Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01007926.1 Hibiscus syriacus cultivar Beakdansim tig00110332_pilon, whole genome shotgun sequence
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: 10075380
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 39 of 42
Found at i:8888097 original size:2 final size:2
Alignment explanation
Indices: 8888090--8888119 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
8888080 AACACATCAG
8888090 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
8888120 GAAAAATGGT
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:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:8890953 original size:3 final size:3
Alignment explanation
Indices: 8890945--8890985 Score: 82
Period size: 3 Copynumber: 13.7 Consensus size: 3
8890935 GAGTTCAAAT
8890945 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
8890986 TTTAAGAAAT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 38 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:8896764 original size:46 final size:46
Alignment explanation
Indices: 8896697--8896790 Score: 179
Period size: 46 Copynumber: 2.0 Consensus size: 46
8896687 CAAACTACTC
8896697 TAAAAAAAATCTGATTATTCATTGAAACATAAGGGATATTTTTTTA
1 TAAAAAAAATCTGATTATTCATTGAAACATAAGGGATATTTTTTTA
*
8896743 TAAAAAAAATCTGATTATTCATTGAAACATAAGGGGTATTTTTTTA
1 TAAAAAAAATCTGATTATTCATTGAAACATAAGGGATATTTTTTTA
8896789 TA
1 TA
8896791 TTATTATCAA
Statistics
Matches: 47, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
46 47 1.00
ACGTcount: A:0.43, C:0.06, G:0.12, T:0.39
Consensus pattern (46 bp):
TAAAAAAAATCTGATTATTCATTGAAACATAAGGGATATTTTTTTA
Found at i:8900047 original size:20 final size:20
Alignment explanation
Indices: 8900022--8900079 Score: 98
Period size: 20 Copynumber: 2.9 Consensus size: 20
8900012 AACAACATTC
* *
8900022 TTTTTATGATTAAGTTATTT
1 TTTTTATCATTGAGTTATTT
8900042 TTTTTATCATTGAGTTATTT
1 TTTTTATCATTGAGTTATTT
8900062 TTTTTATCATTGAGTTAT
1 TTTTTATCATTGAGTTAT
8900080 GCAAAAAGTT
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 36 1.00
ACGTcount: A:0.22, C:0.03, G:0.10, T:0.64
Consensus pattern (20 bp):
TTTTTATCATTGAGTTATTT
Found at i:8904651 original size:30 final size:30
Alignment explanation
Indices: 8904615--8904696 Score: 105
Period size: 30 Copynumber: 2.8 Consensus size: 30
8904605 TTTCATAAAA
*
8904615 TGAATTACTG-AAATTTAAATTACTAGAATT
1 TGAATTACTGTAAA-ATAAATTACTAGAATT
*
8904645 TGAATTACTGTAAAATAAATTACTGGAATT
1 TGAATTACTGTAAAATAAATTACTAGAATT
* *
8904675 TGAATT-CTGGAAAATGAATTAC
1 TGAATTACTGTAAAATAAATTAC
8904697 ATTTCTATAA
Statistics
Matches: 47, Mismatches: 4, Indels: 3
0.87 0.07 0.06
Matches are distributed among these distances:
29 14 0.30
30 30 0.64
31 3 0.06
ACGTcount: A:0.43, C:0.07, G:0.13, T:0.37
Consensus pattern (30 bp):
TGAATTACTGTAAAATAAATTACTAGAATT
Found at i:8904692 original size:14 final size:15
Alignment explanation
Indices: 8904611--8904696 Score: 68
Period size: 15 Copynumber: 5.8 Consensus size: 15
8904601 GGTTTTTCAT
8904611 AAAATGAATTACT-G
1 AAAATGAATTACTGG
* * *
8904625 AAATTTAAATTACTAG
1 AAA-ATGAATTACTGG
** *
8904641 AATTTGAATTACTGT
1 AAAATGAATTACTGG
*
8904656 AAAATAAATTACTGG
1 AAAATGAATTACTGG
**
8904671 AATTTGAATT-CTGG
1 AAAATGAATTACTGG
8904685 AAAATGAATTAC
1 AAAATGAATTAC
8904697 ATTTCTATAA
Statistics
Matches: 54, Mismatches: 15, Indels: 5
0.73 0.20 0.07
Matches are distributed among these distances:
14 15 0.28
15 36 0.67
16 3 0.06
ACGTcount: A:0.45, C:0.07, G:0.13, T:0.35
Consensus pattern (15 bp):
AAAATGAATTACTGG
Found at i:8904702 original size:20 final size:20
Alignment explanation
Indices: 8904679--8904748 Score: 122
Period size: 20 Copynumber: 3.5 Consensus size: 20
8904669 GGAATTTGAA
8904679 TTCTGGAAAATGAATTACAT
1 TTCTGGAAAATGAATTACAT
**
8904699 TTCTATAAAATGAATTACAT
1 TTCTGGAAAATGAATTACAT
8904719 TTCTGGAAAATGAATTACAT
1 TTCTGGAAAATGAATTACAT
8904739 TTCTGGAAAA
1 TTCTGGAAAA
8904749 CATCTGAAAA
Statistics
Matches: 46, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 46 1.00
ACGTcount: A:0.41, C:0.10, G:0.13, T:0.36
Consensus pattern (20 bp):
TTCTGGAAAATGAATTACAT
Found at i:8904972 original size:29 final size:27
Alignment explanation
Indices: 8904916--8904981 Score: 78
Period size: 28 Copynumber: 2.3 Consensus size: 27
8904906 TTTACTAAAA
* *
8904916 TATTATTGAAATATATAAATAATATTAT
1 TATTATT-AAATATATAAAAAAAATTAT
8904944 TCATTATTAAATATATAAAAAAAATTTAT
1 T-ATTATTAAATATATAAAAAAAA-TTAT
8904973 TATATATTA
1 TAT-TATTA
8904982 TTAAAATAAA
Statistics
Matches: 33, Mismatches: 2, Indels: 5
0.82 0.05 0.12
Matches are distributed among these distances:
28 17 0.52
29 16 0.48
ACGTcount: A:0.52, C:0.02, G:0.02, T:0.45
Consensus pattern (27 bp):
TATTATTAAATATATAAAAAAAATTAT
Found at i:8905013 original size:32 final size:33
Alignment explanation
Indices: 8904932--8905014 Score: 84
Period size: 32 Copynumber: 2.6 Consensus size: 33
8904922 TGAAATATAT
*
8904932 AAATAATATTAT-TCATTATTAAATATATAAAAA
1 AAAT-ATATTATATTATTATTAAATATATAAAAA
*
8904965 AAATTTATTATA-TATTATTAAA-ATA-AAAATA
1 AAATATATTATATTATTATTAAATATATAAAA-A
* *
8904996 TAATATCTTATATTATTAT
1 AAATATATTATATTATTAT
8905015 AATATAATTG
Statistics
Matches: 42, Mismatches: 5, Indels: 7
0.78 0.09 0.13
Matches are distributed among these distances:
30 4 0.10
31 13 0.31
32 21 0.50
33 4 0.10
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.45
Consensus pattern (33 bp):
AAATATATTATATTATTATTAAATATATAAAAA
Found at i:8905043 original size:15 final size:16
Alignment explanation
Indices: 8905005--8905063 Score: 52
Period size: 17 Copynumber: 3.7 Consensus size: 16
8904995 ATAATATCTT
8905005 ATATTATTATAATATA
1 ATATTATTATAATATA
*
8905021 ATTGATTATT-TTATATA
1 A-T-ATTATTATAATATA
*
8905038 ATATTA--AAAATATA
1 ATATTATTATAATATA
8905052 ATATATATTATA
1 ATAT-TATTATA
8905064 TTATTATAAA
Statistics
Matches: 33, Mismatches: 4, Indels: 11
0.69 0.08 0.23
Matches are distributed among these distances:
14 9 0.27
15 6 0.18
16 2 0.06
17 10 0.30
18 6 0.18
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (16 bp):
ATATTATTATAATATA
Found at i:8905056 original size:36 final size:36
Alignment explanation
Indices: 8905012--8905087 Score: 104
Period size: 36 Copynumber: 2.1 Consensus size: 36
8905002 CTTATATTAT
8905012 TATAATATA-ATTGATTATT-TTATATAATATTAA-AAA
1 TATAATATATATT-A-TATTATTATA-AATATTAATAAA
8905048 TATAATATATATTATATTATTATAAATATTAATAAA
1 TATAATATATATTATATTATTATAAATATTAATAAA
8905084 TATA
1 TATA
8905088 TTTTAAATAT
Statistics
Matches: 37, Mismatches: 0, Indels: 6
0.86 0.00 0.14
Matches are distributed among these distances:
35 12 0.32
36 22 0.59
37 3 0.08
ACGTcount: A:0.51, C:0.00, G:0.01, T:0.47
Consensus pattern (36 bp):
TATAATATATATTATATTATTATAAATATTAATAAA
Found at i:8911420 original size:28 final size:28
Alignment explanation
Indices: 8911380--8911436 Score: 105
Period size: 28 Copynumber: 2.0 Consensus size: 28
8911370 TGATATTGGA
8911380 GTTTGTTAATTGTTGGTGAATGGACTAT
1 GTTTGTTAATTGTTGGTGAATGGACTAT
*
8911408 GTTTGTTAATTGTTGGTGAATGGGCTAT
1 GTTTGTTAATTGTTGGTGAATGGACTAT
8911436 G
1 G
8911437 CACCTCATGC
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.19, C:0.04, G:0.32, T:0.46
Consensus pattern (28 bp):
GTTTGTTAATTGTTGGTGAATGGACTAT
Found at i:8913076 original size:2 final size:2
Alignment explanation
Indices: 8913069--8913097 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
8913059 TATACCTCTA
8913069 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
8913098 CACAGATTTA
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:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:8922641 original size:22 final size:22
Alignment explanation
Indices: 8922613--8922672 Score: 74
Period size: 22 Copynumber: 2.9 Consensus size: 22
8922603 AGTCGAGGGT
* *
8922613 TATACAGTGGTCCTTCGGGACA
1 TATACAGTGGTCATTCGAGACA
8922635 TATACAGTGGTCATTCGAGAC-
1 TATACAGTGGTCATTCGAGACA
8922656 -AT--AGTGGTCATTCGAGA
1 TATACAGTGGTCATTCGAGA
8922673 TAAATATTCA
Statistics
Matches: 36, Mismatches: 2, Indels: 4
0.86 0.05 0.10
Matches are distributed among these distances:
18 15 0.42
20 2 0.06
22 19 0.53
ACGTcount: A:0.27, C:0.18, G:0.27, T:0.28
Consensus pattern (22 bp):
TATACAGTGGTCATTCGAGACA
Found at i:8940343 original size:51 final size:51
Alignment explanation
Indices: 8940280--8940382 Score: 197
Period size: 51 Copynumber: 2.0 Consensus size: 51
8940270 AAGATGTTCA
8940280 TATTATTATATCTTATTAAATTTGAATTTTGGTATTTATTAATATCTCTAC
1 TATTATTATATCTTATTAAATTTGAATTTTGGTATTTATTAATATCTCTAC
*
8940331 TATTATTCTATCTTATTAAATTTGAATTTTGGTATTTATTAATATCTCTAC
1 TATTATTATATCTTATTAAATTTGAATTTTGGTATTTATTAATATCTCTAC
8940382 T
1 T
8940383 TAATAAAAAA
Statistics
Matches: 51, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
51 51 1.00
ACGTcount: A:0.30, C:0.09, G:0.06, T:0.55
Consensus pattern (51 bp):
TATTATTATATCTTATTAAATTTGAATTTTGGTATTTATTAATATCTCTAC
Found at i:8943039 original size:14 final size:14
Alignment explanation
Indices: 8943022--8943048 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
8943012 ATTATACATT
8943022 TTTCACTTTGTCTA
1 TTTCACTTTGTCTA
8943036 TTTCACTTTGTCT
1 TTTCACTTTGTCT
8943049 TCTGCAGTTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.11, C:0.22, G:0.07, T:0.59
Consensus pattern (14 bp):
TTTCACTTTGTCTA
Found at i:8943308 original size:37 final size:37
Alignment explanation
Indices: 8943235--8943309 Score: 91
Period size: 38 Copynumber: 2.0 Consensus size: 37
8943225 GTTGGAAAAT
* *
8943235 ATTTATATATTTTATTTAAAGAATTTAAATTCATAAA
1 ATTTATATATTTTATTTAAAGAATTAAAAATCATAAA
*
8943272 ATTTATATAATTTTTTTTACAA-AATTAAAAAT-ATAAA
1 ATTTATAT-ATTTTATTTA-AAGAATTAAAAATCATAAA
8943309 A
1 A
8943310 AAATGTTTAA
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
37 14 0.42
38 17 0.52
