Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D06
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: 68668488
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1920000 characters in sequence are not A, C, G, or T
File 2 of 230
Found at i:467469 original size:31 final size:31
Alignment explanation
Indices: 467433--467505 Score: 96
Period size: 31 Copynumber: 2.4 Consensus size: 31
467423 CAAAATAGTT
*
467433 ACTGAACTATTC-GAAAGTTTTCATTTAAGTC
1 ACTGAACTATTCAG-AAGTTTTCATTCAAGTC
*
467464 ACTGAACTATTCAGAAGTTTTTATTCAAGTC
1 ACTGAACTATTCAGAAGTTTTCATTCAAGTC
467495 ACT-AGACTATT
1 ACTGA-ACTATT
467506 ATAGTTTTTT
Statistics
Matches: 38, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
30 1 0.03
31 36 0.95
32 1 0.03
ACGTcount: A:0.33, C:0.16, G:0.12, T:0.38
Consensus pattern (31 bp):
ACTGAACTATTCAGAAGTTTTCATTCAAGTC
Found at i:475352 original size:42 final size:42
Alignment explanation
Indices: 475277--475480 Score: 284
Period size: 42 Copynumber: 4.8 Consensus size: 42
475267 ACGTCGCTAA
* * *
475277 CTTTTGCGGCGCTTACAGAAAAAAACGCCGCTAAAGAACATGTT
1 CTTTAGCGGCGCTT--AGGAAAAAACGCCGCTAAAGATCATGTT
475321 CTTTAGCGGCGCTTAGGAAAAAACGCCGCTAAAGATCATGTT
1 CTTTAGCGGCGCTTAGGAAAAAACGCCGCTAAAGATCATGTT
* * *
475363 CTTTAGCGGCGCTTGGGAGAAAACGCCGCTAAATATCATGTT
1 CTTTAGCGGCGCTTAGGAAAAAACGCCGCTAAAGATCATGTT
*
475405 CTTTAGCGGCGCTTAGGAAGAAAACGCCACTAAAGATCATGTT
1 CTTTAGCGGCGCTTAGGAA-AAAACGCCGCTAAAGATCATGTT
* *
475448 CTTTAGCGGCGCGT-GGTCAAAAACGCCGCTAAA
1 CTTTAGCGGCGCTTAGG-AAAAAACGCCGCTAAA
475481 AGTAGTGTTC
Statistics
Matches: 145, Mismatches: 13, Indels: 6
0.88 0.08 0.04
Matches are distributed among these distances:
42 97 0.67
43 35 0.24
44 13 0.09
ACGTcount: A:0.30, C:0.23, G:0.24, T:0.23
Consensus pattern (42 bp):
CTTTAGCGGCGCTTAGGAAAAAACGCCGCTAAAGATCATGTT
Found at i:475490 original size:42 final size:41
Alignment explanation
Indices: 475277--475504 Score: 253
Period size: 42 Copynumber: 5.4 Consensus size: 41
475267 ACGTCGCTAA
* * *
475277 CTTTTGCGGCGCTTACAGAAAAAAACGCCGCTAAAGAACATGTT
1 CTTTAGCGGCGCTT--AGGAAAAAACGCCGCTAAAG-TCATGTT
475321 CTTTAGCGGCGCTTAGGAAAAAACGCCGCTAAAGATCATGTT
1 CTTTAGCGGCGCTTAGGAAAAAACGCCGCTAAAG-TCATGTT
* * *
475363 CTTTAGCGGCGCTTGGGAGAAAACGCCGCTAAATATCATGTT
1 CTTTAGCGGCGCTTAGGAAAAAACGCCGCTAAA-GTCATGTT
*
475405 CTTTAGCGGCGCTTAGGAAGAAAACGCCACTAAAGATCATGTT
1 CTTTAGCGGCGCTTAGGAA-AAAACGCCGCTAAAG-TCATGTT
* *
475448 CTTTAGCGGCGCGT-GGTCAAAAACGCCGCTAAAAGT-AGTGTT
1 CTTTAGCGGCGCTTAGG-AAAAAACGCCGCT-AAAGTCA-TGTT
**
475490 CTTTAGTTGCGCTTA
1 CTTTAGCGGCGCTTA
475505 TTTCACAAAC
Statistics
Matches: 161, Mismatches: 16, Indels: 15
0.84 0.08 0.08
Matches are distributed among these distances:
41 1 0.01
42 109 0.68
43 38 0.24
44 13 0.08
ACGTcount: A:0.29, C:0.21, G:0.24, T:0.25
Consensus pattern (41 bp):
CTTTAGCGGCGCTTAGGAAAAAACGCCGCTAAAGTCATGTT
Found at i:475490 original size:85 final size:82
Alignment explanation
Indices: 475297--475504 Score: 283
Period size: 85 Copynumber: 2.5 Consensus size: 82
475287 GCTTACAGAA
** *
475297 AAAAACGCCGCTAAAGAACATGTTCTTTAGCGGCGCTTAGGAAAAAACGCCGCTAAAGATCATGT
1 AAAAACGCCGCTAAA-AGTATGTTCTTTAGCGGCGCTTAGGAAAAAACGCCACTAAAGATCATGT
* *
475362 TCTTTAGCGGCGCTTGGG
65 TCTTTAGCGGCGCGTGGC
475380 AGAAAACGCCGCTAAATA-TCATGTTCTTTAGCGGCGCTTAGGAAGAAAACGCCACTAAAGATCA
1 A-AAAACGCCGCTAAA-AGT-ATGTTCTTTAGCGGCGCTTAGGAA-AAAACGCCACTAAAGATCA
475444 TGTTCTTTAGCGGCGCGTGGTC
62 TGTTCTTTAGCGGCGCGTGG-C
**
475466 AAAAACGCCGCTAAAAGTAGTGTTCTTTAGTTGCGCTTA
1 AAAAACGCCGCTAAAAGTA-TGTTCTTTAGCGGCGCTTA
475505 TTTCACAAAC
Statistics
Matches: 112, Mismatches: 7, Indels: 10
0.87 0.05 0.08
Matches are distributed among these distances:
83 1 0.01
84 41 0.37
85 69 0.62
86 1 0.01
ACGTcount: A:0.30, C:0.21, G:0.24, T:0.25
Consensus pattern (82 bp):
AAAAACGCCGCTAAAAGTATGTTCTTTAGCGGCGCTTAGGAAAAAACGCCACTAAAGATCATGTT
CTTTAGCGGCGCGTGGC
Found at i:475521 original size:85 final size:85
Alignment explanation
Indices: 475298--475480 Score: 298
Period size: 85 Copynumber: 2.2 Consensus size: 85
475288 CTTACAGAAA
* * *
475298 AAAACGCCGCTAAAGAACATGTTCTTTAGCGGCGCTTAGGAA-AAAACGCCGCTAAAGATCATGT
1 AAAACGCCGCTAAATATCATGTTCTTTAGCGGCGCTTAGGAAGAAAACGCCACTAAAGATCATGT
* *
475362 TCTTTAGCGGCGCTTGGGAG
66 TCTTTAGCGGCGCGTGGCAG
475382 AAAACGCCGCTAAATATCATGTTCTTTAGCGGCGCTTAGGAAGAAAACGCCACTAAAGATCATGT
1 AAAACGCCGCTAAATATCATGTTCTTTAGCGGCGCTTAGGAAGAAAACGCCACTAAAGATCATGT
475447 TCTTTAGCGGCGCGTGGTCA-
66 TCTTTAGCGGCGCGTGG-CAG
475467 AAAACGCCGCTAAA
1 AAAACGCCGCTAAA
475481 AGTAGTGTTC
Statistics
Matches: 92, Mismatches: 5, Indels: 3
0.92 0.05 0.03
Matches are distributed among these distances:
84 40 0.43
85 51 0.55
86 1 0.01
ACGTcount: A:0.31, C:0.22, G:0.24, T:0.22
Consensus pattern (85 bp):
AAAACGCCGCTAAATATCATGTTCTTTAGCGGCGCTTAGGAAGAAAACGCCACTAAAGATCATGT
TCTTTAGCGGCGCGTGGCAG
Found at i:475978 original size:21 final size:21
Alignment explanation
Indices: 475954--476019 Score: 87
Period size: 21 Copynumber: 3.1 Consensus size: 21
475944 TCTATCGCTG
*
475954 CTTCTCTCGCTGCGGCCTCTA
1 CTTCTCTCGCTGCAGCCTCTA
* *
475975 CTTCTCTCGCTGTAGCCTCTG
1 CTTCTCTCGCTGCAGCCTCTA
* *
475996 CTTCCCTCGCTGCCGCCTCTA
1 CTTCTCTCGCTGCAGCCTCTA
476017 CTT
1 CTT
476020 TAAGTTGTTG
Statistics
Matches: 38, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 38 1.00
ACGTcount: A:0.05, C:0.44, G:0.17, T:0.35
Consensus pattern (21 bp):
CTTCTCTCGCTGCAGCCTCTA
Found at i:481515 original size:16 final size:16
Alignment explanation
Indices: 481494--481615 Score: 73
Period size: 16 Copynumber: 8.1 Consensus size: 16
481484 ATTAAGCTAC
481494 GTAAGTTATGTATTAT
1 GTAAGTTATGTATTAT
*
481510 GTAAGTTATTTATTAT
1 GTAAGTTATGTATTAT
481526 G-AA---A---ATTAT
1 GTAAGTTATGTATTAT
* *
481535 GTCAGTTGTGTATTAT
1 GTAAGTTATGTATTAT
* * *
481551 GAAAATTATG--CTAT
1 GTAAGTTATGTATTAT
* *
481565 GTAAGTTTTGTAAGTCAT
1 GTAAGTTATGT-A-TTAT
*
481583 ATAAGTTATGTATTAT
1 GTAAGTTATGTATTAT
*
481599 GTAAGTTATTTATTAT
1 GTAAGTTATGTATTAT
481615 G
1 G
481616 AAAATTAAGT
Statistics
Matches: 77, Mismatches: 18, Indels: 22
0.66 0.15 0.19
Matches are distributed among these distances:
9 6 0.08
10 1 0.01
12 1 0.01
14 10 0.13
15 2 0.03
16 45 0.58
17 1 0.01
18 11 0.14
ACGTcount: A:0.33, C:0.02, G:0.17, T:0.48
Consensus pattern (16 bp):
GTAAGTTATGTATTAT
Found at i:481533 original size:25 final size:25
Alignment explanation
Indices: 481505--481560 Score: 85
Period size: 25 Copynumber: 2.2 Consensus size: 25
481495 TAAGTTATGT
*
481505 ATTATGTAAGTTATTTATTATGAAA
1 ATTATGTAAGTTATGTATTATGAAA
* *
481530 ATTATGTCAGTTGTGTATTATGAAA
1 ATTATGTAAGTTATGTATTATGAAA
481555 ATTATG
1 ATTATG
481561 CTATGTAAGT
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
25 28 1.00
ACGTcount: A:0.36, C:0.02, G:0.16, T:0.46
Consensus pattern (25 bp):
ATTATGTAAGTTATGTATTATGAAA
Found at i:481607 original size:9 final size:9
Alignment explanation
Indices: 481562--481924 Score: 136
Period size: 9 Copynumber: 41.7 Consensus size: 9
481552 AAAATTATGC
481562 TATGTAAGT
1 TATGTAAGT
*
481571 TTTGTAAGT
1 TATGTAAGT
* *
481580 CATATAAGT
1 TATGTAAGT
481589 TATGT-A-T
1 TATGTAAGT
481596 TATGTAAGT
1 TATGTAAGT
*
481605 TAT-TTA-T
1 TATGTAAGT
* *
481612 TATGAAAAT
1 TATGTAAGT
*
481621 TAAGTAAGT
1 TATGTAAGT
*
481630 TATGTAATT
1 TATGTAAGT
481639 TATG-AA-T
1 TATGTAAGT
* **
481646 AAT-TAAAAA
1 TATGT-AAGT
*
481655 AATGTAAGT
1 TATGTAAGT
481664 TATGTAAG-
1 TATGTAAGT
481672 T-TGTAAGT
1 TATGTAAGT
481680 TATGTAAGT
1 TATGTAAGT
481689 TATGCATAA--
1 TATG--TAAGT
481698 TAT-TAA-T
1 TATGTAAGT
481705 TAAT-TAAGT
1 T-ATGTAAGT
*
481714 TATGTAATT
1 TATGTAAGT
*
481723 TATGTATAATAT
1 TATG--TAA-GT
481735 TAATGTAAGT
1 T-ATGTAAGT
*
481745 TATGTAATT
1 TATGTAAGT
481754 TATG-AA-T
1 TATGTAAGT
* **
481761 AAT-TAAAAA
1 TATGT-AAGT
*
481770 AATGTAAGT
1 TATGTAAGT
481779 TATGTAAG-
1 TATGTAAGT
481787 T-TGTAAGT
1 TATGTAAGT
481795 TATGTAAGT
1 TATGTAAGT
*
481804 TATGTATA-A
1 TATGTA-AGT
481813 TAT-TAA-T
1 TATGTAAGT
481820 TAAT-TAAGT
1 T-ATGTAAGT
* *
481829 TGTGTAATT
1 TATGTAAGT
*
481838 TATGTATAATAT
1 TATG--TAA-GT
*
481850 TAATGTAACT
1 T-ATGTAAGT
481860 TATGTAAG-
1 TATGTAAGT
481868 T-TGTAAGT
1 TATGTAAGT
*
481876 TATGCAAGT
1 TATGTAAGT
*
481885 TATGTATA-A
1 TATGTA-AGT
481894 TAT-TAA-T
1 TATGTAAGT
481901 TAAT-TAAGT
1 T-ATGTAAGT
481910 TATGTAAGT
1 TATGTAAGT
481919 TATGTA
1 TATGTA
481925 TAATACTAAT
Statistics
Matches: 274, Mismatches: 40, Indels: 80
0.70 0.10 0.20
Matches are distributed among these distances:
6 3 0.01
7 39 0.14
8 43 0.16
9 156 0.57
10 8 0.03
11 15 0.05
12 4 0.01
13 6 0.02
ACGTcount: A:0.40, C:0.01, G:0.15, T:0.44
Consensus pattern (9 bp):
TATGTAAGT
Found at i:481622 original size:25 final size:28
Alignment explanation
Indices: 481594--482123 Score: 116
Period size: 25 Copynumber: 19.1 Consensus size: 28
481584 TAAGTTATGT
* *
481594 ATTATGTAAGTTAT-TTA-TTATGAA-A
1 ATTAAGTAAGTTATGTAATTTATGAATA
481619 ATTAAGTAAGTTATGTAATTTATGAATA
1 ATTAAGTAAGTTATGTAATTTATGAATA
** *
481647 ATTAA--AA-AAATGTAAGTTATG--TA
1 ATTAAGTAAGTTATGTAATTTATGAATA
*
481670 AGTT--GTAAGTTATGTAAGTTATGCATAATATTA
1 A-TTAAGTAAGTTATGTAA-TT-T--ATGA-A-TA
* *
481703 ATTAATTAAGTTATGTAATTTATGTATAA
1 ATTAAGTAAGTTATGTAATTTATGAAT-A
481732 TATTAATGTAAGTTATGTAATTTATGAATA
1 -ATTAA-GTAAGTTATGTAATTTATGAATA
*
481762 ATTAAAAAAATGTAAGTTATGTAA-GT-TG--TA
1 ATT-----AA-GTAAGTTATGTAATTTATGAATA
* * *
481792 AGTTATGTAAGTTATGT-A-TAAT-ATTA
1 A-TTAAGTAAGTTATGTAATTTATGAATA
* * *
481818 ATTAATTAAGTTGTGTAATTTATGTATAA
1 ATTAAGTAAGTTATGTAATTTATGAAT-A
* *
481847 TATTAATGTAACTTATGTAA-GT-TG--TA
1 -ATTAA-GTAAGTTATGTAATTTATGAATA
* * * *
481873 AGTTATGCAAGTTATGT-A-TAAT-ATTA
1 A-TTAAGTAAGTTATGTAATTTATGAATA
* *
481899 ATTAATTAAGTTATGTAAGTTATG--T-
1 ATTAAGTAAGTTATGTAATTTATGAATA
* * *
481924 A-TAA-T-ACTAATGTAATTTTTGCCAA-A
1 ATTAAGTAAGTTATGTAATTTATG--AATA
481950 CATTTTAATGTAAGTTATGTAATTTATGAATA
1 -A--TTAA-GTAAGTTATGTAATTTATGAATA
*
481982 ATTAAAAAAATGTAAGTTATGTAA-GT-TG--TA
1 ATT-----AA-GTAAGTTATGTAATTTATGAATA
* * *
482012 AGTTATGTAAGTTATGT-A-TAAT-ATTA
1 A-TTAAGTAAGTTATGTAATTTATGAATA
* *
482038 ATTAATTAAGTTATGTAATTTATGTATAA
1 ATTAAGTAAGTTATGTAATTTATGAAT-A
* *
482067 TATTAATGTAAGTTATGT-A-TAAT-ATTA
1 -ATTAA-GTAAGTTATGTAATTTATGAATA
* *
482094 ATTAATTAAGTTATGTAATTTATGTATA
1 ATTAAGTAAGTTATGTAATTTATGAATA
482122 AT
1 AT
482124 ATTAATTAAT
Statistics
Matches: 371, Mismatches: 61, Indels: 143
0.65 0.11 0.25
Matches are distributed among these distances:
22 12 0.03
23 4 0.01
24 10 0.03
25 113 0.30
26 30 0.08
27 23 0.06
28 14 0.04
29 16 0.04
30 29 0.08
31 47 0.13
32 9 0.02
33 20 0.05
34 44 0.12
ACGTcount: A:0.41, C:0.01, G:0.14, T:0.45
Consensus pattern (28 bp):
