Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008053.1 Hibiscus syriacus cultivar Beakdansim tig00110548_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: 6772376
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 26 of 32
Found at i:5300718 original size:152 final size:152
Alignment explanation
Indices: 5300551--5300854 Score: 608
Period size: 152 Copynumber: 2.0 Consensus size: 152
5300541 TCTTTTAGTA
5300551 AACAAATAAATTGTAGTTATTATATGATAATCAATATCCAAATATAAATCTAAGATTTTTCTTAT
1 AACAAATAAATTGTAGTTATTATATGATAATCAATATCCAAATATAAATCTAAGATTTTTCTTAT
5300616 ATATGATCCAAACATACTTATTTTTATTAAAGGTAAAAAAAATGAAAATCCAATTTTCATAGACT
66 ATATGATCCAAACATACTTATTTTTATTAAAGGTAAAAAAAATGAAAATCCAATTTTCATAGACT
5300681 TTGGTGTTTTTATTTTAGGATT
131 TTGGTGTTTTTATTTTAGGATT
5300703 AACAAATAAATTGTAGTTATTATATGATAATCAATATCCAAATATAAATCTAAGATTTTTCTTAT
1 AACAAATAAATTGTAGTTATTATATGATAATCAATATCCAAATATAAATCTAAGATTTTTCTTAT
5300768 ATATGATCCAAACATACTTATTTTTATTAAAGGTAAAAAAAATGAAAATCCAATTTTCATAGACT
66 ATATGATCCAAACATACTTATTTTTATTAAAGGTAAAAAAAATGAAAATCCAATTTTCATAGACT
5300833 TTGGTGTTTTTATTTTAGGATT
131 TTGGTGTTTTTATTTTAGGATT
5300855 TTTAAAAAGT
Statistics
Matches: 152, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
152 152 1.00
ACGTcount: A:0.41, C:0.09, G:0.09, T:0.41
Consensus pattern (152 bp):
AACAAATAAATTGTAGTTATTATATGATAATCAATATCCAAATATAAATCTAAGATTTTTCTTAT
ATATGATCCAAACATACTTATTTTTATTAAAGGTAAAAAAAATGAAAATCCAATTTTCATAGACT
TTGGTGTTTTTATTTTAGGATT
Found at i:5301127 original size:60 final size:60
Alignment explanation
Indices: 5301013--5301128 Score: 133
Period size: 60 Copynumber: 1.9 Consensus size: 60
5301003 TACTGTATGA
* * * * * * *
5301013 TATTATTTTGTTGAGTTCTTTAATTTTTAAAAATTATAAAATGATCTTCTAATTATAAGG
1 TATTATTTTGTTGAGTTCCTCAACTATTAAAAATTACAAAATGATCATCCAATTATAAGG
* * * *
5301073 TATTATTTTTTTGAGTTCCTCAACTATTACAAGTTACAAAATGGTCATCCAATTAT
1 TATTATTTTGTTGAGTTCCTCAACTATTAAAAATTACAAAATGATCATCCAATTAT
5301129 TCAATATGTT
Statistics
Matches: 45, Mismatches: 11, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
60 45 1.00
ACGTcount: A:0.34, C:0.10, G:0.09, T:0.47
Consensus pattern (60 bp):
TATTATTTTGTTGAGTTCCTCAACTATTAAAAATTACAAAATGATCATCCAATTATAAGG
Found at i:5301384 original size:15 final size:15
Alignment explanation
Indices: 5301364--5301396 Score: 66
Period size: 15 Copynumber: 2.2 Consensus size: 15
5301354 AATAGTCAAC
5301364 TCAACAAAGCAACAT
1 TCAACAAAGCAACAT
5301379 TCAACAAAGCAACAT
1 TCAACAAAGCAACAT
5301394 TCA
1 TCA
5301397 TCCTATAATC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.52, C:0.27, G:0.06, T:0.15
Consensus pattern (15 bp):
TCAACAAAGCAACAT
Found at i:5301836 original size:29 final size:29
Alignment explanation
Indices: 5301794--5301850 Score: 80
Period size: 29 Copynumber: 2.0 Consensus size: 29
5301784 AGTGTTAGCC
*
5301794 GTAGGTCGTCATGC-CTTCCGGACGACCTT
1 GTAGGTCATCATGCAC-TCCGGACGACCTT
*
5301823 GTAGGTCATCATGCACTCCGGGCGACCT
1 GTAGGTCATCATGCACTCCGGACGACCT
5301851 ACCCTTGCTC
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
29 24 0.96
30 1 0.04
ACGTcount: A:0.16, C:0.32, G:0.28, T:0.25
Consensus pattern (29 bp):
GTAGGTCATCATGCACTCCGGACGACCTT
Found at i:5302021 original size:33 final size:33
Alignment explanation
Indices: 5301951--5302021 Score: 79
Period size: 33 Copynumber: 2.2 Consensus size: 33
5301941 TACTCGCTCG
* * * * *
5301951 CTCGGATTCTCTCGCATAGCTCGCTCGGCTGCC
1 CTCGGATGCCCTCGCATAACTCGCTCGGATGAC
* *
5301984 CTCGGATGCCCTCGCATAACTCGTTCGGATGAT
1 CTCGGATGCCCTCGCATAACTCGCTCGGATGAC
5302017 CTCGG
1 CTCGG
5302022 TCGGATGACC
Statistics
Matches: 31, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
33 31 1.00
ACGTcount: A:0.13, C:0.35, G:0.25, T:0.27
Consensus pattern (33 bp):
CTCGGATGCCCTCGCATAACTCGCTCGGATGAC
Found at i:5306521 original size:2 final size:2
Alignment explanation
Indices: 5306514--5306548 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
5306504 GATCCCTATA
5306514 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT C
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT C
5306549 ATACATTATT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.00, C:0.51, G:0.00, T:0.49
Consensus pattern (2 bp):
CT
Found at i:5307818 original size:13 final size:15
Alignment explanation
Indices: 5307788--5307819 Score: 50
Period size: 13 Copynumber: 2.3 Consensus size: 15
5307778 TTTTACGTGA
5307788 TTTTCTATCTCATTC
1 TTTTCTATCTCATTC
5307803 TTTTCT-TCTC-TTC
1 TTTTCTATCTCATTC
5307816 TTTT
1 TTTT
5307820 GTACCAACTA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
13 7 0.41
14 4 0.24
15 6 0.35
ACGTcount: A:0.06, C:0.25, G:0.00, T:0.69
Consensus pattern (15 bp):
TTTTCTATCTCATTC
Found at i:5314689 original size:24 final size:24
Alignment explanation
Indices: 5314567--5314682 Score: 164
Period size: 24 Copynumber: 4.8 Consensus size: 24
5314557 TTCGATTTGA
5314567 ATTCTGATCTGATACTTGACATGG
1 ATTCTGATCTGATACTTGACATGG
5314591 ATTCTGATCTGATA-TCTGACATGG
1 ATTCTGATCTGATACT-TGACATGG
*
5314615 ATTCTGATCTGATACTTGACTTGG
1 ATTCTGATCTGATACTTGACATGG
* *
5314639 ATTCTGATCTGTTACTTGACCT-G
1 ATTCTGATCTGATACTTGACATGG
*
5314662 ATTTCTGATATGATACTTGAC
1 A-TTCTGATCTGATACTTGAC
5314683 CTGATTTATG
Statistics
Matches: 84, Mismatches: 5, Indels: 6
0.88 0.05 0.06
Matches are distributed among these distances:
23 3 0.04
24 80 0.95
25 1 0.01
ACGTcount: A:0.23, C:0.17, G:0.19, T:0.41
Consensus pattern (24 bp):
ATTCTGATCTGATACTTGACATGG
Found at i:5314705 original size:24 final size:24
Alignment explanation
Indices: 5314619--5314692 Score: 78
Period size: 24 Copynumber: 3.1 Consensus size: 24
5314609 ACATGGATTC
* * *
5314619 TGATCTGATACTTGACTTGGA-TTC
1 TGATATGATACTTGACCT-GATTTA
* * *
5314643 TGATCTGTTACTTGACCTGATTTC
1 TGATATGATACTTGACCTGATTTA
5314667 TGATATGATACTTGACCTGATTTA
1 TGATATGATACTTGACCTGATTTA
5314691 TG
1 TG
5314693 TTTTGATTTT
Statistics
Matches: 44, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
23 2 0.05
24 42 0.95
ACGTcount: A:0.22, C:0.16, G:0.19, T:0.43
Consensus pattern (24 bp):
TGATATGATACTTGACCTGATTTA
Found at i:5318594 original size:16 final size:16
Alignment explanation
Indices: 5318569--5318605 Score: 65
Period size: 16 Copynumber: 2.3 Consensus size: 16
5318559 TAAGAATCAG
*
5318569 GTCAGCCAAGTTTAGT
1 GTCAGACAAGTTTAGT
5318585 GTCAGACAAGTTTAGT
1 GTCAGACAAGTTTAGT
5318601 GTCAG
1 GTCAG
5318606 TCATAAAAGC
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.27, C:0.16, G:0.27, T:0.30
Consensus pattern (16 bp):
GTCAGACAAGTTTAGT
Found at i:5325202 original size:12 final size:13
Alignment explanation
Indices: 5325178--5325206 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
5325168 TATTAAAGAG
5325178 ATAATATTAAATT
1 ATAATATTAAATT
5325191 ATAATA-TAAATT
1 ATAATATTAAATT
5325203 ATAA
1 ATAA
5325207 AACAAATATG
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 10 0.62
13 6 0.38
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (13 bp):
ATAATATTAAATT
Found at i:5335382 original size:15 final size:16
Alignment explanation
Indices: 5335350--5335388 Score: 55
Period size: 16 Copynumber: 2.5 Consensus size: 16
5335340 CATAAATTTT
5335350 TTTAAAAATATTATAA
1 TTTAAAAATATTATAA
5335366 TTTAAAACAT-TTA-AA
1 TTTAAAA-ATATTATAA
5335381 TTTAAAAA
1 TTTAAAAA
5335389 AAAATTATTT
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
14 1 0.05
15 9 0.41
16 10 0.45
17 2 0.09
ACGTcount: A:0.56, C:0.03, G:0.00, T:0.41
Consensus pattern (16 bp):
TTTAAAAATATTATAA
Found at i:5337769 original size:34 final size:34
Alignment explanation
Indices: 5337731--5337798 Score: 127
Period size: 34 Copynumber: 2.0 Consensus size: 34
5337721 CATATTTAAA
5337731 ATAATTGTTTAAAGACATTTGATGTTTTAATAGT
1 ATAATTGTTTAAAGACATTTGATGTTTTAATAGT
*
5337765 ATAATTGTTTAAATACATTTGATGTTTTAATAGT
1 ATAATTGTTTAAAGACATTTGATGTTTTAATAGT
5337799 TGTTTAGGGA
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 33 1.00
ACGTcount: A:0.35, C:0.03, G:0.13, T:0.49
Consensus pattern (34 bp):
ATAATTGTTTAAAGACATTTGATGTTTTAATAGT
Found at i:5337790 original size:17 final size:17
Alignment explanation
Indices: 5337736--5337796 Score: 52
Period size: 17 Copynumber: 3.6 Consensus size: 17
5337726 TTAAAATAAT
*
5337736 TGTTTAAAGACATTTGA
1 TGTTTAAATACATTTGA
* * * *
5337753 TGTTTTAATA-GTATAA
1 TGTTTAAATACATTTGA
5337769 TTGTTTAAATACATTTGA
1 -TGTTTAAATACATTTGA
*
5337787 TGTTTTAATA
1 TGTTTAAATA
5337797 GTTGTTTAGG
Statistics
Matches: 32, Mismatches: 10, Indels: 4
0.70 0.22 0.09
Matches are distributed among these distances:
16 3 0.09
17 26 0.81
18 3 0.09
ACGTcount: A:0.34, C:0.03, G:0.13, T:0.49
Consensus pattern (17 bp):
TGTTTAAATACATTTGA
Found at i:5348939 original size:16 final size:16
Alignment explanation
Indices: 5348897--5348936 Score: 59
Period size: 16 Copynumber: 2.7 Consensus size: 16
5348887 TATTGTTTGA
5348897 ATAC-ATTTTTATGTT
1 ATACTATTTTTATGTT
5348912 ATACTATTTTTATG-T
1 ATACTATTTTTATGTT
5348927 ATA-TATTTTT
1 ATACTATTTTT
5348937 TTAATAATGA
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
14 7 0.29
15 8 0.33
16 9 0.38
ACGTcount: A:0.28, C:0.05, G:0.05, T:0.62
Consensus pattern (16 bp):
ATACTATTTTTATGTT
Found at i:5351176 original size:21 final size:21
Alignment explanation
Indices: 5351152--5351191 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
5351142 AACAAGGTAA
* *
5351152 GAAAACAAATAAGATAAAAGG
1 GAAAACAAAAAAAATAAAAGG
*
5351173 GAAAATAAAAAAAATAAAA
1 GAAAACAAAAAAAATAAAA
5351192 TAAAAATAAG
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.75, C:0.03, G:0.12, T:0.10
Consensus pattern (21 bp):
GAAAACAAAAAAAATAAAAGG
Found at i:5351792 original size:18 final size:17
Alignment explanation
Indices: 5351769--5351811 Score: 61
Period size: 18 Copynumber: 2.5 Consensus size: 17
5351759 ATATATACAT
5351769 ATAATAATAATAACATGA
1 ATAATAATAATAA-ATGA
*
5351787 ATAATAAAAATAAATGA
1 ATAATAATAATAAATGA
5351804 ATAA-AATA
1 ATAATAATA
5351812 TCTATATAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
16 3 0.13
17 8 0.35
18 12 0.52
ACGTcount: A:0.67, C:0.02, G:0.05, T:0.26
Consensus pattern (17 bp):
ATAATAATAATAAATGA
Found at i:5352218 original size:37 final size:37
Alignment explanation
Indices: 5352168--5352272 Score: 138
Period size: 37 Copynumber: 2.8 Consensus size: 37
5352158 GTGCTTGTGG
* * * *
5352168 ATCCTATCTTTAGGAATTTAAATCTTAGTAGAACTCT
1 ATCCTATTTTTAGGAGTTTGAATCCTAGTAGAACTCT
* * * *
5352205 ATCCTATTTTTAGGAGTTTGAATCCTAGCAAAAGTTT
1 ATCCTATTTTTAGGAGTTTGAATCCTAGTAGAACTCT
5352242 ATCCTATTTTTAGGAGTTTGAATCCTAGTAG
1 ATCCTATTTTTAGGAGTTTGAATCCTAGTAG
5352273 GACGAAAATG
Statistics
Matches: 58, Mismatches: 10, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
37 58 1.00
ACGTcount: A:0.30, C:0.14, G:0.15, T:0.41
Consensus pattern (37 bp):
ATCCTATTTTTAGGAGTTTGAATCCTAGTAGAACTCT
Found at i:5352229 original size:21 final size:21
Alignment explanation
Indices: 5352205--5352268 Score: 57
Period size: 21 Copynumber: 3.3 Consensus size: 21
5352195 GTAGAACTCT
5352205 ATCCTATTTTTAGGAGTTTGA
1 ATCCTATTTTTAGGAGTTTGA
** **
5352226 ATCCTA---GCAAAAGTTT--
1 ATCCTATTTTTAGGAGTTTGA
5352242 ATCCTATTTTTAGGAGTTTGA
1 ATCCTATTTTTAGGAGTTTGA
5352263 ATCCTA
1 ATCCTA
5352269 GTAGGACGAA
Statistics
Matches: 30, Mismatches: 8, Indels: 10
0.62 0.17 0.21
Matches are distributed among these distances:
16 6 0.20
18 6 0.20
19 6 0.20
21 12 0.40
ACGTcount: A:0.28, C:0.14, G:0.16, T:0.42
Consensus pattern (21 bp):
ATCCTATTTTTAGGAGTTTGA
Found at i:5353146 original size:105 final size:105
Alignment explanation
Indices: 5352964--5353582 Score: 957
Period size: 105 Copynumber: 6.0 Consensus size: 105
5352954 GCATTGTTCA
* * ** *
5352964 GAGTCCAATATCCTCCGTCGTGAAGTTGAAATTGAATTTG-AA-TGA-AA-TT-TTGTTGACAAG
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTGTTGACAAG
5353024 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
66 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* *
5353064 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAGATTGGGAAGTTGTTGTTGACAAG
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTGTTGACAAG
*
5353129 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCATTGTCTG
66 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
** *
5353169 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGCGATTGGGAAGTTGTTGTTGACAAG
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTGTTGACAAG
*
5353234 CAGTGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
66 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
*
5353274 AAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTGTTGACAAG
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTGTTGACAAG
*
5353339 CAGCGGTCCGTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
66 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* * * *
5353379 AAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGTTCAGAAATTGAGAA---GTTGTTGACAGG
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTGTTGACAAG
*
5353441 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTT
66 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
5353481 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAA
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTG-TTGTTGACAA
* ** * *
5353546 CCAGTTGTCCCTTCGTTGTGAAGTTGAACTTGTGTTG
65 GCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTG
5353583 CCTCGAGTGC
Statistics
Matches: 479, Mismatches: 31, Indels: 12
