Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167907.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_172, 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: 59215
ACGTcount: A:0.43, C:0.07, G:0.07, T:0.43
File 2 of 2
Found at i:30971 original size:25 final size:25
Alignment explanation
Indices: 30943--31020 Score: 68
Period size: 25 Copynumber: 3.0 Consensus size: 25
30933 TAATATTAGT
30943 TAATATAATAATAATAATTATTTAA
1 TAATATAATAATAATAATTATTTAA
* * *
30968 TAATA-ATTATATAATATTTATTATAT
1 TAATATAATA-ATAATAATTATT-TAA
*
30994 TATTTATTAATAATAATAATTAATTTA
1 TA-ATA-TAATAATAATAATT-ATTTA
31021 TATATACTTA
Statistics
Matches: 41, Mismatches: 6, Indels: 9
0.73 0.11 0.16
Matches are distributed among these distances:
24 3 0.07
25 16 0.39
26 4 0.10
27 2 0.05
28 10 0.24
29 6 0.15
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (25 bp):
TAATATAATAATAATAATTATTTAA
Found at i:30997 original size:12 final size:12
Alignment explanation
Indices: 30953--31008 Score: 51
Period size: 12 Copynumber: 4.5 Consensus size: 12
30943 TAATATAATA
*
30953 ATAATAATTATTT
1 ATAATATTTA-TT
*
30966 AATAATAATTA-T
1 -ATAATATTTATT
30978 ATAATATTTATT
1 ATAATATTTATT
*
30990 ATATTATTTATT
1 ATAATATTTATT
31002 AATAATA
1 -ATAATA
31009 ATAATTAATT
Statistics
Matches: 37, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
11 9 0.24
12 13 0.35
13 5 0.14
14 10 0.27
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (12 bp):
ATAATATTTATT
Found at i:31020 original size:33 final size:34
Alignment explanation
Indices: 30959--31031 Score: 89
Period size: 33 Copynumber: 2.1 Consensus size: 34
30949 AATAATAATA
30959 ATTATTTAATAATAATTATATAATATTTAT-TAT
1 ATTATTTAATAATAATTATATAATATTTATATAT
*
30992 ATTATTTATTAATAA-TA-ATAATTAATTTATATAT
1 ATTATTTAATAATAATTATATAA-T-ATTTATATAT
31026 ACTTAT
1 A-TTAT
31032 AAATATACAT
Statistics
Matches: 35, Mismatches: 1, Indels: 6
0.83 0.02 0.14
Matches are distributed among these distances:
31 4 0.11
32 3 0.09
33 20 0.57
34 4 0.11
35 4 0.11
ACGTcount: A:0.45, C:0.01, G:0.00, T:0.53
Consensus pattern (34 bp):
ATTATTTAATAATAATTATATAATATTTATATAT
Found at i:31778 original size:25 final size:23
Alignment explanation
Indices: 31746--31798 Score: 63
Period size: 23 Copynumber: 2.3 Consensus size: 23
31736 ATATAATTAT
31746 TTAT-TTAAAATTAAATAATAAATG
1 TTATATTAAAATTAAA-AAT-AATG
* *
31770 TTATATTAACATTAAACATAATG
1 TTATATTAAAATTAAAAATAATG
31793 TTATAT
1 TTATAT
31799 AATTTATCTA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
23 10 0.38
24 6 0.23
25 10 0.38
ACGTcount: A:0.49, C:0.04, G:0.04, T:0.43
Consensus pattern (23 bp):
TTATATTAAAATTAAAAATAATG
Found at i:31832 original size:17 final size:19
Alignment explanation
Indices: 31797--31833 Score: 51
Period size: 20 Copynumber: 2.0 Consensus size: 19
31787 ATAATGTTAT
31797 ATAATTTATCTAATCTATTA
1 ATAATTTATCTAA-CTATTA
31817 ATAATTTAT-TAA-TATTA
1 ATAATTTATCTAACTATTA
31834 TATTTAATAT
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
17 5 0.29
19 3 0.18
20 9 0.53
ACGTcount: A:0.43, C:0.05, G:0.00, T:0.51
Consensus pattern (19 bp):
ATAATTTATCTAACTATTA
Found at i:32247 original size:13 final size:14
Alignment explanation
Indices: 32231--32270 Score: 50
Period size: 13 Copynumber: 3.1 Consensus size: 14
32221 TTTGATTAAC
*
32231 TAATTATTTAAT-T
1 TAATTATTAAATAT
32244 TAATT-TTAAATAT
1 TAATTATTAAATAT
32257 TAATTATT-AATAT
1 TAATTATTAAATAT
32270 T
1 T
32271 TTGTATATAT
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
12 5 0.21
13 17 0.71
14 2 0.08
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.57
Consensus pattern (14 bp):
TAATTATTAAATAT
Found at i:32421 original size:18 final size:18
Alignment explanation
Indices: 32377--32443 Score: 68
Period size: 18 Copynumber: 3.8 Consensus size: 18
32367 TTAAATTATG
32377 TAATTA-ATAAAA-A-TA
1 TAATTATATAAAATATTA
* *
32392 GTAATTAAATAAAATATTT
1 -TAATTATATAAAATATTA
*
32411 TAATTGTATAAAATATTA
1 TAATTATATAAAATATTA
32429 TAATTATATATAAAT
1 TAATTATATA-AAAT
32444 TCTACAATTC
Statistics
Matches: 42, Mismatches: 5, Indels: 5
0.81 0.10 0.10
Matches are distributed among these distances:
16 6 0.14
17 6 0.14
18 25 0.60
19 5 0.12
ACGTcount: A:0.55, C:0.00, G:0.03, T:0.42
Consensus pattern (18 bp):
TAATTATATAAAATATTA
Found at i:32549 original size:25 final size:24
Alignment explanation
Indices: 32516--32591 Score: 64
Period size: 25 Copynumber: 3.0 Consensus size: 24
32506 TATCAATTGT
* *
32516 AATAGTAATTATTATTAATATAATA
1 AATATTAATTATT-TTAAAATAATA
* *
32541 ATTTTTAA-TATTTTTAAAATAATTA
1 AATATTAATTA-TTTTAAAATAA-TA
*
32566 AATATTAATTATTTTAACATTAATA
1 AATATTAATTATTTTAA-AATAATA
32591 A
1 A
32592 GGTGTCAAAA
Statistics
Matches: 40, Mismatches: 7, Indels: 8
0.73 0.13 0.15
Matches are distributed among these distances:
24 10 0.25
25 24 0.60
26 6 0.15
ACGTcount: A:0.49, C:0.01, G:0.01, T:0.49
Consensus pattern (24 bp):
AATATTAATTATTTTAAAATAATA
Found at i:33115 original size:26 final size:27
Alignment explanation
Indices: 33066--33142 Score: 72
Period size: 26 Copynumber: 2.9 Consensus size: 27
33056 TTTAAAATTT
**
33066 AAATATTATATATATTATCTATTAT-TAC
1 AAATA-TATA-ATATTATAAATTATCTAC
33094 AAATATATAATATTATAAATTATTGCTAC
1 AAATATATAATATTATAAATTA-T-CTAC
33123 AAATAT-TAAT-TTA-AAATTAT
1 AAATATATAATATTATAAATTAT
33143 ATAATTATTT
Statistics
Matches: 44, Mismatches: 2, Indels: 9
0.80 0.04 0.16
Matches are distributed among these distances:
25 1 0.02
26 17 0.39
27 8 0.18
28 9 0.20
29 9 0.20
ACGTcount: A:0.48, C:0.05, G:0.01, T:0.45
Consensus pattern (27 bp):
AAATATATAATATTATAAATTATCTAC
Found at i:33359 original size:23 final size:23
Alignment explanation
Indices: 33332--33378 Score: 67
Period size: 23 Copynumber: 2.0 Consensus size: 23
33322 AATTATTAAA
33332 TTAATTAAATAATAAATAAATAT
1 TTAATTAAATAATAAATAAATAT
* * *
33355 TTAATTAATTTATAAATAATTAT
1 TTAATTAAATAATAAATAAATAT
33378 T
1 T
33379 AAAATTACTA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (23 bp):
TTAATTAAATAATAAATAAATAT
Found at i:33577 original size:24 final size:24
Alignment explanation
Indices: 33550--33610 Score: 63
Period size: 24 Copynumber: 2.6 Consensus size: 24
33540 ATTAACAAAT
* *
33550 ATTATATAAATT-TATAATATATTA
1 ATTAAATAAATTAAATAA-ATATTA
*
33574 ATTAAATTAATTAAATAAATATTA
1 ATTAAATAAATTAAATAAATATTA
*
33598 ATT-AATTAATTAA
1 ATTAAATAAATTAA
33611 TATTAATAAT
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
23 10 0.30
24 19 0.58
25 4 0.12
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (24 bp):
ATTAAATAAATTAAATAAATATTA
Found at i:33585 original size:4 final size:4
Alignment explanation
Indices: 33570--33611 Score: 50
Period size: 4 Copynumber: 10.5 Consensus size: 4
33560 TTTATAATAT
* *
33570 ATTA ATTAA ATTA ATTA AATA AAT- ATTA ATTA ATTA ATTA AT
1 ATTA ATT-A ATTA ATTA ATTA ATTA ATTA ATTA ATTA ATTA AT
33612 ATTAATAATC
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
3 2 0.06
4 28 0.82
5 4 0.12
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (4 bp):
ATTA
Found at i:33602 original size:19 final size:18
Alignment explanation
Indices: 33578--33617 Score: 62
Period size: 18 Copynumber: 2.2 Consensus size: 18
33568 ATATTAATTA
33578 AATTAATTAAATAAATATT
1 AATTAATT-AATAAATATT
*
33597 AATTAATTAATTAATATT
1 AATTAATTAATAAATATT
33615 AAT
1 AAT
33618 AATCTTATAA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
18 12 0.60
19 8 0.40
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (18 bp):
AATTAATTAATAAATATT
Found at i:33618 original size:24 final size:24
Alignment explanation
Indices: 33563--33610 Score: 80
Period size: 23 Copynumber: 2.0 Consensus size: 24
33553 ATATAAATTT
33563 ATAATATATTAATTAAATTAATTAA
1 ATAA-ATATTAATTAAATTAATTAA
33588 ATAAATATTAATT-AATTAATTAA
1 ATAAATATTAATTAAATTAATTAA
33611 TATTAATAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
23 10 0.43
24 9 0.39
25 4 0.17
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (24 bp):
ATAAATATTAATTAAATTAATTAA
Found at i:33662 original size:26 final size:25
Alignment explanation
Indices: 33622--33692 Score: 69
Period size: 26 Copynumber: 2.9 Consensus size: 25
33612 ATTAATAATC
33622 TTATA-ATATATAAATAGTTTTATTT
1 TTATATATATA-AAATAGTTTTATTT
* *
33647 GTTATATATATAAAATAGCTTAATTT
1 -TTATATATATAAAATAGTTTTATTT
*
33673 TTA-ATATA-AATATA-TTTTAT
1 TTATATATATAAAATAGTTTTAT
33693 AAAATAATAT
Statistics
Matches: 39, Mismatches: 5, Indels: 6
0.78 0.10 0.12
Matches are distributed among these distances:
22 4 0.10
23 5 0.13
24 5 0.13
25 3 0.08
26 17 0.44
27 5 0.13
ACGTcount: A:0.42, C:0.01, G:0.04, T:0.52
Consensus pattern (25 bp):
TTATATATATAAAATAGTTTTATTT
Found at i:33756 original size:18 final size:18
Alignment explanation
Indices: 33725--33759 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
33715 GTAAGTAAAA
* *
33725 ATAATTTATTAATATATT
1 ATAATCTATAAATATATT
33743 ATAATCTATAAATATAT
1 ATAATCTATAAATATAT
33760 ATTATAATAT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.49, C:0.03, G:0.00, T:0.49
Consensus pattern (18 bp):
ATAATCTATAAATATATT
Found at i:33765 original size:25 final size:27
Alignment explanation
Indices: 33755--33851 Score: 65
Period size: 28 Copynumber: 3.5 Consensus size: 27
33745 AATCTATAAA
*
33755 TATATATTATAATATCAATTATAATTAT
1 TATATATTATATTATCAATTATAA-TAT
* * *
33783 TATATATGATATTAT-TATTAAAATATT
1 TATATATTATATTATCAATTATAATA-T
* *
33810 TAAATAATATT-TGTTATTAATTAATAATAT
1 T--AT-ATATTATATTATCAATT-ATAATAT
33840 TATA-ATTATATT
1 TATATATTATATT
33852 TATATTATTA
Statistics
Matches: 53, Mismatches: 9, Indels: 15
0.69 0.12 0.19
Matches are distributed among these distances:
26 5 0.09
27 12 0.23
28 15 0.28
29 7 0.13
30 9 0.17
31 5 0.09
ACGTcount: A:0.45, C:0.01, G:0.02, T:0.52
Consensus pattern (27 bp):
TATATATTATATTATCAATTATAATAT
Found at i:33866 original size:21 final size:22
Alignment explanation
Indices: 33837--33884 Score: 64
Period size: 21 Copynumber: 2.2 Consensus size: 22
33827 TAATTAATAA
33837 TATTATAATTATA-TT-TATAT
1 TATTATAATTATAGTTATATAT
33857 TATTAATAATTATAGTTAATATAT
1 TATT-ATAATTATAGTT-ATATAT
33881 TATT
1 TATT
33885 TGAATATTTA
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
20 4 0.17
21 9 0.38
22 2 0.08
24 9 0.38
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.56
Consensus pattern (22 bp):
TATTATAATTATAGTTATATAT
Found at i:34423 original size:25 final size:26
Alignment explanation
Indices: 34367--34430 Score: 78
Period size: 25 Copynumber: 2.5 Consensus size: 26
34357 CATTATTATT
34367 ATTATTAATATTA-AATATAAAATAA
1 ATTATTAATATTATAATATAAAATAA
* **
34392 ATAATTAATATTATAATA-ATTATAA
1 ATTATTAATATTATAATATAAAATAA
*
34417 ATTATTATTATTAT
1 ATTATTAATATTAT
34431 TACAATTGAT
Statistics
Matches: 33, Mismatches: 5, Indels: 2
0.82 0.12 0.05
Matches are distributed among these distances:
25 29 0.88
26 4 0.12
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (26 bp):
ATTATTAATATTATAATATAAAATAA
Found at i:34437 original size:25 final size:25
Alignment explanation
Indices: 34388--34437 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 25
34378 TAAATATAAA
*
34388 ATAAATAATTAATATTATAATAATT
1 ATAAATAATTAATATTATAACAATT
* * *
34413 ATAAATTATTATTATTATTACAATT
1 ATAAATAATTAATATTATAACAATT
34438 GATATTAAGT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (25 bp):
ATAAATAATTAATATTATAACAATT
Found at i:34916 original size:25 final size:24
Alignment explanation
Indices: 34888--34937 Score: 57
Period size: 25 Copynumber: 2.0 Consensus size: 24
34878 TTATTTTATT
34888 TATTAAAATAATGAAATATT-AATTA
1 TATTAAAATAAT--AATATTGAATTA
**
34913 TATTTTAATAATAATATTGAATTA
1 TATTAAAATAATAATATTGAATTA
34937 T
1 T
34938 TAATATTAAC
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
23 6 0.27
24 6 0.27
25 10 0.45
ACGTcount: A:0.50, C:0.00, G:0.04, T:0.46
Consensus pattern (24 bp):
TATTAAAATAATAATATTGAATTA
Found at i:35105 original size:19 final size:20
Alignment explanation
Indices: 35081--35118 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
35071 AAATATAAAT
35081 AATTGTTAAT-ATTTAAAAC
1 AATTGTTAATAATTTAAAAC
*
35100 AATTGTTATTAATTTAAAA
1 AATTGTTAATAATTTAAAA
35119 TGCTACTTCT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.47, C:0.03, G:0.05, T:0.45
Consensus pattern (20 bp):
