Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: CP032245.1 Gossypioides kirkii chromosome KI_2_4
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: 41238926
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 6100 characters in sequence are not A, C, G, or T
File 11 of 132
Found at i:3072460 original size:2 final size:2
Alignment explanation
Indices: 3072453--3072481 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
3072443 CACGTTAGAG
3072453 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
3072482 AGAATCAATA
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:3073132 original size:11 final size:11
Alignment explanation
Indices: 3073116--3073141 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
3073106 TAGGCTTAAT
3073116 ACATGAGTTTG
1 ACATGAGTTTG
3073127 ACATGAGTTTG
1 ACATGAGTTTG
3073138 ACAT
1 ACAT
3073142 TTTTTTTAAT
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:0.31, C:0.12, G:0.23, T:0.35
Consensus pattern (11 bp):
ACATGAGTTTG
Found at i:3080912 original size:33 final size:33
Alignment explanation
Indices: 3080888--3080990 Score: 163
Period size: 33 Copynumber: 3.1 Consensus size: 33
3080878 AAAATGCCTA
3080888 AGTTGCCACAA-CCTGAATTGCCTAAAGTTCCGG
1 AGTTGCCA-AAGCCTGAATTGCCTAAAGTTCCGG
*
3080921 AGTTGCCAAAGCCTGAATTGCCTAAGGTTCCGG
1 AGTTGCCAAAGCCTGAATTGCCTAAAGTTCCGG
* *
3080954 AGTTGCCAAAGCCTGAATTGCCTAAGGTTCCTG
1 AGTTGCCAAAGCCTGAATTGCCTAAAGTTCCGG
3080987 AGTT
1 AGTT
3080991 TCCGAAAGTG
Statistics
Matches: 67, Mismatches: 2, Indels: 2
0.94 0.03 0.03
Matches are distributed among these distances:
32 2 0.03
33 65 0.97
ACGTcount: A:0.25, C:0.24, G:0.24, T:0.26
Consensus pattern (33 bp):
AGTTGCCAAAGCCTGAATTGCCTAAAGTTCCGG
Found at i:3080987 original size:51 final size:51
Alignment explanation
Indices: 3080953--3081092 Score: 217
Period size: 51 Copynumber: 2.7 Consensus size: 51
3080943 TAAGGTTCCG
*
3080953 GAGTTGCCAAAGCCTGAATTGCCTAAGGTTCCTGAGTTTCCGAAAGTGCCA
1 GAGTTGCCAAAGCCTGAATTACCTAAGGTTCCTGAGTTTCCGAAAGTGCCA
* * *
3081004 GAGTTGCCAAAACCAGAATTACCTCAGGTTCCTGAGTTTCCGAAAGTGCCA
1 GAGTTGCCAAAGCCTGAATTACCTAAGGTTCCTGAGTTTCCGAAAGTGCCA
** *
3081055 GAGTTGCCAAAGTTTGAATTTCCTAAGGTTCCTGAGTT
1 GAGTTGCCAAAGCCTGAATTACCTAAGGTTCCTGAGTT
3081093 GAAAACACCC
Statistics
Matches: 79, Mismatches: 10, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
51 79 1.00
ACGTcount: A:0.26, C:0.22, G:0.24, T:0.28
Consensus pattern (51 bp):
GAGTTGCCAAAGCCTGAATTACCTAAGGTTCCTGAGTTTCCGAAAGTGCCA
Found at i:3081092 original size:84 final size:83
Alignment explanation
Indices: 3080900--3081093 Score: 194
Period size: 84 Copynumber: 2.3 Consensus size: 83
3080890 TTGCCACAAC
* * * * *
3080900 CTGAATTGCCTAAAGTTCCGGAGTTGCCAAAGCCTGAATTGCCTAAGGTTCCGGAGTTGCCAAAG
1 CTGAATTTCCTAAAGTTCCAGAGTTGCCAAAACCAGAATTACCTAAGGTTCCGGAGTTGCCAAAG
* *
3080965 CCTGAATTGCCTAAGGTT
66 CCAGAATTGCCTAAAGTT
* * * * * *
3080983 CCTGAGTTTCCGAAAGTGCCAGAGTTGCCAAAACCAGAATTACCTCAGGTTCCTGAGTTTCCGAA
1 -CTGAATTTCCTAAAGTTCCAGAGTTGCCAAAACCAGAATTACCTAAGGTTCCGGAGTTGCC-AA
*
3081048 AGTGCCAGAGTTGCC-AAAGTT
64 A--GCCAGAATTGCCTAAAGTT
* *
3081069 -TGAATTTCCTAAGGTTCCTGAGTTG
1 CTGAATTTCCTAAAGTTCCAGAGTTG
3081094 AAAACACCCG
Statistics
Matches: 88, Mismatches: 19, Indels: 6
0.78 0.17 0.05
Matches are distributed among these distances:
84 70 0.80
85 3 0.03
86 5 0.06
87 10 0.11
ACGTcount: A:0.26, C:0.23, G:0.24, T:0.27
Consensus pattern (83 bp):
CTGAATTTCCTAAAGTTCCAGAGTTGCCAAAACCAGAATTACCTAAGGTTCCGGAGTTGCCAAAG
CCAGAATTGCCTAAAGTT
Found at i:3081266 original size:48 final size:49
Alignment explanation
Indices: 3081214--3081323 Score: 123
Period size: 48 Copynumber: 2.2 Consensus size: 49
3081204 TGAAGCGCCC
*
3081214 AAGCCTGAATTACCGAAAGCTCCTGAGTTGCCAAAACCTGAATT-ACCA
1 AAGCCTGAATTACCGAAAGCTCCTGAGGTGCCAAAACCTGAATTGACCA
* * * * * * *
3081262 AAGCCGGAATTGCCTAAAGTTCCTGAGGTGCCTAAGCCTGAATTGCCCA
1 AAGCCTGAATTACCGAAAGCTCCTGAGGTGCCAAAACCTGAATTGACCA
3081311 AAGCTCCTGAATT
1 AAG--CCTGAATT
3081324 GCCAAAAATT
Statistics
Matches: 50, Mismatches: 9, Indels: 3
0.81 0.15 0.05
Matches are distributed among these distances:
48 37 0.74
49 6 0.12
51 7 0.14
ACGTcount: A:0.31, C:0.26, G:0.20, T:0.23
Consensus pattern (49 bp):
AAGCCTGAATTACCGAAAGCTCCTGAGGTGCCAAAACCTGAATTGACCA
Found at i:3081282 original size:81 final size:81
Alignment explanation
Indices: 3081175--3081420 Score: 278
Period size: 81 Copynumber: 3.0 Consensus size: 81
3081165 AGTTCCCGAG
* * * * * *
3081175 TTACCAAAGCCAGAATTTCCTGAAGTTCCTGAAGCGCCCAAGCCTGAATTACCGAAAGCTCCTGA
1 TTACCAAAGCCAGAATTGCCTAAAGTTCCTGAGGTGCCCAAGCCTGAATTGCCCAAAGCTCCTGA
3081240 GTTGCCAAAACCTGAA
66 GTTGCCAAAACCTGAA
* *
3081256 TTACCAAAGCCGGAATTGCCTAAAGTTCCTGAGGTGCCTAAGCCTGAATTGCCCAAAGCTCCTGA
1 TTACCAAAGCCAGAATTGCCTAAAGTTCCTGAGGTGCCCAAGCCTGAATTGCCCAAAGCTCCTGA
* *
3081321 ATTGCCAAAAATTCCTGAG
66 GTTGCC-AAAA--CCTGAA
* * * * * * * * *
3081340 TCAACAAAACCAGAGTTGCCTAAAATTCCTGAGGTACCGAAACCAGAATTGCCCAAAG-TGCCTG
1 TTACCAAAGCCAGAATTGCCTAAAGTTCCTGAGGTGCCCAAGCCTGAATTGCCCAAAGCT-CCTG
3081404 AGTTGCCAAAACCTGAA
65 AGTTGCCAAAACCTGAA
3081421 GTATCAAAAG
Statistics
Matches: 139, Mismatches: 22, Indels: 8
0.82 0.13 0.05
Matches are distributed among these distances:
81 67 0.48
82 4 0.03
83 5 0.04
84 63 0.45
ACGTcount: A:0.33, C:0.27, G:0.19, T:0.21
Consensus pattern (81 bp):
TTACCAAAGCCAGAATTGCCTAAAGTTCCTGAGGTGCCCAAGCCTGAATTGCCCAAAGCTCCTGA
GTTGCCAAAACCTGAA
Found at i:3081287 original size:33 final size:33
Alignment explanation
Indices: 3081250--3081329 Score: 97
Period size: 33 Copynumber: 2.4 Consensus size: 33
3081240 GTTGCCAAAA
* * *
3081250 CCTGAATTACCAAAGCCGGAATTGCCTAAAGTT
1 CCTGAATTGCCAAAGCCGGAATTGCCCAAAGCT
** * *
3081283 CCTGAGGTGCCTAAGCCTGAATTGCCCAAAGCT
1 CCTGAATTGCCAAAGCCGGAATTGCCCAAAGCT
3081316 CCTGAATTGCCAAA
1 CCTGAATTGCCAAA
3081330 AATTCCTGAG
Statistics
Matches: 37, Mismatches: 10, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
33 37 1.00
ACGTcount: A:0.30, C:0.28, G:0.20, T:0.23
Consensus pattern (33 bp):
CCTGAATTGCCAAAGCCGGAATTGCCCAAAGCT
Found at i:3081308 original size:15 final size:15
Alignment explanation
Indices: 3081214--3081329 Score: 79
Period size: 15 Copynumber: 7.1 Consensus size: 15
3081204 TGAAGCGCCC
*
3081214 AAGCCTGAATTACCGA
1 AAGCCTGAATTGCC-A
*
3081230 AAGCTCCTGAGTTGCCA
1 AAG--CCTGAATTGCCA
* *
3081247 AAACCTGAATTACCA
1 AAGCCTGAATTGCCA
*
3081262 AAGCCGGAATTGCCTA
1 AAGCCTGAATTGCC-A
** *
3081278 AAGTTCCTGAGGTGCCT
1 AAG--CCTGAATTGCCA
3081295 AAGCCTGAATTGCCCA
1 AAGCCTGAATTG-CCA
3081311 AAGCTCCTGAATTGCCA
1 AAG--CCTGAATTGCCA
3081328 AA
1 AA
3081330 AATTCCTGAG
Statistics
Matches: 77, Mismatches: 15, Indels: 15
0.72 0.14 0.14
Matches are distributed among these distances:
15 28 0.36
16 12 0.16
17 11 0.14
18 26 0.34
ACGTcount: A:0.32, C:0.27, G:0.20, T:0.22
Consensus pattern (15 bp):
AAGCCTGAATTGCCA
Found at i:3081336 original size:18 final size:18
Alignment explanation
Indices: 3081298--3081338 Score: 55
Period size: 18 Copynumber: 2.3 Consensus size: 18
3081288 GGTGCCTAAG
* *
3081298 CCTGAATTGCCCAAAGCT
1 CCTGAATTGCCAAAAACT
*
3081316 CCTGAATTGCCAAAAATT
1 CCTGAATTGCCAAAAACT
3081334 CCTGA
1 CCTGA
3081339 GTCAACAAAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.32, C:0.29, G:0.15, T:0.24
Consensus pattern (18 bp):
CCTGAATTGCCAAAAACT
Found at i:3081383 original size:33 final size:33
Alignment explanation
Indices: 3081319--3081406 Score: 97
Period size: 33 Copynumber: 2.7 Consensus size: 33
3081309 CAAAGCTCCT
3081319 GAATTGCCAAAAATTCCTGAGTCAACAAAACCA
1 GAATTGCCAAAAATTCCTGAGTCAACAAAACCA
* * * *
3081352 GAGTTGCCTAAAATTCCTGAGGT-ACCGAAACCA
1 GAATTGCCAAAAATTCCTGA-GTCAACAAAACCA
* * *
3081385 GAATTGCCCAAAGTGCCTGAGT
1 GAATTGCCAAAAATTCCTGAGT
3081407 TGCCAAAACC
Statistics
Matches: 46, Mismatches: 8, Indels: 3
0.81 0.14 0.05
Matches are distributed among these distances:
32 2 0.04
33 42 0.91
34 2 0.04
ACGTcount: A:0.36, C:0.24, G:0.19, T:0.20
Consensus pattern (33 bp):
GAATTGCCAAAAATTCCTGAGTCAACAAAACCA
Found at i:3081389 original size:84 final size:82
Alignment explanation
Indices: 3081220--3081420 Score: 228
Period size: 84 Copynumber: 2.5 Consensus size: 82
3081210 GCCCAAGCCT
* * * * * * *
3081220 GAATTACCGAAAGCTCCTGAGTTGCC-AAAACCTGAATTACCAAAGCCGGAATTGCCTAAAGTTC
1 GAATTGCCCAAAGCTCCTGAGTTGCCAAAAACCTGAATCAACAAAACCAGAATTGCCTAAAATTC
* * * *
3081284 CTGAGGTGCCTAAGCCT
66 CTGAGGTACCGAAACCA
* * *
3081301 GAATTGCCCAAAGCTCCTGAATTGCCAAAAATTCCTGAGTCAACAAAACCAGAGTTGCCTAAAAT
1 GAATTGCCCAAAGCTCCTGAGTTGCCAAAAA--CCTGAATCAACAAAACCAGAATTGCCTAAAAT
3081366 TCCTGAGGTACCGAAACCA
64 TCCTGAGGTACCGAAACCA
3081385 GAATTGCCCAAAG-TGCCTGAGTTGCC-AAAACCTGAA
1 GAATTGCCCAAAGCT-CCTGAGTTGCCAAAAACCTGAA
3081421 GTATCAAAAG
Statistics
Matches: 100, Mismatches: 16, Indels: 8
0.81 0.13 0.06
Matches are distributed among these distances:
81 28 0.28
82 4 0.04
83 5 0.05
84 63 0.63
ACGTcount: A:0.34, C:0.26, G:0.19, T:0.21
Consensus pattern (82 bp):
GAATTGCCCAAAGCTCCTGAGTTGCCAAAAACCTGAATCAACAAAACCAGAATTGCCTAAAATTC
CTGAGGTACCGAAACCA
Found at i:3081416 original size:33 final size:33
Alignment explanation
Indices: 3081332--3081597 Score: 165
Period size: 33 Copynumber: 8.1 Consensus size: 33
3081322 TTGCCAAAAA
* * * * * *
3081332 TTCCTGAGTCAACAAAACCAGAGTTGCCTAAAA
1 TTCCTGAGTTACCAAAACCAGAATTACCCAAAG
* * *
3081365 TTCCTGAGGTACCGAAACCAGAATTGCCCAAAG
1 TTCCTGAGTTACCAAAACCAGAATTACCCAAAG
* * * * * *
3081398 TGCCTGAGTTGCCAAAACCTGAAGTATCAAAAG
1 TTCCTGAGTTACCAAAACCAGAATTACCCAAAG
* * * * * *
3081431 TTCCTCAGGTGCCTAAGCCAGAATTACCAAAAG