ATTAAGTAAGTTATGTAATTTATGAATA
Found at i:481633 original size:34 final size:34
Alignment explanation
Indices: 481595--481673 Score: 88
Period size: 34 Copynumber: 2.3 Consensus size: 34
481585 AAGTTATGTA
** * *
481595 TTATGTAAGTTATTTATTATGAAAATTAA-GTAAG
1 TTATGTAAGTTATGAATAATGAAAA-AAATGTAAG
* *
481629 TTATGTAATTTATGAATAATTAAAAAAATGTAAG
1 TTATGTAAGTTATGAATAATGAAAAAAATGTAAG
481663 TTATGTAAGTT
1 TTATGTAAGTT
481674 GTAAGTTATG
Statistics
Matches: 37, Mismatches: 7, Indels: 2
0.80 0.15 0.04
Matches are distributed among these distances:
33 2 0.05
34 35 0.95
ACGTcount: A:0.43, C:0.00, G:0.14, T:0.43
Consensus pattern (34 bp):
TTATGTAAGTTATGAATAATGAAAAAAATGTAAG
Found at i:481678 original size:16 final size:16
Alignment explanation
Indices: 481657--481689 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
481647 ATTAAAAAAA
481657 TGTAAGTTATGTAAGT
1 TGTAAGTTATGTAAGT
481673 TGTAAGTTATGTAAGT
1 TGTAAGTTATGTAAGT
481689 T
1 T
481690 ATGCATAATA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.30, C:0.00, G:0.24, T:0.45
Consensus pattern (16 bp):
TGTAAGTTATGTAAGT
Found at i:481678 original size:50 final size:50
Alignment explanation
Indices: 481624--481835 Score: 165
Period size: 50 Copynumber: 3.9 Consensus size: 50
481614 TGAAAATTAA
*
481624 GTAAGTTATGTAATTTATGAATAAT-TAAAAAAATGTAAGTTATGTAAGTT
1 GTAAGTTATGTAAGTTATGAATAATATAAAAAAAT-TAAGTTATGTAAGTT
* * ** *
481674 GTAAGTTATGTAAGTTATGCATAATATTAATTAATTAAGTTATGTAATTTAT
1 GTAAGTTATGTAAGTTATGAATAATATAAAAAAATTAAGTTATGTAA-GT-T
*
481726 GTATAATATTAATGTAAGTTATGTAATTTATGAATAATTAAAAAAATGTAAGTTATGTAAGTT
1 G--TAA-GTT-ATGTAAGTTATG--A---AT-AAT-A-TAAAAAAAT-TAAGTTATGTAAGTT
* * ** *
481789 GTAAGTTATGTAAGTTATGTATAATATTAATTAATTAAGTTGTGTAA
1 GTAAGTTATGTAAGTTATGAATAATATAAAAAAATTAAGTTATGTAA
481836 TTTATGTATA
Statistics
Matches: 128, Mismatches: 18, Indels: 32
0.72 0.10 0.18
Matches are distributed among these distances:
50 46 0.36
51 13 0.10
52 3 0.02
53 3 0.02
54 5 0.04
55 2 0.02
56 12 0.09
59 12 0.09
60 2 0.02
61 5 0.04
62 3 0.02
63 3 0.02
64 7 0.05
65 12 0.09
ACGTcount: A:0.42, C:0.00, G:0.15, T:0.43
Consensus pattern (50 bp):
GTAAGTTATGTAAGTTATGAATAATATAAAAAAATTAAGTTATGTAAGTT
Found at i:481718 original size:34 final size:33
Alignment explanation
Indices: 481675--481788 Score: 117
Period size: 34 Copynumber: 3.5 Consensus size: 33
481665 ATGTAAGTTG
*
481675 TAAGTTATGTAAGTTATGCATAATATTAATTAAT
1 TAAGTTATGTAAGTTATGAATAATATTAA-TAAT
* * *
481709 TAAGTTATGTAATTTATGTATAATATTAAT--G
1 TAAGTTATGTAAGTTATGAATAATATTAATAAT
* * *
481740 TAAGTTATGTAATTTATGAATAAT-TAAAAAAAT
1 TAAGTTATGTAAGTTATGAATAATAT-TAATAAT
481773 GTAAGTTATGTAAGTT
1 -TAAGTTATGTAAGTT
481789 GTAAGTTATG
Statistics
Matches: 68, Mismatches: 8, Indels: 8
0.81 0.10 0.10
Matches are distributed among these distances:
30 1 0.01
31 25 0.37
33 1 0.01
34 41 0.60
ACGTcount: A:0.42, C:0.01, G:0.13, T:0.44
Consensus pattern (33 bp):
TAAGTTATGTAAGTTATGAATAATATTAATAAT
Found at i:481761 original size:115 final size:115
Alignment explanation
Indices: 481606--482085 Score: 618
Period size: 115 Copynumber: 4.3 Consensus size: 115
481596 TATGTAAGTT
*
481606 ATTTAT-TATGAAAATTAA-GTAAGTTATGTAATTTATGAATAATTAAAAAAATGTAAGTTATGT
1 ATTTATGTAT-AATATTAATGTAAGTTATGTAATTTATGAATAATTAAAAAAATGTAAGTTATGT
*
481669 AAGTTGTAAGTTATGTAAGTTATGCATAATATTAATTAATTAAGTTATGTA
65 AAGTTGTAAGTTATGTAAGTTATGTATAATATTAATTAATTAAGTTATGTA
481720 ATTTATGTATAATATTAATGTAAGTTATGTAATTTATGAATAATTAAAAAAATGTAAGTTATGTA
1 ATTTATGTATAATATTAATGTAAGTTATGTAATTTATGAATAATTAAAAAAATGTAAGTTATGTA
*
481785 AGTTGTAAGTTATGTAAGTTATGTATAATATTAATTAATTAAGTTGTGTA
66 AGTTGTAAGTTATGTAAGTTATGTATAATATTAATTAATTAAGTTATGTA
* * * * ** *** *
481835 ATTTATGTATAATATTAATGTAACTTATGTAAGTTGT-AAGTTATGCAAGTTATGTATA-ATAT-
1 ATTTATGTATAATATTAATGTAAGTTATGTAATTTATGAA-TAATTAAAAAAATGTA-AGTTATG
* * *
481897 TAA-TTAATTAAGTTATGTAAGTTATGTATAATACTAATGTAATT---TT-TGCCA
64 TAAGTT--GTAAGTTATGTAAGTTATGTATAATATTAAT-TAATTAAGTTATG-TA
*
481948 A---A--CAT--T-TTAATGTAAGTTATGTAATTTATGAATAATTAAAAAAATGTAAGTTATGTA
1 ATTTATGTATAATATTAATGTAAGTTATGTAATTTATGAATAATTAAAAAAATGTAAGTTATGTA
482005 AGTTGTAAGTTATGTAAGTTATGTATAATATTAATTAATTAAGTTATGTA
66 AGTTGTAAGTTATGTAAGTTATGTATAATATTAATTAATTAAGTTATGTA
482055 ATTTATGTATAATATTAATGTAAGTTATGTA
1 ATTTATGTATAATATTAATGTAAGTTATGTA
482086 TAATATTAAT
Statistics
Matches: 311, Mismatches: 31, Indels: 47
0.80 0.08 0.12
Matches are distributed among these distances:
104 6 0.02
105 62 0.20
106 6 0.02
107 6 0.02
108 4 0.01
110 2 0.01
112 4 0.01
113 6 0.02
114 19 0.06
115 190 0.61
116 6 0.02
ACGTcount: A:0.41, C:0.01, G:0.14, T:0.44
Consensus pattern (115 bp):
ATTTATGTATAATATTAATGTAAGTTATGTAATTTATGAATAATTAAAAAAATGTAAGTTATGTA
AGTTGTAAGTTATGTAAGTTATGTATAATATTAATTAATTAAGTTATGTA
Found at i:481793 original size:16 final size:16
Alignment explanation
Indices: 481772--481804 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
481762 ATTAAAAAAA
481772 TGTAAGTTATGTAAGT
1 TGTAAGTTATGTAAGT
481788 TGTAAGTTATGTAAGT
1 TGTAAGTTATGTAAGT
481804 T
1 T
481805 ATGTATAATA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.30, C:0.00, G:0.24, T:0.45
Consensus pattern (16 bp):
TGTAAGTTATGTAAGT
Found at i:481828 original size:34 final size:35
Alignment explanation
Indices: 481790--481940 Score: 144
Period size: 34 Copynumber: 4.0 Consensus size: 35
481780 ATGTAAGTTG
481790 TAAGTTATGTAAGTTATGTATAATATTAAT-TAAT
1 TAAGTTATGTAAGTTATGTATAATATTAATGTAAT
* *
481824 TAAGTTGTGTAATTTATGTATAATATTAATGTAACTTAT
1 TAAGTTATGTAAGTTATGTATAATATTAATGT-A---AT
*
481863 GTAAGTTGTAAGTTATGCAAGTTATGTATAATATTAAT-TAAT
1 -TAA---G----TTATGTAAGTTATGTATAATATTAATGTAAT
*
481905 TAAGTTATGTAAGTTATGTATAATACTAATGTAAT
1 TAAGTTATGTAAGTTATGTATAATATTAATGTAAT
481940 T
1 T
481941 TTTGCCAAAC
Statistics
Matches: 96, Mismatches: 7, Indels: 27
0.74 0.05 0.21
Matches are distributed among these distances:
34 52 0.54
35 6 0.06
36 1 0.01
38 1 0.01
39 2 0.02
40 3 0.03
41 3 0.03
42 2 0.02
43 1 0.01
45 1 0.01
46 1 0.01
47 23 0.24
ACGTcount: A:0.38, C:0.02, G:0.14, T:0.46
Consensus pattern (35 bp):
TAAGTTATGTAAGTTATGTATAATATTAATGTAAT
Found at i:481929 original size:81 final size:81
Alignment explanation
Indices: 481709--481938 Score: 322
Period size: 81 Copynumber: 2.8 Consensus size: 81
481699 ATTAATTAAT
* * * *
481709 TAAGTTATGTAATTTATGTATAATATTAA-T--GTAAGTTATGTAATTTATGAATAATTAAAAAA
1 TAAGTTATGTAAGTTATGTATAATATTAATTAATTAAGTTATGTAATTTATGTATAA-T--AATA
*
481771 ATGTAAGTTATGTAAGTTG
63 ATGTAACTTATGTAAGTTG
* *
481790 TAAGTTATGTAAGTTATGTATAATATTAATTAATTAAGTTGTGTAATTTATGTATAATATTAATG
1 TAAGTTATGTAAGTTATGTATAATATTAATTAATTAAGTTATGTAATTTATGTATAATAATAATG
481855 TAACTTATGTAAGTTG
66 TAACTTATGTAAGTTG
* * *
481871 TAAGTTATGCAAGTTATGTATAATATTAATTAATTAAGTTATGTAAGTTATGTATAATACTAATG
1 TAAGTTATGTAAGTTATGTATAATATTAATTAATTAAGTTATGTAATTTATGTATAATAATAATG
481936 TAA
66 TAA
481939 TTTTTGCCAA
Statistics
Matches: 135, Mismatches: 11, Indels: 6
0.89 0.07 0.04
Matches are distributed among these distances:
81 112 0.83
82 1 0.01
83 1 0.01
84 21 0.16
ACGTcount: A:0.40, C:0.01, G:0.14, T:0.44
Consensus pattern (81 bp):
TAAGTTATGTAAGTTATGTATAATATTAATTAATTAAGTTATGTAATTTATGTATAATAATAATG
TAACTTATGTAAGTTG
Found at i:482005 original size:9 final size:9
Alignment explanation
Indices: 481991--482119 Score: 71
Period size: 9 Copynumber: 14.6 Consensus size: 9
481981 AATTAAAAAA
481991 ATGTAAGTT
1 ATGTAAGTT
482000 ATGTAAG-T
1 ATGTAAGTT
482008 -TGTAAGTT
1 ATGTAAGTT
482016 ATGTAAGTT
1 ATGTAAGTT
*
482025 ATGTATA-AT
1 ATGTA-AGTT
482034 AT-TAA-TT
1 ATGTAAGTT
482041 AAT-TAAGTT
1 -ATGTAAGTT
*
482050 ATGTAATTT
1 ATGTAAGTT
*
482059 ATGTATAATATT
1 ATG--TAA-GTT
482071 AATGTAAGTT
1 -ATGTAAGTT
*
482081 ATGTATA-AT
1 ATGTA-AGTT
482090 AT-TAA-TT
1 ATGTAAGTT
482097 AAT-TAAGTT
1 -ATGTAAGTT
*
482106 ATGTAATTT
1 ATGTAAGTT
482115 ATGTA
1 ATGTA
482120 TAATATTAAT
Statistics
Matches: 98, Mismatches: 8, Indels: 28
0.73 0.06 0.21
Matches are distributed among these distances:
7 10 0.10
8 20 0.20
9 53 0.54
10 4 0.04
11 6 0.06
12 2 0.02
13 3 0.03
ACGTcount: A:0.39, C:0.00, G:0.14, T:0.47
Consensus pattern (9 bp):
ATGTAAGTT
Found at i:482010 original size:139 final size:137
Alignment explanation
Indices: 481796--482123 Score: 455
Period size: 139 Copynumber: 2.4 Consensus size: 137
481786 GTTGTAAGTT
* * * **
481796 ATGTAAGTTATGTATAATATTAATTAATTAAGTTGTGTAATTTATGTATAA-TATTAATGTAACT
1 ATGTAAGTTATGCATAACATT-ATTAATTAAGTTATGTAATTTATGTATAATTAAAAATGTAACT
481860 TATGTAAGTTGTAAGTTATGCAAGTTATGTATAATATTAATTAATTAAGTTATGTAAGTTATGTA
65 TATGTAAGTTGTAAGTTATGCAAGTTATGTATAATATTAATTAATTAAGTTATGTAAGTTATGTA
481925 TAATACTA
130 TAATACTA
* * *
481933 ATGTAATTTTTGCCA-AACATT-TTAATGTAAGTTATGTAATTTATGAATAATTAAAAAAATGTA
1 ATGTAAGTTATG-CATAACATTATTAAT-TAAGTTATGTAATTTATGTATAATT--AAAAATGTA
* * *
481996 AGTTATGTAAGTTGTAAGTTATGTAAGTTATGTATAATATTAATTAATTAAGTTATGTAATTTAT
62 ACTTATGTAAGTTGTAAGTTATGCAAGTTATGTATAATATTAATTAATTAAGTTATGTAAGTTAT
*
482061 GTATAATATTA
127 GTATAATACTA
* *
482072 ATGTAAGTTATGTATAATATTAATTAATTAAGTTATGTAATTTATGTATAAT
1 ATGTAAGTTATGCATAACATT-ATTAATTAAGTTATGTAATTTATGTATAAT
482124 ATTAATTAAT
Statistics
Matches: 166, Mismatches: 17, Indels: 13
0.85 0.09 0.07
Matches are distributed among these distances:
135 5 0.03
136 21 0.13
137 16 0.10
138 2 0.01
139 94 0.57
140 23 0.14
141 5 0.03
ACGTcount: A:0.40, C:0.02, G:0.13, T:0.45
Consensus pattern (137 bp):
ATGTAAGTTATGCATAACATTATTAATTAAGTTATGTAATTTATGTATAATTAAAAATGTAACTT
ATGTAAGTTGTAAGTTATGCAAGTTATGTATAATATTAATTAATTAAGTTATGTAAGTTATGTAT
AATACTA
Found at i:482013 original size:16 final size:16
Alignment explanation
Indices: 481992--482024 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
481982 ATTAAAAAAA
481992 TGTAAGTTATGTAAGT
1 TGTAAGTTATGTAAGT
482008 TGTAAGTTATGTAAGT
1 TGTAAGTTATGTAAGT
482024 T
1 T
482025 ATGTATAATA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.30, C:0.00, G:0.24, T:0.45
Consensus pattern (16 bp):
TGTAAGTTATGTAAGT
Found at i:482027 original size:50 final size:50
Alignment explanation
Indices: 481958--482111 Score: 139
Period size: 56 Copynumber: 3.0 Consensus size: 50
481948 AACATTTTAA
*
481958 TGTAAGTTATGTAATTTATGAATAAT-TAAAAAAATGTAAGTTATGTAAGT
1 TGTAAGTTATGTAAGTTATGAATAATATAAAAAAAT-TAAGTTATGTAAGT
* * ** *
482008 TGTAAGTTATGTAAGTTATGTATAATATTAATTAATTAAGTTATGTAATTT
1 TGTAAGTTATGTAAGTTATGAATAATATAAAAAAATTAAGTTATGTAA-GT
* * * **
482059 ATGTATAATATTAATGTAAGTTATGTATAATATTAATTAATTAAGTTATGTAA
1 -TG--TAA-GTT-ATGTAAGTTATGAATAATATAAAAAAATTAAGTTATGTAA
482112 TTTATGTATA
Statistics
Matches: 90, Mismatches: 7, Indels: 8
0.86 0.07 0.08