AATTGTTAATAATTTAAAAC
Found at i:35834 original size:28 final size:28
Alignment explanation
Indices: 35803--35865 Score: 74
Period size: 28 Copynumber: 2.2 Consensus size: 28
35793 TTAAAGTAAT
* * *
35803 AAATTAATTTATTATTTAA-TAATATTAA
1 AAATTAATTAATAATTAAATTAATATT-A
*
35831 AAATAAATTAATAATTAAATTAATATTA
1 AAATTAATTAATAATTAAATTAATATTA
35859 AAATTAA
1 AAATTAA
35866 AATCCTTATA
Statistics
Matches: 29, Mismatches: 5, Indels: 2
0.81 0.14 0.06
Matches are distributed among these distances:
28 22 0.76
29 7 0.24
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (28 bp):
AAATTAATTAATAATTAAATTAATATTA
Found at i:35854 original size:32 final size:33
Alignment explanation
Indices: 35790--35855 Score: 82
Period size: 32 Copynumber: 2.0 Consensus size: 33
35780 AATATAAACC
* *
35790 ATATTAAAGTAATAAATTAATTTATTATTTAATA
1 ATATTAAAG-AATAAATTAATTAATTAATTAATA
35824 ATATTAAA-AATAAATTAA-TAATTAAATTAATA
1 ATATTAAAGAATAAATTAATTAATT-AATTAATA
35856 TTAAAATTAA
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
31 4 0.14
32 17 0.59
34 8 0.28
ACGTcount: A:0.56, C:0.00, G:0.02, T:0.42
Consensus pattern (33 bp):
ATATTAAAGAATAAATTAATTAATTAATTAATA
Found at i:35868 original size:18 final size:18
Alignment explanation
Indices: 35822--35868 Score: 55
Period size: 17 Copynumber: 2.7 Consensus size: 18
35812 TATTATTTAA
*
35822 TAAT-ATTAAAAATAAAT
1 TAATAATTAAAATTAAAT
35839 TAATAATT-AAATTAATAT
1 TAATAATTAAAATTAA-AT
35857 TAA-AATTAAAAT
1 TAATAATTAAAAT
35869 CCTTATAATA
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
17 14 0.54
18 12 0.46
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (18 bp):
TAATAATTAAAATTAAAT
Found at i:36940 original size:15 final size:16
Alignment explanation
Indices: 36920--36957 Score: 60
Period size: 15 Copynumber: 2.4 Consensus size: 16
36910 ATTATATTTT
36920 AATTATTGATT-AATA
1 AATTATTGATTCAATA
36935 AATTATTGATTCAATA
1 AATTATTGATTCAATA
*
36951 AACTATT
1 AATTATT
36958 CACATATACA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
15 11 0.52
16 10 0.48
ACGTcount: A:0.45, C:0.05, G:0.05, T:0.45
Consensus pattern (16 bp):
AATTATTGATTCAATA
Found at i:37070 original size:18 final size:20
Alignment explanation
Indices: 37049--37109 Score: 74
Period size: 21 Copynumber: 3.1 Consensus size: 20
37039 AGTAATAACT
37049 TAATATTAAAT-TTA-ATAA
1 TAATATTAAATATTATATAA
37067 TAATATTATAATATTATATAA
1 TAATATTA-AATATTATATAA
*
37088 TATTATATAAATATTATA-AA
1 TAATAT-TAAATATTATATAA
37108 TA
1 TA
37110 GTTGTTTTAT
Statistics
Matches: 38, Mismatches: 1, Indels: 6
0.84 0.02 0.13
Matches are distributed among these distances:
18 8 0.21
19 3 0.08
20 7 0.18
21 18 0.47
22 2 0.05
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (20 bp):
TAATATTAAATATTATATAA
Found at i:38069 original size:17 final size:17
Alignment explanation
Indices: 38049--38149 Score: 67
Period size: 17 Copynumber: 6.2 Consensus size: 17
38039 TATTATAAGT
38049 ATAAATTTATTAATTTA
1 ATAAATTTATTAATTTA
*
38066 ATAAGTTTA-TAA-TT-
1 ATAAATTTATTAATTTA
*
38080 AT-AATTTATTAATGT-
1 ATAAATTTATTAATTTA
38095 A-AAATTTATTAATTTTA
1 ATAAATTTATTAA-TTTA
* *
38112 AT-AATTAAATACATTTA
1 ATAAATTTATTA-ATTTA
38129 ATTAAATATTATT--TTTA
1 A-TAAAT-TTATTAATTTA
38146 ATAA
1 ATAA
38150 TATTATAAAA
Statistics
Matches: 66, Mismatches: 8, Indels: 21
0.69 0.08 0.22
Matches are distributed among these distances:
13 5 0.08
14 5 0.08
15 14 0.21
16 8 0.12
17 26 0.39
18 2 0.03
19 3 0.05
20 3 0.05
ACGTcount: A:0.47, C:0.01, G:0.02, T:0.50
Consensus pattern (17 bp):
ATAAATTTATTAATTTA
Found at i:38071 original size:23 final size:23
Alignment explanation
Indices: 38043--38115 Score: 80
Period size: 23 Copynumber: 3.2 Consensus size: 23
38033 TTTATATATT
38043 ATAAGTATAAATTTATTAATTTA
1 ATAAGTATAAATTTATTAATTTA
*
38066 ATAAGTTTATAA-TTA-TAATTTA
1 ATAAGTATA-AATTTATTAATTTA
*
38088 TTAATGTA-AAATTTATTAATTTTA
1 ATAA-GTATAAATTTATTAA-TTTA
38112 ATAA
1 ATAA
38116 TTAAATACAT
Statistics
Matches: 41, Mismatches: 4, Indels: 9
0.76 0.07 0.17
Matches are distributed among these distances:
21 2 0.05
22 14 0.34
23 16 0.39
24 9 0.22
ACGTcount: A:0.47, C:0.00, G:0.04, T:0.49
Consensus pattern (23 bp):
ATAAGTATAAATTTATTAATTTA
Found at i:38185 original size:32 final size:32
Alignment explanation
Indices: 38149--38220 Score: 85
Period size: 32 Copynumber: 2.2 Consensus size: 32
38139 ATTTTTAATA
38149 ATATTATAAAAATATTAT-TAATTGTATAAT-TT
1 ATATTATAAAAATATTATATAA-T-TATAATATT
** *
38181 ATATTATTCAAATATTATATCATTATAATATT
1 ATATTATAAAAATATTATATAATTATAATATT
38213 ATATTATA
1 ATATTATA
38221 CTAGTTATAT
Statistics
Matches: 34, Mismatches: 4, Indels: 4
0.81 0.10 0.10
Matches are distributed among these distances:
31 6 0.18
32 26 0.76
33 2 0.06
ACGTcount: A:0.46, C:0.03, G:0.01, T:0.50
Consensus pattern (32 bp):
ATATTATAAAAATATTATATAATTATAATATT
Found at i:38198 original size:16 final size:16
Alignment explanation
Indices: 38173--38219 Score: 62
Period size: 16 Copynumber: 3.0 Consensus size: 16
38163 TTATTAATTG
38173 TATAAT-TTATATTAT
1 TATAATATTATATTAT
*
38188 TCA-AATATTATATCAT
1 T-ATAATATTATATTAT
38204 TATAATATTATATTAT
1 TATAATATTATATTAT
38220 ACTAGTTATA
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
15 5 0.19
16 22 0.81
ACGTcount: A:0.43, C:0.04, G:0.00, T:0.53
Consensus pattern (16 bp):
TATAATATTATATTAT
Found at i:38751 original size:20 final size:22
Alignment explanation
Indices: 38726--38768 Score: 72
Period size: 20 Copynumber: 2.0 Consensus size: 22
38716 TAATAAGAAA
38726 TTATATTTATT-ATAA-TAAAT
1 TTATATTTATTAATAATTAAAT
38746 TTATATTTATTAATAATTAAAT
1 TTATATTTATTAATAATTAAAT
38768 T
1 T
38769 AAATTATTAA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
20 11 0.52
21 4 0.19
22 6 0.29
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (22 bp):
TTATATTTATTAATAATTAAAT
Found at i:38776 original size:24 final size:23
Alignment explanation
Indices: 38729--38797 Score: 65
Period size: 23 Copynumber: 3.1 Consensus size: 23
38719 TAAGAAATTA
*
38729 TATTTATTATAA-TAAATT-TA-
1 TATTTATTATAATTAAATTAAAT
38749 TATTTATTAATAATTAAATTAAAT
1 TATTTATT-ATAATTAAATTAAAT
* *
38773 TATTAATTATATATT-AAGTAAAT
1 TATTTATTATA-ATTAAATTAAAT
38796 TA
1 TA
38798 ATTAAAAAAT
Statistics
Matches: 41, Mismatches: 3, Indels: 7
0.80 0.06 0.14
Matches are distributed among these distances:
20 8 0.20
21 4 0.10
22 6 0.15
23 13 0.32
24 10 0.24
ACGTcount: A:0.48, C:0.00, G:0.01, T:0.51
Consensus pattern (23 bp):
TATTTATTATAATTAAATTAAAT
Found at i:39492 original size:22 final size:22
Alignment explanation
Indices: 39445--39493 Score: 55
Period size: 22 Copynumber: 2.2 Consensus size: 22
39435 AAAAATTAGT
*
39445 TAATTAATTAATACATAAATAT
1 TAATTAATTAATACATAAATAA
* *
39467 TAATTAATT-ATAGTATTAATAA
1 TAATTAATTAATA-CATAAATAA
39489 TAATT
1 TAATT
39494 TATAGGTTAT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
21 3 0.13
22 20 0.87
ACGTcount: A:0.51, C:0.02, G:0.02, T:0.45
Consensus pattern (22 bp):
TAATTAATTAATACATAAATAA
Found at i:39845 original size:9 final size:10
Alignment explanation
Indices: 39823--39859 Score: 51
Period size: 9 Copynumber: 3.9 Consensus size: 10
39813 AATTGTTTTT
*
39823 TTAAATTTAA
1 TTAAATATAA
39833 TTAAATA-AA
1 TTAAATATAA
39842 TTAAATATAA
1 TTAAATATAA
39852 TT-AATATA
1 TTAAATATA
39860 TGACTATTAT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
9 15 0.60
10 10 0.40
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (10 bp):
TTAAATATAA
Found at i:39988 original size:16 final size:17
Alignment explanation
Indices: 39958--39994 Score: 51
Period size: 17 Copynumber: 2.3 Consensus size: 17
39948 TTAATATTTT
*
39958 GAAAATTAAAGAAGTAA
1 GAAATTTAAAGAAGTAA
39975 GAAATTTAAA-AAGTAA
1 GAAATTTAAAGAAGTAA
39991 -AAAT
1 GAAAT
39995 GTTTACTAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
15 4 0.21
16 6 0.32
17 9 0.47
ACGTcount: A:0.65, C:0.00, G:0.14, T:0.22
Consensus pattern (17 bp):
GAAATTTAAAGAAGTAA
Found at i:40375 original size:16 final size:17
Alignment explanation
Indices: 40343--40375 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
40333 AACAAGTGCA
40343 AATAATTATGACTATTTG
1 AATAATTAT-ACTATTTG
40361 AATAATTAT-CTATTT
1 AATAATTATACTATTT
40376 CTAATCACTC
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 6 0.40
18 9 0.60
ACGTcount: A:0.39, C:0.06, G:0.06, T:0.48
Consensus pattern (17 bp):
AATAATTATACTATTTG
Found at i:41144 original size:21 final size:21
Alignment explanation
Indices: 41111--41150 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
41101 ATATATAATT
* *
41111 ATATGAATTATAATTAATAAA
1 ATATGAATAATAACTAATAAA
*
41132 ATATTAATAATAACTAATA
1 ATATGAATAATAACTAATA
41151 GTCTAATATA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.57, C:0.03, G:0.03, T:0.38
Consensus pattern (21 bp):
ATATGAATAATAACTAATAAA
Found at i:41206 original size:15 final size:13
Alignment explanation
Indices: 41154--41262 Score: 52
Period size: 14 Copynumber: 8.5 Consensus size: 13
41144 ACTAATAGTC
41154 TAATATAT-TAT-
1 TAATATATATATA
*
41165 TAAT-TATATGTAA
1 TAATATATATAT-A
* *
41178 TTATATATAAATA
1 TAATATATATATA
41191 TTAATAGTATATATA
1 -TAATA-TATATATA
*
41206 TAGTATATATATA
1 TAATATATATATA
*
41219 -ATTATACTAT-TAA
1 TAATATA-TATAT-A
* *
41232 TAGTGTTATATATA
1 TAAT-ATATATATA
41246 TAAT-TATATATA
1 TAATATATATATA
41258 -AATAT
1 TAATAT
41263 TAATTAGTCT
Statistics
Matches: 75, Mismatches: 11, Indels: 23
0.69 0.10 0.21
Matches are distributed among these distances:
10 3 0.04
11 9 0.12
12 15 0.20
13 16 0.21
14 22 0.29
15 10 0.13
ACGTcount: A:0.47, C:0.01, G:0.05, T:0.48
Consensus pattern (13 bp):
TAATATATATATA
Found at i:41208 original size:11 final size:11
Alignment explanation
Indices: 41194--41218 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
41184 ATAAATATTA
41194 ATAGTATATAT
1 ATAGTATATAT
41205 ATAGTATATAT
1 ATAGTATATAT
41216 ATA
1 ATA
41219 ATTATACTAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.48, C:0.00, G:0.08, T:0.44
Consensus pattern (11 bp):
ATAGTATATAT
Found at i:41287 original size:37 final size:35
Alignment explanation
Indices: 41165--41295 Score: 117
Period size: 37 Copynumber: 3.7 Consensus size: 35
41155 AATATATTAT
41165 TAAT-TATATGTAATTATATATAAATATTAATAGTA
1 TAATATATAT-TAATTATATATAAATATTAATAGTA
* * *
41200 T-ATATATAGT-ATATATATAATTATACTATTAATAGTG
1 TAATATATATTAAT-TATAT-A-TA-AATATTAATAGTA
* *
41237 TTATATATA-TAATTATATATAAATATTAATTAGTC
1 TAATATATATTAATTATATATAAATATTAA-TAGTA
*
41272 TAACATACTATTAATTATATATAA
1 TAATATA-TATTAATTATATATAA
41296 TTATGACCTT
Statistics
Matches: 79, Mismatches: 7, Indels: 18
0.76 0.07 0.17
Matches are distributed among these distances:
33 2 0.03
34 15 0.19
35 17 0.22
36 5 0.06
37 31 0.39
38 9 0.11
ACGTcount: A:0.47, C:0.03, G:0.05, T:0.46
Consensus pattern (35 bp):
TAATATATATTAATTATATATAAATATTAATAGTA
Found at i:41807 original size:194 final size:191
Alignment explanation
Indices: 41481--41827 Score: 468
Period size: 194 Copynumber: 1.8 Consensus size: 191
41471 CAATATTACC
* * * *
41481 TTTTGTTTGGTCATATAACAATTATTTTTTATCATACAAGCTTTAGAATAAAATAATACTAATTT
1 TTTTGTTTGGTCATAAAACAATTATTATGTATCATACAAGCTTTAGAATAAAATAATACTAATCT
* * *
41546 ATTAATCTTTCAAAAGTTAATAAGTAAGAAATTTAAAAAATAAATTTATTTATCGAACCCATTTA
66 AGTAATCTCTCAAAAATTAATAAGTAAGAAATTTAAAAAATAAATTTATTTATCGAACCCATTTA
* *
41611 AATAGTTATGACTATTTGAACAAATGTATAGTTTAAATCAGTTATTTAAAAAATAAACTTT
131 AATAGTTAAGACTATATGAACAAATGTATAGTTTAAATCAGTTATTTAAAAAATAAACTTT
*
41672 TTTTGTTCT-GTCATAAAACAATTATTCATGT-TCATACAAGCTTATTCGAAATAAAATAATACT
1 TTTTGTT-TGGTCATAAAACAATTATT-ATGTATCATACAAGC-T-TTAG-AATAAAATAATACT
* * * * *
41735 AATCTAGTAATACTCT-AAAAATTAATAAGTAAGAGATTTCAAAAATAAATTTGTTTGTTGAA-C
61 AATCTAGTAAT-CTCTCAAAAATTAATAAGTAAGAAATTTAAAAAATAAATTTATTTATCGAACC
41798 CAGTTTAAATAGTTAAGACTATATGAACAA
125 CA-TTTAAATAGTTAAGACTATATGAACAA
41828 TTATCTATTT
Statistics
Matches: 134, Mismatches: 15, Indels: 11
0.84 0.09 0.07
Matches are distributed among these distances:
191 33 0.25
192 4 0.03
193 6 0.04
194 88 0.66
195 3 0.02
ACGTcount: A:0.43, C:0.10, G:0.09, T:0.39
Consensus pattern (191 bp):
TTTTGTTTGGTCATAAAACAATTATTATGTATCATACAAGCTTTAGAATAAAATAATACTAATCT
AGTAATCTCTCAAAAATTAATAAGTAAGAAATTTAAAAAATAAATTTATTTATCGAACCCATTTA
