Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: AWWV01012468.1 Corchorus capsularis cultivar CVL-1 contig12489, 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: 115651
ACGTcount: A:0.31, C:0.18, G:0.18, T:0.34
Found at i:3422 original size:2 final size:2
Alignment explanation
Indices: 3417--3442 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
3407 GCATATATCC
3417 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
3443 CGATGATCCT
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:18317 original size:1 final size:1
Alignment explanation
Indices: 18311--18343 Score: 66
Period size: 1 Copynumber: 33.0 Consensus size: 1
18301 CTAGGTGAAG
18311 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
18344 ATTATTATTT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 32 1.00
ACGTcount: A:0.00, C:0.00, G:0.00, T:1.00
Consensus pattern (1 bp):
T
Found at i:34011 original size:19 final size:19
Alignment explanation
Indices: 33989--34029 Score: 82
Period size: 19 Copynumber: 2.2 Consensus size: 19
33979 CACCGCTGGT
33989 GACACATGTCACCCTTTAG
1 GACACATGTCACCCTTTAG
34008 GACACATGTCACCCTTTAG
1 GACACATGTCACCCTTTAG
34027 GAC
1 GAC
34030 CCGCTTGTGT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.27, C:0.32, G:0.17, T:0.24
Consensus pattern (19 bp):
GACACATGTCACCCTTTAG
Found at i:34055 original size:75 final size:75
Alignment explanation
Indices: 33932--34085 Score: 290
Period size: 75 Copynumber: 2.1 Consensus size: 75
33922 AGTCCCTAAG
* *
33932 GGACACATGTCATCCTTTAGGACTCGCTTGTGTAATTTTCTAAACTCCACCGCTGGTGACACATG
1 GGACACATGTCACCCTTTAGGACCCGCTTGTGTAATTTTCTAAACTCCACCGCTGGTGACACATG
33997 TCACCCTTTA
66 TCACCCTTTA
34007 GGACACATGTCACCCTTTAGGACCCGCTTGTGTAATTTTCTAAACTCCACCGCTGGTGACACATG
1 GGACACATGTCACCCTTTAGGACCCGCTTGTGTAATTTTCTAAACTCCACCGCTGGTGACACATG
34072 TCACCCTTTA
66 TCACCCTTTA
34082 GGAC
1 GGAC
34086 CCTTGTGTAA
Statistics
Matches: 77, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
75 77 1.00
ACGTcount: A:0.23, C:0.29, G:0.18, T:0.30
Consensus pattern (75 bp):
GGACACATGTCACCCTTTAGGACCCGCTTGTGTAATTTTCTAAACTCCACCGCTGGTGACACATG
TCACCCTTTA
Found at i:34112 original size:54 final size:56
Alignment explanation
Indices: 34008--34113 Score: 189
Period size: 54 Copynumber: 1.9 Consensus size: 56
33998 CACCCTTTAG
34008 GACACATGTCACCCTTTAGGACCCGCTTGTGTAATTTTCTAAACTCCACCGCTGGT
1 GACACATGTCACCCTTTAGGACCCGCTTGTGTAATTTTCTAAACTCCACCGCTGGT
*
34064 GACACATGTCACCCTTTAGGA-CC-CTTGTGTAATTTTCTAAACTTCACCGC
1 GACACATGTCACCCTTTAGGACCCGCTTGTGTAATTTTCTAAACTCCACCGC
34114 GCGGTGTATT
Statistics
Matches: 49, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
54 26 0.53
55 2 0.04
56 21 0.43
ACGTcount: A:0.23, C:0.30, G:0.16, T:0.31
Consensus pattern (56 bp):
GACACATGTCACCCTTTAGGACCCGCTTGTGTAATTTTCTAAACTCCACCGCTGGT
Found at i:37982 original size:27 final size:27
Alignment explanation
Indices: 37949--38003 Score: 101
Period size: 27 Copynumber: 2.0 Consensus size: 27
37939 TGAGTTTAAT
37949 TTGTAATTTGTTTATTTATTTGGTTTG
1 TTGTAATTTGTTTATTTATTTGGTTTG
*
37976 TTGTAATTTGTTTGTTTATTTGGTTTG
1 TTGTAATTTGTTTATTTATTTGGTTTG
38003 T
1 T
38004 ATATAGTTAT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.13, C:0.00, G:0.20, T:0.67
Consensus pattern (27 bp):
TTGTAATTTGTTTATTTATTTGGTTTG
Found at i:40113 original size:2 final size:2
Alignment explanation
Indices: 40101--40149 Score: 75
Period size: 2 Copynumber: 25.5 Consensus size: 2
40091 TTTGGGCAAT
*
40101 TA TA T- TA TA TA TA TA CA 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 TA TA TA TA
40142 TA TA -A TA T
1 TA TA TA TA T
40150 CGGTTCATGG
Statistics
Matches: 43, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
1 2 0.05
2 41 0.95
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (2 bp):
TA
Found at i:52716 original size:12 final size:12
Alignment explanation
Indices: 52699--52723 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
52689 ATACTGGCAA
52699 GTTTTTTGTTTT
1 GTTTTTTGTTTT
52711 GTTTTTTGTTTT
1 GTTTTTTGTTTT
52723 G
1 G
52724 GCCATCAATA
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:0.00, C:0.00, G:0.20, T:0.80
Consensus pattern (12 bp):
GTTTTTTGTTTT
Found at i:55088 original size:2 final size:2
Alignment explanation
Indices: 55078--55113 Score: 65
Period size: 2 Copynumber: 18.5 Consensus size: 2
55068 AAAAAAGAAG
55078 AT AT A- AT 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 AT AT AT AT A
55114 GTCTCAAAAC
Statistics
Matches: 33, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 32 0.97
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:55898 original size:21 final size:21
Alignment explanation
Indices: 55872--55911 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
55862 AATTAAATCC
55872 ACATAAAATGGCACAAAACCT
1 ACATAAAATGGCACAAAACCT
* *
55893 ACATAAAGTGGGACAAAAC
1 ACATAAAATGGCACAAAAC
55912 TCTTATGTAT
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:0.53, C:0.20, G:0.15, T:0.12
Consensus pattern (21 bp):
ACATAAAATGGCACAAAACCT
Found at i:65282 original size:2 final size:2
Alignment explanation
Indices: 65257--65306 Score: 54
Period size: 2 Copynumber: 26.5 Consensus size: 2
65247 TTAGTACCAG
*
65257 TA TA TA TT TA TA -A T- TA TCA T- TA TA TA TA TA -A TA TA TA TA
1 TA TA TA TA TA TA TA TA TA T-A TA TA TA TA TA TA TA TA TA TA TA
65296 TA TA TA TA TA T
1 TA TA TA TA TA T
65307 TCTATTCTAC
