Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A04
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: 82679320
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 4050000 characters in sequence are not A, C, G, or T
File 246 of 255
Found at i:79982161 original size:29 final size:27
Alignment explanation
Indices: 79982118--79982172 Score: 83
Period size: 29 Copynumber: 2.0 Consensus size: 27
79982108 AAATATCAAA
*
79982118 TTTTTATTAATACAAATAACTTGGTTT
1 TTTTTATTAATACAAATAAATTGGTTT
79982145 TTTTTATATAAATACAAATAAATTGGTT
1 TTTTTAT-T-AATACAAATAAATTGGTT
79982173 AATATCATTT
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
27 7 0.28
28 1 0.04
29 17 0.68
ACGTcount: A:0.38, C:0.05, G:0.07, T:0.49
Consensus pattern (27 bp):
TTTTTATTAATACAAATAAATTGGTTT
Found at i:79982700 original size:24 final size:24
Alignment explanation
Indices: 79982673--79982724 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
79982663 TTAGTAAGTC
*
79982673 AAATAAACTATACTAATAAATGCT
1 AAATAAACTATACTAATAAATACT
* *
79982697 AAATATATTATACTAATAAATACT
1 AAATAAACTATACTAATAAATACT
79982721 AAAT
1 AAAT
79982725 CTTCTAGAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.56, C:0.10, G:0.02, T:0.33
Consensus pattern (24 bp):
AAATAAACTATACTAATAAATACT
Found at i:79984669 original size:24 final size:24
Alignment explanation
Indices: 79984642--79984693 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
79984632 TTAGTAAGTC
*
79984642 AAATAAACTATACTAATAAATGCT
1 AAATAAACTATACTAATAAATACT
* *
79984666 AAATATATTATACTAATAAATACT
1 AAATAAACTATACTAATAAATACT
79984690 AAAT
1 AAAT
79984694 CTTCTAGAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.56, C:0.10, G:0.02, T:0.33
Consensus pattern (24 bp):
AAATAAACTATACTAATAAATACT
Found at i:79986221 original size:29 final size:30
Alignment explanation
Indices: 79986185--79986255 Score: 90
Period size: 29 Copynumber: 2.4 Consensus size: 30
79986175 AATAAAAAAA
*
79986185 TTCATGTATAAAATTGCACA-AAATCAAAG
1 TTCATGTATAAAATTGCACATAAACCAAAG
**
79986214 TTCATGTATATGATTGCACATTAAACCAAAG
1 TTCATGTATAAAATTGCACA-TAAACCAAAG
*
79986245 TTGATGTATAA
1 TTCATGTATAA
79986256 TTTTGATATT
Statistics
Matches: 35, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
29 18 0.51
31 17 0.49
ACGTcount: A:0.42, C:0.13, G:0.13, T:0.32
Consensus pattern (30 bp):
TTCATGTATAAAATTGCACATAAACCAAAG
Found at i:79987856 original size:15 final size:15
Alignment explanation
Indices: 79987820--79987861 Score: 50
Period size: 15 Copynumber: 2.8 Consensus size: 15
79987810 ACAAAATCCA
79987820 TTGCTTTTCTTTTTCC
1 TTGCTTTT-TTTTTCC
* *
79987836 CT-CTTTTTTTTTTC
1 TTGCTTTTTTTTTCC
79987850 TTGCTTTTTTTT
1 TTGCTTTTTTTT
79987862 ACTTTTTTTT
Statistics
Matches: 22, Mismatches: 3, Indels: 3
0.79 0.11 0.11
Matches are distributed among these distances:
14 7 0.32
15 14 0.64
16 1 0.05
ACGTcount: A:0.00, C:0.19, G:0.05, T:0.76
Consensus pattern (15 bp):
TTGCTTTTTTTTTCC
Found at i:79994025 original size:44 final size:45
Alignment explanation
Indices: 79993919--79994052 Score: 126
Period size: 44 Copynumber: 3.0 Consensus size: 45
79993909 ACAGGACAGA
* * * *
79993919 ACAGAAATGAGCCATGTAAGTCCATGTTAGAAATATGGCTTTGGAG
1 ACAGGAATAAGCCATGTAAGTCCATATTA-AAATATGGCATTGGAG
* * * *
79993965 ATAGGATTGAGCCATGTAAGTCCATATT-ATATATGGCATTGGAG
1 ACAGGAATAAGCCATGTAAGTCCATATTAAAATATGGCATTGGAG
** * * *
79994009 ACAGGAATAATTCATGTAAGTCCATGTCAAAGACATGGCATTGG
1 ACAGGAATAAGCCATGTAAGTCCATATTAAA-ATATGGCATTGG
79994053 CAGGATATTG
Statistics
Matches: 71, Mismatches: 15, Indels: 4
0.79 0.17 0.04
Matches are distributed among these distances:
44 35 0.49
45 1 0.01
46 35 0.49
ACGTcount: A:0.34, C:0.13, G:0.25, T:0.28
Consensus pattern (45 bp):
ACAGGAATAAGCCATGTAAGTCCATATTAAAATATGGCATTGGAG
Found at i:79997344 original size:7 final size:7
Alignment explanation
Indices: 79997332--79997361 Score: 51
Period size: 7 Copynumber: 4.3 Consensus size: 7
79997322 AAGGCATCAT
*
79997332 CTCGCAG
1 CTCGCAA
79997339 CTCGCAA
1 CTCGCAA
79997346 CTCGCAA
1 CTCGCAA
79997353 CTCGCAA
1 CTCGCAA
79997360 CT
1 CT
79997362 TGCTTGCATG
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
7 22 1.00
ACGTcount: A:0.23, C:0.43, G:0.17, T:0.17
Consensus pattern (7 bp):
CTCGCAA
Found at i:79997399 original size:32 final size:32
Alignment explanation
Indices: 79997363--79997423 Score: 86
Period size: 32 Copynumber: 1.9 Consensus size: 32
79997353 CTCGCAACTT
* **
79997363 GCTTGCATGTAGCTTGCAGTTCACAGTTCGCA
1 GCTTGCATGCAGCTCACAGTTCACAGTTCGCA
*
79997395 GCTTGCATGCAGCTCATAGTTCACAGTTC
1 GCTTGCATGCAGCTCACAGTTCACAGTTC
79997424 AGTGTCAGCT
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
32 25 1.00
ACGTcount: A:0.20, C:0.26, G:0.23, T:0.31
Consensus pattern (32 bp):
GCTTGCATGCAGCTCACAGTTCACAGTTCGCA
Found at i:79998095 original size:24 final size:24
Alignment explanation
Indices: 79998068--79998117 Score: 91
Period size: 24 Copynumber: 2.1 Consensus size: 24
79998058 AAGATGTGAT
79998068 TTAAGTCCAACAATTTTGTCAAAA
1 TTAAGTCCAACAATTTTGTCAAAA
*
79998092 TTAAGTCCAACAGTTTTGTCAAAA
1 TTAAGTCCAACAATTTTGTCAAAA
79998116 TT
1 TT
79998118 TGCTGGTCAC
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.38, C:0.16, G:0.10, T:0.36
Consensus pattern (24 bp):
TTAAGTCCAACAATTTTGTCAAAA
Found at i:80002257 original size:17 final size:17
Alignment explanation
Indices: 80002235--80002270 Score: 63
Period size: 17 Copynumber: 2.1 Consensus size: 17
80002225 AAATTATCCC
80002235 TTTTATTTTAATTTTAA
1 TTTTATTTTAATTTTAA
*
80002252 TTTTATTTTTATTTTAA
1 TTTTATTTTAATTTTAA
80002269 TT
1 TT
80002271 AAGTTTTTTA
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:0.25, C:0.00, G:0.00, T:0.75
Consensus pattern (17 bp):
TTTTATTTTAATTTTAA
Found at i:80008576 original size:3 final size:3
Alignment explanation
Indices: 80008568--80008601 Score: 59
Period size: 3 Copynumber: 11.3 Consensus size: 3
80008558 AATGTCCAAC
*
80008568 ATA ATA ATA ATA ATA ATA ACA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
80008602 GCTTCTTCTA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.68, C:0.03, G:0.00, T:0.29
Consensus pattern (3 bp):
ATA
Found at i:80011754 original size:17 final size:17
Alignment explanation
Indices: 80011729--80011767 Score: 53
Period size: 17 Copynumber: 2.3 Consensus size: 17
80011719 GGCGGTAGGC
*
80011729 GGAGGAAAGTAA-ACGGA
1 GGAGAAAAGTAAGA-GGA
80011746 GGAGAAAAGTAAGAGGA
1 GGAGAAAAGTAAGAGGA
80011763 GGAGA
1 GGAGA
80011768 CAACCGGAGA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
17 19 0.95
18 1 0.05
ACGTcount: A:0.49, C:0.03, G:0.44, T:0.05
Consensus pattern (17 bp):
GGAGAAAAGTAAGAGGA
Found at i:80012086 original size:4 final size:4
Alignment explanation
Indices: 80012072--80012103 Score: 55
Period size: 4 Copynumber: 8.0 Consensus size: 4
80012062 GAAAAAACAA
*
80012072 ATTT GTTT ATTT ATTT ATTT ATTT ATTT ATTT
1 ATTT ATTT ATTT ATTT ATTT ATTT ATTT ATTT
80012104 TTCGGTTAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
4 26 1.00
ACGTcount: A:0.22, C:0.00, G:0.03, T:0.75
Consensus pattern (4 bp):
ATTT
Found at i:80013156 original size:15 final size:13
Alignment explanation
Indices: 80013114--80013150 Score: 56
Period size: 14 Copynumber: 2.8 Consensus size: 13
80013104 AATTTATAGA
80013114 AATTTTAAATTTT
1 AATTTTAAATTTT
*
80013127 ATTTTTCAAATTTT
1 AATTTT-AAATTTT
80013141 AATTTTAAAT
1 AATTTTAAAT
80013151 ATTTTATATA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
13 9 0.43
14 12 0.57
ACGTcount: A:0.38, C:0.03, G:0.00, T:0.59
Consensus pattern (13 bp):
AATTTTAAATTTT
Found at i:80015484 original size:21 final size:19
Alignment explanation
Indices: 80015450--80015508 Score: 57
Period size: 21 Copynumber: 2.9 Consensus size: 19
80015440 TAACAAGAAA
*
80015450 TAAAAAT-ATATAAATTTT
1 TAAAAATAAAATAAATTTT
80015468 TAAAATATCAAAATAAATAATTT
1 TAAAA-AT-AAAATAAAT--TTT
*
80015491 TAAAAATATAATAAATTT
1 TAAAAATAAAATAAATTT
80015509 ATTTTTTATT
Statistics
Matches: 34, Mismatches: 2, Indels: 9
0.76 0.04 0.20
Matches are distributed among these distances:
18 5 0.15
19 4 0.12
21 15 0.44
22 2 0.06
23 8 0.24
ACGTcount: A:0.59, C:0.02, G:0.00, T:0.39
Consensus pattern (19 bp):
TAAAAATAAAATAAATTTT
Found at i:80015506 original size:25 final size:25
Alignment explanation
Indices: 80015449--80015506 Score: 73
Period size: 24 Copynumber: 2.3 Consensus size: 25
80015439 CTAACAAGAA
* *
80015449 ATAAAAATATATAAATTTTTAAAAT
1 ATAAAAATAAATAAATTTTAAAAAT
*
80015474 ATCAAAATAAAT-AATTTTAAAAAT
1 ATAAAAATAAATAAATTTTAAAAAT
80015498 ATAATAAAT
1 ATAA-AAAT
80015507 TTATTTTTTA
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
24 14 0.50
25 14 0.50
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.36
Consensus pattern (25 bp):
ATAAAAATAAATAAATTTTAAAAAT
Found at i:80016015 original size:10 final size:10
Alignment explanation
Indices: 80016000--80016030 Score: 53
Period size: 10 Copynumber: 3.1 Consensus size: 10
80015990 TTTGAAAATA
80016000 TTTATGTATT
1 TTTATGTATT
80016010 TTTATGTATT
1 TTTATGTATT
*
80016020 TTTATATATT
1 TTTATGTATT
80016030 T
1 T
80016031 ATTTAAAGTT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
10 20 1.00
ACGTcount: A:0.23, C:0.00, G:0.06, T:0.71
Consensus pattern (10 bp):
TTTATGTATT
Found at i:80016522 original size:16 final size:17
Alignment explanation
Indices: 80016501--80016536 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 17
80016491 AGGTGTCCAG
*
80016501 CAATGGTA-ATTTTTTT
1 CAATGGTACAATTTTTT
80016517 CAATGGTACAATTTTTT
1 CAATGGTACAATTTTTT
80016534 CAA
1 CAA
80016537 ACTGGTAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 8 0.44
17 10 0.56
ACGTcount: A:0.31, C:0.11, G:0.11, T:0.47
Consensus pattern (17 bp):
CAATGGTACAATTTTTT
Found at i:80017574 original size:10 final size:10
Alignment explanation
Indices: 80017559--80017594 Score: 72
Period size: 10 Copynumber: 3.6 Consensus size: 10
80017549 TTTGGTTAAG
80017559 TGAATTTGCA
1 TGAATTTGCA
80017569 TGAATTTGCA
1 TGAATTTGCA
80017579 TGAATTTGCA
1 TGAATTTGCA
80017589 TGAATT
1 TGAATT
80017595 AAGAGTAATT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 26 1.00
ACGTcount: A:0.31, C:0.08, G:0.19, T:0.42
Consensus pattern (10 bp):
TGAATTTGCA
Found at i:80018204 original size:18 final size:19
Alignment explanation
Indices: 80018175--80018210 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
80018165 GTAAAAATTT
*
80018175 TGAAATTTAGGGATTTAAG
1 TGAAATTTAGGGAGTTAAG
80018194 TGAAA-TTAGGGAGTTAA
1 TGAAATTTAGGGAGTTAA