AATAGTTAAGACTATATGAACAAATGTATAGTTTAAATCAGTTATTTAAAAAATAAACTTT
Found at i:42197 original size:18 final size:18
Alignment explanation
Indices: 42149--42197 Score: 50
Period size: 18 Copynumber: 2.8 Consensus size: 18
42139 AATAAAAATC
*
42149 AATAATTAA-AATATTTA
1 AATAATTAATAATATTCA
42166 AATTAA--AATCAATATTCA
1 AA-TAATTAAT-AATATTCA
42184 AATAATTAATAATA
1 AATAATTAATAATA
42198 AATTATAAAT
Statistics
Matches: 26, Mismatches: 1, Indels: 9
0.72 0.03 0.25
Matches are distributed among these distances:
16 2 0.08
17 5 0.19
18 16 0.62
19 3 0.12
ACGTcount: A:0.59, C:0.04, G:0.00, T:0.37
Consensus pattern (18 bp):
AATAATTAATAATATTCA
Found at i:42200 original size:26 final size:27
Alignment explanation
Indices: 42134--42200 Score: 68
Period size: 26 Copynumber: 2.6 Consensus size: 27
42124 GGATATCTAT
*
42134 TAATCAATAA-AAATCAATAATTAAAA
1 TAATTAATAATAAATCAATAATTAAAA
* * *
42160 TATTTAA-ATTAAAATCAAT-ATTCAAA
1 TAATTAATAAT-AAATCAATAATTAAAA
42186 TAATTAATAATAAAT
1 TAATTAATAATAAAT
42201 TATAAATATT
Statistics
Matches: 32, Mismatches: 6, Indels: 6
0.73 0.14 0.14
Matches are distributed among these distances:
25 1 0.03
26 21 0.66
27 10 0.31
ACGTcount: A:0.60, C:0.06, G:0.00, T:0.34
Consensus pattern (27 bp):
TAATTAATAATAAATCAATAATTAAAA
Found at i:43906 original size:361 final size:349
Alignment explanation
Indices: 43094--45786 Score: 1129
Period size: 361 Copynumber: 7.5 Consensus size: 349
43084 AAATTGTGTC
* * ** * * *
43094 ATGAGAAAACAAAAAGTCATAAAAATTTGAAATAAATAATTGTTCAAATAGTCATAATTATTTAA
1 ATGA-AAAATAAAAGGTCATAACGATTTGAAATAGATAATTGTTCAAATAGTCATAACTATTTGA
** * ** * * * * *
43159 ACTTATTTGATAAGTAGATTTATTTTTTAAATCTTTTACTTATTAGTTGTCTG-AATATTAATAA
65 ACTGGTTAGGCAAATA-A-AT-TTTTTTAAATC-ATT-CTTATTAATTTTC-GAAATATTAATAA
* * * ** * ** * * *
43223 ATTTGTATAATTTTATTTGAAATAA-ACTTGTATGAATAGAAAATTTTGTTTTAGGACAAAATAA
124 ATTAGTATTACTTTATTCCAAATAAGACATGTATGAAT-GAAAAAATTATTTTATGACAAAA-CA
* ** ** * * * * * * * *
43287 AAGGTTATAGCGATTAAAAATATATAATTATTCAACTAG-TCATAATTAATTGTACTTG-TTCGA
187 AAGGTCATAATGATTTGAAATAAATAATTGTTCAAATAGCT-ATAAATATTTGAACTAGTTTAG-
* * * * * * *
43350 TAAACAGATTTATTTTTTAAA--T-CTCTTATTAATTTTTAGAATATTAATAAAATAGA-ACTAT
250 TAAATA-ATTTA-TTTTTAAATTTATTCTTCTTAATTTTCAAAATATTAATAAATTA-ATATTAT
* * * * * * *
43411 ATTATTTCAAATAAGCTAGTACAGACAAAAATAATTGTTTT
312 TTTATTTGAAA-AAACTTGTA-ATACAAAAA-CATTTTTTT
* * * * * * *
43452 GTGATAAAAAAAAAGGTCATAATGATTTGAAATAGATAATTATTCGAACAGTCATAACTATTTGC
1 ATGA-AAAATAAAAGGTCATAACGATTTGAAATAGATAATTGTTCAAATAGTCATAACTATTTGA
* * * * * *
43517 ACTGGTCAGGCCAATTGATTCATTTTTTAAATCTATTACTTATTAA-TTTCAAAATATTGATAAA
65 ACTGGTTAGG-CAAATAAAT--TTTTTTAAATC-ATT-CTTATTAATTTTCGAAATATTAATAAA
* * * *
43581 TTAGTATTACTTTATTCCGAATAAGAC-TGTATGAATAGAAATAAATTATTTTATGATATAATAA
125 TTAGTATTACTTTATTCCAAATAAGACATGTATGAAT-GAAA-AAATTATTTTATGACAAAACAA
* * * * *
43645 TGGTCATAATGATTTGAAATAAATAATTGTTCAAATAGTTATAACTAATTGAACTGGTTTAGTAA
188 AGGTCATAATGATTTGAAATAAATAATTGTTCAAATAGCTATAAATATTTGAACTAGTTTAGTAA
* * *
43710 ATAGTTTTACTTTTTAAATTTTTTCTTTCTTAATTTTCAAAATATTAATAAATTAATATTGTTTT
253 ATA-ATTTA-TTTTTAAATTTATTC-TTCTTAATTTTCAAAATATTAATAAATTAATATTATTTT
*
43775 ATTCTGAACAAACTTGTACATACAAAAACATTTTTTTT
315 ATT-TGAAAAAACTTGTA-ATACAAAAACA-TTTTTTT
** *
43813 ATGACAAAATAAAAGAACATAACGATTTGAAATAGATAATTGTTCAAATAGTCATAATTATTTGA
1 ATGA-AAAATAAAAGGTCATAACGATTTGAAATAGATAATTGTTCAAATAGTCATAACTATTTGA
* * *
43878 ATTGGTTAGGCAAACTTAAATGTTTTTTAAATCTCTTGCTTATTAAGCTTT-GAAATATTAATAA
65 ACTGGTTAGGCAAA--TAAAT-TTTTTTAAATC-ATT-CTTATTAA-TTTTCGAAATATTAATAA
* * * ** * * * **
43942 ATTTGT-TTTCTTTATTACAAATAAGTTA-CTAAGAAATGAAAAAATTGTTTTACAACAAAACGA
124 ATTAGTATTACTTTATTCCAAATAAGACATGTATG-AATGAAAAAATTATTTTATGACAAAAC-A
* * * * *
44005 AAAGTCATAATGATTTGAAATAAAAAATTGTTCATATACCCTA-AAATATTTGAACTAGTTCAGT
187 AAGGTCATAATGATTTGAAATAAATAATTGTTCAAATA-GCTATAAATATTTGAACTAGTTTAGT
* * * * * * *
44069 AAACAAATCTATTTTTTAAATTTATTAGTTATTAATTTTCAGAATATTATTAAATTAGTATTATT
251 AAA-TAATTTA-TTTTTAAATTTATT-CTTCTTAATTTTCAAAATATTAATAAATTAATATTA-T
* * * *
44134 TTTATTTCGAATAAACTTGTGTGAATAGAAATA-ATTTATTT
312 TTTATTT-GAAAAAAC-T-TGT-AATACAAAAACATTTTTTT
* * * *
44175 ATGAATATAA-CAAAGGTTATAACAATTTGAAATATATAATTGTTCAAATAGTCATAACTATTTG
1 ATGAA-A-AATAAAAGGTCATAACGATTTGAAATAGATAATTGTTCAAATAGTCATAACTATTTG
* * * * *
44239 AACCGGTTCA-GTAAACAAATTACTTTTTAAATC-TT-TTATTAATTTTTGAAAT-TTAGTAAAT
64 AACTGGTT-AGGCAAATAAATT--TTTTTAAATCATTCTTATTAATTTTCGAAATATTAATAAAT
* * * **
44300 TAGTATTATTTTATTCCAAAT-AGGCTTGTATGAATGAAAAACAATTGCTTTATGACAAAACAAA
126 TAGTATTACTTTATTCCAAATAAGACATGTATGAATG-AAAA-AATTATTTTATGACAAAACAAA
* * * * * * *
44364 GTTCATAACGATTTGAAATAGATAATTATTCAAATAGCCATAATTATTTGAA-TAATTT-GATAA
189 GGTCATAATGATTTGAAATAAATAATTGTTCAAATAGCTATAAATATTTGAACTAGTTTAG-TAA
** * ** **
44427 ACTAATTTATTTTTAAAACTCCA-ACTTCTTAATTTTTGAAATATTAAT-AAGCAATATTATTTT
253 A-TAATTTATTTTT-AAA-TTTATTCTTCTTAATTTTCAAAATATTAATAAATTAATATTATTTT
* * * * *
44490 ATTTTGAAAAAATTTTTATGTAC-TAAACAGTTGTTTT
315 A-TTTGAAAAAACTTGTA-ATACAAAAACA-TTTTTTT
* *
44527 ATGATAAATAAAAAGGTCATAACGATTTTAAATAGATAATTGTTCAAATAGTCATAACTATTTGA
1 ATGAAAAAT-AAAAGGTCATAACGATTTGAAATAGATAATTGTTCAAATAGTCATAACTATTTGA
** * * * * * *
44592 ACTTATTCGGTAAATAGATTTCTTTAAA--ATTTCTTATTAATTTTCTAAATTTTAATAAATTAG
65 ACTGGTTAGGCAAATAAATTTTTTTAAATCA-TTCTTATTAATTTTCGAAATATTAATAAATTAG
* * * * * * *
44655 TATTACTATATTTCGAATAAG-CATGTATGAACTGAAACAATTATTTTTTGACTAAACAAAAGAT
129 TATTACTTTATTCCAAATAAGACATGTATGAA-TGAAAAAATTATTTTATGACAAAAC-AAAGGT
* * * * * * *
44719 CAAAATAATTTG----GAATAATTGTTCTAATAGTCT-TAACTA-TTGAACT-GCTTTCGAAAAA
192 CATAATGATTTGAAATAAATAATTGTTCAAATAG-CTATAAATATTTGAACTAG-TTTAG-TAAA
* * * ** * ***
44777 CACATTTATTTTT-AA---ATCCTTATTAATTTTTGAAATAGTAATAAATTGGCATTATTTTATT
254 TA-ATTTATTTTTAAATTTATTCTTCTTAATTTTCAAAATATTAATAAATTAATATTATTTTATT
** * *
44838 CT-AAATAATTTTGT-ATGA-ATAGAAACAATTATTT
318 -TGAAA-AAACTTGTAAT-ACA-A-AAACATTTTTTT
* * * * * * ** * * * *
44872 ATAATAAAACAAAATGTCATAACAATTTAAAATAAATAACAGTTCAAATGGACATGACTATTTAA
1 ATGA-AAAATAAAAGGTCATAACGATTTGAAATAGATAATTGTTCAAATAGTCATAACTATTTGA
* * * * *
44937 ACTTGTTCGGTAAATAAATTTATTTTTTAAAT-ATCTAACTTATTAATTTT-TAGAATAATAATA
65 ACTGGTTAGGCAAATAAA--T-TTTTTTAAATCAT-T--CTTATTAATTTTCGA-AATATTAATA
* * * * *
45000 AATTAGTATTATTTTATTCCAAATAA-ACTTGTGTGAATAGAAACAATTGTTTTATGACAAAACA
123 AATTAGTATTACTTTATTCCAAATAAGACATGTATGAAT-GAAAAAATTATTTTATGACAAAAC-
* * * * * * * **
45064 AAAGATCATAAAGATTTGACATATATAATTATTCAAATAG-TAATAACTATTTGAACTTA-CTCG
186 AAAGGTCATAATGATTTGAAATAAATAATTGTTCAAATAGCT-ATAAATATTTGAAC-TAGTTTA
* *
45127 GTAAACAAATTTATTATTTAAATCTT-TTACTTATTAATTTT-AGAAATATTAATAAATTAATAT
249 GTAAA-TAATTTATT-TTTAAAT-TTATT-CTTCTTAATTTTCA-AAATATTAATAAATTAATAT
* ** * * * * **
45190 TATTTTATTTCTAGTAAGCTTATATGAATAGAAATA-ATTGGTTT
309 TATTTTATTT-GAAAAAAC-T-TGT-AATACAAAAACATTTTTTT
* ** * *
45234 ATGACAAAACAAATTGTCATAACGATTTGAAAAAGATAATTGTTCAAATAATCATAACTA-TTGA
1 ATGA-AAAATAAAAGGTCATAACGATTTGAAATAGATAATTGTTCAAATAGTCATAACTATTTGA
* ** * * ** * * * * *
45298 A-TATGTTCA-AAAAACATATTTATTTTTAAAATTTTTATTTATTAATTTTTGGACTTTTAATAA
65 ACT-GGTT-AGGCAAATA-AATT-TTTTT-AAATCATT-CTTATTAATTTTCGAAATATTAATAA
* ** * * * ** *
45361 ATTTA-TATTATTTTATTTGAAATAAG-CTTGCATGAACAGAACTAAGTATTTTATGACAAAACA
124 A-TTAGTATTACTTTATTCCAAATAAGACATGTATGAA-TGAAAAAATTATTTTATGACAAAACA
* * * * * * * *
45424 AATGGTCATAATGTTTTGAAATAGATAATTATTTAGATAG-TCATAACTATTTGAACTTGTTTGG
187 AA-GGTCATAATGATTTGAAATAAATAATTGTTCAAATAGCT-ATAAATATTTGAACTAGTTTAG
* * * * **** * **
45488 TAAACAAATTCATTTTTTTAATTCTCTTAC-TCATTAATTTTTGGTAGATTAATAAATTAGA-GC
250 TAAA-TAATTTA-TTTTTAAATT-TATT-CTTC-TTAATTTTCAAAATATTAATAAATTA-ATAT
* * * ** *
45551 TATTTTATTTCAAATAAGCTTATGTTA-ACTGAAACAATTATTTT
309 TATTTTATTTGAAA-AAAC-T-TGTAATACAAAAAC-ATTTTTTT
* * * ** * * * *
45595 ATTACAAAATAGAAGGTCACAATTATTTGAAATAGATAATTATTCATATAGTCTTGACTATTTGA
1 ATGA-AAAATAAAAGGTCATAACGATTTGAAATAGATAATTGTTCAAATAGTCATAACTATTTGA
* * * ** * *
45660 ACTTGTTTGGTAAACATATTTATTTTTTAAATCTTTCACTTATTAATTGTC-AAATATTAATAAA
65 ACTGGTTAGG-CAA-ATAAAT-TTTTTTAAATCATT--CTTATTAATTTTCGAAATATTAATAAA
* * * * * * *
45724 TTAATATTATTTTAAT-CAAATAAG-CTTGTATGAATAGAAACAATTGTTTTATTACAAAACAAA
125 TTAGTATTACTTTATTCCAAATAAGACATGTATGAAT-GAAAAAATTATTTTATGACAAAACAAA
45787 AAGTCGTAAC
Statistics
Matches: 1801, Mismatches: 398, Indels: 269
0.73 0.16 0.11
Matches are distributed among these distances:
343 2 0.00
344 28 0.02
345 86 0.05
346 8 0.00
347 8 0.00
348 33 0.02
349 18 0.01
350 17 0.01
351 123 0.07
352 124 0.07
353 16 0.01
354 11 0.01
355 54 0.03
356 51 0.03
357 190 0.11
358 116 0.06
359 16 0.01
360 170 0.09
361 473 0.26
362 204 0.11
363 34 0.02
364 15 0.01
365 4 0.00
ACGTcount: A:0.41, C:0.08, G:0.10, T:0.41
Consensus pattern (349 bp):
ATGAAAAATAAAAGGTCATAACGATTTGAAATAGATAATTGTTCAAATAGTCATAACTATTTGAA
CTGGTTAGGCAAATAAATTTTTTTAAATCATTCTTATTAATTTTCGAAATATTAATAAATTAGTA
TTACTTTATTCCAAATAAGACATGTATGAATGAAAAAATTATTTTATGACAAAACAAAGGTCATA
ATGATTTGAAATAAATAATTGTTCAAATAGCTATAAATATTTGAACTAGTTTAGTAAATAATTTA
TTTTTAAATTTATTCTTCTTAATTTTCAAAATATTAATAAATTAATATTATTTTATTTGAAAAAA
CTTGTAATACAAAAACATTTTTTT
Found at i:44400 original size:16 final size:17
Alignment explanation
Indices: 44379--44411 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
44369 TAACGATTTG
44379 AAATAG-ATAATTATTC
1 AAATAGCATAATTATTC
44395 AAATAGCCATAATTATT
1 AAATAG-CATAATTATT
44412 TGAATAATTT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 6 0.40
18 9 0.60
ACGTcount: A:0.48, C:0.09, G:0.06, T:0.36
Consensus pattern (17 bp):
AAATAGCATAATTATTC
Found at i:45182 original size:181 final size:181
Alignment explanation
Indices: 43085--45787 Score: 1815
Period size: 181 Copynumber: 15.1 Consensus size: 181
43075 ATAAATATTA
* * * * * *
43085 AATTGTGTCATGAGAAAACAAAAAGTCATAAAAATTTGAAATAAATAATTGTTCAAATAGTCATA
1 AATTGTTTTATGACAAAACAAAAGGTCATAAAGATTTGAAATAGATAATTGTTCAAATAGTCATA
* * * * * ** * *
43150 ATTATTTAAACTTATTTGATAAGTAGATTTATTTTTTAAATCTTTTACTTATTAGTTGTCT-G-A
66 ACTATTTGAACTTGTTCGGTAAACAAATTTATTTTTTAAATCTTTTACTTATTAATT-T-TAGAA
* * *
43213 ATATTAATAAATTTGTATAATTTTATTTGAAATAAACTTGTATGAATAGAAA-
129 ATATTAATAAATTAGTATTATTTTATTTCAAATAAACTTGTATGAATAGAAAC
* * * * ** ** * * *
43265 ATTTTGTTTTAGGACAAAATAAAAGGTTATAGCGATTAAAAATATATAATTATTCAACTAGTCAT
1 A-ATTGTTTTATGACAAAACAAAAGGTCATAAAGATTTGAAATAGATAATTGTTCAAATAGTCAT
* * * * *
43330 AATTAATTGTACTTGTTCGATAAACAGATTTATTTTTTAAATC---T-CTTATTAATTTTTAG-A
65 AACTATTTGAACTTGTTCGGTAAACAAATTTATTTTTTAAATCTTTTACTTATTAA-TTTTAGAA
* * * * * * * *
43390 ATATTAATAAAATAGAACTATATTATTTCAAATAAGCTAGTACAGACA-A-AAAT
129 ATATTAATAAATTAGTATTATTTTATTTCAAATAAACTTGTA-TGA-ATAGAAAC
* * * * * * *
43443 AATTGTTTTGTGATAAAAAAAAAGGTCATAATGATTTGAAATAGATAATTATTCGAACAGTCATA
1 AATTGTTTTATGACAAAACAAAAGGTCATAAAGATTTGAAATAGATAATTGTTCAAATAGTCATA
* * ** *** * * *
43508 ACTATTTGCAC-TGGTCAGGCCAATTGATTCATTTTTTAAATCTATTACTTATTAATTTCA-AAA
66 ACTATTTGAACTTGTTC-GGTAAACAAATTTATTTTTTAAATCTTTTACTTATTAATTTTAGAAA
* * * * *
43571 TATTGATAAATTAGTATTACTTTATTCCGAATAAGAC-TGTATGAATAGAAATA
130 TATTAATAAATTAGTATTATTTTATTTCAAATAA-ACTTGTATGAATAGAAA-C
* * * * * * * *
43624 AATTATTTTATGATATAA-TAATGGTCATAATGATTTGAAATAAATAATTGTTCAAATAGTTATA
1 AATTGTTTTATGACAAAACAAAAGGTCATAAAGATTTGAAATAGATAATTGTTCAAATAGTCATA
* * ** * ** * * *
43688 ACTAATTGAACTGGTTTAGTAAATAGTTTTACTTTTTAAAT-TTTTTCTTTCTTAATTTTCA-AA
66 ACTATTTGAACTTGTTCGGTAAACAAATTTATTTTTTAAATCTTTTAC-TTATTAATTTT-AGAA
* * * * * * *
43751 ATATTAATAAATTAATATTGTTTTA-TTCTGAACAAACTTGTA-CATACAAAAAC
129 ATATTAATAAATTAGTATTATTTTATTTC-AAATAAACTTGTATGA-ATAGAAAC
* * * ** *
43804 ATTTTTTTTATGACAAAATAAAAGAACATAACGATTTGAAATAGATAATTGTTCAAATAGTCATA
1 AATTGTTTTATGACAAAACAAAAGGTCATAAAGATTTGAAATAGATAATTGTTCAAATAGTCATA
* * * * * * *
43869 ATTATTTGAA-TTGGTTAGGCAAACTTAAA--TGTTTTTTAAATCTCTTGCTTATTAAGCTTT-G
66 ACTATTTGAACTT-GTTCGGTAAAC--AAATTTATTTTTTAAATCTTTTACTTATTAA-TTTTAG
* * * * * *
43930 AAATATTAATAAATTTGT-TT-TCTTTATTACAAAT-AAGTTACTAAGAA-ATGAAAA
127 AAATATTAATAAATTAGTATTAT-TTTATTTCAAATAAACTT-GTATGAATA-GAAAC
** * * * * * *
43984 AATTGTTTTACAACAAAACGAAAA-GTCATAATGATTTGAAATAAAAAATTGTTCATATA-CCCT
1 AATTGTTTTATGACAAAAC-AAAAGGTCATAAAGATTTGAAATAGATAATTGTTCAAATAGTCAT
* * * * *