Statistics
Matches: 41, Mismatches: 2, Indels: 10
0.77 0.04 0.19
Matches are distributed among these distances:
1 4 0.10
2 35 0.85
3 2 0.05
ACGTcount: A:0.46, C:0.02, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:66918 original size:14 final size:15
Alignment explanation
Indices: 66901--66933 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
66891 CTGTACTTTT
*
66901 CTCTATCTA-CAATC
1 CTCTAGCTAGCAATC
66915 CTCTAGCTAGCAATC
1 CTCTAGCTAGCAATC
66930 CTCT
1 CTCT
66934 CTTATCGCCA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 8 0.47
15 9 0.53
ACGTcount: A:0.24, C:0.36, G:0.06, T:0.33
Consensus pattern (15 bp):
CTCTAGCTAGCAATC
Found at i:72449 original size:14 final size:14
Alignment explanation
Indices: 72430--72456 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
72420 CAAAATAAAA
72430 TAAAAATAAGAATG
1 TAAAAATAAGAATG
72444 TAAAAATAAGAAT
1 TAAAAATAAGAAT
72457 AAAATATAAG
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:0.67, C:0.00, G:0.11, T:0.22
Consensus pattern (14 bp):
TAAAAATAAGAATG
Found at i:72678 original size:19 final size:19
Alignment explanation
Indices: 72654--72692 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
72644 TTTTTTTTAA
72654 TTGGAAAGTTTTATGACCT
1 TTGGAAAGTTTTATGACCT
72673 TTGGAAAGTTTTATGACCT
1 TTGGAAAGTTTTATGACCT
72692 T
1 T
72693 CACACCGAGT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.26, C:0.10, G:0.21, T:0.44
Consensus pattern (19 bp):
TTGGAAAGTTTTATGACCT
Found at i:78474 original size:12 final size:12
Alignment explanation
Indices: 78457--78481 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
78447 AAAGGGAATA
78457 TCAAGTCATTGG
1 TCAAGTCATTGG
78469 TCAAGTCATTGG
1 TCAAGTCATTGG
78481 T
1 T
78482 GGCACTAAGC
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:0.24, C:0.16, G:0.24, T:0.36
Consensus pattern (12 bp):
TCAAGTCATTGG
Found at i:80370 original size:32 final size:32
Alignment explanation
Indices: 80329--80399 Score: 88
Period size: 32 Copynumber: 2.2 Consensus size: 32
80319 ACCGTCATGT
* * *
80329 CGATGATGTGACATTGTCACGTCGGACCAAAC
1 CGATGATGTGACATTGCCACATCAGACCAAAC
* * *
80361 TGATGATGTGGCATTGCCACATCATACCAAAC
1 CGATGATGTGACATTGCCACATCAGACCAAAC
80393 CGATGAT
1 CGATGAT
80400 ATGGCATTAC
Statistics
Matches: 32, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.30, C:0.24, G:0.23, T:0.24
Consensus pattern (32 bp):
CGATGATGTGACATTGCCACATCAGACCAAAC
Found at i:80520 original size:29 final size:30
Alignment explanation
Indices: 80450--80529 Score: 83
Period size: 30 Copynumber: 2.7 Consensus size: 30
80440 AATCGTTTAA
* *
80450 AAAGGAACAAAACGTCCAAAATTGAGAGTTC
1 AAAGGAA-AAAATGTCCAAAATTGAGAATTC
** * *
80481 AGGGGTAAAAATATCCAAAATTGA-AATTC
1 AAAGGAAAAAATGTCCAAAATTGAGAATTC
80510 AAAGGAAAAAATGT-CAAAAT
1 AAAGGAAAAAATGTCCAAAAT
80530 GCCACAAGTT
Statistics
Matches: 39, Mismatches: 10, Indels: 3
0.75 0.19 0.06
Matches are distributed among these distances:
28 6 0.15
29 14 0.36
30 15 0.38
31 4 0.10
ACGTcount: A:0.53, C:0.11, G:0.17, T:0.19
Consensus pattern (30 bp):
AAAGGAAAAAATGTCCAAAATTGAGAATTC
Found at i:86419 original size:14 final size:14
Alignment explanation
Indices: 86400--86428 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
86390 ACTACCTAGA
86400 TTTTTGTTTTTTTT
1 TTTTTGTTTTTTTT
86414 TTTTTGTTTTTTTT
1 TTTTTGTTTTTTTT
86428 T
1 T
86429 AATTATATAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.00, C:0.00, G:0.07, T:0.93
Consensus pattern (14 bp):
TTTTTGTTTTTTTT
Found at i:91828 original size:12 final size:12
Alignment explanation
Indices: 91811--91835 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
91801 TAACGAGAAA
91811 GGATTTAGCTCC
1 GGATTTAGCTCC
91823 GGATTTAGCTCC
1 GGATTTAGCTCC
91835 G
1 G
91836 CCCCTCCAGG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.16, C:0.24, G:0.28, T:0.32
Consensus pattern (12 bp):
GGATTTAGCTCC
Found at i:96954 original size:3 final size:3
Alignment explanation
Indices: 96946--96989 Score: 54
Period size: 3 Copynumber: 15.0 Consensus size: 3
96936 GTTATGGATG
* * *
96946 TAT TAT TAT TAT TAT TA- TAA TAT TAT TAT TAT CAT CAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
96990 AAGATTGAAA
Statistics
Matches: 37, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
2 2 0.05
3 35 0.95
ACGTcount: A:0.36, C:0.05, G:0.00, T:0.59
Consensus pattern (3 bp):
TAT
Found at i:96969 original size:14 final size:14
Alignment explanation
Indices: 96952--96989 Score: 58
Period size: 14 Copynumber: 2.6 Consensus size: 14
96942 GATGTATTAT
96952 TATTATTATTATAA
1 TATTATTATTATAA
*
96966 TATTATTATTATCA
1 TATTATTATTATAA
96980 TCATTATTAT
1 T-ATTATTAT
96990 AAGATTGAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
14 14 0.64
15 8 0.36
ACGTcount: A:0.37, C:0.05, G:0.00, T:0.58
Consensus pattern (14 bp):
TATTATTATTATAA
Found at i:97435 original size:26 final size:26
Alignment explanation
Indices: 97396--97445 Score: 91
Period size: 26 Copynumber: 1.9 Consensus size: 26
97386 TAGTTACCGG
*
97396 ATTAAAAGTTTAGTGTTTTTATTCCC
1 ATTAAAAGTCTAGTGTTTTTATTCCC
97422 ATTAAAAGTCTAGTGTTTTTATTC
1 ATTAAAAGTCTAGTGTTTTTATTC
97446 TCCAATAATT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.28, C:0.10, G:0.12, T:0.50
Consensus pattern (26 bp):
ATTAAAAGTCTAGTGTTTTTATTCCC
Found at i:98541 original size:334 final size:333
Alignment explanation
Indices: 97909--102819 Score: 7261
