8 5 0.09
9 2 0.04
10 11 0.20
11 22 0.40
12 15 0.27
ACGTcount: A:0.65, C:0.01, G:0.00, T:0.34
Consensus pattern (11 bp):
ATAATATAAAT
Found at i:651138 original size:33 final size:33
Alignment explanation
Indices: 651034--651170 Score: 100
Period size: 33 Copynumber: 4.4 Consensus size: 33
651024 GGTCTACATA
*
651034 ATATTAAATATAATATAAAAAATA-ATTAAAATCTT
1 ATATT-AATATAA-ATTAAAAATATATTAAAAT-TT
*
651069 ATA-TAA-AT--ATTAAAAA-ATAAT-AAA---
1 ATATTAATATAAATTAAAAATATATTAAAATTT
*
651093 ATA-TAATATAAATATAAAAATATTTTAAAATTT
1 ATATTAATATAAAT-TAAAAATATATTAAAATTT
**
651126 AT-TTAATATAAATTATTAATATATTAAAATTT
1 ATATTAATATAAATTAAAAATATATTAAAATTT
*
651158 ATATAAATATAAA
1 ATATTAATATAAA
651171 ATATTTTAAA
Statistics
Matches: 82, Mismatches: 8, Indels: 26
0.71 0.07 0.22
Matches are distributed among these distances:
24 6 0.07
25 2 0.02
27 2 0.02
28 10 0.12
29 12 0.15
30 3 0.04
32 20 0.24
33 23 0.28
34 1 0.01
35 3 0.04
ACGTcount: A:0.60, C:0.01, G:0.00, T:0.39
Consensus pattern (33 bp):
ATATTAATATAAATTAAAAATATATTAAAATTT
Found at i:651663 original size:30 final size:30
Alignment explanation
Indices: 651606--651664 Score: 75
Period size: 30 Copynumber: 2.0 Consensus size: 30
651596 ATTTACGGTA
* *
651606 TTAAAAATTTTTTAAAATTGATAATTTAAT
1 TTAAAAATTTTTAAAAATTAATAATTTAAT
*
651636 TTAATAATTTTTAAAAATTTAAT-ATTTAA
1 TTAAAAATTTTTAAAAA-TTAATAATTTAA
651665 ATATAATGAT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
30 21 0.84
31 4 0.16
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (30 bp):
TTAAAAATTTTTAAAAATTAATAATTTAAT
Found at i:651883 original size:16 final size:16
Alignment explanation
Indices: 651858--651938 Score: 54
Period size: 16 Copynumber: 5.1 Consensus size: 16
651848 TAAACCTAAT
*
651858 TGATTCGAATTCGAAA
1 TGATTCGAATTCAAAA
* *
651874 TGATTTGAATTTAAAA
1 TGATTCGAATTCAAAA
* * *
651890 TGATTCAAACTCGAAA
1 TGATTCGAATTCAAAA
* * *
651906 TAATCCGAACTCAAAA
1 TGATTCGAATTCAAAA
* * *
651922 TAATTCAAACTCAAAA
1 TGATTCGAATTCAAAA
651938 T
1 T
651939 TTTTAAAATT
Statistics
Matches: 51, Mismatches: 14, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
16 51 1.00
ACGTcount: A:0.46, C:0.15, G:0.10, T:0.30
Consensus pattern (16 bp):
TGATTCGAATTCAAAA
Found at i:651904 original size:32 final size:32
Alignment explanation
Indices: 651871--651984 Score: 108
Period size: 32 Copynumber: 3.6 Consensus size: 32
651861 TTCGAATTCG
* * *
651871 AAATGATTTGAATTTAAAATGATTCAAACTCG
1 AAATAATTTGAATTTAAAATAATTCAAACTCA
** * *
651903 AAATAATCCGAACTCAAAATAATTCAAACTCA
1 AAATAATTTGAATTTAAAATAATTCAAACTCA
* * *
651935 AAAT-TTTTAAAATTTAAAATAATTTAAACT-A
1 AAATAATTT-GAATTTAAAATAATTCAAACTCA
651966 AAATAATTT-AATTTAAAAT
1 AAATAATTTGAATTTAAAAT
651985 CAATCTAATC
Statistics
Matches: 65, Mismatches: 15, Indels: 6
0.76 0.17 0.07
Matches are distributed among these distances:
30 10 0.15
31 6 0.09
32 49 0.75
ACGTcount: A:0.52, C:0.10, G:0.04, T:0.34
Consensus pattern (32 bp):
AAATAATTTGAATTTAAAATAATTCAAACTCA
Found at i:651969 original size:15 final size:16
Alignment explanation
Indices: 651913--651976 Score: 69
Period size: 16 Copynumber: 4.1 Consensus size: 16
651903 AAATAATCCG
*
651913 AACTCAAAATAATTCA
1 AACTCAAAATAATTTA
*
651929 AACTCAAAAT-TTTTAA
1 AACTCAAAATAATTT-A
* *
651945 AATTTAAAATAATTTA
1 AACTCAAAATAATTTA
651961 AACT-AAAATAATTTA
1 AACTCAAAATAATTTA
651976 A
1 A
651977 TTTAAAATCA
Statistics
Matches: 40, Mismatches: 6, Indels: 5
0.78 0.12 0.10
Matches are distributed among these distances:
15 14 0.35
16 23 0.57
17 3 0.08
ACGTcount: A:0.56, C:0.09, G:0.00, T:0.34
Consensus pattern (16 bp):
AACTCAAAATAATTTA
Found at i:651982 original size:15 final size:15
Alignment explanation
Indices: 651945--651984 Score: 62
Period size: 15 Copynumber: 2.7 Consensus size: 15
651935 AAATTTTTAA
651945 AATTTAAAATAATTT
1 AATTTAAAATAATTT
**
651960 AAACTAAAATAATTT
1 AATTTAAAATAATTT
651975 AATTTAAAAT
1 AATTTAAAAT
651985 CAATCTAATC
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
15 21 1.00
ACGTcount: A:0.57, C:0.03, G:0.00, T:0.40
Consensus pattern (15 bp):
AATTTAAAATAATTT
Found at i:652343 original size:22 final size:23
Alignment explanation
Indices: 652287--652353 Score: 75
Period size: 26 Copynumber: 2.8 Consensus size: 23
652277 TCATATTTGA
652287 ATATAAATAATTAAATTTAAAATTTC
1 ATATAAATAATTAAATTT---ATTTC
*
652313 ATATAAATAATTAAATTTATTTT
1 ATATAAATAATTAAATTTATTTC
652336 AT-TAAATAAATT-AATTTA
1 ATATAAAT-AATTAAATTTA
652354 ATATAACTGA
Statistics
Matches: 39, Mismatches: 1, Indels: 6
0.85 0.02 0.13
Matches are distributed among these distances:
22 11 0.28
23 10 0.26
26 18 0.46
ACGTcount: A:0.52, C:0.01, G:0.00, T:0.46
Consensus pattern (23 bp):
ATATAAATAATTAAATTTATTTC
Found at i:660608 original size:3 final size:3
Alignment explanation
Indices: 660600--660627 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
660590 TAAGTGCATC
660600 ATA ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA A
660628 AAGACTTAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:664312 original size:18 final size:18
Alignment explanation
Indices: 664289--664323 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
664279 AGATTTTGAT
*
664289 TTGTTTATTTTATTATTG
1 TTGTTTATATTATTATTG
664307 TTGTTTATATTATTATT
1 TTGTTTATATTATTATT
664324 ATTTATTTAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.20, C:0.00, G:0.09, T:0.71
Consensus pattern (18 bp):
TTGTTTATATTATTATTG
Found at i:664317 original size:15 final size:15
Alignment explanation
Indices: 664293--664337 Score: 58
Period size: 15 Copynumber: 3.1 Consensus size: 15
664283 TTTGATTTGT
*
664293 TTATTT-TATTATTG
1 TTATTTATATTATTA
*
664307 TTGTTTATATTATTA
1 TTATTTATATTATTA
664322 TTATTTAT-TTATTA
1 TTATTTATATTATTA
664336 TT
1 TT
664338 TAAATATATA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
14 13 0.48
15 14 0.52
ACGTcount: A:0.24, C:0.00, G:0.04, T:0.71
Consensus pattern (15 bp):
TTATTTATATTATTA
Found at i:664364 original size:16 final size:16
Alignment explanation
Indices: 664335--664368 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
664325 TTTATTTATT
*
664335 ATTTAAATATATATAA
1 ATTTAAATACATATAA
*
664351 ATTTAGATACATATAA
1 ATTTAAATACATATAA
664367 AT
1 AT
664369 GTAATTAAAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.53, C:0.03, G:0.03, T:0.41
Consensus pattern (16 bp):
ATTTAAATACATATAA
Found at i:664449 original size:28 final size:28
Alignment explanation
Indices: 664418--664482 Score: 73
Period size: 28 Copynumber: 2.3 Consensus size: 28
664408 ATATAAACAA
