Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167860.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_13, 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: 22724830
ACGTcount: A:0.34, C:0.15, G:0.15, T:0.34
Warning! 82000 characters in sequence are not A, C, G, or T
File 5 of 109
Found at i:704983 original size:130 final size:130
Alignment explanation
Indices: 704849--705099 Score: 307
Period size: 130 Copynumber: 1.9 Consensus size: 130
704839 TTTTTCATAA
*
704849 AAAATATTTT-TCTT-GATAATTTTATTCTTAAGAAAAATT-AGTACTTCCAACTTTTC-CTTAA
1 AAAAT-TTTTATCTTAGA-AATTTTATTCTTAAGAAAAATTGA-TACTTCCAACTTTTCTC-AAA
* * **
704910 AAGTGTTTTTTTTTTAT-TTTAATTTCAAGAAAAATTGATACTT-TCAACTTTTTCTCAAAATAC
62 AAAT-ATTTTTTTAAATCTTTAATTTCAAGAAAAATTGATACTTCT-AACTTTTTCTCAAAATAC
704973 TTTTTG
125 TTTTTG
* * *
704979 AAAATTTTTATTTTAGAAATTTTATTTTTAAGAAAAATTGATACTTTCAACTTTTCTCAAAAAAT
1 AAAATTTTTATCTTAGAAATTTTATTCTTAAGAAAAATTGATACTTCCAACTTTTCTCAAAAAAT
* * *
705044 ATTTTTTTAAATCTTTATTTTTAAGAAAAATTGGTACTTCTAACTTTTTCTCAAAA
66 ATTTTTTTAAATCTTTAATTTCAAGAAAAATTGATACTTCTAACTTTTTCTCAAAA
705100 ATATATATAT
Statistics
Matches: 104, Mismatches: 11, Indels: 12
0.82 0.09 0.09
Matches are distributed among these distances:
129 13 0.12
130 86 0.83
131 5 0.05
ACGTcount: A:0.35, C:0.10, G:0.06, T:0.49
Consensus pattern (130 bp):
AAAATTTTTATCTTAGAAATTTTATTCTTAAGAAAAATTGATACTTCCAACTTTTCTCAAAAAAT
ATTTTTTTAAATCTTTAATTTCAAGAAAAATTGATACTTCTAACTTTTTCTCAAAATACTTTTTG
Found at i:705049 original size:72 final size:72
Alignment explanation
Indices: 704925--705064 Score: 203
Period size: 72 Copynumber: 1.9 Consensus size: 72
704915 TTTTTTTTTT
*
704925 ATTTTAATTTCAAGAAAAATTGATACTTTCAACTTTTTCTCAAAATACTTTTTGAAAATTTTTAT
1 ATTTTAATTTCAAGAAAAATTGATACTTTCAACTTTTTCTCAAAATACTTTTTGAAAATCTTTAT
704990 TTTAGAA
66 TTTAGAA
* * **
704997 ATTTTATTTTTAAGAAAAATTGATACTTTCAAC-TTTTCTCAAAAAATA-TTTTTTTAAATCTTT
1 ATTTTAATTTCAAGAAAAATTGATACTTTCAACTTTTTCTC--AAAATACTTTTTGAAAATCTTT
705060 ATTTT
64 ATTTT
705065 TAAGAAAAAT
Statistics
Matches: 61, Mismatches: 5, Indels: 4
0.87 0.07 0.06
Matches are distributed among these distances:
71 7 0.11
72 48 0.79
73 6 0.10
ACGTcount: A:0.36, C:0.09, G:0.04, T:0.50
Consensus pattern (72 bp):
ATTTTAATTTCAAGAAAAATTGATACTTTCAACTTTTTCTCAAAATACTTTTTGAAAATCTTTAT
TTTAGAA
Found at i:705187 original size:18 final size:18
Alignment explanation
Indices: 705164--705198 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
705154 TTCTCAAAAA
705164 TATTTTTAAAAAAAATTT
1 TATTTTTAAAAAAAATTT
*
705182 TATTTTTAAGAAAAATT
1 TATTTTTAAAAAAAATT
705199 AATACTTTCA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.49, C:0.00, G:0.03, T:0.49
Consensus pattern (18 bp):
TATTTTTAAAAAAAATTT
Found at i:705204 original size:60 final size:56
Alignment explanation
Indices: 704989--705229 Score: 261
Period size: 60 Copynumber: 4.1 Consensus size: 56
704979 AAAATTTTTA
*
704989 TTTTAGAAATTTTATTTTTAAGAAAAATTGATACTTTCAACTTTTCTCAAAAAATATT
1 TTTTA-AAATTTTATTTTTAAGAAAAATTGATACTTTCAATTTTTCTC-AAAAATATT
* *
705047 TTTTTAAATCTTTATTTTTAAGAAAAATTGGTAC-TTCTAACTTTTTCTCAAAAATATATAT
1 TTTTAAAAT-TTTATTTTTAAGAAAAATTGATACTTTC-AA-TTTTTCTC-AAAA-ATAT-T
* *
705108 ATTTGCTAAACTTTTATTTTCAAGAAAAATTGATACTTTCAATTTTTTCTCAAAAATATT
1 -TTT--TAAAATTTTATTTTTAAGAAAAATTGATACTTTCAA-TTTTTCTCAAAAATATT
* *
705168 TTTAAAAAAAATTTTATTTTTAAGAAAAATTAATACTTTCAATTTTTCGT-AAAAATATT
1 TTT---TAAAATTTTATTTTTAAGAAAAATTGATACTTTCAATTTTTC-TCAAAAATATT
705227 TTT
1 TTT
705230 NNNNNNNNNN
Statistics
Matches: 158, Mismatches: 14, Indels: 21
0.82 0.07 0.11
Matches are distributed among these distances:
57 7 0.04
58 29 0.18
59 33 0.21
60 38 0.24
61 5 0.03
62 7 0.04
63 32 0.20
64 7 0.04
ACGTcount: A:0.39, C:0.09, G:0.05, T:0.48
Consensus pattern (56 bp):
TTTTAAAATTTTATTTTTAAGAAAAATTGATACTTTCAATTTTTCTCAAAAATATT
Found at i:706977 original size:19 final size:19
Alignment explanation
Indices: 706936--706974 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 19
706926 GCATCATTTA
*
706936 TAAT-AATTATATTACAAT
1 TAATCAATTATAATACAAT
706954 TAATCAATTATAATA-AAT
1 TAATCAATTATAATACAAT
706972 TAA
1 TAA
706975 ATCGTACTAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 10 0.53
19 9 0.47
ACGTcount: A:0.54, C:0.05, G:0.00, T:0.41
Consensus pattern (19 bp):
TAATCAATTATAATACAAT
Found at i:708526 original size:18 final size:18
Alignment explanation
Indices: 708505--708579 Score: 51
Period size: 17 Copynumber: 4.6 Consensus size: 18
708495 ATTTGAATTC
708505 GTTTAAATATCCATTTAA
1 GTTTAAATATCCATTTAA
708523 GTTT-AATAT-CA-TTAA
1 GTTTAAATATCCATTTAA
* * *
708538 ---CAAA-ATCCGTATTCA
1 GTTTAAATATCCAT-TTAA
708553 -TTTAAATATCCATTTAA
1 GTTTAAATATCCATTTAA
708570 GTTT-AATATC
1 GTTTAAATATC
708580 ACTATCCATA
Statistics
Matches: 43, Mismatches: 6, Indels: 17
0.65 0.09 0.26
Matches are distributed among these distances:
12 2 0.05
13 3 0.07
15 7 0.16
16 2 0.05
17 17 0.40
18 12 0.28
ACGTcount: A:0.39, C:0.13, G:0.05, T:0.43
Consensus pattern (18 bp):
GTTTAAATATCCATTTAA
Found at i:708604 original size:47 final size:47
Alignment explanation
Indices: 708504--708607 Score: 120
Period size: 47 Copynumber: 2.2 Consensus size: 47
708494 TATTTGAATT
* * **
708504 CGTTTAAATATCCATTTAAGTTTAATATCATTAACAAAATCCGTATT
1 CGTTTAAATATCCATTTAAGTTTAATATCACTAACAAAATCCGAAAG
* * * *
708551 CATTTAAATATCCATTTAAGTTTAATATCACTATCCATATCC-AAAG
1 CGTTTAAATATCCATTTAAGTTTAATATCACTAACAAAATCCGAAAG
708597 CGGTTTAAATA
1 C-GTTTAAATA
708608 AGCACTAGCC
Statistics
Matches: 47, Mismatches: 9, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
46 2 0.04
47 45 0.96
ACGTcount: A:0.38, C:0.16, G:0.07, T:0.38
Consensus pattern (47 bp):
CGTTTAAATATCCATTTAAGTTTAATATCACTAACAAAATCCGAAAG
Found at i:709914 original size:27 final size:26
Alignment explanation
Indices: 709869--709924 Score: 85
Period size: 27 Copynumber: 2.1 Consensus size: 26
709859 ACAACCAAAA
709869 AAATTTATCATTATACTAATTACCAC
1 AAATTTATCATTATACTAATTACCAC
* *
709895 AAATTTATCATTCTCTCTAATTACCAC
1 AAATTTATCATTAT-ACTAATTACCAC
709922 AAA
1 AAA
709925 CCATCAACAT
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
26 13 0.48
27 14 0.52
ACGTcount: A:0.41, C:0.21, G:0.00, T:0.38
Consensus pattern (26 bp):
AAATTTATCATTATACTAATTACCAC
Found at i:711043 original size:2 final size:2
Alignment explanation
Indices: 711036--711070 Score: 61
Period size: 2 Copynumber: 17.0 Consensus size: 2
711026 TATTAATTCC
711036 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA GTA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA -TA TA
711071 GGAAGGGTAA
Statistics
Matches: 32, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
2 30 0.94
3 2 0.06
ACGTcount: A:0.49, C:0.00, G:0.03, T:0.49
Consensus pattern (2 bp):
TA
Found at i:711703 original size:45 final size:44
Alignment explanation
Indices: 711639--711743 Score: 106
Period size: 42 Copynumber: 2.3 Consensus size: 44
711629 TATATATTTT
* * *
711639 TTATTATTTATTTAATTTTATATTTATATATATGTTATATAATAAAA
1 TTATTATTTATATAATTTTAT-TTTA-AAATAT-TAATATAATAAAA
*
711686 TTATTATTTA-AT-ATTTTATTTTAAAATATTAATTTAATAAAA
1 TTATTATTTATATAATTTTATTTTAAAATATTAATATAATAAAA
*
711728 ATATTATATTTATATA
1 TTA-T-TATTTATATA
711744 TAATTAAAAT
Statistics
Matches: 49, Mismatches: 5, Indels: 9
0.78 0.08 0.14
Matches are distributed among these distances:
42 13 0.27
43 6 0.12
44 10 0.20
45 9 0.18
46 1 0.02
47 10 0.20
ACGTcount: A:0.43, C:0.00, G:0.01, T:0.56
Consensus pattern (44 bp):
TTATTATTTATATAATTTTATTTTAAAATATTAATATAATAAAA
Found at i:715372 original size:20 final size:21
Alignment explanation
Indices: 715349--715404 Score: 55
Period size: 20 Copynumber: 2.7 Consensus size: 21
715339 TCAATTTAAC
715349 TTAAAATTAATAAATTAT-TT
1 TTAAAATTAATAAATTATCTT
*
715369 TTAATA-TAA-AATATTATCTT
1 TTAAAATTAATAA-ATTATCTT
*
715389 TTAAATATAAATAAAT
1 TTAAA-ATTAATAAAT
715405 AATTAAATAA
Statistics
Matches: 28, Mismatches: 3, Indels: 8
0.72 0.08 0.21
Matches are distributed among these distances:
18 2 0.07
19 8 0.29
20 11 0.39
21 1 0.04
22 4 0.14
23 2 0.07
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.46
Consensus pattern (21 bp):
TTAAAATTAATAAATTATCTT
Found at i:715413 original size:12 final size:11
Alignment explanation
Indices: 715390--715427 Score: 53
Period size: 12 Copynumber: 3.5 Consensus size: 11
715380 TATTATCTTT
715390 TAAAT-ATAAA
1 TAAATAATAAA
715400 TAAATAATTAAA
1 TAAATAA-TAAA
715412 TAAATAATAAA
1 TAAATAATAAA
715423 -AAATA
1 TAAATA
715428 TTTTATATAT
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
10 10 0.38
11 5 0.19
12 11 0.42
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (11 bp):
TAAATAATAAA
Found at i:721632 original size:14 final size:14
Alignment explanation
Indices: 721610--721650 Score: 59
Period size: 14 Copynumber: 3.1 Consensus size: 14
721600 GGAATAAGAC
721610 TTGCAATAATTAAA
1 TTGCAATAATTAAA
*
721624 TTGCGATAATT-AA
1 TTGCAATAATTAAA
721637 -TGCAATAATTAAA
1 TTGCAATAATTAAA
721650 T
1 T
721651 CCTATTAAAG
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
12 9 0.39
13 4 0.17
14 10 0.43
ACGTcount: A:0.46, C:0.07, G:0.10, T:0.37
Consensus pattern (14 bp):
TTGCAATAATTAAA
Found at i:721646 original size:12 final size:13
Alignment explanation
Indices: 721610--721648 Score: 53
Period size: 12 Copynumber: 3.0 Consensus size: 13
721600 GGAATAAGAC
721610 TTGCAATAATTAAA
1 TTGCAATAATT-AA
*
721624 TTGCGATAATTAA
1 TTGCAATAATTAA
721637 -TGCAATAATTAA
1 TTGCAATAATTAA
721649 ATCCTATTAA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
12 11 0.48
13 2 0.09
14 10 0.43
ACGTcount: A:0.46, C:0.08, G:0.10, T:0.36
Consensus pattern (13 bp):
TTGCAATAATTAA
Found at i:727729 original size:30 final size:30
Alignment explanation
Indices: 727663--727730 Score: 77
Period size: 29 Copynumber: 2.3 Consensus size: 30
727653 AGAAATTTTG
*
727663 TATTAAAAATTCAAAATATTTTTTTTCAAA
1 TATTAAAAATTCAAAATAATTTTTTTCAAA
* * *
727693 -AGTAAAATTTTAAAATAATTTTTTT-AATA
1 TATTAAAAATTCAAAATAATTTTTTTCAA-A
727722 TATTAAAAA
1 TATTAAAAA
727731 ACTATTTTTA
Statistics
Matches: 30, Mismatches: 6, Indels: 4
0.75 0.15 0.10
Matches are distributed among these distances:
28 2 0.07
29 22 0.73
30 6 0.20
ACGTcount: A:0.50, C:0.03, G:0.01, T:0.46
Consensus pattern (30 bp):
TATTAAAAATTCAAAATAATTTTTTTCAAA
Found at i:728442 original size:20 final size:19
Alignment explanation
Indices: 728390--728442 Score: 54
Period size: 18 Copynumber: 2.7 Consensus size: 19
728380 TTAAAAGTTA
* *
728390 AATTAAATTTTTTTAAAAAT
1 AATTAAA-TATTTAAAAAAT
*
728410 AATT-AACATTTAAAAAAT
1 AATTAAATATTTAAAAAAT
728428 AATTAAAGTATTTAA
1 AATTAAA-TATTTAA
728443 TTAAAATTTA
Statistics
Matches: 27, Mismatches: 4, Indels: 4
0.77 0.11 0.11
Matches are distributed among these distances:
18 13 0.48
19 4 0.15
20 10 0.37
ACGTcount: A:0.55, C:0.02, G:0.02, T:0.42
Consensus pattern (19 bp):
