Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167960.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_22, 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: 19587844
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Warning! 68000 characters in sequence are not A, C, G, or T
File 55 of 105
Found at i:10426393 original size:11 final size:11
Alignment explanation
Indices: 10426374--10426419 Score: 53
Period size: 11 Copynumber: 4.5 Consensus size: 11
10426364 TATTATTATT
*
10426374 ATTTATTTTTC
1 ATTTTTTTTTC
10426385 ATTTTTTTTTC
1 ATTTTTTTTTC
10426396 A--TTTTTTTC
1 ATTTTTTTTTC
*
10426405 ATTTTATTTT-
1 ATTTTTTTTTC
10426415 ATTTT
1 ATTTT
10426420 CTTTAGATAA
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
9 9 0.29
10 5 0.16
11 17 0.55
ACGTcount: A:0.15, C:0.07, G:0.00, T:0.78
Consensus pattern (11 bp):
ATTTTTTTTTC
Found at i:10426513 original size:58 final size:57
Alignment explanation
Indices: 10426446--10426829 Score: 488
Period size: 58 Copynumber: 6.6 Consensus size: 57
10426436 AAATATATAT
*
10426446 ATATTTTTGAGAAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAGCTTTTAAAAAA
1 ATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAGCTTTT-AAAAA
* *
10426504 ATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATAAACTTTCTAAAAA
1 ATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAGCTTT-TAAAAA
** *
10426562 ATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTGGAAATAA-ATTTTCAAAAAA
1 ATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAGCTTTT--AAAAA
* * *
10426620 ATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCTTTGAATATAAGCTTTCTAAAAA
1 ATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAGCTTT-TAAAAA
* * *
10426678 ATATTTTTG-GAGAAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAG-TTTTCAAAT
1 ATATTTTTGAG-GAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAGCTTTTAAAAA
* * * *
10426734 ATGGATTTTTGAGAAAAAGTTGAAAGTATCAATTTTCCTTAGAAACAAG-TTTTCAAAA
1 AT--ATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAGCTTTTAAAAA
* *
10426792 GTGAATTTTTGAGGAAAAGTTGAAAGTATTAATTTTCC
1 AT--ATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCC
10426830 CTGCACAAAA
Statistics
Matches: 293, Mismatches: 24, Indels: 18
0.87 0.07 0.05
Matches are distributed among these distances:
56 7 0.02
57 7 0.02
58 273 0.93
59 5 0.02
60 1 0.00
ACGTcount: A:0.42, C:0.07, G:0.14, T:0.38
Consensus pattern (57 bp):
ATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAGCTTTTAAAAA
Found at i:10426744 original size:174 final size:175
Alignment explanation
Indices: 10426446--10426829 Score: 546
Period size: 174 Copynumber: 2.2 Consensus size: 175
10426436 AAATATATAT
*
10426446 ATATTTTTGAGAAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAGCTTTTAAAAAAATATTTT
1 ATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAGCTTTTAAAAAAATATTTT
* *
10426511 TGAGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATAAACTTTCTAAAAAATATTTTTGAGGAA
66 TGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAACTTTCTAAAAAATATTTTTGAGAAA
* *
10426576 AAGTTGAAAGTATCAATTTTCCTTGGAAATAAATTTTCAAAA-AA
131 AAGTTGAAAGTATCAATTTTCCTTAGAAACAAATTTTCAAAAGAA
* * *
10426620 ATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCTTTGAATATAAGCTTTCT-AAAAAATATTT
1 ATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAGCTTT-TAAAAAAATATTT
* * * *
10426684 TTG-GAGAAAAGTTGAAAGTATCAATTTTTCTTAAAAAT-AAGTTT-TCAAATATGGATTTTTGA
65 TTGAG-GAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAACTTTCTAAAAAAT--ATTTTTGA
* **
10426746 GAAAAAGTTGAAAGTATCAATTTTCCTTAGAAACAAGTTTTCAAAAGTG
127 GAAAAAGTTGAAAGTATCAATTTTCCTTAGAAACAAATTTTCAAAAGAA
*
10426795 A-ATTTTTGAGGAAAAGTTGAAAGTATTAATTTTCC
1 ATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCC
10426830 CTGCACAAAA
Statistics
Matches: 188, Mismatches: 17, Indels: 10
0.87 0.08 0.05
Matches are distributed among these distances:
172 6 0.03
173 6 0.03
174 174 0.93
175 2 0.01
ACGTcount: A:0.42, C:0.07, G:0.14, T:0.38
Consensus pattern (175 bp):
ATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAGCTTTTAAAAAAATATTTT
TGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAACTTTCTAAAAAATATTTTTGAGAAA
AAGTTGAAAGTATCAATTTTCCTTAGAAACAAATTTTCAAAAGAA
Found at i:10427445 original size:22 final size:22
Alignment explanation
Indices: 10427405--10427446 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
10427395 TTGTATATAT
*
10427405 TTTATTTATTCATTCATGTTTA
1 TTTATTTATTAATTCATGTTTA
10427427 TTTACTTTATTAATT-ATGTT
1 TTTA-TTTATTAATTCATGTT
10427447 ATTCATATGC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
22 9 0.50
23 9 0.50
ACGTcount: A:0.24, C:0.07, G:0.05, T:0.64
Consensus pattern (22 bp):
TTTATTTATTAATTCATGTTTA
Found at i:10428914 original size:15 final size:15
Alignment explanation
Indices: 10428894--10428923 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
10428884 ATTATTAAAT
*
10428894 AACCGACCATAATCG
1 AACCGACCAAAATCG
10428909 AACCGACCAAAATCG
1 AACCGACCAAAATCG
10428924 GTTCGGTTTA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.43, C:0.33, G:0.13, T:0.10
Consensus pattern (15 bp):
AACCGACCAAAATCG
Found at i:10438832 original size:41 final size:40
Alignment explanation
Indices: 10438780--10439079 Score: 244
Period size: 41 Copynumber: 7.1 Consensus size: 40
10438770 GATTGTCAAC
* * *
10438780 GAGCAATTTATTTTCCAAAGTTGTGATGCCTCTTATTAGAG
1 GAGCCATTTATTTTTCAAAGTTGTGA-GCCTCTGATTAGAG
* * *
10438821 GAGCCATTTATTTTTCAAAGTCAT-TAAGCATCTGTTTAGAG
1 GAGCCATTTATTTTTCAAAGT--TGTGAGCCTCTGATTAGAG
* * * *
10438862 GAACCTTTATTTATTTTTCCAAAGTCGTGAGACTCTGCTTAGAG
1 GAGCC---ATTTATTTTT-CAAAGTTGTGAGCCTCTGATTAGAG
**
10438906 GAGCTTTTGTTTATTTTTTCAAAGTTGTTGAGCCTCT-ATTTAGAG
1 GAGC---CATTTA-TTTTTCAAAGTTG-TGAGCCTCTGA-TTAGAG
* * *
10438951 GAGCTTTATTTATTTTTCAAAGTTATTGGGCCTCTGATTAGAG
1 GAGC--CATTTATTTTTCAAAGTT-GTGAGCCTCTGATTAGAG
*
10438994 AAGCCATTTATTTTTCAAAGTTGTTGAGCCTCTGATTAGAG
1 GAGCCATTTATTTTTCAAAGTTG-TGAGCCTCTGATTAGAG
* * * *
10439035 AAGCCGTTTATTTTTCAAAGTCGTTGAGCCTCTAATTAGAG
1 GAGCCATTTATTTTTCAAAGTTG-TGAGCCTCTGATTAGAG
10439076 GAGC
1 GAGC
10439080 TTTATTCGTT
Statistics
Matches: 214, Mismatches: 29, Indels: 32
0.78 0.11 0.12
Matches are distributed among these distances:
41 108 0.50
42 2 0.01
43 30 0.14
44 45 0.21
45 29 0.14
ACGTcount: A:0.25, C:0.15, G:0.20, T:0.40
Consensus pattern (40 bp):
GAGCCATTTATTTTTCAAAGTTGTGAGCCTCTGATTAGAG
Found at i:10438904 original size:44 final size:43
Alignment explanation
Indices: 10438785--10438973 Score: 147
Period size: 44 Copynumber: 4.4 Consensus size: 43
10438775 TCAACGAGCA
* * * *
10438785 ATTTATTTTCCAAAGTTGTGATGCCTCT-TATTAGAGGAGCC---
1 ATTTATTTTTCAAAGTCGTGA-GACTCTGT-TTAGAGGAACCTTT
* *
10438826 ATTTATTTTTCAAAGTCATTA-AGCATCTGTTTAGAGGAACCTTT
1 ATTTATTTTTCAAAGTCGTGAGA-C-TCTGTTTAGAGGAACCTTT
* * *
10438870 ATTTATTTTTCCAAAGTCGTGAGACTCTGCTTAGAGGAGCTTTT
1 ATTTATTTTT-CAAAGTCGTGAGACTCTGTTTAGAGGAACCTTT
* * * * *
10438914 GTTTATTTTTTCAAAGTTGTTGAGCCTCTATTTAGAGG-AGCTTT
1 ATTTA-TTTTTCAAAGTCG-TGAGACTCTGTTTAGAGGAACCTTT
10438958 ATTTATTTTTCAAAGT
1 ATTTATTTTTCAAAGT
10438974 TATTGGGCCT
Statistics
Matches: 118, Mismatches: 20, Indels: 18
0.76 0.13 0.12
Matches are distributed among these distances:
40 1 0.01
41 30 0.25
42 1 0.01
43 11 0.09
44 44 0.37
45 30 0.25
46 1 0.01
ACGTcount: A:0.25, C:0.14, G:0.17, T:0.44
Consensus pattern (43 bp):
ATTTATTTTTCAAAGTCGTGAGACTCTGTTTAGAGGAACCTTT
Found at i:10439149 original size:75 final size:71
Alignment explanation
Indices: 10439016--10439153 Score: 186
Period size: 75 Copynumber: 1.9 Consensus size: 71
10439006 TTTCAAAGTT
* *
10439016 GTTGAGCCTCTGATTAGAGAAGCCGTTTATTTTTCAAAGTCGTTGAGCCTCTAATTAGAGGAGCT
1 GTTGAGCCTCTGATTAGAGAAGCCGTTTATTTTTCAAAGTCATTGAACCTCTAATTAGAGGAGCT
10439081 TTATTC
66 TTATTC
* * **
10439087 GTTGAGCCTCTGATTAGAGGAGCATTGTTTATGTTTTTCAAAGTCATTGAACCTCTGCTTAGAGG
1 GTTGAGCCTCTGATTAGAGAAGC--CGTTTA--TTTTTCAAAGTCATTGAACCTCTAATTAGAGG
10439152 AG
62 AG
10439154 TTTTGATCAA
Statistics
Matches: 57, Mismatches: 6, Indels: 4
0.85 0.09 0.06
Matches are distributed among these distances:
71 22 0.39
73 5 0.09
75 30 0.53
ACGTcount: A:0.24, C:0.16, G:0.24, T:0.36
Consensus pattern (71 bp):
GTTGAGCCTCTGATTAGAGAAGCCGTTTATTTTTCAAAGTCATTGAACCTCTAATTAGAGGAGCT
TTATTC
Found at i:10439420 original size:4 final size:4
Alignment explanation
Indices: 10439401--10439550 Score: 66
Period size: 4 Copynumber: 37.8 Consensus size: 4
10439391 AATTTTGTAT
* * *
10439401 TTTA TGTA TTTA -TTA TTTA TTTA TTTA -TTA TTACTA TTTA TTAA TATA
1 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TT--TA TTTA TTTA TTTA
* * * *
10439449 TATTA TTTTA TTTA TTTT TATTA TTTT TATTA TTTA TTTG TTGATA TATA
1 T-TTA -TTTA TTTA TTTA T-TTA TTTA T-TTA TTTA TTTA TT--TA TTTA
* * *
10439499 TGTA -TTA -TTA TTTA TCTA TTTA TATA -TTA -TTA -TTA -TTA -TTA
1 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA
*
10439540 TTTA TCTA TTT
1 TTTA TTTA TTT
10439551 TTACATATTA
Statistics
Matches: 113, Mismatches: 21, Indels: 24
0.72 0.13 0.15
Matches are distributed among these distances:
3 25 0.22
4 70 0.62
5 11 0.10
6 7 0.06
ACGTcount: A:0.29, C:0.02, G:0.03, T:0.67
Consensus pattern (4 bp):
TTTA
Found at i:10439431 original size:3 final size:3
Alignment explanation
Indices: 10439410--10439657 Score: 114
Period size: 3 Copynumber: 76.7 Consensus size: 3
10439400 TTTTATGTAT
* *
10439410 TTA TTA TTTA TTTA TTTA TTA TTA CTA TTTA TTA ATA TATA TTA TT-
1 TTA TTA -TTA -TTA -TTA TTA TTA TTA -TTA TTA TTA T-TA TTA TTA
* * *
10439456 TTA TTTA TTT TTA TTA TTT TTA TTA TTTA TTTG TTGA -TA TATA TGTA
1 TTA -TTA TTA TTA TTA TTA TTA TTA -TTA -TTA TT-A TTA T-TA T-TA
*
10439503 TTA TTA TTTA TCTA TTTA TATA TTA TTA TTA TTA TTA TTTA TCTA TTT
1 TTA TTA -TTA T-TA -TTA T-TA TTA TTA TTA TTA TTA -TTA T-TA TTA
*
10439551 TTA CATA TTA TTA TTTA TCTA TTA TTA TTA TTA TTA TTTA TCTA TTAA
1 TTA -TTA TTA TTA -TTA T-TA TTA TTA TTA TTA TTA -TTA T-TA TT-A
* * ** *
10439599 TTA ATA -AA TTA TCC TTA TTA TTA TCT- TTT TTA TT- TTA TTA TT-
1 TTA TTA TTA TTA TTA TTA TTA TTA T-TA TTA TTA TTA TTA TTA TTA
10439641 TTA TTA TTTA TT- TTA TT
1 TTA TTA -TTA TTA TTA TT
10439658 TTTTCTTTTC
Statistics
Matches: 194, Mismatches: 23, Indels: 56
0.71 0.08 0.21
Matches are distributed among these distances:
2 11 0.06
3 114 0.59
4 68 0.35
5 1 0.01
ACGTcount: A:0.29, C:0.04, G:0.01, T:0.66
Consensus pattern (3 bp):
TTA
Found at i:10439439 original size:54 final size:50
Alignment explanation
Indices: 10439337--10439600 Score: 123
Period size: 53 Copynumber: 5.1 Consensus size: 50
10439327 GCGGCCACTC
* * * * *
10439337 AATTTTGTATTTTTTGTATGTCTTATATTTTATATTTTTTATTTTATTTTACTT
1 AATTTTGTATTTTATGTATTTATTAT-TTTT-TATTTATTATTCTA-TTTA-TT
10439391 AATTTTGTATTTTATGTATTTATTATTTATTTATTTATTATTACTATTTATT
1 AATTTTGTATTTTATGTATTTATTATTT-TTTATTTATTATT-CTATTTATT
* * *
10439443 AATATATAT-TATTTTATTTATTT-TTA-TTATT-TTTATTATT-TATTTGTT
1 AAT-T-T-TGTATTTTATGTATTTATTATTTTTTATTTATTATTCTATTTATT
* * * * * *
10439491 GATATATATGTATTATTATTTATCTATTTATATATTA-TTATTATTATTATTTATCT
1 -A-AT-TTTGTATT-TTATGTATTTA-TTATTTTTTATTTATTATT-CTATTTAT-T
* ** * *
10439547 ATTTTTACATATTAT-TATTTATCTATTATTATTA-TTATTATT-TATCTATT
1 AATTTTGTATTTTATGTATTTAT-TATT-TT-TTATTTATTATTCTATTTATT
10439597 AATT
1 AATT
10439601 AATAAATTAT
Statistics
Matches: 169, Mismatches: 22, Indels: 42
0.73 0.09 0.18
Matches are distributed among these distances:
48 8 0.05
49 5 0.03
50 27 0.16
51 16 0.09
52 15 0.09
53 47 0.28
54 42 0.25
