Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr11
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: 102024878
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 3234766 characters in sequence are not A, C, G, or T
File 286 of 310
Found at i:94160237 original size:43 final size:43
Alignment explanation
Indices: 94160176--94160261 Score: 172
Period size: 43 Copynumber: 2.0 Consensus size: 43
94160166 TTCAAACATT
94160176 TCGGTGACTCAGTTTAGCGGTCCCGAAACCACTTCCCGACTAG
1 TCGGTGACTCAGTTTAGCGGTCCCGAAACCACTTCCCGACTAG
94160219 TCGGTGACTCAGTTTAGCGGTCCCGAAACCACTTCCCGACTAG
1 TCGGTGACTCAGTTTAGCGGTCCCGAAACCACTTCCCGACTAG
94160262 GGTCAATTTT
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
43 43 1.00
ACGTcount: A:0.21, C:0.33, G:0.23, T:0.23
Consensus pattern (43 bp):
TCGGTGACTCAGTTTAGCGGTCCCGAAACCACTTCCCGACTAG
Found at i:94169143 original size:40 final size:40
Alignment explanation
Indices: 94169088--94169281 Score: 307
Period size: 40 Copynumber: 4.8 Consensus size: 40
94169078 GAGCATTTGA
94169088 ATATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG
94169128 ATATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG
94169168 ATATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG
* * * *
94169208 ATATATTCGGGCTAAGGCCAGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG
* ** * *
94169248 CTATGCCCGGGTTAAGACCCGAAGGCAATTGTGC
1 ATATATCCGGGCTAAGACCCGAAGGCATTTGTGC
94169282 TTGTGGTAAT
Statistics
Matches: 141, Mismatches: 13, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
40 141 1.00
ACGTcount: A:0.25, C:0.21, G:0.30, T:0.24
Consensus pattern (40 bp):
ATATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG
Found at i:94170945 original size:15 final size:15
Alignment explanation
Indices: 94170927--94170960 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
94170917 TATTACTTTC
94170927 ATGTTAATTATTAAT
1 ATGTTAATTATTAAT
* *
94170942 ATGTTAATTTTTATT
1 ATGTTAATTATTAAT
94170957 ATGT
1 ATGT
94170961 AGTGGGCCCA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.32, C:0.00, G:0.09, T:0.59
Consensus pattern (15 bp):
ATGTTAATTATTAAT
Found at i:94176660 original size:11 final size:11
Alignment explanation
Indices: 94176645--94176674 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
94176635 GAGTGAACTA
94176645 AGAGAATTAAG
1 AGAGAATTAAG
*
94176656 TGAGAATTAAG
1 AGAGAATTAAG
94176667 AGAGAATT
1 AGAGAATT
94176675 GAGAATAAAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.50, C:0.00, G:0.27, T:0.23
Consensus pattern (11 bp):
AGAGAATTAAG
Found at i:94181029 original size:28 final size:29
Alignment explanation
Indices: 94180990--94181112 Score: 99
Period size: 29 Copynumber: 4.2 Consensus size: 29
94180980 AGTTATTTTG
*
94180990 CTATTTTGTTATTAAAATTAATTAATT-TTA
1 CTATTTTATTATTAAAATTAA-T-ATTATTA
*
94181020 -T-TTTTATTATTAATATTAATATTATTA
1 CTATTTTATTATTAAAATTAATATTATTA
** *
94181047 CTATTTTATTATTATTATTACTATTATTA
1 CTATTTTATTATTAAAATTAATATTATTA
* * ** *
94181076 TTATTATTATTGTTATTATTATTATTATTA
1 CTATT-TTATTATTAAAATTAATATTATTA
*
94181106 TTATTTT
1 CTATTTT
94181113 TGTTATTATT
Statistics
Matches: 82, Mismatches: 7, Indels: 9
0.84 0.07 0.09
Matches are distributed among these distances:
26 3 0.04
27 4 0.05
28 17 0.21
29 31 0.38
30 27 0.33
ACGTcount: A:0.33, C:0.02, G:0.02, T:0.63
Consensus pattern (29 bp):
CTATTTTATTATTAAAATTAATATTATTA
Found at i:94181031 original size:3 final size:3
Alignment explanation
Indices: 94181017--94181162 Score: 170
Period size: 3 Copynumber: 49.3 Consensus size: 3
94181007 TTAATTAATT
* * * *
94181017 TTA TTT TTA TTA TTA ATA TTA ATA TTA TTA CTA TT- TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* * *
94181064 TTA CTA TTA TTA TTA TTA TTA TTG TTA TTA TTA TTA TTA TTA TTA TTT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* * * * *
94181112 TTG TTA TTA TTA TTA TTA CTA TT- GTA TTA CTA TTA TTA TTA TCA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
94181159 TTA T
1 TTA T
94181163 ATTTTCTTTT
Statistics
Matches: 118, Mismatches: 23, Indels: 4
0.81 0.16 0.03
Matches are distributed among these distances:
2 3 0.03
3 115 0.97
ACGTcount: A:0.31, C:0.03, G:0.02, T:0.64
Consensus pattern (3 bp):
TTA
Found at i:94182580 original size:23 final size:23
Alignment explanation
Indices: 94182550--94182600 Score: 102
Period size: 23 Copynumber: 2.2 Consensus size: 23
94182540 GAACAAGTAG
94182550 AGTTAGAATTAATTTGATTTTAA
1 AGTTAGAATTAATTTGATTTTAA
94182573 AGTTAGAATTAATTTGATTTTAA
1 AGTTAGAATTAATTTGATTTTAA
94182596 AGTTA
1 AGTTA
94182601 ATCATTTAGA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 28 1.00
ACGTcount: A:0.39, C:0.00, G:0.14, T:0.47
Consensus pattern (23 bp):
AGTTAGAATTAATTTGATTTTAA
Found at i:94183879 original size:21 final size:21
Alignment explanation
Indices: 94183854--94183898 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
94183844 TTCTGTTCTG
*
94183854 CTCTG-CTGCCATCGCTGTTGC
1 CTCTGCCT-CCATCGCTGCTGC
*
94183875 CTCTGCCTCCCTCGCTGCTGC
1 CTCTGCCTCCATCGCTGCTGC
94183896 CTC
1 CTC
94183899 CGCTCTAAGT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
21 19 0.90
22 2 0.10
ACGTcount: A:0.02, C:0.47, G:0.20, T:0.31
Consensus pattern (21 bp):
CTCTGCCTCCATCGCTGCTGC
Found at i:94184334 original size:13 final size:14
Alignment explanation
Indices: 94184308--94184336 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
94184298 ACTAACGACG
94184308 AATTAAACCATTAT
1 AATTAAACCATTAT
94184322 AATTAAA-CATTAT
1 AATTAAACCATTAT
94184335 AA
1 AA
94184337 ATATTTGTAG
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 8 0.53
14 7 0.47
ACGTcount: A:0.55, C:0.10, G:0.00, T:0.34
Consensus pattern (14 bp):
AATTAAACCATTAT
Found at i:94189791 original size:40 final size:39
Alignment explanation
Indices: 94189693--94189955 Score: 278
Period size: 40 Copynumber: 6.6 Consensus size: 39
94189683 TCCTCGTTCA
* * * *
94189693 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC
1 AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
* *
94189732 AATGCCTTCGGGACATAACCCGGATTTAATAACTCGCAC
1 AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
*
94189771 GAATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCAC
1 -AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
*
94189811 GAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCAC
1 -AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
* * *
94189851 AAAGGCCTTCGGGGCTTAACCCGGAATTT-GTATCTCGCAC
1 -AATGCCTTCGGGACTTAACCCGG-ATTTAGTAACTCGCAC
** * * * *
94189891 AAATGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCAC
1 -AATGCCTTCGGGA-CTTAACCCGGATTTAGTAAC-TCGCAC
* *
94189932 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
94189956 CAGCATTCAA
Statistics
Matches: 197, Mismatches: 21, Indels: 11
0.86 0.09 0.05
Matches are distributed among these distances:
39 40 0.20
40 145 0.74
41 12 0.06
ACGTcount: A:0.26, C:0.27, G:0.21, T:0.25
Consensus pattern (39 bp):
AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
Found at i:94189915 original size:120 final size:119
Alignment explanation
Indices: 94189693--94189955 Score: 307
Period size: 120 Copynumber: 2.2 Consensus size: 119
94189683 TCCTCGTTCA
* * *
94189693 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACACAATGCCTTCGGGACATAACCCGGATT
1 AATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCACACAAGGCCTTCGGGACATAACCCGGATT
* * *
94189758 TAATAACTCGCACGAATGCCTTCGGGACTTAACCCGGATTTAATAAC-TCGCAC
66 TAATAACTCGCACAAATGCCTTCGGGACTTAACCCGGATATAATAACTTAGCAC
* * * * *
94189811 GAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACAAAGGCCTTCGGGGCTTAACCCGGA
1 -AATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCACAC-AAGGCCTTCGGGACATAACCCGG-
* * ** * *
94189876 ATTT-GTATCTCGCACAAATGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCAC
63 ATTTAATAACTCGCACAAATGCCTTCGGGA-CTTAACCCGGATATAATAACTTAGCAC
*
94189932 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAGCCCGGA
94189956 CAGCATTCAA
Statistics
Matches: 121, Mismatches: 19, Indels: 7
0.82 0.13 0.05
Matches are distributed among these distances:
119 37 0.31
120 75 0.62
121 9 0.07
ACGTcount: A:0.26, C:0.27, G:0.21, T:0.25
Consensus pattern (119 bp):
AATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCACACAAGGCCTTCGGGACATAACCCGGATT
TAATAACTCGCACAAATGCCTTCGGGACTTAACCCGGATATAATAACTTAGCAC
Found at i:94189964 original size:41 final size:41
Alignment explanation
Indices: 94189887--94189964 Score: 97
