Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167938.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_20, 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: 19866354
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 74000 characters in sequence are not A, C, G, or T
File 25 of 100
Found at i:7312857 original size:17 final size:18
Alignment explanation
Indices: 7312826--7312859 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
7312816 ATTTACTGCC
*
7312826 TTAAAAATTTCAAAATAA
1 TTAAAAATGTCAAAATAA
7312844 TTAAAAATGT-AAAATA
1 TTAAAAATGTCAAAATA
7312860 GTGCTTTTGA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.62, C:0.03, G:0.03, T:0.32
Consensus pattern (18 bp):
TTAAAAATGTCAAAATAA
Found at i:7313661 original size:18 final size:20
Alignment explanation
Indices: 7313640--7313679 Score: 66
Period size: 18 Copynumber: 2.1 Consensus size: 20
7313630 GTTAGACTTT
7313640 TTATAAAA-TAACTTA-AAG
1 TTATAAAAGTAACTTAGAAG
7313658 TTATAAAAGTAACTTAGAAG
1 TTATAAAAGTAACTTAGAAG
7313678 TT
1 TT
7313680 GTTCTAATTA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
18 8 0.40
19 7 0.35
20 5 0.25
ACGTcount: A:0.50, C:0.05, G:0.10, T:0.35
Consensus pattern (20 bp):
TTATAAAAGTAACTTAGAAG
Found at i:7323186 original size:56 final size:57
Alignment explanation
Indices: 7323073--7323281 Score: 164
Period size: 56 Copynumber: 3.6 Consensus size: 57
7323063 TTTTTCAATG
* *
7323073 ATTTTTC-T-AAAATAAAATTCTCAAAAAAATATATTTTTAGGAAAAAGTTGAAAGTATCA
1 ATTTTTCTTGAAAATAAAATTCT-AAAAAAATA-AATTTGAGG--AAAGTTGAAAGTATCA
*
7323132 ATTTTTCTTGAAAATAAAATT-TAAAAAAA-AAATTTGAAGGAAAGTTGAATGTATCA
1 ATTTTTCTTGAAAATAAAATTCTAAAAAAATAAATTTG-AGGAAAGTTGAAAGTATCA
* * * ** * * *
7323188 A-TTTCCTTTGAACATAAAA--ATAGAAAAAATATTTTTGAGTAAAAGTTAAAAATATCA
1 ATTTTTC-TTGAAAATAAAATTCTA-AAAAAATAAATTTGAG-GAAAGTTGAAAGTATCA
* *
7323245 ATTTTTCTTAAAAATAAAATTTCTAAAATAA-AAATTT
1 ATTTTTCTTGAAAATAAAA-TTCTAAAAAAATAAATTT
7323282 TCAAAATCAT
Statistics
Matches: 120, Mismatches: 18, Indels: 25
0.74 0.11 0.15
Matches are distributed among these distances:
55 6 0.05
56 35 0.29
57 33 0.28
58 12 0.10
59 19 0.16
60 4 0.03
61 11 0.09
ACGTcount: A:0.50, C:0.06, G:0.08, T:0.36
Consensus pattern (57 bp):
ATTTTTCTTGAAAATAAAATTCTAAAAAAATAAATTTGAGGAAAGTTGAAAGTATCA
Found at i:7323276 original size:71 final size:71
Alignment explanation
Indices: 7323201--7323334 Score: 162
Period size: 71 Copynumber: 1.9 Consensus size: 71
7323191 TCCTTTGAAC
* **
7323201 ATAAAAATAGAAAAAAT-ATTTTTGAGTAAAAGTTAAAAATATCAATTTTTCTTAAAAATAAAAT
1 ATAAAAATAGAAAAAATCATTTTGGAG-AAAAGTTAAAAATATCAATTTCCCTTAAAAATAAAAT
7323265 TTCTAAA
65 TTCTAAA
**** * * *
7323272 ATAAAAATTTTCAAAATCATTTTGGAGGAAAGTTAAAAGTATCAATTTCCCTTGAAAATAAAA
1 ATAAAAATAGAAAAAATCATTTTGGAGAAAAGTTAAAAATATCAATTTCCCTTAAAAATAAAA
7323335 AGGTAAAATA
Statistics
Matches: 52, Mismatches: 10, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
71 44 0.85
72 8 0.15
ACGTcount: A:0.51, C:0.07, G:0.08, T:0.34
Consensus pattern (71 bp):
ATAAAAATAGAAAAAATCATTTTGGAGAAAAGTTAAAAATATCAATTTCCCTTAAAAATAAAATT
TCTAAA
Found at i:7323400 original size:130 final size:128
Alignment explanation
Indices: 7323164--7323402 Score: 329
Period size: 130 Copynumber: 1.9 Consensus size: 128
7323154 AAAAAAAAAA
* * * * *
7323164 TTTGAAGGAAAGTTGAATGTATCAATTTCCTTTGAACATAAAAATAGAAAAAATATTTTTGAGTA
1 TTTGAAGGAAAGTTAAAAGTATCAATTTCCCTTGAAAATAAAAATAGAAAAAATATTTTTGAGAA
* *
7323229 AAAGTTAAAAATATCAATTTTTCTTAAAAATAAAATTTCTAAAATAAAAATTTTCAAAATCAT
66 AAAGTTAAAAATATCAATTTTCCTTAAAAATAAAATGTCTAAAATAAAAATTTTCAAAATCAT
*
7323292 TTTGGAGGAAAGTTAAAAGTATCAATTTCCCTTGAAAATAAAAAGGTA-AAATAAATATTTTT-A
1 TTTGAAGGAAAGTTAAAAGTATCAATTTCCCTTGAAAATAAAAA--TAGAAA-AAATATTTTTGA
* * *
7323355 GGAAAAAGTTGAAAGTATTAATTTTCCTTAAAAATAAAATGTCTAAAA
63 -GAAAAAGTTAAAAATATCAATTTTCCTTAAAAATAAAATGTCTAAAA
7323403 AATATTTTGA
Statistics
Matches: 96, Mismatches: 11, Indels: 6
0.85 0.10 0.05
Matches are distributed among these distances:
128 39 0.41
129 4 0.04
130 53 0.55
ACGTcount: A:0.48, C:0.07, G:0.11, T:0.34
Consensus pattern (128 bp):
TTTGAAGGAAAGTTAAAAGTATCAATTTCCCTTGAAAATAAAAATAGAAAAAATATTTTTGAGAA
AAAGTTAAAAATATCAATTTTCCTTAAAAATAAAATGTCTAAAATAAAAATTTTCAAAATCAT
Found at i:7323406 original size:58 final size:58
Alignment explanation
Indices: 7323300--7323521 Score: 229
Period size: 58 Copynumber: 3.8 Consensus size: 58
7323290 ATTTTGGAGG
* * * * *
7323300 AAAGTTAAAAGTATCAATTTCCCTTGAAAATAAAAAGGT-AAAATAAATATTTTTAGGAA
1 AAAGTTGAAAGTATCAATTTTCCTTAAAAAT-AAAATGTCTAAA-AAATATTTTTAGGAA
* *
7323359 AAAGTTGAAAGTATTAATTTTCCTTAAAAATAAAATGTCTAAAAAATATTTTGA-GAA
1 AAAGTTGAAAGTATCAATTTTCCTTAAAAATAAAATGTCTAAAAAATATTTTTAGGAA
* * * *
7323416 AAAGTTGAAAGTATCAA-TCTCCTTTGAAGATAAAAAGCTCT-AAAAATATTTTTGAGG-A
1 AAAGTTGAAAGTATCAATTTTCC-TTAAAAATAAAATG-TCTAAAAAATATTTTT-AGGAA
* * * *
7323474 AAAGTAGAAAGTATAAATTTTTCTTAAAAATAAAATTTCTAAAAAATA
1 AAAGTTGAAAGTATCAATTTTCCTTAAAAATAAAATGTCTAAAAAATA
7323522 AAAATTTTTA
Statistics
Matches: 135, Mismatches: 21, Indels: 15
0.79 0.12 0.09
Matches are distributed among these distances:
56 4 0.03
57 44 0.33
58 53 0.39
59 34 0.25
ACGTcount: A:0.50, C:0.07, G:0.11, T:0.32
Consensus pattern (58 bp):
AAAGTTGAAAGTATCAATTTTCCTTAAAAATAAAATGTCTAAAAAATATTTTTAGGAA
Found at i:7323420 original size:116 final size:115
Alignment explanation
Indices: 7323300--7323521 Score: 320
Period size: 115 Copynumber: 1.9 Consensus size: 115
7323290 ATTTTGGAGG
* *
7323300 AAAGTTAAAAGTATCAATTTCCCTTGAAAATAAAAAGGTAAAATAAATATTTTT-AGGAAAAAGT
1 AAAGTTAAAAGTATCAATCTCCCTTGAAAATAAAAAGCTAAAA-AAATATTTTTGAGG-AAAAGT
* *
7323364 TGAAAGTATTAATTTTCCTTAAAAATAAAATGTCTAAAAAATATTTTGAGAA
64 AGAAAGTATAAATTTTCCTTAAAAATAAAATGTCTAAAAAATATTTTGAGAA
* * * **
7323416 AAAGTTGAAAGTATCAATCTCCTTTGAAGATAAAAAGCTCTAAAAATATTTTTGAGGAAAAGTAG
1 AAAGTTAAAAGTATCAATCTCCCTTGAAAATAAAAAGCTAAAAAAATATTTTTGAGGAAAAGTAG
* *
7323481 AAAGTATAAATTTTTCTTAAAAATAAAATTTCTAAAAAATA
66 AAAGTATAAATTTTCCTTAAAAATAAAATGTCTAAAAAATA
7323522 AAAATTTTTA
Statistics
Matches: 94, Mismatches: 11, Indels: 3
0.87 0.10 0.03
Matches are distributed among these distances:
115 55 0.59
116 39 0.41
ACGTcount: A:0.50, C:0.07, G:0.11, T:0.32
Consensus pattern (115 bp):
AAAGTTAAAAGTATCAATCTCCCTTGAAAATAAAAAGCTAAAAAAATATTTTTGAGGAAAAGTAG
AAAGTATAAATTTTCCTTAAAAATAAAATGTCTAAAAAATATTTTGAGAA
Found at i:7323519 original size:17 final size:17
Alignment explanation
Indices: 7323493--7323537 Score: 65
Period size: 17 Copynumber: 2.7 Consensus size: 17
7323483 AGTATAAATT
*
7323493 TTTCTTAAAAAT-AAAA
1 TTTCTAAAAAATAAAAA
7323509 TTTCTAAAAAATAAAAA
1 TTTCTAAAAAATAAAAA
*
7323526 TTTTTAAAAAAT
1 TTTCTAAAAAAT
7323538 TTTTTGAGAA
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
16 11 0.42
17 15 0.58
ACGTcount: A:0.58, C:0.04, G:0.00, T:0.38
Consensus pattern (17 bp):
TTTCTAAAAAATAAAAA
Found at i:7323607 original size:16 final size:16
Alignment explanation
Indices: 7323567--7323607 Score: 57
Period size: 16 Copynumber: 2.6 Consensus size: 16
7323557 AGTGTCAATT
*
7323567 TTTCTTAAAAATAAAA
1 TTTCTAAAAAATAAAA
7323583 TTT-TGAAAAAATAAAA
1 TTTCT-AAAAAATAAAA
7323599 TTTCTAAAA
1 TTTCTAAAA
7323608 GATATTTTTA
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
15 1 0.05
16 20 0.91
17 1 0.05
ACGTcount: A:0.56, C:0.05, G:0.02, T:0.37
Consensus pattern (16 bp):
TTTCTAAAAAATAAAA
Found at i:7323622 original size:148 final size:148
Alignment explanation
Indices: 7323454--7323731 Score: 429
Period size: 148 Copynumber: 1.9 Consensus size: 148
7323444 GATAAAAAGC
*
7323454 TCTAAAAATATTTTTGAGGAAAAGTAGAAAGTATAAATTTTTCTTAAAAATAAAA-TTTCTAAAA
1 TCTAAAAATATTTTTAAGGAAAAGTAGAAAGTATAAATTTTTCTTAAAAATAAAATTTTCTAAAA
* * *
7323518 AATAAAAATTTTTAAAAAAT-TTTTTGA-GAAAAAGTTGA-AAGTGTCAATTTTTCTTAAAAATA
66 AATAAAAATTTCTAAAAAATGTTTTTAAGGAAAAA-TT-ACAAGTATCAATTTTTCTT-AAAATA
7323580 AAATTTTGAAAAAATAAAATT
128 AAATTTTGAAAAAATAAAATT
* *
7323601 TCTAAAAGATATTTTTAAGGAAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAAATTTTCTAAA
1 TCTAAAA-ATATTTTTAAGGAAAAGTAGAAAGTATAAATTTTTCTTAAAAATAAAATTTTCTAAA
*
7323666 AAATAAAAGTTTCTAAAAAATGTTTTTAAGGAAAAATTACAAGTATCAATTTTTCTTAAAATAAA
65 AAATAAAAATTTCTAAAAAATGTTTTTAAGGAAAAATTACAAGTATCAATTTTTCTTAAAATAAA
7323731 A
130 A
7323732 ATCTCCAAAT
Statistics
Matches: 119, Mismatches: 7, Indels: 8
0.89 0.05 0.06
Matches are distributed among these distances:
147 7 0.06
148 45 0.38
149 37 0.31
150 24 0.20
151 6 0.05
ACGTcount: A:0.50, C:0.05, G:0.09, T:0.37
Consensus pattern (148 bp):
TCTAAAAATATTTTTAAGGAAAAGTAGAAAGTATAAATTTTTCTTAAAAATAAAATTTTCTAAAA
AATAAAAATTTCTAAAAAATGTTTTTAAGGAAAAATTACAAGTATCAATTTTTCTTAAAATAAAA
TTTTGAAAAAATAAAATT
Found at i:7323662 original size:17 final size:17
Alignment explanation
Indices: 7323640--7323686 Score: 76
Period size: 17 Copynumber: 2.8 Consensus size: 17
7323630 AAGTATCAAT
*
7323640 TTTTCTTAAAAATAAAA
1 TTTTCTAAAAAATAAAA
7323657 TTTTCTAAAAAATAAAA
1 TTTTCTAAAAAATAAAA
*
7323674 GTTTCTAAAAAAT
1 TTTTCTAAAAAAT
7323687 GTTTTTAAGG
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
17 28 1.00
ACGTcount: A:0.53, C:0.06, G:0.02, T:0.38
Consensus pattern (17 bp):
TTTTCTAAAAAATAAAA
Found at i:7323733 original size:76 final size:74
Alignment explanation
Indices: 7323457--7323731 Score: 362
Period size: 74 Copynumber: 3.7 Consensus size: 74
7323447 AAAAAGCTCT
* * * *
7323457 AAAAATATTTTTGAGGAAAAGTAGAAAGTATAAATTTTTCTTAAAAATAAAA-TTTCTAAAAAAT
1 AAAAAT-TTTTTAAGGAAAAATTGAAAGTATCAATTTTTCTTAAAAATAAAATTTTCTAAAAAAT
*
7323521 AAAAATTTTTA
65 -AAAATTTCTA
* * *
7323532 AAAAATTTTTTGA-GAAAAAGTTGAAAGTGTCAATTTTTCTTAAAAATAAAATTTT-GAAAAAAT
1 AAAAATTTTTTAAGGAAAAA-TTGAAAGTATCAATTTTTCTTAAAAATAAAATTTTCTAAAAAAT
7323595 AAAATTTCTA
65 AAAATTTCTA
* *
7323605 AAAGATATTTTTAAGGAAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAAATTTTCTAAAAAAT
1 AAAAAT-TTTTTAAGGAAAAATTGAAAGTATCAATTTTTCTTAAAAATAAAATTTTCTAAAAAAT
7323670 AAAAGTTTCTA
65 AAAA-TTTCTA
7323681 AAAAATGTTTTTAAGGAAAAATT-ACAAGTATCAATTTTTCTT-AAAATAAAA
1 AAAAAT-TTTTTAAGGAAAAATTGA-AAGTATCAATTTTTCTTAAAAATAAAA
7323732 ATCTCCAAAT
Statistics
Matches: 179, Mismatches: 14, Indels: 14
0.86 0.07 0.07
Matches are distributed among these distances:
73 19 0.11
74 82 0.46
75 35 0.20
76 43 0.24
ACGTcount: A:0.51, C:0.04, G:0.09, T:0.36
Consensus pattern (74 bp):
AAAAATTTTTTAAGGAAAAATTGAAAGTATCAATTTTTCTTAAAAATAAAATTTTCTAAAAAATA
AAATTTCTA