44047 AAAATATTTGAACTAGTTCAGTAAACAAATCTATTTTTTAAAT-TTATTAGTTATTAATTTTCAG
65 -AACTATTTGAACTTGTTCGGTAAACAAATTTATTTTTTAAATCTT-TTACTTATTAATTTT-AG
* * * *
44111 -AATATTATTAAATTAGTATTATTTTTATTTCGAATAAACTTGTGTGAATAGAAAT
127 AAATATTAATAAATTAGTATTA-TTTTATTTCAAATAAACTTGTATGAATAGAAAC
* *
44166 AATT-TATTTATGA-ATATAAC-AAAGGTTATAACA-ATTTGAAATATATAATTGTTCAAATAGT
1 AATTGT-TTTATGACA-A-AACAAAAGGTCATAA-AGATTTGAAATAGATAATTGTTCAAATAGT
** * * *
44227 CATAACTATTTGAACCGGTTCAGTAAACAAA-TTACTTTTTAAATC--TT--TTATTAATTTTTG
62 CATAACTATTTGAACTTGTTCGGTAAACAAATTTATTTTTTAAATCTTTTACTTATTAATTTTAG
* * ** *
44287 AAAT-TTAGTAAATTAGTATTATTTTATTCCAAATAGGCTTGTATGAATGAAAAAC
127 AAATATTAATAAATTAGTATTATTTTATTTCAAATAAACTTGTATGAAT-AGAAAC
* * * * *
44342 AATTGCTTTATGACAAAAC-AAAGTTCATAACGATTTGAAATAGATAATTATTCAAATAGCCATA
1 AATTGTTTTATGACAAAACAAAAGGTCATAAAGATTTGAAATAGATAATTGTTCAAATAGTCATA
* ** * * * * *** * *
44406 ATTATTTGAA-TAATTTGATAAACTAATTTA-TTTTTAAAACTCCAACTTCTTAATTTTTGAAAT
66 ACTATTTGAACTTGTTCGGTAAACAAATTTATTTTTTAAATCTTTTACTTATTAATTTTAGAAAT
** * * * * *
44469 ATTAAT-AAGCAATATTATTTTATTTTGAAA-AAATTTTTATG--TACTAAAC
131 ATTAATAAATTAGTATTATTTTA-TTTCAAATAAACTTGTATGAATA-GAAAC
* * * *
44518 AGTTGTTTTATGATAAATA-AAAAGGTCATAACGATTTTAAATAGATAATTGTTCAAATAGTCAT
1 AATTGTTTTATGACAAA-ACAAAAGGTCATAAAGATTTGAAATAGATAATTGTTCAAATAGTCAT
* * * * * **
44582 AACTATTTGAACTTATTCGGTAAATAGA--T-TTCTTTAAA--ATTT-CTTATTAATTTTCTAAA
65 AACTATTTGAACTTGTTCGGTAAACAAATTTATTTTTTAAATCTTTTACTTATTAATTTTAGAAA
* * * * * *
44641 TTTTAATAAATTAGTATTACTATATTTCGAATAAGCATGTATGAACT-GAAAC
130 TATTAATAAATTAGTATTATTTTATTTCAAATAAACTTGTATGAA-TAGAAAC
* * * * * * * *
44693 AATTATTTTTTGACTAAACAAAAGATCA-AAATAATTTG---GA-ATAATTGTTCTAATAGTCTT
1 AATTGTTTTATGACAAAACAAAAGGTCATAAA-GATTTGAAATAGATAATTGTTCAAATAGTCAT
** * *
44753 AACTA-TTGAAC-TGCTTTCGAAAAACACATTTA-TTTTTAAATC-----CTTATTAATTTTTGA
65 AACTATTTGAACTTG--TTCGGTAAACAAATTTATTTTTTAAATCTTTTACTTATTAATTTTAGA
* * * **
44810 AATAGTAATAAATTGGCATTATTTTA-TTCTAAATAATTTTGTATGAATAGAAAC
128 AATATTAATAAATTAGTATTATTTTATTTC-AAATAAACTTGTATGAATAGAAAC
* * * * * * ** * *
44864 AATT-ATTTATAATAAAACAAAATGTCATAACA-ATTTAAAATAAATAACAGTTCAAATGGACAT
1 AATTGTTTTATGACAAAACAAAAGGTCATAA-AGATTTGAAATAGATAATTGTTCAAATAGTCAT
* * * * * *
44927 GACTATTTAAACTTGTTCGGTAAATAAATTTATTTTTTAAATATCTAACTTATTAATTTTTAG-A
65 AACTATTTGAACTTGTTCGGTAAACAAATTTATTTTTTAAATCTTTTACTTATTAA-TTTTAGAA
* * *
44991 ATAATAATAAATTAGTATTATTTTATTCCAAATAAACTTGTGTGAATAGAAAC
129 ATATTAATAAATTAGTATTATTTTATTTCAAATAAACTTGTATGAATAGAAAC
* * * * *
45044 AATTGTTTTATGACAAAACAAAAGATCATAAAGATTTGACATATATAATTATTCAAATAGTAATA
1 AATTGTTTTATGACAAAACAAAAGGTCATAAAGATTTGAAATAGATAATTGTTCAAATAGTCATA
** *
45109 ACTATTTGAACTTACTCGGTAAACAAATTTATTATTTAAATCTTTTACTTATTAATTTTAGAAAT
66 ACTATTTGAACTTGTTCGGTAAACAAATTTATTTTTTAAATCTTTTACTTATTAATTTTAGAAAT
* * * * * *
45174 ATTAATAAATTAATATTATTTTATTTCTAGTAAGCTTATATGAATAGAAAT
131 ATTAATAAATTAGTATTATTTTATTTCAAATAAACTTGTATGAATAGAAAC
* ** * * *
45225 AATTGGTTTATGACAAAACAAATTGTCATAACGATTTGAAAAAGATAATTGTTCAAATAATCATA
1 AATTGTTTTATGACAAAACAAAAGGTCATAAAGATTTGAAATAGATAATTGTTCAAATAGTCATA
*** * * * * * *
45290 ACTA-TTGAA-TATGTTCAAAAAACATATTTATTTTTAAAAT-TTTTATTTATTAATTTTTGGAC
66 ACTATTTGAACT-TGTTCGGTAAACAAATTTATTTTTTAAATCTTTTACTTATTAATTTTAGAAA
* * * * *
45352 TTTTAATAAATTTA-TATTATTTTATTTGAAATAAGCTTGCATGAACAG-AAC
130 TATTAATAAA-TTAGTATTATTTTATTTCAAATAAACTTGTATGAATAGAAAC
* * * * * * * *
45403 TAAGTATTTTATGACAAAACAAATGGTCATAATGTTTTGAAATAGATAATTATTTAGATAGTCAT
1 -AATTGTTTTATGACAAAACAAAAGGTCATAAAGATTTGAAATAGATAATTGTTCAAATAGTCAT
* * * * * * **
45468 AACTATTTGAACTTGTTTGGTAAACAAATTCATTTTTTTAATTCTCTTACTCATTAATTTTTGGT
65 AACTATTTGAACTTGTTCGGTAAACAAATTTA-TTTTTTAAATCTTTTACTTATTAATTTTAGAA
* * * * * *
45533 AGATTAATAAATTAG-AGCTATTTTATTTCAAATAAGCTTATGTTAACT-GAAAC
129 ATATTAATAAATTAGTA-TTATTTTATTTCAAATAAACTTGTATGAA-TAGAAAC
* * * * * ** * * * *
45586 AATTATTTTATTACAAAATAGAAGGTCACAATTATTTGAAATAGATAATTATTCATATAGTCTTG
1 AATTGTTTTATGACAAAACAAAAGGTCATAAAGATTTGAAATAGATAATTGTTCAAATAGTCATA
* * * * *
45651 ACTATTTGAACTTGTTTGGTAAACATATTTATTTTTTAAATCTTTCACTTATTAATTGT-CAAAT
66 ACTATTTGAACTTGTTCGGTAAACAAATTTATTTTTTAAATCTTTTACTTATTAATTTTAGAAAT
* * *
45715 ATTAATAAATTAATATTATTTTA-ATCAAATAAGCTTGTATGAATAGAAAC
131 ATTAATAAATTAGTATTATTTTATTTCAAATAAACTTGTATGAATAGAAAC
*
45765 AATTGTTTTATTACAAAACAAAA
1 AATTGTTTTATGACAAAACAAAA
45788 AGTCGTAACA
Statistics
Matches: 1953, Mismatches: 451, Indels: 239
0.74 0.17 0.09
Matches are distributed among these distances:
169 1 0.00
170 30 0.02
171 89 0.05
172 2 0.00
173 34 0.02
174 70 0.04
175 118 0.06
176 67 0.03
177 190 0.10
178 60 0.03
179 186 0.10
180 374 0.19
181 497 0.25
182 220 0.11
183 15 0.01
ACGTcount: A:0.41, C:0.08, G:0.10, T:0.41
Consensus pattern (181 bp):
AATTGTTTTATGACAAAACAAAAGGTCATAAAGATTTGAAATAGATAATTGTTCAAATAGTCATA
ACTATTTGAACTTGTTCGGTAAACAAATTTATTTTTTAAATCTTTTACTTATTAATTTTAGAAAT
ATTAATAAATTAGTATTATTTTATTTCAAATAAACTTGTATGAATAGAAAC
Found at i:46235 original size:181 final size:177
Alignment explanation
Indices: 45824--46428 Score: 558
Period size: 181 Copynumber: 3.4 Consensus size: 177
45814 TATTTCAAAT
** * * *
45824 AATTATCTATTTCAAATTGTTATTACCTTTTGTTTTGTCATAAAACAAATGTTTTTGTTCATATA
1 AATTATCTATTTCAAATCATTATGACCTTTTGTTTTATCATAAAACAATTGTTTTTGTTCATATA
* * * * *
45889 AGTTTGTTTGGAATAAAATAATATTGATTTATTAATATTTCAAAAATTAATACGTAGGAGATTTA
66 A-TTTATTTGGAAT-AAATAATACTAATTTATTAATATTTTAAAAATTAATAAGTA-GAGATTTA
* * * * *
45954 AAAAATAAATTTGTTTGCCAT-ACCAATTC-AATTAGTATAACTATTT-AACC
128 AAAAATGAATCTGTTTG-CTTGACC-ATTCAAATAATTATAACTATTTGAA-C
* * ** *
46004 AAATATTTATTTCAAATCATTATGACCAATTGTTTTATCATAAAACAATTGTTTCTGTTCATATA
1 AATTATCTATTTCAAATCATTATGACCTTTTGTTTTATCATAAAACAATTGTTTTTGTTCATATA
* *
46069 ATATTATTTGGAATAAAGTAATGCTAATTTATTAATATTTTGAAAATTAATAAGTA-ATGGATTT
66 AT-TTATTTGGAATAAA-TAATACTAATTTATTAATATTTTAAAAATTAATAAGTAGA--GATTT
* * *
46133 AGAAAATGTACCT-TTTGGCTTGACCATTGCAAATAATTATAACTATTTGAAC
127 AAAAAATGAATCTGTTT-GCTTGACCATT-CAAATAATTATAACTATTTGAAC
* * * * *
46185 AATTATCTTTTTCAAATCATTATGACCTTTTGTTTTCTTACAAAACAATTGTTTTTGTTCATACA
1 AATTATCTATTTCAAATCATTATGACCTTTTGTTTTATCATAAAACAATTGTTTTTGTTCATATA
* *** * * *
46250 AGCTTATTCATAATAACATTATTCTAATTTATTAATATTCTAAAAATTAATAAGTGAGAGATTTA
66 A-TTTATTTGGAATAA-ATAATACTAATTTATTAATATTTTAAAAATTAATAAGT-AGAGATTTA
* * *
46315 AAAAATGAATCTGTTT-ATTGAACAAGTTCAAATAATTATGACTATTTGAAC
128 AAAAATGAATCTGTTTGCTTG-ACCA-TTCAAATAATTATAACTATTTGAAC
* *** * * * * *
46366 AATTATCTAGTTCAAATTGCTATAACCTTTTGTGTTGTCATAAAATAATT-TTTTCTATTCATA
1 AATTATCTATTTCAAATCATTATGACCTTTTGTTTTATCATAAAACAATTGTTTT-TGTTCATA
46429 CAAGCTTATT
Statistics
Matches: 347, Mismatches: 61, Indels: 33
0.79 0.14 0.07
Matches are distributed among these distances:
178 1 0.00
179 12 0.03
180 123 0.35
181 201 0.58
182 9 0.03
183 1 0.00
ACGTcount: A:0.38, C:0.10, G:0.09, T:0.43
Consensus pattern (177 bp):
AATTATCTATTTCAAATCATTATGACCTTTTGTTTTATCATAAAACAATTGTTTTTGTTCATATA
ATTTATTTGGAATAAATAATACTAATTTATTAATATTTTAAAAATTAATAAGTAGAGATTTAAAA
AATGAATCTGTTTGCTTGACCATTCAAATAATTATAACTATTTGAAC
Found at i:46779 original size:179 final size:180
Alignment explanation
Indices: 46486--47841 Score: 1070
Period size: 179 Copynumber: 7.6 Consensus size: 180
46476 TTGAAACAAT
* * ** * * * **
46486 TTATTTATTTCAAATCGTTATGACTTTTTGTTTTTGTCATAAAATGATTATTTTTGTTCATATTA
1 TTATCTATTTCAAATCGTTATGACCTTTTG-TTTTGTCATAAAACAATTGTTTCTATTCATACAA
* * * * *
46551 GCTTATTC-ATATTAAAATAATATTAATTTATTGATATTTCAACAATTAATAAGTAAAAGATTTA
65 GCTTATTCGA-AATAAAATAATACTAATTTATTAATATTCCAAAAATTAATAAGTAAAAGATTTA
* * * *
46615 AAAAATAAATATGTTTACCAAACAGTTCAAATAGTAATAACTATATGAATAA
129 AAAAATAAATTTGTTTACCAAACAGTTCAAATAGTTATGACTATTTGAATAA
* * * * * * *
46667 TTATCTATTTCAAA-CGTTATGACCTTTTGTTTTGCCATAAAACAACTATATCAATTCATATAGG
1 TTATCTATTTCAAATCGTTATGACCTTTTGTTTTGTCATAAAACAATTGTTTCTATTCATACAAG
* * * * *
46731 CATATTCGAAATAAAATAATACTAACTTATTACTATTCCAAAAATTAATGAGTAAGAGATTT-AA
66 CTTATTCGAAATAAAATAATACTAATTTATTAATATTCCAAAAATTAATAAGTAAAAGATTTAAA
* * * *
46795 AAATGAATCTATTTACCAAACAAG-TCTAAATAGTTATGACTATTTGAACAA
131 AAATAAATTTGTTTACCAAAC-AGTTC-AAATAGTTATGACTATTTGAATAA
*
46846 TTATCTATTTCAAATTGTTATGA-CTTTTGTTTTG-CATAAAACAATTGTTTCTATTCAT-CAAG
1 TTATCTATTTCAAATCGTTATGACCTTTTGTTTTGTCATAAAACAATTGTTTCTATTCATACAAG
* * * *
46908 CTTTATTTC-AAATAAAATAATA-TAATTTACTAATATTCCAAAGATTAATAAATAAAA-ATAT-
66 C-TTA-TTCGAAATAAAATAATACTAATTTATTAATATTCCAAAAATTAATAAGTAAAAGATTTA
* **** * * * *
46969 ATAAATAAATTTGTTTTTTGAACACTTCAAAATAATTATGACCATTTGAACAA
129 AAAAATAAATTTGTTTACCAAACAGTTC-AAATAGTTATGACTATTTGAATAA
* *
47022 TTATCTACTATTCAAATCATTATGACCTTTTG-TTTGTCAATAAACCAAATTGTTTCTATTCATA
1 TTATCTA-T-TTCAAATCGTTATGACCTTTTGTTTTGTC-ATAAAAC-AATTGTTTCTATTCATA
* * * * *
47086 AAAGCTTATTCGAAAT-AAATAATACTAATTTATTAAAATTTCAAAAATTTATAAGTAAAATATT
62 CAAGCTTATTCGAAATAAAATAATACTAATTTATTAATATTCCAAAAATTAATAAGTAAAAGATT
*** * * *
47150 T-AAAAATAAATTTGTTTACCGAGTGAGTTCAAATA-ATATGACT-GTTAAATAA
127 TAAAAAATAAATTTGTTTACC-AAACAGTTCAAATAGTTATGACTATTTGAATAA
* * *
47202 TTTAT-T-TTTCAAAATCGTTATAATCC-TCTGTTTTGTAATAAAAC-ATTGCTTTCTTATTCAT
1 -TTATCTATTTC-AAATCGTTATGA-CCTTTTGTTTTGTCATAAAACAATTG-TTTC-TATTCAT
** * ** *
47263 ACAAAATTATTCAAAATAAAATAATACTAATTTATTAATATTTTAAAAATTAAT-AG---GAGAT
61 ACAAGCTTATTCGAAATAAAATAATACTAATTTATTAATATTCCAAAAATTAATAAGTAAAAGAT
* * *** * *
47324 TTAAAAACTAATATCTGTTTATTGGACCAATTCAAATAGTTATGACTATTTGAATAA
126 TTAAAAAATAA-ATTTGTTTA-CCAAACAGTTCAAATAGTTATGACTATTTGAATAA
* * * * * *
47381 TTATCTATCTCAAATCGGTATGA-TTTTTGTTTTGTCATAAAACAATTGTTTCTGTCCATACAAA
1 TTATCTATTTCAAATCGTTATGACCTTTTGTTTTGTCATAAAACAATTGTTTCTATTCATACAAG
* * * * ** * *
47445 CTTATTCGGAGTAAAATATTGCTAAACTAATAATATTCTAAAAATTAATAAG----AGATTTAAA
66 CTTATTCGAAATAAAATAATACTAATTTATTAATATTCCAAAAATTAATAAGTAAAAGATTTAAA
* * *** * * *
47506 AAATAAATATATTTGTTGAACCAATTCAAATAGTTAAGACTATTAT-AATAA
131 AAATAAATTTGTTT-ACCAAACAGTTCAAATAGTTATGACTATT-TGAATAA
* * * * *
47557 TTATCTATTTCAAATCATCATGACCTTTTGTTTAGTCATAAAATAATTG-TT-TAGTTCATACAT
1 TTATCTATTTCAAATCGTTATGACCTTTTGTTTTGTCATAAAACAATTGTTTCTA-TTCATACAA
* * * * *
47620 GCTTATTCGAAAT--AA-AATA-T--TTTATTAACATTCAAAAAATTAATAAG-CAAGGAATTAA
65 GCTTATTCGAAATAAAATAATACTAATTTATTAATATTCCAAAAATTAATAAGTAAAAGATTTAA
* * *
47678 AAAATAAATTTGTTTACCAAACAAGTTTAAATAGTTATGACTATTTAAACAA
130 AAAATAAATTTGTTTACCAAAC-AGTTCAAATAGTTATGACTATTTGAATAA
* * * * * *
47730 TTATC-ATTTTAAAATCGTTA-GACCTTTCGTTTTATCATAAAACAACTATTTC-ATTTCATAAA
1 TTATCTA-TTTCAAATCGTTATGACCTTTTGTTTTGTCATAAAACAATTGTTTCTA-TTCATACA
* * * * *
47792 AGCTTA-TCAAAAATAAAATAATATTACTTTATCAATATTTCAAAAATTAA
64 AGCTTATTC-GAAATAAAATAATACTAATTTATTAATATTCCAAAAATTAA
47842 GAAATAACAT
Statistics
Matches: 940, Mismatches: 181, Indels: 110
0.76 0.15 0.09
Matches are distributed among these distances:
170 22 0.02
172 30 0.03
173 78 0.08
174 2 0.00
175 9 0.01
176 139 0.15
177 143 0.15
178 149 0.16
179 213 0.23
180 49 0.05
181 75 0.08
182 27 0.03
183 4 0.00
ACGTcount: A:0.42, C:0.11, G:0.08, T:0.40
Consensus pattern (180 bp):
TTATCTATTTCAAATCGTTATGACCTTTTGTTTTGTCATAAAACAATTGTTTCTATTCATACAAG
CTTATTCGAAATAAAATAATACTAATTTATTAATATTCCAAAAATTAATAAGTAAAAGATTTAAA
AAATAAATTTGTTTACCAAACAGTTCAAATAGTTATGACTATTTGAATAA
Found at i:47639 original size:176 final size:177
Alignment explanation
Indices: 46608--47640 Score: 501
Period size: 178 Copynumber: 5.8 Consensus size: 177
46598 AATAAGTAAA
* ** * * * *
46608 AGATTTAAAAAATAA-ATATGTTTA-CCAAACAGTTCAAATAG-TAATAACTATATGAATAATTA
1 AGATTTAAAAAATAATATATATTTATTGAACCAATTCAAATAGTTAA-GACTATTTGAATAATTA
* * * * * * * * * * ** *
46670 TCTATTTCAAA-CGTTATGACCTTTTGTTTTGCCATAAAACAACTATATCAATTCATATAGGCAT
65 TCTATCTCAAATCGATATGA-CTTTTGTTTAGTCATAAAACAATTGTTTCAGTCCATACAAACTT
* * * *
46734 ATTCGAAATAAAATAATACT-AACTTATTACTATTCCAAAAATTAATGAGTAAG
129 ATTCGAAATAAAATATTACTAAAC-TAATAATATTCTAAAAATT-A--A-TAAG
* * ** * * * *
46787 AGATTT-AAAAATGA-ATCTATTTA-CCAAACAAGTCTAAATAGTTATGACTATTTGAACAATTA
1 AGATTTAAAAAATAATATATATTTATTGAACCAATTC-AAATAGTTAAGACTATTTGAATAATTA
* * * * * *
46849 TCTATTTCAAATTGTTATGACTTTTGTTTTG-CATAAAACAATTGTTTCTA-TTCAT-CAAGCTT
65 TCTATCTCAAATCGATATGACTTTTGTTTAGTCATAAAACAATTGTTTC-AGTCCATACAAAC-T
* ** * * * *
46911 TATTTC-AAATAAAATAATA-TAATTTACTAATATTCCAAAGATTAATAAAT