1 TTCCTGAGTTACCAAAACCAGAATTACCCAAAG
* * **
3081464 CTCCTGAATTACCAAAACCTCAATTACCTCAAA-
1 TTCCTGAGTTACCAAAACCAGAATTACC-CAAAG
* * * *
3081497 TTCCCGAGTTAACAAAACCAGAATTGCCTAAAG
1 TTCCTGAGTTACCAAAACCAGAATTACCCAAAG
* * * * * *
3081530 TTCCAGAGGTACCGAAATCAGAATTGCCCAAAA
1 TTCCTGAGTTACCAAAACCAGAATTACCCAAAG
* * * *
3081563 CTCCTGAGTTGCCAAAACCTGAATTACCTAAAG
1 TTCCTGAGTTACCAAAACCAGAATTACCCAAAG
3081596 TT
1 TT
3081598 TCCGAATTGC
Statistics
Matches: 171, Mismatches: 60, Indels: 4
0.73 0.26 0.02
Matches are distributed among these distances:
32 3 0.02
33 165 0.96
34 3 0.02
ACGTcount: A:0.36, C:0.26, G:0.16, T:0.22
Consensus pattern (33 bp):
TTCCTGAGTTACCAAAACCAGAATTACCCAAAG
Found at i:3081506 original size:99 final size:99
Alignment explanation
Indices: 3081394--3081608 Score: 209
Period size: 99 Copynumber: 2.2 Consensus size: 99
3081384 AGAATTGCCC
* * * * * * * *
3081394 AAAGTGCCTGAGTTGCCAAAACCTGAAGTATCAAAAGTTCCTCAGGTGCCTAAGCCAGAATT-AC
1 AAAGTTCCCGAGTTGCCAAAACCAGAAGTACCAAAAGTTCCACAGGTACCGAAACCAGAATTGAC
3081458 CAAAAGCTCCTGAATTACCAAAACCTCAATTACCT
66 CAAAA-CTCCTGAATTACCAAAACCTCAATTACCT
** * * * * * *
3081493 CAAA-TTCCCGAGTTAACAAAACCAGAATTGCCTAAAGTTCCAGAGGTACCGAAATCAGAATTGC
1 -AAAGTTCCCGAGTTGCCAAAACCAGAAGTACCAAAAGTTCCACAGGTACCGAAACCAGAATTGA
* * *
3081557 CCAAAACTCCTGAGTTGCCAAAACCTGAATTACCT
65 CCAAAACTCCTGAATTACCAAAACCTCAATTACCT
* *
3081592 AAAGTTTCCGAATTGCC
1 AAAGTTCCCGAGTTGCC
3081609 TAAATTGCCT
Statistics
Matches: 90, Mismatches: 23, Indels: 5
0.76 0.19 0.04
Matches are distributed among these distances:
98 3 0.03
99 78 0.87
100 9 0.10
ACGTcount: A:0.36, C:0.26, G:0.15, T:0.22
Consensus pattern (99 bp):
AAAGTTCCCGAGTTGCCAAAACCAGAAGTACCAAAAGTTCCACAGGTACCGAAACCAGAATTGAC
CAAAACTCCTGAATTACCAAAACCTCAATTACCT
Found at i:3083469 original size:19 final size:19
Alignment explanation
Indices: 3083441--3083498 Score: 57
Period size: 19 Copynumber: 3.1 Consensus size: 19
3083431 ATTACGTTCA
*
3083441 TATATATATATATATTTAT
1 TATATTTATATATATTTAT
*
3083460 TATATTTATAT-TATTTTCT
1 TATATTTATATATA-TTTAT
*
3083479 TA-ATATTATATATAATTAT
1 TATAT-TTATATATATTTAT
3083498 T
1 T
3083499 TTAAATAATG
Statistics
Matches: 32, Mismatches: 4, Indels: 6
0.76 0.10 0.14
Matches are distributed among these distances:
18 4 0.12
19 26 0.81
20 2 0.06
ACGTcount: A:0.38, C:0.02, G:0.00, T:0.60
Consensus pattern (19 bp):
TATATTTATATATATTTAT
Found at i:3083507 original size:25 final size:25
Alignment explanation
Indices: 3083457--3083507 Score: 59
Period size: 25 Copynumber: 2.0 Consensus size: 25
3083447 TATATATATT
* **
3083457 TATTATATTTATATTATTTTCTTAA
1 TATTATATATATATTATTTTAATAA
3083482 TATTATATATA-ATTATTTTAAATAA
1 TATTATATATATATTATTTT-AATAA
3083507 T
1 T
3083508 GGTAACATGA
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
24 8 0.36
25 14 0.64
ACGTcount: A:0.39, C:0.02, G:0.00, T:0.59
Consensus pattern (25 bp):
TATTATATATATATTATTTTAATAA
Found at i:3084095 original size:33 final size:33
Alignment explanation
Indices: 3084016--3084101 Score: 109
Period size: 33 Copynumber: 2.6 Consensus size: 33
3084006 GCCAGAAATC
* * *
3084016 CCAAAACCCGAAATACCTAAAATGCCTGAGTTG
1 CCAAAACCCGAATTGCCTAAAATGCCGGAGTTG
* * *
3084049 CCAAAGCCCGAATTGCCTAAAGTTCCGGAGTTG
1 CCAAAACCCGAATTGCCTAAAATGCCGGAGTTG
*
3084082 CCAAAACCTGAATTGCCTAA
1 CCAAAACCCGAATTGCCTAA
3084102 GGCTCCTAAA
Statistics
Matches: 45, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
33 45 1.00
ACGTcount: A:0.35, C:0.28, G:0.17, T:0.20
Consensus pattern (33 bp):
CCAAAACCCGAATTGCCTAAAATGCCGGAGTTG
Found at i:3084131 original size:51 final size:51
Alignment explanation
Indices: 3084067--3084200 Score: 151
Period size: 51 Copynumber: 2.6 Consensus size: 51
3084057 CGAATTGCCT
* * * * *
3084067 AAAGTTCCGGAGTTGCCAAAACCTGAATTGCCTAAGGCTCCTAAATATCCG
1 AAAGTGCCAGAGTTGTCAAAACCTGAATTGCCTAAGGCTCCGAAATATCCA
* * * * *
3084118 AAAGTGCCAGAGTTGTCAAAACCTGAATTACCTAAGGTTCCGGAGTTTCCA
1 AAAGTGCCAGAGTTGTCAAAACCTGAATTGCCTAAGGCTCCGAAATATCCA
* * *
3084169 AAAATGCCAGAGTTGTCACAGCCTGAATTGCC
1 AAAGTGCCAGAGTTGTCAAAACCTGAATTGCC
3084201 GGAAATCCCA
Statistics
Matches: 69, Mismatches: 14, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
51 69 1.00
ACGTcount: A:0.31, C:0.24, G:0.21, T:0.24
Consensus pattern (51 bp):
AAAGTGCCAGAGTTGTCAAAACCTGAATTGCCTAAGGCTCCGAAATATCCA
Found at i:3084260 original size:33 final size:33
Alignment explanation
Indices: 3084208--3084293 Score: 84
Period size: 33 Copynumber: 2.6 Consensus size: 33
3084198 GCCGGAAATC
* * *
3084208 CCAAAACCCGAAA-TACCTAAAATGCCTGAGTTG
1 CCAAAACCC-AAATTGCCTAAAATGCCGGAGTTA
* * *
3084241 CCAAAGCCCAAATTGCCTAAAGTTCCGGAGTTA
1 CCAAAACCCAAATTGCCTAAAATGCCGGAGTTA
**
3084274 CCAAAACCTGAATTGCCTAA
1 CCAAAACCCAAATTGCCTAA
3084294 GGCTCCTGAG
Statistics
Matches: 43, Mismatches: 9, Indels: 2
0.80 0.17 0.04
Matches are distributed among these distances:
32 3 0.07
33 40 0.93
ACGTcount: A:0.37, C:0.28, G:0.15, T:0.20
Consensus pattern (33 bp):
CCAAAACCCAAATTGCCTAAAATGCCGGAGTTA
Found at i:3084305 original size:33 final size:33
Alignment explanation
Indices: 3084232--3084305 Score: 85
Period size: 33 Copynumber: 2.2 Consensus size: 33
3084222 ACCTAAAATG
* * *
3084232 CCTGAGTTGCCAAAGCCCAAATTGCCTAAAGTT
1 CCTGAGTTACCAAAACCCAAATTGCCTAAAGCT
* ** *
3084265 CCGGAGTTACCAAAACCTGAATTGCCTAAGGCT
1 CCTGAGTTACCAAAACCCAAATTGCCTAAAGCT
3084298 CCTGAGTT
1 CCTGAGTT
3084306 TTCGAAAGTG
Statistics
Matches: 33, Mismatches: 8, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.28, C:0.27, G:0.20, T:0.24
Consensus pattern (33 bp):
CCTGAGTTACCAAAACCCAAATTGCCTAAAGCT
Found at i:3084323 original size:51 final size:50
Alignment explanation
Indices: 3084259--3084407 Score: 172
Period size: 51 Copynumber: 2.9 Consensus size: 50
3084249 CAAATTGCCT
* * * * *
3084259 AAAGTTCCGGAGTTACCAAAACCTGAATTGCCTAAGGCTCCTGAGTTTTCG
1 AAAGTGCCAGAGTTACCAAAACCTGAATT-CCTAAGGTTCCTGAGTTTCCA
** * *
3084310 AAAGTGCCAGAGTTGTCAAAACCTGAATTACCTAAAGTTCCCGAGTTTCCA
1 AAAGTGCCAGAGTTACCAAAACCTGAATT-CCTAAGGTTCCTGAGTTTCCA
* *
3084361 AAAGTGCCAGAGTTTCCAAAGCCTGAAATTCCTAAGGTTCCTGAGTT
1 AAAGTGCCAGAGTTACCAAAACCTG-AATTCCTAAGGTTCCTGAGTT
3084408 GAAAACCTCC
Statistics
Matches: 82, Mismatches: 15, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
51 78 0.95
52 4 0.05
ACGTcount: A:0.30, C:0.23, G:0.20, T:0.27
Consensus pattern (50 bp):
AAAGTGCCAGAGTTACCAAAACCTGAATTCCTAAGGTTCCTGAGTTTCCA
Found at i:3084327 original size:192 final size:192
Alignment explanation
Indices: 3083990--3084387 Score: 672
Period size: 192 Copynumber: 2.1 Consensus size: 192
3083980 AAGGTTGAAC
*
3083990 TTCCAAAGCTTGAATTGCCAGAAATCCCAAAACCCGAAATACCTAAAATGCCTGAGTTGCCAAAG
1 TTCCAAAGCCTGAATTGCCAGAAATCCCAAAACCCGAAATACCTAAAATGCCTGAGTTGCCAAAG
* *
3084055 CCCGAATTGCCTAAAGTTCCGGAGTTGCCAAAACCTGAATTGCCTAAGGCTCCTAAATATCCGAA
66 CCCAAATTGCCTAAAGTTCCGGAGTTACCAAAACCTGAATTGCCTAAGGCTCCTAAATATCCGAA
* *
3084120 AGTGCCAGAGTTGTCAAAACCTGAATTACCTAAGGTTCCGGAGTTTCCAAAAATGCCAGAGT
131 AGTGCCAGAGTTGTCAAAACCTGAATTACCTAAAGTTCCCGAGTTTCCAAAAATGCCAGAGT
* *
3084182 TGT-CACAGCCTGAATTGCCGGAAATCCCAAAACCCGAAATACCTAAAATGCCTGAGTTGCCAAA
1 T-TCCAAAGCCTGAATTGCCAGAAATCCCAAAACCCGAAATACCTAAAATGCCTGAGTTGCCAAA
* * * *
3084246 GCCCAAATTGCCTAAAGTTCCGGAGTTACCAAAACCTGAATTGCCTAAGGCTCCTGAGTTTTCGA
65 GCCCAAATTGCCTAAAGTTCCGGAGTTACCAAAACCTGAATTGCCTAAGGCTCCTAAATATCCGA
*
3084311 AAGTGCCAGAGTTGTCAAAACCTGAATTACCTAAAGTTCCCGAGTTTCCAAAAGTGCCAGAGT
130 AAGTGCCAGAGTTGTCAAAACCTGAATTACCTAAAGTTCCCGAGTTTCCAAAAATGCCAGAGT
3084374 TTCCAAAGCCTGAA
1 TTCCAAAGCCTGAA
3084388 ATTCCTAAGG
Statistics
Matches: 191, Mismatches: 13, Indels: 4
0.92 0.06 0.02
Matches are distributed among these distances:
191 1 0.01
192 189 0.99
193 1 0.01
ACGTcount: A:0.33, C:0.25, G:0.19, T:0.23
Consensus pattern (192 bp):
TTCCAAAGCCTGAATTGCCAGAAATCCCAAAACCCGAAATACCTAAAATGCCTGAGTTGCCAAAG
CCCAAATTGCCTAAAGTTCCGGAGTTACCAAAACCTGAATTGCCTAAGGCTCCTAAATATCCGAA
AGTGCCAGAGTTGTCAAAACCTGAATTACCTAAAGTTCCCGAGTTTCCAAAAATGCCAGAGT
Found at i:3084623 original size:33 final size:33
Alignment explanation
Indices: 3084507--3084863 Score: 182
Period size: 33 Copynumber: 10.8 Consensus size: 33
3084497 AACTTGAAGC
* * * *
3084507 ACCAAAAGTTCCCGAGTTACCAAAGCCAGAGTT
1 ACCAAAAGTTCCTGAGTTACCAAAACCTGAATT
* * * * * *
3084540 GCCTAAAGTTCCTGAGATGCCCAAGCCTGAATT
1 ACCAAAAGTTCCTGAGTTACCAAAACCTGAATT
* * *
3084573 ACCCAAGGTT-CTCGAGTTGCCAAAACCTGAATT
1 ACCAAAAGTTCCT-GAGTTACCAAAACCTGAATT
* **
3084606 ACCAAAAGTTCCGGAGTTACC-AAAGTTGGAATT
1 ACCAAAAGTTCCTGAGTTACCAAAACCT-GAATT
* * * * * * * *
3084639 GCCTAAAGTTCCTGAGGTGCCTAAGCCAGACTT
1 ACCAAAAGTTCCTGAGTTACCAAAACCTGAATT
* * * * *
3084672 TCCCAAAGCTCCTGTA-TTGCCAAAATCTGAATT
1 ACCAAAAGTTCCTG-AGTTACCAAAACCTGAATT
* * *
3084705 ACCAAAAATTCCTGAGTTAACAAAACCAGAATT
1 ACCAAAAGTTCCTGAGTTACCAAAACCTGAATT
* * * ** * * *
3084738 ACCTAAAGTTCCCGAGATGTCGAAATCAGAATT
1 ACCAAAAGTTCCTGAGTTACCAAAACCTGAATT
* * * * *
3084771 GCCCAAAGCTCCTGAATTACCAAAACCCGAATT
1 ACCAAAAGTTCCTGAGTTACCAAAACCTGAATT
* * *
3084804 ACCAAAAGTTCCGGAATTACCAAAACCTGTATT
1 ACCAAAAGTTCCTGAGTTACCAAAACCTGAATT
* * **
3084837 GCCTAAA-TTACCTGACATACCAAAACC
1 ACCAAAAGTT-CCTGAGTTACCAAAACC
3084864 CGAAGAACCC
Statistics
Matches: 240, Mismatches: 77, Indels: 14
0.73 0.23 0.04
Matches are distributed among these distances:
32 9 0.04
33 227 0.95
34 4 0.02
ACGTcount: A:0.35, C:0.26, G:0.16, T:0.23
Consensus pattern (33 bp):
ACCAAAAGTTCCTGAGTTACCAAAACCTGAATT
Found at i:3084623 original size:99 final size:98
Alignment explanation
Indices: 3084475--3084851 Score: 362