Period size: 40 Copynumber: 1.9 Consensus size: 41
94189877 TTTGTATCTC
* * *
94189887 GCACAAATGCCTTCGGATCTTAGTCCGGATATATTCACTTA
1 GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
94189928 GCACAAA-GCCTTCGGGA-CTTAGCCCGGACAGCATTCA
1 GCACAAATGCCTTC-GGATCTTAGCCCGGACA-CATTCA
94189965 ATTAATCATG
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
40 17 0.53
41 15 0.47
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (41 bp):
GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
Found at i:94197820 original size:80 final size:80
Alignment explanation
Indices: 94197677--94197979 Score: 387
Period size: 80 Copynumber: 3.8 Consensus size: 80
94197667 TCCTCGTTCA
* * * * * *
94197677 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC-AATGCCTTCGGGACATAACCCGGAT
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACGAATGCCTTCGGGACTTAACCCGGAT
94197741 TTAACAACTCGCACG
66 TTAACAACTCGCACG
*
94197756 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACGAATGCCTTCGGGACTTAACCCGGAT
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACGAATGCCTTCGGGACTTAACCCGGAT
94197821 TTAACAACTCGCACG
66 TTAACAACTCGCACG
94197836 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACGAATGCCTTCGGGACTTAACCCGGAT
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACGAATGCCTTCGGGACTTAACCCGGAT
** * *
94197901 TTAGTATCTCGCACA
66 TTAACAACTCGCACG
* ** * * * * * *
94197916 AAGGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCAC-AAAGCCTTCGGGACTTAGCCCGG
1 AATGCCTTCGGGA-CTTAACCCGGATTTAATAAC-TCGCACGAATGCCTTCGGGACTTAACCCGG
94197979 A
64 A
94197980 CAGCATTCAA
Statistics
Matches: 200, Mismatches: 21, Indels: 5
0.88 0.09 0.02
Matches are distributed among these distances:
79 36 0.18
80 159 0.80
81 5 0.03
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (80 bp):
AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACGAATGCCTTCGGGACTTAACCCGGAT
TTAACAACTCGCACG
Found at i:94197939 original size:120 final size:120
Alignment explanation
Indices: 94197707--94197979 Score: 363
Period size: 120 Copynumber: 2.3 Consensus size: 120
94197697 CGGTTTTAGT
* *
94197707 AACTCACACAATGCCTTCGGGACATAACCCGGATTTAACAACTCGCACGAATGCCTTCGGGACTT
1 AACTCGCACAATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACGAATGCCTTCGGGACTT
* * *
94197772 AACCCGGATTTAACAACTCGCACGAATGCCTTCGGGACTTAACCCGGATTTA-AC
66 AACCCGGATTTAACAACTCGCACAAAGGCCTTCGGGACTTAACCCGGATATATAC
*
94197826 AACTCGCACGAATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACGAATGCCTTCGGGACT
1 AACTCGCAC-AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACGAATGCCTTCGGGACT
** * ** *
94197891 TAACCCGGATTTAGTATCTCGCACAAAGGCCTTC-GGATCTTAGTCCGGATATATTC
65 TAACCCGGATTTAACAACTCGCACAAAGGCCTTCGGGA-CTTAACCCGGATATATAC
* * *
94197947 -ACTTAGCACAAAGCCTTCGGGACTTAGCCCGGA
1 AAC-TCGCACAATGCCTTCGGGACTTAACCCGGA
94197980 CAGCATTCAA
Statistics
Matches: 135, Mismatches: 15, Indels: 7
0.86 0.10 0.04
Matches are distributed among these distances:
119 11 0.08
120 118 0.87
121 6 0.04
ACGTcount: A:0.27, C:0.29, G:0.20, T:0.23
Consensus pattern (120 bp):
AACTCGCACAATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACGAATGCCTTCGGGACTT
AACCCGGATTTAACAACTCGCACAAAGGCCTTCGGGACTTAACCCGGATATATAC
Found at i:94197940 original size:40 final size:40
Alignment explanation
Indices: 94197677--94197926 Score: 376
Period size: 40 Copynumber: 6.3 Consensus size: 40
94197667 TCCTCGTTCA
* * * ** *
94197677 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC-
1 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
*
94197716 AATGCCTTCGGGACATAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
94197756 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
94197796 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
*
94197836 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
** * *
94197876 AATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
*
94197916 AAGGCCTTCGG
1 AATGCCTTCGG
94197927 ATCTTAGTCC
Statistics
Matches: 199, Mismatches: 11, Indels: 1
0.94 0.05 0.00
Matches are distributed among these distances:
39 34 0.17
40 165 0.83
ACGTcount: A:0.27, C:0.29, G:0.21, T:0.24
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
Found at i:94197988 original size:41 final size:41
Alignment explanation
Indices: 94197911--94197988 Score: 97
Period size: 40 Copynumber: 1.9 Consensus size: 41
94197901 TTAGTATCTC
* * *
94197911 GCACAAAGGCCTTCGGATCTTAGTCCGGATATATTCACTTA
1 GCACAAAGGCCTTCGGATCTTAGCCCGGACACATTCACTTA
94197952 GCACAAA-GCCTTCGGGA-CTTAGCCCGGACAGCATTCA
1 GCACAAAGGCCTTC-GGATCTTAGCCCGGACA-CATTCA
94197989 ATTAATCATG
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
40 17 0.53
41 15 0.47
ACGTcount: A:0.27, C:0.28, G:0.22, T:0.23
Consensus pattern (41 bp):
GCACAAAGGCCTTCGGATCTTAGCCCGGACACATTCACTTA
Found at i:94201373 original size:34 final size:34
Alignment explanation
Indices: 94201335--94201405 Score: 90
Period size: 34 Copynumber: 2.1 Consensus size: 34
94201325 GTTAAGTTAG
* *
94201335 GTAAGTTATG-ATATGATATATATTTATGTATTAT
1 GTAAGTTATGTAAATGATATA-AGTTATGTATTAT
* *
94201369 GTAAGTTATGTAAATTATGTAAGTTATGTATTAT
1 GTAAGTTATGTAAATGATATAAGTTATGTATTAT
94201403 GTA
1 GTA
94201406 TGGCATAAAG
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
34 25 0.78
35 7 0.22
ACGTcount: A:0.35, C:0.00, G:0.17, T:0.48
Consensus pattern (34 bp):
GTAAGTTATGTAAATGATATAAGTTATGTATTAT
Found at i:94201379 original size:9 final size:9
Alignment explanation
Indices: 94201327--94201398 Score: 60
Period size: 9 Copynumber: 8.2 Consensus size: 9
94201317 TGAGTATAGT
*
94201327 TAAGTTAGG
1 TAAGTTATG
94201336 TAAGTTATG
1 TAAGTTATG
* * *
94201345 ATATGATATA
1 -TAAGTTATG
*
94201355 T-ATTTATG
1 TAAGTTATG
94201363 T-A-TTATG
1 TAAGTTATG
94201370 TAAGTTATG
1 TAAGTTATG
*
94201379 TAAATTATG
1 TAAGTTATG
94201388 TAAGTTATG
1 TAAGTTATG
94201397 TA
1 TA
94201399 TTATGTATGG
Statistics
Matches: 50, Mismatches: 10, Indels: 6
0.76 0.15 0.09
Matches are distributed among these distances:
7 6 0.12
8 6 0.12
9 32 0.64
10 6 0.12
ACGTcount: A:0.36, C:0.00, G:0.18, T:0.46
Consensus pattern (9 bp):
TAAGTTATG
Found at i:94201387 original size:18 final size:18
Alignment explanation
Indices: 94201364--94201398 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
94201354 ATATTTATGT
94201364 ATTATGTAAGTTATGTAA
1 ATTATGTAAGTTATGTAA
94201382 ATTATGTAAGTTATGTA
1 ATTATGTAAGTTATGTA
94201399 TTATGTATGG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.37, C:0.00, G:0.17, T:0.46
Consensus pattern (18 bp):
ATTATGTAAGTTATGTAA
Found at i:94201547 original size:16 final size:16
Alignment explanation
Indices: 94201526--94201638 Score: 106
Period size: 16 Copynumber: 7.1 Consensus size: 16
94201516 TGATCTTTAA
*
94201526 ATTATGTAAGTCATGT
1 ATTATGTAAGTTATGT
94201542 ATTATGTAAGTTATGT
1 ATTATGTAAGTTATGT
94201558 ATTATGTAAGTTATGT
1 ATTATGTAAGTTATGT
*
94201574 AAATTATGTAAGTTATGAA
1 --ATTATGTAAGTTATG-T
* * **
94201593 ATT-CG-AACTT-TAA
1 ATTATGTAAGTTATGT
94201606 ATTATGTAAGTTATGT
1 ATTATGTAAGTTATGT
* *
94201622 ATTATGCAAATTATGT
1 ATTATGTAAGTTATGT
94201638 A
1 A
94201639 AATTATGTGA
Statistics
Matches: 80, Mismatches: 11, Indels: 12
0.78 0.11 0.12
Matches are distributed among these distances:
13 4 0.05
14 2 0.03
15 8 0.10
16 48 0.60
17 3 0.04
18 15 0.19
ACGTcount: A:0.36, C:0.04, G:0.16, T:0.44
Consensus pattern (16 bp):
ATTATGTAAGTTATGT
Found at i:94201555 original size:9 final size:9
Alignment explanation
Indices: 94201527--94201651 Score: 84
Period size: 9 Copynumber: 14.2 Consensus size: 9
94201517 GATCTTTAAA
94201527 TTATGTAAG
1 TTATGTAAG
*
94201536 TCATGT-A-
1 TTATGTAAG
94201543 TTATGTAAG
1 TTATGTAAG
94201552 TTATGT-A-
1 TTATGTAAG
94201559 TTATGTAAG
1 TTATGTAAG
*
94201568 TTATGTAAA
1 TTATGTAAG
94201577 TTATGTAAG
1 TTATGTAAG
*
94201586 TTATG-AAA
1 TTATGTAAG
* *
94201594 TTCGAACTTTAAA
1 TT---A-TGTAAG
94201607 TTATGTAAG
1 TTATGTAAG
94201616 TTATGT-A-
1 TTATGTAAG
* *
94201623 TTATGCAAA
1 TTATGTAAG
*
94201632 TTATGTAAA
1 TTATGTAAG
*
94201641 TTATGTGAG
1 TTATGTAAG
94201650 TT
1 TT
94201652 GCTGGTGAAC
Statistics
Matches: 93, Mismatches: 12, Indels: 22
0.73 0.09 0.17
Matches are distributed among these distances:
7 16 0.17
8 10 0.11
9 59 0.63
10 1 0.01
11 1 0.01
12 1 0.01
13 5 0.05
ACGTcount: A:0.35, C:0.03, G:0.17, T:0.45
Consensus pattern (9 bp):
TTATGTAAG
Found at i:94201579 original size:80 final size:80
Alignment explanation
Indices: 94201488--94201638 Score: 248
