Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01000186.1 Hibiscus syriacus cultivar Beakdansim tig00000329_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: 3152351
ACGTcount: A:0.33, C:0.18, G:0.17, T:0.33
File 8 of 17
Found at i:1449286 original size:60 final size:59
Alignment explanation
Indices: 1449195--1449375 Score: 224
Period size: 60 Copynumber: 3.0 Consensus size: 59
1449185 TTTTACTAAC
*
1449195 TTAAGTTAATAATAAATATATTTTTTAAGTTAATAAAAGAATAAAATATATATTTGAAG
1 TTAAGATAATAATAAATATATTTTTTAAGTTAATAAAAGAATAAAATATATATTTGAAG
* *
1449254 TTGAGATAATAATAAATTATATATTTTAAGTTAATAAAAGAATTATATATATATATATATTGAAG
1 TTAAGATAATAATAAA-TATATTTTTTAAGTTAATAAAAGAA-TA-A-A-ATATATAT-TTGAAG
* * * *
1449319 TTAAGAT-ATAACAAATATATTTTTTAAGTTAGT-AAA-AATAAAATATATTTTTAAAG
1 TTAAGATAATAATAAATATATTTTTTAAGTTAATAAAAGAATAAAATATATATTTGAAG
1449375 T
1 T
1449376 CATATTAATA
Statistics
Matches: 107, Mismatches: 9, Indels: 15
0.82 0.07 0.11
Matches are distributed among these distances:
56 6 0.06
57 7 0.07
58 1 0.01
59 15 0.14
60 26 0.24
61 4 0.04
62 4 0.04
63 17 0.16
64 15 0.14
65 12 0.11
ACGTcount: A:0.50, C:0.01, G:0.08, T:0.41
Consensus pattern (59 bp):
TTAAGATAATAATAAATATATTTTTTAAGTTAATAAAAGAATAAAATATATATTTGAAG
Found at i:1451404 original size:34 final size:34
Alignment explanation
Indices: 1451361--1451485 Score: 129
Period size: 34 Copynumber: 3.8 Consensus size: 34
1451351 TTCGTCCTAC
1451361 TAGGATTCAAACTCCTAAAAATAGGATAGAATTT
1 TAGGATTCAAACTCCTAAAAATAGGATAGAATTT
* *
1451395 TAGGATTCAAACTCCTAAAGATATGATAGAATTTT
1 TAGGATTCAAACTCCTAAAAATAGGATAGAA-TTT
1451430 GCTAGGATTC--A-----AAAAATAGGATAGAATTT
1 --TAGGATTCAAACTCCTAAAAATAGGATAGAATTT
* * *
1451459 TATGATTTAAACTCCTAAAGATAGGAT
1 TAGGATTCAAACTCCTAAAAATAGGAT
1451486 CCACAAGCAC
Statistics
Matches: 74, Mismatches: 7, Indels: 20
0.73 0.07 0.20
Matches are distributed among these distances:
27 6 0.08
29 4 0.05
30 13 0.18
34 39 0.53
35 4 0.05
37 8 0.11
ACGTcount: A:0.42, C:0.10, G:0.16, T:0.31
Consensus pattern (34 bp):
TAGGATTCAAACTCCTAAAAATAGGATAGAATTT
Found at i:1451902 original size:35 final size:35
Alignment explanation
Indices: 1451854--1451991 Score: 109
Period size: 37 Copynumber: 3.8 Consensus size: 35
1451844 TTATTATCAG
*
1451854 TTTTATTAATTTATATATATATTTACTTTTTTTTTT
1 TTTTATT-TTTTATATATATATTTACTTTTTTTTTT
*
1451890 TTTTATTTTTTATATATATTATTTTACTTTTTTATTT
1 TTTTATTTTTTATATATA-TA-TTTACTTTTTTTTTT
* * * * * *
1451927 ATTTGTTTTATT-TCTATTTTTTTTCTTTTTCTTCTTTT
1 TTTTATTTT-TTATATATATATTTAC-TTTT-TT-TTTT
*
1451965 TCTTTATTTTTTATATTTAT-TTTACTT
1 T-TTTATTTTTTATATATATATTTACTT
1451992 ACTATTTTAT
Statistics
Matches: 79, Mismatches: 15, Indels: 15
0.72 0.14 0.14
Matches are distributed among these distances:
35 14 0.18
36 14 0.18
37 29 0.37
38 11 0.14
39 11 0.14
ACGTcount: A:0.18, C:0.06, G:0.01, T:0.75
Consensus pattern (35 bp):
TTTTATTTTTTATATATATATTTACTTTTTTTTTT
Found at i:1451904 original size:29 final size:31
Alignment explanation
Indices: 1451871--1451956 Score: 90
Period size: 32 Copynumber: 2.8 Consensus size: 31
1451861 AATTTATATA
1451871 TATATTTACT-TTTTTTTTTTTTTATTT-TT
1 TATATTTACTATTTTTTTTTTTTTATTTGTT
* *
1451900 TATATATATTATTTTACTTTTTTATTTATTTGTT
1 TATATTTACTATTTT--TTTTTT-TTTATTTGTT
1451934 T-TATTT-CTATTTTTTTTCTTTTT
1 TATATTTACTATTTTTTTT-TTTTT
1451957 CTTCTTTTTC
Statistics
Matches: 47, Mismatches: 4, Indels: 11
0.76 0.06 0.18
Matches are distributed among these distances:
29 8 0.17
30 11 0.23
31 2 0.04
32 12 0.26
33 11 0.23
34 3 0.06
ACGTcount: A:0.16, C:0.05, G:0.01, T:0.78
Consensus pattern (31 bp):
TATATTTACTATTTTTTTTTTTTTATTTGTT
Found at i:1451909 original size:33 final size:32
Alignment explanation
Indices: 1451854--1451930 Score: 86
Period size: 33 Copynumber: 2.4 Consensus size: 32
1451844 TTATTATCAG
* *
1451854 TTTTA-TTAATTTATATATATATTTACTTTT-TT
1 TTTTATTTATTTTTTATATATA-TTA-TTTTATT
*
1451886 TTTTTTTTATTTTTTATATATATTATTTTACTT
1 TTTTATTTATTTTTTATATATATTATTTTA-TT
1451919 TTTTATTTATTT
1 TTTTATTTATTT
1451931 GTTTTATTTC
Statistics
Matches: 38, Mismatches: 4, Indels: 5
0.81 0.09 0.11
Matches are distributed among these distances:
31 4 0.11
32 7 0.18
33 27 0.71
ACGTcount: A:0.23, C:0.03, G:0.00, T:0.74
Consensus pattern (32 bp):
TTTTATTTATTTTTTATATATATTATTTTATT
Found at i:1451935 original size:21 final size:21
Alignment explanation
Indices: 1451890--1451939 Score: 66
Period size: 21 Copynumber: 2.4 Consensus size: 21
1451880 TTTTTTTTTT
1451890 TTTTATTTTTTATATATATTA
1 TTTTATTTTTTATATATATTA
* *
1451911 TTTTACTTTTTTATTTAT-TTG
1 TTTTA-TTTTTTATATATATTA
1451932 TTTTATTT
1 TTTTATTT
1451940 CTATTTTTTT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
20 3 0.12
21 12 0.46
22 11 0.42
ACGTcount: A:0.20, C:0.02, G:0.02, T:0.76
Consensus pattern (21 bp):
TTTTATTTTTTATATATATTA
Found at i:1452092 original size:14 final size:14
Alignment explanation
Indices: 1452073--1452100 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
1452063 TTTATTTATT
1452073 TTACCTTTTATCTA
1 TTACCTTTTATCTA
1452087 TTACCTTTTATCTA
1 TTACCTTTTATCTA
1452101 ACATGGTTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.21, C:0.21, G:0.00, T:0.57
Consensus pattern (14 bp):
TTACCTTTTATCTA
Found at i:1454045 original size:18 final size:18
Alignment explanation
Indices: 1454022--1454061 Score: 71
Period size: 18 Copynumber: 2.2 Consensus size: 18
1454012 TTCCTTCAAG
1454022 TCTGGATTCACATCCACT
1 TCTGGATTCACATCCACT
*
1454040 TCTGGATTCACATCTACT
1 TCTGGATTCACATCCACT
1454058 TCTG
1 TCTG
1454062 AAAGACTAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.20, C:0.30, G:0.12, T:0.38
Consensus pattern (18 bp):
TCTGGATTCACATCCACT
Found at i:1454595 original size:8 final size:8
Alignment explanation
Indices: 1454582--1454620 Score: 53
Period size: 8 Copynumber: 5.0 Consensus size: 8
1454572 GAACATTTCA
*
1454582 TGCATTCT
1 TGCATTTT
1454590 TGCA-TTT
1 TGCATTTT
1454597 TGCATTTT
1 TGCATTTT
*
1454605 TGCCTTTT
1 TGCATTTT
1454613 TGCATTTT
1 TGCATTTT
1454621 CATCTACATT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
7 6 0.22
8 21 0.78
ACGTcount: A:0.10, C:0.18, G:0.13, T:0.59
Consensus pattern (8 bp):
TGCATTTT
Found at i:1455770 original size:22 final size:21
Alignment explanation
Indices: 1455745--1455808 Score: 58
Period size: 23 Copynumber: 2.9 Consensus size: 21
1455735 AACAAAAAGG
1455745 GCAAAAAGAAAAAAGAAAAGAA
1 GCAAAAAGAAAAAA-AAAAGAA
* *
1455767 GCAAAAAAGGAAAAAACAAGAA
1 GC-AAAAAGAAAAAAAAAAGAA
1455789 -CAACAAAGAAAGAACAAAAA
1 GCAA-AAAGAAA-AA-AAAAA
1455809 TAAAAAAGGG
Statistics
Matches: 34, Mismatches: 4, Indels: 7
0.76 0.09 0.16
Matches are distributed among these distances:
20 2 0.06
21 7 0.21
22 10 0.29
23 15 0.44
ACGTcount: A:0.75, C:0.09, G:0.16, T:0.00
Consensus pattern (21 bp):
GCAAAAAGAAAAAAAAAAGAA
Found at i:1455795 original size:24 final size:24
Alignment explanation
Indices: 1455747--1455800 Score: 58
Period size: 24 Copynumber: 2.2 Consensus size: 24
1455737 CAAAAAGGGC
* *
1455747 AAAAA-GAAAAAAGAAAAGAAGCA
1 AAAAAGGAAAAAACAAAACAAGCA
1455770 AAAAAGGAAAAAACAAGAACAA-CA
1 AAAAAGGAAAAAACAA-AACAAGCA
1455794 AAGAAAG
1 AA-AAAG
1455801 AACAAAAATA
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
23 5 0.19
24 13 0.50
25 8 0.31
ACGTcount: A:0.76, C:0.07, G:0.17, T:0.00
Consensus pattern (24 bp):
AAAAAGGAAAAAACAAAACAAGCA
Found at i:1455804 original size:20 final size:22
Alignment explanation
Indices: 1455756--1455805 Score: 61
Period size: 21 Copynumber: 2.4 Consensus size: 22
1455746 CAAAAAGAAA
1455756 AAAGAA-AAGAAGCAAAAAAGG
1 AAAGAACAAGAAGCAAAAAAGG
* *
1455777 AAAAAACAAGAA-CAACAAA-G
1 AAAGAACAAGAAGCAAAAAAGG
1455797 AAAGAACAA
1 AAAGAACAA
1455806 AAATAAAAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
20 9 0.36
21 11 0.44
22 5 0.20
ACGTcount: A:0.74, C:0.10, G:0.16, T:0.00
Consensus pattern (22 bp):
AAAGAACAAGAAGCAAAAAAGG
Found at i:1455816 original size:20 final size:20
Alignment explanation
Indices: 1455747--1455816 Score: 59
Period size: 20 Copynumber: 3.3 Consensus size: 20
1455737 CAAAAAGGGC
*
1455747 AAAAAGAAAAAAGAAAAGAAGCA
1 AAAAAGAAAAAA-CAAA-AA-CA
*
1455770 AAAAAGGAAAAAACAAGAACA
1 AAAAA-GAAAAAACAAAAACA
* * *
1455791 ACAAAGAAAGAACAAAAATA
1 AAAAAGAAAAAACAAAAACA
1455811 AAAAAG
1 AAAAAG
1455817 GGAACAAAAA
Statistics
Matches: 39, Mismatches: 7, Indels: 5
0.76 0.14 0.10
Matches are distributed among these distances:
20 17 0.44
21 6 0.15
22 2 0.05
23 7 0.18
24 7 0.18
ACGTcount: A:0.77, C:0.07, G:0.14, T:0.01
Consensus pattern (20 bp):
AAAAAGAAAAAACAAAAACA
Found at i:1457359 original size:36 final size:36
Alignment explanation
Indices: 1457312--1457416 Score: 156
Period size: 36 Copynumber: 2.9 Consensus size: 36
1457302 ATGCTCACCA
1457312 TTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAACT
1 TTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAACT
* *
1457348 TTGTCTCTCTTGAGACAGTTTCCCTTTAAACAAAATT
1 TTGTCTCTCTTGAGACAGTTTCCCTTGAAAC-AAACT
* * *
1457385 TTTTCTCCCTTGAGACAGTTTCTCTTGAAACA
1 TTGTCTCTCTTGAGACAGTTTCCCTTGAAACA
1457417 TAAACATTGA
Statistics
Matches: 62, Mismatches: 6, Indels: 2
0.89 0.09 0.03
Matches are distributed among these distances:
36 31 0.50
37 31 0.50
ACGTcount: A:0.25, C:0.24, G:0.12, T:0.39
Consensus pattern (36 bp):
TTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAACT
Found at i:1457406 original size:37 final size:37
Alignment explanation
Indices: 1457312--1457421 Score: 159
Period size: 37 Copynumber: 3.0 Consensus size: 37
1457302 ATGCTCACCA
1457312 TTGTCTCTCTTGAGACAGTTTCCCTTGAAAC-AAACT
1 TTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAAACT
* *
1457348 TTGTCTCTCTTGAGACAGTTTCCCTTTAAACAAAATT
1 TTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAAACT
* * *
1457385 TTTTCTCCCTTGAGACAGTTTCTCTTGAAACATAAAC
1 TTGTCTCTCTTGAGACAGTTTCCCTTGAAACA-AAAC
1457422 ATTGAAAACA
Statistics
Matches: 65, Mismatches: 7, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
36 30 0.46
37 32 0.49
38 3 0.05
ACGTcount: A:0.26, C:0.24, G:0.12, T:0.38
Consensus pattern (37 bp):
TTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAAACT
Found at i:1457506 original size:102 final size:102
Alignment explanation
Indices: 1457330--1457787 Score: 772
Period size: 102 Copynumber: 4.5 Consensus size: 102
1457320 CTTGAGACAG
** * * * *
1457330 TTTCCCTTGAAACAAACTTTGTCTCTCTTGAGACAGTTTCCCTTTAAACAAAATTTTTTCTCCCT
1 TTTCCCTTGAAATGAATTTTGTCTCTCTTGAGATAGTTTCCCTTGAAACAAAATTTTGTCTCCCT
1457395 TGAGACAGTTTCTCTTGAAACATAAACATTGAAAACA
66 TGAGACAGTTTCTCTTGAAACATAAACATTGAAAACA
* * *
1457432 TTTCCCTTGAAATGAGTTTTGTCTCTCTTGAGATAGTTTCCCTTGAAACAAAATTTCGTCTCCAT
1 TTTCCCTTGAAATGAATTTTGTCTCTCTTGAGATAGTTTCCCTTGAAACAAAATTTTGTCTCCCT
*
1457497 TGAGACAGTTTCTCTTGAAACATAAACATTGGAAACA
66 TGAGACAGTTTCTCTTGAAACATAAACATTGAAAACA
*
1457534 TTTCCCTTGAAATGAATTTTGTCTCTCTTGAGATAGTTTCCCTTGAAACAAAATTTTTTCTCCCT
1 TTTCCCTTGAAATGAATTTTGTCTCTCTTGAGATAGTTTCCCTTGAAACAAAATTTTGTCTCCCT
* *
1457599 TGAGATAGTTTCTCTTGAAACATAAACATTGAAAATA
66 TGAGACAGTTTCTCTTGAAACATAAACATTGAAAACA
*
1457636 TTTCCCTTGAAATGAATTTTGTCTCTCTTGAGATAGTTTCCCTCGAAACAAAATTTTGTCTCCCT
1 TTTCCCTTGAAATGAATTTTGTCTCTCTTGAGATAGTTTCCCTTGAAACAAAATTTTGTCTCCCT
1457701 TGAGACAGTTTCTCTTGAAACATAAACATTGAAAACA
66 TGAGACAGTTTCTCTTGAAACATAAACATTGAAAACA
* *
1457738 TTTCCCTTGAAATGAATTTCGTCTCTCTTGAGATAGTTTCTCTTGAAACA
1 TTTCCCTTGAAATGAATTTTGTCTCTCTTGAGATAGTTTCCCTTGAAACA
1457788 TAAACATTGA
Statistics
Matches: 332, Mismatches: 24, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
102 332 1.00
ACGTcount: A:0.30, C:0.20, G:0.12, T:0.38
Consensus pattern (102 bp):
TTTCCCTTGAAATGAATTTTGTCTCTCTTGAGATAGTTTCCCTTGAAACAAAATTTTGTCTCCCT
TGAGACAGTTTCTCTTGAAACATAAACATTGAAAACA
Found at i:1457507 original size:37 final size:37
Alignment explanation
Indices: 1457448--1457518 Score: 99
Period size: 37 Copynumber: 1.9 Consensus size: 37
1457438 TTGAAATGAG
1457448 TTTTGTCTCTC-TTGAGATAGTTTCCCTTGAAACAAAA
