Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold11
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: 5230303
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 140504 characters in sequence are not A, C, G, or T
File 23 of 29
Found at i:3696606 original size:22 final size:24
Alignment explanation
Indices: 3696560--3696610 Score: 72
Period size: 22 Copynumber: 2.2 Consensus size: 24
3696550 AGACAATACA
3696560 TATAATTTTAAATAAAATAAAAAT
1 TATAATTTTAAATAAAATAAAAAT
3696584 TATAA-TTTAAA-AATAA-AAAAAT
1 TATAATTTTAAATAA-AATAAAAAT
3696606 TATAA
1 TATAA
3696611 ATGTATCTAT
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
22 13 0.50
23 8 0.31
24 5 0.19
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (24 bp):
TATAATTTTAAATAAAATAAAAAT
Found at i:3698007 original size:31 final size:30
Alignment explanation
Indices: 3697937--3698007 Score: 70
Period size: 31 Copynumber: 2.3 Consensus size: 30
3697927 ATAACAATTG
* * *
3697937 TAAAATATATGATATATAATATAAATTTTT
1 TAAAAAATTTGATATATAATATAAATTTAT
* * *
3697967 TAATTAAATTTGATATGTAATATTAATTTAAT
1 TAA-AAAATTTGATATATAATATAAATTT-AT
3697999 TAAAAAATT
1 TAAAAAATT
3698008 ATTAAAAATT
Statistics
Matches: 32, Mismatches: 7, Indels: 3
0.76 0.17 0.07
Matches are distributed among these distances:
30 3 0.09
31 25 0.78
32 4 0.12
ACGTcount: A:0.49, C:0.00, G:0.04, T:0.46
Consensus pattern (30 bp):
TAAAAAATTTGATATATAATATAAATTTAT
Found at i:3703258 original size:7 final size:6
Alignment explanation
Indices: 3703223--3703259 Score: 51
Period size: 6 Copynumber: 6.3 Consensus size: 6
3703213 TCAAGACATT
3703223 AAAA-A AAAA-A AAAACA AAAACA AAAACA AAAGACA AA
1 AAAACA AAAACA AAAACA AAAACA AAAACA AAA-ACA AA
3703260 TTGGTTTCTG
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
5 9 0.30
6 16 0.53
7 5 0.17
ACGTcount: A:0.86, C:0.11, G:0.03, T:0.00
Consensus pattern (6 bp):
AAAACA
Found at i:3704572 original size:3 final size:3
Alignment explanation
Indices: 3704564--3704601 Score: 76
Period size: 3 Copynumber: 12.7 Consensus size: 3
3704554 TACGTACTAA
3704564 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
3704602 AATAAAAAAA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
ATT
Found at i:3704839 original size:21 final size:20
Alignment explanation
Indices: 3704815--3704858 Score: 52
Period size: 21 Copynumber: 2.1 Consensus size: 20
3704805 AATTTCAATT
3704815 AAATTAATAAAAAATGATTGA
1 AAATTAATAAAAAA-GATTGA
* * *
3704836 AAATTTATGAAAAAGATTTA
1 AAATTAATAAAAAAGATTGA
3704856 AAA
1 AAA
3704859 CTTTTTTTGG
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
20 8 0.40
21 12 0.60
ACGTcount: A:0.61, C:0.00, G:0.09, T:0.30
Consensus pattern (20 bp):
AAATTAATAAAAAAGATTGA
Found at i:3705250 original size:3 final size:3
Alignment explanation
Indices: 3705242--3705281 Score: 80
Period size: 3 Copynumber: 13.3 Consensus size: 3
3705232 AGTACTTAAG
3705242 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
3705282 TAAAAAGAAT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 37 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:3705401 original size:21 final size:21
Alignment explanation
Indices: 3705376--3705429 Score: 76
Period size: 21 Copynumber: 2.7 Consensus size: 21
3705366 TATCCAATAA
3705376 AATATATATTTATAGTATGAT
1 AATATATATTTATAGTATGAT
* *
3705397 AATATATTTTTAT-GTATTAT
1 AATATATATTTATAGTATGAT
3705417 AATA-ATATTTATA
1 AATATATATTTATA
3705430 AATATTATAT
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
19 7 0.24
20 10 0.34
21 12 0.41
ACGTcount: A:0.43, C:0.00, G:0.06, T:0.52
Consensus pattern (21 bp):
AATATATATTTATAGTATGAT
Found at i:3705403 original size:23 final size:21
Alignment explanation
Indices: 3705376--3705426 Score: 63
Period size: 20 Copynumber: 2.5 Consensus size: 21
3705366 TATCCAATAA
3705376 AATATATA-TTTATAGTATGAT
1 AATATATATTTTAT-GTATGAT
*
3705397 AATATAT-TTTTATGTATTAT
1 AATATATATTTTATGTATGAT
3705417 AATA-ATATTT
1 AATATATATTT
3705427 ATAAATATTA
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
19 2 0.07
20 13 0.48
21 12 0.44
ACGTcount: A:0.41, C:0.00, G:0.06, T:0.53
Consensus pattern (21 bp):
AATATATATTTTATGTATGAT
Found at i:3705435 original size:21 final size:20
Alignment explanation
Indices: 3705379--3705456 Score: 70
Period size: 19 Copynumber: 4.0 Consensus size: 20
3705369 CCAATAAAAT
* *
3705379 ATATATTTAT-AGTATGATA
1 ATATATTTATAAATATTATA
* **
3705398 ATATATTTTTATGTATTATA
1 ATATATTTATAAATATTATA
3705418 ATAATATTTATAAATATTAT-
1 AT-ATATTTATAAATATTATA
* *
3705438 ATATTTTTATAAATTTTAT
1 ATATATTTATAAATATTAT
3705457 TATTTTAATA
Statistics
Matches: 49, Mismatches: 8, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
19 24 0.49
20 11 0.22
21 14 0.29
ACGTcount: A:0.41, C:0.00, G:0.04, T:0.55
Consensus pattern (20 bp):
ATATATTTATAAATATTATA
Found at i:3709780 original size:46 final size:47
Alignment explanation
Indices: 3709712--3709802 Score: 139
Period size: 46 Copynumber: 2.0 Consensus size: 47
3709702 CAATACTTGA
3709712 CATCATTCAAAATTCCGATGAAGCGAGCAGGTAGCTGGGTTAATTGG
1 CATCATTCAAAATTCCGATGAAGCGAGCAGGTAGCTGGGTTAATTGG
* * * *
3709759 CATCA-TCCAAATTCCGATGAAGTGGGCAGGTGGCTGGGTTAATT
1 CATCATTCAAAATTCCGATGAAGCGAGCAGGTAGCTGGGTTAATT
3709803 AGACAGACTC
Statistics
Matches: 40, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
46 35 0.88
47 5 0.12
ACGTcount: A:0.27, C:0.18, G:0.29, T:0.26
Consensus pattern (47 bp):
CATCATTCAAAATTCCGATGAAGCGAGCAGGTAGCTGGGTTAATTGG
Found at i:3712260 original size:27 final size:29
Alignment explanation
Indices: 3712216--3712278 Score: 67
Period size: 27 Copynumber: 2.2 Consensus size: 29
3712206 TCTTTCATTT
*
3712216 AAAAACACATTAAGTTTT-ACCCAC-TAA
1 AAAAACACAATAAGTTTTCACCCACATAA
** * *
3712243 AAAAACACAATATTTTTTCATCCACATAT
1 AAAAACACAATAAGTTTTCACCCACATAA
3712272 AAAAACA
1 AAAAACA
3712279 TGATTGATAT
Statistics
Matches: 29, Mismatches: 5, Indels: 2
0.81 0.14 0.06
Matches are distributed among these distances:
27 15 0.52
28 5 0.17
29 9 0.31
ACGTcount: A:0.51, C:0.21, G:0.02, T:0.27
Consensus pattern (29 bp):
AAAAACACAATAAGTTTTCACCCACATAA
Found at i:3715763 original size:6 final size:6
Alignment explanation
Indices: 3715754--3715782 Score: 58
Period size: 6 Copynumber: 4.8 Consensus size: 6
3715744 TAATAGTCGT
3715754 AGTAGC AGTAGC AGTAGC AGTAGC AGTAG
1 AGTAGC AGTAGC AGTAGC AGTAGC AGTAG
3715783 TCATAAAGTA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.34, C:0.14, G:0.34, T:0.17
Consensus pattern (6 bp):
AGTAGC
Found at i:3716157 original size:14 final size:14
Alignment explanation
Indices: 3716138--3716167 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
3716128 AATACGTTAT
3716138 TTATATTAAATATA
1 TTATATTAAATATA
*
3716152 TTATATTAATTATA
1 TTATATTAAATATA
3716166 TT
1 TT
3716168 TAAATATATC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (14 bp):
TTATATTAAATATA
Found at i:3720246 original size:34 final size:32
Alignment explanation
Indices: 3720151--3720261 Score: 88
Period size: 34 Copynumber: 3.5 Consensus size: 32
3720141 TATAAATTAA
* *
3720151 ATTAA-ATTTAAATAAATTTTAATATTTTATT
1 ATTAATATTTAAATAAATTTAAATATTTTTTT
* * *
3720182 -TT-AT-TTTAAAATAATATTAAAAAATATTTTT
1 ATTAATATTT-AAATAA-ATTTAAATATTTTTTT
3720213 ATTAATATTTATAATTAAATTTAAATATTTTTTT
1 ATTAATATTTA-AA-TAAATTTAAATATTTTTTT
* *
3720247 A-AAAAATTTAAATAA
1 ATTAATATTTAAATAA
3720262 TAACTTAAAT
Statistics
Matches: 62, Mismatches: 10, Indels: 16
0.70 0.11 0.18
Matches are distributed among these distances:
29 4 0.06
30 8 0.13
31 14 0.23
32 4 0.06
33 10 0.16
34 19 0.31
35 3 0.05
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (32 bp):
ATTAATATTTAAATAAATTTAAATATTTTTTT
Found at i:3720292 original size:22 final size:22
Alignment explanation
Indices: 3720251--3720293 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
3720241 TTTTTTAAAA
*
3720251 AATTTAAATAATAACTTAAATT
1 AATTTAAATAATAACATAAATT
3720273 AATTTAAATTAATAA-ATAAAT
1 AATTTAAA-TAATAACATAAAT