Period size: 80 Copynumber: 1.9 Consensus size: 80
94201478 TGTGTTAATT
* * * *
94201488 TTATGTAAATTATATAAGTTATGAAATTTGATCTTTAAATTATGTAAGTCATGTATTATGTAAGT
1 TTATGTAAATTATATAAGTTATGAAATTCGAACTTTAAATTATGTAAGTCATGTATTATGCAAAT
94201553 TATGTATTATGTAAG
66 TATGTATTATGTAAG
* *
94201568 TTATGTAAATTATGTAAGTTATGAAATTCGAACTTTAAATTATGTAAGTTATGTATTATGCAAAT
1 TTATGTAAATTATATAAGTTATGAAATTCGAACTTTAAATTATGTAAGTCATGTATTATGCAAAT
94201633 TATGTA
66 TATGTA
94201639 AATTATGTGA
Statistics
Matches: 65, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
80 65 1.00
ACGTcount: A:0.37, C:0.03, G:0.15, T:0.45
Consensus pattern (80 bp):
TTATGTAAATTATATAAGTTATGAAATTCGAACTTTAAATTATGTAAGTCATGTATTATGCAAAT
TATGTATTATGTAAG
Found at i:94201851 original size:98 final size:98
Alignment explanation
Indices: 94201756--94202093 Score: 583
Period size: 98 Copynumber: 3.5 Consensus size: 98
94201746 AATAAAATAG
* *
94201756 AATATTTAAAATAAAACTTTAAATACAATTTATTTTAATTATGTAATGTTAAAATAAAATAAAAT
1 AATATTTAAAATAAAACTTTAAATACAATTTAATTTAATTAGGTAATGTTAAAATAAAATAAAAT
94201821 ATTTAAATTATTTTTCGTGATTCAAAAAAATGA
66 ATTTAAATTATTTTTCGTGATTCAAAAAAATGA
* *
94201854 AATATTTAAAATAAAACTTTAAATACAATTTATTTTAATTATGTAATGTTAAAATAAAATAAAAT
1 AATATTTAAAATAAAACTTTAAATACAATTTAATTTAATTAGGTAATGTTAAAATAAAATAAAAT
94201919 ATTTAAATTATTTTTCGTGATTCAAAAAAATGA
66 ATTTAAATTATTTTTCGTGATTCAAAAAAATGA
94201952 AATATTTAAAATAAAACTTTAAATACAATTTAATTTAATTAGGTAATGTTAAAATAAAATAAAAT
1 AATATTTAAAATAAAACTTTAAATACAATTTAATTTAATTAGGTAATGTTAAAATAAAATAAAAT
* *
94202017 ATTAAAATTAGTTTTCGTGATTC-AAAAAA--A
66 ATTTAAATTATTTTTCGTGATTCAAAAAAATGA
* *
94202047 AATATTTAAAATGAAACTTTAAATATAATTTAATTTAATTAGGTAAT
1 AATATTTAAAATAAAACTTTAAATACAATTTAATTTAATTAGGTAAT
94202094 TTGATATACT
Statistics
Matches: 234, Mismatches: 6, Indels: 3
0.96 0.02 0.01
Matches are distributed among these distances:
95 46 0.20
97 6 0.03
98 182 0.78
ACGTcount: A:0.51, C:0.04, G:0.06, T:0.40
Consensus pattern (98 bp):
AATATTTAAAATAAAACTTTAAATACAATTTAATTTAATTAGGTAATGTTAAAATAAAATAAAAT
ATTTAAATTATTTTTCGTGATTCAAAAAAATGA
Found at i:94206120 original size:21 final size:21
Alignment explanation
Indices: 94206091--94206130 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
94206081 ACAAACAACA
*
94206091 AAATTTAAAA-AACTAAACCCC
1 AAATCTAAAATAAC-AAACCCC
94206112 AAATCTAAAATAACAAACC
1 AAATCTAAAATAACAAACC
94206131 ATAAACTTAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
21 14 0.82
22 3 0.18
ACGTcount: A:0.60, C:0.23, G:0.00, T:0.17
Consensus pattern (21 bp):
AAATCTAAAATAACAAACCCC
Found at i:94206610 original size:18 final size:17
Alignment explanation
Indices: 94206587--94206621 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
94206577 AAAGTTAGTT
*
94206587 TCAAATATCAAAATAAAA
1 TCAAAT-TCAAAACAAAA
94206605 TCAAATTCAAAACAAAA
1 TCAAATTCAAAACAAAA
94206622 ATAAGAAAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 10 0.62
18 6 0.38
ACGTcount: A:0.66, C:0.14, G:0.00, T:0.20
Consensus pattern (17 bp):
TCAAATTCAAAACAAAA
Found at i:94206883 original size:12 final size:12
Alignment explanation
Indices: 94206868--94206892 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
94206858 TTTTTTGTCT
94206868 AAACGCCACTAA
1 AAACGCCACTAA
94206880 AAACGCCACTAA
1 AAACGCCACTAA
94206892 A
1 A
94206893 GCCCTATTTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.52, C:0.32, G:0.08, T:0.08
Consensus pattern (12 bp):
AAACGCCACTAA
Found at i:94210182 original size:43 final size:40
Alignment explanation
Indices: 94210070--94210222 Score: 209
Period size: 40 Copynumber: 3.8 Consensus size: 40
94210060 TATTCGGATG
*
94210070 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGAAT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
* **
94210110 ATATCAGGGAGAAGTCCCGAAGGCATTTGTGCGAGTAGTTG-CT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGC---TAG-TGACT
*
94210153 ATACCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
*
94210193 ATATCCGGGCTAAGACCCGAAGGCATTTGT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGT
94210223 CCAAGTTGCC
Statistics
Matches: 98, Mismatches: 10, Indels: 10
0.83 0.08 0.08
Matches are distributed among these distances:
39 2 0.02
40 62 0.63
43 32 0.33
44 2 0.02
ACGTcount: A:0.25, C:0.21, G:0.29, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
Found at i:94210237 original size:40 final size:40
Alignment explanation
Indices: 94210070--94210254 Score: 178
Period size: 40 Copynumber: 4.6 Consensus size: 40
94210060 TATTCGGATG
* * *
94210070 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGAAT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTCCAAGTGACT
* ** *
94210110 ATATCAGGGAGAAGTCCCGAAGGCATTTGTGCGAGTAGTTG-CT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGT-CCA--AG-TGACT
* * *
94210153 ATACCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTCCAAGTGACT
* *
94210193 ATATCCGGGCTAAGACCCGAAGGCATTTGTCCAAGTTG-CC
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTCCAAG-TGACT
* *
94210233 ATATCC-CGCTAAATCCCGAAGG
1 ATATCCGGGCTAAGTCCCGAAGG
94210255 TACTTGGGTT
Statistics
Matches: 117, Mismatches: 22, Indels: 13
0.77 0.14 0.09
Matches are distributed among these distances:
39 15 0.13
40 69 0.59
41 2 0.02
43 29 0.25
44 2 0.02
ACGTcount: A:0.25, C:0.23, G:0.27, T:0.24
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTCCAAGTGACT
Found at i:94212682 original size:27 final size:26
Alignment explanation
Indices: 94212643--94212760 Score: 101
Period size: 27 Copynumber: 4.3 Consensus size: 26
94212633 ATATACTGGT
94212643 GAACCCCAGCTCACCAATCCAATTGGC
1 GAACCCCAGCTCACCAA-CCAATTGGC
* * * *
94212670 GAACCCTAACTCACCAAACCTATAGGC
1 GAACCCCAGCTCACC-AACCAATTGGC
*
94212697 GAACCCCCAGCTCACCAGACCAACTGGC
1 GAA-CCCCAGCTCACCA-ACCAATTGGC
* ** *
94212725 GAACCCTAGCTTGCCAAACCAACTGGC
1 GAACCCCAGCTCACC-AACCAATTGGC
*
94212752 GAGCCCCAG
1 GAACCCCAG
94212761 TTCGCTAAAC
Statistics
Matches: 73, Mismatches: 14, Indels: 8
0.77 0.15 0.08
Matches are distributed among these distances:
27 50 0.68
28 23 0.32
ACGTcount: A:0.31, C:0.41, G:0.17, T:0.12
Consensus pattern (26 bp):
GAACCCCAGCTCACCAACCAATTGGC
Found at i:94212753 original size:55 final size:55
Alignment explanation
Indices: 94212637--94212758 Score: 142
Period size: 55 Copynumber: 2.2 Consensus size: 55
94212627 CTCGACATAT
* * *
94212637 ACTGGTGAA-CCCCAGCTCACCAATCCAATTGGCGAACCCTAACTCACCAAACCT
1 ACTGGCGAACCCCCAGCTCACCAATCCAACTGGCGAACCCTAACTCACCAAACCA
* **
94212691 A-TAGGCGAACCCCCAGCTCACCAGA-CCAACTGGCGAACCCTAGCTTGCCAAACCA
1 ACT-GGCGAACCCCCAGCTCACCA-ATCCAACTGGCGAACCCTAACTCACCAAACCA
*
94212746 ACTGGCGAGCCCC
1 ACTGGCGAACCCC
94212759 AGTTCGCTAA
Statistics
Matches: 57, Mismatches: 7, Indels: 7
0.80 0.10 0.10
Matches are distributed among these distances:
53 1 0.02
54 6 0.11
55 48 0.84
56 2 0.04
ACGTcount: A:0.30, C:0.40, G:0.17, T:0.13
Consensus pattern (55 bp):
ACTGGCGAACCCCCAGCTCACCAATCCAACTGGCGAACCCTAACTCACCAAACCA
Found at i:94230114 original size:745 final size:748
Alignment explanation
Indices: 94226469--94230114 Score: 1819
Period size: 743 Copynumber: 4.9 Consensus size: 748
94226459 GATAGGCCGT
* * * * * *
94226469 AGCCCTTACCCAACATCTTTTTTACTCTCATTGTCAATATGGCATTAGACATAAATTAAGGTCAC
1 AGCCCTTACCCAACATCTTTTCTACTATCATTGTCAATATGGCAATAGACATAAATTGAGCTCGC
* * * * * * * * * * *
94226534 TCACCTGCCACTACAATTTC-CTGGTCTTCACTATTTTACAAAGGGACTC-TTTTCAATTTGAAG
66 TCACCTACAACTACAACTTCAC-AGCCTTCAATATTTCACAAAGTGACTCGTTTT-AGTTCGAAA
* * * * *
94226597 TCAATCTTCGCTTTATGCTCAGCCAACCAATTCATCCCCAAGATTACATCAAACACATAGAATGG
129 TCAATCTTGGCTATATGCTCAGCCAACCAATCCATCCCAAAGATTACATCAAACACATAAAATGG
* * * * * * * *
94226662 AAACTTC-TAAAACTTTGCGTAGAAAACTTGGCCTTGGATTAGTAAA-G-AACACTTGTGGTACA
194 AAACTCCAT-CAA-GTT-CGCAGAAAACTTGCCCTTGGATCACTAAAGGAAAC-CTT-TGCTACA
* * ** *
94226724 CTTTGTTGACCAATATATTGTCTC-CAAATGAACTAGTGACTCTCACACCCTTATCTAT-GATTT
254 CTTTATTGACCAATA-ACTGTC-CACAAACAAACTAGTGACTGTCACACCCTTATCTATAG-TTT
* * * *
94226787 CTAC-ATGAATTCCC-AACTCA-CAGGCTAGTTCACTCAAAGCATACAAGTGCATGGAACTAGAT
316 CTACTA-GAA-TCCCAAACTGACCA-GCTAGTTCACTCAAAACATACTAGTGCGTGGAACTAGAT
* * * * * * * * *
94226849 TCAATGAAGGAAAA-AATGGAATAATTCATAGTGTTAAAGTAGTTGGGATAACATTGGTCGAGCC
378 TCAATGAAGGAAAACAATAGAATAGTTCAAAGAGTGAAGGTAGTTGTGATAACATCGGTCAAGCC
* * * ** * *
94226913 CTGATCTTGTGGTTCCCTTACAACATAGA-T-TTGTACAAGGCCTCCTAACTCATCTTGGGTAGC
443 CTGATCTTGTGGTTCCCTTACAACAAAGACTCGTGT-GAA-GCCTCCCGACTCATCTTAGCTAGC
* * * *
94226976 AACAACT-TGAGATAAAGTTTGCTACCCAACTTGCATTGCATCCTAGCCTT-TTCCTCGACCTCA