Period size: 333 Copynumber: 14.9 Consensus size: 333
97899 CCAAAAACCG
* * *
97909 CGGCAAAAATTTTGC-AAAATTAACCCGAAAGATTTTTCCTCAATTTTTAGCCACAATACTTGTA
1 CGGCAAAAATTTTGCAAAAATTGACCCGAAATATTTTTCCTCAATTTTTAGCCACAATACTCGTA
* * * *
97973 AAAATTATATAATAAAATGCTAGAAAGATTGAAGGGCTTTTCATGCTTCTTATATCA-TTTTTAA
66 AAAATTATATAATACAATGCTAGAAAGATTGAAGGGATTTTCATGCTTCTAATATCATTTTTTCA
* * * * * * * *
98037 GTTTTTCCAGGATTAAATCTCAAATTAAATCGAAACGAGATTCAGATGTTTGTAAAAATAAATGT
131 GTTTTTCCCGAATTAAATTTCTAATTAAATCGAAACGAGATTCACATGGTCGTAAAAACAAATGT
*
98102 TTAACTCCATTGCGGCTGAGATTTGGGATGAT-GAATATAAATATTTCAATGAGTCTTGGCAGCA
196 TTAACTCCATTGCGGCTGAGATTTGGGATG-TCGAATATAAATATTTCAGTGAGTCTTGGCAGCA
* * * * *
98166 AAAACCATGCAAAACGGAGCCGGGGCCCTGGAACACGTTTTTAGCCAAAAATCGTGATGGGTTAG
260 AAAATCATGCAAAACTGAGCCGGGGCCCTGAAACGCGTTTTTAGCCAAAAACCGTGAT-GGTTAG
98231 TACACGATTT
324 TACACGATTT
* * * *
98241 CGGCAAAAATTATGCAAAAATTAACCCGAAATATTTTCCCTCAATTTTAAGCCACAATACTCGTA
1 CGGCAAAAATTTTGCAAAAATTGACCCGAAATATTTTTCCTCAATTTTTAGCCACAATACTCGTA
* * *
98306 AAAATTATATACTACAATGCTAGAAAGATTGAAGGGATTTTCCTGCATCTAATATCATTTTTTCA
66 AAAATTATATAATACAATGCTAGAAAGATTGAAGGGATTTTCATGCTTCTAATATCATTTTTTCA
* *
98371 GTTTTTCCCGAATTAAATTTCTAATTAAATCGAAACGAGATTCAGATGGTCGTAAATACAAATGT
131 GTTTTTCCCGAATTAAATTTCTAATTAAATCGAAACGAGATTCACATGGTCGTAAAAACAAATGT
* * * *
98436 TTAACTCCATTGCGGCTGAGATTTGGGATGTTGAATATAAATTTTTCAATGAGACTTGGCAGCAA
196 TTAACTCCATTGCGGCTGAGATTTGGGATGTCGAATATAAATATTTCAGTGAGTCTTGGCAGCAA
* *
98501 AAATCATGCAAAACTGAGTCGGGGCCCTGTAACGCGTTTTTAGCCAAAAACCGTGAT-G---GTA
261 AAATCATGCAAAACTGAGCCGGGGCCCTGAAACGCGTTTTTAGCCAAAAACCGTGATGGTTAGTA
98562 CACGATTT
326 CACGATTT
* *
98570 CGGCAAAAATTTTGCAAAAATTGACCCGAATTATTTTTCCTCAATTTTTAGCCACAATACTAGTA
1 CGGCAAAAATTTTGCAAAAATTGACCCGAAATATTTTTCCTCAATTTTTAGCCACAATACTCGTA
*
98635 AAAATTATATAATACAATGCTAGAAAGATTGACGGGATTTTCATGCTTCTAATATCATTTTTTTC
66 AAAATTATATAATACAATGCTAGAAAGATTGAAGGGATTTTCATGCTTCTAATATCA-TTTTTTC
98700 AGTTTTTCCCGAATTAAATTTCTAATTAAATCGAAACGAG------A---T--T-----CAAATG
130 AGTTTTTCCCGAATTAAATTTCTAATTAAATCGAAACGAGATTCACATGGTCGTAAAAACAAATG
* * *
98749 TTAAACTCCATTGCGGCTGAGATTTGGGATGTTGAATATAAATATTTCAGTGAGTCTTGGCAACA
195 TTTAACTCCATTGCGGCTGAGATTTGGGATGTCGAATATAAATATTTCAGTGAGTCTTGGCAGCA
* * * * * * *
98814 AAAATCATGGAAAATTGAGCTGGAGCCCTGAAATGTGTTTTTAGCCAAAAACCGGGATGGTTAGT
260 AAAATCATGCAAAACTGAGCCGGGGCCCTGAAACGCGTTTTTAGCCAAAAACCGTGATGGTTAGT
98879 ACACGATTT
325 ACACGATTT
* * * * *
98888 CGGTAAAAATTTTTCAAAAATTAATCCGAAATATTTTTCCTCAAATTTTAGCCACAATACTCGTA
1 CGGCAAAAATTTTGCAAAAATTGACCCGAAATATTTTTCCTCAATTTTTAGCCACAATACTCGTA
* *
98953 AAAATTATATAATACAATGCCAGAAAGATTGAAGGGATTTTCATGCTTCTAAGATCATTTTTTCA
66 AAAATTATATAATACAATGCTAGAAAGATTGAAGGGATTTTCATGCTTCTAATATCATTTTTTCA
* *
99018 GTTTTTCCCGAATTAAATTTCTAATTAAATCGAAACGAGATTCATAAGGTCGTAAAAACAAATGT
131 GTTTTTCCCGAATTAAATTTCTAATTAAATCGAAACGAGATTCACATGGTCGTAAAAACAAATGT
99083 TTAACTCCATTGCGGCTGAGATTTGGGATGTCGAATATAAATATTTCAGTGAGTCTTGGCAGCAA
196 TTAACTCCATTGCGGCTGAGATTTGGGATGTCGAATATAAATATTTCAGTGAGTCTTGGCAGCAA
* *
99148 AAATCATGCAAAACTAAGCCGGGGCCCTGAAACGCGTTTTTAGCTAAAAACCGTGATTTCGGCAA
261 AAATCATGCAAAACTGAGCCGGGGCCCTGAAACGCGTTTTTAGCCAAAAACCGTGA--T-GG---
99213 AAATTTTGCAAATGTACACGATTT
320 -----TT----A-GTACACGATTT
* *
99237 CGGCAAAAATTTTGCAAAACTTGACCCGAAATATTTTTCCTCAATTTTTAGGCACAATACTCGTA
1 CGGCAAAAATTTTGCAAAAATTGACCCGAAATATTTTTCCTCAATTTTTAGCCACAATACTCGTA
*
99302 AAAATTATATAATACAATGCCAGAAAGATTGAAGGGATTTTCATGCTTCTAATATCATTTTTTCA
66 AAAATTATATAATACAATGCTAGAAAGATTGAAGGGATTTTCATGCTTCTAATATCATTTTTTCA
99367 GTTTTTCCCGAATTAAATTTCTAATTAAATCGAAACGAGATTCACATGGTCGTAAAAACAAATGT
131 GTTTTTCCCGAATTAAATTTCTAATTAAATCGAAACGAGATTCACATGGTCGTAAAAACAAATGT
99432 TTAACTCCATTGCGGCTGAGATTTGGGATGTCGAATATAAATATTTCAGTGAGTCTTGGCAGCAA
196 TTAACTCCATTGCGGCTGAGATTTGGGATGTCGAATATAAATATTTCAGTGAGTCTTGGCAGCAA
* * *
99497 AAATCATGCAAAACTGAGCCGGGGCCCTGAAACGTGTTTTTAGCCAAAAACCTTGATGGTTAGTG
261 AAATCATGCAAAACTGAGCCGGGGCCCTGAAACGCGTTTTTAGCCAAAAACCGTGATGGTTAGTA
99562 CACGATTT
326 CACGATTT
* * * *
99570 CGGCAAAAATTTTACGAAAATTGACCCGAAATATTTTTCCTCAATTTTTAGCCACAATACT-ATT
1 CGGCAAAAATTTTGCAAAAATTGACCCGAAATATTTTTCCTCAATTTTTAGCCACAATACTCGTA
99634 AAAATTATATAATACAATGCTAGAAAGATTGAAGGGATTTTCATGCTTCTAATATCATTTTTTCA
66 AAAATTATATAATACAATGCTAGAAAGATTGAAGGGATTTTCATGCTTCTAATATCATTTTTTC-
* * *
99699 AGTTTTTCCTGACTTAAATTTCTAATTAAATCGAAACGATATTCACATGGTCGTAAAAACAAATG
130 AGTTTTTCCCGAATTAAATTTCTAATTAAATCGAAACGAGATTCACATGGTCGTAAAAACAAATG
*
99764 TTTAACTCCATCGCGGCTGAGATTTGGGATGTACGAATATAAATATTTCAGTGAGTCTTGGCAGC
195 TTTAACTCCATTGCGGCTGAGATTTGGGATGT-CGAATATAAATATTTCAGTGAGTCTTGGCAGC
* *
99829 -AAAATCATGCAAAACTGAGCCGAGGGCACATG-AACGTGTTTTTAGCC-AAAACCGTGATGGTT
259 AAAAATCATGCAAAACTGAGCCG-GGGC-CCTGAAACGCGTTTTTAGCCAAAAACCGTGATGGTT
99891 AGTACACGATTT
322 AGTACACGATTT
* **
99903 CGGCAAAAA-TTTGC-AAAATTGACCCAAAATA-TTTTCCTCAATTTTTAGCCACAATACTATTA
1 CGGCAAAAATTTTGCAAAAATTGACCCGAAATATTTTTCCTCAATTTTTAGCCACAATACTCGTA
* *
99965 AAAATTATATAATACAATGCGAGATAGATTGAAGGGATTTTCATGCTTCTAATATCA-TTTTTCA
66 AAAATTATATAATACAATGCTAGAAAGATTGAAGGGATTTTCATGCTTCTAATATCATTTTTTCA
* *
100029 G-TTTTCCTGAATTAAATTTCTAATTAAATCGAAACGATATTCACATGGTCGTAAAAACAAATGT
131 GTTTTTCCCGAATTAAATTTCTAATTAAATCGAAACGAGATTCACATGGTCGTAAAAACAAATGT
100093 TTAACTCCATTGCGGCTGAGATTTGGGATGTCGAATATAAATATTTCAGTGAGTCTTGGCAGCAA
196 TTAACTCCATTGCGGCTGAGATTTGGGATGTCGAATATAAATATTTCAGTGAGTCTTGGCAGCAA