39 2 0.06
ACGTcount: A:0.49, C:0.03, G:0.01, T:0.47
Consensus pattern (37 bp):
ATTTATATATTTTATTTAAAGAATTAAAAATCATAAA
Found at i:8943931 original size:2 final size:2
Alignment explanation
Indices: 8943924--8943955 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
8943914 CAGATTATTA
8943924 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
8943956 CCTACAGACG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:8944781 original size:32 final size:32
Alignment explanation
Indices: 8944740--8944804 Score: 85
Period size: 32 Copynumber: 2.0 Consensus size: 32
8944730 TGTCCATTTT
* * **
8944740 ATTTCTTTTATAAGTTCATGTATTGATTTAAA
1 ATTTCTTTTATAAATTCAGGTATCAATTTAAA
*
8944772 ATTTGTTTTATAAATTCAGGTATCAATTTAAA
1 ATTTCTTTTATAAATTCAGGTATCAATTTAAA
8944804 A
1 A
8944805 AGCTTATCAA
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
32 28 1.00
ACGTcount: A:0.35, C:0.06, G:0.09, T:0.49
Consensus pattern (32 bp):
ATTTCTTTTATAAATTCAGGTATCAATTTAAA
Found at i:8948517 original size:6 final size:6
Alignment explanation
Indices: 8948508--8948536 Score: 58
Period size: 6 Copynumber: 4.8 Consensus size: 6
8948498 ATGCTTTCTT
8948508 CTTGGA CTTGGA CTTGGA CTTGGA CTTGG
1 CTTGGA CTTGGA CTTGGA CTTGGA CTTGG
8948537 CGTATATGGC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.14, C:0.17, G:0.34, T:0.34
Consensus pattern (6 bp):
CTTGGA
Found at i:8956999 original size:204 final size:205
Alignment explanation
Indices: 8956584--8957001 Score: 534
Period size: 204 Copynumber: 2.0 Consensus size: 205
8956574 TGAACTAGAA
*
8956584 ACCCGACCCGAAATAATAAAACAAATATTTTTATTCAATAAAAATAGTGACTTAATTGGAAAAAA
1 ACCCGACCCGAAATAATAAAACAAATATTTTTATTCAATAAAAACAGTGACTTAATTGGAAAAAA
8956649 TATATATAGAGAGAGAGGGGTATTATTGTAATTATTCCTAAATATATAAGGCAAAATTACATATT
66 TATATATA-AGAGAGAGGGGTATTATTGTAATTATTCCTAAATATATAAGGCAAAATTACATATT
* *
8956714 TTTTGGGTCGAGTCGGGTCGGGTATTTTTCACCCTAAACCAGAACTAGACCCAAATATCACACTT
130 ATTT--GTCGAGTC--GTC-GGTATTTTTCACCCTAAACCAAAACTAGACCCAAATATCACACTT
8956779 AAAAAAACCCGACCCG
190 AAAAAAACCCGACCCG
*
8956795 ACCCGACCCGAAATAAT-AAA-AAATATTTTTATTCAATAAAAACAGTTACTTAATT-GAAAAAA
1 ACCCGACCCGAAATAATAAAACAAATATTTTTATTCAATAAAAACAGTGACTTAATTGGAAAAAA
* * ** * *
8956857 -AT-TAT-ATATAGAGGGGTATTATTGTAATTATTTTTAAATATATAAGGTAAAATTATATA-TA
66 TATATATAAGAGAGAGGGGTATTATTGTAATTATTCCTAAATATATAAGGCAAAATTACATATTA
* *
8956918 TTT-TCGAGTC-T-GGTATTTTTCATCCTAAACCAAAACTCGACCCGACTTGAATATCACACTTA
131 TTTGTCGAGTCGTCGGTATTTTTCACCCTAAACCAAAACTAGACCC-A----AATATCACACTTA
* *
8956980 AAAAAA-CTGACCTG
191 AAAAAACCCGACCCG
8956994 ACCCGACC
1 ACCCGACC
8957002 AAAATAAAGT
Statistics
Matches: 188, Mismatches: 14, Indels: 22
0.84 0.06 0.10
Matches are distributed among these distances:
195 29 0.15
196 1 0.01
197 1 0.01
199 14 0.07
200 26 0.14
203 4 0.02
204 48 0.26
206 3 0.02
207 2 0.01
208 7 0.04
209 33 0.18
210 3 0.02
211 17 0.09
ACGTcount: A:0.41, C:0.16, G:0.13, T:0.30
Consensus pattern (205 bp):
ACCCGACCCGAAATAATAAAACAAATATTTTTATTCAATAAAAACAGTGACTTAATTGGAAAAAA
TATATATAAGAGAGAGGGGTATTATTGTAATTATTCCTAAATATATAAGGCAAAATTACATATTA
TTTGTCGAGTCGTCGGTATTTTTCACCCTAAACCAAAACTAGACCCAAATATCACACTTAAAAAA
ACCCGACCCG
Found at i:8963061 original size:29 final size:29
Alignment explanation
Indices: 8963026--8963107 Score: 137
Period size: 29 Copynumber: 2.8 Consensus size: 29
8963016 AAACTAAATT
*
8963026 GATGTCATTACTTACATCATTTAATTAAA
1 GATGTCATTGCTTACATCATTTAATTAAA
*
8963055 GATGTCATTGCTTACATCATTTAATTAAT
1 GATGTCATTGCTTACATCATTTAATTAAA
8963084 GATGTCATTGCTTACATCAATTTA
1 GATGTCATTGCTTACATC-ATTTA
8963108 GTTAGGTGAG
Statistics
Matches: 50, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
29 45 0.90
30 5 0.10
ACGTcount: A:0.33, C:0.15, G:0.10, T:0.43
Consensus pattern (29 bp):
GATGTCATTGCTTACATCATTTAATTAAA
Found at i:8967828 original size:29 final size:29
Alignment explanation
Indices: 8967793--8967874 Score: 137
Period size: 29 Copynumber: 2.8 Consensus size: 29
8967783 AAACTAAATT
*
8967793 GATGTCATTACTTACATCATTTAATTAAA
1 GATGTCATTGCTTACATCATTTAATTAAA
*
8967822 GATGTCATTGCTTACATCATTTAATTAAT
1 GATGTCATTGCTTACATCATTTAATTAAA
8967851 GATGTCATTGCTTACATCAATTTA
1 GATGTCATTGCTTACATC-ATTTA
8967875 GTTAGGTGAG
Statistics
Matches: 50, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
29 45 0.90
30 5 0.10
ACGTcount: A:0.33, C:0.15, G:0.10, T:0.43
Consensus pattern (29 bp):
GATGTCATTGCTTACATCATTTAATTAAA
Found at i:8970985 original size:16 final size:16
Alignment explanation
Indices: 8970945--8970985 Score: 50
Period size: 16 Copynumber: 2.7 Consensus size: 16
8970935 TTTAATTAAG
8970945 TTTTAGG-A-TATTAT
1 TTTTAGGTATTATTAT
**
8970959 TTTTAAATATTATTAT
1 TTTTAGGTATTATTAT
8970975 TTTTAGGTATT
1 TTTTAGGTATT
8970986 TTAGTTTAAA
Statistics
Matches: 21, Mismatches: 4, Indels: 2
0.78 0.15 0.07
Matches are distributed among these distances:
14 5 0.24
15 1 0.05
16 15 0.71
ACGTcount: A:0.29, C:0.00, G:0.10, T:0.61
Consensus pattern (16 bp):
TTTTAGGTATTATTAT
Found at i:8971637 original size:17 final size:18
Alignment explanation
Indices: 8971615--8971656 Score: 68
Period size: 17 Copynumber: 2.4 Consensus size: 18
8971605 CTTTAGATTA
8971615 TTTATTTAATTATT-TCT
1 TTTATTTAATTATTATCT
*
8971632 TTTATTTAATTCTTATCT
1 TTTATTTAATTATTATCT
8971650 TTTATTT
1 TTTATTT
8971657 TAAAAGTAAC
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
17 13 0.57
18 10 0.43
ACGTcount: A:0.21, C:0.07, G:0.00, T:0.71
Consensus pattern (18 bp):
TTTATTTAATTATTATCT
Found at i:8971753 original size:20 final size:20
Alignment explanation
Indices: 8971683--8971756 Score: 71
Period size: 20 Copynumber: 3.6 Consensus size: 20
8971673 AAAAATCCCT
*
8971683 TTTTATTTTACTATTAT-TA
1 TTTTATTTTATTATTATCTA
* **
8971702 TTTATTATTTTATTATTTTTCCC
1 -TT-TTATTTTATTA-TTATCTA
8971725 TTTTA-TTTATTATTATCTA
1 TTTTATTTTATTATTATCTA
8971744 TTTTATTTTATTA
1 TTTTATTTTATTA
8971757 AATATTTTTA
Statistics
Matches: 43, Mismatches: 7, Indels: 8
0.74 0.12 0.14
Matches are distributed among these distances:
19 9 0.21
20 16 0.37
21 13 0.30
22 5 0.12
ACGTcount: A:0.23, C:0.07, G:0.00, T:0.70
Consensus pattern (20 bp):
TTTTATTTTATTATTATCTA
Found at i:8975111 original size:19 final size:18
Alignment explanation
Indices: 8975087--8975153 Score: 53
Period size: 19 Copynumber: 3.4 Consensus size: 18
8975077 ATAGTGATCG
8975087 GAATAGTGACCGATAACAT
1 GAATAGTGACCGATAAC-T
* *
8975106 GAATAGTAACAAACGATTACT
1 GAATAGTGAC---CGATAACT
*
8975127 GGAATAGTGACCGATGACGT
1 -GAATAGTGACCGATAAC-T
8975147 GAATAGT
1 GAATAGT
8975154 AACCAACGAT
Statistics
Matches: 39, Mismatches: 4, Indels: 10
0.74 0.08 0.19
Matches are distributed among these distances:
19 22 0.56
20 1 0.03
21 1 0.03
22 15 0.38
ACGTcount: A:0.40, C:0.13, G:0.24, T:0.22
Consensus pattern (18 bp):
GAATAGTGACCGATAACT
Found at i:8975131 original size:22 final size:20
Alignment explanation
Indices: 8975106--8975175 Score: 63
Period size: 22 Copynumber: 3.4 Consensus size: 20
8975096 CCGATAACAT
8975106 GAATAGTAACAAACGATTACTG
1 GAATAGTAAC-AACGATTAC-G
* *
8975128 GAATAGTGAC--CGATGACG
1 GAATAGTAACAACGATTACG
8975146 TGAATAGTAACCAACGATTACCG
1 -GAATAGTAA-CAACGATTA-CG
8975169 GAATAGT
1 GAATAGT
8975176 GACCGGTCGG
Statistics
Matches: 39, Mismatches: 4, Indels: 10
0.74 0.08 0.19
Matches are distributed among these distances:
18 1 0.03
19 14 0.36
20 1 0.03
22 21 0.54
23 2 0.05
ACGTcount: A:0.40, C:0.16, G:0.23, T:0.21
Consensus pattern (20 bp):
GAATAGTAACAACGATTACG
Found at i:8975150 original size:41 final size:41
Alignment explanation
Indices: 8975085--8975180 Score: 156
Period size: 41 Copynumber: 2.3 Consensus size: 41
8975075 GAATAGTGAT
8975085 CGGAATAGTGACCGATAACATGAATAGTAACAAACGATTAC
1 CGGAATAGTGACCGATAACATGAATAGTAACAAACGATTAC
* * * *
8975126 TGGAATAGTGACCGATGACGTGAATAGTAACCAACGATTAC
1 CGGAATAGTGACCGATAACATGAATAGTAACAAACGATTAC
8975167 CGGAATAGTGACCG
1 CGGAATAGTGACCG
8975181 GTCGGTGGTC
Statistics
Matches: 50, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
41 50 1.00
ACGTcount: A:0.39, C:0.18, G:0.24, T:0.20
Consensus pattern (41 bp):
CGGAATAGTGACCGATAACATGAATAGTAACAAACGATTAC
Found at i:8979928 original size:121 final size:116
Alignment explanation
Indices: 8979666--8979932 Score: 304
Period size: 116 Copynumber: 2.3 Consensus size: 116
8979656 GTATATGTAT
* * * *
8979666 TAAAATGAACCAAAATTGATAGTTTAGGTACTAAACACGTTAAGTTTTTAACGACGGGTACTCAA
1 TAAAATGAACCAAAATTAATAGTTTAGGTACGAAACACGTTAAGCTTTTAACGACGGGTACTAAA
* * * *
8979731 ATAAAATAAAAAATAAACATTAGTTATATAAAAAATTAACAGTTTAAGTAC
66 ATAAAATAAAAAATAAACATTAGTTATATAAAAAATTAACAGCTCAAATAA
* *
8979782 TAAAATGAACCAAAATTAATAGTTTAGGTACGAAACACGTTAAGCTTTTAACGGCGTGTACTAAA
1 TAAAATGAACCAAAATTAATAGTTTAGGTACGAAACACGTTAAGCTTTTAACGACGGGTACTAAA
* * * * * *
8979847 ATGAAATAAAGACTCAACGTTAGGTATACTTTTGAAAAAATTGAA-AGCTCAAATAA
66 ATAAAATAAAAAATAAACATTA-GT-TA--TAT-AAAAAATT-AACAGCTCAAATAA
*
8979903 TAAAAT-AGACCAAAACTAATAGTTTAGGTA
1 TAAAATGA-ACCAAAATTAATAGTTTAGGTA
8979933 TTAAATGTGT
Statistics
Matches: 127, Mismatches: 17, Indels: 9
0.83 0.11 0.06
Matches are distributed among these distances:
116 76 0.60
117 2 0.02
118 2 0.02
120 3 0.02
121 42 0.33
122 2 0.02
ACGTcount: A:0.47, C:0.11, G:0.14, T:0.28
Consensus pattern (116 bp):
TAAAATGAACCAAAATTAATAGTTTAGGTACGAAACACGTTAAGCTTTTAACGACGGGTACTAAA
ATAAAATAAAAAATAAACATTAGTTATATAAAAAATTAACAGCTCAAATAA
Found at i:8982465 original size:11 final size:11
Alignment explanation
Indices: 8982449--8982474 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
8982439 TATTTATTTC
8982449 TTTTTATATTA
1 TTTTTATATTA
8982460 TTTTTATATTA
1 TTTTTATATTA
8982471 TTTT
1 TTTT
8982475 CTTTAGCATT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (11 bp):
TTTTTATATTA
Found at i:8982562 original size:22 final size:22
Alignment explanation