AATTAAATATTTAAAAAAT
Found at i:729544 original size:1 final size:1
Alignment explanation
Indices: 729538--729565 Score: 56
Period size: 1 Copynumber: 28.0 Consensus size: 1
729528 TCTTGGATGG
729538 TTTTTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTT
729566 CTGTCATTTT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 27 1.00
ACGTcount: A:0.00, C:0.00, G:0.00, T:1.00
Consensus pattern (1 bp):
T
Found at i:731665 original size:146 final size:146
Alignment explanation
Indices: 731401--731665 Score: 395
Period size: 146 Copynumber: 1.8 Consensus size: 146
731391 AAGCTAATGC
* * *
731401 TTTGCACATCTTATACATGCATATTTCCGTTGAATGAATACGATTTCTTCCTTTGGGCATCTAAG
1 TTTGCACATCTTATACATGCATATTTCCGTTGAATGAAGACGATTTATTACTTTGGGCATCTAAG
* * * * *
731466 GCCCTGTTTGGTAAAGCAGGACGGTGCTGTGGAAGGTTTTCTTGTTTAACCAAAACTTCAGTTAG
66 GCCCCGTGTGGTAAAGCAGGACAGTGCGGTGGAAGGTTTTCTTGTTGAACCAAAACTTCAGTTAG
731531 GGGTTTAGGGTTTAGT
131 GGGTTTAGGGTTTAGT
* * *
731547 TTTGCACATCTTATACATGCATATTTCCTTTGAATGGAGATGATTTATTACTTTGGGCATCTAAG
1 TTTGCACATCTTATACATGCATATTTCCGTTGAATGAAGACGATTTATTACTTTGGGCATCTAAG
* * * *
731612 GCCCCGTGTGGTCAAGCAGTACAGTTCGGTGGAAGGTTTTCTTGTTGCACCAAA
66 GCCCCGTGTGGTAAAGCAGGACAGTGCGGTGGAAGGTTTTCTTGTTGAACCAAA
731666 GCTTTAGTCG
Statistics
Matches: 104, Mismatches: 15, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
146 104 1.00
ACGTcount: A:0.23, C:0.17, G:0.23, T:0.36
Consensus pattern (146 bp):
TTTGCACATCTTATACATGCATATTTCCGTTGAATGAAGACGATTTATTACTTTGGGCATCTAAG
GCCCCGTGTGGTAAAGCAGGACAGTGCGGTGGAAGGTTTTCTTGTTGAACCAAAACTTCAGTTAG
GGGTTTAGGGTTTAGT
Found at i:733679 original size:319 final size:319
Alignment explanation
Indices: 733094--733734 Score: 1104
Period size: 319 Copynumber: 2.0 Consensus size: 319
733084 TCAAAAATTT
* * *
733094 ATTTTTAAAAATTCATAATATATACTGAAAATGTATTTTCAAAAGTAAAGTTACTAGAAATTAAA
1 ATTTTCAAAAATTCACAATATATACTAAAAATGTATTTTCAAAAGTAAAGTTACTAGAAATTAAA
* *
733159 TTTTGGGAACATTCTCAATTTATTAGAAATGCATTTCAGAAAAACATATCAATCTTCGAAAGAAT
66 TTTCGGGAACATTCTCAATTTACTAGAAATGCATTTCAGAAAAACATATCAATCTTCGAAAGAAT
*
733224 TTTTTTTAAGAATTCTAATTTTGTTTGATTAACATGTAGAATAATTCTCAAAATGCAATAATAGT
131 TCTTTTTAAGAATTCTAATTTTGTTTGATTAACATGTAGAATAATTCTCAAAATGCAATAATAGT
* * **
733289 ATGGTATAAACTAAATAATTTAAATACCAACTACGATTGTAATTTTTCATTTATTACTGAAGATG
196 ATGGTATAAACCAAATAATTTAAATACCAACTACAATTGTAATTTTTCATTTACCACTGAAGATG
*
733354 TAAGATTATGTTTGTAAAAAATTATGATTTAATGTTTGTTTATGTAGATGCAAAATCAA
261 TAAGATTATATTTGTAAAAAATTATGATTTAATGTTTGTTTATGTAGATGCAAAATCAA
733413 ATTTTCAAAAATTCACAATATATACTAAAAATGTATTTTCAAAAGTAAAGTTACTAGAAATTAAA
1 ATTTTCAAAAATTCACAATATATACTAAAAATGTATTTTCAAAAGTAAAGTTACTAGAAATTAAA
* * *
733478 TTTCGGGAACATTCTTAATTTACTAGAAATGCATTTTC-GAAAAACATATCAATTTTTGAAAGAA
66 TTTCGGGAACATTCTCAATTTACTAGAAATGCA-TTTCAGAAAAACATATCAATCTTCGAAAGAA
*
733542 TTCTTTTTAAGAATTCTAATTTTGTTTGATTAACATGTAGAATAATTCTTAAAATGCAATAATAG
130 TTCTTTTTAAGAATTCTAATTTTGTTTGATTAACATGTAGAATAATTCTCAAAATGCAATAATAG
* *
733607 TGTGGTATAAACCAAATAATTTAAATACCAACTACAATTGTAATTTTTTATTTACCACTGAAGAT
195 TATGGTATAAACCAAATAATTTAAATACCAACTACAATTGTAATTTTTCATTTACCACTGAAGAT
*
733672 GTAAGATTATATTTGTAAAGAATTATGATTTAATGTTTGTTTATGTAGATGCAAAATCAA
260 GTAAGATTATATTTGTAAAAAATTATGATTTAATGTTTGTTTATGTAGATGCAAAATCAA
733732 ATT
1 ATT
733735 GTTGTGCTTT
Statistics
Matches: 303, Mismatches: 18, Indels: 2
0.94 0.06 0.01
Matches are distributed among these distances:
319 299 0.99
320 4 0.01
ACGTcount: A:0.41, C:0.09, G:0.11, T:0.39
Consensus pattern (319 bp):
ATTTTCAAAAATTCACAATATATACTAAAAATGTATTTTCAAAAGTAAAGTTACTAGAAATTAAA
TTTCGGGAACATTCTCAATTTACTAGAAATGCATTTCAGAAAAACATATCAATCTTCGAAAGAAT
TCTTTTTAAGAATTCTAATTTTGTTTGATTAACATGTAGAATAATTCTCAAAATGCAATAATAGT
ATGGTATAAACCAAATAATTTAAATACCAACTACAATTGTAATTTTTCATTTACCACTGAAGATG
TAAGATTATATTTGTAAAAAATTATGATTTAATGTTTGTTTATGTAGATGCAAAATCAA
Found at i:737891 original size:2 final size:2
Alignment explanation
Indices: 737884--737916 Score: 59
Period size: 2 Copynumber: 17.0 Consensus size: 2
737874 TCAAATGCAA
737884 AT AT AT AT AT AT AT AT AT AT AT AT AT AT -T AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
737917 GGAGCAATAC
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 29 0.97
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
AT
Found at i:740671 original size:48 final size:49
Alignment explanation
Indices: 740602--740698 Score: 169
Period size: 48 Copynumber: 2.0 Consensus size: 49
740592 TTTGCTTCTT
740602 TTGTCTTCCTCATCAACATTTTCACTCATTAATTCTTTTGAGTCTAAAC
1 TTGTCTTCCTCATCAACATTTTCACTCATTAATTCTTTTGAGTCTAAAC
* *
740651 TTGT-TTCCTCCTCAATATTTTCACTCATTAATTCTTTTGAGTCTAAAC
1 TTGTCTTCCTCATCAACATTTTCACTCATTAATTCTTTTGAGTCTAAAC
740699 CTATTTCTTC
Statistics
Matches: 46, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
48 42 0.91
49 4 0.09
ACGTcount: A:0.24, C:0.24, G:0.06, T:0.46
Consensus pattern (49 bp):
TTGTCTTCCTCATCAACATTTTCACTCATTAATTCTTTTGAGTCTAAAC
Found at i:744939 original size:2 final size:2
Alignment explanation
Indices: 744932--744969 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
744922 TATGCTTGTA
744932 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
744970 CTTACCAGAC
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:745350 original size:24 final size:24
Alignment explanation
Indices: 745303--745350 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
745293 TATCATCATC
* * *
745303 TTATTCATTGATAATGTATAAAAT
1 TTATACATTGACAATATATAAAAT
*
745327 TTATACATTGACAATATATTAAAT
1 TTATACATTGACAATATATAAAAT
745351 ATAAACTCTA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.44, C:0.06, G:0.06, T:0.44
Consensus pattern (24 bp):
TTATACATTGACAATATATAAAAT
Found at i:745710 original size:176 final size:180
Alignment explanation
Indices: 745359--745829 Score: 569
Period size: 190 Copynumber: 2.5 Consensus size: 180
745349 ATATAAACTC
* * *
745359 TATTTAAAAATAATATCCAAAG-CTTTCCTATATTAATTTTAATTTTTTCATAAATAAGTATTTG
1 TATTTAAAAATAAGATCCAAAGCCTTT-TTATATTAATTTTAA-GTTTTCATAAATAAGTATTTG
* *
745423 CTTTCCTTTTCTAAACTTTAATAAAAAAATTATTTGAAAAAGCAAATTAAATTTTTATGAAAGTC
64 CTTTCCTTTTCTAAACTTTCATAAAAAAATTATATGAAAAAGCAAATTAAATTTTTATG-AAGTC
** * * *
745488 TAAAAAACTGTTGTACATGTAAGCTAATCCCATAGTTGGTTTAGTTTTA-GG-
128 TAAAAAACCATTGTACATGTAAGCTAATCCAATACTTGGGTTAGTTTTAGGGT
*
745539 TATTTAAAAATAAGATCCAAAGCCTTTTTATATTAATTTTAAGTTTTCATAAATAAGCATTTGCT
1 TATTTAAAAATAAGATCCAAAGCCTTTTTATATTAATTTTAAGTTTTCATAAATAAGTATTTGCT
* *
745604 TTCTTTTTCTAAACTTTCATAAAATAGCA-TA-AT-AAAAAGCAAATTAAATTTTTATG-AGTCT
66 TTCCTTTTCTAAACTTTCATAAAA-A-AATTATATGAAAAAGCAAATTAAATTTTTATGAAGTCT
*
745665 AAAAAACCATTGTACATGTAAGCTAATCTAATACTTGGGTTAGTTTTAGGGTT
129 AAAAAACCATTGTACATGTAAGCTAATCCAATACTTGGGTTAGTTTTAGGG-T
745718 TAAAAATCCTATATTTAAAAGTAAGATCCAAAGCCTTTTTATATTAATTTTAAGTTTTCATAAAT
1 T----AT--T-TA---AAAA-TAAGATCCAAAGCCTTTTTATATTAATTTTAAGTTTTCATAAAT
* * *
745783 AAGTTTTTGCTTACCTTTTCCAAACTTTCATAAAAAAAAATTATATG
55 AAGTATTTGCTTTCCTTTTCTAAACTTTCAT--AAAAAAATTATATG
745830 CTTTTTTTTT
Statistics
Matches: 249, Mismatches: 20, Indels: 31
0.83 0.07 0.10
Matches are distributed among these distances:
176 47 0.19
177 2 0.01
178 23 0.09
179 45 0.18
180 38 0.15
181 5 0.02
183 2 0.01
185 1 0.00
186 2 0.01
189 4 0.02
190 71 0.29
191 3 0.01
192 6 0.02
ACGTcount: A:0.39, C:0.11, G:0.09, T:0.41
Consensus pattern (180 bp):
TATTTAAAAATAAGATCCAAAGCCTTTTTATATTAATTTTAAGTTTTCATAAATAAGTATTTGCT
TTCCTTTTCTAAACTTTCATAAAAAAATTATATGAAAAAGCAAATTAAATTTTTATGAAGTCTAA
AAAACCATTGTACATGTAAGCTAATCCAATACTTGGGTTAGTTTTAGGGT
Found at i:746315 original size:21 final size:21
Alignment explanation
Indices: 746265--746305 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
746255 TCAAAATTTT
746265 GGAATGAAAGCGAGAAATAGA
1 GGAATGAAAGCGAGAAATAGA
*
746286 GGAATGAAAG-GAGCAATAGA
1 GGAATGAAAGCGAGAAATAGA
746306 TGGATGGAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 9 0.47
21 10 0.53
ACGTcount: A:0.51, C:0.05, G:0.34, T:0.10
Consensus pattern (21 bp):
GGAATGAAAGCGAGAAATAGA
Found at i:747151 original size:21 final size:21
Alignment explanation
Indices: 747130--747170 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
747120 TTTTTAAAAA
747130 TAAAATAATATTTAATTTAAAT
1 TAAAATAAT-TTTAATTTAAAT
* *
747152 TTAAATTATTTTAATTTAA
1 TAAAATAATTTTAATTTAA
747171 TTTTTCAGAT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 10 0.59
22 7 0.41
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (21 bp):
TAAAATAATTTTAATTTAAAT
Found at i:753250 original size:32 final size:34
Alignment explanation
Indices: 753208--753282 Score: 91
Period size: 32 Copynumber: 2.3 Consensus size: 34
753198 TGCTCACTTC
* *
753208 GAATTCGATTCAATTTTA-TATTTTT-AATATTT
1 GAATTTGATTCAATTTAATTATTTTTAAATATTT
* *
753240 GAATTTGATTCGATTTAATTTTTTTTAAATATTT
1 GAATTTGATTCAATTTAATTATTTTTAAATATTT
*
753274 AAATTTGAT
1 GAATTTGAT
753283 ATTGTATAAA
Statistics
Matches: 36, Mismatches: 5, Indels: 2
0.84 0.12 0.05
Matches are distributed among these distances:
32 15 0.42
33 6 0.17
34 15 0.42
ACGTcount: A:0.32, C:0.04, G:0.08, T:0.56
Consensus pattern (34 bp):
GAATTTGATTCAATTTAATTATTTTTAAATATTT
Found at i:753344 original size:21 final size:21
Alignment explanation
Indices: 753320--753371 Score: 58
Period size: 18 Copynumber: 2.6 Consensus size: 21
753310 TCAATCAAAA
*
753320 ATTAATAAAATATTATTTTTT
1 ATTAATAAAATATTATTGTTT
753341 ATT-AT-AAA-ATTATTGTTT
1 ATTAATAAAATATTATTGTTT
753359 -TTAATATAAATAT
1 ATTAATA-AAATAT
753372 AAAAAAATAC
Statistics
Matches: 26, Mismatches: 1, Indels: 8
0.74 0.03 0.23
Matches are distributed among these distances:
17 2 0.08
18 11 0.42
19 3 0.12
20 5 0.19
21 5 0.19
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (21 bp):
ATTAATAAAATATTATTGTTT
Found at i:753385 original size:20 final size:20
Alignment explanation
Indices: 753362--753400 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
753352 ATTGTTTTTA
753362 ATATAA-ATATAAAAAAATAC
1 ATATAATAT-TAAAAAAATAC
*
753382 ATATAATATTAAATAAATA
1 ATATAATATTAAAAAAATA
753401 ATTAAAAAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 15 0.88
21 2 0.12
ACGTcount: A:0.67, C:0.03, G:0.00, T:0.31
Consensus pattern (20 bp):
ATATAATATTAAAAAAATAC
Found at i:759116 original size:17 final size:17
Alignment explanation
Indices: 759094--759193 Score: 87
Period size: 19 Copynumber: 5.7 Consensus size: 17
759084 ATAATATTAA
759094 AATATTAAAAATTATTT
1 AATATTAAAAATTATTT
759111 AATATT-AAAATTA-TT
1 AATATTAAAAATTATTT
* * *
759126 AAGATTAAAAAATAATT
1 AATATTAAAAATTATTT
* *
759143 ATATTTTAATAATAATATTT
1 A-ATATTAA-AA-ATTATTT
759163 AATATTAAAATATTATGTT
1 AATATTAAAA-ATTAT-TT
*
759182 AATATAAAAAAT
1 AATATTAAAAAT
759194 ACTTAAAATA
Statistics
Matches: 69, Mismatches: 8, Indels: 11
0.78 0.09 0.12
Matches are distributed among these distances:
15 7 0.10
16 13 0.19
17 9 0.13
18 14 0.20
