Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A06
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: 115140250
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2234201 characters in sequence are not A, C, G, or T
File 214 of 345
Found at i:72693216 original size:25 final size:25
Alignment explanation
Indices: 72693188--72693272 Score: 102
Period size: 26 Copynumber: 3.4 Consensus size: 25
72693178 CTGGAGGCCT
*
72693188 AGCCTCTTTTAAT-AACTAGGGCAAA
1 AGCC-CTTTTGATAAACTAGGGCAAA
*
72693213 AGCCCTTTTTGATAAACTGGGGCAAA
1 AGCCC-TTTTGATAAACTAGGGCAAA
*
72693239 AGCCCTTTTCGGTAAACTAGGGC-AA
1 AGCCCTTTT-GATAAACTAGGGCAAA
72693264 AGCCCTTTT
1 AGCCCTTTT
72693273 CGGTAATTGG
Statistics
Matches: 53, Mismatches: 4, Indels: 6
0.84 0.06 0.10
Matches are distributed among these distances:
24 1 0.02
25 25 0.47
26 27 0.51
ACGTcount: A:0.29, C:0.22, G:0.20, T:0.28
Consensus pattern (25 bp):
AGCCCTTTTGATAAACTAGGGCAAA
Found at i:72693273 original size:25 final size:26
Alignment explanation
Indices: 72693201--72693278 Score: 122
Period size: 26 Copynumber: 3.0 Consensus size: 26
72693191 CTCTTTTAAT
* *
72693201 AACTAGGGCAAAAGCCCTTTTTGATA
1 AACTAGGGCAAAAGCCCTTTTCGGTA
*
72693227 AACTGGGGCAAAAGCCCTTTTCGGTA
1 AACTAGGGCAAAAGCCCTTTTCGGTA
72693253 AACTAGGGC-AAAGCCCTTTTCGGTA
1 AACTAGGGCAAAAGCCCTTTTCGGTA
72693278 A
1 A
72693279 TTGGGGCATA
Statistics
Matches: 48, Mismatches: 4, Indels: 1
0.91 0.08 0.02
Matches are distributed among these distances:
25 17 0.35
26 31 0.65
ACGTcount: A:0.31, C:0.22, G:0.23, T:0.24
Consensus pattern (26 bp):
AACTAGGGCAAAAGCCCTTTTCGGTA
Found at i:72693291 original size:24 final size:25
Alignment explanation
Indices: 72693201--72693296 Score: 113
Period size: 26 Copynumber: 3.8 Consensus size: 25
72693191 CTCTTTTAAT
* * *
72693201 AACTAGGGCAAAAGCCCTTTTTGATA
1 AACTGGGGC-AAAGCCCTTTTCGGTA
72693227 AACTGGGGCAAAAGCCCTTTTCGGTA
1 AACTGGGGC-AAAGCCCTTTTCGGTA
*
72693253 AACTAGGGCAAAGCCCTTTTCGGT-
1 AACTGGGGCAAAGCCCTTTTCGGTA
* *
72693277 AATTGGGGCATAGCCCTTTT
1 AACTGGGGCAAAGCCCTTTT
72693297 GCACTTCCTC
Statistics
Matches: 63, Mismatches: 7, Indels: 2
0.88 0.10 0.03
Matches are distributed among these distances:
24 17 0.27
25 15 0.24
26 31 0.49
ACGTcount: A:0.27, C:0.22, G:0.24, T:0.27
Consensus pattern (25 bp):
AACTGGGGCAAAGCCCTTTTCGGTA
Found at i:72693374 original size:11 final size:11
Alignment explanation
Indices: 72693343--72693379 Score: 51
Period size: 11 Copynumber: 3.5 Consensus size: 11
72693333 AAATGAATAC
72693343 ATCATGTGCAT
1 ATCATGTGCAT
*
72693354 ATCA--TACAT
1 ATCATGTGCAT
72693363 ATCATGTGCAT
1 ATCATGTGCAT
72693374 ATCATG
1 ATCATG
72693380 CCAAATCATG
Statistics
Matches: 22, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
9 8 0.36
11 14 0.64
ACGTcount: A:0.32, C:0.19, G:0.14, T:0.35
Consensus pattern (11 bp):
ATCATGTGCAT
Found at i:72695930 original size:220 final size:219
Alignment explanation
Indices: 72695549--72695983 Score: 685
Period size: 220 Copynumber: 2.0 Consensus size: 219
72695539 GCAAAAAGAA
* *
72695549 AAAAAGAAAGAGATGGTAAAACTAGGTGTAGGTGACGACAACAATAGAGGAAAGGAATAAAAATT
1 AAAAAGAAAAAGATGGTAAAACTAGGTGTAGGCGACGACAACAATAGAGGAAAGGAATAAAAATT
* * * *
72695614 AAAATCAAAGAGAAGGCGAGGAAGAGAGGAACAGCTAGGGCAATGAGGAGGAGGATTAAAGGCTG
66 AAAATCAAAGAGAAGGAGAGGAAGAGAGGAACAGCTAGGGAAATGAGGAGAAGGATTAAAGGCTA
*
72695679 ATTATTAGTGAAAAATTAATATTTATACCTAGCTTAACTAGGCTTGGATGGCCCACACTTTAAAA
131 ATTATTAGTGAAAAATTAATATTTATACCTAGCTTAACTAGGCTTGGATGGCCCACACATTAAAA
*
72695744 CAATGGGTTTTTGTTAAAAAAATC
196 CAAGGGGTTTTTGTTAAAAAAATC
*
72695768 AAAAAGAAAAAGATTGTAAAACTAGGTGTAGGCGACGACAACAAT-GAAGGAAAGGAATAAAAAA
1 AAAAAGAAAAAGATGGTAAAACTAGGTGTAGGCGACGACAACAATAG-AGGAAAGGAAT-AAAAA
* * * *
72695832 TTAAAATCAAAGAGAAGGAGAGGAGGAGAGGAAC-GACTATGGAAATGAGTATAAGGATTAAAGG
64 TTAAAATCAAAGAGAAGGAGAGGAAGAGAGGAACAG-CTAGGGAAATGAGGAGAAGGATTAAAGG
* *
72695896 CTAATTATTAGTGAAACATTAATATTTATACCTAGGTTAACTAGGCTTGGATGGCCCACACATTA
128 CTAATTATTAGTGAAAAATTAATATTTATACCTAGCTTAACTAGGCTTGGATGGCCCACACATTA
*
72695961 AAATAAGGGGTTTTTGTTAAAAA
193 AAACAAGGGGTTTTTGTTAAAAA
72695984 TAAATAGATT
Statistics
Matches: 197, Mismatches: 16, Indels: 5
0.90 0.07 0.02
Matches are distributed among these distances:
218 1 0.01
219 54 0.27
220 142 0.72
ACGTcount: A:0.44, C:0.09, G:0.24, T:0.22
Consensus pattern (219 bp):
AAAAAGAAAAAGATGGTAAAACTAGGTGTAGGCGACGACAACAATAGAGGAAAGGAATAAAAATT
AAAATCAAAGAGAAGGAGAGGAAGAGAGGAACAGCTAGGGAAATGAGGAGAAGGATTAAAGGCTA
ATTATTAGTGAAAAATTAATATTTATACCTAGCTTAACTAGGCTTGGATGGCCCACACATTAAAA
CAAGGGGTTTTTGTTAAAAAAATC
Found at i:72698063 original size:25 final size:26
Alignment explanation
Indices: 72698015--72698063 Score: 73
Period size: 25 Copynumber: 1.9 Consensus size: 26
72698005 TGAATTTCCT
*
72698015 CAAAATTTTATCGGGGGTAAAATTAC
1 CAAAATTTTATCGAGGGTAAAATTAC
*
72698041 CAAAATTTTA-CTAGGGTAAAATT
1 CAAAATTTTATCGAGGGTAAAATT
72698064 GGGTTGAGAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 11 0.52
26 10 0.48
ACGTcount: A:0.41, C:0.10, G:0.16, T:0.33
Consensus pattern (26 bp):
CAAAATTTTATCGAGGGTAAAATTAC
Found at i:72699425 original size:25 final size:24
Alignment explanation
Indices: 72699378--72699425 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
72699368 AAAGGCTTAG
* *
72699378 GGATTAAAATAGAAATTACCCAAA
1 GGATTAAAATACAAATAACCCAAA
*
72699402 GGATTAAAATCACAAATAAGCCAA
1 GGATTAAAAT-ACAAATAACCCAA
72699426 TTCTAAAAGG
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
24 10 0.50
25 10 0.50
ACGTcount: A:0.54, C:0.15, G:0.12, T:0.19
Consensus pattern (24 bp):
GGATTAAAATACAAATAACCCAAA
Found at i:72699504 original size:14 final size:15
Alignment explanation
Indices: 72699485--72699518 Score: 52
Period size: 14 Copynumber: 2.3 Consensus size: 15
72699475 TTAATTGATG
72699485 ATTAAGCTTAAG-TA
1 ATTAAGCTTAAGTTA
*
72699499 ATTAAGGTTAAGTTA
1 ATTAAGCTTAAGTTA
72699514 ATTAA
1 ATTAA
72699519 ACTAGTTTAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 11 0.61
15 7 0.39
ACGTcount: A:0.44, C:0.03, G:0.15, T:0.38
Consensus pattern (15 bp):
ATTAAGCTTAAGTTA
Found at i:72708209 original size:27 final size:26
Alignment explanation
Indices: 72708176--72708342 Score: 183
Period size: 27 Copynumber: 6.2 Consensus size: 26
72708166 AAGGAAAATT
* *
72708176 AGTCATTTTACCTTACAGGGGTATTAC
1 AGTCATTTTACCCTA-AGGGGTATTTC
72708203 AGTCATTTTACCCTATAGGGGTATTTC
1 AGTCATTTTACCCTA-AGGGGTATTTC
*
72708230 AATCATTTTACCCTATA-GGGTATTTC
1 AGTCATTTTACCCTA-AGGGGTATTTC
* * *
72708256 GGTCATTTTACCCTATGAGGGTATTTT
1 AGTCATTTTACCCTAAG-GGGTATTTC
*
72708283 AGTCATTTTACCCTATGCGGGTATTTC
1 AGTCATTTTACCCTAAG-GGGTATTTC
* *
72708310 GGTCATTTTACCCTATGCGGGTATTTC
1 AGTCATTTTACCCTAAG-GGGTATTTC
*
72708337 GGTCAT
1 AGTCAT
72708343 CATTATGGCC
Statistics
Matches: 126, Mismatches: 12, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
26 22 0.17
27 104 0.83
ACGTcount: A:0.21, C:0.19, G:0.19, T:0.41
Consensus pattern (26 bp):
AGTCATTTTACCCTAAGGGGTATTTC
Found at i:72708316 original size:80 final size:81
Alignment explanation
Indices: 72708177--72708342 Score: 230
Period size: 80 Copynumber: 2.1 Consensus size: 81
72708167 AGGAAAATTA
*
72708177 GTCATTTTACCTTACAGGGGTATTACAGTCATTTTACCCTATAGGGGTATTTCAATCATTTTACC
1 GTCATTTTACCCTACAGGGGTATTACAGTCATTTTACCCTATAGGGGTATTTCAATCATTTTACC
72708242 CTAT-AGGGTATTTCG
66 CTATGAGGGTATTTCG
* ** **
72708257 GTCATTTTACCCTA-TGAGGGTATTTTAGTCATTTTACCCTAT-GCGGGTATTTCGGTCATTTTA
1 GTCATTTTACCCTACAG-GGGTATTACAGTCATTTTACCCTATAG-GGGTATTTCAATCATTTTA
*
72708320 CCCTATGCGGGTATTTCG
64 CCCTATGAGGGTATTTCG
72708338 GTCAT
1 GTCAT
72708343 CATTATGGCC
Statistics
Matches: 76, Mismatches: 7, Indels: 5
0.86 0.08 0.06
Matches are distributed among these distances:
79 2 0.03
80 59 0.78
81 15 0.20
ACGTcount: A:0.20, C:0.19, G:0.19, T:0.41
Consensus pattern (81 bp):
GTCATTTTACCCTACAGGGGTATTACAGTCATTTTACCCTATAGGGGTATTTCAATCATTTTACC
CTATGAGGGTATTTCG
Found at i:72708342 original size:54 final size:52
Alignment explanation
Indices: 72708176--72708342 Score: 217
Period size: 54 Copynumber: 3.1 Consensus size: 52
72708166 AAGGAAAATT
* * * *
72708176 AGTCATTTTACCTTACAGGGGTATTACAGTCATTTTACCCTATAGGGGTATTTC
1 AGTCATTTTACCCTA-TGGGGTATTTCGGTCATTTTACCCTAT-GGGGTATTTC
* * *
72708230 AATCATTTTACCCTATAGGGTATTTCGGTCATTTTACCCTATGAGGGTATTTT
1 AGTCATTTTACCCTATGGGGTATTTCGGTCATTTTACCCTATG-GGGTATTTC
72708283 AGTCATTTTACCCTATGCGGGTATTTCGGTCATTTTACCCTATGCGGGTATTTC
1 AGTCATTTTACCCTATG-GGGTATTTCGGTCATTTTACCCTATG-GGGTATTTC
*
72708337 GGTCAT
1 AGTCAT
72708343 CATTATGGCC
Statistics
Matches: 99, Mismatches: 12, Indels: 4
0.86 0.10 0.03
Matches are distributed among these distances:
52 1 0.01
53 46 0.46
54 52 0.53
ACGTcount: A:0.21, C:0.19, G:0.19, T:0.41
Consensus pattern (52 bp):
AGTCATTTTACCCTATGGGGTATTTCGGTCATTTTACCCTATGGGGTATTTC
Found at i:72710604 original size:27 final size:27
Alignment explanation
Indices: 72710585--72710751 Score: 217
Period size: 27 Copynumber: 6.2 Consensus size: 27
72710575 ATTACCAAAG
* *
72710585 TACCCTTGATTTATAGAATTACCATTT
1 TACCCTCGATTTACAGAATTACCATTT
* *
72710612 TACCCTCGATTTACAAAATTACCGTTT
1 TACCCTCGATTTACAGAATTACCATTT
* *
72710639 TACCCTTGATTTACAGAATTACCGTTT
1 TACCCTCGATTTACAGAATTACCATTT
*
72710666 TACCCTCGATTTACAGAATTACTATTT
1 TACCCTCGATTTACAGAATTACCATTT
* * *
72710693 TACCCTCGATTTATAGAATTATCGTTT
1 TACCCTCGATTTACAGAATTACCATTT
* * *
72710720 TACCCTCAATTTATAAAATTACCATTT
1 TACCCTCGATTTACAGAATTACCATTT
72710747 TACCC
1 TACCC
72710752 CTAGGGTGTT
Statistics
Matches: 123, Mismatches: 17, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 123 1.00
ACGTcount: A:0.29, C:0.23, G:0.07, T:0.41
Consensus pattern (27 bp):
TACCCTCGATTTACAGAATTACCATTT
Found at i:72710630 original size:54 final size:54
Alignment explanation
Indices: 72710558--72710751 Score: 253
Period size: 54 Copynumber: 3.6 Consensus size: 54
72710548 ATTACTAAAA
* ** *** *
72710558 TACCCTCGACTTGTAAAATTACCAAAGTACCCTTGATTTATAGAATTACCATTT
1 TACCCTCGATTTACAAAATTACCATTTTACCCTTGATTTATAGAATTACCGTTT
* *
72710612 TACCCTCGATTTACAAAATTACCGTTTTACCCTTGATTTACAGAATTACCGTTT
1 TACCCTCGATTTACAAAATTACCATTTTACCCTTGATTTATAGAATTACCGTTT
* * * *
72710666 TACCCTCGATTTACAGAATTACTATTTTACCCTCGATTTATAGAATTATCGTTT
1 TACCCTCGATTTACAAAATTACCATTTTACCCTTGATTTATAGAATTACCGTTT
* *
72710720 TACCCTCAATTTATAAAATTACCATTTTACCC
1 TACCCTCGATTTACAAAATTACCATTTTACCC
72710752 CTAGGGTGTT
Statistics
Matches: 121, Mismatches: 19, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
54 121 1.00
ACGTcount: A:0.30, C:0.23, G:0.08, T:0.39
Consensus pattern (54 bp):
TACCCTCGATTTACAAAATTACCATTTTACCCTTGATTTATAGAATTACCGTTT
Found at i:72711316 original size:19 final size:19
Alignment explanation
Indices: 72711289--72711359 Score: 92
Period size: 19 Copynumber: 3.8 Consensus size: 19
72711279 GATACTTATT
72711289 CTGATTCTAATTCTGTCAC
1 CTGATTCTAATTCTGTCAC
* *
72711308 CTAATTCTAATTCTG--ATT
1 CTGATTCTAATTCTGTCA-C
72711326 CTGATTCTAATTCTGTCAC
1 CTGATTCTAATTCTGTCAC
*
72711345 CTGATTCTGATTCTG
1 CTGATTCTAATTCTG
72711360 ATTCTCATTT
Statistics
Matches: 44, Mismatches: 5, Indels: 6
0.80 0.09 0.11
Matches are distributed among these distances:
17 1 0.02
18 14 0.32
19 28 0.64
20 1 0.02
ACGTcount: A:0.21, C:0.23, G:0.11, T:0.45
Consensus pattern (19 bp):
CTGATTCTAATTCTGTCAC
Found at i:72711327 original size:37 final size:37
Alignment explanation
Indices: 72711286--72711364 Score: 140
Period size: 37 Copynumber: 2.1 Consensus size: 37
72711276 CCTGATACTT
72711286 ATTCTGATTCTAATTCTGTCACCTAATTCTAATTCTG
1 ATTCTGATTCTAATTCTGTCACCTAATTCTAATTCTG
* *
72711323 ATTCTGATTCTAATTCTGTCACCTGATTCTGATTCTG
1 ATTCTGATTCTAATTCTGTCACCTAATTCTAATTCTG
72711360 ATTCT
1 ATTCT
72711365 CATTTTGATT
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
37 40 1.00
ACGTcount: A:0.22, C:0.22, G:0.10, T:0.47
Consensus pattern (37 bp):
ATTCTGATTCTAATTCTGTCACCTAATTCTAATTCTG
Found at i:72711352 original size:31 final size:31
Alignment explanation
Indices: 72711255--72711364 Score: 105
Period size: 31 Copynumber: 3.4 Consensus size: 31
72711245 TTGCATTCAT
* * * *
72711255 ATTCTGATTTTGATTCTG-CTACCTGATACTT
1 ATTCTGATTCTAATTCTGTC-ACCTGATTCTG
*
72711286 ATTCTGATTCTAATTCTGTCACCTAATTCTAATTCTG
1 ATTCTGATTCTAATTCTGTCA-C-----CTGATTCTG
72711323 ATTCTGATTCTAATTCTGTCACCTGATTCTG
1 ATTCTGATTCTAATTCTGTCACCTGATTCTG
72711354 ATTCTGATTCT
1 ATTCTGATTCT
72711365 CATTTTGATT
Statistics
Matches: 66, Mismatches: 6, Indels: 14
0.77 0.07 0.16
Matches are distributed among these distances:
31 36 0.55
32 2 0.03
36 1 0.02
37 27 0.41
ACGTcount: A:0.21, C:0.21, G:0.11, T:0.47
Consensus pattern (31 bp):
ATTCTGATTCTAATTCTGTCACCTGATTCTG
Found at i:72711354 original size:6 final size:6
Alignment explanation
Indices: 72711255--72711385 Score: 70
Period size: 6 Copynumber: 21.3 Consensus size: 6
72711245 TTGCATTCAT
* * * * * *
72711255 ATTCTG ATTTTG ATTCTG CTACCTG ATACTT ATTCTG ATTCTA ATTCTG
1 ATTCTG ATTCTG ATTCTG AT-TCTG ATTCTG ATTCTG ATTCTG ATTCTG
* * * * *
72711304 -TCACCTA ATTCTA ATTCTG ATTCTG ATTCTA ATTCTG -TCACCTG ATTCTG