55 8 0.05
56 1 0.01
ACGTcount: A:0.28, C:0.03, G:0.03, T:0.66
Consensus pattern (50 bp):
AATTTTGTATTTTATGTATTTATTATTTTTTATTTATTATTCTATTTATT
Found at i:10439465 original size:9 final size:9
Alignment explanation
Indices: 10439362--10439487 Score: 56
Period size: 9 Copynumber: 14.1 Consensus size: 9
10439352 GTATGTCTTA
10439362 TATTTTATAT
1 TATTTTAT-T
10439372 T-TTTTATTT
1 TATTTTA-TT
*
10439381 TATTTTACT
1 TATTTTATT
* *
10439390 TAATTT-TG
1 TATTTTATT
*
10439398 TATTTTATG
1 TATTTTATT
10439407 TA-TTTA-T
1 TATTTTATT
10439414 TA-TTTATT
1 TATTTTATT
10439422 TA-TTTA-T
1 TATTTTATT
*
10439429 TATTACTATT
1 TATT-TTATT
10439439 TATTAATATATAT
1 TATT--T-TAT-T
10439452 TATTTTATT
1 TATTTTATT
10439461 TATTTT-TAT
1 TATTTTAT-T
10439470 TATTTT-TAT
1 TATTTTAT-T
10439479 TA-TTTATT
1 TATTTTATT
10439487 T
1 T
10439488 GTTGATATAT
Statistics
Matches: 96, Mismatches: 8, Indels: 26
0.74 0.06 0.20
Matches are distributed among these distances:
7 9 0.09
8 23 0.24
9 39 0.41
10 15 0.16
11 2 0.02
12 3 0.03
13 5 0.05
ACGTcount: A:0.26, C:0.02, G:0.02, T:0.71
Consensus pattern (9 bp):
TATTTTATT
Found at i:10439513 original size:44 final size:46
Alignment explanation
Indices: 10439403--10439601 Score: 146
Period size: 47 Copynumber: 4.3 Consensus size: 46
10439393 TTTTGTATTT
*
10439403 TATGTATTTATTATTTATTTATTTATTATTA-CTATTTATTAATATA
1 TATGTATTTATTATTTA-TTATTTATTATTATTTATTTATTAATATA
* *
10439449 TAT-TATTTTATTTATTTTTATTATTT-TTATTATTTATTTGTTGATATA
1 TATGTA-TTTA-TTA--TTTATTATTTATTATTATTTATTTATTAATATA
* *
10439497 TATGTA-TTATTATTTATCTATTTATATATTA-TTA-TTATTATTATT
1 TATGTATTTATTATTTAT-TATTTAT-TATTATTTATTTATTAATATA
* * *
10439542 TATCTATTT-TTACATATTATTATTTATCTATTA-TTA-TTATTATTATT
1 TATGTATTTATT--AT-TTATTATTTAT-TATTATTTATTTATTAATATA
* *
10439589 TATCTATTAATTA
1 TATGTATTTATTA
10439602 ATAAATTATC
Statistics
Matches: 129, Mismatches: 10, Indels: 28
0.77 0.06 0.17
Matches are distributed among these distances:
44 5 0.04
45 21 0.16
46 17 0.13
47 53 0.41
48 27 0.21
49 6 0.05
ACGTcount: A:0.30, C:0.03, G:0.02, T:0.65
Consensus pattern (46 bp):
TATGTATTTATTATTTATTATTTATTATTATTTATTTATTAATATA
Found at i:10439618 original size:44 final size:47
Alignment explanation
Indices: 10439523--10439622 Score: 127
Period size: 47 Copynumber: 2.2 Consensus size: 47
10439513 TCTATTTATA
* * *
10439523 TATTATTATTATTATTATTTATCTATTTTTACATATTATTATTTATC
1 TATTATTATTATTATTATTTATCTATTATTACATATAATTATTCATC
*
10439570 TATTATTATTATTATTATTTATCTATTAATTA-ATA-AATTA-TCCT-
1 TATTATTATTATTATTATTTATCTATT-ATTACATATAATTATTCATC
10439614 TATTATTAT
1 TATTATTAT
10439623 CTTTTTTATT
Statistics
Matches: 48, Mismatches: 4, Indels: 5
0.84 0.07 0.09
Matches are distributed among these distances:
44 9 0.19
45 2 0.04
46 4 0.08
47 30 0.62
48 3 0.06
ACGTcount: A:0.33, C:0.06, G:0.00, T:0.61
Consensus pattern (47 bp):
TATTATTATTATTATTATTTATCTATTATTACATATAATTATTCATC
Found at i:10439641 original size:8 final size:8
Alignment explanation
Indices: 10439616--10439659 Score: 52
Period size: 8 Copynumber: 5.2 Consensus size: 8
10439606 ATTATCCTTA
10439616 TTATTATCT
1 TTATTAT-T
*
10439625 TTTTTATT
1 TTATTATT
10439633 TTATTATT
1 TTATTATT
10439641 TTATTATT
1 TTATTATT
*
10439649 TATTTTATT
1 T-TATTATT
10439658 TT
1 TT
10439660 TTCTTTTCTT
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
8 18 0.58
9 13 0.42
ACGTcount: A:0.20, C:0.02, G:0.00, T:0.77
Consensus pattern (8 bp):
TTATTATT
Found at i:10439666 original size:12 final size:12
Alignment explanation
Indices: 10439626--10439666 Score: 55
Period size: 12 Copynumber: 3.3 Consensus size: 12
10439616 TTATTATCTT
10439626 TTTTATTTTATTA
1 TTTTATTTT-TTA
*
10439639 TTTTATTATTTA
1 TTTTATTTTTTA
*
10439651 TTTTATTTTTTC
1 TTTTATTTTTTA
10439663 TTTT
1 TTTT
10439667 CTTCTTTCCT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
12 17 0.68
13 8 0.32
ACGTcount: A:0.17, C:0.02, G:0.00, T:0.80
Consensus pattern (12 bp):
TTTTATTTTTTA
Found at i:10440043 original size:19 final size:19
Alignment explanation
Indices: 10440021--10440072 Score: 86
Period size: 19 Copynumber: 2.7 Consensus size: 19
10440011 TCCAGATTTC
10440021 GGTTGAATTTTTCGACGAA
1 GGTTGAATTTTTCGACGAA
*
10440040 GGTTAAATTTTTCGACGAA
1 GGTTGAATTTTTCGACGAA
*
10440059 GGTTGAGTTTTTCG
1 GGTTGAATTTTTCG
10440073 GTGACTTTTT
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
19 30 1.00
ACGTcount: A:0.23, C:0.10, G:0.27, T:0.40
Consensus pattern (19 bp):
GGTTGAATTTTTCGACGAA
Found at i:10440562 original size:3 final size:3
Alignment explanation
Indices: 10440556--10440625 Score: 62
Period size: 3 Copynumber: 24.7 Consensus size: 3
10440546 TTTATTTTTT
*
10440556 TTA TTA TTA TTA -TA TTA -GA TTA TTA TTA TTA TTA TTA TTA TTTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA -TTA
*
10440600 TT- TT- TTCA TTT TTA TT- TTA TT- TTA TT
1 TTA TTA TT-A TTA TTA TTA TTA TTA TTA TT
10440626 TTTTTACTTT
Statistics
Matches: 56, Mismatches: 4, Indels: 14
0.76 0.05 0.19
Matches are distributed among these distances:
2 11 0.20
3 40 0.71
4 5 0.09
ACGTcount: A:0.27, C:0.01, G:0.01, T:0.70
Consensus pattern (3 bp):
TTA
Found at i:10440628 original size:6 final size:6
Alignment explanation
Indices: 10440544--10440628 Score: 50
Period size: 6 Copynumber: 13.8 Consensus size: 6
10440534 TCCCAGATTT
* ** * * *
10440544 TTTTTA TTTTT- TTTATTA TTATTA TATTAGA TTATTA TTATTA TTATTA
1 TTTTTA TTTTTA TTT-TTA TTTTTA T-TTTTA TTTTTA TTTTTA TTTTTA
10440593 TTATTTA TTTTTTCA TTTTTA -TTTTA -TTTTA TTTTT
1 TT-TTTA -TTTTT-A TTTTTA TTTTTA TTTTTA TTTTT
10440629 TTACTTTAGA
Statistics
Matches: 64, Mismatches: 8, Indels: 14
0.74 0.09 0.16
Matches are distributed among these distances:
5 13 0.20
6 32 0.50
7 16 0.25
8 3 0.05
ACGTcount: A:0.24, C:0.01, G:0.01, T:0.74
Consensus pattern (6 bp):
TTTTTA
Found at i:10440790 original size:59 final size:58
Alignment explanation
Indices: 10440658--10441043 Score: 415
Period size: 58 Copynumber: 6.6 Consensus size: 58
10440648 AAAAATATAT
*
10440658 ATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTTCTT-GAAATTAAACTTTCTAAAAA
1 ATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTTCTTAGAAA-TAAACTTTCAAAAAA
* *
10440716 ATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTTCTTGGAAATAAATTTTCCAAAAAA
1 ATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTTCTTAGAAATAAACTTT-CAAAAAA
* * * *
10440775 ATATTTTTGAAGAAAAGTTGAAAGTATCAATTTTCCTT-GAAAATAAGCTTTCCAAAAA
1 ATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTTCTTAG-AAATAAACTTTCAAAAAA
* * * * *
10440833 ATATTTTTGGGGAAAAGTTGAAAGTATCAA-TTTTCTCAAAAATAAGCTTTCAAAAAT
1 ATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTTCTTAGAAATAAACTTTCAAAAAA
** * * ** **
10440890 GGATTTTTGA-GAAAAGGTTGAAAGTATCAATTTTCCTTAGAAACAAGTTTTCAAAAGTG
1 ATATTTTTGAGGAAAA-GTTGAAAGTATCAATTTTTCTTAGAAATAAACTTTCAAAA-AA
* * * *
10440949 A-ATTTTTGAGGAAAAGTTGAAAGTATCAA-TTTTCCTCGAAATTAAAAGTTTCAAAATAT
1 ATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTTCTTAGAAA-T-AAACTTTCAAAA-AA
* * *
10441008 ATATTTTTGGGGAAAAGTTAAAAATATCAATTTTTC
1 ATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTTC
10441044 CTACACAAAA
Statistics
Matches: 279, Mismatches: 37, Indels: 21
0.83 0.11 0.06
Matches are distributed among these distances:
56 5 0.02
57 51 0.18
58 122 0.44
59 71 0.25
60 25 0.09
61 5 0.02
ACGTcount: A:0.41, C:0.08, G:0.14, T:0.37
Consensus pattern (58 bp):
ATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTTCTTAGAAATAAACTTTCAAAAAA
Found at i:10440806 original size:117 final size:114
Alignment explanation
Indices: 10440656--10441041 Score: 436
Period size: 117 Copynumber: 3.3 Consensus size: 114
10440646 CAAAAAATAT
* *
10440656 ATATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTTCTTGAAATTAAACTTTCTAAAAAATATT
1 ATATATTTTTGAAGAAAAGTTGAAAGTATCAATTTTCCTTGAAA-TAAACTTTCTAAAAAATATT
* *
10440721 TTTGAGGAAAAGTTGAAAGTATCAATTTTTCTTGGAAATAAATTTTCCAAAA
65 TTTGAGGAAAAGTTGAAAGTATCAA-TTTTCTTAGAAATAAACTTT-CAAAA
* * *
10440773 AAATATTTTTGAAGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATAAGCTTTCCAAAAAATATT
1 ATATATTTTTGAAGAAAAGTTGAAAGTATCAATTTTCCTTG-AAATAAACTTTCTAAAAAATATT
* * * *
10440838 TTTGGGGAAAAGTTGAAAGTATCAATTTTCTCAAAAATAAGCTTTCAAAA
65 TTTGAGGAAAAGTTGAAAGTATCAATTTTCTTAGAAATAAACTTTCAAAA
** * * * *
10440888 ATGGATTTTTG-AGAAAAGGTTGAAAGTATCAATTTTCCTTAGAAA-CAAGTTT-TCAAAAGTGA
1 ATATATTTTTGAAGAAAA-GTTGAAAGTATCAATTTTCCTT-GAAATAAACTTTCTAAAAAAT--
* * *
10440950 ATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTCGAAATTAAAAGTTTCAAAA
62 ATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCTTAGAAA-T-AAACTTTCAAAA
** * *
10441005 TATATATTTTTGGGGAAAAGTTAAAAATATCAATTTT
1 -ATATATTTTTGAAGAAAAGTTGAAAGTATCAATTTT
10441042 TCCTACACAA
Statistics
Matches: 228, Mismatches: 32, Indels: 17
0.82 0.12 0.06
Matches are distributed among these distances:
113 5 0.02
114 10 0.04
115 73 0.32
116 17 0.07
117 90 0.39
118 28 0.12
119 5 0.02
ACGTcount: A:0.41, C:0.08, G:0.14, T:0.37
Consensus pattern (114 bp):
ATATATTTTTGAAGAAAAGTTGAAAGTATCAATTTTCCTTGAAATAAACTTTCTAAAAAATATTT
TTGAGGAAAAGTTGAAAGTATCAATTTTCTTAGAAATAAACTTTCAAAA
Found at i:10457032 original size:45 final size:45
Alignment explanation
Indices: 10456974--10457062 Score: 162
Period size: 45 Copynumber: 2.0 Consensus size: 45
10456964 GATAAGGGTG
10456974 TTTAAAACTAATAAAATTAGTTTTTTATTTTATTGTTTAGATAAT
1 TTTAAAACTAATAAAATTAGTTTTTTATTTTATTGTTTAGATAAT
10457019 TTTAAATA-TAATAAAATTAGTTTTTTATTTTATTGTTTAGATAA
1 TTTAAA-ACTAATAAAATTAGTTTTTTATTTTATTGTTTAGATAA
10457063 AAATTTGAGA
Statistics
Matches: 43, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
45 42 0.98
46 1 0.02
ACGTcount: A:0.38, C:0.01, G:0.07, T:0.54
Consensus pattern (45 bp):
TTTAAAACTAATAAAATTAGTTTTTTATTTTATTGTTTAGATAAT
Found at i:10464289 original size:16 final size:18
Alignment explanation
Indices: 10464257--10464289 Score: 52
Period size: 16 Copynumber: 1.9 Consensus size: 18
10464247 TGCTTTGATT
10464257 AATAGCTTTTATTGCATG
1 AATAGCTTTTATTGCATG
10464275 AATA-CTTTT-TTGCAT
1 AATAGCTTTTATTGCAT
10464290 CTTTGGACAT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 6 0.40
17 5 0.33
18 4 0.27
ACGTcount: A:0.27, C:0.12, G:0.12, T:0.48
Consensus pattern (18 bp):
AATAGCTTTTATTGCATG
Found at i:10469393 original size:469 final size:473
Alignment explanation
Indices: 10468782--10469726 Score: 1323
Period size: 482 Copynumber: 2.0 Consensus size: 473
10468772 TTTTCTATCT
** * *
10468782 TATATAAATATATAAAATTCGAAACCTCTAATAAGAAAAGAAATAATCTGATATGAATCGTCTAC
1 TATATAAATATATAAAAACCAAAACCTCTAATAAGAAAAGAAATAATCTGATATGAATAGTCTAC
* *
10468847 ATTTTCGACATGTGGACAATCTAAAAATTGACATGTGGTTAGAATTAATTATGCATTTAAAATTT
66 AATTTCAACATGTGGACAATCTAAAAATTGACATGT-GTTAGAATTAATTATGCATTTAAAATTT
*
10468912 AAAATTTAGAATTTCATGGTAAAATAAATTTAATTTAAAATATCTTATTTCCATTATTATAAAAC
130 AAAATTTAGAATTTAATGGTAAAATAAATTTAATTTAAAATATCTTATTTCCATTATTATAAAAC
10468977 ACATTCAATG-A-T-TTTTAAATGACTAATTGACTAAAGTAAACTAAGAACCAAATCAATAGTAA
195 ACATTCAATGTATTATTTTAAATGACTAATTGACTAAAGTAAACTAAGAACCAAA-CAATAGTAA
* *
10469039 TAGTATTTTAAACTAAAAGTAAGTTATGCTAAACAATTAGAATAATCAAGTATAATGTGTATTTA
259 TAGTATTTTAAACTAAAAGTAAGTTATGCTAAACAATTAGAATAATCAAGTATAATATGTATTCA
* *
10469104 ATGAGCTGGGGAGAAATGAAAAAAGAGATTTTGAAATTAATTTAATAATGATAATAAAATTAATT
324 ATGAGCTAGGGAGAAATGAAAAAAGAGATTTTGAAATTAATTTAATAATGATAATAAAATGAATT
* ** * * *
10469169 TGATTTAACATACTAAAATTAATTTTAATTGATTTGATCTTTTTTTTAATTATTTTAAAATTAAT
389 TCATTTAACATACTAAAATTAATTTTAATCAATTTGATC-ATCTATTAATTATTTTAAAATTAAT
