Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold37
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: 836391
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Warning! 25 characters in sequence are not A, C, G, or T
File 6 of 6
Found at i:758379 original size:6 final size:6
Alignment explanation
Indices: 758370--758400 Score: 53
Period size: 6 Copynumber: 5.2 Consensus size: 6
758360 TATAAAAGTA
*
758370 AAATTT AAATGT AAATTT AAATTT AAATTT A
1 AAATTT AAATTT AAATTT AAATTT AAATTT A
758401 TCGGATTTTG
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.03, T:0.45
Consensus pattern (6 bp):
AAATTT
Found at i:759004 original size:2 final size:2
Alignment explanation
Indices: 758997--759044 Score: 96
Period size: 2 Copynumber: 24.0 Consensus size: 2
758987 GTAATTAGTT
758997 TA TA TA TA 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 TA TA TA TA
759039 TA TA TA
1 TA TA TA
759045 AATGGAGTGA
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 46 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:759861 original size:16 final size:17
Alignment explanation
Indices: 759842--759880 Score: 55
Period size: 17 Copynumber: 2.4 Consensus size: 17
759832 GAATATTATA
759842 TATTTA-TA-TAAGTTTT
1 TATTTATTATTAA-TTTT
759858 TATTTATTATTAATTTT
1 TATTTATTATTAATTTT
759875 TATTTA
1 TATTTA
759881 AATTTTGACA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
16 6 0.29
17 12 0.57
18 3 0.14
ACGTcount: A:0.31, C:0.00, G:0.03, T:0.67
Consensus pattern (17 bp):
TATTTATTATTAATTTT
Found at i:759949 original size:23 final size:25
Alignment explanation
Indices: 759894--759950 Score: 75
Period size: 25 Copynumber: 2.4 Consensus size: 25
759884 TTTGACATAT
* *
759894 TTTTTTAT-TTATATTATATTTATA
1 TTTTTTATATCATACTATATTTATA
759918 TTTTTTATATCATACTATATTT-TA
1 TTTTTTATATCATACTATATTTATA
759942 -TTTTTATAT
1 TTTTTTATAT
759951 GACACATAAT
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
23 9 0.30
24 10 0.33
25 11 0.37
ACGTcount: A:0.28, C:0.04, G:0.00, T:0.68
Consensus pattern (25 bp):
TTTTTTATATCATACTATATTTATA
Found at i:761155 original size:5 final size:5
Alignment explanation
Indices: 761147--761315 Score: 68
Period size: 5 Copynumber: 33.8 Consensus size: 5
761137 AAAAAAAAAT
* *
761147 ATATA ATATA ATAAAA ATATA ATATA ATATAA AAATA ATATGA ATATA
1 ATATA ATATA AT-ATA ATATA ATATA ATAT-A ATATA ATAT-A ATATA
* * * * *
761195 ATATA AT-T- ATATA A-ATA TTTTA AAATTA TTATA ATATA A-ATT AT-TA
1 ATATA ATATA ATATA ATATA ATATA ATA-TA ATATA ATATA ATATA ATATA
* * * * * *
761241 ACT-TA TTA-A ATTTA TATAAA CATAAA ATATA TTA-A ATATAA ATAAA
1 A-TATA ATATA ATATA -ATATA -ATATA ATATA ATATA ATAT-A ATATA
*
761287 ATATA ATATA ATATA A-ATA CATAAA ATAT
1 ATATA ATATA ATATA ATATA -ATATA ATAT
761316 TAATTTTATT
Statistics
Matches: 121, Mismatches: 27, Indels: 32
0.67 0.15 0.18
Matches are distributed among these distances:
3 2 0.02
4 19 0.16
5 70 0.58
6 30 0.25
ACGTcount: A:0.59, C:0.02, G:0.01, T:0.38
Consensus pattern (5 bp):
ATATA
Found at i:761304 original size:16 final size:16
Alignment explanation
Indices: 761147--761315 Score: 86
Period size: 16 Copynumber: 11.2 Consensus size: 16
761137 AAAAAAAAAT
*
761147 ATATAATATAATAAAA
1 ATATAATATAATATAA
761163 ATATAATATAATATAA
1 ATATAATATAATATAA
*
761179 AAATAATATGAATAT-A
1 ATATAATAT-AATATAA
761195 ATATAAT-T-ATATAA
1 ATATAATATAATATAA
761209 ATAT--T-T--TA-AA
1 ATATAATATAATATAA
*
761219 AT-TATTATAATATAA
1 ATATAATATAATATAA
761234 AT-T-AT-TAACTTATTAA
1 ATATAATATAA--TA-TAA
* *
761250 AT-TTATATAAACATAAA
1 ATATAATAT-AATAT-AA
*
761267 ATATATTA-AATATAA
1 ATATAATATAATATAA
*
761282 ATAAAATATAATAT-A
1 ATATAATATAATATAA
761297 ATATAA-ATACATA-AA
1 ATATAATATA-ATATAA
761312 ATAT
1 ATAT
761316 TAATTTTATT
Statistics
Matches: 123, Mismatches: 11, Indels: 39
0.71 0.06 0.23
Matches are distributed among these distances:
9 1 0.01
10 4 0.03
11 3 0.02
12 3 0.02
13 7 0.06
14 11 0.09
15 30 0.24
16 46 0.37
17 12 0.10
18 4 0.03
19 2 0.02
ACGTcount: A:0.59, C:0.02, G:0.01, T:0.38
Consensus pattern (16 bp):
ATATAATATAATATAA
Found at i:761305 original size:11 final size:11
Alignment explanation
Indices: 761147--761305 Score: 73
Period size: 11 Copynumber: 14.3 Consensus size: 11
761137 AAAAAAAAAT
761147 ATATAATAT-A
1 ATATAATATAA
*
761157 ATA-AAAATATA
1 ATATAATATA-A
761168 ATATAATATAA
1 ATATAATATAA
* *
761179 AAATAATATGA
1 ATATAATATAA
761190 ATATAATAT-A
1 ATATAATATAA
761200 AT-T-ATATAA
1 ATATAATATAA
* *
761209 ATATTTTAAAATTA
1 ATA---TAATATAA
*
761223 TTATAATATAA
1 ATATAATATAA
761234 ATTATTAACTTATTAA
1 A-TA-TAA--TA-TAA
*
761250 AT-TTATATAA
1 ATATAATATAA
* * *
761260 ACATAAAATAT
1 ATATAATATAA
761271 AT-TAAATATAA
1 ATAT-AATATAA
*
761282 ATAAAATAT-A
1 ATATAATATAA
761292 ATATAATATAA
1 ATATAATATAA
761303 ATA
1 ATA
761306 CATAAAATAT
Statistics
Matches: 110, Mismatches: 21, Indels: 35
0.66 0.13 0.21
Matches are distributed among these distances:
8 4 0.04
9 8 0.07
10 20 0.18
11 52 0.47
12 7 0.06
13 6 0.05
14 6 0.05
15 3 0.03
16 4 0.04
ACGTcount: A:0.59, C:0.01, G:0.01, T:0.39
Consensus pattern (11 bp):
ATATAATATAA
Found at i:761310 original size:25 final size:25
Alignment explanation
Indices: 761143--761315 Score: 77
Period size: 26 Copynumber: 6.7 Consensus size: 25
761133 TATGAAAAAA
* *
761143 AAATATATAATATAATAAAAATATAAT
1 AAATATA-AATAAAAT-ATAATATAAT
761170 ATAATATAAA-AATAATATGAATATAAT
1 A-AATATAAATAA-AATAT-AATATAAT
* ** *
761197 ATAAT-TATAT-AAATATTTTAAAAT
1 A-AATATAAATAAAATATAATATAAT
* * * *
761221 TATTATAATATAAATTATTAACT-TATT
1 AAATATAA-ATAAAATA-TAA-TATAAT
* * * *
761248 AAATTTATATAAACATAAAATATATT
1 AAATATAAATAAA-ATATAATATAAT
761274 AAATATAAATAAAATATAATATAAT
1 AAATATAAATAAAATATAATATAAT
*
761299 ATAA-ATACATAAAATAT
1 A-AATATAAATAAAATAT
761316 TAATTTTATT
Statistics
Matches: 109, Mismatches: 25, Indels: 26
0.68 0.16 0.16
Matches are distributed among these distances:
23 2 0.02
24 7 0.06
25 31 0.28
26 34 0.31
27 28 0.26
28 7 0.06
ACGTcount: A:0.60, C:0.02, G:0.01, T:0.38
Consensus pattern (25 bp):
AAATATAAATAAAATATAATATAAT
