Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: chr1
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: 37323695
ACGTcount: A:0.32, C:0.17, G:0.16, T:0.32
Warning! 1370832 characters in sequence are not A, C, G, or T
File 22 of 93
Found at i:9656102 original size:24 final size:24
Alignment explanation
Indices: 9656075--9656120 Score: 58
Period size: 24 Copynumber: 2.0 Consensus size: 24
9656065 ATTTAATTTC
*
9656075 TTTTT-AAAATGAAAATTGGGTAA
1 TTTTTGAAAATGAAAAGTGGGTAA
* *
9656098 TTTTTGAAATTGCAAAGTGGGTA
1 TTTTTGAAAATGAAAAGTGGGTA
9656121 GTGAGCAACT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
23 5 0.26
24 14 0.74
ACGTcount: A:0.37, C:0.02, G:0.22, T:0.39
Consensus pattern (24 bp):
TTTTTGAAAATGAAAAGTGGGTAA
Found at i:9658277 original size:26 final size:25
Alignment explanation
Indices: 9658218--9658283 Score: 80
Period size: 26 Copynumber: 2.6 Consensus size: 25
9658208 ATTTAAAAAA
9658218 ATTTTAAA-TAAATATTTATTTTTT
1 ATTTTAAATTAAATATTTATTTTTT
** * *
9658242 ACATTCAATTAAATTTTTATATTTTT
1 ATTTTAAATTAAATATTTAT-TTTTT
9658268 ATTTTAAATTAAATAT
1 ATTTTAAATTAAATAT
9658284 ATTTTATAAT
Statistics
Matches: 32, Mismatches: 8, Indels: 2
0.76 0.19 0.05
Matches are distributed among these distances:
24 5 0.16
25 10 0.31
26 17 0.53
ACGTcount: A:0.39, C:0.03, G:0.00, T:0.58
Consensus pattern (25 bp):
ATTTTAAATTAAATATTTATTTTTT
Found at i:9661196 original size:4 final size:4
Alignment explanation
Indices: 9661189--9661217 Score: 58
Period size: 4 Copynumber: 7.2 Consensus size: 4
9661179 CTTCAATATA
9661189 TATT TATT TATT TATT TATT TATT TATT T
1 TATT TATT TATT TATT TATT TATT TATT T
9661218 GTGACCTTTC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 25 1.00
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (4 bp):
TATT
Found at i:9663281 original size:27 final size:27
Alignment explanation
Indices: 9663248--9663316 Score: 79
Period size: 27 Copynumber: 2.6 Consensus size: 27
9663238 AAAGAACAAA
9663248 TAATTTTATTAATTATTAAT-TATTTT
1 TAATTTTATTAATTATTAATATATTTT
* *
9663274 TATATTTTTTTAATT-TTTATATATTTT
1 TA-ATTTTATTAATTATTAATATATTTT
* *
9663301 TAATATAATTAATTAT
1 TAATTTTATTAATTAT
9663317 ATTATAATTA
Statistics
Matches: 35, Mismatches: 5, Indels: 5
0.78 0.11 0.11
Matches are distributed among these distances:
26 15 0.43
27 20 0.57
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (27 bp):
TAATTTTATTAATTATTAATATATTTT
Found at i:9663291 original size:17 final size:17
Alignment explanation
Indices: 9663269--9663304 Score: 63
Period size: 17 Copynumber: 2.1 Consensus size: 17
9663259 ATTATTAATT
*
9663269 ATTTTTATATTTTTTTA
1 ATTTTTATATATTTTTA
9663286 ATTTTTATATATTTTTA
1 ATTTTTATATATTTTTA
9663303 AT
1 AT
9663305 ATAATTAATT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (17 bp):
ATTTTTATATATTTTTA
Found at i:9663307 original size:11 final size:10
Alignment explanation
Indices: 9663268--9663306 Score: 50
Period size: 9 Copynumber: 4.3 Consensus size: 10
9663258 AATTATTAAT
9663268 TATTTTTATA
1 TATTTTTATA
9663278 T-TTTTT-TA
1 TATTTTTATA
9663286 -ATTTTTATA
1 TATTTTTATA
9663295 TATTTTTA-A
1 TATTTTTATA
9663304 TAT
1 TAT
9663307 AATTAATTAT
Statistics
Matches: 26, Mismatches: 0, Indels: 7
0.79 0.00 0.21
Matches are distributed among these distances:
8 7 0.27
9 11 0.42
10 8 0.31
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (10 bp):
TATTTTTATA
Found at i:9669911 original size:2 final size:2
Alignment explanation
Indices: 9669906--9669945 Score: 80
Period size: 2 Copynumber: 20.0 Consensus size: 2
9669896 ATAAAAAACA
9669906 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
9669946 TACTTTTGCA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:9670013 original size:2 final size:2
Alignment explanation
Indices: 9670006--9670045 Score: 80
Period size: 2 Copynumber: 20.0 Consensus size: 2
9669996 CTTANAAATA
9670006 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
9670046 CACTTTTGCA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:9670078 original size:100 final size:99
Alignment explanation
Indices: 9669900--9670099 Score: 373
Period size: 100 Copynumber: 2.0 Consensus size: 99
9669890 GCTTAAATAA
* *
9669900 AAAACAATATATATATATATATATATATATATATATATATATATATTACTTTTGCATAGCCTCAC
1 AAAATAATATATATATATATATATATATATATATATATATATATATCACTTTTGCATAGCCTCAC
9669965 TACCTAATTAGATGAAAAAATCCTTCATAATCTT
66 TACCTAATTAGATGAAAAAATCCTTCATAATCTT
9669999 ANAAATAATATATATATATATATATATATATATATATATATATATATCACTTTTGCATAGCCTCA
1 A-AAATAATATATATATATATATATATATATATATATATATATATATCACTTTTGCATAGCCTCA
9670064 CTACCTAATTAGATGAAAAAATCCTTCATAATCTT
65 CTACCTAATTAGATGAAAAAATCCTTCATAATCTT
9670099 A
1 A
9670100 TACTAAACAT
Statistics
Matches: 98, Mismatches: 2, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
99 1 0.01
100 97 0.99
ACGTcount: A:0.43, C:0.13, G:0.04, T:0.39
Consensus pattern (99 bp):
AAAATAATATATATATATATATATATATATATATATATATATATATCACTTTTGCATAGCCTCAC
TACCTAATTAGATGAAAAAATCCTTCATAATCTT
Found at i:9672594 original size:200 final size:197
Alignment explanation
Indices: 9672232--9672628 Score: 767
Period size: 200 Copynumber: 2.0 Consensus size: 197
9672222 TAAATCTTCC
9672232 TAATAATTGTAACAAAAAATATTTTAATGATCGTCATTTAATGAATACGTATTTGAAATTATAGA
1 TAATAATTGTAACAAAAAATATTTTAATGATCGTCATTTAATGAATACGTATTTGAAATTATAGA
9672297 TTTGTCATATTTTACATAATAAATGAACATTGATATTTTCATAGTATTATGATACAAAAATATAA
66 TTTGTCATATTTTACATAATAAATGAACATTGATATTTTCATAGTATTATGATACAAAAATATAA
9672362 GATGGATTTTTTTAAAAAAATTAAAACTTACTTTTACTACAACATGTAATTAAATGTTTTGAAAA
131 GATGGATTTTTTTAAAAAAATTAAAACTTACTTTTACTACAACATGTAATTAAATGTTTTGAAAA
9672427 AT
196 AT
9672429 NTAATAATTGTAAACAAAAAATTATTTTAATGATCGTCATTTAATGAATACGTATTTGAAATTAT
1 -TAATAATTGT-AACAAAAAA-TATTTTAATGATCGTCATTTAATGAATACGTATTTGAAATTAT
9672494 AGATTTGTCATATTTTACATAATAAATGAACATTGATATTTTCATAGTATTATGATACAAAAATA
63 AGATTTGTCATATTTTACATAATAAATGAACATTGATATTTTCATAGTATTATGATACAAAAATA
9672559 TAAGATGGATTTTTTTAAAAAAATTAAAACTTACTTTTACTACAACATGTAATTAAATGTTTTGA
128 TAAGATGGATTTTTTTAAAAAAATTAAAACTTACTTTTACTACAACATGTAATTAAATGTTTTGA
9672624 AAAAT
193 AAAAT
9672629 ATTATTATTG
Statistics
Matches: 197, Mismatches: 0, Indels: 2
0.99 0.00 0.01
Matches are distributed among these distances:
198 10 0.05
199 9 0.05
200 178 0.90
ACGTcount: A:0.44, C:0.07, G:0.09, T:0.40
Consensus pattern (197 bp):
TAATAATTGTAACAAAAAATATTTTAATGATCGTCATTTAATGAATACGTATTTGAAATTATAGA
TTTGTCATATTTTACATAATAAATGAACATTGATATTTTCATAGTATTATGATACAAAAATATAA
GATGGATTTTTTTAAAAAAATTAAAACTTACTTTTACTACAACATGTAATTAAATGTTTTGAAAA
AT
Found at i:9673294 original size:20 final size:20
Alignment explanation
Indices: 9673259--9673296 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
9673249 ATCTATAAGT
**
9673259 ATAAAAATAATTATAATAAA
1 ATAAAAATAAAAATAATAAA
9673279 ATAAAAATAAAAATAATA
1 ATAAAAATAAAAATAATA
9673297 TCAAATAATC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (20 bp):
ATAAAAATAAAAATAATAAA
Found at i:9673383 original size:13 final size:13
Alignment explanation
Indices: 9673364--9673393 Score: 53
Period size: 12 Copynumber: 2.4 Consensus size: 13
9673354 TTTTATAAAA
9673364 TAAAAAAATTA-T
1 TAAAAAAATTATT
9673376 TAAAAAAATTATT
1 TAAAAAAATTATT
9673389 TAAAA
1 TAAAA
9673394 TTATTTATAT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 11 0.65
13 6 0.35
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (13 bp):
TAAAAAAATTATT
Found at i:9673474 original size:18 final size:18
Alignment explanation
Indices: 9673453--9673488 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
9673443 GTATACACTT
*
9673453 TTAAATACGATAACACGA
1 TTAAACACGATAACACGA
9673471 TTAAACACGATAACACGA
1 TTAAACACGATAACACGA
9673489 CTAAGTAAAC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.50, C:0.19, G:0.11, T:0.19
Consensus pattern (18 bp):
TTAAACACGATAACACGA
Found at i:9675410 original size:2 final size:2
Alignment explanation
Indices: 9675403--9675438 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
9675393 ATTGGTAGTA
9675403 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
9675439 TAATTATTAA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:9675561 original size:2 final size:2
Alignment explanation
Indices: 9675554--9675589 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
9675544 ATTGGTAGAA
9675554 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
9675590 TAATTCCATG
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:9675576 original size:151 final size:150
Alignment explanation
Indices: 9675302--9675594 Score: 568
Period size: 151 Copynumber: 1.9 Consensus size: 150
9675292 CTGGAAGAGA
9675302 AAACGAGAGATAGTGAAAGAGAGAGCGGGAGAGAGATTGTCTTCTTTCAGTAAGTCCGTTTTACG
1 AAACGAGAGATAGTGAAAGAGAGAGCGGGAGAGAGATTGTCTTCTTTCAGTAAGTCCGTTTTACG
*
9675367 TTCATGTCATGTCACGTCAGTCAAGAATTGGTAGTAATATATATATATATATATATATATATATA
66 TTCATGTCATGTCACGTCAGTCAAGAATTGGTAGAAATATATATATATATATATATATATATATA
9675432 TATATATTAATTATTAATTC
131 TATATATTAATTATTAATTC
9675452 NAAACGAGAGATAGTGAAAGAGAGAGCGGGAGAGAGATTGTCTTCTTTCAGTAAGTCCGTTTTAC
1 -AAACGAGAGATAGTGAAAGAGAGAGCGGGAGAGAGATTGTCTTCTTTCAGTAAGTCCGTTTTAC
9675517 GTTCATGTCATGTCACGTCAGTCAAGAATTGGTAGAAATATATATATATATATATATATATATAT
65 GTTCATGTCATGTCACGTCAGTCAAGAATTGGTAGAAATATATATATATATATATATATATATAT
9675582 ATATATATTAATT
130 ATATATATTAATT
9675595 CCATGTCACT
Statistics
Matches: 141, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
151 141 1.00
ACGTcount: A:0.36, C:0.10, G:0.19, T:0.34
Consensus pattern (150 bp):