* * * *
100158 AAATCATGGAAAACTGAGCCGGGGCCTTGAAACGTGTTTTTAGCCAAAAACCGTGATAGTTAGTA
261 AAATCATGCAAAACTGAGCCGGGGCCCTGAAACGCGTTTTTAGCCAAAAACCGTGATGGTTAGTA
100223 CACGATTT
326 CACGATTT
* *
100231 CGGCAAAAATTTTGCAAAAATTGACCCGAATTATTTTTCCTCAAATTTTAGCCACAATACTCGTA
1 CGGCAAAAATTTTGCAAAAATTGACCCGAAATATTTTTCCTCAATTTTTAGCCACAATACTCGTA
* *
100296 AAAATTATATAATACGATGCGAGAAAGATTGAAGGGATTTTCATGCTTCTAATATCATTTTTTCA
66 AAAATTATATAATACAATGCTAGAAAGATTGAAGGGATTTTCATGCTTCTAATATCATTTTTTCA
*
100361 GTTTTTACCGAATTAAATTTCTAATTAAATCGAAACGAGATTCACATGGTCGTAAAAACAAATGT
131 GTTTTTCCCGAATTAAATTTCTAATTAAATCGAAACGAGATTCACATGGTCGTAAAAACAAATGT
*
100426 TTAACTCTATTGCGGCTGAGATTTGGGATGTCGAATATAAATATTTCAGTGAGTCTTGGCAGCAA
196 TTAACTCCATTGCGGCTGAGATTTGGGATGTCGAATATAAATATTTCAGTGAGTCTTGGCAGCAA
* * *
100491 AAAGCATGCAAAACTAAGCCGGGACCCTGAAACGCGTTTTTAGCCAAAAACCGTGATGGTTAGTA
261 AAATCATGCAAAACTGAGCCGGGGCCCTGAAACGCGTTTTTAGCCAAAAACCGTGATGGTTAGTA
100556 CACGATTT
326 CACGATTT
* *
100564 CGGCAAAAATTTTGCAAAAATTGAGCCGAAATATTTTTCCTCAATTTTTAGCTACAATACTCG-A
1 CGGCAAAAATTTTGCAAAAATTGACCCGAAATATTTTTCCTCAATTTTTAGCCACAATACTCGTA
*
100628 AAAATTATATAATACAATGCT------A---CA---A-----A-G------ATATCATTTTTTCA
66 AAAATTATATAATACAATGCTAGAAAGATTGAAGGGATTTTCATGCTTCTAATATCATTTTTTCA
*
100669 GTTTTTTCCGAATTAAATTTCTAATTAAATCGAAACGAGATTCACATGGTCGTAAAAACAAATGT
131 GTTTTTCCCGAATTAAATTTCTAATTAAATCGAAACGAGATTCACATGGTCGTAAAAACAAATGT
* * *
100734 TTAATTCCATTGCGGCTGAAATTTGGGATGTTGAATATAAATATTTCAGTGAGTCTTGGCAGCAA
196 TTAACTCCATTGCGGCTGAGATTTGGGATGTCGAATATAAATATTTCAGTGAGTCTTGGCAGCAA
* * * **
100799 AAATCATGGAAAACAGAGCTGGATCCCTGAAACGCGTTTTTAGCCAAAAACC------G-T-G-A
261 AAATCATGCAAAACTGAGCCGGGGCCCTGAAACGCGTTTTTAGCCAAAAACCGTGATGGTTAGTA
100855 CACGATTT
326 CACGATTT
* * *
100863 CGGTAAAAATTTTGCAAAAATTGACCTGAAATATTTTTCCTCAAATTTTAGCCACAATACTCGTA
1 CGGCAAAAATTTTGCAAAAATTGACCCGAAATATTTTTCCTCAATTTTTAGCCACAATACTCGTA
*
100928 AAAATTATATAATACAATGCCAGAAAGATTGAAGGGATTTTCATGCTTCTAATATCATTTTTTCA
66 AAAATTATATAATACAATGCTAGAAAGATTGAAGGGATTTTCATGCTTCTAATATCATTTTTTCA
* * * *
100993 G-TTTTCCCGAATTAAATTTCTATTTAAATCGAAACGATATTCACATGGTCGTGAAAACAAATAT
131 GTTTTTCCCGAATTAAATTTCTAATTAAATCGAAACGAGATTCACATGGTCGTAAAAACAAATGT
* *
101057 TAAACTCCATTGCGGCTGAGATTTGGGATGTTC-AATATAAATATTTCAGTGAGTCTTGGAAGCA
196 TTAACTCCATTGCGGCTGAGATTTGGGATG-TCGAATATAAATATTTCAGTGAGTCTTGGCAGCA
* * * *
101121 AAAAGCATGCAGAACTAAGCCGGGACCCTGAAACGCGTTTTTAGCCAAAAACCGTGATGGTTAGT
260 AAAATCATGCAAAACTGAGCCGGGGCCCTGAAACGCGTTTTTAGCCAAAAACCGTGATGGTTAGT
*
101186 ACATGATTT
325 ACACGATTT
* * *
101195 CAGCAAAAATTTTGCAAAAATTGAGCCGAAATATTTTTCCTCATTTTTTAGCCACAATACTCG-A
1 CGGCAAAAATTTTGCAAAAATTGACCCGAAATATTTTTCCTCAATTTTTAGCCACAATACTCGTA
* * *
101259 AAACTTATATAATACAATGCTACAAAGATTGTAGGG-TTTTCA-G--------------------
66 AAAATTATATAATACAATGCTAGAAAGATTGAAGGGATTTTCATGCTTCTAATATCATTTTTTCA
* * * *
101302 GTTTTTCCTGAATTAAATTCCTAATTAAATCGAAACGATATTCACATAGTCGTAAAAACAAATGT
131 GTTTTTCCCGAATTAAATTTCTAATTAAATCGAAACGAGATTCACATGGTCGTAAAAACAAATGT
* * * *
101367 TTAACTCTATTGCGGCTGAGATTTGGGATGTTGAATATAAATATTTCAATGAGTCTTGGCTGCAA
196 TTAACTCCATTGCGGCTGAGATTTGGGATGTCGAATATAAATATTTCAGTGAGTCTTGGCAGCAA
* *
101432 AAATCATGCAAAACTGAGCCGGGGCCCTGAAACGCGTTTTTAGGCAAAAACCGTGATGATTAGTA
261 AAATCATGCAAAACTGAGCCGGGGCCCTGAAACGCGTTTTTAGCCAAAAACCGTGATGGTTAGTA
101497 CACGATTT
326 CACGATTT
* * *
101505 CGGCAAAAATTTTGCAAAAATTGAACAGAAATATTTTTCTTCAATTTTTAGCCACAATACTCGTA
1 CGGCAAAAATTTTGCAAAAATTGACCCGAAATATTTTTCCTCAATTTTTAGCCACAATACTCGTA
* * * *
101570 AAAATTATATAATACAATGCTACAAGGATTGAAGGGATTTACATTCTTCTAATATCATTTTTTCA
66 AAAATTATATAATACAATGCTAGAAAGATTGAAGGGATTTTCATGCTTCTAATATCATTTTTTCA
101635 GTTTTTCCCGAATTAAATTTCTAATTAAATCGAAACGAGATTCACATGGTCGTAAAAGA-AAATG
131 GTTTTTCCCGAATTAAATTTCTAATTAAATCGAAACGAGATTCACATGGTCGTAAAA-ACAAATG
* * * * *
101699 TTTAACACCATTCCAGCTGAGATTTGGGATGTGGAATATAAATATTTCATTGAGTCTTGGCAGCA
195 TTTAACTCCATTGCGGCTGAGATTTGGGATGTCGAATATAAATATTTCAGTGAGTCTTGGCAGCA
* * * *
101764 AAAATCATGGAAAACTGAGCCGCGGCCCTGAAATGTGTTTTTAGCCAAAAACCGTGATGGTTAGT
260 AAAATCATGCAAAACTGAGCCGGGGCCCTGAAACGCGTTTTTAGCCAAAAACCGTGATGGTTAGT
*
101829 AAACGATTT
325 ACACGATTT
* * *
101838 CGGTAAAAATTTTGCAAAAATTGACCCTAAATATTTTTCCTCAAATTTTAGCCACAATACTCGTA
1 CGGCAAAAATTTTGCAAAAATTGACCCGAAATATTTTTCCTCAATTTTTAGCCACAATACTCGTA
* *
101903 AAAATTATATAATAGAATGCCAGAAAGATTGAAGGGATTTTCATGCTTCTAATATCATTTTTTCA
66 AAAATTATATAATACAATGCTAGAAAGATTGAAGGGATTTTCATGCTTCTAATATCATTTTTTCA
* *
101968 GTTTTTCCCGAGTTAAATTTCTAATTAAATCGAAACGAGATTCACATGGTCGTAAGAACAAATGT
131 GTTTTTCCCGAATTAAATTTCTAATTAAATCGAAACGAGATTCACATGGTCGTAAAAACAAATGT
* * *
102033 TTAACTCCATTGTGGCTGAGATTTGGGATTTTGAATATAAATATTTCAGTGAGTCTTGGCAGCAA
196 TTAACTCCATTGCGGCTGAGATTTGGGATGTCGAATATAAATATTTCAGTGAGTCTTGGCAGCAA
* *
102098 AAATCATGCAAAACTGAGTCGGGGCCCTGAAACGTGTTTTTAGCCAAAAACCGTGATGGTTAGTA
261 AAATCATGCAAAACTGAGCCGGGGCCCTGAAACGCGTTTTTAGCCAAAAACCGTGATGGTTAGTA
102163 CACGATTT
326 CACGATTT
* *
102171 CGGCAAAAATTTTCCAAAAATTGACCCGAAATTATTTTTCCTCAAATTTTAGCCACAATACTCGT
1 CGGCAAAAATTTTGCAAAAATTGACCCGAAA-TATTTTTCCTCAATTTTTAGCCACAATACTCGT
*
102236 AAAAATTATATAATACAATGCCAGAAAGATTGAAGGGATTTTCATGCTTCTAATATCATTTTTTC
65 AAAAATTATATAATACAATGCTAGAAAGATTGAAGGGATTTTCATGCTTCTAATATCATTTTTTC
102301 AGTTTTTCCCGAATTAAATTTCTAATTAAATCGAAACGAGATTCACATGGTCGTAAAAACAAATG
130 AGTTTTTCCCGAATTAAATTTCTAATTAAATCGAAACGAGATTCACATGGTCGTAAAAACAAATG
*