1 TTTTGTCTC-CATTGAGATAGTTTCCCTTGAAACAAAA
* * *
1457485 TTTCGTCTCCATTGAGACAGTTTCTCTTGAAACA
1 TTTTGTCTCCATTGAGATAGTTTCCCTTGAAACA
1457519 TAAACATTGG
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
36 1 0.03
37 29 0.97
ACGTcount: A:0.25, C:0.21, G:0.14, T:0.39
Consensus pattern (37 bp):
TTTTGTCTCCATTGAGATAGTTTCCCTTGAAACAAAA
Found at i:1457601 original size:37 final size:37
Alignment explanation
Indices: 1457534--1457620 Score: 122
Period size: 37 Copynumber: 2.4 Consensus size: 37
1457524 ATTGGAAACA
** *
1457534 TTTCCCTTGAAA-TGAATTTTGTCTCTCTTGAGATAG
1 TTTCCCTTGAAACAAAATTTTGTCTCCCTTGAGATAG
*
1457570 TTTCCCTTGAAACAAAATTTTTTCTCCCTTGAGATAG
1 TTTCCCTTGAAACAAAATTTTGTCTCCCTTGAGATAG
*
1457607 TTTCTCTTGAAACA
1 TTTCCCTTGAAACA
1457621 TAAACATTGA
Statistics
Matches: 45, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
36 12 0.27
37 33 0.73
ACGTcount: A:0.25, C:0.20, G:0.13, T:0.43
Consensus pattern (37 bp):
TTTCCCTTGAAACAAAATTTTGTCTCCCTTGAGATAG
Found at i:1457693 original size:37 final size:37
Alignment explanation
Indices: 1457650--1457722 Score: 110
Period size: 37 Copynumber: 2.0 Consensus size: 37
1457640 CCTTGAAATG
* *
1457650 AATTTTGTCTCTCTTGAGATAGTTTCCCTCGAAACAA
1 AATTTTGTCTCCCTTGAGACAGTTTCCCTCGAAACAA
* *
1457687 AATTTTGTCTCCCTTGAGACAGTTTCTCTTGAAACA
1 AATTTTGTCTCCCTTGAGACAGTTTCCCTCGAAACA
1457723 TAAACATTGA
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
37 32 1.00
ACGTcount: A:0.26, C:0.22, G:0.14, T:0.38
Consensus pattern (37 bp):
AATTTTGTCTCCCTTGAGACAGTTTCCCTCGAAACAA
Found at i:1457777 original size:65 final size:65
Alignment explanation
Indices: 1457687--1457852 Score: 296
Period size: 65 Copynumber: 2.6 Consensus size: 65
1457677 CTCGAAACAA
* *
1457687 AATTTTGTCTCCCTTGAGACAGTTTCTCTTGAAACATAAACATTGAAAACATTTCCCTTGAAATG
1 AATTTCGTCTCTCTTGAGACAGTTTCTCTTGAAACATAAACATTGAAAACATTTCCCTTGAAATG
* *
1457752 AATTTCGTCTCTCTTGAGATAGTTTCTCTTGAAACATAAACATTGAAAATATTTCCCTTGAAATG
1 AATTTCGTCTCTCTTGAGACAGTTTCTCTTGAAACATAAACATTGAAAACATTTCCCTTGAAATG
1457817 AATTTCGTCTCTCTTGAGACAGTTTCTCTTGAAACA
1 AATTTCGTCTCTCTTGAGACAGTTTCTCTTGAAACA
1457853 AAAGTCTGTC
Statistics
Matches: 96, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
65 96 1.00
ACGTcount: A:0.31, C:0.19, G:0.13, T:0.37
Consensus pattern (65 bp):
AATTTCGTCTCTCTTGAGACAGTTTCTCTTGAAACATAAACATTGAAAACATTTCCCTTGAAATG
Found at i:1458647 original size:105 final size:105
Alignment explanation
Indices: 1458419--1459077 Score: 832
Period size: 105 Copynumber: 6.3 Consensus size: 105
1458409 GCCATCCACG
* *
1458419 ATTTCAACTCCACAACGGAGGATATCGTGGCACTCGAGACAACACAAGTTCAACTTCACAACGAA
1 ATTTCAACTTCACAACGAAGGATAT--TGG-ACTCGAGACAACACAAGTTCAACTTCACAACGAA
* *
1458484 GGGACGGCTGGTTGTCAACAAACAACTTCTCAATTTCAGAGCCA
63 GGGACGGCTGCTTGTCAA-AAACAACTTCCCAATTTCAGAGCCA
* *
1458528 ATTTCAACTTCACAACGAAGGATATTGGACTTC-AGACAACGCAAGTTCAACTTCACGACGAAGG
1 ATTTCAACTTCACAACGAAGGATATTGGAC-TCGAGACAACACAAGTTCAACTTCACAACGAAGG
*
1458592 GACCGCTGCTTGTCAAAAACAACTTCCCAATTTCAGAGCCA
65 GACGGCTGCTTGTCAAAAACAACTTCCCAATTTCAGAGCCA
* ** *
1458633 ATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAATGCAAGTTCAACTTCACGACGAAGGG
1 ATTTCAACTTCACAACGAAGGATATTGGACTCGAGACAACACAAGTTCAACTTCACAACGAAGGG
* * *
1458698 ACCGCTGCTTGTCAACAACAACTTCCCAATCTCAGAGCCA
66 ACGGCTGCTTGTCAAAAACAACTTCCCAATTTCAGAGCCA
*
1458738 ATTTCAACTTCACGACGAAGGATATTGGACTCGAGACAACACAAGTTCAACTTCACAACGAAGGG
1 ATTTCAACTTCACAACGAAGGATATTGGACTCGAGACAACACAAGTTCAACTTCACAACGAAGGG
* * * * * *
1458803 ACGGCTGGTTGTCAACAACAATTTCCCAGTTTTAGGGCCA
66 ACGGCTGCTTGTCAAAAACAACTTCCCAATTTCAGAGCCA
* * * * * *
1458843 ATTTCAACTTCACAGCGGAGGATATTGGACCCAAGACAGCACAAGCTCAACTTCACAACGAAGGG
1 ATTTCAACTTCACAACGAAGGATATTGGACTCGAGACAACACAAGTTCAACTTCACAACGAAGGG
* * *
1458908 GCGGCTGAC-TGTC---AACAA----ACAATTTCGGAGCCA
66 ACGGCTG-CTTGTCAAAAACAACTTCCCAATTTCAGAGCCA
*
1458941 ATCTCAACTTCACAACGAAGGATATTGGACTCGAGACAACACAAGTTCAACTTCACAACGAAGGG
1 ATTTCAACTTCACAACGAAGGATATTGGACTCGAGACAACACAAGTTCAACTTCACAACGAAGGG
* * * *** *
1459006 ACGGCTGGTTGTCAACAAACAATTTTCCGGCTCCAGAGCCA
66 ACGGCTGCTTGTCAA-AAACAACTTCCCAATTTCAGAGCCA
* *
1459047 ATTTCAACTTCACGACGGAGGATATTGGACT
1 ATTTCAACTTCACAACGAAGGATATTGGACT
1459078 TGGAACAATG
Statistics
Matches: 484, Mismatches: 54, Indels: 27
0.86 0.10 0.05
Matches are distributed among these distances:
98 78 0.16
102 10 0.02
104 2 0.00
105 284 0.59
106 82 0.17
107 5 0.01
109 23 0.05
ACGTcount: A:0.33, C:0.26, G:0.20, T:0.21
Consensus pattern (105 bp):
ATTTCAACTTCACAACGAAGGATATTGGACTCGAGACAACACAAGTTCAACTTCACAACGAAGGG
ACGGCTGCTTGTCAAAAACAACTTCCCAATTTCAGAGCCA
Found at i:1459672 original size:34 final size:34
Alignment explanation
Indices: 1459629--1459750 Score: 128
Period size: 34 Copynumber: 3.7 Consensus size: 34
1459619 GTCCTACTAG
1459629 GATTCAAACTCCTAAAAATAGGATAGAATTTTAT
1 GATTCAAACTCCTAAAAATAGGATAGAATTTTAT
* *
1459663 GATTCAAACTCCTAAAGATATGATAGAA-TTT-T
1 GATTCAAACTCCTAAAAATAGGATAGAATTTTAT
* * * *
1459695 G-CT-AGGA-TTCAAAAAATAGGATAGAATTTTAT
1 GATTCA-AACTCCTAAAAATAGGATAGAATTTTAT
* *
1459727 GATTTAAACTCCTAAAGATAGGAT
1 GATTCAAACTCCTAAAAATAGGAT
1459751 CCATAAGCAC
Statistics
Matches: 69, Mismatches: 13, Indels: 12
0.73 0.14 0.13
Matches are distributed among these distances:
30 16 0.23
31 5 0.07
32 4 0.06
33 5 0.07
34 39 0.57
ACGTcount: A:0.43, C:0.11, G:0.15, T:0.32
Consensus pattern (34 bp):
GATTCAAACTCCTAAAAATAGGATAGAATTTTAT
Found at i:1459953 original size:14 final size:15
Alignment explanation
Indices: 1459920--1459958 Score: 53
Period size: 14 Copynumber: 2.7 Consensus size: 15
1459910 TACATTTACG
* *
1459920 TTTTAATTATTATTA
1 TTTTATTTATTATAA
1459935 TTTTATTTATT-TAA
1 TTTTATTTATTATAA
1459949 TTTTATTTAT
1 TTTTATTTAT
1459959 AAGCACATTT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
14 12 0.55
15 10 0.45
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (15 bp):
TTTTATTTATTATAA
Found at i:1460050 original size:25 final size:24
Alignment explanation
Indices: 1460017--1460086 Score: 67
Period size: 23 Copynumber: 2.9 Consensus size: 24
1460007 TTTTCTTTTT
1460017 TTTTCATGTAATATTTTTTTTTTAC
1 TTTT-ATGTAATATTTTTTTTTTAC
*
1460042 ATTTTATGT-AT-TTTCTTTTTTAC
1 -TTTTATGTAATATTTTTTTTTTAC
1460065 -TTTA-GTATATATTTTTATTTTT
1 TTTTATGTA-ATATTTTT-TTTTT
1460087 TTTAGATTAT
Statistics
Matches: 38, Mismatches: 2, Indels: 10
0.76 0.04 0.20
Matches are distributed among these distances:
20 2 0.05
21 4 0.11
22 2 0.05
23 15 0.39
24 7 0.18
25 4 0.11
26 4 0.11
ACGTcount: A:0.20, C:0.06, G:0.04, T:0.70
Consensus pattern (24 bp):
TTTTATGTAATATTTTTTTTTTAC
Found at i:1460077 original size:24 final size:24
Alignment explanation
Indices: 1460007--1460079 Score: 68
Period size: 22 Copynumber: 3.2 Consensus size: 24
1459997 TTGTTATTTT
1460007 TTTTCTTTTTT--TTTCATGTA-ATA
1 TTTTCTTTTTTACTTT-A-GTATATA
*
1460030 TTTT-TTTTTTACATTT--TATGTA
1 TTTTCTTTTTTAC-TTTAGTATATA
1460052 TTTTCTTTTTTACTTTAGTATATA
1 TTTTCTTTTTTACTTTAGTATATA
1460076 TTTT
1 TTTT
1460080 TATTTTTTTT
Statistics
Matches: 41, Mismatches: 2, Indels: 13
0.73 0.04 0.23
Matches are distributed among these distances:
21 2 0.05
22 15 0.37
23 12 0.29
24 9 0.22
25 3 0.07
ACGTcount: A:0.18, C:0.07, G:0.04, T:0.71
Consensus pattern (24 bp):
TTTTCTTTTTTACTTTAGTATATA
Found at i:1460085 original size:24 final size:22
Alignment explanation
Indices: 1460012--1460086 Score: 68
Period size: 24 Copynumber: 3.4 Consensus size: 22
1460002 ATTTTTTTTC
*
1460012 TTTTTTTTT-CA-TGTA-ATAT
1 TTTTTTTTTACATTTTATATAT
*
1460031 TTTTTTTTTACATTTTATGTAT
1 TTTTTTTTTACATTTTATATAT
1460053 TTTCTTTTTTAC-TTTAGTATATAT
1 TTT-TTTTTTACATTT--TATATAT
1460077 TTTTATTTTT
1 TTTT-TTTTT
1460087 TTTAGATTAT
Statistics
Matches: 46, Mismatches: 3, Indels: 9
0.79 0.05 0.16
Matches are distributed among these distances:
19 9 0.20
20 2 0.04
21 3 0.07
22 9 0.20
23 9 0.20
24 14 0.30
ACGTcount: A:0.19, C:0.05, G:0.04, T:0.72
Consensus pattern (22 bp):
TTTTTTTTTACATTTTATATAT
Found at i:1460176 original size:9 final size:9
Alignment explanation
Indices: 1460157--1460268 Score: 66
Period size: 9 Copynumber: 11.8 Consensus size: 9
1460147 ATATATTTAC
1460157 TTTTTTA-T
1 TTTTTTATT
1460165 TTTTTTATT
1 TTTTTTATT
1460174 TTTTATATATAT
1 TTTT-T-TAT-T
*
1460186 TATTTTTACT
1 T-TTTTTATT
1460196 TTTTTTATT
1 TTTTTTATT
1460205 TATTTGTT-TT
1 T-TTT-TTATT
* *
1460215 ATTTCTATT
1 TTTTTTATT
*
1460224 TTTATTTCTT
1 TTT-TTTATT
* *
1460234 TTTCTTCTT
1 TTTTTTATT
1460243 TTTCTTTATT
1 TTT-TTTATT
*
1460253 TTTTATATT
1 TTTTTTATT
*
1460262 TATTTTA
1 TTTTTTA
1460269 CTTACTATTT
Statistics
Matches: 81, Mismatches: 13, Indels: 19
0.72 0.12 0.17
Matches are distributed among these distances:
8 8 0.10
9 38 0.47
10 22 0.27
11 7 0.09
12 3 0.04
13 3 0.04
ACGTcount: A:0.16, C:0.05, G:0.01, T:0.78
Consensus pattern (9 bp):
TTTTTTATT
Found at i:1460192 original size:31 final size:33
Alignment explanation
Indices: 1460144--1460205 Score: 94
Period size: 31 Copynumber: 1.9 Consensus size: 33
1460134 AATTTATATA
1460144 TATATATATTTACTTTTTTA-TTTTTTTATTTTT
1 TATATATATTTAC-TTTTTACTTTTTTTATTTTT
1460177 TATATATA-TTA-TTTTTACTTTTTTTATTT
1 TATATATATTTACTTTTTACTTTTTTTATTT
1460206 ATTTGTTTTA
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
30 6 0.21
31 11 0.39
32 3 0.11
33 8 0.29
ACGTcount: A:0.23, C:0.03, G:0.00, T:0.74
Consensus pattern (33 bp):
TATATATATTTACTTTTTACTTTTTTTATTTTT
Found at i:1460198 original size:22 final size:21
Alignment explanation
Indices: 1460162--1460215 Score: 63
Period size: 22 Copynumber: 2.5 Consensus size: 21
1460152 TTTACTTTTT
*
1460162 TATTTTTTTATTTTTTATATA
1 TATTTTTTTACTTTTTATATA
* *
1460183 TATTATTTTTACTTTTTTTATT
1 TATT-TTTTTACTTTTTATATA
1460205 TATTTGTTTTA
1 TATTT-TTTTA
1460216 TTTCTATTTT
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
21 5 0.18
22 23 0.82
ACGTcount: A:0.20, C:0.02, G:0.02, T:0.76
Consensus pattern (21 bp):
TATTTTTTTACTTTTTATATA
Found at i:1460208 original size:43 final size:43
Alignment explanation
Indices: 1460160--1460262 Score: 113
Period size: 44 Copynumber: 2.3 Consensus size: 43
1460150 TATTTACTTT
1460160 TTTATTTTTTTATTT-T-TTATATATATTATTTTTACTT-TTTTTA
1 TTTATTTTTTTATTTCTATT-TATAT-TTATTTTT-CTTCTTTTTA
* * *
1460203 TTTATTTGTTTTATTTCTATTTTTATTTCTTTTTCTTCTTTTTC
1 TTTATTT-TTTTATTTCTATTTATATTTATTTTTCTTCTTTTTA
1460247 TTTATTTTTTATATTT
1 TTTATTTTTT-TATTT
1460263 ATTTTACTTA
Statistics
Matches: 52, Mismatches: 3, Indels: 9
0.81 0.05 0.14
Matches are distributed among these distances:
43 13 0.25
44 32 0.62
45 5 0.10
46 2 0.04
ACGTcount: A:0.16, C:0.06, G:0.01, T:0.78
Consensus pattern (43 bp):
TTTATTTTTTTATTTCTATTTATATTTATTTTTCTTCTTTTTA
Found at i:1460215 original size:37 final size:39
Alignment explanation
Indices: 1460136--1460216 Score: 105
Period size: 38 Copynumber: 2.1 Consensus size: 39
1460126 GTTTTATTAA
* *
1460136 TTTATATATATATATATTTACTTTTTTATTTTTTTATTT
1 TTTATATATATATATATTTACTTTTTTATTTTATTATGT
*
1460175 TTTATATATAT-TATTTTTACTTTTTT-TATTTATT-TGT
1 TTTATATATATATATATTTACTTTTTTAT-TTTATTATGT
1460212 TTTAT
1 TTTAT
1460217 TTCTATTTTT
Statistics
Matches: 38, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
37 8 0.21
38 19 0.50
39 11 0.29
ACGTcount: A:0.23, C:0.02, G:0.01, T:0.73
Consensus pattern (39 bp):
TTTATATATATATATATTTACTTTTTTATTTTATTATGT
Found at i:1460241 original size:21 final size:20
Alignment explanation
Indices: 1460150--1460245 Score: 65
Period size: 21 Copynumber: 4.5 Consensus size: 20
1460140 TATATATATA
1460150 TATTTACTTTTTTATTT-TTT
1 TATTT-CTTTTTTATTTCTTT
1460170 TATTT-TTTATATATATTAT-TTT
1 TATTTCTTT-T-T-TATT-TCTTT
* *
1460192 TACTTTTTTTATTTATTTGTTT
1 TA-TTTCTTT-TTTATTTCTTT
1460214 TATTTCTATTTTTATTTCTTT
1 TATTTCT-TTTTTATTTCTTT
1460235 T-TCTTCTTTTT
1 TAT-TTCTTTTT
1460246 CTTTATTTTT
Statistics
Matches: 65, Mismatches: 2, Indels: 18
0.76 0.02 0.21
Matches are distributed among these distances:
18 3 0.05
19 1 0.02
