Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold164
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: 2248410
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 25 characters in sequence are not A, C, G, or T
File 1 of 15
Found at i:516 original size:2 final size:2
Alignment explanation
Indices: 507--541 Score: 63
Period size: 2 Copynumber: 18.0 Consensus size: 2
497 TATTTTTTCA
507 AT AT -T AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
542 TTCAACCAAG
Statistics
Matches: 32, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 31 0.97
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
AT
Found at i:817 original size:25 final size:23
Alignment explanation
Indices: 775--821 Score: 67
Period size: 25 Copynumber: 2.0 Consensus size: 23
765 TCCCTTATTT
*
775 TTTAAAATTTTAATCTATTTTTC
1 TTTAAAATTTTAAACTATTTTTC
798 TTTAAAATATATTAAACTATTTTT
1 TTTAAAAT-T-TTAAACTATTTTT
822 TAAAATAGTT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 8 0.38
24 1 0.05
25 12 0.57
ACGTcount: A:0.36, C:0.06, G:0.00, T:0.57
Consensus pattern (23 bp):
TTTAAAATTTTAAACTATTTTTC
Found at i:826 original size:22 final size:21
Alignment explanation
Indices: 770--828 Score: 66
Period size: 22 Copynumber: 2.7 Consensus size: 21
760 ACCATTCCCT
*
770 TATTTTTTAAAAT-TTTAATC
1 TATTTTTTAAAATATTTAAAC
790 TATTTTTCTTTAAAATATATTAAAC
1 TA--TTT-TTTAAAATAT-TTAAAC
815 TATTTTTTAAAATA
1 TATTTTTTAAAATA
829 GTTTTCTTTT
Statistics
Matches: 33, Mismatches: 1, Indels: 8
0.79 0.02 0.19
Matches are distributed among these distances:
20 2 0.06
22 12 0.36
23 11 0.33
24 1 0.03
25 7 0.21
ACGTcount: A:0.39, C:0.05, G:0.00, T:0.56
Consensus pattern (21 bp):
TATTTTTTAAAATATTTAAAC
Found at i:3032 original size:12 final size:12
Alignment explanation
Indices: 2971--3059 Score: 63
Period size: 12 Copynumber: 6.9 Consensus size: 12
2961 TTTAATATTG
*
2971 AATATTATGTGTA
1 AATATTAT-TTTA
2984 TAATA-TATTTATA
1 -AATATTATTT-TA
2997 AATATTATTTTGTA
1 AATATTA-TTT-TA
* *
3011 CATTATTTATTTAA
1 -AATA-TTATTTTA
*
3025 AATATTATTTTC
1 AATATTATTTTA
*
3037 AATATAATTTTA
1 AATATTATTTTA
3049 AATATTATTTT
1 AATATTATTTT
3060 TAAGTATAAT
Statistics
Matches: 60, Mismatches: 10, Indels: 12
0.73 0.12 0.15
Matches are distributed among these distances:
12 31 0.52
13 10 0.17
14 10 0.17
15 6 0.10
16 3 0.05
ACGTcount: A:0.39, C:0.02, G:0.03, T:0.55
Consensus pattern (12 bp):
AATATTATTTTA
Found at i:3048 original size:25 final size:27
Alignment explanation
Indices: 3020--3086 Score: 88
Period size: 24 Copynumber: 2.6 Consensus size: 27
3010 ACATTATTTA
3020 TTTAAAATATTATTTTCAA-TATAA-T
1 TTTAAAATATTATTTTCAAGTATAATT
*
3045 TTT-AAATATTATTTTTAAGTATAATT
1 TTTAAAATATTATTTTCAAGTATAATT
3071 TATTAAAATA-TATTTT
1 T-TTAAAATATTATTTT
3087 GATATTTCAT
Statistics
Matches: 37, Mismatches: 1, Indels: 6
0.84 0.02 0.14
Matches are distributed among these distances:
24 14 0.38
25 8 0.22
26 2 0.05
27 8 0.22
28 5 0.14
ACGTcount: A:0.42, C:0.01, G:0.01, T:0.55
Consensus pattern (27 bp):
TTTAAAATATTATTTTCAAGTATAATT
Found at i:3099 original size:52 final size:51
Alignment explanation
Indices: 2985--3129 Score: 136
Period size: 52 Copynumber: 2.7 Consensus size: 51
2975 TTATGTGTAT
2985 AATAT-ATTTATAAATATTATTTTGTACAT-T-ATTTATTTAAAATATTATTTTC
1 AATATAATTT-TAAATATTATTTT-TA-ATATAATTTA-TTAAAATATTATTTTC
*
3037 AATATAATTTTAAATATTATTTTTAAGTATAATTTATTAAAATA-TATTTTG
1 AATATAATTTTAAATATTATTTTTAA-TATAATTTATTAAAATATTATTTTC
* * *
3088 ATATTTCATTTTTATCAATATATATTTTTAAAATAATTTATT
1 A-ATAT-AATTTTA--AATAT-TATTTTTAATATAATTTATT
3130 GTTTTAATTT
Statistics
Matches: 80, Mismatches: 4, Indels: 15
0.81 0.04 0.15
Matches are distributed among these distances:
50 1 0.01
51 10 0.12
52 30 0.38
53 15 0.19
55 15 0.19
56 9 0.11
ACGTcount: A:0.40, C:0.03, G:0.02, T:0.55
Consensus pattern (51 bp):
AATATAATTTTAAATATTATTTTTAATATAATTTATTAAAATATTATTTTC
Found at i:5348 original size:2 final size:2
Alignment explanation
Indices: 5341--5382 Score: 84
Period size: 2 Copynumber: 21.0 Consensus size: 2
5331 AGCATTATTT
5341 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
5383 CCCTAACCTT
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 40 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:8179 original size:2 final size:2
Alignment explanation
Indices: 8172--8217 Score: 92
Period size: 2 Copynumber: 23.0 Consensus size: 2
8162 AAAGACTTTC
8172 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
8214 AT AT
1 AT AT
8218 TTGCTATTAC
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 44 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:11842 original size:20 final size:20
Alignment explanation
Indices: 11814--11853 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
11804 TTTAATAATG
* *
11814 AAATTTTAAATTAAATTATA
1 AAATATTAAATTAAAATATA
*
11834 AAATATTAATTTAAAATATA
1 AAATATTAAATTAAAATATA
11854 TTAACTATAA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.42
Consensus pattern (20 bp):
AAATATTAAATTAAAATATA
Found at i:14131 original size:20 final size:20
Alignment explanation
Indices: 14108--14164 Score: 114
Period size: 20 Copynumber: 2.9 Consensus size: 20
14098 AAGTACCCAG
14108 ATGTATCGATACATTCTTCA
1 ATGTATCGATACATTCTTCA
14128 ATGTATCGATACATTCTTCA
1 ATGTATCGATACATTCTTCA
14148 ATGTATCGATACATTCT
1 ATGTATCGATACATTCT
14165 GTTTTTTTAC
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 37 1.00
ACGTcount: A:0.30, C:0.19, G:0.11, T:0.40
Consensus pattern (20 bp):
ATGTATCGATACATTCTTCA
Found at i:14191 original size:31 final size:31
Alignment explanation
Indices: 14148--14219 Score: 110
Period size: 31 Copynumber: 2.4 Consensus size: 31
14138 ACATTCTTCA
* * *
14148 ATGTATCGATACATTCTGTTTTTTTACCCAG
1 ATGTATCAATACATTCTGTCTTGTTACCCAG
14179 ATGTATCAATACATTCTGTCTTGTTACCCAG
1 ATGTATCAATACATTCTGTCTTGTTACCCAG
14210 ATGT-TCAATA
1 ATGTATCAATA
14220 TATCGATACA
Statistics
Matches: 38, Mismatches: 3, Indels: 1
0.90 0.07 0.02
Matches are distributed among these distances:
30 6 0.16
31 32 0.84
ACGTcount: A:0.26, C:0.19, G:0.12, T:0.42
Consensus pattern (31 bp):
ATGTATCAATACATTCTGTCTTGTTACCCAG
Found at i:20655 original size:52 final size:52
Alignment explanation
Indices: 20519--20655 Score: 132
Period size: 52 Copynumber: 2.6 Consensus size: 52
20509 GCTTGCATGC
* * * * * * * *
20519 ATCGATATATTGAAGAATCTATCCATACATTTAGGTCAAAAACTTAGAATTT
1 ATCGATACAATGAAAAATATATCAATACATTTTGGTCAAAAACCTAGAATGT
* * * * *
20571 ATTGATATAATGAAAAATGTATTAATATATTTTGGTCAAAAACCTAGAATGT
1 ATCGATACAATGAAAAATATATCAATACATTTTGGTCAAAAACCTAGAATGT
*
20623 ATCGATACAAT-AAAAACTATATCGATACATTTT
1 ATCGATACAATGAAAAA-TATATCAATACATTTT
20656 CTTTTTAGAA
Statistics
Matches: 68, Mismatches: 16, Indels: 2
0.79 0.19 0.02
Matches are distributed among these distances:
51 5 0.07
52 63 0.93
ACGTcount: A:0.43, C:0.11, G:0.11, T:0.35
Consensus pattern (52 bp):
ATCGATACAATGAAAAATATATCAATACATTTTGGTCAAAAACCTAGAATGT
Found at i:20733 original size:20 final size:20
Alignment explanation
Indices: 20710--20763 Score: 65
Period size: 20 Copynumber: 2.6 Consensus size: 20
20700 CATTTCAAGC
*
20710 ATGTATCAATACATTCA-CTT
1 ATGTATCGATACATT-ATCTT
*
20730 ATGTATCGATATATTATCTT
1 ATGTATCGATACATTATCTT
20750 ATTGTATCGATACA
1 A-TGTATCGATACA
20764 AATTATTGAA
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
19 1 0.03
20 17 0.59
21 11 0.38
ACGTcount: A:0.33, C:0.15, G:0.09, T:0.43
Consensus pattern (20 bp):
ATGTATCGATACATTATCTT
Found at i:21797 original size:17 final size:17
Alignment explanation
Indices: 21775--21815 Score: 57
Period size: 17 Copynumber: 2.5 Consensus size: 17
21765 TTTAATTATG
21775 AATATATTATAAATATT
1 AATATATTATAAATATT
**
21792 AATATAAAATAAATATT
1 AATATATTATAAATATT
21809 AA-ATATT
1 AATATATT
21816 TTAATATTTT
Statistics
Matches: 20, Mismatches: 4, Indels: 1
0.80 0.16 0.04
Matches are distributed among these distances:
16 3 0.15
17 17 0.85
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (17 bp):
AATATATTATAAATATT
Found at i:25478 original size:25 final size:26
Alignment explanation
Indices: 25422--25472 Score: 86
Period size: 25 Copynumber: 2.0 Consensus size: 26
25412 ATTTAAATTG
*
25422 AAATAATTTTAAATTTTAAAATATTT
1 AAATTATTTTAAATTTTAAAATATTT
25448 AAATTATTTTAAA-TTTAAAATATTT
1 AAATTATTTTAAATTTTAAAATATTT
25473 TTATTAAATT
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
25 12 0.50
26 12 0.50
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (26 bp):
AAATTATTTTAAATTTTAAAATATTT
Found at i:25482 original size:30 final size:31
Alignment explanation
Indices: 25446--25513 Score: 102
Period size: 30 Copynumber: 2.2 Consensus size: 31
25436 TTTAAAATAT
*
25446 TTAAATTATTTTAAATTTAAAATA-TTTTTA
1 TTAAATTATTTTAAATTTAAAATACTTTTGA
* *
25476 TTAAATTATTTTAAATTTGAATTACTTTTGA
1 TTAAATTATTTTAAATTTAAAATACTTTTGA
25507 TTAAATT
1 TTAAATT
25514 TCTCTTGAAT
Statistics
Matches: 34, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
30 22 0.65
31 12 0.35
ACGTcount: A:0.40, C:0.01, G:0.03, T:0.56
Consensus pattern (31 bp):
TTAAATTATTTTAAATTTAAAATACTTTTGA
Found at i:25485 original size:14 final size:16
Alignment explanation
Indices: 25444--25546 Score: 81
Period size: 16 Copynumber: 6.6 Consensus size: 16
25434 ATTTTAAAAT
25444 ATTTAAATTATTTTAA
1 ATTTAAATTATTTTAA
* *
25460 ATTTAAAATATTTT-T
1 ATTTAAATTATTTTAA
25475 A-TTAAATTATTTTAA
1 ATTTAAATTATTTTAA
* *
25490 ATTTGAATTACTTTT-G
1 ATTTAAATTA-TTTTAA
*
