Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D04
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: 56598092
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1600000 characters in sequence are not A, C, G, or T
File 123 of 185
Found at i:38461998 original size:25 final size:25
Alignment explanation
Indices: 38461970--38462025 Score: 80
Period size: 25 Copynumber: 2.2 Consensus size: 25
38461960 TAGCTCATGA
38461970 GAGCATACTGA-TCTACAACTCG-AGT
1 GAGCATACTGATTC-ACAACTCGTA-T
38461995 GAGCATACTGATTCACAACTCGTAT
1 GAGCATACTGATTCACAACTCGTAT
38462020 GAGCAT
1 GAGCAT
38462026 TCATGTATAG
Statistics
Matches: 29, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
25 26 0.90
26 3 0.10
ACGTcount: A:0.32, C:0.23, G:0.20, T:0.25
Consensus pattern (25 bp):
GAGCATACTGATTCACAACTCGTAT
Found at i:38464384 original size:534 final size:534
Alignment explanation
Indices: 38463376--38464440 Score: 1697
Period size: 534 Copynumber: 2.0 Consensus size: 534
38463366 TATAATAGAT
*
38463376 AGATGTGAGTCTGTCAAATATCGATCCCACAAGCATGGTTGTCTTTTGTCTACTAATGTCGGTGA
1 AGATGTGAGTCTATCAAATATCGATCCCACAAGCATGGTTGTCTTTTGTCTACTAATGTCGGTGA
*
38463441 TATAACTAGATAGAAATAAGATAAATTGTGAGTATAGTTGTCGAAACAATAACTTGAAAATAATA
66 TATAACTAGATAGAAACAAGATAAATTGTGAGTATAGTTGTCGAAACAATAACTTGAAAATAATA
* *
38463506 AGATAAAGTATGTTATGGATAAATTGGGATCCCCAACATGAATCTTCAACAGTATACTAAGTACT
131 AGATAAAGTATGCTATGGATAAATTGGGATCCCCAACATGAATCTTCAACAATATACTAAGTACT
**
38463571 CACAAGGTATAAAAGATAGGTGATTGTCGGCGCAATAAAATTTAATGTATATCTTACCAAATGCC
196 CACAAGGTATAAAAGATAGGTGATTGTCGAAGCAATAAAATTTAATGTATATCTTACCAAATGCC
* * * *
38463636 ACTCTTTTGTTTAATCTGGGACTTAACCATGCATATTAACCTTACCTTCGGATGATGGCAATATG
261 ACTCTTTTATTTAATCTGGGACTTAACCATGCACACTAACCTTACCTTCGGATGATGGAAATATG
* * *
38463701 ACACTATTAAGAACAAGTGGACTAAATTCCTGTAGTCCTTACTTAACTTCTACCGAAATTCTTAT
326 ACACTATTAAGAACAAGTGGACTAAATTCCTGTAGTCCTTACTCAACTTCCACCGAAATGCTTAT
* *
38463766 TAGATCAAACTGTCACTGCACCTTCTAGTGTTAGTGACTACAATAACACTTCCGTGTTTAGAAGA
391 TAGATCAAACTGTCACTGCACCTTCCAGTGTTAGTGACTACAATAACACTTCCGTGTTTAGAACA
* *
38463831 TTCAAACCACCAAGATTAAACAATAAAAATAAGATTTTAGAAGATAACATTTAACAGAGCATTCA
456 TTCAAACCACCAAGATTAAACAATAAAAATAAGATTTAAGAAGATAACATTTAACAAAGCATTCA
38463896 TTATACTTCCAAAC
521 TTATACTTCCAAAC
* * * * * * * * *
38463910 AGATGTGAGTCTATTAGATATCGATCCTATAGGGATGGTTGTCTTTTTTCTATTAATGTTGGTGC
1 AGATGTGAGTCTATCAAATATCGATCCCACAAGCATGGTTGTCTTTTGTCTACTAATGTCGGTG-
* *
38463975 A-ATAACTAGATAGAAACAAGATAAATTTTGAGTATAGTTGTCGAAGA-AATAACTTGACAATAA
65 ATATAACTAGATAGAAACAAGATAAATTGTGAGTATAGTTGTCGAA-ACAATAACTTGAAAATAA
38464038 TAAGATAAAGTATGCTATGGATAAATTGGGATCCCCAACATGAATCTT-AAGCAATATACTAAGT
129 TAAGATAAAGTATGCTATGGATAAATTGGGATCCCCAACATGAATCTTCAA-CAATATACTAAGT
*
38464102 ACTCACAAGGTATAAAAGATAGGTGATTGTCGAAGTAATAAAATTTAATGTATATCTTACCAAAT
193 ACTCACAAGGTATAAAAGATAGGTGATTGTCGAAGCAATAAAATTTAATGTATATCTTACCAAAT
* *
38464167 TCCACTCTTTTATTTAATCTGGGACTTAGCCATGCACACTAACCTTACCTTTC-GATGATGGAAA
258 GCCACTCTTTTATTTAATCTGGGACTTAACCATGCACACTAACCTTACC-TTCGGATGATGGAAA
* * * *
38464231 TGTGACACTATTAAGAAGAAGTGGACTAAATTCCTTTAGTCCTTACTCAACTTCCACTGAAATGC
322 TATGACACTATTAAGAACAAGTGGACTAAATTCCTGTAGTCCTTACTCAACTTCCACCGAAATGC
* *
38464296 TTATTAGCTCAAACTGTCACTGCACCTTCCAGTGTTAGTGACTGCAATAACACTTCCGTGTTTAG
387 TTATTAGATCAAACTGTCACTGCACCTTCCAGTGTTAGTGACTACAATAACACTTCCGTGTTTAG
* * *
38464361 AACATTCGAACCCCCAAGATTAAACAATAAAAATAAGATTTAATAAGATAACATTTAACAAAGCA
452 AACATTCAAACCACCAAGATTAAACAATAAAAATAAGATTTAAGAAGATAACATTTAACAAAGCA
*
38464426 TTCATTGTACTTCCA
517 TTCATTATACTTCCA
38464441 TATAGTAGAA
Statistics
Matches: 486, Mismatches: 41, Indels: 8
0.91 0.08 0.01
Matches are distributed among these distances:
533 2 0.00
534 479 0.99
535 5 0.01
ACGTcount: A:0.36, C:0.17, G:0.16, T:0.31
Consensus pattern (534 bp):
AGATGTGAGTCTATCAAATATCGATCCCACAAGCATGGTTGTCTTTTGTCTACTAATGTCGGTGA
TATAACTAGATAGAAACAAGATAAATTGTGAGTATAGTTGTCGAAACAATAACTTGAAAATAATA
AGATAAAGTATGCTATGGATAAATTGGGATCCCCAACATGAATCTTCAACAATATACTAAGTACT
CACAAGGTATAAAAGATAGGTGATTGTCGAAGCAATAAAATTTAATGTATATCTTACCAAATGCC
ACTCTTTTATTTAATCTGGGACTTAACCATGCACACTAACCTTACCTTCGGATGATGGAAATATG
ACACTATTAAGAACAAGTGGACTAAATTCCTGTAGTCCTTACTCAACTTCCACCGAAATGCTTAT
TAGATCAAACTGTCACTGCACCTTCCAGTGTTAGTGACTACAATAACACTTCCGTGTTTAGAACA
TTCAAACCACCAAGATTAAACAATAAAAATAAGATTTAAGAAGATAACATTTAACAAAGCATTCA
TTATACTTCCAAAC
Found at i:38482030 original size:7 final size:8
Alignment explanation
Indices: 38482016--38482044 Score: 58
Period size: 8 Copynumber: 3.6 Consensus size: 8
38482006 TTTATTTGTA
38482016 CTTTTTTT
1 CTTTTTTT
38482024 CTTTTTTT
1 CTTTTTTT
38482032 CTTTTTTT
1 CTTTTTTT
38482040 CTTTT
1 CTTTT
38482045 ATAACATTAG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 21 1.00
ACGTcount: A:0.00, C:0.14, G:0.00, T:0.86
Consensus pattern (8 bp):
CTTTTTTT
Found at i:38494213 original size:43 final size:44
Alignment explanation
Indices: 38494151--38494237 Score: 122
Period size: 43 Copynumber: 2.0 Consensus size: 44
38494141 TTATATGAAA
* * *
38494151 TCATATACGATGTCAATGTCGCAAACATGGTCTTACACGTAATC
1 TCATATACGATGCCAATGTCGCAAACACGGTCTTACACGAAATC
* *
38494195 TCATAT-CGATGCCAATGTCTCAGACACGGTCTTACACGAAATC
1 TCATATACGATGCCAATGTCGCAAACACGGTCTTACACGAAATC
38494238 ACACCTCGGG
Statistics
Matches: 38, Mismatches: 5, Indels: 1
0.86 0.11 0.02
Matches are distributed among these distances:
43 32 0.84
44 6 0.16
ACGTcount: A:0.31, C:0.25, G:0.16, T:0.28
Consensus pattern (44 bp):
TCATATACGATGCCAATGTCGCAAACACGGTCTTACACGAAATC
Found at i:38496467 original size:40 final size:40
Alignment explanation
Indices: 38496423--38496686 Score: 361
Period size: 40 Copynumber: 6.6 Consensus size: 40
38496413 TCCTCGTTCA
* * *
38496423 AATGCCTTCGGGACATAGCCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
*
38496463 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
38496503 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
38496543 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* * *
38496583 AATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* * * * * *
38496623 AAGGCCTTC-GGATCTTAATCCGGATATATTCACTTAGCAC-
1 AATGCCTTCGGGA-CTTAACCCGGATTTAATAAC-TCGCACG
* *
38496663 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
38496687 CAGCATTCAA
Statistics
Matches: 205, Mismatches: 16, Indels: 6
0.90 0.07 0.03
Matches are distributed among these distances:
39 3 0.01
40 194 0.95
41 8 0.04
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
Found at i:38504412 original size:40 final size:40
Alignment explanation
Indices: 38504364--38504624 Score: 334
Period size: 40 Copynumber: 6.6 Consensus size: 40
38504354 TCCTCGTTCA
* * *
38504364 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACG
**
38504404 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACG
38504444 AATGCCTTCGGGACTTAACCCGGATTTAGT-ACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACG
38504483 AATGCCTTCGGGACTTAACCCGGATTTA-TAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACG
* *
38504522 AATGCCTTCGGG-CTTAACCCGGATTTAGTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACG
* * * * * *
38504561 AAGGCCTTC-GGATCTTAATCCGGATATATTCACTTAGCAC-
1 AATGCCTTCGGGA-CTTAACCCGGATTTAGTAAC-TCGCACG
* *
38504601 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
38504625 CAGCATTCAA
Statistics
Matches: 196, Mismatches: 19, Indels: 12
0.86 0.08 0.05
Matches are distributed among these distances:
38 18 0.09
39 75 0.38
40 95 0.48
41 8 0.04
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACG
Found at i:38504489 original size:39 final size:39
Alignment explanation
Indices: 38504329--38504624 Score: 314
Period size: 40 Copynumber: 7.5 Consensus size: 39
38504319 AAATCACGTA
* * * ** *
38504329 CCTTCGGGATTTAA-CCGGATATAGCTCCTCGTTCAAATG
1 CCTTCGGGACTTAACCCGGATTTAG-TACTCGCACGAATG
* * *
38504368 CCTTCGGGACATAGCCCGGTTTTAGTAACTCGCACGAATG
1 CCTTCGGGACTTAACCCGGATTTAGT-ACTCGCACGAATG
**
38504408 CCTTCGGGACTTAACCCGGATTTAACAACTCGCACGAATG
1 CCTTCGGGACTTAACCCGGATTT-AGTACTCGCACGAATG
38504448 CCTTCGGGACTTAACCCGGATTTAGTACTCGCACGAATG
1 CCTTCGGGACTTAACCCGGATTTAGTACTCGCACGAATG
38504487 CCTTCGGGACTTAACCCGGATTTA-TAACTCGCACGAATG
1 CCTTCGGGACTTAACCCGGATTTAGT-ACTCGCACGAATG
* *
38504526 CCTTCGGG-CTTAACCCGGATTTAGTATCTCGCACAAAGG
1 CCTTCGGGACTTAACCCGGATTTAGTA-CTCGCACGAATG
* * * * *
38504565 CCTTC-GGATCTTAATCCGGATATATTCACTTAGCAC-AAAG
1 CCTTCGGGA-CTTAACCCGGATTTAGT-AC-TCGCACGAATG
*
38504605 CCTTCGGGACTTAGCCCGGA
1 CCTTCGGGACTTAACCCGGA
38504625 CAGCATTCAA
Statistics
Matches: 221, Mismatches: 25, Indels: 21
0.83 0.09 0.08
Matches are distributed among these distances:
38 19 0.09
39 87 0.39
40 105 0.48
41 10 0.05
ACGTcount: A:0.24, C:0.28, G:0.22, T:0.26
Consensus pattern (39 bp):
CCTTCGGGACTTAACCCGGATTTAGTACTCGCACGAATG
Found at i:38504568 original size:78 final size:79
Alignment explanation
Indices: 38504364--38504624 Score: 334
Period size: 78 Copynumber: 3.3 Consensus size: 79
38504354 TCCTCGTTCA
* * *
38504364 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCGCACGAATGCCTTCGGGACTTAACCCGGAT
1 AATGCCTTCGGGACTTAACCCGGATTTAGT-ACTCGCACGAATGCCTTCGGGACTTAACCCGGAT
38504429 TTAACAACTCGCACG
65 TTAACAACTCGCACG
38504444 AATGCCTTCGGGACTTAACCCGGATTTAGTACTCGCACGAATGCCTTCGGGACTTAACCCGGATT
1 AATGCCTTCGGGACTTAACCCGGATTTAGTACTCGCACGAATGCCTTCGGGACTTAACCCGGATT
*
38504509 T-ATAACTCGCACG
66 TAACAACTCGCACG
* * *
38504522 AATGCCTTCGGG-CTTAACCCGGATTTAGTATCTCGCACAAAGGCCTTC-GGATCTTAATCCGGA
1 AATGCCTTCGGGACTTAACCCGGATTTAGTA-CTCGCACGAATGCCTTCGGGA-CTTAACCCGGA
* * *
38504585 TATATTC-ACTTAGCAC-
64 TTTA-ACAAC-TCGCACG
* *
38504601 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
38504625 CAGCATTCAA
Statistics
Matches: 162, Mismatches: 13, Indels: 12
0.87 0.07 0.06
Matches are distributed among these distances:
77 21 0.13
78 50 0.31
79 49 0.30
80 42 0.26
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (79 bp):
AATGCCTTCGGGACTTAACCCGGATTTAGTACTCGCACGAATGCCTTCGGGACTTAACCCGGATT
TAACAACTCGCACG
Found at i:38510241 original size:40 final size:40
Alignment explanation
Indices: 38510197--38510422 Score: 298
Period size: 40 Copynumber: 5.7 Consensus size: 40
38510187 GCTACTCATT
* *
38510197 CAAATGTCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCA
*
38510237 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
*
38510277 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
*
38510317 CAAATGCCTTC-GGATCTTAGTCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAACTCGCA
* * * * *
38510357 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAAC-TCGCA
38510398 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
38510423 CATCATTCAA
Statistics
Matches: 172, Mismatches: 10, Indels: 8
0.91 0.05 0.04
Matches are distributed among these distances:
39 3 0.02
40 156 0.91
41 13 0.08
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.26
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
Found at i:38515855 original size:21 final size:21
Alignment explanation
Indices: 38515830--38515876 Score: 76
Period size: 21 Copynumber: 2.2 Consensus size: 21
38515820 ACAGATCATT
38515830 TAACAGGAATTTCGCTTCACA
1 TAACAGGAATTTCGCTTCACA
**
38515851 TAACATTAATTTCGCTTCACA
1 TAACAGGAATTTCGCTTCACA
38515872 TAACA
1 TAACA
38515877 TTCATACATG
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.36, C:0.23, G:0.09, T:0.32
Consensus pattern (21 bp):
TAACAGGAATTTCGCTTCACA
Found at i:38515877 original size:21 final size:21
Alignment explanation
Indices: 38515837--38515878 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
38515827 ATTTAACAGG
38515837 AATTTCGCTTCACATAACATT
1 AATTTCGCTTCACATAACATT
38515858 AATTTCGCTTCACATAACATT
1 AATTTCGCTTCACATAACATT
38515879 CATACATGTA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.33, C:0.24, G:0.05, T:0.38
Consensus pattern (21 bp):
AATTTCGCTTCACATAACATT
Found at i:38516955 original size:34 final size:34
Alignment explanation
Indices: 38516912--38516985 Score: 114
Period size: 34 Copynumber: 2.2 Consensus size: 34
38516902 AGTGCCACGA
38516912 TTCACAACTCAGTATGGAAACACCATACCTA-TGT
1 TTCACAACTCAGTATGGAAACACCATACCTACT-T
* *
38516946 TTCACAACTCGGTATGGAAATACCATACCTACTT
1 TTCACAACTCAGTATGGAAACACCATACCTACTT
38516980 TTCACA
1 TTCACA
38516986 CTTTGCCATG
Statistics
Matches: 37, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
34 36 0.97
35 1 0.03
ACGTcount: A:0.34, C:0.27, G:0.11, T:0.28
Consensus pattern (34 bp):
TTCACAACTCAGTATGGAAACACCATACCTACTT
Found at i:38517070 original size:27 final size:27
Alignment explanation
Indices: 38517040--38517104 Score: 103
Period size: 27 Copynumber: 2.4 Consensus size: 27
38517030 GATCACTGAA
* *
38517040 CACTTTGCTATGTTTGGCACACTATAT
1 CACTTTGCCATGATTGGCACACTATAT
*
38517067 CACTTTGCCATGATTGGCACACTTTAT
1 CACTTTGCCATGATTGGCACACTATAT
38517094 CACTTTGCCAT
1 CACTTTGCCAT
38517105 AGTTCAACTA
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 35 1.00
ACGTcount: A:0.22, C:0.26, G:0.14, T:0.38
Consensus pattern (27 bp):
CACTTTGCCATGATTGGCACACTATAT
Found at i:38517236 original size:31 final size:31
Alignment explanation
Indices: 38517201--38517317 Score: 180
Period size: 31 Copynumber: 3.8 Consensus size: 31
38517191 CTTGTCACTT
* * *
