Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold48
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: 4619657
ACGTcount: A:0.34, C:0.16, G:0.16, T:0.34
Warning! 18863 characters in sequence are not A, C, G, or T
File 6 of 27
Found at i:726648 original size:33 final size:33
Alignment explanation
Indices: 726605--726668 Score: 92
Period size: 33 Copynumber: 1.9 Consensus size: 33
726595 TCATAATAGT
* *
726605 TATTTTATAATAGATTAATTTAATTTAATGTAA
1 TATTTCATAATAAATTAATTTAATTTAATGTAA
* *
726638 TATTTCATAATAAATTGATTTAATTTGATGT
1 TATTTCATAATAAATTAATTTAATTTAATGT
726669 GTTACAGTAA
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
33 27 1.00
ACGTcount: A:0.39, C:0.02, G:0.08, T:0.52
Consensus pattern (33 bp):
TATTTCATAATAAATTAATTTAATTTAATGTAA
Found at i:726706 original size:16 final size:17
Alignment explanation
Indices: 726685--726726 Score: 52
Period size: 16 Copynumber: 2.6 Consensus size: 17
726675 GTAATAAAAT
726685 TATTTAATTTAAT-AAA
1 TATTTAATTTAATGAAA
*
726701 TATTT-ATTTGATGAAA
1 TATTTAATTTAATGAAA
*
726717 TAATTAATTT
1 TATTTAATTT
726727 TGATTTAATT
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
15 6 0.27
16 12 0.55
17 4 0.18
ACGTcount: A:0.43, C:0.00, G:0.05, T:0.52
Consensus pattern (17 bp):
TATTTAATTTAATGAAA
Found at i:726892 original size:16 final size:17
Alignment explanation
Indices: 726871--726905 Score: 56
Period size: 16 Copynumber: 2.2 Consensus size: 17
726861 TTATAATAAA
726871 TATTTTTA-TTTATTTT
1 TATTTTTATTTTATTTT
726887 TA-TTTTATTTTATTTT
1 TATTTTTATTTTATTTT
726903 TAT
1 TAT
726906 AAAATAATTA
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
15 5 0.29
16 12 0.71
ACGTcount: A:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (17 bp):
TATTTTTATTTTATTTT
Found at i:726902 original size:10 final size:11
Alignment explanation
Indices: 726871--726902 Score: 50
Period size: 10 Copynumber: 3.1 Consensus size: 11
726861 TTATAATAAA
726871 TATTTTTA-TT
1 TATTTTTATTT
726881 TATTTTTATTT
1 TATTTTTATTT
726892 TA-TTTTATTT
1 TATTTTTATTT
726902 T
1 T
726903 TATAAAATAA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
10 17 0.81
11 4 0.19
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (11 bp):
TATTTTTATTT
Found at i:731331 original size:2 final size:2
Alignment explanation
Indices: 731324--731367 Score: 88
Period size: 2 Copynumber: 22.0 Consensus size: 2
731314 GCCATGGCTG
731324 AT AT 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 AT AT
731366 AT
1 AT
731368 TTAATATTTG
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 42 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:732978 original size:18 final size:17
Alignment explanation
Indices: 732915--732980 Score: 62
Period size: 18 Copynumber: 3.7 Consensus size: 17
732905 ACTCGTTTAA
732915 AATATATTATTATTATTAT
1 AATATATTATTA-TA-TAT
* *
732934 AATATATGTTTTCTATAT
1 AATATAT-TATTATATAT
*
732952 AAAAT-TTATTATATAT
1 AATATATTATTATATAT
732968 AATTATATTATTA
1 AA-TATATTATTA
732981 CTGTAATGAA
Statistics
Matches: 38, Mismatches: 6, Indels: 7
0.75 0.12 0.14
Matches are distributed among these distances:
16 10 0.26
17 3 0.08
18 13 0.34
19 9 0.24
20 3 0.08
ACGTcount: A:0.42, C:0.02, G:0.02, T:0.55
Consensus pattern (17 bp):
AATATATTATTATATAT
Found at i:733379 original size:2 final size:2
Alignment explanation
Indices: 733372--733409 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
733362 GAAAAATAAG
733372 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
733410 TGGTTTGATA
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:733891 original size:3 final size:3
Alignment explanation
Indices: 733883--733916 Score: 68
Period size: 3 Copynumber: 11.3 Consensus size: 3
733873 ATCAAAGATT
733883 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
733917 GCACACATCT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:735047 original size:2 final size:2
Alignment explanation
Indices: 734994--735033 Score: 80
Period size: 2 Copynumber: 20.0 Consensus size: 2
734984 TGATATGGGG
734994 AT 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 AT
735034 GAGTTCGTAT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:737159 original size:37 final size:37
Alignment explanation
Indices: 737118--737189 Score: 108
Period size: 37 Copynumber: 1.9 Consensus size: 37
737108 TTAAGTTATT
*
737118 TTAAATATAAATATTTTAGATTAAATATATTAATTAA
1 TTAAATATAAATATTTTAAATTAAATATATTAATTAA
* * *
737155 TTAAATTTGAATATTTTAAATTTAATATATTAATT
1 TTAAATATAAATATTTTAAATTAAATATATTAATT
737190 TTTATAGTCA
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
37 31 1.00
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (37 bp):
TTAAATATAAATATTTTAAATTAAATATATTAATTAA
Found at i:737187 original size:14 final size:15
Alignment explanation
Indices: 737154--737187 Score: 52
Period size: 14 Copynumber: 2.3 Consensus size: 15
737144 ATATTAATTA
737154 ATTAAATTTGAATAT
1 ATTAAATTTGAATAT
*
737169 TTTAAATTT-AATAT
1 ATTAAATTTGAATAT
737183 ATTAA
1 ATTAA
737188 TTTTTATAGT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
14 9 0.53
15 8 0.47
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (15 bp):
ATTAAATTTGAATAT
Found at i:740466 original size:2 final size:2
Alignment explanation
Indices: 740459--740501 Score: 86
Period size: 2 Copynumber: 21.5 Consensus size: 2
740449 ACTAGCTAAC
740459 AT AT 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 AT AT
740501 A
1 A
740502 ATTTTATAAC
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 41 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:741565 original size:16 final size:17
Alignment explanation
Indices: 741545--741582 Score: 60
Period size: 16 Copynumber: 2.3 Consensus size: 17
741535 AAATTATCTT
741545 TAATTATGATTAAATTA
1 TAATTATGATTAAATTA
*
741562 -AATTATTATTAAATTA
1 TAATTATGATTAAATTA
741578 TAATT
1 TAATT
741583 TAATTCAGGT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
16 15 0.79
17 4 0.21
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (17 bp):
TAATTATGATTAAATTA
Found at i:741619 original size:11 final size:11
Alignment explanation
Indices: 741603--741629 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
741593 ATATGTTAAA
741603 TAATTTTAATT
1 TAATTTTAATT
741614 TAATTTTAATT
1 TAATTTTAATT
741625 TAATT
1 TAATT
741630 ATATATTACC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (11 bp):
TAATTTTAATT
Found at i:743018 original size:2 final size:2
Alignment explanation
Indices: 743013--743053 Score: 82
Period size: 2 Copynumber: 20.5 Consensus size: 2
743003 TCTCTCTCTC
743013 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
743054 TAATGTTATT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:753125 original size:20 final size:20
Alignment explanation
Indices: 753083--753137 Score: 58
Period size: 20 Copynumber: 2.6 Consensus size: 20
753073 TATGAAAGTC
*
753083 TTTAAAAATTAAATTAATAA-
1 TTTAAAAATT-ATTTAATAAT
*
753103 TTTAAAAATTATTTAAATCAT
1 TTTAAAAATTATTT-AATAAT
753124 TTTAAAAAATTATT
1 TTT-AAAAATTATT
753138 AGGGTTTTTT
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
19 3 0.10
20 14 0.47
21 3 0.10
22 10 0.33
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.45
Consensus pattern (20 bp):
TTTAAAAATTATTTAATAAT
Found at i:756841 original size:21 final size:20
Alignment explanation
Indices: 756817--756867 Score: 59
Period size: 21 Copynumber: 2.5 Consensus size: 20
756807 ATATTTTATT
756817 TAAATTTAATTATAAAATATA
1 TAAATTTAATTATAAAATA-A
*
756838 TAAATATTAA-TCTAAAATAA
1 TAAAT-TTAATTATAAAATAA
*
756858 TAAAATTAAT
1 TAAATTTAAT
756868 AATATGATAA
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
19 4 0.15
20 5 0.19
21 13 0.50
22 4 0.15
ACGTcount: A:0.59, C:0.02, G:0.00, T:0.39
Consensus pattern (20 bp):
TAAATTTAATTATAAAATAA
Found at i:756867 original size:19 final size:21
Alignment explanation
Indices: 756829--756867 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
756819 AATTTAATTA
756829 TAAAATATATAAATATTAATC
1 TAAAATATATAAATATTAATC
756850 TAAAATA-ATAAA-ATTAAT
1 TAAAATATATAAATATTAAT
756868 AATATGATAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 6 0.33
20 5 0.28
21 7 0.39
ACGTcount: A:0.62, C:0.03, G:0.00, T:0.36
Consensus pattern (21 bp):
TAAAATATATAAATATTAATC
Found at i:757084 original size:20 final size:20
Alignment explanation
Indices: 757054--757100 Score: 69
Period size: 20 Copynumber: 2.3 Consensus size: 20
757044 AATTTATGAA
757054 TAAATTTAATTTA-ATATATT
1 TAAA-TTAATTTATATATATT
757074 TATAATTAATTTATATATATT
1 TA-AATTAATTTATATATATT
757095 TAAATT
1 TAAATT
757101 TTCACATTCT
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
20 14 0.56
21 11 0.44
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (20 bp):
TAAATTAATTTATATATATT
Found at i:757171 original size:25 final size:26
Alignment explanation
Indices: 757114--757171 Score: 82
Period size: 26 Copynumber: 2.3 Consensus size: 26
757104 ACATTCTTAT
* *
757114 AATTTAATATATATATTTGTAATAAA
1 AATTAAATATAAATATTTGTAATAAA
*
757140 AATTAAATATAAATATTTTTAA-AAA
1 AATTAAATATAAATATTTGTAATAAA
757165 AATTAAA
1 AATTAAA
757172 AGAAAAGTTA
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
25 10 0.34
26 19 0.66
ACGTcount: A:0.57, C:0.00, G:0.02, T:0.41
Consensus pattern (26 bp):
AATTAAATATAAATATTTGTAATAAA
Found at i:757590 original size:10 final size:10
Alignment explanation
Indices: 757577--757654 Score: 56
Period size: 10 Copynumber: 8.0 Consensus size: 10
757567 ATTTTTTAAA
757577 ATTTTTATAT
1 ATTTTTATAT
*
757587 ATTTATAT-T
1 ATTTTTATAT
* *
757596 ATATTAATAT
1 ATTTTTATAT
757606 A-TTTTAT-T
1 ATTTTTATAT
*
757614 ATTTTATATAA
1 ATTTT-TATAT