664418 ATATATA-AAATAA-ATATACATTATATAT
1 ATATATATAAATAATATATAC-TTA-ATAT
*
664446 ATATATATAACTAATTATATACTTAATAT
1 ATATATATAAATAA-TATATACTTAATAT
664475 AT-TATATA
1 ATATATATA
664483 CTTAATGTCA
Statistics
Matches: 33, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
28 13 0.39
29 11 0.33
30 3 0.09
31 6 0.18
ACGTcount: A:0.52, C:0.05, G:0.00, T:0.43
Consensus pattern (28 bp):
ATATATATAAATAATATATACTTAATAT
Found at i:664478 original size:16 final size:16
Alignment explanation
Indices: 664431--664488 Score: 61
Period size: 16 Copynumber: 3.7 Consensus size: 16
664421 TATAAAATAA
664431 ATATACATT-ATATA-T
1 ATATAC-TTAATATATT
664446 ATATA-TATAACTA-ATT
1 ATATACT-TAA-TATATT
664462 ATATACTTAATATATT
1 ATATACTTAATATATT
664478 ATATACTTAAT
1 ATATACTTAAT
664489 GTCATATTTT
Statistics
Matches: 37, Mismatches: 0, Indels: 11
0.77 0.00 0.23
Matches are distributed among these distances:
13 1 0.03
14 1 0.03
15 9 0.24
16 25 0.68
17 1 0.03
ACGTcount: A:0.47, C:0.07, G:0.00, T:0.47
Consensus pattern (16 bp):
ATATACTTAATATATT
Found at i:672508 original size:18 final size:18
Alignment explanation
Indices: 672485--672521 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
672475 GCAACAACAA
672485 ATTAAAATCACCATATGC
1 ATTAAAATCACCATATGC
672503 ATTAAAATCACCATATGC
1 ATTAAAATCACCATATGC
672521 A
1 A
672522 CCTTTAAGCT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.46, C:0.22, G:0.05, T:0.27
Consensus pattern (18 bp):
ATTAAAATCACCATATGC
Found at i:676870 original size:66 final size:66
Alignment explanation
Indices: 676764--676892 Score: 204
Period size: 66 Copynumber: 2.0 Consensus size: 66
676754 AGGCATCACC
* *
676764 GCACAATTGGAGCACAAAGCCTCCAGCCTATGATGTTTAAATAAAGGGCATCTTTGTTTGAAATT
1 GCACAATTGGAGCACAAAGCCTCCAGCCTATGATGGTTAAATAAAGGGCATCTTTCTTTGAAATT
676829 T
66 T
* ** *
676830 GCACAATTTGAGCACAAAGCCTTGAGCCTATGATGGTTAAATAAAGGGCTTCTTTCTTTGAAA
1 GCACAATTGGAGCACAAAGCCTCCAGCCTATGATGGTTAAATAAAGGGCATCTTTCTTTGAAA
676893 GTTGTAAACC
Statistics
Matches: 57, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
66 57 1.00
ACGTcount: A:0.32, C:0.18, G:0.20, T:0.30
Consensus pattern (66 bp):
GCACAATTGGAGCACAAAGCCTCCAGCCTATGATGGTTAAATAAAGGGCATCTTTCTTTGAAATT
T
Found at i:680579 original size:22 final size:22
Alignment explanation
Indices: 680540--680581 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
680530 CTATAAAAGA
*
680540 TAAAAGTTGACATCAACAGAGT
1 TAAAAGTTGACATAAACAGAGT
680562 TAAAAGTTGA-ATTAAACAGA
1 TAAAAGTTGACA-TAAACAGA
680582 CTATCGAATG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 1 0.06
22 17 0.94
ACGTcount: A:0.50, C:0.10, G:0.17, T:0.24
Consensus pattern (22 bp):
TAAAAGTTGACATAAACAGAGT
Found at i:681558 original size:2 final size:2
Alignment explanation
Indices: 681551--681588 Score: 60
Period size: 2 Copynumber: 19.0 Consensus size: 2
681541 ACTATTTAAA
681551 AG AG AG AG AG AG AG AG AG AG AG AG AG AG CA- AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG -AG AG AG AG AG
681589 CAAAAAGTAG
Statistics
Matches: 34, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
1 1 0.03
2 32 0.94
3 1 0.03
ACGTcount: A:0.50, C:0.03, G:0.47, T:0.00
Consensus pattern (2 bp):
AG
Found at i:683087 original size:12 final size:12
Alignment explanation
Indices: 683070--683102 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
683060 CAATTTTCGT
683070 ATTTAATTTTAA
1 ATTTAATTTTAA
*
683082 ATTTAAATTTAA
1 ATTTAATTTTAA
683094 A-TTAATTTT
1 ATTTAATTTT
683103 TTTAATTAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
11 7 0.37
12 12 0.63
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (12 bp):
ATTTAATTTTAA
Found at i:685647 original size:20 final size:21
Alignment explanation
Indices: 685600--685647 Score: 55
Period size: 20 Copynumber: 2.3 Consensus size: 21
685590 GCTTGTTTAC
685600 TTTAAAAAAATAATAATAA-T
1 TTTAAAAAAATAATAATAATT
* *
685620 TTGAAAAAAA-AAAAGATAATT
1 TTTAAAAAAATAATA-ATAATT
685641 TTTAAAA
1 TTTAAAA
685648 TTTTATTATT
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
19 3 0.13
20 13 0.57
21 7 0.30
ACGTcount: A:0.65, C:0.00, G:0.04, T:0.31
Consensus pattern (21 bp):
TTTAAAAAAATAATAATAATT
Found at i:690182 original size:15 final size:18
Alignment explanation
Indices: 690162--690200 Score: 57
Period size: 15 Copynumber: 2.3 Consensus size: 18
690152 TTTTATTTTT
690162 TTAAAAAA-AT-TAAA-A
1 TTAAAAAATATATAAATA
690177 TTAAAAAATATATAAATA
1 TTAAAAAATATATAAATA
690195 TTAAAA
1 TTAAAA
690201 TTAAAATTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
15 8 0.38
16 2 0.10
17 4 0.19
18 7 0.33
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (18 bp):
TTAAAAAATATATAAATA
Found at i:690686 original size:20 final size:21
Alignment explanation
Indices: 690661--690705 Score: 65
Period size: 21 Copynumber: 2.2 Consensus size: 21
690651 ATATATTTTA
690661 TTAAATA-AAATTTAAATATT
1 TTAAATATAAATTTAAATATT
* *
690681 TTAAATATTAATTTAATTATT
1 TTAAATATAAATTTAAATATT
690702 TTAA
1 TTAA
690706 TTTATTTAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 7 0.32
21 15 0.68
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (21 bp):
TTAAATATAAATTTAAATATT
Found at i:696121 original size:25 final size:24
Alignment explanation
Indices: 696084--696132 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 24
696074 TATAACTCTC
* *
696084 AAAGAACTCTTTAAATATATTAAA
1 AAAGAACTCTTTAAAAAAATTAAA
*
696108 AAAGAACTTTTTTAAAAAAATTAAA
1 AAAGAAC-TCTTTAAAAAAATTAAA
696133 TATAATCATA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
24 7 0.33
25 14 0.67
ACGTcount: A:0.57, C:0.06, G:0.04, T:0.33
Consensus pattern (24 bp):
AAAGAACTCTTTAAAAAAATTAAA
Found at i:698447 original size:2 final size:2
Alignment explanation
Indices: 698434--698479 Score: 65
Period size: 2 Copynumber: 23.0 Consensus size: 2
698424 GGAATAATAC
* * *
698434 AT AT AC AT AT AT AT AT AT AT AG AT AT AT AT AT GT 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
698476 AT AT
1 AT AT
698480 TTGGGGATCA
Statistics
Matches: 38, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.48, C:0.02, G:0.04, T:0.46
Consensus pattern (2 bp):
AT
Found at i:699071 original size:16 final size:16
Alignment explanation
Indices: 699045--699087 Score: 54
Period size: 16 Copynumber: 2.8 Consensus size: 16
699035 TATAAAATAA
699045 AAATTAA-TTAAT-TT
1 AAATTAATTTAATCTT
699059 AAATTTAATTTAATCTT
1 AAA-TTAATTTAATCTT
*
699076 AAAATAATTTAA
1 AAATTAATTTAA
699088 ACACCATAAC
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
14 3 0.12
15 4 0.16
16 13 0.52
17 5 0.20
