Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168381.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_6, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 26551601
ACGTcount: A:0.34, C:0.15, G:0.15, T:0.34
Warning! 64000 characters in sequence are not A, C, G, or T
File 48 of 130
Found at i:11223745 original size:32 final size:32
Alignment explanation
Indices: 11223708--11223770 Score: 85
Period size: 32 Copynumber: 2.0 Consensus size: 32
11223698 ATATAACTTA
*
11223708 TATTTAAATAAGTAT-TA-TTAATTAATATTAAT
1 TATTT-AAT-AGTATATAGTTAAGTAATATTAAT
11223740 TATTTAATAGTATATAGTTAAGTAATATTAA
1 TATTTAATAGTATATAGTTAAGTAATATTAA
11223771 AATTATTATA
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
30 5 0.18
31 5 0.18
32 18 0.64
ACGTcount: A:0.46, C:0.00, G:0.06, T:0.48
Consensus pattern (32 bp):
TATTTAATAGTATATAGTTAAGTAATATTAAT
Found at i:11224239 original size:23 final size:23
Alignment explanation
Indices: 11224202--11224248 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 23
11224192 AATTATTAAA
*
11224202 TTAATTAAATAATAATTAAATAT
1 TTAATTAAATAATAAATAAATAT
* * *
11224225 TTAATTAATTTATAAATAATTAT
1 TTAATTAAATAATAAATAAATAT
11224248 T
1 T
11224249 AAAATTACTA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (23 bp):
TTAATTAAATAATAAATAAATAT
Found at i:11224518 original size:24 final size:23
Alignment explanation
Indices: 11224470--11224537 Score: 75
Period size: 24 Copynumber: 2.9 Consensus size: 23
11224460 TAAATATTAA
*
11224470 TAATCTTATAATATATAAATAGTT
1 TAAT-TTATTATATATAAATAGTT
*
11224494 TTATTTATTATATATAAAATAGTT
1 TAATTTATTATATAT-AAATAGTT
*
11224518 TAATTT-TATATATATTAATA
1 TAATTTAT-TATATATAAATA
11224538 ATTATATTAA
Statistics
Matches: 38, Mismatches: 4, Indels: 5
0.81 0.09 0.11
Matches are distributed among these distances:
23 15 0.39
24 23 0.61
ACGTcount: A:0.44, C:0.01, G:0.03, T:0.51
Consensus pattern (23 bp):
TAATTTATTATATATAAATAGTT
Found at i:11224545 original size:12 final size:13
Alignment explanation
Indices: 11224528--11224659 Score: 57
Period size: 14 Copynumber: 10.0 Consensus size: 13
11224518 TAATTTTATA
11224528 TATATTAA-TAAT
1 TATATTAATTAAT
11224540 TATATTAATTTAAT
1 TATATTAA-TTAAT
11224554 TATATT--TT-AT
1 TATATTAATTAAT
11224564 TATTATTAAGTACTAAT
1 TA-TATTAA-T--TAAT
*
11224581 AATATT-ATTATAT
1 TATATTAATTA-AT
*
11224594 TATAATTATCATAAAT
1 TAT-ATTA--ATTAAT
* *
11224610 GATATTAAATTAAA
1 TATATT-AATTAAT
*
11224624 TATAATTATTTAAT
1 TAT-ATTAATTAAT
11224638 TATATT-A-TAA-
1 TATATTAATTAAT
11224648 -ATATTAATTAAT
1 TATATTAATTAAT
11224660 AAAAGGAAAT
Statistics
Matches: 91, Mismatches: 10, Indels: 38
0.65 0.07 0.27
Matches are distributed among these distances:
9 5 0.05
10 5 0.05
11 12 0.13
12 10 0.11
13 7 0.08
14 29 0.32
15 7 0.08
16 10 0.11
17 6 0.07
ACGTcount: A:0.46, C:0.02, G:0.02, T:0.51
Consensus pattern (13 bp):
TATATTAATTAAT
Found at i:11224553 original size:14 final size:14
Alignment explanation
Indices: 11224517--11224559 Score: 54
Period size: 14 Copynumber: 3.1 Consensus size: 14
11224507 ATAAAATAGT
*
11224517 TTAATTTTATATATA
1 TTAATTTAAT-TATA
11224532 TTAA--TAATTATA
1 TTAATTTAATTATA
11224544 TTAATTTAATTATA
1 TTAATTTAATTATA
11224558 TT
1 TT
11224560 TTATTATTAT
Statistics
Matches: 25, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
12 8 0.32
13 3 0.12
14 10 0.40
15 4 0.16
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (14 bp):
TTAATTTAATTATA
Found at i:11224638 original size:18 final size:18
Alignment explanation
Indices: 11224611--11224658 Score: 53
Period size: 18 Copynumber: 2.7 Consensus size: 18
11224601 ATCATAAATG
*
11224611 ATATTAAATTAAATATAA
1 ATATTTAATTAAATATAA
* *
11224629 TTATTTAATTATATTATAA
1 ATATTTAATTA-AATATAA
11224648 ATA-TTAATTAA
1 ATATTTAATTAA
11224659 TAAAAGGAAA
Statistics
Matches: 25, Mismatches: 4, Indels: 3
0.78 0.12 0.09
Matches are distributed among these distances:
17 1 0.04
18 16 0.64
19 8 0.32
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (18 bp):
ATATTTAATTAAATATAA
Found at i:11225036 original size:19 final size:19
Alignment explanation
Indices: 11224986--11225039 Score: 56
Period size: 19 Copynumber: 2.7 Consensus size: 19
11224976 TATAATTAAG
*
11224986 TAAAATAA-TAATTATATTT
1 TAAAATAATTAA-TATAATT
*
11225005 TAAATCTATATTAATATAATT
1 TAAA-ATA-ATTAATATAATT
11225026 TAAAATAATTAATA
1 TAAAATAATTAATA
11225040 AACTTAATTA
Statistics
Matches: 29, Mismatches: 3, Indels: 6
0.76 0.08 0.16
Matches are distributed among these distances:
19 11 0.38
20 4 0.14
21 11 0.38
22 3 0.10
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (19 bp):
TAAAATAATTAATATAATT
Found at i:11225383 original size:12 final size:12
Alignment explanation
Indices: 11225366--11225398 Score: 66
Period size: 12 Copynumber: 2.8 Consensus size: 12
11225356 TTAAAAAATG
11225366 ACTATTTTTAAT
1 ACTATTTTTAAT
11225378 ACTATTTTTAAT
1 ACTATTTTTAAT
11225390 ACTATTTTT
1 ACTATTTTT
11225399 CAACATTGAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.30, C:0.09, G:0.00, T:0.61
Consensus pattern (12 bp):
ACTATTTTTAAT
Found at i:11225497 original size:19 final size:21
Alignment explanation
Indices: 11225475--11225522 Score: 73
Period size: 21 Copynumber: 2.3 Consensus size: 21
11225465 AATTTAATAC
11225475 TTATAAT-TAATATTA-ATTA
1 TTATAATATAATATTATATTA
11225494 TTATAAATATAATATTATATTA
1 TTAT-AATATAATATTATATTA
11225516 TTATAAT
1 TTATAAT
11225523 GTCAATTTAA
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
19 4 0.15
20 3 0.12
21 11 0.42
22 8 0.31
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (21 bp):
TTATAATATAATATTATATTA
Found at i:11225664 original size:15 final size:15
Alignment explanation
Indices: 11225644--11225677 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
11225634 AATAATTTTT
11225644 ATTATTATATTAT-AA
1 ATTATT-TATTATCAA
11225659 ATTATTTATTATCAA
1 ATTATTTATTATCAA
11225674 ATTA
1 ATTA
11225678 AATGAGGTGA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 6 0.33
15 12 0.67
ACGTcount: A:0.44, C:0.03, G:0.00, T:0.53
Consensus pattern (15 bp):
ATTATTTATTATCAA
Found at i:11225677 original size:22 final size:21
Alignment explanation
Indices: 11225637--11225677 Score: 55
Period size: 22 Copynumber: 1.9 Consensus size: 21
11225627 AATAATTAAT
* *
11225637 AATTTTTATTATTATATTATA
1 AATTTTTATTATCAAATTATA
11225658 AATTATTTATTATCAAATTA
1 AATT-TTTATTATCAAATTA
11225678 AATGAGGTGA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 4 0.24
22 13 0.76
ACGTcount: A:0.41, C:0.02, G:0.00, T:0.56
Consensus pattern (21 bp):
AATTTTTATTATCAAATTATA
Found at i:11225730 original size:18 final size:18
Alignment explanation
Indices: 11225689--11225741 Score: 63
Period size: 18 Copynumber: 2.9 Consensus size: 18
11225679 ATGAGGTGAT
*
11225689 TAATTTAATTATTAATAC
1 TAATTTAATAATTAATAC
11225707 TAATTTAATAATATAA-AC
1 TAATTTAATAAT-TAATAC
*
11225725 TTATTTATATAATTAAT
1 TAATTTA-ATAATTAAT
11225742 TATAATAATT
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
18 22 0.73
19 8 0.27
ACGTcount: A:0.47, C:0.04, G:0.00, T:0.49
Consensus pattern (18 bp):
TAATTTAATAATTAATAC
Found at i:11225751 original size:13 final size:13
Alignment explanation
Indices: 11225729--11225812 Score: 53
Period size: 11 Copynumber: 7.0 Consensus size: 13
11225719 ATAAACTTAT
11225729 TTAT-ATAATTAA
1 TTATAATAATTAA
11225741 TTATAATAATTTAA
1 TTATAATAA-TTAA
11225755 -TATAAT-ATT-A
1 TTATAATAATTAA
11225765 TTA-AATAA--AA
1 TTATAATAATTAA
*
11225775 TTATAA-AATTAG
1 TTATAATAATTAA
*
11225787 TATATTAATTATTAA
1 T-TA-TAATAATTAA
11225802 TT-TAAT-ATTAA
1 TTATAATAATTAA
11225813 ATCTATTTTG
Statistics
Matches: 58, Mismatches: 3, Indels: 23
0.69 0.04 0.27
Matches are distributed among these distances:
10 10 0.17
11 12 0.21
12 11 0.19
13 12 0.21
14 8 0.14
15 5 0.09
ACGTcount: A:0.51, C:0.00, G:0.01, T:0.48
Consensus pattern (13 bp):
TTATAATAATTAA
Found at i:11225811 original size:18 final size:17
Alignment explanation
Indices: 11225687--11225812 Score: 55
Period size: 18 Copynumber: 6.9 Consensus size: 17
11225677 AAATGAGGTG
11225687 ATTAATTTAATTATTAAT
1 ATTAATTTAA-TATTAAT
*
11225705 ACTAATTTAATAATATAA-
1 ATTAATTTAAT-AT-TAAT
11225723 ACTT-ATTTATATAATTAATT
1 A-TTAATTTA-AT-ATTAA-T
11225743 ATAATAATTTAATA-TAAT
1 AT--TAATTTAATATTAAT
* *
11225761 ATT-ATTAAATA-AAATT
1 ATTAATTTAATATTAA-T
* *
11225777 ATAAAATTAGTATATTAATT
1 ATTAATTTA--ATATTAA-T
11225797 ATTAATTTAATATTAA
1 ATTAATTTAATATTAA
11225813 ATCTATTTTG
Statistics
Matches: 84, Mismatches: 10, Indels: 28
0.69 0.08 0.23
Matches are distributed among these distances:
15 9 0.11
16 4 0.05
17 4 0.05
18 30 0.36
19 16 0.19
20 13 0.15
21 3 0.04
22 5 0.06
ACGTcount: A:0.50, C:0.02, G:0.01, T:0.48
Consensus pattern (17 bp):
ATTAATTTAATATTAAT
Found at i:11226005 original size:16 final size:15
Alignment explanation
Indices: 11225982--11226026 Score: 54
Period size: 18 Copynumber: 2.7 Consensus size: 15
11225972 ATTATAATAT
11225982 ATATATAATTATATAATA
1 ATATA-AATTAT-TAA-A
11226000 ATATAAGATTATTAAA
1 ATATAA-ATTATTAAA
11226016 ATATAAATTAT
1 ATATAAATTAT
11226027 GATTATTTAC
Statistics
Matches: 26, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
15 5 0.19
16 7 0.27
17 4 0.15
18 10 0.38
ACGTcount: A:0.56, C:0.00, G:0.02, T:0.42
Consensus pattern (15 bp):
ATATAAATTATTAAA
Found at i:11226144 original size:27 final size:24
Alignment explanation
Indices: 11226085--11226161 Score: 59
Period size: 26 Copynumber: 3.0 Consensus size: 24
11226075 ATATATCTCA
11226085 ATAATATTAATTTAATAAATTAATT
1 ATAATA-TAATTTAATAAATTAATT
* * *
11226110 AGATTATAATTTCAAATAACTATAATT
1 ATAATATAATTT--AATAAAT-TAATT
11226137 ATAATAT-ATTTATCATAAA-TAATT
1 ATAATATAATTTA--ATAAATTAATT
11226161 A
1 A
11226162 ATTATTAATA
Statistics
Matches: 41, Mismatches: 6, Indels: 11
0.71 0.10 0.19
Matches are distributed among these distances:
24 13 0.32
25 4 0.10
26 14 0.34
27 10 0.24
ACGTcount: A:0.51, C:0.04, G:0.01, T:0.44
Consensus pattern (24 bp):
ATAATATAATTTAATAAATTAATT
Found at i:11226391 original size:13 final size:13
Alignment explanation
Indices: 11226358--11226413 Score: 51
Period size: 13 Copynumber: 4.2 Consensus size: 13
11226348 ATCAACTAAA
11226358 TTATATTAATATAT
1 TTATATTAATA-AT
*
11226372 TTAATATTTATAAT
1 TT-ATATTAATAAT
* *
11226386 TTATATTCATAAA
1 TTATATTAATAAT
*
11226399 TTATA-AAATAAT
1 TTATATTAATAAT
11226411 TTA
1 TTA
11226414 AAAATTGTAT
Statistics
Matches: 35, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