Indices: 8982537--8982578 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
8982527 TTTATTAGTA
* *
8982537 TTAATATTAGTTTTTTTATAAG
1 TTAATATTAGTATTTATATAAG
8982559 TTAATATTAGTATTTATATA
1 TTAATATTAGTATTTATATA
8982579 GTATACGTAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.36, C:0.00, G:0.07, T:0.57
Consensus pattern (22 bp):
TTAATATTAGTATTTATATAAG
Found at i:8982689 original size:3 final size:3
Alignment explanation
Indices: 8982638--8982744 Score: 54
Period size: 3 Copynumber: 38.0 Consensus size: 3
8982628 GGTTTTTTAT
* * * * *
8982638 TTA TTA CTA TTA -TA TTA -TA TTA TTT TTA TTT TTA TT- TTT TTA CTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* *
8982683 -TA TTA TT- TTCA TTA TTC TT- TTA TCT- TTA TTA TTA TTA TTA TCA
1 TTA TTA TTA TT-A TTA TTA TTA TTA T-TA TTA TTA TTA TTA TTA TTA
8982726 -TA TGTA TT- TTA TTA -TA TTA
1 TTA T-TA TTA TTA TTA TTA TTA
8982745 ACATATATTT
Statistics
Matches: 80, Mismatches: 11, Indels: 26
0.68 0.09 0.22
Matches are distributed among these distances:
2 18 0.22
3 56 0.70
4 6 0.08
ACGTcount: A:0.27, C:0.06, G:0.01, T:0.66
Consensus pattern (3 bp):
TTA
Found at i:8982712 original size:26 final size:25
Alignment explanation
Indices: 8982658--8982723 Score: 71
Period size: 25 Copynumber: 2.6 Consensus size: 25
8982648 TATATTATAT
* * *
8982658 TATTTTTATTTTTATTTTTTTACTA
1 TATTATTATTATTATTCTTTTACTA
*
8982683 TATTATT-TTCATTATTCTTTTATCTT
1 TATTATTATT-ATTATTCTTTTA-CTA
8982709 TATTATTATTATTAT
1 TATTATTATTATTAT
8982724 CATATGTATT
Statistics
Matches: 34, Mismatches: 4, Indels: 5
0.79 0.09 0.12
Matches are distributed among these distances:
24 2 0.06
25 16 0.47
26 14 0.41
27 2 0.06
ACGTcount: A:0.23, C:0.06, G:0.00, T:0.71
Consensus pattern (25 bp):
TATTATTATTATTATTCTTTTACTA
Found at i:8982753 original size:20 final size:22
Alignment explanation
Indices: 8982711--8982755 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 22
8982701 TTTATCTTTA
*
8982711 TTATTATTATTATCATATGTATT
1 TTATTATTATTAACATA-GTATT
8982734 TTATTA-TATTAACATA-TATT
1 TTATTATTATTAACATAGTATT
8982754 TT
1 TT
8982756 TCTTTCTAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
20 6 0.29
22 9 0.43
23 6 0.29
ACGTcount: A:0.33, C:0.04, G:0.02, T:0.60
Consensus pattern (22 bp):
TTATTATTATTAACATAGTATT
Found at i:8982806 original size:18 final size:18
Alignment explanation
Indices: 8982783--8982824 Score: 59
Period size: 18 Copynumber: 2.3 Consensus size: 18
8982773 CAACCTCTTT
8982783 TTTTCC-ACTCTTTCAACC
1 TTTTCCAACT-TTTCAACC
*
8982801 TTTTCCAACTTTTCAACG
1 TTTTCCAACTTTTCAACC
8982819 TTTTCC
1 TTTTCC
8982825 TCTTTTACAC
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 19 0.86
19 3 0.14
ACGTcount: A:0.17, C:0.33, G:0.02, T:0.48
Consensus pattern (18 bp):
TTTTCCAACTTTTCAACC
Found at i:8983075 original size:15 final size:15
Alignment explanation
Indices: 8983055--8983089 Score: 70
Period size: 15 Copynumber: 2.3 Consensus size: 15
8983045 ATTTTTTATG
8983055 ATTTTATTCTTTTTA
1 ATTTTATTCTTTTTA
8983070 ATTTTATTCTTTTTA
1 ATTTTATTCTTTTTA
8983085 ATTTT
1 ATTTT
8983090 TCTTTTGATT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.20, C:0.06, G:0.00, T:0.74
Consensus pattern (15 bp):
ATTTTATTCTTTTTA
Found at i:8987018 original size:110 final size:110
Alignment explanation
Indices: 8986773--8987529 Score: 1054
Period size: 110 Copynumber: 7.0 Consensus size: 110
8986763 GATGGTGGTT
* *
8986773 GCTCAACTTCACAGCGAAGGGGCGACT-A---TCAATAAACAACTTTTCAGTTTCATTCAGAGTC
1 GCTCAACTTCACAGCGAAGGGGCGACTGACTGTCAACAAATAACTTTTCAGTTTCATTCAGAGTC
8986834 AATTTCAACTTCACA-CGAAGGATATTGGACTCGAGACAACACAA
66 AATTTCAACTTCACAGCGAAGGATATTGGACTCGAGACAACACAA
* *
8986878 GCTCAACTTCACAACGAATGGGCGACTGACTGTCAACAAATAACTTTTCAGTTTCATTCAGAGTC
1 GCTCAACTTCACAGCGAAGGGGCGACTGACTGTCAACAAATAACTTTTCAGTTTCATTCAGAGTC
* * *
8986943 AATTTCAACTTCACAGCGAATGATATTGGACTCGAGAAAATACAA
66 AATTTCAACTTCACAGCGAAGGATATTGGACTCGAGACAACACAA
* * * * * *
8986988 GCTCAACTTCATAACGAAGGGGCAAATGACTGTCAACAAATAACTTTTCAATTTCATTCATAGTC
1 GCTCAACTTCACAGCGAAGGGGCGACTGACTGTCAACAAATAACTTTTCAGTTTCATTCAGAGTC
** *
8987053 AATTTCAACTTCACAATGAAGGATATTGAACTCGAGACAACACAA
66 AATTTCAACTTCACAGCGAAGGATATTGGACTCGAGACAACACAA
* *
8987098 GCTCAACTTCACAGCGAAAGGTCGACTGACTGTCAACAAATAACTTTTCAGTTTCATTCAGAGTC
1 GCTCAACTTCACAGCGAAGGGGCGACTGACTGTCAACAAATAACTTTTCAGTTTCATTCAGAGTC
*
8987163 AATTTCAACTTTACAGCGAAGGATATTGGACTCGAGACAACACAA
66 AATTTCAACTTCACAGCGAAGGATATTGGACTCGAGACAACACAA
* * * * *
8987208 GCTCAACTTCACAGCGGAGGGGCGACTAACTGTCAACAAACAACTTTTTAGTTTCATTCGGAGTC
1 GCTCAACTTCACAGCGAAGGGGCGACTGACTGTCAACAAATAACTTTTCAGTTTCATTCAGAGTC
* * * * * *
8987273 AATTTCAACTTCACATCGAATGATATTAGACTCGGGATATCACAA
66 AATTTCAACTTCACAGCGAAGGATATTGGACTCGAGACAACACAA
* *
8987318 GCTCAACTTCACAGCGAAGGGACGACTGACTGTCAAC--A-AACATTTCAGTTTCATTCAGAGTC
1 GCTCAACTTCACAGCGAAGGGGCGACTGACTGTCAACAAATAACTTTTCAGTTTCATTCAGAGTC
* * *
8987380 AATTTCAACTTCACATCGAAGGATATTGGACTCGAGACAATAAAA
66 AATTTCAACTTCACAGCGAAGGATATTGGACTCGAGACAACACAA
* *
8987425 GCTCAACTTCACAGCGAAGGGGCGGCTGGCTGTCAACAAATAA-TTTTCCAG--T--TTCAGAGT
1 GCTCAACTTCACAGCGAAGGGGCGACTGACTGTCAACAAATAACTTTT-CAGTTTCATTCAGAGT
* * *
8987485 CAATTTCAACTTCACGGCGAAGGATATTGGCCTCGAAACAACACA
65 CAATTTCAACTTCACAGCGAAGGATATTGGACTCGAGACAACACA
8987530 TATGGTTGGA
Statistics
Matches: 575, Mismatches: 68, Indels: 17
0.87 0.10 0.03
Matches are distributed among these distances:
105 25 0.04
106 48 0.08
107 93 0.16
108 2 0.00
109 50 0.09
110 357 0.62
ACGTcount: A:0.35, C:0.23, G:0.17, T:0.25
Consensus pattern (110 bp):
GCTCAACTTCACAGCGAAGGGGCGACTGACTGTCAACAAATAACTTTTCAGTTTCATTCAGAGTC
AATTTCAACTTCACAGCGAAGGATATTGGACTCGAGACAACACAA
Found at i:8987817 original size:84 final size:83
Alignment explanation
Indices: 8987606--8988141 Score: 476
Period size: 84 Copynumber: 6.5 Consensus size: 83
8987596 CGTGCCCACT
* * * * * * *
8987606 AAAGACCTTTGAGTTTGACTACGCTCAGCTCCAAGGCATATAATTTGCAGCATAGCTTAAGTCGA
1 AAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTACAGCATAACTTAAGGCGA
8987671 GAAGGGTTATCTG---CC
66 GAAGGGTTATCTGTAACC
* * * * * * * *
8987686 AAATG-CCCTCGAGTTCGATTACACTCAGCTTCGAGGGCCCATCATTTACATCATAACTCAAGGC
1 AAA-GACCTTCGAGTTCGACTACGCTCAGC-TCCAAGGCACATCATTTACAGCATAACTTAAGGC
* *
8987750 TATAAGGGTTATCTGTAACC
64 GAGAAGGGTTATCTGTAACC
* * * * *
8987770 AAAATACCTTCGCGTTCGACTACGCTCAGCTCCAAGGCATATCATTTATAGCATAACTTAAGTCG
1 -AAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTACAGCATAACTTAAGGCG
*
8987835 AGAAGGGTTATCT-TCCAACT
65 AGAAGGGTTATCTGT--AACC
* * **
8987855 AAAGACCTTCGAGTTCGACTACGCTCAGCTCCAATGCACATCATTTACAACATAACTTAAGTTGA
1 AAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTACAGCATAACTTAAGGCGA
*
8987920 GAAGGGCTATCTG---CC
66 GAAGGGTTATCTGTAACC
* * * * * * * * * *
8987935 AAAGACCCTCAAGTTTGATTACACTCAGCTTCGAGGGCACATCATTTACAACATAACTCAAGGCT
1 AAAGACCTTCGAGTTCGACTACGCTCAGC-TCCAAGGCACATCATTTACAGCATAACTTAAGGCG
8988000 AGAAGGGTTATCTGTAACC
65 AGAAGGGTTATCTGTAACC
* * * * * *
8988019 AAAATACCTTCGAGTTCGACTATGCTCAGTTCCAAGGCACATCATTTGCAGCATAGCTTAAGTCG
1 -AAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTACAGCATAACTTAAGGCG
* * *
8988084 ATAAGGGCTATCTGCCAACC
65 AGAAGGGTTATCTG-TAACC
* * * * *
8988104 GAAGACCTTCGAGTTTGATTACACTCAGCTCAAAGGCA
1 AAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCA
8988142 AACCAAATTT
Statistics
Matches: 358, Mismatches: 82, Indels: 28
0.76 0.18 0.06
Matches are distributed among these distances:
80 47 0.13
81 79 0.22
83 1 0.00
84 180 0.50
85 51 0.14
ACGTcount: A:0.30, C:0.25, G:0.19, T:0.26
Consensus pattern (83 bp):
AAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTACAGCATAACTTAAGGCGA
GAAGGGTTATCTGTAACC
Found at i:8987981 original size:165 final size:167
Alignment explanation
Indices: 8987805--8988133 Score: 432
Period size: 165 Copynumber: 2.0 Consensus size: 167
8987795 TCAGCTCCAA
* * * * * *
8987805 GGCATATCATTTATAGCATAACTTAAGTCGAGAAGGGTTATCT-TCCAA-CTAAAGACCTTCGAG
1 GGCACATCATTTACAACATAACTCAAGGCGAGAAGGGTTATCTGT--AACCAAAAGACCTTCGAG
* *
8987868 TTCGACTACGCTCAGCTCCAATGCACATCATTTACAACATAACTTAAGTTGAGAAGGGCTATCTG
64 TTCGACTACGCTCAGCTCCAAGGCACATCATTTACAACATAACTTAAGTCGAGAAGGGCTATCTG
8987933 CC-A-AAGACCCTCAAGTTTGATTACACTCAGCTTCGAG
129 CCAACAAGACCCTCAAGTTTGATTACACTCAGCTTCGAG
* *
8987970 GGCACATCATTTACAACATAACTCAAGGCTAGAAGGGTTATCTGTAACCAAAATACCTTCGAGTT
1 GGCACATCATTTACAACATAACTCAAGGCGAGAAGGGTTATCTGTAACCAAAAGACCTTCGAGTT
* * * * * *
8988035 CGACTATGCTCAGTTCCAAGGCACATCATTTGCAGCATAGCTTAAGTCGATAAGGGCTATCTGCC
66 CGACTACGCTCAGCTCCAAGGCACATCATTTACAACATAACTTAAGTCGAGAAGGGCTATCTGCC
* *
8988100 AACCGAAGACCTTCGAGTTTGATTACACTCAGCT
131 AA-C-AAGACCCTCAAGTTTGATTACACTCAGCT
8988134 CAAAGGCAAA
Statistics
Matches: 140, Mismatches: 18, Indels: 8
0.84 0.11 0.05
Matches are distributed among these distances:
164 2 0.01
165 109 0.78
166 2 0.01
169 27 0.19
ACGTcount: A:0.31, C:0.24, G:0.18, T:0.27
Consensus pattern (167 bp):
GGCACATCATTTACAACATAACTCAAGGCGAGAAGGGTTATCTGTAACCAAAAGACCTTCGAGTT
CGACTACGCTCAGCTCCAAGGCACATCATTTACAACATAACTTAAGTCGAGAAGGGCTATCTGCC
AACAAGACCCTCAAGTTTGATTACACTCAGCTTCGAG
Found at i:8988055 original size:249 final size:249
Alignment explanation
Indices: 8987598--8988141 Score: 793
Period size: 249 Copynumber: 2.2 Consensus size: 249
8987588 AAAGGAATCG
* * * * * *
8987598 TGCCCACTAAAGACCTTTGAGTTTGACTACGCTCAGCTCCAAGGCATATAATTTGCAGCATAGCT
1 TGCCAACTAAAGACCTTCGAGTTTGACTACGCTCAGCTCCAAGGCACATAATTTACAACATAACT
* * *
8987663 TAAGTCGAGAAGGGTTATCTGCCAAATGCCCTCGAGTTCGATTACACTCAGCTTCGAGGGCCCAT
66 TAAGTCGAGAAGGGCTATCTGCCAAATGCCCTCAAGTTCGATTACACTCAGCTTCGAGGGCACAT
* * *
8987728 CATTTACATCATAACTCAAGGCTATAAGGGTTATCTGTAACCAAAATACCTTCGCGTTCGACTAC
131 CATTTACAACATAACTCAAGGCTAGAAGGGTTATCTGTAACCAAAATACCTTCGAGTTCGACTAC
* * *
8987793 GCTCAGCTCCAAGGCATATCATTTATAGCATAACTTAAGTCGAGAAGGGTTATC