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (16 bp):
AAATTAATTTAATCTT
Found at i:699759 original size:20 final size:18
Alignment explanation
Indices: 699731--699780 Score: 64
Period size: 20 Copynumber: 2.7 Consensus size: 18
699721 ACATAAATTT
699731 TTATATTTTTATATCATA
1 TTATATTTTTATATCATA
* *
699749 TATATTATTTTTTTATTATA
1 T-TA-TATTTTTATATCATA
699769 TTATATTTTTAT
1 TTATATTTTTAT
699781 TAATTTTCTT
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
18 9 0.33
19 4 0.15
20 14 0.52
ACGTcount: A:0.30, C:0.02, G:0.00, T:0.68
Consensus pattern (18 bp):
TTATATTTTTATATCATA
Found at i:699767 original size:3 final size:3
Alignment explanation
Indices: 699751--699838 Score: 87
Period size: 3 Copynumber: 30.0 Consensus size: 3
699741 ATATCATATA
* * *
699751 TAT TAT T-T TTT TAT TA- TAT TA- TAT TTT TAT TAAT T-T TCT TCAAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T-AT TAT TAT T--AT
699795 T-T TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
699839 AATATTTTTC
Statistics
Matches: 73, Mismatches: 4, Indels: 16
0.78 0.04 0.17
Matches are distributed among these distances:
2 10 0.14
3 58 0.79
4 3 0.04
5 2 0.03
ACGTcount: A:0.30, C:0.02, G:0.00, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:700261 original size:20 final size:20
Alignment explanation
Indices: 700227--700267 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 20
700217 AATTAAATAT
*
700227 TTTTTATTTATAAAAATATTA
1 TTTTTATTTAGAAAAAT-TTA
700248 TTTTTA-TTAGAAAAATTTA
1 TTTTTATTTAGAAAAATTTA
700267 T
1 T
700268 CCATTTTACA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
19 4 0.21
20 9 0.47
21 6 0.32
ACGTcount: A:0.41, C:0.00, G:0.02, T:0.56
Consensus pattern (20 bp):
TTTTTATTTAGAAAAATTTA
Found at i:701880 original size:25 final size:25
Alignment explanation
Indices: 701829--701880 Score: 61
Period size: 25 Copynumber: 2.1 Consensus size: 25
701819 TTAATAGAAA
* * *
701829 TAATTATATCATATTTATATTTTTT
1 TAATTATATCATATTGATATCTATT
701854 TAATTAATAT-ATATTGATATCTATT
1 TAATT-ATATCATATTGATATCTATT
701879 TA
1 TA
701881 TTTTAACAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
25 19 0.83
26 4 0.17
ACGTcount: A:0.37, C:0.04, G:0.02, T:0.58
Consensus pattern (25 bp):
TAATTATATCATATTGATATCTATT
Found at i:701931 original size:5 final size:5
Alignment explanation
Indices: 701921--701955 Score: 63
Period size: 5 Copynumber: 7.2 Consensus size: 5
701911 TTTTTAAAAT
701921 ATTAA ATTAA ATTAA ATTAA ATTAA ATT-A ATTAA A
1 ATTAA ATTAA ATTAA ATTAA ATTAA ATTAA ATTAA A
701956 AAATCTTTAT
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
4 4 0.14
5 25 0.86
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (5 bp):
ATTAA
Found at i:702095 original size:14 final size:14
Alignment explanation
Indices: 702076--702102 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
702066 CAATAGAATT
702076 ATTATATTTGATTC
1 ATTATATTTGATTC
702090 ATTATATTTGATT
1 ATTATATTTGATT
702103 TATTTAAATT
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:0.30, C:0.04, G:0.07, T:0.59
Consensus pattern (14 bp):
ATTATATTTGATTC
Found at i:702215 original size:16 final size:17
Alignment explanation
Indices: 702185--702234 Score: 50
Period size: 16 Copynumber: 3.1 Consensus size: 17
702175 TTTTAAATAG
* *
702185 AATTAATTAAATAAATT
1 AATTATTTAATTAAATT
*
702202 AA-TATTTAATTAAA-A
1 AATTATTTAATTAAATT
*
702217 AATTATTAAATTAAATT
1 AATTATTTAATTAAATT
702234 A
1 A
702235 GTTAAATTTT
Statistics
Matches: 26, Mismatches: 5, Indels: 4
0.74 0.14 0.11
Matches are distributed among these distances:
15 2 0.08
16 21 0.81
17 3 0.12
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (17 bp):
AATTATTTAATTAAATT
Found at i:703416 original size:3 final size:3
Alignment explanation
Indices: 703408--703450 Score: 77
Period size: 3 Copynumber: 14.3 Consensus size: 3
703398 GGAATCGGAG
*
703408 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAT GAA GAA GAA GAA G
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA G
703451 GCAGCCATGG
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 38 1.00
ACGTcount: A:0.63, C:0.00, G:0.35, T:0.02
Consensus pattern (3 bp):
GAA
Found at i:703845 original size:27 final size:28
Alignment explanation
Indices: 703794--703880 Score: 81
Period size: 27 Copynumber: 3.1 Consensus size: 28
703784 GGTGAAATCC
* *
703794 ATTTGAGTTTAA-TTCAAATAGTAA-TAA
1 ATTTGAGTTTAATTTAAAAT-TTAATTAA
**
703821 ATTTGAGTTTAATTTAAAATTTAATTGG
1 ATTTGAGTTTAATTTAAAATTTAATTAA
703849 A-TTGAGTTTTATATTTAAAATTATAATTAA
1 ATTTGAG-TTTA-ATTTAAAATT-TAATTAA
703879 AT
1 AT
703881 AAAAAGTTAA
Statistics
Matches: 48, Mismatches: 6, Indels: 8
0.77 0.10 0.13
Matches are distributed among these distances:
27 20 0.42
28 12 0.25
29 10 0.21
30 6 0.12
ACGTcount: A:0.41, C:0.01, G:0.10, T:0.47
Consensus pattern (28 bp):
ATTTGAGTTTAATTTAAAATTTAATTAA
Found at i:703975 original size:20 final size:19
Alignment explanation
Indices: 703933--703993 Score: 70
Period size: 19 Copynumber: 3.2 Consensus size: 19
703923 TAAAAATAAA
* *
703933 TTTAATTTTTATTATTAAT
1 TTTAAATTTAATTATTAAT
*
703952 TTTAAATTTAATTATTTAT
1 TTTAAATTTAATTATTAAT
703971 GTTTAAATTTAAATTA-TAAT
1 -TTTAAATTT-AATTATTAAT
703991 TTT
1 TTT
703994 TTAATATTAA
Statistics
Matches: 36, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
19 19 0.53
20 12 0.33
21 5 0.14
ACGTcount: A:0.36, C:0.00, G:0.02, T:0.62
Consensus pattern (19 bp):
TTTAAATTTAATTATTAAT
Found at i:704005 original size:26 final size:25
Alignment explanation
Indices: 703929--704005 Score: 77
Period size: 26 Copynumber: 3.0 Consensus size: 25
703919 TTAATAAAAA
*
703929 TAAATTTAA-TTTTTATTATTAATTT
1 TAAATTTAATTTTTTAATATTAA-TT
* *
703954 TAAATTTAATTATTT-ATGTTTAAATT
1 TAAATTTAATTTTTTAAT-ATT-AATT
703980 TAAATTATAATTTTTTAATATTAATT
1 TAAATT-TAATTTTTTAATATTAATT
704006 AAAAATAAAA
Statistics
Matches: 42, Mismatches: 5, Indels: 9
0.75 0.09 0.16
Matches are distributed among these distances:
25 10 0.24
26 18 0.43
27 12 0.29
28 2 0.05
ACGTcount: A:0.39, C:0.00, G:0.01, T:0.60
Consensus pattern (25 bp):
TAAATTTAATTTTTTAATATTAATT
Found at i:704021 original size:21 final size:20
Alignment explanation
Indices: 703996--704041 Score: 60
Period size: 19 Copynumber: 2.3 Consensus size: 20
703986 ATAATTTTTT
703996 AATATTAATTAAAAA-T-AAA
1 AATATT-ATTAAAAATTAAAA
704015 AATATATATTAAAAATTAAAA
1 AATAT-TATTAAAAATTAAAA
704036 AATATT
1 AATATT
704042 CATAAATTAT
Statistics
Matches: 24, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
19 13 0.54
20 3 0.12
21 8 0.33