10469234 A-TAT-TATATACATATTTCC
453 ATTATATATATACATATTTCC
* *
10469253 TATATAAATATATAAAAACCAAAACCTCTAATTA-AAAGGAAATAATCT-A-ATGTAGATAGTCT
1 TATATAAATATATAAAAACCAAAACCTCTAATAAGAAAAGAAATAATCTGATATG-A-ATAGTCT
* * * * *
10469315 ACAATTTCAATATGTGGATACTCTAAAAAATTGATATGT-TTAGAATTAATTATGCATTTCAAAT
64 ACAATTTCAACATGTGGACAATCT-AAAAATTGACATGTGTTAGAATTAATTATGCATTTAAAAT
**
10469379 TTAAAATTTAGAATTTAATGGTAATTTAAATTTAATTTAAAATATCTTATTTCCATTATTATAAA
128 TTAAAATTTAGAATTTAATGGTAAAATAAATTTAATTTAAAATATCTTATTTCCATTATTATAAA
* *
10469444 ACATATTCAATGATTCTTATTACATTTATTTTAAATGACTAATTGACTATAGTAAACTAAGAACC
193 ACACATTCAATG--------T--A-TTATTTTAAATGACTAATTGACTAAAGTAAACTAAGAACC
* * * *
10469509 AAACAATAGTAATAGTATTTTAAATTAAAAGTAATTTATGCTAGACAATTAGAATAGTCAAGTAT
247 AAACAATAGTAATAGTATTTTAAACTAAAAGTAAGTTATGCTAAACAATTAGAATAATCAAGTAT
* * ** *
10469574 AATATGTATTCAATGTGTTAGGGAGAAATGAAAAACTAGATTTTGAAATTAATTTAATAATGTTA
312 AATATGTATTCAATGAGCTAGGGAGAAATGAAAAAAGAGATTTTGAAATTAATTTAATAATGATA
*
10469639 ATAAAATGAATTTCATTTGACATACTAAAATTAATTTTAATCAATTTGATCATCTATTAATTATT
377 ATAAAATGAATTTCATTTAACATACTAAAATTAATTTTAATCAATTTGATCATCTATTAATTATT
*
10469704 TTAAAATTAGTATTATATATATA
442 TTAAAATTAATATTATATATATA
10469727 GCTTAAAAGG
Statistics
Matches: 416, Mismatches: 39, Indels: 26
0.86 0.08 0.05
Matches are distributed among these distances:
468 3 0.01
469 99 0.24
470 38 0.09
471 43 0.10
480 1 0.00
481 22 0.05
482 165 0.40
483 45 0.11
ACGTcount: A:0.44, C:0.08, G:0.10, T:0.38
Consensus pattern (473 bp):
TATATAAATATATAAAAACCAAAACCTCTAATAAGAAAAGAAATAATCTGATATGAATAGTCTAC
AATTTCAACATGTGGACAATCTAAAAATTGACATGTGTTAGAATTAATTATGCATTTAAAATTTA
AAATTTAGAATTTAATGGTAAAATAAATTTAATTTAAAATATCTTATTTCCATTATTATAAAACA
CATTCAATGTATTATTTTAAATGACTAATTGACTAAAGTAAACTAAGAACCAAACAATAGTAATA
GTATTTTAAACTAAAAGTAAGTTATGCTAAACAATTAGAATAATCAAGTATAATATGTATTCAAT
GAGCTAGGGAGAAATGAAAAAAGAGATTTTGAAATTAATTTAATAATGATAATAAAATGAATTTC
ATTTAACATACTAAAATTAATTTTAATCAATTTGATCATCTATTAATTATTTTAAAATTAATATT
ATATATATACATATTTCC
Found at i:10473558 original size:29 final size:29
Alignment explanation
Indices: 10473516--10473572 Score: 96
Period size: 29 Copynumber: 2.0 Consensus size: 29
10473506 ATCAATTATT
*
10473516 TATGTTTCCAACTTAATTATTTACATTAC
1 TATGATTCCAACTTAATTATTTACATTAC
*
10473545 TATGATTCCAACTTGATTATTTACATTA
1 TATGATTCCAACTTAATTATTTACATTA
10473573 TAATAAATAT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 26 1.00
ACGTcount: A:0.32, C:0.16, G:0.05, T:0.47
Consensus pattern (29 bp):
TATGATTCCAACTTAATTATTTACATTAC
Found at i:10475835 original size:217 final size:218
Alignment explanation
Indices: 10475572--10475971 Score: 538
Period size: 219 Copynumber: 1.8 Consensus size: 218
10475562 ACATTTATGA
* * *
10475572 AAAATGATACAAATTTTACGATTAATCTCACCTATTTACATTAACAATTTTTCTTTGA-ATTTTT
1 AAAATCATACAAATGTTACGATTAATCTCACCTATTTACATTAACAAATTTTCTTTGAGATTTTT
*
10475636 TTATTTGAATG-TATCAAAAT-TTTTACATTTTTAATTTAAATATTTACATAA-ATATAATATAT
66 TTATTTGAA-GATATC-AAATCTTTTACATTTTTAACTTAAATATTTACATAATAT-TAATATAT
* *
10475698 TTTTACACTTGCTCTTATTTTTCATTAATTTTAAAATTATCATAACTCTTTCTTATATAGTGTGT
128 TTTTACACTTGCTCTTATCTTTCATTAAGTTTAAAATTATCATAACTCTTTCTTATATAGTGTGT
10475763 TAAGACACTTTTAACGCATTTTGTGT
193 TAAGACACTTTTAACGCATTTTGTGT
* * * *
10475789 AAAATCATATAAATGTTACGATTATTCTCACCTGTTTACGTTAACAAATTTTCTTTGATGATTTT
1 AAAATCATACAAATGTTACGATTAATCTCACCTATTTACATTAACAAATTTTCTTTGA-GATTTT
* * * * * * *
10475854 TTTATTTGTAGATATCAATTCTTTTACTTTTTTAACTTAATTATTTACGTTATATTAATATCTTT
65 TTTATTTGAAGATATCAAATCTTTTACATTTTTAACTTAAATATTTACATAATATTAATATATTT
* * * * *
10475919 TTACATTTGTTCTTATCTTTCATTACGTTTAAAATTATTATAACTTTTTCTTA
130 TTACACTTGCTCTTATCTTTCATTAAGTTTAAAATTATCATAACTCTTTCTTA
10475972 AAATGTTACA
Statistics
Matches: 156, Mismatches: 22, Indels: 8
0.84 0.12 0.04
Matches are distributed among these distances:
217 51 0.33
218 4 0.03
219 99 0.63
220 2 0.01
ACGTcount: A:0.32, C:0.12, G:0.06, T:0.51
Consensus pattern (218 bp):
AAAATCATACAAATGTTACGATTAATCTCACCTATTTACATTAACAAATTTTCTTTGAGATTTTT
TTATTTGAAGATATCAAATCTTTTACATTTTTAACTTAAATATTTACATAATATTAATATATTTT
TACACTTGCTCTTATCTTTCATTAAGTTTAAAATTATCATAACTCTTTCTTATATAGTGTGTTAA
GACACTTTTAACGCATTTTGTGT
Found at i:10484603 original size:37 final size:38
Alignment explanation
Indices: 10484525--10484603 Score: 115
Period size: 37 Copynumber: 2.1 Consensus size: 38
10484515 AAGTTGAAAA
* * * *
10484525 TAATAAGATATTACATGCATTCTATCTTATGCACCTTT
1 TAATAAGATATTACATACATTCTACCTTATGCACATCT
10484563 TAATAA-ATATTACATACATTCTACCTTATGCACATCT
1 TAATAAGATATTACATACATTCTACCTTATGCACATCT
10484600 TAAT
1 TAAT
10484604 GGTAATGTTA
Statistics
Matches: 37, Mismatches: 4, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
37 31 0.84
38 6 0.16
ACGTcount: A:0.35, C:0.19, G:0.05, T:0.41
Consensus pattern (38 bp):
TAATAAGATATTACATACATTCTACCTTATGCACATCT
Found at i:10488127 original size:11 final size:11
Alignment explanation
Indices: 10488113--10488185 Score: 60
Period size: 11 Copynumber: 6.5 Consensus size: 11
10488103 GAATCCATTT
10488113 AAAGAAAAGAA
1 AAAGAAAAGAA
**
10488124 AAAGAAAAGGG
1 AAAGAAAAGAA
10488135 AAAGAATAAGAA
1 AAAGAA-AAGAA
10488147 AAA-ATAAAGAA
1 AAAGA-AAAGAA
* *
10488158 AATGAACA-AA
1 AAAGAAAAGAA
*
10488168 TAAGAAAATGAA
1 AAAGAAAA-GAA
10488180 AAAGAA
1 AAAGAA
10488186 GAACAAAAGA
Statistics
Matches: 47, Mismatches: 10, Indels: 9
0.71 0.15 0.14
Matches are distributed among these distances:
10 7 0.15
11 25 0.53
12 15 0.32
ACGTcount: A:0.74, C:0.01, G:0.18, T:0.07
Consensus pattern (11 bp):
AAAGAAAAGAA
Found at i:10488145 original size:28 final size:27
Alignment explanation
Indices: 10488114--10488185 Score: 85
Period size: 28 Copynumber: 2.6 Consensus size: 27
10488104 AATCCATTTA
10488114 AAGAAAAGAAAAAGAAAAGGGAA-AGAAT
1 AAGAAAAGAAAAAGAAAA-GGAACA-AAT
*
10488142 AAGAAAA-AATAAAGAAAATGAACAAAT
1 AAGAAAAGAA-AAAGAAAAGGAACAAAT
10488169 AAGAAAATGAAAAAGAA
1 AAGAAAA-GAAAAAGAA
10488186 GAACAAAAGA
Statistics
Matches: 39, Mismatches: 1, Indels: 8
0.81 0.02 0.17
Matches are distributed among these distances:
27 15 0.38
28 22 0.56
29 2 0.05
ACGTcount: A:0.74, C:0.01, G:0.18, T:0.07
Consensus pattern (27 bp):
AAGAAAAGAAAAAGAAAAGGAACAAAT
Found at i:10488155 original size:17 final size:17
Alignment explanation
Indices: 10488135--10488182 Score: 64
Period size: 16 Copynumber: 2.9 Consensus size: 17
10488125 AAGAAAAGGG
10488135 AAAGAATAA-GAAAAAAT
1 AAAGAA-AATGAAAAAAT
*
10488152 AAAGAAAATGAACAAAT
1 AAAGAAAATGAAAAAAT
10488169 -AAGAAAATGAAAAA
1 AAAGAAAATGAAAAA
10488183 GAAGAACAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
16 15 0.54
17 13 0.46
ACGTcount: A:0.75, C:0.02, G:0.12, T:0.10
Consensus pattern (17 bp):
AAAGAAAATGAAAAAAT
Found at i:10488174 original size:16 final size:15
Alignment explanation
Indices: 10488146--10488188 Score: 59
Period size: 16 Copynumber: 2.7 Consensus size: 15
10488136 AAGAATAAGA
10488146 AAAAATAAAGAAAATG
1 AAAAAT-AAGAAAATG
10488162 AACAAATAAGAAAATG
1 AA-AAATAAGAAAATG
*
10488178 AAAAAGAAGAA
1 AAAAATAAGAA
10488189 CAAAAGAGAA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
15 8 0.32
16 13 0.52
17 4 0.16
ACGTcount: A:0.74, C:0.02, G:0.14, T:0.09
Consensus pattern (15 bp):
AAAAATAAGAAAATG
Found at i:10489105 original size:23 final size:23
Alignment explanation
Indices: 10489057--10489105 Score: 64
Period size: 24 Copynumber: 2.1 Consensus size: 23
10489047 CTTTTTCTAT
* *
10489057 TTTATTTTGAAAAAATTAATGCC
1 TTTATTTAGAAAAAATTAATGAC
10489080 TTTATTTAAGAAAAAATTAAT-AC
1 TTTATTT-AGAAAAAATTAATGAC
10489103 TTT
1 TTT
10489106 CAACTTTTTC
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
23 11 0.48
24 12 0.52
ACGTcount: A:0.43, C:0.06, G:0.06, T:0.45
Consensus pattern (23 bp):
TTTATTTAGAAAAAATTAATGAC
Found at i:10489285 original size:62 final size:61
Alignment explanation
Indices: 10489215--10489395 Score: 153
Period size: 62 Copynumber: 3.0 Consensus size: 61
10489205 ATTTAAAAAA
*
10489215 AAATTTTTTTGTGTA-TTCTAAGGAAAA-TTGATACTTTCAA-TTTTTCCTTAAACATTTTTTG
1 AAATTTTTTT-T-TATTTCTAA-GAAAATTTGATACTTTCAACTTTTTCCTAAAACATTTTTTG
* * *
10489276 AAATATTTTTTTTATTTTTAAGAAAATTTGATACTTTCAACTTTTTCGTAAAACCTTTTTT-
1 AAAT-TTTTTTTTATTTCTAAGAAAATTTGATACTTTCAACTTTTTCCTAAAACATTTTTTG
* * * * * *
10489337 ATCATTATTTTATTA-TT-TAAAAAAATTAG-TA-TTTACAACTTTTTCTTAAAACCTTTTTT
1 A-AATT-TTTTTTTATTTCTAAGAAAATTTGATACTTT-CAACTTTTTCCTAAAACATTTTTT
10489396 TTTTATTTTT
Statistics
Matches: 104, Mismatches: 9, Indels: 16
0.81 0.07 0.12
Matches are distributed among these distances:
58 3 0.03
59 25 0.24
60 17 0.16
61 27 0.26
62 32 0.31
ACGTcount: A:0.32, C:0.10, G:0.06, T:0.52
Consensus pattern (61 bp):
AAATTTTTTTTTATTTCTAAGAAAATTTGATACTTTCAACTTTTTCCTAAAACATTTTTTG
Found at i:10489455 original size:16 final size:16
Alignment explanation
Indices: 10489424--10489465 Score: 57
Period size: 16 Copynumber: 2.5 Consensus size: 16
10489414 AATTCACTAA
10489424 AAAAATGAATAAATAACT
1 AAAAA-GAA-AAATAACT
*
10489442 AATAAGAAAAATAACT
1 AAAAAGAAAAATAACT
10489458 AAAAAGAA
1 AAAAAGAA
10489466 GAAAAAAATA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
16 15 0.68
17 3 0.14
18 4 0.18
ACGTcount: A:0.71, C:0.05, G:0.07, T:0.17
Consensus pattern (16 bp):
AAAAAGAAAAATAACT
Found at i:10490132 original size:21 final size:20
Alignment explanation
Indices: 10490094--10490131 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
10490084 CTAAAAAAAA
10490094 TTTGCTTCTTTGTTTTTTAC
1 TTTGCTTCTTTGTTTTTTAC
10490114 TTTGCTT-TCTTGTTTTTT
1 TTTGCTTCT-TTGTTTTTT
10490132 TTTTTTACTT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
19 1 0.06
20 16 0.94
ACGTcount: A:0.03, C:0.13, G:0.11, T:0.74
Consensus pattern (20 bp):
TTTGCTTCTTTGTTTTTTAC
Found at i:10493296 original size:17 final size:17
Alignment explanation
Indices: 10493276--10493370 Score: 64
Period size: 17 Copynumber: 5.6 Consensus size: 17
10493266 AGATTTTCAT
* *
10493276 ATTCGCAAGAATTGGAG
1 ATTCACAAGAATTAGAG
* * **
10493293 ATTCATAAGATTTTTAG
1 ATTCACAAGAATTAGAG
**
10493310 ATTTGCAAGAATTAGAG
1 ATTCACAAGAATTAGAG
* **
10493327 ATTCACAAAAATTTTAG
1 ATTCACAAGAATTAGAG
* *
10493344 AATCACAAAAATTAGAG
1 ATTCACAAGAATTAGAG
*
10493361 ATTCGCAAGA
1 ATTCACAAGA
10493371 TTTTCAAATT
Statistics
Matches: 56, Mismatches: 22, Indels: 0
0.72 0.28 0.00
Matches are distributed among these distances:
17 56 1.00
ACGTcount: A:0.43, C:0.11, G:0.17, T:0.29
Consensus pattern (17 bp):
ATTCACAAGAATTAGAG
Found at i:10493303 original size:34 final size:34
Alignment explanation
Indices: 10493265--10493396 Score: 115
Period size: 34 Copynumber: 3.9 Consensus size: 34
10493255 AAGGATTTGC
* * *
10493265 AAGATTTTCATATTCGCAAGAATTGGAGATTCAT
1 AAGATTTTCAGATTCGCAAGAATTAGAGATTCAA
* *
10493299 AAGATTTTTAGATTTGCAAGAATTAGAGATTCACA
1 AAGATTTTCAGATTCGCAAGAATTAGAGATTCA-A
* * * * **
10493334 AAAATTTT-AGAATCACAAAAATTAGAGATTCGC
1 AAGATTTTCAGATTCGCAAGAATTAGAGATTCAA
* * *
10493367 AAGATTTTCAAATTCGTAAG-ATTGGAGATT
1 AAGATTTTCAGATTCGCAAGAATTAGAGATT
10493397 TGCAGTTTTA
Statistics
Matches: 77, Mismatches: 19, Indels: 5
0.76 0.19 0.05
Matches are distributed among these distances:
33 16 0.21
34 54 0.70
35 7 0.09
ACGTcount: A:0.40, C:0.10, G:0.17, T:0.33
Consensus pattern (34 bp):
AAGATTTTCAGATTCGCAAGAATTAGAGATTCAA
Found at i:10493619 original size:45 final size:46
Alignment explanation
Indices: 10493506--10493624 Score: 123
Period size: 46 Copynumber: 2.6 Consensus size: 46
10493496 TTTGCATTTG
* * * *
10493506 AAAAACTTCTAGAGATTTACAACTAAAATTTCAAAGATTTTTGTTCA
1 AAAAACTT-TAGAGATTTACATCCAAAATTTCAAAGATTCTTATTCA