AAACGAGAGATAGTGAAAGAGAGAGCGGGAGAGAGATTGTCTTCTTTCAGTAAGTCCGTTTTACG
TTCATGTCATGTCACGTCAGTCAAGAATTGGTAGAAATATATATATATATATATATATATATATA
TATATATTAATTATTAATTC
Found at i:9685956 original size:24 final size:24
Alignment explanation
Indices: 9685917--9685996 Score: 115
Period size: 24 Copynumber: 3.3 Consensus size: 24
9685907 AGTGACTGGT
* *
9685917 GTTGGAGGACTGCCACCTCCATAT
1 GTTGGAGGACTACCACCTCCATAA
* *
9685941 GTCGGAGGACTACCACCCCCATAA
1 GTTGGAGGACTACCACCTCCATAA
*
9685965 GTTGGCGGACTACCACCTCCATAA
1 GTTGGAGGACTACCACCTCCATAA
9685989 GTTGGAGG
1 GTTGGAGG
9685997 GGAGTGATAA
Statistics
Matches: 48, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 48 1.00
ACGTcount: A:0.24, C:0.30, G:0.26, T:0.20
Consensus pattern (24 bp):
GTTGGAGGACTACCACCTCCATAA
Found at i:9688756 original size:2 final size:2
Alignment explanation
Indices: 9688749--9688781 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
9688739 CAAAGATGTA
9688749 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
9688782 AAAGGAAATT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.52, C:0.00, G:0.48, T:0.00
Consensus pattern (2 bp):
AG
Found at i:9693485 original size:42 final size:43
Alignment explanation
Indices: 9693419--9693504 Score: 120
Period size: 42 Copynumber: 2.0 Consensus size: 43
9693409 TTACTATGAT
* * *
9693419 TTTTTTTCTTTTATCATATAGTGATGCTTGATAAAGTTCAACA
1 TTTTTTTCTTTTAACATATAGTGATACTTGATAAAGCTCAACA
* *
9693462 TTTTTTT-TTTTAACATTTCGTGATACTTGATAAAGCTCAACA
1 TTTTTTTCTTTTAACATATAGTGATACTTGATAAAGCTCAACA
9693504 T
1 T
9693505 AGCCTTTCAT
Statistics
Matches: 38, Mismatches: 5, Indels: 1
0.86 0.11 0.02
Matches are distributed among these distances:
42 31 0.82
43 7 0.18
ACGTcount: A:0.28, C:0.13, G:0.10, T:0.49
Consensus pattern (43 bp):
TTTTTTTCTTTTAACATATAGTGATACTTGATAAAGCTCAACA
Found at i:9693804 original size:29 final size:29
Alignment explanation
Indices: 9693771--9693882 Score: 88
Period size: 29 Copynumber: 3.9 Consensus size: 29
9693761 CTCTTTCACC
* *
9693771 ATTCGTT-AACTTTTAGTGGGTTAAAAGGT
1 ATTCGTTCAACTTTTA-TGGGTCAAAAAGT
**
9693800 ATTCGTTCATTTTTTATGGGTCAAAAAGT
1 ATTCGTTCAACTTTTATGGGTCAAAAAGT
* *
9693829 ATTCG-TCTACTTCTT-TAGGTCAAAAAGT
1 ATTCGTTCAACTT-TTATGGGTCAAAAAGT
** *
9693857 A-TCCATCAATTTTTAGTGGGTCAAAA
1 ATTCGTTCAACTTTTA-TGGGTCAAAA
9693883 TTATCAAAAT
Statistics
Matches: 66, Mismatches: 12, Indels: 10
0.75 0.14 0.11
Matches are distributed among these distances:
27 4 0.06
28 22 0.33
29 34 0.52
30 6 0.09
ACGTcount: A:0.29, C:0.12, G:0.18, T:0.40
Consensus pattern (29 bp):
ATTCGTTCAACTTTTATGGGTCAAAAAGT
Found at i:9694376 original size:20 final size:19
Alignment explanation
Indices: 9694351--9694390 Score: 53
Period size: 20 Copynumber: 2.1 Consensus size: 19
9694341 ATATCAAGTG
*
9694351 AAAGAACAATTATAAAAGAA
1 AAAGAACAACTAT-AAAGAA
*
9694371 AAAGAATAACTATAAAGAA
1 AAAGAACAACTATAAAGAA
9694390 A
1 A
9694391 GTATTTAGAG
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 7 0.39
20 11 0.61
ACGTcount: A:0.70, C:0.05, G:0.10, T:0.15
Consensus pattern (19 bp):
AAAGAACAACTATAAAGAA
Found at i:9710946 original size:17 final size:17
Alignment explanation
Indices: 9710900--9710972 Score: 55
Period size: 17 Copynumber: 4.4 Consensus size: 17
9710890 TATTATAAAA
9710900 ATTAATA-TTTTAAATT
1 ATTAATATTTTTAAATT
* * *
9710916 -TAAAAATTAATTAAATT
1 ATTAATATT-TTTAAATT
*
9710933 ATTAATATTTTT-AATC
1 ATTAATATTTTTAAATT
9710949 A-TAATAATTTTTAAATT
1 ATTAAT-ATTTTTAAATT
*
9710966 ATAAATA
1 ATTAATA
9710973 AAATATTAAT
Statistics
Matches: 42, Mismatches: 9, Indels: 11
0.68 0.15 0.18
Matches are distributed among these distances:
15 8 0.19
16 11 0.26
17 14 0.33
18 9 0.21
ACGTcount: A:0.49, C:0.01, G:0.00, T:0.49
Consensus pattern (17 bp):
ATTAATATTTTTAAATT
Found at i:9710963 original size:33 final size:33
Alignment explanation
Indices: 9710900--9710972 Score: 85
Period size: 33 Copynumber: 2.2 Consensus size: 33
9710890 TATTATAAAA
*
9710900 ATTAATATTTTAAATTTAAAAATTAATTAAATT
1 ATTAATATTTTAAATATAAAAATTAATTAAATT
* * *
9710933 ATTAATATTTTTAATCATAATAATT-TTTAAATT
1 ATTAATATTTTAAAT-ATAAAAATTAATTAAATT
*
9710966 ATAAATA
1 ATTAATA
9710973 AAATATTAAT
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
33 27 0.79
34 7 0.21
ACGTcount: A:0.49, C:0.01, G:0.00, T:0.49
Consensus pattern (33 bp):
ATTAATATTTTAAATATAAAAATTAATTAAATT
Found at i:9711812 original size:2 final size:2
Alignment explanation
Indices: 9711805--9711841 Score: 65
Period size: 2 Copynumber: 18.5 Consensus size: 2
9711795 TAAATTTACT
*
9711805 TA TA TA TA TA TA TA TA TT TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
9711842 GTAAATTGAA
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (2 bp):
TA
Found at i:9712077 original size:2 final size:2
Alignment explanation
Indices: 9712070--9712112 Score: 86
Period size: 2 Copynumber: 21.5 Consensus size: 2
9712060 CCATAAATAA
9712070 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
9712112 A
1 A
9712113 AAATAAACAA
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 41 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:9722356 original size:29 final size:28
Alignment explanation
Indices: 9722318--9722377 Score: 86
Period size: 29 Copynumber: 2.1 Consensus size: 28
9722308 CCTCATTTGC
9722318 TTTTCCTTAACTTCAATAAAAAATACATCA
1 TTTTCCTTAACTTCAATAAAAAA-AC-TCA
*
9722348 TTTT-CTTAATTTCAATAAAAAAACTCA
1 TTTTCCTTAACTTCAATAAAAAAACTCA
9722375 TTT
1 TTT
9722378 AAATATTTAA
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
27 6 0.21
28 2 0.07
29 17 0.59
30 4 0.14
ACGTcount: A:0.42, C:0.17, G:0.00, T:0.42
Consensus pattern (28 bp):
TTTTCCTTAACTTCAATAAAAAAACTCA
Found at i:9728297 original size:3 final size:3
Alignment explanation
Indices: 9728289--9728317 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
9728279 TTAAAAGGAA
9728289 AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
9728318 AGAACAATCT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:9728449 original size:17 final size:17
Alignment explanation
Indices: 9728427--9728460 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
9728417 CAAAAATCAT
9728427 AGCCATTATAGTAGACA
1 AGCCATTATAGTAGACA
9728444 AGCCATTATAGTAGACA
1 AGCCATTATAGTAGACA
9728461 GTACTAAGTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.41, C:0.18, G:0.18, T:0.24
Consensus pattern (17 bp):
AGCCATTATAGTAGACA
Found at i:9732401 original size:15 final size:14
Alignment explanation
Indices: 9732376--9732410 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 14
9732366 AAATTGTTTG
* *
9732376 ATAAATTTTTTTTA
1 ATAAGTTTTTTTTT
9732390 ATAAGTTTTTTTTT
1 ATAAGTTTTTTTTT
9732404 ATAAGTT
1 ATAAGTT
9732411 ATAATTTTGA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.31, C:0.00, G:0.06, T:0.63
Consensus pattern (14 bp):
ATAAGTTTTTTTTT
Found at i:9733345 original size:27 final size:27
Alignment explanation
Indices: 9733315--9733376 Score: 79
Period size: 27 Copynumber: 2.3 Consensus size: 27
9733305 ACATATCTAG
* *
9733315 AAACATCTTTATGCGTTACGCATTTAA
1 AAACATCTTTATACGTTACGCACTTAA
* * *
9733342 AAACATCTTTATACTTTATGCACTTAG
1 AAACATCTTTATACGTTACGCACTTAA
9733369 AAACATCT
1 AAACATCT
9733377 CTGAGCATTA
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 30 1.00
ACGTcount: A:0.35, C:0.19, G:0.08, T:0.37
Consensus pattern (27 bp):
AAACATCTTTATACGTTACGCACTTAA
Found at i:9736832 original size:7 final size:7
Alignment explanation
Indices: 9736820--9736850 Score: 62
Period size: 7 Copynumber: 4.4 Consensus size: 7
9736810 CATTATCATT
9736820 ATCAGTC
1 ATCAGTC
9736827 ATCAGTC
1 ATCAGTC
9736834 ATCAGTC
1 ATCAGTC
9736841 ATCAGTC
1 ATCAGTC
9736848 ATC
1 ATC
9736851 CTATGTCTCT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 24 1.00
ACGTcount: A:0.29, C:0.29, G:0.13, T:0.29
Consensus pattern (7 bp):
ATCAGTC
Found at i:9744156 original size:30 final size:30
Alignment explanation
Indices: 9744120--9744182 Score: 126
Period size: 30 Copynumber: 2.1 Consensus size: 30
9744110 TGTGTGTATA
9744120 TATATATATATGCAAGACCTAAAATATGAC
1 TATATATATATGCAAGACCTAAAATATGAC
9744150 TATATATATATGCAAGACCTAAAATATGAC
1 TATATATATATGCAAGACCTAAAATATGAC
9744180 TAT
1 TAT
9744183 GTTAAAAAGG
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 33 1.00
ACGTcount: A:0.46, C:0.13, G:0.10, T:0.32
Consensus pattern (30 bp):
TATATATATATGCAAGACCTAAAATATGAC
Found at i:9745776 original size:2 final size:2
Alignment explanation
Indices: 9745769--9745816 Score: 78
Period size: 2 Copynumber: 24.0 Consensus size: 2
9745759 GTGCCTCCCA
* *
9745769 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TT TC TT TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
9745811 TC TC TC
1 TC TC TC
9745817 CTATGATCTA
Statistics
Matches: 42, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
2 42 1.00
ACGTcount: A:0.00, C:0.46, G:0.00, T:0.54
Consensus pattern (2 bp):
TC
Found at i:9752451 original size:21 final size:23
Alignment explanation
Indices: 9752422--9752467 Score: 60
Period size: 22 Copynumber: 2.1 Consensus size: 23
9752412 TTGCACTAAA
*
9752422 TAAGAGAGTT-GACAAAAAGCCT
1 TAAGAGAGTTAGACAAAAAACCT
*
9752444 TAAG-GAGTTAGAGAAAAAACCT
1 TAAGAGAGTTAGACAAAAAACCT
9752466 TA
1 TA
9752468 TCAACATGTA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
21 5 0.24
22 16 0.76
ACGTcount: A:0.48, C:0.11, G:0.22, T:0.20
Consensus pattern (23 bp):
TAAGAGAGTTAGACAAAAAACCT
Found at i:9762138 original size:12 final size:11
Alignment explanation