Period size: 99 Copynumber: 3.8 Consensus size: 98
3084465 TCCTGAGATG
** * * ** * *
3084475 CCCAAAGCTCCAAATTTGTCAAAACTTGAAGCACCAAAAGTTCCCGAGTTACCAAAGCCAGAGTT
1 CCCAAAGCTCCTGA-TTGCCAAAACCTGAATTACCAAAAGTTCCGGAGTTACCAAAGCCAGAATT
*
3084540 GCCTAAAGTTCCTGAGATGCCCAAGCCTGAATTA
65 GCCTAAAGTTCCTGAGATGCCCAAGCCAGAATTA
* * ***
3084574 CCC-AAGGTTCTCGAGTTGCCAAAACCTGAATTACCAAAAGTTCCGGAGTTACCAAAGTTGGAAT
1 CCCAAAGCTCCT-GA-TTGCCAAAACCTGAATTACCAAAAGTTCCGGAGTTACCAAAGCCAGAAT
* * * *
3084638 TGCCTAAAGTTCCTGAGGTGCCTAAGCCAGACTTT
64 TGCCTAAAGTTCCTGAGATGCCCAAGCCAGAATTA
* * * * *
3084673 CCCAAAGCTCCTGTATTGCCAAAATCTGAATTACCAAAAATTCCTGAGTTAACAAAACCAGAATT
1 CCCAAAGCTCCTG-ATTGCCAAAACCTGAATTACCAAAAGTTCCGGAGTTACCAAAGCCAGAATT
* * * * ** *
3084738 ACCTAAAGTTCCCGAGATGTCGAAATCAGAATTG
65 GCCTAAAGTTCCTGAGATGCCCAAGCCAGAATTA
* * * * * *
3084772 CCCAAAGCTCCTGAATTACCAAAACCCGAATTACCAAAAGTTCCGGAATTACCAAAACCTGTATT
1 CCCAAAGCTCCTG-ATTGCCAAAACCTGAATTACCAAAAGTTCCGGAGTTACCAAAGCCAGAATT
3084837 GCCTAAA-TTACCTGA
65 GCCTAAAGTT-CCTGA
3084852 CATACCAAAA
Statistics
Matches: 224, Mismatches: 50, Indels: 8
0.79 0.18 0.03
Matches are distributed among these distances:
98 7 0.03
99 210 0.94
100 7 0.03
ACGTcount: A:0.35, C:0.26, G:0.16, T:0.23
Consensus pattern (98 bp):
CCCAAAGCTCCTGATTGCCAAAACCTGAATTACCAAAAGTTCCGGAGTTACCAAAGCCAGAATTG
CCTAAAGTTCCTGAGATGCCCAAGCCAGAATTA
Found at i:3084804 original size:15 final size:15
Alignment explanation
Indices: 3084784--3084830 Score: 58
Period size: 15 Copynumber: 2.9 Consensus size: 15
3084774 CAAAGCTCCT
3084784 GAATTACCAAAACCC
1 GAATTACCAAAACCC
*
3084799 GAATTACCAAAAGTTCCG
1 GAATTACCAAAA---CCC
3084817 GAATTACCAAAACC
1 GAATTACCAAAACC
3084831 TGTATTGCCT
Statistics
Matches: 28, Mismatches: 1, Indels: 6
0.80 0.03 0.17
Matches are distributed among these distances:
15 14 0.50
18 14 0.50
ACGTcount: A:0.45, C:0.28, G:0.11, T:0.17
Consensus pattern (15 bp):
GAATTACCAAAACCC
Found at i:3088714 original size:33 final size:33
Alignment explanation
Indices: 3088677--3088785 Score: 105
Period size: 33 Copynumber: 3.3 Consensus size: 33
3088667 TTACCAAAGC
*
3088677 CAGAATTGGCTAAAGTTCCTGAGATGCCCAAGT
1 CAGAATTGCCTAAAGTTCCTGAGATGCCCAAGT
* * * *
3088710 CAGAACTGCCTAAA--TCGCTTGAGTTACCGAAGT
1 CAGAATTGCCTAAAGTTC-C-TGAGATGCCCAAGT
* * * *
3088743 CAAAATTGCCCAAAGTTCCTGAAATGCCCAAGC
1 CAGAATTGCCTAAAGTTCCTGAGATGCCCAAGT
3088776 CAGAATTGCC
1 CAGAATTGCC
3088786 CAAGACTTCT
Statistics
Matches: 58, Mismatches: 14, Indels: 8
0.73 0.17 0.10
Matches are distributed among these distances:
31 2 0.03
32 1 0.02
33 52 0.90
34 1 0.02
35 2 0.03
ACGTcount: A:0.32, C:0.26, G:0.20, T:0.22
Consensus pattern (33 bp):
CAGAATTGCCTAAAGTTCCTGAGATGCCCAAGT
Found at i:3089520 original size:14 final size:12
Alignment explanation
Indices: 3089492--3089516 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
3089482 CATAAATACA
3089492 CACATATATAGG
1 CACATATATAGG
3089504 CACATATATAGG
1 CACATATATAGG
3089516 C
1 C
3089517 GCACCTTATG
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:0.40, C:0.20, G:0.16, T:0.24
Consensus pattern (12 bp):
CACATATATAGG
Found at i:3095731 original size:10 final size:10
Alignment explanation
Indices: 3095718--3095772 Score: 53
Period size: 10 Copynumber: 5.6 Consensus size: 10
3095708 AGAAATTTAG
3095718 AAAAATTACT
1 AAAAATTACT
*
3095728 AAAAATTACAA
1 AAAAATTAC-T
3095739 AAAAATTTA-T
1 AAAAA-TTACT
3095749 AAAAA-TAC-
1 AAAAATTACT
3095757 AAAAATTACT
1 AAAAATTACT
*
3095767 AGAAAT
1 AAAAAT
3095773 ATAAAAAATT
Statistics
Matches: 37, Mismatches: 3, Indels: 10
0.74 0.06 0.20
Matches are distributed among these distances:
8 7 0.19
9 3 0.08
10 19 0.51
11 5 0.14
12 3 0.08
ACGTcount: A:0.65, C:0.07, G:0.02, T:0.25
Consensus pattern (10 bp):
AAAAATTACT
Found at i:3095733 original size:20 final size:19
Alignment explanation
Indices: 3095710--3095782 Score: 53
Period size: 21 Copynumber: 3.7 Consensus size: 19
3095700 AAATTCATAG
3095710 AAATTTAGAAAAATTACTAA
1 AAATTTA-AAAAATTACTAA
*
3095730 AAATTACAAAAAAATTTA-TAA
1 AAATT--TAAAAAA-TTACTAA
*
3095751 AAA--TACAAAAATTACTAG
1 AAATTTA-AAAAATTACTAA
*
3095769 AAATATAAAAAATT
1 AAATTTAAAAAATT
3095783 GCAAAAAAAA
Statistics
Matches: 43, Mismatches: 3, Indels: 15
0.70 0.05 0.25
Matches are distributed among these distances:
17 4 0.09
18 10 0.23
19 7 0.16
20 7 0.16
21 11 0.26
22 4 0.09
ACGTcount: A:0.64, C:0.05, G:0.03, T:0.27
Consensus pattern (19 bp):
AAATTTAAAAAATTACTAA
Found at i:3095733 original size:39 final size:37
Alignment explanation
Indices: 3095690--3095779 Score: 92
Period size: 39 Copynumber: 2.4 Consensus size: 37
3095680 TTAAAAAAAT
* *
3095690 AAAATTATAAAAATTCATAGAAATTTAGAAAAATTACTA
1 AAAATTATAAAAATTCATA-AAA-ATACAAAAATTACTA
* *
3095729 AAAATTACAAAAAAATTTATAAAAATACAAAAATTACTA
1 AAAATT--ATAAAAATTCATAAAAATACAAAAATTACTA
*
3095768 GAAA-TATAAAAA
1 AAAATTATAAAAA
3095780 ATTGCAAAAA
Statistics
Matches: 43, Mismatches: 6, Indels: 7
0.77 0.11 0.12
Matches are distributed among these distances:
36 6 0.14
38 1 0.02
39 22 0.51
40 3 0.07
41 11 0.26
ACGTcount: A:0.64, C:0.06, G:0.03, T:0.27
Consensus pattern (37 bp):
AAAATTATAAAAATTCATAAAAATACAAAAATTACTA
Found at i:3095742 original size:21 final size:20
Alignment explanation
Indices: 3095718--3095761 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 20
3095708 AGAAATTTAG
3095718 AAAAA-TTACTAAAAATTACAA
1 AAAAATTTA-TAAAAA-TACAA
3095739 AAAAATTTATAAAAATACAA
1 AAAAATTTATAAAAATACAA
3095759 AAA
1 AAA
3095762 TTACTAGAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
20 8 0.36
21 11 0.50
22 3 0.14
ACGTcount: A:0.70, C:0.07, G:0.00, T:0.23
Consensus pattern (20 bp):
AAAAATTTATAAAAATACAA
Found at i:3095871 original size:10 final size:9
Alignment explanation
Indices: 3095837--3095928 Score: 64
Period size: 9 Copynumber: 9.9 Consensus size: 9
3095827 AAAAGGTATA
*
3095837 TAAAATTAT
1 TAAAAATAT
*
3095846 GAAAAATA-
1 TAAAAATAT
3095854 TAATAAATTAT
1 TAA-AAA-TAT
3095865 TAAAAATAT
1 TAAAAATAT
3095874 ATAAAAATAT
1 -TAAAAATAT
* *
3095884 T-TAAATAC
1 TAAAAATAT
3095892 TAAAAAT-T
1 TAAAAATAT
*
3095900 AAAAAATAT
1 TAAAAATAT
3095909 TATAAAATAAAT
1 TA-AAAAT--AT
3095921 TAAAAATA
1 TAAAAATA
3095929 CACGGAAAAA
Statistics
Matches: 65, Mismatches: 9, Indels: 18
0.71 0.10 0.20
Matches are distributed among these distances:
8 14 0.22
9 20 0.31
10 19 0.29
11 8 0.12
12 4 0.06
ACGTcount: A:0.65, C:0.01, G:0.01, T:0.33
Consensus pattern (9 bp):
TAAAAATAT
Found at i:3095884 original size:19 final size:19
Alignment explanation
Indices: 3095833--3095928 Score: 74
Period size: 19 Copynumber: 5.1 Consensus size: 19
3095823 TACAAAAAGG
* *
3095833 TATATAAAATTATGAAAAA
1 TATATAAAAATATTAAAAA
*
3095852 TATA-ATAAATTATTAAAAA
1 TATATA-AAAATATTAAAAA
*
3095871 TATATAAAAATATT-TAAA
1 TATATAAAAATATTAAAAA
* *
3095889 TA-CTAAAAAT-TAAAAAA
1 TATATAAAAATATTAAAAA
*
3095906 TATTATAAAATAAATTAAAAA
1 TA-TATAAAA-ATATTAAAAA
3095927 TA
1 TA
3095929 CACGGAAAAA
Statistics
Matches: 61, Mismatches: 9, Indels: 12
0.74 0.11 0.15
Matches are distributed among these distances:
16 1 0.02
17 12 0.20
18 6 0.10
19 32 0.52
20 2 0.03
21 8 0.13
ACGTcount: A:0.65, C:0.01, G:0.01, T:0.33
Consensus pattern (19 bp):
TATATAAAAATATTAAAAA
Found at i:3097941 original size:2 final size:2
Alignment explanation
Indices: 3097936--3097965 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
3097926 ATATATATAT
*
3097936 AG AG AG AG AG AG AG AG AA AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
3097966 TTCGTAACGA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.53, C:0.00, G:0.47, T:0.00
Consensus pattern (2 bp):
AG
Found at i:3100462 original size:10 final size:10
Alignment explanation
Indices: 3100447--3100480 Score: 50
Period size: 10 Copynumber: 3.4 Consensus size: 10
3100437 TGAATTTTTT
*
3100447 TCGAATCGAA
1 TCGAATCGAG
3100457 TCGAATCGAG
1 TCGAATCGAG
*
3100467 TCAAATCGAG
1 TCGAATCGAG
3100477 TCGA
1 TCGA
3100481 GTTAACGAAT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
10 21 1.00
ACGTcount: A:0.35, C:0.21, G:0.24, T:0.21
Consensus pattern (10 bp):
TCGAATCGAG
Found at i:3100840 original size:23 final size:21
Alignment explanation
Indices: 3100809--3100854 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
3100799 AATAACTTGA
3100809 TTAACTCAAATAACTTGAATTAT
1 TTAACTC-AA-AACTTGAATTAT
* *
3100832 TTAATTCAAAATTTGAATTAT
1 TTAACTCAAAACTTGAATTAT
3100853 TT
1 TT
3100855 TTCGAGTTTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
21 13 0.62
22 2 0.10
23 6 0.29
ACGTcount: A:0.41, C:0.09, G:0.04, T:0.46
Consensus pattern (21 bp):
TTAACTCAAAACTTGAATTAT
Found at i:3104243 original size:44 final size:43
Alignment explanation
Indices: 3104193--3104280 Score: 124
Period size: 44 Copynumber: 2.0 Consensus size: 43
3104183 CTTTGTATAT
*
3104193 ATTAGTATCGTTAAATCATATG-ATATGATAAACTAGAAGTTTAC
1 ATTAGTATCGTTAAATCATATGCATA-G-TAAACCAGAAGTTTAC
* *
3104237 ATTAGTATCGTTGAATCATGTGCATAGTAAACCAGAAGTTTAC
1 ATTAGTATCGTTAAATCATATGCATAGTAAACCAGAAGTTTAC
3104280 A
1 A
3104281 AGTCCAAATA
Statistics
Matches: 40, Mismatches: 3, Indels: 3
0.87 0.07 0.07
Matches are distributed among these distances:
43 16 0.40
44 21 0.52
45 3 0.08
ACGTcount: A:0.39, C:0.11, G:0.16, T:0.34
Consensus pattern (43 bp):
ATTAGTATCGTTAAATCATATGCATAGTAAACCAGAAGTTTAC
Found at i:3104603 original size:12 final size:12
Alignment explanation
Indices: 3104588--3104612 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
3104578 AGTTTGCGAT
3104588 ATTATTTGTTTA
1 ATTATTTGTTTA
3104600 ATTATTTGTTTA
1 ATTATTTGTTTA
3104612 A
1 A