1 AT--TCTG ATTCTG ATTCTG ATTCTG ATTCTG ATTCTG AT--TCTG ATTCTG
* *
72711354 ATTCTG ATTCTC ATTTTG ATTCT- AGTTCTG AT
1 ATTCTG ATTCTG ATTCTG ATTCTG A-TTCTG AT
72711386 AATGTTTCTT
Statistics
Matches: 93, Mismatches: 23, Indels: 18
0.69 0.17 0.13
Matches are distributed among these distances:
5 3 0.03
6 78 0.84
7 10 0.11
8 2 0.02
ACGTcount: A:0.21, C:0.20, G:0.11, T:0.48
Consensus pattern (6 bp):
ATTCTG
Found at i:72711376 original size:37 final size:37
Alignment explanation
Indices: 72711255--72711376 Score: 123
Period size: 37 Copynumber: 3.5 Consensus size: 37
72711245 TTGCATTCAT
* *
72711255 ATTCTGATTTTGATTCTG-CTACCTGATACTTATTCTG
1 ATTCTGATTTTGATTCTGTC-ACCTGATTCTAATTCTG
*
72711292 ATTCT-A-----ATTCTGTCACCTAATTCTAATTCTG
1 ATTCTGATTTTGATTCTGTCACCTGATTCTAATTCTG
* * *
72711323 ATTCTGATTCTAATTCTGTCACCTGATTCTGATTCTG
1 ATTCTGATTTTGATTCTGTCACCTGATTCTAATTCTG
*
72711360 ATTCTCATTTTGATTCT
1 ATTCTGATTTTGATTCT
72711377 AGTTCTGATA
Statistics
Matches: 70, Mismatches: 8, Indels: 14
0.76 0.09 0.15
Matches are distributed among these distances:
31 25 0.36
32 2 0.03
36 1 0.01
37 42 0.60
ACGTcount: A:0.20, C:0.20, G:0.11, T:0.48
Consensus pattern (37 bp):
ATTCTGATTTTGATTCTGTCACCTGATTCTAATTCTG
Found at i:72721362 original size:40 final size:40
Alignment explanation
Indices: 72721308--72721451 Score: 134
Period size: 40 Copynumber: 3.6 Consensus size: 40
72721298 TAACTCATTC
* * *
72721308 AATGCCTTCAGGACTTAACCCGGATTTTAA-AACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGA-ATTAATAACTCGCACA
72721348 AATGCCTTCGGGACTTAACCCGGAATTAATAACTCGCACA
1 AATGCCTTCGGGACTTAACCCGGAATTAATAACTCGCACA
* ** * * *
72721388 AATACCTTC-GGATCTTAGTCCGG-ATATAGTCACTTAGCACA
1 AATGCCTTCGGGA-CTTAACCCGGAAT-TAATAAC-TCGCACA
*
72721429 AA-GCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
72721452 CAGCATTCAA
Statistics
Matches: 87, Mismatches: 11, Indels: 11
0.80 0.10 0.10
Matches are distributed among these distances:
39 9 0.10
40 67 0.77
41 11 0.13
ACGTcount: A:0.29, C:0.27, G:0.19, T:0.24
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGAATTAATAACTCGCACA
Found at i:72759266 original size:31 final size:31
Alignment explanation
Indices: 72759183--72759266 Score: 125
Period size: 31 Copynumber: 2.7 Consensus size: 31
72759173 TTAGTCTTGA
*
72759183 CATAT-ACTGGGCCGAAGCCTTTTCATAAAT
1 CATATCACTCGGCCGAAGCCTTTTCATAAAT
* * *
72759213 CATATCACTCAGCTGAAACCTTTTCATAAAT
1 CATATCACTCGGCCGAAGCCTTTTCATAAAT
72759244 CATATCACTCGGCCGAAGCCTTT
1 CATATCACTCGGCCGAAGCCTTT
72759267 ACTGTAAATG
Statistics
Matches: 46, Mismatches: 7, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
30 5 0.11
31 41 0.89
ACGTcount: A:0.30, C:0.27, G:0.13, T:0.30
Consensus pattern (31 bp):
CATATCACTCGGCCGAAGCCTTTTCATAAAT
Found at i:72759339 original size:42 final size:42
Alignment explanation
Indices: 72759292--72759423 Score: 246
Period size: 42 Copynumber: 3.1 Consensus size: 42
72759282 GCCCTTAGGT
* *
72759292 CCATTTCAATATCACATGTAATGTCAATGGATGTATGAAAGC
1 CCATTTCAATATCACATGTAATGTCAATGAATGTATGCAAGC
72759334 CCATTTCAATATCACATGTAATGTCAATGAATGTATGCAAGC
1 CCATTTCAATATCACATGTAATGTCAATGAATGTATGCAAGC
72759376 CCATTTCAATATCACATGTAATGTCAATGAATGTATGCAAGC
1 CCATTTCAATATCACATGTAATGTCAATGAATGTATGCAAGC
72759418 CCATTT
1 CCATTT
72759424 GGGGAGACTA
Statistics
Matches: 88, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
42 88 1.00
ACGTcount: A:0.35, C:0.19, G:0.14, T:0.32
Consensus pattern (42 bp):
CCATTTCAATATCACATGTAATGTCAATGAATGTATGCAAGC
Found at i:72759640 original size:25 final size:25
Alignment explanation
Indices: 72759571--72759639 Score: 104
Period size: 25 Copynumber: 2.8 Consensus size: 25
72759561 CTCTTTTAAT
72759571 AACTGGGGCAAAGCCTTTTCTGATA
1 AACTGGGGCAAAGCCTTTTCTGATA
*
72759596 AACTGGGGCAAAGCCCTTTTC-GGTA
1 AACTGGGGCAAAG-CCTTTTCTGATA
*
72759621 AACTGGGGCAGAGCCTTTT
1 AACTGGGGCAAAGCCTTTT
72759640 TAGCACTTCC
Statistics
Matches: 41, Mismatches: 2, Indels: 3
0.89 0.04 0.07
Matches are distributed among these distances:
24 6 0.15
25 28 0.68
26 7 0.17
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.26
Consensus pattern (25 bp):
AACTGGGGCAAAGCCTTTTCTGATA
Found at i:72762073 original size:39 final size:39
Alignment explanation
Indices: 72762029--72762226 Score: 333
Period size: 39 Copynumber: 5.1 Consensus size: 39
72762019 ATGCAAGACA
72762029 CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTG
1 CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTG
72762068 CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTG
1 CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTG
* *
72762107 CTGGAAATATATCCGGGCCAAAGTCCCGCAGGCTTCGTG
1 CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTG
* * *
72762146 CTGGAAATGTATCCGGGCCAAAGTCCCACAGGCTTTGTG
1 CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTG
* *
72762185 CTGGAAATGTATCCGGGTTAAAGTCCCGCAGGCTTTGTG
1 CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTG
72762224 CTG
1 CTG
72762227 ATAATATAAT
Statistics
Matches: 151, Mismatches: 8, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
39 151 1.00
ACGTcount: A:0.21, C:0.25, G:0.30, T:0.24
Consensus pattern (39 bp):
CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTG
Found at i:72764274 original size:27 final size:27
Alignment explanation
Indices: 72764244--72764308 Score: 69
Period size: 27 Copynumber: 2.4 Consensus size: 27
72764234 GGGCATATTC
*
72764244 GTCATTTTACCATACA-AGGGTATTACG
1 GTCATTTTACCATACAGAGGCT-TTACG
** *
72764271 GTCACGTTACCCTACAGAGGCTTTACG
1 GTCATTTTACCATACAGAGGCTTTACG
*
72764298 GTCTTTTTACC
1 GTCATTTTACC
72764309 TATTAGGGGT
Statistics
Matches: 30, Mismatches: 7, Indels: 2
0.77 0.18 0.05
Matches are distributed among these distances:
27 26 0.87
28 4 0.13
ACGTcount: A:0.23, C:0.25, G:0.18, T:0.34
Consensus pattern (27 bp):
GTCATTTTACCATACAGAGGCTTTACG
Found at i:72764392 original size:27 final size:26
Alignment explanation
Indices: 72764362--72764575 Score: 133
Period size: 27 Copynumber: 7.9 Consensus size: 26
72764352 GTAAATCTAC
*
72764362 AAACCAAGGGTATTTCAGTAATTTTGT
1 AAACCAAGGGTATTTCGGTAATTTT-T
* **
72764389 AAACCAATGGTATTTCTATAATTTTT
1 AAACCAAGGGTATTTCGGTAATTTTT
* * **
72764415 AGAAAGTCAAGGGTATTACTATAATTTTGT
1 --AAA-CCAAGGGTATTTCGGTAATTTT-T
* *
72764445 AAATCAAGGGTATTTTGGTAATTTTT
1 AAACCAAGGGTATTTCGGTAATTTTT
** **
72764471 CAAATTAAGGGTATTTCGGTAATTTCAC
1 -AAACCAAGGGTATTTCGGTAATTT-TT
*
72764499 AAACC-AGTGGTATTTCGGTAATTTTAC
1 AAACCAAG-GGTATTTCGGTAATTTT-T
* * * *
72764526 AAACTAGGGGTATTTTGGTAATTTTAC
1 AAACCAAGGGTATTTCGGTAATTTT-T
* * *
72764553 AAACTAGGGGTATTTTGGTAATT
1 AAACCAAGGGTATTTCGGTAATT
72764576 CTATCCTACA
Statistics
Matches: 158, Mismatches: 20, Indels: 18
0.81 0.10 0.09
Matches are distributed among these distances:
26 4 0.03
27 127 0.80
28 7 0.04
29 19 0.12
30 1 0.01
ACGTcount: A:0.32, C:0.09, G:0.19, T:0.40
Consensus pattern (26 bp):
AAACCAAGGGTATTTCGGTAATTTTT
Found at i:72764511 original size:54 final size:54
Alignment explanation
Indices: 72764452--72764608 Score: 181
Period size: 54 Copynumber: 2.9 Consensus size: 54
72764442 TGTAAATCAA
* *
72764452 GGGTATTTTGGTAATTTTTCAAATTAAGGGTATTTCGGTAATTTCACAAACCAG
1 GGGTATTTTGGTAATTTTACAAACTAAGGGTATTTCGGTAATTTCACAAACCAG
* * * * * *
72764506 TGGTATTTCGGTAATTTTACAAACTAGGGGTATTTTGGTAATTTTACAAACTAG
1 GGGTATTTTGGTAATTTTACAAACTAAGGGTATTTCGGTAATTTCACAAACCAG
* ** * *
72764560 GGGTATTTTGGTAATTCTATCCTAC-AGGGGTATTTCAGTAATTTCACAA
1 GGGTATTTTGGTAATTTTA-CAAACTAAGGGTATTTCGGTAATTTCACAA
72764609 TCGAGGGTAA
Statistics
Matches: 86, Mismatches: 16, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
54 83 0.97
55 3 0.03
ACGTcount: A:0.29, C:0.11, G:0.20, T:0.39
Consensus pattern (54 bp):
GGGTATTTTGGTAATTTTACAAACTAAGGGTATTTCGGTAATTTCACAAACCAG
Found at i:72764592 original size:81 final size:81
Alignment explanation
Indices: 72764452--72764608 Score: 201
Period size: 81 Copynumber: 1.9 Consensus size: 81
72764442 TGTAAATCAA
* * * *
72764452 GGGTATTTTGGTAATTTTTCAAATTAAGGGTATTTCGGTAATTTCACAAACCAGTGGTATTTCGG
1 GGGTATTTTGGTAATTTTACAAACTAAGGGTATTTCGGTAATTTCACAAACCAGGGGTATTTCAG
*
72764517 TAATTTTACAAACTAG
66 TAATTTCACAAACTAG
* * **
72764533 GGGTATTTTGGTAATTTTACAAACTAGGGGTATTTTGGTAA-TTCTATCCTA-CAGGGGTATTTC
1 GGGTATTTTGGTAATTTTACAAACTAAGGGTATTTCGGTAATTTC-A-CAAACCAGGGGTATTTC
72764596 AGTAATTTCACAA
64 AGTAATTTCACAA
72764609 TCGAGGGTAA
Statistics
Matches: 65, Mismatches: 9, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
80 3 0.05
81 60 0.92
82 2 0.03
ACGTcount: A:0.29, C:0.11, G:0.20, T:0.39
Consensus pattern (81 bp):
GGGTATTTTGGTAATTTTACAAACTAAGGGTATTTCGGTAATTTCACAAACCAGGGGTATTTCAG
TAATTTCACAAACTAG
Found at i:72764615 original size:27 final size:27
Alignment explanation
Indices: 72764452--72764608 Score: 156
Period size: 27 Copynumber: 5.8 Consensus size: 27
72764442 TGTAAATCAA
* ** * *
72764452 GGGTATTTTGGTAATTTTTCAAATTAA
1 GGGTATTTCGGTAATTTCACAAACTAG
*
72764479 GGGTATTTCGGTAATTTCACAAACCAG
1 GGGTATTTCGGTAATTTCACAAACTAG
* *
72764506 TGGTATTTCGGTAATTTTACAAACTAG
1 GGGTATTTCGGTAATTTCACAAACTAG
* *
72764533 GGGTATTTTGGTAATTTTACAAACTAG
1 GGGTATTTCGGTAATTTCACAAACTAG
* **
72764560 GGGTATTTTGGTAA-TTCTATCCTAC-AG
1 GGGTATTTCGGTAATTTC-A-CAAACTAG
*
72764587 GGGTATTTCAGTAATTTCACAA
1 GGGTATTTCGGTAATTTCACAA
72764609 TCGAGGGTAA
Statistics
Matches: 109, Mismatches: 18, Indels: 7
0.81 0.13 0.05
Matches are distributed among these distances:
26 3 0.03
27 100 0.92
28 6 0.06
ACGTcount: A:0.29, C:0.11, G:0.20, T:0.39
Consensus pattern (27 bp):
GGGTATTTCGGTAATTTCACAAACTAG
Found at i:72764637 original size:27 final size:27
Alignment explanation
Indices: 72764607--72764765 Score: 228
Period size: 27 Copynumber: 5.9 Consensus size: 27
72764597 GTAATTTCAC
* *
72764607 AATCGAGGGTAAAATGGTAATTTTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
72764634 AATCGAGGGTAAAACGGTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
* *
72764661 AATCGAGGGTAAAATGGTAATTCTATA
1 AATCGAGGGTAAAACGGTAATTCTGTA
* * *
72764688 AATCAAGGGTAAAACGATAATTTTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
* *
72764715 AATCGAGGGTGAAACGGTAATTCTATA
1 AATCGAGGGTAAAACGGTAATTCTGTA
*
72764742 AATCGAGGGTAAAATGGTAATTCT
1 AATCGAGGGTAAAACGGTAATTCT
72764766 ACAAATCAAG
Statistics
Matches: 116, Mismatches: 16, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 116 1.00
ACGTcount: A:0.39, C:0.08, G:0.24, T:0.29
Consensus pattern (27 bp):
AATCGAGGGTAAAACGGTAATTCTGTA
Found at i:72764720 original size:81 final size:81
Alignment explanation
Indices: 72764607--72764777 Score: 288
Period size: 81 Copynumber: 2.1 Consensus size: 81
72764597 GTAATTTCAC
* * * *
72764607 AATCGAGGGTAAAATGGTAATTTTGTAAATCGAGGGTAAAACGGTAATTCTGTAAATCGAGGGTA
1 AATCAAGGGTAAAACGATAATTTTGTAAATCGAGGGTAAAACGGTAATTCTATAAATCGAGGGTA
*
72764672 AAATGGTAATTCTATA
66 AAATGGTAATTCTACA
*
72764688 AATCAAGGGTAAAACGATAATTTTGTAAATCGAGGGTGAAACGGTAATTCTATAAATCGAGGGTA
1 AATCAAGGGTAAAACGATAATTTTGTAAATCGAGGGTAAAACGGTAATTCTATAAATCGAGGGTA
72764753 AAATGGTAATTCTACA
66 AAATGGTAATTCTACA
72764769 AATCAAGGG
1 AATCAAGGG
72764778 CATTTCAGTA
Statistics
Matches: 84, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
81 84 1.00
ACGTcount: A:0.40, C:0.09, G:0.24, T:0.27
Consensus pattern (81 bp):
AATCAAGGGTAAAACGATAATTTTGTAAATCGAGGGTAAAACGGTAATTCTATAAATCGAGGGTA
AAATGGTAATTCTACA
Found at i:72766896 original size:25 final size:25
Alignment explanation
Indices: 72766868--72766976 Score: 96
Period size: 25 Copynumber: 4.4 Consensus size: 25
72766858 CTAGAGGCCT
72766868 AGCCTCTTTTAAT-AACTGGGGCAAA
1 AGCC-CTTTTAATAAACTGGGGCAAA
** *
72766893 AGCCCTTTTGGTAAATTGGGGCAAA
1 AGCCCTTTTAATAAACTGGGGCAAA
** * *
72766918 AGCCCTTTTGGTAAATTGGGGCATA
1 AGCCCTTTTAATAAACTGGGGCAAA
** *
72766943 AGCCCTTTTCGGTAAACTGGGGCATA
1 AGCCCTTTT-AATAAACTGGGGCAAA
72766969 A-CCCTTTT
1 AGCCCTTTT
72766977 GCACTTCCTC
Statistics
Matches: 77, Mismatches: 5, Indels: 4
0.90 0.06 0.05
Matches are distributed among these distances:
24 6 0.08
25 55 0.71
26 16 0.21
ACGTcount: A:0.26, C:0.20, G:0.24, T:0.30
Consensus pattern (25 bp):
AGCCCTTTTAATAAACTGGGGCAAA
Found at i:72766963 original size:26 final size:25
Alignment explanation
Indices: 72766881--72766977 Score: 142
Period size: 25 Copynumber: 3.9 Consensus size: 25
72766871 CTCTTTTAAT
72766881 AACTGGGGCAAAAGCCCTTTTGGTA
1 AACTGGGGCAAAAGCCCTTTTGGTA
*
72766906 AATTGGGGCAAAAGCCCTTTTGGTA
1 AACTGGGGCAAAAGCCCTTTTGGTA
* *
72766931 AATTGGGGCATAAGCCCTTTTCGGTA
1 AACTGGGGCAAAAGCCCTTTT-GGTA
*
72766957 AACTGGGGCATAA-CCCTTTTG
1 AACTGGGGCAAAAGCCCTTTTG
72766978 CACTTCCTCC
Statistics
Matches: 68, Mismatches: 3, Indels: 3
0.92 0.04 0.04
Matches are distributed among these distances:
24 1 0.01
25 51 0.75
26 16 0.24
ACGTcount: A:0.26, C:0.20, G:0.27, T:0.28
Consensus pattern (25 bp):
AACTGGGGCAAAAGCCCTTTTGGTA
Found at i:72767051 original size:20 final size:20
Alignment explanation
Indices: 72767026--72767122 Score: 140
Period size: 20 Copynumber: 4.8 Consensus size: 20