Indices: 9762103--9762154 Score: 50
Period size: 12 Copynumber: 4.5 Consensus size: 11
9762093 GAACACCGAC
9762103 AGAAAGGGAAG
1 AGAAAGGGAAG
*
9762114 AGGAAGAGGAAG
1 AGAAAG-GGAAG
9762126 AGAAAGGGAAAG
1 AGAAAGGG-AAG
* *
9762138 AGATAGAGACAG
1 AGAAAGGGA-AG
9762150 AGAAA
1 AGAAA
9762155 AGAAAATTAC
Statistics
Matches: 33, Mismatches: 5, Indels: 5
0.77 0.12 0.12
Matches are distributed among these distances:
11 8 0.24
12 25 0.76
ACGTcount: A:0.56, C:0.02, G:0.40, T:0.02
Consensus pattern (11 bp):
AGAAAGGGAAG
Found at i:9762145 original size:24 final size:23
Alignment explanation
Indices: 9762103--9762154 Score: 63
Period size: 23 Copynumber: 2.2 Consensus size: 23
9762093 GAACACCGAC
9762103 AGAAAGGGAAGAGGAAGAGGA-AG
1 AGAAAGGGAAGAGGAAGA-GACAG
9762126 AGAAAGGGAA-AGAGATAGAGACAG
1 AGAAAGGGAAGAG-GA-AGAGACAG
9762150 AGAAA
1 AGAAA
9762155 AGAAAATTAC
Statistics
Matches: 26, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
22 2 0.08
23 14 0.54
24 10 0.38
ACGTcount: A:0.56, C:0.02, G:0.40, T:0.02
Consensus pattern (23 bp):
AGAAAGGGAAGAGGAAGAGACAG
Found at i:9763307 original size:3 final size:3
Alignment explanation
Indices: 9763294--9763325 Score: 55
Period size: 3 Copynumber: 10.3 Consensus size: 3
9763284 TGATTTTATC
9763294 ATG ATTG ATG ATG ATG ATG ATG ATG ATG ATG A
1 ATG A-TG ATG ATG ATG ATG ATG ATG ATG ATG A
9763326 AGGTGAATTT
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
3 25 0.89
4 3 0.11
ACGTcount: A:0.34, C:0.00, G:0.31, T:0.34
Consensus pattern (3 bp):
ATG
Found at i:9763480 original size:15 final size:12
Alignment explanation
Indices: 9763449--9763473 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
9763439 ATTATTATTC
9763449 TTTTATAATTAT
1 TTTTATAATTAT
9763461 TTTTATAATTAT
1 TTTTATAATTAT
9763473 T
1 T
9763474 AGTTTTAAAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (12 bp):
TTTTATAATTAT
Found at i:9766942 original size:16 final size:16
Alignment explanation
Indices: 9766909--9766953 Score: 56
Period size: 16 Copynumber: 2.9 Consensus size: 16
9766899 TTTCCTCCCA
*
9766909 CTTCCCATCT-CGGGT
1 CTTCCCATCTCCTGGT
**
9766924 CTTGGCATCTCCTGGT
1 CTTCCCATCTCCTGGT
9766940 CTTCCCATCTCCTG
1 CTTCCCATCTCCTG
9766954 ATTTATTGTA
Statistics
Matches: 24, Mismatches: 5, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
15 8 0.33
16 16 0.67
ACGTcount: A:0.07, C:0.40, G:0.18, T:0.36
Consensus pattern (16 bp):
CTTCCCATCTCCTGGT
Found at i:9767001 original size:35 final size:35
Alignment explanation
Indices: 9766955--9767030 Score: 152
Period size: 35 Copynumber: 2.2 Consensus size: 35
9766945 CATCTCCTGA
9766955 TTTATTGTAGTTGATGATGGTTGATTTGTTATAAT
1 TTTATTGTAGTTGATGATGGTTGATTTGTTATAAT
9766990 TTTATTGTAGTTGATGATGGTTGATTTGTTATAAT
1 TTTATTGTAGTTGATGATGGTTGATTTGTTATAAT
9767025 TTTATT
1 TTTATT
9767031 TGTAATTTTG
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 41 1.00
ACGTcount: A:0.22, C:0.00, G:0.21, T:0.57
Consensus pattern (35 bp):
TTTATTGTAGTTGATGATGGTTGATTTGTTATAAT
Found at i:9767109 original size:25 final size:27
Alignment explanation
Indices: 9767057--9767109 Score: 74
Period size: 25 Copynumber: 2.0 Consensus size: 27
9767047 TTTTAATTTT
*
9767057 ATCATGTTAATTATATTTAAAATTTTA
1 ATCATGTTAATTATATTTAAAATATTA
*
9767084 ATCATGTTAA-T-TATTTAACATATTA
1 ATCATGTTAATTATATTTAAAATATTA
9767109 A
1 A
9767110 AAATCGTGTC
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 13 0.54
26 1 0.04
27 10 0.42
ACGTcount: A:0.42, C:0.06, G:0.04, T:0.49
Consensus pattern (27 bp):
ATCATGTTAATTATATTTAAAATATTA
Found at i:9768019 original size:20 final size:20
Alignment explanation
Indices: 9767990--9768031 Score: 66
Period size: 20 Copynumber: 2.1 Consensus size: 20
9767980 ATGTTTCGTA
*
9767990 ATATAAAATTGTATGAATAT
1 ATATAAAATTGTATAAATAT
*
9768010 ATATATAATTGTATAAATAT
1 ATATAAAATTGTATAAATAT
9768030 AT
1 AT
9768032 TACATATACA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.50, C:0.00, G:0.07, T:0.43
Consensus pattern (20 bp):
ATATAAAATTGTATAAATAT
Found at i:9768306 original size:130 final size:134
Alignment explanation
Indices: 9768170--9768434 Score: 385
Period size: 134 Copynumber: 2.0 Consensus size: 134
9768160 ACAAACTTTG
* *
9768170 ATATAAAACATTATAACATATAAGTTATGCCATTAA-T-TATATATATAATAAAGTCATATA-T-
1 ATATAAAACATTATAACATATAAGTTATACCATTAATTATATATATATAATAAAGTAATATATTA
* *
9768231 TATATATACATATATTTAATTTATACATAAGCATTATTATAACTTATAATAGACTCTATTTATAT
66 TATATATACATATATTTAATTTATACATAAGCATTACTATAACTTATAATAAACTCTATTTATAT
9768296 GATT
131 GATT
* * * * *
9768300 ATATAAAACATTTTAACATATAATTTGTATCATTAATTATATATATATAATAATGTAATATATTA
1 ATATAAAACATTATAACATATAAGTTATACCATTAATTATATATATATAATAAAGTAATATATTA
* * * *
9768365 TATATATACATATATTTAATTTATATATAAGCATTACTGTAACTTATAATAAATTTTATTTATAT
66 TATATATACATATATTTAATTTATACATAAGCATTACTATAACTTATAATAAACTCTATTTATAT
9768430 GATT
131 GATT
9768434 A
1 A
9768435 CACTTAATAA
Statistics
Matches: 118, Mismatches: 13, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
130 31 0.26
131 1 0.01
132 21 0.18
133 1 0.01
134 64 0.54
ACGTcount: A:0.45, C:0.07, G:0.04, T:0.45
Consensus pattern (134 bp):
ATATAAAACATTATAACATATAAGTTATACCATTAATTATATATATATAATAAAGTAATATATTA
TATATATACATATATTTAATTTATACATAAGCATTACTATAACTTATAATAAACTCTATTTATAT
GATT
Found at i:9771306 original size:17 final size:16
Alignment explanation
Indices: 9771284--9771315 Score: 55
Period size: 17 Copynumber: 1.9 Consensus size: 16
9771274 ATCTTCTTTT
9771284 TATTTATATTATTTAAG
1 TATTTATA-TATTTAAG
9771301 TATTTATATATTTAA
1 TATTTATATATTTAA
9771316 TTATAGTGAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 7 0.47
17 8 0.53
ACGTcount: A:0.38, C:0.00, G:0.03, T:0.59
Consensus pattern (16 bp):
TATTTATATATTTAAG
Found at i:9773503 original size:13 final size:13
Alignment explanation
Indices: 9773485--9773510 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
9773475 GGCACGATGG
9773485 ATATATATATATA
1 ATATATATATATA
9773498 ATATATATATATA
1 ATATATATATATA
9773511 TTGAAGAACT
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:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (13 bp):
ATATATATATATA
Found at i:9776259 original size:27 final size:28
Alignment explanation
Indices: 9776229--9776316 Score: 108
Period size: 28 Copynumber: 3.2 Consensus size: 28
9776219 GATACCTTTA
*
9776229 TCCACCAGAA-TAGGATGGATAC-TTTTG
1 TCCACCAGAAGT-GGATGAATACATTTTG
* *
9776256 TCCACCAGAAGTGGATGAATGCTTTTTG
1 TCCACCAGAAGTGGATGAATACATTTTG
* *
9776284 TTCACCAGAAGTGAATGAATACATTTTG
1 TCCACCAGAAGTGGATGAATACATTTTG
9776312 TCCAC
1 TCCAC
9776317 AAAAAATGAA
Statistics
Matches: 52, Mismatches: 7, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
27 18 0.35
28 34 0.65
ACGTcount: A:0.30, C:0.19, G:0.20, T:0.31
Consensus pattern (28 bp):
TCCACCAGAAGTGGATGAATACATTTTG
Found at i:9776367 original size:27 final size:27
Alignment explanation
Indices: 9776345--9776396 Score: 68
Period size: 27 Copynumber: 1.9 Consensus size: 27
9776335 TTTGCCTACT
*
9776345 AGAAATGGATAGATAACTCTGCCCACC
1 AGAAATAGATAGATAACTCTGCCCACC
* * *
9776372 AGAAGTAGATCGATAACTTTGCCCA
1 AGAAATAGATAGATAACTCTGCCCA
9776397 TTAATCCATC
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 21 1.00
ACGTcount: A:0.37, C:0.23, G:0.19, T:0.21
Consensus pattern (27 bp):
AGAAATAGATAGATAACTCTGCCCACC
Found at i:9781841 original size:15 final size:17
Alignment explanation
Indices: 9781810--9781842 Score: 52
Period size: 15 Copynumber: 2.1 Consensus size: 17
9781800 ATATAACTTG
9781810 AAATATTAAACAAATAA
1 AAATATTAAACAAATAA
9781827 AAATA-TAAA-AAATAA
1 AAATATTAAACAAATAA
9781842 A
1 A
9781843 TAAAAAATTA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 7 0.44
16 4 0.25
17 5 0.31
ACGTcount: A:0.76, C:0.03, G:0.00, T:0.21
Consensus pattern (17 bp):
AAATATTAAACAAATAA
Found at i:9786473 original size:15 final size:15
Alignment explanation
Indices: 9786453--9786484 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
9786443 GCTTAGAATG
*
9786453 ATTTCTCAACTTGAA
1 ATTTCTCAACTTAAA
9786468 ATTTCTCAACTTAAA
1 ATTTCTCAACTTAAA
9786483 AT
1 AT
9786485 GATGCTGGCA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.38, C:0.19, G:0.03, T:0.41
Consensus pattern (15 bp):
ATTTCTCAACTTAAA
Found at i:9789251 original size:25 final size:25
Alignment explanation
Indices: 9789223--9789276 Score: 65
Period size: 25 Copynumber: 2.2 Consensus size: 25
9789213 CTTTTTAAAC
* *
9789223 TAATGTTTATTTGTT-CTATAAAGAT
1 TAATGCTTATTTATTGC-ATAAAGAT
*
9789248 TAATGCTTATTTATTGCATGAAGAT
1 TAATGCTTATTTATTGCATAAAGAT
9789273 TAAT
1 TAAT
9789277 ATTATTAATC
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
25 24 0.96
26 1 0.04
ACGTcount: A:0.33, C:0.06, G:0.13, T:0.48
Consensus pattern (25 bp):
TAATGCTTATTTATTGCATAAAGAT
Found at i:9789954 original size:29 final size:28
Alignment explanation
Indices: 9789904--9789967 Score: 83
Period size: 29 Copynumber: 2.2 Consensus size: 28
9789894 GTCTATGGAC
* *
9789904 AATTTTTCAGTTTTTGAGGTAAAAATGT
1 AATTTTTCACTTTTGGAGGTAAAAATGT
* *
9789932 AATTTTTCACTTTATGGGGGTAAAAGTGT
1 AATTTTTCACTTT-TGGAGGTAAAAATGT
9789961 AATTTTT
1 AATTTTT
9789968 AAAAATTTAC
Statistics
Matches: 31, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
28 12 0.39
29 19 0.61
ACGTcount: A:0.30, C:0.05, G:0.19, T:0.47
Consensus pattern (28 bp):
AATTTTTCACTTTTGGAGGTAAAAATGT
Found at i:9791846 original size:14 final size:14
Alignment explanation
Indices: 9791827--9791856 Score: 53
Period size: 13 Copynumber: 2.2 Consensus size: 14