80018211 ATTTAGTCTA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 11 0.69
19 5 0.31
ACGTcount: A:0.39, C:0.00, G:0.28, T:0.33
Consensus pattern (19 bp):
TGAAATTTAGGGAGTTAAG
Found at i:80019537 original size:21 final size:20
Alignment explanation
Indices: 80019495--80019537 Score: 50
Period size: 21 Copynumber: 2.1 Consensus size: 20
80019485 ATTTAAAATG
* * *
80019495 ATGATTTGAATGATGTTTTA
1 ATGATGTGAATGATGATATA
80019515 ATGATGTGAAATGATGATATA
1 ATGATGTG-AATGATGATATA
80019536 AT
1 AT
80019538 TGTAGTAACT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
20 7 0.37
21 12 0.63
ACGTcount: A:0.37, C:0.00, G:0.21, T:0.42
Consensus pattern (20 bp):
ATGATGTGAATGATGATATA
Found at i:80021007 original size:27 final size:26
Alignment explanation
Indices: 80020984--80021061 Score: 104
Period size: 25 Copynumber: 3.0 Consensus size: 26
80020974 AAAACATAGA
*
80020984 ATAGTAGATTAAAAATATGTACATAAT
1 ATAGT-GATTAAAAATATATACATAAT
*
80021011 ATAGTG-TTAAAAATACATACATAAT
1 ATAGTGATTAAAAATATATACATAAT
*
80021036 ATAGTTATTAAAAAATATATACATAA
1 ATAGTGATT-AAAAATATATACATAA
80021062 AAAAAATATA
Statistics
Matches: 45, Mismatches: 4, Indels: 4
0.85 0.08 0.08
Matches are distributed among these distances:
25 22 0.49
26 3 0.07
27 20 0.44
ACGTcount: A:0.54, C:0.05, G:0.08, T:0.33
Consensus pattern (26 bp):
ATAGTGATTAAAAATATATACATAAT
Found at i:80021268 original size:23 final size:22
Alignment explanation
Indices: 80021242--80021304 Score: 76
Period size: 23 Copynumber: 2.9 Consensus size: 22
80021232 TATTACATAA
* *
80021242 ATATATACATATATATATTAAAG
1 ATATATACATATATA-ATAAAAC
80021265 ATATATACATATATAATAAAAC
1 ATATATACATATATAATAAAAC
80021287 ATATATTA-ATAT-TAATAA
1 ATATA-TACATATATAATAA
80021305 TAATAATAAG
Statistics
Matches: 37, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
21 6 0.16
22 14 0.38
23 17 0.46
ACGTcount: A:0.56, C:0.05, G:0.02, T:0.38
Consensus pattern (22 bp):
ATATATACATATATAATAAAAC
Found at i:80021284 original size:21 final size:23
Alignment explanation
Indices: 80021242--80021292 Score: 77
Period size: 23 Copynumber: 2.3 Consensus size: 23
80021232 TATTACATAA
80021242 ATATATACATATATATATTAAAG
1 ATATATACATATATATATTAAAG
* *
80021265 ATATATACATATATA-ATAAAAC
1 ATATATACATATATATATTAAAG
80021287 ATATAT
1 ATATAT
80021293 TAATATTAAT
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
22 11 0.42
23 15 0.58
ACGTcount: A:0.55, C:0.06, G:0.02, T:0.37
Consensus pattern (23 bp):
ATATATACATATATATATTAAAG
Found at i:80021342 original size:13 final size:12
Alignment explanation
Indices: 80021273--80021384 Score: 55
Period size: 12 Copynumber: 9.6 Consensus size: 12
80021263 AGATATATAC
80021273 ATATATAATAAA
1 ATATATAATAAA
* *
80021285 ACATAT-AT-TA
1 ATATATAATAAA
80021295 ATAT-TAAT--A
1 ATATATAATAAA
*
80021304 ATA-ATAATAAGG
1 ATATATAATAA-A
80021316 ATA-AT-ATAAAA
1 ATATATAAT-AAA
80021327 ATATATACATAAA
1 ATATATA-ATAAA
80021340 ATAGTATAA-AAA
1 ATA-TATAATAAA
80021352 TATATATAACTAATA
1 -ATATATAA-TAA-A
*
80021367 ATATTTAA-AAA
1 ATATATAATAAA
80021378 ATATATA
1 ATATATA
80021385 TACATGATAT
Statistics
Matches: 79, Mismatches: 7, Indels: 29
0.69 0.06 0.25
Matches are distributed among these distances:
9 9 0.11
10 6 0.08
11 14 0.18
12 24 0.30
13 10 0.13
14 15 0.19
15 1 0.01
ACGTcount: A:0.61, C:0.03, G:0.03, T:0.34
Consensus pattern (12 bp):
ATATATAATAAA
Found at i:80021347 original size:24 final size:23
Alignment explanation
Indices: 80021319--80021410 Score: 76
Period size: 24 Copynumber: 3.7 Consensus size: 23
80021309 AATAAGGATA
80021319 ATATAAAAATATATACATAAAAT
1 ATATAAAAATATATACATAAAAT
*
80021342 AGTATAAAAATATATATAACTAATAAT
1 A-TATAAAAATATATA-CA-TAA-AAT
* * *
80021369 ATTTAAAAAATATATATACATGATAT
1 A--TATAAAA-ATATATACATAAAAT
*
80021395 ATATAAAAACATATAC
1 ATATAAAAATATATAC
80021411 GATATATATA
Statistics
Matches: 55, Mismatches: 8, Indels: 12
0.73 0.11 0.16
Matches are distributed among these distances:
23 8 0.15
24 20 0.36
25 1 0.02
26 6 0.11
27 6 0.11
28 7 0.13
29 7 0.13
ACGTcount: A:0.60, C:0.05, G:0.02, T:0.33
Consensus pattern (23 bp):
ATATAAAAATATATACATAAAAT
Found at i:80021403 original size:27 final size:27
Alignment explanation
Indices: 80021323--80021409 Score: 83
Period size: 27 Copynumber: 3.3 Consensus size: 27
80021313 AGGATAATAT
*
80021323 AAAA-ATATATACATAAAATAGTATAAA
1 AAAATATATATACATAATATA-TATAAA
* *
80021350 AATATATATA-AC-TAATA-ATATTTAA
1 AAAATATATATACATAATATATA-TAAA
*
80021375 AAAATATATATACATGATATATATAAA
1 AAAATATATATACATAATATATATAAA
*
80021402 AACATATA
1 AAAATATA
80021410 CGATATATAT
Statistics
Matches: 48, Mismatches: 7, Indels: 10
0.74 0.11 0.15
Matches are distributed among these distances:
24 2 0.04
25 13 0.27
26 6 0.12
27 19 0.40
28 8 0.17
ACGTcount: A:0.61, C:0.05, G:0.02, T:0.32
Consensus pattern (27 bp):
AAAATATATATACATAATATATATAAA
Found at i:80021572 original size:19 final size:19
Alignment explanation
Indices: 80021524--80021562 Score: 62
Period size: 18 Copynumber: 2.1 Consensus size: 19
80021514 ACGAGTACTA
*
80021524 ATAATATTAAT-AATATAT
1 ATAATAATAATAAATATAT
80021542 ATAATAATAATAAATATAT
1 ATAATAATAATAAATATAT
80021561 AT
1 AT
80021563 GCATATAATA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 10 0.53
19 9 0.47
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (19 bp):
ATAATAATAATAAATATAT
Found at i:80021624 original size:26 final size:26
Alignment explanation
Indices: 80021595--80021652 Score: 66
Period size: 26 Copynumber: 2.2 Consensus size: 26
80021585 ACATTTAAAA
*
80021595 AATATAACTAAAT-ATAAT-ATAATAAT
1 AATATAA--AAATAATAATGATAACAAT
*
80021621 AATATAAAAATAATAGTGATAACAAT
1 AATATAAAAATAATAATGATAACAAT
80021647 AATATA
1 AATATA
80021653 TATAACAAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
24 4 0.14
25 4 0.14
26 20 0.71
ACGTcount: A:0.62, C:0.03, G:0.03, T:0.31
Consensus pattern (26 bp):
AATATAAAAATAATAATGATAACAAT
Found at i:80021647 original size:15 final size:14
Alignment explanation
Indices: 80021605--80021669 Score: 58
Period size: 15 Copynumber: 4.3 Consensus size: 14
80021595 AATATAACTA
80021605 AATATAATATAATAAT
1 AATATAA-A-AATAAT
80021621 AATATAAAAATAAT
1 AATATAAAAATAAT
* *
80021635 AGTGATAACAATAAT
1 AAT-ATAAAAATAAT
*
80021650 ATATATAACAAAAAAT
1 A-ATATAA-AAATAAT
80021666 AATA
1 AATA
80021670 ATATGTACAA
Statistics
Matches: 41, Mismatches: 5, Indels: 7
0.77 0.09 0.13
Matches are distributed among these distances:
14 8 0.20
15 19 0.46
16 14 0.34
ACGTcount: A:0.65, C:0.03, G:0.03, T:0.29
Consensus pattern (14 bp):
AATATAAAAATAAT
Found at i:80021763 original size:21 final size:20
Alignment explanation
Indices: 80021721--80021778 Score: 73
Period size: 21 Copynumber: 2.8 Consensus size: 20
80021711 AATGTTAAAA
*
80021721 TAAAATAATAAGTAACAATAG
1 TAAAATAATAAGT-ATAATAG
80021742 TGAAAATAATAAGTATAATAG
1 T-AAAATAATAAGTATAATAG
80021763 TAAATATAATAA-TATA
1 TAAA-ATAATAAGTATA
80021779 TAATAATACT
Statistics
Matches: 34, Mismatches: 1, Indels: 5
0.85 0.03 0.12
Matches are distributed among these distances:
20 7 0.21
21 15 0.44
22 12 0.35
ACGTcount: A:0.60, C:0.02, G:0.09, T:0.29
Consensus pattern (20 bp):
TAAAATAATAAGTATAATAG
Found at i:80021783 original size:22 final size:21
Alignment explanation
Indices: 80021721--80021783 Score: 67
Period size: 22 Copynumber: 3.0 Consensus size: 21
80021711 AATGTTAAAA
*
80021721 TAAAATAATAAGTA-ACAATAG
1 TAAAATAATAA-TATATAATAG
*
80021742 TGAAAATAATAA-GTATAATAG
1 T-AAAATAATAATATATAATAG
80021763 TAAATATAATAATATATAATA
1 TAAA-ATAATAATATATAATA
80021784 ATACTATATA
Statistics
Matches: 35, Mismatches: 3, Indels: 7
0.78 0.07 0.16
Matches are distributed among these distances:
20 3 0.09
21 15 0.43
22 17 0.49
ACGTcount: A:0.60, C:0.02, G:0.08, T:0.30
Consensus pattern (21 bp):
TAAAATAATAATATATAATAG
Found at i:80021844 original size:21 final size:21
Alignment explanation
Indices: 80021805--80021852 Score: 57
Period size: 21 Copynumber: 2.3 Consensus size: 21
80021795 ATAAAAGCAT
80021805 ATATATACACATATAATAA-A
1 ATATATACACATATAATAACA
80021825 ATATATACTAC-TATTAATAACA
1 ATATATAC-ACATA-TAATAACA
80021847 A-ATATA
1 ATATATA
80021853 ATAGGGGTAA
Statistics
Matches: 25, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
20 10 0.40
21 13 0.52
22 2 0.08
ACGTcount: A:0.56, C:0.10, G:0.00, T:0.33
Consensus pattern (21 bp):
ATATATACACATATAATAACA
Found at i:80022032 original size:3 final size:3
Alignment explanation
Indices: 80022021--80022099 Score: 54
Period size: 3 Copynumber: 26.7 Consensus size: 3
80022011 ATTGTAAAAA
* * * * *
80022021 AAT ACT AAT AAT AGT AAA AAT -AT ACT AAT AAT AAT AAT AAT GAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
* * * *
80022068 AGT AA- ATAT AAT AAT AAA AAT ATT AAA AAT AA
1 AAT AAT A-AT AAT AAT AAT AAT AAT AAT AAT AA
80022100 AAATGGTAAA
Statistics
Matches: 55, Mismatches: 18, Indels: 6
0.70 0.23 0.08
Matches are distributed among these distances:
2 3 0.05
3 51 0.93
4 1 0.02
ACGTcount: A:0.63, C:0.03, G:0.04, T:0.30
Consensus pattern (3 bp):
AAT
Found at i:80022037 original size:20 final size:20
Alignment explanation
Indices: 80022009--80022053 Score: 72
Period size: 20 Copynumber: 2.2 Consensus size: 20
80021999 ATATAAGTAT
*
80022009 TAATTGTAAAAAAATACTAA
1 TAATAGTAAAAAAATACTAA
*
80022029 TAATAGTAAAAATATACTAA
1 TAATAGTAAAAAAATACTAA
80022049 TAATA
1 TAATA
80022054 ATAATAATGA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.60, C:0.04, G:0.04, T:0.31
Consensus pattern (20 bp):
TAATAGTAAAAAAATACTAA
Found at i:80022109 original size:15 final size:15
Alignment explanation
Indices: 80022071--80022114 Score: 54
Period size: 15 Copynumber: 3.0 Consensus size: 15
80022061 TGATAATAGT
*
80022071 AAATA-TAATAATAA
1 AAATAGTAAAAATAA
*
80022085 AAATATTAAAAATAA
1 AAATAGTAAAAATAA
*
80022100 AAATGGTAAAAATAA
1 AAATAGTAAAAATAA
80022115 TATAAAAAAA
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
14 5 0.19
15 21 0.81
ACGTcount: A:0.70, C:0.00, G:0.05, T:0.25
Consensus pattern (15 bp):
AAATAGTAAAAATAA
Found at i:80022579 original size:30 final size:30
Alignment explanation
Indices: 80022545--80022601 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
80022535 AATTTTTTTT
80022545 AAAAAAATCA-CTTTCTCATTTGTTTTTAA
1 AAAAAAATCAGCTTTCTCATTTGTTTTTAA
* * *
80022574 AAAAAACTCAGCTTTCTCTTTTTTTTTT
1 AAAAAAATCAGCTTTCTCATTTGTTTTT
80022602 CTCTGCAGGT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
29 9 0.38
30 15 0.62
ACGTcount: A:0.32, C:0.16, G:0.04, T:0.49
Consensus pattern (30 bp):
AAAAAAATCAGCTTTCTCATTTGTTTTTAA
Found at i:80024010 original size:49 final size:49
