Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167882.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_15, 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: 22478863
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Warning! 61000 characters in sequence are not A, C, G, or T
File 5 of 106
Found at i:680265 original size:13 final size:13
Alignment explanation
Indices: 680247--680272 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
680237 GGTTTGACTT
680247 TTTTTATTTTTTA
1 TTTTTATTTTTTA
680260 TTTTTATTTTTTA
1 TTTTTATTTTTTA
680273 ATTATGAGAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.15, C:0.00, G:0.00, T:0.85
Consensus pattern (13 bp):
TTTTTATTTTTTA
Found at i:680497 original size:16 final size:16
Alignment explanation
Indices: 680473--680521 Score: 64
Period size: 16 Copynumber: 3.1 Consensus size: 16
680463 GATTGATTCC
*
680473 TTTTGGCATGATTTAA
1 TTTTTGCATGATTTAA
680489 TTTTTGCATGATTTAA
1 TTTTTGCATGATTTAA
* *
680505 -TATTGCATAATTTAA
1 TTTTTGCATGATTTAA
680520 TT
1 TT
680522 GCATAGTTAA
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
15 13 0.45
16 16 0.55
ACGTcount: A:0.29, C:0.06, G:0.12, T:0.53
Consensus pattern (16 bp):
TTTTTGCATGATTTAA
Found at i:680512 original size:15 final size:15
Alignment explanation
Indices: 680478--680520 Score: 59
Period size: 15 Copynumber: 2.8 Consensus size: 15
680468 ATTCCTTTTG
*
680478 GCATGATTTAATTTTT
1 GCATGATTTAA-TATT
680494 GCATGATTTAATATT
1 GCATGATTTAATATT
*
680509 GCATAATTTAAT
1 GCATGATTTAAT
680521 TGCATAGTTA
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
15 14 0.56
16 11 0.44
ACGTcount: A:0.33, C:0.07, G:0.12, T:0.49
Consensus pattern (15 bp):
GCATGATTTAATATT
Found at i:680581 original size:18 final size:18
Alignment explanation
Indices: 680532--680584 Score: 54
Period size: 19 Copynumber: 2.8 Consensus size: 18
680522 GCATAGTTAA
*
680532 TTATTATTTGCATGATTAT
1 TTATTA-TTACATGATTAT
*
680551 TTATTAATCACATGA-TATT
1 TTATT-ATTACATGATTA-T
680570 TTATTATTACATGAT
1 TTATTATTACATGAT
680585 GTTGATATTT
Statistics
Matches: 28, Mismatches: 3, Indels: 6
0.76 0.08 0.16
Matches are distributed among these distances:
18 10 0.36
19 17 0.61
20 1 0.04
ACGTcount: A:0.32, C:0.08, G:0.08, T:0.53
Consensus pattern (18 bp):
TTATTATTACATGATTAT
Found at i:680725 original size:20 final size:19
Alignment explanation
Indices: 680700--680738 Score: 51
Period size: 20 Copynumber: 2.0 Consensus size: 19
680690 GTATGATTTA
*
680700 TATATTGGTATGATATTTTT
1 TATATTGGCATGAT-TTTTT
*
680720 TATATTTGCATGATTTTTT
1 TATATTGGCATGATTTTTT
680739 ATAGATTTTT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 5 0.29
20 12 0.71
ACGTcount: A:0.23, C:0.03, G:0.13, T:0.62
Consensus pattern (19 bp):
TATATTGGCATGATTTTTT
Found at i:683122 original size:103 final size:104
Alignment explanation
Indices: 682933--683133 Score: 305
Period size: 103 Copynumber: 1.9 Consensus size: 104
682923 GTGGGCTATT
* * * * * *
682933 CTATAAGAAGTTATGAAATAATGGAAATTTGTAAAAGCTTTTATCAATCCTATCCCCATGTTATA
1 CTATAAGAACTTATGAAATAATGAAAATCTATAAAAGCTTTTATCAATCCTATCCCCATATCATA
*
682998 CATTGAGGTATTCTCAAAGCTTGTTAAAAATCACCTTGA
66 CATTAAGGTATTCTCAAAGCTTGTTAAAAATCACCTTGA
* **
683037 CTAT-AGAACTTATGAAATAATGAAAATCTATAAAAGTTTTTATTGATCCTATCCCCATATCATA
1 CTATAAGAACTTATGAAATAATGAAAATCTATAAAAGCTTTTATCAATCCTATCCCCATATCATA
683101 CATTAAGGTATTCTCAAAGCTTGTTAAAAATCA
66 CATTAAGGTATTCTCAAAGCTTGTTAAAAATCA
683134 TCTGGTAACA
Statistics
Matches: 87, Mismatches: 10, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
103 83 0.95
104 4 0.05
ACGTcount: A:0.38, C:0.15, G:0.11, T:0.35
Consensus pattern (104 bp):
CTATAAGAACTTATGAAATAATGAAAATCTATAAAAGCTTTTATCAATCCTATCCCCATATCATA
CATTAAGGTATTCTCAAAGCTTGTTAAAAATCACCTTGA
Found at i:684739 original size:72 final size:72
Alignment explanation
Indices: 684663--684878 Score: 184
Period size: 72 Copynumber: 3.1 Consensus size: 72
684653 TGAAAAAGTT
684663 AAAAATGACAAGGGCAAATCGAAAATGAAAAAAGTTTAAAAGGATGTTGATCCTTGTGGTTTATA
1 AAAAATGACAAGGGCAAATCGAAAATGAAAAAAGTTTAAAAGGATGTTGATCCTTGTGGTTTATA
684728 AATGAAA
66 AATGAAA
** * ** *** * * *
684735 AAAAATTTCAAATGTTAAGATC--AAATGGTGAAA-TGGTGAAA-GATTTTGCAT--TT-T--TT
1 AAAAATGAC-AAGGGCAA-ATCGAAAATGAAAAAAGT-TTAAAAGGATGTTG-ATCCTTGTGGTT
* **
684791 TGA-AAAAG-TT
62 T-ATAAATGAAA
684801 AAAAATGACAAGGGCAAATCGAAAATGAAAAAAGTTTAAAAGGATGTTGATCCTTGTGGTTTATA
1 AAAAATGACAAGGGCAAATCGAAAATGAAAAAAGTTTAAAAGGATGTTGATCCTTGTGGTTTATA
684866 AATGAAA
66 AATGAAA
684873 AAAAAT
1 AAAAAT
684879 TTCAAATGTT
Statistics
Matches: 100, Mismatches: 28, Indels: 32
0.62 0.17 0.20
Matches are distributed among these distances:
64 3 0.03
65 5 0.05
66 21 0.21
67 14 0.14
68 3 0.03
69 2 0.02
70 3 0.03
71 14 0.14
72 27 0.27
73 5 0.05
74 3 0.03
ACGTcount: A:0.46, C:0.06, G:0.19, T:0.28
Consensus pattern (72 bp):
AAAAATGACAAGGGCAAATCGAAAATGAAAAAAGTTTAAAAGGATGTTGATCCTTGTGGTTTATA
AATGAAA
Found at i:684881 original size:138 final size:138
Alignment explanation
Indices: 684633--684906 Score: 548
Period size: 138 Copynumber: 2.0 Consensus size: 138
684623 ACGATTGATA
684633 TGAAAGATTTTGCATTTTTTTGAAAAAGTTAAAAATGACAAGGGCAAATCGAAAATGAAAAAAGT
1 TGAAAGATTTTGCATTTTTTTGAAAAAGTTAAAAATGACAAGGGCAAATCGAAAATGAAAAAAGT
684698 TTAAAAGGATGTTGATCCTTGTGGTTTATAAATGAAAAAAAATTTCAAATGTTAAGATCAAATGG
66 TTAAAAGGATGTTGATCCTTGTGGTTTATAAATGAAAAAAAATTTCAAATGTTAAGATCAAATGG
684763 TGAAATGG
131 TGAAATGG
684771 TGAAAGATTTTGCATTTTTTTGAAAAAGTTAAAAATGACAAGGGCAAATCGAAAATGAAAAAAGT
1 TGAAAGATTTTGCATTTTTTTGAAAAAGTTAAAAATGACAAGGGCAAATCGAAAATGAAAAAAGT
684836 TTAAAAGGATGTTGATCCTTGTGGTTTATAAATGAAAAAAAATTTCAAATGTTAAGATCAAATGG
66 TTAAAAGGATGTTGATCCTTGTGGTTTATAAATGAAAAAAAATTTCAAATGTTAAGATCAAATGG
684901 TGAAAT
131 TGAAAT
684907 TAGTGATAGG
Statistics
Matches: 136, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
138 136 1.00
ACGTcount: A:0.45, C:0.06, G:0.19, T:0.31
Consensus pattern (138 bp):
TGAAAGATTTTGCATTTTTTTGAAAAAGTTAAAAATGACAAGGGCAAATCGAAAATGAAAAAAGT
TTAAAAGGATGTTGATCCTTGTGGTTTATAAATGAAAAAAAATTTCAAATGTTAAGATCAAATGG
TGAAATGG
Found at i:685395 original size:31 final size:31
Alignment explanation
Indices: 685360--685422 Score: 108
Period size: 31 Copynumber: 2.0 Consensus size: 31
685350 AAGAATAATT
* *
685360 TATAAGACCTTAAGGCATGATCTTGAAAATA
1 TATAAAACCTTAAGGCATGACCTTGAAAATA
685391 TATAAAACCTTAAGGCATGACCTTGAAAATA
1 TATAAAACCTTAAGGCATGACCTTGAAAATA
685422 T
1 T
685423 CATATATCCA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.43, C:0.14, G:0.14, T:0.29
Consensus pattern (31 bp):
TATAAAACCTTAAGGCATGACCTTGAAAATA
Found at i:685476 original size:38 final size:37
Alignment explanation
Indices: 685434--685652 Score: 154
Period size: 38 Copynumber: 5.8 Consensus size: 37
685424 ATATATCCAT
*
685434 TTTATTTTTTAAAAGTTGAAGCCTCAGTAAATGAGTAC
1 TTTATTTTTCAAAAGTTGAAGCCTCAGTAAA-GAGTAC
* *
685472 TTTATTTTTCAAAAGTTGAAACCTCAGTGGAAA-AGTAT
1 TTTATTTTTCAAAAGTTGAAGCCTCAGT--AAAGAGTAC
* * * * **
685510 TTTATTTTTTAAAAGTTGGAGTCTC-GATAAAAAACAC
1 TTTATTTTTCAAAAGTTGAAGCCTCAG-TAAAGAGTAC
* ** ** **
685547 TTTATTTTTCAAAAGTTTAGAGTTTTGGTAGGGGAGTAC
1 TTTATTTTTCAAAAGTTGA-AGCCTCAGTA-AAGAGTAC
** ***
685586 TTTATTTTTCAAAAGTTGAAGCCTTGGTGGGGGAGTAC
1 TTTATTTTTCAAAAGTTGAAGCCTCAGT-AAAGAGTAC
* *
685624 TTTATTTTTCAAAAGTTAAAGCCCCAGTA
1 TTTATTTTTCAAAAGTTGAAGCCTCAGTA
685653 GAAAGTTAAA
Statistics
Matches: 144, Mismatches: 29, Indels: 17
0.76 0.15 0.09
Matches are distributed among these distances:
36 3 0.02
37 19 0.13
38 97 0.67
39 22 0.15
40 3 0.02
ACGTcount: A:0.32, C:0.11, G:0.19, T:0.39
Consensus pattern (37 bp):
TTTATTTTTCAAAAGTTGAAGCCTCAGTAAAGAGTAC
Found at i:685768 original size:57 final size:57
Alignment explanation
Indices: 685617--685754 Score: 249
Period size: 57 Copynumber: 2.4 Consensus size: 57
685607 CCTTGGTGGG
*
685617 GGAGTACTTTATTTTTCAAAAGTTAAAGCCCCAGTAGAAAGTTAAAACCTCGATGGA
1 GGAGTACTTTATTTTTCAAAAGTTAAAGCCCCAGTAGAAAGTTAAAACCTCGATAGA
*
685674 GGAGTACTTTATTTTTCAAAAGTTAAAGCCCCAGTAGAAAGTTAAAACCTTGATAGA
1 GGAGTACTTTATTTTTCAAAAGTTAAAGCCCCAGTAGAAAGTTAAAACCTCGATAGA
*
685731 GGAGTATTTTATTTTTCAAAAGTT
1 GGAGTACTTTATTTTTCAAAAGTT
685755 GAAGTCTCGG
Statistics
Matches: 78, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
57 78 1.00
ACGTcount: A:0.36, C:0.13, G:0.18, T:0.33
Consensus pattern (57 bp):
GGAGTACTTTATTTTTCAAAAGTTAAAGCCCCAGTAGAAAGTTAAAACCTCGATAGA
Found at i:685817 original size:37 final size:37
Alignment explanation
Indices: 685727--685820 Score: 93
Period size: 37 Copynumber: 2.5 Consensus size: 37
685717 AAAACCTTGA
* * *
685727 TAGAGGAGTATTTTATTTTTCAAAAGTTGAAGTCTCGG
1 TAGATGAGTATTTTA-TTTTCAAAAGTAGAAGTCTCAG
* * *
685765 TAGATAAGTACTTTATTTTCAATAGTCAG-AGTCTCAG
1 TAGATGAGTATTTTATTTTCAAAAGT-AGAAGTCTCAG
685802 T-GAATGAGTATTTTATTTT
1 TAG-ATGAGTATTTTATTTT
685821 TTAAAAGTTA
Statistics
Matches: 46, Mismatches: 8, Indels: 5
0.78 0.14 0.08
Matches are distributed among these distances:
36 1 0.02
37 32 0.70
38 13 0.28
ACGTcount: A:0.30, C:0.09, G:0.19, T:0.43
Consensus pattern (37 bp):
TAGATGAGTATTTTATTTTCAAAAGTAGAAGTCTCAG
Found at i:686026 original size:42 final size:42
Alignment explanation
Indices: 685935--686026 Score: 132
Period size: 42 Copynumber: 2.2 Consensus size: 42
685925 TCTACATTTC
* * *
685935 AACAAAATGGAGGTCTTTTTTCTTTATACAATTTTTGCCTTT
1 AACAAAATGGAGGTCTTTTTTCCTTATACAATTTTTACCTAT
*
685977 AACAAAATGGATGTCTTTTTTCCTTATACAATTTTTACCTCAT
1 AACAAAATGGAGGTCTTTTTTCCTTATACAATTTTTACCT-AT
686020 AA-AAAAT
1 AACAAAAT
686027 ATACAAAGAG
Statistics
Matches: 45, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
42 42 0.93
43 3 0.07
ACGTcount: A:0.33, C:0.15, G:0.09, T:0.43
Consensus pattern (42 bp):
AACAAAATGGAGGTCTTTTTTCCTTATACAATTTTTACCTAT
Found at i:686177 original size:6 final size:6
Alignment explanation
Indices: 686166--686239 Score: 85
Period size: 6 Copynumber: 12.3 Consensus size: 6
686156 AAAACCCAAA
* * *
686166 AATTTT AATTTT AATTTT AATTGT AATTTT GATTTT AATTTT GATTTT
1 AATTTT AATTTT AATTTT AATTTT AATTTT AATTTT AATTTT AATTTT
* * * *
686214 GATTTT GATTTT ATTTTT ATTTTT AA
1 AATTTT AATTTT AATTTT AATTTT AA
686240 GTCAAAGTCA
Statistics
Matches: 60, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
6 60 1.00
ACGTcount: A:0.27, C:0.00, G:0.07, T:0.66
Consensus pattern (6 bp):
AATTTT
Found at i:687783 original size:20 final size:20
Alignment explanation
Indices: 687733--687784 Score: 70
Period size: 20 Copynumber: 2.6 Consensus size: 20
687723 ATTTGCATGA
*
687733 ATTTGCATGACTAATATTAT
1 ATTTGCATGATTAATATTAT
687753 ATTTGCATGATTAATAATT-T
1 ATTTGCATGATTAAT-ATTAT
*
687773 ATTTGTATGATT
1 ATTTGCATGATT