Found at i:761803 original size:24 final size:24
Alignment explanation
Indices: 761767--761838 Score: 65
Period size: 25 Copynumber: 2.9 Consensus size: 24
761757 TTTAAAAATT
761767 ATTTTATTATTTAAAATAATATTAAA
1 ATTTTA-T-TTTAAAATAATATTAAA
* * *
761793 ATTTTATTTTATATTAATATTTATA
1 ATTTTATTTTAAAATAATA-TTAAA
**
761818 ATTAAATTTTAAAA-AATATTA
1 ATTTTATTTTAAAATAATATTA
761839 TTTATTATAT
Statistics
Matches: 38, Mismatches: 7, Indels: 5
0.76 0.14 0.10
Matches are distributed among these distances:
23 3 0.08
24 14 0.37
25 15 0.39
26 6 0.16
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (24 bp):
ATTTTATTTTAAAATAATATTAAA
Found at i:764030 original size:11 final size:11
Alignment explanation
Indices: 764001--764068 Score: 50
Period size: 11 Copynumber: 6.2 Consensus size: 11
763991 ATATTATTAA
*
764001 ATATTATATATT
1 ATATAATAT-TT
764013 ATATTAATATTT
1 ATA-TAATATTT
* * *
764025 ATTTAAAAATT
1 ATATAATATTT
* *
764036 ATAAAATACTT
1 ATATAATATTT
764047 ATAT-ATATTT
1 ATATAATATTT
764057 A-ATAATATTT
1 ATATAATATTT
764067 AT
1 AT
764069 TTATTTAAAT
Statistics
Matches: 43, Mismatches: 10, Indels: 7
0.72 0.17 0.12
Matches are distributed among these distances:
9 2 0.05
10 13 0.30
11 16 0.37
12 7 0.16
13 5 0.12
ACGTcount: A:0.47, C:0.01, G:0.00, T:0.51
Consensus pattern (11 bp):
ATATAATATTT
Found at i:766277 original size:16 final size:16
Alignment explanation
Indices: 766248--766292 Score: 56
Period size: 16 Copynumber: 2.7 Consensus size: 16
766238 AATTTATTAT
766248 ATATATTAAAATTTAA
1 ATATATTAAAATTTAA
766264 ATAT-TTAAACATTTAA
1 ATATATTAAA-ATTTAA
766280 ATTTATATTAAAA
1 A--TATATTAAAA
766293 ATTACATTAT
Statistics
Matches: 25, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
15 5 0.20
16 11 0.44
18 4 0.16
19 5 0.20
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.44
Consensus pattern (16 bp):
ATATATTAAAATTTAA
Found at i:766292 original size:34 final size:35
Alignment explanation
Indices: 766249--766374 Score: 93
Period size: 34 Copynumber: 3.7 Consensus size: 35
766239 ATTTATTATA
766249 TATATTAAAATTTA-AATATTTAAACATTTAAATT
1 TATATTAAAATTTACAATATTTAAACATTTAAATT
* * ** **
766283 TATATTAAAAATTACATTATTTATTCAAATAAATTT
1 TATATTAAAATTTACAATATTTAAACATTTAAA-TT
* ** *
766319 TTTATTAAATATTTATTATATTT-AATATTT--ATT
1 TATATTAAA-ATTTACAATATTTAAACATTTAAATT
766352 TACTATTAAAA-TTAC-ATATTTAA
1 TA-TATTAAAATTTACAATATTTAA
766375 TTTTTAAATA
Statistics
Matches: 69, Mismatches: 18, Indels: 12
0.70 0.18 0.12
Matches are distributed among these distances:
31 6 0.09
32 4 0.06
33 4 0.06
34 21 0.30
35 13 0.19
36 12 0.17
37 9 0.13
ACGTcount: A:0.45, C:0.04, G:0.00, T:0.51
Consensus pattern (35 bp):
TATATTAAAATTTACAATATTTAAACATTTAAATT
Found at i:766340 original size:16 final size:18
Alignment explanation
Indices: 766321--766361 Score: 59
Period size: 16 Copynumber: 2.4 Consensus size: 18
766311 ATAAATTTTT
766321 TATTAAATATTTA-TTA-
1 TATTAAATATTTATTTAC
*
766337 TATTTAATATTTATTTAC
1 TATTAAATATTTATTTAC
766355 TATTAAA
1 TATTAAA
766362 ATTACATATT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
16 12 0.57
17 3 0.14
18 6 0.29
ACGTcount: A:0.41, C:0.02, G:0.00, T:0.56
Consensus pattern (18 bp):
TATTAAATATTTATTTAC
Found at i:766483 original size:2 final size:2
Alignment explanation
Indices: 766472--766508 Score: 67
Period size: 2 Copynumber: 19.0 Consensus size: 2
766462 GATATAACAT
766472 TA TA -A 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 TA TA
766509 AATTTATAGG
Statistics
Matches: 34, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 33 0.97
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
TA
Found at i:774031 original size:29 final size:29
Alignment explanation
Indices: 773972--774034 Score: 74
Period size: 29 Copynumber: 2.2 Consensus size: 29
773962 GACAACCCAT
* * * *
773972 TTTATTAATATTTTATGATTAAACTGAAA
1 TTTAATAATAATTTATAATTAAACTAAAA
774001 TTTAATAATAATTTATAATTAAA-TAATAA
1 TTTAATAATAATTTATAATTAAACTAA-AA
774030 TTTAA
1 TTTAA
774035 ATCAATTAAA
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
28 2 0.07
29 27 0.93
ACGTcount: A:0.48, C:0.02, G:0.03, T:0.48
Consensus pattern (29 bp):
TTTAATAATAATTTATAATTAAACTAAAA
Found at i:774044 original size:21 final size:18
Alignment explanation
Indices: 773999--774033 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
773989 ATTAAACTGA
*
773999 AATTTAATAATAATTTAT
1 AATTAAATAATAATTTAT
774017 AATTAAATAATAATTTA
1 AATTAAATAATAATTTA
774034 AATCAATTAA
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:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (18 bp):
AATTAAATAATAATTTAT
Found at i:775346 original size:5 final size:5
Alignment explanation
Indices: 775336--775367 Score: 50
Period size: 5 Copynumber: 6.8 Consensus size: 5
775326 AAAAATTGCT
775336 TTTTA TTTTA TTTTA TTTTA -TTT- TTTTA TTTT
1 TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA TTTT
775368 GAGAATTTTG
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
4 6 0.24
5 19 0.76
ACGTcount: A:0.16, C:0.00, G:0.00, T:0.84
Consensus pattern (5 bp):
TTTTA
Found at i:775658 original size:19 final size:18
Alignment explanation
Indices: 775619--775661 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 18
775609 TCTAGCTCAT
775619 TATTTAAAAAATATTAAAA
1 TATTTAAAAAATATT-AAA
775638 TATTTAAAAATTATATT-AA
1 TATTTAAAAA--ATATTAAA
775657 TATTT
1 TATTT
775662 TTATATTTAA
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
19 17 0.77
21 5 0.23
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (18 bp):
TATTTAAAAAATATTAAA
Found at i:775767 original size:2 final size:2
Alignment explanation
Indices: 775760--775797 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
775750 CCTCCCATCC
775760 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
775798 TAAATTTGTT
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:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:776601 original size:21 final size:21
Alignment explanation
Indices: 776577--776625 Score: 64
Period size: 21 Copynumber: 2.3 Consensus size: 21
776567 TTTTTATTTA
*