25506 A-TTAAATT-TCTCTTGA
1 ATTTAAATTAT-T-TTAA
* *
25522 ATTTGAATAATTTTAA
1 ATTTAAATTATTTTAA
25538 ATTTAAATT
1 ATTTAAATT
25547 GTATTTGATT
Statistics
Matches: 66, Mismatches: 13, Indels: 16
0.69 0.14 0.17
Matches are distributed among these distances:
13 1 0.02
14 12 0.18
15 10 0.15
16 32 0.48
17 10 0.15
18 1 0.02
ACGTcount: A:0.39, C:0.03, G:0.04, T:0.54
Consensus pattern (16 bp):
ATTTAAATTATTTTAA
Found at i:25903 original size:16 final size:15
Alignment explanation
Indices: 25884--25954 Score: 61
Period size: 16 Copynumber: 4.5 Consensus size: 15
25874 AATAATTTCG
25884 ATTTTAAGTCATTTTA
1 ATTTTAA-TCATTTTA
*
25900 ATTTTAAACTATTTTA
1 ATTTTAATC-ATTTTA
*
25916 ATTTATAATAATTTTTA
1 ATTT-TAATCA-TTTTA
* *
25933 ATTTAAATTATTTTA
1 ATTTTAATCATTTTA
*
25948 AATTTAA
1 ATTTTAA
25955 ATCAGTTAGA
Statistics
Matches: 45, Mismatches: 7, Indels: 7
0.76 0.12 0.12
Matches are distributed among these distances:
15 11 0.24
16 22 0.49
17 12 0.27
ACGTcount: A:0.39, C:0.03, G:0.01, T:0.56
Consensus pattern (15 bp):
ATTTTAATCATTTTA
Found at i:25955 original size:16 final size:16
Alignment explanation
Indices: 25894--25956 Score: 74
Period size: 16 Copynumber: 3.9 Consensus size: 16
25884 ATTTTAAGTC
* *
25894 ATTTTAATTTTAAACT
1 ATTTTAAATTTAAATT
*
25910 ATTTT-AATTTATAATA
1 ATTTTAAATTTA-AATT
*
25926 ATTTTTAATTTAAATT
1 ATTTTAAATTTAAATT
25942 ATTTTAAATTTAAAT
1 ATTTTAAATTTAAAT
25957 CAGTTAGATT
Statistics
Matches: 40, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
15 5 0.12
16 29 0.73
17 6 0.15
ACGTcount: A:0.41, C:0.02, G:0.00, T:0.57
Consensus pattern (16 bp):
ATTTTAAATTTAAATT
Found at i:26441 original size:21 final size:20
Alignment explanation
Indices: 26407--26447 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 20
26397 AATTTAAAAT
26407 AAAATAACAAATTAATTATG
1 AAAATAACAAATTAATTATG
*
26427 AAAATAAATAAATTAATTATG
1 AAAAT-AACAAATTAATTATG
26448 TTAAATATTT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 5 0.26
21 14 0.74
ACGTcount: A:0.61, C:0.02, G:0.05, T:0.32
Consensus pattern (20 bp):
AAAATAACAAATTAATTATG
Found at i:26638 original size:2 final size:2
Alignment explanation
Indices: 26532--26629 Score: 75
Period size: 2 Copynumber: 51.5 Consensus size: 2
26522 TTCTTAACGT
* * * *
26532 TA TA TA TA TA TA TA GA TA TA TA -A TA T- TT TG TA TA -A CA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
*
26571 TA TA -A TCC T- TA T- TA TA TCA -A TA TA TA TA TA TA TA TA TA TA
1 TA TA TA T-A TA TA TA TA TA T-A TA TA TA TA TA TA TA TA TA TA TA
*
26611 TA TA TA TA TA TA TA CA TA T
1 TA TA TA TA TA TA TA TA TA T
26630 GTGTATATAA
Statistics
Matches: 79, Mismatches: 8, Indels: 18
0.75 0.08 0.17
Matches are distributed among these distances:
1 7 0.09
2 70 0.89
3 2 0.03
ACGTcount: A:0.46, C:0.05, G:0.02, T:0.47
Consensus pattern (2 bp):
TA
Found at i:33552 original size:3 final size:3
Alignment explanation
Indices: 33544--33584 Score: 73
Period size: 3 Copynumber: 13.7 Consensus size: 3
33534 AATTTAAAGC
*
33544 TTA TTA TTA TTA TTA TTA TTA TTA TTA TCA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
33585 GCTGTTGTAT
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 36 1.00
ACGTcount: A:0.32, C:0.02, G:0.00, T:0.66
Consensus pattern (3 bp):
TTA
Found at i:39510 original size:14 final size:14
Alignment explanation
Indices: 39491--39521 Score: 62
Period size: 14 Copynumber: 2.2 Consensus size: 14
39481 CAGTTTTGAT
39491 TGGCCAACTTATTG
1 TGGCCAACTTATTG
39505 TGGCCAACTTATTG
1 TGGCCAACTTATTG
39519 TGG
1 TGG
39522 TTGTTGCAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.19, C:0.19, G:0.26, T:0.35
Consensus pattern (14 bp):
TGGCCAACTTATTG
Found at i:49765 original size:2 final size:2
Alignment explanation
Indices: 49758--49787 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
49748 AAAGAAATCC
49758 AT AT AT AT AT AT AT AT AT AT AT AT A- AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
49788 CATACACACA
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 26 0.96
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:50708 original size:2 final size:2
Alignment explanation
Indices: 50701--50744 Score: 88
Period size: 2 Copynumber: 22.0 Consensus size: 2
50691 CTCATTCGAA
50701 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
50743 AT
1 AT
50745 TATTTTGATG
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 42 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:51483 original size:19 final size:18
Alignment explanation
Indices: 51441--51484 Score: 52
Period size: 19 Copynumber: 2.4 Consensus size: 18
51431 ATATAAAAAT
51441 TTATAAATTTTAATATAA
1 TTATAAATTTTAATATAA
** *
51459 AAATAATATTTTAATATTA
1 TTATAA-ATTTTAATATAA
51478 TTATAAA
1 TTATAAA
51485 CAGTAAAAAA
Statistics
Matches: 20, Mismatches: 5, Indels: 2
0.74 0.19 0.07
Matches are distributed among these distances:
18 5 0.25
19 15 0.75
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (18 bp):
TTATAAATTTTAATATAA
Found at i:51765 original size:79 final size:78
Alignment explanation
Indices: 51674--51982 Score: 415
Period size: 79 Copynumber: 3.9 Consensus size: 78
51664 AATAATATAT
*
51674 ATATATATATTATAAAGGTTGGAACAGTAGTTTCCAAGGCATTAAAGCGAGGACAAAGGGAAAAG
1 ATATATATATTATAAAGGTTGGAACAGTAGTTTCCAAGGCATTAAAGAGAGGACAAAGGGAAAAG
*
51739 CGAGTAGAGTATG
66 CAAGTAGAGTATG
* * * * *
51752 CATATATGTATTATAATGGTTGGAACGGTAGTTTCCAAGGCGTTAAAGAGCGGACAAAGGGAAAA
1 -ATATATATATTATAAAGGTTGGAACAGTAGTTTCCAAGGCATTAAAGAGAGGACAAAGGGAAAA
*
51817 GCGAGTAGAGTATG
65 GCAAGTAGAGTATG
** * * *
51831 TATATATATATTGCAAATGTTGGAACAGTAGTTTCCAAGGCATTAAGGAGACGACAAAGGGAAAA
1 -ATATATATATTATAAAGGTTGGAACAGTAGTTTCCAAGGCATTAAAGAGAGGACAAAGGGAAAA
*
51896 CCAAGTAGAGTATG
65 GCAAGTAGAGTATG
* * * *
51910 -TACATATATCATAAAGGTTGGAACAGTAGTTTCCAAGGCATTAAAGCA-AGGACAAAGGCAAAG
1 ATATATATATTATAAAGGTTGGAACAGTAGTTTCCAAGGCATTAAAG-AGAGGACAAAGGGAAAA
51973 GCAAGTAGAG
65 GCAAGTAGAG
51983 AAAAGGCCAC
Statistics
Matches: 200, Mismatches: 29, Indels: 4
0.86 0.12 0.02
Matches are distributed among these distances:
77 61 0.31
78 1 0.00
79 138 0.69
ACGTcount: A:0.40, C:0.11, G:0.27, T:0.23
Consensus pattern (78 bp):
ATATATATATTATAAAGGTTGGAACAGTAGTTTCCAAGGCATTAAAGAGAGGACAAAGGGAAAAG
CAAGTAGAGTATG
Found at i:54084 original size:2 final size:2
Alignment explanation
Indices: 54072--54100 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
54062 CTATTTCCTT
54072 TA TA T- TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
54101 ATGAAATATA
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 25 0.96
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:56648 original size:3 final size:3
Alignment explanation
Indices: 56640--56677 Score: 76
Period size: 3 Copynumber: 12.7 Consensus size: 3
56630 ACTTTTTGGA
56640 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
56678 ATCTTTCCTT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:58075 original size:22 final size:20
Alignment explanation
Indices: 58028--58075 Score: 60
Period size: 20 Copynumber: 2.3 Consensus size: 20
58018 TTTTTATTAA
*
58028 TTATATTTATTACATTATTT
1 TTATATTTATTAAATTATTT
*
58048 TCATATTTATTAAATAATATTT
1 TTATATTTATTAAAT--TATTT
58070 TTATAT
1 TTATAT
58076 AATATTTAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
20 13 0.57
22 10 0.43
ACGTcount: A:0.35, C:0.04, G:0.00, T:0.60
Consensus pattern (20 bp):
TTATATTTATTAAATTATTT
Found at i:58079 original size:13 final size:14
Alignment explanation
Indices: 58050--58083 Score: 52
Period size: 13 Copynumber: 2.5 Consensus size: 14
58040 CATTATTTTC
58050 ATATTTATTAAATA
1 ATATTTATTAAATA
*
58064 ATATTT-TTATATA
1 ATATTTATTAAATA
58077 ATATTTA
1 ATATTTA
58084 AAATTATTAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
13 12 0.67
14 6 0.33
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (14 bp):
ATATTTATTAAATA
Found at i:59653 original size:2 final size:2
Alignment explanation
Indices: 59646--59672 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
59636 GTGTCTCTGG
59646 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
59673 GTAATATTAC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:60452 original size:23 final size:23
Alignment explanation
Indices: 60424--60470 Score: 67
Period size: 23 Copynumber: 2.0 Consensus size: 23
60414 TTTTGTTATT
*
60424 TATTTATCAATTAATTTACTATA
1 TATTTATAAATTAATTTACTATA
* *
60447 TATTTATAAATTTATTTAGTATA
1 TATTTATAAATTAATTTACTATA
60470 T
1 T
60471 TATATTAACA
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:0.38, C:0.04, G:0.02, T:0.55
Consensus pattern (23 bp):
TATTTATAAATTAATTTACTATA
Found at i:61856 original size:13 final size:13
Alignment explanation
Indices: 61838--61862 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
61828 CATAAAATGT
61838 TGTATCGATACAA
1 TGTATCGATACAA
61851 TGTATCGATACA
1 TGTATCGATACA
61863 TATTTTTTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:61860 original size:33 final size:33
Alignment explanation
Indices: 61818--61887 Score: 104
Period size: 33 Copynumber: 2.1 Consensus size: 33
61808 TTCAACGATT
61818 TGTATCGATACATAAAATGTTGTATCGATACAA
1 TGTATCGATACATAAAATGTTGTATCGATACAA
*** *
61851 TGTATCGATACATATTTTTTTGTATCGATACAA
1 TGTATCGATACATAAAATGTTGTATCGATACAA
61884 TGTA
1 TGTA
61888 AGCTACTGCC
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.34, C:0.11, G:0.14, T:0.40
Consensus pattern (33 bp):
TGTATCGATACATAAAATGTTGTATCGATACAA