687785 TTGTTTTGCA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
20 26 0.90
21 3 0.10
ACGTcount: A:0.33, C:0.06, G:0.12, T:0.50
Consensus pattern (20 bp):
ATTTGCATGATTAATATTAT
Found at i:687839 original size:19 final size:18
Alignment explanation
Indices: 687797--687869 Score: 58
Period size: 19 Copynumber: 3.9 Consensus size: 18
687787 GTTTTGCATG
* * *
687797 ATTTAATATTGTATAATT
1 ATTTATTATTGCATGATT
*
687815 AATTATTAGTTGCATGATT
1 ATTTATTA-TTGCATGATT
*
687834 ATTTATTAATCGCATGA-T
1 ATTTATT-ATTGCATGATT
*
687852 ATTTTATTATTGTATGAT
1 A-TTTATTATTGCATGAT
687870 GTTGATATTT
Statistics
Matches: 43, Mismatches: 8, Indels: 7
0.74 0.14 0.12
Matches are distributed among these distances:
18 15 0.35
19 27 0.63
20 1 0.02
ACGTcount: A:0.33, C:0.04, G:0.11, T:0.52
Consensus pattern (18 bp):
ATTTATTATTGCATGATT
Found at i:693729 original size:14 final size:13
Alignment explanation
Indices: 693640--693730 Score: 64
Period size: 14 Copynumber: 6.8 Consensus size: 13
693630 AATAAGTAAT
693640 CACAACC-ATAAC
1 CACAACCAATAAC
*
693652 CATAAGTCC-ATAAC
1 CACAA--CCAATAAC
693666 CACAA-CAACT-AC
1 CACAACCAA-TAAC
693678 CACAACCATATAAGC
1 CACAACCA-ATAA-C
* *
693693 CATAAGCCCATAAC
1 CACAA-CCAATAAC
693707 CACAACCAATAAC
1 CACAACCAATAAC
693720 CACTAACCAAT
1 CAC-AACCAAT
693731 CTACATATCA
Statistics
Matches: 63, Mismatches: 6, Indels: 18
0.72 0.07 0.21
Matches are distributed among these distances:
11 1 0.02
12 12 0.19
13 14 0.22
14 25 0.40
15 9 0.14
16 2 0.03
ACGTcount: A:0.47, C:0.36, G:0.03, T:0.13
Consensus pattern (13 bp):
CACAACCAATAAC
Found at i:694504 original size:23 final size:24
Alignment explanation
Indices: 694477--694543 Score: 66
Period size: 23 Copynumber: 2.8 Consensus size: 24
694467 TTTAATTAAG
**
694477 AAAAAGTATTAAAATTTTAA-AAT
1 AAAAAGTATTAAAATTAAAACAAT
**
694500 AAAAAAAATTAAAA-TAAAACAAT
1 AAAAAGTATTAAAATTAAAACAAT
694523 ATAAAAGATATTAAAATTAAA
1 A-AAAAG-TATTAAAATTAAA
694544 TTACCTAGAA
Statistics
Matches: 34, Mismatches: 6, Indels: 5
0.76 0.13 0.11
Matches are distributed among these distances:
22 3 0.09
23 16 0.47
24 4 0.12
25 7 0.21
26 4 0.12
ACGTcount: A:0.69, C:0.01, G:0.03, T:0.27
Consensus pattern (24 bp):
AAAAAGTATTAAAATTAAAACAAT
Found at i:696722 original size:27 final size:26
Alignment explanation
Indices: 696692--696743 Score: 77
Period size: 27 Copynumber: 2.0 Consensus size: 26
696682 AAAAATCAAA
696692 ATAAAAGGTTAAAATTTTTAAAAATAT
1 ATAAAAGGTTAAAA-TTTTAAAAATAT
**
696719 ATAAAATTTTAAAATTTTAAAAATA
1 ATAAAAGGTTAAAATTTTAAAAATA
696744 CCCAAATATC
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
26 11 0.48
27 12 0.52
ACGTcount: A:0.58, C:0.00, G:0.04, T:0.38
Consensus pattern (26 bp):
ATAAAAGGTTAAAATTTTAAAAATAT
Found at i:697807 original size:23 final size:20
Alignment explanation
Indices: 697771--697820 Score: 55
Period size: 20 Copynumber: 2.4 Consensus size: 20
697761 TTTATTTACA
697771 TTTCAAATAAAGTTTTTATTAAT
1 TTTCAAATAAAG---TTATTAAT
**
697794 TTTCAAATCTAGTTATTAAT
1 TTTCAAATAAAGTTATTAAT
697814 TTTCAAA
1 TTTCAAA
697821 CTAATACGTA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
20 15 0.60
23 10 0.40
ACGTcount: A:0.38, C:0.08, G:0.04, T:0.50
Consensus pattern (20 bp):
TTTCAAATAAAGTTATTAAT
Found at i:703184 original size:2 final size:2
Alignment explanation
Indices: 703172--703209 Score: 67
Period size: 2 Copynumber: 19.0 Consensus size: 2
703162 TTTATTATAC
*
703172 GT GT AT GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT
1 GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT
703210 ACTGAAAGAG
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.03, C:0.00, G:0.47, T:0.50
Consensus pattern (2 bp):
GT
Found at i:709190 original size:26 final size:26
Alignment explanation
Indices: 709138--709190 Score: 63
Period size: 26 Copynumber: 2.0 Consensus size: 26
709128 ACATTGTAAA
*
709138 ACACAATATCAATGAAAACTTGTTTT
1 ACACAATATCAATGAAAACTTGCTTT
* *
709164 ACACAATTTCAATTAAAACATT-CTTT
1 ACACAATATCAATGAAAAC-TTGCTTT
709190 A
1 A
709191 AAAATTGTTA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
26 21 0.91
27 2 0.09
ACGTcount: A:0.43, C:0.17, G:0.04, T:0.36
Consensus pattern (26 bp):
ACACAATATCAATGAAAACTTGCTTT
Found at i:711406 original size:18 final size:18
Alignment explanation
Indices: 711383--711457 Score: 93
Period size: 18 Copynumber: 4.3 Consensus size: 18
711373 CTTTTGAGCA
711383 TAATAAATAATATTATAT
1 TAATAAATAATATTATAT
711401 TAATAAAT-A-A-TATAT
1 TAATAAATAATATTATAT
*
711416 TAATAAATATTATTATAT
1 TAATAAATAATATTATAT
* *
711434 TAATTAATACATATTATAA
1 TAATAAATA-ATATTATAT
711453 TAATA
1 TAATA
711458 TATTAGTAAA
Statistics
Matches: 48, Mismatches: 5, Indels: 7
0.80 0.08 0.12
Matches are distributed among these distances:
15 13 0.27
16 1 0.02
17 2 0.04
18 21 0.44
19 11 0.23
ACGTcount: A:0.55, C:0.01, G:0.00, T:0.44
Consensus pattern (18 bp):
TAATAAATAATATTATAT
Found at i:711414 original size:15 final size:15
Alignment explanation
Indices: 711391--711474 Score: 84
Period size: 15 Copynumber: 5.6 Consensus size: 15
711381 CATAATAAAT
*
711391 AATATTATATTAATA
1 AATAATATATTAATA
711406 AATAATATATTAATA
1 AATAATATATTAATA
*
711421 AATATTATTATATTAATT
1 AATA--A-TATATTAATA
*
711439 AAT-ACATATT-AT-
1 AATAATATATTAATA
*
711451 AATAATATATTAGTA
1 AATAATATATTAATA
711466 AATAATATA
1 AATAATATA
711475 AATAGTTTTA
Statistics
Matches: 58, Mismatches: 5, Indels: 12
0.77 0.07 0.16
Matches are distributed among these distances:
12 3 0.05
13 8 0.14
14 6 0.10
15 28 0.48
17 1 0.02
18 12 0.21
ACGTcount: A:0.54, C:0.01, G:0.01, T:0.44
Consensus pattern (15 bp):
AATAATATATTAATA
Found at i:711427 original size:30 final size:29
Alignment explanation
Indices: 711391--711474 Score: 82
Period size: 33 Copynumber: 2.8 Consensus size: 29
711381 CATAATAAAT
711391 AATATTATATTAATAAATAATATATTAATAA
1 AATATTATATTAATAAATAATATATT-AT-A
* *
711422 ATATTATTATATTAATTAAT-ACATATTAT-
1 A-A-TATTATATTAATAAATAATATATTATA
* *
711451 AATAATATATTAGTAAATAATATA
1 AATATTATATTAATAAATAATATA
711475 AATAGTTTTA
Statistics
Matches: 44, Mismatches: 6, Indels: 9
0.75 0.10 0.15
Matches are distributed among these distances:
27 13 0.30
28 5 0.11
29 1 0.02
31 3 0.07
32 7 0.16
33 15 0.34
ACGTcount: A:0.54, C:0.01, G:0.01, T:0.44
Consensus pattern (29 bp):
AATATTATATTAATAAATAATATATTATA
Found at i:711537 original size:19 final size:19
Alignment explanation
Indices: 711492--711537 Score: 58
Period size: 19 Copynumber: 2.4 Consensus size: 19
711482 TTATTTTAAG
*
711492 TATTTTTATATTAATATAA
1 TATTTTAATATTAATATAA
*
711511 TATTTTAATATTAA-ATAT
1 TATTTTAATATTAATATAA
711529 TATTATTAA
1 TATT-TTAA
711538 AGTATAATTA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
18 7 0.29
19 17 0.71
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (19 bp):
TATTTTAATATTAATATAA
Found at i:711579 original size:22 final size:23
Alignment explanation
Indices: 711552--711606 Score: 58
Period size: 26 Copynumber: 2.3 Consensus size: 23
711542 TAATTATTTT
* *
711552 TAAATATGAATA-ATTTTAATAA
1 TAAATATCAATATACTTTAATAA
711574 TAAATAATTTCAATATACTTTAATAA
1 TAAAT-A--TCAATATACTTTAATAA
711600 TAAATAT
1 TAAATAT
711607 TTTTTAATAT
Statistics
Matches: 27, Mismatches: 2, Indels: 7
0.75 0.06 0.19
Matches are distributed among these distances:
22 5 0.19
23 2 0.07
25 6 0.22
26 14 0.52
ACGTcount: A:0.53, C:0.04, G:0.02, T:0.42
Consensus pattern (23 bp):
TAAATATCAATATACTTTAATAA
Found at i:711622 original size:17 final size:19
Alignment explanation
Indices: 711592--711637 Score: 51
Period size: 17 Copynumber: 2.5 Consensus size: 19
711582 TTCAATATAC
*
711592 TTTAATAATAAATA-TT-T
1 TTTAATATTAAATAGTTAT
*
711609 TTTAATATTTAATAGTTAT
1 TTTAATATTAAATAGTTAT
*
711628 ATTAATATTA
1 TTTAATATTA
711638 TTTGAAAAAA
Statistics
Matches: 23, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
17 12 0.52
18 2 0.09
19 9 0.39
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.54
Consensus pattern (19 bp):
TTTAATATTAAATAGTTAT
Found at i:713450 original size:32 final size:32
Alignment explanation
Indices: 713398--713461 Score: 101
Period size: 32 Copynumber: 2.0 Consensus size: 32
713388 ACAATACTGG
* *
713398 AACCCTACTTGAACTCGTGATGGTAATAATTT
1 AACCCTACGTGAAATCGTGATGGTAATAATTT
*
713430 AACCCTACGTGAAATTGTGATGGTAATAATTT
1 AACCCTACGTGAAATCGTGATGGTAATAATTT
713462 TACTATTTCA
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
32 29 1.00
ACGTcount: A:0.33, C:0.16, G:0.17, T:0.34
Consensus pattern (32 bp):
AACCCTACGTGAAATCGTGATGGTAATAATTT
Found at i:717100 original size:25 final size:25
Alignment explanation
Indices: 717062--717110 Score: 89
Period size: 25 Copynumber: 2.0 Consensus size: 25
717052 AATACCGTTG
717062 CTTTGATGGCGTTTGTAACTGTAAC
1 CTTTGATGGCGTTTGTAACTGTAAC
*
717087 CTTTGATGGTGTTTGTAACTGTAA
1 CTTTGATGGCGTTTGTAACTGTAA
717111 ATGCCACTAT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.20, C:0.12, G:0.24, T:0.43
Consensus pattern (25 bp):
CTTTGATGGCGTTTGTAACTGTAAC
Found at i:726652 original size:80 final size:80
Alignment explanation
Indices: 726519--726681 Score: 254
Period size: 80 Copynumber: 2.0 Consensus size: 80
726509 AATATTATGG
* * *
726519 TTTGCTGAACTTTGTTATCTGATATTATTTTATTGAATGGTATTGTATGATATTAGGGGGCTGAA
1 TTTGCTAAACTTTGTTATCTGATATTATTTTACTGAATGATATTGTATGATATTAGGGGGCTGAA
*
726584 TCATATGTTGAATGA
66 TCATATGTTGAATAA
* *
726599 TTTGCTAAACTTTGTTGTCTGATATTATTTTGCTGAATGATATTGTATGATATTAGGGGGCTGAA
1 TTTGCTAAACTTTGTTATCTGATATTATTTTACTGAATGATATTGTATGATATTAGGGGGCTGAA
**
726664 TTGTATGTTGAATAA
66 TCATATGTTGAATAA
726679 TTT
1 TTT
726682 ACTGAATGGT
Statistics
Matches: 75, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
80 75 1.00
ACGTcount: A:0.26, C:0.06, G:0.22, T:0.46
Consensus pattern (80 bp):
TTTGCTAAACTTTGTTATCTGATATTATTTTACTGAATGATATTGTATGATATTAGGGGGCTGAA
TCATATGTTGAATAA
Found at i:732414 original size:21 final size:20
Alignment explanation
Indices: 732388--732433 Score: 83
Period size: 20 Copynumber: 2.2 Consensus size: 20
732378 TAATTTTATA
732388 TTTATATTTAAAAAATAATAT
1 TTTATATTT-AAAAATAATAT
732409 TTTATATTTAAAAATAATAT
1 TTTATATTTAAAAATAATAT
732429 TTTAT
1 TTTAT
732434 TAATTTTAGA
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
20 16 0.64
21 9 0.36
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (20 bp):
TTTATATTTAAAAATAATAT
Found at i:734117 original size:4 final size:4
Alignment explanation
Indices: 734110--734144 Score: 63
Period size: 4 Copynumber: 9.0 Consensus size: 4
734100 TTCCTCTTTC
734110 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTT- TTTA
1 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA
734145 AATTTCTTCA
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