* * * *
10493553 AAAAACTTTAGTGTTTTACATCCAATATTTCAAAGGTTCTTATTC-
1 AAAAACTTTAGAGATTTACATCCAAAATTTCAAAGATTCTTATTCA
* * *
10493598 AAAAACTTTAGGGATTCACATCAAAAA
1 AAAAACTTTAGAGATTTACATCCAAAA
10493625 AATTTTAAGA
Statistics
Matches: 59, Mismatches: 13, Indels: 2
0.80 0.18 0.03
Matches are distributed among these distances:
45 22 0.37
46 29 0.49
47 8 0.14
ACGTcount: A:0.41, C:0.14, G:0.09, T:0.35
Consensus pattern (46 bp):
AAAAACTTTAGAGATTTACATCCAAAATTTCAAAGATTCTTATTCA
Found at i:10494737 original size:17 final size:17
Alignment explanation
Indices: 10494715--10494747 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
10494705 TTTAAAGCCT
10494715 TTTCTCTTTTTTTTTTC
1 TTTCTCTTTTTTTTTTC
10494732 TTTCTCTTTTTTTTTT
1 TTTCTCTTTTTTTTTT
10494748 TAGCTCCTCT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.00, C:0.15, G:0.00, T:0.85
Consensus pattern (17 bp):
TTTCTCTTTTTTTTTTC
Found at i:10496590 original size:40 final size:40
Alignment explanation
Indices: 10496546--10496627 Score: 103
Period size: 40 Copynumber: 2.0 Consensus size: 40
10496536 AAATCTTAAA
*
10496546 TTTTTAAAAAATTTCCAAGAC-ACCATGTAAAACCCTAGAT
1 TTTTTAAAAAA-TTCCAAGACTACCAAGTAAAACCCTAGAT
** * *
10496586 TTTTTACTAAATTCCAAGACTTCCAAGTAAAACCTTAGAT
1 TTTTTAAAAAATTCCAAGACTACCAAGTAAAACCCTAGAT
10496626 TT
1 TT
10496628 ATAATGACTT
Statistics
Matches: 36, Mismatches: 5, Indels: 2
0.84 0.12 0.05
Matches are distributed among these distances:
39 9 0.25
40 27 0.75
ACGTcount: A:0.39, C:0.20, G:0.07, T:0.34
Consensus pattern (40 bp):
TTTTTAAAAAATTCCAAGACTACCAAGTAAAACCCTAGAT
Found at i:10497544 original size:64 final size:64
Alignment explanation
Indices: 10497439--10497582 Score: 218
Period size: 64 Copynumber: 2.3 Consensus size: 64
10497429 AATTCATAAG
* * *
10497439 TCTTTTGAGTA-GAATCTATTTTTAATGTTGAGATTTGTAAGACCTCTGGGCATAATCTTTAAA
1 TCTTTTGGGTATGATTCTATTTTTAATGTTGAGATTTATAAGACCTCTGGGCATAATCTTTAAA
* **
10497502 TCTTTTGGGTATGATTCTATTTTTAGTGTTGAGATTTATAAGACCTCTGGGTGTAATCTTTAAA
1 TCTTTTGGGTATGATTCTATTTTTAATGTTGAGATTTATAAGACCTCTGGGCATAATCTTTAAA
*
10497566 TCTTTTAGGTATGATTC
1 TCTTTTGGGTATGATTC
10497583 GTAAGTCTTT
Statistics
Matches: 73, Mismatches: 7, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
63 10 0.14
64 63 0.86
ACGTcount: A:0.25, C:0.10, G:0.19, T:0.46
Consensus pattern (64 bp):
TCTTTTGGGTATGATTCTATTTTTAATGTTGAGATTTATAAGACCTCTGGGCATAATCTTTAAA
Found at i:10498441 original size:43 final size:42
Alignment explanation
Indices: 10498325--10498463 Score: 122
Period size: 43 Copynumber: 3.3 Consensus size: 42
10498315 AAATCACTTG
* ** * *
10498325 GTGGTGATATCCGAGTATTCAAATAGACATTTGCATTCACTTG
1 GTGGTGATATCCGAGTA-TCCAATCTACATTTGCATTCATTTA
* *
10498368 GTGGTG--ATCCGAGTATCCCAGTCTTCATTTGCATTCATTTA
1 GTGGTGATATCCGAGTAT-CCAATCTACATTTGCATTCATTTA
* * *
10498409 GTGGTGATATCTGAGTATCCATATCTAAATTTGCATCTC-TTCA
1 GTGGTGATATCCGAGTATCCA-ATCTACATTTGCAT-TCATTTA
*
10498452 GTGGTGAAATCC
1 GTGGTGATATCC
10498464 ATCATTGCAT
Statistics
Matches: 77, Mismatches: 14, Indels: 10
0.76 0.14 0.10
Matches are distributed among these distances:
40 1 0.01
41 32 0.42
42 3 0.04
43 39 0.51
44 2 0.03
ACGTcount: A:0.24, C:0.19, G:0.20, T:0.37
Consensus pattern (42 bp):
GTGGTGATATCCGAGTATCCAATCTACATTTGCATTCATTTA
Found at i:10498531 original size:43 final size:43
Alignment explanation
Indices: 10498478--10498559 Score: 110
Period size: 43 Copynumber: 1.9 Consensus size: 43
10498468 TTGCATTCAC
* **
10498478 TCGATGGTGATATCCAAGTATGTATATCTAAATTTGCATTTTT
1 TCGATAGTGATATCCAAGTATCCATATCTAAATTTGCATTTTT
** *
10498521 TCGATAGTGATATCTGAGTATCCATATCTGAATTTGCAT
1 TCGATAGTGATATCCAAGTATCCATATCTAAATTTGCAT
10498560 CTCTTCAGTG
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
43 33 1.00
ACGTcount: A:0.28, C:0.13, G:0.17, T:0.41
Consensus pattern (43 bp):
TCGATAGTGATATCCAAGTATCCATATCTAAATTTGCATTTTT
Found at i:10498555 original size:115 final size:117
Alignment explanation
Indices: 10498412--10498653 Score: 389
Period size: 118 Copynumber: 2.1 Consensus size: 117
10498402 TCATTTAGTG
10498412 GTGATATCTGAGTATCCATATCTAAATTTGCATCTCTTCAGTGGTGAAATCC-A-TCATTGCATT
1 GTGATATCTGAGTATCCATATCTAAATTTGCATCTCTTCAGTGGTGAAATCCAAGTCATTGCATT
* ** * *
10498475 CACTCGATGGTGATATCCAAGTATGTATATCTAAATTTGCATTTTTTCGATA
66 CACTCAATGGTGATATCCAAGTATCCATATCTAAATTTGCATCTCTTCGATA
*
10498527 GTGATATCTGAGTATCCATATCTGAATTTGCATCTCTTCAGTGGTGAAATCCAAAGTCATTGCAT
1 GTGATATCTGAGTATCCATATCTAAATTTGCATCTCTTCAGTGGTGAAATCC-AAGTCATTGCAT
* *
10498592 TCACTCAATGGTGATATCCAAGTATCCATATCTAAATTTGCATCTCTTCGGTG
65 TCACTCAATGGTGATATCCAAGTATCCATATCTAAATTTGCATCTCTTCGATA
10498645 GTGATATCT
1 GTGATATCT
10498654 AAAGATACTT
Statistics
Matches: 116, Mismatches: 8, Indels: 3
0.91 0.06 0.02
Matches are distributed among these distances:
115 51 0.44
117 1 0.01
118 64 0.55
ACGTcount: A:0.27, C:0.19, G:0.17, T:0.38
Consensus pattern (117 bp):
GTGATATCTGAGTATCCATATCTAAATTTGCATCTCTTCAGTGGTGAAATCCAAGTCATTGCATT
CACTCAATGGTGATATCCAAGTATCCATATCTAAATTTGCATCTCTTCGATA
Found at i:10498634 original size:75 final size:76
Alignment explanation
Indices: 10498527--10498672 Score: 215
Period size: 75 Copynumber: 1.9 Consensus size: 76
10498517 TTTTTCGATA
** *
10498527 GTGATATCTGAGTATCCATATCTGAATTTGCATCTCTTCAGTGGTGAAATCCAAAG-T-CATTGC
1 GTGATATCCAAGTATCCATATCTAAATTTGCATCTCTTCAGTGGTGAAATCCAAAGATAC-TTGC
10498590 ATTCACTCAATG
65 ATTCACTCAATG
* * *
10498602 GTGATATCCAAGTATCCATATCTAAATTTGCATCTCTTCGGTGGTGATATCTAAAGATACTTGCA
1 GTGATATCCAAGTATCCATATCTAAATTTGCATCTCTTCAGTGGTGAAATCCAAAGATACTTGCA
10498667 TTCACT
66 TTCACT
10498673 TGGTGTTGAT
Statistics
Matches: 63, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
75 50 0.79
76 12 0.19
77 1 0.02
ACGTcount: A:0.28, C:0.20, G:0.16, T:0.36
Consensus pattern (76 bp):
GTGATATCCAAGTATCCATATCTAAATTTGCATCTCTTCAGTGGTGAAATCCAAAGATACTTGCA
TTCACTCAATG
Found at i:10499015 original size:45 final size:45
Alignment explanation
Indices: 10498908--10499287 Score: 286
Period size: 46 Copynumber: 8.3 Consensus size: 45
10498898 TTTTCATTTG
* * * * * **
10498908 AATTTATTTTTAAAAGTTGTTAACCCTTTGCTTAAAAAAACTTTCA
1 AATTTATTTTCAAAAGTCG-TCAGCCTTTGCTTAAAAGAGTTTTCA
* ** *
10498954 ATTTTATTTTTTAAAGTCATCACGCCTTTGCTT-AAAGAGTTTTCA
1 AATTTATTTTCAAAAGTCGTCA-GCCTTTGCTTAAAAGAGTTTTCA
* *
10498999 AATTTATTTTCAAAAGTTGTGGAGCCTTTGCTTAAAAGAG-TTTCA
1 AATTTATTTTCAAAAGTCGT-CAGCCTTTGCTTAAAAGAGTTTTCA
* * * * *
10499044 AATTTATTTTCAAAAGTTGTTTAGTCTTTACTTAAAAAAGTTTTCA
1 AATTTATTTTCAAAAGTCG-TCAGCCTTTGCTTAAAAGAGTTTTCA
* * ** * *
10499090 AATTTATTTTC-AAAGTTGTGGAATCTTTGCTT-AATGAAGCTTTCA
1 AATTTATTTTCAAAAGTCGT-CAGCCTTTGCTTAAAAG-AGTTTTCA
* ** ** * *
10499135 AACTTATTTTTTAAAGTTATTGAGCATTTTGCTTAAAAGAG-TTTCA
1 AATTTATTTTCAAAAG-TCGTCAGC-CTTTGCTTAAAAGAGTTTTCA
* * *
10499181 AATTTATTTTCAAAAGTCGTTCAGTCTTTACTTAAAGGAGTTTTCA
1 AATTTATTTTCAAAAGTCG-TCAGCCTTTGCTTAAAAGAGTTTTCA
* *
10499227 AATTTATTTTCAAAAGTCGTCAAGCCTTTACTTAAAAGGGCTTTT-A
1 AATTTATTTTCAAAAGTCGTC-AGCCTTTGCTTAAAAGAG-TTTTCA
*
10499273 CATTTATTTTCAAAA
1 AATTTATTTTCAAAA
10499288 ATTGTAAAGC
Statistics
Matches: 272, Mismatches: 47, Indels: 30
0.78 0.13 0.09
Matches are distributed among these distances:
44 3 0.01
45 122 0.45
46 129 0.47
47 15 0.06
48 3 0.01
ACGTcount: A:0.32, C:0.12, G:0.12, T:0.44
Consensus pattern (45 bp):
AATTTATTTTCAAAAGTCGTCAGCCTTTGCTTAAAAGAGTTTTCA
Found at i:10499207 original size:137 final size:135
Alignment explanation
Indices: 10498979--10499240 Score: 398
Period size: 137 Copynumber: 1.9 Consensus size: 135
10498969 GTCATCACGC
* * *
10498979 CTTTGCTTAAAGAGTTTTCAAATTTATTTTCAAAAGTTGTGGAGCCTTTGCTTAAAAGAGTTTCA
1 CTTTGCTTAAAGAGCTTTCAAACTTATTTTCAAAAGTTATGGAGCCTTTGCTTAAAAGAGTTTCA
* *
10499044 AATTTATTTTCAAAAGTTGTTTAGTCTTTACTTAAAAAAGTTTTCAAATTTATTTTCAAAGTTGT
66 AATTTATTTTCAAAAGTCGTTCAGTCTTTACTTAAAAAAGTTTTCAAATTTATTTTCAAAGTTGT
10499109 GGAAT
131 GGAAT
* ** * *
10499114 CTTTGCTTAATGAAGCTTTCAAACTTATTTTTTAAAGTTATTGAGCATTTTGCTTAAAAGAGTTT
1 CTTTGCTTAAAG-AGCTTTCAAACTTATTTTCAAAAGTTATGGAGC-CTTTGCTTAAAAGAGTTT
**
10499179 CAAATTTATTTTCAAAAGTCGTTCAGTCTTTACTTAAAGGAGTTTTCAAATTTATTTTCAAA
64 CAAATTTATTTTCAAAAGTCGTTCAGTCTTTACTTAAAAAAGTTTTCAAATTTATTTTCAAA
10499241 AGTCGTCAAG
Statistics
Matches: 113, Mismatches: 12, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
135 11 0.10
136 27 0.24
137 75 0.66
ACGTcount: A:0.32, C:0.11, G:0.13, T:0.45
Consensus pattern (135 bp):
CTTTGCTTAAAGAGCTTTCAAACTTATTTTCAAAAGTTATGGAGCCTTTGCTTAAAAGAGTTTCA
AATTTATTTTCAAAAGTCGTTCAGTCTTTACTTAAAAAAGTTTTCAAATTTATTTTCAAAGTTGT
GGAAT
Found at i:10500903 original size:64 final size:64
Alignment explanation
Indices: 10500810--10500971 Score: 211
Period size: 64 Copynumber: 2.6 Consensus size: 64
10500800 ATAATCCTTG
** *
10500810 CATAAAAAATTTATAGAGGATTATTGAAGGCATTTTTAGTAGAAAACGCCTTGAAAAATCCCCT
1 CATAAAAAATGGATAGGGGATTATTGAAGGCATTTTTAGTAGAAAACGCCTTGAAAAATCCCCT
* * * * * **
10500874 CATAAAAAATGGATAGGGGATTATTGAAGGCATTTTTGGTAGACAATGCCTTGAATACTCCTTT
1 CATAAAAAATGGATAGGGGATTATTGAAGGCATTTTTAGTAGAAAACGCCTTGAAAAATCCCCT
*
10500938 CATAAAAAATGGA-A-GTGATTATTGAAGGCATTTT
1 CATAAAAAATGGATAGGGGATTATTGAAGGCATTTT
10500972 CTACCAAAAA
Statistics
Matches: 87, Mismatches: 11, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
62 19 0.22
63 1 0.01
64 67 0.77
ACGTcount: A:0.38, C:0.12, G:0.19, T:0.31
Consensus pattern (64 bp):
CATAAAAAATGGATAGGGGATTATTGAAGGCATTTTTAGTAGAAAACGCCTTGAAAAATCCCCT
Found at i:10505399 original size:62 final size:60
Alignment explanation
Indices: 10505096--10505399 Score: 229
Period size: 62 Copynumber: 4.9 Consensus size: 60
10505086 TAAAAATGCA
** * * * * *
10505096 TTCAATAATCCCCTTT-AATTTTTTAAAATAAATTATTGAAGGTGTTTT-TATAGAAAACGCC
1 TTCAATAAT--CCTTTCAATTTTTTAAAA-GGATTATTCAAGGTATTTTCTGTAAAAAACACC
* * **
10505157 TTCAATAAT-CTTCTCCATTTTTATCAGGGGATTATTCAAGGTATTTTCTG-AAAAAACACC
1 TTCAATAATCCTT-TCAATTTTT-TAAAAGGATTATTCAAGGTATTTTCTGTAAAAAACACC
** ** * * *
10505217 TTCAATAATCCCCTCTAATTTTTTAAAAAAATTATTGAAGGTATTTTTTTTGTAGAAAACACC
1 TTCAATAATCCTTTC-AATTTTTTAAAAGGATTATTCAAGGTA--TTTTCTGTAAAAAACACC
** * *** * *
10505280 TTCAATAATCCTTTCTTTTTTTTAATAAGGGATTATTCAAGGCATTTTCTACCAAAAACGCT
1 TTCAATAATCCTTTCAATTTTTTAA-AA-GGATTATTCAAGGTATTTTCTGTAAAAAACACC
*
10505342 TTCAATAATCCTTTGCAATTTTTTAGAGAGGATTATTCAAGGTATTTTCTGTAAAAAA
1 TTCAATAATCCTTT-CAATTTTTTA-AAAGGATTATTCAAGGTATTTTCTGTAAAAAA
10505400 AATACCTTCA
Statistics
Matches: 186, Mismatches: 44, Indels: 25
0.73 0.17 0.10
Matches are distributed among these distances:
58 3 0.02
59 1 0.01
60 54 0.29
61 19 0.10
62 64 0.34
63 33 0.18
64 12 0.06
ACGTcount: A:0.34, C:0.15, G:0.11, T:0.41
Consensus pattern (60 bp):
TTCAATAATCCTTTCAATTTTTTAAAAGGATTATTCAAGGTATTTTCTGTAAAAAACACC
Found at i:10505932 original size:61 final size:61
Alignment explanation
Indices: 10505754--10505930 Score: 182
Period size: 61 Copynumber: 2.8 Consensus size: 61
10505744 AATAGAGATC
* * * *
10505754 ATTATTGAAGGTGTTTTTTATAAAAAAAACTACCTTCAATAATTTTC-GTTAAAATTTAGAGGAG
1 ATTATTGAAGGCG-TTTTTAT--CAAAAAC-ACCTTCAATAATCTCCTGTTAAAATTTAGAGGAG
* * *
10505818 ATTATTGAATGCGTTTTTAGTCAAAAACATCTTCAATAATCTCCTTGTTAAAATTTA-AGGGG
1 ATTATTGAAGGCGTTTTTA-TCAAAAACACCTTCAATAATCTCC-TGTTAAAATTTAGAGGAG
*
10505880 ATTATTGAAGGC-TTGTTT-TCAGAAAACACCTTCAATAATCTCCTGATAAAA
1 ATTATTGAAGGCGTT-TTTATCA-AAAACACCTTCAATAATCTCCTGTTAAAA
10505931 ATAGAGATCA
Statistics
Matches: 98, Mismatches: 10, Indels: 14
0.80 0.08 0.11
Matches are distributed among these distances:
60 10 0.10
61 35 0.36
62 24 0.24
63 17 0.17
64 12 0.12