757625 ATTATTT-TAT
1 ATT-TTTATAT
* *
757635 ATTTATATAA
1 ATTTTTATAT
757645 ATTTTTATAT
1 ATTTTTATAT
757655 TAATAATTAA
Statistics
Matches: 50, Mismatches: 12, Indels: 12
0.68 0.16 0.16
Matches are distributed among these distances:
8 2 0.04
9 15 0.30
10 27 0.54
11 4 0.08
12 2 0.04
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (10 bp):
ATTTTTATAT
Found at i:757615 original size:18 final size:17
Alignment explanation
Indices: 757583--757659 Score: 64
Period size: 18 Copynumber: 4.2 Consensus size: 17
757573 TAAAATTTTT
757583 ATATATTTATATTATATTA
1 ATATATTT-T-TTATATTA
*
757602 ATATATTTTATTATTTTA
1 ATATATTTT-TTATATTA
* *
757620 TATAAATTATTTTATATTT
1 -ATATATT-TTTTATATTA
*
757639 ATATAAATTTTTATATTA
1 ATAT-ATTTTTTATATTA
757657 ATA
1 ATA
757660 ATTAATAATA
Statistics
Matches: 48, Mismatches: 7, Indels: 7
0.77 0.11 0.11
Matches are distributed among these distances:
18 24 0.50
19 22 0.46
20 2 0.04
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (17 bp):
ATATATTTTTTATATTA
Found at i:757641 original size:20 final size:20
Alignment explanation
Indices: 757588--757655 Score: 79
Period size: 20 Copynumber: 3.4 Consensus size: 20
757578 TTTTTATATA
*
757588 TTTATA-TTATATTAATATAT
1 TTTATATTTATATAAAT-TAT
757608 TTTATTATTTTATATAAATTAT
1 TTTA-TA-TTTATATAAATTAT
757630 TTTATATTTATATAAA-T-T
1 TTTATATTTATATAAATTAT
757648 TTTATATT
1 TTTATATT
757656 AATAATTAAT
Statistics
Matches: 44, Mismatches: 1, Indels: 8
0.83 0.02 0.15
Matches are distributed among these distances:
18 9 0.20
19 1 0.02
20 14 0.32
21 4 0.09
22 7 0.16
23 9 0.20
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (20 bp):
TTTATATTTATATAAATTAT
Found at i:759002 original size:20 final size:22
Alignment explanation
Indices: 758977--759021 Score: 67
Period size: 20 Copynumber: 2.1 Consensus size: 22
758967 AATTTGGATT
*
758977 AAATTTTAATAAAAT-TA-TTA
1 AAATTTAAATAAAATATATTTA
758997 AAATTTAAATAAAATATATTTA
1 AAATTTAAATAAAATATATTTA
759019 AAA
1 AAA
759022 ATATAAAATT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 14 0.64
21 2 0.09
22 6 0.27
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (22 bp):
AAATTTAAATAAAATATATTTA
Found at i:759867 original size:21 final size:21
Alignment explanation
Indices: 759842--759881 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
759832 AAAAAGGCAT
*
759842 GACTTGCAAGGTAAATAAGAC
1 GACTTCCAAGGTAAATAAGAC
759863 GACTTCCAAGGTAAATAAG
1 GACTTCCAAGGTAAATAAG
759882 CTTGTTTGTG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.42, C:0.15, G:0.23, T:0.20
Consensus pattern (21 bp):
GACTTCCAAGGTAAATAAGAC
Found at i:762958 original size:25 final size:24
Alignment explanation
Indices: 762930--762984 Score: 67
Period size: 25 Copynumber: 2.2 Consensus size: 24
762920 CAAATTTATA
762930 TTTAAATATAAATATA-GAATATATT
1 TTTAAATATAAATATATGAA-A-ATT
* *
762955 TTTATATATATATATATGAAAATT
1 TTTAAATATAAATATATGAAAATT
762979 TTTAAA
1 TTTAAA
762985 AAATATTGAT
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
24 8 0.31
25 15 0.58
26 3 0.12
ACGTcount: A:0.49, C:0.00, G:0.04, T:0.47
Consensus pattern (24 bp):
TTTAAATATAAATATATGAAAATT
Found at i:764309 original size:24 final size:25
Alignment explanation
Indices: 764264--764317 Score: 76
Period size: 24 Copynumber: 2.2 Consensus size: 25
764254 TATTTATTTA
764264 TTTTTTAAATTATTTAAATTTAAAT
1 TTTTTTAAATTATTTAAATTTAAAT
*
764289 TATTTTTAAA-T-TTTAAGTTTAAAT
1 T-TTTTTAAATTATTTAAATTTAAAT
764313 TTTTT
1 TTTTT
764318 AATCAATCAA
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
23 4 0.15
24 13 0.48
25 2 0.07
26 8 0.30
ACGTcount: A:0.35, C:0.00, G:0.02, T:0.63
Consensus pattern (25 bp):
TTTTTTAAATTATTTAAATTTAAAT
Found at i:764410 original size:7 final size:7
Alignment explanation
Indices: 764398--764423 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
764388 TAAAAACATT
764398 AATTTAA
1 AATTTAA
764405 AATTTAA
1 AATTTAA
764412 AATTTAA
1 AATTTAA
764419 AATTT
1 AATTT
764424 TTTATTATAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (7 bp):
AATTTAA
Found at i:764698 original size:29 final size:29
Alignment explanation
Indices: 764650--764708 Score: 84
Period size: 29 Copynumber: 2.0 Consensus size: 29
764640 TTTTTTTATA
* *
764650 TTTTAAACTCATATTTTAAAA-TTTAAAT
1 TTTTAAACTAATATTATAAAATTTTAAAT
764678 TTTTAAACCTAATATTATAAAATTTTAAAT
1 TTTTAAA-CTAATATTATAAAATTTTAAAT
764708 T
1 T
764709 ATTATTTAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
28 7 0.26
29 12 0.44
30 8 0.30
ACGTcount: A:0.44, C:0.07, G:0.00, T:0.49
Consensus pattern (29 bp):
TTTTAAACTAATATTATAAAATTTTAAAT
Found at i:767849 original size:18 final size:18
Alignment explanation
Indices: 767828--767885 Score: 64
Period size: 18 Copynumber: 3.2 Consensus size: 18
767818 ACGAGTTCCG
767828 GTTCTTATAAGGATTCAA
1 GTTCTTATAAGGATTCAA
*
767846 GTTCTTACAAGGATTCCAA
1 GTTCTTATAAGGATT-CAA
* * *
767865 -CTCTTTTAAGGGTTCAA
1 GTTCTTATAAGGATTCAA
767882 GTTC
1 GTTC
767886 AAGCTCTTTT
Statistics
Matches: 32, Mismatches: 6, Indels: 4
0.76 0.14 0.10
Matches are distributed among these distances:
17 3 0.09
18 26 0.81
19 3 0.09
ACGTcount: A:0.28, C:0.17, G:0.17, T:0.38
Consensus pattern (18 bp):
GTTCTTATAAGGATTCAA
Found at i:768052 original size:18 final size:18
Alignment explanation
Indices: 768016--768052 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
768006 TTCAGCTTCA
*
768016 TTTAAGGGTTTCGGTTCT
1 TTTAAGGGTTTCGGCTCT
*
768034 TTTAAGGGTTTTGGCTCT
1 TTTAAGGGTTTCGGCTCT
768052 T
1 T
768053 CCACAGATTC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.11, C:0.11, G:0.27, T:0.51
Consensus pattern (18 bp):
TTTAAGGGTTTCGGCTCT
Found at i:768236 original size:99 final size:99
Alignment explanation
Indices: 768060--769463 Score: 359
Period size: 99 Copynumber: 14.5 Consensus size: 99
768050 CTTCCACAGA
* ** *
768060 TTCTAACAATTCTAAGGATTCTGGCTCTTCTGCGACTTCCG-ACTCTTCAT-TAGGTTCTGGGGC
1 TTCTAACAATTCTAAGGACTCTGGCTCTTCTAAGACTT-CGAACTCTTCATCT-GGTTCTGGCGC
* * *
768123 TTCTCGCTCCTCCACTA-GTTCTGGTTCTGTATCGAG
64 TTCTAGCTCTTCCAC-AGGTTCTGGTTCTTTATCGAG
* * *
768159 TTCTAGCAATTCTAAGGACTCTGGCTCCTCTAAGACTTCGAACTCTTCATCTGGTTCTGGTGCTT
1 TTCTAACAATTCTAAGGACTCTGGCTCTTCTAAGACTTCGAACTCTTCATCTGGTTCTGGCGCTT
* *
768224 CTAACTCTTCCACAGGCTCTGGTTCTTTATC-AG
66 CTAGCTCTTCCACAGGTTCTGGTTCTTTATCGAG
* * * *** * ** *
768257 ATTCTATCAGTTCTAAGGATTCTAATTCTTCTAAGAGTTC-AAGCTCTTCATCAAGCTCTGGCGC
1 -TTCTAACAATTCTAAGGACTCTGGCTCTTCTAAGACTTCGAA-CTCTTCATCTGGTTCTGGCGC
* * * * *
768321 TTCTAGCACTTCCACAGGTCCAGATTCTTTATCGGG
64 TTCTAGCTCTTCCACAGGTTCTGGTTCTTTATCGAG
* ** ** * * ** ** * *
768357 TTCTAAAAATTCTAAGGACTCCAGCGATTCGAAGACTTCGAATTCTAAATCAAGTTCAGGTGCTT
1 TTCTAACAATTCTAAGGACTCTGGCTCTTCTAAGACTTCGAACTCTTCATCTGGTTCTGGCGCTT
* *** **
768422 C-AGGCTCTTCCACTGCCACAAAG-TC---A--G-G
66 CTA-GCTCTTCCACAGGTTC-TGGTTCTTTATCGAG
* * ** * ** ** *
768450 TTCTAGCAATTTTAAGGGTTCCGAATCTTCTAAGACTTCAGAA-TCTTCATCAAGTTCTGGTGAC
1 TTCTAACAATTCTAAGGACTCTGGCTCTTCTAAGACTTC-GAACTCTTCATCTGGTTCTGGCG-C
* * * * * * * *
768514 -TCTGGCTCTTCTACGGGATCTAGCTCCTTATCAAG
64 TTCTAGCTCTTCCACAGGTTCTGGTTCTTTATCGAG
* * ** * * *** *
768549 TTCTAGCAATTCCAAGGGTTCTGGATCTTCTAAGACTTC-AGGCTCTTCATCAAATTCTGGTGCT
1 TTCTAACAATTCTAAGGACTCTGGCTCTTCTAAGACTTCGA-ACTCTTCATCTGGTTCTGGCGCT
* *
768613 TC-AGGCTCTT-C-C--G--CCGGATC---A--G-G
65 TCTA-GCTCTTCCACAGGTTCTGGTTCTTTATCGAG
* * * * ** *
768636 TTCTAGCAACTCTAAGGATTCTGGATC-TCTTAAGACTTCAGAA-TCTTCATCAAGTTCTGGTGC
1 TTCTAACAATTCTAAGGACTCTGGCTCTTC-TAAGACTTC-GAACTCTTCATCTGGTTCTGGCGC
* *** * *
768699 TTCTAGCTCTTCTACAAAATCTAGTTCTCTATC-AGG
64 TTCTAGCTCTTCCACAGGTTCTGGTTCTTTATCGA-G
* ** * * * *** **
768735 TTCTAACAATTCAAAGGGTTCTGGATCTTTTAAGACTTC-AGATTCTTCATCAAATTCTGGTTCT
1 TTCTAACAATTCTAAGGACTCTGGCTCTTCTAAGACTTCGA-ACTCTTCATCTGGTTCTGGCGCT
* *
768799 TCTGGCTCTTCCGCAGG----GAGTTCTTTATC-AGG
65 TCTAGCTCTTCCACAGGTTCTG-GTTCTTTATCGA-G
* * * * ** *
768831 TTCTAGCAATTCTAAGGATTCTGGATCTTCTAAGGCTTCAGAATCTTCTTCATCAAGTTCTGGGG
1 TTCTAACAATTCTAAGGACTCTGGCTCTTCTAAGACTTC-GAA-C-TCTTCATCTGGTTCTGGCG
* * *
768896 CTTCTAACTCTTCCGCAGGATT-TAGTTCTTTATC-AGG
63 CTTCTAGCTCTTCCACAGG-TTCTGGTTCTTTATCGA-G
* * ** * * * * *** *
768933 TTCTAGCAATTATAAGGGTTCTGGATCTTTTAACACTTCAAACTCTTCATCAAATTCTGGTGCTT
1 TTCTAACAATTCTAAGGACTCTGGCTCTTCTAAGACTTCGAACTCTTCATCTGGTTCTGGCGCTT
** *
768998 CGGGCTCTTCCACAGGGTC-GAGTTCTTTATC-AGG
66 CTAGCTCTTCCACAGGTTCTG-GTTCTTTATCGA-G
* ** * * * * ** * *
769032 TTCTAGCAATTCTAAGGGTTCTGGATCATCTAAGACCTCAGAACT-TTCGTCAAGTTCTGGTGTT
1 TTCTAACAATTCTAAGGACTCTGGCTCTTCTAAGACTTC-GAACTCTTCATCTGGTTCTGGCGCT
* * * *
769096 TCTAACTCTTCTACAGGATCTAGTTCTTTATC-AGG
65 TCTAGCTCTTCCACAGGTTCTGGTTCTTTATCGA-G
* * * * ** *** * *
769131 TTCTAGCAATTCTAAAGG--T-T--CT-TTATCAG-GTTCTG-GTTCTTCATCAAATTCTAGTGC
1 TTCTAACAATTCT-AAGGACTCTGGCTCTTCTAAGACTTC-GAACTCTTCATCTGGTTCTGGCGC
* *
769188 TTCTGGCTCTTCCACAGGGTC-GAGTTCTTTATC-AG
64 TTCTAGCTCTTCCACAGGTTCTG-GTTCTTTATCGAG
** * * * ** * *
769223 ATTCT-AC-A----AAGGGTTCT-GCATCTTCTAAGACTTCAAAATCTTCGTCAAGTTCTGGTGA
1 -TTCTAACAATTCTAAGGACTCTGGC-TCTTCTAAGACTTCGAACTCTTCATCTGGTTCTGGCGC
* * * *
769281 TTCTAGCTTTTCTACAGGATCTAGTTCTTTATC-AGG
64 TTCTAGCTCTTCCACAGGTTCTGGTTCTTTATCGA-G
* ** * *** *
769317 TTCTAGCAATTCTAAGGGTTCTGGATCTGT-TAAGACTTCTG-ACTCTTCATCAAATTCTGGTGC
1 TTCTAACAATTCTAAGGACTCTGGCTCT-TCTAAGACTTC-GAACTCTTCATCTGGTTCTGGCGC
* * *
769380 TTCCAGCTCTTCCACGGGGTC-GAGTTCTTTATCAGAG
64 TTCTAGCTCTTCCACAGGTTCTG-GTTCTTTATC-GAG
* * * *
769417 -TCTAACAATTCTAAAGG-TTCTGGTTCTTCTAAGATTTCAAACTCTTC
1 TTCTAACAATTCT-AAGGACTCTGGCTCTTCTAAGACTTCGAACTCTTC
769464 GTCAGATTCT
Statistics
Matches: 1016, Mismatches: 204, Indels: 170
0.73 0.15 0.12
Matches are distributed among these distances:
86 6 0.01
87 62 0.06
88 2 0.00
89 3 0.00
90 2 0.00
91 2 0.00
92 10 0.01
93 168 0.17
94 11 0.01
95 3 0.00
96 49 0.05
97 5 0.00
98 14 0.01
99 607 0.60
100 22 0.02
101 3 0.00
102 47 0.05
ACGTcount: A:0.22, C:0.23, G:0.18, T:0.36
Consensus pattern (99 bp):
TTCTAACAATTCTAAGGACTCTGGCTCTTCTAAGACTTCGAACTCTTCATCTGGTTCTGGCGCTT
CTAGCTCTTCCACAGGTTCTGGTTCTTTATCGAG
Found at i:768688 original size:186 final size:188
Alignment explanation
Indices: 768445--769392 Score: 942
Period size: 186 Copynumber: 5.0 Consensus size: 188
768435 TGCCACAAAG
* * *
768445 TCAGGTTCTAGCAATTTTAAGGGTTCCGAATCTTCTAAGACTTCAGAATCTTCATCAAGTTCTGG
1 TCAGGTTCTAGCAATTCTAAGGGTTCTGGATCTTCTAAGACTTCAGAATCTTCATCAAGTTCTGG
* * * * * *
768510 TGACTCTGGCTCTTCTACGGGATCTAGCTCCTTATCAAGTTCTAGCAATTCCAAGGGTTCTGGAT
66 TGACTCTAGCTCTTCTACAGGATCTAGTTCTTTATCAGGTTCTAGCAATTCTAAGGGTTCTGGAT
*
768575 CTTCTAAGACTTCAGGCTCTTCATCAAATTCTGGTGCTTCAGGCTCTTCCGCCG-G-A
131 CTTCTAAGACTTCAGACTCTTCATCAAATTCTGGTGCTTCAGGCTCTTCCGCCGAGTA
* *
768631 TCAGGTTCTAGCAACTCTAAGGATTCTGGATC-TCTTAAGACTTCAGAATCTTCATCAAGTTCTG
1 TCAGGTTCTAGCAATTCTAAGGGTTCTGGATCTTC-TAAGACTTCAGAATCTTCATCAAGTTCTG
** * * *
768695 GTG-CTTCTAGCTCTTCTACAAAATCTAGTTCTCTATCAGGTTCTAACAATTCAAAGGGTTCTGG
65 GTGAC-TCTAGCTCTTCTACAGGATCTAGTTCTTTATCAGGTTCTAGCAATTCTAAGGGTTCTGG
* * * * *
768759 ATCTTTTAAGACTTCAGATTCTTCATCAAATTCTGGTTCTTCTGGCTCTTCCGCAGGGAGTTCTT
129 ATCTTCTAAGACTTCAGACTCTTCATCAAATTCTGGTGCTTCAGGCTCTTCCGC--CGAG-----
768824 TA
187 TA
* *
768826 TCAGGTTCTAGCAATTCTAAGGATTCTGGATCTTCTAAGGCTTCAGAATCTTCTTCATCAAGTTC
1 TCAGGTTCTAGCAATTCTAAGGGTTCTGGATCTTCTAAGACTTCAGAA---TCTTCATCAAGTTC
* * ** * *
768891 TGG-GGCTTCTAACTCTTCCGCAGGATTTAGTTCTTTATCAGGTTCTAGCAATTATAAGGGTTCT
63 TGGTGAC-TCTAGCTCTTCTACAGGATCTAGTTCTTTATCAGGTTCTAGCAATTCTAAGGGTTCT
* * * * *
768955 GGATCTTTTAACACTTCAAACTCTTCATCAAATTCTGGTGCTTCGGGCTCTTCCACAGGGTCGAG
127 GGATCTTCTAAGACTTCAGACTCTTCATCAAATTCTGGTGCTTCAGGCTCTT-C-C---GCCGAG
769020 TTCTTTA
187 -----TA
* * *
769027 TCAGGTTCTAGCAATTCTAAGGGTTCTGGATCATCTAAGACCTCAGAA-CTTTCGTCAAGTTCTG
1 TCAGGTTCTAGCAATTCTAAGGGTTCTGGATCTTCTAAGACTTCAGAATC-TTCATCAAGTTCTG
** * *
769091 GTGTTTCTAACTCTTCTACAGGATCTAGTTCTTTATCAGGTTCTAGCAATTCTAAAGGTTCT---
65 GTGACTCTAGCTCTTCTACAGGATCTAGTTCTTTATCAGGTTCTAGCAATTCTAAGGGTTCTGGA
* * ** * * * **
769153 T-TATC--AG-GTTCTGGTTCTTCATCAAATTCTAGTGCTTCTGGCTCTTCC-AC-AGGG
130 TCT-TCTAAGACTTCAGACTCTTCATCAAATTCTGGTGCTTCAGGCTCTTCCGCCGAGTA
* * * *
769207 TC-GAGTTCTTTATCAGATTCTACAAAGGGTTCTGCATCTTCTAAGACTTCAAAATCTTCGTCAA
1 TCAG-GTTC--TAGCA-ATTCT---AAGGGTTCTGGATCTTCTAAGACTTCAGAATCTTCATCAA
* *
769271 GTTCTGGTGATTCTAGCTTTTCTACAGGATCTAGTTCTTTATCAGGTTCTAGCAATTCTAAGGGT
59 GTTCTGGTGACTCTAGCTCTTCTACAGGATCTAGTTCTTTATCAGGTTCTAGCAATTCTAAGGGT
*
769336 TCTGGATCTGT-TAAGACTTCTGACTCTTCATCAAATTCTGGTGCTTCCA-GCTCTTCC
124 TCTGGATCT-TCTAAGACTTCAGACTCTTCATCAAATTCTGGTGCTT-CAGGCTCTTCC
769393 ACGGGGTCGA
Statistics
Matches: 643, Mismatches: 79, Indels: 74
0.81 0.10 0.09
Matches are distributed among these distances:
179 1 0.00
180 6 0.01
182 4 0.01
183 5 0.01
185 5 0.01
186 256 0.40
187 1 0.00
188 1 0.00
189 2 0.00
190 3 0.00
191 3 0.00
192 66 0.10
193 2 0.00
194 1 0.00
195 46 0.07
196 2 0.00
197 2 0.00
198 179 0.28
199 2 0.00
200 1 0.00
201 54 0.08
203 1 0.00
ACGTcount: A:0.22, C:0.22, G:0.18, T:0.37
Consensus pattern (188 bp):
TCAGGTTCTAGCAATTCTAAGGGTTCTGGATCTTCTAAGACTTCAGAATCTTCATCAAGTTCTGG
TGACTCTAGCTCTTCTACAGGATCTAGTTCTTTATCAGGTTCTAGCAATTCTAAGGGTTCTGGAT
CTTCTAAGACTTCAGACTCTTCATCAAATTCTGGTGCTTCAGGCTCTTCCGCCGAGTA
Found at i:768795 original size:285 final size:286
Alignment explanation
Indices: 768445--769653 Score: 1059
Period size: 285 Copynumber: 4.2 Consensus size: 286
768435 TGCCACAAAG
* * * * *
768445 TCAGGTTCTAGCAATTTTAAGGGTTCCGAATCTTCTAAGACTTCAGAATCTTCATCAAGTTCTGG
1 TCAGGTTCTAGCAATTCTAAGGGTTCTGGATCTTCTAAGACTTCAGACTCTTCATCAAATTCTGG
* * * * * *
768510 TGAC-TCTGGCTCTTCTACGGGATCTAGCTCCTTATCAAGTTCTAGCAATTCCAAGGGTTCTGGA
66 TGTCTTCTAGCTCTTCCACGGGATCTAGCTCTTTATCAAGTTCTAGCAATTCTAAAGGTTCTGGA
* *
768574 TCTTCTAAGACTTCAGGCTCTTCATCAAATTCTGGTGCTTC-AGGCTCTTCCGCCGGATCAGGTT
131 TCTTCTAAGACTTCAGGCTCTTCATCAAATTCTAGTGCTTCTA-GCTCTTCCGCAGGATCAGGTT
768638 CTAGCAACTCTAAGGATTCTGGATC-TCTTAAGACTTCAGAA-TCTTCATCAAGTTCTGGTGCTT
195 CTAGCAACTCTAAGGATTCTGGATCTTC-TAAGACTTCA-AACTCTTCATCAAGTTCTGGTGCTT
** *
768701 CTAGCTCTTCTACAAAATCTAGTTCTCTA
258 CTAGCTCTTCTACAGGATCTAGTTCTTTA
* * * *
768730 TCAGGTTCTAACAATTCAAAGGGTTCTGGATCTTTTAAGACTTCAGATTCTTCATCAAATTCTGG
1 TCAGGTTCTAGCAATTCTAAGGGTTCTGGATCTTCTAAGACTTCAGACTCTTCATCAAATTCTGG
* * * *
768795 T-TCTTCTGGCTCTTCCGCAGGG----AGTTCTTTATCAGGTTCTAGCAATTCT-AAGGATTCTG
66 TGTCTTCTAGCTCTTCCAC-GGGATCTAGCTCTTTATCAAGTTCTAGCAATTCTAAAGG-TTCTG
* * * * * *
768854 GATCTTCTAAGGCTTCAGAATCTTCTTCATCAAGTTCTGGGGCTTCTAACTCTTCCGCAGGATTT
129 GATCTTCTAAGACTTCAG--GC-TCTTCATCAAATTCTAGTGCTTCTAGCTCTTCCGCA-G----
* * * * *
768919 AGTTCTTTATCAGGTTCTAGCAATTATAAGGGTTCTGGATCTTTTAACACTTCAAACTCTTCATC
186 -G------ATCAGGTTCTAGCAACTCTAAGGATTCTGGATCTTCTAAGACTTCAAACTCTTCATC
* ** * * *
768984 AAATTCTGGTGCTTCGGGCTCTTCCACAGGGTCGAGTTCTTTA
244 AAGTTCTGGTGCTTCTAGCTCTTCTACAGGATCTAGTTCTTTA
* * * *
769027 TCAGGTTCTAGCAATTCTAAGGGTTCTGGATCATCTAAGACCTCAGAACT-TTCGTCAAGTTCTG
1 TCAGGTTCTAGCAATTCTAAGGGTTCTGGATCTTCTAAGACTTCAG-ACTCTTCATCAAATTCTG
* * * * *
769091 GTGT-TTCTAACTCTTCTACAGGATCTAGTTCTTTATCAGGTTCTAGCAATTCTAAAGGTTCT--
65 GTGTCTTCTAGCTCTTCCACGGGATCTAGCTCTTTATCAAGTTCTAGCAATTCTAAAGGTTCTGG
* * * * * *
769153 -T-TATC--AG-GTTCTGGTTCTTCATCAAATTCTAGTGCTTCTGGCTCTTCCACAGGGTC-GAG
130 ATCT-TCTAAGACTTCAGGCTCTTCATCAAATTCTAGTGCTTCTAGCTCTTCCGCAGGATCAG-G
* * * * * *
769212 TTCTTTATCAGATTCTACAAAGGGTTCTGCATCTTCTAAGACTTCAAAATCTTCGTCAAGTTCTG
193 TTC--TAGCA-A--CT-CTAAGGATTCTGGATCTTCTAAGACTTCAAACTCTTCATCAAGTTCTG
* *
769277 GTGATTCTAGCTTTTCTACAGGATCTAGTTCTTTA
252 GTGCTTCTAGCTCTTCTACAGGATCTAGTTCTTTA
*
769312 TCAGGTTCTAGCAATTCTAAGGGTTCTGGATCTGT-TAAGACTTCTGACTCTTCATCAAATTCTG
1 TCAGGTTCTAGCAATTCTAAGGGTTCTGGATCT-TCTAAGACTTCAGACTCTTCATCAAATTCTG
* * * * *
769376 GTG-CTTCCAGCTCTTCCACGGGGTCGAGTTCTTTATCAGAG-TCTAACAATTCTAAAGGTTCTG
65 GTGTCTTCTAGCTCTTCCACGGGATCTAGCTCTTTATCA-AGTTCTAGCAATTCTAAAGGTTCTG
* * ** * * * * * *
769439 GTTCTTCTAAGATTTCAAACTCTTCGTCAGATTCTAATGATTCTAGCTCTTTCAG-AGGATCGGG
129 GATCTTCTAAGACTTCAGGCTCTTCATCAAATTCTAGTGCTTCTAGCTC-TTCCGCAGGATCAGG
* * * ** *
769503 TTCTAGCAATTCTAA-GAGTTCTGAATCTTCTGAGACCGCAAACTCTTCATCAAGTACTGGTGCT
193 TTCTAGCAACTCTAAGGA-TTCTGGATCTTCTAAGACTTCAAACTCTTCATCAAGTTCTGGTGCT
* * **
769567 TC-AGGCTCTTTTGCAGGGGC-AGGTTCTTTA
257 TCTA-GCTCTTCTACAGGATCTA-GTTCTTTA
* * * * *
769597 TCAAGTTCTACCAATTCTAAGGGTTCCGGATCTTCTAAAACTTCAGACTCCTCATCA
1 TCAGGTTCTAGCAATTCTAAGGGTTCTGGATCTTCTAAGACTTCAGACTCTTCATCA
769654 GGTTCTGCTT
Statistics
Matches: 745, Mismatches: 126, Indels: 106
0.76 0.13 0.11
Matches are distributed among these distances:
278 1 0.00
279 6 0.01
281 7 0.01
282 46 0.06
284 10 0.01
285 384 0.52
286 8 0.01
288 4 0.01
289 5 0.01
290 3 0.00
291 67 0.09
292 4 0.01
294 4 0.01
295 2 0.00
296 5 0.01
297 150 0.20
298 4 0.01
300 31 0.04
301 4 0.01
ACGTcount: A:0.23, C:0.22, G:0.19, T:0.36
Consensus pattern (286 bp):
TCAGGTTCTAGCAATTCTAAGGGTTCTGGATCTTCTAAGACTTCAGACTCTTCATCAAATTCTGG
TGTCTTCTAGCTCTTCCACGGGATCTAGCTCTTTATCAAGTTCTAGCAATTCTAAAGGTTCTGGA
TCTTCTAAGACTTCAGGCTCTTCATCAAATTCTAGTGCTTCTAGCTCTTCCGCAGGATCAGGTTC
TAGCAACTCTAAGGATTCTGGATCTTCTAAGACTTCAAACTCTTCATCAAGTTCTGGTGCTTCTA
GCTCTTCTACAGGATCTAGTTCTTTA
Found at i:768861 original size:18 final size:18
Alignment explanation
Indices: 768840--768879 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
768830 GTTCTAGCAA
* *
768840 TTCTAAGGATTCTGGATC
1 TTCTAAGGATTCAGAATC
*
768858 TTCTAAGGCTTCAGAATC
1 TTCTAAGGATTCAGAATC
768876 TTCT
1 TTCT
768880 TCATCAAGTT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.23, C:0.20, G:0.17, T:0.40
Consensus pattern (18 bp):
TTCTAAGGATTCAGAATC
Found at i:769393 original size:384 final size:385
Alignment explanation
Indices: 768462--769467 Score: 1167
Period size: 384 Copynumber: 2.6 Consensus size: 385
768452 CTAGCAATTT
* * * *
768462 TAAGGGTTCCGAATCTTCTAAGACTTCAGAATCTTCATCAAGTTCTGGTGACTCTGGCTCTTCTA
1 TAAGGGTTCTGAATCTTCTAAGACTTCAAAATCTTCATCAAGTTCTGGTGATTCTAGCTCTTCTA
* * * * * *
768527 CGGGATCTAGCTCCTTATCAAGTTCTAGCAATTCCAAGGGTTCTGGATCTTCTAAGACTTCAGGC
66 CAGGATCTAGTTCTTTATCAGGTTCTAGCAATTCTAAGGGTTCTGGATCTT-TAAGACTTCAGAC
*
768592 TCTTCATCAAATTCTGGTGCTT-CAGGCTCTT-C-C--GCCG-G------ATCAGGTTCTAGCAA
130 TCTTCATCAAATTCTGGTGCTTCCA-GCTCTTCCACGGGTCGAGTTCTTTATCAGGTTCTAGCAA
* * * *
768645 CTCTAAGGATTCTGGATCTCTTAAGACTTCAGAA-TCTTCATCAAGTTCTGGTGCTTCTAGCTCT
194 TTCTAAGGGTTCTGGATCTC-TAAGACTTCAGAACTCTTCGTCAAGTTCTGGTGCTTCTAACTCT
*
768709 TCTACAAAATCTAGTTCTCTATCAGGTTCTAACAATTCAAAGGGTTCTGGATCTTTTAAGACTTC
258 TCTACAAAATCTAGTTCTCTATCAGGTTCTAACAATTCAAAGGGTTC--G-TCTTATAAGACTTC
* * * *
768774 AGATTCTTCATCAAATTCTGGTTCTTCTGGCTCTTCCGCAGGGAGTTCTTTATCAGGTTCTAGCA
320 AGATTCTTCATCAAATTCTAGTGCTTCTGGCTCTTCCACAGGGAGTTCTTTATCAGATTCTAGCA
768839 A
385 A
* * * * * * *
768840 TTCTAAGGATTCTGGATCTTCTAAGGCTTCAGAATCTTCTTCATCAAGTTCTGGGGCTTCTAACT
1 ---TAAGGGTTCTGAATCTTCTAAGACTTCA-AA--ATCTTCATCAAGTTCTGGTGATTCTAGCT
** * * *
768905 CTTCCGCAGGATTTAGTTCTTTATCAGGTTCTAGCAATTATAAGGGTTCTGGATCTTTTAACACT
60 CTTCTACAGGATCTAGTTCTTTATCAGGTTCTAGCAATTCTAAGGGTTCTGGATC-TTTAAGACT
* **
768970 TCAAACTCTTCATCAAATTCTGGTGCTTCGGGCTCTTCCACAGGGTCGAGTTCTTTATCAGGTTC
124 TCAGACTCTTCATCAAATTCTGGTGCTTCCAGCTCTTCCAC-GGGTCGAGTTCTTTATCAGGTTC
* *
769035 TAGCAATTCTAAGGGTTCTGGATCATCTAAGACCTCAGAACT-TTCGTCAAGTTCTGGTGTTTCT
188 TAGCAATTCTAAGGGTTCTGGATC-TCTAAGACTTCAGAACTCTTCGTCAAGTTCTGGTGCTTCT
