Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: CP032254.1 Gossypioides kirkii chromosome KI_12
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: 43711324
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 1700 characters in sequence are not A, C, G, or T
File 33 of 135
Found at i:12849384 original size:59 final size:59
Alignment explanation
Indices: 12849321--12849515 Score: 284
Period size: 59 Copynumber: 3.3 Consensus size: 59
12849311 TCAAAATTCC
* * * *
12849321 AAAAATTACCATTTTTCCCTCGAATATCCAAAAATTTCGTTTTTGATCCCGATTTTTCT
1 AAAAATTACCATTTTACCCCCGAATGTCCAAAAATTTTGTTTTTGATCCCGATTTTTCT
* *
12849380 AAAAATTACCATTTTACCCCCGAATGTCTAAAAATTTTATTTTTGATCCCGATTTTTCT
1 AAAAATTACCATTTTACCCCCGAATGTCCAAAAATTTTGTTTTTGATCCCGATTTTTCT
* **
12849439 AAAAATTACCATTTTACCCCCGAATGTCC-AAAATTTTGTTTTTTTATCCTAATTTTTCT
1 AAAAATTACCATTTTACCCCCGAATGTCCAAAAATTTTG-TTTTTGATCCCGATTTTTCT
*
12849498 AAAAATTACCGTTTTACC
1 AAAAATTACCATTTTACC
12849516 TTCAGATTTC
Statistics
Matches: 123, Mismatches: 12, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
58 8 0.07
59 115 0.93
ACGTcount: A:0.30, C:0.21, G:0.06, T:0.43
Consensus pattern (59 bp):
AAAAATTACCATTTTACCCCCGAATGTCCAAAAATTTTGTTTTTGATCCCGATTTTTCT
Found at i:12849386 original size:30 final size:30
Alignment explanation
Indices: 12849350--12849445 Score: 99
Period size: 30 Copynumber: 3.2 Consensus size: 30
12849340 TCGAATATCC
*
12849350 AAAAATTTCGTTTTTGATCCCGATTTTTCT
1 AAAAATTTCATTTTTGATCCCGATTTTTCT
* * * *
12849380 AAAAATTACCA-TTTT-ACCCCCGA-ATGTCT
1 AAAAATT-TCATTTTTGA-TCCCGATTTTTCT
*
12849409 AAAAATTTTATTTTTGATCCCGATTTTTCT
1 AAAAATTTCATTTTTGATCCCGATTTTTCT
12849439 AAAAATT
1 AAAAATT
12849446 ACCATTTTAC
Statistics
Matches: 51, Mismatches: 10, Indels: 10
0.72 0.14 0.14
Matches are distributed among these distances:
28 1 0.02
29 21 0.41
30 28 0.55
31 1 0.02
ACGTcount: A:0.31, C:0.18, G:0.07, T:0.44
Consensus pattern (30 bp):
AAAAATTTCATTTTTGATCCCGATTTTTCT
Found at i:12849461 original size:30 final size:30
Alignment explanation
Indices: 12849368--12849461 Score: 104
Period size: 30 Copynumber: 3.2 Consensus size: 30
12849358 CGTTTTTGAT
12849368 CCCGATTTTTCTAAAAATTACCATTTTACC
1 CCCGATTTTTCTAAAAATTACCATTTTACC
* * ** *
12849398 CCCGA-ATGTCTAAAAATT-TTATTTTTGA-T
1 CCCGATTTTTCTAAAAATTACCA-TTTT-ACC
12849427 CCCGATTTTTCTAAAAATTACCATTTTACC
1 CCCGATTTTTCTAAAAATTACCATTTTACC
12849457 CCCGA
1 CCCGA
12849462 ATGTCCAAAA
Statistics
Matches: 49, Mismatches: 10, Indels: 10
0.71 0.14 0.14
Matches are distributed among these distances:
28 1 0.02
29 21 0.43
30 26 0.53
31 1 0.02
ACGTcount: A:0.30, C:0.24, G:0.06, T:0.39
Consensus pattern (30 bp):
CCCGATTTTTCTAAAAATTACCATTTTACC
Found at i:12849531 original size:59 final size:58
Alignment explanation
Indices: 12849321--12849574 Score: 258
Period size: 59 Copynumber: 4.3 Consensus size: 58
12849311 TCAAAATTCC
* * * * ** *
12849321 AAAAATTACCATTTTTCCCTCGAATATCCAAAAATTTCGTTTTTGATCCCGATTTTTCT
1 AAAAATTACCATTTTACCCCCGAATGT-CTAAAATTTTTTTTTTGATCCCAATTTTTCT
* *
12849380 AAAAATTACCATTTTACCCCCGAATGTCTAAAAATTTTATTTTTGATCCCGATTTTTCT
1 AAAAATTACCATTTTACCCCCGAATGTCT-AAAATTTTTTTTTTGATCCCAATTTTTCT
* * *
12849439 AAAAATTACCATTTTACCCCCGAATGTCCAAAATTTTGTTTTTTTATCCTAATTTTTCT
1 AAAAATTACCATTTTACCCCCGAATGTCTAAAATTTT-TTTTTTGATCCCAATTTTTCT
* ** * * * * * *
12849498 AAAAATTACCGTTTTACCTTC-AGATTTCTAAAATTTTATTTTTAACCCCAAATTTTCC
1 AAAAATTACCATTTTACCCCCGA-ATGTCTAAAATTTTTTTTTTGATCCCAATTTTTCT
* *
12849556 CAAATTTACCATTTTACCC
1 AAAAATTACCATTTTACCC
12849575 TTTAATAGTC
Statistics
Matches: 166, Mismatches: 26, Indels: 7
0.83 0.13 0.04
Matches are distributed among these distances:
58 40 0.24
59 126 0.76
ACGTcount: A:0.30, C:0.22, G:0.05, T:0.43
Consensus pattern (58 bp):
AAAAATTACCATTTTACCCCCGAATGTCTAAAATTTTTTTTTTGATCCCAATTTTTCT
Found at i:12849586 original size:118 final size:118
Alignment explanation
Indices: 12849317--12849591 Score: 324
Period size: 118 Copynumber: 2.3 Consensus size: 118
12849307 ACCCTCAAAA
* *
12849317 TTCCAAAAATTACCATTTTTCCCTCGAATA-TCCAAAAATTTCGTTTTTGATCCCGATTTTTCTA
1 TTCCAAAAATTACCATTTTACCCTCGAATAGTCC-AAAATTTCGTTTTTGATCCCAATTTTTCTA
* * * * *
12849381 AAAATTACCATTTTACCCCCGAATGTCTAAAAATTTTATTTTTGATCCCGATTT
65 AAAATTACCATTTTACCCCAGAATGTCTAAAAATTTTATTTTTAACCCCAAATT
* * * * *
12849435 TTCTAAAAATTACCATTTTACCCCCGAAT-GTCCAAAATTTTGTTTTTTTATCCTAATTTTTCTA
1 TTCCAAAAATTACCATTTTACCCTCGAATAGTCCAAAATTTCG-TTTTTGATCCCAATTTTTCTA
* * *
12849499 AAAATTACCGTTTTACCTTCAG-ATTTCT-AAAATTTTATTTTTAACCCCAAATT
65 AAAATTACCATTTTACC-CCAGAATGTCTAAAAATTTTATTTTTAACCCCAAATT
* * **
12849552 TTCCCAAATTTACCATTTTACCCTTTAATAGTCCAAAATT
1 TTCCAAAAATTACCATTTTACCCTCGAATAGTCCAAAATT
12849592 ACCATTTTGC
Statistics
Matches: 132, Mismatches: 21, Indels: 8
0.82 0.13 0.05
Matches are distributed among these distances:
117 52 0.39
118 78 0.59
119 2 0.02
ACGTcount: A:0.31, C:0.21, G:0.05, T:0.43
Consensus pattern (118 bp):
TTCCAAAAATTACCATTTTACCCTCGAATAGTCCAAAATTTCGTTTTTGATCCCAATTTTTCTAA
AAATTACCATTTTACCCCAGAATGTCTAAAAATTTTATTTTTAACCCCAAATT
Found at i:12850225 original size:17 final size:17
Alignment explanation
Indices: 12850200--12850240 Score: 64
Period size: 17 Copynumber: 2.4 Consensus size: 17
12850190 CCAACAAAGT
12850200 TTAAATTTATTTTAAAA
1 TTAAATTTATTTTAAAA
* *
12850217 TTAAGTTTATTTTAAAT
1 TTAAATTTATTTTAAAA
12850234 TTAAATT
1 TTAAATT
12850241 GAAAATTTAA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.41, C:0.00, G:0.02, T:0.56
Consensus pattern (17 bp):
TTAAATTTATTTTAAAA
Found at i:12850236 original size:6 final size:6
Alignment explanation
Indices: 12850199--12850274 Score: 52
Period size: 6 Copynumber: 13.0 Consensus size: 6
12850189 CCCAACAAAG
* * * * *
12850199 TTTAAA TTT-AT TTTAAA ATTAAG TTT-AT TTTAAA TTTAAA TTGAAAA
1 TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TT-TAAA
*
12850246 TTTAAA TTT--A TTATAAA TATAAA TTTAAA
1 TTTAAA TTTAAA TT-TAAA TTTAAA TTTAAA
12850275 ATACATTTAA
Statistics
Matches: 53, Mismatches: 11, Indels: 12
0.70 0.14 0.16
Matches are distributed among these distances:
4 3 0.06
5 9 0.17
6 34 0.64
7 7 0.13
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (6 bp):
TTTAAA
Found at i:12850263 original size:30 final size:30
Alignment explanation
Indices: 12850213--12850276 Score: 85
Period size: 30 Copynumber: 2.2 Consensus size: 30
12850203 AATTTATTTT
* * *
12850213 AAAA-TTAAGTTTATTTTAAATTTAAATTG
1 AAAATTTAAATTTATTATAAATATAAATTG
*
12850242 AAAATTTAAATTTATTATAAATATAAATTT
1 AAAATTTAAATTTATTATAAATATAAATTG
12850272 AAAAT
1 AAAAT
12850277 ACATTTAATA
Statistics
Matches: 30, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
29 4 0.13
30 26 0.87
ACGTcount: A:0.52, C:0.00, G:0.03, T:0.45
Consensus pattern (30 bp):
AAAATTTAAATTTATTATAAATATAAATTG
Found at i:12851251 original size:15 final size:15
Alignment explanation
Indices: 12851231--12851280 Score: 82
Period size: 15 Copynumber: 3.3 Consensus size: 15
12851221 GCTTTTGGAA
*
12851231 ATTTTCCAGATCTGG
1 ATTTTCTAGATCTGG
12851246 ATTTTCTAGATCTGG
1 ATTTTCTAGATCTGG
12851261 ATTTTCTAGATCTGG
1 ATTTTCTAGATCTGG
*
12851276 GTTTT
1 ATTTT
12851281 GATTTAAAAG
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 33 1.00
ACGTcount: A:0.18, C:0.14, G:0.20, T:0.48
Consensus pattern (15 bp):
ATTTTCTAGATCTGG
Found at i:12852067 original size:30 final size:31
Alignment explanation
Indices: 12852033--12852118 Score: 115
Period size: 30 Copynumber: 2.9 Consensus size: 31
12852023 AAAAATAGTG
* *
12852033 TTTTGATCCTTAAACTTTTCCAAAATTA-CA
1 TTTTGACCCCTAAACTTTTCCAAAATTACCA
*
12852063 TTTTGACCCCTAAATTTTTCCAAAATTACCA
1 TTTTGACCCCTAAACTTTTCCAAAATTACCA
*
12852094 TTTT-ACCCCTAAAC-TTTCTAAAATT
1 TTTTGACCCCTAAACTTTTCCAAAATT
12852119 TTATTTTTGA
Statistics
Matches: 50, Mismatches: 5, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
29 10 0.20
30 34 0.68
31 6 0.12
ACGTcount: A:0.33, C:0.23, G:0.02, T:0.42
Consensus pattern (31 bp):
TTTTGACCCCTAAACTTTTCCAAAATTACCA
Found at i:12853313 original size:304 final size:300
Alignment explanation
Indices: 12852750--12853328 Score: 754
Period size: 304 Copynumber: 1.9 Consensus size: 300
12852740 TTTTGAAAAA
* * *
12852750 ATAGTTCATGCATTCGAGGATCGTATTTTAAATTTTATTCGAACTTTCAAAGTTTACAAACAAGA
1 ATAGCTCATGCATTCGAGGATCGTATTTTAAACTTTATTCAAACTTTCAAAGTTTACAAACAAGA
* * *
12852815 CCCAAAAGTAATCAATACGATGCCAATTTTGAGCGTATGAGGGTGTTAATCCTTCTTCATGCGTA
66 CCCAAAAGTAATCAATACGATGCCAATTTTGAGCGTATGAGGGTGCTAATCCTTCCTCATGCGCA
* ** **
12852880 ACTGACTCCCGAACCTGTTTTTTCTGGATTTCGTAGACCAACATTTAAACGTATTTTAAACGTTT
131 ACCGACTCCCGAACCTGCATTTTCTGGATTTCAAAGACCAACATTTAAACGTATTTTAAACGTTT
* * * * * * **
12852945 TGTGATGATCCAATCATACCCAAATAAAAGATTGGTGACGACTTCTATTTTTCCAATTTTTAAAA
196 TGTGATGATCCAATCACACCCAAATAAAAAATTGGTGACGACTCCCATCTTACCAAAATTTAAAA
12853010 T-ATTTTTTTCAAAACCCCGTTTTCGAGGTGGTTTCGACAC
261 TGA-TTTTTTCAAAACCCCGTTTTCGAGGTGGTTTCGACAC
* * * *
12853050 ATAGCTCATGCATTTGAGGATCGTATTTTAAACTTTATT-AAAGCTTTTAAGGTTTACAAATTAA
1 ATAGCTCATGCATTCGAGGATCGTATTTTAAACTTTATTCAAA-CTTTCAAAGTTTACAAA-CAA
* * * * *
12853114 GATCCGAAAA-TAATCAATTCGGTGCCAATTTTGGGCGTATGAGGGTGCTAATCCTTCCTCATGT
64 GA-CCCAAAAGTAATCAATACGATGCCAATTTTGAGCGTATGAGGGTGCTAATCCTTCCTCATGC
*
12853178 GCAACCGACTTCCGAA-CT-CATTTTCTGGATTTCAAAGACCAACACTTTTCCAAAACGTATTTT
128 GCAACCGACTCCCGAACCTGCATTTTCTGGATTTCAAAGACCAACA--TTT---AAACGTATTTT
* * *
12853241 AAACGTTTTGTGGTGATTCAATCACACCCAAATAAAAAATTGGTGGCGACTCCCATCTTACCAAA
188 AAACGTTTTGTGATGATCCAATCACACCCAAATAAAAAATTGGTGACGACTCCCATCTTACCAAA
12853306 ATTTAAAATGATTTTTTCAAAAC
253 ATTTAAAATGATTTTTTCAAAAC
12853329 TCGTCGTTTT
Statistics
Matches: 238, Mismatches: 32, Indels: 14
0.84 0.11 0.05
Matches are distributed among these distances:
299 24 0.10
300 53 0.22
301 68 0.29
302 6 0.03
304 86 0.36
305 1 0.00
ACGTcount: A:0.31, C:0.19, G:0.15, T:0.35
Consensus pattern (300 bp):
ATAGCTCATGCATTCGAGGATCGTATTTTAAACTTTATTCAAACTTTCAAAGTTTACAAACAAGA
CCCAAAAGTAATCAATACGATGCCAATTTTGAGCGTATGAGGGTGCTAATCCTTCCTCATGCGCA
ACCGACTCCCGAACCTGCATTTTCTGGATTTCAAAGACCAACATTTAAACGTATTTTAAACGTTT
TGTGATGATCCAATCACACCCAAATAAAAAATTGGTGACGACTCCCATCTTACCAAAATTTAAAA
TGATTTTTTCAAAACCCCGTTTTCGAGGTGGTTTCGACAC
Found at i:12854314 original size:19 final size:18
Alignment explanation
Indices: 12854290--12854325 Score: 63
Period size: 19 Copynumber: 1.9 Consensus size: 18
12854280 CAGTAAATGA
12854290 TTTTAAAATATTAAATTTT
1 TTTTAAAATA-TAAATTTT
12854309 TTTTAAAATATAAATTT
1 TTTTAAAATATAAATTT
12854326 CTTAAATTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
18 7 0.41
19 10 0.59
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (18 bp):
TTTTAAAATATAAATTTT
Found at i:12854340 original size:30 final size:29
Alignment explanation
Indices: 12854293--12854396 Score: 119
Period size: 28 Copynumber: 3.7 Consensus size: 29
12854283 TAAATGATTT
12854293 TAAAA-TATTAAA-T-TTTTTTTAAAATA
1 TAAAATTATTAAATTATTTTTTTAAAATA
* * *
12854319 TAAATTTCTTAAATTA-TTTTTTAAAATG
1 TAAAATTATTAAATTATTTTTTTAAAATA
12854347 TAAAATTATTAAAATTATTTTTTT-AAATAA
1 TAAAATTATT-AAATTATTTTTTTAAAAT-A
*
12854377 TAAAATTATTAAATAATTTT
1 TAAAATTATTAAATTATTTT
12854397 AATTTTCAAT
Statistics
Matches: 65, Mismatches: 7, Indels: 9
0.80 0.09 0.11
Matches are distributed among these distances:
26 4 0.06
27 6 0.09
28 20 0.31
29 19 0.29
30 16 0.25
ACGTcount: A:0.47, C:0.01, G:0.01, T:0.51
Consensus pattern (29 bp):
TAAAATTATTAAATTATTTTTTTAAAATA
