Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01007984.1 Hibiscus syriacus cultivar Beakdansim tig00110429_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 12923621
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 53 of 65
Found at i:10448629 original size:14 final size:14
Alignment explanation
Indices: 10448584--10448635 Score: 50
Period size: 14 Copynumber: 3.4 Consensus size: 14
10448574 CATTTTGTTC
10448584 TTTTTATCTACTTATT
1 TTTTTAT-TA-TTATT
*
10448600 TATTTATATTACTATT
1 T-TTT-TATTATTATT
10448616 TTTTTATTATTATT
1 TTTTTATTATTATT
*
10448630 ATTTTA
1 TTTTTA
10448636 CTCTATCATA
Statistics
Matches: 31, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
14 14 0.45
15 3 0.10
16 6 0.19
17 5 0.16
18 3 0.10
ACGTcount: A:0.25, C:0.06, G:0.00, T:0.69
Consensus pattern (14 bp):
TTTTTATTATTATT
Found at i:10448708 original size:18 final size:19
Alignment explanation
Indices: 10448680--10448715 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
10448670 TTTATATACA
*
10448680 TGTAGTATTTTTATTATTT
1 TGTAGTATTTTAATTATTT
10448699 TGTA-TATTTTAATTATT
1 TGTAGTATTTTAATTATT
10448716 CATCCATCAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 12 0.75
19 4 0.25
ACGTcount: A:0.25, C:0.00, G:0.08, T:0.67
Consensus pattern (19 bp):
TGTAGTATTTTAATTATTT
Found at i:10448843 original size:9 final size:9
Alignment explanation
Indices: 10448831--10448903 Score: 78
Period size: 9 Copynumber: 8.1 Consensus size: 9
10448821 TTTTCGTTTC
*
10448831 ATTTTGTTT
1 ATTTTATTT
10448840 ATTTTATTT
1 ATTTTATTT
10448849 A-TTTATTT
1 ATTTTATTT
10448857 ATTTTATTT
1 ATTTTATTT
10448866 ATTTTATTT
1 ATTTTATTT
*
10448875 -CTTTACTTT
1 ATTTTA-TTT
*
10448884 CATTTTGTTT
1 -ATTTTATTT
*
10448894 GTTTTATTT
1 ATTTTATTT
10448903 A
1 A
10448904 CATGTTACCT
Statistics
Matches: 53, Mismatches: 7, Indels: 8
0.78 0.10 0.12
Matches are distributed among these distances:
8 12 0.23
9 35 0.66
10 3 0.06
11 3 0.06
ACGTcount: A:0.18, C:0.04, G:0.04, T:0.74
Consensus pattern (9 bp):
ATTTTATTT
Found at i:10448851 original size:4 final size:4
Alignment explanation
Indices: 10448837--10448879 Score: 50
Period size: 4 Copynumber: 10.0 Consensus size: 4
10448827 TTTCATTTTG
*
10448837 TTTA TTTTA TTTA TTTA TTTA TTTTA TTTA TTTTA TTTC TTTA
1 TTTA -TTTA TTTA TTTA TTTA -TTTA TTTA -TTTA TTTA TTTA
10448880 CTTTCATTTT
Statistics
Matches: 34, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
4 22 0.65
5 12 0.35
ACGTcount: A:0.21, C:0.02, G:0.00, T:0.77
Consensus pattern (4 bp):
TTTA
Found at i:10450063 original size:2 final size:2
Alignment explanation
Indices: 10450056--10450084 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
10450046 TACCCCTAAC
10450056 TA 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 TA T
10450085 GTGGTGAATG
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:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:10450519 original size:21 final size:20
Alignment explanation
Indices: 10450450--10450592 Score: 205
Period size: 20 Copynumber: 7.1 Consensus size: 20
10450440 CGCAACACAT
* *
10450450 AAGTCAAATTCGCAACACAA
1 AAGTCAAATTCGCAACGCGA
*
10450470 AAGTCAAATTTGCAACGCGA
1 AAGTCAAATTCGCAACGCGA
* *
10450490 TAGTCAAATTCGCAACACTGA
1 AAGTCAAATTCGCAACGC-GA
**
10450511 ATTTCAAATTCGCAACGCGA
1 AAGTCAAATTCGCAACGCGA
10450531 AAGTCAAATTCGCAACGCGA
1 AAGTCAAATTCGCAACGCGA
10450551 AAGTCAAATTCGCAACGCGA
1 AAGTCAAATTCGCAACGCGA
*
10450571 AAGTCAAATTCACAACGCGA
1 AAGTCAAATTCGCAACGCGA
10450591 AA
1 AA
10450593 CACAATATTA
Statistics
Matches: 109, Mismatches: 13, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
20 93 0.85
21 16 0.15
ACGTcount: A:0.42, C:0.24, G:0.16, T:0.18
Consensus pattern (20 bp):
AAGTCAAATTCGCAACGCGA
Found at i:10450540 original size:61 final size:60
Alignment explanation
Indices: 10450439--10450592 Score: 211
Period size: 61 Copynumber: 2.5 Consensus size: 60
10450429 AATCTGTAAA
* * * *
10450439 TCGCAACAC-ATAAGTCAAATTCGCAACACAAAAGTCAAATTTGCAACGCGATAGTCAAAT
1 TCGCAACACGA-AAGTCAAATTCGCAACGCGAAAGTCAAATTCGCAACGCGAAAGTCAAAT
**
10450499 TCGCAACACTGAATTTCAAATTCGCAACGCGAAAGTCAAATTCGCAACGCGAAAGTCAAAT
1 TCGCAACAC-GAAAGTCAAATTCGCAACGCGAAAGTCAAATTCGCAACGCGAAAGTCAAAT
* *
10450560 TCGCAACGCGAAAGTCAAATTCACAACGCGAAA
1 TCGCAACACGAAAGTCAAATTCGCAACGCGAAA
10450593 CACAATATTA
Statistics
Matches: 82, Mismatches: 10, Indels: 4
0.85 0.10 0.04
Matches are distributed among these distances:
60 30 0.37
61 51 0.62
62 1 0.01
ACGTcount: A:0.42, C:0.25, G:0.16, T:0.18
Consensus pattern (60 bp):
TCGCAACACGAAAGTCAAATTCGCAACGCGAAAGTCAAATTCGCAACGCGAAAGTCAAAT
Found at i:10451172 original size:20 final size:19
Alignment explanation
Indices: 10451137--10451190 Score: 72
Period size: 20 Copynumber: 2.7 Consensus size: 19
10451127 AAATCGCAAC
10451137 GCGATTTTAGTTTCGCGTT
1 GCGATTTTAGTTTCGCGTT
*
10451156 GCGATTTTCATTTTCGCGTT
1 GCGATTTT-AGTTTCGCGTT
*
10451176 GCGAATTTAAGTTTC
1 GCG-ATTTTAGTTTC
10451191 AGAAACTACT
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
19 8 0.27
20 18 0.60
21 4 0.13
ACGTcount: A:0.15, C:0.17, G:0.22, T:0.46
Consensus pattern (19 bp):
GCGATTTTAGTTTCGCGTT
Found at i:10452873 original size:21 final size:21
Alignment explanation
Indices: 10452849--10452889 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
10452839 AAGGGAGTTA
*
10452849 CGTCATGAGGTCGGTGCTTTG
1 CGTCATGAGGTCGGTACTTTG
10452870 CGTCATGAGGTCGGTACTTT
1 CGTCATGAGGTCGGTACTTT
10452890 ATGTGAAGAT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.12, C:0.20, G:0.34, T:0.34
Consensus pattern (21 bp):
CGTCATGAGGTCGGTACTTTG
Found at i:10453344 original size:21 final size:21
Alignment explanation
Indices: 10453303--10453421 Score: 91
Period size: 21 Copynumber: 5.7 Consensus size: 21
10453293 GATGCACCTA
* **
10453303 TCATCGTTCAAAAGGTGCCTC
1 TCATCGTTCAAGAGGCCCCTC
10453324 -CTATCGTTCAAGAGGCCCCTC
1 TC-ATCGTTCAAGAGGCCCCTC
* *
10453345 TCATC-ATCGAAGAAGCCCCTC
1 TCATCGTTC-AAGAGGCCCCTC
* * *
10453366 TTATC-ATCGAAGAGTCCCCTC
1 TCATCGTTC-AAGAGGCCCCTC
* * *
10453387 TCACCGTTCAAGAGGCCTCTG
1 TCATCGTTCAAGAGGCCCCTC
10453408 TCATCGTTCAAGAG
1 TCATCGTTCAAGAG
10453422 CCCGATTCAC
Statistics
Matches: 79, Mismatches: 15, Indels: 8
0.77 0.15 0.08
Matches are distributed among these distances:
20 3 0.04
21 73 0.92
22 3 0.04
ACGTcount: A:0.24, C:0.33, G:0.18, T:0.25
Consensus pattern (21 bp):
TCATCGTTCAAGAGGCCCCTC
Found at i:10454839 original size:66 final size:65
Alignment explanation
Indices: 10454680--10454855 Score: 248
Period size: 66 Copynumber: 2.6 Consensus size: 65
10454670 TGGGGTACAC
10454680 TTTTTTTGCTTGTTTAATTGAATTT-TACATTGAAAGTTGATTTGTTTAATTGATGAGGAAATAA
1 TTTTTTTGCTTGTTTAATTG-ATTTGT--A---AAAGTTGATTTGTTTAATTGATGAGGAAATAA
10454744 GAATTA
60 GAATTA
* * *
10454750 -TTTTTTGCTTGTTTAATTGATTTGTAAAAGTTTATTTGTTTAATTTGATGTGTAAATAAGAATT
1 TTTTTTTGCTTGTTTAATTGATTTGTAAAAGTTGATTTGTTTAA-TTGATGAGGAAATAAGAATT
10454814 A
65 A
10454815 TTTTTTTGCTTGTTTAATTGATTTGTAAAAGTTGATTTGTT
1 TTTTTTTGCTTGTTTAATTGATTTGTAAAAGTTGATTTGTT
10454856 GTTTTAAATT
Statistics
Matches: 99, Mismatches: 4, Indels: 10
0.88 0.04 0.09
Matches are distributed among these distances:
64 16 0.16
65 19 0.19
66 39 0.39
67 1 0.01
68 4 0.04
69 20 0.20
ACGTcount: A:0.28, C:0.02, G:0.16, T:0.53
Consensus pattern (65 bp):
TTTTTTTGCTTGTTTAATTGATTTGTAAAAGTTGATTTGTTTAATTGATGAGGAAATAAGAATTA
Found at i:10455359 original size:18 final size:18
Alignment explanation
Indices: 10455336--10455371 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
10455326 AAGCCGGTTG
*
10455336 TGATTGGGATTTTGATTT
1 TGATTGCGATTTTGATTT
10455354 TGATTGCGATTTTGATTT
1 TGATTGCGATTTTGATTT
10455372 CCTTTTTCTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.17, C:0.03, G:0.25, T:0.56
Consensus pattern (18 bp):
TGATTGCGATTTTGATTT
Found at i:10457543 original size:12 final size:12
Alignment explanation
Indices: 10457526--10457551 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
10457516 CTCATTATCA
10457526 TCAACAACATCT
1 TCAACAACATCT
10457538 TCAACAACATCT
1 TCAACAACATCT
10457550 TC
1 TC
10457552 CTCGGCAGCG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.38, C:0.35, G:0.00, T:0.27
Consensus pattern (12 bp):
TCAACAACATCT
Found at i:10457838 original size:12 final size:12
Alignment explanation
Indices: 10457821--10457854 Score: 59
Period size: 12 Copynumber: 2.8 Consensus size: 12
10457811 GGTTGTGGGT
10457821 TTTGATATTGTG
1 TTTGATATTGTG
10457833 TTTGATATTGTG
1 TTTGATATTGTG
*
10457845 TTTGGTATTG
1 TTTGATATTG
10457855 GAAATGTGGT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.15, C:0.00, G:0.26, T:0.59
Consensus pattern (12 bp):
TTTGATATTGTG
Found at i:10458484 original size:14 final size:15
Alignment explanation
Indices: 10458448--10458485 Score: 51
Period size: 16 Copynumber: 2.5 Consensus size: 15
10458438 GAAATCATTG
10458448 AAAAATTATATAGAA
1 AAAAATTATATAGAA
*
10458463 ATAAAATTATGTA-AA
1 A-AAAATTATATAGAA
10458478 AAAAATTA
1 AAAAATTA
10458486 GAGATGGGGA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
14 7 0.33
15 4 0.19
16 10 0.48
ACGTcount: A:0.66, C:0.00, G:0.05, T:0.29
Consensus pattern (15 bp):
AAAAATTATATAGAA
Found at i:10458699 original size:19 final size:20
Alignment explanation
Indices: 10458658--10458709 Score: 70
Period size: 20 Copynumber: 2.6 Consensus size: 20
10458648 TTAAATTCGT
*
10458658 GTTGCGAATTCGAAAATCTA
1 GTTGCGAATTTGAAAATCTA
*
10458678 GTTGCGAATTTGAAATTC-A
1 GTTGCGAATTTGAAAATCTA
*
10458697 GTTGCAAATTTGA
1 GTTGCGAATTTGA
10458710 CTTTTGTGTT
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
19 13 0.45
20 16 0.55
ACGTcount: A:0.33, C:0.12, G:0.21, T:0.35
Consensus pattern (20 bp):
GTTGCGAATTTGAAAATCTA
Found at i:10458726 original size:20 final size:20
Alignment explanation
Indices: 10458697--10458904 Score: 138
Period size: 20 Copynumber: 10.4 Consensus size: 20
10458687 TTGAAATTCA
* *
10458697 GTTGCAAATTTGACTTTTGT
1 GTTGCGAATTTGACTTTTGC
* *
10458717 GTTGCGAATTTGACTTATGT
1 GTTGCGAATTTGACTTTTGC
* * *
10458737 GTTGTG-ATTT-ACAAATTCGC
1 GTTGCGAATTTGAC--TTTTGC
* ** ** *
10458757 GTTGCGACTTACAGATTCGC
1 GTTGCGAATTTGACTTTTGC
*
10458777 GTTGCGAATTTGACTATTGC
1 GTTGCGAATTTGACTTTTGC
*
10458797 GTTGCGAATTTGACTTTTGT
1 GTTGCGAATTTGACTTTTGC
* * *
10458817 GTTGTGAATTTGACTATCGC
1 GTTGCGAATTTGACTTTTGC
*
10458837 GTTGCGAATTTGA-TTATCGC
1 GTTGCGAATTTGACTT-TTGC
* *
10458857 GTTGCGAATTTGACTTCTGT
1 GTTGCGAATTTGACTTTTGC
*
10458877 GTTGCG-ATTT-ACATATTCGC
1 GTTGCGAATTTGAC-T-TTTGC
10458897 GTTGCGAA
1 GTTGCGAA
10458905 ATTGGAAACT
Statistics
Matches: 147, Mismatches: 32, Indels: 17
0.75 0.16 0.09
Matches are distributed among these distances:
18 4 0.03
19 10 0.07
20 127 0.86
21 5 0.03
22 1 0.01
ACGTcount: A:0.20, C:0.15, G:0.24, T:0.41
Consensus pattern (20 bp):
GTTGCGAATTTGACTTTTGC
Found at i:10458790 original size:80 final size:80
Alignment explanation
Indices: 10458697--10458883 Score: 238
Period size: 80 Copynumber: 2.3 Consensus size: 80
10458687 TTGAAATTCA
*
10458697 GTTGCAAATTTGACTTTTGTGTTGCGAATTTGACTTATGTGTTGTG-ATTT-ACAAATTCGCGTT
1 GTTGCGAATTTGACTTTTGTGTTGCGAATTTGACTTATGTGTTGTGAATTTGAC-AA-TCGCGTT
*
10458760 GCGACTTACAGA-T-TCGC
64 GCGAATT--AGATTATCGC
* * * *
10458777 GTTGCGAATTTGACTATTGCGTTGCGAATTTGACTTTTGTGTTGTGAATTTGACTATCGCGTTGC
1 GTTGCGAATTTGACTTTTGTGTTGCGAATTTGACTTATGTGTTGTGAATTTGACAATCGCGTTGC
*
10458842 GAATTTGATTATCGC
66 GAATTAGATTATCGC
*
10458857 GTTGCGAATTTGACTTCTGTGTTGCGA
1 GTTGCGAATTTGACTTTTGTGTTGCGA
10458884 TTTACATATT
Statistics
Matches: 93, Mismatches: 10, Indels: 8
0.84 0.09 0.07
Matches are distributed among these distances:
78 2 0.02
79 1 0.01
80 83 0.89
81 5 0.05
82 2 0.02
ACGTcount: A:0.19, C:0.14, G:0.25, T:0.42
Consensus pattern (80 bp):
GTTGCGAATTTGACTTTTGTGTTGCGAATTTGACTTATGTGTTGTGAATTTGACAATCGCGTTGC
GAATTAGATTATCGC