72767016 TTATGAATAC
72767026 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
**
72767046 ATCATGTGCATATTGTACAT
1 ATCATGTGCATATCATACAT
72767066 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
* *
72767086 ATCATGTGAATACCATACAT
1 ATCATGTGCATATCATACAT
* *
72767106 ACCATGTACATATCATA
1 ATCATGTGCATATCATA
72767123 TCAATATTGT
Statistics
Matches: 67, Mismatches: 10, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 67 1.00
ACGTcount: A:0.36, C:0.20, G:0.10, T:0.34
Consensus pattern (20 bp):
ATCATGTGCATATCATACAT
Found at i:72767117 original size:11 final size:11
Alignment explanation
Indices: 72767026--72767121 Score: 75
Period size: 11 Copynumber: 9.5 Consensus size: 11
72767016 TTATGAATAC
*
72767026 ATCATGTGCAT
1 ATCATGTACAT
72767037 ATCA--TACAT
1 ATCATGTACAT
*
72767046 ATCATGTGCAT
1 ATCATGTACAT
72767057 AT--TGTACAT
1 ATCATGTACAT
*
72767066 ATCATGTGCAT
1 ATCATGTACAT
72767077 ATCA--TACAT
1 ATCATGTACAT
72767086 ATCATGTGA-AT
1 ATCATGT-ACAT
*
72767097 ACCA--TACAT
1 ATCATGTACAT
*
72767106 ACCATGTACAT
1 ATCATGTACAT
72767117 ATCAT
1 ATCAT
72767122 ATCAATATTG
Statistics
Matches: 68, Mismatches: 7, Indels: 20
0.72 0.07 0.21
Matches are distributed among these distances:
8 1 0.01
9 31 0.46
11 35 0.51
12 1 0.01
ACGTcount: A:0.35, C:0.20, G:0.10, T:0.34
Consensus pattern (11 bp):
ATCATGTACAT
Found at i:72769247 original size:31 final size:31
Alignment explanation
Indices: 72769196--72769310 Score: 187
Period size: 31 Copynumber: 3.7 Consensus size: 31
72769186 TTAGTCTTGA
*
72769196 CATAT-ACTGGGCCAAAGCCTTTTCATAAAT
1 CATATCACTGGGCCGAAGCCTTTTCATAAAT
*
72769226 CATATCACTAGGCCGAAGCCTTTTCATAAAT
1 CATATCACTGGGCCGAAGCCTTTTCATAAAT
*
72769257 CATATCACTGGACCGAAGCCTTTTCATAAAT
1 CATATCACTGGGCCGAAGCCTTTTCATAAAT
*
72769288 CATATCATTGGGCCGAAGCCTTT
1 CATATCACTGGGCCGAAGCCTTT
72769311 ACTGTAAACG
Statistics
Matches: 78, Mismatches: 6, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
30 5 0.06
31 73 0.94
ACGTcount: A:0.30, C:0.25, G:0.15, T:0.30
Consensus pattern (31 bp):
CATATCACTGGGCCGAAGCCTTTTCATAAAT
Found at i:72769379 original size:41 final size:42
Alignment explanation
Indices: 72769334--72769424 Score: 166
Period size: 42 Copynumber: 2.2 Consensus size: 42
72769324 TGGCTCTCAG
*
72769334 GCCCATTTCAATA-CACATGTAATGTCAATGGATGTATGCAA
1 GCCCATTTCAATATCACATGTAATGTCAATGAATGTATGCAA
72769375 GCCCATTTCAATATCACATGTAATGTCAATGAATGTATGCAA
1 GCCCATTTCAATATCACATGTAATGTCAATGAATGTATGCAA
72769417 GCCCATTT
1 GCCCATTT
72769425 GGGGAGACTA
Statistics
Matches: 48, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
41 13 0.27
42 35 0.73
ACGTcount: A:0.33, C:0.21, G:0.15, T:0.31
Consensus pattern (42 bp):
GCCCATTTCAATATCACATGTAATGTCAATGAATGTATGCAA
Found at i:72769600 original size:25 final size:25
Alignment explanation
Indices: 72769572--72769637 Score: 98
Period size: 25 Copynumber: 2.6 Consensus size: 25
72769562 CTCTTTTAAT
72769572 AACTGGGGCAAAGCCC-TTTCTGATA
1 AACTGGGGCAAAGCCCTTTTC-GATA
*
72769597 AACTGGGGCAAAGCCCTTTTCGGTA
1 AACTGGGGCAAAGCCCTTTTCGATA
*
72769622 AACTGGGGCAGAGCCC
1 AACTGGGGCAAAGCCC
72769638 GTTTAGCACT
Statistics
Matches: 38, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
25 34 0.89
26 4 0.11
ACGTcount: A:0.26, C:0.26, G:0.29, T:0.20
Consensus pattern (25 bp):
AACTGGGGCAAAGCCCTTTTCGATA
Found at i:72770460 original size:27 final size:26
Alignment explanation
Indices: 72770430--72770496 Score: 82
Period size: 27 Copynumber: 2.5 Consensus size: 26
72770420 GGGCATATTC
72770430 GTCATTTTACCATACAAGGG-TATTACG
1 GTCATTTTACC-TACAAGGGCT-TTACG
*
72770457 GTCACTTTACGCTACAAGGGCTTTACG
1 GTCATTTTAC-CTACAAGGGCTTTACG
*
72770484 GTCTTTTTACCTA
1 GTCATTTTACCTA
72770497 TTAGGGGTAA
Statistics
Matches: 35, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
26 3 0.09
27 30 0.86
28 2 0.06
ACGTcount: A:0.24, C:0.22, G:0.18, T:0.36
Consensus pattern (26 bp):
GTCATTTTACCTACAAGGGCTTTACG
Found at i:72770577 original size:27 final size:27
Alignment explanation
Indices: 72770545--72770735 Score: 127
Period size: 27 Copynumber: 7.0 Consensus size: 27
72770535 TTGGTAAATC
72770545 TATAAACTAAGGGTATTTCAGTAATTT
1 TATAAACTAAGGGTATTTCAGTAATTT
* * *
72770572 TGTAAACCAATGGTATTTCTA-TAATTTT
1 TATAAACTAAGGGTATTTC-AGTAA-TTT
* * *
72770600 TAAAAAGTTAAGGGTATTTCTGTAATTT
1 TATAAA-CTAAGGGTATTTCAGTAATTT
* * **
72770628 TGTAAA-TCAGGGGTATTTTGGTAATTT
1 TATAAACT-AAGGGTATTTCAGTAATTT
* * **
72770655 TACAAACTAGGGGTATTTTGGTAATTT
1 TATAAACTAAGGGTATTTCAGTAATTT
* * ** *
72770682 TACAAACTAGGGGTATTTTGGTAATTC
1 TATAAACTAAGGGTATTTCAGTAATTT
* *
72770709 TATCCAAC-ATGGGTATTTCAGTAATTT
1 TAT-AAACTAAGGGTATTTCAGTAATTT
72770736 CACAATCGAG
Statistics
Matches: 134, Mismatches: 23, Indels: 14
0.78 0.13 0.08
Matches are distributed among these distances:
26 1 0.01
27 101 0.75
28 19 0.14
29 13 0.10
ACGTcount: A:0.31, C:0.08, G:0.18, T:0.42
Consensus pattern (27 bp):
TATAAACTAAGGGTATTTCAGTAATTT
Found at i:72770653 original size:56 final size:54
Alignment explanation
Indices: 72770548--72770707 Score: 164
Period size: 54 Copynumber: 2.9 Consensus size: 54
72770538 GTAAATCTAT
* ** *
72770548 AAACTAAGGGTATTTCAGTAATTTTGTAAACCAATGGTATTTCT-ATAATTTTTAA
1 AAACTAAGGGTATTTCTGTAATTTTGTAAA-CAGGGGTATTT-TGGTAATTTTTAA
* *
72770603 AAAGTTAAGGGTATTTCTGTAATTTTGTAAATCAGGGGTATTTTGGTAA-TTTTAC
1 AAA-CTAAGGGTATTTCTGTAATTTTGTAAA-CAGGGGTATTTTGGTAATTTTTAA
* **
72770658 AAACTAGGGGTATTT-TGGTAATTTTACAAACTAGGGGTATTTTGGTAATT
1 AAACTAAGGGTATTTCT-GTAATTTTGTAAAC-AGGGGTATTTTGGTAATT
72770708 CTATCCAACA
Statistics
Matches: 89, Mismatches: 11, Indels: 10
0.81 0.10 0.09
Matches are distributed among these distances:
53 2 0.02
54 37 0.42
55 13 0.15
56 37 0.42
ACGTcount: A:0.32, C:0.07, G:0.19, T:0.42
Consensus pattern (54 bp):
AAACTAAGGGTATTTCTGTAATTTTGTAAACAGGGGTATTTTGGTAATTTTTAA
Found at i:72770733 original size:54 final size:54
Alignment explanation
Indices: 72770533--72770740 Score: 152
Period size: 54 Copynumber: 3.8 Consensus size: 54
72770523 TACAATGGTG
* * * ** * **
72770533 TTTTGGTAAATCTATAAACTAAGGGTATTTCAGTAATTTTGTAAACCAATGGTA
1 TTTTGGTAATTCTACAAACTAGGGGTATTTCAGTAATTTTACAAATCAGGGGTA
* * * * * * **
72770587 TTTCT-ATAATTTTTAAAAAGTTAAGGGTATTTCTGTAATTTTGTAAATCAGGGGTA
1 TTT-TGGTAA-TTCTACAAA-CTAGGGGTATTTCAGTAATTTTACAAATCAGGGGTA
* **
72770643 TTTTGGTAATTTTACAAACTAGGGGTATTTTGGTAATTTTACAAA-CTAGGGGTA
1 TTTTGGTAATTCTACAAACTAGGGGTATTTCAGTAATTTTACAAATC-AGGGGTA
* * *
72770697 TTTTGGTAATTCTATCCAAC-ATGGGTATTTCAGTAATTTCACAA
1 TTTTGGTAATTCTA-CAAACTAGGGGTATTTCAGTAATTTTACAA
72770741 TCGAGGGTAA
Statistics
Matches: 125, Mismatches: 23, Indels: 12
0.78 0.14 0.08
Matches are distributed among these distances:
53 1 0.01
54 67 0.54
55 20 0.16
56 37 0.30
ACGTcount: A:0.32, C:0.09, G:0.18, T:0.41
Consensus pattern (54 bp):
TTTTGGTAATTCTACAAACTAGGGGTATTTCAGTAATTTTACAAATCAGGGGTA
Found at i:72770780 original size:27 final size:27
Alignment explanation
Indices: 72770739--72770936 Score: 218
Period size: 27 Copynumber: 7.3 Consensus size: 27
72770729 GTAATTTCAC
* *
72770739 AATCGAGGGTAAAATGGTAATTTTGTA
1 AATCGAGGGTAAAATGGTAATTCTATA
* * *
72770766 AA-CTGAGTGTAAAATGGTAATTTTGTA
1 AATC-GAGGGTAAAATGGTAATTCTATA
* * * *
72770793 AATTGAGGGTATAACGATAATTCTATA
1 AATCGAGGGTAAAATGGTAATTCTATA
*
72770820 AATCAAGGGTAAAATGGTAATTCTATA
1 AATCGAGGGTAAAATGGTAATTCTATA
* * * *
72770847 AATCGAGGGTAAAACGATAATTTTGTA
1 AATCGAGGGTAAAATGGTAATTCTATA
* *
72770874 AATCGAGGGTGAAACGGTAATTCTATA
1 AATCGAGGGTAAAATGGTAATTCTATA
*
72770901 AATCGAGGGTAAAATGGTAATTCTACA
1 AATCGAGGGTAAAATGGTAATTCTATA
*
72770928 AATCAAGGG
1 AATCGAGGG
72770937 CATTTCAGTA
Statistics
Matches: 143, Mismatches: 26, Indels: 4
0.83 0.15 0.02
Matches are distributed among these distances:
26 1 0.01
27 142 0.99
ACGTcount: A:0.40, C:0.08, G:0.23, T:0.30
Consensus pattern (27 bp):
AATCGAGGGTAAAATGGTAATTCTATA
Found at i:72770859 original size:81 final size:81
Alignment explanation
Indices: 72770739--72770936 Score: 274
Period size: 81 Copynumber: 2.4 Consensus size: 81
72770729 GTAATTTCAC
* * * * * *
72770739 AATCGAGGGTAAAATGGTAATTTTGTAAA-CTGAGTGTAAAATGGTAATTTTGTAAATTGAGGGT
1 AATCGAGGGTAAAATGGTAATTCTATAAATC-GAGGGTAAAACGATAATTTTGTAAATCGAGGGT
72770803 -ATAACGATAATTCTATA
65 GA-AACGATAATTCTATA
*
72770820 AATCAAGGGTAAAATGGTAATTCTATAAATCGAGGGTAAAACGATAATTTTGTAAATCGAGGGTG
1 AATCGAGGGTAAAATGGTAATTCTATAAATCGAGGGTAAAACGATAATTTTGTAAATCGAGGGTG
*
72770885 AAACGGTAATTCTATA
66 AAACGATAATTCTATA
* *
72770901 AATCGAGGGTAAAATGGTAATTCTACAAATCAAGGG
1 AATCGAGGGTAAAATGGTAATTCTATAAATCGAGGG
72770937 CATTTCAGTA
Statistics
Matches: 104, Mismatches: 11, Indels: 4
0.87 0.09 0.03
Matches are distributed among these distances:
81 102 0.98
82 2 0.02
ACGTcount: A:0.40, C:0.08, G:0.23, T:0.30
Consensus pattern (81 bp):
AATCGAGGGTAAAATGGTAATTCTATAAATCGAGGGTAAAACGATAATTTTGTAAATCGAGGGTG
AAACGATAATTCTATA
Found at i:72779942 original size:22 final size:22
Alignment explanation
Indices: 72779914--72779970 Score: 114
Period size: 22 Copynumber: 2.6 Consensus size: 22
72779904 GTTCTAGGGT
72779914 CACACAGGCATGTCCCTTGGAC
1 CACACAGGCATGTCCCTTGGAC
72779936 CACACAGGCATGTCCCTTGGAC
1 CACACAGGCATGTCCCTTGGAC
72779958 CACACAGGCATGT
1 CACACAGGCATGT
72779971 GAGCCCTGTA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 35 1.00
ACGTcount: A:0.25, C:0.35, G:0.23, T:0.18
Consensus pattern (22 bp):
CACACAGGCATGTCCCTTGGAC
Found at i:72781857 original size:16 final size:15
Alignment explanation
Indices: 72781832--72781865 Score: 50
Period size: 16 Copynumber: 2.2 Consensus size: 15
72781822 AAAGTTGATA
*
72781832 ATAATCAATATATATT
1 ATAATAAATATA-ATT
72781848 ATAATAAATATAATT
1 ATAATAAATATAATT
72781863 ATA
1 ATA
72781866 TACTTGTTAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 6 0.35
16 11 0.65
ACGTcount: A:0.56, C:0.03, G:0.00, T:0.41
Consensus pattern (15 bp):
ATAATAAATATAATT
Found at i:72789439 original size:42 final size:42
Alignment explanation
Indices: 72789363--72789514 Score: 135
Period size: 42 Copynumber: 3.6 Consensus size: 42
72789353 AGATTACATG
* **
72789363 TAAGACCATATCTGGGATATGGTATCGGTATGAGACTTCGTA
1 TAAGACCATATCTGGGATATGGCATCGACATGAGACTTCGTA
* * * *
72789405 TAAGACCATATTTGGGATATGGCATCGACGTGAGATTTCGTG
1 TAAGACCATATCTGGGATATGGCATCGACATGAGACTTCGTA
* * * ** * * *
72789447 TAAGACTATAGCTGGGCTATTCACATCGATACGAGA-TTACATA
1 TAAGACCATATCTGGGATA-TGGCATCGACATGAGACTT-CGTA
*
72789490 TAAGACTATATCTGGGATATGGCAT
1 TAAGACCATATCTGGGATATGGCAT
72789515 TGGTACGGTA
Statistics
Matches: 86, Mismatches: 22, Indels: 4
0.77 0.20 0.04
Matches are distributed among these distances:
42 56 0.65
43 30 0.35
ACGTcount: A:0.30, C:0.15, G:0.24, T:0.30
Consensus pattern (42 bp):
TAAGACCATATCTGGGATATGGCATCGACATGAGACTTCGTA
Found at i:72799923 original size:38 final size:40
Alignment explanation
Indices: 72799858--72800060 Score: 153
Period size: 38 Copynumber: 4.8 Consensus size: 40
72799848 TGAATCAGTA
* *
72799858 TATGTAGCCGTGGAATATCCACTTAGCACCACGTTACATG
1 TATGTAACCGTGGTATATCCACTTAGCACCACGTTACATG
* * * * *
72799898 T-T-TAATCATGGTATATCCACTTAGCACTATGTTAATGAATCAATA
1 TATGTAACCGTGGTATATCCACTTAGCACCACG-T--T--A-C-ATG
*
72799943 TATGTAACCGTGGCATATCCACTTAGCACCACGTTACATG
1 TATGTAACCGTGGTATATCCACTTAGCACCACGTTACATG
* *
72799983 TATCAATATGTGTAATCGTGGTATATCCACTTAGCACCACGTTACACG
1 ------TA--TGTAACCGTGGTATATCCACTTAGCACCACGTTACATG
72800031 TA--TAACCGTGGTATATCCACTTAGCACCAC
1 TATGTAACCGTGGTATATCCACTTAGCACCAC
72800061 ATGTTTTCAT
Statistics
Matches: 129, Mismatches: 17, Indels: 36
0.71 0.09 0.20
Matches are distributed among these distances:
38 50 0.39
39 2 0.02
40 3 0.02
41 2 0.02
42 3 0.02
43 1 0.01
44 2 0.02
45 3 0.02
46 4 0.03
47 24 0.19
48 35 0.27
ACGTcount: A:0.30, C:0.24, G:0.16, T:0.31
Consensus pattern (40 bp):
TATGTAACCGTGGTATATCCACTTAGCACCACGTTACATG
Found at i:72799954 original size:85 final size:85
Alignment explanation
Indices: 72799825--72799983 Score: 273
Period size: 85 Copynumber: 1.9 Consensus size: 85
72799815 TAACCGTGGC
* *
72799825 ATATCCACTTAGCACCACGTTAATGAATCAGTATATGTAGCCGTGGAATATCCACTTAGCACCAC
1 ATATCCACTTAGCACCACGTTAATGAATCAATATATGTAACCGTGGAATATCCACTTAGCACCAC
72799890 GTTACATGTTTAATCATGGT
66 GTTACATGTTTAATCATGGT
* * *
72799910 ATATCCACTTAGCACTATGTTAATGAATCAATATATGTAACCGTGGCATATCCACTTAGCACCAC
1 ATATCCACTTAGCACCACGTTAATGAATCAATATATGTAACCGTGGAATATCCACTTAGCACCAC
72799975 GTTACATGT
66 GTTACATGT
72799984 ATCAATATGT
Statistics
Matches: 69, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
85 69 1.00
ACGTcount: A:0.31, C:0.23, G:0.15, T:0.31
Consensus pattern (85 bp):
ATATCCACTTAGCACCACGTTAATGAATCAATATATGTAACCGTGGAATATCCACTTAGCACCAC
GTTACATGTTTAATCATGGT
Found at i:72800003 original size:48 final size:48
Alignment explanation
Indices: 72799895--72800033 Score: 190
Period size: 48 Copynumber: 2.9 Consensus size: 48
72799885 ACCACGTTAC
* * * * *
72799895 ATGTTTAATCATGGTATATCCACTTAGCACTATGTTA-ATGAATCAAT
1 ATGTGTAATCGTGGTATATCCACTTAGCACCACGTTACATGTATCAAT
* * *
72799942 ATATGTAACCGTGGCATATCCACTTAGCACCACGTTACATGTATCAAT