3104613 GAATAGAGCT
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:0.28, C:0.00, G:0.08, T:0.64
Consensus pattern (12 bp):
ATTATTTGTTTA
Found at i:3105034 original size:17 final size:17
Alignment explanation
Indices: 3105014--3105046 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
3105004 TTTAAGGATT
3105014 TTTTAATTTTA-TTTAAG
1 TTTT-ATTTTAGTTTAAG
3105031 TTTTATTTTAGTTTAA
1 TTTTATTTTAGTTTAA
3105047 TAAGTGTTTG
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 6 0.40
17 9 0.60
ACGTcount: A:0.27, C:0.00, G:0.06, T:0.67
Consensus pattern (17 bp):
TTTTATTTTAGTTTAAG
Found at i:3105320 original size:50 final size:50
Alignment explanation
Indices: 3105254--3105377 Score: 142
Period size: 50 Copynumber: 2.4 Consensus size: 50
3105244 CTCTCATGAG
* *
3105254 TAGTTAAGTTTGCATCATAAATAATGA-CACGCATTAAGTAACTTACATGT
1 TAGTTAAATTTGCATCATAAATAAT-ACCACGCATTAAGTAACTCACATGT
* ** * * *
3105304 TAGTTAAATATGCATCATAAATCCTACCATGCATTATGTAACTCCCATGT
1 TAGTTAAATTTGCATCATAAATAATACCACGCATTAAGTAACTCACATGT
3105354 TAGTTAAAGTTTGCATCATTAAAT
1 TAGTTAAA-TTTGCATCA-TAAAT
3105378 CAAGTCATGC
Statistics
Matches: 62, Mismatches: 9, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
49 1 0.02
50 48 0.77
51 8 0.13
52 5 0.08
ACGTcount: A:0.36, C:0.16, G:0.12, T:0.35
Consensus pattern (50 bp):
TAGTTAAATTTGCATCATAAATAATACCACGCATTAAGTAACTCACATGT
Found at i:3108535 original size:22 final size:22
Alignment explanation
Indices: 3108492--3108535 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 22
3108482 AATAATAACG
* * * *
3108492 ACAAAATAGTAGTAATATAATA
1 ACAAAATAGCAGCAAAACAATA
3108514 ACAAAATAGCAGCAAAACAATA
1 ACAAAATAGCAGCAAAACAATA
3108536 GCAGAAATTT
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.61, C:0.11, G:0.09, T:0.18
Consensus pattern (22 bp):
ACAAAATAGCAGCAAAACAATA
Found at i:3109602 original size:17 final size:18
Alignment explanation
Indices: 3109564--3109602 Score: 53
Period size: 19 Copynumber: 2.2 Consensus size: 18
3109554 TAACTTTTTA
*
3109564 ATATATTTTTTAAAACTTT
1 ATATATTTTTTAAAAC-AT
3109583 ATATATTTTTTAAAA-AT
1 ATATATTTTTTAAAACAT
3109600 ATA
1 ATA
3109603 AAATTTGAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 4 0.21
19 15 0.79
ACGTcount: A:0.44, C:0.03, G:0.00, T:0.54
Consensus pattern (18 bp):
ATATATTTTTTAAAACAT
Found at i:3109645 original size:55 final size:57
Alignment explanation
Indices: 3109524--3109646 Score: 128
Period size: 54 Copynumber: 2.2 Consensus size: 57
3109514 ATTAACTTCC
* * *
3109524 AAAATTATTATTTTAAAAAAATTAAAATTTTAACTTTTTAATATATTTTTTAAAACTT
1 AAAATTATT-TTTTAAAAAAATTAAAATTTGAACTTTTTAATAAATATTTTAAAACTT
* * * * *
3109582 TATA-TATTTTTTAAAAATA-TAAAATTTGAA-TTTTTTATAAATATTTTGAAA-TT
1 AAAATTATTTTTTAAAAAAATTAAAATTTGAACTTTTTAATAAATATTTTAAAACTT
3109635 AAAAATTATTTT
1 -AAAATTATTTT
3109647 AAAATTTTGA
Statistics
Matches: 53, Mismatches: 10, Indels: 7
0.76 0.14 0.10
Matches are distributed among these distances:
53 2 0.04
54 19 0.36
55 16 0.30
56 10 0.19
57 4 0.08
58 2 0.04
ACGTcount: A:0.46, C:0.02, G:0.02, T:0.51
Consensus pattern (57 bp):
AAAATTATTTTTTAAAAAAATTAAAATTTGAACTTTTTAATAAATATTTTAAAACTT
Found at i:3109658 original size:26 final size:29
Alignment explanation
Indices: 3109610--3109663 Score: 78
Period size: 27 Copynumber: 2.0 Consensus size: 29
3109600 ATAAAATTTG
*
3109610 AATTTTTTATAAATATTTTG-AAATTAAA
1 AATTATTTATAAATATTTTGAAAATTAAA
3109638 AATTATTT-TAAA-ATTTTGAAAATTAA
1 AATTATTTATAAATATTTTGAAAATTAA
3109664 TTTCAAATTT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
26 6 0.25
27 11 0.46
28 7 0.29
ACGTcount: A:0.48, C:0.00, G:0.04, T:0.48
Consensus pattern (29 bp):
AATTATTTATAAATATTTTGAAAATTAAA
Found at i:3109661 original size:20 final size:20
Alignment explanation
Indices: 3109636--3109674 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
3109626 TTTGAAATTA
*
3109636 AAAATTATTTTAAAATTTTG
1 AAAATTAATTTAAAATTTTG
*
3109656 AAAATTAATTTCAAATTTT
1 AAAATTAATTTAAAATTTT
3109675 TTATAATTTT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.46, C:0.03, G:0.03, T:0.49
Consensus pattern (20 bp):
AAAATTAATTTAAAATTTTG
Found at i:3109800 original size:23 final size:21
Alignment explanation
Indices: 3109774--3109829 Score: 60
Period size: 21 Copynumber: 2.6 Consensus size: 21
3109764 TTTGAATTAT
*
3109774 GAAATTCAACTCGACTTAATCTC
1 GAAATTCAAATCGACTT-A-CTC
*
3109797 GAAACTT-AAATCGAGTTACTC
1 GAAA-TTCAAATCGACTTACTC
3109818 GAAATTCAAATC
1 GAAATTCAAATC
3109830 TTTTTTCGAA
Statistics
Matches: 29, Mismatches: 2, Indels: 6
0.78 0.05 0.16
Matches are distributed among these distances:
20 2 0.07
21 12 0.41
22 1 0.03
23 12 0.41
24 2 0.07
ACGTcount: A:0.39, C:0.21, G:0.11, T:0.29
Consensus pattern (21 bp):
GAAATTCAAATCGACTTACTC
Found at i:3128427 original size:18 final size:19
Alignment explanation
Indices: 3128390--3128434 Score: 65
Period size: 20 Copynumber: 2.4 Consensus size: 19
3128380 AGAAAATTTG
3128390 AAAATAAATATAAACTCAAA
1 AAAATAAATATAAAC-CAAA
*
3128410 AAAATAAATTTAAA-CAAA
1 AAAATAAATATAAACCAAA
3128428 AAAATAA
1 AAAATAA
3128435 TTAAAAAATG
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
18 11 0.46
20 13 0.54
ACGTcount: A:0.73, C:0.07, G:0.00, T:0.20
Consensus pattern (19 bp):
AAAATAAATATAAACCAAA
Found at i:3131969 original size:23 final size:24
Alignment explanation
Indices: 3131923--3131969 Score: 66
Period size: 21 Copynumber: 2.1 Consensus size: 24
3131913 TTTAATCTAA
3131923 ATTTATTATAAATATATATATATT
1 ATTTATTATAAATATATATATATT
3131947 ATTT-TTA-AAATA-ATATAT-TT
1 ATTTATTATAAATATATATATATT
3131967 ATT
1 ATT
3131970 GGGAGTGGAA
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
20 5 0.22
21 6 0.26
22 5 0.22
23 3 0.13
24 4 0.17
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (24 bp):
ATTTATTATAAATATATATATATT
Found at i:3133314 original size:17 final size:17
Alignment explanation
Indices: 3133292--3133329 Score: 60
Period size: 17 Copynumber: 2.2 Consensus size: 17
3133282 TAAAATGTTA
3133292 ATTTAATTTATTTTA-AT
1 ATTTAA-TTATTTTATAT
3133309 ATTTAATTATTTTATAT
1 ATTTAATTATTTTATAT
3133326 ATTT
1 ATTT
3133330 TTTATTTATT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
16 8 0.40
17 12 0.60
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (17 bp):
ATTTAATTATTTTATAT
Found at i:3133334 original size:16 final size:16
Alignment explanation
Indices: 3133292--3133336 Score: 56
Period size: 16 Copynumber: 2.8 Consensus size: 16
3133282 TAAAATGTTA
3133292 ATTTAATTTATTTTAAT
1 ATTT-ATTTATTTTAAT
*
3133309 ATTTAATTATTTTATAT
1 ATTTATTTATTTTA-AT
3133326 ATTT-TTTATTT
1 ATTTATTTATTT
3133337 ATTGAAATTT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
16 15 0.60
17 10 0.40
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (16 bp):
ATTTATTTATTTTAAT
Found at i:3135985 original size:25 final size:24
Alignment explanation
Indices: 3135934--3136063 Score: 123
Period size: 23 Copynumber: 5.5 Consensus size: 24
3135924 TATACGGAAC
* *
3135934 AAACAGAGAGTAC-CA-AAGTACT
1 AAACAGAGAGCACACATAAGTGCT
3135956 -AACAGAGAG-A-ACATAAGTGCT
1 AAACAGAGAGCACACATAAGTGCT
3135977 AGGCAACAGAGAGCACACATAA-TGCT
1 A---AACAGAGAGCACACATAAGTGCT
3136003 AAACAGAGAGCACACA-AAGTGCT
1 AAACAGAGAGCACACATAAGTGCT
* *
3136026 AATCAGAGAGCACACA-CAGTGCT
1 AAACAGAGAGCACACATAAGTGCT
3136049 AATAACAGAGAGCAC
1 -A-AACAGAGAGCAC
3136064 GAGACGTGCT
Statistics
Matches: 93, Mismatches: 4, Indels: 19
0.80 0.03 0.16
Matches are distributed among these distances:
20 3 0.03
21 15 0.16
22 2 0.02
23 40 0.43
24 1 0.01
25 20 0.22
26 6 0.06
27 6 0.06
ACGTcount: A:0.46, C:0.21, G:0.22, T:0.12
Consensus pattern (24 bp):
AAACAGAGAGCACACATAAGTGCT
Found at i:3136072 original size:25 final size:24
Alignment explanation
Indices: 3136004--3136075 Score: 76
Period size: 23 Copynumber: 3.0 Consensus size: 24
3135994 CATAATGCTA
*
3136004 AACAGAGAGCACACAAAGTGCTAAT
1 AACAGAGAGCACA-AACGTGCTAAT
*
3136029 --CAGAGAGCACACACAGTGCTAAT
1 AACAGAGAGCACAAAC-GTGCTAAT
*
3136052 AACAGAGAGCACGAGACGTGCTAA
1 AACAGAGAGCAC-AAACGTGCTAA
3136076 ATAGAGAGCG
Statistics
Matches: 40, Mismatches: 3, Indels: 8
0.78 0.06 0.16
Matches are distributed among these distances:
22 1 0.03
23 19 0.47
25 17 0.43
26 3 0.08
ACGTcount: A:0.43, C:0.22, G:0.24, T:0.11
Consensus pattern (24 bp):
AACAGAGAGCACAAACGTGCTAAT
Found at i:3136073 original size:48 final size:47
Alignment explanation
Indices: 3135983--3136084 Score: 120
Period size: 48 Copynumber: 2.2 Consensus size: 47
3135973 TGCTAGGCAA
*
3135983 CAGAGAGCACACATAATGCTAAACAGAGAGCACACAAAGTGCT-AAT
1 CAGAGAGCACACACAATGCTAAACAGAGAGCACACAAAGTGCTAAAT
* * *
3136029 CAGAGAGCACACACAGTGCTAATAACAGAGAGCACGA-GACGTGCTAAAT
1 CAGAGAGCACACACAATGCT-A-AACAGAGAGCAC-ACAAAGTGCTAAAT
3136078 -AGAGAGC
1 CAGAGAGC
3136085 GCGCTAGTGT
Statistics
Matches: 48, Mismatches: 4, Indels: 6
0.83 0.07 0.10
Matches are distributed among these distances:
46 18 0.38
47 1 0.02
48 25 0.52
49 4 0.08
ACGTcount: A:0.43, C:0.22, G:0.24, T:0.12
Consensus pattern (47 bp):
CAGAGAGCACACACAATGCTAAACAGAGAGCACACAAAGTGCTAAAT
Found at i:3140721 original size:23 final size:23
Alignment explanation
Indices: 3140695--3140745 Score: 57
Period size: 23 Copynumber: 2.2 Consensus size: 23
3140685 TATTCAAATT
*
3140695 TCGATTAAAACTAAATTAATTGA
1 TCGATTAAAACTAAATTAATTAA
* ** *
3140718 TCGAATCGATCTAAATTAATTAA
1 TCGATTAAAACTAAATTAATTAA
3140741 TCGAT
1 TCGAT
3140746 CGGTGGTCGA
Statistics
Matches: 22, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.43, C:0.12, G:0.10, T:0.35
Consensus pattern (23 bp):
TCGATTAAAACTAAATTAATTAA