Found at i:7334831 original size:16 final size:16
Alignment explanation
Indices: 7334810--7334850 Score: 57
Period size: 16 Copynumber: 2.5 Consensus size: 16
7334800 TATTTGCATA
7334810 GCATGCATTGA-ATTTC
1 GCATGCATT-ACATTTC
7334826 GCATGCATTACATTTC
1 GCATGCATTACATTTC
7334842 GCATAGCAT
1 GCAT-GCAT
7334851 ATACCGCATT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
15 1 0.04
16 18 0.78
17 4 0.17
ACGTcount: A:0.27, C:0.22, G:0.17, T:0.34
Consensus pattern (16 bp):
GCATGCATTACATTTC
Found at i:7335202 original size:44 final size:44
Alignment explanation
Indices: 7335151--7335256 Score: 126
Period size: 44 Copynumber: 2.4 Consensus size: 44
7335141 TAGAGGAACA
* * *
7335151 ATTTATTTTTTTAAAGT-TATTGAGCCTTTTATTAGAT-AAGCTTT
1 ATTTATTTTTTAAAAGTCGA-TGAGCCTTTGATTAGATGAA-CTTT
* *
7335195 GTTTATTTTCTAAAAGTCGATGAGCCTTTGATTAGATGAACTTT
1 ATTTATTTTTTAAAAGTCGATGAGCCTTTGATTAGATGAACTTT
*
7335239 ATTTATTTTTCAAAAGTC
1 ATTTATTTTTTAAAAGTC
7335257 ATTGTTTATT
Statistics
Matches: 52, Mismatches: 8, Indels: 4
0.81 0.12 0.06
Matches are distributed among these distances:
44 49 0.94
45 3 0.06
ACGTcount: A:0.28, C:0.09, G:0.13, T:0.49
Consensus pattern (44 bp):
ATTTATTTTTTAAAAGTCGATGAGCCTTTGATTAGATGAACTTT
Found at i:7335309 original size:65 final size:65
Alignment explanation
Indices: 7335193--7335325 Score: 194
Period size: 65 Copynumber: 2.0 Consensus size: 65
7335183 TAGATAAGCT
* * *
7335193 TTGTTTATTTTCTAAAAGTCGATGAGCCTTTGATTAGATGAACTTTATTTATTTTTCAAAAGTCA
1 TTGTTTATTTTCTAAAAGTCGATGAGCCTCTGATTAGAGGAACTTTATTTATTCTTCAAAAGTCA
* * * * *
7335258 TTGTTTATTTTTTAAAAGTCGTTGAGCCTCTGATTAGAGGAGCTTTGTTTATTCTTCAAAAGTTA
1 TTGTTTATTTTCTAAAAGTCGATGAGCCTCTGATTAGAGGAACTTTATTTATTCTTCAAAAGTCA
7335323 TTG
1 TTG
7335326 AGCCTCTGAT
Statistics
Matches: 60, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
65 60 1.00
ACGTcount: A:0.26, C:0.11, G:0.17, T:0.47
Consensus pattern (65 bp):
TTGTTTATTTTCTAAAAGTCGATGAGCCTCTGATTAGAGGAACTTTATTTATTCTTCAAAAGTCA
Found at i:7335362 original size:86 final size:86
Alignment explanation
Indices: 7335265--7335478 Score: 286
Period size: 86 Copynumber: 2.5 Consensus size: 86
7335255 TCATTGTTTA
*
7335265 TTTTTTAAAAGTCGTTGAGCCTCTGATTAGAGGAGCTTTGTTTATTCTTCAAAAGTTATTGAGCC
1 TTTTTTCAAAGTCGTTGAGCCTCTGATTAGAGGAGCTTTGTTTATTCTTCAAAAGTTATTGAGCC
*
7335330 TCTGATTAGAGAAGCCTTT-TT
66 TCTGATTAAAGAAG-CTTTGTT
* * *
7335351 TTTTTTCAAAGTTGTTGAGCCTCTGATTAGAGGAGCTTTGTTTATTCTTTAAAAGTTGTTGAGCC
1 TTTTTTCAAAGTCGTTGAGCCTCTGATTAGAGGAGCTTTGTTTATTCTTCAAAAGTTATTGAGCC
*
7335416 TCTGATTAAAGGAGCTTTGTT
66 TCTGATTAAAGAAGCTTTGTT
* * * * * *
7335437 TATTTTTCCAAGATCATTAAGCCTATGCTTAGAGGAGATTTG
1 T-TTTTTCAAAG-TCGTTGAGCCTCTGATTAGAGGAGCTTTG
7335479 ATCAAAATTT
Statistics
Matches: 112, Mismatches: 13, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
85 4 0.04
86 76 0.68
87 9 0.08
88 23 0.21
ACGTcount: A:0.24, C:0.13, G:0.21, T:0.42
Consensus pattern (86 bp):
TTTTTTCAAAGTCGTTGAGCCTCTGATTAGAGGAGCTTTGTTTATTCTTCAAAAGTTATTGAGCC
TCTGATTAAAGAAGCTTTGTT
Found at i:7335375 original size:42 final size:43
Alignment explanation
Indices: 7335258--7335443 Score: 268
Period size: 44 Copynumber: 4.3 Consensus size: 43
7335248 TCAAAAGTCA
*
7335258 TTGTTTATTTTTTAAAAGTCGTTGAGCCTCTGATTAGAGGAGCT
1 TTGTTTA-TTTTTAAAAGTTGTTGAGCCTCTGATTAGAGGAGCT
* * *
7335302 TTGTTTATTCTTCAAAAGTTATTGAGCCTCTGATTAGAGAAGCCT
1 TTGTTTATT-TTTAAAAGTTGTTGAGCCTCTGATTAGAGGAG-CT
*
7335347 TT-TTT-TTTTTCAAAGTTGTTGAGCCTCTGATTAGAGGAGCT
1 TTGTTTATTTTTAAAAGTTGTTGAGCCTCTGATTAGAGGAGCT
*
7335388 TTGTTTATTCTTTAAAAGTTGTTGAGCCTCTGATTAAAGGAGCT
1 TTGTTTATT-TTTAAAAGTTGTTGAGCCTCTGATTAGAGGAGCT
7335432 TTGTTTATTTTT
1 TTGTTTATTTTT
7335444 CCAAGATCAT
Statistics
Matches: 127, Mismatches: 10, Indels: 11
0.86 0.07 0.07
Matches are distributed among these distances:
41 4 0.03
42 31 0.24
43 9 0.07
44 79 0.62
45 4 0.03
ACGTcount: A:0.23, C:0.12, G:0.20, T:0.46
Consensus pattern (43 bp):
TTGTTTATTTTTAAAAGTTGTTGAGCCTCTGATTAGAGGAGCT
Found at i:7335460 original size:44 final size:43
Alignment explanation
Indices: 7335258--7335478 Score: 248
Period size: 44 Copynumber: 5.1 Consensus size: 43
7335248 TCAAAAGTCA
* **
7335258 TTGTTTATTTTTTAAAAGTCGTTGAGCCTCTGATTAGAGGAGCT
1 TTGTTTA-TTTTTCAAAGTTATTGAGCCTCTGATTAGAGGAGCT
* *
7335302 TTGTTTATTCTTCAAAAGTTATTGAGCCTCTGATTAGAGAAGCCT
1 TTGTTTATTTTTC-AAAGTTATTGAGCCTCTGATTAGAGGAG-CT
*
7335347 TT-TTT-TTTTTCAAAGTTGTTGAGCCTCTGATTAGAGGAGCT
1 TTGTTTATTTTTCAAAGTTATTGAGCCTCTGATTAGAGGAGCT
* * *
7335388 TTGTTTATTCTTTAAAAGTTGTTGAGCCTCTGATTAAAGGAGCT
1 TTGTTTATT-TTTCAAAGTTATTGAGCCTCTGATTAGAGGAGCT
* * * * * *
7335432 TTGTTTATTTTTCCAAGATCATTAAGCCTATGCTTAGAGGAGAT
1 TTGTTTATTTTTCAAAG-TTATTGAGCCTCTGATTAGAGGAGCT
7335476 TTG
1 TTG
7335479 ATCAAAATTT
Statistics
Matches: 152, Mismatches: 19, Indels: 12
0.83 0.10 0.07
Matches are distributed among these distances:
41 4 0.03
42 29 0.19
43 17 0.11
44 98 0.64
45 4 0.03
ACGTcount: A:0.24, C:0.13, G:0.20, T:0.43
Consensus pattern (43 bp):
TTGTTTATTTTTCAAAGTTATTGAGCCTCTGATTAGAGGAGCT
Found at i:7335714 original size:8 final size:7
Alignment explanation
Indices: 7335671--7335742 Score: 62
Period size: 7 Copynumber: 10.3 Consensus size: 7
7335661 TGGGCCCATT
7335671 TTTATT-
1 TTTATTA
7335677 TTTAATTA
1 TTT-ATTA
7335685 -TTATTA
1 TTTATTA
*
7335691 -TTATTG
1 TTTATTA
7335697 TTTATTTA
1 TTTA-TTA
7335705 TTTATATA
1 TTTAT-TA
7335713 TTTATTA
1 TTTATTA
7335720 TTTATTA
1 TTTATTA
*
7335727 TTT-TGA
1 TTTATTA
7335733 TTTATCTA
1 TTTAT-TA
7335741 TT
1 TT
7335743 CTGAATTTGG
Statistics
Matches: 55, Mismatches: 4, Indels: 12
0.77 0.06 0.17
Matches are distributed among these distances:
6 17 0.31
7 22 0.40
8 16 0.29
ACGTcount: A:0.26, C:0.01, G:0.03, T:0.69
Consensus pattern (7 bp):
TTTATTA
Found at i:7335714 original size:19 final size:18
Alignment explanation
Indices: 7335671--7335725 Score: 55
Period size: 19 Copynumber: 3.1 Consensus size: 18
7335661 TGGGCCCATT
7335671 TTTATT-TTTAATTA-TTA
1 TTTATTATTT-ATTATTTA
7335688 -TTATTATTGT-TTATTTA
1 TTTATTATT-TATTATTTA
7335705 TTTATATATTTATTATTTA
1 TTTAT-TATTTATTATTTA
7335724 TT
1 TT
7335726 ATTTTGATTT
Statistics
Matches: 32, Mismatches: 0, Indels: 10
0.76 0.00 0.24
Matches are distributed among these distances:
16 8 0.25
17 5 0.16
18 6 0.19
19 13 0.41
ACGTcount: A:0.27, C:0.00, G:0.02, T:0.71
Consensus pattern (18 bp):
TTTATTATTTATTATTTA
Found at i:7336001 original size:13 final size:14
Alignment explanation
Indices: 7335978--7336013 Score: 56
Period size: 13 Copynumber: 2.6 Consensus size: 14
7335968 GATTTTAAGA
7335978 TTTTTAGGATTTTT
1 TTTTTAGGATTTTT
7335992 TTTTTA-GATTTTT
1 TTTTTAGGATTTTT
*
7336005 TTTCTAGGA
1 TTTTTAGGA
7336014 AATTTCTAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
13 12 0.60
14 8 0.40
ACGTcount: A:0.17, C:0.03, G:0.14, T:0.67
Consensus pattern (14 bp):
TTTTTAGGATTTTT
Found at i:7336687 original size:54 final size:54
Alignment explanation
Indices: 7336613--7336773 Score: 155
Period size: 54 Copynumber: 2.9 Consensus size: 54
7336603 ATTTTTAGGG
7336613 AAAAGTTGAAAGTATCAATTTTTCTTGAAAATAAAATTTTAAAAAAAATTGA-A
1 AAAAGTTGAAAGTATCAATTTTTCTTGAAAATAAAATTTTAAAAAAAATTGAGA
* * * * * * ** *
7336666 GGAAAGTTGAATGTATAAATTTCAT-TTGAACATAAAAATAGAAAAAATATTTTTGAGA
1 -AAAAGTTGAAAGTATCAATTT-TTCTTGAAAATAAAATTTTAAAAAA-A--ATTGAGA
*
7336724 AAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAAATTTTCAAAATAAAA
1 AAAAGTTGAAAGTATCAATTTTTCTTGAAAATAAAATTTT-AAAA-AAAA
7336774 ATTTCAAAAA
Statistics
Matches: 80, Mismatches: 19, Indels: 14
0.71 0.17 0.12
Matches are distributed among these distances:
54 36 0.45
55 2 0.03
56 1 0.01
57 33 0.41
58 6 0.08
59 2 0.03
ACGTcount: A:0.52, C:0.04, G:0.11, T:0.34
Consensus pattern (54 bp):
AAAAGTTGAAAGTATCAATTTTTCTTGAAAATAAAATTTTAAAAAAAATTGAGA
Found at i:7336758 original size:57 final size:57
Alignment explanation
Indices: 7336594--7336887 Score: 179
Period size: 57 Copynumber: 4.9 Consensus size: 57
7336584 ATAAAATTCC
* * * **
7336594 AAAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTTCTTGAAAATAAAATTTT
1 AAAAAAAAT-TTTTGA-GAAAAAGTTGAAAGTATCAATTTTTCTTGAAAATAAAAATAG
* * * * *
7336653 AAAAAAAA---TTGA-AGGAAAGTTGAATGTATAAATTTCAT-TTGAACATAAAAATAG
1 AAAAAAAATTTTTGAGA-AAAAGTTGAAAGTATCAATTT-TTCTTGAAAATAAAAATAG
* * *
7336707 AAAAAATATTTTTGAGAAAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAAATTTTCAAAATAA
1 AAAAAAAATTTTTGAGAAAAAGTTGAAAGTATCAATTTTTCTTGAAAAT---A-----AAAATAG
* ** *
7336772 AAATTTCAAAAATCATTTTGGGGGAAAGTTGAAAGTATCAATTTTCCTTGAAAATAAAAA-AG
1 AAA----AAAAAT--TTTTGAGAAAAAGTTGAAAGTATCAATTTTTCTTGAAAATAAAAATAG
* * *
7336834 TAAAAAAAAATTTT-AGAAAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAAA
1 -AAAAAAAATTTTTGAG-AAAAAGTTGAAAGTATCAATTTTTCTTGAAAATAAAA
7336888 TTTCTAACAT
Statistics
Matches: 182, Mismatches: 30, Indels: 48
0.70 0.12 0.18
Matches are distributed among these distances:
54 37 0.20
55 4 0.02
56 2 0.01
57 66 0.36
58 1 0.01
59 13 0.07
60 1 0.01
62 1 0.01
63 7 0.04
65 9 0.05
68 1 0.01
69 5 0.03
71 35 0.19
ACGTcount: A:0.51, C:0.05, G:0.12, T:0.32
Consensus pattern (57 bp):
AAAAAAAATTTTTGAGAAAAAGTTGAAAGTATCAATTTTTCTTGAAAATAAAAATAG
Found at i:7336770 original size:14 final size:14
Alignment explanation
Indices: 7336751--7336782 Score: 55
Period size: 14 Copynumber: 2.3 Consensus size: 14
7336741 ATTTTTCTTA
*
7336751 AAAATAAAATTTTC
1 AAAATAAAAATTTC
7336765 AAAATAAAAATTTC
1 AAAATAAAAATTTC
7336779 AAAA
1 AAAA
7336783 ATCATTTTGG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.66, C:0.06, G:0.00, T:0.28
Consensus pattern (14 bp):
AAAATAAAAATTTC
Found at i:7336945 original size:129 final size:129
Alignment explanation
Indices: 7336667--7336959 Score: 400
Period size: 129 Copynumber: 2.3 Consensus size: 129
7336657 AAAATTGAAG
* * * * * *
7336667 GAAAGTTGAATGTAT-AAATTTCATTTGAACAT-AAAAATAGAAAAAATATTTTTGAGAAAAAGT
1 GAAAGTTGAAAGTATCAATTTTC-CTTGAAAATAAAAAATAGAAAAAAAATTTTAGAGAAAAAGT
* * *
7336730 TGAAAGTATCAATTTTTCTTAAAAATAAAATTTTCAAAATAAAAATTTCAAAAATCATTTTGGGG
65 TGAAAGTATCAATTTTCCTTAAAAATAAAATTTTCAAAATAAAAATTTCAAAAATCATTTTGAGA
7336795 GAAAGTTGAAAGTATCAATTTTCCTTGAAAATAAAAAAGTA-AAAAAAAATTTTAGA-AAAAAGT
1 GAAAGTTGAAAGTATCAATTTTCCTTGAAAATAAAAAA-TAGAAAAAAAATTTTAGAGAAAAAGT
*
7336858 TGAAAGTATCAATTTTCCTTAAAAATAAAA-TTTCTAACATAAAAATTTTCAAAAAGT-ATTTTG
65 TGAAAGTATCAATTTTCCTTAAAAATAAAATTTTC-AAAATAAAAA-TTTCAAAAA-TCATTTTG
7336921 AGA