19 19 0.28
20 7 0.10
ACGTcount: A:0.55, C:0.00, G:0.02, T:0.43
Consensus pattern (17 bp):
AATATTAAAAATTATTT
Found at i:759132 original size:15 final size:16
Alignment explanation
Indices: 759101--759135 Score: 54
Period size: 15 Copynumber: 2.2 Consensus size: 16
759091 TAAAATATTA
*
759101 AAAATTATTTAATATT
1 AAAATTATTTAAGATT
759117 AAAATTA-TTAAGATT
1 AAAATTATTTAAGATT
759132 AAAA
1 AAAA
759136 AATAATTATA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 11 0.61
16 7 0.39
ACGTcount: A:0.57, C:0.00, G:0.03, T:0.40
Consensus pattern (16 bp):
AAAATTATTTAAGATT
Found at i:759134 original size:32 final size:34
Alignment explanation
Indices: 759097--759199 Score: 86
Period size: 37 Copynumber: 3.0 Consensus size: 34
759087 ATATTAAAAT
759097 ATTAAAAATTATTTAATATTAAAAT-TA-TTAAG
1 ATTAAAAATTATTTAATATTAAAATATATTTAAG
* * * *
759129 ATTAAAAAATAATTATATTTTAATAATAATATTTAAT
1 ATTAAAAATTATTTA-ATATTAA-AAT-ATATTTAAG
* *
759166 ATTAAAATATTATGTTAATA-TAAAAAATACTTAA
1 ATTAAAA-ATTAT-TTAATATTAAAATATATTTAA
759200 AATAAAACCA
Statistics
Matches: 55, Mismatches: 9, Indels: 11
0.73 0.12 0.15
Matches are distributed among these distances:
32 13 0.24
33 6 0.11
34 3 0.05
35 7 0.13
36 4 0.07
37 14 0.25
38 5 0.09
39 3 0.05
ACGTcount: A:0.54, C:0.01, G:0.02, T:0.43
Consensus pattern (34 bp):
ATTAAAAATTATTTAATATTAAAATATATTTAAG
Found at i:759241 original size:15 final size:15
Alignment explanation
Indices: 759221--759344 Score: 70
Period size: 15 Copynumber: 8.6 Consensus size: 15
759211 TTATTATTTT
759221 TATATTATTTAATAA
1 TATATTATTTAATAA
* *
759236 TATATTA--TAACAT
1 TATATTATTTAATAA
759249 TAT-TTA-TTAATAA
1 TATATTATTTAATAA
*
759262 TATATTATTTATTAA
1 TATATTATTTAATAA
*
759277 TA-AGTTATTATAATAT
1 TATA-TTATT-TAATAA
*
759293 TA-ATTAAATTAATAA
1 TATATT-ATTTAATAA
*
759308 TAT-TTA-TT-ATTA
1 TATATTATTTAATAA
*
759320 TATTATTAATTAAT-A
1 TA-TATTATTTAATAA
759335 TAATATTATT
1 T-ATATTATT
759345 ATTTATTAGC
Statistics
Matches: 86, Mismatches: 11, Indels: 24
0.71 0.09 0.20
Matches are distributed among these distances:
12 8 0.09
13 17 0.20
14 8 0.09
15 41 0.48
16 12 0.14
ACGTcount: A:0.45, C:0.01, G:0.01, T:0.53
Consensus pattern (15 bp):
TATATTATTTAATAA
Found at i:759270 original size:18 final size:18
Alignment explanation
Indices: 759247--759352 Score: 76
Period size: 18 Copynumber: 5.6 Consensus size: 18
759237 ATATTATAAC
759247 ATTATTTATTAATAATAT
1 ATTATTTATTAATAATAT
759265 ATTATTTATTAATAAGT-T
1 ATTATTTATTAATAA-TAT
*
759283 ATTATAATATTAATTAAATTAAT
1 ATTAT-TTATTAA-T-AA-T-AT
*
759306 AATATTTATT-AT--TAT
1 ATTATTTATTAATAATAT
*
759321 ATTATTAATTAATATAATATT
1 ATTATTTATT-A-ATAATA-T
759342 ATTATTTATTA
1 ATTATTTATTA
759353 GCAATTTATT
Statistics
Matches: 69, Mismatches: 7, Indels: 22
0.70 0.07 0.22
Matches are distributed among these distances:
15 10 0.14
16 1 0.01
18 23 0.33
19 7 0.10
20 5 0.07
21 14 0.20
22 4 0.06
23 5 0.07
ACGTcount: A:0.44, C:0.00, G:0.01, T:0.55
Consensus pattern (18 bp):
ATTATTTATTAATAATAT
Found at i:759311 original size:44 final size:45
Alignment explanation
Indices: 759220--759320 Score: 118
Period size: 44 Copynumber: 2.2 Consensus size: 45
759210 TTTATTATTT
*
759220 TTATATTATTTAATAATATATTATAACATTATTTATTAATAATATA
1 TTATATTA-TTAATAATATATTATAACATTATTAATTAATAATATA
*
759266 TTAT-TTATTAATAAGT-TATTATAATATTAATTAAATTAATAATAT-
1 TTATATTATTAATAA-TATATTATAACATT-ATT-AATTAATAATATA
759311 TTATTATTAT
1 TTA-TATTAT
759321 ATTATTAATT
Statistics
Matches: 48, Mismatches: 2, Indels: 9
0.81 0.03 0.15
Matches are distributed among these distances:
44 18 0.38
45 10 0.21
46 16 0.33
47 4 0.08
ACGTcount: A:0.45, C:0.01, G:0.01, T:0.53
Consensus pattern (45 bp):
TTATATTATTAATAATATATTATAACATTATTAATTAATAATATA
Found at i:759339 original size:33 final size:33
Alignment explanation
Indices: 759281--759352 Score: 94
Period size: 33 Copynumber: 2.2 Consensus size: 33
759271 TATTAATAAG
759281 TTATTATAATATTAATTAAATTAATAATATT-T
1 TTATTATAATATTAATTAAATTAATAATATTAT
* *
759313 ATTATTATATTATTAATT-AATATAATATTATTAT
1 -TTATTATAATATTAATTAAAT-TAATAATATTAT
759347 TTATTA
1 TTATTA
759353 GCAATTTATT
Statistics
Matches: 35, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
32 3 0.09
33 31 0.89
34 1 0.03
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (33 bp):
TTATTATAATATTAATTAAATTAATAATATTAT
Found at i:763957 original size:8 final size:7
Alignment explanation
Indices: 763941--763979 Score: 51
Period size: 7 Copynumber: 5.3 Consensus size: 7
763931 TAAATAACTT
763941 TTAATAA
1 TTAATAA
763948 TTATATAA
1 TTA-ATAA
763956 TTAATTAA
1 TTAA-TAA
763964 TTAATAA
1 TTAATAA
*
763971 TTAAAAA
1 TTAATAA
763978 TT
1 TT
763980 TTTAATTATT
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
7 15 0.52
8 14 0.48
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (7 bp):
TTAATAA
Found at i:763970 original size:15 final size:15
Alignment explanation
Indices: 763941--763979 Score: 53
Period size: 15 Copynumber: 2.6 Consensus size: 15
763931 TAAATAACTT
763941 TTAATAATTATATAA
1 TTAATAATTATATAA
763956 TTAATTAATTA-ATAA
1 TTAA-TAATTATATAA
*
763971 TTAAAAATT
1 TTAATAATT
763980 TTTAATTATT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
14 4 0.18
15 12 0.55
16 6 0.27
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (15 bp):
TTAATAATTATATAA
Found at i:765413 original size:28 final size:28
Alignment explanation
Indices: 765382--765439 Score: 107
Period size: 28 Copynumber: 2.1 Consensus size: 28
765372 TGTCTGGCGA
*
765382 TATATATAAGGCCGTAACAATGGTTAGC
1 TATATATAAGACCGTAACAATGGTTAGC
765410 TATATATAAGACCGTAACAATGGTTAGC
1 TATATATAAGACCGTAACAATGGTTAGC
765438 TA
1 TA
765440 CAGTTTTACA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.38, C:0.14, G:0.19, T:0.29
Consensus pattern (28 bp):
TATATATAAGACCGTAACAATGGTTAGC
Found at i:770446 original size:18 final size:18
Alignment explanation
Indices: 770423--770458 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
770413 CTAAAGCTAA
*
770423 AAAATAATTTTCAATTTG
1 AAAATAATTCTCAATTTG
770441 AAAATAATTCTCAATTTG
1 AAAATAATTCTCAATTTG
770459 GTACCAAAGA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.44, C:0.08, G:0.06, T:0.42
Consensus pattern (18 bp):
AAAATAATTCTCAATTTG
Found at i:772096 original size:19 final size:20
Alignment explanation
Indices: 772061--772101 Score: 50
Period size: 19 Copynumber: 2.1 Consensus size: 20
772051 AAAATACCTT
772061 AATTAAAAAAATATTTT-AA
1 AATTAAAAAAATATTTTCAA
*
772080 AATT-AAAATATATTTTTCAA
1 AATTAAAAAAATA-TTTTCAA
772100 AA
1 AA
772102 AATAATTAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
18 7 0.37
19 8 0.42
20 4 0.21
ACGTcount: A:0.59, C:0.02, G:0.00, T:0.39
Consensus pattern (20 bp):
AATTAAAAAAATATTTTCAA
Found at i:773624 original size:36 final size:36
Alignment explanation
Indices: 773584--773653 Score: 97
Period size: 36 Copynumber: 1.9 Consensus size: 36
773574 TGAATGATAA
* *
773584 AAATTTGTATT-AGATAGTGTAAAATGTGTTAGAAGC
1 AAATTCGTATTAAG-TAGTATAAAATGTGTTAGAAGC
*
773620 AAATTCGTATTAAGTAGTATACAATGTGTTAGAA
1 AAATTCGTATTAAGTAGTATAAAATGTGTTAGAA
773654 ACGTCATAAC
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
36 28 0.93
37 2 0.07
ACGTcount: A:0.40, C:0.04, G:0.20, T:0.36
Consensus pattern (36 bp):
AAATTCGTATTAAGTAGTATAAAATGTGTTAGAAGC
Found at i:779395 original size:77 final size:77
Alignment explanation
Indices: 779262--779415 Score: 202
Period size: 77 Copynumber: 2.0 Consensus size: 77
779252 GTAAACATAG
* *
779262 ATTGTAGTAGCTAAATCCAAAACCCAACCTTTATCACCCTTTAAAGCCTAAAACTCAT-CTATAC
1 ATTGTAATAGCTAAATCCAAAACCCAACCTTTATCACCCTTTAAAGCCTAAAACTCATCCT-CAC
779326 AAGTCATCAAAAA
65 AAGTCATCAAAAA
* *** * * *
779339 ATTGTAATAGCTTAATCCAAAACCCAACCTTTATCAGTTTTTGAAGTCTAAGACTCATCCTCACA
1 ATTGTAATAGCTAAATCCAAAACCCAACCTTTATCACCCTTTAAAGCCTAAAACTCATCCTCACA
*
779404 AGTCGTCAAAAA
66 AGTCATCAAAAA
779416 GGCATCATCA
Statistics
Matches: 66, Mismatches: 10, Indels: 2
0.85 0.13 0.03
Matches are distributed among these distances:
77 64 0.97
78 2 0.03
ACGTcount: A:0.39, C:0.25, G:0.08, T:0.28
Consensus pattern (77 bp):
ATTGTAATAGCTAAATCCAAAACCCAACCTTTATCACCCTTTAAAGCCTAAAACTCATCCTCACA
AGTCATCAAAAA
Found at i:781502 original size:19 final size:19
Alignment explanation
Indices: 781478--781514 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
781468 ACCTCTAAAG
781478 GAATTCAACCTAAAGCAGT
1 GAATTCAACCTAAAGCAGT
**
781497 GAATTCAATTTAAAGCAG
1 GAATTCAACCTAAAGCAG
781515 AATCTTAAAT
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:0.43, C:0.16, G:0.16, T:0.24
Consensus pattern (19 bp):
GAATTCAACCTAAAGCAGT
Found at i:782803 original size:21 final size:21
Alignment explanation
Indices: 782779--782821 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
782769 TGTAAAGAAT
782779 GTTTTTATCCCTCAAGATACA
1 GTTTTTATCCCTCAAGATACA
782800 GTTTTTATCCCTCAAGATACA
1 GTTTTTATCCCTCAAGATACA
782821 G
1 G
782822 AGGGAACCTT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.28, C:0.23, G:0.12, T:0.37
Consensus pattern (21 bp):
GTTTTTATCCCTCAAGATACA
Found at i:785531 original size:11 final size:11
Alignment explanation
Indices: 785515--785539 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
785505 GATGAATCAT
785515 TATTATTATTA
1 TATTATTATTA
785526 TATTATTATTA
1 TATTATTATTA
785537 TAT
1 TAT
785540 AAACATACAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (11 bp):
TATTATTATTA
Found at i:793764 original size:16 final size:16
Alignment explanation
Indices: 793743--793773 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
793733 CTCTATTTAG
*
793743 TAATTTTATCTCTTAA
1 TAATTTTAACTCTTAA
793759 TAATTTTAACTCTTA
1 TAATTTTAACTCTTA
793774 CCCTTTTTGT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.32, C:0.13, G:0.00, T:0.55
Consensus pattern (16 bp):
TAATTTTAACTCTTAA
Found at i:800397 original size:18 final size:18
Alignment explanation
Indices: 800351--800398 Score: 57
Period size: 17 Copynumber: 2.8 Consensus size: 18
800341 ATTTTCTAAT
*
800351 TTTTTTATA-TTATTGTA
1 TTTTTTATATTTATAGTA
800368 TTTTTTAT-TTTA-AGTA
1 TTTTTTATATTTATAGTA
800384 TATTTTTATATTTAT
1 T-TTTTTATATTTAT
800399 GCATGATAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
16 4 0.15
17 18 0.69
18 4 0.15
ACGTcount: A:0.25, C:0.00, G:0.04, T:0.71
Consensus pattern (18 bp):
TTTTTTATATTTATAGTA
Found at i:800835 original size:14 final size:15
Alignment explanation
Indices: 800805--800840 Score: 56
Period size: 14 Copynumber: 2.5 Consensus size: 15
800795 ATCTAAAATG
800805 CCTTAAATCCGAAAC
1 CCTTAAATCCGAAAC
800820 CCTTAAATCC-AAAC
1 CCTTAAATCCGAAAC
*
800834 CCCTAAA
1 CCTTAAA
800841 ATTCAAAATC
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
14 10 0.50
15 10 0.50
ACGTcount: A:0.42, C:0.36, G:0.03, T:0.19
Consensus pattern (15 bp):
CCTTAAATCCGAAAC
Found at i:800842 original size:15 final size:15
Alignment explanation