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (20 bp):
AATATTATTAAAAATTAAAA
Found at i:709679 original size:2 final size:2
Alignment explanation
Indices: 709672--709699 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
709662 CCAAGACTCT
709672 GA GA GA GA GA GA GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA
709700 CCCTTTCCTT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
GA
Found at i:709745 original size:21 final size:21
Alignment explanation
Indices: 709703--709745 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
709693 AGAGAGACCC
* * * *
709703 TTTCCTTATTTTTCTTTTTTT
1 TTTCCTAATTATTATTTATTT
709724 TTTCCTAATTATTATTTATTT
1 TTTCCTAATTATTATTTATTT
709745 T
1 T
709746 GATTTTGCCT
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.14, C:0.12, G:0.00, T:0.74
Consensus pattern (21 bp):
TTTCCTAATTATTATTTATTT
Found at i:711331 original size:5 final size:5
Alignment explanation
Indices: 711321--711345 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
711311 AATATTTTTA
711321 TTAAT TTAAT TTAAT TTAAT TTAAT
1 TTAAT TTAAT TTAAT TTAAT TTAAT
711346 ATTTAAATAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (5 bp):
TTAAT
Found at i:711332 original size:42 final size:47
Alignment explanation
Indices: 711280--711384 Score: 114
Period size: 42 Copynumber: 2.3 Consensus size: 47
711270 AAAAATTGAA
*
711280 TAATTCAATTTAAATTAAATTAAAT-TTTAAA-AAT-A-TTTTTA-T
1 TAATTTAATTTAAATTAAATTAAATATTTAAATAATAATTTTTTATT
* *
711322 TAATTTAATTT-AATTTAATTTAATATTTAAATAATAAATTTTTTATT
1 TAATTTAATTTAAATTAAATTAAATATTTAAATAAT-AATTTTTTATT
711369 TAAATTTAATTATAAA
1 T-AATTTAATT-TAAA
711385 AATATATTTT
Statistics
Matches: 51, Mismatches: 3, Indels: 10
0.80 0.05 0.16
Matches are distributed among these distances:
41 11 0.22
42 16 0.31
43 3 0.06
45 1 0.02
46 6 0.12
47 2 0.04
48 9 0.18
49 1 0.02
50 2 0.04
ACGTcount: A:0.47, C:0.01, G:0.00, T:0.52
Consensus pattern (47 bp):
TAATTTAATTTAAATTAAATTAAATATTTAAATAATAATTTTTTATT
Found at i:711397 original size:30 final size:33
Alignment explanation
Indices: 711334--711402 Score: 92
Period size: 30 Copynumber: 2.2 Consensus size: 33
711324 ATTTAATTTA
*
711334 ATTT-AATTTAATATTTAAATAATAAATTTTTT
1 ATTTAAATTTAATATATAAATAATAAATTTTTT
*
711366 ATTTAAATTTAAT-TATAAA-AATATA-TTTTT
1 ATTTAAATTTAATATATAAATAATAAATTTTTT
711396 ATTTAAA
1 ATTTAAA
711403 CAGACCAAAG
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
30 12 0.35
31 5 0.15
32 9 0.26
33 8 0.24
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (33 bp):
ATTTAAATTTAATATATAAATAATAAATTTTTT
Found at i:711692 original size:2 final size:2
Alignment explanation
Indices: 711685--711731 Score: 94
Period size: 2 Copynumber: 23.5 Consensus size: 2
711675 AATTTTCAAG
711685 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
711727 TC TC T
1 TC TC T
711732 ATATATATAT
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 45 1.00
ACGTcount: A:0.00, C:0.49, G:0.00, T:0.51
Consensus pattern (2 bp):
TC
Found at i:711736 original size:2 final size:2
Alignment explanation
Indices: 711731--711761 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
711721 TCTCTCTCTC
711731 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 T
711762 TCGAAACTTT
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:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:712190 original size:19 final size:20
Alignment explanation
Indices: 712143--712197 Score: 64
Period size: 18 Copynumber: 3.0 Consensus size: 20
712133 GACATTACAA
*
712143 ATTTATAT-ATATATAT-TT
1 ATTTATATCATATTTATATT
712161 ATTTATATCATATTTATATT
1 ATTTATATCATATTTATATT
*
712181 ATTT-TTTCATA-TTATAT
1 ATTTATATCATATTTATAT
712198 GTAATTAAGA
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
18 14 0.42
19 13 0.39
20 6 0.18
ACGTcount: A:0.35, C:0.04, G:0.00, T:0.62
Consensus pattern (20 bp):
ATTTATATCATATTTATATT
Found at i:712192 original size:24 final size:25
Alignment explanation
Indices: 712150--712197 Score: 64
Period size: 24 Copynumber: 2.0 Consensus size: 25
712140 CAAATTTATA
712150 TATATATATTTATTTATATCATATT
1 TATATATATTTATTTATATCATATT
*
712175 TATAT-TATTT-TTTCATATTATAT
1 TATATATATTTATTT-ATATCATAT
712198 GTAATTAAGA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
23 3 0.14
24 13 0.62
25 5 0.24
ACGTcount: A:0.33, C:0.04, G:0.00, T:0.62
Consensus pattern (25 bp):
TATATATATTTATTTATATCATATT
Found at i:714074 original size:20 final size:19
Alignment explanation
Indices: 714038--714082 Score: 58
Period size: 19 Copynumber: 2.4 Consensus size: 19
714028 ATATTTTAAT
714038 TAAATTTAATTATAAAATA
1 TAAATTTAATTATAAAATA
714057 TAAATATTAA-TATAAAA-A
1 TAAAT-TTAATTATAAAATA
714075 TAATATTT
1 TAA-ATTT
714083 TATTTTTTGT
Statistics
Matches: 24, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
18 6 0.25
19 14 0.58
20 4 0.17
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (19 bp):
TAAATTTAATTATAAAATA
Found at i:714588 original size:2 final size:2
Alignment explanation
Indices: 714581--714624 Score: 74
Period size: 2 Copynumber: 23.0 Consensus size: 2
714571 AATACTGAAG
714581 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A- AT AT A-
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
714621 AT AT
1 AT AT
714625 GTGCATGCAC
Statistics
Matches: 40, Mismatches: 0, Indels: 4
0.91 0.00 0.09
Matches are distributed among these distances:
1 2 0.05
2 38 0.95
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:719301 original size:25 final size:25
Alignment explanation
Indices: 719266--719313 Score: 87
Period size: 25 Copynumber: 1.9 Consensus size: 25
719256 ATTTTATGAA
719266 TTAATAAACTTAAACTTTAAATTTT
1 TTAATAAACTTAAACTTTAAATTTT
*
719291 TTAATACACTTAAACTTTAAATT
1 TTAATAAACTTAAACTTTAAATT
719314 AAAAAAAAAG
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.44, C:0.10, G:0.00, T:0.46
Consensus pattern (25 bp):
TTAATAAACTTAAACTTTAAATTTT
Found at i:720828 original size:2 final size:2
Alignment explanation
Indices: 720823--720852 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
720813 ACACACACAC
720823 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
720853 TTCTGCAGGT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:721243 original size:14 final size:14
Alignment explanation
Indices: 721224--721250 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
721214 TTATTGTTTA
721224 TAAATTTAAATAAT
1 TAAATTTAAATAAT
721238 TAAATTTAAATAA
1 TAAATTTAAATAA
721251 AAATATTTTA
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:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (14 bp):