506 AA-AAATGTGAGATAAAG-TT-CT--GC--C-T--A--GC-TCGT--CCTTCTT-CTCGACCTCG
** * ** * *
94227039 TCCATGAGCCCCAACTCGTAC-TCGG-AGGGGGTCACATT-TGGCA-TCTGTGA-GTT--T-TC-
555 TCCATGAGTACCAGCTCACACTTGGGTA-GGGGTCACATTCT--CACT-TGTGATTTTCATGTCT
* * * * * *
94227095 --CT-G---TC---TAT--T-TGGGCAATCTTTTCTC-ATTTGGAAAAATATTATGAAAG-TCCT
616 ATCTAGCATTCATTTATCATATGGGAAATCTTTT-TCGA-CTAGAAACACATTA-GGAAGTTCC-
* ** *** * *
94227146 TGACAATACGT-ATCTCGTGGACCCTTATAACCTTGTCC-ATTAAACCCATAAAAAATGCGAGAT
677 TCACAA-AAATAATCTCGCAAACCCCTATAACCTTGTCCTA-CAAACCCATAAAAAATGCGAGAT
*
94227209 AGACTTTC-C
740 AGGC-TTCAC
** * * * * * * *** *
94227218 AGCTATTACCCAACATCTTTACTGCTTTCAATGTTAAGACCACAATAGAAATAAATTGAGCTCGC
1 AGCCCTTACCCAACATCTTTTCTACTATCATTGTCAATATGGCAATAGACATAAATTGAGCTCGC
* * * * * * * ** * *
94227283 ACACCTACCACTACAATTTC-CTTA-TCTTTATTTTTTTTTGCAAAATGACTC-TATTTCAATTC
66 TCACCTACAACTACAACTTCAC--AGCCTTCA--ATATTTCACAAAGTGACTCGT-TTT-AGTTC
* * * * ** *
94227345 CAAGTCAATCTTGGCTTTATGCTCAGCCAACCAATCCATTCC------TA-AT--ATTACATAGA
125 GAAATCAATCTTGGCTATATGCTCAGCCAACCAATCCATCCCAAAGATTACATCAAACACATAAA
* * * * *
94227401 ATGGCAACTCCCA-AAACTTCACATAGAAAACTTGCCCTTGGATCACTAAA-G-AACACTTATGG
190 ATGGAAACT-CCATCAAGTTCGC--AGAAAACTTGCCCTTGGATCACTAAAGGAAAC-CTT-TGC
* * * * *
94227463 TA-ACTTTATTGACTAATATATTATATC-CAAACAAACTAGTGA-TAGTCACGCCCTTAT-TAAT
250 TACACTTTATTGACCAATA-ACTGT-CCACAAACAAACTAGTGACT-GTCACACCCTTATCT-AT
* * * * * * *
94227524 GGTTTCTACTGGAATTCCC-AATTCA-CATGCTAGTTCGCTCAAAACATACAAGTGTGTGGAACT
311 AGTTTCTACTAGAA-TCCCAAACTGACCA-GCTAGTTCACTCAAAACATACTAGTGCGTGGAACT
* * * * * * * **
94227587 AGATTCAACGAAGGAAAAGAATGGAATAGTTCATAGAGTAAAGGTAGTTGTAATAACATCAGTTG
374 AGATTCAATGAAGGAAAACAATAGAATAGTTCAAAGAGTGAAGGTAGTTGTGATAACATCGGTCA
* * * * ** * *
94227652 AGCCATGGTCTTGTGGTTCCCTTACAACATAGACTCGTG-CAAGGCCTCCTAACTCATCTTGGGT
439 AGCCCTGATCTTGTGGTTCCCTTACAACAAAGACTCGTGTGAA-GCCTCCCGACTCATCTTAGCT
* * * * * * * *
94227716 AGCAACAATTTGAGATAAATTTTGCTCCCCAACTTACCTTGTATCATTGCGTCTTCCTCGACCCC
503 AGCAAAAATGTGAGATAAA-GTT-CT--GC--C-TAGCTCG--TC----CTTCTT-CTCGACCTC
* * * * * * *
94227781 ATTCATGAG-CCCTAGCTCGCACTCGGG--GGGGTTCACATT-TGGCACATGCGA---T--T-TC
554 GTCCATGAGTACC-AGCTCACACTTGGGTAGGGG-TCACATTCT--CACTTGTGATTTTCATGTC
* * * *
94227836 --TC---C--T-ATTTAT--T-TGGGAAATCTTTTCTCGTCTGGAAAAACATTAGGAAAGTCCCT
615 TATCTAGCATTCATTTATCATATGGGAAATCTTTT-TCGACTAGAAACACATTAGG-AAGTTCCT
* * * ** * * * * * * *
94227890 GATAGTACGT-ATCTC-AAGAACCCCTATAGCCTTGTCC-ATCGAACCCATCAGAAATACAAGAT
678 CACA-AAAATAATCTCGCA-AACCCCTATAACCTTGTCCTA-CAAACCCATAAAAAATGCGAGAT
*
94227952 AGGCTTCGC
740 AGGCTTCAC
* ** * * * * * ***
94227961 AACTGTTACCCAACATCTTTACTACTTTCAATGTCGAGACCACAATAGACATAAATTGAGCTCGC
1 AGCCCTTACCCAACATCTTTTCTACTATCATTGTCAATATGGCAATAGACATAAATTGAGCTCGC
* * * ** * ** * * * * *
94228026 TCACCTACCACTACAATTTC-CTTGCCTTCGCTGTTTCGTAAAATGACTCTTTTTCTGTTCCAAG
66 TCACCTACAACTACAACTTCAC-AGCCTTCAATATTTCACAAAGTGACTCGTTTT-AGTTCGAAA
* * * *
94228090 TCAATCTTGGCTTTATGCTCAGCCAACCAATCCATCCCCAAGATTACATCAAACACATAGAATGA
129 TCAATCTTGGCTATATGCTCAGCCAACCAATCCATCCCAAAGATTACATCAAACACATAAAATGG
* * * * * * *
94228155 AAAGTTCATCATGTTCAAGTCA-AAAACTTGCCCTTGGATAATTAACGGACA-C----CTACACT
194 AAACTCCATCAAGTTC--G-CAGAAAACTTGCCCTTGGATCACTAAAGGAAACCTTTGCTACACT
* * * * *
94228214 TTATTGACCAATATAGTGTCCCCAAACGAACTAGTGA-TAGTCACGCCCTTATCTATGGTTTCTA
256 TTATTGACCAATA-ACTGTCCACAAACAAACTAGTGACT-GTCACACCCTTATCTATAGTTTCTA
* * * * * *
94228278 CTAGAATTCCC-AACTCA-CACGTTAGTTCACTCAAAACATACGAGTGTGTGTAAAC-ATATTCA
319 CTAGAA-TCCCAAACTGACCA-GCTAGTTCACTCAAAACATACTAGTGCGTG-GAACTAGATTCA
* * * * * * *
94228340 ATCAAGGAAAAAGAAT-GAATAGTTCACAA-AGTGAATGTACTTGTGATAAAATCGGTCAAACCT
381 ATGAAGG-AAAACAATAGAATAGTTCA-AAGAGTGAAGGTAGTTGTGATAACATCGGTCAAGCCC
* * * * * * * * * *
94228403 TGATTTTGTGGTTCCCGTACAATATAGACTCATGCGAGGCCT-CCTAATACATCTTGAG-TAGTA
444 TGATCTTGTGGTTCCCTTACAACAAAGACTCGTGTGAAGCCTCCCGACT-CATCTT-AGCTAGCA
* * ** * * * * * *
94228466 ACAATGTAAGATTTAGTACATTGCCCAACTTGCCTTGTATTATTGCATCTTCATCAACCTCGTCC
507 AAAATGTGAGATAAAGTTC--TG--C--CTAG-CTCG------TCCTTCTTC-TCGACCTCGTCC
* * * * * * *
94228531 ACGAGTACCAACTCACACTTGGGT-GGGGTCATATTCTGCACTTGGGATTTTTCTTATCTCTCTA
558 ATGAGTACCAGCTCACACTTGGGTAGGGGTCACATTCT-CACTTGTGA-TTTTCATGTCTATCTA
* * *
94228595 GGCAATCATTTATCATATGGGAAATCTTCTTTCGTCTAGAAGCACATTAGGAAAGTTCCTCACAA
621 -GCATTCATTTATCATATGGGAAATCTT-TTTCGACTAGAAACACATTAGG-AAGTTCCTCACAA
* *
94228660 AAATAGATCTCGCAAACCCCTATAGCCTTGTCCTACAAACCCATAAAAAATGCGAGATAGGCTTT
683 AAATA-ATCTCGCAAACCCCTATAACCTTGTCCTACAAACCCATAAAAAATGCGAGATAGGCTTC
**
94228725 GT
747 AC
* * *
94228727 AGCCCTTACCCAACATCTTTTCTACTATCATTGTCATTATGGCATTAGACATAAATTGAGGTCGC
1 AGCCCTTACCCAACATCTTTTCTACTATCATTGTCAATATGGCAATAGACATAAATTGAGCTCGC
* * * * *** ** *
94228792 TCACCTACAACTATAATTTCCCAGCCTTCAATGTTTTGTAAAGTGACTTTTTTTAGTTTGAAATC
66 TCACCTACAACTACAACTTCACAGCCTTCAATATTTCACAAAGTGACTCGTTTTAGTTCGAAATC
* ** *
94228857 AATTTTGGCTATATGCTCAGCCAACCAATCTGTCCCAAAGATTACATCGAACACATAAAATGGAA
131 AATCTTGGCTATATGCTCAGCCAACCAATCCATCCCAAAGATTACATCAAACACATAAAATGGAA
** * * * *
94228922 ACTTTATCAAGTTCGCAGATAACTTGCCCTTGTATCACTAACGGAAACCTTTGCTATACTTTATT
196 ACTCCATCAAGTTCGCAGAAAACTTGCCCTTGGATCACTAAAGGAAACCTTTGCTACACTTTATT
*
94228987 GACCAATAACTGTCCCCAAACAAACTAGTGACTGTCACACCCTTATCTATAGTTTCTACTAGAAT
261 GACCAATAACTGTCCACAAACAAACTAGTGACTGTCACACCCTTATCTATAGTTTCTACTAGAAT
* *
94229052 TCCAAACTGACTAGCTAGTTCACTCAAAACATACTAGTGCGTGGAACTAGATTCAATGAAGGAAA
326 CCCAAACTGACCAGCTAGTTCACTCAAAACATACTAGTGCGTGGAACTAGATTCAATGAAGGAAA
** * * *
94229117 ACAATAGAATAGTTCGTAGAGTGAAGGTAGTTGTGATCACATTGGTCAAGCCCTGGTCTTGTGGT
391 ACAATAGAATAGTTCAAAGAGTGAAGGTAGTTGTGATAACATCGGTCAAGCCCTGATCTTGTGGT
* * ** *
94229182 TCCCTTACAACAAAGACTCGTGTGAGGTCTCCCGACTCATCTTAGCTAGCAACTATTTGAGATAA
456 TCCCTTACAACAAAGACTCGTGTGAAGCCTCCCGACTCATCTTAGCTAGCAAAAATGTGAGATAA
*
94229247 AGTTCACTGCCCAACTAGCATTGTATCGTGCCTTCTTCTCGACCTTGTCCATGAGTACCAGCTCA
521 AGTT--CTG--C--CTAGC------TCGT-CCTTCTTCTCGACCTCGTCCATGAGTACCAGCTCA
** ** * *
94229312 CAC--CCG-AGGGGATCACA-T-T---TTGTG-----CATGTC-AT-TTCCCTT-ATCTATC---
573 CACTTGGGTAGGGG-TCACATTCTCACTTGTGATTTTCATGTCTATCTAGCATTCATTTATCATA
* * * * * **
94229358 TGGGCAATCTTTTCTCGACTTGAAACACATTAGG-AGTGTCCTTGACAGTACAT-ATCTCGTGAA
637 TGGGAAATCTTTT-TCGACTAGAAACACATTAGGAAGT-TCC-TCACA-AAAATAATCTCGCAAA
* * * *
94229421 CCCCTATAACCTTGTCCTCCGAACCCATCAGAAATGC-AGGATAGGCTTCAC
698 CCCCTATAACCTTGTCCTACAAACCCATAAAAAATGCGA-GATAGGCTTCAC
* * ** *
94229472 AGCCCTTACCCAACGTCTTTTC-ACTTTTGTTGTCAATATGGCAATAGACATAAATTGAGCTTGC
1 AGCCCTTACCCAACATCTTTTCTACTATCATTGTCAATATGGCAATAGACATAAATTGAGCTCGC
* * * *
94229536 TCACCTACCACTACAACTTCACTGCCTTCACTATTTCACAAAGTGACTCGTTTTAGTTCGAAGTC
66 TCACCTACAACTACAACTTCACAGCCTTCAATATTTCACAAAGTGACTCGTTTTAGTTCGAAATC
* *
94229601 AATCTTGGCTTTATGCTCAGCCAACCAATCCATCCC-AA-ATTACATCAAACACATAGAAT-GAC
131 AATCTTGGCTATATGCTCAGCCAACCAATCCATCCCAAAGATTACATCAAACACATAAAATGGA-
* * *
94229663 AACTCCATCAAGTTCACGTAGAAAACTTTCCCTTGGATCACTAAAGGACACCTATT-CTACACTT
195 AACTCCATCAAGTT--CGCAGAAAACTTGCCCTTGGATCACTAAAGGAAACCT-TTGCTACACTT
* * ** *
94229727 TATTGACCAATATATTGTCCACAAACGAACTAGTGA-TAGTCATGCCCTTATCTATGGTTTCTAC
257 TATTGACCAATA-ACTGTCCACAAACAAACTAGTGACT-GTCACACCCTTATCTATAGTTTCTAC
* * ** *
94229791 TAGAATCCCCAACTGACCGGCTAGTTCGTTGAAAACATACTAGTGCGTGGAACTAGATTCAATGA
320 TAGAATCCCAAACTGACCAGCTAGTTCACTCAAAACATACTAGTGCGTGGAACTAGATTCAATGA
* * *
94229856 AGGAAAACAATGGAATAGTTCAAAGAGTGAAGTTATTTGTGATAACATCGGTCAAGCCCTGATCT
385 AGGAAAACAATAGAATAGTTCAAAGAGTGAAGGTAGTTGTGATAACATCGGTCAAGCCCTGATCT
* * * * * * *
94229921 TGTGGTTGCTTTACAACATAGACTCTTGTGAAGCCTCCTGACTCATCTTCGGTAGCAAAAATGTG
450 TGTGGTTCCCTTACAACAAAGACTCGTGTGAAGCCTCCCGACTCATCTTAGCTAGCAAAAATGTG
*
94229986 AGATAAAGTT-TG-CT-GC-C-T-C-T-TTCTCGACCTCGTCCATGAGTACCAGCTCGCACTTGG
515 AGATAAAGTTCTGCCTAGCTCGTCCTTCTTCTCGACCTCGTCCATGAGTACCAGCTCACACTTGG
* *
94230043 GTAGGGGTCACATTCTACACTTGTGATTTCTCCTGTCTATCTAGACATTCTTTTATCATATGGGA
580 GTAGGGGTCACATTCT-CACTTGTGATTT-TCATGTCTATCTAG-CATTCATTTATCATATGGGA
94230108 AATCTTT
642 AATCTTT
94230115 CTGGGCAATC
Statistics
Matches: 2315, Mismatches: 420, Indels: 328
0.76 0.14 0.11
Matches are distributed among these distances:
724 31 0.01
725 1 0.00
726 7 0.00
727 6 0.00
728 2 0.00
729 1 0.00
732 5 0.00
736 2 0.00
737 2 0.00
738 7 0.00
739 3 0.00
740 2 0.00
741 77 0.03
742 174 0.08
743 388 0.17
744 180 0.08
745 322 0.14
746 285 0.12
747 27 0.01
748 2 0.00
749 80 0.03
750 45 0.02
751 18 0.01
752 49 0.02