Alignment explanation
Indices: 80023956--80024057 Score: 114
Period size: 49 Copynumber: 2.1 Consensus size: 49
80023946 TCACGAGTTG
* * *
80023956 AAGTATAACTAAAGCTCTCAATTGATGGTGGTTATGTAATCATGGGTTT
1 AAGTATAACTAAAGCCCCCAATTGATGGTGGTTATGTAATCATGGGTTC
* ** * * **
80024005 AAGTATATCTCGAGCCCCCAGTTGGTGGTGGTTATGTGGTCATGGGTTC
1 AAGTATAACTAAAGCCCCCAATTGATGGTGGTTATGTAATCATGGGTTC
80024054 AAGT
1 AAGT
80024058 TTAATGGCAC
Statistics
Matches: 43, Mismatches: 10, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
49 43 1.00
ACGTcount: A:0.25, C:0.14, G:0.27, T:0.34
Consensus pattern (49 bp):
AAGTATAACTAAAGCCCCCAATTGATGGTGGTTATGTAATCATGGGTTC
Found at i:80030314 original size:17 final size:16
Alignment explanation
Indices: 80030294--80030345 Score: 52
Period size: 17 Copynumber: 3.1 Consensus size: 16
80030284 ACAATTTCAT
80030294 TAATGTTAAAATTTGTA
1 TAAT-TTAAAATTTGTA
* *
80030311 TAATATAAATTATTG-A
1 TAATTTAAAAT-TTGTA
80030327 TAGATTTAAAATTTGTA
1 TA-ATTTAAAATTTGTA
80030344 TA
1 TA
80030346 TATAATATTG
Statistics
Matches: 28, Mismatches: 4, Indels: 6
0.74 0.11 0.16
Matches are distributed among these distances:
16 11 0.39
17 17 0.61
ACGTcount: A:0.44, C:0.00, G:0.10, T:0.46
Consensus pattern (16 bp):
TAATTTAAAATTTGTA
Found at i:80048646 original size:44 final size:45
Alignment explanation
Indices: 80048598--80048697 Score: 123
Period size: 44 Copynumber: 2.2 Consensus size: 45
80048588 CTTTGACATT
* *
80048598 GACTTACATGAATTATTCCTGTCTCCAATA-CCATA-TATAATATG
1 GACTTACATGAATCAATCCTGTCTCCAA-AGCCATATTATAATATG
** *
80048642 GACTTACATGGCTCAATCCTGTCTCCAAAGCCATATTTCTAATATG
1 GACTTACATGAATCAATCCTGTCTCCAAAGCCATA-TTATAATATG
80048688 GACTTACATG
1 GACTTACATG
80048698 GCTCATTTTT
Statistics
Matches: 48, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
43 1 0.02
44 29 0.60
46 18 0.38
ACGTcount: A:0.31, C:0.23, G:0.12, T:0.34
Consensus pattern (45 bp):
GACTTACATGAATCAATCCTGTCTCCAAAGCCATATTATAATATG
Found at i:80048698 original size:46 final size:44
Alignment explanation
Indices: 80048614--80048702 Score: 135
Period size: 46 Copynumber: 2.0 Consensus size: 44
80048604 CATGAATTAT
80048614 TCCTGTCTCCAATACCATATATAATATGGACTTACATGGCTCAA
1 TCCTGTCTCCAATACCATATATAATATGGACTTACATGGCTCAA
*
80048658 TCCTGTCTCCAA-AGCCATATTTCTAATATGGACTTACATGGCTCA
1 TCCTGTCTCCAATA-CCATA--TATAATATGGACTTACATGGCTCA
80048703 TTTTTGTTCT
Statistics
Matches: 41, Mismatches: 1, Indels: 4
0.89 0.02 0.09
Matches are distributed among these distances:
43 1 0.02
44 17 0.41
46 23 0.56
ACGTcount: A:0.29, C:0.26, G:0.12, T:0.33
Consensus pattern (44 bp):
TCCTGTCTCCAATACCATATATAATATGGACTTACATGGCTCAA
Found at i:80052194 original size:44 final size:45
Alignment explanation
Indices: 80052106--80052194 Score: 135
Period size: 46 Copynumber: 2.0 Consensus size: 45
80052096 AGAACAAAAA
* *
80052106 TGAGCCATGTAAGTCCATATTAGAAATATGGCTTTGGAGACAGGAT
1 TGAGCCATGTAAGTCCATATTA-AAATATGGCATTAGAGACAGGAT
*
80052152 TGAGCCATGTAAGTCCATATT-ATATATGGCATTAGAGACAGGA
1 TGAGCCATGTAAGTCCATATTAAAATATGGCATTAGAGACAGGA
80052195 ATAATTCATG
Statistics
Matches: 40, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
44 19 0.47
46 21 0.52
ACGTcount: A:0.34, C:0.13, G:0.25, T:0.28
Consensus pattern (45 bp):
TGAGCCATGTAAGTCCATATTAAAATATGGCATTAGAGACAGGAT
Found at i:80052205 original size:44 final size:45
Alignment explanation
Indices: 80052108--80052210 Score: 127
Period size: 44 Copynumber: 2.3 Consensus size: 45
80052098 AACAAAAATG
* * * *
80052108 AGCCATGTAAGTCCATATTAGAAATATGGCTTTGGAGACAGGATTG
1 AGCCATGTAAGTCCATATTA-AAATATGGCATTAGAGACAGGAATA
*
80052154 AGCCATGTAAGTCCATATT-ATATATGGCATTAGAGACAGGAATA
1 AGCCATGTAAGTCCATATTAAAATATGGCATTAGAGACAGGAATA
**
80052198 ATTCATGTAAGTC
1 AGCCATGTAAGTC
80052211 AATGTCAAAG
Statistics
Matches: 50, Mismatches: 7, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
44 31 0.62
46 19 0.38
ACGTcount: A:0.35, C:0.14, G:0.22, T:0.29
Consensus pattern (45 bp):
AGCCATGTAAGTCCATATTAAAATATGGCATTAGAGACAGGAATA
Found at i:80059322 original size:44 final size:45
Alignment explanation
Indices: 80059272--80059374 Score: 118
Period size: 44 Copynumber: 2.3 Consensus size: 45
80059262 TGTCTTTGAC
* * * **
80059272 ATGGACTTACATGAATTATTCTTGTCTCCAGTGCCATA-TATAAT
1 ATGGACTTACATGAATCAATCCTGTCTCCAAAGCCATATTATAAT
** *
80059316 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATTTCTAAT
1 ATGGACTTACATGAATCAATCCTGTCTCCAAAGCCATA-TTATAAT
80059362 ATGGACTTACATG
1 ATGGACTTACATG
80059375 GCTCATTTTT
Statistics
Matches: 49, Mismatches: 8, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
44 31 0.63
46 18 0.37
ACGTcount: A:0.29, C:0.21, G:0.15, T:0.35
Consensus pattern (45 bp):
ATGGACTTACATGAATCAATCCTGTCTCCAAAGCCATATTATAAT
Found at i:80064142 original size:16 final size:15
Alignment explanation
Indices: 80064116--80064147 Score: 55
Period size: 16 Copynumber: 2.1 Consensus size: 15
80064106 TACACTCATT
80064116 TATATTATTTTTTAA
1 TATATTATTTTTTAA
80064131 TATATATATTTTTTAA
1 TATAT-TATTTTTTAA
80064147 T
1 T
80064148 TTAATATTCT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 5 0.31
16 11 0.69
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (15 bp):
TATATTATTTTTTAA
Found at i:80076177 original size:34 final size:34
Alignment explanation
Indices: 80076126--80076192 Score: 107
Period size: 34 Copynumber: 2.0 Consensus size: 34
80076116 GTTCTCTCTC
* *
80076126 TTTTGTTTTAAGAACTTTTAGTTACTGAATCTGT
1 TTTTCTTTTAAGAACTTTTAGTTACCGAATCTGT
*
80076160 TTTTCTTTTAAGCACTTTTAGTTACCGAATCTG
1 TTTTCTTTTAAGAACTTTTAGTTACCGAATCTG
80076193 ATTCAATTCG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
34 30 1.00
ACGTcount: A:0.22, C:0.13, G:0.13, T:0.51
Consensus pattern (34 bp):
TTTTCTTTTAAGAACTTTTAGTTACCGAATCTGT
Found at i:80082023 original size:12 final size:11
Alignment explanation
Indices: 80082004--80082034 Score: 53
Period size: 12 Copynumber: 2.7 Consensus size: 11
80081994 TGTGTAACTT
80082004 TTATTTTATTA
1 TTATTTTATTA
80082015 TTAATTTTATTA
1 TT-ATTTTATTA
80082027 TTATTTTA
1 TTATTTTA
80082035 AAAGAATTTA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
11 8 0.42
12 11 0.58
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (11 bp):
TTATTTTATTA
Found at i:80082024 original size:17 final size:17
Alignment explanation
Indices: 80082002--80082035 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
80081992 ATTGTGTAAC
80082002 TTTTATT-TTATTATTAA
1 TTTTATTATTATT-TTAA
80082019 TTTTATTATTATTTTAA
1 TTTTATTATTATTTTAA
80082036 AAGAATTTAC
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 11 0.69
18 5 0.31
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (17 bp):
TTTTATTATTATTTTAA
Found at i:80082171 original size:13 final size:15
Alignment explanation
Indices: 80082153--80082184 Score: 50
Period size: 13 Copynumber: 2.3 Consensus size: 15
80082143 TTGATGTATT
80082153 ATATTTTTA-A-AAA
1 ATATTTTTATATAAA
80082166 ATATTTTTATATAAA
1 ATATTTTTATATAAA
80082181 ATAT
1 ATAT
80082185 AATATTAAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
13 9 0.53
14 1 0.06
15 7 0.41
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (15 bp):
ATATTTTTATATAAA
Found at i:80089426 original size:15 final size:15
Alignment explanation
Indices: 80089406--80089435 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
80089396 GCTAAACAAA
80089406 GGGTGAATCCAAGCC
1 GGGTGAATCCAAGCC
80089421 GGGTGAATCCAAGCC
1 GGGTGAATCCAAGCC
80089436 TTTAGAGGGG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.27, C:0.27, G:0.33, T:0.13
Consensus pattern (15 bp):
GGGTGAATCCAAGCC
Found at i:80092533 original size:14 final size:15
Alignment explanation
Indices: 80092497--80092533 Score: 51
Period size: 14 Copynumber: 2.6 Consensus size: 15
80092487 CAAACATTTG
80092497 TCAACATTAATTATT
1 TCAACATTAATTATT
*
80092512 T-AATATTAATTATT
1 TCAACATTAATTATT
80092526 TCAA-ATTA
1 TCAACATTA
80092534 CATTTTATAG
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
14 17 0.85
15 3 0.15
ACGTcount: A:0.43, C:0.08, G:0.00, T:0.49
Consensus pattern (15 bp):
TCAACATTAATTATT
Found at i:80092614 original size:61 final size:61
Alignment explanation
Indices: 80092548--80092735 Score: 181
Period size: 61 Copynumber: 3.1 Consensus size: 61
80092538 TTATAGTATC
80092548 ATATATTATGATTTTAATAAATTCATATAAGAATATTAATTATTAAGAATTTTATTAAATT
1 ATATATTATGATTTTAATAAATTCATATAAGAATATTAATTATTAAGAATTTTATTAAATT
* * * * * * ** * *
80092609 ATATATTTTAATTATAATATATTTA-ATAATAATTATGTTAA--ATT-A-TCTTTTA-TAGTATC
1 ATATATTATGATTTTAATAAATTCATATAAGAA-TA--TTAATTATTAAGAATTTTATTA-AATT
* * *
80092668 ATATATTATGATTTGAGTAAATTCATATAAGAATATTGATTATTAAGAATTTTATTAAATT
1 ATATATTATGATTTTAATAAATTCATATAAGAATATTAATTATTAAGAATTTTATTAAATT
80092729 ATATATT
1 ATATATT
80092736 TTAATTATAA
Statistics
Matches: 94, Mismatches: 23, Indels: 20
0.69 0.17 0.15
Matches are distributed among these distances:
57 3 0.03
58 2 0.02
59 30 0.32
60 14 0.15
61 39 0.41
62 2 0.02
63 4 0.04
ACGTcount: A:0.43, C:0.02, G:0.06, T:0.49
Consensus pattern (61 bp):
ATATATTATGATTTTAATAAATTCATATAAGAATATTAATTATTAAGAATTTTATTAAATT
Found at i:80092630 original size:16 final size:16
Alignment explanation
Indices: 80092609--80092654 Score: 51
Period size: 16 Copynumber: 2.9 Consensus size: 16
80092599 TTATTAAATT
80092609 ATATATTTTAATTATA
1 ATATATTTTAATTATA
*
80092625 ATATA-TTTAATAATA
1 ATATATTTTAATTATA
*
80092640 AT-TATGTTAAATTAT
1 ATATAT-TTTAATTAT
80092655 CTTTTATAGT
Statistics
Matches: 25, Mismatches: 3, Indels: 4
0.78 0.09 0.12
Matches are distributed among these distances:
14 2 0.08
15 11 0.44
16 12 0.48
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.52
Consensus pattern (16 bp):
ATATATTTTAATTATA
Found at i:80092721 original size:120 final size:120
Alignment explanation
Indices: 80092504--80092772 Score: 445
Period size: 120 Copynumber: 2.2 Consensus size: 120
80092494 TTGTCAACAT
* *
80092504 TAAT-TATTTAATATTAATTAT-TTCAAATTACATTTTATAGTATCATATATTATGATTTTAATA
1 TAATATATTTAATAATAATTATGTT-AAATTACATTTTATAGTATCATATATTATGATTTGAATA
80092567 AATTCATATAAGAATATTAATTATTAAGAATTTTATTAAATTATATATTTTAATTA
65 AATTCATATAAGAATATTAATTATTAAGAATTTTATTAAATTATATATTTTAATTA
*
80092623 TAATATATTTAATAATAATTATGTTAAATTATC-TTTTATAGTATCATATATTATGATTTGAGTA
1 TAATATATTTAATAATAATTATGTTAAATTA-CATTTTATAGTATCATATATTATGATTTGAATA
*
80092687 AATTCATATAAGAATATTGATTATTAAGAATTTTATTAAATTATATATTTTAATTA
65 AATTCATATAAGAATATTAATTATTAAGAATTTTATTAAATTATATATTTTAATTA
*
80092743 TAAGATATTTAATAATAATTATGTTTAAAT
1 TAATATATTTAATAATAATTATG-TTAAAT