3720294 ACTCAAATTT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 13 0.68
23 6 0.32
ACGTcount: A:0.58, C:0.02, G:0.00, T:0.40
Consensus pattern (22 bp):
AATTTAAATAATAACATAAATT
Found at i:3721105 original size:32 final size:31
Alignment explanation
Indices: 3721069--3721147 Score: 77
Period size: 32 Copynumber: 2.5 Consensus size: 31
3721059 ACCCAGCAGA
3721069 AAAATATGATATTTATATATATATATATACAT
1 AAAATATGATATTTATATATAT-TATATACAT
* * * ***
3721101 AAAATTTGATTATTAATTTATATTATATTTTT
1 AAAATATGA-TATTTATATATATTATATACAT
*
3721133 AAAATATAATATTTA
1 AAAATATGATATTTA
3721148 ATAATTTTAA
Statistics
Matches: 37, Mismatches: 9, Indels: 3
0.76 0.18 0.06
Matches are distributed among these distances:
31 5 0.14
32 21 0.57
33 11 0.30
ACGTcount: A:0.47, C:0.01, G:0.03, T:0.49
Consensus pattern (31 bp):
AAAATATGATATTTATATATATTATATACAT
Found at i:3721192 original size:30 final size:30
Alignment explanation
Indices: 3721129--3721184 Score: 87
Period size: 30 Copynumber: 1.9 Consensus size: 30
3721119 TATATTATAT
3721129 TTTTAAAATATAATATTTAATAATTTTAAA
1 TTTTAAAATATAATATTTAATAATTTTAAA
* *
3721159 TTTTAAATTTTAATATTT-ATAATTTT
1 TTTTAAAATATAATATTTAATAATTTT
3721185 TTTATTTTGA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
29 8 0.33
30 16 0.67
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (30 bp):
TTTTAAAATATAATATTTAATAATTTTAAA
Found at i:3723336 original size:17 final size:17
Alignment explanation
Indices: 3723314--3723404 Score: 59
Period size: 16 Copynumber: 5.5 Consensus size: 17
3723304 TTTAAAACTT
3723314 ATATAATATAATTATTA
1 ATATAATATAATTATTA
*
3723331 ATATAATA-AA--ATTT
1 ATATAATATAATTATTA
*
3723345 ATATAAATATAAAATATT-
1 ATAT-AATAT-AATTATTA
*
3723363 TTA-AATATAATTA-TA
1 ATATAATATAATTATTA
* * *
3723378 ACATAATAAAATATATAA
1 ATATAATATAAT-TATTA
3723396 ATATAATAT
1 ATATAATAT
3723405 GAATATATAA
Statistics
Matches: 56, Mismatches: 9, Indels: 17
0.68 0.11 0.21
Matches are distributed among these distances:
14 8 0.14
15 9 0.16
16 14 0.25
17 12 0.21
18 10 0.18
19 3 0.05
ACGTcount: A:0.58, C:0.01, G:0.00, T:0.41
Consensus pattern (17 bp):
ATATAATATAATTATTA
Found at i:3723353 original size:20 final size:17
Alignment explanation
Indices: 3723314--3723403 Score: 66
Period size: 17 Copynumber: 5.5 Consensus size: 17
3723304 TTTAAAACTT
*
3723314 ATATAATATAATTATTA
1 ATATAATAAAATTATTA
3723331 ATATAATAAAATTTATATA
1 ATATAATAAAA-TTAT-TA
3723350 A-AT-ATAAAA-TATT-
1 ATATAATAAAATTATTA
* *
3723363 TTA-AATATAATTA-TA
1 ATATAATAAAATTATTA
* *
3723378 ACATAATAAAATATATAA
1 ATATAATAAAAT-TATTA
3723396 ATATAATA
1 ATATAATA
3723404 TGAATATATA
Statistics
Matches: 56, Mismatches: 8, Indels: 17
0.69 0.10 0.21
Matches are distributed among these distances:
14 8 0.14
15 6 0.11
16 7 0.12
17 18 0.32
18 14 0.25
19 3 0.05
ACGTcount: A:0.59, C:0.01, G:0.00, T:0.40
Consensus pattern (17 bp):
ATATAATAAAATTATTA
Found at i:3723397 original size:8 final size:8
Alignment explanation
Indices: 3723344--3723422 Score: 53
Period size: 8 Copynumber: 10.0 Consensus size: 8
3723334 TAATAAAATT
3723344 TATATAAA
1 TATATAAA
3723352 TATA-AAA
1 TATATAAA
* *
3723359 TATTTTAA
1 TATATAAA
3723367 -ATAT-AA
1 TATATAAA
3723373 T-TATAACA
1 TATATAA-A
3723381 TA-ATAAAA
1 TATAT-AAA
3723389 TATATAAA
1 TATATAAA
3723397 TATAATATGAA
1 TAT-ATA--AA
3723408 TATATAAA
1 TATATAAA
3723416 T-TATAAA
1 TATATAAA
3723423 GCTTAAAAAA
Statistics
Matches: 58, Mismatches: 3, Indels: 21
0.71 0.04 0.26
Matches are distributed among these distances:
6 5 0.09
7 16 0.28
8 22 0.38
9 7 0.12
10 3 0.05
11 5 0.09
ACGTcount: A:0.59, C:0.01, G:0.01, T:0.38
Consensus pattern (8 bp):
TATATAAA
Found at i:3723409 original size:11 final size:11
Alignment explanation
Indices: 3723314--3723411 Score: 50
Period size: 11 Copynumber: 9.5 Consensus size: 11
3723304 TTTAAAACTT
3723314 ATATAATATAA
1 ATATAATATAA
*
3723325 TTATTAATAT-A
1 ATA-TAATATAA
* * *
3723336 ATAAAATTTAT
1 ATATAATATAA
3723347 ATA-AATATAA
1 ATATAATATAA
* *
3723357 A-ATATTTTAA
1 ATATAATATAA
3723367 ATATAAT-TATA
1 ATATAATATA-A
*
3723378 ACAT-A-ATAA
1 ATATAATATAA
3723387 A-AT-ATATAA
1 ATATAATATAA
*
3723396 ATATAATATGA
1 ATATAATATAA
3723407 ATATA
1 ATATA
3723412 TAAATTATAA
Statistics
Matches: 66, Mismatches: 12, Indels: 18
0.69 0.12 0.19
Matches are distributed among these distances:
8 3 0.05
9 8 0.12
10 23 0.35
11 26 0.39
12 6 0.09
ACGTcount: A:0.58, C:0.01, G:0.01, T:0.40
Consensus pattern (11 bp):
ATATAATATAA
Found at i:3725766 original size:10 final size:10
Alignment explanation
Indices: 3725750--3725782 Score: 50
Period size: 10 Copynumber: 3.4 Consensus size: 10
3725740 AATTAAAAAT
3725750 ATATTTATAA
1 ATATTTATAA
*
3725760 TTATTTATAA
1 ATATTTATAA
3725770 ATA-TTATAA
1 ATATTTATAA
3725779 ATAT
1 ATAT
3725783 AATATAATTA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
9 9 0.45
10 11 0.55
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (10 bp):
ATATTTATAA
Found at i:3726452 original size:25 final size:27
Alignment explanation
Indices: 3726419--3726482 Score: 87
Period size: 29 Copynumber: 2.4 Consensus size: 27
3726409 TTTAATAATA
*
3726419 TATTTAAATA-TAAATTAT-CAAAATT
1 TATTTAAATATTAAAATATACAAAATT
3726444 TATTTAAATATATTAAAATATACAAAATT
1 TATTT-AA-ATATTAAAATATACAAAATT
3726473 TATTTAAATA
1 TATTTAAATA
3726483 ATAACTCCAA
Statistics
Matches: 34, Mismatches: 1, Indels: 6
0.83 0.02 0.15
Matches are distributed among these distances:
25 5 0.15
26 2 0.06
27 6 0.18
28 9 0.26
29 12 0.35
ACGTcount: A:0.53, C:0.03, G:0.00, T:0.44
Consensus pattern (27 bp):
TATTTAAATATTAAAATATACAAAATT
Found at i:3733620 original size:25 final size:24
Alignment explanation
Indices: 3733591--3733666 Score: 64
Period size: 25 Copynumber: 3.0 Consensus size: 24
3733581 GTCTTAATTG
3733591 TATTTAAAATATTATATATTTATA
1 TATTTAAAATATTATATATTTATA
** *
3733615 TAATTTTTAATATTTTAATAATTTATA
1 T-ATTTAAAATATTAT-AT-ATTTATA
*
3733642 T-TTTATAAATTTTGATATATTTATA
1 TATTTA-AAATATT-ATATATTTATA
3733667 CTTATATTAT
Statistics
Matches: 40, Mismatches: 7, Indels: 9
0.71 0.12 0.16
Matches are distributed among these distances:
24 1 0.03
25 21 0.52
26 9 0.22
27 9 0.22
ACGTcount: A:0.41, C:0.00, G:0.01, T:0.58
Consensus pattern (24 bp):
TATTTAAAATATTATATATTTATA
Found at i:3733629 original size:18 final size:18
Alignment explanation
Indices: 3733606--3733666 Score: 58
Period size: 18 Copynumber: 3.5 Consensus size: 18
3733596 AAAATATTAT
3733606 ATATTTATATAATTTTTA
1 ATATTTATATAATTTTTA
*
3733624 ATATTT-TAATAATTTAT-
1 ATATTTAT-ATAATTTTTA
*
3733641 AT-TTTATA-AATTTTGA
1 ATATTTATATAATTTTTA
3733657 TATATTTATA
1 -ATATTTATA
3733667 CTTATATTAT
Statistics
Matches: 35, Mismatches: 3, Indels: 10
0.73 0.06 0.21
Matches are distributed among these distances:
15 5 0.14
16 4 0.11
17 6 0.17
18 20 0.57
ACGTcount: A:0.39, C:0.00, G:0.02, T:0.59
Consensus pattern (18 bp):
ATATTTATATAATTTTTA
Found at i:3733629 original size:34 final size:33
Alignment explanation
Indices: 3733591--3733664 Score: 89
Period size: 33 Copynumber: 2.2 Consensus size: 33
3733581 GTCTTAATTG
*
3733591 TATTTAA-AATATTATATATTTATATAATTTTTA-A
1 TATTTAATAAT-TTATAT-TTTATA-AATTTTGATA
3733625 TATTTTAATAATTTATATTTTATAAATTTTGATA
1 TA-TTTAATAATTTATATTTTATAAATTTTGATA
3733659 TATTTA
1 TATTTA
3733665 TACTTATATT
Statistics
Matches: 36, Mismatches: 1, Indels: 7
0.82 0.02 0.16
Matches are distributed among these distances:
33 11 0.31
34 11 0.31
35 11 0.31
36 3 0.08
ACGTcount: A:0.41, C:0.00, G:0.01, T:0.58
Consensus pattern (33 bp):
TATTTAATAATTTATATTTTATAAATTTTGATA
Found at i:3733671 original size:24 final size:24
Alignment explanation
Indices: 3733626--3733672 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
3733616 AATTTTTAAT
*
3733626 ATTTTAATAATTTATATTTTATAA
1 ATTTTAATAATTTATATCTTATAA
*
3733650 ATTTTGATATATTTATA-CTTATA
1 ATTTTAATA-ATTTATATCTTATA
3733673 TTATTTTTTA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
24 13 0.65
25 7 0.35