753 7 0.00
755 2 0.00
759 5 0.00
761 1 0.00
762 8 0.00
763 26 0.01
764 10 0.00
765 117 0.05
766 190 0.08
767 205 0.09
768 25 0.01
769 1 0.00
772 2 0.00
ACGTcount: A:0.30, C:0.24, G:0.16, T:0.31
Consensus pattern (748 bp):
AGCCCTTACCCAACATCTTTTCTACTATCATTGTCAATATGGCAATAGACATAAATTGAGCTCGC
TCACCTACAACTACAACTTCACAGCCTTCAATATTTCACAAAGTGACTCGTTTTAGTTCGAAATC
AATCTTGGCTATATGCTCAGCCAACCAATCCATCCCAAAGATTACATCAAACACATAAAATGGAA
ACTCCATCAAGTTCGCAGAAAACTTGCCCTTGGATCACTAAAGGAAACCTTTGCTACACTTTATT
GACCAATAACTGTCCACAAACAAACTAGTGACTGTCACACCCTTATCTATAGTTTCTACTAGAAT
CCCAAACTGACCAGCTAGTTCACTCAAAACATACTAGTGCGTGGAACTAGATTCAATGAAGGAAA
ACAATAGAATAGTTCAAAGAGTGAAGGTAGTTGTGATAACATCGGTCAAGCCCTGATCTTGTGGT
TCCCTTACAACAAAGACTCGTGTGAAGCCTCCCGACTCATCTTAGCTAGCAAAAATGTGAGATAA
AGTTCTGCCTAGCTCGTCCTTCTTCTCGACCTCGTCCATGAGTACCAGCTCACACTTGGGTAGGG
GTCACATTCTCACTTGTGATTTTCATGTCTATCTAGCATTCATTTATCATATGGGAAATCTTTTT
CGACTAGAAACACATTAGGAAGTTCCTCACAAAAATAATCTCGCAAACCCCTATAACCTTGTCCT
ACAAACCCATAAAAAATGCGAGATAGGCTTCAC
Found at i:94235757 original size:47 final size:47
Alignment explanation
Indices: 94235614--94235784 Score: 181
Period size: 47 Copynumber: 3.7 Consensus size: 47
94235604 CCATAAGTGG
*
94235614 ACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTTACATCTCACAA
1 ACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTTACATCTCACGA
* * * * * *
94235661 ACTCAGACTCAACTCCACGAGTTC--A-GAC--GTTCACATCCATAAGTGA
1 ACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTT-ACAT-C-TCA-CGA
* *
94235707 ACTCGGACTCCACTCAAAGAGCTCGGATGCCTAGTTACATCTCACGA
1 ACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTTACATCTCACGA
*
94235754 ACTCGGACTCAACTCAACGAGTTCGGATGCC
1 ACTCGGACTCAACTCAACGAGCTCGGATGCC
94235785 CAAATATCCG
Statistics
Matches: 97, Mismatches: 18, Indels: 18
0.73 0.14 0.14
Matches are distributed among these distances:
42 3 0.03
43 4 0.04
44 3 0.03
45 3 0.03
46 20 0.21
47 51 0.53
48 3 0.03
49 3 0.03
50 4 0.04
51 3 0.03
ACGTcount: A:0.29, C:0.32, G:0.18, T:0.21
Consensus pattern (47 bp):
ACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTTACATCTCACGA
Found at i:94235763 original size:93 final size:93
Alignment explanation
Indices: 94235604--94235777 Score: 294
Period size: 93 Copynumber: 1.9 Consensus size: 93
94235594 TGTTACCCAC
* *
94235604 CCATAAGTGGACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTTACATCTCACAAACTCAGAC
1 CCATAAGTGAACTCGGACTCAACTCAAAGAGCTCGGATGCCTAGTTACATCTCACAAACTCAGAC
*
94235669 TCAACTCCACGAGTTCAGACGTTCACAT
66 TCAACTCAACGAGTTCAGACGTTCACAT
* * *
94235697 CCATAAGTGAACTCGGACTCCACTCAAAGAGCTCGGATGCCTAGTTACATCTCACGAACTCGGAC
1 CCATAAGTGAACTCGGACTCAACTCAAAGAGCTCGGATGCCTAGTTACATCTCACAAACTCAGAC
94235762 TCAACTCAACGAGTTC
66 TCAACTCAACGAGTTC
94235778 GGATGCCCAA
Statistics
Matches: 75, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.30, C:0.31, G:0.18, T:0.21
Consensus pattern (93 bp):
CCATAAGTGAACTCGGACTCAACTCAAAGAGCTCGGATGCCTAGTTACATCTCACAAACTCAGAC
TCAACTCAACGAGTTCAGACGTTCACAT
Found at i:94238271 original size:15 final size:15
Alignment explanation
Indices: 94238206--94238274 Score: 79
Period size: 15 Copynumber: 4.7 Consensus size: 15
94238196 TAAAGATAAC
*
94238206 AAGAAAACC-GAATA
1 AAGAAATCCAGAATA
94238220 AAGAAATCCA-AGATA
1 AAGAAATCCAGA-ATA
* * *
94238235 GAGAAACCCAGAAAA
1 AAGAAATCCAGAATA
94238250 AAGAAATCCAGAATA
1 AAGAAATCCAGAATA
94238265 AAGAAATCCA
1 AAGAAATCCA
94238275 AGATATGATA
Statistics
Matches: 45, Mismatches: 7, Indels: 5
0.79 0.12 0.09
Matches are distributed among these distances:
14 9 0.20
15 35 0.78
16 1 0.02
ACGTcount: A:0.61, C:0.16, G:0.14, T:0.09
Consensus pattern (15 bp):
AAGAAATCCAGAATA
Found at i:94239720 original size:21 final size:19
Alignment explanation
Indices: 94239685--94239722 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
94239675 TCATCTCACG
94239685 TGTTATCACATATATATAT
1 TGTTATCACATATATATAT
94239704 TGTTATCACATATATATAT
1 TGTTATCACATATATATAT
94239723 CATAAACTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.37, C:0.11, G:0.05, T:0.47
Consensus pattern (19 bp):
TGTTATCACATATATATAT
Found at i:94241388 original size:47 final size:47
Alignment explanation
Indices: 94241320--94241581 Score: 209
Period size: 47 Copynumber: 5.6 Consensus size: 47
94241310 ATCCATAAGT
* *
94241320 GAACTCAGACTCAACTCAACGAGCTCGGATGCCTAGTTATATCTCAC
1 GAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTTAAATCTCAC
* * * * ** * *
94241367 GAACTCGGACTCAACTGAACGAGTTCAGA--CGT--TTGCATGCATAAGT
1 GAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTTAAAT-C-TCA-C
* *
94241413 GAACTCGGACTCCACTCAATGAGCTCGGATGCCTAGTTAAATCTCAC
1 GAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTTAAATCTCAC
* ** * *
94241460 GAACTCGGACTCAACTCAACGAGTTCGGA---C--GTTCGCATCCATAAGT
1 GAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTT-AAAT-C-TCA-C
* * *
94241506 GAACTCGAACTCCACTCAATGAGCTCGGATGCCTAGTTAAATCTCAC
1 GAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTTAAATCTCAC
*
94241553 GAACTCGGACTCAACTCAACGAGTTCGGA
1 GAACTCGGACTCAACTCAACGAGCTCGGA
94241582 CGTTCGCATC
Statistics
Matches: 161, Mismatches: 38, Indels: 32
0.70 0.16 0.14
Matches are distributed among these distances:
42 3 0.02
43 6 0.04
44 3 0.02
45 6 0.04
46 49 0.30
47 76 0.47
48 6 0.04
49 3 0.02
50 6 0.04
51 3 0.02
ACGTcount: A:0.29, C:0.28, G:0.20, T:0.23
Consensus pattern (47 bp):
GAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTTAAATCTCAC
Found at i:94241444 original size:93 final size:93
Alignment explanation
Indices: 94241285--94241633 Score: 558
Period size: 93 Copynumber: 3.8 Consensus size: 93
94241275 CCCGCCCACC
* * * * * *
94241285 CAACTCAACCAGCTCGGGCATTCGCATCCATAAGTGAACTC-AGACTCAACTCAACGAGCTCGGA
1 CAACTCAACGAGTTCGGACGTTCGCATCCATAAGTGAACTCGA-ACTCCACTCAATGAGCTCGGA
*
94241349 TGCCTAGTTATATCTCACGAACTCGGACT
65 TGCCTAGTTAAATCTCACGAACTCGGACT
* * * * *
94241378 CAACTGAACGAGTTCAGACGTTTGCATGCATAAGTGAACTCGGACTCCACTCAATGAGCTCGGAT
1 CAACTCAACGAGTTCGGACGTTCGCATCCATAAGTGAACTCGAACTCCACTCAATGAGCTCGGAT
94241443 GCCTAGTTAAATCTCACGAACTCGGACT
66 GCCTAGTTAAATCTCACGAACTCGGACT
94241471 CAACTCAACGAGTTCGGACGTTCGCATCCATAAGTGAACTCGAACTCCACTCAATGAGCTCGGAT
1 CAACTCAACGAGTTCGGACGTTCGCATCCATAAGTGAACTCGAACTCCACTCAATGAGCTCGGAT
94241536 GCCTAGTTAAATCTCACGAACTCGGACT
66 GCCTAGTTAAATCTCACGAACTCGGACT
94241564 CAACTCAACGAGTTCGGACGTTCGCATCCATAAGTGAACTCGAACTCCACTCAATGAG-TCCGGA
1 CAACTCAACGAGTTCGGACGTTCGCATCCATAAGTGAACTCGAACTCCACTCAATGAGCT-CGGA
94241628 TGCCTA
65 TGCCTA
94241634 AATATCCGAA
Statistics
Matches: 237, Mismatches: 17, Indels: 4
0.92 0.07 0.02
Matches are distributed among these distances:
92 1 0.00
93 236 1.00
ACGTcount: A:0.29, C:0.29, G:0.20, T:0.22
Consensus pattern (93 bp):
CAACTCAACGAGTTCGGACGTTCGCATCCATAAGTGAACTCGAACTCCACTCAATGAGCTCGGAT
GCCTAGTTAAATCTCACGAACTCGGACT
Found at i:94241523 original size:46 final size:46
Alignment explanation
Indices: 94241460--94241627 Score: 155
Period size: 46 Copynumber: 3.6 Consensus size: 46
94241450 TAAATCTCAC
*
94241460 GAACTCGGACTCAACTCAACGAGTTCGGACGTTCGCATCCATAAGT
1 GAACTCGAACTCAACTCAACGAGTTCGGACGTTCGCATCCATAAGT
* * * ** * *
94241506 GAACTCGAACTCCACTCAATGAGCTCGGATGCCTAGTT-AAAT-C-TCA-C
1 GAACTCGAACTCAACTCAACGAGTTCGGA---C--GTTCGCATCCATAAGT
*
94241553 GAACTCGGACTCAACTCAACGAGTTCGGACGTTCGCATCCATAAGT
1 GAACTCGAACTCAACTCAACGAGTTCGGACGTTCGCATCCATAAGT
* * *
94241599 GAACTCGAACTCCACTCAATGAGTCCGGA
1 GAACTCGAACTCAACTCAACGAGTTCGGA
94241628 TGCCTAAATA
Statistics
Matches: 93, Mismatches: 20, Indels: 18
0.71 0.15 0.14
Matches are distributed among these distances:
42 3 0.03
43 2 0.02
44 2 0.02
45 2 0.02
46 50 0.54
47 25 0.27
48 2 0.02
49 2 0.02
50 2 0.02
51 3 0.03
ACGTcount: A:0.29, C:0.29, G:0.20, T:0.21
Consensus pattern (46 bp):
GAACTCGAACTCAACTCAACGAGTTCGGACGTTCGCATCCATAAGT
Found at i:94243875 original size:15 final size:15
Alignment explanation
Indices: 94243810--94243878 Score: 79
Period size: 15 Copynumber: 4.7 Consensus size: 15
94243800 TAAAGATAAC
*
94243810 AAGAAAACC-GAATA
1 AAGAAATCCAGAATA
94243824 AAGAAATCCA-AGATA
1 AAGAAATCCAGA-ATA
* * *
94243839 GAGAAACCCAGAAAA
1 AAGAAATCCAGAATA
94243854 AAGAAATCCAGAATA
1 AAGAAATCCAGAATA
94243869 AAGAAATCCA
1 AAGAAATCCA
94243879 AGATATGATA
Statistics
Matches: 45, Mismatches: 7, Indels: 5
0.79 0.12 0.09
Matches are distributed among these distances:
14 9 0.20
15 35 0.78
16 1 0.02
ACGTcount: A:0.61, C:0.16, G:0.14, T:0.09
Consensus pattern (15 bp):
AAGAAATCCAGAATA