Found at i:12854350 original size:28 final size:28
Alignment explanation
Indices: 12854293--12854396 Score: 131
Period size: 29 Copynumber: 3.7 Consensus size: 28
12854283 TAAATGATTT
12854293 TAAAA-TATTAAATT-TTTTTTAAAATA
1 TAAAATTATTAAATTATTTTTTAAAATA
* * *
12854319 TAAATTTCTTAAATTATTTTTTAAAATG
1 TAAAATTATTAAATTATTTTTTAAAATA
*
12854347 TAAAATTATTAAAATTATTTTTTTAAATAA
1 TAAAATTATT-AAATTATTTTTTAAAAT-A
*
12854377 TAAAATTATTAAATAATTTT
1 TAAAATTATTAAATTATTTT
12854397 AATTTTCAAT
Statistics
Matches: 66, Mismatches: 8, Indels: 5
0.84 0.10 0.06
Matches are distributed among these distances:
26 4 0.06
27 8 0.12
28 19 0.29
29 25 0.38
30 10 0.15
ACGTcount: A:0.47, C:0.01, G:0.01, T:0.51
Consensus pattern (28 bp):
TAAAATTATTAAATTATTTTTTAAAATA
Found at i:12855264 original size:32 final size:32
Alignment explanation
Indices: 12855228--12855296 Score: 122
Period size: 32 Copynumber: 2.2 Consensus size: 32
12855218 AAAATCTTCC
12855228 AAAACCCGAAAATC-CTCAAATTTTTGAAACCT
1 AAAACCCGAAAATCTCT-AAATTTTTGAAACCT
12855260 AAAACCCGAAAATCTCTAAATTTTTGAAACCT
1 AAAACCCGAAAATCTCTAAATTTTTGAAACCT
12855292 AAAAC
1 AAAAC
12855297 AAAATCCTCA
Statistics
Matches: 36, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
32 34 0.94
33 2 0.06
ACGTcount: A:0.46, C:0.23, G:0.06, T:0.25
Consensus pattern (32 bp):
AAAACCCGAAAATCTCTAAATTTTTGAAACCT
Found at i:12855405 original size:31 final size:31
Alignment explanation
Indices: 12855347--12855432 Score: 104
Period size: 32 Copynumber: 2.8 Consensus size: 31
12855337 GAATATCCCC
*
12855347 AAACCTAAATCCCAAAATCCCCAAAAATTTG
1 AAACCTAAAACCCAAAATCCCCAAAAATTTG
* * *
12855378 AAACTTAAAACCCAAAAATCCCCAAAATTTTA
1 AAACCTAAAACCC-AAAATCCCCAAAAATTTG
*
12855410 AAACCT-AAA-CTAAAATCCCCAAA
1 AAACCTAAAACCCAAAATCCCCAAA
12855433 TCCAAAAACC
Statistics
Matches: 48, Mismatches: 6, Indels: 4
0.83 0.10 0.07
Matches are distributed among these distances:
29 12 0.25
30 1 0.02
31 14 0.29
32 21 0.44
ACGTcount: A:0.52, C:0.28, G:0.01, T:0.19
Consensus pattern (31 bp):
AAACCTAAAACCCAAAATCCCCAAAAATTTG
Found at i:12865698 original size:3 final size:3
Alignment explanation
Indices: 12865690--12865722 Score: 66
Period size: 3 Copynumber: 11.0 Consensus size: 3
12865680 CAAACCGAAG
12865690 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
12865723 TGTTACTTTT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:12866191 original size:15 final size:15
Alignment explanation
Indices: 12866171--12866201 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
12866161 TTTGATTAAA
*
12866171 TCGAGTTGAATTGAG
1 TCGAGTCGAATTGAG
12866186 TCGAGTCGAATTGAG
1 TCGAGTCGAATTGAG
12866201 T
1 T
12866202 AAAAAAATTT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.26, C:0.10, G:0.32, T:0.32
Consensus pattern (15 bp):
TCGAGTCGAATTGAG
Found at i:12866699 original size:2 final size:2
Alignment explanation
Indices: 12866692--12866716 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
12866682 ATAAATTTAT
12866692 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
12866717 TGAATTTTTA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:12879120 original size:22 final size:23
Alignment explanation
Indices: 12879094--12879137 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 23
12879084 ATTTATATTT
12879094 TAATCATTCAATT-TTAAAAAAA
1 TAATCATTCAATTATTAAAAAAA
* *
12879116 TAATCATTGAATTATTCAAAAA
1 TAATCATTCAATTATTAAAAAA
12879138 TATATATTTA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 12 0.63
23 7 0.37
ACGTcount: A:0.52, C:0.09, G:0.02, T:0.36
Consensus pattern (23 bp):
TAATCATTCAATTATTAAAAAAA
Found at i:12880819 original size:78 final size:78
Alignment explanation
Indices: 12880690--12880845 Score: 276
Period size: 78 Copynumber: 2.0 Consensus size: 78
12880680 GTGCAAAACC
* *
12880690 CTGCTGATTGTAAGACACATTCCCTTGCTGGTTCGTAGTGGTATTTCCTTGTCGATCATATCTTG
1 CTGCTGATTGTAAGACACATTCCATTGCTGGTTCGGAGTGGTATTTCCTTGTCGATCATATCTTG
12880755 GTTGGTCAGGGTT
66 GTTGGTCAGGGTT
* *
12880768 CTGCTGATTGTAAGGCACATTCCATTGCTGGTTTGGAGTGGTATTTCCTTGTCGATCATATCTTG
1 CTGCTGATTGTAAGACACATTCCATTGCTGGTTCGGAGTGGTATTTCCTTGTCGATCATATCTTG
12880833 GTTGGTCAGGGTT
66 GTTGGTCAGGGTT
12880846 TCTATTTTGT
Statistics
Matches: 74, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
78 74 1.00
ACGTcount: A:0.15, C:0.18, G:0.27, T:0.40
Consensus pattern (78 bp):
CTGCTGATTGTAAGACACATTCCATTGCTGGTTCGGAGTGGTATTTCCTTGTCGATCATATCTTG
GTTGGTCAGGGTT
Found at i:12881467 original size:2 final size:2
Alignment explanation
Indices: 12881462--12881501 Score: 80
Period size: 2 Copynumber: 20.0 Consensus size: 2
12881452 AGAAGCTCAT
12881462 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
12881502 AGAAGGGGGA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
GA
Found at i:12882260 original size:86 final size:87
Alignment explanation
Indices: 12882159--12882321 Score: 206
Period size: 87 Copynumber: 1.9 Consensus size: 87
12882149 ATTCTTAAAC
* * **
12882159 TTTAAAAAAAACAATTAAA-CATCT-TAATTTTTTTCACTCCATT-GGATATTTAAATTTTCAAA
1 TTTAAAAAAAACAATTAAACCAT-TGTAATTTTTTTCACTCAATTAAG-TATTTAAATCATCAAA
*
12882221 ATGTATTAAAAAAATTTAAACTTT
64 ATGCATTAAAAAAATTTAAACTTT
* ** *
12882245 TTTAAAATAAACAATTAAACCATTGTTTTTTTTTTCACTCAATTAAGTATTTGAATCATCAAAAT
1 TTTAAAAAAAACAATTAAACCATTGTAATTTTTTTCACTCAATTAAGTATTTAAATCATCAAAAT
12882310 GCATTAAAAAAA
66 GCATTAAAAAAA
12882322 ATTTTGACCG
Statistics
Matches: 65, Mismatches: 9, Indels: 5
0.82 0.11 0.06
Matches are distributed among these distances:
86 19 0.29
87 45 0.69
88 1 0.02
ACGTcount: A:0.44, C:0.11, G:0.04, T:0.40
Consensus pattern (87 bp):
TTTAAAAAAAACAATTAAACCATTGTAATTTTTTTCACTCAATTAAGTATTTAAATCATCAAAAT
GCATTAAAAAAATTTAAACTTT
Found at i:12882350 original size:20 final size:20
Alignment explanation
Indices: 12882325--12882362 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
12882315 AAAAAAAATT
* *
12882325 TTGACCGTTAATTTTAACAG
1 TTGACCATTAATATTAACAG
12882345 TTGACCATTAATATTAAC
1 TTGACCATTAATATTAAC
12882363 CGCCTTTAAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.34, C:0.16, G:0.11, T:0.39
Consensus pattern (20 bp):
TTGACCATTAATATTAACAG
Found at i:12882565 original size:21 final size:21
Alignment explanation
Indices: 12882541--12882616 Score: 83
Period size: 21 Copynumber: 3.8 Consensus size: 21
12882531 TAGAATTTTA
12882541 TAAAAAATTATAAAAAATTCG
1 TAAAAAATTATAAAAAATTCG
12882562 TAAAAAATTATAAAAAA---G
1 TAAAAAATTATAAAAAATTCG
12882580 TAAATAAA-TAT--AAAATTCG
1 TAAA-AAATTATAAAAAATTCG
12882599 TAAAAAAAATTATAAAAA
1 T--AAAAAATTATAAAAA
12882617 TGATTGTACC
Statistics
Matches: 46, Mismatches: 0, Indels: 16
0.74 0.00 0.26
Matches are distributed among these distances:
16 4 0.09
18 8 0.17
19 5 0.11
20 3 0.07
21 23 0.50
23 3 0.07
ACGTcount: A:0.67, C:0.03, G:0.04, T:0.26
Consensus pattern (21 bp):
TAAAAAATTATAAAAAATTCG
Found at i:12882578 original size:10 final size:10
Alignment explanation
Indices: 12882502--12882616 Score: 67
Period size: 10 Copynumber: 11.4 Consensus size: 10
12882492 GGGAAAAATT
*
12882502 AAAAATCATCA
1 AAAAATTAT-A
12882513 AAAAATT-TA
1 AAAAATTATA
*
12882522 TAAAAATTGTA
1 -AAAAATTATA
* **
12882533 GAATTTTATA
1 AAAAATTATA
12882543 AAAAATTATA
1 AAAAATTATA
*
12882553 AAAAATTCGTA
1 AAAAATT-ATA
12882564 AAAAATTATA
1 AAAAATTATA
*
12882574 AAAAAGTA-A
1 AAAAATTATA
*
12882583 ATAAA-TAT-
1 AAAAATTATA
* *
12882591 AAAATTCGTAAA
1 AAAAAT--TATA
12882603 AAAAATTATA
1 AAAAATTATA
12882613 AAAA
1 AAAA
12882617 TGATTGTACC
Statistics
Matches: 79, Mismatches: 17, Indels: 17
0.70 0.15 0.15
Matches are distributed among these distances:
8 5 0.06
9 6 0.08
10 44 0.56
11 19 0.24
12 5 0.06
ACGTcount: A:0.63, C:0.03, G:0.04, T:0.29
Consensus pattern (10 bp):
AAAAATTATA
Found at i:12882592 original size:39 final size:38
Alignment explanation
Indices: 12882541--12882616 Score: 102
Period size: 39 Copynumber: 1.9 Consensus size: 38
12882531 TAGAATTTTA
12882541 TAAAAAATTATAAAAAATTCGT-AAAAAATTATAAAAAAG
1 TAAAAAATTAT--AAAATTCGTAAAAAAATTATAAAAAAG
12882580 TAAATAAA-TATAAAATTCGTAAAAAAAATTATAAAAA
1 TAAA-AAATTATAAAATTCGT-AAAAAAATTATAAAAA
12882617 TGATTGTACC
Statistics
Matches: 34, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
37 9 0.26
39 22 0.65
40 3 0.09
ACGTcount: A:0.67, C:0.03, G:0.04, T:0.26
Consensus pattern (38 bp):
TAAAAAATTATAAAATTCGTAAAAAAATTATAAAAAAG
Found at i:12884329 original size:22 final size:21
Alignment explanation
Indices: 12884297--12884337 Score: 64
Period size: 22 Copynumber: 1.9 Consensus size: 21
12884287 ATTTATATTT
*
12884297 TTTTTATTTAAAGCTTTTTATC
1 TTTTTAATTAAAG-TTTTTATC
12884319 TTTTTAATTAAAGTTTTTA
1 TTTTTAATTAAAGTTTTTA
12884338 ATATATCAAC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 6 0.33
22 12 0.67
ACGTcount: A:0.27, C:0.05, G:0.05, T:0.63
Consensus pattern (21 bp):
TTTTTAATTAAAGTTTTTATC
Found at i:12885029 original size:19 final size:19
Alignment explanation
Indices: 12884981--12885031 Score: 61
Period size: 17 Copynumber: 2.8 Consensus size: 19
12884971 AATAAAAGAG
*
12884981 TTATTAATTAAAAATATTT
1 TTATTAATTAAAAATATAT
* *
12885000 TTTTTGA--AAAAATATAT
1 TTATTAATTAAAAATATAT
12885017 TTATTAATTAAAAAT
1 TTATTAATTAAAAAT
12885032 TAAAAAAAAG
Statistics
Matches: 25, Mismatches: 5, Indels: 4
0.74 0.15 0.12
Matches are distributed among these distances:
17 14 0.56
19 11 0.44
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (19 bp):
TTATTAATTAAAAATATAT
Found at i:12892950 original size:29 final size:30
Alignment explanation
Indices: 12892895--12892958 Score: 78
Period size: 29 Copynumber: 2.2 Consensus size: 30
12892885 GTTTAATGTG
12892895 TAATTGTATACATGAACTTTAATTTTG-TA
1 TAATTGTATACATGAACTTTAATTTTGATA
* * *
12892924 TAATTTTATACATGAAATTTTGA-TTTGATA
1 TAATTGTATACATG-AACTTTAATTTTGATA
12892954 TAATT
1 TAATT
12892959 CTTGTAAATT
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
29 17 0.57
30 13 0.43
ACGTcount: A:0.36, C:0.05, G:0.09, T:0.50
Consensus pattern (30 bp):
TAATTGTATACATGAACTTTAATTTTGATA
Found at i:12896298 original size:30 final size:31
Alignment explanation
Indices: 12896257--12896342 Score: 85
Period size: 30 Copynumber: 2.9 Consensus size: 31
12896247 TGGACTTCCG
12896257 AGGGT-AAAAATGTAATTTTTGGTGAAAG-T
1 AGGGTAAAAAATGTAATTTTTGGTGAAAGTT
* *
12896286 AGGGTAAAAAATGGAA-TCTT-G-GAAAGTTT
1 AGGGTAAAAAATGTAATTTTTGGTGAAAG-TT
*
12896315 ACGGGTAAAACA-GTAATTTTTGGTGAAA
1 A-GGGTAAAAAATGTAATTTTTGGTGAAA
12896343 TCGGGGTTAA
Statistics
Matches: 45, Mismatches: 5, Indels: 11
0.74 0.08 0.18
Matches are distributed among these distances:
27 5 0.11
28 1 0.02
29 13 0.29
30 21 0.47
31 1 0.02
32 4 0.09
ACGTcount: A:0.40, C:0.03, G:0.27, T:0.30
Consensus pattern (31 bp):
AGGGTAAAAAATGTAATTTTTGGTGAAAGTT
Found at i:12896321 original size:59 final size:56
Alignment explanation
Indices: 12896257--12896560 Score: 286
Period size: 59 Copynumber: 5.2 Consensus size: 56
12896247 TGGACTTCCG
* *
12896257 AGGGTAAAAAT-GTAATTTTTGGTGAAAGTAGGGTAAAAAATGGAATCTTGGAAAGTTT
1 AGGGT-AAAATGGTAATTTTTGGTGAAA-TGGGGT-AAAAATGGAATTTTGGAAAGTTT
** * ** *
12896315 ACGGGTAAAACAGTAATTTTTGGTGAAATCGGGGTTAAAATTTAGATTTTGGAAAGTTCG
1 A-GGGTAAAATGGTAATTTTTGGTGAAAT-GGGGTAAAAATGGA-ATTTTGGAAAGTT-T
* *
12896375 AGGGGTAAAATGGTGATTTTTGGTGAAATCGGGGTTAAAATGGAATTTTGGAAAGTTT
1 A-GGGTAAAATGGTAATTTTTGGTGAAAT-GGGGTAAAAATGGAATTTTGGAAAGTTT
* * * * *
12896433 GAGGGTAAAATGGTGATTTTTGGTAAAATCGAGGTTAAAAATGAAATTTTGGAAAGTTCG
1 -AGGGTAAAATGGTAATTTTTGGTGAAAT-G-GGGTAAAAATGGAATTTTGGAAAGTT-T