3 3 0.10
4 27 0.90
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (4 bp):
TTTA
Found at i:736622 original size:28 final size:27
Alignment explanation
Indices: 736591--736657 Score: 71
Period size: 27 Copynumber: 2.4 Consensus size: 27
736581 ATATTATAAC
* * *
736591 AAAATAATTAATGTGATATTTAAATTTT
1 AAAATAATTAATATAATA-TTAAATTAT
*
736619 AAAAAAATTAATATAATATTAAATTAT
1 AAAATAATTAATATAATATTAAATTAT
* *
736646 AAATTTATTAAT
1 AAAATAATTAAT
736658 TAAAATGGTA
Statistics
Matches: 32, Mismatches: 7, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
27 17 0.53
28 15 0.47
ACGTcount: A:0.54, C:0.00, G:0.03, T:0.43
Consensus pattern (27 bp):
AAAATAATTAATATAATATTAAATTAT
Found at i:736648 original size:27 final size:28
Alignment explanation
Indices: 736576--736648 Score: 76
Period size: 27 Copynumber: 2.5 Consensus size: 28
736566 ATTATGAATG
* * *
736576 TATTTATATTATAACAAAATAATTAATGTGA
1 TATTTAAATTAT-A-AAAA-AATTAATATAA
*
736607 TATTTAAATTTTAAAAAAATTAATATAA
1 TATTTAAATTATAAAAAAATTAATATAA
736635 TA-TTAAATTATAAA
1 TATTTAAATTATAAA
736649 TTTATTAATT
Statistics
Matches: 37, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
27 11 0.30
28 11 0.30
29 4 0.11
30 1 0.03
31 10 0.27
ACGTcount: A:0.53, C:0.01, G:0.03, T:0.42
Consensus pattern (28 bp):
TATTTAAATTATAAAAAAATTAATATAA
Found at i:736715 original size:17 final size:17
Alignment explanation
Indices: 736666--736716 Score: 54
Period size: 17 Copynumber: 3.1 Consensus size: 17
736656 ATTAAAATGG
736666 TATTTAAAAATA-AT-T
1 TATTTAAAAATATATAT
**
736681 TATTTATAACGTAT-TAT
1 TATTTA-AAAATATATAT
736698 TATTTAAAAATATATAT
1 TATTTAAAAATATATAT
736715 TA
1 TA
736717 AATTTAATTA
Statistics
Matches: 28, Mismatches: 4, Indels: 6
0.74 0.11 0.16
Matches are distributed among these distances:
15 6 0.21
16 10 0.36
17 12 0.43
ACGTcount: A:0.47, C:0.02, G:0.02, T:0.49
Consensus pattern (17 bp):
TATTTAAAAATATATAT
Found at i:740601 original size:6 final size:6
Alignment explanation
Indices: 740587--740628 Score: 66
Period size: 6 Copynumber: 6.8 Consensus size: 6
740577 ATAGTAGGAT
*
740587 GCCCCA GCCCTA GCCCATA GCCCTA GCCCTA GCCCTA GCCCT
1 GCCCTA GCCCTA GCCC-TA GCCCTA GCCCTA GCCCTA GCCCT
740629 CGAATAAGAA
Statistics
Matches: 34, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
6 28 0.82
7 6 0.18
ACGTcount: A:0.17, C:0.52, G:0.17, T:0.14
Consensus pattern (6 bp):
GCCCTA
Found at i:740614 original size:19 final size:18
Alignment explanation
Indices: 740587--740628 Score: 66
Period size: 19 Copynumber: 2.3 Consensus size: 18
740577 ATAGTAGGAT
*
740587 GCCCCAGCCCTAGCCCATA
1 GCCCTAGCCCTAGCCC-TA
740606 GCCCTAGCCCTAGCCCTA
1 GCCCTAGCCCTAGCCCTA
740624 GCCCT
1 GCCCT
740629 CGAATAAGAA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
18 7 0.32
19 15 0.68
ACGTcount: A:0.17, C:0.52, G:0.17, T:0.14
Consensus pattern (18 bp):
GCCCTAGCCCTAGCCCTA
Found at i:742759 original size:20 final size:19
Alignment explanation
Indices: 742717--742760 Score: 61
Period size: 19 Copynumber: 2.3 Consensus size: 19
742707 AAATAAAAAC
* *
742717 AAAACTATTATTAAAACTT
1 AAAAATATTATGAAAACTT
*
742736 AAAAATATTATGAAAATTT
1 AAAAATATTATGAAAACTT
742755 AAAAAT
1 AAAAAT
742761 TCAAAAAATC
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.59, C:0.05, G:0.02, T:0.34
Consensus pattern (19 bp):
AAAAATATTATGAAAACTT
Found at i:742808 original size:30 final size:30
Alignment explanation
Indices: 742755--742818 Score: 76
Period size: 30 Copynumber: 2.1 Consensus size: 30
742745 ATGAAAATTT
* *
742755 AAAAATTCAAAAAATCTCAAAATTTTAGTA
1 AAAAATTCAAAAAATCTCAAAATTTAAATA
**
742785 AAAAATTCAAAAAAAT-TTTAAATTTAAATA
1 AAAAATTC-AAAAAATCTCAAAATTTAAATA
742815 AAAA
1 AAAA
742819 TAAAATTTTC
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
30 22 0.76
31 7 0.24
ACGTcount: A:0.62, C:0.06, G:0.02, T:0.30
Consensus pattern (30 bp):
AAAAATTCAAAAAATCTCAAAATTTAAATA
Found at i:742915 original size:29 final size:28
Alignment explanation
Indices: 742874--742930 Score: 78
Period size: 29 Copynumber: 2.0 Consensus size: 28
742864 AAATTGAAAA
742874 TAAAAAATCTAAAATTTTTTGAAGAAATT
1 TAAAAAATCTAAAATTTTTTGAA-AAATT
* * *
742903 TAAAAATTGTAAAATTTTTTTAAAAATT
1 TAAAAAATCTAAAATTTTTTGAAAAATT
742931 ATGAAAAGTT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
28 5 0.20
29 20 0.80
ACGTcount: A:0.51, C:0.02, G:0.05, T:0.42
Consensus pattern (28 bp):
TAAAAAATCTAAAATTTTTTGAAAAATT
Found at i:742937 original size:21 final size:20
Alignment explanation
Indices: 742901--742942 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 20
742891 TTTGAAGAAA
* *
742901 TTTAAAAATTGTAAAATTTT
1 TTTAAAAATTATAAAAGTTT
742921 TTTAAAAATTATGAAAAGTTT
1 TTTAAAAATTAT-AAAAGTTT
742942 T
1 T
742943 CATTGTTTTG
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
20 11 0.58
21 8 0.42
ACGTcount: A:0.45, C:0.00, G:0.07, T:0.48
Consensus pattern (20 bp):
TTTAAAAATTATAAAAGTTT
Found at i:743076 original size:20 final size:20
Alignment explanation
Indices: 743053--743094 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
743043 TTCTTTTTCC
*
743053 TTTTT-ATTTTTCACAATTT
1 TTTTTAATTTTTAACAATTT
*
743072 TTTTTAATTTTTAATAATTT
1 TTTTTAATTTTTAACAATTT
743092 TTT
1 TTT
743095 AAAATGTTTC
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
19 5 0.25
20 15 0.75
ACGTcount: A:0.24, C:0.05, G:0.00, T:0.71
Consensus pattern (20 bp):
TTTTTAATTTTTAACAATTT
Found at i:743111 original size:18 final size:17
Alignment explanation
Indices: 743088--743131 Score: 52
Period size: 18 Copynumber: 2.5 Consensus size: 17
743078 ATTTTTAATA
743088 ATTTTTTAAAATGTTTC
1 ATTTTTTAAAATGTTTC
* * *
743105 ATATTTTTGAAATTTTTT
1 AT-TTTTTAAAATGTTTC
743123 ATTTTTTAA
1 ATTTTTTAA
743132 GATTGTTTTA
Statistics
Matches: 22, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
17 8 0.36
18 14 0.64
ACGTcount: A:0.30, C:0.02, G:0.05, T:0.64
Consensus pattern (17 bp):
ATTTTTTAAAATGTTTC
Found at i:743140 original size:18 final size:17
Alignment explanation
Indices: 743088--743141 Score: 56
Period size: 19 Copynumber: 3.1 Consensus size: 17
743078 ATTTTTAATA
*
743088 ATTTTTTAAAATGTTTCAT
1 ATTTTTTAAATTGTTT--T
*
743107 ATTTTTGAAATT-TTTT
1 ATTTTTTAAATTGTTTT
743123 ATTTTTTAAGATTGTTTT
1 ATTTTTTAA-ATTGTTTT
743141 A
1 A
743142 AAATTTTCAA
Statistics
Matches: 30, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
16 9 0.30
17 3 0.10
18 8 0.27
19 10 0.33
ACGTcount: A:0.28, C:0.02, G:0.07, T:0.63
Consensus pattern (17 bp):
ATTTTTTAAATTGTTTT
Found at i:743148 original size:19 final size:18
Alignment explanation
Indices: 743126--743176 Score: 68
Period size: 19 Copynumber: 2.8 Consensus size: 18
743116 ATTTTTTATT
*
743126 TTTTAAGATTGTTTTAAAA
1 TTTTAAAATT-TTTTAAAA
743145 TTTTCAAAATTTTTTAAAA
1 TTTT-AAAATTTTTTAAAA
743164 TTTT-AAATTTTTT
1 TTTTAAAATTTTTT
743177 CCTAAAAATT
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
17 9 0.30
19 16 0.53
20 5 0.17
ACGTcount: A:0.35, C:0.02, G:0.04, T:0.59
Consensus pattern (18 bp):
TTTTAAAATTTTTTAAAA
Found at i:743157 original size:46 final size:47
Alignment explanation
Indices: 743071--743176 Score: 119
Period size: 46 Copynumber: 2.3 Consensus size: 47
743061 TTTCACAATT
* * *
743071 TTTTTTAATTTTTAATAATTTTTTAAAATGTTTCATA-TTTTTGAAA
1 TTTTTTATTTTTTAATAATTTTTTAAAATGTTTCAAATTTTTTAAAA
*
743117 TTTTTTATTTTTTAA-GATTGTTTTAAAAT-TTTCAAAATTTTTTAAAA
1 TTTTTTATTTTTTAATAATT-TTTTAAAATGTTTC-AAATTTTTTAAAA
**
743164 TTTTAAATTTTTT
1 TTTTTTATTTTTT
743177 CCTAAAAATT
Statistics
Matches: 51, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
45 7 0.14
46 25 0.49
47 19 0.37
ACGTcount: A:0.32, C:0.02, G:0.04, T:0.62
Consensus pattern (47 bp):
TTTTTTATTTTTTAATAATTTTTTAAAATGTTTCAAATTTTTTAAAA
Found at i:743324 original size:18 final size:18
Alignment explanation
Indices: 743274--743331 Score: 55
Period size: 18 Copynumber: 3.2 Consensus size: 18
743264 TATTTTTTTG
*
743274 AATTTTGAA-TTTTTTAA
1 AATTTTCAAGTTTTTTAA
** *
743291 ATATTTTTTAGATTTTTAA
1 A-ATTTTCAAGTTTTTTAA
*
743310 AATTTTCAAGTTTTTTGA
1 AATTTTCAAGTTTTTTAA
743328 AATT
1 AATT
743332 CTGAAAATTT
Statistics
Matches: 32, Mismatches: 7, Indels: 3
0.76 0.17 0.07
Matches are distributed among these distances:
17 1 0.03
18 23 0.72
19 8 0.25
ACGTcount: A:0.33, C:0.02, G:0.07, T:0.59
Consensus pattern (18 bp):
AATTTTCAAGTTTTTTAA
Found at i:748757 original size:34 final size:34
Alignment explanation
Indices: 748714--748782 Score: 129
Period size: 34 Copynumber: 2.0 Consensus size: 34
748704 ATTGGTTTAC
*
748714 ATAGTTAAAAATGGAAAGACTGCTTTAAAAGCAT
1 ATAGTTAAAAATGGAAACACTGCTTTAAAAGCAT
748748 ATAGTTAAAAATGGAAACACTGCTTTAAAAGCAT
1 ATAGTTAAAAATGGAAACACTGCTTTAAAAGCAT
748782 A
1 A
748783 AAAAGAAGTT
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 34 1.00
ACGTcount: A:0.48, C:0.10, G:0.16, T:0.26
Consensus pattern (34 bp):
ATAGTTAAAAATGGAAACACTGCTTTAAAAGCAT
Found at i:752246 original size:40 final size:40
Alignment explanation
Indices: 752191--752270 Score: 124
Period size: 40 Copynumber: 2.0 Consensus size: 40
752181 CTTTGCCCTT
* * *
752191 TATTTGAAGTTATATCAGTCAATTATGCATTTAGTTAATG
1 TATTTGAAGTTATATCAGTCAAATATGCATTCAATTAATG
*
752231 TATTTGAAGTTATATCTGTCAAATATGCATTCAATTAATG
1 TATTTGAAGTTATATCAGTCAAATATGCATTCAATTAATG
752271 AACTTAGTGG
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
40 36 1.00
ACGTcount: A:0.34, C:0.09, G:0.14, T:0.44
Consensus pattern (40 bp):
TATTTGAAGTTATATCAGTCAAATATGCATTCAATTAATG
Found at i:755122 original size:6 final size:6
Alignment explanation
Indices: 755113--755154 Score: 57
Period size: 6 Copynumber: 7.0 Consensus size: 6
755103 CCAAACTCAA
* * *
755113 AACTCC AACTCC GACTCC CACTCC AACGCC AACTCC AACTCC
1 AACTCC AACTCC AACTCC AACTCC AACTCC AACTCC AACTCC
755155 CCTGTTTTGG
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
6 31 1.00
ACGTcount: A:0.29, C:0.52, G:0.05, T:0.14
Consensus pattern (6 bp):
AACTCC
Found at i:756297 original size:22 final size:22
Alignment explanation
Indices: 756270--756311 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
756260 GACACTTTTC
*
756270 TCTCCAGCCATCTCAAGGCCTT
1 TCTCCAGCCAACTCAAGGCCTT
*
756292 TCTCCAGCTAACTCAAGGCC
1 TCTCCAGCCAACTCAAGGCC
756312 CCATAACCTT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.21, C:0.40, G:0.14, T:0.24
Consensus pattern (22 bp):
TCTCCAGCCAACTCAAGGCCTT
Found at i:769215 original size:26 final size:26
Alignment explanation
Indices: 769169--769232 Score: 94
Period size: 26 Copynumber: 2.5 Consensus size: 26
769159 AATTATTAGA
*
769169 ATATTAAAAGTTATTTATTATTAAAAT
1 ATATTAAAA-TTATTTATTATCAAAAT
769196 ATATTAAAATTATTTATTATCAAAAT