102366 TTTAACTCCATTGTGGCTGAGATTTGGGATGTCGAATATAAATATTTCAGTGAGTCTTGGCAGCA
195 TTTAACTCCATTGCGGCTGAGATTTGGGATGTCGAATATAAATATTTCAGTGAGTCTTGGCAGCA
* * * *
102431 AAAAGCATGCAGAACTAAGCCGGGACCCTGAAACGCGTTTTTAGCCAAAAACCGTGATGGTTAGT
260 AAAATCATGCAAAACTGAGCCGGGGCCCTGAAACGCGTTTTTAGCCAAAAACCGTGATGGTTAGT
*
102496 ACATGATTT
325 ACACGATTT
* * *
102505 CAGCAAAAATTTTGCAAAAATTGAGCCGAAATATTTTTCCTCATTATTTTAGCCACAATACTCGT
1 CGGCAAAAATTTTGCAAAAATTGACCCGAAATATTTTTCCTCAAT-TTTTAGCCACAATACTCGT
*
102570 AAAAATTATATAATACAATGCCAGAAAGATTGAAGGGATTTTCATGCTTCTAATATCATTTTTTT
65 AAAAATTATATAATACAATGCTAGAAAGATTGAAGGGATTTTCATGCTTCTAATATCA--TTTTT
102635 TCAGTTTTTTCCCGAATTAAATTTCTAATTAAATCGAAACGAGATTCACATGGTCGTAAAAACAA
128 TCAG-TTTTTCCCGAATTAAATTTCTAATTAAATCGAAACGAGATTCACATGGTCGTAAAAACAA
*
102700 ATGTTTAACTCCATCGCGGCTGAGATTTGGGATGTCGAATATAAATATTTCAGTGAGTCTTGGCA
192 ATGTTTAACTCCATTGCGGCTGAGATTTGGGATGTCGAATATAAATATTTCAGTGAGTCTTGGCA
*
102765 GCAAAAATCATGCAAAACTGAGCCGGGGCCCTGAAACGTGTTTTTAGCCAAAAAC
257 GCAAAAATCATGCAAAACTGAGCCGGGGCCCTGAAACGCGTTTTTAGCCAAAAAC
102820 TTGCAAAAAA
Statistics
Matches: 4172, Mismatches: 287, Indels: 235
0.89 0.06 0.05
Matches are distributed among these distances:
299 67 0.02
300 22 0.01
301 1 0.00
302 1 0.00
306 1 0.00
308 184 0.04
309 3 0.00
310 238 0.06
311 34 0.01
312 6 0.00
314 116 0.03
315 2 0.00
317 48 0.01
318 124 0.03
319 1 0.00
320 1 0.00
321 1 0.00
323 162 0.04
324 17 0.00
326 5 0.00
327 51 0.01
328 149 0.04
329 132 0.03
330 102 0.02
331 189 0.05
332 177 0.04
333 1206 0.29
334 623 0.15
335 4 0.00
336 11 0.00
337 173 0.04
338 2 0.00
344 2 0.00
346 2 0.00
347 1 0.00
348 1 0.00
349 313 0.08
ACGTcount: A:0.35, C:0.16, G:0.17, T:0.32
Consensus pattern (333 bp):
CGGCAAAAATTTTGCAAAAATTGACCCGAAATATTTTTCCTCAATTTTTAGCCACAATACTCGTA
AAAATTATATAATACAATGCTAGAAAGATTGAAGGGATTTTCATGCTTCTAATATCATTTTTTCA
GTTTTTCCCGAATTAAATTTCTAATTAAATCGAAACGAGATTCACATGGTCGTAAAAACAAATGT
TTAACTCCATTGCGGCTGAGATTTGGGATGTCGAATATAAATATTTCAGTGAGTCTTGGCAGCAA
AAATCATGCAAAACTGAGCCGGGGCCCTGAAACGCGTTTTTAGCCAAAAACCGTGATGGTTAGTA
CACGATTT
Found at i:103629 original size:261 final size:264
Alignment explanation
Indices: 103116--103641 Score: 968
Period size: 261 Copynumber: 2.0 Consensus size: 264
103106 TTTTTAGCCA
103116 AAAACCGTGATGATCAGTACACGATTTCGGCAAAAATTTTGCAAAAATTGACCCGAAATATTTTT
1 AAAACCGTGATGATCAGTACACGATTTCGGCAAAAATTTTGCAAAAATTGACCCGAAATATTTTT
103181 CCTCAAATTTTAGCCACAATACTAGTAAAAATTATATAATACAATGCCAGAAAGATTGAAGGGAT
66 CCTCAAATTTTAGCCACAATACTAGTAAAAATTATATAATACAATGCCAGAAAGATTGAAGGGAT
* *
103246 TTTCATGCTTCTGATATCATTTTTTCAGTTTTTCCTGAATTAAATTTCTAATTAAATCGAAACGA
131 TTTCATGCTTCTAATATCATTTTTTCAGTTTTTCCCGAATTAAATTTCTAATTAAATCGAAACGA
*
103311 TATTCACATGGTCGTAAAAACAAATGTTTAACTCCATTGCGGCTGAGATTTGGGATGTCGAATAT
196 GATTCACATGGTCGTAAAAACAAATGTTTAACTCCATTGCGGCTGAGATTTGGGATGTCGAATAT
103376 AAAT
261 AAAT
* *
103380 AAAACCGTGATGGTTAGTACACGATTTC-GCAAAAATTTTGCAAAAATTGACCCGAAATATTTTT
1 AAAACCGTGATGATCAGTACACGATTTCGGCAAAAATTTTGCAAAAATTGACCCGAAATATTTTT
* *
103444 CCTCAAATTTTAGCCACAATACTCGTAAAAATTATATAATACAATGCCAGAAAGATTGACGGGA-
66 CCTCAAATTTTAGCCACAATACTAGTAAAAATTATATAATACAATGCCAGAAAGATTGAAGGGAT
103508 TTTCATGCTTCTAATATCA-TTTTTCAGTTTTTCCCGAATTAAATTTCTAATTAAATCGAAACGA
131 TTTCATGCTTCTAATATCATTTTTTCAGTTTTTCCCGAATTAAATTTCTAATTAAATCGAAACGA
103572 GATTCACATGGTCGTAAAAACAAATGTTTAACTCCATTGCGGCTGAGATTTGGGATGTCGAATAT
196 GATTCACATGGTCGTAAAAACAAATGTTTAACTCCATTGCGGCTGAGATTTGGGATGTCGAATAT
103637 AAAT
261 AAAT
103641 A
1 A
103642 TTTCAGTGAG
Statistics
Matches: 255, Mismatches: 7, Indels: 3
0.96 0.03 0.01
Matches are distributed among these distances:
261 113 0.44
262 18 0.07
263 98 0.38
264 26 0.10
ACGTcount: A:0.36, C:0.16, G:0.15, T:0.33
Consensus pattern (264 bp):
AAAACCGTGATGATCAGTACACGATTTCGGCAAAAATTTTGCAAAAATTGACCCGAAATATTTTT
CCTCAAATTTTAGCCACAATACTAGTAAAAATTATATAATACAATGCCAGAAAGATTGAAGGGAT
TTTCATGCTTCTAATATCATTTTTTCAGTTTTTCCCGAATTAAATTTCTAATTAAATCGAAACGA
GATTCACATGGTCGTAAAAACAAATGTTTAACTCCATTGCGGCTGAGATTTGGGATGTCGAATAT
AAAT
Found at i:103962 original size:594 final size:598
Alignment explanation
Indices: 102820--103975 Score: 2023
Period size: 594 Copynumber: 1.9 Consensus size: 598
102810 AGCCAAAAAC
* *
102820 TTGCAAAAAATCGACCCGAAATATTTTTCCTCAATTTTTAGCCACAATACTATTAAAAATTATAT
1 TTGCAAAAAATCGACCCGAAATATTTTTCCTCAAATTTTAGCCACAATACTAGTAAAAATTATAT
* *
102885 AATACAATGCTAGAAAGATTGAAGGGATTTTCATGCTTCTAATATCATTTTTTCAGTTTTTCATG
66 AATACAATGCCAGAAAGATTGAAGGGATTTTCATGCTTCTAATATCATTTTTTCAGTTTTTCACG
* * *
102950 ACTTAAATTTCTAATTAAATCGAAACGATATTCACATGGTCGTAAAATCAAATGTTTAACTCCAT
131 AATTAAATTTCTAATTAAATCGAAACGAGATTCACATGGTCGTAAAAACAAATGTTTAACTCCAT
*
103015 TGCGACTGAGATTTGGGATGTTGAATATAAATATTTCAATGAGTCCTGGCAGCAAAAATCATGGA
196 TGCGACTGAGATTTGGGATGTCGAATATAAATATTTCAATGAGTCCTGGCAGCAAAAATCATGGA
*
103080 AAACTGAGCCGGGGCCCTGTAACGCGTTTTTAGCCAAAAACCGTGATGATCAGTACACGATTTCG
261 AAACTGAGCCGGGGCCCTGAAACGCGTTTTTAGCCAAAAACCGTGATGATCAGTACACGATTTCG
103145 GCAAAAATTTTGCAAAAATTGACCCGAAATATTTTTCCTCAAATTTTAGCCACAATACTAGTAAA
326 GCAAAAATTTTGCAAAAATTGACCCGAAATATTTTTCCTCAAATTTTAGCCACAATACTAGTAAA
*
103210 AATTATATAATACAATGCCAGAAAGATTGAAGGGATTTTCATGCTTCTGATATCATTTTTTCAGT
391 AATTATATAATACAATGCCAGAAAGATTGAAGGGATTTTCATGCTTCTAATATCATTTTTTCAGT
* * *
103275 TTTTCCTGAATTAAATTTCTAATTAAATCGAAACGATATTCACATGGTCGTAAAAACAAATGTTT
456 TTTTCCCGAATTAAATATCTAATTAAATCGAAACGAGATTCACATGGTCGTAAAAACAAATGTTT
*