Found at i:10458791 original size:26 final size:21
Alignment explanation
Indices: 10458775--10458904 Score: 139
Period size: 20 Copynumber: 6.5 Consensus size: 21
10458765 TTACAGATTC
10458775 GCGTTGCGAATTTGAC-TATT
1 GCGTTGCGAATTTGACTTATT
10458795 GCGTTGCGAATTTGACTT-TT
1 GCGTTGCGAATTTGACTTATT
* * *
10458815 GTGTTGTGAATTTGAC-TATC
1 GCGTTGCGAATTTGACTTATT
*
10458835 GCGTTGCGAATTTGA-TTATC
1 GCGTTGCGAATTTGACTTATT
*
10458855 GCGTTGCGAATTTGACTT-CT
1 GCGTTGCGAATTTGACTTATT
* *
10458875 GTGTTGCG-ATTT-ACATATT
1 GCGTTGCGAATTTGACTTATT
10458894 CGCGTTGCGAA
1 -GCGTTGCGAA
10458905 ATTGGAAACT
Statistics
Matches: 92, Mismatches: 11, Indels: 13
0.79 0.09 0.11
Matches are distributed among these distances:
18 3 0.03
19 6 0.07
20 79 0.86
21 4 0.04
ACGTcount: A:0.18, C:0.15, G:0.25, T:0.41
Consensus pattern (21 bp):
GCGTTGCGAATTTGACTTATT
Found at i:10458837 original size:60 final size:60
Alignment explanation
Indices: 10458757--10458904 Score: 210
Period size: 60 Copynumber: 2.5 Consensus size: 60
10458747 ACAAATTCGC
* * * *
10458757 GTTGCGACTTACAGATTCGCGTTGCGAATTTGACTATTGCGTTGCGAATTTGACTTTTGT
1 GTTGCGATTTACATATTCGCGTTGCGAATTTGACTATCGCGTTGCGAATTTGACTTCTGT
* *
10458817 GTTGTGAATTTGAC-TA-TCGCGTTGCGAATTTGATTATCGCGTTGCGAATTTGACTTCTGT
1 GTTGCG-ATTT-ACATATTCGCGTTGCGAATTTGACTATCGCGTTGCGAATTTGACTTCTGT
10458877 GTTGCGATTTACATATTCGCGTTGCGAA
1 GTTGCGATTTACATATTCGCGTTGCGAA
10458905 ATTGGAAACT
Statistics
Matches: 77, Mismatches: 7, Indels: 8
0.84 0.08 0.09
Matches are distributed among these distances:
58 2 0.03
59 6 0.08
60 63 0.82
61 4 0.05
62 2 0.03
ACGTcount: A:0.19, C:0.16, G:0.25, T:0.40
Consensus pattern (60 bp):
GTTGCGATTTACATATTCGCGTTGCGAATTTGACTATCGCGTTGCGAATTTGACTTCTGT
Found at i:10458940 original size:20 final size:19
Alignment explanation
Indices: 10458891--10458946 Score: 60
Period size: 20 Copynumber: 2.9 Consensus size: 19
10458881 CGATTTACAT
10458891 ATTCGCGTTGCGAAATTGG
1 ATTCGCGTTGCGAAATTGG
** *
10458910 AAACTGGGTTGCGAAATTGG
1 ATTC-GCGTTGCGAAATTGG
10458930 AGTTCGCGTTGC-AAATT
1 A-TTCGCGTTGCGAAATT
10458947 TGTTGGTCAT
Statistics
Matches: 29, Mismatches: 6, Indels: 4
0.74 0.15 0.10
Matches are distributed among these distances:
19 7 0.24
20 21 0.72
21 1 0.03
ACGTcount: A:0.25, C:0.14, G:0.30, T:0.30
Consensus pattern (19 bp):
ATTCGCGTTGCGAAATTGG
Found at i:10461384 original size:35 final size:35
Alignment explanation
Indices: 10461310--10461377 Score: 100
Period size: 35 Copynumber: 1.9 Consensus size: 35
10461300 TTCATGTTCA
*
10461310 AAATTCTAAAACACTTCAATTACATTCTAAACCTC
1 AAATTCCAAAACACTTCAATTACATTCTAAACCTC
* * *
10461345 AAATTCCAAAATACTTTAATTACATTTTAAACC
1 AAATTCCAAAACACTTCAATTACATTCTAAACC
10461378 CTAAATTGAA
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
35 29 1.00
ACGTcount: A:0.44, C:0.22, G:0.00, T:0.34
Consensus pattern (35 bp):
AAATTCCAAAACACTTCAATTACATTCTAAACCTC
Found at i:10461395 original size:33 final size:34
Alignment explanation
Indices: 10461310--10461395 Score: 95
Period size: 35 Copynumber: 2.5 Consensus size: 34
10461300 TTCATGTTCA
* *
10461310 AAATTCTAAAACACTTCAATTACATTCTAAACCTC
1 AAATTC-AAAATACTTTAATTACATTCTAAACCTC
*
10461345 AAATTCCAAAATACTTTAATTACATTTTAAACC-C
1 AAATT-CAAAATACTTTAATTACATTCTAAACCTC
*
10461379 TAAATT-GAAATACTTTA
1 -AAATTCAAAATACTTTA
10461396 GAATTTGGGG
Statistics
Matches: 45, Mismatches: 4, Indels: 6
0.82 0.07 0.11
Matches are distributed among these distances:
33 10 0.22
34 1 0.02
35 33 0.73
36 1 0.02
ACGTcount: A:0.44, C:0.20, G:0.01, T:0.35
Consensus pattern (34 bp):
AAATTCAAAATACTTTAATTACATTCTAAACCTC
Found at i:10461412 original size:15 final size:15
Alignment explanation
Indices: 10461392--10461423 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
10461382 ATTGAAATAC
*
10461392 TTTAGAATTTGGGGT
1 TTTAGAATTTGGAGT
10461407 TTTAGAATTTGGAGT
1 TTTAGAATTTGGAGT
10461422 TT
1 TT
10461424 AAAATATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.22, C:0.00, G:0.28, T:0.50
Consensus pattern (15 bp):
TTTAGAATTTGGAGT
Found at i:10461832 original size:58 final size:59
Alignment explanation
Indices: 10461742--10461855 Score: 176
Period size: 58 Copynumber: 1.9 Consensus size: 59
10461732 ACCCCATAAC
*
10461742 TTAAATTATGGATTAAATTGAATTAATCAAGAAATCAAAATAAAATT-ATTAATTAGTT
1 TTAAATTATGGAATAAATTGAATTAATCAAGAAATCAAAATAAAATTCATTAATTAGTT
* ** *
10461800 TTAAATTATGGAATAAATTGAATTAATTAAGAAATTTAAATCAAATTCATTAATTA
1 TTAAATTATGGAATAAATTGAATTAATCAAGAAATCAAAATAAAATTCATTAATTA
10461856 AAAAATTTAA
Statistics
Matches: 50, Mismatches: 5, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
58 42 0.84
59 8 0.16
ACGTcount: A:0.50, C:0.04, G:0.08, T:0.39
Consensus pattern (59 bp):
TTAAATTATGGAATAAATTGAATTAATCAAGAAATCAAAATAAAATTCATTAATTAGTT
Found at i:10461852 original size:27 final size:27
Alignment explanation
Indices: 10461821--10461880 Score: 93
Period size: 27 Copynumber: 2.2 Consensus size: 27
10461811 AATAAATTGA
*
10461821 ATTAATTAAGAAATTTAAATCAAATTC
1 ATTAATTAAAAAATTTAAATCAAATTC
*
10461848 ATTAATTAAAAAATTTAAGTCAAATTC
1 ATTAATTAAAAAATTTAAATCAAATTC
*
10461875 TTTAAT
1 ATTAAT
10461881 CAATTTTAAC
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
27 30 1.00
ACGTcount: A:0.50, C:0.07, G:0.03, T:0.40
Consensus pattern (27 bp):
ATTAATTAAAAAATTTAAATCAAATTC
Found at i:10466940 original size:23 final size:23
Alignment explanation
Indices: 10466849--10466929 Score: 64
Period size: 26 Copynumber: 3.6 Consensus size: 23
10466839 ATAGATAAAT
*
10466849 AAATGAGTAAAAT-AT-ATAA-A
1 AAATAAGTAAAATAATAATAATA
*
10466869 AAAAAAGTAAAA-ATATATATATATA
1 AAATAAGTAAAATA-ATA-ATA-ATA
*
10466894 TATATAAGTAAAATAATAATAATA
1 -AAATAAGTAAAATAATAATAATA
10466918 AAATAAG-AAAAT
1 AAATAAGTAAAAT
10466930 CAAAAGTAAT
Statistics
Matches: 48, Mismatches: 5, Indels: 14
0.72 0.07 0.21
Matches are distributed among these distances:
20 10 0.21
21 2 0.04
22 5 0.10
23 9 0.19
24 4 0.08
25 4 0.08
26 13 0.27
27 1 0.02
ACGTcount: A:0.67, C:0.00, G:0.06, T:0.27
Consensus pattern (23 bp):
AAATAAGTAAAATAATAATAATA
Found at i:10466975 original size:2 final size:2
Alignment explanation
Indices: 10466968--10467006 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
10466958 AAAATAGGAA
10466968 AT AT AT AT AT AT 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 AT AT AT AT AT AT A
10467007 ATAACACTAA
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:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:10467456 original size:37 final size:37
Alignment explanation
Indices: 10467415--10467519 Score: 140
Period size: 37 Copynumber: 2.8 Consensus size: 37
10467405 GTGCTTGTGG
* * *
10467415 ATCCTATCTTTAGGAGTTTAAATCATAGTAGAACTCT
1 ATCCTATTTTTAGGAGTTTGAATCCTAGTAGAACTCT
* *
10467452 ATCCTATTTTTAGGAGTTTGAATCCTA-TCAAAATTCT
1 ATCCTATTTTTAGGAGTTTGAATCCTAGT-AGAACTCT
*
10467489 ATCATATTTTTAGGAGTTTGAATCCTAGTAG
1 ATCCTATTTTTAGGAGTTTGAATCCTAGTAG
10467520 GACGAAAAGG
Statistics
Matches: 59, Mismatches: 7, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
36 1 0.02
37 57 0.97
38 1 0.02
ACGTcount: A:0.30, C:0.14, G:0.14, T:0.41
Consensus pattern (37 bp):
ATCCTATTTTTAGGAGTTTGAATCCTAGTAGAACTCT
Found at i:10468434 original size:106 final size:106
Alignment explanation
Indices: 10468250--10469737 Score: 2339
Period size: 106 Copynumber: 14.0 Consensus size: 106
10468240 GAATTGTTCC
* * ** * * *
10468250 GAGTCCAATATCCTCCGTTGTGAAGTTGAAATTGGCTCTGGAACCGGGAAATTGTTTGTTGACAA
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTATTGACAA
* * * *
10468315 CCAGCCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCTC
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* *
10468356 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTATTGACAA
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTATTGACAA
* * *
10468421 CCAGTGGTCCCTTCATCGTGAAGTTGAACTTACGTTGTCTG
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* *
10468462 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAATTATTTATTGACAA
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTATTGACAA
10468527 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* *
10468568 GAGTCCAATATCCTTCGTTGTGATGTTGAAATTGGCTCTAAAATTGAGAAGTTGTTTATTGACAA
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTATTGACAA
* * *
10468633 CCAGCGGTCCTTTCGTTGTGAAGTTGAACTTGCGTTGTCTT
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* * *
10468674 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTTAGAAGTTGTTTATTGATAA
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTATTGACAA
*
10468739 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTT
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* * *
10468780 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTATTGACAA
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTATTGACAA
* *
10468845 CCAGCGGTCCCTTCTTCGTGAAGTTGAACTTGCATTGTCTG
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* *
10468886 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTATTTGTTGACAA
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTATTGACAA
*
10468951 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCATTGTCTG
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
10468992 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTATTGACAA
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTATTGACAA
* * * *
10469057 CCAGTGTTCCCTTCGTCGTGAAGTTTAACTTGCATTGTCTG
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* *
10469098 CAGTCCAATATCCTTTGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTATTGACAA
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTATTGACAA
*
10469163 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTT
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* * * * *
10469204 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTGTTAACAA
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTATTGACAA
10469269 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* *
10469310 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTAAAATTGAGAAGTTGTTTGTTGACAA
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTATTGACAA
10469375 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* * *
10469416 GAGTCCAATATCCTTTGTTGTGAAGTTGAAATTGGCTATGAAATTGGGAAGTTGTTTATTGACAA
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTATTGACAA
* *
10469481 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGTGTTGTCTT
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* * * * *
10469522 GAGTCCAATAT-CTTACGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTTTTTTTTGACA
1 GAGTCCAATATCCTT-CGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTATTGACA
* *
10469586 ACCAGTGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTA
65 ACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
** * * *
10469628 GAGTCCAATATCCTTCGTCATAAAATTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAA
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTATTGACAA
* * *
10469693 CCAACGGTCCCTTCGTCGTGAAGTTGAACTTGTGTTGTCTT
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
10469734 GAGT
1 GAGT
10469738 GGCACGATAT
Statistics
Matches: 1282, Mismatches: 98, Indels: 4
0.93 0.07 0.00
Matches are distributed among these distances:
105 3 0.00
106 1276 1.00
107 3 0.00
ACGTcount: A:0.23, C:0.18, G:0.24, T:0.35
Consensus pattern (106 bp):
GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTATTGACAA
CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
Found at i:10470342 original size:24 final size:24
Alignment explanation
Indices: 10470315--10470372 Score: 98
Period size: 24 Copynumber: 2.4 Consensus size: 24
10470305 ATCAATAAAG
*
10470315 AGTTTCGAAAGATGTTTAATCAAA
1 AGTTTTGAAAGATGTTTAATCAAA
*
10470339 AGTTTTGAAAGATGTTTAATTAAA
1 AGTTTTGAAAGATGTTTAATCAAA
10470363 AGTTTTGAAA
1 AGTTTTGAAA
10470373 ATATTGTCCC
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
