Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D03
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: 53248092
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1300000 characters in sequence are not A, C, G, or T
File 152 of 175
Found at i:46007629 original size:45 final size:44
Alignment explanation
Indices: 46007539--46007633 Score: 118
Period size: 45 Copynumber: 2.1 Consensus size: 44
46007529 TTACACCTCT
* ** *
46007539 ATTACATTCAACCAAACACAGTTTTACTATTAGGCCTCTATTCC
1 ATTACATTCAACCAAACACAGATTTACTATTACACATCTATTCC
** *
46007583 ATTACATTCAACCAAACAGTTGATTTGCTATTACACATCTATTCC
1 ATTACATTCAACCAAACA-CAGATTTACTATTACACATCTATTCC
46007628 ATTACA
1 ATTACA
46007634 CCTCTAATCC
Statistics
Matches: 43, Mismatches: 7, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
44 18 0.42
45 25 0.58
ACGTcount: A:0.34, C:0.25, G:0.06, T:0.35
Consensus pattern (44 bp):
ATTACATTCAACCAAACACAGATTTACTATTACACATCTATTCC
Found at i:46007633 original size:16 final size:16
Alignment explanation
Indices: 46007614--46007665 Score: 77
Period size: 16 Copynumber: 3.2 Consensus size: 16
46007604 GATTTGCTAT
* * *
46007614 TACACATCTATTCCAT
1 TACACCTCTAATCCAA
46007630 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
46007646 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
46007662 TACA
1 TACA
46007666 GCGAACCAAA
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 33 1.00
ACGTcount: A:0.37, C:0.35, G:0.00, T:0.29
Consensus pattern (16 bp):
TACACCTCTAATCCAA
Found at i:46010244 original size:21 final size:21
Alignment explanation
Indices: 46010203--46010245 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 21
46010193 AATAAAGTAG
*
46010203 ATTATATATTATTTTTATAGT
1 ATTATATATTATATTTATAGT
46010224 ATTATATATTATGATTT-TAGT
1 ATTATATATTAT-ATTTATAGT
46010245 A
1 A
46010246 AATTCATATA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
21 17 0.85
22 3 0.15
ACGTcount: A:0.35, C:0.00, G:0.07, T:0.58
Consensus pattern (21 bp):
ATTATATATTATATTTATAGT
Found at i:46010297 original size:18 final size:18
Alignment explanation
Indices: 46010276--46010429 Score: 76
Period size: 18 Copynumber: 8.9 Consensus size: 18
46010266 ATATTAAGAA
46010276 TTTTATTAAATTATATAT
1 TTTTATTAAATTATATAT
46010294 TTTTATTAAATTATATA-
1 TTTTATTAAATTATATAT
*
46010311 ---TAAT-AATTAT-TAT
1 TTTTATTAAATTATATAT
* * * *
46010324 TTTAAATTATATTTTATAG
1 TTT-TATTAAATTATATAT
* * *
46010343 TATTA-TATATTAT-GA-
1 TTTTATTAAATTATATAT
* *
46010358 TTTTAGTAAATTCATATAG
1 TTTTATTAAATT-ATATAT
** * *
46010377 TAATATTTAATATTA-AGAA
1 TTTTA-TTAA-ATTATATAT
46010396 TTTTATTAAATTATATAT
1 TTTTATTAAATTATATAT
46010414 TTTTATTAAATTATAT
1 TTTTATTAAATTATAT
46010430 TTAATAATTA
Statistics
Matches: 100, Mismatches: 22, Indels: 28
0.67 0.15 0.19
Matches are distributed among these distances:
12 2 0.02
13 6 0.06
14 3 0.03
15 4 0.04
16 6 0.06
17 15 0.15
18 45 0.45
19 12 0.12
20 4 0.04
21 3 0.03
ACGTcount: A:0.41, C:0.01, G:0.03, T:0.55
Consensus pattern (18 bp):
TTTTATTAAATTATATAT
Found at i:46010352 original size:120 final size:120
Alignment explanation
Indices: 46010210--46010688 Score: 840
Period size: 120 Copynumber: 4.0 Consensus size: 120
46010200 TAGATTATAT
*
46010210 ATTAT-TTTTATAGTATTATATATTATGATTTTAGTAAATTCATATAATAATATTTAATATTAAG
1 ATTATATTTTATAGTATTATATATTATGATTTTAGTAAATTCATATAAGAATATTTAATATTAAG
* *
46010274 AATTTTATTAAATTATATATTTTTATTAAATTATATATAATAATTATTATTTTAA
66 AATTTTATTAAATTATATATTTTTATTAAATTATATTTAATAATAATTATTTTAA
46010329 ATTATATTTTATAGTATTATATATTATGATTTTAGTAAATTCATAT-AGTAATATTTAATATTAA
1 ATTATATTTTATAGTATTATATATTATGATTTTAGTAAATTCATATAAG-AATATTTAATATTAA
*
46010393 GAATTTTATTAAATTATATATTTTTATTAAATTATATTTAATAATTATTATTTTTAA
65 GAATTTTATTAAATTATATATTTTTATTAAATTATATTTAATAATAATTA-TTTTAA
* *
46010450 ATTATATTTTATATTATTATATATTATGAGTTTAGTAAATTCATATAAGAATATTTAATATTAAG
1 ATTATATTTTATAGTATTATATATTATGATTTTAGTAAATTCATATAAGAATATTTAATATTAAG
46010515 AATTTTA-TAAATTATATA-TTTTATTAAATTATATTTAATAATAATTATTTTAA
66 AATTTTATTAAATTATATATTTTTATTAAATTATATTTAATAATAATTATTTTAA
*
46010568 ATTAAATTTTATAGTATTATATATTATGATTTTAGTAAATTCATATAAGAATATTTAATATTAAG
1 ATTATATTTTATAGTATTATATATTATGATTTTAGTAAATTCATATAAGAATATTTAATATTAAG
*
46010633 AATTTTATTAAATTATATATTTTTATTAAATTATATTTAATAATAATTATGTTAA
66 AATTTTATTAAATTATATATTTTTATTAAATTATATTTAATAATAATTATTTTAA
46010688 A
1 A
46010689 ATATGATTAA
Statistics
Matches: 345, Mismatches: 9, Indels: 11
0.95 0.02 0.03
Matches are distributed among these distances:
118 75 0.22
119 45 0.13
120 150 0.43
121 73 0.21
122 2 0.01
ACGTcount: A:0.42, C:0.01, G:0.04, T:0.53
Consensus pattern (120 bp):
ATTATATTTTATAGTATTATATATTATGATTTTAGTAAATTCATATAAGAATATTTAATATTAAG
AATTTTATTAAATTATATATTTTTATTAAATTATATTTAATAATAATTATTTTAA
Found at i:46010449 original size:27 final size:27
Alignment explanation
Indices: 46010411--46010475 Score: 89
Period size: 27 Copynumber: 2.4 Consensus size: 27
46010401 TTAAATTATA
46010411 TATT-TTTATTAAATTATATTTAATAAT
1 TATTATTTATTAAATTATATTTAAT-AT
*
46010438 TATTATTT-TTAAATTATATTTTATAT
1 TATTATTTATTAAATTATATTTAATAT
*
46010464 TATTATATATTA
1 TATTATTTATTA
46010476 TGAGTTTAGT
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
26 9 0.26
27 22 0.65
28 3 0.09
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (27 bp):
TATTATTTATTAAATTATATTTAATAT
Found at i:46010636 original size:239 final size:240
Alignment explanation
Indices: 46010210--46010682 Score: 844
Period size: 239 Copynumber: 2.0 Consensus size: 240
46010200 TAGATTATAT
* *
46010210 ATTATTTTTATAGTATTATATATTATGATTTTAGTAAATTCATATAATAATATTTAATATTAAGA
1 ATTATTTTTATAGTATTATATATTATGAGTTTAGTAAATTCATATAAGAATATTTAATATTAAGA
* *
46010275 ATTTTATTAAATTATATATTTTTATTAAATTATATATAATAATTATTATTTTAAATTATATTTTA
66 ATTTTATTAAATTATATATTTTTATTAAATTATATATAATAATAATTATTTTAAATTAAATTTTA
46010340 TAGTATTATATATTATGATTTTAGTAAATTCATATAGTAATATTTAATATTAAGAATTTTATTAA
131 TAGTATTATATATTATGATTTTAGTAAATTCATATAGTAATATTTAATATTAAGAATTTTATTAA
*
46010405 ATTATATATTTTTATTAAATTATATTTAATAATTATTATTTTTAA
196 ATTATATATTTTTATTAAATTATATTTAATAATAATTATTTTTAA
*
46010450 ATTATATTTTATATTATTATATATTATGAGTTTAGTAAATTCATATAAGAATATTTAATATTAAG
1 ATTAT-TTTTATAGTATTATATATTATGAGTTTAGTAAATTCATATAAGAATATTTAATATTAAG
*
46010515 AATTTTA-TAAATTATATA-TTTTATTAAATTATATTTAATAATAATTATTTTAAATTAAATTTT
65 AATTTTATTAAATTATATATTTTTATTAAATTATATATAATAATAATTATTTTAAATTAAATTTT
46010578 ATAGTATTATATATTATGATTTTAGTAAATTCATATAAG-AATATTTAATATTAAGAATTTTATT
130 ATAGTATTATATATTATGATTTTAGTAAATTCATAT-AGTAATATTTAATATTAAGAATTTTATT
46010642 AAATTATATATTTTTATTAAATTATATTTAATAATAATTAT
194 AAATTATATATTTTTATTAAATTATATTTAATAATAATTAT
46010683 GTTAAAATAT
Statistics
Matches: 224, Mismatches: 7, Indels: 5
0.95 0.03 0.02
Matches are distributed among these distances:
239 143 0.64
240 18 0.08
241 63 0.28
ACGTcount: A:0.42, C:0.01, G:0.04, T:0.53
Consensus pattern (240 bp):
ATTATTTTTATAGTATTATATATTATGAGTTTAGTAAATTCATATAAGAATATTTAATATTAAGA
ATTTTATTAAATTATATATTTTTATTAAATTATATATAATAATAATTATTTTAAATTAAATTTTA
TAGTATTATATATTATGATTTTAGTAAATTCATATAGTAATATTTAATATTAAGAATTTTATTAA
ATTATATATTTTTATTAAATTATATTTAATAATAATTATTTTTAA
Found at i:46010890 original size:44 final size:45
Alignment explanation
Indices: 46010826--46010922 Score: 126
Period size: 45 Copynumber: 2.2 Consensus size: 45
46010816 CTATTACACC
*
46010826 TCCATTCCATTCAACCAAACACA-AGA-ATACTATTACGCCTCTAT
1 TCCATTACATTCAACCAAACA-ATAGATATACTATTACGCCTCTAT
* * * *
46010870 TCCATTACATTCAACTAAACAATTGATTTGCTATTACGCCTCTAT
1 TCCATTACATTCAACCAAACAATAGATATACTATTACGCCTCTAT
46010915 TCCATTAC
1 TCCATTAC
46010923 GCTTCTATTC
Statistics
Matches: 46, Mismatches: 5, Indels: 3
0.85 0.09 0.06
Matches are distributed among these distances:
43 1 0.02
44 21 0.46
45 24 0.52
ACGTcount: A:0.33, C:0.29, G:0.05, T:0.33
Consensus pattern (45 bp):
TCCATTACATTCAACCAAACAATAGATATACTATTACGCCTCTAT
Found at i:46010923 original size:16 final size:16
Alignment explanation
Indices: 46010902--46010950 Score: 89
Period size: 16 Copynumber: 3.1 Consensus size: 16
46010892 TTGATTTGCT
46010902 ATTACGCCTCTATTCC
1 ATTACGCCTCTATTCC
*
46010918 ATTACGCTTCTATTCC
1 ATTACGCCTCTATTCC
46010934 ATTACGCCTCTATTCC
1 ATTACGCCTCTATTCC
46010950 A
1 A
46010951 ATACAGCGAA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 31 1.00
ACGTcount: A:0.20, C:0.35, G:0.06, T:0.39
Consensus pattern (16 bp):
ATTACGCCTCTATTCC
Found at i:46029321 original size:45 final size:45
Alignment explanation
Indices: 46029249--46029358 Score: 141
Period size: 45 Copynumber: 2.5 Consensus size: 45
46029239 GTTCAAGCTG
* * * * *
46029249 AAAA-ATGTTACGACATTATGATGAAAATGAGTAAGATCATAATT
1 AAAAGATGTTATGGCATCATGATAAAAATGAGTAAGATCATAACT
*
46029293 AAAAGATGTTATGGCATCATGATAAAAATGAGTAAGATCATAGCT
1 AAAAGATGTTATGGCATCATGATAAAAATGAGTAAGATCATAACT
* *
46029338 GAAAGAAGTTATGGCATCATG
1 AAAAGATGTTATGGCATCATG
46029359 TGTTGGTTCG
Statistics
Matches: 57, Mismatches: 8, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
44 4 0.07
45 53 0.93
ACGTcount: A:0.45, C:0.08, G:0.20, T:0.27
Consensus pattern (45 bp):
AAAAGATGTTATGGCATCATGATAAAAATGAGTAAGATCATAACT
Found at i:46030139 original size:22 final size:23
Alignment explanation
Indices: 46030088--46030139 Score: 79
Period size: 23 Copynumber: 2.3 Consensus size: 23
46030078 AAGACTGGAC
*
46030088 TTTCCATGTTTGTTACCAATGAGA
1 TTTCC-TGTTTGTTAACAATGAGA
46030112 TTTCCTGTTTGTTAACAATGA-A
1 TTTCCTGTTTGTTAACAATGAGA
46030134 TTTCCT
1 TTTCCT
46030140 TTTTAATAAG
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
22 7 0.26
23 15 0.56
24 5 0.19
ACGTcount: A:0.23, C:0.17, G:0.13, T:0.46
Consensus pattern (23 bp):
TTTCCTGTTTGTTAACAATGAGA
Found at i:46032701 original size:16 final size:17
Alignment explanation
Indices: 46032669--46032706 Score: 60
Period size: 16 Copynumber: 2.3 Consensus size: 17
46032659 TATTTTTATC
46032669 ATTTAAGTTAGTTTCAA
1 ATTTAAGTTAGTTTCAA
*
46032686 ATTTGAGTTA-TTTCAA
1 ATTTAAGTTAGTTTCAA
46032702 ATTTA
1 ATTTA
46032707 TATAAATTGG
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
16 10 0.53
17 9 0.47
ACGTcount: A:0.34, C:0.05, G:0.11, T:0.50
Consensus pattern (17 bp):
ATTTAAGTTAGTTTCAA
Found at i:46033090 original size:15 final size:15
Alignment explanation
Indices: 46033070--46033099 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
46033060 AACTAATAGC
*
46033070 ATCATCTTTATCATG
1 ATCATCTTCATCATG
46033085 ATCATCTTCATCATG
1 ATCATCTTCATCATG
46033100 GAACATAGCA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.27, C:0.23, G:0.07, T:0.43
Consensus pattern (15 bp):
ATCATCTTCATCATG
Found at i:46049290 original size:5 final size:5
Alignment explanation
Indices: 46049277--46049310 Score: 52
Period size: 5 Copynumber: 7.0 Consensus size: 5
46049267 TATATTTCTT
*
46049277 TTTTA TTTTC TTTTA TTTT- TTTTA TTTTA TTTTA
1 TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA
46049311 CCTAAAACAA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
4 4 0.15
5 22 0.85
ACGTcount: A:0.15, C:0.03, G:0.00, T:0.82
Consensus pattern (5 bp):
TTTTA
Found at i:46049909 original size:3 final size:3
Alignment explanation
Indices: 46049896--46049955 Score: 50
Period size: 3 Copynumber: 19.7 Consensus size: 3
46049886 ATTTTCTCCC
* * *
46049896 ATT ATTT ATT ATT ATT GTT A-T ATT ATTT ATT ATC ATC ATT ATT ATT
1 ATT A-TT ATT ATT ATT ATT ATT ATT A-TT ATT ATT ATT ATT ATT ATT
* *
46049942 TTT ATT ATT TTT AT
1 ATT ATT ATT ATT AT
46049956 ATTTGTACAT
Statistics
Matches: 46, Mismatches: 8, Indels: 6
0.77 0.13 0.10
Matches are distributed among these distances:
2 2 0.04
3 38 0.83
4 6 0.13
ACGTcount: A:0.28, C:0.03, G:0.02, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:46049940 original size:24 final size:21
Alignment explanation
Indices: 46049896--46049958 Score: 69
Period size: 21 Copynumber: 3.1 Consensus size: 21
46049886 ATTTTCTCCC
*
46049896 ATTATTTATTATTATTGTTAT
1 ATTATTTATTATTATTATTAT
* *
46049917 ATTATTTATTATCATCA-T-T
1 ATTATTTATTATTATTATTAT
*
46049936 ATTATTT-TTATTATTTTTAT
1 ATTATTTATTATTATTATTAT
46049956 ATT
1 ATT
46049959 TGTACATACG
Statistics
Matches: 34, Mismatches: 6, Indels: 5
0.76 0.13 0.11
Matches are distributed among these distances:
18 6 0.18
19 9 0.26
20 5 0.15
21 14 0.41
ACGTcount: A:0.29, C:0.03, G:0.02, T:0.67
Consensus pattern (21 bp):
ATTATTTATTATTATTATTAT
Found at i:46049958 original size:8 final size:9
Alignment explanation
Indices: 46049896--46049959 Score: 58
Period size: 9 Copynumber: 6.8 Consensus size: 9
46049886 ATTTTCTCCC
46049896 ATTATTTATT
1 ATTATTT-TT
46049906 ATTATTGTTAT
1 ATTATT-TT-T