Found at i:3145256 original size:47 final size:47
Alignment explanation
Indices: 3145202--3145291 Score: 162
Period size: 47 Copynumber: 1.9 Consensus size: 47
3145192 AACTTATGTG
*
3145202 CTTTGATATAAGTGGAGGCTTATGCTCTAAAGATGATCAAGCCCACA
1 CTTTGATATAAGTGGAGGCTTATGCTCTAAAAATGATCAAGCCCACA
*
3145249 CTTTGATATAAGTGGAGGCTTATGCTCTAAAAATGATCGAGCC
1 CTTTGATATAAGTGGAGGCTTATGCTCTAAAAATGATCAAGCC
3145292 TAGAGCCAGT
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
47 41 1.00
ACGTcount: A:0.31, C:0.18, G:0.22, T:0.29
Consensus pattern (47 bp):
CTTTGATATAAGTGGAGGCTTATGCTCTAAAAATGATCAAGCCCACA
Found at i:3145646 original size:19 final size:19
Alignment explanation
Indices: 3145619--3145662 Score: 79
Period size: 19 Copynumber: 2.3 Consensus size: 19
3145609 TAAAGCAATT
*
3145619 AAAGGAATTGCTTTCGTAA
1 AAAGTAATTGCTTTCGTAA
3145638 AAAGTAATTGCTTTCGTAA
1 AAAGTAATTGCTTTCGTAA
3145657 AAAGTA
1 AAAGTA
3145663 TACAATTAGG
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 24 1.00
ACGTcount: A:0.41, C:0.09, G:0.18, T:0.32
Consensus pattern (19 bp):
AAAGTAATTGCTTTCGTAA
Found at i:3168327 original size:9 final size:9
Alignment explanation
Indices: 3168315--3168362 Score: 53
Period size: 9 Copynumber: 5.2 Consensus size: 9
3168305 TTAAATAATC
*
3168315 TATAAGAAT
1 TATAAAAAT
3168324 TATAAAAAT
1 TATAAAAAT
*
3168333 TATAATAAAC
1 TATAA-AAAT
3168343 T-TAAAAAT
1 TATAAAAAT
3168351 ATATAAAAAT
1 -TATAAAAAT
3168361 TA
1 TA
3168363 AATTTGATAT
Statistics
Matches: 33, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
8 3 0.09
9 19 0.58
10 11 0.33
ACGTcount: A:0.62, C:0.02, G:0.02, T:0.33
Consensus pattern (9 bp):
TATAAAAAT
Found at i:3169087 original size:18 final size:18
Alignment explanation
Indices: 3169064--3169102 Score: 60
Period size: 18 Copynumber: 2.2 Consensus size: 18
3169054 TTAGTAATGC
*
3169064 TTTTATCTCAAAAGTACT
1 TTTTATCTCAAAAATACT
*
3169082 TTTTATCTTAAAAATACT
1 TTTTATCTCAAAAATACT
3169100 TTT
1 TTT
3169103 GAAGAGTAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.33, C:0.13, G:0.03, T:0.51
Consensus pattern (18 bp):
TTTTATCTCAAAAATACT
Found at i:3177039 original size:33 final size:34
Alignment explanation
Indices: 3176955--3177039 Score: 109
Period size: 33 Copynumber: 2.5 Consensus size: 34
3176945 TTTGTAAAAT
* * *
3176955 TAATGGTACATAAATTATTATAAATAATTTAATA
1 TAATGATACATAAAATATTATAAATAATTCAATA
* **
3176989 TAAAGATACATGGAATATT-TAAATAATTCAATA
1 TAATGATACATAAAATATTATAAATAATTCAATA
3177022 TAATGATACATAAAATAT
1 TAATGATACATAAAATAT
3177040 AAATTAATAT
Statistics
Matches: 42, Mismatches: 9, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
33 28 0.67
34 14 0.33
ACGTcount: A:0.52, C:0.05, G:0.07, T:0.36
Consensus pattern (34 bp):
TAATGATACATAAAATATTATAAATAATTCAATA
Found at i:3184042 original size:23 final size:23
Alignment explanation
Indices: 3184009--3184112 Score: 120
Period size: 23 Copynumber: 4.4 Consensus size: 23
3183999 AGTGCTGGGC
* *
3184009 AACAGAAAGCACACACAGTGTTA
1 AACAGAGAGCACACACAGTGCTA
*
3184032 AACAGAGAGCACACAAAGTGCTA
1 AACAGAGAGCACACACAGTGCTA
* *
3184055 ATCAGAGAGCACACACATTGCTAA
1 AACAGAGAGCACACACAGTGCT-A
*
3184079 TAACAGAGAGCACGAGAC-GTGCTA
1 -AACAGAGAGCAC-ACACAGTGCTA
3184103 AACAGAGAGC
1 AACAGAGAGC
3184113 GTGATAGTGT
Statistics
Matches: 69, Mismatches: 9, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
23 49 0.71
24 2 0.03
25 15 0.22
26 3 0.04
ACGTcount: A:0.44, C:0.22, G:0.22, T:0.12
Consensus pattern (23 bp):
AACAGAGAGCACACACAGTGCTA
Found at i:3184101 original size:48 final size:46
Alignment explanation
Indices: 3184009--3184112 Score: 120
Period size: 48 Copynumber: 2.2 Consensus size: 46
3183999 AGTGCTGGGC
* *
3184009 AACAGAAAGCACACACAGTGTTAAACAGAGAGCACACAAAGTGCTA
1 AACAGAGAGCACACACAGTGTAAAACAGAGAGCACACAAAGTGCTA
* * * *
3184055 ATCAGAGAGCACACACATTGCTAATAACAGAGAGCACGA-GACGTGCTA
1 AACAGAGAGCACACACAGTG-TAA-AACAGAGAGCAC-ACAAAGTGCTA
3184103 AACAGAGAGC
1 AACAGAGAGC
3184113 GTGATAGTGT
Statistics
Matches: 48, Mismatches: 7, Indels: 4
0.81 0.12 0.07
Matches are distributed among these distances:
46 17 0.35
47 2 0.04
48 28 0.58
49 1 0.02
ACGTcount: A:0.44, C:0.22, G:0.22, T:0.12
Consensus pattern (46 bp):
AACAGAGAGCACACACAGTGTAAAACAGAGAGCACACAAAGTGCTA
Found at i:3186147 original size:18 final size:19
Alignment explanation
Indices: 3186126--3186169 Score: 54
Period size: 20 Copynumber: 2.3 Consensus size: 19
3186116 TAAATATATT
3186126 TCAA-ATATAAAAAATTCA
1 TCAATATATAAAAAATTCA
**
3186144 TCAATTATATAAATTATTCA
1 TCAA-TATATAAAAAATTCA
3186164 TCAATA
1 TCAATA
3186170 AACTTAATAA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
18 4 0.18
19 2 0.09
20 16 0.73
ACGTcount: A:0.52, C:0.11, G:0.00, T:0.36
Consensus pattern (19 bp):
TCAATATATAAAAAATTCA
Found at i:3186153 original size:20 final size:20
Alignment explanation
Indices: 3186130--3186168 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
3186120 TATATTTCAA
3186130 ATATAAAAAATTCATCAATT
1 ATATAAAAAATTCATCAATT
**
3186150 ATATAAATTATTCATCAAT
1 ATATAAAAAATTCATCAAT
3186169 AAACTTAATA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.51, C:0.10, G:0.00, T:0.38
Consensus pattern (20 bp):
ATATAAAAAATTCATCAATT
Found at i:3187519 original size:38 final size:38
Alignment explanation
Indices: 3187477--3187551 Score: 141
Period size: 38 Copynumber: 2.0 Consensus size: 38
3187467 AATCATACAT
*
3187477 TAATCGTAAAAGTACGTTTTAACTTTCATAATTTAATA
1 TAATCGTAAAAGTACGTCTTAACTTTCATAATTTAATA
3187515 TAATCGTAAAAGTACGTCTTAACTTTCATAATTTAAT
1 TAATCGTAAAAGTACGTCTTAACTTTCATAATTTAAT
3187552 TTTTGTATAT
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
38 36 1.00
ACGTcount: A:0.39, C:0.12, G:0.08, T:0.41
Consensus pattern (38 bp):
TAATCGTAAAAGTACGTCTTAACTTTCATAATTTAATA
Found at i:3188833 original size:10 final size:10
Alignment explanation
Indices: 3188818--3188847 Score: 53
Period size: 10 Copynumber: 3.1 Consensus size: 10
3188808 TCGATTAAAT
3188818 AAATCATTAA
1 AAATCATTAA
3188828 AAATCA-TAA
1 AAATCATTAA
3188837 AAATCATTAA
1 AAATCATTAA
3188847 A
1 A
3188848 TTATATGAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
9 9 0.47
10 10 0.53
ACGTcount: A:0.63, C:0.10, G:0.00, T:0.27
Consensus pattern (10 bp):
AAATCATTAA
Found at i:3200428 original size:28 final size:29
Alignment explanation
Indices: 3200377--3200437 Score: 81
Period size: 28 Copynumber: 2.1 Consensus size: 29
3200367 TTAAATTAGT
* *
3200377 AAAAATAAAATTATATTTTAAATTTTTTA
1 AAAAATAAAATTATAATTTAAATTCTTTA
3200406 AAAAATAAAAATT-TAATTT-AATTCTTTA
1 AAAAAT-AAAATTATAATTTAAATTCTTTA
3200434 AAAA
1 AAAA
3200438 TTGTAAAAAT
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
28 12 0.41
29 11 0.38
30 6 0.21
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.43
Consensus pattern (29 bp):
AAAAATAAAATTATAATTTAAATTCTTTA
Found at i:3202087 original size:7 final size:7
Alignment explanation
Indices: 3202075--3202109 Score: 54
Period size: 7 Copynumber: 5.0 Consensus size: 7
3202065 TCTTTATTAA
3202075 AATTATT
1 AATTATT
3202082 AATTATT
1 AATTATT
3202089 AATTATT
1 AATTATT
3202096 AATT-TT
1 AATTATT
3202102 AAATTATT
1 -AATTATT
3202110 TCACACGAGA
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
6 2 0.08
7 22 0.85
8 2 0.08
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (7 bp):
AATTATT
Found at i:3213951 original size:55 final size:55
Alignment explanation
Indices: 3213880--3213989 Score: 220
Period size: 55 Copynumber: 2.0 Consensus size: 55
3213870 AAGCGGAGTT
3213880 CAACTATGTTACTAGTAGCTCCACCACCAGACAAACGAAGCTCAACAAGTAAAGC
1 CAACTATGTTACTAGTAGCTCCACCACCAGACAAACGAAGCTCAACAAGTAAAGC
3213935 CAACTATGTTACTAGTAGCTCCACCACCAGACAAACGAAGCTCAACAAGTAAAGC
1 CAACTATGTTACTAGTAGCTCCACCACCAGACAAACGAAGCTCAACAAGTAAAGC
3213990 ATTATCACTT
Statistics
Matches: 55, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
55 55 1.00
ACGTcount: A:0.40, C:0.29, G:0.15, T:0.16
Consensus pattern (55 bp):
CAACTATGTTACTAGTAGCTCCACCACCAGACAAACGAAGCTCAACAAGTAAAGC
Found at i:3223976 original size:10 final size:10
Alignment explanation
Indices: 3223960--3224019 Score: 50
Period size: 10 Copynumber: 6.1 Consensus size: 10
3223950 TTTTTATTAT
3223960 TAATTTTTTA
1 TAATTTTTTA
* *
3223970 -AAATTTTAA
1 TAATTTTTTA
* *
3223979 AAATTATTTA
1 TAATTTTTTA
*
3223989 TAATTTCTTA
1 TAATTTTTTA
*
3223999 TAATTCTTTA
1 TAATTTTTTA
*
3224009 TAATTATTTA
1 TAATTTTTTA
3224019 T
1 T
3224020 GAAATAATTC
Statistics
Matches: 38, Mismatches: 11, Indels: 2
0.75 0.22 0.04
Matches are distributed among these distances:
9 7 0.18
10 31 0.82
ACGTcount: A:0.38, C:0.03, G:0.00, T:0.58
Consensus pattern (10 bp):
TAATTTTTTA
Found at i:3224095 original size:11 final size:10
Alignment explanation
Indices: 3224076--3224130 Score: 55
Period size: 10 Copynumber: 5.7 Consensus size: 10
3224066 CATAGATGTG
3224076 TTTTTAATAA
1 TTTTTAATAA
3224086 TTTTTAAATAA
1 TTTTT-AATAA
*
3224097 -TGTTAAT-A
1 TTTTTAATAA
3224105 TTTTT-ATAA
1 TTTTTAATAA
3224114 TTTCTT-ATAA
1 TTT-TTAATAA
3224124 TTTTTAA
1 TTTTTAA
3224131 ATAAATTTGT
Statistics
Matches: 38, Mismatches: 2, Indels: 10
0.76 0.04 0.20
Matches are distributed among these distances:
8 3 0.08
9 12 0.32
10 18 0.47
11 5 0.13
ACGTcount: A:0.36, C:0.02, G:0.02, T:0.60
Consensus pattern (10 bp):
TTTTTAATAA
Found at i:3224113 original size:17 final size:19
Alignment explanation
Indices: 3224079--3224130 Score: 54
Period size: 19 Copynumber: 2.7 Consensus size: 19
3224069 AGATGTGTTT
3224079 TTAATAATTTTTAAATAATG
1 TTAATAATTTTT-AATAATG
*
3224099 TTAAT-ATTTTT-ATAATT
1 TTAATAATTTTTAATAATG
*