ACGTcount: A:0.38, C:0.02, G:0.02, T:0.57
Consensus pattern (24 bp):
ATTTTAATAATTTATATCTTATAA
Found at i:3733678 original size:25 final size:24
Alignment explanation
Indices: 3733624--3733679 Score: 60
Period size: 25 Copynumber: 2.3 Consensus size: 24
3733614 ATAATTTTTA
*
3733624 ATATTTTAATAATTTATATTTTAT
1 ATATTTTAATAATTTATATTATAT
* *
3733648 AAATTTTGATATATTTATACTTATAT
1 ATATTTTAATA-ATTTATA-TTATAT
3733674 -TATTTT
1 ATATTTT
3733680 TTAGGTCAAT
Statistics
Matches: 26, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
24 9 0.35
25 12 0.46
26 5 0.19
ACGTcount: A:0.36, C:0.02, G:0.02, T:0.61
Consensus pattern (24 bp):
ATATTTTAATAATTTATATTATAT
Found at i:3733678 original size:34 final size:33
Alignment explanation
Indices: 3733601--3733679 Score: 90
Period size: 32 Copynumber: 2.4 Consensus size: 33
3733591 TATTTAAAAT
*
3733601 ATTATATATTTATATAATTTTTAATATTTTAATA
1 ATTATATATTT-TATAAATTTTAATATTTTAATA
*
3733635 ATT-TATATTTTATAAATTTTGATATATTT-ATA
1 ATTATATATTTTATAAATTTTAATAT-TTTAATA
*
3733667 CTTATATTATTTT
1 ATTATA-TATTTT
3733680 TTAGGTCAAT
Statistics
Matches: 39, Mismatches: 3, Indels: 6
0.81 0.06 0.12
Matches are distributed among these distances:
32 18 0.46
33 12 0.31
34 9 0.23
ACGTcount: A:0.37, C:0.01, G:0.01, T:0.61
Consensus pattern (33 bp):
ATTATATATTTTATAAATTTTAATATTTTAATA
Found at i:3743772 original size:29 final size:31
Alignment explanation
Indices: 3743719--3743777 Score: 86
Period size: 32 Copynumber: 1.9 Consensus size: 31
3743709 AGTTGGTTAA
*
3743719 ATGAATTTTTTTAATAATATTTTATTAATTTT
1 ATGAATTTTTTAAATAATA-TTTATTAATTTT
3743751 ATGAATTTTTTAAATAA-A-TTATTAATT
1 ATGAATTTTTTAAATAATATTTATTAATT
3743778 AAAGTTATTA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
29 9 0.35
31 1 0.04
32 16 0.62
ACGTcount: A:0.39, C:0.00, G:0.03, T:0.58
Consensus pattern (31 bp):
ATGAATTTTTTAAATAATATTTATTAATTTT
Found at i:3743912 original size:28 final size:26
Alignment explanation
Indices: 3743856--3743924 Score: 84
Period size: 28 Copynumber: 2.5 Consensus size: 26
3743846 TGTAAAGAAA
* *
3743856 ATAATATAATAATAATAATATAATATT
1 ATAATATAA-AATAACAATATAACATT
3743883 ATAATATAAAATAACATATAATAACATT
1 ATAATATAAAATAACA-AT-ATAACATT
*
3743911 ATAATGTAAAATAA
1 ATAATATAAAATAA
3743925 AATTATTACA
Statistics
Matches: 37, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
26 6 0.16
27 11 0.30
28 20 0.54
ACGTcount: A:0.61, C:0.03, G:0.01, T:0.35
Consensus pattern (26 bp):
ATAATATAAAATAACAATATAACATT
Found at i:3744235 original size:2 final size:2
Alignment explanation
Indices: 3744228--3744262 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
3744218 TTCTTGTTAT
3744228 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
3744263 TTGTTTTTTT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.00, C:0.49, G:0.00, T:0.51
Consensus pattern (2 bp):
TC
Found at i:3749998 original size:20 final size:20
Alignment explanation
Indices: 3749973--3750013 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 20
3749963 TTTTTATAAT
3749973 TTATATATAATATAA-ACAAA
1 TTATAT-TAATATAATACAAA
*
3749993 TTATATTTATATAATACAAA
1 TTATATTAATATAATACAAA
3750013 T
1 T
3750014 ATAAAATCTA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
19 7 0.37
20 12 0.63
ACGTcount: A:0.54, C:0.05, G:0.00, T:0.41
Consensus pattern (20 bp):
TTATATTAATATAATACAAA
Found at i:3750412 original size:2 final size:2
Alignment explanation
Indices: 3750405--3750430 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
3750395 TGTCGATTAC
3750405 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
3750431 TGTTTTATTT
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:3752079 original size:23 final size:23
Alignment explanation
Indices: 3752027--3752080 Score: 67
Period size: 24 Copynumber: 2.3 Consensus size: 23
3752017 AAATTTTAAA
3752027 AATTA-TTTTTATATTAAATATT
1 AATTATTTTTTATATTAAATATT
*
3752049 TATATATTTTTTATAATTAAAT-TT
1 AAT-TATTTTTTAT-ATTAAATATT
3752073 AATTATTT
1 AATTATTT
3752081 AATCCTAAAT
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
22 2 0.07
23 7 0.26
24 11 0.41
25 7 0.26
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (23 bp):
AATTATTTTTTATATTAAATATT
Found at i:3752840 original size:18 final size:19
Alignment explanation
Indices: 3752819--3752856 Score: 60
Period size: 18 Copynumber: 2.1 Consensus size: 19
3752809 TATTTATACT
3752819 TAAATCAAAA-TTTTAATA
1 TAAATCAAAATTTTTAATA
*
3752837 TAAATTAAAATTTTTAATA
1 TAAATCAAAATTTTTAATA
3752856 T
1 T
3752857 TAATTAAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 9 0.50
19 9 0.50
ACGTcount: A:0.53, C:0.03, G:0.00, T:0.45
Consensus pattern (19 bp):
TAAATCAAAATTTTTAATA
Found at i:3752851 original size:19 final size:18
Alignment explanation
Indices: 3752819--3752865 Score: 67
Period size: 19 Copynumber: 2.6 Consensus size: 18
3752809 TATTTATACT
*
3752819 TAAATCAAAATTTTAATA
1 TAAATTAAAATTTTAATA
3752837 TAAATTAAAATTTTTAATA
1 TAAATTAAAA-TTTTAATA
*
3752856 TTAATTAAAA
1 TAAATTAAAA
3752866 ATAATATATA
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
18 9 0.35
19 17 0.65
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.43
Consensus pattern (18 bp):
TAAATTAAAATTTTAATA
Found at i:3760531 original size:2 final size:2
Alignment explanation
Indices: 3760524--3760552 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
3760514 GGGTAAATTT
3760524 AC AC AC AC AC AC AC AC AC AC AC AC AC AC A
1 AC AC AC AC AC AC AC AC AC AC AC AC AC AC A
3760553 AAAGGGCATC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.48, G:0.00, T:0.00
Consensus pattern (2 bp):
AC
Found at i:3765320 original size:4 final size:4
Alignment explanation
Indices: 3765311--3765340 Score: 51
Period size: 4 Copynumber: 7.5 Consensus size: 4
3765301 AGTACGTCTG
*
3765311 TACA TACA TACA TACA TACA TGCA TACA TA
1 TACA TACA TACA TACA TACA TACA TACA TA
3765341 TGTAAATAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
4 24 1.00
ACGTcount: A:0.47, C:0.23, G:0.03, T:0.27
Consensus pattern (4 bp):
TACA
Found at i:3766177 original size:2 final size:2
Alignment explanation
Indices: 3766170--3766204 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
3766160 ATTGACAGAA
3766170 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 A
3766205 GGGTTAGAAC
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:3766922 original size:3 final size:3
Alignment explanation
Indices: 3766914--3766938 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
3766904 ATTTAAAATG
3766914 ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA A
3766939 ATTAAATGAT
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:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:3767455 original size:23 final size:22
Alignment explanation
Indices: 3767402--3767455 Score: 54
Period size: 23 Copynumber: 2.4 Consensus size: 22
3767392 ATTATCAATA
* *
3767402 AAAAATAATAAAAATTTTAAAT
1 AAAAATTATAAAAAATTTAAAT
***
3767424 AATTTTTATAAATAAATTTAAAT
1 AAAAATTATAAA-AAATTTAAAT
3767447 AAAAATTAT
1 AAAAATTAT
3767456 TTTTATTATT
Statistics
Matches: 23, Mismatches: 8, Indels: 1
0.72 0.25 0.03
Matches are distributed among these distances:
22 8 0.35
23 15 0.65
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (22 bp):
AAAAATTATAAAAAATTTAAAT
Found at i:3767475 original size:29 final size:29
Alignment explanation
Indices: 3767420--3767477 Score: 71
Period size: 29 Copynumber: 2.0 Consensus size: 29
3767410 TAAAAATTTT
**
3767420 AAATAATTTTTATAAATAAATTTAAATAA
1 AAATAATTTTTATAAATAAATAAAAATAA
* * *
3767449 AAATTATTTTTATTATTAAATAAAAATAA
1 AAATAATTTTTATAAATAAATAAAAATAA
3767478 TTAAATTTTT
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
29 24 1.00
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (29 bp):
AAATAATTTTTATAAATAAATAAAAATAA
Found at i:3767489 original size:22 final size:23
Alignment explanation
Indices: 3767440--3767490 Score: 59
Period size: 22 Copynumber: 2.3 Consensus size: 23