127 AGA
*
7336924 GAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAAA
1 GAAAGTTGAAAGTATCAATTTTCCTTGAAAATAAAA
7336960 TTTCTAAAAA
Statistics
Matches: 148, Mismatches: 11, Indels: 11
0.87 0.06 0.06
Matches are distributed among these distances:
127 4 0.03
128 66 0.45
129 75 0.51
130 3 0.02
ACGTcount: A:0.50, C:0.06, G:0.11, T:0.33
Consensus pattern (129 bp):
GAAAGTTGAAAGTATCAATTTTCCTTGAAAATAAAAAATAGAAAAAAAATTTTAGAGAAAAAGTT
GAAAGTATCAATTTTCCTTAAAAATAAAATTTTCAAAATAAAAATTTCAAAAATCATTTTGAGA
Found at i:7336969 original size:128 final size:130
Alignment explanation
Indices: 7336699--7337109 Score: 402
Period size: 129 Copynumber: 3.0 Consensus size: 130
7336689 ATTTGAACAT
* * *
7336699 AAAAA-TAGAAAAAATATTTTTGAGAAAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAAATTT
1 AAAAAGTAAAAAAAATATTTTAGAGAAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAAATTT
* * *
7336763 TCAAAATAAAAATTTCAAAAATCATTTTGGGGGAAAGTTGAAAGTATCAATTTTCCTTGAAAATA
66 TCAAAATAAAAATTTCAAAAATCATTTTGAGAGAAAGTTGAAAGTATCAATTTTCCTTAAAAATA
7336828 AAAAAGTAAAAAAAA-ATTTTAGA-AAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAAA-TT
1 AAAAAGTAAAAAAAATATTTTAGAGAAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAAATTT
*
7336890 TCTAACATAAAAATTTTCAAAAAGT-ATTTTGAGAGAAAGTTGAAAGTATCAATTTTCCTTAAAA
66 TC-AAAATAAAAA-TTTCAAAAA-TCATTTTGAGAGAAAGTTGAAAGTATCAATTTTCCTT----
7336954 ATAAAATTTCTA
124 A-AAAA----TA
* * * * *
7336966 AAAAATGAAAATTTCTAAAAATATTTTTGAGGAAAAGTTGAAAGTATTAATTTTTCTTAAAAATA
1 AAAAA-GTAAA-----AAAAATATTTTAGAGAAAAAGTTGAAAGTATCAATTTTCCTTAAAAATA
* ** * * *
7337031 AAATTTCTAAAATATAAAAATTTCTAAAAAATGTTTTTAAGGAAAAAGTTAAAAGTATCAATTTT
60 AAATTT-TCAAA-ATAAAAATTTC--AAAAATCATTTTGA-GAGAAAGTTGAAAGTATCAATTTT
*
7337096 TCTT-AAAATA
120 CCTTAAAAATA
7337106 AAAA
1 AAAA
7337110 TCTCCAAATG
Statistics
Matches: 235, Mismatches: 19, Indels: 45
0.79 0.06 0.15
Matches are distributed among these distances:
127 4 0.02
128 45 0.19
129 54 0.23
130 9 0.04
134 4 0.02
138 7 0.03
139 4 0.02
140 6 0.03
144 9 0.04
145 7 0.03
146 34 0.14
147 8 0.03
148 9 0.04
149 10 0.04
150 25 0.11
ACGTcount: A:0.51, C:0.06, G:0.09, T:0.34
Consensus pattern (130 bp):
AAAAAGTAAAAAAAATATTTTAGAGAAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAAATTT
TCAAAATAAAAATTTCAAAAATCATTTTGAGAGAAAGTTGAAAGTATCAATTTTCCTTAAAAATA
Found at i:7336971 original size:16 final size:17
Alignment explanation
Indices: 7336950--7336986 Score: 67
Period size: 17 Copynumber: 2.2 Consensus size: 17
7336940 AATTTTCCTT
7336950 AAAAAT-AAAATTTCTA
1 AAAAATGAAAATTTCTA
7336966 AAAAATGAAAATTTCTA
1 AAAAATGAAAATTTCTA
7336983 AAAA
1 AAAA
7336987 TATTTTTGAG
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
16 6 0.30
17 14 0.70
ACGTcount: A:0.65, C:0.05, G:0.03, T:0.27
Consensus pattern (17 bp):
AAAAATGAAAATTTCTA
Found at i:7336987 original size:16 final size:15
Alignment explanation
Indices: 7336949--7336988 Score: 62
Period size: 16 Copynumber: 2.5 Consensus size: 15
7336939 CAATTTTCCT
7336949 TAAAAATAAAATTTC
1 TAAAAATAAAATTTC
7336964 TAAAAAATGAAAATTTC
1 T-AAAAAT-AAAATTTC
7336981 TAAAAATA
1 TAAAAATA
7336989 TTTTTGAGGA
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
15 2 0.09
16 12 0.52
17 9 0.39
ACGTcount: A:0.62, C:0.05, G:0.03, T:0.30
Consensus pattern (15 bp):
TAAAAATAAAATTTC
Found at i:7337025 original size:74 final size:75
Alignment explanation
Indices: 7336852--7337108 Score: 348
Period size: 74 Copynumber: 3.5 Consensus size: 75
7336842 AATTTTAGAA
* *
7336852 AAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAAATTTCT--AACATAAAAATTT-TCAAAAAG
1 AAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAAATTTCTAAAAAATAAAAATTTCT-AAAAAA
7336914 TA-TTTTGA-G
65 TATTTTTGAGG
*
7336923 AGAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAAATTTCTAAAAAATGAAAATTTCT-AAAAA
1 A-AAAGTTGAAAGTATCAATTTTCCTTAAAAATAAAATTTCTAAAAAATAAAAATTTCTAAAAAA
7336987 TATTTTTGAGG
65 TATTTTTGAGG
* * *
7336998 AAAAGTTGAAAGTATTAATTTTTCTTAAAAATAAAATTTCTAAAATATAAAAATTTCTAAAAAAT
1 AAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAAATTTCTAAAAAATAAAAATTTCTAAAAAAT
* *
7337063 GTTTTTAAGG
66 ATTTTTGAGG
* *
7337073 AAAAAGTTAAAAGTATCAATTTTTCTT-AAAATAAAA
1 -AAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAAA
7337109 ATCTCCAAAT
Statistics
Matches: 167, Mismatches: 11, Indels: 12
0.88 0.06 0.06
Matches are distributed among these distances:
71 1 0.01
72 40 0.24
73 6 0.04
74 70 0.42
75 26 0.16
76 24 0.14
ACGTcount: A:0.49, C:0.06, G:0.09, T:0.36
Consensus pattern (75 bp):
AAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAAATTTCTAAAAAATAAAAATTTCTAAAAAAT
ATTTTTGAGG
Found at i:7337047 original size:16 final size:16
Alignment explanation
Indices: 7337018--7337060 Score: 61
Period size: 17 Copynumber: 2.6 Consensus size: 16
7337008 AGTATTAATT
7337018 TTTCTTAAAAAT-AAAA
1 TTTC-TAAAAATAAAAA
7337034 TTTCTAAAATATAAAAA
1 TTTCTAAAA-ATAAAAA
7337051 TTTCTAAAAA
1 TTTCTAAAAA
7337061 ATGTTTTTAA
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
15 5 0.20
16 7 0.28
17 13 0.52
ACGTcount: A:0.56, C:0.07, G:0.00, T:0.37
Consensus pattern (16 bp):
TTTCTAAAAATAAAAA
Found at i:7337247 original size:14 final size:13
Alignment explanation
Indices: 7337224--7337253 Score: 51
Period size: 14 Copynumber: 2.2 Consensus size: 13
7337214 ATCATTATTC
7337224 TTTTTTTATTTTA
1 TTTTTTTATTTTA
7337237 TTTTATTTATTTTA
1 TTTT-TTTATTTTA
7337251 TTT
1 TTT
7337254 CTTTCTGTTC
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 4 0.25
14 12 0.75
ACGTcount: A:0.17, C:0.00, G:0.00, T:0.83
Consensus pattern (13 bp):
TTTTTTTATTTTA
Found at i:7343394 original size:44 final size:44
Alignment explanation
Indices: 7343324--7343408 Score: 125
Period size: 44 Copynumber: 1.9 Consensus size: 44
7343314 AAAGACTATC
* *
7343324 TAATTTACTACTAAATTATCACTAATTTATAACTAAATTATTAG
1 TAATTTACTACTAAATTATCAATAATTTACAACTAAATTATTAG
* * *
7343368 TAATTTGCTACTAAATTATTAATAATTTACATCTAAATTAT
1 TAATTTACTACTAAATTATCAATAATTTACAACTAAATTAT
7343409 CAATGATTTA
Statistics
Matches: 36, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
44 36 1.00
ACGTcount: A:0.42, C:0.11, G:0.02, T:0.45
Consensus pattern (44 bp):
TAATTTACTACTAAATTATCAATAATTTACAACTAAATTATTAG
Found at i:7343417 original size:22 final size:22
Alignment explanation
Indices: 7343324--7343418 Score: 104
Period size: 22 Copynumber: 4.3 Consensus size: 22
7343314 AAAGACTATC
*
7343324 TAATTTACTACTAAATTATCAC
1 TAATTTACTACTAAATTATCAA
* *
7343346 TAATTTA-TAACTAAATTATTAG
1 TAATTTACT-ACTAAATTATCAA
* *
7343368 TAATTTGCTACTAAATTATTAA
1 TAATTTACTACTAAATTATCAA
7343390 TAATTTAC-ATCTAAATTATCAA
1 TAATTTACTA-CTAAATTATCAA
*
7343412 TGATTTA
1 TAATTTA
7343419 TTATTATATT
Statistics
Matches: 63, Mismatches: 7, Indels: 6
0.83 0.09 0.08
Matches are distributed among these distances:
21 2 0.03
22 60 0.95
23 1 0.02
ACGTcount: A:0.42, C:0.11, G:0.03, T:0.44
Consensus pattern (22 bp):
TAATTTACTACTAAATTATCAA
Found at i:7343461 original size:22 final size:22
Alignment explanation
Indices: 7343404--7343465 Score: 61
Period size: 22 Copynumber: 2.8 Consensus size: 22
7343394 TTACATCTAA
* * *
7343404 ATTATCAATGATTTATTATTAT
1 ATTATCATTCATTTACTATTAT
* * *
7343426 ATTATTATGCATTTACTGTTAT
1 ATTATCATTCATTTACTATTAT
*
7343448 ATTATCATTTATTTACTA
1 ATTATCATTCATTTACTA
7343466 CTTACTTTTT
Statistics
Matches: 30, Mismatches: 10, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
22 30 1.00
ACGTcount: A:0.32, C:0.08, G:0.05, T:0.55
Consensus pattern (22 bp):
ATTATCATTCATTTACTATTAT
Found at i:7343585 original size:15 final size:15
Alignment explanation
Indices: 7343565--7343609 Score: 63
Period size: 16 Copynumber: 2.9 Consensus size: 15
7343555 AAAATATCCA
7343565 TAATTTACTATTAAG
1 TAATTTACTATTAAG
7343580 TAATTTAACTATTAAG
1 TAATTT-ACTATTAAG
* *
7343596 TTATTTATTATTAA
1 TAATTTACTATTAA
7343610 TTACTACTTA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
15 13 0.48
16 14 0.52
ACGTcount: A:0.40, C:0.04, G:0.04, T:0.51
Consensus pattern (15 bp):
TAATTTACTATTAAG
Found at i:7343683 original size:43 final size:44
Alignment explanation
Indices: 7343624--7343731 Score: 146
Period size: 43 Copynumber: 2.5 Consensus size: 44
7343614 TACTTAGTTC
**
7343624 TATTGATTTAAATTTAAGTTTCCAATGATTAACTATTAAATTA-
1 TATTGATTTACTTTTAAGTTTCCAATGATTAACTATTAAATTAT
* * *
7343667 TATTGATTTACTTTTAAATTTTCAATGATTAAGTATTAAATTAT
1 TATTGATTTACTTTTAAGTTTCCAATGATTAACTATTAAATTAT
**
7343711 TATTGATTTACTAATAAGTTT
1 TATTGATTTACTTTTAAGTTT
7343732 ATCAATTAAT
Statistics
Matches: 56, Mismatches: 8, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
43 38 0.68
44 18 0.32
ACGTcount: A:0.37, C:0.06, G:0.07, T:0.50
Consensus pattern (44 bp):
TATTGATTTACTTTTAAGTTTCCAATGATTAACTATTAAATTAT
Found at i:7343706 original size:22 final size:22
Alignment explanation
Indices: 7343637--7343708 Score: 74
Period size: 22 Copynumber: 3.3 Consensus size: 22
7343627 TGATTTAAAT
* *
7343637 TTAAGTTTCCAATGATTAACTA
1 TTAAATTTTCAATGATTAACTA
* * * *
7343659 TTAAATTAT-ATTGATTTACTT
1 TTAAATTTTCAATGATTAACTA
*
7343680 TTAAATTTTCAATGATTAAGTA
1 TTAAATTTTCAATGATTAACTA
7343702 TTAAATT
1 TTAAATT
7343709 ATTATTGATT
Statistics
Matches: 38, Mismatches: 11, Indels: 2
0.75 0.22 0.04
Matches are distributed among these distances:
21 17 0.45
22 21 0.55
ACGTcount: A:0.38, C:0.07, G:0.07, T:0.49
Consensus pattern (22 bp):
TTAAATTTTCAATGATTAACTA
Found at i:7343717 original size:22 final size:22
Alignment explanation
Indices: 7343649--7343723 Score: 82
Period size: 22 Copynumber: 3.5 Consensus size: 22
7343639 AAGTTTCCAA
7343649 TGATTAACTATTAAATTA-TAT
1 TGATTAACTATTAAATTATTAT
* * *
7343670 TGATTTACTTTTAAATT-TTCAA
1 TGATTAACTATTAAATTATT-AT
*
7343692 TGATTAAGTATTAAATTATTAT
1 TGATTAACTATTAAATTATTAT
*
7343714 TGATTTACTA
1 TGATTAACTA
7343724 ATAAGTTTAT
Statistics
Matches: 42, Mismatches: 9, Indels: 5
0.75 0.16 0.09
Matches are distributed among these distances:
21 16 0.38
22 24 0.57
23 2 0.05
ACGTcount: A:0.37, C:0.05, G:0.07, T:0.51
Consensus pattern (22 bp):
TGATTAACTATTAAATTATTAT
Found at i:7344228 original size:22 final size:22
Alignment explanation
Indices: 7344184--7344317 Score: 84
Period size: 22 Copynumber: 6.4 Consensus size: 22
7344174 ATTATTAATG
*
7344184 ATTTACTTCTAA-TT-T-ACTA
1 ATTTACTACTAAGTTATCACTA
*
7344203 ATTTACTACTAAGTTATCACTT
1 ATTTACTACTAAGTTATCACTA
* * * *
