Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr12
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: 101062743
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 4026412 characters in sequence are not A, C, G, or T
File 150 of 297
Found at i:51636667 original size:115 final size:115
Alignment explanation
Indices: 51636465--51636692 Score: 402
Period size: 115 Copynumber: 2.0 Consensus size: 115
51636455 ATGTGATACC
* *
51636465 ATGGAAATTGATCTTGGTGGTGATGGAAAAGAGGAGAGGAAACAATGATTTGATGGTCCAGGGCC
1 ATGGAAATTGATCATGGTGGTGATGGAAAAGAGGAGAAGAAACAATGATTTGATGGTCCAGGGCC
** *
51636530 CGATCATGGGGACAGTGTCTACTCATGCTTCCTTGTGTTAGCCTTAATTG
66 CGATCATACGGACAGTGTCTACTCATGCTGCCTTGTGTTAGCCTTAATTG
*
51636580 ATGGAAGTTGATCATGGTGGTGATGGAAAAGAGGAGAAGAAACAATGATTTGATGGTCCAGGGCC
1 ATGGAAATTGATCATGGTGGTGATGGAAAAGAGGAGAAGAAACAATGATTTGATGGTCCAGGGCC
51636645 CGATCATACGGACAGTGTCTACTCATGCTGCCTTGTGTTAGCCTTAAT
66 CGATCATACGGACAGTGTCTACTCATGCTGCCTTGTGTTAGCCTTAAT
51636693 AGATCTACCC
Statistics
Matches: 107, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
115 107 1.00
ACGTcount: A:0.27, C:0.15, G:0.30, T:0.28
Consensus pattern (115 bp):
ATGGAAATTGATCATGGTGGTGATGGAAAAGAGGAGAAGAAACAATGATTTGATGGTCCAGGGCC
CGATCATACGGACAGTGTCTACTCATGCTGCCTTGTGTTAGCCTTAATTG
Found at i:51642260 original size:34 final size:34
Alignment explanation
Indices: 51642221--51642289 Score: 120
Period size: 34 Copynumber: 2.0 Consensus size: 34
51642211 TATTAAAAAC
51642221 GAAAATAAAATGAACTAAGAATGTTGTATTTAAG
1 GAAAATAAAATGAACTAAGAATGTTGTATTTAAG
* *
51642255 GAAAATAAAATGAATTAAGTATGTTGTATTTAAG
1 GAAAATAAAATGAACTAAGAATGTTGTATTTAAG
51642289 G
1 G
51642290 TGACAATGAC
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
34 33 1.00
ACGTcount: A:0.48, C:0.01, G:0.19, T:0.32
Consensus pattern (34 bp):
GAAAATAAAATGAACTAAGAATGTTGTATTTAAG
Found at i:51647413 original size:22 final size:23
Alignment explanation
Indices: 51647385--51647431 Score: 69
Period size: 22 Copynumber: 2.1 Consensus size: 23
51647375 CACATTAGCG
51647385 AACAAATATATATAAATA-AATA
1 AACAAATATATATAAATATAATA
* *
51647407 AACAAATATTTATATATATAATA
1 AACAAATATATATAAATATAATA
51647430 AA
1 AA
51647432 ATAAATTGAA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
22 16 0.73
23 6 0.27
ACGTcount: A:0.64, C:0.04, G:0.00, T:0.32
Consensus pattern (23 bp):
AACAAATATATATAAATATAATA
Found at i:51649262 original size:22 final size:21
Alignment explanation
Indices: 51649235--51649285 Score: 57
Period size: 21 Copynumber: 2.4 Consensus size: 21
51649225 ACAAAATGAT
*
51649235 AAAATATTAGTGTCAATTTCCA
1 AAAATATTAGAG-CAATTTCCA
* * *
51649257 AAAATAGTAGAGGATTTTCCA
1 AAAATATTAGAGCAATTTCCA
51649278 AAAATATT
1 AAAATATT
51649286 CTCATGTAAT
Statistics
Matches: 24, Mismatches: 5, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
21 14 0.58
22 10 0.42
ACGTcount: A:0.45, C:0.10, G:0.12, T:0.33
Consensus pattern (21 bp):
AAAATATTAGAGCAATTTCCA
Found at i:51655614 original size:30 final size:30
Alignment explanation
Indices: 51655580--51655639 Score: 84
Period size: 30 Copynumber: 2.0 Consensus size: 30
51655570 ACTTAACAAG
51655580 CAAATACCTCTAAAATAATAAAAAAATTAA
1 CAAATACCTCTAAAATAATAAAAAAATTAA
* * * *
51655610 CAAATGCCTTTACAATAATAACAAAATTAA
1 CAAATACCTCTAAAATAATAAAAAAATTAA
51655640 TAATAAAATA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.58, C:0.15, G:0.02, T:0.25
Consensus pattern (30 bp):
CAAATACCTCTAAAATAATAAAAAAATTAA
Found at i:51655695 original size:14 final size:14
Alignment explanation
Indices: 51655676--51655702 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
51655666 CAAACAATAA
51655676 CAACATAATAGTAG
1 CAACATAATAGTAG
51655690 CAACATAATAGTA
1 CAACATAATAGTA
51655703 AAATAGTAGC
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:0.52, C:0.15, G:0.11, T:0.22
Consensus pattern (14 bp):
CAACATAATAGTAG
Found at i:51664654 original size:32 final size:32
Alignment explanation
Indices: 51664612--51664691 Score: 151
Period size: 32 Copynumber: 2.5 Consensus size: 32
51664602 AATTACTTTC
*
51664612 TTAAGATTTAATTAATAAAAATAAACTATTTT
1 TTAAAATTTAATTAATAAAAATAAACTATTTT
51664644 TTAAAATTTAATTAATAAAAATAAACTATTTT
1 TTAAAATTTAATTAATAAAAATAAACTATTTT
51664676 TTAAAATTTAATTAAT
1 TTAAAATTTAATTAAT
51664692 TAATTATTTT
Statistics
Matches: 47, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
32 47 1.00
ACGTcount: A:0.51, C:0.03, G:0.01, T:0.45
Consensus pattern (32 bp):
TTAAAATTTAATTAATAAAAATAAACTATTTT
Found at i:51665600 original size:13 final size:13
Alignment explanation
Indices: 51665582--51665606 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
51665572 ATGTGACAAC
51665582 TGTTTTATTTTTT
1 TGTTTTATTTTTT
51665595 TGTTTTATTTTT
1 TGTTTTATTTTT
51665607 ACTTTTTATT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.08, C:0.00, G:0.08, T:0.84
Consensus pattern (13 bp):
TGTTTTATTTTTT
Found at i:51670616 original size:2 final size:2
Alignment explanation
Indices: 51670609--51670657 Score: 98
Period size: 2 Copynumber: 24.5 Consensus size: 2
51670599 TTTTACAGAA
51670609 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
51670651 TC TC TC T
1 TC TC TC T
51670658 TATTTAAGGT
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 47 1.00
ACGTcount: A:0.00, C:0.49, G:0.00, T:0.51
Consensus pattern (2 bp):
TC
Found at i:51671674 original size:21 final size:21
Alignment explanation
Indices: 51671649--51671692 Score: 79
Period size: 21 Copynumber: 2.1 Consensus size: 21
51671639 TATGAAGTAC
51671649 ATGTGGATTGTCATATAGGTT
1 ATGTGGATTGTCATATAGGTT
*
51671670 ATGTGGATTGTCATGTAGGTT
1 ATGTGGATTGTCATATAGGTT
51671691 AT
1 AT
51671693 CATACTAAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.23, C:0.05, G:0.30, T:0.43
Consensus pattern (21 bp):
ATGTGGATTGTCATATAGGTT
Found at i:51675413 original size:6 final size:6
Alignment explanation
Indices: 51675398--51675449 Score: 51
Period size: 6 Copynumber: 9.3 Consensus size: 6
51675388 AACACAATAT
*
51675398 ATTTTA ATTTTT ATTTTA A--TTA ATTTT- -TTATT- ATTTTA ATTTTA
1 ATTTTA ATTTTA ATTTTA ATTTTA ATTTTA ATT-TTA ATTTTA ATTTTA
51675442 ATTTTA AT
1 ATTTTA AT
51675450 ATAATTATAA
Statistics
Matches: 39, Mismatches: 2, Indels: 10
0.76 0.04 0.20
Matches are distributed among these distances:
4 6 0.15
5 4 0.10
6 29 0.74
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (6 bp):
ATTTTA
Found at i:51686877 original size:52 final size:48
Alignment explanation
Indices: 51686858--51687060 Score: 265
Period size: 46 Copynumber: 4.3 Consensus size: 48
51686848 TGACAAGTGG
* *
51686858 AAAGTGATAAGTAATAGCTTCGGCTATACTTATCTGATCAAGTGAC--
1 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAA
51686904 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTGA
1 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGAC-A---A
* *
51686956 AAAGTGATAAGTGATAGCTTCGGCTATACTTATCTGATCAAGAGAC--
1 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAA
** *
51687002 AAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGAGAC--
1 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAA
51687048 AAAGTGATAAGTG
1 AAAGTGATAAGTG
51687061 GCTACACTTA
Statistics
Matches: 144, Mismatches: 7, Indels: 12
0.88 0.04 0.07
Matches are distributed among these distances:
46 100 0.69
52 44 0.31
ACGTcount: A:0.36, C:0.14, G:0.22, T:0.28
Consensus pattern (48 bp):
AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAA
Found at i:51686912 original size:98 final size:98
Alignment explanation
Indices: 51686792--51687060 Score: 457
Period size: 98 Copynumber: 2.7 Consensus size: 98
51686782 TTTGAGTACT
*
51686792 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTG
1 TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTG
*
51686857 GAAAGTGATAAGTAATAGCTTCGGCTATACTTA
66 AAAAGTGATAAGTAATAGCTTCGGCTATACTTA
**
51686890 TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTG
1 TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTG
*
51686955 AAAAGTGATAAGTGATAGCTTCGGCTATACTTA
66 AAAAGTGATAAGTAATAGCTTCGGCTATACTTA
* *
51686988 TCTGATCAAGAGACAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGAGACAAAGT
1 TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGTGAC-AAGT
*
51687053 GATAAGTG
65 GAAAAGTG
51687061 GCTACACTTA
Statistics
Matches: 160, Mismatches: 10, Indels: 1
0.94 0.06 0.01
Matches are distributed among these distances:
98 149 0.93
99 11 0.07
ACGTcount: A:0.35, C:0.14, G:0.22, T:0.28
Consensus pattern (98 bp):
TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTG
AAAAGTGATAAGTAATAGCTTCGGCTATACTTA
Found at i:51687068 original size:37 final size:37
Alignment explanation
Indices: 51687024--51687169 Score: 242
Period size: 37 Copynumber: 4.0 Consensus size: 37
51687014 GATAGCTTTA
*
51687024 GCTACACTTATCTGATCAAGAGACAAAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
51687061 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
*
51687098 GCTACACTTATCTGATCAAGAAACAAAGTGATAGGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
**
51687135 GCTACACTTATCTGATC-AGGGAC-AAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
51687170 ATCATACGTA
Statistics
Matches: 104, Mismatches: 5, Indels: 2
0.94 0.05 0.02
Matches are distributed among these distances:
35 11 0.11
36 4 0.04
37 89 0.86