38517201 GTAGCTGAAGCTACCACTATTCACTGATCAG
1 GTAGCCGAAGCTACCACTTTTCACTGATTAG
* * *
38517232 GTAGCTGGAGCTACCACTTTTCACTAATTAG
1 GTAGCCGAAGCTACCACTTTTCACTGATTAG
38517263 GTAGCCGAAGCTACCACTTTTCACTGATTAG
1 GTAGCCGAAGCTACCACTTTTCACTGATTAG
38517294 GTAGCCGAAGCTACCACTTTTCAC
1 GTAGCCGAAGCTACCACTTTTCAC
38517318 ATTGTACACA
Statistics
Matches: 79, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
31 79 1.00
ACGTcount: A:0.26, C:0.26, G:0.19, T:0.28
Consensus pattern (31 bp):
GTAGCCGAAGCTACCACTTTTCACTGATTAG
Found at i:38517393 original size:33 final size:32
Alignment explanation
Indices: 38517310--38517422 Score: 138
Period size: 33 Copynumber: 3.4 Consensus size: 32
38517300 GAAGCTACCA
* * *
38517310 CTTTTCACATTGTACACACAAGGCGTACATTTC
1 CTTTTCA-AGTGTACACACAAAGTGTACATTTC
38517343 CTTTTCAAGTGTACACACAAAGTGTACATTTC
1 CTTTTCAAGTGTACACACAAAGTGTACATTTC
*
38517375 CTTTTTAAGGTGTACACACACAA-TGTACATTTC
1 CTTTTCAA-GTGTACACACA-AAGTGTACATTTC
*
38517408 CTTTTCTAGTTGTAC
1 CTTTTCAAG-TGTAC
38517423 CTTTTAGGCA
Statistics
Matches: 71, Mismatches: 6, Indels: 6
0.86 0.07 0.07
Matches are distributed among these distances:
32 30 0.42
33 39 0.55
34 2 0.03
ACGTcount: A:0.27, C:0.23, G:0.12, T:0.37
Consensus pattern (32 bp):
CTTTTCAAGTGTACACACAAAGTGTACATTTC
Found at i:38543431 original size:18 final size:19
Alignment explanation
Indices: 38543398--38543435 Score: 60
Period size: 18 Copynumber: 2.1 Consensus size: 19
38543388 AGACTCCAGG
*
38543398 TCTGATTCTTTTCAATCAT
1 TCTGATTCTCTTCAATCAT
38543417 TCTGATT-TCTTCAATCAT
1 TCTGATTCTCTTCAATCAT
38543435 T
1 T
38543436 GCTTGCTTCC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 11 0.61
19 7 0.39
ACGTcount: A:0.21, C:0.21, G:0.05, T:0.53
Consensus pattern (19 bp):
TCTGATTCTCTTCAATCAT
Found at i:38548789 original size:43 final size:43
Alignment explanation
Indices: 38548728--38548811 Score: 123
Period size: 43 Copynumber: 2.0 Consensus size: 43
38548718 TCTCTTAAAG
* **
38548728 TTAACTCGATTTAAATTCAAAAAGTGTGTTGGCTTGGAGTCAT
1 TTAACTCGATTTAAATTCAAAAAGCGCATTGGCTTGGAGTCAT
* *
38548771 TTAACTTGATTTCAATTCAAAAAGCGCATTGGCTTGGAGTC
1 TTAACTCGATTTAAATTCAAAAAGCGCATTGGCTTGGAGTC
38548812 GTTTTGGGGT
Statistics
Matches: 36, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
43 36 1.00
ACGTcount: A:0.30, C:0.14, G:0.20, T:0.36
Consensus pattern (43 bp):
TTAACTCGATTTAAATTCAAAAAGCGCATTGGCTTGGAGTCAT
Found at i:38563638 original size:41 final size:41
Alignment explanation
Indices: 38563581--38563807 Score: 382
Period size: 41 Copynumber: 5.5 Consensus size: 41
38563571 TTTAACATAT
* * *
38563581 TCACCGGCAATTAGCCTGCTAGGCTTATAGCCTGATTCAGA
1 TCACCGGCACTTAGCCTGCTAGGTTTATAACCTGATTCAGA
*
38563622 TCACCGGCACTTAGCCTGCTAGGTTTATAACTTGATTCAGA
1 TCACCGGCACTTAGCCTGCTAGGTTTATAACCTGATTCAGA
* *
38563663 TCATCGACACTTAGCCTGCTAGGTTTATAACCTGATTCAGA
1 TCACCGGCACTTAGCCTGCTAGGTTTATAACCTGATTCAGA
* *
38563704 TCACTGGCGCTTAGCCTGCTAGGTTTATAACCTGATTCAGA
1 TCACCGGCACTTAGCCTGCTAGGTTTATAACCTGATTCAGA
38563745 TCACCGGCACTTAGCCTGCTAGGTTTATAACCTGATTCAGA
1 TCACCGGCACTTAGCCTGCTAGGTTTATAACCTGATTCAGA
38563786 TCACCGGCACTTAGCCTGCTAG
1 TCACCGGCACTTAGCCTGCTAG
38563808 ACTTAAAGTC
Statistics
Matches: 173, Mismatches: 13, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
41 173 1.00
ACGTcount: A:0.24, C:0.26, G:0.20, T:0.30
Consensus pattern (41 bp):
TCACCGGCACTTAGCCTGCTAGGTTTATAACCTGATTCAGA
Found at i:38563831 original size:82 final size:82
Alignment explanation
Indices: 38563581--38563861 Score: 358
Period size: 82 Copynumber: 3.4 Consensus size: 82
38563571 TTTAACATAT
* * *
38563581 TCACCGGCAATTAGCCTGCTAGGCTTATAGCCTGATTCAGATCACCGGCACTTAGCCTGCTAGGT
1 TCACCGGCACTTAGCCTGCTAGGTTTATAACCTGATTCAGATCACCGGCACTTAGCCTGCTAGGT
*
38563646 TTATAA-CTTGATTCAGA
66 TTATAATC-CGATTCAGA
* * * *
38563663 TCATCGACACTTAGCCTGCTAGGTTTATAACCTGATTCAGATCACTGGCGCTTAGCCTGCTAGGT
1 TCACCGGCACTTAGCCTGCTAGGTTTATAACCTGATTCAGATCACCGGCACTTAGCCTGCTAGGT
38563728 TTATAA-CCTGATTCAGA
66 TTATAATCC-GATTCAGA
**
38563745 TCACCGGCACTTAGCCTGCTAGGTTTATAACCTGATTCAGATCACCGGCACTTAGCCTGCTAGAC
1 TCACCGGCACTTAGCCTGCTAGGTTTATAACCTGATTCAGATCACCGGCACTTAGCCTGCTAGGT
**
38563810 TTA-AAGTCCGAATT-ATT
66 TTATAA-TCCG-ATTCAGA
38563827 TCACCGGC-CTTAAGCCTGCTAGGTTT-TAAACCTGA
1 TCACCGGCACTT-AGCCTGCTAGGTTTAT-AACCTGA
38563862 ACATTTCAAT
Statistics
Matches: 177, Mismatches: 16, Indels: 12
0.86 0.08 0.06
Matches are distributed among these distances:
81 6 0.03
82 166 0.94
83 5 0.03
ACGTcount: A:0.25, C:0.26, G:0.20, T:0.30
Consensus pattern (82 bp):
TCACCGGCACTTAGCCTGCTAGGTTTATAACCTGATTCAGATCACCGGCACTTAGCCTGCTAGGT
TTATAATCCGATTCAGA
Found at i:38563843 original size:123 final size:123
Alignment explanation
Indices: 38563580--38563861 Score: 376
Period size: 123 Copynumber: 2.3 Consensus size: 123
38563570 ATTTAACATA
* * *
38563580 TTCACCGGCAATTAGCCTGCTAGGCTTATAGCCTGATTCAGATCACCGGCACTTAGCCTGCTAGG
1 TTCACCGGCACTTAGCCTGCTAGGTTTATAACCTGATTCAGATCACCGGCACTTAGCCTGCTAGG
* * **
38563645 TTTATAACTTGATTCAGATCATCGACACTTAGCCTGCTAGGTTTATAACCTGATTCAG
66 TTTATAACCTGATTCAGATCACCGACACTTAGCCTGCTAGACTTATAACCTGATTCAG
* * *
38563703 ATCACTGGCGCTTAGCCTGCTAGGTTTATAACCTGATTCAGATCACCGGCACTTAGCCTGCTAGG
1 TTCACCGGCACTTAGCCTGCTAGGTTTATAACCTGATTCAGATCACCGGCACTTAGCCTGCTAGG
* *
38563768 TTTATAACCTGATTCAGATCACCGGCACTTAGCCTGCTAGACTTA-AAGTCC-GAATT-AT
66 TTTATAACCTGATTCAGATCACCGACACTTAGCCTGCTAGACTTATAA--CCTG-ATTCAG
38563826 TTCACCGGC-CTTAAGCCTGCTAGGTTT-TAAACCTGA
1 TTCACCGGCACTT-AGCCTGCTAGGTTTAT-AACCTGA
38563862 ACATTTCAAT
Statistics
Matches: 140, Mismatches: 14, Indels: 10
0.85 0.09 0.06
Matches are distributed among these distances:
122 6 0.04
123 129 0.92
124 5 0.04
ACGTcount: A:0.24, C:0.26, G:0.20, T:0.30
Consensus pattern (123 bp):
TTCACCGGCACTTAGCCTGCTAGGTTTATAACCTGATTCAGATCACCGGCACTTAGCCTGCTAGG
TTTATAACCTGATTCAGATCACCGACACTTAGCCTGCTAGACTTATAACCTGATTCAG
Found at i:38569533 original size:101 final size:101
Alignment explanation
Indices: 38569357--38569616 Score: 296
Period size: 101 Copynumber: 2.6 Consensus size: 101
38569347 CATTTTCTTT
* * * * * *
38569357 ATGCCATAGTCCAACTATGGTCTTACACAT--GCATTGTCATGGCCCAGCCATGGTCTTAAATTC
1 ATGCCATAGCCCAGCTATGGTCTTACAAATAAACATTGTCATGGTCCAACCATGGTCTTAAATTC
** * *
38569420 GTAGTGTCATAACCCAGTTATGGTCTTATCATCT-TA
66 AAAGTGTCATAACCCAGTTACGGTCTTATCAT-TAAA
*** * **
38569456 ATGCCATAGCCCAGCTATGGTCTTATTTATAAATATTGTCATGGTCCAACCATGGTCTTACGTTC
1 ATGCCATAGCCCAGCTATGGTCTTACAAATAAACATTGTCATGGTCCAACCATGGTCTTAAATTC
* *
38569521 AAAGTG-CTATAACCCAGTTACGTTCTTTTCATTAAA
66 AAAGTGTC-ATAACCCAGTTACGGTCTTATCATTAAA
38569557 ATGCCATAGCCCAGCTATGGTCTTACAAATAAACATT-TCCATGGTCCAACCATGGTCTTA
1 ATGCCATAGCCCAGCTATGGTCTTACAAATAAACATTGT-CATGGTCCAACCATGGTCTTA
38569617 TCCGTCAATT
Statistics
Matches: 135, Mismatches: 21, Indels: 8
0.82 0.13 0.05
Matches are distributed among these distances:
99 25 0.19
100 3 0.02
101 107 0.79
ACGTcount: A:0.27, C:0.24, G:0.16, T:0.33
Consensus pattern (101 bp):
ATGCCATAGCCCAGCTATGGTCTTACAAATAAACATTGTCATGGTCCAACCATGGTCTTAAATTC
AAAGTGTCATAACCCAGTTACGGTCTTATCATTAAA
Found at i:38572182 original size:26 final size:26
Alignment explanation
Indices: 38572146--38572198 Score: 106
Period size: 26 Copynumber: 2.0 Consensus size: 26
38572136 CTATAAAGAG
38572146 ATAGACGGGCCTGAGAATTTAACAAA
1 ATAGACGGGCCTGAGAATTTAACAAA
38572172 ATAGACGGGCCTGAGAATTTAACAAA
1 ATAGACGGGCCTGAGAATTTAACAAA
38572198 A
1 A
38572199 GAAGTTCCTC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.43, C:0.15, G:0.23, T:0.19
Consensus pattern (26 bp):
ATAGACGGGCCTGAGAATTTAACAAA
Found at i:38579249 original size:27 final size:27
Alignment explanation
Indices: 38579219--38579273 Score: 74
Period size: 27 Copynumber: 2.0 Consensus size: 27
38579209 CATTTTCTAA
* *
38579219 ATGTGATAATTAATTTTTAAAAAATTT
1 ATGTGAAAATTAAATTTTAAAAAATTT
* *
38579246 ATGTTAAAATTAAATTTTAAAATATTT
1 ATGTGAAAATTAAATTTTAAAAAATTT
38579273 A
1 A
38579274 ATATTATAGA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.47, C:0.00, G:0.05, T:0.47
Consensus pattern (27 bp):
ATGTGAAAATTAAATTTTAAAAAATTT
Found at i:38583598 original size:16 final size:16
Alignment explanation
Indices: 38583577--38583607 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
38583567 CATGAGGAAT
38583577 GTGTTGGTGATACTTA
1 GTGTTGGTGATACTTA
38583593 GTGTTGGTGATACTT
1 GTGTTGGTGATACTT
38583608 GAGGACACAC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.16, C:0.06, G:0.32, T:0.45
Consensus pattern (16 bp):
GTGTTGGTGATACTTA
Found at i:38584390 original size:18 final size:19
Alignment explanation
Indices: 38584367--38584407 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
38584357 ATTTTAATAT
38584367 ATTTAATTC-CCTAATTTG
1 ATTTAATTCACCTAATTTG
* *
38584385 ATTTAATTCACTTAATTTT
1 ATTTAATTCACCTAATTTG
38584404 ATTT
1 ATTT
38584408 TGCAATCTCA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
18 9 0.45
19 11 0.55
ACGTcount: A:0.29, C:0.12, G:0.02, T:0.56
Consensus pattern (19 bp):
ATTTAATTCACCTAATTTG
Found at i:38587620 original size:2 final size:2
Alignment explanation
Indices: 38587613--38587643 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
38587603 TATTTCAATT
38587613 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
38587644 TGCGCATATT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
TC
Found at i:38593551 original size:29 final size:30
Alignment explanation
Indices: 38593517--38593591 Score: 77
Period size: 27 Copynumber: 2.6 Consensus size: 30
38593507 ATTAATTTTT
38593517 AAATTTTTAAAAATAA-AAAA-TAATTATAA
1 AAATTTTTAAAAATAATAAAACT-ATTATAA
* *
38593546 AAA--TTTAAAAATAATAAAACTATTTTTA
1 AAATTTTTAAAAATAATAAAACTATTATAA
*
38593574 AATTTTTTAAAAAATAAT
1 AAATTTTT-AAAAATAAT
38593592 TAATTGCTAA
Statistics
Matches: 38, Mismatches: 3, Indels: 8
0.78 0.06 0.16
Matches are distributed among these distances:
27 11 0.29
28 11 0.29
29 4 0.11
30 3 0.08
31 9 0.24
ACGTcount: A:0.60, C:0.01, G:0.00, T:0.39
Consensus pattern (30 bp):
AAATTTTTAAAAATAATAAAACTATTATAA
Found at i:38593576 original size:27 final size:26
Alignment explanation
Indices: 38593509--38593578 Score: 70
Period size: 27 Copynumber: 2.5 Consensus size: 26
38593499 AACAATTAAT
38593509 TAATTTTTAAATTTTTAAAAATAAAAAA
1 TAATTTTTAAA--TTTAAAAATAAAAAA
**
38593537 TAATTATAAAAATTTAAAAATAATAAAA
1 TAATT-TTTAAATTTAAAAATAA-AAAA
38593565 CT-ATTTTTAAATTT
1 -TAATTTTTAAATTT
38593579 TTTAAAAAAT
Statistics
Matches: 35, Mismatches: 4, Indels: 7
0.76 0.09 0.15
Matches are distributed among these distances:
27 18 0.51
28 12 0.34
29 5 0.14
ACGTcount: A:0.56, C:0.01, G:0.00, T:0.43
Consensus pattern (26 bp):
TAATTTTTAAATTTAAAAATAAAAAA
Found at i:38593590 original size:28 final size:27
Alignment explanation
Indices: 38593511--38593590 Score: 72
Period size: 28 Copynumber: 2.9 Consensus size: 27
38593501 CAATTAATTA
38593511 ATTTTTAAATTTTT-AAAAATAAAAAAT
1 ATTTTTAAATTTTTAAAAAAT-AAAAAT
* * * * *
38593538 AATTATAAAAATTTAAAAATAATAAAACT
1 -ATTTTTAAATTTTTAAAA-AATAAAAAT
38593567 ATTTTTAAATTTTTTAAAAAATAA
1 ATTTTTAAA-TTTTTAAAAAATAA
38593591 TTAATTGCTA
Statistics
Matches: 40, Mismatches: 9, Indels: 6
0.73 0.16 0.11
Matches are distributed among these distances:
28 22 0.55
29 15 0.38
30 3 0.08
ACGTcount: A:0.57, C:0.01, G:0.00, T:0.41
Consensus pattern (27 bp):
ATTTTTAAATTTTTAAAAAATAAAAAT
Found at i:38595765 original size:15 final size:15
Alignment explanation
Indices: 38595745--38595774 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
38595735 AGTTTATATT
*
38595745 TATAAATATAATAAA
1 TATAAATAAAATAAA
38595760 TATAAATAAAATAAA
1 TATAAATAAAATAAA
38595775 AATCTATTTC
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (15 bp):
TATAAATAAAATAAA
Found at i:38597071 original size:101 final size:101
Alignment explanation
Indices: 38596896--38597135 Score: 408
Period size: 101 Copynumber: 2.4 Consensus size: 101
38596886 TGAATTGACG
* * *
38596896 GATAAGACCATAATTGGGTTATGACACTATGAACGTAAGACCATGGTTGGACCATGGCAGTGTTT
1 GATAAGACCATAATTGGGTTATGGCACTATGAATGTAAGACCATGGTTGGACCATGACAGTGTTT
38596961 ATATGTAAGACCATAGCTGAGCTATGACATTCTGAT
66 ATATGTAAGACCATAGCTGAGCTATGACATTCTGAT
38596997 GATAAGACCATAATTGGGTTATGGCACTATGAATGTAAGACCATGGTTGGACCATGACAGTGTTT
1 GATAAGACCATAATTGGGTTATGGCACTATGAATGTAAGACCATGGTTGGACCATGACAGTGTTT
* *
38597062 ATATGTAAGACCATAGCTGGGCTATGGCATTCTGAT
66 ATATGTAAGACCATAGCTGAGCTATGACATTCTGAT
* **
38597098 GATAAGACCATAACTGGGTTATGGCACTACAAATGTAA
1 GATAAGACCATAATTGGGTTATGGCACTATGAATGTAA
38597136 ATGATGAATT
Statistics
Matches: 131, Mismatches: 8, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
101 131 1.00
ACGTcount: A:0.32, C:0.15, G:0.24, T:0.28
Consensus pattern (101 bp):
GATAAGACCATAATTGGGTTATGGCACTATGAATGTAAGACCATGGTTGGACCATGACAGTGTTT
ATATGTAAGACCATAGCTGAGCTATGACATTCTGAT
Found at i:38597121 original size:33 final size:32
Alignment explanation
Indices: 38596963--38597123 Score: 124
Period size: 33 Copynumber: 4.8 Consensus size: 32
38596953 CAGTGTTTAT
* *
38596963 ATGTAAGACCATAGCTGAGCTATGACATTCTG
1 ATGTAAGACCATAGCTGGGCTATGGCATTCTG
** * * *
38596995 ATGATAAGACCATAATTGGGTTATGGCACTATG
1 ATG-TAAGACCATAGCTGGGCTATGGCATTCTG
* * * * * * *
38597028 AATGTAAGACCATGGTTGGACCATGACAGTGTTTAT
1 -ATGTAAGACCATAGCTGGGCTATGGCA-T-TCT-G
38597064 ATGTAAGACCATAGCTGGGCTATGGCATTCTG