3224116 TCTTATAATTTTTAA
1 T-TAATAATTTTTAA
3224131 ATAAATTTGT
Statistics
Matches: 27, Mismatches: 2, Indels: 6
0.77 0.06 0.17
Matches are distributed among these distances:
17 6 0.22
18 3 0.11
19 12 0.44
20 6 0.22
ACGTcount: A:0.38, C:0.02, G:0.02, T:0.58
Consensus pattern (19 bp):
TTAATAATTTTTAATAATG
Found at i:3224134 original size:21 final size:20
Alignment explanation
Indices: 3224076--3224152 Score: 70
Period size: 21 Copynumber: 3.9 Consensus size: 20
3224066 CATAGATGTG
3224076 TTTTTAATAATTTTTAAATAA
1 TTTTT-ATAATTTTTAAATAA
* *
3224097 TGTTAAT-ATTTTT--ATAA
1 TTTTTATAATTTTTAAATAA
3224114 TTTCTTATAATTTTTAAATAAA
1 TTT-TTATAATTTTTAAAT-AA
* *
3224136 TTTGTATAATTATTAAA
1 TTTTTATAATTTTTAAA
3224153 AAACCACGCC
Statistics
Matches: 45, Mismatches: 6, Indels: 10
0.74 0.10 0.16
Matches are distributed among these distances:
17 6 0.13
18 3 0.07
19 12 0.27
20 2 0.04
21 17 0.38
22 5 0.11
ACGTcount: A:0.40, C:0.01, G:0.03, T:0.56
Consensus pattern (20 bp):
TTTTTATAATTTTTAAATAA
Found at i:3242906 original size:21 final size:21
Alignment explanation
Indices: 3242880--3242922 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
3242870 ATAATTTTTT
* *
3242880 TTATAATTTATACCATTACAA
1 TTATAATATATAACATTACAA
*
3242901 TTATAATATATAATATTACAA
1 TTATAATATATAACATTACAA
3242922 T
1 T
3242923 GAAAAAAAGT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.47, C:0.09, G:0.00, T:0.44
Consensus pattern (21 bp):
TTATAATATATAACATTACAA
Found at i:3244405 original size:20 final size:20
Alignment explanation
Indices: 3244380--3244419 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
3244370 AATATACATA
3244380 AAAAT-CATATCAGATCTCAT
1 AAAATCCATATCA-ATCTCAT
3244400 AAAATCCATATCAATCTCAT
1 AAAATCCATATCAATCTCAT
3244420 TGTCGCATAT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 12 0.63
21 7 0.37
ACGTcount: A:0.45, C:0.23, G:0.03, T:0.30
Consensus pattern (20 bp):
AAAATCCATATCAATCTCAT
Found at i:3255196 original size:4 final size:4
Alignment explanation
Indices: 3255187--3255214 Score: 56
Period size: 4 Copynumber: 7.0 Consensus size: 4
3255177 TAATTTTTTA
3255187 CTAT CTAT CTAT CTAT CTAT CTAT CTAT
1 CTAT CTAT CTAT CTAT CTAT CTAT CTAT
3255215 ATATATAATC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 24 1.00
ACGTcount: A:0.25, C:0.25, G:0.00, T:0.50
Consensus pattern (4 bp):
CTAT
Found at i:3256469 original size:19 final size:20
Alignment explanation
Indices: 3256437--3256487 Score: 68
Period size: 20 Copynumber: 2.5 Consensus size: 20
3256427 TGAGTTAATT
*
3256437 TTTTTTAGATAATTAAG-TTTA
1 TTTTTTA-A-AATTAAGAGTTA
3256458 TTTTTTAAAATTAAGAGTTA
1 TTTTTTAAAATTAAGAGTTA
3256478 TTTTTTAAAA
1 TTTTTTAAAA
3256488 AATTAATGTA
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
19 7 0.25
20 14 0.50
21 7 0.25
ACGTcount: A:0.37, C:0.00, G:0.08, T:0.55
Consensus pattern (20 bp):
TTTTTTAAAATTAAGAGTTA
Found at i:3256488 original size:21 final size:20
Alignment explanation
Indices: 3256437--3256493 Score: 62
Period size: 20 Copynumber: 2.8 Consensus size: 20
3256427 TGAGTTAATT
* *
3256437 TTTTTTAGATAATTAAGTTTA
1 TTTTTTA-AAAATTAAGGTTA
3256458 TTTTTT-AAAATTAAGAGTTA
1 TTTTTTAAAAATTAAG-GTTA
3256478 TTTTTTAAAAAATTAA
1 TTTTTT-AAAAATTAA
3256494 TGTATTATTT
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
19 8 0.26
20 9 0.29
21 6 0.19
22 8 0.26
ACGTcount: A:0.40, C:0.00, G:0.07, T:0.53
Consensus pattern (20 bp):
TTTTTTAAAAATTAAGGTTA
Found at i:3256499 original size:20 final size:20
Alignment explanation
Indices: 3256437--3256504 Score: 59
Period size: 20 Copynumber: 3.4 Consensus size: 20
3256427 TGAGTTAATT
* *
3256437 TTTTTTAGATAATTAAGTTTA
1 TTTTTTA-AAAATTAAGTGTA
*
3256458 TTTTTT-AAAATTAAGAGTTA
1 TTTTTTAAAAATTAAGTG-TA
3256478 TTTTTTAAAAAATTAA-TGTA
1 TTTTTT-AAAAATTAAGTGTA
*
3256498 TTATTTA
1 TTTTTTA
3256505 TTTATTTTGT
Statistics
Matches: 39, Mismatches: 5, Indels: 8
0.75 0.10 0.15
Matches are distributed among these distances:
19 9 0.23
20 15 0.38
21 7 0.18
22 8 0.21
ACGTcount: A:0.38, C:0.00, G:0.07, T:0.54
Consensus pattern (20 bp):
TTTTTTAAAAATTAAGTGTA
Found at i:3260718 original size:13 final size:13
Alignment explanation
Indices: 3260700--3260727 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
3260690 TTTAATGATT
3260700 ATAAGAAAGTTAA
1 ATAAGAAAGTTAA
3260713 ATAAGAAAGTTAA
1 ATAAGAAAGTTAA
3260726 AT
1 AT
3260728 TATTTAATTA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.61, C:0.00, G:0.14, T:0.25
Consensus pattern (13 bp):
ATAAGAAAGTTAA
Found at i:3268248 original size:24 final size:23
Alignment explanation
Indices: 3268172--3268257 Score: 93
Period size: 23 Copynumber: 3.7 Consensus size: 23
3268162 TTAATGTTCA
* *
3268172 CGAATATGTTCATTTAAC-TTAAT
1 CGAACATGTTCA-TGAACATTAAT
* * *
3268195 CGAACATGCTCACGAACATTAAA
1 CGAACATGTTCATGAACATTAAT
3268218 CGAACATGTTCATGAACATATAAT
1 CGAACATGTTCATGAACAT-TAAT
*
3268242 TGAACATGTTCATGAA
1 CGAACATGTTCATGAA
3268258 TAATGTTAAT
Statistics
Matches: 52, Mismatches: 9, Indels: 3
0.81 0.14 0.05
Matches are distributed among these distances:
22 3 0.06
23 31 0.60
24 18 0.35
ACGTcount: A:0.40, C:0.17, G:0.13, T:0.30
Consensus pattern (23 bp):
CGAACATGTTCATGAACATTAAT
Found at i:3268378 original size:12 final size:11
Alignment explanation
Indices: 3268349--3268406 Score: 62
Period size: 12 Copynumber: 5.0 Consensus size: 11
3268339 ATCTTTAATA
3268349 AATAAACGAGC
1 AATAAACGAGC
*
3268360 CATAAACGAGTC
1 AATAAACGAG-C
3268372 AATAAACGAGC
1 AATAAACGAGC
*
3268383 TTATAAACGAGCC
1 -AATAAACGAG-C
*
3268396 AATAGACGAGC
1 AATAAACGAGC
3268407 TTGTTCGTAA
Statistics
Matches: 39, Mismatches: 5, Indels: 6
0.78 0.10 0.12
Matches are distributed among these distances:
11 11 0.28
12 27 0.69
13 1 0.03
ACGTcount: A:0.47, C:0.21, G:0.19, T:0.14
Consensus pattern (11 bp):
AATAAACGAGC
Found at i:3268393 original size:24 final size:24
Alignment explanation
Indices: 3268349--3268408 Score: 86
Period size: 24 Copynumber: 2.5 Consensus size: 24
3268339 ATCTTTAATA
* *
3268349 AATAAACGAGC-CATAAACGAGTC
1 AATAAACGAGCTTATAAACGAGCC
3268372 AATAAACGAGCTTATAAACGAGCC
1 AATAAACGAGCTTATAAACGAGCC
*
3268396 AATAGACGAGCTT
1 AATAAACGAGCTT
3268409 GTTCGTAAAC
Statistics
Matches: 33, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
23 11 0.33
24 22 0.67
ACGTcount: A:0.45, C:0.20, G:0.18, T:0.17
Consensus pattern (24 bp):
AATAAACGAGCTTATAAACGAGCC
Found at i:3270178 original size:29 final size:26
Alignment explanation
Indices: 3270108--3270183 Score: 77
Period size: 28 Copynumber: 2.9 Consensus size: 26
3270098 ATCGCTTTTT
*
3270108 TATTTAAT-TTAT-AAATAATTTTAA
1 TATTTAATGATATAAAATAATTTTAA
*
3270132 TTTTTAATGATATAAAATACATATTTAA
1 TATTTAATGATATAAAATA-AT-TTTAA
3270160 TATTTAAT-ATAGTGAAAATAATTT
1 TATTTAATGATA-T-AAAATAATTT
3270184 AAAAGTTCTT
Statistics
Matches: 43, Mismatches: 3, Indels: 9
0.78 0.05 0.16
Matches are distributed among these distances:
24 7 0.16
25 3 0.07
26 5 0.12
27 7 0.16
28 15 0.35
29 6 0.14
ACGTcount: A:0.46, C:0.01, G:0.04, T:0.49
Consensus pattern (26 bp):
TATTTAATGATATAAAATAATTTTAA
Found at i:3271653 original size:29 final size:31
Alignment explanation
Indices: 3271618--3271684 Score: 93
Period size: 31 Copynumber: 2.2 Consensus size: 31
3271608 ATCTTTATAT
*
3271618 TTTTTAAAGA-ATTAAATTA-AATTTTATCA
1 TTTTTAAAGAGATCAAATTACAATTTTATCA
*
3271647 TTTTTAAAGAGATCAAATTACAATTTTATTA
1 TTTTTAAAGAGATCAAATTACAATTTTATCA
*
3271678 TTATTAA
1 TTTTTAA
3271685 TTTAAAATTT
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
29 10 0.30
30 8 0.24
31 15 0.45
ACGTcount: A:0.43, C:0.04, G:0.04, T:0.48
Consensus pattern (31 bp):
TTTTTAAAGAGATCAAATTACAATTTTATCA
Found at i:3272368 original size:151 final size:151
Alignment explanation
Indices: 3272094--3272390 Score: 452
Period size: 151 Copynumber: 2.0 Consensus size: 151
3272084 ATTAACCCAA
*
3272094 AGATTCAATATCTTTTATTCCAATATCTTCTTCCCGTTAAGTTTTTTTAGGTTAATGGGTTTCAA
1 AGATTCAATATCTTTTATTCCAATATCTTCTTCCCGTTAAGTTTTTTTAGGTTAATGAGTTTCAA
* * * * * *
3272159 ATATTTAAGCTTTGAGACAGATTTATAACAAAAGATATTGGAATAAAAATAGAAGAAGATGAAGA
66 AGATTCAAGCTTTGAGACAAATTTATAACAAAAGATATTGGAATAAAAAGAGAAGAAGATAAAAA
*
3272224 TGAAGAAGAAAGGTGTATGGG
131 TGAAAAAGAAAGGTGTATGGG
* *
3272245 AGATTCAATATTTTTTATTCCAATATCTTCTTCCCGTTAAGTTTTTTTGGGTTAATGAGTTTCAA
1 AGATTCAATATCTTTTATTCCAATATCTTCTTCCCGTTAAGTTTTTTTAGGTTAATGAGTTTCAA
* * *
3272310 AGATTCAAGCTTTGAGACAAATTTGTAACTAAAA-ATATTGGAATCAAAAGGGAAGAAGATAAAA
66 AGATTCAAGCTTTGAGACAAATTTATAAC-AAAAGATATTGGAATAAAAAGAGAAGAAGATAAAA
*
3272374 ATGAAAAAGAGAGGTGT
130 ATGAAAAAGAAAGGTGT
3272391 GTGAAAATGA
Statistics
Matches: 131, Mismatches: 14, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
151 127 0.97
152 4 0.03
ACGTcount: A:0.38, C:0.09, G:0.19, T:0.34
Consensus pattern (151 bp):
AGATTCAATATCTTTTATTCCAATATCTTCTTCCCGTTAAGTTTTTTTAGGTTAATGAGTTTCAA
AGATTCAAGCTTTGAGACAAATTTATAACAAAAGATATTGGAATAAAAAGAGAAGAAGATAAAAA
TGAAAAAGAAAGGTGTATGGG
Found at i:3273098 original size:25 final size:26
Alignment explanation
Indices: 3273045--3273101 Score: 66
Period size: 26 Copynumber: 2.2 Consensus size: 26
3273035 TCTAGTTTTT
*
3273045 TTAAAAGTCAATTAAATTTAAATTTA
1 TTAAAAGTCAATTAAATTTAAATTAA
3273071 TTAAAA-TCAAATTAAA-TT-AATTGAA
1 TTAAAAGTC-AATTAAATTTAAATT-AA
3273096 TTAAAA
1 TTAAAA
3273102 AATCTATAGA
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
24 4 0.14
25 11 0.39
26 13 0.46
ACGTcount: A:0.54, C:0.04, G:0.04, T:0.39
Consensus pattern (26 bp):
TTAAAAGTCAATTAAATTTAAATTAA
Found at i:3273842 original size:29 final size:30
Alignment explanation