1 ATGTGTAATCGTGGTATATCCACTTAGCACCACGTTACATGTATCAAT
*
72799990 ATGTGTAATCGTGGTATATCCACTTAGCACCACGTTACACGTAT
1 ATGTGTAATCGTGGTATATCCACTTAGCACCACGTTACATGTAT
72800034 AACCGTGGTA
Statistics
Matches: 79, Mismatches: 12, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
47 30 0.38
48 49 0.62
ACGTcount: A:0.31, C:0.21, G:0.15, T:0.33
Consensus pattern (48 bp):
ATGTGTAATCGTGGTATATCCACTTAGCACCACGTTACATGTATCAAT
Found at i:72800043 original size:133 final size:132
Alignment explanation
Indices: 72799815--72800057 Score: 387
Period size: 133 Copynumber: 1.8 Consensus size: 132
72799805 TTAACATGTA
* *
72799815 TAACCGTGGCATATCCACTTAGCACCACGTTAATGAATCAGTATATGTAGCCGTGGAATATCCAC
1 TAACCGTGGCATATCCACTTAGCACCACGTTAATGAATCAATATATGTAACCGTGGAATATCCAC
* * *
72799880 TTAGCACCACGTTACATGTTTAATCATGGTATATCCACTTAGCACTATGTTAATGAATCAATATA
66 TTAGCACCACGTTACACGTATAACCATGGTATATCCACTTAGCACTATGTTAATGAATCAATATA
72799945 TG
131 TG
* * * *
72799947 TAACCGTGGCATATCCACTTAGCACCACGTTACATGTATCAATATGTGTAATCGTGGTATATCCA
1 TAACCGTGGCATATCCACTTAGCACCACGTTA-ATGAATCAATATATGTAACCGTGGAATATCCA
*
72800012 CTTAGCACCACGTTACACGTATAACCGTGGTATATCCACTTAGCAC
65 CTTAGCACCACGTTACACGTATAACCATGGTATATCCACTTAGCAC
72800058 CACATGTTTT
Statistics
Matches: 100, Mismatches: 10, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
132 32 0.32
133 68 0.68
ACGTcount: A:0.30, C:0.23, G:0.16, T:0.30
Consensus pattern (132 bp):
TAACCGTGGCATATCCACTTAGCACCACGTTAATGAATCAATATATGTAACCGTGGAATATCCAC
TTAGCACCACGTTACACGTATAACCATGGTATATCCACTTAGCACTATGTTAATGAATCAATATA
TG
Found at i:72807700 original size:15 final size:15
Alignment explanation
Indices: 72807675--72807713 Score: 60
Period size: 15 Copynumber: 2.5 Consensus size: 15
72807665 TAAGAGAAAC
72807675 AAAAGTGATGGTTATG
1 AAAA-TGATGGTTATG
72807691 AAAATGATGGTTATG
1 AAAATGATGGTTATG
72807706 AAGAATGA
1 AA-AATGA
72807714 GGCCACGCCA
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
15 13 0.59
16 9 0.41
ACGTcount: A:0.44, C:0.00, G:0.28, T:0.28
Consensus pattern (15 bp):
AAAATGATGGTTATG
Found at i:72811058 original size:31 final size:31
Alignment explanation
Indices: 72811023--72811086 Score: 119
Period size: 31 Copynumber: 2.1 Consensus size: 31
72811013 GGCCATGAAA
*
72811023 GTTTATTCTCTCTCTCTCCTAGGGTTTCCAT
1 GTTTAATCTCTCTCTCTCCTAGGGTTTCCAT
72811054 GTTTAATCTCTCTCTCTCCTAGGGTTTCCAT
1 GTTTAATCTCTCTCTCTCCTAGGGTTTCCAT
72811085 GT
1 GT
72811087 ATTTTAGGTT
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.11, C:0.28, G:0.14, T:0.47
Consensus pattern (31 bp):
GTTTAATCTCTCTCTCTCCTAGGGTTTCCAT
Found at i:72811687 original size:29 final size:29
Alignment explanation
Indices: 72811655--72811891 Score: 223
Period size: 29 Copynumber: 8.2 Consensus size: 29
72811645 AAAGGAAGCA
* * **
72811655 TTGTGGCGATCTCTATTAACAGGATGTTT
1 TTGTGGCTATCTCTATTAAAAGGATGCCT
* *
72811684 TTGTGGCTATCTTTGTTAAAAGGATGCCT
1 TTGTGGCTATCTCTATTAAAAGGATGCCT
* * **
72811713 TTGTGGCGATCTCTGTTAAAAGGATGTTT
1 TTGTGGCTATCTCTATTAAAAGGATGCCT
* * * *
72811742 TTGTGGCTATCCCTGTTAGAAGGATACCT
1 TTGTGGCTATCTCTATTAAAAGGATGCCT
* *
72811771 TTATGGCTATCTCTATTAAAAGGATACCT
1 TTGTGGCTATCTCTATTAAAAGGATGCCT
*
72811800 TTGTGACTATCTCTATTAAAAGGATGCCT
1 TTGTGGCTATCTCTATTAAAAGGATGCCT
* *
72811829 TTATGGCCATCTCTATT-AAAGGAATGCCT
1 TTGTGGCTATCTCTATTAAAAGG-ATGCCT
* *
72811858 TCT-T-GCAAAT-TCTGTT-AAAGGATGCCT
1 T-TGTGGC-TATCTCTATTAAAAGGATGCCT
72811885 TTGTGGC
1 TTGTGGC
72811892 GAAAATCTGA
Statistics
Matches: 175, Mismatches: 28, Indels: 11
0.82 0.13 0.05
Matches are distributed among these distances:
26 1 0.01
27 8 0.05
28 19 0.11
29 146 0.83
30 1 0.01
ACGTcount: A:0.24, C:0.16, G:0.22, T:0.38
Consensus pattern (29 bp):
TTGTGGCTATCTCTATTAAAAGGATGCCT
Found at i:72811719 original size:58 final size:58
Alignment explanation
Indices: 72811658--72811848 Score: 256
Period size: 58 Copynumber: 3.3 Consensus size: 58
72811648 GGAAGCATTG
* * *
72811658 TGGCGATCTCTATTAACAGGATGTTTTTGTGGCTATCTTTGTTAAAAGGATGCCTTTG
1 TGGCGATCTCTATTAAAAGGATGTTTTTGTGGCTATCTCTGTTAAAAGGATGCCTTTA
* * * *
72811716 TGGCGATCTCTGTTAAAAGGATGTTTTTGTGGCTATCCCTGTTAGAAGGATACCTTTA
1 TGGCGATCTCTATTAAAAGGATGTTTTTGTGGCTATCTCTGTTAAAAGGATGCCTTTA
* *** * *
72811774 TGGCTATCTCTATTAAAAGGATACCTTTGTGACTATCTCTATTAAAAGGATGCCTTTA
1 TGGCGATCTCTATTAAAAGGATGTTTTTGTGGCTATCTCTGTTAAAAGGATGCCTTTA
*
72811832 TGGCCATCTCTATTAAA
1 TGGCGATCTCTATTAAA
72811849 GGAATGCCTT
Statistics
Matches: 115, Mismatches: 18, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
58 115 1.00
ACGTcount: A:0.25, C:0.16, G:0.20, T:0.39
Consensus pattern (58 bp):
TGGCGATCTCTATTAAAAGGATGTTTTTGTGGCTATCTCTGTTAAAAGGATGCCTTTA
Found at i:72820778 original size:9 final size:9
Alignment explanation
Indices: 72820764--72820795 Score: 55
Period size: 9 Copynumber: 3.6 Consensus size: 9
72820754 TATAGTTTGA
72820764 TATTCGAGT
1 TATTCGAGT
*
72820773 TATTCGAAT
1 TATTCGAGT
72820782 TATTCGAGT
1 TATTCGAGT
72820791 TATTC
1 TATTC
72820796 AAATTCGAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 21 1.00
ACGTcount: A:0.25, C:0.12, G:0.16, T:0.47
Consensus pattern (9 bp):
TATTCGAGT
Found at i:72820787 original size:18 final size:18
Alignment explanation
Indices: 72820764--72820800 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
72820754 TATAGTTTGA
*
72820764 TATTCGAGTTATTCGAAT
1 TATTCGAGTTATTCAAAT
72820782 TATTCGAGTTATTCAAAT
1 TATTCGAGTTATTCAAAT
72820800 T
1 T
72820801 CGAAAACTCA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.30, C:0.11, G:0.14, T:0.46
Consensus pattern (18 bp):
TATTCGAGTTATTCAAAT
Found at i:72821736 original size:33 final size:33
Alignment explanation
Indices: 72821665--72821736 Score: 90
Period size: 33 Copynumber: 2.2 Consensus size: 33
72821655 CTATATATTT
* * * *
72821665 TATAACATATTTAAGTAATTTAATATAACGATA
1 TATAAAATATTTAAATAATTTAATAGAACAATA
* *
72821698 CATAAAATATTTAAATAATTTAATAGAATAATA
1 TATAAAATATTTAAATAATTTAATAGAACAATA
72821731 TATAAA
1 TATAAA
72821737 TTATAATTTT
Statistics
Matches: 32, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
33 32 1.00
ACGTcount: A:0.54, C:0.04, G:0.04, T:0.38
Consensus pattern (33 bp):
TATAAAATATTTAAATAATTTAATAGAACAATA
Found at i:72828454 original size:34 final size:34
Alignment explanation
Indices: 72828415--72828483 Score: 129
Period size: 34 Copynumber: 2.0 Consensus size: 34
72828405 TCAATAAGAC
*
72828415 ACCCAAGCCAATGGAAAGGCAGTTGATGGGTCTT
1 ACCCAAGCCAATGGAAAGGCAGTTGATGAGTCTT
72828449 ACCCAAGCCAATGGAAAGGCAGTTGATGAGTCTT
1 ACCCAAGCCAATGGAAAGGCAGTTGATGAGTCTT
72828483 A
1 A
72828484 GGCGGAGAAT
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 34 1.00
ACGTcount: A:0.32, C:0.20, G:0.28, T:0.20
Consensus pattern (34 bp):
ACCCAAGCCAATGGAAAGGCAGTTGATGAGTCTT
Found at i:72831295 original size:13 final size:13
Alignment explanation
Indices: 72831277--72831304 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
72831267 AGGATGTGTC
72831277 AATAATAATAAAT
1 AATAATAATAAAT
72831290 AATAATAATAAAT
1 AATAATAATAAAT
72831303 AA
1 AA
72831305 AGAGACGATG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (13 bp):
AATAATAATAAAT
Found at i:72831375 original size:16 final size:17
Alignment explanation
Indices: 72831344--72831376 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
72831334 TTTGGTAGTT
*
72831344 TTTGTCAAAGATAATTA
1 TTTGACAAAGATAATTA
72831361 TTTGACAAA-ATAATTA
1 TTTGACAAAGATAATTA
72831377 CCGTAATGTC
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 7 0.47
17 8 0.53
ACGTcount: A:0.45, C:0.06, G:0.09, T:0.39
Consensus pattern (17 bp):
TTTGACAAAGATAATTA
Found at i:72834541 original size:22 final size:21
Alignment explanation
Indices: 72834495--72834541 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
72834485 AATAACATAG
* **
72834495 TTTTAATAAATGCAAGAAATC
1 TTTTAATAAATGAAAGAAAAA
72834516 TTTTAATAAATGAAAAGAAAAA
1 TTTTAATAAATG-AAAGAAAAA
72834538 TTTT
1 TTTT
72834542 GAACTGTTAT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
21 12 0.55
22 10 0.45
ACGTcount: A:0.51, C:0.04, G:0.09, T:0.36
Consensus pattern (21 bp):
TTTTAATAAATGAAAGAAAAA
Found at i:72835653 original size:68 final size:67
Alignment explanation
Indices: 72835544--72835675 Score: 246
Period size: 68 Copynumber: 2.0 Consensus size: 67
72835534 CTAAGTACAG
*
72835544 TTTCCAAACTTTTATTAGTAAGGAAATGTTTAACTGTCTGATTATCAGTTTTTATGATAAATTTT
1 TTTCCAAACTTTTATTAGTAAGGAAATGTTTAACTATCTGATTATCAG-TTTTATGATAAATTTT
72835609 CCA
65 CCA
72835612 TTTCCAAACTTTTATTAGTAAGGAAATGTTTAACTATCTGATTATCAGTTTTATGATAAATTTT
1 TTTCCAAACTTTTATTAGTAAGGAAATGTTTAACTATCTGATTATCAGTTTTATGATAAATTTT
72835676 ACATGTGCTA
Statistics
Matches: 63, Mismatches: 1, Indels: 1
0.97 0.02 0.02
Matches are distributed among these distances:
67 16 0.25
68 47 0.75
ACGTcount: A:0.32, C:0.11, G:0.11, T:0.46
Consensus pattern (67 bp):
TTTCCAAACTTTTATTAGTAAGGAAATGTTTAACTATCTGATTATCAGTTTTATGATAAATTTTC
CA
Found at i:72838122 original size:96 final size:96
Alignment explanation
Indices: 72837947--72838137 Score: 258
Period size: 96 Copynumber: 2.0 Consensus size: 96
72837937 CTTCTTTTTA
* * *
72837947 CTCCTCTTAGCCTCATTGGCTTCGGCATTTCCCTTGCTCGAACCAAGCTTCTTGGGCTCATTGTC
1 CTCCTCTTAGCCTCATTGGCTTCGGCATTTCCCTTGCTCGAACCAAGCTTCTTAGGCTCAGTATC
* * * **
72838012 TACTCTATCGTTCCCTTCGATGACAGACTTG
66 TACTCGATCATTCCCATCGACAACAGACTTG
* * *
72838043 CTCCTCTTTGCCCTC-TTGGCTTCGGCTTTTCCCTTGCTCGAACCAAGCTTCTTAGGCTCCGTAT
1 CTCCTCTTAG-CCTCATTGGCTTCGGCATTTCCCTTGCTCGAACCAAGCTTCTTAGGCTCAGTAT
*
72838107 CTGCTCGATCATTCCCATCGACAACAGACTT
65 CTACTCGATCATTCCCATCGACAACAGACTT
72838138 TCTCGAACAC
Statistics
Matches: 82, Mismatches: 12, Indels: 2
0.85 0.12 0.02
Matches are distributed among these distances:
96 78 0.95
97 4 0.05
ACGTcount: A:0.15, C:0.34, G:0.17, T:0.35
Consensus pattern (96 bp):
CTCCTCTTAGCCTCATTGGCTTCGGCATTTCCCTTGCTCGAACCAAGCTTCTTAGGCTCAGTATC
TACTCGATCATTCCCATCGACAACAGACTTG
Found at i:72838411 original size:6 final size:6
Alignment explanation
Indices: 72838400--72838424 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
72838390 ACCACCATTG
72838400 TTGCCA TTGCCA TTGCCA TTGCCA T
1 TTGCCA TTGCCA TTGCCA TTGCCA T
72838425 ACTCATCCGT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.16, C:0.32, G:0.16, T:0.36
Consensus pattern (6 bp):
TTGCCA
Found at i:72840318 original size:50 final size:50
Alignment explanation
Indices: 72840260--72840360 Score: 202
Period size: 50 Copynumber: 2.0 Consensus size: 50
72840250 GCTATTTGGC
72840260 CATAATTTTAATGGTTCTTGACTAAAATTATTATATAATATTTTAAACAA
1 CATAATTTTAATGGTTCTTGACTAAAATTATTATATAATATTTTAAACAA
72840310 CATAATTTTAATGGTTCTTGACTAAAATTATTATATAATATTTTAAACAA
1 CATAATTTTAATGGTTCTTGACTAAAATTATTATATAATATTTTAAACAA
72840360 C
1 C
72840361 CAATAACTTG
Statistics
Matches: 51, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
50 51 1.00
ACGTcount: A:0.42, C:0.09, G:0.06, T:0.44
Consensus pattern (50 bp):
CATAATTTTAATGGTTCTTGACTAAAATTATTATATAATATTTTAAACAA
Found at i:72840338 original size:22 final size:22
Alignment explanation
Indices: 72840263--72840338 Score: 53
Period size: 22 Copynumber: 3.2 Consensus size: 22
72840253 ATTTGGCCAT
72840263 AATTTTAATGGTTCTTGACTAA
1 AATTTTAATGGTTCTTGACTAA
** * * *
72840285 AATTATTATATAATATTTTAAACAACA
1 AATT-TTA-ATGGT-TCTT-GACTA-A
72840312 TAATTTTAATGGTTCTTGACTAA
1 -AATTTTAATGGTTCTTGACTAA
72840335 AATT
1 AATT
72840339 ATTATATAAT
Statistics
Matches: 38, Mismatches: 10, Indels: 12
0.63 0.17 0.20
Matches are distributed among these distances:
22 8 0.21
23 4 0.11
24 6 0.16
25 6 0.16
26 6 0.16
27 4 0.11
28 4 0.11
ACGTcount: A:0.39, C:0.08, G:0.08, T:0.45
Consensus pattern (22 bp):
AATTTTAATGGTTCTTGACTAA
Found at i:72841599 original size:50 final size:50
Alignment explanation
Indices: 72841499--72841718 Score: 165
Period size: 50 Copynumber: 4.4 Consensus size: 50
72841489 TGAGATGGAG
* * * * * * **
72841499 TGAAGTTACAGTAGCAAACCTCATCTCCCTGAAGATGCAATGCAGTAAGA
1 TGAAGCTACAATAGCAAATCTCATCTCCCTGAAGATGTAGTGGAACAAGA
* * * *
72841549 TAAAGCTGCAGTAGCAAATCTCATCTCCTTGAAGATGTAGTGGAACAAGA
1 TGAAGCTACAATAGCAAATCTCATCTCCCTGAAGATGTAGTGGAACAAGA
* * * * * * *
72841599 TGAAGCTACAACAGCGACTC-CTATATCCTTGAAGTTGTAGTGGAATGAAG-
1 TGAAGCTACAATAGCAAATCTC-ATCTCCCTGAAGATGTAGTGGAA-CAAGA
* * * ***
72841649 TGAAGCTACAATAGCAAATTTTATCTCCCTAAAGATGTAGTGGAGTGAGA
1 TGAAGCTACAATAGCAAATCTCATCTCCCTGAAGATGTAGTGGAACAAGA
* *
72841699 TGAAGCTACAAAATCAAATC
1 TGAAGCTACAATAGCAAATC
72841719 ATATACCCCT
Statistics
Matches: 132, Mismatches: 34, Indels: 8
0.76 0.20 0.05
Matches are distributed among these distances:
49 3 0.02
50 126 0.95
51 3 0.02
ACGTcount: A:0.36, C:0.18, G:0.21, T:0.25
Consensus pattern (50 bp):
TGAAGCTACAATAGCAAATCTCATCTCCCTGAAGATGTAGTGGAACAAGA
Found at i:72841732 original size:100 final size:100
Alignment explanation
Indices: 72841551--72841745 Score: 228
Period size: 100 Copynumber: 1.9 Consensus size: 100
72841541 CAGTAAGATA
* * * * * *
72841551 AAGCTGCAGTAGCAAATCTCATCTCCTTGAAGATGTAGTGGAACAAGATGAAGCTACAACAGCGA