776577 ATTTTAATTTTAATTTTAAA-T
1 ATTTTAATATTAA-TTTAAATT
*
776598 ATTTAAATATTAATTTAAATT
1 ATTTTAATATTAATTTAAATT
776619 ATTTTAA
1 ATTTTAA
776626 CTAATTTTAA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
20 6 0.25
21 18 0.75
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (21 bp):
ATTTTAATATTAATTTAAATT
Found at i:776677 original size:20 final size:20
Alignment explanation
Indices: 776652--776689 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
776642 TCAAGATTAA
*
776652 TTAAATTAAATTATTAAATT
1 TTAAATAAAATTATTAAATT
*
776672 TTAAATAAAATTTTTAAA
1 TTAAATAAAATTATTAAA
776690 AAATAAAATA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (20 bp):
TTAAATAAAATTATTAAATT
Found at i:777370 original size:18 final size:19
Alignment explanation
Indices: 777338--777375 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
777328 TTTTTAATTT
777338 AATAAAAAATCATTTATTA
1 AATAAAAAATCATTTATTA
* *
777357 AATATAAAAT-ATTTTTTA
1 AATAAAAAATCATTTATTA
777375 A
1 A
777376 TTTTATAAGC
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
18 8 0.47
19 9 0.53
ACGTcount: A:0.55, C:0.03, G:0.00, T:0.42
Consensus pattern (19 bp):
AATAAAAAATCATTTATTA
Found at i:777707 original size:24 final size:24
Alignment explanation
Indices: 777659--777710 Score: 72
Period size: 23 Copynumber: 2.2 Consensus size: 24
777649 ATTTAATTAT
777659 ATAATATATAAATATTACTATAAA
1 ATAATATATAAATATTACTATAAA
* *
777683 ATAATAT-TTAATATTATTATAAA
1 ATAATATATAAATATTACTATAAA
777706 A-AATA
1 ATAATA
777711 AAACACGCTT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
22 4 0.15
23 15 0.58
24 7 0.27
ACGTcount: A:0.58, C:0.02, G:0.00, T:0.40
Consensus pattern (24 bp):
ATAATATATAAATATTACTATAAA
Found at i:778609 original size:26 final size:26
Alignment explanation
Indices: 778565--778614 Score: 66
Period size: 26 Copynumber: 1.9 Consensus size: 26
778555 ATTTTAATGA
* *
778565 ATTATTTTATTAAATAATTCAATTTT
1 ATTATTTTATTAAAAAATTAAATTTT
778591 ATTATTTT-TTAAAAAAATTAAATT
1 ATTATTTTATT-AAAAAATTAAATT
778615 GAATACATAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
25 2 0.10
26 19 0.90
ACGTcount: A:0.44, C:0.02, G:0.00, T:0.54
Consensus pattern (26 bp):
ATTATTTTATTAAAAAATTAAATTTT
Found at i:778917 original size:24 final size:25
Alignment explanation
Indices: 778885--778932 Score: 64
Period size: 24 Copynumber: 2.0 Consensus size: 25
778875 TTCATTTATT
778885 TTACATTTTAATCAAAA-ATTTTTAA
1 TTACATTTT-ATCAAAATATTTTTAA
*
778910 TTAC-TTTTATTAAAATATTTTTA
1 TTACATTTTATCAAAATATTTTTA
778933 TATGAACTCA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
23 6 0.29
24 11 0.52
25 4 0.19
ACGTcount: A:0.40, C:0.06, G:0.00, T:0.54
Consensus pattern (25 bp):
TTACATTTTATCAAAATATTTTTAA
Found at i:779694 original size:21 final size:24
Alignment explanation
Indices: 779670--779735 Score: 68
Period size: 23 Copynumber: 2.9 Consensus size: 24
779660 ATAATATTTT
*
779670 ATATTTAAAT-TTAAT-T-ATATA
1 ATATTTAAATATTAATATAAAATA
*
779691 ATATATAAATATTAATATAAAATA
1 ATATTTAAATATTAATATAAAATA
* *
779715 ATATTT-AATGTTATTATAAAA
1 ATATTTAAATATTAATATAAAA
779736 ATAAAACAAG
Statistics
Matches: 37, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
21 9 0.24
22 5 0.14
23 14 0.38
24 9 0.24
ACGTcount: A:0.53, C:0.00, G:0.02, T:0.45
Consensus pattern (24 bp):
ATATTTAAATATTAATATAAAATA
Found at i:780316 original size:49 final size:51
Alignment explanation
Indices: 780239--780354 Score: 136
Period size: 52 Copynumber: 2.3 Consensus size: 51
780229 TATTATTATT
780239 TATTAATAAAAATATATTTTATTTTATTTT-A-A-TTATAAA-AATATATAAA
1 TATTAATAAAAA-ATATTTTATTTTATTTTAATATTTATAAATAATA-ATAAA
*
780288 TATTAATAAAAAATATTTT-TTTAATATTTTAATATTTTTAAATAATAATAAA
1 TATTAATAAAAAATATTTTATTT--TATTTTAATATTTATAAATAATAATAAA
780340 -AGTTAATAAAAAATA
1 TA-TTAATAAAAAATA
780355 AAAAAAATCT
Statistics
Matches: 59, Mismatches: 1, Indels: 11
0.83 0.01 0.15
Matches are distributed among these distances:
47 3 0.05
48 7 0.12
49 18 0.31
50 1 0.02
51 2 0.03
52 24 0.41
53 4 0.07
ACGTcount: A:0.53, C:0.00, G:0.01, T:0.47
Consensus pattern (51 bp):
TATTAATAAAAAATATTTTATTTTATTTTAATATTTATAAATAATAATAAA
Found at i:780602 original size:26 final size:28
Alignment explanation
Indices: 780572--780623 Score: 81
Period size: 26 Copynumber: 1.9 Consensus size: 28
780562 CTCTTAATGA
*
780572 ATTATTTTAT-TAAAT-AATTTAATTTT
1 ATTATTTTATAAAAATAAATTTAATTTT
780598 ATTATTTTATAAAAATAAATTTAATT
1 ATTATTTTATAAAAATAAATTTAATT
780624 GAATACATAA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
26 10 0.43
27 4 0.17
28 9 0.39
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (28 bp):
ATTATTTTATAAAAATAAATTTAATTTT
Found at i:780697 original size:155 final size:155
Alignment explanation
Indices: 780522--780835 Score: 601
Period size: 155 Copynumber: 2.0 Consensus size: 155
780512 TTATTCATTT
780522 TTAACAAAAAGAATTAACAGAATTTAAAAAAATTTCATTCCTCTTAATGAATTATTTTATTAAAT
1 TTAACAAAAAGAATTAACAGAATTTAAAAAAATTTCATTCCTCTTAATGAATTATTTTATTAAAT
* *
780587 AATTTAATTTTATTATTTTATAAAAATAAATTTAATTGAATACATAAAATAAAATTTAAAAAAAT
66 AATTCAATTTTATTATTTTATAAAAATAAATTAAATTGAATACATAAAATAAAATTTAAAAAAAT
780652 TAAAGTACAATGATGAAATTTTAAA
131 TAAAGTACAATGATGAAATTTTAAA
780677 TTAACAAAAAGAATTAACAGAATTTAAAAAAATTTCATTCCTCTTAATGAATTATTTTATTAAAT
1 TTAACAAAAAGAATTAACAGAATTTAAAAAAATTTCATTCCTCTTAATGAATTATTTTATTAAAT
*
780742 AATTCAATTTTATTATTTTATAAAAATAAATTAAATTGAATACATAAAATAAAATTTTAAAAAAT
66 AATTCAATTTTATTATTTTATAAAAATAAATTAAATTGAATACATAAAATAAAATTTAAAAAAAT
780807 TAAAGTACAATGATGAAATTTTAAA
131 TAAAGTACAATGATGAAATTTTAAA
780832 TTAA
1 TTAA
780836 ATTATAATAT
Statistics
Matches: 156, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
155 156 1.00
ACGTcount: A:0.52, C:0.05, G:0.04, T:0.39
Consensus pattern (155 bp):
TTAACAAAAAGAATTAACAGAATTTAAAAAAATTTCATTCCTCTTAATGAATTATTTTATTAAAT
AATTCAATTTTATTATTTTATAAAAATAAATTAAATTGAATACATAAAATAAAATTTAAAAAAAT
TAAAGTACAATGATGAAATTTTAAA
Found at i:781097 original size:21 final size:21
Alignment explanation
Indices: 781049--781097 Score: 57
Period size: 21 Copynumber: 2.4 Consensus size: 21