24 32 1.00
ACGTcount: A:0.41, C:0.03, G:0.17, T:0.38
Consensus pattern (24 bp):
AGTTTTGAAAGATGTTTAATCAAA
Found at i:10470589 original size:22 final size:22
Alignment explanation
Indices: 10470563--10470618 Score: 94
Period size: 22 Copynumber: 2.5 Consensus size: 22
10470553 TTGTTTTTGG
*
10470563 TCAAAGGTTTGGCATTTGATGC
1 TCAAAGGTTTGACATTTGATGC
*
10470585 TCAAATGTTTGACATTTGATGC
1 TCAAAGGTTTGACATTTGATGC
10470607 TCAAAGGTTTGA
1 TCAAAGGTTTGA
10470619 TGGGGTAACT
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 31 1.00
ACGTcount: A:0.27, C:0.12, G:0.23, T:0.38
Consensus pattern (22 bp):
TCAAAGGTTTGACATTTGATGC
Found at i:10471270 original size:16 final size:15
Alignment explanation
Indices: 10471245--10471284 Score: 55
Period size: 16 Copynumber: 2.7 Consensus size: 15
10471235 ATTGTTTCTC
10471245 TTTT-TTCTTTGCTT
1 TTTTGTTCTTTGCTT
*
10471259 TTTTGCTTCTTTTCTT
1 TTTTG-TTCTTTGCTT
10471275 TTTTGTTCTT
1 TTTTGTTCTT
10471285 GATTGGATCT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
14 4 0.17
15 5 0.22
16 14 0.61
ACGTcount: A:0.00, C:0.15, G:0.07, T:0.78
Consensus pattern (15 bp):
TTTTGTTCTTTGCTT
Found at i:10476559 original size:37 final size:37
Alignment explanation
Indices: 10476518--10476614 Score: 124
Period size: 37 Copynumber: 2.6 Consensus size: 37
10476508 GGATCCTATC
*
10476518 TTTAGGAGTTTAAATCATAGTAGAACTCTATCATATT
1 TTTAGGAGTTTAAATCCTAGTAGAACTCTATCATATT
* * *
10476555 TTTAGGAGTTTAAATCCTA-TCAAAATTCTATTATATT
1 TTTAGGAGTTTAAATCCTAGT-AGAACTCTATCATATT
* *
10476592 TTTAGGAATTTGAATCCTAGTAG
1 TTTAGGAGTTTAAATCCTAGTAG
10476615 GACGAAAATG
Statistics
Matches: 51, Mismatches: 7, Indels: 4
0.82 0.11 0.06
Matches are distributed among these distances:
36 1 0.02
37 49 0.96
38 1 0.02
ACGTcount: A:0.34, C:0.10, G:0.13, T:0.42
Consensus pattern (37 bp):
TTTAGGAGTTTAAATCCTAGTAGAACTCTATCATATT
Found at i:10476998 original size:25 final size:25
Alignment explanation
Indices: 10476964--10477020 Score: 105
Period size: 25 Copynumber: 2.3 Consensus size: 25
10476954 CGGCGATGAG
10476964 CGCCGCCGCCAACCGTCGTGCCGAA
1 CGCCGCCGCCAACCGTCGTGCCGAA
*
10476989 CGCCGCCGCCGACCGTCGTGCCGAA
1 CGCCGCCGCCAACCGTCGTGCCGAA
10477014 CGCCGCC
1 CGCCGCC
10477021 AACCATAGCA
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
25 31 1.00
ACGTcount: A:0.12, C:0.51, G:0.30, T:0.07
Consensus pattern (25 bp):
CGCCGCCGCCAACCGTCGTGCCGAA
Found at i:10479178 original size:29 final size:29
Alignment explanation
Indices: 10479145--10479212 Score: 84
Period size: 29 Copynumber: 2.3 Consensus size: 29
10479135 CCAATCACCA
** *
10479145 AGTCAACTC-AGTCCAAGTCAATTTGTCTG
1 AGTCAACTCGA-TCCAAGTCAATCCGCCTG
*
10479174 AGTCAACTCGATCCGAGTCAATCCGCCTG
1 AGTCAACTCGATCCAAGTCAATCCGCCTG
10479203 AGTCAACTCG
1 AGTCAACTCG
10479213 TTCGAGTCAA
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
29 33 0.97
30 1 0.03
ACGTcount: A:0.26, C:0.29, G:0.19, T:0.25
Consensus pattern (29 bp):
AGTCAACTCGATCCAAGTCAATCCGCCTG
Found at i:10497017 original size:35 final size:34
Alignment explanation
Indices: 10496932--10497018 Score: 97
Period size: 35 Copynumber: 2.5 Consensus size: 34
10496922 AAAATAATTT
*
10496932 TAAATACAACAAACTTACAATAAGTATTAAATGG
1 TAAATACAACAAAATTACAATAAGTATTAAATGG
* *
10496966 TAAATGATAACCAAATTACAATAACTGATATTAAATGG
1 TAAAT-ACAACAAAATTACAATAA--G-TATTAAATGG
10497004 T-AATA-AACAAAATTA
1 TAAATACAACAAAATTA
10497019 ACTGAAATAC
Statistics
Matches: 45, Mismatches: 4, Indels: 7
0.80 0.07 0.12
Matches are distributed among these distances:
34 5 0.11
35 24 0.53
36 1 0.02
37 4 0.09
38 11 0.24
ACGTcount: A:0.54, C:0.10, G:0.08, T:0.28
Consensus pattern (34 bp):
TAAATACAACAAAATTACAATAAGTATTAAATGG
Found at i:10507156 original size:58 final size:58
Alignment explanation
Indices: 10507075--10507305 Score: 199
Period size: 58 Copynumber: 4.0 Consensus size: 58
10507065 AATCTTGTGT
* *
10507075 TGATTCTAACTTTGTA-GGAAAAATAAATCGTTGAATTTATTTCCTTGAGATTCCTGAA
1 TGATTCTAACTTTGTACGG-AAAATAAATCGTTAAATTTATTTTCTTGAGATTCCTGAA
* * *
10507133 TGATTCTAACTTTGTACGGAAAATAAATCATTATA-TT-TTTT-TTGAGAAT-CTCGAA
1 TGATTCTAACTTTGTACGGAAAATAAATCGTTAAATTTATTTTCTTGAGATTCCT-GAA
* * * * * * *
10507188 TGATTTTATCTTT-TAAAAGG-AAATAAATAGTTAAATTTATTTTCTTGATAATTCTTAAA
1 TGATTCTAACTTTGT--ACGGAAAATAAATCGTTAAATTTATTTTCTTGA-GATTCCTGAA
* * * * *
10507247 TGATTCT-ATTTTGTACGAGGAAATAAATTGTTAAATTTATTTTCTTAAGATTCTTGAA
1 TGATTCTAACTTTGTACG-GAAAATAAATCGTTAAATTTATTTTCTTGAGATTCCTGAA
10507305 T
1 T
10507306 AAAGAAATAA
Statistics
Matches: 138, Mismatches: 23, Indels: 24
0.75 0.12 0.13
Matches are distributed among these distances:
54 3 0.02
55 33 0.24
56 8 0.06
57 8 0.06
58 46 0.33
59 39 0.28
60 1 0.01
ACGTcount: A:0.35, C:0.09, G:0.13, T:0.44
Consensus pattern (58 bp):
TGATTCTAACTTTGTACGGAAAATAAATCGTTAAATTTATTTTCTTGAGATTCCTGAA
Found at i:10507314 original size:43 final size:43
Alignment explanation
Indices: 10507266--10507348 Score: 121
Period size: 43 Copynumber: 1.9 Consensus size: 43
10507256 TTTGTACGAG
* *
10507266 GAAATAAATTGTTAAATTTATTTTCTTAAGATTCTTGAATAAA
1 GAAATAAATTATTAAATTTATTTTCTTAAGAATCTTGAATAAA
* * *
10507309 GAAATAAATTATTGAATTTATTTTTTTAGGAATCTTGAAT
1 GAAATAAATTATTAAATTTATTTTCTTAAGAATCTTGAAT
10507349 GATTCTACCG
Statistics
Matches: 35, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
43 35 1.00
ACGTcount: A:0.40, C:0.04, G:0.11, T:0.46
Consensus pattern (43 bp):
GAAATAAATTATTAAATTTATTTTCTTAAGAATCTTGAATAAA
Found at i:10507532 original size:40 final size:40
Alignment explanation
Indices: 10507478--10507579 Score: 141
Period size: 40 Copynumber: 2.5 Consensus size: 40
10507468 GAAAAAAATT
* *
10507478 AAATAAATCATTGAATTTATTTTTCATGTTTTGTAAAAAG
1 AAATAAATCGTTGAATTTATTTTCCATGTTTTGTAAAAAG
* * *
10507518 AATTAAATCGTTGAATTTATTTTCCCTGTTTTGTAAAATG
1 AAATAAATCGTTGAATTTATTTTCCATGTTTTGTAAAAAG
* *
10507558 AAATATATCGTTAAATTTATTT
1 AAATAAATCGTTGAATTTATTT
10507580 GTATGAAAAT
Statistics
Matches: 54, Mismatches: 8, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
40 54 1.00
ACGTcount: A:0.36, C:0.07, G:0.10, T:0.47
Consensus pattern (40 bp):
AAATAAATCGTTGAATTTATTTTCCATGTTTTGTAAAAAG
Found at i:10511702 original size:63 final size:64
Alignment explanation
Indices: 10511617--10511752 Score: 159
Period size: 64 Copynumber: 2.1 Consensus size: 64
10511607 TTCAGTGTGT
* * * * *
10511617 ATCGATGCACAGGAAGTGCATCGATGCA-ACTATTAAAATGGAAACATCGAATGCAATTGGTGC
1 ATCGATGCAAAGGAAGTACATCGATGCATACCATTAAAATGAAAACATCGAAGGCAATTGGTGC
* * ** *
10511680 ATCGATGCATAAGG-AGTACATCGATGCATCCCCTTAAAATGAAAACATCGAAGGTGATTTGTGC
1 ATCGATGCA-AAGGAAGTACATCGATGCATACCATTAAAATGAAAACATCGAAGGCAATTGGTGC
10511744 ATCGATGCA
1 ATCGATGCA
10511753 CGAGTACAGC
Statistics
Matches: 61, Mismatches: 10, Indels: 3
0.82 0.14 0.04
Matches are distributed among these distances:
63 22 0.36
64 39 0.64
ACGTcount: A:0.35, C:0.18, G:0.23, T:0.24
Consensus pattern (64 bp):
ATCGATGCAAAGGAAGTACATCGATGCATACCATTAAAATGAAAACATCGAAGGCAATTGGTGC
Found at i:10511766 original size:64 final size:64
Alignment explanation
Indices: 10511649--10511771 Score: 149
Period size: 64 Copynumber: 1.9 Consensus size: 64
10511639 GATGCAACTA
* * * *
10511649 TTAAAATGGAAACATCGAATGCAATTGGTGCATCGATGCATAAGGAGTACATCGATGCATCCCC
1 TTAAAATGAAAACATCGAAGGCAATTGGTGCATCGATGCACAAGGAGCACATCGATGCATCCCC
** * * *
10511713 TTAAAATGAAAACATCGAAGGTGATTTGTGCATCGATGCACGAGTA-CAGCATCGATGCA
1 TTAAAATGAAAACATCGAAGGCAATTGGTGCATCGATGCACAAGGAGCA-CATCGATGCA
10511772 CATACTAAAG
Statistics
Matches: 49, Mismatches: 9, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
63 1 0.02
64 48 0.98
ACGTcount: A:0.35, C:0.19, G:0.23, T:0.24
Consensus pattern (64 bp):
TTAAAATGAAAACATCGAAGGCAATTGGTGCATCGATGCACAAGGAGCACATCGATGCATCCCC
Found at i:10512642 original size:4 final size:4
Alignment explanation
Indices: 10512633--10512861 Score: 449
Period size: 4 Copynumber: 57.2 Consensus size: 4
10512623 AAATGATGAC
10512633 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
10512681 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
10512729 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
10512777 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
*
10512825 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATAT ATGT A
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT A
10512862 ATGGTTATAT
Statistics
Matches: 223, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
4 223 1.00
ACGTcount: A:0.26, C:0.00, G:0.24, T:0.50
Consensus pattern (4 bp):
ATGT
Found at i:10513074 original size:31 final size:29
Alignment explanation
Indices: 10513036--10513131 Score: 84
Period size: 31 Copynumber: 3.1 Consensus size: 29
10513026 GTCAAAGAAC
10513036 TACCTATGTCTTTCGAGACATATGGACAGT
1 TACCTATGT-TTTCGAGACATATGGACAGT
* ** *
10513066 ATACCTATGTTCTAAAGAACATATGGATAGTT
1 -TACCTATGTTTTCGAG-ACATATGGACAG-T
* * *
10513098 TACCTAGGTTCTTCGGGACCTATGGACAGT
1 TACCTATGTT-TTCGAGACATATGGACAGT
10513128 TACC
1 TACC
10513132 GAGGATCTTT
Statistics
Matches: 51, Mismatches: 11, Indels: 7
0.74 0.16 0.10
Matches are distributed among these distances:
30 9 0.18
31 39 0.76
32 3 0.06
ACGTcount: A:0.28, C:0.20, G:0.20, T:0.32
Consensus pattern (29 bp):
TACCTATGTTTTCGAGACATATGGACAGT
Found at i:10513148 original size:30 final size:30
Alignment explanation
Indices: 10513114--10513183 Score: 113
Period size: 30 Copynumber: 2.3 Consensus size: 30
10513104 GGTTCTTCGG
*
10513114 GACCTATGGACAGTTACCGAGGATCTTTAT
1 GACCTCTGGACAGTTACCGAGGATCTTTAT
* *
10513144 GACCTCTGAATAGTTACCGAGGATCTTTAT
1 GACCTCTGGACAGTTACCGAGGATCTTTAT
10513174 GACCTCTGGA
1 GACCTCTGGA
10513184 TAGGTCCTTC
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 36 1.00
ACGTcount: A:0.26, C:0.21, G:0.23, T:0.30
Consensus pattern (30 bp):
GACCTCTGGACAGTTACCGAGGATCTTTAT
Found at i:10516698 original size:45 final size:43
Alignment explanation
Indices: 10516604--10516706 Score: 118
Period size: 45 Copynumber: 2.3 Consensus size: 43
10516594 TGCACAGGAA
* *
10516604 GTGCATCGATGCACCTATTAAAATAGAAACATCGAATATAATT
1 GTGCATCGATGCACCCATTAAAATAGAAACATCGAAGATAATT
* * *
10516647 GATGCATCGATGCATCCCCTTAAAAT-GAAAACATCGAAGGTGATTT
1 G-TGCATCGATGCA-CCCATTAAAATAG-AAACATCGAAGAT-AATT
10516693 GTGCATCGATGCAC
1 GTGCATCGATGCAC
10516707 GGGTACTACA
Statistics
Matches: 51, Mismatches: 5, Indels: 7
0.81 0.08 0.11
Matches are distributed among these distances:
43 1 0.02
44 14 0.27
45 32 0.63
46 4 0.08
ACGTcount: A:0.36, C:0.19, G:0.18, T:0.26
Consensus pattern (43 bp):
GTGCATCGATGCACCCATTAAAATAGAAACATCGAAGATAATT
Found at i:10518051 original size:30 final size:30
Alignment explanation
Indices: 10517883--10518039 Score: 287
Period size: 30 Copynumber: 5.2 Consensus size: 30
10517873 TCGGGACCCA
*
10517883 TGGACAGTTACCGAGGATCTTTATGACCTC
1 TGGATAGTTACCGAGGATCTTTATGACCTC
10517913 TGGATAGTTACCGAGGATCTTTATGACCTC
1 TGGATAGTTACCGAGGATCTTTATGACCTC
10517943 TGGATAGTTACCGAGGATCTTTATGACCTC
1 TGGATAGTTACCGAGGATCTTTATGACCTC
*
10517973 TGGATTGTTACCGAGGATCTTTATGACCTC
1 TGGATAGTTACCGAGGATCTTTATGACCTC
*
10518003 TGGATAGTTACCGAGGAACTTTATGACCTC
1 TGGATAGTTACCGAGGATCTTTATGACCTC
10518033 TGGATAG
1 TGGATAG
10518040 GTCCTTCGGA
Statistics
Matches: 123, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 123 1.00
ACGTcount: A:0.24, C:0.20, G:0.24, T:0.32
Consensus pattern (30 bp):
TGGATAGTTACCGAGGATCTTTATGACCTC
Found at i:10520025 original size:49 final size:48
Alignment explanation
Indices: 10519959--10520053 Score: 118
Period size: 49 Copynumber: 2.0 Consensus size: 48
10519949 CTACTCAAGT
* *
10519959 GAAAATTAAGTAAAAACATTACAAACTAAATAATAAAAAAATAAAATA
1 GAAAATTAAATAAAAACAATACAAACTAAATAATAAAAAAATAAAATA
* ** * *
10520007 GAAACATTAAATACAAACAATACAATTTAAATAATTAAATAATAAAA
1 GAAA-ATTAAATAAAAACAATACAAACTAAATAATAAAAAAATAAAA
10520054 ACATTAACAA
Statistics