Indices: 800809--801031 Score: 99
Period size: 16 Copynumber: 14.2 Consensus size: 15
800799 AAAATGCCTT
*
800809 AAATCCGAAA-CCCTT
1 AAATCC-AAACCCCTA
800824 AAATCCAAACCCCTA
1 AAATCCAAACCCCTA
* *
800839 AAATTCAAAATCTCCTA
1 AAA-TCCAAA-CCCCTA
**
800856 AAATCCAAA-ATCTAA
1 AAATCCAAACCCCT-A
**
800871 AAATCCAAAATCCTA
1 AAATCCAAACCCCTA
800886 AAATCCGAAACCCCTAA
1 AAATCC-AAACCCCT-A
**
800903 AAATCCAAAATCCTA
1 AAATCCAAACCCCTA
*
800918 AAATTCGAAACCCCTTA
1 AAA-TCCAAACCCC-TA
** *
800935 AAATCCAAAATCTTA
1 AAATCCAAACCCCTA
**
800950 AAATTGAAACCCCTAA
1 AAATCCAAACCCCT-A
* * *
800966 AAATTCAAAATCCCTT
1 AAA-TCCAAACCCCTA
* * *
800982 AAATTCAAACTGCTTA
1 AAATCCAAAC-CCCTA
***
800998 AAATCCAAAATTCTA
1 AAATCCAAACCCCTA
*
801013 AAATCCGAAACCCTTA
1 AAATCC-AAACCCCTA
801029 AAA
1 AAA
801032 ATTCAAACTT
Statistics
Matches: 152, Mismatches: 43, Indels: 25
0.69 0.20 0.11
Matches are distributed among these distances:
14 5 0.03
15 57 0.38
16 62 0.41
17 28 0.18
ACGTcount: A:0.49, C:0.26, G:0.03, T:0.22
Consensus pattern (15 bp):
AAATCCAAACCCCTA
Found at i:800860 original size:32 final size:32
Alignment explanation
Indices: 800824--801038 Score: 199
Period size: 32 Copynumber: 6.8 Consensus size: 32
800814 CGAAACCCTT
*
800824 AAATCCAAACCCCT-AAAATTCAAAATCTCCTA
1 AAATCCAAACCCCTAAAAATCCAAAAT-TCCTA
**
800856 AAATCCAAA-ATCTAAAAATCCAAAA-TCCTA
1 AAATCCAAACCCCTAAAAATCCAAAATTCCTA
800886 AAATCCGAAACCCCTAAAAATCCAAAA-TCCTA
1 AAATCC-AAACCCCTAAAAATCCAAAATTCCTA
* * *
800918 AAATTCGAAACCCCTTAAAATCCAAAA-TCTTA
1 AAA-TCCAAACCCCTAAAAATCCAAAATTCCTA
** * * *
800950 AAATTGAAACCCCTAAAAATTCAAAATCCCTT
1 AAATCCAAACCCCTAAAAATCCAAAATTCCTA
* ** *
800982 AAATTCAAACTGCTTAAAATCCAAAATT-CTA
1 AAATCCAAACCCCTAAAAATCCAAAATTCCTA
* *
801013 AAATCCGAAACCCTTAAAAATTCAAA
1 AAATCC-AAACCCCTAAAAATCCAAA
801039 CTTTAAAACT
Statistics
Matches: 150, Mismatches: 27, Indels: 12
0.79 0.14 0.06
Matches are distributed among these distances:
30 11 0.07
31 32 0.21
32 105 0.70
33 2 0.01
ACGTcount: A:0.50, C:0.26, G:0.02, T:0.22
Consensus pattern (32 bp):
AAATCCAAACCCCTAAAAATCCAAAATTCCTA
Found at i:800860 original size:47 final size:47
Alignment explanation
Indices: 800783--801031 Score: 149
Period size: 47 Copynumber: 5.3 Consensus size: 47
800773 TAAGTTTTTA
* * * * *
800783 AAACCCCTTAAAATCTAAAAT-GCCTTAAATCCGAAACCCTTAAATCC
1 AAACCCCTTAAAATCCAAAATCTCCTAAAATCC-AAAACCTAAAATCC
* *
800830 AAACCCC-TAAAATTCAAAATCTCCTAAAATCCAAAATCTAAAAATCC
1 AAACCCCTTAAAATCCAAAATCTCCTAAAATCCAAAACCT-AAAATCC
** * * *
800877 AAAATCC-TAAAATCCGAAA-CCCCTAAAAATCCAAAATCCTAAAATTCG
1 AAACCCCTTAAAATCCAAAATCTCCT-AAAATCCAAAA-CCTAAAA-TCC
** * *
800925 AAACCCCTTAAAATCCAAAATCT--TAAAATTGAAACCCCTAAAAATTCA
1 AAACCCCTTAAAATCCAAAATCTCCTAAAATCCAAA-ACCT-AAAA-TCC
* * * *
800973 AAATCCCTT-AAATTC-AAA-CTGCTTAAAATCCAAAATTCTAAAATCC
1 AAACCCCTTAAAATCCAAAATCT-CCTAAAATCCAAAA-CCTAAAATCC
801019 GAAA-CCCTTAAAA
1 -AAACCCCTTAAAA
801032 ATTCAAACTT
Statistics
Matches: 158, Mismatches: 29, Indels: 30
0.73 0.13 0.14
Matches are distributed among these distances:
45 2 0.01
46 30 0.19
47 78 0.49
48 36 0.23
49 11 0.07
50 1 0.01
ACGTcount: A:0.48, C:0.27, G:0.03, T:0.22
Consensus pattern (47 bp):
AAACCCCTTAAAATCCAAAATCTCCTAAAATCCAAAACCTAAAATCC
Found at i:800875 original size:8 final size:8
Alignment explanation
Indices: 800855--800921 Score: 50
Period size: 8 Copynumber: 8.6 Consensus size: 8
800845 AAAATCTCCT
800855 AAAATCC-
1 AAAATCCA
*
800862 AAAATCTA
1 AAAATCCA
800870 AAAATCC-
1 AAAATCCA
*
800877 AAAATCCT
1 AAAATCCA
*
800885 AAAATCCG
1 AAAATCCA
**
800893 AAACCCCTA
1 AAAATCC-A
800902 AAAATCC-
1 AAAATCCA
*
800909 AAAATCCT
1 AAAATCCA
800917 AAAAT
1 AAAAT
800922 TCGAAACCCC
Statistics
Matches: 48, Mismatches: 8, Indels: 7
0.76 0.13 0.11
Matches are distributed among these distances:
7 20 0.42
8 23 0.48
9 5 0.10
ACGTcount: A:0.55, C:0.25, G:0.01, T:0.18
Consensus pattern (8 bp):
AAAATCCA
Found at i:800897 original size:63 final size:64
Alignment explanation
Indices: 800809--801038 Score: 265
Period size: 63 Copynumber: 3.6 Consensus size: 64
800799 AAAATGCCTT
* * * * *
800809 AAATCCGAAACCCTTAAATCC-AAACCCCT-AAAATTCAAAATCTCCTAAAATCCAAAATCTAA
1 AAATCCAAAATCCTAAAATCCGAAACCCCTAAAAATTCAAAATCTCCTAAAATCCAAACTCTTA
* * *
800871 AAATCCAAAATCCTAAAATCCGAAACCCCTAAAAATCCAAAA--TCCTAAAATTCGAAACCCCTT
1 AAATCCAAAATCCTAAAATCCGAAACCCCTAAAAATTCAAAATCTCCTAAAA-TCCAAA-CTCTT
800934 A
64 A
* * * *
800935 AAATCCAAAATCTTAAAAT-TGAAACCCCTAAAAATTCAAAATC-CCTTAAATTCAAACTGCTTA
1 AAATCCAAAATCCTAAAATCCGAAACCCCTAAAAATTCAAAATCTCCTAAAATCCAAACT-CTTA
* *
800998 AAATCCAAAATTCTAAAATCCGAAACCCTTAAAAATTCAAA
1 AAATCCAAAATCCTAAAATCCGAAACCCCTAAAAATTCAAA
801039 CTTTAAAACT
Statistics
Matches: 141, Mismatches: 19, Indels: 14
0.81 0.11 0.08
Matches are distributed among these distances:
62 27 0.19
63 58 0.41
64 56 0.40
ACGTcount: A:0.49, C:0.26, G:0.03, T:0.22
Consensus pattern (64 bp):
AAATCCAAAATCCTAAAATCCGAAACCCCTAAAAATTCAAAATCTCCTAAAATCCAAACTCTTA
Found at i:801039 original size:16 final size:15
Alignment explanation
Indices: 800816--801039 Score: 64
Period size: 15 Copynumber: 14.3 Consensus size: 15
800806 CTTAAATCCG
*
800816 AAACCCTT-AAATCC
1 AAACCCTTAAAATTC
*
800830 AAACCCCTAAAATTC
1 AAACCCTTAAAATTC
*
800845 AAAATCTCC-TAAAATCC
1 -AAA-C-CCTTAAAATTC
** * *
800862 AAAATCTAAAAATCC
1 AAACCCTTAAAATTC
* *
800877 AAAATCC-TAAAATCC
1 -AAACCCTTAAAATTC
* *
800892 GAAACCCCTAAAAATCC
1 -AAA-CCCTTAAAATTC
*
800909 AAAATCC-TAAAATTC
1 -AAACCCTTAAAATTC
*
800924 GAAACCCCTTAAAATCC
1 -AAA-CCCTTAAAATTC
** *
800941 AAAATCTTAAAATTG
1 AAACCCTTAAAATTC
*
800956 AAACCCCTAAAAATTC
1 AAA-CCCTTAAAATTC
800972 AAAATCCCTT-AAATTC
1 -AAA-CCCTTAAAATTC
* *
800988 AAACTGCTTAAAATCC
1 AAAC-CCTTAAAATTC
** *
801004 AAA-ATTCTAAAATCC
1 AAACCCT-TAAAATTC
801019 GAAACCCTTAAAAATTC
1 -AAACCCTT-AAAATTC
801036 AAAC
1 AAAC
801040 TTTAAAACTC
Statistics
Matches: 156, Mismatches: 36, Indels: 34
0.69 0.16 0.15
Matches are distributed among these distances:
14 10 0.06
15 56 0.36
16 49 0.31
17 39 0.25
18 2 0.01
ACGTcount: A:0.49, C:0.26, G:0.02, T:0.22
Consensus pattern (15 bp):
AAACCCTTAAAATTC
Found at i:801061 original size:17 final size:15
Alignment explanation
Indices: 801024--801078 Score: 51
Period size: 17 Copynumber: 3.6 Consensus size: 15
801014 AATCCGAAAC
*
801024 CCTTAAAAATTCAAA
1 CCTTAAAACTTCAAA
*
801039 CTTTAAAACTCTCTAAA
1 CCTTAAAACT-TC-AAA
801056 CCTTAAAAC--CAAA
1 CCTTAAAACTTCAAA
801069 CCTTCAAAAC
1 CCTT-AAAAC
801079 CTCTACTCGA
Statistics
Matches: 34, Mismatches: 3, Indels: 7
0.77 0.07 0.16
Matches are distributed among these distances:
13 7 0.21
14 6 0.18
15 8 0.24
16 2 0.06
17 11 0.32
ACGTcount: A:0.47, C:0.27, G:0.00, T:0.25
Consensus pattern (15 bp):
CCTTAAAACTTCAAA
Found at i:803135 original size:30 final size:30
Alignment explanation
Indices: 803074--803148 Score: 87
Period size: 30 Copynumber: 2.5 Consensus size: 30
803064 TTGAGTTTTC
*
803074 AAACATTTATTTTCATTAAAATAAACCCTT
1 AAACATTTATTTTCATCAAAATAAACCCTT
* ** * *
803104 AAACATTTATTTTCATCCAGTTTAACTCTT
1 AAACATTTATTTTCATCAAAATAAACCCTT
*
803134 AAACATTCATTTTCA
1 AAACATTTATTTTCA
803149 CCTAATTATA
Statistics
Matches: 38, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 38 1.00
ACGTcount: A:0.37, C:0.19, G:0.01, T:0.43
Consensus pattern (30 bp):
AAACATTTATTTTCATCAAAATAAACCCTT
Found at i:803357 original size:18 final size:19
Alignment explanation
Indices: 803334--803369 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
803324 ACACTTATCT
803334 AAAAAATATATT-AAAATA
1 AAAAAATATATTCAAAATA
*
803352 AAAAAATTTATTCAAAAT
1 AAAAAATATATTCAAAAT
803370 TTGAACCTCT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 11 0.69
19 5 0.31
ACGTcount: A:0.67, C:0.03, G:0.00, T:0.31
Consensus pattern (19 bp):
AAAAAATATATTCAAAATA
Found at i:808456 original size:19 final size:20
Alignment explanation
Indices: 808417--808460 Score: 63
Period size: 19 Copynumber: 2.2 Consensus size: 20
808407 TCGAACCAAA
* *
808417 TTATATATTTTTCTTAATTT
1 TTATATATATTTCTAAATTT
808437 TTATATATATTT-TAAATTT
1 TTATATATATTTCTAAATTT
808456 TTATA
1 TTATA
808461 AAATAAAAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 11 0.50
20 11 0.50
ACGTcount: A:0.32, C:0.02, G:0.00, T:0.66
Consensus pattern (20 bp):
TTATATATATTTCTAAATTT
Found at i:809672 original size:14 final size:14
Alignment explanation
Indices: 809653--809679 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
809643 TTCTTGGCCA
809653 AAAAATATATATAT
1 AAAAATATATATAT
809667 AAAAATATATATA
1 AAAAATATATATA
809680 AACAAAAGGA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (14 bp):
AAAAATATATATAT
Found at i:815510 original size:58 final size:58
Alignment explanation
Indices: 815420--815534 Score: 185
Period size: 58 Copynumber: 2.0 Consensus size: 58
815410 TCAATTTTTC
* * *
815420 TTTGAATGTATCTTTCTTAGTTCCATTATCACTCTACTTATTTCTACAACACAATACG
1 TTTGAATATATCTTTCTTAATTCCATTATCACTCTACTCATTTCTACAACACAATACG
* *
815478 TTTGAATATATCTTTCTTAATTCCCTTATCACTCTACTCATTTCTACAACTCAATAC
1 TTTGAATATATCTTTCTTAATTCCATTATCACTCTACTCATTTCTACAACACAATAC
815535 CCAAACCTTT
Statistics
Matches: 52, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
58 52 1.00
ACGTcount: A:0.28, C:0.24, G:0.04, T:0.43
Consensus pattern (58 bp):
TTTGAATATATCTTTCTTAATTCCATTATCACTCTACTCATTTCTACAACACAATACG
Found at i:816029 original size:3 final size:3
Alignment explanation
Indices: 816021--816061 Score: 73
Period size: 3 Copynumber: 13.7 Consensus size: 3
816011 TCAGAATAAA
*
816021 ATT ATT ATT ATT ATT ATT ATT ATT ATT ACT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
816062 ATTTTGAAAA
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 36 1.00
ACGTcount: A:0.34, C:0.02, G:0.00, T:0.63
Consensus pattern (3 bp):
ATT
Found at i:817849 original size:13 final size:13
Alignment explanation
Indices: 817831--817871 Score: 57
Period size: 13 Copynumber: 3.2 Consensus size: 13
817821 TTAATCTAAT
817831 AAATAAACAAATA
1 AAATAAACAAATA
817844 AAATAAACAAAT-
1 AAATAAACAAATA
* *
817856 AAACAAAGAAATA
1 AAATAAACAAATA
817869 AAA
1 AAA
817872 AAAAATTCAA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
12 10 0.40
13 15 0.60
ACGTcount: A:0.78, C:0.07, G:0.02, T:0.12
Consensus pattern (13 bp):
AAATAAACAAATA
Found at i:817903 original size:14 final size:13
Alignment explanation
Indices: 817884--817913 Score: 51
Period size: 13 Copynumber: 2.2 Consensus size: 13
817874 AAATTCAAAG
817884 AAAGAAAGAAAAAA
1 AAAGAAA-AAAAAA
817898 AAAGAAAAAAAAA
1 AAAGAAAAAAAAA
817911 AAA
1 AAA
817914 ACCTGGAGCG
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 9 0.56
14 7 0.44
ACGTcount: A:0.90, C:0.00, G:0.10, T:0.00
Consensus pattern (13 bp):
AAAGAAAAAAAAA
Found at i:817903 original size:18 final size:16
Alignment explanation
Indices: 817860--817914 Score: 56
Period size: 20 Copynumber: 3.1 Consensus size: 16