** * * *
769099 AACTCTTCTACAGGATCTAGTTCTTTATCAGGTTCTAGCAATTCTAAA-GGTTC-T-TTATCAG-
252 AACTCTTCTACAAAATCTAGTTCTCTATCAGGTTCTAACAATTC-AAAGGGTTCGTCTTATAAGA
* * *
769160 GTTCTGGTTCTTCATCAAATTCTAGTGCTTCTGGCTCTTCCACAGGGTCGAGTTCTTTATCAGAT
316 CTTCAGATTCTTCATCAAATTCTAGTGCTTCTGGCTCTTCCACA-GG--GAGTTCTTTATCAGAT
769225 TCTA-C-A
378 TCTAGCAA
* * *
769231 -AAGGGTTCTGCATCTTCTAAGACTTCAAAATCTTCGTCAAGTTCTGGTGATTCTAGCTTTTCTA
1 TAAGGGTTCTGAATCTTCTAAGACTTCAAAATCTTCATCAAGTTCTGGTGATTCTAGCTCTTCTA
*
769295 CAGGATCTAGTTCTTTATCAGGTTCTAGCAATTCTAAGGGTTCTGGATCTGTTAAGACTTCTGAC
66 CAGGATCTAGTTCTTTATCAGGTTCTAGCAATTCTAAGGGTTCTGGATCT-TTAAGACTTCAGAC
*
769360 TCTTCATCAAATTCTGGTGCTTCCAGCTCTTCCACGGGGTCGAGTTCTTTATCAGAG-TCTAACA
130 TCTTCATCAAATTCTGGTGCTTCCAGCTCTTCCAC-GGGTCGAGTTCTTTATCAG-GTTCTAGCA
* * *
769424 ATTCTAAAGGTTCTGGTTCTTCTAAGATTTCA-AACTCTTCGTCA
193 ATTCTAAGGGTTCTGGATC-TCTAAGACTTCAGAACTCTTCGTCA
769468 GATTCTAATG
Statistics
Matches: 529, Mismatches: 70, Indels: 49
0.82 0.11 0.08
Matches are distributed among these distances:
381 24 0.05
382 1 0.00
383 5 0.01
384 284 0.54
385 4 0.01
386 3 0.01
387 24 0.05
389 3 0.01
390 39 0.07
391 8 0.02
392 2 0.00
393 19 0.04
396 107 0.20
397 6 0.01
ACGTcount: A:0.22, C:0.22, G:0.18, T:0.37
Consensus pattern (385 bp):
TAAGGGTTCTGAATCTTCTAAGACTTCAAAATCTTCATCAAGTTCTGGTGATTCTAGCTCTTCTA
CAGGATCTAGTTCTTTATCAGGTTCTAGCAATTCTAAGGGTTCTGGATCTTTAAGACTTCAGACT
CTTCATCAAATTCTGGTGCTTCCAGCTCTTCCACGGGTCGAGTTCTTTATCAGGTTCTAGCAATT
CTAAGGGTTCTGGATCTCTAAGACTTCAGAACTCTTCGTCAAGTTCTGGTGCTTCTAACTCTTCT
ACAAAATCTAGTTCTCTATCAGGTTCTAACAATTCAAAGGGTTCGTCTTATAAGACTTCAGATTC
TTCATCAAATTCTAGTGCTTCTGGCTCTTCCACAGGGAGTTCTTTATCAGATTCTAGCAA
Found at i:769473 original size:99 final size:98
Alignment explanation
Indices: 769234--769506 Score: 289
Period size: 99 Copynumber: 2.8 Consensus size: 98
769224 TTCTACAAAG
* * * * *
769234 GGTTCTGCATCTTCTAAGACTTCAAAATCTTCGTCAAGTTCTGGTGATTCTAGCTTTTCTACAGG
1 GGTTCTGGATCTTCTAAGACTTCAAACTCTTCGTCAA-TTCTGGTGATTCCAGCTCTTCCACAGG
* * *
769299 ATCTAGTTCTTTATCAGGTTCTAGCAATTCTAAG
65 ATCGAGTTCTTTATCAGGTTCTAACAATTCTAAA
** * * *
769333 GGTTCTGGATCTGT-TAAGACTTCTGACTCTTCATCAAATTCTGGTGCTTCCAGCTCTTCCACGG
1 GGTTCTGGATCT-TCTAAGACTTCAAACTCTTCGTC-AATTCTGGTGATTCCAGCTCTTCCACAG
*
769397 GGTCGAGTTCTTTATCAGAG-TCTAACAATTCTAAA
64 GATCGAGTTCTTTATCAG-GTTCTAACAATTCTAAA
* * ** * * *
769432 GGTTCTGGTTCTTCTAAGATTTCAAACTCTTCGTCAGATTCTAATGATTCTAGCTCTTTCAGAGG
1 GGTTCTGGATCTTCTAAGACTTCAAACTCTTCGTCA-ATTCTGGTGATTCCAGCTCTTCCACAGG
*
769497 ATCGGGTTCT
65 ATCGAGTTCT
769507 AGCAATTCTA
Statistics
Matches: 141, Mismatches: 28, Indels: 10
0.79 0.16 0.06
Matches are distributed among these distances:
98 2 0.01
99 135 0.96
100 4 0.03
ACGTcount: A:0.22, C:0.21, G:0.19, T:0.38
Consensus pattern (98 bp):
GGTTCTGGATCTTCTAAGACTTCAAACTCTTCGTCAATTCTGGTGATTCCAGCTCTTCCACAGGA
TCGAGTTCTTTATCAGGTTCTAACAATTCTAAA
Found at i:772050 original size:57 final size:58
Alignment explanation
Indices: 771981--772097 Score: 209
Period size: 57 Copynumber: 2.0 Consensus size: 58
771971 GCAGCTCCAT
771981 GATGCAAGTTGAAGCCCAAAGTAATTGCTTTAGTACAAAATCAAACGAAAATCAGCAG
1 GATGCAAGTTGAAGCCCAAAGTAATTGCTTTAGTACAAAATCAAACGAAAATCAGCAG
* *
772039 GATGC-AGTTGAAGCCCATAGTCATTGCTTTAGTACAAAATCAAACGAAAATCAGCAG
1 GATGCAAGTTGAAGCCCAAAGTAATTGCTTTAGTACAAAATCAAACGAAAATCAGCAG
772096 GA
1 GA
772098 AACAAGATCC
Statistics
Matches: 57, Mismatches: 2, Indels: 1
0.95 0.03 0.02
Matches are distributed among these distances:
57 52 0.91
58 5 0.09
ACGTcount: A:0.41, C:0.18, G:0.20, T:0.21
Consensus pattern (58 bp):
GATGCAAGTTGAAGCCCAAAGTAATTGCTTTAGTACAAAATCAAACGAAAATCAGCAG
Found at i:774641 original size:2 final size:2
Alignment explanation
Indices: 774634--774674 Score: 82
Period size: 2 Copynumber: 20.5 Consensus size: 2
774624 ATCATCTCCA
774634 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
774675 TTAAAAAAAA
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.00, C:0.49, G:0.00, T:0.51
Consensus pattern (2 bp):
TC
Found at i:776178 original size:2 final size:2
Alignment explanation
Indices: 776171--776207 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
776161 TAGGTGCAAT
776171 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
776208 CCACTAATTT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:777114 original size:22 final size:21
Alignment explanation
Indices: 777085--777135 Score: 61
Period size: 22 Copynumber: 2.4 Consensus size: 21
777075 AAAATTAAAA
*
777085 TAAATAAAA-TTAATTATTATT
1 TAAATAAAATTTAATT-TAATT
777106 TAAATTAAAATTTAATTTAATT
1 TAAA-TAAAATTTAATTTAATT
777128 T-AATAAAA
1 TAAATAAAA
777136 ATAAAATTGA
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
20 5 0.19
21 6 0.22
22 10 0.37
23 6 0.22
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (21 bp):
TAAATAAAATTTAATTTAATT
Found at i:777902 original size:19 final size:20
Alignment explanation
Indices: 777870--777909 Score: 73
Period size: 19 Copynumber: 2.0 Consensus size: 20
777860 AAGTATAATA
777870 AATATTATATAATTAAAAAT
1 AATATTATATAATTAAAAAT
777890 AATATTA-ATAATTAAAAAT
1 AATATTATATAATTAAAAAT
777909 A
1 A
777910 TTAAAATCAT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 13 0.65
20 7 0.35
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (20 bp):
AATATTATATAATTAAAAAT
Found at i:777909 original size:16 final size:17
Alignment explanation
Indices: 777869--777913 Score: 56
Period size: 16 Copynumber: 2.5 Consensus size: 17
777859 TAAGTATAAT
777869 AAATATTATATAATTAAAA
1 AAATATTA-ATAATT-AAA
777888 ATAATATTAATAATT-AA
1 A-AATATTAATAATTAAA
777905 AAATATTAA
1 AAATATTAA
777914 AATCATTAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
16 8 0.32
17 3 0.12
19 7 0.28
20 7 0.28
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (17 bp):
AAATATTAATAATTAAA
Found at i:777921 original size:18 final size:19
Alignment explanation
Indices: 777878--777923 Score: 58
Period size: 19 Copynumber: 2.5 Consensus size: 19
777868 TAAATATTAT
*
777878 ATAATTAAAAATAATATTA
1 ATAATTAAAAATAATATAA
*
777897 ATAATTAAAAATATTA-AA
1 ATAATTAAAAATAATATAA
*
777915 ATCATTAAA
1 ATAATTAAA
777924 TGATAATCAT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
18 9 0.38
19 15 0.62
ACGTcount: A:0.63, C:0.02, G:0.00, T:0.35
Consensus pattern (19 bp):
ATAATTAAAAATAATATAA
Found at i:779813 original size:25 final size:26
Alignment explanation
Indices: 779785--779841 Score: 73
Period size: 26 Copynumber: 2.2 Consensus size: 26
779775 TATAAATCCG
779785 TGAATTGAACT-ATAAACTAGAT-TCA
1 TGAATTGAACTCATAAACTAGATCT-A
* *
779810 TGAATCGAACTCATAAATTAGATCTA
1 TGAATTGAACTCATAAACTAGATCTA
779836 TGAATT
1 TGAATT
779842 AGACTCAAGA
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
25 10 0.37
26 16 0.59
27 1 0.04
ACGTcount: A:0.42, C:0.12, G:0.12, T:0.33
Consensus pattern (26 bp):
TGAATTGAACTCATAAACTAGATCTA
Found at i:782403 original size:17 final size:17
Alignment explanation
Indices: 782381--782423 Score: 50
Period size: 17 Copynumber: 2.5 Consensus size: 17
782371 ATTTTATTTG
*
782381 TATATTTTTTATGTATA
1 TATATTTTATATGTATA
* *
782398 TATATTATATATTTATA
1 TATATTTTATATGTATA
*
782415 TAAATTTTA
1 TATATTTTA
782424 ATATATTAAA
Statistics
Matches: 21, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.37, C:0.00, G:0.02, T:0.60
Consensus pattern (17 bp):
TATATTTTATATGTATA
Found at i:782414 original size:15 final size:15
Alignment explanation
Indices: 782343--782416 Score: 50
Period size: 15 Copynumber: 5.2 Consensus size: 15
782333 TAATATTCAA
*
782343 ATATTAT-TAATTAT
1 ATATTATATATTTAT
*
782357 A-ATCATATATTTAT
1 ATATTATATATTTAT
782371 AT-TT-TAT-TTGTAT
1 ATATTATATATT-TAT
* * * *
782384 ATTTTTTATGTATAT
1 ATATTATATATTTAT
782399 ATATTATATATTTAT
1 ATATTATATATTTAT
782414 ATA
1 ATA
782417 AATTTTAATA
Statistics
Matches: 46, Mismatches: 8, Indels: 11
0.71 0.12 0.17
Matches are distributed among these distances:
12 2 0.04
13 12 0.26
14 11 0.24
15 20 0.43
16 1 0.02
ACGTcount: A:0.36, C:0.01, G:0.03, T:0.59
Consensus pattern (15 bp):
ATATTATATATTTAT
Found at i:782857 original size:18 final size:17
Alignment explanation
Indices: 782834--782867 Score: 59
Period size: 18 Copynumber: 1.9 Consensus size: 17
782824 AATTTTTTTA
782834 ATAAATATATTTATAAAC
1 ATAAATATA-TTATAAAC
782852 ATAAATATATTATAAA
1 ATAAATATATTATAAA
782868 AAAATTTAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 7 0.44
18 9 0.56
ACGTcount: A:0.59, C:0.03, G:0.00, T:0.38
Consensus pattern (17 bp):
ATAAATATATTATAAAC
Found at i:783006 original size:13 final size:12
Alignment explanation
Indices: 782985--783021 Score: 56
Period size: 13 Copynumber: 2.9 Consensus size: 12
782975 TAAAAAAATT
782985 AAAATAATTTTA
1 AAAATAATTTTA
782997 AAAGATAATTATTA
1 AAA-ATAATT-TTA
783011 AAAATAATTTT
1 AAAATAATTTT
783022 TTTATTTGTA
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
12 5 0.22
13 12 0.52
14 6 0.26
ACGTcount: A:0.57, C:0.00, G:0.03, T:0.41
Consensus pattern (12 bp):
AAAATAATTTTA
Found at i:783042 original size:20 final size:21
Alignment explanation
Indices: 783009--783048 Score: 73
Period size: 20 Copynumber: 2.0 Consensus size: 21
782999 AGATAATTAT
783009 TAAAAATAATTTTTTTATTTG
1 TAAAAATAATTTTTTTATTTG
783030 TAAAAATAA-TTTTTTATTT
1 TAAAAATAATTTTTTTATTT
783049 TTAATATAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 10 0.53
21 9 0.47
ACGTcount: A:0.40, C:0.00, G:0.03, T:0.57
Consensus pattern (21 bp):
TAAAAATAATTTTTTTATTTG
Found at i:783057 original size:19 final size:19
Alignment explanation
Indices: 783011--783068 Score: 64
Period size: 18 Copynumber: 3.0 Consensus size: 19
783001 ATAATTATTA
*
783011 AAAATAATTTTTTTATTTGTA