20 11 0.17
21 24 0.37
22 17 0.26
23 4 0.06
24 5 0.08
ACGTcount: A:0.16, C:0.06, G:0.01, T:0.77
Consensus pattern (20 bp):
TATTTCTTTTTTATTTCTTT
Found at i:1460267 original size:23 final size:23
Alignment explanation
Indices: 1460241--1460301 Score: 61
Period size: 23 Copynumber: 2.6 Consensus size: 23
1460231 CTTTTTCTTC
1460241 TTTTTCTTTATTTTTTATATTTA
1 TTTTTCTTTATTTTTTATATTTA
* * * *
1460264 TTTTAC-TTACTATTTTATCTTTG
1 TTTTTCTTTA-TTTTTTATATTTA
1460287 TTTTCTCTTTATTTT
1 TTTT-TCTTTATTTT
1460302 AATTTAATTA
Statistics
Matches: 29, Mismatches: 6, Indels: 5
0.73 0.15 0.12
Matches are distributed among these distances:
22 3 0.10
23 19 0.66
24 4 0.14
25 3 0.10
ACGTcount: A:0.15, C:0.10, G:0.02, T:0.74
Consensus pattern (23 bp):
TTTTTCTTTATTTTTTATATTTA
Found at i:1460296 original size:53 final size:53
Alignment explanation
Indices: 1460188--1460323 Score: 125
Period size: 53 Copynumber: 2.5 Consensus size: 53
1460178 ATATATATTA
* *
1460188 TTTTTACTTTTTTTATTTATTTGTTTTATTTCTATTTTTATTTCTTTTTCTTC
1 TTTTTACTTTTTTTATTTATTTATTTTATTACTATTTTTATTTCTTTTTCTTC
* *
1460241 TTTTT-CTTTATTTT-TTATATTTATTTTACTTACTATTTTATCTTTGTTTTCTCTT-
1 TTTTTACTTT-TTTTATT-TATTTATTTTA-TTACTATTTT-TATTTCTTTT-TCTTC
* * *
1460296 TATTTTAATTTAATTAATTTATTTATTT
1 T-TTTTACTTT-TTTTATTTATTTATTT
1460324 CTTACCTTTT
Statistics
Matches: 68, Mismatches: 7, Indels: 12
0.78 0.08 0.14
Matches are distributed among these distances:
52 6 0.09
53 19 0.28
54 9 0.13
55 9 0.13
56 8 0.12
57 15 0.22
58 2 0.03
ACGTcount: A:0.17, C:0.08, G:0.01, T:0.74
Consensus pattern (53 bp):
TTTTTACTTTTTTTATTTATTTATTTTATTACTATTTTTATTTCTTTTTCTTC
Found at i:1463118 original size:20 final size:21
Alignment explanation
Indices: 1463074--1463118 Score: 58
Period size: 20 Copynumber: 2.2 Consensus size: 21
1463064 CATATTTTTT
*
1463074 TAATTTTTTATTTTAAAAAGA
1 TAATTATTTATTTTAAAAAGA
*
1463095 -AATTATTTCTTTTAAAAA-A
1 TAATTATTTATTTTAAAAAGA
1463114 TAATT
1 TAATT
1463119 TCTCTAAAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
19 1 0.05
20 20 0.95
ACGTcount: A:0.44, C:0.02, G:0.02, T:0.51
Consensus pattern (21 bp):
TAATTATTTATTTTAAAAAGA
Found at i:1475811 original size:65 final size:65
Alignment explanation
Indices: 1475707--1475839 Score: 221
Period size: 65 Copynumber: 2.0 Consensus size: 65
1475697 ATGAACCCAA
* *
1475707 TGGGAAGGGGGAATCTTGTAACTCTGTCAGAAATCATGTCAACACTCGTAAATTAACAAGGTATG
1 TGGGAAGAGGGAATCTCGTAACTCTGTCAGAAATCATGTCAACACTCGTAAATTAACAAGGTATG
* * *
1475772 TGGGAAGAGGGAATCTCGTAACTTTGTCAGATATCATGTCAACACTCGTAAATTAACAAGTTATG
1 TGGGAAGAGGGAATCTCGTAACTCTGTCAGAAATCATGTCAACACTCGTAAATTAACAAGGTATG
1475837 TGG
1 TGG
1475840 ATACAATCAA
Statistics
Matches: 63, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
65 63 1.00
ACGTcount: A:0.33, C:0.15, G:0.24, T:0.28
Consensus pattern (65 bp):
TGGGAAGAGGGAATCTCGTAACTCTGTCAGAAATCATGTCAACACTCGTAAATTAACAAGGTATG
Found at i:1475863 original size:20 final size:20
Alignment explanation
Indices: 1475838--1475880 Score: 68
Period size: 20 Copynumber: 2.1 Consensus size: 20
1475828 CAAGTTATGT
*
1475838 GGATACAATCAATAGGAAGA
1 GGATACAATCAAGAGGAAGA
*
1475858 GGATACAATCAAGAGGAGGA
1 GGATACAATCAAGAGGAAGA
1475878 GGA
1 GGA
1475881 GAAGAAAATC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.47, C:0.09, G:0.33, T:0.12
Consensus pattern (20 bp):
GGATACAATCAAGAGGAAGA
Found at i:1476751 original size:2 final size:2
Alignment explanation
Indices: 1476742--1478185 Score: 560
Period size: 2 Copynumber: 720.0 Consensus size: 2
1476732 ATGAAACAAT
* *
1476742 TA TA -A TA TA TA TA CTA TA TA TGA -A CA -A TA TA TA T- TA TG TA
1 TA TA TA TA TA TA TA -TA TA TA T-A TA TA TA TA TA TA TA TA TA TA
* * * *
1476782 TA AA CTA TA TA -A TT TA TA TA TA AA GTA TA TA TA T- TA TA TA TC
1 TA TA -TA TA TA TA TA TA TA TA TA TA -TA TA TA TA TA TA TA TA TA
* * * *
1476824 TA AA CTA TA TA TA TA AA CTA TA TA GTT TA TA TT TA TA -A TA T-
1 TA TA -TA TA TA TA TA TA -TA TA TA -TA TA TA TA TA TA TA TA TA
* * *
1476865 TA TA TA CTA TA TA TA AA CTA TA TA TA T- TA TG TA TA AA T- TA TA
1 TA TA TA -TA TA TA TA TA -TA TA TA TA TA TA TA TA TA TA TA TA TA
* * *
1476907 TA T- TT TA T- TA -A TA TA AA T- TA TA TA T- TT TA T- TA -A TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
* * * * * *
1476942 TA AA CTA TA TA GTT TA T- TA GTA TA AA CTA TA CA GTT TA TA TT TA
1 TA TA -TA TA TA -TA TA TA TA -TA TA TA -TA TA TA -TA TA TA TA TA
* *
1476986 TA T- TA T- TA TA TA T- TA TA TA TA AA CTA TA TA TA TA T- TA TG
1 TA TA TA TA TA TA TA TA TA TA TA TA TA -TA TA TA TA TA TA TA TA
* * ** * *
1477025 TA TA AA CTA TA TA TA -A CA GG TA TA AA CTA TA TA -A TT TA TA TA
1 TA TA TA -TA TA TA TA TA TA TA TA TA TA -TA TA TA TA TA TA TA TA
* *
1477067 TGA -A CTA T- TGA -A CTA TA TA TA AA CTA TA TA GTT TA T- TA -A
1 T-A TA -TA TA T-A TA -TA TA TA TA TA -TA TA TA -TA TA TA TA TA
* * *
1477106 TA TA AA T- TA TA TA GTT TA TA TA TA AA T- TA TA TA TGA -A T- TA
1 TA TA TA TA TA TA TA -TA TA TA TA TA TA TA TA TA TA T-A TA TA TA
* * * * * *
1477146 TA TT TA AA TA TA TA CA TC T- TA TA TT TA TA TA TA CA TA -A T-
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
* * * *
1477185 TA TA AA T- TA TA TA TA CTA TG TA TA AA T- TA TA TA GTT TA TA TA
1 TA TA TA TA TA TA TA TA -TA TA TA TA TA TA TA TA TA -TA TA TA TA
* * * * *
1477227 GTT TA AA TA TA AA GTA TA TA -A GTA TA TA TA TA AA GTA TA AA T-
1 -TA TA TA TA TA TA -TA TA TA TA -TA TA TA TA TA TA -TA TA TA TA
1477269 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
* *
1477311 TA TA TA GTA TA TA TA CA TA TA TA -A TA -A TA TA AA GTA TA -A GTA
1 TA TA TA -TA TA TA TA TA TA TA TA TA TA TA TA TA TA -TA TA TA -TA
* * * * *
1477353 TA TT TA TA TA TA TA TA TA AA GT- TT TA GTA TA AA TA TA TA CA TA
1 TA TA TA TA TA TA TA TA TA TA -TA TA TA -TA TA TA TA TA TA TA TA
* * *
1477396 TA TA -A TA -A TA TA -A AA TA TA AA TA CTA TA TA TA TA TA AA GTA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA -TA TA TA TA TA TA TA -TA
* * * * *
1477437 TA -A T- TA TA AA GA CTA AA GTA TA TA -A GCA TA TA -A TA TA AA
1 TA TA TA TA TA TA TA -TA TA -TA TA TA TA -TA TA TA TA TA TA TA
* * *
1477476 GTA TA TA -A GTA TA TA AA GTA TA TA TA TA TA AA GTA TA AA TA TA
1 -TA TA TA TA -TA TA TA TA -TA TA TA TA TA TA TA -TA TA TA TA TA
*
1477519 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TG TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
* *
1477561 -A TA TA AA GTA TA TA TA TA -A CTA TA AA CTA TA TA TA TA TA TA
1 TA TA TA TA -TA TA TA TA TA TA -TA TA TA -TA TA TA TA TA TA TA
* * * * * * * *
1477602 CA CA CA CA CTT TA TA T- TA TA TA CT- TA TA TA CTT TA GTC TT TA
1 TA TA TA TA -TA TA TA TA TA TA TA -TA TA TA TA -TA TA -TA TA TA
* * * *
1477644 TA -A T- TA TA CTC TC TC TA TA TA TA -A TA TA CTCA TA CTT TA TA
1 TA TA TA TA TA -TA TA TA TA TA TA TA TA TA TA -T-A TA -TA TA TA
* * * * *
1477685 T- TCA TA TA TA TG TA TA TA CTT TA TA CTA -A AA CTT TA TC TA TA
1 TA T-A TA TA TA TA TA TA TA -TA TA TA -TA TA TA -TA TA TA TA TA
1477727 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
*
1477769 TA TA TA TA TA TA TA TA TA CTT TA T- TA TA CT- TA TA TA CT- TA
1 TA TA TA TA TA TA TA TA TA -TA TA TA TA TA -TA TA TA TA -TA TA
*
1477809 TA T- TA TA TA TG TA TA TA T- TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
* * *
1477849 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA CA CTT TA TA GTT
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA -TA TA TA -TA
* *
1477893 TA TA TA TA TA CT- TA TA TA CTT TA TA TA TA CT- TA TA TA CTT TA
1 TA TA TA TA TA -TA TA TA TA -TA TA TA TA TA -TA TA TA TA -TA TA
* * * * * * *
1477935 TA TT TA -A TA TT TA TA TA CTT TA GTC TT TA TA -A T- TG TA CTT
1 TA TA TA TA TA TA TA TA TA -TA TA -TA TA TA TA TA TA TA TA -TA
* * *
1477975 TA TA TA TA TA -A TA TA -A TA CT- TA TA TA TA TA TA TA CA CA CTT
1 TA TA TA TA TA TA TA TA TA TA -TA TA TA TA TA TA TA TA TA TA -TA
* * * ** *
1478016 TA TA CTT TA AA GTA TG TA TA CC T- TA TA GTT TA TA TA TA TA TA
1 TA TA -TA TA TA -TA TA TA TA TA TA TA TA -TA TA TA TA TA TA TA
* * * *
1478058 TA TA TA T- TA TA CTT TA TA GTT TA CA CTT TA TA TA TA TA CT- TA
1 TA TA TA TA TA TA -TA TA TA -TA TA TA -TA TA TA TA TA TA -TA TA
*
1478100 TA CT- TG TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA -TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1478142 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1478184 TA
1 TA
1478186 CTTATAATGT
Statistics
Matches: 1079, Mismatches: 203, Indels: 320
0.67 0.13 0.20
Matches are distributed among these distances:
1 78 0.07
2 918 0.85
3 82 0.08
4 1 0.00
ACGTcount: A:0.45, C:0.05, G:0.03, T:0.46
Consensus pattern (2 bp):
TA
Found at i:1476765 original size:29 final size:30
Alignment explanation
Indices: 1476736--1476792 Score: 73
Period size: 31 Copynumber: 1.9 Consensus size: 30
1476726 TAAAAAATGA
*
1476736 AACAAT-TATA-ATATATATACTATATATG
1 AACAATATATATATATATAAACTATATATG
*
1476764 AACAATATATATTATGTATAAACTATATA
1 AACAATATATA-TATATATAAACTATATA
1476793 ATTTATATAT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
28 6 0.25
29 4 0.17
31 14 0.58
ACGTcount: A:0.51, C:0.07, G:0.04, T:0.39
Consensus pattern (30 bp):
AACAATATATATATATATAAACTATATATG
Found at i:1476812 original size:13 final size:13
Alignment explanation
Indices: 1476796--1476891 Score: 60
Period size: 13 Copynumber: 7.5 Consensus size: 13
1476786 CTATATAATT
*
1476796 TATATATAAAGTA
1 TATATATAAACTA
1476809 TATATAT----TA
1 TATATATAAACTA
*
1476818 TATATCTAAACTA
1 TATATATAAACTA
1476831 TATATATAAACTA
1 TATATATAAACTA
* * *
1476844 TATAGTTTATA-TT
1 TATA-TATAAACTA
*
1476857 TATAATATTATA-TA
1 TAT-ATA-TAAACTA
1476871 CTATATATAAACTA
1 -TATATATAAACTA
1476885 TATATAT
1 TATATAT
1476892 TATGTATAAA
Statistics
Matches: 66, Mismatches: 8, Indels: 18
0.72 0.09 0.20
Matches are distributed among these distances:
9 8 0.12
13 40 0.61
14 15 0.23
15 3 0.05
ACGTcount: A:0.47, C:0.05, G:0.02, T:0.46
Consensus pattern (13 bp):
TATATATAAACTA
Found at i:1477049 original size:127 final size:125
Alignment explanation
Indices: 1476835--1477063 Score: 325
Period size: 127 Copynumber: 1.8 Consensus size: 125
1476825 AAACTATATA
*
1476835 TATAAACTATATAGTTTATATTTATAATATTATATACTATATATAAACTATATATATTATGTATA
1 TATAAACTATACAGTTTATATTTATAATATTATATACTATATATAAACTATATATATTATGTATA
* ** * *
1476900 AATTATATATTTTATTAATATAAATTATATATTTTATTAATATAAACTATATAGTTTATTAG
66 AACTATATA--TTAACAATATAAACTATATAATTTATTAATATAAACTATATAGTTTATTAG
* *
1476962 TATAAACTATACAGTTTATATTTATATTATTATATATTATATATAAACTATATATATATTATGTA
1 TATAAACTATACAGTTTATATTTATAATATTATATACTATATATAAAC--TATATATATTATGTA
*
1477027 TAAACTATATA-TAACAGGTATAAACTATATAATTTAT
64 TAAACTATATATTAACA-ATATAAACTATATAATTTAT
1477064 ATATGAACTA
Statistics
Matches: 90, Mismatches: 9, Indels: 6
0.86 0.09 0.06
Matches are distributed among these distances:
126 3 0.03
127 62 0.69
129 25 0.28
ACGTcount: A:0.45, C:0.04, G:0.03, T:0.48
Consensus pattern (125 bp):
TATAAACTATACAGTTTATATTTATAATATTATATACTATATATAAACTATATATATTATGTATA
AACTATATATTAACAATATAAACTATATAATTTATTAATATAAACTATATAGTTTATTAG
Found at i:1477175 original size:19 final size:20
Alignment explanation
Indices: 1477141--1477200 Score: 68
Period size: 21 Copynumber: 2.9 Consensus size: 20
1477131 ATTATATATG
1477141 AATTATATTTAAATATATACAT
1 AATTATATTT--ATATATACAT
*
1477163 -CTTATATTTATATATACAT
1 AATTATATTTATATATACAT
*
1477182 AATTATAAATTATATATAC
1 AATTAT-ATTTATATATAC
1477201 TATGTATAAA
Statistics
Matches: 33, Mismatches: 3, Indels: 5
0.80 0.07 0.12
Matches are distributed among these distances:
19 10 0.30
20 4 0.12
21 19 0.58
ACGTcount: A:0.47, C:0.07, G:0.00, T:0.47
Consensus pattern (20 bp):
AATTATATTTATATATACAT
Found at i:1478408 original size:32 final size:32
Alignment explanation
Indices: 1478340--1478437 Score: 91
Period size: 32 Copynumber: 3.2 Consensus size: 32