3767430 TATAAATAAA
* **
3767440 TTTAAATAAAAATTATTTTTATT
1 TTTAAATAAAAATTAATTAAATT
*
3767463 ATTAAATAAAAA-TAATTAAATT
1 TTTAAATAAAAATTAATTAAATT
3767485 TTTAAA
1 TTTAAA
3767491 AAGTTATATT
Statistics
Matches: 23, Mismatches: 5, Indels: 1
0.79 0.17 0.03
Matches are distributed among these distances:
22 12 0.52
23 11 0.48
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (23 bp):
TTTAAATAAAAATTAATTAAATT
Found at i:3767957 original size:5 final size:5
Alignment explanation
Indices: 3767949--3768016 Score: 63
Period size: 5 Copynumber: 13.8 Consensus size: 5
3767939 ATGTGAAATG
* *
3767949 AATAT AATATT AAAAAT AAT-T AAATAT AATAT AAAAT AATAT AATA-
1 AATAT AATA-T -AATAT AATAT -AATAT AATAT AATAT AATAT AATAT
3767995 AATAT AATAT AA-AT -ATAT AATA
1 AATAT AATAT AATAT AATAT AATA
3768017 ATTTAAATAA
Statistics
Matches: 52, Mismatches: 4, Indels: 14
0.74 0.06 0.20
Matches are distributed among these distances:
3 1 0.02
4 9 0.17
5 36 0.69
6 3 0.06
7 3 0.06
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (5 bp):
AATAT
Found at i:3767977 original size:22 final size:24
Alignment explanation
Indices: 3767949--3768038 Score: 97
Period size: 22 Copynumber: 4.1 Consensus size: 24
3767939 ATGTGAAATG
* *
3767949 AATATAATATTAAA-AATA-ATTA
1 AATATAATATAAAATAATATAATA
3767971 AATATAATATAAAATAATATAATA
1 AATATAATATAAAATAATATAATA
3767995 AATATAATAT-AAAT-ATATAAT-
1 AATATAATATAAAATAATATAATA
*
3768016 AATTTAA-ATAAAAT--TATAATA
1 AATATAATATAAAATAATATAATA
3768037 AA
1 AA
3768039 AAAATTGAAT
Statistics
Matches: 61, Mismatches: 3, Indels: 9
0.84 0.04 0.12
Matches are distributed among these distances:
20 8 0.13
21 12 0.20
22 20 0.33
23 8 0.13
24 13 0.21
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (24 bp):
AATATAATATAAAATAATATAATA
Found at i:3768017 original size:11 final size:11
Alignment explanation
Indices: 3767964--3768038 Score: 52
Period size: 11 Copynumber: 6.7 Consensus size: 11
3767954 AATATTAAAA
3767964 ATAATTAAATAT
1 ATAA-TAAATAT
3767976 A-ATATAAAATAAT
1 ATA-AT-AAAT-AT
3767989 ATAATAAATAT
1 ATAATAAATAT
3768000 A-ATATAAATAT
1 ATA-ATAAATAT
*
3768011 ATAAT-AATTT
1 ATAATAAATAT
3768021 A-AATAAA-ATT
1 ATAATAAATA-T
3768031 ATAATAAA
1 ATAATAAA
3768039 AAAATTGAAT
Statistics
Matches: 52, Mismatches: 2, Indels: 19
0.71 0.03 0.26
Matches are distributed among these distances:
9 3 0.06
10 10 0.19
11 22 0.42
12 11 0.21
13 5 0.10
14 1 0.02
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (11 bp):
ATAATAAATAT
Found at i:3768147 original size:2 final size:2
Alignment explanation
Indices: 3768140--3768167 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
3768130 ACATATTAAG
3768140 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
3768168 CGAGAGAGAC
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:3771481 original size:46 final size:46
Alignment explanation
Indices: 3771429--3771522 Score: 188
Period size: 46 Copynumber: 2.0 Consensus size: 46
3771419 AGTTACAGTA
3771429 AGAATCTTTTGTAGTGTTGGTACTTGGATATTCTAAAATGAACATT
1 AGAATCTTTTGTAGTGTTGGTACTTGGATATTCTAAAATGAACATT
3771475 AGAATCTTTTGTAGTGTTGGTACTTGGATATTCTAAAATGAACATT
1 AGAATCTTTTGTAGTGTTGGTACTTGGATATTCTAAAATGAACATT
3771521 AG
1 AG
3771523 CAAACGCTAG
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
46 48 1.00
ACGTcount: A:0.31, C:0.09, G:0.20, T:0.40
Consensus pattern (46 bp):
AGAATCTTTTGTAGTGTTGGTACTTGGATATTCTAAAATGAACATT
Found at i:3776421 original size:25 final size:24
Alignment explanation
Indices: 3776393--3776443 Score: 68
Period size: 25 Copynumber: 2.0 Consensus size: 24
3776383 TTTTTTTAAA
3776393 ATTTTTTA-TTATTTATTATTTTTTT
1 ATTTTTTAGTTATTTA--ATTTTTTT
3776418 ATTTTTTATGTTATTTAATTTTTTT
1 ATTTTTTA-GTTATTTAATTTTTTT
3776443 A
1 A
3776444 CTATACGTAT
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
25 17 0.71
27 7 0.29
ACGTcount: A:0.22, C:0.00, G:0.02, T:0.76
Consensus pattern (24 bp):
ATTTTTTAGTTATTTAATTTTTTT
Found at i:3776571 original size:23 final size:23
Alignment explanation
Indices: 3776519--3776571 Score: 54
Period size: 23 Copynumber: 2.3 Consensus size: 23
3776509 ATAAGTGTAA
**
3776519 TTTT-TTAAAAATATATTTATAT
1 TTTTATTAAAAATATATAAATAT
** *
3776541 AATAATTAAAAATATATAAATAT
1 TTTTATTAAAAATATATAAATAT
3776564 TTTTATTA
1 TTTTATTA
3776572 TATTAATATT
Statistics
Matches: 22, Mismatches: 8, Indels: 1
0.71 0.26 0.03
Matches are distributed among these distances:
22 1 0.05
23 21 0.95
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (23 bp):
TTTTATTAAAAATATATAAATAT
Found at i:3776573 original size:17 final size:16
Alignment explanation
Indices: 3776553--3776591 Score: 53
Period size: 17 Copynumber: 2.4 Consensus size: 16
3776543 TAATTAAAAA
3776553 TATATAAATATTTTTAT
1 TATATAAATA-TTTTAT
*
3776570 TATATTAATATTTTAT
1 TATATAAATATTTTAT
3776586 T-TATAA
1 TATATAA
3776592 TTTAGTTATT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
15 4 0.20
16 7 0.35
17 9 0.45
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (16 bp):
TATATAAATATTTTAT
Found at i:3777157 original size:17 final size:17
Alignment explanation
Indices: 3777110--3777158 Score: 62
Period size: 17 Copynumber: 2.9 Consensus size: 17
3777100 ATTATTTAAT
*
3777110 AATATAATATAATATTA
1 AATATAATATAATTTTA
* *
3777127 AATATATTAAAATTTTA
1 AATATAATATAATTTTA
*
3777144 AATAAAATATAATTT
1 AATATAATATAATTT
3777159 ATATATTAAT
Statistics
Matches: 26, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
17 26 1.00
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (17 bp):
AATATAATATAATTTTA
Found at i:3778098 original size:3 final size:3
Alignment explanation
Indices: 3778090--3778118 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
3778080 ATTGTGTTAA
3778090 TTC TTC TTC TTC TTC TTC TTC TTC TTC TT
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TT
3778119 TTCCAATTAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.00, C:0.31, G:0.00, T:0.69
Consensus pattern (3 bp):
TTC
Found at i:3778209 original size:5 final size:6
Alignment explanation
Indices: 3778179--3778206 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
3778169 GTTATTGGAA
3778179 TTTTTG TTTTTG TTTTTG TTTTTG TTTT
1 TTTTTG TTTTTG TTTTTG TTTTTG TTTT
3778207 GTTGAATCCT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.00, C:0.00, G:0.14, T:0.86
Consensus pattern (6 bp):
TTTTTG
Found at i:3793265 original size:21 final size:20
Alignment explanation
Indices: 3793224--3793266 Score: 52
Period size: 21 Copynumber: 2.1 Consensus size: 20
3793214 TTACAAAAAA
*
3793224 TTTAAATAAAAATAATGATT
1 TTTAAATAAAAATAATAATT
3793244 TTTAAATTAAAAA-AATAAATT
1 TTTAAA-TAAAAATAAT-AATT
3793265 TT
1 TT
3793267 GTTTGAGAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
20 9 0.45
21 11 0.55
ACGTcount: A:0.56, C:0.00, G:0.02, T:0.42
Consensus pattern (20 bp):
TTTAAATAAAAATAATAATT
Found at i:3793266 original size:20 final size:20
Alignment explanation
Indices: 3793224--3793266 Score: 52
Period size: 20 Copynumber: 2.1 Consensus size: 20
3793214 TTACAAAAAA
* *
3793224 TTTAAATAAAAATAATGATT
1 TTTAAATAAAAATAATAAAT
3793244 TTTAAATTAAAAA-AATAAAT
1 TTTAAA-TAAAAATAATAAAT
3793264 TTT
1 TTT
3793267 GTTTGAGAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
20 14 0.70
21 6 0.30
ACGTcount: A:0.56, C:0.00, G:0.02, T:0.42
Consensus pattern (20 bp):
TTTAAATAAAAATAATAAAT
Found at i:3794003 original size:26 final size:26
Alignment explanation
Indices: 3793974--3794034 Score: 77
Period size: 26 Copynumber: 2.3 Consensus size: 26
3793964 TCCACGCCGG
* *
3793974 CACCTTCCGTCCCAGTGGATCCCGCA
1 CACCTTCCCTCCCAATGGATCCCGCA
* * *
3794000 CACCTTCCCTTCCAATGGGTCCCGCT
1 CACCTTCCCTCCCAATGGATCCCGCA
3794026 CACCTTCCC
1 CACCTTCCC
3794035 ATACCTTCCC
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
26 30 1.00
ACGTcount: A:0.13, C:0.49, G:0.15, T:0.23
Consensus pattern (26 bp):
CACCTTCCCTCCCAATGGATCCCGCA
Found at i:3807281 original size:13 final size:13