781039 TTTTAGTTTT
781049 AAAAT-TAATTTTATTTTAAA
1 AAAATATAATTTTATTTTAAA
**
781069 AATTTATAATTATT-TTTTAAA
1 AAAATATAATT-TTATTTTAAA
781090 AAAATATA
1 AAAATATA
781098 TTTACACGAA
Statistics
Matches: 23, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
20 3 0.13
21 18 0.78
22 2 0.09
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (21 bp):
AAAATATAATTTTATTTTAAA
Found at i:781445 original size:2 final size:2
Alignment explanation
Indices: 781440--781486 Score: 94
Period size: 2 Copynumber: 23.5 Consensus size: 2
781430 GCAGACTCTC
781440 TA TA TA TA 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 TA TA TA TA
781482 TA TA T
1 TA TA T
781487 TTATTTATTT
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:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:781635 original size:17 final size:18
Alignment explanation
Indices: 781603--781641 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
781593 AATGAATTTT
781603 ATTTTATTTTTATTAAAA
1 ATTTTATTTTTATTAAAA
* *
781621 ATTTTCTTTTT-TTAAAT
1 ATTTTATTTTTATTAAAA
781638 ATTT
1 ATTT
781642 AAAACAATTT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
17 9 0.47
18 10 0.53
ACGTcount: A:0.31, C:0.03, G:0.00, T:0.67
Consensus pattern (18 bp):
ATTTTATTTTTATTAAAA
Found at i:782207 original size:16 final size:16
Alignment explanation
Indices: 782186--782222 Score: 65
Period size: 16 Copynumber: 2.3 Consensus size: 16
782176 ATAATCATTT
782186 ATTTTACAAAATAATA
1 ATTTTACAAAATAATA
*
782202 ATTTTACAAAATCATA
1 ATTTTACAAAATAATA
782218 ATTTT
1 ATTTT
782223 TATTTTATTT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.49, C:0.08, G:0.00, T:0.43
Consensus pattern (16 bp):
ATTTTACAAAATAATA
Found at i:783116 original size:24 final size:23
Alignment explanation
Indices: 783047--783117 Score: 74
Period size: 21 Copynumber: 3.1 Consensus size: 23
783037 TTATAAAATT
*
783047 AAAATATTAAAAA-TTTTATTT-
1 AAAATAATAAAAATTTTTATTTA
* ** *
783068 AATATAATAAAAATTTAAATATA
1 AAAATAATAAAAATTTTTATTTA
783091 AAAATAATAAAATATTTTTATTTA
1 AAAATAATAAAA-ATTTTTATTTA
783115 AAA
1 AAA
783118 TTTAACTTTT
Statistics
Matches: 38, Mismatches: 9, Indels: 3
0.76 0.18 0.06
Matches are distributed among these distances:
21 11 0.29
22 5 0.13
23 11 0.29
24 11 0.29
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (23 bp):
AAAATAATAAAAATTTTTATTTA
Found at i:783477 original size:20 final size:19
Alignment explanation
Indices: 783454--783509 Score: 53
Period size: 18 Copynumber: 2.8 Consensus size: 19
783444 TAATTATATT
783454 TAAAATATTTTATATTT-A
1 TAAAATATTTTATATTTAA
*
783472 TATAAAT-TTTAATATATTAA
1 TA-AAATATTTTATAT-TTAA
783492 TAAATTATATTTTATATT
1 TAAA--ATATTTTATATT
783510 AATTTTAAAA
Statistics
Matches: 30, Mismatches: 2, Indels: 9
0.73 0.05 0.22
Matches are distributed among these distances:
18 9 0.30
19 8 0.27
20 3 0.10
21 3 0.10
22 7 0.23
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (19 bp):
TAAAATATTTTATATTTAA
Found at i:783494 original size:18 final size:17
Alignment explanation
Indices: 783447--783516 Score: 67
Period size: 16 Copynumber: 4.2 Consensus size: 17
783437 TATATTATAA
783447 TTATATTTA-A-AATATT
1 TTATATTTATATAA-ATT
783463 TTATATTTATATAAATT
1 TTATATTTATATAAATT
783480 TTAATATATTA-ATAAATT
1 TT-ATAT-TTATATAAATT
* *
783498 ATAT-TTTATATTAATT
1 TTATATTTATATAAATT
783514 TTA
1 TTA
783517 AAATATATAT
Statistics
Matches: 46, Mismatches: 3, Indels: 10
0.78 0.05 0.17
Matches are distributed among these distances:
15 3 0.07
16 18 0.39
17 8 0.17
18 14 0.30
19 3 0.07
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (17 bp):
TTATATTTATATAAATT
Found at i:783510 original size:20 final size:20
Alignment explanation
Indices: 783458--783512 Score: 60
Period size: 20 Copynumber: 2.8 Consensus size: 20
783448 TATATTTAAA
783458 ATATTTTATATTTATATAAATT
1 ATATTTTATA-TTA-ATAAATT
**
783480 -T-TAATATATTAATAAATT
1 ATATTTTATATTAATAAATT
783498 ATATTTTATATTAAT
1 ATATTTTATATTAAT
783513 TTTAAAATAT
Statistics
Matches: 27, Mismatches: 4, Indels: 6
0.73 0.11 0.16
Matches are distributed among these distances:
18 7 0.26
19 4 0.15
20 15 0.56
21 1 0.04
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (20 bp):
ATATTTTATATTAATAAATT
Found at i:783514 original size:34 final size:36
Alignment explanation
Indices: 783463--783540 Score: 99
Period size: 34 Copynumber: 2.2 Consensus size: 36
783453 TTAAAATATT
*
783463 TTATA-TTTATATAAATTTTAATATAT-TA-ATAAA
1 TTATATTTTATATAAATTTTAAAATATATATATAAA
* * *
783496 TTATATTTTATATTAATTTTAAAATATATATTTATA
1 TTATATTTTATATAAATTTTAAAATATATATATAAA
783532 TTATATTTT
1 TTATATTTT
783541 TAATTTTTAT
Statistics
Matches: 38, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
33 5 0.13
34 19 0.50
35 2 0.05
36 12 0.32
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (36 bp):
TTATATTTTATATAAATTTTAAAATATATATATAAA
Found at i:783529 original size:24 final size:25
Alignment explanation
Indices: 783492--783563 Score: 87
Period size: 24 Copynumber: 3.0 Consensus size: 25
783482 AATATATTAA
*
783492 TAAATTATAT-TTTATATTA-ATTT
1 TAAAATATATATTTATATTATATTT
783515 TAAAATATATATTTATATTATATTT
1 TAAAATATATATTTATATTATATTT
* * *
783540 T-TAATTTTTATTTATATTATATTT
1 TAAAATATATATTTATATTATATTT
783564 ATATAATTAT
Statistics
Matches: 43, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
23 9 0.21
24 29 0.67
25 5 0.12
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (25 bp):
TAAAATATATATTTATATTATATTT
Found at i:783531 original size:6 final size:6
Alignment explanation
Indices: 783522--783567 Score: 51
Period size: 6 Copynumber: 7.8 Consensus size: 6
783512 TTTTAAAATA
* *
783522 TATATT TATA-T TATATT TTTAATT TTTATT TATA-T TATATT TATAT
1 TATATT TATATT TATATT TAT-ATT TATATT TATATT TATATT TATAT
783568 AATTATTTTT
Statistics
Matches: 35, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
5 10 0.29
6 19 0.54
7 6 0.17
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (6 bp):
TATATT
Found at i:784670 original size:22 final size:19
Alignment explanation
Indices: 784639--784680 Score: 57