1 AAAATAA-TTTTTTATTT-TT
783032 AAAATAATTTTTTATTTTT
1 AAAATAATTTTTTATTTTT
* *
783051 AATATAA-TTATTATTTTT
1 AAAATAATTTTTTATTTTT
783069 TTTATTTTTA
Statistics
Matches: 34, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
18 10 0.29
19 7 0.21
20 10 0.29
21 7 0.21
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.60
Consensus pattern (19 bp):
AAAATAATTTTTTATTTTT
Found at i:783125 original size:21 final size:24
Alignment explanation
Indices: 783088--783143 Score: 57
Period size: 23 Copynumber: 2.5 Consensus size: 24
783078 AAATTTTTTT
*
783088 AATA-ATATAATAGAAAT-ACAATT
1 AATATATATAATA-AAATCACAATC
*
783111 AA-ATATATAAT-AAATCATAATC
1 AATATATATAATAAAATCACAATC
783133 AATATATATAA
1 AATATATATAA
783144 AATATTATAT
Statistics
Matches: 28, Mismatches: 2, Indels: 6
0.78 0.06 0.17
Matches are distributed among these distances:
21 4 0.14
22 7 0.25
23 17 0.61
ACGTcount: A:0.61, C:0.05, G:0.02, T:0.32
Consensus pattern (24 bp):
AATATATATAATAAAATCACAATC
Found at i:783130 original size:10 final size:9
Alignment explanation
Indices: 783115--783224 Score: 52
Period size: 8 Copynumber: 12.1 Consensus size: 9
783105 ACAATTAAAT
783115 ATATAATAA
1 ATATAATAA
*
783124 ATCATAATCA
1 AT-ATAATAA
783134 ATATATATAA
1 ATATA-ATAA
* *
783144 A-ATATTAT
1 ATATAATAA
*
783152 ATATTA-AA
1 ATATAATAA
*
783160 ATTTATATAA
1 ATATA-ATAA
*
783170 TATATAATAT
1 -ATATAATAA
783180 AT-TAAATAAA
1 ATAT-AAT-AA
783190 ATTATAAT-A
1 A-TATAATAA
*
783199 TTATAA-AA
1 ATATAATAA
783207 ATAT-ATAA
1 ATATAATAA
783215 ATATAATAA
1 ATATAATAA
783224 A
1 A
783225 AATATAATTC
Statistics
Matches: 74, Mismatches: 14, Indels: 26
0.65 0.12 0.23
Matches are distributed among these distances:
7 1 0.01
8 23 0.31
9 22 0.30
10 19 0.26
11 8 0.11
12 1 0.01
ACGTcount: A:0.59, C:0.02, G:0.00, T:0.39
Consensus pattern (9 bp):
ATATAATAA
Found at i:783152 original size:14 final size:14
Alignment explanation
Indices: 783135--783187 Score: 56
Period size: 14 Copynumber: 3.9 Consensus size: 14
783125 TCATAATCAA
783135 TATATATAAAATAT
1 TATATATAAAATAT
*
783149 TATATATTAAA-AT
1 TATATATAAAATAT
*
783162 T-TATATAATATAT
1 TATATATAAAATAT
* *
783175 AATATATTAAATA
1 TATATATAAAATA
783188 AAATTATAAT
Statistics
Matches: 31, Mismatches: 6, Indels: 4
0.76 0.15 0.10
Matches are distributed among these distances:
12 7 0.23
13 5 0.16
14 19 0.61
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (14 bp):
TATATATAAAATAT
Found at i:783155 original size:16 final size:16
Alignment explanation
Indices: 783134--783220 Score: 69
Period size: 16 Copynumber: 5.6 Consensus size: 16
783124 ATCATAATCA
783134 ATATATATAAAATATT
1 ATATATATAAAATATT
783150 ATATAT-TAAAAT-TT
1 ATATATATAAAATATT
*
783164 ATATAATATATAATA-T
1 ATAT-ATATAAAATATT
* *
783180 AT-TAAATAAAATTATA
1 ATATATATAAAA-TATT
783196 ATAT-TATAAAA-ATAT
1 ATATATATAAAATAT-T
*
783211 ATAAATATAA
1 ATATATATAA
783221 TAAAAATATA
Statistics
Matches: 56, Mismatches: 7, Indels: 16
0.71 0.09 0.20
Matches are distributed among these distances:
14 14 0.25
15 14 0.25
16 27 0.48
17 1 0.02
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (16 bp):
ATATATATAAAATATT
Found at i:783188 original size:19 final size:18
Alignment explanation
Indices: 783168--783230 Score: 65
Period size: 19 Copynumber: 3.3 Consensus size: 18
783158 AAATTTATAT
783168 AATATATAATATATTAAA
1 AATATATAATATATTAAA
*
783186 TAAAATTATAATAT-TATAAA
1 -AATA-TATAATATAT-TAAA
*
783206 AATATATAAATATAATAAA
1 AATATAT-AATATATTAAA
783225 AATATA
1 AATATA
783231 ATTCATTAAT
Statistics
Matches: 37, Mismatches: 3, Indels: 8
0.77 0.06 0.17
Matches are distributed among these distances:
18 3 0.08
19 22 0.59
20 12 0.32
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (18 bp):
AATATATAATATATTAAA
Found at i:783240 original size:19 final size:18
Alignment explanation
Indices: 783171--783240 Score: 56
Period size: 19 Copynumber: 3.8 Consensus size: 18
783161 TTTATATAAT
783171 ATATAATATATTAAATAAAA
1 ATATAAT-TATT-AATAAAA
*
783191 TTATAA-TATT-ATAAAA
1 ATATAATTATTAATAAAA
*
783207 ATAT-ATAAATATAATAAAA
1 ATATAAT-TAT-TAATAAAA
783226 ATATAATTCATTAAT
1 ATATAATT-ATTAAT
783241 TTTGAGTCTT
Statistics
Matches: 40, Mismatches: 4, Indels: 13
0.70 0.07 0.23
Matches are distributed among these distances:
15 1 0.03
16 9 0.22
17 2 0.05
18 5 0.12
19 14 0.35
20 9 0.22
ACGTcount: A:0.60, C:0.01, G:0.00, T:0.39
Consensus pattern (18 bp):
ATATAATTATTAATAAAA
Found at i:783993 original size:2 final size:2
Alignment explanation
Indices: 783986--784025 Score: 80
Period size: 2 Copynumber: 20.0 Consensus size: 2
783976 TGTACTTTTA
783986 AT 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 AT
784026 GTGTGTGTGT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:784375 original size:25 final size:27
Alignment explanation
Indices: 784324--784387 Score: 75
Period size: 25 Copynumber: 2.5 Consensus size: 27
784314 TAAAAAATAT
784324 AATTATTTTTAATTTTATATTTATTTAA
1 AATTATTTTTAA-TTTATATTTATTTAA
784352 AATTA-TTTTAA-TTATATTT-TTT--
1 AATTATTTTTAATTTATATTTATTTAA
*
784374 TATTATTTTTAATT
1 AATTATTTTTAATT
784388 GAATTGATGT
Statistics
Matches: 33, Mismatches: 1, Indels: 8
0.79 0.02 0.19
Matches are distributed among these distances:
22 4 0.12
23 6 0.18
24 4 0.12
25 8 0.24
27 6 0.18
28 5 0.15
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (27 bp):
AATTATTTTTAATTTATATTTATTTAA
Found at i:785352 original size:2 final size:2
Alignment explanation
Indices: 785345--785384 Score: 80
Period size: 2 Copynumber: 20.0 Consensus size: 2
785335 TCTCTGTTTG
785345 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
785385 TGCTTTCTTA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
CT
Found at i:791914 original size:18 final size:18
Alignment explanation
Indices: 791888--791922 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
791878 TGAATTCGTT
* *
791888 TTAATTAAATTAATTTAA
1 TTAAATAAATAAATTTAA
791906 TTAAATAAATAAATTTA
1 TTAAATAAATAAATTTA
791923 TTTTCTCTGT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (18 bp):
TTAAATAAATAAATTTAA
Found at i:792887 original size:30 final size:30
Alignment explanation
Indices: 792853--792909 Score: 96
Period size: 30 Copynumber: 1.9 Consensus size: 30
792843 TAATATTAGG
*
792853 ATAAAAAATGAATAATAAACAAATTCAGGA
1 ATAAAAAATAAATAATAAACAAATTCAGGA
*
792883 ATAAAAAATAAATAATAAATAAATTCA
1 ATAAAAAATAAATAATAAACAAATTCA
792910 AATAAATTGA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.67, C:0.05, G:0.05, T:0.23
Consensus pattern (30 bp):
ATAAAAAATAAATAATAAACAAATTCAGGA
Found at i:794632 original size:30 final size:28
Alignment explanation
Indices: 794593--794660 Score: 82
Period size: 29 Copynumber: 2.3 Consensus size: 28
794583 TTGATTAAAT
*
794593 TAATGTTGTTTGAAAAATTAATTATCAAAA
1 TAATATTGTTTGAAAAA-T-ATTATCAAAA
* *
794623 TAATATTGTTTTGAAATATATTATTAAAA
1 TAATATTG-TTTGAAAAATATTATCAAAA
794652 TAATATTGT
1 TAATATTGT
794661 ATCCCAACGT
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
28 1 0.03
29 17 0.50
30 8 0.24
31 8 0.24
ACGTcount: A:0.44, C:0.01, G:0.09, T:0.46
Consensus pattern (28 bp):
TAATATTGTTTGAAAAATATTATCAAAA
Found at i:794939 original size:12 final size:12
Alignment explanation
Indices: 794922--794947 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
794912 AAATATAAAA
794922 AATTTAAAATAT
1 AATTTAAAATAT
794934 AATTTAAAATAT
1 AATTTAAAATAT
794946 AA
1 AA
794948 AATAAATAAA
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:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (12 bp):
AATTTAAAATAT
Found at i:794964 original size:15 final size:16
Alignment explanation
Indices: 794938--794970 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
794928 AAATATAATT
794938 TAAAATATAAAATAAA
1 TAAAATATAAAATAAA
*
794954 TAAAA-ATAAAATGAA
1 TAAAATATAAAATAAA
794969 TA
1 TA
794971 TGATATGAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 11 0.69
16 5 0.31
ACGTcount: A:0.73, C:0.00, G:0.03, T:0.24
Consensus pattern (16 bp):
TAAAATATAAAATAAA
Found at i:795690 original size:18 final size:16
Alignment explanation
Indices: 795667--795709 Score: 50
Period size: 17 Copynumber: 2.5 Consensus size: 16
795657 GTTTTAAATA
795667 TTATATTTAAATAAATTT
1 TTATATTT-AAT-AATTT
*
795685 TTATATATTAATATTTT
1 TTATAT-TTAATAATTT
795702 TTATATTT
1 TTATATTT
795710 TATTATTTAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
16 2 0.09
17 10 0.43
18 9 0.39
19 2 0.09
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (16 bp):
TTATATTTAATAATTT
Found at i:795704 original size:17 final size:17
Alignment explanation
Indices: 795682--795717 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
795672 TTTAAATAAA
795682 TTTTTATATATTAATAT
1 TTTTTATATATTAATAT
* *
795699 TTTTTATATTTTATTAT
1 TTTTTATATATTAATAT
795716 TT
1 TT
795718 AATAAAAATA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (17 bp):
TTTTTATATATTAATAT
Found at i:795786 original size:21 final size:22
Alignment explanation
Indices: 795734--795786 Score: 58
Period size: 21 Copynumber: 2.5 Consensus size: 22
795724 AATAAATAAA
795734 TTTAATTAA-AATTTTAAATATT
1 TTTAA-TAATAATTTTAAATATT
* *
795756 TATAAT-ATAATTTTATAT-TT
1 TTTAATAATAATTTTAAATATT
795776 TTTAATAATAA
1 TTTAATAATAA
795787 AATATATTTA
Statistics
Matches: 26, Mismatches: 3, Indels: 5
0.76 0.09 0.15
Matches are distributed among these distances:
20 8 0.31
21 14 0.54
22 4 0.15
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (22 bp):
TTTAATAATAATTTTAAATATT
Found at i:796009 original size:14 final size:14
Alignment explanation
Indices: 795990--796028 Score: 55
Period size: 13 Copynumber: 2.9 Consensus size: 14
795980 GACGTGATAA
795990 AAATAATAATATTT