46049917 ATTATTTATT
1 ATTATTT-TT
* **
46049927 ATCATCATT
1 ATTATTTTT
46049936 ATTATTTTT
1 ATTATTTTT
46049945 ATTATTTTT
1 ATTATTTTT
46049954 A-TATTT
1 ATTATTT
46049960 GTACATACGC
Statistics
Matches: 45, Mismatches: 6, Indels: 8
0.76 0.10 0.14
Matches are distributed among these distances:
8 5 0.11
9 18 0.40
10 13 0.29
11 9 0.20
ACGTcount: A:0.28, C:0.03, G:0.02, T:0.67
Consensus pattern (9 bp):
ATTATTTTT
Found at i:46052738 original size:25 final size:23
Alignment explanation
Indices: 46052696--46052746 Score: 75
Period size: 25 Copynumber: 2.1 Consensus size: 23
46052686 AAAAATATAA
*
46052696 TTTTATTATTTTAATATTTTATGT
1 TTTTATCATTTTAATATTTTAT-T
46052720 TTTTATCATTTTTAATATTTTATT
1 TTTTATCA-TTTTAATATTTTATT
46052744 TTT
1 TTT
46052747 AAGGATTACT
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
24 11 0.44
25 14 0.56
ACGTcount: A:0.24, C:0.02, G:0.02, T:0.73
Consensus pattern (23 bp):
TTTTATCATTTTAATATTTTATT
Found at i:46056372 original size:22 final size:22
Alignment explanation
Indices: 46056328--46056372 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 22
46056318 ATTGTAAAAA
* *
46056328 TTATATATTTGTAATTCATATT
1 TTATATATTTATAATTCAAATT
46056350 TTATATATTTTATAATT-AAATT
1 TTATATA-TTTATAATTCAAATT
46056372 T
1 T
46056373 AAATTTAAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
22 12 0.60
23 8 0.40
ACGTcount: A:0.36, C:0.02, G:0.02, T:0.60
Consensus pattern (22 bp):
TTATATATTTATAATTCAAATT
Found at i:46057062 original size:14 final size:14
Alignment explanation
Indices: 46057035--46057078 Score: 61
Period size: 14 Copynumber: 3.1 Consensus size: 14
46057025 CTGGAGATTC
*
46057035 AAAGTTTAACATTT
1 AAAGTTTAAAATTT
* *
46057049 AAGGTTTGAAATTT
1 AAAGTTTAAAATTT
46057063 AAAGTTTAAAATTT
1 AAAGTTTAAAATTT
46057077 AA
1 AA
46057079 CATTTGAGAT
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
14 25 1.00
ACGTcount: A:0.45, C:0.02, G:0.11, T:0.41
Consensus pattern (14 bp):
AAAGTTTAAAATTT
Found at i:46057926 original size:3 final size:3
Alignment explanation
Indices: 46057918--46057943 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
46057908 TTCGGAATTT
46057918 GAA GAA GAA GAA GAA GAA GAA GAA GA
1 GAA GAA GAA GAA GAA GAA GAA GAA GA
46057944 TGGGTCGGAG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.65, C:0.00, G:0.35, T:0.00
Consensus pattern (3 bp):
GAA
Found at i:46063019 original size:13 final size:13
Alignment explanation
Indices: 46063003--46063027 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
46062993 AAATATATTT
46063003 TAAAAATAAAAAA
1 TAAAAATAAAAAA
46063016 TAAAAATAAAAA
1 TAAAAATAAAAA
46063028 TATTTTTAAA
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:0.84, C:0.00, G:0.00, T:0.16
Consensus pattern (13 bp):
TAAAAATAAAAAA
Found at i:46063057 original size:7 final size:7
Alignment explanation
Indices: 46063045--46063084 Score: 80
Period size: 7 Copynumber: 5.7 Consensus size: 7
46063035 AAAGTATTTT
46063045 AAAATTA
1 AAAATTA
46063052 AAAATTA
1 AAAATTA
46063059 AAAATTA
1 AAAATTA
46063066 AAAATTA
1 AAAATTA
46063073 AAAATTA
1 AAAATTA
46063080 AAAAT
1 AAAAT
46063085 ATATATTTAT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 33 1.00
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (7 bp):
AAAATTA
Found at i:46063745 original size:28 final size:28
Alignment explanation
Indices: 46063681--46063745 Score: 71
Period size: 28 Copynumber: 2.3 Consensus size: 28
46063671 ACTAACCTAT
*
46063681 AATATATATAACTAAGTCCAAAAAGGAA
1 AATATATATAACTAAATCCAAAAAGGAA
* *
46063709 AATCA-ATATAGAC-AAATTCAAAAAGTAA
1 AAT-ATATATA-ACTAAATCCAAAAAGGAA
46063737 AATATATAT
1 AATATATAT
46063746 TAGCTTTATC
Statistics
Matches: 31, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
27 1 0.03
28 27 0.87
29 3 0.10
ACGTcount: A:0.58, C:0.09, G:0.08, T:0.25
Consensus pattern (28 bp):
AATATATATAACTAAATCCAAAAAGGAA
Found at i:46068040 original size:26 final size:25
Alignment explanation
Indices: 46068010--46068099 Score: 81
Period size: 26 Copynumber: 3.5 Consensus size: 25
46068000 GTTATTAAAT
*
46068010 TTTAATAAGATTATTATTAAATATAA
1 TTTAATAA-AATATTATTAAATATAA
* * * *
46068036 TTTAATAAAAAATAATTTAATCATAT
1 TTTAATAAAATATTATTAAAT-ATAA
* * *
46068062 TTTAACTTAACTATTATTAAATACAA
1 TTTAA-TAAAATATTATTAAATATAA
46068088 TTTAATAAAATA
1 TTTAATAAAATA
46068100 ATATATAATT
Statistics
Matches: 48, Mismatches: 14, Indels: 5
0.72 0.21 0.07
Matches are distributed among these distances:
25 14 0.29
26 23 0.48
27 11 0.23
ACGTcount: A:0.51, C:0.04, G:0.01, T:0.43
Consensus pattern (25 bp):
TTTAATAAAATATTATTAAATATAA
Found at i:46070185 original size:10 final size:10
Alignment explanation
Indices: 46070166--46070217 Score: 52
Period size: 10 Copynumber: 5.1 Consensus size: 10
46070156 GAATCTCTCG
46070166 AAAA-TAATC
1 AAAATTAATC
46070175 AAAATTAATC
1 AAAATTAATC
*
46070185 AAAATTAACTAT
1 AAAATTAA-T-C
*
46070197 AAAATTAATT
1 AAAATTAATC
*
46070207 AAAATTCATC
1 AAAATTAATC
46070217 A
1 A
46070218 TGTTCATATT
Statistics
Matches: 37, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
9 4 0.11
10 23 0.62
11 2 0.05
12 8 0.22
ACGTcount: A:0.60, C:0.10, G:0.00, T:0.31
Consensus pattern (10 bp):
AAAATTAATC
Found at i:46079907 original size:125 final size:125
Alignment explanation
Indices: 46079693--46079930 Score: 352
Period size: 125 Copynumber: 1.9 Consensus size: 125
46079683 GCCCACGTGT
* * * *
46079693 ACGCGCTTTTGCTACAGTAGGTCCTGGAAAAATAATTTTGAGTTGGCGTTTTTGAGCAAATAGTA
1 ACGCACTTTTGCTACAGTAGGTCCTGGAAAAATAATTTCGAGTTGACGTTTCTGAGCAAATAGTA
* * *
46079758 TAAAAAACGCTTCAAGCAGGATGCTATATGCGAAGTATTTGTGAAATCGCGTCCTTCTGG
66 TAAAAAACGCTTCAACCAGGATGCTATATGAGAAGAATTTGTGAAATCGCGTCCTTCTGG
* *
46079818 ACGCACTTTTGCTACAGTTGGTCCTTGAAGAAATAATTTCGAGTTGACGTTTCTGAGCAAATAGT
1 ACGCACTTTTGCTACAGTAGGTCCTGGAA-AAATAATTTCGAGTTGACGTTTCTGAGCAAATAGT
* * *
46079883 ATAAAATA-GCTTCTACCAGGATGCTTTATGAGAAGAATTTGTGAAATC
65 ATAAAAAACGCTTCAACCAGGATGCTATATGAGAAGAATTTGTGAAATC
46079931 ACGCCCACGT
Statistics
Matches: 100, Mismatches: 12, Indels: 2
0.88 0.11 0.02
Matches are distributed among these distances:
125 61 0.61
126 39 0.39
ACGTcount: A:0.30, C:0.16, G:0.22, T:0.32
Consensus pattern (125 bp):
ACGCACTTTTGCTACAGTAGGTCCTGGAAAAATAATTTCGAGTTGACGTTTCTGAGCAAATAGTA
TAAAAAACGCTTCAACCAGGATGCTATATGAGAAGAATTTGTGAAATCGCGTCCTTCTGG
Found at i:46079952 original size:125 final size:125
Alignment explanation
Indices: 46079684--46079962 Score: 346
Period size: 125 Copynumber: 2.2 Consensus size: 125
46079674 TGCATTCGCG
* * * *
46079684 CCCACGTGTACGCGCTTTTGCTACAGTAGGTCCTGGAAAAATAATTTTGAGTTGGCGTTTTTGAG
1 CCCAC-TGGACGCGCTTTTGCTACAGTAGGTCCTGGAAAAATAATTTCGAGTTGACGTTTCTGAG
* * * *
46079749 CAAATAGTATAAAAAACGCTTCAAGCAGGATGCTATATGCGAAGTATTTGTGAAATCGCGT
65 CAAATAGTATAAAAAACGCTTCAACCAGGATGCTATATGAGAAGAATTTGTGAAATCACGT
** * * *
46079810 CCTTCTGGACGCACTTTTGCTACAGTTGGTCCTTGAAGAAATAATTTCGAGTTGACGTTTCTGAG
1 CCCACTGGACGCGCTTTTGCTACAGTAGGTCCTGGAA-AAATAATTTCGAGTTGACGTTTCTGAG
* * *
46079875 CAAATAGTATAAAATA-GCTTCTACCAGGATGCTTTATGAGAAGAATTTGTGAAATCACG-
65 CAAATAGTATAAAAAACGCTTCAACCAGGATGCTATATGAGAAGAATTTGTGAAATCACGT
***
46079934 CCCACGTGGATTTGCTTTTGCTACAGTAG
1 CCCAC-TGGACGCGCTTTTGCTACAGTAG
46079963 CATGTTTGGG
Statistics
Matches: 128, Mismatches: 23, Indels: 5
0.82 0.15 0.03
Matches are distributed among these distances:
124 3 0.02
125 83 0.65
126 42 0.33
ACGTcount: A:0.28, C:0.18, G:0.23, T:0.32
Consensus pattern (125 bp):
CCCACTGGACGCGCTTTTGCTACAGTAGGTCCTGGAAAAATAATTTCGAGTTGACGTTTCTGAGC
AAATAGTATAAAAAACGCTTCAACCAGGATGCTATATGAGAAGAATTTGTGAAATCACGT
Found at i:46083146 original size:8 final size:7
Alignment explanation
Indices: 46083133--46083308 Score: 51
Period size: 7 Copynumber: 24.3 Consensus size: 7
46083123 GGTTTTAAAG
46083133 TTAAGGCT
1 TTAAGG-T
46083141 TTAAGGT
1 TTAAGGT
46083148 TT-AGTGTTT
1 TTAAG-G--T
46083157 TTAA-GT
1 TTAAGGT
*
46083163 TTATGGT
1 TTAAGGT
*
46083170 TTATGGTT
1 TTAAGG-T
*
46083178 TTTAGG-
1 TTAAGGT
*
46083184 TTAGGGT
1 TTAAGGT
*
46083191 TTATGGTT
1 TTAAGG-T
46083199 TTAA-GT
1 TTAAGGT
*
46083205 TTAGGGT
1 TTAAGGT
46083212 TTAAGGTT
1 TTAAGG-T
*
46083220 TTTAGGT
1 TTAAGGT
*
46083227 TTAGGGT
1 TTAAGGT
**
46083234 TTGAGATTT
1 TT-A-AGGT
46083243 TTAA-G-
1 TTAAGGT
*
46083248 TTAAGGG
1 TTAAGGT
*
46083255 TTAGGGTT
1 TTAAGG-T
*
46083263 TTTAGGT
1 TTAAGGT
*
46083270 TTAGGGT
1 TTAAGGT
46083277 TTAAGGTTTT
1 TTAAGG---T
46083287 TTAA-GT
1 TTAAGGT
*
46083293 TTAAAGT
1 TTAAGGT
46083300 TTAAGGT
1 TTAAGGT
46083307 TT
1 TT
46083309 TTAGGTTTGG
Statistics
Matches: 125, Mismatches: 24, Indels: 39
0.66 0.13 0.21
Matches are distributed among these distances:
5 4 0.03
6 20 0.16
7 60 0.48
8 28 0.22
9 7 0.06
10 6 0.05
ACGTcount: A:0.21, C:0.01, G:0.28, T:0.51
Consensus pattern (7 bp):
TTAAGGT
Found at i:46083165 original size:22 final size:21
Alignment explanation
Indices: 46083140--46083781 Score: 227
Period size: 22 Copynumber: 29.6 Consensus size: 21
46083130 AAGTTAAGGC
46083140 TTTAAGGTTTAGTGTTTTTAAG
1 TTTAAGGTTTAG-GTTTTTAAG
*
46083162 TTTATGGTTTATGGTTTTT-AG
1 TTTAAGGTTTA-GGTTTTTAAG
* *
46083183 GTTAGGGTTTATGG-TTTTAAG
1 TTTAAGGTTTA-GGTTTTTAAG
* *
46083204 TTTAGGGTTTAAGGTTTTTAGG
1 TTTAAGGTTT-AGGTTTTTAAG
* *
46083226 TTTAGGGTTTGAGATTTTTAAG
1 TTTAAGGTTT-AGGTTTTTAAG
* *
46083248 -TTAAGGGTTAGGGTTTTTAGG
1 TTTAAGGTTTA-GGTTTTTAAG
*
46083269 TTTAGGGTTTAAGGTTTTTTAAG
1 TTTAAGGTTT-AGG-TTTTTAAG
* *
46083292 TTTAAAGTTTAAGGTTTTTAGG
1 TTTAAGGTTT-AGGTTTTTAAG
** * *
46083314 TTTGGGGTTTTTAAG--TTTAGGG
1 TTTAAGG--TTTAGGTTTTTA-AG
*
46083336 TTTATGGTTTAGTGTTTTTAAG
1 TTTAAGGTTTAG-GTTTTTAAG
* *
46083358 TTAAAGG-TTAGCATTTTTAA-
1 TTTAAGGTTTAG-GTTTTTAAG
* *
46083378 TTTAAGGGTTAGGGTTTTAAG
1 TTTAAGGTTTAGGTTTTTAAG
* ** *
46083399 -TTAAGGGTTAGG--ACTAGG
1 TTTAAGGTTTAGGTTTTTAAG
* * *
46083417 GTT-AGGATTTTAAAG--TTAAAG
1 TTTAAGG--TTT-AGGTTTTTAAG
*
46083438 TTTTAGA-GTTTAGGGTTTTAAG
1 -TTTA-AGGTTTAGGTTTTTAAG
46083460 TTTAAGGTTTATGGTTTTTAAG
1 TTTAAGGTTTA-GGTTTTTAAG
* *
46083482 -TTAGGGTTTATGATTTAGGGTTTAAAG
1 TTTAAGGTTTA-G-GTT----TTT-AAG
* * *
46083509 TTAAAGGTTTATGGTTTAT-GG
1 TTTAAGGTTTA-GGTTTTTAAG
* * *
46083530 TTTTGAA-TTTTAGGGTTTATAAT
1 -TTT-AAGGTTTA-GGTTTTTAAG
* *
46083553 TTTTAGGTTTAGGGTTTTTAGG
1 TTTAAGGTTTA-GGTTTTTAAG
* * *
46083575 TTTAGGGTTTAAAGTTTTCAAG
1 TTTAAGGTTT-AGGTTTTTAAG
*
46083597 -TTAAGAG-TTAGGGTTTTTAGG
1 TTTAAG-GTTTA-GGTTTTTAAG
*
46083618 TTTAGGGTTTTTAGG-TTTTAAG
1 TTTAAGG--TTTAGGTTTTTAAG
* *
46083640 TTTAGGGTTTAAGGTTTTTAGG
1 TTTAAGGTTT-AGGTTTTTAAG
*
46083662 TTTAATGTTTAGGGGTTTTTAAG
1 TTTAAGGTTTA--GGTTTTTAAG
*
46083685 TTTAGGGTTTAGGGTTTTT-AG
1 TTTAAGGTTTA-GGTTTTTAAG
*
46083706 TTTTAAGGTTTGGGGTTTTTAAG
1 -TTTAAGGTTT-AGGTTTTTAAG
* *
46083729 -TTAAGGATTAGCATTTTTAA-
1 TTTAAGGTTTAG-GTTTTTAAG
*
46083749 TTTAAAGGTTAAGG-TTTTAAG
1 TTT-AAGGTTTAGGTTTTTAAG
*
46083770 -TTAAGGATTAGG
1 TTTAAGGTTTAGG
46083782 GTTAGGGTTG
Statistics
Matches: 474, Mismatches: 90, Indels: 115
0.70 0.13 0.17
Matches are distributed among these distances:
18 6 0.01
19 10 0.02
20 51 0.11
21 128 0.27
22 199 0.42
23 55 0.12
24 7 0.01
26 3 0.01
27 5 0.01
28 10 0.02
ACGTcount: A:0.23, C:0.01, G:0.28, T:0.49
Consensus pattern (21 bp):
TTTAAGGTTTAGGTTTTTAAG
Found at i:46083191 original size:21 final size:21
Alignment explanation
Indices: 46083145--46083315 Score: 148
Period size: 21 Copynumber: 7.9 Consensus size: 21
46083135 AAGGCTTTAA
* *
46083145 GGTTT-AGTGTTTTTAAGTTTAT
1 GGTTTAAG-GTTTTT-AGGTTAG
*
46083167 GGTTTATGGTTTTTAGGTTAG
1 GGTTTAAGGTTTTTAGGTTAG
* * *
46083188 GGTTTATGGTTTTAAGTTTAG
1 GGTTTAAGGTTTTTAGGTTAG
46083209 GGTTTAAGGTTTTTAGGTTTAG
1 GGTTTAAGGTTTTTAGG-TTAG
* * *
46083231 GGTTTGAGATTTTTAAGTTAAG
1 GGTTTAAGGTTTTTAGGTT-AG
*
46083253 GG-TTAGGGTTTTTAGGTTTAG
1 GGTTTAAGGTTTTTAGG-TTAG
* *
46083274 GGTTTAAGGTTTTTTAAGTTTAA
1 GGTTTAAGG-TTTTT-AGGTTAG
*
46083297 AGTTTAAGGTTTTTAGGTT
1 GGTTTAAGGTTTTTAGGTT
46083316 TGGGGTTTTT
Statistics
Matches: 122, Mismatches: 20, Indels: 15
0.78 0.13 0.10
Matches are distributed among these distances:
21 58 0.48
22 45 0.37
23 17 0.14
24 2 0.02
ACGTcount: A:0.20, C:0.00, G:0.29, T:0.51
Consensus pattern (21 bp):
GGTTTAAGGTTTTTAGGTTAG
Found at i:46083275 original size:15 final size:15
Alignment explanation
Indices: 46083255--46083355 Score: 66
Period size: 15 Copynumber: 6.8 Consensus size: 15
46083245 AAGTTAAGGG
46083255 TTAGGGTTTTTAGGT
1 TTAGGGTTTTTAGGT
*
46083270 TTAGGG-TTTAAGGTTTT
1 TTAGGGTTTTTAGG---T
* * *
46083287 TTA-AG-TTTAAAGT
1 TTAGGGTTTTTAGGT
*
46083300 TTAAGGTTTTTAGGT
1 TTAGGGTTTTTAGGT
* *
46083315 TTGGGGTTTTTAAGT