0.92 0.06 0.02
Matches are distributed among these distances:
100 35 0.07
101 1 0.00
102 98 0.20
103 2 0.00
104 2 0.00
105 300 0.63
106 41 0.09
ACGTcount: A:0.22, C:0.17, G:0.27, T:0.34
Consensus pattern (105 bp):
GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTGTTGACAAG
CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
Found at i:5354327 original size:67 final size:65
Alignment explanation
Indices: 5354229--5354381 Score: 184
Period size: 67 Copynumber: 2.3 Consensus size: 65
5354219 TATCTGTTGG
* * ** *
5354229 TTCATGAGAAACGGTCTCAAGGGAAACAAAATTATG-TTTAAGGGAAATAAATTTGAAGATTTTG
1 TTCAAGAGAAACTGTCTCAAGGGAAACAAAATT-TGTTTTAAGGGAAATAAATTCAAAG-GTTT-
5354293 TGT
63 TGT
* *
5354296 TTCAAGAGTAACTGTCTCAAGGGAGAA-AAAATTTGTTTTAGGGGAAATAAATTCAAAGGTTTTG
1 TTCAAGAGAAACTGTCTCAAGGGA-AACAAAATTTGTTTTAAGGGAAATAAATTCAAAGGTTTTG
5354360 T
65 T
*
5354361 TTCAAGGGAAACTGTCTCAAG
1 TTCAAGAGAAACTGTCTCAAG
5354382 ATAGACGAAA
Statistics
Matches: 75, Mismatches: 9, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
65 22 0.29
66 5 0.07
67 46 0.61
68 2 0.03
ACGTcount: A:0.37, C:0.09, G:0.23, T:0.31
Consensus pattern (65 bp):
TTCAAGAGAAACTGTCTCAAGGGAAACAAAATTTGTTTTAAGGGAAATAAATTCAAAGGTTTTGT
Found at i:5354397 original size:65 final size:66
Alignment explanation
Indices: 5354229--5354407 Score: 166
Period size: 67 Copynumber: 2.7 Consensus size: 66
5354219 TATCTGTTGG
* * * * ** *
5354229 TTCATGAGAAACGGTCTCAAGGGA-AACAAAATTATGTTTAAGGGAAATAAATTTGAAGATTTTG
1 TTCAAGAGAAACTGTCTCAAGAGAGAA-AAAATTGT-TTTAAGGGAAATAAATTCAAAGAGTTTG
5354293 TGT
64 TGT
* * *
5354296 TTCAAGAGTAACTGTCTCAAGGGAGAAAAAATTTGTTTTAGGGGAAATAAATTCAAAG-GTTT-T
1 TTCAAGAGAAACTGTCTCAAGAGAGAAAAAA-TTGTTTTAAGGGAAATAAATTCAAAGAGTTTGT
5354359 GT
65 GT
* * * * *
5354361 TTCAAGGGAAACTGTCTCAAGATAGACGAAAATTGTTTCAAGAGAAA
1 TTCAAGAGAAACTGTCTCAAGAGAGA-AAAAATTGTTTTAAGGGAAA
5354408 CTGTCTTAAG
Statistics
Matches: 93, Mismatches: 16, Indels: 8
0.79 0.14 0.07
Matches are distributed among these distances:
65 37 0.40
66 7 0.08
67 44 0.47
68 5 0.05
ACGTcount: A:0.39, C:0.09, G:0.22, T:0.30
Consensus pattern (66 bp):
TTCAAGAGAAACTGTCTCAAGAGAGAAAAAATTGTTTTAAGGGAAATAAATTCAAAGAGTTTGTG
T
Found at i:5354408 original size:36 final size:36
Alignment explanation
Indices: 5354357--5354480 Score: 144
Period size: 36 Copynumber: 3.4 Consensus size: 36
5354347 TTCAAAGGTT
*
5354357 TTGTTTCAAGGGAAACTGTCTCAAGATAGACGAAAA
1 TTGTTTCAAGGGAAACTGTCTCAAGAGAGACGAAAA
* *
5354393 TTGTTTCAAGAGAAACTGTCTTAAGAGAGAC-AAAA
1 TTGTTTCAAGGGAAACTGTCTCAAGAGAGACGAAAA
* * *
5354428 CTTAGTTCCAAGGGAAAACTATCTC-AGAGAGACGAAAT
1 -TT-GTTTCAAGGG-AAACTGTCTCAAGAGAGACGAAAA
*
5354466 TTATTTCAAGGGAAA
1 TTGTTTCAAGGGAAA
5354481 TGTTTTCAAT
Statistics
Matches: 74, Mismatches: 10, Indels: 9
0.80 0.11 0.10
Matches are distributed among these distances:
35 7 0.09
36 38 0.51
37 18 0.24
38 11 0.15
ACGTcount: A:0.40, C:0.14, G:0.21, T:0.25
Consensus pattern (36 bp):
TTGTTTCAAGGGAAACTGTCTCAAGAGAGACGAAAA
Found at i:5355445 original size:22 final size:22
Alignment explanation
Indices: 5355419--5355472 Score: 108
Period size: 22 Copynumber: 2.5 Consensus size: 22
5355409 TTGTGTTTGG
5355419 TCAAAGGTTTGGCATTTGATGC
1 TCAAAGGTTTGGCATTTGATGC
5355441 TCAAAGGTTTGGCATTTGATGC
1 TCAAAGGTTTGGCATTTGATGC
5355463 TCAAAGGTTT
1 TCAAAGGTTT
5355473 ATGGGATAGC
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 32 1.00
ACGTcount: A:0.24, C:0.13, G:0.26, T:0.37
Consensus pattern (22 bp):
TCAAAGGTTTGGCATTTGATGC
Found at i:5356083 original size:11 final size:11
Alignment explanation
Indices: 5356069--5356123 Score: 74
Period size: 11 Copynumber: 5.0 Consensus size: 11
5356059 TTTTTGTCCC
5356069 TTTTTCTTTTT
1 TTTTTCTTTTT
* *
5356080 TTTTTGTTCTT
1 TTTTTCTTTTT
*
5356091 TTTTGCTTTTT
1 TTTTTCTTTTT
*
5356102 TTTTGCTTTTT
1 TTTTTCTTTTT
5356113 TTTTTCTTTTT
1 TTTTTCTTTTT
5356124 GCCCTTTTTA
Statistics
Matches: 38, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
11 38 1.00
ACGTcount: A:0.00, C:0.09, G:0.05, T:0.85
Consensus pattern (11 bp):
TTTTTCTTTTT
Found at i:5356085 original size:21 final size:20
Alignment explanation
Indices: 5356059--5356132 Score: 66
Period size: 21 Copynumber: 3.7 Consensus size: 20
5356049 TTTGCATGTG
5356059 TTTTTGTCCCTTTTTCTTTTT
1 TTTTTG-CCCTTTTTCTTTTT
**
5356080 TTTTTGTTCTTTTT-TGCTTTT
1 TTTTTGCCCTTTTTCT--TTTT
5356101 TTTTTG--CTTTTT-TTTTT
1 TTTTTGCCCTTTTTCTTTTT
5356118 CTTTTTGCCCTTTTT
1 -TTTTTGCCCTTTTT
5356133 ATTCTGATTA
Statistics
Matches: 46, Mismatches: 2, Indels: 11
0.78 0.03 0.19
Matches are distributed among these distances:
17 4 0.09
18 6 0.13
19 8 0.17
20 12 0.26
21 16 0.35
ACGTcount: A:0.00, C:0.15, G:0.07, T:0.78
Consensus pattern (20 bp):
TTTTTGCCCTTTTTCTTTTT
Found at i:5356099 original size:8 final size:7
Alignment explanation
Indices: 5356069--5356123 Score: 51
Period size: 7 Copynumber: 7.6 Consensus size: 7
5356059 TTTTTGTCCC
5356069 TTTTTCT
1 TTTTTCT
5356076 TTTTT-T
1 TTTTTCT
5356082 TTTGTTCT
1 TTT-TTCT
5356090 TTTTTGCT
1 TTTTT-CT
5356098 TTTTT-T
1 TTTTTCT
*
5356104 TTGCTTTTT
1 TT--TTTCT
5356113 TTTTTCT
1 TTTTTCT
5356120 TTTT
1 TTTT
5356124 GCCCTTTTTA
Statistics
Matches: 41, Mismatches: 1, Indels: 12
0.76 0.02 0.22
Matches are distributed among these distances:
6 7 0.17
7 17 0.41
8 14 0.34
9 3 0.07
ACGTcount: A:0.00, C:0.09, G:0.05, T:0.85
Consensus pattern (7 bp):
TTTTTCT
Found at i:5359990 original size:36 final size:38
Alignment explanation
Indices: 5359925--5360000 Score: 104
Period size: 38 Copynumber: 2.1 Consensus size: 38
5359915 AAAAAATATA
*
5359925 TATATATATACATCAAAGTATTAATAAAATA-AATAAGC
1 TATATATATACACCAAAGTATTAATAAAATAGAA-AAGC
*
5359963 TATATATATACACCAAA-TATTTA-AAAATAGAAAAGC
1 TATATATATACACCAAAGTATTAATAAAATAGAAAAGC
5359999 TA
1 TA
5360001 CCCTCTCACT
Statistics
Matches: 35, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
36 12 0.34
37 7 0.20
38 16 0.46
ACGTcount: A:0.55, C:0.09, G:0.05, T:0.30
Consensus pattern (38 bp):
TATATATATACACCAAAGTATTAATAAAATAGAAAAGC
Found at i:5360203 original size:2 final size:2
Alignment explanation
Indices: 5360161--5360187 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
5360151 AACGAAAATA
5360161 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
5360188 AAATTATAAG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:5360458 original size:17 final size:16
Alignment explanation
Indices: 5360438--5360480 Score: 52
Period size: 17 Copynumber: 2.6 Consensus size: 16
5360428 ATTATATAAT
5360438 ATAATAATATAACATGA
1 ATAATAATATAA-ATGA
*
5360455 ATAATAAAAATAAATGA
1 ATAAT-AATATAAATGA
5360472 ATAA-AATAT
1 ATAATAATAT
5360481 CTATAATAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
15 4 0.17
17 13 0.57
18 6 0.26
ACGTcount: A:0.65, C:0.02, G:0.05, T:0.28
Consensus pattern (16 bp):
ATAATAATATAAATGA
Found at i:5360882 original size:37 final size:37
Alignment explanation
Indices: 5360832--5360936 Score: 138
Period size: 37 Copynumber: 2.8 Consensus size: 37
5360822 GTGCTTGTGG
* * * *
5360832 ATCCTATCTTTAGGAATTTAAATCTTAGTAGAACTCT
1 ATCCTATTTTTAGGAGTTTGAATCCTAGTAGAACTCT
* * * *
5360869 ATCCTATTTTTAGGAGTTTGAATCCTAGCAAAAGTTT
1 ATCCTATTTTTAGGAGTTTGAATCCTAGTAGAACTCT
5360906 ATCCTATTTTTAGGAGTTTGAATCCTAGTAG
1 ATCCTATTTTTAGGAGTTTGAATCCTAGTAG
5360937 GACGAAAATG
Statistics
Matches: 58, Mismatches: 10, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
37 58 1.00
ACGTcount: A:0.30, C:0.14, G:0.15, T:0.41
Consensus pattern (37 bp):
ATCCTATTTTTAGGAGTTTGAATCCTAGTAGAACTCT
Found at i:5360893 original size:21 final size:21
Alignment explanation
Indices: 5360869--5360932 Score: 57
Period size: 21 Copynumber: 3.3 Consensus size: 21
5360859 GTAGAACTCT
5360869 ATCCTATTTTTAGGAGTTTGA
1 ATCCTATTTTTAGGAGTTTGA
** **
5360890 ATCCTA---GCAAAAGTTT--
1 ATCCTATTTTTAGGAGTTTGA
5360906 ATCCTATTTTTAGGAGTTTGA
1 ATCCTATTTTTAGGAGTTTGA
5360927 ATCCTA
1 ATCCTA
5360933 GTAGGACGAA
Statistics
Matches: 30, Mismatches: 8, Indels: 10
0.62 0.17 0.21
Matches are distributed among these distances:
16 6 0.20
18 6 0.20
19 6 0.20
21 12 0.40
ACGTcount: A:0.28, C:0.14, G:0.16, T:0.42
Consensus pattern (21 bp):
ATCCTATTTTTAGGAGTTTGA
Found at i:5361546 original size:2 final size:2
Alignment explanation
Indices: 5361539--5361567 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
5361529 TTAGCAGCAC
5361539 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
5361568 GACAAAAAAT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:5362560 original size:2 final size:2
Alignment explanation
Indices: 5362553--5362583 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
5362543 CCAAGTTGTC
5362553 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
5362584 CTGCTGGTAT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:5362612 original size:90 final size:90
Alignment explanation
Indices: 5362493--5362661 Score: 320
Period size: 90 Copynumber: 1.9 Consensus size: 90
5362483 ATGAGATTAA
*
5362493 ACTGCTGGTATGATTATTAATTTATATATACAAACTTGGACGAAAAGAAACCAAGTTGTCATATA
1 ACTGCTGGTATGATTATTAATTTATATATAAAAACTTGGACGAAAAGAAACCAAGTTGTCATATA
5362558 TATATATATATATATATATATATAT
66 TATATATATATATATATATATATAT
*
5362583 ACTGCTGGTATGATTATTAATTTATATATAAAAACTTGGACGAAAAGAAACCATGTTGTCATATA
1 ACTGCTGGTATGATTATTAATTTATATATAAAAACTTGGACGAAAAGAAACCAAGTTGTCATATA
5362648 TATATATATATATA
66 TATATATATATATA
5362662 CTCACAAGTT
Statistics
Matches: 77, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
90 77 1.00
ACGTcount: A:0.42, C:0.09, G:0.12, T:0.37
Consensus pattern (90 bp):
ACTGCTGGTATGATTATTAATTTATATATAAAAACTTGGACGAAAAGAAACCAAGTTGTCATATA
TATATATATATATATATATATATAT
Found at i:5366926 original size:15 final size:15
Alignment explanation
Indices: 5366906--5366941 Score: 63
Period size: 15 Copynumber: 2.4 Consensus size: 15
5366896 AAAAGATATA
*
5366906 ATAAAATACAATTAT
1 ATAAAATAAAATTAT
5366921 ATAAAATAAAATTAT
1 ATAAAATAAAATTAT
5366936 ATAAAA
1 ATAAAA
5366942 AATGAGTGGA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.67, C:0.03, G:0.00, T:0.31
Consensus pattern (15 bp):
ATAAAATAAAATTAT
Found at i:5367265 original size:20 final size:20
Alignment explanation
Indices: 5367240--5367281 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
5367230 CTCCTCTCTT
*
5367240 TTTTATATTA-TATTATTTTA
1 TTTTATATAATTA-TATTTTA
5367260 TTTTATATAATTATATTTTA
1 TTTTATATAATTATATTTTA
5367280 TT
1 TT
5367282 CTATCTTTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
20 18 0.90
21 2 0.10
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (20 bp):
TTTTATATAATTATATTTTA
Found at i:5367276 original size:15 final size:15
Alignment explanation
Indices: 5367247--5367280 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
5367237 CTTTTTTATA
* *
5367247 TTATATTATTTTATT
1 TTATATAATTATATT
5367262 TTATATAATTATATT
1 TTATATAATTATATT
5367277 TTAT
1 TTAT
5367281 TCTATCTTTT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (15 bp):
TTATATAATTATATT
Found at i:5370295 original size:60 final size:61
Alignment explanation
Indices: 5370228--5370368 Score: 189
Period size: 60 Copynumber: 2.4 Consensus size: 61
5370218 TCGAGTAACT
** *
5370228 ATTTTATAACTTTTAAAT-GTCGAATGACTCAACAAAGCAGTGCCCTATCGTTGGGAGACC
1 ATTTTATAACTTTTAAATAGTCGAATGACTCAACAAAGCAGCACCCTATAGTTGGGAGACC
* * * *
5370288 ATTTTATAACCTTT-AATAGTTGAATGACTCAACAAAGTAGCACCTTATAGTTGGGAGACC
1 ATTTTATAACTTTTAAATAGTCGAATGACTCAACAAAGCAGCACCCTATAGTTGGGAGACC
*
5370348 ATTTTATGACTTTT-AATAGTC
1 ATTTTATAACTTTTAAATAGTC
5370369 AGTAGACTTA
Statistics
Matches: 70, Mismatches: 10, Indels: 2
0.85 0.12 0.02
Matches are distributed among these distances:
59 3 0.04
60 67 0.96
ACGTcount: A:0.33, C:0.17, G:0.16, T:0.34
Consensus pattern (61 bp):
ATTTTATAACTTTTAAATAGTCGAATGACTCAACAAAGCAGCACCCTATAGTTGGGAGACC
Found at i:5378452 original size:165 final size:166
Alignment explanation
Indices: 5378180--5378511 Score: 657
Period size: 165 Copynumber: 2.0 Consensus size: 166
5378170 GATCACTTGA
5378180 TTATTAAATTACAAATGGGTAATAATATGAATTGTTTTATTAATTTTATTCAACACTGTATCGTA
1 TTATTAAATTACAAATGGGTAATAATATGAATTGTTTTATTAATTTTATTCAACACTGTATCGTA
5378245 AAAAAATTAATTTTATTAATGCCTTTTTATCACGATGTCGTTTTAACATTCAATGAGCAAAATAT
66 AAAAAATTAATTTTATTAATGCCTTTTTATCACGATGTCGTTTTAACATTCAATGAGCAAAATAT
5378310 GTAGC-AATATTAGTTATGAAATTAATAATTTATCC
131 GTAGCAAATATTAGTTATGAAATTAATAATTTATCC
5378345 TTATTAAATTACAAATGGGTAATAATATGAATTGTTTTATTAATTTTATTCAACACTGTATCGTA
1 TTATTAAATTACAAATGGGTAATAATATGAATTGTTTTATTAATTTTATTCAACACTGTATCGTA
5378410 AAAAAATTAATTTTATTAATGCCTTTTTATCACGATGTCGTTTTAACATTCAATGAGCAAAATAT
66 AAAAAATTAATTTTATTAATGCCTTTTTATCACGATGTCGTTTTAACATTCAATGAGCAAAATAT
5378475 GTAGCAAATATTAGTTATGAAATTAATAATTTATCC
131 GTAGCAAATATTAGTTATGAAATTAATAATTTATCC
5378511 T
1 T
5378512 AAAAAATTAG
Statistics
Matches: 166, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
165 135 0.81
166 31 0.19
ACGTcount: A:0.38, C:0.10, G:0.10, T:0.42
Consensus pattern (166 bp):
TTATTAAATTACAAATGGGTAATAATATGAATTGTTTTATTAATTTTATTCAACACTGTATCGTA
AAAAAATTAATTTTATTAATGCCTTTTTATCACGATGTCGTTTTAACATTCAATGAGCAAAATAT
GTAGCAAATATTAGTTATGAAATTAATAATTTATCC
Found at i:5380270 original size:6 final size:6
Alignment explanation
Indices: 5380259--5380285 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
5380249 AATCACAAAC
5380259 ATAAAT ATAAAT ATAAAT ATAAAT ATA
1 ATAAAT ATAAAT ATAAAT ATAAAT ATA