103340 AACTCCATTGCGGCTGAGATTTGGGATGT-CGAATATAAATAAAACCGTGATGGTTAGTACACGA
521 AACTCCATCGCGGCTGAGATTTGGGATGTACGAATATAAATAAAACCGTGATGGTTAGTACACGA
103404 TTTCGCAAAAATT
586 TTTCGCAAAAATT
* *
103417 TTGC-AAAAATTGACCCGAAATATTTTTCCTCAAATTTTAGCCACAATACTCGTAAAAATTATAT
1 TTGCAAAAAATCGACCCGAAATATTTTTCCTCAAATTTTAGCCACAATACTAGTAAAAATTATAT
* *
103481 AATACAATGCCAGAAAGATTGACGGGA-TTTCATGCTTCTAATATCA-TTTTTCAGTTTTTCCCG
66 AATACAATGCCAGAAAGATTGAAGGGATTTTCATGCTTCTAATATCATTTTTTCAGTTTTTCACG
103544 AATTAAATTTCTAATTAAATCGAAACGAGATTCACATGGTCGTAAAAACAAATGTTTAACTCCAT
131 AATTAAATTTCTAATTAAATCGAAACGAGATTCACATGGTCGTAAAAACAAATGTTTAACTCCAT
* * * *
103609 TGCGGCTGAGATTTGGGATGTCGAATATAAATATTTCAGTGAGTCTTGGCAGCAAAAATCATGTA
196 TGCGACTGAGATTTGGGATGTCGAATATAAATATTTCAATGAGTCCTGGCAGCAAAAATCATGGA
* * * *
103674 AAACTGAGCCGGGGCCCTGAAACGTGTTTTTAGCCAAAAACCGTGATGGTTAGTACAGGATTTCG
261 AAACTGAGCCGGGGCCCTGAAACGCGTTTTTAGCCAAAAACCGTGATGATCAGTACACGATTTCG
*
103739 GCAAAAATTTTGCAAAAATTGACCCGAAATATTTTTCCTCAAATTTTAGCCACAATACTCGTAAA
326 GCAAAAATTTTGCAAAAATTGACCCGAAATATTTTTCCTCAAATTTTAGCCACAATACTAGTAAA
103804 AATTATATAATACAATGCCAGAAAGATTGAAGGGATTTTCATGCTTCTAATATCATTTTTTCAGT
391 AATTATATAATACAATGCCAGAAAGATTGAAGGGATTTTCATGCTTCTAATATCATTTTTTCAGT
*
103869 TTTTCCCGAATTAAATATCTAATTAAATCGAAACGAGATTCACATGGTCGTAAAAAGAAATGTTT
456 TTTTCCCGAATTAAATATCTAATTAAATCGAAACGAGATTCACATGGTCGTAAAAACAAATGTTT
*
103934 AACTCTATCGCGGCTGAGATTTGGGATGTACGAATATAAATA
521 AACTCCATCGCGGCTGAGATTTGGGATGTACGAATATAAATA
103976 TTTCAGTGAG
Statistics
Matches: 529, Mismatches: 29, Indels: 4
0.94 0.05 0.01
Matches are distributed among these distances:
594 413 0.78
595 31 0.06
596 81 0.15
597 4 0.01
ACGTcount: A:0.35, C:0.16, G:0.16, T:0.33
Consensus pattern (598 bp):
TTGCAAAAAATCGACCCGAAATATTTTTCCTCAAATTTTAGCCACAATACTAGTAAAAATTATAT
AATACAATGCCAGAAAGATTGAAGGGATTTTCATGCTTCTAATATCATTTTTTCAGTTTTTCACG
AATTAAATTTCTAATTAAATCGAAACGAGATTCACATGGTCGTAAAAACAAATGTTTAACTCCAT
TGCGACTGAGATTTGGGATGTCGAATATAAATATTTCAATGAGTCCTGGCAGCAAAAATCATGGA
AAACTGAGCCGGGGCCCTGAAACGCGTTTTTAGCCAAAAACCGTGATGATCAGTACACGATTTCG
GCAAAAATTTTGCAAAAATTGACCCGAAATATTTTTCCTCAAATTTTAGCCACAATACTAGTAAA
AATTATATAATACAATGCCAGAAAGATTGAAGGGATTTTCATGCTTCTAATATCATTTTTTCAGT
TTTTCCCGAATTAAATATCTAATTAAATCGAAACGAGATTCACATGGTCGTAAAAACAAATGTTT
AACTCCATCGCGGCTGAGATTTGGGATGTACGAATATAAATAAAACCGTGATGGTTAGTACACGA
TTTCGCAAAAATT
Found at i:104072 original size:334 final size:333
Alignment explanation
Indices: 103380--104381 Score: 1848
Period size: 334 Copynumber: 3.0 Consensus size: 333
103370 GAATATAAAT
103380 AAAACCGTGATGGTTAGTACACGATTTC-GCAAAAATTTTGCAAAAATTGACCCGAAATATTTTT
1 AAAACCGTGATGGTTAGTACACGATTTCGGCAAAAATTTTGCAAAAATTGACCCGAAATATTTTT
*
103444 CCTCAAATTTTAGCCACAATACTCGTAAAAATTATATAATACAATGCCAGAAAGATTGACGGGA-
66 CCTCAAATTTTAGCCACAATACTCGTAAAAATTATATAATACAATGCCAGAAAGATTGAAGGGAT
103508 TTTCATGCTTCTAATATCA-TTTTTCAGTTTTTCCCGAATTAAATTTCTAATTAAATCGAAACGA
131 TTTCATGCTTCTAATATCATTTTTTCAGTTTTTCCCGAATTAAATTTCTAATTAAATCGAAACGA
*
103572 GATTCACATGGTCGTAAAAACAAATGTTTAACTCCATTGCGGCTGAGATTTGGGATGTCGAATAT
196 GATTCACATGGTCGTAAAAACAAATGTTTAACTCCATCGCGGCTGAGATTTGGGATGTCGAATAT
*
103637 AAATATTTCAGTGAGTCTTGGCAGCAAAAATCATGTAAAACTGAGCCGGGGCCCTGAAACGTGTT
261 AAATATTTCAGTGAGTCTTGGCAGCAAAAATCATGCAAAACTGAGCCGGGGCCCTGAAACGTGTT
103702 TTTAGCCA
326 TTTAGCCA
*
103710 AAAACCGTGATGGTTAGTACAGGATTTCGGCAAAAATTTTGCAAAAATTGACCCGAAATATTTTT
1 AAAACCGTGATGGTTAGTACACGATTTCGGCAAAAATTTTGCAAAAATTGACCCGAAATATTTTT
103775 CCTCAAATTTTAGCCACAATACTCGTAAAAATTATATAATACAATGCCAGAAAGATTGAAGGGAT
66 CCTCAAATTTTAGCCACAATACTCGTAAAAATTATATAATACAATGCCAGAAAGATTGAAGGGAT
*
103840 TTTCATGCTTCTAATATCATTTTTTCAGTTTTTCCCGAATTAAATATCTAATTAAATCGAAACGA
131 TTTCATGCTTCTAATATCATTTTTTCAGTTTTTCCCGAATTAAATTTCTAATTAAATCGAAACGA
* *
103905 GATTCACATGGTCGTAAAAAGAAATGTTTAACTCTATCGCGGCTGAGATTTGGGATGTACGAATA
196 GATTCACATGGTCGTAAAAACAAATGTTTAACTCCATCGCGGCTGAGATTTGGGATGT-CGAATA
*
103970 TAAATATTTCAGTGAGTCTTGGCAGCAAAAATCATGCAAAACTGAGCCGTGGCCCTGAAACGTGT
260 TAAATATTTCAGTGAGTCTTGGCAGCAAAAATCATGCAAAACTGAGCCGGGGCCCTGAAACGTGT
104035 TTTTAGCCA
325 TTTTAGCCA
104044 AAAACCGTGATGGTTAGTACACGATTTCGGCAAAAATTTTGCAAAAATTGACCCGAAATATTTTT
1 AAAACCGTGATGGTTAGTACACGATTTCGGCAAAAATTTTGCAAAAATTGACCCGAAATATTTTT
* *
104109 CCTCAATTTTTAGCCACAATACTCATAAAAATTATATAATACAATGCCAGAAAGATTGAAGGGAT
66 CCTCAAATTTTAGCCACAATACTCGTAAAAATTATATAATACAATGCCAGAAAGATTGAAGGGAT
* * *
104174 TTTCATGCTTCTAATATCATTTTTTCAGTTTTTCCTGAGTTAAATTTCTAATTAAATTGAAACGA
131 TTTCATGCTTCTAATATCATTTTTTCAGTTTTTCCCGAATTAAATTTCTAATTAAATCGAAACGA
*
104239 TATTCACATGGTCGTAAAAACAAATGTTTAACTCCATCGCGGCTGAGATTTGGGATGTCGAATAT
196 GATTCACATGGTCGTAAAAACAAATGTTTAACTCCATCGCGGCTGAGATTTGGGATGTCGAATAT
104304 AAATATTTCAGTGAGTCTTGGCAGCAAAAATCATGCAAAACTGAGCCGGGGCCCTGAAACGTGTT
261 AAATATTTCAGTGAGTCTTGGCAGCAAAAATCATGCAAAACTGAGCCGGGGCCCTGAAACGTGTT
104369 TTTAGCCA
326 TTTAGCCA
104377 AAAAC
1 AAAAC
104382 TTGCAAAAAA
Statistics
Matches: 649, Mismatches: 19, Indels: 5
0.96 0.03 0.01
Matches are distributed among these distances:
330 27 0.04
331 99 0.15
332 19 0.03
333 183 0.28
334 321 0.49
ACGTcount: A:0.35, C:0.17, G:0.17, T:0.31
Consensus pattern (333 bp):
AAAACCGTGATGGTTAGTACACGATTTCGGCAAAAATTTTGCAAAAATTGACCCGAAATATTTTT
CCTCAAATTTTAGCCACAATACTCGTAAAAATTATATAATACAATGCCAGAAAGATTGAAGGGAT
TTTCATGCTTCTAATATCATTTTTTCAGTTTTTCCCGAATTAAATTTCTAATTAAATCGAAACGA
GATTCACATGGTCGTAAAAACAAATGTTTAACTCCATCGCGGCTGAGATTTGGGATGTCGAATAT