Found at i:94246929 original size:47 final size:47
Alignment explanation
Indices: 94246860--94247033 Score: 205
Period size: 47 Copynumber: 3.7 Consensus size: 47
94246850 CGCCCATAAG
94246860 CGAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTTACATCTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTTACATCTCA
* * * * *
94246907 CGAACTCAGACTCAACTCAACGAGTTC--A-GAC--GTTCGCATCCATAA
1 CGAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTT-ACAT-C-TCA
* *
94246952 GTGAACTCGGACTCCACTCAACGAGCTCGGATGCCTAGTTACATCTCA
1 -CGAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTTACATCTCA
*
94247000 CGAACTCGGACTCAACTCAACGAGTTCGGATGCC
1 CGAACTCGGACTCAACTCAACGAGCTCGGATGCC
94247034 CAAATATCTG
Statistics
Matches: 103, Mismatches: 15, Indels: 18
0.76 0.11 0.13
Matches are distributed among these distances:
42 3 0.03
43 3 0.03
44 3 0.03
45 3 0.03
46 23 0.22
47 56 0.54
48 3 0.03
49 3 0.03
50 3 0.03
51 3 0.03
ACGTcount: A:0.28, C:0.32, G:0.20, T:0.21
Consensus pattern (47 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTTACATCTCA
Found at i:94247012 original size:93 final size:93
Alignment explanation
Indices: 94246853--94247026 Score: 321
Period size: 93 Copynumber: 1.9 Consensus size: 93
94246843 TGTAACCCGC
94246853 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTTACATCTCACGAACTCAGAC
1 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTTACATCTCACGAACTCAGAC
94246918 TCAACTCAACGAGTTCAGACGTTCGCAT
66 TCAACTCAACGAGTTCAGACGTTCGCAT
* * *
94246946 CCATAAGTGAACTCGGACTCCACTCAACGAGCTCGGATGCCTAGTTACATCTCACGAACTCGGAC
1 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTTACATCTCACGAACTCAGAC
94247011 TCAACTCAACGAGTTC
66 TCAACTCAACGAGTTC
94247027 GGATGCCCAA
Statistics
Matches: 78, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 78 1.00
ACGTcount: A:0.29, C:0.32, G:0.18, T:0.21
Consensus pattern (93 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTTACATCTCACGAACTCAGAC
TCAACTCAACGAGTTCAGACGTTCGCAT
Found at i:94254160 original size:15 final size:15
Alignment explanation
Indices: 94254132--94254166 Score: 54
Period size: 15 Copynumber: 2.3 Consensus size: 15
94254122 TCCATTTTCT
94254132 TTATTCTTTCTTTTA
1 TTATTCTTTCTTTTA
94254147 TTATT-TTTCATTTTA
1 TTATTCTTTC-TTTTA
94254162 TTATT
1 TTATT
94254167 ATAACATAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 4 0.21
15 15 0.79
ACGTcount: A:0.17, C:0.09, G:0.00, T:0.74
Consensus pattern (15 bp):
TTATTCTTTCTTTTA
Found at i:94262482 original size:17 final size:19
Alignment explanation
Indices: 94262461--94262577 Score: 70
Period size: 19 Copynumber: 6.2 Consensus size: 19
94262451 ATTATATAAC
94262461 ATTTATTATATT-TTTATT
1 ATTTATTATATTATTTATT
94262479 -TTTATTCTATATTATTTATT
1 ATTTA-T-TATATTATTTATT
*
94262499 ATTT-TTATAGGTTATATA-T
1 ATTTATTATA--TTATTTATT
* *
94262518 A-TCA-TATATTATCTATT
1 ATTTATTATATTATTTATT
94262535 ATATTATT-TATGT-TTATATT
1 AT-TTATTATAT-TATT-TATT
* *
94262555 ATTCATTATATTATTTATA
1 ATTTATTATATTATTTATT
94262574 ATTT
1 ATTT
94262578 TAAAATTTGT
Statistics
Matches: 76, Mismatches: 8, Indels: 29
0.67 0.07 0.26
Matches are distributed among these distances:
16 6 0.08
17 6 0.08
18 10 0.13
19 26 0.34
20 25 0.33
21 3 0.04
ACGTcount: A:0.31, C:0.03, G:0.03, T:0.63
Consensus pattern (19 bp):
ATTTATTATATTATTTATT
Found at i:94262483 original size:31 final size:30
Alignment explanation
Indices: 94262447--94262504 Score: 80
Period size: 31 Copynumber: 1.9 Consensus size: 30
94262437 TTAAAATATA
94262447 TTTTATTATATAACATTTATTATATTTTTAT
1 TTTTATTATATAACATTTATTAT-TTTTTAT
* **
94262478 TTTTATTCTATATTATTTATTATTTTT
1 TTTTATTATATAACATTTATTATTTTT
94262505 ATAGGTTATA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
30 4 0.17
31 20 0.83
ACGTcount: A:0.28, C:0.03, G:0.00, T:0.69
Consensus pattern (30 bp):
TTTTATTATATAACATTTATTATTTTTTAT
Found at i:94274512 original size:40 final size:41
Alignment explanation
Indices: 94274459--94274555 Score: 117
Period size: 44 Copynumber: 2.3 Consensus size: 41
94274449 TTTATGTTAA
*
94274459 AGCAAATCTAAGAT-GATTTGGCATCTCTATATTGGC-GGAG
1 AGCAAATCGAAGATAGATTTGGCATCTCTATATTGGCAGG-G
*
94274499 AGCAAATCGAAGATACCAGATTTGGCATCTCTGTATTGGCAGGG
1 AGCAAATCGAAGAT---AGATTTGGCATCTCTATATTGGCAGGG
*
94274543 AGCAGATCGAAGA
1 AGCAAATCGAAGA
94274556 CATAGCTGAT
Statistics
Matches: 49, Mismatches: 3, Indels: 6
0.84 0.05 0.10
Matches are distributed among these distances:
40 13 0.27
44 34 0.69
45 2 0.04
ACGTcount: A:0.32, C:0.16, G:0.27, T:0.25
Consensus pattern (41 bp):
AGCAAATCGAAGATAGATTTGGCATCTCTATATTGGCAGGG
Found at i:94275242 original size:13 final size:13
Alignment explanation
Indices: 94275224--94275250 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
94275214 GCCATCAACA
94275224 CCGTGATTCCAGG
1 CCGTGATTCCAGG
94275237 CCGTGATTCCAGG
1 CCGTGATTCCAGG
94275250 C
1 C
94275251 TTCAAATCAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.15, C:0.33, G:0.30, T:0.22
Consensus pattern (13 bp):
CCGTGATTCCAGG
Found at i:94276211 original size:3 final size:3
Alignment explanation
Indices: 94276203--94276384 Score: 85
Period size: 3 Copynumber: 59.3 Consensus size: 3
94276193 CCCTATATGT
*
94276203 TTA TTA TTA TTA TTA TTA TTA TATA TTTA TATA TTA TTAA TTG TT- TTA
1 TTA TTA TTA TTA TTA TTA TTA T-TA -TTA T-TA TTA TT-A TTA TTA TTA
* * **
94276251 TTG TTA -TA CCTTA TTT TTA -TA TTA TATA TTA -TA AAA TTA TT- TTA
1 TTA TTA TTA --TTA TTA TTA TTA TTA T-TA TTA TTA TTA TTA TTA TTA
* * *
94276295 TTA TATA TTA TT- TATA TTA TTA TTTA TTA TGTT TTA TTT TTCA CTAA
1 TTA T-TA TTA TTA T-TA TTA TTA -TTA TTA T-TA TTA TTA TT-A -TTA
* * *
94276342 TTA TTA TTA TTA TT- TTA -CA TTA TCA TTT TTA -TA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
94276385 ATTTTTACTT
Statistics
Matches: 137, Mismatches: 20, Indels: 44
0.68 0.10 0.22
Matches are distributed among these distances:
2 16 0.12
3 94 0.69
4 23 0.17
5 4 0.03
ACGTcount: A:0.32, C:0.03, G:0.02, T:0.63
Consensus pattern (3 bp):
TTA
Found at i:94276298 original size:16 final size:16
Alignment explanation
Indices: 94276270--94276314 Score: 56
Period size: 16 Copynumber: 2.8 Consensus size: 16
94276260 CTTATTTTTA
94276270 TATTATATATTATAAAAT
1 TATT-TATATTAT-AAAT
*
94276288 TATTT-TATTATATAT
1 TATTTATATTATAAAT
94276303 TATTTATATTAT
1 TATTTATATTAT
94276315 TATTTATTAT
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
15 8 0.32
16 12 0.48
17 1 0.04
18 4 0.16
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (16 bp):
TATTTATATTATAAAT
Found at i:94276321 original size:23 final size:23
Alignment explanation
Indices: 94276262--94276321 Score: 68
Period size: 23 Copynumber: 2.6 Consensus size: 23
94276252 TGTTATACCT
*
94276262 TATTTTTATATTATATATTATAA
1 TATTATTATATTATATATTATAA
* * *
94276285 AATTATTTTATTATATATTATTTA
1 TATTATTATATTATATATTA-TAA
94276309 TATTATTAT-TTAT
1 TATTATTATATTAT
94276322 TATGTTTTAT
Statistics
Matches: 30, Mismatches: 6, Indels: 2
0.79 0.16 0.05
Matches are distributed among these distances:
23 21 0.70
24 9 0.30
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (23 bp):
TATTATTATATTATATATTATAA
Found at i:94276544 original size:17 final size:19
Alignment explanation
Indices: 94276523--94276631 Score: 61
Period size: 20 Copynumber: 5.7 Consensus size: 19
94276513 ATTATATAAC
94276523 ATTTATTATATT-TTTATT
1 ATTTATTATATTATTTATT
94276541 -TTTATTCTATATTATTTATT
1 ATTTA-T-TATATTATTTATT
*
94276561 ATTT-TTATAGGTTATATA-T
1 ATTTATTATA--TTATTTATT
* *
94276580 A-TCATTATATTATCTATT
1 ATTTATTATATTATTTATT
*
94276598 ATATTATT-TACGTT-TATATT
1 AT-TTATTATA--TTATTTATT
*
94276618 ATTCATTATATTAT
1 ATTTATTATATTAT
94276632 CTATAATTTT
Statistics
Matches: 71, Mismatches: 6, Indels: 27
0.68 0.06 0.26
Matches are distributed among these distances:
17 10 0.14
18 10 0.14
19 21 0.30
20 25 0.35
21 5 0.07
ACGTcount: A:0.30, C:0.05, G:0.03, T:0.62
Consensus pattern (19 bp):
ATTTATTATATTATTTATT
Found at i:94276545 original size:31 final size:30
Alignment explanation
Indices: 94276509--94276566 Score: 80
Period size: 31 Copynumber: 1.9 Consensus size: 30
94276499 TTAAAATATA
94276509 TTTTATTATATAACATTTATTATATTTTTAT
1 TTTTATTATATAACATTTATTAT-TTTTTAT
* **
94276540 TTTTATTCTATATTATTTATTATTTTT
1 TTTTATTATATAACATTTATTATTTTT
94276567 ATAGGTTATA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
30 4 0.17
31 20 0.83
ACGTcount: A:0.28, C:0.03, G:0.00, T:0.69
Consensus pattern (30 bp):
TTTTATTATATAACATTTATTATTTTTTAT
Found at i:94276589 original size:12 final size:12