Found at i:61919 original size:57 final size:57
Alignment explanation
Indices: 61849--61977 Score: 258
Period size: 57 Copynumber: 2.3 Consensus size: 57
61839 GTATCGATAC
61849 AATGTATCGATACATATTTTTTTGTATCGATACAATGTAAGCTACTGCCAAAAAAAA
1 AATGTATCGATACATATTTTTTTGTATCGATACAATGTAAGCTACTGCCAAAAAAAA
61906 AATGTATCGATACATATTTTTTTGTATCGATACAATGTAAGCTACTGCCAAAAAAAA
1 AATGTATCGATACATATTTTTTTGTATCGATACAATGTAAGCTACTGCCAAAAAAAA
61963 AATGTATCGATACAT
1 AATGTATCGATACAT
61978 TACTCACATG
Statistics
Matches: 72, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
57 72 1.00
ACGTcount: A:0.40, C:0.14, G:0.12, T:0.33
Consensus pattern (57 bp):
AATGTATCGATACATATTTTTTTGTATCGATACAATGTAAGCTACTGCCAAAAAAAA
Found at i:61994 original size:58 final size:57
Alignment explanation
Indices: 61871--62002 Score: 201
Period size: 57 Copynumber: 2.3 Consensus size: 57
61861 CATATTTTTT
* ****
61871 TGTATCGATACAATGTAAGCTACTGCCAAAAAAAAAATGTATCGATACATATTTTTT
1 TGTATCGATACAATGTAAGCTACTGCCAAAAAAAAAATGTATCGATACATACTCACA
61928 TGTATCGATACAATGTAAGCTACTGCCAAAAAAAAAATGTATCGATACATTACTCACA
1 TGTATCGATACAATGTAAGCTACTGCCAAAAAAAAAATGTATCGATACA-TACTCACA
*
61986 TGTATCGATACATTGTA
1 TGTATCGATACAATGTA
62003 TCGATACACT
Statistics
Matches: 68, Mismatches: 6, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
57 49 0.72
58 19 0.28
ACGTcount: A:0.40, C:0.16, G:0.13, T:0.31
Consensus pattern (57 bp):
TGTATCGATACAATGTAAGCTACTGCCAAAAAAAAAATGTATCGATACATACTCACA
Found at i:62004 original size:13 final size:13
Alignment explanation
Indices: 61986--62010 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
61976 ATTACTCACA
61986 TGTATCGATACAT
1 TGTATCGATACAT
61999 TGTATCGATACA
1 TGTATCGATACA
62011 CTGATCTTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:62075 original size:52 final size:52
Alignment explanation
Indices: 62019--62139 Score: 215
Period size: 52 Copynumber: 2.3 Consensus size: 52
62009 CACTGATCTT
*
62019 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACATTATAAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
* *
62071 TGTATCGATACATACAGGCAAATTTGCCCAGATGTATCGATACACTATTAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
62123 TGTATCGATACATGCAG
1 TGTATCGATACATGCAG
62140 TAACTTTTCA
Statistics
Matches: 65, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
52 65 1.00
ACGTcount: A:0.36, C:0.18, G:0.17, T:0.29
Consensus pattern (52 bp):
TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
Found at i:65622 original size:21 final size:22
Alignment explanation
Indices: 65590--65634 Score: 74
Period size: 21 Copynumber: 2.1 Consensus size: 22
65580 ATGATGAAAT
*
65590 AAAAATTCAAATATCAATTTAA
1 AAAAATTCAAATATCAAATTAA
65612 AAAAATT-AAATATCAAATTAA
1 AAAAATTCAAATATCAAATTAA
65633 AA
1 AA
65635 TTTAAACTAA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
21 15 0.68
22 7 0.32
ACGTcount: A:0.64, C:0.07, G:0.00, T:0.29
Consensus pattern (22 bp):
AAAAATTCAAATATCAAATTAA
Found at i:66631 original size:9 final size:10
Alignment explanation
Indices: 66614--66653 Score: 50
Period size: 9 Copynumber: 4.2 Consensus size: 10
66604 AGTTTTATAT
66614 AAATATAATA
1 AAATATAATA
66624 AAAT-TAAT-
1 AAATATAATA
66632 AAATATAATA
1 AAATATAATA
66642 TAAATAT-ATA
1 -AAATATAATA
66652 AA
1 AA
66654 TTATCAATCT
Statistics
Matches: 27, Mismatches: 0, Indels: 7
0.79 0.00 0.21
Matches are distributed among these distances:
8 4 0.15
9 10 0.37
10 7 0.26
11 6 0.22
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.33
Consensus pattern (10 bp):
AAATATAATA
Found at i:67790 original size:10 final size:10
Alignment explanation
Indices: 67767--67806 Score: 55
Period size: 10 Copynumber: 4.0 Consensus size: 10
67757 AAGAAACTTA
67767 AAATAAACTAT
1 AAATAAA-TAT
67778 AAATAAATAT
1 AAATAAATAT
*
67788 AAATACATAT
1 AAATAAATAT
67798 AAA-AAATAT
1 AAATAAATAT
67807 TTAAAATATA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
9 5 0.19
10 15 0.56
11 7 0.26
ACGTcount: A:0.68, C:0.05, G:0.00, T:0.28
Consensus pattern (10 bp):
AAATAAATAT
Found at i:69089 original size:24 final size:25
Alignment explanation
Indices: 69060--69109 Score: 66
Period size: 24 Copynumber: 2.0 Consensus size: 25
69050 TGGTGATGTA
*
69060 ATATAACAAAAAAAATTA-AAAAAT
1 ATATAACAAAAAAAATAATAAAAAT
* *
69084 ATATAATATAAAAAATAATAAAAAT
1 ATATAACAAAAAAAATAATAAAAAT
69109 A
1 A
69110 AATTAAATAT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
24 15 0.68
25 7 0.32
ACGTcount: A:0.74, C:0.02, G:0.00, T:0.24
Consensus pattern (25 bp):
ATATAACAAAAAAAATAATAAAAAT
Found at i:70405 original size:26 final size:25
Alignment explanation
Indices: 70346--70405 Score: 61
Period size: 26 Copynumber: 2.4 Consensus size: 25
70336 TGACGTAATC
*
70346 ATAATTT-T-AATTTAATATATTTT
1 ATAATTTATAAATTTAAAATATTTT
* *
70369 GTATTTATATAAATTTAAAATATTTT
1 ATAATT-TATAAATTTAAAATATTTT
70395 AATAATTTATA
1 -ATAATTTATA
70406 TTATATTATA
Statistics
Matches: 28, Mismatches: 5, Indels: 5
0.74 0.13 0.13
Matches are distributed among these distances:
23 4 0.14
24 1 0.04
25 1 0.04
26 18 0.64
27 4 0.14
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.55
Consensus pattern (25 bp):
ATAATTTATAAATTTAAAATATTTT
Found at i:70421 original size:20 final size:20
Alignment explanation
Indices: 70373--70437 Score: 73
Period size: 20 Copynumber: 3.4 Consensus size: 20
70363 TATTTTGTAT
* *
70373 TTATATAAATTTAAAATATT
1 TTATATAAATTTATAATATA
*
70393 TTA-AT-AATTTATATTATA
1 TTATATAAATTTATAATATA
70411 TTATATAAATTT-TAATATA
1 TTATATAAATTTATAATATA
70430 TTTATATA
1 -TTATATA
70438 TTCGTATTAT
Statistics
Matches: 38, Mismatches: 4, Indels: 6
0.79 0.08 0.12
Matches are distributed among these distances:
18 13 0.34
19 10 0.26
20 15 0.39
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (20 bp):
TTATATAAATTTATAATATA
Found at i:72046 original size:6 final size:6
Alignment explanation
Indices: 72037--72066 Score: 51
Period size: 6 Copynumber: 5.0 Consensus size: 6
72027 CTTTCTCCTC
*
72037 TTTTCT TTTTCT TTTTCT TTTTTT TTTTCT
1 TTTTCT TTTTCT TTTTCT TTTTCT TTTTCT
72067 GCGTGAATGG
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.00, C:0.13, G:0.00, T:0.87
Consensus pattern (6 bp):
TTTTCT
Found at i:72432 original size:17 final size:17
Alignment explanation
Indices: 72406--72439 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
72396 CTGCAGCACA
72406 TTGTTATAATT-TTTTT
1 TTGTTATAATTATTTTT
72422 TTGTCTATAATTATTTTT
1 TTGT-TATAATTATTTTT
72440 GCCCTTCTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 4 0.25
17 7 0.44
18 5 0.31
ACGTcount: A:0.21, C:0.03, G:0.06, T:0.71
Consensus pattern (17 bp):
TTGTTATAATTATTTTT
Found at i:74877 original size:15 final size:14
Alignment explanation
Indices: 74844--74883 Score: 55
Period size: 15 Copynumber: 2.8 Consensus size: 14
74834 TATTTAAATT
74844 TAAATATA-TTGAA
1 TAAATATATTTGAA
74857 TAAAATATATTTGATA
1 T-AAATATATTTGA-A
74873 TAAATATATTT
1 TAAATATATTT
74884 AATTTTTTAT
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
13 1 0.04
14 7 0.29
15 14 0.58
16 2 0.08
ACGTcount: A:0.50, C:0.00, G:0.05, T:0.45
Consensus pattern (14 bp):
TAAATATATTTGAA
Found at i:74912 original size:26 final size:29
Alignment explanation
Indices: 74873--74937 Score: 84
Period size: 28 Copynumber: 2.4 Consensus size: 29
74863 ATATTTGATA
*
74873 TAAATATATT-TAATTTT-T-TATATATT
1 TAAAAATATTATAATTTTATATATATATT
*
74899 TAAAAA-ATTATAATTTTATATTTATATT
1 TAAAAATATTATAATTTTATATATATATT
74927 TAAAAATATTA
1 TAAAAATATTA
74938 AAAAAATAAT
Statistics
Matches: 33, Mismatches: 2, Indels: 5
0.82 0.05 0.12
Matches are distributed among these distances:
25 3 0.09
26 12 0.36
27 1 0.03
28 13 0.39
29 4 0.12
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (29 bp):
TAAAAATATTATAATTTTATATATATATT
Found at i:75382 original size:14 final size:13
Alignment explanation
Indices: 75356--75389 Score: 50
Period size: 14 Copynumber: 2.5 Consensus size: 13
75346 TTTAAAATTG
*
75356 AATTAATTAAATA
1 AATTAATAAAATA
75369 AATTAATAATAATA
1 AATTAATAA-AATA
75383 AATTAAT
1 AATTAAT
75390 TAATTACATT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 8 0.42
14 11 0.58
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (13 bp):
AATTAATAAAATA
Found at i:75424 original size:30 final size:28
Alignment explanation
Indices: 75356--75449 Score: 84
Period size: 30 Copynumber: 3.3 Consensus size: 28
75346 TTTAAAATTG
* * * *
75356 AATTAATTAAATAAATTAATAATA-ATA
1 AATTAATTAATTTAATTAATATTATTTA
* *
75383 AATTAATTAA-TTACATTATTTTTATTTA
1 AATTAATTAATTTA-ATTAATATTATTTA
75411 AATATATATTAATTTAATTAATATTATTTA
1 AAT-TA-ATTAATTTAATTAATATTATTTA
75441 ATATTAATT
1 A-ATTAATT
75450 TTTATTATGT
Statistics
Matches: 54, Mismatches: 7, Indels: 10
0.76 0.10 0.14
Matches are distributed among these distances:
26 2 0.04
27 17 0.31
28 5 0.09
29 5 0.09
30 20 0.37
31 5 0.09
ACGTcount: A:0.49, C:0.01, G:0.00, T:0.50
Consensus pattern (28 bp):
AATTAATTAATTTAATTAATATTATTTA
Found at i:75431 original size:20 final size:19
Alignment explanation
Indices: 75419--75489 Score: 74
Period size: 20 Copynumber: 3.6 Consensus size: 19
75409 TAAATATATA
75419 TTAATTTAATTAATATTAT
1 TTAATTTAATTAATATTAT
**
75438 TTAATATTAATTTTTATTAT
1 TTAAT-TTAATTAATATTAT
75458 GTTAATTTAATT-AT-TTAT
1 -TTAATTTAATTAATATTAT
75476 TTATATTTTAATTA
1 TTA-A-TTTAATTA
75490 TTTTTTAAAA
Statistics
Matches: 44, Mismatches: 3, Indels: 9
0.79 0.05 0.16
Matches are distributed among these distances:
17 3 0.07
18 5 0.11
19 13 0.30
20 18 0.41
21 5 0.11
ACGTcount: A:0.37, C:0.00, G:0.01, T:0.62
Consensus pattern (19 bp):
TTAATTTAATTAATATTAT
Found at i:75436 original size:15 final size:15
Alignment explanation
Indices: 75404--75442 Score: 53
Period size: 16 Copynumber: 2.6 Consensus size: 15
75394 TACATTATTT
*
75404 TTATTTAAATATATA
1 TTATTTAATTATATA
75419 TTAATTTAATTA-ATA
1 TT-ATTTAATTATATA
75434 TTATTTAAT
1 TTATTTAAT
75443 ATTAATTTTT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
14 7 0.32
15 7 0.32
16 8 0.36
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (15 bp):
TTATTTAATTATATA
Found at i:75502 original size:19 final size:19
Alignment explanation
Indices: 75463--75503 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
75453 ATTATGTTAA
*
75463 TTTAATTATTTATTTATAT
1 TTTAATTATTTATTTAAAT
*
75482 TTTAATTATTT-TTTAAAA
1 TTTAATTATTTATTTAAAT
75500 TTTA
1 TTTA
75504 TTTGCACTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
18 9 0.45
19 11 0.55
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (19 bp):
TTTAATTATTTATTTAAAT
Found at i:75689 original size:27 final size:25
Alignment explanation
Indices: 75615--75692 Score: 65
Period size: 27 Copynumber: 3.1 Consensus size: 25
75605 TACACGTTCC
*
75615 TTTCCATAAATCAAGTATCTAAA-T
1 TTTCTATAAATCAAGTATCTAAATT
* *
75639 TTT-TACAAATCATAAG-AT-TCAATT
1 TTTCTATAAATC--AAGTATCTAAATT
75663 CATTTCTATAAATCAAGTATCTAAATT
1 --TTTCTATAAATCAAGTATCTAAATT
75690 TTT
1 TTT
75693 ACAAGTATCT
Statistics
Matches: 41, Mismatches: 5, Indels: 15
0.67 0.08 0.25
Matches are distributed among these distances:
23 9 0.22
24 6 0.15
25 9 0.22
26 5 0.12
27 12 0.29
ACGTcount: A:0.40, C:0.14, G:0.04, T:0.42
Consensus pattern (25 bp):
TTTCTATAAATCAAGTATCTAAATT
Found at i:75690 original size:23 final size:23
Alignment explanation
Indices: 75615--75690 Score: 57
Period size: 23 Copynumber: 3.1 Consensus size: 23
75605 TACACGTTCC
*
75615 TTTCCATAAATCAAGTATCTAAA
1 TTTCTATAAATCAAGTATCTAAA
* *
75638 TTTTTACAAATCATAAG-AT-TCAATTCA
1 TTTCTATAAATC--AAGTATCT-AA---A
75665 TTTCTATAAATCAAGTATCTAAA
1 TTTCTATAAATCAAGTATCTAAA
75688 TTT
1 TTT
75691 TTACAAGTAT
Statistics
Matches: 40, Mismatches: 5, Indels: 16
0.66 0.08 0.26
Matches are distributed among these distances:
23 14 0.35
24 4 0.10
25 6 0.15
26 4 0.10
27 12 0.30
ACGTcount: A:0.41, C:0.14, G:0.04, T:0.41
Consensus pattern (23 bp):
TTTCTATAAATCAAGTATCTAAA
Found at i:75820 original size:10 final size:10
Alignment explanation
Indices: 75807--75867 Score: 51
Period size: 10 Copynumber: 6.4 Consensus size: 10
75797 ATTAAAATAT
75807 AAATAATTTA
1 AAATAATTTA
75817 AAATAA-TT-
1 AAATAATTTA
*
75825 -AA-GATTTA
1 AAATAATTTA
75833 AAATAA-TTA
1 AAATAATTTA
*
75842 ATAATTAATCTA
1 A-AA-TAATTTA
75854 AAATAATTTA
1 AAATAATTTA
75864 AAAT
1 AAAT
75868 TAAAATAACT
Statistics
Matches: 40, Mismatches: 4, Indels: 14
0.69 0.07 0.24
Matches are distributed among these distances:
6 1 0.03
7 4 0.10
9 8 0.20
10 19 0.47
11 5 0.12
12 3 0.08
ACGTcount: A:0.59, C:0.02, G:0.02, T:0.38
Consensus pattern (10 bp):
AAATAATTTA
Found at i:75857 original size:21 final size:21
Alignment explanation
Indices: 75831--75870 Score: 64
Period size: 21 Copynumber: 1.9 Consensus size: 21
75821 AATTAAGATT
75831 TAAAATAA-TTAATAATTAATC
1 TAAAATAATTTAA-AATTAATC
75852 TAAAATAATTTAAAATTAA
1 TAAAATAATTTAAAATTAA
75871 AATAACTAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
21 14 0.78
22 4 0.22
ACGTcount: A:0.60, C:0.03, G:0.00, T:0.38
Consensus pattern (21 bp):
TAAAATAATTTAAAATTAATC
Found at i:75871 original size:37 final size:37
Alignment explanation
Indices: 75805--75875 Score: 99
Period size: 37 Copynumber: 1.9 Consensus size: 37
75795 GAATTAAAAT
* *
75805 ATAAATAATTTAAAATAATTAAGATTTAAAATAATTA
1 ATAAATAATCTAAAATAATTAAGAATTAAAATAATTA
*
75842 ATAATTAATCTAAAATAATTTAA-AATTAAAATAA
1 ATAAATAATCTAAAATAA-TTAAGAATTAAAATAA
75876 CTAAAACTCA
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
37 26 0.87
38 4 0.13
ACGTcount: A:0.61, C:0.01, G:0.01, T:0.37
Consensus pattern (37 bp):
ATAAATAATCTAAAATAATTAAGAATTAAAATAATTA
Found at i:75873 original size:16 final size:17
Alignment explanation
Indices: 75796--75875 Score: 60
Period size: 16 Copynumber: 4.6 Consensus size: 17
75786 GCTTGAAATG
*
75796 AATTAAAAT-A-TAAAT
1 AATTAAAATAATTTAAT
*
75811 AATTTAAAATAA-TTAAG
1 AA-TTAAAATAATTTAAT
*
75828 ATTTAAAATAATTAATAATT
1 AATTAAAATAATT--TAA-T
75848 AATCTAAAATAATTTAA-
1 AAT-TAAAATAATTTAAT
75865 AATTAAAATAA
1 AATTAAAATAA
75876 CTAAAACTCA
Statistics
Matches: 53, Mismatches: 5, Indels: 13
0.75 0.07 0.18
Matches are distributed among these distances:
15 2 0.04
16 24 0.45
17 9 0.17
19 6 0.11
20 2 0.04
21 10 0.19
ACGTcount: A:0.61, C:0.01, G:0.01, T:0.36
Consensus pattern (17 bp):
AATTAAAATAATTTAAT
Found at i:78215 original size:2 final size:2
Alignment explanation
Indices: 78208--78234 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
78198 TGGCTAGAGC
78208 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
78235 TTAACACTTG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:89594 original size:18 final size:20
Alignment explanation
Indices: 89563--89599 Score: 60
Period size: 18 Copynumber: 1.9 Consensus size: 20
89553 TCGAAAGTCC
89563 ATGCACCAGTCACGCACCAT
1 ATGCACCAGTCACGCACCAT
89583 ATGCACC-G-CACGCACCA
1 ATGCACCAGTCACGCACCA
89600 GCGAGAGGTT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 9 0.53
19 1 0.06
20 7 0.41
ACGTcount: A:0.30, C:0.43, G:0.16, T:0.11
Consensus pattern (20 bp):
ATGCACCAGTCACGCACCAT
Found at i:93550 original size:16 final size:16
Alignment explanation
Indices: 93528--93570 Score: 52
Period size: 16 Copynumber: 2.6 Consensus size: 16
93518 TAGGAATCAC
93528 AGATTTTTAAAAGTTAT
1 AGATTTTTAAAA-TTAT
*
93545 AG-TTTTCTATAATTAT
1 AGATTTT-TAAAATTAT
93561 AGATTTTTAA
1 AGATTTTTAA
93571 CCTATCACAG
Statistics
Matches: 22, Mismatches: 2, Indels: 5
0.76 0.07 0.17
Matches are distributed among these distances:
16 12 0.55
17 10 0.45
ACGTcount: A:0.37, C:0.02, G:0.09, T:0.51
Consensus pattern (16 bp):
AGATTTTTAAAATTAT
Found at i:97219 original size:13 final size:13
Alignment explanation
Indices: 97201--97227 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
97191 ACATGCTGCT
97201 TTGTATCGATACA
1 TTGTATCGATACA
97214 TTGTATCGATACA
1 TTGTATCGATACA
97227 T
1 T
97228 GTTCATTGTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.30, C:0.15, G:0.15, T:0.41
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:97236 original size:19 final size:19
Alignment explanation
Indices: 97212--97268 Score: 60
Period size: 19 Copynumber: 2.9 Consensus size: 19
97202 TGTATCGATA
**
97212 CATTGTATCGATACATGTT
1 CATTGTATCGATACATGGC
* *
97231 CATTGTACCGATATATGGC
1 CATTGTATCGATACATGGC
97250 CAAATTGTATCGATACATG
1 C--ATTGTATCGATACATG
97269 AAACTGGCAG
Statistics
Matches: 30, Mismatches: 6, Indels: 2
0.79 0.16 0.05
Matches are distributed among these distances:
19 16 0.53
21 14 0.47
ACGTcount: A:0.30, C:0.18, G:0.18, T:0.35
Consensus pattern (19 bp):
CATTGTATCGATACATGGC
Found at i:97334 original size:13 final size:13
Alignment explanation
Indices: 97313--97342 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
97303 CGATACATGG
97313 TACAATGTATCGA
1 TACAATGTATCGA
*
97326 TACACTGTATCGA
1 TACAATGTATCGA
97339 TACA
1 TACA
97343 TGAAGAAATG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.37, C:0.20, G:0.13, T:0.30
Consensus pattern (13 bp):
TACAATGTATCGA
Found at i:97340 original size:33 final size:32
Alignment explanation
Indices: 97298--97362 Score: 96
Period size: 33 Copynumber: 2.0 Consensus size: 32
97288 TATAACTATT
97298 TGTATCGATACATG-GTACAATGTATCGATACAC
1 TGTATCGATACATGAG-A-AATGTATCGATACAC
97331 TGTATCGATACATGAAGAAATGTATCGATACA
1 TGTATCGATACATG-AGAAATGTATCGATACA
97363 TAGTATGTAA
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
33 28 0.93
34 1 0.03
35 1 0.03
ACGTcount: A:0.37, C:0.15, G:0.18, T:0.29
Consensus pattern (32 bp):
TGTATCGATACATGAGAAATGTATCGATACAC
Found at i:105415 original size:33 final size:33
Alignment explanation
Indices: 105368--105436 Score: 120
Period size: 33 Copynumber: 2.1 Consensus size: 33
105358 AAAAAGGGAG
* *
105368 AAGATAATCGTTTAAGGGGGAGAATTTTTTTTT
1 AAGATAATCATTTAAGGGGGAGAATATTTTTTT
105401 AAGATAATCATTTAAGGGGGAGAATATTTTTTT
1 AAGATAATCATTTAAGGGGGAGAATATTTTTTT
105434 AAG
1 AAG
105437 GGGAGAAAAA
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 34 1.00
ACGTcount: A:0.35, C:0.03, G:0.23, T:0.39
Consensus pattern (33 bp):
AAGATAATCATTTAAGGGGGAGAATATTTTTTT
Found at i:106005 original size:13 final size:13
Alignment explanation
Indices: 105987--106013 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
105977 ACATGTTGCT
105987 TTGTATCGATACA
1 TTGTATCGATACA
106000 TTGTATCGATACA
1 TTGTATCGATACA
106013 T
1 T
106014 GTTCATTGTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.30, C:0.15, G:0.15, T:0.41
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:106010 original size:33 final size:32
Alignment explanation
Indices: 105968--106032 Score: 112
Period size: 33 Copynumber: 2.0 Consensus size: 32
105958 CACACCCAGA
*
105968 TGTATCGATACATGTTGCTTTGTATCGATACAT
1 TGTATCGATACATGTT-CATTGTATCGATACAT
106001 TGTATCGATACATGTTCATTGTATCGATACAT
1 TGTATCGATACATGTTCATTGTATCGATACAT
106033 GGCCAAATTA
Statistics
Matches: 31, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