12 7 0.20
13 14 0.40
14 6 0.17
15 8 0.23
ACGTcount: A:0.46, C:0.02, G:0.00, T:0.52
Consensus pattern (13 bp):
TTATATTAATAAT
Found at i:11226425 original size:41 final size:41
Alignment explanation
Indices: 11226354--11226431 Score: 106
Period size: 41 Copynumber: 1.9 Consensus size: 41
11226344 GGAAATCAAC
* *
11226354 TAAATTATATTAATATATTTAATATTTATAATTTATATTCA
1 TAAATTATATAAATATATTTAAAATTTATAATTTATATTCA
11226395 TAAATTATA-AAATA-ATTTAAAAATTGTATAATTTATA
1 TAAATTATATAAATATATTT-AAAATT-TATAATTTATA
11226432 AATTAATCAA
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
39 4 0.12
40 9 0.27
41 20 0.61
ACGTcount: A:0.49, C:0.01, G:0.01, T:0.49
Consensus pattern (41 bp):
TAAATTATATAAATATATTTAAAATTTATAATTTATATTCA
Found at i:11226538 original size:22 final size:22
Alignment explanation
Indices: 11226513--11226563 Score: 52
Period size: 22 Copynumber: 2.3 Consensus size: 22
11226503 TAATTATTTA
11226513 ATTTTAAATAATTAG-TATAATT
1 ATTTTAAATAATTAGAT-TAATT
*
11226535 A-TTTATACTAATTAGATTAATT
1 ATTTTA-AATAATTAGATTAATT
*
11226557 ATATTAA
1 ATTTTAA
11226564 GTTAATTATT
Statistics
Matches: 24, Mismatches: 2, Indels: 6
0.75 0.06 0.19
Matches are distributed among these distances:
21 4 0.17
22 16 0.67
23 4 0.17
ACGTcount: A:0.45, C:0.02, G:0.04, T:0.49
Consensus pattern (22 bp):
ATTTTAAATAATTAGATTAATT
Found at i:11226558 original size:18 final size:18
Alignment explanation
Indices: 11226530--11226580 Score: 52
Period size: 18 Copynumber: 2.8 Consensus size: 18
11226520 ATAATTAGTA
*
11226530 TAATTATTTATACTAA-T
1 TAATTAATTATACTAAGT
*
11226547 TAGATTAATTATATTAAGT
1 TA-ATTAATTATACTAAGT
11226566 TAATT-ATTCATACTA
1 TAATTAATT-ATACTA
11226581 CAATCTTTAA
Statistics
Matches: 28, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
17 5 0.18
18 20 0.71
19 3 0.11
ACGTcount: A:0.41, C:0.06, G:0.04, T:0.49
Consensus pattern (18 bp):
TAATTAATTATACTAAGT
Found at i:11226972 original size:26 final size:26
Alignment explanation
Indices: 11226912--11226972 Score: 63
Period size: 26 Copynumber: 2.4 Consensus size: 26
11226902 TAATTTAGTA
* *
11226912 TATTATA-TTTATTAATAATTATAAT
1 TATTATATTTTAATAATAATTATAAG
* *
11226937 TATTCA-ATTTTAATAATGATTATTAG
1 TATT-ATATTTTAATAATAATTATAAG
11226963 TATTATATTT
1 TATTATATTT
11226973 ATATTATAAT
Statistics
Matches: 29, Mismatches: 4, Indels: 5
0.76 0.11 0.13
Matches are distributed among these distances:
25 6 0.21
26 23 0.79
ACGTcount: A:0.39, C:0.02, G:0.03, T:0.56
Consensus pattern (26 bp):
TATTATATTTTAATAATAATTATAAG
Found at i:11227132 original size:15 final size:15
Alignment explanation
Indices: 11227112--11227152 Score: 59
Period size: 15 Copynumber: 2.9 Consensus size: 15
11227102 ATGTATAAAT
11227112 TATTATTAATTAATA
1 TATTATTAATTAATA
*
11227127 TATTATAAATTAATA
1 TATTATTAATTAATA
11227142 T-TTATT-ATTAA
1 TATTATTAATTAA
11227153 GTTATTAATA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
13 5 0.21
14 4 0.17
15 15 0.62
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (15 bp):
TATTATTAATTAATA
Found at i:11227143 original size:25 final size:25
Alignment explanation
Indices: 11227105--11227171 Score: 73
Period size: 25 Copynumber: 2.6 Consensus size: 25
11227095 TAAGATAATG
*
11227105 TATAAATTATTATTAATTAATATA-T
1 TATAAATTAATATTAATTAATA-AGT
* *
11227130 TATAAATTAATATTTATTATTAAGT
1 TATAAATTAATATTAATTAATAAGT
*
11227155 TATTAATATAATATTAA
1 TATAAAT-TAATATTAA
11227172 AATAATACAA
Statistics
Matches: 35, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
24 1 0.03
25 26 0.74
26 8 0.23
ACGTcount: A:0.48, C:0.00, G:0.01, T:0.51
Consensus pattern (25 bp):
TATAAATTAATATTAATTAATAAGT
Found at i:11227171 original size:32 final size:32
Alignment explanation
Indices: 11227111--11227171 Score: 81
Period size: 32 Copynumber: 1.9 Consensus size: 32
11227101 AATGTATAAA
*
11227111 TTATTATTAATTAATATATTATAAATTAATAT
1 TTATTATTAATTAATATAATATAAATTAATAT
11227143 TTATTATTAAGTT-AT-TAATATAATATTAA
1 TTATTATTAA-TTAATATAATATAA-ATTAA
11227172 AATAATACAA
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
31 7 0.27
32 17 0.65
33 2 0.08
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.52
Consensus pattern (32 bp):
TTATTATTAATTAATATAATATAAATTAATAT
Found at i:11227199 original size:22 final size:23
Alignment explanation
Indices: 11227135--11227222 Score: 74
Period size: 22 Copynumber: 3.7 Consensus size: 23
11227125 TATATTATAA
*
11227135 ATTAATATTTATTATTAAGTTATTAAT
1 ATTAATATTTA--ATTAA--TATCAAT
* *
11227162 A-TAATATTAAAATAATA-CAAAT
1 ATTAATATTTAATTAATATC-AAT
*
11227184 ATTTATATTT-ATTAATATCAAT
1 ATTAATATTTAATTAATATCAAT
11227206 ATTAATATTTAATTAAT
1 ATTAATATTTAATTAAT
11227223 TAGATTAATA
Statistics
Matches: 50, Mismatches: 7, Indels: 12
0.72 0.10 0.17
Matches are distributed among these distances:
22 24 0.48
23 13 0.26
24 4 0.08
26 8 0.16
27 1 0.02
ACGTcount: A:0.48, C:0.02, G:0.01, T:0.49
Consensus pattern (23 bp):
ATTAATATTTAATTAATATCAAT
Found at i:11227214 original size:6 final size:6
Alignment explanation
Indices: 11227135--11227214 Score: 51
Period size: 6 Copynumber: 13.5 Consensus size: 6
11227125 TATATTATAA
* * **
11227135 ATTAAT ATTTATT ATTAAGTT ATTAAT A-TAAT ATTAA- AATAAT ACAAAT
1 ATTAAT A-TTAAT ATTAA--T ATTAAT ATTAAT ATTAAT ATTAAT ATTAAT
* *
11227184 ATTTAT ATT--T ATTAAT ATCAAT ATTAAT ATT
1 ATTAAT ATTAAT ATTAAT ATTAAT ATTAAT ATT
11227215 TAATTAATTA
Statistics
Matches: 57, Mismatches: 10, Indels: 14
0.70 0.12 0.17
Matches are distributed among these distances:
4 4 0.07
5 9 0.16
6 33 0.58
7 5 0.09
8 6 0.11
ACGTcount: A:0.47, C:0.03, G:0.01, T:0.49
Consensus pattern (6 bp):
ATTAAT
Found at i:11227615 original size:27 final size:27
Alignment explanation
Indices: 11227585--11227650 Score: 75
Period size: 26 Copynumber: 2.5 Consensus size: 27
11227575 AACAATTAAA
11227585 TTTATATATAATTATTTGAA-TATTGAT
1 TTTATAT-TAATTATTTGAATTATTGAT
* *
11227612 TTTA-ATTTAAATATTTTAATTATTGAT
1 TTTATA-TTAATTATTTGAATTATTGAT
11227639 TTT-TATTAATTA
1 TTTATATTAATTA
11227651 ATAGATATCT
Statistics
Matches: 33, Mismatches: 3, Indels: 7
0.77 0.07 0.16
Matches are distributed among these distances:
26 17 0.52
27 16 0.48
ACGTcount: A:0.36, C:0.00, G:0.05, T:0.59
Consensus pattern (27 bp):
TTTATATTAATTATTTGAATTATTGAT
Found at i:11228095 original size:177 final size:177
Alignment explanation
Indices: 11227740--11228263 Score: 509
Period size: 177 Copynumber: 2.9 Consensus size: 177
11227730 TACTAAATTA
* * *
11227740 TTATTTTTTAAATCTCTTAGTTATTCATTTTTAGAATATTGCTAAATTAGTATTATTTTATTTCA
1 TTATTTTTTAAATGTCTTA-TTA---ATTTTTAAAATATTACTAAATTAGTATTATTTTATTTCA
* * * * **
11227805 AATAAGCTTGTATGAATAGAAACAATTATTTTATGATAGAACAAAAGGTTGTAACAATTTGAAAT
62 AATAAGCTTGTACGAATAAAAACAATTATTTTATGACAAAACAAAAGGTAATAACAATTTGAAAT
* *
11227870 AGAAAATTGTTCAAATAGTCATAACTATTTGAACTAGTTTAATAAACTGAT
127 AGAAAATTGTTCAAATAGTCATAACTATTTAAACTAGTTGAATAAACTGAT
* * *
11227921 TTATTTTTTAAATGTCTTATTAATTCTTAAAATATTAATAAATTGGTATTATTTTATTTCAAATA
1 TTATTTTTTAAATGTCTTATTAATTTTTAAAATATTACTAAATTAGTATTATTTTATTTCAAATA
* *
11227986 AGCTTGTACG-TTGAAAAACAGTTATTTTATGACAAAACAAAAGGTAATAACAATTTGAAATAGA
66 AGCTTGTACGAAT-AAAAACAATTATTTTATGACAAAACAAAAGGTAATAACAATTTGAAATAGA
* * * * * **
11228050 TAGTTGTTTAAAT-GGCTATAATTATTTAAACT-GATTGGGTAAACTGAT
130 AAATTGTTCAAATAGTC-ATAACTATTTAAACTAG-TTGAATAAACTGAT
* * * *
11228098 TTATTCTTTTGAATTAGTTACTTATTAATTTTTGAAATATTACTAAAGTAGTATTATTTTATTTT
1 TTATT-TTTT-AAAT-G-T-CTTATTAATTTTTAAAATATTACTAAATTAGTATTATTTTATTTC
** * * * * * * * ** *
11228163 GGATAAACTTTTATGAACT-AAAACAATTGTTTTATGACAAAATAAATGGTCATAATTATTTTAA
61 AAATAAGCTTGTACGAA-TAAAAACAATTATTTTATGACAAAACAAAAGGTAATAACAATTTGAA
* * *
11228227 ATA-AATAATTGTTCAAATAGCCATAATTATTTGAACT
125 ATAGAA-AATTGTTCAAATAGTCATAACTATTTAAACT
11228264 TATTTGGTAA
Statistics
Matches: 282, Mismatches: 49, Indels: 23
0.80 0.14 0.06
Matches are distributed among these distances:
176 4 0.01
177 131 0.46
178 4 0.01
179 3 0.01
180 4 0.01
181 20 0.07
182 113 0.40
183 2 0.01
184 1 0.00
ACGTcount: A:0.39, C:0.07, G:0.11, T:0.43
Consensus pattern (177 bp):
TTATTTTTTAAATGTCTTATTAATTTTTAAAATATTACTAAATTAGTATTATTTTATTTCAAATA
AGCTTGTACGAATAAAAACAATTATTTTATGACAAAACAAAAGGTAATAACAATTTGAAATAGAA
AATTGTTCAAATAGTCATAACTATTTAAACTAGTTGAATAAACTGAT
Found at i:11228200 original size:182 final size:174
Alignment explanation
Indices: 11227740--11228282 Score: 545
Period size: 182 Copynumber: 3.0 Consensus size: 174
11227730 TACTAAATTA
* *
11227740 TTATTTTTTAAATCTCTTAGTTATTCATTTTTAGAATATTGCTAAATTAGTATTATTTTATTTCA
1 TTATTTTTTAAATGTCTTA-TTA---ATTTTTA-AATATTACTAAATTAGTATTATTTTATTTCA
* * **
11227805 AATAAGCTTGTATGAATAGAAACAATTATTTTATGATAGAACAAAAGGTTGTAACAATTTGAAAT
61 AATAAGCTTGTATGAATA-AAACAATTATTTTATGACAAAACAAAAGGTAATAACAATTTGAAAT
* * **
11227870 AGAAAATTGTTCAAATAG-TCATAACTATTTGAACTAGTTTAATAAACTGAT
125 AGATAATTGTTCAAATAGCT-ATAATTATTTGAACTA-TTTGGTAAACTGAT
* * *
11227921 TTATTTTTTAAATGTCTTATTAATTCTTAAAATATTAATAAATTGGTATTATTTTATTTCAAATA
1 TTATTTTTTAAATGTCTTATTAATT-TTTAAATATTACTAAATTAGTATTATTTTATTTCAAATA
*
11227986 AGCTTGTACGTTG-A-AAAACAGTTATTTTATGACAAAACAAAAGGTAATAACAATTTGAAATAG
65 AGCTTGTA---TGAATAAAACAATTATTTTATGACAAAACAAAAGGTAATAACAATTTGAAATAG
* * * * *
11228049 ATAGTTGTTTAAATGGCTATAATTATTTAAACTGATTGGGTAAACTGAT
127 ATAATTGTTCAAATAGCTATAATTATTTGAACT-ATTTGGTAAACTGAT
* * *
11228098 TTATTCTTTTGAATTAGTTACTTATTAATTTTTGAAATATTACTAAAGTAGTATTATTTTATTTT
1 TTATT-TTTT-AAAT-G-T-CTTATTAATTTTT-AAATATTACTAAATTAGTATTATTTTATTTC
** * * * * * * ** *
11228163 GGATAAACTTTTATGAACTAAAACAATTGTTTTATGACAAAATAAATGGTCATAATTATTTTAAA
60 AAATAAGCTTGTATGAA-TAAAACAATTATTTTATGACAAAACAAAAGGTAATAACAATTTGAAA
* *
11228228 TAAATAATTGTTCAAATAGCCATAATTATTTGAACTTATTTGGTAAA-TAGAT
124 TAGATAATTGTTCAAATAGCTATAATTATTTGAAC-TATTTGGTAAACT-GAT
11228280 TTA
1 TTA
11228283 AAAGGTATAG
Statistics
Matches: 301, Mismatches: 44, Indels: 33
0.80 0.12 0.09
Matches are distributed among these distances:
177 127 0.42
178 10 0.03
179 6 0.02
180 7 0.02
181 22 0.07
182 128 0.43
183 1 0.00
ACGTcount: A:0.39, C:0.07, G:0.11, T:0.43
Consensus pattern (174 bp):
TTATTTTTTAAATGTCTTATTAATTTTTAAATATTACTAAATTAGTATTATTTTATTTCAAATAA
GCTTGTATGAATAAAACAATTATTTTATGACAAAACAAAAGGTAATAACAATTTGAAATAGATAA
TTGTTCAAATAGCTATAATTATTTGAACTATTTGGTAAACTGAT
Found at i:11229597 original size:23 final size:22
Alignment explanation
Indices: 11229537--11229589 Score: 65
Period size: 22 Copynumber: 2.4 Consensus size: 22