128 TA-TTCGAAATAAAATATTACTAAACTAATAATATTCTAAAAATTAAT-AAG
* ** * * * * * * * * *
46961 AAAAATATATAAATAA-ATTTGTTTTTTGAA-CACTTCAAAATAATTATGACCATTTGAACAATT
1 AGATTTA-AAAAATAATATATATTTATTGAACCAATTC-AAATAGTTAAGACTATTTGAATAATT
* * *
47024 ATCTACTATTCAAATC-ATTATGACCTTTTGTTT-GTCAATAAACCAAATTGTTTCTA-TTCATA
64 ATCTA-T-CTCAAATCGA-TATGA-CTTTTGTTTAGTC-ATAAAAC-AATTGTTTC-AGTCCATA
* ** * * *
47086 -AAAGCTTATTCGAAAT-AAATAATACTAATTTATTAAAATT-TCAAAAATTTATAAG
122 CAAA-CTTATTCGAAATAAAATATTACTAAACTAATAATATTCT-AAAAATTAATAAG
* * * * ** *** * * * * *
47141 TAAAATATTTAAAAATAA-ATTTGTTTACCGAGTGAGTTCAAATA-ATATGACT-GTTAAATAAT
1 --AGAT-TTAAAAAATAATATATATTTATTGAACCAATTCAAATAGTTAAGACTATTTGAATAA-
* * * * * * * *
47203 TTAT-T-TTTCAAAATCGTTATAATCCTCTGTTTTGTAATAAAAC-ATTGCTTTCTTA-TTCATA
62 TTATCTATCTC-AAATCGATATGA-CTTTTGTTTAGTCATAAAACAATTG-TTTC--AGTCCATA
* * * ** * * *
47264 CAAAATTATTCAAAATAAAATAATACTAATTTATTAATATTTTAAAAATTAATAGG
122 CAAACTTATTCGAAATAAAATATTACTAAACTAATAATATTCTAAAAATTAATAAG
* * * * *
47320 AGATTTAAAAACTAATATCTGTTTATTGGACCAATTCAAATAGTTATGACTATTTGAATAATTAT
1 AGATTTAAAAAATAATATATATTTATTGAACCAATTCAAATAGTTAAGACTATTTGAATAATTAT
* * * *
47385 CTATCTCAAATCGGTATGATTTTTGTTTTGTCATAAAACAATTGTTTCTGTCCATACAAACTTAT
66 CTATCTCAAATCGATATGACTTTTGTTTAGTCATAAAACAATTGTTTCAGTCCATACAAACTTAT
* * *
47450 TCGGAGTAAAATATTGCTAAACTAATAATATTCTAAAAATTAATAAG
131 TCGAAATAAAATATTACTAAACTAATAATATTCTAAAAATTAATAAG
*
47497 AGATTTAAAAAATAA-ATATATTTGTTGAACCAATTCAAATAGTTAAGACTATTAT-AATAATTA
1 AGATTTAAAAAATAATATATATTTATTGAACCAATTCAAATAGTTAAGACTATT-TGAATAATTA
* * * **
47560 TCTATTTCAAATC-ATCATGACCTTTTGTTTAGTCATAAAATAATTGTTT-AGTTCATACATGCT
65 TCTATCTCAAATCGAT-ATGA-CTTTTGTTTAGTCATAAAACAATTGTTTCAGTCCATACAAACT
47623 TATTCGAAATAAAATATT
128 TATTCGAAATAAAATATT
47641 TTATTAACAT
Statistics
Matches: 683, Mismatches: 125, Indels: 95
0.76 0.14 0.11
Matches are distributed among these distances:
173 1 0.00
174 6 0.01
175 1 0.00
176 142 0.21
177 141 0.21
178 143 0.21
179 123 0.18
180 39 0.06
181 56 0.08
182 26 0.04
183 5 0.01
ACGTcount: A:0.42, C:0.11, G:0.08, T:0.39
Consensus pattern (177 bp):
AGATTTAAAAAATAATATATATTTATTGAACCAATTCAAATAGTTAAGACTATTTGAATAATTAT
CTATCTCAAATCGATATGACTTTTGTTTAGTCATAAAACAATTGTTTCAGTCCATACAAACTTAT
TCGAAATAAAATATTACTAAACTAATAATATTCTAAAAATTAATAAG
Found at i:47854 original size:36 final size:36
Alignment explanation
Indices: 47807--47880 Score: 130
Period size: 36 Copynumber: 2.1 Consensus size: 36
47797 ATCAAAAATA
*
47807 AAATAATATTACTTTATCAATATTTCAAAAATTAAG
1 AAATAACATTACTTTATCAATATTTCAAAAATTAAG
*
47843 AAATAACATTACTTTATTAATATTTCAAAAATTAAG
1 AAATAACATTACTTTATCAATATTTCAAAAATTAAG
47879 AA
1 AA
47881 GTTGGAGATT
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
36 36 1.00
ACGTcount: A:0.51, C:0.08, G:0.03, T:0.38
Consensus pattern (36 bp):
AAATAACATTACTTTATCAATATTTCAAAAATTAAG
Found at i:48200 original size:170 final size:171
Alignment explanation
Indices: 47917--48241 Score: 431
Period size: 170 Copynumber: 1.9 Consensus size: 171
47907 TTATCAAATC
* * * * * *
47917 AGTTCAAATAGTTATGGCCATTTGAACAATTATCTATTTCAAATCATTTTGAACTTTTGTTTTGT
1 AGTTCAAATAATTATGACCATTTAAACAATTATATATTTCAAATCATTATGAACCTTTGTTTTGT
* * * * * *
47982 CATAAAACAATTATTTTTCATCATACAAGCCTAATTAGAATAAAATAATACTAGTTTATTAATAT
66 CATAAAACAATTATTTATCATCATACAAGCCTAATTAAAAGAAAATAATACTAATCTAATAATAT
*
48047 T-TCAAAAATTAATAAGTAGGAGATTATTTGTTTACTGAACT
131 TAT-AAAAATTAATAAGTAAGAGATTATTTGTTTACTGAACT
* *
48088 AGTTCAAATAATTATGACTATTTAAACAATTATATATTTCAAGTCATTAT-AACCTTTGTTTTGT
1 AGTTCAAATAATTATGACCATTTAAACAATTATATATTTCAAATCATTATGAACCTTTGTTTTGT
** *
48152 CATAAAACAATTATTTATGTTCATACAAG-CTTATTCAAAAGAAAATAATACTAATCTAATAATA
66 CATAAAACAATTATTTATCATCATACAAGCCTAATT-AAAAGAAAATAATACTAATCTAATAATA
* *
48216 TTATGAAAATTAATAATTAAGAGATT
130 TTATAAAAATTAATAAGTAAGAGATT
48242 TGAAAAATAA
Statistics
Matches: 132, Mismatches: 20, Indels: 5
0.84 0.13 0.03
Matches are distributed among these distances:
169 5 0.04
170 83 0.63
171 44 0.33
ACGTcount: A:0.41, C:0.10, G:0.09, T:0.40
Consensus pattern (171 bp):
AGTTCAAATAATTATGACCATTTAAACAATTATATATTTCAAATCATTATGAACCTTTGTTTTGT
CATAAAACAATTATTTATCATCATACAAGCCTAATTAAAAGAAAATAATACTAATCTAATAATAT
TATAAAAATTAATAAGTAAGAGATTATTTGTTTACTGAACT
Found at i:48566 original size:176 final size:175
Alignment explanation
Indices: 47917--48697 Score: 541
Period size: 180 Copynumber: 4.4 Consensus size: 175
47907 TTATCAAATC
** * * * *
47917 AGTTCAAATAGTTATGGCCATTTGAACAATTATCTATTTCAAATCATTTTGAA-CTTTTGTTTTG
1 AGTTCAAATAGTTATAACTATTT-AACAATTATATATTTC-AATCGTTAT-AACCTTTTGTTTTG
* * * * * *
47981 TCATAAAACAATTATTTTTCA-TCATACAAGCCTAATT-AGAATAAAATAATACTAGTTTATTAA
63 TCATAAAACAATTATTTAT-ATTAATA-TAGTCTTATTCAGAATAAAATAATACTAATTTATTAA
* ** * *
48044 TATT-TCAAAAATTAAT-A-AG---TAGGAGAT-TATTTGTTTACTGAACT
126 TATTAT-GAAAATTAATAAGAGATTTAAAAAATAAATTTGTTTACTGAACT
* * *
48088 AGTTCAAATAATTATGACTATTTAAACAATTATATATTTCAAGTCATTATAACC-TTTGTTTTGT
1 AGTTCAAATAGTTATAACTATTT-AACAATTATATATTTCAA-TCGTTATAACCTTTTGTTTTGT
* * * * * * *
48152 CATAAAACAATTATTTATGTTCATACAAG-CTTATTCAAAAGAAAATAATACTAATCTAATAATA
64 CATAAAACAATTATTTATATTAATA-TAGTCTTATTCAGAATAAAATAATACTAATTTATTAATA
* * ** *
48216 TTATGAAAATTAATAATTAAGAGATTTGAAAAATAAATTTATTTGTTGAACC
128 TTATGAAAA-T--TAA-TAAGAGATTTAAAAAATAAATTTGTTTACTGAACT
* * * *** ** *
48268 AGTTCAAATAGTTA-AGGCTATATGAATAATTAGCGATTTCAAATCGTTATATTCTTTTATTTTG
1 AGTTCAAATAGTTATA-ACTAT-TTAACAATTATATATTTC-AATCGTTATAACCTTTTGTTTTG
* * * * * * * *
48332 TCATAAAACAAATGTTTTTATTAATATAATTTTGTTTAGAATAAAATAATATTAATTTATTAATA
63 TCATAAAACAATTATTTATATTAATATAGTCTTATTCAGAATAAAATAATACTAATTTATTAATA
* **
48397 TTTTGAAAATTAATAAGAGATTTAAAAAATAAATTTGTTTACCAAACT
128 TTATGAAAATTAATAAGAGATTTAAAAAATAAATTTGTTTACTGAACT
* * * *
48445 AGTTCAATTAGTTATAACAATTTAACAATTATTTATTTCATATTGTTATAACCTTTTGTTTTGTC
1 AGTTCAAATAGTTATAACTATTTAACAATTATATATTTCA-ATCGTTATAACCTTTTGTTTTGTC
* * * * * *
48510 AGAAAACAATTATTTCTATTGATATAGTCTTATTCGGAATAAAGTAATGCTAATTTATTAATATT
65 ATAAAACAATTATTTATATTAATATAGTCTTATTCAGAATAAAATAATACTAATTTATTAATATT
* * * ** *
48575 CT-AACATTAATAAGTAATGAATTTAAAAAATGAATTTGTTGGCCT-AACC
130 ATGAAAATTAATAAG--A-G-ATTTAAAAAATAAATTTGTT-TACTGAACT
* * * * * * *
48624 A-TTGCAAATAGTTATGACTATTTGAATAATTATCTATTTTAAATCATTATGACCTTTTATTTTG
1 AGTT-CAAATAGTTATAACTATTT-AACAATTATATA-TTTCAATCGTTATAACCTTTTGTTTTG
*
48688 TCACAAAACA
63 TCATAAAACA
48698 CTTGTTTTTG
Statistics
Matches: 478, Mismatches: 102, Indels: 51
0.76 0.16 0.08
Matches are distributed among these distances:
169 5 0.01
170 69 0.14
171 44 0.09
173 3 0.01
174 1 0.00
175 13 0.03
176 88 0.18
177 45 0.09
178 7 0.01
179 43 0.09
180 89 0.19
181 71 0.15
ACGTcount: A:0.40, C:0.09, G:0.09, T:0.41
Consensus pattern (175 bp):
AGTTCAAATAGTTATAACTATTTAACAATTATATATTTCAATCGTTATAACCTTTTGTTTTGTCA
TAAAACAATTATTTATATTAATATAGTCTTATTCAGAATAAAATAATACTAATTTATTAATATTA
TGAAAATTAATAAGAGATTTAAAAAATAAATTTGTTTACTGAACT
Found at i:48683 original size:356 final size:351
Alignment explanation
Indices: 47916--48706 Score: 844
Period size: 356 Copynumber: 2.2 Consensus size: 351
47906 TTTATCAAAT
* * * *
47916 CAGTTCAAATAGTTATGGCCATTTGAACAATTATCTATTTCAAATCATTTTGAACTTTTGTTTTG
1 CAGTTCAAATAGTTATGGCTATTTGAATAATTATCTATTTCAAATCATTATGAACTTTTATTTTG
* * *
47981 TCATAAAACAATTATTTTTCATCATACAAGCCTAATTAGAATAAAATAATACTAGTTTATTAATA
66 TCATAAAACAATTGTTTTTCATAATACAAGCCTAATTAGAATAAAATAATACTAATTTATTAATA
** * * ** * *
48046 TTTCAAAAATTAATAAGTAGGAGATTATTTGTTTACTGAACTAGTTCAAATAATTATGACTATTT
131 TTTCAAAAATTAATAAGTAAAAAATAATTTGTTTACCAAACTAGTTCAAATAATTATAACAATTT
* *
48111 AAACAATTATATATTTCAAGTCATTATAACCTTTGTTTTGTCATAAAACAATTATTTATGTTCAT
196 AAACAATTATATATTTCAAGTCATTATAACCTTTGTTTTGTCAGAAAACAATTATTTATATTCAT
*
48176 ACAAGCTTATTCAAAAGAAAATAATACTAATCTAATAATATTATGAAAATTAATAATTAAGAGAT
261 ACAAGCTTATTCAAAAGAAAATAATACTAATCTAATAATATTATGAAAATTAATAAGTAAGAGAT
* * *
48241 TTGAAAAATAAATTTATTTGTTGAAC
326 TTAAAAAATAAATTTATTGGCTGAAC
* * * * * *
48267 CAGTTCAAATAGTTAAGGCTATATGAATAATTAGCGATTTCAAATCGTTAT-ATTCTTTTATTTT
1 CAGTTCAAATAGTTATGGCTATTTGAATAATTATCTATTTCAAATCATTATGA-ACTTTTATTTT
* * *** ** *
48331 GTCATAAAACAAATGTTTTT-ATTAATATAATTTTGTTTAGAATAAAATAATATTAATTTATTAA
65 GTCATAAAACAATTGTTTTTCA-TAATACAAGCCTAATTAGAATAAAATAATACTAATTTATTAA
** * *
48395 TATTTTGAAAATTAATAAGAGATTTAAAAAATAAATTTGTTTACCAAACTAGTTCAATTAGTTAT
129 TATTTCAAAAATTAAT-A-AG---TAAAAAAT-AATTTGTTTACCAAACTAGTTCAAATAATTAT
* **
48460 AACAATTT-AACAATTATTTATTTCATA-TTGTTATAACCTTTTGTTTTGTCAGAAAACAATTAT
188 AACAATTTAAACAATTATATATTTCA-AGTCATTATAACC-TTTGTTTTGTCAGAAAACAATTAT
* * * ** * * * * * * *
48523 TTCTATTGATA-TAGTCTTATTCGGAATAAAGTAATGCTAATTTATTAATATTCT-AACATTAAT
251 TTATATTCATACAAG-CTTATTCAAAAGAAAATAATACTAATCTAATAATATTATGAAAATTAAT
* *
48586 AAGTAATGA-ATTTAAAAAATGAATTTGTTGGCCT-AAC
315 AAGTAA-GAGATTTAAAAAATAAATTTATTGG-CTGAAC
* * *
48623 CA-TTGCAAATAGTTATGACTATTTGAATAATTATCTATTTTAAATCATTATGACCTTTTATTTT
1 CAGTT-CAAATAGTTATGGCTATTTGAATAATTATCTATTTCAAATCATTATGAACTTTTATTTT
* *
48687 GTCACAAAACACTTGTTTTT
65 GTCATAAAACAATTGTTTTT
48707 GAATTACAAG
Statistics
Matches: 358, Mismatches: 67, Indels: 25
0.80 0.15 0.06
Matches are distributed among these distances:
350 2 0.01
351 117 0.33
352 1 0.00
353 2 0.01
355 2 0.01
356 134 0.37
357 100 0.28
ACGTcount: A:0.39, C:0.10, G:0.09, T:0.42
Consensus pattern (351 bp):
CAGTTCAAATAGTTATGGCTATTTGAATAATTATCTATTTCAAATCATTATGAACTTTTATTTTG
TCATAAAACAATTGTTTTTCATAATACAAGCCTAATTAGAATAAAATAATACTAATTTATTAATA
TTTCAAAAATTAATAAGTAAAAAATAATTTGTTTACCAAACTAGTTCAAATAATTATAACAATTT
AAACAATTATATATTTCAAGTCATTATAACCTTTGTTTTGTCAGAAAACAATTATTTATATTCAT
ACAAGCTTATTCAAAAGAAAATAATACTAATCTAATAATATTATGAAAATTAATAAGTAAGAGAT
TTAAAAAATAAATTTATTGGCTGAAC
Found at i:48962 original size:18 final size:18
Alignment explanation
Indices: 48912--48966 Score: 60
Period size: 18 Copynumber: 3.1 Consensus size: 18
48902 TTAATATTGC
* *
48912 TATTTATTTAAGAAATAT
1 TATTAATTTAAGTAATAT
*
48930 T-TTAAATATAA-TAATAT
1 TATT-AATTTAAGTAATAT
48947 TATTAATTTAAGTAATAT
1 TATTAATTTAAGTAATAT
48965 TA
1 TA
48967 AATTGTAAAA
Statistics
Matches: 30, Mismatches: 4, Indels: 6
0.75 0.10 0.15
Matches are distributed among these distances:
17 14 0.47
18 16 0.53
ACGTcount: A:0.47, C:0.00, G:0.04, T:0.49
Consensus pattern (18 bp):
TATTAATTTAAGTAATAT
Found at i:51404 original size:25 final size:23
Alignment explanation
Indices: 51339--51405 Score: 79
Period size: 19 Copynumber: 3.0 Consensus size: 23
51329 TTTCCTTTGA
51339 ATATGTATAATTAATATCATAATC
1 ATAT-TATAATTAATATCATAATC
51363 ATATTA-AATT-AT-T-ATAATC
1 ATATTATAATTAATATCATAATC
51382 ATGATTATAATTCAATATCATAAT
1 AT-ATTATAATT-AATATCATAAT
51406 ATTGAATTAA
Statistics
Matches: 37, Mismatches: 0, Indels: 11
0.77 0.00 0.23
Matches are distributed among these distances:
19 8 0.22
20 5 0.14
21 6 0.16
22 4 0.11
23 4 0.11
24 5 0.14
25 5 0.14
ACGTcount: A:0.46, C:0.07, G:0.03, T:0.43
Consensus pattern (23 bp):
ATATTATAATTAATATCATAATC
Found at i:51479 original size:22 final size:23
Alignment explanation
Indices: 51446--51489 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 23
51436 AATACTATTA
*
51446 AATATTATTTAATATATAATAAG
1 AATATTATTTAATAAATAATAAG
51469 AATA-TATTTAATAAATAATAA
1 AATATTATTTAATAAATAATAA
51490 TTAGATAAAG
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
22 16 0.80
23 4 0.20
ACGTcount: A:0.57, C:0.00, G:0.02, T:0.41
Consensus pattern (23 bp):
AATATTATTTAATAAATAATAAG
Found at i:51538 original size:14 final size:15
Alignment explanation
Indices: 51501--51545 Score: 58
Period size: 14 Copynumber: 3.1 Consensus size: 15
51491 TAGATAAAGA
*
51501 TAATAATAATTTATT
1 TAATAATAATTCATT
51516 TAATAATAATTCA-T
1 TAATAATAATTCATT
*
51530 TATTAATAATT-ATT
1 TAATAATAATTCATT
51544 TA
1 TA
51546 TTTTAAATAT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
13 1 0.04
14 14 0.52
15 12 0.44
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.51
Consensus pattern (15 bp):
TAATAATAATTCATT
Found at i:51604 original size:22 final size:20
Alignment explanation
Indices: 51570--51611 Score: 50
Period size: 22 Copynumber: 2.0 Consensus size: 20
51560 TTATTTAATT
51570 TTAATAATCAATTTAAAATATA
1 TTAATAATCAA-TT-AAATATA
51592 TTAATAGAT-AATTAAATATA