817850 ACAAATAAAC
817860 AAAGAAATAAAAAAAAA
1 AAAGAAA-AAAAAAAAA
817877 TTCAAAGAAAGAAAGAAAAAA
1 ---AAAGAAA-AAA-AAAAAA
817898 AAAGAAAAAAAAAAAA
1 AAAGAAAAAAAAAAAA
817914 A
1 A
817915 CCTGGAGCGG
Statistics
Matches: 33, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
16 7 0.21
17 3 0.09
18 7 0.21
20 10 0.30
21 6 0.18
ACGTcount: A:0.84, C:0.02, G:0.09, T:0.05
Consensus pattern (16 bp):
AAAGAAAAAAAAAAAA
Found at i:817914 original size:14 final size:14
Alignment explanation
Indices: 817884--817914 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
817874 AAATTCAAAG
*
817884 AAAGAAAGAAAAAA
1 AAAGAAAAAAAAAA
817898 AAAGAAAAAAAAAA
1 AAAGAAAAAAAAAA
817912 AAA
1 AAA
817915 CCTGGAGCGG
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:0.90, C:0.00, G:0.10, T:0.00
Consensus pattern (14 bp):
AAAGAAAAAAAAAA
Found at i:818453 original size:26 final size:24
Alignment explanation
Indices: 818414--818467 Score: 63
Period size: 25 Copynumber: 2.2 Consensus size: 24
818404 AATCTGGAAA
*
818414 TTTCCCAGAAATTTCCAGAAAAAAT
1 TTTCCCAAAAATTTCCA-AAAAAAT
* *
818439 TTTCGCCAAAAATTTCTAAAAAATT
1 TTTC-CCAAAAATTTCCAAAAAAAT
818464 TTTC
1 TTTC
818468 TCACTCCCAG
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
25 14 0.56
26 11 0.44
ACGTcount: A:0.41, C:0.19, G:0.06, T:0.35
Consensus pattern (24 bp):
TTTCCCAAAAATTTCCAAAAAAAT
Found at i:818883 original size:18 final size:19
Alignment explanation
Indices: 818862--818905 Score: 56
Period size: 18 Copynumber: 2.4 Consensus size: 19
818852 AATAAAAAAG
* *
818862 ATAAATATAT-ATATATAC
1 ATAAATATATAAAATACAC
818880 ATAAATA-ATAAAATACAC
1 ATAAATATATAAAATACAC
818898 ATAAATAT
1 ATAAATAT
818906 TAACAAAAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
17 2 0.09
18 20 0.91
ACGTcount: A:0.61, C:0.07, G:0.00, T:0.32
Consensus pattern (19 bp):
ATAAATATATAAAATACAC
Found at i:819287 original size:41 final size:41
Alignment explanation
Indices: 819203--819853 Score: 940
Period size: 40 Copynumber: 16.0 Consensus size: 41
819193 TTTTACCAAA
*
819203 GCTCCTCTAAACAGAGGCACCACGACTTTTGGAAAGTAAATT
1 GCTCCTCTAAACAGAGGCACCACGAC-TTTGAAAAGTAAATT
*
819245 GCTCCTCTAAACAGAGGCACCACGACTTTGGAAAGTAAATT
1 GCTCCTCTAAACAGAGGCACCACGACTTTGAAAAGTAAATT
819286 GCTCCTCTAAACAGAGGCA--ACGAACTTTGAAAAGTAAATT
1 GCTCCTCTAAACAGAGGCACCACG-ACTTTGAAAAGTAAATT
* *
819326 GCTCCTCTAAATAGAGGTACCACGACTTTGAAAAAAGTAAATTT
1 GCTCCTCTAAACAGAGGCACCACGACTTTG--AAAAGTAAA-TT
*
819370 GCTCCTCTAAACAGAGGCA--ACGAACTTTGAAATGTAAATT
1 GCTCCTCTAAACAGAGGCACCACG-ACTTTGAAAAGTAAATT
*
819410 GCT-CTCTAAACAGAGG---CACGACTTTGGAAAGTAAATT
1 GCTCCTCTAAACAGAGGCACCACGACTTTGAAAAGTAAATT
819447 GCTCCTCTAAACAGAGGCA--ACGAACTTTGAAAAGTAAATT
1 GCTCCTCTAAACAGAGGCACCACG-ACTTTGAAAAGTAAATT
*
819487 GCTCCTCTAAACAGA-GTACCACGACTTTGAAAAAGTAAATT
1 GCTCCTCTAAACAGAGGCACCACGACTTTG-AAAAGTAAATT
* *
819528 GCTCCTCTAAATAGAGGCACCACGACTTTGGAAAGTAAATT
1 GCTCCTCTAAACAGAGGCACCACGACTTTGAAAAGTAAATT
819569 GCTCCTCTAAACAGAGGCA--ACGAACTTTGAAAAGTAAATT
1 GCTCCTCTAAACAGAGGCACCACG-ACTTTGAAAAGTAAATT
* *
819609 GCTCCTCTAAACAGAGGTACCACGACTTTGAAAAAATAAATT
1 GCTCCTCTAAACAGAGGCACCACGACTTTG-AAAAGTAAATT
*
819651 GCTCCTCTAAACAGAGGCACCACGACTTTGGAAAGTAAATT
1 GCTCCTCTAAACAGAGGCACCACGACTTTGAAAAGTAAATT
819692 GCTCCTCTAAACAGAGGCA--ACGAACTTTGAAAAGTAAATT
1 GCTCCTCTAAACAGAGGCACCACG-ACTTTGAAAAGTAAATT
*
819732 GCTCCTCTAAACAGAGGCACCACGACTTTGGAAAGTAAATT
1 GCTCCTCTAAACAGAGGCACCACGACTTTGAAAAGTAAATT
819773 GCTCCTCTAAACAGAGGCA--ACGAACTTTGAAAAGTAAATT
1 GCTCCTCTAAACAGAGGCACCACG-ACTTTGAAAAGTAAATT
*
819813 GCTCCTCTAAACAGAGGTACCACGACTTTGGAAAAGTAAAT
1 GCTCCTCTAAACAGAGGCACCACGACTTT-GAAAAGTAAAT
819854 ACTCCTAGAC
Statistics
Matches: 558, Mismatches: 24, Indels: 54
0.88 0.04 0.08
Matches are distributed among these distances:
37 18 0.03
38 16 0.03
39 30 0.05
40 178 0.32
41 178 0.32
42 104 0.19
43 15 0.03
44 19 0.03
ACGTcount: A:0.37, C:0.21, G:0.18, T:0.23
Consensus pattern (41 bp):
GCTCCTCTAAACAGAGGCACCACGACTTTGAAAAGTAAATT
Found at i:819859 original size:41 final size:41
Alignment explanation
Indices: 819203--819853 Score: 876
Period size: 41 Copynumber: 16.0 Consensus size: 41
819193 TTTTACCAAA
819203 GCTCCTCTAAACAGAGGCACCACGACTTTTGG-AAAGTAAATT
1 GCTCCTCTAAACAGAGG-ACCACGAC-TTTGGAAAAGTAAATT
819245 GCTCCTCTAAACAGAGGCACCACGACTTTGG-AAAGTAAATT
1 GCTCCTCTAAACAGAGG-ACCACGACTTTGGAAAAGTAAATT
*
819286 GCTCCTCTAAACAGAGG-CAACGAACTTT-GAAAAGTAAATT
1 GCTCCTCTAAACAGAGGACCACG-ACTTTGGAAAAGTAAATT
* *
819326 GCTCCTCTAAATAGAGGTACCACGACTTTGAAAAAAGTAAATTT
1 GCTCCTCTAAACAGAGG-ACCACGACTTTG-GAAAAGTAAA-TT
* *
819370 GCTCCTCTAAACAGAGG-CAACGAACTTT-GAAATGTAAATT
1 GCTCCTCTAAACAGAGGACCACG-ACTTTGGAAAAGTAAATT
819410 GCT-CTCTAAACAGAGG--CACGACTTTGG-AAAGTAAATT
1 GCTCCTCTAAACAGAGGACCACGACTTTGGAAAAGTAAATT
*
819447 GCTCCTCTAAACAGAGG-CAACGAACTTT-GAAAAGTAAATT
1 GCTCCTCTAAACAGAGGACCACG-ACTTTGGAAAAGTAAATT
* *
819487 GCTCCTCTAAACAGAGTACCACGACTTTGAAAAAGTAAATT
1 GCTCCTCTAAACAGAGGACCACGACTTTGGAAAAGTAAATT
*
819528 GCTCCTCTAAATAGAGGCACCACGACTTTGG-AAAGTAAATT
1 GCTCCTCTAAACAGAGG-ACCACGACTTTGGAAAAGTAAATT
*
819569 GCTCCTCTAAACAGAGG-CAACGAACTTT-GAAAAGTAAATT
1 GCTCCTCTAAACAGAGGACCACG-ACTTTGGAAAAGTAAATT
* *
819609 GCTCCTCTAAACAGAGGTACCACGACTTTGAAAAAATAAATT
1 GCTCCTCTAAACAGAGG-ACCACGACTTTGGAAAAGTAAATT
819651 GCTCCTCTAAACAGAGGCACCACGACTTTGG-AAAGTAAATT
1 GCTCCTCTAAACAGAGG-ACCACGACTTTGGAAAAGTAAATT
*
819692 GCTCCTCTAAACAGAGG-CAACGAACTTT-GAAAAGTAAATT
1 GCTCCTCTAAACAGAGGACCACG-ACTTTGGAAAAGTAAATT
819732 GCTCCTCTAAACAGAGGCACCACGACTTTGG-AAAGTAAATT
1 GCTCCTCTAAACAGAGG-ACCACGACTTTGGAAAAGTAAATT
*
819773 GCTCCTCTAAACAGAGG-CAACGAACTTT-GAAAAGTAAATT
1 GCTCCTCTAAACAGAGGACCACG-ACTTTGGAAAAGTAAATT
819813 GCTCCTCTAAACAGAGGTACCACGACTTTGGAAAAGTAAAT
1 GCTCCTCTAAACAGAGG-ACCACGACTTTGGAAAAGTAAAT
819854 ACTCCTAGAC
Statistics
Matches: 549, Mismatches: 29, Indels: 62
0.86 0.05 0.10
Matches are distributed among these distances:
37 17 0.03
38 17 0.03
39 37 0.07
40 168 0.31
41 169 0.31
42 109 0.20
43 14 0.03
44 18 0.03
ACGTcount: A:0.37, C:0.21, G:0.18, T:0.23
Consensus pattern (41 bp):
GCTCCTCTAAACAGAGGACCACGACTTTGGAAAAGTAAATT
Found at i:819859 original size:81 final size:81
Alignment explanation
Indices: 819203--819853 Score: 989
Period size: 81 Copynumber: 8.0 Consensus size: 81
819193 TTTTACCAAA
*
819203 GCTCCTCTAAACAGAGGCACCACG-ACTTTTGGAAAGTAAATTGCTCCTCTAAACAGAGGCACCA
1 GCTCCTCTAAACAGAGGCA--ACGAAC-TTTGAAAAGTAAATTGCTCCTCTAAACAGAGGCACCA
819267 CGACTTTGGAAAGTAAATT
63 CGACTTTGGAAAGTAAATT
* *
819286 GCTCCTCTAAACAGAGGCAACGAACTTTGAAAAGTAAATTGCTCCTCTAAATAGAGGTACCACGA
1 GCTCCTCTAAACAGAGGCAACGAACTTTGAAAAGTAAATTGCTCCTCTAAACAGAGGCACCACGA
*
819351 CTTTGAAAAAAGTAAATTT
66 CTTTG--GAAAGTAAA-TT
*
819370 GCTCCTCTAAACAGAGGCAACGAACTTTGAAATGTAAATTGCT-CTCTAAACAGAGG---CACGA
1 GCTCCTCTAAACAGAGGCAACGAACTTTGAAAAGTAAATTGCTCCTCTAAACAGAGGCACCACGA
819431 CTTTGGAAAGTAAATT
66 CTTTGGAAAGTAAATT
*
819447 GCTCCTCTAAACAGAGGCAACGAACTTTGAAAAGTAAATTGCTCCTCTAAACAGA-GTACCACGA
1 GCTCCTCTAAACAGAGGCAACGAACTTTGAAAAGTAAATTGCTCCTCTAAACAGAGGCACCACGA
*
819511 CTTTGAAAAAGTAAATT
66 CTTTG-GAAAGTAAATT
* *
819528 GCTCCTCTAAATAGAGGCACCACG-ACTTTGGAAAGTAAATTGCTCCTCTAAACAGAGGCA--AC
1 GCTCCTCTAAACAGAGGCA--ACGAACTTTGAAAAGTAAATTGCTCCTCTAAACAGAGGCACCAC
*
819590 GAACTTTGAAAAGTAAATT
64 G-ACTTTGGAAAGTAAATT
* *
819609 GCTCCTCTAAACAGAGGTACCACG-ACTTTGAAAAAATAAATTGCTCCTCTAAACAGAGGCACCA
1 GCTCCTCTAAACAGAGG--CAACGAACTTTG-AAAAGTAAATTGCTCCTCTAAACAGAGGCACCA
819673 CGACTTTGGAAAGTAAATT
63 CGACTTTGGAAAGTAAATT
819692 GCTCCTCTAAACAGAGGCAACGAACTTTGAAAAGTAAATTGCTCCTCTAAACAGAGGCACCACGA
1 GCTCCTCTAAACAGAGGCAACGAACTTTGAAAAGTAAATTGCTCCTCTAAACAGAGGCACCACGA
819757 CTTTGGAAAGTAAATT
66 CTTTGGAAAGTAAATT
*
819773 GCTCCTCTAAACAGAGGCAACGAACTTTGAAAAGTAAATTGCTCCTCTAAACAGAGGTACCACGA
1 GCTCCTCTAAACAGAGGCAACGAACTTTGAAAAGTAAATTGCTCCTCTAAACAGAGGCACCACGA
819838 CTTTGGAAAAGTAAAT
66 CTTTGG-AAAGTAAAT
819854 ACTCCTAGAC
Statistics
Matches: 528, Mismatches: 20, Indels: 41
0.90 0.03 0.07
Matches are distributed among these distances:
77 45 0.09
78 19 0.04
80 20 0.04
81 237 0.45
82 82 0.16
83 78 0.15
84 47 0.09
ACGTcount: A:0.37, C:0.21, G:0.18, T:0.23
Consensus pattern (81 bp):
GCTCCTCTAAACAGAGGCAACGAACTTTGAAAAGTAAATTGCTCCTCTAAACAGAGGCACCACGA
CTTTGGAAAGTAAATT
Found at i:820893 original size:8 final size:8
Alignment explanation
Indices: 820869--821008 Score: 207
Period size: 8 Copynumber: 17.8 Consensus size: 8
820859 CTTGTTCACC
820869 TTTTTTCA
1 TTTTTTCA
*
820877 TCATTTTCA
1 T-TTTTTCA
820886 TTTTTTCA
1 TTTTTTCA
820894 -TTTTTCA
1 TTTTTTCA
820901 TTTTTTCA
1 TTTTTTCA
820909 TTTTTTTCA
1 -TTTTTTCA
820918 -TTTTTCA
1 TTTTTTCA
*
820925 TTTTTCCA
1 TTTTTTCA
820933 TTTTTTCA
1 TTTTTTCA
820941 TTTTTTCA
1 TTTTTTCA
820949 TTTTTTCA
1 TTTTTTCA
820957 TTTTTTCA
1 TTTTTTCA
820965 TTTTTTCA
1 TTTTTTCA
820973 TTTTTT-A
1 TTTTTTCA
820980 -TTTTTCA
1 TTTTTTCA
*
820987 TTTTTTTA
1 TTTTTTCA
820995 TTTTTTCA
1 TTTTTTCA
821003 TTTTTT
1 TTTTTT
821009 TTCAAGCATA
Statistics
Matches: 120, Mismatches: 6, Indels: 12
0.87 0.04 0.09
Matches are distributed among these distances:
6 5 0.04
7 16 0.13
8 84 0.70
9 15 0.12
ACGTcount: A:0.13, C:0.12, G:0.00, T:0.75
Consensus pattern (8 bp):
TTTTTTCA
Found at i:824438 original size:59 final size:57
Alignment explanation
Indices: 824349--824511 Score: 229
Period size: 59 Copynumber: 2.8 Consensus size: 57
824339 TTTTGTAGGA
*
824349 AAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTGAAAATTTCGATTT-TCAAGG
1 AAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTGAAAATTT--ATTTCT-AAGG
*
824408 AAAATTGATACTTTCAACTTTTCCTCAAAAATCCTTTTTTGAAAATTTATTTCTAAGG
1 AAAATTGATACTTTCAACTTTTCCTCAAAAAT-ATTTTTTGAAAATTTATTTCTAAGG
*
824466 AAAATTGATACTTTCAACTTTTCCCTAAAAATATATTTTTTCGAAA
1 AAAATTGATACTTTCAACTTTT-CCTCAAAA-ATATTTTTT-GAAA
824512 TTTTTTTTAT
Statistics
Matches: 95, Mismatches: 4, Indels: 9
0.88 0.04 0.08
Matches are distributed among these distances:
58 30 0.32
59 45 0.47
60 20 0.21
ACGTcount: A:0.36, C:0.15, G:0.07, T:0.42
Consensus pattern (57 bp):
AAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTGAAAATTTATTTCTAAGG
Found at i:824496 original size:58 final size:58
Alignment explanation
Indices: 824349--824505 Score: 230
Period size: 58 Copynumber: 2.7 Consensus size: 58
824339 TTTTGTAGGA
*
824349 AAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTGAAAATTTCGATTTTCAAGG
1 AAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTGAAAATTTC-ATTTTCAAGG
*
824408 AAAATTGATACTTTCAACTTTT-CCTCAAAAATCCTTTTTTGAAAATTT-A-TTTCTAAGG
1 AAAATTGATACTTTCAACTTTTCCCT-AAAAAT-ATTTTTTGAAAATTTCATTTTC-AAGG
824466 AAAATTGATACTTTCAACTTTTCCCTAAAAATATATTTTT
1 AAAATTGATACTTTCAACTTTTCCCTAAAAATAT-TTTTT
824506 TCGAAATTTT
Statistics
Matches: 90, Mismatches: 3, Indels: 11
0.87 0.03 0.11
Matches are distributed among these distances:
57 5 0.06
58 40 0.44
59 31 0.34
60 14 0.16