1 TTAGGGTTTTTAGGT
*
46083330 TTAGGGTTTAT-GGT
1 TTAGGGTTTTTAGGT
*
46083344 TTAGTGTTTTTA
1 TTAGGGTTTTTA
46083356 AGTTAAAGGT
Statistics
Matches: 66, Mismatches: 14, Indels: 12
0.72 0.15 0.13
Matches are distributed among these distances:
13 4 0.06
14 18 0.27
15 33 0.50
16 7 0.11
17 4 0.06
ACGTcount: A:0.19, C:0.00, G:0.28, T:0.53
Consensus pattern (15 bp):
TTAGGGTTTTTAGGT
Found at i:46083308 original size:37 final size:36
Alignment explanation
Indices: 46083266--46083352 Score: 86
Period size: 37 Copynumber: 2.4 Consensus size: 36
46083256 TAGGGTTTTT
*
46083266 AGGTTTAGGGTTTAAGGTTTTTTAAGTTTAAAGTTTA
1 AGGTTTAGGGTTT-AGGGTTTTTAAGTTTAAAGTTTA
* **
46083303 AGGTTTTTA-GGTTTGGGGTTTTTAAGTTTAGGGTTTA
1 AGG--TTTAGGGTTTAGGGTTTTTAAGTTTAAAGTTTA
* *
46083340 TGGTTTAGTGTTT
1 AGGTTTAGGGTTT
46083353 TTAAGTTAAA
Statistics
Matches: 41, Mismatches: 6, Indels: 7
0.76 0.11 0.13
Matches are distributed among these distances:
35 4 0.10
36 4 0.10
37 24 0.59
38 5 0.12
39 4 0.10
ACGTcount: A:0.20, C:0.00, G:0.29, T:0.52
Consensus pattern (36 bp):
AGGTTTAGGGTTTAGGGTTTTTAAGTTTAAAGTTTA
Found at i:46083345 original size:29 final size:30
Alignment explanation
Indices: 46083210--46083366 Score: 96
Period size: 29 Copynumber: 5.3 Consensus size: 30
46083200 TAAGTTTAGG
* *
46083210 GTTTAAGGTTTTTAGGTTTAGGG-TTTGAGA
1 GTTTAAGGTTTATAGGTTTAGGGTTTTTA-A
* * *
46083240 TTTTTAA-G-TTA-AGGGTTAGGGTTTTTAG
1 -GTTTAAGGTTTATAGGTTTAGGGTTTTTAA
* * *
46083268 GTTTAGGGTTTA-AGGTTTTTTA-AG-TTTAAA
1 GTTTAAGGTTTATAGG---TTTAGGGTTTTTAA
* *
46083298 GTTTAAGGTTTTTAGGTTTGGGGTTTTTAA
1 GTTTAAGGTTTATAGGTTTAGGGTTTTTAA
* *
46083328 GTTTAGGGTTTAT-GGTTTAGTGTTTTTAA
1 GTTTAAGGTTTATAGGTTTAGGGTTTTTAA
*
46083357 GTTAAAGGTT
1 GTTTAAGGTT
46083367 AGCATTTTTA
Statistics
Matches: 95, Mismatches: 22, Indels: 20
0.69 0.16 0.15
Matches are distributed among these distances:
27 4 0.04
28 13 0.14
29 35 0.37
30 31 0.33
31 9 0.09
32 3 0.03
ACGTcount: A:0.21, C:0.00, G:0.29, T:0.50
Consensus pattern (30 bp):
GTTTAAGGTTTATAGGTTTAGGGTTTTTAA
Found at i:46083368 original size:21 final size:20
Alignment explanation
Indices: 46083344--46083410 Score: 80
Period size: 21 Copynumber: 3.2 Consensus size: 20
46083334 GGTTTATGGT
*
46083344 TTAGTGTTTTTAAGTTAAAGG
1 TTAG-GTTTTTAAGTTAAGGG
* *
46083365 TTAGCATTTTTAATTTAAGGG
1 TTAG-GTTTTTAAGTTAAGGG
*
46083386 TTAGGGTTTTAAGTTAAGGG
1 TTAGGTTTTTAAGTTAAGGG
46083406 TTAGG
1 TTAGG
46083411 ACTAGGGTTA
Statistics
Matches: 39, Mismatches: 7, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
20 18 0.46
21 21 0.54
ACGTcount: A:0.27, C:0.01, G:0.27, T:0.45
Consensus pattern (20 bp):
TTAGGTTTTTAAGTTAAGGG
Found at i:46083410 original size:20 final size:20
Alignment explanation
Indices: 46083351--46083410 Score: 75
Period size: 20 Copynumber: 3.0 Consensus size: 20
46083341 GGTTTAGTGT
* **
46083351 TTTTAAGTTAAAGGTTAGCAT
1 TTTTAAGTTAAGGGTTAG-GG
*
46083372 TTTTAATTTAAGGGTTAGGG
1 TTTTAAGTTAAGGGTTAGGG
46083392 TTTTAAGTTAAGGGTTAGG
1 TTTTAAGTTAAGGGTTAGG
46083411 ACTAGGGTTA
Statistics
Matches: 34, Mismatches: 5, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
20 18 0.53
21 16 0.47
ACGTcount: A:0.28, C:0.02, G:0.27, T:0.43
Consensus pattern (20 bp):
TTTTAAGTTAAGGGTTAGGG
Found at i:46083461 original size:14 final size:15
Alignment explanation
Indices: 46083432--46083469 Score: 51
Period size: 14 Copynumber: 2.6 Consensus size: 15
46083422 GATTTTAAAG
*
46083432 TTAAAGTTTTAGAGT
1 TTAAGGTTTTAGAGT
*
46083447 TTAGGGTTTTA-AGT
1 TTAAGGTTTTAGAGT
46083461 TTAAGGTTT
1 TTAAGGTTT
46083470 ATGGTTTTTA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
14 11 0.55
15 9 0.45
ACGTcount: A:0.26, C:0.00, G:0.24, T:0.50
Consensus pattern (15 bp):
TTAAGGTTTTAGAGT
Found at i:46083555 original size:15 final size:15
Alignment explanation
Indices: 46083466--46083551 Score: 56
Period size: 14 Copynumber: 6.0 Consensus size: 15
46083456 TAAGTTTAAG
* *
46083466 GTTTATGGTTTTTAA
1 GTTTAGGGTTTATAA
*
46083481 G-TTAGGGTTTATGA
1 GTTTAGGGTTTATAA
46083495 -TTTAGGGTTTA-AA
1 GTTTAGGGTTTATAA
* * *
46083508 GTTAAAGGTTTAT-G
1 GTTTAGGGTTTATAA
*
46083522 GTTTATGGTTT-TGAA
1 GTTTAGGGTTTAT-AA
*
46083537 TTTTAGGGTTTATAA
1 GTTTAGGGTTTATAA
46083552 TTTTTAGGTT
Statistics
Matches: 53, Mismatches: 12, Indels: 12
0.69 0.16 0.16
Matches are distributed among these distances:
13 2 0.04
14 38 0.72
15 12 0.23
16 1 0.02
ACGTcount: A:0.24, C:0.00, G:0.26, T:0.50
Consensus pattern (15 bp):
GTTTAGGGTTTATAA
Found at i:46083561 original size:15 final size:15
Alignment explanation
Indices: 46083523--46083579 Score: 53
Period size: 15 Copynumber: 3.7 Consensus size: 15
46083513 AGGTTTATGG
*
46083523 TTTATGGTTTTGAA-T
1 TTTA-GGTTTAGAATT
*
46083538 TTTAGGGTTTATAATT
1 TTTA-GGTTTAGAATT
**
46083554 TTTAGGTTTAGGGTT
1 TTTAGGTTTAGAATT
46083569 TTTAGGTTTAG
1 TTTAGGTTTAG
46083580 GGTTTAAAGT
Statistics
Matches: 35, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
15 30 0.86
16 5 0.14
ACGTcount: A:0.19, C:0.00, G:0.25, T:0.56
Consensus pattern (15 bp):
TTTAGGTTTAGAATT
Found at i:46083580 original size:15 final size:15
Alignment explanation
Indices: 46083552--46083665 Score: 80
Period size: 15 Copynumber: 7.8 Consensus size: 15
46083542 GGGTTTATAA
46083552 TTTTTAGGTTTAGGG
1 TTTTTAGGTTTAGGG
46083567 TTTTTAGGTTTAGGG
1 TTTTTAGGTTTAGGG
** * *
46083582 TTTAAAGTTTTCA-AG
1 TTTTTAGGTTT-AGGG
*
46083597 --TTAAGAG-TTAGGG
1 TTTTTAG-GTTTAGGG
46083610 TTTTTAGGTTTAGGG
1 TTTTTAGGTTTAGGG
*
46083625 TTTTTAGGTTTTA-AG
1 TTTTTAGG-TTTAGGG
*
46083640 --TTTAGGGTTTAAGG
1 TTTTTA-GGTTTAGGG
46083654 TTTTTAGGTTTA
1 TTTTTAGGTTTA
46083666 ATGTTTAGGG
Statistics
Matches: 78, Mismatches: 10, Indels: 22
0.71 0.09 0.20
Matches are distributed among these distances:
12 1 0.01
13 15 0.19
14 4 0.05
15 49 0.63
16 9 0.12
ACGTcount: A:0.20, C:0.01, G:0.28, T:0.51
Consensus pattern (15 bp):
TTTTTAGGTTTAGGG
Found at i:46083648 original size:29 final size:29
Alignment explanation
Indices: 46083612--46083675 Score: 96
Period size: 29 Copynumber: 2.2 Consensus size: 29
46083602 AGTTAGGGTT
*
46083612 TTTA-GGTTTAGGGTTTTTAGGTTTTAA-G
1 TTTAGGGTTTAAGGTTTTTAGG-TTTAATG
46083640 TTTAGGGTTTAAGGTTTTTAGGTTTAATG
1 TTTAGGGTTTAAGGTTTTTAGGTTTAATG
46083669 TTTAGGG
1 TTTAGGG
46083676 GTTTTTAAGT
Statistics
Matches: 33, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
28 9 0.27
29 24 0.73
ACGTcount: A:0.19, C:0.00, G:0.30, T:0.52
Consensus pattern (29 bp):
TTTAGGGTTTAAGGTTTTTAGGTTTAATG
Found at i:46083678 original size:15 final size:13
Alignment explanation
Indices: 46083627--46083695 Score: 59
Period size: 13 Copynumber: 4.8 Consensus size: 13
46083617 GTTTAGGGTT
*
46083627 TTTAGGTTTTAAG
1 TTTAGGGTTTAAG
46083640 TTTAGGGTTTAAGG
1 TTTAGGGTTTAA-G
46083654 TTTTTA-GGTTTAATG
1 --TTTAGGGTTTAA-G
46083669 TTTAGGGGTTTTTAAG
1 TTTA-GGG--TTTAAG
46083685 TTTAGGGTTTA
1 TTTAGGGTTTA
46083696 GGGTTTTTAG
Statistics
Matches: 47, Mismatches: 2, Indels: 14
0.75 0.03 0.22
Matches are distributed among these distances:
13 19 0.40
14 1 0.02
15 13 0.28
16 9 0.19
17 5 0.11
ACGTcount: A:0.20, C:0.00, G:0.28, T:0.52
Consensus pattern (13 bp):
TTTAGGGTTTAAG
Found at i:46083812 original size:14 final size:13
Alignment explanation
Indices: 46083756--46083831 Score: 55
Period size: 13 Copynumber: 5.5 Consensus size: 13
46083746 TAATTTAAAG
46083756 GTTAAGGTTTTAA
1 GTTAAGGTTTTAA
* *
46083769 GTTAAGG-ATTAGG
1 GTTAAGGTTTTA-A
* *
46083782 GTTAGGGTTGTAAA
1 GTTAAGGTT-TTAA
46083796 GTTAAGGTTTTAGA
1 GTTAAGGTTTTA-A
*
46083810 GTTTAGGATTTTTAA
1 GTTAAGG--TTTTAA
46083825 GTTAAGG
1 GTTAAGG
46083832 GTCTAAGGTT
Statistics
Matches: 47, Mismatches: 10, Indels: 10
0.70 0.15 0.15
Matches are distributed among these distances:
12 3 0.06
13 15 0.32
14 15 0.32
15 9 0.19
16 5 0.11
ACGTcount: A:0.29, C:0.00, G:0.30, T:0.41
Consensus pattern (13 bp):
GTTAAGGTTTTAA
Found at i:46083842 original size:29 final size:27
Alignment explanation
Indices: 46083763--46083845 Score: 76
Period size: 29 Copynumber: 2.9 Consensus size: 27
46083753 AAGGTTAAGG
* * *
46083763 TTTTAAGTTAAGGATTAGGGTTAGGGT
1 TTTTAAGTTAAGGGTTAGGTTTAGGAT
* * *
46083790 TGTAAAGTTAAGGTTTTAGAGTTTAGGAT
1 TTTTAAGTTAAGG-GTTAG-GTTTAGGAT
46083819 TTTTAAGTTAAGGGTCTAAGGTTTAGG
1 TTTTAAGTTAAGGGT-T-AGGTTTAGG
46083846 GTTTAAAGTT
Statistics
Matches: 44, Mismatches: 8, Indels: 6
0.76 0.14 0.10
Matches are distributed among these distances:
27 11 0.25
28 5 0.11
29 26 0.59
30 2 0.05
ACGTcount: A:0.28, C:0.01, G:0.30, T:0.41
Consensus pattern (27 bp):
TTTTAAGTTAAGGGTTAGGTTTAGGAT
Found at i:46083856 original size:14 final size:14
Alignment explanation
Indices: 46083783--46083871 Score: 61
Period size: 15 Copynumber: 6.1 Consensus size: 14
46083773 AGGATTAGGG
46083783 TTAGGGTTGTAAAGT
1 TTAGGGTT-TAAAGT
* * *
46083798 TAAGGTTTTAGAGT
1 TTAGGGTTTAAAGT
* *
46083812 TTAGGATTTTTAAGT
1 TTAGG-GTTTAAAGT
* * *
46083827 TAAGGGTCTAAGGT
1 TTAGGGTTTAAAGT
46083841 TTAGGGTTTAAAGTT
1 TTAGGGTTTAAAG-T
* *
46083856 TTAGGATTTAAGGT
1 TTAGGGTTTAAAGT
46083870 TT
1 TT
46083872 TTAGGTTTAG
Statistics
Matches: 56, Mismatches: 16, Indels: 5
0.73 0.21 0.06
Matches are distributed among these distances:
14 27 0.48
15 29 0.52
ACGTcount: A:0.27, C:0.01, G:0.28, T:0.44
Consensus pattern (14 bp):
TTAGGGTTTAAAGT
Found at i:46083886 original size:15 final size:16
Alignment explanation
Indices: 46083840--46083880 Score: 50
Period size: 15 Copynumber: 2.7 Consensus size: 16
46083830 GGGTCTAAGG
* *
46083840 TTTAGGGTTTAAAG-T
1 TTTAGGATTTAAGGTT
46083855 TTTAGGATTTAAGGTT
1 TTTAGGATTTAAGGTT
46083871 TTTAGG-TTTA
1 TTTAGGATTTA
46083881 GTGTTTGTGG
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
15 16 0.70
16 7 0.30
ACGTcount: A:0.24, C:0.00, G:0.24, T:0.51
Consensus pattern (16 bp):
TTTAGGATTTAAGGTT
Found at i:46083974 original size:43 final size:42
Alignment explanation
Indices: 46083140--46083323 Score: 192
Period size: 43 Copynumber: 4.2 Consensus size: 42
46083130 AAGTTAAGGC
* * * *
46083140 TTTAAGGTTTAGTGTTTTTAAGTTTATGGTTTATGGTTTTTAGG
1 TTTAGGGTTTAG-GTTTTTAAG-TTAAGGGTTAAGGTTTTTAGG
*
46083184 -TTAGGGTTTATGG-TTTTAAGTTTAGGGTTTAAGGTTTTTAGG
1 TTTAGGGTTTA-GGTTTTTAAGTTAAGGG-TTAAGGTTTTTAGG
* *
46083226 TTTAGGGTTTGAGATTTTTAAGTTAAGGGTTAGGGTTTTTAGG
1 TTTAGGGTTT-AGGTTTTTAAGTTAAGGGTTAAGGTTTTTAGG
* *
46083269 TTTAGGGTTTAAGGTTTTTTAAGTTTAAAGTTTAAGGTTTTTAGG
1 TTTAGGGTTT-AGG-TTTTTAAG-TTAAGGGTTAAGGTTTTTAGG
*
46083314 TTTGGGGTTT
1 TTTAGGGTTT
46083324 TTAAGTTTAG
Statistics
Matches: 119, Mismatches: 14, Indels: 13
0.82 0.10 0.09
Matches are distributed among these distances:
41 4 0.03
42 20 0.17
43 45 0.38
44 23 0.19
45 27 0.23
ACGTcount: A:0.20, C:0.00, G:0.29, T:0.52
Consensus pattern (42 bp):
TTTAGGGTTTAGGTTTTTAAGTTAAGGGTTAAGGTTTTTAGG
Found at i:46084002 original size:43 final size:43
Alignment explanation
Indices: 46083838--46084347 Score: 224
Period size: 43 Copynumber: 11.5 Consensus size: 43
46083828 AAGGGTCTAA
* *
46083838 GGTTTAGGGTTTAAAGTTTTAGGATTTAAGGTTTTTAGGTTTAG
1 GGTTTAGGGTTTTAAG-TTTAGGGTTTAAGGTTTTTAGGTTTAG
* * * ** * *
46083882 TGTTT-GTGGTTTTTAAGATTAAGGTTTGGGGTTTTTATGTTTAA
1 GGTTTAG-GG-TTTTAAGTTTAGGGTTTAAGGTTTTTAGGTTTAG
* * *
46083926 GGTTTAGAGTTTTTAAGTTAAGGG-TTAAGGTTTTTAGGTTTGG
1 GGTTTAG-GGTTTTAAGTTTAGGGTTTAAGGTTTTTAGGTTTAG
* * *
46083969 GGTTTATGGTTTTAAGTTTAGGGTTTAATGTTTTTAGATTTAG
1 GGTTTAGGGTTTTAAGTTTAGGGTTTAAGGTTTTTAGGTTTAG
* * * * **
46084012 AGATTGGGGTTTAAAGTTTAGGGTTTGGGGTTTTTAGGTTTAG
1 GGTTTAGGGTTTTAAGTTTAGGGTTTAAGGTTTTTAGGTTTAG
* *
46084055 GGTTTTTAAGTTAAGG-GTTAAGATTAGGG-TT-AGTGTTTTAAAGTTAAGGTTTTAG
1 GG--TTT-AG----GGTTTTAAGTTTAGGGTTTAAG-G-TTT----TT-AGG-TTTAG
* *
46084110 GGTTTATGGTTTTTAAGTTTAGGGCTTATA-GTTTTTAGGTTTAG
1 GGTTTA-GGGTTTTAAGTTTAGGGTTTA-AGGTTTTTAGGTTTAG
* *
46084154 AGTTTTTA-GG-TTT-AGTGTTTGTGGTTTTTAA-G--TTTAGGGTTTAG
1 -G-GTTTAGGGTTTTAAGT-TTAG-GG--TTTAAGGTTTTTA-GGTTTAG
* * ** * *
46084198 GGTTTAGGG-TTTAGGTTTATGGTTTGGGGTTTTTAAGTTAAG
1 GGTTTAGGGTTTTAAGTTTAGGGTTTAAGGTTTTTAGGTTTAG
** * * *
46084240 GG-TTATGATTTTTAGGTTTAGGGTTT-AGGGTTTTATGTTTAG
1 GGTTTA-GGGTTTTAAGTTTAGGGTTTAAGGTTTTTAGGTTTAG
* * * * *
46084282 AGTCTAAGGTTTTTAAGTTTAGGGTTTGAGGTTTTTAAGTTTAG
1 GGT-TTAGGGTTTTAAGTTTAGGGTTTAAGGTTTTTAGGTTTAG
* *
46084326 GG-TTAGTGTTTTTAGGTTTAGG
1 GGTTTAG-GGTTTTAAGTTTAGG
46084348 ATGAGGGTTT
Statistics
Matches: 351, Mismatches: 73, Indels: 85
0.69 0.14 0.17
Matches are distributed among these distances:
40 3 0.01
41 4 0.01
42 47 0.13
43 141 0.40
44 75 0.21
45 16 0.05
46 10 0.03
47 1 0.00
48 3 0.01
49 14 0.04
50 16 0.05