Alignment explanation
Indices: 3807263--3807287 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
3807253 TATGTATTAT
3807263 TTTATAAAATTTA
1 TTTATAAAATTTA
3807276 TTTATAAAATTT
1 TTTATAAAATTT
3807288 TTATATTTTA
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:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (13 bp):
TTTATAAAATTTA
Found at i:3807379 original size:21 final size:22
Alignment explanation
Indices: 3807332--3807382 Score: 68
Period size: 22 Copynumber: 2.4 Consensus size: 22
3807322 ATAAAATTTA
* *
3807332 ATATATTAATAATTTATAATAT
1 ATATTTTAAAAATTTATAATAT
3807354 ATATTTTAAAAATTTAT-ATAT
1 ATATTTTAAAAATTTATAATAT
*
3807375 TTATTTTA
1 ATATTTTA
3807383 TTTGGTAACA
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
21 11 0.42
22 15 0.58
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (22 bp):
ATATTTTAAAAATTTATAATAT
Found at i:3807453 original size:25 final size:27
Alignment explanation
Indices: 3807396--3807471 Score: 68
Period size: 27 Copynumber: 2.8 Consensus size: 27
3807386 GGTAACATTC
3807396 GTATTATTATTTTAATAATATATTTTTT
1 GTATTATTATTTTAAT-ATATATTTTTT
*
3807424 ATATTA-TATTTTAAT-TA-ATTTTTAT
1 GTATTATTATTTTAATATATATTTTT-T
* * *
3807449 GTATTTAATATTATAAAATATAT
1 GTA-TTATTATTTTAATATATAT
3807472 AAATAATAAA
Statistics
Matches: 39, Mismatches: 4, Indels: 9
0.75 0.08 0.17
Matches are distributed among these distances:
24 6 0.15
25 5 0.13
26 3 0.08
27 16 0.41
28 7 0.18
29 2 0.05
ACGTcount: A:0.38, C:0.00, G:0.03, T:0.59
Consensus pattern (27 bp):
GTATTATTATTTTAATATATATTTTTT
Found at i:3807790 original size:3 final size:3
Alignment explanation
Indices: 3807784--3807812 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
3807774 GAAAAAATGG
3807784 TTC TTC TTC TTC TTC TTC TTC TTC TTC TT
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TT
3807813 ATCCATGGCT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.00, C:0.31, G:0.00, T:0.69
Consensus pattern (3 bp):
TTC
Found at i:3810158 original size:25 final size:25
Alignment explanation
Indices: 3810112--3810159 Score: 60
Period size: 25 Copynumber: 1.9 Consensus size: 25
3810102 AACTTGTTGA
* * *
3810112 TAATGGTTGTTCATTAGCGTATTCT
1 TAATGGCTGTTCATCAGAGTATTCT
*
3810137 TAATGGCTGTTCATCGGAGTATT
1 TAATGGCTGTTCATCAGAGTATT
3810160 GTATGATTGA
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 19 1.00
ACGTcount: A:0.21, C:0.12, G:0.23, T:0.44
Consensus pattern (25 bp):
TAATGGCTGTTCATCAGAGTATTCT
Found at i:3814583 original size:2 final size:2
Alignment explanation
Indices: 3814576--3814607 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
3814566 GCAACATAAA
3814576 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
3814608 TTAGATATTC
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:3816286 original size:45 final size:43
Alignment explanation
Indices: 3816241--3816322 Score: 121
Period size: 42 Copynumber: 1.9 Consensus size: 43
3816231 AATTCATTTA
* * *
3816241 TTATTCAATTATAATATAATTAATATTA-TTATTTTTTATGTT
1 TTATTTAATTATAATATAATTAATAATATTTATGTTTTATGTT
*
3816283 TTATTTATTTATAATATAATTAATAATATTTATGTTTTAT
1 TTATTTAATTATAATATAATTAATAATATTTATGTTTTAT
3816323 TATTTTATAT
Statistics
Matches: 35, Mismatches: 4, Indels: 1
0.88 0.10 0.03
Matches are distributed among these distances:
42 25 0.71
43 10 0.29
ACGTcount: A:0.37, C:0.01, G:0.02, T:0.60
Consensus pattern (43 bp):
TTATTTAATTATAATATAATTAATAATATTTATGTTTTATGTT
Found at i:3816316 original size:36 final size:36
Alignment explanation
Indices: 3816275--3816351 Score: 104
Period size: 36 Copynumber: 2.1 Consensus size: 36
3816265 ATTATTATTT
*
3816275 TTTATGTTTTATT-TATTTATA-ATATAATTAATAATA
1 TTTATGTTTTATTAT-TTTATATATAAAATTAATAA-A
*
3816311 TTTATGTTTTATTATTTTATATTTAAAATTAATAAA
1 TTTATGTTTTATTATTTTATATATAAAATTAATAAA
3816347 TTTAT
1 TTTAT
3816352 TTATTTAGTT
Statistics
Matches: 37, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
36 25 0.68
37 12 0.32
ACGTcount: A:0.38, C:0.00, G:0.03, T:0.60
Consensus pattern (36 bp):
TTTATGTTTTATTATTTTATATATAAAATTAATAAA
Found at i:3816334 original size:42 final size:42
Alignment explanation
Indices: 3816249--3816343 Score: 115
Period size: 42 Copynumber: 2.3 Consensus size: 42
3816239 TATTATTCAA
* * *
3816249 TTATAATATAATTAATATTATTATTTTTTATGTTTTATTTAT
1 TTATAATATAATTAATAATATTATGTTTTATGTTTTATATAT
3816291 TTATAATATAATTAATAATATTTATGTTTTAT-TATTT-TATAT
1 TTATAATATAATTAATAATA-TTATGTTTTATGT-TTTATATAT
*
3816333 TTAAAAT-TAAT
1 TTATAATATAAT
3816344 AAATTTATTT
Statistics
Matches: 47, Mismatches: 4, Indels: 5
0.84 0.07 0.09
Matches are distributed among these distances:
41 4 0.09
42 30 0.64
43 13 0.28
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.60
Consensus pattern (42 bp):
TTATAATATAATTAATAATATTATGTTTTATGTTTTATATAT
Found at i:3816414 original size:22 final size:21
Alignment explanation
Indices: 3816353--3816423 Score: 72
Period size: 22 Copynumber: 3.2 Consensus size: 21
3816343 TAAATTTATT
*
3816353 TATTTAGTTATATTCATAAATA
1 TATTTAATTATATT-ATAAATA
*
3816375 TATTTTTAATTAT-TTATAAACA
1 TA--TTTAATTATATTATAAATA
*
3816397 TATTTAATTATATGTATATATA
1 TATTTAATTATAT-TATAAATA
3816419 TATTT
1 TATTT
3816424 TTTTTTTCAA
Statistics
Matches: 41, Mismatches: 4, Indels: 8
0.77 0.08 0.15
Matches are distributed among these distances:
20 9 0.22
21 1 0.02
22 21 0.51
23 2 0.05
24 8 0.20
ACGTcount: A:0.39, C:0.03, G:0.03, T:0.55
Consensus pattern (21 bp):
TATTTAATTATATTATAAATA
Found at i:3816419 original size:20 final size:20
Alignment explanation
Indices: 3816372--3816419 Score: 51
Period size: 20 Copynumber: 2.4 Consensus size: 20
3816362 ATATTCATAA
* *
3816372 ATATATTTTTAATTATTTAT
1 ATATATATTTAATTATATAT
* * *
3816392 AAACATATTTAATTATATGT
1 ATATATATTTAATTATATAT
3816412 ATATATAT
1 ATATATAT
3816420 ATTTTTTTTT
Statistics
Matches: 21, Mismatches: 7, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.42, C:0.02, G:0.02, T:0.54
Consensus pattern (20 bp):
ATATATATTTAATTATATAT
Found at i:3828086 original size:3 final size:3
Alignment explanation
Indices: 3828078--3828110 Score: 66
Period size: 3 Copynumber: 11.0 Consensus size: 3
3828068 AATTAATGCA
3828078 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
3828111 TTGTCAATGC
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:3828723 original size:3 final size:3
Alignment explanation
Indices: 3828715--3828744 Score: 51
Period size: 3 Copynumber: 9.7 Consensus size: 3
3828705 TATAAAAAAT
3828715 TAA TAA TAA TTAA TAA TAA TAA TAA TAA TA
1 TAA TAA TAA -TAA TAA TAA TAA TAA TAA TA
3828745 TAAGAGTAGG
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
3 23 0.88
4 3 0.12
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (3 bp):
TAA
Found at i:3828725 original size:10 final size:10
Alignment explanation
Indices: 3828712--3828743 Score: 57
Period size: 10 Copynumber: 3.3 Consensus size: 10
3828702 GATTATAAAA
3828712 AATTAATAAT
1 AATTAATAAT
3828722 AATTAATAAT
1 AATTAATAAT
3828732 AA-TAATAAT
1 AATTAATAAT
3828741 AAT
1 AAT
3828744 ATAAGAGTAG
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
9 9 0.43
10 12 0.57
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (10 bp):
AATTAATAAT
Found at i:3830095 original size:3 final size:3
Alignment explanation
Indices: 3830087--3830115 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
3830077 AGAATTTAAC
3830087 ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
3830116 TTATTTATTA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
ATA
Found at i:3830684 original size:19 final size:19
Alignment explanation
Indices: 3830644--3830685 Score: 50
Period size: 19 Copynumber: 2.2 Consensus size: 19
3830634 GGTTTTTTTT
*
3830644 TTTTATATTTGATAAATTA
1 TTTTATATTTGATAAATAA
*
3830663 TTTTATATGTT-ATTAATAA
1 TTTTATAT-TTGATAAATAA
3830682 TTTT
1 TTTT
3830686 TTTAAATAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
19 18 0.90
20 2 0.10
ACGTcount: A:0.33, C:0.00, G:0.05, T:0.62