ACGTcount: A:0.37, C:0.16, G:0.22, T:0.25
Consensus pattern (37 bp):
GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
Found at i:51696317 original size:92 final size:92
Alignment explanation
Indices: 51696127--51696324 Score: 242
Period size: 91 Copynumber: 2.2 Consensus size: 92
51696117 ATAACTCTAA
*
51696127 TTTGCACTCAATTGAATATTTAAACTTTTTAAAATACATAAAAAAGATTGTCAAACTTTTTCAAA
1 TTTGCACTCAATTGAATATTTAAACTTGTTAAAATACATAAAAAAGATTGTCAAACTTTTTCAAA
*
51696192 AGAAGCAATTAAGCCCCTTCTTCTTTT
66 AGAAGCAATTAAGCCCCTGCTTCTTTT
** * *
51696219 TTTGCACTCAATTGGGTATTTAAAC-TGTTAAAATATATAAAAAAGACCTT-T-AGACTTTTTCA
1 TTTGCACTCAATTGAATATTTAAACTTGTTAAAATACATAAAAAAGA--TTGTCAAACTTTTTCA
* * *
51696281 AAA-ATAGTAATTAAGGCCCTGCTTTTTTT
64 AAAGA-AGCAATTAAGCCCCTGCTTCTTTT
*
51696310 TATTGCACTTAATTG
1 T-TTGCACTCAATTG
51696325 TCAAAATGCA
Statistics
Matches: 92, Mismatches: 10, Indels: 8
0.84 0.09 0.07
Matches are distributed among these distances:
90 1 0.01
91 53 0.58
92 36 0.39
93 2 0.02
ACGTcount: A:0.36, C:0.15, G:0.10, T:0.39
Consensus pattern (92 bp):
TTTGCACTCAATTGAATATTTAAACTTGTTAAAATACATAAAAAAGATTGTCAAACTTTTTCAAA
AGAAGCAATTAAGCCCCTGCTTCTTTT
Found at i:51696521 original size:29 final size:28
Alignment explanation
Indices: 51696445--51696553 Score: 80
Period size: 29 Copynumber: 3.8 Consensus size: 28
51696435 GACATGTAGC
* *
51696445 AAAAAATTATAAA-AATTATTAAATTTTA-
1 AAAAAA-TATAAATAA-TATAAAATGTTAT
* *
51696473 ATAAAAATATAAATAATATAGAATGTTGT
1 A-AAAAATATAAATAATATAAAATGTTAT
** *
51696502 AAAATAATATAAATTTTATAAAATTTTAT
1 AAAA-AATATAAATAATATAAAATGTTAT
51696531 AAAAAATCATAAA-AATCATAAAA
1 AAAAAAT-ATAAATAAT-ATAAAA
51696554 AAATTTATAA
Statistics
Matches: 64, Mismatches: 11, Indels: 11
0.74 0.13 0.13
Matches are distributed among these distances:
28 22 0.34
29 42 0.66
ACGTcount: A:0.61, C:0.02, G:0.03, T:0.35
Consensus pattern (28 bp):
AAAAAATATAAATAATATAAAATGTTAT
Found at i:51696523 original size:19 final size:20
Alignment explanation
Indices: 51696483--51696525 Score: 61
Period size: 19 Copynumber: 2.2 Consensus size: 20
51696473 ATAAAAATAT
*
51696483 AAATAATATAGAATGTTGTA
1 AAATAATATAGAATGTTATA
*
51696503 AAATAATATA-AATTTTATA
1 AAATAATATAGAATGTTATA
51696522 AAAT
1 AAAT
51696526 TTTATAAAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 11 0.52
20 10 0.48
ACGTcount: A:0.56, C:0.00, G:0.07, T:0.37
Consensus pattern (20 bp):
AAATAATATAGAATGTTATA
Found at i:51696815 original size:38 final size:38
Alignment explanation
Indices: 51696773--51696847 Score: 109
Period size: 38 Copynumber: 2.0 Consensus size: 38
51696763 ATTTCTCTAC
51696773 TTTTTTATCA-TTTTTTA-CGACTTTATAAAATTTTATA
1 TTTTTTAT-ATTTTTTTATCGACTTTATAAAATTTTATA
**
51696810 TTTTTTATATTTTTTTATCGTTTTTATAAAATTTTATA
1 TTTTTTATATTTTTTTATCGACTTTATAAAATTTTATA
51696848 ATATTTTTCT
Statistics
Matches: 34, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
36 1 0.03
37 15 0.44
38 18 0.53
ACGTcount: A:0.28, C:0.05, G:0.03, T:0.64
Consensus pattern (38 bp):
TTTTTTATATTTTTTTATCGACTTTATAAAATTTTATA
Found at i:51696816 original size:19 final size:19
Alignment explanation
Indices: 51696794--51696847 Score: 63
Period size: 19 Copynumber: 2.8 Consensus size: 19
51696784 TTTTTACGAC
*
51696794 TTTATAAAATTTTATATTT
1 TTTATAAAATTTTATAGTT
*** *
51696813 TTTATATTTTTTTATCGTT
1 TTTATAAAATTTTATAGTT
51696832 TTTATAAAATTTTATA
1 TTTATAAAATTTTATA
51696848 ATATTTTTCT
Statistics
Matches: 26, Mismatches: 9, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
19 26 1.00
ACGTcount: A:0.31, C:0.02, G:0.02, T:0.65
Consensus pattern (19 bp):
TTTATAAAATTTTATAGTT
Found at i:51696926 original size:28 final size:28
Alignment explanation
Indices: 51696821--51696942 Score: 104
Period size: 28 Copynumber: 4.2 Consensus size: 28
51696811 TTTTTATATT
** *
51696821 TTTTTATCGTTTTTATAAAATTTTATAATA
1 TTTTTATAATTTTTATAAAATTTAAT-A-A
* * *
51696851 TTTTTCTAATTTTTAATAAAATTAAAT-G
1 TTTTTATAATTTTT-ATAAAATTTAATAA
51696879 TTTCTTAT-ATTTTTATTAAAATTTAATAA
1 TTT-TTATAATTTTTA-TAAAATTTAATAA
* * *
51696908 TTTTTATAATTTTTATAAATTTTATTGA
1 TTTTTATAATTTTTATAAAATTTAATAA
51696936 TTTTTAT
1 TTTTTAT
51696943 TTTTATCATT
Statistics
Matches: 75, Mismatches: 12, Indels: 12
0.76 0.12 0.12
Matches are distributed among these distances:
27 1 0.01
28 40 0.53
29 13 0.17
30 11 0.15
31 10 0.13
ACGTcount: A:0.34, C:0.02, G:0.02, T:0.61
Consensus pattern (28 bp):
TTTTTATAATTTTTATAAAATTTAATAA
Found at i:51696955 original size:9 final size:9
Alignment explanation
Indices: 51696803--51696942 Score: 52
Period size: 9 Copynumber: 14.7 Consensus size: 9
51696793 CTTTATAAAA
*
51696803 TTTTATATT
1 TTTTATAAT
*
51696812 TTTTATATTT
1 TTTTATA-AT
**
51696822 TTTTATCGT
1 TTTTATAAT
*
51696831 TTTTATAAAA
1 TTTTAT-AAT
51696841 TTTTATAATAT
1 TTTTAT-A-AT
*
51696852 TTTTCTAAT
1 TTTTATAAT
51696861 TTTTAATAA-
1 TTTT-ATAAT
**
51696870 AATTA-AAT
1 TTTTATAAT
51696878 GTTTCT-TATAT
1 -TTT-TATA-AT
*
51696889 TTTTATTAAAA
1 TTTTA-T-AAT
*
51696900 TTTAATAAT
1 TTTTATAAT
51696909 TTTTATAAT
1 TTTTATAAT
*
51696918 TTTTATAAA
1 TTTTATAAT
*
51696927 TTTTATTGAT
1 TTTTA-TAAT
51696937 TTTTAT
1 TTTTAT
51696943 TTTTATCATT
Statistics
Matches: 99, Mismatches: 19, Indels: 26
0.69 0.13 0.18
Matches are distributed among these distances:
7 2 0.02
8 1 0.01
9 48 0.48
10 33 0.33
11 14 0.14
12 1 0.01
ACGTcount: A:0.33, C:0.02, G:0.02, T:0.63
Consensus pattern (9 bp):
TTTTATAAT
Found at i:51714704 original size:33 final size:34
Alignment explanation
Indices: 51714667--51714730 Score: 87
Period size: 34 Copynumber: 1.9 Consensus size: 34
51714657 TTTTTTTTAA
*
51714667 TTATT-TAATGATAA-TTTAATAATTTTTTACATG
1 TTATTGTAAT-ATAATTTTAATAAATTTTTACATG
*
51714700 TTATTGTCATATAATTTTAATAAATTTTTAC
1 TTATTGTAATATAATTTTAATAAATTTTTAC
51714731 CTAAAACTTA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
33 9 0.33
34 18 0.67
ACGTcount: A:0.36, C:0.05, G:0.05, T:0.55
Consensus pattern (34 bp):
TTATTGTAATATAATTTTAATAAATTTTTACATG
Found at i:51715695 original size:43 final size:43
Alignment explanation
Indices: 51715634--51715718 Score: 161
Period size: 43 Copynumber: 2.0 Consensus size: 43
51715624 AGTATTACCT
*
51715634 TTGGGTCGAGTTGTTTCTCAATTCTAGGATAAACTTAAGTTTA
1 TTGGGTCGAGTTATTTCTCAATTCTAGGATAAACTTAAGTTTA
51715677 TTGGGTCGAGTTATTTCTCAATTCTAGGATAAACTTAAGTTT
1 TTGGGTCGAGTTATTTCTCAATTCTAGGATAAACTTAAGTTT
51715719 CTTAAAAAAA
Statistics
Matches: 41, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
43 41 1.00
ACGTcount: A:0.26, C:0.12, G:0.20, T:0.42
Consensus pattern (43 bp):
TTGGGTCGAGTTATTTCTCAATTCTAGGATAAACTTAAGTTTA
Found at i:51715735 original size:43 final size:43
Alignment explanation
Indices: 51715647--51715735 Score: 97
Period size: 43 Copynumber: 2.1 Consensus size: 43
51715637 GGTCGAGTTG
****** **
51715647 TTTCTCAATTCTAGGATAAACTTAAGTTTATTGGGTCGAGTTA
1 TTTCTCAATTCTAGGATAAACTTAAGTTTATTAAAAAAACCTA
*
51715690 TTTCTCAATTCTAGGATAAACTTAAGTTTCTTAAAAAAACCTA
1 TTTCTCAATTCTAGGATAAACTTAAGTTTATTAAAAAAACCTA
51715733 TTT
1 TTT
51715736 ATGAAAACCT
Statistics
Matches: 37, Mismatches: 9, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
43 37 1.00
ACGTcount: A:0.33, C:0.13, G:0.12, T:0.42
Consensus pattern (43 bp):
TTTCTCAATTCTAGGATAAACTTAAGTTTATTAAAAAAACCTA
Found at i:51715744 original size:14 final size:14
Alignment explanation
Indices: 51715725--51715753 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
51715715 GTTTCTTAAA
51715725 AAAACCTATTTATG
1 AAAACCTATTTATG
51715739 AAAACCTATTTATG
1 AAAACCTATTTATG
51715753 A
1 A
51715754 CTCGAGTTTA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.45, C:0.14, G:0.07, T:0.34
Consensus pattern (14 bp):
AAAACCTATTTATG
Found at i:51718943 original size:24 final size:23
Alignment explanation
Indices: 51718914--51718969 Score: 60
Period size: 24 Copynumber: 2.3 Consensus size: 23
51718904 ACAAGCAGTA
51718914 TTAAAAAATTATTA-TATCTCTTTT
1 TTAAAAAATT-TTATTATCTC-TTT
*
51718938 TTAAAAATATTTTATTATGTCTTT
1 TTAAAAA-ATTTTATTATCTCTTT
*
51718962 ATAAAAAA
1 TTAAAAAA
51718970 CTTGTCAACC
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
23 1 0.04
24 19 0.68
25 8 0.29
ACGTcount: A:0.43, C:0.05, G:0.02, T:0.50
Consensus pattern (23 bp):
TTAAAAAATTTTATTATCTCTTT
Found at i:51719253 original size:14 final size:14
Alignment explanation
Indices: 51719234--51719262 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
51719224 TTTATCTTAT
51719234 TATTAATTAATATA
1 TATTAATTAATATA
51719248 TATTAATTAATATA
1 TATTAATTAATATA
51719262 T
1 T
51719263 TTATAATTGA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (14 bp):
TATTAATTAATATA
Found at i:51719991 original size:47 final size:47
Alignment explanation
Indices: 51719937--51720030 Score: 188
Period size: 47 Copynumber: 2.0 Consensus size: 47
51719927 TTGTAAATTT
51719937 CACTTTTCACTAAAAAAAGAAATTGTACCTCCCCTCTTTCTTTCTTA
1 CACTTTTCACTAAAAAAAGAAATTGTACCTCCCCTCTTTCTTTCTTA
51719984 CACTTTTCACTAAAAAAAGAAATTGTACCTCCCCTCTTTCTTTCTTA
1 CACTTTTCACTAAAAAAAGAAATTGTACCTCCCCTCTTTCTTTCTTA
51720031 GTTGCCTAAA
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
47 47 1.00
ACGTcount: A:0.30, C:0.28, G:0.04, T:0.38
Consensus pattern (47 bp):
CACTTTTCACTAAAAAAAGAAATTGTACCTCCCCTCTTTCTTTCTTA
Found at i:51721329 original size:51 final size:51
Alignment explanation