* * *
12896493 AGGGTAAAATGGTAGTTTTTGGTAAAACCGGGGTTAAAAATGGAATTTTGGAAAGTTT
1 AGGGTAAAATGGTAATTTTTGGTGAAA-TGGGG-TAAAAATGGAATTTTGGAAAGTTT
*
12896551 GGGGGTAAAA
1 -AGGGTAAAA
12896561 ATATAATTTA
Statistics
Matches: 209, Mismatches: 26, Indels: 21
0.82 0.10 0.08
Matches are distributed among these distances:
58 42 0.20
59 129 0.62
60 38 0.18
ACGTcount: A:0.35, C:0.03, G:0.30, T:0.32
Consensus pattern (56 bp):
AGGGTAAAATGGTAATTTTTGGTGAAATGGGGTAAAAATGGAATTTTGGAAAGTTT
Found at i:12896385 original size:118 final size:115
Alignment explanation
Indices: 12896255--12896560 Score: 371
Period size: 118 Copynumber: 2.6 Consensus size: 115
12896245 TTTGGACTTC
* *
12896255 CGAGGGTAAAAAT-GTAATTTTTGGTGAAAGTAGGGTAAAAAATGGAATCTTGGAAAGTTTACGG
1 CGAGGGT-AAAATGGTAATTTTTGGTGAAA-TGGGGT-AAAAATGGAATTTTGGAAAGTTTA-GG
* * * * *
12896319 GTAAAACAGTAATTTTTGGTGAAATCGGGGTTAAAATTTAGATTTTGGAAAGTT
62 GTAAAACAGTAATTTTTGGTAAAATCGAGGTTAAAAATGAAATTTTGGAAAGTT
* *
12896373 CGAGGGGTAAAATGGTGATTTTTGGTGAAATCGGGGTTAAAATGGAATTTTGGAAAGTTTGAGGG
1 CGA-GGGTAAAATGGTAATTTTTGGTGAAAT-GGGGTAAAAATGGAATTTTGGAAAGTTT-AGGG
** *
12896438 TAAAATGGTGATTTTTGGTAAAATCGAGGTTAAAAATGAAATTTTGGAAAGTT
63 TAAAACAGTAATTTTTGGTAAAATCGAGGTTAAAAATGAAATTTTGGAAAGTT
* * * *
12896491 CGAGGGTAAAATGGTAGTTTTTGGTAAAACCGGGGTTAAAAATGGAATTTTGGAAAGTTTGGGGG
1 CGAGGGTAAAATGGTAATTTTTGGTGAAA-TGGGG-TAAAAATGGAATTTTGGAAAGTTT-AGGG
12896556 TAAAA
63 TAAAA
12896561 ATATAATTTA
Statistics
Matches: 164, Mismatches: 18, Indels: 12
0.85 0.09 0.06
Matches are distributed among these distances:
117 27 0.16
118 113 0.69
119 24 0.15
ACGTcount: A:0.35, C:0.04, G:0.30, T:0.32
Consensus pattern (115 bp):
CGAGGGTAAAATGGTAATTTTTGGTGAAATGGGGTAAAAATGGAATTTTGGAAAGTTTAGGGTAA
AACAGTAATTTTTGGTAAAATCGAGGTTAAAAATGAAATTTTGGAAAGTT
Found at i:12896554 original size:29 final size:28
Alignment explanation
Indices: 12896343--12896560 Score: 124
Period size: 30 Copynumber: 7.4 Consensus size: 28
12896333 TTTGGTGAAA
**
12896343 TCGGGGTTAAAATTTAGATTTTGGAAAGT
1 TCGGGGTTAAAATGGA-ATTTTGGAAAGT
* *
12896372 TCGAGGGGTAAAATGGTGATTTTTGGTGAAA--
1 TCG-GGGTTAAAAT-G-GAATTTT-G-GAAAGT
12896403 TCGGGGTTAAAATGGAATTTTGGAAAGT
1 TCGGGGTTAAAATGGAATTTTGGAAAGT
* * *
12896431 TTGAGGG-TAAAATGGTGATTTTTGGTAAA-A
1 TCG-GGGTTAAAAT-G-GAATTTTGG-AAAGT
* *
12896461 TCGAGGTTAAAAATGAAATTTTGGAAAGT
1 TCGGGGTT-AAAATGGAATTTTGGAAAGT
* *
12896490 TCGAGGG-TAAAATGGTAGTTTTTGGTAAA-A
1 TCG-GGGTTAAAATGG-A-ATTTTGG-AAAGT
*
12896520 CCGGGGTTAAAAATGGAATTTTGGAAAGT
1 TCGGGGTT-AAAATGGAATTTTGGAAAGT
* *
12896549 TTGGGGGTAAAA
1 TCGGGGTTAAAA
12896561 ATATAATTTA
Statistics
Matches: 144, Mismatches: 24, Indels: 43
0.68 0.11 0.20
Matches are distributed among these distances:
26 4 0.03
27 1 0.01
28 30 0.21
29 36 0.25
30 42 0.29
31 25 0.17
32 2 0.01
33 4 0.03
ACGTcount: A:0.33, C:0.03, G:0.31, T:0.33
Consensus pattern (28 bp):
TCGGGGTTAAAATGGAATTTTGGAAAGT
Found at i:12896561 original size:29 final size:29
Alignment explanation
Indices: 12896255--12896562 Score: 128
Period size: 29 Copynumber: 10.4 Consensus size: 29
12896245 TTTGGACTTC
*
12896255 CGAGGGTAAAAATGTAATTTTTGGTGAAAG-T
1 CGAGGGTAAAAATGGAA-TTTT-G-GAAAGTT
*
12896286 --AGGGTAAAAAATGGAATCTTGGAAAGTT
1 CGAGGGT-AAAAATGGAATTTTGGAAAGTT
* *
12896314 -TACGGGTAAAACA-GTAATTTTTGGTGAAA--T
1 CGA-GGGTAAAA-ATGGAA-TTTT-G-GAAAGTT
* **
12896344 CG-GGGTTAAAATTTAGATTTTGGAAAGTT
1 CGAGGGTAAAAATGGA-ATTTTGGAAAGTT
*
12896373 CGAGGGGT-AAAATGGTGATTTTTGGTGAAA--T
1 CGA-GGGTAAAAAT-G-GAATTTT-G-GAAAGTT
*
12896404 CG-GGGTTAAAATGGAATTTTGGAAAGTT
1 CGAGGGTAAAAATGGAATTTTGGAAAGTT
* * *
12896432 TGAGGGT-AAAATGGTGATTTTTGGTAAA-AT
1 CGAGGGTAAAAAT-G-GAATTTTGG-AAAGTT
* *
12896462 CGAGGTTAAAAATGAAATTTTGGAAAGTT
1 CGAGGGTAAAAATGGAATTTTGGAAAGTT
* **
12896491 CGAGGGT-AAAATGGTAGTTTTTGGTAAA-AC
1 CGAGGGTAAAAATGG-A-ATTTTGG-AAAGTT
12896521 CG-GGGTTAAAAATGGAATTTTGGAAAGTT
1 CGAGGG-TAAAAATGGAATTTTGGAAAGTT
* *
12896550 TGGGGGTAAAAAT
1 CGAGGGTAAAAAT
12896563 ATAATTTATG
Statistics
Matches: 214, Mismatches: 28, Indels: 72
0.68 0.09 0.23
Matches are distributed among these distances:
26 4 0.02
27 10 0.05
28 29 0.14
29 74 0.35
30 57 0.27
31 30 0.14
32 6 0.03
33 4 0.02
ACGTcount: A:0.35, C:0.04, G:0.30, T:0.32
Consensus pattern (29 bp):
CGAGGGTAAAAATGGAATTTTGGAAAGTT
Found at i:12897627 original size:23 final size:21
Alignment explanation
Indices: 12897581--12897628 Score: 53
Period size: 23 Copynumber: 2.2 Consensus size: 21
12897571 TTCTTTTTTA
*
12897581 ATTA-TTATTAAATTAATAAT
1 ATTATTTATTAAATTAATAAC
*
12897601 ATTATTTATTAATATTTAATACC
1 ATTATTTATTAA-A-TTAATAAC
12897624 ATTAT
1 ATTAT
12897629 CAGTTTTTAT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
20 4 0.17
21 7 0.30
22 1 0.04
23 11 0.48
ACGTcount: A:0.44, C:0.04, G:0.00, T:0.52
Consensus pattern (21 bp):
ATTATTTATTAAATTAATAAC
Found at i:12898489 original size:17 final size:17
Alignment explanation
Indices: 12898469--12898513 Score: 65
Period size: 16 Copynumber: 2.7 Consensus size: 17
12898459 TTTCAAATGT
12898469 ATTTAAATTTAAAACAA
1 ATTTAAATTTAAAACAA
*
12898486 ATTTAAATTT-AAATAA
1 ATTTAAATTTAAAACAA
*
12898502 ATTTAAAATTAA
1 ATTTAAATTTAA
12898514 TTTCAAACTT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
16 14 0.56
17 11 0.44
ACGTcount: A:0.58, C:0.02, G:0.00, T:0.40
Consensus pattern (17 bp):
ATTTAAATTTAAAACAA
Found at i:12898510 original size:23 final size:24
Alignment explanation
Indices: 12898484--12898533 Score: 61
Period size: 23 Copynumber: 2.2 Consensus size: 24
12898474 AATTTAAAAC
12898484 AAATTTAAATTT-AAA-TAAATTTA
1 AAATTT-AATTTCAAACTAAATTTA
*
12898507 AAA-TTAATTTCAAACTTAATTTA
1 AAATTTAATTTCAAACTAAATTTA
12898530 AAAT
1 AAAT
12898534 CCAAGTTGGG
Statistics
Matches: 23, Mismatches: 1, Indels: 5
0.79 0.03 0.17
Matches are distributed among these distances:
21 5 0.22
22 5 0.22
23 13 0.57
ACGTcount: A:0.54, C:0.04, G:0.00, T:0.42
Consensus pattern (24 bp):
AAATTTAATTTCAAACTAAATTTA
Found at i:12898515 original size:27 final size:28
Alignment explanation
Indices: 12898472--12898525 Score: 74
Period size: 27 Copynumber: 2.0 Consensus size: 28
12898462 CAAATGTATT
*
12898472 TAAATTTAAAACAAATTT-AAATTTAAA
1 TAAATTTAAAACAAATTTCAAACTTAAA
**
12898499 TAAATTTAAAATTAATTTCAAACTTAA
1 TAAATTTAAAACAAATTTCAAACTTAA
12898526 TTTAAAATCC
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
27 16 0.70
28 7 0.30
ACGTcount: A:0.56, C:0.06, G:0.00, T:0.39
Consensus pattern (28 bp):
TAAATTTAAAACAAATTTCAAACTTAAA
Found at i:12898527 original size:12 final size:11
Alignment explanation
Indices: 12898491--12898533 Score: 52
Period size: 11 Copynumber: 3.9 Consensus size: 11
12898481 AACAAATTTA
*
12898491 AATTT-AAATA
1 AATTTAAAATT
12898501 AATTTAAAATT
1 AATTTAAAATT
*
12898512 AATTTCAAACTT
1 AATTT-AAAATT
12898524 AATTTAAAAT
1 AATTTAAAAT
12898534 CCAAGTTGGG
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
10 5 0.18
11 13 0.46
12 10 0.36
ACGTcount: A:0.53, C:0.05, G:0.00, T:0.42
Consensus pattern (11 bp):
AATTTAAAATT
Found at i:12899218 original size:200 final size:200
Alignment explanation
Indices: 12898917--12899515 Score: 1038
Period size: 200 Copynumber: 3.0 Consensus size: 200
12898907 AATCATCTAT
* *
12898917 TTTAATTCGCTTCTCCGGATCTCCTCAGGAAGACGAATTTGGCCCACTTCTCTGTGTCTCATCAG
1 TTTAATTCGCTTCTCTGGATCTCCTCAGGAAGACGAATTTGGTCCACTTCTCTGTGTCTCATCAG
* * * *
12898982 GAAGCTAACCTTTTTATTGCTTCGACCTGCTTCTCAGTGTCTCATCAGGAAGCCGGGTTTGAAGA
66 GAAGCTAACCATTTTATTGTTTCGACCTGCTTCTCAGTGTCTCATCAGGAAGCTGGGTTCGAAGA
*
12899047 TTTGCTCGCGTTGAGCATTGAGTTGGTATTCTTCTCTGTATCCCATCAGGAAGATGACCGTCTCG
131 TTTGCTCGCATTGAGCATTGAGTTGGTATTCTTCTCTGTATCCCATCAGGAAGATGACCGTCTCG
12899112 CTTGC
196 CTTGC
* *
12899117 TTTAATTCGCTTCTTTGGATCTCCTCAGGAAGACGAATTTGGTCCACTTCTCTGTGTCTCATTAG
1 TTTAATTCGCTTCTCTGGATCTCCTCAGGAAGACGAATTTGGTCCACTTCTCTGTGTCTCATCAG
*
12899182 GAGGCTAACCATTTTATTGTTTCGACCTGCTTCTCAGTGTCTCATCAGGAAGCTGGGTTCGAAGA
66 GAAGCTAACCATTTTATTGTTTCGACCTGCTTCTCAGTGTCTCATCAGGAAGCTGGGTTCGAAGA
* * *
12899247 TTTGCTCGCATTGAGCGTTGAATTGGTATTCTTCTCTGTATCCCATCAGGAAGATGATCGTCTCG
131 TTTGCTCGCATTGAGCATTGAGTTGGTATTCTTCTCTGTATCCCATCAGGAAGATGACCGTCTCG
12899312 CTTGC
196 CTTGC
12899317 TTTAATTCGCTTCTCTGGATCTCCTCAGGAAGACGAATTTGGTCCACTTCTCTGTGTCTCATCAG
1 TTTAATTCGCTTCTCTGGATCTCCTCAGGAAGACGAATTTGGTCCACTTCTCTGTGTCTCATCAG
* *
12899382 GAAGCTAACCATTTTATTGTTTCGACCTACTTCTCAGTGTCTCATTAGGAAGCTGGGTTCGAAGA
66 GAAGCTAACCATTTTATTGTTTCGACCTGCTTCTCAGTGTCTCATCAGGAAGCTGGGTTCGAAGA
*
12899447 TTTGCTCGCATTGAGCATTGAGTTGGTATTCTTCTCTGTATCTCC-TCAGGAAGATGACCGCCTC
131 TTTGCTCGCATTGAGCATTGAGTTGGTATTCTTCTCTGTATC-CCATCAGGAAGATGACCGTCTC
12899511 GCTTG
195 GCTTG
12899516 TTCGTTGAAC
Statistics
Matches: 376, Mismatches: 22, Indels: 2
0.94 0.05 0.00
Matches are distributed among these distances:
200 374 0.99
201 2 0.01
ACGTcount: A:0.19, C:0.24, G:0.22, T:0.35
Consensus pattern (200 bp):
TTTAATTCGCTTCTCTGGATCTCCTCAGGAAGACGAATTTGGTCCACTTCTCTGTGTCTCATCAG
GAAGCTAACCATTTTATTGTTTCGACCTGCTTCTCAGTGTCTCATCAGGAAGCTGGGTTCGAAGA
TTTGCTCGCATTGAGCATTGAGTTGGTATTCTTCTCTGTATCCCATCAGGAAGATGACCGTCTCG
CTTGC
Found at i:12900524 original size:19 final size:19
Alignment explanation
Indices: 12900500--12900543 Score: 88
Period size: 19 Copynumber: 2.3 Consensus size: 19
12900490 TTCCACGGAA
12900500 ATCTTTATGTATAGGAAGT
1 ATCTTTATGTATAGGAAGT
12900519 ATCTTTATGTATAGGAAGT
1 ATCTTTATGTATAGGAAGT
12900538 ATCTTT
1 ATCTTT
12900544 TTCAAAACCA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 25 1.00
ACGTcount: A:0.30, C:0.07, G:0.18, T:0.45
Consensus pattern (19 bp):
ATCTTTATGTATAGGAAGT
Found at i:12911682 original size:59 final size:59
Alignment explanation
Indices: 12911619--12911871 Score: 296
Period size: 59 Copynumber: 4.3 Consensus size: 59
12911609 GGACTTTCGA
* * * *
12911619 GGGTAAAAATGTAATTTTTGGTGAAAGT-AGGGTAAAAAATGGAATCTTGGAAAGTTTAC
1 GGGTAAAAATGTAATTTTTGGTGAAA-TCAGGGTTAAAAATGGAATTTTGGAAAGTTCAG
** * * * * *
12911678 GGGTAAAACGGTAATTTTTGGTAAAATCAAGGTTAAAAATGGGATTTTAGAAAGTTCGG
1 GGGTAAAAATGTAATTTTTGGTGAAATCAGGGTTAAAAATGGAATTTTGGAAAGTTCAG
* *
12911737 GGGT-AAAATGGTAATTTTTGGTGAAATCGGGGTTAAAAATGAAATTTTGGAAAGTTCAG
1 GGGTAAAAAT-GTAATTTTTGGTGAAATCAGGGTTAAAAATGGAATTTTGGAAAGTTCAG
* ** *
12911796 GGGT-AAAATGGTGATTTTTGGTGAAATTGGGGTTAAAAATGGAATTTTGGAAAGTTTAG
1 GGGTAAAAAT-GTAATTTTTGGTGAAATCAGGGTTAAAAATGGAATTTTGGAAAGTTCAG
*
12911855 GGGTAAAAATATAATTT
1 GGGTAAAAATGTAATTT
12911872 ATGAACAGTT
Statistics
Matches: 165, Mismatches: 26, Indels: 6
0.84 0.13 0.03
Matches are distributed among these distances:
58 4 0.02
59 156 0.95
60 5 0.03
ACGTcount: A:0.37, C:0.03, G:0.28, T:0.32
Consensus pattern (59 bp):
GGGTAAAAATGTAATTTTTGGTGAAATCAGGGTTAAAAATGGAATTTTGGAAAGTTCAG
Found at i:12911744 original size:29 final size:29
Alignment explanation
Indices: 12911711--12911864 Score: 113
Period size: 29 Copynumber: 5.2 Consensus size: 29
12911701 AAATCAAGGT
* *
12911711 TAAAAATGGGATTTTAGAAAGTTCGGGGG
1 TAAAAATGGAATTTTGGAAAGTTCGGGGG
*
12911740 T-AAAATGGTAATTTTTGGTGAAA--TCGGGGT
1 TAAAAATGG-AA-TTTT-G-GAAAGTTCGGGGG
* *
12911770 TAAAAATGAAATTTTGGAAAGTTCAGGGG
1 TAAAAATGGAATTTTGGAAAGTTCGGGGG
* *
12911799 T-AAAATGGTGATTTTTGGTGAAA-TT-GGGGT
1 TAAAAAT-G-GAATTTT-G-GAAAGTTCGGGGG
**
12911829 TAAAAATGGAATTTTGGAAAGTTTAGGGG
1 TAAAAATGGAATTTTGGAAAGTTCGGGGG
12911858 TAAAAAT
1 TAAAAAT
12911865 ATAATTTATG
Statistics
Matches: 98, Mismatches: 13, Indels: 28
0.71 0.09 0.20
Matches are distributed among these distances:
27 8 0.08
28 16 0.16
29 29 0.30
30 23 0.23
31 14 0.14
32 8 0.08
ACGTcount: A:0.36, C:0.02, G:0.30, T:0.32
Consensus pattern (29 bp):
TAAAAATGGAATTTTGGAAAGTTCGGGGG
Found at i:12911774 original size:30 final size:30
Alignment explanation
Indices: 12911690--12911843 Score: 101
Period size: 30 Copynumber: 5.2 Consensus size: 30
12911680 GTAAAACGGT
* **
12911690 AATTTTTGGTAAAATCAAGGTTAAAAATGG
1 AATTTTTGGTGAAATCGGGGTTAAAAATGG
* * *
12911720 GA-TTTT--AGAAAGTTCGGGGGT-AAAATGG
1 AATTTTTGGTGAAA--TCGGGGTTAAAAATGG
12911748 TAATTTTTGGTGAAATCGGGGTTAAAAAT-G
1 -AATTTTTGGTGAAATCGGGGTTAAAAATGG
*
12911778 AAATTTT-G-GAAAGTTCAGGGG-T-AAAATGG
1 AATTTTTGGTGAAA--TC-GGGGTTAAAAATGG
* *
12911807 TGATTTTTGGTGAAATTGGGGTTAAAAATGG
1 -AATTTTTGGTGAAATCGGGGTTAAAAATGG
12911838 AATTTT
1 AATTTT
12911844 GGAAAGTTTA
Statistics
Matches: 94, Mismatches: 14, Indels: 32
0.67 0.10 0.23
Matches are distributed among these distances:
27 7 0.07
28 13 0.14
29 24 0.26
30 29 0.31
31 13 0.14
32 8 0.09
ACGTcount: A:0.35, C:0.03, G:0.28, T:0.34
Consensus pattern (30 bp):
AATTTTTGGTGAAATCGGGGTTAAAAATGG
Found at i:12911858 original size:30 final size:30
Alignment explanation
Indices: 12911648--12911886 Score: 96
Period size: 30 Copynumber: 8.1 Consensus size: 30
12911638 GGTGAAAGTA
* * *
12911648 GGGTAAAAAATGGAATCTTGGAAAGTTTAC
1 GGGTTAAAAATGGAATTTTGGAAAGTTTAG
* * *
12911678 GGG-T-AAAACGGTAATTTTTGGTAAA-ATCA-
1 GGGTTAAAAATGG-AA-TTTTGG-AAAGTTTAG
* * * *
12911707 AGGTTAAAAATGGGATTTTAGAAAG-TTCG
1 GGGTTAAAAATGGAATTTTGGAAAGTTTAG
* *
12911736 GGGGT-AAAATGGTAATTTTTGGTGAAA---TCG
1 GGGTTAAAAATGG-AA-TTTT-G-GAAAGTTTAG
* *
12911766 GGGTTAAAAATGAAATTTTGGAAAGTTCAG
1 GGGTTAAAAATGGAATTTTGGAAAGTTTAG
*
12911796 GGG-T-AAAATGGTGATTTTTGGTGAAA--TT-G
1 GGGTTAAAAAT-G-GAATTTT-G-GAAAGTTTAG
12911825 GGGTTAAAAATGGAATTTTGGAAAGTTTAG
1 GGGTTAAAAATGGAATTTTGGAAAGTTTAG
**
12911855 GGG-TAAAAATATAATTTAT-GAACAGTTTAG
1 GGGTTAAAAATGGAATTT-TGGAA-AGTTTAG
12911885 GG
1 GG
12911887 ACCTTTAAGC
Statistics
Matches: 158, Mismatches: 25, Indels: 52
0.67 0.11 0.22
Matches are distributed among these distances:
27 8 0.05
28 24 0.15
29 46 0.29
30 51 0.32
31 21 0.13
32 8 0.05
ACGTcount: A:0.36, C:0.03, G:0.28, T:0.32
Consensus pattern (30 bp):
GGGTTAAAAATGGAATTTTGGAAAGTTTAG
Found at i:12911870 original size:29 final size:31
Alignment explanation
Indices: 12911765--12911886 Score: 93
Period size: 29 Copynumber: 4.1 Consensus size: 31
12911755 TGGTGAAATC
*
12911765 GGGGTTAAAAATGA-AATTTTGGAAAGTTCA
1 GGGGTTAAAAATGATAATTTTGGAAAGTTTA
* *
12911795 GGGG-T-AAAATGGTGATTTTTGGTGAAA--TT-
1 GGGGTTAAAAATGAT-AATTTT-G-GAAAGTTTA
*
12911824 GGGGTTAAAAATG-GAATTTTGGAAAGTTTA
1 GGGGTTAAAAATGATAATTTTGGAAAGTTTA
12911854 GGGG-TAAAAAT-ATAATTTAT-GAACAGTTTA
1 GGGGTTAAAAATGATAATTT-TGGAA-AGTTTA
12911884 GGG
1 GGG
12911887 ACCTTTAAGC
Statistics
Matches: 74, Mismatches: 6, Indels: 24
0.71 0.06 0.23
Matches are distributed among these distances:
27 4 0.05
28 7 0.09
29 27 0.36
30 25 0.34
31 7 0.09
32 4 0.05
ACGTcount: A:0.36, C:0.02, G:0.30, T:0.33
Consensus pattern (31 bp):
GGGGTTAAAAATGATAATTTTGGAAAGTTTA
Found at i:12912935 original size:23 final size:21
Alignment explanation
Indices: 12912889--12912936 Score: 53
Period size: 23 Copynumber: 2.2 Consensus size: 21
12912879 TTCTTTTTTA
*
12912889 ATTA-TTATTAAATTAATAAT
1 ATTATTTATTAAATTAATAAC
*
12912909 ATTATTTATTAATATTTAATACC
1 ATTATTTATTAA-A-TTAATAAC
12912932 ATTAT
1 ATTAT
12912937 CACTTTTTAT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
20 4 0.17
21 7 0.30
22 1 0.04
23 11 0.48
ACGTcount: A:0.44, C:0.04, G:0.00, T:0.52
Consensus pattern (21 bp):
ATTATTTATTAAATTAATAAC
Found at i:12913793 original size:17 final size:17
Alignment explanation
Indices: 12913773--12913817 Score: 65
Period size: 16 Copynumber: 2.7 Consensus size: 17
12913763 TTTCAAATGT
12913773 ATTTAAATTTAAAACAA
1 ATTTAAATTTAAAACAA
*
12913790 ATTTAAATTT-AAATAA
1 ATTTAAATTTAAAACAA
*
12913806 ATTTAAAATTAA
1 ATTTAAATTTAA
12913818 TTTCAAACTT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
16 14 0.56
17 11 0.44
ACGTcount: A:0.58, C:0.02, G:0.00, T:0.40
Consensus pattern (17 bp):
ATTTAAATTTAAAACAA
Found at i:12913814 original size:23 final size:24
Alignment explanation
Indices: 12913788--12913837 Score: 61
Period size: 23 Copynumber: 2.2 Consensus size: 24
12913778 AATTTAAAAC
12913788 AAATTTAAATTT-AAA-TAAATTTA
1 AAATTT-AATTTCAAACTAAATTTA
*
12913811 AAA-TTAATTTCAAACTTAATTTA
1 AAATTTAATTTCAAACTAAATTTA
12913834 AAAT
1 AAAT
12913838 CCAAGTTGGG
Statistics
Matches: 23, Mismatches: 1, Indels: 5
0.79 0.03 0.17
Matches are distributed among these distances:
21 5 0.22
22 5 0.22
23 13 0.57
ACGTcount: A:0.54, C:0.04, G:0.00, T:0.42
Consensus pattern (24 bp):
AAATTTAATTTCAAACTAAATTTA
Found at i:12913819 original size:27 final size:28
Alignment explanation
Indices: 12913776--12913829 Score: 74
Period size: 27 Copynumber: 2.0 Consensus size: 28
12913766 CAAATGTATT
*
12913776 TAAATTTAAAACAAATTT-AAATTTAAA
1 TAAATTTAAAACAAATTTCAAACTTAAA
**
12913803 TAAATTTAAAATTAATTTCAAACTTAA
1 TAAATTTAAAACAAATTTCAAACTTAA
12913830 TTTAAAATCC
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
27 16 0.70
28 7 0.30
ACGTcount: A:0.56, C:0.06, G:0.00, T:0.39
Consensus pattern (28 bp):
TAAATTTAAAACAAATTTCAAACTTAAA
Found at i:12913831 original size:12 final size:11
Alignment explanation
Indices: 12913795--12913837 Score: 52
Period size: 11 Copynumber: 3.9 Consensus size: 11
12913785 AACAAATTTA
*
12913795 AATTT-AAATA
1 AATTTAAAATT
12913805 AATTTAAAATT
1 AATTTAAAATT
*
12913816 AATTTCAAACTT
1 AATTT-AAAATT
12913828 AATTTAAAAT
1 AATTTAAAAT
12913838 CCAAGTTGGG
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
10 5 0.18
11 13 0.46
12 10 0.36
ACGTcount: A:0.53, C:0.05, G:0.00, T:0.42
Consensus pattern (11 bp):
AATTTAAAATT
Found at i:12916281 original size:29 final size:29
Alignment explanation
Indices: 12916241--12916309 Score: 77
Period size: 29 Copynumber: 2.4 Consensus size: 29
12916231 TTAAACTAGT
* *
12916241 AAAA-ATAAAATTACACTTTGACTTTTTA
1 AAAATATAAAATTACAATTTAACTTTTTA
** *
12916269 AAAATATAAAATTTTAATTTAATTTTTTA
1 AAAATATAAAATTACAATTTAACTTTTTA
12916298 AAAATTATAAAA
1 AAAA-TATAAAA
12916310 ATATAAACAA
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
28 4 0.12
29 23 0.68
30 7 0.21
ACGTcount: A:0.52, C:0.04, G:0.01, T:0.42
Consensus pattern (29 bp):
AAAATATAAAATTACAATTTAACTTTTTA
Found at i:12916321 original size:29 final size:29
Alignment explanation
Indices: 12916263--12916321 Score: 66
Period size: 29 Copynumber: 2.0 Consensus size: 29
12916253 ACACTTTGAC
* * **
12916263 TTTTTAAAAATATAAAATTTTAATTTAAT
1 TTTTTAAAAATATAAAAATATAATACAAT
12916292 TTTTTAAAAATTATAAAAATATAA-ACAAT
1 TTTTTAAAAA-TATAAAAATATAATACAAT
12916321 T
1 T
12916322 AAAATAATAA
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
29 14 0.56
30 11 0.44
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.46
Consensus pattern (29 bp):
TTTTTAAAAATATAAAAATATAATACAAT
Found at i:12917814 original size:27 final size:27
Alignment explanation
Indices: 12917771--12917824 Score: 65
Period size: 28 Copynumber: 2.0 Consensus size: 27
12917761 TCATATCATA
*
12917771 TTTTTTAAAACATC-TTTATCACGATT
1 TTTTTTAAAACAACTTTTATCACGATT
* *
12917797 TTTTTTGAAAGCAACTTTTATCATGATT
1 TTTTTT-AAAACAACTTTTATCACGATT
12917825 GTAGCTAATA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
26 6 0.26
27 6 0.26
28 11 0.48
ACGTcount: A:0.30, C:0.13, G:0.07, T:0.50
Consensus pattern (27 bp):
TTTTTTAAAACAACTTTTATCACGATT
Found at i:12918646 original size:21 final size:19
Alignment explanation
Indices: 12918606--12918651 Score: 56
Period size: 21 Copynumber: 2.3 Consensus size: 19
12918596 AACACATCAA
*
12918606 AAGTATTATGATTTTTTTT
1 AAGTATTATGATTATTTTT
*
12918625 ATGTATTATGAAATTATTTTT
1 AAGTATTATG--ATTATTTTT
12918646 AAGTAT
1 AAGTAT
12918652 AAATGTTAAG
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
19 9 0.41
21 13 0.59
ACGTcount: A:0.33, C:0.00, G:0.11, T:0.57
Consensus pattern (19 bp):
AAGTATTATGATTATTTTT
Found at i:12921977 original size:15 final size:15
Alignment explanation
Indices: 12921957--12921987 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
12921947 AGAAGATGGG
12921957 GATGCAAAGGAAGAA
1 GATGCAAAGGAAGAA
*
12921972 GATGCAGAGGAAGAA
1 GATGCAAAGGAAGAA
12921987 G
1 G
12921988 TAGAAGAAGA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.48, C:0.06, G:0.39, T:0.06
Consensus pattern (15 bp):
GATGCAAAGGAAGAA
Found at i:12922907 original size:16 final size:16
Alignment explanation
Indices: 12922886--12922919 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
12922876 TAACACGTGG
12922886 TAAAATAAAAAAAAAT
1 TAAAATAAAAAAAAAT
**
12922902 TAAAATTTAAAAAAAT
1 TAAAATAAAAAAAAAT
12922918 TA
1 TA
12922920 TGAAAATTTC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (16 bp):
TAAAATAAAAAAAAAT
Found at i:12928798 original size:5 final size:6
Alignment explanation
Indices: 12928762--12928795 Score: 52
Period size: 6 Copynumber: 5.7 Consensus size: 6
12928752 AGTCGAATGT
12928762 AAAAA- AAAAAGG AAAAAG AAAAAG AAAAAG AAAA
1 AAAAAG AAAAA-G AAAAAG AAAAAG AAAAAG AAAA
12928796 GAATCTTAAC
Statistics
Matches: 27, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
5 5 0.19
6 17 0.63
7 5 0.19
ACGTcount: A:0.85, C:0.00, G:0.15, T:0.00
Consensus pattern (6 bp):
AAAAAG
Found at i:12929734 original size:174 final size:175
Alignment explanation
Indices: 12929434--12929781 Score: 502
Period size: 174 Copynumber: 2.0 Consensus size: 175
12929424 CTTCAAGCAA
* * * *
12929434 GGAACAAAATAAAAGCATAAAGTGACCATACAGAATGTTTCCATTTAAAAAGACCATCACAGCAA
1 GGAACAAAATAAAAGCAGAAAGTGACCACACAGAATGTTTCCATCTAAAAAGACCATCACAGAAA
* * *
12929499 ACTGCAGTAACATCATCAGAAAGACTGAATATTTCAAGGCCAATAACCCCAAACAGTGTGATGCT
66 ACTGCAGTAACATCATAAAAAAGACTGAATATTTCAAGGCCAAAAACCCCAAACAGTGTGATGCT
** * *
12929564 TACTGTATTTTCAACATTGTGGGAACCCTAAATCCTCACCACAAT
131 TACTACAATTTCAACATTGCGGGAACCCTAAATCCTCACCACAAT
* *
12929609 GGAACAAAATAAAAGCACGAATGTGACCACACAGAATGTTTCCA-CTAAAAA-CCCATCACAGAA
1 GGAACAAAATAAAAGCA-GAAAGTGACCACACAGAATGTTTCCATCTAAAAAGACCATCACAGAA
* * ** *
12929672 AACTGCAGTGACATCATAAAAAAGACTGGATATTTCAAGGCCAAAAATTCCAAACTGTGTGATGC
65 AACTGCAGTAACATCATAAAAAAGACTGAATATTTCAAGGCCAAAAACCCCAAACAGTGTGATGC
*
12929737 TTACTACAATTTCAACATTGCGGGAACCCTAGATCCTCACCACAA
130 TTACTACAATTTCAACATTGCGGGAACCCTAAATCCTCACCACAA
12929782 CGGATATGCA
Statistics
Matches: 153, Mismatches: 19, Indels: 3
0.87 0.11 0.02
Matches are distributed among these distances:
174 107 0.70
175 23 0.15
176 23 0.15
ACGTcount: A:0.41, C:0.23, G:0.15, T:0.22
Consensus pattern (175 bp):
GGAACAAAATAAAAGCAGAAAGTGACCACACAGAATGTTTCCATCTAAAAAGACCATCACAGAAA
ACTGCAGTAACATCATAAAAAAGACTGAATATTTCAAGGCCAAAAACCCCAAACAGTGTGATGCT
TACTACAATTTCAACATTGCGGGAACCCTAAATCCTCACCACAAT
Found at i:12931767 original size:139 final size:141
Alignment explanation
Indices: 12931603--12931877 Score: 500
Period size: 139 Copynumber: 2.0 Consensus size: 141
12931593 AGTATAAGTG
12931603 AAAAATTATTTAAATCTCTAAAAAATTCATCTCTCAAATATCTAATTTCAACATGATATCAGCGC
1 AAAAATTATTTAAATCTCTAAAAAATTCATCTCTCAAATATCTAATTTCAACATGATATCAGCGC
12931668 TAGTATCATGATTTAGGGGCCAG-TTTTTTTGTTTCTTC-TTTTTTCCGAAAATAACATAAACTC
66 TAGTATCATGATTTAGGGGCCAGTTTTTTTTGTTTCTTCTTTTTTTCCGAAAATAACATAAACTC
12931731 TAGTATTCTAA
131 TAGTATTCTAA
* *
12931742 AAAAATTATTTAAATCTCTAAAAAATTCATCTCTCAAATATCTAATTTTAACATGGTATCAGCGC