5380286 TTAAAAATAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (6 bp):
ATAAAT
Found at i:5381439 original size:15 final size:15
Alignment explanation
Indices: 5381419--5381470 Score: 68
Period size: 15 Copynumber: 3.5 Consensus size: 15
5381409 ATATTTAGTT
5381419 GGGCGGGCAGATGAG
1 GGGCGGGCAGATGAG
** *
5381434 GGGCGGGTGGATGCG
1 GGGCGGGCAGATGAG
*
5381449 GTGCGGGCAGATGAG
1 GGGCGGGCAGATGAG
5381464 GGGCGGG
1 GGGCGGG
5381471 TGGATGCGGT
Statistics
Matches: 29, Mismatches: 8, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
15 29 1.00
ACGTcount: A:0.13, C:0.13, G:0.63, T:0.10
Consensus pattern (15 bp):
GGGCGGGCAGATGAG
Found at i:5381457 original size:30 final size:30
Alignment explanation
Indices: 5381421--5381484 Score: 128
Period size: 30 Copynumber: 2.1 Consensus size: 30
5381411 ATTTAGTTGG
5381421 GCGGGCAGATGAGGGGCGGGTGGATGCGGT
1 GCGGGCAGATGAGGGGCGGGTGGATGCGGT
5381451 GCGGGCAGATGAGGGGCGGGTGGATGCGGT
1 GCGGGCAGATGAGGGGCGGGTGGATGCGGT
5381481 GCGG
1 GCGG
5381485 ATGCGGGGCG
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 34 1.00
ACGTcount: A:0.12, C:0.14, G:0.61, T:0.12
Consensus pattern (30 bp):
GCGGGCAGATGAGGGGCGGGTGGATGCGGT
Found at i:5381476 original size:15 final size:15
Alignment explanation
Indices: 5381428--5381476 Score: 62
Period size: 15 Copynumber: 3.3 Consensus size: 15
5381418 TGGGCGGGCA
5381428 GATGAGGGGCGGGTG
1 GATGAGGGGCGGGTG
* * **
5381443 GATGCGGTGCGGGCA
1 GATGAGGGGCGGGTG
5381458 GATGAGGGGCGGGTG
1 GATGAGGGGCGGGTG
5381473 GATG
1 GATG
5381477 CGGTGCGGAT
Statistics
Matches: 26, Mismatches: 8, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
15 26 1.00
ACGTcount: A:0.14, C:0.10, G:0.61, T:0.14
Consensus pattern (15 bp):
GATGAGGGGCGGGTG
Found at i:5381484 original size:15 final size:15
Alignment explanation
Indices: 5381436--5381484 Score: 62
Period size: 15 Copynumber: 3.3 Consensus size: 15
5381426 CAGATGAGGG
5381436 GCGGGTGGATGCGGT
1 GCGGGTGGATGCGGT
** * *
5381451 GCGGGCAGATGAGGG
1 GCGGGTGGATGCGGT
5381466 GCGGGTGGATGCGGT
1 GCGGGTGGATGCGGT
5381481 GCGG
1 GCGG
5381485 ATGCGGGGCG
Statistics
Matches: 26, Mismatches: 8, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
15 26 1.00
ACGTcount: A:0.10, C:0.14, G:0.61, T:0.14
Consensus pattern (15 bp):
GCGGGTGGATGCGGT
Found at i:5389567 original size:14 final size:13
Alignment explanation
Indices: 5389548--5389586 Score: 51
Period size: 14 Copynumber: 2.8 Consensus size: 13
5389538 TATATGGATA
5389548 TTTTATTCATTTAT
1 TTTTATT-ATTTAT
5389562 TTTTATTATTTAT
1 TTTTATTATTTAT
5389575 GTTATTATTATT
1 -TT-TTATTATT
5389587 ATATATATAT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
13 6 0.26
14 9 0.39
15 8 0.35
ACGTcount: A:0.23, C:0.03, G:0.03, T:0.72
Consensus pattern (13 bp):
TTTTATTATTTAT
Found at i:5389585 original size:18 final size:17
Alignment explanation
Indices: 5389546--5389588 Score: 52
Period size: 18 Copynumber: 2.5 Consensus size: 17
5389536 ATTATATGGA
5389546 TATT-TTATTCATTTAT
1 TATTATTATTCATTTAT
* *
5389562 TTTTATTATTTATGTTAT
1 TATTATTATTCAT-TTAT
5389580 TATTATTAT
1 TATTATTAT
5389589 ATATATATAT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
16 3 0.14
17 7 0.32
18 12 0.55
ACGTcount: A:0.26, C:0.02, G:0.02, T:0.70
Consensus pattern (17 bp):
TATTATTATTCATTTAT
Found at i:5389994 original size:2 final size:2
Alignment explanation
Indices: 5389989--5390021 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
5389979 TACTTTGATG
5389989 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
5390022 TTCCTTTTTC
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:5390094 original size:9 final size:9
Alignment explanation
Indices: 5390073--5390106 Score: 52
Period size: 9 Copynumber: 3.8 Consensus size: 9
5390063 ATTTTTTTCC
5390073 TTTATCTTA-
1 TTTAT-TTAT
5390082 TTTATTTAT
1 TTTATTTAT
5390091 TTTATTTAT
1 TTTATTTAT
5390100 TTTATTT
1 TTTATTT
5390107 TTCCCTTTTA
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
8 3 0.12
9 21 0.88
ACGTcount: A:0.21, C:0.03, G:0.00, T:0.76
Consensus pattern (9 bp):
TTTATTTAT
Found at i:5390095 original size:13 final size:14
Alignment explanation
Indices: 5390073--5390107 Score: 54
Period size: 13 Copynumber: 2.6 Consensus size: 14
5390063 ATTTTTTTCC
*
5390073 TTTATCTTATTTA-
1 TTTATTTTATTTAT
5390086 TTTATTTTATTTAT
1 TTTATTTTATTTAT
5390100 TTTATTTT
1 TTTATTTT
5390108 TCCCTTTTAC
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
13 12 0.60
14 8 0.40
ACGTcount: A:0.20, C:0.03, G:0.00, T:0.77
Consensus pattern (14 bp):
TTTATTTTATTTAT
Found at i:5393138 original size:22 final size:23
Alignment explanation
Indices: 5393115--5393168 Score: 85
Period size: 23 Copynumber: 2.4 Consensus size: 23
5393105 CAAAAAGGGC
5393115 AAAAAGAAAAAAGAA-AAGAAGCA
1 AAAAAGAAAAAA-AACAAGAAGCA
5393138 AAAAAGAAAAAAAACAAGAA-CA
1 AAAAAGAAAAAAAACAAGAAGCA
5393160 AAAAAGAAA
1 AAAAAGAAA
5393169 GAACAAAAAA
Statistics
Matches: 30, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
22 13 0.43
23 17 0.57
ACGTcount: A:0.81, C:0.06, G:0.13, T:0.00
Consensus pattern (23 bp):
AAAAAGAAAAAAAACAAGAAGCA
Found at i:5393173 original size:20 final size:22
Alignment explanation
Indices: 5393113--5393174 Score: 67
Period size: 22 Copynumber: 2.9 Consensus size: 22
5393103 AACAAAAAGG
*
5393113 GCAAAAAGAAAAAAGAA-AAGAA
1 GCAAAAA-AGAAAAGAACAAGAA
*
5393135 GCAAAAAAGAAAAAAAACAAGAA
1 GCAAAAAAG-AAAAGAACAAGAA
5393158 -CAAAAAAG-AAAGAACAA
1 GCAAAAAAGAAAAGAACAA
5393175 AAAATAAAAA
Statistics
Matches: 35, Mismatches: 3, Indels: 6
0.80 0.07 0.14
Matches are distributed among these distances:
20 8 0.23
21 1 0.03
22 21 0.60
23 5 0.14
ACGTcount: A:0.77, C:0.08, G:0.15, T:0.00
Consensus pattern (22 bp):
GCAAAAAAGAAAAGAACAAGAA
Found at i:5393199 original size:7 final size:7
Alignment explanation
Indices: 5393115--5393186 Score: 65
Period size: 7 Copynumber: 9.9 Consensus size: 7
5393105 CAAAAAGGGC
5393115 AAAAAGA
1 AAAAAGA
5393122 AAAAAGA
1 AAAAAGA
5393129 AAAGAAGCA
1 AAA-AAG-A
5393138 AAAAAGA
1 AAAAAGA
5393145 AAAAA-A
1 AAAAAGA
*
5393151 ACAAGAACA
1 A-AA-AAGA
5393160 AAAAAGA
1 AAAAAGA
* *
5393167 AAGAACA
1 AAAAAGA
*
5393174 AAAAATA
1 AAAAAGA
5393181 AAAAAG
1 AAAAAG
5393187 GGAACAAAAA
Statistics
Matches: 54, Mismatches: 6, Indels: 10
0.77 0.09 0.14
Matches are distributed among these distances:
6 2 0.04
7 36 0.67
8 10 0.19
9 6 0.11
ACGTcount: A:0.81, C:0.06, G:0.12, T:0.01
Consensus pattern (7 bp):
AAAAAGA
Found at i:5394775 original size:37 final size:37
Alignment explanation
Indices: 5394681--5394790 Score: 150
Period size: 37 Copynumber: 3.0 Consensus size: 37
5394671 GTGCTCATAA
* *
5394681 TTGTCTCTCTTGAGATAGTTTCCCTTGAAA-TAAACT
1 TTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAAACT
*
5394717 TTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAAATT
1 TTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAAACT
* * *
5394754 TTTTCTCCCTTGAGACAGTTTCTCTTGAAACATAAAC
1 TTGTCTCTCTTGAGACAGTTTCCCTTGAAACA-AAAC
5394791 ATTGGAAACA
Statistics
Matches: 65, Mismatches: 7, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
36 29 0.45
37 33 0.51
38 3 0.05
ACGTcount: A:0.26, C:0.22, G:0.13, T:0.39
Consensus pattern (37 bp):
TTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAAACT
Found at i:5394868 original size:37 final size:37
Alignment explanation
Indices: 5394801--5394887 Score: 97
Period size: 37 Copynumber: 2.4 Consensus size: 37
5394791 ATTGGAAACA
** * * *
5394801 TTTCCCTTGAAA-TGAATTTTGTCTCTCTTGAGATAG
1 TTTCCCTTGAAACAAAATTTCGTCTCCCTTGAGACAG
*
5394837 TTTCCCTTGAAACAAAATTTCGTCTCCCTTGATACAG
1 TTTCCCTTGAAACAAAATTTCGTCTCCCTTGAGACAG
5394874 TTTCTCC-TGAAACA
1 TTTC-CCTTGAAACA
5394888 TAAACATTGA
Statistics
Matches: 43, Mismatches: 6, Indels: 3
0.83 0.12 0.06
Matches are distributed among these distances:
36 12 0.28
37 29 0.67
38 2 0.05
ACGTcount: A:0.25, C:0.23, G:0.13, T:0.39
Consensus pattern (37 bp):
TTTCCCTTGAAACAAAATTTCGTCTCCCTTGAGACAG
Found at i:5394875 original size:102 final size:102
Alignment explanation
Indices: 5394699--5394988 Score: 465
Period size: 102 Copynumber: 2.9 Consensus size: 102
5394689 CTTGAGATAG
* * * *
5394699 TTTCCCTTGAAATAAACTTTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAAATTTTTTCTCCCT
1 TTTCCCTTGAAATGAATTTTGTCTCTCTTGAGATAGTTTCCCTTGAAACAAAATTTTGTCTCCCT
*
5394764 TGAGACAGTTTCTCTTGAAACATAAACATTGGAAACA
66 TGAGACAGTTTCTCTTGAAACATAAACATTGAAAACA
*
5394801 TTTCCCTTGAAATGAATTTTGTCTCTCTTGAGATAGTTTCCCTTGAAACAAAATTTCGTCTCCCT
1 TTTCCCTTGAAATGAATTTTGTCTCTCTTGAGATAGTTTCCCTTGAAACAAAATTTTGTCTCCCT
* *
5394866 TGATACAGTTTCTCCTGAAACATAAACATTGAAAACA
66 TGAGACAGTTTCTCTTGAAACATAAACATTGAAAACA
* * *
5394903 TTTCCCTAGAAATGAATTTCGTCTCTCTTGAGATAATTTCCCTTGAAAC-AAATTTTGTCTCCCT
1 TTTCCCTTGAAATGAATTTTGTCTCTCTTGAGATAGTTTCCCTTGAAACAAAATTTTGTCTCCCT
*
5394967 TGAGACAGCTTCTCTTGAAACA
66 TGAGACAGTTTCTCTTGAAACA
5394989 CAAAACCTTT
Statistics
Matches: 173, Mismatches: 15, Indels: 1
0.92 0.08 0.01
Matches are distributed among these distances:
101 33 0.19
102 140 0.81
ACGTcount: A:0.29, C:0.22, G:0.12, T:0.37
Consensus pattern (102 bp):
TTTCCCTTGAAATGAATTTTGTCTCTCTTGAGATAGTTTCCCTTGAAACAAAATTTTGTCTCCCT
TGAGACAGTTTCTCTTGAAACATAAACATTGAAAACA
Found at i:5394957 original size:36 final size:36
Alignment explanation
Indices: 5394902--5394971 Score: 95
Period size: 36 Copynumber: 1.9 Consensus size: 36
5394892 CATTGAAAAC
** *
5394902 ATTTCCCTAGAAATGAATTTCGTCTCTCTTGAGATA
1 ATTTCCCTAGAAACAAATTTCGTCTCCCTTGAGATA
* *
5394938 ATTTCCCTTGAAACAAATTTTGTCTCCCTTGAGA
1 ATTTCCCTAGAAACAAATTTCGTCTCCCTTGAGA
5394972 CAGCTTCTCT
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
36 29 1.00
ACGTcount: A:0.27, C:0.21, G:0.13, T:0.39
Consensus pattern (36 bp):
ATTTCCCTAGAAACAAATTTCGTCTCCCTTGAGATA
Found at i:5394984 original size:36 final size:36
Alignment explanation
Indices: 5394917--5394988 Score: 90
Period size: 36 Copynumber: 2.0 Consensus size: 36
5394907 CCTAGAAATG
* * *
5394917 AATTTCGTCTCTCTTGAGATAATTTCCCTTGAAACA
1 AATTTCGTCTCCCTTGAGACAACTTCCCTTGAAACA
* * *
5394953 AATTTTGTCTCCCTTGAGACAGCTTCTCTTGAAACA
1 AATTTCGTCTCCCTTGAGACAACTTCCCTTGAAACA
5394989 CAAAACCTTT
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
36 30 1.00
ACGTcount: A:0.26, C:0.24, G:0.12, T:0.38
Consensus pattern (36 bp):
AATTTCGTCTCCCTTGAGACAACTTCCCTTGAAACA
Found at i:5395079 original size:67 final size:67
Alignment explanation
Indices: 5394930--5395088 Score: 223
Period size: 67 Copynumber: 2.4 Consensus size: 67
5394920 TTCGTCTCTC
** *
5394930 TTGAGATAATTTCCCTTGAAACAAATTTTGTCTCCCTTGAGACAGCTTCTCTTGAAACACAAAAC
1 TTGAGATTGTTTCCCTTGAAACAAATTTTGTCTCCCATGAGACAGCTTCTCTTGAAACACAAAAC
5394995 CT
66 CT
* * *
5394997 TTGAGATTGTTTCCCTCGAAACAAATTTTGTCTCCCATGAGACAGTTTCTCTTGAAACACAAAAT
1 TTGAGATTGTTTCCCTTGAAACAAATTTTGTCTCCCATGAGACAGCTTCTCTTGAAACACAAAAC
5395062 CT
66 CT
*
5395064 TTGA-ATT-TATCTCCCTTAAAACAAA
1 TTGAGATTGT-T-TCCCTTGAAACAAA
5395089 ATTTCGTTTC
Statistics
Matches: 82, Mismatches: 8, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
65 1 0.01
66 4 0.05
67 77 0.94
ACGTcount: A:0.32, C:0.23, G:0.11, T:0.34
Consensus pattern (67 bp):
TTGAGATTGTTTCCCTTGAAACAAATTTTGTCTCCCATGAGACAGCTTCTCTTGAAACACAAAAC
CT
Found at i:5396291 original size:105 final size:104
Alignment explanation
Indices: 5395922--5396994 Score: 1551
Period size: 105 Copynumber: 10.3 Consensus size: 104
5395912 GCCATCCGCG
* * * * * *
5395922 ATTTCAACTCCACGACGGAGGATATCGTGGCACTCGAGACAACACAAGTTCAACTTCACAACGAA
1 ATTTCAACTTCACAACGAAGGATAT--TGG-ACTCCAGACAACGCAAGTTCAACTTCACGACGAA
* * *
5395987 GGGACGGCTGGTTGTCAACAAACAACTTCTCAATTTCAGAGCCA
63 GGGACCGCTGCTTGTCAAC-AACAACTTCCCAA-TTCAGAGCCA
5396031 ATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGG
1 ATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGG
* * *
5396096 ACCGCTGGTTGTCAATAAACAATTTTCCCAATTTCAGAGCCA
66 ACCGCTGCTTGTCAA-CAACAA-CTTCCCAA-TTCAGAGCCA
*
5396138 ATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGG
1 ATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGG
* *
5396203 ACCGTTGGTTGTCAACAACAACTTCCCAATCTCAGAGCCA
66 ACCGCTGCTTGTCAACAACAACTTCCCAAT-TCAGAGCCA
*
5396243 ATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAATGCAAGTTCAACTTCACGACGAAGGG
1 ATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGG
*
5396308 ACCGCTGCTTGTCAACAACAACTTTCCAATCTCAGAGCCA
66 ACCGCTGCTTGTCAACAACAACTTCCCAAT-TCAGAGCCA
5396348 ATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGG
1 ATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGG
*
5396413 ACCGCTGCTTGTCAACAA-AA-TT-TC-ATTCAGAGCCA
66 ACCGCTGCTTGTCAACAACAACTTCCCAATTCAGAGCCA
* *
5396448 ATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAATGCAAGTTCAACTTCACGACGAAGGG
1 ATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGG
*
5396513 ACCGCTGCTTGTCAACAACAACTTTCCAATCTCAGAGCCA
66 ACCGCTGCTTGTCAACAACAACTTCCCAAT-TCAGAGCCA
*
5396553 ATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACAACGAAGGG
1 ATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGG
*
5396618 ACCGCTGCTTGTCAACAA-AA-TT-TC-ATTCAGAGCCA
66 ACCGCTGCTTGTCAACAACAACTTCCCAATTCAGAGCCA
* *
5396653 ATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAATGCAAGTTCAACTTCACGACGAAGGG
1 ATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGG
* *
5396718 ACCGCTGTTTGTCAACAACAACTTCCCAATCCCAGAGCCA
66 ACCGCTGCTTGTCAACAACAACTTCCCAAT-TCAGAGCCA
*
5396758 ATTTCAACTTCACAACGAAAGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGG
1 ATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGG
* * **
5396823 ACCGCAGCTTGTCAACAA-AA-TT-TC-ATTCAGATTCA
66 ACCGCTGCTTGTCAACAACAACTTCCCAATTCAGAGCCA
* * *
5396858 ATTTCAACTTCACAACGAAGGATATTGGACTCGAGACAACACAAGTTCAACTTCACAACGAAGGG
1 ATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGG
* * **
5396923 A-CGACTGGTTGTCAACAAACAATTTCCCGGTTCCAGAGCCA
66 ACCG-CTGCTTGTCAAC-AACAACTTCCCAATT-CAGAGCCA
* *
5396964 ATTTCAACTTCACGACGGAGGATATTGGACT
1 ATTTCAACTTCACAACGAAGGATATTGGACT
5396995 TGGAACAATG
Statistics
Matches: 889, Mismatches: 55, Indels: 43
0.90 0.06 0.04
Matches are distributed among these distances:
99 2 0.00
100 256 0.29
101 12 0.01
102 9 0.01
103 10 0.01
104 12 0.01
105 375 0.42
106 93 0.10
107 98 0.11
109 22 0.02
ACGTcount: A:0.34, C:0.26, G:0.18, T:0.22
Consensus pattern (104 bp):
ATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGG
ACCGCTGCTTGTCAACAACAACTTCCCAATTCAGAGCCA
Found at i:5396526 original size:205 final size:205
Alignment explanation
Indices: 5395922--5396994 Score: 1621
Period size: 205 Copynumber: 5.2 Consensus size: 205
5395912 GCCATCCGCG
* * * * * *
5395922 ATTTCAACTCCACGACGGAGGATATCGTGGCACTCGAGACAACACAAGTTCAACTTCACAACGAA
1 ATTTCAACTTCACAACGAAGGATAT--TGG-ACTCCAGACAACGCAAGTTCAACTTCACGACGAA
* *
5395987 GGGACGGCTGGTTGTCAACAAACAACTTCTCAATTTCAGAGCCAATTTCAACTTCACAACGAAGG
63 GGGACCGCTGCTTGTCAAC-AA-AA-TT-TC-A-TTCAGAGCCAATTTCAACTTCACAACGAAGG
* * *
5396052 ATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACA
122 ATATTGGACTCCAGACAATGCAAGTTCAACTTCACGACGAAGGGACCGCTGCTTGTCAA-CAACA
* *
5396117 ATTTTCCCAATTTCAGAGCCA
186 ACTTT-CCAATCTCAGAGCCA
*
5396138 ATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGG
1 ATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGG
* * *
5396203 ACCGTTGGTTGTCAACAACAACTTCCCAATCTCAGAGCCAATTTCAACTTCACAACGAAGGATAT
66 ACCGCTGCTTGTCAACAA-AA-TT-TC-AT-TCAGAGCCAATTTCAACTTCACAACGAAGGATAT
5396268 TGGACTCCAGACAATGCAAGTTCAACTTCACGACGAAGGGACCGCTGCTTGTCAACAACAACTTT
126 TGGACTCCAGACAATGCAAGTTCAACTTCACGACGAAGGGACCGCTGCTTGTCAACAACAACTTT
5396333 CCAATCTCAGAGCCA
191 CCAATCTCAGAGCCA
5396348 ATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGG
1 ATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGG
*
5396413 ACCGCTGCTTGTCAACAAAATTTCATTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGAC
66 ACCGCTGCTTGTCAACAAAATTTCATTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGAC
5396478 TCCAGACAATGCAAGTTCAACTTCACGACGAAGGGACCGCTGCTTGTCAACAACAACTTTCCAAT
131 TCCAGACAATGCAAGTTCAACTTCACGACGAAGGGACCGCTGCTTGTCAACAACAACTTTCCAAT
5396543 CTCAGAGCCA
196 CTCAGAGCCA
*
5396553 ATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACAACGAAGGG
1 ATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGG
*
5396618 ACCGCTGCTTGTCAACAAAATTTCATTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGAC
66 ACCGCTGCTTGTCAACAAAATTTCATTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGAC
* *
5396683 TCCAGACAATGCAAGTTCAACTTCACGACGAAGGGACCGCTGTTTGTCAACAACAACTTCCCAAT
131 TCCAGACAATGCAAGTTCAACTTCACGACGAAGGGACCGCTGCTTGTCAACAACAACTTTCCAAT
*
5396748 CCCAGAGCCA
196 CTCAGAGCCA
*
5396758 ATTTCAACTTCACAACGAAAGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGG
1 ATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGG
* **
5396823 ACCGCAGCTTGTCAACAAAATTTCATTCAGATTCAATTTCAACTTCACAACGAAGGATATTGGAC
66 ACCGCTGCTTGTCAACAAAATTTCATTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGAC
* ** * *
5396888 TCGAGACAACACAAGTTCAACTTCACAACGAAGGGA-CGACTGGTTGTCAACAAACAA-TTTCCC
131 TCCAGACAATGCAAGTTCAACTTCACGACGAAGGGACCG-CTGCTTGTCAAC-AACAACTTT-CC
**
5396951 GGT-TCCAGAGCCA
193 AATCT-CAGAGCCA
* *
5396964 ATTTCAACTTCACGACGGAGGATATTGGACT
1 ATTTCAACTTCACAACGAAGGATATTGGACT
5396995 TGGAACAATG
Statistics
Matches: 810, Mismatches: 42, Indels: 20
0.93 0.05 0.02
Matches are distributed among these distances:
204 2 0.00
205 483 0.60
206 46 0.06
207 1 0.00
208 2 0.00
209 2 0.00
210 94 0.12
211 9 0.01
212 99 0.12
213 48 0.06
214 3 0.00
216 21 0.03
ACGTcount: A:0.34, C:0.26, G:0.18, T:0.22
Consensus pattern (205 bp):
ATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGG
ACCGCTGCTTGTCAACAAAATTTCATTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGAC
TCCAGACAATGCAAGTTCAACTTCACGACGAAGGGACCGCTGCTTGTCAACAACAACTTTCCAAT
CTCAGAGCCA
Found at i:5396544 original size:310 final size:312
Alignment explanation
Indices: 5395922--5396994 Score: 1598
Period size: 310 Copynumber: 3.4 Consensus size: 312
5395912 GCCATCCGCG
* * * *
5395922 ATTTCAACTCCACGACGGAGGATATCGTGGCACTCGAGACAACACAAGTTCAACTTCACAACGAA
1 ATTTCAACTTCACAACGAAGGATAT--TGG-ACTCCAGACAACACAAGTTCAACTTCACAACGAA
* * *
5395987 GGGACGGCTGGTTGTCAACAAACAACTTCTCAATTTCAGAGCCAATTTCAACTTCACAACGAAGG
63 GGGACCGCTGCTTGTCAACAAACAATTTC-CAA-TTCAGAGCCAATTTCAACTTCACAACGAAGG
* *
5396052 ATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACA
126 ATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGCTTGTCAA-CAACA
*
5396117 ATTTTCCCAATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAA
190 ACTTT--CAA-TTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAA
* * *
5396182 GTTCAACTTCACGACGAAGGGACCGTTGGTTGTCAACAACAACTTCCCAATCTCAGAGCCA
252 GTTCAACTTCACGACGAAGGGACCGCTGCTTGTCAACAACAACTTTCCAATCTCAGAGCCA
** *
5396243 ATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAATGCAAGTTCAACTTCACGACGAAGGG
1 ATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACACAAGTTCAACTTCACAACGAAGGG
5396308 ACCGCTGCTTGTCAAC-AACAACTTTCCAATCTCAGAGCCAATTTCAACTTCACAACGAAGGATA
66 ACCGCTGCTTGTCAACAAACAA-TTTCCAAT-TCAGAGCCAATTTCAACTTCACAACGAAGGATA
5396372 TTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGCTTGTCAACAA-AA-TT
129 TTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGCTTGTCAACAACAACTT
*
5396435 TC-ATTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAATGCAAGTTCAAC
194 TCAATTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAAC
5396499 TTCACGACGAAGGGACCGCTGCTTGTCAACAACAACTTTCCAATCTCAGAGCCA
259 TTCACGACGAAGGGACCGCTGCTTGTCAACAACAACTTTCCAATCTCAGAGCCA
*
5396553 ATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACAACGAAGGG
1 ATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACACAAGTTCAACTTCACAACGAAGGG
*
5396618 ACCGCTGCTTGTCAAC-AA-AATTT-C-ATTCAGAGCCAATTTCAACTTCACAGCGAAGGATATT
66 ACCGCTGCTTGTCAACAAACAATTTCCAATTCAGAGCCAATTTCAACTTCACAACGAAGGATATT
* * *
5396679 GGACTCCAGACAATGCAAGTTCAACTTCACGACGAAGGGACCGCTGTTTGTCAACAACAACTTCC
131 GGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGCTTGTCAACAACAACTT-T
* * *
5396744 CAATCCCAGAGCCAATTTCAACTTCACAACGAAAGATATTGGACTCCAGACAACGCAAGTTCAAC
195 CAAT-TCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAAC
* **
5396809 TTCACGACGAAGGGACCGCAGCTTGTCAACAA-AA-TTT-C-AT-TCAGATTCA
259 TTCACGACGAAGGGACCGCTGCTTGTCAACAACAACTTTCCAATCTCAGAGCCA
*
5396858 ATTTCAACTTCACAACGAAGGATATTGGACTCGAGACAACACAAGTTCAACTTCACAACGAAGGG
1 ATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACACAAGTTCAACTTCACAACGAAGGG
* ** * *
5396923 A-CGACTGGTTGTCAACAAACAATTTCCCGGTTCCAGAGCCAATTTCAACTTCACGACGGAGGAT
66 ACCG-CTGCTTGTCAACAAACAATTT-CCAATT-CAGAGCCAATTTCAACTTCACAACGAAGGAT
5396987 ATTGGACT
128 ATTGGACT
5396995 TGGAACAATG
Statistics
Matches: 702, Mismatches: 36, Indels: 38
0.90 0.05 0.05
Matches are distributed among these distances:
304 2 0.00
305 171 0.24
306 8 0.01
307 9 0.01
308 7 0.01
309 7 0.01
310 281 0.40
311 37 0.05
312 1 0.00
314 3 0.00
315 2 0.00
316 3 0.00
317 96 0.14
318 50 0.07
319 3 0.00
321 22 0.03
ACGTcount: A:0.34, C:0.26, G:0.18, T:0.22
Consensus pattern (312 bp):
ATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACACAAGTTCAACTTCACAACGAAGGG
ACCGCTGCTTGTCAACAAACAATTTCCAATTCAGAGCCAATTTCAACTTCACAACGAAGGATATT
GGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGCTTGTCAACAACAACTTTC
AATTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTT
CACGACGAAGGGACCGCTGCTTGTCAACAACAACTTTCCAATCTCAGAGCCA
Found at i:5398013 original size:14 final size:13
Alignment explanation
Indices: 5397994--5398032 Score: 51
Period size: 14 Copynumber: 2.8 Consensus size: 13
5397984 TATATGGATA
5397994 TTTTATTCATTTAT
1 TTTTATT-ATTTAT
5398008 TTTTATTATTTAT
1 TTTTATTATTTAT
5398021 GTTATTATTATT
1 -TT-TTATTATT
5398033 ATATGTATAT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
13 6 0.26
14 9 0.39
15 8 0.35
ACGTcount: A:0.23, C:0.03, G:0.03, T:0.72
Consensus pattern (13 bp):
TTTTATTATTTAT
Found at i:5398031 original size:18 final size:17
Alignment explanation
Indices: 5397992--5398034 Score: 52
Period size: 18 Copynumber: 2.5 Consensus size: 17
5397982 ATTATATGGA
5397992 TATT-TTATTCATTTAT
1 TATTATTATTCATTTAT
* *
5398008 TTTTATTATTTATGTTAT
1 TATTATTATTCAT-TTAT
5398026 TATTATTAT
1 TATTATTAT
5398035 ATGTATATAT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
16 3 0.14
17 7 0.32
18 12 0.55
ACGTcount: A:0.26, C:0.02, G:0.02, T:0.70
Consensus pattern (17 bp):
TATTATTATTCATTTAT
Found at i:5398237 original size:2 final size:2
Alignment explanation
Indices: 5398232--5398258 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
5398222 CTTATAACTT
5398232 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
5398259 TATTTTCATT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:5398547 original size:9 final size:9
Alignment explanation
Indices: 5398526--5398559 Score: 52
Period size: 9 Copynumber: 3.8 Consensus size: 9
5398516 TTTTTTTTCC
5398526 TTTATCTTA-
1 TTTAT-TTAT
5398535 TTTATTTAT
1 TTTATTTAT
5398544 TTTATTTAT
1 TTTATTTAT
5398553 TTTATTT
1 TTTATTT
5398560 TTCCCTTTTA
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
8 3 0.12
9 21 0.88
ACGTcount: A:0.21, C:0.03, G:0.00, T:0.76
Consensus pattern (9 bp):
TTTATTTAT
Found at i:5398548 original size:13 final size:14
Alignment explanation
Indices: 5398526--5398560 Score: 54
Period size: 13 Copynumber: 2.6 Consensus size: 14
5398516 TTTTTTTTCC
*
5398526 TTTATCTTATTTA-
1 TTTATTTTATTTAT
5398539 TTTATTTTATTTAT
1 TTTATTTTATTTAT
5398553 TTTATTTT
1 TTTATTTT
5398561 TCCCTTTTAC
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
13 12 0.60
14 8 0.40
ACGTcount: A:0.20, C:0.03, G:0.00, T:0.77
Consensus pattern (14 bp):
TTTATTTTATTTAT
Found at i:5404250 original size:82 final size:82
Alignment explanation
Indices: 5404113--5404276 Score: 222
Period size: 82 Copynumber: 2.0 Consensus size: 82
5404103 TTCTTTTTAA
* ** * * *
5404113 ATTTTAGGTTGGCCCTTCAAACTCTATCACAAAGTTCCGTCACAGTGTGTGATGTGTCAACATCT
1 ATTTTAAGTTGGCCCCCCAAACTCCATCACAAAGTTCCGCCACAGCGTGTGATGTGTCAACATCT
* *
5404178 TATTTGTTAAAAAATAT
66 TATTAGTCAAAAAATAT
* *
5404195 ATTTTAAGTTGGCCCCCCAAACTCCATCGCTAAGTTCCGCCACTA-CGTGTGATGTGTCAACATC
1 ATTTTAAGTTGGCCCCCCAAACTCCATCACAAAGTTCCGCCAC-AGCGTGTGATGTGTCAACATC
5404259 TTATTAGTCAAAAAATAT
65 TTATTAGTCAAAAAATAT
5404277 TATTCTAACT
Statistics
Matches: 71, Mismatches: 10, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
82 70 0.99
83 1 0.01
ACGTcount: A:0.29, C:0.22, G:0.15, T:0.34
Consensus pattern (82 bp):
ATTTTAAGTTGGCCCCCCAAACTCCATCACAAAGTTCCGCCACAGCGTGTGATGTGTCAACATCT
TATTAGTCAAAAAATAT
Found at i:5405171 original size:17 final size:17
Alignment explanation
Indices: 5405149--5405186 Score: 76
Period size: 17 Copynumber: 2.2 Consensus size: 17
5405139 CGTCCATCAC
5405149 TCATTCATTTCTAAATT
1 TCATTCATTTCTAAATT
5405166 TCATTCATTTCTAAATT
1 TCATTCATTTCTAAATT
5405183 TCAT
1 TCAT
5405187 GCTTATCCCA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.29, C:0.18, G:0.00, T:0.53
Consensus pattern (17 bp):
TCATTCATTTCTAAATT
Found at i:5407422 original size:25 final size:25
Alignment explanation
Indices: 5407392--5407439 Score: 78
Period size: 25 Copynumber: 1.9 Consensus size: 25
5407382 TCTTAAATTC
5407392 AATTTTTAAAAATAATTTCCACAAT
1 AATTTTTAAAAATAATTTCCACAAT
* *
5407417 AATTTTTAAAAATATTTTTCACA
1 AATTTTTAAAAATAATTTCCACA
5407440 TGAAATGACC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.46, C:0.10, G:0.00, T:0.44
Consensus pattern (25 bp):
AATTTTTAAAAATAATTTCCACAAT
Found at i:5410813 original size:3 final size:3
Alignment explanation
Indices: 5410805--5410866 Score: 115
Period size: 3 Copynumber: 20.7 Consensus size: 3
5410795 TTTTTATCCA
*
5410805 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT CAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
5410853 TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TA
5410867 AATTTATATT
Statistics
Matches: 57, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
3 57 1.00
ACGTcount: A:0.34, C:0.02, G:0.00, T:0.65
Consensus pattern (3 bp):
TAT
Found at i:5411386 original size:24 final size:23
Alignment explanation
Indices: 5411359--5411406 Score: 71
Period size: 23 Copynumber: 2.0 Consensus size: 23
5411349 AGAGACAGAA
5411359 ACAGA-AAACGGAGAAAAAAAAAAC
1 ACAGAGAAA-GGA-AAAAAAAAAAC
5411383 ACAGAGAAAGGAAAAAAAAAAAC
1 ACAGAGAAAGGAAAAAAAAAAAC
5411406 A
1 A
5411407 ACAACAACTA
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
23 12 0.52
24 8 0.35
25 3 0.13
ACGTcount: A:0.73, C:0.10, G:0.17, T:0.00
Consensus pattern (23 bp):
ACAGAGAAAGGAAAAAAAAAAAC
Found at i:5424983 original size:83 final size:83
Alignment explanation
Indices: 5424773--5425330 Score: 851
Period size: 83 Copynumber: 6.7 Consensus size: 83
5424763 CATTAACTGA
5424773 AAGATGAATTTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGA
1 AAGATGAATTTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGA
* **
5424838 ATCAATCATTGAATTGGG
66 ACCAATCATTGAATTTAG
5424856 AAGATGAATGTAATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGG
1 AAGATGAA--T--T-TGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGG
5424921 ACAGAACCAATCATTGAATTTAG
61 ACAGAACCAATCATTGAATTTAG
* *
5424944 AAGATGAATTTGTTAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGA
1 AAGATGAATTTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGA
* * *
5425009 ATCAATCATTAAATTTGG
66 ACCAATCATTGAATTTAG
* * *
5425027 AAGATGAATTTGCTAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGACCTGGTT-TAGCAG
1 AAGATGAATTTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGA-CAG
5425091 AA-CAATCATTGAATTTAG
65 AACCAATCATTGAATTTAG
*
5425109 AAGATGAATTTGC-CAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATTTGATCTGGTTGGACAG
1 AAGATGAATTTGCTC-ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAG
5425173 AACCAATCATTGAATTTAG
65 AACCAATCATTGAATTTAG
* * *
5425192 AAGATGAATTTGTTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATTTGGTT-TAGCAG
1 AAGATGAATTTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGA-CAG
5425256 AACCAATCATTGAA-TTAGG
65 AACCAATCATTGAATTTA-G
5425275 AAGATGAA--TGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTT
1 AAGATGAATTTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTT
5425331 TGGTAGACTA
Statistics
Matches: 440, Mismatches: 23, Indels: 26
0.90 0.05 0.05
Matches are distributed among these distances:
81 46 0.10
82 78 0.18
83 233 0.53
84 2 0.00
85 1 0.00
86 1 0.00
87 1 0.00
88 78 0.18
ACGTcount: A:0.28, C:0.13, G:0.22, T:0.37
Consensus pattern (83 bp):
AAGATGAATTTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGA
ACCAATCATTGAATTTAG
Found at i:5425166 original size:165 final size:166
Alignment explanation
Indices: 5424773--5425330 Score: 894
Period size: 165 Copynumber: 3.3 Consensus size: 166
5424763 CATTAACTGA
5424773 AAGATGAATTTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGA
1 AAGATGAATTTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGA
*
5424838 ATCAATCATTGAATTGGGAAGATGAATGTAATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGA
66 ATCAATCATTGAATTTGGAAGATGAA--T--T-TGCTCATAGCATCTTCTGGAAGTGTTCTTTGA
*
5424903 GTTATCTGATCTGG-TTGGACAGAACCAATCATTGAATTTAG
126 GTTATCTGATCTGGTTTAG-CAGAACCAATCATTGAATTTAG
* *
5424944 AAGATGAATTTGTTAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGA
1 AAGATGAATTTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGA
* *
5425009 ATCAATCATTAAATTTGGAAGATGAATTTGCTAATAGCATCTTCTGGAAGTGTTCTTTGAGTTAT
66 ATCAATCATTGAATTTGGAAGATGAATTTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTAT
*
5425074 CTGACCTGGTTTAGCAGAA-CAATCATTGAATTTAG
131 CTGATCTGGTTTAGCAGAACCAATCATTGAATTTAG
*
5425109 AAGATGAATTTGC-CAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATTTGATCTGGTTGGACAG
1 AAGATGAATTTGCTC-ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAG
* * *
5425173 AACCAATCATTGAATTTAGAAGATGAATTTGTTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTA
65 AATCAATCATTGAATTTGGAAGATGAATTTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTA
*
5425238 TCTGATTTGGTTTAGCAGAACCAATCATTGAA-TTAGG
130 TCTGATCTGGTTTAGCAGAACCAATCATTGAATTTA-G
5425275 AAGATGAA--TGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTT
1 AAGATGAATTTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTT
5425331 TGGTAGACTA
Statistics
Matches: 364, Mismatches: 18, Indels: 17
0.91 0.05 0.04
Matches are distributed among these distances:
164 45 0.12
165 158 0.43
166 69 0.19
167 4 0.01
169 1 0.00
171 87 0.24
ACGTcount: A:0.28, C:0.13, G:0.22, T:0.37
Consensus pattern (166 bp):
AAGATGAATTTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGA
ATCAATCATTGAATTTGGAAGATGAATTTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTAT
CTGATCTGGTTTAGCAGAACCAATCATTGAATTTAG
Found at i:5425217 original size:248 final size:253
Alignment explanation
Indices: 5424773--5425331 Score: 904
Period size: 248 Copynumber: 2.2 Consensus size: 253
5424763 CATTAACTGA
*
5424773 AAGATGAATTTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGG-TTGGACAG
1 AAGATGAATTTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTAGACAG
*
5424837 AATCAATCATTGAATTGGGAAGATGAATGTAATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTG
66 AATCAATCATTGAATTGAGAAGATGAA-GT-ATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTG
5424902 AGTTATCTGATCTGGTTGGACAGAACCAATCATTGAATTTAGAAGATGAATTTGTTAATAGCATC
129 AGTTATCTGATCTGGTTGGACAGAACCAATCATTGAATTTAGAAGATGAATTTGTTAATAGCATC
* *
5424967 TTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTG-GACAGAATCAATCATTAAATTTGG
194 TTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGAG-CAGAACCAATCATTAAATTAGG
* *
5425027 AAGATGAATTTGCTAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGACCTGGTTTAG-CAG
1 AAGATGAATTTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTAGACAG
*
5425091 AA-CAATCATTGAATTTAGAAGATGAA-T-T-TGC-CAATAGCATCTTCTGGAAGTGTTCTTTGA
66 AATCAATCATTGAATTGAGAAGATGAAGTATGTGCTC-ATAGCATCTTCTGGAAGTGTTCTTTGA
* *
5425151 GTTATTTGATCTGGTTGGACAGAACCAATCATTGAATTTAGAAGATGAATTTGTTCATAGCATCT
130 GTTATCTGATCTGGTTGGACAGAACCAATCATTGAATTTAGAAGATGAATTTGTTAATAGCATCT
* * *
5425216 TCTGGAAGTGTTCTTTGAGTTATCTGATTTGGTTTAGCAGAACCAATCATTGAATTAGG
195 TCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGAGCAGAACCAATCATTAAATTAGG
5425275 AAGATGAA--TGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTT
1 AAGATGAATTTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTT
5425332 GGTAGACTAA
Statistics
Matches: 288, Mismatches: 14, Indels: 14
0.91 0.04 0.04
Matches are distributed among these distances:
246 47 0.16
247 1 0.00
248 153 0.53
249 2 0.01
251 1 0.00
253 22 0.08
254 59 0.20
255 3 0.01
ACGTcount: A:0.28, C:0.13, G:0.22, T:0.37
Consensus pattern (253 bp):
AAGATGAATTTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTAGACAG
AATCAATCATTGAATTGAGAAGATGAAGTATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAG
TTATCTGATCTGGTTGGACAGAACCAATCATTGAATTTAGAAGATGAATTTGTTAATAGCATCTT
CTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGAGCAGAACCAATCATTAAATTAGG
Found at i:5426570 original size:221 final size:218
Alignment explanation
Indices: 5425973--5426596 Score: 714
Period size: 221 Copynumber: 2.8 Consensus size: 218
5425963 ATTCAAATCT
*
5425973 ATCATTTGATGGATTGACATTTCCAGAGAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAG
1 ATCATTTGATGGATTAACATTTCCAGAGAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAG
* * * * *
5426038 AAGAAATTCATAATGAGAAGAATTTGTTCAACCTTCTGCGT-AATTCTATCACTTGATGGATCAG
66 AAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGCTTGAATTC-ATCAATTGATGGATCAT
*** * *
5426102 CATTGTTAG-GTCAA-TTC-TAATGAGAAGAACTCATCTGAAGAAGGAAAAGAAGTTCATGAAGA
130 CATTCCCAGAG-AAAGTTCATAATGAGAAGAACTCATCTGAAGAAGG-AAAGAAGTTCATAAAGA
* *
5426164 ATTTGTTCAACCTTTTTCCTGAATTC
193 ACTTGTTCAACCTTTTGCCTGAATTC
* * *
5426190 ATCAAATTGATGGATTATCTTTTCCAGAGAAGGTTCATAATGAGAAGAACTCATCTGAAGAAGG-
1 ATC-ATTTGATGGATTAACATTTCCAGAGAA-GTTCATAATGAGAAGAACTCATCTGAAGAAGGA
*
5426254 AGAAGAAGTTCATAATGAGAAGAAGAATTTGTTCAACCTTTT-TTCTGAATTCATCAATTGATGG
64 AGAAGAAGTTCATAAT--G-AGAAGAATTTGTTCAACCTTTTGCT-TGAATTCATCAATTGATGG
* * * *
5426318 ATTATCTTTTCCAGAGAAGGTTCATAATGAGAAGAACTCATCT-AAGAA-G-AAG-AGTTCATAA
125 ATCATCATTCCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAAGAAGTTC---A
* *
5426379 TTAAAGAAACTTGTTCAATCTTTTGCTTGAATTC
187 -TAAAG-AACTTGTTCAACCTTTTGCCTGAATTC
* * *
5426413 ATCATTTGATGGATCAACATTGCCAG-GTAGTTCATAATGAGAAGAACTCGTCATCTGAAGAAGG
1 ATCATTTGATGGATTAACATTTCCAGAGAAGTTCATAATGAGAAGAA--C-TCATCTGAAGAAGG
* * *
5426477 AAGAAGAAGTTCATAATGAGAAGAACTTGTTCAATCTTTTGCTTGAATTCATCATTTGATGG-TC
63 AAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGCTTGAATTCATCAATTGATGGATC
* *
5426541 ATCATCCCCAGCAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAAGAGAAGAA
128 ATCATTCCCAG-AGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGA-AAGAA
5426597 TTTATTCAAT
Statistics
Matches: 344, Mismatches: 37, Indels: 43
0.81 0.09 0.10
Matches are distributed among these distances:
217 3 0.01
218 43 0.12
219 35 0.10
220 27 0.08
221 112 0.33
222 44 0.13
223 60 0.17
224 16 0.05
225 3 0.01
226 1 0.00
ACGTcount: A:0.37, C:0.14, G:0.19, T:0.30
Consensus pattern (218 bp):
ATCATTTGATGGATTAACATTTCCAGAGAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAG
AAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGCTTGAATTCATCAATTGATGGATCATC
ATTCCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAAGAAGTTCATAAAGAACT
TGTTCAACCTTTTGCCTGAATTC
Found at i:5426743 original size:3 final size:3
Alignment explanation
Indices: 5426730--5426815 Score: 140
Period size: 3 Copynumber: 29.0 Consensus size: 3
5426720 TTTTATCCAT
5426730 TTA TATA TTA TTA TTA -TA TTA -TA TTA TTA TTA TTA TTA TTA TTA
1 TTA T-TA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
*
5426774 TTA TTA TTA TTA TTA TTA TTA TTA TCA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
5426816 AATTTATATT
Statistics
Matches: 78, Mismatches: 2, Indels: 6
0.91 0.02 0.07
Matches are distributed among these distances:
2 4 0.05
3 71 0.91
4 3 0.04
ACGTcount: A:0.35, C:0.01, G:0.00, T:0.64
Consensus pattern (3 bp):
TTA
Found at i:5429281 original size:2 final size:2
Alignment explanation
Indices: 5429274--5429301 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
5429264 TCTAATCATA
5429274 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
5429302 GTTTCATATT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:5431065 original size:2 final size:2
Alignment explanation
Indices: 5431043--5431084 Score: 52
Period size: 2 Copynumber: 21.5 Consensus size: 2
5431033 AGTTATAAAC
*
5431043 TA TA TA T- TA TA TG T- TA CTA 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
5431084 T
1 T
5431085 TTATCATGTC
Statistics
Matches: 36, Mismatches: 1, Indels: 6
0.84 0.02 0.14
Matches are distributed among these distances:
1 2 0.06
2 32 0.89
3 2 0.06
ACGTcount: A:0.43, C:0.02, G:0.02, T:0.52
Consensus pattern (2 bp):
TA
Found at i:5434049 original size:16 final size:16
Alignment explanation
Indices: 5434005--5434051 Score: 53
Period size: 16 Copynumber: 3.0 Consensus size: 16
5433995 TTATTTAAAA
* *
5434005 AAATAAAAATAAATTT
1 AAATAAAAATTATTTT
5434021 AAA-AGAAAA-TATTTT
1 AAATA-AAAATTATTTT
5434036 AAATAAAAATTATTTT
1 AAATAAAAATTATTTT
5434052 TTAAGAATTT
Statistics
Matches: 26, Mismatches: 2, Indels: 6
0.76 0.06 0.18
Matches are distributed among these distances:
15 12 0.46
16 14 0.54
ACGTcount: A:0.62, C:0.00, G:0.02, T:0.36
Consensus pattern (16 bp):
AAATAAAAATTATTTT
Found at i:5434068 original size:16 final size:14
Alignment explanation
Indices: 5434039--5434082 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 14
5434029 ATATTTTAAA
*
5434039 TAAAAATTATTTTT
1 TAAAATTTATTTTT
5434053 TAAGAATTTATGTTTT
1 TAA-AATTTAT-TTTT
5434069 TAAAATTTAATTTT
1 TAAAATTT-ATTTT
5434083 CTTTTTTAAT
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
14 3 0.12
15 14 0.54
16 9 0.35
ACGTcount: A:0.39, C:0.00, G:0.05, T:0.57
Consensus pattern (14 bp):
TAAAATTTATTTTT
Found at i:5435900 original size:229 final size:225
Alignment explanation
Indices: 5435496--5435946 Score: 614
Period size: 229 Copynumber: 2.0 Consensus size: 225
5435486 CTTGTATTAT
* * * * *
5435496 AGGTGGGTATACGGGTTACCCGCCCGTTTAGTCCGTAAATTTTGATGGTGTGGGCTTAAACAGAG
1 AGGTGGGTATACGGGCTACCCGCCCGTTTAGTCCGTAAATTTTGACGATGCGGGCTTAAACAGAA
* * *
5435561 CGATTTAAAAAGCCCGTAATCATAAACGGTTTTGAATTTTAAGGCCCATGACCCGTCCGTTTAAC
66 CGATTTAAAAAGCCAGCAATCATAAACGGTTTTGAATTTTAAGGCACATGACCCGTCCGTTTAAC
** ** * * *
5435626 CCGTTGGTTAAACGGGCTTACCCGTGGCCCGTTAAATAAAAATAATTTTAAATGTTTTAAATGCA
131 CCGCGGGTTAAACAAGCTTACACGCGGCCCGTTAAATAAAAATAATTTTAAATGCTTTAAATGCA
5435691 ATAAAAAATAATGTTCTAACTTACTACTAG
196 ATAAAAAATAATGTTCTAACTTACTACTAG
* *** *
5435721 AGGTGGGTATATGGGCTACCCGCCCGTTTAGTCTGCGGGTGGGTTTTGACGATGCGGGGTTAAAC
1 AGGTGGGTATACGGGCTACCCGCCCGTTTAGTC--C--GTAAATTTTGACGATGCGGGCTTAAAC
* * ** *
5435786 GGAACGGTTTAAAAAGCCAGCAATCATAAACGGTTTTGAATTTTAAGGCATGTGGCCCGTCCGTT
62 AGAACGATTTAAAAAGCCAGCAATCATAAACGGTTTTGAATTTTAAGGCACATGACCCGTCCGTT
* *
5435851 TAACCCGCGGGTTAAACAAGCTTACACGCGGGCCGTTAAATATAAATAATTTTAAATGCTTTAAA
127 TAACCCGCGGGTTAAACAAGCTTACACGCGGCCCGTTAAATAAAAATAATTTTAAATGCTTTAAA
*
5435916 TGCAATAAAAAATAATGTTCTAACTTGCTAC
192 TGCAATAAAAAATAATGTTCTAACTTACTAC
5435947 ACTTTTAAAA
Statistics
Matches: 194, Mismatches: 28, Indels: 4
0.86 0.12 0.02
Matches are distributed among these distances:
225 31 0.16
227 1 0.01
229 162 0.84
ACGTcount: A:0.30, C:0.18, G:0.22, T:0.29
Consensus pattern (225 bp):
AGGTGGGTATACGGGCTACCCGCCCGTTTAGTCCGTAAATTTTGACGATGCGGGCTTAAACAGAA
CGATTTAAAAAGCCAGCAATCATAAACGGTTTTGAATTTTAAGGCACATGACCCGTCCGTTTAAC
CCGCGGGTTAAACAAGCTTACACGCGGCCCGTTAAATAAAAATAATTTTAAATGCTTTAAATGCA
ATAAAAAATAATGTTCTAACTTACTACTAG
Found at i:5437889 original size:989 final size:977
Alignment explanation
Indices: 5435938--5437905 Score: 3241
Period size: 989 Copynumber: 2.0 Consensus size: 977
5435928 TAATGTTCTA
* *
5435938 ACTTGCTACACTTTTAAAAATGATCTAGTAACTTGAAAAGGAAGGTAGCACCGTCAAAATAATAA
1 ACTTGCTACACCTTTAAAAATGATCCAGTAACTTGAAAAGGAAGGTAGCACCGTCAAAATAATAA
*
5436003 ATAATATTTAAATTTTATTTTAAATAGCCGGAAATAATTATAAAATAATATTTTTTTAATTTTTT
66 ATAATATTTAAATTTTATTTTAAATAGCCAGAAATAATTATAAAATAATATTTTTTTAATTTTTT