Indices: 51721242--51721358 Score: 146
Period size: 51 Copynumber: 2.3 Consensus size: 51
51721232 CGGATCACAT
* * *
51721242 TTATCACTTGTCACTTGTCACTGATCGGATAAGTGTAGCTAAAGCTACCAC
1 TTATCGCTTGTCACTTGTCACTAATCAGATAAGTGTAGCTAAAGCTACCAC
* * * *
51721293 TTATCGCTTGTCACTTGTCACTAATCAGATATGTGTAGCTGAGGCTACCGC
1 TTATCGCTTGTCACTTGTCACTAATCAGATAAGTGTAGCTAAAGCTACCAC
*
51721344 TT-TTGACTTGTCACT
1 TTATCG-CTTGTCACT
51721359 GATTAGAAAT
Statistics
Matches: 57, Mismatches: 8, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
50 2 0.04
51 55 0.96
ACGTcount: A:0.23, C:0.23, G:0.19, T:0.35
Consensus pattern (51 bp):
TTATCGCTTGTCACTTGTCACTAATCAGATAAGTGTAGCTAAAGCTACCAC
Found at i:51726578 original size:37 final size:37
Alignment explanation
Indices: 51726536--51726657 Score: 95
Period size: 37 Copynumber: 3.0 Consensus size: 37
51726526 ACCACGTTAC
51726536 ACATATAACCGTGGTGCTAAGTGGATATGCCACGGTT
1 ACATATAACCGTGGTGCTAAGTGGATATGCCACGGTT
* *
51726573 ACATATATTGATTCATTAACATGGTGCTAAGTGGATATACCACGGTT
1 ACATATA---A--C-----CGTGGTGCTAAGTGGATATGCCACGGTT
*
51726620 AAACATGTAA--GTGGTGCTAAGTGGATATGCCACGGTT
1 --ACATATAACCGTGGTGCTAAGTGGATATGCCACGGTT
51726657 A
1 A
51726658 TACATGTTAA
Statistics
Matches: 68, Mismatches: 5, Indels: 26
0.69 0.05 0.26
Matches are distributed among these distances:
35 1 0.01
37 32 0.47
40 1 0.01
42 1 0.01
46 1 0.01
47 26 0.38
49 6 0.09
ACGTcount: A:0.30, C:0.16, G:0.25, T:0.30
Consensus pattern (37 bp):
ACATATAACCGTGGTGCTAAGTGGATATGCCACGGTT
Found at i:51726663 original size:37 final size:37
Alignment explanation
Indices: 51726594--51726664 Score: 124
Period size: 37 Copynumber: 1.9 Consensus size: 37
51726584 TTCATTAACA
51726594 TGGTGCTAAGTGGATATACCACGGTTAAACATGTAAG
1 TGGTGCTAAGTGGATATACCACGGTTAAACATGTAAG
* *
51726631 TGGTGCTAAGTGGATATGCCACGGTTATACATGT
1 TGGTGCTAAGTGGATATACCACGGTTAAACATGT
51726665 TAATTAGAAA
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
37 32 1.00
ACGTcount: A:0.28, C:0.14, G:0.28, T:0.30
Consensus pattern (37 bp):
TGGTGCTAAGTGGATATACCACGGTTAAACATGTAAG
Found at i:51744499 original size:17 final size:17
Alignment explanation
Indices: 51744479--51744512 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
51744469 AGATTTAGGT
51744479 TTAAAATTTTTAATTAA
1 TTAAAATTTTTAATTAA
*
51744496 TTAAATTTTTTAATTAA
1 TTAAAATTTTTAATTAA
51744513 AAATCTATTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (17 bp):
TTAAAATTTTTAATTAA
Found at i:51749414 original size:23 final size:22
Alignment explanation
Indices: 51749388--51749446 Score: 57
Period size: 23 Copynumber: 2.5 Consensus size: 22
51749378 AATAATATTT
51749388 TAAAAATTAAAATCTCTAGAAAA
1 TAAAAATTAAAATCTCTA-AAAA
* *
51749411 TAAAGAGACT-AAATTTCTAAAAA
1 TAAA-A-ATTAAAATCTCTAAAAA
51749434 TAAAAATATAAAA
1 TAAAAAT-TAAAA
51749447 ATTAAATTTC
Statistics
Matches: 29, Mismatches: 3, Indels: 8
0.73 0.08 0.20
Matches are distributed among these distances:
21 1 0.03
22 2 0.07
23 15 0.52
24 9 0.31
25 2 0.07
ACGTcount: A:0.63, C:0.07, G:0.05, T:0.25
Consensus pattern (22 bp):
TAAAAATTAAAATCTCTAAAAA
Found at i:51749644 original size:6 final size:6
Alignment explanation
Indices: 51749635--51749664 Score: 51
Period size: 6 Copynumber: 5.0 Consensus size: 6
51749625 TTTCATTACC
*
51749635 GAGCTA GAGCTG GAGCTG GAGCTG GAGCTG
1 GAGCTG GAGCTG GAGCTG GAGCTG GAGCTG
51749665 CTGGAGCGTT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.20, C:0.17, G:0.47, T:0.17
Consensus pattern (6 bp):
GAGCTG
Found at i:51749894 original size:30 final size:30
Alignment explanation
Indices: 51749854--51749930 Score: 118
Period size: 30 Copynumber: 2.6 Consensus size: 30
51749844 GACATAAATG
* *
51749854 GGGTTACCGTGTTCGTCAGTGAGTTGAACC
1 GGGTTGCCGTGTTCGTCAGTGAGTTGAACA
* *
51749884 GGGTTGCCGTGTTCGTCGGTGAGTTGAATA
1 GGGTTGCCGTGTTCGTCAGTGAGTTGAACA
51749914 GGGTTGCCGTGTTCGTC
1 GGGTTGCCGTGTTCGTC
51749931 TCTCAAATCA
Statistics
Matches: 43, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
30 43 1.00
ACGTcount: A:0.12, C:0.18, G:0.38, T:0.32
Consensus pattern (30 bp):
GGGTTGCCGTGTTCGTCAGTGAGTTGAACA
Found at i:51755844 original size:21 final size:21
Alignment explanation
Indices: 51755799--51755846 Score: 64
Period size: 20 Copynumber: 2.3 Consensus size: 21
51755789 TATTTTTATT
*
51755799 TTTATTTTATTTATTTAAAAA
1 TTTATATTATTTATTTAAAAA
51755820 -TTATATTATTT-TTTAAAAAA
1 TTTATATTATTTATTT-AAAAA
51755840 TTTATAT
1 TTTATAT
51755847 CTAAAATTTG
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
19 3 0.12
20 15 0.62
21 6 0.25
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (21 bp):
TTTATATTATTTATTTAAAAA
Found at i:51755959 original size:26 final size:25
Alignment explanation
Indices: 51755911--51755963 Score: 70
Period size: 26 Copynumber: 2.1 Consensus size: 25
51755901 TAATTTAAAA
* * *
51755911 TTAATATTATATTCTATATTTAATT
1 TTAATATAATATTCAATACTTAATT
51755936 TTAAGTATAATATTCAATACTTAATT
1 TTAA-TATAATATTCAATACTTAATT
51755962 TT
1 TT
51755964 TGAGTACTTA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
25 4 0.17
26 20 0.83
ACGTcount: A:0.38, C:0.06, G:0.02, T:0.55
Consensus pattern (25 bp):
TTAATATAATATTCAATACTTAATT
Found at i:51757857 original size:14 final size:14
Alignment explanation
Indices: 51757838--51757867 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
51757828 AACTTTATAT
51757838 ATATATATACACAC
1 ATATATATACACAC
*
51757852 ATATATATATACAC
1 ATATATATACACAC
51757866 AT
1 AT
51757868 TACTTTTTAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.50, C:0.17, G:0.00, T:0.33
Consensus pattern (14 bp):
ATATATATACACAC
Found at i:51757857 original size:16 final size:16
Alignment explanation
Indices: 51757836--51757866 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
51757826 AAAACTTTAT
51757836 ATATATATATACACAC
1 ATATATATATACACAC
51757852 ATATATATATACACA
1 ATATATATATACACA
51757867 TTACTTTTTA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.52, C:0.16, G:0.00, T:0.32
Consensus pattern (16 bp):
ATATATATATACACAC
Found at i:51761820 original size:47 final size:47
Alignment explanation
Indices: 51761756--51761866 Score: 145
Period size: 47 Copynumber: 2.4 Consensus size: 47
51761746 GACATTGAGT
* *
51761756 CGATG-AGACACTATGTGT-CGACTACTGTTAAAGTTCCGGATTTGTTC
1 CGATGAAG-CACTATGTGTACGA-TAATGTTAAAGTTCCGGATTTATTC
* * *
51761803 CGATGAAGTACTTTGTGTACTATAATGTTAAAGTTCCGGATTTATTC
1 CGATGAAGCACTATGTGTACGATAATGTTAAAGTTCCGGATTTATTC
51761850 CGATGAAGCACTATGTG
1 CGATGAAGCACTATGTG
51761867 CTTATCCCGG
Statistics
Matches: 55, Mismatches: 7, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
47 51 0.93
48 4 0.07
ACGTcount: A:0.26, C:0.16, G:0.23, T:0.35
Consensus pattern (47 bp):
CGATGAAGCACTATGTGTACGATAATGTTAAAGTTCCGGATTTATTC
Found at i:51763211 original size:14 final size:14
Alignment explanation
Indices: 51763194--51763235 Score: 52
Period size: 12 Copynumber: 3.1 Consensus size: 14
51763184 ATTTTAATAT
51763194 ATTTTTATTAAAAA
1 ATTTTTATTAAAAA
51763208 A--TTTATTAAAAA
1 ATTTTTATTAAAAA
* *
51763220 AATTTTATTATAAA
1 ATTTTTATTAAAAA
51763234 AT
1 AT
51763236 ATCAAATATA
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
12 12 0.50
14 12 0.50
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (14 bp):
ATTTTTATTAAAAA
Found at i:51763218 original size:11 final size:12
Alignment explanation
Indices: 51763197--51763235 Score: 51
Period size: 13 Copynumber: 3.1 Consensus size: 12
51763187 TTAATATATT
51763197 TTTATTAAAAAA
1 TTTATTAAAAAA
51763209 TTTATTAAAAAAA
1 TTTATT-AAAAAA
*
51763222 TTTTATTATAAAA
1 -TTTATTAAAAAA
51763235 T
1 T
51763236 ATCAAATATA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
12 7 0.29
13 11 0.46
14 6 0.25
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (12 bp):
TTTATTAAAAAA
Found at i:51764843 original size:108 final size:109
Alignment explanation
Indices: 51764724--51764938 Score: 344
Period size: 108 Copynumber: 2.0 Consensus size: 109
51764714 CCGTTATTTA
*
51764724 AAAAAATACTTTTAGG-TTAAAAATGTTTTTCCATCGTAAAAGTAACGAAGAACATTTAGCTTTT
1 AAAAAACACTTTT-GGATTAAAAATGTTTTTCCATCGTAAAAGTAACGAAGAACATTTAGCTTTT
51764788 ACCGTTAAAAGTGCGGTTAAAAAG-ATTTTTTCCACCCAAACTTG
65 ACCGTTAAAAGTGCGGTTAAAAAGTATTTTTTCCACCCAAACTTG
* * * *
51764832 AAAAAACACTTTTGGATTAAAAGTGTTTTTCTATCGTAAAAGTAATGAAGAACATTTAGCTTTTG
1 AAAAAACACTTTTGGATTAAAAATGTTTTTCCATCGTAAAAGTAACGAAGAACATTTAGCTTTTA
* *
51764897 CCGTTAAAAGTGCGGTTAAAACGTTTTTTTTCCACCCAAACT
66 CCGTTAAAAGTGCGGTTAAAAAGTATTTTTTCCACCCAAACT
51764939 CAAAAGCTAA
Statistics
Matches: 98, Mismatches: 7, Indels: 3
0.91 0.06 0.03
Matches are distributed among these distances:
107 2 0.02
108 79 0.81
109 17 0.17
ACGTcount: A:0.36, C:0.15, G:0.14, T:0.34
Consensus pattern (109 bp):
AAAAAACACTTTTGGATTAAAAATGTTTTTCCATCGTAAAAGTAACGAAGAACATTTAGCTTTTA
CCGTTAAAAGTGCGGTTAAAAAGTATTTTTTCCACCCAAACTTG
Found at i:51767760 original size:10 final size:10
Alignment explanation
Indices: 51767716--51767751 Score: 63
Period size: 10 Copynumber: 3.5 Consensus size: 10
51767706 CATTTTTACG
51767716 ATTTTTTAAA
1 ATTTTTTAAA
51767726 ATTTTTTAAA
1 ATTTTTTAAA
51767736 ATTTTTTATAA
1 ATTTTTTA-AA
51767747 ATTTT
1 ATTTT
51767752 AAATTATTTG
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
10 18 0.72
11 7 0.28
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (10 bp):