Consensus pattern (19 bp):
TTTTATATTTGATAAATAA
Found at i:3830721 original size:17 final size:17
Alignment explanation
Indices: 3830699--3830735 Score: 74
Period size: 17 Copynumber: 2.2 Consensus size: 17
3830689 AAATAAAATT
3830699 AATAAAATAAATCAAAC
1 AATAAAATAAATCAAAC
3830716 AATAAAATAAATCAAAC
1 AATAAAATAAATCAAAC
3830733 AAT
1 AAT
3830736 CATGTCATTA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.70, C:0.11, G:0.00, T:0.19
Consensus pattern (17 bp):
AATAAAATAAATCAAAC
Found at i:3830884 original size:3 final size:3
Alignment explanation
Indices: 3830878--3830907 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
3830868 ATCACAATAT
3830878 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
3830908 CACTTAAATA
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:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:3831381 original size:16 final size:16
Alignment explanation
Indices: 3831324--3831382 Score: 52
Period size: 16 Copynumber: 3.7 Consensus size: 16
3831314 AAAATCCAAA
*
3831324 AATTT-TTAATAATAT
1 AATTTATTAATAGTAT
3831339 AATATTATTAA-AGT-T
1 AAT-TTATTAATAGTAT
3831354 ATATTATATTAATAGTAT
1 A-ATT-TATTAATAGTAT
*
3831372 AATTTTTTAAT
1 AATTTATTAAT
3831383 TAATAAATTG
Statistics
Matches: 36, Mismatches: 2, Indels: 11
0.73 0.04 0.22
Matches are distributed among these distances:
15 6 0.17
16 18 0.50
17 10 0.28
18 2 0.06
ACGTcount: A:0.44, C:0.00, G:0.03, T:0.53
Consensus pattern (16 bp):
AATTTATTAATAGTAT
Found at i:3832743 original size:4 final size:4
Alignment explanation
Indices: 3832734--3832763 Score: 51
Period size: 4 Copynumber: 7.5 Consensus size: 4
3832724 TTATTTTTTT
*
3832734 ATAG ATAG ATTG ATAG ATAG ATAG ATAG AT
1 ATAG ATAG ATAG ATAG ATAG ATAG ATAG AT
3832764 TCGGAAACGT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
4 24 1.00
ACGTcount: A:0.47, C:0.00, G:0.23, T:0.30
Consensus pattern (4 bp):
ATAG
Found at i:3836627 original size:36 final size:35
Alignment explanation
Indices: 3836559--3836628 Score: 86
Period size: 36 Copynumber: 2.0 Consensus size: 35
3836549 TAATATTTAT
* *
3836559 ATATTAAACATGATAATTAATAATTAATTTGATAA
1 ATATTAAACATGAAAATTAATAATTAACTTGATAA
* * *
3836594 ATATTAATACATTAAAATTCATAATTTACTTGATA
1 ATATTAA-ACATGAAAATTAATAATTAACTTGATA
3836629 TAAATAATTT
Statistics
Matches: 29, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
35 7 0.24
36 22 0.76
ACGTcount: A:0.49, C:0.06, G:0.04, T:0.41
Consensus pattern (35 bp):
ATATTAAACATGAAAATTAATAATTAACTTGATAA
Found at i:3836962 original size:11 final size:10
Alignment explanation
Indices: 3836924--3836969 Score: 56
Period size: 11 Copynumber: 4.4 Consensus size: 10
3836914 ATAAAATTTA
3836924 AAAAATAAAT
1 AAAAATAAAT
**
3836934 AAAATATATTT
1 AAAA-ATAAAT
3836945 AAAAATAAAT
1 AAAAATAAAT
3836955 AAATAATAAAT
1 AAA-AATAAAT
3836966 AAAA
1 AAAA
3836970 TATATTTCAC
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
10 12 0.40
11 18 0.60
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (10 bp):
AAAAATAAAT
Found at i:3836968 original size:21 final size:21
Alignment explanation
Indices: 3836924--3836969 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
3836914 ATAAAATTTA
**
3836924 AAAAATAAATAAAATATATTT
1 AAAAATAAATAAAATATAAAT
3836945 AAAAATAAAT-AAATAATAAAT
1 AAAAATAAATAAAAT-ATAAAT
3836966 AAAA
1 AAAA
3836970 TATATTTCAC
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
20 4 0.18
21 18 0.82
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (21 bp):
AAAAATAAATAAAATATAAAT
Found at i:3849636 original size:2 final size:2
Alignment explanation
Indices: 3849629--3849658 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
3849619 ATCAATCAAC
3849629 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
3849659 CTGTCACTCG
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:3850793 original size:34 final size:34
Alignment explanation
Indices: 3850715--3850794 Score: 92
Period size: 34 Copynumber: 2.4 Consensus size: 34
3850705 GAATTTGTAT
* * *
3850715 GAAAATTTAAATCTAAAATAAAATACAAGTCGAA
1 GAAAATTTAAAACAAAAATAAAAAACAAGTCGAA
*
3850749 GAAAATTTAAAACAAAAATAAAAAATTAAGT-GAA
1 GAAAATTTAAAACAAAAATAAAAAA-CAAGTCGAA
3850783 -AAAATATTAAAA
1 GAAAAT-TTAAAA
3850795 AAATAATTAT
Statistics
Matches: 40, Mismatches: 4, Indels: 4
0.83 0.08 0.08
Matches are distributed among these distances:
33 5 0.12
34 31 0.77
35 4 0.10
ACGTcount: A:0.65, C:0.05, G:0.07, T:0.23
Consensus pattern (34 bp):
GAAAATTTAAAACAAAAATAAAAAACAAGTCGAA
Found at i:3854055 original size:18 final size:17
Alignment explanation
Indices: 3854015--3854055 Score: 55
Period size: 18 Copynumber: 2.3 Consensus size: 17
3854005 TCATCATTGC
*
3854015 CATTGCCATTACCATTA
1 CATTGCCATTAACATTA
3854032 CAATTGCCATTAACATTAA
1 C-ATTGCCATTAACATT-A
3854051 CATTG
1 CATTG
3854056 GAGCCAGCTT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
17 1 0.05
18 18 0.86
19 2 0.10
ACGTcount: A:0.34, C:0.24, G:0.07, T:0.34
Consensus pattern (17 bp):
CATTGCCATTAACATTA
Found at i:3856184 original size:15 final size:16
Alignment explanation
Indices: 3856157--3856186 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
3856147 TATTTTTATT
3856157 ATTAAATAGTAATTTC
1 ATTAAATAGTAATTTC
3856173 ATTAAA-AGTAATTT
1 ATTAAATAGTAATTT
3856187 GATCGAGTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 8 0.57
16 6 0.43
ACGTcount: A:0.47, C:0.03, G:0.07, T:0.43
Consensus pattern (16 bp):
ATTAAATAGTAATTTC
Found at i:3861352 original size:18 final size:18
Alignment explanation
Indices: 3861325--3861359 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
3861315 ACAATATCAC
3861325 AGTGTAATAAAAAAAAAT
1 AGTGTAATAAAAAAAAAT
*
3861343 AGTGTGATAAAAAAAAA
1 AGTGTAATAAAAAAAAA
3861360 AGAAGAAGAG
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:0.66, C:0.00, G:0.14, T:0.20
Consensus pattern (18 bp):
AGTGTAATAAAAAAAAAT
Found at i:3863947 original size:2 final size:2
Alignment explanation
Indices: 3863940--3863972 Score: 57
Period size: 2 Copynumber: 16.5 Consensus size: 2
3863930 TCCACTTTTC
*
3863940 CT CT CT CT CT CT CT CT CT CT CT CT CT CT GT CT C
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT C
3863973 ATCTAATCTC
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.00, C:0.48, G:0.03, T:0.48
Consensus pattern (2 bp):
CT
Found at i:3864148 original size:21 final size:21
Alignment explanation
Indices: 3864122--3864183 Score: 56
Period size: 21 Copynumber: 2.8 Consensus size: 21
3864112 TTTAAATTTT
3864122 TTATTTATAATTATAATAT-TA
1 TTATTTATAATTA-AATATATA
*
3864143 TTATTTTTATATTAAAAATATATA
1 TTATTTATA-ATT--AAATATATA
3864167 TT-TTTAATAATTAAATA
1 TTATTT-ATAATTAAATA
3864184 AATAAATGAT
Statistics
Matches: 34, Mismatches: 2, Indels: 10
0.74 0.04 0.22
Matches are distributed among these distances:
21 13 0.38
22 3 0.09
23 11 0.32
24 7 0.21
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (21 bp):
TTATTTATAATTAAATATATA
Found at i:3866925 original size:21 final size:21
Alignment explanation
Indices: 3866884--3866926 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 21
3866874 TATGGAGTAC
*
3866884 AGAAGTCCTTAGTTGAAATGG
1 AGAAGTCCTTAGATGAAATGG
*
3866905 AGAATGTCCTTA-ATGACATGG
1 AGAA-GTCCTTAGATGAAATGG
3866926 A
1 A
3866927 TGATGTCAAG
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
21 12 0.63
22 7 0.37
ACGTcount: A:0.35, C:0.12, G:0.26, T:0.28
Consensus pattern (21 bp):
AGAAGTCCTTAGATGAAATGG
Found at i:3868292 original size:20 final size:22
Alignment explanation
Indices: 3868242--3868296 Score: 62
Period size: 20 Copynumber: 2.6 Consensus size: 22
3868232 TTATATTATT
3868242 TTTTAATATAATTATATAAAAAA
1 TTTTAATAT-ATTATATAAAAAA
* *
3868265 TATT-ATATATT-TAT-ATAAA
1 TTTTAATATATTATATAAAAAA
3868284 TTTTAATATATTA
1 TTTTAATATATTA
3868297 ATTATTTATA
Statistics
Matches: 27, Mismatches: 3, Indels: 6
0.75 0.08 0.17
Matches are distributed among these distances:
19 7 0.26
20 10 0.37
21 3 0.11
22 4 0.15
23 3 0.11