51 3 0.01
52 1 0.00
53 7 0.02
54 3 0.01
55 7 0.02
ACGTcount: A:0.20, C:0.00, G:0.30, T:0.49
Consensus pattern (43 bp):
GGTTTAGGGTTTTAAGTTTAGGGTTTAAGGTTTTTAGGTTTAG
Found at i:46084056 original size:22 final size:22
Alignment explanation
Indices: 46083538--46084361 Score: 313
Period size: 22 Copynumber: 36.6 Consensus size: 22
46083528 GGTTTTGAAT
* *
46083538 TTTAGGGTTTATAATTTTTA-GG
1 TTTAGGGTTTTTAA-GTTTAGGG
*
46083560 TTTAGGGTTTTTAGGTTTAGGG
1 TTTAGGGTTTTTAAGTTTAGGG
** * * *
46083582 TTTAAAGTTTTCAAGTTAAGAG
1 TTTAGGGTTTTTAAGTTTAGGG
*
46083604 -TTAGGGTTTTTAGGTTTAGGG
1 TTTAGGGTTTTTAAGTTTAGGG
46083625 TTTTTA-GG-TTTTAAGTTTAGGG
1 --TTTAGGGTTTTTAAGTTTAGGG
* * **
46083647 TTTAAGGTTTTTAGGTTTAATG
1 TTTAGGGTTTTTAAGTTTAGGG
46083669 TTTAGGGGTTTTTAAGTTTAGGG
1 TTTA-GGGTTTTTAAGTTTAGGG
*
46083692 TTTAGGGTTTTT-AGTTTTAAGG
1 TTTAGGGTTTTTAAG-TTTAGGG
* *
46083714 TTTGGGGTTTTTAAG-TTAAGG
1 TTTAGGGTTTTTAAGTTTAGGG
* ** *
46083735 ATTAGCATTTTTAA-TTTAAAGG
1 TTTAGGGTTTTTAAGTTT-AGGG
* * *
46083757 TTAAGGTTTTAAGTTAAGGATTAGGG
1 TTTAGGGTTT---TTAA-GTTTAGGG
*
46083783 -TTAGGGTTGTAAAGTTAAGGTTTTAGAG
1 TTTAGGGTT-T----TTAA-G-TTTAGGG
* *
46083811 TTTAGGATTTTTAAGTTAAGGG
1 TTTAGGGTTTTTAAGTTTAGGG
* * **
46083833 TCTAAGGTTTAGGGTTTAAAGTTTTAGG
1 T-TTAGGGTT----TTT-AAGTTTAGGG
* * *
46083861 ATTTAAGGTTTTTAGGTTTAGTG
1 -TTTAGGGTTTTTAAGTTTAGGG
* *
46083884 TTT-GTGGTTTTTAAGATTAAGG
1 TTTAG-GGTTTTTAAGTTTAGGG
* * *
46083906 TTTGGGGTTTTTATGTTTAAGG
1 TTTAGGGTTTTTAAGTTTAGGG
* *
46083928 TTTAGAGTTTTTAAGTTAAGGG
1 TTTAGGGTTTTTAAGTTTAGGG
* * *
46083950 -TTAAGGTTTTTAGGTTTGGGG
1 TTTAGGGTTTTTAAGTTTAGGG
*
46083971 TTTATGG-TTTTAAGTTTAGGG
1 TTTAGGGTTTTTAAGTTTAGGG
** *
46083992 TTTAATGTTTTT-AGATTTAGAG
1 TTTAGGGTTTTTAAG-TTTAGGG
* * *
46084014 ATT-GGGGTTTAAAGTTTAGGG
1 TTTAGGGTTTTTAAGTTTAGGG
*
46084035 TTT-GGG--GTT---TTTA-GG
1 TTTAGGGTTTTTAAGTTTAGGG
*
46084050 TTTAGGGTTTTTAAGTTAAGGG
1 TTTAGGGTTTTTAAGTTTAGGG
* *
46084072 TTAAGATTAGGGTTAGTGTTTTAAAGTTAAGGT
1 -T----TTAGGG----T-TTTT-AAGTTTAGGG
* * *
46084105 TTTAGGGTTTAT-GGTTTTTA-AG
1 TTTAGGGTTTTTAAG--TTTAGGG
* *
46084127 TTTAGGGCTTAT-AGTTTTTA-GG
1 TTTAGGGTTTTTAAG--TTTAGGG
* * *
46084149 TTTAGAGTTTTTAGGTTTAGTG
1 TTTAGGGTTTTTAAGTTTAGGG
46084171 TTT-GTGGTTTTTAAGTTTAGGG
1 TTTAG-GGTTTTTAAGTTTAGGG
* *
46084193 TTTAGGGTTTAGGGTTTAGGTTTATGG
1 TTTAGGG-TT----TTTAAGTTTAGGG
* *
46084220 TTTGGGGTTTTTAAGTTAAGGG
1 TTTAGGGTTTTTAAGTTTAGGG
* * *
46084242 -TTATGATTTTTAGGTTTAGGG
1 TTTAGGGTTTTTAAGTTTAGGG
* *
46084263 TTTAGGG-TTTTATGTTTAGAG
1 TTTAGGGTTTTTAAGTTTAGGG
* *
46084284 TCTAAGGTTTTTAAGTTTAGGG
1 TTTAGGGTTTTTAAGTTTAGGG
46084306 TTT-GAGGTTTTTAAGTTTAGGG
1 TTTAG-GGTTTTTAAGTTTAGGG
* *
46084328 -TTAGTGTTTTTAGGTTTA-GG
1 TTTAGGGTTTTTAAGTTTAGGG
* *
46084348 ATGAGGGTTTTTAA
1 TTTAGGGTTTTTAA
46084362 ATTAAGTGTT
Statistics
Matches: 604, Mismatches: 131, Indels: 135
0.69 0.15 0.16
Matches are distributed among these distances:
15 5 0.01
16 7 0.01
18 2 0.00
19 1 0.00
20 6 0.01
21 157 0.26
22 268 0.44
23 47 0.08
24 11 0.02
25 10 0.02
26 6 0.01
27 37 0.06
28 24 0.04
29 8 0.01
31 1 0.00
32 5 0.01
33 9 0.01
ACGTcount: A:0.21, C:0.01, G:0.29, T:0.49
Consensus pattern (22 bp):
TTTAGGGTTTTTAAGTTTAGGG
Found at i:46084057 original size:15 final size:15
Alignment explanation
Indices: 46084028--46084073 Score: 56
Period size: 15 Copynumber: 3.0 Consensus size: 15
46084018 GGGTTTAAAG
*
46084028 TTTAGGGTTTGGGGTT
1 TTTA-GGTTTAGGGTT
46084044 TTTAGGTTTAGGGTT
1 TTTAGGTTTAGGGTT
* *
46084059 TTTAAGTTAAGGGTT
1 TTTAGGTTTAGGGTT
46084074 AAGATTAGGG
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
15 23 0.85
16 4 0.15
ACGTcount: A:0.15, C:0.00, G:0.35, T:0.50
Consensus pattern (15 bp):
TTTAGGTTTAGGGTT
Found at i:46084159 original size:15 final size:15
Alignment explanation
Indices: 46084139--46084173 Score: 61
Period size: 15 Copynumber: 2.3 Consensus size: 15
46084129 TAGGGCTTAT
46084139 AGTTTTTAGGTTTAG
1 AGTTTTTAGGTTTAG
46084154 AGTTTTTAGGTTTAG
1 AGTTTTTAGGTTTAG
*
46084169 TGTTT
1 AGTTT
46084174 GTGGTTTTTA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.17, C:0.00, G:0.26, T:0.57
Consensus pattern (15 bp):
AGTTTTTAGGTTTAG
Found at i:46084214 original size:13 final size:13
Alignment explanation
Indices: 46084180--46084222 Score: 59
Period size: 13 Copynumber: 3.2 Consensus size: 13
46084170 GTTTGTGGTT
*
46084180 TTTAAGTTTAGGG
1 TTTAGGTTTAGGG
46084193 TTTAGGGTTTAGGG
1 TTTA-GGTTTAGGG
*
46084207 TTTAGGTTTATGG
1 TTTAGGTTTAGGG
46084220 TTT
1 TTT
46084223 GGGGTTTTTA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
13 15 0.56
14 12 0.44
ACGTcount: A:0.16, C:0.00, G:0.33, T:0.51
Consensus pattern (13 bp):
TTTAGGTTTAGGG
Found at i:46084228 original size:7 final size:7
Alignment explanation
Indices: 46084185--46084229 Score: 65
Period size: 7 Copynumber: 6.6 Consensus size: 7
46084175 TGGTTTTTAA
46084185 GTTTAGG
1 GTTTAGG
46084192 GTTTAGG
1 GTTTAGG
46084199 GTTTAGG
1 GTTTAGG
46084206 GTTTA-G
1 GTTTAGG
*
46084212 GTTTATG
1 GTTTAGG
*
46084219 GTTTGGG
1 GTTTAGG
46084226 GTTT
1 GTTT
46084230 TTAAGTTAAG
Statistics
Matches: 35, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
6 6 0.17
7 29 0.83
ACGTcount: A:0.11, C:0.00, G:0.40, T:0.49
Consensus pattern (7 bp):
GTTTAGG
Found at i:46084253 original size:21 final size:21
Alignment explanation
Indices: 46084227--46084347 Score: 95
Period size: 21 Copynumber: 5.7 Consensus size: 21
46084217 TGGTTTGGGG
*
46084227 TTTTTAAGTTAAGGGTTATGA
1 TTTTTAAGTTTAGGGTTATGA
* *
46084248 TTTTTAGGTTTAGGGTT-TAGG
1 TTTTTAAGTTTAGGGTTAT-GA
* * * * *
46084269 GTTTTATGTTTAGAGTCTAAGG
1 TTTTTAAGTTTAGGGT-TATGA
46084291 TTTTTAAGTTTAGGGTT-TGA
1 TTTTTAAGTTTAGGGTTATGA
46084311 GGTTTTTAAGTTTAGGGTTAGTG-
1 --TTTTTAAGTTTAGGGTTA-TGA
*
46084334 TTTTTAGGTTTAGG
1 TTTTTAAGTTTAGG
46084348 ATGAGGGTTT
Statistics
Matches: 80, Mismatches: 13, Indels: 14
0.75 0.12 0.13
Matches are distributed among these distances:
20 2 0.03
21 43 0.54
22 33 0.41
24 2 0.03
ACGTcount: A:0.20, C:0.01, G:0.29, T:0.50
Consensus pattern (21 bp):
TTTTTAAGTTTAGGGTTATGA
Found at i:46084357 original size:21 final size:21
Alignment explanation
Indices: 46084289--46084361 Score: 76
Period size: 21 Copynumber: 3.4 Consensus size: 21
46084279 TAGAGTCTAA
*
46084289 GGTTTTTAAGTTTAGGGTTTGA-
1 GGTTTTTAAGTTTA-GG-ATGAG
* *
46084311 GGTTTTTAAGTTTAGGGTTAG
1 GGTTTTTAAGTTTAGGATGAG
* *
46084332 TGTTTTTAGGTTTAGGATGAG
1 GGTTTTTAAGTTTAGGATGAG
46084353 GGTTTTTAA
1 GGTTTTTAA
46084362 ATTAAGTGTT
Statistics
Matches: 42, Mismatches: 8, Indels: 3
0.79 0.15 0.06
Matches are distributed among these distances:
20 2 0.05
21 26 0.62
22 14 0.33
ACGTcount: A:0.19, C:0.00, G:0.32, T:0.49
Consensus pattern (21 bp):
GGTTTTTAAGTTTAGGATGAG
Found at i:46084428 original size:22 final size:22
Alignment explanation
Indices: 46084403--46084470 Score: 93
Period size: 22 Copynumber: 3.1 Consensus size: 22
46084393 AAGTTAAGGT
46084403 TTTAGGGTTTATGGTTTTTAAG
1 TTTAGGGTTTATGGTTTTTAAG
* *
46084425 TTTAGGGTTTATAGTTTTTATG
1 TTTAGGGTTTATGGTTTTTAAG
*
46084447 TTTAGGGTTT-GGAGTTTTTAAG
1 TTTAGGGTTTATG-GTTTTTAAG
46084469 TT
1 TT
46084471 AACAGTTAGG
Statistics
Matches: 40, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
22 40 1.00
ACGTcount: A:0.18, C:0.00, G:0.26, T:0.56
Consensus pattern (22 bp):
TTTAGGGTTTATGGTTTTTAAG
Found at i:46084441 original size:29 final size:29
Alignment explanation
Indices: 46084386--46084441 Score: 67
Period size: 29 Copynumber: 1.9 Consensus size: 29
46084376 TTAGGGTTAA
* *
46084386 GGTTTTAAAGTTAAGGTTTTAGGGTTTAT
1 GGTTTTAAAGTTAAGGGTTTAGAGTTTAT
* * *
46084415 GGTTTTTAAGTTTAGGGTTTATAGTTT
1 GGTTTTAAAGTTAAGGGTTTAGAGTTT
46084442 TTATGTTTAG
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
29 22 1.00
ACGTcount: A:0.21, C:0.00, G:0.27, T:0.52
Consensus pattern (29 bp):
GGTTTTAAAGTTAAGGGTTTAGAGTTTAT
Found at i:46084986 original size:18 final size:18
Alignment explanation
Indices: 46084963--46085002 Score: 62
Period size: 18 Copynumber: 2.2 Consensus size: 18
46084953 TACTCGGAAA
* *
46084963 AGGATACATATAAGGGTT
1 AGGATACATAAAAGGGCT
46084981 AGGATACATAAAAGGGCT
1 AGGATACATAAAAGGGCT
46084999 AGGA
1 AGGA
46085003 AACGCACCTG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.42, C:0.07, G:0.30, T:0.20
Consensus pattern (18 bp):
AGGATACATAAAAGGGCT
Found at i:46086919 original size:11 final size:12
Alignment explanation
Indices: 46086903--46086957 Score: 73
Period size: 11 Copynumber: 4.8 Consensus size: 12
46086893 ATTAAATATG
46086903 AATTTGAGA-GA
1 AATTTGAGAGGA
46086914 AATTTG-GAAGGA
1 AATTTGAG-AGGA
46086926 AA-TTGAGAGGA
1 AATTTGAGAGGA
46086937 AA-TTGAGAGGA
1 AATTTGAGAGGA
46086948 AATTTGAGAG
1 AATTTGAGAG
46086958 AGTATTTGTT
Statistics
Matches: 40, Mismatches: 0, Indels: 7
0.85 0.00 0.15
Matches are distributed among these distances:
10 1 0.03
11 27 0.68
12 12 0.30
ACGTcount: A:0.44, C:0.00, G:0.33, T:0.24
Consensus pattern (12 bp):
AATTTGAGAGGA
Found at i:46093675 original size:24 final size:24
Alignment explanation
Indices: 46093641--46093692 Score: 72
Period size: 24 Copynumber: 2.2 Consensus size: 24
46093631 ATAAATTTAA
* *
46093641 AAATT-TTAAAAATA-AATAAACT
1 AAATTCTTAAAAATACAAAAAAAT
46093663 AAATTCTTAAAAATACAAAAAAAT
1 AAATTCTTAAAAATACAAAAAAAT
46093687 AAATTC
1 AAATTC
46093693 CTAATTTTTC
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
22 5 0.19
23 9 0.35
24 12 0.46
ACGTcount: A:0.63, C:0.08, G:0.00, T:0.29
Consensus pattern (24 bp):
AAATTCTTAAAAATACAAAAAAAT
Found at i:46097849 original size:18 final size:17
Alignment explanation
Indices: 46097807--46097856 Score: 50
Period size: 18 Copynumber: 2.9 Consensus size: 17
46097797 TAATATCGAT
46097807 TATTCAAATAA-AAAAG
1 TATTCAAATAACAAAAG
*
46097823 TATTTAAATAACAAAA-
1 TATTCAAATAACAAAAG
*
46097839 TAAATTCAAATTACAAAA
1 T--ATTCAAATAACAAAA
46097857 AGAAGTTAAA
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
16 11 0.39
17 4 0.14
18 13 0.46
ACGTcount: A:0.62, C:0.08, G:0.02, T:0.28
Consensus pattern (17 bp):
TATTCAAATAACAAAAG
Found at i:46099878 original size:30 final size:30
Alignment explanation
Indices: 46099844--46099905 Score: 97
Period size: 30 Copynumber: 2.1 Consensus size: 30
46099834 ATTTATTTTA
46099844 TTGTTAATTTTATTAGTATTTTAAAGGCAT
1 TTGTTAATTTTATTAGTATTTTAAAGGCAT
* * *
46099874 TTGTTAATTTTGTTATTATTTTAGAGGCAT
1 TTGTTAATTTTATTAGTATTTTAAAGGCAT
46099904 TT
1 TT
46099906 TCTTGTTAAG
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.26, C:0.03, G:0.15, T:0.56
Consensus pattern (30 bp):
TTGTTAATTTTATTAGTATTTTAAAGGCAT
Found at i:46100045 original size:11 final size:11
Alignment explanation
Indices: 46100029--46100059 Score: 53
Period size: 11 Copynumber: 2.8 Consensus size: 11
46100019 TATATATATT
46100029 TAAAAATTATA
1 TAAAAATTATA
*
46100040 TAAAAATAATA
1 TAAAAATTATA
46100051 TAAAAATTA
1 TAAAAATTA
46100060 ATACGGGCGG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (11 bp):
TAAAAATTATA
Found at i:46106263 original size:31 final size:30
Alignment explanation
Indices: 46106222--46106282 Score: 86
Period size: 31 Copynumber: 2.0 Consensus size: 30
46106212 ATGGTATAAT
*
46106222 TACACTAAATCAAAATTCATGTATCAAATTA
1 TACACTAAATCAAAATTCATATAT-AAATTA
* *
46106253 TACATTAAATCAAAATTTATATATAAATTA
1 TACACTAAATCAAAATTCATATATAAATTA
46106283 AATTTTCTTA
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
30 6 0.22
31 21 0.78
ACGTcount: A:0.51, C:0.11, G:0.02, T:0.36
Consensus pattern (30 bp):
TACACTAAATCAAAATTCATATATAAATTA
Found at i:46114996 original size:12 final size:12
Alignment explanation
Indices: 46114979--46115019 Score: 57
Period size: 12 Copynumber: 3.5 Consensus size: 12
46114969 ACAATTGTAT
46114979 TTTTTTCCTTAA
1 TTTTTTCCTTAA
**
46114991 TTTTTT-CTTTC
1 TTTTTTCCTTAA
46115002 TTTTTTCCTTAA
1 TTTTTTCCTTAA
46115014 TTTTTT
1 TTTTTT
46115020 TTTATTTCCT
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
11 9 0.38
12 15 0.62
ACGTcount: A:0.10, C:0.15, G:0.00, T:0.76
Consensus pattern (12 bp):
TTTTTTCCTTAA
Found at i:46117163 original size:27 final size:27
Alignment explanation
Indices: 46117133--46117184 Score: 86
Period size: 27 Copynumber: 1.9 Consensus size: 27
46117123 GTTCGTGTTT
*
46117133 TGTTCGTGTTCATTAATTTTAAATTTA
1 TGTTCGTGTTCATTAATTTAAAATTTA
*
46117160 TGTTCGTGTTCATTTATTTAAAATT
1 TGTTCGTGTTCATTAATTTAAAATT
46117185 ATATATTTTG
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.25, C:0.08, G:0.12, T:0.56
Consensus pattern (27 bp):
TGTTCGTGTTCATTAATTTAAAATTTA
Found at i:46117259 original size:23 final size:23
Alignment explanation