TAAATTTAAATAAT
Found at i:721980 original size:2 final size:2
Alignment explanation
Indices: 721973--722011 Score: 60
Period size: 2 Copynumber: 19.0 Consensus size: 2
721963 CTGTCAAATC
*
721973 TA TA TA TA TA TA TA TA TA TA AA GTA 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
722012 AAGCTGCAAA
Statistics
Matches: 34, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
2 33 0.97
3 1 0.03
ACGTcount: A:0.51, C:0.00, G:0.03, T:0.46
Consensus pattern (2 bp):
TA
Found at i:722001 original size:19 final size:19
Alignment explanation
Indices: 721977--722014 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
721967 CAAATCTATA
721977 TATATATATATATATAAAG
1 TATATATATATATATAAAG
721996 TATATATATATATATAAAG
1 TATATATATATATATAAAG
722015 CTGCAAATCA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.53, C:0.00, G:0.05, T:0.42
Consensus pattern (19 bp):
TATATATATATATATAAAG
Found at i:723192 original size:31 final size:32
Alignment explanation
Indices: 723118--723192 Score: 75
Period size: 31 Copynumber: 2.4 Consensus size: 32
723108 TAAAAATTAA
* * *
723118 AAATATTATTTTTATATTAATATTTTTATTTT
1 AAATATTAATTTTATATAAATATTTTTATATT
*
723150 ATAAT-TAAATTTTATA-AAATA-TTTTACTATT
1 A-AATATTAATTTTATATAAATATTTTTA-TATT
723181 AAATATTAATTT
1 AAATATTAATTT
723193 AAATTAAATT
Statistics
Matches: 35, Mismatches: 5, Indels: 7
0.74 0.11 0.15
Matches are distributed among these distances:
30 8 0.23
31 14 0.40
32 10 0.29
33 3 0.09
ACGTcount: A:0.41, C:0.01, G:0.00, T:0.57
Consensus pattern (32 bp):
AAATATTAATTTTATATAAATATTTTTATATT
Found at i:724137 original size:2 final size:2
Alignment explanation
Indices: 724130--724171 Score: 66
Period size: 2 Copynumber: 21.0 Consensus size: 2
724120 TGTTCTAAAG
* *
724130 AT AT AT AT AT AT AT AT AT AT CT AT AT AT AT AT AT AT TT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
724172 TGTTAGCTAG
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.45, C:0.02, G:0.00, T:0.52
Consensus pattern (2 bp):
AT
Found at i:726411 original size:45 final size:45
Alignment explanation
Indices: 726326--726412 Score: 104
Period size: 45 Copynumber: 1.9 Consensus size: 45
726316 GCAAAATCAA
* *
726326 TTTTATAAATAAATTTTATATAAATATATTATATTGATATTATTT
1 TTTTATAAATAAATTTTATATAAATAAATTATAATGATATTATTT
* * * *
726371 TTTTATAATTAAATTTATATTTATATAAATTTTAAT-ATATTA
1 TTTTATAAATAAATTT-TATATAAATAAATTATAATGATATTA
726413 ATAATTTATA
Statistics
Matches: 35, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
45 21 0.60
46 14 0.40
ACGTcount: A:0.43, C:0.00, G:0.01, T:0.56
Consensus pattern (45 bp):
TTTTATAAATAAATTTTATATAAATAAATTATAATGATATTATTT
Found at i:726494 original size:28 final size:29
Alignment explanation
Indices: 726437--726495 Score: 68
Period size: 28 Copynumber: 2.1 Consensus size: 29
726427 GTTAATTTAT
* *
726437 TTTTATTAATATTATTTTATTTTAATTAA
1 TTTTATTAATATTATATTATTATAATTAA
*
726466 TTTT-TTAATATTATATT-TTATCATCTAA
1 TTTTATTAATATTATATTATTATAAT-TAA
726494 TT
1 TT
726496 ATATCATATT
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
27 5 0.19
28 17 0.65
29 4 0.15
ACGTcount: A:0.32, C:0.03, G:0.00, T:0.64
Consensus pattern (29 bp):
TTTTATTAATATTATATTATTATAATTAA
Found at i:726869 original size:12 final size:13
Alignment explanation
Indices: 726845--726882 Score: 51
Period size: 13 Copynumber: 3.0 Consensus size: 13
726835 TAAAATGGTA
726845 ATTTATATATTTT
1 ATTTATATATTTT
726858 ATTTAT-TATTTT
1 ATTTATATATTTT
**
726870 AAATATATATTTT
1 ATTTATATATTTT
726883 CACTGTATAT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
12 10 0.45
13 12 0.55
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (13 bp):
ATTTATATATTTT
Found at i:727550 original size:17 final size:17
Alignment explanation
Indices: 727514--727553 Score: 55
Period size: 17 Copynumber: 2.4 Consensus size: 17
727504 TATCGATCTT
727514 TTAAAATTTAATAAATA
1 TTAAAATTTAATAAATA
*
727531 TTAAATTTTAAT-AATAA
1 TTAAAATTTAATAAAT-A
727548 TTAAAA
1 TTAAAA
727554 ATCTATTAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
16 3 0.15
17 17 0.85
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.42
Consensus pattern (17 bp):
TTAAAATTTAATAAATA
Found at i:729619 original size:5 final size:6
Alignment explanation
Indices: 729601--729625 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
729591 ACTTAAAACC
729601 AATAAA AATAAA AATAAA AATAAA A
1 AATAAA AATAAA AATAAA AATAAA A
729626 GAATTTGAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.84, C:0.00, G:0.00, T:0.16
Consensus pattern (6 bp):
AATAAA
Found at i:732055 original size:16 final size:16
Alignment explanation
Indices: 732036--732083 Score: 53
Period size: 16 Copynumber: 3.0 Consensus size: 16
732026 TTATTTTATC
732036 TAAATTTTTATTATTT
1 TAAATTTTTATTATTT
* *
732052 TAAATATATATT-TTT
1 TAAATTTTTATTATTT
*
732067 TAATATTTTAATTATTT
1 TAA-ATTTTTATTATTT
732084 CCAACACCTT
Statistics
Matches: 25, Mismatches: 5, Indels: 3
0.76 0.15 0.09
Matches are distributed among these distances:
15 6 0.24
16 16 0.64
17 3 0.12
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (16 bp):
TAAATTTTTATTATTT
Found at i:732657 original size:28 final size:27
Alignment explanation
Indices: 732590--732667 Score: 88
Period size: 28 Copynumber: 2.9 Consensus size: 27
732580 TAATTTAATT
*
732590 AAAATTTATTAAAATAGTTTATTAAATA
1 AAAATTTA-TAAAATAATTTATTAAATA
*
732618 AAAGATTAATAAAATAATTTATTAAATA
1 AAA-ATTTATAAAATAATTTATTAAATA
*
732646 ATTAATTTATAAAA-AA-TTATTA
1 A-AAATTTATAAAATAATTTATTA
732668 GTCTTTTATT
Statistics
Matches: 44, Mismatches: 4, Indels: 6
0.81 0.07 0.11
Matches are distributed among these distances:
26 6 0.14
27 2 0.05
28 31 0.70
29 5 0.11
ACGTcount: A:0.56, C:0.00, G:0.03, T:0.41
Consensus pattern (27 bp):
AAAATTTATAAAATAATTTATTAAATA
Found at i:732663 original size:15 final size:16
Alignment explanation
Indices: 732622--732664 Score: 54
Period size: 15 Copynumber: 2.8 Consensus size: 16
732612 TAAATAAAAG
732622 ATTAATAAAA-TAATTT
1 ATTAA-AAAATTAATTT
*
732638 ATTAAATAATTAATTT
1 ATTAAAAAATTAATTT
732654 A-TAAAAAATTA
1 ATTAAAAAATTA
732665 TTAGTCTTTT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
15 12 0.50
16 12 0.50
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (16 bp):
ATTAAAAAATTAATTT
Found at i:733124 original size:15 final size:16
Alignment explanation
Indices: 733099--733146 Score: 62
Period size: 15 Copynumber: 2.9 Consensus size: 16
733089 TTCAAAAAAA
*
733099 AAAATTATAAATATTT
1 AAAATTTTAAATATTT
733115 -AAATTTTAAATATTTT
1 AAAATTTTAAATA-TTT