1478330 ATTTTACAAT
** *
1478340 TTGAAAACAAGTCAGGTTCATAACAAGTCAA-
1 TTGAAAACAAGTCAGAATCATAACAGGTCAAG
*
1478371 -T---AACAAGTCA-AATCATTTACAGGTCAAG
1 TTGAAAACAAGTCAGAATCA-TAACAGGTCAAG
* *
1478399 TTGAAAACAAGTCAGATTCATAACAGGTCAGG
1 TTGAAAACAAGTCAGAATCATAACAGGTCAAG
1478431 TTGAAAA
1 TTGAAAA
1478438 TAGGTCGGGT
Statistics
Matches: 53, Mismatches: 7, Indels: 13
0.73 0.10 0.18
Matches are distributed among these distances:
26 3 0.06
27 18 0.34
29 1 0.02
30 1 0.02
32 26 0.49
33 4 0.08
ACGTcount: A:0.44, C:0.15, G:0.17, T:0.23
Consensus pattern (32 bp):
TTGAAAACAAGTCAGAATCATAACAGGTCAAG
Found at i:1478442 original size:16 final size:16
Alignment explanation
Indices: 1478389--1478443 Score: 56
Period size: 16 Copynumber: 3.4 Consensus size: 16
1478379 CAAATCATTT
*
1478389 ACAGGTCAAGTTGAAA
1 ACAGGTCAGGTTGAAA
* * * *
1478405 ACAAGTCAGATTCATA
1 ACAGGTCAGGTTGAAA
1478421 ACAGGTCAGGTTGAAA
1 ACAGGTCAGGTTGAAA
*
1478437 ATAGGTC
1 ACAGGTC
1478444 GGGTAATACT
Statistics
Matches: 29, Mismatches: 10, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
16 29 1.00
ACGTcount: A:0.40, C:0.15, G:0.24, T:0.22
Consensus pattern (16 bp):
ACAGGTCAGGTTGAAA
Found at i:1479711 original size:16 final size:16
Alignment explanation
Indices: 1479680--1479711 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
1479670 TTTGAAACTC
*
1479680 GACTCGAACTCGAAAA
1 GACTCGAACTCAAAAA
1479696 GACTCGAACTCAAAAA
1 GACTCGAACTCAAAAA
1479712 AAATTCTCGA
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:0.25, G:0.16, T:0.12
Consensus pattern (16 bp):
GACTCGAACTCAAAAA
Found at i:1481228 original size:21 final size:21
Alignment explanation
Indices: 1481161--1481254 Score: 73
Period size: 21 Copynumber: 4.5 Consensus size: 21
1481151 TCAAATTAGG
* * *
1481161 GGTTTATGGTTTAGGACTTAA
1 GGTTTAGGGTTTAAGATTTAA
* * * * *
1481182 GGCTTAGGGTTTACGGTGTAT
1 GGTTTAGGGTTTAAGATTTAA
*
1481203 TGTTTAGGGTTTAAGATTTAA
1 GGTTTAGGGTTTAAGATTTAA
*
1481224 GGTTTATGGTTTATAG-TTTAA
1 GGTTTAGGGTTTA-AGATTTAA
*
1481245 AGTTTAGGGT
1 GGTTTAGGGT
1481255 ATATTCTAAT
Statistics
Matches: 55, Mismatches: 17, Indels: 2
0.74 0.23 0.03
Matches are distributed among these distances:
21 53 0.96
22 2 0.04
ACGTcount: A:0.22, C:0.03, G:0.30, T:0.45
Consensus pattern (21 bp):
GGTTTAGGGTTTAAGATTTAA
Found at i:1481338 original size:7 final size:7
Alignment explanation
Indices: 1481326--1481368 Score: 52
Period size: 7 Copynumber: 6.3 Consensus size: 7
1481316 CGGATTAAAA
1481326 GTTTAGG
1 GTTTAGG
1481333 GTTTAGG
1 GTTTAGG
1481340 GTTT-GG
1 GTTTAGG
*
1481346 ATTTAGG
1 GTTTAGG
*
1481353 GTTTAAG
1 GTTTAGG
*
1481360 ATTTAGG
1 GTTTAGG
1481367 GT
1 GT
1481369 ATAATCTAAT
Statistics
Matches: 29, Mismatches: 6, Indels: 2
0.78 0.16 0.05
Matches are distributed among these distances:
6 5 0.17
7 24 0.83
ACGTcount: A:0.19, C:0.00, G:0.37, T:0.44
Consensus pattern (7 bp):
GTTTAGG
Found at i:1481352 original size:13 final size:14
Alignment explanation
Indices: 1481334--1481368 Score: 54
Period size: 13 Copynumber: 2.6 Consensus size: 14
1481324 AAGTTTAGGG
*
1481334 TTTAGGGTTT-GGA
1 TTTAGGGTTTAAGA
1481347 TTTAGGGTTTAAGA
1 TTTAGGGTTTAAGA
1481361 TTTAGGGT
1 TTTAGGGT
1481369 ATAATCTAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
13 10 0.50
14 10 0.50
ACGTcount: A:0.20, C:0.00, G:0.34, T:0.46
Consensus pattern (14 bp):
TTTAGGGTTTAAGA
Found at i:1481500 original size:19 final size:19
Alignment explanation
Indices: 1481476--1481512 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
1481466 ATGACCAACA
* *
1481476 AAATCGTAATGCGATCTCT
1 AAATCGCAACGCGATCTCT
1481495 AAATCGCAACGCGATCTC
1 AAATCGCAACGCGATCTC
1481513 CATTATCACA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.32, C:0.27, G:0.16, T:0.24
Consensus pattern (19 bp):
AAATCGCAACGCGATCTCT
Found at i:1481604 original size:21 final size:20
Alignment explanation
Indices: 1481557--1481604 Score: 51
Period size: 21 Copynumber: 2.3 Consensus size: 20
1481547 GATTTTGACC
*
1481557 ATCGCATTGCAATTTTCGAA
1 ATCGCATTGCAATTTTAGAA
**
1481577 ATCCGCATTGTGATTTTAGATA
1 AT-CGCATTGCAATTTTAGA-A
1481599 ATCGCA
1 ATCGCA
1481605 ATGCGAATAT
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
20 2 0.09
21 18 0.78
22 3 0.13
ACGTcount: A:0.29, C:0.19, G:0.17, T:0.35
Consensus pattern (20 bp):
ATCGCATTGCAATTTTAGAA
Found at i:1481645 original size:20 final size:20
Alignment explanation
Indices: 1481619--1481766 Score: 131
Period size: 20 Copynumber: 7.3 Consensus size: 20
1481609 GAATATGTAA
1481619 ATCGCAATGCGATTCTGACT
1 ATCGCAATGCGATTCTGACT
*
1481639 ATTGCAATGCGATT-TGGACT
1 ATCGCAATGCGATTCT-GACT
* **
1481659 ATCGCAACGCGATAAT-ACGT
1 ATCGCAATGCGATTCTGAC-T
1481679 GATCGCAATGCGATTCTGACT
1 -ATCGCAATGCGATTCTGACT
* *
1481700 ATCGCAACGAGATTCTGACT
1 ATCGCAATGCGATTCTGACT
* * **
1481720 ATCGCAACGTGATAAT-ACGT
1 ATCGCAATGCGATTCTGAC-T
1481740 GATCGCAATGCGATTCTGACT
1 -ATCGCAATGCGATTCTGACT
*
1481761 AACGCA
1 ATCGCA
1481767 TCATTGAATT
Statistics
Matches: 103, Mismatches: 17, Indels: 16
0.76 0.12 0.12
Matches are distributed among these distances:
19 5 0.05
20 66 0.64
21 28 0.27
22 4 0.04
ACGTcount: A:0.29, C:0.23, G:0.22, T:0.26
Consensus pattern (20 bp):
ATCGCAATGCGATTCTGACT
Found at i:1481684 original size:61 final size:61
Alignment explanation
Indices: 1481619--1481766 Score: 235
Period size: 61 Copynumber: 2.4 Consensus size: 61
1481609 GAATATGTAA
* * *
1481619 ATCGCAATGCGATTCTGACTATTGCAATGCGATT-TGGACTATCGCAACGCGATAATACGTG
1 ATCGCAATGCGATTCTGACTATCGCAACGAGATTCT-GACTATCGCAACGCGATAATACGTG
*
1481680 ATCGCAATGCGATTCTGACTATCGCAACGAGATTCTGACTATCGCAACGTGATAATACGTG
1 ATCGCAATGCGATTCTGACTATCGCAACGAGATTCTGACTATCGCAACGCGATAATACGTG
*
1481741 ATCGCAATGCGATTCTGACTAACGCA
1 ATCGCAATGCGATTCTGACTATCGCA
1481767 TCATTGAATT
Statistics
Matches: 81, Mismatches: 5, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
61 80 0.99
62 1 0.01
ACGTcount: A:0.29, C:0.23, G:0.22, T:0.26
Consensus pattern (61 bp):
ATCGCAATGCGATTCTGACTATCGCAACGAGATTCTGACTATCGCAACGCGATAATACGTG
Found at i:1482609 original size:24 final size:24
Alignment explanation
Indices: 1482577--1482622 Score: 83
Period size: 24 Copynumber: 1.9 Consensus size: 24
1482567 TATTCGAAAT
1482577 TTGATCTTGGTCAATACCCGGACA
1 TTGATCTTGGTCAATACCCGGACA
*
1482601 TTGATCTTGGTCAATACTCGGA
1 TTGATCTTGGTCAATACCCGGA
1482623 TTTTGATGAT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.24, C:0.22, G:0.22, T:0.33
Consensus pattern (24 bp):
TTGATCTTGGTCAATACCCGGACA
Found at i:1482628 original size:24 final size:24
Alignment explanation
Indices: 1482576--1482629 Score: 81
Period size: 24 Copynumber: 2.2 Consensus size: 24
1482566 GTATTCGAAA
1482576 TTTGATCTTGGTCAATACCCGGAC
1 TTTGATCTTGGTCAATACCCGGAC
* * *
1482600 ATTGATCTTGGTCAATACTCGGAT
1 TTTGATCTTGGTCAATACCCGGAC
1482624 TTTGAT
1 TTTGAT
1482630 GATGTTTCAG
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.22, C:0.19, G:0.20, T:0.39
Consensus pattern (24 bp):
TTTGATCTTGGTCAATACCCGGAC
Found at i:1482848 original size:14 final size:14
Alignment explanation
Indices: 1482819--1482855 Score: 56
Period size: 14 Copynumber: 2.6 Consensus size: 14
1482809 AGAAAAAGAA
1482819 GAAGAAGAAATCCCC
1 GAAGAA-AAATCCCC
*
1482834 GAAGAAAAGTCCCC
1 GAAGAAAAATCCCC
1482848 GAAGAAAA
1 GAAGAAAA
1482856 TGCCACGGGA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
14 15 0.71
15 6 0.29
ACGTcount: A:0.51, C:0.22, G:0.22, T:0.05
Consensus pattern (14 bp):
GAAGAAAAATCCCC
Found at i:1484914 original size:18 final size:18
Alignment explanation
Indices: 1484891--1484925 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
1484881 AGCAAAAGGC
*
1484891 AATCAAAATCGCAATCAA
1 AATCAAAATCCCAATCAA
1484909 AATCAAAATCCCAATCA
1 AATCAAAATCCCAATCA
1484926 CAACCGGCTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.54, C:0.26, G:0.03, T:0.17
Consensus pattern (18 bp):
AATCAAAATCCCAATCAA
Found at i:1485128 original size:20 final size:20
Alignment explanation
Indices: 1485103--1485396 Score: 232
Period size: 20 Copynumber: 15.7 Consensus size: 20
1485093 CACATTCATT
1485103 TGACTATCGCAACGCGAATA
1 TGACTATCGCAACGCGAATA
1485123 TGACTATCGCAACGCGAATA
1 TGACTATCGCAACGCGAATA
* *
1485143 TGACTATCGCAACGTGAATT
1 TGACTATCGCAACGCGAATA
* *
1485163 TGAATATCGCAACG-G--GA
1 TGACTATCGCAACGCGAATA
* *
1485180 T-A--ATCGCAATGC-AAAA
1 TGACTATCGCAACGCGAATA
* *
1485196 TGACTATCCCAACGCGAATT
1 TGACTATCGCAACGCGAATA
* * *
1485216 TAACTATCACAACG-GGATA
1 TGACTATCGCAACGCGAATA
* *
1485235 --A-T-T-GCAATGCGAAAA
1 TGACTATCGCAACGCGAATA
* * *
1485250 TGATTATTGCAACGCGAAAA
1 TGACTATCGCAACGCGAATA
*
1485270 TGACTATCGCAACGCGAATT
1 TGACTATCGCAACGCGAATA
* *
1485290 TAACTATCGCAACGCGAATT
1 TGACTATCGCAACGCGAATA
*
1485310 TGACTATCGCAA--CG-AGA
1 TGACTATCGCAACGCGAATA
1485327 T-A--ATCGCAACGCGAA-A
1 TGACTATCGCAACGCGAATA
*
1485343 TGACTATCGCAACGCGAATT
1 TGACTATCGCAACGCGAATA
* * *
1485363 TGATTATCGCAACGGGAATT
1 TGACTATCGCAACGCGAATA
1485383 TGACTATCGCAACG
1 TGACTATCGCAACG
1485397 AGAAAATCGC
Statistics
Matches: 222, Mismatches: 32, Indels: 40
0.76 0.11 0.14
Matches are distributed among these distances:
14 19 0.09
15 4 0.02
16 9 0.04
17 8 0.04
18 3 0.01
19 26 0.12
20 153 0.69
ACGTcount: A:0.36, C:0.22, G:0.20, T:0.22
Consensus pattern (20 bp):
TGACTATCGCAACGCGAATA
Found at i:1485209 original size:53 final size:54
Alignment explanation
Indices: 1485128--1485267 Score: 176
Period size: 53 Copynumber: 2.6 Consensus size: 54
1485118 GAATATGACT
* * * * *
1485128 ATCGCAACGCGAATATGACTATCGCAACGTGAATTTGAA-TATCGCAACGGGATA
1 ATCGCAATGCGAAAATGACTATCCCAACGCGAATTT-AACTATCACAACGGGATA
1485182 ATCGCAATGC-AAAATGACTATCCCAACGCGAATTTAACTATCACAACGGGATA
1 ATCGCAATGCGAAAATGACTATCCCAACGCGAATTTAACTATCACAACGGGATA
* * **
1485235 ATTGCAATGCGAAAATGATTATTGCAACGCGAA
1 ATCGCAATGCGAAAATGACTATCCCAACGCGAA
1485268 AATGACTATC
Statistics
Matches: 75, Mismatches: 9, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
52 2 0.03
53 45 0.60
54 28 0.37
ACGTcount: A:0.38, C:0.21, G:0.19, T:0.22
Consensus pattern (54 bp):
ATCGCAATGCGAAAATGACTATCCCAACGCGAATTTAACTATCACAACGGGATA
Found at i:1485209 original size:73 final size:74
Alignment explanation
Indices: 1485108--1485435 Score: 371
Period size: 73 Copynumber: 4.5 Consensus size: 74
1485098 TCATTTGACT
* * * *
1485108 ATCGCAACGCGAATATGACTATCGCAACGCGAATATGACTATCGCAACGTGAATTTGAATATCGC
1 ATCGCAACGCGAAAATGACTATCGCAACGCGAATTTAACTATCGCAACGGGAATTTGAATATCGC
*
1485173 AACGGGATA
66 AACGAGATA
* * * * *
1485182 ATCGCAATGC-AAAATGACTATCCCAACGCGAATTTAACTATCACAACGGGATAATTGCA-AT-G
1 ATCGCAACGCGAAAATGACTATCGCAACGCGAATTTAACTATCGCAACGGGA-ATTTGAATATCG
* *
1485244 CGAA-AATGATT
65 C-AACGA-GATA
* * *
1485255 ATTGCAACGCGAAAATGACTATCGCAACGCGAATTTAACTATCGCAACGCGAATTTGACTATCGC
1 ATCGCAACGCGAAAATGACTATCGCAACGCGAATTTAACTATCGCAACGGGAATTTGAATATCGC
1485320 AACGAGATA
66 AACGAGATA
* * *
1485329 ATCGCAACGCG-AAATGACTATCGCAACGCGAATTTGATTATCGCAACGGGAATTTGACTATCGC
1 ATCGCAACGCGAAAATGACTATCGCAACGCGAATTTAACTATCGCAACGGGAATTTGAATATCGC
*
1485393 AACGAGAAA
66 AACGAGATA
* * * *
1485402 ATCGCAAAGTG-TATTAGACTATCGCAACGCGAAT
1 ATCGCAACGCGAAAAT-GACTATCGCAACGCGAAT
1485436 ATAATGCATA
Statistics
Matches: 215, Mismatches: 31, Indels: 16
0.82 0.12 0.06
Matches are distributed among these distances:
72 2 0.01
73 123 0.57
74 87 0.40
75 3 0.01
ACGTcount: A:0.37, C:0.22, G:0.20, T:0.22
Consensus pattern (74 bp):
ATCGCAACGCGAAAATGACTATCGCAACGCGAATTTAACTATCGCAACGGGAATTTGAATATCGC
AACGAGATA
Found at i:1485338 original size:34 final size:34
Alignment explanation
Indices: 1485295--1485430 Score: 139
Period size: 34 Copynumber: 3.9 Consensus size: 34
1485285 GAATTTAACT
1485295 ATCGCAACGCGAATTTGACTATCGCAACGAGATA
1 ATCGCAACGCGAATTTGACTATCGCAACGAGATA
* *
1485329 ATCGCAACGCGAA-ATGACTATCGCAACGCGAATTTGATT
1 ATCGCAACGCGAATTTGACTATCGCAA--CG-A---GATA
* *
1485368 ATCGCAACGGGAATTTGACTATCGCAACGAGAAA
1 ATCGCAACGCGAATTTGACTATCGCAACGAGATA
* * * *