7344225 ATTTACAACTAACTTATTAGTA
1 ATTTACTACTAAGTTATCACTA
* * * * *
7344247 ATTTACTATTACGTTATTAGTG
1 ATTTACTACTAAGTTATCACTA
7344269 ATTTA-TAACTAAG-T-T-ACTA
1 ATTTACT-ACTAAGTTATCACTA
* * *
7344288 ATTTACTACTAAATTATCAATG
1 ATTTACTACTAAGTTATCACTA
7344310 ATTTACTA
1 ATTTACTA
7344318 TTATATTTTT
Statistics
Matches: 88, Mismatches: 19, Indels: 13
0.73 0.16 0.11
Matches are distributed among these distances:
19 23 0.26
20 5 0.06
21 4 0.05
22 56 0.64
ACGTcount: A:0.36, C:0.13, G:0.05, T:0.46
Consensus pattern (22 bp):
ATTTACTACTAAGTTATCACTA
Found at i:7344336 original size:44 final size:43
Alignment explanation
Indices: 7344288--7344405 Score: 125
Period size: 44 Copynumber: 2.7 Consensus size: 43
7344278 TAAGTTACTA
7344288 ATTTACTACTAAATTATCAATGATTTACTA-TT-ATATTTTTATAT
1 ATTTACTA-TAAATTATCAATGATTTACTATTTAAT-TTTTTAT-T
* * *
7344332 ATTTACTATTATATTATCAATCATTTACAATTTAATTTTTTATT
1 ATTTACTA-TAAATTATCAATGATTTACTATTTAATTTTTTATT
*
7344376 ATATACTATATAATTATC-ATCGATTTACTA
1 ATTTACTATA-AATTATCAAT-GATTTACTA
7344406 CTAAATTATC
Statistics
Matches: 62, Mismatches: 8, Indels: 8
0.79 0.10 0.10
Matches are distributed among these distances:
43 4 0.06
44 47 0.76
45 9 0.15
46 2 0.03
ACGTcount: A:0.36, C:0.10, G:0.02, T:0.52
Consensus pattern (43 bp):
ATTTACTATAAATTATCAATGATTTACTATTTAATTTTTTATT
Found at i:7344344 original size:12 final size:12
Alignment explanation
Indices: 7344310--7344346 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
7344300 ATTATCAATG
7344310 ATTTACTATTAT
1 ATTTACTATTAT
*
7344322 ATTT-TTA-TAT
1 ATTTACTATTAT
7344332 ATTTACTATTAT
1 ATTTACTATTAT
7344344 ATT
1 ATT
7344347 ATCAATCATT
Statistics
Matches: 21, Mismatches: 2, Indels: 4
0.78 0.07 0.15
Matches are distributed among these distances:
10 7 0.33
11 4 0.19
12 10 0.48
ACGTcount: A:0.32, C:0.05, G:0.00, T:0.62
Consensus pattern (12 bp):
ATTTACTATTAT
Found at i:7344357 original size:22 final size:21
Alignment explanation
Indices: 7344288--7344359 Score: 81
Period size: 22 Copynumber: 3.3 Consensus size: 21
7344278 TAAGTTACTA
* *
7344288 ATTTACTACTAAATTATCAAT
1 ATTTACTATTATATTATCAAT
* *
7344309 GATTTACTATTATATTTTTATAT
1 -ATTTACTATTATATTATCA-AT
7344332 ATTTACTATTATATTATCAAT
1 ATTTACTATTATATTATCAAT
7344353 CATTTAC
1 -ATTTAC
7344360 AATTTAATTT
Statistics
Matches: 42, Mismatches: 6, Indels: 4
0.81 0.12 0.08
Matches are distributed among these distances:
21 2 0.05
22 38 0.90
23 2 0.05
ACGTcount: A:0.36, C:0.11, G:0.01, T:0.51
Consensus pattern (21 bp):
ATTTACTATTATATTATCAAT
Found at i:7344358 original size:85 final size:85
Alignment explanation
Indices: 7344192--7344358 Score: 194
Period size: 85 Copynumber: 2.0 Consensus size: 85
7344182 TGATTTACTT
* * * *
7344192 CTAATTTACTAATTTACTACTAAGTTATCACTTATTTACAACTAACTTATTAGTAATTTACTATT
1 CTAAGTTACTAATTTACTACTAAATTATCAATGATTTACAACTAACTTATTAGTAATTTACTATT
* * * *
7344257 ACGTTATTAGTGATTTATAA
66 ACATTATCAATCATTTATAA
* * *
7344277 CTAAGTTACTAATTTACTACTAAATTATCAATGATTTACTATTATA-TTTTTA-TATATTTACTA
1 CTAAGTTACTAATTTACTACTAAATTATCAATGATTTACAACTA-ACTTATTAGTA-ATTTACTA
*
7344340 TTATATTATCAATCATTTA
64 TTACATTATCAATCATTTA
7344359 CAATTTAATT
Statistics
Matches: 68, Mismatches: 12, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
84 2 0.03
85 65 0.96
86 1 0.01
ACGTcount: A:0.36, C:0.12, G:0.04, T:0.48
Consensus pattern (85 bp):
CTAAGTTACTAATTTACTACTAAATTATCAATGATTTACAACTAACTTATTAGTAATTTACTATT
ACATTATCAATCATTTATAA
Found at i:7344508 original size:21 final size:20
Alignment explanation
Indices: 7344484--7344557 Score: 51
Period size: 21 Copynumber: 3.5 Consensus size: 20
7344474 AAGTTGTTAC
7344484 TGATTAACTATTAGTTATCTA
1 TGATTAACTATTAGTT-TCTA
* *
7344505 TGATTTACTACTAAG-TTCTA
1 TGATTAACTA-TTAGTTTCTA
* * *
7344525 TTGATTTACTTTTAAGTTTTCAA
1 -TGATTAACTATT-AG-TTTCTA
7344548 TGATTAACTA
1 TGATTAACTA
7344558 CTAAATTATC
Statistics
Matches: 41, Mismatches: 7, Indels: 9
0.72 0.12 0.16
Matches are distributed among these distances:
20 5 0.12
21 21 0.51
22 11 0.27
23 4 0.10
ACGTcount: A:0.31, C:0.11, G:0.09, T:0.49
Consensus pattern (20 bp):
TGATTAACTATTAGTTTCTA
Found at i:7344610 original size:22 final size:22
Alignment explanation
Indices: 7344169--7344598 Score: 78
Period size: 22 Copynumber: 19.9 Consensus size: 22
7344159 GTTATTTTTA
* *
7344169 ACTAAATTATTAATGATTTACT
1 ACTAAATTATCAATTATTTACT
* * *
7344191 TCT-AATT-T-ACTAATTTACT
1 ACTAAATTATCAATTATTTACT
* * *
7344210 ACTAAGTTATCACTTATTTACA
1 ACTAAATTATCAATTATTTACT
* * * *
7344232 ACTAACTTATTAGTAATTTACT
1 ACTAAATTATCAATTATTTACT
* ** * * *
7344254 ATTACGTTATTAGTGATTTA-T
1 ACTAAATTATCAATTATTTACT
* *
7344275 AACTAAGTTA-C--TAATTTACT
1 -ACTAAATTATCAATTATTTACT
*
7344295 ACTAAATTATCAATGATTTACT
1 ACTAAATTATCAATTATTTACT
* * **
7344317 ATTATATT-TTTATATATTTACT
1 ACTAAATTATCAAT-TATTTACT
* * * *
7344339 ATTATATTATCAATCATTTACA
1 ACTAAATTATCAATTATTTACT
* * * ** *
7344361 ATTTAATTTTTTATTATATACT
1 ACTAAATTATCAATTATTTACT
*
7344383 A-TATAATTATC-ATCGATTTACT
1 ACTA-AATTATCAAT-TATTTACT
* * * *
7344405 ACTAAATTATCTATAATTCATT
1 ACTAAATTATCAATTATTTACT
* * *
7344427 ACCAAATTATTACATAATTTA-T
1 ACTAAATTATCA-ATTATTTACT
* ** * *
7344449 ATTAAATTATGTATGATTTATT
1 ACTAAATTATCAATTATTTACT
* * * * * * *
7344471 ATTAAGTTGTTACTGATTAACT
1 ACTAAATTATCAATTATTTACT
* * * *
7344493 A-TTAGTTATCTATGATTTACT
1 ACTAAATTATCAATTATTTACT
* *
7344514 ACT-AAGT-TCTATTGATTTACT
1 ACTAAATTATCAATT-ATTTACT
** * * * *
7344535 TTTAAGTTTTCAATGATTAACT
1 ACTAAATTATCAATTATTTACT
7344557 ACTAAATTATCAATTATTTACT
1 ACTAAATTATCAATTATTTACT
** *
7344579 ACTACTTTATCATTTATTTA
1 ACTAAATTATCAATTATTTA
7344599 TAATTAAATT
Statistics
Matches: 300, Mismatches: 88, Indels: 40
0.70 0.21 0.09
Matches are distributed among these distances:
19 25 0.08
20 11 0.04
21 44 0.15
22 202 0.67
23 18 0.06
ACGTcount: A:0.36, C:0.11, G:0.05, T:0.49
Consensus pattern (22 bp):
ACTAAATTATCAATTATTTACT
Found at i:7344700 original size:22 final size:22
Alignment explanation
Indices: 7344675--7344738 Score: 56
Period size: 22 Copynumber: 2.9 Consensus size: 22
7344665 AAGTTGCCAT
7344675 TAATTTATTACTAAGTTATCAA
1 TAATTTATTACTAAGTTATCAA
* * * * *
7344697 TAATTAACTACTAAATTATTAC
1 TAATTTATTACTAAGTTATCAA
* * *
7344719 TTATTTTTTATTAAGTTATC
1 TAATTTATTACTAAGTTATC
7344739 CTCGATCCAG
Statistics
Matches: 30, Mismatches: 12, Indels: 0
0.71 0.29 0.00
Matches are distributed among these distances:
22 30 1.00
ACGTcount: A:0.38, C:0.09, G:0.03, T:0.50
Consensus pattern (22 bp):
TAATTTATTACTAAGTTATCAA
Found at i:7348159 original size:62 final size:61
Alignment explanation
Indices: 7348043--7348185 Score: 213
Period size: 62 Copynumber: 2.4 Consensus size: 61
7348033 AATAAAGTCA
*
7348043 TTTG-AATTAAAATTTATAAAAAAGTTACTAGTGGTATTTTAATCAATCACTTTTAATATT
1 TTTGAAATTAAAATTTATAAAAAAGTTACTAGTGGTATTTTAATCAATCACTTTTAACATT
*
7348103 TTT-AAATTAAAATTTATAAAAAAGATTCACTA-TGGATATTTTAATTAATCACTTTTAACATT
1 TTTGAAATTAAAATTTATAAAAAAG-TT-ACTAGTGG-TATTTTAATCAATCACTTTTAACATT
7348165 TTTGAAATTAAAATTT-TAAAA
1 TTTGAAATTAAAATTTATAAAA
7348186 TTTTAAGCAA
Statistics
Matches: 76, Mismatches: 2, Indels: 8
0.88 0.02 0.09
Matches are distributed among these distances:
60 23 0.30
61 5 0.07
62 36 0.47
63 12 0.16
ACGTcount: A:0.43, C:0.06, G:0.06, T:0.44
Consensus pattern (61 bp):
TTTGAAATTAAAATTTATAAAAAAGTTACTAGTGGTATTTTAATCAATCACTTTTAACATT
Found at i:7351903 original size:30 final size:30
Alignment explanation
Indices: 7351867--7351926 Score: 120
Period size: 30 Copynumber: 2.0 Consensus size: 30
7351857 CAAAAACATA
7351867 ATAAAATATTTTCTACCAATCACCAAAAGC
1 ATAAAATATTTTCTACCAATCACCAAAAGC
7351897 ATAAAATATTTTCTACCAATCACCAAAAGC
1 ATAAAATATTTTCTACCAATCACCAAAAGC
7351927 CTAAGTTTAA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.47, C:0.23, G:0.03, T:0.27
Consensus pattern (30 bp):
ATAAAATATTTTCTACCAATCACCAAAAGC
Found at i:7353468 original size:26 final size:27
Alignment explanation
Indices: 7353439--7353489 Score: 86
Period size: 26 Copynumber: 1.9 Consensus size: 27
7353429 TCTATTGTTG
7353439 ATTTATTATTTTT-TTTTAATTTTCGT
1 ATTTATTATTTTTATTTTAATTTTCGT
*
7353465 ATTTATTATTTTTATTTTTATTTTC
1 ATTTATTATTTTTATTTTAATTTTC
7353490 TGATCTTTTG
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
26 13 0.57
27 10 0.43
ACGTcount: A:0.20, C:0.04, G:0.02, T:0.75
Consensus pattern (27 bp):
ATTTATTATTTTTATTTTAATTTTCGT
Found at i:7353488 original size:5 final size:6
Alignment explanation
Indices: 7353399--7353488 Score: 51
Period size: 6 Copynumber: 14.5 Consensus size: 6
7353389 AATGGCCTAA
* * * * *
7353399 TTTTAG TTTTAA TTTTA- TTTGAT TTTT-T ATTCTAT TGTTGAT TTATTAT
1 TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT -TTTTAT T-TTTAT TT-TTAT
*
7353448 TTTT-T TTTAAT TTTCGTAT TTATTAT TTTTAT TTTTAT TTT
1 TTTTAT TTTTAT TTT--TAT TT-TTAT TTTTAT TTTTAT TTT
7353489 CTGATCTTTT
Statistics
Matches: 66, Mismatches: 9, Indels: 18
0.71 0.10 0.19
Matches are distributed among these distances:
5 9 0.14
6 37 0.56
7 15 0.23
8 4 0.06
9 1 0.02
ACGTcount: A:0.19, C:0.02, G:0.06, T:0.73
Consensus pattern (6 bp):
TTTTAT
Found at i:7354543 original size:18 final size:18
Alignment explanation
Indices: 7354495--7354546 Score: 54
Period size: 18 Copynumber: 2.9 Consensus size: 18
7354485 TTTTCTTCTT
* *
7354495 TAATTGATTATTTATTCA
1 TAATTGTTTATTTATGCA
7354513 T--TTGTCTTGATTTATGCA
1 TAATTGT-TT-ATTTATGCA
7354531 TAATTGTTTATTTATG
1 TAATTGTTTATTTATG
7354547 GTTTTTATTA
Statistics
Matches: 28, Mismatches: 2, Indels: 8
0.74 0.05 0.21
Matches are distributed among these distances:
16 3 0.11
17 2 0.07
18 17 0.61
19 2 0.07
20 4 0.14
ACGTcount: A:0.25, C:0.06, G:0.12, T:0.58
Consensus pattern (18 bp):
TAATTGTTTATTTATGCA
Found at i:7354656 original size:24 final size:25
Alignment explanation
Indices: 7354620--7354666 Score: 69
Period size: 24 Copynumber: 1.9 Consensus size: 25
7354610 TTAATTATCC
7354620 AATGATGAAATTTATAAAAATTTCA
1 AATGATGAAATTTATAAAAATTTCA
* *
7354645 AATGAT-AAATTTCTATAAATTT
1 AATGATGAAATTTATAAAAATTT
7354667 TTTAGGTGAG
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
24 14 0.70
25 6 0.30
ACGTcount: A:0.49, C:0.04, G:0.06, T:0.40
Consensus pattern (25 bp):
AATGATGAAATTTATAAAAATTTCA
Found at i:7360619 original size:3 final size:3
Alignment explanation
Indices: 7360611--7360650 Score: 80
Period size: 3 Copynumber: 13.3 Consensus size: 3
7360601 CCTTTGAGCC
7360611 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