AAATATTTCAGTGAGTCTTGGCAGCAAAAATCATGCAAAACTGAGCCGGGGCCCTGAAACGTGTT
TTTAGCCA
Found at i:105017 original size:335 final size:333
Alignment explanation
Indices: 104382--105662 Score: 1941
Period size: 335 Copynumber: 3.9 Consensus size: 333
104372 AGCCAAAAAC
* * **
104382 TTGCAAAAAATCGACCCGAAATATTTTTCCTCAATTTTTTAGCCACAATACTATTAAAAATTATA
1 TTGC-AAAAATTGACCCGAAATATTTTTCCTCAA-ATTTTAGCCACAATACTCGTAAAAATTATA
* **
104447 TAATACAATGCTAGAAAGATTGAAGGGATTTTCATGCTTCTAATATCATTTTTTCAGTTTTTCAT
64 TAATACAATGCCAGAAAGATTGAAGGGATTTTCATGCTTCTAATATCATTTTTTCAGTTTTTCCC
* *
104512 GACTTAAATTTCTAATTAAATCGAAACGATATTCACATGGTCGTAAAAAGCAAATGTTTAACTCC
129 GAATTAAATTTCTAATTAAATCGAAACGAGATTCACATGGTCGTAAAAA-CAAATGTTTAACTCC
* *
104577 ATTGCGGCTGAGATTTGGGATGTTGAATATAAATATTTCAGTGAGTCTTGGCAGCAAAAATCATG
193 ATCGCGGCTGAGATTTGGGATGTCGAATATAAATATTTCAGTGAGTCTTGGCAGCAAAAATCATG
*
104642 CAAAACTGAGCCGGGGCCCTGAAACGTGTTTTTAGCCAAAAACCGTGATGGTTAGTACACGATTT
258 CAAAACTGAGCCGGGGCCCTGAAACGCGTTTTTAGCCAAAAACCGTGATGGTTAGTACACGATTT
*
104707 CGGCAAATATT
323 CGGCAAAAATT
*
104718 TTCCAAAAATTGACCCGAAATTATTTTTCCTCAAATTTTAGCCACAATACTCGTAAAAATTATAT
1 TTGCAAAAATTGACCCGAAA-TATTTTTCCTCAAATTTTAGCCACAATACTCGTAAAAATTATAT
104783 AATACAATGCCAGAAAGATTGAAGGGATTTTCATGCTTCTAATATCTATTTTTTTCAGTTTTTCC
65 AATACAATGCCAGAAAGATTGAAGGGATTTTCATGCTTCTAATATC-A-TTTTTTCAGTTTTTCC
104848 CGAATTAAATTTCTAATTAAATCGAAACGAGATTCACATGGTCGTAAAAACAAATGTTTAACTCC
128 CGAATTAAATTTCTAATTAAATCGAAACGAGATTCACATGGTCGTAAAAACAAATGTTTAACTCC
*
104913 ATCGCGGCTGAGATTTGGGATGTCGAATATAAATATTTCAGTGAGTTTTGGCAGCAAAAATCATG
193 ATCGCGGCTGAGATTTGGGATGTCGAATATAAATATTTCAGTGAGTCTTGGCAGCAAAAATCATG
* * * *
104978 GAAAACTGAGTC-GGGCCCTGAGACGCGTTTTTAGCCAAAAACCGTGATGTTTAGTACACGATTT
258 CAAAACTGAGCCGGGGCCCTGAAACGCGTTTTTAGCCAAAAACCGTGATGGTTAGTACACGATTT
105042 CGGCAAAAATT
323 CGGCAAAAATT
*
105053 TTGCAAAAATTGACCCGAAATATTTTTCCTCAAATTTTAGCTACAATACTCG-AAAAATTATATA
1 TTGCAAAAATTGACCCGAAATATTTTTCCTCAAATTTTAGCCACAATACTCGTAAAAATTATATA
* * *
105117 ATACAATGCTACAAAGATTGAAGGG-TTTTCA-G--------------------GTTTTTCCTGA
66 ATACAATGCCAGAAAGATTGAAGGGATTTTCATGCTTCTAATATCATTTTTTCAGTTTTTCCCGA
* * *
105160 ATTAAATTTCTAATTAAATCGAAACGATATTCACATAGTCGT-AAAACAAATGTTTAACACCATT
131 ATTAAATTTCTAATTAAATCGAAACGAGATTCACATGGTCGTAAAAACAAATGTTTAACTCCA-T
* * * *
105224 C-CAGCTGAGATTTGGGATGTTGAATATAAATATTTCAGTGAGTCTTGGCAGCGAAAATCATGGA
195 CGCGGCTGAGATTTGGGATGTCGAATATAAATATTTCAGTGAGTCTTGGCAGCAAAAATCATGCA
* * * * *
105288 AAACTGAGCCGAGGTCCTGTAATGCGTTTTTAGCCAAAAACCGTGATGGTTAGTACACGATTTTG
260 AAACTGAGCCGGGGCCCTGAAACGCGTTTTTAGCCAAAAACCGTGATGGTTAGTACACGATTTCG
105353 GCGAAAAATT
325 GC-AAAAATT
* *
105363 ATGCAAAAATTGACCCTAAATATTTTTCCTCAAATTTTAGCCACAATACTCGT-AAAATTATATA
1 TTGCAAAAATTGACCCGAAATATTTTTCCTCAAATTTTAGCCACAATACTCGTAAAAATTATATA
105427 ATACAATGCCAGAAAGATTGAAGGGATTTTCATGCTTCTAATATCATTTTTTCAGGTTTTTCCCG
66 ATACAATGCCAGAAAGATTGAAGGGATTTTCATGCTTCTAATATCATTTTTTCA-GTTTTTCCCG
105492 AATTAAATTTCTAATTAAATCGAAACGAGATTCACATGGTCGTAAAAACAAATGTTTAACTCCAT
130 AATTAAATTTCTAATTAAATCGAAACGAGATTCACATGGTCGTAAAAACAAATGTTTAACTCCAT
*
105557 CGCGGCTGAGATTTGGGATGTCGAATATAATTATTTCAGTGAGTCTTGGCAGCAAAAATCATGCA
195 CGCGGCTGAGATTTGGGATGTCGAATATAAATATTTCAGTGAGTCTTGGCAGCAAAAATCATGCA
*
105622 AAACTGAGCCGGGGCCCTGAAACGTGTTTTTAGCCAAAAAC
260 AAACTGAGCCGGGGCCCTGAAACGCGTTTTTAGCCAAAAAC
105663 TTGCAAAAAT
Statistics
Matches: 855, Mismatches: 58, Indels: 66
0.87 0.06 0.07
Matches are distributed among these distances:
308 87 0.10
309 101 0.12
310 90 0.11
311 6 0.01
312 1 0.00
331 1 0.00
332 6 0.01
333 87 0.10
334 144 0.17
335 166 0.19
336 104 0.12
337 62 0.07
ACGTcount: A:0.35, C:0.17, G:0.17, T:0.32
Consensus pattern (333 bp):
TTGCAAAAATTGACCCGAAATATTTTTCCTCAAATTTTAGCCACAATACTCGTAAAAATTATATA
ATACAATGCCAGAAAGATTGAAGGGATTTTCATGCTTCTAATATCATTTTTTCAGTTTTTCCCGA
ATTAAATTTCTAATTAAATCGAAACGAGATTCACATGGTCGTAAAAACAAATGTTTAACTCCATC
GCGGCTGAGATTTGGGATGTCGAATATAAATATTTCAGTGAGTCTTGGCAGCAAAAATCATGCAA
AACTGAGCCGGGGCCCTGAAACGCGTTTTTAGCCAAAAACCGTGATGGTTAGTACACGATTTCGG
CAAAAATT
Found at i:107765 original size:333 final size:333
Alignment explanation
Indices: 106751--108414 Score: 2745
Period size: 333 Copynumber: 5.0 Consensus size: 333
106741 GATTGAAGGG
*
106751 TTTTCAGGTTTTTCCCGAATTAAATTTCTAATTAAATCGAAACGAGATTCACATAGTCGT-AAAA
1 TTTTCA-GTTTTTCCCGAATTAAATTTCTAATTAAATCGAAACGAGATTCACATGGTCGTAAAAA
*
106815 CAAATGTTTAACTCCATCGCGGCTGAGATTTGGGATGTCGAATATAAATATTTCAGTGAGTCTTG
65 CAAATGTTTAACTCCATTGCGGCTGAGATTTGGGATGTCGAATATAAATATTTCAGTGAGTCTTG
* * * * *
106880 GCAGCAAAAATCATGGAAAACTGAGCCGAGGTCCTGTAATGCGTTTTTAGCCAAAAACCGTGATG
130 GCAGCAAAAATCATGCAAAACTGAGCCGGGGCCCTGAAACGCGTTTTTAGCCAAAAACCGTGATG
* * *
106945 GTTAGTACACGATTTCGGCAAAAATTTTGCAAAAATTGACCCAAAATATTTTTCCTCAAATTTTA
195 ATTAGTACACGATTTCGGCAAAAATTTTGCAAAAATTGACCCGAAATATTTTTCCTCAATTTTTA
*
107010 GCCACAATACTCGTAAAAATTATATAATACAATGCCAGAAAGATTGAAGGGATTTTCATGCTTCT
260 GCCACAATACTCGTAAAAATTATATAATACAATGCTAGAAAGATTGAAGGGATTTTCATGCTTCT
107075 AATATCATT
325 AATATCATT
* *
107084 TTTTCAGTTTTTCCCGAATTAAATATCTAATTAAATCGAAACGAGATTCACATGGTTGTAAAAAC
1 TTTTCAGTTTTTCCCGAATTAAATTTCTAATTAAATCGAAACGAGATTCACATGGTCGTAAAAAC
* *
107149 AAATGTTTAACTCCATCGCGGATGAGATTTGGGATGTACGAATATAAATATTTCAGTGAGTCTTG
66 AAATGTTTAACTCCATTGCGGCTGAGATTTGGGATGT-CGAATATAAATATTTCAGTGAGTCTTG
* *
107214 GCAGCAAAAATCATGCAAAACTGAGCCGTGGCCCTGAAACGTGTTTTTAGCCAAAAACCGTGATG