80092773 ATGATTAAAT
Statistics
Matches: 141, Mismatches: 5, Indels: 6
0.93 0.03 0.04
Matches are distributed among these distances:
119 4 0.03
120 128 0.91
121 9 0.06
ACGTcount: A:0.43, C:0.03, G:0.05, T:0.49
Consensus pattern (120 bp):
TAATATATTTAATAATAATTATGTTAAATTACATTTTATAGTATCATATATTATGATTTGAATAA
ATTCATATAAGAATATTAATTATTAAGAATTTTATTAAATTATATATTTTAATTA
Found at i:80092732 original size:59 final size:58
Alignment explanation
Indices: 80092549--80092732 Score: 139
Period size: 57 Copynumber: 3.1 Consensus size: 58
80092539 TATAGTATCA
*
80092549 TATATTATGATTTTAATAAATTCATATAAGAATATTAATTATTAAGAATTTTATTAAAT
1 TATATTATGATTTAAATAAATTCATATAAGAATATT-ATTATTAAGAATTTTATTAAAT
* * * * *
80092608 TATA-TAT--TTTAATTATAATAT-ATTTAATAATAATTA-TGTTAA-ATTATCTTT-TATAGTA
1 TATATTATGATTTAAATA-AAT-TCATATAAGAAT-ATTATTATTAAGA--AT-TTTAT-TA-AA
80092666 T
58 T
* *
80092667 CATATATTATGATTTGAGTAAATTCATATAAGAATATTGATTATTAAGAATTTTATTAAAT
1 --TATATTATGATTTAAATAAATTCATATAAGAATATT-ATTATTAAGAATTTTATTAAAT
80092728 TATAT
1 TATAT
80092733 ATTTTAATTA
Statistics
Matches: 95, Mismatches: 12, Indels: 36
0.66 0.08 0.25
Matches are distributed among these distances:
55 1 0.01
56 11 0.12
57 15 0.16
58 12 0.13
59 11 0.12
61 6 0.06
62 12 0.13
63 15 0.16
64 11 0.12
65 1 0.01
ACGTcount: A:0.43, C:0.02, G:0.06, T:0.49
Consensus pattern (58 bp):
TATATTATGATTTAAATAAATTCATATAAGAATATTATTATTAAGAATTTTATTAAAT
Found at i:80093007 original size:16 final size:16
Alignment explanation
Indices: 80092986--80093053 Score: 109
Period size: 16 Copynumber: 4.2 Consensus size: 16
80092976 GATTTGCTAT
*
80092986 TACACCTCTATTCCAA
1 TACACCTCTAATCCAA
*
80093002 TACACCTCTAATCCAT
1 TACACCTCTAATCCAA
80093018 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
*
80093034 TACACTTCTAATCCAA
1 TACACCTCTAATCCAA
80093050 TACA
1 TACA
80093054 GCGAACCAAA
Statistics
Matches: 48, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 48 1.00
ACGTcount: A:0.35, C:0.35, G:0.00, T:0.29
Consensus pattern (16 bp):
TACACCTCTAATCCAA
Found at i:80103329 original size:42 final size:42
Alignment explanation
Indices: 80103210--80103331 Score: 190
Period size: 42 Copynumber: 2.8 Consensus size: 42
80103200 CGCCATTGTC
* * *
80103210 GAGGCGCCAAAGAAAGTGGAAGAAGCCATTGTTGACGCTCCAAAG
1 GAGGCCCCAAAGAAA---GAAGAAGTCATTGTTGAGGCTCCAAAG
80103255 GAGGCCCCAAAGAAAGAAGAAGTCATTGTTGAGGCTCCAAAG
1 GAGGCCCCAAAGAAAGAAGAAGTCATTGTTGAGGCTCCAAAG
80103297 GAGGCCCCAAAGAAAGAAGAAGTCATTGTTGAGGC
1 GAGGCCCCAAAGAAAGAAGAAGTCATTGTTGAGGC
80103332 AAAAACAATG
Statistics
Matches: 74, Mismatches: 3, Indels: 3
0.93 0.04 0.04
Matches are distributed among these distances:
42 60 0.81
45 14 0.19
ACGTcount: A:0.37, C:0.19, G:0.30, T:0.14
Consensus pattern (42 bp):
GAGGCCCCAAAGAAAGAAGAAGTCATTGTTGAGGCTCCAAAG
Found at i:80107105 original size:33 final size:33
Alignment explanation
Indices: 80107062--80107130 Score: 129
Period size: 33 Copynumber: 2.1 Consensus size: 33
80107052 AAAGATCAAA
80107062 TTTTAAAACTTGAAAAGATTTAATATACTAAAT
1 TTTTAAAACTTGAAAAGATTTAATATACTAAAT
*
80107095 TTTTAGAACTTGAAAAGATTTAATATACTAAAT
1 TTTTAAAACTTGAAAAGATTTAATATACTAAAT
80107128 TTT
1 TTT
80107131 AAAGAAAACA
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 35 1.00
ACGTcount: A:0.45, C:0.06, G:0.07, T:0.42
Consensus pattern (33 bp):
TTTTAAAACTTGAAAAGATTTAATATACTAAAT
Found at i:80118488 original size:132 final size:132
Alignment explanation
Indices: 80118251--80119451 Score: 2060
Period size: 132 Copynumber: 9.1 Consensus size: 132
80118241 CCCAGAGAAC
* *
80118251 AGATCAAAGATAACAGGTCCTATCTTCCTATAATGATTGGAAGTGGATCGACGACGCAGATCTTG
1 AGATCGAAGATAGCAGGTCCTATCTTCCTATAATGATTGGAAGTGGATCGACGACGCAGATCTTG
80118316 TCTTCCCATATTGGTGGCGAAGTAGATCGCAGAAAGCAGATCTTGTCTTCATGTATTGGCGTGAA
66 TCTTCCCATATTGGTGGCGAAGTAGATCGCAGAAAGCAGATCTTGTCTTCATGTATTGGCGTGAA
80118381 GT
131 GT
* * *
80118383 AGATCGAAGATAGTAGGTCCTATCTTCCTATAATGATTGGAAGTGAATCGATGACGCAGATCTTG
1 AGATCGAAGATAGCAGGTCCTATCTTCCTATAATGATTGGAAGTGGATCGACGACGCAGATCTTG
80118448 TCTTCCCATATTGGTGGCGAAGTAGATCGCAGAAAGCAGATCTTGTCTTCATGTATTGGCGTGAA
66 TCTTCCCATATTGGTGGCGAAGTAGATCGCAGAAAGCAGATCTTGTCTTCATGTATTGGCGTGAA
80118513 GT
131 GT
80118515 AGATCGAAGATAGCAGGTCCTATCTTCCTATAATGATTGGAAGTGGATCGACGACGCAGATCTTG
1 AGATCGAAGATAGCAGGTCCTATCTTCCTATAATGATTGGAAGTGGATCGACGACGCAGATCTTG
80118580 TCTTCCCATATTGGTGGCGAAGTAGATCGCAGAAAGCAGATCTTGTCTTCATGTATTGGCGTGAA
66 TCTTCCCATATTGGTGGCGAAGTAGATCGCAGAAAGCAGATCTTGTCTTCATGTATTGGCGTGAA
80118645 GT
131 GT
80118647 AGATCGAAGATAGCAGGTCCTATCTTCCTATAATGATTGGAAGTGGATCGACGACGCAGATCTTG
1 AGATCGAAGATAGCAGGTCCTATCTTCCTATAATGATTGGAAGTGGATCGACGACGCAGATCTTG
80118712 TCTTCCCATATTGGTGGCGAAGTAGATCGCAGAAAGCAGATCTTGTCTTCATGTATTGGCGTGAA
66 TCTTCCCATATTGGTGGCGAAGTAGATCGCAGAAAGCAGATCTTGTCTTCATGTATTGGCGTGAA
80118777 GT
131 GT
* * * * * *
80118779 AGATCGAAGATAGCAGGTCCTATATTCCTATATTGATAGGAAGTGGATCCAAGATGCAGATCTTG
1 AGATCGAAGATAGCAGGTCCTATCTTCCTATAATGATTGGAAGTGGATCGACGACGCAGATCTTG
80118844 TCTTCCCATATTGGTGGCGAAGTAGATCGCAGAAAGCAGATCTTGTCTTCATGTATTGGCGTGAA
66 TCTTCCCATATTGGTGGCGAAGTAGATCGCAGAAAGCAGATCTTGTCTTCATGTATTGGCGTGAA
80118909 GT
131 GT
80118911 AGATCGAAGATAGCAGGTCCTATCTTCCTATAATGATTGGAAGTGGATCGACGACGCAGATCTTG
1 AGATCGAAGATAGCAGGTCCTATCTTCCTATAATGATTGGAAGTGGATCGACGACGCAGATCTTG
80118976 TCTTCCCATATTGGTGGCGAAGTAGATCGCAGAAAGCAGATCTTGTCTTCATGTATTGGCGTGAA
66 TCTTCCCATATTGGTGGCGAAGTAGATCGCAGAAAGCAGATCTTGTCTTCATGTATTGGCGTGAA
80119041 GT
131 GT
* * * * * *
80119043 AGATCGAAGATAGCAGGTCCTATATTCCTATATTGATAGGAAGTGGATCCAAGATGCAGATCTTG
1 AGATCGAAGATAGCAGGTCCTATCTTCCTATAATGATTGGAAGTGGATCGACGACGCAGATCTTG
80119108 TCTTCCCATATTGGTGGCGAAGTAGATCGCAGAAAGCAGATCTTGTCTTCATGTATTGGCGTGAA
66 TCTTCCCATATTGGTGGCGAAGTAGATCGCAGAAAGCAGATCTTGTCTTCATGTATTGGCGTGAA
80119173 GT
131 GT
* * *
80119175 AGATCGAAGATAGCAGGTCCTATCTTCCTATATTGATAGGAAGTGGATCCACGACGCAGATCTTG
1 AGATCGAAGATAGCAGGTCCTATCTTCCTATAATGATTGGAAGTGGATCGACGACGCAGATCTTG
80119240 TCTTCCCATATTGGTGGCGAAGTAGATCGCAGAAAGCAGATCTTGTCTTCATGTATTGGCGTGAA
66 TCTTCCCATATTGGTGGCGAAGTAGATCGCAGAAAGCAGATCTTGTCTTCATGTATTGGCGTGAA
80119305 GT
131 GT
* * * * **
80119307 AGATCGAAGATAGCAGGTCCTATCTTCCTATATTGATAGGAAGTGGATCCAAGATACAGATCTTG
1 AGATCGAAGATAGCAGGTCCTATCTTCCTATAATGATTGGAAGTGGATCGACGACGCAGATCTTG
* ** * ** * * *
80119372 TCTTCCCATACTGGTGTTGAAGTAGATCGAAGATTGCAGATCTTGCCTTCCTGTATTTGGCAGAG
66 TCTTCCCATATTGGTGGCGAAGTAGATCGCAGAAAGCAGATCTTGTCTTCATGTA-TTGGC-GTG
*
80119437 AAGC
129 AAGT
80119441 AGATCGAAGAT
1 AGATCGAAGAT
80119452 TACAGTCTTA
Statistics
Matches: 1025, Mismatches: 42, Indels: 2
0.96 0.04 0.00
Matches are distributed among these distances:
132 1004 0.98
133 5 0.00
134 16 0.02
ACGTcount: A:0.27, C:0.18, G:0.26, T:0.29
Consensus pattern (132 bp):
AGATCGAAGATAGCAGGTCCTATCTTCCTATAATGATTGGAAGTGGATCGACGACGCAGATCTTG
TCTTCCCATATTGGTGGCGAAGTAGATCGCAGAAAGCAGATCTTGTCTTCATGTATTGGCGTGAA
GT
Found at i:80122673 original size:51 final size:52
Alignment explanation
Indices: 80122541--80122677 Score: 138
Period size: 51 Copynumber: 2.7 Consensus size: 52
80122531 TGTGTTGTTA
* * * *
80122541 GACAAAATATGTAAAT-GTTATGAGCTAAATTTGTTAAATCAAGACCAAATT
1 GACACAATATGTAAATATTTTTGGGCTAAATTTGTTAAATCAAGACCAAATT
* * * * *
80122592 GATAGAATATGTAAATATTTTTGGGTTAAATTTGTTAAA-CAATACCAATTT
1 GACACAATATGTAAATATTTTTGGGCTAAATTTGTTAAATCAAGACCAAATT
*
80122643 GACACAATGTGTAAA-A-TTTTGAGGACTAAATTTGT
1 GACACAATATGTAAATATTTTTG-GG-CTAAATTTGT
80122678 CATTACACCA
Statistics
Matches: 71, Mismatches: 12, Indels: 6
0.80 0.13 0.07
Matches are distributed among these distances:
49 5 0.07
50 3 0.04
51 45 0.63
52 18 0.25
ACGTcount: A:0.41, C:0.08, G:0.15, T:0.36
Consensus pattern (52 bp):
GACACAATATGTAAATATTTTTGGGCTAAATTTGTTAAATCAAGACCAAATT
Found at i:80131335 original size:15 final size:14
Alignment explanation
Indices: 80131311--80131340 Score: 51
Period size: 15 Copynumber: 2.1 Consensus size: 14
80131301 AACACAAATA
80131311 ATAAAAAACAACTG
1 ATAAAAAACAACTG
80131325 ATAAAAGAACAACTG
1 ATAAAA-AACAACTG
80131340 A
1 A
80131341 AACCAAAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 6 0.40
15 9 0.60
ACGTcount: A:0.63, C:0.13, G:0.10, T:0.13
Consensus pattern (14 bp):
ATAAAAAACAACTG
Found at i:80133737 original size:28 final size:28
Alignment explanation
Indices: 80133705--80133764 Score: 93
Period size: 28 Copynumber: 2.1 Consensus size: 28
80133695 CATATTAATA
80133705 GGGTATAGGAAAAGTCTCATAACTTATG
1 GGGTATAGGAAAAGTCTCATAACTTATG
* * *
80133733 GGGTATAGGAAGAGTTTTATAACTTATG
1 GGGTATAGGAAAAGTCTCATAACTTATG
80133761 GGGT
1 GGGT
80133765 TGATAATGAC
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.32, C:0.07, G:0.30, T:0.32
Consensus pattern (28 bp):
GGGTATAGGAAAAGTCTCATAACTTATG
Found at i:80139649 original size:28 final size:28
Alignment explanation
Indices: 80139600--80139659 Score: 75
Period size: 28 Copynumber: 2.1 Consensus size: 28
80139590 CATATTAATA
*
80139600 GGGTATAGGAAAAGTCTCATAACTTTTG
1 GGGTATAGGAAAAGTCTCATAACTTATG
** * *
80139628 GGGTATAGGAAGTGTTTTATAACTTATG
1 GGGTATAGGAAAAGTCTCATAACTTATG
80139656 GGGT
1 GGGT
80139660 TGATAATGAC
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.28, C:0.07, G:0.30, T:0.35
Consensus pattern (28 bp):
GGGTATAGGAAAAGTCTCATAACTTATG
Found at i:80143898 original size:53 final size:53
Alignment explanation
Indices: 80143815--80143917 Score: 134
Period size: 53 Copynumber: 1.9 Consensus size: 53
80143805 TACATATCGC
* * * * *
80143815 ACCGATGTCATATCCTAGATATGGTATTATACGGAGGCACATAATCACATCAT
1 ACCGATGCCATAGCCCAGATATGGTATTATACGAAAGCACATAATCACATCAT
* * *
80143868 ACCGATGCCATAGCCCAGCTATGGTCTTATACGAAAGTACATAATCACAT
1 ACCGATGCCATAGCCCAGATATGGTATTATACGAAAGCACATAATCACAT
80143918 ATTTCCATGA
Statistics
Matches: 42, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
53 42 1.00
ACGTcount: A:0.34, C:0.23, G:0.17, T:0.26
Consensus pattern (53 bp):
ACCGATGCCATAGCCCAGATATGGTATTATACGAAAGCACATAATCACATCAT
Found at i:80144279 original size:19 final size:19
Alignment explanation
Indices: 80144255--80144352 Score: 155
Period size: 19 Copynumber: 5.2 Consensus size: 19
80144245 AATCTTTAAG
*
80144255 GATATGTAATCTTAGATAT
1 GATATGCAATCTTAGATAT
80144274 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
80144293 GATA--CAATCTTAGATAT
1 GATATGCAATCTTAGATAT
80144310 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
80144329 GATATGCAATCTTGAAGATAT
1 GATATGCAATCTT--AGATAT
80144350 GAT
1 GAT
80144353 CCTGTAATCT
Statistics
Matches: 74, Mismatches: 1, Indels: 6
0.91 0.01 0.07