32 15 0.48
33 16 0.52
ACGTcount: A:0.26, C:0.15, G:0.17, T:0.42
Consensus pattern (32 bp):
TGTATCGATACATGTTCATTGTATCGATACAT
Found at i:106120 original size:13 final size:13
Alignment explanation
Indices: 106099--106129 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
106089 CGATACATGG
*
106099 TACAATGTATCGA
1 TACATTGTATCGA
106112 TACATTGTATCGA
1 TACATTGTATCGA
106125 TACAT
1 TACAT
106130 GAAGAAATGT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.35, C:0.16, G:0.13, T:0.35
Consensus pattern (13 bp):
TACATTGTATCGA
Found at i:106125 original size:33 final size:32
Alignment explanation
Indices: 106083--106149 Score: 100
Period size: 33 Copynumber: 2.0 Consensus size: 32
106073 CTATCACTAT
106083 TTGTATCGATACATG-GTACAATGTATCGATACA
1 TTGTATCGATACATGAG-A-AATGTATCGATACA
106116 TTGTATCGATACATGAAGAAATGTATCGATACA
1 TTGTATCGATACATG-AGAAATGTATCGATACA
106149 T
1 T
106150 AGCATGTAAC
Statistics
Matches: 32, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
33 30 0.94
34 1 0.03
35 1 0.03
ACGTcount: A:0.36, C:0.13, G:0.18, T:0.33
Consensus pattern (32 bp):
TTGTATCGATACATGAGAAATGTATCGATACA
Found at i:108907 original size:13 final size:13
Alignment explanation
Indices: 108889--108915 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
108879 ACAATTGTCC
108889 ATGTATCGATACA
1 ATGTATCGATACA
108902 ATGTATCGATACA
1 ATGTATCGATACA
108915 A
1 A
108916 AGCATAATGT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.41, C:0.15, G:0.15, T:0.30
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:110977 original size:19 final size:19
Alignment explanation
Indices: 110950--111000 Score: 75
Period size: 19 Copynumber: 2.7 Consensus size: 19
110940 AGTTGCCCGG
*
110950 TTGCGACCTAGAGTGTCGA
1 TTGCGACCTAGAGTGCCGA
*
110969 TTGCAACCTAGAGTGCCGA
1 TTGCGACCTAGAGTGCCGA
*
110988 TCGCGACCTAGAG
1 TTGCGACCTAGAG
111001 GTGGCTGCCT
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
19 28 1.00
ACGTcount: A:0.24, C:0.25, G:0.29, T:0.22
Consensus pattern (19 bp):
TTGCGACCTAGAGTGCCGA
Found at i:117618 original size:20 final size:20
Alignment explanation
Indices: 117593--117646 Score: 83
Period size: 20 Copynumber: 2.7 Consensus size: 20
117583 GTTAGAAGCA
*
117593 ATGTATCGATACAAT-TCATC
1 ATGTATCGATACAATGT-ACC
117613 ATGTATCGATACAATGTACC
1 ATGTATCGATACAATGTACC
117633 ATGTATCGATACAA
1 ATGTATCGATACAA
117647 ACAGTGGTAG
Statistics
Matches: 32, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
20 31 0.97
21 1 0.03
ACGTcount: A:0.37, C:0.19, G:0.13, T:0.31
Consensus pattern (20 bp):
ATGTATCGATACAATGTACC
Found at i:117719 original size:19 final size:19
Alignment explanation
Indices: 117676--117747 Score: 74
Period size: 20 Copynumber: 3.7 Consensus size: 19
117666 TGCCAGTTTA
* **
117676 ATGTATCGATACAGTTGTCC
1 ATGTATCGATACA-ATGAAC
117696 ATGTATCGATACAATGAAC
1 ATGTATCGATACAATGAAC
*
117715 ATGTATCGATACAAAGCATA-
1 ATGTATCGATACAATG-A-AC
117735 ATGTATCGATACA
1 ATGTATCGATACA
117748 TCTGGGTATG
Statistics
Matches: 46, Mismatches: 4, Indels: 4
0.85 0.07 0.07
Matches are distributed among these distances:
19 18 0.39
20 27 0.59
21 1 0.02
ACGTcount: A:0.38, C:0.17, G:0.17, T:0.29
Consensus pattern (19 bp):
ATGTATCGATACAATGAAC
Found at i:119840 original size:20 final size:20
Alignment explanation
Indices: 119817--119891 Score: 78
Period size: 20 Copynumber: 3.8 Consensus size: 20
119807 AACTACCCAG
*
119817 ATGTATTGATACATTTTTCA
1 ATGTATCGATACATTTTTCA
* * * *
119837 ATGTATCGACACATGTATGA
1 ATGTATCGATACATTTTTCA
* *
119857 ATGTATTGATACATTCTTCA
1 ATGTATCGATACATTTTTCA
*
119877 ACGTATCGATACATT
1 ATGTATCGATACATT
119892 CTATCCTTTT
Statistics
Matches: 42, Mismatches: 13, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
20 42 1.00
ACGTcount: A:0.32, C:0.15, G:0.13, T:0.40
Consensus pattern (20 bp):
ATGTATCGATACATTTTTCA
Found at i:123856 original size:13 final size:13
Alignment explanation
Indices: 123838--123862 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
123828 ATAATGCACA
123838 GTATCGATACATT
1 GTATCGATACATT
123851 GTATCGATACAT
1 GTATCGATACAT
123863 GACCAAATGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
GTATCGATACATT
Found at i:123875 original size:20 final size:21
Alignment explanation
Indices: 123850--123902 Score: 65
Period size: 20 Copynumber: 2.6 Consensus size: 21
123840 ATCGATACAT
*
123850 TGTATCGATACATG-ACCA-AA
1 TGTATCGATACATGCA-AAGAA
*
123870 TGTATCGATACTTGCAAAGAA
1 TGTATCGATACATGCAAAGAA
123891 TGTATCGATACA
1 TGTATCGATACA
123903 AGTGATTGGC
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
20 14 0.50
21 14 0.50
ACGTcount: A:0.38, C:0.17, G:0.17, T:0.28
Consensus pattern (21 bp):
TGTATCGATACATGCAAAGAA
Found at i:130171 original size:13 final size:13
Alignment explanation
Indices: 130153--130190 Score: 67
Period size: 13 Copynumber: 2.9 Consensus size: 13
130143 AAAACTCAGA
*
130153 TGTATCGATACAT
1 TGTATCGATACAG
130166 TGTATCGATACAG
1 TGTATCGATACAG
130179 TGTATCGATACA
1 TGTATCGATACA
130191 AAAGGTTTAT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 24 1.00
ACGTcount: A:0.32, C:0.16, G:0.18, T:0.34
Consensus pattern (13 bp):
TGTATCGATACAG
Found at i:132638 original size:13 final size:13
Alignment explanation
Indices: 132620--132644 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
132610 ATAATGCACA
132620 ATATCGATACATT
1 ATATCGATACATT
132633 ATATCGATACAT
1 ATATCGATACAT
132645 GACCAAATGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.40, C:0.16, G:0.08, T:0.36
Consensus pattern (13 bp):
ATATCGATACATT
Found at i:132659 original size:20 final size:21
Alignment explanation
Indices: 132634--132684 Score: 61
Period size: 21 Copynumber: 2.5 Consensus size: 21
132624 CGATACATTA
*
132634 TATCGATACATG-ACCA-AATG
1 TATCGATACATGCA-AAGAATG
*
132654 TATCGATACTTGCAAAGAATG
1 TATCGATACATGCAAAGAATG
132675 TATCGATACA
1 TATCGATACA
132685 AGTGATTGGC
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
20 12 0.46
21 14 0.54
ACGTcount: A:0.39, C:0.18, G:0.16, T:0.27
Consensus pattern (21 bp):
TATCGATACATGCAAAGAATG
Found at i:132757 original size:15 final size:14
Alignment explanation
Indices: 132737--132769 Score: 50
Period size: 13 Copynumber: 2.4 Consensus size: 14
132727 GTATCGATAC
132737 ATACAAGATGTATCG
1 ATACAA-ATGTATCG
132752 ATAC-AATGTATCG
1 ATACAAATGTATCG
132765 ATACA
1 ATACA
132770 TGACCAAATT
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
13 12 0.71
14 1 0.06
15 4 0.24
ACGTcount: A:0.42, C:0.15, G:0.15, T:0.27
Consensus pattern (14 bp):
ATACAAATGTATCG
Found at i:132762 original size:13 final size:13
Alignment explanation
Indices: 132744--132769 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
132734 TACATACAAG
132744 ATGTATCGATACA
1 ATGTATCGATACA
132757 ATGTATCGATACA
1 ATGTATCGATACA
132770 TGACCAAATT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:132788 original size:34 final size:32
Alignment explanation
Indices: 132726--132790 Score: 96
Period size: 34 Copynumber: 2.0 Consensus size: 32
132716 CTTAATTGTT
132726 TGTATCGATACATACAAGATGTATCGATACAA
1 TGTATCGATACATACAAGATGTATCGATACAA
132758 TGTATCGATACATGACCAA-ATTGTATCGATACA
1 TGTATCGATACAT-A-CAAGA-TGTATCGATACA
132791 TTGGCTTGTA
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
32 13 0.43
33 2 0.07
34 15 0.50
ACGTcount: A:0.38, C:0.17, G:0.15, T:0.29
Consensus pattern (32 bp):
TGTATCGATACATACAAGATGTATCGATACAA
Found at i:133801 original size:20 final size:20
Alignment explanation
Indices: 133765--133811 Score: 51
Period size: 20 Copynumber: 2.3 Consensus size: 20
133755 AAAAAAAGGC
*
133765 AAGAAAAATAAGAAAAATAA
1 AAGAAAAATAAGAAAAAGAA
*
133785 AAGAAAAATTAA-TAAAAGAA
1 AAGAAAAA-TAAGAAAAAGAA
133805 AGAGAAA
1 A-AGAAA
133812 GGTTGGGATT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
20 15 0.65
21 8 0.35
ACGTcount: A:0.77, C:0.00, G:0.13, T:0.11
Consensus pattern (20 bp):
AAGAAAAATAAGAAAAAGAA
Found at i:134993 original size:18 final size:18
Alignment explanation
Indices: 134970--135010 Score: 64
Period size: 18 Copynumber: 2.3 Consensus size: 18
134960 CATTTGATCC
134970 ATTTAATTTATACAATTT
1 ATTTAATTTATACAATTT
**
134988 ATTTAATTTATATTATTT
1 ATTTAATTTATACAATTT
135006 ATTTA
1 ATTTA
135011 TATCACATTT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.37, C:0.02, G:0.00, T:0.61
Consensus pattern (18 bp):
ATTTAATTTATACAATTT
Found at i:135009 original size:13 final size:14
Alignment explanation
Indices: 134986--135040 Score: 51
Period size: 13 Copynumber: 3.9 Consensus size: 14
134976 TTTATACAAT
134986 TTATTTAATTTATA
1 TTATTTAATTTATA
135000 TTATTT-ATTTATA
1 TTATTTAATTTATA
* *
135013 TCACATTTAATTT-TC
1 T--TATTTAATTTATA
135028 TTATTTATATTTA
1 TTATTTA-ATTTA
135041 CCCTTTAATT
Statistics
Matches: 33, Mismatches: 3, Indels: 9
0.73 0.07 0.20
Matches are distributed among these distances:
13 13 0.39
14 10 0.30
15 6 0.18
16 4 0.12
ACGTcount: A:0.31, C:0.05, G:0.00, T:0.64
Consensus pattern (14 bp):
TTATTTAATTTATA
Found at i:135245 original size:9 final size:9
Alignment explanation
Indices: 135230--135264 Score: 52
Period size: 9 Copynumber: 3.9 Consensus size: 9
135220 TATATATATT
135230 TAATTTATA
1 TAATTTATA
* *
135239 CAATTTATT
1 TAATTTATA
135248 TAATTTATA
1 TAATTTATA
135257 TAATTTAT
1 TAATTTAT
135265 TTATATCACA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
9 22 1.00
ACGTcount: A:0.40, C:0.03, G:0.00, T:0.57
Consensus pattern (9 bp):