Period size: 21 Copynumber: 2.1 Consensus size: 19
784629 TATTTTTATT
784639 TAAATTTAATTATAAAATATA
1 TAAATTTAA-TATAAAA-ATA
784660 TAAATATTAATATAAAAATA
1 TAAAT-TTAATATAAAAATA
784680 T
1 T
784681 TTTTTATAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
20 4 0.20
21 12 0.60
22 4 0.20
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (19 bp):
TAAATTTAATATAAAAATA
Found at i:784857 original size:2 final size:2
Alignment explanation
Indices: 784811--784846 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
784801 TTTTCCAAAT
784811 TA 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 TA
784847 AATCAATATA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:785738 original size:15 final size:15
Alignment explanation
Indices: 785715--785744 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
785705 AATAATTTTT
785715 TAAAAAAATAAATAA
1 TAAAAAAATAAATAA
*
785730 TAAATAAATAAATAA
1 TAAAAAAATAAATAA
785745 AATATGTATC
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (15 bp):
TAAAAAAATAAATAA
Found at i:786286 original size:35 final size:33
Alignment explanation
Indices: 786237--786302 Score: 96
Period size: 35 Copynumber: 1.9 Consensus size: 33
786227 AATTCATCTA
**
786237 TTTTTATAAGTAAAAAGTTTTAATTTCATTATT
1 TTTTTATAAGTAAAAAAATTTAATTTCATTATT
786270 TTTTTATAAAGATAAAAAAATTTAATTTCATTA
1 TTTTTAT-AAG-TAAAAAAATTTAATTTCATTA
786303 AAATACTTTT
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
33 7 0.24
34 3 0.10
35 19 0.66
ACGTcount: A:0.42, C:0.03, G:0.05, T:0.50
Consensus pattern (33 bp):
TTTTTATAAGTAAAAAAATTTAATTTCATTATT
Found at i:786588 original size:24 final size:24
Alignment explanation
Indices: 786536--786597 Score: 63
Period size: 23 Copynumber: 2.5 Consensus size: 24
786526 ATCAATTCAC
* *
786536 ATTTAAATTAATATACAATTTTATTT
1 ATTTAAA-AAATATACAA-TTTATAT
*
786562 ATTTTTAAAAATATACAA-TTATAT
1 A-TTTAAAAAATATACAATTTATAT
786586 ATTTAAAAAATA
1 ATTTAAAAAATA
786598 AATAAAATAA
Statistics
Matches: 31, Mismatches: 4, Indels: 5
0.77 0.10 0.12
Matches are distributed among these distances:
23 10 0.32
24 6 0.19
26 10 0.32
27 5 0.16
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (24 bp):
ATTTAAAAAATATACAATTTATAT
Found at i:786833 original size:27 final size:25
Alignment explanation
Indices: 786757--786818 Score: 79
Period size: 25 Copynumber: 2.4 Consensus size: 25
786747 GACAATTCGA
* * *
786757 AAAAATTTTAATTATTTATTATGAAT
1 AAAAATTTT-ATTAATTATAATTAAT
*
786783 TAAAATTTTATTAATTATAATTAAT
1 AAAAATTTTATTAATTATAATTAAT
786808 AAAAATTTTAT
1 AAAAATTTTAT
786819 GATAATTAAA
Statistics
Matches: 31, Mismatches: 5, Indels: 1
0.84 0.14 0.03
Matches are distributed among these distances:
25 23 0.74
26 8 0.26
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (25 bp):
AAAAATTTTATTAATTATAATTAAT
Found at i:786849 original size:22 final size:22
Alignment explanation
Indices: 786810--786852 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
786800 TAATTAATAA
*
786810 AAATTTTATGATAATTAAATTT
1 AAATTTGATGATAATTAAATTT
786832 AAATTTGATG-TAATTTAAATT
1 AAATTTGATGATAA-TTAAATT
786853 AATAAAATTA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 3 0.16
22 16 0.84
ACGTcount: A:0.44, C:0.00, G:0.07, T:0.49
Consensus pattern (22 bp):
AAATTTGATGATAATTAAATTT
Found at i:787085 original size:13 final size:13
Alignment explanation
Indices: 787062--787120 Score: 53
Period size: 13 Copynumber: 5.1 Consensus size: 13
787052 CGTTTATATT
787062 TAAATATATTA-A
1 TAAATATATTATA
787074 TAAATAATATTATA
1 TAAAT-ATATTATA
787088 T-AA-AT-TTA-A
1 TAAATATATTATA
787097 T--ATAT-TTATA
1 TAAATATATTATA
787107 TAAATATATTATA
1 TAAATATATTATA
787120 T
1 T
787121 TTAAAATTTT
Statistics
Matches: 40, Mismatches: 0, Indels: 13
0.75 0.00 0.25
Matches are distributed among these distances:
8 1 0.03
9 7 0.17
10 5 0.12
11 2 0.05
12 9 0.22
13 14 0.35
14 2 0.05
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (13 bp):
TAAATATATTATA
Found at i:787096 original size:32 final size:32
Alignment explanation
Indices: 787059--787120 Score: 92
Period size: 32 Copynumber: 1.9 Consensus size: 32
787049 ATACGTTTAT
787059 ATTTAA-ATATATTA-ATAAATAATATTATATAA
1 ATTTAATATAT-TTATATAAAT-ATATTATATAA
787091 ATTTAATATATTTATATAAATATATTATAT
1 ATTTAATATATTTATATAAATATATTATAT
787121 TTAAAATTTT
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
32 18 0.64
33 10 0.36
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (32 bp):
ATTTAATATATTTATATAAATATATTATATAA
Found at i:787105 original size:19 final size:19
Alignment explanation
Indices: 787066--787123 Score: 66
Period size: 19 Copynumber: 3.1 Consensus size: 19
787056 TATATTTAAA
*
787066 TATATTAATA-AATA-ATAT
1 TATATAAATATAATATAT-T
*
787084 TATATAAATTTAATATATT
1 TATATAAATATAATATATT
*
787103 TATATAAATATATTATATT
1 TATATAAATATAATATATT
787122 TA
1 TA
787124 AAATTTTTAG
Statistics
Matches: 34, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
18 8 0.24
19 24 0.71
20 2 0.06
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (19 bp):
TATATAAATATAATATATT
Found at i:795041 original size:13 final size:14
Alignment explanation
Indices: 795004--795043 Score: 55
Period size: 13 Copynumber: 2.9 Consensus size: 14
794994 ACAAGTATCG
*
795004 ATTTTTAAATTTTA
1 ATTTTTAAATATTA
795018 ATTTATTAAATATT-
1 ATTT-TTAAATATTA
795032 ATTTTTAAATAT
1 ATTTTTAAATAT
795044 AAAGTATGAA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
13 8 0.33
14 8 0.33
15 8 0.33
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (14 bp):
ATTTTTAAATATTA
Found at i:798115 original size:18 final size:19
Alignment explanation
Indices: 798094--798140 Score: 57
Period size: 17 Copynumber: 2.6 Consensus size: 19
798084 TTTACATTTA
798094 TATAATATTTATAT-ACTT
1 TATAATATTTATATCACTT
798112 TATAA-ATTT-TATCACTT
1 TATAATATTTATATCACTT
798129 T-TATATATTTAT
1 TATA-ATATTTAT
798141 TTTATATTAT
Statistics
Matches: 25, Mismatches: 0, Indels: 7
0.78 0.00 0.22
Matches are distributed among these distances:
16 5 0.20
17 10 0.40
18 9 0.36
19 1 0.04
ACGTcount: A:0.36, C:0.06, G:0.00, T:0.57
Consensus pattern (19 bp):