1485402 ATCGCAAAGTGTATTAGACTATCGCAACG
1 ATCGCAACGCGAATTTGACTATCGCAACG
1485431 CGAATATAAT
Statistics
Matches: 85, Mismatches: 10, Indels: 14
0.78 0.09 0.13
Matches are distributed among these distances:
33 12 0.14
34 40 0.47
35 2 0.02
36 1 0.01
37 1 0.01
38 2 0.02
39 15 0.18
40 12 0.14
ACGTcount: A:0.35, C:0.22, G:0.21, T:0.21
Consensus pattern (34 bp):
ATCGCAACGCGAATTTGACTATCGCAACGAGATA
Found at i:1485357 original size:53 final size:54
Alignment explanation
Indices: 1485275--1485376 Score: 170
Period size: 53 Copynumber: 1.9 Consensus size: 54
1485265 GAAAATGACT
*
1485275 ATCGCAACGCGAATTTAACTATCGCAACGCGAATTTGACTATCGCAACGAGATA
1 ATCGCAACGCGAATATAACTATCGCAACGCGAATTTGACTATCGCAACGAGATA
* *
1485329 ATCGCAACGCGAA-ATGACTATCGCAACGCGAATTTGATTATCGCAACG
1 ATCGCAACGCGAATATAACTATCGCAACGCGAATTTGACTATCGCAACG
1485377 GGAATTTGAC
Statistics
Matches: 45, Mismatches: 3, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
53 32 0.71
54 13 0.29
ACGTcount: A:0.34, C:0.25, G:0.20, T:0.22
Consensus pattern (54 bp):
ATCGCAACGCGAATATAACTATCGCAACGCGAATTTGACTATCGCAACGAGATA
Found at i:1485378 original size:147 final size:147
Alignment explanation
Indices: 1485111--1485379 Score: 430
Period size: 147 Copynumber: 1.8 Consensus size: 147
1485101 TTTGACTATC
* * *
1485111 GCAACGCGAATATGACTATCGCAACGCGAATATGACTATCGCAACGTGAATTTGAATATCGCAAC
1 GCAACGCGAAAATGACTATCGCAACGCGAATATAACTATCGCAACGCGAATTTGAATATCGCAAC
* *
1485176 GGGATAATCGCAATGCAAAATGACTATCCCAACGCGAATTTAACTATCACAACGGGATAATTGCA
66 GAGATAATCGCAACGCAAAATGACTATCCCAACGCGAATTTAACTATCACAACGGGATAATTGCA
1485241 ATGCGAAAATGATTATT
131 ATGCGAAAATGATTATT
* *
1485258 GCAACGCGAAAATGACTATCGCAACGCGAATTTAACTATCGCAACGCGAATTTGACTATCGCAAC
1 GCAACGCGAAAATGACTATCGCAACGCGAATATAACTATCGCAACGCGAATTTGAATATCGCAAC
* * * * *
1485323 GAGATAATCGCAACGCGAAATGACTATCGCAACGCGAATTTGATTATCGCAACGGGA
66 GAGATAATCGCAACGCAAAATGACTATCCCAACGCGAATTTAACTATCACAACGGGA
1485380 ATTTGACTAT
Statistics
Matches: 110, Mismatches: 12, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
147 110 1.00
ACGTcount: A:0.36, C:0.22, G:0.20, T:0.22
Consensus pattern (147 bp):
GCAACGCGAAAATGACTATCGCAACGCGAATATAACTATCGCAACGCGAATTTGAATATCGCAAC
GAGATAATCGCAACGCAAAATGACTATCCCAACGCGAATTTAACTATCACAACGGGATAATTGCA
ATGCGAAAATGATTATT
Found at i:1485422 original size:147 final size:147
Alignment explanation
Indices: 1485108--1485439 Score: 393
Period size: 147 Copynumber: 2.3 Consensus size: 147
1485098 TCATTTGACT
* * * *
1485108 ATCGCAACGCGAATATGACTATCGCAACGCGAATATGACTATCGCAACGTGAATTTGAATATCGC
1 ATCGCAAAGCGAAAATGACTATCGCAACGCGAATATAACTATCGCAACGCGAATTTGAATATCGC
* *
1485173 AACGGGATAATCGCAATGCAAAATGACTATCCCAACGCGAATTTAACTATCACAACGGGATAATT
66 AACGAGATAATCGCAACGCAAAATGACTATCCCAACGCGAATTTAACTATCACAACGGGATAATT
**
1485238 GCAATGCGAAAATGATT
131 GCAATGCGAAAATGAAA
* * * *
1485255 ATTGCAACGCGAAAATGACTATCGCAACGCGAATTTAACTATCGCAACGCGAATTTGACTATCGC
1 ATCGCAAAGCGAAAATGACTATCGCAACGCGAATATAACTATCGCAACGCGAATTTGAATATCGC
* * * * * *
1485320 AACGAGATAATCGCAACGCGAAATGACTATCGCAACGCGAATTTGATTATCGCAACGGGA-ATTT
66 AACGAGATAATCGCAACGCAAAATGACTATCCCAACGCGAATTTAACTATCACAACGGGATAATT
* *
1485384 GACTAT-CGCAACGA-GAAA
131 G-CAATGCG-AA-AATGAAA
* * *
1485402 ATCGCAAAGTG-TATTAGACTATCGCAACGCGAATATAA
1 ATCGCAAAGCGAAAAT-GACTATCGCAACGCGAATATAA
1485440 TGCATATTGA
Statistics
Matches: 157, Mismatches: 24, Indels: 8
0.83 0.13 0.04
Matches are distributed among these distances:
146 8 0.05
147 148 0.94
148 1 0.01
ACGTcount: A:0.37, C:0.21, G:0.20, T:0.22
Consensus pattern (147 bp):
ATCGCAAAGCGAAAATGACTATCGCAACGCGAATATAACTATCGCAACGCGAATTTGAATATCGC
AACGAGATAATCGCAACGCAAAATGACTATCCCAACGCGAATTTAACTATCACAACGGGATAATT
GCAATGCGAAAATGAAA
Found at i:1485518 original size:36 final size:34
Alignment explanation
Indices: 1485477--1485556 Score: 105
Period size: 30 Copynumber: 2.4 Consensus size: 34
1485467 TTACATTTCA
*
1485477 ATCAATTAAACAAGCACAAATAATAATTATTTACAC
1 ATCAATTAAACAA--ACAAATAAGAATTATTTACAC
1485513 ATCAATT----AAACAAATAAGAATTATTTACAC
1 ATCAATTAAACAAACAAATAAGAATTATTTACAC
1485543 ATCAATTAAACAAA
1 ATCAATTAAACAAA
1485557 TCAACTCTTA
Statistics
Matches: 39, Mismatches: 1, Indels: 10
0.78 0.02 0.20
Matches are distributed among these distances:
30 27 0.69
32 2 0.05
34 3 0.08
36 7 0.18
ACGTcount: A:0.55, C:0.15, G:0.03, T:0.28
Consensus pattern (34 bp):
ATCAATTAAACAAACAAATAAGAATTATTTACAC
Found at i:1485528 original size:30 final size:30
Alignment explanation
Indices: 1485492--1485557 Score: 123
Period size: 30 Copynumber: 2.2 Consensus size: 30
1485482 TTAAACAAGC
*
1485492 ACAAATAATAATTATTTACACATCAATTAA
1 ACAAATAAGAATTATTTACACATCAATTAA
1485522 ACAAATAAGAATTATTTACACATCAATTAA
1 ACAAATAAGAATTATTTACACATCAATTAA
1485552 ACAAAT
1 ACAAAT
1485558 CAACTCTTAT
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 35 1.00
ACGTcount: A:0.55, C:0.14, G:0.02, T:0.30
Consensus pattern (30 bp):
ACAAATAAGAATTATTTACACATCAATTAA
Found at i:1486964 original size:21 final size:21
Alignment explanation
Indices: 1486940--1487033 Score: 82
Period size: 21 Copynumber: 4.5 Consensus size: 21
1486930 GGACCTATTC
1486940 AACGATGACAGGGGCCTCTTG
1 AACGATGACAGGGGCCTCTTG
* ** *
1486961 AACGGTGGGAGGGGACTCTTG
1 AACGATGACAGGGGCCTCTTG
** *
1486982 AGGGATGATAGGGGCCTCTTG
1 AACGATGACAGGGGCCTCTTG
* * *
1487003 AACGAT-AGGAGAGACCTCTTG
1 AACGATGA-CAGGGGCCTCTTG
1487024 AACGATGACA
1 AACGATGACA
1487034 TGTGAGTCAG
Statistics
Matches: 55, Mismatches: 16, Indels: 4
0.73 0.21 0.05
Matches are distributed among these distances:
20 1 0.02
21 53 0.96
22 1 0.02
ACGTcount: A:0.27, C:0.18, G:0.36, T:0.19
Consensus pattern (21 bp):
AACGATGACAGGGGCCTCTTG
Found at i:1487022 original size:42 final size:42
Alignment explanation
Indices: 1486943--1487033 Score: 112
Period size: 42 Copynumber: 2.2 Consensus size: 42
1486933 CCTATTCAAC
* * *
1486943 GATGACAGGGGCCTCTTGAACGGTGGGAGGGGACTCTTGAGG
1 GATGACAGGGGCCTCTTGAACGATAGGAGGAGACTCTTGAGG
* **
1486985 GATGATAGGGGCCTCTTGAACGATAGGA-GAGACCTCTTGAAC
1 GATGACAGGGGCCTCTTGAACGATAGGAGGAGA-CTCTTGAGG
1487027 GATGACA
1 GATGACA
1487034 TGTGAGTCAG
Statistics
Matches: 41, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
41 3 0.07
42 38 0.93
ACGTcount: A:0.25, C:0.18, G:0.37, T:0.20
Consensus pattern (42 bp):
GATGACAGGGGCCTCTTGAACGATAGGAGGAGACTCTTGAGG
Found at i:1487537 original size:20 final size:20
Alignment explanation
Indices: 1487512--1487555 Score: 79
Period size: 20 Copynumber: 2.2 Consensus size: 20
1487502 AATAGTTTCT
*
1487512 GAAACTTAAAATCTCAACAC
1 GAAACTTAAAATCGCAACAC
1487532 GAAACTTAAAATCGCAACAC
1 GAAACTTAAAATCGCAACAC
1487552 GAAA
1 GAAA
1487556 ATGATTATCG
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.52, C:0.23, G:0.09, T:0.16
Consensus pattern (20 bp):
GAAACTTAAAATCGCAACAC
Found at i:1487590 original size:20 final size:20
Alignment explanation
Indices: 1487542--1487630 Score: 75
Period size: 20 Copynumber: 4.8 Consensus size: 20
1487532 GAAACTTAAA
* *
1487542 ATCGCAACACGAAAATGATT
1 ATCGCAACGCGAAAATGACT
**
1487562 ATCGCAACGCGAATTTGACT
1 ATCGCAACGCGAAAATGACT
*
1487582 ATCGCAA--CG-AGAT-A--
1 ATCGCAACGCGAAAATGACT
1487596 ATCGCAACGCG-AAATGACT
1 ATCGCAACGCGAAAATGACT
*
1487615 ATCGCAACGAGAAAAT
1 ATCGCAACGCGAAAAT
1487631 CGCAACGCGA
Statistics
Matches: 55, Mismatches: 8, Indels: 12
0.73 0.11 0.16
Matches are distributed among these distances:
14 7 0.13
16 6 0.11
17 3 0.05
18 2 0.04
19 10 0.18
20 27 0.49
ACGTcount: A:0.40, C:0.22, G:0.19, T:0.18
Consensus pattern (20 bp):
ATCGCAACGCGAAAATGACT
Found at i:1487619 original size:33 final size:33
Alignment explanation
Indices: 1487562--1487642 Score: 135
Period size: 33 Copynumber: 2.4 Consensus size: 33
1487552 GAAAATGATT
* *
1487562 ATCGCAACGCGAATTTGACTATCGCAACGAGATA
1 ATCGCAACGCGAA-ATGACTATCGCAACGAGAAA
1487596 ATCGCAACGCGAAATGACTATCGCAACGAGAAA
1 ATCGCAACGCGAAATGACTATCGCAACGAGAAA
1487629 ATCGCAACGCGAAA
1 ATCGCAACGCGAAA
1487643 CTAAATTCGC
Statistics
Matches: 45, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
33 32 0.71
34 13 0.29
ACGTcount: A:0.40, C:0.25, G:0.21, T:0.15
Consensus pattern (33 bp):
ATCGCAACGCGAAATGACTATCGCAACGAGAAA
Found at i:1487642 original size:14 final size:14
Alignment explanation
Indices: 1487582--1487642 Score: 50
Period size: 14 Copynumber: 4.0 Consensus size: 14
1487572 GAATTTGACT
*
1487582 ATCGCAACGAGATA
1 ATCGCAACGAGAAA
*
1487596 ATCGCAACGCGAAATGA
1 ATCGCAACGAG-AA--A
1487613 CTATCGCAACGAGAAA
1 --ATCGCAACGAGAAA
*
1487629 ATCGCAACGCGAAA
1 ATCGCAACGAGAAA
1487643 CTAAATTCGC
Statistics
Matches: 38, Mismatches: 4, Indels: 10
0.73 0.08 0.19
Matches are distributed among these distances:
14 23 0.61
15 1 0.03
16 1 0.03
17 1 0.03
18 2 0.05
19 10 0.26
ACGTcount: A:0.43, C:0.25, G:0.21, T:0.11
Consensus pattern (14 bp):
ATCGCAACGAGAAA
Found at i:1487653 original size:33 final size:33
Alignment explanation
Indices: 1487562--1487653 Score: 105
Period size: 33 Copynumber: 2.8 Consensus size: 33
1487552 GAAAATGATT
* * * *
1487562 ATCGCAACGCGAATTTGACTATCGCAACGAGATA
1 ATCGCAACGCGAA-ATAAATATCGCAACGAGAAA
* *
1487596 ATCGCAACGCGAAATGACTATCGCAACGAGAAA
1 ATCGCAACGCGAAATAAATATCGCAACGAGAAA
1487629 ATCGCAACGCGAAACTAAAT-TCGCA
1 ATCGCAACGCGAAA-TAAATATCGCA
1487654 TTGCGATAGT
Statistics
Matches: 53, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
33 37 0.70
34 16 0.30
ACGTcount: A:0.39, C:0.25, G:0.20, T:0.16
Consensus pattern (33 bp):
ATCGCAACGCGAAATAAATATCGCAACGAGAAA
Found at i:1487782 original size:74 final size:74
Alignment explanation
Indices: 1487654--1487805 Score: 234
Period size: 74 Copynumber: 2.1 Consensus size: 74
1487644 TAAATTCGCA
* * *
1487654 TTGCGATAGTCATTTTCGCATTGCGATTATCCCGTTGCGATAGTAACTTCCGCGTTGTGATAGTC
1 TTGCGATAGTCATTTTCGCATTGCGATTATCCCGTTGCGATAGTAAATTCCGCGTTGCGATAATC
1487719 ATTTCCGCG
66 ATTTCCGCG
*
1487728 TTGCGATAGTCGTTTTCGCATTGCGATTATCCCGTTGCGATAGTCAAATT-CGCGTTGCGATAAT
1 TTGCGATAGTCATTTTCGCATTGCGATTATCCCGTTGCGATAGT-AAATTCCGCGTTGCGATAAT
* *
1487792 CATTTTCGTG
65 CATTTCCGCG
1487802 TTGC
1 TTGC
1487806 AACTATTCTT
Statistics
Matches: 71, Mismatches: 6, Indels: 2
0.90 0.08 0.03
Matches are distributed among these distances:
74 67 0.94
75 4 0.06
ACGTcount: A:0.18, C:0.22, G:0.23, T:0.38
Consensus pattern (74 bp):
TTGCGATAGTCATTTTCGCATTGCGATTATCCCGTTGCGATAGTAAATTCCGCGTTGCGATAATC
ATTTCCGCG
Found at i:1487799 original size:20 final size:20
Alignment explanation
Indices: 1487648--1487805 Score: 97
Period size: 20 Copynumber: 8.5 Consensus size: 20
1487638 CGAAACTAAA
*
1487648 TTCGCATTGCGATAGTCATT
1 TTCGCGTTGCGATAGTCATT
*
1487668 TTCGCATTGCGAT--T-A--
1 TTCGCGTTGCGATAGTCATT
* * *
1487683 -TCCCGTTGCGATAGTAACT
1 TTCGCGTTGCGATAGTCATT
* *
1487702 TCCGCGTTGTGATAGTCATT
1 TTCGCGTTGCGATAGTCATT
* *
1487722 TCCGCGTTGCGATAGTCGTT
1 TTCGCGTTGCGATAGTCATT
*
1487742 TTCGCATTGCGAT--T-A--
1 TTCGCGTTGCGATAGTCATT
* **
1487757 -TCCCGTTGCGATAGTCAAA
1 TTCGCGTTGCGATAGTCATT
*
1487776 TTCGCGTTGCGATAATCATT
1 TTCGCGTTGCGATAGTCATT
*
1487796 TTCGTGTTGC
1 TTCGCGTTGC
1487806 AACTATTCTT
Statistics
Matches: 107, Mismatches: 19, Indels: 24
0.71 0.13 0.16
Matches are distributed among these distances:
14 20 0.19
16 2 0.02
17 3 0.03
18 2 0.02
20 80 0.75
ACGTcount: A:0.18, C:0.22, G:0.23, T:0.37
Consensus pattern (20 bp):
TTCGCGTTGCGATAGTCATT
Found at i:1489969 original size:20 final size:20
Alignment explanation
Indices: 1489944--1490029 Score: 120
Period size: 20 Copynumber: 4.2 Consensus size: 20
1489934 TTATCGCAAC
*
1489944 GCGATAGTCAGAATCTCGTT
1 GCGATAGTCAGAATCGCGTT
1489964 GCGATAGTCAGAATCGCGTT
1 GCGATAGTCAGAATCGCGTT
**
1489984 GCGATCACGT-ATTATCGCGTT
1 GCGAT-A-GTCAGAATCGCGTT
1490005 GCGATAGTCAGAATCGCGTT
1 GCGATAGTCAGAATCGCGTT
1490025 GCGAT
1 GCGAT
1490030 CACGTGTTAT
Statistics
Matches: 58, Mismatches: 5, Indels: 6
0.84 0.07 0.09
Matches are distributed among these distances:
19 2 0.03
20 39 0.67
21 15 0.26
22 2 0.03
ACGTcount: A:0.23, C:0.21, G:0.28, T:0.28