1 TTAATA-ATCAATTAAATATA
51612 ATGCAAGTTG
Statistics
Matches: 19, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
20 7 0.37
21 2 0.11
22 8 0.42
23 2 0.11
ACGTcount: A:0.55, C:0.02, G:0.02, T:0.40
Consensus pattern (20 bp):
TTAATAATCAATTAAATATA
Found at i:51760 original size:14 final size:14
Alignment explanation
Indices: 51738--51767 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
51728 ATAAAACTAA
*
51738 ATAATTATATTATT
1 ATAAATATATTATT
51752 ATAAATATATTATT
1 ATAAATATATTATT
51766 AT
1 AT
51768 CTTAATTATT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (14 bp):
ATAAATATATTATT
Found at i:51927 original size:21 final size:20
Alignment explanation
Indices: 51880--51928 Score: 57
Period size: 18 Copynumber: 2.5 Consensus size: 20
51870 CATAATACTA
*
51880 ATTTTAATCTATTATAATTT
1 ATTTTAATCAATTATAATTT
51900 A-TTTAAT-AATTATAATTAAT
1 ATTTTAATCAATTATAATT--T
51920 ATTTTAATC
1 ATTTTAATC
51929 TTTATTAAAT
Statistics
Matches: 24, Mismatches: 1, Indels: 6
0.77 0.03 0.19
Matches are distributed among these distances:
18 9 0.38
19 6 0.25
20 3 0.12
21 6 0.25
ACGTcount: A:0.41, C:0.04, G:0.00, T:0.55
Consensus pattern (20 bp):
ATTTTAATCAATTATAATTT
Found at i:52210 original size:14 final size:14
Alignment explanation
Indices: 52191--52218 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
52181 TTATTTAAAT
52191 ATATAATAATATTA
1 ATATAATAATATTA
52205 ATATAATAATATTA
1 ATATAATAATATTA
52219 TTAGAATATT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (14 bp):
ATATAATAATATTA
Found at i:52213 original size:17 final size:17
Alignment explanation
Indices: 52188--52234 Score: 53
Period size: 17 Copynumber: 2.8 Consensus size: 17
52178 GGATTATTTA
52188 AATAT-ATAATAATATT
1 AATATAATAATAATATT
*
52204 AATATAATAATATTATT
1 AATATAATAATAATATT
*
52221 AGA-ATATTAATAAT
1 A-ATATAATAATAAT
52235 TTATTCAATA
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
16 5 0.19
17 20 0.77
18 1 0.04
ACGTcount: A:0.55, C:0.00, G:0.02, T:0.43
Consensus pattern (17 bp):
AATATAATAATAATATT
Found at i:52270 original size:19 final size:19
Alignment explanation
Indices: 52248--52286 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
52238 TTCAATAGCC
*
52248 ATTAATA-ATATTGTTAATT
1 ATTAATACA-ATTATTAATT
52267 ATTAATACAATTATTAATT
1 ATTAATACAATTATTAATT
52286 A
1 A
52287 ATGATTATTA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 17 0.94
20 1 0.06
ACGTcount: A:0.46, C:0.03, G:0.03, T:0.49
Consensus pattern (19 bp):
ATTAATACAATTATTAATT
Found at i:53118 original size:184 final size:178
Alignment explanation
Indices: 52556--53304 Score: 656
Period size: 184 Copynumber: 4.1 Consensus size: 178
52546 AATACAAAAT
* * ** * * *
52556 ATTGTTTTATGATAAAACAAAATATCATAACAATTTGAAATAAATAATTATTCT-AATAGTCATA
1 ATTGTTTTATGACAAAATAAAAGGTCATAA-TATTTGAAATAGATAATTATT-TAAATAGTAATA
* * * *
52620 ACTATTTGAACTTGCTT-GGT-AAACAGATTTATTTTTTAAATCTTTTACTTATTAATTTTTAGA
64 ACTATTTGAACTT-ATTCAGTAAAACATATTTATTTTTTAAATCTTTTACTTATTAA-TTTTGGA
* * * * *
52683 ATTTTAATAAATTAGTACTATTTTATTTCAAAAAAGCTTTTTATGAGCCAGAAACA
127 ATATTAATAAATTAGTATTA-TTTATTTCAAATAAGC-TTATATG-G-AAGAAACA
* * * * *
52739 ATTGGTTTAGTGACAAAATAAAAGGTCATAACGGATTTGAAATAGATAATTCTTCAACATAGTCA
1 ATTGTTTTA-TGACAAAATAAAAGGTCATAA--TATTTGAAATAGATAATTATTTAA-ATAGTAA
* * * *
52804 TAACTATTTGAACGTGTTCAGAAAAACATATTTATTTTTTAAA-ATTTTACTTATTAATTTTGGA
62 TAACTATTTGAACTTATTCAGTAAAACATATTTATTTTTTAAATCTTTTACTTATTAATTTTGGA
* *
52868 ATATTAATAAATTTTA-AATTATTTATTTCGAAATAAGCTTGCA-AT-GAACAAAGCCA
127 ATATTAATAAA--TTAGTATTATTTATTTC-AAATAAGCTT--ATATGGAAGAAA--CA
*
52924 ATTGGTTTTATGACAAAATAAAAGGTCATAATATTTTGAAATAGATAATTGTTTAAATAGTAATA
1 ATT-GTTTTATGACAAAATAAAAGGTCATAATA-TTTGAAATAGATAATTATTTAAATAGTAATA
* * * * *
52989 ACTATTTGAACTTATTCGGTAAAA-ATATTCT-TTTTCTAATTCTCTTACTCATTAATTTTTGGA
64 ACTATTTGAACTTATTCAGTAAAACATATT-TATTTTTTAAATCTTTTACTTATTAA-TTTTGGA
53052 ATATTAATAAATTAGTATTATCTTACTTTCAAATAGAGCTTATATGGAATTGAAACA
127 ATATTAATAAATTAGTATTAT-TTA-TTTCAAATA-AGCTTATATGGAA--GAAACA
* * * * * * *
53109 AGTGTTTTATTAGAAAAGAAAAGGTCATAATGATTTGAAATAGATAATTATTGAAATATTAATGA
1 ATTGTTTTATGACAAAATAAAAGGTCATAAT-ATTTGAAATAGATAATTATTTAAATAGTAATAA
* * * * **
53174 CTATTTGAACTTTTTTAGT-AAATATATTTATTTTTTAAATCTTTTACTTATTAATTATCAAATA
65 CTATTTGAACTTATTCAGTAAAACATATTTATTTTTTAAATCTTTTACTTATTAATTTTGGAATA
* * * * * * *
53238 TTAATTAATTAATATTATTTTAATTCGAATAAACTTGTAT-GATCAGAAATA
130 TTAATAAATTAGTATTA-TTTATTTCAAATAAGCTTATATGGA--AGAAACA
53289 ATTGTTTTATGACAAA
1 ATTGTTTTATGACAAA
53305 CAAAAAATCC
Statistics
Matches: 466, Mismatches: 68, Indels: 67
0.78 0.11 0.11
Matches are distributed among these distances:
180 20 0.04
181 7 0.02
182 23 0.05
183 88 0.19
184 161 0.35
185 90 0.19
186 52 0.11
187 25 0.05
ACGTcount: A:0.40, C:0.08, G:0.10, T:0.42
Consensus pattern (178 bp):
ATTGTTTTATGACAAAATAAAAGGTCATAATATTTGAAATAGATAATTATTTAAATAGTAATAAC
TATTTGAACTTATTCAGTAAAACATATTTATTTTTTAAATCTTTTACTTATTAATTTTGGAATAT
TAATAAATTAGTATTATTTATTTCAAATAAGCTTATATGGAAGAAACA
Found at i:53703 original size:425 final size:424
Alignment explanation
Indices: 53039--53809 Score: 943
Period size: 425 Copynumber: 1.8 Consensus size: 424
53029 TCTCTTACTC
*
53039 ATTAATTTTTGGAATATTAATAAATTAGTATTATCTTACTTTCAAATAGAGCTTATATGGAATTG
1 ATTAATTTTTGGAATATTAATAAATTAGTATTATCTTACTTTCAAATAGAGCTTATATGGAACTG
* * * * * * *
53104 AAACAAGTGTTTTATTAGAAAAGAAAAGGTCATAATGATTTGAAATAGATAATTATTGAAATATT
66 AAACAACTCTTTTATGACAAAACAAAAGGTCATAACGATTTGAAATAGATAATTATTCAAATATT
* **** * * *
53169 AATGACTATTTGAACTTTTTTAGTAAATATATTTATTTTTTAAATCTTTTACTTATTAATTATCA
131 AATAACTATTTGAACTAGAGTAGTAAATACA-TTATTTTTAAAATCTTTTACTTACTAATTATCA
* * * *
53234 AATATTAATTAATTAATATTATTTTAATTCGAATAAACTTGTATG-ATCAGAAATAATTGTTTTA
195 AATATTAATAAATTAATATTATTTTAATGCAAATAAACTTGTATGAAT-AGAAACAATTGTTTTA
** * *
53298 TGAC-AAACAAAAAATCCATAACATGTTTGAAATAAAATAATTGCTCAAATAGCCATAATGATTA
259 CAACAAAACAAAAAAT-CAT-A-ATATTTGAAAT-AAACAATTGC-CAAATAGCCATAATGATTA
* *
53362 GAACTTGTTTGGTAAACAGATTTATTTTCAAATAGGTAATTATTCAAATAGTCCTAATTATTTAA
319 GAACTAGTTTGATAAACAGATTTATTTTCAAATAGGTAATTATTCAAATAGTCCTAATTATTTAA
53427 ATTTGTTTAGTAAACAAAGTCATTTTTAAAATCTCTTCATT
384 ATTTGTTTAGTAAACAAAGTCATTTTTAAAATCTCTTCATT
* * **
53468 ATTAATTTTTGGATTATTAATAAATTA-TATTATTTTA-TTTTGAATA-AGCTTATAT-GAACTG
1 ATTAATTTTTGGAATATTAATAAATTAGTATTATCTTACTTTCAAATAGAGCTTATATGGAACTG
*
53529 AAACAACTCTTTTATGACAAATCAAAAGGTCATAACGATTTGAAATAGATAATTATTCAAAT-TG
66 AAACAACTCTTTTATGACAAAACAAAAGGTCATAACGATTTGAAATAGATAATTATTCAAATAT-
* * * * * *
53593 TCATAATTATTTGATCTAGAGTGGT-AA-ACA-TATTTTTAAAATTTTTTAGGCTTACTAATTGT
130 TAATAACTATTTGAACTAGAGTAGTAAATACATTATTTTTAAAATCTTTTA--CTTACTAATTAT
* *
53655 CGAAATCATTAATAAATTTAGTATTATTTT-ATGCAAATAAGCTTGTATGAATAGAAACAATTGT
193 C-AAAT-ATTAATAAA-TTAATATTATTTTAATGCAAATAAACTTGTATGAATAGAAACAATTGT
* * * *
53719 TTTACAACAAAACAAAAAGTCATAATATTTGAAATAAACAATTGCCAAATAGTCATAATTATTTG
255 TTTACAACAAAACAAAAAATCATAATATTTGAAATAAACAATTGCCAAATAGCCATAATGATTAG
* *
53784 AACTAGTTTGATATATAGATTTATTT
320 AACTAGTTTGATAAACAGATTTATTT
53810 GTCTAAATCA
Statistics
Matches: 289, Mismatches: 45, Indels: 24
0.81 0.13 0.07
Matches are distributed among these distances:
421 55 0.19
422 9 0.03
423 23 0.08
424 8 0.03
425 119 0.41
426 33 0.11
427 7 0.02
428 9 0.03
429 26 0.09
ACGTcount: A:0.41, C:0.08, G:0.10, T:0.41
Consensus pattern (424 bp):
ATTAATTTTTGGAATATTAATAAATTAGTATTATCTTACTTTCAAATAGAGCTTATATGGAACTG
AAACAACTCTTTTATGACAAAACAAAAGGTCATAACGATTTGAAATAGATAATTATTCAAATATT
AATAACTATTTGAACTAGAGTAGTAAATACATTATTTTTAAAATCTTTTACTTACTAATTATCAA
ATATTAATAAATTAATATTATTTTAATGCAAATAAACTTGTATGAATAGAAACAATTGTTTTACA
ACAAAACAAAAAATCATAATATTTGAAATAAACAATTGCCAAATAGCCATAATGATTAGAACTAG
TTTGATAAACAGATTTATTTTCAAATAGGTAATTATTCAAATAGTCCTAATTATTTAAATTTGTT
TAGTAAACAAAGTCATTTTTAAAATCTCTTCATT
Found at i:54024 original size:179 final size:177
Alignment explanation
Indices: 53656--54118 Score: 424
Period size: 179 Copynumber: 2.6 Consensus size: 177
53646 ACTAATTGTC
* * * * * * *
53656 GAAATCATTAATAAATTTAGTATTATTTTA-TGCAAATAAGCTTGTATGAATAGAAACAATTGTT
1 GAAA-CATTAATAAATTCA-TATTACTTTAGTTCGAATAAACTAGTATGAATCGAAA-AATTGTT
* ** *
53720 TTACAACAAAACAAAAAGTCATAAT-ATTTGAAATAAACAATTGCCAAATAGTCATAATTATTTG
63 GTATGACAAAACAAAAAGTCATAATGATTTGAAATAAATAATTGCCAAATAGTCATAATTATTTG
* * *
53784 AACTAGTTTGATATATAGATTTATTTGTCTAAATCAATTATTAATTTTTT
128 AACTAGTTAGATATACAGAATTATTTGTCTAAATCAATTATTAATTTTTT
* *
53834 GAAATATTAATATATT-AGTATTACTTTA-TTCCGAATAAACTTA-TATGAA-CGAAAACATTTG
1 GAAACATTAATAAATTCA-TATTACTTTAGTT-CGAATAAAC-TAGTATGAATCGAAAA-A-TTG
* * * *
53895 TTGTATGACAAAACAAAAAGTAATAATGATTTGAAATATATAATTGGTTCAAATAGT-ATAATTT
61 TTGTATGACAAAACAAAAAGTCATAATGATTTGAAATAAATAATT-G-CCAAATAGTCATAATTA
* ** *
53959 TTTGAACTAGTTAGGTGA-ACAGAATTATTT-T-TAAATCTCTTACTTATTTTTTTT
124 TTTGAACTAGTTAGAT-ATACAGAATTATTTGTCTAAATCAATTA-TTA-ATTTTTT
* * * * * *
54013 GAAACATTAATAAATTCATTTTATTTTAGTTCGAATAAGCTAGTATGAATTGAGAAATTGTTTTA
1 GAAACATTAATAAATTCATATTACTTTAGTTCGAATAAACTAGTATGAATCGAAAAATTGTTGTA
* * * *
54078 TGATAAGACAAAAGGTCATAATGGATTTGAAATAGATAATT
66 TGACAAAACAAAAAGTCATAAT-GATTTGAAATAAATAATT
54119 ATTCATATAG
Statistics
Matches: 234, Mismatches: 36, Indels: 29
0.78 0.12 0.10
Matches are distributed among these distances:
175 1 0.00
176 17 0.07
177 58 0.25
178 51 0.22
179 91 0.39
180 16 0.07
ACGTcount: A:0.41, C:0.08, G:0.12, T:0.40
Consensus pattern (177 bp):
GAAACATTAATAAATTCATATTACTTTAGTTCGAATAAACTAGTATGAATCGAAAAATTGTTGTA
TGACAAAACAAAAAGTCATAATGATTTGAAATAAATAATTGCCAAATAGTCATAATTATTTGAAC
TAGTTAGATATACAGAATTATTTGTCTAAATCAATTATTAATTTTTT
Found at i:54109 original size:357 final size:354
Alignment explanation
Indices: 53465--54111 Score: 754
Period size: 357 Copynumber: 1.8 Consensus size: 354
53455 AAATCTCTTC
* * * ** *
53465 ATTATTAATTTTTGGATTATTAATAAATTATATTATTTTATTTTGAATAAGCTTATATGAACTGA
1 ATTATTAATTTTTGAAATATTAATAAATTATATTACTTTATTCCGAATAAACTTATATGAACTGA
* * * * *
53530 AACAACTCTTTTATGACAAATCAAAAGGTCATAACGATTTGAAATAGATAATTATTCAAATTGTC
66 AACAACTCTTGTATGACAAAACAAAAAGTAATAACGATTTGAAATAGATAATTATTCAAATAGTC
* * * *
53595 ATAATTATTTGATCTAGAGTGGTAAACATATTTTTAAAATTTTTTAGGCTTACTAATTGTCGAAA
131 ATAATTATTTGAACTAGAGTGGTAAAAATATTTTTAAAATCTCTTA-GCTTACTAATTGTCGAAA
* *
53660 TCATTAATAAATTTAGTATTATTTTATGCAAATAAGCTTGTATGAATAGAAACAATTGTTTTACA
195 TCATTAATAAATTCAGTATTATTTTATGCAAATAAGCTAGTATGAATAGAAACAATTGTTTTACA
53725 ACAAAACAAAAAGTCATAATATTTGAAATAAACAATTGCCAAATAGTCATAATTATTTGAACTAG
260 ACAAAACAAAAAGTCATAATATTTGAAATAAACAATTGCCAAATAGTCATAATTATTTGAACTAG
53790 TTTGATATATAGATTTATTTGTCTAAATCA
325 TTTGATATATAGATTTATTTGTCTAAATCA
*
53820 ATTATTAATTTTTTGAAATATTAATATATTAGTATTACTTTATTCCGAATAAACTTATATGAAC-
1 ATTATTAA-TTTTTGAAATATTAATAAATTA-TATTACTTTATTCCGAATAAACTTATATGAACT
** * * * *
53884 GAAAACATTTGTTGTATGACAAAACAAAAAGTAATAATGATTTGAAATATATAATTGGTTCAAAT
64 G-AAACAACTCTTGTATGACAAAACAAAAAGTAATAACGATTTGAAATAGATAATT-ATTCAAAT
* * **
53949 AGT-ATAATTTTTTGAACTAG-TTAGGTGAACAGAATTATTTTT-AAATCTCTTA-CTTA-TTTT
127 AGTCATAATTATTTGAACTAGAGT-GGT-AA-A-AA-TATTTTTAAAATCTCTTAGCTTACTAAT
* * * * * * *
54009 TTTTGAAA-CATTAATAAATTCA-TTTTATTTTAGTTCGAATAAGCTAGTATGAATTGAGA-AAT
187 TGTCGAAATCATTAATAAATTCAGTATTATTTTA-TGCAAATAAGCTAGTATGAATAGAAACAAT
** * * *
54071 TGTTTTATGATAAGACAAAAGGTCATAATGGATTTGAAATA
251 TGTTTTACAACAAAACAAAAAGTCATAAT--ATTTGAAATA
54112 GATAATTATT
Statistics
Matches: 240, Mismatches: 40, Indels: 22
0.79 0.13 0.07
Matches are distributed among these distances:
355 44 0.18
356 55 0.23
357 109 0.45
358 15 0.06
359 1 0.00
360 9 0.04
361 7 0.03
ACGTcount: A:0.40, C:0.08, G:0.11, T:0.40
Consensus pattern (354 bp):
ATTATTAATTTTTGAAATATTAATAAATTATATTACTTTATTCCGAATAAACTTATATGAACTGA
AACAACTCTTGTATGACAAAACAAAAAGTAATAACGATTTGAAATAGATAATTATTCAAATAGTC
ATAATTATTTGAACTAGAGTGGTAAAAATATTTTTAAAATCTCTTAGCTTACTAATTGTCGAAAT
CATTAATAAATTCAGTATTATTTTATGCAAATAAGCTAGTATGAATAGAAACAATTGTTTTACAA
CAAAACAAAAAGTCATAATATTTGAAATAAACAATTGCCAAATAGTCATAATTATTTGAACTAGT
TTGATATATAGATTTATTTGTCTAAATCA
Found at i:54318 original size:180 final size:174
Alignment explanation
Indices: 53399--54725 Score: 694
Period size: 180 Copynumber: 7.4 Consensus size: 174
53389 TCAAATAGGT
* * * * ** * * *
53399 AATTATTCAAATAGTCCTAATTATTTAAATTTGTTTAGTAAACAAAGTCATTTTTAAAATCTCTT