11229527 ATAAATTATA
11229537 TTTATTAACATAGATT-T-AAGGT
1 TTTATTAA-ATA-ATTATGAAGGT
11229559 TTTATTAAATAATTATGAAGGT
1 TTTATTAAATAATTATGAAGGT
*
11229581 TTTTTTAAA
1 TTTATTAAA
11229590 CTTATTATAA
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
20 3 0.11
21 4 0.14
22 21 0.75
ACGTcount: A:0.38, C:0.02, G:0.11, T:0.49
Consensus pattern (22 bp):
TTTATTAAATAATTATGAAGGT
Found at i:11229774 original size:18 final size:17
Alignment explanation
Indices: 11229709--11229775 Score: 50
Period size: 18 Copynumber: 3.8 Consensus size: 17
11229699 ATTATATCAA
11229709 TAATTAATATATAA-TAT
1 TAATTAATAT-TAACTAT
*
11229726 TAAATT-AGATTATACTAT
1 T-AATTAATATTA-ACTAT
11229744 TAA-TAATGCATTAACTAT
1 TAATTAAT--ATTAACTAT
11229762 ATAATTAATATTAA
1 -TAATTAATATTAA
11229776 ACAAGATTTA
Statistics
Matches: 40, Mismatches: 2, Indels: 15
0.70 0.04 0.26
Matches are distributed among these distances:
16 3 0.08
17 8 0.20
18 18 0.45
19 7 0.17
20 4 0.10
ACGTcount: A:0.49, C:0.04, G:0.03, T:0.43
Consensus pattern (17 bp):
TAATTAATATTAACTAT
Found at i:11229920 original size:32 final size:32
Alignment explanation
Indices: 11229862--11229939 Score: 95
Period size: 32 Copynumber: 2.3 Consensus size: 32
11229852 ATTAAAATAC
*
11229862 TAATATACATTATAATAAGCAATTATTATATAT-A
1 TAATATA-A-TATAATAACCAATTATTATA-ATCA
*
11229896 TAATATAATATAATAACCATTTATTATAATCCA
1 TAATATAATATAATAACCAATTATTATAAT-CA
11229929 TAATATAATAT
1 TAATATAATAT
11229940 CAATTCATTA
Statistics
Matches: 40, Mismatches: 2, Indels: 5
0.85 0.04 0.11
Matches are distributed among these distances:
31 2 0.05
32 18 0.45
33 13 0.32
34 7 0.17
ACGTcount: A:0.50, C:0.08, G:0.01, T:0.41
Consensus pattern (32 bp):
TAATATAATATAATAACCAATTATTATAATCA
Found at i:11230056 original size:16 final size:16
Alignment explanation
Indices: 11230035--11230066 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
11230025 TTTAATTCTA
11230035 ATAATATTAGTTTAAT
1 ATAATATTAGTTTAAT
*
11230051 ATAATATTATTTTAAT
1 ATAATATTAGTTTAAT
11230067 GTTTATAAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.44, C:0.00, G:0.03, T:0.53
Consensus pattern (16 bp):
ATAATATTAGTTTAAT
Found at i:11230255 original size:21 final size:21
Alignment explanation
Indices: 11230231--11230321 Score: 71
Period size: 22 Copynumber: 4.2 Consensus size: 21
11230221 TATTATCTTT
*
11230231 ATAAATATTAA-ATTTTAATTA
1 ATAAA-ATTAATAATTTAATTA
11230252 ATAAAATTAATAATTTAATATTA
1 ATAAAATTAATAATTT-A-ATTA
* * *
11230275 AT-TAATTGATTATTATAATT-
1 ATAAAATTAATAATT-TAATTA
11230295 ATATAAATTAAATAATTTAATTA
1 ATA-AAATT-AATAATTTAATTA
11230318 ATAA
1 ATAA
11230322 CAAATTTTGT
Statistics
Matches: 55, Mismatches: 7, Indels: 15
0.71 0.09 0.19
Matches are distributed among these distances:
20 7 0.13
21 12 0.22
22 21 0.38
23 15 0.27
ACGTcount: A:0.53, C:0.00, G:0.01, T:0.46
Consensus pattern (21 bp):
ATAAAATTAATAATTTAATTA
Found at i:11230417 original size:23 final size:21
Alignment explanation
Indices: 11230365--11230429 Score: 55
Period size: 23 Copynumber: 3.0 Consensus size: 21
11230355 ATTTATTTTA
*
11230365 ATATTAATTAA-AATAATATAAT
1 ATATTAATTAATAAT-AT-TATT
11230387 ATATTTAATTAATTAATATTATT
1 ATA-TTAATTAA-TAATATTATT
11230410 CATATTAA-TAA-AATATTATT
1 -ATATTAATTAATAATATTATT
11230430 GAATATTCAA
Statistics
Matches: 38, Mismatches: 1, Indels: 10
0.78 0.02 0.20
Matches are distributed among these distances:
20 9 0.24
22 6 0.16
23 15 0.39
24 5 0.13
25 3 0.08
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.48
Consensus pattern (21 bp):
ATATTAATTAATAATATTATT
Found at i:11230419 original size:37 final size:34
Alignment explanation
Indices: 11230349--11230425 Score: 84
Period size: 37 Copynumber: 2.2 Consensus size: 34
11230339 TTTTAACTTT
11230349 AAATATATTTATTTTAATATTAATTAAAATAATA
1 AAATATATTTATTTTAATATTAATTAAAATAATA
* * *
11230383 TAATATATTTAATTAATTAATATT-ATTCATATTAATA
1 AAATATATTT-ATT--TTAATATTAATT-AAAATAATA
11230420 AAATAT
1 AAATAT
11230426 TATTGAATAT
Statistics
Matches: 35, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
34 9 0.26
35 3 0.09
36 3 0.09
37 20 0.57
ACGTcount: A:0.51, C:0.01, G:0.00, T:0.48
Consensus pattern (34 bp):
AAATATATTTATTTTAATATTAATTAAAATAATA
Found at i:11230855 original size:17 final size:17
Alignment explanation
Indices: 11230821--11230858 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 17
11230811 TTTATATATT
*
11230821 ATTATATTATTATTTAA
1 ATTATATTATTATATAA
11230838 ATTATATTATT-TGATAA
1 ATTATATTATTAT-ATAA
11230855 ATTA
1 ATTA
11230859 AATAATTGAG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
16 1 0.05
17 18 0.95
ACGTcount: A:0.42, C:0.00, G:0.03, T:0.55
Consensus pattern (17 bp):
ATTATATTATTATATAA
Found at i:11232473 original size:16 final size:16
Alignment explanation
Indices: 11232454--11232486 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
11232444 TATATTAAAT
11232454 TTATAAAATTTTAATA
1 TTATAAAATTTTAATA
11232470 TTATAAAATTTTAATA
1 TTATAAAATTTTAATA
11232486 T
1 T
11232487 GTTTAATTAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (16 bp):
TTATAAAATTTTAATA
Found at i:11232534 original size:18 final size:17
Alignment explanation
Indices: 11232511--11232557 Score: 53
Period size: 18 Copynumber: 2.7 Consensus size: 17
11232501 TTTTTATAAT
11232511 TATTTATATAATCTATTA
1 TATTTATATAAT-TATTA
11232529 TATTTA-AT-ATTATTA
1 TATTTATATAATTATTA
11232544 TAGTATTATATAAT
1 TA-T-TTATATAAT
11232558 ATCATTAAGT
Statistics
Matches: 25, Mismatches: 0, Indels: 7
0.78 0.00 0.22
Matches are distributed among these distances:
15 7 0.28
16 3 0.12
17 5 0.20
18 8 0.32
19 2 0.08
ACGTcount: A:0.40, C:0.02, G:0.02, T:0.55
Consensus pattern (17 bp):
TATTTATATAATTATTA
Found at i:11232572 original size:18 final size:18
Alignment explanation
Indices: 11232550--11232586 Score: 56
Period size: 20 Copynumber: 1.9 Consensus size: 18
11232540 ATTATAGTAT
11232550 TATATAATATCATTAAGTTA
1 TATATAATA--ATTAAGTTA
11232570 TATATAATAATTAAGTT
1 TATATAATAATTAAGTT
11232587 TCAAATCATT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 8 0.47
20 9 0.53
ACGTcount: A:0.46, C:0.03, G:0.05, T:0.46
Consensus pattern (18 bp):
TATATAATAATTAAGTTA
Found at i:11233216 original size:24 final size:24
Alignment explanation
Indices: 11233154--11233270 Score: 102
Period size: 24 Copynumber: 4.9 Consensus size: 24
11233144 TAAATATTTT
*
11233154 TATAATGAATTGATA-TAATTAT--
1 TATAATTAATT-ATATTAATTATAA
*
11233176 TAT-ATTAAATTAAATTAATTATAA
1 TATAATT-AATTATATTAATTATAA
* *
11233200 TATAACTAA-TATTATTAATTAACAA
1 TATAATTAATTA-TATTAATT-ATAA
*
11233225 T-TAGATTTATTATATTAATTATAA
1 TATA-ATTAATTATATTAATTATAA
11233249 TATAATTAATTATATTAATTAT
1 TATAATTAATTATATTAATTAT
11233271 GTGCTTTTAT
Statistics
Matches: 76, Mismatches: 9, Indels: 18
0.74 0.09 0.17
Matches are distributed among these distances:
21 4 0.05
22 14 0.18
23 2 0.03
24 35 0.46
25 19 0.25
26 2 0.03
ACGTcount: A:0.48, C:0.02, G:0.03, T:0.48
Consensus pattern (24 bp):
TATAATTAATTATATTAATTATAA
Found at i:11233237 original size:40 final size:39
Alignment explanation
Indices: 11233171--11233260 Score: 94
Period size: 40 Copynumber: 2.3 Consensus size: 39
11233161 AATTGATATA
11233171 ATTATTATATT-AAATTAAATTAATTATAAT-ATAACTAAT
1 ATTATTA-ATTAAAATTAAATTAATTATAATAATAA-TAAT
* * * *
11233210 ATTATTAATTAACAATTAGATTTATTATATTAATTATAAT
1 ATTATTAATTAA-AATTAAATTAATTATAATAATAATAAT
*
11233250 ATAATTAATTA
1 ATTATTAATTA
11233261 TATTAATTAT
Statistics
Matches: 43, Mismatches: 5, Indels: 5
0.81 0.09 0.09
Matches are distributed among these distances:
38 3 0.07
39 8 0.19
40 29 0.67
41 3 0.07
ACGTcount: A:0.49, C:0.02, G:0.01, T:0.48
Consensus pattern (39 bp):
ATTATTAATTAAAATTAAATTAATTATAATAATAATAAT
Found at i:11233245 original size:9 final size:9
Alignment explanation
Indices: 11233174--11233270 Score: 51
Period size: 9 Copynumber: 10.6 Consensus size: 9
11233164 TGATATAATT
11233174 ATTATATTAA
1 ATTATATT-A
*
11233184 ATTAAATTA
1 ATTATATTA
11233193 ATTATAATATA
1 ATTAT-AT-TA
11233204 ACTAATATTATTA
1 A-T--TA-TATTA
*
11233217 ATTA-A-CA
1 ATTATATTA
* *
11233224 ATTAGATTT
1 ATTATATTA
11233233 ATTATATTA
1 ATTATATTA
*
11233242 ATTATAAT-
1 ATTATATTA
11233250 A-TA-ATTA
1 ATTATATTA
11233257 ATTATATTA
1 ATTATATTA
11233266 ATTAT
1 ATTAT
11233271 GTGCTTTTAT
Statistics
Matches: 67, Mismatches: 9, Indels: 23
0.68 0.09 0.23
Matches are distributed among these distances:
6 2 0.03
7 8 0.12
8 5 0.07
9 28 0.42
10 11 0.16
11 3 0.04
12 2 0.03
13 3 0.04
14 4 0.06
15 1 0.01
ACGTcount: A:0.48, C:0.02, G:0.01, T:0.48
Consensus pattern (9 bp):
ATTATATTA
Found at i:11233517 original size:11 final size:11
Alignment explanation
Indices: 11233501--11233527 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
11233491 ATTAAAATAC
11233501 TAAATATTAAA
1 TAAATATTAAA
11233512 TAAATATTAAA
1 TAAATATTAAA
11233523 TAAAT
1 TAAAT
11233528 GAATTAACTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (11 bp):
TAAATATTAAA
Found at i:11233796 original size:18 final size:16
Alignment explanation
Indices: 11233766--11233799 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 16
11233756 GCTAATCATG
11233766 TTAATATTATTATAAT
1 TTAATATTATTATAAT
11233782 TTAATATATATTTATAAT
1 TTAATAT-TA-TTATAAT
11233800 AATTAACTAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 7 0.44
17 2 0.12
18 7 0.44
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (16 bp):
TTAATATTATTATAAT
Found at i:11233801 original size:21 final size:19
Alignment explanation
Indices: 11233772--11233815 Score: 52
Period size: 19 Copynumber: 2.2 Consensus size: 19
11233762 CATGTTAATA
*
11233772 TTATTATAATTTAATATATAT
1 TTATAATAA-TTAA-ATATAT
*
11233793 TTATAATAATTAACTATAT
1 TTATAATAATTAAATATAT
11233812 TTAT
1 TTAT
11233816 TAAATCTTAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
19 9 0.43
20 4 0.19
21 8 0.38
ACGTcount: A:0.43, C:0.02, G:0.00, T:0.55
Consensus pattern (19 bp):
TTATAATAATTAAATATAT
Found at i:11233874 original size:16 final size:14
Alignment explanation
Indices: 11233778--11233870 Score: 61
Period size: 15 Copynumber: 6.5 Consensus size: 14
11233768 AATATTATTA
11233778 TAATT-TAATATA-
1 TAATTATAATATAT
*
11233790 TATTTATAATA-AT
1 TAATTATAATATAT
* *
11233803 TAACTAT-ATTTAT
1 TAATTATAATATAT
11233816 TAAATCTTATAATATAT
1 T-AA--TTATAATATAT
11233833 TAAATTAT-ATATTCAT
1 T-AATTATAATA-T-AT
11233849 TAATTATAATATAT
1 TAATTATAATATAT
11233863 TATATTAT
1 TA-ATTAT
11233871 TAATTTTTTA
Statistics