Consensus pattern (20 bp):
GCGATAGTCAGAATCGCGTT
Found at i:1490002 original size:21 final size:21
Alignment explanation
Indices: 1489976--1490050 Score: 100
Period size: 21 Copynumber: 3.6 Consensus size: 21
1489966 GATAGTCAGA
1489976 ATCGCGTTGCGATCACGTATT
1 ATCGCGTTGCGATCACGTATT
**
1489997 ATCGCGTTGCGAT-A-GTCAGA
1 ATCGCGTTGCGATCACGT-ATT
*
1490017 ATCGCGTTGCGATCACGTGTT
1 ATCGCGTTGCGATCACGTATT
1490038 ATCGCGTTGCGAT
1 ATCGCGTTGCGAT
1490051 TTACATATTC
Statistics
Matches: 46, Mismatches: 5, Indels: 6
0.81 0.09 0.11
Matches are distributed among these distances:
19 2 0.04
20 15 0.33
21 27 0.59
22 2 0.04
ACGTcount: A:0.19, C:0.23, G:0.28, T:0.31
Consensus pattern (21 bp):
ATCGCGTTGCGATCACGTATT
Found at i:1490068 original size:61 final size:60
Alignment explanation
Indices: 1489931--1490070 Score: 151
Period size: 61 Copynumber: 2.3 Consensus size: 60
1489921 TTGCGATTTT
** *
1489931 ATATTATCGCAACGCGATAGTCAGAATCTCGTTGCGATAGTCAGAATCGCGTTGCGATCAC
1 ATATTATCGCATTGCGATAGTCAGAATCGCGTTGCGATAGT-AGAATCGCGTTGCGATCAC
* * * *
1489992 GTATTATCGCGTTGCGATAGTCAGAATCGCGTTGCGATCACGT-GTTATCGCGTTGCGATTTAC
1 ATATTATCGCATTGCGATAGTCAGAATCGCGTTGCGAT-A-GTAG-AATCGCGTTGCGA-TCAC
1490055 ATA-T-TCGCATTGCGAT
1 ATATTATCGCATTGCGAT
1490071 TATATAAAAT
Statistics
Matches: 66, Mismatches: 9, Indels: 8
0.80 0.11 0.10
Matches are distributed among these distances:
61 45 0.68
62 14 0.21
63 7 0.11
ACGTcount: A:0.24, C:0.21, G:0.24, T:0.31
Consensus pattern (60 bp):
ATATTATCGCATTGCGATAGTCAGAATCGCGTTGCGATAGTAGAATCGCGTTGCGATCAC
Found at i:1490070 original size:41 final size:41
Alignment explanation
Indices: 1489960--1490050 Score: 173
Period size: 41 Copynumber: 2.2 Consensus size: 41
1489950 GTCAGAATCT
1489960 CGTTGCGATAGTCAGAATCGCGTTGCGATCACGTATTATCG
1 CGTTGCGATAGTCAGAATCGCGTTGCGATCACGTATTATCG
*
1490001 CGTTGCGATAGTCAGAATCGCGTTGCGATCACGTGTTATCG
1 CGTTGCGATAGTCAGAATCGCGTTGCGATCACGTATTATCG
1490042 CGTTGCGAT
1 CGTTGCGAT
1490051 TTACATATTC
Statistics
Matches: 49, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 49 1.00
ACGTcount: A:0.20, C:0.22, G:0.29, T:0.30
Consensus pattern (41 bp):
CGTTGCGATAGTCAGAATCGCGTTGCGATCACGTATTATCG
Found at i:1490380 original size:11 final size:11
Alignment explanation
Indices: 1490364--1490421 Score: 50
Period size: 11 Copynumber: 5.5 Consensus size: 11
1490354 ATTATAGAAT
1490364 TTTTTAATATA
1 TTTTTAATATA
1490375 TTTTTAA-A-A
1 TTTTTAATATA
1490384 TTTTATAAT-TA
1 TTTT-TAATATA
** *
1490395 TTAATAATGTA
1 TTTTTAATATA
*
1490406 TTTTTAATAAA
1 TTTTTAATATA
1490417 TTTTT
1 TTTTT
1490422 TATAATGTAA
Statistics
Matches: 37, Mismatches: 6, Indels: 8
0.73 0.12 0.16
Matches are distributed among these distances:
9 5 0.14
10 8 0.22
11 24 0.65
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.60
Consensus pattern (11 bp):
TTTTTAATATA
Found at i:1495063 original size:23 final size:23
Alignment explanation
Indices: 1495037--1495086 Score: 91
Period size: 23 Copynumber: 2.2 Consensus size: 23
1495027 AAAAACAAAA
1495037 GAAAGTGTGCCACAAAGGAAGAT
1 GAAAGTGTGCCACAAAGGAAGAT
*
1495060 GAAAGTGTGCCACAAAGGTAGAT
1 GAAAGTGTGCCACAAAGGAAGAT
1495083 GAAA
1 GAAA
1495087 ACGTGCCATA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 26 1.00
ACGTcount: A:0.44, C:0.12, G:0.30, T:0.14
Consensus pattern (23 bp):
GAAAGTGTGCCACAAAGGAAGAT
Found at i:1495092 original size:23 final size:23
Alignment explanation
Indices: 1495043--1495094 Score: 77
Period size: 23 Copynumber: 2.3 Consensus size: 23
1495033 AAAAGAAAGT
**
1495043 GTGCCACAAAGGAAGATGAAAGT
1 GTGCCACAAAGGAAGATGAAAAC
*
1495066 GTGCCACAAAGGTAGATGAAAAC
1 GTGCCACAAAGGAAGATGAAAAC
1495089 GTGCCA
1 GTGCCA
1495095 TAAACGCTGA
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 26 1.00
ACGTcount: A:0.40, C:0.17, G:0.29, T:0.13
Consensus pattern (23 bp):
GTGCCACAAAGGAAGATGAAAAC
Found at i:1495348 original size:21 final size:22
Alignment explanation
Indices: 1495322--1495362 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
1495312 TATTTGGTTC
*
1495322 TAGAAAATA-TTTTCTTTTTTT
1 TAGAAAATAGTTTTCATTTTTT
1495343 TAGAAAATAGTTTTCATTTT
1 TAGAAAATAGTTTTCATTTT
1495363 CAACTTTTTA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 9 0.50
22 9 0.50
ACGTcount: A:0.32, C:0.05, G:0.07, T:0.56
Consensus pattern (22 bp):
TAGAAAATAGTTTTCATTTTTT
Found at i:1495748 original size:19 final size:20
Alignment explanation
Indices: 1495701--1495748 Score: 53
Period size: 19 Copynumber: 2.5 Consensus size: 20
1495691 TTTTATATTT
1495701 TTTAAAAATAAAAACAAAAA
1 TTTAAAAATAAAAACAAAAA
** * *
1495721 TTTTGAAAT-AAACCCAAAA
1 TTTAAAAATAAAAACAAAAA
1495740 TTTAAAAAT
1 TTTAAAAAT
1495749 CTTCATTTCA
Statistics
Matches: 22, Mismatches: 6, Indels: 1
0.76 0.21 0.03
Matches are distributed among these distances:
19 15 0.68
20 7 0.32
ACGTcount: A:0.62, C:0.08, G:0.02, T:0.27
Consensus pattern (20 bp):
TTTAAAAATAAAAACAAAAA
Found at i:1507205 original size:34 final size:33
Alignment explanation
Indices: 1507167--1507233 Score: 91
Period size: 34 Copynumber: 2.0 Consensus size: 33
1507157 GTAATGAACA
1507167 AAATTAAGCAAAATAAATTAACAA-AAAGTCCAAC
1 AAATTAAGCAAAATAAATTAA-AATAAA-TCCAAC
* *
1507201 AAATTTATCAAAATAAATTAAAATAAATCCAAC
1 AAATTAAGCAAAATAAATTAAAATAAATCCAAC
1507234 CATATTAACG
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
33 8 0.27
34 22 0.73
ACGTcount: A:0.61, C:0.13, G:0.03, T:0.22
Consensus pattern (33 bp):
AAATTAAGCAAAATAAATTAAAATAAATCCAAC
Found at i:1507798 original size:33 final size:33
Alignment explanation
Indices: 1507746--1507811 Score: 89
Period size: 33 Copynumber: 2.0 Consensus size: 33
1507736 CCTCTAAGAA
* * *
1507746 GGGTCATAAAACTCTGTGAAGGTGGCGGCGGCG
1 GGGTCATAAAACTCGGTGAAAGCGGCGGCGGCG
1507779 GGGTCATAAAAC-CAGGTGAAAGCGGCGGCGGCG
1 GGGTCATAAAACTC-GGTGAAAGCGGCGGCGGCG
1507812 ACATCTGGTA
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
32 1 0.03
33 28 0.97
ACGTcount: A:0.24, C:0.20, G:0.42, T:0.14
Consensus pattern (33 bp):
GGGTCATAAAACTCGGTGAAAGCGGCGGCGGCG
Found at i:1509126 original size:9 final size:9
Alignment explanation
Indices: 1509112--1509146 Score: 54
Period size: 9 Copynumber: 4.0 Consensus size: 9
1509102 CAAAACAATT
1509112 AATTAAATA
1 AATTAAATA
1509121 AATTAAAT-
1 AATTAAATA
*
1509129 ACTTAAATA
1 AATTAAATA
1509138 AATTAAATA
1 AATTAAATA
1509147 CAAAATATTA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
8 7 0.30
9 16 0.70
ACGTcount: A:0.63, C:0.03, G:0.00, T:0.34
Consensus pattern (9 bp):
AATTAAATA
Found at i:1509136 original size:17 final size:17
Alignment explanation
Indices: 1509114--1509147 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
1509104 AAACAATTAA
1509114 TTAAATAAATTAAATAC
1 TTAAATAAATTAAATAC
1509131 TTAAATAAATTAAATAC
1 TTAAATAAATTAAATAC
1509148 AAAATATTAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.59, C:0.06, G:0.00, T:0.35
Consensus pattern (17 bp):
TTAAATAAATTAAATAC
Found at i:1509213 original size:10 final size:10
Alignment explanation
Indices: 1509200--1509228 Score: 58
Period size: 10 Copynumber: 2.9 Consensus size: 10
1509190 ATAAGAGTAT
1509200 TTGAGAGAAG
1 TTGAGAGAAG
1509210 TTGAGAGAAG
1 TTGAGAGAAG
1509220 TTGAGAGAA
1 TTGAGAGAA
1509229 TTTGGTGTGA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.41, C:0.00, G:0.38, T:0.21
Consensus pattern (10 bp):
TTGAGAGAAG
Found at i:1511264 original size:25 final size:25
Alignment explanation
Indices: 1511236--1511283 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
1511226 TGAATTGAAT
* * *
1511236 AAAATTGAAAATAGATTTAAATAAA
1 AAAAATGAAAATAAAATTAAATAAA
1511261 AAAAATGAAAATAAAATTAAATA
1 AAAAATGAAAATAAAATTAAATA
1511284 GAATGGGTTG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.69, C:0.00, G:0.06, T:0.25
Consensus pattern (25 bp):
AAAAATGAAAATAAAATTAAATAAA
Found at i:1518026 original size:18 final size:18
Alignment explanation
Indices: 1518003--1518040 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
1517993 CAAAGAACTC
*
1518003 GGCTCAGGTTCAGGTACA
1 GGCTCAAGTTCAGGTACA
*
1518021 GGCTCAAGTTCAGGTTCA
1 GGCTCAAGTTCAGGTACA
1518039 GG
1 GG
1518041 TGCAGACTCA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.21, C:0.21, G:0.34, T:0.24
Consensus pattern (18 bp):
GGCTCAAGTTCAGGTACA
Found at i:1518038 original size:24 final size:24
Alignment explanation
Indices: 1518006--1518055 Score: 73
Period size: 24 Copynumber: 2.1 Consensus size: 24
1517996 AGAACTCGGC
*
1518006 TCAGGTTCAGGTACAGGCTCAAGT
1 TCAGGTTCAGGTACAGACTCAAGT
* *
1518030 TCAGGTTCAGGTGCAGACTCAGGT
1 TCAGGTTCAGGTACAGACTCAAGT
1518054 TC
1 TC
1518056 GAGAGAATTA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.22, C:0.22, G:0.30, T:0.26
Consensus pattern (24 bp):
TCAGGTTCAGGTACAGACTCAAGT
Found at i:1525627 original size:38 final size:38
Alignment explanation
Indices: 1525570--1525645 Score: 98
Period size: 38 Copynumber: 2.0 Consensus size: 38
1525560 AAGAGGAAAT
* * * * *
1525570 ATTGGATTGTATTAGAATAATAGTTGTACTTGAAATAG
1 ATTGAATTATATTAGAATAATAATTATACTTAAAATAG
*
1525608 ATTGAATTATATTTGAATAATAATTATACTTAAAATAG
1 ATTGAATTATATTAGAATAATAATTATACTTAAAATAG
1525646 GTGAAAGATC
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
38 32 1.00
ACGTcount: A:0.42, C:0.03, G:0.14, T:0.41
Consensus pattern (38 bp):
ATTGAATTATATTAGAATAATAATTATACTTAAAATAG
Found at i:1527376 original size:19 final size:19
Alignment explanation
Indices: 1527349--1527417 Score: 79
Period size: 19 Copynumber: 3.7 Consensus size: 19
1527339 AAACAAAGAT
1527349 ATCAGAAATCAGAACAGAG
1 ATCAGAAATCAGAACAGAG
* * * *
1527368 ATTAGAAATCATAACAAAT
1 ATCAGAAATCAGAACAGAG
*
1527387 ATCATAAATCAGAACAGAG
1 ATCAGAAATCAGAACAGAG
1527406 ATCA-AAA-CAGAA
1 ATCAGAAATCAGAA
1527418 ATCAGAGAAA
Statistics
Matches: 41, Mismatches: 9, Indels: 2
0.79 0.17 0.04
Matches are distributed among these distances:
17 5 0.12
18 3 0.07
19 33 0.80
ACGTcount: A:0.57, C:0.14, G:0.13, T:0.16
Consensus pattern (19 bp):
ATCAGAAATCAGAACAGAG
Found at i:1528781 original size:18 final size:18
Alignment explanation
Indices: 1528758--1528798 Score: 73
Period size: 18 Copynumber: 2.3 Consensus size: 18
1528748 CAACATTCGG
1528758 TCAACGGTTGGACAACGA
1 TCAACGGTTGGACAACGA
*
1528776 TCAACGGTTGGACAACGG
1 TCAACGGTTGGACAACGA
1528794 TCAAC
1 TCAAC
1528799 AGCTCGACTC
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.32, C:0.24, G:0.27, T:0.17
Consensus pattern (18 bp):
TCAACGGTTGGACAACGA
Found at i:1530142 original size:17 final size:18
Alignment explanation
Indices: 1530120--1530157 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 18
1530110 TGATCAATAA
1530120 CAAGAAATAACA-AGAAT
1 CAAGAAATAACAGAGAAT
* *
1530137 CAAGAATTAAGAGAGAAT
1 CAAGAAATAACAGAGAAT
1530155 CAA
1 CAA
1530158 AGAGAAAGTA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
17 10 0.56
18 8 0.44
ACGTcount: A:0.61, C:0.11, G:0.16, T:0.13
Consensus pattern (18 bp):
CAAGAAATAACAGAGAAT
Found at i:1537618 original size:17 final size:16
Alignment explanation
Indices: 1537588--1537624 Score: 58
Period size: 17 Copynumber: 2.3 Consensus size: 16
1537578 ATTTTTTAAC
1537588 ATTT-TGGATGTTTGA
1 ATTTGTGGATGTTTGA
1537603 ATTTGTGGATTGTTTGA
1 ATTTGTGGA-TGTTTGA
1537620 ATTTG
1 ATTTG
1537625 GATGCTTATA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
15 4 0.20
16 4 0.20
17 12 0.60
ACGTcount: A:0.19, C:0.00, G:0.27, T:0.54
Consensus pattern (16 bp):
ATTTGTGGATGTTTGA
Found at i:1537661 original size:14 final size:15
Alignment explanation
Indices: 1537621--1537662 Score: 52
Period size: 14 Copynumber: 2.9 Consensus size: 15
1537611 ATTGTTTGAA
*
1537621 TTTGGATGCTTATATG
1 TTTGGATG-TTATGTG
1537637 TTTGGAT-TTATGT-
1 TTTGGATGTTATGTG
1537650 TTTGGATGTTATG
1 TTTGGATGTTATG
1537663 GATGATTTGA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
13 7 0.29
14 10 0.42
16 7 0.29
ACGTcount: A:0.17, C:0.02, G:0.26, T:0.55
Consensus pattern (15 bp):
TTTGGATGTTATGTG