Indices: 46117216--46117260 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
46117206 TTTTTTAAGC
* **
46117216 TAAACGAGCATGTTTGTGAATAT
1 TAAACAAGCATGTTTACGAATAT
46117239 TAAACAAGCATGTTTACGAATA
1 TAAACAAGCATGTTTACGAATA
46117261 ATGTTCATGA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.40, C:0.11, G:0.18, T:0.31
Consensus pattern (23 bp):
TAAACAAGCATGTTTACGAATAT
Found at i:46122455 original size:29 final size:30
Alignment explanation
Indices: 46122423--46122483 Score: 115
Period size: 29 Copynumber: 2.1 Consensus size: 30
46122413 TCATTCATTT
46122423 TTTCATTTGGTTGATCTGAAAAAAT-CTCG
1 TTTCATTTGGTTGATCTGAAAAAATGCTCG
46122452 TTTCATTTGGTTGATCTGAAAAAATGCTCG
1 TTTCATTTGGTTGATCTGAAAAAATGCTCG
46122482 TT
1 TT
46122484 GATGGTCGTG
Statistics
Matches: 31, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
29 25 0.81
30 6 0.19
ACGTcount: A:0.26, C:0.13, G:0.18, T:0.43
Consensus pattern (30 bp):
TTTCATTTGGTTGATCTGAAAAAATGCTCG
Found at i:46123822 original size:6 final size:6
Alignment explanation
Indices: 46123811--46123855 Score: 54
Period size: 6 Copynumber: 7.5 Consensus size: 6
46123801 TAGGTTTCTA
* * **
46123811 AAATGG AAATGG AAATGA AAATGA AAATAA AAATGG AAATGG AAA
1 AAATGG AAATGG AAATGG AAATGG AAATGG AAATGG AAATGG AAA
46123856 CTTGCAATCC
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
6 35 1.00
ACGTcount: A:0.62, C:0.00, G:0.22, T:0.16
Consensus pattern (6 bp):
AAATGG
Found at i:46124030 original size:26 final size:26
Alignment explanation
Indices: 46123999--46124070 Score: 110
Period size: 26 Copynumber: 2.8 Consensus size: 26
46123989 AAATTTCTCG
*
46123999 AAATTTTACTAGGGGTAAAATCGTCA
1 AAATTTTACTAGGAGTAAAATCGTCA
* *
46124025 AAATTTTACCAGGAGTAAAATCGTTA
1 AAATTTTACTAGGAGTAAAATCGTCA
46124051 AAATTTTACT-GGAGTAAAAT
1 AAATTTTACTAGGAGTAAAAT
46124071 TGGGATGAGA
Statistics
Matches: 42, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
25 10 0.24
26 32 0.76
ACGTcount: A:0.42, C:0.10, G:0.17, T:0.32
Consensus pattern (26 bp):
AAATTTTACTAGGAGTAAAATCGTCA
Found at i:46125564 original size:12 final size:11
Alignment explanation
Indices: 46125547--46125610 Score: 60
Period size: 12 Copynumber: 5.6 Consensus size: 11
46125537 TTATTTAGTG
46125547 TTATTTTATTAT
1 TTATTTTATT-T
*
46125559 TTATTTT-TCT
1 TTATTTTATTT
*
46125569 TAATGTTTA-TT
1 TTAT-TTTATTT
46125580 TTATTTTATTTT
1 TTATTTTA-TTT
46125592 TTATTTTTATTT
1 TTA-TTTTATTT
46125604 TTATTTT
1 TTATTTT
46125611 GGTTTTGGTT
Statistics
Matches: 43, Mismatches: 4, Indels: 11
0.74 0.07 0.19
Matches are distributed among these distances:
10 8 0.19
11 12 0.28
12 18 0.42
13 5 0.12
ACGTcount: A:0.19, C:0.02, G:0.02, T:0.78
Consensus pattern (11 bp):
TTATTTTATTT
Found at i:46125598 original size:6 final size:6
Alignment explanation
Indices: 46125574--46125610 Score: 51
Period size: 6 Copynumber: 6.3 Consensus size: 6
46125564 TTTCTTAATG
46125574 TTTA-T TTTA-T TTTATTT TTTATT TTTATT TTTATT TT
1 TTTATT TTTATT TTTA-TT TTTATT TTTATT TTTATT TT
46125611 GGTTTTGGTT
Statistics
Matches: 30, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
5 9 0.30
6 16 0.53
7 5 0.17
ACGTcount: A:0.16, C:0.00, G:0.00, T:0.84
Consensus pattern (6 bp):
TTTATT
Found at i:46126266 original size:21 final size:21
Alignment explanation
Indices: 46126240--46126285 Score: 74
Period size: 21 Copynumber: 2.2 Consensus size: 21
46126230 ACGGGCGACT
46126240 CACACGGGCGTGTGTCCCCTC
1 CACACGGGCGTGTGTCCCCTC
**
46126261 CACACGGGCGTGTGTGGCCTC
1 CACACGGGCGTGTGTCCCCTC
46126282 CACA
1 CACA
46126286 TAGGCATGTA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.13, C:0.39, G:0.30, T:0.17
Consensus pattern (21 bp):
CACACGGGCGTGTGTCCCCTC
Found at i:46129148 original size:14 final size:14
Alignment explanation
Indices: 46129129--46129164 Score: 63
Period size: 14 Copynumber: 2.6 Consensus size: 14
46129119 TCATTTAATC
*
46129129 ACCAAAATTATTAG
1 ACCAAAATTATCAG
46129143 ACCAAAATTATCAG
1 ACCAAAATTATCAG
46129157 ACCAAAAT
1 ACCAAAAT
46129165 CTAATTACTA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.53, C:0.19, G:0.06, T:0.22
Consensus pattern (14 bp):
ACCAAAATTATCAG
Found at i:46138300 original size:3 final size:3
Alignment explanation
Indices: 46138294--46138338 Score: 56
Period size: 3 Copynumber: 14.7 Consensus size: 3
46138284 GATAAGTAGC
*
46138294 AAT AAT -AT AAGT AAT AAT AAT AAT AAT AGT AAT AAT AAAT AAT AA
1 AAT AAT AAT AA-T AAT AAT AAT AAT AAT AAT AAT AAT -AAT AAT AA
46138339 AAGATGATAA
Statistics
Matches: 37, Mismatches: 2, Indels: 6
0.82 0.04 0.13
Matches are distributed among these distances:
2 2 0.05
3 29 0.78
4 6 0.16
ACGTcount: A:0.64, C:0.00, G:0.04, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:46138331 original size:15 final size:16
Alignment explanation
Indices: 46138275--46138331 Score: 64
Period size: 15 Copynumber: 3.6 Consensus size: 16
46138265 AGCTATTATA
46138275 TAATAATATGATAAGTAG
1 TAATAATA--ATAAGTAG
* *
46138293 CAATAAT-ATAAGTAA
1 TAATAATAATAAGTAG
46138308 TAATAATAATAA-TAG
1 TAATAATAATAAGTAG
46138323 TAATAATAA
1 TAATAATAA
46138332 ATAATAAAAG
Statistics
Matches: 34, Mismatches: 4, Indels: 5
0.79 0.09 0.12
Matches are distributed among these distances:
15 24 0.71
16 4 0.12
18 6 0.18
ACGTcount: A:0.58, C:0.02, G:0.09, T:0.32
Consensus pattern (16 bp):
TAATAATAATAAGTAG
Found at i:46140110 original size:98 final size:98
Alignment explanation
Indices: 46139949--46140138 Score: 285
Period size: 98 Copynumber: 1.9 Consensus size: 98
46139939 ACCTGATGCG
*
46139949 ATCTACTCTACTGTAACTTCAGAGAGATAAGATCTGTGATTTTAATCCACTCCACTGCAACTTCA
1 ATCTACTCTACTGTAACTTCAAAGAGATAAGATCTGTGATTTTAATCCACTCCACTGCAACTTCA
* *
46140014 GGGAGATAGAATTA-TCGGCTTCAATCTGATGTT
66 GAGAGATAGAATTACT-AGCTTCAATCTGATGTT
* *
46140047 ATCTACTCTACTGTAACTTCAAAGAGATAAGATCCT-TTATTTTAATCCACTCCACTGTAACTTC
1 ATCTACTCTACTGTAACTTCAAAGAGATAAGAT-CTGTGATTTTAATCCACTCCACTGCAACTTC
* *
46140111 AGAGAGTTAGGATTACTAGCTTCAATCT
65 AGAGAGATAGAATTACTAGCTTCAATCT
46140139 ACTCCGTTAT
Statistics
Matches: 83, Mismatches: 7, Indels: 4
0.88 0.07 0.04
Matches are distributed among these distances:
98 80 0.96
99 3 0.04
ACGTcount: A:0.31, C:0.21, G:0.15, T:0.34
Consensus pattern (98 bp):
ATCTACTCTACTGTAACTTCAAAGAGATAAGATCTGTGATTTTAATCCACTCCACTGCAACTTCA
GAGAGATAGAATTACTAGCTTCAATCTGATGTT
Found at i:46140179 original size:44 final size:44
Alignment explanation
Indices: 46140129--46141573 Score: 209
Period size: 44 Copynumber: 32.9 Consensus size: 44
46140119 AGGATTACTA
** * *
46140129 GCTTCAATCTACTCCGTTATAATCTGAGGGAGATAAGATCTCTG
1 GCTTCAATCTACTCCACTATAACCTCAGGGAGATAAGATCTCTG
* * **
46140173 GCTTCAATCTGCTCCACTGTAACCTCAGGGAGATAAGATCTGAAG
1 GCTTCAATCTACTCCACTATAACCTCAGGGAGATAAGATCT-CTG
* ** * *
46140218 TTCTTCGGTCTACTCCACTGTAACCTCAGGTAGATAAGA-C-CT-
1 -GCTTCAATCTACTCCACTATAACCTCAGGGAGATAAGATCTCTG
* * * * * * * * *
46140260 GATGCGATCTACTCTACTGTAACTTCAGAGAGATGAGATC-CTTT
1 GCTTCAATCTACTCCACTATAACCTCAGGGAGATAAGATCTC-TG
** * ** * * ** * **
46140304 ATTTTAATCCGCTCCACTGTAACTTTTGGGAGATAGGAT-AGTG
1 GCTTCAATCTACTCCACTATAACCTCAGGGAGATAAGATCTCTG
* ** * * * *
46140347 TCTTGGATCTGCTCCGCTATAATCTCAGGAAGATAAGATCTCTG
1 GCTTCAATCTACTCCACTATAACCTCAGGGAGATAAGATCTCTG
* * **
46140391 GCTTCAATCTGCTCCACTGTAACCTCAGGGAGATAAGATCTGAAG
1 GCTTCAATCTACTCCACTATAACCTCAGGGAGATAAGATCT-CTG
* ** * *
46140436 TTCTTCGGTCTACTCCACTGTAACCTCAGGGAAATAAGA--TCT-
1 -GCTTCAATCTACTCCACTATAACCTCAGGGAGATAAGATCTCTG
* * * * * * * * *
46140478 GATGCGATCTACTCTACTGTAACTTCAGAGAGATGAGATC-CTTT
1 GCTTCAATCTACTCCACTATAACCTCAGGGAGATAAGATCTC-TG
** * ** * * * **
46140522 ATTTTAATCCGCTCCACTGTAACTTCAGGGAGATAGGAT-AGTG
1 GCTTCAATCTACTCCACTATAACCTCAGGGAGATAAGATCTCTG
* ** * * * * *
46140565 TCTTGGATCTGCTCCTCTGTAATCTTAGGGAGATAAGATCTCTG
1 GCTTCAATCTACTCCACTATAACCTCAGGGAGATAAGATCTCTG
* * *
46140609 GCTTCAATCTGCTCCACTGTAACCTCAGGGAGATAAGATCTGAAAT-
1 GCTTCAATCTACTCCACTATAACCTCAGGGAGATAAGATCT---CTG
* ** * * *
46140655 CCTTCGGTCTACTCCACTGTAACTTCAGAGAGATAAGA-C-CT-
1 GCTTCAATCTACTCCACTATAACCTCAGGGAGATAAGATCTCTG
* * * *** * * ** *
46140696 GATGCGATCTACTGTGCTGTAACTTCAAAGAGATAAGATC-CTTT
1 GCTTCAATCTACTCCACTATAACCTCAGGGAGATAAGATCTC-TG
** * ** * * *
46140740 ATTTTAATCCGCTCCACTGTAATCTCAGGGAGATAAGAT-TACTA
1 GCTTCAATCTACTCCACTATAACCTCAGGGAGATAAGATCT-CTG
* * * *
46140784 GCTTCAATCTGCTCCATTGTAATCTCAGGGAGATAAGA-C-CT-
1 GCTTCAATCTACTCCACTATAACCTCAGGGAGATAAGATCTCTG
* * * * * * * *
46140825 GATACGATCTACTCTACTGTAACTTCAGAGAGATAAGATC-CTTT
1 GCTTCAATCTACTCCACTATAACCTCAGGGAGATAAGATCTC-TG
** * ** * * *
46140869 ATTTTAATCCGCTCCACTGTAATCTCAGGGAGATAGGAT-TACTAG
1 GCTTCAATCTACTCCACTATAACCTCAGGGAGATAAGATCT-CT-G
** * *
46140914 G-TTCAATCTACTCCGTTGTAATCTCAGGGAGATAAGA-C-CT-
1 GCTTCAATCTACTCCACTATAACCTCAGGGAGATAAGATCTCTG
* * * * * * * *
46140954 GATACGATCTACTCTACTGTAACTTCAGAGAGATAAGATC-CTTT
1 GCTTCAATCTACTCCACTATAACCTCAGGGAGATAAGATCTC-TG
** * ** * * * * *
46140998 ATTTTAATCCGCTCCACTGTAATCTTAGGGAGATAGGAT-TACTA
1 GCTTCAATCTACTCCACTATAACCTCAGGGAGATAAGATCT-CTG
* * ** *
46141042 GCTTCAATCTGATGTGATCTACTCTACTGTAACTTCAGAAAGATAAGATC-CTTT
1 GCTTCAATC-----T-A-CT-C-C-ACTATAACCTCAGGGAGATAAGATCTC-TG
** * ** * * * **
46141096 ATTTTAATCCGCTCCACTGTAATCTCAGGGAGATATGAT-AGTG
1 GCTTCAATCTACTCCACTATAACCTCAGGGAGATAAGATCTCTG
* ** * * * *
46141139 TCTTGGATCTGCTCCGCTGTAATCTCAGGGAGATAAGATCTCTG
1 GCTTCAATCTACTCCACTATAACCTCAGGGAGATAAGATCTCTG
* * *
46141183 GCTTCAATCTGCTCCACTGTAACCTCAGGGAGATAAGATCTGAAAT-
1 GCTTCAATCTACTCCACTATAACCTCAGGGAGATAAGATCT---CTG
** ** *
46141229 TATTCGGTCTACTCCACTGTAACCTCAGGGAGATAAGA-C-CT-
1 GCTTCAATCTACTCCACTATAACCTCAGGGAGATAAGATCTCTG
* * * ** * * ** *
46141270 GATGCGATCTACTCTGCTGTAACTTCAGAAAGATAAGATC-CTTT
1 GCTTCAATCTACTCCACTATAACCTCAGGGAGATAAGATCTC-TG
** * ** * * * *
46141314 ATTTTAATCCGCTCCACTGTAATCTCAGGGAGATAGGAT-TGCTA
1 GCTTCAATCTACTCCACTATAACCTCAGGGAGATAAGATCT-CTG
* * * * ** * *
46141358 GCTTCAATATGCTCCGCTGTAATATCAGTGAGATAAGATCTGAAAT-
1 GCTTCAATCTACTCCACTATAACCTCAGGGAGATAAGATCT---CTG
* ** * *
46141404 TCTTCGGTCTACTCTACTGTAACCTCAGGGAGATAAGA-C-CT-
1 GCTTCAATCTACTCCACTATAACCTCAGGGAGATAAGATCTCTG
* * * * * * *
46141445 GATGCGATCTACTCTACTGTAACCTCAGAGAGATAAGATC-CTAA
1 GCTTCAATCTACTCCACTATAACCTCAGGGAGATAAGATCTCT-G
** * * * * * * *
46141489 ATTTTAATCCACTCCACTGTAATCTCAAGGAGATAGGAT-TACTA
1 GCTTCAATCTACTCCACTATAACCTCAGGGAGATAAGATCT-CTG
* * * *
46141533 GCTTCAATCTGCTCCGCTGTAATCTCAGGGAGATAAGATCT
1 GCTTCAATCTACTCCACTATAACCTCAGGGAGATAAGATCT
46141574 AAAATTCTTC
Statistics
Matches: 1022, Mismatches: 311, Indels: 135
0.70 0.21 0.09
Matches are distributed among these distances:
40 1 0.00
41 211 0.21
42 18 0.02
43 96 0.09
44 486 0.48
45 15 0.01
46 160 0.16
47 5 0.00
51 2 0.00
52 1 0.00
53 2 0.00
54 25 0.02
ACGTcount: A:0.28, C:0.22, G:0.19, T:0.31
Consensus pattern (44 bp):
GCTTCAATCTACTCCACTATAACCTCAGGGAGATAAGATCTCTG
Found at i:46140426 original size:218 final size:217
Alignment explanation
Indices: 46140047--46140864 Score: 1162
Period size: 218 Copynumber: 3.8 Consensus size: 217
46140037 ATCTGATGTT
*
46140047 ATCTACTCTACTGTAACTTCAAAGAGATAAGATCCTTTATTTTAATCCACTCCACTGTAACTTCA
1 ATCTACTCTACTGTAACTTCAAAGAGATAAGATCCTTTATTTTAATCCGCTCCACTGTAACTTCA
* * * ** * * *
46140112 GAGAGTTAGGATTACTAG-CTTCAATCTACTCCGTTATAATCTGAGGGAGATAAGATCTCTGGCT
66 GGGAGATAGGA-TAGT-GTCTTGGATCTGCTCCGCTATAATCTCAGGGAGATAAGATCTCTGGCT
46140176 TCAATCTGCTCCACTGTAACCTCAGGGAGATAAGATCTGAAGTTCTTCGGTCTACTCCACTGTAA
129 TCAATCTGCTCCACTGTAACCTCAGGGAGATAAGATCTGAAGTTCTTCGGTCTACTCCACTGTAA
46140241 CCTCAGGTAGATAAGACCTGATGCG
194 CCTCAGG-AGATAAGACCTGATGCG
* * **
46140266 ATCTACTCTACTGTAACTTCAGAGAGATGAGATCCTTTATTTTAATCCGCTCCACTGTAACTTTT
1 ATCTACTCTACTGTAACTTCAAAGAGATAAGATCCTTTATTTTAATCCGCTCCACTGTAACTTCA
*
46140331 GGGAGATAGGATAGTGTCTTGGATCTGCTCCGCTATAATCTCAGGAAGATAAGATCTCTGGCTTC
66 GGGAGATAGGATAGTGTCTTGGATCTGCTCCGCTATAATCTCAGGGAGATAAGATCTCTGGCTTC
46140396 AATCTGCTCCACTGTAACCTCAGGGAGATAAGATCTGAAGTTCTTCGGTCTACTCCACTGTAACC
131 AATCTGCTCCACTGTAACCTCAGGGAGATAAGATCTGAAGTTCTTCGGTCTACTCCACTGTAACC
* *
46140461 TCAGGGAAATAAGATCTGATGCG
196 TCA-GGAGATAAGACCTGATGCG
* *
46140484 ATCTACTCTACTGTAACTTCAGAGAGATGAGATCCTTTATTTTAATCCGCTCCACTGTAACTTCA
1 ATCTACTCTACTGTAACTTCAAAGAGATAAGATCCTTTATTTTAATCCGCTCCACTGTAACTTCA
* * *
46140549 GGGAGATAGGATAGTGTCTTGGATCTGCTCCTCTGTAATCTTAGGGAGATAAGATCTCTGGCTTC
66 GGGAGATAGGATAGTGTCTTGGATCTGCTCCGCTATAATCTCAGGGAGATAAGATCTCTGGCTTC
* * *
46140614 AATCTGCTCCACTGTAACCTCAGGGAGATAAGATCTGAAATCCTTCGGTCTACTCCACTGTAACT
131 AATCTGCTCCACTGTAACCTCAGGGAGATAAGATCTGAAGTTCTTCGGTCTACTCCACTGTAACC
46140679 TCAGAGAGATAAGACCTGATGCG