1 AAGCTACAATAGCAAATCTCATCTCCCTAAAGATGTAGTGGAACAAGATGAAGCTACAAAAGCAA
* * * * * *
72841616 CTCCTATATCCTTGAAGTTGTAGTGGAATGAAGTG
66 ATCATATACCCCTGAAGTTGCAGTGAAATGAAGTG
* * *** *
72841651 AAGCTACAATAGCAAATTTTATCTCCCTAAAGATGTAGTGGAGTGAGATGAAGCTACAAAATCAA
1 AAGCTACAATAGCAAATCTCATCTCCCTAAAGATGTAGTGGAACAAGATGAAGCTACAAAAGCAA
72841716 ATCATATACCCCTGAAGTTGCAGTGAAATG
66 ATCATATACCCCTGAAGTTGCAGTGAAATG
72841746 GATAAAACAA
Statistics
Matches: 77, Mismatches: 18, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
100 77 1.00
ACGTcount: A:0.36, C:0.17, G:0.22, T:0.25
Consensus pattern (100 bp):
AAGCTACAATAGCAAATCTCATCTCCCTAAAGATGTAGTGGAACAAGATGAAGCTACAAAAGCAA
ATCATATACCCCTGAAGTTGCAGTGAAATGAAGTG
Found at i:72842410 original size:23 final size:21
Alignment explanation
Indices: 72842380--72842421 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 21
72842370 AATTACCTAT
72842380 AAAACAAAGACAAAAGAGAAAGG
1 AAAACAAAG--AAAAGAGAAAGG
72842403 AAAACAAAGAAAAGAGAAA
1 AAAACAAAGAAAAGAGAAA
72842422 TATTTTGTAA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
21 10 0.53
23 9 0.47
ACGTcount: A:0.74, C:0.07, G:0.19, T:0.00
Consensus pattern (21 bp):
AAAACAAAGAAAAGAGAAAGG
Found at i:72842966 original size:30 final size:27
Alignment explanation
Indices: 72842930--72842991 Score: 72
Period size: 30 Copynumber: 2.2 Consensus size: 27
72842920 CCTCACAAGA
72842930 GAGAAAAAGAGAGAAATAAGATTATTTTTT
1 GAGAAAAAGAGAGAAAT--GATT-TTTTTT
* *
72842960 GAGAAAATGAGTGAAATGATTTTTTTT
1 GAGAAAAAGAGAGAAATGATTTTTTTT
72842987 -AGAAA
1 GAGAAA
72842992 CTTTTTAACT
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
26 5 0.17
27 6 0.20
28 4 0.13
30 15 0.50
ACGTcount: A:0.47, C:0.00, G:0.21, T:0.32
Consensus pattern (27 bp):
GAGAAAAAGAGAGAAATGATTTTTTTT
Found at i:72845762 original size:29 final size:28
Alignment explanation
Indices: 72845720--72845844 Score: 173
Period size: 27 Copynumber: 4.5 Consensus size: 28
72845710 CATGAGATTG
* * * *
72845720 GCACTAAGTGTGCGGGTTTAAATTGTACA
1 GCACTAAGTGTGCGAGTTT-GATTATATA
72845749 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
72845777 GCACTAAGTGTACGAG-TTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
72845804 GCACTAAGTGTGCGAG-TTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
72845831 GCACTGAGTGTGCG
1 GCACTAAGTGTGCG
72845845 GACTTAATAT
Statistics
Matches: 89, Mismatches: 7, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
27 50 0.56
28 21 0.24
29 18 0.20
ACGTcount: A:0.28, C:0.13, G:0.27, T:0.32
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATATA
Found at i:72845856 original size:54 final size:55
Alignment explanation
Indices: 72845748--72845857 Score: 161
Period size: 54 Copynumber: 2.0 Consensus size: 55
72845738 TAAATTGTAC
* *
72845748 AGCACTAAGTGTGCGAGTTTGATTATATAGCACTAAGTGTACGAGTTGATTATAT
1 AGCACTAAGTGTGCGAGTTTGATTATATAGCACTAAGTGTACGACTTGAATATAT
* *
72845803 AGCACTAAGTGTGCGAG-TTGATTATATAGCACTGAGTGTGCGGACTT-AATATAT
1 AGCACTAAGTGTGCGAGTTTGATTATATAGCACTAAGTGTAC-GACTTGAATATAT
72845857 A
1 A
72845858 TTTTTGAATC
Statistics
Matches: 50, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
54 29 0.58
55 21 0.42
ACGTcount: A:0.31, C:0.12, G:0.25, T:0.33
Consensus pattern (55 bp):
AGCACTAAGTGTGCGAGTTTGATTATATAGCACTAAGTGTACGACTTGAATATAT
Found at i:72853746 original size:27 final size:26
Alignment explanation
Indices: 72853709--72853765 Score: 96
Period size: 27 Copynumber: 2.2 Consensus size: 26
72853699 ATTATATAGC
72853709 TGCGATTGATTATATAGCACTAAGTG
1 TGCGATTGATTATATAGCACTAAGTG
*
72853735 TGCGAGTTGATTATATAGCACTGAGTG
1 TGCGA-TTGATTATATAGCACTAAGTG
72853762 TGCG
1 TGCG
72853766 GACTTAATAT
Statistics
Matches: 29, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
26 5 0.17
27 24 0.83
ACGTcount: A:0.26, C:0.12, G:0.28, T:0.33
Consensus pattern (26 bp):
TGCGATTGATTATATAGCACTAAGTG
Found at i:72853776 original size:27 final size:27
Alignment explanation
Indices: 72853709--72853777 Score: 79
Period size: 27 Copynumber: 2.6 Consensus size: 27
72853699 ATTATATAGC
*
72853709 TGCGA-TTGATTATATAGCACTAAGTG
1 TGCGACTTGAATATATAGCACTAAGTG
* * *
72853735 TGCGAGTTGATTATATAGCACTGAGTG
1 TGCGACTTGAATATATAGCACTAAGTG
72853762 TGCGGACTT-AATATAT
1 TGC-GACTTGAATATAT
72853778 TTTTTGAATC
Statistics
Matches: 38, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
26 5 0.13
27 29 0.76
28 4 0.11
ACGTcount: A:0.29, C:0.12, G:0.25, T:0.35
Consensus pattern (27 bp):
TGCGACTTGAATATATAGCACTAAGTG
Found at i:72872359 original size:21 final size:20
Alignment explanation
Indices: 72872320--72872378 Score: 57
Period size: 21 Copynumber: 2.9 Consensus size: 20
72872310 TTATAGAAAT
*
72872320 TAAATAAAAACGAAATAAAAA
1 TAAAT-AAAACAAAATAAAAA
* **
72872341 TAAGTAAAACAAAATTAAAGC
1 TAAATAAAACAAAA-TAAAAA
72872362 TAAATAAAAC-AAATAAA
1 TAAATAAAACAAAATAAA
72872379 TGAAAACTCT
Statistics
Matches: 32, Mismatches: 5, Indels: 4
0.78 0.12 0.10
Matches are distributed among these distances:
19 4 0.12
20 11 0.34
21 17 0.53
ACGTcount: A:0.71, C:0.07, G:0.05, T:0.17
Consensus pattern (20 bp):
TAAATAAAACAAAATAAAAA
Found at i:72873233 original size:19 final size:19
Alignment explanation
Indices: 72873206--72873260 Score: 58
Period size: 19 Copynumber: 2.9 Consensus size: 19
72873196 TAATAATAAT
* * *
72873206 AAACCTAAAATAAAAAGAC
1 AAACTTAAAATAAAAAAAA
72873225 AAACTTAAAATACAAAAAAA
1 AAACTTAAAATA-AAAAAAA
*
72873245 AAAGTT-AAATAAAAAA
1 AAACTTAAAATAAAAAA
72873261 TAATAAAACA
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
18 5 0.16
19 16 0.52
20 10 0.32
ACGTcount: A:0.73, C:0.09, G:0.04, T:0.15
Consensus pattern (19 bp):
AAACTTAAAATAAAAAAAA
Found at i:72875717 original size:9 final size:9
Alignment explanation
Indices: 72875693--72875770 Score: 50
Period size: 10 Copynumber: 7.9 Consensus size: 9
72875683 AATAAAAATG
72875693 TATAATTTT
1 TATAATTTT
*
72875702 AAT-ATTTT
1 TATAATTTT
72875710 TATAATTTGTT
1 TATAA-TT-TT
72875721 TATAAATTTTGTT
1 TAT-AA--TT-TT
72875734 TATAATTTT
1 TATAATTTT
*
72875743 TATGATTTTT
1 TAT-AATTTT
72875753 TAATAATTTT
1 T-ATAATTTT
*
72875763 TAAAATTT
1 TATAATTT
72875771 AAAAGGGCTT
Statistics
Matches: 57, Mismatches: 5, Indels: 14
0.75 0.07 0.18
Matches are distributed among these distances:
8 7 0.12
9 14 0.25
10 16 0.28
11 7 0.12
12 4 0.07
13 9 0.16
ACGTcount: A:0.33, C:0.00, G:0.04, T:0.63
Consensus pattern (9 bp):
TATAATTTT
Found at i:72875722 original size:11 final size:10
Alignment explanation
Indices: 72875701--72875763 Score: 56
Period size: 11 Copynumber: 5.8 Consensus size: 10
72875691 TGTATAATTT
72875701 TAATATTTTTA
1 TAAT-TTTTTA
72875712 TAATTTGTTTA
1 TAATTT-TTTA
72875723 TAAATTTTGTTTA
1 T-AA-TTT-TTTA
72875736 TAA-TTTTTA
1 TAATTTTTTA
*
72875745 TGATTTTTTAA
1 TAATTTTTT-A
72875756 TAATTTTT
1 TAATTTTT
72875764 AAAATTTAAA
Statistics
Matches: 45, Mismatches: 2, Indels: 10
0.79 0.04 0.18
Matches are distributed among these distances:
9 6 0.13
10 9 0.20
11 17 0.38
12 4 0.09
13 9 0.20
ACGTcount: A:0.30, C:0.00, G:0.05, T:0.65
Consensus pattern (10 bp):
TAATTTTTTA
Found at i:72875740 original size:12 final size:12
Alignment explanation
Indices: 72875708--72875742 Score: 54
Period size: 13 Copynumber: 2.9 Consensus size: 12
72875698 TTTTAATATT
72875708 TTTATAA-TTTG
1 TTTATAATTTTG
72875719 TTTATAAATTTTG
1 TTTAT-AATTTTG
72875732 TTTATAATTTT
1 TTTATAATTTT
72875743 TATGATTTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
11 5 0.23
12 8 0.36
13 9 0.41
ACGTcount: A:0.29, C:0.00, G:0.06, T:0.66
Consensus pattern (12 bp):
TTTATAATTTTG
Found at i:72875770 original size:20 final size:19
Alignment explanation
Indices: 72875693--72875770 Score: 61
Period size: 20 Copynumber: 3.9 Consensus size: 19
72875683 AATAAAAATG
*
72875693 TATAA-TTTTAATA-TTTT
1 TATAATTTTTAAAATTTTT
72875710 TATAATTTGTTTATAAATTTTGTT
1 TATAA-TT-TTTA-AAA-TTT-TT
**
72875734 TATAATTTTTATGATTTTT
1 TATAATTTTTAAAATTTTT
72875753 TAATAATTTTTAAAATTT
1 T-ATAATTTTTAAAATTT
72875771 AAAAGGGCTT
Statistics
Matches: 48, Mismatches: 5, Indels: 13
0.73 0.08 0.20
Matches are distributed among these distances:
17 5 0.10
19 4 0.08
20 21 0.44
21 3 0.06
22 4 0.08
23 4 0.08
24 7 0.15
ACGTcount: A:0.33, C:0.00, G:0.04, T:0.63
Consensus pattern (19 bp):
TATAATTTTTAAAATTTTT
Found at i:72884831 original size:3 final size:3
Alignment explanation
Indices: 72884823--72884872 Score: 100
Period size: 3 Copynumber: 16.7 Consensus size: 3
72884813 AATATGTTAA
72884823 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
72884871 AA
1 AA
72884873 ACCGAAAGTC
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 47 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:72886730 original size:12 final size:12
Alignment explanation
Indices: 72886713--72886747 Score: 52
Period size: 12 Copynumber: 2.9 Consensus size: 12
72886703 CTCAATAAGC
72886713 TTTAATTAAATA
1 TTTAATTAAATA
*
72886725 TTTAATTCAATA
1 TTTAATTAAATA
*
72886737 TCTAATTAAAT
1 TTTAATTAAAT
72886748 TTATATACTT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.46, C:0.06, G:0.00, T:0.49
Consensus pattern (12 bp):
TTTAATTAAATA
Found at i:72888038 original size:23 final size:23
Alignment explanation
Indices: 72888000--72888046 Score: 67
Period size: 23 Copynumber: 2.0 Consensus size: 23
72887990 ACGACAAGAC
72888000 TAAAAATATATCTAACACACTTT
1 TAAAAATATATCTAACACACTTT
* * *
72888023 TAAAAATTTATGTAACATACTTT
1 TAAAAATATATCTAACACACTTT
72888046 T
1 T
72888047 TTTTAATAAA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.45, C:0.13, G:0.02, T:0.40
Consensus pattern (23 bp):
TAAAAATATATCTAACACACTTT
Found at i:72889627 original size:13 final size:12
Alignment explanation
Indices: 72889605--72889639 Score: 52
Period size: 13 Copynumber: 2.8 Consensus size: 12
72889595 AAAAAGCTAG
72889605 AAATAAAATAAC
1 AAATAAAATAAC
72889617 AAATAAGAATAAC
1 AAATAA-AATAAC
72889630 AAATTAAAAT
1 AAA-TAAAAT
72889640 TTTGAAGCTA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
12 6 0.29
13 12 0.57
14 3 0.14
ACGTcount: A:0.71, C:0.06, G:0.03, T:0.20
Consensus pattern (12 bp):
AAATAAAATAAC
Found at i:72889705 original size:3 final size:3
Alignment explanation
Indices: 72889699--72889755 Score: 60
Period size: 3 Copynumber: 18.7 Consensus size: 3
72889689 AAAATTTAAG
* * * * *
72889699 AAT AAT AAT AAT ATT AAT AAT AAT GAT GAT GAT ATT AAT AAT AAAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT -AAT
72889745 AAT AAT AAT AA
1 AAT AAT AAT AA
72889756 AAACTAAAGT
Statistics
Matches: 47, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
3 44 0.94
4 3 0.06
ACGTcount: A:0.60, C:0.00, G:0.05, T:0.35
Consensus pattern (3 bp):
AAT
Found at i:72890991 original size:8 final size:8
Alignment explanation
Indices: 72890978--72891002 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
72890968 ACCTAGGGTT
72890978 TTTTTTTC
1 TTTTTTTC
72890986 TTTTTTTC
1 TTTTTTTC
72890994 TTTTTTTC
1 TTTTTTTC
72891002 T
1 T
72891003 GAATTTTTTT
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:0.00, C:0.12, G:0.00, T:0.88
Consensus pattern (8 bp):
TTTTTTTC
Found at i:72891332 original size:44 final size:44
Alignment explanation
Indices: 72891278--72891842 Score: 308
Period size: 44 Copynumber: 12.6 Consensus size: 44
72891268 CGATCCACTT
* * * *
72891278 CACTACAACTTCAGGGAGATAAGACTTGTAACTTTGATCCACTC
1 CACTGCAACTTCAGGGAGATAAGATTTGTAACTTTCATCTACTC
* * * *
72891322 CACTGCAACTTTAGGGATATAAGA-TTGATAGC-TTCAATCTGCTC
1 CACTGCAACTTCAGGGAGATAAGATTTG-TAACTTTC-ATCTACTC
** * * * * *
72891366 TGCTACAACTTCAGGGAGACAAGATTTACTATC-TTCGATCTA-AC
1 CACTGCAACTTCAGGGAGATAAGATTT-GTAACTTTC-ATCTACTC
* * * * *
72891410 CACTACAACTTTAGGGAGATAAGATCTATAAC-TTCAATCTGCTC
1 CACTGCAACTTCAGGGAGATAAGATTTGTAACTTTC-ATCTACTC
* * * **
72891454 TACTGCAACTTCATGGAGATAAGATTTGTAATTTGTAGCTGTAATCTGTTC
1 CACTGCAACTTCAGGGAGATAAGATTTGTAACTT-T--C----ATCTACTC
* * * * * **
72891505 CACTGCAACTTCAGGAAAATAAAATTCGTTA-TCTTCAGTCTGTTC
1 CACTGCAACTTCAGGGAGATAAGATTTGTAACT-TTCA-TCTACTC
* * *
72891550 CACTGCCA-TATCAGGGAGATAAGACTTGTAAC-TTCAACATACTC
1 CACTGCAACT-TCAGGGAGATAAGATTTGTAACTTTCATC-TACTC
* * * * * *
72891594 CACTGCAACTTTAGGGAGATAAGGTTTATAGCTTTAATCTGCTC
1 CACTGCAACTTCAGGGAGATAAGATTTGTAACTTTCATCTACTC
* * * *
72891638 TACTGCAACTTCAGAGAGATAAGATTTGCTATC-TTCAGTCTGCTC
1 CACTGCAACTTCAGGGAGATAAGATTTG-TAACTTTCA-TCTACTC
* * * * *
72891683 CATTGCCATTTCAGGGAGATAAGACTTGTAAC-TTCAACCTACTC
1 CACTGCAACTTCAGGGAGATAAGATTTGTAACTTTC-ATCTACTC
* * * * *
72891727 CACTGCAACTTCAGAGAGATAA-AGTTTATAGCTTTAATCTGCTC
1 CACTGCAACTTCAGGGAGATAAGA-TTTGTAACTTTCATCTACTC
* * *
72891771 TACTGCAACTTCAGAGAGATAAGATTTGCTATC-TTCAGTCTACTC
1 CACTGCAACTTCAGGGAGATAAGATTTG-TAACTTTCA-TCTACTC
* *
72891816 CACTGCAACTTTAAGGAGATAAGATTT
1 CACTGCAACTTCAGGGAGATAAGATTT
72891843 TCCATGATGG
Statistics
Matches: 397, Mismatches: 97, Indels: 53
0.73 0.18 0.10
Matches are distributed among these distances:
43 17 0.04
44 227 0.57
45 115 0.29
46 1 0.00
48 2 0.01
50 2 0.01
51 33 0.08
ACGTcount: A:0.31, C:0.21, G:0.17, T:0.32
Consensus pattern (44 bp):