7360651 TTAAAAGAAC
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 37 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:7361121 original size:23 final size:24
Alignment explanation
Indices: 7361090--7361164 Score: 68
Period size: 23 Copynumber: 3.1 Consensus size: 24
7361080 TTATATGTAG
*
7361090 AAAAGAAGAA-GAAGAAA-TGAAAA
1 AAAAAAAGAATGAA-AAATTGAAAA
7361113 AAAAAAAGAATGAAAAATTGAAAA
1 AAAAAAAGAATGAAAAATTGAAAA
*
7361137 AATTAAAAA-AATTAAAAAATT-AAAA
1 AA--AAAAAGAA-TGAAAAATTGAAAA
7361162 AAA
1 AAA
7361165 TGAAAAAAGA
Statistics
Matches: 45, Mismatches: 2, Indels: 10
0.79 0.04 0.18
Matches are distributed among these distances:
23 13 0.29
24 11 0.24
25 8 0.18
26 13 0.29
ACGTcount: A:0.76, C:0.00, G:0.11, T:0.13
Consensus pattern (24 bp):
AAAAAAAGAATGAAAAATTGAAAA
Found at i:7361146 original size:17 final size:18
Alignment explanation
Indices: 7361125--7361172 Score: 82
Period size: 17 Copynumber: 2.8 Consensus size: 18
7361115 AAAAAGAATG
7361125 AAAAATTGAAAAAATTAA
1 AAAAATTGAAAAAATTAA
7361143 AAAAATT-AAAAAATTAA
1 AAAAATTGAAAAAATTAA
7361160 AAAAA-TGAAAAAA
1 AAAAATTGAAAAAA
7361173 GAGAAAAGAG
Statistics
Matches: 29, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
16 1 0.03
17 21 0.72
18 7 0.24
ACGTcount: A:0.77, C:0.00, G:0.04, T:0.19
Consensus pattern (18 bp):
AAAAATTGAAAAAATTAA
Found at i:7361164 original size:9 final size:9
Alignment explanation
Indices: 7361125--7361172 Score: 71
Period size: 9 Copynumber: 5.4 Consensus size: 9
7361115 AAAAAGAATG
*
7361125 AAAAATTGA
1 AAAAATTAA
7361134 AAAAATTAA
1 AAAAATTAA
7361143 AAAAATT-A
1 AAAAATTAA
7361151 AAAAATTAA
1 AAAAATTAA
*
7361160 AAAAATGAA
1 AAAAATTAA
7361169 AAAA
1 AAAA
7361173 GAGAAAAGAG
Statistics
Matches: 36, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
8 8 0.22
9 28 0.78
ACGTcount: A:0.77, C:0.00, G:0.04, T:0.19
Consensus pattern (9 bp):
AAAAATTAA
Found at i:7361170 original size:8 final size:8
Alignment explanation
Indices: 7361104--7361172 Score: 59
Period size: 8 Copynumber: 8.4 Consensus size: 8
7361094 GAAGAAGAAG
7361104 AAATGAAA
1 AAATGAAA
*
7361112 AAA-AAAA
1 AAATGAAA
7361119 AGAATGAAA
1 A-AATGAAA
*
7361128 AATTGAAA
1 AAATGAAA
*
7361136 AAATTAAAA
1 AAA-TGAAA
*
7361145 AAATTAAA
1 AAATGAAA
*
7361153 AAATTAAAA
1 AAA-TGAAA
7361162 AAATGAAA
1 AAATGAAA
7361170 AAA
1 AAA
7361173 GAGAAAAGAG
Statistics
Matches: 49, Mismatches: 8, Indels: 8
0.75 0.12 0.12
Matches are distributed among these distances:
7 4 0.08
8 27 0.55
9 18 0.37
ACGTcount: A:0.77, C:0.00, G:0.07, T:0.16
Consensus pattern (8 bp):
AAATGAAA
Found at i:7361179 original size:17 final size:17
Alignment explanation
Indices: 7361104--7361172 Score: 72
Period size: 17 Copynumber: 4.2 Consensus size: 17
7361094 GAAGAAGAAG
7361104 AAATGAAAAAAA--AAA
1 AAATGAAAAAAATGAAA
*
7361119 AGAATG-AAAAATTGAAA
1 A-AATGAAAAAAATGAAA
* *
7361136 AAATTAAAAAAATTAAA
1 AAATGAAAAAAATGAAA
*
7361153 AAATTAAAAAAATGAAA
1 AAATGAAAAAAATGAAA
7361170 AAA
1 AAA
7361173 GAGAAAAGAG
Statistics
Matches: 45, Mismatches: 5, Indels: 6
0.80 0.09 0.11
Matches are distributed among these distances:
15 6 0.13
16 7 0.16
17 32 0.71
ACGTcount: A:0.77, C:0.00, G:0.07, T:0.16
Consensus pattern (17 bp):
AAATGAAAAAAATGAAA
Found at i:7362665 original size:41 final size:41
Alignment explanation
Indices: 7362536--7363035 Score: 547
Period size: 41 Copynumber: 12.1 Consensus size: 41
7362526 ATGATTGTCA
* *
7362536 AGGAGCCATTTATTTTCTAGAAGTTCGTTGCCTTTATTCAG
1 AGGAGCCATTTATTTTCTAAAAGTTCGTTGCCTCTATTCAG
* * *
7362577 AAGAGCCATTTATTTTCTTAAAAGTCCGTTGCCTCTATTTAG
1 AGGAGCCATTTATTTTC-TAAAAGTTCGTTGCCTCTATTCAG
* * *
7362619 AGGAGCCATTTATTTTCTAGAAGTTTGTTACCTCTATTCAG
1 AGGAGCCATTTATTTTCTAAAAGTTCGTTGCCTCTATTCAG
*
7362660 AGGAGCCATTTATTTTCTCAAAAGTTCGTTGCCTCTATTTAG
1 AGGAGCCATTTATTTTCT-AAAAGTTCGTTGCCTCTATTCAG
* * *
7362702 AGGAGCTATTTATTTTCTACAAGTTCATTGCCTCTATTCAG
1 AGGAGCCATTTATTTTCTAAAAGTTCGTTGCCTCTATTCAG
* **
7362743 ATGAGCCATTTATTTTCTAAAAGTTTTTTGCCTCTATTCAG
1 AGGAGCCATTTATTTTCTAAAAGTTCGTTGCCTCTATTCAG
* * * *
7362784 AAGAGCCATTTATTTTCTCAAAAGTTTGTTGCCTTTATTTAG
1 AGGAGCCATTTATTTTCT-AAAAGTTCGTTGCCTCTATTCAG
* * * * *
7362826 AAGAACCATTTATTTTTTAGAAGTTCGTTGCCTCTATTCAT
1 AGGAGCCATTTATTTTCTAAAAGTTCGTTGCCTCTATTCAG
* * * * * *
7362867 AGAAGCCATTTATTTTTTCAAAAGTTCATTACTTCTATTTAG
1 AGGAGCCATTTATTTTCT-AAAAGTTCGTTGCCTCTATTCAG
* * *
7362909 CGGAGCCATTTATTTTC--AAAGTTCGTTGCTTCTATTCAA
1 AGGAGCCATTTATTTTCTAAAAGTTCGTTGCCTCTATTCAG
** * *
7362948 ATAAGCTATTTA-TTTCTCAAAGTTCGTTGCCTCTATTCAG
1 AGGAGCCATTTATTTTCTAAAAGTTCGTTGCCTCTATTCAG
* * * * *
7362988 AGGAGCCATTCATTTTTTCAAAGTTTTGTTGCCTCTATTTAG
1 AGGAGCCATTTATTTTCTAAAAG-TTCGTTGCCTCTATTCAG
*
7363030 ATGAGC
1 AGGAGC
7363036 TTCACTTACT
Statistics
Matches: 386, Mismatches: 65, Indels: 15
0.83 0.14 0.03
Matches are distributed among these distances:
38 4 0.01
39 26 0.07
40 28 0.07
41 168 0.44
42 160 0.41
ACGTcount: A:0.25, C:0.18, G:0.15, T:0.43
Consensus pattern (41 bp):
AGGAGCCATTTATTTTCTAAAAGTTCGTTGCCTCTATTCAG
Found at i:7362675 original size:83 final size:84
Alignment explanation
Indices: 7362536--7363035 Score: 545
Period size: 83 Copynumber: 6.1 Consensus size: 84
7362526 ATGATTGTCA
* * *
7362536 AGGAGCCATTTATTTTCT-AGAAGTTCGTTGCCTTTATTCAGAAGAGCCATTTATTTTCTTAAAA
1 AGGAGCCATTTATTTTCTCAAAAGTTCGTTGCCTCTATTCAGAGGAGCCATTTATTTTCTTAAAA
* *
7362600 GTCCGTTGCCTCTATTTAG
66 GTTCGTTGCCTCTATTCAG
* * * *
7362619 AGGAGCCATTTATTTTCT-AGAAGTTTGTTACCTCTATTCAGAGGAGCCATTTATTTTCTCAAAA
1 AGGAGCCATTTATTTTCTCAAAAGTTCGTTGCCTCTATTCAGAGGAGCCATTTATTTTCTTAAAA
*
7362683 GTTCGTTGCCTCTATTTAG
66 GTTCGTTGCCTCTATTCAG
* * * *
7362702 AGGAGCTATTTATTTTCT-ACAAGTTCATTGCCTCTATTCAGATGAGCCATTTATTTTC-TAAAA
1 AGGAGCCATTTATTTTCTCAAAAGTTCGTTGCCTCTATTCAGAGGAGCCATTTATTTTCTTAAAA
**
7362765 GTTTTTTGCCTCTATTCAG
66 GTTCGTTGCCTCTATTCAG
* * * * * * *
7362784 AAGAGCCATTTATTTTCTCAAAAGTTTGTTGCCTTTATTTAGAAGAACCATTTATTTT-TTAGAA
1 AGGAGCCATTTATTTTCTCAAAAGTTCGTTGCCTCTATTCAGAGGAGCCATTTATTTTCTTAAAA
*
7362848 GTTCGTTGCCTCTATTCAT
66 GTTCGTTGCCTCTATTCAG
* * * * * * *
7362867 AGAAGCCATTTATTTTTTCAAAAGTTCATTACTTCTATTTAGCGGAGCCATTTATTTTC---AAA
1 AGGAGCCATTTATTTTCTCAAAAGTTCGTTGCCTCTATTCAGAGGAGCCATTTATTTTCTTAAAA
* *
7362929 GTTCGTTGCTTCTATTCAA
66 GTTCGTTGCCTCTATTCAG
** * * *
7362948 ATAAGCTATTTA-TTTCTC-AAAGTTCGTTGCCTCTATTCAGAGGAGCCATTCATTTT-TTCAAA
1 AGGAGCCATTTATTTTCTCAAAAGTTCGTTGCCTCTATTCAGAGGAGCCATTTATTTTCTTAAAA
* *
7363010 GTTTTGTTGCCTCTATTTAG
66 G-TTCGTTGCCTCTATTCAG
*
7363030 ATGAGC
1 AGGAGC
7363036 TTCACTTACT
Statistics
Matches: 353, Mismatches: 57, Indels: 15
0.83 0.13 0.04
Matches are distributed among these distances:
79 32 0.09
80 5 0.01
81 33 0.09
82 55 0.16
83 228 0.65
ACGTcount: A:0.25, C:0.18, G:0.15, T:0.43
Consensus pattern (84 bp):
AGGAGCCATTTATTTTCTCAAAAGTTCGTTGCCTCTATTCAGAGGAGCCATTTATTTTCTTAAAA
GTTCGTTGCCTCTATTCAG
Found at i:7362756 original size:124 final size:125
Alignment explanation
Indices: 7362536--7363035 Score: 570
Period size: 124 Copynumber: 4.0 Consensus size: 125
7362526 ATGATTGTCA
* * *
7362536 AGGAGCCATTTATTTTCT-AGAAGTTCGTTGCCTTTATTCAGAAGAGCCATTTATTTTCTTAAAA
1 AGGAGCCATTTATTTTCTCAAAAGTTCGTTGCCTCTATTCAGAAGAGCCATTTATTTTC-TACAA
* * *
7362600 GTCCGTTGCCTCTATTTAGAGGAGCCATTTATTTTCT-AGAAGTTTGTTACCTCTATTCAG
65 GTTCGTTGCCTCTATTCAGAGGAGCCATTTATTTTCTCAAAAGTTTGTTACCTCTATTCAG
* * *
7362660 AGGAGCCATTTATTTTCTCAAAAGTTCGTTGCCTCTATTTAGAGGAGCTATTTATTTTCTACAAG
1 AGGAGCCATTTATTTTCTCAAAAGTTCGTTGCCTCTATTCAGAAGAGCCATTTATTTTCTACAAG
* * * *
7362725 TTCATTGCCTCTATTCAGATGAGCCATTTATTTTCT-AAAAGTTTTTTGCCTCTATTCAG
66 TTCGTTGCCTCTATTCAGAGGAGCCATTTATTTTCTCAAAAGTTTGTTACCTCTATTCAG
* * * * * * *
7362784 AAGAGCCATTTATTTTCTCAAAAGTTTGTTGCCTTTATTTAGAAGAACCATTTATTTTTTAGAAG
1 AGGAGCCATTTATTTTCTCAAAAGTTCGTTGCCTCTATTCAGAAGAGCCATTTATTTTCTACAAG
* * * ** * *
7362849 TTCGTTGCCTCTATTCATAGAAGCCATTTATTTTTTCAAAAGTTCATTACTTCTATTTAG
66 TTCGTTGCCTCTATTCAGAGGAGCCATTTATTTTCTCAAAAGTTTGTTACCTCTATTCAG
* * * *
7362909 CGGAGCCATTTA-TTT-TC-AAAGTTCGTTGCTTCTATTCA-AATAAGCTATTTA-TTTCT-CAA
1 AGGAGCCATTTATTTTCTCAAAAGTTCGTTGCCTCTATTCAGAA-GAGCCATTTATTTTCTAC-A
* * * *
7362968 AGTTCGTTGCCTCTATTCAGAGGAGCCATTCATTTTTTC-AAAGTTTTGTTGCCTCTATTTAG
64 AGTTCGTTGCCTCTATTCAGAGGAGCCATTTATTTTCTCAAAAG-TTTGTTACCTCTATTCAG
*
7363030 ATGAGC
1 AGGAGC
7363036 TTCACTTACT
Statistics
Matches: 320, Mismatches: 51, Indels: 13
0.83 0.13 0.03
Matches are distributed among these distances:
120 4 0.01
121 61 0.19
122 24 0.08
123 2 0.01
124 166 0.52
125 63 0.20
ACGTcount: A:0.25, C:0.18, G:0.15, T:0.43
Consensus pattern (125 bp):
AGGAGCCATTTATTTTCTCAAAAGTTCGTTGCCTCTATTCAGAAGAGCCATTTATTTTCTACAAG
TTCGTTGCCTCTATTCAGAGGAGCCATTTATTTTCTCAAAAGTTTGTTACCTCTATTCAG
Found at i:7363296 original size:6 final size:6
Alignment explanation
Indices: 7363281--7363338 Score: 66
Period size: 6 Copynumber: 9.5 Consensus size: 6
7363271 AAAGGCTTAA
*
7363281 TTTTAGT TTTTA- TTTTA- TTTTATT TTTTAT TTTTTT ATTTTAT TTTTAT
1 TTTTA-T TTTTAT TTTTAT TTTTA-T TTTTAT TTTTAT -TTTTAT TTTTAT
7363330 TTTTAT TTT
1 TTTTAT TTT
7363339 CTGGTCTCTT
Statistics
Matches: 46, Mismatches: 2, Indels: 7
0.84 0.04 0.13
Matches are distributed among these distances:
5 10 0.22
6 21 0.46
7 15 0.33
ACGTcount: A:0.16, C:0.00, G:0.02, T:0.83
Consensus pattern (6 bp):
TTTTAT
Found at i:7363298 original size:5 final size:5
Alignment explanation
Indices: 7363288--7363338 Score: 59
Period size: 5 Copynumber: 9.8 Consensus size: 5
7363278 TAATTTTAGT
*
7363288 TTTTA TTTTA TTTTA TTTT- TTATTT TTTTA TTTTA TTTTTA TTTTTA
1 TTTTA TTTTA TTTTA TTTTA TT-TTA TTTTA TTTTA -TTTTA -TTTTA
7363335 TTTT
1 TTTT
7363339 CTGGTCTCTT
Statistics
Matches: 42, Mismatches: 1, Indels: 6
0.86 0.02 0.12
Matches are distributed among these distances:
4 2 0.05
5 27 0.64
6 13 0.31
ACGTcount: A:0.16, C:0.00, G:0.00, T:0.84
Consensus pattern (5 bp):
TTTTA
Found at i:7363321 original size:25 final size:25
Alignment explanation
Indices: 7363287--7363338 Score: 88
Period size: 25 Copynumber: 2.1 Consensus size: 25
7363277 TTAATTTTAG
7363287 TTTTTATTTTA-TTTTATTTTTTATT
1 TTTTTATTTTATTTTTA-TTTTTATT
7363312 TTTTTATTTTATTTTTATTTTTATT
1 TTTTTATTTTATTTTTATTTTTATT
7363337 TT
1 TT
7363339 CTGGTCTCTT
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
25 21 0.81
26 5 0.19
ACGTcount: A:0.15, C:0.00, G:0.00, T:0.85
Consensus pattern (25 bp):
TTTTTATTTTATTTTTATTTTTATT