196 TCAG-GAGATAAGACCTGATGCG
* *
46140702 ATCTACTGTGCTGTAACTTCAAAGAGATAAGATCCTTTATTTTAATCCGCTCCACTGTAA-TCTC
1 ATCTACTCTACTGTAACTTCAAAGAGATAAGATCCTTTATTTTAATCCGCTCCACTGTAACT-TC
* * ** ** * *
46140766 AGGGAGATAAGATTACTAG-CTTCAATCTGCTCCATTGTAATCTCAGGGAGATAAGA-C-CT-GA
65 AGGGAGATAGGA-TAGT-GTCTTGGATCTGCTCCGCTATAATCTCAGGGAGATAAGATCTCTGGC
* * * * * *
46140827 TACGATCTACTCTACTGTAACTTCAGAGAGATAAGATC
128 TTCAATCTGCTCCACTGTAACCTCAGGGAGATAAGATC
46140865 CTTTATTTTA
Statistics
Matches: 548, Mismatches: 45, Indels: 15
0.90 0.07 0.02
Matches are distributed among these distances:
216 33 0.06
217 5 0.01
218 403 0.74
219 106 0.19
220 1 0.00
ACGTcount: A:0.28, C:0.22, G:0.19, T:0.31
Consensus pattern (217 bp):
ATCTACTCTACTGTAACTTCAAAGAGATAAGATCCTTTATTTTAATCCGCTCCACTGTAACTTCA
GGGAGATAGGATAGTGTCTTGGATCTGCTCCGCTATAATCTCAGGGAGATAAGATCTCTGGCTTC
AATCTGCTCCACTGTAACCTCAGGGAGATAAGATCTGAAGTTCTTCGGTCTACTCCACTGTAACC
TCAGGAGATAAGACCTGATGCG
Found at i:46140574 original size:87 final size:89
Alignment explanation
Indices: 46140158--46140903 Score: 277
Period size: 87 Copynumber: 8.6 Consensus size: 89
46140148 TAATCTGAGG
* * *
46140158 GAGATAAGATCTCTGGCTTCAATCTGCTCCACTGTAACCTCAGGGAGATAAGATCTGAAGTTCTT
1 GAGATAAGATCTCTGACTTCAATCCGCTCCACTGTAACCTCAGGGAGATAAGATCTG-A-TCCTT
* *
46140223 CGG-TCTACTCCACTGTAACCTCAG-
64 CGGATCTACTCTACTGTAACTTCAGA
* * ** * * * * *
46140247 GTAGATAAGA-C-CTGA-TGCGATCTACTCTACTGTAACTTCAGAGAGATGAGATCCTTTAT--T
1 G-AGATAAGATCTCTGACTTCAATCCGCTCCACTGTAACCTCAGGGAGATAAGAT-C-TGATCCT
** ** * ** *
46140307 T-TAATCCGCTCCACTGTAACTTTTGG
63 TCGGATCTACTCTACTGTAACTTCAGA
* ** * ** * * * * * * *
46140333 GAGATAGGAT-AGTGTCTTGGATCTGCTCCGCTATAATCTCAGGAAGATAAGATCT-CTGGCTTC
1 GAGATAAGATCTCTGACTTCAATCCGCTCCACTGTAACCTCAGGGAGATAAGATCTGAT-CCTTC
* * * * *
46140396 -AATCTGCTCCACTGTAACCTCAGG
65 GGATCTACTCTACTGTAACTTCAGA
** * ** ** * *
46140420 GAGATAAGATCTGAAGTTCTTCGGTCTACTCCACTGTAACCTCAGGGAAATAAGATCTGA---TG
1 GAGATAAGATCT-CTG-ACTTCAATCCGCTCCACTGTAACCTCAGGGAGATAAGATCTGATCCTT
46140482 C-GATCTACTCTACTGTAACTTCAGA
64 CGGATCTACTCTACTGTAACTTCAGA
* * * * * * *
46140507 GAGATGAGATC-CTTTATTTTAATCCGCTCCACTGTAACTTCAGGGAGATAGGATAGTG-T-CTT
1 GAGATAAGATCTC-TGACTTCAATCCGCTCCACTGTAACCTCAGGGAGATAAGAT-CTGATCCTT
* *
46140569 -GGATCTGCTCCT-CTGTAATCTT-AGG
64 CGGATCTACT-CTACTGTAA-CTTCAGA
* *
46140594 GAGATAAGATCTCTGGCTTCAATCTGCTCCACTGTAACCTCAGGGAGATAAGATCTGAAATCCTT
1 GAGATAAGATCTCTGACTTCAATCCGCTCCACTGTAACCTCAGGGAGATAAGATCTG--ATCCTT
*
46140659 CGG-TCTACTCCACTGTAACTTCAGA
64 CGGATCTACTCTACTGTAACTTCAGA
* * ** *** * ** *
46140684 GAGATAAGA-C-CTGA-TGCGATCTACTGTGCTGTAACTTCAAAGAGATAAGATCCTTTAT--TT
1 GAGATAAGATCTCTGACTTCAATCCGCTCCACTGTAACCTCAGGGAGATAAGAT-C-TGATCCTT
** ** * *
46140744 -TAATCCGCTCCACTGTAA-TCTCAGG
64 CGGATCTACTCTACTGTAACT-TCAGA
* * * * *
46140769 GAGATAAGAT-TACT-AGCTTCAATCTGCTCCATTGTAATCTCAGGGAGATAAGACCTGA---TA
1 GAGATAAGATCT-CTGA-CTTCAATCCGCTCCACTGTAACCTCAGGGAGATAAGATCTGATCCTT
46140829 C-GATCTACTCTACTGTAACTTCAGA
64 CGGATCTACTCTACTGTAACTTCAGA
* * * *
46140854 GAGATAAGATC-CTTTATTTTAATCCGCTCCACTGTAATCTCAGGGAGATA
1 GAGATAAGATCTC-TGACTTCAATCCGCTCCACTGTAACCTCAGGGAGATA
46140904 GGATTACTAG
Statistics
Matches: 489, Mismatches: 123, Indels: 94
0.69 0.17 0.13
Matches are distributed among these distances:
84 3 0.01
85 142 0.29
86 13 0.03
87 212 0.43
88 40 0.08
89 11 0.02
90 66 0.13
91 2 0.00
ACGTcount: A:0.28, C:0.22, G:0.20, T:0.30
Consensus pattern (89 bp):
GAGATAAGATCTCTGACTTCAATCCGCTCCACTGTAACCTCAGGGAGATAAGATCTGATCCTTCG
GATCTACTCTACTGTAACTTCAGA
Found at i:46140848 original size:129 final size:129
Alignment explanation
Indices: 46140614--46141051 Score: 664
Period size: 129 Copynumber: 3.4 Consensus size: 129
46140604 CTCTGGCTTC
* * * * ** *
46140614 AATCTGCTCCACTGTAACCTCAGGGAGATAAGATCTGA-AATCCTTCGGTCTACTCCACTGTAA-
1 AATCCGCTCCACTGTAATCTCAGGGAGATAAGAT-T-ACTA-GCTTCAATCTACTCCATTGTAAT
* * * * *
46140677 CTTCAGAGAGATAAGACCTGATGCGATCTACTGTGCTGTAACTTCAAAGAGATAAGATCCTTTAT
63 C-TCAGGGAGATAAGACCTGATACGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTAT
46140742 TTT
127 TTT
*
46140745 AATCCGCTCCACTGTAATCTCAGGGAGATAAGATTACTAGCTTCAATCTGCTCCATTGTAATCTC
1 AATCCGCTCCACTGTAATCTCAGGGAGATAAGATTACTAGCTTCAATCTACTCCATTGTAATCTC
46140810 AGGGAGATAAGACCTGATACGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTT
66 AGGGAGATAAGACCTGATACGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTT
* * *
46140874 AATCCGCTCCACTGTAATCTCAGGGAGATAGGATTACTAGGTTCAATCTACTCCGTTGTAATCTC
1 AATCCGCTCCACTGTAATCTCAGGGAGATAAGATTACTAGCTTCAATCTACTCCATTGTAATCTC
46140939 AGGGAGATAAGACCTGATACGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTT
66 AGGGAGATAAGACCTGATACGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTT
* *
46141003 AATCCGCTCCACTGTAATCTTAGGGAGATAGGATTACTAGCTTCAATCT
1 AATCCGCTCCACTGTAATCTCAGGGAGATAAGATTACTAGCTTCAATCT
46141052 GATGTGATCT
Statistics
Matches: 286, Mismatches: 19, Indels: 6
0.92 0.06 0.02
Matches are distributed among these distances:
129 251 0.88
130 3 0.01
131 32 0.11
ACGTcount: A:0.30, C:0.22, G:0.18, T:0.31
Consensus pattern (129 bp):
AATCCGCTCCACTGTAATCTCAGGGAGATAAGATTACTAGCTTCAATCTACTCCATTGTAATCTC
AGGGAGATAAGACCTGATACGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTT
Found at i:46141167 original size:43 final size:44
Alignment explanation
Indices: 46141101--46141572 Score: 221
Period size: 44 Copynumber: 10.8 Consensus size: 44
46141091 CCTTTATTTT
* * * * *
46141101 AATCCGCTCCACTGTAATCTCAGGGAGATATGAT-AGTGTCTTG
1 AATCTGCTCCACTGTAATCTCAGGGAGATAAGATCACTGGCTTC
* * *
46141144 GATCTGCTCCGCTGTAATCTCAGGGAGATAAGATCTCTGGCTTC
1 AATCTGCTCCACTGTAATCTCAGGGAGATAAGATCACTGGCTTC
* * **
46141188 AATCTGCTCCACTGTAACCTCAGGGAGATAAGATCTGAAAT-TATTC
1 AATCTGCTCCACTGTAATCTCAGGGAGATAAGATC---ACTGGCTTC
** * * * *
46141234 GGTCTACTCCACTGTAACCTCAGGGAGATAAGA-C-CT-GATGC
1 AATCTGCTCCACTGTAATCTCAGGGAGATAAGATCACTGGCTTC
* * ** ** *** *
46141275 GATCTACTCTGCTGTAA-CTTCAGAAAGATAAGATC-CTTTATTTT
1 AATCTGCTCCACTGTAATC-TCAGGGAGATAAGATCAC-TGGCTTC
* * ** *
46141319 AATCCGCTCCACTGTAATCTCAGGGAGATAGGATTGCTAGCTTC
1 AATCTGCTCCACTGTAATCTCAGGGAGATAAGATCACTGGCTTC
* * * * * *
46141363 AATATGCTCCGCTGTAATATCAGTGAGATAAGATCTGAAAT-TCTTC
1 AATCTGCTCCACTGTAATCTCAGGGAGATAAGATC---ACTGGCTTC
** * * * * *
46141409 GGTCTACTCTACTGTAACCTCAGGGAGATAAGA-C-CT-GATGC
1 AATCTGCTCCACTGTAATCTCAGGGAGATAAGATCACTGGCTTC
* * * * * *** *
46141450 GATCTACTCTACTGTAACCTCAGAGAGATAAGATC-CTAAATTTT
1 AATCTGCTCCACTGTAATCTCAGGGAGATAAGATCACT-GGCTTC
** * * * *
46141494 AATCCACTCCACTGTAATCTCAAGGAGATAGGATTACTAGCTTC
1 AATCTGCTCCACTGTAATCTCAGGGAGATAAGATCACTGGCTTC
*
46141538 AATCTGCTCCGCTGTAATCTCAGGGAGATAAGATC
1 AATCTGCTCCACTGTAATCTCAGGGAGATAAGATC
46141573 TAAAATTCTT
Statistics
Matches: 323, Mismatches: 89, Indels: 33
0.73 0.20 0.07
Matches are distributed among these distances:
40 1 0.00
41 64 0.20
42 5 0.02
43 31 0.10
44 153 0.47
45 6 0.02
46 61 0.19
47 2 0.01
ACGTcount: A:0.29, C:0.22, G:0.20, T:0.29
Consensus pattern (44 bp):
AATCTGCTCCACTGTAATCTCAGGGAGATAAGATCACTGGCTTC
Found at i:46141328 original size:574 final size:564
Alignment explanation
Indices: 46140178--46141441 Score: 1677
Period size: 574 Copynumber: 2.2 Consensus size: 564
46140168 CTCTGGCTTC
* * ** * *
46140178 AATCTGCTCCACTGTAACCTCAGGGAGATAAGA-TCTGAAGTTCTTCGGTCTACTCCACTGTAAC
1 AATCCGCTCCACTGTAATCTCAGGGAGATAAGATTCT--AG--CTTCAATCTGCTCCACTGTAAT
* * *
46140242 CTCAGGTAGATAAGACCTGATGCGATCTACTCTACTGTAACTTCAGAGAGATGAGATCCTTTATT
62 CTCAGGGAGATAAGACCTGATACGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATT
** * ** *
46140307 TTAATCCGCTCCACTGTAACTTTTGGGAGATAGGATAGTGTCTTGGATCTGCTCCGCTATAATCT
127 TTAATCCGCTCCACTGTAACTTCAGGGAGATAGGATACTGTCTTCAATCTACTCCGCTATAATCT
* * * *
46140372 CAGGAAGATAAGATCTCTGGCTTCAATCTGCTCCACTGTAACCTCAGGGAGATAAGATCTGAAGT
192 CAGGAAGATAAGATCTCTGGATACAATCTACTCCACTGTAACCTCAGAGAGATAAGATCTGAAGT
** *
46140437 TCTTCGGTCTACTCCACTGTAACCTCAGGGAAATAAGATCTGATGCGATCTACTCTACTGTAACT
257 TCTTCAATCCACTCCACTGTAACCTCAGGGAAATAAGATCTGATGCGATCTACTCTACTGTAACT
* *
46140502 TCAGAGAGATGAGATCCTTTATTTTAATCCGCTCCACTGTAACTTCAGGGAGATAGGATAGTGTC
322 TCAGAAAGATAAGATCCTTTATTTTAATCCGCTCCACTGTAACTTCAGGGAGATAGGATAGTGTC
* *
46140567 TTGGATCTGCTCCTCTGTAATCTTAGGGAGATAAGATCTCTGGCTTCAATCTGCTCCACTGTAAC
387 TTGGATCTGCTCCGCTGTAATCTCAGGGAGATAAGATCTCTGGCTTCAATCTGCTCCACTGTAAC
* *
46140632 CTCAGGGAGATAAGATCTGAAATCCTTCGGTCTACTCCACTGTAACTTCAGAGAGATAAGACCTG
452 CTCAGGGAGATAAGATCTGAAATCATTCGGTCTACTCCACTGTAACCTCAGAGAGATAAGACCTG
*
46140697 ATGCGATCTACTGTGCTGTAACTTCAAAGAGATAAGATCCTTTATTTT
517 ATGCGATCTACTCTGCTGTAACTTCAAAGAGATAAGATCCTTTATTTT
*
46140745 AATCCGCTCCACTGTAATCTCAGGGAGATAAGATTACTAGCTTCAATCTGCTCCATTGTAATCTC
1 AATCCGCTCCACTGTAATCTCAGGGAGATAAGATT-CTAGCTTCAATCTGCTCCACTGTAATCTC
46140810 AGGGAGATAAGACCTGATACGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTA
65 AGGGAGATAAGACCTGATACGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTA
* * *
46140875 ATCCGCTCCACTGTAA-TCTCAGGGAGATAGGATTACTAG-GTTCAATCTACTCCGTTGTAATCT
130 ATCCGCTCCACTGTAACT-TCAGGGAGATAGGA-TACT-GTCTTCAATCTACTCCGCTATAATCT
* * * * **
46140938 CAGGGAGATAAGA-C-CT-GATACGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTA-
192 CAGGAAGATAAGATCTCTGGATACAATCTACTCCACTGTAACCTCAGAGAGATAAGAT-CTGAAG
* * * *
46140999 TT-TT-AATCCGCTCCACTGTAATCTTAGGGAGATAGGATTACTAGCTTCAATCTGATGTGATCT
256 TTCTTCAATCCACTCCACTGTAACCTCA-GG-GA-A--A-TA--AG-----ATCTGATGCGATCT
46141062 ACTCTACTGTAACTTCAGAAAGATAAGATCCTTTATTTTAATCCGCTCCACTGTAA-TCTCAGGG
308 ACTCTACTGTAACTTCAGAAAGATAAGATCCTTTATTTTAATCCGCTCCACTGTAACT-TCAGGG
*
46141126 AGATATGATAGTGTCTTGGATCTGCTCCGCTGTAATCTCAGGGAGATAAGATCTCTGGCTTCAAT
372 AGATAGGATAGTGTCTTGGATCTGCTCCGCTGTAATCTCAGGGAGATAAGATCTCTGGCTTCAAT
*
46141191 CTGCTCCACTGTAACCTCAGGGAGATAAGATCTGAAATTATTCGGTCTACTCCACTGTAACCTCA
437 CTGCTCCACTGTAACCTCAGGGAGATAAGATCTGAAATCATTCGGTCTACTCCACTGTAACCTCA
*
46141256 GGGAGATAAGACCTGATGCGATCTACTCTGCTGTAACTTCAGAA-AGATAAGATCCTTTATTTT
502 GAGAGATAAGACCTGATGCGATCTACTCTGCTGTAACTTCA-AAGAGATAAGATCCTTTATTTT
* * * *
46141319 AATCCGCTCCACTGTAATCTCAGGGAGATAGGATTGCTAGCTTCAATATGCTCCGCTGTAATATC
1 AATCCGCTCCACTGTAATCTCAGGGAGATAAGATT-CTAGCTTCAATCTGCTCCACTGTAATCTC
* * * * * *
46141384 AGTGAGATAAGATCTGAAATTCTTCGGTCTACTCTACTGTAACCTCAGGGAGATAAGA
65 AGGGAGATAAGACCTG--A---TACGATCTACTCTACTGTAACTTCAGAGAGATAAGA
46141442 CCTGATGCGA
Statistics
Matches: 613, Mismatches: 58, Indels: 40
0.86 0.08 0.06
Matches are distributed among these distances:
561 16 0.03
562 4 0.01
563 36 0.06
564 7 0.01
565 111 0.18
566 34 0.06
567 36 0.06
568 1 0.00
569 4 0.01
573 1 0.00
574 328 0.54
575 2 0.00
576 1 0.00
579 32 0.05
ACGTcount: A:0.28, C:0.22, G:0.20, T:0.31
Consensus pattern (564 bp):
AATCCGCTCCACTGTAATCTCAGGGAGATAAGATTCTAGCTTCAATCTGCTCCACTGTAATCTCA
GGGAGATAAGACCTGATACGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAA
TCCGCTCCACTGTAACTTCAGGGAGATAGGATACTGTCTTCAATCTACTCCGCTATAATCTCAGG
AAGATAAGATCTCTGGATACAATCTACTCCACTGTAACCTCAGAGAGATAAGATCTGAAGTTCTT
CAATCCACTCCACTGTAACCTCAGGGAAATAAGATCTGATGCGATCTACTCTACTGTAACTTCAG
AAAGATAAGATCCTTTATTTTAATCCGCTCCACTGTAACTTCAGGGAGATAGGATAGTGTCTTGG
ATCTGCTCCGCTGTAATCTCAGGGAGATAAGATCTCTGGCTTCAATCTGCTCCACTGTAACCTCA
GGGAGATAAGATCTGAAATCATTCGGTCTACTCCACTGTAACCTCAGAGAGATAAGACCTGATGC
GATCTACTCTGCTGTAACTTCAAAGAGATAAGATCCTTTATTTT
Found at i:46141364 original size:175 final size:174
Alignment explanation
Indices: 46141149--46141589 Score: 693
Period size: 175 Copynumber: 2.5 Consensus size: 174
46141139 TCTTGGATCT
* * * * *
46141149 GCTCCGCTGTAATCTCAGGGAGATAAGATCTCTGGCTTCAATCTGCTCCACTGTAACCTCAGGGA
1 GCTCCACTGTAATCTCAGGGAGATAGGAT-TCTAGCTTCAATCTGCTCCGCTGTAATCTCAGGGA
*
46141214 GATAAGATCTGAAATTATTCGGTCTACTCCACTGTAACCTCAGGGAGATAAGACCTGATGCGATC
65 GATAAGATCTGAAATTCTTCGGTCTACTCCACTGTAACCTCAGGGAGATAAGACCTGATGCGATC
* * **
46141279 TACTCTGCTGTAACTTCAGAAAGATAAGATCCTTTATTTTAATCC
130 TACTCTACTGTAACCTCAGAAAGATAAGATCCTAAATTTTAATCC
* * *
46141324 GCTCCACTGTAATCTCAGGGAGATAGGATTGCTAGCTTCAATATGCTCCGCTGTAATATCAGTGA
1 GCTCCACTGTAATCTCAGGGAGATAGGATT-CTAGCTTCAATCTGCTCCGCTGTAATCTCAGGGA
*
46141389 GATAAGATCTGAAATTCTTCGGTCTACTCTACTGTAACCTCAGGGAGATAAGACCTGATGCGATC
65 GATAAGATCTGAAATTCTTCGGTCTACTCCACTGTAACCTCAGGGAGATAAGACCTGATGCGATC
*
46141454 TACTCTACTGTAACCTCAGAGAGATAAGATCCTAAATTTTAATCC
130 TACTCTACTGTAACCTCAGAAAGATAAGATCCTAAATTTTAATCC
* *
46141499 ACTCCACTGTAATCTCAAGGAGATAGGATTACTAGCTTCAATCTGCTCCGCTGTAATCTCAGGGA
1 GCTCCACTGTAATCTCAGGGAGATAGGATT-CTAGCTTCAATCTGCTCCGCTGTAATCTCAGGGA
*
46141564 GATAAGATCTAAAATTCTTCGGTCTA
65 GATAAGATCTGAAATTCTTCGGTCTA