Matches: 64, Mismatches: 6, Indels: 19
0.72 0.07 0.21
Matches are distributed among these distances:
12 7 0.11
13 13 0.20
14 9 0.14
15 17 0.27
16 9 0.14
17 9 0.14
ACGTcount: A:0.45, C:0.03, G:0.00, T:0.52
Consensus pattern (14 bp):
TAATTATAATATAT
Found at i:11233907 original size:21 final size:21
Alignment explanation
Indices: 11233882--11233925 Score: 70
Period size: 21 Copynumber: 2.1 Consensus size: 21
11233872 AATTTTTTAT
*
11233882 TAAATACTAATTATTAATAAA
1 TAAATAATAATTATTAATAAA
*
11233903 TAAATAATTATTATTAATAAA
1 TAAATAATAATTATTAATAAA
11233924 TA
1 TA
11233926 GTATATATTT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.41
Consensus pattern (21 bp):
TAAATAATAATTATTAATAAA
Found at i:11233934 original size:17 final size:17
Alignment explanation
Indices: 11233889--11233925 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 17
11233879 TATTAAATAC
*
11233889 TAATTATTAATAAATAAA
1 TAATTATT-ATTAATAAA
11233907 TAATTATTATTAATAAA
1 TAATTATTATTAATAAA
11233924 TA
1 TA
11233926 GTATATATTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 10 0.56
18 8 0.44
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (17 bp):
TAATTATTATTAATAAA
Found at i:11234144 original size:13 final size:13
Alignment explanation
Indices: 11234128--11234193 Score: 56
Period size: 11 Copynumber: 5.6 Consensus size: 13
11234118 TTATTTATAC
11234128 ATATTATAATAAT
1 ATATTATAATAAT
11234141 ATA-T-TAATAAT
1 ATATTATAATAAT
* *
11234152 ATATTTTAATTAT
1 ATATTATAATAAT
*
11234165 AT-TTATTA-AAT
1 ATATTATAATAAT
11234176 ATA-TA-AAT-AT
1 ATATTATAATAAT
11234186 ATATTATA
1 ATATTATA
11234194 TTTATACAAT
Statistics
Matches: 42, Mismatches: 5, Indels: 13
0.70 0.08 0.22
Matches are distributed among these distances:
10 6 0.14
11 18 0.43
12 7 0.17
13 11 0.26
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (13 bp):
ATATTATAATAAT
Found at i:11234155 original size:24 final size:23
Alignment explanation
Indices: 11234119--11234191 Score: 62
Period size: 23 Copynumber: 3.2 Consensus size: 23
11234109 TTAGGGTTTT
* *
11234119 TATTTATACATATTATAATAATA
1 TATTAATAAATATTATAATAATA
* *
11234142 TATTAATAATATATTTTAATTATA
1 TATTAATAA-ATATTATAATAATA
*
11234166 T-TTATTAAATA-TATAA-ATATA
1 TATTAATAAATATTATAATA-ATA
11234187 TATTA
1 TATTA
11234192 TATTTATACA
Statistics
Matches: 40, Mismatches: 7, Indels: 7
0.74 0.13 0.13
Matches are distributed among these distances:
21 8 0.20
22 6 0.15
23 13 0.32
24 13 0.32
ACGTcount: A:0.48, C:0.01, G:0.00, T:0.51
Consensus pattern (23 bp):
TATTAATAAATATTATAATAATA
Found at i:11234159 original size:39 final size:36
Alignment explanation
Indices: 11234116--11234207 Score: 98
Period size: 34 Copynumber: 2.5 Consensus size: 36
11234106 AAATTAGGGT
*
11234116 TTTTATTTATACATATTATAATAATATATTAATAATATA
1 TTTTATTTATACAT-TTATAA-AATATATAAAT-ATATA
* *
11234155 TTTTAATTAT--ATTTATTAAATATATAAATATATA
1 TTTTATTTATACATTTATAAAATATATAAATATATA
*
11234189 TTATATTTATACAATTTAT
1 TTTTATTTATAC-ATTTAT
11234208 TAGTACTATT
Statistics
Matches: 45, Mismatches: 5, Indels: 8
0.78 0.09 0.14
Matches are distributed among these distances:
34 13 0.29
35 10 0.22
36 5 0.11
37 8 0.18
39 9 0.20
ACGTcount: A:0.45, C:0.02, G:0.00, T:0.53
Consensus pattern (36 bp):
TTTTATTTATACATTTATAAAATATATAAATATATA
Found at i:11234257 original size:14 final size:16
Alignment explanation
Indices: 11234227--11234259 Score: 52
Period size: 14 Copynumber: 2.2 Consensus size: 16
11234217 TTATAGAAAA
11234227 AATATATTTTAATTAT
1 AATATATTTTAATTAT
11234243 AATATA-TTTAA-TAT
1 AATATATTTTAATTAT
11234257 AAT
1 AAT
11234260 TAATTTCATT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 6 0.35
15 5 0.29
16 6 0.35
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (16 bp):
AATATATTTTAATTAT
Found at i:11234747 original size:11 final size:11
Alignment explanation
Indices: 11234731--11234764 Score: 59
Period size: 11 Copynumber: 3.0 Consensus size: 11
11234721 AATTGAATAA
11234731 TAAATTATTAT
1 TAAATTATTAT
11234742 TAAATTATTAT
1 TAAATTATTAT
11234753 TAAATTAATTAT
1 TAAATT-ATTAT
11234765 ATTATTAACT
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
11 17 0.77
12 5 0.23
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (11 bp):
TAAATTATTAT
Found at i:11234767 original size:17 final size:19
Alignment explanation
Indices: 11234747--11234789 Score: 63
Period size: 19 Copynumber: 2.4 Consensus size: 19
11234737 ATTATTAAAT
11234747 TATTATTAA-AT-TAATTA
1 TATTATTAACATATAATTA
*
11234764 TATTATTAACTTATAATTA
1 TATTATTAACATATAATTA
11234783 TATTATT
1 TATTATT
11234790 TAACTTAGTT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 9 0.39
18 1 0.04
19 13 0.57
ACGTcount: A:0.42, C:0.02, G:0.00, T:0.56
Consensus pattern (19 bp):
TATTATTAACATATAATTA
Found at i:11234782 original size:19 final size:20
Alignment explanation
Indices: 11234758--11234796 Score: 71
Period size: 19 Copynumber: 2.0 Consensus size: 20
11234748 ATTATTAAAT
11234758 TAATTATATTA-TTAACTTA
1 TAATTATATTATTTAACTTA
11234777 TAATTATATTATTTAACTTA
1 TAATTATATTATTTAACTTA
11234797 GTTATAAAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 11 0.58
20 8 0.42
ACGTcount: A:0.41, C:0.05, G:0.00, T:0.54
Consensus pattern (20 bp):
TAATTATATTATTTAACTTA
Found at i:11234788 original size:11 final size:12
Alignment explanation
Indices: 11234733--11234788 Score: 52
Period size: 11 Copynumber: 5.0 Consensus size: 12
11234723 TTGAATAATA
11234733 AATTATTATTA-
1 AATTATTATTAT
11234744 AATTATTATTA-
1 AATTATTATTAT
11234755 AATTA--ATTAT
1 AATTATTATTAT
11234765 -ATTATTAACTTAT
1 AATTATT-A-TTAT
11234778 AATTA-TATTAT
1 AATTATTATTAT
11234789 TTAACTTAGT
Statistics
Matches: 39, Mismatches: 0, Indels: 12
0.76 0.00 0.24
Matches are distributed among these distances:
9 8 0.21
11 20 0.51
12 2 0.05
13 5 0.13
14 4 0.10
ACGTcount: A:0.45, C:0.02, G:0.00, T:0.54
Consensus pattern (12 bp):
AATTATTATTAT
Found at i:11235045 original size:20 final size:21
Alignment explanation
Indices: 11235022--11235067 Score: 60
Period size: 20 Copynumber: 2.3 Consensus size: 21
11235012 AATTATTTAA
11235022 ATTAATATT-TTAATAATAAT
1 ATTAATATTATTAATAATAAT
*
11235042 ATTAA-ATTATTAATATTAAT
1 ATTAATATTATTAATAATAAT
*
11235062 AATAAT
1 ATTAAT
11235068 GGCTGAATAA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
19 3 0.14
20 19 0.86
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (21 bp):
ATTAATATTATTAATAATAAT
Found at i:11235252 original size:19 final size:20
Alignment explanation
Indices: 11235228--11235270 Score: 61
Period size: 19 Copynumber: 2.2 Consensus size: 20
11235218 AATTAAATAT
11235228 AAATAATTGTAAAT-ATTTA
1 AAATAATTGTAAATAATTTA
* *
11235247 AAATAATTGTTATTAATTTA
1 AAATAATTGTAAATAATTTA
11235267 AAAT
1 AAAT
11235271 GCTATTTCTA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 12 0.57
20 9 0.43
ACGTcount: A:0.51, C:0.00, G:0.05, T:0.44
Consensus pattern (20 bp):
AAATAATTGTAAATAATTTA
Found at i:11235372 original size:24 final size:25
Alignment explanation
Indices: 11235345--11235399 Score: 69
Period size: 25 Copynumber: 2.2 Consensus size: 25
11235335 TATTAACAAT
11235345 TATTTGAATT-AATTA-AAATATAAA
1 TATTT-AATTAAATTATAAATATAAA
* *
11235369 TATTTAATTAAATTATTATTATAAA
1 TATTTAATTAAATTATAAATATAAA
11235394 TATTTA
1 TATTTA
11235400 TAATTTGTTA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
23 4 0.15
24 10 0.37
25 13 0.48
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (25 bp):
TATTTAATTAAATTATAAATATAAA
Found at i:11235540 original size:16 final size:15
Alignment explanation
Indices: 11235501--11235547 Score: 51
Period size: 14 Copynumber: 3.1 Consensus size: 15
11235491 TTTTTAGATC
* *
11235501 TATTATTAATTTTTA
1 TATTATTAATTATAA
*
11235516 T-TTATTAATTGTAA
1 TATTATTAATTATAA
11235530 TATTATATAATTATAA
1 TATTAT-TAATTATAA
11235546 TA
1 TA
11235548 ATAAATTTAT
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
14 12 0.44
15 5 0.19
16 10 0.37
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.57
Consensus pattern (15 bp):
TATTATTAATTATAA
Found at i:11235715 original size:22 final size:23
Alignment explanation
Indices: 11235634--11235722 Score: 68
Period size: 22 Copynumber: 4.2 Consensus size: 23
11235624 ATTTTAAATA
* *
11235634 ATAT-ATAAATTATTAATT-CTT
1 ATATAATAAATTATTAGTTAATT
11235655 AT-T-ATAAATTA-TAGTT-ATT
1 ATATAATAAATTATTAGTTAATT
* * *
11235674 ATATAAT-AACTATGATTTAATT
1 ATATAATAAATTATTAGTTAATT
*
11235696 ATATAATAAATTATTA-TTAATA
1 ATATAATAAATTATTAGTTAATT
11235718 ATATA
1 ATATA
11235723 TTAACATAAC
Statistics
Matches: 55, Mismatches: 8, Indels: 9
0.76 0.11 0.12
Matches are distributed among these distances:
19 8 0.15
20 14 0.25
21 7 0.13
22 20 0.36
23 6 0.11
ACGTcount: A:0.47, C:0.02, G:0.02, T:0.48
Consensus pattern (23 bp):
ATATAATAAATTATTAGTTAATT
Found at i:11236042 original size:28 final size:30
Alignment explanation
Indices: 11235974--11236041 Score: 75
Period size: 32 Copynumber: 2.2 Consensus size: 30
11235964 ATAATCATAT
*
11235974 TTAATTAATTATAACTTAATTATAAAATAGA
1 TTAATTAATAATAACTTAATTAT-AAATAGA
*
11236005 TTAAATAATAATATACTTAATTATTATAATA-A
1 TTAATTAATAATA-ACTTAATTA-TA-AATAGA
11236037 TTAAT
1 TTAAT
11236042 AAACACTAAT
Statistics
Matches: 31, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
31 11 0.35
32 15 0.48
33 5 0.16
ACGTcount: A:0.51, C:0.03, G:0.01, T:0.44
Consensus pattern (30 bp):
TTAATTAATAATAACTTAATTATAAATAGA
Found at i:11236439 original size:27 final size:28
Alignment explanation
Indices: 11236391--11236455 Score: 71
Period size: 27 Copynumber: 2.3 Consensus size: 28
11236381 AAAATTGTAA
* *
11236391 AATAGATTTATTAAATAGATAATATTGAT
1 AATA-ATTTATTAAATAGATAATAATAAT
*
11236420 -ATAATTTATTAAA-ATTATAATAATAAT
1 AATAATTTATTAAATA-GATAATAATAAT
11236447 AATAATTTA
1 AATAATTTA
11236456 ATTTTATAAT
Statistics
Matches: 31, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
26 1 0.03
27 19 0.61
28 11 0.35
ACGTcount: A:0.52, C:0.00, G:0.05, T:0.43
Consensus pattern (28 bp):
AATAATTTATTAAATAGATAATAATAAT
Found at i:11236485 original size:24 final size:22
Alignment explanation
Indices: 11236439--11236492 Score: 58
Period size: 22 Copynumber: 2.5 Consensus size: 22
11236429 TAAAATTATA
* *
11236439 ATAATA-ATAATAATTTAATTTT
1 ATAATATATTATAAATTAA-TTT
11236461 ATAATATATTATAAATTAATATT
1 ATAATATATTATAAATTAAT-TT
11236484 -TAATATATT
1 ATAATATATT
11236493 TTTATATATT
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
22 16 0.57
23 12 0.43