ACGTcount: A:0.37, C:0.12, G:0.14, T:0.37
Consensus pattern (61 bp):
ATTATTGAAGGCGTTTTTATCAAAAACACCTTCAATAATCTCCTGTTAAAATTTAGAGGAG
Found at i:10511039 original size:13 final size:13
Alignment explanation
Indices: 10511021--10511057 Score: 56
Period size: 13 Copynumber: 2.8 Consensus size: 13
10511011 CTTCTCAATG
10511021 TCTTTATATATGT
1 TCTTTATATATGT
*
10511034 TCTTTACATATGT
1 TCTTTATATATGT
*
10511047 TTTTTATATAT
1 TCTTTATATAT
10511058 TCATTTTTAT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
13 21 1.00
ACGTcount: A:0.24, C:0.08, G:0.05, T:0.62
Consensus pattern (13 bp):
TCTTTATATATGT
Found at i:10512584 original size:161 final size:161
Alignment explanation
Indices: 10512204--10512937 Score: 771
Period size: 161 Copynumber: 4.6 Consensus size: 161
10512194 TTTGTTTACA
* * * * * * * * *
10512204 ACTTTTTATGCTGTTACAAGGTAAAAATGCAAATTTACAATTATTGTTCTATTTTAATAGTTTTG
1 ACTTTTTGTGCCGTTAAAAGGCAAAAATACAAATTTGCTATTATTGTTCTATTTTAACAGTTTGG
* * * * * ** *
10512269 ATAGTTTCAATACATGATATTAAATTTATCCAAATTATTAAACTTAATTTTCACAATTG--ATGT
66 ATAGCTTCAATACATGATATTAAACTTGTCCAAATGATTGAACTTGGTTTCCACAATTGATATGT
*
10512332 GTGAAAAAGTTATTATTTACATCTATTTAGG
131 GTGAAAAAGTTATTATTTACATCTATTTAAG
* * * *
10512363 ACTTTTTGTGCCGTTAATAGGTAAAAACACAACTTTGCTATTATTGTTCTATTTTAACAGTTTGG
1 ACTTTTTGTGCCGTTAAAAGGCAAAAATACAAATTTGCTATTATTGTTCTATTTTAACAGTTTGG
* *
10512428 ATAGCTCCAATACATGATATTAAACTTGTCCAAATGATTGAACTTGGTTTCCACAGTTGATATGT
66 ATAGCTTCAATACATGATATTAAACTTGTCCAAATGATTGAACTTGGTTTCCACAATTGATATGT
* * *
10512493 TTGAAAAAGTTATTGTTTACATCTGTTTAAG
131 GTGAAAAAGTTATTATTTACATCTATTTAAG
* * * * * * * * *
10512524 ATTTTTTGTGCTGTTAAGAGGCAAACATGCAAATTTGTTGTTATTATTCTATTTTAACAGTTTGC
1 ACTTTTTGTGCCGTTAAAAGGCAAAAATACAAATTTGCTATTATTGTTCTATTTTAACAGTTTGG
*** *
10512589 ATAGCTTCAATACATGATATTAAACTTGTTGGAATAATTGAACTTGGTTTCCACAATTGATATGT
66 ATAGCTTCAATACATGATATTAAACTTGTCCAAATGATTGAACTTGGTTTCCACAATTGATATGT
* ** * *
10512654 GTGAAAAAAGCTAACATTTACATCTGTTTAGG
131 GTG-AAAAAGTTATTATTTACATCTATTTAAG
* * * **
10512686 ACTTTTTATGCCGTTAAAAGGC-AAAATGCAAATTTGATATTATTGTTCTATTTTAATGGTTTGG
1 ACTTTTTGTGCCGTTAAAAGGCAAAAATACAAATTTGCTATTATTGTTCTATTTTAACAGTTTGG
* * ** ***
10512750 ATAGCTTCAATTCATGATATTAAACTTATCCAAATGATTGAACTTGGTTTTTATGGTTGATATGT
66 ATAGCTTCAATACATGATATTAAACTTGTCCAAATGATTGAACTTGGTTTCCACAATTGATATGT
***
10512815 GTGAAAAAGTT-TT-TTGTTTGTCTATTTAAG
131 GTGAAAAAGTTATTATT-TACATCTATTTAAG
* * ** * * *
10512845 ACTATTTT-TACCATTAAAAAACAAAAATACAAATTTGCTATTATTATTTTATTTTAACAGTTTA
1 ACT-TTTTGTGCCGTTAAAAGGCAAAAATACAAATTTGCTATTATTGTTCTATTTTAACAGTTTG
*
10512909 AATCA-CTTCAATACATGATATTAAACTTG
65 GAT-AGCTTCAATACATGATATTAAACTTG
10512938 ATAGTTTTAT
Statistics
Matches: 475, Mismatches: 93, Indels: 13
0.82 0.16 0.02
Matches are distributed among these distances:
158 2 0.00
159 125 0.26
160 69 0.15
161 238 0.50
162 41 0.09
ACGTcount: A:0.33, C:0.11, G:0.14, T:0.42
Consensus pattern (161 bp):
ACTTTTTGTGCCGTTAAAAGGCAAAAATACAAATTTGCTATTATTGTTCTATTTTAACAGTTTGG
ATAGCTTCAATACATGATATTAAACTTGTCCAAATGATTGAACTTGGTTTCCACAATTGATATGT
GTGAAAAAGTTATTATTTACATCTATTTAAG
Found at i:10513999 original size:30 final size:33
Alignment explanation
Indices: 10513941--10514000 Score: 90
Period size: 33 Copynumber: 1.9 Consensus size: 33
10513931 ATACAAACAC
10513941 CACTAAATTACCAACGATTGTGCTTATAAATGT
1 CACTAAATTACCAACGATTGTGCTTATAAATGT
*
10513974 CACTAAATTAGCAAC-ATT-T-CTTATAAA
1 CACTAAATTACCAACGATTGTGCTTATAAA
10514001 GCACTGCTAT
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
30 8 0.31
31 1 0.04
32 3 0.12
33 14 0.54
ACGTcount: A:0.40, C:0.18, G:0.08, T:0.33
Consensus pattern (33 bp):
CACTAAATTACCAACGATTGTGCTTATAAATGT
Found at i:10521142 original size:124 final size:125
Alignment explanation
Indices: 10520902--10521161 Score: 294
Period size: 124 Copynumber: 2.1 Consensus size: 125
10520892 TAATCCCCTG
* * *
10520902 AAACAATGGGAAGGGATTATTGAAGGTATTTTTTGCTAGAAAATACCTTCAATAACCCCATTCAA
1 AAACAATGGGAAAGAATTATTGAAGGCATTTTTTGCTAGAAAATACCTTCAATAACCCCATTCAA
* * * * * *
10520967 TTTTTTATAAGAGATTATTCATGACGTTTTTAGCCAAAAATGCCTTTAATAATCCTCCC-
66 TTTTTTATAAGAGATTATTCAAGACGTTTTTAGACAAAAACGACTTGAATAATCCCCCCA
* * * **
10521026 AAACAATGGGAAAGAATTATTGAAGGCATTTTTTGCTAG-AAATGCCTTGAATATCTTCATTCAA
1 AAACAATGGGAAAGAATTATTGAAGGCATTTTTTGCTAGAAAATACCTTCAATAACCCCATTCAA
** * * *
10521090 TTTTGTGTA-AAG-GATTATTCAAGGTGTGTTTTGGATAAAAGCGACTTGAATAATCCCCCCA
66 TTTT-T-TATAAGAGATTATTCAAGACGT-TTTTAGACAAAAACGACTTGAATAATCCCCCCA
10521151 AAACAATGGGA
1 AAACAATGGGA
10521162 GGAGAAGTCA
Statistics
Matches: 113, Mismatches: 19, Indels: 7
0.81 0.14 0.05
Matches are distributed among these distances:
123 36 0.32
124 64 0.57
125 13 0.12
ACGTcount: A:0.35, C:0.15, G:0.17, T:0.33
Consensus pattern (125 bp):
AAACAATGGGAAAGAATTATTGAAGGCATTTTTTGCTAGAAAATACCTTCAATAACCCCATTCAA
TTTTTTATAAGAGATTATTCAAGACGTTTTTAGACAAAAACGACTTGAATAATCCCCCCA
Found at i:10524203 original size:34 final size:33
Alignment explanation
Indices: 10524163--10524238 Score: 98
Period size: 34 Copynumber: 2.3 Consensus size: 33
10524153 TGTATTTTCA
*
10524163 AAAATAAATATTCAAAAATATAATGTAAATCTCG
1 AAAATAAATATTCAAAAATATAAT-AAAATCTCG
* * * *
10524197 AAAATAAATTTTTAAAAATATAATAAAATTTTG
1 AAAATAAATATTCAAAAATATAATAAAATCTCG
10524230 AAAATAAAT
1 AAAATAAAT
10524239 TTTTGAAAAT
Statistics
Matches: 37, Mismatches: 5, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
33 15 0.41
34 22 0.59
ACGTcount: A:0.59, C:0.04, G:0.04, T:0.33
Consensus pattern (33 bp):
AAAATAAATATTCAAAAATATAATAAAATCTCG
Found at i:10524216 original size:14 final size:14
Alignment explanation
Indices: 10524196--10524248 Score: 52
Period size: 14 Copynumber: 3.4 Consensus size: 14
10524186 TGTAAATCTC
10524196 GAAAATAAATTTTT
1 GAAAATAAATTTTT
*
10524210 AAAAATATAATAAAATTTT
1 GAAAATA-AAT----TTTT
10524229 GAAAATAAATTTTT
1 GAAAATAAATTTTT
10524243 GAAAAT
1 GAAAAT
10524249 TTTATTTCAC
Statistics
Matches: 32, Mismatches: 2, Indels: 10
0.73 0.05 0.23
Matches are distributed among these distances:
14 16 0.50
15 3 0.09
18 3 0.09
19 10 0.31
ACGTcount: A:0.57, C:0.00, G:0.06, T:0.38
Consensus pattern (14 bp):
GAAAATAAATTTTT
Found at i:10524223 original size:19 final size:19
Alignment explanation
Indices: 10524199--10524235 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
10524189 AAATCTCGAA
*
10524199 AATAAATTTTTAAAAATAT
1 AATAAAATTTTAAAAATAT
*
10524218 AATAAAATTTTGAAAATA
1 AATAAAATTTTAAAAATA
10524236 AATTTTTGAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.59, C:0.00, G:0.03, T:0.38
Consensus pattern (19 bp):
AATAAAATTTTAAAAATAT
Found at i:10524238 original size:33 final size:34
Alignment explanation
Indices: 10524163--10524248 Score: 111
Period size: 33 Copynumber: 2.6 Consensus size: 34
10524153 TGTATTTTCA
* * *
10524163 AAAATAAATATTCAAAAATATAATGTAAATCTCG
1 AAAATAAATTTTTAAAAATATAATGAAAATCTCG
* *
10524197 AAAATAAATTTTTAAAAATATAAT-AAAATTTTG
1 AAAATAAATTTTTAAAAATATAATGAAAATCTCG
*
10524230 AAAATAAATTTTTGAAAAT
1 AAAATAAATTTTTAAAAAT
10524249 TTTATTTCAC
Statistics
Matches: 46, Mismatches: 6, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
33 24 0.52
34 22 0.48
ACGTcount: A:0.57, C:0.03, G:0.05, T:0.35
Consensus pattern (34 bp):
AAAATAAATTTTTAAAAATATAATGAAAATCTCG
Found at i:10524240 original size:13 final size:14
Alignment explanation
Indices: 10524218--10524248 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
10524208 TTAAAAATAT
*
10524218 AATAAAATTTTGAA
1 AATAAATTTTTGAA
10524232 AATAAATTTTTGAA
1 AATAAATTTTTGAA
10524246 AAT
1 AAT
10524249 TTTATTTCAC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.55, C:0.00, G:0.06, T:0.39
Consensus pattern (14 bp):
AATAAATTTTTGAA
Found at i:10524303 original size:35 final size:34
Alignment explanation
Indices: 10524230--10524303 Score: 78
Period size: 35 Copynumber: 2.1 Consensus size: 34
10524220 TAAAATTTTG
* **
10524230 AAAATAAATTTTTGAAAATTTTATTTCACTCTTG
1 AAAATAAATTTTTGAAAATTATATTTCACTCTCA
* *
10524264 AAAATAAAATTTTTGACAATTATATTGT-ATTCTCA
1 AAAAT-AAATTTTTGAAAATTATATT-TCACTCTCA
10524299 AAAAT
1 AAAAT
10524304 CTATTTCGAA
Statistics
Matches: 33, Mismatches: 5, Indels: 3
0.80 0.12 0.07
Matches are distributed among these distances:
34 5 0.15
35 27 0.82
36 1 0.03
ACGTcount: A:0.43, C:0.08, G:0.05, T:0.43
Consensus pattern (34 bp):
AAAATAAATTTTTGAAAATTATATTTCACTCTCA
Found at i:10525470 original size:2 final size:2
Alignment explanation
Indices: 10525463--10525493 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
10525453 TACCTAAAAT
10525463 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 T
10525494 GACAAGAATT
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:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:10535192 original size:15 final size:16
Alignment explanation
Indices: 10535172--10535202 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
10535162 TCGATTGCAA
10535172 CATTTT-AAAATTTTT
1 CATTTTAAAAATTTTT
10535187 CATTTTAAAAATTTTT
1 CATTTTAAAAATTTTT
10535203 TAAATTCAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 6 0.40
16 9 0.60
ACGTcount: A:0.35, C:0.06, G:0.00, T:0.58
Consensus pattern (16 bp):
CATTTTAAAAATTTTT
Found at i:10540050 original size:9 final size:9
Alignment explanation
Indices: 10540029--10540058 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
10540019 TTTTTTTTTT
10540029 AATTTAT-A
1 AATTTATCA
10540037 AATTTATCA
1 AATTTATCA
10540046 AATTTATCA
1 AATTTATCA
10540055 AATT
1 AATT
10540059 GAATTTAATG
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
8 7 0.33
9 14 0.67
ACGTcount: A:0.47, C:0.07, G:0.00, T:0.47
Consensus pattern (9 bp):
AATTTATCA
Found at i:10546198 original size:21 final size:20
Alignment explanation
Indices: 10546165--10546203 Score: 69
Period size: 21 Copynumber: 1.9 Consensus size: 20
10546155 TTGAAAACAG
10546165 AAAATATTTTTTCTTAATAA
1 AAAATATTTTTTCTTAATAA
10546185 AAAATATATTTTTCTTAAT
1 AAAATAT-TTTTTCTTAAT
10546204 TATATTATCC
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 7 0.39
21 11 0.61
ACGTcount: A:0.44, C:0.05, G:0.00, T:0.51
Consensus pattern (20 bp):
AAAATATTTTTTCTTAATAA
Found at i:10548619 original size:17 final size:18
Alignment explanation
Indices: 10548590--10548624 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
10548580 AAACTCTTTC
*
10548590 AATTTTCTTTAAAGAAAT
1 AATTTTCTTTAAAAAAAT
10548608 AATTTT-TTTAAAAAAAT
1 AATTTTCTTTAAAAAAAT
10548625 TTATTCAAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 10 0.62
18 6 0.38
ACGTcount: A:0.49, C:0.03, G:0.03, T:0.46
Consensus pattern (18 bp):
AATTTTCTTTAAAAAAAT
Found at i:10549665 original size:18 final size:18
Alignment explanation
Indices: 10549642--10549694 Score: 54
Period size: 18 Copynumber: 2.9 Consensus size: 18
10549632 CCCAAATCAA
10549642 GAAAAAATTTTGTTTTTG
1 GAAAAAATTTTGTTTTTG
* *
10549660 GAAAAAAAATTT-CTTTTG
1 G-AAAAAATTTTGTTTTTG
**
10549678 GAAAATTTTTTGTTTTT
1 GAAAAAATTTTGTTTTT
10549695 TTGTTTTTGC
Statistics
Matches: 27, Mismatches: 6, Indels: 4
0.73 0.16 0.11
Matches are distributed among these distances:
17 7 0.26
18 11 0.41
19 9 0.33
ACGTcount: A:0.34, C:0.02, G:0.13, T:0.51
Consensus pattern (18 bp):
GAAAAAATTTTGTTTTTG
Found at i:10550031 original size:3 final size:3
Alignment explanation
Indices: 10550023--10550052 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
10550013 TTTTCTCTTT
10550023 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
10550053 AGTTAAAAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:10550290 original size:40 final size:41