1 AAATAATAATATTT
796004 AAATAAT-ATATTT
1 AAATAATAATATTT
*
796017 TAA-AATAATATT
1 AAATAATAATATT
796029 ATTATTAATT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
12 3 0.13
13 13 0.57
14 7 0.30
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (14 bp):
AAATAATAATATTT
Found at i:796024 original size:15 final size:16
Alignment explanation
Indices: 795989--796031 Score: 58
Period size: 15 Copynumber: 2.9 Consensus size: 16
795979 TGACGTGATA
795989 AAAATAATA-ATATTT
1 AAAATAATATATATTT
796004 -AAATAATATAT-TTT
1 AAAATAATATATATTT
796018 AAAATAATAT-TATT
1 AAAATAATATATATT
796032 ATTAATTTTT
Statistics
Matches: 25, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
14 12 0.48
15 13 0.52
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (16 bp):
AAAATAATATATATTT
Found at i:800134 original size:24 final size:24
Alignment explanation
Indices: 800102--800148 Score: 94
Period size: 24 Copynumber: 2.0 Consensus size: 24
800092 AATCTATTCT
800102 CTATACGAAAACAAAGTTTGGCAC
1 CTATACGAAAACAAAGTTTGGCAC
800126 CTATACGAAAACAAAGTTTGGCA
1 CTATACGAAAACAAAGTTTGGCA
800149 TCTTCGGCTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.43, C:0.19, G:0.17, T:0.21
Consensus pattern (24 bp):
CTATACGAAAACAAAGTTTGGCAC
Found at i:800372 original size:115 final size:114
Alignment explanation
Indices: 800166--800390 Score: 396
Period size: 115 Copynumber: 2.0 Consensus size: 114
800156 CTTTGACAGA
*
800166 GAATTTTCAACTAAATTCCCTTGTTGTTACTCTATGATTGTAATTTTTCAATCAATACGGAATTC
1 GAATTTTCAACTAAATTCACTTGTTGTTACTCTATGATTGTAATTTTTCAATCAATACGGAATTC
* *
800231 ATTCAAAGGAAGAAGAATAAATAAGCAAATAATTCATTAGTCTAAAAGG
66 ATTCAAAGGAAGAAGAATAAACAAGCAAATAAATCATTAGTCTAAAAGG
* *
800280 GAATTTTCAACTAAATTCACTTGTTGTTACTCTTTGATTGTTATTTTTTCAATCAATACGGAATT
1 GAATTTTCAACTAAATTCACTTGTTGTTACTCTATGATTG-TAATTTTTCAATCAATACGGAATT
800345 CATTCAAAGGAAGAAGAATAAACAAGCAAATAAATCATTAGTCTAA
65 CATTCAAAGGAAGAAGAATAAACAAGCAAATAAATCATTAGTCTAA
800391 CAAATACATA
Statistics
Matches: 105, Mismatches: 5, Indels: 1
0.95 0.05 0.01
Matches are distributed among these distances:
114 38 0.36
115 67 0.64
ACGTcount: A:0.39, C:0.13, G:0.12, T:0.35
Consensus pattern (114 bp):
GAATTTTCAACTAAATTCACTTGTTGTTACTCTATGATTGTAATTTTTCAATCAATACGGAATTC
ATTCAAAGGAAGAAGAATAAACAAGCAAATAAATCATTAGTCTAAAAGG
Found at i:801765 original size:22 final size:21
Alignment explanation
Indices: 801743--801804 Score: 63
Period size: 20 Copynumber: 2.9 Consensus size: 21
801733 AAATTTAATA
801743 AAAAAATTAAAATATAAACAT
1 AAAAAATTAAAATATAAACAT
* *
801764 AAAAAA-TAAATTATAATATATT
1 AAAAAATTAAAATATAA-ACA-T
*
801786 AAAAAATATATAATATAAA
1 AAAAAAT-TAAAATATAAA
801805 TTATTAATAT
Statistics
Matches: 33, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
20 9 0.27
21 8 0.24
22 7 0.21
23 1 0.03
24 8 0.24
ACGTcount: A:0.69, C:0.02, G:0.00, T:0.29
Consensus pattern (21 bp):
AAAAAATTAAAATATAAACAT
Found at i:801820 original size:32 final size:31
Alignment explanation
Indices: 801769--801864 Score: 103
Period size: 27 Copynumber: 3.2 Consensus size: 31
801759 AACATAAAAA
801769 ATAAATTATAATATATTAAAAAATATATAAT
1 ATAAATTATAATATATTAAAAAATATATAAT
*
801800 ATAAATTATTAATAT-TT-TAAAAT-T-T-AT
1 ATAAATTA-TAATATATTAAAAAATATATAAT
* *
801827 ATAAATTATAACATATTAAATAAATTATAAAAT
1 ATAAATTATAATATATTAAA-AAA-TATATAAT
801860 ATAAA
1 ATAAA
801865 AATATATTAA
Statistics
Matches: 53, Mismatches: 4, Indels: 14
0.75 0.06 0.20
Matches are distributed among these distances:
26 5 0.09
27 12 0.23
28 2 0.04
29 4 0.08
30 6 0.11
31 11 0.21
32 6 0.11
33 7 0.13
ACGTcount: A:0.58, C:0.01, G:0.00, T:0.41
Consensus pattern (31 bp):
ATAAATTATAATATATTAAAAAATATATAAT
Found at i:801879 original size:58 final size:57
Alignment explanation
Indices: 801769--801879 Score: 136
Period size: 58 Copynumber: 1.9 Consensus size: 57
801759 AACATAAAAA
* * * *
801769 ATAAATTATAATATATTAAAAAATATATAATATAAATTATTAATATTTTAAAATTTAT
1 ATAAATTATAACATATTAAAAAATATAAAATATAAA-TAATAATATTATAAAATTTAT
801827 ATAAATTATAACATATTAAATAAATTATAAAATATAAA-AAT-ATATTAATAAAA
1 ATAAATTATAACATATTAAA-AAA-TATAAAATATAAATAATAATATT-ATAAAA
801880 CATAAACACA
Statistics
Matches: 46, Mismatches: 4, Indels: 6
0.82 0.07 0.11
Matches are distributed among these distances:
57 5 0.11
58 26 0.57
59 3 0.07
60 12 0.26
ACGTcount: A:0.59, C:0.01, G:0.00, T:0.40
Consensus pattern (57 bp):
ATAAATTATAACATATTAAAAAATATAAAATATAAATAATAATATTATAAAATTTAT
Found at i:803085 original size:19 final size:21
Alignment explanation
Indices: 803033--803086 Score: 58
Period size: 19 Copynumber: 2.6 Consensus size: 21
803023 TATTTTTATT
*
803033 TAAAATTTAATTATAAAATATA
1 TAAATTTTAA-TATAAAATATA
*
803055 TAAATATTAATATAAAA-ATA
1 TAAATTTTAATATAAAATATA
*
803075 -ATATTTTAATAT
1 TAAATTTTAATAT
803087 TTTTTTCCAA
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
19 10 0.36
20 3 0.11
21 7 0.25
22 8 0.29
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (21 bp):
TAAATTTTAATATAAAATATA
Found at i:808805 original size:10 final size:10
Alignment explanation
Indices: 808790--808872 Score: 60
Period size: 10 Copynumber: 8.0 Consensus size: 10
808780 TTAAATTATT
808790 AATATATAAA
1 AATATATAAA
808800 AATATATAAA
1 AATATATAAA
*
808810 TATATAATAATTTA
1 AATAT-ATAA---A
* *
808824 AATAAATAAT
1 AATATATAAA
*
808834 AATATTTAAA
1 AATATATAAA
808844 AATATATAAA
1 AATATATAAA
* *
808854 TATA-ATATA
1 AATATATAAA
*
808863 ATTATATAAA
1 AATATATAAA
808873 TTTTTAAGAA
Statistics
Matches: 55, Mismatches: 13, Indels: 10
0.71 0.17 0.13
Matches are distributed among these distances:
9 6 0.11
10 37 0.67
11 4 0.07
13 4 0.07
14 4 0.07
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (10 bp):
AATATATAAA
Found at i:808825 original size:16 final size:18
Alignment explanation
Indices: 808790--808862 Score: 75
Period size: 18 Copynumber: 4.3 Consensus size: 18
808780 TTAAATTATT
*
808790 AATATATAAAAATATATA
1 AATATATAATAATATATA
808808 AATATATAATAAT-T-TA
1 AATATATAATAATATATA
* *
808824 AATAAATAATAATATTTA
1 AATATATAATAATATATA
*
808842 AAAATAT-ATAA-ATAT-
1 AATATATAATAATATATA
808857 AATATA
1 AATATA
808863 ATTATATAAA
Statistics
Matches: 47, Mismatches: 6, Indels: 7
0.78 0.10 0.12
Matches are distributed among these distances:
15 5 0.11
16 17 0.36
17 6 0.13
18 19 0.40
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (18 bp):
AATATATAATAATATATA
Found at i:808828 original size:20 final size:18
Alignment explanation
Indices: 808805--808875 Score: 69
Period size: 19 Copynumber: 3.9 Consensus size: 18
808795 ATAAAAATAT
808805 ATAAATATATAATAATTTAA
1 ATAAATATATAAT-ATTT-A
808825 ATAAATA-ATAATATTTA
1 ATAAATATATAATATTTA
*
808842 A-AAATATATAA-ATATA
1 ATAAATATATAATATTTA
808858 ATATAATTATATAA-ATTT
1 ATA-AA-TATATAATATTT
808876 TTAAGAATAA
Statistics
Matches: 45, Mismatches: 2, Indels: 9
0.80 0.04 0.16
Matches are distributed among these distances:
16 10 0.22
17 7 0.16
18 6 0.13
19 15 0.33
20 7 0.16
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (18 bp):
ATAAATATATAATATTTA
Found at i:808837 original size:19 final size:19
Alignment explanation
Indices: 808805--808903 Score: 73
Period size: 20 Copynumber: 5.1 Consensus size: 19
808795 ATAAAAATAT
808805 ATAAATATATAATAATTTAA
1 ATAAATATATAAT-ATTTAA
808825 ATAAATA-ATAATATTT-A
1 ATAAATATATAATATTTAA
*
808842 A-AAATATATAA-ATATAA
1 ATAAATATATAATATTTAA
* *
808859 TATAATTATATAAATTTTTAAGA
1 -ATAAATATAT-AATATTT-A-A
808882 ATAAATATA-AATGATTGTAA
1 ATAAATATATAAT-ATT-TAA
808902 AT
1 AT
808904 TAAGTAATAA
Statistics
Matches: 63, Mismatches: 6, Indels: 20
0.71 0.07 0.22
Matches are distributed among these distances:
16 8 0.13
17 7 0.11
18 5 0.08
19 12 0.19
20 15 0.24
21 5 0.08
22 10 0.16
23 1 0.02
ACGTcount: A:0.58, C:0.00, G:0.03, T:0.39
Consensus pattern (19 bp):
ATAAATATATAATATTTAA
Found at i:808844 original size:44 final size:43
Alignment explanation
Indices: 808789--808873 Score: 127
Period size: 44 Copynumber: 2.0 Consensus size: 43
808779 ATTAAATTAT
808789 TAATATATAAAAATATATAAATAT-ATAATAATTTAAATAAATAA
1 TAATATATAAAAATATATAAATATAAT-ATAA-TTAAATAAATAA
* *
808833 TAATATTTAAAAATATATAAATATAATATAATTATATAAAT
1 TAATATATAAAAATATATAAATATAATATAATTAAATAAAT
808874 TTTTAAGAAT
Statistics
Matches: 38, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
43 9 0.24
44 27 0.71
45 2 0.05
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (43 bp):
TAATATATAAAAATATATAAATATAATATAATTAAATAAATAA
Found at i:809055 original size:3 final size:3
Alignment explanation
Indices: 809047--809099 Score: 72
Period size: 3 Copynumber: 17.7 Consensus size: 3
809037 ATTTAAAAAT
* *
809047 TTA TTA TTA TTA TTA TCA TTA TTA TTA TTA TTA TTA TT- TTCA TTG
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT-A TTA
809092 TTA TTA TT
1 TTA TTA TT
809100 GTTGTCTCTA
Statistics
Matches: 44, Mismatches: 4, Indels: 4
0.85 0.08 0.08
Matches are distributed among these distances:
2 2 0.05
3 40 0.91
4 2 0.05
ACGTcount: A:0.28, C:0.04, G:0.02, T:0.66
Consensus pattern (3 bp):
TTA
Found at i:809754 original size:18 final size:17
Alignment explanation
Indices: 809727--809761 Score: 61
Period size: 18 Copynumber: 2.0 Consensus size: 17
809717 ATACACCATT
809727 TAAAAATTAAATATAAA
1 TAAAAATTAAATATAAA
809744 TAAAAACTTAAATATAAA
1 TAAAAA-TTAAATATAAA
809762 AAATCTAAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 6 0.35
18 11 0.65
ACGTcount: A:0.69, C:0.03, G:0.00, T:0.29
Consensus pattern (17 bp):
TAAAAATTAAATATAAA
Found at i:810003 original size:14 final size:13
Alignment explanation
Indices: 809980--810028 Score: 53
Period size: 13 Copynumber: 3.7 Consensus size: 13
809970 ATATTAGTTT
809980 AAAATAAAATTAA
1 AAAATAAAATTAA