1 ATGTAAGACCATAGCTGGGCTATGGCATTCTG
* *
38597096 ATGATAAGACCATAACTGGGTTATGGCA
1 ATG-TAAGACCATAGCTGGGCTATGGCA
38597124 CTACAAATGT
Statistics
Matches: 98, Mismatches: 25, Indels: 11
0.73 0.19 0.08
Matches are distributed among these distances:
32 6 0.06
33 64 0.65
34 4 0.04
35 24 0.24
ACGTcount: A:0.31, C:0.16, G:0.25, T:0.29
Consensus pattern (32 bp):
ATGTAAGACCATAGCTGGGCTATGGCATTCTG
Found at i:38601644 original size:18 final size:18
Alignment explanation
Indices: 38601623--38601657 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
38601613 TTTAATATGT
38601623 TTAAATTAGTTA-ATTTAA
1 TTAAATTA-TTATATTTAA
38601641 TTAAATTATTATATTTA
1 TTAAATTATTATATTTA
38601658 GATCAAGAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 3 0.19
18 13 0.81
ACGTcount: A:0.43, C:0.00, G:0.03, T:0.54
Consensus pattern (18 bp):
TTAAATTATTATATTTAA
Found at i:38602007 original size:26 final size:26
Alignment explanation
Indices: 38601954--38602022 Score: 84
Period size: 26 Copynumber: 2.6 Consensus size: 26
38601944 CTTTTTATCA
* *
38601954 GTGTATATTTAGTAGGCTTTAAGTCG
1 GTGTATATTTAGCAGGCTTTAAGCCG
**
38601980 GTGTATATTTAGCAGGCTTTGTGCCG
1 GTGTATATTTAGCAGGCTTTAAGCCG
*
38602006 GTGTTTTATTTAGCAGG
1 GTG-TATATTTAGCAGG
38602023 TACTATGTAC
Statistics
Matches: 37, Mismatches: 5, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
26 25 0.68
27 12 0.32
ACGTcount: A:0.19, C:0.10, G:0.29, T:0.42
Consensus pattern (26 bp):
GTGTATATTTAGCAGGCTTTAAGCCG
Found at i:38604360 original size:28 final size:28
Alignment explanation
Indices: 38604328--38604387 Score: 84
Period size: 28 Copynumber: 2.1 Consensus size: 28
38604318 TGGCTTTCAT
* * *
38604328 TTTTATTGGGAGTTGTTTTATGGTTATG
1 TTTTATAGAGAGTTGTTTTACGGTTATG
*
38604356 TTTTATAGAGAGTTGTTTTACGTTTATG
1 TTTTATAGAGAGTTGTTTTACGGTTATG
38604384 TTTT
1 TTTT
38604388 GTTTGGATTA
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.17, C:0.02, G:0.23, T:0.58
Consensus pattern (28 bp):
TTTTATAGAGAGTTGTTTTACGGTTATG
Found at i:38605268 original size:23 final size:22
Alignment explanation
Indices: 38605225--38605271 Score: 58
Period size: 23 Copynumber: 2.1 Consensus size: 22
38605215 TACTTGTAGT
* *
38605225 TCTATTTTATTTTTCCGTTATA
1 TCTATTTAATTTTTCAGTTATA
*
38605247 TCTATTTAATTTTTTCATTTATA
1 TCTATTTAA-TTTTTCAGTTATA
38605270 TC
1 TC
38605272 AATAATATAA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
22 8 0.38
23 13 0.62
ACGTcount: A:0.21, C:0.13, G:0.02, T:0.64
Consensus pattern (22 bp):
TCTATTTAATTTTTCAGTTATA
Found at i:38618527 original size:44 final size:44
Alignment explanation
Indices: 38618479--38618795 Score: 128
Period size: 44 Copynumber: 7.2 Consensus size: 44
38618469 AAGATTGTAG
*
38618479 ATCTTATCTCCCTAAGTAGTAGTGGAACAGATCGAAGACGGCAA
1 ATCTTATCTCCCTAAGCAGTAGTGGAACAGATCGAAGACGGCAA
* ** * **
38618523 ATCTTATCTTTCC-AAG-A-TAGTGGGAAGCAGATTTAAGCCACCAA
1 ATCTTATC-TCCCTAAGCAGTAGT-GGAA-CAGATCGAAGACGGCAA
** * * * * ** * *
38618567 GCCTTATCTCCTTGAGCAGTAGTGGAGA-AGGTTGAAGATTGTAG
1 ATCTTATCTCCCTAAGCAGTAGTGGA-ACAGATCGAAGACGGCAA
* * **
38618611 ATCTTATCTCCCTAACCAGTAGTGGAGCAGATCGAAGACGAAAA
1 ATCTTATCTCCCTAAGCAGTAGTGGAACAGATCGAAGACGGCAA
* * ** * **
38618655 ATCTTATCTTTCC-AAG-A-TAGTGGAAAGTAGATTTAAGCCACCAA
1 ATCTTATC-TCCCTAAGCAGTAGTGG-AA-CAGATCGAAGACGGCAA
** * ** * * ** * * * *
38618699 GCCTTGTCTCCCGGAGCAGCAGCGGAGTAGGTTGAAGATTGG-AG
1 ATCTTATCTCCCTAAGCAGTAGTGGAACAGATCGAAGA-CGGCAA
*
38618743 ATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGCAA
1 ATCTTATCTCCCTAAGCAGTAGTGGAACAGATCGAAGACGGCAA
38618787 ATCTTATCT
1 ATCTTATCT
38618796 TTCCAAGATA
Statistics
Matches: 188, Mismatches: 69, Indels: 32
0.65 0.24 0.11
Matches are distributed among these distances:
42 10 0.05
43 14 0.07
44 143 0.76
45 12 0.06
46 9 0.05
ACGTcount: A:0.31, C:0.20, G:0.24, T:0.25
Consensus pattern (44 bp):
ATCTTATCTCCCTAAGCAGTAGTGGAACAGATCGAAGACGGCAA
Found at i:38618632 original size:132 final size:132
Alignment explanation
Indices: 38618165--38618820 Score: 1026
Period size: 132 Copynumber: 5.0 Consensus size: 132
38618155 ACCGGCGAAA
* * *
38618165 CACCAAGCCTTGTCTCCCTGAGTAGCAGCGGAGAAGGTTGAAGATTGTAGATCTTATCTCCATAA
1 CACCAAGCCTTGTCTCCCTGAGCAGCAGCGGAGTAGGTTGAAGATTGTAGATCTTATCTCCCTAA
* *
38618230 GCAATAGTGGAGCAGATCAAAGACGGCAAATCTTATCTTTCCAAGATAGT-GGAAGCAGATTTAA
66 GCAGTAGTGGAGCAGATCGAAGACGGCAAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAA
38618294 GC
131 GC
* * *
38618296 CACAAAGCCTTGTCTCCCTGAGCAGCAACGGAGTAGGTTGAAGATTGTAGATCTTACCTCCCTAA
1 CACCAAGCCTTGTCTCCCTGAGCAGCAGCGGAGTAGGTTGAAGATTGTAGATCTTATCTCCCTAA
* * * * *
38618361 GCAGTAGTGGAGCAGATCAAAGATGGAAAATCTTATCTTTCTAAGATAGTGGGAAGTAGATTTAA
66 GCAGTAGTGGAGCAGATCGAAGACGGCAAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTT-A
*
38618426 AGT
130 AGC
* *
38618429 CACCAAGCCTTGTCTCTCTAAGCAGCAGCGGAGTAGGTTGAAGATTGTAGATCTTATCTCCCTAA
1 CACCAAGCCTTGTCTCCCTGAGCAGCAGCGGAGTAGGTTGAAGATTGTAGATCTTATCTCCCTAA
* *
38618494 GTAGTAGTGGAACAGATCGAAGACGGCAAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAA
66 GCAGTAGTGGAGCAGATCGAAGACGGCAAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAA
38618559 GC
131 GC
* * * * *
38618561 CACCAAGCCTTATCTCCTTGAGCAGTAGTGGAGAAGGTTGAAGATTGTAGATCTTATCTCCCTAA
1 CACCAAGCCTTGTCTCCCTGAGCAGCAGCGGAGTAGGTTGAAGATTGTAGATCTTATCTCCCTAA
* ** * *
38618626 CCAGTAGTGGAGCAGATCGAAGACGAAAAATCTTATCTTTCCAAGATAGTGGAAAGTAGATTTAA
66 GCAGTAGTGGAGCAGATCGAAGACGGCAAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAA
38618691 GC
131 GC
* *
38618693 CACCAAGCCTTGTCTCCCGGAGCAGCAGCGGAGTAGGTTGAAGATTGGAGATCTTATCTCCCTAA
1 CACCAAGCCTTGTCTCCCTGAGCAGCAGCGGAGTAGGTTGAAGATTGTAGATCTTATCTCCCTAA
38618758 GCAGTAGTGGAGCAGATCGAAGACGGCAAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTT
66 GCAGTAGTGGAGCAGATCGAAGACGGCAAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTT
38618821 GGGAAGCAGA
Statistics
Matches: 472, Mismatches: 51, Indels: 3
0.90 0.10 0.01
Matches are distributed among these distances:
131 105 0.22
132 248 0.53
133 119 0.25
ACGTcount: A:0.31, C:0.19, G:0.24, T:0.25
Consensus pattern (132 bp):
CACCAAGCCTTGTCTCCCTGAGCAGCAGCGGAGTAGGTTGAAGATTGTAGATCTTATCTCCCTAA
GCAGTAGTGGAGCAGATCGAAGACGGCAAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAA
GC
Found at i:38618825 original size:13 final size:13
Alignment explanation
Indices: 38618807--38618833 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
38618797 TCCAAGATAG
38618807 TGGGAAGCAGATT
1 TGGGAAGCAGATT
38618820 TGGGAAGCAGATT
1 TGGGAAGCAGATT
38618833 T
1 T
38618834 AAGCCACCAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.30, C:0.07, G:0.37, T:0.26
Consensus pattern (13 bp):
TGGGAAGCAGATT
Found at i:38624724 original size:23 final size:24
Alignment explanation
Indices: 38624682--38624744 Score: 67
Period size: 23 Copynumber: 2.7 Consensus size: 24
38624672 GGATGTATTC
***
38624682 TTTATAATTGTAATGTAAC-TATA
1 TTTATAATTGTAAAAAAACTTATA
38624705 TTTATAATTGTAAAAAAACTTATA
1 TTTATAATTGTAAAAAAACTTATA
*
38624729 TATATTAATTG-AAAAA
1 TTTA-TAATTGTAAAAA
38624745 TGTATTATGT
Statistics
Matches: 34, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
23 16 0.47
24 12 0.35
25 6 0.18
ACGTcount: A:0.48, C:0.03, G:0.06, T:0.43
Consensus pattern (24 bp):
TTTATAATTGTAAAAAAACTTATA
Found at i:38637164 original size:64 final size:64
Alignment explanation
Indices: 38637091--38637222 Score: 219
Period size: 64 Copynumber: 2.1 Consensus size: 64
38637081 TATGGGGGCG
*
38637091 AGTTATGTGGATGCTCGTAGACACGAGTTTATGAACCTTACCCAAGGGGATAGGATTGTGGTCA
1 AGTTATGTGGATGCTCGTAGACACGAGTTTATGAACCTTACCCAAGGGGATAGGATTGTGGCCA
* ** *
38637155 AGTTATGTGGATGCTTGTAGACACGAGTTTATGAACCTTACTTAGGGGGATAGGATTGTGGCCA
1 AGTTATGTGGATGCTCGTAGACACGAGTTTATGAACCTTACCCAAGGGGATAGGATTGTGGCCA
38637219 AGTT
1 AGTT
38637223 TGAGGCCAAA
Statistics
Matches: 63, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
64 63 1.00
ACGTcount: A:0.26, C:0.14, G:0.30, T:0.30
Consensus pattern (64 bp):
AGTTATGTGGATGCTCGTAGACACGAGTTTATGAACCTTACCCAAGGGGATAGGATTGTGGCCA
Found at i:38642781 original size:45 final size:45
Alignment explanation
Indices: 38642717--38642807 Score: 146
Period size: 45 Copynumber: 2.0 Consensus size: 45
38642707 CGGAGGATCA
38642717 ACACAAAACAACATTCACATACCTATACGATACATTTGCATTTGG
1 ACACAAAACAACATTCACATACCTATACGATACATTTGCATTTGG
* * * *
38642762 ACACAAAACAACATTCACATGCCTATACGGTACATTTTCGTTTGG
1 ACACAAAACAACATTCACATACCTATACGATACATTTGCATTTGG
38642807 A
1 A
38642808 GACATGCCAT
Statistics
Matches: 42, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
45 42 1.00
ACGTcount: A:0.37, C:0.24, G:0.11, T:0.27
Consensus pattern (45 bp):
ACACAAAACAACATTCACATACCTATACGATACATTTGCATTTGG
Found at i:38652519 original size:42 final size:43
Alignment explanation
Indices: 38652462--38652554 Score: 116
Period size: 42 Copynumber: 2.2 Consensus size: 43
38652452 TATTTACGTA
* **
38652462 TAAGACCATGCCTGGGACATTGGCGTAG-TATATAATTATGTG
1 TAAGACCATGCCTGGGACAGTGGCGTAGATATATAATTACATG
* * * *
38652504 TAAGACCCTGTCTGGGACAGTGGCGTTGATATGTAATTACATG
1 TAAGACCATGCCTGGGACAGTGGCGTAGATATATAATTACATG
38652547 TAAGACCA
1 TAAGACCA
38652555 CGTTTGGGAT
Statistics
Matches: 42, Mismatches: 8, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
42 24 0.57
43 18 0.43
ACGTcount: A:0.29, C:0.16, G:0.26, T:0.29
Consensus pattern (43 bp):
TAAGACCATGCCTGGGACAGTGGCGTAGATATATAATTACATG
Found at i:38659621 original size:13 final size:13
Alignment explanation
Indices: 38659603--38659637 Score: 52
Period size: 13 Copynumber: 2.6 Consensus size: 13
38659593 CATCGTTTTA
*
38659603 TTTTCTTTTATTT
1 TTTTCTATTATTT
38659616 TTTTCTATTATTT
1 TTTTCTATTATTT
38659629 TTTTACTAT
1 TTTT-CTAT
38659638 ACTAAAGTAC
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
13 16 0.80
14 4 0.20
ACGTcount: A:0.14, C:0.09, G:0.00, T:0.77
Consensus pattern (13 bp):
TTTTCTATTATTT
Found at i:38660401 original size:21 final size:20
Alignment explanation
Indices: 38660377--38660419 Score: 59
Period size: 21 Copynumber: 2.1 Consensus size: 20
38660367 TCCAGTTCAA
*
38660377 TTTAGGTATTTATTATTATTT
1 TTTAGGTAATTATTATT-TTT
*
38660398 TTTATGTAATTATTATTTTT
1 TTTAGGTAATTATTATTTTT
38660418 TT
1 TT
38660420 CATTTTTTTC
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
20 5 0.25
21 15 0.75
ACGTcount: A:0.23, C:0.00, G:0.07, T:0.70
Consensus pattern (20 bp):
TTTAGGTAATTATTATTTTT
Found at i:38663161 original size:3 final size:3
Alignment explanation
Indices: 38663153--38663183 Score: 62
Period size: 3 Copynumber: 10.3 Consensus size: 3
38663143 TGTTAAATAA
38663153 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
38663184 ATGGTTAAGA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
ATT
Found at i:38663534 original size:14 final size:14
Alignment explanation
Indices: 38663515--38663543 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
38663505 GTCCCTCCCT
38663515 AATCCATAAATAGG
1 AATCCATAAATAGG
38663529 AATCCATAAATAGG
1 AATCCATAAATAGG
38663543 A
1 A
38663544 CGATAATTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.52, C:0.14, G:0.14, T:0.21
Consensus pattern (14 bp):
AATCCATAAATAGG
Found at i:38663979 original size:21 final size:22
Alignment explanation
Indices: 38663955--38664004 Score: 68
Period size: 22 Copynumber: 2.3 Consensus size: 22
38663945 TTACATTACT
38663955 TTATATATT-TTTTT-AAAATAA
1 TTATAT-TTCTTTTTAAAAATAA
*
38663976 TTATATTTCTTTTTAAAAATAT
1 TTATATTTCTTTTTAAAAATAA
38663998 TTATATT
1 TTATATT
38664005 GACAAATACT
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
20 2 0.08
21 11 0.42
22 13 0.50
ACGTcount: A:0.38, C:0.02, G:0.00, T:0.60
Consensus pattern (22 bp):
TTATATTTCTTTTTAAAAATAA
Found at i:38666363 original size:21 final size:20
Alignment explanation
Indices: 38666339--38666386 Score: 53
Period size: 21 Copynumber: 2.3 Consensus size: 20
38666329 AAAATGATGG
*
38666339 AACAAAAA-AACAAAAGAAATA
1 AACAAAAAGAA-AAAA-AAAGA
38666360 AACAAGAAAGAAAAAAAAAGA
1 AACAA-AAAGAAAAAAAAAGA
38666381 AACAAA
1 AACAAA
38666387 TGTGAAACAA
Statistics
Matches: 24, Mismatches: 1, Indels: 5
0.80 0.03 0.17
Matches are distributed among these distances:
20 1 0.04
21 14 0.58
22 7 0.29
23 2 0.08
ACGTcount: A:0.81, C:0.08, G:0.08, T:0.02
Consensus pattern (20 bp):
AACAAAAAGAAAAAAAAAGA
Found at i:38674040 original size:120 final size:120
Alignment explanation
Indices: 38673827--38674066 Score: 480
Period size: 120 Copynumber: 2.0 Consensus size: 120
38673817 CTATACTATT
38673827 ATTGATTGAGTTTAATGGCATAGGTTAAGCAACACTATTTCCATTAAAAAATAAATTATAATCTA
1 ATTGATTGAGTTTAATGGCATAGGTTAAGCAACACTATTTCCATTAAAAAATAAATTATAATCTA
38673892 AAATTAATATACATACACTATTTATGTATTTCAATATATAAAAATTTACATGCCC
66 AAATTAATATACATACACTATTTATGTATTTCAATATATAAAAATTTACATGCCC
38673947 ATTGATTGAGTTTAATGGCATAGGTTAAGCAACACTATTTCCATTAAAAAATAAATTATAATCTA
1 ATTGATTGAGTTTAATGGCATAGGTTAAGCAACACTATTTCCATTAAAAAATAAATTATAATCTA
38674012 AAATTAATATACATACACTATTTATGTATTTCAATATATAAAAATTTACATGCCC
66 AAATTAATATACATACACTATTTATGTATTTCAATATATAAAAATTTACATGCCC
38674067 TGCATTAATT
Statistics
Matches: 120, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
120 120 1.00
ACGTcount: A:0.42, C:0.12, G:0.08, T:0.37
Consensus pattern (120 bp):