Indices: 3273810--3273908 Score: 85
Period size: 29 Copynumber: 3.3 Consensus size: 30
3273800 CTATTTTTTG
3273810 TTTTATTTTGATGTAATTGTATATAT-AAA
1 TTTTATTTTGATGTAATTGTATATATGAAA
* * **
3273839 TTTTAATTT-AGTGTAATTATATACGTGAAA
1 TTTTATTTTGA-TGTAATTGTATATATGAAA
* * * * *
3273869 TTTTAATTGTGATTTAATGGTATATTTGTAA
1 TTTT-ATTTTGATGTAATTGTATATATGAAA
3273900 TTTTATTTT
1 TTTTATTTT
3273909 TTATTTAATT
Statistics
Matches: 53, Mismatches: 13, Indels: 7
0.73 0.18 0.10
Matches are distributed among these distances:
28 1 0.02
29 20 0.38
30 11 0.21
31 20 0.38
32 1 0.02
ACGTcount: A:0.31, C:0.01, G:0.12, T:0.56
Consensus pattern (30 bp):
TTTTATTTTGATGTAATTGTATATATGAAA
Found at i:3274532 original size:17 final size:17
Alignment explanation
Indices: 3274510--3274544 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
3274500 GTAGGAATAC
3274510 TTGAAAGTAAGCACATT
1 TTGAAAGTAAGCACATT
*
3274527 TTGAAAGTAAGCATATT
1 TTGAAAGTAAGCACATT
3274544 T
1 T
3274545 AGACAACCTC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.40, C:0.09, G:0.17, T:0.34
Consensus pattern (17 bp):
TTGAAAGTAAGCACATT
Found at i:3278464 original size:17 final size:17
Alignment explanation
Indices: 3278442--3278476 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
3278432 AAAAAATTAT
3278442 TAAAAAAT-TTATAAAAA
1 TAAAAAATATT-TAAAAA
3278459 TAAAAAATATTTAAAAA
1 TAAAAAATATTTAAAAA
3278476 T
1 T
3278477 TGATTCAACC
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 15 0.88
18 2 0.12
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (17 bp):
TAAAAAATATTTAAAAA
Found at i:3278521 original size:33 final size:33
Alignment explanation
Indices: 3278479--3278543 Score: 112
Period size: 33 Copynumber: 2.0 Consensus size: 33
3278469 TTAAAAATTG
* *
3278479 ATTCAACCGTTTGGTTCAATTGATTTTTTATTA
1 ATTCAACCGTCTGGTTCAATTAATTTTTTATTA
3278512 ATTCAACCGTCTGGTTCAATTAATTTTTTATT
1 ATTCAACCGTCTGGTTCAATTAATTTTTTATT
3278544 GGTTTAATAT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.25, C:0.14, G:0.11, T:0.51
Consensus pattern (33 bp):
ATTCAACCGTCTGGTTCAATTAATTTTTTATTA
Found at i:3283956 original size:28 final size:26
Alignment explanation
Indices: 3283892--3283958 Score: 71
Period size: 28 Copynumber: 2.5 Consensus size: 26
3283882 GTATATATTT
* *
3283892 TTATAATTTTTAAAAATTAAATTAAA
1 TTATATTTTTTAAAAATTAAAATAAA
* *
3283918 TTTTATATTTTTAAGGAATTAAAATATAA
1 TTATAT-TTTTTAA-AAATTAAAATA-AA
3283947 TTATATTTTTTA
1 TTATATTTTTTA
3283959 TTAATTTAAA
Statistics
Matches: 33, Mismatches: 5, Indels: 4
0.79 0.12 0.10
Matches are distributed among these distances:
26 4 0.12
27 7 0.21
28 15 0.45
29 7 0.21
ACGTcount: A:0.45, C:0.00, G:0.03, T:0.52
Consensus pattern (26 bp):
TTATATTTTTTAAAAATTAAAATAAA
Found at i:3285852 original size:6 final size:6
Alignment explanation
Indices: 3285835--3285902 Score: 109
Period size: 6 Copynumber: 11.3 Consensus size: 6
3285825 ATATAAAATC
* * *
3285835 AACACT AGCACT ACCACT ACCACT AACACT AACACT AACACT AACACT
1 AACACT AACACT AACACT AACACT AACACT AACACT AACACT AACACT
3285883 AACACT AACACT AACACT AA
1 AACACT AACACT AACACT AA
3285903 AGGAATTTTA
Statistics
Matches: 59, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
6 59 1.00
ACGTcount: A:0.47, C:0.35, G:0.01, T:0.16
Consensus pattern (6 bp):
AACACT
Found at i:3291583 original size:30 final size:31
Alignment explanation
Indices: 3291526--3291585 Score: 77
Period size: 31 Copynumber: 2.0 Consensus size: 31
3291516 TCAAAACTAA
* *
3291526 AAAAAAATCTTAAAAATAAATATAAATTATT
1 AAAAAAATATTAAAAATAAATAAAAATTATT
* *
3291557 AAAAATATATTAAAAGT-AATAAAAATTAT
1 AAAAAAATATTAAAAATAAATAAAAATTAT
3291586 GCTAACATAT
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
30 11 0.44
31 14 0.56
ACGTcount: A:0.65, C:0.02, G:0.02, T:0.32
Consensus pattern (31 bp):
AAAAAAATATTAAAAATAAATAAAAATTATT
Found at i:3304759 original size:11 final size:11
Alignment explanation
Indices: 3304728--3304769 Score: 50
Period size: 11 Copynumber: 3.9 Consensus size: 11
3304718 TCCAACTTGG
3304728 ATTTTAAATTA
1 ATTTTAAATTA
* *
3304739 AGTTTGAATTA
1 ATTTTAAATTA
*
3304750 ATTTTAAATTT
1 ATTTTAAATTA
3304761 A-TTTAAATT
1 ATTTTAAATT
3304770 TAAATTTGTT
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
10 8 0.31
11 18 0.69
ACGTcount: A:0.40, C:0.00, G:0.05, T:0.55
Consensus pattern (11 bp):
ATTTTAAATTA
Found at i:3304769 original size:17 final size:17
Alignment explanation
Indices: 3304730--3304791 Score: 74
Period size: 17 Copynumber: 3.8 Consensus size: 17
3304720 CAACTTGGAT
*
3304730 TTTAAA-TTAAGTTTGA
1 TTTAAATTTAAATTTGA
* *
3304746 ATTAATTTTAAATTT-A
1 TTTAAATTTAAATTTGA
*
3304762 TTTAAATTTAAATTTGT
1 TTTAAATTTAAATTTGA
3304779 TTTAAATTTAAAT
1 TTTAAATTTAAAT
3304792 ACATTTAAGA
Statistics
Matches: 38, Mismatches: 6, Indels: 3
0.81 0.13 0.06
Matches are distributed among these distances:
16 18 0.47
17 20 0.53
ACGTcount: A:0.40, C:0.00, G:0.05, T:0.55
Consensus pattern (17 bp):
TTTAAATTTAAATTTGA
Found at i:3304772 original size:22 final size:22
Alignment explanation
Indices: 3304728--3304769 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
3304718 TCCAACTTGG
*
3304728 ATTTTAAATTAAGTTTGAATTA
1 ATTTTAAATTAAGTTTAAATTA
*
3304750 ATTTTAAATTTA-TTTAAATT
1 ATTTTAAATTAAGTTTAAATT
3304770 TAAATTTGTT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 7 0.39
22 11 0.61
ACGTcount: A:0.40, C:0.00, G:0.05, T:0.55
Consensus pattern (22 bp):
ATTTTAAATTAAGTTTAAATTA
Found at i:3304775 original size:27 final size:27
Alignment explanation
Indices: 3304736--3304788 Score: 70
Period size: 27 Copynumber: 2.0 Consensus size: 27
3304726 GGATTTTAAA
* *
3304736 TTAAGTTTGAATTAATTTTAAATTTAT
1 TTAAATTTAAATTAATTTTAAATTTAT
**
3304763 TTAAATTTAAATTTGTTTTAAATTTA
1 TTAAATTTAAATTAATTTTAAATTTA
3304789 AATACATTTA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 22 1.00
ACGTcount: A:0.38, C:0.00, G:0.06, T:0.57
Consensus pattern (27 bp):
TTAAATTTAAATTAATTTTAAATTTAT
Found at i:3305649 original size:31 final size:29
Alignment explanation
Indices: 3305608--3305691 Score: 78
Period size: 31 Copynumber: 2.7 Consensus size: 29
3305598 TTTGATTACT
*
3305608 AATAATAATAATAAGTATAATAATAAATAAC
1 AATATTAATAATAA-TA-AATAATAAATAAC
* * * *
3305639 ATTATTAATAATAATACAGTAATTAATGAC
1 AATATTAATAATAATA-AATAATAAATAAC
3305669 AATATTAATTAATAAATAAATAA
1 AATATTAA-TAAT-AATAAATAA
3305692 GAATAAAAAA
Statistics
Matches: 43, Mismatches: 8, Indels: 4
0.78 0.15 0.07
Matches are distributed among these distances:
30 19 0.44
31 20 0.47
32 4 0.09
ACGTcount: A:0.60, C:0.04, G:0.04, T:0.33
Consensus pattern (29 bp):
AATATTAATAATAATAAATAATAAATAAC
Found at i:3306946 original size:29 final size:29
Alignment explanation
Indices: 3306839--3306974 Score: 106
Period size: 29 Copynumber: 4.7 Consensus size: 29
3306829 AAATTGTTCA
*
3306839 AAAATTACCATTTTACCCCTAAACTTTCC
1 AAAATTACCATTTTACCCCCAAACTTTCC
* *
3306868 AAAA-T-CCTATTTTTA-ACCCAGA-TTTCACC
1 AAAATTACC-A-TTTTACCCCCAAACTTT--CC
3306897 AAAAATTACCATTTTACCCCCAAACTTTCC
1 -AAAATTACCATTTTACCCCCAAACTTTCC
* *
3306927 AAAATT-CCATTTTTACCCCCATAA--GTCA
1 AAAATTACCA-TTTTACCCCCA-AACTTTCC
*
3306955 AAAATTACCATTTCACCCCC
1 AAAATTACCATTTTACCCCC
3306975 GGGCATCCAA
Statistics
Matches: 87, Mismatches: 8, Indels: 25
0.73 0.07 0.21
Matches are distributed among these distances:
27 5 0.06
28 26 0.30
29 31 0.36
30 13 0.15
31 7 0.08
32 5 0.06
ACGTcount: A:0.35, C:0.32, G:0.01, T:0.32
Consensus pattern (29 bp):
AAAATTACCATTTTACCCCCAAACTTTCC
Found at i:3322448 original size:32 final size:33
Alignment explanation
Indices: 3322402--3322487 Score: 97
Period size: 34 Copynumber: 2.7 Consensus size: 33
3322392 TCATTTTGAT
* * *
3322402 TTAAATAAAAAAAAACTT-AATTATCTAGTGAC
1 TTAAATAAAAAAAATCTTAAATGATCTAATGAC
* *
3322434 TTAAATAAACAAAAATTTTAAATGATTTAATGAC
1 TTAAATAAA-AAAAATCTTAAATGATCTAATGAC
3322468 TTAAAT-AAAAAAAT-TTAAAT
1 TTAAATAAAAAAAATCTTAAAT
3322488 AGTTTAATGA
Statistics
Matches: 47, Mismatches: 5, Indels: 5
0.82 0.09 0.09
Matches are distributed among these distances:
31 6 0.13
32 15 0.32
33 9 0.19
34 17 0.36
ACGTcount: A:0.56, C:0.06, G:0.05, T:0.34
Consensus pattern (33 bp):
TTAAATAAAAAAAATCTTAAATGATCTAATGAC
Found at i:3322485 original size:31 final size:34
Alignment explanation
Indices: 3322430--3322497 Score: 99
Period size: 31 Copynumber: 2.1 Consensus size: 34
3322420 AATTATCTAG
3322430 TGACTTAAATAAACAAAAATTTTAAAT-GATTTAA
1 TGACTTAAATAAACAAAAATTTTAAATAG-TTTAA
3322464 TGACTTAAAT-AA-AAAAA-TTTAAATAGTTTAA
1 TGACTTAAATAAACAAAAATTTTAAATAGTTTAA
3322495 TGA
1 TGA
3322498 TAATATTAAA
Statistics
Matches: 33, Mismatches: 0, Indels: 5
0.87 0.00 0.13
Matches are distributed among these distances:
31 15 0.45
32 6 0.18
33 2 0.06
34 10 0.30
ACGTcount: A:0.53, C:0.04, G:0.07, T:0.35
Consensus pattern (34 bp):
TGACTTAAATAAACAAAAATTTTAAATAGTTTAA
Found at i:3324436 original size:20 final size:19
Alignment explanation
Indices: 3324400--3324438 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 19
3324390 AATAATTCCT
3324400 AAATTATATTAATTTTTTC
1 AAATTATATTAATTTTTTC
3324419 AAATTGATATTTAATTTTTT
1 AAATT-ATA-TTAATTTTTT
3324439 TTTAGTTTAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 5 0.28
20 3 0.17
21 10 0.56
ACGTcount: A:0.36, C:0.03, G:0.03, T:0.59
Consensus pattern (19 bp):
AAATTATATTAATTTTTTC
Found at i:3326022 original size:16 final size:16
Alignment explanation
Indices: 3326001--3326032 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
3325991 TGCCCCAAAC
3326001 CTTTTTCTTTCTTTTT
1 CTTTTTCTTTCTTTTT
3326017 CTTTTTCTTTCTTTTT