1 AATTGTTCAAATAGTCATAACTATTTAAATTGGTTCGGCAAACAAATTCATTTTTTAAATC-CTT
* *
53464 CATTATTAATTTTTGGATTATTAATAAATTA-TATTATTTTATTTTGAATAAGCTTATATGAACT
65 -ATTATTAATTTTTGGAATATTAATAAATTAGTATTATTTTATTTTGAATAAGCTTGTATGAA-T
* * * * * *
53528 GAAACAACTCTTTTATGACAAATCAAAAGGTCATAACGATTTGAAATAGAT
128 AAAAAAATTGTTTTATGACAAA--AAAA-GTCATAATGATTT-AAATAGAC
* * * * * * *
53579 AATTATTCAAATTGTCATAATTATTT-GATCTAGAG-T-GGTAAAC--A-T-ATTTTTAAAATTT
1 AATTGTTCAAATAGTCATAACTATTTAAAT-T-G-GTTCGGCAAACAAATTCATTTTTTAAA-TC
* * * * * ***
53637 TTTAGGCTTACTAATTGTCGAAATCATTAATAAATTTAGTATTATTTTA-TGCAAATAAGCTTGT
62 CTTA---TTATTAATTTTTGGAAT-ATTAATAAA-TTAGTATTATTTTATTTTGAATAAGCTTGT
* ** *
53701 ATGAATAGAAACAATTGTTTTACAACAAAACAAAAAGTCATAAT-ATTTGAAATAAAC
122 ATGAATA-AAAAAATTGTTTTATGAC--AA-AAAAAGTCATAATGATTT-AAATAGAC
* * * * * * ** * * * * * *
53758 AATTG-CCAAATAGTCATAATTATTTGAACTAGTTTGATATATAGATTTATTTGTCTAAAT-C-A
1 AATTGTTCAAATAGTCATAACTATTTAAATTGGTTCGGCAAACAAATTCATTT-TTTAAATCCTT
* * * ** * * *
53820 ATTATTAATTTTTTGAAATATTAATATATTAGTATTACTTTATTCCGAATAAACTTATATGAACG
65 ATTATTAA-TTTTTGGAATATTAATAAATTAGTATTATTTTATTTTGAATAAGCTTGTATGAA-T
* * * * * *
53885 AAAACATTTGTTGTATGACAAAACAAAAAGTAATAATGATTTGAAATATAT
128 AAAAAAATTGTTTTATGAC--AA-AAAAAGTCATAATGATTT-AAATAGAC
* * * * * * **
53936 AATTGGTTCAAATAGT-ATAATTTTTTGAACTAGTTAGGTGAACAGAATT-A-TTTTTAAATCTC
1 AATT-GTTCAAATAGTCATAACTATTTAAATTGGTTCGGCAAACA-AATTCATTTTTTAAATC-C
* * * * * * *
53998 TTACTTATT-TTTTTTGAAACATTAATAAATTCA-TTTTATTTTAGTTCGAATAAGCTAGTATGA
63 TTA-TTATTAATTTTTGGAATATTAATAAATT-AGTATTATTTTATTTTGAATAAGCTTGTATGA
** * * *
54061 ATTGAGAAATTGTTTTATGATAAGACAAAAGGTCATAATGGATTTGAAATAGAT
126 ATAAAAAAATTGTTTTATGACAA-A-AAAA-GTCATAAT-GATTT-AAATAGAC
* * * * *
54115 AATTATTCATATAGTCTTAACTATTTGAATTGGTTCGGCAAACAAATTTATTTTTTAAATCCCTT
1 AATTGTTCAAATAGTCATAACTATTTAAATTGGTTCGGCAAACAAATTCATTTTTTAAAT-CCTT
* * *
54180 AGTTATTAATTTTTGGAATATTATTAGATTAGTATTGTTTTATTTTGAATAAGCTTGTATGAATA
65 A-TTATTAATTTTTGGAATATTAATAAATTAGTATTATTTTATTTTGAATAAGCTTGTATGAATA
* * * *
54245 GAAATAATTGTTTTATGACATTAAAAAATGTTATAATGA-TTAAAGTACAG
129 -AAAAAATTGTTTTATGACA--AAAAAA-GTCATAATGATTTAAA-TAGAC
* * * * * * *
54295 AATTGTTTAAATAGTCATAACTATTTAAACTGATTTGGTAAATAGATTCATTTTTTAAAT-CTT-
1 AATTGTTCAAATAGTCATAACTATTTAAATTGGTTCGGCAAACAAATTCATTTTTTAAATCCTTA
** * * * *
54358 TTATTAATTTTTAAAAGATTAATAAATTATTATTATTTTATTTCT-AATAATCATGTATG-ATAA
66 TTATTAATTTTTGGAATATTAATAAATTAGTATTATTTTATTT-TGAATAAGCTTGTATGAAT-A
* * *
54421 AAAAAATTGTTATATGACCAAACAAAAGGTGATAATGATTTGAAATAGAT
129 AAAAAATTGTTTTATGA-CAAA-AAAA-GTCATAATGATTT-AAATAGAC
* * * *** * * * *
54471 AATTGTTGAAAT-GACCATAATTATTTAAACTAATTTC-GCATATAGATTCACTTTTTAAATCAC
1 AATTGTTCAAATAG-TCATAACTATTTAAA-TTGGTTCGGCAAACAAATTCATTTTTTAAATC-C
*
54534 TTACTTATTAATTTTTGGAATATTAATAAATTAGAATTATTTTATTTTGAATAAGCTTGTATGAA
63 TTA-TTATTAATTTTTGGAATATTAATAAATTAGTATTATTTTATTTTGAATAAGCTTGTATGAA
** * *
54599 CTAAAGCAATTATTTTATGAC-AAAACA-TCATAATGATTTAAATAGAC
127 -TAAAAAAATTGTTTTATGACAAAAAAAGTCATAATGATTTAAATAGAC
* * * * * *** *
54646 AATTGTTCAAATGGTCGTAACTATCTGAATTTGTTCAATAAACAAATTTATTTTTTTAAACTCC-
1 AATTGTTCAAATAGTCATAACTATTTAAATTGGTTCGGCAAACAAATTCA-TTTTTTAAA-TCCT
54710 TACTTATTAAATTTTT
64 TA-TTATT-AATTTTT
54726 TATTTTGGAT
Statistics
Matches: 897, Mismatches: 183, Indels: 138
0.74 0.15 0.11
Matches are distributed among these distances:
174 6 0.01
175 75 0.08
176 157 0.18
177 82 0.09
178 103 0.11
179 140 0.16
180 209 0.23
181 83 0.09
182 35 0.04
183 6 0.01
184 1 0.00
ACGTcount: A:0.39, C:0.08, G:0.11, T:0.42
Consensus pattern (174 bp):
AATTGTTCAAATAGTCATAACTATTTAAATTGGTTCGGCAAACAAATTCATTTTTTAAATCCTTA
TTATTAATTTTTGGAATATTAATAAATTAGTATTATTTTATTTTGAATAAGCTTGTATGAATAAA
AAAATTGTTTTATGACAAAAAAAGTCATAATGATTTAAATAGAC
Found at i:54634 original size:176 final size:175
Alignment explanation
Indices: 53662--54658 Score: 597
Period size: 176 Copynumber: 5.6 Consensus size: 175
53652 TGTCGAAATC
*** * **
53662 ATTAATAAATTTAGTATTATTTTA-TGCAAATAAGCTTGTATGAATAGAAACAATTGTTTTACAA
1 ATTAATAAA-TTAGTATTATTTTATTTTGAATAAGCTTGTATGAATA-AAAAAATTGTTTTATGA
* * * * *
53726 CAAAACAAAAAGTCATAAT-ATTTGAAATAAACAATTG-CCAAAT-AGTCATAATTATTTGAACT
64 C--AA-AAAAAGTCATAATGATTT-AAATAGACAATTGTTCAAATGAGCCATAACTATTTAAACT
* * * *
53788 AGTTT-G-ATATATAGATTTA-TTTGTCTAAAT-C-AATTATTAATTTTTTGAAAT
125 AATTTCGCA-A-ATAGATTCACTTT-T-TAAATCCTTATTATTAA-TTTTTGGAAT
* * ** * * * * * *
53839 ATTAATATATTAGTATTACTTTATTCCGAATAAACTTATATGAACGAAAACATTTGTTGTATGAC
1 ATTAATAAATTAGTATTATTTTATTTTGAATAAGCTTGTATGAA-TAAAAAAATTGTTTTATGAC
* * * * * * *
53904 AAAACAAAAAGTAATAATGATTTGAAATATATAATTGGTTCAAAT-AG-TATAATTTTTTGAACT
65 --AA-AAAAAGTCATAATGATTT-AAATAGACAATT-GTTCAAATGAGCCATAACTATTTAAACT
* ** ** * * * *
53967 AGTTAGGTGAACAGAATT-A-TTTTTAAATCTCTTACTTATT-TTTTTTGAAAC
125 AATTTCGCAAATAG-ATTCACTTTTTAAATC-CTTA-TTATTAATTTTTGGAAT
* * * * ** * *
54018 ATTAATAAATTCA-TTTTATTTTAGTTCGAATAAGCTAGTATGAATTGAGAAATTGTTTTATGAT
1 ATTAATAAATT-AGTATTATTTTATTTTGAATAAGCTTGTATGAATAAAAAAATTGTTTTATGAC
* * * * * *
54082 AAGACAAAAGGTCATAATGGATTTGAAATAGATAATTATTCATAT-AGTCTTAACTATTTGAA-T
65 AA-A-AAAA-GTCATAAT-GATTT-AAATAGACAATTGTTCAAATGAGCCATAACTATTTAAACT
*** * * * *
54145 TGGTTCGGCAAACAAATTTATTTTTTAAATCCCTTAGTTATTAATTTTTGGAAT
125 AATTTC-GCAAATAGATTCACTTTTTAAAT-CCTTA-TTATTAATTTTTGGAAT
* * * *
54199 ATTATTAGATTAGTATTGTTTTATTTTGAATAAGCTTGTATGAATAGAAATAATTGTTTTATGAC
1 ATTAATAAATTAGTATTATTTTATTTTGAATAAGCTTGTATGAATA-AAAAAATTGTTTTATGAC
* * * * * *
54264 ATTAAAAAATGTTATAATGA-TTAAAGTACAGAATTGTTTAAAT-AGTCATAACTATTTAAACTG
65 A--AAAAAA-GTCATAATGATTTAAA-TAGACAATTGTTCAAATGAGCCATAACTATTTAAACTA
* * * ** *
54327 ATTTGGTAAATAGATTCATTTTTTAAAT-CTT-TTATTAATTTTTAAAAG
126 ATTTCGCAAATAGATTCACTTTTTAAATCCTTATTATTAATTTTTGGAAT
* * * *
54375 ATTAATAAATTATTATTATTTTATTTCT-AATAATCATGTATG-ATAAAAAAAATTGTTATATGA
1 ATTAATAAATTAGTATTATTTTATTT-TGAATAAGCTTGTATGAAT-AAAAAAATTGTTTTATGA
* * * *
54438 CCAAACAAAAGGTGATAATGATTTGAAATAGATAATTGTTGAAATGA-CCATAATTATTTAAACT
64 -CAAA-AAAA-GTCATAATGATTT-AAATAGACAATTGTTCAAATGAGCCATAACTATTTAAACT
*
54502 AATTTCGCATATAGATTCACTTTTTAAATCACTTACTTATTAATTTTTGGAAT
125 AATTTCGCAAATAGATTCACTTTTTAAATC-CTTA-TTATTAATTTTTGGAAT
* ** *
54555 ATTAATAAATTAGAATTATTTTATTTTGAATAAGCTTGTATGAACTAAAGCAATTATTTTATGAC
1 ATTAATAAATTAGTATTATTTTATTTTGAATAAGCTTGTATGAA-TAAAAAAATTGTTTTATGAC
*
54620 -AAAACA-TCATAATGATTTAAATAGACAATTGTTCAAATG
65 AAAAAAAGTCATAATGATTTAAATAGACAATTGTTCAAATG
54659 GTCGTAACTA
Statistics
Matches: 652, Mismatches: 126, Indels: 86
0.75 0.15 0.10
Matches are distributed among these distances:
174 2 0.00
175 49 0.08
176 133 0.20
177 69 0.11
178 59 0.09
179 109 0.17
180 132 0.20
181 70 0.11
182 27 0.04
183 1 0.00
184 1 0.00
ACGTcount: A:0.40, C:0.07, G:0.11, T:0.41
Consensus pattern (175 bp):
ATTAATAAATTAGTATTATTTTATTTTGAATAAGCTTGTATGAATAAAAAAATTGTTTTATGACA
AAAAAAGTCATAATGATTTAAATAGACAATTGTTCAAATGAGCCATAACTATTTAAACTAATTTC
GCAAATAGATTCACTTTTTAAATCCTTATTATTAATTTTTGGAAT
Found at i:55412 original size:357 final size:351
Alignment explanation
Indices: 54734--55848 Score: 833
Period size: 357 Copynumber: 3.1 Consensus size: 351
54724 TTTATTTTGG
* * * * * * * *
54734 ATAAGCTTTTATGAATTGAAACAATTGTTTTATGTCAAAACAAAAGGTCATAACG-ATTTTAAAA
1 ATAAGCTTGTATAAATAGAAACAATTGTTTTATGACAAAACAAAAGCTTATAACGAATTTGAATA
* * ** * * * * * * * * *
54798 AATAATTAATCAAATAGTCACAACTTTTTAAACTTGCTT-GGTAAACAAATTTATTTTTTCAAAT
66 GACAATTGTTCAAATAATAAGAACTATTTGAACTAG-TTCAGCAAACAAATTTATTGTTT-AAAT
* * * * * * ** * *
54862 CTTTTACTTATTAATTTTCCAAATGTTCATAAATTTGGATTATTTTATTCCAAATAAGCTTATAA
129 C---T-CTTATTAATTTTTCAAATATTAATAAATTAGTATTAATTTATTCTGAATAAGCTTGT-T
* * * * ** * *
54927 GACA-TGAAACAAATATTTTATGACTAAACAAAAGGTTTGAACT-ATTTGAAATAGATAATTATT
189 GA-ATTAAAACAACTGTTTTATGAC-AAAAAAAAGG-TCAAAATGATTTGAAGTAGATAATTATT
* *** * * * * * * * * *
54990 CTAATTGTTTTTACTATTTGAACTGGTT-TAGCAAACATATTTAATTTTTAAATCTCTTATTAAT
251 CTAATAGCCATAACTATTTGAAATGATTCGA-TAAATAAATTTATTTTTTAAATTTCTTATTAAT
55054 TTTTGAAATATTATTAAATTAGTATTATTTTTAATTGA
315 TTTTGAAATATTATTAAATTAGTATTA-TTTTAATTGA
* * * * *
55092 ATAGGCTTCTATGATTAGAAACAATTGTTTTATGACAAAACAAAA-CTTTTAAC-AATTTGAGAT
1 ATAAGCTTGTATAAATAGAAACAATTGTTTTATGACAAAACAAAAGCTTATAACGAATTTGA-AT
* * * * * * *
55155 TGATAATTGTTCAAATAGTTAGAATTATTTGAACTAGATT-GGTAAACAAATTTATTGTTTAAAT
65 AGACAATTGTTCAAATAATAAGAACTATTTGAACTAG-TTCAGCAAACAAATTTATTGTTTAAAT
* * * * *
55219 TTGTTACTTATTATTTTTGAAATATTAATCAATTAGTA-TAATTTTATTTTGAATAAGCTTGTAT
129 CTCTTA-TTA--ATTTTTCAAATATTAATAAATTAGTATTAA-TTTATTCTGAATAAGCTTGT-T
* * *
55283 G-ATTAAAAACAATTGTGTTT-TGACAAAATAAAAAGGTTATAATGATTTGCAA-TAGATAATTA
189 GAATT-AAAACAACTGT-TTTATGAC-AAA-AAAAAGGTCAAAATGATTTG-AAGTAGATAATTA
* * * * * * *
55345 TTC-AGATGGCCATAATTATTTTAACTGATTTGGTAAATAGATTTATTTTTTAAATTTCTTATTA
249 TTCTA-ATAGCCATAACTATTTGAAATGATTCGATAAATAAATTTATTTTTTAAATTTCTTATTA
** * *
55409 ATTTAGGAAATATTAATAAATTAGTATTATTTT-ATTCCA
313 ATTTTTGAAATATTATTAAATTAGTATTATTTTAATT-GA
* * ** * ** *
55448 TCTAAGCTTGTATTAACT-GAAACAATT-TTTTATGACAAATTAAAAGGTTATAACGTTTTTTAA
1 -ATAAGCTTGTA-TAAATAGAAACAATTGTTTTATGACAAAACAAAAGCTTATAACGAATTTGAA
* * *
55511 TAGACAATTGTTCAAATAATAATAACTATTTGAACTTGTTCAGCAAACAAATTTATTTTTTAAAT
64 TAGACAATTGTTCAAATAATAAGAACTATTTGAACTAGTTCAGCAAACAAATTTATTGTTTAAAT
*
55576 CTCTTATTAATTTTTCAAATGTTAATAAATTAGTATTAATTTATTCTGAATAAGCTTGTTGAATT
129 CTCTTATTAATTTTTCAAATATTAATAAATTAGTATTAATTTATTCTGAATAAGCTTGTTGAATT
* * * * *
55641 GAAACAACTGTTTTATGACTAAAAAATGGTCAAAATGATTTGAAGTATATAATTATTCTAATAGT
194 AAAACAACTGTTTTATGACAAAAAAAAGGTCAAAATGATTTGAAGTAGATAATTATTCTAATAGC
* * * *
55706 CTTAACTGTTTGAAATGATTCGATAGATAAATTTATTTTTTAAATCTCTTACTTATTAATTTTTT
259 CATAACTATTTGAAATGATTCGATAAATAAATTTATTTTTTAAA--T-TT-CTTATTAATTTTTG
* *
55771 TAATATTATGAAATTAGTATTATTTTAATATGA
320 AAATATTATTAAATTAGTATTATTTTAAT-TGA
* * *
55804 ATAAGCTTGTACAAACA-AAACAATTGTTTTATGACAAAAGAAAAG
1 ATAAGCTTGTATAAATAGAAACAATTGTTTTATGACAAAACAAAAG
55849 ATCATAACAA
Statistics
Matches: 601, Mismatches: 123, Indels: 69
0.76 0.16 0.09
Matches are distributed among these distances:
350 2 0.00
351 67 0.11
352 6 0.01
353 19 0.03
354 62 0.10
355 70 0.12
356 86 0.14
357 191 0.32
358 98 0.16
ACGTcount: A:0.39, C:0.08, G:0.10, T:0.43
Consensus pattern (351 bp):
ATAAGCTTGTATAAATAGAAACAATTGTTTTATGACAAAACAAAAGCTTATAACGAATTTGAATA
GACAATTGTTCAAATAATAAGAACTATTTGAACTAGTTCAGCAAACAAATTTATTGTTTAAATCT
CTTATTAATTTTTCAAATATTAATAAATTAGTATTAATTTATTCTGAATAAGCTTGTTGAATTAA
AACAACTGTTTTATGACAAAAAAAAGGTCAAAATGATTTGAAGTAGATAATTATTCTAATAGCCA
TAACTATTTGAAATGATTCGATAAATAAATTTATTTTTTAAATTTCTTATTAATTTTTGAAATAT
TATTAAATTAGTATTATTTTAATTGA
Found at i:55603 original size:176 final size:177
Alignment explanation
Indices: 54734--56077 Score: 771
Period size: 176 Copynumber: 7.5 Consensus size: 177
54724 TTTATTTTGG
* * * * *
54734 ATAAGCTTTTATGAA-TTGAAACAATTGTTTTATGTCAAAA-CAAAAGGTCATAACGATTTTAAA
1 ATAAGCTTGTAT-AACTAGAAACAATTGTTTTATGACAAAATCAAAAGGTTATAAC-ATTTGAAA
* * * * * * * * *
54797 -AAATAATTAATCAAATAGTCACAACTTTTTAAACTTG-CTTGGTAAACAAATTTATTTTTTCAA
64 TAGATAATTATTCAAATAGTTATAACTATTTGAACTTGATTTAGCAAACAAATTTATTTTTT-AA
** * * * *
54860 ATCTTTTACTTATTAATTTTCCAAATGTTCATAAATTTGGATTATTTTATTCCAA
128 ATC---T-CTTATTAATTTTTGAAATATTAATAAATTAGTATTATTTTATTCC-A
* * * *
54915 ATAAGCTTATA-AGAC-ATGAAACAAATATTTTATGACTAAA-CAAAAGGTT-TGAACTATTTGA
1 ATAAGCTTGTATA-ACTA-GAAACAATTGTTTTATGACAAAATCAAAAGGTTAT-AAC-ATTTGA
* * * * * * *
54976 AATAGATAATTATTCTAATTGTTTTTACTATTTGAAC-TGGTTTAGCAAACATATTTAATTTTTA
62 AATAGATAATTATTCAAATAGTTATAACTATTTGAACTTGATTTAGCAAACAAATTTATTTTTTA
* *
55040 AATCTCTTATTAATTTTTGAAATATTATTAAATTAGTATTATTTTTAATT-GA
127 AATCTCTTATTAATTTTTGAAATATTAATAAATTAGTATTA-TTTT-ATTCCA
* * * * * * *
55092 ATAGGCTTCTATGATTAGAAACAATTGTTTTATGACAAAA-CAAAA-CTTTTAACAATTTGAGAT
1 ATAAGCTTGTATAACTAGAAACAATTGTTTTATGACAAAATCAAAAGGTTATAAC-ATTTGAAAT
* * * * * * * *
55155 TGATAATTGTTCAAATAGTTAGAATTATTTGAACTAGA-TTGGTAAACAAATTTATTGTTTAAAT
65 AGATAATTATTCAAATAGTTATAACTATTTGAACTTGATTTAGCAAACAAATTTATTTTTTAAAT
* * * * **
55219 TTGTTACTTATTATTTTTGAAATATTAATCAATTAGTATAATTTTATTTTGA
130 CTCTTA-TTA--ATTTTTGAAATATTAATAAATTAGTATTATTTTA-TTCCA
* * * * * *
55271 ATAAGCTTGTATGATTAAAAACAATTGTGTTT-TGACAAAATAAAAAGGTTATAATGATTTGCAA