1 ATATTAAAATTATTTATTATCAAAAT
*
769222 -TATTAATATTA
1 ATATTAAAATTA
769233 AAAATAATTA
Statistics
Matches: 35, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
25 10 0.29
26 16 0.46
27 9 0.26
ACGTcount: A:0.48, C:0.02, G:0.02, T:0.48
Consensus pattern (26 bp):
ATATTAAAATTATTTATTATCAAAAT
Found at i:769232 original size:9 final size:9
Alignment explanation
Indices: 769159--769232 Score: 50
Period size: 9 Copynumber: 8.6 Consensus size: 9
769149 ATATTAATAT
*
769159 AATTATTAG
1 AATTATTAA
769168 AA-TATTAA
1 AATTATTAA
769176 AAGTTATT--
1 AA-TTATTAA
*
769184 TATTATTAA
1 AATTATTAA
769193 AATATATTAA
1 AAT-TATTAA
769203 AATTATT--
1 AATTATTAA
* *
769210 TATTATCAA
1 AATTATTAA
769219 AATTATTAA
1 AATTATTAA
*
769228 TATTA
1 AATTA
769233 AAAATAATTA
Statistics
Matches: 50, Mismatches: 8, Indels: 14
0.69 0.11 0.19
Matches are distributed among these distances:
7 10 0.20
8 8 0.16
9 19 0.38
10 13 0.26
ACGTcount: A:0.49, C:0.01, G:0.03, T:0.47
Consensus pattern (9 bp):
AATTATTAA
Found at i:769236 original size:16 final size:16
Alignment explanation
Indices: 769196--769289 Score: 52
Period size: 16 Copynumber: 5.7 Consensus size: 16
769186 TTATTAAAAT
769196 ATATT-AAAATTATT-
1 ATATTAAAAATTATTA
769210 -TATTATCAAAATTATTA
1 ATATTA--AAAATTATTA
*
769227 ATATTAAAAATAATTA
1 ATATTAAAAATTATTA
* *
769243 TATTTTAATAA-TATTTA
1 -ATATTAAAAATTA-TTA
*
769260 ATATCAAAATATTATATTA
1 ATATTAAAA-A-T-TATTA
*
769279 ATATAAAAAAT
1 ATATTAAAAAT
769290 ACTTAAAATA
Statistics
Matches: 61, Mismatches: 8, Indels: 19
0.69 0.09 0.22
Matches are distributed among these distances:
13 4 0.07
16 25 0.41
17 13 0.21
18 6 0.10
19 11 0.18
20 2 0.03
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.45
Consensus pattern (16 bp):
ATATTAAAAATTATTA
Found at i:769245 original size:15 final size:15
Alignment explanation
Indices: 769195--769246 Score: 54
Period size: 16 Copynumber: 3.4 Consensus size: 15
769185 ATTATTAAAA
769195 TATATT-AAAATTAT
1 TATATTAAAAATTAT
769209 T-TATTATCAAAATTAT
1 TATATTA--AAAATTAT
*
769225 TAATATTAAAAATAAT
1 T-ATATTAAAAATTAT
769241 TATATT
1 TATATT
769247 TTAATAATAT
Statistics
Matches: 32, Mismatches: 1, Indels: 9
0.76 0.02 0.21
Matches are distributed among these distances:
13 4 0.12
14 1 0.03
15 5 0.16
16 17 0.53
18 5 0.16
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (15 bp):
TATATTAAAAATTAT
Found at i:769360 original size:18 final size:17
Alignment explanation
Indices: 769317--769620 Score: 142
Period size: 18 Copynumber: 18.7 Consensus size: 17
769307 TTATTGTTTT
769317 TATATTATTTATT-A-A
1 TATATTATTTATTAATA
769332 TATATTA--TATTAATA
1 TATATTATTTATTAATA
769347 GTATATTATTTATTAATAA
1 -TATATTATTTATTAAT-A
* *
769366 TATGTTATTTATT--CA
1 TATATTATTTATTAATA
769381 TATATTA-TTA-TAATA
1 TATATTATTTATTAATA
* *
769396 TTTATTAATTA--AAT-
1 TATATTATTTATTAATA
*
769410 TAATAATATTTATT-AT-
1 T-ATATTATTTATTAATA
* *
769426 TTTATTATTTATCAATATAA
1 TATATTATTTAT-TA-AT-A
769446 TAATATTATTTATTAATA
1 T-ATATTATTTATTAATA
*
769464 TAATATCATTTATTAATA
1 T-ATATTATTTATTAATA
*
769482 T-TA--A--TATTAGTA
1 TATATTATTTATTAATA
769494 TA-A-TATTTATTAATA
1 TATATTATTTATTAATA
* *
769509 TATTATAATGTTATTTAT-
1 TA-TATTAT-TTATTAATA
*
769527 TA-ATAATTATATTAATA
1 TATATTATT-TATTAATA
*
769544 GTATATTATTTATTCATA
1 -TATATTATTTATTAATA
769562 TAATATTATTTATT-AT-
1 T-ATATTATTTATTAATA
*
769578 TATATTA--TAAT-ATA
1 TATATTATTTATTAATA
*
769592 -ATATTATTTATTAAAA
1 TATATTATTTATTAATA
*
769608 TAAAATTATTTAT
1 T-ATATTATTTAT
769621 AAGTAAAATT
Statistics
Matches: 227, Mismatches: 25, Indels: 71
0.70 0.08 0.22
Matches are distributed among these distances:
12 9 0.04
13 17 0.07
14 6 0.03
15 60 0.26
16 29 0.13
17 4 0.02
18 75 0.33
19 15 0.07
20 2 0.01
21 10 0.04
ACGTcount: A:0.42, C:0.01, G:0.02, T:0.55
Consensus pattern (17 bp):
TATATTATTTATTAATA
Found at i:769418 original size:22 final size:25
Alignment explanation
Indices: 769357--769424 Score: 79
Period size: 22 Copynumber: 2.7 Consensus size: 25
769347 GTATATTATT
*
769357 TATTAATAATATGTTATTTATTCATA
1 TATTAATAATAT-TTATTAATTCATA
769383 TATTATTATAATATTTATTAATT-A-A
1 TATTA--ATAATATTTATTAATTCATA
769408 -ATTAATAATATTTATTA
1 TATTAATAATATTTATTA
769425 TTTTATTATT
Statistics
Matches: 39, Mismatches: 1, Indels: 8
0.81 0.02 0.17
Matches are distributed among these distances:
22 13 0.33
24 4 0.10
25 1 0.03
26 6 0.15
27 8 0.21
28 7 0.18
ACGTcount: A:0.43, C:0.01, G:0.01, T:0.54
Consensus pattern (25 bp):
TATTAATAATATTTATTAATTCATA
Found at i:769452 original size:21 final size:21
Alignment explanation
Indices: 769428--769468 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
769418 TTTATTATTT
769428 TATTATTTATCAATATAATAA
1 TATTATTTATCAATATAATAA
*
769449 TATTATTTATTAATATAATA
1 TATTATTTATCAATATAATA
769469 TCATTTATTA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.46, C:0.02, G:0.00, T:0.51
Consensus pattern (21 bp):
TATTATTTATCAATATAATAA
Found at i:769511 original size:23 final size:22
Alignment explanation
Indices: 769317--769582 Score: 107
Period size: 23 Copynumber: 11.1 Consensus size: 22
769307 TTATTGTTTT
*
769317 TATATTATTTATTAATATATTA
1 TATAATATTTATTAATATATTA
* *
769339 TATTAATAGTATATT-ATTTATTA
1 TA-TAATA-TTTATTAATATATTA
769362 -ATAATATGTTATTTATTCATATATTA
1 TATAATAT-TTA-TTA---ATATATTA
*
769388 TTATAATATTTATTAATTAAATTA
1 -TATAATATTTATTAA-TATATTA
* *
769412 -ATAATATTTATTATTTTATTA
1 TATAATATTTATTAATATATTA
*
769433 TTTATCAATATAATAATATT-ATTTATTAA
1 --TAT-AATAT--T--TATTAATATATT-A
769462 TATAATATCATTTATTAATATTAATATTA
1 TAT-A-AT-ATTTATT-A-A-T-ATATTA
769491 GTATAATATTTATTAATATATTA
1 -TATAATATTTATTAATATATTA
**
769514 TAATGTTATTTATTAATA-ATTA
1 T-ATAATATTTATTAATATATTA
* *
769536 TATTAATAGTATATT-ATTTATTCA
1 TA-TAATA-TTTATTAATATATT-A
*
769560 TATAATA-TTATTTAT-TATTA
1 TATAATATTTATTAATATATTA
769580 TAT
1 TAT
769583 TATAATATAA
Statistics
Matches: 191, Mismatches: 19, Indels: 70
0.68 0.07 0.25
Matches are distributed among these distances:
20 5 0.03
21 21 0.11
22 31 0.16
23 45 0.24
24 17 0.09
25 10 0.05
26 11 0.06
27 16 0.08
28 18 0.09
29 10 0.05
30 7 0.04
ACGTcount: A:0.41, C:0.02, G:0.02, T:0.55
Consensus pattern (22 bp):
TATAATATTTATTAATATATTA
Found at i:769526 original size:126 final size:126
Alignment explanation
Indices: 769371--769605 Score: 286
Period size: 126 Copynumber: 1.9 Consensus size: 126
769361 AATAATATGT
* * *
769371 TATTTATTCATATATTATTATAATATTTATTAATTAAATTA-A-TAATA-TTTATTATTTTATT-
1 TATTTATTAATATATTATAATAATATTTATTAA-T-AATTATATTAATAGTATATTA-TTTATTC
769432 ATTTATCAATATAATA-A-TATTAT-TTATTAATATAATATCATTTATTAATATTAATATTAGTA
63 A--TAT-AATATAATATATTATTATATTA-TAATATAATATCATTTATTAATATTAATATTAGTA
769494 TAA
124 TAA
**
769497 TATTTATTAATATATTATAATGTTATTTATTAATAATTATATTAATAGTATATTATTTATTCATA
1 TATTTATTAATATATTATAATAATATTTATTAATAATTATATTAATAGTATATTATTTATTCATA
* * *
769562 TAATATTATTTATTATTATATTATAATATAATATTATTTATTAA
66 TAATATAATATATTATTATATTATAATATAATATCATTTATTAA
769606 AATAAAATTA
Statistics
Matches: 94, Mismatches: 8, Indels: 14
0.81 0.07 0.12
Matches are distributed among these distances:
124 12 0.13
125 6 0.06
126 66 0.70
127 10 0.11
ACGTcount: A:0.42, C:0.02, G:0.01, T:0.55
Consensus pattern (126 bp):
TATTTATTAATATATTATAATAATATTTATTAATAATTATATTAATAGTATATTATTTATTCATA
TAATATAATATATTATTATATTATAATATAATATCATTTATTAATATTAATATTAGTATAA
Found at i:769642 original size:18 final size:17
Alignment explanation
Indices: 769600--769643 Score: 56
Period size: 16 Copynumber: 2.6 Consensus size: 17
769590 TAATATTATT
769600 TATTAAAA-TAAAATTA
1 TATTAAAAGTAAAATTA
*
769616 T-TTATAAGTAAAATTA
1 TATTAAAAGTAAAATTA
769632 TATTCAAAAGTA
1 TATT-AAAAGTA
769644 TTGATAAATA
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
15 5 0.22
16 10 0.43
17 2 0.09
18 6 0.26
ACGTcount: A:0.55, C:0.02, G:0.05, T:0.39
Consensus pattern (17 bp):
TATTAAAAGTAAAATTA
Found at i:772617 original size:2 final size:2
Alignment explanation
Indices: 772610--772658 Score: 64
Period size: 2 Copynumber: 24.5 Consensus size: 2
772600 GTGAATCGAG
* *
772610 AT AT AT AT CT AT AT AT AT AT AT AT AT AA AT GA- AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT -AT AT AT AT AT AT
772652 AT AT AT A
1 AT AT AT A
772659 AATGAATTCT
Statistics
Matches: 41, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
1 1 0.02
2 39 0.95
3 1 0.02
ACGTcount: A:0.51, C:0.02, G:0.02, T:0.45
Consensus pattern (2 bp):
AT
Found at i:772645 original size:22 final size:22
Alignment explanation
Indices: 772620--772665 Score: 92
Period size: 22 Copynumber: 2.1 Consensus size: 22
772610 ATATATATCT
772620 ATATATATATATATATAAATGA
1 ATATATATATATATATAAATGA
772642 ATATATATATATATATAAATGA
1 ATATATATATATATATAAATGA
772664 AT
1 AT
772666 TCTTAACGTA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.54, C:0.00, G:0.04, T:0.41
Consensus pattern (22 bp):
ATATATATATATATATAAATGA
Found at i:772817 original size:52 final size:53
Alignment explanation
Indices: 772703--772817 Score: 116
Period size: 52 Copynumber: 2.2 Consensus size: 53
772693 ATTAAAATAA
* * *
772703 AATT-ATATTTATTTTTAATAATTTATAATAATTTATAAACTAAAATTATATT
1 AATTAATATTTATTTTAAATAATTTATAATAATTGATAAACTAAAATTACATT
* *
772755 AAATAA-ATTTACTTATTAAAT-ATTTA-AATTATTGATAAA-T-AAATTACATTT
1 AATTAATATTTA-TT-TTAAATAATTTATAATAATTGATAAACTAAAATTACA-TT
772806 AATTAATATTTA
1 AATTAATATTTA
772818 GCAAAAATAA
Statistics
Matches: 52, Mismatches: 6, Indels: 10
0.76 0.09 0.15
Matches are distributed among these distances:
50 7 0.13
51 8 0.15
52 24 0.46
53 8 0.15
54 5 0.10
ACGTcount: A:0.48, C:0.03, G:0.01, T:0.49
Consensus pattern (53 bp):
AATTAATATTTATTTTAAATAATTTATAATAATTGATAAACTAAAATTACATT
Found at i:776893 original size:97 final size:100
Alignment explanation
Indices: 776756--776957 Score: 268
Period size: 97 Copynumber: 2.0 Consensus size: 100
776746 ACATTTCACA
* * *
776756 CTCTTGTGAGGTATTATCCGTTATGACCTTTTGATCTCACGATTTTGTCT-CATAAAAAAC-AT-
1 CTCTTGTGAGGTATTATCCGTTATGACATTCTGATATCACGATTTTGT-TGCATAAAAAACGATA
776818 C-TGAGAAGAATACGTGAAACCCTTATATCTTATGG
65 CATGAGAAGAATACGTGAAACCCTTATATCTTATGG
* * *
776853 CTCTTGTGAGGTATTATCCGTTCTGACATTCTGATATCACGATTTTGTTGCATAAAAGACGTCTC
1 CTCTTGTGAGGTATTATCCGTTATGACATTCTGATATCACGATTTTGTTGCATAAAAAACG-AT-
* *
776918 ACAATGAGAGGAATGCGTGAAACCCTTATATCTTATGG
64 AC-ATGAGAAGAATACGTGAAACCCTTATATCTTATGG
776956 CT
1 CT
776958 AAGATTTTGT
Statistics
Matches: 90, Mismatches: 8, Indels: 8
0.85 0.08 0.08
Matches are distributed among these distances:
96 1 0.01
97 53 0.59
99 1 0.01
101 1 0.01
103 34 0.38
ACGTcount: A:0.28, C:0.19, G:0.18, T:0.35
Consensus pattern (100 bp):
CTCTTGTGAGGTATTATCCGTTATGACATTCTGATATCACGATTTTGTTGCATAAAAAACGATAC