Found at i:1541984 original size:3 final size:3
Alignment explanation
Indices: 1541978--1542030 Score: 97
Period size: 3 Copynumber: 17.7 Consensus size: 3
1541968 TTTTTACCCA
*
1541978 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT CAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1542026 TAT TA
1 TAT TA
1542031 AATATATATT
Statistics
Matches: 48, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
3 48 1.00
ACGTcount: A:0.34, C:0.02, G:0.00, T:0.64
Consensus pattern (3 bp):
TAT
Found at i:1544180 original size:24 final size:24
Alignment explanation
Indices: 1544144--1544194 Score: 66
Period size: 24 Copynumber: 2.1 Consensus size: 24
1544134 TTAATCTATA
* *
1544144 ATTTTTTTTATATATATACATATT
1 ATTTTTATAATATATATACATATT
* *
1544168 ATTTTTATAATATTTATATATATT
1 ATTTTTATAATATATATACATATT
1544192 ATT
1 ATT
1544195 AATATTTCAT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.35, C:0.02, G:0.00, T:0.63
Consensus pattern (24 bp):
ATTTTTATAATATATATACATATT
Found at i:1554794 original size:1 final size:1
Alignment explanation
Indices: 1554785--1554828 Score: 52
Period size: 1 Copynumber: 44.0 Consensus size: 1
1554775 AGAAAAAAGG
* * * *
1554785 AAAAGAAAAAGAAGAAAAAAAAAAAAAAAAAAAAAAAGAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
1554829 GGGGGGTCAA
Statistics
Matches: 35, Mismatches: 8, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
1 35 1.00
ACGTcount: A:0.91, C:0.00, G:0.09, T:0.00
Consensus pattern (1 bp):
A
Found at i:1554801 original size:9 final size:8
Alignment explanation
Indices: 1554785--1554828 Score: 61
Period size: 8 Copynumber: 5.4 Consensus size: 8
1554775 AGAAAAAAGG
1554785 AAAAGAAA
1 AAAAGAAA
1554793 AAGAAGAAA
1 AA-AAGAAA
*
1554802 AAAAAAAA
1 AAAAGAAA
*
1554810 AAAAAAAA
1 AAAAGAAA
1554818 AAAAGAAA
1 AAAAGAAA
1554826 AAA
1 AAA
1554829 GGGGGGTCAA
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
8 25 0.76
9 8 0.24
ACGTcount: A:0.91, C:0.00, G:0.09, T:0.00
Consensus pattern (8 bp):
AAAAGAAA
Found at i:1556113 original size:83 final size:83
Alignment explanation
Indices: 1555974--1556553 Score: 1022
Period size: 83 Copynumber: 7.0 Consensus size: 83
1555964 GAAAGGGACT
1555974 CAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAACCAATCATTGAA
1 CAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAACCAATCATTGAA
1556039 TTTAGAAGATGAATTTGC
66 TTTAGAAGATGAATTTGC
1556057 CAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAACCAATCATTGAA
1 CAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAACCAATCATTGAA
*
1556122 TTTAGAAGATGAATTTTC
66 TTTAGAAGATGAATTTGC
1556140 CAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAACCAATCATTGAA
1 CAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAACCAATCATTGAA
1556205 TTTAGAAGATGAATTTGC
66 TTTAGAAGATGAATTTGC
*
1556223 CAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATTTGGTTGGACAGAACCAATCATTGAA
1 CAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAACCAATCATTGAA
1556288 TTTAGAAGATGAATTTGC
66 TTTAGAAGATGAATTTGC
1556306 CAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAACCAATCATTGAA
1 CAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAACCAATCATTGAA
*
1556371 TTTGGAAGATGAATTTGC
66 TTTAGAAGATGAATTTGC
*
1556389 TAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAACCAATCATTGAA
1 CAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAACCAATCATTGAA
* *
1556454 TTTGGAAGATGAATTCGC
66 TTTAGAAGATGAATTTGC
* ** *
1556472 TAATAGCATCTTCTGGAAGTGTTC-TTGAGTTATCTGATCTGGTTTGG-TGGAACCAATCATTAA
1 CAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGG-TTGGACAGAACCAATCATTGA
*
1556535 ATTT-GAAAGACGAATTTGC
65 ATTTAG-AAGATGAATTTGC
1556554 TCATAGTAGA
Statistics
Matches: 483, Mismatches: 12, Indels: 5
0.97 0.02 0.01
Matches are distributed among these distances:
81 1 0.00
82 46 0.10
83 436 0.90
ACGTcount: A:0.28, C:0.14, G:0.22, T:0.36
Consensus pattern (83 bp):
CAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAACCAATCATTGAA
TTTAGAAGATGAATTTGC
Found at i:1557547 original size:112 final size:112
Alignment explanation
Indices: 1557350--1557790 Score: 683
Period size: 112 Copynumber: 3.9 Consensus size: 112
1557340 TAGCAAAGAT
* * *
1557350 TCAAATCTATCATTTGATGGAT-TGTCATTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTG
1 TCAAATCCATCATTTGATGGATCAG-CTTTTCCAGAG-AAGTTCATAATGAGAAGAACTCATCTG
1557414 AAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTT-C
64 AAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTAC
1557462 TCAAATCCATCATTTGATGGATCAGCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGA
1 TCAAATCCATCATTTGATGGATCAGCTTTTCCAGAG-AAGTTCATAATGAGAAGAACTCATCTGA
1557527 AGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTAC
65 AGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTAC
* * *
1557575 AT-GAATTCATCAATTGATGGATCAG-TATTTCCAGAGAAGTTCATAATGAGAAGAACTCATCTG
1 -TCAAATCCATCATTTGATGGATCAGCT-TTTCCAGAGAAGTTCATAATGAGAAGAACTCATCTG
* * * *
1557638 AAGAAGGAAGAAGAAATTCACAATGAGAAGAATTTGTTCAACCTTTTGC
64 AAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTAC
* * *
1557687 TCAAATCCATCACTTGATGGAGCAGCTTTTCCAGAGAAGTTCATAATGAGAAGAACTCATTTGAA
1 TCAAATCCATCATTTGATGGATCAGCTTTTCCAGAGAAGTTCATAATGAGAAGAACTCATCTGAA
*
1557752 GAAGGAAGAAGAAGTTCATAATAAGAAGAACTTGTTCAA
66 GAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAA
1557791 TAATTCTATC
Statistics
Matches: 304, Mismatches: 19, Indels: 12
0.91 0.06 0.04
Matches are distributed among these distances:
111 1 0.00
112 270 0.89
113 32 0.11
114 1 0.00
ACGTcount: A:0.39, C:0.15, G:0.19, T:0.27
Consensus pattern (112 bp):
TCAAATCCATCATTTGATGGATCAGCTTTTCCAGAGAAGTTCATAATGAGAAGAACTCATCTGAA
GAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTAC
Found at i:1558113 original size:3 final size:3
Alignment explanation
Indices: 1558107--1558168 Score: 106
Period size: 3 Copynumber: 20.7 Consensus size: 3
1558097 TTTTTACCCA
* *
1558107 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAC CAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1558155 TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TA
1558169 AATATATATT
Statistics
Matches: 55, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 55 1.00
ACGTcount: A:0.34, C:0.03, G:0.00, T:0.63
Consensus pattern (3 bp):
TAT
Found at i:1558739 original size:15 final size:16
Alignment explanation
Indices: 1558719--1558756 Score: 53
Period size: 15 Copynumber: 2.5 Consensus size: 16
1558709 TCTCAGCAGC
1558719 AAAGAAACAAAAAAG-
1 AAAGAAACAAAAAAGA
*
1558734 AAAGAAA-AAAGAAGA
1 AAAGAAACAAAAAAGA
1558749 AAAGAAAC
1 AAAGAAAC
1558757 TTACCGAGGA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
14 6 0.30
15 14 0.70
ACGTcount: A:0.79, C:0.05, G:0.16, T:0.00
Consensus pattern (16 bp):
AAAGAAACAAAAAAGA
Found at i:1558748 original size:10 final size:11
Alignment explanation
Indices: 1558719--1558751 Score: 50
Period size: 11 Copynumber: 3.1 Consensus size: 11
1558709 TCTCAGCAGC
*
1558719 AAAGAAACAAA
1 AAAGAAAGAAA
1558730 AAAGAAAGAAA
1 AAAGAAAGAAA
1558741 AAAG-AAGAAA
1 AAAGAAAGAAA
1558751 A
1 A
1558752 GAAACTTACC
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
10 7 0.33
11 14 0.67
ACGTcount: A:0.82, C:0.03, G:0.15, T:0.00
Consensus pattern (11 bp):
AAAGAAAGAAA
Found at i:1564589 original size:86 final size:86
Alignment explanation
Indices: 1564444--1564613 Score: 322
Period size: 86 Copynumber: 2.0 Consensus size: 86
1564434 CTTTAACAGG
1564444 TTTCCCACTAATTTGCCAATATTAACCAGGATTCCTTCATCAAAGTATTCCATTGGTAGCCCTGG
1 TTTCCCACTAATTTGCCAATATTAACCAGGATTCCTTCATCAAAGTATTCCATTGGTAGCCCTGG
1564509 AATGTGTATCCAAACTGCTCT
66 AATGTGTATCCAAACTGCTCT
*
1564530 TTTCCCACTAATTTGCCAATATTTACCAGGATTCCTTCATCAAAGTATTCCATTGGTAGCCCTGG
1 TTTCCCACTAATTTGCCAATATTAACCAGGATTCCTTCATCAAAGTATTCCATTGGTAGCCCTGG
*
1564595 AATGTGTATCCACACTGCT
66 AATGTGTATCCAAACTGCT
1564614 GAGGAGGAAA
Statistics
Matches: 82, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
86 82 1.00
ACGTcount: A:0.26, C:0.26, G:0.14, T:0.34
Consensus pattern (86 bp):
TTTCCCACTAATTTGCCAATATTAACCAGGATTCCTTCATCAAAGTATTCCATTGGTAGCCCTGG
AATGTGTATCCAAACTGCTCT
Found at i:1573532 original size:17 final size:19
Alignment explanation
Indices: 1573510--1573549 Score: 66
Period size: 19 Copynumber: 2.2 Consensus size: 19
1573500 ACTCAACCCC
1573510 AAAAAG-AAATT-AGGGAG
1 AAAAAGAAAATTAAGGGAG
1573527 AAAAAGAAAATTAAGGGAG
1 AAAAAGAAAATTAAGGGAG
1573546 AAAA
1 AAAA
1573550 TTAATATAGA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
17 6 0.29
18 5 0.24
19 10 0.48
ACGTcount: A:0.65, C:0.00, G:0.25, T:0.10
Consensus pattern (19 bp):
AAAAAGAAAATTAAGGGAG
Found at i:1574648 original size:220 final size:218
Alignment explanation
Indices: 1574263--1574751 Score: 618
Period size: 220 Copynumber: 2.2 Consensus size: 218
1574253 CATGTTAAGG
* * * * * ** *
1574263 CGATAACAAAATAGGTTAA--AACTTAATTTATATACAATATCAAC-ATATTAGGTAGGGGCT-A
1 CGATAACAAAATAAGTTAATTAA-TTAATTTGTTTTCAATAT-ATCAATATTAGGTACCGCCTAA
*
1574324 AATGTTACCAAAGTTAAGCTGATTGAGCCTTAGAAATCCGACAATAACAAAATAGGTTAATTAAT
64 AATGTTACCAAAGTTAAGCTGATGGAGCCTTAGAAATCCGACAATAACAAAATAGGTTAATTAAT
* *
1574389 GGAAACATTATCAACCATAATAACATAACAAGTAACGTTTATTTAATGTAATAGGTAGCGCATGT
129 AGAAAC--TATCAACCATAATAACATAACAACTAACGTTTATTTAATGTAATAGGTAGCGCATGT
* *
1574454 TTAAAGCTGATGGGGCCTTAGAAAT-TAGA
192 TT-AAGATGAT-GGGCCTTAGAAATCCA-A
*
1574483 CGATAAC-AAAT-AGATTAATTAATTAATTTGTTATT-AATATTATCACTATTAGGTACCGCCTA
1 CGATAACAAAATAAG-TTAATTAATTAATTTGTT-TTCAATA-TATCAATATTAGGTACCGCCTA
* * * *
1574545 AAATGTTACCAAATTTTAAGCTGATGGAGTCTTAGAAATCTGACGATAACAAAATAGGTTAATTA
63 AAATGTTACCAAA-GTTAAGCTGATGGAGCCTTAGAAATCCGACAATAACAAAATAGGTTAATTA
* *
1574610 CTAGAAAC-ATCAACCATAATAACATAACAACTAACGTTTATTTAATGTAATAGGTAGCGCCTGT
127 ATAGAAACTATCAACCATAATAACATAACAACTAACGTTTATTTAATGTAATAGGTAGCGCATGT
1574674 TTAAGATGATGGGCCTTAGAAATCCAA
192 TTAAGATGATGGGCCTTAGAAATCCAA
* *
1574701 CGATAACAAAATAAGTTAATTATTTGATTTGTTTTCAATATATCAATATTA
1 CGATAACAAAATAAGTTAATTAATTAATTTGTTTTCAATATATCAATATTA
1574752 CCGTATACAT
Statistics
Matches: 234, Mismatches: 23, Indels: 26
0.83 0.08 0.09
Matches are distributed among these distances:
218 34 0.15
219 40 0.17
220 79 0.34
221 16 0.07
222 13 0.06
223 52 0.22
ACGTcount: A:0.41, C:0.13, G:0.15, T:0.31
Consensus pattern (218 bp):
CGATAACAAAATAAGTTAATTAATTAATTTGTTTTCAATATATCAATATTAGGTACCGCCTAAAA
TGTTACCAAAGTTAAGCTGATGGAGCCTTAGAAATCCGACAATAACAAAATAGGTTAATTAATAG
AAACTATCAACCATAATAACATAACAACTAACGTTTATTTAATGTAATAGGTAGCGCATGTTTAA
GATGATGGGCCTTAGAAATCCAA
Found at i:1575039 original size:124 final size:128
Alignment explanation
Indices: 1574749--1575057 Score: 355
Period size: 129 Copynumber: 2.4 Consensus size: 128
1574739 TATATCAATA
* * *
1574749 TTACCGTATACATTGTTAATTTATTTATTACTTTAAAGTAATAGGTTTCGAAATTATAAGAATTG
1 TTACCGTATACATTGTTAATTTA-CTATTACTTTAAAGCAATAGGTTTCGAAATTATAAGAATCG
* *
1574814 ATACTTATATGACAGTATCGATAATTGTACTTTTATGTCTATTTTCATTATACTGGTAAAACGT
65 ATACTTATATGACAGTATCGATAATTGTACTTTTATGACTATTATCATTATACTGGTAAAACGT
* * * * *
1574878 TTACCGTGTACATTGTTAATTTATCTATTACATTAAAGCAGTAGGTTTCGAAATTCTAAGTATCG
1 TTACCGTATACATTGTTAATTTA-CTATTACTTTAAAGCAATAGGTTTCGAAATTATAAGAATCG
* *
1574943 ATAC-TATAAT-A-AGTATCGATACTTG-A-TGTTTATGACTATTATCATTATA-TCGGT-AGAC
65 ATACTTAT-ATGACAGTATCGATAATTGTACT-TTTATGACTATTATCATTATACT-GGTAAAAC
*
1575001 TT
127 GT
* * * *
1575003 TTACCGT-TACATTGTAAATTTACATATTACTTTAAAGAAATATGTTTCTAAATTA
1 TTACCGTATACATTGTTAATTTAC-TATTACTTTAAAGCAATAGGTTTCGAAATTA
1575058 GGGTATCGAT
Statistics
Matches: 156, Mismatches: 20, Indels: 13
0.83 0.11 0.07
Matches are distributed among these distances:
123 1 0.01
124 39 0.25
125 13 0.08
126 23 0.15
127 13 0.08
128 4 0.03
129 63 0.40
ACGTcount: A:0.34, C:0.11, G:0.12, T:0.43
Consensus pattern (128 bp):
TTACCGTATACATTGTTAATTTACTATTACTTTAAAGCAATAGGTTTCGAAATTATAAGAATCGA
TACTTATATGACAGTATCGATAATTGTACTTTTATGACTATTATCATTATACTGGTAAAACGT