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (22 bp):
TTTTAATATATTATATAAAAAA
Found at i:3868293 original size:22 final size:21
Alignment explanation
Indices: 3868242--3868294 Score: 54
Period size: 22 Copynumber: 2.5 Consensus size: 21
3868232 TTATATTATT
3868242 TTTTAATATA-ATTATATAAA
1 TTTTAATATATATTATATAAA
*** *
3868262 AAATATTATATATTTATATAAA
1 TTTTAATATATA-TTATATAAA
3868284 TTTTAATATAT
1 TTTTAATATAT
3868295 TAATTATTTA
Statistics
Matches: 23, Mismatches: 8, Indels: 2
0.70 0.24 0.06
Matches are distributed among these distances:
20 6 0.26
21 1 0.04
22 16 0.70
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (21 bp):
TTTTAATATATATTATATAAA
Found at i:3868312 original size:32 final size:34
Alignment explanation
Indices: 3868264--3868336 Score: 114
Period size: 32 Copynumber: 2.2 Consensus size: 34
3868254 TATATAAAAA
*
3868264 ATATTATATATTTATATAAATTTTAATATATTAAT
1 ATATT-TATATTTATATAAATTTTAAAATATTAAT
3868299 -TATTTATA-TTATATAAATTTTAAAATATTAAT
1 ATATTTATATTTATATAAATTTTAAAATATTAAT
3868331 ATATTT
1 ATATTT
3868337 TTACGATGTT
Statistics
Matches: 36, Mismatches: 1, Indels: 4
0.88 0.02 0.10
Matches are distributed among these distances:
32 23 0.64
33 9 0.25
34 4 0.11
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (34 bp):
ATATTTATATTTATATAAATTTTAAAATATTAAT
Found at i:3871832 original size:6 final size:6
Alignment explanation
Indices: 3871821--3871849 Score: 58
Period size: 6 Copynumber: 4.8 Consensus size: 6
3871811 CTTGTTGAAT
3871821 AAGGCA AAGGCA AAGGCA AAGGCA AAGGC
1 AAGGCA AAGGCA AAGGCA AAGGCA AAGGC
3871850 CTCGGCATTC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.48, C:0.17, G:0.34, T:0.00
Consensus pattern (6 bp):
AAGGCA
Found at i:3874516 original size:2 final size:2
Alignment explanation
Indices: 3874509--3874533 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
3874499 CGTTCTTCAC
3874509 AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG A
3874534 ACAACAGAGC
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:0.48, T:0.00
Consensus pattern (2 bp):
AG
Found at i:3874600 original size:2 final size:2
Alignment explanation
Indices: 3874595--3874623 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
3874585 AAAGTATATA
3874595 AG AG AG AG AG AG AG AG AG AG AG AG A- AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
3874624 GGGGGGAAAG
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 25 0.96
ACGTcount: A:0.52, C:0.00, G:0.48, T:0.00
Consensus pattern (2 bp):
AG
Found at i:3874832 original size:13 final size:13
Alignment explanation
Indices: 3874800--3874832 Score: 50
Period size: 13 Copynumber: 2.5 Consensus size: 13
3874790 TACTTAAGTA
3874800 AATTATAAAAAAT
1 AATTATAAAAAAT
3874813 -ATATATAAAAAAT
1 AAT-TATAAAAAAT
3874826 AATTATA
1 AATTATA
3874833 CTAAAATTTA
Statistics
Matches: 18, Mismatches: 0, Indels: 4
0.82 0.00 0.18
Matches are distributed among these distances:
12 2 0.11
13 14 0.78
14 2 0.11
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (13 bp):
AATTATAAAAAAT
Found at i:3874838 original size:28 final size:26
Alignment explanation
Indices: 3874800--3874859 Score: 68
Period size: 28 Copynumber: 2.2 Consensus size: 26
3874790 TACTTAAGTA
3874800 AATTATAAAAA-ATATATATAAAAAAT
1 AATTATAAAAATATATA-ATAAAAAAT
* *
3874826 AATTATACTAAAATTTATAATAATAAAT
1 AATTATA--AAAATATATAATAAAAAAT
3874854 AATTAT
1 AATTAT
3874860 TTGATATTTT
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
26 7 0.24
28 18 0.62
29 4 0.14
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.37
Consensus pattern (26 bp):
AATTATAAAAATATATAATAAAAAAT
Found at i:3874929 original size:22 final size:24
Alignment explanation
Indices: 3874895--3874938 Score: 74
Period size: 22 Copynumber: 1.9 Consensus size: 24
3874885 AAGTATATAT
3874895 TTTTTATTCATTTTATTTATAAAA
1 TTTTTATTCATTTTATTTATAAAA
3874919 TTTTTA-T-ATTTTATTTATAA
1 TTTTTATTCATTTTATTTATAA
3874939 TATATTAAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
22 13 0.65
23 1 0.05
24 6 0.30
ACGTcount: A:0.32, C:0.02, G:0.00, T:0.66
Consensus pattern (24 bp):
TTTTTATTCATTTTATTTATAAAA
Found at i:3875032 original size:20 final size:20
Alignment explanation
Indices: 3875003--3875048 Score: 58
Period size: 20 Copynumber: 2.4 Consensus size: 20
3874993 ATAGAAGAAC
* *
3875003 TTTT-TTTTATATGTAAATG
1 TTTTATTTTATATATAAATA
*
3875022 TTTTATTTTATATATAATTA
1 TTTTATTTTATATATAAATA
3875042 TTTTATT
1 TTTTATT
3875049 ATTTTTAATT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
19 4 0.17
20 19 0.83
ACGTcount: A:0.28, C:0.00, G:0.04, T:0.67
Consensus pattern (20 bp):
TTTTATTTTATATATAAATA
Found at i:3875996 original size:18 final size:17
Alignment explanation
Indices: 3875973--3876007 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
3875963 AACTTAATAT
*
3875973 TAATTAAATATAATTTTA
1 TAATTAAA-AAAATTTTA
3875991 TAATTAAAAAAATTTTA
1 TAATTAAAAAAATTTTA
3876008 AAAATAAAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 8 0.50
18 8 0.50
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
TAATTAAAAAAATTTTA
Found at i:3876006 original size:17 final size:18
Alignment explanation
Indices: 3875973--3876035 Score: 57
Period size: 18 Copynumber: 3.8 Consensus size: 18
3875963 AACTTAATAT
*
3875973 TAATTAAATATAATTTTA
1 TAATTAAATAAAATTTTA
3875991 TAATTAAA-AAAA-TTT-
1 TAATTAAATAAAATTTTA
*
3876006 TAA--AAATAAAATATTAA
1 TAATTAAATAAAAT-TTTA
3876023 TAATT-AATAAAAT
1 TAATTAAATAAAAT
3876036 ATTTTTTTTA
Statistics
Matches: 37, Mismatches: 2, Indels: 12
0.73 0.04 0.24
Matches are distributed among these distances:
13 3 0.08
14 4 0.11
15 3 0.08
16 5 0.14
17 6 0.16
18 16 0.43
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (18 bp):
TAATTAAATAAAATTTTA
Found at i:3880004 original size:15 final size:15
Alignment explanation
Indices: 3879972--3880010 Score: 53
Period size: 15 Copynumber: 2.7 Consensus size: 15
3879962 AATATTTTTA
3879972 ATTAAATT-AAATTG
1 ATTAAATTAAAATTG
*
3879986 ATTAAATTAAAATTT
1 ATTAAATTAAAATTG
*
3880001 ATTAATTTAA
1 ATTAAATTAA
3880011 TTTAGCTAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
14 8 0.36
15 14 0.64
ACGTcount: A:0.51, C:0.00, G:0.03, T:0.46
Consensus pattern (15 bp):
ATTAAATTAAAATTG
Found at i:3880012 original size:19 final size:19
Alignment explanation
Indices: 3879937--3880012 Score: 52
Period size: 19 Copynumber: 4.0 Consensus size: 19
3879927 TTTTATTTAA
*
3879937 AAATTAAATCGAATTTAAATT
1 AAATTAAAT-TAATTT-AATT
3879958 AAA-TAATATT--TTTAATT
1 AAATTAA-ATTAATTTAATT
* *
3879975 AAATTAAATTGATTAAATT
1 AAATTAAATTAATTTAATT
*
3879994 AAAATT-TATTAATTTAATT
1 -AAATTAAATTAATTTAATT
3880013 TAGCTAATTA
Statistics
Matches: 45, Mismatches: 5, Indels: 12
0.73 0.08 0.19
Matches are distributed among these distances:
17 10 0.22
18 6 0.13
19 16 0.36
20 8 0.18
21 5 0.11
ACGTcount: A:0.50, C:0.01, G:0.03, T:0.46
Consensus pattern (19 bp):
AAATTAAATTAATTTAATT
Found at i:3880193 original size:9 final size:9
Alignment explanation
Indices: 3880167--3880215 Score: 55
Period size: 9 Copynumber: 5.4 Consensus size: 9
3880157 CATAAATAAA
3880167 AAATTAATT
1 AAATTAATT
*
3880176 TAATT-ATT
1 AAATTAATT
3880184 AAATTAATT
1 AAATTAATT
* *
3880193 AATTTAATA
1 AAATTAATT
3880202 AAATTAAATT
1 AAATT-AATT
3880212 AAAT
1 AAAT
3880216 AAAATATCAA
Statistics
Matches: 32, Mismatches: 6, Indels: 3
0.78 0.15 0.07
Matches are distributed among these distances:
8 7 0.22
9 18 0.56
10 7 0.22
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (9 bp):
AAATTAATT
Found at i:3880203 original size:17 final size:17
Alignment explanation
Indices: 3880166--3880213 Score: 53
Period size: 17 Copynumber: 2.7 Consensus size: 17
3880156 TCATAAATAA
3880166 AAAATTAATTTAATT-AT
1 AAAATTAA-TTAATTAAT
*
3880183 TAAATTAATTAATTTAAT
1 AAAATTAATTAA-TTAAT
3880201 AAAATTAAATTAA
1 AAAATT-AATTAA
3880214 ATAAAATATC
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
16 4 0.15
17 9 0.35
18 7 0.27