196 GCTCAGCTCCAAGGCACATCATTTACAGCATAACTTAAGTCGAGAAGGGCTATC
* * * *
8987847 TTCCAACTAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAATGCACATCATTTACAACATAACT
1 TGCCAACTAAAGACCTTCGAGTTTGACTACGCTCAGCTCCAAGGCACATAATTTACAACATAACT
* *
8987912 TAAGTTGAGAAGGGCTATCTGCCAAA-GACCCTCAAGTTTGATTACACTCAGCTTCGAGGGCACA
66 TAAGTCGAGAAGGGCTATCTGCCAAATG-CCCTCAAGTTCGATTACACTCAGCTTCGAGGGCACA
8987976 TCATTTACAACATAACTCAAGGCTAGAAGGGTTATCTGTAACCAAAATACCTTCGAGTTCGACTA
130 TCATTTACAACATAACTCAAGGCTAGAAGGGTTATCTGTAACCAAAATACCTTCGAGTTCGACTA
* * * * *
8988041 TGCTCAGTTCCAAGGCACATCATTTGCAGCATAGCTTAAGTCGATAAGGGCTATC
195 CGCTCAGCTCCAAGGCACATCATTTACAGCATAACTTAAGTCGAGAAGGGCTATC
** * * *
8988096 TGCCAACCGAAGACCTTCGAGTTTGATTACACTCAGCTCAAAGGCA
1 TGCCAACTAAAGACCTTCGAGTTTGACTACGCTCAGCTCCAAGGCA
8988142 AACCAAATTT
Statistics
Matches: 260, Mismatches: 34, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
248 1 0.00
249 259 1.00
ACGTcount: A:0.30, C:0.25, G:0.19, T:0.26
Consensus pattern (249 bp):
TGCCAACTAAAGACCTTCGAGTTTGACTACGCTCAGCTCCAAGGCACATAATTTACAACATAACT
TAAGTCGAGAAGGGCTATCTGCCAAATGCCCTCAAGTTCGATTACACTCAGCTTCGAGGGCACAT
CATTTACAACATAACTCAAGGCTAGAAGGGTTATCTGTAACCAAAATACCTTCGAGTTCGACTAC
GCTCAGCTCCAAGGCACATCATTTACAGCATAACTTAAGTCGAGAAGGGCTATC
Found at i:8993371 original size:31 final size:31
Alignment explanation
Indices: 8993328--8993396 Score: 111
Period size: 31 Copynumber: 2.2 Consensus size: 31
8993318 AGAGGTCACA
* *
8993328 ATATAAACTGTTCATATGTGCCTTTAAACAT
1 ATATAAAATGTTCATATGTGCCTTCAAACAT
*
8993359 ATGTAAAATGTTCATATGTGCCTTCAAACAT
1 ATATAAAATGTTCATATGTGCCTTCAAACAT
8993390 ATATAAA
1 ATATAAA
8993397 TTAGAGAAAA
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
31 34 1.00
ACGTcount: A:0.39, C:0.14, G:0.10, T:0.36
Consensus pattern (31 bp):
ATATAAAATGTTCATATGTGCCTTCAAACAT
Found at i:8993500 original size:18 final size:19
Alignment explanation
Indices: 8993482--8993595 Score: 63
Period size: 20 Copynumber: 5.8 Consensus size: 19
8993472 AATGACCAAC
*
8993482 AAAATCGCAATGCGAAACA
1 AAAATCGCAACGCGAAACA
***
8993501 AAAATCGCAACGCGATTTA
1 AAAATCGCAACGCGAAACA
* *
8993520 GAAAATCGCAATGTTGAAA-A
1 -AAAATCGCAACG-CGAAACA
8993540 GAAAATCGCAACG-GTCAAA-A
1 -AAAATCGCAACGCG--AAACA
***
8993560 GAAAATCGCAACGCGATTGA
1 -AAAATCGCAACGCGAAACA
8993580 GAAAATCGCAACGCGA
1 -AAAATCGCAACGCGA
8993596 TTCCAGGAAT
Statistics
Matches: 78, Mismatches: 11, Indels: 11
0.78 0.11 0.11
Matches are distributed among these distances:
18 1 0.01
19 16 0.21
20 58 0.74
21 3 0.04
ACGTcount: A:0.46, C:0.19, G:0.20, T:0.14
Consensus pattern (19 bp):
AAAATCGCAACGCGAAACA
Found at i:8993526 original size:20 final size:20
Alignment explanation
Indices: 8993501--8993624 Score: 94
Period size: 20 Copynumber: 6.2 Consensus size: 20
8993491 ATGCGAAACA
*
8993501 AAAATCGCAACGCGATTTAG
1 AAAATCGCAACGCGATTAAG
* * *
8993521 AAAATCGCAATGTTGA-AAAG
1 AAAATCGCAACG-CGATTAAG
*
8993541 AAAATCGCAACG-G-TCAAAAG
1 AAAATCGCAACGCGAT--TAAG
*
8993561 AAAATCGCAACGCGATTGAG
1 AAAATCGCAACGCGATTAAG
*
8993581 AAAATCGCAACGCGATTCCAG
1 AAAATCGCAACGCGATT-AAG
* * *
8993602 -GAATCGCAATGCGATTGAG
1 AAAATCGCAACGCGATTAAG
8993621 AAAA
1 AAAA
8993625 CGGCAAAAGA
Statistics
Matches: 84, Mismatches: 12, Indels: 16
0.75 0.11 0.14
Matches are distributed among these distances:
18 1 0.01
19 2 0.02
20 75 0.89
21 5 0.06
22 1 0.01
ACGTcount: A:0.44, C:0.19, G:0.22, T:0.16
Consensus pattern (20 bp):
AAAATCGCAACGCGATTAAG
Found at i:8993744 original size:6 final size:6
Alignment explanation
Indices: 8993733--8993771 Score: 78
Period size: 6 Copynumber: 6.5 Consensus size: 6
8993723 GACACGTATT
8993733 ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG ACC
1 ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG ACC
8993772 CGAGACGAGA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 33 1.00
ACGTcount: A:0.33, C:0.51, G:0.15, T:0.00
Consensus pattern (6 bp):
ACCACG
Found at i:8994537 original size:6 final size:6
Alignment explanation
Indices: 8994526--8994552 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
8994516 TCTCGTCTCG
8994526 GGTCGT GGTCGT GGTCGT GGTCGT GGT
1 GGTCGT GGTCGT GGTCGT GGTCGT GGT
8994553 AATACGTGTC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.00, C:0.15, G:0.52, T:0.33
Consensus pattern (6 bp):
GGTCGT
Found at i:8994688 original size:20 final size:20
Alignment explanation
Indices: 8994663--8995058 Score: 356
Period size: 20 Copynumber: 19.4 Consensus size: 20
8994653 TTTTGCCGTT
*
8994663 TTGCGATTCTTGGAATCGCA
1 TTGCGATTCTTGGAATCGCG
** *
8994683 TTGCGATT-TTCTCAATCGTG
1 TTGCGATTCTT-GGAATCGCG
8994703 TTGCGATTCTTGGAATCGCG
1 TTGCGATTCTTGGAATCGCG
**
8994723 TTGCGATT-TTCTCAATCGCG
1 TTGCGATTCTT-GGAATCGCG
*
8994743 TTGCGATTATTGGAATCGCG
1 TTGCGATTCTTGGAATCGCG
**
8994763 TTGCGATT-TTCTCAATCGCG
1 TTGCGATTCTT-GGAATCGCG
* *
8994783 TTGCGATTCTTCGAAGATCGCA
1 TTGCGATTCTT-GGA-ATCGCG
*
8994805 TTGCGATTCTTGGAATCGCA
1 TTGCGATTCTTGGAATCGCG
**
8994825 TTGCGATT-TTCTCAATCGCG
1 TTGCGATTCTT-GGAATCGCG
8994845 TTGCGATTCTTGGAATCGCG
1 TTGCGATTCTTGGAATCGCG
**
8994865 TTGCGATT-TTCTCAATCGCG
1 TTGCGATTCTT-GGAATCGCG
*
8994885 TTGCGATTATTGGAATCGCG
1 TTGCGATTCTTGGAATCGCG
**
8994905 TTGCGATT-TTCTCAATCGCG
1 TTGCGATTCTT-GGAATCGCG
* *
8994925 TTGCGATTCTTTGAATCGCA
1 TTGCGATTCTTGGAATCGCG
* *
8994945 TTGCGATTCTTTGAAGATCGCA
1 TTGCGATTC-TTGGA-ATCGCG
* *
8994967 TTGCGATTCTTCGAAGATCGCA
1 TTGCGATTCTT-GGA-ATCGCG
*
8994989 TTGCGATTCTTGGAATCGCA
1 TTGCGATTCTTGGAATCGCG
* *
8995009 TTGCGATTCTTTGG-CTCGCA
1 TTGCGATTC-TTGGAATCGCG
8995029 TTGCGATTCTTGGAAGATCGCG
1 TTGCGATTCTTGG-A-ATCGCG
8995051 TTGCGATT
1 TTGCGATT
8995059 TTCTTTTGAC
Statistics
Matches: 320, Mismatches: 36, Indels: 38
0.81 0.09 0.10
Matches are distributed among these distances:
19 16 0.05
20 213 0.67
21 27 0.08
22 64 0.20
ACGTcount: A:0.18, C:0.21, G:0.24, T:0.37
Consensus pattern (20 bp):
TTGCGATTCTTGGAATCGCG
Found at i:8994919 original size:142 final size:140
Alignment explanation
Indices: 8994663--8995062 Score: 604
Period size: 142 Copynumber: 2.8 Consensus size: 140
8994653 TTTTGCCGTT
*
8994663 TTGCGATTCTTGGAATCGCATTGCGATTTTCTCAATCGTGTTGCGATTCTTGGAATCGCGTTGCG
1 TTGCGATTCTTGGAATCGCATTGCGATTTTCTCAATCGCGTTGCGATTCTTGGAATCGCGTTGCG
8994728 ATTTTCTCAATCGCGTTGCGATTATTGGAATCGCGTTGCGATTTTCTCAATCGCGTTGCGATTCT
66 ATTTTCTCAATCGCGTTGCGATTATTGGAATCGCGTTGCGATTTTCTCAATCGCGTTGCGATTCT
8994793 TCGAAGATCGCA
131 TCG-A-ATCGCA
8994805 TTGCGATTCTTGGAATCGCATTGCGATTTTCTCAATCGCGTTGCGATTCTTGGAATCGCGTTGCG
1 TTGCGATTCTTGGAATCGCATTGCGATTTTCTCAATCGCGTTGCGATTCTTGGAATCGCGTTGCG
8994870 ATTTTCTCAATCGCGTTGCGATTATTGGAATCGCGTTGCGATTTTCTCAATCGCGTTGCGATTCT
66 ATTTTCTCAATCGCGTTGCGATTATTGGAATCGCGTTGCGATTTTCTCAATCGCGTTGCGATTCT
*
8994935 TTGAATCGCA
131 TCGAATCGCA
* ** * *
8994945 TTGCGATTCTTTGAAGATCGCATTGCGATTCTTCGAAGATCGCATTGCGATTCTTGGAATCGCAT
1 TTGCGATTC-TTGGA-ATCGCATTGCGATT-TTCTCA-ATCGCGTTGCGATTCTTGGAATCGCGT
*** * *
8995010 TGCGATTCTT-TGGCTCGCATTGCGATTCTTGGAAGATCGCGTTGCGATTTTCT
62 TGCGATT-TTCTCAATCGCGTTGCGATTATTGG-A-ATCGCGTTGCGATTTTCT
8995063 TTTGACCGTT
Statistics
Matches: 239, Mismatches: 12, Indels: 10
0.92 0.05 0.04
Matches are distributed among these distances:
140 15 0.06
141 5 0.02
142 145 0.61
143 4 0.02
144 49 0.21
145 3 0.01
146 18 0.08
ACGTcount: A:0.17, C:0.21, G:0.24, T:0.38
Consensus pattern (140 bp):
TTGCGATTCTTGGAATCGCATTGCGATTTTCTCAATCGCGTTGCGATTCTTGGAATCGCGTTGCG
ATTTTCTCAATCGCGTTGCGATTATTGGAATCGCGTTGCGATTTTCTCAATCGCGTTGCGATTCT
TCGAATCGCA
Found at i:8995074 original size:20 final size:20
Alignment explanation
Indices: 8995049--8995102 Score: 81
Period size: 20 Copynumber: 2.7 Consensus size: 20
8995039 TGGAAGATCG
* *
8995049 CGTTGCGATTTTCTTTTGAC
1 CGTTGCGATTTTCTTTTCAA
*
8995069 CGTTGCGATATTCTTTTCAA
1 CGTTGCGATTTTCTTTTCAA
8995089 CGTTGCGATTTTCT
1 CGTTGCGATTTTCT
8995103 AAATCGCGTT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.13, C:0.20, G:0.19, T:0.48
Consensus pattern (20 bp):
CGTTGCGATTTTCTTTTCAA
Found at i:8995112 original size:20 final size:19
Alignment explanation
Indices: 8995089--8995140 Score: 77
Period size: 19 Copynumber: 2.7 Consensus size: 19
8995079 TTCTTTTCAA
*
8995089 CGTTGCGATTTTCTAAATCG
1 CGTTGCGATTTT-GAAATCG
*
8995109 CGTTGCGATTTTGATATCG
1 CGTTGCGATTTTGAAATCG
8995128 CGTTGCGATTTTG
1 CGTTGCGATTTTG
8995141 TTGGTCATTT
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
19 18 0.60
20 12 0.40
ACGTcount: A:0.15, C:0.17, G:0.25, T:0.42
Consensus pattern (19 bp):
CGTTGCGATTTTGAAATCG
Found at i:8995285 original size:16 final size:16
Alignment explanation
Indices: 8995264--8995348 Score: 54
Period size: 16 Copynumber: 5.4 Consensus size: 16
8995254 GTAAAATGTT
8995264 CATATGTGCCTTTAAA
1 CATATGTGCCTTTAAA
*** *
8995280 CATATGTAAATTGT--T
1 CATATGTGCCTT-TAAA
8995295 CATATGTGCCTTTAAA
1 CATATGTGCCTTTAAA
**
8995311 CATATGTAAACTGTT---
1 CATATGT-GCCT-TTAAA
8995326 CATATGTGCCTTTAAA
1 CATATGTGCCTTTAAA
8995342 CATATGT
1 CATATGT
8995349 AAACCCTCGA
Statistics
Matches: 49, Mismatches: 12, Indels: 16
0.64 0.16 0.21
Matches are distributed among these distances:
13 2 0.04
14 3 0.06
15 16 0.33
16 23 0.47
17 3 0.06
18 2 0.04
ACGTcount: A:0.32, C:0.15, G:0.13, T:0.40
Consensus pattern (16 bp):
CATATGTGCCTTTAAA
Found at i:8995352 original size:31 final size:31
Alignment explanation
Indices: 8995231--8995352 Score: 226
Period size: 31 Copynumber: 3.9 Consensus size: 31
8995221 CTATAAATTA
*
8995231 TTCATATGTGCCTTTAAACATATGTAAAATG
1 TTCATATGTGCCTTTAAACATATGTAAACTG
*
8995262 TTCATATGTGCCTTTAAACATATGTAAATTG
1 TTCATATGTGCCTTTAAACATATGTAAACTG
8995293 TTCATATGTGCCTTTAAACATATGTAAACTG
1 TTCATATGTGCCTTTAAACATATGTAAACTG
8995324 TTCATATGTGCCTTTAAACATATGTAAAC
1 TTCATATGTGCCTTTAAACATATGTAAAC
8995353 CCTCGACTCT
Statistics