9791817 ATTTTTCAAC
9791827 AAAAAAAGA-AAAG
1 AAAAAAAGAGAAAG
9791840 AAAAAAAGAGAAAG
1 AAAAAAAGAGAAAG
9791854 AAA
1 AAA
9791857 TGGAAAAACT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 9 0.56
14 7 0.44
ACGTcount: A:0.83, C:0.00, G:0.17, T:0.00
Consensus pattern (14 bp):
AAAAAAAGAGAAAG
Found at i:9819897 original size:104 final size:105
Alignment explanation
Indices: 9819781--9819984 Score: 266
Period size: 105 Copynumber: 2.0 Consensus size: 105
9819771 TTATTATTAT
* * * *
9819781 ACGTCATATACAAAACCATGTTACAAGTCATGGTT-AAAAAGGTTGTTACATGCCATGGTAAAAA
1 ACGTCATATACAAAAACATATTACAAGTCATGATTAAAAAAGGTTGTTACACGCCATGGTAAAAA
* * * *
9819845 AAAATATTGTTATTATACGTTATTTACAAAAACATGTTAC
66 AAAATATTATTATTACACGTCATGTACAAAAACATGTTAC
* * * * * * *
9819885 ACGTCATGTACAAAAACATATTATATGTCATGATTAAAAAAGGTTGTTGCACGTCATGTTGAAAA
1 ACGTCATATACAAAAACATATTACAAGTCATGATTAAAAAAGGTTGTTACACGCCATGGTAAAAA
9819950 AAAATATTATTATTACACGTCATGTACAAAAACAT
66 AAAATATTATTATTACACGTCATGTACAAAAACAT
9819985 ATTATACGCT
Statistics
Matches: 84, Mismatches: 15, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
104 29 0.35
105 55 0.65
ACGTcount: A:0.42, C:0.13, G:0.13, T:0.31
Consensus pattern (105 bp):
ACGTCATATACAAAAACATATTACAAGTCATGATTAAAAAAGGTTGTTACACGCCATGGTAAAAA
AAAATATTATTATTACACGTCATGTACAAAAACATGTTAC
Found at i:9819914 original size:24 final size:24
Alignment explanation
Indices: 9819855--9819916 Score: 79
Period size: 24 Copynumber: 2.6 Consensus size: 24
9819845 AAAATATTGT
* *
9819855 TATTATACGTTATTTACAAAAACA
1 TATTATACGTCATGTACAAAAACA
* *
9819879 TGTTACACGTCATGTACAAAAACA
1 TATTATACGTCATGTACAAAAACA
*
9819903 TATTATATGTCATG
1 TATTATACGTCATG
9819917 ATTAAAAAAG
Statistics
Matches: 31, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
24 31 1.00
ACGTcount: A:0.40, C:0.15, G:0.10, T:0.35
Consensus pattern (24 bp):
TATTATACGTCATGTACAAAAACA
Found at i:9819923 original size:80 final size:80
Alignment explanation
Indices: 9819763--9819925 Score: 186
Period size: 80 Copynumber: 2.0 Consensus size: 80
9819753 CGTCATGTTG
* *** *
9819763 AAAAAATATTATTATTATACGTCATATACAAAACCATGTTACAAGTCATGGTTAAAAAGGTTGTT
1 AAAAAATATTATTATTATACGTCATATACAAAAACATGTTACAAGTCATGGTTAAAAAACATATT
9819828 ACATGCCATGGTAAA
66 ACATGCCATGGTAAA
* * * *
9819843 AAAAAATATTGTTATTATACGTTATTTACAAAAACATGTTACACGTCAT-G-TACAAAAACATAT
1 AAAAAATATTATTATTATACGTCATATACAAAAACATGTTACAAGTCATGGTTA-AAAAACATAT
* * * *
9819906 TATATGTCATGATTAA
65 TACATGCCATGGTAAA
9819922 AAAA
1 AAAA
9819926 GGTTGTTGCA
Statistics
Matches: 69, Mismatches: 13, Indels: 3
0.81 0.15 0.04
Matches are distributed among these distances:
78 2 0.03
79 23 0.33
80 44 0.64
ACGTcount: A:0.45, C:0.12, G:0.11, T:0.33
Consensus pattern (80 bp):
AAAAAATATTATTATTATACGTCATATACAAAAACATGTTACAAGTCATGGTTAAAAAACATATT
ACATGCCATGGTAAA
Found at i:9819980 original size:28 final size:28
Alignment explanation
Indices: 9819949--9820026 Score: 92
Period size: 24 Copynumber: 2.9 Consensus size: 28
9819939 CATGTTGAAA
9819949 AAAAATATTATTATTACACGTCATGTAC
1 AAAAATATTATTATTACACGTCATGTAC
* * **
9819977 AAAAACA-TATTA-TACGC-T-ATGTTG
1 AAAAATATTATTATTACACGTCATGTAC
9820001 AAAAATATTATTATTACACGTCATGT
1 AAAAATATTATTATTACACGTCATGT
9820027 TGAAAAAATA
Statistics
Matches: 40, Mismatches: 6, Indels: 8
0.74 0.11 0.15
Matches are distributed among these distances:
24 10 0.25
25 6 0.15
26 8 0.20
27 6 0.15
28 10 0.25
ACGTcount: A:0.42, C:0.13, G:0.09, T:0.36
Consensus pattern (28 bp):
AAAAATATTATTATTACACGTCATGTAC
Found at i:9820005 original size:81 final size:83
Alignment explanation
Indices: 9819881--9820034 Score: 217
Period size: 81 Copynumber: 1.9 Consensus size: 83
9819871 CAAAAACATG
* * * *
9819881 TTACACGTCATGTACAAAAACATATTATATGTCATGATTAAAAA-A-GGTTGTTGCACGTCATGT
1 TTACACGTCATGTACAAAAACATATTATACGTCATGATTAAAAATATGATTATTACACGTCATGT
9819944 TGAAAAAAAATATTATTA
66 TGAAAAAAAATATTATTA
*
9819962 TTACACGTCATGTACAAAAACATATTATACG-CTATG-TTGAAAAATATTATTATTACACGTCAT
1 TTACACGTCATGTACAAAAACATATTATACGTC-ATGATT-AAAAATATGATTATTACACGTCAT
9820025 GTTGAAAAAA
64 GTTGAAAAAA
9820035 TATCGTTATT
Statistics
Matches: 64, Mismatches: 5, Indels: 6
0.85 0.07 0.08
Matches are distributed among these distances:
80 3 0.05
81 38 0.59
82 1 0.02
83 22 0.34
ACGTcount: A:0.42, C:0.12, G:0.12, T:0.33
Consensus pattern (83 bp):
TTACACGTCATGTACAAAAACATATTATACGTCATGATTAAAAATATGATTATTACACGTCATGT
TGAAAAAAAATATTATTA
Found at i:9820005 original size:105 final size:105
Alignment explanation
Indices: 9819775--9820014 Score: 252
Period size: 105 Copynumber: 2.3 Consensus size: 105
9819765 AAAATATTAT
* * * * * * * *
9819775 TATTATACGTCATATACAAAACCA-TGTTACAAGTCATGGTTAAAAAGGTTGTTACATGCCATGG
1 TATTACACGTCATGTACAAAAACATTATTATATGTCATGATTAAAAAGGTTGTTACACGCCATGG
* * * *
9819839 TAAAAAAAAATATTGTTATTATACGTTATTTACAAAAACA
66 TAAAAAAAAATATTATTATTACACGTCATGTACAAAAACA
* * *
9819879 TGTTACACGTCATGTACAAAAACA-TATTATATGTCATGATTAAAAAAGGTTGTTGCACGTCATG
1 TATTACACGTCATGTACAAAAACATTATTATATGTCATGATT-AAAAAGGTTGTTACACGCCATG
* *
9819943 TTGAAAAAAAATATTATTATTACACGTCATGTACAAAAACA
65 GTAAAAAAAAATATTATTATTACACGTCATGTACAAAAACA
* ** *
9819984 TATTATACG-CTATGTTGAAAAATATTATTAT
1 TATTACACGTC-ATGTACAAAAACATTATTAT
9820015 TACACGTCAT
Statistics
Matches: 111, Mismatches: 22, Indels: 4
0.81 0.16 0.03
Matches are distributed among these distances:
104 34 0.31
105 71 0.64
106 6 0.05
ACGTcount: A:0.42, C:0.12, G:0.12, T:0.34
Consensus pattern (105 bp):
TATTACACGTCATGTACAAAAACATTATTATATGTCATGATTAAAAAGGTTGTTACACGCCATGG
TAAAAAAAAATATTATTATTACACGTCATGTACAAAAACA
Found at i:9821654 original size:2 final size:2
Alignment explanation
Indices: 9821647--9821710 Score: 85
Period size: 2 Copynumber: 31.5 Consensus size: 2
9821637 ACATTAATTT
* *
9821647 TA TA TA TA CA TA TA CA TA TA TA TA GTA TA TA TA TA TA TA -A TA
1 TA TA TA TA TA TA TA TA TA TA TA TA -TA TA TA TA TA TA TA TA TA
9821689 TA TA TA TA TA TA TA GTA TA TA T
1 TA TA TA TA TA TA TA -TA TA TA T
9821711 CTTAAATCAT
Statistics
Matches: 55, Mismatches: 4, Indels: 6
0.85 0.06 0.09
Matches are distributed among these distances:
1 1 0.02
2 50 0.91
3 4 0.07
ACGTcount: A:0.48, C:0.03, G:0.03, T:0.45
Consensus pattern (2 bp):
TA
Found at i:9821680 original size:15 final size:14
Alignment explanation
Indices: 9821647--9821710 Score: 85
Period size: 15 Copynumber: 4.5 Consensus size: 14
9821637 ACATTAATTT
*
9821647 TATATATACATATA
1 TATATATATATATA
*
9821661 CATATATATAGTATA
1 TATATATATA-TATA
9821676 TATATATATA-ATA
1 TATATATATATATA
9821689 TATATATATATATA
1 TATATATATATATA
9821703 GTATATAT
1 -TATATAT
9821711 CTTAAATCAT
Statistics
Matches: 44, Mismatches: 3, Indels: 5
0.85 0.06 0.10
Matches are distributed among these distances:
13 13 0.30
14 11 0.25
15 20 0.45
ACGTcount: A:0.48, C:0.03, G:0.03, T:0.45
Consensus pattern (14 bp):
TATATATATATATA
Found at i:9823548 original size:24 final size:24
Alignment explanation
Indices: 9823511--9823557 Score: 76
Period size: 24 Copynumber: 2.0 Consensus size: 24
9823501 CTCAAGTGCA
*
9823511 ATATATAAATCTTTGTTTATATAT
1 ATATATAAACCTTTGTTTATATAT
*
9823535 ATATATACACCTTTGTTTATATA
1 ATATATAAACCTTTGTTTATATA
9823558 AACTTATAAC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.36, C:0.09, G:0.04, T:0.51
Consensus pattern (24 bp):
ATATATAAACCTTTGTTTATATAT
Found at i:9824182 original size:33 final size:33
Alignment explanation
Indices: 9824111--9824173 Score: 117
Period size: 33 Copynumber: 1.9 Consensus size: 33
9824101 TTTTAATATC
*
9824111 ATATATTTTATTTTCATTTCTTATTATAATCTT
1 ATATATTTTATTTTCATTTCTTAATATAATCTT
9824144 ATATATTTTATTTTCATTTCTTAATATAAT
1 ATATATTTTATTTTCATTTCTTAATATAAT
9824174 TTCCTATATA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 29 1.00
ACGTcount: A:0.30, C:0.08, G:0.00, T:0.62
Consensus pattern (33 bp):
ATATATTTTATTTTCATTTCTTAATATAATCTT
Found at i:9825781 original size:60 final size:59
Alignment explanation
Indices: 9825567--9825787 Score: 237
Period size: 60 Copynumber: 3.7 Consensus size: 59
9825557 TAACATCAAC
* * * * * * *
9825567 ACCTACTAGTGGGAACTTCCCATGCCACTAAATATAAGTCGGAGCTTCAGGTCTCCATTT
1 ACCTACTCGTGGGAACTCCCCACGCCACCAAATATGAGTC-GAGTTTCAGGTCTCCTTTT
* * * * * * *
9825627 ACCTACTCATGGAAACTCCCCACGCCATCGAATATGAGTTAGGGTTTCAAGTC-CCTCTTT
1 ACCTACTCGTGGGAACTCCCCACGCCACCAAATATGAG-TCGAGTTTCAGGTCTCCT-TTT
* * *
9825687 ACCTACTCGTGGGAACTCTCCACGCCATCGAATATGAGTCGAGTTTTCAGGTCTCCTTTT
1 ACCTACTCGTGGGAACTCCCCACGCCACCAAATATGAGTCGAG-TTTCAGGTCTCCTTTT
*
9825747 ACCTACTCGTGGGAACTCCCCACGCCACCAAATATCAGTCG
1 ACCTACTCGTGGGAACTCCCCACGCCACCAAATATGAGTCG
9825788 GGACTTCAAG
Statistics
Matches: 133, Mismatches: 24, Indels: 8
0.81 0.15 0.05
Matches are distributed among these distances:
59 5 0.04
60 124 0.93
61 4 0.03
ACGTcount: A:0.24, C:0.30, G:0.18, T:0.27
Consensus pattern (59 bp):
ACCTACTCGTGGGAACTCCCCACGCCACCAAATATGAGTCGAGTTTCAGGTCTCCTTTT
Found at i:9832726 original size:34 final size:34
Alignment explanation
Indices: 9832683--9832747 Score: 112
Period size: 34 Copynumber: 1.9 Consensus size: 34
9832673 AAATGAAACT
*
9832683 TTGATGTGTAATATTTGATGCTGAAACTTTGATA
1 TTGATGTGTAATATCTGATGCTGAAACTTTGATA
*
9832717 TTGATGTGTAATATCTGATGTTGAAACTTTG
1 TTGATGTGTAATATCTGATGCTGAAACTTTG
9832748 GCCTTGGCAT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
34 29 1.00
ACGTcount: A:0.28, C:0.06, G:0.22, T:0.45
Consensus pattern (34 bp):
TTGATGTGTAATATCTGATGCTGAAACTTTGATA
Found at i:9832906 original size:40 final size:40
Alignment explanation