* *
5436068 AATCATTAATATATGTAACGATATAATTACTTAAACTCAAATTAAAAAAACAATATTTATTTATA
131 AATCATTAATATATGTAACGATATAATTACTTAAACTCAAATTAAAAAAACAATATTCACTTATA
* *
5436133 TCACCAAATTGAAAAACAAATAAAACAATAATCACATTATACTTTTATAAAACACGATTATTCAA
196 TCACCAAATTAAAAAACAAATAAAACAATAACCACATTATACTTTTATAAAACACGATTATTCAA
* * *
5436198 TGCTATAATATGAAGACATATAAGTGTCTGCAAGCATAAATTCAAACAGAAAAATTTAACAAAGT
261 TGCTATAATATGAAGACACAGAAGTGTCTGCAAGCATAAATTCAAACAGAAAAATTCAACAAAGT
5436263 CAAACATTATACAAATCTAACAATTTTTCTTTTGTAAAAGCCTTTAAAAGTTGAAAAATATGTTT
326 CAAACATTATACAAATCTAACAATTTTTCTTTTGTAAAAGCCTTTAAAAGTTGAAAAATATGTTT
*
5436328 TCAATTTTTTCTTTCTTATTTTTAATCCAAATATTACGTGTAATGTGATATATTATTAGAATATC
391 TCAATTTTTTCTTTCTTATTTTTAATCCAAATATTACGTGTAATGTCATATATTATTAGAATATC
*
5436393 ACGTGACTTTTTATAATTAAGAACAAAATAAATAACATACTTCATGAAAAAAAATAAATGTCAAA
456 ACATGACTTTTTATAATTAAGAACAAAATAAATAACATACTTCATGAAAAAAAATAAATGTCAAA
5436458 ATTAAATAAAAAAATCTTTAAATACCAAAGTGATAATGATGTAAATTTTATAAGACTAAAATACT
521 ATTAAATAAAAAAATCTTTAAATACCAAAGTGATAATGATGTAAATTTTATAAGACTAAAATACT
*
5436523 ATATAAATCTTTTAACTTTTTTTTAAATGAAGAATAATTTGATACATTATAAATGAAAAAAATAT
586 ATATAAATCTTTTAACTTTTTTTTAAATGAAGAATAATTTAATACATTATAAATGAAAAAAATAT
* * *
5436588 CAAACAACGGTAAAATTATGACAAGTACCCTATTAAATTTAAGAACTAAAATGGTTATAAGTAAC
651 CAAACAACAGTAAAATTATGACAAATACCCTAATAAATTTAAGAACTAAAATGGTTATAAGTAAC
*
5436653 ATCATATTTATAGGTAATTTATTTTCTTTTTCTATAAAATTCTTTAAGTTTATTTTCTCTAAAAT
716 ATCATATTTATAGGTAATTTATTTTCTTTTTCTATAAAACTCTTTAAGTTTATTTTCTCTAAAAT
* *
5436718 TTTATAAATTTTAAATTAAGAGAACTATTGCGGGCTTCGCGGGCTACCCGCGGTTATACCCATTA
781 TTTATAAAATTTAAATTAAGAGAACTATTGCGGGCTTCGCGAGCTACCCGCGGTTATACCCATTA
* *
5436783 AACCCGCGGGTTTAACGGTCCGGGCTAAAAAGCCCGCAATTTAAACGAGCTTCAATTTTTTATGT
846 AACCCGCGAGTTTAACGGTCCGGGCTAAAAAACCCGCAATTTAAACGAGCTTCAATTTTTTATGT
*
5436848 CCAAAACCCGCACGGGCCGCGGGTTAAACGGGTAGCCCGCGGGCCTTTAGCCCATATACCCACCT
911 CCAAAACCCGCACGGGCCACGGGTTAAACGGGTAGCCCGCGGGCCTTTAGCCCATATACCCACCT
5436913 CT
976 CT
* *
5436915 ACTTGCTACACCTTTAAAAATGATCCAGTAACTTGAAAATGAATGTAGCACCGTCAAAATAATAA
1 ACTTGCTACACCTTTAAAAATGATCCAGTAACTTGAAAAGGAAGGTAGCACCGTCAAAATAATAA
*
5436980 ATAATATTTAAATTTTATTTTAAATAGCCAGAAATGATTATAAAATAAT-TTTTTTTAATTTTTT
66 ATAATATTTAAATTTTATTTTAAATAGCCAGAAATAATTATAAAATAATATTTTTTTAA--TTTT
5437044 TTAATCATTAATATATAG-AACGATATAATTACTTAAACTCAAATT-AAAAAA-AA-ATTCACTT
129 TTAATCATTAATATAT-GTAACGATATAATTACTTAAACTCAAATTAAAAAAACAATATTCACTT
5437105 ATATCACCAAATTAAAAAACAAATAAAACAATAACCACATTATACTTTTATAAAACACGATTATT
193 ATATCACCAAATTAAAAAACAAATAAAACAATAACCACATTATACTTTTATAAAACACGATTATT
* *
5437170 CAATGTTATAATATGAAGACACAGAAGTGTCTGCAAGCATAAATTCAAACATAAAAATTCAACAA
258 CAATGCTATAATATGAAGACACAGAAGTGTCTGCAAGCATAAATTCAAACAGAAAAATTCAACAA
* * * *
5437235 AGTCAAACATTATGCAAATCTAACATTTTTTCTTTTGTAAAATCCTTTAAAAGTTGAAAAGTATG
323 AGTCAAACATTATACAAATCTAACAATTTTTCTTTTGTAAAAGCCTTTAAAAGTTGAAAAATATG
* *
5437300 TTTTCAATTTTTTTCTTTTACTTTTCTTTCTTATTTTTAATCTAAATATTACGTGTCATGTCATA
388 TTTTCAA----------TT--TTTTCTTTCTTATTTTTAATCCAAATATTACGTGTAATGTCATA
* * *
5437365 TATTATTAGAATATCACATGACTTTTTATAATTAAAGAACGAAATGAATAACATACTTTATG-AA
441 TATTATTAGAATATCACATGACTTTTTATAATT-AAGAACAAAATAAATAACATACTTCATGAAA
5437429 AAAAATAAATGTCAAAATTAAATAAAAAAATCTTTAAATACCAAAGTGATAATGATGTAAATTTT
505 AAAAATAAATGTCAAAATTAAATAAAAAAATCTTTAAATACCAAAGTGATAATGATGTAAATTTT
5437494 ATAAGACTAAAATACTATATAAATCTTTTAACTTTTATTTTTAAAATGAAGAATAATTTAATACA
570 ATAAGACTAAAATACTATATAAATCTTTTAAC-TTT-TTTTT-AAATGAAGAATAATTTAATACA
* * * *
5437559 TTGTAAATGAAAAAAA-ATCAAGCAACAGTAGAATTATGACAAATGCCCTAATAAATTTAAGAAC
632 TTATAAATGAAAAAAATATCAAACAACAGTAAAATTATGACAAATACCCTAATAAATTTAAGAAC
* *
5437623 TACAATGGTTATTAGTAACATCATATTTATAGGTAATTTATTTTCTTTTTCTATAAAACTCTTTA
697 TAAAATGGTTATAAGTAACATCATATTTATAGGTAATTTATTTTCTTTTTCTATAAAACTCTTTA
* **
5437688 AGTTTATTTTCTCTAAAATTTTATAAAATTTAAATTAAGCGGGCTATTGCGGGCTTCGCGAGCTA
762 AGTTTATTTTCTCTAAAATTTTATAAAATTTAAATTAAGAGAACTATTGCGGGCTTCGCGAGCTA
* *
5437753 CCTGCGGTTATACCCATTAAACTCGCGAGTTTAACGGTCCGGGCTAAAAAAACCCGCAATTTAAA
827 CCCGCGGTTATACCCATTAAACCCGCGAGTTTAACGGTCCGGGCT-AAAAAACCCGCAATTTAAA
* * *
5437818 TGAGCTTCAGTTTTTTATGTTCAAAACCCGCACGGGCCACGGGTTAAACGGGTAGCCCGCGGGCC
891 CGAGCTTCAATTTTTTATGTCCAAAACCCGCACGGGCCACGGGTTAAACGGGTAGCCCGCGGGCC
*
5437883 -TTAGCCCATATACCCACTTCT
956 TTTAGCCCATATACCCACCTCT
5437904 AC
1 AC
5437906 CTTGTATATT
Statistics
Matches: 920, Mismatches: 51, Indels: 28
0.92 0.05 0.03
Matches are distributed among these distances:
975 197 0.21
976 11 0.01
977 114 0.12
978 47 0.05
979 1 0.00
985 2 0.00
987 172 0.19
988 28 0.03
989 233 0.25
990 115 0.12
ACGTcount: A:0.41, C:0.14, G:0.11, T:0.35
Consensus pattern (977 bp):
ACTTGCTACACCTTTAAAAATGATCCAGTAACTTGAAAAGGAAGGTAGCACCGTCAAAATAATAA
ATAATATTTAAATTTTATTTTAAATAGCCAGAAATAATTATAAAATAATATTTTTTTAATTTTTT
AATCATTAATATATGTAACGATATAATTACTTAAACTCAAATTAAAAAAACAATATTCACTTATA
TCACCAAATTAAAAAACAAATAAAACAATAACCACATTATACTTTTATAAAACACGATTATTCAA
TGCTATAATATGAAGACACAGAAGTGTCTGCAAGCATAAATTCAAACAGAAAAATTCAACAAAGT
CAAACATTATACAAATCTAACAATTTTTCTTTTGTAAAAGCCTTTAAAAGTTGAAAAATATGTTT
TCAATTTTTTCTTTCTTATTTTTAATCCAAATATTACGTGTAATGTCATATATTATTAGAATATC
ACATGACTTTTTATAATTAAGAACAAAATAAATAACATACTTCATGAAAAAAAATAAATGTCAAA
ATTAAATAAAAAAATCTTTAAATACCAAAGTGATAATGATGTAAATTTTATAAGACTAAAATACT
ATATAAATCTTTTAACTTTTTTTTAAATGAAGAATAATTTAATACATTATAAATGAAAAAAATAT
CAAACAACAGTAAAATTATGACAAATACCCTAATAAATTTAAGAACTAAAATGGTTATAAGTAAC
ATCATATTTATAGGTAATTTATTTTCTTTTTCTATAAAACTCTTTAAGTTTATTTTCTCTAAAAT
TTTATAAAATTTAAATTAAGAGAACTATTGCGGGCTTCGCGAGCTACCCGCGGTTATACCCATTA
AACCCGCGAGTTTAACGGTCCGGGCTAAAAAACCCGCAATTTAAACGAGCTTCAATTTTTTATGT
CCAAAACCCGCACGGGCCACGGGTTAAACGGGTAGCCCGCGGGCCTTTAGCCCATATACCCACCT
CT
Found at i:5438280 original size:129 final size:129
Alignment explanation
Indices: 5438050--5438310 Score: 504
Period size: 129 Copynumber: 2.0 Consensus size: 129
5438040 TGAACATTCA
5438050 TTGTCAAATTATTAAGATGTTAAAACAAAATCATAATAAATATGAAAATAGCCATGATCTAATCA
1 TTGTCAAATTATTAAGATGTTAAAACAAAATCATAATAAATATGAAAATAGCCATGATCTAATCA
* *
5438115 TGTTAAATCATCAAGAATAAAAATAAATATTAGATGCGAAAGTGTACTTAAATTAATTGATATG
66 TATCAAATCATCAAGAATAAAAATAAATATTAGATGCGAAAGTGTACTTAAATTAATTGATATG
5438179 TTGTCAAATTATTAAGATGTTAAAACAAAATCATAATAAATATGAAAATAGCCATGATCTAATCA
1 TTGTCAAATTATTAAGATGTTAAAACAAAATCATAATAAATATGAAAATAGCCATGATCTAATCA
5438244 TATCAAATCATCAAGAATAAAAATAAATATTAGATGCGAAAGTGTACTTAAATTAATTGATATG
66 TATCAAATCATCAAGAATAAAAATAAATATTAGATGCGAAAGTGTACTTAAATTAATTGATATG
5438308 TTG
1 TTG
5438311 AAATCCTTGA
Statistics
Matches: 130, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
129 130 1.00
ACGTcount: A:0.48, C:0.09, G:0.11, T:0.32
Consensus pattern (129 bp):
TTGTCAAATTATTAAGATGTTAAAACAAAATCATAATAAATATGAAAATAGCCATGATCTAATCA
TATCAAATCATCAAGAATAAAAATAAATATTAGATGCGAAAGTGTACTTAAATTAATTGATATG
Found at i:5441351 original size:55 final size:55
Alignment explanation
Indices: 5441283--5441392 Score: 220
Period size: 55 Copynumber: 2.0 Consensus size: 55
5441273 TTTTCTTACT
5441283 AAAATGTACTCTCTCTTTTTATTTAGAACCTTAACATTGTATTTTACTCAATTTG
1 AAAATGTACTCTCTCTTTTTATTTAGAACCTTAACATTGTATTTTACTCAATTTG
5441338 AAAATGTACTCTCTCTTTTTATTTAGAACCTTAACATTGTATTTTACTCAATTTG
1 AAAATGTACTCTCTCTTTTTATTTAGAACCTTAACATTGTATTTTACTCAATTTG
5441393 GTCTTTTGAC
Statistics
Matches: 55, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
55 55 1.00
ACGTcount: A:0.29, C:0.16, G:0.07, T:0.47
Consensus pattern (55 bp):
AAAATGTACTCTCTCTTTTTATTTAGAACCTTAACATTGTATTTTACTCAATTTG
Found at i:5442672 original size:21 final size:21
Alignment explanation
Indices: 5442626--5442669 Score: 70
Period size: 21 Copynumber: 2.0 Consensus size: 21
5442616 AACCGGTTAT
*
5442626 GGTGGTGGTTCCAGTGGATAC
1 GGTGGTGGTTCCAGTGGAAAC
5442647 GGTGGTGGTTCCAGTGGTAAAC
1 GGTGGTGGTTCCAGTGG-AAAC
5442669 G
1 G
5442670 TGGAGGATAC
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
21 17 0.81
22 4 0.19
ACGTcount: A:0.16, C:0.14, G:0.43, T:0.27
Consensus pattern (21 bp):
GGTGGTGGTTCCAGTGGAAAC
Found at i:5442692 original size:21 final size:21
Alignment explanation
Indices: 5442667--5442793 Score: 182
Period size: 21 Copynumber: 6.0 Consensus size: 21
5442657 CCAGTGGTAA
* *
5442667 ACGTGGAGGATACGGTGGTGG
1 ACGTGGAAGTTACGGTGGTGG
*
5442688 CCGTGGAAGTTACGGTGGTGG
1 ACGTGGAAGTTACGGTGGTGG
*
5442709 ACATGGAAGTTACGGTGGTGG
1 ACGTGGAAGTTACGGTGGTGG
*
5442730 ACGTGGAAGTTATGGTGGTGG
1 ACGTGGAAGTTACGGTGGTGG
* *
5442751 ACGTGGAAGCTACGGAGGTGG
1 ACGTGGAAGTTACGGTGGTGG
*
5442772 ACGTGGAAGTTACGGGGGTGG
1 ACGTGGAAGTTACGGTGGTGG
5442793 A
1 A
5442794 GAGCAGAACG
Statistics
Matches: 94, Mismatches: 12, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 94 1.00
ACGTcount: A:0.20, C:0.10, G:0.48, T:0.21
Consensus pattern (21 bp):
ACGTGGAAGTTACGGTGGTGG
Found at i:5444401 original size:27 final size:27
Alignment explanation
Indices: 5444371--5444449 Score: 95
Period size: 33 Copynumber: 2.7 Consensus size: 27
5444361 ACAGTTATGG
5444371 TGGAGGATACGGTGGACGTGGTAAACA
1 TGGAGGATACGGTGGACGTGGTAAACA
*
5444398 TGGAGGATACAGTGGACATTCCGGTGGTAAACA
1 TGGAGGATACGGTGG--A---C-GTGGTAAACA
5444431 TGGAGGATACGGTGGACGT
1 TGGAGGATACGGTGGACGT
5444450 TCCGGTGGTA
Statistics
Matches: 44, Mismatches: 2, Indels: 12
0.76 0.03 0.21
Matches are distributed among these distances:
27 16 0.36
28 1 0.02
29 1 0.02
31 1 0.02
32 1 0.02
33 24 0.55
ACGTcount: A:0.28, C:0.13, G:0.39, T:0.20
Consensus pattern (27 bp):
TGGAGGATACGGTGGACGTGGTAAACA
Found at i:5444430 original size:33 final size:33
Alignment explanation
Indices: 5444388--5444521 Score: 160
Period size: 33 Copynumber: 3.9 Consensus size: 33
5444378 TACGGTGGAC
5444388 GTGGTAAACATGGAGGATACAGTGGACATTCCG
1 GTGGTAAACATGGAGGATACAGTGGACATTCCG
* *
5444421 GTGGTAAACATGGAGGATACGGTGGACGTTCCG
1 GTGGTAAACATGGAGGATACAGTGGACATTCCG
* * * *
5444454 GTGGTAAACATGGAGGATACGGCGGATATGAAAGTTCAG
1 GTGGTAAACATGGAGGATA---CAG-T-GGACA-TTCCG
5444493 GTGGTAAACATGGAGGATACAGTGGACAT
1 GTGGTAAACATGGAGGATACAGTGGACAT
5444522 GGTGGAAGTT
Statistics
Matches: 86, Mismatches: 9, Indels: 12
0.80 0.08 0.11
Matches are distributed among these distances:
33 51 0.59
34 3 0.03
35 1 0.01
36 5 0.06
37 1 0.01
38 2 0.02
39 23 0.27
ACGTcount: A:0.31, C:0.13, G:0.36, T:0.21
Consensus pattern (33 bp):
GTGGTAAACATGGAGGATACAGTGGACATTCCG
Found at i:5444544 original size:42 final size:42
Alignment explanation
Indices: 5444441--5444565 Score: 175
Period size: 42 Copynumber: 3.0 Consensus size: 42
5444431 TGGAGGATAC
* *
5444441 GGTGGACGTTCCGGTGGTAAACATGGAGGATACGGCGG--AT
1 GGTGGAAGTTCCGGTGGTAAACATGGAGGATACGGTGGACAT
* * * *
5444481 -ATGAAAGTTCAGGTGGTAAACATGGAGGATACAGTGGACAT
1 GGTGGAAGTTCCGGTGGTAAACATGGAGGATACGGTGGACAT
5444522 GGTGGAAGTTCCGGTGGTAAACATGGAGGATACGGTGGACAT
1 GGTGGAAGTTCCGGTGGTAAACATGGAGGATACGGTGGACAT
5444564 GG
1 GG
5444566 AGGGTACGAG
Statistics
Matches: 72, Mismatches: 10, Indels: 4
0.84 0.12 0.05
Matches are distributed among these distances:
39 31 0.43
41 2 0.03
42 39 0.54
ACGTcount: A:0.28, C:0.12, G:0.39, T:0.21
Consensus pattern (42 bp):
GGTGGAAGTTCCGGTGGTAAACATGGAGGATACGGTGGACAT
Found at i:5444557 original size:21 final size:21
Alignment explanation
Indices: 5444492--5444559 Score: 61
Period size: 21 Copynumber: 3.2 Consensus size: 21
5444482 TGAAAGTTCA
5444492 GGTGGTAAACATGGAGGATAC
1 GGTGGTAAACATGGAGGATAC
* * *
5444513 AGTGG---ACATGGTGGAAGTTCC
1 GGTGGTAAACATGGAGG-A--TAC
5444534 GGTGGTAAACATGGAGGATAC
1 GGTGGTAAACATGGAGGATAC
5444555 GGTGG
1 GGTGG
5444560 ACATGGAGGG
Statistics
Matches: 35, Mismatches: 6, Indels: 12
0.66 0.11 0.23
Matches are distributed among these distances:
18 8 0.23
19 1 0.03
21 17 0.49
23 1 0.03
24 8 0.23
ACGTcount: A:0.28, C:0.10, G:0.41, T:0.21
Consensus pattern (21 bp):
GGTGGTAAACATGGAGGATAC
Found at i:5444565 original size:18 final size:18
Alignment explanation
Indices: 5444500--5444573 Score: 58
Period size: 18 Copynumber: 3.8 Consensus size: 18
5444490 CAGGTGGTAA
*
5444500 ACATGGAGGATACAGTGG
1 ACATGGAGGATACGGTGG
* *
5444518 ACATGGTGGAAGTTCCGGTGG
1 ACATGGAGG-A--TACGGTGG
5444539 TAAACATGGAGGATACGGTGG
1 ---ACATGGAGGATACGGTGG
*
5444560 ACATGGAGGGTACG
1 ACATGGAGGATACG
5444574 AGGCTGATGT
Statistics
Matches: 44, Mismatches: 6, Indels: 12
0.71 0.10 0.19
Matches are distributed among these distances:
18 21 0.48
19 1 0.02
21 13 0.30
23 1 0.02
24 8 0.18
ACGTcount: A:0.28, C:0.12, G:0.41, T:0.19
Consensus pattern (18 bp):
ACATGGAGGATACGGTGG
Found at i:5445702 original size:29 final size:28
Alignment explanation
Indices: 5445657--5445716 Score: 93
Period size: 29 Copynumber: 2.1 Consensus size: 28
5445647 ATTTACTTAT
*
5445657 ATAAATAAAAAATAATAATAATGAAATA
1 ATAAATAAAAAATAATAATAATAAAATA
*
5445685 ATAATTAAAGAAATAATAATAATAAAATA
1 ATAAATAAA-AAATAATAATAATAAAATA
5445714 ATA
1 ATA
5445717 TTGCAAATAA
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
28 8 0.28
29 21 0.72
ACGTcount: A:0.70, C:0.00, G:0.03, T:0.27
Consensus pattern (28 bp):
ATAAATAAAAAATAATAATAATAAAATA
Found at i:5446997 original size:3 final size:3
Alignment explanation
Indices: 5446977--5447034 Score: 66
Period size: 3 Copynumber: 19.0 Consensus size: 3
5446967 ATTGGGCCTG
*
5446977 TAA T-A TAA TAA -AA TTAA TAA TAAA TAA TAA TAT TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA -TAA TAA T-AA TAA TAA TAA TAA TAA TAA TAA
5447022 TAA TAAA TAA TAA
1 TAA T-AA TAA TAA
5447035 AAGAAATCAA
Statistics