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (22 bp):
ATAATATATTATAAATTAATTT
Found at i:11236487 original size:22 final size:23
Alignment explanation
Indices: 11236427--11236492 Score: 71
Period size: 23 Copynumber: 2.8 Consensus size: 23
11236417 GATATAATTT
* *
11236427 ATTAAAATTATAATAATAATAATAA
1 ATTAATATTATAAT-AT-ATTATAA
* *
11236452 TTTAATTTTATAATATATTATAA
1 ATTAATATTATAATATATTATAA
11236475 ATTAATATT-TAATATATT
1 ATTAATATTATAATATATT
11236493 TTTATATATT
Statistics
Matches: 35, Mismatches: 6, Indels: 3
0.80 0.14 0.07
Matches are distributed among these distances:
22 9 0.26
23 13 0.37
24 2 0.06
25 11 0.31
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (23 bp):
ATTAATATTATAATATATTATAA
Found at i:11236561 original size:20 final size:20
Alignment explanation
Indices: 11236536--11236586 Score: 66
Period size: 20 Copynumber: 2.5 Consensus size: 20
11236526 ATTATTAATG
* *
11236536 TTATAATTTATATTATTACA
1 TTATAATTAATATAATTACA
* *
11236556 TTATAATAAATATAATTATA
1 TTATAATTAATATAATTACA
11236576 TTATAATTAAT
1 TTATAATTAAT
11236587 TAAATTATAT
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.51
Consensus pattern (20 bp):
TTATAATTAATATAATTACA
Found at i:11236575 original size:15 final size:15
Alignment explanation
Indices: 11236545--11236655 Score: 63
Period size: 15 Copynumber: 7.3 Consensus size: 15
11236535 GTTATAATTT
*
11236545 ATATTATTACATTATA
1 ATATAATTA-ATTATA
11236561 ATA-AATATAATTATA
1 ATATAAT-TAATTATA
*
11236576 TTATAATTAATTA-A
1 ATATAATTAATTATA
*
11236590 ATTATATTTAA-TATAA
1 A-TATAATTAATTAT-A
*
11236606 ATATAAATAA-TATTA
1 ATATAATTAATTA-TA
11236621 ATATTTAATTAATTATTA
1 ATA--TAATTAATTA-TA
*
11236639 AT-TAAATAA-TATA
1 ATATAATTAATTATA
11236652 ATAT
1 ATAT
11236656 TATATAAATA
Statistics
Matches: 77, Mismatches: 8, Indels: 22
0.72 0.07 0.21
Matches are distributed among these distances:
13 4 0.05
14 6 0.08
15 43 0.56
16 11 0.14
17 6 0.08
18 7 0.09
ACGTcount: A:0.52, C:0.01, G:0.00, T:0.47
Consensus pattern (15 bp):
ATATAATTAATTATA
Found at i:11236592 original size:20 final size:20
Alignment explanation
Indices: 11236550--11236636 Score: 72
Period size: 20 Copynumber: 4.2 Consensus size: 20
11236540 AATTTATATT
* *
11236550 ATTACATTATAA-TAAATATA
1 ATTATATTATAATTAATTA-A
11236570 ATTATATTATAATTAATTAA
1 ATTATATTATAATTAATTAA
11236590 ATTATATT-TAATATAAATATAA
1 ATTATATTATAAT-T-AAT-TAA
* *
11236612 ATAATATTAATATTTAATT-A
1 ATTATATT-ATAATTAATTAA
11236632 ATTAT
1 ATTAT
11236637 TAATTAAATA
Statistics
Matches: 56, Mismatches: 5, Indels: 12
0.77 0.07 0.16
Matches are distributed among these distances:
19 4 0.07
20 26 0.46
21 9 0.16
22 13 0.23
23 1 0.02
24 3 0.05
ACGTcount: A:0.52, C:0.01, G:0.00, T:0.47
Consensus pattern (20 bp):
ATTATATTATAATTAATTAA
Found at i:11236594 original size:35 final size:33
Alignment explanation
Indices: 11236543--11236610 Score: 82
Period size: 35 Copynumber: 2.0 Consensus size: 33
11236533 ATGTTATAAT
* *
11236543 TTATATTATTACATTATAATAAATATAATTATA
1 TTATATTATTAAATTATAATAAATATAAATATA
* *
11236576 TTATAATTAATTAAATTATATTTAATATAAATATA
1 TTAT-ATT-ATTAAATTATAATAAATATAAATATA
11236611 AATAATATTA
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
33 4 0.14
34 3 0.10
35 22 0.76
ACGTcount: A:0.50, C:0.01, G:0.00, T:0.49
Consensus pattern (33 bp):
TTATATTATTAAATTATAATAAATATAAATATA
Found at i:11236633 original size:32 final size:31
Alignment explanation
Indices: 11236597--11236656 Score: 86
Period size: 32 Copynumber: 1.9 Consensus size: 31
11236587 TAAATTATAT
11236597 TTAA-TATAAATATAAATAATATTAATATTTAA
1 TTAATTATAAAT-TAAATAATA-TAATATTTAA
*
11236629 TTAATTATTAATTAAATAATATAATATT
1 TTAATTATAAATTAAATAATATAATATT
11236657 ATATAAATAT
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
31 7 0.27
32 13 0.50
33 6 0.23
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (31 bp):
TTAATTATAAATTAAATAATATAATATTTAA
Found at i:11236649 original size:47 final size:47
Alignment explanation
Indices: 11236561--11236671 Score: 111
Period size: 47 Copynumber: 2.3 Consensus size: 47
11236551 TTACATTATA
*
11236561 ATAAATATAATTATATTATAATTAATTAAATTATATTTAATATAAAT
1 ATAAATATAATTATATTATAATTAATTAAATTATATATAATATAAAT
*
11236608 ATAAATA-ATATTAATATT-TAATTAATTATTAATTAAATAATATAATAT-TAT
1 ATAAATATA-ATT-ATATTATAATTAATTA--AATT--AT-ATATAATATAAAT
*
11236659 ATAAATATTATTA
1 ATAAATATAATTA
11236672 GATAATATAT
Statistics
Matches: 53, Mismatches: 3, Indels: 13
0.77 0.04 0.19
Matches are distributed among these distances:
46 1 0.02
47 20 0.38
48 5 0.09
49 4 0.08
50 1 0.02
51 14 0.26
52 8 0.15
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (47 bp):
ATAAATATAATTATATTATAATTAATTAAATTATATATAATATAAAT
Found at i:11236657 original size:15 final size:15
Alignment explanation
Indices: 11236598--11236680 Score: 64
Period size: 15 Copynumber: 5.5 Consensus size: 15
11236588 AAATTATATT
11236598 TAATATAA-ATATAAA
1 TAATATAATAT-TAAA
*
11236613 TAATATTAATATTTAAT
1 TAATA-TAATA-TTAAA
*
11236630 TAAT-TATTAATTAAA
1 TAATATAAT-ATTAAA
*
11236645 TAATATAATATTATA
1 TAATATAATATTAAA
* *
11236660 TAA-ATATTATTAGA
1 TAATATAATATTAAA
11236674 TAATATA
1 TAATATA
11236681 TTTTAATATT
Statistics
Matches: 55, Mismatches: 7, Indels: 12
0.74 0.09 0.16
Matches are distributed among these distances:
14 12 0.22
15 27 0.49
16 7 0.13
17 8 0.15
18 1 0.02
ACGTcount: A:0.54, C:0.00, G:0.01, T:0.45
Consensus pattern (15 bp):
TAATATAATATTAAA
Found at i:11236682 original size:57 final size:55
Alignment explanation
Indices: 11236558--11236738 Score: 139
Period size: 57 Copynumber: 3.3 Consensus size: 55
11236548 TTATTACATT
* *
11236558 ATAATAAATATAATTATATT-ATAATTAATTAAAT--TATAT-TTAATATAAATATAA
1 ATAAT-AATATATTTA-ATTAATTATTAATTAAATAATATATATT-ATATAAATATAA
* *
11236612 ATAATATTAATATTTAATTAATTATTAATTAAATAATATAATATTATATAAATATTA
1 ATAATAAT-ATATTTAATTAATTATTAATTAAATAATAT-ATATTATATAAATATAA
* *
11236669 TTAGATAATATATTTTAA-T-ATTACTTAATTATATATAATATAT-TTATAT--ATATGA
1 ATA-ATAATATA-TTTAATTAATTA-TTAATTA-A-ATAATATATATTATATAAATATAA
*
11236724 ATAATTAT-TATTTAA
1 ATAATAATATATTTAA
11236739 ACTAACTATT
Statistics
Matches: 107, Mismatches: 9, Indels: 24
0.76 0.06 0.17
Matches are distributed among these distances:
52 5 0.05
53 7 0.07
54 28 0.26
55 7 0.07
56 7 0.07
57 32 0.30
58 14 0.13
59 7 0.07
ACGTcount: A:0.50, C:0.01, G:0.01, T:0.48
Consensus pattern (55 bp):
ATAATAATATATTTAATTAATTATTAATTAAATAATATATATTATATAAATATAA
Found at i:11236707 original size:20 final size:20
Alignment explanation
Indices: 11236654--11236709 Score: 53
Period size: 23 Copynumber: 2.7 Consensus size: 20
11236644 ATAATATAAT
11236654 ATTATATA-AATATTATTAG
1 ATTATATATAATATTATTAG
*
11236673 ATAATATATTTTAATATTACTTA-
1 AT--TATA-TATAATATTA-TTAG
11236696 ATTATATATAATAT
1 ATTATATATAATAT
11236710 ATTTATATAT
Statistics
Matches: 30, Mismatches: 2, Indels: 9
0.73 0.05 0.22
Matches are distributed among these distances:
19 2 0.07
20 7 0.23
21 8 0.27
22 1 0.03
23 9 0.30
24 3 0.10
ACGTcount: A:0.46, C:0.02, G:0.02, T:0.50
Consensus pattern (20 bp):
ATTATATATAATATTATTAG
Found at i:11237175 original size:17 final size:17
Alignment explanation
Indices: 11237146--11237195 Score: 52
Period size: 17 Copynumber: 3.1 Consensus size: 17
11237136 ATTATAAGAT
*
11237146 TATA-AATTAATAATTA
1 TATATAATTTATAATTA
*
11237162 TATATAATTTATAAATA
1 TATATAATTTATAATTA
11237179 TA-ATAAATTTAT-ATTA
1 TATAT-AATTTATAATTA
11237195 T
1 T
11237196 TTTATATTAA
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
16 10 0.34
17 19 0.66
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (17 bp):
TATATAATTTATAATTA
Found at i:11237182 original size:26 final size:25
Alignment explanation
Indices: 11237145--11237205 Score: 72
Period size: 26 Copynumber: 2.4 Consensus size: 25
11237135 AATTATAAGA
11237145 TTATAAATTAAT-AATTATATATAAT
1 TTATAAATTAATAAATT-TATATAAT
*
11237170 TTATAAATATAATAAATTTATATTAT
1 TTATAAAT-TAATAAATTTATATAAT
*
11237196 TT-TATATTAA
1 TTATAAATTAA
11237206 ATTATAAAAT
Statistics
Matches: 32, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
24 3 0.09
25 12 0.38
26 13 0.41
27 4 0.12
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (25 bp):
TTATAAATTAATAAATTTATATAAT
Found at i:11237210 original size:10 final size:9
Alignment explanation
Indices: 11237146--11237235 Score: 50
Period size: 10 Copynumber: 10.1 Consensus size: 9
11237136 ATTATAAGAT
11237146 TATAAATTA
1 TATAAATTA
11237155 -AT-AATTA
1 TATAAATTA
11237162 TATATAATT-
1 TATA-AATTA
11237171 TATAAA-TA
1 TATAAATTA
11237179 TAATAAATTTA
1 T-ATAAA-TTA
**
11237190 TATTATTTTA
1 TA-TAAATTA
11237200 TATTAAATTA
1 TA-TAAATTA
11237210 TA-AAA-TA
1 TATAAATTA
*
11237217 TA-AAATAA
1 TATAAATTA
11237225 TAATAAATTA
1 T-ATAAATTA
11237235 T
1 T
11237236 TTATTCTAAC
Statistics
Matches: 64, Mismatches: 6, Indels: 21
0.70 0.07 0.23
Matches are distributed among these distances:
7 13 0.20
8 12 0.19
9 10 0.16
10 24 0.38
11 5 0.08
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (9 bp):
TATAAATTA
Found at i:11238229 original size:26 final size:25
Alignment explanation
Indices: 11238168--11238229 Score: 61
Period size: 26 Copynumber: 2.4 Consensus size: 25
11238158 TTATATAATT
* *
11238168 AATTATTAATTAATTAAATTAATAT
1 AATTATTACTTAATTAAATTAATAC
* * *
11238193 AATTAAATACTTATTTAATTTAATAAC
1 AATT-ATTACTTAATTAAATTAAT-AC
11238220 AATTATTACT
1 AATTATTACT
11238230 AATATTTTAA
Statistics
Matches: 29, Mismatches: 6, Indels: 3
0.76 0.16 0.08
Matches are distributed among these distances:
25 4 0.14
26 20 0.69
27 5 0.17
ACGTcount: A:0.48, C:0.05, G:0.00, T:0.47
Consensus pattern (25 bp):
AATTATTACTTAATTAAATTAATAC
Found at i:11238313 original size:17 final size:18
Alignment explanation
Indices: 11238266--11238327 Score: 69
Period size: 17 Copynumber: 3.6 Consensus size: 18
11238256 AATTATTTAT
11238266 TTTAATTAT-AAT-A-TA
1 TTTAATTATAAATAATTA
11238281 TTTATATTATAAATAATTA
1 TTTA-ATTATAAATAATTA
* *
11238300 TTTAATTAT-GATAAATA
1 TTTAATTATAAATAATTA
11238317 TTTAATTATAA
1 TTTAATTATAA
11238328 TTAAATTAAA
Statistics
Matches: 39, Mismatches: 3, Indels: 7
0.80 0.06 0.14
Matches are distributed among these distances:
15 4 0.10
16 5 0.13
17 18 0.46
18 6 0.15
19 6 0.15
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.52
Consensus pattern (18 bp):
TTTAATTATAAATAATTA
Found at i:11238315 original size:21 final size:21
Alignment explanation
Indices: 11238273--11238330 Score: 57
Period size: 21 Copynumber: 2.7 Consensus size: 21