Matches: 89, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
31 89 1.00
ACGTcount: A:0.34, C:0.15, G:0.12, T:0.39
Consensus pattern (31 bp):
TTCATATGTGCCTTTAAACATATGTAAACTG
Found at i:9004953 original size:9 final size:9
Alignment explanation
Indices: 9004941--9004970 Score: 51
Period size: 9 Copynumber: 3.3 Consensus size: 9
9004931 ATTAGAAATA
9004941 TTATTATTT
1 TTATTATTT
*
9004950 TTATTAGTT
1 TTATTATTT
9004959 TTATTATTT
1 TTATTATTT
9004968 TTA
1 TTA
9004971 GGCGTTTTAC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
9 19 1.00
ACGTcount: A:0.23, C:0.00, G:0.03, T:0.73
Consensus pattern (9 bp):
TTATTATTT
Found at i:9004977 original size:18 final size:18
Alignment explanation
Indices: 9004941--9004979 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
9004931 ATTAGAAATA
**
9004941 TTATTATTTTTATTAGTT
1 TTATTATTTTTAGGAGTT
*
9004959 TTATTATTTTTAGGCGTT
1 TTATTATTTTTAGGAGTT
9004977 TTA
1 TTA
9004980 CTAGTTTTTT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.21, C:0.03, G:0.10, T:0.67
Consensus pattern (18 bp):
TTATTATTTTTAGGAGTT
Found at i:9005095 original size:21 final size:21
Alignment explanation
Indices: 9005070--9005109 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
9005060 CCGAAATTAT
*
9005070 TAAAAATATTAATGTTTTAGG
1 TAAAAATAATAATGTTTTAGG
9005091 TAAAAATAATAATGTTTTA
1 TAAAAATAATAATGTTTTA
9005110 TATAATTTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.47, C:0.00, G:0.10, T:0.42
Consensus pattern (21 bp):
TAAAAATAATAATGTTTTAGG
Found at i:9007592 original size:17 final size:17
Alignment explanation
Indices: 9007570--9007603 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
9007560 TTTGATGTAC
9007570 ATTTTGT-TAAAGAAAAT
1 ATTTTGTATAAA-AAAAT
9007587 ATTTTGTATAAAAAAAT
1 ATTTTGTATAAAAAAAT
9007604 TATGTTTATT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 12 0.75
18 4 0.25
ACGTcount: A:0.50, C:0.00, G:0.09, T:0.41
Consensus pattern (17 bp):
ATTTTGTATAAAAAAAT
Found at i:9018583 original size:2 final size:2
Alignment explanation
Indices: 9018576--9018635 Score: 120
Period size: 2 Copynumber: 30.0 Consensus size: 2
9018566 CTTGATATCA
9018576 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
9018618 AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT
9018636 TACAATCTTG
Statistics
Matches: 58, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 58 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:9019871 original size:13 final size:14
Alignment explanation
Indices: 9019851--9019883 Score: 66
Period size: 14 Copynumber: 2.4 Consensus size: 14
9019841 TGATTGTAAG
9019851 ATTTTTTTTTTTGA
1 ATTTTTTTTTTTGA
9019865 ATTTTTTTTTTTGA
1 ATTTTTTTTTTTGA
9019879 ATTTT
1 ATTTT
9019884 ACATAAGTTC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.15, C:0.00, G:0.06, T:0.79
Consensus pattern (14 bp):
ATTTTTTTTTTTGA
Found at i:9020219 original size:74 final size:75
Alignment explanation
Indices: 9020107--9020255 Score: 210
Period size: 76 Copynumber: 2.0 Consensus size: 75
9020097 GTTAATATTT
* * * *
9020107 TTTAACATTTTCGGTAAAACATTGCCTAAAACA-ATTTTTACCGGAAATATTAATATTGGACCCT
1 TTTAACATTTCCGGTAAAACATTACCCAAAACATATTTTTACCGAAAATATTAATATTGGACCCT
9020171 ACCTAAAATG
66 ACCTAAAATG
* * **
9020181 TTTAACATTTCCGGTAAAACGTTACCCAAAACATTTTTTTTACCGAAAATATTAATATTGGACGT
1 TTTAACATTTCCGGTAAAACATTACCCAAAACA-TATTTTTACCGAAAATATTAATATTGGACCC
9020246 TACCTAAAAT
65 TACCTAAAAT
9020256 ATTATTTTTC
Statistics
Matches: 65, Mismatches: 8, Indels: 2
0.87 0.11 0.03
Matches are distributed among these distances:
74 29 0.45
76 36 0.55
ACGTcount: A:0.38, C:0.17, G:0.10, T:0.35
Consensus pattern (75 bp):
TTTAACATTTCCGGTAAAACATTACCCAAAACATATTTTTACCGAAAATATTAATATTGGACCCT
ACCTAAAATG
Found at i:9026001 original size:13 final size:15
Alignment explanation
Indices: 9025979--9026015 Score: 51
Period size: 13 Copynumber: 2.6 Consensus size: 15
9025969 TATTTATTTT
*
9025979 TAAATAATTAAA-A-
1 TAAATTATTAAATAC
9025992 TAAATTATTAAATAC
1 TAAATTATTAAATAC
9026007 TAAATTATT
1 TAAATTATT
9026016 TTTTAAGGAT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
13 11 0.52
14 1 0.05
15 9 0.43
ACGTcount: A:0.57, C:0.03, G:0.00, T:0.41
Consensus pattern (15 bp):
TAAATTATTAAATAC
Found at i:9033223 original size:31 final size:32
Alignment explanation
Indices: 9033188--9033259 Score: 83
Period size: 31 Copynumber: 2.3 Consensus size: 32
9033178 TGTAAAAATA
*
9033188 ATGTAACATATACAACGATATTCAAA-TGATG
1 ATGTAACATATACAACGACATTCAAAGTGATG
* ** *
9033219 ATGTAACACATTTAATGACATTCAAAGTGATG
1 ATGTAACATATACAACGACATTCAAAGTGATG
*
9033251 ATGTGACAT
1 ATGTAACAT
9033260 TTACGACATC
Statistics
Matches: 33, Mismatches: 7, Indels: 1
0.80 0.17 0.02
Matches are distributed among these distances:
31 21 0.64
32 12 0.36
ACGTcount: A:0.42, C:0.12, G:0.15, T:0.31
Consensus pattern (32 bp):
ATGTAACATATACAACGACATTCAAAGTGATG
Found at i:9033267 original size:29 final size:30
Alignment explanation
Indices: 9033201--9033268 Score: 77
Period size: 31 Copynumber: 2.3 Consensus size: 30
9033191 TAACATATAC
*
9033201 AACGATATTCAAATGATGATGTAACACATTT
1 AACGACATTCAAATGATGATGT-ACACATTT
* *
9033232 AATGACATTCAAAGTGATGATGT-GACATTT
1 AACGACATTCAAA-TGATGATGTACACATTT
9033262 -ACGACAT
1 AACGACAT
9033269 CAATAATTAA
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
29 6 0.19
30 6 0.19
31 11 0.34
32 9 0.28
ACGTcount: A:0.40, C:0.13, G:0.16, T:0.31
Consensus pattern (30 bp):
AACGACATTCAAATGATGATGTACACATTT
Found at i:9044142 original size:19 final size:20
Alignment explanation
Indices: 9044118--9044157 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
9044108 ATGAATTTGA
9044118 ATTTAA-ATAATTTTTATTT
1 ATTTAATATAATTTTTATTT
* *
9044137 ATTTAATTTATTTTTTATTT
1 ATTTAATATAATTTTTATTT
9044157 A
1 A
9044158 ATCTAAATTA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 6 0.33
20 12 0.67
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.68
Consensus pattern (20 bp):
ATTTAATATAATTTTTATTT
Found at i:9044155 original size:16 final size:15
Alignment explanation
Indices: 9044125--9044159 Score: 52
Period size: 16 Copynumber: 2.3 Consensus size: 15
9044115 TGAATTTAAA
9044125 TAATTTTTATTTATT
1 TAATTTTTATTTATT
*
9044140 TAATTTATTTTTTATT
1 TAATTT-TTATTTATT
9044156 TAAT
1 TAAT
9044160 CTAAATTAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 6 0.33
16 12 0.67
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (15 bp):
TAATTTTTATTTATT
Found at i:9044637 original size:2 final size:2
Alignment explanation
Indices: 9044630--9044663 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
9044620 AGCCCTGTTT
9044630 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
9044664 AAACTGTAGC
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:9052644 original size:23 final size:23
Alignment explanation
Indices: 9052618--9052662 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
9052608 CACCATAACT
*
9052618 CGTATAAATGCACCGAAGTGCCG
1 CGTAGAAATGCACCGAAGTGCCG
* *
9052641 CGTAGAATTGCACCGTAGTGCC
1 CGTAGAAATGCACCGAAGTGCC
9052663 ATATAATGAT
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:0.27, C:0.27, G:0.27, T:0.20
Consensus pattern (23 bp):
CGTAGAAATGCACCGAAGTGCCG
Found at i:9054488 original size:21 final size:21
Alignment explanation
Indices: 9054464--9054508 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
9054454 TGTTGTTCGT
* *
9054464 TTGAAGGGGTATCGGTTCCCC
1 TTGAAGGGGTACCGATTCCCC
*
9054485 TTGAATGGGTACCGATTCCCC
1 TTGAAGGGGTACCGATTCCCC
9054506 TTG
1 TTG
9054509 CCCAGAAATC
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.16, C:0.24, G:0.29, T:0.31
Consensus pattern (21 bp):
TTGAAGGGGTACCGATTCCCC
Found at i:9059502 original size:21 final size:21
Alignment explanation
Indices: 9059478--9059522 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
9059468 TGTTGTTCGT
* *
9059478 TTGAAGGGGTATCGGTTCCCC
1 TTGAAGGGGTACCGATTCCCC
*
9059499 TTGAATGGGTACCGATTCCCC
1 TTGAAGGGGTACCGATTCCCC
9059520 TTG
1 TTG
9059523 CCCAGAAATC
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.16, C:0.24, G:0.29, T:0.31
Consensus pattern (21 bp):
TTGAAGGGGTACCGATTCCCC
Found at i:9061110 original size:90 final size:91
Alignment explanation
Indices: 9060982--9061218 Score: 262
Period size: 103 Copynumber: 2.5 Consensus size: 91
9060972 ACTAAAACGG
* *
9060982 ATATTGATATTCTTAAACATAAATTGATACCTATTATTTATTTAATATAAAAATATTTTAAAATA
1 ATATTGATACTCTTAAACATTAATTGATACCTATTATTTATTTAATATAAAAATATTTTAAAATA
**
9061047 AATAAAATCAATATATTTTTAACTCA
66 AATAAAATCAATATATTTTTAAAACA
* *
9061073 A-CTTGATACTCTTAAACATTAATTGACACCTATTATTTATTTTATATATAAATTTAATATAAAA
1 ATATTGATACTCTTAAACATTAATTGATACC---TA-TTA---T-T-TAT----TTAATATAAAA
*
9061137 ATATTTTAAAATAAATAAAATCAATATATTTTTAAAAGA
53 ATATTTTAAAATAAATAAAATCAATATATTTTTAAAACA
*
9061176 ATATTGATGCTCTTAAACA-TATATTGATACCTATTATTTATTT
1 ATATTGATACTCTTAAACATTA-ATTGATACCTATTATTTATTT
9061219 TCATCCACTC
Statistics
Matches: 121, Mismatches: 10, Indels: 30
0.75 0.06 0.19
Matches are distributed among these distances:
90 25 0.21
91 3 0.02
93 2 0.02
94 3 0.02
95 3 0.02
96 1 0.01
97 2 0.02
98 1 0.01
99 3 0.02
100 3 0.02
101 2 0.02
103 50 0.41
104 23 0.19
ACGTcount: A:0.45, C:0.08, G:0.03, T:0.43
Consensus pattern (91 bp):
ATATTGATACTCTTAAACATTAATTGATACCTATTATTTATTTAATATAAAAATATTTTAAAATA
AATAAAATCAATATATTTTTAAAACA
Found at i:9063317 original size:21 final size:22
Alignment explanation
Indices: 9063291--9063339 Score: 73
Period size: 22 Copynumber: 2.3 Consensus size: 22
9063281 AGATTGATTT
9063291 TTTCGACTCG-ACTCAAATTGA
1 TTTCGACTCGTACTCAAATTGA
* *
9063312 TTTCGAGTTGTACTCAAATTGA
1 TTTCGACTCGTACTCAAATTGA
9063334 TTTCGA
1 TTTCGA
9063340 GTTGTAATTT
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
21 8 0.32
22 17 0.68
ACGTcount: A:0.27, C:0.18, G:0.16, T:0.39