Matches: 39, Mismatches: 7, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
48 4 0.10
49 35 0.90
ACGTcount: A:0.66, C:0.07, G:0.03, T:0.23
Consensus pattern (48 bp):
GAAAATTAAATAAAAACAATACAAACTAAATAATAAAAAAATAAAATA
Found at i:10520589 original size:21 final size:21
Alignment explanation
Indices: 10520548--10520595 Score: 60
Period size: 21 Copynumber: 2.3 Consensus size: 21
10520538 AAACCCTATG
* *
10520548 GCGGTGGCATCTGAACCAGTT
1 GCGGTGGCATCTAAAACAGTT
* *
10520569 GTGGTGGCATCTAAAATAGTT
1 GCGGTGGCATCTAAAACAGTT
10520590 GCGGTG
1 GCGGTG
10520596 ACGTTTGACC
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.21, C:0.17, G:0.35, T:0.27
Consensus pattern (21 bp):
GCGGTGGCATCTAAAACAGTT
Found at i:10523837 original size:23 final size:23
Alignment explanation
Indices: 10523811--10523858 Score: 60
Period size: 23 Copynumber: 2.1 Consensus size: 23
10523801 ATAAAGTATA
*
10523811 ATAACATACTAGATAGCGCTTAT
1 ATAACATAATAGATAGCGCTTAT
** *
10523834 ATAATGTAATAGGTAGCGCTTAT
1 ATAACATAATAGATAGCGCTTAT
10523857 AT
1 AT
10523859 TGACATATTT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.38, C:0.12, G:0.17, T:0.33
Consensus pattern (23 bp):
ATAACATAATAGATAGCGCTTAT
Found at i:10524368 original size:23 final size:23
Alignment explanation
Indices: 10524333--10524405 Score: 101
Period size: 23 Copynumber: 3.2 Consensus size: 23
10524323 ATACTTTACA
* *
10524333 ATATAAGCACTACATATTACATT
1 ATATAAGCGCTACCTATTACATT
*
10524356 ATATAAACGCTACCTATTACATT
1 ATATAAGCGCTACCTATTACATT
* *
10524379 ATATAAGTGCTACCTATTACATC
1 ATATAAGCGCTACCTATTACATT
10524402 ATAT
1 ATAT
10524406 TTTTACCTAT
Statistics
Matches: 44, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 44 1.00
ACGTcount: A:0.40, C:0.19, G:0.05, T:0.36
Consensus pattern (23 bp):
ATATAAGCGCTACCTATTACATT
Found at i:10524806 original size:23 final size:23
Alignment explanation
Indices: 10524771--10524843 Score: 110
Period size: 23 Copynumber: 3.2 Consensus size: 23
10524761 ATACTTTACA
*
10524771 ATATAAGCACTACCTATTACATT
1 ATATAAGCGCTACCTATTACATT
* *
10524794 ATATAAACGCTACCTGTTACATT
1 ATATAAGCGCTACCTATTACATT
*
10524817 ATATAAGCGCTACCTATTACATC
1 ATATAAGCGCTACCTATTACATT
10524840 ATAT
1 ATAT
10524844 TTTTACATAT
Statistics
Matches: 44, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 44 1.00
ACGTcount: A:0.37, C:0.22, G:0.07, T:0.34
Consensus pattern (23 bp):
ATATAAGCGCTACCTATTACATT
Found at i:10525168 original size:436 final size:437
Alignment explanation
Indices: 10524227--10525540 Score: 2477
Period size: 436 Copynumber: 3.0 Consensus size: 437
10524217 ATATATATAA
*
10524227 TTACTAAATTGATATCTTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAA
1 TTACTAAATTAATATCTTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAA
* *
10524292 ATAAGTATGGACACTTTTATAAAAATGATAGATACTTTACAATATAAGCACTACATATTACATTA
66 AAAAGTATGGACACTTTTATAAAAATGATAGATACTTTACAATATAAGCACTACCTATTACATTA
*
10524357 TATAAACGCTACCTATTACATTATATAAGTGCTACCTATTACATCATATTTTTACCTATTATATT
131 TATAAACGCTACCTATTACATTATATAAGCGCTACCTATTACATCATATTTTTACCTATTATATT
*
10524422 GAAAGTGTCCATACTTTTTATAAAAAAGATCGATACTTTTTTTAAAGTTATATAATTTATGTTTC
196 GAAAGTGTCCATACTTTTTATAAAAAAGATCGATACTTTTTTTAAAGTTATGTAATTTATGTTTC
10524487 AATTTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTGCACA
261 AA-TTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTGCACA
10524552 AAAAATTATTTGATTGTTTTGATATTTTATAAAATAATATTTAGAATTTAAATTTAACAATATTA
325 AAAAATTATTTGATTGTTTTGATATTTTATAAAATAATATTTAGAATTTAAATTTAACAATATTA
10524617 ACCAAAGATAATAATAAATATGTAATATATATGTTTATTGTTTTTAAT
390 ACCAAAGATAATAATAAATATGTAATATATATGTTTATTGTTTTTAAT
*
10524665 TTGCTAAATTAATATCTTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAA
1 TTACTAAATTAATATCTTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAA
*
10524730 AAAAGTATGGACACTTTTATAAAAAGGATAGATACTTTACAATATAAGCACTACCTATTACATTA
66 AAAAGTATGGACACTTTTATAAAAATGATAGATACTTTACAATATAAGCACTACCTATTACATTA
* *
10524795 TATAAACGCTACCTGTTACATTATATAAGCGCTACCTATTACATCATATTTTTACATATTATATT
131 TATAAACGCTACCTATTACATTATATAAGCGCTACCTATTACATCATATTTTTACCTATTATATT
*
10524860 GAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTTTTTTAAAGTTATGTAATTTATGTTTC
196 GAAAGTGTCCATACTTTTTATAAAAAAGATCGATACTTTTTTTAAAGTTATGTAATTTATGTTTC
10524925 AA-TTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTGCACAA
261 AATTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTGCACAA
10524989 AAAATTATTTGATTGTTTTGATATTTTATAAAATAATATTTAGAATTTAAATTTAACAATATTAA
326 AAAATTATTTGATTGTTTTGATATTTTATAAAATAATATTTAGAATTTAAATTTAACAATATTAA
*
10525054 CCAAAGATAATAATAAATATGTAATATATATGTTTATTATTTTTAAT
391 CCAAAGATAATAATAAATATGTAATATATATGTTTATTGTTTTTAAT
*
10525101 TTACTAAATTAATATCTTAAAACTCACTCAAAAGATAACTTTAAATTAATGTTTTCCACAGTGAA
1 TTACTAAATTAATATCTTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAA
*
10525166 AAAAATATGGACACTTTTATAAAAATGATAGATACTTTACAATATAAGCACTACCTATTACATTA
66 AAAAGTATGGACACTTTTATAAAAATGATAGATACTTTACAATATAAGCACTACCTATTACATTA
10525231 TATAAACGCTACCTATTACATTATATAAGCGCTACCTATTACATCATATTTTTACCTATTATATT
131 TATAAACGCTACCTATTACATTATATAAGCGCTACCTATTACATCATATTTTTACCTATTATATT
10525296 GAAAGTGTCCATACTTTTTATAAAAAAGATCGATACTTTTTTTAAAGTTATGTAATTTATGTTTC
196 GAAAGTGTCCATACTTTTTATAAAAAAGATCGATACTTTTTTTAAAGTTATGTAATTTATGTTTC
*
10525361 AATTTTTTTAATAGTGTTTCATGTTTTTCACCTACAATATTAATTTAATAATTTCATTTGCACAA
261 AATTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTGCACAA
*
10525426 AAAATTATTTGATTGTTTTGATATTTTATAAAATAATATTTAGAATTTAAATTTAAAAATATTAA
326 AAAATTATTTGATTGTTTTGATATTTTATAAAATAATATTTAGAATTTAAATTTAACAATATTAA
10525491 CCAAAGATAATAATAAATATGTAATATATATGTTTATTGTTTTTAAT
391 CCAAAGATAATAATAAATATGTAATATATATGTTTATTGTTTTTAAT
10525538 TTA
1 TTA
10525541 ATAATAATAT
Statistics
Matches: 854, Mismatches: 21, Indels: 3
0.97 0.02 0.00
Matches are distributed among these distances:
436 428 0.50
437 174 0.20
438 252 0.30
ACGTcount: A:0.39, C:0.11, G:0.08, T:0.42
Consensus pattern (437 bp):
TTACTAAATTAATATCTTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAA
AAAAGTATGGACACTTTTATAAAAATGATAGATACTTTACAATATAAGCACTACCTATTACATTA
TATAAACGCTACCTATTACATTATATAAGCGCTACCTATTACATCATATTTTTACCTATTATATT
GAAAGTGTCCATACTTTTTATAAAAAAGATCGATACTTTTTTTAAAGTTATGTAATTTATGTTTC
AATTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTGCACAA
AAAATTATTTGATTGTTTTGATATTTTATAAAATAATATTTAGAATTTAAATTTAACAATATTAA
CCAAAGATAATAATAAATATGTAATATATATGTTTATTGTTTTTAAT
Found at i:10525242 original size:23 final size:23
Alignment explanation
Indices: 10525207--10525279 Score: 119
Period size: 23 Copynumber: 3.2 Consensus size: 23
10525197 ATACTTTACA
*
10525207 ATATAAGCACTACCTATTACATT
1 ATATAAGCGCTACCTATTACATT
*
10525230 ATATAAACGCTACCTATTACATT
1 ATATAAGCGCTACCTATTACATT
*
10525253 ATATAAGCGCTACCTATTACATC
1 ATATAAGCGCTACCTATTACATT
10525276 ATAT
1 ATAT
10525280 TTTTACCTAT
Statistics
Matches: 46, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 46 1.00
ACGTcount: A:0.38, C:0.22, G:0.05, T:0.34
Consensus pattern (23 bp):
ATATAAGCGCTACCTATTACATT
Found at i:10528381 original size:183 final size:183
Alignment explanation
Indices: 10528073--10529016 Score: 1780
Period size: 183 Copynumber: 5.2 Consensus size: 183
10528063 ACTCCTATTG
*
10528073 TAAAGTACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCTCATGAAACCG
1 TAAAGTACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCTCATAAAACCG
10528138 GTATATTTATACCGGTTATATTACAAAATTATCTATTACATTATAATTCTGGGTTCCGATGTGTA
66 GTATATTTATACCGGTTATATTACAAAATTATCTATTACATTATAATTCTGGGTTCCGATGTGTA
10528203 AATGTCGACACTTTTTGACAAGGTATCGACACATTTTTCTTCCAATCTGGACA
131 AATGTCGACACTTTTTGACAAGGTATCGACACATTTTTCTTCCAATCTGGACA
10528256 TAAAGTACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCTCATAAAACCG
1 TAAAGTACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCTCATAAAACCG
*
10528321 GTATATTTATACCGGTTATATTACAAAATTATCTCTTACATTATAATTCTGGGTTCCGATGTGTA
66 GTATATTTATACCGGTTATATTACAAAATTATCTATTACATTATAATTCTGGGTTCCGATGTGTA
*
10528386 AATGTCGACACTTTTTGACAAGGTATCGACACATTTTTCTTCCAATCTTGACA
131 AATGTCGACACTTTTTGACAAGGTATCGACACATTTTTCTTCCAATCTGGACA
10528439 TAAAGTACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCTCATAAAACCG
1 TAAAGTACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCTCATAAAACCG
10528504 GTATATTTATACCGGTTATATTACAAAATTATCTATTACATTATAATTCTGGGTTCCGATGTGTA
66 GTATATTTATACCGGTTATATTACAAAATTATCTATTACATTATAATTCTGGGTTCCGATGTGTA
*
10528569 AATGTCGACACTTTTTGACAAGGTATCGACACATTTTTCTTCCAATCTTGACA
131 AATGTCGACACTTTTTGACAAGGTATCGACACATTTTTCTTCCAATCTGGACA
10528622 TAAAGTACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCTCATAAAACCG
1 TAAAGTACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCTCATAAAACCG
10528687 GTATATTTATACCGGTTATATTACAAAATTATCTATTACATTATAATTCTGGGTTCCGATGTGTA
66 GTATATTTATACCGGTTATATTACAAAATTATCTATTACATTATAATTCTGGGTTCCGATGTGTA
* * *
10528752 AATGTCGACACTTTTTGACAATGTATCGACACATTTTTCTTCCATTCTGGAGA
131 AATGTCGACACTTTTTGACAAGGTATCGACACATTTTTCTTCCAATCTGGACA
10528805 TAAAGTACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCTCATAAAACCG
1 TAAAGTACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCTCATAAAACCG
*
10528870 GTATATTTATACCGGTTATATTATAAAATTATCTATTACATTATAATTCTGGGTTCCGATGTGTA
66 GTATATTTATACCGGTTATATTACAAAATTATCTATTACATTATAATTCTGGGTTCCGATGTGTA
* *
10528935 AATGTCGACACTTTTTGACAAGGTATTGACACATTTTTCTTCCATTCTGGACA
131 AATGTCGACACTTTTTGACAAGGTATCGACACATTTTTCTTCCAATCTGGACA
**
10528988 TAAAGTACATACACAATATTAAAAAGTGT
1 TAAAGTACCGACACAATATTAAAAAGTGT
10529017 GAAAACTTTG
Statistics
Matches: 747, Mismatches: 14, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
183 747 1.00
ACGTcount: A:0.33, C:0.17, G:0.15, T:0.35
Consensus pattern (183 bp):
TAAAGTACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCTCATAAAACCG
GTATATTTATACCGGTTATATTACAAAATTATCTATTACATTATAATTCTGGGTTCCGATGTGTA
AATGTCGACACTTTTTGACAAGGTATCGACACATTTTTCTTCCAATCTGGACA
Found at i:10530230 original size:3 final size:3
Alignment explanation
Indices: 10530222--10530312 Score: 83
Period size: 3 Copynumber: 30.3 Consensus size: 3
10530212 ACTTGTTTGG
* * * * *
10530222 ATC ATC ATC ATC ATC ATC GTC GTC GTC ATC ATC ATC ATC GTC ATC TTC
1 ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC
* * * * * *
10530270 ATC GTC AGC TTC ATC GTC ATC ATC ATC GTC ATC TTC ATC ATC A
1 ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC A
10530313 GCTTCATCTT
Statistics
Matches: 70, Mismatches: 18, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
3 70 1.00
ACGTcount: A:0.23, C:0.33, G:0.09, T:0.35
Consensus pattern (3 bp):
ATC
Found at i:10530290 original size:36 final size:36
Alignment explanation
Indices: 10530250--10530325 Score: 134
Period size: 36 Copynumber: 2.1 Consensus size: 36
10530240 GTCGTCGTCA
*
10530250 TCATCATCATCGTCATCTTCATCGTCAGCTTCATCG
1 TCATCATCATCGTCATCTTCATCATCAGCTTCATCG
*
10530286 TCATCATCATCGTCATCTTCATCATCAGCTTCATCT
1 TCATCATCATCGTCATCTTCATCATCAGCTTCATCG
10530322 TCAT
1 TCAT
10530326 AGACCGCTTG
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
36 38 1.00
ACGTcount: A:0.21, C:0.33, G:0.08, T:0.38
Consensus pattern (36 bp):
TCATCATCATCGTCATCTTCATCATCAGCTTCATCG
Found at i:10530317 original size:12 final size:12
Alignment explanation
Indices: 10530250--10530325 Score: 98
Period size: 12 Copynumber: 6.3 Consensus size: 12
10530240 GTCGTCGTCA
*
10530250 TCATCATCATCG
1 TCATCTTCATCG
10530262 TCATCTTCATCG
1 TCATCTTCATCG
*
10530274 TCAGCTTCATCG
1 TCATCTTCATCG
*
10530286 TCATCATCATCG
1 TCATCTTCATCG
*
10530298 TCATCTTCATCA
1 TCATCTTCATCG
* *
10530310 TCAGCTTCATCT
1 TCATCTTCATCG
10530322 TCAT
1 TCAT
10530326 AGACCGCTTG
Statistics
Matches: 55, Mismatches: 9, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
12 55 1.00
ACGTcount: A:0.21, C:0.33, G:0.08, T:0.38
Consensus pattern (12 bp):
TCATCTTCATCG