ATGAGAAGAATACGTGAAACCCTTATATCTTATGG
Found at i:777001 original size:67 final size:66
Alignment explanation
Indices: 776893--777025 Score: 221
Period size: 67 Copynumber: 2.0 Consensus size: 66
776883 CTGATATCAC
** *
776893 GATTTTGTTGCATAAAAGACGTCTCACAATGAGAGGAATGCGTGAAACCCTTATATCTTATGGCT
1 GATTTTGTCCCATAAAAGACGTCTCACAATGAGAAGAATGCGTG-AACCCTTATATCTTATGGCT
776958 AA
65 AA
*
776960 GATTTTGTCCCATAAAAGATGTCTCACAATGAGAAGAATGCGTGAACCCTTATATCTTATGGCTA
1 GATTTTGTCCCATAAAAGACGTCTCACAATGAGAAGAATGCGTGAACCCTTATATCTTATGGCTA
777025 A
66 A
777026 TTTTATTACA
Statistics
Matches: 62, Mismatches: 4, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
66 22 0.35
67 40 0.65
ACGTcount: A:0.33, C:0.17, G:0.20, T:0.30
Consensus pattern (66 bp):
GATTTTGTCCCATAAAAGACGTCTCACAATGAGAAGAATGCGTGAACCCTTATATCTTATGGCTA
A
Found at i:779073 original size:127 final size:127
Alignment explanation
Indices: 778847--779100 Score: 508
Period size: 127 Copynumber: 2.0 Consensus size: 127
778837 TGGAGAAATC
778847 TCACCAAATAGGTAACTCAACAAATACACTCTGGATTTGTTCTTAGAGAGCTTTAAATCCAATTT
1 TCACCAAATAGGTAACTCAACAAATACACTCTGGATTTGTTCTTAGAGAGCTTTAAATCCAATTT
778912 TCACTGTTCAAAATGTAAAACTCTAAATCATAAACTTGTTGATAAAATTTTAGCTCAATCAG
66 TCACTGTTCAAAATGTAAAACTCTAAATCATAAACTTGTTGATAAAATTTTAGCTCAATCAG
778974 TCACCAAATAGGTAACTCAACAAATACACTCTGGATTTGTTCTTAGAGAGCTTTAAATCCAATTT
1 TCACCAAATAGGTAACTCAACAAATACACTCTGGATTTGTTCTTAGAGAGCTTTAAATCCAATTT
779039 TCACTGTTCAAAATGTAAAACTCTAAATCATAAACTTGTTGATAAAATTTTAGCTCAATCAG
66 TCACTGTTCAAAATGTAAAACTCTAAATCATAAACTTGTTGATAAAATTTTAGCTCAATCAG
779101 ACTACGGTTG
Statistics
Matches: 127, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
127 127 1.00
ACGTcount: A:0.38, C:0.18, G:0.11, T:0.33
Consensus pattern (127 bp):
TCACCAAATAGGTAACTCAACAAATACACTCTGGATTTGTTCTTAGAGAGCTTTAAATCCAATTT
TCACTGTTCAAAATGTAAAACTCTAAATCATAAACTTGTTGATAAAATTTTAGCTCAATCAG
Found at i:783543 original size:17 final size:17
Alignment explanation
Indices: 783529--783568 Score: 80
Period size: 17 Copynumber: 2.4 Consensus size: 17
783519 GTAATAATAG
783529 ACAACAATCAATAATCA
1 ACAACAATCAATAATCA
783546 ACAACAATCAATAATCA
1 ACAACAATCAATAATCA
783563 ACAACA
1 ACAACA
783569 CAAGAAAAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 23 1.00
ACGTcount: A:0.60, C:0.25, G:0.00, T:0.15
Consensus pattern (17 bp):
ACAACAATCAATAATCA
Found at i:785884 original size:62 final size:65
Alignment explanation
Indices: 785813--785950 Score: 165
Period size: 64 Copynumber: 2.2 Consensus size: 65
785803 ATATAATTGA
* * * * *
785813 ATTATTTAAGACGTTTTCTGG-CAAATATACCTTAATTAAACCTTGTAT-AATTTTTT-TAAAAG
1 ATTATTTAAGACATTTTCTGGAAAAAAATACCTTAAATAAACCTTATATAAATTTTTTGTAAAAG
* * * *
785875 ATTATTTAAGGCATTTTCTGGTAAAAAAATGCCTTAAATAATCTTTATATAAATTTTTTGTAAAA
1 ATTATTTAAGACATTTTCTGG-AAAAAAATACCTTAAATAAACCTTATATAAATTTTTTGTAAAA
785940 G
65 G
785941 ATTATTTAAG
1 ATTATTTAAG
785951 GTATTTTTGG
Statistics
Matches: 63, Mismatches: 9, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
62 19 0.30
64 20 0.32
65 8 0.13
66 16 0.25
ACGTcount: A:0.38, C:0.09, G:0.10, T:0.43
Consensus pattern (65 bp):
ATTATTTAAGACATTTTCTGGAAAAAAATACCTTAAATAAACCTTATATAAATTTTTTGTAAAAG
Found at i:786078 original size:126 final size:126
Alignment explanation
Indices: 785898--786279 Score: 448
Period size: 125 Copynumber: 3.0 Consensus size: 126
785888 TTTTCTGGTA
**** *
785898 AAAAAATGCCTTAAATAATCTTTATATAAATTTTTTGTAAAAGATTATTTAAGGTATTTTTGGGT
1 AAAAAATGCCTTAAATAATCCCCGTA-CAATTTTTTGTAAAAGATTATTTAAGGTATTTTTGGGT
* ** * * *
785963 AGAAAACACCTTAAATAATTCCATTAAAAAATCAAATGAGATTAGTCAAGGTTTTTTCTAAC
65 AGAAAACGCCTTAAATAATTCCATTAAAAAATTGAATGGGATTATTCAAGGTATTTTCTAAC
* * *
786025 TAAAAATGCCTTAAATAATCCCCGTACAATTTTTTGTAAAGGATTATTTAAGGTGTTTTTGGGTA
1 AAAAAATGCCTTAAATAATCCCCGTACAATTTTTTGTAAAAGATTATTTAAGGTATTTTTGGGTA
* * * * * * *
786090 GAAAATGCCTTAAA-CATTGCTAGT-CAAAATTGAATGGGATTATTTAAGGTATTTTCTAGC
66 GAAAACGCCTTAAATAATT-CCATTAAAAAATTGAATGGGATTATTCAAGGTATTTTCTAAC
* ** **
786150 AAAAAATGCCTTAAATAATCCCCGTACAATTTTTT-AAAAAGATTATTTAAGACATTTTTGACTA
1 AAAAAATGCCTTAAATAATCCCCGTACAATTTTTTGTAAAAGATTATTTAAGGTATTTTTGGGTA
* * *
786214 GAAAACGCCTTAAATAA-TCCTTTAAAAAATTGAATGGGATTATTCAAGATATTTTCTGATC
66 GAAAACGCCTTAAATAATTCCATTAAAAAATTGAATGGGATTATTCAAGGTATTTTCT-AAC
786275 AAAAA
1 AAAAA
786280 CACCTTAAAT
Statistics
Matches: 213, Mismatches: 38, Indels: 10
0.82 0.15 0.04
Matches are distributed among these distances:
123 2 0.01
124 66 0.31
125 73 0.34
126 51 0.24
127 21 0.10
ACGTcount: A:0.40, C:0.11, G:0.13, T:0.36
Consensus pattern (126 bp):
AAAAAATGCCTTAAATAATCCCCGTACAATTTTTTGTAAAAGATTATTTAAGGTATTTTTGGGTA
GAAAACGCCTTAAATAATTCCATTAAAAAATTGAATGGGATTATTCAAGGTATTTTCTAAC
Found at i:786171 original size:125 final size:125
Alignment explanation
Indices: 785874--786350 Score: 423
Period size: 125 Copynumber: 3.8 Consensus size: 125
785864 TTTTTTAAAA
* * * * **** *
785874 GATTATTTAAGGCATTTTCTGGTAAAAAAATGCCTTAAATAATCTTTATATAAATTTTTTGTAAA
1 GATTATTCAAGGTATTTTCTAG-CAAAAAATGCCTTAAATAATCCCCGTA-CAATTTTTTGTAAA
* * * * ** *
785939 AGATTATTTAAGGTATTTTTGGGTAGAAAACACCTTAAATAATTCCATTAAAAAATCAAATGA
64 AGATTATTTAAGATATTTTTGAGTAGAAAACGCCTTAAA-AATTCTATTAAAAAATTGAATGG
* * * * *
786002 GATTAGTCAAGGTTTTTTCTAACTAAAAATGCCTTAAATAATCCCCGTACAATTTTTTGTAAAGG
1 GATTATTCAAGGTATTTTCTAGCAAAAAATGCCTTAAATAATCCCCGTACAATTTTTTGTAAAAG
* * * * * * *
786067 ATTATTTAAGGTGTTTTTGGGTAGAAAATGCCTTAAACATTGCTAGT-CAAAATTGAATGG
66 ATTATTTAAGATATTTTTGAGTAGAAAACGCCTTAAAAATT-CTATTAAAAAATTGAATGG
* *
786127 GATTATTTAAGGTATTTTCTAGCAAAAAATGCCTTAAATAATCCCCGTACAATTTTTT-AAAAAG
1 GATTATTCAAGGTATTTTCTAGCAAAAAATGCCTTAAATAATCCCCGTACAATTTTTTGTAAAAG
* * *
786191 ATTATTTAAGACATTTTTGACTAGAAAACGCCTTAAATAATCCT-TTAAAAAATTGAATGG
66 ATTATTTAAGATATTTTTGAGTAGAAAACGCCTTAAA-AATTCTATTAAAAAATTGAATGG
* * * * *
786251 GATTATTCAAGATATTTTCTGATCAAAAACA--CCTTAAATGATCCTCCTTA-ATATTTTTAGT-
1 GATTATTCAAGGTATTTTCT-AGCAAAAA-ATGCCTTAAATAATCC-CCGTACA-ATTTTTTGTA
* * ** *
786312 -AA-ATTATTTAAGATGTTTTTAAACAGAAAATGCCTTAAA
62 AAAGATTATTTAAGATATTTTTGAGTAGAAAACGCCTTAAA
786351 TAATCCTCCT
Statistics
Matches: 287, Mismatches: 54, Indels: 21
0.79 0.15 0.06
Matches are distributed among these distances:
123 32 0.11
124 82 0.29
125 84 0.29
126 52 0.18
127 21 0.07
128 16 0.06
ACGTcount: A:0.39, C:0.12, G:0.13, T:0.37
Consensus pattern (125 bp):
GATTATTCAAGGTATTTTCTAGCAAAAAATGCCTTAAATAATCCCCGTACAATTTTTTGTAAAAG
ATTATTTAAGATATTTTTGAGTAGAAAACGCCTTAAAAATTCTATTAAAAAATTGAATGG
Found at i:786247 original size:124 final size:125
Alignment explanation
Indices: 785874--786357 Score: 419
Period size: 124 Copynumber: 3.9 Consensus size: 125
785864 TTTTTTAAAA
* * * * **** * *
785874 GATTATTTAAGGCATTTTCTGGTAAAAAAATGCCTTAAATAATCTTTATATAAATTTTTTGTAAA
1 GATTATTCAAGGTATTTTCTAG-CAAAAAATGCCTTAAATAATCCCCGTA-CAATTTTTTGAAAA
* ** * * ** *
785939 AGATTATTTAAGGTATTTTTGGGTAGAAAACACCTTAAATAATTCCATTAAAAAATCAAATGA
64 AGATTATTTAAGATATTTTTGACTAGAAAACGCCTTAAATAA-TCCTTTAAAAAATTGAATGG
* * * * * *
786002 GATTAGTCAAGGTTTTTTCTAACTAAAAATGCCTTAAATAATCCCCGTACAATTTTTTGTAAAGG
1 GATTATTCAAGGTATTTTCTAGCAAAAAATGCCTTAAATAATCCCCGTACAATTTTTTGAAAAAG
* * ** * * * * * *
786067 ATTATTTAAGGTGTTTTTGGGTAGAAAATGCCTTAAACATTGCTAGT-CAAAATTGAATGG
66 ATTATTTAAGATATTTTTGACTAGAAAACGCCTTAAATAATCCT-TTAAAAAATTGAATGG
*
786127 GATTATTTAAGGTATTTTCTAGCAAAAAATGCCTTAAATAATCCCCGTACAATTTTTT-AAAAAG
1 GATTATTCAAGGTATTTTCTAGCAAAAAATGCCTTAAATAATCCCCGTACAATTTTTTGAAAAAG
*
786191 ATTATTTAAGACATTTTTGACTAGAAAACGCCTTAAATAATCCTTTAAAAAATTGAATGG
66 ATTATTTAAGATATTTTTGACTAGAAAACGCCTTAAATAATCCTTTAAAAAATTGAATGG
* * * * *
786251 GATTATTCAAGATATTTTCTGATCAAAAACA--CCTTAAATGATCCTCC-T-TAATATTTTT-AG
1 GATTATTCAAGGTATTTTCT-AGCAAAAA-ATGCCTTAAATAATCC-CCGTACAAT-TTTTTGAA
* * * *
786311 TAA-ATTATTTAAGATGTTTTTAAAC-AGAAAATGCCTTAAATAATCCT
62 AAAGATTATTTAAGATATTTTT-GACTAGAAAACGCCTTAAATAATCCT
786358 CCTTTAATTT
Statistics
Matches: 294, Mismatches: 55, Indels: 19
0.80 0.15 0.05
Matches are distributed among these distances:
123 41 0.14
124 92 0.31
125 73 0.25
126 51 0.17
127 21 0.07
128 16 0.05
ACGTcount: A:0.38, C:0.12, G:0.12, T:0.37
Consensus pattern (125 bp):
GATTATTCAAGGTATTTTCTAGCAAAAAATGCCTTAAATAATCCCCGTACAATTTTTTGAAAAAG
ATTATTTAAGATATTTTTGACTAGAAAACGCCTTAAATAATCCTTTAAAAAATTGAATGG
Found at i:790046 original size:61 final size:59
Alignment explanation
Indices: 789905--790165 Score: 278
Period size: 61 Copynumber: 4.4 Consensus size: 59
789895 AATACTTTCA
* *
789905 ACTTTCAACTTTTCCTCAAAAAAACTTTTTTTGAAAATTTATTCTTAATG-AAAGTTGAT
1 ACTTTCAACTTTTTCTCAAAAAAACTTTTTTTGAAAATTTATTCTTAA-GAAAAATTGAT
* * ** * ** *
789964 ACTTTTAAC-TTTTCCCTAAAAATATTTTTTTTTGAAATTCTTAATT-TCGAGGAAAATTGAT
1 ACTTTCAACTTTTTCTC-AAAAA-AACTTTTTTTGAAAAT-TT-ATTCTTAAGAAAAATTGAT
* *
790025 ACTTTCAACTTTTTCTCAAAAAAA-TCTTTTTGAAGATTTATTCTTAAGAAAAATTGAT
1 ACTTTCAACTTTTTCTCAAAAAAACTTTTTTTGAAAATTTATTCTTAAGAAAAATTGAT
* *
790083 ACTTTCAACTTTTTCTAAAAAAAAAACCTTTTTTGAAAATTTATTCTTAAGAAAAATTGAT
1 ACTTTCAACTTTTTCT--CAAAAAAACTTTTTTTGAAAATTTATTCTTAAGAAAAATTGAT
* * *
790144 ATTTTCAACTTTTCCTTAAAAA
1 ACTTTCAACTTTTTCTCAAAAA
790166 TGTTTTTTTT
Statistics
Matches: 167, Mismatches: 25, Indels: 20
0.79 0.12 0.09
Matches are distributed among these distances:
57 3 0.02
58 35 0.21
59 28 0.17
60 22 0.13
61 70 0.42
62 9 0.05
ACGTcount: A:0.37, C:0.13, G:0.06, T:0.44
Consensus pattern (59 bp):
ACTTTCAACTTTTTCTCAAAAAAACTTTTTTTGAAAATTTATTCTTAAGAAAAATTGAT
Found at i:790082 original size:119 final size:121
Alignment explanation
Indices: 789831--790103 Score: 330
Period size: 119 Copynumber: 2.3 Consensus size: 121
789821 TTGTACAAGA
* *
789831 AAAAATTGATACTTTCAACTTTTCCC-CAAAATATTTTTTGAAAACTTTAATTTTGAGGAAAATT
1 AAAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTGAAAACTTTAATTTCGAGGAAAATT
*
789895 AATACTTTCAACTTTCAACTTTTCCTCAAAAAAACTTTTTTTGAAAATTTATTCTTAATG
66 AATACTTTCAAC-TT--A-TTTTCCTCAAAAAAACTCTTTTTGAAAATTTATTCTTAATG
* * *
789955 -AAAGTTGATACTTTTAACTTTTCCCTAAAAATATTTTTTTTTG-AAATTCTTAATTTCGAGGAA
1 AAAAATTGATACTTTCAACTTTTCCCTAAAAATA---TTTTTTGAAAACT-TTAATTTCGAGGAA
* *
790018 AATTGATACTTTCAAC-T-TTTT-CTCAAAAAAA-TCTTTTTGAAGATTTATTCTTAA-G
62 AATTAATACTTTCAACTTATTTTCCTCAAAAAAACTCTTTTTGAAAATTTATTCTTAATG
*
790073 AAAAATTGATACTTTCAACTTTT-TCTAAAAA
1 AAAAATTGATACTTTCAACTTTTCCCTAAAAA
790104 AAAAACCTTT
Statistics
Matches: 132, Mismatches: 11, Indels: 18
0.82 0.07 0.11
Matches are distributed among these distances:
118 8 0.06
119 41 0.31
120 10 0.08
121 4 0.03
123 23 0.17
124 6 0.05
125 1 0.01
126 4 0.03
127 35 0.27
ACGTcount: A:0.37, C:0.13, G:0.07, T:0.44
Consensus pattern (121 bp):
AAAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTGAAAACTTTAATTTCGAGGAAAATT
AATACTTTCAACTTATTTTCCTCAAAAAAACTCTTTTTGAAAATTTATTCTTAATG
Found at i:790105 original size:29 final size:29
Alignment explanation
Indices: 790016--790106 Score: 82
Period size: 29 Copynumber: 3.1 Consensus size: 29
790006 AATTTCGAGG
*
790016 AAAATTGATACTTTCAACTTTTTCTCAAA
1 AAAATTGATACTTTCAACTTTTTCTAAAA
* * *
790045 AAAATCT--T--TTTGAAGATTTATTCTTAAGA
1 AAAAT-TGATACTTTCAA-CTTT-TTC-TAAAA
790074 AAAATTGATACTTTCAACTTTTTCTAAAA
1 AAAATTGATACTTTCAACTTTTTCTAAAA
790103 AAAA
1 AAAA
790107 AACCTTTTTT
Statistics
Matches: 47, Mismatches: 7, Indels: 16
0.67 0.10 0.23
Matches are distributed among these distances:
26 5 0.11
27 3 0.06
28 5 0.11
29 21 0.45
30 5 0.11
31 3 0.06
32 5 0.11
ACGTcount: A:0.42, C:0.12, G:0.05, T:0.41
Consensus pattern (29 bp):
AAAATTGATACTTTCAACTTTTTCTAAAA
Found at i:790139 original size:119 final size:120
Alignment explanation
Indices: 789905--790165 Score: 307
Period size: 119 Copynumber: 2.2 Consensus size: 120
789895 AATACTTTCA
* * *
789905 ACTTTCAACTTTTCCTCAAAAAAACTTTTTTTGAAAATTTATTCTTAATGAAAGTTGATACTTTT
1 ACTTTCAACTTTTCCTCAAAAAAACTCTTTTTGAAAATTTATTCTTAATGAAAATTGATACTTTC
* *** * * *
789970 AACTTTTCCCTAAAAATATTTTTTTTTGAAATTCTTAATTTCGAGGAAAATTGAT
66 AACTTTTCCCTAAAAAAAACCTTTTTTGAAAATCTTAATTTCAAGAAAAATTGAT
* *
790025 ACTTTCAACTTTTTCTCAAAAAAA-TCTTTTTGAAGATTTATTCTTAA-GAAAAATTGATACTTT
1 ACTTTCAACTTTTCCTCAAAAAAACTCTTTTTGAAAATTTATTCTTAATG-AAAATTGATACTTT
* *
790088 CAACTTTT-TCTAAAAAAAAAACCTTTTTTGAAAAT-TT-ATTCTTAAGAAAAATTGAT
65 CAACTTTTCCCT--AAAAAAAACCTTTTTTGAAAATCTTAATT-TCAAGAAAAATTGAT
* *
790144 ATTTTCAACTTTTCCTTAAAAA
1 ACTTTCAACTTTTCCTCAAAAA
790166 TGTTTTTTTT
Statistics
Matches: 120, Mismatches: 17, Indels: 9
0.82 0.12 0.06
Matches are distributed among these distances:
118 6 0.05
119 74 0.62
120 40 0.33
ACGTcount: A:0.37, C:0.13, G:0.06, T:0.44
Consensus pattern (120 bp):
ACTTTCAACTTTTCCTCAAAAAAACTCTTTTTGAAAATTTATTCTTAATGAAAATTGATACTTTC
AACTTTTCCCTAAAAAAAACCTTTTTTGAAAATCTTAATTTCAAGAAAAATTGAT
Found at i:790218 original size:9 final size:9
Alignment explanation
Indices: 790201--790241 Score: 57
Period size: 9 Copynumber: 4.6 Consensus size: 9
790191 TATTTAAAGA
*
790201 AAATGAAAT
1 AAATAAAAT
790210 AAATAAAAT
1 AAATAAAAT
790219 AAATGAAAAT
1 AAAT-AAAAT
790229 AAATAAAA-
1 AAATAAAAT
790237 AAATA
1 AAATA
790242 GAAAAAAATT
Statistics
Matches: 30, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
8 5 0.17
9 16 0.53
10 9 0.30
ACGTcount: A:0.76, C:0.00, G:0.05, T:0.20
Consensus pattern (9 bp):
AAATAAAAT
Found at i:790229 original size:10 final size:10
Alignment explanation
Indices: 790201--790250 Score: 56
Period size: 10 Copynumber: 5.4 Consensus size: 10
790191 TATTTAAAGA
790201 AAATG-AAAT
1 AAATGAAAAT
790210 AAAT-AAAAT
1 AAATGAAAAT
790219 AAATGAAAAT
1 AAATGAAAAT
790229 AAAT-AAAA-
1 AAATGAAAAT
790237 AAATAGAAAA-
1 AAAT-GAAAAT
790247 AAAT
1 AAAT
790251 TAAACAACCC
Statistics
Matches: 37, Mismatches: 0, Indels: 7
0.84 0.00 0.16
Matches are distributed among these distances:
8 4 0.11
9 16 0.43
10 17 0.46
ACGTcount: A:0.76, C:0.00, G:0.06, T:0.18
Consensus pattern (10 bp):
AAATGAAAAT
Found at i:790230 original size:19 final size:18
Alignment explanation
Indices: 790195--790250 Score: 71
Period size: 18 Copynumber: 3.1 Consensus size: 18
790185 TAATTTTATT
790195 TAAAGAAAATG-AAATAAA
1 TAAA-AAAATGAAAATAAA
790213 TAAAATAAATGAAAATAAA
1 TAAAA-AAATGAAAATAAA
790232 TAAAAAAATAGAAAA-AAA
1 TAAAAAAAT-GAAAATAAA
790250 T
1 T
790251 TAAACAACCC
Statistics
Matches: 35, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
17 1 0.03
18 17 0.49
19 17 0.49
ACGTcount: A:0.75, C:0.00, G:0.07, T:0.18
Consensus pattern (18 bp):
TAAAAAAATGAAAATAAA
Found at i:790284 original size:14 final size:14
Alignment explanation
Indices: 790265--790293 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
790255 CAACCCTAAT
790265 ATAATAATAATAAA
1 ATAATAATAATAAA
790279 ATAATAATAATAAA
1 ATAATAATAATAAA
790293 A
1 A
790294 AAAATGAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (14 bp):
ATAATAATAATAAA
Found at i:790797 original size:15 final size:16
Alignment explanation
Indices: 790777--790807 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
790767 AATTTTCCAG
790777 AAATTTC-CAGAAAAA
1 AAATTTCGCAGAAAAA
790792 AAATTTCGCAGAAAAA
1 AAATTTCGCAGAAAAA
790808 TCTGTAAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 7 0.47
16 8 0.53
ACGTcount: A:0.58, C:0.13, G:0.10, T:0.19
Consensus pattern (16 bp):
AAATTTCGCAGAAAAA
Found at i:791292 original size:11 final size:11
Alignment explanation
Indices: 791278--791374 Score: 51
Period size: 11 Copynumber: 8.7 Consensus size: 11
791268 TAATAAATAC
*
791278 ATAAGATAAAA
1 ATAAAATAAAA
*
791289 ATAAAAGAAAA
1 ATAAAATAAAA
*
791300 ATATATATAAAA
1 ATA-AAATAAAA
* *
791312 A-ACAAT-AAT
1 ATAAAATAAAA
791321 A-AAAATAAAA
1 ATAAAATAAAA
791331 ATAAAATACAAA
1 ATAAAATA-AAA
*
791343 TGTAAAATACAAAA
1 -ATAAAAT--AAAA
791357 ATACAAA-AAAA
1 ATA-AAATAAAA
791368 A-AAAATA
1 ATAAAATA
791375 GACTTATCTA
Statistics
Matches: 66, Mismatches: 11, Indels: 19
0.69 0.11 0.20
Matches are distributed among these distances:
9 10 0.15
10 7 0.11
11 24 0.36
12 10 0.15
13 8 0.12
14 6 0.09
15 1 0.02
ACGTcount: A:0.75, C:0.04, G:0.03, T:0.18
Consensus pattern (11 bp):
ATAAAATAAAA
Found at i:791324 original size:12 final size:12
Alignment explanation
Indices: 791309--791369 Score: 52
Period size: 12 Copynumber: 4.9 Consensus size: 12
791299 AATATATATA
*
791309 AAAAACAATAAT
1 AAAAACAAAAAT
*
791321 AAAAATAAAAAT
1 AAAAACAAAAAT
**
791333 AAAATACAAATGT
1 AAAA-ACAAAAAT
791346 AAAATACAAAAAT
1 AAAA-ACAAAAAT
791359 ACAAAA-AAAAA
1 A-AAAACAAAAA
791370 AAATAGACTT
Statistics
Matches: 40, Mismatches: 7, Indels: 4
0.78 0.14 0.08
Matches are distributed among these distances:
12 19 0.47
13 18 0.45
14 3 0.08
ACGTcount: A:0.77, C:0.07, G:0.02, T:0.15
Consensus pattern (12 bp):
AAAAACAAAAAT
Found at i:791343 original size:6 final size:6
Alignment explanation
Indices: 791261--791336 Score: 50
Period size: 6 Copynumber: 12.3 Consensus size: 6
791251 TAGTAGTAAT
* * * *
791261 AAATAA ATAATAA ATACAT-A AGATAA AAAT-A AAAGAA AAATAT ATATAA
1 AAATAA A-AATAA A-A-ATAA AAATAA AAATAA AAATAA AAATAA AAATAA
791310 AAA-ACA ATAATAA AAATAA AAATAA AA
1 AAATA-A A-AATAA AAATAA AAATAA AA
791337 TACAAATGTA
Statistics
Matches: 55, Mismatches: 8, Indels: 14
0.71 0.10 0.18
Matches are distributed among these distances:
5 7 0.13
6 31 0.56
7 14 0.25
8 3 0.05
ACGTcount: A:0.75, C:0.03, G:0.03, T:0.20
Consensus pattern (6 bp):
AAATAA
Found at i:791665 original size:43 final size:44
Alignment explanation
Indices: 791524--791760 Score: 291
Period size: 44 Copynumber: 5.4 Consensus size: 44
791514 TTGATCAAAA
* *
791524 CTCCTCTAAGCAGAGGCTCAACGACTTTTGAAAAACATAAACAAAG
1 CTCCTCTAATCAGAGGCTCAACGACTTTTG-AAAA-ATAAATAAAG
* *
791570 CTTCTCTAATCAAAGGCTCAACGAC-TTTGAAAAAATAAATAAAG
1 CTCCTCTAATCAGAGGCTCAACGACTTTTG-AAAAATAAATAAAG
* *
791614 CTCATCTAATCAGAGGCTGAACGAC-TTTGAAAAATAAATAAAG
1 CTCCTCTAATCAGAGGCTCAACGACTTTTGAAAAATAAATAAAG
* * * * **
791657 CTCCTCTAATAAGAGGTTCAATGACTTTTGGAATCTAAATAAAG
1 CTCCTCTAATCAGAGGCTCAACGACTTTTGAAAAATAAATAAAG
* *
791701 CTCTTCTAATCAGAGGCTCAACGACTTTTG-AAAATAAACAAAG
1 CTCCTCTAATCAGAGGCTCAACGACTTTTGAAAAATAAATAAAG
*
791744 CTCCTCTAAACAGAGGC
1 CTCCTCTAATCAGAGGC
791761 AATTTTTTTG
Statistics
Matches: 165, Mismatches: 25, Indels: 5
0.85 0.13 0.03
Matches are distributed among these distances:
43 59 0.36
44 75 0.45
45 9 0.05
46 22 0.13
ACGTcount: A:0.41, C:0.20, G:0.15, T:0.24
Consensus pattern (44 bp):
CTCCTCTAATCAGAGGCTCAACGACTTTTGAAAAATAAATAAAG
Found at i:791683 original size:87 final size:88
Alignment explanation
Indices: 791528--791752 Score: 296
Period size: 87 Copynumber: 2.6 Consensus size: 88
791518 TCAAAACTCC
* *
791528 TCTAAGCAGAGGCTCAACGACTTTTGAAAAACATAAACAAAGCTTCTCTAATCAAAGGCTCAACG
1 TCTAATCAGAGGCTCAACGACTTTTG-AAAA-ATAAACAAAGCTCCTCTAATCAAAGGCTCAACG
791593 AC-TTTGAAAAAATAAATAAAGCTCA
64 ACTTTTG-AAAAATAAATAAAGCTCA
* * * *
791618 TCTAATCAGAGGCTGAACGAC-TTTGAAAAATAAATAAAGCTCCTCTAAT-AAGAGGTTCAATGA
1 TCTAATCAGAGGCTCAACGACTTTTGAAAAATAAACAAAGCTCCTCTAATCAA-AGGCTCAACGA
* ** *
791681 CTTTTGGAATCTAAATAAAGCTCT
65 CTTTTGAAAAATAAATAAAGCTCA
791705 TCTAATCAGAGGCTCAACGACTTTTG-AAAATAAACAAAGCTCCTCTAA
1 TCTAATCAGAGGCTCAACGACTTTTGAAAAATAAACAAAGCTCCTCTAA
791753 ACAGAGGCAA
Statistics
Matches: 120, Mismatches: 12, Indels: 9
0.85 0.09 0.06
Matches are distributed among these distances:
86 2 0.02
87 83 0.69
88 12 0.10
89 4 0.03
90 19 0.16
ACGTcount: A:0.41, C:0.19, G:0.14, T:0.25
Consensus pattern (88 bp):
TCTAATCAGAGGCTCAACGACTTTTGAAAAATAAACAAAGCTCCTCTAATCAAAGGCTCAACGAC
TTTTGAAAAATAAATAAAGCTCA
Found at i:791868 original size:41 final size:41
Alignment explanation
Indices: 791799--792090 Score: 331
Period size: 41 Copynumber: 7.1 Consensus size: 41
791789 TTTGATCAAA
* * * * *
791799 GCTCCTCTAAGCAAAGGCTCAACAACTTTGGAAAATAAATG
1 GCTCCTCTAAACAGAGGCACCACAACTTTGGAAAATAAATT
* ** *
791840 GCTCCTCTAAATAGAGGCACCATGACTTTGGAAAGTAAATT
1 GCTCCTCTAAACAGAGGCACCACAACTTTGGAAAATAAATT
791881 GCTCCTCTAAACAGAGGCACCACAACTTT-GAAAAGTAAATT
1 GCTCCTCTAAACAGAGGCACCACAACTTTGGAAAA-TAAATT
* ** *
791922 GCTCCTCTAAACAAAGATACCACGACTTT-GAAAAGTAAATT
1 GCTCCTCTAAACAGAGGCACCACAACTTTGGAAAA-TAAATT
*
791963 GCTCCTCTAAACAGAGGCAACGA-AACTTTGGAAAATAAATT
1 GCTCCTCTAAACAGAGGC-ACCACAACTTTGGAAAATAAATT
**
792004 GCTCCTCTAAACAGAGGCAACCATGACTTT-GAAAAGTAAATT
1 GCTCCTCTAAACAGAGGC-ACCACAACTTTGGAAAA-TAAATT
* * * *
792046 GCTCCTCTAAATAGAGGCAACAAAACTTTGGAAAGTAAATT
1 GCTCCTCTAAACAGAGGCACCACAACTTTGGAAAATAAATT
792087 GCTC
1 GCTC
792091 ATTGACAATC
Statistics
Matches: 216, Mismatches: 29, Indels: 12
0.84 0.11 0.05
Matches are distributed among these distances:
40 4 0.02
41 172 0.80
42 40 0.19
ACGTcount: A:0.39, C:0.21, G:0.16, T:0.24
Consensus pattern (41 bp):
GCTCCTCTAAACAGAGGCACCACAACTTTGGAAAATAAATT
Found at i:792018 original size:123 final size:124
Alignment explanation
Indices: 791823--792056 Score: 366
Period size: 123 Copynumber: 1.9 Consensus size: 124
791813 AGGCTCAACA
* * *
791823 ACTTTGGAAAATAAATGGCTCCTCTAAATAGAGGCACCATGACTTTGGAAAGTAAATTGCTCCTC
1 ACTTTGGAAAATAAATGGCTCCTCTAAACAGAGGCACCATAACTTTGGAAAATAAATTGCTCCTC
791888 TAAACAGAGGC-ACCACAACTTTGAAAAGTAAATTGCTCCTCTAAACAAAGATACCACG
66 TAAACAGAGGCAACCACAACTTTGAAAAGTAAATTGCTCCTCTAAACAAAGATACCACG
* *
791946 ACTTT-GAAAAGTAAATTGCTCCTCTAAACAGAGGCAACGA-AACTTTGGAAAATAAATTGCTCC
1 ACTTTGGAAAA-TAAATGGCTCCTCTAAACAGAGGC-ACCATAACTTTGGAAAATAAATTGCTCC
**
792009 TCTAAACAGAGGCAACCATGACTTTGAAAAGTAAATTGCTCCTCTAAA