CACTGCAACTTCAGGGAGATAAGATTTGTAACTTTCATCTACTC
Found at i:72891376 original size:88 final size:88
Alignment explanation
Indices: 72891283--72891839 Score: 369
Period size: 88 Copynumber: 6.2 Consensus size: 88
72891273 CACTTCACTA
* *
72891283 CAACTTCAGGGAGATAAGACTTGTAACTTTGATCCACTCCACTGCAACTTTAGGGATATAAGATT
1 CAACTTCAGGGAGATAAGACTTGTAACTTTGATCTACTCCACTGCAACTTTAGGGAGATAAGATT
* *
72891348 GATAGCTTCAATCTGCTCTGCTA
66 GATAGCTTCAATCTGCTCTACTG
* * * * * * *
72891371 CAACTTCAGGGAGACAAGATTTACTATCTTCGATCTA-ACCACTACAACTTTAGGGAGATAAGAT
1 CAACTTCAGGGAGATAAGACTT-GTAACTTTGATCTACTCCACTGCAACTTTAGGGAGATAAGAT
*
72891435 CT-ATAACTTCAATCTGCTCTACTG
65 -TGATAGCTTCAATCTGCTCTACTG
* * * * * *
72891459 CAACTTCATGGAGATAAGATTTGTAA-TTTGTAGCTGTAATCTGTTCCACTGCAACTTCAGGAAA
1 CAACTTCAGGGAGATAAGACTTGTAACTTTG-A--TCT-A-C---TCCACTGCAACTTTAGGGAG
* * * * * *
72891523 ATAAAATTCGTTATCTTCAGTCTGTTCCACTG
58 ATAAGATT-GATAGCTTCAATCTGCTCTACTG
* * * *
72891555 CCA-TATCAGGGAGATAAGACTTGTAAC-TTCAACATACTCCACTGCAACTTTAGGGAGATAAGG
1 CAACT-TCAGGGAGATAAGACTTGTAACTTTGATC-TACTCCACTGCAACTTTAGGGAGATAAGA
* *
72891618 TTTATAGCTTTAATCTGCTCTACTG
64 TTGATAGCTTCAATCTGCTCTACTG
* * * * * * *
72891643 CAACTTCAGAGAGATAAGATTTGCTATC-TTCAGTCTGCTCCATTGCCA-TTTCAGGGAGATAAG
1 CAACTTCAGGGAGATAAGACTTG-TAACTTTGA-TCTACTCCACTGCAACTTT-AGGGAGATAAG
* * * *
72891706 ACTTG-TAACTTCAACCTACTCCACTG
63 A-TTGATAGCTTCAATCTGCTCTACTG
* * * * * * *
72891732 CAACTTCAGAGAGATAA-AGTT-TATAGCTTTAATCTGCTCTACTGCAACTTCAGAGAGATAAGA
1 CAACTTCAGGGAGATAAGACTTGTA-A-CTTTGATCTACTCCACTGCAACTTTAGGGAGATAAGA
* * * * *
72891795 TTTGCTATCTTCAGTCTACTCCACTG
64 -TTGATAGCTTCAATCTGCTCTACTG
* *
72891821 CAACTTTAAGGAGATAAGA
1 CAACTTCAGGGAGATAAGA
72891840 TTTTCCATGA
Statistics
Matches: 365, Mismatches: 77, Indels: 52
0.74 0.16 0.11
Matches are distributed among these distances:
86 5 0.01
87 3 0.01
88 150 0.41
89 135 0.37
90 5 0.01
92 1 0.00
93 1 0.00
94 2 0.01
95 23 0.06
96 40 0.11
ACGTcount: A:0.31, C:0.21, G:0.17, T:0.31
Consensus pattern (88 bp):
CAACTTCAGGGAGATAAGACTTGTAACTTTGATCTACTCCACTGCAACTTTAGGGAGATAAGATT
GATAGCTTCAATCTGCTCTACTG
Found at i:72891697 original size:133 final size:133
Alignment explanation
Indices: 72891278--72891839 Score: 584
Period size: 133 Copynumber: 4.2 Consensus size: 133
72891268 CGATCCACTT
* * * * * *
72891278 CACTACAAC-TTCAGGGAGATAAGACTTGTAACTTTGATCCACTCCACTGCAACTTTAGGGATAT
1 CACTGCAACTTTCAGGGAGATAAGACTTGTAAC-TTCAACTACTCCACTGCAACTTCAGGGAGAT
* * * * * * * *
72891342 AAGATTGATAGCTTCAATCTGCTCTGCTACAACTTCAGGGAGACAAGATTTACTATCTTC-GATC
65 AAGGTTTATAGCTTTAATCTGCTCTACTGCAACTTCAGAGAGATAAGATTTGCTATCTTCAG-TC
**
72891406 T-AAC
129 TGCTC
* * * * *
72891410 CACTACAACTTT-AGGGAGATAAGA-TCTATAACTTCAATCTGCTCTACTGCAACTTCATGGAGA
1 CACTGCAACTTTCAGGGAGATAAGACT-TGTAACTTCAA-CTACTCCACTGCAACTTCAGGGAGA
* * * * * * * *
72891473 TAAGATTTGTAATTTGTAGCTGTAATCTGTTCCACTGCAACTTCAG-GAAAATAAAATTCGTTAT
64 TAAG----G---TTTATAGCTTTAATCTGCTCTACTGCAACTTCAGAG-AGATAAGATTTGCTAT
*
72891537 CTTCAGTCTGTTC
121 CTTCAGTCTGCTC
* * *
72891550 CACTGCCA-TATCAGGGAGATAAGACTTGTAACTTCAACATACTCCACTGCAACTTTAGGGAGAT
1 CACTGCAACTTTCAGGGAGATAAGACTTGTAACTTCAAC-TACTCCACTGCAACTTCAGGGAGAT
72891614 AAGGTTTATAGCTTTAATCTGCTCTACTGCAACTTCAGAGAGATAAGATTTGCTATCTTCAGTCT
65 AAGGTTTATAGCTTTAATCTGCTCTACTGCAACTTCAGAGAGATAAGATTTGCTATCTTCAGTCT
72891679 GCTC
130 GCTC
* * *
72891683 CATTGCCA-TTTCAGGGAGATAAGACTTGTAACTTCAACCTACTCCACTGCAACTTCAGAGAGAT
1 CACTGCAACTTTCAGGGAGATAAGACTTGTAACTTCAA-CTACTCCACTGCAACTTCAGGGAGAT
*
72891747 AAAGTTTATAGCTTTAATCTGCTCTACTGCAACTTCAGAGAGATAAGATTTGCTATCTTCAGTCT
65 AAGGTTTATAGCTTTAATCTGCTCTACTGCAACTTCAGAGAGATAAGATTTGCTATCTTCAGTCT
*
72891812 ACTC
130 GCTC
*
72891816 CACTGCAACTTT-AAGGAGATAAGA
1 CACTGCAACTTTCAGGGAGATAAGA
72891840 TTTTCCATGA
Statistics
Matches: 359, Mismatches: 52, Indels: 37
0.80 0.12 0.08
Matches are distributed among these distances:
131 4 0.01
132 49 0.14
133 198 0.55
134 5 0.01
136 1 0.00
138 1 0.00
139 46 0.13
140 54 0.15
141 1 0.00
ACGTcount: A:0.31, C:0.21, G:0.17, T:0.31
Consensus pattern (133 bp):
CACTGCAACTTTCAGGGAGATAAGACTTGTAACTTCAACTACTCCACTGCAACTTCAGGGAGATA
AGGTTTATAGCTTTAATCTGCTCTACTGCAACTTCAGAGAGATAAGATTTGCTATCTTCAGTCTG
CTC
Found at i:72891734 original size:89 final size:89
Alignment explanation
Indices: 72891560--72891842 Score: 234
Period size: 89 Copynumber: 3.2 Consensus size: 89
72891550 CACTGCCATA
* * * * * * * * **
72891560 TCAGGGAGATAAGACTTGTAACTTCAA-CATACTCCACTGCAACTTTAGGGAGATAAG-GTTTAT
1 TCAGAGAGATAAGATTTATAGCTTCAATC-TGCTCCACTGCAACTTCAGAGAGATAAGACTTGCT
* * * * *
72891623 AGCTTTAATCTGCTCTACTGCAACT
65 AACTTCAACCTACTCCACTGCAACT
* * * * * * *
72891648 TCAGAGAGATAAGATTTGCTATCTTCAGTCTGCTCCATTGCCATTTCAGGGAGATAAGACTTG-T
1 TCAGAGAGATAAGATTT-ATAGCTTCAATCTGCTCCACTGCAACTTCAGAGAGATAAGACTTGCT
72891712 AACTTCAACCTACTCCACTGCAACT
65 AACTTCAACCTACTCCACTGCAACT
* * *
72891737 TCAGAGAGATAA-AGTTTATAGCTTTAATCTGCTCTACTGCAACTTCAGAGAGATAAGATTTGCT
1 TCAGAGAGATAAGA-TTTATAGCTTCAATCTGCTCCACTGCAACTTCAGAGAGATAAGACTTGCT
* **
72891801 ATCTTCAGTCTACTCCACTGCAACT
65 AACTTCAACCTACTCCACTGCAACT
*
72891826 TTA-AGGAGATAAGATTT
1 TCAGA-GAGATAAGATTT
72891843 TCCATGATGG
Statistics
Matches: 157, Mismatches: 31, Indels: 13
0.78 0.15 0.06
Matches are distributed among these distances:
88 52 0.33
89 101 0.64
90 4 0.03
ACGTcount: A:0.30, C:0.21, G:0.17, T:0.31
Consensus pattern (89 bp):
TCAGAGAGATAAGATTTATAGCTTCAATCTGCTCCACTGCAACTTCAGAGAGATAAGACTTGCTA
ACTTCAACCTACTCCACTGCAACT
Found at i:72897783 original size:313 final size:313
Alignment explanation
Indices: 72897215--72898165 Score: 1830
Period size: 313 Copynumber: 3.0 Consensus size: 313
72897205 ACAAGTCTTC
*
72897215 ATATGAGAGCTATCCACTAGTAATCTGTTTAGTGTGGATAAGGGCAAGACATTTAGTGCAGACAC
1 ATATGAGAGCTATCCACTAGTAATCTGTTTAGTGTGGATAAGGGCAAGACATTTAGTGCAGACCC
72897280 ATTATCAATCAATACCCCTAGCAATGTATACCCATTGCAGTGGGTGGTGATGTGTAGAGGCTTTG
66 ATTATCAATCAATACCCCTAGCAATGTATACCCATTGCAGTGGGTGGTGATGTGTAGAGGCTTTG
72897345 TGGATCCAATGCCTCCCGGAAGTATTTCATCATTATTAAAAAAGATAAAATTATTGGCGCTTATG
131 TGGATCCAATGCCTCCCGGAAGTATTTCATCATTATTAAAAAAGATAAAATTATTGGCGCTTATG
*
72897410 TTACTGACCAAACGGTCTAGATTGTTGACGGAGATATCATTAGCAATATAAGTTTCATTTAATAC
196 TTACTGACCAAACGGTCTAGATTGTTGACGGAGATATCATTAGCAACATAAGTTTCATTTAATAC
72897475 TTTCATCAACGCGCTACGATATACCTCCAAGCTTAAGAGTAAAGTTAGCACTG
261 TTTCATCAACGCGCTACGATATACCTCCAAGCTTAAGAGTAAAGTTAGCACTG
72897528 ATATGAGAGCTATCCACTAGTAATCTGTTTAGTGTGGATAAGGGCAAGACATTTAGTGCAGACCC
1 ATATGAGAGCTATCCACTAGTAATCTGTTTAGTGTGGATAAGGGCAAGACATTTAGTGCAGACCC
*
72897593 ATTATCAATCAATACCTCTAGCAATGTATACCCATTGCAGTGGGTGGTGATGTGTAGAGGCTTTG
66 ATTATCAATCAATACCCCTAGCAATGTATACCCATTGCAGTGGGTGGTGATGTGTAGAGGCTTTG
72897658 TGGATCCAATGCCTCCCGGAAGTATTTCATCATTATTAAAAAAGATAAAATTATTGGCGCTTATG
131 TGGATCCAATGCCTCCCGGAAGTATTTCATCATTATTAAAAAAGATAAAATTATTGGCGCTTATG
72897723 TTACTGACCAAACGGTCTAGATTGTTGACGGAGATATCATTAGCAACATAAGTTTCATTTAATAC
196 TTACTGACCAAACGGTCTAGATTGTTGACGGAGATATCATTAGCAACATAAGTTTCATTTAATAC
72897788 TTTCATCAACGCGCTACGATATACCTCCAAGCTTAAGAGTAAAGTTAGCACTG
261 TTTCATCAACGCGCTACGATATACCTCCAAGCTTAAGAGTAAAGTTAGCACTG
72897841 ATATGAGAGCTATCCACTAGTAATCTGTTTAGTGTGGATAAGGGCAAGACATTTAGTGCAGACCC
1 ATATGAGAGCTATCCACTAGTAATCTGTTTAGTGTGGATAAGGGCAAGACATTTAGTGCAGACCC
72897906 ATTATCAATCAATACCCCTAGCAATGTATACCCATTGCAGTGGGTGGTGATGTGTAGAGGCTTTG
66 ATTATCAATCAATACCCCTAGCAATGTATACCCATTGCAGTGGGTGGTGATGTGTAGAGGCTTTG
*
72897971 TGGATCCAATGCCTTCCGGAAGTATTTCATCATTATTAAAAAAGATAAAATTATTGGCGCTTATG
131 TGGATCCAATGCCTCCCGGAAGTATTTCATCATTATTAAAAAAGATAAAATTATTGGCGCTTATG
72898036 TTACTGACCAAACGGTCTAGATTGTTGACGGAGATATCATTAGCAACATAAGTTTCATTTAATAC
196 TTACTGACCAAACGGTCTAGATTGTTGACGGAGATATCATTAGCAACATAAGTTTCATTTAATAC
* * *
72898101 TTTCATCAACGCGCTGCGATGTACCTTCAAGCTTAAGAGTAAAGTTAGCACTG
261 TTTCATCAACGCGCTACGATATACCTCCAAGCTTAAGAGTAAAGTTAGCACTG
*
72898154 ATATGTGAGCTA
1 ATATGAGAGCTA
72898166 ATTGTTTATG
Statistics
Matches: 629, Mismatches: 9, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
313 629 1.00
ACGTcount: A:0.31, C:0.18, G:0.20, T:0.30
Consensus pattern (313 bp):
ATATGAGAGCTATCCACTAGTAATCTGTTTAGTGTGGATAAGGGCAAGACATTTAGTGCAGACCC
ATTATCAATCAATACCCCTAGCAATGTATACCCATTGCAGTGGGTGGTGATGTGTAGAGGCTTTG
TGGATCCAATGCCTCCCGGAAGTATTTCATCATTATTAAAAAAGATAAAATTATTGGCGCTTATG
TTACTGACCAAACGGTCTAGATTGTTGACGGAGATATCATTAGCAACATAAGTTTCATTTAATAC
TTTCATCAACGCGCTACGATATACCTCCAAGCTTAAGAGTAAAGTTAGCACTG
Found at i:72902854 original size:46 final size:46
Alignment explanation
Indices: 72902491--72902856 Score: 475
Period size: 46 Copynumber: 8.0 Consensus size: 46
72902481 TTATCTTTGA
* * * *
72902491 CATGATGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTC-TGT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACTCA-TTTCATGT
*
72902537 CATGTTGCCATGGTATCTTTCAACCATGGTCTTA-TCCTTTTCATGT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACT-CATTTCATGT
* * *
72902583 CAAGTTGCCATGGTATCTTTCAACTATGGTCTTATTCATTTCATGT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATGT
* * * ** **
72902629 CACGCTGCCATGGTATCTTTCAACCATGGTGTTTTTCATTTCCCGT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATGT
* * *
72902675 CATGTTGCCATGGTATATTTCAACCATGGTCTTATTCTTTTCATGT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATGT
* * *
72902721 CACGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATGT
* * *
72902767 CATGTTACCATGGTATCTTTCAACCATGGTCTTACACATTTCATAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATGT
*
72902813 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACGCATTTCAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCAT
72902857 TTCAGAGAGC
Statistics
Matches: 284, Mismatches: 33, Indels: 6
0.88 0.10 0.02
Matches are distributed among these distances:
45 5 0.02
46 278 0.98
47 1 0.00
ACGTcount: A:0.20, C:0.23, G:0.15, T:0.41
Consensus pattern (46 bp):
CATGTTGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATGT
Found at i:72906286 original size:13 final size:12
Alignment explanation
Indices: 72906264--72906297 Score: 50
Period size: 13 Copynumber: 2.7 Consensus size: 12
72906254 AAAAAGCCAG
72906264 AAATAAAATAAC
1 AAATAAAATAAC
72906276 AAATAAGAATAAC
1 AAATAA-AATAAC
72906289 AAACTAAAA
1 AAA-TAAAA
72906298 ATTTGAAGCT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
12 6 0.30
13 11 0.55
14 3 0.15
ACGTcount: A:0.74, C:0.09, G:0.03, T:0.15
Consensus pattern (12 bp):
AAATAAAATAAC
Found at i:72914509 original size:25 final size:25
Alignment explanation
Indices: 72914475--72914537 Score: 90
Period size: 25 Copynumber: 2.5 Consensus size: 25
72914465 CTATGCCTAG
*
72914475 CAGGCTTTGTGCCAATGTCTTATAT
1 CAGGCTTTGTGCCAATGTATTATAT
* **
72914500 CAGGATTTGTGCTGATGTATTATAT
1 CAGGCTTTGTGCCAATGTATTATAT
72914525 CAGGCTTTGTGCC
1 CAGGCTTTGTGCC
72914538 TAGTAGGCTT
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
25 32 1.00
ACGTcount: A:0.19, C:0.17, G:0.24, T:0.40
Consensus pattern (25 bp):
CAGGCTTTGTGCCAATGTATTATAT
Found at i:72915828 original size:26 final size:26
Alignment explanation
Indices: 72915792--72915843 Score: 86
Period size: 26 Copynumber: 2.0 Consensus size: 26
72915782 CACCACTGAA
* *
72915792 TCGGGGAATCATCACTTAGCAACCCC
1 TCGGGGAATCAGCACATAGCAACCCC
72915818 TCGGGGAATCAGCACATAGCAACCCC
1 TCGGGGAATCAGCACATAGCAACCCC
72915844 CTTTTCATTT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.29, C:0.35, G:0.21, T:0.15
Consensus pattern (26 bp):
TCGGGGAATCAGCACATAGCAACCCC
Found at i:72915920 original size:70 final size:71
Alignment explanation
Indices: 72915804--72915954 Score: 241
Period size: 72 Copynumber: 2.1 Consensus size: 71
72915794 GGGGAATCAT
*
72915804 CACTTAGCAACCCCTCGGGGAATCAGCACATAGCAACCCCCTTTT-CATTTCAAATATACAATGG
1 CACTTAGCAACCCCTCGGGGAATCAGCACATAGCAACCCCCTTTTACATTTCAAAGATACAATGG
72915868 ATATCG
66 ATATCG
* ***
72915874 CACTTAGCAACCCCTCGGGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATATGGTG
1 CACTTAGCAACCCCTC-GGGGAATCAGCACATAGCAACCCCCTTTTACATTTCAAAGATACAATG
72915939 GATATCG
65 GATATCG
72915946 CACTTAGCA
1 CACTTAGCA
72915955 CCACCAATGA
Statistics
Matches: 74, Mismatches: 5, Indels: 2
0.91 0.06 0.02
Matches are distributed among these distances:
70 16 0.22
71 28 0.38
72 30 0.41
ACGTcount: A:0.30, C:0.30, G:0.17, T:0.23
Consensus pattern (71 bp):
CACTTAGCAACCCCTCGGGGAATCAGCACATAGCAACCCCCTTTTACATTTCAAAGATACAATGG
ATATCG
Found at i:72915997 original size:104 final size:103
Alignment explanation
Indices: 72915873--72916095 Score: 376
Period size: 104 Copynumber: 2.2 Consensus size: 103
72915863 AATGGATATC
72915873 GCACTTAGCAACCCCTCGGGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATATGGT
1 GCACTTAGCAACCCCTCGGGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATATGGT
* *
72915938 GGAT-ATCGCACTTAGCACCACCAATGAACCGGGGAATCA
66 GGATCA-CGCACATAGCACCACC-ATAAACCGGGGAATCA
72915977 GCACTTAGCAACCCCTCGGGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATATGGT
1 GCACTTAGCAACCCCTCGGGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATATGGT
*
72916042 GGATCACGCACATAGCACCACCATAAATCGGGGAATCA