733131 AAATATTTTAAATATT
1 AAA-ATTTTAAATATT
733147 ATTTTATAAA
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
15 11 0.39
16 3 0.11
17 4 0.14
18 10 0.36
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (16 bp):
AAAATTTTAAATATTT
Found at i:733131 original size:9 final size:9
Alignment explanation
Indices: 733106--733146 Score: 61
Period size: 9 Copynumber: 4.9 Consensus size: 9
733096 AAAAAAATTA
733106 TAAATA-TT
1 TAAATATTT
733114 T-AA-ATTT
1 TAAATATTT
733121 TAAATATTT
1 TAAATATTT
733130 TAAATATTT
1 TAAATATTT
733139 TAAATATT
1 TAAATATT
733147 ATTTTATAAA
Statistics
Matches: 30, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
6 1 0.03
7 5 0.17
8 3 0.10
9 21 0.70
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (9 bp):
TAAATATTT
Found at i:733140 original size:18 final size:16
Alignment explanation
Indices: 733100--733146 Score: 60
Period size: 18 Copynumber: 2.9 Consensus size: 16
733090 TCAAAAAAAA
*
733100 AAATTATAAATA-TTT
1 AAATTTTAAATATTTT
733115 AAATTTTAAATATTTT
1 AAATTTTAAATATTTT
733131 AAATATTTTAAATATT
1 -AA-ATTTTAAATATT
733147 ATTTTATAAA
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
15 11 0.39
16 3 0.11
17 2 0.07
18 12 0.43
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (16 bp):
AAATTTTAAATATTTT
Found at i:733923 original size:2 final size:2
Alignment explanation
Indices: 733916--733944 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
733906 AAGGCACATG
733916 GA GA GA GA GA GA GA GA GA GA GA GA GA GA G
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA G
733945 GGGCTCCCTA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.52, T:0.00
Consensus pattern (2 bp):
GA
Found at i:735547 original size:2 final size:2
Alignment explanation
Indices: 735540--735567 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
735530 TTGTAATTAC
735540 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
735568 CATTGAGTAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:738773 original size:2 final size:2
Alignment explanation
Indices: 738766--738817 Score: 86
Period size: 2 Copynumber: 26.0 Consensus size: 2
738756 TCCTGTGAAC
738766 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
* *
738808 GT AA AT AT AT
1 AT AT AT AT AT
738818 TATCCATAAG
Statistics
Matches: 46, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
2 46 1.00
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (2 bp):
AT
Found at i:748215 original size:26 final size:26
Alignment explanation
Indices: 748186--748237 Score: 104
Period size: 26 Copynumber: 2.0 Consensus size: 26
748176 AACTTGAAAG
748186 CCATCTTTCTAATTCAAATCATGAAT
1 CCATCTTTCTAATTCAAATCATGAAT
748212 CCATCTTTCTAATTCAAATCATGAAT
1 CCATCTTTCTAATTCAAATCATGAAT
748238 ATGTTAAACG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.35, C:0.23, G:0.04, T:0.38
Consensus pattern (26 bp):
CCATCTTTCTAATTCAAATCATGAAT
Found at i:748708 original size:2 final size:2
Alignment explanation
Indices: 748703--748736 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
748693 AAAAAATGTT
748703 TA TA TA 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
748737 CACACACACG
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:752810 original size:17 final size:18
Alignment explanation
Indices: 752789--752828 Score: 55
Period size: 18 Copynumber: 2.3 Consensus size: 18
752779 TAAAATTAAA
*
752789 ATAATATTTTA-ATTTAT
1 ATAATAATTTATATTTAT
*
752806 TTAATAATTTATATTTAT
1 ATAATAATTTATATTTAT
752824 ATAAT
1 ATAAT
752829 TAATAAAAAA
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
17 9 0.47
18 10 0.53
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.57
Consensus pattern (18 bp):
ATAATAATTTATATTTAT
Found at i:753189 original size:3 final size:3
Alignment explanation
Indices: 753183--753214 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
753173 TGATGAAGAC
753183 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
753215 AACTACTAAT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:755607 original size:17 final size:17
Alignment explanation
Indices: 755561--755607 Score: 53
Period size: 17 Copynumber: 2.7 Consensus size: 17
755551 ATTGCAAATA
755561 AATAAATAA-ATATAAT
1 AATAAATAATATATAAT
755577 ACATAAA-AATATATATAT
1 A-ATAAATAATATATA-AT
755595 GAATAAATAATAT
1 -AATAAATAATAT
755608 TTAAATATGA
Statistics
Matches: 26, Mismatches: 0, Indels: 7
0.79 0.00 0.21
Matches are distributed among these distances:
16 3 0.12
17 10 0.38
18 7 0.27
19 6 0.23
ACGTcount: A:0.64, C:0.02, G:0.02, T:0.32
Consensus pattern (17 bp):
AATAAATAATATATAAT
Found at i:756228 original size:2 final size:2
Alignment explanation
Indices: 756221--756261 Score: 82
Period size: 2 Copynumber: 20.5 Consensus size: 2
756211 TCCTTCTCTT
756221 TA TA TA TA 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 TA TA TA TA T
756262 TCAAGACCCT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:756774 original size:2 final size:2
Alignment explanation
Indices: 756769--756794 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
756759 AATTGCATGC
756769 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
756795 CTATGACGTG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:757481 original size:2 final size:2
Alignment explanation
Indices: 757476--757502 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
757466 TATATATATA
757476 TG TG TG TG TG TG TG TG TG TG TG TG TG T
1 TG TG TG TG TG TG TG TG TG TG TG TG TG T
757503 TTTTTTGTGT
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:0.00, C:0.00, G:0.48, T:0.52
Consensus pattern (2 bp):
TG
Found at i:763601 original size:21 final size:21
Alignment explanation
Indices: 763576--763631 Score: 55
Period size: 21 Copynumber: 2.8 Consensus size: 21
763566 AAAATAATAT
763576 AATATTTAAATTTAATTATAA
1 AATATTTAAATTTAATTATAA
* *
763597 AATATATAATTATTAA-TATAA
1 AATATTTAAAT-TTAATTATAA
*
763618 AA-A-TAAAATTTAAT
1 AATATTTAAATTTAAT
763632 AAGATAAATA
Statistics
Matches: 28, Mismatches: 5, Indels: 6
0.72 0.13 0.15
Matches are distributed among these distances:
18 4 0.14
19 3 0.11
20 1 0.04
21 16 0.57
22 4 0.14
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (21 bp):
AATATTTAAATTTAATTATAA
Found at i:763613 original size:22 final size:20
Alignment explanation
Indices: 763587--763627 Score: 55
Period size: 20 Copynumber: 1.9 Consensus size: 20
763577 ATATTTAAAT
*
763587 TTAATTATAAAATATATAATTA
1 TTAA-TATAAAA-ATAAAATTA
763609 TTAATATAAAAATAAAATT
1 TTAATATAAAAATAAAATT