809993 AAAATTAAAATTAA
1 AAAA-TAAAATTAA
** *
810007 AATCTAAATTTAA
1 AAAATAAAATTAA
*
810020 AATATAAAA
1 AAAATAAAA
810029 GACAAAAAAA
Statistics
Matches: 30, Mismatches: 5, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
13 19 0.63
14 11 0.37
ACGTcount: A:0.69, C:0.02, G:0.00, T:0.29
Consensus pattern (13 bp):
AAAATAAAATTAA
Found at i:810014 original size:7 final size:6
Alignment explanation
Indices: 809978--810028 Score: 50
Period size: 6 Copynumber: 8.0 Consensus size: 6
809968 ATATATTAGT
*
809978 TTAAAA -TAAAA TTAAAAAA TTAAAA TTAAAA TCTAAAT TTAAAA TATAAAA
1 TTAAAA TTAAAA TT--AAAA TTAAAA TTAAAA T-TAAAA TTAAAA T-TAAAA
810029 GACAAAAAAA
Statistics
Matches: 38, Mismatches: 2, Indels: 9
0.78 0.04 0.18
Matches are distributed among these distances:
5 5 0.13
6 17 0.45
7 10 0.26
8 6 0.16
ACGTcount: A:0.67, C:0.02, G:0.00, T:0.31
Consensus pattern (6 bp):
TTAAAA
Found at i:810132 original size:6 final size:6
Alignment explanation
Indices: 810121--810164 Score: 52
Period size: 6 Copynumber: 7.0 Consensus size: 6
810111 ATATATAATT
* *
810121 TAAAAA TAAAAA TAAAAT TAAAAA TTAAAAAA TACAAA TAAAAA
1 TAAAAA TAAAAA TAAAAA TAAAAA -T-AAAAA TAAAAA TAAAAA
810165 ATATGAAGTT
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
6 25 0.78
7 2 0.06
8 5 0.16
ACGTcount: A:0.77, C:0.02, G:0.00, T:0.20
Consensus pattern (6 bp):
TAAAAA
Found at i:810136 original size:26 final size:26
Alignment explanation
Indices: 810107--810168 Score: 72
Period size: 26 Copynumber: 2.4 Consensus size: 26
810097 AAATTAACAT
*
810107 TAAAATATATAATTTAAAAATAAAAA
1 TAAAATATATAATTAAAAAATAAAAA
* *
810133 TAAAAT-TAAAAATTAAAAAATACAAA
1 TAAAATAT-ATAATTAAAAAATAAAAA
*
810159 TAAAAAATAT
1 TAAAATATAT
810169 GAAGTTTTTA
Statistics
Matches: 29, Mismatches: 5, Indels: 4
0.76 0.13 0.11
Matches are distributed among these distances:
25 1 0.03
26 27 0.93
27 1 0.03
ACGTcount: A:0.71, C:0.02, G:0.00, T:0.27
Consensus pattern (26 bp):
TAAAATATATAATTAAAAAATAAAAA
Found at i:810139 original size:19 final size:19
Alignment explanation
Indices: 810105--810166 Score: 63
Period size: 20 Copynumber: 3.1 Consensus size: 19
810095 GCAAATTAAC
*
810105 ATTAAAATATATAATTTAAAA
1 ATTAAAA-ATA-AAATTAAAA
810126 A-TAAAAATAAAATTAAAA
1 ATTAAAAATAAAATTAAAA
*
810144 ATTAAAAAATACAAATAAAAA
1 ATT-AAAAATA-AAATTAAAA
810165 AT
1 AT
810167 ATGAAGTTTT
Statistics
Matches: 36, Mismatches: 2, Indels: 6
0.82 0.05 0.14
Matches are distributed among these distances:
18 9 0.25
19 4 0.11
20 12 0.33
21 11 0.31
ACGTcount: A:0.71, C:0.02, G:0.00, T:0.27
Consensus pattern (19 bp):
ATTAAAAATAAAATTAAAA
Found at i:810142 original size:12 final size:13
Alignment explanation
Indices: 810105--810167 Score: 56
Period size: 14 Copynumber: 4.8 Consensus size: 13
810095 GCAAATTAAC
*
810105 ATTAAAATATATAA
1 ATTAAAA-ATAAAA
*
810119 TTTAAAAATAAAA
1 ATTAAAAATAAAA
*
810132 A-TAAAATTAAAA
1 ATTAAAAATAAAA
*
810144 ATTAAAAAATACAA
1 ATT-AAAAATAAAA
*
810158 ATAAAAAATA
1 ATTAAAAATA
810168 TGAAGTTTTT
Statistics
Matches: 40, Mismatches: 7, Indels: 5
0.77 0.13 0.10
Matches are distributed among these distances:
12 11 0.28
13 13 0.32
14 16 0.40
ACGTcount: A:0.71, C:0.02, G:0.00, T:0.27
Consensus pattern (13 bp):
ATTAAAAATAAAA
Found at i:810162 original size:13 final size:13
Alignment explanation
Indices: 810122--810167 Score: 58
Period size: 12 Copynumber: 3.5 Consensus size: 13
810112 TATATAATTT
810122 AAAAATAAAAAT-
1 AAAAATAAAAATA
*
810134 AAAATTAAAAATTA
1 AAAAATAAAAA-TA
*
810148 AAAAATACAAATA
1 AAAAATAAAAATA
810161 AAAAATA
1 AAAAATA
810168 TGAAGTTTTT
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
12 10 0.34
13 10 0.34
14 9 0.31
ACGTcount: A:0.78, C:0.02, G:0.00, T:0.20
Consensus pattern (13 bp):
AAAAATAAAAATA
Found at i:810329 original size:26 final size:27
Alignment explanation
Indices: 810300--810359 Score: 72
Period size: 26 Copynumber: 2.3 Consensus size: 27
810290 TAAAAGATTT
*
810300 TTAATATTTATA-AACATTTAA-TTAAA
1 TTAATATTCATATAA-ATTTAAGTTAAA
*
810326 TTAATAATCATATAAATTTAAGTTAAA
1 TTAATATTCATATAAATTTAAGTTAAA
810353 TT-ATATT
1 TTAATATT
810360 AAATAATTAT
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
26 20 0.69
27 9 0.31
ACGTcount: A:0.48, C:0.03, G:0.02, T:0.47
Consensus pattern (27 bp):
TTAATATTCATATAAATTTAAGTTAAA
Found at i:811302 original size:23 final size:23
Alignment explanation
Indices: 811271--811329 Score: 66
Period size: 23 Copynumber: 2.5 Consensus size: 23
811261 ACACGCCTAT
*
811271 AACATTAAAAATTAAT-TAAAATAA
1 AACA-TAAAAATAAATATAAAAT-A
* *
811295 AATATAAAAATAAATATAACATA
1 AACATAAAAATAAATATAAAATA
811318 AACATAAAAATA
1 AACATAAAAATA
811330 TAAAAAAAAT
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
23 22 0.73
24 8 0.27
ACGTcount: A:0.69, C:0.05, G:0.00, T:0.25
Consensus pattern (23 bp):
AACATAAAAATAAATATAAAATA
Found at i:811347 original size:19 final size:19
Alignment explanation
Indices: 811325--811364 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
811315 ATAAACATAA
811325 AAATATAAAAAAAATTTAT
1 AAATATAAAAAAAATTTAT
* * *
811344 AAATATTATATAAATTTAT
1 AAATATAAAAAAAATTTAT
811363 AA
1 AA
811365 TATTTTAAAT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (19 bp):
AAATATAAAAAAAATTTAT
Found at i:811396 original size:23 final size:23
Alignment explanation
Indices: 811370--811414 Score: 72
Period size: 23 Copynumber: 2.0 Consensus size: 23
811360 TATAATATTT
* *
811370 TAAATAATAAAAATTATGAATAA
1 TAAATAATAAAAAATATAAATAA
811393 TAAATAATAAAAAATATAAATA
1 TAAATAATAAAAAATATAAATA
811415 TGTATTTTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.69, C:0.00, G:0.02, T:0.29
Consensus pattern (23 bp):
TAAATAATAAAAAATATAAATAA
Found at i:812524 original size:40 final size:40
Alignment explanation
Indices: 812475--812552 Score: 120
Period size: 40 Copynumber: 1.9 Consensus size: 40
812465 TATATACACG
* * * *
812475 ATAAGTATAGATAGATAGATAATAAATAATAATAATAAAT
1 ATAAATATAGATAAATAGATAATAAAGAACAATAATAAAT
812515 ATAAATATAGATAAATAGATAATAAAGAACAATAATAA
1 ATAAATATAGATAAATAGATAATAAAGAACAATAATAA
812553 TAATAAGAAT
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
40 34 1.00
ACGTcount: A:0.63, C:0.01, G:0.09, T:0.27
Consensus pattern (40 bp):
ATAAATATAGATAAATAGATAATAAAGAACAATAATAAAT
Found at i:812880 original size:3 final size:3
Alignment explanation
Indices: 812872--812946 Score: 59
Period size: 3 Copynumber: 24.7 Consensus size: 3
812862 AGATAGATAG
*
812872 ATA ATA ATA ATA ATA ATA ATA ATA A-A TATA A-A TATA GATAA ATA GACA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA -ATA ATA -ATA -AT-A ATA -ATA
*
812920 ATA A-A A-A ACA ATA ATA ATA ATA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
812947 TTTTTTGACC
Statistics
Matches: 61, Mismatches: 4, Indels: 14
0.77 0.05 0.18
Matches are distributed among these distances:
2 6 0.10
3 46 0.75
4 8 0.13
5 1 0.02
ACGTcount: A:0.67, C:0.03, G:0.03, T:0.28
Consensus pattern (3 bp):
ATA
Found at i:813118 original size:15 final size:16
Alignment explanation
Indices: 813082--813121 Score: 55
Period size: 15 Copynumber: 2.5 Consensus size: 16
813072 TTTAATATTT
*
813082 ATAAAATTTTTAATTAA
1 ATAAAA-TTATAATTAA
813099 ATAAAATTATAATT-A
1 ATAAAATTATAATTAA
813114 ATAAAATT
1 ATAAAATT
813122 TATTTAAAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 9 0.41
16 7 0.32
17 6 0.27
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.42
Consensus pattern (16 bp):
ATAAAATTATAATTAA
Found at i:813124 original size:16 final size:17
Alignment explanation
Indices: 813082--813124 Score: 63
Period size: 16 Copynumber: 2.6 Consensus size: 17
813072 TTTAATATTT
*
813082 ATAAAATTTTTAATTAA
1 ATAAAATTTATAATTAA
813099 ATAAAA-TTATAATT-A
1 ATAAAATTTATAATTAA
813114 ATAAAATTTAT
1 ATAAAATTTAT
813125 TTAAAAATAA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
15 7 0.29
16 11 0.46
17 6 0.25
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (17 bp):
ATAAAATTTATAATTAA
Found at i:813183 original size:18 final size:17
Alignment explanation
Indices: 813157--813192 Score: 54
Period size: 18 Copynumber: 2.1 Consensus size: 17
813147 ATAAATACAT
*
813157 AAATTTTATACTAAATTA
1 AAATATTATA-TAAATTA
813175 AAATATTATATAAATTA
1 AAATATTATATAAATTA
813192 A
1 A
813193 GTAAAATAAG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 8 0.47
18 9 0.53
ACGTcount: A:0.56, C:0.03, G:0.00, T:0.42
Consensus pattern (17 bp):
AAATATTATATAAATTA
Found at i:813675 original size:15 final size:15
Alignment explanation
Indices: 813638--813675 Score: 58
Period size: 15 Copynumber: 2.5 Consensus size: 15
813628 AATGCATAAA
*
813638 TTTTTTCTCTTTTTC
1 TTTTTTTTCTTTTTC
*
813653 TTTCTTTTCTTTTTC
1 TTTTTTTTCTTTTTC
813668 TTTTTTTT
1 TTTTTTTT
813676 TGTAAATAAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.00, C:0.16, G:0.00, T:0.84
Consensus pattern (15 bp):
TTTTTTTTCTTTTTC
Found at i:814098 original size:10 final size:11
Alignment explanation
Indices: 814050--814099 Score: 50
Period size: 10 Copynumber: 4.5 Consensus size: 11
814040 AAATATACGA
814050 AATATAAAAAT
1 AATATAAAAAT
*
814061 ATGACATAAAAAT
1 A--ATATAAAAAT
814074 AAT-TAAAATAT
1 AATATAAAA-AT
814085 AATATAAAAA-
1 AATATAAAAAT
814095 AATAT
1 AATAT
814100 GATATGAATA
Statistics
Matches: 33, Mismatches: 2, Indels: 9
0.75 0.05 0.20
Matches are distributed among these distances:
10 10 0.30
11 8 0.24
12 5 0.15
13 10 0.30
ACGTcount: A:0.68, C:0.02, G:0.02, T:0.28
Consensus pattern (11 bp):
AATATAAAAAT
Found at i:814109 original size:21 final size:20
Alignment explanation
Indices: 814081--814119 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 20
814071 AATAATTAAA
814081 ATATAATATAAAAAAATATG