Matches are distributed among these distances:
17 17 0.23
19 48 0.65
21 9 0.12
ACGTcount: A:0.38, C:0.09, G:0.16, T:0.37
Consensus pattern (19 bp):
GATATGCAATCTTAGATAT
Found at i:80144285 original size:36 final size:36
Alignment explanation
Indices: 80144245--80144332 Score: 121
Period size: 36 Copynumber: 2.5 Consensus size: 36
80144235 ATGGAAATAT
80144245 AATCTTTAAGGATATG-T-AATCTTAGATATGATATGC
1 AATCTTT-A-GATATGATAAATCTTAGATATGATATGC
80144281 AATC-TTAGATATGATACAATCTTAGATATGATATGC
1 AATCTTTAGATATGATA-AATCTTAGATATGATATGC
80144317 AATC-TTAGATATGATA
1 AATCTTTAGATATGATA
80144333 TGCAATCTTG
Statistics
Matches: 49, Mismatches: 0, Indels: 6
0.89 0.00 0.11
Matches are distributed among these distances:
33 6 0.12
34 2 0.04
35 2 0.04
36 39 0.80
ACGTcount: A:0.39, C:0.09, G:0.15, T:0.38
Consensus pattern (36 bp):
AATCTTTAGATATGATAAATCTTAGATATGATATGC
Found at i:80144291 original size:14 final size:15
Alignment explanation
Indices: 80144274--80144330 Score: 53
Period size: 17 Copynumber: 3.5 Consensus size: 15
80144264 TCTTAGATAT
80144274 GATATG-CAATCTTA
1 GATATGACAATCTTA
80144288 GATATGATACAATCTTA
1 GATATG--ACAATCTTA
80144305 GATATGATATGCAATCTTA
1 GATATG--A--CAATCTTA
80144324 GATATGA
1 GATATGA
80144331 TATGCAATCT
Statistics
Matches: 38, Mismatches: 0, Indels: 7
0.84 0.00 0.16
Matches are distributed among these distances:
14 6 0.16
17 18 0.47
19 14 0.37
ACGTcount: A:0.39, C:0.11, G:0.16, T:0.35
Consensus pattern (15 bp):
GATATGACAATCTTA
Found at i:80150226 original size:51 final size:52
Alignment explanation
Indices: 80150136--80150249 Score: 135
Period size: 51 Copynumber: 2.2 Consensus size: 52
80150126 TGTTACGAGC
* *
80150136 TAAATTTGTTAAATCAAGACCAAATTGATAATATATGT-AAATGTTTGTGGGT
1 TAAATTTGTTAAATCAAGACCAAATTGATAATATATGTAAAATGTTTAT-GAT
* * * *
80150188 TAAATTTGTTAAA-CAATACCAATTTGATAGA-ATGTGTAAAATTTTTATGAT
1 TAAATTTGTTAAATCAAGACCAAATTGATA-ATATATGTAAAATGTTTATGAT
80150239 TAAATTTGTTA
1 TAAATTTGTTA
80150250 TTATACCAAT
Statistics
Matches: 54, Mismatches: 6, Indels: 5
0.83 0.09 0.08
Matches are distributed among these distances:
51 32 0.59
52 22 0.41
ACGTcount: A:0.39, C:0.05, G:0.14, T:0.41
Consensus pattern (52 bp):
TAAATTTGTTAAATCAAGACCAAATTGATAATATATGTAAAATGTTTATGAT
Found at i:80150718 original size:19 final size:19
Alignment explanation
Indices: 80150691--80150727 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
80150681 TGTAATATTA
*
80150691 AATTTAATTAAATGCAATT
1 AATTAAATTAAATGCAATT
*
80150710 AATTAAATTAATTGCAAT
1 AATTAAATTAAATGCAAT
80150728 GATTTTTTTT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.49, C:0.05, G:0.05, T:0.41
Consensus pattern (19 bp):
AATTAAATTAAATGCAATT
Found at i:80154350 original size:87 final size:85
Alignment explanation
Indices: 80154163--80154351 Score: 211
Period size: 86 Copynumber: 2.2 Consensus size: 85
80154153 TTTTTTTAAA
* * * * * *
80154163 AAAAAAAGTAATTAAG-CTGTTCTTTTTTTTATTCAATTGAGTACTTGAATTTTTAAAATGTATT
1 AAAAAAAGTAATTAAGTCTCTTCTTTTTTTCACTCAATTGAGTACTTAAACTTTTAAAATGCATT
*
80154227 AAAAAAACTTTAAACTTTTC
66 AAAAAAACTTTAAAATTTTC
* * *
80154247 AAAAAAAATAATTAAGTCTCTGTCTTTTTTTCACTCATTTG-GATATTTAAACTTTTAAAATGCA
1 AAAAAAAGTAATTAAGTCTCT-TCTTTTTTTCACTCAATTGAG-TACTTAAACTTTTAAAATGCA
* *
80154311 TTAAAAAACTCTTTAAAATTTTT
64 TTAAAAAA-ACTTTAAAATTTTC
**
80154334 TTAAAAAGTAATTAAGTC
1 AAAAAAAGTAATTAAGTC
80154352 CTTACTCTTA
Statistics
Matches: 86, Mismatches: 15, Indels: 5
0.81 0.14 0.05
Matches are distributed among these distances:
84 15 0.17
85 4 0.05
86 41 0.48
87 26 0.30
ACGTcount: A:0.40, C:0.10, G:0.07, T:0.43
Consensus pattern (85 bp):
AAAAAAAGTAATTAAGTCTCTTCTTTTTTTCACTCAATTGAGTACTTAAACTTTTAAAATGCATT
AAAAAAACTTTAAAATTTTC
Found at i:80154387 original size:10 final size:10
Alignment explanation
Indices: 80154368--80154476 Score: 60
Period size: 10 Copynumber: 10.5 Consensus size: 10
80154358 CTTATTAAAG
80154368 ATTATAAAAAA
1 ATTAT-AAAAA
80154379 ATTATAAAAATA
1 ATTAT-AAAA-A
* *
80154391 ATAAATAATAA
1 AT-TATAAAAA
*
80154402 ATTTTATAAAA
1 ATTATA-AAAA
*
80154413 ATTAT--TAA
1 ATTATAAAAA
*
80154421 ATTTTAATAAA
1 ATTATAA-AAA
*
80154432 AATATAAAAA
1 ATTATAAAAA
*
80154442 ATTAAAAAAA
1 ATTATAAAAA
* *
80154452 ATTGTTAAAA
1 ATTATAAAAA
*
80154462 ATTTTAAAAA
1 ATTATAAAAA
80154472 ATTAT
1 ATTAT
80154477 TGTAAACTAT
Statistics
Matches: 73, Mismatches: 19, Indels: 13
0.70 0.18 0.12
Matches are distributed among these distances:
8 6 0.08
10 32 0.44
11 27 0.37
12 6 0.08
13 2 0.03
ACGTcount: A:0.63, C:0.00, G:0.01, T:0.36
Consensus pattern (10 bp):
ATTATAAAAA
Found at i:80154760 original size:27 final size:27
Alignment explanation
Indices: 80154730--80154801 Score: 90
Period size: 27 Copynumber: 2.7 Consensus size: 27
80154720 CTTTATAAAA
* *
80154730 TTTATAATTTTTTATATTTCTATGTAT
1 TTTATAATTTTTAATATTTCTATATAT
* * *
80154757 TTTATAATTTTTAAGATTTTTATATTT
1 TTTATAATTTTTAATATTTCTATATAT
*
80154784 TTTCTAATTTTTAATATT
1 TTTATAATTTTTAATATT
80154802 AAATTTTTTA
Statistics
Matches: 38, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 38 1.00
ACGTcount: A:0.28, C:0.03, G:0.03, T:0.67
Consensus pattern (27 bp):
TTTATAATTTTTAATATTTCTATATAT
Found at i:80155003 original size:91 final size:87
Alignment explanation
Indices: 80154908--80155074 Score: 228
Period size: 91 Copynumber: 1.9 Consensus size: 87
80154898 TTTGAAGGTC
* * *
80154908 TTTTTAATGCATTTTGAAAGTTTAAGTACCCAATTAAGTGCAAAAAAAAAAATA-AGAGCTTAAT
1 TTTTTAATGCATTTTAAAAGTTTAAGTACCCAAATAAGT--AAAAAAAAAAA-AGA-AGCTAAAT
*
80154972 TGCTTTTTCTAAAAAAGTTTAAAAGCT
62 T-ATTTTTCTAAAAAAGTTTAAAAGCT
* *
80154999 TTTTTAATGTATTTTAAAAGTTTAAGTACCTAAATAAGTAAAAAAAAAAAAGAAGCTAAATTATT
1 TTTTTAATGCATTTTAAAAGTTTAAGTACCCAAATAAGTAAAAAAAAAAAAGAAGCTAAATTATT
80155064 TTTCTAAAAAA
66 TTTCTAAAAAA
80155075 AATTTGAGGG
Statistics
Matches: 69, Mismatches: 6, Indels: 6
0.85 0.07 0.07
Matches are distributed among these distances:
87 13 0.19
88 9 0.13
89 12 0.17
91 35 0.51
ACGTcount: A:0.47, C:0.08, G:0.10, T:0.35
Consensus pattern (87 bp):
TTTTTAATGCATTTTAAAAGTTTAAGTACCCAAATAAGTAAAAAAAAAAAAGAAGCTAAATTATT
TTTCTAAAAAAGTTTAAAAGCT
Found at i:80165358 original size:13 final size:13
Alignment explanation
Indices: 80165342--80165367 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
80165332 TAATTTAATA
80165342 ATATATTAAAAAT
1 ATATATTAAAAAT
80165355 ATATATTAAAAAT
1 ATATATTAAAAAT
80165368 GAAAAGCTTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (13 bp):
ATATATTAAAAAT
Found at i:80171771 original size:20 final size:20
Alignment explanation
Indices: 80171748--80171790 Score: 68
Period size: 20 Copynumber: 2.1 Consensus size: 20
80171738 GAAAATTGGG
*
80171748 TAATTTATGGACAAAAATGA
1 TAATTTATGGACAAAAAAGA
*
80171768 TAATTTATGGATAAAAAAGA
1 TAATTTATGGACAAAAAAGA
80171788 TAA
1 TAA
80171791 GACCTTTGTT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.53, C:0.02, G:0.14, T:0.30
Consensus pattern (20 bp):
TAATTTATGGACAAAAAAGA
Found at i:80174407 original size:4 final size:4
Alignment explanation
Indices: 80174398--80174443 Score: 67
Period size: 4 Copynumber: 11.5 Consensus size: 4
80174388 CTACCACATC
*
80174398 TACA TACA TACT TACA -AGCA TACA TACA TACA TACA TACA TACA TA
1 TACA TACA TACA TACA TA-CA TACA TACA TACA TACA TACA TACA TA
80174444 TAAAGATTGT
Statistics
Matches: 38, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
3 1 0.03
4 36 0.95
5 1 0.03
ACGTcount: A:0.48, C:0.24, G:0.02, T:0.26
Consensus pattern (4 bp):
TACA
Found at i:80174881 original size:29 final size:29
Alignment explanation
Indices: 80174848--80174906 Score: 118
Period size: 29 Copynumber: 2.0 Consensus size: 29
80174838 TATAACATGC
80174848 AATAAAATCATATTGATAAACCAATTGAA
1 AATAAAATCATATTGATAAACCAATTGAA
80174877 AATAAAATCATATTGATAAACCAATTGAA
1 AATAAAATCATATTGATAAACCAATTGAA
80174906 A
1 A
80174907 CTAGAATGGT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.56, C:0.10, G:0.07, T:0.27
Consensus pattern (29 bp):
AATAAAATCATATTGATAAACCAATTGAA
Found at i:80183513 original size:38 final size:38
Alignment explanation
Indices: 80183462--80183539 Score: 156
Period size: 38 Copynumber: 2.1 Consensus size: 38
80183452 ACCCTATACG
80183462 TAAATAAGCACAATGAAACACACAAAAGAGGAAGCGTA
1 TAAATAAGCACAATGAAACACACAAAAGAGGAAGCGTA
80183500 TAAATAAGCACAATGAAACACACAAAAGAGGAAGCGTA
1 TAAATAAGCACAATGAAACACACAAAAGAGGAAGCGTA
80183538 TA
1 TA
80183540 GAAACCAATT
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 40 1.00
ACGTcount: A:0.55, C:0.15, G:0.18, T:0.12
Consensus pattern (38 bp):
TAAATAAGCACAATGAAACACACAAAAGAGGAAGCGTA
Found at i:80203859 original size:26 final size:26
Alignment explanation
Indices: 80203828--80203878 Score: 77
Period size: 26 Copynumber: 2.0 Consensus size: 26
80203818 TCCAATTATT
*
80203828 TTTTTA-ATAAATAAATATCACTTTTC
1 TTTTTATA-AAATAAATACCACTTTTC
80203854 TTTTTATAAAATAAATACCACTTTT
1 TTTTTATAAAATAAATACCACTTTT
80203879 TAATGGGTAT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
26 22 0.96
27 1 0.04
ACGTcount: A:0.39, C:0.12, G:0.00, T:0.49
Consensus pattern (26 bp):
TTTTTATAAAATAAATACCACTTTTC
Found at i:80204166 original size:74 final size:74
Alignment explanation
Indices: 80204028--80204167 Score: 208
Period size: 74 Copynumber: 1.9 Consensus size: 74
80204018 GTAGTTACCC
* * * *
80204028 TTCTTAATAATATCACTTTTAAAGATCAAATCTGCGTTATCTTTTTAGGAGTGCAATGTATTTTA
1 TTCTTAATAATATCACTTTCAAAGATCAAACCCGCGTTATCTTTTTAGGAGTGCAATGCATTTTA
80204093 CTAATGCAT
66 CTAATGCAT
* * * *
80204102 TTCTTAATAATATCACTTTCAAGGGTCAAACCCGCGTTATCTTTTTAGGGGTGCAATGCGTTTTA
1 TTCTTAATAATATCACTTTCAAAGATCAAACCCGCGTTATCTTTTTAGGAGTGCAATGCATTTTA
80204167 C
66 C
80204168 CAGTGCACTG
Statistics
Matches: 58, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
74 58 1.00
ACGTcount: A:0.28, C:0.16, G:0.15, T:0.41
Consensus pattern (74 bp):
TTCTTAATAATATCACTTTCAAAGATCAAACCCGCGTTATCTTTTTAGGAGTGCAATGCATTTTA
CTAATGCAT
Found at i:80206551 original size:12 final size:12
Alignment explanation
Indices: 80206536--80206560 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
80206526 AGGTCACAGT
80206536 TGATTCGCTACC
1 TGATTCGCTACC
80206548 TGATTCGCTACC
1 TGATTCGCTACC
80206560 T
1 T
80206561 CTTTCTGGAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.16, C:0.32, G:0.16, T:0.36
Consensus pattern (12 bp):
TGATTCGCTACC
Found at i:80208132 original size:18 final size:18
Alignment explanation
Indices: 80208105--80208139 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
80208095 AGGAATGCTA
80208105 TTGTCCCAAAAATGCTTT
1 TTGTCCCAAAAATGCTTT