ATTTTTTAAA
Found at i:51770573 original size:4 final size:4
Alignment explanation
Indices: 51770566--51770598 Score: 66
Period size: 4 Copynumber: 8.2 Consensus size: 4
51770556 GTGTGAATGA
51770566 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT A
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT A
51770599 CCCTTTTAGC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 29 1.00
ACGTcount: A:0.27, C:0.00, G:0.24, T:0.48
Consensus pattern (4 bp):
ATGT
Found at i:51773052 original size:2 final size:2
Alignment explanation
Indices: 51773045--51773077 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
51773035 GTCAATACAT
51773045 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC A
1 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC A
51773078 TAAATATACC
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.52, C:0.48, G:0.00, T:0.00
Consensus pattern (2 bp):
AC
Found at i:51774000 original size:37 final size:37
Alignment explanation
Indices: 51773959--51774033 Score: 150
Period size: 37 Copynumber: 2.0 Consensus size: 37
51773949 AAGTACAAGG
51773959 AGATTGATGTTAAAAAACCAAATGTCTATGGAGGATA
1 AGATTGATGTTAAAAAACCAAATGTCTATGGAGGATA
51773996 AGATTGATGTTAAAAAACCAAATGTCTATGGAGGATA
1 AGATTGATGTTAAAAAACCAAATGTCTATGGAGGATA
51774033 A
1 A
51774034 AAAAGATGAA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.44, C:0.08, G:0.21, T:0.27
Consensus pattern (37 bp):
AGATTGATGTTAAAAAACCAAATGTCTATGGAGGATA
Found at i:51774954 original size:19 final size:17
Alignment explanation
Indices: 51774912--51774961 Score: 64
Period size: 19 Copynumber: 2.8 Consensus size: 17
51774902 ATTATTGTGT
*
51774912 TTAATAAATTTTATATT
1 TTAATAAATTTTATATA
*
51774929 TTTATAAATTTAATATATA
1 TTAATAAATTT--TATATA
51774948 TTAATAAATTTTAT
1 TTAATAAATTTTAT
51774962 CACATAAATT
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
17 13 0.46
19 15 0.54
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (17 bp):
TTAATAAATTTTATATA
Found at i:51776007 original size:15 final size:14
Alignment explanation
Indices: 51775983--51776035 Score: 52
Period size: 16 Copynumber: 3.5 Consensus size: 14
51775973 TTTACAAATT
51775983 AAAAAATAATTATA
1 AAAAAATAATTATA
51775997 AAAAGAATAATTATA
1 AAAA-AATAATTATA
* *
51776012 TTAAAAATAAATAATA
1 -AAAAAAT-AATTATA
51776028 TAAAAAAT
1 -AAAAAAT
51776036 TTCAATATGG
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
14 4 0.12
15 13 0.39
16 16 0.48
ACGTcount: A:0.70, C:0.00, G:0.02, T:0.28
Consensus pattern (14 bp):
AAAAAATAATTATA
Found at i:51776029 original size:18 final size:16
Alignment explanation
Indices: 51775983--51776034 Score: 54
Period size: 18 Copynumber: 3.2 Consensus size: 16
51775973 TTTACAAATT
51775983 AAAAAATAAT-TATAA
1 AAAAAATAATATATAA
*
51775998 AAAGAATAATTATATTAA
1 AAAAAATAA-TATA-TAA
51776016 AAATAAATAATATA-AA
1 AAA-AAATAATATATAA
51776032 AAA
1 AAA
51776035 TTTCAATATG
Statistics
Matches: 31, Mismatches: 2, Indels: 7
0.77 0.05 0.17
Matches are distributed among these distances:
15 8 0.26
16 6 0.19
17 2 0.06
18 10 0.32
19 5 0.16
ACGTcount: A:0.71, C:0.00, G:0.02, T:0.27
Consensus pattern (16 bp):
AAAAAATAATATATAA
Found at i:51777384 original size:17 final size:19
Alignment explanation
Indices: 51777364--51777401 Score: 53
Period size: 20 Copynumber: 2.1 Consensus size: 19
51777354 ATTGAGAATT
51777364 TTTAT-AAA-TATTTTGAA
1 TTTATAAAATTATTTTGAA
51777381 TTTATGAAAATTATTTTGAA
1 TTTAT-AAAATTATTTTGAA
51777401 T
1 T
51777402 ACTTTTTTGT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
17 5 0.28
19 3 0.17
20 10 0.56
ACGTcount: A:0.39, C:0.00, G:0.08, T:0.53
Consensus pattern (19 bp):
TTTATAAAATTATTTTGAA
Found at i:51784998 original size:14 final size:16
Alignment explanation
Indices: 51784966--51785002 Score: 53
Period size: 14 Copynumber: 2.5 Consensus size: 16
51784956 TTAAAAAAAT
51784966 ATTT-ATATTATATTA
1 ATTTAATATTATATTA
51784981 ATTTAATATTA-A-TA
1 ATTTAATATTATATTA
51784995 ATTTAATA
1 ATTTAATA
51785003 ATTTTTTATT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
14 10 0.48
15 5 0.24
16 6 0.29
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (16 bp):
ATTTAATATTATATTA
Found at i:51785719 original size:48 final size:48
Alignment explanation
Indices: 51785648--51785744 Score: 194
Period size: 48 Copynumber: 2.0 Consensus size: 48
51785638 TTTAAAAGAA
51785648 AATCAAACATATCCGTATCAAACACATACTGAACTCAAGATTTTTCAT
1 AATCAAACATATCCGTATCAAACACATACTGAACTCAAGATTTTTCAT
51785696 AATCAAACATATCCGTATCAAACACATACTGAACTCAAGATTTTTCAT
1 AATCAAACATATCCGTATCAAACACATACTGAACTCAAGATTTTTCAT
51785744 A
1 A
51785745 CTTTTTTGCA
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
48 49 1.00
ACGTcount: A:0.42, C:0.23, G:0.06, T:0.29
Consensus pattern (48 bp):
AATCAAACATATCCGTATCAAACACATACTGAACTCAAGATTTTTCAT
Found at i:51794479 original size:9 final size:9
Alignment explanation
Indices: 51794465--51794489 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
51794455 GAAACATTTA
51794465 TTTTAATAT
1 TTTTAATAT
51794474 TTTTAATAT
1 TTTTAATAT
51794483 TTTTAAT
1 TTTTAAT
51794490 GTATTATATT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (9 bp):
TTTTAATAT
Found at i:51795266 original size:16 final size:16
Alignment explanation
Indices: 51795245--51795283 Score: 71
Period size: 16 Copynumber: 2.5 Consensus size: 16
51795235 GAACTTTGAT
51795245 AATATAAGGTTTTACA
1 AATATAAGGTTTTACA
51795261 AATATAAGGTTTTACA
1 AATATAAGGTTTTACA
51795277 AAT-TAAG
1 AATATAAG
51795284 CATGCAAACA
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
15 4 0.17
16 19 0.83
ACGTcount: A:0.46, C:0.05, G:0.13, T:0.36
Consensus pattern (16 bp):
AATATAAGGTTTTACA
Found at i:51803298 original size:3 final size:3
Alignment explanation
Indices: 51803290--51803321 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
51803280 ACACCTTTTA
51803290 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
51803322 ATAAAACATA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
TAT
Found at i:51803632 original size:47 final size:49
Alignment explanation
Indices: 51803529--51803648 Score: 136
Period size: 47 Copynumber: 2.5 Consensus size: 49
51803519 CTTATAACTT
*
51803529 AATTAGGATTAAGAAAATTATATTTTATAAATATATATTAGTTAGAATTG
1 AATTAGGATTAAGAAAATTATATTTTAT-AATATATATTAGCTAGAATTG
* * * * *
51803579 ATTTAGGATTACGGAATTTATA-TTTAT-ATATATCTTAGCTAGAATTG
1 AATTAGGATTAAGAAAATTATATTTTATAATATATATTAGCTAGAATTG
* * *
51803626 AATTAGGGTCACGAAAATTATAT
1 AATTAGGATTAAGAAAATTATAT
51803649 ATAGAGTTCA
Statistics
Matches: 58, Mismatches: 11, Indels: 4
0.79 0.15 0.05
Matches are distributed among these distances:
47 35 0.60
49 5 0.09
50 18 0.31
ACGTcount: A:0.41, C:0.04, G:0.14, T:0.41
Consensus pattern (49 bp):
AATTAGGATTAAGAAAATTATATTTTATAATATATATTAGCTAGAATTG
Found at i:51807193 original size:18 final size:17
Alignment explanation
Indices: 51807154--51807199 Score: 56
Period size: 18 Copynumber: 2.6 Consensus size: 17
51807144 ATAATTGTGA
*
51807154 ATTAAATTATAATTATT
1 ATTAAATTATAATTAAT
* *
51807171 TTTAAATGTGTAATTAAT
1 ATTAAAT-TATAATTAAT
51807189 ATTAAATTATA
1 ATTAAATTATA
51807200 TTTTTTAAAA
Statistics
Matches: 23, Mismatches: 5, Indels: 2
0.77 0.17 0.07
Matches are distributed among these distances:
17 9 0.39
18 14 0.61
ACGTcount: A:0.46, C:0.00, G:0.04, T:0.50
Consensus pattern (17 bp):
ATTAAATTATAATTAAT
Found at i:51807549 original size:43 final size:44
Alignment explanation
Indices: 51807488--51807583 Score: 142
Period size: 43 Copynumber: 2.2 Consensus size: 44
51807478 AAAATTATAT
* * * *
51807488 TTTATAAATATATATTAGTTAGAATTGATTTAGTATTACG-AAA
1 TTTATATATATATATTAGTTAGAATTGAATTAGGATCACGTAAA
51807531 TTTATATATATATATTAGTTAGAATTGAATTAGGATCACGTAAA
1 TTTATATATATATATTAGTTAGAATTGAATTAGGATCACGTAAA
51807575 -TTATATATA
1 TTTATATATA
51807584 GAGTTCAATA
Statistics
Matches: 48, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
43 45 0.94
44 3 0.06
ACGTcount: A:0.42, C:0.03, G:0.11, T:0.44
Consensus pattern (44 bp):
TTTATATATATATATTAGTTAGAATTGAATTAGGATCACGTAAA
Found at i:51819065 original size:15 final size:15
Alignment explanation
Indices: 51819045--51819084 Score: 53
Period size: 15 Copynumber: 2.6 Consensus size: 15
51819035 TTATTATTAT
51819045 TTATTTTTAATATAA
1 TTATTTTTAATATAA
**
51819060 TTATTTTTTTTATAA
1 TTATTTTTAATATAA
51819075 TTATTCTTTA
1 TTATT-TTTA
51819085 TTCATAAAAA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
15 18 0.86
16 3 0.14
ACGTcount: A:0.30, C:0.03, G:0.00, T:0.68
Consensus pattern (15 bp):
TTATTTTTAATATAA
Found at i:51823618 original size:15 final size:16
Alignment explanation
Indices: 51823598--51823630 Score: 59
Period size: 15 Copynumber: 2.1 Consensus size: 16
51823588 ACTAAAGATT
51823598 TTAATTACTTT-TATA
1 TTAATTACTTTATATA
51823613 TTAATTACTTTATATA
1 TTAATTACTTTATATA
51823629 TT
1 TT
51823631 TAGTTTAATT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 11 0.65
16 6 0.35
ACGTcount: A:0.33, C:0.06, G:0.00, T:0.61
Consensus pattern (16 bp):
TTAATTACTTTATATA
Found at i:51825048 original size:60 final size:59
Alignment explanation
Indices: 51824978--51825091 Score: 201
Period size: 60 Copynumber: 1.9 Consensus size: 59
51824968 AATGAATTTT
51824978 TTAATTTAAAAAAATCAATATACTCTTAGATAATTTACTCTTTGATCCTTTTTGCAATA