11238263 TATTTTAATT
*
11238273 ATAATATATTT-A-TATTATAA
1 ATAAT-TATTTAATTATGATAA
11238293 ATAATTATTTAATTATGATAA
1 ATAATTATTTAATTATGATAA
*
11238314 ATATTTAATTATAATTA
1 ATAATT-ATT-TAATTA
11238331 AATTAAATAA
Statistics
Matches: 32, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
19 5 0.16
20 6 0.19
21 12 0.38
22 3 0.09
23 6 0.19
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (21 bp):
ATAATTATTTAATTATGATAA
Found at i:11238450 original size:47 final size:47
Alignment explanation
Indices: 11238378--11238476 Score: 112
Period size: 47 Copynumber: 2.1 Consensus size: 47
11238368 ATATAGGTAT
* * * *
11238378 TAATATGTTAATATTATTTACTTATA-AATTTATAATTATAATATTAA
1 TAATTTGTTAATAATATTTACTTATACAATTAATAATT-TAATATAAA
* *
11238425 TAATTTGTTAATAATATTTTA-TTATACTATTAATAATTTATTATAAA
1 TAATTTGTTAATAATA-TTTACTTATACAATTAATAATTTAATATAAA
11238472 TAATT
1 TAATT
11238477 ATATTATAAT
Statistics
Matches: 44, Mismatches: 6, Indels: 4
0.81 0.11 0.07
Matches are distributed among these distances:
47 31 0.70
48 13 0.30
ACGTcount: A:0.43, C:0.02, G:0.02, T:0.53
Consensus pattern (47 bp):
TAATTTGTTAATAATATTTACTTATACAATTAATAATTTAATATAAA
Found at i:11238456 original size:33 final size:34
Alignment explanation
Indices: 11238393--11238510 Score: 129
Period size: 34 Copynumber: 3.5 Consensus size: 34
11238383 TGTTAATATT
11238393 ATTTACTTATAAAT--TTATAATTATAATATTAATA
1 ATTTA-TTATAAATAATTAT-ATTATAATATTAATA
* * *
11238427 ATTTGTTA-ATAAT-ATTTTATTATACTATTAATA
1 ATTTATTATA-AATAATTATATTATAATATTAATA
*
11238460 ATTTATTATAAATAATTATATTATAATATAAATA
1 ATTTATTATAAATAATTATATTATAATATTAATA
11238494 ATTATATTA-AAATAATT
1 ATT-TATTATAAATAATT
11238511 TAAAACTTAT
Statistics
Matches: 72, Mismatches: 7, Indels: 10
0.81 0.08 0.11
Matches are distributed among these distances:
32 1 0.01
33 30 0.42
34 36 0.50
35 5 0.07
ACGTcount: A:0.47, C:0.02, G:0.01, T:0.50
Consensus pattern (34 bp):
ATTTATTATAAATAATTATATTATAATATTAATA
Found at i:11238475 original size:14 final size:15
Alignment explanation
Indices: 11238445--11238499 Score: 60
Period size: 15 Copynumber: 3.7 Consensus size: 15
11238435 ATAATATTTT
* *
11238445 ATTATACTATTAATA
1 ATTATATTATAAATA
11238460 ATT-TATTATAAATA
1 ATTATATTATAAATA
11238474 ATTATATTATAATATA
1 ATTATATTATAA-ATA
*
11238490 AATA-ATTATA
1 ATTATATTATA
11238500 TTAAAATAAT
Statistics
Matches: 35, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
14 12 0.34
15 17 0.49
16 6 0.17
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (15 bp):
ATTATATTATAAATA
Found at i:11238506 original size:14 final size:15
Alignment explanation
Indices: 11238464--11238510 Score: 53
Period size: 15 Copynumber: 3.2 Consensus size: 15
11238454 TTAATAATTT
*
11238464 ATTATAA-ATAATTA
1 ATTATAATATAAATA
11238478 TATTATAATATAAATA
1 -ATTATAATATAAATA
*
11238494 ATTATATTA-AAATA
1 ATTATAATATAAATA
11238508 ATT
1 ATT
11238511 TAAAACTTAT
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
14 8 0.28
15 15 0.52
16 6 0.21
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (15 bp):
ATTATAATATAAATA
Found at i:11238514 original size:23 final size:20
Alignment explanation
Indices: 11238466--11238507 Score: 75
Period size: 20 Copynumber: 2.1 Consensus size: 20
11238456 AATAATTTAT
11238466 TATAAATAATTATATTATAA
1 TATAAATAATTATATTATAA
*
11238486 TATAAATAATTATATTAAAA
1 TATAAATAATTATATTATAA
11238506 TA
1 TA
11238508 ATTTAAAACT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (20 bp):
TATAAATAATTATATTATAA
Found at i:11239108 original size:28 final size:29
Alignment explanation
Indices: 11239061--11239128 Score: 86
Period size: 28 Copynumber: 2.4 Consensus size: 29
11239051 TAATTATTCA
* *
11239061 TATTAAATAATGTATGAATAATTTTATATT
1 TATTATATAATGTATGAATAATTATAT-TT
*
11239091 TATT-TATAATG-ATTAATAATTATATTT
1 TATTATATAATGTATGAATAATTATATTT
11239118 TATTATATAAT
1 TATTATATAAT
11239129 TATATTATTA
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
27 6 0.18
28 18 0.53
29 6 0.18
30 4 0.12
ACGTcount: A:0.43, C:0.00, G:0.04, T:0.53
Consensus pattern (29 bp):
TATTATATAATGTATGAATAATTATATTT
Found at i:11239210 original size:24 final size:23
Alignment explanation
Indices: 11239127--11239209 Score: 75
Period size: 24 Copynumber: 3.7 Consensus size: 23
11239117 TTATTATATA
*
11239127 ATTATATTATTAATATTATAAGT
1 ATTAAATTATTAATATTATAAGT
* **
11239150 A--AAA-TATTTAATATTTTAAACA
1 ATTAAATTA-TTAATATTAT-AAGT
11239172 ATT-AATTATTAATACTTATAAGT
1 ATTAAATTATTAATA-TTATAAGT
11239195 ATTAAATTATTAATA
1 ATTAAATTATTAATA
11239210 CATAATTAAT
Statistics
Matches: 46, Mismatches: 7, Indels: 13
0.70 0.11 0.20
Matches are distributed among these distances:
20 2 0.04
21 11 0.24
22 3 0.07
23 14 0.30
24 16 0.35
ACGTcount: A:0.48, C:0.02, G:0.02, T:0.47
Consensus pattern (23 bp):
ATTAAATTATTAATATTATAAGT
Found at i:11239310 original size:29 final size:29
Alignment explanation
Indices: 11239278--11239333 Score: 71
Period size: 29 Copynumber: 1.9 Consensus size: 29
11239268 AAATAATATT
11239278 ATAATAATTATAATATAA-TTAA-GTATTCA
1 ATAATAATTAT--TATAATTTAATGTATTCA
*
11239307 ATAATACTTATTATAATTTAATGTATT
1 ATAATAATTATTATAATTTAATGTATT
11239334 AATTATCTTA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
27 5 0.21
28 4 0.17
29 15 0.62
ACGTcount: A:0.46, C:0.04, G:0.04, T:0.46
Consensus pattern (29 bp):
ATAATAATTATTATAATTTAATGTATTCA
Found at i:11239343 original size:27 final size:26
Alignment explanation
Indices: 11239290--11239348 Score: 68
Period size: 27 Copynumber: 2.2 Consensus size: 26
11239280 AATAATTATA
11239290 ATATAATTAAGTATTCAATAATACTT
1 ATATAATTAAGTATTCAATAATACTT
*
11239316 ATTATAATTTAATGTATT-AATTAT-CTT
1 A-TATAA-TTAA-GTATTCAATAATACTT
11239343 ATATAA
1 ATATAA
11239349 CAAAAGGTCA
Statistics
Matches: 29, Mismatches: 1, Indels: 6
0.81 0.03 0.17
Matches are distributed among these distances:
26 6 0.21
27 9 0.31
28 9 0.31
29 5 0.17
ACGTcount: A:0.44, C:0.05, G:0.03, T:0.47
Consensus pattern (26 bp):
ATATAATTAAGTATTCAATAATACTT
Found at i:11239394 original size:35 final size:35
Alignment explanation
Indices: 11239355--11239440 Score: 100
Period size: 35 Copynumber: 2.5 Consensus size: 35
11239345 ATAACAAAAG
** *
11239355 GTCATAATGATTTGCAATAAATAATTGTTCAAATA
1 GTCATAACAATTTGAAATAAATAATTGTTCAAATA
* * *
11239390 GTCATAGCAATTTGAAATAGATAATTGTTCAAATT
1 GTCATAACAATTTGAAATAAATAATTGTTCAAATA
* *
11239425 GCCATAACTATTTGAA
1 GTCATAACAATTTGAA
11239441 CTTGTTCAGT
Statistics
Matches: 42, Mismatches: 9, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
35 42 1.00
ACGTcount: A:0.41, C:0.10, G:0.13, T:0.36
Consensus pattern (35 bp):
GTCATAACAATTTGAAATAAATAATTGTTCAAATA
Found at i:11239831 original size:26 final size:28
Alignment explanation
Indices: 11239792--11239869 Score: 101
Period size: 28 Copynumber: 2.9 Consensus size: 28
11239782 ATCTGTTCAA
11239792 ATAATAATAA-TTATTATATTA-TA-TAT
1 ATAAT-ATAATTTATTATATTATTAGTAT
11239818 ATAATATAATTTATTATATTATTAGTAT
1 ATAATATAATTTATTATATTATTAGTAT
*
11239846 ATAATAT-ATTTAATTATATAATTA
1 ATAATATAATTT-ATTATATTATTA
11239870 AATAGTAAGT
Statistics
Matches: 47, Mismatches: 1, Indels: 6
0.87 0.02 0.11
Matches are distributed among these distances:
25 4 0.09
26 16 0.34
27 6 0.13
28 21 0.45
ACGTcount: A:0.47, C:0.00, G:0.01, T:0.51
Consensus pattern (28 bp):
ATAATATAATTTATTATATTATTAGTAT
Found at i:11240286 original size:14 final size:16
Alignment explanation
Indices: 11240257--11240288 Score: 50
Period size: 14 Copynumber: 2.1 Consensus size: 16
11240247 TATATTTTTT
11240257 TTAATTCAATTTAATA
1 TTAATTCAATTTAATA
11240273 TTAATT-AA-TTAATA
1 TTAATTCAATTTAATA
11240287 TT
1 TT
11240289 TAATAAATAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 8 0.50
15 2 0.12
16 6 0.38
ACGTcount: A:0.44, C:0.03, G:0.00, T:0.53
Consensus pattern (16 bp):
TTAATTCAATTTAATA
Found at i:11240441 original size:24 final size:24
Alignment explanation
Indices: 11240397--11240449 Score: 74
Period size: 24 Copynumber: 2.2 Consensus size: 24
11240387 ATTATAAATT
*
11240397 TATAATATAACAATTATTATATTA
1 TATAATATAACAATTAATATATTA
11240421 TATAAT-TAACAATTTAATATATTA
1 TATAATATAACAA-TTAATATATTA
11240445 T-TAAT
1 TATAAT
11240450 CAAATTATAA
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
23 10 0.37
24 17 0.63
ACGTcount: A:0.49, C:0.04, G:0.00, T:0.47
Consensus pattern (24 bp):
TATAATATAACAATTAATATATTA
Found at i:11240470 original size:7 final size:7
Alignment explanation
Indices: 11240458--11240497 Score: 57
Period size: 7 Copynumber: 6.0 Consensus size: 7
11240448 ATCAAATTAT
11240458 AATTTAA
1 AATTTAA
11240465 AATTTAA
1 AATTTAA
11240472 AA-TT-A
1 AATTTAA
*
11240477 TATTTAA
1 AATTTAA
11240484 AATTTAA
1 AATTTAA
11240491 AATTTAA
1 AATTTAA
11240498 TATTAATATA
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
5 2 0.07
6 4 0.14
7 23 0.79
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (7 bp):
AATTTAA
Found at i:11240483 original size:19 final size:20
Alignment explanation
Indices: 11240451--11240503 Score: 83
Period size: 19 Copynumber: 2.7 Consensus size: 20
11240441 ATTATTAATC
11240451 AAATTATAATTTAAAATTTA
1 AAATTATAATTTAAAATTTA
11240471 AAATTAT-ATTTAAAATTTA
1 AAATTATAATTTAAAATTTA
11240490 AAATT-TAATATTAA
1 AAATTATAAT-TTAA
11240504 TATAATCTAA
Statistics
Matches: 31, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
18 1 0.03
19 19 0.61
20 11 0.35
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (20 bp):
AAATTATAATTTAAAATTTA
Found at i:11240578 original size:28 final size:27
Alignment explanation
Indices: 11240523--11240593 Score: 85
Period size: 28 Copynumber: 2.7 Consensus size: 27
11240513 AAATAAATCA
11240523 ATAATATAATATTAT--TAGTAATATT
1 ATAATATAATATTATAATAGTAATATT
*
11240548 ATAATATAATATTATAATA-TAATTGTTT
1 ATAATATAATATTATAATAGTAA-T-ATT
*
11240576 ATAATATTATATTATAAT
1 ATAATATAATATTATAAT
11240594 TATTTGAACA
Statistics
Matches: 40, Mismatches: 2, Indels: 5
0.85 0.04 0.11
Matches are distributed among these distances:
25 15 0.38
26 3 0.08
27 3 0.08
28 19 0.47
ACGTcount: A:0.48, C:0.00, G:0.03, T:0.49
Consensus pattern (27 bp):
ATAATATAATATTATAATAGTAATATT
Found at i:11240579 original size:15 final size:13
Alignment explanation
Indices: 11240523--11240593 Score: 83
Period size: 13 Copynumber: 5.4 Consensus size: 13
11240513 AAATAAATCA
11240523 ATAATATAATATT
1 ATAATATAATATT
11240536 AT--TAGTAATATT
1 ATAATA-TAATATT
11240548 ATAATATAATATT
1 ATAATATAATATT
*
11240561 ATAATATAATTGTTT
1 ATAATATAA-T-ATT