Indices: 9832822--9832911 Score: 101
Period size: 40 Copynumber: 2.2 Consensus size: 40
9832812 TTCGGTGTGT
* ** *
9832822 AACATCTTCTGCTGAAGTGTGTAATGGCATTTTAGTGTAT
1 AACATCTTTTGCTGAAGTGTGTAATGGCATGGTAGTGTAC
* *
9832862 AACATCTTTTGCTTAAGTGTGTAATGGTATGGTA-TGTAAC
1 AACATCTTTTGCTGAAGTGTGTAATGGCATGGTAGTGT-AC
*
9832902 AACATGTTTT
1 AACATCTTTT
9832912 TATACATGTC
Statistics
Matches: 42, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
39 3 0.07
40 39 0.93
ACGTcount: A:0.27, C:0.11, G:0.21, T:0.41
Consensus pattern (40 bp):
AACATCTTTTGCTGAAGTGTGTAATGGCATGGTAGTGTAC
Found at i:9833230 original size:18 final size:18
Alignment explanation
Indices: 9833209--9833243 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
9833199 ATAAAGATAA
9833209 AATTTAAAATAAAAAAGG
1 AATTTAAAATAAAAAAGG
* *
9833227 AATTTAACATAGAAAAG
1 AATTTAAAATAAAAAAG
9833244 AAGATGTATT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.63, C:0.03, G:0.11, T:0.23
Consensus pattern (18 bp):
AATTTAAAATAAAAAAGG
Found at i:9833420 original size:27 final size:27
Alignment explanation
Indices: 9833390--9833453 Score: 69
Period size: 27 Copynumber: 2.4 Consensus size: 27
9833380 TTATAAAAAA
* *
9833390 AATATAATGTGTAATAAT-TTTGTTTTC
1 AATATAATATGTAACAATGTTT-TTTTC
**
9833417 AATATGGTATGTAACAATGTTTTTTTC
1 AATATAATATGTAACAATGTTTTTTTC
9833444 AATA-AATATG
1 AATATAATATG
9833454 AGGAGGTTTC
Statistics
Matches: 30, Mismatches: 6, Indels: 3
0.77 0.15 0.08
Matches are distributed among these distances:
26 4 0.13
27 23 0.77
28 3 0.10
ACGTcount: A:0.36, C:0.05, G:0.12, T:0.47
Consensus pattern (27 bp):
AATATAATATGTAACAATGTTTTTTTC
Found at i:9850558 original size:6 final size:6
Alignment explanation
Indices: 9850521--9850555 Score: 61
Period size: 6 Copynumber: 5.8 Consensus size: 6
9850511 TATCTGTCCT
*
9850521 CCGCCA CCGCCA CCGCCA CCGCCA CCGCCG CCGCC
1 CCGCCA CCGCCA CCGCCA CCGCCA CCGCCA CCGCC
9850556 GCCATCACTA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
6 28 1.00
ACGTcount: A:0.11, C:0.69, G:0.20, T:0.00
Consensus pattern (6 bp):
CCGCCA
Found at i:9851102 original size:10 final size:10
Alignment explanation
Indices: 9851089--9851124 Score: 56
Period size: 10 Copynumber: 3.6 Consensus size: 10
9851079 CGTTTTGATT
9851089 TTTTTTTTAA
1 TTTTTTTTAA
9851099 TTTTTTTTAA
1 TTTTTTTTAA
9851109 TTTTTATTT-A
1 TTTTT-TTTAA
9851119 TTTTTT
1 TTTTTT
9851125 CCCTAAGAGT
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
9 1 0.04
10 21 0.84
11 3 0.12
ACGTcount: A:0.17, C:0.00, G:0.00, T:0.83
Consensus pattern (10 bp):
TTTTTTTTAA
Found at i:9854287 original size:18 final size:18
Alignment explanation
Indices: 9854266--9854303 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
9854256 ACAAATTATT
*
9854266 ATAATTAATAATTAATAA
1 ATAATTAATAATTAAAAA
*
9854284 ATAATTATTAATTAAAAA
1 ATAATTAATAATTAAAAA
9854302 AT
1 AT
9854304 TATTTATTAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (18 bp):
ATAATTAATAATTAAAAA
Found at i:9864431 original size:2 final size:2
Alignment explanation
Indices: 9864424--9864502 Score: 135
Period size: 2 Copynumber: 40.5 Consensus size: 2
9864414 CAAATCATGC
9864424 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
*
9864466 AT AT AT AT A- AT AT GT AT AT AT AT AT AT AT AT A- AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
9864503 GTAATTATAT
Statistics
Matches: 73, Mismatches: 2, Indels: 4
0.92 0.03 0.05
Matches are distributed among these distances:
1 2 0.03
2 71 0.97
ACGTcount: A:0.51, C:0.00, G:0.01, T:0.48
Consensus pattern (2 bp):
AT
Found at i:9865654 original size:48 final size:48
Alignment explanation
Indices: 9865583--9865678 Score: 174
Period size: 48 Copynumber: 2.0 Consensus size: 48
9865573 ATAATCTTGA
*
9865583 ATGCATATTAGCCTTCCACAAACTCAGACAGAGAAGTTGGATATATTT
1 ATGCATATTAGCCTTACACAAACTCAGACAGAGAAGTTGGATATATTT
*
9865631 ATGCATATTAGCCTTATACAAACTCAGACAGAGAAGTTGGATATATTT
1 ATGCATATTAGCCTTACACAAACTCAGACAGAGAAGTTGGATATATTT
9865679 GGATAAAACT
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
48 46 1.00
ACGTcount: A:0.36, C:0.17, G:0.17, T:0.30
Consensus pattern (48 bp):
ATGCATATTAGCCTTACACAAACTCAGACAGAGAAGTTGGATATATTT
Found at i:9886799 original size:2 final size:2
Alignment explanation
Indices: 9886794--9886819 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
9886784 GTGTGTGTAA
9886794 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
9886820 GTAATGATTA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:9900468 original size:14 final size:14
Alignment explanation
Indices: 9900431--9900471 Score: 55
Period size: 14 Copynumber: 2.9 Consensus size: 14
9900421 GAAAGTGAAT
*
9900431 TATATATATATATA
1 TATATATATGTATA
9900445 TATATATATGTATA
1 TATATATATGTATA
* *
9900459 TGTATGTATGTAT
1 TATATATATGTAT
9900472 GCTGAATAGG
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
14 24 1.00
ACGTcount: A:0.39, C:0.00, G:0.10, T:0.51
Consensus pattern (14 bp):
TATATATATGTATA
Found at i:9908654 original size:2 final size:2
Alignment explanation
Indices: 9908647--9908675 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
9908637 GGAGGAAACC
9908647 AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
9908676 AAGAAAATAG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.48, T:0.00
Consensus pattern (2 bp):
AG
Found at i:9915461 original size:2 final size:2
Alignment explanation
Indices: 9915454--9915504 Score: 102
Period size: 2 Copynumber: 25.5 Consensus size: 2
9915444 GATTTATGTA
9915454 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
9915496 AT AT AT AT A
1 AT AT AT AT A
9915505 AAAGGATGTC
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 49 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:9915730 original size:14 final size:14
Alignment explanation
Indices: 9915703--9915735 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
9915693 AACTAAAATA
9915703 CTCTC-TTTTCTTT
1 CTCTCATTTTCTTT
*
9915716 CTCTCATTTTTTTT
1 CTCTCATTTTCTTT
9915730 CTCTCA
1 CTCTCA
9915736 AACAATGTGG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 5 0.28
14 13 0.72
ACGTcount: A:0.06, C:0.30, G:0.00, T:0.64
Consensus pattern (14 bp):
CTCTCATTTTCTTT
Found at i:9916837 original size:21 final size:21
Alignment explanation
Indices: 9916811--9916902 Score: 71
Period size: 21 Copynumber: 4.4 Consensus size: 21
9916801 TCGACTACCA
* *
9916811 TTAAAATTGATTCAATAAATC
1 TTAAAATCGATTCAATAAAAC
*
9916832 TTAAAATCGATT-AACAAAAC
1 TTAAAATCGATTCAATAAAAC
* * *
9916852 TTTAAAACCGATTCCATAAACC
1 -TTAAAATCGATTCAATAAAAC
** *
9916874 TTAAAA-CAGATTCAGCAAACC
1 TTAAAATC-GATTCAATAAAAC
9916895 TTAAAATC
1 TTAAAATC
9916903 AATTTAACAA
Statistics
Matches: 57, Mismatches: 10, Indels: 7
0.77 0.14 0.09
Matches are distributed among these distances:
20 7 0.12
21 44 0.77
22 6 0.11
ACGTcount: A:0.48, C:0.18, G:0.05, T:0.28
Consensus pattern (21 bp):
TTAAAATCGATTCAATAAAAC
Found at i:9916921 original size:22 final size:22
Alignment explanation
Indices: 9916869--9916965 Score: 94
Period size: 22 Copynumber: 4.5 Consensus size: 22
9916859 CCGATTCCAT
* *
9916869 AAACCTTAAAA-CAGATTCAGC-
1 AAACCCTAAAATCA-ATTCAACA
* *
9916890 AAACCTTAAAATCAATTTAACA
1 AAACCCTAAAATCAATTCAACA
*
9916912 AAACCCTAAAATTAATTCAACA
1 AAACCCTAAAATCAATTCAACA
9916934 AAATCCC-AAAATCAATTCAAC-
1 AAA-CCCTAAAATCAATTCAACA
*
9916955 AAATCCTAAAA
1 AAACCCTAAAA
9916966 CTTGCTCACA
Statistics
Matches: 65, Mismatches: 7, Indels: 8
0.81 0.09 0.10
Matches are distributed among these distances:
20 2 0.03
21 23 0.35
22 37 0.57
23 3 0.05
ACGTcount: A:0.54, C:0.23, G:0.02, T:0.22
Consensus pattern (22 bp):
AAACCCTAAAATCAATTCAACA
Found at i:9917459 original size:5 final size:5
Alignment explanation
Indices: 9917449--9917476 Score: 56
Period size: 5 Copynumber: 5.6 Consensus size: 5
9917439 AATCGTCTTT
9917449 AAACA AAACA AAACA AAACA AAACA AAA
1 AAACA AAACA AAACA AAACA AAACA AAA
9917477 AAACTGAAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 23 1.00
ACGTcount: A:0.82, C:0.18, G:0.00, T:0.00
Consensus pattern (5 bp):
AAACA
Found at i:9971433 original size:13 final size:13
Alignment explanation
Indices: 9971415--9971450 Score: 63
Period size: 13 Copynumber: 2.8 Consensus size: 13
9971405 AATTACTATT
9971415 ATATATATTTAGC
1 ATATATATTTAGC
*
9971428 ATATATATTTAGT
1 ATATATATTTAGC
9971441 ATATATATTT
1 ATATATATTT
9971451 TAAATATTAG
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 22 1.00
ACGTcount: A:0.39, C:0.03, G:0.06, T:0.53
Consensus pattern (13 bp):
ATATATATTTAGC
Found at i:9971533 original size:24 final size:22
Alignment explanation
Indices: 9971498--9971559 Score: 56
Period size: 22 Copynumber: 2.8 Consensus size: 22
9971488 GTTATAAAAA
9971498 ATATAAT-TTATAAAATTATTC
1 ATATAATATTATAAAATTATTC
* * *
9971519 ATTATAATATATATACATTTATTT
1 A-TATAATAT-TATAAAATTATTC
9971543 ATATAA-ATTTATAAAAT
1 ATATAATA-TTATAAAAT
9971560 ATATACTTAA
Statistics
Matches: 32, Mismatches: 5, Indels: 7
0.73 0.11 0.16
Matches are distributed among these distances:
21 1 0.03
22 13 0.41
23 7 0.22
24 11 0.34
ACGTcount: A:0.48, C:0.03, G:0.00, T:0.48
Consensus pattern (22 bp):
ATATAATATTATAAAATTATTC
Found at i:9971731 original size:35 final size:34
Alignment explanation
Indices: 9971660--9971733 Score: 105
Period size: 35 Copynumber: 2.1 Consensus size: 34
9971650 ACTTGTAATG
* *
9971660 TTTAAGTTGTTATTTGAATATTTATTTTTAGTTA
1 TTTAAGTTGATATTTGAATATTTATTTTTAGATA
9971694 TTTAAGTTGATATTTGATATATTTATTTTT-GAATA