ACGTcount: A:0.36, C:0.15, G:0.06, T:0.43
Consensus pattern (58 bp):
AAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTGAAAATTTCATTTTCAAGG
Found at i:824606 original size:13 final size:13
Alignment explanation
Indices: 824588--824628 Score: 57
Period size: 13 Copynumber: 3.2 Consensus size: 13
824578 CTAATCTAAT
824588 AAATAAACAAATA
1 AAATAAACAAATA
824601 AAATAAACAAAT-
1 AAATAAACAAATA
* *
824613 AAACAAAGAAATA
1 AAATAAACAAATA
824626 AAA
1 AAA
824629 AAAATTCAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
12 10 0.40
13 15 0.60
ACGTcount: A:0.78, C:0.07, G:0.02, T:0.12
Consensus pattern (13 bp):
AAATAAACAAATA
Found at i:825182 original size:26 final size:24
Alignment explanation
Indices: 825143--825196 Score: 63
Period size: 25 Copynumber: 2.2 Consensus size: 24
825133 AATCTGGAAA
*
825143 TTTCCCAGAAATTTCCAGAAAAAAT
1 TTTCCCAAAAATTTCCA-AAAAAAT
* *
825168 TTTCGCCAAAAATTTCTAAAAAATT
1 TTTC-CCAAAAATTTCCAAAAAAAT
825193 TTTC
1 TTTC
825197 TCACTCCCAG
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
25 14 0.56
26 11 0.44
ACGTcount: A:0.41, C:0.19, G:0.06, T:0.35
Consensus pattern (24 bp):
TTTCCCAAAAATTTCCAAAAAAAT
Found at i:827248 original size:22 final size:21
Alignment explanation
Indices: 827214--827258 Score: 63
Period size: 22 Copynumber: 2.1 Consensus size: 21
827204 CATCATCATT
827214 TTTTAATTATTTTTATTCTTA
1 TTTTAATTATTTTTATTCTTA
* *
827235 TTTTAGTTATTTTTTATTTTTA
1 TTTTAATTA-TTTTTATTCTTA
827257 TT
1 TT
827259 AATAATTTTT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 8 0.38
22 13 0.62
ACGTcount: A:0.20, C:0.02, G:0.02, T:0.76
Consensus pattern (21 bp):
TTTTAATTATTTTTATTCTTA
Found at i:827288 original size:11 final size:11
Alignment explanation
Indices: 827224--827289 Score: 53
Period size: 11 Copynumber: 5.8 Consensus size: 11
827214 TTTTAATTAT
*
827224 TTTTATTCTTA
1 TTTTATTTTTA
*
827235 TTTTAGTTATT-
1 TTTTA-TTTTTA
827246 TTTTATTTTTA
1 TTTTATTTTTA
*
827257 TTAATAATTTTTA
1 TT--TTATTTTTA
* *
827270 GTTAATTTTTA
1 TTTTATTTTTA
827281 TTTTATTTT
1 TTTTATTTT
827290 ATAGAAAGAA
Statistics
Matches: 45, Mismatches: 6, Indels: 8
0.76 0.10 0.14
Matches are distributed among these distances:
10 4 0.09
11 28 0.62
12 4 0.09
13 9 0.20
ACGTcount: A:0.23, C:0.02, G:0.03, T:0.73
Consensus pattern (11 bp):
TTTTATTTTTA
Found at i:827554 original size:3 final size:3
Alignment explanation
Indices: 827546--827583 Score: 76
Period size: 3 Copynumber: 12.7 Consensus size: 3
827536 AACATGCATA
827546 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
827584 CTTAAAATGA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:828146 original size:27 final size:26
Alignment explanation
Indices: 828116--828175 Score: 66
Period size: 27 Copynumber: 2.3 Consensus size: 26
828106 TTTTTCGTTG
* *
828116 TTTTTTTTTTTGGAAGATTTTTTTTTC
1 TTTTTTTTTCTGGAAGA-GTTTTTTTC
* * *
828143 TTTTCTTTTCTGGTAGAGTTTTTTTG
1 TTTTTTTTTCTGGAAGAGTTTTTTTC
828169 TTTTTTT
1 TTTTTTT
828176 ACAATCTTTC
Statistics
Matches: 27, Mismatches: 6, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
26 13 0.48
27 14 0.52
ACGTcount: A:0.08, C:0.05, G:0.13, T:0.73
Consensus pattern (26 bp):
TTTTTTTTTCTGGAAGAGTTTTTTTC
Found at i:839493 original size:17 final size:17
Alignment explanation
Indices: 839471--839509 Score: 62
Period size: 17 Copynumber: 2.3 Consensus size: 17
839461 TGTTTAATTA
839471 TATTTTAATTTA-TTAAT
1 TATTTT-ATTTATTTAAT
839488 TATTTTATTTATTTAAT
1 TATTTTATTTATTTAAT
839505 TATTT
1 TATTT
839510 AGAGAATTCT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
16 5 0.24
17 16 0.76
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (17 bp):
TATTTTATTTATTTAAT
Found at i:841322 original size:2 final size:2
Alignment explanation
Indices: 841315--841356 Score: 75
Period size: 2 Copynumber: 21.0 Consensus size: 2
841305 ACTCGTTGGG
*
841315 AT AT AT AT AT AT AT AT AT AT AT AT AT AC AT AT 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
841357 CCAAGGTGTA
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:845897 original size:16 final size:18
Alignment explanation
Indices: 845868--845905 Score: 53
Period size: 17 Copynumber: 2.2 Consensus size: 18
845858 CCCACAAGAC
845868 AAAAACAACCAAAA-AAA
1 AAAAACAACCAAAAGAAA
*
845885 AAAAAC-ACTAAAAGAAA
1 AAAAACAACCAAAAGAAA
845902 AAAA
1 AAAA
845906 TAGCAAACAC
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
16 6 0.32
17 13 0.68
ACGTcount: A:0.82, C:0.13, G:0.03, T:0.03
Consensus pattern (18 bp):
AAAAACAACCAAAAGAAA
Found at i:848521 original size:28 final size:28
Alignment explanation
Indices: 848490--848560 Score: 88
Period size: 28 Copynumber: 2.5 Consensus size: 28
848480 GTATAATTAA
*
848490 TTGATTGTTTTATTGTACTTCTACTTGC
1 TTGATTGTTTTATTATACTTCTACTTGC
* * *
848518 TTGATTGTTTTCTTATACTTTTGCTTGC
1 TTGATTGTTTTATTATACTTCTACTTGC
* *
848546 TTGATTATTTAATTA
1 TTGATTGTTTTATTA
848561 ATTTTTGGCC
Statistics
Matches: 36, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
28 36 1.00
ACGTcount: A:0.17, C:0.11, G:0.13, T:0.59
Consensus pattern (28 bp):
TTGATTGTTTTATTATACTTCTACTTGC
Found at i:850951 original size:15 final size:17
Alignment explanation
Indices: 850906--850946 Score: 64
Period size: 17 Copynumber: 2.4 Consensus size: 17
850896 ATTAAGGATG
* *
850906 TATATGATATATAAAAT
1 TATATTATAAATAAAAT
850923 TATATTATAAATAAAAT
1 TATATTATAAATAAAAT
850940 TATATTA
1 TATATTA
850947 AATAATTTTA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
17 22 1.00
ACGTcount: A:0.54, C:0.00, G:0.02, T:0.44
Consensus pattern (17 bp):
TATATTATAAATAAAAT
Found at i:851389 original size:2 final size:2
Alignment explanation
Indices: 851382--851409 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
851372 GAAACATGAA
851382 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
851410 GTGTGGAATC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:857396 original size:44 final size:45
Alignment explanation
Indices: 857331--857423 Score: 154
Period size: 44 Copynumber: 2.1 Consensus size: 45
857321 TGAGACAAAG
857331 GAAAACCATTTCTCATCATCT-AATTTTATGATAACAAATATCGA
1 GAAAACCATTTCTCATCATCTAAATTTTATGATAACAAATATCGA
* *
857375 GAAAACTATTTCTCATTATCTAAATTTTATGATAACAAATATCGA
1 GAAAACCATTTCTCATCATCTAAATTTTATGATAACAAATATCGA
857420 -AAAA
1 GAAAA
857424 TAAAAAAGAA
Statistics
Matches: 46, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
44 23 0.50
45 23 0.50
ACGTcount: A:0.44, C:0.15, G:0.06, T:0.34
Consensus pattern (45 bp):
GAAAACCATTTCTCATCATCTAAATTTTATGATAACAAATATCGA
Found at i:860793 original size:23 final size:23
Alignment explanation
Indices: 860767--860838 Score: 67
Period size: 23 Copynumber: 3.1 Consensus size: 23
860757 TTATTTTAAG
860767 TTTA-TGTAAAGTTCAAGTTTAGT
1 TTTATTGTAAA-TTCAAGTTTAGT
* *
860790 TTTATTTTAAATTCAAGTTTTGT
1 TTTATTGTAAATTCAAGTTTAGT
* * *
860813 TTTGTTTTTAATTCAA-TTTAAGT
1 TTTATTGTAAATTCAAGTTT-AGT
860836 TTT
1 TTT
860839 CTGAAATTTA
Statistics
Matches: 42, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
22 3 0.07
23 34 0.81
24 5 0.12
ACGTcount: A:0.26, C:0.04, G:0.11, T:0.58
Consensus pattern (23 bp):
TTTATTGTAAATTCAAGTTTAGT
Found at i:865380 original size:23 final size:22
Alignment explanation
Indices: 865354--865407 Score: 63
Period size: 23 Copynumber: 2.4 Consensus size: 22
865344 TTATGCAAAG
865354 TTCAATTTTATTTTTCTTTTAAA
1 TTCAATTTTA-TTTTCTTTTAAA
* * *
865377 TTCAAGTTCTATTTTGTTTTCAA
1 TTCAA-TTTTATTTTCTTTTAAA
865400 TTCAATTT
1 TTCAATTT
865408 AAGCTTTCTT
Statistics
Matches: 26, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
22 2 0.08
23 20 0.77
24 4 0.15
ACGTcount: A:0.24, C:0.11, G:0.04, T:0.61
Consensus pattern (22 bp):
TTCAATTTTATTTTCTTTTAAA
Found at i:865544 original size:20 final size:19
Alignment explanation
Indices: 865521--865571 Score: 50
Period size: 20 Copynumber: 2.6 Consensus size: 19
865511 TTAAGGTTTG
*
865521 AAGTTTTATTCATTAAATTT
1 AAGTTTAATTCATTAAA-TT
* *
865541 AAG-TTGATTGCATTCAATT
1 AAGTTTAATT-CATTAAATT
865560 AAGTTTAATTCA
1 AAGTTTAATTCA
865572 GATTTTGTTT
Statistics
Matches: 26, Mismatches: 3, Indels: 5
0.76 0.09 0.15
Matches are distributed among these distances:
19 12 0.46
20 14 0.54
ACGTcount: A:0.35, C:0.08, G:0.10, T:0.47
Consensus pattern (19 bp):
AAGTTTAATTCATTAAATT
Found at i:866168 original size:17 final size:17
Alignment explanation
Indices: 866128--866171 Score: 52
Period size: 17 Copynumber: 2.6 Consensus size: 17
866118 CAAATCATGA
* *
866128 ATGATAAAATCATCTTG
1 ATGATAAAATCACCTCG
* *
866145 GTAATAAAATCACCTCG
1 ATGATAAAATCACCTCG
866162 ATGATAAAAT
1 ATGATAAAAT
866172 ATCATAATAA
Statistics
Matches: 21, Mismatches: 6, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.45, C:0.14, G:0.11, T:0.30
Consensus pattern (17 bp):
ATGATAAAATCACCTCG
Found at i:867015 original size:17 final size:18
Alignment explanation
Indices: 866989--867028 Score: 55
Period size: 18 Copynumber: 2.3 Consensus size: 18
866979 TTAAACTTAC
* *
866989 TTTTTTAAAT-AATTTAA
1 TTTTTAAAATAAAATTAA
867006 TTTTTAAAATAAAATTAA
1 TTTTTAAAATAAAATTAA
867024 TTTTT
1 TTTTT
867029 TGAAAATTTA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
17 9 0.45
18 11 0.55
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.57
Consensus pattern (18 bp):
TTTTTAAAATAAAATTAA
Found at i:867111 original size:7 final size:7
Alignment explanation
Indices: 867050--867107 Score: 82
Period size: 7 Copynumber: 8.4 Consensus size: 7
867040 ATTTAATCAA
*
867050 AATATGT
1 AATATTT
867057 AATATTT
1 AATATTT
867064 AATATTT
1 AATATTT
867071 AATATTT
1 AATATTT
867078 AATATTT
1 AATATTT
867085 AATATTT
1 AATATTT
* *
867092 TATTTTT
1 AATATTT
867099 AAT-TTT
1 AATATTT
867105 AAT
1 AAT
867108 TTTTTGGATT
Statistics
Matches: 47, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
6 6 0.13
7 41 0.87
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.59
Consensus pattern (7 bp):
AATATTT
Found at i:867459 original size:15 final size:17
Alignment explanation
Indices: 867426--867480 Score: 51
Period size: 17 Copynumber: 3.3 Consensus size: 17
867416 AAAATTTGAA
** *
867426 AAAAAAATAAAAAAATT
1 AAAAAAATTGAAATATT
867443 AAAAAAA-TGAAAT-TT
1 AAAAAAATTGAAATATT
*
867458 AAACAAAATTTAAATATT
1 AAA-AAAATTGAAATATT
867476 AAAAA
1 AAAAA
867481 TTTTAAATTT
Statistics
Matches: 31, Mismatches: 4, Indels: 6
0.76 0.10 0.15
Matches are distributed among these distances:
15 5 0.16
16 7 0.23
17 14 0.45
18 5 0.16
ACGTcount: A:0.73, C:0.02, G:0.02, T:0.24
Consensus pattern (17 bp):
AAAAAAATTGAAATATT
Found at i:867571 original size:21 final size:21
Alignment explanation
Indices: 867547--867596 Score: 66
Period size: 21 Copynumber: 2.4 Consensus size: 21
867537 GTTTTTTGAG
*
867547 AAAATAAAATTA-GATTTTATA
1 AAAATAAAACTATGATTTTA-A
867568 AAAATAAAACTATGATTTTAA
1 AAAATAAAACTATGATTTTAA
*
867589 AAATTAAA
1 AAAATAAA