Found at i:7363326 original size:19 final size:20
Alignment explanation
Indices: 7363293--7363333 Score: 75
Period size: 19 Copynumber: 2.1 Consensus size: 20
7363283 TTAGTTTTTA
7363293 TTTTATTTTATTTTTTATTT
1 TTTTATTTTATTTTTTATTT
7363313 TTTTATTTTA-TTTTTATTT
1 TTTTATTTTATTTTTTATTT
7363332 TT
1 TT
7363334 ATTTTCTGGT
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 11 0.52
20 10 0.48
ACGTcount: A:0.15, C:0.00, G:0.00, T:0.85
Consensus pattern (20 bp):
TTTTATTTTATTTTTTATTT
Found at i:7367660 original size:28 final size:28
Alignment explanation
Indices: 7367620--7367678 Score: 100
Period size: 28 Copynumber: 2.1 Consensus size: 28
7367610 ATATATTGGT
* *
7367620 TTATAGCATTACTCTGGAGGAACATGTC
1 TTATAACATTACTCTGGAGAAACATGTC
7367648 TTATAACATTACTCTGGAGAAACATGTC
1 TTATAACATTACTCTGGAGAAACATGTC
7367676 TTA
1 TTA
7367679 CATTTGAAAC
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.34
Consensus pattern (28 bp):
TTATAACATTACTCTGGAGAAACATGTC
Found at i:7373352 original size:2 final size:2
Alignment explanation
Indices: 7373345--7373382 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
7373335 TTAGTAATCT
7373345 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
7373383 AAGCAAGATG
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:7376293 original size:21 final size:20
Alignment explanation
Indices: 7376260--7376300 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 20
7376250 AACTTTAATT
*
7376260 AAAAAATATATGAAAAAATA
1 AAAAAATACATGAAAAAATA
*
7376280 AAAAAATTACATGATAAAATA
1 AAAAAA-TACATGAAAAAATA
7376301 GGAATATTCA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 6 0.33
21 12 0.67
ACGTcount: A:0.71, C:0.02, G:0.05, T:0.22
Consensus pattern (20 bp):
AAAAAATACATGAAAAAATA
Found at i:7377238 original size:28 final size:27
Alignment explanation
Indices: 7377206--7377260 Score: 74
Period size: 28 Copynumber: 2.0 Consensus size: 27
7377196 TTATAGAATT
* *
7377206 ATATTTTTTATTATAATAGTTTATTTTA
1 ATATTTTTTAGTATAATAATTT-TTTTA
*
7377234 ATATTTTTTGGTATAATAATTTTTTTA
1 ATATTTTTTAGTATAATAATTTTTTTA
7377261 TTTAAATGAG
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
27 5 0.21
28 19 0.79
ACGTcount: A:0.31, C:0.00, G:0.05, T:0.64
Consensus pattern (27 bp):
ATATTTTTTAGTATAATAATTTTTTTA
Found at i:7380228 original size:14 final size:15
Alignment explanation
Indices: 7380204--7380232 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
7380194 TGATTAATTG
7380204 GTTATAAAAATAATA
1 GTTATAAAAATAATA
7380219 GTTA-AAAAATAATA
1 GTTATAAAAATAATA
7380233 ACTATCTGTA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 10 0.71
15 4 0.29
ACGTcount: A:0.62, C:0.00, G:0.07, T:0.31
Consensus pattern (15 bp):
GTTATAAAAATAATA
Found at i:7382766 original size:2 final size:2
Alignment explanation
Indices: 7382759--7382792 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
7382749 TTAATAATCT
7382759 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
7382793 AAGCGAGATG
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:7385703 original size:22 final size:21
Alignment explanation
Indices: 7385669--7385710 Score: 57
Period size: 22 Copynumber: 2.0 Consensus size: 21
7385659 TAACTTAATT
*
7385669 AAAAAATATATGAAAAAATAA
1 AAAAAATACATGAAAAAATAA
*
7385690 AAAAAATTACATGATAAAATA
1 AAAAAA-TACATGAAAAAATA
7385711 GAAATATTCA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 6 0.33
22 12 0.67
ACGTcount: A:0.71, C:0.02, G:0.05, T:0.21
Consensus pattern (21 bp):
AAAAAATACATGAAAAAATAA
Found at i:7386634 original size:28 final size:27
Alignment explanation
Indices: 7386602--7386656 Score: 74
Period size: 28 Copynumber: 2.0 Consensus size: 27
7386592 TTATAGAATT
* *
7386602 ATATTTTTTATTATAATAGTTTATTTTA
1 ATATTTTTTAGTATAATAATTT-TTTTA
*
7386630 ATATTTTTTGGTATAATAATTTTTTTA
1 ATATTTTTTAGTATAATAATTTTTTTA
7386657 TTTAAATGAG
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
27 5 0.21
28 19 0.79
ACGTcount: A:0.31, C:0.00, G:0.05, T:0.64
Consensus pattern (27 bp):
ATATTTTTTAGTATAATAATTTTTTTA
Found at i:7387746 original size:23 final size:25
Alignment explanation
Indices: 7387716--7387761 Score: 78
Period size: 25 Copynumber: 1.9 Consensus size: 25
7387706 TGTTTGGTTA
7387716 GGATAA-TTT-TTTTTAAATTATTG
1 GGATAATTTTGTTTTTAAATTATTG
7387739 GGATAATTTTGTTTTTAAATTAT
1 GGATAATTTTGTTTTTAAATTAT
7387762 AAACCAAAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
23 6 0.29
24 3 0.14
25 12 0.57
ACGTcount: A:0.30, C:0.00, G:0.13, T:0.57
Consensus pattern (25 bp):
GGATAATTTTGTTTTTAAATTATTG
Found at i:7390119 original size:16 final size:17
Alignment explanation
Indices: 7390087--7390127 Score: 59
Period size: 16 Copynumber: 2.5 Consensus size: 17
7390077 AATAATGTTT
*
7390087 TAATAAAA-TATTTAAA
1 TAATAAAATTAATTAAA
7390103 T-ATAAAATTAATTAAA
1 TAATAAAATTAATTAAA
7390119 TAATAAAAT
1 TAATAAAAT
7390128 ATATATTTTA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
15 6 0.27
16 9 0.41
17 7 0.32
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (17 bp):
TAATAAAATTAATTAAA
Found at i:7398664 original size:24 final size:23
Alignment explanation
Indices: 7398614--7398664 Score: 68
Period size: 23 Copynumber: 2.2 Consensus size: 23
7398604 ATTTTTTTCA
*
7398614 TAAATTAATATATTTAAATATAT
1 TAAATTAATATATTTAAATAAAT
7398637 TAAATTTAATAT-TTTAAATAAAT
1 TAAA-TTAATATATTTAAATAAAT
7398660 CTAAA
1 -TAAA
7398665 AATTTTATAA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
23 14 0.56
24 11 0.44
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.45
Consensus pattern (23 bp):
TAAATTAATATATTTAAATAAAT
Found at i:7405770 original size:13 final size:12
Alignment explanation
Indices: 7405752--7405781 Score: 51
Period size: 13 Copynumber: 2.4 Consensus size: 12
7405742 TTCTTTAAAG
7405752 AAAAATCAAAATT
1 AAAAATCAAAA-T
7405765 AAAAATCAAAAT
1 AAAAATCAAAAT
7405777 AAAAA
1 AAAAA
7405782 GGAAGGAAAG
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 6 0.35
13 11 0.65
ACGTcount: A:0.77, C:0.07, G:0.00, T:0.17
Consensus pattern (12 bp):
AAAAATCAAAAT
Found at i:7405941 original size:59 final size:59
Alignment explanation
Indices: 7405815--7406038 Score: 245
Period size: 59 Copynumber: 3.7 Consensus size: 59
7405805 TTGTGTAGGA
* * * *
7405815 AAAATTGATACCTTCAACTTTTCCCCACAAACATTTTTTTTG-AAACTTTGATTTTCAAGG
1 AAAATTGATACTTTCAACTTTTCCCTA-AAA-ATATTTTTTGAAAATTTTGATTTTCAAGG
*
7405875 AAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTCGAAAATTTTGATTTTCAAGG
1 AAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTGAAAATTTTGATTTTCAAGG
* ** *
7405934 AAAATTGATACTTTCAACTTTT-CCTCAAAAACCCTTTTTTTTGAAATTTATTTATTTTTTTTAA
1 AAAATTGATACTTTCAACTTTTCCCT-AAAAA---TATTTTTTGAAA---ATTT-TGATTTTCAA
*
7405998 GA
58 GG
*
7406000 AAAATTAATACTTTCAACTTTTCCCTAAAAATATTTTTT
1 AAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTT
7406039 TTTTGGAAAT
Statistics
Matches: 141, Mismatches: 13, Indels: 17
0.82 0.08 0.10
Matches are distributed among these distances:
58 11 0.08
59 47 0.33
60 25 0.18
62 10 0.07
63 7 0.05
65 4 0.03
66 34 0.24
67 3 0.02
ACGTcount: A:0.34, C:0.16, G:0.06, T:0.45
Consensus pattern (59 bp):
AAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTGAAAATTTTGATTTTCAAGG
Found at i:7406030 original size:125 final size:119
Alignment explanation
Indices: 7405815--7406037 Score: 311
Period size: 125 Copynumber: 1.8 Consensus size: 119
7405805 TTGTGTAGGA
* *
7405815 AAAATTGATACCTTCAACTTTTCCCCACAAACATTTTTTTTGAAACTTTGATTTTCAAGGAAAAT
1 AAAATTGATACCTTCAACTTTTCCCCAAAAACATTTTTTTTGAAACTTTGATTTTCAAGAAAAAT
*
7405880 TGATACTTTCAACTTTTCCCTAAAAATATTTTTCGAAAATTTTGATTTTCAAGG
66 TAATACTTTCAACTTTTCCCTAAAAATATTTTTCGAAAATTTTGATTTTCAAGG
* * * * * *
7405934 AAAATTGATACTTTCAACTTTTCCTCAAAAACCCTTTTTTTTGAAATTTATTTATTTTTTTTAAG
1 AAAATTGATACCTTCAACTTTTCCCCAAAAA-CATTTTTTTTGAAA-CT-TTGA---TTTTCAAG
7405999 AAAAATTAATACTTTCAACTTTTCCCTAAAAATATTTTT
60 AAAAATTAATACTTTCAACTTTTCCCTAAAAATATTTTT
7406038 TTTTTGGAAA
Statistics
Matches: 89, Mismatches: 9, Indels: 6
0.86 0.09 0.06
Matches are distributed among these distances:
119 28 0.31
120 13 0.15
121 1 0.01
122 3 0.03
125 44 0.49
ACGTcount: A:0.34, C:0.16, G:0.06, T:0.44
Consensus pattern (119 bp):
AAAATTGATACCTTCAACTTTTCCCCAAAAACATTTTTTTTGAAACTTTGATTTTCAAGAAAAAT
TAATACTTTCAACTTTTCCCTAAAAATATTTTTCGAAAATTTTGATTTTCAAGG
Found at i:7406038 original size:66 final size:68
Alignment explanation
Indices: 7405925--7406050 Score: 168
Period size: 66 Copynumber: 1.9 Consensus size: 68
7405915 AAAATTTTGA
* * *
7405925 TTTTCAAGGAAAATTGATACTTTCAACTTTTCCTCAAAAAC-CCTTTTTTTT-GAAATTTATTTA
1 TTTTCAAGAAAAATTAATACTTTCAACTTTTCCTCAAAAACATCTTTTTTTTGGAAATTTATTTA
7405988 TTT
66 TTT
* * *
7405991 TTTTTAAGAAAAATTAATACTTTCAACTTTTCC-CTAAAAATATTTTTTTTTTGGAAATTT
1 TTTTCAAGAAAAATTAATACTTTCAACTTTTCCTC-AAAAACATCTTTTTTTTGGAAATTT
7406051 TGATTTTTAT
Statistics
Matches: 51, Mismatches: 6, Indels: 4
0.84 0.10 0.07
Matches are distributed among these distances:
65 1 0.02
66 35 0.69
67 8 0.16
68 7 0.14
ACGTcount: A:0.33, C:0.13, G:0.06, T:0.49
Consensus pattern (68 bp):
TTTTCAAGAAAAATTAATACTTTCAACTTTTCCTCAAAAACATCTTTTTTTTGGAAATTTATTTA
TTT
Found at i:7406114 original size:6 final size:6
Alignment explanation
Indices: 7406105--7406148 Score: 56
Period size: 6 Copynumber: 7.5 Consensus size: 6
7406095 AAGTGAAAAT
*
7406105 AAATAA AAATAA AAA-ATA AAATAA AAAT-A AAATAA AGATAA AAA
1 AAATAA AAATAA AAATA-A AAATAA AAATAA AAATAA AAATAA AAA
7406149 AATATTAAAT
Statistics
Matches: 33, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
5 6 0.18
6 26 0.79
7 1 0.03
ACGTcount: A:0.82, C:0.00, G:0.02, T:0.16
Consensus pattern (6 bp):
AAATAA
Found at i:7406127 original size:12 final size:13
Alignment explanation
Indices: 7406077--7406207 Score: 61
Period size: 12 Copynumber: 9.5 Consensus size: 13
7406067 AAAATAGAAT
*
7406077 AATAAAATAAATA
1 AATAAAATAAACA
* *
7406090 AATGAAAGTGAAAATA
1 AAT-AAAAT--AAACA
7406106 AATAAAAATAAA-A
1 AAT-AAAATAAACA
*
7406119 AATAAAATAAAAATAA
1 AATAAAAT--AAA-CA
*
7406135 AATAAAGATAAAAA
1 AATAAA-ATAAACA
*
7406149 AATATTAAATAAACCT
1 AATA--AAATAAA-CA
** *
7406165 AATCTAATAAATA
1 AATAAAATAAACA
7406178 AA-AAAATAAACA
1 AATAAAATAAACA
7406190 AAT-AAATAAACA
1 AATAAAATAAACA
7406202 AATAAA
1 AATAAA
7406208 TGAAAAAAAA
Statistics
Matches: 93, Mismatches: 12, Indels: 26
0.71 0.09 0.20
Matches are distributed among these distances:
12 26 0.28