130 GCAGCAAAAATCATGCAAAACTGAGCCGGGGCCCTGAAACGCGTTTTTAGCCAAAAACCGTGATG
* * *
107279 GTTAGTACACGATTTCGGCAAAAATTTTGCAAAAATTGACCCAAAATATTTTTCCTCAAATTTTA
195 ATTAGTACACGATTTCGGCAAAAATTTTGCAAAAATTGACCCGAAATATTTTTCCTCAATTTTTA
*
107344 GCCACAATACTCGTAAAAATTATATAATACAATGCCAGAAAGATTGAAGGGATTTTCATGCTTCT
260 GCCACAATACTCGTAAAAATTATATAATACAATGCTAGAAAGATTGAAGGGATTTTCATGCTTCT
107409 AATATCATT
325 AATATCATT
* *
107418 TTTTCAGTTTTTCCTGAATTAAATTTCTAATTAAATCGAAACGATATTCACATGGTCGTAAAAAC
1 TTTTCAGTTTTTCCCGAATTAAATTTCTAATTAAATCGAAACGAGATTCACATGGTCGTAAAAAC
* * *
107483 AAATGTTTAACTCCATTGCGGCTGAGATTTGGGATGTTGAATATAAATATTTCAATGAGTCCTGG
66 AAATGTTTAACTCCATTGCGGCTGAGATTTGGGATGTCGAATATAAATATTTCAGTGAGTCTTGG
* * *
107548 CAGCAAAAATCATGGAAAACTGAGCCGGGGCCCTGTAACGCGTTTTTAGCCAAAAACTGTGATGA
131 CAGCAAAAATCATGCAAAACTGAGCCGGGGCCCTGAAACGCGTTTTTAGCCAAAAACCGTGATGA
* *
107613 TCAGTACACGATTTCGGCAAAAATTTTGCAAAAATTGAACCGAAATATTTTTCCTCAATTTTTAG
196 TTAGTACACGATTTCGGCAAAAATTTTGCAAAAATTGACCCGAAATATTTTTCCTCAATTTTTAG
107678 CCACAATACTCGT-AAAATTATATAATACAATGCTAGAAAGATTGAAGGGATTTTCATGCTTCTA
261 CCACAATACTCGTAAAAATTATATAATACAATGCTAGAAAGATTGAAGGGATTTTCATGCTTCTA
107742 ATATCATT
326 ATATCATT
*
107750 TTTTCAGGTTTTTCCTGAATTAAATTTCTAATTAAATCGAAACGAGATTCACATGGTCGTAAAAA
1 TTTTCA-GTTTTTCCCGAATTAAATTTCTAATTAAATCGAAACGAGATTCACATGGTCGTAAAAA
* *
107815 CAAATGTTTAACTCCATTGCGGCTGAGATTTGGGATGTTGAATATAAATATTTCAATGAGTCTTG
65 CAAATGTTTAACTCCATTGCGGCTGAGATTTGGGATGTCGAATATAAATATTTCAGTGAGTCTTG
107880 GCAGCAAAAATCATGCAAAACTGAGCCGGGGCCCTGAAACGCGTTTTTAGCCAAAAACCGTGATG
130 GCAGCAAAAATCATGCAAAACTGAGCCGGGGCCCTGAAACGCGTTTTTAGCCAAAAACCGTGATG
* *
107945 ATTAGTACACGATTTCGGCAAAAATTTTGCAAAAATTGAACAGAAATATTTTTCCTCAATTTTTA
195 ATTAGTACACGATTTCGGCAAAAATTTTGCAAAAATTGACCCGAAATATTTTTCCTCAATTTTTA
* *
108010 GCCACAATACTCGTAAAAATTATATAATACAATGCTACAAAGATTGAAGGGATTTACATGCTTCT
260 GCCACAATACTCGTAAAAATTATATAATACAATGCTAGAAAGATTGAAGGGATTTTCATGCTTCT
108075 AATATCATT
325 AATATCATT
* * *
108084 TTTTCAGTTTTTCCCGAATTAAATTTCTAGTTAAATCGAAACGAGATTCACATGGTCATAAAAGC
1 TTTTCAGTTTTTCCCGAATTAAATTTCTAATTAAATCGAAACGAGATTCACATGGTCGTAAAAAC
* * * *
108149 AAATGTTTAACACCATTCCAGCTGAGATTTGGGATGTCGAATATAAATATTTCAGTGAGTC-TGT
66 AAATGTTTAACTCCATTGCGGCTGAGATTTGGGATGTCGAATATAAATATTTCAGTGAGTCTTGG
* * *
108213 CACCAAAAATCATGCAAAACTGAGCCGGAGCCCTGAAACGCGTTTTTAACCAAAAACCGTGATG-
131 CAGCAAAAATCATGCAAAACTGAGCCGGGGCCCTGAAACGCGTTTTTAGCCAAAAACCGTGATGA
* *
108277 ---GT-TA--ATTTCGGCAAAAATTTTGCAAAAATTGACCCGAAATATTTTTCCTCATTTTTTAG
196 TTAGTACACGATTTCGGCAAAAATTTTGCAAAAATTGACCCGAAATATTTTTCCTCAATTTTTAG
* ** *
108336 CTACAATACTAATAAAAATTATATAATACAATGCTAAAAAGATTGAAGGGATTTTCATGCTTCTA
261 CCACAATACTCGTAAAAATTATATAATACAATGCTAGAAAGATTGAAGGGATTTTCATGCTTCTA
108401 ATATCATT
326 ATATCATT
108409 TTTTCA
1 TTTTCA
108415 TTTATCCAGC
Statistics
Matches: 1266, Mismatches: 61, Indels: 16
0.94 0.05 0.01
Matches are distributed among these distances:
325 126 0.10
327 1 0.00
328 2 0.00
332 177 0.14
333 576 0.45
334 384 0.30
ACGTcount: A:0.35, C:0.17, G:0.16, T:0.32
Consensus pattern (333 bp):
TTTTCAGTTTTTCCCGAATTAAATTTCTAATTAAATCGAAACGAGATTCACATGGTCGTAAAAAC
AAATGTTTAACTCCATTGCGGCTGAGATTTGGGATGTCGAATATAAATATTTCAGTGAGTCTTGG
CAGCAAAAATCATGCAAAACTGAGCCGGGGCCCTGAAACGCGTTTTTAGCCAAAAACCGTGATGA
TTAGTACACGATTTCGGCAAAAATTTTGCAAAAATTGACCCGAAATATTTTTCCTCAATTTTTAG
CCACAATACTCGTAAAAATTATATAATACAATGCTAGAAAGATTGAAGGGATTTTCATGCTTCTA
ATATCATT
Found at i:109391 original size:23 final size:22
Alignment explanation
Indices: 109361--109405 Score: 72
Period size: 23 Copynumber: 2.0 Consensus size: 22
109351 TCACGTGGCG
109361 CACTCACCTTGAACCTTACCTCA
1 CACTCACCTTGAA-CTTACCTCA
*
109384 CACTCACCTTGAACTTCCCTCA
1 CACTCACCTTGAACTTACCTCA
109406 GGGTAACCCC
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
22 8 0.38
23 13 0.62
ACGTcount: A:0.24, C:0.44, G:0.04, T:0.27
Consensus pattern (22 bp):
CACTCACCTTGAACTTACCTCA
Found at i:112669 original size:116 final size:115
Alignment explanation
Indices: 112451--112678 Score: 395
Period size: 116 Copynumber: 2.0 Consensus size: 115
112441 AACCATGAAA
112451 GCATAGTAATTAATACTTAACACATCAAGTTGTAAGTAAAGACCATTGAGAAGCAAATAGACTGA
1 GCATAGTAATTAATACTTAACACATCAAGTTGTAAGTAAAGACCATTGAGAAGCAAATAGACTGA
*
112516 CAAATATACATAGCTGAAGAAAGATACTGACCTGATCTTTAAAACCCAAG
66 CAAATATACATAGCTGAAGAAAGATACTGAACTGATCTTTAAAACCCAAG
* * *
112566 GCATAGTAATTACTAACTTAACACATCAAGTTAG-AATTAAAGGCCATTGAGAAGCAAATAGACT
1 GCATAGTAATTAAT-ACTTAACACATCAAGTT-GTAAGTAAAGACCATTGAGAAGCAAATAGACT
112630 GACAAATATACATAGCTGAAGAAAGATACTGAACTGATCTTTAAAACCC
64 GACAAATATACATAGCTGAAGAAAGATACTGAACTGATCTTTAAAACCC
112679 CACGAGAGAT
Statistics
Matches: 107, Mismatches: 4, Indels: 3
0.94 0.04 0.03
Matches are distributed among these distances:
115 13 0.12
116 93 0.87
117 1 0.01
ACGTcount: A:0.44, C:0.17, G:0.15, T:0.24
Consensus pattern (115 bp):
GCATAGTAATTAATACTTAACACATCAAGTTGTAAGTAAAGACCATTGAGAAGCAAATAGACTGA
CAAATATACATAGCTGAAGAAAGATACTGAACTGATCTTTAAAACCCAAG
Found at i:113541 original size:2 final size:2
Alignment explanation
Indices: 113534--113584 Score: 102
Period size: 2 Copynumber: 25.5 Consensus size: 2
113524 ACAGTTAATA
113534 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
113576 TG TG TG TG T
1 TG TG TG TG T
113585 ATAGCAGACC
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:0.00, C:0.00, G:0.49, T:0.51
Consensus pattern (2 bp):
TG
Done.