ATTGATTGAGTTTAATGGCATAGGTTAAGCAACACTATTTCCATTAAAAAATAAATTATAATCTA
AAATTAATATACATACACTATTTATGTATTTCAATATATAAAAATTTACATGCCC
Found at i:38675337 original size:17 final size:17
Alignment explanation
Indices: 38675317--38675363 Score: 60
Period size: 17 Copynumber: 2.8 Consensus size: 17
38675307 TAAAGATAAA
38675317 TTTAAAAATAATAATAT
1 TTTAAAAATAATAATAT
* *
38675334 TTTAAAAGTAATTATAT
1 TTTAAAAATAATAATAT
*
38675351 TTTGAAAA-AATAA
1 TTTAAAAATAATAA
38675364 AGTAGGTTTT
Statistics
Matches: 25, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
16 4 0.16
17 21 0.84
ACGTcount: A:0.55, C:0.00, G:0.04, T:0.40
Consensus pattern (17 bp):
TTTAAAAATAATAATAT
Found at i:38678356 original size:12 final size:12
Alignment explanation
Indices: 38678339--38678363 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
38678329 ATTTTATAAC
38678339 ATAAATATTGTT
1 ATAAATATTGTT
38678351 ATAAATATTGTT
1 ATAAATATTGTT
38678363 A
1 A
38678364 ATAGCCTCTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.44, C:0.00, G:0.08, T:0.48
Consensus pattern (12 bp):
ATAAATATTGTT
Found at i:38682007 original size:24 final size:24
Alignment explanation
Indices: 38681975--38682023 Score: 98
Period size: 24 Copynumber: 2.0 Consensus size: 24
38681965 GCATATTCCA
38681975 AGAATTTGATATGCAAAGTAAAGG
1 AGAATTTGATATGCAAAGTAAAGG
38681999 AGAATTTGATATGCAAAGTAAAGG
1 AGAATTTGATATGCAAAGTAAAGG
38682023 A
1 A
38682024 TGTGAGTTTT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.47, C:0.04, G:0.24, T:0.24
Consensus pattern (24 bp):
AGAATTTGATATGCAAAGTAAAGG
Found at i:38687299 original size:12 final size:11
Alignment explanation
Indices: 38687270--38687313 Score: 52
Period size: 11 Copynumber: 3.9 Consensus size: 11
38687260 AATCATTTAA
*
38687270 TAATAAAATAA
1 TAATAAAATAT
*
38687281 TACTAAAAATAT
1 TAAT-AAAATAT
38687293 TAATAAAATAT
1 TAATAAAATAT
*
38687304 TAATTAAATA
1 TAATAAAATA
38687314 ACATTTATCT
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
11 19 0.68
12 9 0.32
ACGTcount: A:0.64, C:0.02, G:0.00, T:0.34
Consensus pattern (11 bp):
TAATAAAATAT
Found at i:38695468 original size:28 final size:28
Alignment explanation
Indices: 38695428--38695481 Score: 99
Period size: 28 Copynumber: 1.9 Consensus size: 28
38695418 ATTGTACCGA
38695428 TACTGTATTGGGCTAAGGCCCACATTAT
1 TACTGTATTGGGCTAAGGCCCACATTAT
*
38695456 TACTGTATTGGGCTGAGGCCCACATT
1 TACTGTATTGGGCTAAGGCCCACATT
38695482 GTACTGTTAC
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
28 25 1.00
ACGTcount: A:0.22, C:0.22, G:0.24, T:0.31
Consensus pattern (28 bp):
TACTGTATTGGGCTAAGGCCCACATTAT
Found at i:38702505 original size:6 final size:6
Alignment explanation
Indices: 38702485--38702522 Score: 58
Period size: 6 Copynumber: 6.2 Consensus size: 6
38702475 AAATCATAAA
*
38702485 TTCAGT TTCATTT TTCATT TTCATT TTCATT TTCATT T
1 TTCATT TTCA-TT TTCATT TTCATT TTCATT TTCATT T
38702523 CCGTTTTGGA
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
6 25 0.83
7 5 0.17
ACGTcount: A:0.16, C:0.16, G:0.03, T:0.66
Consensus pattern (6 bp):
TTCATT
Found at i:38702529 original size:18 final size:19
Alignment explanation
Indices: 38702490--38702529 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 19
38702480 ATAAATTCAG
*
38702490 TTTCATTTTTCATTTTCAT
1 TTTCATTTTTCATTTCCAT
*
38702509 TTTCA-TTTTCATTTCCGT
1 TTTCATTTTTCATTTCCAT
38702527 TTT
1 TTT
38702530 GGAGAAAACC
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
18 14 0.74
19 5 0.26
ACGTcount: A:0.12, C:0.17, G:0.03, T:0.68
Consensus pattern (19 bp):
TTTCATTTTTCATTTCCAT
Found at i:38702641 original size:62 final size:62
Alignment explanation
Indices: 38702497--38702696 Score: 220
Period size: 63 Copynumber: 3.3 Consensus size: 62
38702487 CAGTTTCATT
* * *
38702497 TTTCATTT-T-CATTTTCATTTTCATTTCCGTTTTGGAGAAAACCA-AGTTCATTTCCGAATGA
1 TTTCATTTCTCCATTTTCATTTTCATTTTCATTTTGGAGAAAACCATA--TCATTTCCAAATGA
* * *
38702558 TTCCATTTCTCCATTTTCATTTTCATTTTCATTTTGGAGAAAACCATATCATTTTCAAATAA
1 TTTCATTTCTCCATTTTCATTTTCATTTTCATTTTGGAGAAAACCATATCATTTCCAAATGA
* *
38702620 TTTCATTTCTCCATTTTCA---T--TTTT-ATTTTGCAGAAAACCATAATCATTTCCAAATGT
1 TTTCATTTCTCCATTTTCATTTTCATTTTCATTTTGGAGAAAACCAT-ATCATTTCCAAATGA
*
38702677 TTCTCATTTCTACATTTTCA
1 TT-TCATTTCTCCATTTTCA
38702697 CCATTTTTAT
Statistics
Matches: 122, Mismatches: 12, Indels: 13
0.83 0.08 0.09
Matches are distributed among these distances:
56 16 0.13
57 18 0.15
58 16 0.13
59 1 0.01
61 7 0.06
62 30 0.25
63 33 0.27
64 1 0.01
ACGTcount: A:0.27, C:0.20, G:0.07, T:0.47
Consensus pattern (62 bp):
TTTCATTTCTCCATTTTCATTTTCATTTTCATTTTGGAGAAAACCATATCATTTCCAAATGA
Found at i:38702649 original size:56 final size:58
Alignment explanation
Indices: 38702575--38702696 Score: 176
Period size: 56 Copynumber: 2.1 Consensus size: 58
38702565 TCTCCATTTT
* * *
38702575 CATTTTCATTTTCATTTTGGAGAAAACCAT-ATCATTTTCAAATAATT-TCATTTCTC
1 CATTTTCATTTTCATTTTGCAGAAAACCATAATCATTTCCAAATAATTCTCATTTCTA
* **
38702631 CATTTTCATTTTTATTTTGCAGAAAACCATAATCATTTCCAAATGTTTCTCATTTCTA
1 CATTTTCATTTTCATTTTGCAGAAAACCATAATCATTTCCAAATAATTCTCATTTCTA
38702689 CATTTTCA
1 CATTTTCA
38702697 CCATTTTTAT
Statistics
Matches: 58, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
56 28 0.48
57 14 0.24
58 16 0.28
ACGTcount: A:0.30, C:0.19, G:0.05, T:0.47
Consensus pattern (58 bp):
CATTTTCATTTTCATTTTGCAGAAAACCATAATCATTTCCAAATAATTCTCATTTCTA
Found at i:38712779 original size:19 final size:20
Alignment explanation
Indices: 38712755--38712798 Score: 81
Period size: 19 Copynumber: 2.2 Consensus size: 20
38712745 TAAACTTGTT
38712755 AAATTTTTATATTTAG-GTC
1 AAATTTTTATATTTAGAGTC
38712774 AAATTTTTATATTTAGAGTC
1 AAATTTTTATATTTAGAGTC
38712794 AAATT
1 AAATT
38712799 AATAGAATGT
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
19 16 0.67
20 8 0.33
ACGTcount: A:0.36, C:0.05, G:0.09, T:0.50
Consensus pattern (20 bp):
AAATTTTTATATTTAGAGTC
Found at i:38715641 original size:18 final size:19
Alignment explanation
Indices: 38715620--38715660 Score: 59
Period size: 19 Copynumber: 2.2 Consensus size: 19
38715610 ATTTTCAAAG
38715620 AAAAT-AAAAT-TATTTTCT
1 AAAATAAAAATATATTTT-T
38715638 AAAATAAAAATATATTTTT
1 AAAATAAAAATATATTTTT
38715657 AAAA
1 AAAA
38715661 AATATGAATT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
18 5 0.24
19 10 0.48
20 6 0.29
ACGTcount: A:0.59, C:0.02, G:0.00, T:0.39
Consensus pattern (19 bp):
AAAATAAAAATATATTTTT
Found at i:38722596 original size:69 final size:69
Alignment explanation
Indices: 38722394--38722786 Score: 418
Period size: 69 Copynumber: 5.7 Consensus size: 69
38722384 AACATTTATA
* * * *
38722394 TCATCTTAAGGCT-TTCAGGATAAAAACTGTAACCTCTAACACAGTTAGCGAGAGCAAAGCTCCC
1 TCATCTTAAGGCTCGT-AGGATAAAAACTGCAGCCTCCAACACAGTTAGCGAGAGCAAAGCTCCC
38722458 AACTG
65 AACTG
* * * * *
38722463 TCATATTAAGGCTCGCAAGATAAAAAACTGCAGCCTCCAACACAGTTAGCAAAAGCAAAGCTCCC
1 TCATCTTAAGGCTCGTAGGAT-AAAAACTGCAGCCTCCAACACAGTTAGCGAGAGCAAAGCTCCC
38722528 AACTG
65 AACTG
** *
38722533 TCATCTTAAGGCTCGTAGGATAAAAACCACAGCCTCCAACATAGTTAGCGAGAGCAAAGCTCCCA
1 TCATCTTAAGGCTCGTAGGATAAAAACTGCAGCCTCCAACACAGTTAGCGAGAGCAAAGCTCCCA
*
38722598 ACTA
66 ACTG
* * * * **
38722602 TCATATTAAGGCTCGTAGGATAAAAACTACAGCTTCCAACACAATTAATGAGAGCAAAGCTCCCA
1 TCATCTTAAGGCTCGTAGGATAAAAACTGCAGCCTCCAACACAGTTAGCGAGAGCAAAGCTCCCA
38722667 ACTG
66 ACTG
* * * * * * *
38722671 TCATAC-TAAGGCTCAG-AGGACAAGATC-GCCGCCTCCAACATAGTTAGCAAGAGCAAATCTCC
1 TCAT-CTTAAGGCTC-GTAGGATAAAAACTGCAGCCTCCAACACAGTTAGCGAGAGCAAAGCTCC
* *
38722733 TACCTG
64 CAACTG
* * * *
38722739 TCATAC-TAAGGCTTGTAGGATAAATACTGCATCCTCCAACATAGTTAG
1 TCAT-CTTAAGGCTCGTAGGATAAAAACTGCAGCCTCCAACACAGTTAG
38722787 TAAAAGTTGA
Statistics
Matches: 270, Mismatches: 48, Indels: 12
0.82 0.15 0.04
Matches are distributed among these distances:
67 1 0.00
68 50 0.19
69 157 0.58
70 62 0.23
ACGTcount: A:0.36, C:0.26, G:0.17, T:0.21
Consensus pattern (69 bp):
TCATCTTAAGGCTCGTAGGATAAAAACTGCAGCCTCCAACACAGTTAGCGAGAGCAAAGCTCCCA
ACTG
Found at i:38722759 original size:137 final size:138
Alignment explanation
Indices: 38722426--38722779 Score: 428
Period size: 137 Copynumber: 2.6 Consensus size: 138
38722416 AAAACTGTAA
* * * *
38722426 CCTCTAACACAGTTAGCGAGAGCAAAGCTCCCAACTGTCATATTAAGGCTCGCAAGATAAAAAAC
1 CCTCCAACATAGTTAGCGAGAGCAAAGCTCCCAACTGTCATATTAAGGCTCGTAGGAT-AAAAAC
* * * *
38722491 TGCAGCCTCCAACACAGTTAGCAAAAGCAAAGCTCCCAACTGTCATCTTAAGGCTCGTAGGATAA
65 TACAGCCTCCAACACAATTAACAAAAGCAAAGCTCCCAACTGTCATCTTAAGGCTCGTAGGACAA
38722556 AAACCACAG
130 AAACCACAG
*
38722565 CCTCCAACATAGTTAGCGAGAGCAAAGCTCCCAACTATCATATTAAGGCTCGTAGGATAAAAACT
1 CCTCCAACATAGTTAGCGAGAGCAAAGCTCCCAACTGTCATATTAAGGCTCGTAGGATAAAAACT
* ** *
38722630 ACAGCTTCCAACACAATTAATGAGAGCAAAGCTCCCAACTGTCATAC-TAAGGCTCAG-AGGACA
66 ACAGCCTCCAACACAATTAACAAAAGCAAAGCTCCCAACTGTCAT-CTTAAGGCTC-GTAGGACA
* *
38722693 AGATCGC-C-G
129 AAAAC-CACAG
* * * * * * *
38722702 CCTCCAACATAGTTAGCAAGAGCAAATCTCCTACCTGTCATACTAAGGCTTGTAGGATAAATACT
1 CCTCCAACATAGTTAGCGAGAGCAAAGCTCCCAACTGTCATATTAAGGCTCGTAGGATAAAAACT
* *
38722767 GCATCCTCCAACA
66 ACAGCCTCCAACA
38722780 TAGTTAGTAA
Statistics
Matches: 186, Mismatches: 26, Indels: 8
0.85 0.12 0.04
Matches are distributed among these distances:
137 68 0.37
138 62 0.33
139 56 0.30
ACGTcount: A:0.36, C:0.27, G:0.17, T:0.20
Consensus pattern (138 bp):
CCTCCAACATAGTTAGCGAGAGCAAAGCTCCCAACTGTCATATTAAGGCTCGTAGGATAAAAACT
ACAGCCTCCAACACAATTAACAAAAGCAAAGCTCCCAACTGTCATCTTAAGGCTCGTAGGACAAA
AACCACAG
Found at i:38722963 original size:57 final size:57
Alignment explanation
Indices: 38722805--38722963 Score: 169
Period size: 58 Copynumber: 2.7 Consensus size: 57
38722795 GAAAACTCCT
* * *
38722805 AATTGTGTTATCTTTCAAAATTTTCTTAAGTATAAAATAGCTCTTAGATTCATATCCCC
1 AATTG-GTTATCTTTCAAAATTTTCTTAAGTATAAAATA-CTCGTAGATCCACATCCCC
** * * * *
38722864 AGCTAGTTATCTTCCAAAATTTTCTTAAGTCTGAAACA-ACTCGTGGATCCACATCCCC
1 AATTGGTTATCTTTCAAAATTTTCTTAAGTAT-AAA-ATACTCGTAGATCCACATCCCC
*
38722922 AATTGGTTATCTTTC-AAATTTTTTTAAGTATAAAATTACTCG
1 AATTGGTTATCTTTCAAAATTTTCTTAAGTATAAAA-TACTCG
38722964 CAGACTAATA
Statistics
Matches: 81, Mismatches: 15, Indels: 10
0.76 0.14 0.09
Matches are distributed among these distances:
55 1 0.01
56 3 0.04
57 19 0.23
58 51 0.63
59 6 0.07
60 1 0.01
ACGTcount: A:0.31, C:0.19, G:0.10, T:0.40
Consensus pattern (57 bp):
AATTGGTTATCTTTCAAAATTTTCTTAAGTATAAAATACTCGTAGATCCACATCCCC
Found at i:38727021 original size:104 final size:104
Alignment explanation
Indices: 38726782--38727151 Score: 577
Period size: 102 Copynumber: 3.6 Consensus size: 104
38726772 TTGTATATAA
** *
38726782 AGGGGTTGCTGTGTGCTGATTCCCCGATTCATTGGTGGTGCTATGTGCG-TGATCCACCATATCT
1 AGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGAT-ATCCACCATATCT
*
38726846 TTGAAATGTGAAAAGGGGGTTGCTATGTGTTGATTCCCCCG
65 TTGAAATGTG-AAAGGGGGTTGCTATGTGCTGATTCCCCCG
* *
38726887 AGGGATTGCTAAGTGCTGATTCCCCGGTTCATTGGTGGTGCTAAGTGCGATATCCACCATATCTT
1 AGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGATATCCACCATATCTT
38726952 TGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCCG
66 TGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCCG
***
38726991 AGGGGTTGCTAAGTGCTGATTCCCC-AGTTCATTGGTGGTGCTAAGTGCGATAT-CATTGTATCT
1 AGGGGTTGCTAAGTGCTGATTCCCCGA-TTCATTGGTGGTGCTAAGTGCGATATCCACCATATCT
*
38727054 TTGAAATG-AAAAGGGGGTTGCTATGTGCTGATTCCCCCG
65 TTGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCCG
* *
38727093 AGGGGTTGCTAAGTGCTGATTCCCCGATTCAGTGGTGGTGCTAAGTGCGAGATCCACCA
1 AGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGATATCCACCA
38727152 AAAACGGTTA
Statistics
Matches: 244, Mismatches: 17, Indels: 10
0.90 0.06 0.04
Matches are distributed among these distances:
102 79 0.32
103 18 0.07
104 79 0.32
105 67 0.27
106 1 0.00
ACGTcount: A:0.19, C:0.19, G:0.30, T:0.31
Consensus pattern (104 bp):
AGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGATATCCACCATATCTT
TGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCCG
Found at i:38729628 original size:22 final size:22
Alignment explanation
Indices: 38729593--38729634 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
38729583 CCCACTGCCT
* *
38729593 CTAGTATTGGCATTCTCTGTCC
1 CTAGTACTGACATTCTCTGTCC
38729615 CTAGTACTGACATTCTCTGT
1 CTAGTACTGACATTCTCTGT
38729635 GAACTCCAAG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.17, C:0.26, G:0.17, T:0.40
Consensus pattern (22 bp):
CTAGTACTGACATTCTCTGTCC
Found at i:38743590 original size:162 final size:162
Alignment explanation
Indices: 38743323--38743646 Score: 576
Period size: 162 Copynumber: 2.0 Consensus size: 162
38743313 AGGCATTTAG
*
38743323 AATCCTGAAAATCAACAAGACCAATCTAGCATCACTCATCTGTCAACTCAACATGACAACTACAT
1 AATCCTGAAAATCAACAAGACCAATCTAACATCACTCATCTGTCAACTCAACATGACAACTACAT
** *
38743388 TCATAATAAAGGATGAGTTATACATTCCACTACATAATGTATAAAGGCAGAGCTAAACAAGCTGA
66 TCATAATAAAGGACAAGTTATACATTCCACTACATAATGTATAAAGGCAAAGCTAAACAAGCTGA
* *
38743453 GCTTTGAAGCGATAAATCAAAAGTTAGCCACT
131 ACTTTGAAGCAATAAATCAAAAGTTAGCCACT
*
38743485 AATCCTGAAAATTAACAAGACCAATCTAACATCACTCATCTGTCAACTCAACATGACAACTACAT
1 AATCCTGAAAATCAACAAGACCAATCTAACATCACTCATCTGTCAACTCAACATGACAACTACAT
*
38743550 TCGTAATAAAGGACAAGTTATACATTCCACTACATAATGTATAAAGGCAAAGCTAAACAAGCTGA
66 TCATAATAAAGGACAAGTTATACATTCCACTACATAATGTATAAAGGCAAAGCTAAACAAGCTGA