1 TTAATTTAAAAAAATCAATATACTCTTAGATAATTTACTCTTTGATCCTTTTTGCAATA
* *
51825037 TTAATTTTAAAAAAATCAATCTACTCTTAGATAGTTTACTCTTTGATCCTTTTTG
1 TTAA-TTTAAAAAAATCAATATACTCTTAGATAATTTACTCTTTGATCCTTTTTG
51825092 TAATCTAACA
Statistics
Matches: 52, Mismatches: 2, Indels: 1
0.95 0.04 0.02
Matches are distributed among these distances:
59 4 0.08
60 48 0.92
ACGTcount: A:0.34, C:0.14, G:0.06, T:0.46
Consensus pattern (59 bp):
TTAATTTAAAAAAATCAATATACTCTTAGATAATTTACTCTTTGATCCTTTTTGCAATA
Found at i:51830297 original size:24 final size:24
Alignment explanation
Indices: 51830264--51830311 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
51830254 TCAAATGAGA
* *
51830264 CTTTATTTTCAACATTTCCATTGT
1 CTTTAGTTTCAACAATTCCATTGT
*
51830288 CTTTAGTTTCAACAATTGCATTGT
1 CTTTAGTTTCAACAATTCCATTGT
51830312 TTCCATCAGG
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.23, C:0.19, G:0.08, T:0.50
Consensus pattern (24 bp):
CTTTAGTTTCAACAATTCCATTGT
Found at i:51837895 original size:25 final size:25
Alignment explanation
Indices: 51837866--51837918 Score: 65
Period size: 25 Copynumber: 2.1 Consensus size: 25
51837856 CGCCCATATT
51837866 ATTTTAATTT-TT-AATAATTTTATAC
1 ATTTTAATTTATTGAA-AATTTTA-AC
*
51837891 ATTTTTATTTATTGAAAATTTTAAC
1 ATTTTAATTTATTGAAAATTTTAAC
51837916 ATT
1 ATT
51837919 ATTTTAATGT
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
25 14 0.56
26 9 0.36
27 2 0.08
ACGTcount: A:0.36, C:0.04, G:0.02, T:0.58
Consensus pattern (25 bp):
ATTTTAATTTATTGAAAATTTTAAC
Found at i:51837997 original size:15 final size:16
Alignment explanation
Indices: 51837977--51838007 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
51837967 TCTAAATTAC
51837977 ATAACAT-ATATAAAA
1 ATAACATAATATAAAA
51837992 ATAACATAATATAAAA
1 ATAACATAATATAAAA
51838008 TATTATAAAC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 7 0.47
16 8 0.53
ACGTcount: A:0.68, C:0.06, G:0.00, T:0.26
Consensus pattern (16 bp):
ATAACATAATATAAAA
Found at i:51841812 original size:14 final size:13
Alignment explanation
Indices: 51841789--51841851 Score: 56
Period size: 13 Copynumber: 4.8 Consensus size: 13
51841779 CTCTGGCCCT
*
51841789 TAAATCTAAACCC
1 TAAATTTAAACCC
*
51841802 TAAATTTTAAA-TC
1 TAAA-TTTAAACCC
51841815 TCAAATTTAAACCC
1 T-AAATTTAAACCC
* *
51841829 TGAACTTAAACCC
1 TAAATTTAAACCC
*
51841842 TAAATCTAAA
1 TAAATTTAAA
51841852 TTTTAAATTT
Statistics
Matches: 39, Mismatches: 8, Indels: 6
0.74 0.15 0.11
Matches are distributed among these distances:
13 29 0.74
14 10 0.26
ACGTcount: A:0.46, C:0.22, G:0.02, T:0.30
Consensus pattern (13 bp):
TAAATTTAAACCC
Found at i:51847011 original size:107 final size:107
Alignment explanation
Indices: 51846825--51847039 Score: 403
Period size: 107 Copynumber: 2.0 Consensus size: 107
51846815 ACTCACAACT
* * *
51846825 TCCTACATTGACAACAATGTCGATGTAATTCAAGCTAAAATTTAATCATAATAACCATGCATAAG
1 TCCTAAATTGACAACAATGTCGATGCAATTCAAACTAAAATTTAATCATAATAACCATGCATAAG
51846890 TAATTATAAATTATTAGGCTACAAATCTAATTACTAAATGAG
66 TAATTATAAATTATTAGGCTACAAATCTAATTACTAAATGAG
51846932 TCCTAAATTGACAACAATGTCGATGCAATTCAAACTAAAATTTAATCATAATAACCATGCATAAG
1 TCCTAAATTGACAACAATGTCGATGCAATTCAAACTAAAATTTAATCATAATAACCATGCATAAG
51846997 TAATTATAAATTATTAGGCTACAAATCTAATTACTAAATGAG
66 TAATTATAAATTATTAGGCTACAAATCTAATTACTAAATGAG
51847039 T
1 T
51847040 TTTTAAATAC
Statistics
Matches: 105, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
107 105 1.00
ACGTcount: A:0.44, C:0.15, G:0.10, T:0.32
Consensus pattern (107 bp):
TCCTAAATTGACAACAATGTCGATGCAATTCAAACTAAAATTTAATCATAATAACCATGCATAAG
TAATTATAAATTATTAGGCTACAAATCTAATTACTAAATGAG
Found at i:51847286 original size:3 final size:3
Alignment explanation
Indices: 51847278--51847305 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
51847268 CAATCACTTC
51847278 ATA ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA A
51847306 ATTCATTACC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:51850447 original size:67 final size:69
Alignment explanation
Indices: 51850363--51850505 Score: 159
Period size: 67 Copynumber: 2.1 Consensus size: 69
51850353 TAAGATTCAA
* * * *
51850363 TAAAATATATTTATAAAACCCTATAAAA-TTAAGAAATTGTAA-TAAAAATAT-ATAATA-TTTT
1 TAAAATATATTTATAAAACACTATAAAATTTAA-AAATTATAATTAAAAATATAAAAATAGTTAT
*
51850424 AATAT
65 AAAAT
* * * *
51850429 TAAAATATGTGTTATAAAATATTATAAAATTTAAAAATTATAATTTAAAATATAAAAATAGTTAT
1 TAAAATATAT-TTATAAAACACTATAAAATTTAAAAATTATAATTAAAAATATAAAAATAGTTAT
51850494 AAAAT
65 AAAAT
51850499 TAAAATA
1 TAAAATA
51850506 GTTGCATTTT
Statistics
Matches: 63, Mismatches: 9, Indels: 6
0.81 0.12 0.08
Matches are distributed among these distances:
66 9 0.14
67 23 0.37
68 12 0.19
69 5 0.08
70 14 0.22
ACGTcount: A:0.57, C:0.02, G:0.03, T:0.38
Consensus pattern (69 bp):
TAAAATATATTTATAAAACACTATAAAATTTAAAAATTATAATTAAAAATATAAAAATAGTTATA
AAAT
Found at i:51850498 original size:19 final size:17
Alignment explanation
Indices: 51850444--51850503 Score: 57
Period size: 21 Copynumber: 3.2 Consensus size: 17
51850434 TATGTGTTAT
51850444 AAAATATTATAAAATTTA
1 AAAATATTATAAAA-TTA
*
51850462 AAAATTATAATTTAAAATATA
1 AAAA-TAT--TATAAAAT-TA
51850483 AAAATAGTTATAAAATTA
1 AAAATA-TTATAAAATTA
51850501 AAA
1 AAA
51850504 TAGTTGCATT
Statistics
Matches: 35, Mismatches: 2, Indels: 10
0.74 0.04 0.21
Matches are distributed among these distances:
18 9 0.26
19 10 0.29
20 3 0.09
21 13 0.37
ACGTcount: A:0.63, C:0.00, G:0.02, T:0.35
Consensus pattern (17 bp):
AAAATATTATAAAATTA
Found at i:51856113 original size:5 final size:5
Alignment explanation
Indices: 51856103--51856150 Score: 64
Period size: 5 Copynumber: 9.6 Consensus size: 5
51856093 AAGAAATTTT
51856103 TATTA TATTA TA-T- TATTA TATTA TATTATA TATTA TATTA TATTA TAT
1 TATTA TATTA TATTA TATTA TATTA TA-T-TA TATTA TATTA TATTA TAT
51856151 AAATAAGTAA
Statistics
Matches: 39, Mismatches: 0, Indels: 8
0.83 0.00 0.17
Matches are distributed among these distances:
3 2 0.05
4 2 0.05
5 29 0.74
6 2 0.05
7 4 0.10
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (5 bp):
TATTA
Found at i:51856120 original size:13 final size:13
Alignment explanation
Indices: 51856102--51856143 Score: 77
Period size: 13 Copynumber: 3.3 Consensus size: 13
51856092 TAAGAAATTT
51856102 TTATTATATTATA
1 TTATTATATTATA
51856115 TTATTATATTATA
1 TTATTATATTATA
51856128 TTA-TATATTATA
1 TTATTATATTATA
51856140 TTAT
1 TTAT
51856144 ATTATATAAA
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
12 12 0.43
13 16 0.57
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (13 bp):
TTATTATATTATA
Found at i:51857950 original size:51 final size:49
Alignment explanation
Indices: 51857870--51858008 Score: 144
Period size: 45 Copynumber: 2.9 Consensus size: 49
51857860 TTACTGATCA
* * * *
51857870 GGCAC-TTATGTGCCGACTACTATTACTGTTACCGTTACTGTTACCGATTC
1 GGCACTTTGTGTGTCGAATACTGTTACTGTTACCGTTACTGTT--CGATTC
51857920 GGCACTTTGTGTGTCGAATACTGTTACTGTTACCGTTA----TCGATTC
1 GGCACTTTGTGTGTCGAATACTGTTACTGTTACCGTTACTGTTCGATTC
* * * **
51857965 AGCACTTTGTGTGTTGAATACTGTTACTTTTACTATTACTGTTC
1 GGCACTTTGTGTGTCGAATACTGTTACTGTTACCGTTACTGTTC
51858009 TGGATTTGTT
Statistics
Matches: 75, Mismatches: 9, Indels: 11
0.79 0.09 0.12
Matches are distributed among these distances:
45 39 0.52
47 1 0.01
49 2 0.03
50 5 0.07
51 28 0.37
ACGTcount: A:0.19, C:0.21, G:0.19, T:0.41
Consensus pattern (49 bp):
GGCACTTTGTGTGTCGAATACTGTTACTGTTACCGTTACTGTTCGATTC
Found at i:51857992 original size:45 final size:45
Alignment explanation
Indices: 51857893--51857997 Score: 156
Period size: 45 Copynumber: 2.3 Consensus size: 45
51857883 CGACTACTAT
* * *
51857893 TACTGTTACCGTTACTGTTACCGATTCGGCACTTTGTGTGTCGAA
1 TACTGTTACTGTTACCGTTACCGATTCAGCACTTTGTGTGTCGAA
* *
51857938 TACTGTTACTGTTACCGTTATCGATTCAGCACTTTGTGTGTTGAA
1 TACTGTTACTGTTACCGTTACCGATTCAGCACTTTGTGTGTCGAA
*
51857983 TACTGTTACTTTTAC
1 TACTGTTACTGTTAC
51857998 TATTACTGTT
Statistics
Matches: 54, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
45 54 1.00
ACGTcount: A:0.19, C:0.20, G:0.19, T:0.42
Consensus pattern (45 bp):
TACTGTTACTGTTACCGTTACCGATTCAGCACTTTGTGTGTCGAA
Found at i:51858451 original size:18 final size:18
Alignment explanation
Indices: 51858171--51858470 Score: 192
Period size: 18 Copynumber: 16.3 Consensus size: 18
51858161 AAAGGTATAA
* * *
51858171 AATAACTGATTATTTCTG
1 AATAATTGATTGTTACTG
* *
51858189 AATAATTGACTGTTACCG
1 AATAATTGATTGTTACTG
*
51858207 AGTAATTGATTGTTACTG
1 AATAATTGATTGTTACTG
* * *
51858225 GATAATAGACTGTTACTG
1 AATAATTGATTGTTACTG
* *
51858243 AATAATTGAATATTACTG
1 AATAATTGATTGTTACTG
* **
51858261 AATAAATGATCATTACTG
1 AATAATTGATTGTTACTG
* **
51858279 AATAACTGATCATTACTG
1 AATAATTGATTGTTACTG
* *
51858297 AATAACTGATTGTCACTG
1 AATAATTGATTGTTACTG
* *
51858315 AATAAATGATTGTTACTA
1 AATAATTGATTGTTACTG
* * *
51858333 AATAACTTAATTGCTATTG
1 AATAA-TTGATTGTTACTG
*
51858352 AAT-ATCTGATT-TTACTA
1 AATAAT-TGATTGTTACTG
*
51858369 AATAATTGACTGTTACTGG
1 AATAATTGATTGTTACT-G
*
51858388 ATAACCGATCAATTGATTGATACTG
1 ---A---AT-AATTGATTGTTACTG
* * * *
51858413 AATAACTGGTTATTATTG
1 AATAATTGATTGTTACTG
*
51858431 AATAATTGATTGTTACCG
1 AATAATTGATTGTTACTG
*
51858449 AAT-ATTGACTGTTACTG
1 AATAATTGATTGTTACTG
51858466 AATAA
1 AATAA
51858471 ATAATTGTTT
Statistics
Matches: 218, Mismatches: 51, Indels: 26
0.74 0.17 0.09
Matches are distributed among these distances:
17 26 0.12
18 162 0.74
19 13 0.06
22 2 0.01
25 3 0.01
26 12 0.06
ACGTcount: A:0.36, C:0.11, G:0.15, T:0.38
Consensus pattern (18 bp):
AATAATTGATTGTTACTG
Found at i:51858461 original size:17 final size:17
Alignment explanation
Indices: 51858430--51858469 Score: 53
Period size: 17 Copynumber: 2.3 Consensus size: 17
51858420 GGTTATTATT
*
51858430 GAATAATTGATTGTTACC
1 GAAT-ATTGACTGTTACC
*
51858448 GAATATTGACTGTTACT
1 GAATATTGACTGTTACC
51858465 GAATA
1 GAATA
51858470 AATAATTGTT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
17 16 0.80
18 4 0.20
ACGTcount: A:0.35, C:0.10, G:0.17, T:0.38
Consensus pattern (17 bp):
GAATATTGACTGTTACC
Found at i:51859241 original size:59 final size:60
Alignment explanation
Indices: 51859107--51859241 Score: 145
Period size: 59 Copynumber: 2.3 Consensus size: 60
51859097 ACACAACAAC
* *
51859107 TTCT-ACATTGGGGCTTGCACATTTTTTTTGTCCAAGTTAATCATTGAACTTGATAATTG
1 TTCTCACATAGGGGCTTGCACATTTTTTTTGTCCAAGTTAATCACTGAACTTGATAATTG
* * * * *
51859166 TTCTCAAATTA-AGGCTTG-A-AGTTTTTTTTGTCCAAGTTAGTCCCTGAACTTGGTAATTG
1 TTCTCACA-TAGGGGCTTGCACA-TTTTTTTTGTCCAAGTTAATCACTGAACTTGATAATTG
51859225 TT-TCCACATAGGGGCTT
1 TTCT-CACATAGGGGCTT
51859242 AAACTTTAGG
Statistics
Matches: 62, Mismatches: 9, Indels: 10
0.77 0.11 0.12
Matches are distributed among these distances:
58 4 0.06
59 49 0.79
60 8 0.13
61 1 0.02
ACGTcount: A:0.23, C:0.16, G:0.19, T:0.42
Consensus pattern (60 bp):
TTCTCACATAGGGGCTTGCACATTTTTTTTGTCCAAGTTAATCACTGAACTTGATAATTG
Found at i:51860904 original size:3 final size:3
Alignment explanation
Indices: 51860898--51861076 Score: 94
Period size: 3 Copynumber: 58.3 Consensus size: 3
51860888 TTTTTCTAAA
* * * *
51860898 ATT ATT AAT ATT ATT AAT ATT ATT TTT ATT -TCT ATT ATT ATT ACT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT-T ATT ATT ATT ATT
* * * * * * * * * *
51860943 AAT ATC ACT ATC ATC ATC ATC ATC ATC ATC ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
* * *
51860991 ATT ATT ATT ATT ACTT TTT TTT ACT ATCT AATGT ATT ATT A-T ACCTT
1 ATT ATT ATT ATT A-TT ATT ATT ATT AT-T -AT-T ATT ATT ATT A--TT
* **
51861038 ATT ATT ATT ATT ATT ATT -GT ATT ATT GCT ATT ATT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
51861077 AATTTTCCTT
Statistics
Matches: 141, Mismatches: 26, Indels: 18
0.76 0.14 0.10
Matches are distributed among these distances:
2 4 0.03
3 126 0.89
4 6 0.04
5 5 0.04
ACGTcount: A:0.32, C:0.09, G:0.02, T:0.57
Consensus pattern (3 bp):
ATT
Found at i:51861295 original size:22 final size:22
Alignment explanation
Indices: 51861255--51861296 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
51861245 TTTGTCTTAT
*
51861255 TGTTATTACTATTTGTATTTAC
1 TGTTATTACTATATGTATTTAC
51861277 TGTTATTACTACTAT-TATTT
1 TGTTATTACTA-TATGTATTT
51861297 TTTACTTTTA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
22 16 0.89
23 2 0.11
ACGTcount: A:0.24, C:0.10, G:0.07, T:0.60
Consensus pattern (22 bp):
TGTTATTACTATATGTATTTAC
Found at i:51861320 original size:25 final size:27
Alignment explanation
Indices: 51861251--51861320 Score: 72
Period size: 25 Copynumber: 2.6 Consensus size: 27
51861241 ATTATTTGTC
*
51861251 TTATTGTTATTACTATTTGTATTTACTG
1 TTATTATTATTACTA-TTGTATTTACTG
* * * *
51861279 TTATTACTACTATTATT-T-TTTACTT
1 TTATTATTATTACTATTGTATTTACTG
51861304 TTATTATTATTACTATT
1 TTATTATTATTACTATT
51861321 ATTATCACTA
Statistics
Matches: 34, Mismatches: 8, Indels: 3
0.76 0.18 0.07
Matches are distributed among these distances:
25 20 0.59
26 1 0.03
27 2 0.06
28 11 0.32
ACGTcount: A:0.24, C:0.09, G:0.04, T:0.63
Consensus pattern (27 bp):
TTATTATTATTACTATTGTATTTACTG
Found at i:51861346 original size:40 final size:40
Alignment explanation
Indices: 51861273--51861355 Score: 107
Period size: 40 Copynumber: 2.1 Consensus size: 40
51861263 CTATTTGTAT
* *
51861273 TTACTGTTATTACTACTATTATTTTTTACTTTTATTATTA
1 TTACTATTATTACTACTATTATTTTTTACTTTTATTACTA
*
51861313 TTACTATTATTA-TCACTATTA-TTTTTATTTTTTATTACTA
1 TTACTATTATTACT-ACTATTATTTTTTA-CTTTTATTACTA
51861353 TTA
1 TTA
51861356 TCATTTTAAA
Statistics
Matches: 38, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
39 7 0.18
40 31 0.82
ACGTcount: A:0.27, C:0.10, G:0.01, T:0.63
Consensus pattern (40 bp):
TTACTATTATTACTACTATTATTTTTTACTTTTATTACTA
Found at i:51861409 original size:3 final size:3
Alignment explanation
Indices: 51861401--51861537 Score: 93
Period size: 3 Copynumber: 43.0 Consensus size: 3
51861391 ATTTAATACA
51861401 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAGT GTAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA-T -TAT TAT TAT
* * *
51861448 TAT TAA TAT TAGT GTAT GTTT CTAT TAT ATAT ATATT TAT ATAT ATAG
1 TAT TAT TAT TA-T -TAT -TAT -TAT TAT -TAT -TA-T TAT -TAT -TAT
* *
51861496 TAT TAT T-T TAAT TAC T-T TAT T-T TAA TAT TAT TAT TA- TAT TAT
1 TAT TAT TAT T-AT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
51861538 ATGTCTTCCT
Statistics
Matches: 111, Mismatches: 11, Indels: 24
0.76 0.08 0.16
Matches are distributed among these distances:
2 7 0.06
3 74 0.67
4 25 0.23
5 5 0.05
ACGTcount: A:0.34, C:0.01, G:0.04, T:0.61
Consensus pattern (3 bp):
TAT
Found at i:51861619 original size:7 final size:7
Alignment explanation
Indices: 51861554--51861620 Score: 55
Period size: 7 Copynumber: 9.3 Consensus size: 7
51861544 TCCTTTTGTG
51861554 TTTATTTA
1 TTTA-TTA
*
51861562 TTTATTGT
1 TTTATT-A
51861570 TTTATTA
1 TTTATTA
*
51861577 TTAATTAA
1 TTTATT-A
**
51861585 TTTAGCA
1 TTTATTA
51861592 -TTATTA
1 TTTATTA
*
51861598 ATTATTA
1 TTTATTA
51861605 TTTATTA
1 TTTATTA
51861612 TTTATTA
1 TTTATTA
51861619 TT
1 TT
51861621 GTCCTTGTTA
Statistics
Matches: 47, Mismatches: 9, Indels: 7
0.75 0.14 0.11
Matches are distributed among these distances:
6 4 0.09
7 29 0.62
8 14 0.30
ACGTcount: A:0.30, C:0.01, G:0.03, T:0.66
Consensus pattern (7 bp):
TTTATTA
Found at i:51863113 original size:26 final size:26
Alignment explanation
Indices: 51863084--51863191 Score: 189
Period size: 26 Copynumber: 4.2 Consensus size: 26
51863074 TGGTACAAAT
51863084 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
51863110 TGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
51863136 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
51863162 TGATAATGGTTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
51863188 TGAT
1 TGAT
51863192 GGGCATTTCA
Statistics
Matches: 77, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 77 1.00
ACGTcount: A:0.32, C:0.07, G:0.24, T:0.36
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:51866709 original size:20 final size:20
Alignment explanation
Indices: 51866672--51866710 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
51866662 GACTCTTTTT
* *
51866672 TATTATTATTTGTTTTAAAC
1 TATTATTATTTATCTTAAAC
*
51866692 TATTTTTATTTATCTTAAA
1 TATTATTATTTATCTTAAA
51866711 TTTCATACAT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.31, C:0.05, G:0.03, T:0.62
Consensus pattern (20 bp):
TATTATTATTTATCTTAAAC
Found at i:51866825 original size:27 final size:26
Alignment explanation
Indices: 51866728--51866850 Score: 144
Period size: 26 Copynumber: 4.8 Consensus size: 26
51866718 CATTAAACTG
*
51866728 TTTTAAATTGTTTTAGATA-TATT-A
1 TTTTAAATTGTTTTATATATTATTCA
* * *
51866752 TTTTAAATTATTTTATATACTATACA
1 TTTTAAATTGTTTTATATATTATTCA
* * *
51866778 CTTTAAATTGTTTTGTATATTATTTA
1 TTTTAAATTGTTTTATATATTATTCA
*
51866804 TTTTAAATTTGTTTTATGTATTATTCA
1 TTTTAAA-TTGTTTTATATATTATTCA
51866831 TTTTAAATTGTTTTAT-TATT
1 TTTTAAATTGTTTTATATATT
51866851 TACATTAATT
Statistics
Matches: 83, Mismatches: 13, Indels: 5
0.82 0.13 0.05
Matches are distributed among these distances:
24 17 0.20
25 7 0.08
26 36 0.43
27 23 0.28
ACGTcount: A:0.30, C:0.03, G:0.06, T:0.61
Consensus pattern (26 bp):
TTTTAAATTGTTTTATATATTATTCA
Found at i:51866838 original size:53 final size:50
Alignment explanation
Indices: 51866728--51866845 Score: 148
Period size: 53 Copynumber: 2.3 Consensus size: 50
51866718 CATTAAACTG
51866728 TTTTAAATTGTTTTAGATATATTATTTTAAATTATTTTATATACTATACA
1 TTTTAAATTGTTTTAGATATATTATTTTAAATTATTTTATATACTATACA
* * * * *
51866778 CTTTAAATTGTTTT-GTATATTATTTATTTTAAATTTGTTTTATGTATTATTCA
1 TTTTAAATTGTTTTAG-ATA-TA-TTATTTTAAA-TTATTTTATATACTATACA
51866831 TTTTAAATTGTTTTA
1 TTTTAAATTGTTTTA
51866846 TTATTTACAT
Statistics
Matches: 57, Mismatches: 6, Indels: 6
0.83 0.09 0.09
Matches are distributed among these distances:
49 1 0.02
50 16 0.28
51 2 0.04
52 10 0.18
53 28 0.49
ACGTcount: A:0.31, C:0.03, G:0.06, T:0.60
Consensus pattern (50 bp):
TTTTAAATTGTTTTAGATATATTATTTTAAATTATTTTATATACTATACA
Found at i:51866888 original size:49 final size:49
Alignment explanation
Indices: 51866795--51866888 Score: 111
Period size: 49 Copynumber: 1.9 Consensus size: 49
51866785 TTGTTTTGTA
** * *
51866795 TATTATTTATTTTAAATTTGTTTTATGTATTATTCATTTTAAATTGTTT
1 TATTATTTACATTAAATTTGTTTTATATATTATTCATTTCAAATTGTTT
*
51866844 TATTATTTACATT-AATTTTTTTTCATATATTA-TCAATTTCAAATT
1 TATTATTTACATTAAATTTGTTTT-ATATATTATTC-ATTTCAAATT
51866889 TTTATATGTA
Statistics
Matches: 38, Mismatches: 5, Indels: 4
0.81 0.11 0.09
Matches are distributed among these distances:
48 11 0.29
49 27 0.71
ACGTcount: A:0.30, C:0.05, G:0.03, T:0.62
Consensus pattern (49 bp):