Matches are distributed among these distances:
50 36 0.40
51 7 0.08
52 2 0.02
54 3 0.03
55 2 0.02
56 40 0.44
ACGTcount: A:0.42, C:0.00, G:0.14, T:0.45
Consensus pattern (50 bp):
TGTAAGTTATGTAAGTTATGAATAATATAAAAAAATTAAGTTATGTAAGT
Found at i:482075 original size:22 final size:22
Alignment explanation
Indices: 482050--482100 Score: 86
Period size: 22 Copynumber: 2.4 Consensus size: 22
482040 TAATTAAGTT
482050 ATGTAATTTATGTATAATATTA
1 ATGTAATTTATGTATAATATTA
*
482072 ATGTAAGTTATGTATAATATTA
1 ATGTAATTTATGTATAATATTA
482094 AT-TAATT
1 ATGTAATT
482101 AAGTTATGTA
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
21 4 0.15
22 23 0.85
ACGTcount: A:0.41, C:0.00, G:0.10, T:0.49
Consensus pattern (22 bp):
ATGTAATTTATGTATAATATTA
Found at i:482117 original size:34 final size:34
Alignment explanation
Indices: 482072--482136 Score: 121
Period size: 34 Copynumber: 1.9 Consensus size: 34
482062 TATAATATTA
482072 ATGTAAGTTATGTATAATATTAATTAATTAAGTT
1 ATGTAAGTTATGTATAATATTAATTAATTAAGTT
*
482106 ATGTAATTTATGTATAATATTAATTAATTAA
1 ATGTAAGTTATGTATAATATTAATTAATTAA
482137 TTAAGTTATG
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 30 1.00
ACGTcount: A:0.43, C:0.00, G:0.09, T:0.48
Consensus pattern (34 bp):
ATGTAAGTTATGTATAATATTAATTAATTAAGTT
Found at i:482386 original size:18 final size:18
Alignment explanation
Indices: 482364--482406 Score: 50
Period size: 18 Copynumber: 2.4 Consensus size: 18
482354 AAAAATCAGA
482364 AAAAATAACAAAAAATTT
1 AAAAATAACAAAAAATTT
* ** *
482382 TAAAATTTCAACAAATTT
1 AAAAATAACAAAAAATTT
482400 AAAAATA
1 AAAAATA
482407 TTCATAAAAA
Statistics
Matches: 19, Mismatches: 6, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.65, C:0.07, G:0.00, T:0.28
Consensus pattern (18 bp):
AAAAATAACAAAAAATTT
Found at i:482719 original size:18 final size:18
Alignment explanation
Indices: 482696--482784 Score: 101
Period size: 18 Copynumber: 4.8 Consensus size: 18
482686 ATATATAAAT
*
482696 TTTAAGTAATGCAATATA
1 TTTAAGTAATGTAATATA
482714 TTTAAGTAATGTAAGTTATAAA
1 TTTAAGTAATGTAA--TAT--A
*
482736 TTTTAGTAA-GTAATATA
1 TTTAAGTAATGTAATATA
482753 TTTAAGTAATGTAATATA
1 TTTAAGTAATGTAATATA
*
482771 TTTTAGTAA-GTAAT
1 TTTAAGTAATGTAAT
482785 GTAATATATA
Statistics
Matches: 62, Mismatches: 4, Indels: 11
0.81 0.05 0.14
Matches are distributed among these distances:
17 14 0.23
18 29 0.47
19 3 0.05
20 3 0.05
21 4 0.06
22 9 0.15
ACGTcount: A:0.43, C:0.01, G:0.12, T:0.44
Consensus pattern (18 bp):
TTTAAGTAATGTAATATA
Found at i:482746 original size:17 final size:17
Alignment explanation
Indices: 482724--482784 Score: 86
Period size: 17 Copynumber: 3.5 Consensus size: 17
482714 TTTAAGTAAT
* *
482724 GTAAGTTATAAATTTTA
1 GTAAGTAATATATTTTA
*
482741 GTAAGTAATATATTTAA
1 GTAAGTAATATATTTTA
482758 GTAATGTAATATATTTTA
1 GTAA-GTAATATATTTTA
482776 GTAAGTAAT
1 GTAAGTAAT
482785 GTAATATATA
Statistics
Matches: 39, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
17 23 0.59
18 16 0.41
ACGTcount: A:0.43, C:0.00, G:0.13, T:0.44
Consensus pattern (17 bp):
GTAAGTAATATATTTTA
Found at i:482762 original size:39 final size:38
Alignment explanation
Indices: 482669--482784 Score: 148
Period size: 39 Copynumber: 3.0 Consensus size: 38
482659 AGCTAATTTT
*
482669 TATTTAAGTAATGTAATATATATAAATTTTAAGTAATGCAATA
1 TATTTAAGTAATGT-A-AT-TATAAATTTT-AGTAA-GTAATA
482712 TATTTAAGTAATGTAAGTTATAAATTTTAGTAAGTAATA
1 TATTTAAGTAATGTAA-TTATAAATTTTAGTAAGTAATA
482751 TATTTAAGTAATGTAA-TAT--ATTTTAGTAAGTAAT
1 TATTTAAGTAATGTAATTATAAATTTTAGTAAGTAAT
482785 GTAATATATA
Statistics
Matches: 71, Mismatches: 1, Indels: 10
0.87 0.01 0.12
Matches are distributed among these distances:
35 15 0.21
37 3 0.04
39 21 0.30
40 5 0.07
41 11 0.15
42 2 0.03
43 14 0.20
ACGTcount: A:0.44, C:0.01, G:0.11, T:0.44
Consensus pattern (38 bp):
TATTTAAGTAATGTAATTATAAATTTTAGTAAGTAATA
Found at i:482766 original size:22 final size:20
Alignment explanation
Indices: 482698--482793 Score: 69
Period size: 22 Copynumber: 4.8 Consensus size: 20
482688 ATATAAATTT
*
482698 TAAGTAATGCAATATATTTAAG
1 TAAGTAA-GTAATATATTT-AG
* *
482720 TAATGTAAGTTATAAATTT--
1 TAA-GTAAGTAATATATTTAG
482739 T-AGTAAGTAATATA-TT--
1 TAAGTAAGTAATATATTTAG
482755 TAAGTAATGTAATATATTTTAG
1 TAAGTAA-GTAATATA-TTTAG
482777 TAAGTAATGTAATATAT
1 TAAGTAA-GTAATATAT
482794 ACTGTAATTT
Statistics
Matches: 62, Mismatches: 5, Indels: 15
0.76 0.06 0.18
Matches are distributed among these distances:
16 3 0.05
17 15 0.24
18 9 0.15
19 1 0.02
20 2 0.03
21 1 0.02
22 27 0.44
23 4 0.06
ACGTcount: A:0.44, C:0.01, G:0.12, T:0.43
Consensus pattern (20 bp):
TAAGTAAGTAATATATTTAG
Found at i:486028 original size:114 final size:114
Alignment explanation
Indices: 485736--486125 Score: 593
Period size: 114 Copynumber: 3.4 Consensus size: 114
485726 TAAATTATTT
* * ** *
485736 TAAATCCTTGAGCATTAGCGGCGCTTTCCTAAAAACGCTGCTAAATCCTCGACAACTCAGAAAAC
1 TAAATCCCTGAGCATTAGCGGCGCTTACCTAAAAACGCCACTAAATCCCCGACAACTCAGAAAAC
*
485801 GGCGTCGTTGGTCTTAGGTATTTTTGCGGCGC-TTTCCCAAAACGCCGC
66 GGCGTCGTTGGTCTTAGGTATTTTTGCGGCGCTTTTCCAAAAACGCCGC
** * * *
485849 TAAATCCCTGAGCATTAGCGGCGCTTTTCTAAAAACGCCGCAAAATCCTCGACAACTCAGAAAAC
1 TAAATCCCTGAGCATTAGCGGCGCTTACCTAAAAACGCCACTAAATCCCCGACAACTCAGAAAAC
485914 GGCGTCGTTGGTCTTAGGTATTTTTGCGGCGCTTTTCCAAAAACGCCGC
66 GGCGTCGTTGGTCTTAGGTATTTTTGCGGCGCTTTTCCAAAAACGCCGC
* * * * *
485963 TAAAGCCCTAAGCATTAGCGGCGCTTACATAGAAACGCCACTAAATCCCCGACAGCTCAGAAAAC
1 TAAATCCCTGAGCATTAGCGGCGCTTACCTAAAAACGCCACTAAATCCCCGACAACTCAGAAAAC
* *
486028 GGCGTCGTTGGTCTTAGGTATTTTTGCGGCGCTTTCCCAAAAACGCCAC
66 GGCGTCGTTGGTCTTAGGTATTTTTGCGGCGCTTTTCCAAAAACGCCGC
* *
486077 TAAATCCCTGAGCATTAGCGGCGCTTACCTAGAAACGCCACTAATTCCC
1 TAAATCCCTGAGCATTAGCGGCGCTTACCTAAAAACGCCACTAAATCCC
486126 AAACACGCCG
Statistics
Matches: 255, Mismatches: 21, Indels: 1
0.92 0.08 0.00
Matches are distributed among these distances:
113 93 0.36
114 162 0.64
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (114 bp):
TAAATCCCTGAGCATTAGCGGCGCTTACCTAAAAACGCCACTAAATCCCCGACAACTCAGAAAAC
GGCGTCGTTGGTCTTAGGTATTTTTGCGGCGCTTTTCCAAAAACGCCGC
Found at i:496737 original size:30 final size:30
Alignment explanation
Indices: 496701--496763 Score: 126
Period size: 30 Copynumber: 2.1 Consensus size: 30
496691 AAAAAAATTG
496701 GGTAAGACTACCCAACTTTCATACTATCAA
1 GGTAAGACTACCCAACTTTCATACTATCAA
496731 GGTAAGACTACCCAACTTTCATACTATCAA
1 GGTAAGACTACCCAACTTTCATACTATCAA
496761 GGT
1 GGT
496764 CAATGGATTT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 33 1.00
ACGTcount: A:0.35, C:0.25, G:0.13, T:0.27
Consensus pattern (30 bp):
GGTAAGACTACCCAACTTTCATACTATCAA
Found at i:497223 original size:27 final size:27
Alignment explanation
Indices: 497187--497240 Score: 90
Period size: 27 Copynumber: 2.0 Consensus size: 27
497177 TTTAACTTGT
*
497187 CCCTCATTAAATTAGTATAGCTTTTTC
1 CCCTCATTAAATTAGTAAAGCTTTTTC
*
497214 CCCTGATTAAATTAGTAAAGCTTTTTC
1 CCCTCATTAAATTAGTAAAGCTTTTTC
497241 TTTTTGGTCG
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.28, C:0.20, G:0.09, T:0.43
Consensus pattern (27 bp):
CCCTCATTAAATTAGTAAAGCTTTTTC
Found at i:500540 original size:19 final size:19
Alignment explanation
Indices: 500501--500540 Score: 55
Period size: 19 Copynumber: 2.1 Consensus size: 19
500491 TAAATTTTAT
*
500501 ATTTTTAAAAAAATTATAA
1 ATTTTTAAAAAAATTAAAA
500520 ATTTTT-AAAAAATCTAAAA
1 ATTTTTAAAAAAAT-TAAAA
500539 AT
1 AT
500541 ATATAAAAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 7 0.37
19 12 0.63
ACGTcount: A:0.57, C:0.03, G:0.00, T:0.40
Consensus pattern (19 bp):
ATTTTTAAAAAAATTAAAA
Found at i:500553 original size:27 final size:27
Alignment explanation
Indices: 500509--500560 Score: 70
Period size: 27 Copynumber: 1.9 Consensus size: 27
500499 ATATTTTTAA
**
500509 AAAAATTATAAATTTTTAA-AAAATCT
1 AAAAATTATAAAAATTTAATAAAATCT
500535 AAAAATATATAAAAATTTAATAAAAT
1 AAAAAT-TATAAAAATTTAATAAAAT
500561 AATAATTTTG
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
26 6 0.27
27 11 0.50
28 5 0.23
ACGTcount: A:0.63, C:0.02, G:0.00, T:0.35
Consensus pattern (27 bp):
AAAAATTATAAAAATTTAATAAAATCT
Found at i:502318 original size:22 final size:20
Alignment explanation
Indices: 502281--502320 Score: 53
Period size: 22 Copynumber: 1.9 Consensus size: 20
502271 TTATGTAAAA
*
502281 ATATATAGTATTTTAGATCT
1 ATATATAGTATATTAGATCT
502301 ATATGATAGATATATTAGAT
1 ATAT-ATAG-TATATTAGAT
502321 TAGTTTCAGA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 4 0.24
21 4 0.24
22 9 0.53
ACGTcount: A:0.40, C:0.03, G:0.12, T:0.45
Consensus pattern (20 bp):
ATATATAGTATATTAGATCT
Found at i:507241 original size:12 final size:11
Alignment explanation
Indices: 507214--507247 Score: 50
Period size: 11 Copynumber: 3.0 Consensus size: 11
507204 TATATATATT
*
507214 TAAAAATTATA
1 TAAAAATAATA
507225 TAAAAATAATA
1 TAAAAATAATA
507236 TAAAAAATAATA
1 T-AAAAATAATA
507248 CGGGCAAATC
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
11 11 0.52
12 10 0.48
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (11 bp):
TAAAAATAATA
Found at i:507757 original size:18 final size:19
Alignment explanation
Indices: 507736--507776 Score: 66
Period size: 19 Copynumber: 2.2 Consensus size: 19
507726 AAATAATTTT
*
507736 TTTTATAAAT-ATTTTGAA
1 TTTTAAAAATCATTTTGAA
507754 TTTTAAAAATCATTTTGAA
1 TTTTAAAAATCATTTTGAA
507773 TTTT
1 TTTT
507777 TGAAAATTAT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
18 9 0.43
19 12 0.57
ACGTcount: A:0.37, C:0.02, G:0.05, T:0.56
Consensus pattern (19 bp):
TTTTAAAAATCATTTTGAA
Found at i:507788 original size:20 final size:19
Alignment explanation
Indices: 507736--507788 Score: 63
Period size: 20 Copynumber: 2.8 Consensus size: 19
507726 AAATAATTTT
*
507736 TTTTATAAA-TATTTTGAA
1 TTTTAAAAATTATTTTGAA
*
507754 TTTTAAAAATCATTTTGAA
1 TTTTAAAAATTATTTTGAA
*
507773 TTTTTGAAAATTATTT
1 -TTTTAAAAATTATTT
507789 CAGTTTTTTT
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
18 8 0.28
19 8 0.28
20 13 0.45
ACGTcount: A:0.38, C:0.02, G:0.06, T:0.55
Consensus pattern (19 bp):
TTTTAAAAATTATTTTGAA
Found at i:514554 original size:25 final size:25
Alignment explanation
Indices: 514521--514570 Score: 66
Period size: 25 Copynumber: 2.0 Consensus size: 25
514511 GTTTAAATAA
*
514521 TTTTGAATTTTTGTAA-GTTATAATT
1 TTTTGAATTTTT-TAATGTAATAATT
*
514546 TTTTTAATTTTTTAATGTAATAATT
1 TTTTGAATTTTTTAATGTAATAATT
514571 CATTTTACTT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
24 3 0.14
25 19 0.86
ACGTcount: A:0.30, C:0.00, G:0.08, T:0.62
Consensus pattern (25 bp):
TTTTGAATTTTTTAATGTAATAATT
Found at i:514576 original size:26 final size:25
Alignment explanation
Indices: 514520--514582 Score: 65