Consensus pattern (22 bp):
TTTCGACTCGTACTCAAATTGA
Found at i:9063329 original size:22 final size:22
Alignment explanation
Indices: 9063301--9063345 Score: 90
Period size: 22 Copynumber: 2.0 Consensus size: 22
9063291 TTTCGACTCG
9063301 ACTCAAATTGATTTCGAGTTGT
1 ACTCAAATTGATTTCGAGTTGT
9063323 ACTCAAATTGATTTCGAGTTGT
1 ACTCAAATTGATTTCGAGTTGT
9063345 A
1 A
9063346 ATTTTATAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.29, C:0.13, G:0.18, T:0.40
Consensus pattern (22 bp):
ACTCAAATTGATTTCGAGTTGT
Found at i:9064178 original size:21 final size:20
Alignment explanation
Indices: 9064141--9064231 Score: 96
Period size: 21 Copynumber: 4.5 Consensus size: 20
9064131 AAATTTACGT
*
9064141 TAGTCCAAATT-CGTTGCGA
1 TAGTCCAAGTTCCGTTGCGA
9064160 TAGTCCAAGTTCACGTTGCGA
1 TAGTCCAAGTTC-CGTTGCGA
*
9064181 TAGTCGAAGTTCGCGTTGCGA
1 TAGTCCAAGTTC-CGTTGCGA
** *
9064202 TTTTCCAAATT-CGTTGCGA
1 TAGTCCAAGTTCCGTTGCGA
*
9064221 TAGTCGAAGTT
1 TAGTCCAAGTT
9064232 ATTGCATTTG
Statistics
Matches: 59, Mismatches: 11, Indels: 4
0.80 0.15 0.05
Matches are distributed among these distances:
19 25 0.42
21 34 0.58
ACGTcount: A:0.23, C:0.20, G:0.24, T:0.33
Consensus pattern (20 bp):
TAGTCCAAGTTCCGTTGCGA
Found at i:9064185 original size:40 final size:39
Alignment explanation
Indices: 9064141--9064225 Score: 91
Period size: 40 Copynumber: 2.1 Consensus size: 39
9064131 AAATTTACGT
*
9064141 TAGTCCAAATT-CGTTGCGATAGTCCAAGTTCACGTTGCGA
1 TAGTCCAAATTCCGTTGCGATAGTCCAAATT--CGTTGCGA
* * **
9064181 TAGTCGAAGTTCGCGTTGCGATTTTCCAAATTCGTTGCGA
1 TAGTCCAAATTC-CGTTGCGATAGTCCAAATTCGTTGCGA
9064221 TAGTC
1 TAGTC
9064226 GAAGTTATTG
Statistics
Matches: 38, Mismatches: 5, Indels: 4
0.81 0.11 0.09
Matches are distributed among these distances:
40 22 0.58
42 16 0.42
ACGTcount: A:0.22, C:0.21, G:0.24, T:0.33
Consensus pattern (39 bp):
TAGTCCAAATTCCGTTGCGATAGTCCAAATTCGTTGCGA
Found at i:9064313 original size:6 final size:6
Alignment explanation
Indices: 9064302--9064332 Score: 62
Period size: 6 Copynumber: 5.2 Consensus size: 6
9064292 GACACGTATT
9064302 ACCACG ACCACG ACCACG ACCACG ACCACG A
1 ACCACG ACCACG ACCACG ACCACG ACCACG A
9064333 GACGAGACGG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 25 1.00
ACGTcount: A:0.35, C:0.48, G:0.16, T:0.00
Consensus pattern (6 bp):
ACCACG
Found at i:9064655 original size:19 final size:19
Alignment explanation
Indices: 9064638--9064794 Score: 163
Period size: 19 Copynumber: 7.9 Consensus size: 19
9064628 AGATTTTTCG
*
9064638 CTATCGCAACACTTTTTCA
1 CTATCGCAACACTTTTTAA
9064657 CTATCGCAACAACACGTTTTTCAAA
1 CTATCG---CAACAC-TTTTT--AA
* *
9064682 CTCTCGCAACACATTTTAA
1 CTATCGCAACACTTTTTAA
*
9064701 CTATCGCAACACATTTTAA
1 CTATCGCAACACTTTTTAA
9064720 CTATCGCAACA-TATTTTAA
1 CTATCGCAACACT-TTTTAA
*
9064739 CTATCGCAACACATTTTAA
1 CTATCGCAACACTTTTTAA
* *
9064758 CTATCGTAACACATTTTAA
1 CTATCGCAACACTTTTTAA
*
9064777 CTATCGTAACACATTTTT
1 CTATCGCAACAC-TTTTT
9064795 TAAAATCACG
Statistics
Matches: 121, Mismatches: 8, Indels: 17
0.83 0.05 0.12
Matches are distributed among these distances:
19 90 0.74
20 4 0.03
21 4 0.03
22 12 0.10
23 5 0.04
25 6 0.05
ACGTcount: A:0.34, C:0.26, G:0.06, T:0.34
Consensus pattern (19 bp):
CTATCGCAACACTTTTTAA
Found at i:9064728 original size:38 final size:38
Alignment explanation
Indices: 9064638--9064793 Score: 204
Period size: 38 Copynumber: 3.9 Consensus size: 38
9064628 AGATTTTTCG
* *
9064638 CTATCGCAACACTTTTTCACTATCGCAACAACACGTTTTTCAAA
1 CTATCGCAACACATTTTAACTATCGCAAC-ACA---TTTT--AA
*
9064682 CTCTCGCAACACATTTTAACTATCGCAACACATTTTAA
1 CTATCGCAACACATTTTAACTATCGCAACACATTTTAA
*
9064720 CTATCGCAACATATTTTAACTATCGCAACACATTTTAA
1 CTATCGCAACACATTTTAACTATCGCAACACATTTTAA
* *
9064758 CTATCGTAACACATTTTAACTATCGTAACACATTTT
1 CTATCGCAACACATTTTAACTATCGCAACACATTTT
9064794 TTAAAATCAC
Statistics
Matches: 104, Mismatches: 8, Indels: 6
0.88 0.07 0.05
Matches are distributed among these distances:
38 71 0.68
40 4 0.04
43 3 0.03
44 26 0.25
ACGTcount: A:0.34, C:0.26, G:0.06, T:0.34
Consensus pattern (38 bp):
CTATCGCAACACATTTTAACTATCGCAACACATTTTAA
Found at i:9064757 original size:57 final size:58
Alignment explanation
Indices: 9064638--9064793 Score: 206
Period size: 57 Copynumber: 2.6 Consensus size: 58
9064628 AGATTTTTCG
* * *
9064638 CTATCGCAACACTTTTTCACTATCGCAACAACACGTTTTTCAAACTCTCGCAACACATTTTAA
1 CTATCGCAACACATTTTAACTATCGCAAC-ACA---TTTT-AAACTATCGCAACACATTTTAA
*
9064701 CTATCGCAACACATTTTAACTATCGCAACATATTTT-AACTATCGCAACACATTTTAA
1 CTATCGCAACACATTTTAACTATCGCAACACATTTTAAACTATCGCAACACATTTTAA
* *
9064758 CTATCGTAACACATTTTAACTATCGTAACACATTTT
1 CTATCGCAACACATTTTAACTATCGCAACACATTTT
9064794 TTAAAATCAC
Statistics
Matches: 86, Mismatches: 7, Indels: 6
0.87 0.07 0.06
Matches are distributed among these distances:
57 53 0.62
59 4 0.05
62 2 0.02
63 27 0.31
ACGTcount: A:0.34, C:0.26, G:0.06, T:0.34
Consensus pattern (58 bp):
CTATCGCAACACATTTTAACTATCGCAACACATTTTAAACTATCGCAACACATTTTAA
Found at i:9073672 original size:23 final size:24
Alignment explanation
Indices: 9073627--9073672 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 24
9073617 ACAATATCTC
*
9073627 AAGTGTGAAAACGAATGTTTTTCA
1 AAGTGTGAAAACGAATGATTTTCA
*
9073651 AAGTGTGAAACCGAAT-ATTTTC
1 AAGTGTGAAAACGAATGATTTTC
9073673 TCTGAATTGG
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
23 5 0.25
24 15 0.75
ACGTcount: A:0.37, C:0.11, G:0.20, T:0.33
Consensus pattern (24 bp):
AAGTGTGAAAACGAATGATTTTCA
Found at i:9075180 original size:21 final size:21
Alignment explanation
Indices: 9075156--9075210 Score: 51
Period size: 21 Copynumber: 2.6 Consensus size: 21
9075146 AATCATCAAG
9075156 CAAACATTTCTTCTCTGCTCT-
1 CAAACATTTCTTCTCT-CTCTA
* *
9075177 CAAAGCTTTTC-TCTCTTTCTA
1 CAAA-CATTTCTTCTCTCTCTA
*
9075198 CAAAGATTTCTTC
1 CAAACATTTCTTC
9075211 CGCATTTCGA
Statistics
Matches: 27, Mismatches: 4, Indels: 6
0.73 0.11 0.16
Matches are distributed among these distances:
20 7 0.26
21 15 0.56
22 5 0.19
ACGTcount: A:0.22, C:0.29, G:0.05, T:0.44
Consensus pattern (21 bp):
CAAACATTTCTTCTCTCTCTA
Found at i:9078950 original size:30 final size:29
Alignment explanation
Indices: 9078887--9078950 Score: 76
Period size: 30 Copynumber: 2.2 Consensus size: 29
9078877 TCTAGTGACT
** *
9078887 AAAATATAAGTTTTGAAAGTTTAATGGCT
1 AAAATATAAGTTTAAAAAGTTTAATGGCC
9078916 AAAATATAAAGTTTAAAAAGTTTAA-GGACC
1 AAAATAT-AAGTTTAAAAAGTTTAATGG-CC
9078946 AAAAT
1 AAAAT
9078951 TGTAATTTTG
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
29 9 0.30
30 21 0.70
ACGTcount: A:0.50, C:0.05, G:0.14, T:0.31
Consensus pattern (29 bp):
AAAATATAAGTTTAAAAAGTTTAATGGCC
Found at i:9081163 original size:36 final size:36
Alignment explanation
Indices: 9081123--9081261 Score: 206
Period size: 36 Copynumber: 3.9 Consensus size: 36
9081113 AGTTGAGTAT
*
9081123 TATCAGCTTTGATACATGCGTGTATCAATGTTATCA
1 TATCAGCTTTGATACATTCGTGTATCAATGTTATCA
* * *
9081159 TATCACCTTTGGTATATTCGTGTATCAATGTTATCA
1 TATCAGCTTTGATACATTCGTGTATCAATGTTATCA
* * *
9081195 TATCAGCTTTGGTACATTCTTATATCAATGTTATCA
1 TATCAGCTTTGATACATTCGTGTATCAATGTTATCA
*
9081231 TATCAGCTTTGATACATTCGTGTATTAATGT
1 TATCAGCTTTGATACATTCGTGTATCAATGT
9081262 CCAGCACTGT
Statistics
Matches: 91, Mismatches: 12, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
36 91 1.00
ACGTcount: A:0.27, C:0.16, G:0.14, T:0.43
Consensus pattern (36 bp):
TATCAGCTTTGATACATTCGTGTATCAATGTTATCA
Found at i:9081718 original size:65 final size:64
Alignment explanation
Indices: 9081638--9081791 Score: 240
Period size: 65 Copynumber: 2.4 Consensus size: 64
9081628 TAAATTGAAA
*
9081638 ATCAAATGCATTTTATGCATCGATGCACATA-CCATGCATCAATGCACTCAGG-TTTTTATGAAA
1 ATCAAATGCATTTTATGCATCGATGCACA-AGCCATGCATCAATGCACTCAGGCTATTT-T-AAA
9081701 AC
63 AC
* *
9081703 ATCGAATGCATTTTATGCATCGATGCACAAGCCATGCATCGATGCACTCAGGCTATTTTAAAAC
1 ATCAAATGCATTTTATGCATCGATGCACAAGCCATGCATCAATGCACTCAGGCTATTTTAAAAC
9081767 ATCAAATGCATTTTATGCATCGATG
1 ATCAAATGCATTTTATGCATCGATG
9081792 TACCCTTAGT
Statistics
Matches: 83, Mismatches: 4, Indels: 5
0.90 0.04 0.05
Matches are distributed among these distances:
64 30 0.36
65 49 0.59
66 4 0.05
ACGTcount: A:0.32, C:0.21, G:0.16, T:0.31
Consensus pattern (64 bp):
ATCAAATGCATTTTATGCATCGATGCACAAGCCATGCATCAATGCACTCAGGCTATTTTAAAAC
Found at i:9090601 original size:17 final size:17
Alignment explanation
Indices: 9090579--9090611 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
9090569 TCTAAAACTA
9090579 AAATATTATTTTATAAC
1 AAATATTATTTTATAAC
9090596 AAATATTATTTTATAA
1 AAATATTATTTTATAA
9090612 TCACCTTAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.48, C:0.03, G:0.00, T:0.48
Consensus pattern (17 bp):
AAATATTATTTTATAAC
Found at i:9093457 original size:2 final size:2
Alignment explanation
Indices: 9093450--9093484 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
9093440 GGATCTGTCC
9093450 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
9093485 TCCCATCATT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:9094865 original size:7 final size:7
Alignment explanation
Indices: 9094853--9094878 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
9094843 TATCATTGAC
9094853 TATAATA
1 TATAATA
9094860 TATAATA
1 TATAATA
9094867 TATAATA
1 TATAATA
9094874 TATAA
1 TATAA
9094879 AAATATTTTA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (7 bp):
TATAATA
Found at i:9096007 original size:32 final size:31
Alignment explanation
Indices: 9095966--9096044 Score: 126
Period size: 32 Copynumber: 2.6 Consensus size: 31
9095956 CAGGGGTGAG
*
9095966 ATTGGTCGCCATGCAGTCGGGGCGAAGCAGGT
1 ATTGGTCGCCATGCAGTCGGGGCGAAG-AAGT
9095998 ATTGGTCGCCATGCAGTCGGGGCGAAGAAGT
1 ATTGGTCGCCATGCAGTCGGGGCGAAGAAGT
9096029 A--GGTCGCCATGCAGTC
1 ATTGGTCGCCATGCAGTC
9096045 TGTTGAAGGT
Statistics
Matches: 46, Mismatches: 1, Indels: 3