Alignment explanation
Indices: 94276572--94276635 Score: 60
Period size: 12 Copynumber: 5.1 Consensus size: 12
94276562 TTTTTATAGG
94276572 TTATATATATC-A
1 TTATAT-TATCTA
94276584 TTATATTATCTA
1 TTATATTATCTA
*
94276596 TTATATTATTTA
1 TTATATTATCTA
94276608 CGTTTATATTAT-TCA
1 ---TTATATTATCT-A
94276623 TTATATTATCTA
1 TTATATTATCTA
94276635 T
1 T
94276636 AATTTTAAAA
Statistics
Matches: 45, Mismatches: 1, Indels: 12
0.78 0.02 0.21
Matches are distributed among these distances:
11 4 0.09
12 29 0.64
13 1 0.02
14 1 0.02
15 10 0.22
ACGTcount: A:0.33, C:0.08, G:0.02, T:0.58
Consensus pattern (12 bp):
TTATATTATCTA
Found at i:94276626 original size:39 final size:37
Alignment explanation
Indices: 94276548--94276641 Score: 111
Period size: 39 Copynumber: 2.5 Consensus size: 37
94276538 ATTTTTATTC
*
94276548 TATATTATTTATTATTTTTATAGGTTATATATATCAT
1 TATATTATCTATTATTTTTATAGGTTATATATATCAT
*
94276585 TATATTATCTATTATATTATT-TACGTT-TATATTATTCAT
1 TATATTATCTATTAT-TT-TTATAGGTTATATA-TA-TCAT
*
94276624 TATATTATCTATAATTTT
1 TATATTATCTATTATTTT
94276642 AAAATTTGTA
Statistics
Matches: 50, Mismatches: 3, Indels: 8
0.82 0.05 0.13
Matches are distributed among these distances:
37 19 0.38
38 11 0.22
39 20 0.40
ACGTcount: A:0.32, C:0.05, G:0.03, T:0.60
Consensus pattern (37 bp):
TATATTATCTATTATTTTTATAGGTTATATATATCAT
Found at i:94278247 original size:41 final size:42
Alignment explanation
Indices: 94278190--94278330 Score: 200
Period size: 41 Copynumber: 3.4 Consensus size: 42
94278180 ACATAAAATT
* *
94278190 TGCTAGGC-ATAAAGCCT-AGTATAATACACCAGCACAGAGCC
1 TGCTAGGCAATAAAGCCTGA-TATAATACACCGGCACAAAGCC
94278231 TGCTAGGCAAT-AAGCCTGATATAATACACCGGCACAAAGCC
1 TGCTAGGCAATAAAGCCTGATATAATACACCGGCACAAAGCC
*
94278272 TGCTAGGCAAT-AAGCCTGATTTAATACACCGGCACAAAGCC
1 TGCTAGGCAATAAAGCCTGATATAATACACCGGCACAAAGCC
**
94278313 TGCTAACCAATAAAGCCT
1 TGCTAGGCAATAAAGCCT
94278331 AAATATCGCT
Statistics
Matches: 92, Mismatches: 5, Indels: 5
0.90 0.05 0.05
Matches are distributed among these distances:
41 83 0.90
42 9 0.10
ACGTcount: A:0.36, C:0.27, G:0.18, T:0.18
Consensus pattern (42 bp):
TGCTAGGCAATAAAGCCTGATATAATACACCGGCACAAAGCC
Found at i:94284880 original size:41 final size:41
Alignment explanation
Indices: 94284835--94284922 Score: 115
Period size: 43 Copynumber: 2.1 Consensus size: 41
94284825 TAAAGCCTAG
*
94284835 TATAATACACCGGC-ACAGAGCCTGCTAGGCAATAACCCTGA
1 TATAATACACCGGCAACAAAGCCTGCTAGGCAAT-ACCCTGA
* * *
94284876 TATAATACACCGGCATATAAAGCCTGCTAGGTAATAGCCTGA
1 TATAATACACCGGCA-ACAAAGCCTGCTAGGCAATACCCTGA
94284918 TATAA
1 TATAA
94284923 AGTCTGCTAG
Statistics
Matches: 41, Mismatches: 4, Indels: 3
0.85 0.08 0.06
Matches are distributed among these distances:
41 14 0.34
42 11 0.27
43 16 0.39
ACGTcount: A:0.36, C:0.24, G:0.18, T:0.22
Consensus pattern (41 bp):
TATAATACACCGGCAACAAAGCCTGCTAGGCAATACCCTGA
Found at i:94285348 original size:42 final size:42
Alignment explanation
Indices: 94285289--94285372 Score: 168
Period size: 42 Copynumber: 2.0 Consensus size: 42
94285279 CGATCCAAAT
94285289 CCGAATTCCACTTTTGCCAATCTAATTAATATCAAAATTAAC
1 CCGAATTCCACTTTTGCCAATCTAATTAATATCAAAATTAAC
94285331 CCGAATTCCACTTTTGCCAATCTAATTAATATCAAAATTAAC
1 CCGAATTCCACTTTTGCCAATCTAATTAATATCAAAATTAAC
94285373 TCACTTATTC
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
42 42 1.00
ACGTcount: A:0.38, C:0.24, G:0.05, T:0.33
Consensus pattern (42 bp):
CCGAATTCCACTTTTGCCAATCTAATTAATATCAAAATTAAC
Found at i:94289360 original size:17 final size:16
Alignment explanation
Indices: 94289335--94289485 Score: 103
Period size: 17 Copynumber: 9.3 Consensus size: 16
94289325 TATAAAAACA
94289335 ATATATTATTTTTAATT
1 ATATATTATTTTT-ATT
*
94289352 ATATGTTATTTTTATT
1 ATATATTATTTTTATT
* *
94289368 ATTTA-TA-TTTCATT
1 ATATATTATTTTTATT
*
94289382 ATATTTTATATTTTATT
1 ATATATTAT-TTTTATT
* *
94289399 ACATATCATATTTTATT
1 ATATATTAT-TTTTATT
94289416 ATATATTATTTCTTA-T
1 ATATATTATTT-TTATT
* **
94289432 ATTATCTTCCTTTTATT
1 A-TATATTATTTTTATT
**
94289449 ATATATTA-TTACATT
1 ATATATTATTTTTATT
* *
94289464 ATTTATTATTTATTAGT
1 ATATATTATTT-TTATT
94289481 ATATA
1 ATATA
94289486 AAAATTAAAA
Statistics
Matches: 102, Mismatches: 24, Indels: 16
0.72 0.17 0.11
Matches are distributed among these distances:
14 9 0.09
15 16 0.16
16 20 0.20
17 57 0.56
ACGTcount: A:0.31, C:0.05, G:0.01, T:0.62
Consensus pattern (16 bp):
ATATATTATTTTTATT
Found at i:94289361 original size:20 final size:19
Alignment explanation
Indices: 94289338--94289389 Score: 52
Period size: 20 Copynumber: 2.6 Consensus size: 19
94289328 AAAAACAATA
94289338 TATTATTTTTAATTATATGT
1 TATTATTTTTAATTATAT-T
*
94289358 TATT-TTTATTATTTATATT
1 TATTATTT-TTAATTATATT
94289377 TCATTATATTTTA
1 T-ATTAT-TTTTA
94289390 TATTTTATTA
Statistics
Matches: 27, Mismatches: 1, Indels: 7
0.77 0.03 0.20
Matches are distributed among these distances:
19 5 0.19
20 16 0.59
21 4 0.15
22 2 0.07
ACGTcount: A:0.29, C:0.02, G:0.02, T:0.67
Consensus pattern (19 bp):
TATTATTTTTAATTATATT
Found at i:94289372 original size:7 final size:7
Alignment explanation
Indices: 94289338--94289478 Score: 53
Period size: 7 Copynumber: 19.7 Consensus size: 7
94289328 AAAAACAATA
94289338 TATTATT
1 TATTATT
*
94289345 T-TTAAT
1 TATTATT
94289351 TA-TATGT
1 TATTAT-T
94289358 TATT-TT
1 TATTATT
94289364 TATTATT
1 TATTATT
94289371 TA-TATT
1 TATTATT
94289377 TCATTATAT
1 T-ATTAT-T
*
94289386 TTTATATTT
1 TAT-TA-TT
**
94289395 TATTACA
1 TATTATT
94289402 TATCATATTT
1 TAT--TA-TT
*
94289412 TATTATA
1 TATTATT
94289419 TATTATT
1 TATTATT
*
94289426 TCTTA--
1 TATTATT
94289431 TATTATCT
1 TATTAT-T
**
94289439 TCCT-TT
1 TATTATT
*
94289445 TATTATA
1 TATTATT
94289452 TATTATT
1 TATTATT
*
94289459 ACATTATT
1 -TATTATT
94289467 TATTATT
1 TATTATT
94289474 TATTA
1 TATTA
94289479 GTATATAAAA
Statistics
Matches: 97, Mismatches: 20, Indels: 34
0.64 0.13 0.23
Matches are distributed among these distances:
5 4 0.04
6 20 0.21
7 43 0.44
8 17 0.18
9 9 0.09
10 4 0.04
ACGTcount: A:0.30, C:0.06, G:0.01, T:0.64
Consensus pattern (7 bp):
TATTATT
Found at i:94289388 original size:24 final size:24
Alignment explanation
Indices: 94289357--94289434 Score: 83
Period size: 24 Copynumber: 3.3 Consensus size: 24
94289347 TAATTATATG
94289357 TTAT-TTTTATTATTTATATTTCA
1 TTATATTTTATTATTTATATTTCA
*
94289380 TTATATTTTA-TATTT-TATTACA
1 TTATATTTTATTATTTATATTTCA
*
94289402 TATCATATTTTATTATATATTATTTC-
1 T-T-ATATTTTATTATTTA-TATTTCA
94289428 TTATATT
1 TTATATT
94289435 ATCTTCCTTT
Statistics
Matches: 46, Mismatches: 3, Indels: 11
0.77 0.05 0.18
Matches are distributed among these distances:
22 7 0.15
23 10 0.22
24 18 0.39
25 5 0.11
26 1 0.02
27 5 0.11
ACGTcount: A:0.29, C:0.05, G:0.00, T:0.65
Consensus pattern (24 bp):
TTATATTTTATTATTTATATTTCA
Found at i:94301657 original size:44 final size:44
Alignment explanation
Indices: 94301594--94302384 Score: 927
Period size: 44 Copynumber: 18.1 Consensus size: 44
94301584 ACCAATAGTC
* * * * * *
94301594 GATTTGGCGTCTTTGTATTGTCAGAAAACAGATCGAAGATAGTA
1 GATTTGGCATCTCTGTATTGCCAGAGAGCAGATCGAAGATAGCA
* *
94301638 GATTTGGCATCTCTATATTGCCAGAGAGCAGATCGAAGATACCA
1 GATTTGGCATCTCTGTATTGCCAGAGAGCAGATCGAAGATAGCA
* *
94301682 GATTTGGCATCTCCGTATTGCCAGAGAGCAGATCAAAGATAGCA
1 GATTTGGCATCTCTGTATTGCCAGAGAGCAGATCGAAGATAGCA
** * *
94301726 GATTTGGCATCTCCATATTGCCGGAGAGCAGATCGAAGATAACA
1 GATTTGGCATCTCTGTATTGCCAGAGAGCAGATCGAAGATAGCA
* * **
94301770 GATTTGGCATCTCTGTATTGCCAGAGAGTAGATCAAAGATAGTG
1 GATTTGGCATCTCTGTATTGCCAGAGAGCAGATCGAAGATAGCA
** * * *
94301814 GATTTGGCATCTCCATATTACCGGAGAGCAGATCGAAGATAACA
1 GATTTGGCATCTCTGTATTGCCAGAGAGCAGATCGAAGATAGCA
94301858 GATTTGG-AGTCTCTGTATTGCCAGAGAGCAGATCGAAGATAGCA
1 GATTTGGCA-TCTCTGTATTGCCAGAGAGCAGATCGAAGATAGCA
*
94301902 GATTTGGCATCTCTGTATTGCTAGAGAGCAGATCGAAGATAGCA
1 GATTTGGCATCTCTGTATTGCCAGAGAGCAGATCGAAGATAGCA
* * *
94301946 GATTTGGCGTCTCTGTATTGCCGGAGAGCAGATCGAAGATAACA
1 GATTTGGCATCTCTGTATTGCCAGAGAGCAGATCGAAGATAGCA
* * *
94301990 GATTTGGCGTCTCTGTATAGCCAAAGAGCAGATCGAAGATAGCA
1 GATTTGGCATCTCTGTATTGCCAGAGAGCAGATCGAAGATAGCA
* *
94302034 GATTTGGCATC-CTTGTATTGCCAGAGAGCAGATCAAAGATAACA
1 GATTTGGCATCTC-TGTATTGCCAGAGAGCAGATCGAAGATAGCA
* ** * * *
94302078 AATTTGGTGTCTCTGTATTACTAGAGAGCAGATCGAAGATAACA
1 GATTTGGCATCTCTGTATTGCCAGAGAGCAGATCGAAGATAGCA
* * *
94302122 GATTTGGCGTCTCTGTATTACCAGAGAGCAAATCGAAGATAGCA
1 GATTTGGCATCTCTGTATTGCCAGAGAGCAGATCGAAGATAGCA
*
94302166 GATTTGGCATCTCTGTATTGTC--AGAG-AG--C--AGATAGCA
1 GATTTGGCATCTCTGTATTGCCAGAGAGCAGATCGAAGATAGCA