66 GGATCACGCACATAGCACCACCATAAACCGGGGAATCA
**
72916080 GCACACAGCAACCCCT
1 GCACTTAGCAACCCCT
72916096 TTTATATACA
Statistics
Matches: 113, Mismatches: 5, Indels: 3
0.93 0.04 0.02
Matches are distributed among these distances:
103 28 0.25
104 84 0.74
105 1 0.01
ACGTcount: A:0.31, C:0.31, G:0.19, T:0.18
Consensus pattern (103 bp):
GCACTTAGCAACCCCTCGGGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATATGGT
GGATCACGCACATAGCACCACCATAAACCGGGGAATCA
Found at i:72916455 original size:29 final size:29
Alignment explanation
Indices: 72916422--72916485 Score: 76
Period size: 30 Copynumber: 2.2 Consensus size: 29
72916412 TAATCCACCA
72916422 CCCAACTTTTTG-AAAATTACAATTTTGCC
1 CCCAAC-TTTTGCAAAATTACAATTTTGCC
* * *
72916451 CCCAAACTTTTGCATAATTACACTTTTGTC
1 CCC-AACTTTTGCAAAATTACAATTTTGCC
72916481 CCCAA
1 CCCAA
72916486 GCTCGGAAAT
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
29 10 0.33
30 20 0.67
ACGTcount: A:0.30, C:0.28, G:0.06, T:0.36
Consensus pattern (29 bp):
CCCAACTTTTGCAAAATTACAATTTTGCC
Found at i:72916459 original size:30 final size:30
Alignment explanation
Indices: 72916429--72916485 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
72916419 CCACCCAACT
72916429 TTTTG-AAAATTACAATTTTGCCCCCAAAC
1 TTTTGCAAAATTACAATTTTGCCCCCAAAC
* * *
72916458 TTTTGCATAATTACACTTTTGTCCCCAA
1 TTTTGCAAAATTACAATTTTGCCCCCAA
72916486 GCTCGGAAAT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
29 5 0.21
30 19 0.79
ACGTcount: A:0.30, C:0.25, G:0.07, T:0.39
Consensus pattern (30 bp):
TTTTGCAAAATTACAATTTTGCCCCCAAAC
Found at i:72923545 original size:104 final size:104
Alignment explanation
Indices: 72923423--72923646 Score: 378
Period size: 104 Copynumber: 2.2 Consensus size: 104
72923413 AATGGATATC
72923423 GCACTTAGCAACCCCTCGGGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATATGGT
1 GCACTTAGCAACCCCTCGGGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATATGGT
* *
72923488 GGAT-ATCGCACTTAGCACCACCAATGAACCGGGGAATCA
66 GGATCA-CGCACATAGCACCACCAATAAACCGGGGAATCA
72923527 GCACTTAGCAACCCCTCGGGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATATGGT
1 GCACTTAGCAACCCCTCGGGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATATGGT
* *
72923592 GGATCACGCACATAGCACCACCCATAAATCGGGGAATCA
66 GGATCACGCACATAGCACCACCAATAAACCGGGGAATCA
**
72923631 GCACACAGCAACCCCT
1 GCACTTAGCAACCCCT
72923647 TTTATATACA
Statistics
Matches: 113, Mismatches: 6, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
104 112 0.99
105 1 0.01
ACGTcount: A:0.31, C:0.32, G:0.19, T:0.18
Consensus pattern (104 bp):
GCACTTAGCAACCCCTCGGGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATATGGT
GGATCACGCACATAGCACCACCAATAAACCGGGGAATCA
Found at i:72924008 original size:29 final size:29
Alignment explanation
Indices: 72923975--72924038 Score: 76
Period size: 30 Copynumber: 2.2 Consensus size: 29
72923965 TAATCCACCA
72923975 CCCAACTTTTTG-AAAATTACAATTTTGCC
1 CCCAAC-TTTTGCAAAATTACAATTTTGCC
* * *
72924004 CCCAAACTTTTGCATAATTACACTTTTGTC
1 CCC-AACTTTTGCAAAATTACAATTTTGCC
72924034 CCCAA
1 CCCAA
72924039 GCTCGGAAAT
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
29 10 0.33
30 20 0.67
ACGTcount: A:0.30, C:0.28, G:0.06, T:0.36
Consensus pattern (29 bp):
CCCAACTTTTGCAAAATTACAATTTTGCC
Found at i:72924012 original size:30 final size:30
Alignment explanation
Indices: 72923982--72924038 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
72923972 CCACCCAACT
72923982 TTTTG-AAAATTACAATTTTGCCCCCAAAC
1 TTTTGCAAAATTACAATTTTGCCCCCAAAC
* * *
72924011 TTTTGCATAATTACACTTTTGTCCCCAA
1 TTTTGCAAAATTACAATTTTGCCCCCAA
72924039 GCTCGGAAAT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
29 5 0.21
30 19 0.79
ACGTcount: A:0.30, C:0.25, G:0.07, T:0.39
Consensus pattern (30 bp):
TTTTGCAAAATTACAATTTTGCCCCCAAAC
Found at i:72934587 original size:21 final size:22
Alignment explanation
Indices: 72934561--72934602 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
72934551 TTTTTTAAAA
*
72934561 AATTTAA-ATATAATTATTTTT
1 AATTTAATATATAATGATTTTT
*
72934582 AATTTAATATTTAATGATTTT
1 AATTTAATATATAATGATTTT
72934603 ATAAAATTTT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 7 0.39
22 11 0.61
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.57
Consensus pattern (22 bp):
AATTTAATATATAATGATTTTT
Found at i:72938643 original size:8 final size:8
Alignment explanation
Indices: 72938626--72938654 Score: 51
Period size: 8 Copynumber: 3.8 Consensus size: 8
72938616 GCATCATAAC
72938626 AAAAAA-A
1 AAAAAAGA
72938633 AAAAAAGA
1 AAAAAAGA
72938641 AAAAAAGA
1 AAAAAAGA
72938649 AAAAAA
1 AAAAAA
72938655 AATGCAGTCG
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
7 6 0.29
8 15 0.71
ACGTcount: A:0.93, C:0.00, G:0.07, T:0.00
Consensus pattern (8 bp):
AAAAAAGA
Found at i:72946171 original size:180 final size:176
Alignment explanation
Indices: 72945830--72946188 Score: 504
Period size: 180 Copynumber: 2.0 Consensus size: 176
72945820 TAGCTGGAGC
* * * *
72945830 TACGGAACTCCAAATTAAGATCCGTTAATTTTCTCAGAAACTAGACTCACATATATTCTTACCAT
1 TACGGAACTCCAAATTAAGAACCGCTAATTTTCCCAGAAAATAGACTCACATATATTCTTACCAT
* ** * * **
72945895 AAAATTTTTAAATTTTTTTATTCAATTAGTACAGTTTATTCATTAAAGTTACCCCTATTTCACTG
66 AAAATTTTCAAATTTTTTTAGCCAATTAGTACAGTTTATTCATTAAAGATAACCCTATTTCACAA
72945960 TCTAACAGTTCCGTACTCTCTTCACTAAAAATTATTTATCTCATGG
131 TCTAACAGTTCCGTACTCTCTTCACTAAAAATTATTTATCTCATGG
* * *
72946006 TACGGGACTCTAAATTAAGAACCGCTAATTTTCCCAGAAAATAGACTCACATATATTCTTGCCAT
1 TACGGAACTCCAAATTAAGAACCGCTAATTTTCCCAGAAAATAGACTCACATATATTCTTACCAT
* *
72946071 AAAATTTTCAGAATTTTTGGTTAAGCCAATTAGTACATTTTATTCATTAAAGATAACCCTGTTTC
66 AAAATTTTCA-AATTTTT--TT-AGCCAATTAGTACAGTTTATTCATTAAAGATAACCCTATTTC
* *
72946136 ACAATCTGACAGTTCCG-ATCTTTCTTCACTAAAAATTATTTATCTCATGG
127 ACAATCTAACAGTTCCGTA-CTCTCTTCACTAAAAATTATTTATCTCATGG
72946186 TAC
1 TAC
72946189 AGATCTTGGA
Statistics
Matches: 160, Mismatches: 18, Indels: 6
0.87 0.10 0.03
Matches are distributed among these distances:
176 67 0.42
177 7 0.04
179 3 0.02
180 83 0.52
ACGTcount: A:0.33, C:0.20, G:0.09, T:0.38
Consensus pattern (176 bp):
TACGGAACTCCAAATTAAGAACCGCTAATTTTCCCAGAAAATAGACTCACATATATTCTTACCAT
AAAATTTTCAAATTTTTTTAGCCAATTAGTACAGTTTATTCATTAAAGATAACCCTATTTCACAA
TCTAACAGTTCCGTACTCTCTTCACTAAAAATTATTTATCTCATGG
Found at i:72946810 original size:50 final size:50
Alignment explanation
Indices: 72946745--72947188 Score: 414
Period size: 50 Copynumber: 8.8 Consensus size: 50
72946735 ACCGAAGCTC
** *
72946745 TCTGGTACGTATAGTAGCCTGCACTTAGTACTACACATGCGACCTATCAA
1 TCTGGTACACATAGTAGCCTGCACTTAGTACTACACATGTGACCTATCAA
** * * *
72946795 TCTGGTACATGTAGTAGCCTGCACTTAGTACTACACACGTGACTTATCCA
1 TCTGGTACACATAGTAGCCTGCACTTAGTACTACACATGTGACCTATCAA
* ** * ** *
72946845 TCTGATACATGTAGTAGCCTGCACTTAGTACTACACACGTGATCGAAGTTAA
1 TCTGGTACACATAGTAGCCTGCACTTAGTACTACACATGTGA-CCTA-TCAA
* * * *
72946897 T-GGGTACGCATAGTAGCCT-CTACTTAGTACTACACATGCGGCCTATCAA
1 TCTGGTACACATAGTAGCCTGC-ACTTAGTACTACACATGTGACCTATCAA
** * * *
72946946 TCCAGTACACATAGTAGCCTGCACTTAGTACTACACATGTGACTTAACCA
1 TCTGGTACACATAGTAGCCTGCACTTAGTACTACACATGTGACCTATCAA
* * * * *
72946996 TCTGATACACGTAGTAGCCTGCACTTAGTACTACACATGTG-CTCGAAACTA
1 TCTGGTACACATAGTAGCCTGCACTTAGTACTACACATGTGAC-C-TATCAA
* * * *
72947047 TCGGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCTAACAA
1 TCTGGTACACATAGTAGCCTGCACTTAGTACTACACATGTGACCTATCAA
* * *
72947097 TCTGGTACACGTAGTAGCCCGCACTTAGTACTACACACGTGACCTA--AA
1 TCTGGTACACATAGTAGCCTGCACTTAGTACTACACATGTGACCTATCAA
* * *
72947145 ACTGTCTTAAACACATAGTAGCCTGCACATAGTA-TACACATGTG
1 TCTG--GT--ACACATAGTAGCCTGCACTTAGTACTACACATGTG
72947189 TTCTCACAAT
Statistics
Matches: 326, Mismatches: 56, Indels: 23
0.80 0.14 0.06
Matches are distributed among these distances:
48 5 0.02
49 5 0.02
50 208 0.64
51 83 0.25
52 25 0.08
ACGTcount: A:0.30, C:0.26, G:0.18, T:0.27
Consensus pattern (50 bp):
TCTGGTACACATAGTAGCCTGCACTTAGTACTACACATGTGACCTATCAA
Found at i:72946935 original size:151 final size:151
Alignment explanation
Indices: 72946748--72947184 Score: 619
Period size: 151 Copynumber: 2.9 Consensus size: 151
72946738 GAAGCTCTCT
* *
72946748 GGTACGTATAGTAGCCTGCACTTAGTACTACACATGCGACCTATCAATCTGGTACATGTAGTAGC
1 GGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCTATCAATCTGGTACACGTAGTAGC
* *
72946813 CTGCACTTAGTACTACACACGTGACTTATCCATCTGATACATGTAGTAGCCTGCACTTAGTACTA
66 CTGCACTTAGTACTACACACGTGACTTAACCATCTGATACACGTAGTAGCCTGCACTTAGTACTA
**
72946878 CACACGTGATCGAAGTTAAT-G
131 CACACGTGATCGAAACT-ATCG
* ** *
72946899 GGTACGCATAGTAGCCT-CTACTTAGTACTACACATGCGGCCTATCAATCCAGTACACATAGTAG
1 GGTACGCATAGTAGCCTGC-ACTTAGTACTACACATGCGACCTATCAATCTGGTACACGTAGTAG
*
72946963 CCTGCACTTAGTACTACACATGTGACTTAACCATCTGATACACGTAGTAGCCTGCACTTAGTACT
65 CCTGCACTTAGTACTACACACGTGACTTAACCATCTGATACACGTAGTAGCCTGCACTTAGTACT
* *
72947028 ACACATGTGCTCGAAACTATCG
130 ACACACGTGATCGAAACTATCG
*
72947050 GGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCTAACAATCTGGTACACGTAGTAGC
1 GGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCTATCAATCTGGTACACGTAGTAGC
* * ** * * * *
72947115 CCGCACTTAGTACTACACACGTGACCTAAAACTGTCTTAAACACATAGTAGCCTGCACATAGTA-
66 CTGCACTTAGTACTACACACGTGA-CT-TAACCATCTGATACACGTAGTAGCCTGCACTTAGTAC
72947179 TACACA
129 TACACA
72947185 TGTGTTCTCA
Statistics
Matches: 254, Mismatches: 27, Indels: 9
0.88 0.09 0.03
Matches are distributed among these distances:
150 3 0.01
151 213 0.84
152 9 0.04
153 29 0.11
ACGTcount: A:0.30, C:0.26, G:0.18, T:0.26
Consensus pattern (151 bp):
GGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCTATCAATCTGGTACACGTAGTAGC
CTGCACTTAGTACTACACACGTGACTTAACCATCTGATACACGTAGTAGCCTGCACTTAGTACTA
CACACGTGATCGAAACTATCG
Found at i:72947060 original size:101 final size:100
Alignment explanation
Indices: 72946755--72947133 Score: 424
Period size: 101 Copynumber: 3.8 Consensus size: 100
72946745 TCTGGTACGT
* *
72946755 ATAGTAGCCTGCACTTAGTACTACACATGCGACCTATCAATCTGGTACATGTAGTAGCCTGCACT
1 ATAGTAGCCTGCACTTAGTACTACACATGCGACCTAACAATCTGGTACACGTAGTAGCCTGCACT
* * * * *
72946820 TAGTACTACACACGTGACT-TATCCATCTGATACAT
66 TAGTACTACACATGTG-CTCTATCAATCCGGTACAC
* * * * * * * * *
72946855 GTAGTAGCCTGCACTTAGTACTACACACGTGATCGAAGTTAAT-GGGTACGCATAGTAGCCT-CT
1 ATAGTAGCCTGCACTTAGTACTACACATGCGACCTAA--CAATCTGGTACACGTAGTAGCCTGC-
* *
72946918 ACTTAGTACTACACATGCGGC-CTATCAATCCAGTACAC
63 ACTTAGTACTACACATG-TGCTCTATCAATCCGGTACAC
* * * *
72946956 ATAGTAGCCTGCACTTAGTACTACACATGTGACTTAACCATCTGATACACGTAGTAGCCTGCACT
1 ATAGTAGCCTGCACTTAGTACTACACATGCGACCTAACAATCTGGTACACGTAGTAGCCTGCACT
* * * * *
72947021 TAGTACTACACATGTGCTCGAAACTATCGGGTACGC
66 TAGTACTACACATGTGCTC-TATCAATCCGGTACAC
*
72947057 ATAGTAGCCTGCACTTAGTACTACACATGCGACCTAACAATCTGGTACACGTAGTAGCCCGCACT
1 ATAGTAGCCTGCACTTAGTACTACACATGCGACCTAACAATCTGGTACACGTAGTAGCCTGCACT
72947122 TAGTACTACACA
66 TAGTACTACACA
72947134 CGTGACCTAA
Statistics
Matches: 229, Mismatches: 41, Indels: 17
0.80 0.14 0.06
Matches are distributed among these distances:
99 4 0.02
100 64 0.28
101 157 0.69
102 4 0.02
ACGTcount: A:0.29, C:0.26, G:0.18, T:0.26
Consensus pattern (100 bp):
ATAGTAGCCTGCACTTAGTACTACACATGCGACCTAACAATCTGGTACACGTAGTAGCCTGCACT
TAGTACTACACATGTGCTCTATCAATCCGGTACAC
Found at i:72947183 original size:101 final size:101
Alignment explanation
Indices: 72946755--72947186 Score: 414
Period size: 101 Copynumber: 4.3 Consensus size: 101
72946745 TCTGGTACGT
* * *
72946755 ATAGTAGCCTGCACTTAGTACTACACATGCGACCTATCAATCTGGTACATGTAGTAGCCTGCACT
1 ATAGTAGCCTGCACTTAGTACTACACATGCGACCTAACAATCTGGTACACGTAGTAGCCCGCACT
* * * *
72946820 TAGTACTACACACGTGACT-TATCCATCTGATACAT
66 TAGTACTACACACGTGACTAAAACTATCTGATACAC
* * * * * * * * * *
72946855 GTAGTAGCCTGCACTTAGTACTACACACGTGATCGAAGTTAAT-GGGTACGCATAGTAGCCTC-T
1 ATAGTAGCCTGCACTTAGTACTACACATGCGACCTAA--CAATCTGGTACACGTAGTAGCC-CGC
* * * *
72946918 ACTTAGTACTACACATGCG-GCCT--ATCAATC-CAGTACAC
63 ACTTAGTACTACACA--CGTGACTAAAACTATCTGA-TACAC
* * * * *
72946956 ATAGTAGCCTGCACTTAGTACTACACATGTGACTTAACCATCTGATACACGTAGTAGCCTGCACT
1 ATAGTAGCCTGCACTTAGTACTACACATGCGACCTAACAATCTGGTACACGTAGTAGCCCGCACT
* * * * *
72947021 TAGTACTACACATGTG-CTCGAAACTATCGGGTACGC
66 TAGTACTACACACGTGACT-AAAACTATCTGATACAC
72947057 ATAGTAGCCTGCACTTAGTACTACACATGCGACCTAACAATCTGGTACACGTAGTAGCCCGCACT
1 ATAGTAGCCTGCACTTAGTACTACACATGCGACCTAACAATCTGGTACACGTAGTAGCCCGCACT
* * *
72947122 TAGTACTACACACGTGACCTAAAACTGTCTTAAACAC
66 TAGTACTACACACGTGA-CTAAAACTATCTGATACAC
*
72947159 ATAGTAGCCTGCACATAGTA-TACACATG
1 ATAGTAGCCTGCACTTAGTACTACACATG
72947187 TGTTCTCACA
Statistics
Matches: 267, Mismatches: 50, Indels: 29
0.77 0.14 0.08
Matches are distributed among these distances:
98 3 0.01
99 3 0.01
100 60 0.22
101 162 0.61
102 35 0.13
103 4 0.01
ACGTcount: A:0.30, C:0.26, G:0.18, T:0.26
Consensus pattern (101 bp):
ATAGTAGCCTGCACTTAGTACTACACATGCGACCTAACAATCTGGTACACGTAGTAGCCCGCACT
TAGTACTACACACGTGACTAAAACTATCTGATACAC
Found at i:72951377 original size:39 final size:39
Alignment explanation
Indices: 72951323--72951502 Score: 283