763628 TAATAAGATA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 7 0.39
21 7 0.39
22 4 0.22
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (20 bp):
TTAATATAAAAATAAAATTA
Found at i:764595 original size:2 final size:2
Alignment explanation
Indices: 764588--764613 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
764578 AAAGTATTTA
764588 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
764614 TTGGATAATG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:764699 original size:15 final size:15
Alignment explanation
Indices: 764681--764723 Score: 86
Period size: 15 Copynumber: 2.9 Consensus size: 15
764671 TAATTTTAAA
764681 TATAATAAATATTAT
1 TATAATAAATATTAT
764696 TATAATAAATATTAT
1 TATAATAAATATTAT
764711 TATAATAAATATT
1 TATAATAAATATT
764724 GATAATAAAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 28 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (15 bp):
TATAATAAATATTAT
Found at i:764743 original size:30 final size:30
Alignment explanation
Indices: 764681--764751 Score: 76
Period size: 30 Copynumber: 2.4 Consensus size: 30
764671 TAATTTTAAA
* **
764681 TATAATAAATATTATTATAATAAATATTAT
1 TATAATAAATATTATAATAATAAATAAAAT
*
764711 TATAATAAATATTGATAATAA-AATTAAAAT
1 TATAATAAATATT-ATAATAATAAATAAAAT
764741 TAT--TAAATATT
1 TATAATAAATATT
764752 TTTTGTGTAT
Statistics
Matches: 36, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
28 8 0.22
30 22 0.61
31 6 0.17
ACGTcount: A:0.55, C:0.00, G:0.01, T:0.44
Consensus pattern (30 bp):
TATAATAAATATTATAATAATAAATAAAAT
Found at i:764797 original size:18 final size:16
Alignment explanation
Indices: 764783--764817 Score: 54
Period size: 15 Copynumber: 2.2 Consensus size: 16
764773 AAATTTAAAT
764783 AATTTTT-ATATTTTA
1 AATTTTTAATATTTTA
764798 AATTTTTAATATTTTGA
1 AATTTTTAATATTTT-A
764815 AAT
1 AAT
764818 CTTAAAATTT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
15 7 0.39
16 7 0.39
17 4 0.22
ACGTcount: A:0.37, C:0.00, G:0.03, T:0.60
Consensus pattern (16 bp):
AATTTTTAATATTTTA
Found at i:764822 original size:16 final size:17
Alignment explanation
Indices: 764790--764830 Score: 50
Period size: 16 Copynumber: 2.5 Consensus size: 17
764780 AATAATTTTT
*
764790 ATATTTT-AAATTTTTA
1 ATATTTTGAAATTCTTA
764806 ATATTTTGAAA-TCTTA
1 ATATTTTGAAATTCTTA
*
764822 AAATTTTGA
1 ATATTTTGA
764831 GAGACAGCCT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
16 19 0.86
17 3 0.14
ACGTcount: A:0.39, C:0.02, G:0.05, T:0.54
Consensus pattern (17 bp):
ATATTTTGAAATTCTTA
Found at i:765785 original size:2 final size:2
Alignment explanation
Indices: 765778--765827 Score: 86
Period size: 2 Copynumber: 26.0 Consensus size: 2
765768 ATCTGAATTC
765778 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT -T AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
765819 -T AT AT AT AT
1 AT AT AT AT AT
765828 TGCACTTCAA
Statistics
Matches: 46, Mismatches: 0, Indels: 4
0.92 0.00 0.08
Matches are distributed among these distances:
1 2 0.04
2 44 0.96
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
AT
Found at i:768336 original size:13 final size:12
Alignment explanation
Indices: 768305--768340 Score: 54
Period size: 12 Copynumber: 2.9 Consensus size: 12
768295 TATTCATTAA
768305 AAATAAAAAATT
1 AAATAAAAAATT
768317 AAATAAAAAATT
1 AAATAAAAAATT
*
768329 AATTTAAAAAAT
1 AA-ATAAAAAAT
768341 AATATTTAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
12 14 0.64
13 8 0.36
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (12 bp):
AAATAAAAAATT
Found at i:768441 original size:6 final size:6
Alignment explanation
Indices: 768430--768456 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
768420 TTGATCAATG
768430 ATGTGC ATGTGC ATGTGC ATGTGC ATG
1 ATGTGC ATGTGC ATGTGC ATGTGC ATG
768457 GCTGTTGAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.19, C:0.15, G:0.33, T:0.33
Consensus pattern (6 bp):
ATGTGC
Found at i:770279 original size:18 final size:18
Alignment explanation
Indices: 770258--770296 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
770248 TTCATGCAAC
770258 AATT-TTCAAGTCAAATTT
1 AATTGTTCAAGT-AAATTT
*
770276 AATTGTTTAAGTAAATTT
1 AATTGTTCAAGTAAATTT
770294 AAT
1 AAT
770297 ATTTTTATAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 13 0.68
19 6 0.32
ACGTcount: A:0.41, C:0.05, G:0.08, T:0.46
Consensus pattern (18 bp):
AATTGTTCAAGTAAATTT
Found at i:770303 original size:19 final size:20
Alignment explanation
Indices: 770259--770303 Score: 58
Period size: 19 Copynumber: 2.4 Consensus size: 20
770249 TCATGCAACA
*
770259 ATTTTCAAGTCAAATTTAAT
1 ATTTTTAAGTCAAATTTAAT
*
770279 -TGTTTAAGT-AAATTTAAT
1 ATTTTTAAGTCAAATTTAAT
770297 ATTTTTA
1 ATTTTTA
770304 TATTAGAGCT
Statistics
Matches: 21, Mismatches: 3, Indels: 3
0.78 0.11 0.11
Matches are distributed among these distances:
18 9 0.43
19 12 0.57
ACGTcount: A:0.38, C:0.04, G:0.07, T:0.51
Consensus pattern (20 bp):
ATTTTTAAGTCAAATTTAAT
Found at i:774253 original size:3 final size:3
Alignment explanation
Indices: 774245--774279 Score: 70
Period size: 3 Copynumber: 11.7 Consensus size: 3
774235 ATCTCTTTTC
774245 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
774280 ACATTTTTTT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
TAT
Found at i:774864 original size:2 final size:2
Alignment explanation
Indices: 774857--774882 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
774847 GGAACCTGGG
774857 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
774883 TTAAATGTAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:775129 original size:14 final size:13
Alignment explanation
Indices: 775105--775134 Score: 51
Period size: 14 Copynumber: 2.2 Consensus size: 13
775095 TTGTACTTTT
775105 AAATTTTAAAAAA
1 AAATTTTAAAAAA
775118 AAATTATTAAAAAA
1 AAATT-TTAAAAAA
775132 AAA
1 AAA
775135 ACTATCCATT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 5 0.31
14 11 0.69
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (13 bp):
AAATTTTAAAAAA
Found at i:776214 original size:2 final size:2
Alignment explanation
Indices: 776151--776195 Score: 90
Period size: 2 Copynumber: 22.5 Consensus size: 2
776141 CATATTAAAG
776151 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
776193 AT A
1 AT A
776196 AAGAAACCCT
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 43 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:776395 original size:2 final size:2
Alignment explanation
Indices: 776388--776446 Score: 91
Period size: 2 Copynumber: 29.5 Consensus size: 2
776378 TACTACTTTG
* *