Found at i:10530323 original size:6 final size:6
Alignment explanation
Indices: 10530250--10530325 Score: 71
Period size: 6 Copynumber: 12.7 Consensus size: 6
10530240 GTCGTCGTCA
* * * * * * *
10530250 TCATCA TCATCG TCATCT TCATCG TCAGCT TCATCG TCATCA TCATCG
1 TCATCT TCATCT TCATCT TCATCT TCATCT TCATCT TCATCT TCATCT
* *
10530298 TCATCT TCATCA TCAGCT TCATCT TCAT
1 TCATCT TCATCT TCATCT TCATCT TCAT
10530326 AGACCGCTTG
Statistics
Matches: 56, Mismatches: 14, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
6 56 1.00
ACGTcount: A:0.21, C:0.33, G:0.08, T:0.38
Consensus pattern (6 bp):
TCATCT
Found at i:10532178 original size:200 final size:200
Alignment explanation
Indices: 10531827--10532990 Score: 2078
Period size: 200 Copynumber: 5.8 Consensus size: 200
10531817 AACATTAAAC
* * * * *
10531827 AGTGTCGATACA-TATTATATACCAATTCTCTCATAAAACCAGTATACTTGTACCGGTTAGATTG
1 AGTGTCGACACATTATT-TAGACCTATTCTCTCATAAAACCGGTATATTTGTACCGGTTAGATTG
* *
10531891 AAAAATTACCTATTACATTATACTTATGGGTTTCGATGTTTATGGGATCGACACTTTTTATATAT
65 AAAAATTACATATTACATTATACTTTTGGGTTTCGATGTTTATGGGATCGACACTTTTTATATAT
** * *
10531956 GGATCGACACTTTATTGTTGCACCCTGTTTACCATTCATTATGGACCAAAAATATCGACACAAAC
130 GGATCGACACTTTACGGTTGCACCCTGTTTGCCATTCATTCTGGACCAAAAATATCGACACAAAC
*
10532021 TATAAA
195 TACAAA
*
10532027 AGTGTCGACACATTATTTAGACCTATTCTATCATAAAACCGGTATATTTGTACCGGTTAGATTGA
1 AGTGTCGACACATTATTTAGACCTATTCTCTCATAAAACCGGTATATTTGTACCGGTTAGATTGA
10532092 AAAATTACATATTACATTATACTTTTGGGTTTCGATGTTTATGGGATCGACACTTTTTATATATG
66 AAAATTACATATTACATTATACTTTTGGGTTTCGATGTTTATGGGATCGACACTTTTTATATATG
*
10532157 GATCAACACTTTACGGTTGCACCCTGTTTGCCATTCATTCTGGACCAAAAATATCGACACAAACT
131 GATCGACACTTTACGGTTGCACCCTGTTTGCCATTCATTCTGGACCAAAAATATCGACACAAACT
10532222 ACAAA
196 ACAAA
10532227 AGTGTCGACACATTATTTAGACCTATTCTCTCATAAAACCGGTATATTTGTACCGGTTAGATTGA
1 AGTGTCGACACATTATTTAGACCTATTCTCTCATAAAACCGGTATATTTGTACCGGTTAGATTGA
*
10532292 AAAATTACATATTACATTATATTTTTGGGTTTCGATGTTTATGGGATCGACACTTTTTATATATG
66 AAAATTACATATTACATTATACTTTTGGGTTTCGATGTTTATGGGATCGACACTTTTTATATATG
10532357 GATCGACACTTTACGGTTGCACCCTGTTTGCCATTCATTCTGGACCAAAAATATCGACACAAACT
131 GATCGACACTTTACGGTTGCACCCTGTTTGCCATTCATTCTGGACCAAAAATATCGACACAAACT
10532422 ACAAA
196 ACAAA
*
10532427 AGTGTCGACACATTATTTAGACCTATTCTTTCATAAAACCGGTATATTTGTACCGGTTAGATTGA
1 AGTGTCGACACATTATTTAGACCTATTCTCTCATAAAACCGGTATATTTGTACCGGTTAGATTGA
10532492 AAAATTACATATTACATTATACTTTTGGGTTTCGATGTTTATGGGATCGACACTTTTTATATATG
66 AAAATTACATATTACATTATACTTTTGGGTTTCGATGTTTATGGGATCGACACTTTTTATATATG
10532557 GATCGACACTTTACGGTTGCACCCTGTTTGCCATTCATTCTGGACCAAAAATATCGACACAAACT
131 GATCGACACTTTACGGTTGCACCCTGTTTGCCATTCATTCTGGACCAAAAATATCGACACAAACT
10532622 ACAAA
196 ACAAA
10532627 AGTGTCGACACATTATTTAGACCTATTCTCTCATAAAACCGGTATATTTGTACCGGTTAGATTGA
1 AGTGTCGACACATTATTTAGACCTATTCTCTCATAAAACCGGTATATTTGTACCGGTTAGATTGA
* *
10532692 AAAATTACATATTACATTATACTTTTGGGTTTCAATGTTTATGAGATCGACACTTTTTATATATG
66 AAAATTACATATTACATTATACTTTTGGGTTTCGATGTTTATGGGATCGACACTTTTTATATATG
*
10532757 GATCGACACTTTACGGTTGCACCCTGTTTTCCATTCATTCTGGACCAAAAATATCGACACAAACT
131 GATCGACACTTTACGGTTGCACCCTGTTTGCCATTCATTCTGGACCAAAAATATCGACACAAACT
*
10532822 AAAAA
196 ACAAA
* *
10532827 AGTGTCGACACATTATTTAGACCTATTCTCTCATAAAATCGGTATACTTGTACCGGTTAGATTGA
1 AGTGTCGACACATTATTTAGACCTATTCTCTCATAAAACCGGTATATTTGTACCGGTTAGATTGA
* *
10532892 AAAATTACATATTACATTATACTTTTGGTTTTCGATGTTTTTGGGATCGACACTTTTTATATATG
66 AAAATTACATATTACATTATACTTTTGGGTTTCGATGTTTATGGGATCGACACTTTTTATATATG
* *
10532957 GATCAACACTTTATGGTTGCACCCTGTTTGCCAT
131 GATCGACACTTTACGGTTGCACCCTGTTTGCCAT
10532991 ATTGTAAATT
Statistics
Matches: 930, Mismatches: 33, Indels: 2
0.96 0.03 0.00
Matches are distributed among these distances:
200 926 1.00
201 4 0.00
ACGTcount: A:0.31, C:0.18, G:0.15, T:0.36
Consensus pattern (200 bp):
AGTGTCGACACATTATTTAGACCTATTCTCTCATAAAACCGGTATATTTGTACCGGTTAGATTGA
AAAATTACATATTACATTATACTTTTGGGTTTCGATGTTTATGGGATCGACACTTTTTATATATG
GATCGACACTTTACGGTTGCACCCTGTTTGCCATTCATTCTGGACCAAAAATATCGACACAAACT
ACAAA
Found at i:10533114 original size:18 final size:18
Alignment explanation
Indices: 10533091--10533151 Score: 59
Period size: 19 Copynumber: 3.3 Consensus size: 18
10533081 TCTCATTCAT
*
10533091 AATTATATTCACATACAA
1 AATTATAATCACATACAA
**
10533109 AATTATAAATCGTATACAA
1 AATTAT-AATCACATACAA
**
10533128 AATTATAAATCTTATACAA
1 AATTAT-AATCACATACAA
10533147 AATTA
1 AATTA
10533152 ACCCTACATT
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
18 6 0.16
19 32 0.84
ACGTcount: A:0.52, C:0.11, G:0.02, T:0.34
Consensus pattern (18 bp):
AATTATAATCACATACAA
Found at i:10533127 original size:19 final size:19
Alignment explanation
Indices: 10533103--10533151 Score: 89
Period size: 19 Copynumber: 2.6 Consensus size: 19
10533093 TTATATTCAC
10533103 ATACAAAATTATAAATCGT
1 ATACAAAATTATAAATCGT
*
10533122 ATACAAAATTATAAATCTT
1 ATACAAAATTATAAATCGT
10533141 ATACAAAATTA
1 ATACAAAATTA
10533152 ACCCTACATT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
19 29 1.00
ACGTcount: A:0.55, C:0.10, G:0.02, T:0.33
Consensus pattern (19 bp):
ATACAAAATTATAAATCGT
Found at i:10534978 original size:33 final size:33
Alignment explanation
Indices: 10534941--10535006 Score: 105
Period size: 33 Copynumber: 2.0 Consensus size: 33
10534931 CATCTTAATA
*
10534941 TCACCCCTTAACACCCCAACTTCTTTCACCACT
1 TCACCCCTCAACACCCCAACTTCTTTCACCACT
* *
10534974 TCACCCCTCAACACCTCTACTTCTTTCACCACT
1 TCACCCCTCAACACCCCAACTTCTTTCACCACT
10535007 CCATCTATTT
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.23, C:0.48, G:0.00, T:0.29
Consensus pattern (33 bp):
TCACCCCTCAACACCCCAACTTCTTTCACCACT
Found at i:10535065 original size:21 final size:21
Alignment explanation
Indices: 10535040--10535104 Score: 94
Period size: 21 Copynumber: 3.1 Consensus size: 21
10535030 CCCCTTATGC
*
10535040 CTCTCAAGTGTATCTTCGACT
1 CTCTCAAGTTTATCTTCGACT
*
10535061 CTCTCAAGTTTGTCTTCGACT
1 CTCTCAAGTTTATCTTCGACT
* *
10535082 CTATCAAGTTTCTCTTCGACT
1 CTCTCAAGTTTATCTTCGACT
10535103 CT
1 CT
10535105 TGATTGTCTT
Statistics
Matches: 40, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 40 1.00
ACGTcount: A:0.17, C:0.29, G:0.12, T:0.42
Consensus pattern (21 bp):
CTCTCAAGTTTATCTTCGACT
Found at i:10537349 original size:17 final size:18
Alignment explanation
Indices: 10537327--10537369 Score: 61
Period size: 20 Copynumber: 2.3 Consensus size: 18
10537317 ATATATCCGG
10537327 TATCATTT-TACCGGTTT
1 TATCATTTATACCGGTTT
10537344 TATCATTTTGATACCGGTTT
1 TATCA-TTT-ATACCGGTTT
10537364 TATCAT
1 TATCAT
10537370 ATTTTTACCT
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
17 5 0.22
18 3 0.13
19 1 0.04
20 14 0.61
ACGTcount: A:0.21, C:0.16, G:0.12, T:0.51
Consensus pattern (18 bp):
TATCATTTATACCGGTTT
Found at i:10537387 original size:20 final size:19
Alignment explanation
Indices: 10537332--10537378 Score: 67
Period size: 20 Copynumber: 2.4 Consensus size: 19
10537322 TCCGGTATCA
10537332 TTTTACCGGTTTTATCATT
1 TTTTACCGGTTTTATCATT
*
10537351 TTGATACCGGTTTTATCATAT
1 TT-TTACCGGTTTTATCAT-T
10537372 TTTTACC
1 TTTTACC
10537379 TGTTATATCG
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
19 2 0.08
20 19 0.79
21 3 0.12
ACGTcount: A:0.19, C:0.17, G:0.11, T:0.53
Consensus pattern (19 bp):
TTTTACCGGTTTTATCATT
Found at i:10537539 original size:20 final size:20
Alignment explanation
Indices: 10537512--10537558 Score: 78
Period size: 20 Copynumber: 2.4 Consensus size: 20
10537502 TCCGGTAACG
10537512 TTTTACCGGTTTTATCAT-T
1 TTTTACCGGTTTTATCATAT
10537531 TTGTTACCGGTTTTATCATAT
1 TT-TTACCGGTTTTATCATAT
10537552 TTTTACC
1 TTTTACC
10537559 TGGTATATCG
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
19 2 0.08
20 21 0.81
21 3 0.12
ACGTcount: A:0.17, C:0.17, G:0.11, T:0.55
Consensus pattern (20 bp):
TTTTACCGGTTTTATCATAT
Found at i:10537726 original size:159 final size:159
Alignment explanation
Indices: 10537434--10537746 Score: 457
Period size: 159 Copynumber: 1.9 Consensus size: 159
10537424 TTATTGGCGC
* *
10537434 TAAAACTGCTTCTCTTTTAAATTCACAAAGTGTCGATCCTTATATAAAGTATCGACACTTTCAAT
1 TAAAACTGCTTCTCTTTTAAATTCACAAAGTGTCGATCCTTATATAAAGTACCGACACTTTAAAT
* *** *
10537499 ATATCCGGTAACGTTTTACCGGTTTTATCATTTTGTTACCGGTTTTATCATATTTTTACCTGGTA
66 ATAT-C--TAACGCTTTACCGGTTTTATCATTTCAATACCGGTTTTATCATAGTTTTACCTGGTA
* *
10537564 TATCGTTTTGGATCGATACATTTTATAGGATT
128 TATCATTTTGGATCGACACATTTTATAGGATT
*
10537596 TAAAACTGCTTCTCTTTTAAATTCACGAAGTGTCGATCCTTATATTAAAGTACCGACACTTTAAA
1 TAAAACTGCTTCTCTTTTAAATTCACAAAGTGTCGATCCTTATA-TAAAGTACCGACACTTTAAA
* * * *
10537661 TGTAT-TAGCGCTTTACCGGTTTTATCATTTCAATACCGGTTTTGTCATAGTTTTACCTGTTATA
65 TATATCTAACGCTTTACCGGTTTTATCATTTCAATACCGGTTTTATCATAGTTTTACCTGGTATA
10537725 TCATTTTGGATCGACACATTTT
130 TCATTTTGGATCGACACATTTT
10537747 TAATTTGGAT
Statistics
Matches: 136, Mismatches: 14, Indels: 5
0.88 0.09 0.03
Matches are distributed among these distances:
159 71 0.52
162 43 0.32
163 22 0.16
ACGTcount: A:0.27, C:0.18, G:0.13, T:0.42
Consensus pattern (159 bp):
TAAAACTGCTTCTCTTTTAAATTCACAAAGTGTCGATCCTTATATAAAGTACCGACACTTTAAAT
ATATCTAACGCTTTACCGGTTTTATCATTTCAATACCGGTTTTATCATAGTTTTACCTGGTATAT
CATTTTGGATCGACACATTTTATAGGATT
Found at i:10543812 original size:40 final size:42
Alignment explanation
Indices: 10543706--10543813 Score: 123
Period size: 43 Copynumber: 2.6 Consensus size: 42
10543696 TTTCTTTTAG
* *
10543706 TTAATTTGGATTAATCCAAATATTGGAGAGATTATATCGTAA
1 TTAATTTGGATTAATCCAAATATTGGAGAGATAAAATCGTAA
* * * *
10543748 TTAGATCTGGAATAATCCAAATATTTGATA-A-AAAATC-TAGA
1 TTA-ATTTGGATTAATCCAAATATTGGAGAGATAAAATCGTA-A
10543789 TTAATTTGGATTAATCCAAATATTG
1 TTAATTTGGATTAATCCAAATATTG
10543814 TATCATTATG
Statistics
Matches: 55, Mismatches: 9, Indels: 6
0.79 0.13 0.09
Matches are distributed among these distances:
40 21 0.38
41 8 0.15
42 4 0.07
43 22 0.40
ACGTcount: A:0.41, C:0.08, G:0.14, T:0.37
Consensus pattern (42 bp):
TTAATTTGGATTAATCCAAATATTGGAGAGATAAAATCGTAA
Found at i:10544842 original size:2 final size:2
Alignment explanation
Indices: 10544835--10544870 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
10544825 ACCATATAAG
10544835 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
10544871 TCTTTTCACA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:10544940 original size:21 final size:20
Alignment explanation
Indices: 10544894--10544942 Score: 57
Period size: 20 Copynumber: 2.5 Consensus size: 20
10544884 TAATGTTATT
10544894 TAATA-TAT-AAATACAATC
1 TAATATTATAAAATACAATC
* *
10544912 TAAAATTATAAAATATAATC
1 TAATATTATAAAATACAATC
10544932 ATAATATTATA
1 -TAATATTATA
10544943 TTACAAAGAA
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
18 4 0.16
19 3 0.12
20 9 0.36
21 9 0.36
ACGTcount: A:0.57, C:0.06, G:0.00, T:0.37
Consensus pattern (20 bp):
TAATATTATAAAATACAATC
Found at i:10546299 original size:68 final size:68
Alignment explanation
Indices: 10546183--10546320 Score: 258
Period size: 68 Copynumber: 2.0 Consensus size: 68
10546173 TCGATATTGA
* *
10546183 AATGCTCTTTGATGATAATAGATAAATGCTTGATAGTTTTATCTACGAATCCTTTGGTAGGATTT
1 AATGCTCTTTGATGATAATAGATAAATGCTTGATAGTTTTACCAACGAATCCTTTGGTAGGATTT
10546248 TCT
66 TCT
10546251 AATGCTCTTTGATGATAATAGATAAATGCTTGATAGTTTTACCAACGAATCCTTTGGTAGGATTT
1 AATGCTCTTTGATGATAATAGATAAATGCTTGATAGTTTTACCAACGAATCCTTTGGTAGGATTT
10546316 TCT
66 TCT
10546319 AA
1 AA
10546321 GTGTCTAAGA
Statistics
Matches: 68, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
68 68 1.00
ACGTcount: A:0.30, C:0.12, G:0.17, T:0.41
Consensus pattern (68 bp):
AATGCTCTTTGATGATAATAGATAAATGCTTGATAGTTTTACCAACGAATCCTTTGGTAGGATTT
TCT
Found at i:10548332 original size:19 final size:20
Alignment explanation
Indices: 10548308--10548358 Score: 68
Period size: 19 Copynumber: 2.6 Consensus size: 20
10548298 AATGACCAAT
10548308 AAAATCGCAACGCGATAT-C
1 AAAATCGCAACGCGATATAC
* * *
10548327 AAAATCGCAATGCGATTTAG