TAATTTATA
Found at i:135249 original size:18 final size:18
Alignment explanation
Indices: 135226--135267 Score: 75
Period size: 18 Copynumber: 2.3 Consensus size: 18
135216 CTTTTATATA
135226 TATTTAATTTATACAATT
1 TATTTAATTTATACAATT
*
135244 TATTTAATTTATATAATT
1 TATTTAATTTATACAATT
135262 TATTTA
1 TATTTA
135268 TATCACATTT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.38, C:0.02, G:0.00, T:0.60
Consensus pattern (18 bp):
TATTTAATTTATACAATT
Found at i:135266 original size:13 final size:14
Alignment explanation
Indices: 135245--135282 Score: 51
Period size: 13 Copynumber: 2.6 Consensus size: 14
135235 TATACAATTT
135245 ATTTAATTTATATA
1 ATTTAATTTATATA
135259 ATTT-ATTTATATCA
1 ATTTAATTTATAT-A
135273 CATTTAATTT
1 -ATTTAATTT
135283 TCTTATTTAT
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
13 8 0.38
14 5 0.24
15 4 0.19
16 4 0.19
ACGTcount: A:0.37, C:0.05, G:0.00, T:0.58
Consensus pattern (14 bp):
ATTTAATTTATATA
Found at i:135426 original size:257 final size:257
Alignment explanation
Indices: 134970--135491 Score: 1003
Period size: 257 Copynumber: 2.0 Consensus size: 257
134960 CATTTGATCC
*
134970 ATTTAATTTATACAATTTATTTAATTTATATTATTTATTTATATCACATTTAATTTTCTTATTTA
1 ATTTAATTTATACAATTTATTTAATTTATATAATTTATTTATATCACATTTAATTTTCTTATTTA
135035 TATTTACCCTTTAATTTATAAAATTTAATTTTAATATCATTTATTTTGTTTCTTGGTTTATTTAT
66 TATTTACCCTTTAATTTATAAAATTTAATTTTAATATCATTTATTTTGTTTCTTGGTTTATTTAT
*
135100 TTTAGTAATTTATTCTTTCCAATTTACTTAATTATGATTGCCCTTTATTTTATGCAATTTTAACA
131 TTTAGTAATTTATTCTTTCCAATTTACTTAATTATGATTGCCATTTATTTTATGCAATTTTAACA
135165 TCATTTATTTTATTCTTCAATTTATTTATCTTAAGCATTTTATTTATCATACTTTTATATAT
196 TCATTTATTTTATTCTTCAATTTATTTATCTTAAGCATTTTATTTATCATACTTTTATATAT
135227 ATTTAATTTATACAATTTATTTAATTTATATAATTTATTTATATCACATTTAATTTTCTTATTTA
1 ATTTAATTTATACAATTTATTTAATTTATATAATTTATTTATATCACATTTAATTTTCTTATTTA
135292 TATTTACCCTTTAATTTATAAAATTTAATTTTAATATCATTTATTTTGTTTCTTGGTTTATTTAT
66 TATTTACCCTTTAATTTATAAAATTTAATTTTAATATCATTTATTTTGTTTCTTGGTTTATTTAT
*
135357 TTTAGTAATTTATTCTTTCCAATTTACTTATTTATGATTGCCATTTATTTTATGCAATTTTAACA
131 TTTAGTAATTTATTCTTTCCAATTTACTTAATTATGATTGCCATTTATTTTATGCAATTTTAACA
135422 TCATTTATTTTATTCTTCAATTTATTTATCTTAAGCATTTTATTTATCATACTTTTATATAT
196 TCATTTATTTTATTCTTCAATTTATTTATCTTAAGCATTTTATTTATCATACTTTTATATAT
135484 -TTT-ATTTA
1 ATTTAATTTA
135492 ATTTCTTTCT
Statistics
Matches: 262, Mismatches: 3, Indels: 2
0.98 0.01 0.01
Matches are distributed among these distances:
255 5 0.02
256 3 0.01
257 254 0.97
ACGTcount: A:0.29, C:0.09, G:0.03, T:0.58
Consensus pattern (257 bp):
ATTTAATTTATACAATTTATTTAATTTATATAATTTATTTATATCACATTTAATTTTCTTATTTA
TATTTACCCTTTAATTTATAAAATTTAATTTTAATATCATTTATTTTGTTTCTTGGTTTATTTAT
TTTAGTAATTTATTCTTTCCAATTTACTTAATTATGATTGCCATTTATTTTATGCAATTTTAACA
TCATTTATTTTATTCTTCAATTTATTTATCTTAAGCATTTTATTTATCATACTTTTATATAT
Found at i:136422 original size:11 final size:10
Alignment explanation
Indices: 136381--136418 Score: 51
Period size: 10 Copynumber: 3.8 Consensus size: 10
136371 AAAATTTATC
136381 TTTTAAAATA
1 TTTTAAAATA
*
136391 TTTT-AATTAA
1 TTTTAAAAT-A
136401 TTTTAAAATA
1 TTTTAAAATA
136411 TTTTAAAA
1 TTTTAAAA
136419 ATATAATTTT
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
9 3 0.12
10 18 0.75
11 3 0.12
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (10 bp):
TTTTAAAATA
Found at i:136747 original size:49 final size:49
Alignment explanation
Indices: 136658--136760 Score: 134
Period size: 49 Copynumber: 2.1 Consensus size: 49
136648 ATTTTATGTC
* *
136658 AATTTCATTAATTTTTACTGAAAACAATATATATAAAACATAATAATAA
1 AATTTCATTAATTTTTACTGAAAACAATAAAAATAAAACATAATAATAA
* ** ** *
136707 TATTTCATTAATTTTTGTTGAAAACAATAAAAATTCAACATAATTATAA
1 AATTTCATTAATTTTTACTGAAAACAATAAAAATAAAACATAATAATAA
136756 AATTT
1 AATTT
136761 AATAAAATTA
Statistics
Matches: 45, Mismatches: 9, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
49 45 1.00
ACGTcount: A:0.50, C:0.08, G:0.03, T:0.40
Consensus pattern (49 bp):
AATTTCATTAATTTTTACTGAAAACAATAAAAATAAAACATAATAATAA
Found at i:137114 original size:27 final size:27
Alignment explanation
Indices: 137058--137112 Score: 74
Period size: 27 Copynumber: 2.0 Consensus size: 27
137048 CCGAATCACC
* **
137058 ATTTAATTAAAAAATATTTTTATTTAA
1 ATTTAATTAAAAAATATGTAAATTTAA
137085 ATTTAATTAAAAAATATGTAAATATTAA
1 ATTTAATTAAAAAATATGTAAAT-TTAA
137113 TTAAAAAATT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
27 20 0.83
28 4 0.17
ACGTcount: A:0.53, C:0.00, G:0.02, T:0.45
Consensus pattern (27 bp):
ATTTAATTAAAAAATATGTAAATTTAA
Found at i:140855 original size:52 final size:52
Alignment explanation
Indices: 140785--140905 Score: 224
Period size: 52 Copynumber: 2.3 Consensus size: 52
140775 GAAAATTTAT
*
140785 CTGCATGTATCGATACATTTAATAGTGTATCGATACATCTGGGCAAATTTGC
1 CTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAATTTGC
*
140837 CTGCATGTATCGATACATTTTATAATGTATCGATACATCTGGGCAAATTTGC
1 CTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAATTTGC
140889 CTGCATGTATCGATACA
1 CTGCATGTATCGATACA
140906 AAGATCAGTG
Statistics
Matches: 67, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
52 67 1.00
ACGTcount: A:0.29, C:0.18, G:0.18, T:0.35
Consensus pattern (52 bp):
CTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAATTTGC
Found at i:140918 original size:52 final size:51
Alignment explanation
Indices: 140785--140925 Score: 212
Period size: 52 Copynumber: 2.7 Consensus size: 51
140775 GAAAATTTAT
140785 CTGCATGTATCGATACATTTAATAGTGTATCGATACATCTGGGCAAATTTGC
1 CTGCATGTATCGATACA-TTAATAGTGTATCGATACATCTGGGCAAATTTGC
* *
140837 CTGCATGTATCGATACATTTTATAATGTATCGATACATCTGGGCAAATTTGC
1 CTGCATGTATCGATACA-TTAATAGTGTATCGATACATCTGGGCAAATTTGC
*
140889 CTGCATGTATCGATACA-AAGATCAGTGTATCGATACA
1 CTGCATGTATCGATACATTA-AT-AGTGTATCGATACA
140926 ATGTATCGAT
Statistics
Matches: 82, Mismatches: 5, Indels: 4
0.90 0.05 0.04
Matches are distributed among these distances:
51 2 0.02
52 80 0.98
ACGTcount: A:0.30, C:0.18, G:0.18, T:0.33
Consensus pattern (51 bp):
CTGCATGTATCGATACATTAATAGTGTATCGATACATCTGGGCAAATTTGC
Found at i:140932 original size:13 final size:13
Alignment explanation
Indices: 140914--140938 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
140904 CAAAGATCAG
140914 TGTATCGATACAA
1 TGTATCGATACAA
140927 TGTATCGATACA
1 TGTATCGATACA
140939 TGTGAGTAAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:141021 original size:13 final size:13
Alignment explanation
Indices: 141003--141027 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
140993 CAAAAAAATA
141003 TGTATCGATACAT
1 TGTATCGATACAT
141016 TGTATCGATACA
1 TGTATCGATACA
141028 ACATTTTATG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:141023 original size:33 final size:33
Alignment explanation
Indices: 140981--141047 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
140971 AGTAGCTTAA
140981 ATTGTATCGATACAAAAAAATATGTATCGATAC
1 ATTGTATCGATACAAAAAAATATGTATCGATAC
* ***
141014 ATTGTATCGATACAACATTTTATGTATCGATAC
1 ATTGTATCGATACAAAAAAATATGTATCGATAC
141047 A
1 A
141048 AATCGTTGAA
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.40, C:0.13, G:0.12, T:0.34
Consensus pattern (33 bp):
ATTGTATCGATACAAAAAAATATGTATCGATAC
Found at i:142094 original size:49 final size:49
Alignment explanation
Indices: 141918--142706 Score: 1024
Period size: 49 Copynumber: 15.8 Consensus size: 49
141908 GTGATAAAGA
* * * * *
141918 TGCCAATATGTTGATTCATGGCCAACGATATTGGGCTTAAAGATGATGAAAAAGG
1 TGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTT-AA-A-GATG---AAGG
* * * *
141973 ATGTCAATGTGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGGAAAAGG
1 -TGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGAT-G--AAGG
* *
142026 TGCCGATATGCTGATTCAAGGCCAGCTATATTGGACTGAAAGATGAAGG
1 TGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAAGG
* * * *
142075 TGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATAAAGG
1 TGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAAGG
* *
142124 TGCCAATATGCTGATTCAAGGCCAGCTATA-TGGACTTAATGGTGCAA-G
1 TGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATG-AAGG
* * * * *
142172 TGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATAAAAG
1 TGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAAGG
* * *
142221 TGCCAATATGCTGATTCAAGGCCAGCTATATTGGGCTTAATGGTGAAGG
1 TGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAAGG
* * * *
142270 TGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATAAAGG
1 TGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAAGG
*
142319 TGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGG
1 TGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAAGG
* *
142368 TGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTACAGATGAAGG
1 TGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAAGG
*
142417 TGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGG
1 TGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAAGG
*
142466 TGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGG
1 TGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAAGG
* * *
142515 TGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGGAAAAGG
1 TGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGAT-G--AAGG
142567 TGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAAGG
1 TGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAAGG
* * * *
142616 TGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGGAAAATG
1 TGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGAT-G--AAGG
* *
142668 TGCCAATATGCTAATTCAAGGCCAGCTATATTGGGCTTA
1 TGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTA
142707 GAGGGGTTGC
Statistics
Matches: 652, Mismatches: 71, Indels: 24
0.87 0.10 0.03
Matches are distributed among these distances:
48 41 0.06
49 445 0.68
50 2 0.00
51 2 0.00
52 120 0.18
53 9 0.01
54 2 0.00
55 2 0.00
56 29 0.04
ACGTcount: A:0.32, C:0.17, G:0.26, T:0.25
Consensus pattern (49 bp):
TGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAAGG
Found at i:142896 original size:104 final size:103
Alignment explanation
Indices: 142780--143739 Score: 992
Period size: 104 Copynumber: 9.3 Consensus size: 103
142770 GGGAAGGGAG
*
142780 AAAGATGCCACGGAGTTGTGGAC-TTAAAAGGGAAAAAGAGTGCCACGGAGTTGTGGGCTTTAAA
1 AAAGATGCCACGGAGTTGTGGGCTTTAAAAGGGAAAAAGAGTGCCACGGAGTTGTGGGCTTTAAA
142844 AGAAAAAAGTGCCACGGAGTTGTGGGCTTTGAAAAGGGAA
66 AGAAAAAAGTGCCACGGAGTTGTGGGCTTT-AAAA-GGAA
*
142884 AAAGATGCCACGGAGTTGTGGAC-TTAAAAGGGAAAAAGAGTGCCACGGAGTTGTGGGCTTTAAA
1 AAAGATGCCACGGAGTTGTGGGCTTTAAAAGGGAAAAAGAGTGCCACGGAGTTGTGGGCTTTAAA
142948 AGAAAAAAGTGCCACGGAGTTGTGGGCTTTGAAAAGGGAA
66 AGAAAAAAGTGCCACGGAGTTGTGGGCTTT-AAAA-GGAA
*
142988 AAAGAGTGCCACGGAGTTGTGGGCTTT-AAACGGAAAAAG-GTGCCACGGAGTTGTGGGCTTTAA
1 AAAGA-TGCCACGGAGTTGTGGGCTTTAAAAGGGAAAAAGAGTGCCACGGAGTTGTGGGCTTT-A
**
143051 AAAGGAAAAAAGAGTGCCACAAAGTTGTGGGCTTTAAAA-GAA
64 AAA-G-AAAAA-AGTGCCACGGAGTTGTGGGCTTTAAAAGGAA
* * * * *
143093 GAAGGTGCCACGGAGTTGTGGGCTTTGAAAA--GAAGAAG-GTTGCCACCGACTTGTGTGGGCTT
1 AAAGATGCCACGGAGTTGTGGGCTTT-AAAAGGGAAAAAGAG-TGCCACGGA-GT-TGTGGGCTT
* * * *
143155 TAGGAAGGGAGAAAGATGCCACGGAGTTGTGGAC-TTAAAAGGGAA
62 TA--AAAGAAAAAAG-TGCCACGGAGTTGTGGGCTTTAAAA-GGAA
143200 AAAGAGTGCCACGGAGTTGTGGGCTTTAAAA--GAAAAA-AGTGCCACGGAGTTGTGGGCTTTGA
1 AAAGA-TGCCACGGAGTTGTGGGCTTTAAAAGGGAAAAAGAGTGCCACGGAGTTGTGGGCTTT-A
* * *
143262 AAAGGGAAAAAGAGTGCCACAGAGTTGTGGGCTTTAAACGAAA
64 AAA--GAAAAA-AGTGCCACGGAGTTGTGGGCTTTAAAAGGAA
* * * **
143305 AAAGGTACCACGGAGTTGTGGGCTTTAAAAAGGAAAAAAGAGTGCCACAAAGTTGTGGGCTTTAA
1 AAAGATGCCACGGAGTTGTGGGCTTT-AAAAGGGAAAAAGAGTGCCACGGAGTTGTGGGCTTTAA
* *
143370 AAGAAGAAGGTGCCACGGAGTTGTGGGCTTTGAAAA-GAA
65 AAGAAAAAAGTGCCACGGAGTTGTGGGCTTT-AAAAGGAA
* * * * * * *
143409 GAAGGTTGCCACCGACTTGTGTGGGCTTTAGGAAGGGAGAAAGA-TGCCACGGAGTTGTGGAC-T
1 -AAAGATGCCACGGA-GT-TGTGGGCTTTA-AAAGGGAAAAAGAGTGCCACGGAGTTGTGGGCTT
* *
143472 TAAAAGGGAAAAAGAGTGCCACAGAGTTGTGGGCTTTAAAAGAAA
62 TAAAA--GAAAAA-AGTGCCACGGAGTTGTGGGCTTTAAAAGGAA
143517 AAAG-TGCCACGGAGTTGTGGGCTTTGAAAAGGGAAAAAGAGTGCCACGGAGTTGTGGGCTTTAA
1 AAAGATGCCACGGAGTTGTGGGCTTT-AAAAGGGAAAAAGAGTGCCACGGAGTTGTGGGCTTTAA
* *
143581 ACA-AAAAAAGGTGCCACGGAGTTGTGGAC-TTAAAGATGAA
65 A-AGAAAAAA-GTGCCACGGAGTTGTGGGCTTTAAA-AGGAA
* *
143621 AAA-AGTGCCACGGAATTGTGGGCTTTAAAA--G-----G-GTGCCACGGAGTTGTGGAC-TTAA
1 AAAGA-TGCCACGGAGTTGTGGGCTTTAAAAGGGAAAAAGAGTGCCACGGAGTTGTGGGCTTTAA
*
143676 AGATGAAAAAAGTGCCACGGAATTGTGGGCTTT-AAA-GAA
65 A-A-GAAAAAAGTGCCACGGAGTTGTGGGCTTTAAAAGGAA
* * *
143715 AAAG-TGCCACTGAGTCGTGGACTTT
1 AAAGATGCCACGGAGTTGTGGGCTTT
143740 GAGACAAAAT
Statistics
Matches: 737, Mismatches: 71, Indels: 107
0.81 0.08 0.12
Matches are distributed among these distances:
93 17 0.02
94 6 0.01
95 7 0.01
96 37 0.05
97 9 0.01
102 1 0.00
103 8 0.01
104 265 0.36
105 150 0.20
106 71 0.10
107 78 0.11
108 88 0.12
ACGTcount: A:0.34, C:0.12, G:0.33, T:0.20
Consensus pattern (103 bp):
AAAGATGCCACGGAGTTGTGGGCTTTAAAAGGGAAAAAGAGTGCCACGGAGTTGTGGGCTTTAAA
AGAAAAAAGTGCCACGGAGTTGTGGGCTTTAAAAGGAA
Found at i:143078 original size:141 final size:138
Alignment explanation
Indices: 142773--143738 Score: 1184
Period size: 141 Copynumber: 7.0 Consensus size: 138
142763 GGGCTTTGGG
* *
142773 AAGGGAGAAAGA-TGCCACGGAGTTGTGGAC-TTAAAAGGGAAAAAGAGTGCCACGGAGTTGTGG
1 AAGGGAAAAAGAGTGCCACGGAGTTGTGGGCTTTAAAA--GAAAAA-AGTGCCACGGAGTTGTGG
* *
142836 GCTTT-AAAA-GAAAAA-AGTGCCACGGAGTTGTGGGCTTTGAAAAGGGAAAAAGATGCCACGGA
63 GCTTTGAAAAGGAAAAAGAGTGCCACGGAGTTGTGGGCTTT--AAACGGAAAAAGGTGCCACGGA
142898 GTTGTGGACTTAA
126 GTTGTGGACTTAA
142911 AAGGGAAAAAGAGTGCCACGGAGTTGTGGGCTTTAAAAGAAAAAAGTGCCACGGAGTTGTGGGCT
1 AAGGGAAAAAGAGTGCCACGGAGTTGTGGGCTTTAAAAGAAAAAAGTGCCACGGAGTTGTGGGCT
142976 TTGAAAAGGGAAAAAGAGTGCCACGGAGTTGTGGGCTTTAAACGGAAAAAGGTGCCACGGAGTTG
66 TTGAAAA-GGAAAAAGAGTGCCACGGAGTTGTGGGCTTTAAACGGAAAAAGGTGCCACGGAGTTG
*
143041 TGGGCTTTAAA
130 TGGAC-TT-AA
* ** * *
143052 AAGGAAAAAAGAGTGCCACAAAGTTGTGGGCTTTAAAAGAAGAAGGTGCCACGGAGTTGTGGGCT
1 AAGGGAAAAAGAGTGCCACGGAGTTGTGGGCTTTAAAAGAAAAAAGTGCCACGGAGTTGTGGGCT
* * * * * *
143117 TTGAAAA-GAAGAAG-GTTGCCACCGACTTGTGTGGGCTTTAGGAAGGGAGAAAGATGCCACGGA
66 TTGAAAAGGAAAAAGAG-TGCCACGGA-GT-TGTGGGCTTTA--AACGGAAAAAGGTGCCACGGA
143180 GTTGTGGACTTAA
126 GTTGTGGACTTAA
143193 AAGGGAAAAAGAGTGCCACGGAGTTGTGGGCTTTAAAAGAAAAAAGTGCCACGGAGTTGTGGGCT
1 AAGGGAAAAAGAGTGCCACGGAGTTGTGGGCTTTAAAAGAAAAAAGTGCCACGGAGTTGTGGGCT
* * *
143258 TTGAAAAGGGAAAAAGAGTGCCACAGAGTTGTGGGCTTTAAACGAAAAAAGGTACCACGGAGTTG
66 TTGAAAA-GGAAAAAGAGTGCCACGGAGTTGTGGGCTTTAAACGGAAAAAGGTGCCACGGAGTTG
*
143323 TGGGCTTTAAA
130 TGGAC-TT-AA
* ** * *
143334 AAGGAAAAAAGAGTGCCACAAAGTTGTGGGCTTTAAAAGAAGAAGGTGCCACGGAGTTGTGGGCT
1 AAGGGAAAAAGAGTGCCACGGAGTTGTGGGCTTTAAAAGAAAAAAGTGCCACGGAGTTGTGGGCT
* * * * * *
143399 TTGAAAA-GAAGAAG-GTTGCCACCGACTTGTGTGGGCTTTAGGAAGGGAGAAAGATGCCACGGA
66 TTGAAAAGGAAAAAGAG-TGCCACGGA-GT-TGTGGGCTTTA--AACGGAAAAAGGTGCCACGGA
143462 GTTGTGGACTTAA
126 GTTGTGGACTTAA
*
143475 AAGGGAAAAAGAGTGCCACAGAGTTGTGGGCTTTAAAAGAAAAAAGTGCCACGGAGTTGTGGGCT
1 AAGGGAAAAAGAGTGCCACGGAGTTGTGGGCTTTAAAAGAAAAAAGTGCCACGGAGTTGTGGGCT
**
143540 TTGAAAAGGGAAAAAGAGTGCCACGGAGTTGTGGGCTTTAAACAAAAAAAGGTGCCACGGAGTTG
66 TTGAAAA-GGAAAAAGAGTGCCACGGAGTTGTGGGCTTTAAACGGAAAAAGGTGCCACGGAGTTG
143605 TGGACTT-A
130 TGGACTTAA
* * * *
143613 AAGATGAAAAA-AGTGCCACGGAATTGTGGGCTTTAAAAG-----GGTGCCACGGAGTTGTGGAC
1 AAG-GGAAAAAGAGTGCCACGGAGTTGTGGGCTTTAAAAGAAAAAAGTGCCACGGAGTTGTGGGC
* * * *
143672 -TT-AAAGATGAAAAA-AGTGCCACGGAATTGTGGGCTTTAAA--GAAAAA-GTGCCACTGAGTC
65 TTTGAAA-AGGAAAAAGAGTGCCACGGAGTTGTGGGCTTTAAACGGAAAAAGGTGCCACGGAGTT
143731 GTGGACTT
129 GTGGACTT
143739 TGAGACAAAA
Statistics
Matches: 733, Mismatches: 67, Indels: 67
0.85 0.08 0.08
Matches are distributed among these distances:
127 19 0.03
128 5 0.01
130 25 0.03
131 9 0.01
132 3 0.00
133 18 0.02
137 23 0.03
138 53 0.07
139 130 0.18
140 18 0.02
141 344 0.47
142 6 0.01
143 78 0.11
144 2 0.00
ACGTcount: A:0.34, C:0.12, G:0.33, T:0.20
Consensus pattern (138 bp):
AAGGGAAAAAGAGTGCCACGGAGTTGTGGGCTTTAAAAGAAAAAAGTGCCACGGAGTTGTGGGCT
TTGAAAAGGAAAAAGAGTGCCACGGAGTTGTGGGCTTTAAACGGAAAAAGGTGCCACGGAGTTGT
GGACTTAA
Found at i:143227 original size:282 final size:282
Alignment explanation
Indices: 142780--143669 Score: 1452
Period size: 282 Copynumber: 3.2 Consensus size: 282
142770 GGGAAGGGAG
** * *
142780 AAAGA-TGCCACGGAGTTGTGGAC-TTAAAAGGGAAAAAGAGTGCCACGGAGTTGTGGGCTTT-A
1 AAAGAGTGCCACAAAGTTGTGGGCTTTAAAA--GAAGAAG-GTGCCACGGAGTTGTGGGCTTTGA
* * * * * *
142842 AAAGAAAAAAG-TGCCACGGA-GT-TGTGGGCTTT-GAAAAGGGAAAAAGATGCCACGGAGTTGT
63 AAAGAAGAAGGTTGCCACCGACTTGTGTGGGCTTTAG-GAAGGGAGAAAGATGCCACGGAGTTGT
142903 GGACTTAAAAGGGAAAAAGAGTGCCACGGAGTTGTGGGCTTTAAAAGAAAAAAGTGCCACGGAGT
127 GGACTTAAAAGGGAAAAAGAGTGCCACGGAGTTGTGGGCTTTAAAAGAAAAAAGTGCCACGGAGT
*
142968 TGTGGGCTTTGAAAAGGGAAAAAGAGTGCCACGGAGTTGTGGGCTTTAAACGGAAAAAGGTGCCA
192 TGTGGGCTTTGAAAAGGGAAAAAGAGTGCCACGGAGTTGTGGGCTTTAAACGAAAAAAGGTGCCA
143033 CGGAGTTGTGGGCTTTAAAAAGGAAA
257 CGGAGTTGTGGGCTTTAAAAAGGAAA
143059 AAAGAGTGCCACAAAGTTGTGGGCTTTAAAAGAAGAAGGTGCCACGGAGTTGTGGGCTTTGAAAA
1 AAAGAGTGCCACAAAGTTGTGGGCTTTAAAAGAAGAAGGTGCCACGGAGTTGTGGGCTTTGAAAA
143124 GAAGAAGGTTGCCACCGACTTGTGTGGGCTTTAGGAAGGGAGAAAGATGCCACGGAGTTGTGGAC
66 GAAGAAGGTTGCCACCGACTTGTGTGGGCTTTAGGAAGGGAGAAAGATGCCACGGAGTTGTGGAC
143189 TTAAAAGGGAAAAAGAGTGCCACGGAGTTGTGGGCTTTAAAAGAAAAAAGTGCCACGGAGTTGTG
131 TTAAAAGGGAAAAAGAGTGCCACGGAGTTGTGGGCTTTAAAAGAAAAAAGTGCCACGGAGTTGTG
* *
143254 GGCTTTGAAAAGGGAAAAAGAGTGCCACAGAGTTGTGGGCTTTAAACGAAAAAAGGTACCACGGA
196 GGCTTTGAAAAGGGAAAAAGAGTGCCACGGAGTTGTGGGCTTTAAACGAAAAAAGGTGCCACGGA
143319 GTTGTGGGCTTTAAAAAGGAAA
261 GTTGTGGGCTTTAAAAAGGAAA
143341 AAAGAGTGCCACAAAGTTGTGGGCTTTAAAAGAAGAAGGTGCCACGGAGTTGTGGGCTTTGAAAA
1 AAAGAGTGCCACAAAGTTGTGGGCTTTAAAAGAAGAAGGTGCCACGGAGTTGTGGGCTTTGAAAA
143406 GAAGAAGGTTGCCACCGACTTGTGTGGGCTTTAGGAAGGGAGAAAGATGCCACGGAGTTGTGGAC
66 GAAGAAGGTTGCCACCGACTTGTGTGGGCTTTAGGAAGGGAGAAAGATGCCACGGAGTTGTGGAC
*
143471 TTAAAAGGGAAAAAGAGTGCCACAGAGTTGTGGGCTTTAAAAGAAAAAAGTGCCACGGAGTTGTG
131 TTAAAAGGGAAAAAGAGTGCCACGGAGTTGTGGGCTTTAAAAGAAAAAAGTGCCACGGAGTTGTG
*
143536 GGCTTTGAAAAGGGAAAAAGAGTGCCACGGAGTTGTGGGCTTTAAACAAAAAAAGGTGCCACGGA
196 GGCTTTGAAAAGGGAAAAAGAGTGCCACGGAGTTGTGGGCTTTAAACGAAAAAAGGTGCCACGGA
* * *
143601 GTTGTGGAC-TTAAAGATG-AA
261 GTTGTGGGCTTTAAAAAGGAAA
*
143621 AAA-AGTGCCACGGAA-TTGTGGGCTTT--AA-AAG--GGTGCCACGGAGTTGTGG
1 AAAGAGTGCCAC-AAAGTTGTGGGCTTTAAAAGAAGAAGGTGCCACGGAGTTGTGG
143670 ACTTAAAGAT
Statistics
Matches: 582, Mismatches: 21, Indels: 21
0.93 0.03 0.03
Matches are distributed among these distances:
274 18 0.03
276 3 0.01
277 2 0.00
278 22 0.04
279 40 0.07
280 30 0.05
281 14 0.02
282 452 0.78
283 1 0.00
ACGTcount: A:0.34, C:0.12, G:0.34, T:0.20
Consensus pattern (282 bp):
AAAGAGTGCCACAAAGTTGTGGGCTTTAAAAGAAGAAGGTGCCACGGAGTTGTGGGCTTTGAAAA
GAAGAAGGTTGCCACCGACTTGTGTGGGCTTTAGGAAGGGAGAAAGATGCCACGGAGTTGTGGAC