Period size: 25 Copynumber: 2.4 Consensus size: 25
514510 GGTTTAAATA
*
514520 ATTTTGAATTTTTGTAAGTTATAATT
1 ATTTT-AATTTTTGTAAGTAATAATT
*
514546 TTTTTAATTTTT-TAATGTAATAATT
1 ATTTTAATTTTTGTAA-GTAATAATT
*
514571 CATTTTACTTTT
1 -ATTTTAATTTT
514583 ATAAGATAAG
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
24 3 0.10
25 15 0.48
26 13 0.42
ACGTcount: A:0.29, C:0.03, G:0.06, T:0.62
Consensus pattern (25 bp):
ATTTTAATTTTTGTAAGTAATAATT
Found at i:515015 original size:15 final size:14
Alignment explanation
Indices: 514987--515039 Score: 52
Period size: 15 Copynumber: 3.5 Consensus size: 14
514977 TTTGGAAACC
*
514987 TTAAAACTAATATTT
1 TTAAAA-TATTATTT
515002 TTAAAATATCTATTT
1 TTAAAATAT-TATTT
*
515017 TTATAATATTCATTTT
1 TTAAAATATT-A-TTT
515033 TTAAAAT
1 TTAAAAT
515040 TTCATTTTAA
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
14 3 0.09
15 20 0.62
16 9 0.28
ACGTcount: A:0.42, C:0.06, G:0.00, T:0.53
Consensus pattern (14 bp):
TTAAAATATTATTT
Found at i:515043 original size:15 final size:15
Alignment explanation
Indices: 514999--515047 Score: 55
Period size: 15 Copynumber: 3.2 Consensus size: 15
514989 AAAACTAATA
*
514999 TTTTTAAAATATC-T
1 TTTTTAAAATTTCAT
*
515013 ATTTTTATAATATTCAT
1 -TTTTTAAAAT-TTCAT
515030 TTTTTAAAATTTCAT
1 TTTTTAAAATTTCAT
515045 TTT
1 TTT
515048 AAACTATGTT
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
15 17 0.59
16 11 0.38
17 1 0.03
ACGTcount: A:0.33, C:0.06, G:0.00, T:0.61
Consensus pattern (15 bp):
TTTTTAAAATTTCAT
Found at i:519518 original size:52 final size:51
Alignment explanation
Indices: 519447--519903 Score: 566
Period size: 52 Copynumber: 9.1 Consensus size: 51
519437 ATCAAGTGAC
* **
519447 AAAGTGATAAGTGGTAGCTTTAGCTATACTTATCTGATCAAGTGACAAGTGG
1 AAAGTGATAAGTGATAGCTTCGGCTATACTTATCTGATCAAGTGACAAGT-G
*
519499 AAAGTGATAAGTAATAGCTTCGGCTATACTTATCTGATCAAGTGACAAGTGG
1 AAAGTGATAAGTGATAGCTTCGGCTATACTTATCTGATCAAGTGACAAGT-G
*
519551 AAAGTGATAAGTAATAGCTTCGGCTATACTTATCTGATCAAGTGAC-----
1 AAAGTGATAAGTGATAGCTTCGGCTATACTTATCTGATCAAGTGACAAGTG
* ** *
519597 AAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTG
1 AAAGTGATAAGTGATAGCTTCGGCTATACTTATCTGATCAAGTGACAAGTG
*
519648 AAAAGTGATAAGTAATAGCTTCGGCTATACTTATCTGATCAAGTGAC-----
1 -AAAGTGATAAGTGATAGCTTCGGCTATACTTATCTGATCAAGTGACAAGTG
* ** *
519695 AAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTGG
1 AAAGTGATAAGTGATAGCTTCGGCTATACTTATCTGATCAAGTGACAAGT-G
*
519747 AAAGTGATAAGTAATAGCTTCGGCTATACTTATCTGATCAAGTGAC-----
1 AAAGTGATAAGTGATAGCTTCGGCTATACTTATCTGATCAAGTGACAAGTG
*
519793 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTG
1 AAAGTGATAAGTGATAGCTTCGGCTATACTTATCTGATCAAGTGACAAGTG
** * *
519844 AAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGAGACAGAGTG
1 -AAAGTGATAAGTGATAGCTTCGGCTATACTTATCTGATCAAGTGACA-AGTG
519897 ATAAGTG
1 A-AAGTG
519904 GCTACACTTA
Statistics
Matches: 356, Mismatches: 29, Indels: 39
0.84 0.07 0.09
Matches are distributed among these distances:
46 126 0.35
52 221 0.62
53 9 0.03
ACGTcount: A:0.35, C:0.14, G:0.23, T:0.29
Consensus pattern (51 bp):
AAAGTGATAAGTGATAGCTTCGGCTATACTTATCTGATCAAGTGACAAGTG
Found at i:519615 original size:98 final size:98
Alignment explanation
Indices: 519439--519904 Score: 689
Period size: 98 Copynumber: 4.7 Consensus size: 98
519429 TACTTCTGAT
** **
519439 CAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTATACTTATCTGATCAAGTGACAAGTGGAAAGT
1 CAAGTGA-AAAGTGATAAGTAATAGCTTCGGCTATACTTATCTGATCAAGTGAC------AAAGT
** * *
519504 GATAAGTAATAGCTTCGGCTATACTTATCTGATCAAGTGA
59 GATAAGTGGTAGCTTCAGCTACACTTATCTGATCAAGTGA
*
519544 CAAGTGGAAAGTGATAAGTAATAGCTTCGGCTATACTTATCTGATCAAGTGACAAAGTGATAAGT
1 CAAGTGAAAAGTGATAAGTAATAGCTTCGGCTATACTTATCTGATCAAGTGACAAAGTGATAAGT
*
519609 GGTAGCTTTAGCTACACTTATCTGATCAAGTGA
66 GGTAGCTTCAGCTACACTTATCTGATCAAGTGA
519642 CAAGTGAAAAGTGATAAGTAATAGCTTCGGCTATACTTATCTGATCAAGTGACAAAGTGATAAGT
1 CAAGTGAAAAGTGATAAGTAATAGCTTCGGCTATACTTATCTGATCAAGTGACAAAGTGATAAGT
*
519707 GGTAGCTTTAGCTACACTTATCTGATCAAGTGA
66 GGTAGCTTCAGCTACACTTATCTGATCAAGTGA
*
519740 CAAGTGGAAAGTGATAAGTAATAGCTTCGGCTATACTTATCTGATCAAGTGACAAAGTGATAAGT
1 CAAGTGAAAAGTGATAAGTAATAGCTTCGGCTATACTTATCTGATCAAGTGACAAAGTGATAAGT
* *
519805 GATAGCTTCGGCTACACTTATCTGATCAAGTGA
66 GGTAGCTTCAGCTACACTTATCTGATCAAGTGA
* ** * * *
519838 CAAGTGAAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGAGACAGAGTGATAAGT
1 CAAGTGAAAAGTGATAAGTAATAGCTTCGGCTATACTTATCTGATCAAGTGACAAAGTGATAAGT
519903 GG
66 GG
519905 CTACACTTAT
Statistics
Matches: 338, Mismatches: 23, Indels: 7
0.92 0.06 0.02
Matches are distributed among these distances:
98 290 0.86
104 42 0.12
105 6 0.02
ACGTcount: A:0.35, C:0.14, G:0.23, T:0.29
Consensus pattern (98 bp):
CAAGTGAAAAGTGATAAGTAATAGCTTCGGCTATACTTATCTGATCAAGTGACAAAGTGATAAGT
GGTAGCTTCAGCTACACTTATCTGATCAAGTGA
Found at i:519910 original size:37 final size:37
Alignment explanation
Indices: 519867--520086 Score: 372
Period size: 37 Copynumber: 6.0 Consensus size: 37
519857 GATAGCTTTA
* *
519867 GCTACACTTATCTGATCAAGAGACAGAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
519904 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
*
519941 GCTACACTTATCTGATCAAGAAACAAAGTGATAGGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
519978 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
*
520015 GCTACACTTATCTGATCAAGAAACAAAGTGATAGGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
**
520052 GCTACACTTATCTGATC-AGGGAC-AAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
520087 ATCATACGTA
Statistics
Matches: 175, Mismatches: 8, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
35 11 0.06
36 4 0.02
37 160 0.91
ACGTcount: A:0.37, C:0.16, G:0.22, T:0.25
Consensus pattern (37 bp):
GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
Found at i:526927 original size:14 final size:15
Alignment explanation
Indices: 526908--526941 Score: 52
Period size: 14 Copynumber: 2.3 Consensus size: 15
526898 CGATTAACAG
526908 TATTAAAATTAT-TT
1 TATTAAAATTATGTT
*
526922 TATTAAATTTATGTT
1 TATTAAAATTATGTT
526937 TATTA
1 TATTA
526942 CAATATCAGT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 11 0.61
15 7 0.39
ACGTcount: A:0.38, C:0.00, G:0.03, T:0.59
Consensus pattern (15 bp):
TATTAAAATTATGTT
Found at i:539873 original size:6 final size:6
Alignment explanation
Indices: 539862--539886 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
539852 TTTTATTGAA
539862 AAATAT AAATAT AAATAT AAATAT A
1 AAATAT AAATAT AAATAT AAATAT A
539887 TTTTATGAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (6 bp):
AAATAT
Found at i:542814 original size:28 final size:29
Alignment explanation
Indices: 542783--542839 Score: 80
Period size: 29 Copynumber: 2.0 Consensus size: 29
542773 ATATAAGTAT
* *
542783 TAATATAAAT-TATATTTTAAACATTTAA
1 TAATATAAATATATATTTCAAACAGTTAA
*
542811 TAATATATATATATATTTCAAACAGTTAA
1 TAATATAAATATATATTTCAAACAGTTAA
542840 CCAACACATA
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
28 9 0.36
29 16 0.64
ACGTcount: A:0.49, C:0.05, G:0.02, T:0.44
Consensus pattern (29 bp):
TAATATAAATATATATTTCAAACAGTTAA
Found at i:566828 original size:2 final size:2
Alignment explanation
Indices: 566821--566859 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
566811 TGCTTAGGGG
566821 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
566860 GTCTTTCAAA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.00, C:0.49, G:0.00, T:0.51
Consensus pattern (2 bp):
TC
Found at i:585913 original size:59 final size:59
Alignment explanation
Indices: 585835--585961 Score: 236
Period size: 59 Copynumber: 2.1 Consensus size: 59
585825 TTTATTTGTA
*
585835 AAATTATAAAATCTTTAAAAATATTAATGTCCTAAATGACTCTTTAAAATAATAAATTTT
1 AAATT-TATAATCTTTAAAAATATTAATGTCCTAAATGACTCTTTAAAATAATAAATTTT
585895 AAATTTATAATCTTTAAAAATATTAATGTCCTAAATGACTCTTTAAAATAATAAATTTT
1 AAATTTATAATCTTTAAAAATATTAATGTCCTAAATGACTCTTTAAAATAATAAATTTT
585954 AAATTTAT
1 AAATTTAT
585962 TTGATTTTTT
Statistics
Matches: 66, Mismatches: 1, Indels: 1
0.97 0.01 0.01
Matches are distributed among these distances:
59 61 0.92
60 5 0.08
ACGTcount: A:0.47, C:0.08, G:0.03, T:0.42
Consensus pattern (59 bp):
AAATTTATAATCTTTAAAAATATTAATGTCCTAAATGACTCTTTAAAATAATAAATTTT
Found at i:585943 original size:28 final size:29
Alignment explanation
Indices: 585846--585942 Score: 101
Period size: 29 Copynumber: 3.3 Consensus size: 29
585836 AATTATAAAA
585846 TCTTTAAAAATATTAATGTCCTAAATGAC
1 TCTTTAAAAATATTAATGTCCTAAATGAC
* * * *
585875 TCTTT-AAAATAATAAAT-T-TTAAATTTATAA
1 TCTTTAAAAAT-ATTAATGTCCTAAA--T-GAC
585905 TCTTTAAAAATATTAATGTCCTAAATGAC
1 TCTTTAAAAATATTAATGTCCTAAATGAC
585934 TCTTTAAAA
1 TCTTTAAAA
585943 TAATAAATTT
Statistics
Matches: 53, Mismatches: 8, Indels: 14
0.71 0.11 0.19
Matches are distributed among these distances:
27 4 0.08
28 6 0.11
29 21 0.40
30 12 0.23
31 6 0.11
32 4 0.08
ACGTcount: A:0.44, C:0.10, G:0.04, T:0.41
Consensus pattern (29 bp):
TCTTTAAAAATATTAATGTCCTAAATGAC
Found at i:616590 original size:23 final size:22
Alignment explanation
Indices: 616564--616609 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 22
616554 ATCCAAGATC
616564 AAAACAA-CTCAAACCCAAAATTT
1 AAAACAATC-CAAA-CCAAAATTT
*
616587 AAAACAATCCAAATCAAAATTT
1 AAAACAATCCAAACCAAAATTT
616609 A
1 A
616610 CCTAAATCAT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
22 9 0.43
23 11 0.52
24 1 0.05
ACGTcount: A:0.59, C:0.22, G:0.00, T:0.20
Consensus pattern (22 bp):
AAAACAATCCAAACCAAAATTT
Found at i:619084 original size:20 final size:22
Alignment explanation
Indices: 619044--619084 Score: 59
Period size: 20 Copynumber: 2.0 Consensus size: 22
619034 AATTATTAAA
*
619044 TAATAAATATAATTTATTATTT
1 TAATAAATATAATTTAATATTT
619066 TAATAAAT-T-ATTTAATATT
1 TAATAAATATAATTTAATATT
619085 CAATTTTATT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 9 0.50
21 1 0.06
22 8 0.44
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (22 bp):
TAATAAATATAATTTAATATTT
Found at i:619099 original size:18 final size:18
Alignment explanation
Indices: 619076--619110 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
619066 TAATAAATTA
* *
619076 TTTAATATTCAATTTTAT
1 TTTAATAATAAATTTTAT
619094 TTTAATAATAAATTTTA
1 TTTAATAATAAATTTTA
619111 AAAATTGTAA
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:0.40, C:0.03, G:0.00, T:0.57
Consensus pattern (18 bp):
TTTAATAATAAATTTTAT
Found at i:632310 original size:22 final size:22
Alignment explanation
Indices: 632285--632330 Score: 74
Period size: 22 Copynumber: 2.1 Consensus size: 22
632275 TACCGATTAC
*
632285 AGAAAGTATCTGTTAGGAGTTT
1 AGAAAGTATCTGCTAGGAGTTT
*