Alignment explanation
Indices: 10550243--10550375 Score: 137
Period size: 42 Copynumber: 3.3 Consensus size: 41
10550233 AGAGGCTATG
* * *
10550243 AAACTTTAAATGTTAAAAGGCTCTTTTGACCAAAGGCAA-C
1 AAACTTTAAATGTTAAAAAGCTCTTCTAACCAAAGGCAATC
* * *
10550283 AAACTTTAAAT-TCAAAAAGCTCTTCTAACCAAAGGTAATG
1 AAACTTTAAATGTTAAAAAGCTCTTCTAACCAAAGGCAATC
* * * *
10550323 AAACTTTAAATGTTAAAAAAGTTCCTCTAACTAGAGGCAA-C
1 AAACTTTAAATGTT-AAAAAGCTCTTCTAACCAAAGGCAATC
10550364 AAAACTTTAAAT
1 -AAACTTTAAAT
10550376 TAAAAATCTG
Statistics
Matches: 76, Mismatches: 13, Indels: 6
0.80 0.14 0.06
Matches are distributed among these distances:
39 22 0.29
40 22 0.29
41 1 0.01
42 31 0.41
ACGTcount: A:0.44, C:0.17, G:0.11, T:0.28
Consensus pattern (41 bp):
AAACTTTAAATGTTAAAAAGCTCTTCTAACCAAAGGCAATC
Found at i:10550628 original size:41 final size:40
Alignment explanation
Indices: 10550513--10550667 Score: 172
Period size: 40 Copynumber: 3.9 Consensus size: 40
10550503 AAATGGCTTT
*
10550513 TTTGACCAAAGGCAATGAAACTTTAAA-TTAAAAAGGCTCA
1 TTTGACCAAAGGCAATGAAACTTTAAATTTAAAAA-GCTCC
* * * * * *
10550553 TATGACTAGAGGCAATGGAACTTTTAATTCAAAAAGCTCC
1 TTTGACCAAAGGCAATGAAACTTTAAATTTAAAAAGCTCC
*
10550593 TTTGATCAAAGGCAATGAAACTTTAAATGTTAAAAAGCT-C
1 TTTGACCAAAGGCAATGAAACTTTAAAT-TTAAAAAGCTCC
*
10550633 TTCTAACCAAAGGCAAT-AGAACTTTAAATTTAAAA
1 TT-TGACCAAAGGCAATGA-AACTTTAAATTTAAAA
10550668 TATTTTGCCT
Statistics
Matches: 95, Mismatches: 16, Indels: 8
0.80 0.13 0.07
Matches are distributed among these distances:
40 58 0.61
41 37 0.39
ACGTcount: A:0.43, C:0.15, G:0.14, T:0.28
Consensus pattern (40 bp):
TTTGACCAAAGGCAATGAAACTTTAAATTTAAAAAGCTCC
Found at i:10551297 original size:17 final size:15
Alignment explanation
Indices: 10551277--10551316 Score: 53
Period size: 16 Copynumber: 2.5 Consensus size: 15
10551267 TTTTACCTCC
*
10551277 TTTTTTTTTTTGCTAT
1 TTTTTTTTTTTTCT-T
10551293 TTTTTTTCTTTTTCTT
1 TTTTTTT-TTTTTCTT
10551309 TTTTTTTT
1 TTTTTTTT
10551317 CTAACATTTA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
15 1 0.05
16 15 0.68
17 6 0.27
ACGTcount: A:0.03, C:0.07, G:0.03, T:0.88
Consensus pattern (15 bp):
TTTTTTTTTTTTCTT
Found at i:10551317 original size:17 final size:17
Alignment explanation
Indices: 10551277--10551318 Score: 59
Period size: 17 Copynumber: 2.5 Consensus size: 17
10551267 TTTTACCTCC
10551277 TTTTTTT-TTTTGCTAT
1 TTTTTTTCTTTTGCTAT
* *
10551293 TTTTTTTCTTTTTCTTT
1 TTTTTTTCTTTTGCTAT
10551310 TTTTTTTCT
1 TTTTTTTCT
10551319 AACATTTACA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
16 7 0.30
17 16 0.70
ACGTcount: A:0.02, C:0.10, G:0.02, T:0.86
Consensus pattern (17 bp):
TTTTTTTCTTTTGCTAT
Found at i:10552119 original size:16 final size:17
Alignment explanation
Indices: 10552080--10552119 Score: 73
Period size: 17 Copynumber: 2.4 Consensus size: 17
10552070 TTAAAACACT
10552080 TTTCTTTTGTTAAAATA
1 TTTCTTTTGTTAAAATA
10552097 TTTCTTTTGTTAAAATA
1 TTTCTTTTGTTAAAATA
10552114 -TTCTTT
1 TTTCTTT
10552120 CTTCGCACTT
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
16 6 0.26
17 17 0.74
ACGTcount: A:0.25, C:0.07, G:0.05, T:0.62
Consensus pattern (17 bp):
TTTCTTTTGTTAAAATA
Found at i:10558841 original size:3 final size:3
Alignment explanation
Indices: 10558833--10558867 Score: 54
Period size: 3 Copynumber: 12.0 Consensus size: 3
10558823 CAAAATATCA
*
10558833 ATT ATT ATT ATT ATT -TG ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
10558868 TATATTGTTG
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
2 1 0.03
3 28 0.97
ACGTcount: A:0.31, C:0.00, G:0.03, T:0.66
Consensus pattern (3 bp):
ATT
Found at i:10559039 original size:9 final size:8
Alignment explanation
Indices: 10559027--10559071 Score: 54
Period size: 9 Copynumber: 5.2 Consensus size: 8
10559017 ATTTAAGCAA
10559027 TTTATCTTT
1 TTTAT-TTT
10559036 TTTATTTT
1 TTTATTTT
*
10559044 ATTTATTTA
1 -TTTATTTT
10559053 TTTATTTT
1 TTTATTTT
10559061 TCTTATTTT
1 T-TTATTTT
10559070 TT
1 TT
10559072 AAGCAAAAAT
Statistics
Matches: 32, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
8 12 0.38
9 20 0.62
ACGTcount: A:0.16, C:0.04, G:0.00, T:0.80
Consensus pattern (8 bp):
TTTATTTT
Found at i:10559360 original size:19 final size:18
Alignment explanation
Indices: 10559320--10559359 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 18
10559310 TAACAAAAAT
*
10559320 AAAATAAAAATAAATCTG
1 AAAATAAAAATAAATATG
10559338 AAAATAAAAAATAAA-ATG
1 AAAAT-AAAAATAAATATG
10559356 AAAA
1 AAAA
10559360 AAGAAAAACT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
18 11 0.55
19 9 0.45
ACGTcount: A:0.75, C:0.03, G:0.05, T:0.17
Consensus pattern (18 bp):
AAAATAAAAATAAATATG
Found at i:10559366 original size:19 final size:19
Alignment explanation
Indices: 10559320--10559367 Score: 53
Period size: 19 Copynumber: 2.5 Consensus size: 19
10559310 TAACAAAAAT
* *
10559320 AAAATAAAAATAAATCTGA
1 AAAAAAAAAATAAATATGA
*
10559339 AAATAAAAAATAAA-ATGA
1 AAAAAAAAAATAAATATGA
10559357 AAAAAGAAAAA
1 AAAAA-AAAAA
10559368 CTTACAAATG
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
18 7 0.29
19 17 0.71
ACGTcount: A:0.77, C:0.02, G:0.06, T:0.15
Consensus pattern (19 bp):
AAAAAAAAAATAAATATGA
Found at i:10560897 original size:18 final size:19
Alignment explanation
Indices: 10560856--10560891 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
10560846 ACAAATAACA
*
10560856 AAAATAAAAATAAAATTTG
1 AAAATAAAAATAAAACTTG
10560875 AAAATAAAAA-AAAACTT
1 AAAATAAAAATAAAACTT
10560892 ACAAATGGGT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 6 0.38
19 10 0.62
ACGTcount: A:0.72, C:0.03, G:0.03, T:0.22
Consensus pattern (19 bp):
AAAATAAAAATAAAACTTG
Found at i:10561384 original size:18 final size:18
Alignment explanation
Indices: 10561357--10561395 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
10561347 CTTAGATTAA
*
10561357 GAAAAATTTTTGCTTTTG
1 GAAAAATTTTTGCTTCTG
* *
10561375 GAAAATTTTTTTCTTCTG
1 GAAAAATTTTTGCTTCTG
10561393 GAA
1 GAA
10561396 TTTTTTTTTT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.28, C:0.08, G:0.15, T:0.49
Consensus pattern (18 bp):
GAAAAATTTTTGCTTCTG
Found at i:10561798 original size:3 final size:3
Alignment explanation
Indices: 10561792--10561831 Score: 64
Period size: 3 Copynumber: 13.7 Consensus size: 3
10561782 AATAATAATA
*
10561792 ATT ATT ATT ATT ATT A-T ATT ATT GTT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
10561832 ATTTAAGTTA
Statistics
Matches: 34, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
2 2 0.06
3 32 0.94
ACGTcount: A:0.33, C:0.00, G:0.03, T:0.65
Consensus pattern (3 bp):
ATT
Found at i:10567557 original size:13 final size:12
Alignment explanation
Indices: 10567522--10567563 Score: 54
Period size: 11 Copynumber: 3.7 Consensus size: 12
10567512 TTTTCCAAAG
10567522 TTTCTTGCCAC-
1 TTTCTTGCCACT
10567533 TTTCTT-CCACT
1 TTTCTTGCCACT
10567544 TTTGCTTGCCACT
1 TTT-CTTGCCACT
10567557 TTT-TTGC
1 TTTCTTGC
10567564 TCCTGATCCG
Statistics
Matches: 28, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
10 4 0.14
11 13 0.46
12 3 0.11
13 8 0.29
ACGTcount: A:0.07, C:0.31, G:0.10, T:0.52
Consensus pattern (12 bp):
TTTCTTGCCACT
Found at i:10567735 original size:65 final size:65
Alignment explanation
Indices: 10567654--10567784 Score: 262
Period size: 65 Copynumber: 2.0 Consensus size: 65
10567644 AAACATAATC
10567654 TGATTGCCTAAGATTTTTATCGTAATCATGAAACAACACCAAATTTTATTTAAGGACCTTGACGA
1 TGATTGCCTAAGATTTTTATCGTAATCATGAAACAACACCAAATTTTATTTAAGGACCTTGACGA
10567719 TGATTGCCTAAGATTTTTATCGTAATCATGAAACAACACCAAATTTTATTTAAGGACCTTGACGA
1 TGATTGCCTAAGATTTTTATCGTAATCATGAAACAACACCAAATTTTATTTAAGGACCTTGACGA
10567784 T
1 T
10567785 CCATCCATAA
Statistics
Matches: 66, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
65 66 1.00
ACGTcount: A:0.35, C:0.17, G:0.14, T:0.34
Consensus pattern (65 bp):
TGATTGCCTAAGATTTTTATCGTAATCATGAAACAACACCAAATTTTATTTAAGGACCTTGACGA
Found at i:10570620 original size:22 final size:21
Alignment explanation
Indices: 10570599--10570651 Score: 81
Period size: 21 Copynumber: 2.5 Consensus size: 21
10570589 AAAAGCAAAT
10570599 TTCAAAAACAAA-TTTAAAAAA
1 TTCAAAAA-AAACTTTAAAAAA
*
10570620 TTCAAAAAAAACTTTTAAAAA
1 TTCAAAAAAAACTTTAAAAAA
10570641 TTCAAAAAAAA
1 TTCAAAAAAAA
10570652 AATTTTGAAA
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
20 3 0.10
21 27 0.90
ACGTcount: A:0.66, C:0.09, G:0.00, T:0.25
Consensus pattern (21 bp):
TTCAAAAAAAACTTTAAAAAA
Found at i:10570624 original size:21 final size:22
Alignment explanation
Indices: 10570599--10570672 Score: 80
Period size: 23 Copynumber: 3.4 Consensus size: 22
10570589 AAAAGCAAAT
*
10570599 TTCAAAAACAAA-TTTAAAAAA
1 TTCAAAAAAAAACTTTAAAAAA
*
10570620 TTC-AAAAAAAACTTTTAAAAA
1 TTCAAAAAAAAACTTTAAAAAA
* *
10570641 TTCAAAAAAAAAATTTTGAAAAA
1 TTC-AAAAAAAAACTTTAAAAAA
*
10570664 TTCTAAAAA
1 TTCAAAAAA
10570673 TTTTTTAAAA
Statistics
Matches: 45, Mismatches: 5, Indels: 5
0.82 0.09 0.09
Matches are distributed among these distances:
20 7 0.16
21 14 0.31
22 5 0.11
23 19 0.42
ACGTcount: A:0.64, C:0.08, G:0.01, T:0.27
Consensus pattern (22 bp):
TTCAAAAAAAAACTTTAAAAAA
Found at i:10570662 original size:9 final size:10
Alignment explanation
Indices: 10570648--10570774 Score: 62
Period size: 10 Copynumber: 12.5 Consensus size: 10
10570638 AAATTCAAAA
10570648 AAAAAATTTT
1 AAAAAATTTT
* *
10570658 GAAAAATTCT
1 AAAAAATTTT
*
10570668 AAAAATTTTTT
1 AAAAA-ATTTT
*
10570679 AAAAAATATT
1 AAAAAATTTT
* **
10570689 AAAAAGTCAAT
1 AAAAAAT-TTT
*
10570700 AAAAAA-TCT
1 AAAAAATTTT
*
10570709 AAAAAATTCT
1 AAAAAATTTT
*
10570719 ACAAAATTTT
1 AAAAAATTTT
*
10570729 -CAAAA-TTT
1 AAAAAATTTT
*
10570737 CAAAAATTCTT
1 AAAAAATT-TT
*
10570748 AAAAAAATTCT
1 -AAAAAATTTT
*
10570759 AAAAGATATTT
1 AAAAAAT-TTT
10570770 AAAAA
1 AAAAA
10570775 TTTAATTTTT
Statistics
Matches: 89, Mismatches: 20, Indels: 15
0.72 0.16 0.12
Matches are distributed among these distances:
8 3 0.03
9 16 0.18
10 39 0.44
11 24 0.27
12 7 0.08
ACGTcount: A:0.58, C:0.07, G:0.02, T:0.32
Consensus pattern (10 bp):
AAAAAATTTT
Found at i:10570662 original size:10 final size:9
Alignment explanation
Indices: 10570649--10570777 Score: 51
Period size: 9 Copynumber: 12.9 Consensus size: 9
10570639 AATTCAAAAA
10570649 AAAAATTTT
1 AAAAATTTT
*
10570658 GAAAAATTCT
1 -AAAAATTTT
10570668 AAAAATTTTTT
1 AAAAA--TTTT
*
10570679 AAAAAATATT
1 -AAAAATTTT
* *
10570689 AAAAAGTCAATA
1 AAAAA-T--TTT
* *
10570701 AAAAATCTA
1 AAAAATTTT
*
10570710 AAAAATTCT
1 AAAAATTTT
10570719 ACAAAATTTT
1 A-AAAATTTT
* *
10570729 CAAAATTTC
1 AAAAATTTT
10570738 AAAAATTCTT
1 AAAAATT-TT
*
10570748 AAAAAAATTCT
1 --AAAAATTTT
10570759 AAAAGATATTT
1 AAAA-AT-TTT
10570770 AAAAATTT
1 AAAAATTT
10570778 AATTTTTAAA
Statistics
Matches: 92, Mismatches: 15, Indels: 25
0.70 0.11 0.19
Matches are distributed among these distances:
9 38 0.41
10 24 0.26
11 11 0.12
12 19 0.21
ACGTcount: A:0.57, C:0.07, G:0.02, T:0.34
Consensus pattern (9 bp):
AAAAATTTT
Found at i:10570678 original size:21 final size:21
Alignment explanation
Indices: 10570654--10570693 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
10570644 AAAAAAAAAA
*
10570654 TTTTGAAAAAT-TCTAAAAATT
1 TTTTAAAAAATAT-TAAAAATT
10570675 TTTTAAAAAATATTAAAAA
1 TTTTAAAAAATATTAAAAA
10570694 GTCAATAAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
21 16 0.94
22 1 0.06
ACGTcount: A:0.55, C:0.03, G:0.03, T:0.40
Consensus pattern (21 bp):
TTTTAAAAAATATTAAAAATT
Found at i:10570733 original size:20 final size:18