* *
80208123 TTGTCTCAAAAGTGCTT
1 TTGTCCCAAAAATGCTT
80208140 CTTAAAAGCA
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:0.26, C:0.20, G:0.14, T:0.40
Consensus pattern (18 bp):
TTGTCCCAAAAATGCTTT
Found at i:80212505 original size:25 final size:24
Alignment explanation
Indices: 80212467--80212533 Score: 75
Period size: 25 Copynumber: 2.8 Consensus size: 24
80212457 GGGAAAAAGA
*
80212467 AGAAAGA-AAAAGAAAAAGAGAAGG
1 AGAAAGAGAAGAGAAAAAG-GAAGG
*
80212491 AGAGAATAG-AGAGAAAGAAGGAAGG
1 AGA-AAGAGAAGAGAAA-AAGGAAGG
80212516 AGAAAGAGAAGAGAAAAA
1 AGAAAGAGAAGAGAAAAA
80212534 AAATATAATA
Statistics
Matches: 36, Mismatches: 3, Indels: 8
0.77 0.06 0.17
Matches are distributed among these distances:
24 9 0.25
25 24 0.67
26 3 0.08
ACGTcount: A:0.66, C:0.00, G:0.33, T:0.01
Consensus pattern (24 bp):
AGAAAGAGAAGAGAAAAAGGAAGG
Found at i:80219212 original size:32 final size:34
Alignment explanation
Indices: 80219161--80219226 Score: 82
Period size: 33 Copynumber: 2.0 Consensus size: 34
80219151 ATAGTCGTTG
* *
80219161 TCCCTTTTCTGA-TTATTTTTATTGTATACTTTT
1 TCCCTTTTCTAATTTATTTTTATTATATACTTTT
* *
80219194 TCCC-TTTCTAATTTTTTTTTATTATATGCTTTT
1 TCCCTTTTCTAATTTATTTTTATTATATACTTTT
80219227 ATTATGCGCT
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
32 6 0.21
33 22 0.79
ACGTcount: A:0.15, C:0.15, G:0.05, T:0.65
Consensus pattern (34 bp):
TCCCTTTTCTAATTTATTTTTATTATATACTTTT
Found at i:80223272 original size:5 final size:5
Alignment explanation
Indices: 80223262--80223289 Score: 56
Period size: 5 Copynumber: 5.6 Consensus size: 5
80223252 TATATATATA
80223262 ATAAT ATAAT ATAAT ATAAT ATAAT ATA
1 ATAAT ATAAT ATAAT ATAAT ATAAT ATA
80223290 CTTAATTATT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 23 1.00
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (5 bp):
ATAAT
Found at i:80228029 original size:4 final size:4
Alignment explanation
Indices: 80228020--80228062 Score: 77
Period size: 4 Copynumber: 10.8 Consensus size: 4
80228010 AAGTTAGGAA
*
80228020 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATAT ATG
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATG
80228063 CCCTACAGTT
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
4 37 1.00
ACGTcount: A:0.28, C:0.00, G:0.23, T:0.49
Consensus pattern (4 bp):
ATGT
Found at i:80233598 original size:12 final size:13
Alignment explanation
Indices: 80233581--80233613 Score: 50
Period size: 12 Copynumber: 2.6 Consensus size: 13
80233571 TTGCGAGCGC
*
80233581 TCTTTTTGTTG-T
1 TCTTTTGGTTGCT
80233593 TCTTTTGGTTGCT
1 TCTTTTGGTTGCT
80233606 TCTTTTGG
1 TCTTTTGG
80233614 CATAAATCAC
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
12 10 0.53
13 9 0.47
ACGTcount: A:0.00, C:0.12, G:0.21, T:0.67
Consensus pattern (13 bp):
TCTTTTGGTTGCT
Found at i:80236413 original size:129 final size:125
Alignment explanation
Indices: 80236134--80236573 Score: 486
Period size: 125 Copynumber: 3.4 Consensus size: 125
80236124 CCCAAACGGT
* * * * * * *
80236134 AAATCGAAACCCAGCACGATTGGGCACGATTTATCGAATTTCCAAATACGAAACATTGCCTCATT
1 AAATCGAAACCCAGCACGATTGGGCACGATCTCTCAAACTTCCAAACACGAAATATTGCCTCGTT
* * * * ** *
80236199 TTAATTTGAGAAAACATGGATGAAATTTCAAATGGATATTCTGTATTTTAGTCGAATGGA
66 TTAGTTTAAGAAAACATGGATAAAATTTCAAAAGGATATTCCATATTTTAGTCGAATGAA
* *
80236259 AAATCGAAACCCAACACTATTGGGCACGATCTCTCAAACTTCCAAACACGAAATATTGCCTCGTT
1 AAATCGAAACCCAGCACGATTGGGCACGATCTCTCAAACTTCCAAACACGAAATATTGCCTCGTT
* *
80236324 TTTGTTTAAGAAAACATGAATAAAATTTCAAAAAAAAGGATATTCCATATTTTAGTCGAATGAA
66 TTAGTTTAAGAAAACATGGATAAAATTTC----AAAAGGATATTCCATATTTTAGTCGAATGAA
* *
80236388 AAATCGAAACCCAGCACGATTGGGCACGATCTCTCAGACTCCCCAAACACGAAATATTGCCTCGT
1 AAATCGAAACCCAGCACGATTGGGCACGATCTCTCAAACT-TCCAAACACGAAATATTGCCTCGT
* * * * **
80236453 TTTAGTTTTAA-AAAGCATGGACAAAATTTCCAAAGGATATTTCATATTTTAGTTGAACGGAAAA
65 TTTAG-TTTAAGAAAACATGGATAAAATTTCAAAAGGATATTCCATATTTTAG-T---C-GAATG
80236517 AA
124 AA
* * ** * *
80236519 AAATCGAAACCCAGCACGATTGGGCACAATTTCTCGGACCTCCAAACATGAAATA
1 AAATCGAAACCCAGCACGATTGGGCACGATCTCTCAAACTTCCAAACACGAAATA
80236574 ATCCTTTAAG
Statistics
Matches: 268, Mismatches: 36, Indels: 17
0.83 0.11 0.05
Matches are distributed among these distances:
125 80 0.30
126 20 0.07
127 1 0.00
129 64 0.24
130 57 0.21
131 46 0.17
ACGTcount: A:0.38, C:0.20, G:0.15, T:0.27
Consensus pattern (125 bp):
AAATCGAAACCCAGCACGATTGGGCACGATCTCTCAAACTTCCAAACACGAAATATTGCCTCGTT
TTAGTTTAAGAAAACATGGATAAAATTTCAAAAGGATATTCCATATTTTAGTCGAATGAA
Found at i:80236724 original size:21 final size:23
Alignment explanation
Indices: 80236677--80236730 Score: 60
Period size: 23 Copynumber: 2.5 Consensus size: 23
80236667 CATTCAAGAT
**
80236677 AAAATAATATATAAAACTCTTTA
1 AAAATAATATATAAAACTAATTA
*
80236700 AAAATAATATAT-AAAC-AATTC
1 AAAATAATATATAAAACTAATTA
80236721 AAAAT-ATATA
1 AAAATAATATA
80236731 ATGTGTAAAA
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
20 5 0.18
21 7 0.25
22 4 0.14
23 12 0.43
ACGTcount: A:0.61, C:0.07, G:0.00, T:0.31
Consensus pattern (23 bp):
AAAATAATATATAAAACTAATTA
Found at i:80236956 original size:21 final size:20
Alignment explanation
Indices: 80236930--80236999 Score: 67
Period size: 21 Copynumber: 3.6 Consensus size: 20
80236920 ATATTAGTAT
80236930 ATAAATAGAAATAAAAATATA
1 ATAAATAGAAAT-AAAATATA
*
80236951 ATAAATAGAAAT-ATA-ATA
1 ATAAATAGAAATAAAATATA
*
80236969 AT-AGTAGAAATATAAATA-A
1 ATAAATAGAAATA-AAATATA
*
80236988 ATAAATAAAAAT
1 ATAAATAGAAAT
80237000 TAGATAAATA
Statistics
Matches: 40, Mismatches: 5, Indels: 9
0.74 0.09 0.17
Matches are distributed among these distances:
17 8 0.20
18 5 0.12
19 7 0.17
20 8 0.20
21 12 0.30
ACGTcount: A:0.69, C:0.00, G:0.06, T:0.26
Consensus pattern (20 bp):
ATAAATAGAAATAAAATATA
Found at i:80236978 original size:17 final size:15
Alignment explanation
Indices: 80236938--80236990 Score: 70
Period size: 15 Copynumber: 3.3 Consensus size: 15
80236928 ATATAAATAG
*
80236938 AAATAAAAATATAAT
1 AAATAGAAATATAAT
80236953 AAATAGAAATATAAT
1 AAATAGAAATATAAT
80236968 AATAGTAGAAATATAAAT
1 AA-A-TAGAAATAT-AAT
80236986 AAATA
1 AAATA
80236991 AATAAAAATT
Statistics
Matches: 34, Mismatches: 1, Indels: 5
0.85 0.03 0.12
Matches are distributed among these distances:
15 16 0.47
16 3 0.09
17 10 0.29
18 5 0.15
ACGTcount: A:0.68, C:0.00, G:0.06, T:0.26
Consensus pattern (15 bp):
AAATAGAAATATAAT
Found at i:80236986 original size:44 final size:44
Alignment explanation
Indices: 80236932--80237018 Score: 117
Period size: 44 Copynumber: 2.0 Consensus size: 44
80236922 ATTAGTATAT
80236932 AAATAGAAATAAA-AATATAATAAA-TAGA-AATATAATAATAGTAG
1 AAATAGAAATAAATAA-ATAA-AAATTAGATAA-ATAATAATAGTAG
*
80236976 AAATATAAATAAATAAATAAAAATTAGATAAATAATAATAGTA
1 AAATAGAAATAAATAAATAAAAATTAGATAAATAATAATAGTA
80237019 TTAGAATAAC
Statistics
Matches: 39, Mismatches: 1, Indels: 6
0.85 0.02 0.13
Matches are distributed among these distances:
43 3 0.08
44 32 0.82
45 4 0.10
ACGTcount: A:0.67, C:0.00, G:0.07, T:0.26
Consensus pattern (44 bp):
AAATAGAAATAAATAAATAAAAATTAGATAAATAATAATAGTAG
Found at i:80238154 original size:43 final size:44
Alignment explanation
Indices: 80238061--80238162 Score: 134
Period size: 43 Copynumber: 2.3 Consensus size: 44
80238051 CTCCACTATT
* * *
80238061 GCTTAGGGAGGTAAGATCTGTAATTTTCAGCTTGTTTCCCTACC
1 GCTTAGGGAGATAAGATCTGTAATTTTCAGCCTGTTTCCCCACC
* *
80238105 GCTTAGGGAGATAAGATTTGTAA-TTTCAGCCTGTTTCCCCACT
1 GCTTAGGGAGATAAGATCTGTAATTTTCAGCCTGTTTCCCCACC
* *
80238148 GTTTAGGGGGATAAG
1 GCTTAGGGAGATAAG
80238163 GCTCACCGTC
Statistics
Matches: 51, Mismatches: 7, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
43 30 0.59
44 21 0.41
ACGTcount: A:0.23, C:0.18, G:0.25, T:0.34
Consensus pattern (44 bp):
GCTTAGGGAGATAAGATCTGTAATTTTCAGCCTGTTTCCCCACC
Found at i:80238270 original size:87 final size:87
Alignment explanation
Indices: 80238100--80238271 Score: 202
Period size: 87 Copynumber: 2.0 Consensus size: 87
80238090 GCTTGTTTCC
* * *
80238100 CTACCGCTTAGGGAGATAAGATTTGTAATTTCAGCCTGTTTCCCCACTGTTTAGGGGGATAAGGC
1 CTACCGCTTAGGGAGATAAGATCTGTAATTTCAGCCTATTACCCCACTGTTTAGGGGGATAAGGC
* * *
80238165 TCACCGTCTTCGATCTGCTCCA
66 TCACCATCTTCAACCTGCTCCA
* * * * *
80238187 CTACTGCTTAGGGAGATGAGATCTGTAATTTTCAGCCTATTACCCTATTGTTTAGGGGGTTAAGG
1 CTACCGCTTAGGGAGATAAGATCTGTAA-TTTCAGCCTATTACCCCACTGTTTAGGGGGATAAGG
***
80238252 CT-TGTATCTTCAACCTGCTC
65 CTCACCATCTTCAACCTGCTC
80238272 TCTTGCTACC
Statistics
Matches: 70, Mismatches: 14, Indels: 2
0.81 0.16 0.02
Matches are distributed among these distances:
87 37 0.53
88 33 0.47
ACGTcount: A:0.21, C:0.23, G:0.23, T:0.34
Consensus pattern (87 bp):
CTACCGCTTAGGGAGATAAGATCTGTAATTTCAGCCTATTACCCCACTGTTTAGGGGGATAAGGC
TCACCATCTTCAACCTGCTCCA
Found at i:80238470 original size:133 final size:133
Alignment explanation
Indices: 80238308--80238871 Score: 792
Period size: 133 Copynumber: 4.2 Consensus size: 133
80238298 GGTGGCTTAA
* * *
80238308 ATCTGCTCCATAGCCGATACATGGAGATAAGATCTGTAATTTGCAGTCTGCTCCCTGTAACTTCA
1 ATCTGCTTCATAGCCGATACATGGAGATAAGATCTCTAATTTGCAGTCTGCTCCCTGCAACTTCA
* * *
80238373 GAAAGATAAGACTAGTGGCTAAAATCTGCTCCATAGCCGATACATGGAGATAAGACTCACCACTT
66 GAAAGATAAGACTAGTGGCTAAAATCTACTCCATAGCCGATACATGGAGATAAGACTCGCCATTT
80238438 CTG
131 CTG
* * * *
80238441 ATCTGCTTCATAGCTGATACATGGAGATAAGATCTCTAATTTGTAGTCTGCTACCTACAACTTCA
1 ATCTGCTTCATAGCCGATACATGGAGATAAGATCTCTAATTTGCAGTCTGCTCCCTGCAACTTCA
* * * *
80238506 GGAAGATAAGACTAGTGACTAAAATTTACTCCATAGTCGATACATGGAGATAAGACTCGCCATTT
66 GAAAGATAAGACTAGTGGCTAAAATCTACTCCATAGCCGATACATGGAGATAAGACTCGCCATTT
80238571 CTG
131 CTG
* * * * *
80238574 ATCTAC-TCAATAGCCGGTACATGGAGATAAGATCTCTAATTTGTAGTCTACTCCCTGCAACTCC
1 ATCTGCTTC-ATAGCCGATACATGGAGATAAGATCTCTAATTTGCAGTCTGCTCCCTGCAACTTC
* * *
80238638 AGGAAGATAAGAGTAGTGGCTAAAATCTACTCCATAGCCGATACATGAAGATAAGACTCGCCATT
65 AGAAAGATAAGACTAGTGGCTAAAATCTACTCCATAGCCGATACATGGAGATAAGACTCGCCATT
80238703 TCTG
130 TCTG
* * *
80238707 ATTTG-TTCCATAGCCGATACATGGAGATAAGATCTATAATTTGCAGTCTGCTCCTTGCAACTTC
1 ATCTGCTT-CATAGCCGATACATGGAGATAAGATCTCTAATTTGCAGTCTGCTCCCTGCAACTTC
* * * *
80238771 A-AGAAGATAAGACTAGAGGCTAAAATCTGCTCTATAACCGATACATGGAGATAAGACTCGCCAT
65 AGA-AAGATAAGACTAGTGGCTAAAATCTACTCCATAGCCGATACATGGAGATAAGACTCGCCAT
80238835 TTCTG
129 TTCTG
* * *
80238840 ATCTACTCCATAGCCGATACATGAAGATAAGA
1 ATCTGCTTCATAGCCGATACATGGAGATAAGA
80238872 CTCGCCATCT
Statistics
Matches: 381, Mismatches: 45, Indels: 10
0.87 0.10 0.02
Matches are distributed among these distances:
132 2 0.01
133 377 0.99
134 2 0.01
ACGTcount: A:0.32, C:0.21, G:0.19, T:0.27