1 AAAAATTATTTAAATCTCTAAAAAATTCATCTCTCAAATATCTAATTTCAACATGATATCAGCGC
* *
12931807 TAGTATCATGATTTAGGGGCCAGTTTTTTTTGTTTTTTCTTTTTTTCCGAAAATAGCATAAACTC
66 TAGTATCATGATTTAGGGGCCAGTTTTTTTTGTTTCTTCTTTTTTTCCGAAAATAACATAAACTC
12931872 TAGTAT
131 TAGTAT
12931878 CTCGAAAATT
Statistics
Matches: 130, Mismatches: 4, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
139 86 0.66
140 14 0.11
141 30 0.23
ACGTcount: A:0.33, C:0.16, G:0.10, T:0.41
Consensus pattern (141 bp):
AAAAATTATTTAAATCTCTAAAAAATTCATCTCTCAAATATCTAATTTCAACATGATATCAGCGC
TAGTATCATGATTTAGGGGCCAGTTTTTTTTGTTTCTTCTTTTTTTCCGAAAATAACATAAACTC
TAGTATTCTAA
Found at i:12952666 original size:217 final size:215
Alignment explanation
Indices: 12951961--12952697 Score: 1269
Period size: 216 Copynumber: 3.4 Consensus size: 215
12951951 TGACAGCAGC
12951961 AATGGGGTGGTGGCGCAGTTGGCTAGCGCGTAGGTCTCATAGCGTCTGAGTTATCCTGAGGTCGA
1 AATGGGGTGGTGGCGCAGTTGGCTAGCGCGTAGGTCTCATAGCGTCTGAGTTATCCTGAGGTCGA
12952026 GAGTTCGAGCCTCTCTCACCCCAATCTCTTTCCATTTTTTAAAGTCCATATTGGACATATGATAT
66 GAGTTCGAGCCTCTCTCACCCCAATCTCTTTCCATTTTTTAAAGTCCATATTGGACATATGATAT
*
12952091 AGTCATATAACTCGCTCGCAGGTTCCGCCTACAGGATCACCAAGCAGAACTCTTAACTTCAGTAG
131 AGTCATATAACTCGCTCGCAGGTTCTGCCTACAGGATCACCAAGCAGAACTCTTAACTT-AGTAG
12952156 ACAGTGTTGCACAGGGAATCA
195 ACAGTGTTGCACAGGGAATCA
12952177 AATGGGGTGGTGGCGCAGTTGGCTAGCGCGTAGGTCTCATAGCGTCTGAGTTATCCTGAGGTCGA
1 AATGGGGTGGTGGCGCAGTTGGCTAGCGCGTAGGTCTCATAGCGTCTGAGTTATCCTGAGGTCGA
*
12952242 GAGTTCGAGCCTCTCTCACCCCAAACTCTTTCCATTTTTTAAAGTCCATATTGGACATATGATAT
66 GAGTTCGAGCCTCTCTCACCCCAATCTCTTTCCATTTTTTAAAGTCCATATTGGACATATGATAT
*
12952307 AGTCATATAACTCGCTCGCAGGTTCTGCCTACAGGATCACCAAGCAGAACTCTTAACCTTATTAG
131 AGTCATATAACTCGCTCGCAGGTTCTGCCTACAGGATCACCAAGCAGAACTCTTAA-CTTAGTAG
*
12952372 ACGGTGTTGCACAGGGAATCA
195 ACAGTGTTGCACAGGGAATCA
12952393 AATGGGGTGGTGGCGCAGTTGGCTAGCGCGTAGGTCTCATAGCGTCTGAGTTATCCTGAGGTCGA
1 AATGGGGTGGTGGCGCAGTTGGCTAGCGCGTAGGTCTCATAGCGTCTGAGTTATCCTGAGGTCGA
* *
12952458 GAGTTCGAGCCTCTCTCACCCCAATCTCTTTCCATTTTTTAAAGTCTAGGATTGGACATATGATA
66 GAGTTCGAGCCTCTCTCACCCCAATCTCTTTCCATTTTTTAAAGTCCA-TATTGGACATATGATA
* ** *
12952523 TAGTCATATAACTCGCTCGCAGGTTCTTCCTACAATATCACCAAGCAGACCTCTTAACTTGAGTA
130 TAGTCATATAACTCGCTCGCAGGTTCTGCCTACAGGATCACCAAGCAGAACTCTTAACTT-AGTA
* * * *
12952588 GGCAATGTTGCAC-GAGAGACCA
194 GACAGTGTTGCACAGGGA-ATCA
* * *
12952610 AATGGGATGGTGGCGCAGTTGGCTAGCGCGTAAGTCTCATAGCGTTTGAGTTATCCTGAGGTCGA
1 AATGGGGTGGTGGCGCAGTTGGCTAGCGCGTAGGTCTCATAGCGTCTGAGTTATCCTGAGGTCGA
12952675 GAGTTCGAGCCTCTCTCACCCCA
66 GAGTTCGAGCCTCTCTCACCCCA
12952698 CTCTTAACTT
Statistics
Matches: 497, Mismatches: 20, Indels: 7
0.95 0.04 0.01
Matches are distributed among these distances:
216 325 0.65
217 172 0.35
ACGTcount: A:0.24, C:0.24, G:0.24, T:0.28
Consensus pattern (215 bp):
AATGGGGTGGTGGCGCAGTTGGCTAGCGCGTAGGTCTCATAGCGTCTGAGTTATCCTGAGGTCGA
GAGTTCGAGCCTCTCTCACCCCAATCTCTTTCCATTTTTTAAAGTCCATATTGGACATATGATAT
AGTCATATAACTCGCTCGCAGGTTCTGCCTACAGGATCACCAAGCAGAACTCTTAACTTAGTAGA
CAGTGTTGCACAGGGAATCA
Found at i:12958067 original size:187 final size:179
Alignment explanation
Indices: 12957745--12958100 Score: 448
Period size: 187 Copynumber: 1.9 Consensus size: 179
12957735 GTAGGCATCA
* *
12957745 TGTTGTTGATTTTATATAAAAATGTAAAAGAAGGAAAAAGGGAACAAAATATATTCATAATTTTA
1 TGTTGTTGATTTTATATAAAAATGTAAAAGAACGAAAAAGGGAAAAAAATATATTCATAATTTTA
* * * ** * *
12957810 TTAATTTTGGAGCAGTCAGATATTTTGAACAAAAAGTTGTAGTGTAGTGGTGAGTATCTTCGCCT
66 TTAATTTAGAAGCAGTCAGACACCTTGAACAAAAAGTTGTAGTATAGTGGTGAGTATCTCCGCCT
* * *
12957875 GTCACGCGGGTGACCTGG-GTTCGATCCCTGGCAGCGGCACTGGTTATGT
131 GTCACGCAGGTAACC-GGAGTTCGATCCCCGGCAGCGGCACTGGTTATGT
*
12957924 TGTTGTTGATTTTTATATAAAAATGTAAAAGAACGAAAGAGGGAATAAAAATATATTCATAA-TT
1 TGTTGTTGA-TTTTATATAAAAATGTAAAAGAACGAAAAAGGGAA-AAAAATATATTCATAATTT
* *
12957988 TATTAAGTCAATTAGAAGCAGTCAGACACCTTGAATAATAAGTCGTTGTAGTATAGTGGTGAGTA
64 TATTAA-T---TTAGAAGCAGTCAGACACCTTGAACAA-AA--AGTTGTAGTATAGTGGTGAGTA
*
12958053 T-TCCGGCCTGTCACGCAGTTAACCGGAGTTCGATCCCCGGCAGCGGCA
122 TCTCC-GCCTGTCACGCAGGTAACCGGAGTTCGATCCCCGGCAGCGGCA
12958101 AATTTTTTTT
Statistics
Matches: 150, Mismatches: 16, Indels: 14
0.83 0.09 0.08
Matches are distributed among these distances:
179 9 0.06
180 41 0.27
181 16 0.11
184 21 0.14
185 2 0.01
186 4 0.03
187 57 0.38
ACGTcount: A:0.33, C:0.13, G:0.23, T:0.31
Consensus pattern (179 bp):
TGTTGTTGATTTTATATAAAAATGTAAAAGAACGAAAAAGGGAAAAAAATATATTCATAATTTTA
TTAATTTAGAAGCAGTCAGACACCTTGAACAAAAAGTTGTAGTATAGTGGTGAGTATCTCCGCCT
GTCACGCAGGTAACCGGAGTTCGATCCCCGGCAGCGGCACTGGTTATGT
Found at i:12959500 original size:30 final size:30
Alignment explanation
Indices: 12959466--12959538 Score: 146
Period size: 30 Copynumber: 2.4 Consensus size: 30
12959456 TGAACATTGA
12959466 GACACCAGTTACAGGGGATGGTAGACACTG
1 GACACCAGTTACAGGGGATGGTAGACACTG
12959496 GACACCAGTTACAGGGGATGGTAGACACTG
1 GACACCAGTTACAGGGGATGGTAGACACTG
12959526 GACACCAGTTACA
1 GACACCAGTTACA
12959539 AGGGTTATAT
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 43 1.00
ACGTcount: A:0.32, C:0.22, G:0.30, T:0.16
Consensus pattern (30 bp):
GACACCAGTTACAGGGGATGGTAGACACTG
Found at i:12974517 original size:17 final size:16
Alignment explanation
Indices: 12974471--12974519 Score: 55
Period size: 17 Copynumber: 3.0 Consensus size: 16
12974461 GCCTTTACAT
12974471 TTATAC-TTTTATTTA
1 TTATACTTTTTATTTA
* *
12974486 TTATAGATATTTATTTA
1 TTATA-CTTTTTATTTA
12974503 TTATACTTTTATATTTA
1 TTATACTTTT-TATTTA
12974520 ATTAATATTA
Statistics
Matches: 27, Mismatches: 4, Indels: 4
0.77 0.11 0.11
Matches are distributed among these distances:
15 5 0.19
16 3 0.11
17 19 0.70
ACGTcount: A:0.31, C:0.04, G:0.02, T:0.63
Consensus pattern (16 bp):
TTATACTTTTTATTTA
Found at i:12981190 original size:19 final size:18
Alignment explanation
Indices: 12981135--12981190 Score: 60
Period size: 19 Copynumber: 2.9 Consensus size: 18
12981125 AATTTTTAAG
12981135 ATTTATATAATATAATATTT
1 ATTT-TATAATATAA-ATTT
12981155 -TTGTTATAATCATAAATTAT
1 ATT-TTATAAT-ATAAATT-T
12981175 ATTTTATAATATAAAT
1 ATTTTATAATATAAAT
12981191 GTTTAAGATT
Statistics
Matches: 32, Mismatches: 0, Indels: 9
0.78 0.00 0.22
Matches are distributed among these distances:
19 17 0.53
20 13 0.41
21 2 0.06
ACGTcount: A:0.45, C:0.02, G:0.02, T:0.52
Consensus pattern (18 bp):
ATTTTATAATATAAATTT
Found at i:12981608 original size:32 final size:32
Alignment explanation
Indices: 12981569--12981659 Score: 157
Period size: 32 Copynumber: 2.9 Consensus size: 32
12981559 AATCACACCC
12981569 AAGTAATATTGTTCTTTTTGGTAAAAAAAAAA
1 AAGTAATATTGTTCTTTTTGGTAAAAAAAAAA
*
12981601 AAGTAATATTGTTCTTTTTGGTCAAAAAAAAA
1 AAGTAATATTGTTCTTTTTGGTAAAAAAAAAA
*
12981633 AAGTAATATTGTTCTTATT-GTAAAAAA
1 AAGTAATATTGTTCTTTTTGGTAAAAAA
12981660 GTCACCTCTT
Statistics
Matches: 56, Mismatches: 3, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
31 7 0.12
32 49 0.88
ACGTcount: A:0.45, C:0.04, G:0.12, T:0.38
Consensus pattern (32 bp):
AAGTAATATTGTTCTTTTTGGTAAAAAAAAAA
Found at i:12989559 original size:35 final size:35
Alignment explanation
Indices: 12989513--12989581 Score: 138
Period size: 35 Copynumber: 2.0 Consensus size: 35
12989503 AAGGGTTAAA
12989513 GTGTAATTTTACCATATATAAATTTATAACTTGAG
1 GTGTAATTTTACCATATATAAATTTATAACTTGAG
12989548 GTGTAATTTTACCATATATAAATTTATAACTTGA
1 GTGTAATTTTACCATATATAAATTTATAACTTGA
12989582 TTTTTAAAGG
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 34 1.00
ACGTcount: A:0.38, C:0.09, G:0.10, T:0.43
Consensus pattern (35 bp):
GTGTAATTTTACCATATATAAATTTATAACTTGAG
Found at i:12994280 original size:6 final size:6
Alignment explanation
Indices: 12994269--12994295 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
12994259 CAAAAGGGAA
12994269 GAAGAT GAAGAT GAAGAT GAAGAT GAA
1 GAAGAT GAAGAT GAAGAT GAAGAT GAA
12994296 AAAGACAAGT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.52, C:0.00, G:0.33, T:0.15
Consensus pattern (6 bp):
GAAGAT
Found at i:12998555 original size:60 final size:60
Alignment explanation
Indices: 12998484--12998661 Score: 155
Period size: 60 Copynumber: 2.9 Consensus size: 60
12998474 TAAATATCTT
* * ** * *
12998484 TTAAATTTTTAGAGTTAGGACTAAATTGATAGATTTTTTAAATATTGAGGG-TAAAATTTA
1 TTAATTTTTTAGAATTAGGACTAAATTGATAGATTTAGTAAACATTAAGGGCT-AAATTTA
* * * * *
12998544 TTAATTTTTTAGAATTAGAACTAAAATGACAAATTTAGTAAACATTAAGGGCTAAATTTG
1 TTAATTTTTTAGAATTAGGACTAAATTGATAGATTTAGTAAACATTAAGGGCTAAATTTA
* * *
12998604 TTGAATTTTTTTATATTTAGGA-TCAAATTGATAGAATGT-GTAAACATTAGAGGGCTAA
1 TT-AA-TTTTTTAGAATTAGGACT-AAATTGATAG-ATTTAGTAAACATTA-AGGGCTAA
12998662 TTTTGGTACT
Statistics
Matches: 94, Mismatches: 18, Indels: 9
0.78 0.15 0.07
Matches are distributed among these distances:
60 49 0.52
61 4 0.04
62 30 0.32
63 11 0.12
ACGTcount: A:0.39, C:0.04, G:0.16, T:0.40
Consensus pattern (60 bp):
TTAATTTTTTAGAATTAGGACTAAATTGATAGATTTAGTAAACATTAAGGGCTAAATTTA
Found at i:13000013 original size:58 final size:58
Alignment explanation
Indices: 12999879--13000038 Score: 155
Period size: 58 Copynumber: 2.8 Consensus size: 58
12999869 AGGCGAGGCA
* * * * * *
12999879 TCCATGAACCCTTTGGACTCTCGACGGAGATGAGGTATATCATCAACATTCGAGCCCC
1 TCCATGAATCATTTGGGCTCTCGACGAAGGTGAGGCATATCATCAACATTCGAGCCCC
* * *
12999937 TCCATGAATCATTTGGGCTCTCGACGAAGGTGAGGCATATCTTTAACATTCGGGCCCC
1 TCCATGAATCATTTGGGCTCTCGACGAAGGTGAGGCATATCATCAACATTCGAGCCCC
* * * *
12999995 TTCGTGAA-C-TGTTCGGGCTCTCAAC-AGAGGTGAGGCACATCATC
1 TCCATGAATCAT-TT-GGGCTCTCGACGA-AGGTGAGGCATATCATC
13000039 TTCATAAAGA
Statistics
Matches: 84, Mismatches: 15, Indels: 6
0.80 0.14 0.06
Matches are distributed among these distances:
56 1 0.01
57 4 0.05
58 79 0.94
ACGTcount: A:0.24, C:0.27, G:0.24, T:0.26
Consensus pattern (58 bp):
TCCATGAATCATTTGGGCTCTCGACGAAGGTGAGGCATATCATCAACATTCGAGCCCC
Found at i:13000327 original size:36 final size:36
Alignment explanation
Indices: 13000287--13000377 Score: 87
Period size: 36 Copynumber: 2.5 Consensus size: 36
13000277 GGATAGTGCA
13000287 CATTTCTTACATTTTATATCACCAACAG-AT-AGTATG
1 CATTTCTTACATTTTATATCACCAA-AGAATGAGT-TG
** * * * *
13000323 CATTTCTCGCGTTTCATATTACCAATGAATGAGTTG
1 CATTTCTTACATTTTATATCACCAAAGAATGAGTTG
*
13000359 CATCTCTTACATTTTATAT
1 CATTTCTTACATTTTATAT
13000378 TGCCAATGAA
Statistics
Matches: 42, Mismatches: 11, Indels: 4
0.74 0.19 0.07
Matches are distributed among these distances:
35 1 0.02
36 38 0.90
37 3 0.07
ACGTcount: A:0.29, C:0.20, G:0.10, T:0.42
Consensus pattern (36 bp):
CATTTCTTACATTTTATATCACCAAAGAATGAGTTG
Found at i:13001520 original size:19 final size:20
Alignment explanation
Indices: 13001496--13001542 Score: 62
Period size: 19 Copynumber: 2.4 Consensus size: 20
13001486 ATTTTATGAA
13001496 TTTTAAATTTTTAGT-AA-AT
1 TTTTAAATTTTTA-TAAACAT
*
13001515 TTTTAATTTTTTATAAACAT
1 TTTTAAATTTTTATAAACAT
13001535 TTTTAAAT
1 TTTTAAAT
13001543 AAATAGGTAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
18 1 0.04
19 14 0.58
20 9 0.38
ACGTcount: A:0.36, C:0.02, G:0.02, T:0.60
Consensus pattern (20 bp):
TTTTAAATTTTTATAAACAT
Found at i:13001531 original size:18 final size:17
Alignment explanation
Indices: 13001487--13001531 Score: 54
Period size: 19 Copynumber: 2.5 Consensus size: 17
13001477 ATGAGTGCTA
*
13001487 TTTTATGAATTTTAAAT
1 TTTTATAAATTTTAAAT
*
13001504 TTTTAGTAAATTTTTAATT
1 TTTTA-TAAA-TTTTAAAT
13001523 TTTTATAAA
1 TTTTATAAA
13001532 CATTTTTAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
17 5 0.21
18 7 0.29