Alignment explanation
Indices: 10570710--10570776 Score: 55
Period size: 21 Copynumber: 3.4 Consensus size: 18
10570700 AAAAAATCTA
10570710 AAAAATTCTACAAAATTTT
1 AAAAATTCTA-AAAATTTT
*
10570729 CAAAATT-TCAAAAATTCTT
1 AAAAATTCT-AAAAATT-TT
10570748 AAAAAAATTCTAAAAGATATTT
1 --AAAAATTCTAAAA-AT-TTT
10570770 AAAAATT
1 AAAAATT
10570777 TAATTTTTAA
Statistics
Matches: 39, Mismatches: 2, Indels: 13
0.72 0.04 0.24
Matches are distributed among these distances:
18 7 0.18
19 9 0.23
20 7 0.18
21 10 0.26
22 5 0.13
23 1 0.03
ACGTcount: A:0.55, C:0.09, G:0.01, T:0.34
Consensus pattern (18 bp):
AAAAATTCTAAAAATTTT
Found at i:10571717 original size:9 final size:9
Alignment explanation
Indices: 10571695--10571815 Score: 91
Period size: 9 Copynumber: 13.0 Consensus size: 9
10571685 TTTTTAGCAT
*
10571695 TTTTTAAAG
1 TTTTTAAAA
*
10571704 CTTTTAAAA
1 TTTTTAAAA
* *
10571713 TTTTTGAAT
1 TTTTTAAAA
10571722 TTTTTATAAA
1 TTTTTA-AAA
10571732 TTTTTAAAA
1 TTTTTAAAA
10571741 TTTTTACAAA
1 TTTTTA-AAA
*
10571751 TTTTTAGAA
1 TTTTTAAAA
*
10571760 TTTTTAGAAT
1 TTTTTA-AAA
*
10571770 TTTTTGAAAT
1 TTTTT-AAAA
*
10571780 TTTTTATAA
1 TTTTTAAAA
*
10571789 -TTTAAAAA
1 TTTTTAAAA
**
10571797 AATTTAAAA
1 TTTTTAAAA
10571806 TTTTTCAAAA
1 TTTTT-AAAA
10571816 AAGTTTTTAA
Statistics
Matches: 88, Mismatches: 18, Indels: 11
0.75 0.15 0.09
Matches are distributed among these distances:
8 6 0.07
9 46 0.52
10 35 0.40
11 1 0.01
ACGTcount: A:0.40, C:0.02, G:0.04, T:0.54
Consensus pattern (9 bp):
TTTTTAAAA
Found at i:10571732 original size:19 final size:19
Alignment explanation
Indices: 10571705--10571788 Score: 91
Period size: 19 Copynumber: 4.4 Consensus size: 19
10571695 TTTTTAAAGC
10571705 TTTTA-AAATTTTTGAATT
1 TTTTATAAATTTTTGAATT
* *
10571723 TTTTATAAATTTTTAAAAT
1 TTTTATAAATTTTTGAATT
*
10571742 TTTTACAAATTTTTAGAA-T
1 TTTTATAAATTTTT-GAATT
* *
10571761 TTTTAGAATTTTTTGAAATT
1 TTTTATAAATTTTTG-AATT
10571781 TTTTATAA
1 TTTTATAA
10571789 TTTAAAAAAA
Statistics
Matches: 55, Mismatches: 7, Indels: 6
0.81 0.10 0.09
Matches are distributed among these distances:
18 6 0.11
19 39 0.71
20 10 0.18
ACGTcount: A:0.36, C:0.01, G:0.05, T:0.58
Consensus pattern (19 bp):
TTTTATAAATTTTTGAATT
Found at i:10571822 original size:12 final size:12
Alignment explanation
Indices: 10571802--10571846 Score: 65
Period size: 12 Copynumber: 3.8 Consensus size: 12
10571792 AAAAAAATTT
10571802 AAAATTTTTCAA
1 AAAATTTTTCAA
10571814 AAAAGTTTTT-AA
1 AAAA-TTTTTCAA
*
10571826 AAGATTTTTCAA
1 AAAATTTTTCAA
10571838 AAAATTTTT
1 AAAATTTTT
10571847 TAGAATGTGT
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
11 5 0.17
12 19 0.66
13 5 0.17
ACGTcount: A:0.47, C:0.04, G:0.04, T:0.44
Consensus pattern (12 bp):
AAAATTTTTCAA
Found at i:10571910 original size:10 final size:10
Alignment explanation
Indices: 10571895--10571974 Score: 58
Period size: 10 Copynumber: 8.2 Consensus size: 10
10571885 TAAAAAAATC
*
10571895 TTTTTAGATT
1 TTTTTAGAAT
*
10571905 TTTTTAAAAT
1 TTTTTAGAAT
10571915 TTTTT-GAAT
1 TTTTTAGAAT
*
10571924 TTTTTATAA-
1 TTTTTAGAAT
*
10571933 TTTTTAGAAA
1 TTTTTAGAAT
* * *
10571943 ATTTCA-AGAC
1 TTTTTAGA-AT
10571953 TTTTTAGAAT
1 TTTTTAGAAT
*
10571963 TTTTAAGAAT
1 TTTTTAGAAT
10571973 TT
1 TT
10571975 AAAATTTTTT
Statistics
Matches: 54, Mismatches: 12, Indels: 8
0.73 0.16 0.11
Matches are distributed among these distances:
9 17 0.31
10 36 0.67
11 1 0.02
ACGTcount: A:0.33, C:0.03, G:0.07, T:0.57
Consensus pattern (10 bp):
TTTTTAGAAT
Found at i:10571970 original size:19 final size:19
Alignment explanation
Indices: 10571895--10571974 Score: 72
Period size: 19 Copynumber: 4.2 Consensus size: 19
10571885 TAAAAAAATC
*
10571895 TTTTTAGATTTTTTTAA-AA
1 TTTTTAGA-ATTTTTAAGAA
* * *
10571914 TTTTTTGAATTTTTTATAA
1 TTTTTAGAATTTTTAAGAA
* * *
10571933 TTTTTAGAAAATTTCAAGAC
1 TTTTTAG-AATTTTTAAGAA
10571953 TTTTTAGAATTTTTAAGAA
1 TTTTTAGAATTTTTAAGAA
10571972 TTT
1 TTT
10571975 AAAATTTTTT
Statistics
Matches: 47, Mismatches: 12, Indels: 4
0.75 0.19 0.06
Matches are distributed among these distances:
18 6 0.13
19 27 0.57
20 14 0.30
ACGTcount: A:0.33, C:0.03, G:0.07, T:0.57
Consensus pattern (19 bp):
TTTTTAGAATTTTTAAGAA
Found at i:10572524 original size:43 final size:42
Alignment explanation
Indices: 10572431--10572568 Score: 111
Period size: 43 Copynumber: 3.2 Consensus size: 42
10572421 TTCCTTTAGC
* *
10572431 CAAAGGCTATAAAAGTTTGAAAAATTCAAAAGGCTCCTCT-AA
1 CAAAGGCTATAAAACTTTGAAAAATT-AAAAGGCTCATCTCAA
* * *
10572473 CTAGAGGTTATGAAACTTTGAAAAATATAAAAGGCTCATCTCAA
1 C-AAAGGCTATAAAACTTTGAAAAAT-TAAAAGGCTCATCTCAA
* * * *
10572517 CAAAGG-TTTAACAACTTT-AATAATGTAAAAGGTTTATCTCAA
1 CAAAGGCTATAA-AACTTTGAAAAAT-TAAAAGGCTCATCTCAA
* *
10572559 TAGAGGCTAT
1 CAAAGGCTAT
10572569 GAAATTTTAA
Statistics
Matches: 76, Mismatches: 15, Indels: 9
0.76 0.15 0.09
Matches are distributed among these distances:
42 28 0.37
43 44 0.58
44 4 0.05
ACGTcount: A:0.43, C:0.14, G:0.15, T:0.28
Consensus pattern (42 bp):
CAAAGGCTATAAAACTTTGAAAAATTAAAAGGCTCATCTCAA
Found at i:10572719 original size:34 final size:34
Alignment explanation
Indices: 10572631--10572757 Score: 134
Period size: 34 Copynumber: 3.8 Consensus size: 34
10572621 AAGTCTAAAA
* * * **
10572631 ATGAAATCACTTGGACTAAGCCAAAG-TCAAAAG
1 ATGAAATAACTTAGACTTAGCCAAAGTTTGAAAG
** *
10572664 AT-AAATGGCTTAGACTGAGCCAAAGTTTGAAAG
1 ATGAAATAACTTAGACTTAGCCAAAGTTTGAAAG
10572697 ATGAAATAACTTAGACTTAGCCAAAGTTTGAAAG
1 ATGAAATAACTTAGACTTAGCCAAAGTTTGAAAG
* *
10572731 ATGAAATTACTTGGA-TTGAGCCAAAGT
1 ATGAAATAACTTAGACTT-AGCCAAAGT
10572758 CTAAAACAAG
Statistics
Matches: 80, Mismatches: 11, Indels: 5
0.83 0.11 0.05
Matches are distributed among these distances:
32 19 0.24
33 11 0.14
34 50 0.62
ACGTcount: A:0.42, C:0.13, G:0.20, T:0.24
Consensus pattern (34 bp):
ATGAAATAACTTAGACTTAGCCAAAGTTTGAAAG
Found at i:10573013 original size:34 final size:34
Alignment explanation
Indices: 10572965--10573032 Score: 127
Period size: 34 Copynumber: 2.0 Consensus size: 34
10572955 AAATTCCCAT
10572965 AACTAAGGACTAACAAATTCAAAACTTCTTTTCA
1 AACTAAGGACTAACAAATTCAAAACTTCTTTTCA
*
10572999 AACTGAGGACTAACAAATTCAAAACTTCTTTTCA
1 AACTAAGGACTAACAAATTCAAAACTTCTTTTCA
10573033 TGAAAAATTA
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:0.43, C:0.21, G:0.07, T:0.29
Consensus pattern (34 bp):
AACTAAGGACTAACAAATTCAAAACTTCTTTTCA
Found at i:10573934 original size:18 final size:19
Alignment explanation
Indices: 10573913--10573949 Score: 67
Period size: 18 Copynumber: 2.0 Consensus size: 19
10573903 TAACCTCTTG
10573913 TTCATTTTTCATT-TTTTT
1 TTCATTTTTCATTGTTTTT
10573931 TTCATTTTTCATTGTTTTT
1 TTCATTTTTCATTGTTTTT
10573950 CTTTCACTCA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 13 0.72
19 5 0.28
ACGTcount: A:0.11, C:0.11, G:0.03, T:0.76
Consensus pattern (19 bp):
TTCATTTTTCATTGTTTTT
Found at i:10575985 original size:16 final size:15
Alignment explanation
Indices: 10575961--10576022 Score: 56
Period size: 15 Copynumber: 4.1 Consensus size: 15
10575951 AGAAAGAGAG
10575961 AAAAA-AAAAAAGAA
1 AAAAAGAAAAAAGAA
*
10575975 AAGAAAGAAAAAAGGA
1 AA-AAAGAAAAAAGAA
*
10575991 AAAAGGAAAAAACG-A
1 AAAAAGAAAAAA-GAA
*
10576006 ATAAAGAAAAAGAGAA
1 AAAAAGAAAAA-AGAA
10576022 A
1 A
10576023 GAGAGAGAGA
Statistics
Matches: 39, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
14 2 0.05
15 23 0.59
16 14 0.36
ACGTcount: A:0.79, C:0.02, G:0.18, T:0.02
Consensus pattern (15 bp):
AAAAAGAAAAAAGAA
Found at i:10575985 original size:17 final size:17
Alignment explanation
Indices: 10575959--10575993 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
10575949 GGAGAAAGAG
10575959 AGAAAAAAAAAAAGAAA
1 AGAAAAAAAAAAAGAAA
* *
10575976 AGAAAGAAAAAAGGAAA
1 AGAAAAAAAAAAAGAAA
10575993 A
1 A
10575994 AGGAAAAAAC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.83, C:0.00, G:0.17, T:0.00
Consensus pattern (17 bp):
AGAAAAAAAAAAAGAAA
Found at i:10575987 original size:23 final size:24
Alignment explanation
Indices: 10575951--10576022 Score: 58
Period size: 23 Copynumber: 3.0 Consensus size: 24
10575941 TGTGGAAAGG
10575951 AGAAAGAGAGAAAAAAAAAAAGAAA
1 AGAAAGA-AGAAAAAAAAAAAGAAA
* *
10575976 AGAAAGAA-AAAAGGAAAAAGGAAA
1 AGAAAGAAGAAAA-AAAAAAAGAAA
* * * *
10576000 A-AACGAATAAAGAAAAAGAGAAA
1 AGAAAGAAGAAAAAAAAAAAGAAA
10576023 GAGAGAGAGA
Statistics
Matches: 38, Mismatches: 7, Indels: 6
0.75 0.14 0.12
Matches are distributed among these distances:
23 17 0.45
24 14 0.37
25 7 0.18
ACGTcount: A:0.76, C:0.01, G:0.21, T:0.01
Consensus pattern (24 bp):
AGAAAGAAGAAAAAAAAAAAGAAA
Found at i:10575988 original size:7 final size:7
Alignment explanation
Indices: 10575961--10576022 Score: 54
Period size: 8 Copynumber: 8.3 Consensus size: 7
10575951 AGAAAGAGAG
10575961 AAAAA-A
1 AAAAAGA
10575967 AAAAAGAA
1 AAAAAG-A
10575975 AAGAAAGA
1 AA-AAAGA
10575983 AAAAAGGA
1 AAAAA-GA
*
10575991 AAAAGGA
1 AAAAAGA
10575998 AAAAACGA
1 AAAAA-GA
*
10576006 ATAAAGA
1 AAAAAGA
10576013 AAAAGAGA
1 AAAA-AGA
10576021 AA
1 AA
10576023 GAGAGAGAGA
Statistics
Matches: 46, Mismatches: 4, Indels: 10
0.77 0.07 0.17
Matches are distributed among these distances:
6 5 0.11
7 14 0.30
8 23 0.50
9 4 0.09
ACGTcount: A:0.79, C:0.02, G:0.18, T:0.02
Consensus pattern (7 bp):
AAAAAGA
Found at i:10576152 original size:25 final size:26
Alignment explanation
Indices: 10576104--10576153 Score: 84
Period size: 25 Copynumber: 1.9 Consensus size: 26
10576094 GAAAAATAAT
10576104 TTTGAAAAGTTTAAAAAAAAAAAGATA
1 TTTGAAAAG-TTAAAAAAAAAAAGATA
10576131 TTTGAAAAG-TAAAAAAAAAAAGA
1 TTTGAAAAGTTAAAAAAAAAAAGA
10576154 AAAGTAACTT
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
25 14 0.61
27 9 0.39
ACGTcount: A:0.66, C:0.00, G:0.12, T:0.22
Consensus pattern (26 bp):
TTTGAAAAGTTAAAAAAAAAAAGATA
Found at i:10577232 original size:8 final size:8
Alignment explanation
Indices: 10577209--10577329 Score: 68
Period size: 8 Copynumber: 14.9 Consensus size: 8
10577199 TACAAAAAGG
*
10577209 AAACCCTA
1 AAACCTTA
*
10577217 AAATCTTA
1 AAACCTTA
10577225 AAACCTTA
1 AAACCTTA
*
10577233 AAACCCTAAA
1 AAA-CCT-TA
10577243 AAACC-TA
1 AAACCTTA
**
10577250 AAA-CTCC
1 AAACCTTA
*
10577257 AAACCCTA
1 AAACCTTA
*
10577265 AAACCCTA
1 AAACCTTA
*
10577273 AAACCCTA
1 AAACCTTA
10577281 AAA-CTATA
1 AAACCT-TA
*
10577289 AAACATTA
1 AAACCTTA
*
10577297 AAACCATA
1 AAACCTTA
**
10577305 AAACCCCAA
1 AAA-CCTTA
10577314 AAACCTTA
1 AAACCTTA
10577322 AAATCCTT
1 AAA-CCTT
10577330 TCTTTGAAAA
Statistics
Matches: 87, Mismatches: 18, Indels: 15
0.73 0.15 0.12
Matches are distributed among these distances:
6 1 0.01
7 8 0.09
8 58 0.67
9 16 0.18
10 4 0.05
ACGTcount: A:0.53, C:0.29, G:0.00, T:0.18
Consensus pattern (8 bp):
AAACCTTA
Found at i:10577234 original size:16 final size:16
Alignment explanation
Indices: 10577209--10577324 Score: 92
Period size: 16 Copynumber: 7.2 Consensus size: 16
10577199 TACAAAAAGG
*
10577209 AAACCCTAAAATCTTA
1 AAACCCTAAAACCTTA
* *
10577225 AAACCTTAAAACCCTAA
1 AAACCCTAAAA-CCTTA
* **
10577242 AAAACCTAAAA-CTCC
1 AAACCCTAAAACCTTA
*
10577257 AAACCCTAAAACCCTA
1 AAACCCTAAAACCTTA
10577273 AAACCCTAAAA-CTATA
1 AAACCCTAAAACCT-TA
** *
10577289 AAACATTAAAACCATA
1 AAACCCTAAAACCTTA
*
10577305 AAACCCCAAAAACCTTA
1 AAA-CCCTAAAACCTTA
10577322 AAA
1 AAA
10577325 TCCTTTCTTT
Statistics
Matches: 76, Mismatches: 19, Indels: 9
0.73 0.18 0.09
Matches are distributed among these distances:
15 13 0.17
16 38 0.50
17 25 0.33
ACGTcount: A:0.55, C:0.28, G:0.00, T:0.16
Consensus pattern (16 bp):
AAACCCTAAAACCTTA
Found at i:10577236 original size:24 final size:24