38743615 ACTTTGAAGCAATAAATCAAAAGTTAGCCACT
131 ACTTTGAAGCAATAAATCAAAAGTTAGCCACT
38743647 CAAAAAATTT
Statistics
Matches: 154, Mismatches: 8, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
162 154 1.00
ACGTcount: A:0.43, C:0.22, G:0.12, T:0.23
Consensus pattern (162 bp):
AATCCTGAAAATCAACAAGACCAATCTAACATCACTCATCTGTCAACTCAACATGACAACTACAT
TCATAATAAAGGACAAGTTATACATTCCACTACATAATGTATAAAGGCAAAGCTAAACAAGCTGA
ACTTTGAAGCAATAAATCAAAAGTTAGCCACT
Found at i:38746841 original size:21 final size:20
Alignment explanation
Indices: 38746783--38746844 Score: 61
Period size: 21 Copynumber: 2.9 Consensus size: 20
38746773 AAAAAAATAA
*
38746783 TTTATGAGAAATAGATTTTTT
1 TTTATGAAAAAT-GATTTTTT
*
38746804 TTTTTGAAAAAGTTGATTTTTT
1 TTTATGAAAAA--TGATTTTTT
*
38746826 TTTATGTATAAATGATTTT
1 TTTATG-AAAAATGATTTT
38746845 GTGTAAAATA
Statistics
Matches: 34, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
21 16 0.47
22 13 0.38
23 5 0.15
ACGTcount: A:0.31, C:0.00, G:0.13, T:0.56
Consensus pattern (20 bp):
TTTATGAAAAATGATTTTTT
Found at i:38747521 original size:24 final size:26
Alignment explanation
Indices: 38747488--38747536 Score: 66
Period size: 25 Copynumber: 2.0 Consensus size: 26
38747478 AAGTAGGATA
38747488 TAAACAAATAACCAT-ATTTATATTC
1 TAAACAAATAACCATAATTTATATTC
**
38747513 TAAA-AAATATTCATAATTTATATT
1 TAAACAAATAACCATAATTTATATT
38747537 ATGAACAATT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
24 8 0.38
25 13 0.62
ACGTcount: A:0.49, C:0.10, G:0.00, T:0.41
Consensus pattern (26 bp):
TAAACAAATAACCATAATTTATATTC
Found at i:38747648 original size:20 final size:20
Alignment explanation
Indices: 38747613--38747655 Score: 61
Period size: 20 Copynumber: 2.1 Consensus size: 20
38747603 TTTTTTCTAG
*
38747613 TAAAATATTAAGAATATTACT
1 TAAAATATTAAAAATATTA-T
38747634 TAAAAT-TTAAAAATATTAT
1 TAAAATATTAAAAATATTAT
38747653 TAA
1 TAA
38747656 TGTTAAATTT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 4 0.19
20 11 0.52
21 6 0.29
ACGTcount: A:0.56, C:0.02, G:0.02, T:0.40
Consensus pattern (20 bp):
TAAAATATTAAAAATATTAT
Found at i:38747682 original size:19 final size:19
Alignment explanation
Indices: 38747647--38747683 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
38747637 AATTTAAAAA
* *
38747647 TATTATTAATGTTAAATTT
1 TATTATTAAAGTAAAATTT
38747666 TATTATTAAAGTAAAATT
1 TATTATTAAAGTAAAATT
38747684 GTAATAATAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.43, C:0.00, G:0.05, T:0.51
Consensus pattern (19 bp):
TATTATTAAAGTAAAATTT
Found at i:38756349 original size:20 final size:19
Alignment explanation
Indices: 38756314--38756372 Score: 68
Period size: 20 Copynumber: 3.1 Consensus size: 19
38756304 TTTAAAGTTA
38756314 AAATATATAT-TGTAATATT
1 AAATATATATAT-TAATATT
38756333 AAATATTATATATTAATTATT
1 AAATA-TATATATTAA-TATT
*
38756354 AAGTATATATATT-ATATT
1 AAATATATATATTAATATT
38756372 A
1 A
38756373 TATTATAATG
Statistics
Matches: 36, Mismatches: 1, Indels: 7
0.82 0.02 0.16
Matches are distributed among these distances:
18 5 0.14
19 6 0.17
20 16 0.44
21 9 0.25
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.49
Consensus pattern (19 bp):
AAATATATATATTAATATT
Found at i:38770055 original size:47 final size:46
Alignment explanation
Indices: 38769939--38770061 Score: 140
Period size: 47 Copynumber: 2.6 Consensus size: 46
38769929 ATATATATAA
*
38769939 ATATATTTGTTATGCATGAAAATGAATTAATCTATAGCTGAATGTAT
1 ATATATTTGTTATGCATG-AAATGAATTAAACTATAGCTGAATGTAT
* * * * *
38769986 ATGTAATTGTTATACAGAGAAATGAATTAAACTATGGAC-GAATGTAT
1 ATATATTTGTTATGCA-TGAAATGAATTAAACTATAG-CTGAATGTAT
*
38770033 ATATATTTGTTATGCATTGAAATAAATTA
1 ATATATTTGTTATGCA-TGAAATGAATTA
38770062 TTTGAAATTA
Statistics
Matches: 62, Mismatches: 12, Indels: 4
0.79 0.15 0.05
Matches are distributed among these distances:
47 60 0.97
48 2 0.03
ACGTcount: A:0.41, C:0.06, G:0.15, T:0.38
Consensus pattern (46 bp):
ATATATTTGTTATGCATGAAATGAATTAAACTATAGCTGAATGTAT
Found at i:38770108 original size:161 final size:160
Alignment explanation
Indices: 38769925--38770220 Score: 488
Period size: 161 Copynumber: 1.8 Consensus size: 160
38769915 TTAACTACGT
*
38769925 ATGTATATATATAAATATATTTGTTATGCA-TGAAAATGAATTAATCTATAGCTGAATGTATATG
1 ATGTATATATAT-AATATATTTGTTATACATTG-AAATGAATTAATCTATAGCTGAATGTATATG
* *
38769989 TAATTGTTATACAGAGAAATGAATTAAACTATGGACGAATGTATATATATTTGTTATGCATTGAA
64 TAATTGTTATACAGAGAAATAAATTAAACTATGGACGAA--TATATATATTTGTTATACATTGAA
38770054 ATAAATTATTTGAAATTACATAGGTTATGGCCGA
127 ATAAATTATTTGAAATTACATAGGTTATGGCCGA
38770088 ATGTATATATAT-ATATATTTGTTATACATTGAAATGAATTAATCTATAGCTGAATGTATATGTA
1 ATGTATATATATAATATATTTGTTATACATTGAAATGAATTAATCTATAGCTGAATGTATATGTA
* * *
38770152 ATTGTTATGCAGAGAAATAAATTAAACTATGGCCGAATATATATATTTGTTATACATTGAAATGA
66 ATTGTTATACAGAGAAATAAATTAAACTATGGACGAATATATATATTTGTTATACATTGAAATAA
38770217 ATTA
131 ATTA
38770221 ATCTATAGCT
Statistics
Matches: 126, Mismatches: 6, Indels: 6
0.91 0.04 0.04
Matches are distributed among these distances:
159 30 0.24
161 82 0.65
162 2 0.02
163 12 0.10
ACGTcount: A:0.40, C:0.06, G:0.15, T:0.39
Consensus pattern (160 bp):
ATGTATATATATAATATATTTGTTATACATTGAAATGAATTAATCTATAGCTGAATGTATATGTA
ATTGTTATACAGAGAAATAAATTAAACTATGGACGAATATATATATTTGTTATACATTGAAATAA
ATTATTTGAAATTACATAGGTTATGGCCGA
Found at i:38770169 original size:47 final size:47
Alignment explanation
Indices: 38770118--38770287 Score: 227
Period size: 47 Copynumber: 3.7 Consensus size: 47
38770108 GTTATACATT
*
38770118 GAAATGAATTAATCTATAGCTGAATGTATATGTAATTGTTATGCAGA
1 GAAATGAATTAAACTATAGCTGAATGTATATGTAATTGTTATGCAGA
* * * * * * **
38770165 GAAATAAATTAAACTATGGCCGAA--TATATATATTTGTTATACATT
1 GAAATGAATTAAACTATAGCTGAATGTATATGTAATTGTTATGCAGA
*
38770210 GAAATGAATTAATCTATAGCTGAATGTATATGTAATTGTTATGCAGA
1 GAAATGAATTAAACTATAGCTGAATGTATATGTAATTGTTATGCAGA
*
38770257 GAAATGAATTAAACTATGGCTGAATGTATAT
1 GAAATGAATTAAACTATAGCTGAATGTATAT
38770288 ATATATATTT
Statistics
Matches: 101, Mismatches: 20, Indels: 4
0.81 0.16 0.03
Matches are distributed among these distances:
45 36 0.36
47 65 0.64
ACGTcount: A:0.40, C:0.07, G:0.17, T:0.36
Consensus pattern (47 bp):
GAAATGAATTAAACTATAGCTGAATGTATATGTAATTGTTATGCAGA
Found at i:38770253 original size:92 final size:92
Alignment explanation
Indices: 38770096--38770289 Score: 361
Period size: 92 Copynumber: 2.1 Consensus size: 92
38770086 GAATGTATAT
38770096 ATATATATATTTGTTATACATTGAAATGAATTAATCTATAGCTGAATGTATATGTAATTGTTATG
1 ATATATATATTTGTTATACATTGAAATGAATTAATCTATAGCTGAATGTATATGTAATTGTTATG
38770161 CAGAGAAATAAATTAAACTATGGCCGA
66 CAGAGAAATAAATTAAACTATGGCCGA
38770188 ATATATATATTTGTTATACATTGAAATGAATTAATCTATAGCTGAATGTATATGTAATTGTTATG
1 ATATATATATTTGTTATACATTGAAATGAATTAATCTATAGCTGAATGTATATGTAATTGTTATG
* *
38770253 CAGAGAAATGAATTAAACTATGGCTGA
66 CAGAGAAATAAATTAAACTATGGCCGA
*
38770280 ATGTATATAT
1 ATATATATAT
38770290 ATATATTTGT
Statistics
Matches: 99, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
92 99 1.00
ACGTcount: A:0.40, C:0.07, G:0.15, T:0.38
Consensus pattern (92 bp):
ATATATATATTTGTTATACATTGAAATGAATTAATCTATAGCTGAATGTATATGTAATTGTTATG
CAGAGAAATAAATTAAACTATGGCCGA
Found at i:38770616 original size:41 final size:41
Alignment explanation
Indices: 38770422--38770619 Score: 279
Period size: 41 Copynumber: 4.8 Consensus size: 41
38770412 TTTTGTAAGT
* *
38770422 TCGGGCTTTATGCCTAGCAGGCTCTGTGCTGATGAAATGTA
1 TCGGGCTTTATGCCTAGCAGGCTCTGTGCCGGTGAAATGTA
* *
38770463 TTGGGCTTTATGCCTAGCAGGCTCTGTGCCAGTGAAATGTA
1 TCGGGCTTTATGCCTAGCAGGCTCTGTGCCGGTGAAATGTA
* * *
38770504 TTGGGCTTTATGCCTAGCAGGCTCTGTACTGGTGAAATGTA
1 TCGGGCTTTATGCCTAGCAGGCTCTGTGCCGGTGAAATGTA
* *
38770545 TCAGGATTTATGCCTAGCAGGCTCTGTGCCGGTGAAATGTA
1 TCGGGCTTTATGCCTAGCAGGCTCTGTGCCGGTGAAATGTA
* * * *
38770586 TCGGGCTTTGTGTCTAGCAGGCTTTATGCCGGTG
1 TCGGGCTTTATGCCTAGCAGGCTCTGTGCCGGTG
38770620 TTTTATATAA
Statistics
Matches: 139, Mismatches: 18, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
41 139 1.00
ACGTcount: A:0.18, C:0.19, G:0.30, T:0.32
Consensus pattern (41 bp):
TCGGGCTTTATGCCTAGCAGGCTCTGTGCCGGTGAAATGTA
Found at i:38771715 original size:4 final size:4
Alignment explanation
Indices: 38771706--38771734 Score: 58
Period size: 4 Copynumber: 7.2 Consensus size: 4
38771696 ATTTAAATAT
38771706 TAAA TAAA TAAA TAAA TAAA TAAA TAAA T
1 TAAA TAAA TAAA TAAA TAAA TAAA TAAA T
38771735 CTTACTATGT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 25 1.00
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (4 bp):
TAAA
Found at i:38775874 original size:12 final size:13
Alignment explanation
Indices: 38775848--38775878 Score: 55
Period size: 12 Copynumber: 2.5 Consensus size: 13
38775838 AATTAAATTA
38775848 AATTAATTATCTC
1 AATTAATTATCTC
38775861 AATTAATT-TCTC
1 AATTAATTATCTC
38775873 AATTAA
1 AATTAA
38775879 ATAATTTTCT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
12 10 0.56
13 8 0.44
ACGTcount: A:0.42, C:0.13, G:0.00, T:0.45
Consensus pattern (13 bp):
AATTAATTATCTC
Found at i:38784391 original size:45 final size:45
Alignment explanation
Indices: 38784328--38784493 Score: 158
Period size: 45 Copynumber: 3.7 Consensus size: 45
38784318 CGAAATGATA
* * * **
38784328 AAGACCATAGTTGAAAGATACTATGGCACTAAACCGAATATGTGT
1 AAGACCATAGTTGAAAGATACTATGACACTAAACCGAACACGAAT
* * * * *
38784373 AAGGCCATAGTTGAAAGATATTATGACATTAAATCTAACACGAAT
1 AAGACCATAGTTGAAAGATACTATGACACTAAACCGAACACGAAT
* * *
38784418 AAGACCATAGTTGAAAGATACTATGACA-TCACATCAGTA-ACG-AT
1 AAGACCATAGTTGAAAGATACTATGACACT-A-AACCGAACACGAAT
*
38784462 CAAAACCATAGTTGAAAGATACTATGACACTA
1 -AAGACCATAGTTGAAAGATACTATGACACTA
38784494 CTTCGGGAAT
Statistics
Matches: 99, Mismatches: 18, Indels: 8
0.79 0.14 0.06
Matches are distributed among these distances:
44 3 0.03
45 93 0.94
46 3 0.03
ACGTcount: A:0.43, C:0.16, G:0.16, T:0.24
Consensus pattern (45 bp):
AAGACCATAGTTGAAAGATACTATGACACTAAACCGAACACGAAT
Found at i:38785736 original size:18 final size:19
Alignment explanation
Indices: 38785694--38785737 Score: 54
Period size: 18 Copynumber: 2.4 Consensus size: 19
38785684 CCCCTGTTTC
* *
38785694 TAAAATTTTTTGATTTTTT
1 TAAAATTTTCTGATTTATT
38785713 TAAAATTTTCTG-TTTATT
1 TAAAATTTTCTGATTTATT
*
38785731 TCAAATT
1 TAAAATT
38785738 AGTCCTTGAT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
18 11 0.50
19 11 0.50
ACGTcount: A:0.30, C:0.05, G:0.05, T:0.61
Consensus pattern (19 bp):
TAAAATTTTCTGATTTATT
Found at i:38797688 original size:21 final size:21
Alignment explanation
Indices: 38797650--38797690 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
38797640 TTGGGTACAT
**
38797650 GGGCGTATGGGATGGCCACAC
1 GGGCGTATGGGAAAGCCACAC
*
38797671 GGGCGTGTGGGAAAGCCACA
1 GGGCGTATGGGAAAGCCACA
38797691 TGGCTGTGTG
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.22, C:0.22, G:0.44, T:0.12
Consensus pattern (21 bp):
GGGCGTATGGGAAAGCCACAC
Found at i:38802681 original size:16 final size:16
Alignment explanation
Indices: 38802662--38802696 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
38802652 AATAATGAGT
38802662 AAAT-AAAATAACAATG
1 AAATAAAAATAA-AATG
38802678 AAATAAAAATAAAATG
1 AAATAAAAATAAAATG
38802694 AAA
1 AAA
38802697 ACAAGTAGCA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 11 0.61
17 7 0.39
ACGTcount: A:0.74, C:0.03, G:0.06, T:0.17
Consensus pattern (16 bp):
AAATAAAAATAAAATG
Found at i:38813521 original size:36 final size:36
Alignment explanation
Indices: 38813481--38813559 Score: 104
Period size: 36 Copynumber: 2.2 Consensus size: 36
38813471 GCCAACATAC
38813481 GGCCCAAAATTGCGCCCAAAACCACGCACAAAAGAT
1 GGCCCAAAATTGCGCCCAAAACCACGCACAAAAGAT
* * * * * *
38813517 GGCCCAAAATTGTGCCCATAATCACGCCCAACAGCT
1 GGCCCAAAATTGCGCCCAAAACCACGCACAAAAGAT
38813553 GGCCCAA
1 GGCCCAA
38813560 GACCACCGCC
Statistics
Matches: 37, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
36 37 1.00
ACGTcount: A:0.35, C:0.35, G:0.18, T:0.11
Consensus pattern (36 bp):
GGCCCAAAATTGCGCCCAAAACCACGCACAAAAGAT
Found at i:38814891 original size:21 final size:21
Alignment explanation
Indices: 38814843--38814891 Score: 55
Period size: 21 Copynumber: 2.3 Consensus size: 21
38814833 ATAGTGGTGG
*
38814843 CGGTGAGATTAATTACTGTAG
1 CGGTGAGATTAATTACTGTAA
**
38814864 CTTTGAGATTAGA-TACTGTAA
1 CGGTGAGATTA-ATTACTGTAA
38814885 CGGTGAG
1 CGGTGAG
38814892 GTGAGATTAG
Statistics
Matches: 22, Mismatches: 5, Indels: 2
0.76 0.17 0.07
Matches are distributed among these distances:
21 21 0.95
22 1 0.05
ACGTcount: A:0.29, C:0.10, G:0.29, T:0.33
Consensus pattern (21 bp):
CGGTGAGATTAATTACTGTAA
Found at i:38818625 original size:17 final size:17
Alignment explanation
Indices: 38818605--38818665 Score: 86
Period size: 17 Copynumber: 3.6 Consensus size: 17
38818595 GCATAAGAAC
38818605 AGTTCATTCAATATAAT
1 AGTTCATTCAATATAAT
* *
38818622 AGTTCATACAATATAAC
1 AGTTCATTCAATATAAT
*
38818639 ATTTCATTCAATATAAT
1 AGTTCATTCAATATAAT
*
38818656 AATTCATTCA
1 AGTTCATTCA
38818666 TACCACATCG
Statistics
Matches: 38, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
17 38 1.00
ACGTcount: A:0.43, C:0.15, G:0.03, T:0.39
Consensus pattern (17 bp):
AGTTCATTCAATATAAT
Found at i:38819771 original size:31 final size:30
Alignment explanation
Indices: 38819645--38819789 Score: 94
Period size: 31 Copynumber: 4.5 Consensus size: 30