46141590 TTCCCTGGGG
Statistics
Matches: 243, Mismatches: 22, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
174 1 0.00
175 242 1.00
ACGTcount: A:0.29, C:0.22, G:0.19, T:0.29
Consensus pattern (174 bp):
GCTCCACTGTAATCTCAGGGAGATAGGATTCTAGCTTCAATCTGCTCCGCTGTAATCTCAGGGAG
ATAAGATCTGAAATTCTTCGGTCTACTCCACTGTAACCTCAGGGAGATAAGACCTGATGCGATCT
ACTCTACTGTAACCTCAGAAAGATAAGATCCTAAATTTTAATCC
Found at i:46141522 original size:131 final size:130
Alignment explanation
Indices: 46141058--46141572 Score: 316
Period size: 131 Copynumber: 3.9 Consensus size: 130
46141048 ATCTGATGTG
* * * ** *
46141058 ATCTACTCTACTGTAACTTCAGAAAGATAAGATCCTTTATTTTAATCCGCTCCACTGTAATCTCA
1 ATCTACTCCACTGTAACCTCAGAGAGATAAGATCCTAAATTTTAATCCACTCCACTGTAATCTCA
* * * * * * *
46141123 GGGAGATATGA-T-AGTGTCTT-GGATCTGCTCCGCTGTAATCTCAGGGAGATAAGATCTCTGGC
66 AGGAGATAAGACTGAAT-TCTTCGG-TCTACTCTGCTGTAACCTCAGGGAGATAAGATC-CT-GA
*
46141185 TTCA
127 TGCA
* * ** * *
46141189 ATCTGCTCCACTGTAACCTCAGGGAGATAAGAT-CTGAAATTATTCGGTCTACTCCACTGTAACC
1 ATCTACTCCACTGTAACCTCAGAGAGATAAGATCCT-AAATT-TT-AATCCACTCCACTGTAATC
* * * * ** *
46141253 TCAGGGAGATAAGACCTG-A---TGCGATCTACTCTGCTGTAACTTCAGAAAGATAAGATCCTTT
63 TCAAGGAGATAAGA-CTGAATTCTTCGGTCTACTCTGCTGTAACCTCAGGGAGATAAGATCC-TG
**
46141314 ATTTTA
126 A-TGCA
** * * * * ** * *** * *
46141320 ATCCGCTCCACTGTAATCTCAGGGAGATAGGATTGCT-AGCTTCAATATGCTCCGCTGTAATATC
1 ATCTACTCCACTGTAACCTCAGAGAGATAAGA-TCCTAAATTTTAATCCACTCCACTGTAATCTC
*
46141384 -AGTGAGATAAGATCTGAAATTCTTCGGTCTACTCTACTGTAACCTCAGGGAGATAAGA-CCTGA
65 AAG-GAGATAAGA-CTG-AATTCTTCGGTCTACTCTGCTGTAACCTCAGGGAGATAAGATCCTGA
*
46141447 TGCG
127 TGCA
*
46141451 ATCTACTCTACTGTAACCTCAGAGAGATAAGATCCTAAATTTTAATCCACTCCACTGTAATCTCA
1 ATCTACTCCACTGTAACCTCAGAGAGATAAGATCCTAAATTTTAATCCACTCCACTGTAATCTCA
* * * * ** * * *
46141516 AGGAGATAGGA-TTACTAGCTTCAATCTGCTCCGCTGTAATCTCAGGGAGATAAGATC
66 AGGAGATAAGACTGAAT-TCTTCGGTCTACTCTGCTGTAACCTCAGGGAGATAAGATC
46141573 TAAAATTCTT
Statistics
Matches: 288, Mismatches: 75, Indels: 43
0.71 0.18 0.11
Matches are distributed among these distances:
128 3 0.01
129 58 0.20
130 8 0.03
131 149 0.52
132 8 0.03
133 31 0.11
134 30 0.10
135 1 0.00
ACGTcount: A:0.29, C:0.22, G:0.19, T:0.30
Consensus pattern (130 bp):
ATCTACTCCACTGTAACCTCAGAGAGATAAGATCCTAAATTTTAATCCACTCCACTGTAATCTCA
AGGAGATAAGACTGAATTCTTCGGTCTACTCTGCTGTAACCTCAGGGAGATAAGATCCTGATGCA
Found at i:46142820 original size:7 final size:7
Alignment explanation
Indices: 46142808--46142854 Score: 71
Period size: 7 Copynumber: 7.0 Consensus size: 7
46142798 TTAGCCTCTC
46142808 CATTTTT
1 CATTTTT
46142815 CA-TTTT
1 CATTTTT
46142821 CATTTTT
1 CATTTTT
46142828 CATTTTT
1 CATTTTT
*
46142835 CA-TTCT
1 CATTTTT
46142841 CATTTTT
1 CATTTTT
46142848 CATTTTT
1 CATTTTT
46142855 TTTACTCAGA
Statistics
Matches: 36, Mismatches: 2, Indels: 4
0.86 0.05 0.10
Matches are distributed among these distances:
6 11 0.31
7 25 0.69
ACGTcount: A:0.15, C:0.17, G:0.00, T:0.68
Consensus pattern (7 bp):
CATTTTT
Found at i:46142826 original size:13 final size:13
Alignment explanation
Indices: 46142811--46142853 Score: 61
Period size: 13 Copynumber: 3.3 Consensus size: 13
46142801 GCCTCTCCAT
46142811 TTTTCA-TTTTCA
1 TTTTCATTTTTCA
46142823 TTTTTCATTTTTCA
1 -TTTTCATTTTTCA
*
46142837 TTCTCATTTTTCA
1 TTTTCATTTTTCA
46142850 TTTT
1 TTTT
46142854 TTTTACTCAG
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
13 21 0.78
14 6 0.22
ACGTcount: A:0.14, C:0.16, G:0.00, T:0.70
Consensus pattern (13 bp):
TTTTCATTTTTCA
Found at i:46142862 original size:20 final size:20
Alignment explanation
Indices: 46142808--46142854 Score: 85
Period size: 20 Copynumber: 2.4 Consensus size: 20
46142798 TTAGCCTCTC
*
46142808 CATTTTTCATTTTCATTTTT
1 CATTTTTCATTCTCATTTTT
46142828 CATTTTTCATTCTCATTTTT
1 CATTTTTCATTCTCATTTTT
46142848 CATTTTT
1 CATTTTT
46142855 TTTACTCAGA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.15, C:0.17, G:0.00, T:0.68
Consensus pattern (20 bp):
CATTTTTCATTCTCATTTTT
Found at i:46143731 original size:17 final size:16
Alignment explanation
Indices: 46143718--46143780 Score: 63
Period size: 16 Copynumber: 3.8 Consensus size: 16
46143708 TCCTTTTTTC
46143718 TTTTTCTTCTTTTTTGA
1 TTTTTCTT-TTTTTTGA
* *
46143735 TTTTTCTTTTTTCTGC
1 TTTTTCTTTTTTTTGA
**
46143751 TTTTGATTTTGATTTTGA
1 TTTTTCTTTT--TTTTGA
46143769 TTTTTCTTTTTT
1 TTTTTCTTTTTT
46143781 CTTTTCCTTC
Statistics
Matches: 36, Mismatches: 8, Indels: 5
0.73 0.16 0.10
Matches are distributed among these distances:
16 16 0.44
17 8 0.22
18 12 0.33
ACGTcount: A:0.06, C:0.10, G:0.08, T:0.76
Consensus pattern (16 bp):
TTTTTCTTTTTTTTGA
Found at i:46143755 original size:22 final size:23
Alignment explanation
Indices: 46143712--46143760 Score: 66
Period size: 22 Copynumber: 2.2 Consensus size: 23
46143702 GACCTCTCCT
*
46143712 TTTTTCTTTTTCTTCTTTTTTGA
1 TTTTTCTTTTTCTTCTCTTTTGA
46143735 TTTTTC-TTTT-TTCTGCTTTTGA
1 TTTTTCTTTTTCTTCT-CTTTTGA
46143757 TTTT
1 TTTT
46143761 GATTTTGATT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
21 4 0.17
22 14 0.58
23 6 0.25
ACGTcount: A:0.04, C:0.12, G:0.06, T:0.78
Consensus pattern (23 bp):
TTTTTCTTTTTCTTCTCTTTTGA
Found at i:46148304 original size:3 final size:3
Alignment explanation
Indices: 46148298--46148342 Score: 56
Period size: 3 Copynumber: 14.7 Consensus size: 3
46148288 GATAAGTAGC
*
46148298 AAT AAT -AT AAGT AAT AAT AAT AAT AAT AGT AAT AAT AAAT AAT AA
1 AAT AAT AAT AA-T AAT AAT AAT AAT AAT AAT AAT AAT -AAT AAT AA
46148343 AAGATGATAA
Statistics
Matches: 37, Mismatches: 2, Indels: 6
0.82 0.04 0.13
Matches are distributed among these distances:
2 2 0.05
3 29 0.78
4 6 0.16
ACGTcount: A:0.64, C:0.00, G:0.04, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:46148335 original size:15 final size:16
Alignment explanation
Indices: 46148279--46148335 Score: 64
Period size: 15 Copynumber: 3.6 Consensus size: 16
46148269 AGCTATTATA
46148279 TAATAATATGATAAGTAG
1 TAATAATA--ATAAGTAG
* *
46148297 CAATAAT-ATAAGTAA
1 TAATAATAATAAGTAG
46148312 TAATAATAATAA-TAG
1 TAATAATAATAAGTAG
46148327 TAATAATAA
1 TAATAATAA
46148336 ATAATAAAAG
Statistics
Matches: 34, Mismatches: 4, Indels: 5
0.79 0.09 0.12
Matches are distributed among these distances:
15 24 0.71
16 4 0.12
18 6 0.18
ACGTcount: A:0.58, C:0.02, G:0.09, T:0.32
Consensus pattern (16 bp):
TAATAATAATAAGTAG
Found at i:46149278 original size:23 final size:26
Alignment explanation
Indices: 46149234--46149283 Score: 70
Period size: 23 Copynumber: 2.0 Consensus size: 26
46149224 TTTTTTGTAA
46149234 AAAAAAAAGAAGCCCCAATTACAGTG
1 AAAAAAAAGAAGCCCCAATTACAGTG
*
46149260 AAAAAAAA-AA-CCCC-GTTACAGTG
1 AAAAAAAAGAAGCCCCAATTACAGTG
46149283 A
1 A
46149284 TGAAGCCCCC
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
23 9 0.39
24 4 0.17
25 2 0.09
26 8 0.35
ACGTcount: A:0.54, C:0.20, G:0.14, T:0.12
Consensus pattern (26 bp):
AAAAAAAAGAAGCCCCAATTACAGTG
Found at i:46151746 original size:42 final size:42
Alignment explanation
Indices: 46151694--46151848 Score: 136
Period size: 42 Copynumber: 3.7 Consensus size: 42
46151684 CTGAAGGCTT
* * *
46151694 AACAAAAGCTCATGAGAGCTAAACAGAAACCCATAAAGGTTG
1 AACAGAAGCTCATAAGAGCTAAACAGAAACACATAAAGGTTG
* * * *
46151736 AACAGAAGCTCGTAAGAGCTGAAC-GACAACACATAAGGGTTA
1 AACAGAAGCTCATAAGAGCTAAACAGA-AACACATAAAGGTTG
* * * * * *
46151778 AACAGGAGCTCAAAAGAGCTGAACATAAACTCAT-ATGAGTTG
1 AACAGAAGCTCATAAGAGCTAAACAGAAACACATAAAG-GTTG
*
46151820 AACAGAAGCTTATGAA-AGCTAAACAGAAA
1 AACAGAAGCTCAT-AAGAGCTAAACAGAAA
46151849 GTAAATACGA
Statistics
Matches: 90, Mismatches: 19, Indels: 8
0.77 0.16 0.07
Matches are distributed among these distances:
41 4 0.04
42 83 0.92
43 3 0.03
ACGTcount: A:0.46, C:0.17, G:0.21, T:0.15
Consensus pattern (42 bp):
AACAGAAGCTCATAAGAGCTAAACAGAAACACATAAAGGTTG
Found at i:46152064 original size:12 final size:12
Alignment explanation
Indices: 46152047--46152087 Score: 50
Period size: 12 Copynumber: 3.6 Consensus size: 12
46152037 TATCAATTCA
46152047 ATATATTTATAT
1 ATATATTTATAT
46152059 ATATA--TATAT
1 ATATATTTATAT
* *
46152069 ATATCTTTGTAT
1 ATATATTTATAT
46152081 ATATATT
1 ATATATT
46152088 AAATTTTAAC
Statistics
Matches: 24, Mismatches: 3, Indels: 4
0.77 0.10 0.13
Matches are distributed among these distances:
10 9 0.38
12 15 0.62
ACGTcount: A:0.39, C:0.02, G:0.02, T:0.56
Consensus pattern (12 bp):
ATATATTTATAT
Found at i:46153364 original size:21 final size:21
Alignment explanation
Indices: 46153334--46153425 Score: 121
Period size: 21 Copynumber: 4.4 Consensus size: 21
46153324 CGTGTTTTAC
*
46153334 TTTCTGTTCAACTCTTATGAG
1 TTTCTGTTCAACTCTTATAAG
* * *
46153355 TTTATGTTCAGCTCTTACAAG
1 TTTCTGTTCAACTCTTATAAG
* * *
46153376 CTTCTGTTTAACTCTTATGAG
1 TTTCTGTTCAACTCTTATAAG
46153397 TTTCTGTTCAACTCTTATAAG
1 TTTCTGTTCAACTCTTATAAG
46153418 TTTCTGTT
1 TTTCTGTT
46153426 TAGCTCCTAC
Statistics
Matches: 58, Mismatches: 13, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
21 58 1.00
ACGTcount: A:0.20, C:0.18, G:0.13, T:0.49
Consensus pattern (21 bp):
TTTCTGTTCAACTCTTATAAG
Found at i:46153394 original size:42 final size:42
Alignment explanation
Indices: 46153335--46153427 Score: 141
Period size: 42 Copynumber: 2.2 Consensus size: 42
46153325 GTGTTTTACT
* *
46153335 TTCTGTTCAACTCTTATGAGTTTATGTTCAGCTCTTACAAGC
1 TTCTGTTTAACTCTTATGAGTTTATGTTCAACTCTTACAAGC
* * *
46153377 TTCTGTTTAACTCTTATGAGTTTCTGTTCAACTCTTATAAGT
1 TTCTGTTTAACTCTTATGAGTTTATGTTCAACTCTTACAAGC
46153419 TTCTGTTTA
1 TTCTGTTTA
46153428 GCTCCTACGA
Statistics
Matches: 46, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
42 46 1.00
ACGTcount: A:0.20, C:0.18, G:0.13, T:0.48
Consensus pattern (42 bp):
TTCTGTTTAACTCTTATGAGTTTATGTTCAACTCTTACAAGC
Found at i:46153443 original size:21 final size:21
Alignment explanation
Indices: 46153335--46153448 Score: 84
Period size: 21 Copynumber: 5.4 Consensus size: 21
46153325 GTGTTTTACT
** *
46153335 TTCTGTTCAACTCTTATGAGT
1 TTCTGTTCAACTCTTACAAGC
* *
46153356 TTATGTTCAGCTCTTACAAGC
1 TTCTGTTCAACTCTTACAAGC
* ** *
46153377 TTCTGTTTAACTCTTATGAGT
1 TTCTGTTCAACTCTTACAAGC
* *
46153398 TTCTGTTCAACTCTTATAAGT
1 TTCTGTTCAACTCTTACAAGC
* * * *
46153419 TTCTGTTTAGCTCCTACGAGC
1 TTCTGTTCAACTCTTACAAGC
*
46153440 TTCTATTCA
1 TTCTGTTCA
46153449 GTTTTTGAGC
Statistics
Matches: 72, Mismatches: 21, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
21 72 1.00
ACGTcount: A:0.20, C:0.21, G:0.13, T:0.46
Consensus pattern (21 bp):
TTCTGTTCAACTCTTACAAGC
Found at i:46157021 original size:23 final size:23
Alignment explanation
Indices: 46156972--46157028 Score: 69
Period size: 23 Copynumber: 2.5 Consensus size: 23
46156962 TTTTTTGTGC
* *
46156972 TTTTTTATATTGTTTTGCTACTG
1 TTTTTAATATTGTTTTGCTACTA
* **
46156995 TTTTTAATGTTGTTTTGCTGTTA
1 TTTTTAATATTGTTTTGCTACTA
46157018 TTTTTAATATT
1 TTTTTAATATT
46157029 ATTTAAATAT
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
23 28 1.00
ACGTcount: A:0.16, C:0.05, G:0.12, T:0.67
Consensus pattern (23 bp):
TTTTTAATATTGTTTTGCTACTA
Found at i:46157633 original size:24 final size:23
Alignment explanation
Indices: 46157597--46157649 Score: 79
Period size: 24 Copynumber: 2.3 Consensus size: 23
46157587 ATGTTCATAT
46157597 ATTTCCACATGTTATTTCCTTCTA
1 ATTTCCACATGTTATTTCCTT-TA
*
46157621 ATTTCCACGTGTTATTTCCTTTA
1 ATTTCCACATGTTATTTCCTTTA
*
46157644 CTTTCC
1 ATTTCC
46157650 GATTTCAATA
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
23 7 0.26
24 20 0.74
ACGTcount: A:0.17, C:0.26, G:0.06, T:0.51
Consensus pattern (23 bp):
ATTTCCACATGTTATTTCCTTTA
Found at i:46163673 original size:248 final size:248
Alignment explanation
Indices: 46163235--46163732 Score: 987
Period size: 248 Copynumber: 2.0 Consensus size: 248
46163225 CCTCAGACCC
46163235 TTTCAGGTGAGGTGTATCTGAGCAGGCGCATGCCTAGTGCACTTAGGTCTGCTTTTTTGTCAATA
1 TTTCAGGTGAGGTGTATCTGAGCAGGCGCATGCCTAGTGCACTTAGGTCTGCTTTTTTGTCAATA
46163300 TCCGAGTATTTGACTATAGTCATGGACCATAAAGAAATCATGCATGCCAAGCCTAGCACTTTTTT
66 TCCGAGTATTTGACTATAGTCATGGACCATAAAGAAATCATGCATGCCAAGCCTAGCACTTTTTT
46163365 TTGCGCTTTACACTCGAGGCAATATAAAGGTTTTGGTGCCAAAATGTACCTTGTGCCCTTGACAA
131 TTGCGCTTTACACTCGAGGCAATATAAAGGTTTTGGTGCCAAAATGTACCTTGTGCCCTTGACAA
46163430 CATTGCATCTTCTCCTTTATTTCTCGAACCATAATCAGTAGAACAGTCATTTA
196 CATTGCATCTTCTCCTTTATTTCTCGAACCATAATCAGTAGAACAGTCATTTA
46163483 TTTCAGGTGAGGTGTATCTGAGCAGGCGCATGCCTAGTGCACTTAGGTCTGCTTTTTTGTCAATA
1 TTTCAGGTGAGGTGTATCTGAGCAGGCGCATGCCTAGTGCACTTAGGTCTGCTTTTTTGTCAATA
*
46163548 TCCGAGTATTTGACTATAGTCATGGACCATAAAGAAATCATGCATGCCGAGCCTAGCACTTTTTT