Found at i:1575624 original size:198 final size:197
Alignment explanation
Indices: 1574936--1575863 Score: 955
Period size: 198 Copynumber: 4.7 Consensus size: 197
1574926 CGAAATTCTA
* *
1574936 AGTATCGATA-C--TATAATAAGTATCGATACTTGATGTTTATGACTATTATCATTATATCGGTA
1 AGTATCGATACCTATATAATAAGTATCGATACTT-A-GTTTATGCCTATTATCATTATAACGGTA
* * * * * *
1574998 GACTTTTACCG-TTACATTGTAAATTTACATATTACTTTAAAGAAATATGTTTCTAAA-T-TAGG
64 GATTTTTACCGTTTACATTGTAAATTTACCTATTACTTTAAAGTAATACGTTTCGAAATTCTA-A
* *
1575060 GTATCGATACTTG-TACATGTGTATCGATA-TTTTTGCATGCAAATTGTTTGAGATGCATACTAG
128 GTATCGATACTTGTTATACGTGTATCGATACTTTTTGCATGCAAATTGTTTGAGAT-CATACTAG
1575123 AATAAC
192 AATAAC
** * * * * * ***
1575129 AGTATCGATACCTATAT-A-AAGTATTTATACTTGGTATTTACGTCTATTATCAATATACCAACA
1 AGTATCGATACCTATATAATAAGTATCGATACTTAG--TTTATGCCTATTATCATTATAACGGTA
* *
1575192 TATTTTTACCGTTTACATTGTAAATTTATCTATTACTTTAAAGTAAT-CGGTTTCGAAATT-TAA
64 GATTTTTACCGTTTACATTGTAAATTTACCTATTACTTTAAAGTAATAC-GTTTCGAAATTCTAA
* * * * *
1575255 CATATCGATAC-T-TTATACATGTATCGATACTTTTTGCGTGCAAATTATTTGAGATGCATACTG
128 -GTATCGATACTTGTTATACGTGTATCGATACTTTTTGCATGCAAATTGTTTGAGAT-CATACTA
1575318 GAATACAC
191 GAATA-AC
* * *
1575326 AGTATTGATACCTATATAATAAGTATCGATACTTTATGTTTACGCCTATTATCATTA-AACCAGT
1 AGTATCGATACCTATATAATAAGTATCGATAC-TTA-GTTTATGCCTATTATCATTATAA-CGGT
* * * *
1575390 AGATTTTTACCGTTTACATTGTCAATTTACGTATTACTTTAAAGTAATACATTTCAAAATTCTAA
63 AGATTTTTACCGTTTACATTGTAAATTTACCTATTACTTTAAAGTAATACGTTTCGAAATTCTAA
*
1575455 GTATCGATACTTGTTATACGTGTATCGATACTTTTTGCATGCAAATTGTTTGAGAT-ATATTAGA
128 GTATCGATACTTGTTATACGTGTATCGATACTTTTTGCATGCAAATTGTTTGAGATCATACTAGA
1575519 ATAAC
193 ATAAC
* *
1575524 A-TATCGATACCTATATAATAAGTATCGATACGTTAGTTTATGCATATATTATCATTATAATGGT
1 AGTATCGATACCTATATAATAAGTATCGATAC-TTAGTTTATGC--CTATTATCATTATAACGGT
* * * ** * * *
1575588 AGATTTTTATCGTTTACATTATAAATCTATGTATTACTTTAATGTAATATGTTTTGAAATTCTAA
63 AGATTTTTACCGTTTACATTGTAAATTTACCTATTACTTTAAAGTAATACGTTTCGAAATTCTAA
* * * * * * *
1575653 GTATCAATACTTGTTATATGTGTATCGATACTTTGTGCGTGTAAATTGTTTGAGATTCATATTGG
128 GTATCGATACTTGTTATACGTGTATCGATACTTTTTGCATGCAAATTGTTTGAGA-TCATACTAG
*
1575718 AATAAA
192 AATAAC
* * *
1575724 AGTATCGATACATA-AAACATAAAGGTATCGATACTTTAAG-TTACGCCTATTATCATTA-AACC
1 AGTATCGATACCTATATA-AT-AA-GTATCGATAC-TT-AGTTTATGCCTATTATCATTATAA-C
* * *
1575786 GGTAGATTGTTACTGTTTACATTGTAAATTTACCTATTACTTTAAAGTAATACATTTCG-AATTC
60 GGTAGATTTTTACCGTTTACATTGTAAATTTACCTATTACTTTAAAGTAATACGTTTCGAAATTC
*
1575850 AAAGTATCGA-ACTT
125 TAAGTATCGATACTT
1575864 TGTTGCGGAA
Statistics
Matches: 615, Mismatches: 88, Indels: 58
0.81 0.12 0.08
Matches are distributed among these distances:
192 1 0.00
193 10 0.02
194 42 0.07
195 55 0.09
196 57 0.09
197 50 0.08
198 123 0.20
199 107 0.17
200 36 0.06
201 113 0.18
202 2 0.00
203 17 0.03
204 2 0.00
ACGTcount: A:0.34, C:0.13, G:0.13, T:0.41
Consensus pattern (197 bp):
AGTATCGATACCTATATAATAAGTATCGATACTTAGTTTATGCCTATTATCATTATAACGGTAGA
TTTTTACCGTTTACATTGTAAATTTACCTATTACTTTAAAGTAATACGTTTCGAAATTCTAAGTA
TCGATACTTGTTATACGTGTATCGATACTTTTTGCATGCAAATTGTTTGAGATCATACTAGAATA
AC
Found at i:1575806 original size:399 final size:392
Alignment explanation
Indices: 1574935--1575863 Score: 1103
Period size: 399 Copynumber: 2.4 Consensus size: 392
1574925 TCGAAATTCT
* * * * *
1574935 AAGTATCGATAC-TAT--AATAAGTATCGATACTTGATGTTTATGACTATTATCATTATATCGGT
1 AAGTATCGATACATATAAAATAAGTATCGATACTTTATGTTTACGCCTATTATCATTAAACCGGT
* **
1574997 AGACTTTTACCG-TTACATTGTAAATTTACATATTACTTTAAAGAAATATGTTTCTAAA-T-TAG
66 AGA-TTTTACCGTTTACATTGTAAATTTACATATTACTTTAAAGTAATACATTTC-AAATTCTA-
* *
1575059 GGTATCGATACTTGTACATGTGTATCGATATTTTTGCATGCAAATTGTTTGAGATGCATACTAGA
128 AGTATCGATACTTGTACACGTGTATCGATATTTTTGCATGCAAATTGTTTGAGAT-CATACTAGA
** * * * *
1575124 ATAACAGTATCGATACCTATATAAAGTATTTATACTTGGTATTTACGTCTATTATCAATATACCA
192 ATAACAGTATCGATACCTATATAAAGTATCGATACTTAGTATTTACATATATTATCAATATAACA
* * * *
1575189 ACATATTTTTACCGTTTACATTGTAAATTTATCTATTACTTTAAAGTAATCGGTTTCGAAATTTA
257 ACAGATTTTTACCGTTTACATTATAAATCTATCTATTACTTTAAAGTAATAGGTTTCGAAATTTA
* *
1575254 ACATATCGATACTTTATACATGTATCGATACTTTTTGCGTGCAAATTATTTGAGATGCATACTGG
322 ACATATCAATACTTTATACATGTATCGATACTTTGTGCGTGCAAATTATTTGAGATGCATACTGG
1575319 AATACA
387 AATACA
* * * * *
1575325 CAGTATTGATACCTATATAATAAGTATCGATACTTTATGTTTACGCCTATTATCATTAAACCAGT
1 AAGTATCGATACATATAAAATAAGTATCGATACTTTATGTTTACGCCTATTATCATTAAACCGGT
* *
1575390 AGATTTTTACCGTTTACATTGTCAATTTACGTATTACTTTAAAGTAATACATTTCAAAATTCTAA
66 AGA-TTTTACCGTTTACATTGTAAATTTACATATTACTTTAAAGTAATACATTTC-AAATTCTAA
* *
1575455 GTATCGATACTTGTTATACGTGTATCGATACTTTTTGCATGCAAATTGTTTGAGAT-ATATTAGA
129 GTATCGATACTTG-TACACGTGTATCGATA-TTTTTGCATGCAAATTGTTTGAGATCATACTAGA
* *
1575519 ATAACA-TATCGATACCTATATAATAAGTATCGATACGTTAGT-TTATGCATATATTATCATTAT
192 ATAACAGTATCGATACCTATAT-A-AAGTATCGATAC-TTAGTATT-TACATATATTATCAATAT
**** * * * * *
1575582 AATGGTAGATTTTTATCGTTTACATTATAAATCTATGTATTACTTTAATGTAATATGTTTTGAAA
253 AACAACAGATTTTTACCGTTTACATTATAAATCTATCTATTACTTTAAAGTAATAGGTTTCGAAA
* ** * * *
1575647 TTCTAA-GTATCAATACTTGTTATATGTGTATCGATACTTTGTGCGTGTAAATTGTTTGAGATTC
318 TT-TAACATATCAATAC-T-TTATACATGTATCGATACTTTGTGCGTGCAAATTATTTGAGATGC
*
1575711 ATATTGGAATA-A
380 ATACTGGAATACA
*
1575723 AAGTATCGATACATA-AAACATAAAGGTATCGATACTTTAAG-TTACGCCTATTATCATTAAACC
1 AAGTATCGATACATATAAA-AT-AA-GTATCGATACTTTATGTTTACGCCTATTATCATTAAACC
* * * *
1575786 GGTAGATTGTTACTGTTTACATTGTAAATTTACCTATTACTTTAAAGTAATACATTTCGAATTCA
63 GGTAGATT-TTACCGTTTACATTGTAAATTTACATATTACTTTAAAGTAATACATTTCAAATTCT
1575851 AAGTATCGA-ACTT
127 AAGTATCGATACTT
1575864 TGTTGCGGAA
Statistics
Matches: 460, Mismatches: 60, Indels: 31
0.83 0.11 0.06
Matches are distributed among these distances:
390 10 0.02
391 3 0.01
393 52 0.11
394 55 0.12
395 28 0.06
396 28 0.06
397 110 0.24
398 35 0.08
399 124 0.27
400 15 0.03
ACGTcount: A:0.34, C:0.13, G:0.13, T:0.41
Consensus pattern (392 bp):
AAGTATCGATACATATAAAATAAGTATCGATACTTTATGTTTACGCCTATTATCATTAAACCGGT
AGATTTTACCGTTTACATTGTAAATTTACATATTACTTTAAAGTAATACATTTCAAATTCTAAGT
ATCGATACTTGTACACGTGTATCGATATTTTTGCATGCAAATTGTTTGAGATCATACTAGAATAA
CAGTATCGATACCTATATAAAGTATCGATACTTAGTATTTACATATATTATCAATATAACAACAG
ATTTTTACCGTTTACATTATAAATCTATCTATTACTTTAAAGTAATAGGTTTCGAAATTTAACAT
ATCAATACTTTATACATGTATCGATACTTTGTGCGTGCAAATTATTTGAGATGCATACTGGAATA
CA
Found at i:1576995 original size:20 final size:20
Alignment explanation
Indices: 1576959--1577058 Score: 132
Period size: 20 Copynumber: 5.0 Consensus size: 20
1576949 CCGTTAGATA
*
1576959 GGGGGAATATGTA-CCCC-G
1 GGGGGAATCTGTACCCCCTG
*
1576977 GAGGGGAATCGGTACCCCCTG
1 G-GGGGAATCTGTACCCCCTG
* *
1576998 GGGGGAATCTGTTCCTCCTG
1 GGGGGAATCTGTACCCCCTG
*
1577018 GGGGGAATCTGTACCCCCTT
1 GGGGGAATCTGTACCCCCTG
1577038 GGGGGAATCTGTACCCCCTG
1 GGGGGAATCTGTACCCCCTG
1577058 G
1 G
1577059 ACAATATGAT
Statistics
Matches: 70, Mismatches: 9, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
18 1 0.01
19 10 0.14
20 57 0.81
21 2 0.03
ACGTcount: A:0.16, C:0.27, G:0.36, T:0.21
Consensus pattern (20 bp):
GGGGGAATCTGTACCCCCTG
Found at i:1581614 original size:21 final size:21
Alignment explanation
Indices: 1581588--1581662 Score: 123
Period size: 21 Copynumber: 3.6 Consensus size: 21
1581578 GTTTCCAGAT
* *
1581588 TCGCAACGCGAACTTCGACTA
1 TCGCAATGCGAACTTGGACTA
1581609 TCGCAATGCGAACTTGGACTA
1 TCGCAATGCGAACTTGGACTA
*
1581630 TTGCAATGCGAACTTGGACTA
1 TCGCAATGCGAACTTGGACTA
1581651 TCGCAATGCGAA
1 TCGCAATGCGAA
1581663 TATGTAAATC
Statistics
Matches: 50, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
21 50 1.00
ACGTcount: A:0.29, C:0.25, G:0.23, T:0.23
Consensus pattern (21 bp):
TCGCAATGCGAACTTGGACTA
Found at i:1581701 original size:21 final size:21
Alignment explanation
Indices: 1581671--1581745 Score: 123
Period size: 21 Copynumber: 3.6 Consensus size: 21
1581661 AATATGTAAA
*
1581671 TCGCAATGCGATAGTCGAAGT
1 TCGCATTGCGATAGTCGAAGT
*
1581692 TCGCATTGCGATAGTCCAAGT
1 TCGCATTGCGATAGTCGAAGT
1581713 TCGCATTGCGATAGTCGAAGT
1 TCGCATTGCGATAGTCGAAGT
*
1581734 TCGCGTTGCGAT
1 TCGCATTGCGAT
1581746 TTTCCAAATT
Statistics
Matches: 50, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
21 50 1.00
ACGTcount: A:0.23, C:0.21, G:0.28, T:0.28
Consensus pattern (21 bp):
TCGCATTGCGATAGTCGAAGT
Found at i:1581752 original size:42 final size:42
Alignment explanation
Indices: 1581671--1581757 Score: 129
Period size: 42 Copynumber: 2.1 Consensus size: 42
1581661 AATATGTAAA
*
1581671 TCGCAATGCGATAGTCGAAGTTCGCATTGCGATAGTCCAAGT
1 TCGCAATGCGATAGTCGAAGTTCGCATTGCGATAGTCCAAAT
* * **
1581713 TCGCATTGCGATAGTCGAAGTTCGCGTTGCGATTTTCCAAAT
1 TCGCAATGCGATAGTCGAAGTTCGCATTGCGATAGTCCAAAT
1581755 TCG
1 TCG
1581758 ACTATCACAT
Statistics
Matches: 40, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
42 40 1.00
ACGTcount: A:0.23, C:0.22, G:0.25, T:0.30
Consensus pattern (42 bp):
TCGCAATGCGATAGTCGAAGTTCGCATTGCGATAGTCCAAAT
Found at i:1582732 original size:20 final size:21
Alignment explanation
Indices: 1582661--1582732 Score: 96
Period size: 21 Copynumber: 3.6 Consensus size: 21
1582651 AATTTAGAAA
1582661 ATCGCAA--CGAACTTCGACT
1 ATCGCAATGCGAACTTCGACT
*
1582680 ATCGCAATGCGAACTTGGACT
1 ATCGCAATGCGAACTTCGACT
*
1582701 ATCGCAACGCGAACTT-GACT
1 ATCGCAATGCGAACTTCGACT
*
1582721 ATCGCATTGCGA
1 ATCGCAATGCGA
1582733 TTTATATATT
Statistics
Matches: 47, Mismatches: 4, Indels: 3
0.87 0.07 0.06
Matches are distributed among these distances:
19 7 0.15
20 14 0.30
21 26 0.55
ACGTcount: A:0.29, C:0.28, G:0.21, T:0.22
Consensus pattern (21 bp):
ATCGCAATGCGAACTTCGACT
Found at i:1582767 original size:21 final size:21
Alignment explanation
Indices: 1582741--1582794 Score: 81
Period size: 21 Copynumber: 2.6 Consensus size: 21
1582731 GATTTATATA
1582741 TTCGCATTGCGATAATCCAAG
1 TTCGCATTGCGATAATCCAAG
* *
1582762 TTCGCATTGCGATAGTCGAAG
1 TTCGCATTGCGATAATCCAAG
*
1582783 TTCGCGTTGCGA
1 TTCGCATTGCGA
1582795 ATCTAGAAAC
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.22, C:0.22, G:0.26, T:0.30
Consensus pattern (21 bp):
TTCGCATTGCGATAATCCAAG
Found at i:1583681 original size:187 final size:182
Alignment explanation
Indices: 1583362--1583698 Score: 464
Period size: 187 Copynumber: 1.8 Consensus size: 182
1583352 TTAAAGTACC
1583362 GATACTATGGTACATATACTTATAAAAGTATCGATACCGTCAACATATCTGATAGCGCTTTACCA
1 GATACTATGGTACATATACTTATAAAAGTATCGATACCGTCAACATATCTGATAGCGCTTTACCA
* * * *
1583427 GTTTTGTCAAATTAAAATCGGTTTTGTCAAATTTCAATATGTTATATTGTCATGTATCGATACAT
66 GCTTTGTCAAATTAAAACCAGTTTTGTCAAATTTCAATATGTTATATTATCATGTATCGATACAT
1583492 GTGTCTAAGGTATCGATACTTTATAAGCAATATTATTGCAATTCCTAGAGTATT
131 GTG--TAAGGTATCGATACTTTATAAGCAATATTATTGCAATTCCTAGAGTATT
* * ** *
1583546 GATACTTTGGTACATATATTTATAAAAGTATCGATACAAATTTCAACCAT-TCT-AGTAGCTCTT
1 GATACTATGGTACATATACTTATAAAAGTATCGATAC---CGTCAA-CATATCTGA-TAGCGCTT
** * *
1583609 TACTGGCTTTGTCAAATTGAAACCAGTTTTGTTAAATTTCAACT-TGTTATATTATCATGTATCG
61 TACCAGCTTTGTCAAATTAAAACCAGTTTTGTCAAATTTCAA-TATGTTATATTATCATGTATCG
1583673 ATACATGTGTAAGGTATCGATACTTT
125 ATACATGTGTAAGGTATCGATACTTT
1583699 CGAGACATTT
Statistics
Matches: 134, Mismatches: 13, Indels: 11
0.85 0.08 0.07
Matches are distributed among these distances:
184 35 0.26
185 17 0.13
186 1 0.01
187 77 0.57
188 4 0.03
ACGTcount: A:0.32, C:0.15, G:0.14, T:0.39
Consensus pattern (182 bp):
GATACTATGGTACATATACTTATAAAAGTATCGATACCGTCAACATATCTGATAGCGCTTTACCA
GCTTTGTCAAATTAAAACCAGTTTTGTCAAATTTCAATATGTTATATTATCATGTATCGATACAT
GTGTAAGGTATCGATACTTTATAAGCAATATTATTGCAATTCCTAGAGTATT
Found at i:1585915 original size:20 final size:20
Alignment explanation
Indices: 1585865--1585903 Score: 78
Period size: 20 Copynumber: 1.9 Consensus size: 20
1585855 GAAATAAATA
1585865 ACTTAGAATTTTATGTTAAG
1 ACTTAGAATTTTATGTTAAG
1585885 ACTTAGAATTTTATGTTAA
1 ACTTAGAATTTTATGTTAA
1585904 AGATATAAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.36, C:0.05, G:0.13, T:0.46
Consensus pattern (20 bp):
ACTTAGAATTTTATGTTAAG
Done.