TATAATATTTATATCACTT
Found at i:798157 original size:14 final size:14
Alignment explanation
Indices: 798127--798178 Score: 54
Period size: 14 Copynumber: 3.7 Consensus size: 14
798117 ATTTTATCAC
*
798127 TTTTATA-TATTTA
1 TTTTATATTATTTT
798140 TTTTATATTATTTT
1 TTTTATATTATTTT
*
798154 TTTTCATATT-TTAAT
1 TTTT-ATATTATT-TT
798169 TTTTATATTA
1 TTTTATATTA
798179 CATTTATATA
Statistics
Matches: 33, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
13 7 0.21
14 16 0.48
15 10 0.30
ACGTcount: A:0.27, C:0.02, G:0.00, T:0.71
Consensus pattern (14 bp):
TTTTATATTATTTT
Found at i:799274 original size:13 final size:14
Alignment explanation
Indices: 799258--799291 Score: 61
Period size: 14 Copynumber: 2.5 Consensus size: 14
799248 AATTTAAACA
799258 TAAATATG-TATAT
1 TAAATATGTTATAT
799271 TAAATATGTTATAT
1 TAAATATGTTATAT
799285 TAAATAT
1 TAAATAT
799292 AATTAAATTT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
13 8 0.40
14 12 0.60
ACGTcount: A:0.47, C:0.00, G:0.06, T:0.47
Consensus pattern (14 bp):
TAAATATGTTATAT
Found at i:803271 original size:2 final size:2
Alignment explanation
Indices: 803264--803290 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
803254 TTATGATCAA
803264 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 A
803291 CAGTACATAA
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:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:806517 original size:33 final size:34
Alignment explanation
Indices: 806480--806543 Score: 96
Period size: 33 Copynumber: 1.9 Consensus size: 34
806470 ATTTGAGATA
806480 ATATTTATCT-CTAATATAATT-AAATTAAAAATG
1 ATATTTATCTCCT-ATATAATTAAAATTAAAAATG
*
806513 ATATTTGTCTCCTATATAATTAAAATTAAAA
1 ATATTTATCTCCTATATAATTAAAATTAAAA
806544 TAGAAAATAT
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
33 17 0.61
34 11 0.39
ACGTcount: A:0.47, C:0.08, G:0.03, T:0.42
Consensus pattern (34 bp):
ATATTTATCTCCTATATAATTAAAATTAAAAATG
Found at i:806755 original size:22 final size:21
Alignment explanation
Indices: 806727--806768 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 21
806717 AATATTAAAA
806727 ATAT-TTTTA-AATTAATATTT
1 ATATATTTTATAATTAA-ATTT
806747 ATATATTTTATAATTAAATTT
1 ATATATTTTATAATTAAATTT
806768 A
1 A
806769 AATAAACATA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
20 4 0.20
21 10 0.50
22 6 0.30
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (21 bp):
ATATATTTTATAATTAAATTT
Found at i:806794 original size:20 final size:18
Alignment explanation
Indices: 806765--806809 Score: 63
Period size: 18 Copynumber: 2.4 Consensus size: 18
806755 TATAATTAAA
806765 TTTAAATAAACATATATTAT
1 TTTAAATAAA-A-ATATTAT
*
806785 TTTAATTAAAAATATTAT
1 TTTAAATAAAAATATTAT
806803 TTTAAAT
1 TTTAAAT
806810 TGAGTCGAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
18 13 0.57
19 1 0.04
20 9 0.39
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (18 bp):
TTTAAATAAAAATATTAT
Found at i:810465 original size:31 final size:32
Alignment explanation
Indices: 810405--810465 Score: 88
Period size: 32 Copynumber: 1.9 Consensus size: 32
810395 ACTATCCAAA
*
810405 TTTTTTTATTTAAAAAAAATACTCTTTTTTAC
1 TTTTTTTATTTAAAAAAAATACTCATTTTTAC
* *
810437 TTTTTTTATTTGAAAAAATTA-TCATTTTT
1 TTTTTTTATTTAAAAAAAATACTCATTTTT
810466 TTAAGCTTAA
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
31 7 0.27
32 19 0.73
ACGTcount: A:0.33, C:0.07, G:0.02, T:0.59
Consensus pattern (32 bp):
TTTTTTTATTTAAAAAAAATACTCATTTTTAC
Found at i:810965 original size:10 final size:10
Alignment explanation
Indices: 810952--810976 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
810942 TTAATTAATA
810952 CATTTTCTAT
1 CATTTTCTAT
810962 CATTTTCTAT
1 CATTTTCTAT
810972 CATTT
1 CATTT
810977 ATTATAAGTC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.20, C:0.20, G:0.00, T:0.60
Consensus pattern (10 bp):
CATTTTCTAT
Found at i:811434 original size:85 final size:85
Alignment explanation
Indices: 811287--811515 Score: 386
Period size: 85 Copynumber: 2.7 Consensus size: 85
811277 GCGGGAACGG
* * * *
811287 TGCAGCAACGATGGCCACAACTTCCGCACGTGTCCAACGCGCGGTGGTGGTGGAAAAGGTGGAGT
1 TGCAGCAACAATGGCCACAACTTCCGCACGTGTCCGACGCGCGGTGGTGGCGGAAACGGTGGAGT
*
811352 TGACTAGGCGATGCTCGCAT
66 TGACCAGGCGATGCTCGCAT
* *
811372 TGCGGCAACAATGGCCACAACTTCCGCACGTGTCCGACGCGCGATGGTGGCGGAAACGGTGGAGT
1 TGCAGCAACAATGGCCACAACTTCCGCACGTGTCCGACGCGCGGTGGTGGCGGAAACGGTGGAGT
*
811437 TGACCCGGCGATGCTCGCAT
66 TGACCAGGCGATGCTCGCAT
811457 TGCAGCAACAATGGCCACAACTTCCGCACGTGTCCGACGCGCGGTGGTGGCGGAAACGG
1 TGCAGCAACAATGGCCACAACTTCCGCACGTGTCCGACGCGCGGTGGTGGCGGAAACGG
811516 AGCAGCAACA
Statistics
Matches: 134, Mismatches: 10, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
85 134 1.00
ACGTcount: A:0.21, C:0.28, G:0.34, T:0.17
Consensus pattern (85 bp):
TGCAGCAACAATGGCCACAACTTCCGCACGTGTCCGACGCGCGGTGGTGGCGGAAACGGTGGAGT
TGACCAGGCGATGCTCGCAT
Found at i:811634 original size:59 final size:59
Alignment explanation
Indices: 811457--811635 Score: 340
Period size: 59 Copynumber: 3.0 Consensus size: 59
811447 ATGCTCGCAT
811457 TGCAGCAACAATGGCCACAACTTCCGCACGTGTCCGACGCGCGGTGGTGGCGGAAACGG
1 TGCAGCAACAATGGCCACAACTTCCGCACGTGTCCGACGCGCGGTGGTGGCGGAAACGG
*
811516 AGCAGCAACAATGGCCACAACTTCCGCACGTGTCCGACGCGCGGTGGTGGCGGAAACGG
1 TGCAGCAACAATGGCCACAACTTCCGCACGTGTCCGACGCGCGGTGGTGGCGGAAACGG
*
811575 TGCAGCAACAATGGCCACAACTTCCGCAAGTGTCCGACGCGCGGTGGTGGCGGAAACGG
1 TGCAGCAACAATGGCCACAACTTCCGCACGTGTCCGACGCGCGGTGGTGGCGGAAACGG
811634 TG
1 TG
811636 GAGTTGACTC
Statistics
Matches: 117, Mismatches: 3, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
59 117 1.00
ACGTcount: A:0.23, C:0.30, G:0.34, T:0.13
Consensus pattern (59 bp):
TGCAGCAACAATGGCCACAACTTCCGCACGTGTCCGACGCGCGGTGGTGGCGGAAACGG
Found at i:811665 original size:144 final size:144
Alignment explanation
Indices: 811208--812003 Score: 894
Period size: 144 Copynumber: 5.6 Consensus size: 144
811198 AGACTAGATA
* * *
811208 TGACTCGGCGATGTTCGCATTGCGGCAACAATGGCCACAACTTCCGCACGTGTCCGACGAGTC-G
1 TGACTCGGCGATGCTCGCATTGCAGCAACAATGGCCACAACTTCCGCACGTGTCCGACGCG-CGG