1 CTTTTTCTTTCTTTTT
3326033 TCCTTGCCTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.00, C:0.19, G:0.00, T:0.81
Consensus pattern (16 bp):
CTTTTTCTTTCTTTTT
Found at i:3326577 original size:20 final size:21
Alignment explanation
Indices: 3326537--3326583 Score: 87
Period size: 21 Copynumber: 2.3 Consensus size: 21
3326527 CATTCATTTC
3326537 AACCAAACCCATTTAAAACCA
1 AACCAAACCCATTTAAAACCA
3326558 AACCAAACCCATTT-AAACCA
1 AACCAAACCCATTTAAAACCA
3326578 AACCAA
1 AACCAA
3326584 TTGAACCAAG
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
20 12 0.46
21 14 0.54
ACGTcount: A:0.53, C:0.34, G:0.00, T:0.13
Consensus pattern (21 bp):
AACCAAACCCATTTAAAACCA
Found at i:3326659 original size:20 final size:20
Alignment explanation
Indices: 3326636--3326803 Score: 108
Period size: 20 Copynumber: 8.1 Consensus size: 20
3326626 CGTTGACCAG
*
3326636 CGTTGACCACTGACCGTTGA
1 CGTTGACCATTGACCGTTGA
* *
3326656 CGTTGACCGTTGACTGTTGA
1 CGTTGACCATTGACCGTTGA
* *
3326676 CTTTGACCGTTGACCATTGACTTTGA
1 CGTTGACCATTGACC---G---TTGA
*
3326702 CAGTTGACCACTGACCGTTGA
1 C-GTTGACCATTGACCGTTGA
* **
3326723 CTTTGACCATTGACCACTGA
1 CGTTGACCATTGACCGTTGA
*
3326743 CCGTTGA-CTTTGACCGTTGA
1 -CGTTGACCATTGACCGTTGA
* *
3326763 CCGTTGA-CTTTGACTGTTGA
1 -CGTTGACCATTGACCGTTGA
*
3326783 CAGTTGA-CTTTGACCGTTGA
1 C-GTTGACCATTGACCGTTGA
3326803 C
1 C
3326804 TTTTTTTCGA
Statistics
Matches: 121, Mismatches: 18, Indels: 18
0.77 0.11 0.11
Matches are distributed among these distances:
19 1 0.01
20 92 0.76
21 10 0.08
23 1 0.01
24 1 0.01
26 5 0.04
27 11 0.09
ACGTcount: A:0.19, C:0.25, G:0.23, T:0.33
Consensus pattern (20 bp):
CGTTGACCATTGACCGTTGA
Found at i:3326676 original size:27 final size:27
Alignment explanation
Indices: 3326646--3326806 Score: 177
Period size: 27 Copynumber: 6.0 Consensus size: 27
3326636 CGTTGACCAC
3326646 TGACCGTTGA-CGTTGACCGTTGACTGT
1 TGACCGTTGACCGTTGACCGTTGACT-T
* *
3326673 TGA-CTTTGACCGTTGACCATTGACTT
1 TGACCGTTGACCGTTGACCGTTGACTT
* **
3326699 TGACAGTTGACCACTGACCGTTGACTT
1 TGACCGTTGACCGTTGACCGTTGACTT
* **
3326726 TGACCATTGACCACTGACCGTTGACTT
1 TGACCGTTGACCGTTGACCGTTGACTT
*
3326753 TGACCGTTGACCGTTGA-CTTTGACTGT
1 TGACCGTTGACCGTTGACCGTTGACT-T
* *
3326780 TGACAGTTGA-CTTTGACCGTTGACTT
1 TGACCGTTGACCGTTGACCGTTGACTT
3326806 T
1 T
3326807 TTTTCGAAAA
Statistics
Matches: 114, Mismatches: 16, Indels: 9
0.82 0.12 0.06
Matches are distributed among these distances:
26 23 0.20
27 91 0.80
ACGTcount: A:0.19, C:0.24, G:0.23, T:0.35
Consensus pattern (27 bp):
TGACCGTTGACCGTTGACCGTTGACTT
Found at i:3326687 original size:47 final size:47
Alignment explanation
Indices: 3326636--3326783 Score: 208
Period size: 47 Copynumber: 3.1 Consensus size: 47
3326626 CGTTGACCAG
*
3326636 CGTTGACCACTGACCGTTGACGTTGACCGTTGACTGTTGACTTTGAC
1 CGTTGACCACTGACCGTTGACGTTGACCGTTGACCGTTGACTTTGAC
* * **
3326683 CGTTGACCATTGA-CTTTGACAGTTGACCACTGACCGTTGACTTTGAC
1 CGTTGACCACTGACCGTTGAC-GTTGACCGTTGACCGTTGACTTTGAC
* *
3326730 CATTGACCACTGACCGTTGACTTTGACCGTTGACCGTTGACTTTGAC
1 CGTTGACCACTGACCGTTGACGTTGACCGTTGACCGTTGACTTTGAC
*
3326777 TGTTGAC
1 CGTTGAC
3326784 AGTTGACTTT
Statistics
Matches: 86, Mismatches: 13, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
46 6 0.07
47 74 0.86
48 6 0.07
ACGTcount: A:0.19, C:0.26, G:0.23, T:0.32
Consensus pattern (47 bp):
CGTTGACCACTGACCGTTGACGTTGACCGTTGACCGTTGACTTTGAC
Found at i:3327853 original size:3 final size:3
Alignment explanation
Indices: 3327841--3327885 Score: 83
Period size: 3 Copynumber: 15.3 Consensus size: 3
3327831 TATTCTATTC
3327841 TAT T-T TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
3327886 TTGGGATATA
Statistics
Matches: 41, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
2 2 0.05
3 39 0.95
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TAT
Found at i:3333341 original size:17 final size:17
Alignment explanation
Indices: 3333319--3333353 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
3333309 TGCCCCAAAC
3333319 CTTTTTCTTTCTTTTTT
1 CTTTTTCTTTCTTTTTT
3333336 CTTTTTCTTTCTTTTTT
1 CTTTTTCTTTCTTTTTT
3333353 C
1 C
3333354 CTTGCCTTAC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.00, C:0.20, G:0.00, T:0.80
Consensus pattern (17 bp):
CTTTTTCTTTCTTTTTT
Found at i:3333870 original size:15 final size:16
Alignment explanation
Indices: 3333850--3333880 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
3333840 AACCCACATT
3333850 CATTT-AAACCAAACC
1 CATTTAAAACCAAACC
3333865 CATTTAAAACCAAACC
1 CATTTAAAACCAAACC
3333881 AAACCCATTT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 5 0.33
16 10 0.67
ACGTcount: A:0.48, C:0.32, G:0.00, T:0.19
Consensus pattern (16 bp):
CATTTAAAACCAAACC
Found at i:3333897 original size:20 final size:21
Alignment explanation
Indices: 3333855--3333902 Score: 80
Period size: 21 Copynumber: 2.3 Consensus size: 21
3333845 ACATTCATTT
3333855 AAACCAAACCCATTTAAAACC
1 AAACCAAACCCATTTAAAACC
*
3333876 AAACCAAACCCATTT-GAACC
1 AAACCAAACCCATTTAAAACC
3333896 AAACCAA
1 AAACCAA
3333903 TTGAACCAAG
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
20 11 0.42
21 15 0.58
ACGTcount: A:0.52, C:0.33, G:0.02, T:0.12
Consensus pattern (21 bp):
AAACCAAACCCATTTAAAACC
Found at i:3333908 original size:14 final size:15
Alignment explanation
Indices: 3333877--3333911 Score: 54
Period size: 14 Copynumber: 2.4 Consensus size: 15
3333867 TTTAAAACCA
*
3333877 AACCAAACCCATTTG
1 AACCAAACCCAATTG
3333892 AACCAAA-CCAATTG
1 AACCAAACCCAATTG
3333906 AACCAA
1 AACCAA
3333912 GTCCAACCCA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 12 0.63
15 7 0.37
ACGTcount: A:0.49, C:0.31, G:0.06, T:0.14
Consensus pattern (15 bp):
AACCAAACCCAATTG
Found at i:3333970 original size:20 final size:17
Alignment explanation
Indices: 3333933--3333978 Score: 65
Period size: 20 Copynumber: 2.5 Consensus size: 17
3333923 TCTAAGTCAA
3333933 ACCGTTGACCGGCTTTG
1 ACCGTTGACCGGCTTTG
3333950 ACCGTTGACCGTTGACTTTG
1 ACCGTTGACCG--G-CTTTG
3333970 ACCGTTGAC
1 ACCGTTGAC
3333979 TTTTTTTCGA
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
17 11 0.42
19 1 0.04
20 14 0.54
ACGTcount: A:0.15, C:0.28, G:0.26, T:0.30
Consensus pattern (17 bp):
ACCGTTGACCGGCTTTG
Found at i:3333972 original size:13 final size:13
Alignment explanation
Indices: 3333954--3333981 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
3333944 GCTTTGACCG
3333954 TTGACCGTTGACT
1 TTGACCGTTGACT
3333967 TTGACCGTTGACT
1 TTGACCGTTGACT
3333980 TT
1 TT
3333982 TTTTCGAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.14, C:0.21, G:0.21, T:0.43
Consensus pattern (13 bp):
TTGACCGTTGACT
Found at i:3335028 original size:3 final size:3
Alignment explanation
Indices: 3335016--3335051 Score: 65
Period size: 3 Copynumber: 12.3 Consensus size: 3
3335006 TATTCTATTC
3335016 TAT T-T TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
3335052 TTGGGATATA
Statistics
Matches: 32, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
2 2 0.06
3 30 0.94
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TAT
Found at i:3337178 original size:21 final size:21
Alignment explanation
Indices: 3337148--3337187 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
3337138 TGTTCCAATC
*
3337148 TTTTGTTCTCTCTT-TGTTTTA
1 TTTTGCTCTC-CTTCTGTTTTA
3337169 TTTTGCTCTCCTTCTGTTT
1 TTTTGCTCTCCTTCTGTTT
3337188 GTTGAAATTC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 3 0.18
21 14 0.82
ACGTcount: A:0.03, C:0.20, G:0.10, T:0.68
Consensus pattern (21 bp):
TTTTGCTCTCCTTCTGTTTTA
Found at i:3371591 original size:2 final size:2
Alignment explanation
Indices: 3371586--3371613 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
3371576 TATATATATA
3371586 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
3371614 GAGTTGGAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.00, C:0.00, G:0.50, T:0.50
Consensus pattern (2 bp):
TG
Found at i:3379417 original size:29 final size:29
Alignment explanation
Indices: 3379359--3379422 Score: 67
Period size: 29 Copynumber: 2.2 Consensus size: 29
3379349 TCAAATTCAA
* *
3379359 ACTTTAGTACTTAAAAAATATTTTTTTTC
1 ACTTTAGTAATTAAAAAATATTTTTGTTC
* *
3379388 ACTTTGGTAATTAAAGAAT-TTTTTAGTTC
1 ACTTTAGTAATTAAAAAATATTTTT-GTTC
*
3379417 ATTTTA
1 ACTTTA
3379423 ATCTCTAACC
Statistics
Matches: 28, Mismatches: 6, Indels: 2
0.78 0.17 0.06
Matches are distributed among these distances:
28 5 0.18
29 23 0.82
ACGTcount: A:0.33, C:0.08, G:0.08, T:0.52
Consensus pattern (29 bp):
ACTTTAGTAATTAAAAAATATTTTTGTTC
Found at i:3379572 original size:10 final size:11
Alignment explanation
Indices: 3379544--3379570 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
3379534 TTGAAAACAT
3379544 AAAAAATTATC
1 AAAAAATTATC
3379555 AAAAAATTATC
1 AAAAAATTATC
3379566 AAAAA
1 AAAAA
3379571 TTTTTAAATT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.70, C:0.07, G:0.00, T:0.22
Consensus pattern (11 bp):
AAAAAATTATC
Found at i:3382080 original size:33 final size:32
Alignment explanation
Indices: 3382027--3382100 Score: 82
Period size: 33 Copynumber: 2.3 Consensus size: 32
3382017 GGTCCGTCCT
*
3382027 TATTTTT-TTTTAACTTTTTAAAAAATACTTATA
1 TATTTTTATTTTAACTATTTAAAAAATA--TATA
* *
3382060 TATTTTTATTTTAA-TATTTAATAATTATATA
1 TATTTTTATTTTAACTATTTAAAAAATATATA
3382091 T-TTTTTATTT
1 TATTTTTATTT
3382101 ATTGATTTTT
Statistics
Matches: 37, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
30 9 0.24
31 5 0.14
33 17 0.46
34 6 0.16
ACGTcount: A:0.34, C:0.03, G:0.00, T:0.64
Consensus pattern (32 bp):
TATTTTTATTTTAACTATTTAAAAAATATATA
Done.