TTAAAAGGGAAAAAGAGTGCCACGGAGTTGTGGGCTTTAAAAGAAAAAAGTGCCACGGAGTTGTG
GGCTTTGAAAAGGGAAAAAGAGTGCCACGGAGTTGTGGGCTTTAAACGAAAAAAGGTGCCACGGA
GTTGTGGGCTTTAAAAAGGAAA
Found at i:143659 original size:28 final size:28
Alignment explanation
Indices: 143619--143711 Score: 96
Period size: 28 Copynumber: 3.1 Consensus size: 28
143609 CTTAAAGATG
143619 AAAAAAGTGCCACGGAATTGTGGGCTTT
1 AAAAAAGTGCCACGGAATTGTGGGCTTT
** * *
143647 AAAAGGGTGCCACGGAGTTGTGGACTTAAAGAT
1 AAAAAAGTGCCACGGAATTGTGGGCTT-----T
143680 GAAAAAAGTGCCACGGAATTGTGGGCTTT
1 -AAAAAAGTGCCACGGAATTGTGGGCTTT
143709 AAA
1 AAA
143712 GAAAAAGTGC
Statistics
Matches: 51, Mismatches: 8, Indels: 12
0.72 0.11 0.17
Matches are distributed among these distances:
28 26 0.51
29 1 0.02
33 1 0.02
34 23 0.45
ACGTcount: A:0.34, C:0.13, G:0.30, T:0.23
Consensus pattern (28 bp):
AAAAAAGTGCCACGGAATTGTGGGCTTT
Found at i:143669 original size:96 final size:92
Alignment explanation
Indices: 143551--143724 Score: 233
Period size: 96 Copynumber: 1.8 Consensus size: 92
143541 TGAAAAGGGA
* *
143551 AAAAGAGTGCCACGGAGTTGTGGGCTTTAAACA-AAAAAAGGTGCCACGGAGTTGTGGACTTAAA
1 AAAAGAGTGCCACGGAGTTGTGGAC-TTAAACAGAAAAAA-GTGCCACGGAATTGTGGACTTAAA
143615 GATGAAAAAAGTGCCACGGAATTGTGGGCTTT
64 -A-G-AAAAAGTGCCACGGAATTGTGGGCTTT
* * * *
143647 AAAAGGGTGCCACGGAGTTGTGGACTTAAAGATGAAAAAAGTGCCACGGAATTGTGGGCTTTAAA
1 AAAAGAGTGCCACGGAGTTGTGGACTTAAACA-GAAAAAAGTGCCACGGAATTGTGGACTTAAAA
143712 GAAAAAGTGCCAC
65 GAAAAAGTGCCAC
143725 TGAGTCGTGG
Statistics
Matches: 70, Mismatches: 6, Indels: 7
0.84 0.07 0.08
Matches are distributed among these distances:
93 12 0.17
94 1 0.01
95 7 0.10
96 44 0.63
97 6 0.09
ACGTcount: A:0.36, C:0.14, G:0.30, T:0.21
Consensus pattern (92 bp):
AAAAGAGTGCCACGGAGTTGTGGACTTAAACAGAAAAAAGTGCCACGGAATTGTGGACTTAAAAG
AAAAAGTGCCACGGAATTGTGGGCTTT
Found at i:144730 original size:12 final size:12
Alignment explanation
Indices: 144713--144742 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
144703 TGAAAAGGGG
144713 TTTTTTCTTTTT
1 TTTTTTCTTTTT
*
144725 TTTTTTGTTTTT
1 TTTTTTCTTTTT
144737 TTTTTT
1 TTTTTT
144743 TTTGAAGAGT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.00, C:0.03, G:0.03, T:0.93
Consensus pattern (12 bp):
TTTTTTCTTTTT
Found at i:152090 original size:52 final size:52
Alignment explanation
Indices: 152020--152140 Score: 215
Period size: 52 Copynumber: 2.3 Consensus size: 52
152010 GAAAATTTAT
*
152020 CTGCATGTATCGATACATTTAATAGTGTATCGATACATCTGGGCAAATTTGC
1 CTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAATTTGC
* *
152072 CTGTATGTATCGATACATTTTATAATGTATCGATACATCTGGGCAAATTTGC
1 CTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAATTTGC
152124 CTGCATGTATCGATACA
1 CTGCATGTATCGATACA
152141 AAGATCAGTG
Statistics
Matches: 65, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
52 65 1.00
ACGTcount: A:0.29, C:0.17, G:0.18, T:0.36
Consensus pattern (52 bp):
CTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAATTTGC
Found at i:152153 original size:52 final size:51
Alignment explanation
Indices: 152020--152160 Score: 203
Period size: 52 Copynumber: 2.7 Consensus size: 51
152010 GAAAATTTAT
152020 CTGCATGTATCGATACATTTAATAGTGTATCGATACATCTGGGCAAATTTGC
1 CTGCATGTATCGATACA-TTAATAGTGTATCGATACATCTGGGCAAATTTGC
* * *
152072 CTGTATGTATCGATACATTTTATAATGTATCGATACATCTGGGCAAATTTGC
1 CTGCATGTATCGATACA-TTAATAGTGTATCGATACATCTGGGCAAATTTGC
*
152124 CTGCATGTATCGATACA-AAGATCAGTGTATCGATACA
1 CTGCATGTATCGATACATTA-AT-AGTGTATCGATACA
152161 ATGTATCGAT
Statistics
Matches: 80, Mismatches: 7, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
51 2 0.03
52 78 0.98
ACGTcount: A:0.30, C:0.17, G:0.18, T:0.34
Consensus pattern (51 bp):
CTGCATGTATCGATACATTAATAGTGTATCGATACATCTGGGCAAATTTGC
Found at i:152167 original size:13 final size:13
Alignment explanation
Indices: 152149--152173 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
152139 CAAAGATCAG
152149 TGTATCGATACAA
1 TGTATCGATACAA
152162 TGTATCGATACA
1 TGTATCGATACA
152174 TGTGAGTAAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:152256 original size:13 final size:13
Alignment explanation
Indices: 152238--152262 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
152228 CAAAAAAATA
152238 TGTATCGATACAT
1 TGTATCGATACAT
152251 TGTATCGATACA
1 TGTATCGATACA
152263 ACATTTTATG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:152258 original size:33 final size:33
Alignment explanation
Indices: 152216--152282 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
152206 AGTAGCTTAA
152216 ATTGTATCGATACAAAAAAATATGTATCGATAC
1 ATTGTATCGATACAAAAAAATATGTATCGATAC
* ***
152249 ATTGTATCGATACAACATTTTATGTATCGATAC
1 ATTGTATCGATACAAAAAAATATGTATCGATAC
152282 A
1 A
152283 AATCGTTGAA
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.40, C:0.13, G:0.12, T:0.34
Consensus pattern (33 bp):
ATTGTATCGATACAAAAAAATATGTATCGATAC
Found at i:157145 original size:23 final size:26
Alignment explanation
Indices: 157099--157145 Score: 64
Period size: 26 Copynumber: 1.9 Consensus size: 26
157089 GAGTTGTACT
*
157099 TCATTTTTATATCATATTAGATGTAG
1 TCATTTTTATATCATATTACATGTAG
157125 TCATTTTTA-AT-A-ATTACATGT
1 TCATTTTTATATCATATTACATGT
157146 TTAAATCCAA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
23 8 0.40
24 1 0.05
25 2 0.10
26 9 0.45
ACGTcount: A:0.32, C:0.09, G:0.09, T:0.51
Consensus pattern (26 bp):
TCATTTTTATATCATATTACATGTAG
Found at i:157482 original size:16 final size:16
Alignment explanation
Indices: 157443--157510 Score: 64
Period size: 16 Copynumber: 4.2 Consensus size: 16
157433 TCGAATCTGA
* * *
157443 AAATGATATGAATTTA
1 AAATGATTTAAATTTG
*
157459 AAATGATTTTAATTTG
1 AAATGATTTAAATTTG
* *
157475 AAATGATTTAAACTCG
1 AAATGATTTAAATTTG
* *
157491 AAATGATTCAAATTCG
1 AAATGATTTAAATTTG
157507 AAAT
1 AAAT
157511 AACTTGATAA
Statistics
Matches: 44, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
16 44 1.00
ACGTcount: A:0.46, C:0.06, G:0.12, T:0.37
Consensus pattern (16 bp):
AAATGATTTAAATTTG
Found at i:157660 original size:16 final size:16
Alignment explanation
Indices: 157627--157660 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
157617 ACCTAAACTC
*
157627 AAAATGACTCAAATCT
1 AAAATGACTCAAACCT
*
157643 AAAATGACTCGAACCT
1 AAAATGACTCAAACCT
157659 AA
1 AA
157661 TCTAAATGTT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.50, C:0.21, G:0.09, T:0.21
Consensus pattern (16 bp):
AAAATGACTCAAACCT
Found at i:158928 original size:16 final size:16
Alignment explanation
Indices: 158895--158976 Score: 51
Period size: 16 Copynumber: 5.2 Consensus size: 16
158885 AACTCGAATA
* *
158895 TTTTTAAATTTGAA-T
1 TTTTTTAATTTAAATT
*
158910 TTTTTTAGTTTAAATT
1 TTTTTTAATTTAAATT
**
158926 TTTTAGAGA-TTAAATT
1 TTTTTTA-ATTTAAATT
** *
158942 AATTTTAATTCAAATT
1 TTTTTTAATTTAAATT
* *
158958 ATTTTAAATTTAAATT
1 TTTTTTAATTTAAATT
158974 TTT
1 TTT
158977 AATTTTTTTA
Statistics
Matches: 49, Mismatches: 15, Indels: 5
0.71 0.22 0.07
Matches are distributed among these distances:
15 12 0.24
16 37 0.76
ACGTcount: A:0.35, C:0.01, G:0.05, T:0.59
Consensus pattern (16 bp):
TTTTTTAATTTAAATT
Found at i:167284 original size:2 final size:2
Alignment explanation
Indices: 167277--167305 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
167267 ATAGTTGATC
167277 TG TG TG TG TG TG TG TG TG TG TG TG TG TG T
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG T
167306 TTGAGCTTAG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.00, C:0.00, G:0.48, T:0.52
Consensus pattern (2 bp):
TG
Found at i:167358 original size:20 final size:20
Alignment explanation
Indices: 167333--167399 Score: 57
Period size: 20 Copynumber: 3.3 Consensus size: 20
167323 CTACATGTTA
167333 TTGTCAAGCAGGCTATGATT
1 TTGTCAAGCAGGCTATGATT
* ** *
167353 TTGTC-AGTATACTACATG-TGA
1 TTGTCAAGCAGGCT--ATGAT-T
167374 TTGTCAAGCAGGCTATGATT
1 TTGTCAAGCAGGCTATGATT
167394 TTGTCA
1 TTGTCA
167400 GTAGGATTAT
Statistics
Matches: 34, Mismatches: 8, Indels: 10
0.65 0.15 0.19
Matches are distributed among these distances:
19 5 0.15
20 15 0.44
21 9 0.26
22 5 0.15
ACGTcount: A:0.25, C:0.15, G:0.22, T:0.37
Consensus pattern (20 bp):
TTGTCAAGCAGGCTATGATT
Found at i:167377 original size:41 final size:41
Alignment explanation
Indices: 167317--167402 Score: 163
Period size: 41 Copynumber: 2.1 Consensus size: 41
167307 TGAGCTTAGA
*
167317 AGTATACTACATGTTATTGTCAAGCAGGCTATGATTTTGTC
1 AGTATACTACATGTGATTGTCAAGCAGGCTATGATTTTGTC
167358 AGTATACTACATGTGATTGTCAAGCAGGCTATGATTTTGTC
1 AGTATACTACATGTGATTGTCAAGCAGGCTATGATTTTGTC
167399 AGTA
1 AGTA
167403 GGATTATTGA
Statistics
Matches: 44, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 44 1.00
ACGTcount: A:0.28, C:0.14, G:0.21, T:0.37
Consensus pattern (41 bp):
AGTATACTACATGTGATTGTCAAGCAGGCTATGATTTTGTC
Found at i:170914 original size:29 final size:28
Alignment explanation
Indices: 170871--170951 Score: 89
Period size: 28 Copynumber: 2.9 Consensus size: 28
170861 TTATATTAGT
*
170871 GTTTTTATAATATTATAATTGTGTTTAA
1 GTTTTTATAATATTATAATTGTGTATAA
170899 GTTTTTATAAATATTA-AATT-TGTATAA
1 GTTTTTAT-AATATTATAATTGTGTATAA
170926 -TTATATT-TAATATTATCAATTGTGTA
1 GTT-T-TTATAATATTAT-AATTGTGTA
170952 AGATTATGAA
Statistics
Matches: 46, Mismatches: 1, Indels: 11
0.79 0.02 0.19
Matches are distributed among these distances:
26 9 0.20
27 8 0.17
28 18 0.39
29 11 0.24
ACGTcount: A:0.36, C:0.01, G:0.09, T:0.54
Consensus pattern (28 bp):
GTTTTTATAATATTATAATTGTGTATAA
Done.