19 12 0.50
ACGTcount: A:0.36, C:0.00, G:0.04, T:0.60
Consensus pattern (17 bp):
TTTTATAAATTTTAAAT
Found at i:13002633 original size:16 final size:17
Alignment explanation
Indices: 13002612--13002645 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
13002602 ATAAAAGTAT
13002612 AATAAA-ATATTAAAAA
1 AATAAATATATTAAAAA
*
13002628 AATAAATATTTTAAAAA
1 AATAAATATATTAAAAA
13002645 A
1 A
13002646 GACATATGAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 6 0.38
17 10 0.62
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (17 bp):
AATAAATATATTAAAAA
Found at i:13020413 original size:23 final size:23
Alignment explanation
Indices: 13020380--13020464 Score: 100
Period size: 23 Copynumber: 3.7 Consensus size: 23
13020370 AGCATAGACC
13020380 TTTCTTCTTCTTGTTCTTTCCCA
1 TTTCTTCTTCTTGTTCTTTCCCA
* ****
13020403 TTTCTTGTTCTTGTTCCAGACC-
1 TTTCTTCTTCTTGTTCTTTCCCA
*
13020425 TTTCTTCTTCTTGTTCTTTCTCA
1 TTTCTTCTTCTTGTTCTTTCCCA
*
13020448 TTTCTTGTTCTTGTTCT
1 TTTCTTCTTCTTGTTCT
13020465 CGATATAGGA
Statistics
Matches: 49, Mismatches: 12, Indels: 2
0.78 0.19 0.03
Matches are distributed among these distances:
22 16 0.33
23 33 0.67
ACGTcount: A:0.05, C:0.26, G:0.08, T:0.61
Consensus pattern (23 bp):
TTTCTTCTTCTTGTTCTTTCCCA
Found at i:13020439 original size:45 final size:45
Alignment explanation
Indices: 13020375--13020463 Score: 169
Period size: 45 Copynumber: 2.0 Consensus size: 45
13020365 CAATAAGCAT
13020375 AGACCTTTCTTCTTCTTGTTCTTTCCCATTTCTTGTTCTTGTTCC
1 AGACCTTTCTTCTTCTTGTTCTTTCCCATTTCTTGTTCTTGTTCC
*
13020420 AGACCTTTCTTCTTCTTGTTCTTTCTCATTTCTTGTTCTTGTTC
1 AGACCTTTCTTCTTCTTGTTCTTTCCCATTTCTTGTTCTTGTTC
13020464 TCGATATAGG
Statistics
Matches: 43, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
45 43 1.00
ACGTcount: A:0.07, C:0.27, G:0.09, T:0.57
Consensus pattern (45 bp):
AGACCTTTCTTCTTCTTGTTCTTTCCCATTTCTTGTTCTTGTTCC
Found at i:13026474 original size:20 final size:19
Alignment explanation
Indices: 13026405--13026468 Score: 85
Period size: 20 Copynumber: 3.3 Consensus size: 19
13026395 AAAAATTTAA
13026405 AAAAATCCAAAATAATTTT
1 AAAAATCCAAAATAATTTT
13026424 CAAAAATCCAAAATAATTTT
1 -AAAAATCCAAAATAATTTT
* *
13026444 TAAAATTCAAAAT-ATTTAT
1 AAAAATCCAAAATAATTT-T
13026463 AAAAAT
1 AAAAAT
13026469 TTCAAATTTT
Statistics
Matches: 40, Mismatches: 3, Indels: 3
0.87 0.07 0.07
Matches are distributed among these distances:
18 4 0.10
19 17 0.43
20 19 0.47
ACGTcount: A:0.58, C:0.09, G:0.00, T:0.33
Consensus pattern (19 bp):
AAAAATCCAAAATAATTTT
Found at i:13030798 original size:18 final size:18
Alignment explanation
Indices: 13030775--13030810 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
13030765 AATCTGTATA
*
13030775 ATTTTCATTTCTATCTGG
1 ATTTTCATGTCTATCTGG
*
13030793 ATTTTCATGTCTTTCTGG
1 ATTTTCATGTCTATCTGG
13030811 TGTGAATGAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.14, C:0.17, G:0.14, T:0.56
Consensus pattern (18 bp):
ATTTTCATGTCTATCTGG
Found at i:13039960 original size:11 final size:11
Alignment explanation
Indices: 13039914--13040004 Score: 62
Period size: 11 Copynumber: 8.1 Consensus size: 11
13039904 ACCAAACCAT
*
13039914 TTTAAATTTAT
1 TTTAAATTTAA
*
13039925 TTTAAAATTAAA
1 TTT-AAATTTAA
*
13039937 TTT-ATTTTAAA
1 TTTAAATTT-AA
13039948 TTTAAATTTAA
1 TTTAAATTTAA
*
13039959 TTTAAATTTGGA
1 TTTAAATTT-AA
*
13039971 TTT-AATATAAA
1 TTTAAAT-TTAA
*
13039982 TTTAAAATT-A
1 TTTAAATTTAA
13039992 TTATAAATTTAA
1 TT-TAAATTTAA
13040004 T
1 T
13040005 AAAATAAATG
Statistics
Matches: 61, Mismatches: 11, Indels: 15
0.70 0.13 0.17
Matches are distributed among these distances:
10 6 0.10
11 33 0.54
12 22 0.36
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.53
Consensus pattern (11 bp):
TTTAAATTTAA
Found at i:13039965 original size:17 final size:17
Alignment explanation
Indices: 13039914--13040003 Score: 101
Period size: 17 Copynumber: 5.3 Consensus size: 17
13039904 ACCAAACCAT
*
13039914 TTTAAATTTATTTTAAA
1 TTTAAATTTAATTTAAA
* *
13039931 ATTAAATTTATTTTAAA
1 TTTAAATTTAATTTAAA
13039948 TTTAAATTTAATTTAAA
1 TTTAAATTTAATTTAAA
** *
13039965 TTTGGATTTAATATAAA
1 TTTAAATTTAATTTAAA
*
13039982 TTTAAAATT-ATTATAAA
1 TTTAAATTTAATT-TAAA
13039999 TTTAA
1 TTTAA
13040004 TAAAATAAAT
Statistics
Matches: 62, Mismatches: 10, Indels: 2
0.84 0.14 0.03
Matches are distributed among these distances:
16 2 0.03
17 60 0.97
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.52
Consensus pattern (17 bp):
TTTAAATTTAATTTAAA
Found at i:13041980 original size:29 final size:29
Alignment explanation
Indices: 13041871--13042008 Score: 102
Period size: 29 Copynumber: 4.7 Consensus size: 29
13041861 TTAAATTATC
* *
13041871 TAAAAATTACATTTT-ACCCCAAAAATTT
1 TAAAAATTACATTTTGACCCTAAAACTTT
* *
13041899 CAAAAAATTATATTTTGACCCCT-AAACTTCTT
1 -TAAAAATTACATTTTGA-CCCTAAAAC-T-TT
* *
13041931 TTAAAATTATATTTTGACCCTAAAACTTT
1 TAAAAATTACATTTTGACCCTAAAACTTT
**
13041960 TAAAAATTACCATTTT-ACCCTTGAACTTT
1 TAAAAATTA-CATTTTGACCCTAAAACTTT
** *
13041989 CCAAAATTCCATTTTTGACC
1 TAAAAATTACA-TTTTGACC
13042009 TCAATTTTAC
Statistics
Matches: 88, Mismatches: 13, Indels: 15
0.76 0.11 0.13
Matches are distributed among these distances:
28 2 0.02
29 44 0.50
30 17 0.19
31 23 0.26
32 2 0.02
ACGTcount: A:0.38, C:0.20, G:0.03, T:0.39
Consensus pattern (29 bp):
TAAAAATTACATTTTGACCCTAAAACTTT
Found at i:13042024 original size:59 final size:59
Alignment explanation
Indices: 13041961--13042097 Score: 190
Period size: 59 Copynumber: 2.3 Consensus size: 59
13041951 TAAAACTTTT
*
13041961 AAAAATTACCATTTTACCCTTGAACTTTCCAAAAT-TCCATTTTTGACCTCAATTT-TACC
1 AAAAATTACCATTTTACCCTTGAACTTTCCAAAATCT-CATTTTTGACC-CAATTTCAACC
* * *
13042020 AAAAATTACCATTTTACTCTTGAACTTTTCAAAATCTCATTTTTGACCCAATTTCAAGC
1 AAAAATTACCATTTTACCCTTGAACTTTCCAAAATCTCATTTTTGACCCAATTTCAACC
*
13042079 -AAAATTACCATTTTGCCCT
1 AAAAATTACCATTTTACCCT
13042098 CGGGTATCCA
Statistics
Matches: 70, Mismatches: 6, Indels: 5
0.86 0.07 0.06
Matches are distributed among these distances:
58 23 0.33
59 46 0.66
60 1 0.01
ACGTcount: A:0.33, C:0.24, G:0.04, T:0.39
Consensus pattern (59 bp):
AAAAATTACCATTTTACCCTTGAACTTTCCAAAATCTCATTTTTGACCCAATTTCAACC
Found at i:13042053 original size:30 final size:29
Alignment explanation
Indices: 13041954--13042053 Score: 93
Period size: 30 Copynumber: 3.4 Consensus size: 29
13041944 TTGACCCTAA
13041954 AACTTTT-AAAAATTACCATTTTACCCTTG
1 AACTTTTCAAAAATTACCATTTTA-CCTTG
* *
13041983 AAC-TTTCCAAAATT-CCATTTTTGACC-TC
1 AACTTTTCAAAAATTACCA-TTTT-ACCTTG
13042011 AA-TTTTACCAAAAATTACCATTTTACTCTTG
1 AACTTTT--CAAAAATTACCATTTTAC-CTTG
13042042 AACTTTTCAAAA
1 AACTTTTCAAAA
13042054 TCTCATTTTT
Statistics
Matches: 57, Mismatches: 4, Indels: 19
0.71 0.05 0.24
Matches are distributed among these distances:
28 12 0.21
29 17 0.30
30 18 0.32
31 6 0.11
32 4 0.07
ACGTcount: A:0.35, C:0.22, G:0.03, T:0.40
Consensus pattern (29 bp):
AACTTTTCAAAAATTACCATTTTACCTTG
Found at i:13052336 original size:20 final size:21
Alignment explanation
Indices: 13052313--13052351 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 21
13052303 AGATTCGAGA
*
13052313 AGAATTCAAGAGA-TAATCCC
1 AGAATACAAGAGACTAATCCC
*
13052333 AGAATAGAAGAGACTAATC
1 AGAATACAAGAGACTAATC
13052352 TTTGAAAAAT
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 11 0.69
21 5 0.31
ACGTcount: A:0.49, C:0.15, G:0.18, T:0.18
Consensus pattern (21 bp):
AGAATACAAGAGACTAATCCC
Found at i:13052669 original size:101 final size:101
Alignment explanation
Indices: 13052491--13053189 Score: 846
Period size: 101 Copynumber: 6.9 Consensus size: 101
13052481 TCATTCTAGT
* *
13052491 TAAGACCGCAACGGCAGATCCAGTGCCGCAAAAACACAAAAGGGAAAGGTCTAAGTCGCAACGGC
1 TAAGACCGCAATGGCAGATCCAGTACCGCAAAAACACAAAAGGGAAAGGTCTAAGTCGCAACGGC
* *
13052556 GGACCGTGTACCTTAGAAGCATGAAAGTGAAAGATC
66 GGACCGTGTACCTCAGAAGCATGAAAGGGAAAGATC
* * * *
13052592 TAAGACCACAATGACAGATCCAGTACCGCAAAAACACAAAAAGGAAAGGTCTAAGTCGCAATGGC
1 TAAGACCGCAATGGCAGATCCAGTACCGCAAAAACACAAAAGGGAAAGGTCTAAGTCGCAACGGC
* *
13052657 GGACCGTATACCTCAGAAGCATGGAAGGGAAAGATC
66 GGACCGTGTACCTCAGAAGCATGAAAGGGAAAGATC
* * * * * * * *
13052693 TAATACCGTAATGGTAGATCCAGTACCACAACAACACAAAAGGGGAAGATCTAAGTCGCAATGGC
1 TAAGACCGCAATGGCAGATCCAGTACCGCAAAAACACAAAAGGGAAAGGTCTAAGTCGCAACGGC
* * * *
13052758 GAACTGTGTACCTCAGAAGCATGGAAGGGAAAGATT
66 GGACCGTGTACCTCAGAAGCATGAAAGGGAAAGATC
* *
13052794 TAAGACCGCAATGGCAGATCCAGTACCGCAAAAACAAAAAAGGGAAAGGTCTAAGTCGCAACAGC
1 TAAGACCGCAATGGCAGATCCAGTACCGCAAAAACACAAAAGGGAAAGGTCTAAGTCGCAACGGC
13052859 GGACCGTGTACCTCAGAAGCAT-AGAAGGGAAAGATC
66 GGACCGTGTACCTCAGAAGCATGA-AAGGGAAAGATC
* * * * ** * * * *
13052895 TAAGACCGTAATGGCAAATCTAGTAGCATAAAAACACAAAAGGGGAAGGGCTAAGTTGCAACGGT
1 TAAGACCGCAATGGCAGATCCAGTACCGCAAAAACACAAAAGGGAAAGGTCTAAGTCGCAACGGC
* * * * * * *
13052960 GAACCGTATACCTAAAAAGCTTGGAAGGGAAATATC
66 GGACCGTGTACCTCAGAAGCATGAAAGGGAAAGATC
* * *
13052996 TAAGACCGTAATGGCAGATCCAGTACCGCAAAAACACAACAGGGAAAGGTCTAAGTCGCAGCGGC
1 TAAGACCGCAATGGCAGATCCAGTACCGCAAAAACACAAAAGGGAAAGGTCTAAGTCGCAACGGC
* *
13053061 GGACCGTGCACCTCAGAAGCATGGATA-GGAAAGATC
66 GGACCGTGTACCTCAGAAGCAT-GAAAGGGAAAGATC
* * * * * * *
13053097 TAAGACCACAATGGCAGATCCAGTACCACAAAGATACAAAAGGGAAAGGTTTAAGTCGCTACGAC
1 TAAGACCGCAATGGCAGATCCAGTACCGCAAAAACACAAAAGGGAAAGGTCTAAGTCGCAACGGC
* * *
13053162 GAACCCG-GTACCTTAGAAACATGAAAGG
66 GGA-CCGTGTACCTCAGAAGCATGAAAGG
13053190 TCAAATCCAC
Statistics
Matches: 501, Mismatches: 92, Indels: 10
0.83 0.15 0.02
Matches are distributed among these distances:
100 3 0.01
101 493 0.98
102 5 0.01
ACGTcount: A:0.39, C:0.21, G:0.25, T:0.14
Consensus pattern (101 bp):
TAAGACCGCAATGGCAGATCCAGTACCGCAAAAACACAAAAGGGAAAGGTCTAAGTCGCAACGGC
GGACCGTGTACCTCAGAAGCATGAAAGGGAAAGATC
Found at i:13052820 original size:51 final size:51
Alignment explanation
Indices: 13052491--13053144 Score: 259
Period size: 50 Copynumber: 12.9 Consensus size: 51
13052481 TCATTCTAGT
* * * * * * *
13052491 TAAGACCGCAACGGCAGATCCAGTGCCGCAAAAACACAAAAGGGAAAGGTC
1 TAAGACCGCAATGGCAGATCCAGTACCTCAGAAGCATAAAAGGGAAAGATC
* * * * * * *
13052542 TAAG-TCGCAACGGCGGA-CCGTGTACCTTAGAAGCATGAAAGTGAAAGATC
1 TAAGACCGCAATGGCAGATCC-AGTACCTCAGAAGCATAAAAGGGAAAGATC
* * * * * * * *
13052592 TAAGACCACAATGACAGATCCAGTACCGCAAAAACACAAAAAGGAAAGGTC
1 TAAGACCGCAATGGCAGATCCAGTACCTCAGAAGCATAAAAGGGAAAGATC
* * **
13052643 TAAG-TCGCAATGGCGGA-CC-GTATACCTCAGAAGCATGGAAGGGAAAGATC
1 TAAGACCGCAATGGCAGATCCAG--TACCTCAGAAGCATAAAAGGGAAAGATC
* * * * * * *
13052693 TAATACCGTAATGGTAGATCCAGTACCACA-ACAACACAAAAGGGGAAGATC
1 TAAGACCGCAATGGCAGATCCAGTACCTCAGA-AGCATAAAAGGGAAAGATC
* * ** ** *
13052744 TAAG-TCGCAATGGC-GAACTGTGTACCTCAGAAGCATGGAAGGGAAAGATT
1 TAAGACCGCAATGGCAGATC-CAGTACCTCAGAAGCATAAAAGGGAAAGATC
* * * * *
13052794 TAAGACCGCAATGGCAGATCCAGTACCGCAAAAACAAAAAAGGGAAAGGTC
1 TAAGACCGCAATGGCAGATCCAGTACCTCAGAAGCATAAAAGGGAAAGATC
* ** * * *
13052845 TAAG-TCGCAACAGCGGA-CCGTGTACCTCAGAAGCATAGAAGGGAAAGATC
1 TAAGACCGCAATGGCAGATCC-AGTACCTCAGAAGCATAAAAGGGAAAGATC
* * * * * * * * **
13052895 TAAGACCGTAATGGCAAATCTAGTAGCAT-AAAAACACAAAAGGGGAAGGGC
1 TAAGACCGCAATGGCAGATCCAGTA-CCTCAGAAGCATAAAAGGGAAAGATC
** * * * * * * ** *
13052946 TAAG-TTGCAACGG-TGAACC-GTATACCTAAAAAGCTTGGAAGGGAAATATC
1 TAAGACCGCAATGGCAGATCCAG--TACCTCAGAAGCATAAAAGGGAAAGATC
* * * * * * *
13052996 TAAGACCGTAATGGCAGATCCAGTACCGCAAAAACACAACAGGGAAAGGTC
1 TAAGACCGCAATGGCAGATCCAGTACCTCAGAAGCATAAAAGGGAAAGATC
* ** * * *
13053047 TAAG-TCGCAGCGGCGGA-CC-GTGCACCTCAGAAGCATGGATA-GGAAAGATC