* * * *
811272 TGGTGGCGGGAACGGTGCAGCAACGATGGCCACAACTTCCGCACGTGTCCAACGCGCGGTGGTGG
65 TGGTGGCGGAAACGGTGCAGCAACAATGGCCACAACTTCCGCAAGTGTCCGACGCGCGGTGGTGG
* *
811337 TGGAAAAGGTGGAGT
130 AGGAAACGGTGGAGT
* * *
811352 TGACTAGGCGATGCTCGCATTGCGGCAACAATGGCCACAACTTCCGCACGTGTCCGACGCGCGAT
1 TGACTCGGCGATGCTCGCATTGCAGCAACAATGGCCACAACTTCCGCACGTGTCCGACGCGCGGT
* ** ** * ** * * * * *
811417 GGTGGCGGAAACGGTGGAGTTGAC-CCGGCGATGCTCGCATTGCAGCAACAATGGCCACAACTTC
66 GGTGGCGGAAACGGTGCAG-CAACAATGGCCA--C-AAC-TT-CCGC-A-AGT-GTC-CGAC--G
* * * **
811481 CGCACGT-GTCCGACG-CGCGGT-G-G-
119 CGC-GGTGGT-GGAGGAAACGGTGGAGT
* ** *
811504 TG--GC-G-GA--AACGGA--GCAGCAACAATGGCCACAACTTCCGCACGTGTCCGACGCGCGGT
1 TGACTCGGCGATGCTCGCATTGCAGCAACAATGGCCACAACTTCCGCACGTGTCCGACGCGCGGT
*
811561 GGTGGCGGAAACGGTGCAGCAACAATGGCCACAACTTCCGCAAGTGTCCGACGCGCGGTGGTGGC
66 GGTGGCGGAAACGGTGCAGCAACAATGGCCACAACTTCCGCAAGTGTCCGACGCGCGGTGGTGGA
811626 GGAAACGGTGGAGT
131 GGAAACGGTGGAGT
* * *
811640 TGACTCGGCGATGCTCGCATTGCAGCAACAATGGCCACAACTTCCGCAGGTGTCCGACGTGGGGT
1 TGACTCGGCGATGCTCGCATTGCAGCAACAATGGCCACAACTTCCGCACGTGTCCGACGCGCGGT
*
811705 GGTGGCGGAAACGGTGCAGCAACAATGGCCACAACTTCCGCAGGTGTCCGACGCGCGGTGGTGGA
66 GGTGGCGGAAACGGTGCAGCAACAATGGCCACAACTTCCGCAAGTGTCCGACGCGCGGTGGTGGA
* *
811770 AGAAACGATGGAGT
131 GGAAACGGTGGAGT
* *
811784 TGACTCGGCGATGCTCGCATTGCAGCAACAATGGCCACAACTTCCGCAGGTGTCCGACGTGCGGT
1 TGACTCGGCGATGCTCGCATTGCAGCAACAATGGCCACAACTTCCGCACGTGTCCGACGCGCGGT
*
811849 GGTGGCGGAAACGGTGCAGCAACAATGGCCACAACTTCCGCAGGTGTCCGACGCGC---GGTGGA
66 GGTGGCGGAAACGGTGCAGCAACAATGGCCACAACTTCCGCAAGTGTCCGACGCGCGGTGGTGGA
811911 GG--ACGGTGGAGT
131 GGAAACGGTGGAGT
* *
811923 TGACTCGGCGATGCTCGCATTGCAGCAACAATGGCCACAACTTCCGCACGTGTCCGACGCGTGTT
1 TGACTCGGCGATGCTCGCATTGCAGCAACAATGGCCACAACTTCCGCACGTGTCCGACGCGCGGT
*
811988 GGTGGTGGAAACGGTG
66 GGTGGCGGAAACGGTG
812004 GAGTTGGCCG
Statistics
Matches: 553, Mismatches: 70, Indels: 63
0.81 0.10 0.09
Matches are distributed among these distances:
132 4 0.01
133 9 0.02
134 1 0.00
135 4 0.01
136 4 0.01
137 2 0.00
138 2 0.00
139 89 0.16
140 4 0.01
141 8 0.01
142 4 0.01
143 3 0.01
144 380 0.69
145 2 0.00
146 4 0.01
147 1 0.00
148 4 0.01
149 4 0.01
150 1 0.00
151 1 0.00
152 4 0.01
153 5 0.01
154 1 0.00
155 8 0.01
156 4 0.01
ACGTcount: A:0.21, C:0.27, G:0.34, T:0.17
Consensus pattern (144 bp):
TGACTCGGCGATGCTCGCATTGCAGCAACAATGGCCACAACTTCCGCACGTGTCCGACGCGCGGT
GGTGGCGGAAACGGTGCAGCAACAATGGCCACAACTTCCGCAAGTGTCCGACGCGCGGTGGTGGA
GGAAACGGTGGAGT
Found at i:811726 original size:203 final size:203
Alignment explanation
Indices: 811376--811768 Score: 714
Period size: 203 Copynumber: 1.9 Consensus size: 203
811366 TCGCATTGCG
*
811376 GCAACAATGGCCACAACTTCCGCACGTGTCCGACGCGCGATGGTGGCGGAAACGGTGGAGTTGAC
1 GCAACAATGGCCACAACTTCCGCAAGTGTCCGACGCGCGATGGTGGCGGAAACGGTGGAGTTGAC
811441 CCGGCGATGCTCGCATTGCAGCAACAATGGCCACAACTTCCGCACGTGTCCGACGCGCGGTGGTG
66 CCGGCGATGCTCGCATTGCAGCAACAATGGCCACAACTTCCGCACGTGTCCGACGCGCGGTGGTG
811506 GCGGAAACGGAGCAGCAACAATGGCCACAACTTCCGCACGTGTCCGACGCGCGGTGGTGGCGGAA
131 GCGGAAACGGAGCAGCAACAATGGCCACAACTTCCGCACGTGTCCGACGCGCGGTGGTGGCGGAA
811571 ACGGTGCA
196 ACGGTGCA
*
811579 GCAACAATGGCCACAACTTCCGCAAGTGTCCGACGCGCGGTGGTGGCGGAAACGGTGGAGTTGAC
1 GCAACAATGGCCACAACTTCCGCAAGTGTCCGACGCGCGATGGTGGCGGAAACGGTGGAGTTGAC
* * * *
811644 TCGGCGATGCTCGCATTGCAGCAACAATGGCCACAACTTCCGCAGGTGTCCGACGTGGGGTGGTG
66 CCGGCGATGCTCGCATTGCAGCAACAATGGCCACAACTTCCGCACGTGTCCGACGCGCGGTGGTG
* *
811709 GCGGAAACGGTGCAGCAACAATGGCCACAACTTCCGCAGGTGTCCGACGCGCGGTGGTGG
131 GCGGAAACGGAGCAGCAACAATGGCCACAACTTCCGCACGTGTCCGACGCGCGGTGGTGG
811769 AAGAAACGAT
Statistics
Matches: 182, Mismatches: 8, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
203 182 1.00
ACGTcount: A:0.22, C:0.29, G:0.34, T:0.15
Consensus pattern (203 bp):
GCAACAATGGCCACAACTTCCGCAAGTGTCCGACGCGCGATGGTGGCGGAAACGGTGGAGTTGAC
CCGGCGATGCTCGCATTGCAGCAACAATGGCCACAACTTCCGCACGTGTCCGACGCGCGGTGGTG
GCGGAAACGGAGCAGCAACAATGGCCACAACTTCCGCACGTGTCCGACGCGCGGTGGTGGCGGAA
ACGGTGCA
Found at i:811775 original size:59 final size:59
Alignment explanation
Indices: 811660--811776 Score: 198
Period size: 59 Copynumber: 2.0 Consensus size: 59
811650 ATGCTCGCAT
* * **
811660 TGCAGCAACAATGGCCACAACTTCCGCAGGTGTCCGACGTGGGGTGGTGGCGGAAACGG
1 TGCAGCAACAATGGCCACAACTTCCGCAGGTGTCCGACGCGCGGTGGTGGAAGAAACGG
811719 TGCAGCAACAATGGCCACAACTTCCGCAGGTGTCCGACGCGCGGTGGTGGAAGAAACG
1 TGCAGCAACAATGGCCACAACTTCCGCAGGTGTCCGACGCGCGGTGGTGGAAGAAACG
811777 ATGGAGTTGA
Statistics
Matches: 54, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
59 54 1.00
ACGTcount: A:0.24, C:0.26, G:0.35, T:0.15
Consensus pattern (59 bp):
TGCAGCAACAATGGCCACAACTTCCGCAGGTGTCCGACGCGCGGTGGTGGAAGAAACGG
Found at i:816702 original size:25 final size:28
Alignment explanation
Indices: 816669--816728 Score: 72
Period size: 25 Copynumber: 2.2 Consensus size: 28
816659 TAAAGATCAT
*
816669 TTAAAATTTATA-ATTA-ATAAAA-AAA
1 TTAAGATTTATACATTATATAAAAGAAA
*
816694 TTAAGATTTTTACATTATATAAAAGAAA
1 TTAAGATTTATACATTATATAAAAGAAA
*
816722 CTAAGAT
1 TTAAGAT
816729 ATTTTACAAC
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
25 10 0.34
26 4 0.14
27 6 0.21
28 9 0.31
ACGTcount: A:0.55, C:0.03, G:0.05, T:0.37
Consensus pattern (28 bp):
TTAAGATTTATACATTATATAAAAGAAA
Found at i:816705 original size:27 final size:29
Alignment explanation
Indices: 816675--816734 Score: 72
Period size: 27 Copynumber: 2.1 Consensus size: 29
816665 TCATTTAAAA
*
816675 TTTATAATTA-ATAAAA-AAATTAAGAT-T
1 TTTA-AATTATATAAAAGAAACTAAGATAT
*
816702 TTTACATTATATAAAAGAAACTAAGATAT
1 TTTAAATTATATAAAAGAAACTAAGATAT
816731 TTTA
1 TTTA
816735 CAACAGTTTA
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
26 4 0.14
27 10 0.36
28 9 0.32
29 5 0.18
ACGTcount: A:0.52, C:0.03, G:0.05, T:0.40
Consensus pattern (29 bp):
TTTAAATTATATAAAAGAAACTAAGATAT
Found at i:816736 original size:29 final size:26
Alignment explanation
Indices: 816681--816736 Score: 76
Period size: 28 Copynumber: 2.0 Consensus size: 26
816671 AAAATTTATA
*
816681 ATTAATAAAAAAATTAAGATTTTTAC
1 ATTAATAAAAAAACTAAGATTTTTAC