867597 TTTTATATTT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
21 19 0.73
22 7 0.27
ACGTcount: A:0.60, C:0.02, G:0.04, T:0.34
Consensus pattern (21 bp):
AAAATAAAACTATGATTTTAA
Found at i:870258 original size:27 final size:28
Alignment explanation
Indices: 870214--870267 Score: 65
Period size: 27 Copynumber: 2.0 Consensus size: 28
870204 TTTTTTATAT
*
870214 TTAAAATTATCAAAAA-TTAAATTTTAA
1 TTAAAATAATCAAAAATTTAAATTTTAA
* * *
870241 TTAAAATAATTAATAATTTATATTTTA
1 TTAAAATAATCAAAAATTTAAATTTTA
870268 TCAACAAATC
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
27 13 0.59
28 9 0.41
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.46
Consensus pattern (28 bp):
TTAAAATAATCAAAAATTTAAATTTTAA
Found at i:873109 original size:17 final size:17
Alignment explanation
Indices: 873089--873124 Score: 63
Period size: 17 Copynumber: 2.1 Consensus size: 17
873079 ATTTAATTCA
*
873089 TATATATAAATAAAAAT
1 TATATAAAAATAAAAAT
873106 TATATAAAAATAAAAAT
1 TATATAAAAATAAAAAT
873123 TA
1 TA
873125 AGTTTAATAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (17 bp):
TATATAAAAATAAAAAT
Found at i:873657 original size:10 final size:11
Alignment explanation
Indices: 873630--873670 Score: 59
Period size: 11 Copynumber: 3.8 Consensus size: 11
873620 AAAATTTTTC
873630 AAAA-AAAATA
1 AAAATAAAATA
873640 AGAAATAAAAT-
1 A-AAATAAAATA
873651 AAAATAAAATA
1 AAAATAAAATA
873662 AAAATAAAA
1 AAAATAAAA
873671 GGAATAATGA
Statistics
Matches: 28, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
10 10 0.36
11 13 0.46
12 5 0.18
ACGTcount: A:0.83, C:0.00, G:0.02, T:0.15
Consensus pattern (11 bp):
AAAATAAAATA
Found at i:873815 original size:59 final size:60
Alignment explanation
Indices: 873740--874046 Score: 297
Period size: 60 Copynumber: 5.2 Consensus size: 60
873730 GCTCTTGTAC
* * *
873740 AAGAAAAATTGATACTTTCAACTTTTTCTTAAAATATTTTTTTTTATAATTTTTGTTTTT
1 AAGAAAAATTGATACTTCCAACTTTTTCTCAAAATATTTTTTTTTATAATTTTTATTTTT
* * * * *
873800 GAG-AAAATTGGTACTTCCAACTTTTCCTCAAAATATTTTTTTTCTGA-AA-TTTTAATTTC
1 AAGAAAAATTGATACTTCCAACTTTTTCTCAAAATATTTTTTTT-T-ATAATTTTTATTTTT
* * * *
873859 AAGAAAAATTGATACTTTCAACTTTTTCTCAAAATACTTTTCTTGATAATTTTTATTTTT
1 AAGAAAAATTGATACTTCCAACTTTTTCTCAAAATATTTTTTTTTATAATTTTTATTTTT
* * ** * **
873919 AAGAAAAATTGATACTTCCAACTTTTT-TAAAAAAATATTTTTTAAAAAAAATTTA-TTTT
1 AAGAAAAATTGATACTTCCAACTTTTTCTCAAAATAT-TTTTTTTTATAATTTTTATTTTT
* * * *
873978 AAAAAAAATTGATACTTTCAAC-TTTTCTTCAAAA-ATATATTTTTTA-AAATTTTATTTTT
1 AAGAAAAATTGATACTTCCAACTTTTTC-TCAAAATAT-TTTTTTTTATAATTTTTATTTTT
874037 CAAGAAAAAT
1 -AAGAAAAAT
874047 ATAATTTTTT
Statistics
Matches: 202, Mismatches: 35, Indels: 20
0.79 0.14 0.08
Matches are distributed among these distances:
58 12 0.06
59 90 0.45
60 99 0.49
61 1 0.00
ACGTcount: A:0.38, C:0.10, G:0.05, T:0.48
Consensus pattern (60 bp):
AAGAAAAATTGATACTTCCAACTTTTTCTCAAAATATTTTTTTTTATAATTTTTATTTTT
Found at i:873876 original size:119 final size:119
Alignment explanation
Indices: 873739--874046 Score: 365
Period size: 119 Copynumber: 2.6 Consensus size: 119
873729 TGCTCTTGTA
* *
873739 CAAGAAAAATTGATACTTTCAACTTTTTCTTAAAATATTTTTTTTTATAATTTTTGTTTTTGAG-
1 CAAGAAAAATTGATACTTTCAACTTTTTCTTAAAATATTTTTTTTTATAATTTTTATTTTTAAGA
* * * **** *
873803 AAAATTGGTACTTCCAACTTTTCCTCAAAATAT-TTTTTTTCTGAAATTTTAATTT
66 AAAATTGATACTTCCAACTTTT-CTAAAAAAATATTTTTTAAAAAAAATTT-ATTT
* * * *
873858 CAAGAAAAATTGATACTTTCAACTTTTTCTCAAAATACTTTTCTTGATAATTTTTATTTTTAAGA
1 CAAGAAAAATTGATACTTTCAACTTTTTCTTAAAATATTTTTTTTTATAATTTTTATTTTTAAGA
*
873923 AAAATTGATACTTCCAACTTTTTTAAAAAAATATTTTTTAAAAAAAATTTATTT
66 AAAATTGATACTTCCAACTTTTCTAAAAAAATATTTTTTAAAAAAAATTTATTT
* * * *
873977 TAAAAAAAATTGATACTTTCAAC-TTTTCTTCAAAA-ATATATTTTTTA-AAATTTTATTTTTCA
1 CAAGAAAAATTGATACTTTCAACTTTTTCTT-AAAATAT-TTTTTTTTATAATTTTTATTTTT-A
874039 AGAAAAAT
63 AGAAAAAT
874047 ATAATTTTTT
Statistics
Matches: 161, Mismatches: 23, Indels: 10
0.83 0.12 0.05
Matches are distributed among these distances:
118 19 0.12
119 109 0.68
120 33 0.20
ACGTcount: A:0.38, C:0.10, G:0.05, T:0.47
Consensus pattern (119 bp):
CAAGAAAAATTGATACTTTCAACTTTTTCTTAAAATATTTTTTTTTATAATTTTTATTTTTAAGA
AAAATTGATACTTCCAACTTTTCTAAAAAAATATTTTTTAAAAAAAATTTATTT
Found at i:873966 original size:16 final size:15
Alignment explanation
Indices: 873941--873987 Score: 69
Period size: 16 Copynumber: 3.1 Consensus size: 15
873931 TACTTCCAAC
873941 TTTTTT-AAAAAAAT
1 TTTTTTAAAAAAAAT
873955 ATTTTTTAAAAAAAAT
1 -TTTTTTAAAAAAAAT
873971 TTATTTTAAAAAAAAT
1 TT-TTTTAAAAAAAAT
873987 T
1 T
873988 GATACTTTCA
Statistics
Matches: 30, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
15 8 0.27
16 22 0.73
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (15 bp):
TTTTTTAAAAAAAAT
Found at i:874078 original size:32 final size:33
Alignment explanation
Indices: 874008--874078 Score: 92
Period size: 33 Copynumber: 2.2 Consensus size: 33
873998 ACTTTTCTTC
*
874008 AAAAATATATTTTTTAAAATTTTATTTTTCAAG
1 AAAAATATATTTTTTAAAATTTGATTTTTCAAG
*
874041 AAAAATATAATTTTTT-CAATTTGA-TTTTCAAG
1 AAAAATAT-ATTTTTTAAAATTTGATTTTTCAAG
*
874073 TAAAAT
1 AAAAAT
874079 TGATACTTTC
Statistics
Matches: 34, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
32 13 0.38
33 14 0.41
34 7 0.21
ACGTcount: A:0.44, C:0.04, G:0.04, T:0.48
Consensus pattern (33 bp):
AAAAATATATTTTTTAAAATTTGATTTTTCAAG
Found at i:875529 original size:44 final size:44
Alignment explanation
Indices: 875414--875596 Score: 217
Period size: 44 Copynumber: 4.1 Consensus size: 44
875404 ACTTTTGAAG
*
875414 AATAAACAAAACTCCTCTAA-ACAGAGGCTCAACGACTTTTTG-AAA
1 AATAAACAAAGCTCCTCTAATA-AGAGGCTCAACGAC--TTTGAAAA
* * *
875459 AATAAACAAAGCTCCACCAATCAGAGGCTCAACGACTTTGAAAA
1 AATAAACAAAGCTCCTCTAATAAGAGGCTCAACGACTTTGAAAA
* *
875503 AATAAACAAAGCTTCTCTAATAAGAGGCTCAACGACTTTGGAAA
1 AATAAACAAAGCTCCTCTAATAAGAGGCTCAACGACTTTGAAAA
* * * * *
875547 AATAAACAAAGTTTCTATAATTAGAGGCTCAAGGACTTTGAAAA
1 AATAAACAAAGCTCCTCTAATAAGAGGCTCAACGACTTTGAAAA
*
875591 AGTAAA
1 AATAAA
875597 TTGCTCATTA
Statistics
Matches: 121, Mismatches: 15, Indels: 5
0.86 0.11 0.04
Matches are distributed among these distances:
43 4 0.03
44 86 0.71
45 31 0.26
ACGTcount: A:0.45, C:0.19, G:0.14, T:0.22
Consensus pattern (44 bp):
AATAAACAAAGCTCCTCTAATAAGAGGCTCAACGACTTTGAAAA
Found at i:875584 original size:88 final size:89
Alignment explanation
Indices: 875414--875596 Score: 246
Period size: 88 Copynumber: 2.1 Consensus size: 89
875404 ACTTTTGAAG
*
875414 AATAAACAAAACTCCTCTAAACAGAGGCTCAACGACTTTTTGAAAAATAAACAAAGCTCCACCAA
1 AATAAACAAAACTCCTCTAAACAGAGGCTCAACGACTTTTGGAAAAATAAACAAAGCTCCACCAA
875479 TCAGAGGCTCAACGACTTTGAAAA
66 TCAGAGGCTCAACGACTTTGAAAA
* * * * *
875503 AATAAACAAAGCTTCTCTAATA-AGAGGCTCAACGAC-TTTGGAAAAATAAACAAAGTTTCTA-T
1 AATAAACAAAACTCCTCTAA-ACAGAGGCTCAACGACTTTTGGAAAAATAAACAAAG-CTCCACC
* *
875565 AATTAGAGGCTCAAGGACTTTGAAAA
64 AATCAGAGGCTCAACGACTTTGAAAA
*
875591 AGTAAA
1 AATAAA
875597 TTGCTCATTA
Statistics
Matches: 83, Mismatches: 9, Indels: 5
0.86 0.09 0.05
Matches are distributed among these distances:
88 47 0.57
89 35 0.42
90 1 0.01
ACGTcount: A:0.45, C:0.19, G:0.14, T:0.22
Consensus pattern (89 bp):
AATAAACAAAACTCCTCTAAACAGAGGCTCAACGACTTTTGGAAAAATAAACAAAGCTCCACCAA
TCAGAGGCTCAACGACTTTGAAAA
Found at i:875954 original size:44 final size:44
Alignment explanation
Indices: 875863--875950 Score: 99
Period size: 44 Copynumber: 2.0 Consensus size: 44
875853 TTCTTATTCG
* * * *
875863 AGTTCAAATGTTCACATTCAAAAAATCTTAGAGTTTCACATTTA
1 AGTTCAAAGGTACACATTCAAAAAATCTTAGAGATTCACATTAA
* *
875907 AGTTCAAAGGTACTCATTC-AAAAAT-TTAGAGATTCGCATCTAA
1 AGTTCAAAGGTACACATTCAAAAAATCTTAGAGATTCACAT-TAA
875950 A
1 A
875951 AGTTGAGTTC
Statistics
Matches: 37, Mismatches: 6, Indels: 3
0.80 0.13 0.07
Matches are distributed among these distances:
42 12 0.32
43 9 0.24
44 16 0.43
ACGTcount: A:0.40, C:0.16, G:0.11, T:0.33
Consensus pattern (44 bp):
AGTTCAAAGGTACACATTCAAAAAATCTTAGAGATTCACATTAA
Found at i:876084 original size:25 final size:25
Alignment explanation
Indices: 876056--876451 Score: 211
Period size: 21 Copynumber: 16.6 Consensus size: 25
876046 TTTATATCTC
876056 AAAGATTCTCATTTGAAAATGTCTT
1 AAAGATTCTCATTTGAAAATGTCTT
* *
876081 AAAGGTTCTCATTCG-AAA---CTT
1 AAAGATTCTCATTTGAAAATGTCTT
876102 AAAGATTCTCATTTGAAAATGTCTT
1 AAAGATTCTCATTTGAAAATGTCTT
* *
876127 AAAGATTCTCACTT---AA-GACTT
1 AAAGATTCTCATTTGAAAATGTCTT
* *
876148 AAAGATTCTCATTTAAAAAATTATCTT
1 AAAGATTCTCATTT-GAAAA-TGTCTT
*
876175 AAAGATTCTCATTT-AAGAT-TC--
1 AAAGATTCTCATTTGAAAATGTCTT
* *
876196 AAAGATTCTTATTTGAAAATATCTT
1 AAAGATTCTCATTTGAAAATGTCTT
* * *
876221 AAAGATTTTCATTT---AA-GACTC
1 AAAGATTCTCATTTGAAAATGTCTT
* *
876242 AAAGATTCTCATTTGAAGATTTCTT
1 AAAGATTCTCATTTGAAAATGTCTT
* *
876267 AAAGATTCTCATTT---AA-GACTC
1 AAAGATTCTCATTTGAAAATGTCTT
* *
876288 AAAGATTCTTATTTGATATTTGAAATCATCTT
1 AAAGATTCTCATTTG--A----AAAT-GTCTT
* *
876320 AAAGATTCTTATTTG-AAATCATCTT
1 AAAGATTCTCATTTGAAAAT-GTCTT
* *
876345 AAAGATTCTCATTT---AA-GACTC
1 AAAGATTCTCATTTGAAAATGTCTT
* *
876366 AAAGATTTTCATTTAAAAAATGTCTT
1 AAAGATTCTCATTT-GAAAATGTCTT
* *
876392 AAAGATTCTCATTT---AA-GACTC
1 AAAGATTCTCATTTGAAAATGTCTT
* * **
876413 AAAGGTTCTCATTCGAAAACATCTT
1 AAAGATTCTCATTTGAAAATGTCTT
*
876438 AAAGGTTCTCATTT
1 AAAGATTCTCATTT
876452 AAGATTCTCA
Statistics
Matches: 287, Mismatches: 46, Indels: 76
0.70 0.11 0.19
Matches are distributed among these distances:
21 106 0.37
22 14 0.05
23 6 0.02
24 7 0.02
25 102 0.36
26 16 0.06
27 17 0.06
30 2 0.01
32 17 0.06
ACGTcount: A:0.37, C:0.14, G:0.10, T:0.39
Consensus pattern (25 bp):
AAAGATTCTCATTTGAAAATGTCTT
Found at i:876123 original size:46 final size:46
Alignment explanation
Indices: 876056--876303 Score: 329
Period size: 46 Copynumber: 5.3 Consensus size: 46
876046 TTTATATCTC
* * *
876056 AAAGATTCTCATTTGAAAATGTCTTAAAGGTTCTCATTCGAA-ACTT
1 AAAGATTCTCATTTGAAAATATCTTAAAGATTCTCATT-TAAGACTT
* *
876102 AAAGATTCTCATTTGAAAATGTCTTAAAGATTCTCACTTAAGACTT
1 AAAGATTCTCATTTGAAAATATCTTAAAGATTCTCATTTAAGACTT
*
876148 AAAGATTCTCATTTAAAAAATTATCTTAAAGATTCTCATTTAAGA-TT
1 AAAGATTCTCATTT-GAAAA-TATCTTAAAGATTCTCATTTAAGACTT
* * *
876195 CAAAGATTCTTATTTGAAAATATCTTAAAGATTTTCATTTAAGACTC
1 -AAAGATTCTCATTTGAAAATATCTTAAAGATTCTCATTTAAGACTT
* * *
876242 AAAGATTCTCATTTGAAGATTTCTTAAAGATTCTCATTTAAGACTC
1 AAAGATTCTCATTTGAAAATATCTTAAAGATTCTCATTTAAGACTT
*
876288 AAAGATTCTTATTTGA
1 AAAGATTCTCATTTGA
876304 TATTTGAAAT
Statistics
Matches: 182, Mismatches: 15, Indels: 10
0.88 0.07 0.05
Matches are distributed among these distances:
45 2 0.01
46 134 0.74
47 11 0.06
48 35 0.19
ACGTcount: A:0.38, C:0.13, G:0.10, T:0.39
Consensus pattern (46 bp):
AAAGATTCTCATTTGAAAATATCTTAAAGATTCTCATTTAAGACTT
Found at i:876185 original size:94 final size:92
Alignment explanation
Indices: 876053--876303 Score: 353
Period size: 94 Copynumber: 2.7 Consensus size: 92
876043 GATTTTATAT
* * * *