38819635 TCCACGCATG
*
38819645 TATATATTATATATATAACAAGACCATTTTACACA
1 TATATA-T-TATATATAACAAGACCA---TAAACA
* * * *
38819680 TATTTATTATATAAAACATGACCTTCAAACGCA
1 TATATATTATATATAACAAGACCAT-AAA--CA
*** *
38819713 TATATATTATATATTTTATGACCCATAAACA
1 TATATATTATATATAACAAGA-CCATAAACA
*
38819744 TATATATTATATATAACAAGACGCATAAATA
1 TATATATTATATATAACAAGAC-CATAAACA
38819775 TAT-TATTTATATATA
1 TATATA-TTATATATA
38819790 TCTATTTAAA
Statistics
Matches: 88, Mismatches: 16, Indels: 16
0.73 0.13 0.13
Matches are distributed among these distances:
30 4 0.05
31 40 0.45
33 35 0.40
34 4 0.05
35 5 0.06
ACGTcount: A:0.45, C:0.12, G:0.04, T:0.39
Consensus pattern (30 bp):
TATATATTATATATAACAAGACCATAAACA
Found at i:38822455 original size:7 final size:8
Alignment explanation
Indices: 38822442--38822466 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
38822432 AGAAAATACG
38822442 AAAAAAAT
1 AAAAAAAT
38822450 AAAAAAAT
1 AAAAAAAT
38822458 AAAAAAAT
1 AAAAAAAT
38822466 A
1 A
38822467 TTTTGTGGGT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.88, C:0.00, G:0.00, T:0.12
Consensus pattern (8 bp):
AAAAAAAT
Found at i:38825168 original size:68 final size:69
Alignment explanation
Indices: 38824985--38825185 Score: 185
Period size: 68 Copynumber: 2.9 Consensus size: 69
38824975 GTAGCTCTAG
* * *** *
38824985 CACAGCTAGCGGACCTACGCTCTCAACTGATGTCATAAAGGTATATTGATTTAAGATCACAACCT
1 CACAGCTAGCGGACCTACGCTCCCAACTGATGTCATAAAGGTTTGCAGAGTTAAGATCACAACCT
38825050 CCAA
66 CCAA
* * * * * * * * * *
38825054 -AGTAGCTAACGGACCTACTCTCCCAACTAATATTAT-AAGAGCTTGCAGAGTTAAGTTCGC-AG
1 CA-CAGCTAGCGGACCTACGCTCCCAACTGATGTCATAAAG-GTTTGCAGAGTTAAGATCACAAC
38825116 CTCCAA
64 CTCCAA
* * *
38825122 CACAGCTAGTGGACCTACGCTCCCAACTGATGTCATAAAGGTTTGCA-ATTTAAGATCCCAACCT
1 CACAGCTAGCGGACCTACGCTCCCAACTGATGTCATAAAGGTTTGCAGAGTTAAGATCACAACCT
38825186 TCAAAGCAAC
Statistics
Matches: 99, Mismatches: 28, Indels: 11
0.72 0.20 0.08
Matches are distributed among these distances:
67 9 0.09
68 47 0.47
69 43 0.43
ACGTcount: A:0.32, C:0.26, G:0.17, T:0.25
Consensus pattern (69 bp):
CACAGCTAGCGGACCTACGCTCCCAACTGATGTCATAAAGGTTTGCAGAGTTAAGATCACAACCT
CCAA
Found at i:38825250 original size:136 final size:136
Alignment explanation
Indices: 38824970--38825267 Score: 334
Period size: 136 Copynumber: 2.2 Consensus size: 136
38824960 ACATTATAAG
* * * *
38824970 AGCTCGTAGCTCTAGCACAGCTAGCGGACCTACGCTCTCAACTGATGTCATAAAGGTATATTGAT
1 AGCTCGCAGCTCCAACACAGCTAGCGGACCTACGCTCCCAACTGATGTCATAAAGG-ATATTGAT
* * ** * * *
38825035 TTAAGATCACAACCTCCAAAGTAGCTAACGGACCTACTCTCCCAACTAATATTATAAGAGCTTGC
65 TTAAGATCACAACCTCCAAAGCAACTAACAAACCTAATCTCCAAACTAACATTATAAGAGCTTGC
*
38825100 AGAGTTA
130 AGAATTA
* *
38825107 AGTTCGCAGCTCCAACACAGCTAGTGGACCTACGCTCCCAACTGATGTCATAAAGG-T-TTGCAA
1 AGCTCGCAGCTCCAACACAGCTAGCGGACCTACGCTCCCAACTGATGTCATAAAGGATATTG--A
* * * *
38825170 TTTAAGATCCCAACCTTCAAAGCAACTAGCAAACCTAAAT-TCCAAACTGACATTATAAGAGCTC
64 TTTAAGATCACAACCTCCAAAGCAACTAACAAACCT-AATCTCCAAACTAACATTATAAGAGCT-
38825234 T-CAGAATTA
127 TGCAGAATTA
* * *
38825243 AGCTCGCAGATCCAATACAACTAGC
1 AGCTCGCAGCTCCAACACAGCTAGC
38825268 AAGACTACCT
Statistics
Matches: 134, Mismatches: 23, Indels: 9
0.81 0.14 0.05
Matches are distributed among these distances:
134 3 0.02
135 1 0.01
136 77 0.57
137 53 0.40
ACGTcount: A:0.34, C:0.26, G:0.16, T:0.24
Consensus pattern (136 bp):
AGCTCGCAGCTCCAACACAGCTAGCGGACCTACGCTCCCAACTGATGTCATAAAGGATATTGATT
TAAGATCACAACCTCCAAAGCAACTAACAAACCTAATCTCCAAACTAACATTATAAGAGCTTGCA
GAATTA
Found at i:38833206 original size:51 final size:52
Alignment explanation
Indices: 38833110--38833217 Score: 123
Period size: 51 Copynumber: 2.1 Consensus size: 52
38833100 TATATATTTG
* * *
38833110 AATTTTTTAGAATTAGGATCAAATTGAGATTATTTGTAAATTTTGAGGATTA
1 AATTTTTTAGAATTAGGATCAAATTGAGATAATATGTAAATTTTGAGGACTA
* * *
38833162 AATTTTTTA-AATTATGA-CTAAATTGATATAATATGTCAAA-TTTGAGGGCTA
1 AATTTTTTAGAATTAGGATC-AAATTGAGATAATATGT-AAATTTTGAGGACTA
38833213 AATTT
1 AATTT
38833218 GTTATTCTAA
Statistics
Matches: 48, Mismatches: 6, Indels: 5
0.81 0.10 0.08
Matches are distributed among these distances:
50 1 0.02
51 35 0.73
52 12 0.25
ACGTcount: A:0.38, C:0.04, G:0.15, T:0.44
Consensus pattern (52 bp):
AATTTTTTAGAATTAGGATCAAATTGAGATAATATGTAAATTTTGAGGACTA
Found at i:38843408 original size:13 final size:13
Alignment explanation
Indices: 38843392--38843421 Score: 60
Period size: 13 Copynumber: 2.3 Consensus size: 13
38843382 CCCCTATGAC
38843392 ACTTAGATATGGT
1 ACTTAGATATGGT
38843405 ACTTAGATATGGT
1 ACTTAGATATGGT
38843418 ACTT
1 ACTT
38843422 CAAGACCAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.30, C:0.10, G:0.20, T:0.40
Consensus pattern (13 bp):
ACTTAGATATGGT
Found at i:38852829 original size:9 final size:9
Alignment explanation
Indices: 38852812--38852868 Score: 61
Period size: 9 Copynumber: 6.8 Consensus size: 9
38852802 CCCGTTAGGT
*
38852812 TTTTTGGGC
1 TTTTAGGGC
38852821 TTTTAGGGC
1 TTTTAGGGC
38852830 TTTTAGGG-
1 TTTTAGGGC
38852838 -TTTAGGG-
1 TTTTAGGGC
38852845 -TTT-GGGC
1 TTTTAGGGC
38852852 TTTTTAGGGC
1 -TTTTAGGGC
38852862 TTTTAGG
1 TTTTAGG
38852869 TCCTGGAAGA
Statistics
Matches: 43, Mismatches: 1, Indels: 8
0.83 0.02 0.15
Matches are distributed among these distances:
6 3 0.07
7 10 0.23
9 26 0.60
10 4 0.09
ACGTcount: A:0.09, C:0.07, G:0.35, T:0.49
Consensus pattern (9 bp):
TTTTAGGGC
Found at i:38853087 original size:125 final size:124
Alignment explanation
Indices: 38852865--38853241 Score: 619
Period size: 125 Copynumber: 3.0 Consensus size: 124
38852855 TTAGGGCTTT
* *
38852865 TAGGTCCTGGAAGAAATAATTTCGAGTTGACGTTTCTGATCAAATAGTATAAAATCGCTTCTAGA
1 TAGGTCCTGGAAGAAATAATTTCGAGTTGACGTTTCTGAGCAAATAGTATAAAATCGCTTCTAGC
* *
38852930 AGAATGTTGTTTGATAAGAATTTGTGAAATCGCACCCTCGTGGACGCGCTTTTGCTACAG
66 AG-ATGCTGTTTGAGAAGAATTTGTGAAATCGCACCCTCGTGGACGCGCTTTTGCTACAG
38852990 TAGGTCCTGGAAGAAATAATTTCGAGTTGACGTTTCTGAGCAAATAGTATAAAATCGCTTCTAGC
1 TAGGTCCTGGAAGAAATAATTTCGAGTTGACGTTTCTGAGCAAATAGTATAAAATCGCTTCTAGC
*
38853055 AGTATGCTGTTTGAGAAGAATTTGTGAAATCGCGCCCTCGTGGACGCGCTTTTGCTACAG
66 AG-ATGCTGTTTGAGAAGAATTTGTGAAATCGCACCCTCGTGGACGCGCTTTTGCTACAG
*
38853115 TAGGTCATGGAAGAAATAATTTCGAGTTGACGTTTCTGAGCAAATAGTATAAAATCGCTTCTAGC
1 TAGGTCCTGGAAGAAATAATTTCGAGTTGACGTTTCTGAGCAAATAGTATAAAATCGCTTCTAGC
* * * * * *
38853180 AAGATGCTATTTGAGAATAATTTGTGAAAGCGTACCCTCGTGGACGCACTTTTACTACAG
66 -AGATGCTGTTTGAGAAGAATTTGTGAAATCGCACCCTCGTGGACGCGCTTTTGCTACAG
38853240 TA
1 TA
38853242 ACATGTTTGG
Statistics
Matches: 237, Mismatches: 14, Indels: 2
0.94 0.06 0.01
Matches are distributed among these distances:
125 235 0.99
126 2 0.01
ACGTcount: A:0.30, C:0.16, G:0.23, T:0.31
Consensus pattern (124 bp):
TAGGTCCTGGAAGAAATAATTTCGAGTTGACGTTTCTGAGCAAATAGTATAAAATCGCTTCTAGC
AGATGCTGTTTGAGAAGAATTTGTGAAATCGCACCCTCGTGGACGCGCTTTTGCTACAG
Found at i:38856481 original size:22 final size:21
Alignment explanation
Indices: 38856455--38856776 Score: 181
Period size: 22 Copynumber: 14.6 Consensus size: 21
38856445 CTAGTTTAAA
38856455 GTTTTAACGTTAAGGGTTAAGG
1 GTTTTAA-GTTAAGGGTTAAGG
38856477 GTTTTTAAGTTAAGGGTTAAGG
1 G-TTTTAAGTTAAGGGTTAAGG
*
38856499 TTTTTAAGTTAAGGGTT-AGG
1 GTTTTAAGTTAAGGGTTAAGG
38856519 GTTTTAAGTTAAGGGTTTAA-G
1 GTTTTAAGTTAAGGG-TTAAGG
* **
38856540 GTTTTAAATTAAATTAGTT-AGG
1 GTTTTAAGTT-AA-GGGTTAAGG
* *
38856562 GTTTTTAAGTTTAAGGGTTTATGA
1 G-TTTTAAG-TTAAGGG-TTAAGG
* ** *
38856586 TTTTTAA-TTAAATTAGTTTAGG
1 GTTTTAAGTT-AA-GGGTTAAGG
38856608 GTTTTTAAGTTAAAGGGTT-AGG
1 G-TTTTAAGTT-AAGGGTTAAGG
* *
38856630 GTTTTTAAATTTAAGGATTTAAGG
1 G-TTTT-AAGTTAAGG-GTTAAGG
* ** *
38856654 TTTTTAA-TTAAATTAGTTTAGG
1 GTTTTAAGTT-AA-GGGTTAAGG
38856676 GTTTTTAAGTTAAGGGCTT-AGG
1 G-TTTTAAGTTAAGGG-TTAAGG
* *
38856698 GTTTTTAATTTTAAGGGTTTAGG
1 G-TTTTAA-GTTAAGGGTTAAGG
* *
38856721 GTTTTTAATTTAAGGGTTATGG
1 G-TTTTAAGTTAAGGGTTAAGG
* ** *
38856743 TTTTTAAGTTAAGCATTTAGG
1 GTTTTAAGTTAAGGGTTAAGG
38856764 GTTTTAAGTTAAG
1 GTTTTAAGTTAAG
38856777 AGTTTATGAT
Statistics
Matches: 237, Mismatches: 39, Indels: 49
0.73 0.12 0.15
Matches are distributed among these distances:
20 17 0.07
21 60 0.25
22 76 0.32
23 71 0.30
24 13 0.05
ACGTcount: A:0.28, C:0.01, G:0.25, T:0.46
Consensus pattern (21 bp):
GTTTTAAGTTAAGGGTTAAGG
Found at i:38856875 original size:73 final size:74
Alignment explanation
Indices: 38856758--38856905 Score: 223
Period size: 74 Copynumber: 2.0 Consensus size: 74
38856748 AAGTTAAGCA
38856758 TTTAGGGTTTTAAGTTAAGAGTTTATGATTTTTTAATTAAATTAGTTTAGGG-TTTTAAGTTAAG
1 TTTAGGGTTTTAAGTTAAGAGTTTATGATTTTTTAATTAAATTAGTTTAGGGTTTTTAAGTTAAG
38856822 GG-TTAGGG
66 GGTTTAGGG
* *
38856830 TTTAGGGTTTTTTAATTTAAGGGTTTA-G-TATTTTTAATTAAATTAGTTTAGGGTTTTTAAGTT
1 TTTAGGG--TTTTAAGTTAAGAGTTTATGAT-TTTTTAATTAAATTAGTTTAGGGTTTTTAAGTT
38856893 AAGGGTTTAGGG
63 AAGGGTTTAGGG
38856905 T
1 T
38856906 CTTTAATGAA
Statistics
Matches: 69, Mismatches: 2, Indels: 7
0.88 0.03 0.09
Matches are distributed among these distances:
72 8 0.12
73 24 0.35
74 30 0.43
75 7 0.10
ACGTcount: A:0.26, C:0.00, G:0.24, T:0.49
Consensus pattern (74 bp):
TTTAGGGTTTTAAGTTAAGAGTTTATGATTTTTTAATTAAATTAGTTTAGGGTTTTTAAGTTAAG
GGTTTAGGG
Found at i:38857019 original size:22 final size:22
Alignment explanation
Indices: 38856456--38858208 Score: 1137
Period size: 23 Copynumber: 78.4 Consensus size: 22
38856446 TAGTTTAAAG
*
38856456 TTTTAACGTTAAGGGTTAAGGGT
1 TTTTAA-GTTAAGGGTTTAGGGT
*
38856479 TTTTAAGTTAAGGG-TTAAGGT
1 TTTTAAGTTAAGGGTTTAGGGT
38856500 TTTTAAGTTAAGGG-TTAGGG-
1 TTTTAAGTTAAGGGTTTAGGGT
*
38856520 TTTTAAGTTAAGGGTTTAAGG-
1 TTTTAAGTTAAGGGTTTAGGGT
* **
38856541 TTTTAAATTAA-ATTAGTTAGGGT
1 TTTTAAGTTAAGGGT--TTAGGGT
* *
38856564 TTTTAAGTTTAAGGGTTTATGAT
1 TTTTAAG-TTAAGGGTTTAGGGT
**
38856587 TTTTAA-TTAAATTAGTTTAGGGT
1 TTTTAAGTT-AA-GGGTTTAGGGT
38856610 TTTTAAGTTAAAGGG-TTAGGGT
1 TTTTAAGTT-AAGGGTTTAGGGT
* * *
38856632 TTTTAAATTTAAGGATTTAAGGT
1 TTTT-AAGTTAAGGGTTTAGGGT
**
38856655 TTTTAA-TTAAATTAGTTTAGGGT
1 TTTTAAGTT-AA-GGGTTTAGGGT
*
38856678 TTTTAAGTTAAGGGCTTAGGGT
1 TTTTAAGTTAAGGGTTTAGGGT
*
38856700 TTTTAATTTTAAGGGTTTAGGGT
1 TTTTAA-GTTAAGGGTTTAGGGT
* *
38856723 TTTTAATTTAAGGG-TTATGGT
1 TTTTAAGTTAAGGGTTTAGGGT
**
38856744 TTTTAAGTTAAGCATTTAGGG-
1 TTTTAAGTTAAGGGTTTAGGGT
* **
38856765 TTTTAAGTTAAGAGTTTATGATT
1 TTTTAAGTTAAGGGTTTA-GGGT
**
38856788 TTTTAA-TTAAATTAGTTTAGGG-
1 TTTTAAGTT-AA-GGGTTTAGGGT
38856810 TTTTAAGTTAAGGGTTAGGGTTTAGGGT
1 TTTTAAGTT-A-----AGGGTTTAGGGT
* * * * * * **
38856838 TTTTTAATTTAAGGGTTTAGTAT
1 TTTTAAGTTAAGGGTTTA-GGGT
**
38856861 TTTTAA-TTAAATTAGTTTAGGGT
1 TTTTAAGTT-AA-GGGTTTAGGGT
38856884 TTTTAAGTTAAGGGTTTAGGGT
1 TTTTAAGTTAAGGGTTTAGGGT
* * ** *
38856906 CTTTAA-TGAAATTAGTTTATGGT
1 TTTTAAGT-TAA-GGGTTTAGGGT
38856929 TTTTAAGTTAAGGGTTAGGGTTTAGGGT
1 TTTTAAGTT-A-----AGGGTTTAGGGT
** * * * ** *
38856957 TTTTATTTTTAAGGGTTTAGGG
1 TTTTAAGTTAAGGGTTTAGGGT
** *
38856979 TTTTTAA-TTAAATTAGTTTAGGAT
1 TTTT-AAGTT-AA-GGGTTTAGGGT
*
38857003 TTTTAAGTTAAGGGTTTATGGT
1 TTTTAAGTTAAGGGTTTAGGGT
*
38857025 TTTTAACTTTAAGGGTTTAGGGT
1 TTTTAA-GTTAAGGGTTTAGGGT
* *
38857048 TTTTAATTTATGGG-TTAGGGT
1 TTTTAAGTTAAGGGTTTAGGGT
*
38857069 TTTTAAGTTAAGGG-TTAAGGT
1 TTTTAAGTTAAGGGTTTAGGGT
*
38857090 TTTTAAGTTAAGGGTTTAGGAT
1 TTTTAAGTTAAGGGTTTAGGGT
* *
38857112 TTTTAATTTTAAGGGGTTAGGGT
1 TTTTAA-GTTAAGGGTTTAGGGT
* **
38857135 TTTTAATTTAATTAGTTTAGGGT
1 TTTTAAGTTAA-GGGTTTAGGGT
* *
38857158 TTTGAAGTTAAGGGTTTAGTGT
1 TTTTAAGTTAAGGGTTTAGGGT
*
38857180 TTTTAATTTTAAGGGTTTAGGGT
1 TTTTAA-GTTAAGGGTTTAGGGT
*
38857203 TTTTAATTTAAGGG-TTAGGG-
1 TTTTAAGTTAAGGGTTTAGGGT
*
38857223 TTTTAAGTTAATGGTTTAGGGT
1 TTTTAAGTTAAGGGTTTAGGGT
* *
38857245 TTTTAATTTTAAGGATTTAGGGT
1 TTTTAA-GTTAAGGGTTTAGGGT
*
38857268 TTTTAATTTAAGGG-TTA-GGT
1 TTTTAAGTTAAGGGTTTAGGGT
38857288 TTTTAAGTTAAGGGTTTAGGGT
1 TTTTAAGTTAAGGGTTTAGGGT
**
38857310 TTTTAA-TTAAATTAGTTTAGGGT
1 TTTTAAGTT-AA-GGGTTTAGGGT
38857333 TTTTAAGTTAAGGGTTTAGGGT
1 TTTTAAGTTAAGGGTTTAGGGT
** *
38857355 TTTTAA-TTAAATTAGTTTAGAGT
1 TTTTAAGTT-AA-GGGTTTAGGGT
38857378 TTTTAAGTTAAGGG-TTAGGGT
1 TTTTAAGTTAAGGGTTTAGGGT
*
38857399 TTTTAAGTTTAAGAGTTT----T
1 TTTTAAG-TTAAGGGTTTAGGGT
* * *
38857418 TAATTAAATT-A--GTTTAGCGT
1 T-TTTAAGTTAAGGGTTTAGGGT
38857438 TTTTAAGTTAAGGG-TTAGGG-
1 TTTTAAGTTAAGGGTTTAGGGT
* * *
38857458 -TTT-AG----GGTTTAAGGTT
1 TTTTAAGTTAAGGGTTTAGGGT
* *
38857474 TTTTAATTTAAAGGTTTAGGGT
1 TTTTAAGTTAAGGGTTTAGGGT
**
38857496 TTTTAA-TTGAATTAGTTTAGGGTTTAAT
1 TTTTAAGTT-AA-GGGTTTAGGG-----T
38857524 TTTTAAGTTAAGGGTTTAGGGT
1 TTTTAAGTTAAGGGTTTAGGGT
**
38857546 TTTTAA-TTAAATTTGTTTAGGGT
1 TTTTAAGTT-AA-GGGTTTAGGGT
*
38857569 TTTTAAGTTAAGGG-TTAGAGT
1 TTTTAAGTTAAGGGTTTAGGGT
* *
38857590 TTTTAAGTTTAAAGATTTAGGG-
1 TTTTAAG-TTAAGGGTTTAGGGT
* **
38857612 TTTTAAATTAAATTAGTTTAGGG-
1 TTTTAAGTT-AA-GGGTTTAGGGT
38857635 TTTTAAGTTAAGGGTTAGGGTTTAGGGT
1 TTTTAAGTT-A-----AGGGTTTAGGGT
** * * * ** *
38857663 TTTTATTTTTAAGGATTTAGGG
1 TTTTAAGTTAAGGGTTTAGGGT
**
38857685 TTTTTAA-TTAAATTAGTTTAGGGTTT
1 TTTT-AAGTT-AA-GGGTTTAGGG--T
*
38857711 TTAATTAAGTTAAAGGTTTAGGGT
1 TT--TTAAGTTAAGGGTTTAGGGT
*
38857735 TTTTAATTTTAAGGGTTTAGGGT
1 TTTTAA-GTTAAGGGTTTAGGGT
* * *
38857758 TTTTAA-TTTACGGTTTAGGAT
1 TTTTAAGTTAAGGGTTTAGGGT
*
38857779 TTTTAAGTTAAGGG-TTAAGGT
1 TTTTAAGTTAAGGGTTTAGGGT
*
38857800 TTTTGAGTTAAGGGTTTAGGGT