1 AAAATCGCAACGCGATATAC
10548347 AAAATCGCAACG
1 AAAATCGCAACG
10548359 TTAAAAAGAA
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
19 16 0.59
20 11 0.41
ACGTcount: A:0.43, C:0.22, G:0.18, T:0.18
Consensus pattern (20 bp):
AAAATCGCAACGCGATATAC
Found at i:10548401 original size:20 final size:20
Alignment explanation
Indices: 10548345--10548401 Score: 96
Period size: 20 Copynumber: 2.9 Consensus size: 20
10548335 AATGCGATTT
* *
10548345 AGAAAATCGCAACGTTAAAA
1 AGAAAATCGCAACGGTCAAA
10548365 AGAAAATCGCAACGGTCAAA
1 AGAAAATCGCAACGGTCAAA
10548385 AGAAAATCGCAACGGTC
1 AGAAAATCGCAACGGTC
10548402 GTGGTCGTGG
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 35 1.00
ACGTcount: A:0.49, C:0.19, G:0.19, T:0.12
Consensus pattern (20 bp):
AGAAAATCGCAACGGTCAAA
Found at i:10548409 original size:6 final size:6
Alignment explanation
Indices: 10548398--10548472 Score: 150
Period size: 6 Copynumber: 12.5 Consensus size: 6
10548388 AAATCGCAAC
10548398 GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT
1 GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT
10548446 GGTCGT GGTCGT GGTCGT GGTCGT GGT
1 GGTCGT GGTCGT GGTCGT GGTCGT GGT
10548473 AATACGTGTC
Statistics
Matches: 69, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 69 1.00
ACGTcount: A:0.00, C:0.16, G:0.51, T:0.33
Consensus pattern (6 bp):
GGTCGT
Found at i:10548584 original size:20 final size:20
Alignment explanation
Indices: 10548563--10548795 Score: 170
Period size: 20 Copynumber: 11.6 Consensus size: 20
10548553 CTTTTGACCG
*
10548563 TTGCGATTTTCTAAATCGCG
1 TTGCGATTTTCTAAATCGCA
* *
10548583 TTGCGATTCTCTCAATCGCA
1 TTGCGATTTTCTAAATCGCA
* * *
10548603 TTGCGATTCTCTCAGTCGCA
1 TTGCGATTTTCTAAATCGCA
* * *
10548623 TTGCGATTCTCTCAGTCGCA
1 TTGCGATTTTCTAAATCGCA
* *
10548643 TTGC-----TCTCAGTCGCA
1 TTGCGATTTTCTAAATCGCA
* * *
10548658 TTGCGATTCTCTCAGTCGCA
1 TTGCGATTTTCTAAATCGCA
*
10548678 TTGCGATTTTCTTCTAAATCGCG
1 TTGCGA--TT-TTCTAAATCGCA
* * *
10548701 TTGCGACTCTCTCAATCGCA
1 TTGCGATTTTCTAAATCGCA
* *
10548721 TTGCGATTCTATAAATCGCA
1 TTGCGATTTTCTAAATCGCA
* * *
10548741 TTGCGATTCTATCAATCGCA
1 TTGCGATTTTCTAAATCGCA
10548761 TTGCGATTTTCTTCTAAATCGCA
1 TTGCGA--TT-TTCTAAATCGCA
10548784 TTGCGATTTTCT
1 TTGCGATTTTCT
10548796 TCTAAATCGC
Statistics
Matches: 183, Mismatches: 19, Indels: 22
0.82 0.08 0.10
Matches are distributed among these distances:
15 15 0.08
20 132 0.72
21 3 0.02
22 4 0.02
23 29 0.16
ACGTcount: A:0.19, C:0.26, G:0.17, T:0.38
Consensus pattern (20 bp):
TTGCGATTTTCTAAATCGCA
Found at i:10548607 original size:40 final size:40
Alignment explanation
Indices: 10548563--10548791 Score: 252
Period size: 40 Copynumber: 5.7 Consensus size: 40
10548553 CTTTTGACCG
*
10548563 TTGCGATTTTCTAAATCGCGTTGCGATTCTCTCAATCGCA
1 TTGCGATTTTCTAAATCGCATTGCGATTCTCTCAATCGCA
* * * *
10548603 TTGCGATTCTCTCAGTCGCATTGCGATTCTCTCAGTCGCA
1 TTGCGATTTTCTAAATCGCATTGCGATTCTCTCAATCGCA
* * *
10548643 TTGC-----TCTCAGTCGCATTGCGATTCTCTCAGTCGCA
1 TTGCGATTTTCTAAATCGCATTGCGATTCTCTCAATCGCA
* *
10548678 TTGCGATTTTCTTCTAAATCGCGTTGCGACTCTCTCAATCGCA
1 TTGCGA--TT-TTCTAAATCGCATTGCGATTCTCTCAATCGCA
* * *
10548721 TTGCGATTCTATAAATCGCATTGCGATTCTATCAATCGCA
1 TTGCGATTTTCTAAATCGCATTGCGATTCTCTCAATCGCA
10548761 TTGCGATTTTCTTCTAAATCGCATTGCGATT
1 TTGCGA--TT-TTCTAAATCGCATTGCGATT
10548792 TTCTTCTAAA
Statistics
Matches: 161, Mismatches: 17, Indels: 19
0.82 0.09 0.10
Matches are distributed among these distances:
35 35 0.22
40 72 0.45
41 2 0.01
42 2 0.01
43 50 0.31
ACGTcount: A:0.19, C:0.26, G:0.17, T:0.37
Consensus pattern (40 bp):
TTGCGATTTTCTAAATCGCATTGCGATTCTCTCAATCGCA
Found at i:10548651 original size:15 final size:15
Alignment explanation
Indices: 10548631--10548661 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
10548621 CATTGCGATT
10548631 CTCTCAGTCGCATTG
1 CTCTCAGTCGCATTG
10548646 CTCTCAGTCGCATTG
1 CTCTCAGTCGCATTG
10548661 C
1 C
10548662 GATTCTCTCA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.13, C:0.35, G:0.19, T:0.32
Consensus pattern (15 bp):
CTCTCAGTCGCATTG
Found at i:10548657 original size:35 final size:35
Alignment explanation
Indices: 10548578--10548681 Score: 145
Period size: 35 Copynumber: 2.8 Consensus size: 35
10548568 ATTTTCTAAA
* *
10548578 TCGCGTTGCGATTCTCTCAATCGCATTGCGATTCTCTCAG
1 TCGCATTGCGATTCTCTCAGTCGCATT--G---CTCTCAG
10548618 TCGCATTGCGATTCTCTCAGTCGCATTGCTCTCAG
1 TCGCATTGCGATTCTCTCAGTCGCATTGCTCTCAG
10548653 TCGCATTGCGATTCTCTCAGTCGCATTGC
1 TCGCATTGCGATTCTCTCAGTCGCATTGC
10548682 GATTTTCTTC
Statistics
Matches: 62, Mismatches: 2, Indels: 5
0.90 0.03 0.07
Matches are distributed among these distances:
35 36 0.58
38 1 0.02
40 25 0.40
ACGTcount: A:0.14, C:0.31, G:0.20, T:0.35
Consensus pattern (35 bp):
TCGCATTGCGATTCTCTCAGTCGCATTGCTCTCAG
Found at i:10548781 original size:63 final size:61
Alignment explanation
Indices: 10548563--10548791 Score: 183
Period size: 63 Copynumber: 3.8 Consensus size: 61
10548553 CTTTTGACCG
* * * * * *
10548563 TTGCGA-TT-TTCTAAATCGCGTTGCGATTCTCTCAATCGCATTGCGATTCTCTCAGTCGCA
1 TTGCGATTTCTTC-AAATCGCATTGCGACTCTCTAAATCGCATTGCGATTCTATAAATCGCA
* * * * *
10548623 TTGCGA-TTCTCTC-AGTCGCATT--G-CTCTC--AGTCGCATTGCGATTCTCTCAGTCGCA
1 TTGCGATTTCT-TCAAATCGCATTGCGACTCTCTAAATCGCATTGCGATTCTATAAATCGCA
* *
10548678 TTGCGATTTTCTTCTAAATCGCGTTGCGACTCTCTCAATCGCATTGCGATTCTATAAATCGCA
1 TTGCGA-TTTCTTC-AAATCGCATTGCGACTCTCTAAATCGCATTGCGATTCTATAAATCGCA
*
10548741 TTGCGA-TTCTATC-AATCGCATTGCGATTTTCTTCTAAATCGCATTGCGATT
1 TTGCGATTTCT-TCAAATCGCATTGCGA--CTC-TCTAAATCGCATTGCGATT
10548792 TTCTTCTAAA
Statistics
Matches: 141, Mismatches: 13, Indels: 27
0.78 0.07 0.15
Matches are distributed among these distances:
55 32 0.23
56 2 0.01
57 8 0.06
58 8 0.06
60 28 0.20
61 10 0.07
62 6 0.04
63 47 0.33
ACGTcount: A:0.19, C:0.26, G:0.17, T:0.37
Consensus pattern (61 bp):
TTGCGATTTCTTCAAATCGCATTGCGACTCTCTAAATCGCATTGCGATTCTATAAATCGCA
Found at i:10548851 original size:20 final size:20
Alignment explanation
Indices: 10548826--10548879 Score: 90
Period size: 20 Copynumber: 2.7 Consensus size: 20
10548816 TGGAAGCTCG
*
10548826 CGTTGCGATTTTCTTTTGAC
1 CGTTGCGATTTTCTTTTGAA
*
10548846 CGTTGCGATTTTCTTTTTAA
1 CGTTGCGATTTTCTTTTGAA
10548866 CGTTGCGATTTTCT
1 CGTTGCGATTTTCT
10548880 AAATCGCGTT
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 32 1.00
ACGTcount: A:0.11, C:0.19, G:0.19, T:0.52
Consensus pattern (20 bp):
CGTTGCGATTTTCTTTTGAA
Found at i:10548906 original size:19 final size:20
Alignment explanation
Indices: 10548866--10548916 Score: 77
Period size: 19 Copynumber: 2.6 Consensus size: 20
10548856 TTCTTTTTAA
*
10548866 CGTTGCGATTTTCTAAATCG
1 CGTTGCGATTTTCGAAATCG
*
10548886 CGTTGCGATTTT-GATATCG
1 CGTTGCGATTTTCGAAATCG
10548905 CGTTGCGATTTT
1 CGTTGCGATTTT
10548917 ATTGGTCATT
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
19 17 0.59
20 12 0.41
ACGTcount: A:0.16, C:0.18, G:0.24, T:0.43
Consensus pattern (20 bp):
CGTTGCGATTTTCGAAATCG
Found at i:10549065 original size:14 final size:14
Alignment explanation
Indices: 10549046--10549075 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
10549036 ATTAAAATTT
10549046 GCTCGACTATAGAA
1 GCTCGACTATAGAA
10549060 GCTCGACTATAGAA
1 GCTCGACTATAGAA
10549074 GC
1 GC
10549076 GAAGCTGTGG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.33, C:0.23, G:0.23, T:0.20
Consensus pattern (14 bp):
GCTCGACTATAGAA
Found at i:10552385 original size:14 final size:14
Alignment explanation
Indices: 10552366--10552392 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
10552356 TCTATTTTTA
10552366 CTTTATTTTTAAAG
1 CTTTATTTTTAAAG
10552380 CTTTATTTTTAAA
1 CTTTATTTTTAAA
10552393 TATGCTAAGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.30, C:0.07, G:0.04, T:0.59
Consensus pattern (14 bp):
CTTTATTTTTAAAG
Found at i:10558979 original size:22 final size:21
Alignment explanation
Indices: 10558936--10559011 Score: 66
Period size: 22 Copynumber: 3.5 Consensus size: 21
10558926 AAGTTGTTCG
* * *
10558936 AAAAAAAGAAACAAAA-GAGA
1 AAAAAAACAAAAAAAATGTGA
*
10558956 AAAAAAGACATGAAAAAATG-GA
1 AAAAAA-ACA-AAAAAAATGTGA
10558978 AAACAAAACAAAAAAAATGTGA
1 AAA-AAAACAAAAAAAATGTGA
10559000 AAAAAAATCAAA
1 AAAAAAA-CAAA
10559012 TGCATTCCGA
Statistics
Matches: 46, Mismatches: 4, Indels: 10
0.77 0.07 0.17
Matches are distributed among these distances:
20 6 0.13
21 14 0.30
22 22 0.48
23 4 0.09
ACGTcount: A:0.75, C:0.07, G:0.12, T:0.07
Consensus pattern (21 bp):
AAAAAAACAAAAAAAATGTGA
Found at i:10571773 original size:21 final size:21
Alignment explanation
Indices: 10571747--10571798 Score: 68
Period size: 21 Copynumber: 2.5 Consensus size: 21
10571737 TTATTAAAAA
10571747 TATTATTATTTGTATCAGTTT
1 TATTATTATTTGTATCAGTTT
* * *
10571768 TATTATTATTTTTATTATTTT
1 TATTATTATTTGTATCAGTTT
*
10571789 TGTTATTATT
1 TATTATTATT
10571799 AGGTACTTTA
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.23, C:0.02, G:0.06, T:0.69
Consensus pattern (21 bp):
TATTATTATTTGTATCAGTTT
Found at i:10571782 original size:12 final size:12
Alignment explanation
Indices: 10571765--10571799 Score: 54
Period size: 12 Copynumber: 2.9 Consensus size: 12
10571755 TTTGTATCAG
10571765 TTTTATTATTAT
1 TTTTATTATTAT
10571777 TTTTATTATT-T
1 TTTTATTATTAT
10571788 TTGTTATTATTA
1 TT-TTATTATTA
10571800 GGTACTTTAT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
11 3 0.14
12 18 0.86
ACGTcount: A:0.23, C:0.00, G:0.03, T:0.74
Consensus pattern (12 bp):
TTTTATTATTAT
Found at i:10572119 original size:21 final size:21
Alignment explanation
Indices: 10572073--10572112 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
10572063 GAGATAACTT
10572073 AAAT-AACAAAACTTAATAAA
1 AAATAAACAAAACTTAATAAA
10572093 AAATAAACATAAA-TTAATAA
1 AAATAAACA-AAACTTAATAA
10572113 TCAATAATAT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 4 0.22
21 11 0.61
22 3 0.17
ACGTcount: A:0.70, C:0.07, G:0.00, T:0.23
Consensus pattern (21 bp):
AAATAAACAAAACTTAATAAA
Found at i:10574132 original size:17 final size:18
Alignment explanation
Indices: 10574110--10574152 Score: 54
Period size: 17 Copynumber: 2.4 Consensus size: 18
10574100 CAAGGATTAA
10574110 ATTAAAAG-AATATA-AAT
1 ATTAAAAGTAAT-TAGAAT
10574127 ATTAAAAGTAATTAGAAT
1 ATTAAAAGTAATTAGAAT
10574145 ATGTAAAA
1 AT-TAAAA
10574153 TGACTAAAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
17 10 0.43
18 8 0.35
19 5 0.22
ACGTcount: A:0.60, C:0.00, G:0.09, T:0.30
Consensus pattern (18 bp):
ATTAAAAGTAATTAGAAT
Found at i:10575642 original size:44 final size:44
Alignment explanation
Indices: 10575592--10575801 Score: 177
Period size: 44 Copynumber: 4.8 Consensus size: 44
10575582 TAAAAACGTC
* * * * * *
10575592 GATCTACTTCCTTCTGTGATGGAATCGAACGAGATGTCGGTGCT
1 GATCTACCTCCTTCTGTGATGGAATCGAGCAAAATGTCGATGTT
* * * * *
10575636 GATCTACCTCCTTCTATGCTAGAATCGAGCAAAAGGTTGATGTT
1 GATCTACCTCCTTCTGTGATGGAATCGAGCAAAATGTCGATGTT
* * * * ****
10575680 GATCTAACTCCTTCTATGATGGATTTGAGCAAAATAAAAATGTT
1 GATCTACCTCCTTCTGTGATGGAATCGAGCAAAATGTCGATGTT
* * * * * *
10575724 GATCCACCTCCTTCTGTAATGGAATCGATCGAGATGTCGGTGTT
1 GATCTACCTCCTTCTGTGATGGAATCGAGCAAAATGTCGATGTT
* *
10575768 GATCTACCTCCTTTTGTGATAGAATCGAGCAAAA
1 GATCTACCTCCTTCTGTGATGGAATCGAGCAAAA
10575802 ATTTGAACAA
Statistics
Matches: 124, Mismatches: 42, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
44 124 1.00
ACGTcount: A:0.27, C:0.20, G:0.21, T:0.32
Consensus pattern (44 bp):
GATCTACCTCCTTCTGTGATGGAATCGAGCAAAATGTCGATGTT
Found at i:10576527 original size:36 final size:36
Alignment explanation
Indices: 10576413--10576883 Score: 214
Period size: 39 Copynumber: 12.9 Consensus size: 36
10576403 AAATTTCTTA
* * * * *
10576413 TTTCAAGGGAAAATTGTCTCAAGCGAGACGAAATTGG
1 TTTCAAGGG-AAACTATCTCAAGAGAGACAAAATTTG
* ** * * * **
10576450 TTTTAAGAAAAACCATCTCAAGTGAGATACATTTCTTG
1 TTTCAAGGGAAACTATCTCAAGAGAGACA-AAAT-TTG
* * *