13 11 0.12
14 22 0.24
15 8 0.09
16 24 0.26
17 2 0.02
ACGTcount: A:0.73, C:0.04, G:0.03, T:0.20
Consensus pattern (13 bp):
AATAAAATAAACA
Found at i:7406132 original size:11 final size:11
Alignment explanation
Indices: 7406100--7406161 Score: 65
Period size: 11 Copynumber: 5.7 Consensus size: 11
7406090 AATGAAAGTG
*
7406100 AAAATAAATA-
1 AAAATAAAAAT
7406110 AAAATAAAAAAT
1 AAAAT-AAAAAT
7406122 AAAATAAAAAT
1 AAAATAAAAAT
*
7406133 AAAATAAAGAT
1 AAAATAAAAAT
*
7406144 AAAA-AAATAT
1 AAAATAAAAAT
*
7406154 TAAATAAA
1 AAAATAAA
7406162 CCTAATCTAA
Statistics
Matches: 45, Mismatches: 4, Indels: 5
0.83 0.07 0.09
Matches are distributed among these distances:
10 13 0.29
11 27 0.60
12 5 0.11
ACGTcount: A:0.79, C:0.00, G:0.02, T:0.19
Consensus pattern (11 bp):
AAAATAAAAAT
Found at i:7406663 original size:31 final size:31
Alignment explanation
Indices: 7406628--7406688 Score: 88
Period size: 31 Copynumber: 2.0 Consensus size: 31
7406618 AACTGGGCAG
*
7406628 GTTGCCGGAAACTTC-AATGCTCGCCGGAATT
1 GTTGCCGGAAAATTCAAAT-CTCGCCGGAATT
*
7406659 GTTGCCGGAAAATTCAAATTTCGCCGGAAT
1 GTTGCCGGAAAATTCAAATCTCGCCGGAAT
7406689 CTGGAAATTT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
31 24 0.89
32 3 0.11
ACGTcount: A:0.26, C:0.23, G:0.25, T:0.26
Consensus pattern (31 bp):
GTTGCCGGAAAATTCAAATCTCGCCGGAATT
Found at i:7406733 original size:24 final size:24
Alignment explanation
Indices: 7406703--7406760 Score: 107
Period size: 24 Copynumber: 2.4 Consensus size: 24
7406693 AAATTTCCAG
7406703 AAAAATTTTTCGCAAAAAATTTCT
1 AAAAATTTTTCGCAAAAAATTTCT
*
7406727 AAAAATTTTTCGCCAAAAATTTCT
1 AAAAATTTTTCGCAAAAAATTTCT
7406751 AAAAATTTTT
1 AAAAATTTTT
7406761 TCTCACTCCC
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
24 33 1.00
ACGTcount: A:0.45, C:0.12, G:0.03, T:0.40
Consensus pattern (24 bp):
AAAAATTTTTCGCAAAAAATTTCT
Found at i:7407115 original size:43 final size:43
Alignment explanation
Indices: 7407021--7407116 Score: 119
Period size: 43 Copynumber: 2.2 Consensus size: 43
7407011 GCCCTCCAAA
*
7407021 ATCAAATAAATAAAAATAAAATAAAATAGATAATTTAGAAAAG
1 ATCAGATAAATAAAAATAAAATAAAATAGATAATTTAGAAAAG
7407064 AT-AGGATAAATAAAAA-AAAATAATAATCAGATAA-TTA-AAAAGG
1 ATCA-GATAAATAAAAATAAAATAA-AAT-AGATAATTTAGAAAA-G
7407107 ATCAGATAAA
1 ATCAGATAAA
7407117 ATTAACAGAT
Statistics
Matches: 47, Mismatches: 1, Indels: 10
0.81 0.02 0.17
Matches are distributed among these distances:
42 12 0.26
43 28 0.60
44 7 0.15
ACGTcount: A:0.66, C:0.03, G:0.09, T:0.22
Consensus pattern (43 bp):
ATCAGATAAATAAAAATAAAATAAAATAGATAATTTAGAAAAG
Found at i:7407185 original size:3 final size:3
Alignment explanation
Indices: 7407170--7407209 Score: 53
Period size: 3 Copynumber: 12.7 Consensus size: 3
7407160 ATATTTAAAA
*
7407170 AAT AAT AAA AAT AAT AAAT AAT AAT AAT AAT AAT ATAT AA
1 AAT AAT AAT AAT AAT -AAT AAT AAT AAT AAT AAT A-AT AA
7407210 CTATATACAT
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
3 27 0.82
4 6 0.18
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (3 bp):
AAT
Found at i:7407188 original size:16 final size:16
Alignment explanation
Indices: 7407169--7407202 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
7407159 TATATTTAAA
7407169 AAATAATAAAAATAAT
1 AAATAATAAAAATAAT
*
7407185 AAATAATAATAATAAT
1 AAATAATAAAAATAAT
7407201 AA
1 AA
7407203 TATATAACTA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (16 bp):
AAATAATAAAAATAAT
Found at i:7407192 original size:19 final size:19
Alignment explanation
Indices: 7407165--7407209 Score: 63
Period size: 19 Copynumber: 2.4 Consensus size: 19
7407155 AAAATATATT
*
7407165 TAAAAAATAATAAAAATAA
1 TAAATAATAATAAAAATAA
*
7407184 TAAATAATAATAATAATAA
1 TAAATAATAATAAAAATAA
*
7407203 TATATAA
1 TAAATAA
7407210 CTATATACAT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
19 23 1.00
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (19 bp):
TAAATAATAATAAAAATAA
Found at i:7408474 original size:19 final size:19
Alignment explanation
Indices: 7408420--7408474 Score: 55
Period size: 16 Copynumber: 3.1 Consensus size: 19
7408410 AAAAATAGTC
7408420 AATATTTTATTT-AATAAGA
1 AATA-TTTATTTGAATAAGA
* *
7408439 AA-A-TTA-TCGATTAAGA
1 AATATTTATTTGAATAAGA
7408455 AATATTTATTTGAATAAGA
1 AATATTTATTTGAATAAGA
7408474 A
1 A
7408475 CTTTAATGAA
Statistics
Matches: 28, Mismatches: 4, Indels: 8
0.70 0.10 0.20
Matches are distributed among these distances:
15 1 0.04
16 11 0.39
17 1 0.04
18 4 0.14
19 11 0.39
ACGTcount: A:0.49, C:0.02, G:0.09, T:0.40
Consensus pattern (19 bp):
AATATTTATTTGAATAAGA
Found at i:7416111 original size:18 final size:19
Alignment explanation
Indices: 7416078--7416116 Score: 55
Period size: 18 Copynumber: 2.1 Consensus size: 19
7416068 TTTTTTTTAT
7416078 AAAATTACAAGTATAA-AA
1 AAAATTACAAGTATAATAA
7416096 AAAATTACAA-TCATAATAA
1 AAAATTACAAGT-ATAATAA
7416115 AA
1 AA
7416117 TATTGAAGTA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
17 1 0.05
18 14 0.74
19 4 0.21
ACGTcount: A:0.67, C:0.08, G:0.03, T:0.23
Consensus pattern (19 bp):
AAAATTACAAGTATAATAA
Found at i:7416255 original size:17 final size:16
Alignment explanation
Indices: 7416202--7416255 Score: 56
Period size: 16 Copynumber: 3.3 Consensus size: 16
7416192 TAGGTTGACA
*
7416202 AGATCTTAATTTTTTGT
1 AGATCTT-ATTTTTTCT
*
7416219 AGATCTTATTTTTACT
1 AGATCTTATTTTTTCT
*
7416235 -GATCTATTTTTTTTCT
1 AGATCT-TATTTTTTCT
7416251 AGATC
1 AGATC
7416256 CTAATTTAAA
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
15 5 0.16
16 15 0.48
17 11 0.35
ACGTcount: A:0.22, C:0.11, G:0.09, T:0.57
Consensus pattern (16 bp):
AGATCTTATTTTTTCT
Found at i:7418399 original size:17 final size:17
Alignment explanation
Indices: 7418360--7418400 Score: 50
Period size: 16 Copynumber: 2.5 Consensus size: 17
7418350 AATAATTTTT
* *
7418360 TAATAAAA-TATTTAAG
1 TAATAAAATTAATTAAA
7418376 T-ATAAAATTAATTAAA
1 TAATAAAATTAATTAAA
7418392 TAATAAAAT
1 TAATAAAAT
7418401 ACATACTTTA
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
15 6 0.29
16 8 0.38
17 7 0.33
ACGTcount: A:0.61, C:0.00, G:0.02, T:0.37
Consensus pattern (17 bp):
TAATAAAATTAATTAAA
Found at i:7420845 original size:20 final size:20
Alignment explanation
Indices: 7420822--7420862 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
7420812 ACAAAGAAAG
7420822 AATGTCCTAATTTAAGAATA
1 AATGTCCTAATTTAAGAATA
* * *
7420842 AATGTTCTAGTTTTAGAATA
1 AATGTCCTAATTTAAGAATA
7420862 A
1 A
7420863 GAGAAGCAGT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.41, C:0.07, G:0.12, T:0.39
Consensus pattern (20 bp):
AATGTCCTAATTTAAGAATA
Found at i:7424291 original size:2 final size:2
Alignment explanation
Indices: 7424284--7424316 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
7424274 TTCCTCCCTT
7424284 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
7424317 TGATCAACTT
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:7424782 original size:25 final size:24
Alignment explanation
Indices: 7424734--7424782 Score: 64
Period size: 24 Copynumber: 2.0 Consensus size: 24
7424724 ATATTAAACC
7424734 TAAAAATAATTATTTGAAATTTTT
1 TAAAAATAATTATTTGAAATTTTT
7424758 TAAAATATAATT-TTTAGGAAATTTT
1 TAAAA-ATAATTATTT--GAAATTTT
7424783 CAATTGATAT
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
24 8 0.36
25 6 0.27
26 8 0.36
ACGTcount: A:0.45, C:0.00, G:0.06, T:0.49
Consensus pattern (24 bp):
TAAAAATAATTATTTGAAATTTTT
Found at i:7426567 original size:20 final size:21
Alignment explanation
Indices: 7426512--7426568 Score: 62
Period size: 21 Copynumber: 2.6 Consensus size: 21
7426502 ATTTATTTTA
7426512 TATTTTAAAATATATAAAAAAAT
1 TATTTT-AAA-ATATAAAAAAAT
* *
7426535 TATATTATTAATAT-AAAAAAT
1 TATTTTA-AAATATAAAAAAAT
7426556 TATTTTAAAATAT
1 TATTTTAAAATAT
7426569 TTTAATTTTT
Statistics
Matches: 29, Mismatches: 4, Indels: 5
0.76 0.11 0.13
Matches are distributed among these distances:
20 5 0.17
21 13 0.45
22 5 0.17
23 6 0.21
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (21 bp):
TATTTTAAAATATAAAAAAAT
Found at i:7428011 original size:21 final size:20
Alignment explanation
Indices: 7427987--7428048 Score: 65
Period size: 21 Copynumber: 3.1 Consensus size: 20
7427977 TAAAAAATAT
7427987 ATTATTTATTATATATACTTA
1 ATTATTTATTATATATA-TTA
* *
7428008 ATTATTAATAATATAATATT-
1 ATTATTTATTATAT-ATATTA
*
7428028 ATTA-TTATTATTTATATTA
1 ATTATTTATTATATATATTA
7428047 AT
1 AT
7428049 CAATTACAAT
Statistics
Matches: 34, Mismatches: 5, Indels: 6
0.76 0.11 0.13
Matches are distributed among these distances:
18 5 0.15
19 8 0.24
20 4 0.12
21 14 0.41
22 3 0.09
ACGTcount: A:0.42, C:0.02, G:0.00, T:0.56
Consensus pattern (20 bp):
ATTATTTATTATATATATTA
Found at i:7428062 original size:16 final size:14
Alignment explanation
Indices: 7428041--7428078 Score: 51
Period size: 16 Copynumber: 2.6 Consensus size: 14
7428031 ATTATTATTT
7428041 ATATTAATCAATTACA
1 ATATTAAT-AATTA-A
7428057 ATATTAATAATTAA
1 ATATTAATAATTAA
7428071 A-ATTAATA
1 ATATTAATA
7428079 TATCAAAGTT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
13 7 0.32
14 2 0.09
15 5 0.23
16 8 0.36
ACGTcount: A:0.55, C:0.05, G:0.00, T:0.39
Consensus pattern (14 bp):
ATATTAATAATTAA
Found at i:7428065 original size:40 final size:40
Alignment explanation
Indices: 7427982--7428069 Score: 94
Period size: 40 Copynumber: 2.2 Consensus size: 40
7427972 TATTTTAAAA
* *
7427982 AATATATTATTTATTATATATACTTAATTATTAATAATAT
1 AATATATTATTTATTATATATACTTAATAATTAACAATAT
*
7428022 AATATTATTA-TTATTATTTATA-TTAATCAATT-ACAATATT
1 AATA-TATTATTTATTATATATACTTAAT-AATTAACAATA-T
7428062 AATA-ATTA
1 AATATATTA
7428070 AAATTAATAT
Statistics
Matches: 42, Mismatches: 3, Indels: 8
0.79 0.06 0.15
Matches are distributed among these distances:
38 4 0.10
39 10 0.24
40 23 0.55
41 5 0.12
ACGTcount: A:0.45, C:0.03, G:0.00, T:0.51
Consensus pattern (40 bp):
AATATATTATTTATTATATATACTTAATAATTAACAATAT
Found at i:7428886 original size:13 final size:13
Alignment explanation
Indices: 7428868--7428906 Score: 51
Period size: 13 Copynumber: 3.0 Consensus size: 13
7428858 ATAGATTTTC
*
7428868 AATATTGTGATAG
1 AATATTGTGATAA
* *
7428881 AATATTATGACAA
1 AATATTGTGATAA
7428894 AATATTGTGATAA
1 AATATTGTGATAA
7428907 TTTTTAAAAT
Statistics
Matches: 21, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
13 21 1.00
ACGTcount: A:0.46, C:0.03, G:0.15, T:0.36
Consensus pattern (13 bp):
AATATTGTGATAA
Found at i:7429248 original size:28 final size:30