TATTATTTACATTAAATTTGTTTTATATATTATTCATTTCAAATTGTTT
Found at i:51867055 original size:26 final size:26
Alignment explanation
Indices: 51866983--51867056 Score: 78
Period size: 26 Copynumber: 2.8 Consensus size: 26
51866973 TGAATTTCTT
** *
51866983 TTTACATAACATTTACTTTAAATTCA
1 TTTACATATTATTTATTTTAAATTCA
* *
51867009 TTTATATATTATTTATCTTAAATT-A
1 TTTACATATTATTTATTTTAAATTCA
*
51867034 TTTTACATATTATTTGTTTTAAA
1 -TTTACATATTATTTATTTTAAA
51867057 CTTTTTTTCC
Statistics
Matches: 39, Mismatches: 8, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
25 1 0.03
26 38 0.97
ACGTcount: A:0.35, C:0.08, G:0.01, T:0.55
Consensus pattern (26 bp):
TTTACATATTATTTATTTTAAATTCA
Found at i:51868721 original size:23 final size:22
Alignment explanation
Indices: 51868681--51868736 Score: 55
Period size: 21 Copynumber: 2.6 Consensus size: 22
51868671 CCAATTTTAC
51868681 ATAAAGATATACCTA-TATATATA
1 ATAAAGATATA--TACTATATATA
* *
51868704 TTAAAGATATATAC-ATATGTA
1 ATAAAGATATATACTATATATA
51868725 ATAAA-ATATATA
1 ATAAAGATATATA
51868737 AATAACATGA
Statistics
Matches: 29, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
20 7 0.24
21 12 0.41
23 10 0.34
ACGTcount: A:0.54, C:0.05, G:0.05, T:0.36
Consensus pattern (22 bp):
ATAAAGATATATACTATATATA
Found at i:51868807 original size:18 final size:19
Alignment explanation
Indices: 51868781--51868820 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 19
51868771 TATGATAAAA
*
51868781 ATAATAATATACATAATAT
1 ATAATAATACACATAATAT
*
51868800 ATAA-AATACATATAATAT
1 ATAATAATACACATAATAT
51868818 ATA
1 ATA
51868821 CATATACTAG
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
18 15 0.79
19 4 0.21
ACGTcount: A:0.60, C:0.05, G:0.00, T:0.35
Consensus pattern (19 bp):
ATAATAATACACATAATAT
Found at i:51868821 original size:13 final size:14
Alignment explanation
Indices: 51868781--51868826 Score: 58
Period size: 13 Copynumber: 3.2 Consensus size: 14
51868771 TATGATAAAA
51868781 ATAATAATATACAT
1 ATAATAATATACAT
*
51868795 AATATATAAAATACAT
1 -ATA-ATAATATACAT
51868811 ATAAT-ATATACAT
1 ATAATAATATACAT
51868824 ATA
1 ATA
51868827 CTAGAAATGA
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
13 10 0.36
14 2 0.07
15 6 0.21
16 10 0.36
ACGTcount: A:0.59, C:0.07, G:0.00, T:0.35
Consensus pattern (14 bp):
ATAATAATATACAT
Found at i:51868950 original size:21 final size:19
Alignment explanation
Indices: 51868920--51868963 Score: 65
Period size: 19 Copynumber: 2.4 Consensus size: 19
51868910 AGAAATACTT
*
51868920 AATATATA-ATAAT-TTAA
1 AATATATACATAATATAAA
51868937 AATATATACATAATATAAA
1 AATATATACATAATATAAA
51868956 AATATATA
1 AATATATA
51868964 TAGAACGTAG
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
17 8 0.33
18 5 0.21
19 11 0.46
ACGTcount: A:0.61, C:0.02, G:0.00, T:0.36
Consensus pattern (19 bp):
AATATATACATAATATAAA
Found at i:51869332 original size:3 final size:3
Alignment explanation
Indices: 51869324--51869356 Score: 59
Period size: 3 Copynumber: 11.3 Consensus size: 3
51869314 ATGACAACAC
51869324 ATA ATA ATA ATA ATA ATA A-A ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
51869357 ATTAAAGTAG
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
2 2 0.07
3 27 0.93
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (3 bp):
ATA
Found at i:51869348 original size:14 final size:14
Alignment explanation
Indices: 51869324--51869357 Score: 59
Period size: 14 Copynumber: 2.4 Consensus size: 14
51869314 ATGACAACAC
51869324 ATAATAATAATAATA
1 ATAA-AATAATAATA
51869339 ATAAAATAATAATA
1 ATAAAATAATAATA
51869353 ATAAA
1 ATAAA
51869358 TTAAAGTAGA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 15 0.79
15 4 0.21
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (14 bp):
ATAAAATAATAATA
Found at i:51869940 original size:16 final size:16
Alignment explanation
Indices: 51869919--51869953 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
51869909 AAAATTCTAA
* *
51869919 TTTTTTTGTTTTATTT
1 TTTTTTTATATTATTT
51869935 TTTTTTTATATTATTT
1 TTTTTTTATATTATTT
51869951 TTT
1 TTT
51869954 CCTTTATTTA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.11, C:0.00, G:0.03, T:0.86
Consensus pattern (16 bp):
TTTTTTTATATTATTT
Found at i:51871175 original size:18 final size:18
Alignment explanation
Indices: 51871152--51871186 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
51871142 TCAAAAATGT
*
51871152 TGTTTTAGTAAACCAAAA
1 TGTTTTAGTAAAACAAAA
*
51871170 TGTTTTATTAAAACAAA
1 TGTTTTAGTAAAACAAA
51871187 GGTGATCCGA
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:0.46, C:0.09, G:0.09, T:0.37
Consensus pattern (18 bp):
TGTTTTAGTAAAACAAAA
Found at i:51873728 original size:3 final size:3
Alignment explanation
Indices: 51873720--51873773 Score: 108
Period size: 3 Copynumber: 18.0 Consensus size: 3
51873710 AGTTACCTTG
51873720 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
51873768 TAA TAA
1 TAA TAA
51873774 AGCAAGAATA
Statistics
Matches: 51, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 51 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:51875962 original size:26 final size:26
Alignment explanation
Indices: 51875925--51876008 Score: 132
Period size: 26 Copynumber: 3.2 Consensus size: 26
51875915 TGATACAAAT
* *
51875925 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTTCA
*
51875951 TGATAATGGGTTAGGTATATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
*
51875977 TGATAATGGGTTAGGTAAAGGTTTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
51876003 TGATAA
1 TGATAA
51876009 GAATTTCATG
Statistics
Matches: 53, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
26 53 1.00
ACGTcount: A:0.32, C:0.05, G:0.26, T:0.37
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTTCA
Found at i:51877533 original size:14 final size:14
Alignment explanation
Indices: 51877506--51877614 Score: 50
Period size: 13 Copynumber: 7.6 Consensus size: 14
51877496 TAATTTTAAT
*
51877506 AAATATTTATTATTA
1 AAATA-TTAATATTA
51877521 AAATATTAATATTA
1 AAATATTAATATTA
* *
51877535 AATTTTCAATAATATGTGA
1 AA--AT-ATTAATAT-T-A
51877554 ATAATATT-AT-TTA
1 A-AATATTAATATTA
* *
51877567 AAATTATTATTTTTA
1 AAA-TATTAATATTA
*
51877582 AAAT-TTATTATTA
1 AAATATTAATATTA
51877595 AAATA--AA-ATTA
1 AAATATTAATATTA
51877606 AAATATTAA
1 AAATATTAA
51877615 ATAATTTAGT
Statistics
Matches: 74, Mismatches: 8, Indels: 26
0.69 0.07 0.24
Matches are distributed among these distances:
11 9 0.12
12 3 0.04
13 20 0.27
14 13 0.18
15 12 0.16
16 3 0.04
17 9 0.12
18 2 0.03
19 2 0.03
20 1 0.01
ACGTcount: A:0.50, C:0.01, G:0.02, T:0.47
Consensus pattern (14 bp):
AAATATTAATATTA
Found at i:51877589 original size:16 final size:16
Alignment explanation
Indices: 51877558--51877594 Score: 58
Period size: 16 Copynumber: 2.3 Consensus size: 16
51877548 ATGTGAATAA
51877558 TATTATTTAAAATTAT
1 TATTATTTAAAATTAT
51877574 TATT-TTTAAAATTTAT
1 TATTATTTAAAA-TTAT
51877590 TATTA
1 TATTA
51877595 AAATAAAATT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
15 7 0.37
16 12 0.63
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (16 bp):
TATTATTTAAAATTAT
Found at i:51878312 original size:31 final size:31
Alignment explanation
Indices: 51878276--51878348 Score: 94
Period size: 31 Copynumber: 2.4 Consensus size: 31
51878266 TTACAAAATG
*
51878276 GTTATTGAATTATTCGAA-AGTTTTCATTTAA
1 GTTATTGAACTATTC-AATAGTTTTCATTTAA
* *
51878307 GTTATTAAACTATTCAATAGTTTTTATTTAA
1 GTTATTGAACTATTCAATAGTTTTCATTTAA
*
51878338 GTCATTGAACT
1 GTTATTGAACT
51878349 GTTAAGTTTT
Statistics
Matches: 36, Mismatches: 5, Indels: 2
0.84 0.12 0.05
Matches are distributed among these distances:
30 2 0.06
31 34 0.94
ACGTcount: A:0.33, C:0.08, G:0.11, T:0.48
Consensus pattern (31 bp):
GTTATTGAACTATTCAATAGTTTTCATTTAA
Found at i:51886948 original size:17 final size:16
Alignment explanation
Indices: 51886923--51886954 Score: 55
Period size: 17 Copynumber: 1.9 Consensus size: 16
51886913 ATAGAGAATG
51886923 AAAAAAAAATTAAAAA
1 AAAAAAAAATTAAAAA
51886939 AAAAAGAAAATTAAAA
1 AAAAA-AAAATTAAAA
51886955 GAACATAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 5 0.33
17 10 0.67
ACGTcount: A:0.84, C:0.00, G:0.03, T:0.12
Consensus pattern (16 bp):
AAAAAAAAATTAAAAA
Found at i:51893718 original size:72 final size:75
Alignment explanation
Indices: 51893582--51893727 Score: 235
Period size: 72 Copynumber: 2.0 Consensus size: 75
51893572 TTTCTAGGAT
*
51893582 ATTTAAGTACATAGGTCAATTTTGAAAAAAAAATAAAAAAAGATATCTTGCAAGAAGCCGTTGAA
1 ATTTAAGGACATAGGTCAATTTTGAAAAAAAAATAAAAAAAGATATCTTGCAAGAAGCCGTTGAA
51893647 AACGCGTCCC
66 AACGCGTCCC
* * *
51893657 ATTTAAGGACATAGGTCAATTTTG-AAAAAAAA-AAAAAACG-TGTCTTGCAAGAAGCTGTTGAA
1 ATTTAAGGACATAGGTCAATTTTGAAAAAAAAATAAAAAAAGATATCTTGCAAGAAGCCGTTGAA
51893719 AACGCGTCC
66 AACGCGTCC
51893728 TGTAAGACAC
Statistics
Matches: 67, Mismatches: 4, Indels: 3
0.91 0.05 0.04
Matches are distributed among these distances:
72 29 0.43
73 7 0.10
74 8 0.12
75 23 0.34
ACGTcount: A:0.44, C:0.14, G:0.18, T:0.24
Consensus pattern (75 bp):
ATTTAAGGACATAGGTCAATTTTGAAAAAAAAATAAAAAAAGATATCTTGCAAGAAGCCGTTGAA
AACGCGTCCC
Found at i:51901739 original size:2 final size:2
Alignment explanation
Indices: 51901728--51901757 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
51901718 ACATCAACTG
51901728 TA TA -A TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