10576488 TTTCAAGGGAAATTGTCTCAAGAGAGAGAAAATTTG
1 TTTCAAGGGAAACTATCTCAAGAGAGACAAAATTTG
* **
10576524 TTTCAACGGAAAC-AGTCTC-A-A-AG---ATTTTTG
1 TTTCAAGGGAAACTA-TCTCAAGAGAGACAAAATTTG
* * * * *
10576554 TTTCAAGAGAAATTGTCTTAAGGGAGACAAAATTTG
1 TTTCAAGGGAAACTATCTCAAGAGAGACAAAATTTG
* **
10576590 TTTCAAGAGAAACATAT-TC-A-A-AG---ATTTTGTG
1 TTTCAAGGGAAAC-TATCTCAAGAGAGACAAAATT-TG
* * *
10576621 TTTCAAGAGAAACTGTCTCAAGCGAGACAAAATTTG
1 TTTCAAGGGAAACTATCTCAAGAGAGACAAAATTTG
* *
10576657 TTTCAAGGGAAACTGTCTCAAGCGAGACAAAATCTTCTG
1 TTTCAAGGGAAACTATCTCAAGAGAGACAAAA--TT-TG
** * *
10576696 TTTTGAGAGAAACTATCTCAAGCGAGACAAAATCTTCTG
1 TTTCAAGGGAAACTATCTCAAGAGAGACAAAA--TT-TG
* * * * *
10576735 TTTCGAGGGAAACTCTCTAAAGCGAGATAAAATCTTCTG
1 TTTCAAGGGAAACTATCTCAAGAGAGACAAAA--TT-TG
* * *
10576774 TTTCGAGGGAAACTATCTCAAGCGAGATAAAAAAATTTG
1 TTTCAAGGGAAACTATCTCAA--GAGA-GACAAAATTTG
* * *
10576813 TTTCGAGGGAAACTATCTCAAGTGAGATAAAAAATTTG
1 TTTCAAGGGAAACTATCTCAA--GAGAGACAAAATTTG
* * *
10576851 TTTCAAGGAAAACTATCTCAAGCGAGATAAAAT
1 TTTCAAGGGAAACTATCTCAAGAGAGACAAAAT
10576884 CTTCTTTAAA
Statistics
Matches: 342, Mismatches: 67, Indels: 51
0.74 0.15 0.11
Matches are distributed among these distances:
30 23 0.07
31 18 0.05
32 1 0.00
33 6 0.02
34 3 0.01
35 2 0.01
36 92 0.27
37 15 0.04
38 54 0.16
39 118 0.35
40 2 0.01
41 3 0.01
42 5 0.01
ACGTcount: A:0.38, C:0.14, G:0.20, T:0.28
Consensus pattern (36 bp):
TTTCAAGGGAAACTATCTCAAGAGAGACAAAATTTG
Found at i:10576655 original size:67 final size:65
Alignment explanation
Indices: 10576480--10576677 Score: 263
Period size: 66 Copynumber: 3.0 Consensus size: 65
10576470 AGTGAGATAC
* *
10576480 ATTTCTTGTTTCAAGGGAAATTGTCTCAAGAGAGAGAAAATTTGTTTCAACGGAAACAGTCTCAA
1 ATTT-TTGTTTCAAGAGAAATTGTCTCAAGAGAGACAAAATTTGTTTCAA-GGAAACAGTCTCAA
10576545 AG
64 AG
* * *
10576547 ATTTTTGTTTCAAGAGAAATTGTCTTAAGGGAGACAAAATTTGTTTCAAGAGAAACA-TATTCAA
1 ATTTTTGTTTCAAGAGAAATTGTCTCAAGAGAGACAAAATTTGTTTCAAG-GAAACAGT-CTCAA
10576611 AG
64 AG
* * *
10576613 ATTTTGTGTTTCAAGAGAAACTGTCTCAAGCGAGACAAAATTTGTTTCAAGGGAAACTGTCTCAA
1 ATTTT-TGTTTCAAGAGAAATTGTCTCAAGAGAGACAAAATTTGTTTCAA-GGAAACAGTCTCAA
10576678 GCGAGACAAA
Statistics
Matches: 116, Mismatches: 10, Indels: 10
0.85 0.07 0.07
Matches are distributed among these distances:
65 2 0.02
66 58 0.50
67 54 0.47
68 2 0.02
ACGTcount: A:0.36, C:0.13, G:0.20, T:0.31
Consensus pattern (65 bp):
ATTTTTGTTTCAAGAGAAATTGTCTCAAGAGAGACAAAATTTGTTTCAAGGAAACAGTCTCAAAG
Found at i:10576709 original size:39 final size:39
Alignment explanation
Indices: 10576619--10576888 Score: 316
Period size: 39 Copynumber: 7.0 Consensus size: 39
10576609 AAAGATTTTG
* * *
10576619 TGTTTCAAGAGAAACTGTCTCAAGCGAGACAAAA--TT-
1 TGTTTCGAGGGAAACTATCTCAAGCGAGACAAAATCTTC
* *
10576655 TGTTTCAAGGGAAACTGTCTCAAGCGAGACAAAATCTTC
1 TGTTTCGAGGGAAACTATCTCAAGCGAGACAAAATCTTC
* *
10576694 TGTTTTGAGAGAAACTATCTCAAGCGAGACAAAATCTTC
1 TGTTTCGAGGGAAACTATCTCAAGCGAGACAAAATCTTC
* * *
10576733 TGTTTCGAGGGAAACTCTCTAAAGCGAGATAAAATCTTC
1 TGTTTCGAGGGAAACTATCTCAAGCGAGACAAAATCTTC
* **
10576772 TGTTTCGAGGGAAACTATCTCAAGCGAGATAAAAAAATT-
1 TGTTTCGAGGGAAACTATCTCAAGCGAGA-CAAAATCTTC
* * **
10576811 TGTTTCGAGGGAAACTATCTCAAGTGAGATAAAAAATT-
1 TGTTTCGAGGGAAACTATCTCAAGCGAGACAAAATCTTC
* * *
10576849 TGTTTCAAGGAAAACTATCTCAAGCGAGATAAAATCTTC
1 TGTTTCGAGGGAAACTATCTCAAGCGAGACAAAATCTTC
10576888 T
1 T
10576889 TTAAAAACAA
Statistics
Matches: 207, Mismatches: 22, Indels: 7
0.88 0.09 0.03
Matches are distributed among these distances:
36 33 0.16
38 43 0.21
39 125 0.60
40 6 0.03
ACGTcount: A:0.37, C:0.16, G:0.19, T:0.27
Consensus pattern (39 bp):
TGTTTCGAGGGAAACTATCTCAAGCGAGACAAAATCTTC
Found at i:10577008 original size:76 final size:76
Alignment explanation
Indices: 10576891--10577053 Score: 208
Period size: 76 Copynumber: 2.1 Consensus size: 76
10576881 AATCTTCTTT
* *
10576891 AAAAACAATCTTGAGTGAAATGAAATGTCTTCTTTCGAGTAAAAA-TCGTCTCAAACGAGACAAA
1 AAAAACAATCTTGAGTGAAATGAAATGTCTTCTTTCAAGTAAAAACT-ATCTCAAACGAGACAAA
10576955 TCT-TGTTTTAAG
65 T-TATGTTTTAAG
* * **
10576967 AAAAACAATCTTTAGTGAAAT-AAACCT-TCTTGTTTCAAGTAAAAACTATCTCAAGTGAGACAA
1 AAAAACAATCTTGAGTGAAATGAAA--TGTCTTCTTTCAAGTAAAAACTATCTCAAACGAGACAA
10577030 ATTATGTTTTAAG
64 ATTATGTTTTAAG
10577043 AAAAACAATCT
1 AAAAACAATCT
10577054 CAAGTGAGAT
Statistics
Matches: 77, Mismatches: 6, Indels: 8
0.85 0.07 0.09
Matches are distributed among these distances:
75 4 0.05
76 71 0.92
77 2 0.03
ACGTcount: A:0.42, C:0.14, G:0.13, T:0.31
Consensus pattern (76 bp):
AAAAACAATCTTGAGTGAAATGAAATGTCTTCTTTCAAGTAAAAACTATCTCAAACGAGACAAAT
TATGTTTTAAG
Found at i:10577024 original size:40 final size:37
Alignment explanation
Indices: 10576822--10577067 Score: 130
Period size: 36 Copynumber: 6.6 Consensus size: 37
10576812 GTTTCGAGGG
* * * *
10576822 AAACTATCTCAAGTGAGATAAAAAAT-TTGTTTCAAGGA
1 AAACAATCTCAAGTGAGAT--AAATTCTTGTTTTAAGAA
* * * *
10576860 AAACTATCTCAAGCGAGATAAAATCTT-CTTT---AA
1 AAACAATCTCAAGTGAGATAAATTCTTGTTTTAAGAA
** * * **
10576893 AAACAATCTTGAGTGAAATGAAATGTCTTCTTTCGAGTAA
1 AAACAATCTCAAGTGAGAT-AAAT-TCTTGTTTTAAG-AA
* ** *
10576933 AAATC-GTCTCAAACGAGACAAA-TCTTGTTTTAAGAA
1 AAA-CAATCTCAAGTGAGATAAATTCTTGTTTTAAGAA
** * *
10576969 AAACAATCTTTAGTGAAATAAACCTTCTTGTTTCAAGTAA
1 AAACAATCTCAAGTGAGATAAA--TTCTTGTTTTAAG-AA
* * *
10577009 AAACTATCTCAAGTGAGACAAATT-ATGTTTTAAGAA
1 AAACAATCTCAAGTGAGATAAATTCTTGTTTTAAGAA
10577045 AAACAATCTCAAGTGAGATAAAT
1 AAACAATCTCAAGTGAGATAAAT
10577068 CCTCTGTATT
Statistics
Matches: 155, Mismatches: 39, Indels: 30
0.69 0.17 0.13
Matches are distributed among these distances:
33 15 0.10
34 3 0.02
35 5 0.03
36 47 0.30
37 19 0.12
38 20 0.13
39 14 0.09
40 31 0.20
41 1 0.01
ACGTcount: A:0.43, C:0.14, G:0.13, T:0.30
Consensus pattern (37 bp):
AAACAATCTCAAGTGAGATAAATTCTTGTTTTAAGAA
Found at i:10582505 original size:17 final size:18
Alignment explanation
Indices: 10582483--10582525 Score: 54
Period size: 17 Copynumber: 2.4 Consensus size: 18
10582473 TAAGGATTAA
10582483 ATTAAAAG-AA-TATAAAT
1 ATTAAAAGTAATTA-AAAT
10582500 ATTAAAAGTAATTAAAAT
1 ATTAAAAGTAATTAAAAT
10582518 ATGTAAAA
1 AT-TAAAA
10582526 TGACTAAAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
17 8 0.35
18 8 0.35
19 7 0.30
ACGTcount: A:0.63, C:0.00, G:0.07, T:0.30
Consensus pattern (18 bp):
ATTAAAAGTAATTAAAAT
Found at i:10585203 original size:38 final size:38
Alignment explanation
Indices: 10585150--10585231 Score: 128
Period size: 38 Copynumber: 2.2 Consensus size: 38
10585140 TAATCTTACG
* *
10585150 AGCTTATGGATTTAAATGGTAAGTATATTAGTAAAATA
1 AGCTTATGAAATTAAATGGTAAGTATATTAGTAAAATA
* *
10585188 AGCTTATGAAATTAAATGGTAAGTGTATTGGTAAAATA
1 AGCTTATGAAATTAAATGGTAAGTATATTAGTAAAATA
10585226 AGCTTA
1 AGCTTA
10585232 CGAGCTTATG
Statistics
Matches: 40, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
38 40 1.00
ACGTcount: A:0.41, C:0.04, G:0.20, T:0.35
Consensus pattern (38 bp):
AGCTTATGAAATTAAATGGTAAGTATATTAGTAAAATA
Found at i:10585253 original size:45 final size:45
Alignment explanation
Indices: 10585188--10585300 Score: 190
Period size: 45 Copynumber: 2.5 Consensus size: 45
10585178 TAGTAAAATA
*
10585188 AGCTTATGAAATTAAATGGTAAGTGTATTGGTAAAATAAGCTTACG
1 AGCTTATGGAA-TAAATGGTAAGTGTATTGGTAAAATAAGCTTACG
*
10585234 AGCTTATGGAATAAATGGTAAGTGTATTGGTAAAATAAGCTTATG
1 AGCTTATGGAATAAATGGTAAGTGTATTGGTAAAATAAGCTTACG
*
10585279 AGCTTATGGAATAAATGATAAG
1 AGCTTATGGAATAAATGGTAAG
10585301 AAATTTTATA
Statistics
Matches: 64, Mismatches: 3, Indels: 1
0.94 0.04 0.01
Matches are distributed among these distances:
45 54 0.84
46 10 0.16
ACGTcount: A:0.40, C:0.05, G:0.23, T:0.32
Consensus pattern (45 bp):
AGCTTATGGAATAAATGGTAAGTGTATTGGTAAAATAAGCTTACG
Found at i:10587043 original size:23 final size:22
Alignment explanation
Indices: 10586991--10587031 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
10586981 GGTCACTGGT
*
10586991 ATAATTTATCCTTTTATTTTAA
1 ATAATTTATCCTTTAATTTTAA
10587013 ATAATTTA-CCTTTAATTTT
1 ATAATTTATCCTTTAATTTT
10587032 TTAATCAATT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 10 0.56
22 8 0.44
ACGTcount: A:0.32, C:0.10, G:0.00, T:0.59
Consensus pattern (22 bp):
ATAATTTATCCTTTAATTTTAA
Found at i:10587438 original size:19 final size:19
Alignment explanation
Indices: 10587410--10587452 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 19
10587400 AATTCTAATC
* * *
10587410 ATTTTCTATTTTATGTATT
1 ATTTTTTATTTCATATATT
10587429 ATTTTTTATTTCATATATT
1 ATTTTTTATTTCATATATT
10587448 -TTTTT
1 ATTTTT
10587453 ATTAAGCAAC
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
18 5 0.24
19 16 0.76
ACGTcount: A:0.21, C:0.05, G:0.02, T:0.72
Consensus pattern (19 bp):
ATTTTTTATTTCATATATT
Found at i:10588659 original size:18 final size:17
Alignment explanation
Indices: 10588631--10588664 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
10588621 TTCAAATTAA
*
10588631 TTTATGTTAATTTTTAT
1 TTTATGTTAATATTTAT
10588648 TTTATCGTTAATATTTA
1 TTTAT-GTTAATATTTA
10588665 ATTAAAAAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 5 0.33
18 10 0.67
ACGTcount: A:0.26, C:0.03, G:0.06, T:0.65
Consensus pattern (17 bp):
TTTATGTTAATATTTAT
Found at i:10592154 original size:30 final size:31
Alignment explanation
Indices: 10592116--10592184 Score: 88
Period size: 31 Copynumber: 2.2 Consensus size: 31
10592106 AAAAAAATAA
10592116 TATATATATATAA-TATAAGGTTATA-TATAAAC
1 TATATATATA-AACTAT-A-GTTATATTATAAAC
*
10592148 TATATATATAAACTATATTTATATTATAAAC
1 TATATATATAAACTATAGTTATATTATAAAC
10592179 TATATA
1 TATATA
10592185 ATTATTATAA
Statistics
Matches: 34, Mismatches: 1, Indels: 5
0.85 0.03 0.12
Matches are distributed among these distances:
30 5 0.15
31 16 0.47
32 13 0.38
ACGTcount: A:0.49, C:0.04, G:0.03, T:0.43
Consensus pattern (31 bp):
TATATATATAAACTATAGTTATATTATAAAC
Found at i:10592177 original size:18 final size:18
Alignment explanation
Indices: 10592148--10592201 Score: 65
Period size: 18 Copynumber: 2.9 Consensus size: 18
10592138 ATATATAAAC
10592148 TATATATATAAACTATATT
1 TATAT-TATAAACTATATT
10592167 TATATTATAAACTATA-T
1 TATATTATAAACTATATT
* *
10592184 AATTATTATAAGCTATAT
1 TA-TATTATAAACTATAT
10592202 ACATAAATTA
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
17 2 0.06
18 24 0.77
19 5 0.16
ACGTcount: A:0.46, C:0.06, G:0.02, T:0.46
Consensus pattern (18 bp):
TATATTATAAACTATATT
Found at i:10592211 original size:20 final size:18
Alignment explanation
Indices: 10592154--10592212 Score: 57
Period size: 18 Copynumber: 3.2 Consensus size: 18
10592144 AAACTATATA
*
10592154 TATAAACTATAT-TTATAT
1 TATAAACTATATAATA-AT
*
10592172 TATAAACTATATAATTAT
1 TATAAACTATATAATAAT
*
10592190 TATAAGCTATATACATAAAT
1 TATAAACTATATA-AT-AAT
10592210 TAT
1 TAT
10592213 GTTTATATGA
Statistics
Matches: 34, Mismatches: 4, Indels: 4
0.81 0.10 0.10
Matches are distributed among these distances:
18 26 0.76
19 3 0.09
20 5 0.15
ACGTcount: A:0.47, C:0.07, G:0.02, T:0.44
Consensus pattern (18 bp):
TATAAACTATATAATAAT
Found at i:10592238 original size:13 final size:13
Alignment explanation
Indices: 10592137--10592269 Score: 78
Period size: 13 Copynumber: 10.2 Consensus size: 13
10592127 AATATAAGGT
10592137 TATATATAAACTA
1 TATATATAAACTA
10592150 TATATATAAACTA
1 TATATATAAACTA
* *
10592163 TAT-T-TATATTA
1 TATATATAAACTA
*
10592174 TAAACTATATAA-T-
1 TATA-TATA-AACTA
*
10592187 TAT-TATAAGCTA
1 TATATATAAACTA
* *
10592199 TATACATAAATTA
1 TATATATAAACTA
* *
10592212 TGTTTATATGAACTA
1 --TATATATAAACTA
*
10592227 TACATATAAACTA
1 TATATATAAACTA
* *
10592240 TGTATAAAAACTA
1 TATATATAAACTA
10592253 TATATGTATAAACTA
1 TATA--TATAAACTA
10592268 TA
1 TA
10592270 AAAAGTATAT
Statistics
Matches: 88, Mismatches: 21, Indels: 20
0.68 0.16 0.16
Matches are distributed among these distances:
10 1 0.01
11 12 0.14
12 4 0.05
13 48 0.55
14 3 0.03
15 20 0.23
ACGTcount: A:0.48, C:0.08, G:0.04, T:0.41
Consensus pattern (13 bp):