19 6 0.23
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (17 bp):
AAAATTAATTAATTAAT
Found at i:3881275 original size:17 final size:16
Alignment explanation
Indices: 3881236--3881275 Score: 53
Period size: 17 Copynumber: 2.4 Consensus size: 16
3881226 TATTAATAAA
*
3881236 TAAAAATTTTATATTT
1 TAAAAAATTTATATTT
*
3881252 TTAAAAATTTATTATTT
1 TAAAAAATTTA-TATTT
3881269 TAAAAAA
1 TAAAAAA
3881276 ATATAAAACT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
16 9 0.45
17 11 0.55
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (16 bp):
TAAAAAATTTATATTT
Found at i:3882263 original size:17 final size:17
Alignment explanation
Indices: 3882206--3882280 Score: 61
Period size: 17 Copynumber: 4.7 Consensus size: 17
3882196 ATATTTATTT
*
3882206 TTTATTTAATTTA-ATA
1 TTTATTAAATTTATATA
*
3882222 TTT-TTAAA--AATA-A
1 TTTATTAAATTTATATA
* *
3882235 TTTAATATATTTATATA
1 TTTATTAAATTTATATA
*
3882252 TTTATTAAATTTAAATA
1 TTTATTAAATTTATATA
*
3882269 TTTAATAAATTT
1 TTTATTAAATTT
3882281 TATTTTTTAG
Statistics
Matches: 45, Mismatches: 9, Indels: 9
0.71 0.14 0.14
Matches are distributed among these distances:
13 5 0.11
14 4 0.09
15 4 0.09
16 6 0.13
17 26 0.58
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (17 bp):
TTTATTAAATTTATATA
Found at i:3891562 original size:15 final size:16
Alignment explanation
Indices: 3891542--3891601 Score: 67
Period size: 15 Copynumber: 4.0 Consensus size: 16
3891532 GTGGAGCTGA
3891542 TTATAT-TAAATATA-
1 TTATATATAAATATAT
3891556 TT-TATATAAATA-AT
1 TTATATATAAATATAT
*
3891570 TTATATATAAA-ATAA
1 TTATATATAAATATAT
3891585 TTATAATATAAATATAT
1 TTAT-ATATAAATATAT
3891602 ATTTTAAAAT
Statistics
Matches: 38, Mismatches: 2, Indels: 9
0.78 0.04 0.18
Matches are distributed among these distances:
13 4 0.11
14 11 0.29
15 13 0.34
16 7 0.18
17 3 0.08
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (16 bp):
TTATATATAAATATAT
Found at i:3891573 original size:13 final size:14
Alignment explanation
Indices: 3891542--3891601 Score: 59
Period size: 13 Copynumber: 4.0 Consensus size: 14
3891532 GTGGAGCTGA
3891542 TTATATTAAATATAT
1 TTATA-TAAATATAT
3891557 TTATATAAATA-AT
1 TTATATAAATATAT
*
3891570 TTATATATAAAATAAT
1 TTATATA-AATAT-AT
3891586 TATAATATAAATATAT
1 T-T-ATATAAATATAT
3891602 ATTTTAAAAT
Statistics
Matches: 38, Mismatches: 2, Indels: 9
0.78 0.04 0.18
Matches are distributed among these distances:
13 9 0.24
14 9 0.24
15 5 0.13
16 5 0.13
17 5 0.13
18 5 0.13
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (14 bp):
TTATATAAATATAT
Found at i:3891641 original size:24 final size:23
Alignment explanation
Indices: 3891589--3891641 Score: 61
Period size: 24 Copynumber: 2.2 Consensus size: 23
3891579 AAATAATTAT
* *
3891589 AATATAAATATATATTTTAAAATT
1 AATA-AAATATAAATTTTAAAATA
*
3891613 TATAAAATATAAATTATTAAAATA
1 AATAAAATATAAATT-TTAAAATA
3891637 AATAA
1 AATAA
3891642 TAAAATTGAT
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
23 10 0.42
24 14 0.58
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (23 bp):
AATAAAATATAAATTTTAAAATA
Found at i:3892570 original size:13 final size:14
Alignment explanation
Indices: 3892541--3892570 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
3892531 TTGACCACAA
3892541 AAATTATTTTTTAT
1 AAATTATTTTTTAT
3892555 AAATTATTTTTT-T
1 AAATTATTTTTTAT
3892568 AAA
1 AAA
3892571 GAATAAATTT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 4 0.25
14 12 0.75
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (14 bp):
AAATTATTTTTTAT
Found at i:3892616 original size:16 final size:16
Alignment explanation
Indices: 3892597--3892629 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
3892587 TTAATTTATC
3892597 AAATAA-TATATTTTAA
1 AAATAATTA-ATTTTAA
3892613 AAATAATTAATTTTAA
1 AAATAATTAATTTTAA
3892629 A
1 A
3892630 TTTAAATTTA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 14 0.88
17 2 0.12
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (16 bp):
AAATAATTAATTTTAA
Found at i:3892815 original size:16 final size:17
Alignment explanation
Indices: 3892791--3892823 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
3892781 ATATTATCAT
*
3892791 TTAAGATAA-TAATTTA
1 TTAAAATAATTAATTTA
3892807 TTAAAATAATTAATTTA
1 TTAAAATAATTAATTTA
3892824 AATGATATTT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 8 0.53
17 7 0.47
ACGTcount: A:0.52, C:0.00, G:0.03, T:0.45
Consensus pattern (17 bp):
TTAAAATAATTAATTTA
Found at i:3893756 original size:3 final size:3
Alignment explanation
Indices: 3893739--3893777 Score: 51
Period size: 3 Copynumber: 13.0 Consensus size: 3
3893729 CCCTTCCTCC
* * *
3893739 TCA TCT TCA TGA TCA TCA TGA TCA TCA TCA TCA TCA TCA
1 TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA
3893778 CCACCAACAT
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.31, C:0.28, G:0.05, T:0.36
Consensus pattern (3 bp):
TCA
Found at i:3902381 original size:2 final size:2
Alignment explanation
Indices: 3902376--3902402 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
3902366 TGTTTGAATT
3902376 TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC T
3902403 AGTTGAAAGA
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:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
TC
Found at i:3903040 original size:25 final size:25
Alignment explanation
Indices: 3902988--3903041 Score: 65
Period size: 25 Copynumber: 2.2 Consensus size: 25
3902978 TAGTAGATTT
* * *
3902988 TAAATATTTTTAACTTATATATATA
1 TAAATATTTTTAAATTATAAATAAA
3903013 TAAATATTTTTAAA-TATAAAATAAA
1 TAAATATTTTTAAATTAT-AAATAAA
3903038 TAAA
1 TAAA
3903042 ATTAAATAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
24 3 0.12
25 22 0.88
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (25 bp):
TAAATATTTTTAAATTATAAATAAA
Found at i:3903184 original size:32 final size:31
Alignment explanation
Indices: 3903147--3903261 Score: 151
Period size: 32 Copynumber: 3.6 Consensus size: 31
3903137 GTTAAAACTT
*
3903147 TTTAATAACTATCAAATTTATAAGTAATTATA
1 TTTAAT-ATTATCAAATTTATAAGTAATTATA
* *
3903179 TTTAATATTTATCAAATTTTTAAGTAATTTTA
1 TTTAATA-TTATCAAATTTATAAGTAATTATA
* *
3903211 CTTAATATTCATCAAATTTATAAATAATTATA
1 TTTAATATT-ATCAAATTTATAAGTAATTATA
3903243 TTTAAT-TTATCAAATTTAT
1 TTTAATATTATCAAATTTAT
3903262 GATGAATATC
Statistics
Matches: 73, Mismatches: 8, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
30 11 0.15
31 5 0.07
32 57 0.78
ACGTcount: A:0.43, C:0.06, G:0.02, T:0.50
Consensus pattern (31 bp):
TTTAATATTATCAAATTTATAAGTAATTATA
Found at i:3904627 original size:13 final size:14
Alignment explanation
Indices: 3904606--3904644 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 14
3904596 TTTATAAAAC
3904606 ATATAAATATT-TT
1 ATATAAATATTATT
*
3904619 ATATTAATATTATT
1 ATATAAATATTATT
*
3904633 AAATAAATATTA
1 ATATAAATATTA
3904645 ACGTAACGTT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
13 10 0.45
14 12 0.55
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (14 bp):
ATATAAATATTATT
Found at i:3904818 original size:22 final size:25
Alignment explanation
Indices: 3904782--3904834 Score: 85
Period size: 22 Copynumber: 2.2 Consensus size: 25
3904772 TTAAATATTT
3904782 ATATATTTGACAAAATAATAATATA
1 ATATATTTGACAAAATAATAATATA
3904807 A-ATATTT-A-AAAATAATAATATA
1 ATATATTTGACAAAATAATAATATA
3904829 ATATAT
1 ATATAT
3904835 AAATTATTTA
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
22 15 0.56
23 5 0.19
24 6 0.22
25 1 0.04
ACGTcount: A:0.58, C:0.02, G:0.02, T:0.38
Consensus pattern (25 bp):
ATATATTTGACAAAATAATAATATA
Found at i:3906298 original size:13 final size:13
Alignment explanation
Indices: 3906280--3906307 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
3906270 ATTTTTAAAC
3906280 TTGTTAAATATCA
1 TTGTTAAATATCA
3906293 TTGTTAAATATCA
1 TTGTTAAATATCA
3906306 TT
1 TT
3906308 ATGAGAGTAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.36, C:0.07, G:0.07, T:0.50
Consensus pattern (13 bp):
TTGTTAAATATCA
Done.