1 TAAGACCGCAATGGCAGATCCAGT--ACCTCAGAAGCAT-AAAAGGGAAAGATC
* *
13053097 TAAGACCACAATGGCAGATCCAGTACCACA-AAG-ATACAAAAGGGAAAG
1 TAAGACCGCAATGGCAGATCCAGTACCTCAGAAGCAT--AAAAGGGAAAG
13053145 GTTTAAGTCG
Statistics
Matches: 414, Mismatches: 158, Indels: 62
0.65 0.25 0.10
Matches are distributed among these distances:
48 4 0.01
49 17 0.04
50 193 0.47
51 180 0.43
52 16 0.04
53 4 0.01
ACGTcount: A:0.40, C:0.21, G:0.25, T:0.14
Consensus pattern (51 bp):
TAAGACCGCAATGGCAGATCCAGTACCTCAGAAGCATAAAAGGGAAAGATC
Found at i:13053594 original size:17 final size:17
Alignment explanation
Indices: 13053546--13053601 Score: 67
Period size: 17 Copynumber: 3.3 Consensus size: 17
13053536 ACCAAACCAT
*
13053546 TTTAAATTTATTTTAAA
1 TTTAAATTTATTATAAA
** *
13053563 TTTGGATTTAATATAAA
1 TTTAAATTTATTATAAA
*
13053580 TTTAAAATTATTATAAA
1 TTTAAATTTATTATAAA
13053597 TTTAA
1 TTTAA
13053602 TAAAATAAAT
Statistics
Matches: 31, Mismatches: 8, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
17 31 1.00
ACGTcount: A:0.45, C:0.00, G:0.04, T:0.52
Consensus pattern (17 bp):
TTTAAATTTATTATAAA
Found at i:13054190 original size:27 final size:27
Alignment explanation
Indices: 13054160--13054213 Score: 99
Period size: 27 Copynumber: 2.0 Consensus size: 27
13054150 CATCGACTCA
13054160 GGTATACATGCACAGAAAACATTTATT
1 GGTATACATGCACAGAAAACATTTATT
*
13054187 GGTATACATGCACAGAAAATATTTATT
1 GGTATACATGCACAGAAAACATTTATT
13054214 CTTCAATATT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.41, C:0.13, G:0.15, T:0.31
Consensus pattern (27 bp):
GGTATACATGCACAGAAAACATTTATT
Found at i:13054506 original size:14 final size:15
Alignment explanation
Indices: 13054481--13054509 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
13054471 ACTCCCTTTT
13054481 CGATCGCACCACCGC
1 CGATCGCACCACCGC
13054496 CGATC-CACCACCGC
1 CGATCGCACCACCGC
13054510 AAAGCCGTCA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 9 0.64
15 5 0.36
ACGTcount: A:0.21, C:0.55, G:0.17, T:0.07
Consensus pattern (15 bp):
CGATCGCACCACCGC
Found at i:13055560 original size:29 final size:28
Alignment explanation
Indices: 13055528--13055619 Score: 77
Period size: 29 Copynumber: 3.2 Consensus size: 28
13055518 TTTACCCCAA
13055528 AACTTTTGAAAATTACCATTTTACCCTCG
1 AACTTTT-AAAATTACCATTTTACCCTCG
*
13055557 AACTTTCTAACATT-CCATTTTGA-CCTCG
1 AACTTT-TAAAATTACCATTTT-ACCCTCG
13055585 -A-TTTTACCAAAAATTACCATTTTACCC-CG
1 AACTTTT----AAAATTACCATTTTACCCTCG
13055614 AACTTT
1 AACTTT
13055620 CCAAAATCTC
Statistics
Matches: 51, Mismatches: 2, Indels: 18
0.72 0.03 0.25
Matches are distributed among these distances:
25 1 0.02
26 3 0.06
27 1 0.02
28 12 0.24
29 20 0.39
30 11 0.22
31 3 0.06
ACGTcount: A:0.30, C:0.26, G:0.05, T:0.38
Consensus pattern (28 bp):
AACTTTTAAAATTACCATTTTACCCTCG
Found at i:13055651 original size:57 final size:58
Alignment explanation
Indices: 13055536--13055653 Score: 161
Period size: 57 Copynumber: 2.1 Consensus size: 58
13055526 AAAACTTTTG
* * *
13055536 AAAATTACCATTTTACCCTCGAACTTTCTAACATTCCATTTTGACCTCGATTTTACCA
1 AAAATTACCATTTTACCCTCGAACTTTCCAAAATTCCATTTTGACCTCAATTTTACCA
*
13055594 AAAATTACCATTTTACCC-CGAACTTTCCAAAA-TCTCGTTTTGACC-CAATTTTAACCA
1 AAAATTACCATTTTACCCTCGAACTTTCCAAAATTC-CATTTTGACCTCAATTTT-ACCA
13055651 AAA
1 AAA
13055654 CTATCATTTT
Statistics
Matches: 54, Mismatches: 4, Indels: 5
0.86 0.06 0.08
Matches are distributed among these distances:
56 8 0.15
57 28 0.52
58 18 0.33
ACGTcount: A:0.33, C:0.27, G:0.05, T:0.35
Consensus pattern (58 bp):
AAAATTACCATTTTACCCTCGAACTTTCCAAAATTCCATTTTGACCTCAATTTTACCA
Found at i:13059556 original size:12 final size:12
Alignment explanation
Indices: 13059536--13059586 Score: 59
Period size: 12 Copynumber: 4.3 Consensus size: 12
13059526 ATAACATCCA
13059536 AACAGCCAAAAT
1 AACAGCCAAAAT
*
13059548 AACAACCAAAAT
1 AACAGCCAAAAT
* *
13059560 AGCAGCAAAAAT
1 AACAGCCAAAAT
*
13059572 AACAG-TAAAAT
1 AACAGCCAAAAT
13059583 AACA
1 AACA
13059587 AAAATAGGAA
Statistics
Matches: 33, Mismatches: 6, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
11 9 0.27
12 24 0.73
ACGTcount: A:0.63, C:0.20, G:0.08, T:0.10
Consensus pattern (12 bp):
AACAGCCAAAAT
Found at i:13059654 original size:21 final size:20
Alignment explanation
Indices: 13059607--13059659 Score: 61
Period size: 20 Copynumber: 2.6 Consensus size: 20
13059597 AAAAAATAAC
*
13059607 AACATCAAAACAGTAAAAAA
1 AACACCAAAACAGTAAAAAA
* *
13059627 AATACCAAAATAGTAAAAAGA
1 AACACCAAAACAGTAAAAA-A
*
13059648 AGCACCAAAACA
1 AACACCAAAACA
13059660 ATAATATAAT
Statistics
Matches: 26, Mismatches: 6, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
20 16 0.62
21 10 0.38
ACGTcount: A:0.66, C:0.17, G:0.08, T:0.09
Consensus pattern (20 bp):
AACACCAAAACAGTAAAAAA
Found at i:13061886 original size:18 final size:18
Alignment explanation
Indices: 13061832--13061889 Score: 55
Period size: 18 Copynumber: 3.1 Consensus size: 18
13061822 TTATTAGTTC
*
13061832 AATAAA-AAAGTATATTTT
1 AATAAATAAA-TATAATTT
* *
13061850 ATTAAGATAAAATAAAATTT
1 AATAA-AT-AAATATAATTT
13061870 AATAAATAAATATAATTT
1 AATAAATAAATATAATTT
13061888 AA
1 AA
13061890 AAACAAATTG
Statistics
Matches: 32, Mismatches: 5, Indels: 6
0.74 0.12 0.14
Matches are distributed among these distances:
18 16 0.50
19 3 0.09
20 10 0.31
21 3 0.09
ACGTcount: A:0.60, C:0.00, G:0.03, T:0.36
Consensus pattern (18 bp):
AATAAATAAATATAATTT
Found at i:13065008 original size:25 final size:26
Alignment explanation
Indices: 13064980--13065030 Score: 68
Period size: 26 Copynumber: 2.0 Consensus size: 26
13064970 TAAGATGACT
* *
13064980 ATATAAAAAT-GAATAAAATTATTAA
1 ATATAAAAATAAAATAAAATAATTAA
*
13065005 ATATTAAAATAAAATAAAATAATTAA
1 ATATAAAAATAAAATAAAATAATTAA
13065031 TTTTTTAACG
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
25 9 0.41
26 13 0.59
ACGTcount: A:0.67, C:0.00, G:0.02, T:0.31
Consensus pattern (26 bp):
ATATAAAAATAAAATAAAATAATTAA
Found at i:13065447 original size:24 final size:24
Alignment explanation
Indices: 13065402--13065447 Score: 58
Period size: 24 Copynumber: 1.9 Consensus size: 24
13065392 ATATACACAT
*
13065402 TAAAATAATGTTAAGATGATTATA
1 TAAAATAATGTTAAAATGATTATA
*
13065426 TAAAA-AATGTATAAAATTATTA
1 TAAAATAATGT-TAAAATGATTA
13065448 AATATTAAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 5 0.26
24 14 0.74
ACGTcount: A:0.54, C:0.00, G:0.09, T:0.37
Consensus pattern (24 bp):
TAAAATAATGTTAAAATGATTATA
Found at i:13065459 original size:434 final size:428
Alignment explanation
Indices: 13064615--13065465 Score: 939
Period size: 434 Copynumber: 1.9 Consensus size: 428
13064605 CAAATATTGG
* *
13064615 TTCATACATTTAATTTTTTTTTAAAAATAATATTTCTCTTTATATATGTTTTGGTAATGTGTAGA
1 TTCATACATTTAATTTTTTTTTAAAAATAATATTTATATTTATATATGTTTTGGTAATGTGTAGA
* ** * * * * *
13064680 CCTATTCATGGGTCGGATTATTCGTTCAGGCTTGAAGGCCTGTCTTAAATTTGAGAGGGTTTGGG
66 CCTATTCATGGGACGGATTACCCGCTCAAGCTCGAAGGCCTGTCTTAAATTTAAGAGGGTTTGGA
* *
13064745 TAAAAACATTAAGCTCTAAAAATGGACTTCAACAAAAAAAATAAGCCTATTTAAAATATGAGTCA
131 CAAAAACATTAAGCTCGAAAAATGGACTTCAACAAAAAAAATAAGCCTATTTAAAATATGAGTCA
* * * ** *
13064810 AATTCGATATTGGACATTTAAGGTTCTGCCCAATTCATTTTAAGTTTATAATACTCTATATTATA
196 AATTCGATATTGAACATTCAAGGTTCTGACCAAACCATTTTAAGTGTATAATACTCTATATTATA
* * *
13064875 TTATTTTTCATGTATTATATAATTTAAAGTATACTAAAAAAATAAATTTATACTAAATAAATAAT
261 TTATTTTTCATGTATTATAT-ATTTAAAGCACACTAAAAAAATAAACTTATACTAAATAAATAAT
* *
13064940 ACTATTCTAATGTAAACATTAAAATAATTTTAAGATGACTATATAAAAATGAATAAAATTATTAA
325 ACTATTCTAATATAAACATTAAAATAATGTTAAGATGACTATATAAAAATGAATAAAATTATTAA
13065005 ATATTAAAATAAAATAAAATAATTAATTTTTTAACGAATATTAC
390 ATATT--AAT---ATAAAATAATTAATTTTTTAACGAATATTAC
13065049 TTCATACATTTAATTTTTTTTTAAAAATAATATTTATATTTATATATGTTTTGGTAATGTGTAGA
1 TTCATACATTTAATTTTTTTTTAAAAATAATATTTATATTTATATATGTTTTGGTAATGTGTAGA
* * * *
13065114 CCTATTCATGGGAGGGGTTACCCGCTCAAGCTCGAATG-TTCG-CTTGAAATTTAAGAGGGTTTG
66 CCTATTCATGGGACGGATTACCCGCTCAAGCTCGAAGGCCT-GTCTT-AAATTTAAGAGGGTTTG
* ** ** * *
13065177 GACAAAAATATTAAGCTCGAAAAATGGGTTTCGGCAAAAAAAAATTAAG-TTCGTTTAAAATATG
129 GACAAAAACATTAAGCTCGAAAAATGGACTTCAAC-AAAAAAAA-TAAGCCT-ATTTAAAATATG
*** *
13065241 AGTCGGGTTCGAGT-TTGAACATTCAAGGCTCGAGCCTAGCCTGACCAAACCTGTTTTAAGTGTA
191 AGTCAAATTCGA-TATTGAACATTCAAGG-T------T---CTGACCAAACC-ATTTTAAGTGTA
* * * * *
13065305 TAATACTTTATATTATGTTGTTTTT-AT-TA-TGTAT-TTTAGAA-CACATTAAAAAAAATAAAC
244 TAATACTCTATATTATATTATTTTTCATGTATTATATATTTA-AAGCACACT-AAAAAAATAAAC
* ** * *
13065365 TTATACTAAATATATAATGTTACTT-TAATATACACATTAAAATAATGTTAAGATGATTATATAA
307 TTATACTAAATAAATAATACTA-TTCTAATATAAACATTAAAATAATGTTAAGATGACTATAT-A
* *
13065429 AAAATGTATAAAATTATTAAATATTAAAATAAAATAA
370 AAAATGAATAAAATTATTAAATATTAATATAAAATAA
13065466 AATAATTAAT
Statistics
Matches: 346, Mismatches: 50, Indels: 37
0.80 0.12 0.09
Matches are distributed among these distances:
433 4 0.01
434 136 0.39
435 9 0.03
436 36 0.10
437 2 0.01
439 9 0.03
442 9 0.03
443 66 0.19
444 31 0.09
445 2 0.01
446 10 0.03
447 32 0.09
ACGTcount: A:0.40, C:0.10, G:0.12, T:0.38
Consensus pattern (428 bp):
TTCATACATTTAATTTTTTTTTAAAAATAATATTTATATTTATATATGTTTTGGTAATGTGTAGA
CCTATTCATGGGACGGATTACCCGCTCAAGCTCGAAGGCCTGTCTTAAATTTAAGAGGGTTTGGA
CAAAAACATTAAGCTCGAAAAATGGACTTCAACAAAAAAAATAAGCCTATTTAAAATATGAGTCA
AATTCGATATTGAACATTCAAGGTTCTGACCAAACCATTTTAAGTGTATAATACTCTATATTATA
TTATTTTTCATGTATTATATATTTAAAGCACACTAAAAAAATAAACTTATACTAAATAAATAATA
CTATTCTAATATAAACATTAAAATAATGTTAAGATGACTATATAAAAATGAATAAAATTATTAAA
TATTAATATAAAATAATTAATTTTTTAACGAATATTAC
Found at i:13066860 original size:15 final size:15
Alignment explanation
Indices: 13066835--13066876 Score: 50
Period size: 15 Copynumber: 2.8 Consensus size: 15
13066825 TGCTTTTCAA
* *
13066835 AAAATAATTTTTTTT
1 AAAATTATTTTTTGT
13066850 AAATATT-TTTTTTGT
1 AAA-ATTATTTTTTGT
13066865 AAAATTATTTTT
1 AAAATTATTTTT
13066877 CAATAAGTTA
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
14 3 0.13
15 18 0.78
16 2 0.09
ACGTcount: A:0.36, C:0.00, G:0.02, T:0.62
Consensus pattern (15 bp):
AAAATTATTTTTTGT
Found at i:13069498 original size:36 final size:37
Alignment explanation
Indices: 13069425--13069498 Score: 114
Period size: 36 Copynumber: 2.0 Consensus size: 37
13069415 ATTGGACGTG
*
13069425 CATTATGCTTTGGTTCGTAGGGTCATTCCCCCATTTC
1 CATTATGCTTTGGTTCGTAGGGTCATTCCCACATTTC
* *
13069462 CATTATGTTTTGGTTCGT-GGGTCATTCCCACGTTTC
1 CATTATGCTTTGGTTCGTAGGGTCATTCCCACATTTC
13069498 C
1 C
13069499 CTCCACTTTC
Statistics
Matches: 34, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
36 17 0.50
37 17 0.50
ACGTcount: A:0.12, C:0.26, G:0.20, T:0.42
Consensus pattern (37 bp):
CATTATGCTTTGGTTCGTAGGGTCATTCCCACATTTC
Found at i:13071255 original size:18 final size:17
Alignment explanation
Indices: 13071224--13071267 Score: 52
Period size: 18 Copynumber: 2.5 Consensus size: 17
13071214 ATTCATGTGT
* *
13071224 ATTTTATATTATTTTATA
1 ATTTTTTATAATTTTA-A
13071242 ATTTTTTATAATTTTAA
1 ATTTTTTATAATTTTAA
*
13071259 ATTATTTAT
1 ATTTTTTAT
13071268 TAACGTAACA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
17 9 0.39
18 14 0.61
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (17 bp):
ATTTTTTATAATTTTAA
Found at i:13071266 original size:17 final size:18
Alignment explanation
Indices: 13071234--13071267 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
13071224 ATTTTATATT
*
13071234 ATTTTATAATTTTTTATA
1 ATTTTATAATTATTTATA
13071252 ATTTTA-AATTATTTAT
1 ATTTTATAATTATTTAT