632307 AGAAAGTATCTGCTAGTAGTTT
1 AGAAAGTATCTGCTAGGAGTTT
632329 AG
1 AG
632331 GGGACAACGA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.33, C:0.07, G:0.26, T:0.35
Consensus pattern (22 bp):
AGAAAGTATCTGCTAGGAGTTT
Found at i:632530 original size:27 final size:27
Alignment explanation
Indices: 632483--632534 Score: 70
Period size: 27 Copynumber: 1.9 Consensus size: 27
632473 TAAATTTTAA
**
632483 AATTATATATAAACTTTAATTTGATAC
1 AATTATATATAAACTAAAATTTGATAC
632510 AATTATATATAAA-TGAAAATTTGAT
1 AATTATATATAAACT-AAAATTTGAT
632535 TATGATTAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
26 1 0.05
27 21 0.95
ACGTcount: A:0.48, C:0.04, G:0.06, T:0.42
Consensus pattern (27 bp):
AATTATATATAAACTAAAATTTGATAC
Found at i:633568 original size:19 final size:20
Alignment explanation
Indices: 633534--633571 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
633524 AATTTTTTTA
*
633534 AAATAATAATGATTAAATTT
1 AAATAATAAGGATTAAATTT
633554 AAATAA-AAGGATTAAATT
1 AAATAATAAGGATTAAATT
633572 GATAACAATA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 11 0.65
20 6 0.35
ACGTcount: A:0.58, C:0.00, G:0.08, T:0.34
Consensus pattern (20 bp):
AAATAATAAGGATTAAATTT
Found at i:642094 original size:29 final size:28
Alignment explanation
Indices: 642045--642102 Score: 64
Period size: 29 Copynumber: 2.0 Consensus size: 28
642035 GATTTACGTT
**
642045 ATAATCACTTAACTTTAAAAAAATATAAA
1 ATAATCACTTAAAATTAAAAAAATA-AAA
*
642074 ATAATCAC-TAAAATTACAAAATATAAAA
1 ATAATCACTTAAAATTA-AAAAAATAAAA
642102 A
1 A
642103 GATTAATTAT
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
28 10 0.40
29 15 0.60
ACGTcount: A:0.62, C:0.10, G:0.00, T:0.28
Consensus pattern (28 bp):
ATAATCACTTAAAATTAAAAAAATAAAA
Found at i:651660 original size:17 final size:17
Alignment explanation
Indices: 651624--651662 Score: 51
Period size: 17 Copynumber: 2.3 Consensus size: 17
651614 ACAGTTAAAT
*
651624 TAATAATTTTGACAACA
1 TAATAATTTTAACAACA
* *
651641 TAATAATTTTAATAATA
1 TAATAATTTTAACAACA
651658 TAATA
1 TAATA
651663 TTATAATTTG
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.51, C:0.05, G:0.03, T:0.41
Consensus pattern (17 bp):
TAATAATTTTAACAACA
Found at i:653708 original size:2 final size:2
Alignment explanation
Indices: 653660--653698 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
653650 AATCTCTTCA
653660 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
653699 TTTGCTCTCT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.00, C:0.49, G:0.00, T:0.51
Consensus pattern (2 bp):
TC
Found at i:655600 original size:22 final size:21
Alignment explanation
Indices: 655570--655610 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 21
655560 AGGTAGTGTG
655570 TAAACATTAAGAGCTAAAATTTT
1 TAAACATTAAGA-C-AAAATTTT
655593 TAAA-ATTAAGACAAAATT
1 TAAACATTAAGACAAAATT
655611 GACACAATGT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 6 0.33
21 1 0.06
22 7 0.39
23 4 0.22
ACGTcount: A:0.54, C:0.07, G:0.07, T:0.32
Consensus pattern (21 bp):
TAAACATTAAGACAAAATTTT
Found at i:665508 original size:28 final size:26
Alignment explanation
Indices: 665441--665509 Score: 95
Period size: 29 Copynumber: 2.6 Consensus size: 26
665431 ATAAAAAATA
665441 ACTAAAATATTATAATTTTTTTATTT
1 ACTAAAATATTATAATTTTTTTATTT
*
665467 ACCAAAATATTATAACTTTTTTTTTATTT
1 ACTAAAATATTATAA---TTTTTTTATTT
665496 ACTAAAATA-TATAA
1 ACTAAAATATTATAA
665510 AAAAAACAAA
Statistics
Matches: 38, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
26 14 0.37
28 5 0.13
29 19 0.50
ACGTcount: A:0.42, C:0.07, G:0.00, T:0.51
Consensus pattern (26 bp):
ACTAAAATATTATAATTTTTTTATTT
Found at i:665590 original size:27 final size:27
Alignment explanation
Indices: 665560--665632 Score: 94
Period size: 27 Copynumber: 2.7 Consensus size: 27
665550 TCACATGGGA
*
665560 GGCACCAAAGGTGCCAATGAGATCGGC
1 GGCACCAAAGGTGCCAAAGAGATCGGC
* * *
665587 GGCACCAATGATGCCAAAGAGATTGGC
1 GGCACCAAAGGTGCCAAAGAGATCGGC
665614 GGCA-CAAATGGTGCCAAAG
1 GGCACCAAA-GGTGCCAAAG
665633 GATTAAAATG
Statistics
Matches: 39, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
26 3 0.08
27 36 0.92
ACGTcount: A:0.33, C:0.23, G:0.32, T:0.12
Consensus pattern (27 bp):
GGCACCAAAGGTGCCAAAGAGATCGGC
Found at i:666209 original size:19 final size:19
Alignment explanation
Indices: 666185--666280 Score: 106
Period size: 19 Copynumber: 5.2 Consensus size: 19
666175 TCTAATTAAG
666185 TAATAACTCTATTTTAATT
1 TAATAACTCTATTTTAATT
* * *
666204 TAATAA-ACTATTCTCATT
1 TAATAACTCTATTTTAATT
*
666222 TGATAACTCTATTTTAATT
1 TAATAACTCTATTTTAATT
* * *
666241 TAATAA-ACTATTCTCATT
1 TAATAACTCTATTTTAATT
*
666259 TATTAACTCTATTTTAATT
1 TAATAACTCTATTTTAATT
666278 TAA
1 TAA
666281 AAAAATTAAG
Statistics
Matches: 59, Mismatches: 16, Indels: 4
0.75 0.20 0.05
Matches are distributed among these distances:
18 28 0.47
19 31 0.53
ACGTcount: A:0.36, C:0.12, G:0.01, T:0.50
Consensus pattern (19 bp):
TAATAACTCTATTTTAATT
Found at i:666228 original size:37 final size:36
Alignment explanation
Indices: 666187--666280 Score: 170
Period size: 37 Copynumber: 2.6 Consensus size: 36
666177 TAATTAAGTA
666187 ATAACTCTATTTTAATTTAATAAACTATTCTCATTT
1 ATAACTCTATTTTAATTTAATAAACTATTCTCATTT
666223 GATAACTCTATTTTAATTTAATAAACTATTCTCATTT
1 -ATAACTCTATTTTAATTTAATAAACTATTCTCATTT
666260 ATTAACTCTATTTTAATTTAA
1 A-TAACTCTATTTTAATTTAA
666281 AAAAATTAAG
Statistics
Matches: 56, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
36 1 0.02
37 55 0.98
ACGTcount: A:0.36, C:0.13, G:0.01, T:0.50
Consensus pattern (36 bp):
ATAACTCTATTTTAATTTAATAAACTATTCTCATTT
Found at i:666364 original size:18 final size:19
Alignment explanation
Indices: 666317--666373 Score: 82
Period size: 19 Copynumber: 3.1 Consensus size: 19
666307 AATTTTTTTA
666317 AAATTAAAATAGAGTTATT
1 AAATTAAAATAGAGTTATT
*
666336 AAA-TAAGAATAG-TTTATT
1 AAATTAA-AATAGAGTTATT
666354 AAATTAAAATAGAGTTATT
1 AAATTAAAATAGAGTTATT
666373 A
1 A
666374 CTTAATTAGA
Statistics
Matches: 33, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
18 16 0.48
19 17 0.52
ACGTcount: A:0.53, C:0.00, G:0.11, T:0.37
Consensus pattern (19 bp):
AAATTAAAATAGAGTTATT
Found at i:666378 original size:18 final size:18
Alignment explanation
Indices: 666318--666378 Score: 70
Period size: 18 Copynumber: 3.3 Consensus size: 18
666308 ATTTTTTTAA
666318 AATTAAAATAGAGTTATT
1 AATTAAAATAGAGTTATT
* *
666336 AAATAAGAATAG-TTTATT
1 AATTAA-AATAGAGTTATT
666354 AAATTAAAATAGAGTTATT
1 -AATTAAAATAGAGTTATT
*
666373 ACTTAA
1 AATTAA
666379 TTAGAATTCT
Statistics
Matches: 35, Mismatches: 5, Indels: 6
0.76 0.11 0.13
Matches are distributed among these distances:
18 20 0.57
19 15 0.43
ACGTcount: A:0.51, C:0.02, G:0.10, T:0.38
Consensus pattern (18 bp):
AATTAAAATAGAGTTATT
Found at i:666481 original size:134 final size:136
Alignment explanation
Indices: 666252--666522 Score: 449
Period size: 134 Copynumber: 2.0 Consensus size: 136
666242 AATAAACTAT
* * * * *
666252 TCTCATTTATTAACTCTATTTTAATTTAAAAAAATTAAGTAAACTATTTTAATTTAATTTTTTTA
1 TCTCATTTAATAACTCTATCTTAATTTAAAAAAATTAAGTAAAATAGTTTAACTTAATTTTTTTA
666317 AAATTAAAATAGAGTTATTAAATAAGAATAGTTTATTAAATTAAAATAGAGTTATTACTTAATTA
66 AAATTAAAATAGAGTTATTAAATAAGAATAGTTTATTAAATTAAAATAGAGTTATTACTTAATTA
666382 GAATTC
131 GAATTC
*
666388 TCTCATTTAATAACTCTATCTTAATTT-AAAAAATTAAATTAAAATAGTTT-ACTTAATTTTTTT
1 TCTCATTTAATAACTCTATCTTAATTTAAAAAAATT-AAGTAAAATAGTTTAACTTAATTTTTTT
*
666451 -AAATTAAAATAGAGTTATTAAATGAGAATAGTTTATTAAATTAAAATAGAGTTATTACTTAATT
65 AAAATTAAAATAGAGTTATTAAATAAGAATAGTTTATTAAATTAAAATAGAGTTATTACTTAATT
666515 AGAATTC
130 AGAATTC
666522 T
1 T
666523 AAGTATCTTA
Statistics
Matches: 127, Mismatches: 7, Indels: 4
0.92 0.05 0.03
Matches are distributed among these distances:
134 71 0.56
135 20 0.16
136 36 0.28
ACGTcount: A:0.44, C:0.06, G:0.06, T:0.44
Consensus pattern (136 bp):
TCTCATTTAATAACTCTATCTTAATTTAAAAAAATTAAGTAAAATAGTTTAACTTAATTTTTTTA
AAATTAAAATAGAGTTATTAAATAAGAATAGTTTATTAAATTAAAATAGAGTTATTACTTAATTA
GAATTC
Found at i:666512 original size:18 final size:19
Alignment explanation
Indices: 666449--666507 Score: 84
Period size: 19 Copynumber: 3.2 Consensus size: 19
666439 CTTAATTTTT
666449 TTAAATTAAAATAGAGTTA
1 TTAAATTAAAATAGAGTTA
* * *
666468 TTAAATGAGAATAG-TTTA
1 TTAAATTAAAATAGAGTTA
666486 TTAAATTAAAATAGAGTTA
1 TTAAATTAAAATAGAGTTA
666505 TTA
1 TTA
666508 CTTAATTAGA
Statistics
Matches: 33, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
18 15 0.45
19 18 0.55
ACGTcount: A:0.49, C:0.00, G:0.12, T:0.39
Consensus pattern (19 bp):
TTAAATTAAAATAGAGTTA
Found at i:667098 original size:27 final size:27
Alignment explanation
Indices: 667060--667123 Score: 101
Period size: 27 Copynumber: 2.4 Consensus size: 27
667050 CATTTTAGTC
* *
667060 CTTTAGCACCATTCGTGCCGCCAATCT
1 CTTTGGCACCATTCGTGCCCCCAATCT
*
667087 CTTTGGCACCATTGGTGCCCCCAATCT
1 CTTTGGCACCATTCGTGCCCCCAATCT
667114 CTTTGGCACC
1 CTTTGGCACC
667124 TTTAATGTCG
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 34 1.00
ACGTcount: A:0.16, C:0.38, G:0.17, T:0.30
Consensus pattern (27 bp):
CTTTGGCACCATTCGTGCCCCCAATCT
Found at i:667224 original size:26 final size:27
Alignment explanation
Indices: 667195--667257 Score: 110
Period size: 26 Copynumber: 2.4 Consensus size: 27
667185 TTTTTTTGGT
*
667195 ATATTTTGGTAAATGAAAAAA-TTATA
1 ATATTTTGGTAAATAAAAAAAGTTATA
667221 ATATTTTGGTAAATAAAAAAAGTTATA
1 ATATTTTGGTAAATAAAAAAAGTTATA
667248 ATATTTTGGT
1 ATATTTTGGT
667258 TATTTTTATA
Statistics
Matches: 35, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
26 20 0.57
27 15 0.43
ACGTcount: A:0.46, C:0.00, G:0.13, T:0.41
Consensus pattern (27 bp):
ATATTTTGGTAAATAAAAAAAGTTATA
Found at i:671214 original size:110 final size:111
Alignment explanation
Indices: 671100--671429 Score: 612
Period size: 110 Copynumber: 3.0 Consensus size: 111
671090 ACCAGGGGGG
671100 AAAAAAAAGAGAAAC-AAAAAAAGGAGGGGGGGACTTTTGTAACAAAAAAAGAGAAGATTCGGCT
1 AAAAAAAAGAGAAACAAAAAAAAGGAGGGGGGGACTTTTGTAACAAAAAAAGAGAAGATTCGGCT
671164 TTTGAAAAAATTGAAAGAAATAAAAAAAGGGGCTTTAGAAGGTGAA
66 TTTGAAAAAATTGAAAGAAATAAAAAAAGGGGCTTTAGAAGGTGAA
671210 AAAAAAAAGAGAAACAAAAAAAAGGA-GGGGGGACTTTTGTAACAAAAAAAGAGAAGATTCGGCT
1 AAAAAAAAGAGAAACAAAAAAAAGGAGGGGGGGACTTTTGTAACAAAAAAAGAGAAGATTCGGCT
*
671274 TTTGAAAAAATTGAAAGAAATAAAAAAATGGGCTTTAGAAGGTG-A
66 TTTGAAAAAATTGAAAGAAATAAAAAAAGGGGCTTTAGAAGGTGAA
671319 AAAAAAAAGAGAAACAAAAAAAAAGGAGGGGGGGACTTTTGTAACAAAAAAAGAGAAGATTCGGC
1 AAAAAAAAGAGAAAC-AAAAAAAAGGAGGGGGGGACTTTTGTAACAAAAAAAGAGAAGATTCGGC
*
671384 TTTTGAAAAAATTGAAAGAAATAAAAAAGGGGGCTTTAGAAGGTGA
65 TTTTGAAAAAATTGAAAGAAATAAAAAAAGGGGCTTTAGAAGGTGA
671430 TTCACCTTGT
Statistics