816707 ATTATATAAAAGAAACTAAGATATTTTAC
1 ATTA-ATAAAA-AAACTAAGAT-TTTTAC
816736 A
1 A
816737 ACAGTTTATT
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
26 4 0.15
27 6 0.23
28 9 0.35
29 7 0.27
ACGTcount: A:0.54, C:0.05, G:0.05, T:0.36
Consensus pattern (26 bp):
ATTAATAAAAAAACTAAGATTTTTAC
Found at i:817760 original size:2 final size:2
Alignment explanation
Indices: 817755--817795 Score: 73
Period size: 2 Copynumber: 20.5 Consensus size: 2
817745 AAAATAAACT
*
817755 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TG 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
817796 GAATAAATTT
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.51
Consensus pattern (2 bp):
TA
Found at i:817973 original size:23 final size:23
Alignment explanation
Indices: 817904--817974 Score: 70
Period size: 27 Copynumber: 2.9 Consensus size: 23
817894 CTTTTAACTT
* *
817904 ATTTTTAATAAATAAAATAAAAAA
1 ATTTTTAA-AAATAAAATTAGAAA
*
817928 ATAACTTTAAAAAGCTAAAATTAGAAA
1 AT--TTTTAAAAA--TAAAATTAGAAA
817955 ATTTTTAAAAATAAAATTAG
1 ATTTTTAAAAATAAAATTAG
817975 TTTTTTACAT
Statistics
Matches: 39, Mismatches: 4, Indels: 9
0.75 0.08 0.17
Matches are distributed among these distances:
23 9 0.23
24 2 0.05
25 11 0.28
26 5 0.13
27 12 0.31
ACGTcount: A:0.61, C:0.03, G:0.04, T:0.32
Consensus pattern (23 bp):
ATTTTTAAAAATAAAATTAGAAA
Found at i:820083 original size:46 final size:47
Alignment explanation
Indices: 820027--820116 Score: 119
Period size: 46 Copynumber: 1.9 Consensus size: 47
820017 TTTATTAAAT
* * * * *
820027 TTATAGTTTTTATAAGGATAAATTTATAAA-TTTTTTTATAAATAAC
1 TTATAATTTTTATAAGAATAAAATTATAAACTTTATTCATAAATAAC
*
820073 TTATAATTTTTATACGAATAAAATTATAAACTTTATTCATAAAT
1 TTATAATTTTTATAAGAATAAAATTATAAACTTTATTCATAAAT
820117 TTTTATACTA
Statistics
Matches: 37, Mismatches: 6, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
46 26 0.70
47 11 0.30
ACGTcount: A:0.43, C:0.04, G:0.04, T:0.48
Consensus pattern (47 bp):
TTATAATTTTTATAAGAATAAAATTATAAACTTTATTCATAAATAAC
Found at i:820099 original size:23 final size:23
Alignment explanation
Indices: 820022--820101 Score: 74
Period size: 23 Copynumber: 3.5 Consensus size: 23
820012 CTTTATTTAT
* *
820022 TAAATTTATAGTTTTTATAAGGA
1 TAAATTTATAATTTTTATAAGAA
*
820045 TAAATTTATAAATTTTTTTATA-AA
1 TAAATTTAT-AATTTTTATA-AGAA
* *
820069 T-AACTTATAATTTTTATACGAA
1 TAAATTTATAATTTTTATAAGAA
*
820091 TAAAATTATAA
1 TAAATTTATAA
820102 ACTTTATTCA
Statistics
Matches: 46, Mismatches: 7, Indels: 8
0.75 0.11 0.13
Matches are distributed among these distances:
22 12 0.26
23 23 0.50
24 10 0.22
25 1 0.02
ACGTcount: A:0.45, C:0.03, G:0.05, T:0.47
Consensus pattern (23 bp):
TAAATTTATAATTTTTATAAGAA
Found at i:820293 original size:14 final size:13
Alignment explanation
Indices: 820259--820300 Score: 66
Period size: 13 Copynumber: 3.2 Consensus size: 13
820249 TTTGATCATC
820259 AAATTATTTATTA
1 AAATTATTTATTA
*
820272 AAAATATTTATTA
1 AAATTATTTATTA
820285 AAATTTATTTATTA
1 AAA-TTATTTATTA
820299 AA
1 AA
820301 TAAATTAATT
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
13 15 0.58
14 11 0.42
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (13 bp):
AAATTATTTATTA
Found at i:820744 original size:36 final size:37
Alignment explanation
Indices: 820704--820788 Score: 93
Period size: 36 Copynumber: 2.3 Consensus size: 37
820694 ATAAAACGTT
* *
820704 TTTTATATTTAAATTTTAAATTTATT-AA-AAATTATA
1 TTTTA-ATTTAAATTTTAAATTAATTGAATAAATTAAA
* *
820740 TTTTAAAATAAAATTTTAAATTAATTGAATTAAATTAAA
1 TTTT-AATTTAAATTTTAAATTAATTGAA-TAAATTAAA
820779 TTTTAATTTA
1 TTTTAATTTA
820789 TTTATTATAT
Statistics
Matches: 39, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
36 21 0.54
37 3 0.08
38 4 0.10
39 11 0.28
ACGTcount: A:0.47, C:0.00, G:0.01, T:0.52
Consensus pattern (37 bp):
TTTTAATTTAAATTTTAAATTAATTGAATAAATTAAA
Found at i:823019 original size:15 final size:14
Alignment explanation
Indices: 822996--823029 Score: 50
Period size: 15 Copynumber: 2.4 Consensus size: 14
822986 TTAGATAAAT
*
822996 ATTTTTTTAATTTAA
1 ATTTATTTAATTT-A
823011 ATTTATTTAATTTA
1 ATTTATTTAATTTA
823025 ATTTA
1 ATTTA
823030 AATTATTATT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 6 0.33
15 12 0.67
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (14 bp):
ATTTATTTAATTTA
Found at i:823020 original size:10 final size:11
Alignment explanation
Indices: 823001--823033 Score: 52
Period size: 10 Copynumber: 3.2 Consensus size: 11
822991 TAAATATTTT
823001 TTTAATTTAAA
1 TTTAATTTAAA
823012 TTT-ATTT-AA
1 TTTAATTTAAA
823021 TTTAATTTAAA
1 TTTAATTTAAA
823032 TT
1 TT
823034 ATTATTTATT
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
9 5 0.25
10 8 0.40
11 7 0.35
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (11 bp):
TTTAATTTAAA
Found at i:825003 original size:46 final size:44
Alignment explanation
Indices: 824906--825021 Score: 198
Period size: 46 Copynumber: 2.6 Consensus size: 44
824896 CTTTCTACAC
*
824906 ATATAAACTATAACAATGAAAAATTA-CACGCACACACACACAT
1 ATATAAACTATAACAATGAAAAATTATCACACACACACACACAT
824949 ATATAAACTATAACAATGAAAAATTATCACACACACACACACATAT
1 ATATAAACTATAACAATGAAAAATTATCACACACACACACAC--AT
824995 ATATAAACTATAACAATGAAAAATTAT
1 ATATAAACTATAACAATGAAAAATTAT
825022 TAGAGCCTCC
Statistics
Matches: 69, Mismatches: 1, Indels: 3
0.95 0.01 0.04
Matches are distributed among these distances:
43 26 0.38
44 14 0.20
46 29 0.42
ACGTcount: A:0.55, C:0.19, G:0.03, T:0.22
Consensus pattern (44 bp):
ATATAAACTATAACAATGAAAAATTATCACACACACACACACAT
Found at i:836080 original size:26 final size:25
Alignment explanation
Indices: 836024--836088 Score: 85
Period size: 26 Copynumber: 2.6 Consensus size: 25
836014 TTAATAAAAA
**
836024 TAAATTTAATTTTTATATTTACTTT
1 TAAATTTAATTTTTATATTTAAATT
*
836049 TGAATTTAATTATTTATATTTAAATT
1 TAAATTTAATT-TTTATATTTAAATT
*
836075 TAAATTAAATTTTT
1 TAAATTTAATTTTT
836089 TAAATAATAA
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
25 13 0.38
26 21 0.62
ACGTcount: A:0.37, C:0.02, G:0.02, T:0.60
Consensus pattern (25 bp):
TAAATTTAATTTTTATATTTAAATT
Done.