Matches: 48, Mismatches: 2, Indels: 10
0.80 0.03 0.17
Matches are distributed among these distances:
2 4 0.08
3 36 0.75
4 8 0.17
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:5447005 original size:19 final size:18
Alignment explanation
Indices: 5446977--5447034 Score: 73
Period size: 19 Copynumber: 3.2 Consensus size: 18
5446967 ATTGGGCCTG
5446977 TAAT-ATAATAAAATTAA
1 TAATAATAATAAAATTAA
*
5446994 TAATAAATAATAATATTAA
1 TAAT-AATAATAAAATTAA
*
5447013 TAATAATAATAATAAATAA
1 TAATAATAATAA-AATTAA
5447032 TAA
1 TAA
5447035 AAGAAATCAA
Statistics
Matches: 35, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
17 4 0.11
18 8 0.23
19 23 0.66
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (18 bp):
TAATAATAATAAAATTAA
Found at i:5447015 original size:28 final size:27
Alignment explanation
Indices: 5446977--5447034 Score: 91
Period size: 28 Copynumber: 2.1 Consensus size: 27
5446967 ATTGGGCCTG
5446977 TAATATAATAA-AATTAATAATAAATAA
1 TAATATAATAATAA-TAATAATAAATAA
5447004 TAATATTAATAATAATAATAATAAATAA
1 TAATA-TAATAATAATAATAATAAATAA
5447032 TAA
1 TAA
5447035 AAGAAATCAA
Statistics
Matches: 29, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
27 5 0.17
28 22 0.76
29 2 0.07
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (27 bp):
TAATATAATAATAATAATAATAAATAA
Found at i:5447474 original size:126 final size:124
Alignment explanation
Indices: 5447284--5448031 Score: 591
Period size: 113 Copynumber: 6.3 Consensus size: 124
5447274 TCCTTATGAA
* * ** *
5447284 CTTCTTCTTCTTCAGATGAGTTCTTCTCATTATGAAC-TCCTTCTGGAAATGCTGATGATGATAT
1 CTTCTTCTTCTTCAGATAAGTTCTTCTCATTATGAACTTTC-TCTGGAAA-AATGATGATGATCT
*
5447348 ATCTCCTGCTGTGATAGAGTTATGCAAAAGGTTGAACAAGCTCTTCTCATTATGAACTTCTT
64 ATCT-CTGCTGTGATAGAGTTATGCAAAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTT
* * * * *
5447410 CTTCTTCTTCTTCAAATAAATTCTTATTATTATGAACTTTCTCTGGAAAAATTGATGATGATATA
1 CTTCTTCTTCTTCAGATAAGTTCTTCTCATTATGAACTTTCTCTGGAAAAA-TGATGATGATCTA
* *
5447475 TCTCCTGCTGTGATATAGTTATGCAAAAGGTTGAACAAGTTATTCTCATTATGAA---CTT
65 TCT-CTGCTGTGATAGAGTTATGCAAAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTT
* *
5447533 CTTCTTCTTCTTCAGATAAGTTCTTCTTATTATGAACTTTCTCTGG-AAAA-G-T--TGATCCA-
1 CTTCTTCTTCTTCAGATAAGTTCTTCTCATTATGAACTTTCTCTGGAAAAATGATGATGATCTAT
* * ** * * *
5447592 -TC-G-AGTGAT-GAATTCAAACAAAAAGTTGAACAAATTCTTCTCATTATGAATTTCTT
66 CTCTGCTGTGATAGAGTT-ATGCAAAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTT
* *
5447648 CTTC--CTTCTTCAGATAAGTTCTTCTCATTATGAACTTTCTCTTG---AA--ATGATGATCCA-
1 CTTCTTCTTCTTCAGATAAGTTCTTCTCATTATGAACTTTCTCTGGAAAAATGATGATGATCTAT
** * * *
5447705 -TC-G-AATGAT-GAATTTAAGCAAAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTT
66 CTCTGCTGTGATAG-AGTTATGCAAAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTT
* **
5447761 CTTC--CTTCTTCAGATGAGTTCTTCTCATTATGAACTTTAC-CTGGAAATGTTGATGATGATCT
1 CTTCTTCTTCTTCAGATAAGTTCTTCTCATTATGAACTTT-CTCTGGAAA-AATGATGATGATCT
* * * * * * *
5447823 ATCTATTTCTATGATAGAGTCATGAAAAAGGTTGAACAAATTATTCTCATTATGAA--T-TT
64 ATCT-CTGCTGTGATAGAGTTATGCAAAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTT
* * * * *
5447882 CTTCTTC--CTTCAGATGAGTTCTTCTTATTATGAACTCTTC-CTGG--CAAT-A--CTGATCCA
1 CTTCTTCTTCTTCAGATAAGTTCTTCTCATTATGAACT-TTCTCTGGAAAAATGATGATGATCTA
*** * ** *
5447939 --TC--AAATGAT-GAATTTAAACAAAAGGTTGAACAAGTTCTTCTCATTATGAACTTTTT
65 TCTCTGCTGTGATAG-AGTTATGCAAAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTT
*
5447995 CTTC--CTTCTTCAGATGAGTTCTTCTCATTATGAACTT
1 CTTCTTCTTCTTCAGATAAGTTCTTCTCATTATGAACTT
5448032 GACCTGGCAA
Statistics
Matches: 527, Mismatches: 63, Indels: 78
0.79 0.09 0.12
Matches are distributed among these distances:
109 1 0.00
110 37 0.07
111 7 0.01
112 37 0.07
113 168 0.32
114 5 0.01
115 14 0.03
117 6 0.01
118 1 0.00
119 11 0.02
120 1 0.00
121 40 0.08
122 7 0.01
123 47 0.09
124 37 0.07
125 1 0.00
126 105 0.20
127 2 0.00
ACGTcount: A:0.29, C:0.18, G:0.14, T:0.40
Consensus pattern (124 bp):
CTTCTTCTTCTTCAGATAAGTTCTTCTCATTATGAACTTTCTCTGGAAAAATGATGATGATCTAT
CTCTGCTGTGATAGAGTTATGCAAAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTT
Found at i:5447688 original size:113 final size:112
Alignment explanation
Indices: 5447498--5448285 Score: 937
Period size: 113 Copynumber: 6.9 Consensus size: 112
5447488 TATAGTTATG
* * * * *
5447498 CAAAAGGTTGAACAAGTTATTCTCATTATGAACTTCTTCTT-CTTCTTCAGATAAGTTCTTCTTA
1 CAAAAAGTTGAACAAGTTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCA
* * * *
5447562 TTATGAACTTTCTCTGGAAAAGTTGATCCATCGAGTGATGAATTCAAA
66 TTATGAACTTTC-CTGGAAATGCTGATCCATCAAATGATGAATTCAAA
* *
5447610 CAAAAAGTTGAACAAATTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATAAGTTCTTCTCA
1 CAAAAAGTTGAACAAGTTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCA
* * * * *
5447675 TTATGAACTTTCTCTTGAAATGATGATCCATCGAATGATGAATTTAAG
66 TTATGAACTTTC-CTGGAAATGCTGATCCATCAAATGATGAATTCAAA
*
5447723 CAAAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCA
1 CAAAAAGTTGAACAAGTTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCA
* * * * *
5447788 TTATGAACTTTACCTGGAAATGTTGATGATGATCTATCTATTTCTATGAT-AGAGTCATGA
66 TTATGAACTTT-CCTGG-AA-----ATGCTGATCCATC-A----AATGATGA-ATTCA-AA
* * * *
5447848 -AAAAGGTTGAACAAATTATTCTCATTATGAATTTCTTCTT-C--CTTCAGATGAGTTCTTCTTA
1 CAAAAAGTTGAACAAGTTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCA
* * *
5447909 TTATGAACTCTTCCTGGCAATACTGATCCATCAAATGATGAATTTAAA
66 TTATGAACT-TTCCTGGAAATGCTGATCCATCAAATGATGAATTCAAA
*
5447957 CAAAAGGTTGAACAAGTTCTTCTCATTATGAACTTT-TTCTTCCTTCTTCAGATGAGTTCTTCTC
1 CAAAAAGTTGAACAAGTTCTTCTCATTATGAA-TTTCTTCTTCCTTCTTCAGATGAGTTCTTCTC
* *
5448021 ATTATGAACTTGACCTGGCAATGCTGATCCATCAAATGATGAATTCAAA
65 ATTATGAACTT-TCCTGGAAATGCTGATCCATCAAATGATGAATTCAAA
* *
5448070 CAAAAAGTTGAACAAGTTATTCTCATTATGAATTTCTGCTTCCTTCTTCAGATGAGTTCTTCTCA
1 CAAAAAGTTGAACAAGTTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCA
* * *
5448135 TTATGAACTTGACCTGGCAATGCTGATCCATTAAATGATGAATTCAAA
66 TTATGAACTT-TCCTGGAAATGCTGATCCATCAAATGATGAATTCAAA
* *
5448183 CAAAAAGTTGAACAAGTTCTTTTCATTATGAACTTCTTCTT-CTTCTTCAGATGAGTTCTTCTCA
1 CAAAAAGTTGAACAAGTTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCA
* * **
5448247 TTATGAACTCTT-TTGGAAATGTTGATCCATTGAATGATG
66 TTATGAACT-TTCCTGGAAATGCTGATCCATCAAATGATG
5448286 GATTTAAATC
Statistics
Matches: 597, Mismatches: 54, Indels: 51
0.85 0.08 0.07
Matches are distributed among these distances:
109 1 0.00
110 42 0.07
111 28 0.05
112 73 0.12
113 345 0.58
114 4 0.01
115 10 0.02
119 12 0.02
120 1 0.00
121 33 0.06
122 2 0.00
123 2 0.00
124 44 0.07
ACGTcount: A:0.30, C:0.18, G:0.14, T:0.39
Consensus pattern (112 bp):
CAAAAAGTTGAACAAGTTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCA
TTATGAACTTTCCTGGAAATGCTGATCCATCAAATGATGAATTCAAA
Found at i:5447986 original size:347 final size:348
Alignment explanation
Indices: 5447371--5448161 Score: 1099
Period size: 347 Copynumber: 2.3 Consensus size: 348
5447361 ATAGAGTTAT
* * * * * *
5447371 GCAAAAGGTTGAACAAGCTCTTCTCATTATGAACTTCTTCTTCTTCTTCTTCAAATAAATTCTTA
1 GCAAAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTC--CTTCTTCAGATGAGTTCTTC
* ** * * * * *
5447436 TTATTATGAACTTT-CTCTGGAAAAATTGATGATGATATATCTCCTGCTGTGATATAGTTATGCA
64 TCATTATGAACTTTAC-CTGGAAATGTTGATGATGATATATCTACTGCTATGATAGAGTCATGAA
*
5447500 AAAGGTTGAACAAGTTATTCTCATTATGAACTTCTTCTTCTTCTTCAGATAAGTTCTTCTTATTA
128 AAAGGTTGAACAAATTATTCTCATTATGAACTTCTTCTTC-TCTTCAGATAAGTTCTTCTTATTA
* * *
5447565 TGAACTTTCTCTGGAAAAGTTGATCCATCGAGTGATGAATTCAAACAAAAAGTTGAACAAATTCT
192 TGAACTTTCTCTGGAAAAGCTGATCCATCAAATGATGAATTCAAACAAAAAGTTGAACAAATTCT
* *
5447630 TCTCATTATGAA-TTTCTTCTTCCTTCTTCAGATAAGTTCTTCTCATTATGAACTT-TCTCTTGA
257 TCTCATTATGAACTTT-TTCTTCCTTCTTCAGATAAGTTCTTCTCATTATGAACTTGAC-CTGGA
* *
5447693 AATGATGATCCATCGAATGATGAATTTAA
320 AATGATGATCCATCAAATGATGAATTCAA
5447722 GCAAAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTC
1 GCAAAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTC
* * *
5447787 ATTATGAACTTTACCTGGAAATGTTGATGATGATCTATCTATTTCTATGATAGAGTCATGAAAAA
66 ATTATGAACTTTACCTGGAAATGTTGATGATGATATATCTACTGCTATGATAGAGTCATGAAAAA
* *
5447852 GGTTGAACAAATTATTCTCATTATGAATTTCTTCTTC-CTTCAGATGAGTTCTTCTTATTATGAA
131 GGTTGAACAAATTATTCTCATTATGAACTTCTTCTTCTCTTCAGATAAGTTCTTCTTATTATGAA
* * * *
5447916 CTCTTC-CTGGCAATA-CTGATCCATCAAATGATGAATTTAAACAAAAGGTTGAACAAGTTCTTC
196 CT-TTCTCTGG-AAAAGCTGATCCATCAAATGATGAATTCAAACAAAAAGTTGAACAAATTCTTC
* *
5447979 TCATTATGAACTTTTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTGACCTGGCAATG
259 TCATTATGAACTTTTTCTTCCTTCTTCAGATAAGTTCTTCTCATTATGAACTTGACCTGGAAATG
*
5448044 CTGATCCATCAAATGATGAATTCAA
324 ATGATCCATCAAATGATGAATTCAA
* * * *
5448069 ACAAAAAGTTGAACAAGTTATTCTCATTATGAATTTCTGCTTCCTTCTTCAGATGAGTTCTTCTC
1 GCAAAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTC
* * *
5448134 ATTATGAACTTGACCTGGCAATGCTGAT
66 ATTATGAACTTTACCTGGAAATGTTGAT
5448162 CCATTAAATG
Statistics
Matches: 394, Mismatches: 41, Indels: 14
0.88 0.09 0.03
Matches are distributed among these distances:
347 237 0.60
348 10 0.03
349 105 0.27
350 1 0.00
351 41 0.10
ACGTcount: A:0.30, C:0.18, G:0.14, T:0.39
Consensus pattern (348 bp):
GCAAAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTC
ATTATGAACTTTACCTGGAAATGTTGATGATGATATATCTACTGCTATGATAGAGTCATGAAAAA
GGTTGAACAAATTATTCTCATTATGAACTTCTTCTTCTCTTCAGATAAGTTCTTCTTATTATGAA
CTTTCTCTGGAAAAGCTGATCCATCAAATGATGAATTCAAACAAAAAGTTGAACAAATTCTTCTC
ATTATGAACTTTTTCTTCCTTCTTCAGATAAGTTCTTCTCATTATGAACTTGACCTGGAAATGAT
GATCCATCAAATGATGAATTCAA
Found at i:5448165 original size:460 final size:465
Alignment explanation
Indices: 5447250--5448272 Score: 1331
Period size: 460 Copynumber: 2.2 Consensus size: 465
5447240 GATGTAATCT
* * *
5447250 AGCAAAAAGTTGAACAAATTCTCCTCCTTATGAA---CTTCTTCTTCTTCAGATGAGTTCTTCTC
1 AGCAAAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCTTCTTCAGATGAGTTCTTCTC
* * * * *
5447312 ATTATGAACTCCTTCTGGAAATGCTGATGATGATATATCTCCTGCTGTGATAGAGTTATGCAAAA
66 ATTATGAACT-CTTCTGGAAATGTTGATGATGATATATCTACTGCTATGATAGAGTCATGAAAAA
* *
5447377 GGTTGAACAAGCTCTTCTCATTATGAACTTCTTCTTCTTCTTCTTCAAATAAATTCTTATTATTA
130 GGTTGAACAAACTATTCTCATTATGAAC-TCTTCTTCTTC-TCTTCAAATAAATTCTTATTATTA
* * * * **
5447442 TGAACTTTCTCTGGAAAAATTGATGATGATATATCTCCTGCTGTGATATAGTTATGCAAAAGGTT
193 TGAACTTTCTCTGGAAAAACTGATCATCATATA----CTGC-ATGATATA-TTAAACAAAAGGTT
*
5447507 GAACAAGTTATTCTCATTATGAACTTCTTCTTCTTCTTCAGATAAGTTCTTCTTATTATGAACTT
252 GAACAAGTTATTCTCATTATGAACTTCTTCTTCTTCTTCAGATAAGTTCTTCTCATTATGAACTT
* * * * *
5447572 TCTCTGGAAAAGTTGATCCATCGAGTGATGAATTCAAACAAAAAGTTGAACAAATTCTTCTCATT
317 ACTCTGGAAAAGCTGATCCATCAAATGATGAATTCAAACAAAAAGTTGAACAAATTATTCTCATT
* * *
5447637 ATGAATTTCTTCTTCCTTCTTCAGATAAGTTCTTCTCATTATGAACTTTCTCTTGAAATGATGAT
382 ATGAATTTCTGCTTCCTTCTTCAGATAAGTTCTTCTCATTATGAACTTACTCTGGAAATGATGAT
* *
5447702 CCATCGAATGATGAATTTA
447 CCATCAAATGATGAATTCA
5447721 AGCAAAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCT
1 AGCAAAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTT-CTTCTTCAGATGAGTTCTTCT
* * *
5447786 CATTATGAACT-TTACCTGGAAATGTTGATGATGATCTATCTATTTCTATGATAGAGTCATGAAA
65 CATTATGAACTCTT--CTGGAAATGTTGATGATGATATATCTACTGCTATGATAGAGTCATGAAA
* * * * *
5447850 AAGGTTGAACAAATTATTCTCATTATGAA-T-TTCTTCTTC-CTTCAGATGAGTTCTTCTTATTA
128 AAGGTTGAACAAACTATTCTCATTATGAACTCTTCTTCTTCTCTTCAAATAAATTCTTATTATTA
* *
5447912 TGAACTCTTC-CTGGCAATACTGATCCATCA-A-A-TG-ATGA-AT-TTAAACAAAAGGTTGAAC
193 TGAACT-TTCTCTGGAAAAACTGAT-CATCATATACTGCATGATATATTAAACAAAAGGTTGAAC
* * *
5447970 AAGTTCTTCTCATTATGAACTTTTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTGAC
256 AAGTTATTCTCATTATGAACTTCTTCTT-CTTCTTCAGATAAGTTCTTCTCATTATGAACTT-AC
* * *
5448035 -CTGGCAATGCTGATCCATCAAATGATGAATTCAAACAAAAAGTTGAACAAGTTATTCTCATTAT
319 TCTGGAAAAGCTGATCCATCAAATGATGAATTCAAACAAAAAGTTGAACAAATTATTCTCATTAT
* * *
5448099 GAATTTCTGCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTGAC-CTGGCAATGCTGATC
384 GAATTTCTGCTTCCTTCTTCAGATAAGTTCTTCTCATTATGAACTT-ACTCTGGAAATGATGATC
*
5448163 CATTAAATGATGAATTCA
448 CATCAAATGATGAATTCA
* *
5448181 AACAAAAAGTTGAACAAGTTCTTTTCATTATGAACTTCTTCTTCTTCTTCAGATGAGTTCTTCTC
1 AGCAAAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCTTCTTCAGATGAGTTCTTCTC
*
5448246 ATTATGAACTCTTTTGGAAATGTTGAT
66 ATTATGAACTCTTCTGGAAATGTTGAT
5448273 CCATTGAATG
Statistics
Matches: 490, Mismatches: 50, Indels: 37
0.85 0.09 0.06
Matches are distributed among these distances:
458 13 0.03
459 74 0.15
460 202 0.41
461 4 0.01
462 3 0.01
464 2 0.00
469 1 0.00
470 37 0.08
471 37 0.08
472 9 0.02
473 3 0.01
474 6 0.01
475 99 0.20
ACGTcount: A:0.29, C:0.18, G:0.14, T:0.39
Consensus pattern (465 bp):
AGCAAAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCTTCTTCAGATGAGTTCTTCTC
ATTATGAACTCTTCTGGAAATGTTGATGATGATATATCTACTGCTATGATAGAGTCATGAAAAAG
GTTGAACAAACTATTCTCATTATGAACTCTTCTTCTTCTCTTCAAATAAATTCTTATTATTATGA
ACTTTCTCTGGAAAAACTGATCATCATATACTGCATGATATATTAAACAAAAGGTTGAACAAGTT
ATTCTCATTATGAACTTCTTCTTCTTCTTCAGATAAGTTCTTCTCATTATGAACTTACTCTGGAA
AAGCTGATCCATCAAATGATGAATTCAAACAAAAAGTTGAACAAATTATTCTCATTATGAATTTC
TGCTTCCTTCTTCAGATAAGTTCTTCTCATTATGAACTTACTCTGGAAATGATGATCCATCAAAT
GATGAATTCA
Found at i:5448718 original size:22 final size:22
Alignment explanation
Indices: 5448693--5448747 Score: 83
Period size: 22 Copynumber: 2.5 Consensus size: 22
5448683 GATAAAGCTT
*
5448693 TCATCTTTGAAAAGAGAATCTG
1 TCATCTTTGAAAAGAGAATCTA