Matches: 213, Mismatches: 3, Indels: 6
0.96 0.01 0.03
Matches are distributed among these distances:
109 16 0.08
110 107 0.50
111 90 0.42
ACGTcount: A:0.53, C:0.05, G:0.25, T:0.17
Consensus pattern (111 bp):
AAAAAAAAGAGAAACAAAAAAAAGGAGGGGGGGACTTTTGTAACAAAAAAAGAGAAGATTCGGCT
TTTGAAAAAATTGAAAGAAATAAAAAAAGGGGCTTTAGAAGGTGAA
Found at i:672473 original size:3 final size:3
Alignment explanation
Indices: 672465--672499 Score: 70
Period size: 3 Copynumber: 11.7 Consensus size: 3
672455 GATTTAGTCC
672465 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
672500 CCTATTTGTT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
TAT
Found at i:677914 original size:11 final size:11
Alignment explanation
Indices: 677880--677933 Score: 58
Period size: 11 Copynumber: 5.1 Consensus size: 11
677870 AAAATATTAT
677880 AAAACAAAT-A
1 AAAACAAATAA
* *
677890 AAGA-AAAGAA
1 AAAACAAATAA
677900 AAAACAAATAA
1 AAAACAAATAA
677911 AAAACAAATAA
1 AAAACAAATAA
**
677922 AGGACAAATAA
1 AAAACAAATAA
677933 A
1 A
677934 TAAATAAAAA
Statistics
Matches: 36, Mismatches: 6, Indels: 3
0.80 0.13 0.07
Matches are distributed among these distances:
9 3 0.08
10 7 0.19
11 26 0.72
ACGTcount: A:0.78, C:0.07, G:0.07, T:0.07
Consensus pattern (11 bp):
AAAACAAATAA
Found at i:677991 original size:62 final size:61
Alignment explanation
Indices: 677893--678038 Score: 168
Period size: 61 Copynumber: 2.3 Consensus size: 61
677883 ACAAATAAAG
* * *
677893 AAAAGAAAAAACAAATAAAAAACAAATAAAGGACAAATAAATAAATAAAAACTGAAAAAGTAAA
1 AAAAG-AAAAACAAATAAAAAACAAATAAAGGACAAACAAAT-AA-AAAAACAGAAAAAGGAAA
* *** * *
677957 TAAAGAAAAACAAATAAAAATGGAA-AAAGGACAAACAAATAAAAAATCAGAGAAAGGAAA
1 AAAAGAAAAACAAATAAAAAACAAATAAAGGACAAACAAATAAAAAAACAGAAAAAGGAAA
678017 AAAATGAAAAACAAATAAAAAA
1 AAAA-GAAAAACAAATAAAAAA
678039 AATCAAGAAA
Statistics
Matches: 70, Mismatches: 11, Indels: 5
0.81 0.13 0.06
Matches are distributed among these distances:
60 17 0.24
61 18 0.26
62 14 0.20
63 17 0.24
64 4 0.06
ACGTcount: A:0.74, C:0.06, G:0.10, T:0.10
Consensus pattern (61 bp):
AAAAGAAAAACAAATAAAAAACAAATAAAGGACAAACAAATAAAAAAACAGAAAAAGGAAA
Found at i:679021 original size:33 final size:29
Alignment explanation
Indices: 678960--679019 Score: 111
Period size: 29 Copynumber: 2.1 Consensus size: 29
678950 GTTAGAGAAA
678960 ACATGTGCATAAATAAATTCCGTTTACTT
1 ACATGTGCATAAATAAATTCCGTTTACTT
*
678989 ACATGTGCATAAATAAATTCCGTTTAGTT
1 ACATGTGCATAAATAAATTCCGTTTACTT
679018 AC
1 AC
679020 TTTGAAGTGG
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.35, C:0.17, G:0.12, T:0.37
Consensus pattern (29 bp):
ACATGTGCATAAATAAATTCCGTTTACTT
Found at i:682080 original size:21 final size:21
Alignment explanation
Indices: 682054--682094 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
682044 AGACGAGCAA
* *
682054 TACTCCACAGCAGGTGGAGTG
1 TACTCCAAAACAGGTGGAGTG
682075 TACTCCAAAACAGGTGGAGT
1 TACTCCAAAACAGGTGGAGT
682095 TTGAGCAGAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.29, C:0.22, G:0.29, T:0.20
Consensus pattern (21 bp):
TACTCCAAAACAGGTGGAGTG
Found at i:686118 original size:17 final size:19
Alignment explanation
Indices: 686098--686135 Score: 62
Period size: 19 Copynumber: 2.1 Consensus size: 19
686088 CAGGGGAAGG
686098 AAGAAAG-A-AAAAGAGAA
1 AAGAAAGAAGAAAAGAGAA
686115 AAGAAAGAAGAAAAGAGAA
1 AAGAAAGAAGAAAAGAGAA
686134 AA
1 AA
686136 ATTAAAGGTT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 7 0.37
18 1 0.05
19 11 0.58
ACGTcount: A:0.76, C:0.00, G:0.24, T:0.00
Consensus pattern (19 bp):
AAGAAAGAAGAAAAGAGAA
Found at i:688841 original size:16 final size:15
Alignment explanation
Indices: 688820--688880 Score: 77
Period size: 16 Copynumber: 3.9 Consensus size: 15
688810 TTTGCCCGGG
688820 CTAAAAAGCCCAACAT
1 CTAAAAA-CCCAACAT
688836 CTAAAAACCCCAACAT
1 CTAAAAA-CCCAACAT
*
688852 CTAAAAACCCAACAG
1 CTAAAAACCCAACAT
**
688867 CCCAAAACCCAACA
1 CTAAAAACCCAACA
688881 ACCTCCAAAG
Statistics
Matches: 41, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
15 19 0.46
16 22 0.54
ACGTcount: A:0.51, C:0.38, G:0.03, T:0.08
Consensus pattern (15 bp):
CTAAAAACCCAACAT
Found at i:688874 original size:31 final size:31
Alignment explanation
Indices: 688820--688880 Score: 79
Period size: 31 Copynumber: 2.0 Consensus size: 31
688810 TTTGCCCGGG
* *
688820 CTAAAAAGCCCAACATCTAAAAACCCCAACAT
1 CTAAAAAGCCCAACAGCCAAAAA-CCCAACAT
*
688852 CTAAAAA-CCCAACAGCCCAAAACCCAACA
1 CTAAAAAGCCCAACAGCCAAAAACCCAACA
688881 ACCTCCAAAG
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
30 7 0.27
31 12 0.46
32 7 0.27
ACGTcount: A:0.51, C:0.38, G:0.03, T:0.08
Consensus pattern (31 bp):
CTAAAAAGCCCAACAGCCAAAAACCCAACAT
Found at i:688901 original size:17 final size:17
Alignment explanation
Indices: 688855--688895 Score: 50
Period size: 15 Copynumber: 2.5 Consensus size: 17
688845 CCAACATCTA
*
688855 AAAACCCAAC-AGC-CC
1 AAAACCCAACAACCTCC
688870 AAAACCCAACAACCTCC
1 AAAACCCAACAACCTCC
*
688887 AAAGCCCAA
1 AAAACCCAA
688896 TCACCTAAAC
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
15 10 0.45
16 2 0.09
17 10 0.45
ACGTcount: A:0.49, C:0.44, G:0.05, T:0.02
Consensus pattern (17 bp):
AAAACCCAACAACCTCC
Found at i:688982 original size:13 final size:13
Alignment explanation
Indices: 688964--689073 Score: 100
Period size: 13 Copynumber: 9.4 Consensus size: 13
688954 TCTTCACTCC
688964 AACCACCCCACTA
1 AACCACCCCACTA
*
688977 AACCACTCCACTA
1 AACCACCCCACTA
*
688990 AACCA-CTC-C--
1 AACCACCCCACTA
688999 AACCACCCCACTA
1 AACCACCCCACTA
689012 AACCA-CCC-C--
1 AACCACCCCACTA
689021 AACCACCCCACTA
1 AACCACCCCACTA
*
689034 AACCA-CTC-C--
1 AACCACCCCACTA
689043 AACCACCCCACTA
1 AACCACCCCACTA
*
689056 AACCACTCCACTA
1 AACCACCCCACTA
689069 AACCA
1 AACCA
689074 TCCAAACCAC
Statistics
Matches: 78, Mismatches: 7, Indels: 24
0.72 0.06 0.22
Matches are distributed among these distances:
9 15 0.19
10 7 0.09
11 6 0.08
12 6 0.08
13 44 0.56
ACGTcount: A:0.38, C:0.53, G:0.00, T:0.09
Consensus pattern (13 bp):
AACCACCCCACTA
Found at i:689002 original size:22 final size:22
Alignment explanation
Indices: 688977--689065 Score: 160
Period size: 22 Copynumber: 4.0 Consensus size: 22
688967 CACCCCACTA
*
688977 AACCACTCCACTAAACCACTCC
1 AACCACCCCACTAAACCACTCC
*
688999 AACCACCCCACTAAACCACCCC
1 AACCACCCCACTAAACCACTCC
689021 AACCACCCCACTAAACCACTCC
1 AACCACCCCACTAAACCACTCC
689043 AACCACCCCACTAAACCACTCC
1 AACCACCCCACTAAACCACTCC
689065 A
1 A
689066 CTAAACCATC
Statistics
Matches: 64, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 64 1.00
ACGTcount: A:0.37, C:0.54, G:0.00, T:0.09
Consensus pattern (22 bp):
AACCACCCCACTAAACCACTCC
Found at i:689004 original size:35 final size:35
Alignment explanation
Indices: 688958--689083 Score: 146
Period size: 35 Copynumber: 3.3 Consensus size: 35
688948 CAAATATCTT
688958 CACTCCAACCACCCCACTAAACCACTCCACTAAAC
1 CACTCCAACCACCCCACTAAACCACTCCACTAAAC
*
688993 CACTCCAACCACCCCACTAAACCACCCCAACCACCCCACTAAAC
1 CACTCCAACCACCCCACT-----A----AACCACTCCACTAAAC
689037 CACTCCAACCACCCCACTAAACCACTCCACTAAAC
1 CACTCCAACCACCCCACTAAACCACTCCACTAAAC
689072 CA-TCCAAACCAC
1 CACTCC-AACCAC
689084 TTCACTTGCC
Statistics
Matches: 79, Mismatches: 2, Indels: 20
0.78 0.02 0.20
Matches are distributed among these distances:
34 3 0.04
35 41 0.52
39 1 0.01
40 1 0.01
44 33 0.42
ACGTcount: A:0.37, C:0.53, G:0.00, T:0.10
Consensus pattern (35 bp):
CACTCCAACCACCCCACTAAACCACTCCACTAAAC
Found at i:689081 original size:44 final size:44
Alignment explanation
Indices: 688964--689084 Score: 145
Period size: 44 Copynumber: 2.7 Consensus size: 44
688954 TCTTCACTCC
688964 AACCACCCCACTAAACCACTCCACTAAACCACTCCAACCACCCCACTA
1 AACCACCCCACTAAACCA-T-C-C-AAACCACTCCAACCACCCCACTA
* ** *
689012 AACCACCCCAACCACCCCA-CTAAACCACTCCAACCACCCCACTA
1 AACCACCCC-ACTAAACCATCCAAACCACTCCAACCACCCCACTA
*
689056 AACCACTCCACTAAACCATCCAAACCACT
1 AACCACCCCACTAAACCATCCAAACCACT
689085 TCACTTGCCT
Statistics
Matches: 62, Mismatches: 9, Indels: 8
0.78 0.11 0.10
Matches are distributed among these distances:
43 6 0.10
44 40 0.65
46 1 0.02
48 9 0.15
49 6 0.10
ACGTcount: A:0.38, C:0.52, G:0.00, T:0.10
Consensus pattern (44 bp):
AACCACCCCACTAAACCATCCAAACCACTCCAACCACCCCACTA
Found at i:689808 original size:17 final size:19
Alignment explanation
Indices: 689788--689827 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
689778 TGTTCGACTC
*
689788 ATTTATC-TTACT-TTCGT
1 ATTTATCGTTACTATTCAT
689805 ATTTATCGTTACTATTCAT
1 ATTTATCGTTACTATTCAT
689824 ATTT
1 ATTT
689828 GTGTTTATGT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
17 7 0.35
18 5 0.25
19 8 0.40
ACGTcount: A:0.23, C:0.15, G:0.05, T:0.57
Consensus pattern (19 bp):
ATTTATCGTTACTATTCAT
Found at i:702251 original size:31 final size:30
Alignment explanation
Indices: 702192--702260 Score: 75
Period size: 31 Copynumber: 2.3 Consensus size: 30
702182 ATCTTTGATT
* * *
702192 TGGTACAATTATACACATAAACTTTAATTG
1 TGGTTCAAATATACACATAAACCTTAATTG
* *
702222 TGGTTCAAATATATACATGAAACCTTAATTT
1 TGGTTCAAATATACACAT-AAACCTTAATTG
*
702253 TGATTCAA
1 TGGTTCAA
702261 TCATACATAT
Statistics
Matches: 32, Mismatches: 6, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
30 15 0.47
31 17 0.53
ACGTcount: A:0.39, C:0.13, G:0.10, T:0.38
Consensus pattern (30 bp):
TGGTTCAAATATACACATAAACCTTAATTG
Found at i:702437 original size:29 final size:30
Alignment explanation
Indices: 702395--702474 Score: 90
Period size: 29 Copynumber: 2.6 Consensus size: 30
702385 GCATTGGATC
*
702395 AAATCAAAATTTCATGTATAAAATTGCACA-
1 AAATC-AAAGTTCATGTATAAAATTGCACAT
* *
702425 AAATCAAAGTTCATGTATGAATTTGCACATT
1 AAATCAAAGTTCATGTATAAAATTGCACA-T
* *
702456 AAACCAAAGTCCATGTATA
1 AAATCAAAGTTCATGTATA
702475 GTTTTGAGAT
Statistics
Matches: 42, Mismatches: 6, Indels: 3
0.82 0.12 0.06
Matches are distributed among these distances:
29 21 0.50
30 5 0.12
31 16 0.38
ACGTcount: A:0.45, C:0.15, G:0.10, T:0.30
Consensus pattern (30 bp):
AAATCAAAGTTCATGTATAAAATTGCACAT
Found at i:708723 original size:6 final size:6
Alignment explanation
Indices: 708705--708739 Score: 52
Period size: 6 Copynumber: 5.8 Consensus size: 6
708695 ATTCGTTTGG
* *
708705 CTTTTT CTGTTT CTTTTT CTTTTT CTATTT CTTTT
1 CTTTTT CTTTTT CTTTTT CTTTTT CTTTTT CTTTT
708740 ATTTATTTAA
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
6 25 1.00
ACGTcount: A:0.03, C:0.17, G:0.03, T:0.77
Consensus pattern (6 bp):
CTTTTT
Found at i:708726 original size:18 final size:18
Alignment explanation
Indices: 708705--708739 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
708695 ATTCGTTTGG
*
708705 CTTTTTCTGTTTCTTTTT
1 CTTTTTCTATTTCTTTTT
708723 CTTTTTCTATTTCTTTT
1 CTTTTTCTATTTCTTTT