Consensus pattern (133 bp):
ATCTGCTTCATAGCCGATACATGGAGATAAGATCTCTAATTTGCAGTCTGCTCCCTGCAACTTCA
GAAAGATAAGACTAGTGGCTAAAATCTACTCCATAGCCGATACATGGAGATAAGACTCGCCATTT
CTG
Found at i:80238846 original size:178 final size:179
Alignment explanation
Indices: 80238661--80239050 Score: 624
Period size: 178 Copynumber: 2.2 Consensus size: 179
80238651 TAGTGGCTAA
* *
80238661 AATCTACTCCATAGCCGATACATGAAGATAAGACTCGCCAT-TTCTGATTTGTTCCATAGCCGAT
1 AATCTACTCCATAGCCGATACATGAAGATAAGACTCGCCATCTT-TGATCTGCTCCATAGCCGAT
* *
80238725 ACATGGAGATAAGATCTATAATTTGCAGTCTGCTCCTTGCAACTTCAAGAAGATAAGACTAGAGG
65 ACATGGAGATAAGATCTAGAATTTGCAGTCTGCTCCCTGCAACTTCAAGAAGATAAGACTAGAGG
* *
80238790 CTAAAATCTGCTCTATAACCGATACATGGAGATAAGA-CTCGCCA-TTTCT
130 CTAAAATCTACTCCATAACCGATACATGGAGATAAGACCT-GCCATTTTCT
*
80238839 GATCTACTCCATAGCCGATACATGAAGATAAGACTCGCCATCTTTGATCTGCTCCATAGCCGATA
1 AATCTACTCCATAGCCGATACATGAAGATAAGACTCGCCATCTTTGATCTGCTCCATAGCCGATA
* *
80238904 CATGGAGATAAGATCTGGAATTTGCAGTCTGCTCCCTGCAACTTCAGGAAGATAAGACTAGAGGC
66 CATGGAGATAAGATCTAGAATTTGCAGTCTGCTCCCTGCAACTTCAAGAAGATAAGACTAGAGGC
*
80238969 TAAAATCTACTCCATAGCCGATACATGGAGATAAGACCTGCCATTTTCT
131 TAAAATCTACTCCATAACCGATACATGGAGATAAGACCTGCCATTTTCT
* * *
80239018 AATCTGCTCCATAGTCGATACATGGAGATAAGA
1 AATCTACTCCATAGCCGATACATGAAGATAAGA
80239051 TCTCTAATTT
Statistics
Matches: 195, Mismatches: 14, Indels: 5
0.91 0.07 0.02
Matches are distributed among these distances:
178 157 0.81
179 38 0.19
ACGTcount: A:0.32, C:0.23, G:0.19, T:0.27
Consensus pattern (179 bp):
AATCTACTCCATAGCCGATACATGAAGATAAGACTCGCCATCTTTGATCTGCTCCATAGCCGATA
CATGGAGATAAGATCTAGAATTTGCAGTCTGCTCCCTGCAACTTCAAGAAGATAAGACTAGAGGC
TAAAATCTACTCCATAACCGATACATGGAGATAAGACCTGCCATTTTCT
Found at i:80239038 original size:134 final size:134
Alignment explanation
Indices: 80238840--80239197 Score: 544
Period size: 134 Copynumber: 2.7 Consensus size: 134
80238830 GCCATTTCTG
* *
80238840 ATCTACTCCATAGCCGATACATGAAGATAAGA-CTCGCCATCTT-TGATCTGCTCCATAGCCGAT
1 ATCTACTCCATAGCCGATACATGGAGATAAGACCT-GCCATTTTCTGATCTGCTCCATAGCCGAT
**
80238903 ACATGGAGATAAGATCTGGAATTTGCAGTCTGCTCCCTGCAACTTCAGGAAGATAAGACTAGAGG
65 ACATGGAGATAAGATCTATAATTTGCAGTCTGCTCCCTGCAACTTCAGGAAGATAAGACTAGAGG
80238968 CTAAA
130 CTAAA
* *
80238973 ATCTACTCCATAGCCGATACATGGAGATAAGACCTGCCATTTTCTAATCTGCTCCATAGTCGATA
1 ATCTACTCCATAGCCGATACATGGAGATAAGACCTGCCATTTTCTGATCTGCTCCATAGCCGATA
* ** *
80239038 CATGGAGATAAGATCTCTAATTTGCAGTCTGCTCCCTGCAACTTCAGGAAGATAAGACTAGTTGT
66 CATGGAGATAAGATCTATAATTTGCAGTCTGCTCCCTGCAACTTCAGGAAGATAAGACTAGAGGC
80239103 TAAA
131 TAAA
* * * *
80239107 ATCTGCTCCATAGCTGATACATAGAGATAAGACCCT-CCATTTTC-GATCTACTCCATAGCCGAT
1 ATCTACTCCATAGCCGATACATGGAGATAAGA-CCTGCCATTTTCTGATCTGCTCCATAGCCGAT
80239170 ACATGGAGATAAGATCTATAATTTGCAG
65 ACATGGAGATAAGATCTATAATTTGCAG
80239198 CCTGTTACCT
Statistics
Matches: 206, Mismatches: 16, Indels: 6
0.90 0.07 0.03
Matches are distributed among these distances:
133 81 0.39
134 122 0.59
135 3 0.01
ACGTcount: A:0.31, C:0.23, G:0.18, T:0.27
Consensus pattern (134 bp):
ATCTACTCCATAGCCGATACATGGAGATAAGACCTGCCATTTTCTGATCTGCTCCATAGCCGATA
CATGGAGATAAGATCTATAATTTGCAGTCTGCTCCCTGCAACTTCAGGAAGATAAGACTAGAGGC
TAAA
Found at i:80239403 original size:64 final size:64
Alignment explanation
Indices: 80239297--80239423 Score: 218
Period size: 64 Copynumber: 2.0 Consensus size: 64
80239287 TCACGTATAT
* * *
80239297 ATGCTTATGCCAAATAGTTAGGATGCTATGATCGAAAGGAATCAAATGCTCCTAGCTAGATGTG
1 ATGCTTATGCCAAATAATTAGGATGCTATGATCAAAAGGAATCAAATGCTCCTAACTAGATGTG
*
80239361 ATGCTTATGCCAAATAATTAGGATGCTATGATCAAAATGAATCAAATGCTCCTAACTAGATGT
1 ATGCTTATGCCAAATAATTAGGATGCTATGATCAAAAGGAATCAAATGCTCCTAACTAGATGT
80239424 ACTATAAATG
Statistics
Matches: 59, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
64 59 1.00
ACGTcount: A:0.35, C:0.16, G:0.20, T:0.29
Consensus pattern (64 bp):
ATGCTTATGCCAAATAATTAGGATGCTATGATCAAAAGGAATCAAATGCTCCTAACTAGATGTG
Found at i:80241043 original size:12 final size:11
Alignment explanation
Indices: 80241026--80241073 Score: 51
Period size: 12 Copynumber: 4.2 Consensus size: 11
80241016 CTACAATCTC
80241026 TTTTTGTTATTT
1 TTTTTGTT-TTT
80241038 TTTTTGTTTTT
1 TTTTTGTTTTT
***
80241049 TCTTTCCCTTTT
1 T-TTTTGTTTTT
80241061 TTTTTGTTTTT
1 TTTTTGTTTTT
80241072 TT
1 TT
80241074 CTTTTTGGCC
Statistics
Matches: 29, Mismatches: 6, Indels: 3
0.76 0.16 0.08
Matches are distributed among these distances:
11 13 0.45
12 16 0.55
ACGTcount: A:0.02, C:0.08, G:0.06, T:0.83
Consensus pattern (11 bp):
TTTTTGTTTTT
Found at i:80243502 original size:19 final size:19
Alignment explanation
Indices: 80243478--80243523 Score: 58
Period size: 19 Copynumber: 2.4 Consensus size: 19
80243468 TGTGATGTTT
*
80243478 AATGCACATG-ATGCAATG
1 AATGCAAATGTATGCAATG
*
80243496 CAATGCAAATGTATGGAATG
1 -AATGCAAATGTATGCAATG
80243516 AATGCAAA
1 AATGCAAA
80243524 AGAAAGTAAG
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
19 17 0.71
20 7 0.29
ACGTcount: A:0.43, C:0.13, G:0.22, T:0.22
Consensus pattern (19 bp):
AATGCAAATGTATGCAATG
Found at i:80245332 original size:129 final size:125
Alignment explanation
Indices: 80245053--80245492 Score: 450
Period size: 125 Copynumber: 3.4 Consensus size: 125
80245043 CCCAAACGGT
* * * * * * **
80245053 AAATCGAAACCCAGCACGATTGGGCACGATTTATCGAATTTCCAAATATGAAACGTTGCCTCATT
1 AAATCGAAACCCAGCACGATTGGGCACGATCTCTCAAACTTCCAAACACGAAATATTGCCTCATT
* * * * * * *
80245118 TTAATTTGAGAAAACACGGATGAAATTTCAAAAGGATATTCTGTATTTTAATTGAATGGA
66 TTAGTTTAAGAAAACATGGATAAAATTTCAAAAGGATATTCCGTATTTTAATCGAATGAA
* *
80245178 AAATTGAAACCCAGCACGATTGGGCACGATCTCTCAAACTTCCAAACACGAAATATTGCCTCGTT
1 AAATCGAAACCCAGCACGATTGGGCACGATCTCTCAAACTTCCAAACACGAAATATTGCCTCATT
* * *
80245243 TTAGTTTAAGAAAACATGAATAAAATTTCAAAAAAAAAGATATTCCGTATTTTACTCGAATGAA
66 TTAGTTTAAGAAAACATGGATAAAATTTC----AAAAGGATATTCCGTATTTTAATCGAATGAA
* * * * *
80245307 AAATTGAAACCCAGCACGATTGGGCACGATCTCTCAGACTCCCCAAACATGAAATATTTCCTCAT
1 AAATCGAAACCCAGCACGATTGGGCACGATCTCTCAAACT-TCCAAACACGAAATATTGCCTCAT
* * * * * **
80245372 TTTAGTTTTAA-AAAGCATGGACAAAATTTCCAAAGGATATTTCGTATTTTAGTTGAACGGAAAA
65 TTTAG-TTTAAGAAAACATGGATAAAATTTCAAAAGGATATTCCGTATTTTA----ATC-GAATG
80245436 AA
124 AA
* ** *
80245438 AAATCGAAACCCAGCACGATTGGGCACGATTTCTCGGACCTCCAAACACGAAATA
1 AAATCGAAACCCAGCACGATTGGGCACGATCTCTCAAACTTCCAAACACGAAATA
80245493 ATCCCTTAAG
Statistics
Matches: 263, Mismatches: 41, Indels: 17
0.82 0.13 0.05
Matches are distributed among these distances:
125 79 0.30
126 18 0.07
129 65 0.25
130 55 0.21
131 46 0.17
ACGTcount: A:0.38, C:0.19, G:0.16, T:0.27
Consensus pattern (125 bp):
AAATCGAAACCCAGCACGATTGGGCACGATCTCTCAAACTTCCAAACACGAAATATTGCCTCATT
TTAGTTTAAGAAAACATGGATAAAATTTCAAAAGGATATTCCGTATTTTAATCGAATGAA
Found at i:80245873 original size:15 final size:15
Alignment explanation
Indices: 80245853--80245905 Score: 79
Period size: 15 Copynumber: 3.3 Consensus size: 15
80245843 ATATAAATAG
80245853 AAATAGAAATATAAT
1 AAATAGAAATATAAT
80245868 AAATAGAAATATAAT
1 AAATAGAAATATAAT
80245883 AATAGTAGAAATATAAAT
1 AA-A-TAGAAATAT-AAT
80245901 AAATA
1 AAATA
80245906 AATCAAAATT
Statistics
Matches: 35, Mismatches: 0, Indels: 5
0.88 0.00 0.12
Matches are distributed among these distances:
15 17 0.49
16 3 0.09
17 10 0.29
18 5 0.14
ACGTcount: A:0.66, C:0.00, G:0.08, T:0.26
Consensus pattern (15 bp):
AAATAGAAATATAAT
Found at i:80245901 original size:44 final size:43
Alignment explanation
Indices: 80245847--80245933 Score: 99
Period size: 44 Copynumber: 2.0 Consensus size: 43
80245837 ATTAGTATAT
80245847 AAATAGAAATAGAAATATAAT-AAA-TAGA-AATATAATAATAGTAG
1 AAATAGAAAT--AAATA-AATAAAATTAGATAA-ATAATAATAGTAG
*
80245891 AAATATAAATAAATAAATCAAAATTAGATAAATAATAATAGTA
1 AAATAGAAATAAATAAAT-AAAATTAGATAAATAATAATAGTA
80245934 TTAGAATAAC
Statistics
Matches: 38, Mismatches: 1, Indels: 8
0.81 0.02 0.17
Matches are distributed among these distances:
41 3 0.08
42 5 0.13
43 3 0.08
44 25 0.66
45 2 0.05
ACGTcount: A:0.64, C:0.01, G:0.08, T:0.26
Consensus pattern (43 bp):
AAATAGAAATAAATAAATAAAATTAGATAAATAATAATAGTAG
Found at i:80248558 original size:31 final size:32
Alignment explanation
Indices: 80248523--80248595 Score: 103
Period size: 32 Copynumber: 2.3 Consensus size: 32
80248513 TGAATCAGTC
80248523 AATTTTAGTCCTTATAC-TTTTCAAATTTTGA
1 AATTTTAGTCCTTATACTTTTTCAAATTTTGA
* * * *
80248554 AATTTTAATCCTTGTACTTTTTTAGATTTTGA
1 AATTTTAGTCCTTATACTTTTTCAAATTTTGA
80248586 AATTTTAGTC
1 AATTTTAGTC
80248596 TTGACTCAAA
Statistics
Matches: 36, Mismatches: 5, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
31 15 0.42
32 21 0.58
ACGTcount: A:0.27, C:0.11, G:0.08, T:0.53
Consensus pattern (32 bp):
AATTTTAGTCCTTATACTTTTTCAAATTTTGA
Found at i:80249590 original size:16 final size:18
Alignment explanation
Indices: 80249557--80249591 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
80249547 TGATTCTTTG
*
80249557 TATATTGAAATTTAAAAA
1 TATATTGAAATGTAAAAA
80249575 TATATT-AAATGTAAAAA
1 TATATTGAAATGTAAAAA
80249592 AAATGTGATT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 10 0.62
18 6 0.38
ACGTcount: A:0.57, C:0.00, G:0.06, T:0.37
Consensus pattern (18 bp):
TATATTGAAATGTAAAAA
Found at i:80251847 original size:17 final size:19
Alignment explanation
Indices: 80251825--80251903 Score: 76
Period size: 19 Copynumber: 4.4 Consensus size: 19
80251815 ATGGAAATAT
80251825 AATCTT-CA-ATGATATGC
1 AATCTTACATATGATATGC
*
80251842 AATCTTAGATATGATATGC
1 AATCTTACATATGATATGC
*
80251861 AATCTTAGATATGATA--C
1 AATCTTACATATGATATGC
* * **
80251878 AATCTTAGATGTGATAAAC
1 AATCTTACATATGATATGC
80251897 AATCTTA
1 AATCTTA
80251904 TAAGATATGA
Statistics
Matches: 56, Mismatches: 2, Indels: 6
0.88 0.03 0.09
Matches are distributed among these distances:
17 22 0.39
18 1 0.02
19 33 0.59
ACGTcount: A:0.39, C:0.13, G:0.13, T:0.35
Consensus pattern (19 bp):
AATCTTACATATGATATGC
Found at i:80251857 original size:19 final size:19
Alignment explanation
Indices: 80251833--80251903 Score: 101
Period size: 19 Copynumber: 3.8 Consensus size: 19
80251823 ATAATCTTCA
80251833 ATGATATGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
80251852 ATGATATGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
80251871 ATGATA--CAATCTTAGAT
1 ATGATATGCAATCTTAGAT
* **
80251888 GTGATAAACAATCTTA
1 ATGATATGCAATCTTA
80251904 TAAGATATGA
Statistics
Matches: 49, Mismatches: 1, Indels: 4
0.91 0.02 0.07
Matches are distributed among these distances:
17 16 0.33
19 33 0.67
ACGTcount: A:0.39, C:0.11, G:0.14, T:0.35
Consensus pattern (19 bp):
ATGATATGCAATCTTAGAT