1 TTTTAAGTTAAGGGTTTAGGGT
* *
38857822 TTTTAATTTTAAGGGTTTATGGT
1 TTTTAA-GTTAAGGGTTTAGGGT
**
38857845 TTTTAA-TTAAATTAGTTTAGGGT
1 TTTTAAGTT-AA-GGGTTTAGGGT
*
38857868 TTTTAAATTAAGGGTTTAGGGT
1 TTTTAAGTTAAGGGTTTAGGGT
* *
38857890 TTTTAATTTTAAGGTTTTAGGGT
1 TTTTAA-GTTAAGGGTTTAGGGT
** *
38857913 TTTTAA-TTAAATTAGTTTAGGGA
1 TTTTAAGTT-AA-GGGTTTAGGGT
*
38857936 TTTTAAGTTAAGGGCTTAGGGT
1 TTTTAAGTTAAGGGTTTAGGGT
*
38857958 TTTTAATTTTAAGGGTTTAGGGT
1 TTTTAA-GTTAAGGGTTTAGGGT
* *
38857981 TTTTAATTTAAGGG-TTAGAGT
1 TTTTAAGTTAAGGGTTTAGGGT
* * *
38858002 TTTTAAGTTAATGGCTTATGGT
1 TTTTAAGTTAAGGGTTTAGGGT
*
38858024 TTTTAATTTTAAGGGTTTAGGGT
1 TTTTAA-GTTAAGGGTTTAGGGT
*
38858047 TTTTAATTTAAGGGTTTAGGGT
1 TTTTAAGTTAAGGGTTTAGGGT
***
38858069 TTTTAA-TTAAATTATCTTAGGGT
1 TTTTAAGTT-AAGGGT-TTAGGGT
38858092 TTTTAAGTTAAGGGTTTAGGGT
1 TTTTAAGTTAAGGGTTTAGGGT
* *
38858114 TTTTAATTTAAGGG-TTAGTGT
1 TTTTAAGTTAAGGGTTTAGGGT
* *
38858135 TTTTAATTTAAGGG-TTAAGGT
1 TTTTAAGTTAAGGGTTTAGGGT
*
38858156 TTTTAAGTTAAGGGTTTATGGT
1 TTTTAAGTTAAGGGTTTAGGGT
*
38858178 TTTTAATTTTAAGGGTTTAGGGT
1 TTTTAA-GTTAAGGGTTTAGGGT
38858201 TTTTAAGT
1 TTTTAAGT
38858209 AATAACTCAA
Statistics
Matches: 1365, Mismatches: 239, Indels: 253
0.74 0.13 0.14
Matches are distributed among these distances:
14 2 0.00
15 4 0.00
16 4 0.00
17 3 0.00
18 4 0.00
19 13 0.01
20 50 0.04
21 273 0.20
22 392 0.29
23 480 0.35
24 54 0.04
25 1 0.00
26 10 0.01
27 28 0.02
28 44 0.03
29 3 0.00
ACGTcount: A:0.26, C:0.01, G:0.25, T:0.49
Consensus pattern (22 bp):
TTTTAAGTTAAGGGTTTAGGGT
Found at i:38857421 original size:60 final size:62
Alignment explanation
Indices: 38857039--38857657 Score: 316
Period size: 65 Copynumber: 9.5 Consensus size: 62
38857029 AACTTTAAGG
* *
38857039 GTTTAGGGTTTTTAATTTATGGGTTAGGGTTTTTAAG-TTAAGGGTTAAGGTTTTTAAGTT-AA-
1 GTTTAGGGTTTTTAAGTTAAGGGTTAGGGTTTTTAAGTTTAA--G-T-AGGTTTTTAA-TTAAAT
**
38857101 GG
61 TA
* * *
38857103 GTTTAGGATTTTTAATTTTAAGGGGTTAGGGTTTTTAA-TTTAATTAGTTTAGGGTTTTGAAGTT
1 GTTTAGGGTTTTTAA-GTTAA-GGGTTAGGGTTTTTAAGTTT-A--AG--TA-GGTTTTTAA-TT
**
38857167 -AA-GG
57 AAATTA
* * *
38857171 GTTTAGTGTTTTTAATTTTAAGGGTTTAGGGTTTTTAA-TTTAAGGGTTAGGGTTTTAAGTT-AA
1 GTTTAGGGTTTTTAA-GTTAAGGG-TTAGGGTTTTTAAGTTTAA--G-TAGGTTTTTAA-TTAAA
*
38857234 -TG
60 TTA
* *
38857236 GTTTAGGGTTTTTAATTTTAAGGATTTAGGGTTTTTAA-TTTAAGGGTTAGGTTTTTAAGTT-AA
1 GTTTAGGGTTTTTAA-GTTAAGG-GTTAGGGTTTTTAAGTTTAA--G-TAGGTTTTTAA-TTAAA
**
38857299 -GG
60 TTA
* *
38857301 GTTTAGGGTTTTTAA-TTAAATTAGTTTAGGGTTTTTAAG-TTAAGGGTTTAGGGTTTTTAATTA
1 GTTTAGGGTTTTTAAGTT-AA--GGGTTAGGGTTTTTAAGTTTAA--G--TA-GGTTTTTAATTA
38857364 AATTA
58 AATTA
*
38857369 GTTTAGAGTTTTTAAGTTAAGGGTTAGGGTTTTTAAGTTTAAG-A-GTTTTTAATTAAATTA
1 GTTTAGGGTTTTTAAGTTAAGGGTTAGGGTTTTTAAGTTTAAGTAGGTTTTTAATTAAATTA
* * * *
38857429 GTTTAGCGTTTTTAAGTTAAGGGTTAGGG--TTTAGGGTTTAAG--GTTTTTTAATTTAAA--G
1 GTTTAGGGTTTTTAAGTTAAGGGTTAGGGTTTTTA-AGTTTAAGTAGGTTTTTAA-TTAAATTA
* *
38857487 GTTTAGGGTTTTTAA-TTGAATTAGTTTAGGGTTTAATTTTTAAG-TTAAGGGTTTAGGGTTTTT
1 GTTTAGGGTTTTTAAGTT-AA--GGGTTAGGG-----TTTTTAAGTTTAA--G--TA-GGTTTTT
*
38857550 AATTAAATTT
53 AATTAAATTA
* *
38857560 GTTTAGGGTTTTTAAGTTAAGGGTTAGAGTTTTTAAGTTTAAAGATTTAGGGTTTTAAATTAAAT
1 GTTTAGGGTTTTTAAGTTAAGGGTTAGGGTTTTTAAGTTT-AAG---TA-GGTTTTTAATTAAAT
38857625 TA
61 TA
38857627 GTTTAGGG-TTTTAAGTTAAGGGTTAGGGTTT
1 GTTTAGGGTTTTTAAGTTAAGGGTTAGGGTTT
38857658 AGGGTTTTTA
Statistics
Matches: 473, Mismatches: 34, Indels: 94
0.79 0.06 0.16
Matches are distributed among these distances:
57 2 0.00
58 20 0.04
59 14 0.03
60 56 0.12
62 1 0.00
63 2 0.00
64 16 0.03
65 119 0.25
66 74 0.16
67 58 0.12
68 70 0.15
69 3 0.01
71 11 0.02
72 8 0.02
73 17 0.04
74 2 0.00
ACGTcount: A:0.26, C:0.00, G:0.25, T:0.49
Consensus pattern (62 bp):
GTTTAGGGTTTTTAAGTTAAGGGTTAGGGTTTTTAAGTTTAAGTAGGTTTTTAATTAAATTA
Found at i:38857547 original size:73 final size:71
Alignment explanation
Indices: 38857179--38858161 Score: 279
Period size: 66 Copynumber: 14.7 Consensus size: 71
38857169 GGGTTTAGTG
* * *
38857179 TTTTTAATTTTAAGGGTTTAGGGTTTTTAATTT-AAGGGTTAGGG-TTTTAAGTT-AA-TGGTTT
1 TTTTTAA-GTTAAGGGTTTAGGGTTTTTAATTTAAAGGTTTAGGGTTTTTAA-TTGAATTAGTTT
38857240 AGGG----
64 AGGGTTAA
* * * **
38857244 TTTTTAATTTTAAGGATTTAGGGTTTTTAATTT-AAGGGTTA-GGTTTTTAAGTT-AA-GGGTTT
1 TTTTTAA-GTTAAGGGTTTAGGGTTTTTAATTTAAAGGTTTAGGGTTTTTAA-TTGAATTAGTTT
38857305 AGGGTT--
64 AGGGTTAA
* * * *
38857311 TTTAATTAAATT-A--GTTTAGGGTTTTTAAGTTAAGGGTTTAGGGTTTTTAATTAAATTAGTTT
1 TTT--TTAAGTTAAGGGTTTAGGGTTTTTAATTTAAAGGTTTAGGGTTTTTAATTGAATTAGTTT
*
38857373 A--G--AG
64 AGGGTTAA
*
38857377 TTTTTAAGTTAAGGG-TTAGGGTTTTTAAGTTT-AA-G---A--GTTTTTAATTAAATTAGTTTA
1 TTTTTAAGTTAAGGGTTTAGGGTTTTTAA-TTTAAAGGTTTAGGGTTTTTAATTGAATTAGTTTA
*
38857434 GCG----
65 GGGTTAA
**** *
38857437 TTTTTAAGTTAAGGG-TTAGGGTTTAGGGTTT-AAGGTTT------TTTAATTTAA--AGGTTTA
1 TTTTTAAGTTAAGGGTTTAGGGTTTTTAATTTAAAGGTTTAGGGTTTTTAATTGAATTA-GTTTA
38857492 GGGTTTTTAA
65 GGG---TTAA
* * * * * * *
38857502 TTGAATT-AGTTTAGGGTTTA--ATTTTTAAGTTAAGGGTTTAGGGTTTTTAATTAAATTTGTTT
1 TT--TTTAAGTTAAGGGTTTAGGGTTTTTAATTTAAAGGTTTAGGGTTTTTAATTGAATTAGTTT
38857564 AGGG----
64 AGGGTTAA
* * * *
38857568 TTTTTAAGTTAAGGG-TTAGAGTTTTTAAGTTTAAAGATTTAGGGTTTTAAATTAAATTAGTTTA
1 TTTTTAAGTTAAGGGTTTAGGGTTTTTAA-TTTAAAGGTTTAGGGTTTTTAATTGAATTAGTTTA
38857632 GGGTT--
65 GGGTTAA
* * * *
38857637 TTAAGTTAAGGGTT-AGGGTTTAGGGTTTTTATTTTTAAGGATTTAGGGTTTTTAATTAAATTAG
1 TT--TTTAA--GTTAAGGGTTTAGGGTTTTTAATTTAAAGG-TTTAGGGTTTTTAATTGAATTAG
38857701 TTTAGGGTT--
61 TTTAGGGTTAA
* * * **
38857710 TTTAATTAAGTTAAAGGTTTAGGGTTTTTAATTTTAAGGGTTTAGGGTTTTTAATT-TA-CGGTT
1 TTT--TTAAGTTAAGGGTTTAGGGTTTTTAA-TTTAAAGGTTTAGGGTTTTTAATTGAATTAGTT
38857773 TA-GG---A
63 TAGGGTTAA
* * * * * **
38857778 TTTTTAAGTTAAGGG-TTAAGGTTTTTGAGTTAAGGGTTTAGGGTTTTTAATTTTAA-GGGTTTA
1 TTTTTAAGTTAAGGGTTTAGGGTTTTTAATTTAAAGGTTTAGGGTTTTTAA-TTGAATTAGTTTA
*
38857841 TGGTT--
65 GGGTTAA
* * *
38857846 TTTAATTAAATT-A--GTTTAGGGTTTTTAAATTAAGGGTTTAGGGTTTTTAATT---TTAAGGT
1 TTT--TTAAGTTAAGGGTTTAGGGTTTTTAATTTAAAGGTTTAGGGTTTTTAATTGAATT-A-G-
38857905 TTTAGGGTT--
61 TTTAGGGTTAA
* * * * * * **
38857914 TTTAATTAAATT-A--GTTTAGGGATTTTAAGTTAAGGGCTTAGGGTTTTTAATTTTAA-GGGTT
1 TTT--TTAAGTTAAGGGTTTAGGGTTTTTAATTTAAAGGTTTAGGGTTTTTAA-TTGAATTAGTT
38857975 TAGGG----
63 TAGGGTTAA
* * * * * * * **
38857980 TTTTTAATTTAAGGG-TTAGAGTTTTTAAGTTAATGGCTTATGGTTTTTAATTTTAA-GGGTTTA
1 TTTTTAAGTTAAGGGTTTAGGGTTTTTAATTTAAAGGTTTAGGGTTTTTAA-TTGAATTAGTTTA
38858043 GGG----
65 GGGTTAA
* ** **
38858046 TTTTTAATTTAAGGGTTTAGGGTTTTTAA-TTAAATTATCTTAGGGTTTTTAAGTT-AA-GGGTT
1 TTTTTAAGTTAAGGGTTTAGGGTTTTTAATTTAAA-GGT-TTAGGGTTTTTAA-TTGAATTAGTT
38858108 TAGGG----
63 TAGGGTTAA
* * * *
38858113 TTTTTAATTTAAGGG-TTAGTGTTTTTAATTT-AAGGGTTAAGGTTTTTAA
1 TTTTTAAGTTAAGGGTTTAGGGTTTTTAATTTAAAGGTTTAGGGTTTTTAA
38858162 GTTAAGGGTT
Statistics
Matches: 751, Mismatches: 86, Indels: 163
0.75 0.09 0.16
Matches are distributed among these distances:
57 1 0.00
58 7 0.01
59 14 0.02
60 46 0.06
62 2 0.00
64 52 0.07
65 107 0.14
66 150 0.20
67 104 0.14
68 121 0.16
69 12 0.02
70 11 0.01
71 8 0.01
72 51 0.07
73 65 0.09
ACGTcount: A:0.26, C:0.01, G:0.24, T:0.49
Consensus pattern (71 bp):
TTTTTAAGTTAAGGGTTTAGGGTTTTTAATTTAAAGGTTTAGGGTTTTTAATTGAATTAGTTTAG
GGTTAA
Found at i:38858207 original size:45 final size:44
Alignment explanation
Indices: 38856456--38858208 Score: 1305
Period size: 45 Copynumber: 39.2 Consensus size: 44
38856446 TAGTTTAAAG
* * *
38856456 TTTTAACGTTAAGGGTTAAGGGTTTTTAAGTTAAGGG-TTAAGGT
1 TTTTAA-GTTAAGGGTTTAGGGTTTTTAATTTAAGGGTTTAGGGT
* *
38856500 TTTTAAGTTAAGGG-TTAGGG-TTTTAAGTTAAGGGTTTAAGG-
1 TTTTAAGTTAAGGGTTTAGGGTTTTTAATTTAAGGGTTTAGGGT
* ** * *
38856541 TTTTAAATTAA-ATTAGTTAGGGTTTTTAAGTTTAAGGGTTTATGAT
1 TTTTAAGTTAAGGGT--TTAGGGTTTTTAA-TTTAAGGGTTTAGGGT
** *
38856587 TTTTAA-TTAAATTAGTTTAGGGTTTTTAAGTTAAAGGG-TTAGGGT
1 TTTTAAGTT-AA-GGGTTTAGGGTTTTTAA-TTTAAGGGTTTAGGGT
* * * * **
38856632 TTTTAAATTTAAGGATTTAAGGTTTTTAATTAAATTAGTTTAGGGT
1 TTTT-AAGTTAAGGGTTTAGGGTTTTTAATTTAA-GGGTTTAGGGT
*
38856678 TTTTAAGTTAAGGGCTTAGGGTTTTTAATTTTAAGGGTTTAGGGT
1 TTTTAAGTTAAGGGTTTAGGGTTTTTAA-TTTAAGGGTTTAGGGT
* * * **
38856723 TTTTAATTTAAGGG-TTATGGTTTTTAAGTTAAGCATTTAGGG-
1 TTTTAAGTTAAGGGTTTAGGGTTTTTAATTTAAGGGTTTAGGGT
* ** * **
38856765 TTTTAAGTTAAGAGTTTATGATTTTTTAATTAAATTAGTTTAGGG-
1 TTTTAAGTTAAGGGTTTA-GGGTTTTTAATTTAA-GGGTTTAGGGT
**
38856810 TTTTAAGTTAAGGGTTAGGGTTTAGGGTTTTTTAATTTAAGGGTTTAGTAT
1 TTTTAAGTT-A-----AGGGTTTAGGG-TTTTTAATTTAAGGGTTTAGGGT
** *
38856861 TTTTAA-TTAAATTAGTTTAGGGTTTTTAAGTTAAGGGTTTAGGGT
1 TTTTAAGTT-AA-GGGTTTAGGGTTTTTAATTTAAGGGTTTAGGGT
* * ** * *
38856906 CTTTAA-TGAAATTAGTTTATGGTTTTTAAGTTAAGGGTTAGGGTTTAGGGT
1 TTTTAAGT-TAA-GGGTTTAGGGTTTTTAA-TT-----TAAGGGTTTAGGGT
** * ** *
38856957 TTTTATTTTTAAGGGTTTAGGGTTTTTAATTAAATTAGTTTAGGAT
1 TTTTA-AGTTAAGGGTTTAGGGTTTTTAATTTAA-GGGTTTAGGGT
*
38857003 TTTTAAGTTAAGGGTTTATGGTTTTTAACTTTAAGGGTTTAGGGT
1 TTTTAAGTTAAGGGTTTAGGGTTTTTAA-TTTAAGGGTTTAGGGT
* * * *
38857048 TTTTAATTTATGGG-TTAGGGTTTTTAAGTTAAGGG-TTAAGGT
1 TTTTAAGTTAAGGGTTTAGGGTTTTTAATTTAAGGGTTTAGGGT
* *
38857090 TTTTAAGTTAAGGGTTTAGGATTTTTAATTTTAAGGGGTTAGGGT
1 TTTTAAGTTAAGGGTTTAGGGTTTTTAA-TTTAAGGGTTTAGGGT
* ** * * *
38857135 TTTTAATTTAATTAGTTTAGGGTTTTGAAGTTAAGGGTTTAGTGT
1 TTTTAAGTTAA-GGGTTTAGGGTTTTTAATTTAAGGGTTTAGGGT
*
38857180 TTTTAATTTTAAGGGTTTAGGGTTTTTAATTTAAGGG-TTAGGG-
1 TTTTAA-GTTAAGGGTTTAGGGTTTTTAATTTAAGGGTTTAGGGT
* *
38857223 TTTTAAGTTAATGGTTTAGGGTTTTTAATTTTAAGGATTTAGGGT
1 TTTTAAGTTAAGGGTTTAGGGTTTTTAA-TTTAAGGGTTTAGGGT
* *
38857268 TTTTAATTTAAGGG-TTA-GGTTTTTAAGTTAAGGGTTTAGGGT
1 TTTTAAGTTAAGGGTTTAGGGTTTTTAATTTAAGGGTTTAGGGT
** *
38857310 TTTTAA-TTAAATTAGTTTAGGGTTTTTAAGTTAAGGGTTTAGGGT
1 TTTTAAGTT-AA-GGGTTTAGGGTTTTTAATTTAAGGGTTTAGGGT
** * *
38857355 TTTTAA-TTAAATTAGTTTAGAGTTTTTAAGTTAAGGG-TTAGGGT
1 TTTTAAGTT-AA-GGGTTTAGGGTTTTTAATTTAAGGGTTTAGGGT
* ** *
38857399 TTTTAAGTTTAA--G---A--GTTTTTAATTAAATTAGTTTAGCGT
1 TTTTAAG-TTAAGGGTTTAGGGTTTTTAATTTAA-GGGTTTAGGGT
*
38857438 TTTTAAGTTAAGGG-TTAGGG-------TTT-AGGGTTTAAGGTT
1 TTTTAAGTTAAGGGTTTAGGGTTTTTAATTTAAGGGTTT-AGGGT
* * * **
38857474 TTTTAATTTAAAGGTTTAGGGTTTTTAATTGAATTAGTTTAGGGTTTAAT
1 TTTTAAGTTAAGGGTTTAGGGTTTTTAATTTAA-GGGTTTAGGG-----T
* **
38857524 TTTTAAGTTAAGGGTTTAGGGTTTTTAATTAAATTTGTTTAGGGT
1 TTTTAAGTTAAGGGTTTAGGGTTTTTAATTTAA-GGGTTTAGGGT
* * *
38857569 TTTTAAGTTAAGGG-TTAGAGTTTTTAAGTTTAAAGATTTAGGG-
1 TTTTAAGTTAAGGGTTTAGGGTTTTTAA-TTTAAGGGTTTAGGGT
* ** *
38857612 TTTTAAATTAAATTAGTTTAGGG-TTTTAAGTTAAGGGTTAGGGTTTAGGGT
1 TTTTAAGTT-AA-GGGTTTAGGGTTTTTAA-TT-----TAAGGGTTTAGGGT
** * * **
38857663 TTTTATTTTTAAGGATTTAGGGTTTTTAATTAAATTAGTTTAGGGTTT
1 TTTTA-AGTTAAGGGTTTAGGGTTTTTAATTTAA-GGGTTTAGGG--T
*
38857711 TTAATTAAGTTAAAGGTTTAGGGTTTTTAATTTTAAGGGTTTAGGGT
1 TT--TTAAGTTAAGGGTTTAGGGTTTTTAA-TTTAAGGGTTTAGGGT
* * * * *
38857758 TTTTAA-TTTACGGTTTAGGATTTTTAAGTTAAGGG-TTAAGGT
1 TTTTAAGTTAAGGGTTTAGGGTTTTTAATTTAAGGGTTTAGGGT
* *
38857800 TTTTGAGTTAAGGGTTTAGGGTTTTTAATTTTAAGGGTTTATGGT
1 TTTTAAGTTAAGGGTTTAGGGTTTTTAA-TTTAAGGGTTTAGGGT
** *
38857845 TTTTAA-TTAAATTAGTTTAGGGTTTTTAAATTAAGGGTTTAGGGT
1 TTTTAAGTT-AA-GGGTTTAGGGTTTTTAATTTAAGGGTTTAGGGT
* * * ** *
38857890 TTTTAATTTTAAGGTTTTAGGGTTTTTAATTAAATTAGTTTAGGGA
1 TTTTAA-GTTAAGGGTTTAGGGTTTTTAATTTAA-GGGTTTAGGGT
*
38857936 TTTTAAGTTAAGGGCTTAGGGTTTTTAATTTTAAGGGTTTAGGGT
1 TTTTAAGTTAAGGGTTTAGGGTTTTTAA-TTTAAGGGTTTAGGGT
* * * * * *
38857981 TTTTAATTTAAGGG-TTAGAGTTTTTAAGTTAATGGCTTATGGT
1 TTTTAAGTTAAGGGTTTAGGGTTTTTAATTTAAGGGTTTAGGGT
*
38858024 TTTTAATTTTAAGGGTTTAGGGTTTTTAATTTAAGGGTTTAGGGT
1 TTTTAA-GTTAAGGGTTTAGGGTTTTTAATTTAAGGGTTTAGGGT
*** *
38858069 TTTTAA-TTAAATTATCTTAGGGTTTTTAAGTTAAGGGTTTAGGGT
1 TTTTAAGTT-AAGGGT-TTAGGGTTTTTAATTTAAGGGTTTAGGGT
* * *
38858114 TTTTAATTTAAGGG-TTAGTGTTTTTAATTTAAGGG-TTAAGGT
1 TTTTAAGTTAAGGGTTTAGGGTTTTTAATTTAAGGGTTTAGGGT
*
38858156 TTTTAAGTTAAGGGTTTATGGTTTTTAATTTTAAGGGTTTAGGGT
1 TTTTAAGTTAAGGGTTTAGGGTTTTTAA-TTTAAGGGTTTAGGGT
38858201 TTTTAAGT
1 TTTTAAGT
38858209 AATAACTCAA
Statistics
Matches: 1386, Mismatches: 212, Indels: 221
0.76 0.12 0.12
Matches are distributed among these distances:
35 4 0.00
36 16 0.01
37 19 0.01
38 5 0.00
39 14 0.01
40 1 0.00
41 26 0.02
42 115 0.08
43 154 0.11
44 170 0.12
45 521 0.38
46 149 0.11
47 7 0.01
48 5 0.00
49 27 0.02
50 80 0.06
51 68 0.05
52 4 0.00
53 1 0.00
ACGTcount: A:0.26, C:0.01, G:0.25, T:0.49
Consensus pattern (44 bp):
TTTTAAGTTAAGGGTTTAGGGTTTTTAATTTAAGGGTTTAGGGT
Found at i:38859376 original size:7 final size:7
Alignment explanation
Indices: 38859366--38859398 Score: 66
Period size: 7 Copynumber: 4.7 Consensus size: 7
38859356 TTATATACAT
38859366 AATACTA
1 AATACTA
38859373 AATACTA
1 AATACTA
38859380 AATACTA
1 AATACTA
38859387 AATACTA
1 AATACTA
38859394 AATAC
1 AATAC
38859399 CAATCGACTA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 26 1.00
ACGTcount: A:0.58, C:0.15, G:0.00, T:0.27
Consensus pattern (7 bp):
AATACTA
Found at i:38859605 original size:20 final size:20
Alignment explanation
Indices: 38859568--38859605 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
38859558 TTTATTTTTA
*
38859568 AAAATCTACATAATAATTGT
1 AAAATCTACATAAAAATTGT
38859588 AAAATCTA-ATATAAAATT
1 AAAATCTACATA-AAAATT
38859606 TACCTCGTTA
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
19 3 0.19