876053 CTCAAAGATTCTCATTTGAAAATGTCTTAAAGGTTCTCATTCGAA-ACTTAAAGATTCTCATTTG
1 CTCAAAGATTCTCATTTGAAAATTTCTTAAAGATTCTCATT-TAAGACTTAAAGATTCTTATTTG
*
876117 AAAATGTCTTAAAGATTCTCACTTAAGA
65 AAAATATCTTAAAGATTCTCACTTAAGA
* *
876145 CTTAAAGATTCTCATTTAAAAAATTATCTTAAAGATTCTCATTTAAGA-TTCAAAGATTCTTATT
1 CTCAAAGATTCTCATTT-GAAAATT-TCTTAAAGATTCTCATTTAAGACTT-AAAGATTCTTATT
* *
876209 TGAAAATATCTTAAAGATTTTCATTTAAGA
63 TGAAAATATCTTAAAGATTCTCACTTAAGA
* *
876239 CTCAAAGATTCTCATTTGAAGATTTCTTAAAGATTCTCATTTAAGACTCAAAGATTCTTATTTGA
1 CTCAAAGATTCTCATTTGAAAATTTCTTAAAGATTCTCATTTAAGACTTAAAGATTCTTATTTGA
876304 TATTTGAAAT
Statistics
Matches: 141, Mismatches: 13, Indels: 10
0.86 0.08 0.06
Matches are distributed among these distances:
92 54 0.38
93 15 0.11
94 72 0.51
ACGTcount: A:0.37, C:0.14, G:0.10, T:0.39
Consensus pattern (92 bp):
CTCAAAGATTCTCATTTGAAAATTTCTTAAAGATTCTCATTTAAGACTTAAAGATTCTTATTTGA
AAATATCTTAAAGATTCTCACTTAAGA
Found at i:876262 original size:14 final size:13
Alignment explanation
Indices: 876243--876284 Score: 52
Period size: 13 Copynumber: 3.3 Consensus size: 13
876233 TTAAGACTCA
876243 AAGATTCTCATTT
1 AAGATTCTCATTT
*
876256 GAAGATT-TC-TTA
1 -AAGATTCTCATTT
876268 AAGATTCTCATTT
1 AAGATTCTCATTT
876281 AAGA
1 AAGA
876285 CTCAAAGATT
Statistics
Matches: 24, Mismatches: 2, Indels: 5
0.77 0.06 0.16
Matches are distributed among these distances:
11 6 0.25
12 4 0.17
13 8 0.33
14 6 0.25
ACGTcount: A:0.36, C:0.12, G:0.12, T:0.40
Consensus pattern (13 bp):
AAGATTCTCATTT
Found at i:876346 original size:124 final size:125
Alignment explanation
Indices: 876196--876421 Score: 375
Period size: 124 Copynumber: 1.8 Consensus size: 125
876186 TTTAAGATTC
* * *
876196 AAAGATTCTTATTTGAAAATATCTTAAAGATTTTCATTTAAGACTCAAAGATTCTCATTT-GAAG
1 AAAGATTCTTATTTGAAAATATCTTAAAGATTCTCATTTAAGACTCAAAGATTCTCATTTAAAAA
*
876260 ATTTCTTAAAGATTCTCATTTAAGACTCAAAGATTCTTATTTGATATTTGAAATCATCTT
66 ATGTCTTAAAGATTCTCATTTAAGACTCAAAGATTCTTATTTGATATTTGAAATCATCTT
*
876320 AAAGATTCTTATTTG-AAATCATCTTAAAGATTCTCATTTAAGACTCAAAGATTTTCATTTAAAA
1 AAAGATTCTTATTTGAAAAT-ATCTTAAAGATTCTCATTTAAGACTCAAAGATTCTCATTTAAAA
*
876384 AATGTCTTAAAGATTCTCATTTAAGACTCAAAGGTTCT
65 AATGTCTTAAAGATTCTCATTTAAGACTCAAAGATTCT
876422 CATTCGAAAA
Statistics
Matches: 94, Mismatches: 6, Indels: 3
0.91 0.06 0.03
Matches are distributed among these distances:
123 4 0.04
124 53 0.56
125 37 0.39
ACGTcount: A:0.37, C:0.13, G:0.10, T:0.40
Consensus pattern (125 bp):
AAAGATTCTTATTTGAAAATATCTTAAAGATTCTCATTTAAGACTCAAAGATTCTCATTTAAAAA
ATGTCTTAAAGATTCTCATTTAAGACTCAAAGATTCTTATTTGATATTTGAAATCATCTT
Found at i:876424 original size:171 final size:171
Alignment explanation
Indices: 876145--876455 Score: 464
Period size: 171 Copynumber: 1.8 Consensus size: 171
876135 TCACTTAAGA
* *
876145 CTTAAAGATTCTCATTTAAAAAATTATCTTAAAGATTCTCATTTAAGATTCAAAGATTCTTATTT
1 CTTAAAGATTCTCATTT-AAAAATCATCTTAAAGATTCTCATTTAAGACTCAAAGATTCTTATTT
* * * * **
876210 GAAAATATCTTAAAGATTTTCATTTAAGACTCAAAGATTCTCATTTGAAGATTTCTTAAAGATTC
65 AAAAATATCTTAAAGATTCTCATTTAAGACTCAAAGATTCTCATTCGAAAACATCTTAAAGATTC
876275 TCATTTAAGACTCAAAGATTCTTATTTGATATTTGAAATCAT
130 TCATTTAAGACTCAAAGATTCTTATTTGATATTTGAAATCAT
* *
876317 CTTAAAGATTCTTATTT-GAAATCATCTTAAAGATTCTCATTTAAGACTCAAAGATT-TTCATTT
1 CTTAAAGATTCTCATTTAAAAATCATCTTAAAGATTCTCATTTAAGACTCAAAGATTCTT-ATTT
* * *
876380 AAAAAATGTCTTAAAGATTCTCATTTAAGACTCAAAGGTTCTCATTCGAAAACATCTTAAAGGTT
65 -AAAAATATCTTAAAGATTCTCATTTAAGACTCAAAGATTCTCATTCGAAAACATCTTAAAGATT
876445 CTCATTTAAGA
129 CTCATTTAAGA
876456 TTCTCATTTG
Statistics
Matches: 124, Mismatches: 13, Indels: 5
0.87 0.09 0.04
Matches are distributed among these distances:
169 2 0.02
170 40 0.32
171 66 0.53
172 16 0.13
ACGTcount: A:0.38, C:0.14, G:0.09, T:0.40
Consensus pattern (171 bp):
CTTAAAGATTCTCATTTAAAAATCATCTTAAAGATTCTCATTTAAGACTCAAAGATTCTTATTTA
AAAATATCTTAAAGATTCTCATTTAAGACTCAAAGATTCTCATTCGAAAACATCTTAAAGATTCT
CATTTAAGACTCAAAGATTCTTATTTGATATTTGAAATCAT
Found at i:876455 original size:46 final size:45
Alignment explanation
Indices: 876320--876455 Score: 173
Period size: 47 Copynumber: 2.9 Consensus size: 45
876310 AAATCATCTT
* *
876320 AAAGATTCTTATTTGAAATCATCTTAAAGATTCTCATTTAAGACTC
1 AAAGATTCTCA-TTGAAAACATCTTAAAGATTCTCATTTAAGACTC
* * *
876366 AAAGATTTTCATTTAAAAAATGTCTTAAAGATTCTCATTTAAGACTC
1 AAAGATTCTCATTGAAAACA--TCTTAAAGATTCTCATTTAAGACTC
* *
876413 AAAGGTTCTCATTCGAAAACATCTTAAAGGTTCTCATTTAAGA
1 AAAGATTCTCATT-GAAAACATCTTAAAGATTCTCATTTAAGA
876456 TTCTCATTTG
Statistics
Matches: 77, Mismatches: 10, Indels: 6
0.83 0.11 0.06
Matches are distributed among these distances:
45 6 0.08
46 30 0.39
47 36 0.47
48 5 0.06
ACGTcount: A:0.38, C:0.15, G:0.10, T:0.37
Consensus pattern (45 bp):
AAAGATTCTCATTGAAAACATCTTAAAGATTCTCATTTAAGACTC
Found at i:881805 original size:60 final size:60
Alignment explanation
Indices: 881653--881890 Score: 249
Period size: 60 Copynumber: 4.0 Consensus size: 60
881643 TCTTAAAGCA
* * *
881653 TTTGAAATTTTTTATTTTAAGGAAAATTGATACTTTCAACTTTTCCTTAAAATATTTTTT
1 TTTGAAATTTTTAATTTTAAGAAAAATTGATACTTTCAACTTTTCCTAAAAATATTTTTT
* * * *
881713 TAT--AATTTTTATTTTTGAA-AAAAATT-AGTACTTCCAACTTTTCCTCAAAATATTTTTT
1 TTTGAAATTTTTAATTTT-AAGAAAAATTGA-TACTTTCAACTTTTCCTAAAAATATTTTTT
* * *
881771 TTCTGAAA-TTTTAATTTCAAGAAAAATTGATACTTTCAACATTTCCTGAAAAA-A-CTTTT
1 TT-TGAAATTTTTAATTTTAAGAAAAATTGATACTTTCAACTTTTCCT-AAAAATATTTTTT
* * *
881830 CTTGATAATTTTTATTTTTAAG-AAAATTGATACTTTCAACTTTTTCTTAAAAATATTTTTT
1 TTTGA-AATTTTTAATTTTAAGAAAAATTGATACTTTCAAC-TTTTCCTAAAAATATTTTTT
881891 AAAAAATTTT
Statistics
Matches: 146, Mismatches: 19, Indels: 25
0.77 0.10 0.13
Matches are distributed among these distances:
57 1 0.01
58 49 0.34
59 35 0.24
60 50 0.34
61 11 0.08
ACGTcount: A:0.34, C:0.11, G:0.05, T:0.50
Consensus pattern (60 bp):
TTTGAAATTTTTAATTTTAAGAAAAATTGATACTTTCAACTTTTCCTAAAAATATTTTTT
Found at i:881865 original size:59 final size:57
Alignment explanation
Indices: 881621--881906 Score: 242
Period size: 59 Copynumber: 4.9 Consensus size: 57
881611 TTATACAAGA
* * **
881621 AAAATTGATACTTTCAACTTTTTCTTAAAGCA---TTTGA-AATTTTT-TATTTTAAGG
1 AAAATTGATACTTTCAACTTTTCCTCAAAAAATTTTTTGATAATTTTTAT-TTTTAA-G
* * * *
881675 AAAATTGATACTTTCAACTTTTCCTTAAAATATTTTTTTATAATTTTTATTTTTGAAA
1 AAAATTGATACTTTCAACTTTTCCTCAAAAAATTTTTTGATAATTTTTATTTTT-AAG
* * ** * * *
881733 AAAATT-AGTACTTCCAACTTTTCCTCAAAATATTTTTTTTCTGAAATTTTAATTTCAAG
1 AAAATTGA-TACTTTCAACTTTTCCTCAAAA-AATTTTTTGAT-AATTTTTATTTTTAAG
* *
881792 AAAAATTGATACTTTCAACATTTCCTGAAAAAACTTTTCTTGATAATTTTTATTTTTAAG
1 -AAAATTGATACTTTCAACTTTTCCTCAAAAAA-TTTT-TTGATAATTTTTATTTTTAAG
* * * *
881852 AAAATTGATACTTTCAACTTTTTCTTAAAAATATTTTTTAAAAAATTTTTATTTT
1 AAAATTGATACTTTCAACTTTTCCTCAAAAA-ATTTTTT-GATAATTTTTATTTT
881907 AGAAATTTTA
Statistics
Matches: 189, Mismatches: 28, Indels: 25
0.78 0.12 0.10
Matches are distributed among these distances:
54 29 0.15
57 5 0.03
58 39 0.21
59 59 0.31
60 53 0.28
61 4 0.02
ACGTcount: A:0.35, C:0.10, G:0.05, T:0.49
Consensus pattern (57 bp):
AAAATTGATACTTTCAACTTTTCCTCAAAAAATTTTTTGATAATTTTTATTTTTAAG
Found at i:881896 original size:72 final size:74
Alignment explanation
Indices: 881819--881969 Score: 209
Period size: 73 Copynumber: 2.1 Consensus size: 74
881809 ACATTTCCTG
* * *
881819 AAAAAACTTTT-CTTGATAATTTTTATTTTTAAG-AAAATTGATACTTTCAACTTTTTCTTAAAA
1 AAAAAACTTTTACTTGAGAAATTTTA-TTTTAAGAAAAATTGATACTTTCAACTTTTTCTCAAAA
881882 ATAT-TTTTT
65 ATATATTTTT
* * * *
881891 AAAAAATTTTTATTTTAGAAATTTTATTTTAAGAAAAATTGATACTTTCAATTTTTTCTCAAAAA
1 AAAAAACTTTTACTTGAGAAATTTTATTTTAAGAAAAATTGATACTTTCAACTTTTTCTCAAAAA
881956 TATATTTTT
66 TATATTTTT
881965 AAAAA
1 AAAAA
881970 TTTTATTTTT
Statistics
Matches: 69, Mismatches: 7, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
72 17 0.25
73 42 0.61
74 10 0.14
ACGTcount: A:0.40, C:0.07, G:0.04, T:0.49
Consensus pattern (74 bp):
AAAAAACTTTTACTTGAGAAATTTTATTTTAAGAAAAATTGATACTTTCAACTTTTTCTCAAAAA
TATATTTTT
Found at i:881915 original size:14 final size:15
Alignment explanation
Indices: 881887--881926 Score: 55
Period size: 14 Copynumber: 2.7 Consensus size: 15
881877 TAAAAATATT
*
881887 TTTTAAAAAATTTTTA
1 TTTTAAGAAA-TTTTA
881903 TTTT-AGAAATTTTA
1 TTTTAAGAAATTTTA
881917 TTTTAAGAAA
1 TTTTAAGAAA
881927 AATTGATACT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
14 9 0.41
15 9 0.41
16 4 0.18
ACGTcount: A:0.42, C:0.00, G:0.05, T:0.53
Consensus pattern (15 bp):
TTTTAAGAAATTTTA
Found at i:881978 original size:72 final size:73
Alignment explanation
Indices: 881839--881978 Score: 223
Period size: 73 Copynumber: 1.9 Consensus size: 73
881829 TCTTGATAAT
*
881839 TTTTATTTTTAAGAAAATTGATACTTTCAACTTTTTCTTAAAAATATTTTTTAAAAAATTTTTAT
1 TTTTATTTTTAAGAAAATTGATACTTTCAACTTTTTCTCAAAAATATTTTTTAAAAAATTTTTAT
881904 TTTAGAAA
66 TTTAGAAA
*
881912 TTTTA-TTTTAAGAAAAATTGATACTTTCAATTTTTTCTCAAAAATATATTTTT-AAAAA-TTTT
1 TTTTATTTTTAAG-AAAATTGATACTTTCAACTTTTTCTCAAAAATAT-TTTTTAAAAAATTTTT
881974 ATTTT
64 ATTTT
881979 TCAAGAAAAT
Statistics
Matches: 63, Mismatches: 2, Indels: 5
0.90 0.03 0.07
Matches are distributed among these distances:
72 16 0.25
73 42 0.67
74 5 0.08
ACGTcount: A:0.38, C:0.06, G:0.04, T:0.53
Consensus pattern (73 bp):
TTTTATTTTTAAGAAAATTGATACTTTCAACTTTTTCTCAAAAATATTTTTTAAAAAATTTTTAT
TTTAGAAA
Found at i:883110 original size:22 final size:24
Alignment explanation
Indices: 883058--883110 Score: 58
Period size: 22 Copynumber: 2.2 Consensus size: 24
883048 ATAAGAAACC
883058 AAAAAATAATAAAATAAAATGAAA
1 AAAAAATAATAAAATAAAATGAAA
*
883082 ATGAAAATAA-AAAA-AAAA-GAAA
1 A-AAAAATAATAAAATAAAATGAAA
883104 GAAAAAA
1 -AAAAAA
883111 AATGGCCAAT
Statistics
Matches: 25, Mismatches: 2, Indels: 6
0.76 0.06 0.18
Matches are distributed among these distances:
22 8 0.32
23 5 0.20
24 5 0.20
25 7 0.28
ACGTcount: A:0.81, C:0.00, G:0.08, T:0.11
Consensus pattern (24 bp):
AAAAAATAATAAAATAAAATGAAA
Found at i:884968 original size:4 final size:4
Alignment explanation
Indices: 884959--884985 Score: 54
Period size: 4 Copynumber: 6.8 Consensus size: 4
884949 TCTAGATCTA
884959 AAAG AAAG AAAG AAAG AAAG AAAG AAA
1 AAAG AAAG AAAG AAAG AAAG AAAG AAA
884986 ATGTTCCAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 23 1.00
ACGTcount: A:0.78, C:0.00, G:0.22, T:0.00
Consensus pattern (4 bp):
AAAG
Found at i:890425 original size:20 final size:21
Alignment explanation
Indices: 890376--890430 Score: 67
Period size: 20 Copynumber: 2.7 Consensus size: 21
890366 AAACTAATCG
**
890376 ATCCATTTTGAAAATCGATTG
1 ATCCATTTTGAAAATCGATCA
* *
890397 ATTCATTTTTAAAAT-GATCA
1 ATCCATTTTGAAAATCGATCA
890417 ATCCATTTTGAAAA
1 ATCCATTTTGAAAA
890431 CTAATTGATC
Statistics
Matches: 28, Mismatches: 6, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
20 15 0.54
21 13 0.46
ACGTcount: A:0.38, C:0.13, G:0.09, T:0.40
Consensus pattern (21 bp):
ATCCATTTTGAAAATCGATCA
Done.