51901758 TACCTCAGTG
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 26 0.96
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:51904422 original size:29 final size:29
Alignment explanation
Indices: 51904383--51904441 Score: 109
Period size: 29 Copynumber: 2.0 Consensus size: 29
51904373 CTCTCAAACA
51904383 TCACTCATAAAATTCTATAATTAATACAT
1 TCACTCATAAAATTCTATAATTAATACAT
*
51904412 TCACTCGTAAAATTCTATAATTAATACAT
1 TCACTCATAAAATTCTATAATTAATACAT
51904441 T
1 T
51904442 TTTAATTTAT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.42, C:0.17, G:0.02, T:0.39
Consensus pattern (29 bp):
TCACTCATAAAATTCTATAATTAATACAT
Found at i:51922833 original size:21 final size:21
Alignment explanation
Indices: 51922808--51922851 Score: 70
Period size: 21 Copynumber: 2.1 Consensus size: 21
51922798 ATTGGGCTGT
* *
51922808 TACACTCCACCTGTTTTGGAG
1 TACACTCCACCTGCTGTGGAG
51922829 TACACTCCACCTGCTGTGGAG
1 TACACTCCACCTGCTGTGGAG
51922850 TA
1 TA
51922852 TTGCTCGTCT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.20, C:0.30, G:0.20, T:0.30
Consensus pattern (21 bp):
TACACTCCACCTGCTGTGGAG
Found at i:51927622 original size:21 final size:21
Alignment explanation
Indices: 51927596--51927636 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
51927586 ATCTGCTCAA
* *
51927596 ACTCCACCTGTTTTGGAGTAC
1 ACTCCACCTGCTGTGGAGTAC
51927617 ACTCCACCTGCTGTGGAGTA
1 ACTCCACCTGCTGTGGAGTA
51927637 TTGCTCGTCT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.20, C:0.29, G:0.22, T:0.29
Consensus pattern (21 bp):
ACTCCACCTGCTGTGGAGTAC
Found at i:51931370 original size:17 final size:17
Alignment explanation
Indices: 51931348--51931383 Score: 63
Period size: 17 Copynumber: 2.1 Consensus size: 17
51931338 ATCGAGATTA
51931348 TAATTTTTACGATAATC
1 TAATTTTTACGATAATC
*
51931365 TAATTTTTAGGATAATC
1 TAATTTTTACGATAATC
51931382 TA
1 TA
51931384 CAATATAGTC
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:0.36, C:0.08, G:0.08, T:0.47
Consensus pattern (17 bp):
TAATTTTTACGATAATC
Found at i:51932297 original size:18 final size:17
Alignment explanation
Indices: 51932266--51932300 Score: 61
Period size: 18 Copynumber: 2.0 Consensus size: 17
51932256 GATTTAGGCT
51932266 TTAAATTTTTTAATTAA
1 TTAAATTTTTTAATTAA
51932283 TTAAATTTATTTAATTAA
1 TTAAATTT-TTTAATTAA
51932301 AAATCTATTA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 8 0.47
18 9 0.53
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (17 bp):
TTAAATTTTTTAATTAA
Found at i:51935802 original size:26 final size:25
Alignment explanation
Indices: 51935772--51935836 Score: 77
Period size: 22 Copynumber: 2.7 Consensus size: 25
51935762 AAGTATACGT
51935772 ACAATAGTATAAAAGATATATA-ACTA
1 ACAATA-TATAAAAGATATATACA-TA
51935798 ACAATAT-T-AAAG-TATATACATA
1 ACAATATATAAAAGATATATACATA
51935820 ACAATATATAAAA-ATAT
1 ACAATATATAAAAGATAT
51935837 GATATTAAAA
Statistics
Matches: 35, Mismatches: 0, Indels: 10
0.78 0.00 0.22
Matches are distributed among these distances:
22 15 0.43
23 6 0.17
24 7 0.20
25 1 0.03
26 6 0.17
ACGTcount: A:0.58, C:0.08, G:0.05, T:0.29
Consensus pattern (25 bp):
ACAATATATAAAAGATATATACATA
Found at i:51935888 original size:11 final size:11
Alignment explanation
Indices: 51935849--51935924 Score: 62
Period size: 11 Copynumber: 6.5 Consensus size: 11
51935839 TATTAAAAAC
51935849 ATATATACATA
1 ATATATACATA
*
51935860 ATAATATGAAATA
1 AT-ATAT-ACATA
*
51935873 TATATATATATA
1 -ATATATACATA
* *
51935885 ATATAGTATTAGA
1 ATATA-TA-CATA
*
51935898 ATATTTACATA
1 ATATATACATA
51935909 ATATATACATA
1 ATATATACATA
51935920 ATATA
1 ATATA
51935925 AATACTAATG
Statistics
Matches: 53, Mismatches: 7, Indels: 10
0.76 0.10 0.14
Matches are distributed among these distances:
11 24 0.45
12 12 0.23
13 15 0.28
14 2 0.04
ACGTcount: A:0.53, C:0.04, G:0.04, T:0.39
Consensus pattern (11 bp):
ATATATACATA
Found at i:51935888 original size:13 final size:13
Alignment explanation
Indices: 51935810--51935933 Score: 52
Period size: 13 Copynumber: 9.9 Consensus size: 13
51935800 AATATTAAAG
*
51935810 TATATACATAACAA
1 TATATACATAA-TA
*
51935824 TATATA-AAAATA
1 TATATACATAATA
* *
51935836 TGATATTA-AAAACA
1 T-ATA-TACATAATA
51935850 TATATACATAATA
1 TATATACATAATA
*
51935863 -ATATGAAAT-ATA
1 TATAT-ACATAATA
*
51935875 TATATATATAATA
1 TATATACATAATA
* *
51935888 TAGTAT-TAGAATA
1 TA-TATACATAATA
51935901 T-T-TACAT-A-A
1 TATATACATAATA
51935910 TATATACATAATA
1 TATATACATAATA
*
51935923 TAAATAC-TAAT
1 TATATACATAAT
51935934 GATGTTAAAA
Statistics
Matches: 87, Mismatches: 11, Indels: 26
0.70 0.09 0.21
Matches are distributed among these distances:
9 2 0.02
10 3 0.03
11 7 0.08
12 19 0.22
13 39 0.45
14 17 0.20
ACGTcount: A:0.55, C:0.06, G:0.03, T:0.36
Consensus pattern (13 bp):
TATATACATAATA
Found at i:51941238 original size:28 final size:28
Alignment explanation
Indices: 51941182--51941244 Score: 81
Period size: 28 Copynumber: 2.2 Consensus size: 28
51941172 GTCATTATCA
*
51941182 ACCCCATAAGTTATAAAACCCTTCTTAT
1 ACCCCATAAGTTATAAAACCCTTCCTAT
* * **
51941210 ACCCCATAAGTTATGAGACTTTTCCTAT
1 ACCCCATAAGTTATAAAACCCTTCCTAT
51941238 ACCCCAT
1 ACCCCAT
51941245 TAATATGGGA
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
28 30 1.00
ACGTcount: A:0.32, C:0.30, G:0.06, T:0.32
Consensus pattern (28 bp):
ACCCCATAAGTTATAAAACCCTTCCTAT
Found at i:51941804 original size:42 final size:43
Alignment explanation
Indices: 51941719--51941804 Score: 122
Period size: 44 Copynumber: 2.0 Consensus size: 43
51941709 ATATTTCATT
*
51941719 TCCATAATCAAACAAATCCAGCACTGTGGAATCAATCAAATTCA
1 TCCATAATCAAACAAATCCAGCAC-GTGGAATCAAACAAATTCA
*
51941763 TCCATAATCAAACAAATCGTA-CAC-TGGAATCAAACAAATTCA
1 TCCATAATCAAACAAATC-CAGCACGTGGAATCAAACAAATTCA
51941805 GAAAATTAGT
Statistics
Matches: 39, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
42 17 0.44
44 21 0.54
45 1 0.03
ACGTcount: A:0.45, C:0.24, G:0.08, T:0.22
Consensus pattern (43 bp):
TCCATAATCAAACAAATCCAGCACGTGGAATCAAACAAATTCA
Found at i:51945113 original size:26 final size:26
Alignment explanation
Indices: 51945077--51945236 Score: 275
Period size: 26 Copynumber: 6.2 Consensus size: 26
51945067 TGATACAAAT
* * *
51945077 TGATAATAGGTTATGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
51945103 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
51945129 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
51945155 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
51945181 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
51945207 TGATAATGGTTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
51945233 TGAT
1 TGAT
51945237 GGGCATTTCA
Statistics
Matches: 130, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 130 1.00
ACGTcount: A:0.33, C:0.07, G:0.24, T:0.36
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:51949298 original size:24 final size:23
Alignment explanation
Indices: 51949271--51949353 Score: 64
Period size: 24 Copynumber: 3.7 Consensus size: 23
51949261 ACATCTCCAT
51949271 AATCAAACAAATCCAACGCTGTGG
1 AATCAAACAAATCCAAC-CTGTGG
* * * *
51949295 AATCAGACAAATTCATCC-AT--
1 AATCAAACAAATCCAACCTGTGG
***
51949315 AATCAAACAAATAGTACACTGTGG
1 AATCAAACAAATCCAAC-CTGTGG
51949339 AATCAAACAAATCCA
1 AATCAAACAAATCCA
51949354 GAAAATTAGT
Statistics
Matches: 42, Mismatches: 13, Indels: 8
0.67 0.21 0.13
Matches are distributed among these distances:
20 12 0.29
21 1 0.02
22 2 0.05
23 1 0.02
24 26 0.62
ACGTcount: A:0.47, C:0.23, G:0.11, T:0.19
Consensus pattern (23 bp):
AATCAAACAAATCCAACCTGTGG
Found at i:51949337 original size:44 final size:44
Alignment explanation
Indices: 51949266--51949350 Score: 125
Period size: 44 Copynumber: 1.9 Consensus size: 44
51949256 TCCATACATC
* * *
51949266 TCCATAATCAAACAAATCCAACGCTGTGGAATCAGACAAATTCA
1 TCCATAATCAAACAAATACAACACTGTGGAATCAAACAAATTCA
**
51949310 TCCATAATCAAACAAATAGTACACTGTGGAATCAAACAAAT
1 TCCATAATCAAACAAATACAACACTGTGGAATCAAACAAAT
51949351 CCAGAAAATT
Statistics
Matches: 36, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
44 36 1.00
ACGTcount: A:0.46, C:0.22, G:0.11, T:0.21
Consensus pattern (44 bp):
TCCATAATCAAACAAATACAACACTGTGGAATCAAACAAATTCA
Found at i:51949638 original size:40 final size:41
Alignment explanation
Indices: 51949594--51949680 Score: 113
Period size: 40 Copynumber: 2.1 Consensus size: 41
51949584 TCAAATACAT
51949594 TTAAAACAAATATTAAAACAAGAAACAAA-TAAAAAATATA
1 TTAAAACAAATATTAAAACAAGAAACAAATTAAAAAATATA
* * * * *
51949634 TTAAAACAATTCTTAAAACAATACACAAATTGAAAAATATA
1 TTAAAACAAATATTAAAACAAGAAACAAATTAAAAAATATA
*
51949675 ATAAAA
1 TTAAAA
51949681 ATTGATTATA
Statistics
Matches: 40, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
40 25 0.62
41 15 0.38
ACGTcount: A:0.66, C:0.09, G:0.02, T:0.23
Consensus pattern (41 bp):
TTAAAACAAATATTAAAACAAGAAACAAATTAAAAAATATA
Found at i:51951476 original size:12 final size:12
Alignment explanation
Indices: 51951459--51951492 Score: 52
Period size: 12 Copynumber: 2.9 Consensus size: 12
51951449 CGGCCCGCCC
51951459 ATATTAATTTTT
1 ATATTAATTTTT
*
51951471 ATATTATTTTTT
1 ATATTAATTTTT
51951483 ATA-TAATTTT
1 ATATTAATTTT
51951493 AAAATATATA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
11 6 0.30
12 14 0.70
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (12 bp):
ATATTAATTTTT
Done.