20 13 0.81
ACGTcount: A:0.55, C:0.08, G:0.03, T:0.34
Consensus pattern (20 bp):
AAAATCTACATAAAAATTGT
Found at i:38860607 original size:11 final size:11
Alignment explanation
Indices: 38860593--38860658 Score: 57
Period size: 11 Copynumber: 5.9 Consensus size: 11
38860583 TTAAATATGG
38860593 ATTTGAGAGAA
1 ATTTGAGAGAA
*
38860604 ATTTG-GAAGGA
1 ATTTGAG-AGAA
*
38860615 ATTTGATAGCAA
1 ATTTGAGAG-AA
38860627 A-TTGAGAGGAA
1 ATTTGAGA-GAA
38860638 A-TTGAGAGGAA
1 ATTTGAGA-GAA
38860649 ATTTGAGAGA
1 ATTTGAGAGA
38860659 GGATTAGTTT
Statistics
Matches: 46, Mismatches: 4, Indels: 10
0.77 0.07 0.17
Matches are distributed among these distances:
10 1 0.02
11 36 0.78
12 9 0.20
ACGTcount: A:0.42, C:0.02, G:0.30, T:0.26
Consensus pattern (11 bp):
ATTTGAGAGAA
Found at i:38860618 original size:22 final size:23
Alignment explanation
Indices: 38860593--38860661 Score: 72
Period size: 22 Copynumber: 3.0 Consensus size: 23
38860583 TTAAATATGG
38860593 ATTTGAGAGAAATTTGGA-AGGA
1 ATTTGAGAGAAATTTGGAGAGGA
*
38860615 ATTTGATAGCAAA-TT-GAGAGGA
1 ATTTGAGAG-AAATTTGGAGAGGA
*
38860637 AATTGAGAGGAAATTTGAGAGAGGA
1 ATTTGAGA-GAAATTTG-GAGAGGA
38860662 TTAGTTTGTG
Statistics
Matches: 38, Mismatches: 3, Indels: 9
0.76 0.06 0.18
Matches are distributed among these distances:
21 2 0.05
22 23 0.61
23 6 0.16
25 7 0.18
ACGTcount: A:0.42, C:0.01, G:0.32, T:0.25
Consensus pattern (23 bp):
ATTTGAGAGAAATTTGGAGAGGA
Found at i:38860661 original size:14 final size:11
Alignment explanation
Indices: 38860611--38860657 Score: 58
Period size: 11 Copynumber: 4.2 Consensus size: 11
38860601 GAAATTTGGA
* *
38860611 AGGAATTTGAT
1 AGGAAATTGAG
*
38860622 AGCAAATTGAG
1 AGGAAATTGAG
38860633 AGGAAATTGAG
1 AGGAAATTGAG
38860644 AGGAAATTTGAG
1 AGGAAA-TTGAG
38860656 AG
1 AG
38860658 AGGATTAGTT
Statistics
Matches: 31, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
11 24 0.77
12 7 0.23
ACGTcount: A:0.43, C:0.02, G:0.32, T:0.23
Consensus pattern (11 bp):
AGGAAATTGAG
Found at i:38861356 original size:50 final size:50
Alignment explanation
Indices: 38861288--38861390 Score: 179
Period size: 50 Copynumber: 2.1 Consensus size: 50
38861278 CAATTTATTA
* * *
38861288 TTTATTATTTATATCAAATTTTTTATAAATGTATTTGTTATATAATTTGT
1 TTTATTATTTATATCAAATTTTTAATAAATGTATTTGTTACATAAATTGT
38861338 TTTATTATTTATATCAAATTTTTAATAAATGTATTTGTTACATAAATTGT
1 TTTATTATTTATATCAAATTTTTAATAAATGTATTTGTTACATAAATTGT
38861388 TTT
1 TTT
38861391 TCGCCTACAT
Statistics
Matches: 50, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
50 50 1.00
ACGTcount: A:0.33, C:0.03, G:0.06, T:0.58
Consensus pattern (50 bp):
TTTATTATTTATATCAAATTTTTAATAAATGTATTTGTTACATAAATTGT
Found at i:38865700 original size:3 final size:3
Alignment explanation
Indices: 38865692--38865718 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
38865682 CAAGAACAAA
38865692 AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT
38865719 GAAAAGATAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:38866313 original size:15 final size:16
Alignment explanation
Indices: 38866295--38866326 Score: 57
Period size: 15 Copynumber: 2.1 Consensus size: 16
38866285 AATGTAAACA
38866295 AATTTGAAAAT-AATG
1 AATTTGAAAATGAATG
38866310 AATTTGAAAATGAATG
1 AATTTGAAAATGAATG
38866326 A
1 A
38866327 TAAGGGAAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 11 0.69
16 5 0.31
ACGTcount: A:0.53, C:0.00, G:0.16, T:0.31
Consensus pattern (16 bp):
AATTTGAAAATGAATG
Found at i:38866624 original size:23 final size:22
Alignment explanation
Indices: 38866581--38866647 Score: 73
Period size: 22 Copynumber: 3.0 Consensus size: 22
38866571 AAAGGATATC
* *
38866581 TACAAATTAAATC-TCTAAGAT
1 TACAAATCACATCTTCTAAGAT
*
38866602 TACAAAATCATATCTTCTAAGAT
1 TAC-AAATCACATCTTCTAAGAT
* *
38866625 TGCATATCACATCTTCTAAGAT
1 TACAAATCACATCTTCTAAGAT
38866647 T
1 T
38866648 GCATATCATA
Statistics
Matches: 39, Mismatches: 5, Indels: 3
0.83 0.11 0.06
Matches are distributed among these distances:
21 3 0.08
22 26 0.67
23 10 0.26
ACGTcount: A:0.40, C:0.18, G:0.06, T:0.36
Consensus pattern (22 bp):
TACAAATCACATCTTCTAAGAT
Found at i:38866648 original size:22 final size:22
Alignment explanation
Indices: 38866594--38866655 Score: 88
Period size: 22 Copynumber: 2.8 Consensus size: 22
38866584 AAATTAAATC
* * *
38866594 TCTAAGATTACAAAATCATATCT
1 TCTAAGATTGC-ATATCACATCT
38866617 TCTAAGATTGCATATCACATCT
1 TCTAAGATTGCATATCACATCT
38866639 TCTAAGATTGCATATCA
1 TCTAAGATTGCATATCA
38866656 TAACTAAGAT
Statistics
Matches: 36, Mismatches: 3, Indels: 1
0.90 0.08 0.03
Matches are distributed among these distances:
22 26 0.72
23 10 0.28
ACGTcount: A:0.37, C:0.19, G:0.08, T:0.35
Consensus pattern (22 bp):
TCTAAGATTGCATATCACATCT
Found at i:38868706 original size:12 final size:11
Alignment explanation
Indices: 38868689--38868722 Score: 52
Period size: 10 Copynumber: 3.1 Consensus size: 11
38868679 CACAAACAAA
38868689 TCCTCTCATATT
1 TCCTCTCA-ATT
38868701 TCCTCTCAA-T
1 TCCTCTCAATT
38868711 TCCTCTCAATT
1 TCCTCTCAATT
38868722 T
1 T
38868723 TCTTCCAAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
10 10 0.48
11 3 0.14
12 8 0.38
ACGTcount: A:0.18, C:0.35, G:0.00, T:0.47
Consensus pattern (11 bp):
TCCTCTCAATT
Found at i:38868738 original size:22 final size:22
Alignment explanation
Indices: 38868708--38868763 Score: 94
Period size: 22 Copynumber: 2.5 Consensus size: 22
38868698 ATTTCCTCTC
*
38868708 AATTCCTCTCAATTTTCTTCCAA
1 AATT-CTCTCAATTTCCTTCCAA
38868731 AATTCTCTCAATTTCCTTCCAA
1 AATTCTCTCAATTTCCTTCCAA
38868753 AATTCTCTCAA
1 AATTCTCTCAA
38868764 ATCCATATTT
Statistics
Matches: 32, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
22 28 0.88
23 4 0.12
ACGTcount: A:0.29, C:0.30, G:0.00, T:0.41
Consensus pattern (22 bp):
AATTCTCTCAATTTCCTTCCAA
Found at i:38869952 original size:7 final size:7
Alignment explanation
Indices: 38869942--38869966 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
38869932 ATTCAATTGA
38869942 TATTTAG
1 TATTTAG
38869949 TATTTAG
1 TATTTAG
38869956 TATTTAG
1 TATTTAG
38869963 TATT
1 TATT
38869967 ATGTATATAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.28, C:0.00, G:0.12, T:0.60
Consensus pattern (7 bp):
TATTTAG
Found at i:38870639 original size:18 final size:18
Alignment explanation
Indices: 38870613--38870647 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
38870603 AGGTGTATTT
*
38870613 CCTAGCCCTTATATGTAC
1 CCTAACCCTTATATGTAC
38870631 CCTAACCCTTATATGTA
1 CCTAACCCTTATATGTA
38870648 TCCTTTTCCA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.26, C:0.31, G:0.09, T:0.34
Consensus pattern (18 bp):
CCTAACCCTTATATGTAC
Found at i:38871159 original size:25 final size:25
Alignment explanation
Indices: 38871124--38871356 Score: 197
Period size: 25 Copynumber: 9.7 Consensus size: 25
38871114 TATTTTGATA
38871124 TTATTTGATGTAATAAAATAGAAGT
1 TTATTTGATGTAATAAAATAGAAGT
*
38871149 TTATTTAATGTAATAAAATAGAAGT
1 TTATTTGATGTAATAAAATAGAAGT
* * *
38871174 TTATTTTATGTAAAAAAAATAGAAAT
1 TTATTTGATGT-AATAAAATAGAAGT
** *
38871200 TT-TTTGA-GT--T-ATTTTG-A-T
1 TTATTTGATGTAATAAAATAGAAGT
38871218 ATTATTTGATGTAATAAAATAGAAGT
1 -TTATTTGATGTAATAAAATAGAAGT
*
38871244 TTATTTGATGTAATGAAATAGAAGT
1 TTATTTGATGTAATAAAATAGAAGT
**
38871269 TTATTTGATGTAATAAAATA-AAAA
1 TTATTTGATGTAATAAAATAGAAGT
** ** *
38871293 AAATTTCGA-GT--T-ATTTTG-A-T
1 TTATTT-GATGTAATAAAATAGAAGT
38871313 ATTATTTGATGTAATAAAATAGAAGT
1 -TTATTTGATGTAATAAAATAGAAGT
38871339 TTATTTGATGTAATAAAA
1 TTATTTGATGTAATAAAA
38871357 ACCCTAACCT
Statistics
Matches: 163, Mismatches: 27, Indels: 36
0.72 0.12 0.16
Matches are distributed among these distances:
18 1 0.01
19 3 0.02
20 10 0.06
21 11 0.07
22 1 0.01
23 2 0.01
24 16 0.10
25 103 0.63
26 16 0.10
ACGTcount: A:0.43, C:0.00, G:0.14, T:0.42
Consensus pattern (25 bp):
TTATTTGATGTAATAAAATAGAAGT
Found at i:38871242 original size:95 final size:95
Alignment explanation
Indices: 38871080--38871356 Score: 461
Period size: 95 Copynumber: 2.9 Consensus size: 95
38871070 TATTTTGATA
38871080 TTATTTTATGT-AAAAAAATAGAAATTTTTTGAGTTATTTTGATATTATTTGATGTAATAAAATA
1 TTATTTTATGTAAAAAAAATAGAAATTTTTTGAGTTATTTTGATATTATTTGATGTAATAAAATA
*
38871144 GAAGTTTATTTAATGTAATAAAATAGAAGT
66 GAAGTTTATTTGATGTAATAAAATAGAAGT
38871174 TTATTTTATGTAAAAAAAATAGAAATTTTTTGAGTTATTTTGATATTATTTGATGTAATAAAATA
1 TTATTTTATGTAAAAAAAATAGAAATTTTTTGAGTTATTTTGATATTATTTGATGTAATAAAATA
*
38871239 GAAGTTTATTTGATGTAATGAAATAGAAGT
66 GAAGTTTATTTGATGTAATAAAATAGAAGT
* ** *
38871269 TTATTTGATGTAATAAAATAA-A-AAAAATTTCGAGTTATTTTGATATTATTTGATGTAATAAAA
1 TTATTTTATGTAA-AAAA-AATAGAAATTTTTTGAGTTATTTTGATATTATTTGATGTAATAAAA
38871332 TAGAAGTTTATTTGATGTAATAAAA
64 TAGAAGTTTATTTGATGTAATAAAA
38871357 ACCCTAACCT
Statistics
Matches: 173, Mismatches: 7, Indels: 5
0.94 0.04 0.03
Matches are distributed among these distances:
94 11 0.06
95 155 0.90
96 5 0.03
97 2 0.01
ACGTcount: A:0.43, C:0.00, G:0.13, T:0.44
Consensus pattern (95 bp):
TTATTTTATGTAAAAAAAATAGAAATTTTTTGAGTTATTTTGATATTATTTGATGTAATAAAATA
GAAGTTTATTTGATGTAATAAAATAGAAGT
Found at i:38871412 original size:29 final size:29
Alignment explanation
Indices: 38871372--38871860 Score: 287
Period size: 29 Copynumber: 16.7 Consensus size: 29
38871362 AACCTAATTT
*
38871372 AACCCTAAACCCTAACTTAAATTAATTAAA
1 AACCCT-AACCCTAACCTAAATTAATTAAA
* *
38871402 AACTCTAACCCTAACCTAATTTAATTAAA
1 AACCCTAACCCTAACCTAAATTAATTAAA
*
38871431 AACCCTAACCCTAACCCTAATCTAAATTAATTACA
1 AACCCTAACCCTAA--C----CTAAATTAATTAAA
*
38871466 AACCCTAACCCTAACCTAATTTAATTAAA
1 AACCCTAACCCTAACCTAAATTAATTAAA
*
38871495 AACCCTAACCCCTAACCTAAATTAATTACA
1 AACCCTAA-CCCTAACCTAAATTAATTAAA
*
38871525 AACCCTAACCCTAACCTAATTTAATTAAA
1 AACCCTAACCCTAACCTAAATTAATTAAA
* * * *
38871554 AGCCCTAAACCCTTAACTTAAAACCCTAACCTTAACCT
1 AACCCT-AACCC-TAACCT-AAA--TTAA--TTAA--A
** **** ** *
38871592 AA-TTTAATTAAAAACTCTAACCTAATT-TA
1 AACCCTAA-CCCTAAC-CTAAATTAATTAAA
***** * *
38871621 ATTAAAAACCCTAAACC---CTTAACTCAAA
1 AACCCTAACCCT-AACCTAAATTAA-TTAAA
* * *
38871649 AACCTTAACCTTAACCTAATTTAATTAAA
1 AACCCTAACCCTAACCTAAATTAATTAAA
*
38871678 AACCCTAACCCTAACCTAATTTAATTAAA
1 AACCCTAACCCTAACCTAAATTAATTAAA
*
38871707 AACCCTAAACCCT----T--A--ACTTAAA
1 AACCCT-AACCCTAACCTAAATTAATTAAA
* *
38871729 AACCCTAACCTTAACCTAATTTAATTAAA
1 AACCCTAACCCTAACCTAAATTAATTAAA
*
38871758 AACCCTAACCCTAACCTAATTTAATTAAA
1 AACCCTAACCCTAACCTAAATTAATTAAA
*
38871787 AACCCGAA-CCTAA--T---TTAATTAAA
1 AACCCTAACCCTAACCTAAATTAATTAAA
*
38871810 AACCCTAACCCTAACCTAATTTAATTAAA
1 AACCCTAACCCTAACCTAAATTAATTAAA
*
38871839 AACCCTAAACCCTTAACTTAAA
1 AACCCT-AACCC-TAACCTAAA
38871861 AACCCTAACC
Statistics
Matches: 358, Mismatches: 59, Indels: 83
0.72 0.12 0.17
Matches are distributed among these distances:
21 5 0.01
22 12 0.03
23 16 0.04
24 5 0.01
25 1 0.00
26 7 0.02
27 5 0.01
28 12 0.03
29 173 0.48
30 57 0.16
31 13 0.04
32 4 0.01
33 1 0.00
34 7 0.02
35 26 0.07
36 11 0.03
37 2 0.01
38 1 0.00
ACGTcount: A:0.45, C:0.27, G:0.00, T:0.27
Consensus pattern (29 bp):
AACCCTAACCCTAACCTAAATTAATTAAA
Found at i:38871435 original size:23 final size:23
Alignment explanation
Indices: 38871352--38871440 Score: 70
Period size: 23 Copynumber: 3.6 Consensus size: 23
38871342 TTTGATGTAA
*
38871352 TAAAAACCCTAACCTAATTTAAC
1 TAAAAACCCTAACCTAATTTAAT
*** * *
38871375 CCTAAACCCTAACTTAAATTAAT
1 TAAAAACCCTAACCTAATTTAAT
38871398 TAAAAACTCTAACCCTAACCTAATTTAAT
1 T--AAA----AACCCTAACCTAATTTAAT
38871427 TAAAAACCCTAACC
1 TAAAAACCCTAACC
38871441 CTAACCCTAA
Statistics
Matches: 49, Mismatches: 11, Indels: 12
0.68 0.15 0.17
Matches are distributed among these distances:
23 27 0.55
25 1 0.02
27 3 0.06
29 18 0.37
ACGTcount: A:0.46, C:0.27, G:0.00, T:0.27
Consensus pattern (23 bp):
TAAAAACCCTAACCTAATTTAAT
Found at i:38871474 original size:64 final size:63
Alignment explanation
Indices: 38871371--38871566 Score: 285
Period size: 64 Copynumber: 3.1 Consensus size: 63
38871361 TAACCTAATT
* *
38871371 TAACCCTAAACCCTAACTTAAATTAATTAAAAACTCTAACCCTAACCTAATTTAATTAAAAACCC
1 TAACCCT-AACCCTAAC-TAAATTAATTACAAACCCTAACCCTAACCTAATTTAATTAAAAACCC
38871436 TAACCCTAACCCTAATCTAAATTAATTACAAACCCTAACCCTAACCTAATTTAATTAAAAACCC
1 TAACCCTAACCCTAA-CTAAATTAATTACAAACCCTAACCCTAACCTAATTTAATTAAAAACCC
*
38871500 TAA--C---CCCTAACCTAAATTAATTACAAACCCTAACCCTAACCTAATTTAATTAAAAGCCC
1 TAACCCTAACCCTAA-CTAAATTAATTACAAACCCTAACCCTAACCTAATTTAATTAAAAACCC
38871559 TAAACCCT
1 T-AACCCT
38871567 TAACTTAAAA
Statistics
Matches: 122, Mismatches: 4, Indels: 12
0.88 0.03 0.09
Matches are distributed among these distances:
59 54 0.44
60 2 0.02
62 2 0.02
64 56 0.46
65 8 0.07
ACGTcount: A:0.44, C:0.29, G:0.01, T:0.27
Consensus pattern (63 bp):
TAACCCTAACCCTAACTAAATTAATTACAAACCCTAACCCTAACCTAATTTAATTAAAAACCC
Found at i:38871580 original size:21 final size:20
Alignment explanation
Indices: 38871545--38871589 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 20
38871535 CTAACCTAAT
38871545 TTAA-TTAAAAGCCCTAAACCC
1 TTAACTTAAAAGCCCT-AA-CC
38871566 TTAACTTAAAA-CCCTAACC
1 TTAACTTAAAAGCCCTAACC
38871585 TTAAC
1 TTAAC
38871590 CTAATTTAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
19 7 0.30
20 2 0.09
21 8 0.35
22 6 0.26
ACGTcount: A:0.42, C:0.29, G:0.02, T:0.27
Consensus pattern (20 bp):
TTAACTTAAAAGCCCTAACC
Done.