1 ATATAATATAAAAAAATATG
*
814101 ATATGAATATAATAAAATA
1 ATAT-AATATAAAAAAATA
814120 AAAATATATA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 4 0.24
21 13 0.76
ACGTcount: A:0.64, C:0.00, G:0.05, T:0.31
Consensus pattern (20 bp):
ATATAATATAAAAAAATATG
Found at i:814112 original size:26 final size:26
Alignment explanation
Indices: 814080--814130 Score: 77
Period size: 26 Copynumber: 2.0 Consensus size: 26
814070 AAATAATTAA
*
814080 AATATAATATAA-AAAAATATGATATG
1 AATATAATAAAATAAAAATAT-ATATG
814106 AATATAATAAAATAAAAATATATAT
1 AATATAATAAAATAAAAATATATAT
814131 TTATAAAATA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
26 15 0.65
27 8 0.35
ACGTcount: A:0.65, C:0.00, G:0.04, T:0.31
Consensus pattern (26 bp):
AATATAATAAAATAAAAATATATATG
Found at i:814126 original size:37 final size:37
Alignment explanation
Indices: 814055--814127 Score: 94
Period size: 37 Copynumber: 2.0 Consensus size: 37
814045 TACGAAATAT
*
814055 AAAAATATGACATAAAAATAATTAAAATATAATATAA
1 AAAAATATGACATAAAAATAATTAAAATAAAATATAA
* * *
814092 AAAAATATGATATGAATATAA-TAAAATAAAAATATA
1 AAAAATATGACATAAAAATAATTAAAAT-AAAATATA
814128 TATTTATAAA
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
36 6 0.19
37 25 0.81
ACGTcount: A:0.67, C:0.01, G:0.04, T:0.27
Consensus pattern (37 bp):
AAAAATATGACATAAAAATAATTAAAATAAAATATAA
Found at i:814234 original size:18 final size:19
Alignment explanation
Indices: 814211--814246 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
814201 CATTAACTTT
814211 TCCTTTTATTT-TTTTCTC
1 TCCTTTTATTTATTTTCTC
*
814229 TCCTTTTCTTTATTTTCT
1 TCCTTTTATTTATTTTCT
814247 TTTTTCTTTC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 10 0.62
19 6 0.38
ACGTcount: A:0.06, C:0.22, G:0.00, T:0.72
Consensus pattern (19 bp):
TCCTTTTATTTATTTTCTC
Found at i:814462 original size:18 final size:17
Alignment explanation
Indices: 814431--814467 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 17
814421 AAAACATAAC
*
814431 ATGAAAATAATATATAT
1 ATGAAAATAATATACAT
814448 ATGAAAATGAATATACAT
1 ATGAAAAT-AATATACAT
814466 AT
1 AT
814468 ATATAAAAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 8 0.44
18 10 0.56
ACGTcount: A:0.57, C:0.03, G:0.08, T:0.32
Consensus pattern (17 bp):
ATGAAAATAATATACAT
Found at i:814591 original size:4 final size:4
Alignment explanation
Indices: 814582--814644 Score: 58
Period size: 4 Copynumber: 15.8 Consensus size: 4
814572 TTTTTCTCTT
* * *
814582 TTTC TTTC TTTC TTTC TTTC TTTTT TTTC TTT- TTT- TTCTC CTTC CTTC
1 TTTC TTTC TTTC TTTC TTTC -TTTC TTTC TTTC TTTC TT-TC TTTC TTTC
*
814630 TTTC TTTC TCTC TTT
1 TTTC TTTC TTTC TTT
814645 TTCCTCCCAA
Statistics
Matches: 50, Mismatches: 6, Indels: 6
0.81 0.10 0.10
Matches are distributed among these distances:
3 5 0.10
4 41 0.82
5 4 0.08
ACGTcount: A:0.00, C:0.25, G:0.00, T:0.75
Consensus pattern (4 bp):
TTTC
Found at i:814614 original size:8 final size:8
Alignment explanation
Indices: 814571--814617 Score: 58
Period size: 8 Copynumber: 5.8 Consensus size: 8
814561 AAAATGTAAA
814571 TTTTTTCT
1 TTTTTTCT
*
814579 CTTTTTCT
1 TTTTTTCT
*
814587 TTCTTTCT
1 TTTTTTCT
*
814595 TTCTTTCTT
1 TTTTTTC-T
814604 TTTTTTCT
1 TTTTTTCT
814612 TTTTTT
1 TTTTTT
814618 TCTCCTTCCT
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
8 27 0.79
9 7 0.21
ACGTcount: A:0.00, C:0.17, G:0.00, T:0.83
Consensus pattern (8 bp):
TTTTTTCT
Found at i:814974 original size:39 final size:41
Alignment explanation
Indices: 814924--815022 Score: 100
Period size: 40 Copynumber: 2.5 Consensus size: 41
814914 GCATAATACG
814924 AATAT-ATATATATATAAAT-ATACATAAA-ATAAAATAAAT
1 AATATAATATATATATAAATAATACATAAATATAAAA-AAAT
* * * **
814963 TAT-TAATATATAAATATATAATATTTAAATATAAAAAAAT
1 AATATAATATATATATAAATAATACATAAATATAAAAAAAT
815003 AATATAA-ATATCATATAAAT
1 AATATAATATAT-ATATAAAT
815023 TTTTTTCTTC
Statistics
Matches: 47, Mismatches: 8, Indels: 8
0.75 0.13 0.13
Matches are distributed among these distances:
38 1 0.02
39 14 0.30
40 17 0.36
41 15 0.32
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.36
Consensus pattern (41 bp):
AATATAATATATATATAAATAATACATAAATATAAAAAAAT
Found at i:814980 original size:8 final size:8
Alignment explanation
Indices: 814924--814995 Score: 58
Period size: 8 Copynumber: 8.8 Consensus size: 8
814914 GCATAATACG
814924 AATATATA
1 AATATATA
*
814932 TATATATA
1 AATATATA
814940 AATATACATAA
1 AATAT--AT-A
*
814951 AATAAAATA
1 AAT-ATATA
*
814960 AAT-TATT
1 AATATATA
814967 AATATATA
1 AATATATA
814975 AATATAT-
1 AATATATA
*
814982 AATATTTA
1 AATATATA
814990 AATATA
1 AATATA
814996 AAAAAATAAT
Statistics
Matches: 50, Mismatches: 8, Indels: 12
0.71 0.11 0.17
Matches are distributed among these distances:
7 11 0.22
8 26 0.52
9 4 0.08
10 4 0.08
11 4 0.08
12 1 0.02
ACGTcount: A:0.60, C:0.01, G:0.00, T:0.39
Consensus pattern (8 bp):
AATATATA
Found at i:814993 original size:15 final size:15
Alignment explanation
Indices: 814924--814995 Score: 62
Period size: 15 Copynumber: 4.9 Consensus size: 15
814914 GCATAATACG
*
814924 AATATATATATATAT
1 AATATATAAATATAT
*
814939 AA-ATATACATA-A-
1 AATATATAAATATAT
*
814951 AATAAAATAAAT-TATT
1 AAT-ATATAAATATA-T
814967 AATATATAAATATAT
1 AATATATAAATATAT
*
814982 AATATTTAAATATA
1 AATATATAAATATA
814996 AAAAAATAAT
Statistics
Matches: 46, Mismatches: 5, Indels: 12
0.73 0.08 0.19
Matches are distributed among these distances:
12 2 0.04
13 1 0.02
14 15 0.33
15 23 0.50
16 5 0.11
ACGTcount: A:0.60, C:0.01, G:0.00, T:0.39
Consensus pattern (15 bp):
AATATATAAATATAT
Found at i:814994 original size:21 final size:22
Alignment explanation
Indices: 814965--815007 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 22
814955 AAATAAATTA
* *
814965 TTAATATATAAATATATAATAT
1 TTAATATATAAAAAAATAATAT
814987 TTAA-ATATAAAAAAATAATAT
1 TTAATATATAAAAAAATAATAT
815008 AAATATCATA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
21 15 0.79
22 4 0.21
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (22 bp):
TTAATATATAAAAAAATAATAT
Found at i:824520 original size:2 final size:2
Alignment explanation
Indices: 824513--824551 Score: 60
Period size: 2 Copynumber: 19.5 Consensus size: 2
824503 AGCATTTTTA
* *
824513 AT AT AT AT GT AT AT AT AT AT AT AT AT AT AT GT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
824552 AACGAATATG
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.46, C:0.00, G:0.05, T:0.49
Consensus pattern (2 bp):
AT
Found at i:826436 original size:2 final size:2
Alignment explanation
Indices: 826429--826454 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
826419 AAAATTTTAA
826429 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
826455 CAAGTAAAGA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:830175 original size:21 final size:21
Alignment explanation
Indices: 830146--830192 Score: 62
Period size: 21 Copynumber: 2.3 Consensus size: 21
830136 TATAAATTTT
*
830146 ATATTTAAAT-TTAATTATAAA
1 ATATATAAATATTAA-TATAAA
830167 ATATATAAATATTAATATAAA
1 ATATATAAATATTAATATAAA
830188 A-ATAT
1 ATATAT
830193 TTTTTATTAA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
20 4 0.17
21 16 0.67
22 4 0.17
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (21 bp):
ATATATAAATATTAATATAAA
Found at i:831068 original size:19 final size:19
Alignment explanation
Indices: 831044--831083 Score: 55
Period size: 19 Copynumber: 2.1 Consensus size: 19
831034 ATTAGTATAA
*
831044 TATAAGTTTTCATATTT-TT
1 TATAAGATTT-ATATTTGTT
831063 TATAAGATTTATATTTGTT
1 TATAAGATTTATATTTGTT
831082 TA
1 TA
831084 ATTTAATTAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 6 0.32
19 13 0.68
ACGTcount: A:0.30, C:0.03, G:0.07, T:0.60
Consensus pattern (19 bp):
TATAAGATTTATATTTGTT
Found at i:831727 original size:44 final size:44
Alignment explanation
Indices: 831671--831757 Score: 147
Period size: 44 Copynumber: 2.0 Consensus size: 44
831661 TAAATTATTC
* * *
831671 ATAATTATTAAATATAATATCATCATGGATAACATTTTTATTTG
1 ATAATTAATAAATATAATAGCATCATGGACAACATTTTTATTTG
831715 ATAATTAATAAATATAATAGCATCATGGACAACATTTTTATTT
1 ATAATTAATAAATATAATAGCATCATGGACAACATTTTTATTT
831758 AAAAAAAAGA
Statistics
Matches: 40, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
44 40 1.00
ACGTcount: A:0.43, C:0.08, G:0.07, T:0.43
Consensus pattern (44 bp):
ATAATTAATAAATATAATAGCATCATGGACAACATTTTTATTTG
Found at i:833143 original size:3 final size:3
Alignment explanation
Indices: 833137--833169 Score: 57
Period size: 3 Copynumber: 11.0 Consensus size: 3
833127 TTTCCTTTCA
*
833137 ATT ATT ATT ATT ATT ATT ATT TTT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
833170 TTGCATTTTA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (3 bp):
ATT
Found at i:834448 original size:22 final size:22
Alignment explanation
Indices: 834413--834463 Score: 84
Period size: 22 Copynumber: 2.3 Consensus size: 22
834403 TCGGATGCAA
*
834413 CGTCAATAACCTTAGCAAACCT
1 CGTCAACAACCTTAGCAAACCT
*
834435 CGTCAACAATCTTAGCAAACCT
1 CGTCAACAACCTTAGCAAACCT
834457 CGTCAAC
1 CGTCAAC
834464 TTTGTTGGAT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
22 27 1.00
ACGTcount: A:0.35, C:0.33, G:0.10, T:0.22
Consensus pattern (22 bp):
CGTCAACAACCTTAGCAAACCT
Found at i:840917 original size:4 final size:4
Alignment explanation
Indices: 840908--840938 Score: 62
Period size: 4 Copynumber: 7.8 Consensus size: 4
840898 TCGGTTGCCT
840908 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATA
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATA
840939 TATATATATA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 27 1.00
ACGTcount: A:0.52, C:0.23, G:0.00, T:0.26
Consensus pattern (4 bp):
ATAC
Done.