708740 ATTTATTTAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.03, C:0.17, G:0.03, T:0.77
Consensus pattern (18 bp):
CTTTTTCTATTTCTTTTT
Found at i:710146 original size:24 final size:26
Alignment explanation
Indices: 710085--710149 Score: 82
Period size: 26 Copynumber: 2.6 Consensus size: 26
710075 TTTTGATTTT
*
710085 AATTTAATTTTATATTATGAAAAGTA
1 AATTTATTTTTATATTATGAAAAGTA
710111 AATTTATTTTTATATT-TGATAAA-TA
1 AATTTATTTTTATATTATGA-AAAGTA
*
710136 TA-TTATTTTTATAT
1 AATTTATTTTTATAT
710150 ATAAAATTTC
Statistics
Matches: 36, Mismatches: 2, Indels: 4
0.86 0.05 0.10
Matches are distributed among these distances:
24 12 0.33
25 6 0.17
26 18 0.50
ACGTcount: A:0.40, C:0.00, G:0.05, T:0.55
Consensus pattern (26 bp):
AATTTATTTTTATATTATGAAAAGTA
Found at i:712058 original size:28 final size:28
Alignment explanation
Indices: 711993--712048 Score: 103
Period size: 28 Copynumber: 2.0 Consensus size: 28
711983 AGGATTAAAT
711993 TATAACAAATTTAAAATAAACAAACTAA
1 TATAACAAATTTAAAATAAACAAACTAA
*
712021 TATAACAAATTTAAAATAAACTAACTAA
1 TATAACAAATTTAAAATAAACAAACTAA
712049 CTTTTTAAAT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.62, C:0.11, G:0.00, T:0.27
Consensus pattern (28 bp):
TATAACAAATTTAAAATAAACAAACTAA
Found at i:713453 original size:25 final size:25
Alignment explanation
Indices: 713425--713477 Score: 106
Period size: 25 Copynumber: 2.1 Consensus size: 25
713415 AAAAAAAATC
713425 CTTCAACTCAACTAATTTAAATTTT
1 CTTCAACTCAACTAATTTAAATTTT
713450 CTTCAACTCAACTAATTTAAATTTT
1 CTTCAACTCAACTAATTTAAATTTT
713475 CTT
1 CTT
713478 ACTCGATTCA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 28 1.00
ACGTcount: A:0.34, C:0.21, G:0.00, T:0.45
Consensus pattern (25 bp):
CTTCAACTCAACTAATTTAAATTTT
Found at i:714366 original size:6 final size:6
Alignment explanation
Indices: 714355--714379 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
714345 TAAATTTTAA
714355 TAATTT TAATTT TAATTT TAATTT T
1 TAATTT TAATTT TAATTT TAATTT T
714380 TTATGATATG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (6 bp):
TAATTT
Found at i:720110 original size:25 final size:25
Alignment explanation
Indices: 720078--720130 Score: 106
Period size: 25 Copynumber: 2.1 Consensus size: 25
720068 TAAAAAAATC
720078 CTTCAACTCAACTAATTTAAATTTT
1 CTTCAACTCAACTAATTTAAATTTT
720103 CTTCAACTCAACTAATTTAAATTTT
1 CTTCAACTCAACTAATTTAAATTTT
720128 CTT
1 CTT
720131 ACTCGATTCA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 28 1.00
ACGTcount: A:0.34, C:0.21, G:0.00, T:0.45
Consensus pattern (25 bp):
CTTCAACTCAACTAATTTAAATTTT
Found at i:721019 original size:6 final size:6
Alignment explanation
Indices: 721008--721032 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
720998 TAAATTTTAA
721008 TAATTT TAATTT TAATTT TAATTT T
1 TAATTT TAATTT TAATTT TAATTT T
721033 TTATGATATG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (6 bp):
TAATTT
Found at i:722093 original size:19 final size:17
Alignment explanation
Indices: 722071--722113 Score: 59
Period size: 17 Copynumber: 2.4 Consensus size: 17
722061 TCAGAAATTT
722071 ATATATAATCTAGAAAAAA
1 ATATA-AAT-TAGAAAAAA
*
722090 ATATAAATTATAAAAAA
1 ATATAAATTAGAAAAAA
722107 ATATAAA
1 ATATAAA
722114 AATAAAACTT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 15 0.65
18 3 0.13
19 5 0.22
ACGTcount: A:0.67, C:0.02, G:0.02, T:0.28
Consensus pattern (17 bp):
ATATAAATTAGAAAAAA
Found at i:722311 original size:20 final size:19
Alignment explanation
Indices: 722286--722339 Score: 63
Period size: 20 Copynumber: 2.7 Consensus size: 19
722276 ATTTAAATAC
722286 TTTTTAAATTTTTATAACAT
1 TTTTTAAATTTTTAT-ACAT
* *
722306 TTTTTAATTTTTTATATAT
1 TTTTTAAATTTTTATACAT
*
722325 TATTTTGAATTTTTA
1 T-TTTTAAATTTTTA
722340 AAATTTATAA
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
19 4 0.14
20 25 0.86
ACGTcount: A:0.30, C:0.02, G:0.02, T:0.67
Consensus pattern (19 bp):
TTTTTAAATTTTTATACAT
Found at i:722375 original size:22 final size:23
Alignment explanation
Indices: 722335--722383 Score: 73
Period size: 22 Copynumber: 2.2 Consensus size: 23
722325 TATTTTGAAT
722335 TTTTAAAATTTATAATATTACAA
1 TTTTAAAATTTATAATATTACAA
* *
722358 TTTTAATATTT-TAATATTATAA
1 TTTTAAAATTTATAATATTACAA
722380 TTTT
1 TTTT
722384 CTATTTTTAA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
22 14 0.58
23 10 0.42
ACGTcount: A:0.41, C:0.02, G:0.00, T:0.57
Consensus pattern (23 bp):
TTTTAAAATTTATAATATTACAA
Found at i:722391 original size:22 final size:21
Alignment explanation
Indices: 722341--722393 Score: 61
Period size: 22 Copynumber: 2.4 Consensus size: 21
722331 GAATTTTTAA
*
722341 AATTTATAATATTACAATTTT
1 AATTTTTAATATTACAATTTT
*
722362 AATATTTTAATATTATAATTTT
1 AAT-TTTTAATATTACAATTTT
*
722384 CTATTTTTAA
1 -AATTTTTAA
722394 ATTTAAATTT
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
21 3 0.11
22 22 0.81
23 2 0.07
ACGTcount: A:0.40, C:0.04, G:0.00, T:0.57
Consensus pattern (21 bp):
AATTTTTAATATTACAATTTT
Found at i:722413 original size:21 final size:19
Alignment explanation
Indices: 722336--722421 Score: 55
Period size: 22 Copynumber: 4.1 Consensus size: 19
722326 ATTTTGAATT
*
722336 TTTAAAATTTATAATATTACAA
1 TTTAATATTT-TAAT-TTA-AA
722358 TTTTAATATTTTAATATTATAA
1 -TTTAATATTTTAAT-TTA-AA
**
722380 TTTTCTATTTTTAAATTTAAA
1 TTTAATA-TTTT-AATTTAAA
*
722401 TTTAATATATTTATTTTAAA
1 TTTAATAT-TTTAATTTAAA
722421 T
1 T
722422 AAATCTAATT
Statistics
Matches: 53, Mismatches: 7, Indels: 9
0.77 0.10 0.13
Matches are distributed among these distances:
20 9 0.17
21 15 0.28
22 17 0.32
23 12 0.23
ACGTcount: A:0.41, C:0.02, G:0.00, T:0.57
Consensus pattern (19 bp):
TTTAATATTTTAATTTAAA
Found at i:730703 original size:24 final size:24
Alignment explanation
Indices: 730671--730718 Score: 96
Period size: 24 Copynumber: 2.0 Consensus size: 24
730661 AAATGAGAGT
730671 ATCCAGTCAGCTGATGGGTCGTGA
1 ATCCAGTCAGCTGATGGGTCGTGA
730695 ATCCAGTCAGCTGATGGGTCGTGA
1 ATCCAGTCAGCTGATGGGTCGTGA
730719 TCAAACTCTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.21, C:0.21, G:0.33, T:0.25
Consensus pattern (24 bp):
ATCCAGTCAGCTGATGGGTCGTGA
Found at i:732052 original size:20 final size:21
Alignment explanation
Indices: 732027--732065 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
732017 TTGCTCATCT
732027 TAACAG-CAATGAAAATAACA
1 TAACAGTCAATGAAAATAACA
732047 TAACAGTCAATGAAAATAA
1 TAACAGTCAATGAAAATAA
732066 TGATGACAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 6 0.33
21 12 0.67
ACGTcount: A:0.59, C:0.13, G:0.10, T:0.18
Consensus pattern (21 bp):
TAACAGTCAATGAAAATAACA
Found at i:737061 original size:27 final size:27
Alignment explanation
Indices: 737012--737063 Score: 70
Period size: 27 Copynumber: 1.9 Consensus size: 27
737002 TAAGGTGTCT
*
737012 ATATATAAAGTTTTAATAGATTAAAAG
1 ATATATAAAATTTTAATAGATTAAAAG
*
737039 ATATATAAAATTATTAA-ATATTAAA
1 ATATATAAAATT-TTAATAGATTAAA
737064 TTAAAAATAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
27 18 0.82
28 4 0.18
ACGTcount: A:0.56, C:0.00, G:0.06, T:0.38
Consensus pattern (27 bp):
ATATATAAAATTTTAATAGATTAAAAG
Found at i:737662 original size:60 final size:59
Alignment explanation
Indices: 737594--737705 Score: 143
Period size: 60 Copynumber: 1.9 Consensus size: 59
737584 ATAGTTTTTT
*
737594 TTTCTTTTTGGACACCCAATTATGAAAAGTTACAAAATGGTCACCCAACTATCAATAAA
1 TTTCTTTTTGGACACCCAACTATGAAAAGTTACAAAATGGTCACCCAACTATCAATAAA
* *** ** *
737653 TTTCTTTTTTTGTGGCCCAACTATGAAAAGTTGTAAAATGGTCACTCAACTAT
1 TTTC-TTTTTGGACACCCAACTATGAAAAGTTACAAAATGGTCACCCAACTAT
737706 TAAATTTTGT
Statistics
Matches: 44, Mismatches: 8, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
59 4 0.09
60 40 0.91
ACGTcount: A:0.34, C:0.19, G:0.12, T:0.35
Consensus pattern (59 bp):
TTTCTTTTTGGACACCCAACTATGAAAAGTTACAAAATGGTCACCCAACTATCAATAAA
Found at i:740309 original size:17 final size:18
Alignment explanation
Indices: 740270--740309 Score: 55
Period size: 18 Copynumber: 2.3 Consensus size: 18
740260 GGTATTTGAT
*
740270 AATTTATTGAAATTTTAA
1 AATTTATTGAAATATTAA
740288 AATTTATTGAAA-ATTAA
1 AATTTATTGAAATATTAA
*
740305 TATTT
1 AATTT
740310 TCAGTGTCAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
17 8 0.40
18 12 0.60
ACGTcount: A:0.45, C:0.00, G:0.05, T:0.50
Consensus pattern (18 bp):
AATTTATTGAAATATTAA
Found at i:743741 original size:26 final size:26
Alignment explanation
Indices: 743665--743742 Score: 63
Period size: 26 Copynumber: 3.0 Consensus size: 26
743655 ACCACAACTC
* *
743665 TTATGAGTGTCCTGA-TATATGGTTCT
1 TTATGAGTTTCCTGATTA-ATGGCTCT
** *
743691 TCGTGAGTTT-TTCGATTAAAT-GCTCT
1 TTATGAGTTTCCT-GATT-AATGGCTCT
743717 TTATGAGTTTCCTGATTAATGGCTCT
1 TTATGAGTTTCCTGATTAATGGCTCT
743743 CCGGAGCTTC
Statistics
Matches: 39, Mismatches: 8, Indels: 10
0.68 0.14 0.18
Matches are distributed among these distances:
25 4 0.10
26 30 0.77
27 4 0.10
28 1 0.03
ACGTcount: A:0.19, C:0.14, G:0.21, T:0.46
Consensus pattern (26 bp):
TTATGAGTTTCCTGATTAATGGCTCT
Found at i:743846 original size:48 final size:49
Alignment explanation
Indices: 743794--743910 Score: 123
Period size: 48 Copynumber: 2.4 Consensus size: 49
743784 TAGCTATCCG
* * * * *
743794 GAGCTTCCCGTTAATGGCTCTTCGGAG-TTACCCGTTA-TTGGCTTACAT
1 GAGCTTCCTGTTAATGGCTCTTAGAAGCTT-CCCGTTACATGGCTCACAT
* *
743842 GAGCTTCTTGATTAA-GGCTCTTATAAGCTTCCCGTTACATGGCTCACAT
1 GAGCTTCCTG-TTAATGGCTCTTAGAAGCTTCCCGTTACATGGCTCACAT
743891 GAGCTTCCTGTTATATGGCT
1 GAGCTTCCTGTTA-ATGGCT
743911 TGATAGAGAG
Statistics
Matches: 56, Mismatches: 8, Indels: 8
0.78 0.11 0.11
Matches are distributed among these distances:
48 27 0.48
49 25 0.45
50 4 0.07
ACGTcount: A:0.19, C:0.24, G:0.21, T:0.36
Consensus pattern (49 bp):
GAGCTTCCTGTTAATGGCTCTTAGAAGCTTCCCGTTACATGGCTCACAT
Found at i:746892 original size:50 final size:50
Alignment explanation
Indices: 746838--746963 Score: 234
Period size: 50 Copynumber: 2.5 Consensus size: 50
746828 AGGTCGCATG
746838 TGTAGTACTATGTGCAGCTACTATGCGTACCGGATAGTTTCGATCACGTA
1 TGTAGTACTATGTGCAGCTACTATGCGTACCGGATAGTTTCGATCACGTA
*
746888 TGTAGTACTATGTGCAACTACTATGCGTACCGGATAGTTTCGATCACGTA
1 TGTAGTACTATGTGCAGCTACTATGCGTACCGGATAGTTTCGATCACGTA
746938 TGTAGTACTATGTGCAGGCTACTATG
1 TGTAGTACTATGTGCA-GCTACTATG
746964 TGAACTGGAC
Statistics
Matches: 73, Mismatches: 2, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
50 65 0.89
51 8 0.11
ACGTcount: A:0.25, C:0.19, G:0.24, T:0.33
Consensus pattern (50 bp):
TGTAGTACTATGTGCAGCTACTATGCGTACCGGATAGTTTCGATCACGTA
Found at i:747001 original size:38 final size:39
Alignment explanation
Indices: 746959--747048 Score: 101
Period size: 45 Copynumber: 2.2 Consensus size: 39
746949 GTGCAGGCTA
* *