*
11240576 ATAATATTATATT
1 ATAATATAATATT
11240589 ATAAT
1 ATAAT
11240594 TATTTGAACA
Statistics
Matches: 50, Mismatches: 3, Indels: 10
0.79 0.05 0.16
Matches are distributed among these distances:
11 2 0.04
12 9 0.18
13 25 0.50
14 4 0.08
15 10 0.20
ACGTcount: A:0.48, C:0.00, G:0.03, T:0.49
Consensus pattern (13 bp):
ATAATATAATATT
Found at i:11240844 original size:16 final size:16
Alignment explanation
Indices: 11240812--11240868 Score: 53
Period size: 16 Copynumber: 3.5 Consensus size: 16
11240802 GGAAATATTA
11240812 ATTAATAAATTGTTAT
1 ATTAATAAATTGTTAT
*
11240828 ATTATTAAATTAG-TAT
1 ATTAATAAATT-GTTAT
* * *
11240844 AATTAATAAACTATAAT
1 -ATTAATAAATTGTTAT
11240861 ATTAATAA
1 ATTAATAA
11240869 TTTAAATAAT
Statistics
Matches: 33, Mismatches: 5, Indels: 6
0.75 0.11 0.14
Matches are distributed among these distances:
16 21 0.64
17 12 0.36
ACGTcount: A:0.51, C:0.02, G:0.04, T:0.44
Consensus pattern (16 bp):
ATTAATAAATTGTTAT
Found at i:11240910 original size:32 final size:31
Alignment explanation
Indices: 11240810--11240910 Score: 80
Period size: 33 Copynumber: 3.1 Consensus size: 31
11240800 TTGGAAATAT
* * * *
11240810 TAATTAATAAATTGTTATATTATTAAATTAGTA
1 TAATTAATAAACTATAATATTA-T-AATTATTA
*
11240843 TAATTAATAAACTATAATATTAATAATT-TAAA
1 TAATTAATAAACTATAATATT-ATAATTAT-TA
*
11240875 TAATTAA-ACAATTAATAATATTATAATTATTA
1 TAATTAATA-AACT-ATAATATTATAATTATTA
11240907 TAAT
1 TAAT
11240911 CATTTAAATT
Statistics
Matches: 56, Mismatches: 7, Indels: 11
0.76 0.09 0.15
Matches are distributed among these distances:
31 1 0.02
32 26 0.46
33 28 0.50
34 1 0.02
ACGTcount: A:0.51, C:0.02, G:0.02, T:0.45
Consensus pattern (31 bp):
TAATTAATAAACTATAATATTATAATTATTA
Found at i:11241233 original size:20 final size:19
Alignment explanation
Indices: 11241182--11241245 Score: 60
Period size: 20 Copynumber: 3.3 Consensus size: 19
11241172 AAATATTATT
*
11241182 TATT-TAATAATTATCAAT
1 TATTATAATAATTATCAAA
11241200 TA-TATGAATAAATTATCCAAA
1 TATTAT-AAT-AATTAT-CAAA
*
11241221 TATTATAATAATTATAATAA
1 TATTATAATAATTATCA-AA
11241241 TATTA
1 TATTA
11241246 GTTATAAAAC
Statistics
Matches: 38, Mismatches: 2, Indels: 10
0.76 0.04 0.20
Matches are distributed among these distances:
17 1 0.03
18 3 0.08
19 4 0.11
20 19 0.50
21 8 0.21
22 3 0.08
ACGTcount: A:0.50, C:0.05, G:0.02, T:0.44
Consensus pattern (19 bp):
TATTATAATAATTATCAAA
Found at i:11241364 original size:20 final size:20
Alignment explanation
Indices: 11241339--11241387 Score: 62
Period size: 20 Copynumber: 2.5 Consensus size: 20
11241329 TAATTTATTT
*
11241339 ATATTACTTATTAATAATAA
1 ATATTAATTATTAATAATAA
* *
11241359 ATATTAATTATTTATTATAA
1 ATATTAATTATTAATAATAA
*
11241379 ATTTTAATT
1 ATATTAATT
11241388 TGTCATAAAT
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.45, C:0.02, G:0.00, T:0.53
Consensus pattern (20 bp):
ATATTAATTATTAATAATAA
Found at i:11241499 original size:12 final size:11
Alignment explanation
Indices: 11241482--11241524 Score: 52
Period size: 12 Copynumber: 3.8 Consensus size: 11
11241472 ATTTTTATAA
11241482 TATTAATAACTT
1 TATTAATAA-TT
11241494 TATTAATAATT
1 TATTAATAATT
*
11241505 TATATTATAA-T
1 TAT-TAATAATT
11241516 TATTAATAA
1 TATTAATAA
11241525 AGTTTATCCA
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
10 5 0.18
11 9 0.32
12 14 0.50
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.51
Consensus pattern (11 bp):
TATTAATAATT
Found at i:11241596 original size:24 final size:22
Alignment explanation
Indices: 11241541--11241600 Score: 68
Period size: 22 Copynumber: 2.6 Consensus size: 22
11241531 TCCAAAATAA
*
11241541 AATAACTATTTTATTATAATACT
1 AATAAATA-TTTATTATAATACT
11241564 -ATAATATATTTATTATAATGTACT
1 AATAA-ATATTTATTATAA--TACT
11241588 AATAAATATTTAT
1 AATAAATATTTAT
11241601 ACTTATGAAT
Statistics
Matches: 32, Mismatches: 1, Indels: 7
0.80 0.03 0.17
Matches are distributed among these distances:
22 14 0.44
23 2 0.06
24 12 0.38
25 4 0.12
ACGTcount: A:0.45, C:0.05, G:0.02, T:0.48
Consensus pattern (22 bp):
AATAAATATTTATTATAATACT
Found at i:11241833 original size:10 final size:10
Alignment explanation
Indices: 11241818--11241874 Score: 60
Period size: 10 Copynumber: 5.4 Consensus size: 10
11241808 ATTAACACCA
11241818 AATAATTAAT
1 AATAATTAAT
11241828 AATAATTAAT
1 AATAATTAAT
*
11241838 AATATTTTAATT
1 AATA-ATTAA-T
11241850 AATAATTTAAT
1 AATAA-TTAAT
* *
11241861 TATAAATAAT
1 AATAATTAAT
11241871 AATA
1 AATA
11241875 TCAATTATAT
Statistics
Matches: 39, Mismatches: 5, Indels: 6
0.78 0.10 0.12
Matches are distributed among these distances:
10 21 0.54
11 9 0.23
12 9 0.23
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (10 bp):
AATAATTAAT
Found at i:11242588 original size:55 final size:54
Alignment explanation
Indices: 11242515--11242620 Score: 137
Period size: 54 Copynumber: 1.9 Consensus size: 54
11242505 ATTATTTTAT
* *
11242515 TATAAAATAATAGTTTATTTAATTTT-ATATTTTA-GTAT-TAATTATATTTAGTA
1 TATAAAATAATAATTTA-TTAATTTTAATA-TTAAGGTATATAATTATATTTAGTA
11242568 TATATAAATAAATAATTTATTAATTTTAATATTAAGGTATATAATTATATTTA
1 TATA-AAAT-AATAATTTATTAATTTTAATATTAAGGTATATAATTATATTTA
11242621 TAACAATTAT
Statistics
Matches: 46, Mismatches: 2, Indels: 7
0.84 0.04 0.13
Matches are distributed among these distances:
53 4 0.09
54 15 0.33
55 15 0.33
56 12 0.26
ACGTcount: A:0.43, C:0.00, G:0.05, T:0.52
Consensus pattern (54 bp):
TATAAAATAATAATTTATTAATTTTAATATTAAGGTATATAATTATATTTAGTA
Found at i:11243011 original size:25 final size:28
Alignment explanation
Indices: 11242964--11243017 Score: 69
Period size: 25 Copynumber: 2.0 Consensus size: 28
11242954 ATTAATTATC
**
11242964 AAATATAAATTTATATTTTATAAT-TAA
1 AAATATAAATTTATATTAAATAATATAA
11242991 AAATAT-AATTT-TATTAAATAATATAA
1 AAATATAAATTTATATTAAATAATATAA
11243017 A
1 A
11243018 CTATATATAT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
25 9 0.38
26 9 0.38
27 6 0.25
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (28 bp):
AAATATAAATTTATATTAAATAATATAA
Found at i:11243393 original size:24 final size:24
Alignment explanation
Indices: 11243358--11243466 Score: 75
Period size: 24 Copynumber: 4.5 Consensus size: 24
11243348 TAAATAATAA
*
11243358 ATTAATACTATTATAATATTTAAT
1 ATTAATATTATTATAATATTTAAT
*
11243382 ATTAATATTATTTTAATA-TT-AT
1 ATTAATATTATTATAATATTTAAT
* *
11243404 ATTAAT-TAATTGATTAATATAATAA-
1 ATTAATATTATT-A-TAATAT-TTAAT
* * *
11243429 ATTAATAAT-TTGTAATATTTGATT
1 ATTAATATTATTATAATATTT-AAT
11243453 ATTAATTATTATTA
1 ATTAA-TATTATTA
11243467 AGTAATTATA
Statistics
Matches: 63, Mismatches: 12, Indels: 18
0.68 0.13 0.19
Matches are distributed among these distances:
21 4 0.06
22 9 0.14
23 14 0.22
24 21 0.33
25 12 0.19
26 3 0.05
ACGTcount: A:0.44, C:0.01, G:0.03, T:0.52
Consensus pattern (24 bp):
ATTAATATTATTATAATATTTAAT
Found at i:11243398 original size:17 final size:16
Alignment explanation
Indices: 11243366--11243407 Score: 59
Period size: 16 Copynumber: 2.6 Consensus size: 16
11243356 AAATTAATAC
*
11243366 TATTATAATA-TTTAA
1 TATTATATTATTTTAA
11243381 TATTAATATTATTTTAA
1 TATT-ATATTATTTTAA
11243398 TATTATATTA
1 TATTATATTA
11243408 ATTAATTGAT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
15 4 0.17
16 11 0.46
17 9 0.38
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (16 bp):
TATTATATTATTTTAA
Found at i:11243399 original size:11 final size:11
Alignment explanation
Indices: 11243358--11243409 Score: 52
Period size: 11 Copynumber: 4.5 Consensus size: 11
11243348 TAAATAATAA
*
11243358 ATTAATACTAT
1 ATTAATATTAT
11243369 -TATAATATTTAAT
1 AT-TAATA-TT-AT
11243382 ATTAATATTAT
1 ATTAATATTAT
*
11243393 TTTAATATTAT
1 ATTAATATTAT
11243404 ATTAAT
1 ATTAAT
11243410 TAATTGATTA
Statistics
Matches: 34, Mismatches: 3, Indels: 8
0.76 0.07 0.18
Matches are distributed among these distances:
10 1 0.03
11 22 0.65
12 3 0.09
13 7 0.21
14 1 0.03
ACGTcount: A:0.44, C:0.02, G:0.00, T:0.54
Consensus pattern (11 bp):
ATTAATATTAT
Found at i:11243481 original size:71 final size:69
Alignment explanation
Indices: 11243347--11243481 Score: 168
Period size: 71 Copynumber: 1.9 Consensus size: 69
11243337 TTATTGTTAT
*
11243347 TTAAATAATAAATTAATACTATTATAATATTTAATATTAATATTATTTTAATATTATATTAATTA
1 TTAAATAATAAATTAATAATATTATAATATTTAATATTAATATTA-TTTAATATTATATTAATTA
11243412 ATTGA
65 ATTGA
* *
11243417 TTAATATAATAAATTAATAAT-TTGTAATATTTGATTATTAATTATTA-TTAAGTAATTATA-TA
1 TTAA-ATAATAAATTAATAATATTATAATATTT-AATATTAA-TATTATTTAA-T-ATTATATTA
11243479 ATT
61 ATT
11243482 TTGCTATATT
Statistics
Matches: 57, Mismatches: 3, Indels: 9
0.83 0.04 0.13
Matches are distributed among these distances:
70 18 0.32
71 28 0.49
72 11 0.19
ACGTcount: A:0.46, C:0.01, G:0.03, T:0.50
Consensus pattern (69 bp):
TTAAATAATAAATTAATAATATTATAATATTTAATATTAATATTATTTAATATTATATTAATTAA
TTGA
Found at i:11243951 original size:181 final size:177
Alignment explanation
Indices: 11243633--11244794 Score: 915
Period size: 181 Copynumber: 6.6 Consensus size: 177
11243623 GAATATTATT
* * * * * * * *
11243633 AATAAAATAATA-TAAATTTATTAAAACTCCAAAAATTAGTAAATAAAAAGTTAAAAAATAAATA
1 AATAAAATAATACT-AATTTATTAATATTTCAAAAATTAATAAGT-AAGA-TTTAAAAATAAATC
*** *
11243697 TGTTTTTTGAACACA-TTC-AATAGTTATAACTATTTGAACAATTATCTATTTCAAATCATTATG
63 TGTTTACCGAACA-AGTTCAAATAGTTATGACTATTTGAACAATTATCTATTTCAAATCATTATG
* * *
11243760 ACAATTTGTTTTGTCATAAACCAATTATTTCTATTCATAAAAGCTTATTTGA
127 AC-TTTTGTTTTGTCATAAAACAATTGTTTCTATTCATAAAAGCTTATTTGA
* * *
11243812 AATAAAATAATATTAATTTATTAATATTTCTAAAATTAATAAGTAAAAGATTTAAATAATAAATT
1 AATAAAATAATACTAATTTATTAATATTTCAAAAATTAATAAGT--AAGATTTAAA-AATAAATC
* * * ** *
11243877 TGTTAACCGAGCAAGTTCAAATAGTTATTACTATTTGAACAATTATAGATTTCAAATCTTTATGA
63 TGTTTACCGAACAAGTTCAAATAGTTATGACTATTTGAACAATTATCTATTTCAAATCATTATGA
* * * * *
11243942 TCTTTTGTTTTGTCTTAAAACAATTGTTTCTATTCACACAAGTTTATTTGG
128 -CTTTTGTTTTGTCATAAAACAATTGTTTCTATTCATAAAAGCTTATTTGA
* *
11243993 AATAAAATAATACTAATTTATCATTA-TTCTAAAAATTAATAAGTTAGAGATTTAAAAAATAAAT
1 AATAAAATAATACTAATTTATTAATATTTC-AAAAATTAATAAG-TA-AGATTT-AAAAATAAAT
** * * * * * *
11244057 CTGTTTATTGAATAAGTTTAAATAGTTATGTCTATTTGAACTATTATTTATTTCAAATCGTTATG
62 CTGTTTACCGAACAAGTTCAAATAGTTATGACTATTTGAACAATTATCTATTTCAAATCATTATG
* * * * * *
11244122 ACATTTTGTTTTATTATAAAATAATTGTTTATATTCATACAAA-ATTATTTAA
127 AC-TTTTGTTTTGTCATAAAACAATTGTTTCTATTCATA-AAAGCTTATTTGA
* * *
11244174 AATAAAATAATACCAATTTATTACTATTTCAAAAATTAATAAG---GATTTAAAAATAAATATGT
1 AATAAAATAATACTAATTTATTAATATTTCAAAAATTAATAAGTAAGATTTAAAAATAAATCTGT