64 TCTAAACAGAGGCAACCACAACTTTGAAAAGTAAATTGCTCCTCTAAA
792057 TAGAGGCAAC
Statistics
Matches: 101, Mismatches: 7, Indels: 5
0.89 0.06 0.04
Matches are distributed among these distances:
122 5 0.05
123 61 0.60
124 35 0.35
ACGTcount: A:0.39, C:0.21, G:0.16, T:0.24
Consensus pattern (124 bp):
ACTTTGGAAAATAAATGGCTCCTCTAAACAGAGGCACCATAACTTTGGAAAATAAATTGCTCCTC
TAAACAGAGGCAACCACAACTTTGAAAAGTAAATTGCTCCTCTAAACAAAGATACCACG
Found at i:792052 original size:83 final size:83
Alignment explanation
Indices: 791799--792090 Score: 405
Period size: 82 Copynumber: 3.5 Consensus size: 83
791789 TTTGATCAAA
* * * * *
791799 GCTCCTCTAAGCAAAGGC-TCAACAACTTTGGAAAATAAATGGCTCCTCTAAATAGAGGC-ACCA
1 GCTCCTCTAAACAGAGGCAACAA-AACTTTGGAAAATAAATTGCTCCTCTAAACAGAGGCAACCA
*
791862 TGACTTTGGAAAGTAAATT
65 TGACTTTGAAAAGTAAATT
* * *
791881 GCTCCTCTAAACAGAGGCACCACAACTTT-GAAAAGTAAATTGCTCCTCTAAACA-AAG-ATACC
1 GCTCCTCTAAACAGAGGCAACAAAACTTTGGAAAA-TAAATTGCTCCTCTAAACAGAGGCA-ACC
*
791943 ACGACTTTGAAAAGTAAATT
64 ATGACTTTGAAAAGTAAATT
*
791963 GCTCCTCTAAACAGAGGCAACGAAACTTTGGAAAATAAATTGCTCCTCTAAACAGAGGCAACCAT
1 GCTCCTCTAAACAGAGGCAACAAAACTTTGGAAAATAAATTGCTCCTCTAAACAGAGGCAACCAT
792028 GACTTTGAAAAGTAAATT
66 GACTTTGAAAAGTAAATT
* *
792046 GCTCCTCTAAATAGAGGCAACAAAACTTTGGAAAGTAAATTGCTC
1 GCTCCTCTAAACAGAGGCAACAAAACTTTGGAAAATAAATTGCTC
792091 ATTGACAATC
Statistics
Matches: 186, Mismatches: 17, Indels: 13
0.86 0.08 0.06
Matches are distributed among these distances:
81 7 0.04
82 105 0.56
83 73 0.39
84 1 0.01
ACGTcount: A:0.39, C:0.21, G:0.16, T:0.24
Consensus pattern (83 bp):
GCTCCTCTAAACAGAGGCAACAAAACTTTGGAAAATAAATTGCTCCTCTAAACAGAGGCAACCAT
GACTTTGAAAAGTAAATT
Found at i:798697 original size:62 final size:60
Alignment explanation
Indices: 798631--798782 Score: 211
Period size: 58 Copynumber: 2.5 Consensus size: 60
798621 TTTGTACAAG
* *
798631 GAAAAATTGATACTTTCAACATTTCCTAAAAAAAAAACCTTTTTTTTAAAATTTATTCTTAA
1 GAAAAATTGATACTTTCAACTTTTCCTAAAAAAAAAACC--TTTTTGAAAATTTATTCTTAA
* *
798693 GAAAAATTGATACTTTCAACTTTTCCT--CAAAAAAACCTTTTTGAAGATTTATTCTTAA
1 GAAAAATTGATACTTTCAACTTTTCCTAAAAAAAAAACCTTTTTGAAAATTTATTCTTAA
*
798751 G-GAAATTGATACTTTCAACTTTTTCCTAAAAA
1 GAAAAATTGATACTTTCAAC-TTTTCCTAAAAA
798783 TATTTTTTTT
Statistics
Matches: 81, Mismatches: 6, Indels: 8
0.85 0.06 0.08
Matches are distributed among these distances:
57 17 0.21
58 27 0.33
60 11 0.14
62 26 0.32
ACGTcount: A:0.40, C:0.14, G:0.06, T:0.39
Consensus pattern (60 bp):
GAAAAATTGATACTTTCAACTTTTCCTAAAAAAAAAACCTTTTTGAAAATTTATTCTTAA
Found at i:798830 original size:60 final size:59
Alignment explanation
Indices: 798627--798859 Score: 233
Period size: 60 Copynumber: 3.9 Consensus size: 59
798617 TGCTTTTGTA
* * * **
798627 CAAGGAAAAATTGATACTTTCAACATTTCCTAAAAAAAAAACCTTTTTTTT-AAAATTTATTCT
1 CAAGG-AAAATTGATACTTTCAACTTTTCCT--CAAAAATA--TTTTTTTTGAATTTTTATTCT
* * *** **
798690 TAAGAAAAATTGATACTTTCAACTTTTCCTCAAAAA-AACCTTTTTGAAGATTTATTCT
1 CAAGGAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTTTGAATTTTTATTCT
*
798748 TAAGG-AAATTGATACTTTCAACTTTTTCCT-AAAAATATTTTTTTTAGAATTTTTAATT-T
1 CAAGGAAAATTGATACTTTCAAC-TTTTCCTCAAAAATATTTTTTTT-GAATTTTT-ATTCT
*
798807 CGAGGAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTTTGAATTTT
1 CAAGGAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTTTGAATTTT
798860 ATTTAAAGAA
Statistics
Matches: 147, Mismatches: 16, Indels: 18
0.81 0.09 0.10
Matches are distributed among these distances:
57 27 0.18
58 28 0.19
59 25 0.17
60 40 0.27
62 24 0.16
63 3 0.02
ACGTcount: A:0.37, C:0.13, G:0.07, T:0.43
Consensus pattern (59 bp):
CAAGGAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTTTGAATTTTTATTCT
Found at i:798977 original size:9 final size:8
Alignment explanation
Indices: 798874--798983 Score: 60
Period size: 9 Copynumber: 12.0 Consensus size: 8
798864 AAAGAAAATG
798874 AAATAAATA
1 AAATAAA-A
798883 AAATAAATA
1 AAATAAA-A
798892 AAATAAAAA
1 AAAT-AAAA
798901 TAAATAAAA
1 -AAATAAAA
798910 AAATAGAAAA
1 AAAT--AAAA
798920 AAATATTAAA
1 AAATA--AAA
798930 CAACCATAATATA
1 -AA--ATAA-A-A
*
798943 ATAATAAAT
1 A-AATAAAA
798952 AAATAAAA
1 AAATAAAA
*
798960 TAATAAAA
1 AAATAAAA
798968 AAATGAAAA
1 AAAT-AAAA
798977 AAA-AAAA
1 AAATAAAA
798984 CCTAGAGCGG
Statistics
Matches: 84, Mismatches: 4, Indels: 28
0.72 0.03 0.24
Matches are distributed among these distances:
7 4 0.05
8 21 0.25
9 26 0.31
10 19 0.23
11 7 0.08
12 2 0.02
13 5 0.06
ACGTcount: A:0.76, C:0.03, G:0.02, T:0.19
Consensus pattern (8 bp):
AAATAAAA
Found at i:799258 original size:21 final size:21
Alignment explanation
Indices: 799233--799275 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
799223 GGAACCTTTC
799233 TTTTCATCTCTCTCTTCCCTT
1 TTTTCATCTCTCTCTTCCCTT
* * *
799254 TTTTCTTCTCTCTTTTCTCTT
1 TTTTCATCTCTCTCTTCCCTT
799275 T
1 T
799276 AGAAAATCGA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.02, C:0.33, G:0.00, T:0.65
Consensus pattern (21 bp):
TTTTCATCTCTCTCTTCCCTT
Found at i:799936 original size:315 final size:315
Alignment explanation
Indices: 799364--799996 Score: 1232
Period size: 315 Copynumber: 2.0 Consensus size: 315
799354 CGTTAAAAAG
799364 TTGGTCGATTTTTGAAAATTCTCTTCGAAAACTAGGTAGCTGACCGAAAAGTTTAAACTTGACTG
1 TTGGTCGATTTTTGAAAATTCTCTTCGAAAACTAGGTAGCTGACCGAAAAGTTTAAACTTGACTG
799429 GAATTGTTGTCGAAAAATTCAACTTTTGCTGAAAAATTCATCGAAATCTGGAAAATTTCCAAAAA
66 GAATTGTTGTCGAAAAATTCAACTTTTGCTGAAAAATTCATCGAAATCTGGAAAATTTCCAAAAA
799494 TTTTCAGAAAAAAATTCACAAAAAAATCTCTAAAAATTTTTCCCGATTCCTAAAGCTATTCTAAC
131 TTTTCAGAAAAAAATTCACAAAAAAATCTCTAAAAATTTTTCCCGATTCCTAAAGCTATTCTAAC
799559 GCCTCTAAACCCTTTTTAGCTTTCAAATCTCTTTTGTCTGCCTTTTTCTTTCAGCCAGTAACTTT
196 GCCTCTAAACCCTTTTTAGCTTTCAAATCTCTTTTGTCTGCCTTTTTCTTTCAGCCAGTAACTTT
799624 TTTTCTCAGTTTTTCTATGTCTTTTCCTTTGATCCTAAGGGTCATTTTATAGGAA
261 TTTTCTCAGTTTTTCTATGTCTTTTCCTTTGATCCTAAGGGTCATTTTATAGGAA
799679 TTGGTCGATTTTTGAAAATTCTCTTCGAAAACTAGGTAGCT-AGCCGAAAAGTTTAAACTTGACT
1 TTGGTCGATTTTTGAAAATTCTCTTCGAAAACTAGGTAGCTGA-CCGAAAAGTTTAAACTTGACT
*
799743 GGAATTGTTGTCGAAAAATTCAACTTTTGCTGAAAAATTCATCGAAATCTGGAAAATTTCCAGAA
65 GGAATTGTTGTCGAAAAATTCAACTTTTGCTGAAAAATTCATCGAAATCTGGAAAATTTCCAAAA
*
799808 ATTTTCAGAAAAAAATTCACAAAAAAATCTCTAAAAATTTTTTCCGATTCCTAAAGCTATTCTAA
130 ATTTTCAGAAAAAAATTCACAAAAAAATCTCTAAAAATTTTTCCCGATTCCTAAAGCTATTCTAA
799873 CGCCTCTAAACCCTTTTTAGCTTTCAAATCTCTTTTGTCTGCCTTTTTCTTTCAGCCAGTAACTT
195 CGCCTCTAAACCCTTTTTAGCTTTCAAATCTCTTTTGTCTGCCTTTTTCTTTCAGCCAGTAACTT
799938 TTTTTCTCAGTTTTTCTATGTCTTTTCCTTTGATCCTAAGGGTCATTTTATAGGAA
260 TTTTTCTCAGTTTTTCTATGTCTTTTCCTTTGATCCTAAGGGTCATTTTATAGGAA
799994 TTG
1 TTG
799997 ATCAGAAGAG
Statistics
Matches: 315, Mismatches: 2, Indels: 2
0.99 0.01 0.01
Matches are distributed among these distances:
314 1 0.00
315 314 1.00
ACGTcount: A:0.30, C:0.18, G:0.13, T:0.39
Consensus pattern (315 bp):
TTGGTCGATTTTTGAAAATTCTCTTCGAAAACTAGGTAGCTGACCGAAAAGTTTAAACTTGACTG
GAATTGTTGTCGAAAAATTCAACTTTTGCTGAAAAATTCATCGAAATCTGGAAAATTTCCAAAAA
TTTTCAGAAAAAAATTCACAAAAAAATCTCTAAAAATTTTTCCCGATTCCTAAAGCTATTCTAAC
GCCTCTAAACCCTTTTTAGCTTTCAAATCTCTTTTGTCTGCCTTTTTCTTTCAGCCAGTAACTTT
TTTTCTCAGTTTTTCTATGTCTTTTCCTTTGATCCTAAGGGTCATTTTATAGGAA
Found at i:800182 original size:20 final size:20
Alignment explanation
Indices: 800139--800201 Score: 54
Period size: 22 Copynumber: 3.0 Consensus size: 20
800129 AAATATTAAT
* **
800139 AAAAATAAATCAGATAAACCA
1 AAAAATTAA-CAGATAAATTA
800160 AAAAATTAACAGATAAATTA
1 AAAAATTAACAGATAAATTA
* *
800180 AAATTAAATAATAGATAAATTA
1 AAA--AATTAACAGATAAATTA
800202 TAACATATAA
Statistics
Matches: 35, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
20 12 0.34
21 8 0.23
22 15 0.43
ACGTcount: A:0.65, C:0.06, G:0.05, T:0.24
Consensus pattern (20 bp):
AAAAATTAACAGATAAATTA
Found at i:800307 original size:15 final size:15
Alignment explanation
Indices: 800287--800373 Score: 58
Period size: 15 Copynumber: 5.7 Consensus size: 15
800277 TAAATAGTAG
800287 TAATAAATAAATAAA
1 TAATAAATAAATAAA
*
800302 TAATAAATACATAAGA
1 TAATAAATAAATAA-A
800318 TAA-AAATAAA-AGAA
1 TAATAAATAAATA-AA
800332 -AATATATATAAA-AAA
1 TAATA-A-ATAAATAAA
* *
800347 CAATAATAAAAATAAA
1 TAATAA-ATAAATAAA
800363 -AATAAAATAAA
1 TAAT-AAATAAA
800374 AATGTAAAAT
Statistics
Matches: 60, Mismatches: 4, Indels: 16
0.75 0.05 0.20
Matches are distributed among these distances:
13 2 0.03
14 3 0.05
15 36 0.60
16 19 0.32
ACGTcount: A:0.74, C:0.02, G:0.02, T:0.22
Consensus pattern (15 bp):
TAATAAATAAATAAA
Found at i:800393 original size:41 final size:41
Alignment explanation
Indices: 800317--800408 Score: 98
Period size: 41 Copynumber: 2.2 Consensus size: 41
800307 AATACATAAG
* *
800317 ATAAAAATAAAAGAAAATATATATAAAAAACAATAATAAAA
1 ATAAAAATAAAAGAAAATATATATAAAAAAAAATAAGAAAA
* *
800358 ATAAAAATAAAATAAAA-ATGTA-AAATACAAAAATAAGAAAA
1 ATAAAAATAAAAGAAAATATATATAAA-A-AAAAATAAGAAAA
*
800399 AAAGAAAATA
1 ATA-AAAATA
800409 GACTTACCTA
Statistics
Matches: 43, Mismatches: 5, Indels: 5
0.81 0.09 0.09
Matches are distributed among these distances:
39 3 0.07
40 5 0.12
41 29 0.67
42 6 0.14
ACGTcount: A:0.76, C:0.02, G:0.04, T:0.17
Consensus pattern (41 bp):
ATAAAAATAAAAGAAAATATATATAAAAAAAAATAAGAAAA
Found at i:805547 original size:90 final size:89
Alignment explanation
Indices: 805438--805602 Score: 233
Period size: 90 Copynumber: 1.8 Consensus size: 89
805428 TGTTTTATGG
* * * *
805438 AGATTATTTAAAGTGTTTTCTAG-CAAAAAATGCCTTAAATAATTCCTAAAAAAAATTAAATAAT
1 AGATTATTTAAAGTATTTTCTAGTC-AAAAATGCCTTAAATAA-TCCAAAAAAAAATTAAACAAG
805502 ATTATTTAAGGCTTAATTTATTTAAA
64 ATTATTTAAGGCTTAATTTATTTAAA
* * * *
805528 AGATTATTTAAGGTATTTTCTGGTCAAAAGTGCCTTAAATAATCCAAAAAAAAATTGAACAAGAT
1 AGATTATTTAAAGTATTTTCTAGTCAAAAATGCCTTAAATAATCCAAAAAAAAATTAAACAAGAT
805593 TATTTAAGGC
66 TATTTAAGGC
805603 ATTTTTTTGT
Statistics
Matches: 66, Mismatches: 8, Indels: 3
0.86 0.10 0.04
Matches are distributed among these distances:
89 29 0.44
90 36 0.55
91 1 0.02
ACGTcount: A:0.44, C:0.09, G:0.11, T:0.36
Consensus pattern (89 bp):
AGATTATTTAAAGTATTTTCTAGTCAAAAATGCCTTAAATAATCCAAAAAAAAATTAAACAAGAT
TATTTAAGGCTTAATTTATTTAAA
Found at i:808416 original size:12 final size:12
Alignment explanation
Indices: 808399--808424 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
808389 TTTTAAAAAA
808399 TTAAAATTAAAT
1 TTAAAATTAAAT
808411 TTAAAATTAAAT
1 TTAAAATTAAAT
808423 TT
1 TT
808425 TTTTTAATTC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (12 bp):
TTAAAATTAAAT
Found at i:808478 original size:20 final size:20
Alignment explanation
Indices: 808443--808500 Score: 66
Period size: 19 Copynumber: 2.9 Consensus size: 20
808433 TCGATATCAT
*
808443 TTAAAAAAATTA-TTTTCTA
1 TTAAAAATATTATTTTTCTA