* *
5448715 TCATCTTTAAAAAGGGAATCTA
1 TCATCTTTGAAAAGAGAATCTA
5448737 TCATCTTTGAA
1 TCATCTTTGAA
5448748 GAGTGTAGAT
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 29 1.00
ACGTcount: A:0.36, C:0.15, G:0.15, T:0.35
Consensus pattern (22 bp):
TCATCTTTGAAAAGAGAATCTA
Found at i:5449182 original size:50 final size:54
Alignment explanation
Indices: 5449119--5449320 Score: 290
Period size: 54 Copynumber: 3.8 Consensus size: 54
5449109 TCACTGGTTT
* *
5449119 GTAAAACATTTGACAATACATTCAT-CTTTTCCTGTGGTTTCTG-TC-GA-GAT-
1 GTAAAACATTTGACAACACATTCATCCTTTT-CTGTGGTTTCTGCTCAGACGTTC
* * *
5449169 GTAAAACACTTGACAACACATTCATCCTTTTCTGTGGCTTCTGCTCAGATGTTC
1 GTAAAACATTTGACAACACATTCATCCTTTTCTGTGGTTTCTGCTCAGACGTTC
*
5449223 GTAAAACATTTGACAACACATTCAT-CATTTCTTGTGGTTTCTGCTCAGACGTTC
1 GTAAAACATTTGACAACACATTCATCCTTTTC-TGTGGTTTCTGCTCAGACGTTC
5449277 GTAAAACATTTGACAACACATTCATCCTTTTCTGTGGTTTCTGC
1 GTAAAACATTTGACAACACATTCATCCTTTTCTGTGGTTTCTGC
5449321 CAAGATTTCT
Statistics
Matches: 136, Mismatches: 9, Indels: 10
0.88 0.06 0.06
Matches are distributed among these distances:
50 34 0.25
51 7 0.05
52 2 0.01
53 7 0.05
54 81 0.60
55 5 0.04
ACGTcount: A:0.25, C:0.22, G:0.15, T:0.38
Consensus pattern (54 bp):
GTAAAACATTTGACAACACATTCATCCTTTTCTGTGGTTTCTGCTCAGACGTTC
Found at i:5449835 original size:43 final size:43
Alignment explanation
Indices: 5449787--5449873 Score: 174
Period size: 43 Copynumber: 2.0 Consensus size: 43
5449777 TAGCTTCGTA
5449787 ACCTTAACAGTATGGTTGAAACTAACTGACAGGAATCTCAAAG
1 ACCTTAACAGTATGGTTGAAACTAACTGACAGGAATCTCAAAG
5449830 ACCTTAACAGTATGGTTGAAACTAACTGACAGGAATCTCAAAG
1 ACCTTAACAGTATGGTTGAAACTAACTGACAGGAATCTCAAAG
5449873 A
1 A
5449874 AATATTTTCA
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
43 44 1.00
ACGTcount: A:0.40, C:0.18, G:0.18, T:0.23
Consensus pattern (43 bp):
ACCTTAACAGTATGGTTGAAACTAACTGACAGGAATCTCAAAG
Found at i:5451603 original size:116 final size:115
Alignment explanation
Indices: 5451439--5451782 Score: 564
Period size: 115 Copynumber: 3.0 Consensus size: 115
5451429 GATCATGCAG
* * * * * * *
5451439 TTCATCTTTTAATTCCAATGATTGG-TTCTGTGGTTCCTACCGAGCCAGATCAGATAACTTCAAA
1 TTCATCTTTCAAATCCAATGATTGGTTTTTGGGGTTCATACCAAACCAGATCAGATAAC-TCAAA
* * *
5451503 GAACACTTCCAGAAGATGCTATTGAGCCTTCTTATTTCTACCATGAGCAAA
65 GAACACTTCCAGAAGATGCTATTGGGTCTTCTTATTTCTACTATGAGCAAA
*
5451554 TTCATCTTTCAAATCTAATGATTGGTTTTTGGGGTTCATACCAAACCAGATCAGATAACTCAAAG
1 TTCATCTTTCAAATCCAATGATTGGTTTTTGGGGTTCATACCAAACCAGATCAGATAACTCAAAG
5451619 AACACTTCCAGAAGATGCTATTGGGTCTTCTTATTTCTACTATGAGCAAA
66 AACACTTCCAGAAGATGCTATTGGGTCTTCTTATTTCTACTATGAGCAAA
5451669 TTCATCTTTCAAATCCAATGATTGGTTTTTGGGGTTCATACCAAACCAGATCAGATAACATCAAA
1 TTCATCTTTCAAATCCAATGATTGGTTTTTGGGGTTCATACCAAACCAGATCAGATAAC-TCAAA
5451734 GAACACTTCCAGAAGATGCTATTGGGTCTTCTTATTTCTACTATGAGCA
65 GAACACTTCCAGAAGATGCTATTGGGTCTTCTTATTTCTACTATGAGCA
5451783 CATGGCACTT
Statistics
Matches: 215, Mismatches: 12, Indels: 3
0.93 0.05 0.01
Matches are distributed among these distances:
115 133 0.62
116 82 0.38
ACGTcount: A:0.30, C:0.21, G:0.16, T:0.33
Consensus pattern (115 bp):
TTCATCTTTCAAATCCAATGATTGGTTTTTGGGGTTCATACCAAACCAGATCAGATAACTCAAAG
AACACTTCCAGAAGATGCTATTGGGTCTTCTTATTTCTACTATGAGCAAA
Found at i:5454062 original size:12 final size:13
Alignment explanation
Indices: 5454038--5454074 Score: 58
Period size: 12 Copynumber: 2.9 Consensus size: 13
5454028 TCAATTTTCC
5454038 TTTTTCTTCTTTT
1 TTTTTCTTCTTTT
5454051 TTTTTCTT-TTTT
1 TTTTTCTTCTTTT
*
5454063 TGTTTCTTCTTT
1 TTTTTCTTCTTT
5454075 CTTTGCTGGA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
12 11 0.50
13 11 0.50
ACGTcount: A:0.00, C:0.14, G:0.03, T:0.84
Consensus pattern (13 bp):
TTTTTCTTCTTTT
Found at i:5454657 original size:14 final size:14
Alignment explanation
Indices: 5454619--5454672 Score: 54
Period size: 14 Copynumber: 3.8 Consensus size: 14
5454609 CATAAAAATA
* *
5454619 CAAATGCAAAGATG
1 CAAATGTAAATATG
5454633 CCAAATGTAAATATG
1 -CAAATGTAAATATG
* *
5454648 CAATTGTAAAAATG
1 CAAATGTAAATATG
*
5454662 TAAATGTAAAT
1 CAAATGTAAAT
5454673 TATTTAAAAT
Statistics
Matches: 32, Mismatches: 7, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
14 20 0.62
15 12 0.38
ACGTcount: A:0.50, C:0.09, G:0.15, T:0.26
Consensus pattern (14 bp):
CAAATGTAAATATG
Found at i:5457150 original size:24 final size:25
Alignment explanation
Indices: 5457123--5457180 Score: 70
Period size: 24 Copynumber: 2.4 Consensus size: 25
5457113 TATTACTTAT
5457123 ATAA-AATATAAAAATAATAATTAA
1 ATAATAATATAAAAATAATAATTAA
5457147 ATAATAAT-TAAAGCAATAATAA-T-A
1 ATAATAATATAAA--AATAATAATTAA
5457171 ATAATAATAT
1 ATAATAATAT
5457181 TGCAAATAAT
Statistics
Matches: 30, Mismatches: 0, Indels: 7
0.81 0.00 0.19
Matches are distributed among these distances:
24 17 0.57
25 5 0.17
26 8 0.27
ACGTcount: A:0.66, C:0.02, G:0.02, T:0.31
Consensus pattern (25 bp):
ATAATAATATAAAAATAATAATTAA
Found at i:5457404 original size:2 final size:2
Alignment explanation
Indices: 5457397--5457424 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
5457387 ATTTACCTAA
5457397 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
5457425 GCTGATAAGG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:5458510 original size:10 final size:10
Alignment explanation
Indices: 5458484--5458517 Score: 50
Period size: 10 Copynumber: 3.2 Consensus size: 10
5458474 GGCCTGTAAT
5458484 ATAATAAAATTA
1 ATAATAAAA--A
5458496 ATAATAAAAA
1 ATAATAAAAA
5458506 ATAATAAAAA
1 ATAATAAAAA
5458516 AT
1 AT
5458518 CAAATATAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
10 13 0.59
12 9 0.41
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (10 bp):
ATAATAAAAA
Found at i:5459604 original size:42 final size:40
Alignment explanation
Indices: 5459515--5459709 Score: 183
Period size: 40 Copynumber: 4.7 Consensus size: 40
5459505 ATAAACGCCA
* * *
5459515 CAATAATCATGCACTTTAGTGGAGTTTTATAATAAACGATG
1 CAATAATCATGCACTTTAGTGGCGTTTT-TAATAAATGACG
* *
5459556 CAATAGTTATGCACTTTAGTGGCGTTTTTGCAATAAATGACG
1 CAATAATCATGCACTTTAGTGGCGTTTTT--AATAAATGACG
* * * * * * *
5459598 CAATAGTCATGCACCTTAGCGGCGTTTATAAAAAATGCCT
1 CAATAATCATGCACTTTAGTGGCGTTTTTAATAAATGACG
* * * * *
5459638 CAAAAATCATGCACTTTAGGGGCGTTATTTTTTATAAATGTCA
1 CAATAATCATGCACTTTAGTGGCG---TTTTTAATAAATGACG
5459681 CAATAATCATGCACTTTAGTGGCGTTTTT
1 CAATAATCATGCACTTTAGTGGCGTTTTT
5459710 GTAATAGACT
Statistics
Matches: 126, Mismatches: 23, Indels: 11
0.79 0.14 0.07
Matches are distributed among these distances:
40 34 0.27
41 25 0.20
42 34 0.27
43 33 0.26
ACGTcount: A:0.31, C:0.16, G:0.18, T:0.35
Consensus pattern (40 bp):
CAATAATCATGCACTTTAGTGGCGTTTTTAATAAATGACG
Found at i:5459691 original size:43 final size:42
Alignment explanation
Indices: 5459450--5459715 Score: 198
Period size: 41 Copynumber: 6.4 Consensus size: 42
5459440 CTCTTATAAG
* * * * *
5459450 GTGGCATTTTTGTAATAAACGCCGCAATAGTCATGCACTTTA
1 GTGGCGTTTTTATAATAAATGCCACAATAATCATGCACTTTA
*** * * *
5459492 GCAACATTTTT-TTATAAACGCCACAATAATCATGCACTTTA
1 GTGGCGTTTTTATAATAAATGCCACAATAATCATGCACTTTA
* * *** * *
5459533 GTGGAG-TTTTATAATAAACGATGCAATAGTTATGCACTTTA
1 GTGGCGTTTTTATAATAAATGCCACAATAATCATGCACTTTA
** * * * *
5459574 GTGGCGTTTTTGCAATAAATGACGCAATAGTCATGCACCTTA
1 GTGGCGTTTTTATAATAAATGCCACAATAATCATGCACTTTA
* * * *
5459616 GCGGCG--TTTATAAAAAATGCCTCAAAAATCATGCACTTTA
1 GTGGCGTTTTTATAATAAATGCCACAATAATCATGCACTTTA
* * * *
5459656 GGGGCGTTATTTTTTATAAATGTCACAATAATCATGCACTTTA
1 GTGGCGTT-TTTATAATAAATGCCACAATAATCATGCACTTTA
*
5459699 GTGGCGTTTTTGTAATA
1 GTGGCGTTTTTATAATA
5459716 GACTCCGCTA
Statistics
Matches: 176, Mismatches: 43, Indels: 10
0.77 0.19 0.04
Matches are distributed among these distances:
40 35 0.20
41 57 0.32
42 49 0.28
43 35 0.20
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.35
Consensus pattern (42 bp):
GTGGCGTTTTTATAATAAATGCCACAATAATCATGCACTTTA
Found at i:5459691 original size:83 final size:82
Alignment explanation
Indices: 5459498--5459707 Score: 224
Period size: 83 Copynumber: 2.5 Consensus size: 82
5459488 TTTAGCAACA
* * * * * *
5459498 TTTTTTTATAAACGCCACAATAATCATGCACTTTAGTGGAGTTTTATAATAAACGATGCAATAGT
1 TTTTTTTATAAATGACACAATAATCATGCACTTTAGTGGCG-TTTATAAAAAACGATGCAAAAAT
* *
5459563 TATGCACTTTAGTGGCGT
65 CATGCACTTTAGGGGCGT
*** * * * * * *
5459581 TTTTGCAATAAATGACGCAATAGTCATGCACCTTAGCGGCGTTTATAAAAAATGCCT-CAAAAAT
1 TTTTTTTATAAATGACACAATAATCATGCACTTTAGTGGCGTTTATAAAAAACG-ATGCAAAAAT
5459645 CATGCACTTTAGGGGCGT
65 CATGCACTTTAGGGGCGT
*
5459663 TATTTTTTATAAATGTCACAATAATCATGCACTTTAGTGGCGTTT
1 T-TTTTTTATAAATGACACAATAATCATGCACTTTAGTGGCGTTT
5459708 TTGTAATAGA
Statistics
Matches: 100, Mismatches: 25, Indels: 4
0.78 0.19 0.03
Matches are distributed among these distances:
82 33 0.33
83 67 0.67
ACGTcount: A:0.31, C:0.16, G:0.17, T:0.35
Consensus pattern (82 bp):
TTTTTTTATAAATGACACAATAATCATGCACTTTAGTGGCGTTTATAAAAAACGATGCAAAAATC
ATGCACTTTAGGGGCGT
Found at i:5462179 original size:27 final size:27
Alignment explanation
Indices: 5462148--5462215 Score: 100
Period size: 27 Copynumber: 2.5 Consensus size: 27
5462138 CGTCGCAAAC
*
5462148 TTTTGCGGCGTTTGATTTAACGACGCT
1 TTTTGCGGCGTTTGATTTAACGACACT
* *
5462175 TTTTGCGGCGTTTTATTTAACGGCACT
1 TTTTGCGGCGTTTGATTTAACGACACT
*
5462202 TTTTGCGACGTTTG
1 TTTTGCGGCGTTTG
5462216 TTTTGCGTCA
Statistics
Matches: 36, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 36 1.00
ACGTcount: A:0.13, C:0.18, G:0.25, T:0.44
Consensus pattern (27 bp):
TTTTGCGGCGTTTGATTTAACGACACT
Found at i:5462476 original size:2 final size:2
Alignment explanation
Indices: 5462465--5462499 Score: 56
Period size: 2 Copynumber: 18.5 Consensus size: 2
5462455 GCCTGCATTT
5462465 TA TA -A TA TA TA TA TA TA TA -A TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
5462500 TCATCCTAAA
Statistics
Matches: 31, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
1 2 0.06
2 29 0.94
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
TA
Found at i:5462485 original size:15 final size:15
Alignment explanation
Indices: 5462465--5462498 Score: 68
Period size: 15 Copynumber: 2.3 Consensus size: 15
5462455 GCCTGCATTT
5462465 TATAATATATATATA
1 TATAATATATATATA
5462480 TATAATATATATATA
1 TATAATATATATATA
5462495 TATA
1 TATA
5462499 TTCATCCTAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (15 bp):
TATAATATATATATA
Found at i:5462487 original size:13 final size:13
Alignment explanation
Indices: 5462471--5462496 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
5462461 ATTTTATAAT
5462471 ATATATATATATA
1 ATATATATATATA
5462484 ATATATATATATA
1 ATATATATATATA
5462497 TATTCATCCT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (13 bp):
ATATATATATATA
Found at i:5462954 original size:31 final size:31
Alignment explanation
Indices: 5462889--5462954 Score: 87
Period size: 31 Copynumber: 2.1 Consensus size: 31
5462879 AGTTTTGAAA
* * * *
5462889 AAAATTAAAATTTTAGGTACTAAAACAGACC
1 AAAATTAAAAGTTTAGGCACTAAAACAAAAC
*
5462920 AAAATTAATAGTTTAGGCACTAAAACAAAAC
1 AAAATTAAAAGTTTAGGCACTAAAACAAAAC
5462951 AAAA
1 AAAA
5462955 CAAAAACTAA
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.56, C:0.12, G:0.09, T:0.23
Consensus pattern (31 bp):
AAAATTAAAAGTTTAGGCACTAAAACAAAAC
Found at i:5474243 original size:15 final size:16
Alignment explanation
Indices: 5474205--5474245 Score: 57
Period size: 16 Copynumber: 2.6 Consensus size: 16
5474195 ACAGAGCCTC
*
5474205 TGAATCATTCAGCATT
1 TGAATCATTCAGCACT
*
5474221 TGAATCATTCAGCGCT
1 TGAATCATTCAGCACT
5474237 T-AATCATTC
1 TGAATCATTC
5474246 TGAAATAAAC
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
15 8 0.35
16 15 0.65
ACGTcount: A:0.29, C:0.22, G:0.12, T:0.37
Consensus pattern (16 bp):
TGAATCATTCAGCACT
Found at i:5486851 original size:31 final size:31
Alignment explanation
Indices: 5486813--5486887 Score: 141
Period size: 31 Copynumber: 2.4 Consensus size: 31
5486803 CGAATATAAA
5486813 CGAATACAAACAAGTTACATTCTTTAATGGT
1 CGAATACAAACAAGTTACATTCTTTAATGGT
5486844 CGAATACAAACAAGTTACATTCTTTAATGGT
1 CGAATACAAACAAGTTACATTCTTTAATGGT
*
5486875 CGAACACAAACAA
1 CGAATACAAACAA
5486888 TAAATCTTAT
Statistics
Matches: 43, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
31 43 1.00
ACGTcount: A:0.43, C:0.19, G:0.12, T:0.27
Consensus pattern (31 bp):
CGAATACAAACAAGTTACATTCTTTAATGGT
Found at i:5487144 original size:20 final size:20
Alignment explanation
Indices: 5487114--5487322 Score: 154
Period size: 20 Copynumber: 10.3 Consensus size: 20
5487104 GTTTCCAGAT
*
5487114 TCGCAACGCGATTCTGACTA
1 TCGCAATGCGATTCTGACTA
* ** *
5487134 TCGCATTGCGATT-TTCCAAA
1 TCGCAATGCGATTCTGAC-TA
*
5487154 TTCGCATTGCGATTTTCTGACTA
1 -TCGCAATGCGA--TTCTGACTA
* * *
5487177 TCGCAATGCGAATATGTA-AA
1 TCGCAATGCGATTCTG-ACTA
* * *
5487197 TCGCAATGCGAATATGTA-AA
1 TCGCAATGCGATTCTG-ACTA
*
5487217 TCGCAATGCGATTATGACTA
1 TCGCAATGCGATTCTGACTA
* *
5487237 TCGCAATGCCACTCTGACTA
1 TCGCAATGCGATTCTGACTA
*
5487257 TCGCAATGCGATTATGACTA
1 TCGCAATGCGATTCTGACTA
* *
5487277 TCGCAATGCCACTCTGACTA
1 TCGCAATGCGATTCTGACTA
* * *
5487297 TCGCAACGCGGTTCTGACTG
1 TCGCAATGCGATTCTGACTA
5487317 TCGCAA
1 TCGCAA
5487323 CACTGAATTT
Statistics
Matches: 154, Mismatches: 28, Indels: 14
0.79 0.14 0.07
Matches are distributed among these distances:
19 3 0.02
20 124 0.81
21 12 0.08
22 10 0.06
23 3 0.02
24 2 0.01
ACGTcount: A:0.27, C:0.25, G:0.19, T:0.29
Consensus pattern (20 bp):
TCGCAATGCGATTCTGACTA
Done.