776388 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TG TA TA TG TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
*
776430 TA TA TA TA TA TG TA TA T
1 TA TA TA TA TA TA TA TA T
776447 GGAATTATTT
Statistics
Matches: 51, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
2 51 1.00
ACGTcount: A:0.44, C:0.00, G:0.05, T:0.51
Consensus pattern (2 bp):
TA
Found at i:776706 original size:10 final size:9
Alignment explanation
Indices: 776686--776710 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
776676 TGAATTGATC
776686 AAAAGAAAA
1 AAAAGAAAA
776695 AAAAGAAAA
1 AAAAGAAAA
776704 AAAAGAA
1 AAAAGAA
776711 TAGCTTTTGT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.88, C:0.00, G:0.12, T:0.00
Consensus pattern (9 bp):
AAAAGAAAA
Found at i:777137 original size:1 final size:1
Alignment explanation
Indices: 777131--777166 Score: 72
Period size: 1 Copynumber: 36.0 Consensus size: 1
777121 ATGTTCAAAG
777131 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
777167 CTGGAGAATA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 35 1.00
ACGTcount: A:0.00, C:0.00, G:0.00, T:1.00
Consensus pattern (1 bp):
T
Found at i:787105 original size:12 final size:12
Alignment explanation
Indices: 787083--787159 Score: 74
Period size: 11 Copynumber: 6.7 Consensus size: 12
787073 TTTTTTAAAT
787083 ATTTAAATATTAA
1 ATTT-AATATTAA
787096 ATTTAATATTAA
1 ATTTAATATTAA
787108 A-TTAATATTAA
1 ATTTAATATTAA
*
787119 ATATAAT-TTATA
1 ATTTAATATTA-A
787131 A-TTAA-ATTAA
1 ATTTAATATTAA
* *
787141 ATAT-ATATTTA
1 ATTTAATATTAA
787152 ATTTAATA
1 ATTTAATA
787160 ATATAATTTT
Statistics
Matches: 53, Mismatches: 5, Indels: 13
0.75 0.07 0.18
Matches are distributed among these distances:
10 3 0.06
11 28 0.53
12 18 0.34
13 4 0.08
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (12 bp):
ATTTAATATTAA
Found at i:787134 original size:28 final size:31
Alignment explanation
Indices: 787080--787140 Score: 85
Period size: 28 Copynumber: 2.1 Consensus size: 31
787070 TAATTTTTTA
787080 AATATTTAAATATTAAATTTAATATTAAATT
1 AATATTTAAATATTAAATTTAATATTAAATT
787111 AATA-TTAAATA-T-AATTT-ATAATTAAATT
1 AATATTTAAATATTAAATTTAAT-ATTAAATT
787139 AA
1 AA
787141 ATATATATTT
Statistics
Matches: 29, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
27 2 0.07
28 15 0.52
29 1 0.03
30 7 0.24
31 4 0.14
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (31 bp):
AATATTTAAATATTAAATTTAATATTAAATT
Found at i:787147 original size:17 final size:17
Alignment explanation
Indices: 787085--787167 Score: 50
Period size: 17 Copynumber: 4.8 Consensus size: 17
787075 TTTTAAATAT
787085 TTAAATAT-TAAATTTAATA
1 TTAAATATAT-AA-TTAA-A
787104 TTAAAT-TA-ATATTAAA
1 TTAAATATATA-ATTAAA
*
787120 -TATAATTTATAATTAAA
1 TTA-AATATATAATTAAA
*
787137 TTAAATATAT-ATTTAA
1 TTAAATATATAATTAAA
*
787153 TTTAATAATATAATT
1 TTAAAT-ATATAATT
787168 TTTAATATGA
Statistics
Matches: 53, Mismatches: 3, Indels: 17
0.73 0.04 0.23
Matches are distributed among these distances:
15 2 0.04
16 14 0.26
17 23 0.43
18 8 0.15
19 6 0.11
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (17 bp):
TTAAATATATAATTAAA
Found at i:787153 original size:28 final size:28
Alignment explanation
Indices: 787089--787161 Score: 78
Period size: 28 Copynumber: 2.6 Consensus size: 28
787079 AAATATTTAA
*
787089 ATATTAAATTTA-ATATTAAATTAATATT
1 ATATTTAATTTATA-ATTAAATTAATATT
* *
787117 AAATATAATTTATAATTAAATTAA-ATAT
1 ATATTTAATTTATAATTAAATTAATAT-T
787145 ATATTTAATTTAATAAT
1 ATATTTAATTT-ATAAT
787162 ATAATTTTTA
Statistics
Matches: 37, Mismatches: 5, Indels: 5
0.79 0.11 0.11
Matches are distributed among these distances:
27 2 0.05
28 29 0.78
29 6 0.16
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (28 bp):
ATATTTAATTTATAATTAAATTAATATT
Found at i:787194 original size:43 final size:42
Alignment explanation
Indices: 787118--787204 Score: 97
Period size: 41 Copynumber: 2.0 Consensus size: 42
787108 ATTAATATTA
* *
787118 AATATAATTTATAATTAAATTAAATATATATTT-AATTTAAT
1 AATATAATTTATAATTAAATTAAATAGAGATTTAAATTTAAT
* *
787159 AATATAATTTTTAATATGAAATTAAGAT-GAGATTTAAATTTCAT
1 AATATAATTTATAAT-T-AAATTAA-ATAGAGATTTAAATTTAAT
787203 AA
1 AA
787205 ATTATAAAAT
Statistics
Matches: 38, Mismatches: 4, Indels: 5
0.81 0.09 0.11
Matches are distributed among these distances:
41 14 0.37
42 1 0.03
43 12 0.32
44 11 0.29
ACGTcount: A:0.49, C:0.01, G:0.05, T:0.45
Consensus pattern (42 bp):
AATATAATTTATAATTAAATTAAATAGAGATTTAAATTTAAT
Found at i:787218 original size:12 final size:12
Alignment explanation
Indices: 787201--787241 Score: 50
Period size: 12 Copynumber: 3.6 Consensus size: 12
787191 TTTAAATTTC
787201 ATAAATTATAAA
1 ATAAATTATAAA
*
787213 ATAAATTTTAAA
1 ATAAATTATAAA
787225 A-AAA-TATAAA
1 ATAAATTATAAA
*
787235 ATTAATT
1 ATAAATT
787242 TATTATCAAT
Statistics
Matches: 24, Mismatches: 3, Indels: 4
0.77 0.10 0.13
Matches are distributed among these distances:
10 6 0.25
11 5 0.21
12 13 0.54
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (12 bp):
ATAAATTATAAA
Found at i:787555 original size:2 final size:2
Alignment explanation
Indices: 787550--787595 Score: 92
Period size: 2 Copynumber: 23.0 Consensus size: 2
787540 TGGCCTCCAC
787550 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
787592 AT AT
1 AT AT
787596 TATTTGTTCA
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 44 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:788004 original size:22 final size:22
Alignment explanation
Indices: 787971--788033 Score: 62
Period size: 21 Copynumber: 3.0 Consensus size: 22
787961 ATAAATTTTA
*
787971 ATATTATT-TTATATTTATATT
1 ATATTTTTATTATATTTATATT
* *
787992 ATATTTTTATTATTTTTATA-A
1 ATATTTTTATTATATTTATATT
788013 ATATTTTTAATT-TA-TTATATT
1 ATATTTTT-ATTATATTTATATT
788034 TATAATTTAA
Statistics
Matches: 34, Mismatches: 5, Indels: 6
0.76 0.11 0.13
Matches are distributed among these distances:
20 5 0.15
21 16 0.47
22 13 0.38
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (22 bp):
ATATTTTTATTATATTTATATT
Found at i:788011 original size:28 final size:27
Alignment explanation
Indices: 787952--788007 Score: 78
Period size: 28 Copynumber: 2.0 Consensus size: 27
787942 AAAGTTATCG
787952 TATATTTATATAAATTTTAATATTATTT
1 TATATTTATATAAATTTT-ATATTATTT
*
787980 TATATTTATATTATATTTT-TATTATTT
1 TATATTTATA-TAAATTTTATATTATTT
788007 T
1 T
788008 TATAAATATT
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
27 9 0.35
28 10 0.38
29 7 0.27
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (27 bp):
TATATTTATATAAATTTTATATTATTT
Done.