1 TTTAAGTTGATATTTGA-ATATTTATTTTTAG-ATA
9971729 TTTAA
1 TTTAA
9971734 ATTTAAATTT
Statistics
Matches: 36, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
34 17 0.47
35 19 0.53
ACGTcount: A:0.30, C:0.00, G:0.11, T:0.59
Consensus pattern (34 bp):
TTTAAGTTGATATTTGAATATTTATTTTTAGATA
Found at i:9977775 original size:239 final size:241
Alignment explanation
Indices: 9977163--9977872 Score: 633
Period size: 239 Copynumber: 2.9 Consensus size: 241
9977153 TAAAGCTGAA
* * * * *
9977163 AGAATTAATA-TAAAAAATTAT-AAAGATGGAACAAATATCATTAAAATATTAACGT-AATGTGT
1 AGAATTAA-AGTAAAAAATTATAAAAG-TGAAAGAAACATTATTAAAATATTAACTTAAATGT-T
* * ** * * *
9977225 T-AAATTTAAC-ATAACATGTCAATTAAATAAAAATAAATATAATTTTTGTAAAAATTAAATATT
63 TCACATTTAACGA-AAAAAATCAATTAAGTCAAAATAAATATAATTTTTGTGAAAATTAAATATT
* * * **
9977288 TAAATTTATATTATTGGGCTAAAAGTATATAACA-ATTTATAAATTTTAATTTATAAAGGAATAA
127 TAAATTTATATTATTGAGTTAAAAGTAT-TAA-ATATTTA-CAATTTTAATTTATAAATAAATAA
* * *
9977352 TAATAAAGTTAAAAATAATTATAATAAAAATTAATAATTGAAAAGCTTTGATTAAACC
189 TAA-AAA--TAAAAATAATTATAATAAAAATTAAAAACTGAAAAGCTCTGATT-AA-C
* * * * *
9977410 AGGATTAAAGTAAAAAATTATAAAGGTGAAATAAACATTGTTAAAATATTAACTTAAATGTTTGA
1 AGAATTAAAGTAAAAAATTATAAAAGTGAAAGAAACATTATTAAAATATTAACTTAAATGTTTCA
9977475 CATTTAACGAAAAAAATCAATTAAGTCAAAATAAATATAATTTTTGTGAAAATCT-AATATTTAA
66 CATTTAACGAAAAAAATCAATTAAGTCAAAATAAATATAATTTTTGTGAAAAT-TAAATATTTAA
*
9977539 ATTTATATTATTGAGTTAAAAGTATTAAATGATTTACAGATTTTAATTTATAAATAAATTATAAA
130 ATTTATATTATTGAGTTAAAAGTATTAAAT-ATTTACA-ATTTTAATTTATAAATAAATAATAAA
* *
9977604 AATAAAAATAATTATAGTAAAAATTAAAAACTGAAAA-ATCCT-A-T-A-
193 AATAAAAATAATTATAATAAAAATTAAAAACTGAAAAGCT-CTGATTAAC
** * ** * *
9977649 AGAATTAACTTAAAAAATTATAAAAGTGGAAGAAGTATTATTAAAGTATTGA-TGTAAAT-TTGT
1 AGAATTAAAGTAAAAAATTATAAAAGTGAAAGAAACATTATTAAAATATTAACT-TAAATGTT-T
* * * * *
9977712 CAGATTTAAAC-TAATAAAT-AAGTTAAGTCAAAATAAATATATTTTTTGTGAATATTAAATATT
64 CACATTT-AACGAAAAAAATCAA-TTAAGTCAAAATAAATATAATTTTTGTGAAAATTAAATATT
* * ** * * *
9977775 TATAGTTATATTATAAAGTTAAAAGTTTTGAATAGTTTACAATATTTAATATATAAATGCATAAT
127 TAAATTTATATTATTGAGTTAAAAGTATTAAATA-TTTACAAT-TTTAATTTATAAAT--A-AAT
* * *
9977840 AATAAATATAAAAATAATTATAATGATAATTAA
187 AATAAAAATAAAAATAATTATAATAAAAATTAA
9977873 TAATTAAAAA
Statistics
Matches: 388, Mismatches: 55, Indels: 45
0.80 0.11 0.09
Matches are distributed among these distances:
238 9 0.02
239 141 0.36
240 3 0.01
241 2 0.01
242 31 0.08
243 1 0.00
244 2 0.01
245 33 0.09
246 2 0.01
247 50 0.13
248 112 0.29
249 2 0.01
ACGTcount: A:0.51, C:0.04, G:0.09, T:0.36
Consensus pattern (241 bp):
AGAATTAAAGTAAAAAATTATAAAAGTGAAAGAAACATTATTAAAATATTAACTTAAATGTTTCA
CATTTAACGAAAAAAATCAATTAAGTCAAAATAAATATAATTTTTGTGAAAATTAAATATTTAAA
TTTATATTATTGAGTTAAAAGTATTAAATATTTACAATTTTAATTTATAAATAAATAATAAAAAT
AAAAATAATTATAATAAAAATTAAAAACTGAAAAGCTCTGATTAAC
Found at i:9977841 original size:763 final size:762
Alignment explanation
Indices: 9976449--9977876 Score: 1647
Period size: 763 Copynumber: 1.9 Consensus size: 762
9976439 TATTGAAACA
* * * *
9976449 AATGTGTAAGATTTAATATAACAAGTCAATATAGTTAAAATAAATCTAAATTTTGTGAAAAATAA
1 AATGTGTAAGATTTAACATAACAAGTCAATATAATAAAAATAAATATAAATTTTGTGAAAAATAA
* * * *
9976514 ATATTTAAATTTATATGCTACAGCTAAAAATATTTAACGATTTACAATTTTTAATTTATAAAGAA
66 ATATTTAAATTTATATGATACAGCTAAAAATATATAACAATTTACAAATTTTAATTTATAAAGAA
* * * * *
9976579 ATAATAATTAAGATAAAAATGATTATAATGAAAATTAGTAATTGTAAGACCTTACAAAAAACTTA
131 ATAATAATAAAGATAAAAATAATTATAATAAAAATTAATAATTGTAAAACCTTACAAAAAAC---
* **
9976644 TAAAAATTAATGTAAAAGAATTATAAAGGCCAAATAAGTATTATTAAAATATTAATATAAATGTT
193 TAAAAATTAAAGTAAAAGAATTATAAAGGCCAAATAAACATTATTAAAATATTAATATAAATGTT
* * * * *
9976709 TGAGATTTAACATAACAAGTTAATTAAGTCAAAATAAATTTAATTTGTGTAAAAAATAAATATTT
258 TGACATTTAACATAAAAAATCAATTAAGTCAAAATAAATATAATTTGTGTAAAAAATAAATATTT
* * *
9976774 AAATTTATATTCTTGAGTCAAAATTATTTAACAAGTTACAAATTTTAATTTATAAATGTATAATA
323 AAATTTATATTATTGAGTCAAAAGTATTAAACAAGTTACAAATTTTAATTTATAAA-GTATAATA
* * * * *
9976839 ATAAAGATAAGATAATTATAGTAAAAATTAACATTGAAAACCTTAACATAAGTAGTAAAATTAAT
387 ATAAAAATAAAATAATTATAGTAAAAATTAAAACTGAAAACCTT-A-ATAAGTAATAAAATTAA-
* * *
9976904 GTAAAATTTATAAAAATGGAACAAGTATTGTTAAAATAGTGATGTAAATAGGAGATTTAACGTAA
449 -TAAAATTTATAAAAATGGAACAAGTATTATTAAAATAGTGATGTAAATAGCAGATTTAACATAA
* * **
9976969 CAAATCAAAATAAATATAACTTTTATAAAAATTAAACATTTAAATTTATATTATCGAGTTAAAAG
513 AAAATCAAAATAAATATAACTTTTATAAAAATTAAACATTTAAAGTTATATTATAAAGTTAAAAG
* * *
9977034 TATTTAAAGGTTTATAAATTTTAATTTATAAATG-AATAATAATAAAAAGAAAAATAATTATAAT
578 TATTTAAAGGTTTACAAATTTTAATATATAAATGAAATAATAATAAATAGAAAAATAATTATAAT
9977098 GACAATTAATAATGGAAAAACTTTTTTTAAAAGTAACAATTGAAAAACTTTAATCTAAAGCTGAA
643 GACAATTAATAATGGAAAAACTTTTTTTAAAAGTAACAATTGAAAAACTTTAATCTAAAGCTGAA
9977163 AGAATTAATATAAAAAATTATAAAGATGGAACAAATATCATTAAAATATTAACGT
708 AGAATTAATATAAAAAATTATAAAGATGGAACAAATATCATTAAAATATTAACGT
* *
9977218 AATGTGTTAA-ATTTAACATAACATGTCAAT-TAAATAAAAATAAATATAATTTTTGT-AAAAAT
1 AATGTG-TAAGATTTAACATAACAAGTCAATAT-AATAAAAATAAATATAAATTTTGTGAAAAA-
* *** * *
9977280 TAAATATTTAAATTTATATTATTGGGCTAAAAGTATATAACAATTTATAAATTTTAATTTATAAA
63 TAAATATTTAAATTTATATGATACAGCTAAAAATATATAACAATTTACAAATTTTAATTTATAAA
* * * ** **
9977345 GGAATAATAATAAAGTTAAAAATAATTATAATAAAAATTAATAATTG-AAAAGCTTTGATTAAAC
128 GAAATAATAATAAAGATAAAAATAATTATAATAAAAATTAATAATTGTAAAACCTTACAAAAAAC
* ** ** *
9977409 -CAGGATTAAAGTAAAA-AATTATAAAGGTGAAATAAACATTGTTAAAATATTAACT-TAAATGT
193 TAAAAATTAAAGTAAAAGAATTATAAAGGCCAAATAAACATTATTAAAATATTAA-TATAAATGT
* * *
9977471 TTGACATTTAACGA-AAAAAATCAATTAAGTCAAAATAAATATAATTTTTGT-GAAAATCTAATA
257 TTGACATTTAAC-ATAAAAAATCAATTAAGTCAAAATAAATATAATTTGTGTAAAAAAT-AAATA
* ** * *
9977534 TTTAAATTTATATTATTGAGTTAAAAGTATTAAATGATTTACAGATTTTAATTTATAAA-TA-AA
320 TTTAAATTTATATTATTGAGTCAAAAGTATTAAACAAGTTACAAATTTTAATTTATAAAGTATAA
* * *
9977597 TTATAAAAATAAAAATAATTATAGTAAAAATTAAAAACTGAAAAATCC-T-ATAAG-AATTAACT
385 TAATAAAAAT-AAAATAATTATAGTAAAAATT-AAAACTG-AAAA-CCTTAATAAGTAATAAAAT
* * * * *
9977659 TAA-AAAA-TTATAAAAGTGGAAGAAGTATTATTAAAGTATTGATGTAAATTTGTCAGATTTAAA
446 TAATAAAATTTATAAAAATGGAACAAGTATTATTAAAATAGTGATGTAAA-TAG-CAGATTT-AA
** * * * * *
9977722 CTAATAAATAAGTTAAGTCAAAATAAATATATTTTTTGTGAATATTAAATATTTATAGTTATATT
508 C--AT-AA-AA---AA-TCAAAATAAATATAACTTTTATAAAAATTAAACATTTAAAGTTATATT
*
9977787 ATAAAGTTAAAAGT-TTTGAATA-GTTTAC-AATATTTAATATATAAATG-CATAATAATAAATA
565 ATAAAGTTAAAAGTATTT-AA-AGGTTTACAAAT-TTTAATATATAAATGAAATAATAATAAATA
* *
9977848 TAAAAATAATTATAATGATAATTAATAAT
627 GAAAAATAATTATAATGACAATTAATAAT
9977877 TAAAAAAATT
Statistics
Matches: 549, Mismatches: 86, Indels: 51
0.80 0.13 0.07
Matches are distributed among these distances:
755 36 0.07
756 6 0.01
757 6 0.01
758 3 0.01
759 8 0.01
760 16 0.03
761 24 0.04
762 11 0.02
763 142 0.26
764 16 0.03
765 8 0.01
766 112 0.20
767 1 0.00
768 17 0.03
769 140 0.26
770 3 0.01
ACGTcount: A:0.51, C:0.05, G:0.09, T:0.36
Consensus pattern (762 bp):
AATGTGTAAGATTTAACATAACAAGTCAATATAATAAAAATAAATATAAATTTTGTGAAAAATAA
ATATTTAAATTTATATGATACAGCTAAAAATATATAACAATTTACAAATTTTAATTTATAAAGAA
ATAATAATAAAGATAAAAATAATTATAATAAAAATTAATAATTGTAAAACCTTACAAAAAACTAA
AAATTAAAGTAAAAGAATTATAAAGGCCAAATAAACATTATTAAAATATTAATATAAATGTTTGA
CATTTAACATAAAAAATCAATTAAGTCAAAATAAATATAATTTGTGTAAAAAATAAATATTTAAA
TTTATATTATTGAGTCAAAAGTATTAAACAAGTTACAAATTTTAATTTATAAAGTATAATAATAA
AAATAAAATAATTATAGTAAAAATTAAAACTGAAAACCTTAATAAGTAATAAAATTAATAAAATT
TATAAAAATGGAACAAGTATTATTAAAATAGTGATGTAAATAGCAGATTTAACATAAAAAATCAA
AATAAATATAACTTTTATAAAAATTAAACATTTAAAGTTATATTATAAAGTTAAAAGTATTTAAA
GGTTTACAAATTTTAATATATAAATGAAATAATAATAAATAGAAAAATAATTATAATGACAATTA
ATAATGGAAAAACTTTTTTTAAAAGTAACAATTGAAAAACTTTAATCTAAAGCTGAAAGAATTAA
TATAAAAAATTATAAAGATGGAACAAATATCATTAAAATATTAACGT
Found at i:9977884 original size:31 final size:33
Alignment explanation
Indices: 9977821--9977885 Score: 82
Period size: 31 Copynumber: 2.0 Consensus size: 33
9977811 TTACAATATT
*
9977821 TAATATATAAATGCATAATAATAAATATAAAAA
1 TAATATATAAATGCATAATAATAAATAAAAAAA
*
9977854 TAAT-TAT-AATG-ATAATTAATAATTAAAAAAA
1 TAATATATAAATGCATAA-TAATAAATAAAAAAA
9977885 T
1 T
9977886 TTGATTGTAA
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
30 4 0.14
31 18 0.62
32 3 0.10
33 4 0.14
ACGTcount: A:0.62, C:0.02, G:0.03, T:0.34
Consensus pattern (33 bp):
TAATATATAAATGCATAATAATAAATAAAAAAA
Found at i:9978084 original size:23 final size:23
Alignment explanation
Indices: 9978048--9978092 Score: 74
Period size: 24 Copynumber: 2.0 Consensus size: 23
9978038 TATTTGTATA
9978048 TTTTAAAATAAAAATAAAATAATT
1 TTTTAAAATAAAAAT-AAATAATT
9978072 TTTTAAAAT-AAAATAAATAAT
1 TTTTAAAATAAAAATAAATAAT
9978093 CTTAAAATTT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
22 7 0.33
23 5 0.24
24 9 0.43
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (23 bp):
TTTTAAAATAAAAATAAATAATT
Found at i:9978117 original size:39 final size:39
Alignment explanation
Indices: 9978074--9978150 Score: 104
Period size: 39 Copynumber: 2.0 Consensus size: 39
9978064 AAATAATTTT
* *
9978074 TTAAAATAAAAT-AAATAA-TCTTAAAATTTATCTATATTG
1 TTAAAATAAAATGAAA-AAGT-TTAAAAATTAACTATATTG
9978113 TTAAAATAAAATGAAAAAGTTTAAAAATTAACTATATT
1 TTAAAATAAAATGAAAAAGTTTAAAAATTAACTATATT
9978151 ATTTAACTCT
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
39 30 0.88
40 4 0.12
ACGTcount: A:0.55, C:0.04, G:0.04, T:0.38
Consensus pattern (39 bp):
TTAAAATAAAATGAAAAAGTTTAAAAATTAACTATATTG
Found at i:9984860 original size:2 final size:2
Alignment explanation