Alignment explanation
Indices: 7429181--7429253 Score: 84
Period size: 29 Copynumber: 2.5 Consensus size: 30
7429171 AAAATTTGAC
7429181 AAAATT-AATTATTAAATTAAAATTATTCA
1 AAAATTAAATTATTAAATTAAAATTATTCA
*
7429210 AAAATTAAAATTATATAAATTATAA-TA-T-A
1 AAAATT-AAATTAT-TAAATTAAAATTATTCA
7429239 AAAATTAAATT-TTAA
1 AAAATTAAATTATTAA
7429254 TTTTTTCACG
Statistics
Matches: 40, Mismatches: 1, Indels: 9
0.80 0.02 0.18
Matches are distributed among these distances:
26 3 0.08
27 1 0.03
28 5 0.12
29 13 0.32
30 1 0.03
31 8 0.20
32 9 0.22
ACGTcount: A:0.59, C:0.01, G:0.00, T:0.40
Consensus pattern (30 bp):
AAAATTAAATTATTAAATTAAAATTATTCA
Found at i:7430116 original size:20 final size:23
Alignment explanation
Indices: 7430093--7430139 Score: 64
Period size: 23 Copynumber: 2.2 Consensus size: 23
7430083 TTTTATACTT
*
7430093 AAATTTAT-TTA-AAT-ATATCA
1 AAATTTATATTAGAATAATATAA
7430113 AAATTTATATTAGAATAATATAA
1 AAATTTATATTAGAATAATATAA
7430136 AAAT
1 AAAT
7430140 AAATTAATAA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
20 8 0.35
21 3 0.13
22 3 0.13
23 9 0.39
ACGTcount: A:0.55, C:0.02, G:0.02, T:0.40
Consensus pattern (23 bp):
AAATTTATATTAGAATAATATAA
Found at i:7433086 original size:17 final size:17
Alignment explanation
Indices: 7433066--7433100 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
7433056 AATTAAAATT
7433066 TATAATATTTTATTTGA
1 TATAATATTTTATTTGA
7433083 TATAATATTTTATTTGA
1 TATAATATTTTATTTGA
7433100 T
1 T
7433101 TTTGATTAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.34, C:0.00, G:0.06, T:0.60
Consensus pattern (17 bp):
TATAATATTTTATTTGA
Found at i:7433290 original size:20 final size:20
Alignment explanation
Indices: 7433248--7433290 Score: 52
Period size: 20 Copynumber: 2.1 Consensus size: 20
7433238 TTTTATACTT
*
7433248 AAATTTATTTAAATATATCA
1 AAATTTATTTAAATATATAA
*
7433268 AAATTTATATTAAA-ATTTAA
1 AAATTTAT-TTAAATATATAA
7433288 AAA
1 AAA
7433291 AATTAATAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
20 15 0.75
21 5 0.25
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.42
Consensus pattern (20 bp):
AAATTTATTTAAATATATAA
Found at i:7433884 original size:26 final size:30
Alignment explanation
Indices: 7433828--7433884 Score: 68
Period size: 31 Copynumber: 2.0 Consensus size: 30
7433818 TGAAATCAAT
*
7433828 TATTAAATTATACAAATAATTATTATATTTA
1 TATTAAATTATACAAAT-ATTAATATATTTA
7433859 TATTAAATT-TA-AAAT-TTAATAT-TTTA
1 TATTAAATTATACAAATATTAATATATTTA
7433885 AGTATAATTT
Statistics
Matches: 25, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
26 4 0.16
27 6 0.24
29 4 0.16
30 2 0.08
31 9 0.36
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.51
Consensus pattern (30 bp):
TATTAAATTATACAAATATTAATATATTTA
Found at i:7433979 original size:22 final size:22
Alignment explanation
Indices: 7433953--7434019 Score: 84
Period size: 22 Copynumber: 3.0 Consensus size: 22
7433943 TTATTAATAT
7433953 AAATCATATTTTTATTTTTTAA
1 AAATCATATTTTTATTTTTTAA
7433975 AAATCATA-TTTTATTTTTTTGAA
1 AAATCATATTTTTA-TTTTTT-AA
*
7433998 AAA-AATATTTTTTATTTTTTAA
1 AAATCATA-TTTTTATTTTTTAA
7434020 GAATTTTCCA
Statistics
Matches: 40, Mismatches: 1, Indels: 8
0.82 0.02 0.16
Matches are distributed among these distances:
21 5 0.12
22 19 0.47
23 11 0.28
24 5 0.12
ACGTcount: A:0.37, C:0.03, G:0.01, T:0.58
Consensus pattern (22 bp):
AAATCATATTTTTATTTTTTAA
Found at i:7434102 original size:32 final size:32
Alignment explanation
Indices: 7434065--7434148 Score: 102
Period size: 31 Copynumber: 2.7 Consensus size: 32
7434055 TTTATTAAAT
*
7434065 ATTTAATTTTTTGAATTTTTTAAAAAATA-TAT
1 ATTTAATTTTTT-AATTTTTTAAAAAATATTAA
*
7434097 TTTTAATTTTTTTAA-TTTTT-AAAAATATTAA
1 ATTTAA-TTTTTTAATTTTTTAAAAAATATTAA
*
7434128 ATTTAATTTTTTAATATTTTA
1 ATTTAATTTTTTAATTTTTTA
7434149 TTTTTAATTT
Statistics
Matches: 44, Mismatches: 4, Indels: 8
0.79 0.07 0.14
Matches are distributed among these distances:
30 15 0.34
31 16 0.36
32 7 0.16
33 6 0.14
ACGTcount: A:0.38, C:0.00, G:0.01, T:0.61
Consensus pattern (32 bp):
ATTTAATTTTTTAATTTTTTAAAAAATATTAA
Found at i:7434116 original size:31 final size:32
Alignment explanation
Indices: 7434065--7434148 Score: 102
Period size: 30 Copynumber: 2.7 Consensus size: 32
7434055 TTTATTAAAT
* *
7434065 ATTTAATTTTTTGAATTTTTTAAAAAATA-TAT
1 ATTTAATTTTTTTAA-TTTTTAAAAAATATTAA
*
7434097 TTTTAATTTTTTTAATTTTT-AAAAATATTAA
1 ATTTAATTTTTTTAATTTTTAAAAAATATTAA
7434128 ATTTAA-TTTTTTAATATTTTA
1 ATTTAATTTTTTTAAT-TTTTA
7434149 TTTTTAATTT
Statistics
Matches: 45, Mismatches: 4, Indels: 6
0.82 0.07 0.11
Matches are distributed among these distances:
30 16 0.36
31 16 0.36
32 13 0.29
ACGTcount: A:0.38, C:0.00, G:0.01, T:0.61
Consensus pattern (32 bp):
ATTTAATTTTTTTAATTTTTAAAAAATATTAA
Found at i:7434154 original size:22 final size:22
Alignment explanation
Indices: 7434105--7434158 Score: 63
Period size: 22 Copynumber: 2.5 Consensus size: 22
7434095 ATTTTTAATT
7434105 TTTTTAATTTTTAAAAATATTA
1 TTTTTAATTTTTAAAAATATTA
** * * *
7434127 AATTTAATTTTTTAATATTTTA
1 TTTTTAATTTTTAAAAATATTA
7434149 TTTTTAATTT
1 TTTTTAATTT
7434159 AATTTTTTGA
Statistics
Matches: 25, Mismatches: 7, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (22 bp):
TTTTTAATTTTTAAAAATATTA
Found at i:7434162 original size:27 final size:31
Alignment explanation
Indices: 7434127--7434184 Score: 88
Period size: 27 Copynumber: 2.0 Consensus size: 31
7434117 AAAAATATTA
7434127 AATTTAATTTTTT-A-A-TA-TTTTATTTTT
1 AATTTAATTTTTTGACATTATTTTTATTTTT
7434154 AATTTAATTTTTTGACATTATTTTTATTTTT
1 AATTTAATTTTTTGACATTATTTTTATTTTT
7434185 TCAAACTTTA
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
27 13 0.48
28 1 0.04
29 1 0.04
30 2 0.07
31 10 0.37
ACGTcount: A:0.28, C:0.02, G:0.02, T:0.69
Consensus pattern (31 bp):
AATTTAATTTTTTGACATTATTTTTATTTTT
Found at i:7434163 original size:12 final size:13
Alignment explanation
Indices: 7434124--7434165 Score: 50
Period size: 12 Copynumber: 3.2 Consensus size: 13
7434114 TTTAAAAATA
7434124 TTAAATTTAATTTT
1 TTAAATTTAA-TTT
*
7434138 TTAATATTTTATTT
1 TTAA-ATTTAATTT
7434152 TT-AATTTAATTT
1 TTAAATTTAATTT
7434164 TT
1 TT
7434166 TGACATTATT
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
12 10 0.40
13 1 0.04
14 9 0.36
15 5 0.20
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (13 bp):
TTAAATTTAATTT
Found at i:7435430 original size:2 final size:2
Alignment explanation
Indices: 7435423--7435447 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
7435413 ATACTTATTA
7435423 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 A
7435448 CATACATACA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:7443192 original size:21 final size:23
Alignment explanation
Indices: 7443164--7443219 Score: 98
Period size: 21 Copynumber: 2.5 Consensus size: 23
7443154 ATGATATTTT
7443164 TAAATATTTTATA-TTTAAAAAA
1 TAAATATTTTATATTTTAAAAAA
7443186 T-AATATTTTATATTTTAAAAAA
1 TAAATATTTTATATTTTAAAAAA
7443208 TAAATATTTTAT
1 TAAATATTTTAT
7443220 TAATTTTAGG
Statistics
Matches: 32, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
21 11 0.34
22 11 0.34
23 10 0.31
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (23 bp):
TAAATATTTTATATTTTAAAAAA
Found at i:7443220 original size:21 final size:21
Alignment explanation
Indices: 7443164--7443220 Score: 80
Period size: 22 Copynumber: 2.6 Consensus size: 21
7443154 ATGATATTTT
7443164 TAAATATTTTATATTTAAAAAA
1 TAAATATTTTAT-TTTAAAAAA
7443186 T-AATATTTTATATTTTAAAAAA
1 TAAATA-TTT-TATTTTAAAAAA
7443208 TAAATATTTTATT
1 TAAATATTTTATT
7443221 AATTTTAGGT
Statistics
Matches: 32, Mismatches: 0, Indels: 7
0.82 0.00 0.18
Matches are distributed among these distances:
21 8 0.25
22 17 0.53
23 7 0.22
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (21 bp):
TAAATATTTTATTTTAAAAAA
Found at i:7452280 original size:36 final size:37
Alignment explanation
Indices: 7452218--7452287 Score: 90
Period size: 36 Copynumber: 1.9 Consensus size: 37
7452208 ACTCACTTTA
*
7452218 ATTATATAATAATAAAATATACTTATT-TATTAATTC
1 ATTATATAATAAGAAAATATACTTATTATATTAATTC
* *
7452254 ATTATATAAT-AGAAAATTTAATTTATTATATTAA
1 ATTATATAATAAGAAAATAT-ACTTATTATATTAA
7452288 ATTAATAAAA
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
35 7 0.24
36 16 0.55
37 6 0.21
ACGTcount: A:0.49, C:0.03, G:0.01, T:0.47
Consensus pattern (37 bp):
ATTATATAATAAGAAAATATACTTATTATATTAATTC
Found at i:7454020 original size:62 final size:62
Alignment explanation
Indices: 7453948--7454075 Score: 238
Period size: 62 Copynumber: 2.1 Consensus size: 62
7453938 TTAAAGTGAG
7453948 ATATTTCTAGACACATGTAGTGTCTAAGTAAAAAGGTATTATTAGGTCACAAGTGTGATACA
1 ATATTTCTAGACACATGTAGTGTCTAAGTAAAAAGGTATTATTAGGTCACAAGTGTGATACA
* *
7454010 ATATTTCTAGACACATGTAGTGTCTAAGTAAGAAGGTATTATTAGGTCATAAGTGTGATACA
1 ATATTTCTAGACACATGTAGTGTCTAAGTAAAAAGGTATTATTAGGTCACAAGTGTGATACA
7454072 ATAT
1 ATAT
7454076 CTTTTTAGAA
Statistics
Matches: 64, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
62 64 1.00
ACGTcount: A:0.37, C:0.10, G:0.20, T:0.34
Consensus pattern (62 bp):
ATATTTCTAGACACATGTAGTGTCTAAGTAAAAAGGTATTATTAGGTCACAAGTGTGATACA
Found at i:7464499 original size:2 final size:2
Alignment explanation
Indices: 7464492--7464526 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
7464482 ATATGTATAC
7464492 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
7464527 CTTAGATCAA
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:0.51, C:0.00, G:0.49, T:0.00
Consensus pattern (2 bp):
AG
Found at i:7468161 original size:5 final size:6
Alignment explanation
Indices: 7468145--7468169 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
7468135 AGCTTAGCAG
7468145 TAAAAA TAAAAA TAAAAA TAAAAA T
1 TAAAAA TAAAAA TAAAAA TAAAAA T
7468170 CACACCTAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (6 bp):
TAAAAA
Found at i:7481788 original size:15 final size:15
Alignment explanation
Indices: 7481758--7481809 Score: 52
Period size: 15 Copynumber: 3.5 Consensus size: 15
7481748 CGTATTAATA
* *
7481758 ATTTTTAATTTTTTT
1 ATTTTTTATATTTTT
7481773 ATTGTTTTA-ATTTTT
1 ATT-TTTTATATTTTT
* *
7481788 AATTTTTATGTTTTT
1 ATTTTTTATATTTTT
7481803 ATTTTTT
1 ATTTTTT
7481810 CTTTTAAATT
Statistics
Matches: 30, Mismatches: 5, Indels: 4
0.77 0.13 0.10
Matches are distributed among these distances:
14 5 0.17
15 21 0.70
16 4 0.13
ACGTcount: A:0.19, C:0.00, G:0.04, T:0.77
Consensus pattern (15 bp):
ATTTTTTATATTTTT
Done.