0.92 0.02 0.06
Matches are distributed among these distances:
29 15 0.33
31 4 0.09
32 27 0.59
ACGTcount: A:0.20, C:0.23, G:0.38, T:0.19
Consensus pattern (31 bp):
ATTGGTCGCCATGCAGTCGGGGCGAAGAAGT
Found at i:9096304 original size:27 final size:29
Alignment explanation
Indices: 9096248--9096317 Score: 117
Period size: 27 Copynumber: 2.4 Consensus size: 29
9096238 ATTTTAACCC
9096248 ATTATATTAAAGTTGTGTGGTTGTAAGAGT
1 ATTATATTAAAG-TGTGTGGTTGTAAGAGT
9096278 ATTATATTAAAGTG-G-GGTTGTAAGAGT
1 ATTATATTAAAGTGTGTGGTTGTAAGAGT
9096305 ATTATATTAAAGT
1 ATTATATTAAAGT
9096318 ATATAAATAT
Statistics
Matches: 40, Mismatches: 0, Indels: 3
0.93 0.00 0.07
Matches are distributed among these distances:
27 25 0.62
28 1 0.03
29 2 0.05
30 12 0.30
ACGTcount: A:0.34, C:0.00, G:0.24, T:0.41
Consensus pattern (29 bp):
ATTATATTAAAGTGTGTGGTTGTAAGAGT
Found at i:9096593 original size:13 final size:14
Alignment explanation
Indices: 9096575--9096606 Score: 50
Period size: 13 Copynumber: 2.4 Consensus size: 14
9096565 ATTTATAAAA
9096575 AAAATAATATT-TT
1 AAAATAATATTATT
9096588 AAAAT-ATATTATT
1 AAAATAATATTATT
9096601 AAAATA
1 AAAATA
9096607 CAATATACAA
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
12 5 0.29
13 12 0.71
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (14 bp):
AAAATAATATTATT
Found at i:9097539 original size:27 final size:30
Alignment explanation
Indices: 9097508--9097577 Score: 119
Period size: 27 Copynumber: 2.4 Consensus size: 30
9097498 ATATTTATAT
9097508 ACTTTAATATAATACTCTTACAACC-C-C-
1 ACTTTAATATAATACTCTTACAACCACACA
9097535 ACTTTAATATAATACTCTTACAACCACACA
1 ACTTTAATATAATACTCTTACAACCACACA
9097565 ACTTTAATATAAT
1 ACTTTAATATAAT
9097578 GGGTTAAAAT
Statistics
Matches: 40, Mismatches: 0, Indels: 3
0.93 0.00 0.07
Matches are distributed among these distances:
27 25 0.62
28 1 0.03
29 1 0.03
30 13 0.32
ACGTcount: A:0.41, C:0.24, G:0.00, T:0.34
Consensus pattern (30 bp):
ACTTTAATATAATACTCTTACAACCACACA
Found at i:9097843 original size:32 final size:31
Alignment explanation
Indices: 9097780--9097858 Score: 108
Period size: 32 Copynumber: 2.6 Consensus size: 31
9097770 ACCTTCAACA
*
9097780 GACTGCATGGCGACC--TACTTCTTCGCCCC
1 GACTGCATGGCGACCAATACTGCTTCGCCCC
*
9097809 GACTGCATGGCGACCAATACCTGCTTCGCTCC
1 GACTGCATGGCGACCAATA-CTGCTTCGCCCC
*
9097841 GACTGCATGGAGACCAAT
1 GACTGCATGGCGACCAAT
9097859 CTCACCCCTG
Statistics
Matches: 44, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
29 15 0.34
31 2 0.05
32 27 0.61
ACGTcount: A:0.20, C:0.35, G:0.23, T:0.22
Consensus pattern (31 bp):
GACTGCATGGCGACCAATACTGCTTCGCCCC
Found at i:9108398 original size:30 final size:30
Alignment explanation
Indices: 9108364--9108423 Score: 120
Period size: 30 Copynumber: 2.0 Consensus size: 30
9108354 ATAGTATCGA
9108364 TACTAGTTCTTCGTTTTGGGGAAATTCGTG
1 TACTAGTTCTTCGTTTTGGGGAAATTCGTG
9108394 TACTAGTTCTTCGTTTTGGGGAAATTCGTG
1 TACTAGTTCTTCGTTTTGGGGAAATTCGTG
9108424 AGTTTCTGGG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.17, C:0.13, G:0.27, T:0.43
Consensus pattern (30 bp):
TACTAGTTCTTCGTTTTGGGGAAATTCGTG
Found at i:9121468 original size:40 final size:40
Alignment explanation
Indices: 9121387--9121482 Score: 115
Period size: 40 Copynumber: 2.4 Consensus size: 40
9121377 TGTAGTTTAT
* *
9121387 AATAATATATTTATAATTATTTGTTTTATTTTAAATAATTAA
1 AATAATATATTT-TAAATATTTGTTATATTTTAAATAATT-A
*
9121429 AATAATATATTTTACAATA-TT-TTATATTTTTAATAATTA
1 AATAATATATTTTA-AATATTTGTTATATTTTAAATAATTA
*
9121468 AAGAATATATTTTAA
1 AATAATATATTTTAA
9121483 TAATACAAAA
Statistics
Matches: 49, Mismatches: 4, Indels: 6
0.83 0.07 0.10
Matches are distributed among these distances:
38 1 0.02
39 14 0.29
40 15 0.31
41 4 0.08
42 15 0.31
ACGTcount: A:0.45, C:0.01, G:0.02, T:0.52
Consensus pattern (40 bp):
AATAATATATTTTAAATATTTGTTATATTTTAAATAATTA
Found at i:9123484 original size:41 final size:41
Alignment explanation
Indices: 9123439--9123546 Score: 189
Period size: 41 Copynumber: 2.6 Consensus size: 41
9123429 ATACCTAAAG
*
9123439 TTTAGTTTTTATTTCATTTTAGTACCCCTGTCGTTAAAAAT
1 TTTAGTTTTTATTTCATTTTAGTACCCCTGTCATTAAAAAT
*
9123480 TTTAGTTTTTTTTTCATTTTAGTACCCCTGTCATTAAAAAT
1 TTTAGTTTTTATTTCATTTTAGTACCCCTGTCATTAAAAAT
*
9123521 TTTAGTTTTTGTTTCATTTTAGTACC
1 TTTAGTTTTTATTTCATTTTAGTACC
9123547 AACATTCAAA
Statistics
Matches: 64, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
41 64 1.00
ACGTcount: A:0.22, C:0.14, G:0.09, T:0.55
Consensus pattern (41 bp):
TTTAGTTTTTATTTCATTTTAGTACCCCTGTCATTAAAAAT
Found at i:9126162 original size:9 final size:9
Alignment explanation
Indices: 9126148--9126189 Score: 57
Period size: 9 Copynumber: 4.4 Consensus size: 9
9126138 CCTCATACAC
9126148 TTTATTATT
1 TTTATTATT
9126157 TTTATTATT
1 TTTATTATT
9126166 TATTATTATT
1 T-TTATTATT
*
9126176 ATTATTATT
1 TTTATTATT
9126185 CTTTA
1 -TTTA
9126190 CAAACAAAGA
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
9 18 0.62
10 11 0.38
ACGTcount: A:0.26, C:0.02, G:0.00, T:0.71
Consensus pattern (9 bp):
TTTATTATT
Found at i:9126164 original size:3 final size:3
Alignment explanation
Indices: 9126149--9126184 Score: 54
Period size: 3 Copynumber: 11.7 Consensus size: 3
9126139 CTCATACACT
*
9126149 TTA TTA TTT TTA TTA TTTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA -TTA TTA TTA TTA TTA TTA TT
9126185 CTTTACAAAC
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
3 27 0.90
4 3 0.10
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (3 bp):
TTA
Found at i:9126169 original size:16 final size:16
Alignment explanation
Indices: 9126148--9126181 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
9126138 CCTCATACAC
*
9126148 TTTATTATTTTTATTA
1 TTTATTATTATTATTA
9126164 TTTATTATTATTATTA
1 TTTATTATTATTATTA
9126180 TT
1 TT
9126182 ATTCTTTACA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (16 bp):
TTTATTATTATTATTA
Found at i:9132735 original size:81 final size:81
Alignment explanation
Indices: 9132639--9132792 Score: 272
Period size: 81 Copynumber: 1.9 Consensus size: 81
9132629 AGTAAAAATA
* *
9132639 CCTAAAGAATAGCCCTCTAGCTACTCACCTCCGTATCCTATTGATAATTCTTTCAATAAGGACAT
1 CCTAAAGAATAGCCCTCTAGCTACCCACCTCCGTATCCTAATGATAATTCTTTCAATAAGGACAT
9132704 TACGATCTTAAAAACG
66 TACGATCTTAAAAACG
* *
9132720 CCTAAAGAATAGCCCTCTAGCTACCCACCTCCGTATTCTAATGGTAATTCTTTCAATAAGGACAT
1 CCTAAAGAATAGCCCTCTAGCTACCCACCTCCGTATCCTAATGATAATTCTTTCAATAAGGACAT
9132785 TACGATCT
66 TACGATCT
9132793 GAGCTGTTAA
Statistics
Matches: 69, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
81 69 1.00
ACGTcount: A:0.32, C:0.27, G:0.12, T:0.30
Consensus pattern (81 bp):
CCTAAAGAATAGCCCTCTAGCTACCCACCTCCGTATCCTAATGATAATTCTTTCAATAAGGACAT
TACGATCTTAAAAACG
Found at i:9139909 original size:20 final size:20
Alignment explanation
Indices: 9139848--9139961 Score: 80
Period size: 20 Copynumber: 5.9 Consensus size: 20
9139838 CATAAAAACT
*
9139848 TAATATTTAATTAAAAAAATA
1 TAATATTAAATT-AAAAAATA
* * *
9139869 TAACATTAAGATT-TAAGATA
1 TAATATTAA-ATTAAAAAATA
*
9139889 TAATATTCAATTAAAAAATA
1 TAATATTAAATTAAAAAATA
* *
9139909 TAAAATTAAACATAAAAAA-A
1 TAATATTAAA-TTAAAAAATA
9139929 TAA-A-T--A-TAAAAAATA
1 TAATATTAAATTAAAAAATA
*
9139944 TAATATTCAATTAAAAAA
1 TAATATTAAATTAAAAAA
9139962 CATAGCATAA
Statistics
Matches: 73, Mismatches: 11, Indels: 19
0.71 0.11 0.18
Matches are distributed among these distances:
14 7 0.10
15 4 0.05
16 2 0.03
17 1 0.01
18 1 0.01
19 5 0.07
20 36 0.49
21 14 0.19
22 3 0.04
ACGTcount: A:0.63, C:0.04, G:0.02, T:0.32
Consensus pattern (20 bp):
TAATATTAAATTAAAAAATA
Found at i:9139935 original size:41 final size:41
Alignment explanation
Indices: 9139832--9139935 Score: 104
Period size: 41 Copynumber: 2.5 Consensus size: 41
9139822 ATTAAAAAAC
* * * *
9139832 ATTAAACATAAAAACTTAATATTTAATTAAAAAAATATAAC
1 ATTAAACATAAAAAATAAATATTCAATTAAAAAAATATAAA
* ** *
9139873 ATT-AAGATTTAAGATATAATATTCAATT-AAAAAATATAAA
1 ATTAAACATAAAAAATA-AATATTCAATTAAAAAAATATAAA
9139913 ATTAAACATAAAAAAATAAATAT
1 ATTAAACAT-AAAAAATAAATAT
9139936 AAAAAATATA
Statistics
Matches: 48, Mismatches: 12, Indels: 6
0.73 0.18 0.09
Matches are distributed among these distances:
40 21 0.44
41 22 0.46
42 5 0.10
ACGTcount: A:0.62, C:0.05, G:0.02, T:0.32
Consensus pattern (41 bp):
ATTAAACATAAAAAATAAATATTCAATTAAAAAAATATAAA
Found at i:9140365 original size:22 final size:23
Alignment explanation
Indices: 9140306--9140379 Score: 61
Period size: 21 Copynumber: 3.5 Consensus size: 23
9140296 ATCCTCCAGG
*
9140306 GGGCTCTACATGTAAA--TTAAA
1 GGGCTCAACATGTAAACCTTAAA
* *
9140327 GGGCTCAAAATAT-AACCTT-AA
1 GGGCTCAACATGTAAACCTTAAA
* *
9140348 GGGCTCGACATGTAAACC--AGA
1 GGGCTCAACATGTAAACCTTAAA
9140369 GGGCTCAACAT
1 GGGCTCAACAT
9140380 CAAAATTGGT
Statistics
Matches: 41, Mismatches: 8, Indels: 8
0.72 0.14 0.14
Matches are distributed among these distances:
20 2 0.05
21 33 0.80
22 6 0.15
ACGTcount: A:0.36, C:0.20, G:0.22, T:0.22
Consensus pattern (23 bp):
GGGCTCAACATGTAAACCTTAAA
Found at i:9144505 original size:29 final size:30
Alignment explanation
Indices: 9144446--9144527 Score: 98
Period size: 30 Copynumber: 2.7 Consensus size: 30
9144436 TTTGACTAAT
*
9144446 GACTAAAATATAAA-TTTAAAAAGTTTAAGG
1 GACT-AAATATAAATTTTGAAAAGTTTAAGG
*
9144476 G-TTAAAGTATAAATTTTGAAAAGTTT-AGG
1 GACTAAA-TATAAATTTTGAAAAGTTTAAGG
9144505 GACTAAATATATAATTTTGAAAA
1 GACTAAATATA-AATTTTGAAAA
9144528 ATTATATATT
Statistics
Matches: 45, Mismatches: 3, Indels: 8
0.80 0.05 0.14
Matches are distributed among these distances:
28 3 0.07
29 15 0.33
30 27 0.60
ACGTcount: A:0.49, C:0.02, G:0.15, T:0.34
Consensus pattern (30 bp):
GACTAAATATAAATTTTGAAAAGTTTAAGG
Found at i:9144883 original size:20 final size:19
Alignment explanation
Indices: 9144847--9144889 Score: 50
Period size: 20 Copynumber: 2.2 Consensus size: 19