Indices: 9984855--9984884 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
9984845 TCTCCTTTGG
9984855 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
9984885 TGGGTAATGT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
CT
Found at i:9997590 original size:22 final size:22
Alignment explanation
Indices: 9997565--9997614 Score: 66
Period size: 22 Copynumber: 2.3 Consensus size: 22
9997555 ACATCATTGC
*
9997565 TAATGACATGCATAT-TTTATTA
1 TAATAACATGCATATCTTT-TTA
*
9997587 TAATAATATGCATATCTTTTTA
1 TAATAACATGCATATCTTTTTA
9997609 TAATAA
1 TAATAA
9997615 TATACAGACA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
22 22 0.88
23 3 0.12
ACGTcount: A:0.40, C:0.08, G:0.06, T:0.46
Consensus pattern (22 bp):
TAATAACATGCATATCTTTTTA
Found at i:9997615 original size:22 final size:22
Alignment explanation
Indices: 9997572--9997617 Score: 76
Period size: 22 Copynumber: 2.1 Consensus size: 22
9997562 TGCTAATGAC
9997572 ATGCATATTTTATTATAATAAT
1 ATGCATATTTTATTATAATAAT
9997594 ATGCATATCTTT-TTATAATAAT
1 ATGCATAT-TTTATTATAATAAT
9997616 AT
1 AT
9997618 ACAGACAATA
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
22 20 0.87
23 3 0.13
ACGTcount: A:0.39, C:0.07, G:0.04, T:0.50
Consensus pattern (22 bp):
ATGCATATTTTATTATAATAAT
Found at i:10008783 original size:3 final size:3
Alignment explanation
Indices: 10008775--10008802 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
10008765 TACTAATATA
10008775 AAT AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT A
10008803 TAAAATAGTT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:10019712 original size:1 final size:1
Alignment explanation
Indices: 10019706--10019736 Score: 53
Period size: 1 Copynumber: 31.0 Consensus size: 1
10019696 GAGATGTAAC
*
10019706 AAAAAAAAAAAAAAAAAAAANAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
10019737 TCCAGATTTA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
1 28 1.00
ACGTcount: A:0.97, C:0.00, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:10021116 original size:90 final size:90
Alignment explanation
Indices: 10020963--10021138 Score: 309
Period size: 90 Copynumber: 2.0 Consensus size: 90
10020953 TTGCTTTTTA
10020963 TATCTGATGAACTGAACTGCATCTTGAACGGTTTTTGACTAAAAACTGTAATTCTTGGATCAACC
1 TATCTGATGAACTGAACTGCATCTTGAACGGTTTTTGACTAAAAACTGTAATTCTTGGATCAACC
10021028 AGTTTTAT-ATGCTTGCAAACTATGG
66 AGTTTTATGAT-CTTGCAAACTATGG
* *
10021053 TATCTGATGAACTGAACTGGATCTTGAATGGTTTTTGACTAAAAACTGTAATTCTTGGATCAACC
1 TATCTGATGAACTGAACTGCATCTTGAACGGTTTTTGACTAAAAACTGTAATTCTTGGATCAACC
*
10021118 AGTTTTATGCTCTTGCAAACT
66 AGTTTTATGATCTTGCAAACT
10021139 CTGGACTTTC
Statistics
Matches: 82, Mismatches: 3, Indels: 2
0.94 0.03 0.02
Matches are distributed among these distances:
90 81 0.99
91 1 0.01
ACGTcount: A:0.30, C:0.16, G:0.18, T:0.36
Consensus pattern (90 bp):
TATCTGATGAACTGAACTGCATCTTGAACGGTTTTTGACTAAAAACTGTAATTCTTGGATCAACC
AGTTTTATGATCTTGCAAACTATGG
Found at i:10034475 original size:6 final size:6
Alignment explanation
Indices: 10034464--10034488 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
10034454 TCGCCCACCA
10034464 TCCCAC TCCCAC TCCCAC TCCCAC T
1 TCCCAC TCCCAC TCCCAC TCCCAC T
10034489 GCTTCTCTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.16, C:0.64, G:0.00, T:0.20
Consensus pattern (6 bp):
TCCCAC
Found at i:10036000 original size:15 final size:17
Alignment explanation
Indices: 10035975--10036011 Score: 51
Period size: 15 Copynumber: 2.3 Consensus size: 17
10035965 ACGTGGTAGA
10035975 TCAAGAAAAAAACTTT-
1 TCAAGAAAAAAACTTTG
*
10035991 TCAA-AAAAAATCTTTG
1 TCAAGAAAAAAACTTTG
10036007 TCAAG
1 TCAAG
10036012 TCATAAAGAT
Statistics
Matches: 18, Mismatches: 1, Indels: 3
0.82 0.05 0.14
Matches are distributed among these distances:
15 10 0.56
16 8 0.44
ACGTcount: A:0.51, C:0.14, G:0.08, T:0.27
Consensus pattern (17 bp):
TCAAGAAAAAAACTTTG
Found at i:10038942 original size:108 final size:108
Alignment explanation
Indices: 10038721--10038926 Score: 288
Period size: 108 Copynumber: 1.9 Consensus size: 108
10038711 CTAAATATGT
* * * * *
10038721 TGATTTAGTTACAACTTTCACAATTTACAAATATACATTCTTTTGAAGTTATTCAACTCTTACCC
1 TGATTTAATTACAACTTTCACAATTTACAAATACACATTCTTCTGAAATTATTCAACTCTAACCC
* * * *
10038786 AATTTACTTTTTATTTAAATTTACTCAAATTAGCAAAATATAC
66 AACTTACTATTCATTTAAATTTACTAAAATTAGCAAAATATAC
*
10038829 TGATTTAATTACAACTTTCACAATTTACAAATACACTTTCTTCTGAAATTATTCAACTCTAACCC
1 TGATTTAATTACAACTTTCACAATTTACAAATACACATTCTTCTGAAATTATTCAACTCTAACCC
10038894 AAACTTA-TCATTCATTTAAATTTACTTAAAATT
66 -AACTTACT-ATTCATTTAAATTTAC-TAAAATT
10038927 TCTTATAAAA
Statistics
Matches: 85, Mismatches: 10, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
108 60 0.71
109 19 0.22
110 6 0.07
ACGTcount: A:0.37, C:0.18, G:0.03, T:0.42
Consensus pattern (108 bp):
TGATTTAATTACAACTTTCACAATTTACAAATACACATTCTTCTGAAATTATTCAACTCTAACCC
AACTTACTATTCATTTAAATTTACTAAAATTAGCAAAATATAC
Found at i:10039331 original size:33 final size:33
Alignment explanation
Indices: 10039292--10039354 Score: 81
Period size: 33 Copynumber: 1.9 Consensus size: 33
10039282 GGTGATGCCG
* * * *
10039292 TGTGGCACTTACATGCTGACGTGTCAGTGATGA
1 TGTGGCAATGACATGCTGACATGGCAGTGATGA
*
10039325 TGTGGCAATGACATGTTGACATGGCAGTGA
1 TGTGGCAATGACATGCTGACATGGCAGTGA
10039355 CACGTTGACA
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
33 25 1.00
ACGTcount: A:0.24, C:0.16, G:0.32, T:0.29
Consensus pattern (33 bp):
TGTGGCAATGACATGCTGACATGGCAGTGATGA
Found at i:10039355 original size:19 final size:19
Alignment explanation
Indices: 10039327--10039378 Score: 68
Period size: 19 Copynumber: 2.7 Consensus size: 19
10039317 AGTGATGATG
* *
10039327 TGGCAATGACATGTTGACA
1 TGGCAGTGACACGTTGACA
10039346 TGGCAGTGACACGTTGACA
1 TGGCAGTGACACGTTGACA
* *
10039365 TGTCAGTGCCACGT
1 TGGCAGTGACACGT
10039379 GGTAAATAAA
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
19 29 1.00
ACGTcount: A:0.25, C:0.21, G:0.29, T:0.25
Consensus pattern (19 bp):
TGGCAGTGACACGTTGACA
Found at i:10040042 original size:31 final size:31
Alignment explanation
Indices: 10040001--10040080 Score: 92
Period size: 31 Copynumber: 2.6 Consensus size: 31
10039991 TTTTTCAAAT
* * *
10040001 ATTTTTTTCAATTTAGTCTCTCA-AC-ATCTCA
1 ATTTTGTTCAATTTAGTCTAT-ATACTATAT-A
10040032 ATTTTGTTCAATTTAGTCTATATACTATATA
1 ATTTTGTTCAATTTAGTCTATATACTATATA
*
10040063 TTTTTGTTCAATTTAGTC
1 ATTTTGTTCAATTTAGTC
10040081 CCTATGACAT
Statistics
Matches: 43, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
30 1 0.02
31 39 0.91
32 3 0.07
ACGTcount: A:0.26, C:0.15, G:0.06, T:0.53
Consensus pattern (31 bp):
ATTTTGTTCAATTTAGTCTATATACTATATA
Found at i:10055225 original size:6 final size:7
Alignment explanation
Indices: 10055208--10055237 Score: 51
Period size: 7 Copynumber: 4.1 Consensus size: 7
10055198 GTCATTTATT
10055208 TTTTTTA
1 TTTTTTA
10055215 TTTTTTA
1 TTTTTTA
10055222 TTTTTTA
1 TTTTTTA
10055229 TTTTGTTA
1 TTTT-TTA
10055237 T
1 T
10055238 CCAGGGTGAA
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
7 18 0.82
8 4 0.18
ACGTcount: A:0.13, C:0.00, G:0.03, T:0.83
Consensus pattern (7 bp):
TTTTTTA
Found at i:10065599 original size:20 final size:21
Alignment explanation
Indices: 10065546--10065601 Score: 62
Period size: 20 Copynumber: 2.7 Consensus size: 21
10065536 TATATTTATT
10065546 TATTTTAATTTGGAATTAATAAA
1 TATTTTAATTT--AATTAATAAA
* *
10065569 -ATTATATTTTAATT-ATAAA
1 TATTTTAATTTAATTAATAAA
10065588 TATTTTAATTTAAT
1 TATTTTAATTTAAT
10065602 CGTGTATTAA
Statistics
Matches: 28, Mismatches: 4, Indels: 5
0.76 0.11 0.14
Matches are distributed among these distances:
19 5 0.18
20 15 0.54
22 8 0.29
ACGTcount: A:0.43, C:0.00, G:0.04, T:0.54
Consensus pattern (21 bp):
TATTTTAATTTAATTAATAAA
Found at i:10073538 original size:18 final size:17
Alignment explanation
Indices: 10073498--10073555 Score: 59
Period size: 18 Copynumber: 3.5 Consensus size: 17
10073488 TAAATTTTAG
* *
10073498 TTATTTTATTATTATTA
1 TTATTTTATAATAATTA
10073515 TATATTTATATAATAATTA
1 T-TATTT-TATAATAATTA
10073534 TTATTTT-T-ATAATTA
1 TTATTTTATAATAATTA
10073549 TT-TTTTA
1 TTATTTTA
10073556 ACTATCCGTC
Statistics
Matches: 36, Mismatches: 2, Indels: 8
0.78 0.04 0.17
Matches are distributed among these distances:
14 4 0.11
15 9 0.25
16 1 0.03
17 2 0.06
18 10 0.28
19 10 0.28
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (17 bp):
TTATTTTATAATAATTA
Found at i:10080741 original size:9 final size:9
Alignment explanation
Indices: 10080721--10080759 Score: 51
Period size: 9 Copynumber: 4.3 Consensus size: 9
10080711 ACACGATTAA
*
10080721 TAACACGTT
1 TAACACGAT
*
10080730 TAACATGAT
1 TAACACGAT
*
10080739 TAACACGTT
1 TAACACGAT
10080748 TAACACGAT
1 TAACACGAT
10080757 TAA
1 TAA
10080760 ATAAAAATAT
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
9 25 1.00
ACGTcount: A:0.41, C:0.18, G:0.10, T:0.31
Consensus pattern (9 bp):
TAACACGAT
Found at i:10080744 original size:18 final size:18
Alignment explanation
Indices: 10080721--10080759 Score: 69
Period size: 18 Copynumber: 2.2 Consensus size: 18
10080711 ACACGATTAA
*
10080721 TAACACGTTTAACATGAT
1 TAACACGTTTAACACGAT
10080739 TAACACGTTTAACACGAT
1 TAACACGTTTAACACGAT
10080757 TAA
1 TAA
10080760 ATAAAAATAT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.41, C:0.18, G:0.10, T:0.31
Consensus pattern (18 bp):
TAACACGTTTAACACGAT
Found at i:10085547 original size:105 final size:104
Alignment explanation
Indices: 10085354--10085548 Score: 266
Period size: 105 Copynumber: 1.9 Consensus size: 104