808462 TTAAAAATATTATTTTT-TA
1 TTAAAAATATTATTTTTCTA
*
808481 TCCAAAAATATATATTTTTC
1 T-TAAAAATAT-TATTTTTC
808501 AAATATTATA
Statistics
Matches: 33, Mismatches: 2, Indels: 5
0.82 0.05 0.12
Matches are distributed among these distances:
19 14 0.42
20 12 0.36
21 7 0.21
ACGTcount: A:0.43, C:0.07, G:0.00, T:0.50
Consensus pattern (20 bp):
TTAAAAATATTATTTTTCTA
Found at i:811618 original size:6 final size:6
Alignment explanation
Indices: 811607--811634 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
811597 ATCCACTTAT
811607 AATATA AATATA AATATA AATATA AATA
1 AATATA AATATA AATATA AATATA AATA
811635 AATCATAAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (6 bp):
AATATA
Found at i:812486 original size:3 final size:3
Alignment explanation
Indices: 812478--812509 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
812468 GCGGAAACTC
812478 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
812510 AGGTAATACA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:812564 original size:3 final size:3
Alignment explanation
Indices: 812556--812582 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
812546 CAGGGAAACC
812556 TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA
812583 AAGTAATATA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:813075 original size:3 final size:3
Alignment explanation
Indices: 813067--813115 Score: 98
Period size: 3 Copynumber: 16.3 Consensus size: 3
813057 ATATATTACT
813067 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
813115 T
1 T
813116 ATGTTTTTAA
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 46 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:817510 original size:13 final size:13
Alignment explanation
Indices: 817477--817512 Score: 56
Period size: 12 Copynumber: 2.8 Consensus size: 13
817467 GTGAGATTCA
817477 TTTAATATAAAATT
1 TTTAAT-TAAAATT
817491 TTT-ATTAAAATT
1 TTTAATTAAAATT
817503 TTTAATTAAA
1 TTTAATTAAA
817513 GCTATAGTAA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
12 10 0.48
13 8 0.38
14 3 0.14
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (13 bp):
TTTAATTAAAATT
Found at i:817544 original size:26 final size:26
Alignment explanation
Indices: 817500--817551 Score: 70
Period size: 26 Copynumber: 2.0 Consensus size: 26
817490 TTTTATTAAA
*
817500 ATTTTTAATTAAAGCTATAGTAACTT
1 ATTTTTAATTAAAGCTATAATAACTT
*
817526 ATTTTTAATTATAA-TTATAATAACTT
1 ATTTTTAATTA-AAGCTATAATAACTT
817552 TTATTATTAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
26 21 0.91
27 2 0.09
ACGTcount: A:0.40, C:0.06, G:0.04, T:0.50
Consensus pattern (26 bp):
ATTTTTAATTAAAGCTATAATAACTT
Found at i:819172 original size:17 final size:18
Alignment explanation
Indices: 819150--819186 Score: 58
Period size: 17 Copynumber: 2.1 Consensus size: 18
819140 TAAAGTTTCA
*
819150 TTTTAGGGTTT-AGGATT
1 TTTTAGAGTTTCAGGATT
819167 TTTTAGAGTTTCAGGATT
1 TTTTAGAGTTTCAGGATT
819185 TT
1 TT
819187 AGGGTTTTGA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 10 0.56
18 8 0.44
ACGTcount: A:0.19, C:0.03, G:0.24, T:0.54
Consensus pattern (18 bp):
TTTTAGAGTTTCAGGATT
Found at i:819186 original size:16 final size:15
Alignment explanation
Indices: 819149--819203 Score: 56
Period size: 16 Copynumber: 3.4 Consensus size: 15
819139 TTAAAGTTTC
819149 ATTTTAGGGTTTAGG
1 ATTTTAGGGTTTAGG
*
819164 ATTTTTTAGAGTTTCAGG
1 A--TTTTAGGGTTT-AGG
*
819182 ATTTTAGGGTTTTGAG
1 ATTTTAGGGTTTAG-G
819198 ATTTTA
1 ATTTTA
819204 AGATTTTTAG
Statistics
Matches: 33, Mismatches: 3, Indels: 7
0.77 0.07 0.16
Matches are distributed among these distances:
15 2 0.06
16 17 0.52
17 10 0.30
18 4 0.12
ACGTcount: A:0.22, C:0.02, G:0.25, T:0.51
Consensus pattern (15 bp):
ATTTTAGGGTTTAGG
Found at i:819211 original size:25 final size:25
Alignment explanation
Indices: 819183--819230 Score: 78
Period size: 25 Copynumber: 1.9 Consensus size: 25
819173 AGTTTCAGGA
*
819183 TTTTAGGGTTTTGAGATTTTAAGAT
1 TTTTAGGGTTTTAAGATTTTAAGAT
*
819208 TTTTAGGGTTTTAAGGTTTTAAG
1 TTTTAGGGTTTTAAGATTTTAAG
819231 GTTTAGGGGT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.23, C:0.00, G:0.25, T:0.52
Consensus pattern (25 bp):
TTTTAGGGTTTTAAGATTTTAAGAT
Found at i:819220 original size:33 final size:33
Alignment explanation
Indices: 819149--819227 Score: 88
Period size: 33 Copynumber: 2.4 Consensus size: 33
819139 TTAAAGTTTC
* *
819149 ATTTTAGGGTTTAGGATTTTTTAGAGTTTCAGG
1 ATTTTAGGGTTTTGGATTTTTAAGAGTTTCAGG
* *
819182 ATTTTAGGGTTTTGAGA-TTTTAAGATTTTTAGG
1 ATTTTAGGGTTTTG-GATTTTTAAGAGTTTCAGG
* *
819215 GTTTTAAGGTTTT
1 ATTTTAGGGTTTT
819228 AAGGTTTAGG
Statistics
Matches: 39, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
33 37 0.95
34 2 0.05
ACGTcount: A:0.22, C:0.01, G:0.25, T:0.52
Consensus pattern (33 bp):
ATTTTAGGGTTTTGGATTTTTAAGAGTTTCAGG
Found at i:819231 original size:8 final size:8
Alignment explanation
Indices: 819183--819234 Score: 50
Period size: 8 Copynumber: 6.4 Consensus size: 8
819173 AGTTTCAGGA
*
819183 TTTTAGGG
1 TTTTAAGG
* *
819191 TTTTGAGA
1 TTTTAAGG
*
819199 TTTTAAGAT
1 TTTTAAG-G
*
819208 TTTTAGGG
1 TTTTAAGG
819216 TTTTAAGG
1 TTTTAAGG
819224 TTTTAAGG
1 TTTTAAGG
819232 TTT
1 TTT
819235 AGGGGTTTGA
Statistics
Matches: 35, Mismatches: 8, Indels: 2
0.78 0.18 0.04
Matches are distributed among these distances:
8 29 0.83
9 6 0.17
ACGTcount: A:0.21, C:0.00, G:0.25, T:0.54
Consensus pattern (8 bp):
TTTTAAGG
Found at i:822406 original size:64 final size:64
Alignment explanation
Indices: 822305--822430 Score: 216
Period size: 64 Copynumber: 2.0 Consensus size: 64
822295 ACCATTCTGA
*
822305 TCATTCCTCACCTGCTCGCAAATCTCTTTTTTAAGTTCAGATTTAGTTGTATAAGGTTTGTTGC
1 TCATTCCTCACCTGCTCGCAAATCTCCTTTTTAAGTTCAGATTTAGTTGTATAAGGTTTGTTGC
* * *
822369 TCATTCCTTACCTGCTTGCAAATCTCCTTTTTAAGTTCATATTTAGTTGTATAAGGTTTGTT
1 TCATTCCTCACCTGCTCGCAAATCTCCTTTTTAAGTTCAGATTTAGTTGTATAAGGTTTGTT
822431 ACTAAGTTCC
Statistics
Matches: 58, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
64 58 1.00
ACGTcount: A:0.21, C:0.19, G:0.14, T:0.46
Consensus pattern (64 bp):
TCATTCCTCACCTGCTCGCAAATCTCCTTTTTAAGTTCAGATTTAGTTGTATAAGGTTTGTTGC
Found at i:825384 original size:30 final size:30
Alignment explanation
Indices: 825342--825444 Score: 125
Period size: 37 Copynumber: 3.2 Consensus size: 30
825332 CATAATAAGA
825342 TTTATATAATTGTTTAGATTATATATAATTG
1 TTTATAT-ATTGTTTAGATTATATATAATTG
*
825373 TTTATATATTGTTTACATTATATATAATTATTTATTG
1 TTTATATATTGTTTAGA-T-TATAT-A-TA---ATTG
825410 TTTATATATTGTTTAGATTATATATAATTG
1 TTTATATATTGTTTAGATTATATATAATTG
825440 TTTAT
1 TTTAT
825445 TGTTTGGCTT
Statistics
Matches: 63, Mismatches: 2, Indels: 15
0.79 0.03 0.19
Matches are distributed among these distances:
30 18 0.29
31 8 0.13
32 5 0.08
33 3 0.05
34 3 0.05
35 5 0.08
36 1 0.02
37 20 0.32
ACGTcount: A:0.33, C:0.01, G:0.08, T:0.58
Consensus pattern (30 bp):
TTTATATATTGTTTAGATTATATATAATTG
Found at i:825385 original size:11 final size:11
Alignment explanation
Indices: 825363--825424 Score: 52
Period size: 11 Copynumber: 5.2 Consensus size: 11
825353 GTTTAGATTA
825363 TATATAATTGTT
1 TATAT-ATTGTT
825375 TATATATTGTT
1 TATATATTGTT
**
825386 TACATTATATATAAT
1 T--A-TATAT-TGTT
*
825401 TATTTATTGTT
1 TATATATTGTT
825412 TATATATTGTT
1 TATATATTGTT
825423 TA
1 TA
825425 GATTATATAT
Statistics
Matches: 40, Mismatches: 6, Indels: 9
0.73 0.11 0.16
Matches are distributed among these distances:
11 21 0.52
12 9 0.22
13 2 0.05
14 5 0.12
15 3 0.08
ACGTcount: A:0.32, C:0.02, G:0.06, T:0.60
Consensus pattern (11 bp):
TATATATTGTT
Found at i:825410 original size:37 final size:37
Alignment explanation
Indices: 825369--825449 Score: 144
Period size: 37 Copynumber: 2.2 Consensus size: 37
825359 ATTATATATA
825369 ATTGTTTATATATTGTTTACATTATATATAATTATTT
1 ATTGTTTATATATTGTTTACATTATATATAATTATTT
* *
825406 ATTGTTTATATATTGTTTAGATTATATATAATTGTTT
1 ATTGTTTATATATTGTTTACATTATATATAATTATTT
825443 ATTGTTT
1 ATTGTTT
825450 GGCTTTTTCA
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
37 42 1.00
ACGTcount: A:0.30, C:0.01, G:0.09, T:0.60
Consensus pattern (37 bp):
ATTGTTTATATATTGTTTACATTATATATAATTATTT
Found at i:826495 original size:3 final size:3
Alignment explanation
Indices: 826487--826535 Score: 91
Period size: 3 Copynumber: 16.7 Consensus size: 3
826477 TTTTACTTCT
826487 TTA TTA TTA TTA TTA TTA TTA -TA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
826534 TT
1 TT
826536 TTTTTTGGAA
Statistics
Matches: 45, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
2 2 0.04
3 43 0.96
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:833889 original size:55 final size:53
Alignment explanation
Indices: 833800--834027 Score: 188
Period size: 55 Copynumber: 4.1 Consensus size: 53
833790 AAATATAATA
** * * * *
833800 AAAATTAAATTATAT-AGTCTATACTGACAATCTCTATTGGTCAGTATAGGTAAG
1 AAAATTAAAACATATAAATCTATACTGACAGTCTCTAAT-ATC-GTATAGGTAAG
* * *
833854 AAAATTAAAACTTATAAATCTATACTGATAGTCTCTAACCATCGATATAGGTAAG
1 AAAATTAAAACATATAAATCTATACTGACAGTCTCTAA-TATCG-TATAGGTAAG
* * * * *
833909 AAAAATTAAAACATATAAGTCTATACTGACAGGCGCTAGCTATCGGTATAGATAAG
1 -AAAATTAAAACATATAAATCTATACTGACAGTCTCTA-ATATC-GTATAGGTAAG
* * * * *
833965 AAAATTAAAACATACAAATCTATACTAACAGGCTTTAAGCATCAGTATAGGTAAG
1 AAAATTAAAACATATAAATCTATACTGACAGTCTCTAA-TATC-GTATAGGTAAG
834020 ATAAATTA
1 A-AAATTA
834028 TAAGTCTATA
Statistics
Matches: 140, Mismatches: 26, Indels: 14
0.78 0.14 0.08
Matches are distributed among these distances:
54 13 0.09
55 76 0.54
56 50 0.36
57 1 0.01
ACGTcount: A:0.44, C:0.13, G:0.14, T:0.29
Consensus pattern (53 bp):
AAAATTAAAACATATAAATCTATACTGACAGTCTCTAATATCGTATAGGTAAG
Found at i:836157 original size:1 final size:1
Alignment explanation
Indices: 836153--836200 Score: 51
Period size: 1 Copynumber: 48.0 Consensus size: 1
836143 TGGTGTTTGG
* * * * *
836153 TTTTTGTTTGTTTTGTTTTTTTTTTTTTTTTTTTATTTTATTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
836201 GAGAGGTTTC
Statistics
Matches: 37, Mismatches: 10, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
1 37 1.00
ACGTcount: A:0.04, C:0.00, G:0.06, T:0.90
Consensus pattern (1 bp):
T
Found at i:836168 original size:9 final size:9
Alignment explanation
Indices: 836153--836201 Score: 57
Period size: 9 Copynumber: 5.7 Consensus size: 9
836143 TGGTGTTTGG
836153 TTTTTGTTT
1 TTTTTGTTT
*
836162 GTTTTGTTT
1 TTTTTGTTT
836171 TTTTT-TTT
1 TTTTTGTTT
836179 TTTTT-TTT
1 TTTTTGTTT
* *
836187 ATTTTATTT
1 TTTTTGTTT
836196 TTTTTG
1 TTTTTG
836202 AGAGGTTTCC
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
8 15 0.44
9 19 0.56
ACGTcount: A:0.04, C:0.00, G:0.08, T:0.88
Consensus pattern (9 bp):
TTTTTGTTT
Done.