9144837 GAATTGAATT
* * *
9144847 TTAAATTCAATTTAATTAG
1 TTAAATTCAAGTAAATTAA
9144866 TTAAATGTCAAGTAAATTAA
1 TTAAAT-TCAAGTAAATTAA
9144886 TTAA
1 TTAA
9144890 TAAATACTAG
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
19 6 0.30
20 14 0.70
ACGTcount: A:0.47, C:0.05, G:0.07, T:0.42
Consensus pattern (19 bp):
TTAAATTCAAGTAAATTAA
Found at i:9156049 original size:21 final size:21
Alignment explanation
Indices: 9156023--9156062 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
9156013 CAGAACCCCA
*
9156023 GGGGGGTATCGATTCCCCTGT
1 GGGGGGAATCGATTCCCCTGT
*
9156044 GGGGGGAATCGGTTCCCCT
1 GGGGGGAATCGATTCCCCT
9156063 TCAAAGGGGG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.10, C:0.25, G:0.40, T:0.25
Consensus pattern (21 bp):
GGGGGGAATCGATTCCCCTGT
Found at i:9159963 original size:22 final size:21
Alignment explanation
Indices: 9159921--9159960 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
9159911 GAGTTTGTTT
*
9159921 TCATTTTTCAATTTTGAAACA
1 TCATTTTTCAATTTTAAAACA
9159942 TCATTTTT-ATATTTTAAAA
1 TCATTTTTCA-ATTTTAAAA
9159961 ACAATTTCTC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 1 0.06
21 16 0.94
ACGTcount: A:0.35, C:0.10, G:0.03, T:0.53
Consensus pattern (21 bp):
TCATTTTTCAATTTTAAAACA
Found at i:9172583 original size:44 final size:44
Alignment explanation
Indices: 9172520--9172607 Score: 176
Period size: 44 Copynumber: 2.0 Consensus size: 44
9172510 TTACCAATTT
9172520 ATTATTTTTGAAACTTTAGTGGGAAAAACAAAACTTAATCAAAC
1 ATTATTTTTGAAACTTTAGTGGGAAAAACAAAACTTAATCAAAC
9172564 ATTATTTTTGAAACTTTAGTGGGAAAAACAAAACTTAATCAAAC
1 ATTATTTTTGAAACTTTAGTGGGAAAAACAAAACTTAATCAAAC
9172608 TCAGTGGAGT
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
44 44 1.00
ACGTcount: A:0.45, C:0.11, G:0.11, T:0.32
Consensus pattern (44 bp):
ATTATTTTTGAAACTTTAGTGGGAAAAACAAAACTTAATCAAAC
Found at i:9174493 original size:20 final size:20
Alignment explanation
Indices: 9174468--9174522 Score: 92
Period size: 20 Copynumber: 2.8 Consensus size: 20
9174458 GGCCATCCGA
*
9174468 CCGAGGCCATCTGAAAGCAT
1 CCGAGGCCATCCGAAAGCAT
*
9174488 CCGAGGCCATCCGAGAGCAT
1 CCGAGGCCATCCGAAAGCAT
9174508 CCGAGGCCATCCGAA
1 CCGAGGCCATCCGAA
9174523 CGAGCTATGC
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 32 1.00
ACGTcount: A:0.27, C:0.35, G:0.27, T:0.11
Consensus pattern (20 bp):
CCGAGGCCATCCGAAAGCAT
Found at i:9174498 original size:10 final size:10
Alignment explanation
Indices: 9174485--9174521 Score: 58
Period size: 10 Copynumber: 3.7 Consensus size: 10
9174475 CATCTGAAAG
9174485 CATCCGAGGC
1 CATCCGAGGC
9174495 CATCCGAGAG-
1 CATCCGAG-GC
9174505 CATCCGAGGC
1 CATCCGAGGC
9174515 CATCCGA
1 CATCCGA
9174522 ACGAGCTATG
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
9 1 0.04
10 23 0.92
11 1 0.04
ACGTcount: A:0.24, C:0.38, G:0.27, T:0.11
Consensus pattern (10 bp):
CATCCGAGGC
Found at i:9174560 original size:33 final size:33
Alignment explanation
Indices: 9174506--9174590 Score: 104
Period size: 33 Copynumber: 2.6 Consensus size: 33
9174496 ATCCGAGAGC
* * *
9174506 ATCCGAGGCCATCCGAACGAGCTATGCGA-GGA
1 ATCCGAGGGCAACCGAGCGAGCTATGCGAGGGA
*
9174538 CATTCGAGGGCAACCGAGCGAGCTATGCGAGGGA
1 -ATCCGAGGGCAACCGAGCGAGCTATGCGAGGGA
9174572 ATCCGA--GCAACCGAGCGAG
1 ATCCGAGGGCAACCGAGCGAG
9174591 GGTAGGTCGC
Statistics
Matches: 46, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
31 13 0.28
33 30 0.65
34 3 0.07
ACGTcount: A:0.28, C:0.27, G:0.34, T:0.11
Consensus pattern (33 bp):
ATCCGAGGGCAACCGAGCGAGCTATGCGAGGGA
Found at i:9174678 original size:29 final size:29
Alignment explanation
Indices: 9174636--9174693 Score: 98
Period size: 29 Copynumber: 2.0 Consensus size: 29
9174626 TCGCCCGGAG
9174636 TGTAGGTCGCCATGCACTCCGGGCGACCT
1 TGTAGGTCGCCATGCACTCCGGGCGACCT
* *
9174665 TGTAGGTCGCCATGTATTCCGGGCGACCT
1 TGTAGGTCGCCATGCACTCCGGGCGACCT
9174694 ACCCTCGCTT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 27 1.00
ACGTcount: A:0.14, C:0.31, G:0.31, T:0.24
Consensus pattern (29 bp):
TGTAGGTCGCCATGCACTCCGGGCGACCT
Found at i:9174734 original size:33 final size:33
Alignment explanation
Indices: 9174697--9174780 Score: 123
Period size: 33 Copynumber: 2.5 Consensus size: 33
9174687 GCGACCTACC
* *
9174697 CTCGCTTGGTTGCCCTCGGATTCCCTCGCATAG
1 CTCGCTCGGTTGCCCTCGGATGCCCTCGCATAG
9174730 CTCGCTCGGTTGCCCTCGGATGCCCTCGCATAG
1 CTCGCTCGGTTGCCCTCGGATGCCCTCGCATAG
* * *
9174763 CTCGTTCGGATGGCCTCG
1 CTCGCTCGGTTGCCCTCG
9174781 TTCGGATGGC
Statistics
Matches: 46, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
33 46 1.00
ACGTcount: A:0.08, C:0.37, G:0.27, T:0.27
Consensus pattern (33 bp):
CTCGCTCGGTTGCCCTCGGATGCCCTCGCATAG
Found at i:9174782 original size:14 final size:14
Alignment explanation
Indices: 9174763--9174794 Score: 64
Period size: 14 Copynumber: 2.3 Consensus size: 14
9174753 CCTCGCATAG
9174763 CTCGTTCGGATGGC
1 CTCGTTCGGATGGC
9174777 CTCGTTCGGATGGC
1 CTCGTTCGGATGGC
9174791 CTCG
1 CTCG
9174795 GATGCCCAGC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.06, C:0.31, G:0.34, T:0.28
Consensus pattern (14 bp):
CTCGTTCGGATGGC
Found at i:9190358 original size:16 final size:16
Alignment explanation
Indices: 9190330--9190362 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
9190320 TAGGGACAGA
9190330 GTTATATAGGGAGTGG
1 GTTATATAGGGAGTGG
9190346 GTTATATAGGGAGTGG
1 GTTATATAGGGAGTGG
9190362 G
1 G
9190363 AGGGGGCTAG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.24, C:0.00, G:0.45, T:0.30
Consensus pattern (16 bp):
GTTATATAGGGAGTGG
Found at i:9190620 original size:17 final size:17
Alignment explanation
Indices: 9190593--9190631 Score: 71
Period size: 17 Copynumber: 2.4 Consensus size: 17
9190583 AATTTACAAT
9190593 TAATT-TAAATAATATC
1 TAATTATAAATAATATC
9190609 TAATTATAAATAATATC
1 TAATTATAAATAATATC
9190626 TAATTA
1 TAATTA
9190632 ATTTGATTCA
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
16 5 0.23
17 17 0.77
ACGTcount: A:0.51, C:0.05, G:0.00, T:0.44
Consensus pattern (17 bp):
TAATTATAAATAATATC
Found at i:9190661 original size:25 final size:25
Alignment explanation
Indices: 9190633--9190680 Score: 78
Period size: 25 Copynumber: 1.9 Consensus size: 25
9190623 ATCTAATTAA
*
9190633 TTTGATTCAAACATCTGCATTTAGT
1 TTTGATTAAAACATCTGCATTTAGT
*
9190658 TTTGATTAAAACATTTGCATTTA
1 TTTGATTAAAACATCTGCATTTA
9190681 TCCACAACCC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.31, C:0.12, G:0.10, T:0.46
Consensus pattern (25 bp):
TTTGATTAAAACATCTGCATTTAGT
Found at i:9194609 original size:27 final size:30
Alignment explanation
Indices: 9194576--9194634 Score: 79
Period size: 30 Copynumber: 2.1 Consensus size: 30
9194566 TTAAGCAATA
* *
9194576 ATAAATTT-TAA-AT-ATATATCAACTTTG
1 ATAAATTTGTAATATGATAAATAAACTTTG
9194603 ATAAATTTGTAATATGATAAATAAACTTTG
1 ATAAATTTGTAATATGATAAATAAACTTTG
9194633 AT
1 AT
9194635 TTAATTTAAT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
27 8 0.30
28 3 0.11
29 2 0.07
30 14 0.52
ACGTcount: A:0.46, C:0.05, G:0.07, T:0.42
Consensus pattern (30 bp):
ATAAATTTGTAATATGATAAATAAACTTTG
Found at i:9194736 original size:24 final size:24
Alignment explanation
Indices: 9194690--9194737 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
9194680 CAAATAAAAC
*
9194690 TTTATTTTTATCTAATTATATATA
1 TTTATTTTTATCTAATTAAATATA
*
9194714 TTTATTTTTATGTAGA-TAAATATA
1 TTTATTTTTATCTA-ATTAAATATA
9194738 ATCCATCTTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
24 20 0.95
25 1 0.05
ACGTcount: A:0.35, C:0.02, G:0.04, T:0.58
Consensus pattern (24 bp):
TTTATTTTTATCTAATTAAATATA
Found at i:9196491 original size:21 final size:21
Alignment explanation
Indices: 9196467--9196519 Score: 88
Period size: 21 Copynumber: 2.5 Consensus size: 21
9196457 GCAAATTCGC
9196467 GTTGCGATAGTTGGAAATCGA
1 GTTGCGATAGTTGGAAATCGA
*
9196488 GTTGCGATAGTTGGAAATCGC
1 GTTGCGATAGTTGGAAATCGA
*
9196509 GTTGTGATAGT
1 GTTGCGATAGT
9196520 ATACAGTGTC
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.25, C:0.09, G:0.34, T:0.32
Consensus pattern (21 bp):
GTTGCGATAGTTGGAAATCGA
Found at i:9196572 original size:20 final size:21
Alignment explanation
Indices: 9196547--9196598 Score: 61
Period size: 21 Copynumber: 2.5 Consensus size: 21
9196537 TTTTCCCAAT
*
9196547 TCGCAATGCGAA-TAAGTAAA
1 TCGCAATGCGAATTAAGAAAA
* **
9196567 TCGCAACGCGAATTGGGAAAA
1 TCGCAATGCGAATTAAGAAAA
9196588 TCGCAATGCGA
1 TCGCAATGCGA
9196599 TACTTACTAT
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
20 11 0.42
21 15 0.58
ACGTcount: A:0.38, C:0.19, G:0.25, T:0.17
Consensus pattern (21 bp):
TCGCAATGCGAATTAAGAAAA
Found at i:9196612 original size:20 final size:20
Alignment explanation
Indices: 9196587--9196640 Score: 108
Period size: 20 Copynumber: 2.7 Consensus size: 20
9196577 AATTGGGAAA
9196587 ATCGCAATGCGATACTTACT
1 ATCGCAATGCGATACTTACT
9196607 ATCGCAATGCGATACTTACT
1 ATCGCAATGCGATACTTACT
9196627 ATCGCAATGCGATA
1 ATCGCAATGCGATA
9196641 ATACAAAATC
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 34 1.00
ACGTcount: A:0.31, C:0.24, G:0.17, T:0.28
Consensus pattern (20 bp):
ATCGCAATGCGATACTTACT
Found at i:9196631 original size:61 final size:61
Alignment explanation
Indices: 9196584--9196700 Score: 153
Period size: 61 Copynumber: 1.9 Consensus size: 61
9196574 GCGAATTGGG
* * * * * *
9196584 AAAATCGCAATGCGATACTTACTATCGCAATGCGATACTTACTATCGCAATGCGATAATAC
1 AAAATCGCAACGAGATACTGACTATCGCAACGCGATACTGACTATCGCAACGCGATAATAC
* * *
9196645 AAAATCGCAACGAGATACTGACTTTCGCAACGCGATTCTGACTTTCGCAACGCGAT
1 AAAATCGCAACGAGATACTGACTATCGCAACGCGATACTGACTATCGCAACGCGAT
9196701 TTACATAGAG
Statistics
Matches: 47, Mismatches: 9, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
61 47 1.00
ACGTcount: A:0.33, C:0.25, G:0.17, T:0.25
Consensus pattern (61 bp):
AAAATCGCAACGAGATACTGACTATCGCAACGCGATACTGACTATCGCAACGCGATAATAC
Done.