TATATATAAACTA
Found at i:10592287 original size:25 final size:24
Alignment explanation
Indices: 10592242--10592295 Score: 81
Period size: 24 Copynumber: 2.2 Consensus size: 24
10592232 ATAAACTATG
10592242 TATAAAAACTATATATGTATAAAC
1 TATAAAAACTATATATGTATAAAC
* *
10592266 TATAAAAAGTATATAGTTTATAAAC
1 TATAAAAACTATATA-TGTATAAAC
10592291 TATAA
1 TATAA
10592296 TTTATATTAA
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
24 14 0.52
25 13 0.48
ACGTcount: A:0.54, C:0.06, G:0.06, T:0.35
Consensus pattern (24 bp):
TATAAAAACTATATATGTATAAAC
Found at i:10592293 original size:40 final size:41
Alignment explanation
Indices: 10592247--10592381 Score: 116
Period size: 40 Copynumber: 3.2 Consensus size: 41
10592237 CTATGTATAA
10592247 AAACTATATATGTATAAACTATA-AAAAGTATATAGTTTAT
1 AAACTATATATGTATAAACTATATAAAAGTATATAGTTTAT
* * * **
10592287 AAACTATA-ATTTATATTAA-TATAGTATATATATGTGTGTATGTACAT
1 AAACTATATATGTATA--AACTATA-TA-A-A-A-GTATATA-GTTTAT
10592334 AAACTATATATGTATAAACTATATAAAA-TATATAGTTTAT
1 AAACTATATATGTATAAACTATATAAAAGTATATAGTTTAT
*
10592374 AAATTATA
1 AAACTATA
10592382 ATTTATATTA
Statistics
Matches: 73, Mismatches: 11, Indels: 22
0.69 0.10 0.21
Matches are distributed among these distances:
39 6 0.08
40 23 0.32
41 6 0.08
42 1 0.01
43 2 0.03
44 2 0.03
45 2 0.03
46 9 0.12
47 16 0.22
48 6 0.08
ACGTcount: A:0.47, C:0.04, G:0.07, T:0.41
Consensus pattern (41 bp):
AAACTATATATGTATAAACTATATAAAAGTATATAGTTTAT
Found at i:10592330 original size:87 final size:87
Alignment explanation
Indices: 10592238--10592414 Score: 302
Period size: 87 Copynumber: 2.0 Consensus size: 87
10592228 ACATATAAAC
*
10592238 TATGTATAAAAACTATATATGTATAAACTATA-AAAAGTATATAGTTTATAAACTATAATTTATA
1 TATGTACAAAAACTATATATGTATAAACTATATAAAA-TATATAGTTTATAAACTATAATTTATA
*
10592302 TTAATATAGTATATATATGTGTG
65 TTAATATAGTATATATATGTATG
* *
10592325 TATGTACATAAACTATATATGTATAAACTATATAAAATATATAGTTTATAAATTATAATTTATAT
1 TATGTACAAAAACTATATATGTATAAACTATATAAAATATATAGTTTATAAACTATAATTTATAT
10592390 TAATATAGTATATATATGTATG
66 TAATATAGTATATATATGTATG
10592412 TAT
1 TAT
10592415 AACTAATATA
Statistics
Matches: 85, Mismatches: 4, Indels: 2
0.93 0.04 0.02
Matches are distributed among these distances:
87 81 0.95
88 4 0.05
ACGTcount: A:0.46, C:0.03, G:0.08, T:0.43
Consensus pattern (87 bp):
TATGTACAAAAACTATATATGTATAAACTATATAAAATATATAGTTTATAAACTATAATTTATAT
TAATATAGTATATATATGTATG
Found at i:10592336 original size:47 final size:43
Alignment explanation
Indices: 10592283--10592414 Score: 121
Period size: 47 Copynumber: 3.0 Consensus size: 43
10592273 AGTATATAGT
10592283 TTATAAACTATAATTTATATTAATATAGTATATATATGTGTGTA
1 TTATAAACTATAATTTATATTAATATAGTATATATATGT-TGTA
* * * *
10592327 TGTACATAAACTATATATGTATA--AACTATA-TA-AAATATATAGT-
1 T-T--ATAAACTATA-ATTTATATTAA-TATAGTATATATATGTTGTA
*
10592370 TTATAAATTATAATTTATATTAATATAGTATATATATGTATGTA
1 TTATAAACTATAATTTATATTAATATAGTATATATATGT-TGTA
10592414 T
1 T
10592415 AACTAATATA
Statistics
Matches: 68, Mismatches: 9, Indels: 22
0.69 0.09 0.22
Matches are distributed among these distances:
39 6 0.09
40 13 0.19
41 4 0.06
42 7 0.10
43 3 0.04
44 4 0.06
45 7 0.10
46 4 0.06
47 14 0.21
48 6 0.09
ACGTcount: A:0.44, C:0.03, G:0.08, T:0.45
Consensus pattern (43 bp):
TTATAAACTATAATTTATATTAATATAGTATATATATGTTGTA
Found at i:10592617 original size:16 final size:16
Alignment explanation
Indices: 10592596--10592627 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
10592586 TCATATATAG
10592596 TTTATATAAATAATAT
1 TTTATATAAATAATAT
*
10592612 TTTATATAAATTATAT
1 TTTATATAAATAATAT
10592628 ATGTAACATT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (16 bp):
TTTATATAAATAATAT
Found at i:10592749 original size:57 final size:58
Alignment explanation
Indices: 10592675--10592830 Score: 178
Period size: 57 Copynumber: 2.7 Consensus size: 58
10592665 TATATGTAAC
* *
10592675 CTATAGTATATGTATATATGTAAACTATATAAGTAACTTATAGTACATGTATGCATA-AA-
1 CTAT-GTATATGTATATA--TAAACTATATAAGTAACCTATAGTACATGTATACATACAAT
* * *
10592734 CTATGTATA-GTATATATAAGCTATATATA-TAACCTATAGTATATGTATATATACAAT
1 CTATGTATATGTATATATAAACTATATA-AGTAACCTATAGTACATGTATACATACAAT
* *
10592791 CTATTTATATGT-TATATAAACTATATATGTAACCTATAGT
1 CTATGTATATGTATATATAAACTATATAAGTAACCTATAGT
10592831 TTATAAACAA
Statistics
Matches: 84, Mismatches: 8, Indels: 12
0.81 0.08 0.12
Matches are distributed among these distances:
55 30 0.36
56 3 0.04
57 40 0.48
58 7 0.08
59 4 0.05
ACGTcount: A:0.41, C:0.09, G:0.10, T:0.40
Consensus pattern (58 bp):
CTATGTATATGTATATATAAACTATATAAGTAACCTATAGTACATGTATACATACAAT
Found at i:10592762 original size:13 final size:13
Alignment explanation
Indices: 10592744--10592777 Score: 50
Period size: 13 Copynumber: 2.5 Consensus size: 13
10592734 CTATGTATAG
*
10592744 TATATATAAGCTA
1 TATATATAACCTA
10592757 TATATATAACCTA
1 TATATATAACCTA
10592770 TAGTATAT
1 TA-TATAT
10592778 GTATATATAC
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 14 0.74
14 5 0.26
ACGTcount: A:0.44, C:0.09, G:0.06, T:0.41
Consensus pattern (13 bp):
TATATATAACCTA
Found at i:10592814 original size:20 final size:22
Alignment explanation
Indices: 10592757--10592815 Score: 68
Period size: 22 Copynumber: 2.7 Consensus size: 22
10592747 ATATAAGCTA
*
10592757 TATATATAACCTATAGTATATG
1 TATATATAAACTATAGTATATG
*
10592779 TATATATACAATCTAT-TTATATG
1 TATATATA-AA-CTATAGTATATG
10592802 T-TATATAAACTATA
1 TATATATAAACTATA
10592816 TATGTAACCT
Statistics
Matches: 32, Mismatches: 2, Indels: 7
0.78 0.05 0.17
Matches are distributed among these distances:
20 4 0.12
21 2 0.06
22 14 0.44
23 8 0.25
24 4 0.12
ACGTcount: A:0.42, C:0.08, G:0.05, T:0.44
Consensus pattern (22 bp):
TATATATAAACTATAGTATATG
Found at i:10592849 original size:21 final size:21
Alignment explanation
Indices: 10592825--10592912 Score: 81
Period size: 21 Copynumber: 4.2 Consensus size: 21
10592815 ATATGTAACC
* *
10592825 TATAGTTTATAAACAATAGTT
1 TATAATTTATAAACTATAGTT
* *
10592846 TATATTATTGAT-TA-TATAGTT
1 TATA--ATTTATAAACTATAGTT
* * *
10592867 TATACTTTATAACCTATAGTA
1 TATAATTTATAAACTATAGTT
10592888 TATAATTTATAAACTATAGTT
1 TATAATTTATAAACTATAGTT
10592909 TATA
1 TATA
10592913 TTAATGTTAA
Statistics
Matches: 51, Mismatches: 12, Indels: 8
0.72 0.17 0.11
Matches are distributed among these distances:
19 4 0.08
21 42 0.82
22 1 0.02
23 4 0.08
ACGTcount: A:0.40, C:0.06, G:0.07, T:0.48
Consensus pattern (21 bp):
TATAATTTATAAACTATAGTT
Found at i:10592935 original size:31 final size:31
Alignment explanation
Indices: 10592899--10593013 Score: 88
Period size: 31 Copynumber: 3.5 Consensus size: 31
10592889 ATAATTTATA
10592899 AACTATAGTTTATATTAATGTTAATTATCTT
1 AACTATAGTTTATATTAATGTTAATTATCTT
* * *
10592930 AACTATAATTTATATTACTATAGTATATAGT-TCATA
1 AACTATAGTTTATATTA--AT-GT-TA-ATTATC-TT
* * *
10592966 AACTATACTATACTATATTAATATTAATTATATT
1 AACTATAGT-T--TATATTAATGTTAATTATCTT
10593000 AACTATAGTTTATA
1 AACTATAGTTTATA
10593014 AACTATACTA
Statistics
Matches: 65, Mismatches: 9, Indels: 20
0.69 0.10 0.21
Matches are distributed among these distances:
31 20 0.31
33 3 0.05
34 13 0.20
35 7 0.11
36 12 0.18
37 3 0.05
39 7 0.11
ACGTcount: A:0.41, C:0.08, G:0.04, T:0.47
Consensus pattern (31 bp):
AACTATAGTTTATATTAATGTTAATTATCTT
Found at i:10592949 original size:15 final size:15
Alignment explanation
Indices: 10592888--10592951 Score: 51
Period size: 15 Copynumber: 4.3 Consensus size: 15
10592878 ACCTATAGTA
*
10592888 TATAATTTATA-AAC
1 TATAATTTATATTAC
* *
10592902 TATAGTTTATATTAA
1 TATAATTTATATTAC
* *
10592917 TGTTAA-TTATCTTAAC
1 T-ATAATTTATATT-AC
10592933 TATAATTTATATTAC
1 TATAATTTATATTAC
10592948 TATA
1 TATA
10592952 GTATATAGTT
Statistics
Matches: 37, Mismatches: 9, Indels: 7
0.70 0.17 0.13
Matches are distributed among these distances:
14 10 0.27
15 17 0.46
16 10 0.27
ACGTcount: A:0.41, C:0.06, G:0.03, T:0.50
Consensus pattern (15 bp):
TATAATTTATATTAC
Found at i:10593032 original size:21 final size:21
Alignment explanation
Indices: 10592867--10593047 Score: 80
Period size: 21 Copynumber: 8.1 Consensus size: 21
10592857 TTATATAGTT
* * *
10592867 TATACTTTATAACCTATAGTA
1 TATAATTTATAAACTATACTA
*
10592888 TATAATTTATAAACTATAGTTTA
1 TATAATTTATAAACTATA--CTA
* *
10592911 TATTAATGT-T-AATTAT-CTTAA
1 TA-TAATTTATAAACTATAC-T-A
* *
10592932 CTATAATTTATATTACTATAGTA
1 -TATAATTTATA-AACTATACTA
* *
10592955 TATAGTTCATAAACTATACTA
1 TATAATTTATAAACTATACTA
* * *
10592976 TACTATATTAATATTAATTATATTAA
1 TA-TA-ATT--TATAAACTATACT-A
*
10593002 CTATAGTTTATAAACTATACTA
1 -TATAATTTATAAACTATACTA
* *
10593024 TATAATTTATAAAATATATTA
1 TATAATTTATAAACTATACTA
10593045 TAT
1 TAT
10593048 TAATATTAAT
Statistics
Matches: 118, Mismatches: 26, Indels: 32
0.67 0.15 0.18
Matches are distributed among these distances:
20 1 0.01
21 53 0.45
22 20 0.17
23 18 0.15
24 10 0.08
25 11 0.09
26 3 0.03
27 2 0.02
ACGTcount: A:0.43, C:0.08, G:0.03, T:0.46
Consensus pattern (21 bp):
TATAATTTATAAACTATACTA
Found at i:10593070 original size:29 final size:30
Alignment explanation
Indices: 10592979--10593089 Score: 91
Period size: 31 Copynumber: 3.5 Consensus size: 30
10592969 TATACTATAC
* * *
10592979 TATATTAATATTAATTATATTAACTATAGTT
1 TATATTAATATTAATTTTATAAAATATA-TT
*
10593010 TATAAACTATACTATATAA-TTTATAAAATATA-T
1 TAT--A-T-TAATAT-TAATTTTATAAAATATATT
* *
10593043 TATATTAATATTAATTTTATAGACTATATTT
1 TATATTAATATTAATTTTATAAAATATA-TT
10593074 TATATTAATATTAATT
1 TATATTAATATTAATT
10593090 ACAAATTATA
Statistics
Matches: 65, Mismatches: 7, Indels: 16
0.74 0.08 0.18
Matches are distributed among these distances:
28 3 0.05
29 16 0.25
30 1 0.02
31 21 0.32
33 5 0.08
34 1 0.02
35 15 0.23
36 3 0.05
ACGTcount: A:0.44, C:0.04, G:0.02, T:0.50
Consensus pattern (30 bp):
TATATTAATATTAATTTTATAAAATATATT
Found at i:10593099 original size:36 final size:30
Alignment explanation
Indices: 10592979--10593118 Score: 81
Period size: 31 Copynumber: 4.4 Consensus size: 30
10592969 TATACTATAC
* * *
10592979 TATATTAATATTAATTATATTAACTATAGTT
1 TATATTAATATTAATTTTATAAACCATA-TT
*
10593010 TATAAACTATACTATATAA-TTTATAAA--ATATAT
1 TAT--A-T-TAATAT-TAATTTTATAAACCATAT-T
* *
10593043 TATATTAATATTAATTTTATAGACTATATTT
1 TATATTAATATTAATTTTATAAACCATA-TT
10593074 TATATTAATATTAATTACAAATTATAAACCATA-T
1 TATATTAATATTAATT-----TTATAAACCATATT
10593108 TATATTAATAT
1 TATATTAATAT
10593119 AAGTTAATAT
Statistics
Matches: 87, Mismatches: 7, Indels: 27
0.72 0.06 0.22
Matches are distributed among these distances:
28 3 0.03
29 12 0.14
30 1 0.01
31 24 0.28
32 2 0.02
33 8 0.09
34 13 0.15
35 11 0.13
36 13 0.15
ACGTcount: A:0.46, C:0.05, G:0.01, T:0.48
Consensus pattern (30 bp):
TATATTAATATTAATTTTATAAACCATATT
Found at i:10593101 original size:134 final size:135
Alignment explanation
Indices: 10592867--10593111 Score: 302
Period size: 134 Copynumber: 1.8 Consensus size: 135
10592857 TTATATAGTT
* * * *
10592867 TATACTTTATAACCTATAGTATATAATTTATAAACTATAGTTTATATTAATGTTAATTATCTTAA
1 TATACTTTATAAACTATACTATATAATTTATAAAATATAG-TTATATTAATATTAATTATCTTAA
* * * * *
10592932 CTATAATTTATATTACTATAGTATATAGTTCATAAACTATACTATACTATATTAATATTAATTAT
65 CTATAATTTATATTAATATAATATAAAATTCATAAACCATACTATACTATATTAATATTAATTAT
10592997 ATTAAC
130 ATTAAC
*
10593003 TATAGTTTATAAACTATACTATATAATTTATAAAATATA-TTATATTAATATTAATT-T-TATAG
1 TATACTTTATAAACTATACTATATAATTTATAAAATATAGTTATATTAATATTAATTATCT-TA-
* *
10593065 ACTATATTTTATATTAATATTAAT-TACAAATT-ATAAACCATATTATA
64 ACTATAATTTATATTAATA-TAATATA-AAATTCATAAACCATACTATA
10593112 TTAATATAAG
Statistics
Matches: 93, Mismatches: 12, Indels: 10
0.81 0.10 0.09
Matches are distributed among these distances:
132 1 0.01
133 3 0.03
134 48 0.52
135 6 0.06
136 35 0.38
ACGTcount: A:0.43, C:0.07, G:0.03, T:0.47
Consensus pattern (135 bp):
TATACTTTATAAACTATACTATATAATTTATAAAATATAGTTATATTAATATTAATTATCTTAAC
TATAATTTATATTAATATAATATAAAATTCATAAACCATACTATACTATATTAATATTAATTATA
TTAAC
Done.