Period size: 39 Copynumber: 4.6 Consensus size: 39
72951313 AACACAAATG
*
72951323 CCTTTGGGACTTAGCCCGGATATAACACCAGCACGAATA
1 CCTTCGGGACTTAGCCCGGATATAACACCAGCACGAATA
* *
72951362 CCTTTGGGACTTAGCCCGGATATAACACCAGCACGAGGTA
1 CCTTCGGGACTTAGCCCGGATATAACACCAGCACGA-ATA
*
72951402 --TTCGGGACTTAGCCCGGATATAACACCAGCACGAATG
1 CCTTCGGGACTTAGCCCGGATATAACACCAGCACGAATA
* *
72951439 CCTTCGGGACTTAGCCCGGACATAACACCAGCACGAATG
1 CCTTCGGGACTTAGCCCGGATATAACACCAGCACGAATA
72951478 CCTTCGGGACTTAGCCCGGATATAA
1 CCTTCGGGACTTAGCCCGGATATAA
72951503 ATCTCACACA
Statistics
Matches: 132, Mismatches: 6, Indels: 6
0.92 0.04 0.04
Matches are distributed among these distances:
37 1 0.01
38 33 0.25
39 96 0.73
40 2 0.02
ACGTcount: A:0.28, C:0.29, G:0.23, T:0.19
Consensus pattern (39 bp):
CCTTCGGGACTTAGCCCGGATATAACACCAGCACGAATA
Found at i:72951529 original size:116 final size:116
Alignment explanation
Indices: 72951319--72951541 Score: 317
Period size: 116 Copynumber: 1.9 Consensus size: 116
72951309 TTCCAACACA
* * *
72951319 AATGCCTTTGGGACTTAGCCCGGATATAACACCAGCACGAATACCTTTGGGACTTAGCCCGGATA
1 AATGCCTTCGGGACTTAGCCCGGACATAACACCAGCACGAATACCTTCGGGACTTAGCCCGGATA
* * *
72951384 TAACACCAGCACGAGGTATTCGGGACTTAGCCCGGA-TATAACACCAGCACG
66 TAACACCAGCACAAGGCATGCGGGACTTAGCCC-GATTATAACACCAGCACG
*
72951435 AATGCCTTCGGGACTTAGCCCGGACATAACACCAGCACGAATGCCTTCGGGACTTAGCCCGGATA
1 AATGCCTTCGGGACTTAGCCCGGACATAACACCAGCACGAATACCTTCGGGACTTAGCCCGGATA
* *
72951500 TAA-ATCTCA-CACAAGGCCTGCGGGTCTTAGCCCGATTATAAC
66 TAACA-C-CAGCACAAGGCATGCGGGACTTAGCCCGATTATAAC
72951542 CCTCAATTAT
Statistics
Matches: 95, Mismatches: 9, Indels: 6
0.86 0.08 0.05
Matches are distributed among these distances:
115 3 0.03
116 90 0.95
117 2 0.02
ACGTcount: A:0.28, C:0.29, G:0.23, T:0.20
Consensus pattern (116 bp):
AATGCCTTCGGGACTTAGCCCGGACATAACACCAGCACGAATACCTTCGGGACTTAGCCCGGATA
TAACACCAGCACAAGGCATGCGGGACTTAGCCCGATTATAACACCAGCACG
Found at i:72951541 original size:77 final size:78
Alignment explanation
Indices: 72951319--72951502 Score: 298
Period size: 77 Copynumber: 2.4 Consensus size: 78
72951309 TTCCAACACA
* * *
72951319 AATGCCTTTGGGACTTAGCCCGGATATAACACCAGCACGAATACCTTTGGGACTTAGCCCGGATA
1 AATGCCTTCGGGACTTAGCCCGGATATAACACCAGCACGAATGCCTTCGGGACTTAGCCCGGATA
72951384 TAACACCAGCACG
66 TAACACCAGCACG
* ** *
72951397 -AGGTATTCGGGACTTAGCCCGGATATAACACCAGCACGAATGCCTTCGGGACTTAGCCCGGACA
1 AATGCCTTCGGGACTTAGCCCGGATATAACACCAGCACGAATGCCTTCGGGACTTAGCCCGGATA
72951461 TAACACCAGCACG
66 TAACACCAGCACG
72951474 AATGCCTTCGGGACTTAGCCCGGATATAA
1 AATGCCTTCGGGACTTAGCCCGGATATAA
72951503 ATCTCACACA
Statistics
Matches: 95, Mismatches: 10, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
77 70 0.74
78 25 0.26
ACGTcount: A:0.29, C:0.28, G:0.23, T:0.20
Consensus pattern (78 bp):
AATGCCTTCGGGACTTAGCCCGGATATAACACCAGCACGAATGCCTTCGGGACTTAGCCCGGATA
TAACACCAGCACG
Found at i:72957313 original size:179 final size:180
Alignment explanation
Indices: 72956982--72957336 Score: 527
Period size: 179 Copynumber: 2.0 Consensus size: 180
72956972 GAGCTACGGA
* *
72956982 ACTCCAAATTAAGATCCCTTAATTTTCTCAGAAACTAGACTCACATATATTCTTACCATAAACTT
1 ACTCCAAATTAAGAACCCTTAATTTTCCCAGAAACTAGACTCACATATATTCTTACCATAAACTT
* * *
72957047 TTAAGAATTTTTGGTTTATCCAATTAGTACAGTTTATTCATTAAAGTTACTCCTATTTCACTGTC
66 TTAAGAATTTTTGGTTTAGCCAATTAGTACAGTTTATTCATTAAAGATACTCCTATTTCACTATC
* * *
72957112 CAATAGTTCCTACCTCTCTTCACTAAAAATTATTTATCTCATGGTATGGT
131 CAACAGTTCCGACCTCTCTTCACTAAAAATTACTTATCTCATGGTATGGT
*
72957162 ACTCCAAATTAAGAACCGC-TAATTTTCCCAGAAACTAGACTCATATATATTCTTACCATAAA-T
1 ACTCCAAATTAAGAACC-CTTAATTTTCCCAGAAACTAGACTCACATATATTCTTACCATAAACT
* * *
72957225 TTTTAGAATTTTTGGTTTAGCCAATTAGTACATTTTATTCATTAAAGATAC-CCTTGTTTCACTA
65 TTTAAGAATTTTTGGTTTAGCCAATTAGTACAGTTTATTCATTAAAGATACTCC-TATTTCACTA
** * *
72957289 TCTGACAGTTCCGATCTTTCTTCACTAAAAATTACTTATCTCATGGTA
129 TCCAACAGTTCCGACCTCTCTTCACTAAAAATTACTTATCTCATGGTA
72957337 CAGATCTTGG
Statistics
Matches: 157, Mismatches: 16, Indels: 5
0.88 0.09 0.03
Matches are distributed among these distances:
178 2 0.01
179 97 0.62
180 57 0.36
181 1 0.01
ACGTcount: A:0.32, C:0.20, G:0.09, T:0.39
Consensus pattern (180 bp):
ACTCCAAATTAAGAACCCTTAATTTTCCCAGAAACTAGACTCACATATATTCTTACCATAAACTT
TTAAGAATTTTTGGTTTAGCCAATTAGTACAGTTTATTCATTAAAGATACTCCTATTTCACTATC
CAACAGTTCCGACCTCTCTTCACTAAAAATTACTTATCTCATGGTATGGT
Found at i:72957972 original size:50 final size:50
Alignment explanation
Indices: 72957895--72958291 Score: 336
Period size: 50 Copynumber: 7.9 Consensus size: 50
72957885 ACCGAAGCTC
* * *
72957895 TCTGGTACGCATAGTAGCCTGCA-TTAGTACTACACATGCGACCTATCAA
1 TCTGGTACACGTAGTAGCCTGCACTTAGTACTACACATGTGACCTATCAA
* * * ** * *
72957944 TCTAGTACATGTAGTAACCTGCACTTAGTACTACACACATGACTTATCCA
1 TCTGGTACACGTAGTAGCCTGCACTTAGTACTACACATGTGACCTATCAA
* * * ** *
72957994 TCTGATACACGTAGTAGCCTGCACTTTGTACTGCACATGTGATCGAAGTTAA
1 TCTGGTACACGTAGTAGCCTGCACTTAGTACTACACATGTGA-CCTA-TCAA
* * * * ** *
72958046 -CGGGTACGCATAGTAGTCTGCACTTAGTACTACACATACGGCCTATCAA
1 TCTGGTACACGTAGTAGCCTGCACTTAGTACTACACATGTGACCTATCAA
* * ** * *
72958095 TCCGGTACACGTAGTAGCCTGCACTTAGTACTACATACATGACCTAACCA
1 TCTGGTACACGTAGTAGCCTGCACTTAGTACTACACATGTGACCTATCAA
** * ** ** * *
72958145 TCTATTACACGTAGTAGCTTGCACTTAGTACTACACACATGATCGAAACTA
1 TCTGGTACACGTAGTAGCCTGCACTTAGTACTACACATGTGA-CCTATCAA
* *
72958196 T-TGGGTACGA-TTAGTAGCCTGCACTTAGTACTACACATGCGACCTAAT-AA
1 TCT-GGTAC-ACGTAGTAGCCTGCACTTAGTACTACACATGTGACCT-ATCAA
*
72958246 TCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCTA
1 TCTGGTACACGTAGTAGCCTGCACTTAGTACTACACATGTGACCTA
72958292 AAACTATTTT
Statistics
Matches: 271, Mismatches: 67, Indels: 20
0.76 0.19 0.06
Matches are distributed among these distances:
49 23 0.08
50 174 0.64
51 71 0.26
52 3 0.01
ACGTcount: A:0.29, C:0.25, G:0.18, T:0.27
Consensus pattern (50 bp):
TCTGGTACACGTAGTAGCCTGCACTTAGTACTACACATGTGACCTATCAA
Found at i:72958096 original size:151 final size:151
Alignment explanation
Indices: 72957898--72958292 Score: 555
Period size: 151 Copynumber: 2.6 Consensus size: 151
72957888 GAAGCTCTCT
* * *
72957898 GGTACGCATAGTAGCCTGCA-TTAGTACTACACATGCGACCTATCAATCTAGTACATGTAGTAAC
1 GGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCTATCAATCTGGTACACGTAGTAGC
* * *
72957962 CTGCACTTAGTACTACACACATGACTTATCCATCTGA-TACACGTAGTAGCCTGCACTTTGTACT
66 CTGCACTTAGTACTACACACATGACCTAACCATCT-ATTACACGTAGTAGCCTGCACTTAGTACT
* ** **
72958026 GCACATGTGATCGAAGTTAACG
130 ACACACATGATCGAAACTAACG
* * * *
72958048 GGTACGCATAGTAGTCTGCACTTAGTACTACACATACGGCCTATCAATCCGGTACACGTAGTAGC
1 GGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCTATCAATCTGGTACACGTAGTAGC
* *
72958113 CTGCACTTAGTACTACATACATGACCTAACCATCTATTACACGTAGTAGCTTGCACTTAGTACTA
66 CTGCACTTAGTACTACACACATGACCTAACCATCTATTACACGTAGTAGCCTGCACTTAGTACTA
**
72958178 CACACATGATCGAAACTATTG
131 CACACATGATCGAAACTAACG
72958199 GGTACG-ATTAGTAGCCTGCACTTAGTACTACACATGCGACCTAAT-AATCTGGTACACGTAGTA
1 GGTACGCA-TAGTAGCCTGCACTTAGTACTACACATGCGACCT-ATCAATCTGGTACACGTAGTA
*
72958262 GCCTGCACTTAGTACTACACACGTGACCTAA
64 GCCTGCACTTAGTACTACACACATGACCTAA
72958293 AACTATTTTA
Statistics
Matches: 216, Mismatches: 25, Indels: 7
0.87 0.10 0.03
Matches are distributed among these distances:
150 21 0.10
151 193 0.89
152 2 0.01
ACGTcount: A:0.30, C:0.25, G:0.18, T:0.27
Consensus pattern (151 bp):
GGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCTATCAATCTGGTACACGTAGTAGC
CTGCACTTAGTACTACACACATGACCTAACCATCTATTACACGTAGTAGCCTGCACTTAGTACTA
CACACATGATCGAAACTAACG
Found at i:72958332 original size:101 final size:102
Alignment explanation
Indices: 72957904--72958335 Score: 361
Period size: 101 Copynumber: 4.3 Consensus size: 102
72957894 CTCTGGTACG
* *
72957904 CATAGTAGCCTGCA-TTAGTACTACACATGCGACCT-ATCAATCTAGTACATGTAGTAACCTGCA
1 CATAGTAGCCTGCACTTAGTACTACACATGCGACCTAAT-AATCTAGTACACGTAGTAGCCTGCA
* * *
72957967 CTTAGTACTACACACATGA-CT-TATCCATCT-GATACA
65 CTTAGTACTACACACATGACCTAAAACTAT-TGGATACA
* * * * * * ** * * *
72958003 CGTAGTAGCCTGCACTTTGTACTGCACATGTGATCGAAGTTAA-CGGGTACGCATAGTAGTCTGC
1 CATAGTAGCCTGCACTTAGTACTACACATGCGACCTAA--TAATCTAGTACACGTAGTAGCCTGC
* * * * **
72958067 ACTTAGTACTACACATACGGCCTATCAA-T-CCGG-TACA
64 ACTTAGTACTACACACATGACCTA-AAACTATTGGATACA
* ** * *
72958104 CGTAGTAGCCTGCACTTAGTACTACATACAT--GACCTAACCATCTATTACACGTAGTAGCTTGC
1 CATAGTAGCCTGCACTTAGTACTAC--ACATGCGACCTAATAATCTAGTACACGTAGTAGCCTGC
* * *
72958167 ACTTAGTACTACACACATGATC-GAAACTATTGGGTACGA
64 ACTTAGTACTACACACATGACCTAAAACTATTGGATAC-A
* *
72958206 -TTAGTAGCCTGCACTTAGTACTACACATGCGACCTAATAATCTGGTACACGTAGTAGCCTGCAC
1 CATAGTAGCCTGCACTTAGTACTACACATGCGACCTAATAATCTAGTACACGTAGTAGCCTGCAC
* ** *
72958270 TTAGTACTACACACGTGACCTAAAACTATTTTAAACA
66 TTAGTACTACACACATGACCTAAAACTATTGGATACA
*
72958307 CATAGTAGCCTGCACATAGTA-TACACATG
1 CATAGTAGCCTGCACTTAGTACTACACATG
72958336 TGTTCTCACA
Statistics
Matches: 257, Mismatches: 57, Indels: 36
0.73 0.16 0.10
Matches are distributed among these distances:
98 2 0.01
99 19 0.07
100 50 0.19
101 146 0.57
102 34 0.13
103 5 0.02
104 1 0.00
ACGTcount: A:0.31, C:0.25, G:0.17, T:0.27
Consensus pattern (102 bp):
CATAGTAGCCTGCACTTAGTACTACACATGCGACCTAATAATCTAGTACACGTAGTAGCCTGCAC
TTAGTACTACACACATGACCTAAAACTATTGGATACA
Found at i:72961638 original size:48 final size:48
Alignment explanation
Indices: 72961565--72961839 Score: 308
Period size: 48 Copynumber: 5.8 Consensus size: 48
72961555 TGATATGTGT
* *
72961565 GCTAGTGTAAGACCTTGTCTAGGACATGGCATCGGCCACATTATGAGA
1 GCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCACATTATGAGA
* *** * *
72961613 GCTAGTGTAAGACCATGTCTGGGACATGGCATCAGCGTTGA-TATGTGT
1 GCTAGTGTAAGACCATGTCTGGGACATGGCATCGGC-CACATTATGAGA
* *
72961661 GCTAGTGTAAGACCATGTCTGGGACATGTCATCGGTCACATTATGAGA
1 GCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCACATTATGAGA
* * * **
72961709 GCTAGTGTAAGACCATGTTTGGAACATGGCATC-GACATTGTTATGAGA
1 GCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCA-CATTATGAGA
* * * *
72961757 GCTAGTGTAAGACCATGCCTGGGACAT-GCATCGGCCTCGA-AATGTGA
1 GCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCAC-ATTATGAGA
72961804 G-TCAGTGTAAGACCATGTCTGGGACATGGCATCGGC
1 GCT-AGTGTAAGACCATGTCTGGGACATGGCATCGGC
72961840 AACTTAACCT
Statistics
Matches: 188, Mismatches: 32, Indels: 14
0.80 0.14 0.06
Matches are distributed among these distances:
46 1 0.01
47 38 0.20
48 148 0.79
49 1 0.01
ACGTcount: A:0.26, C:0.19, G:0.29, T:0.26
Consensus pattern (48 bp):
GCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCACATTATGAGA
Found at i:72961717 original size:96 final size:95
Alignment explanation
Indices: 72961553--72961837 Score: 387
Period size: 96 Copynumber: 3.0 Consensus size: 95
72961543 ATGACATTTG
* *
72961553 GTTGATATGTGTGCTAGTGTAAGACCTTGTCTAGGACATGGCATCGGCCACATTATGAGAGCTAG
1 GTTGATATGTGTGCTAGTGTAAGACCATGTCTGGGACAT-GCATCGGCCACATTATGAGAGCTAG
72961618 TGTAAGACCATGTCTGGGACATGGCATC-AGC
65 TGTAAGACCATGTCTGGGACATGGCATCGA-C
*
72961649 GTTGATATGTGTGCTAGTGTAAGACCATGTCTGGGACATGTCATCGGTCACATTATGAGAGCTAG
1 GTTGATATGTGTGCTAGTGTAAGACCATGTCTGGGACATG-CATCGGCCACATTATGAGAGCTAG
* *
72961714 TGTAAGACCATGTTTGGAACATGGCATCGAC
65 TGTAAGACCATGTCTGGGACATGGCATCGAC
* * * * * * * *
72961745 ATTGTTATGAGAGCTAGTGTAAGACCATGCCTGGGACATGCATCGGCCTCGA-AATGTGAG-TCA
1 GTTGATATGTGTGCTAGTGTAAGACCATGTCTGGGACATGCATCGGCCAC-ATTATGAGAGCT-A
72961808 GTGTAAGACCATGTCTGGGACATGGCATCG
64 GTGTAAGACCATGTCTGGGACATGGCATCG
72961838 GCAACTTAAC
Statistics
Matches: 169, Mismatches: 16, Indels: 9
0.87 0.08 0.05
Matches are distributed among these distances:
94 1 0.01
95 44 0.26
96 123 0.73
97 1 0.01
ACGTcount: A:0.26, C:0.18, G:0.29, T:0.27
Consensus pattern (95 bp):
GTTGATATGTGTGCTAGTGTAAGACCATGTCTGGGACATGCATCGGCCACATTATGAGAGCTAGT
GTAAGACCATGTCTGGGACATGGCATCGAC
Found at i:72967487 original size:11 final size:11
Alignment explanation
Indices: 72967414--72967489 Score: 54
Period size: 11 Copynumber: 6.8 Consensus size: 11
72967404 ATTTCAAAAA
*
72967414 TAATATTATTT
1 TAATATTAATT
72967425 TAATAGGTTAATAT
1 TAATA--TTAAT-T
72967439 TAA-ATTAAATT
1 TAATATT-AATT
72967450 TAATACTT-ATCT
1 TAATA-TTAAT-T
72967462 TAATATT-ATT
1 TAATATTAATT
72967472 T--TATTAATT
1 TAATATTAATT
72967481 TAATATTAA
1 TAATATTAA
72967490 AGTGATTATC
Statistics
Matches: 54, Mismatches: 1, Indels: 20
0.72 0.01 0.27
Matches are distributed among these distances:
8 4 0.07
9 4 0.07
10 2 0.04
11 23 0.43
12 10 0.19
13 7 0.13
14 4 0.07
ACGTcount: A:0.42, C:0.03, G:0.03, T:0.53
Consensus pattern (11 bp):
TAATATTAATT
Found at i:72967508 original size:31 final size:29
Alignment explanation
Indices: 72967473--72967530 Score: 71
Period size: 31 Copynumber: 1.9 Consensus size: 29
72967463 AATATTATTT
*
72967473 TATTAATTTAATATTAAAGTGATTATCTTAA
1 TATTAAATTAA-ATTAAA-TGATTATCTTAA
* *
72967504 TATTAAATTAAATTTAATGTTTATCTT
1 TATTAAATTAAATTAAATGATTATCTT
72967531 GTAGATAAAA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
29 9 0.38
30 5 0.21
31 10 0.42
ACGTcount: A:0.40, C:0.03, G:0.05, T:0.52
Consensus pattern (29 bp):
TATTAAATTAAATTAAATGATTATCTTAA
Done.