746959 CTATGTGA-ACTGGACATCATTGATTAATAATGTGGTTG
1 CTATGTGACACCGGACATCATTGATTAATAAGGTGGTTG
746997 CTATGTGCTGATTCCACCGGACATCATTGATTAATAAGGTGGTTG
1 CTA--TG-TGA---CACCGGACATCATTGATTAATAAGGTGGTTG
747042 CTATGTG
1 CTATGTG
747049 TTGAATCCAC
Statistics
Matches: 43, Mismatches: 2, Indels: 10
0.78 0.04 0.18
Matches are distributed among these distances:
38 3 0.07
40 2 0.05
41 3 0.07
42 2 0.05
43 2 0.05
45 31 0.72
ACGTcount: A:0.26, C:0.14, G:0.24, T:0.36
Consensus pattern (39 bp):
CTATGTGACACCGGACATCATTGATTAATAAGGTGGTTG
Found at i:747021 original size:45 final size:45
Alignment explanation
Indices: 746970--747060 Score: 155
Period size: 45 Copynumber: 2.0 Consensus size: 45
746960 TATGTGAACT
* *
746970 GGACATCATTGATTAATAATGTGGTTGCTATGTGCTGATTCCACC
1 GGACATCATTGATTAATAAGGTGGTTGCTATGTGCTGAATCCACC
*
747015 GGACATCATTGATTAATAAGGTGGTTGCTATGTGTTGAATCCACC
1 GGACATCATTGATTAATAAGGTGGTTGCTATGTGCTGAATCCACC
747060 G
1 G
747061 AGTATCTGTT
Statistics
Matches: 43, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
45 43 1.00
ACGTcount: A:0.25, C:0.16, G:0.24, T:0.34
Consensus pattern (45 bp):
GGACATCATTGATTAATAAGGTGGTTGCTATGTGCTGAATCCACC
Found at i:749533 original size:21 final size:21
Alignment explanation
Indices: 749509--749551 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
749499 ATAAAAATAG
749509 TTGCTAAATTCAAGTCCTCAA
1 TTGCTAAATTCAAGTCCTCAA
749530 TTGCTAAATTCAAGTCCTCAA
1 TTGCTAAATTCAAGTCCTCAA
749551 T
1 T
749552 AATGATTTAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.33, C:0.23, G:0.09, T:0.35
Consensus pattern (21 bp):
TTGCTAAATTCAAGTCCTCAA
Found at i:751268 original size:24 final size:25
Alignment explanation
Indices: 751241--751292 Score: 63
Period size: 24 Copynumber: 2.1 Consensus size: 25
751231 AATTTGGAAA
751241 TAATATAATATT-ATTTAAT-AAAAT
1 TAATA-AATATTGATTTAATGAAAAT
* *
751265 TAATAATTATTGTTTTAATGAAAAT
1 TAATAAATATTGATTTAATGAAAAT
751290 TAA
1 TAA
751293 AATTTTAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
23 5 0.21
24 11 0.46
25 8 0.33
ACGTcount: A:0.50, C:0.00, G:0.04, T:0.46
Consensus pattern (25 bp):
TAATAAATATTGATTTAATGAAAAT
Found at i:751485 original size:21 final size:23
Alignment explanation
Indices: 751461--751503 Score: 63
Period size: 21 Copynumber: 2.0 Consensus size: 23
751451 AGGACCTAAC
751461 ATTAACATTT-TAA-AAAAATAA
1 ATTAACATTTCTAATAAAAATAA
*
751482 ATTAACTTTTCTAATAAAAATA
1 ATTAACATTTCTAATAAAAATA
751504 CTAATTAAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 9 0.47
22 3 0.16
23 7 0.37
ACGTcount: A:0.56, C:0.07, G:0.00, T:0.37
Consensus pattern (23 bp):
ATTAACATTTCTAATAAAAATAA
Found at i:751623 original size:17 final size:19
Alignment explanation
Indices: 751596--751630 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
751586 ATTATTTTAA
751596 TTTTATGAA-TTTTAATTT
1 TTTTATGAATTTTTAATTT
751614 TTTTAT-AATTTTTAATT
1 TTTTATGAATTTTTAATT
751631 AATTTATTAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 2 0.12
18 14 0.88
ACGTcount: A:0.29, C:0.00, G:0.03, T:0.69
Consensus pattern (19 bp):
TTTTATGAATTTTTAATTT
Found at i:754307 original size:219 final size:220
Alignment explanation
Indices: 753928--754377 Score: 830
Period size: 219 Copynumber: 2.0 Consensus size: 220
753918 AGATTCAATA
* *
753928 ATTTTGTAAGAAATTTAGTAATTTAAAGGAAACATTACACTATTAGAACAAATTCGGTTATTTTA
1 ATTTTGTAAGAAATTTAGTAATTTAAAGGAAACATTACACTATTAGAACAAATTCCGTAATTTTA
* *
753993 GTAATTCTAGTATTATCTTCATGCTTGAAGAGGTTGGTTGTTAACATATTGAACTAGCTGTCTTT
66 GTAATTCTAGTATTATCTTCATGCTTGAAGAGCTTGGTTGTTAACATATTGAACTAGCCGTCTTT
*
754058 TCGAGGAATTTGCAGTTTTGTTTTCAATACATGTTTGTGGAAAATTCTACAAAATGCACCTTAAA
131 TCGAGGAATTTGCAGTATTGTTTTCAATACATGTTTGTGGAAAATTCTACAAAATGCACCTTAAA
754123 ATGAGTTTCTTACGAG-TCAATAGT
196 ATGAGTTTCTTACGAGCTCAATAGT
*
754147 ATTTTGTAAGAAATTTAGTAATTTAATGGAAACATTACACTATTAGAACAAATTCCGTAATTTTA
1 ATTTTGTAAGAAATTTAGTAATTTAAAGGAAACATTACACTATTAGAACAAATTCCGTAATTTTA
*
754212 GTAATTCTAGTATTATCTTCATGCTTGGAGAGCTTGGTTGTTAACATATTGAACTAGCCGTCTTT
66 GTAATTCTAGTATTATCTTCATGCTTGAAGAGCTTGGTTGTTAACATATTGAACTAGCCGTCTTT
754277 TCGAGGAATTTGCAGTATTGTTTTCAATACATGTTTGTGGAAAATTCTACAAAATGCACCTTAAA
131 TCGAGGAATTTGCAGTATTGTTTTCAATACATGTTTGTGGAAAATTCTACAAAATGCACCTTAAA
754342 ATGAGTTTCTTACGAGCTCAATAGT
196 ATGAGTTTCTTACGAGCTCAATAGT
754367 ATTTTGTAAGA
1 ATTTTGTAAGA
754378 GATTCCGTAG
Statistics
Matches: 223, Mismatches: 7, Indels: 1
0.97 0.03 0.00
Matches are distributed among these distances:
219 204 0.91
220 19 0.09
ACGTcount: A:0.32, C:0.12, G:0.17, T:0.39
Consensus pattern (220 bp):
ATTTTGTAAGAAATTTAGTAATTTAAAGGAAACATTACACTATTAGAACAAATTCCGTAATTTTA
GTAATTCTAGTATTATCTTCATGCTTGAAGAGCTTGGTTGTTAACATATTGAACTAGCCGTCTTT
TCGAGGAATTTGCAGTATTGTTTTCAATACATGTTTGTGGAAAATTCTACAAAATGCACCTTAAA
ATGAGTTTCTTACGAGCTCAATAGT
Found at i:760808 original size:207 final size:205
Alignment explanation
Indices: 760389--760874 Score: 540
Period size: 207 Copynumber: 2.4 Consensus size: 205
760379 TGCTCAGATT
* * * *
760389 CTTCATTCTTTTTGAAGTA-CCCGTCTGACATTAGTGCTTGATACATGGACATGGAGACACGACC
1 CTTCATTCTTTTTGAAGTACCCCGTC-GACATTAGTGTTTGATACACGGATATGGAGACATGACC
* * *
760453 TTCAAAGATCCCTTAATATATGGAAAAACTTGACAAAGTCTAATCATACCCACGTCGGGGATATT
65 TCCAAAGATCCCTTAATATATGG----ACTTGACAAAATCTAATCATACCCACGTCGGGGATACT
* * *
760518 CACACCTGAGTCGAGTAACATATGAACAATGCCGGTGCAACGAAGAACTAAAATGAAAAACCATC
126 CAAACCCGAGTCGAGTAACATATGAACAATGCCGGTGCAACCAAGAACTAAAATGAAAAACCATC
760583 TACCCCAATTGTTGG
191 TACCCCAATTGTTGG
* *
760598 CTTCATTCTTCTTGAAGTACCCCTGTCCGACATCAGTGTTTGATACACGGATATGGAGACATGAC
1 CTTCATTCTTTTTGAAGTACCCC-GT-CGACATTAGTGTTTGATACACGGATATGGAGACATGAC
* * * * **
760663 CCCCAAAGATCCCTTAATATATGG-TTTTA-AAACATCTAATCATACTCGTGTCGGGGACT-CTC
64 CTCCAAAGATCCCTTAATATATGGACTTGACAAA-ATCTAATCATACCCACGTCGGGGA-TACTC
* * * * *
760725 AAACCCGAGTCTAGGTAAACCTATG-ACAATGCCGGTGTAACCAAGAACTTACAA-GAAAAACTA
127 AAACCCGAGTCGA-GT-AACATATGAACAATGCCGGTGCAACCAAGAAC-TAAAATGAAAAACCA
760788 TCTACTCCC-ATTGTTGG
189 TCTAC-CCCAATTGTTGG
* ** * *
760805 CTTCATTCTTTTTGAAGCACCCC-T-GACATTAGTGTCCGATACACGGATATCGATACATGACCT
1 CTTCATTCTTTTTGAAGTACCCCGTCGACATTAGTGTTTGATACACGGATATGGAGACATGACCT
760868 CCAAAGA
66 CCAAAGA
760875 ACCCCAATGT
Statistics
Matches: 237, Mismatches: 31, Indels: 24
0.81 0.11 0.08
Matches are distributed among these distances:
203 40 0.17
205 4 0.02
206 35 0.15
207 66 0.28
208 14 0.06
209 18 0.08
210 3 0.01
211 56 0.24
212 1 0.00
ACGTcount: A:0.32, C:0.24, G:0.17, T:0.27
Consensus pattern (205 bp):
CTTCATTCTTTTTGAAGTACCCCGTCGACATTAGTGTTTGATACACGGATATGGAGACATGACCT
CCAAAGATCCCTTAATATATGGACTTGACAAAATCTAATCATACCCACGTCGGGGATACTCAAAC
CCGAGTCGAGTAACATATGAACAATGCCGGTGCAACCAAGAACTAAAATGAAAAACCATCTACCC
CAATTGTTGG
Found at i:761798 original size:59 final size:59
Alignment explanation
Indices: 761732--761865 Score: 180
Period size: 59 Copynumber: 2.3 Consensus size: 59
761722 AACTACACTG
* * * * *
761732 ATAGTCACCCAACTATGATTTTTTT-CTTTTTTGGTCATTCAACTATGAATAGTTACAAC
1 ATAGTCACCCAACTATGATTTTTTTCCTTTTTTAGTCA-CCAACCATGAAAAGTTACAAA
* *
761791 ATGGTCACCCAACTATGGTTTTTTTCCTTTTTTAGTCACCAACCATGAAAAGTTACAAA
1 ATAGTCACCCAACTATGATTTTTTTCCTTTTTTAGTCACCAACCATGAAAAGTTACAAA
*
761850 ATAGTCACTCAACTAT
1 ATAGTCACCCAACTAT
761866 TCAATTTTTT
Statistics
Matches: 65, Mismatches: 9, Indels: 2
0.86 0.12 0.03
Matches are distributed among these distances:
59 54 0.83
60 11 0.17
ACGTcount: A:0.31, C:0.21, G:0.10, T:0.38
Consensus pattern (59 bp):
ATAGTCACCCAACTATGATTTTTTTCCTTTTTTAGTCACCAACCATGAAAAGTTACAAA
Found at i:766785 original size:183 final size:176
Alignment explanation
Indices: 766406--766894 Score: 657
Period size: 183 Copynumber: 2.8 Consensus size: 176
766396 TAAAACTAGA
766406 GTAAACCATAAAATACCAGGAAAAAGCTTCTGCATTCATAAAAAAG---AATCTCTAGAACTAGG
1 GTAAACCATAAAATACCAGGAAAAAGCTTCTGCATTCATAAAAAAGAAAAATCTCTAGAACTAGG
* * *
766468 CTTTAAAAATTCAGT-AAAAGTCATTCAACATGAAAATATGAT---AAAATAAAAAGGGTATTCT
66 CTGTAAAAATTCAGTAAAAAGTCATTCAACATGTAAATATGATAAAAAAATAAAAAGGGTATTCA
*
766529 AAGAATTAAGCTTTATTTTTAACGAAAATACATAGAATTAAGCTGG
131 AAGAATTAAGCTTTATTTTTAACGAAAATACAGAGAATTAAGCTGG
*
766575 GTAAACCATAAAATACCAGGAAAAAGCTTCTGCATTCATAAAAAAGAAAAATCTATAGAACTTAG
1 GTAAACCATAAAATACCAGGAAAAAGCTTCTGCATTCATAAAAAAGAAAAATCTCTAGAAC-TAG
*
766640 GCTGTAAAAATTCAGTAAAAAGTCATTCGACATGTAAATATGATAAAACAAACTACAAAAAAAGG
65 GCTGTAAAAATTCAGTAAAAAGTCATTCAACATGTAAATATGATAAAA-AAA-T----AAAAAGG
*
766705 GTATTCAAAGAATTAAGCTTTAATTTTT-ATGAAAATACAGAGAATTAAGCTCGG
124 GTATTCAAAGAATTAAGCTTT-ATTTTTAACGAAAATACAGAGAATTAAGCT-GG
*
766759 GTAAACCATAAAATACCAGG-AAAAGCTTCTGCATTCAT----GA-AAAAATCTCTAGAACTAGG
1 GTAAACCATAAAATACCAGGAAAAAGCTTCTGCATTCATAAAAAAGAAAAATCTCTAGAACTAGG
* * * * * *
766818 CTGTAAAAGATTCGGTAAAAA-TCATCCAACATGTAAATATGATCAAAAAACAGACAGGGTATTC
66 CTGTAAAA-ATTCAGTAAAAAGTCATTCAACATGTAAATATGATAAAAAAATAAAAAGGGTATTC
766882 AAAGAATTAAGCT
130 AAAGAATTAAGCT
766895 CGGGTAAACC
Statistics
Matches: 287, Mismatches: 16, Indels: 32
0.86 0.05 0.10
Matches are distributed among these distances:
169 46 0.16
171 24 0.08
172 11 0.04
173 18 0.06
174 25 0.09
176 3 0.01
177 36 0.13
178 28 0.10
179 2 0.01
183 66 0.23
184 28 0.10
ACGTcount: A:0.47, C:0.13, G:0.14, T:0.25
Consensus pattern (176 bp):
GTAAACCATAAAATACCAGGAAAAAGCTTCTGCATTCATAAAAAAGAAAAATCTCTAGAACTAGG
CTGTAAAAATTCAGTAAAAAGTCATTCAACATGTAAATATGATAAAAAAATAAAAAGGGTATTCA
AAGAATTAAGCTTTATTTTTAACGAAAATACAGAGAATTAAGCTGG
Found at i:766906 original size:139 final size:140
Alignment explanation
Indices: 766745--767018 Score: 439
Period size: 140 Copynumber: 2.0 Consensus size: 140
766735 GAAAATACAG
* *
766745 AGAATTAAGCTCGGGTAAACCATAAAATACCAGGAAAAGCTTCTGCATTCATGAAAAA-ATCTCT
1 AGAATTAAGCTCGGGTAAACCATAAAATACCAAGAAAAGCTTCTGCATTCATAAAAAAGATCTCT
* * *
766809 AGAACTAGGCTGTAAA-AGATTCGGTAAAAATCA-TCCAACATGTAAATATGATCAAA-AAACAG
66 AGAACTAGGCTGTAAATA-ATTCAGTAAAAACCACT-CAACATGTAAATATGAT-AAAGAAACAA
*
766871 ACAGGGTATTCAA
128 AAAGGGTATTCAA
766884 AGAATTAAGCTCGGGTAAACCATAAAATACCAAGAAAAGCTTCTGCATTCATAAAAAAGATCTCT
1 AGAATTAAGCTCGGGTAAACCATAAAATACCAAGAAAAGCTTCTGCATTCATAAAAAAGATCTCT
766949 AGAACTAGGCTGTAAATAATTCAGTAAAAACCACTCAACATGTAAATATGATAAAGAAACAAAAA
66 AGAACTAGGCTGTAAATAATTCAGTAAAAACCACTCAACATGTAAATATGATAAAGAAACAAAAA
767014 GGGTA
131 GGGTA
767019 GAGTGGAGAT
Statistics
Matches: 125, Mismatches: 6, Indels: 7
0.91 0.04 0.05
Matches are distributed among these distances:
139 59 0.47
140 64 0.51
141 2 0.02
ACGTcount: A:0.46, C:0.16, G:0.16, T:0.22
Consensus pattern (140 bp):
AGAATTAAGCTCGGGTAAACCATAAAATACCAAGAAAAGCTTCTGCATTCATAAAAAAGATCTCT
AGAACTAGGCTGTAAATAATTCAGTAAAAACCACTCAACATGTAAATATGATAAAGAAACAAAAA
GGGTATTCAA
Done.