Alignment explanation
Indices: 10577209--10577329 Score: 102
Period size: 24 Copynumber: 5.0 Consensus size: 24
10577199 TACAAAAAGG
*
10577209 AAACCCTAAAATCTTAAAACCTTA
1 AAACCCTAAAACCTTAAAACCTTA
**
10577233 AAACCCTAAAAAACC-TAAAA-CTCC
1 AAACCCT--AAAACCTTAAAACCTTA
* *
10577257 AAACCCTAAAACCCTAAAACCCTA
1 AAACCCTAAAACCTTAAAACCTTA
** * *
10577281 AAACTATAAAACATTAAAACCATA
1 AAACCCTAAAACCTTAAAACCTTA
*
10577305 AAACCCCAAAAACCTTAAAATCCTT
1 AAA-CCCTAAAACCTTAAAA-CCTT
10577330 TCTTTGAAAA
Statistics
Matches: 75, Mismatches: 16, Indels: 10
0.74 0.16 0.10
Matches are distributed among these distances:
22 6 0.08
23 5 0.07
24 39 0.52
25 17 0.23
26 8 0.11
ACGTcount: A:0.53, C:0.29, G:0.00, T:0.18
Consensus pattern (24 bp):
AAACCCTAAAACCTTAAAACCTTA
Found at i:10577301 original size:40 final size:38
Alignment explanation
Indices: 10577242--10577324 Score: 85
Period size: 41 Copynumber: 2.1 Consensus size: 38
10577232 AAAACCCTAA
* * *
10577242 AAAACCTAAAACTCCAAACCCTAAAACCCTAAAACCCT
1 AAAACATAAAACTCAAAACCATAAAACCCTAAAACCCT
* * *
10577280 AAAACTATAAAACATTAAAACCATAAAACCCCAAAAACCTT
1 AAAAC-ATAAAAC-TCAAAACCATAAAA-CCCTAAAACCCT
10577321 AAAA
1 AAAA
10577325 TCCTTTCTTT
Statistics
Matches: 36, Mismatches: 6, Indels: 3
0.80 0.13 0.07
Matches are distributed among these distances:
38 5 0.14
39 6 0.17
40 11 0.31
41 14 0.39
ACGTcount: A:0.57, C:0.29, G:0.00, T:0.14
Consensus pattern (38 bp):
AAAACATAAAACTCAAAACCATAAAACCCTAAAACCCT
Found at i:10577517 original size:16 final size:18
Alignment explanation
Indices: 10577483--10577519 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
10577473 ATTTAAGAAA
10577483 TTTTATTATATTAAGTTT
1 TTTTATTATATTAAGTTT
*
10577501 TTTTTTTATA-TAA-TTT
1 TTTTATTATATTAAGTTT
10577517 TTT
1 TTT
10577520 AACCTAAGAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
16 6 0.33
17 3 0.17
18 9 0.50
ACGTcount: A:0.24, C:0.00, G:0.03, T:0.73
Consensus pattern (18 bp):
TTTTATTATATTAAGTTT
Found at i:10588654 original size:19 final size:20
Alignment explanation
Indices: 10588630--10588668 Score: 62
Period size: 19 Copynumber: 2.0 Consensus size: 20
10588620 ATATTTTGCT
10588630 TAAAAAAGA-AAAAAACAAA
1 TAAAAAAGAGAAAAAACAAA
*
10588649 TAAAAAAGAGAAAAAGCAAA
1 TAAAAAAGAGAAAAAACAAA
10588669 AGCAAAAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 9 0.50
20 9 0.50
ACGTcount: A:0.79, C:0.05, G:0.10, T:0.05
Consensus pattern (20 bp):
TAAAAAAGAGAAAAAACAAA
Found at i:10590216 original size:35 final size:35
Alignment explanation
Indices: 10590150--10590225 Score: 82
Period size: 35 Copynumber: 2.2 Consensus size: 35
10590140 CCGTTTATCT
* * **
10590150 TTATTTTTTGACTTATGGTTCAGTTTTGATCAACA
1 TTATTTCTTGACTTATGGTTCAGCTCCGATCAACA
* *
10590185 TTATTTCTTGACTTGAT-GTTCAGCTCCGATCATCC
1 TTATTTCTTGACTT-ATGGTTCAGCTCCGATCAACA
10590220 TTATTT
1 TTATTT
10590226 TTTTGAATTG
Statistics
Matches: 34, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
35 32 0.94
36 2 0.06
ACGTcount: A:0.20, C:0.17, G:0.13, T:0.50
Consensus pattern (35 bp):
TTATTTCTTGACTTATGGTTCAGCTCCGATCAACA
Found at i:10590540 original size:14 final size:14
Alignment explanation
Indices: 10590510--10590557 Score: 55
Period size: 14 Copynumber: 3.5 Consensus size: 14
10590500 TTTTAAAAGC
10590510 AAAT-AATAATAAT
1 AAATAAATAATAAT
10590523 AAATAAATAA-AAT
1 AAATAAATAATAAT
*
10590536 AAAATAAAAAATAAT
1 -AAATAAATAATAAT
*
10590551 AATTAAA
1 AAATAAA
10590558 ACCAAAAATA
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
13 7 0.23
14 20 0.67
15 3 0.10
ACGTcount: A:0.75, C:0.00, G:0.00, T:0.25
Consensus pattern (14 bp):
AAATAAATAATAAT
Found at i:10590577 original size:20 final size:19
Alignment explanation
Indices: 10590531--10590578 Score: 51
Period size: 19 Copynumber: 2.5 Consensus size: 19
10590521 ATAAATAAAT
*
10590531 AAAATAAAATAAAAAATAA
1 AAAATAAAACAAAAAATAA
* * *
10590550 TAATTAAAACCAAAAATAA
1 AAAATAAAACAAAAAATAA
10590569 AAGAATAAAA
1 AA-AATAAAA
10590579 ATAGAACAAA
Statistics
Matches: 22, Mismatches: 6, Indels: 1
0.76 0.21 0.03
Matches are distributed among these distances:
19 16 0.73
20 6 0.27
ACGTcount: A:0.77, C:0.04, G:0.02, T:0.17
Consensus pattern (19 bp):
AAAATAAAACAAAAAATAA
Found at i:10592105 original size:28 final size:30
Alignment explanation
Indices: 10592073--10592136 Score: 80
Period size: 29 Copynumber: 2.2 Consensus size: 30
10592063 GTTAAAAAAA
*
10592073 AAAAAG-AGAGAAAGAA-AGTTTTTAAAAG-T
1 AAAAAGAAG-GAAA-AATAGTTTTAAAAAGTT
10592102 AAAAAGAAGGAAAAATAGTTTTAAAAAGTT
1 AAAAAGAAGGAAAAATAGTTTTAAAAAGTT
10592132 AAAAA
1 AAAAA
10592137 AAAAAAAGAG
Statistics
Matches: 31, Mismatches: 1, Indels: 5
0.84 0.03 0.14
Matches are distributed among these distances:
28 2 0.06
29 21 0.68
30 8 0.26
ACGTcount: A:0.62, C:0.00, G:0.17, T:0.20
Consensus pattern (30 bp):
AAAAAGAAGGAAAAATAGTTTTAAAAAGTT
Found at i:10592129 original size:29 final size:29
Alignment explanation
Indices: 10592064--10592136 Score: 78
Period size: 29 Copynumber: 2.5 Consensus size: 29
10592054 GTTTGAAAAG
**
10592064 TTAAAAAAAAAAAAGAGAGAAAGAAAGTT
1 TTAAAAAGTAAAAAGAGAGAAAGAAAGTT
*
10592093 TTTAAAAGTAAAAAGA-AGGAAA-AATAGTT
1 TTAAAAAGTAAAAAGAGA-GAAAGAA-AGTT
10592122 TTAAAAAGTTAAAAA
1 TTAAAAAG-TAAAAA
10592137 AAAAAAAGAG
Statistics
Matches: 37, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
28 3 0.08
29 28 0.76
30 6 0.16
ACGTcount: A:0.64, C:0.00, G:0.15, T:0.21
Consensus pattern (29 bp):
TTAAAAAGTAAAAAGAGAGAAAGAAAGTT
Found at i:10592264 original size:27 final size:26
Alignment explanation
Indices: 10592234--10592289 Score: 60
Period size: 26 Copynumber: 2.1 Consensus size: 26
10592224 AGTCAAGAAC
*
10592234 AAAAAAATGGTTT-AACTAGTAAAAAAA
1 AAAAAAATGCTTTAAAC-A-TAAAAAAA
**
10592261 AAAAGCATGCTTTAAACATAAAAAAA
1 AAAAAAATGCTTTAAACATAAAAAAA
10592287 AAA
1 AAA
10592290 TTAAAGCAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
26 11 0.44
27 11 0.44
28 3 0.12
ACGTcount: A:0.64, C:0.07, G:0.09, T:0.20
Consensus pattern (26 bp):
AAAAAAATGCTTTAAACATAAAAAAA
Found at i:10592971 original size:5 final size:5
Alignment explanation
Indices: 10592939--10592982 Score: 52
Period size: 5 Copynumber: 8.6 Consensus size: 5
10592929 TAAATAATCA
* * *
10592939 AAATT AAAAAT AAATT AAATG AAGTT AAATT AAATT AAATT AAA
1 AAATT -AAATT AAATT AAATT AAATT AAATT AAATT AAATT AAA
10592983 ATATAAAATA
Statistics
Matches: 32, Mismatches: 6, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
5 28 0.88
6 4 0.12
ACGTcount: A:0.64, C:0.00, G:0.05, T:0.32
Consensus pattern (5 bp):
AAATT
Found at i:10593346 original size:16 final size:16
Alignment explanation
Indices: 10593310--10593429 Score: 66
Period size: 16 Copynumber: 7.4 Consensus size: 16
10593300 AAAGAAACAT
* *
10593310 TAAAATCTTAAAACCC
1 TAAAACCTTAAAGCCC
* *
10593326 CAAAACCTTAAAGCCA
1 TAAAACCTTAAAGCCC
*
10593342 TAAAATCC-CAAAGCCC
1 TAAAA-CCTTAAAGCCC
10593358 TAAAACCTTGAAA-CCC
1 TAAAACCTT-AAAGCCC
* *
10593374 TAAAACACTAAAAG-AC
1 TAAAAC-CTTAAAGCCC
* *
10593390 TAAAACCCTAAAACCTC
1 TAAAACCTTAAAGCC-C
* *
10593407 AAAAAATCTTAAAGCCC
1 -TAAAACCTTAAAGCCC
*
10593424 GAAAAC
1 TAAAAC
10593430 TATAAAATCC
Statistics
Matches: 76, Mismatches: 20, Indels: 16
0.68 0.18 0.14
Matches are distributed among these distances:
15 6 0.08
16 50 0.66
17 9 0.12
18 11 0.14
ACGTcount: A:0.51, C:0.28, G:0.05, T:0.16
Consensus pattern (16 bp):
TAAAACCTTAAAGCCC
Found at i:10593379 original size:8 final size:8
Alignment explanation
Indices: 10593318--10593404 Score: 68
Period size: 8 Copynumber: 10.9 Consensus size: 8
10593308 ATTAAAATCT
10593318 TAAAACCC
1 TAAAACCC
* *
10593326 CAAAACCT
1 TAAAACCC
* *
10593334 TAAAGCCA
1 TAAAACCC
10593342 TAAAATCCC
1 TAAAA-CCC
*
10593351 -AAAGCCC
1 TAAAACCC
*
10593358 TAAAACCT
1 TAAAACCC
*
10593366 TGAAACCC
1 TAAAACCC
*
10593374 TAAAACAC
1 TAAAACCC
**
10593382 TAAAAGAC
1 TAAAACCC
10593390 TAAAACCC
1 TAAAACCC
10593398 TAAAACC
1 TAAAACC
10593405 TCAAAAAATC
Statistics
Matches: 60, Mismatches: 17, Indels: 4
0.74 0.21 0.05
Matches are distributed among these distances:
7 3 0.05
8 55 0.92
9 2 0.03
ACGTcount: A:0.51, C:0.31, G:0.05, T:0.14
Consensus pattern (8 bp):
TAAAACCC
Found at i:10598311 original size:31 final size:33
Alignment explanation
Indices: 10598276--10598338 Score: 85
Period size: 35 Copynumber: 1.9 Consensus size: 33
10598266 AATATCTATG
*
10598276 AAAAATTCAAAGT-T-GCCAAAAAATTCAACCA
1 AAAAAATCAAAGTCTGGCCAAAAAATTCAACCA
10598307 AAAAAATCAAAGTCGCTGGCCAAAAAATTCAA
1 AAAAAATCAAAGT--CTGGCCAAAAAATTCAA
10598339 AATTCCAAAA
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
31 12 0.44
34 1 0.04
35 14 0.52
ACGTcount: A:0.54, C:0.19, G:0.10, T:0.17
Consensus pattern (33 bp):
AAAAAATCAAAGTCTGGCCAAAAAATTCAACCA
Found at i:10606155 original size:3 final size:3
Alignment explanation
Indices: 10606149--10606235 Score: 92
Period size: 3 Copynumber: 29.3 Consensus size: 3
10606139 GGAAAGAAGA
*
10606149 AAT AAT AAT AAT AAT AAT GAT AAT AAT -AT AAT AAT AAGGT -AT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA--T AAT AAT
* *
10606194 AAT AAT AAT AAT AA- ACAT AGT AAT AAA AAT -AT AAT AAT AAT A
1 AAT AAT AAT AAT AAT A-AT AAT AAT AAT AAT AAT AAT AAT AAT A
10606236 CTAGTAGATT
Statistics
Matches: 71, Mismatches: 6, Indels: 14
0.78 0.07 0.15
Matches are distributed among these distances:
2 6 0.08
3 62 0.87
4 2 0.03
5 1 0.01
ACGTcount: A:0.63, C:0.01, G:0.05, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:10606822 original size:172 final size:173
Alignment explanation
Indices: 10606536--10606860 Score: 393
Period size: 172 Copynumber: 1.9 Consensus size: 173
10606526 TGTGAGTCCA
* * * * * * **
10606536 AAAGTGACCAAGATTGAGTCGAGGTCATAGATAAATGATTGAGATGATGCCGTGAGTCTGGAAAT
1 AAAGTGAACAAGATCGAGTCGAGGTCATAGATAAATAATCGAGATGATACCGTAAGTCTAAAAAT
* * * ** * *
10606601 GATTTGACCTGAGCCGAGATTGGATGACTGGGATGATCCTGCGAGTCTGAAAGTGACCAAGA-TG
66 GATCTGACCTAAGCCGACATCAGATGACTGGGATGATCCTGCGAGTCTGAAAGTGACAAAAATTG
10606665 AGTCAAGGTCATAGATAAATGACCAGGACATGCCGCGAGTCTG
131 AGTCAAGGTCATAGATAAATGACCAGGACATGCCGCGAGTCTG
* * *
10606708 AAAGTGAACAAGATCGAGTCGCGGTCATAGATGAATAATCGGGATGATACCGTAAGTCTAAAAAT
1 AAAGTGAACAAGATCGAGTCGAGGTCATAGATAAATAATCGAGATGATACCGTAAGTCTAAAAAT
* * * * *
10606773 GATCTGGCCTAAGCTGACATCAGATGATTGGGATGAT-GTCGTGAGTCTGAAAGTGACAAAAATT
66 GATCTGACCTAAGCCGACATCAGATGACTGGGATGATCCT-GCGAGTCTGAAAGTGACAAAAATT
** *
10606837 GAGTTGAGGTCATAGATGAATGAC
130 GAGTCAAGGTCATAGATAAATGAC
10606861 TGGGATGATA
Statistics
Matches: 125, Mismatches: 26, Indels: 3
0.81 0.17 0.02
Matches are distributed among these distances:
171 1 0.01
172 102 0.82
173 22 0.18
ACGTcount: A:0.33, C:0.14, G:0.29, T:0.23
Consensus pattern (173 bp):
AAAGTGAACAAGATCGAGTCGAGGTCATAGATAAATAATCGAGATGATACCGTAAGTCTAAAAAT
GATCTGACCTAAGCCGACATCAGATGACTGGGATGATCCTGCGAGTCTGAAAGTGACAAAAATTG
AGTCAAGGTCATAGATAAATGACCAGGACATGCCGCGAGTCTG
Found at i:10615640 original size:45 final size:45
Alignment explanation
Indices: 10615586--10615675 Score: 144
Period size: 45 Copynumber: 2.0 Consensus size: 45
10615576 ATATATATAC
* * *
10615586 AATAAATAAATAATTAAGTAAGTATAAGCAATGAAAAGAAGTAAA
1 AATAAATAAATAATTAAGCAAGTATAAACAATGAAAAGAAATAAA
*
10615631 AATAAATAAATAATTAAGCAAGTATAAACAATGGAAAGAAATAAA
1 AATAAATAAATAATTAAGCAAGTATAAACAATGAAAAGAAATAAA
10615676 TAGGAAAGAA
Statistics
Matches: 41, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
45 41 1.00
ACGTcount: A:0.63, C:0.03, G:0.12, T:0.21
Consensus pattern (45 bp):
AATAAATAAATAATTAAGCAAGTATAAACAATGAAAAGAAATAAA
Done.