10085344 TTTTAAAATA
* * ** *
10085354 TTATACCATTTTAAAATGACACACCATTGAAACTTTTTACGGTATTTATAAAAGCCAAAGTGACA
1 TTATACAATTTGAAAATGACACACCATTGAAACTTTTTACAATATTTATAAAAGCAAAAGTGACA
10085419 GACGCATTTAGCCATATTAAGTAATTTTTTTTTAAAGCG
66 GACGCATTTAGCCATATTAAGTAATTTTTTTTTAAAGCG
* *
10085458 TTATACAATTTGAAAATGACACGCCATTGAAAGCTTTTTACAATATTTATCACAA-CAAAAGTGA
1 TTATACAATTTGAAAATGACACACCATTGAAA-CTTTTTACAATATTTAT-AAAAGCAAAAGTGA
* * * *
10085522 CAGATGCATTTAGTCATGTTGAGTAAT
64 CAGACGCATTTAGCCATATTAAGTAAT
10085549 GTTTGAATAA
Statistics
Matches: 78, Mismatches: 11, Indels: 3
0.85 0.12 0.03
Matches are distributed among these distances:
104 29 0.37
105 46 0.59
106 3 0.04
ACGTcount: A:0.37, C:0.15, G:0.13, T:0.34
Consensus pattern (104 bp):
TTATACAATTTGAAAATGACACACCATTGAAACTTTTTACAATATTTATAAAAGCAAAAGTGACA
GACGCATTTAGCCATATTAAGTAATTTTTTTTTAAAGCG
Found at i:10089479 original size:18 final size:18
Alignment explanation
Indices: 10089440--10089480 Score: 55
Period size: 18 Copynumber: 2.3 Consensus size: 18
10089430 TATTTACACG
* * *
10089440 ATTAATATGATTGATACG
1 ATTAATATGATTAAAACA
10089458 ATTAATATGATTAAAACA
1 ATTAATATGATTAAAACA
10089476 ATTAA
1 ATTAA
10089481 ACTAAAATAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.49, C:0.05, G:0.10, T:0.37
Consensus pattern (18 bp):
ATTAATATGATTAAAACA
Found at i:10089622 original size:18 final size:17
Alignment explanation
Indices: 10089576--10089623 Score: 51
Period size: 18 Copynumber: 2.7 Consensus size: 17
10089566 TAAAATTCAA
*
10089576 TATCTATAAATCTTAAT
1 TATCTATAAATATTAAT
*
10089593 TATCATAAAAATATTAAT
1 TATC-TATAAATATTAAT
*
10089611 ATTTCTATAAATA
1 -TATCTATAAATA
10089624 AATAAATAAG
Statistics
Matches: 25, Mismatches: 4, Indels: 3
0.78 0.12 0.09
Matches are distributed among these distances:
17 4 0.16
18 18 0.72
19 3 0.12
ACGTcount: A:0.48, C:0.08, G:0.00, T:0.44
Consensus pattern (17 bp):
TATCTATAAATATTAAT
Found at i:10094436 original size:17 final size:20
Alignment explanation
Indices: 10094416--10094455 Score: 59
Period size: 17 Copynumber: 2.1 Consensus size: 20
10094406 GTTATTTTAC
10094416 ATTAAAAAT-T-ATG-GAAA
1 ATTAAAAATGTAATGAGAAA
10094433 ATTAAAAATGTAATGAGAAA
1 ATTAAAAATGTAATGAGAAA
10094453 ATT
1 ATT
10094456 CTATTAATAA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
17 9 0.45
18 1 0.05
19 3 0.15
20 7 0.35
ACGTcount: A:0.57, C:0.00, G:0.12, T:0.30
Consensus pattern (20 bp):
ATTAAAAATGTAATGAGAAA
Found at i:10094572 original size:21 final size:21
Alignment explanation
Indices: 10094548--10094597 Score: 52
Period size: 19 Copynumber: 2.4 Consensus size: 21
10094538 TGAATTTCAC
*
10094548 TATTTAAATATAA-AAATTATA
1 TATTT-AATATAATAAATTACA
10094569 TA-TTAAT-TAATAAATTACA
1 TATTTAATATAATAAATTACA
10094588 TATTTTAATA
1 TA-TTTAATA
10094598 ATATATTTAT
Statistics
Matches: 24, Mismatches: 1, Indels: 7
0.75 0.03 0.22
Matches are distributed among these distances:
18 3 0.12
19 12 0.50
20 2 0.08
21 7 0.29
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.46
Consensus pattern (21 bp):
TATTTAATATAATAAATTACA
Found at i:10094616 original size:2 final size:2
Alignment explanation
Indices: 10094611--10094650 Score: 71
Period size: 2 Copynumber: 20.0 Consensus size: 2
10094601 TATTTATGTG
*
10094611 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TT TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
10094651 AATAGTAAGT
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (2 bp):
TA
Found at i:10095491 original size:22 final size:21
Alignment explanation
Indices: 10095450--10095492 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 21
10095440 ATTTTTTTAT
*
10095450 TTTTTAAAAATATAATAATAA
1 TTTTTAAAAATATAAAAATAA
10095471 TTTTTAAATTAATA-AAAAATAA
1 TTTTTAAA--AATATAAAAATAA
10095493 AAAAAATATT
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
21 8 0.42
22 7 0.37
23 4 0.21
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (21 bp):
TTTTTAAAAATATAAAAATAA
Found at i:10095504 original size:29 final size:29
Alignment explanation
Indices: 10095454--10095509 Score: 69
Period size: 29 Copynumber: 1.9 Consensus size: 29
10095444 TTTTATTTTT
* *
10095454 TAAAAATATAATAATAATTTTTAAATTAA
1 TAAAAATATAAAAAAAATTTTTAAATTAA
*
10095483 TAAAAA-ATAAAAAAAATATTTTTAATT
1 TAAAAATATAAAAAAAAT-TTTTAAATT
10095510 TTTCATTATT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
28 9 0.39
29 14 0.61
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (29 bp):
TAAAAATATAAAAAAAATTTTTAAATTAA
Found at i:10097271 original size:275 final size:274
Alignment explanation
Indices: 10096780--10097325 Score: 1042
Period size: 275 Copynumber: 2.0 Consensus size: 274
10096770 TTAATTAGTA
10096780 AAAAACTTCTCTCTATATATATATATATATATATAATATAAAAAAATTAAATAGTAGCATAAGTG
1 AAAAACTTCTCTCTATATATATATATATATATATAATATAAAAAAATTAAATAGTAGCATAAGTG
10096845 AGATGGGGCAACCATAAAACGCAACTCCCCCGGGTTGGGGGCGGATCGGTGTAGAATGGGAGCAG
66 AGATGGGGCAACCATAAAACGCAACTCCCCCGGGTTGGGGGCGGATCGGTGTAGAATGGGAGCAG
10096910 CTGGGGTTTTGCCATCTCCATATGTAAGTTTGGTGCATCCCTGAGCAGTTGGGTAGATTTAATGG
131 CTGGGGTTTTGCCATCTCCATATGTAAGTTTGGTGCATCCCTGAGCAGTTGGGTAGATTTAATGG
10096975 GGAATTATTATTATTGTTATTATTATTTTTTGTTCTTTTTGGGGTATAGGTTATAATGGGGATGT
196 GGAATTATTATTATTGTTATTATTATTTTTTGTTCTTTTTGGGGTATAGGTTATAATGGGGATGT
10097040 TGATACCTTTNAAGT
261 TGATACCTTT-AAGT
*
10097055 AAAAACTTAACTCTCTATATATATATATATATATA-AGTATAAAAAAA-TAAATAGTAGCATAAG
1 AAAAACTT--CTCTCTATATATATATATATATATATAATATAAAAAAATTAAATAGTAGCATAAG
10097118 TGAGATGGGGCAACCATAAAACGCAACTCCCCCGGGTTGGGGGCGGATCGGTGTAGAATGGGAGC
64 TGAGATGGGGCAACCATAAAACGCAACTCCCCCGGGTTGGGGGCGGATCGGTGTAGAATGGGAGC
10097183 AGCTGGGGTTTTGCCATCTCCATATGTAAGTTTGGTGCATCCCTGAGCAGTTGGGTAGATTTAAT
129 AGCTGGGGTTTTGCCATCTCCATATGTAAGTTTGGTGCATCCCTGAGCAGTTGGGTAGATTTAAT
10097248 GGGGAATTATTATTATTGTTATTATTATTTTTTGTTCTTTTTGGGGTATAGGTTATAATGGGGAT
194 GGGGAATTATTATTATTGTTATTATTATTTTTTGTTCTTTTTGGGGTATAGGTTATAATGGGGAT
10097313 GTTGATACCTTTA
259 GTTGATACCTTTA
10097326 CCATTCAACT
Statistics
Matches: 268, Mismatches: 1, Indels: 5
0.98 0.00 0.02
Matches are distributed among these distances:
274 1 0.00
275 231 0.86
276 11 0.04
277 25 0.09
ACGTcount: A:0.29, C:0.12, G:0.24, T:0.35
Consensus pattern (274 bp):
AAAAACTTCTCTCTATATATATATATATATATATAATATAAAAAAATTAAATAGTAGCATAAGTG
AGATGGGGCAACCATAAAACGCAACTCCCCCGGGTTGGGGGCGGATCGGTGTAGAATGGGAGCAG
CTGGGGTTTTGCCATCTCCATATGTAAGTTTGGTGCATCCCTGAGCAGTTGGGTAGATTTAATGG
GGAATTATTATTATTGTTATTATTATTTTTTGTTCTTTTTGGGGTATAGGTTATAATGGGGATGT
TGATACCTTTAAGT
Found at i:10105288 original size:21 final size:22
Alignment explanation
Indices: 10105263--10105303 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
10105253 CCTAGGTGGA
*
10105263 AAAATTCAAGGGAA-AAGTGTG
1 AAAATTCAAGGAAACAAGTGTG
10105284 AAAATTCAAGGAAACAAGTG
1 AAAATTCAAGGAAACAAGTG
10105304 AAAAAAAAGA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 13 0.72
22 5 0.28
ACGTcount: A:0.51, C:0.07, G:0.24, T:0.17
Consensus pattern (22 bp):
AAAATTCAAGGAAACAAGTGTG
Found at i:10105304 original size:20 final size:21
Alignment explanation
Indices: 10105263--10105307 Score: 58
Period size: 20 Copynumber: 2.2 Consensus size: 21
10105253 CCTAGGTGGA
*
10105263 AAAATTCAAGGGAAAAGTGTG
1 AAAATTCAAGGGAAAAGAGTG
10105284 AAAATTCAA-GGAAACA-AGTG
1 AAAATTCAAGGGAAA-AGAGTG
10105304 AAAA
1 AAAA
10105308 AAAAGATAAG
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
20 12 0.55
21 10 0.45
ACGTcount: A:0.56, C:0.07, G:0.22, T:0.16
Consensus pattern (21 bp):
AAAATTCAAGGGAAAAGAGTG
Found at i:10105308 original size:21 final size:20
Alignment explanation
Indices: 10105261--10105308 Score: 60
Period size: 21 Copynumber: 2.3 Consensus size: 20
10105251 ACCCTAGGTG
*
10105261 GAAAAATTCAAGGGAAAAGT
1 GAAAAATTCAAGGAAAAAGT
*
10105281 GTGAAAATTCAAGGAAACAAGT
1 G-AAAAATTCAAGGAAA-AAGT
10105303 GAAAAA
1 GAAAAA
10105309 AAAGATAAGA
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
20 1 0.04
21 17 0.74
22 5 0.22
ACGTcount: A:0.56, C:0.06, G:0.23, T:0.15
Consensus pattern (20 bp):
GAAAAATTCAAGGAAAAAGT
Found at i:10116168 original size:15 final size:16
Alignment explanation
Indices: 10116148--10116178 Score: 55
Period size: 15 Copynumber: 2.0 Consensus size: 16
10116138 CTTATGCACT
10116148 GAAAAGAAAAA-AAAA
1 GAAAAGAAAAAGAAAA
10116163 GAAAAGAAAAAGAAAA
1 GAAAAGAAAAAGAAAA
10116179 TTTCCACCAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 11 0.73
16 4 0.27
ACGTcount: A:0.84, C:0.00, G:0.16, T:0.00
Consensus pattern (16 bp):
GAAAAGAAAAAGAAAA
Found at i:10116174 original size:11 final size:10
Alignment explanation
Indices: 10116149--10116178 Score: 51
Period size: 11 Copynumber: 2.9 Consensus size: 10
10116139 TTATGCACTG
10116149 AAAAGAAAAA
1 AAAAGAAAAA
10116159 AAAAGAAAAGA
1 AAAAGAAAA-A
10116170 AAAAGAAAA
1 AAAAGAAAA
10116179 TTTCCACCAA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 9 0.47
11 10 0.53
ACGTcount: A:0.87, C:0.00, G:0.13, T:0.00
Consensus pattern (10 bp):
AAAAGAAAAA
Found at i:10116843 original size:2 final size:2
Alignment explanation
Indices: 10116831--10116874 Score: 61
Period size: 2 Copynumber: 22.0 Consensus size: 2
10116821 CAAACATGTG
* * *
10116831 CA CA CA TA CA CA CA CA TA CA CA CA CG CA CA CA CA CA CA CA CA
1 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
10116873 CA
1 CA
10116875 TACAAATATA
Statistics
Matches: 36, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.48, C:0.45, G:0.02, T:0.05
Consensus pattern (2 bp):
CA
Done.