66 TCCGAGTATTTGACTATAGTCATGGACCATAAAGAAATCATGCATGCCAAGCCTAGCACTTTTTT
46163613 TTGCGCTTTACACTCGAGGCAATATAAAGGTTTTGGTGCCAAAATGTACCTTGTGCCCTTGACAA
131 TTGCGCTTTACACTCGAGGCAATATAAAGGTTTTGGTGCCAAAATGTACCTTGTGCCCTTGACAA
46163678 CATTGCATCTTCTCCTTTATTTCTCGAACCATAATCAGTAGAACAGTCATTTA
196 CATTGCATCTTCTCCTTTATTTCTCGAACCATAATCAGTAGAACAGTCATTTA
46163731 TT
1 TT
46163733 CTTCTTGTTG
Statistics
Matches: 249, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
248 249 1.00
ACGTcount: A:0.26, C:0.21, G:0.19, T:0.34
Consensus pattern (248 bp):
TTTCAGGTGAGGTGTATCTGAGCAGGCGCATGCCTAGTGCACTTAGGTCTGCTTTTTTGTCAATA
TCCGAGTATTTGACTATAGTCATGGACCATAAAGAAATCATGCATGCCAAGCCTAGCACTTTTTT
TTGCGCTTTACACTCGAGGCAATATAAAGGTTTTGGTGCCAAAATGTACCTTGTGCCCTTGACAA
CATTGCATCTTCTCCTTTATTTCTCGAACCATAATCAGTAGAACAGTCATTTA
Found at i:46169020 original size:17 final size:17
Alignment explanation
Indices: 46168998--46169031 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
46168988 ATCCACTAAT
*
46168998 CCACTACCACCAACAAC
1 CCACTACCAACAACAAC
46169015 CCACTACCAACAACAAC
1 CCACTACCAACAACAAC
46169032 AATCCACTAC
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:0.50, G:0.00, T:0.06
Consensus pattern (17 bp):
CCACTACCAACAACAAC
Found at i:46173659 original size:17 final size:17
Alignment explanation
Indices: 46173637--46173670 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
46173627 ATCCACTAAT
*
46173637 CCACTACCACCAACAAC
1 CCACTACCAACAACAAC
46173654 CCACTACCAACAACAAC
1 CCACTACCAACAACAAC
46173671 AATCCACTAC
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:0.50, G:0.00, T:0.06
Consensus pattern (17 bp):
CCACTACCAACAACAAC
Found at i:46174350 original size:10 final size:10
Alignment explanation
Indices: 46174335--46174362 Score: 56
Period size: 10 Copynumber: 2.8 Consensus size: 10
46174325 ATTAATTTTA
46174335 ATATTATTAT
1 ATATTATTAT
46174345 ATATTATTAT
1 ATATTATTAT
46174355 ATATTATT
1 ATATTATT
46174363 TTTTCTAATT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 18 1.00
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (10 bp):
ATATTATTAT
Found at i:46175549 original size:13 final size:13
Alignment explanation
Indices: 46175531--46175556 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
46175521 TTAAAATAAA
46175531 TTTAATTAAATTT
1 TTTAATTAAATTT
46175544 TTTAATTAAATTT
1 TTTAATTAAATTT
46175557 CTCAACTCAA
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:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (13 bp):
TTTAATTAAATTT
Found at i:46178127 original size:30 final size:30
Alignment explanation
Indices: 46178091--46178149 Score: 109
Period size: 30 Copynumber: 2.0 Consensus size: 30
46178081 CTTATTTTAT
46178091 TGTTAATTTTGTTATTATTTTAAAGACATC
1 TGTTAATTTTGTTATTATTTTAAAGACATC
*
46178121 TGTTAATTTTGTTATTATTTTAGAGACAT
1 TGTTAATTTTGTTATTATTTTAAAGACAT
46178150 TTGCTTGTTA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.29, C:0.05, G:0.12, T:0.54
Consensus pattern (30 bp):
TGTTAATTTTGTTATTATTTTAAAGACATC
Found at i:46178308 original size:12 final size:12
Alignment explanation
Indices: 46178278--46178310 Score: 52
Period size: 11 Copynumber: 2.9 Consensus size: 12
46178268 TATATATTTT
46178278 AAAATT-ATATA
1 AAAATTAATATA
46178289 AAAA-TAATATA
1 AAAATTAATATA
46178300 AAAATTAATAT
1 AAAATTAATAT
46178311 GGGCGGGTTG
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
10 1 0.05
11 13 0.65
12 6 0.30
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (12 bp):
AAAATTAATATA
Found at i:46178569 original size:14 final size:15
Alignment explanation
Indices: 46178544--46178576 Score: 50
Period size: 14 Copynumber: 2.3 Consensus size: 15
46178534 AGATTCTTCA
*
46178544 AATTATTATTTAATT
1 AATTATTATTTAAAT
46178559 AATTA-TATTTAAAT
1 AATTATTATTTAAAT
46178573 AATT
1 AATT
46178577 TAAATACGAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 12 0.71
15 5 0.29
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (15 bp):
AATTATTATTTAAAT
Found at i:46181037 original size:28 final size:26
Alignment explanation
Indices: 46180977--46181037 Score: 68
Period size: 27 Copynumber: 2.2 Consensus size: 26
46180967 AGGTTGAACC
* *
46180977 TAAAGTTAATGAAAATTTGTTTATAAA
1 TAAA-TTAATGAAAATTTCTTAATAAA
*
46181004 TCAATTAATGAATAATTTCTTCAATAAA
1 TAAATTAATGAA-AATTTCTT-AATAAA
46181032 TAAATT
1 TAAATT
46181038 TTTATACAAT
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
26 8 0.29
27 10 0.36
28 10 0.36
ACGTcount: A:0.48, C:0.05, G:0.07, T:0.41
Consensus pattern (26 bp):
TAAATTAATGAAAATTTCTTAATAAA
Found at i:46186998 original size:34 final size:35
Alignment explanation
Indices: 46186954--46187020 Score: 109
Period size: 34 Copynumber: 1.9 Consensus size: 35
46186944 CAGTAAAATA
46186954 TTTTCCGTAAAATGATTT-CGGGAAAATATTTTAC
1 TTTTCCGTAAAATGATTTACGGGAAAATATTTTAC
* *
46186988 TTTTCTGTAAAATGATTTACTGGAAAATATTTT
1 TTTTCCGTAAAATGATTTACGGGAAAATATTTT
46187021 CTGGTGTTTG
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
34 17 0.57
35 13 0.43
ACGTcount: A:0.33, C:0.09, G:0.13, T:0.45
Consensus pattern (35 bp):
TTTTCCGTAAAATGATTTACGGGAAAATATTTTAC
Found at i:46188655 original size:3 final size:3
Alignment explanation
Indices: 46188649--46188693 Score: 54
Period size: 3 Copynumber: 15.0 Consensus size: 3
46188639 TCAGATTTTT
* * * *
46188649 TTA TTA TCA TTG TTA TTA TTA ATA TTA TTA TCA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
46188694 CTTTTTTTTT
Statistics
Matches: 34, Mismatches: 8, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
3 34 1.00
ACGTcount: A:0.33, C:0.04, G:0.02, T:0.60
Consensus pattern (3 bp):
TTA
Found at i:46201430 original size:132 final size:132
Alignment explanation
Indices: 46201187--46201823 Score: 938
Period size: 132 Copynumber: 4.8 Consensus size: 132
46201177 GTGTATTAAA
* *
46201187 GAAGACGGTGAATCTTATCTTCCCAAGGAAGTAAGGAAGCAGATTTAAGCCACCAGTCTTATCTC
1 GAAGACGGTGAATCTTATCTTCCCAAGGAAGTAGGGAAGCAGATTTAAGCCACCAGTCCTATCTC
* * * * * *
46201252 CCTGAGTAGCAGTGGAGTAGGTTGAATATTGTAGATCTTGTATCCCTAATCAGTAGTAGAGCAGA
66 CCTGAGCAGCAGTGGAGTAGGTTGAAGATTGTAGATCCTGTCTCCCTAAGCAGTAGTGGAGCAGA
46201317 TC
131 TC
* *
46201319 GAAGACGATGAATCTTATCTTCCCAAAGAAGTAGGGAAGCAGATTTAAGCCACCAGTCCTATCTC
1 GAAGACGGTGAATCTTATCTTCCCAAGGAAGTAGGGAAGCAGATTTAAGCCACCAGTCCTATCTC
* * * *
46201384 CCTGAGCAACAGTGGAGTAAGTTGAAGATTGTAGATCCTGTCTCCCTAAGTAGTAGTGAAGCAGA
66 CCTGAGCAGCAGTGGAGTAGGTTGAAGATTGTAGATCCTGTCTCCCTAAGCAGTAGTGGAGCAGA
46201449 TC
131 TC
* * * *
46201451 GAATACGGTGAATCTTATCTTTCCAAGGAAGTAGGGAAGCAAATTTAAGCCATCAGTCCTATC-C
1 GAAGACGGTGAATCTTATCTTCCCAAGGAAGTAGGGAAGCAGATTTAAGCCACCAGTCCTATCTC
* * * *
46201515 CCTTAAGCAACAGTGGAGTAGGTTGAATATTATAGATCCTGTCTCCCTAAGCAGTAGTGGAGCAG
66 CC-TGAGCAGCAGTGGAGTAGGTTGAAGATTGTAGATCCTGTCTCCCTAAGCAGTAGTGGAGCAG
46201580 ATC
130 ATC
* *
46201583 GAAGACGGTGGATCTTATCTTCCCAAGGAAGTAGGGAAGCAGATTTAAGCCATCAGTCCTATCTC
1 GAAGACGGTGAATCTTATCTTCCCAAGGAAGTAGGGAAGCAGATTTAAGCCACCAGTCCTATCTC
* *
46201648 CTTGAGCAGCAGTGGAGTAGGTTGAAGATTGTGGATCCTGTCTCCCTAAGCAGTAGTGGAGCAGA
66 CCTGAGCAGCAGTGGAGTAGGTTGAAGATTGTAGATCCTGTCTCCCTAAGCAGTAGTGGAGCAGA
46201713 TC
131 TC
* *
46201715 GAAGACGGCGAATCTTATCTTCCCAA-GATAGTAGGGAAGCAGATTTAAGCCACTAGTCCTATCT
1 GAAGACGGTGAATCTTATCTTCCCAAGGA-AGTAGGGAAGCAGATTTAAGCCACCAGTCCTATCT
* * * *
46201779 -CCTTAGGCAGTAGTGGAGTAGGTTGAAGATTGTAAATCATGTCTC
65 CCCTGA-GCAGCAGTGGAGTAGGTTGAAGATTGTAGATCCTGTCTC
46201824 TTTGAGCAGC
Statistics
Matches: 455, Mismatches: 46, Indels: 8
0.89 0.09 0.02
Matches are distributed among these distances:
131 8 0.02
132 445 0.98
133 2 0.00
ACGTcount: A:0.30, C:0.19, G:0.25, T:0.26
Consensus pattern (132 bp):
GAAGACGGTGAATCTTATCTTCCCAAGGAAGTAGGGAAGCAGATTTAAGCCACCAGTCCTATCTC
CCTGAGCAGCAGTGGAGTAGGTTGAAGATTGTAGATCCTGTCTCCCTAAGCAGTAGTGGAGCAGA
TC
Found at i:46201707 original size:44 final size:44
Alignment explanation
Indices: 46201507--46201719 Score: 123
Period size: 44 Copynumber: 4.8 Consensus size: 44
46201497 AAGCCATCAG
** * * * *
46201507 TCCTATC-CCCTTAAGCAACAGTGGAGTAGGTTGAATATTATAGA
1 TCCTATCTCCC-TAAGCAGTAGTGGAGCAGATTGAAGATTGTAGA
* * ** *
46201551 TCCTGTCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGTGGA
1 TCCTATCTCCCTAAGCAGTAGTGGAGCAGATTGAAGATTGTAGA
* * * *
46201595 TCTTATCTTCCC-AAGGAAGTAG-GGAAGCAGATTTAAGCCA-T-CAG-
1 TCCTATC-TCCCTAA-GCAGTAGTGG-AGCAGATTGAAG--ATTGTAGA
* * * * * *
46201639 TCCTATCTCCTTGAGCAGCAGTGGAGTAGGTTGAAGATTGTGGA
1 TCCTATCTCCCTAAGCAGTAGTGGAGCAGATTGAAGATTGTAGA
* *
46201683 TCCTGTCTCCCTAAGCAGTAGTGGAGCAGATCGAAGA
1 TCCTATCTCCCTAAGCAGTAGTGGAGCAGATTGAAGA
46201720 CGGCGAATCT
Statistics
Matches: 122, Mismatches: 36, Indels: 22
0.68 0.20 0.12
Matches are distributed among these distances:
41 1 0.01
42 1 0.01
43 18 0.15
44 77 0.63
45 24 0.20
47 1 0.01
ACGTcount: A:0.28, C:0.20, G:0.27, T:0.25
Consensus pattern (44 bp):
TCCTATCTCCCTAAGCAGTAGTGGAGCAGATTGAAGATTGTAGA
Found at i:46203496 original size:3 final size:3
Alignment explanation
Indices: 46203490--46203549 Score: 102
Period size: 3 Copynumber: 20.0 Consensus size: 3
46203480 TCAGATTTTT
* *
46203490 TTA TTA TCA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TCA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
46203538 TTA TTA TTA TTA
1 TTA TTA TTA TTA
46203550 GTTTTTTTTT
Statistics
Matches: 53, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 53 1.00
ACGTcount: A:0.33, C:0.03, G:0.00, T:0.63
Consensus pattern (3 bp):
TTA
Found at i:46206112 original size:3 final size:3
Alignment explanation
Indices: 46206096--46206138 Score: 59
Period size: 3 Copynumber: 13.7 Consensus size: 3
46206086 AATTTAAAAA
*
46206096 AAT ATAT AAA AAT AAT AAT AAT AAAT AAT AAT AAT AAT AAT AA
1 AAT A-AT AAT AAT AAT AAT AAT -AAT AAT AAT AAT AAT AAT AA
46206139 AGGAAAATTA
Statistics
Matches: 36, Mismatches: 2, Indels: 4
0.86 0.05 0.10
Matches are distributed among these distances:
3 30 0.83
4 6 0.17
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (3 bp):
AAT
Found at i:46206112 original size:13 final size:12
Alignment explanation
Indices: 46206090--46206138 Score: 64
Period size: 12 Copynumber: 4.0 Consensus size: 12
46206080 TTTATTAATT
46206090 TAAAAA-AATATA
1 TAAAAATAATA-A
46206102 TAAAAATAATAA
1 TAAAAATAATAA
46206114 TAATAAATAATAA
1 TAA-AAATAATAA
*
46206127 TAATAATAATAA
1 TAAAAATAATAA
46206139 AGGAAAATTA
Statistics
Matches: 34, Mismatches: 1, Indels: 4
0.87 0.03 0.10
Matches are distributed among these distances:
12 18 0.53
13 16 0.47
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (12 bp):
TAAAAATAATAA
Found at i:46206123 original size:19 final size:19
Alignment explanation
Indices: 46206096--46206139 Score: 70
Period size: 19 Copynumber: 2.3 Consensus size: 19
46206086 AATTTAAAAA
*
46206096 AATATATAAAAATAATAAT
1 AATAAATAAAAATAATAAT
*
46206115 AATAAATAATAATAATAAT
1 AATAAATAAAAATAATAAT
46206134 AATAAA
1 AATAAA
46206140 GGAAAATTAG
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
19 23 1.00
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (19 bp):
AATAAATAAAAATAATAAT
Found at i:46206125 original size:16 final size:15
Alignment explanation
Indices: 46206096--46206135 Score: 62
Period size: 16 Copynumber: 2.5 Consensus size: 15
46206086 AATTTAAAAA
46206096 AATATATAAAAATAAT
1 AATA-ATAAAAATAAT
46206112 AATAATAAATAATAAT
1 AATAATAAA-AATAAT
46206128 AATAATAA
1 AATAATAA
46206136 TAAAGGAAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
15 5 0.22
16 18 0.78
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (15 bp):
AATAATAAAAATAAT
Found at i:46206224 original size:29 final size:28
Alignment explanation
Indices: 46206173--46206232 Score: 77
Period size: 29 Copynumber: 2.1 Consensus size: 28
46206163 AATATACCAT
* *
46206173 TTACATTTTGGCCTCAACTTTTTCTAAAA
1 TTACATTTTGGCCCCAACTTTTT-GAAAA
46206202 TTACATTTTGGCCCCTAAC-TTTTGAAAA
1 TTACATTTTGGCCCC-AACTTTTTGAAAA
46206230 TTA
1 TTA
46206233 ATAGAACGTG
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
28 7 0.25
29 18 0.64
30 3 0.11
ACGTcount: A:0.28, C:0.20, G:0.08, T:0.43
Consensus pattern (28 bp):
TTACATTTTGGCCCCAACTTTTTGAAAA
Found at i:46206620 original size:26 final size:26
Alignment explanation
Indices: 46206591--46206645 Score: 83
Period size: 26 Copynumber: 2.1 Consensus size: 26
46206581 ATAATTATAT
*
46206591 TTTAAAATATTAAAATTTAATACTTA
1 TTTAAAATATTAAAATTTAATAATTA
* *
46206617 TTTAGAATATTTAAATTTAATAATTA
1 TTTAAAATATTAAAATTTAATAATTA
46206643 TTT
1 TTT
46206646 TCATACACTT
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.45, C:0.02, G:0.02, T:0.51
Consensus pattern (26 bp):
TTTAAAATATTAAAATTTAATAATTA
Done.