13071268 TAACGTAACA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 9 0.60
18 6 0.40
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (18 bp):
ATTTTATAATTATTTATA
Found at i:13084508 original size:19 final size:20
Alignment explanation
Indices: 13084462--13084508 Score: 53
Period size: 19 Copynumber: 2.4 Consensus size: 20
13084452 ATATGTCACA
*
13084462 TCAATAAATAATTTTAAAAAT
1 TCAA-AAATAATTATAAAAAT
13084483 T-ATAAAAT-ATTATAAAAAT
1 TCA-AAAATAATTATAAAAAT
13084502 TCAAAAA
1 TCAAAAA
13084509 ACCCGCAAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 6
0.77 0.03 0.20
Matches are distributed among these distances:
19 15 0.65
20 6 0.26
21 2 0.09
ACGTcount: A:0.62, C:0.04, G:0.00, T:0.34
Consensus pattern (20 bp):
TCAAAAATAATTATAAAAAT
Found at i:13091718 original size:24 final size:21
Alignment explanation
Indices: 13091691--13091747 Score: 60
Period size: 25 Copynumber: 2.5 Consensus size: 21
13091681 GCCTTAATTT
* *
13091691 ATTTATTTTTACTTTATCATATC
1 ATTTATTTTAACTCTA-CAT-TC
13091714 GATTTAATTTTAACTCTACATTC
1 -ATTT-ATTTTAACTCTACATTC
13091737 ATTTATTTTAA
1 ATTTATTTTAA
13091748 AAATTAAATC
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
21 7 0.23
22 4 0.13
23 2 0.07
24 7 0.23
25 10 0.33
ACGTcount: A:0.30, C:0.12, G:0.02, T:0.56
Consensus pattern (21 bp):
ATTTATTTTAACTCTACATTC
Found at i:13093801 original size:27 final size:28
Alignment explanation
Indices: 13093751--13093812 Score: 72
Period size: 28 Copynumber: 2.2 Consensus size: 28
13093741 CACGTTTATA
*
13093751 TTTAAAATTTTAAAATATTAAGTTCACT
1 TTTAAAATTTAAAAATATTAAGTTCACT
* * *
13093779 TTTATAATTTAAAAATGTT-AGTTCAAT
1 TTTAAAATTTAAAAATATTAAGTTCACT
13093806 TATTAAA
1 T-TTAAA
13093813 CTTTTTTTAT
Statistics
Matches: 28, Mismatches: 5, Indels: 2
0.80 0.14 0.06
Matches are distributed among these distances:
27 8 0.29
28 20 0.71
ACGTcount: A:0.44, C:0.05, G:0.05, T:0.47
Consensus pattern (28 bp):
TTTAAAATTTAAAAATATTAAGTTCACT
Found at i:13098510 original size:29 final size:26
Alignment explanation
Indices: 13098432--13098581 Score: 104
Period size: 29 Copynumber: 5.2 Consensus size: 26
13098422 AATTGAATCT
13098432 AAAAAAAGGTTTAGGTACCAAATTAGG
1 AAAAAAA-GTTTAGGTACCAAATTAGG
*
13098459 AAAAATGCCAAGTTCAGGTACCAAATTAGG
1 AAAAA----AAGTTTAGGTACCAAATTAGG
13098489 TCCAAAAAAAGTTTAGGTACCAAATTAGG
1 ---AAAAAAAGTTTAGGTACCAAATTAGG
* *
13098518 AAAAAATATCAAGTTCAGGTACCAAATTGAGTA
1 --AAAA-A--AAGTTTAGGTACCAAATT-AG-G
**
13098551 AAAAAAATGTTTAAATACCAAATTA-G
1 AAAAAAA-GTTTAGGTACCAAATTAGG
13098577 AAAAA
1 AAAAA
13098582 CGAGTCAAGT
Statistics
Matches: 100, Mismatches: 10, Indels: 27
0.73 0.07 0.20
Matches are distributed among these distances:
26 5 0.05
27 5 0.05
28 7 0.07
29 34 0.34
30 19 0.19
31 23 0.23
32 2 0.02
33 5 0.05
ACGTcount: A:0.50, C:0.11, G:0.16, T:0.23
Consensus pattern (26 bp):
AAAAAAAGTTTAGGTACCAAATTAGG
Found at i:13098523 original size:60 final size:60
Alignment explanation
Indices: 13098414--13098604 Score: 212
Period size: 60 Copynumber: 3.2 Consensus size: 60
13098404 TAATAAATTT
* * * *
13098414 AGGTATCAAATTGAATCTAAAAAAAGGTTTAGGTACCAAATTAGG-AAAAATGCCAAGTTC
1 AGGTACCAAATTGAGT-AAAAAAAAGGTTTAGGTACCAAATTAGGAAAAAATGTCAAGTTC
* *
13098474 AGGTACCAAATT-AGGTCCAAAAAAA-GTTTAGGTACCAAATTAGGAAAAAATATCAAGTTC
1 AGGTACCAAATTGA-GT-AAAAAAAAGGTTTAGGTACCAAATTAGGAAAAAATGTCAAGTTC
* **
13098534 AGGTACCAAATTGAGTAAAAAAAATGTTTAAATACCAAATTA-GAAAAACGA-GTCAAGTTC
1 AGGTACCAAATTGAGTAAAAAAAAGGTTTAGGTACCAAATTAGGAAAAA--ATGTCAAGTTC
*
13098594 AAGTACCAAAT
1 AGGTACCAAAT
13098605 GTTATATTAA
Statistics
Matches: 115, Mismatches: 10, Indels: 12
0.84 0.07 0.09
Matches are distributed among these distances:
59 33 0.29
60 80 0.70
61 2 0.02
ACGTcount: A:0.48, C:0.13, G:0.16, T:0.24
Consensus pattern (60 bp):
AGGTACCAAATTGAGTAAAAAAAAGGTTTAGGTACCAAATTAGGAAAAAATGTCAAGTTC
Found at i:13100174 original size:20 final size:20
Alignment explanation
Indices: 13100125--13100184 Score: 66
Period size: 20 Copynumber: 3.0 Consensus size: 20
13100115 AAAAAATACA
* *
13100125 AAAAAAATCAAAATATTTTT
1 AAAAAATTCAAAATATTTAT
*
13100145 AAAAAATTCAACATATTTAT
1 AAAAAATTCAAAATATTTAT
** *
13100165 AAAAGTTTCAAAATTTTTAT
1 AAAAAATTCAAAATATTTAT
13100185 TTTAAAGAAT
Statistics
Matches: 33, Mismatches: 7, Indels: 0
0.82 0.17 0.00
Matches are distributed among these distances:
20 33 1.00
ACGTcount: A:0.53, C:0.07, G:0.02, T:0.38
Consensus pattern (20 bp):
AAAAAATTCAAAATATTTAT
Found at i:13105384 original size:24 final size:24
Alignment explanation
Indices: 13105334--13105385 Score: 59
Period size: 24 Copynumber: 2.2 Consensus size: 24
13105324 TTAAAATAAA
***
13105334 ATAAAATAATAATTTAATTTGTAT
1 ATAAAATAATAATTTAATAAATAT
* *
13105358 ATAAAATAATATTTTAATAAATTT
1 ATAAAATAATAATTTAATAAATAT
13105382 ATAA
1 ATAA
13105386 TTGAGTTGAT
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.54, C:0.00, G:0.02, T:0.44
Consensus pattern (24 bp):
ATAAAATAATAATTTAATAAATAT
Found at i:13108030 original size:35 final size:34
Alignment explanation
Indices: 13107989--13108054 Score: 89
Period size: 35 Copynumber: 1.9 Consensus size: 34
13107979 ATAGAAAAAT
*
13107989 TTCA-TTTAGGCCCTTAAAAATGTTAAAATTTTAAA
1 TTCATTTTAGGCCC-TAAAAAT-ATAAAATTTTAAA
*
13108024 TTCATTTTGGGCCCTAAAAATATAAAATTTT
1 TTCATTTTAGGCCCTAAAAATATAAAATTTT
13108055 GATTTAATCC
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
34 9 0.32
35 11 0.39
36 8 0.29
ACGTcount: A:0.38, C:0.12, G:0.09, T:0.41
Consensus pattern (34 bp):
TTCATTTTAGGCCCTAAAAATATAAAATTTTAAA
Found at i:13109543 original size:16 final size:16
Alignment explanation
Indices: 13109524--13109564 Score: 50
Period size: 16 Copynumber: 2.6 Consensus size: 16
13109514 TAATTATAAG
13109524 TTTATAAAAT-TTATAT
1 TTTATAAAATATTA-AT
13109540 TTTA-AAAATATTAAT
1 TTTATAAAATATTAAT
13109555 TATTATAAAA
1 T-TTATAAAA
13109565 AATATTAGTA
Statistics
Matches: 22, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
15 8 0.36
16 10 0.45
17 4 0.18
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (16 bp):
TTTATAAAATATTAAT
Found at i:13109563 original size:18 final size:17
Alignment explanation
Indices: 13109525--13109585 Score: 56
Period size: 18 Copynumber: 3.6 Consensus size: 17
13109515 AATTATAAGT
13109525 TTAT-AAAAT-TTA-TA
1 TTATAAAAATATTAGTA
* *
13109539 TTTTAAAAATATTAATTA
1 TTATAAAAATATT-AGTA
13109557 TTATAAAAAATATTAGTA
1 TTAT-AAAAATATTAGTA
*
13109575 TGATAAAAATA
1 TTATAAAAATA
13109586 ATTTCTAAAC
Statistics
Matches: 38, Mismatches: 4, Indels: 7
0.78 0.08 0.14
Matches are distributed among these distances:
14 3 0.08
15 5 0.13
16 2 0.05
17 8 0.21
18 11 0.29
19 9 0.24
ACGTcount: A:0.54, C:0.00, G:0.03, T:0.43
Consensus pattern (17 bp):
TTATAAAAATATTAGTA
Found at i:13109583 original size:19 final size:19
Alignment explanation
Indices: 13109543--13109583 Score: 57
Period size: 18 Copynumber: 2.2 Consensus size: 19
13109533 TTTATATTTT
* *
13109543 AAAAATATTAATTATTATA
1 AAAAATATTAAGTATGATA
13109562 AAAAATATT-AGTATGATA
1 AAAAATATTAAGTATGATA
13109580 AAAA
1 AAAA
13109584 TAATTTCTAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
18 11 0.55
19 9 0.45
ACGTcount: A:0.61, C:0.00, G:0.05, T:0.34
Consensus pattern (19 bp):
AAAAATATTAAGTATGATA
Found at i:13122238 original size:6 final size:6
Alignment explanation
Indices: 13122200--13122226 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
13122190 CTTTTAGTTT
13122200 ATTATA ATTATA ATTATA ATTATA ATT
1 ATTATA ATTATA ATTATA ATTATA ATT
13122227 TGATATTTAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (6 bp):
ATTATA
Found at i:13128488 original size:2 final size:2
Alignment explanation
Indices: 13128468--13128504 Score: 51
Period size: 2 Copynumber: 19.5 Consensus size: 2
13128458 ATTTTCAATG
*
13128468 TA TA T- TA TC TA TA -A TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
13128505 GAGAGCACGA
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
1 2 0.06
2 29 0.94
ACGTcount: A:0.46, C:0.03, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:13128911 original size:17 final size:17
Alignment explanation
Indices: 13128889--13128996 Score: 146
Period size: 17 Copynumber: 6.3 Consensus size: 17
13128879 ACTTTTTTAA
13128889 AAATTTATTTTAAGA-TT
1 AAATTTATTTTAA-ATTT
13128906 AAATTTATTTTAAATTT
1 AAATTTATTTTAAATTT
*
13128923 AAATTTGTTTTAAATTT
1 AAATTTATTTTAAATTT
* *
13128940 AAATTTAATTTAAGTTT
1 AAATTTATTTTAAATTT
13128957 AAATTTATTTTTAAATTT
1 AAATTTA-TTTTAAATTT
* *
13128975 AAAATTATTCTAAATTT
1 AAATTTATTTTAAATTT
13128992 AAATT
1 AAATT
13128997 AATAAAAGTT
Statistics
Matches: 80, Mismatches: 9, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
16 1 0.01
17 65 0.81
18 14 0.17
ACGTcount: A:0.42, C:0.01, G:0.03, T:0.55
Consensus pattern (17 bp):
AAATTTATTTTAAATTT
Found at i:13128920 original size:11 final size:11
Alignment explanation
Indices: 13128920--13128975 Score: 51
Period size: 11 Copynumber: 4.9 Consensus size: 11
13128910 TTATTTTAAA
*
13128920 TTTAAATTTGT
1 TTTAAATTTAT
*
13128931 TTTAAATTTAAA
1 TTTAAATTT-AT
*
13128943 TTT-AATTTAAG
1 TTTAAATTT-AT
13128954 TTTAAATTTATT
1 TTTAAATTTA-T
13128966 TTTAAATTTA
1 TTTAAATTTA
13128976 AAATTATTCT
Statistics
Matches: 38, Mismatches: 4, Indels: 5
0.81 0.09 0.11
Matches are distributed among these distances:
11 20 0.53
12 18 0.47
ACGTcount: A:0.38, C:0.00, G:0.04, T:0.59
Consensus pattern (11 bp):
TTTAAATTTAT
Found at i:13128923 original size:6 final size:6
Alignment explanation
Indices: 13128904--13128996 Score: 79
Period size: 6 Copynumber: 16.2 Consensus size: 6
13128894 TATTTTAAGA
* **
13128904 TTAAAT TT-ATT TTAAAT TTAAAT TT-GTT TTAAAT TTAAAT TT-AAT
1 TTAAAT TTAAAT TTAAAT TTAAAT TTAAAT TTAAAT TTAAAT TTAAAT
* ** *
13128949 TTAAGT TTAAAT TTATTT TTAAAT TTAAAA TT--AT TCTAAAT TTAAAT
1 TTAAAT TTAAAT TTAAAT TTAAAT TTAAAT TTAAAT T-TAAAT TTAAAT
13128996 T
1 T
13128997 AATAAAAGTT
Statistics
Matches: 67, Mismatches: 14, Indels: 12
0.72 0.15 0.13
Matches are distributed among these distances:
4 2 0.03
5 13 0.19
6 49 0.73
7 3 0.04
ACGTcount: A:0.41, C:0.01, G:0.02, T:0.56
Consensus pattern (6 bp):
TTAAAT
Found at i:13128940 original size:23 final size:23
Alignment explanation
Indices: 13128914--13128975 Score: 74
Period size: 23 Copynumber: 2.7 Consensus size: 23
13128904 TTAAATTTAT
13128914 TTTAAATTTAAATTT-GTTTTAAA
1 TTTAAATTTAAATTTAG-TTTAAA
13128937 TTTAAATTT-AATTTAAGTTTAAA
1 TTTAAATTTAAATTT-AGTTTAAA
**
13128960 TTTATTTTTAAATTTA
1 TTTAAATTTAAATTTA
13128976 AAATTATTCT
Statistics
Matches: 34, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
22 5 0.15
23 23 0.68
24 6 0.18
ACGTcount: A:0.39, C:0.00, G:0.03, T:0.58
Consensus pattern (23 bp):
TTTAAATTTAAATTTAGTTTAAA
Found at i:13128999 original size:51 final size:51
Alignment explanation
Indices: 13128889--13129010 Score: 165
Period size: 51 Copynumber: 2.4 Consensus size: 51
13128879 ACTTTTTTAA
* * * * *
13128889 AAATTTATTTTAAGATTAAATTTATTTTAAATTTAAATTTGTTTTAAATTT
1 AAATTTAATTTAAGTTTAAATTTATTTTAAATTTAAAATTATTCTAAATTT
13128940 AAATTTAATTTAAGTTTAAATTTATTTTTAAATTTAAAATTATTCTAAATTT
1 AAATTTAATTTAAGTTTAAATTTA-TTTTAAATTTAAAATTATTCTAAATTT
**
13128992 AAA-TTAATAAAAGTTTAAA
1 AAATTTAATTTAAGTTTAAA
13129011 ATTACAAGCC
Statistics
Matches: 63, Mismatches: 7, Indels: 2
0.88 0.10 0.03
Matches are distributed among these distances:
51 36 0.57
52 27 0.43
ACGTcount: A:0.44, C:0.01, G:0.03, T:0.52
Consensus pattern (51 bp):
AAATTTAATTTAAGTTTAAATTTATTTTAAATTTAAAATTATTCTAAATTT
Done.