1 ATAAGCTTGTATAACTAGAAACAATTGT-TTTATGACAAAATCAAAAGGTTATAA-CATTTGAAA
* * ** * * * * * *
55335 TAGATAATTATTCAGATGGCCATAATTATTTTAAC-TGATTTGGTAAATAGATTTATTTTTTAAA
64 TAGATAATTATTCAAATAGTTATAACTATTTGAACTTGATTTAGCAAACAAATTTATTTTTTAAA
* **
55399 TTTCTTATTAATTTAGGAAATATTAATAAATTAGTATTATTTTATTCCA
129 TCTCTTATTAATTTTTGAAATATTAATAAATTAGTATTATTTTATTCCA
* * * **
55448 TCTAAGCTTGTATTAACT-GAAACAATT-TTTTATGAC-AAATTAAAAGGTTATAACGTTTTTTA
1 -ATAAGCTTGTA-TAACTAGAAACAATTGTTTTATGACAAAATCAAAAGGTTATAAC-ATTTGAA
* * * * *
55510 ATAGACAATTGTTCAAATAATAATAACTATTTGAACTTG-TTCAGCAAACAAATTTATTTTTTAA
63 ATAGATAATTATTCAAATAGTTATAACTATTTGAACTTGATTTAGCAAACAAATTTATTTTTTAA
* * * *
55574 ATCTCTTATTAATTTTTCAAATGTTAATAAATTAGTATTAATTTATTCTGA
128 ATCTCTTATTAATTTTTGAAATATTAATAAATTAGTATTATTTTATTC-CA
* * * * * * * *
55625 ATAAGCTTGT-TGAA-TTGAAACAACTGTTTTATGACTAAA--AAATGGTCAAAATGATTTGAAG
1 ATAAGCTTGTAT-AACTAGAAACAATTGTTTTATGACAAAATCAAAAGGTTATAA-CATTTGAAA
* * * * * *
55686 TATATAATTATTCTAATAGTCT-TAACTGTTTGAA-ATGA-TTCG-ATAGATAAATTTATTTTTT
64 TAGATAATTATTCAAATAGT-TATAACTATTTGAACTTGATTTAGCA-A-ACAAATTTATTTTTT
** *
55747 AAATCTCTTACTTATTAATTTTTTTAATATT-ATGAAATTAGTATTATTTTAATAT-GA
126 AAA--TC-T-CTTATTAATTTTTGAAATATTAAT-AAATTAGTATTATTTT-AT-TCCA
* * * * *
55804 ATAAGCTTGTACAAAC-A-AAACAATTGTTTTATGACAAAA-GAAAAGATCATAACAAATTGAAA
1 ATAAGCTTGTA-TAACTAGAAACAATTGTTTTATGACAAAATCAAAAGGTTATAAC-ATTTGAAA
* * * * * ** * ** *
55866 TAGATAATCATTTATATAGTTTTAACTATTTGAA-TTGGTTCGGTAATTAGATTTATTTTTTTTA
64 TAGATAATTATTCAAATAGTTATAACTATTTGAACTTGATTTAGCAAACAAATTTA--TTTTTTA
* * * * * * * *
55930 ATTTTTTTGGTTATTAAGTTTTGGAATATTATTAAATT-GCATTATTTTATTTCGA
127 A---ATCT-CTTATTAATTTTTGAAATATTAATAAATTAGTATTATTTTA-TTCCA
** * * * * *
55985 ATAAAATAGTATAAATAG-AACAAATTATTTGATGACAAAAT-AAAAGGTTATAATGATTTGAAA
1 ATAAGCTTGTATAACTAGAAAC-AATTGTTTTATGACAAAATCAAAAGGTTATAA-CATTTGAAA
* *
56048 TAGATAATTATTCAAATAGTCAAAACTATT
64 TAGATAATTATTCAAATAGTTATAACTATT
56078 GGAAATGTTT
Statistics
Matches: 905, Mismatches: 193, Indels: 129
0.74 0.16 0.11
Matches are distributed among these distances:
173 1 0.00
174 7 0.01
175 66 0.07
176 194 0.21
177 87 0.10
178 63 0.07
179 134 0.15
180 72 0.08
181 148 0.16
182 131 0.14
183 2 0.00
ACGTcount: A:0.39, C:0.08, G:0.10, T:0.43
Consensus pattern (177 bp):
ATAAGCTTGTATAACTAGAAACAATTGTTTTATGACAAAATCAAAAGGTTATAACATTTGAAATA
GATAATTATTCAAATAGTTATAACTATTTGAACTTGATTTAGCAAACAAATTTATTTTTTAAATC
TCTTATTAATTTTTGAAATATTAATAAATTAGTATTATTTTATTCCA
Found at i:56485 original size:41 final size:47
Alignment explanation
Indices: 56391--56487 Score: 125
Period size: 47 Copynumber: 2.2 Consensus size: 47
56381 TATAAACTAC
*
56391 ATTAATTATATCAATATAGTTATCTAAATTTATTTAATTACTTTATA
1 ATTAATAATATCAATATAGTTATCTAAATTTATTTAATTACTTTATA
* *
56438 ATTAATAATATTAATTTAGTTAT-TAAA-TTATTTAA-TA-TTTA-A
1 ATTAATAATATCAATATAGTTATCTAAATTTATTTAATTACTTTATA
56480 A-TAATAAT
1 ATTAATAAT
56488 TAAAGATTGA
Statistics
Matches: 47, Mismatches: 3, Indels: 6
0.84 0.05 0.11
Matches are distributed among these distances:
41 7 0.15
42 2 0.04
43 4 0.09
44 2 0.04
45 8 0.17
46 4 0.09
47 20 0.43
ACGTcount: A:0.44, C:0.03, G:0.02, T:0.51
Consensus pattern (47 bp):
ATTAATAATATCAATATAGTTATCTAAATTTATTTAATTACTTTATA
Found at i:56616 original size:56 final size:59
Alignment explanation
Indices: 56509--56649 Score: 139
Period size: 56 Copynumber: 2.4 Consensus size: 59
56499 TTGAAATATA
* * *
56509 ATTAATTTATATATAAAAATAGTTTCATTATATTATTAAATAATAATCAATA-TA-TATT
1 ATTAAATTATATAT-ATAATAATTTCATTATATTATTAAATAATAATCAATATTAGTATT
* * *
56567 CTTAAATTATATATATAATAATTT-ATTATATTA-TAAATTAAGTTA-CAATATTAGTTTTT
1 ATTAAATTATATATATAATAATTTCATTATATTATTAAA-TAA-TAATCAATATTAG-TATT
*
56626 ATTAAATTATAATAAATAATAATT
1 ATTAAATTAT-ATATATAATAATT
56650 ATATAATGTT
Statistics
Matches: 69, Mismatches: 8, Indels: 10
0.79 0.09 0.11
Matches are distributed among these distances:
55 4 0.06
56 17 0.25
57 12 0.17
58 12 0.17
59 12 0.17
60 12 0.17
ACGTcount: A:0.48, C:0.03, G:0.02, T:0.48
Consensus pattern (59 bp):
ATTAAATTATATATATAATAATTTCATTATATTATTAAATAATAATCAATATTAGTATT
Found at i:56689 original size:28 final size:28
Alignment explanation
Indices: 56632--56790 Score: 69
Period size: 29 Copynumber: 5.3 Consensus size: 28
56622 TTTTATTAAA
* *
56632 TTATAATAAATAATAATTATATAATGTT
1 TTATAATAAATAATAATAATATAATATT
56660 TTATAAATAAATAAT-ATAATACTAA-ATTT
1 TTAT-AATAAATAATAATAATA-TAATA-TT
* *
56689 TTACTTATTTAAATATTATAATTAATATATATATA
1 TTA--TA-ATAAATA--ATAA-TAATATA-ATATT
* *
56724 TTATTATATATAATTATAAT-ATATAATA-A
1 TTA-TA-ATA-AATAATAATAATATAATATT
*
56753 ATATAATATTAATTAA-AATAATATAATA-T
1 TTATAATA--AA-TAATAATAATATAATATT
56782 TTATAATAA
1 TTATAATAA
56791 TTATTTAATA
Statistics
Matches: 105, Mismatches: 10, Indels: 33
0.71 0.07 0.22
Matches are distributed among these distances:
27 4 0.04
28 17 0.16
29 38 0.36
30 4 0.04
31 12 0.11
32 1 0.01
33 6 0.06
34 9 0.09
35 13 0.12
36 1 0.01
ACGTcount: A:0.52, C:0.01, G:0.01, T:0.46
Consensus pattern (28 bp):
TTATAATAAATAATAATAATATAATATT
Found at i:56720 original size:16 final size:16
Alignment explanation
Indices: 56701--56788 Score: 53
Period size: 15 Copynumber: 5.6 Consensus size: 16
56691 ACTTATTTAA
56701 ATATTATAATTAATAT
1 ATATTATAATTAATAT
*
56717 ATA-TAT-ATTATTAT
1 ATATTATAATTAATAT
* *
56731 ATATAATTA-TAATAT
1 ATATTATAATTAATAT
*
56746 ATAATA-AATATAATAT
1 ATATTATAAT-TAATAT
*
56762 -TAATTA-AAATAATAT
1 AT-ATTATAATTAATAT
56777 AATATTTATAAT
1 -ATA-TTATAAT
56789 AATTATTTAA
Statistics
Matches: 54, Mismatches: 9, Indels: 16
0.68 0.11 0.20
Matches are distributed among these distances:
14 11 0.20
15 21 0.39
16 16 0.30
17 4 0.07
18 2 0.04
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (16 bp):
ATATTATAATTAATAT
Found at i:56726 original size:20 final size:19
Alignment explanation
Indices: 56701--56788 Score: 67
Period size: 20 Copynumber: 4.5 Consensus size: 19
56691 ACTTATTTAA
56701 ATATTATAATTAATAT-AT
1 ATATTATAATTAATATAAT
*
56719 ATA-TATTATTATATATAATT
1 ATATTATAATTA-ATATAA-T
*
56739 ATAATATATAATAAATATAAT
1 AT-AT-TATAATTAATATAAT
*
56760 ATTAATTA-AAATAATATAAT
1 A-T-ATTATAATTAATATAAT
56780 AT-TTATAAT
1 ATATTATAAT
56789 AATTATTTAA
Statistics
Matches: 56, Mismatches: 6, Indels: 16
0.72 0.08 0.21
Matches are distributed among these distances:
17 10 0.18
18 9 0.16
19 2 0.04
20 14 0.25
21 5 0.09
22 10 0.18
23 6 0.11
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (19 bp):
ATATTATAATTAATATAAT
Found at i:56794 original size:9 final size:9
Alignment explanation
Indices: 56703--56794 Score: 55
Period size: 9 Copynumber: 9.6 Consensus size: 9
56693 TTATTTAAAT
56703 ATTATAATTA
1 ATTATAA-TA
56713 ATATATATATA
1 AT-TATA-ATA
56724 TTATTATATATA
1 --ATTATA-ATA
56736 ATTATAAT-
1 ATTATAATA
56744 A-TATAATAA
1 ATTATAAT-A
*
56753 ATATAATATTA
1 AT-T-ATAATA
*
56764 ATTAAAATA
1 ATTATAATA
56773 A-TATAATA
1 ATTATAATA
*
56781 TTTATAATA
1 ATTATAATA
56790 ATTAT
1 ATTAT
56795 TTAATATTAA
Statistics
Matches: 66, Mismatches: 6, Indels: 21
0.71 0.06 0.23
Matches are distributed among these distances:
7 6 0.09
8 7 0.11
9 19 0.29
10 9 0.14
11 10 0.15
12 13 0.20
13 2 0.03
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (9 bp):
ATTATAATA
Found at i:56844 original size:28 final size:27
Alignment explanation
Indices: 56631--56912 Score: 90
Period size: 26 Copynumber: 10.1 Consensus size: 27
56621 TTTTTATTAA
*
56631 ATTATAATAAATAATAATT-ATATAATGT
1 ATTATTATAAATAAT-ATTAATATAAT-T
* *
56659 TTTATAAATAAATAATA-TAATACTAAATT
1 ATTAT-TATAAATAATATTAATA-T-AATT
*
56688 TTTACTTATTTAAATATTATAATTAATATATATAT
1 ATTA-TTA--TAAATA--AT-ATTAATATA-AT-T
* *
56723 ATTATTATATATAAT-TATAATAT-ATA
1 ATTATTATAAATAATAT-TAATATAATT
* * * *
56749 ATAAATAT-AATATTAATTAAAATAATAT
1 ATTATTATAAATAAT-ATTAATATAAT-T
*
56777 AATATT-TATAATAATTATTTAATATTAATT
1 ATTATTATA-AATAA-TA-TTAATA-TAATT
*
56807 A-T-TT-CAAATAATATTAACTATAATT
1 ATTATTATAAATAATATTAA-TATAATT
* *
56832 ATTATTATAAATATTATTAA-ATATTT
1 ATTATTATAAATAATATTAATATAATT
*
56858 AATA-TAT-AATAATATTAATTATAA-T
1 ATTATTATAAATAATATTAA-TATAATT
* * *
56883 ATT-TATATAAATATTAATAAT-TAAGT
1 ATTAT-TATAAATAATATTAATATAATT
56909 ATTA
1 ATTA
56913 ATATCCAATT
Statistics
Matches: 194, Mismatches: 26, Indels: 69
0.67 0.09 0.24
Matches are distributed among these distances:
24 10 0.05
25 23 0.12
26 35 0.18
27 23 0.12
28 26 0.13
29 29 0.15
30 14 0.07
31 10 0.05
32 5 0.03
33 3 0.02
34 7 0.04
35 9 0.05
ACGTcount: A:0.51, C:0.01, G:0.01, T:0.47
Consensus pattern (27 bp):
ATTATTATAAATAATATTAATATAATT
Found at i:56879 original size:40 final size:39
Alignment explanation
Indices: 56710--56901 Score: 114
Period size: 37 Copynumber: 5.2 Consensus size: 39
56700 AATATTATAA
*
56710 TTAATATAT-ATATATT-ATTAT--ATATAATTATAATAT
1 TTAATATATAATATATTAATTATAAATATTATTA-AATAT
* * *
56746 ATAATAAAT-ATAATATTAATTA-AAATAATA-T-AATAT
1 TTAATATATAAT-ATATTAATTATAAATATTATTAAATAT
* *
56782 TT-ATA-ATAAT-TATTTAA-TATTAATTATT-TCAAATAAT
1 TTAATATATAATATA-TTAATTA-TAAATATTATTAAAT-AT
*
56819 ATTAA-CTATAAT-TATT-ATTATAAATATTATTAAATAT
1 -TTAATATATAATATATTAATTATAAATATTATTAAATAT
56856 TTAATATATAATAATATTAATTAT-AATATTTATATAAATA-
1 TTAATATATAAT-ATATTAATTATAAATA-TTAT-TAAATAT
56896 TTAATA
1 TTAATA
56902 ATTAAGTATT
Statistics
Matches: 122, Mismatches: 12, Indels: 40
0.70 0.07 0.23
Matches are distributed among these distances:
33 4 0.03
34 6 0.05
35 10 0.08
36 22 0.18
37 23 0.19
38 16 0.13
39 20 0.16
40 15 0.12
41 6 0.05
ACGTcount: A:0.51, C:0.01, G:0.00, T:0.48
Consensus pattern (39 bp):
TTAATATATAATATATTAATTATAAATATTATTAAATAT
Found at i:57334 original size:17 final size:15
Alignment explanation
Indices: 57303--57332 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 15
57293 ATTTATTTAG
57303 TTTATATTTTAATAA
1 TTTATATTTTAATAA
57318 TTTATA-TTTAATAA
1 TTTATATTTTAATAA
57332 T
1 T
57333 AACTAATGTA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 9 0.60
15 6 0.40
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (15 bp):
TTTATATTTTAATAA
Found at i:57811 original size:26 final size:24
Alignment explanation
Indices: 57781--57835 Score: 58
Period size: 26 Copynumber: 2.2 Consensus size: 24
57771 ATATTATTGT
57781 AATTAGCTTA-TAATAAATTAATATA
1 AATTA-CTTATTAAT-AATTAATATA
*
57806 CAATTATTTATTTAATAATTAATATA
1 -AATTACTTA-TTAATAATTAATATA
57832 AATT
1 AATT
57836 TATATTATAT
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
25 7 0.27
26 15 0.58
27 4 0.15
ACGTcount: A:0.49, C:0.04, G:0.02, T:0.45
Consensus pattern (24 bp):
AATTACTTATTAATAATTAATATA
Found at i:57843 original size:27 final size:27
Alignment explanation
Indices: 57791--57852 Score: 76
Period size: 26 Copynumber: 2.3 Consensus size: 27
57781 AATTAGCTTA
57791 TAATAAATTAATATACAATTATTTAT-T
1 TAAT-AATTAATATACAATTATTTATAT
57818 TAATAATTAATATA-AATTTATATTATAT
1 TAATAATTAATATACAA-TTAT-TTATAT
57846 T-ATAATT
1 TAATAATT
57853 CTTAGTTATA
Statistics
Matches: 32, Mismatches: 0, Indels: 6
0.84 0.00 0.16
Matches are distributed among these distances:
25 2 0.06
26 14 0.44
27 14 0.44
28 2 0.06
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (27 bp):
TAATAATTAATATACAATTATTTATAT
Found at i:58446 original size:19 final size:20
Alignment explanation
Indices: 58422--58474 Score: 60
Period size: 19 Copynumber: 2.8 Consensus size: 20
58412 TTTATTAGTA
*
58422 ATTTATTATTATAAATTACT
1 ATTTATTATTATAAATTAAT
58442 A-TTA-TATTTATAAA-TAAT
1 ATTTATTA-TTATAAATTAAT
58460 ATTTATTATT-TAAAT
1 ATTTATTATTATAAAT
58475 ATTTATTTAA
Statistics
Matches: 28, Mismatches: 1, Indels: 9
0.74 0.03 0.24
Matches are distributed among these distances:
18 10 0.36
19 15 0.54
20 3 0.11
ACGTcount: A:0.43, C:0.02, G:0.00, T:0.55
Consensus pattern (20 bp):
ATTTATTATTATAAATTAAT
Found at i:59181 original size:22 final size:20
Alignment explanation
Indices: 59142--59184 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 20
59132 TTATTTCATT
59142 ATAAATATTTAATATAATTA
1 ATAAATATTTAATATAATTA
*
59162 ATAAATTATTTATTTATAATTA
1 ATAAA-TATTTA-ATATAATTA
59184 A
1 A
59185 GGGATAAATA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
20 5 0.25
21 6 0.30
22 9 0.45
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (20 bp):
ATAAATATTTAATATAATTA
Done.