Found at i:80252222 original size:18 final size:17
Alignment explanation
Indices: 80252199--80252232 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
80252189 TTCCTGATTC
*
80252199 TTTTTTTATATATTTTAA
1 TTTTTTAATA-ATTTTAA
80252217 TTTTTTAATAATTTTA
1 TTTTTTAATAATTTTA
80252233 GTATCATATC
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (17 bp):
TTTTTTAATAATTTTAA
Found at i:80252975 original size:21 final size:20
Alignment explanation
Indices: 80252932--80252996 Score: 78
Period size: 21 Copynumber: 3.2 Consensus size: 20
80252922 TACGCCAATT
*
80252932 AGAAGCTCGAA-AGCTGAAC
1 AGAAGCTCGAAGAGTTGAAC
*
80252951 AGAAGCTCGTAAGAGTTGAAA
1 AGAAGCTCG-AAGAGTTGAAC
*
80252972 AGAAACTCAGAAGAGTTGAAC
1 AGAAGCTC-GAAGAGTTGAAC
80252993 AGAA
1 AGAA
80252997 AGTAAAACAC
Statistics
Matches: 39, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
19 9 0.23
20 2 0.05
21 27 0.69
22 1 0.03
ACGTcount: A:0.46, C:0.14, G:0.26, T:0.14
Consensus pattern (20 bp):
AGAAGCTCGAAGAGTTGAAC
Found at i:80261272 original size:26 final size:26
Alignment explanation
Indices: 80261243--80261346 Score: 172
Period size: 26 Copynumber: 4.0 Consensus size: 26
80261233 ATTCCCATCT
*
80261243 TGGAACATTTACCTAAACCATTATCA
1 TGGAACATTTACCTAACCCATTATCA
80261269 TGGAACATTTACCTAACCCATTATCA
1 TGGAACATTTACCTAACCCATTATCA
* * *
80261295 TAGAATATTTACCTAATCCATTATCA
1 TGGAACATTTACCTAACCCATTATCA
80261321 TGGAACATTTACCTAACCCATTATCA
1 TGGAACATTTACCTAACCCATTATCA
80261347 ATTTGTACCA
Statistics
Matches: 71, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
26 71 1.00
ACGTcount: A:0.37, C:0.24, G:0.07, T:0.33
Consensus pattern (26 bp):
TGGAACATTTACCTAACCCATTATCA
Found at i:80263144 original size:42 final size:42
Alignment explanation
Indices: 80263081--80263207 Score: 170
Period size: 42 Copynumber: 3.0 Consensus size: 42
80263071 CTTCGTTTTC
** *
80263081 TCGATGCCATAGTTCAACTATGGTCTTACACATCTTCACATAA
1 TCGATGCCATAGCCCAACTATGGTCTTACACATATTCACAT-A
* *
80263124 T-GATGCCATAGCCCAGCTATGGTCTTACACATATTCATATA
1 TCGATGCCATAGCCCAACTATGGTCTTACACATATTCACATA
80263165 TCGATGCCATAGCCCAACTATGGTCTTACACGA-A-TCACATA
1 TCGATGCCATAGCCCAACTATGGTCTTACAC-ATATTCACATA
80263206 TC
1 TC
80263208 TCACTGATGC
Statistics
Matches: 75, Mismatches: 7, Indels: 6
0.85 0.08 0.07
Matches are distributed among these distances:
41 10 0.13
42 63 0.84
43 2 0.03
ACGTcount: A:0.30, C:0.27, G:0.13, T:0.30
Consensus pattern (42 bp):
TCGATGCCATAGCCCAACTATGGTCTTACACATATTCACATA
Found at i:80263267 original size:47 final size:46
Alignment explanation
Indices: 80263166--80263289 Score: 160
Period size: 47 Copynumber: 2.7 Consensus size: 46
80263156 ATTCATATAT
* * * *
80263166 CGATGCCATAGCCCA-ACTATGGTCTTACACGAATCACATATCTCAC
1 CGATGCCATATCCCAGA-TATGGTCTTATACGAAGCACATATCACAC
* * *
80263212 TGATGCCATATCCCAGATATGGTCTTATACAGTAGCATATATCACAC
1 CGATGCCATATCCCAGATATGGTCTTATAC-GAAGCACATATCACAC
80263259 CGATGCCATATCCCAGATATGGTCTTATACG
1 CGATGCCATATCCCAGATATGGTCTTATACG
80263290 GAAATCACTT
Statistics
Matches: 68, Mismatches: 8, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
46 26 0.38
47 42 0.62
ACGTcount: A:0.30, C:0.27, G:0.15, T:0.27
Consensus pattern (46 bp):
CGATGCCATATCCCAGATATGGTCTTATACGAAGCACATATCACAC
Found at i:80263359 original size:31 final size:32
Alignment explanation
Indices: 80263314--80263431 Score: 172
Period size: 31 Copynumber: 3.8 Consensus size: 32
80263304 CTTGTCACTT
* *
80263314 GTAGCC-GAAGCTACCACTATTCACTAATCAG
1 GTAGCCGGAAGCTACCACTTTTCACTGATCAG
*
80263345 GTAGCCGGAA-CTACCATTTTTCACTGATCAG
1 GTAGCCGGAAGCTACCACTTTTCACTGATCAG
80263376 GTAGCCGGAA-CTACCACTTTTCACTGATCAG
1 GTAGCCGGAAGCTACCACTTTTCACTGATCAG
*
80263407 GTAG-CTGAAGCTACCACTTTTCACT
1 GTAGCCGGAAGCTACCACTTTTCACT
80263432 TGTCATTTGT
Statistics
Matches: 80, Mismatches: 5, Indels: 4
0.90 0.06 0.04
Matches are distributed among these distances:
30 4 0.05
31 73 0.91
32 3 0.04
ACGTcount: A:0.27, C:0.28, G:0.18, T:0.27
Consensus pattern (32 bp):
GTAGCCGGAAGCTACCACTTTTCACTGATCAG
Found at i:80263519 original size:50 final size:51
Alignment explanation
Indices: 80263407--80263535 Score: 190
Period size: 50 Copynumber: 2.5 Consensus size: 51
80263397 CACTGATCAG
* *
80263407 GTAGCTGAAGCTACCACTTTTCACTTGTCATTTGTCATTGATCAGATAAGT
1 GTAGCTGAAGCTATCACTTATCACTTGTCATTTGTCATTGATCAGATAAGT
* *
80263458 ATAGCTGAAGCTATCACTTATCACTT-TCACTTT-TCCTTGATCAGATAAGT
1 GTAGCTGAAGCTATCACTTATCACTTGTCA-TTTGTCATTGATCAGATAAGT
*
80263508 GTAGCCGAAGCTATCACTTATCACTTGT
1 GTAGCTGAAGCTATCACTTATCACTTGT
80263536 TGCCATGGTC
Statistics
Matches: 70, Mismatches: 6, Indels: 4
0.88 0.08 0.05
Matches are distributed among these distances:
50 43 0.61
51 27 0.39
ACGTcount: A:0.26, C:0.22, G:0.16, T:0.36
Consensus pattern (51 bp):
GTAGCTGAAGCTATCACTTATCACTTGTCATTTGTCATTGATCAGATAAGT
Found at i:80266632 original size:103 final size:103
Alignment explanation
Indices: 80266384--80266813 Score: 454
Period size: 105 Copynumber: 4.2 Consensus size: 103
80266374 AAATTACATA
* * * *
80266384 AAAAAATCACAAAACACTAAACTAAACATTGACAATTTATATAACTTAATCATAAATTATTAACA
1 AAAAAATCACAAAACACTAAACTAAACACTAACAATTT-TATAACCTAATCATAAATTACTAACA
* *
80266449 AAATAATTATAAAATTA-TTTTTAAAAAAATTACATTACCA
65 AAATAACTAT-AAATTATTTTTTAAAAAAATTACATTA-CT
*
80266489 AAAAAATCACAAAATACTAAACTAAACACTAACAATTTATATAACCTAATCATAAATTACTAACA
1 AAAAAATCACAAAACACTAAACTAAACACTAACAATTT-TATAACCTAATCATAAATTACTAACA
80266554 AAATAACTAT-AATT-TTTTTTAAAAAAATTTACATTACT
65 AAATAACTATAAATTATTTTTTAAAAAAA-TTACATTACT
*
80266592 AAAAAATCACAAAACCCTAAACTAAACACTAACAA-TTTATAACCTAATCCCATAAATTACTAAC
1 AAAAAATCACAAAACACTAAACTAAACACTAACAATTTTATAACCTAAT--CATAAATTACTAAC
* * *
80266656 AAAATAAATATATGTAA-CATTTTTT-AAGAAATTACATTACT
64 AAAATAACTATA---AATTATTTTTTAAAAAAATTACATTACT
* * * * * * *
80266697 AAAAAGT-A-AAAA-AGC---ACAAAACACTAA-AAATTTGTAACCTAATCATATACTACTAGCA
1 AAAAAATCACAAAACA-CTAAACTAAACACTAACAATTTTATAACCTAATCATAAATTACTAAC-
* *
80266755 AAAATAACTATAAAATTATTTTTTTTAAAAATTTACATTACT
64 AAAATAACTAT-AAATTA-TTTTTTAAAAAAATTACATTACT
*
80266797 AAAAACTCACAAAACAC
1 AAAAAATCACAAAACAC
80266814 AACAATTTAT
Statistics
Matches: 282, Mismatches: 24, Indels: 41
0.81 0.07 0.12
Matches are distributed among these distances:
97 2 0.01
98 12 0.04
99 18 0.06
100 44 0.16
101 12 0.04
102 7 0.02
103 80 0.28
104 9 0.03
105 85 0.30
106 5 0.02
107 8 0.03
ACGTcount: A:0.53, C:0.15, G:0.02, T:0.30
Consensus pattern (103 bp):
AAAAAATCACAAAACACTAAACTAAACACTAACAATTTTATAACCTAATCATAAATTACTAACAA
AATAACTATAAATTATTTTTTAAAAAAATTACATTACT
Found at i:80266780 original size:208 final size:204
Alignment explanation
Indices: 80266384--80266813 Score: 484
Period size: 208 Copynumber: 2.1 Consensus size: 204
80266374 AAATTACATA
* * * *
80266384 AAAAAATCACAAAACACTAAACTAAACATTGACAATTTATATAACTTAATCATAAATTATTAACA
1 AAAAAATCACAAAACACTAAACTAAACACTAACAATTTATATAACCTAATCATAAATTACTAACA
* *
80266449 AAATAATTATAAAATTATTTTTAAAAAAATTACATTACCAAAAAAATCACAAAATACTAAACTAA
66 AAATAATTATAAAATCATTTTTAAAAAAATTACATTACCAAAAAAATCACAAAATAC--AACAAA
* *
80266514 ACACTAACAATTTATATAACCTAATCATAAATTACTAACAAAATAACTATAATTTTTTTTAAAAA
129 ACACTAACAAATTATATAACCTAATCATAAACTACTAACAAAATAACTATAATTTTTTTT--AAA
80266579 AATTTACATTACT
192 AATTTACATTACT
*
80266592 AAAAAATCACAAAACCCTAAACTAAACACTAACAA-TT-TATAACCTAATCCCATAAATTACTAA
1 AAAAAATCACAAAACACTAAACTAAACACTAACAATTTATATAACCTAAT--CATAAATTACTAA
** * * * *
80266655 CAAAATAAATATATGTAA-CATTTTTTAAGAAATTACATTA-CTAAAAAGT-A-AAAA-AGC-AC
64 CAAAAT-AAT-TATAAAATCATTTTTAAAAAAATTACATTACCAAAAAAATCACAAAATA-CAAC
* * *
80266714 AAAACACTAA-AAATT-TGTAACCTAATCATATACTACTAGCAAAAATAACTATAAAATTATTTT
126 AAAACACTAACAAATTATATAACCTAATCATAAACTACTAAC-AAAATAACTAT---A--ATTTT
80266777 TTTTAAAAATTTACATTACT
185 TTTTAAAAATTTACATTACT
*
80266797 AAAAACTCACAAAACAC
1 AAAAAATCACAAAACAC
80266814 AACAATTTAT
Statistics
Matches: 191, Mismatches: 20, Indels: 25
0.81 0.08 0.11
Matches are distributed among these distances:
201 21 0.11
202 15 0.08
203 11 0.06
205 33 0.17
206 15 0.08
207 12 0.06
208 57 0.30
209 22 0.12
210 5 0.03
ACGTcount: A:0.53, C:0.15, G:0.02, T:0.30
Consensus pattern (204 bp):
AAAAAATCACAAAACACTAAACTAAACACTAACAATTTATATAACCTAATCATAAATTACTAACA
AAATAATTATAAAATCATTTTTAAAAAAATTACATTACCAAAAAAATCACAAAATACAACAAAAC
ACTAACAAATTATATAACCTAATCATAAACTACTAACAAAATAACTATAATTTTTTTTAAAAATT
TACATTACT
Found at i:80267139 original size:20 final size:23
Alignment explanation
Indices: 80267107--80267153 Score: 64
Period size: 21 Copynumber: 2.2 Consensus size: 23
80267097 TACATTACTT
*
80267107 TTTTTTTCTTTCTTC-TTCT-TC
1 TTTTTTTCTTTCTCCTTTCTCTC
80267128 TTTTTTTC-TTCTCCTTTCTCTC
1 TTTTTTTCTTTCTCCTTTCTCTC
80267150 TTTT
1 TTTT
80267154 CTTCCCGACA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
20 5 0.22
21 12 0.52
22 6 0.26
ACGTcount: A:0.00, C:0.26, G:0.00, T:0.74
Consensus pattern (23 bp):
TTTTTTTCTTTCTCCTTTCTCTC
Found at i:80267460 original size:26 final size:24
Alignment explanation
Indices: 80267431--80267479 Score: 64
Period size: 26 Copynumber: 2.0 Consensus size: 24
80267421 TATATAAATA
80267431 TTTTTTAAGAA-TAAAATAATAATATT
1 TTTTTTAA-AAGTAAAA-AA-AATATT
80267457 TTTTTTAAAAGTAAAAAAAATAT
1 TTTTTTAAAAGTAAAAAAAATAT
80267480 AAAAAAGGTG
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
24 5 0.23
25 4 0.18
26 13 0.59
ACGTcount: A:0.53, C:0.00, G:0.04, T:0.43
Consensus pattern (24 bp):
TTTTTTAAAAGTAAAAAAAATATT
Found at i:80268209 original size:30 final size:30
Alignment explanation
Indices: 80268175--80268240 Score: 89
Period size: 31 Copynumber: 2.2 Consensus size: 30
80268165 AATTATGGGT
*
80268175 AAGTTACAATTT-GGTCATTGAACTATTCAC
1 AAGTTAC-ATTTAGGTCATTGAACTATTCAA
*
80268205 AAGTTTTCATTTAGGTCATTGAACTATTCAA
1 AAG-TTACATTTAGGTCATTGAACTATTCAA
80268236 AAGTT
1 AAGTT
80268241 TTTTTTTAAA
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
30 9 0.28
31 23 0.72
ACGTcount: A:0.33, C:0.14, G:0.14, T:0.39
Consensus pattern (30 bp):
AAGTTACATTTAGGTCATTGAACTATTCAA
Found at i:80268222 original size:31 final size:30
Alignment explanation
Indices: 80268183--80268242 Score: 102
Period size: 31 Copynumber: 2.0 Consensus size: 30
80268173 GTAAGTTACA
*
80268183 ATTTGGTCATTGAACTATTCACAAGTTTTC
1 ATTTGGTCATTGAACTATTCAAAAGTTTTC
80268213 ATTTAGGTCATTGAACTATTCAAAAGTTTT
1 ATTT-GGTCATTGAACTATTCAAAAGTTTT
80268243 TTTTTAAAGT
Statistics
Matches: 28, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
30 4 0.14
31 24 0.86
ACGTcount: A:0.30, C:0.13, G:0.13, T:0.43
Consensus pattern (30 bp):
ATTTGGTCATTGAACTATTCAAAAGTTTTC
Done.