** * * * * * *
11244236 TTTTCGAAGC-AGTTCAAATAATTA-GACTATTAGAAC---TATCTATTCCAAATTATTCTAATC
66 TTACCGAA-CAAGTTCAAATAGTTATGACTATTTGAACAATTATCTATTTCAAATCATTATGA-C
* * * * * * *
11244296 TTTTGTTTAGTCAAAAAATAATTATTTC-AGTTCATACATGCTTATTCGA
129 TTTTGTTTTGTCATAAAACAATTGTTTCTA-TTCATAAAAGCTTATTTGA
* * * * *
11244345 AATATAGTAATACTAATTTATTAAAATTTAAAAAATTAATAAG-AA-A-TT-AAAA-AAATCTAT
1 AATAAAATAATACTAATTTATTAATATTTCAAAAATTAATAAGTAAGATTTAAAAATAAATCTGT
* * *
11244405 TTACCAAATAAGTTCAAATAGTTATGACTATTTGAACAATTATCTATTTAAAATCATTATGACCT
66 TTACCGAACAAGTTCAAATAGTTATGACTATTTGAACAATTATCTATTTCAAATCATTATGA-CT
* * * *
11244470 TTTATTTTATCATAAAACAATTGTTTC-AGTACATAAAAG-TT-TTTCCAA
130 TTTGTTTTGTCATAAAACAATTGTTTCTA-TTCATAAAAGCTTATTT--GA
* ** * * *
11244518 AATAAAATAATATTGCTTTATTAATATTTCAAAAATTAAGAAGTTGGAGTTTTAAAAAATAAATC
1 AATAAAATAATACTAATTTATTAATATTTCAAAAATTAATAAG-T-AAGATTT-AAAAATAAATC
** * * * * * * *
11244583 AATTTA-TGAA-ATTA-TTCAAATAATTATGGCCATTTAAATAATTATCTATTTCAAATCGTTAT
63 TGTTTACCGAACA--AGTTCAAATAGTTATGACTATTTGAACAATTATCTATTTCAAATCATTAT
* * ** *
11244645 GAACTTTTGTTTTGTCGTAAAACAATTGTTTATCA-TCATACCAGCCTATTTGGA
126 G-ACTTTTGTTTTGTCATAAAACAATTGTTTCT-ATTCATAAAAGCTTATTT-GA
* * * *
11244699 AA-CAAATAATACTAATTTACTAATATTTCAAAAATTAATAA--AAGATTTAAAAAGTTAATCTA
1 AATAAAATAATACTAATTTATTAATATTTCAAAAATTAATAAGTAAGATTTAAAAA-TAAATCTG
** * *
11244761 TTTATTGAACCAGTTCAAATAGTTATAACTATTT
65 TTTACCGAACAAGTTCAAATAGTTATGACTATTT
11244795 CAAATTGTTA
Statistics
Matches: 781, Mismatches: 157, Indels: 92
0.76 0.15 0.09
Matches are distributed among these distances:
169 24 0.03
170 17 0.02
171 91 0.12
172 4 0.01
173 85 0.11
174 10 0.01
175 36 0.05
176 22 0.03
177 21 0.03
178 2 0.00
179 43 0.06
180 140 0.18
181 272 0.35
182 14 0.02
ACGTcount: A:0.43, C:0.09, G:0.07, T:0.40
Consensus pattern (177 bp):
AATAAAATAATACTAATTTATTAATATTTCAAAAATTAATAAGTAAGATTTAAAAATAAATCTGT
TTACCGAACAAGTTCAAATAGTTATGACTATTTGAACAATTATCTATTTCAAATCATTATGACTT
TTGTTTTGTCATAAAACAATTGTTTCTATTCATAAAAGCTTATTTGA
Found at i:11244494 original size:344 final size:353
Alignment explanation
Indices: 11243715--11244556 Score: 899
Period size: 344 Copynumber: 2.4 Consensus size: 353
11243705 GAACACATTC
* * *
11243715 AATAGTTATAACTATTTGAACAATTATCTATTTCAAATCATTATGACAATTTGTTTTGTCATAAA
1 AATAGTTATGACTATTTGAACAATTATCTATTTCAAATCATTATGACATTTTGTTTTATCATAAA
* * * * * *
11243780 CCAATTATTTCTATTCATAAAAGCTTATTTGAAATAAAATAATATTAATTTATTAATATTTCTAA
66 ACAATTGTTTATATTCATAAAA-ATTATTTAAAATAAAATAATATTAATTTATTAATATTTCAAA
* * *
11243845 AATTAATAAGTAAAAGATTTAAATAATAAATTTGTTAACCGAGCAAGTTCAAATAGTTATTACTA
130 AATTAATAAG----AGATTTAAATAATAAATATGTTAACCGAGCAAGTTCAAATAATTATGACTA
* * * * ** *
11243910 TTTGAACAATTATAGATTTCAAATCTTTATGATCTTTTGTTTTGTCTTAAAACAATTGTTTCTAT
191 TTAGAAC-A-TATAGATTCCAAATCTTTATAATCTTTTGTTTAGTCAAAAAACAATTATTTCTAT
* * * **
11243975 TCACACAAGTTTATTTGGAATAAAATAATACTAATTTATCATTATTCTAAAAATTAATAAGTTAG
254 TCACACAAGCTTATTCGAAATAAAATAATACTAATTTATCAAAATTCTAAAAATTAATAAG-TAG
* *** *
11244040 AGATTTAAAAAATAAATCTGTTTATTGAATAAGTTTA
318 AGATTT-AAAAATAAATCTATTTACCAAATAAGTTCA
* * * * *
11244077 AATAGTTATGTCTATTTGAACTATTATTTATTTCAAATCGTTATGACATTTTGTTTTATTATAAA
1 AATAGTTATGACTATTTGAACAATTATCTATTTCAAATCATTATGACATTTTGTTTTATCATAAA
* ** *
11244142 ATAATTGTTTATATTCATACAAAATTATTTAAAATAAAATAATACCAATTTATTACTATTTCAAA
66 ACAATTGTTTATATTCATA-AAAATTATTTAAAATAAAATAATATTAATTTATTAATATTTCAAA
***
11244207 AATTAATAAG-GATTTAAA-AATAAATATGTTTTTCGAAGC-AGTTCAAATAATTA-GACTATTA
130 AATTAATAAGAGATTTAAATAATAAATATGTTAACCG-AGCAAGTTCAAATAATTATGACTATTA
** * *
11244268 GAAC-TATCTATTCCAAAT-TATTCTAATCTTTTGTTTAGTCAAAAAATAATTATTTC-AGTTCA
194 GAACATATAGATTCCAAATCT-TTATAATCTTTTGTTTAGTCAAAAAACAATTATTTCTA-TTCA
* * * * *
11244330 TACATGCTTATTCGAAATATAGTAATACTAATTTATTAAAATT-TAAAAAATTAATAAG-A-A-A
257 CACAAGCTTATTCGAAATAAAATAATACTAATTTATCAAAATTCT-AAAAATTAATAAGTAGAGA
11244391 -TT-AAAA-AAATCTATTTACCAAATAAGTTCA
321 TTTAAAAATAAATCTATTTACCAAATAAGTTCA
* * *
11244421 AATAGTTATGACTATTTGAACAATTATCTATTTAAAATCATTATGACCTTTTATTTTATCATAAA
1 AATAGTTATGACTATTTGAACAATTATCTATTTCAAATCATTATGACATTTTGTTTTATCATAAA
* **
11244486 ACAATTGTTTCAGTA--CATAAAAGTT-TTTCCAAAATAAAATAATATTGCTTTATTAATATTTC
66 ACAATTGTTT-A-TATTCATAAAAATTATTT--AAAATAAAATAATATTAATTTATTAATATTTC
11244548 AAAAATTAA
127 AAAAATTAA
11244557 GAAGTTGGAG
Statistics
Matches: 406, Mismatches: 65, Indels: 36
0.80 0.13 0.07
Matches are distributed among these distances:
342 3 0.01
343 5 0.01
344 125 0.31
345 5 0.01
346 2 0.00
347 2 0.00
348 1 0.00
349 1 0.00
350 1 0.00
351 3 0.01
352 90 0.22
355 10 0.02
356 26 0.06
357 11 0.03
362 118 0.29
363 3 0.01
ACGTcount: A:0.42, C:0.09, G:0.07, T:0.42
Consensus pattern (353 bp):
AATAGTTATGACTATTTGAACAATTATCTATTTCAAATCATTATGACATTTTGTTTTATCATAAA
ACAATTGTTTATATTCATAAAAATTATTTAAAATAAAATAATATTAATTTATTAATATTTCAAAA
ATTAATAAGAGATTTAAATAATAAATATGTTAACCGAGCAAGTTCAAATAATTATGACTATTAGA
ACATATAGATTCCAAATCTTTATAATCTTTTGTTTAGTCAAAAAACAATTATTTCTATTCACACA
AGCTTATTCGAAATAAAATAATACTAATTTATCAAAATTCTAAAAATTAATAAGTAGAGATTTAA
AAATAAATCTATTTACCAAATAAGTTCA
Found at i:11244968 original size:16 final size:15
Alignment explanation
Indices: 11244917--11244968 Score: 50
Period size: 17 Copynumber: 3.1 Consensus size: 15
11244907 GATTTAAAAA
11244917 ATAACATATAATTATAT
1 ATAA-ATATAA-TATAT
*
11244934 ATAAATATATTGATAAT
1 ATAAATATAAT-AT-AT
11244951 ATAATATATAATATAT
1 ATAA-ATATAATATAT
11244967 AT
1 AT
11244969 TATTATTTAT
Statistics
Matches: 30, Mismatches: 2, Indels: 7
0.77 0.05 0.18
Matches are distributed among these distances:
15 1 0.03
16 11 0.37
17 12 0.40
18 6 0.20
ACGTcount: A:0.54, C:0.02, G:0.02, T:0.42
Consensus pattern (15 bp):
ATAAATATAATATAT
Found at i:11245031 original size:17 final size:17
Alignment explanation
Indices: 11245009--11245041 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
11244999 TAAAACTTGA
11245009 AATATTTATAAATAATC
1 AATATTTATAAATAATC
*
11245026 AATATTTATAATTAAT
1 AATATTTATAAATAAT
11245042 ATAAATTAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.52, C:0.03, G:0.00, T:0.45
Consensus pattern (17 bp):
AATATTTATAAATAATC
Found at i:11245189 original size:24 final size:22
Alignment explanation
Indices: 11245134--11245193 Score: 68
Period size: 22 Copynumber: 2.6 Consensus size: 22
11245124 GATCAAATAA
*
11245134 AATAACTATTTTATTATAATACT
1 AATAAATA-TTTATTATAATACT
11245157 -ATAATATATTTATTATAATGTACT
1 AATAA-ATATTTATTATAA--TACT
11245181 AATAAATATTTAT
1 AATAAATATTTAT
11245194 ACTTATGAAT
Statistics
Matches: 32, Mismatches: 1, Indels: 7
0.80 0.03 0.17
Matches are distributed among these distances:
22 14 0.44
23 2 0.06
24 12 0.38
25 4 0.12
ACGTcount: A:0.45, C:0.05, G:0.02, T:0.48
Consensus pattern (22 bp):
AATAAATATTTATTATAATACT
Found at i:11245694 original size:24 final size:24
Alignment explanation
Indices: 11245667--11245712 Score: 58
Period size: 24 Copynumber: 1.9 Consensus size: 24
11245657 CTTTATTTTG
11245667 TTTATCT-AAATCTAATCAAATTAT
1 TTTATCTCAAAT-TAATCAAATTAT
* *
11245691 TTTATTTCAAATTAATTAAATT
1 TTTATCTCAAATTAATCAAATT
11245713 TATATTATAA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
24 15 0.79
25 4 0.21
ACGTcount: A:0.41, C:0.09, G:0.00, T:0.50
Consensus pattern (24 bp):
TTTATCTCAAATTAATCAAATTAT
Found at i:11246394 original size:182 final size:174
Alignment explanation
Indices: 11246070--11246611 Score: 522
Period size: 177 Copynumber: 3.0 Consensus size: 174
11246060 TTTAAATCTG
* * * * * **
11246070 TTTACCGAACAAGTTCGAATAATTATGGCTATTTGAACAATTATTTATTTAAAATAATTA-TGAC
1 TTTACCCAACTAGTTCAAATAATTAT-GCTATTTGAACAATTATCTATTTCAAATTGTTACT-AC
* * * ***
11246134 CATTTGTTTTGTCATAAAACAATTGTTTTAGTT-CATAAAAGTTTATCCAAAATAAAATAATACT
64 CTTTTGTTTTGTCATAAAACAATTGTTTT--TTACATACAAGCTTATTTGAAATAAAATAATACT
*
11246198 ACTTTAGTAATATTTGAAAAATTAATAAGTAACTAATTTAAAAGAATAAATAAA
127 AATTTAGTAATATTT-AAAAATTAATAAG--AC--ATTTAAAA-AATAAATAAA
* * *
11246252 TTTACCCAA-TCAGTTCAAATAATTATAGCGATTTAAACAACTATCTATTTCAAATTGTTACTAC
1 TTTACCCAACT-AGTTCAAATAATTAT-GCTATTTGAACAATTATCTATTTCAAATTGTTACTAC
*
11246316 CTTTTGTTTTGTCATAAAACAATTGTTTTTCAACATACAAGCTTATTTGAAATAAAATAATA-TC
64 CTTTTGTTTTGTCATAAAACAATTGTTTTT-TACATACAAGCTTATTTGAAATAAAATAATACT-
* * * *
11246380 AATTTATTAATATTTTAAGAATTAATAAGACATTTAAAAAATAAATCAG
127 AATTTAGTAATA-TTTAAAAATTAATAAGACATTTAAAAAATAAATAAA
*** * * * *
11246429 TTTATTGAACTAGTTCAAATAGTTATGATTATTTGAACAATTTTCTATTTCAAATTGTTACAACC
1 TTTACCCAACTAGTTCAAATAATTATG-CTATTTGAACAATTATCTATTTCAAATTGTTACTACC
* * *
11246494 TTTTGTTCTATCATAAAACTATTGTTTCTATTA-ATACAAGCTTATTTGAAATAAAATAATACTA
65 TTTTGTTTTGTCATAAAACAATTGTTT-T-TTACATACAAGCTTATTTGAAATAAAATAATACTA
* *
11246558 ATTTAGCAATATTCTAAAAATGAATAACTAAGAGATTTAAAAAAT-AAT-AA
128 ATTTAGTAATATT-TAAAAAT---TAA-TAAGACATTTAAAAAATAAATAAA
11246608 TTTA
1 TTTA
11246612 GTATGGGGAA
Statistics
Matches: 302, Mismatches: 42, Indels: 35
0.80 0.11 0.09
Matches are distributed among these distances:
176 3 0.01
177 127 0.42
178 12 0.04
179 6 0.02
180 9 0.03
181 17 0.06
182 124 0.41
183 4 0.01
ACGTcount: A:0.43, C:0.10, G:0.08, T:0.39
Consensus pattern (174 bp):
TTTACCCAACTAGTTCAAATAATTATGCTATTTGAACAATTATCTATTTCAAATTGTTACTACCT
TTTGTTTTGTCATAAAACAATTGTTTTTTACATACAAGCTTATTTGAAATAAAATAATACTAATT
TAGTAATATTTAAAAATTAATAAGACATTTAAAAAATAAATAAA
Found at i:11247911 original size:14 final size:15
Alignment explanation
Indices: 11247894--11247931 Score: 51
Period size: 17 Copynumber: 2.5 Consensus size: 15
11247884 ATATTAAAAA
11247894 ATTAAT-TAATAATT
1 ATTAATATAATAATT
11247908 ATTAATATATAATAATT
1 ATT-A-ATATAATAATT
11247925 ATTAATA
1 ATTAATA
11247932 AGTAATTTAA
Statistics
Matches: 21, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
14 3 0.14
15 4 0.19
16 3 0.14
17 11 0.52
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (15 bp):
ATTAATATAATAATT
Found at i:11247913 original size:10 final size:10
Alignment explanation
Indices: 11247893--11247932 Score: 50
Period size: 10 Copynumber: 4.2 Consensus size: 10
11247883 AATATTAAAA
11247893 AATTAATTAAT
1 AATT-ATTAAT
11247904 AATTATTAAT
1 AATTATTAAT
11247914 -A-TA-TAAT
1 AATTATTAAT
11247921 AATTATTAAT
1 AATTATTAAT
11247931 AA
1 AA
11247933 GTAATTTAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 7
0.79 0.00 0.21
Matches are distributed among these distances:
7 4 0.15
8 3 0.12
9 3 0.12
10 12 0.46
11 4 0.15
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (10 bp):
AATTATTAAT
Done.