* ** * * * * **
94302203 GATTTGGCATCCCCATATTGCCGGAGAACAAATTGAAGATAATA
1 GATTTGGCATCTCTGTATTGCCAGAGAGCAGATCGAAGATAGCA
* * * *
94302247 GATTTAGCGTCTCTGCATTGCCAGAGAGCAGATCGAAGATAGTA
1 GATTTGGCATCTCTGTATTGCCAGAGAGCAGATCGAAGATAGCA
* *
94302291 GATTTGGCATCTTTGTATT-CTCAGAGAGCAGATCGAAGATAGTA
1 GATTTGGCATCTCTGTATTGC-CAGAGAGCAGATCGAAGATAGCA
* * * * *
94302335 GGTTTGGCACCTCCGTATTGTCAGAGAGCAGATCAAAGATAGCA
1 GATTTGGCATCTCTGTATTGCCAGAGAGCAGATCGAAGATAGCA
94302379 GATTTG
1 GATTTG
94302385 ATATTCCTGA
Statistics
Matches: 635, Mismatches: 99, Indels: 26
0.84 0.13 0.03
Matches are distributed among these distances:
37 26 0.04
39 4 0.01
40 1 0.00
41 1 0.00
42 4 0.01
43 3 0.00
44 594 0.94
45 2 0.00
ACGTcount: A:0.31, C:0.17, G:0.26, T:0.26
Consensus pattern (44 bp):
GATTTGGCATCTCTGTATTGCCAGAGAGCAGATCGAAGATAGCA
Found at i:94308597 original size:36 final size:36
Alignment explanation
Indices: 94308550--94308621 Score: 144
Period size: 36 Copynumber: 2.0 Consensus size: 36
94308540 AGTTTATTTG
94308550 GTTTATTCACACTCTGGTTTTTGTAAGGTTTGATCT
1 GTTTATTCACACTCTGGTTTTTGTAAGGTTTGATCT
94308586 GTTTATTCACACTCTGGTTTTTGTAAGGTTTGATCT
1 GTTTATTCACACTCTGGTTTTTGTAAGGTTTGATCT
94308622 CACTAAGGTT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 36 1.00
ACGTcount: A:0.17, C:0.14, G:0.19, T:0.50
Consensus pattern (36 bp):
GTTTATTCACACTCTGGTTTTTGTAAGGTTTGATCT
Found at i:94312819 original size:15 final size:15
Alignment explanation
Indices: 94312799--94312867 Score: 84
Period size: 15 Copynumber: 4.6 Consensus size: 15
94312789 GTATCTTGGG
94312799 TTTCTTTATCCTGGA
1 TTTCTTTATCCTGGA
* *
94312814 TCTCTTTATTCTGGA
1 TTTCTTTATCCTGGA
* *
94312829 TTTCTTTATTCTGGG
1 TTTCTTTATCCTGGA
* *
94312844 TTTCTCTATCTTGGA
1 TTTCTTTATCCTGGA
94312859 TTTCTTTAT
1 TTTCTTTAT
94312868 TCGGTTTTCT
Statistics
Matches: 45, Mismatches: 9, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
15 45 1.00
ACGTcount: A:0.12, C:0.17, G:0.13, T:0.58
Consensus pattern (15 bp):
TTTCTTTATCCTGGA
Found at i:94312868 original size:30 final size:30
Alignment explanation
Indices: 94312790--94312877 Score: 99
Period size: 30 Copynumber: 3.0 Consensus size: 30
94312780 CATAGTATCG
* * * *
94312790 TATCTTGGGTTTCTTTATCCTGGATCTCTT
1 TATCTTGGATTTCTTTATTCTGGATTTCTC
*
94312820 TAT-TCTGGATTTCTTTATTCTGGGTTTCTC
1 TATCT-TGGATTTCTTTATTCTGGATTTCTC
*
94312850 TATCTTGGATTTCTTTATTC-GGTTTTCT
1 TATCTTGGATTTCTTTATTCTGGATTTCT
94312878 TGTTATCTTT
Statistics
Matches: 50, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
29 8 0.16
30 41 0.82
31 1 0.02
ACGTcount: A:0.10, C:0.17, G:0.16, T:0.57
Consensus pattern (30 bp):
TATCTTGGATTTCTTTATTCTGGATTTCTC
Found at i:94315317 original size:46 final size:45
Alignment explanation
Indices: 94315264--94315439 Score: 212
Period size: 46 Copynumber: 3.8 Consensus size: 45
94315254 TATTTGGGCA
94315264 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-G
*** * *
94315310 TCCGAACTCGTTGAGTTGAGTCCGAGTTCGAGAGATGTAACTAG-GCA-
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-ACTTATG-GA-T-GCGAAG
*
94315357 TCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-G
* *
94315403 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
94315440 GCGGGTTACA
Statistics
Matches: 111, Mismatches: 12, Indels: 14
0.81 0.09 0.10
Matches are distributed among these distances:
43 1 0.01
44 3 0.03
45 1 0.01
46 69 0.62
47 32 0.29
48 1 0.01
49 3 0.03
50 1 0.01
ACGTcount: A:0.21, C:0.21, G:0.30, T:0.28
Consensus pattern (45 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAG
Found at i:94315419 original size:93 final size:93
Alignment explanation
Indices: 94315260--94315431 Score: 308
Period size: 93 Copynumber: 1.8 Consensus size: 93
94315250 AGGATATTTG
* *
94315260 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
94315325 TTGAGTCCGAGTTCGAGAGATGTAACTA
66 TTGAGTCCGAGTTCGAGAGATGTAACTA
* *
94315353 GGCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
94315418 TTGAGTCCGAGTTC
66 TTGAGTCCGAGTTC
94315432 ACTTATGGGC
Statistics
Matches: 75, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.21, C:0.22, G:0.30, T:0.27
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
TTGAGTCCGAGTTCGAGAGATGTAACTA
Found at i:94322246 original size:19 final size:19
Alignment explanation
Indices: 94322222--94322259 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
94322212 AAAATTCTAA
94322222 AATTTAAAATAAAAATATT
1 AATTTAAAATAAAAATATT
* *
94322241 AATTTAATATAAAATTATT
1 AATTTAAAATAAAAATATT
94322260 GAAAAAATAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (19 bp):
AATTTAAAATAAAAATATT
Found at i:94323493 original size:30 final size:30
Alignment explanation
Indices: 94323459--94323519 Score: 122
Period size: 30 Copynumber: 2.0 Consensus size: 30
94323449 TATAGGCACA
94323459 TTAAAGTTGGAAGGGATAAATGAAGCTAAG
1 TTAAAGTTGGAAGGGATAAATGAAGCTAAG
94323489 TTAAAGTTGGAAGGGATAAATGAAGCTAAG
1 TTAAAGTTGGAAGGGATAAATGAAGCTAAG
94323519 T
1 T
94323520 ATGATGTAAA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.43, C:0.03, G:0.30, T:0.25
Consensus pattern (30 bp):
TTAAAGTTGGAAGGGATAAATGAAGCTAAG
Found at i:94323975 original size:19 final size:19
Alignment explanation
Indices: 94323937--94323976 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
94323927 TTTATTATTA
**
94323937 ATATATTTATAATTGTAAT
1 ATATATTTATAATTAAAAT
*
94323956 ATATATTTGTAATTAAAAT
1 ATATATTTATAATTAAAAT
94323975 AT
1 AT
94323977 TAATATATAT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.45, C:0.00, G:0.05, T:0.50
Consensus pattern (19 bp):
ATATATTTATAATTAAAAT
Found at i:94324028 original size:15 final size:16
Alignment explanation
Indices: 94324008--94324038 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
94323998 TATTTTAAAC
94324008 TTTAAAA-TTATTATT
1 TTTAAAATTTATTATT
94324023 TTTAAAATTTATTATT
1 TTTAAAATTTATTATT
94324039 AAAATAAAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 7 0.47
16 8 0.53
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (16 bp):
TTTAAAATTTATTATT
Found at i:94324103 original size:16 final size:16
Alignment explanation
Indices: 94324059--94324103 Score: 62
Period size: 13 Copynumber: 3.1 Consensus size: 16
94324049 CACAACATTA
94324059 AATAATTTATTAAA-T
1 AATAATTTATTAAATT
94324074 AATAATTTA-T--ATT
1 AATAATTTATTAAATT
94324087 AATAATTTATTAAATT
1 AATAATTTATTAAATT
94324103 A
1 A
94324104 TTAAATATAT
Statistics
Matches: 26, Mismatches: 0, Indels: 7
0.79 0.00 0.21
Matches are distributed among these distances:
12 1 0.04
13 10 0.38
14 2 0.08
15 9 0.35
16 4 0.15
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (16 bp):
AATAATTTATTAAATT
Found at i:94324112 original size:28 final size:29
Alignment explanation
Indices: 94324059--94324118 Score: 79
Period size: 28 Copynumber: 2.1 Consensus size: 29
94324049 CACAACATTA
*
94324059 AATAATTTATTAAATAATAATTTATAT-T
1 AATAATTTATTAAATAATAATATATATAT
*
94324087 AATAATTTATTAAATTATTAA-ATATATAT
1 AATAATTTATTAAA-TAATAATATATATAT
94324116 AAT
1 AAT
94324119 TAAATATGTA
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
28 19 0.68
29 9 0.32
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (29 bp):
AATAATTTATTAAATAATAATATATATAT
Found at i:94326494 original size:28 final size:28
Alignment explanation
Indices: 94326458--94326517 Score: 68
Period size: 28 Copynumber: 2.1 Consensus size: 28
94326448 TCCCCATGTT
*
94326458 AGATAGTCCCCA-CGGACTTCCACATTTA
1 AGATAGT-CCCAGCAGACTTCCACATTTA
* * *
94326486 AGATTGTCCTAGCAGACTTCCACATTTT
1 AGATAGTCCCAGCAGACTTCCACATTTA
94326514 AGAT
1 AGAT
94326518 CATCTTGACA
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
27 3 0.11
28 24 0.89
ACGTcount: A:0.28, C:0.27, G:0.15, T:0.30
Consensus pattern (28 bp):
AGATAGTCCCAGCAGACTTCCACATTTA
Found at i:94326529 original size:28 final size:28
Alignment explanation
Indices: 94326472--94326625 Score: 121
Period size: 28 Copynumber: 5.5 Consensus size: 28
94326462 AGTCCCCACG
* *
94326472 GACTTCCACATTTAAGATTGTCCT-AGCA
1 GACTTCCACATTTAAGATTATCTTGA-CA
* *
94326500 GACTTCCACATTTTAGATCATCTTGACA
1 GACTTCCACATTTAAGATTATCTTGACA
* * * **
94326528 GACTTTCGCATTTAAGATTATCCTGATG
1 GACTTCCACATTTAAGATTATCTTGACA
* * * *
94326556 GATTTCCACATTTAAGATCATCTTGGCG
1 GACTTCCACATTTAAGATTATCTTGACA
* * * * *
94326584 GGCTTCTACATTTTAGATTGTCTTAACA
1 GACTTCCACATTTAAGATTATCTTGACA
*
94326612 AACTTCCACATTTA
1 GACTTCCACATTTA
94326626 CAGTAATGCC
Statistics
Matches: 94, Mismatches: 31, Indels: 2
0.74 0.24 0.02
Matches are distributed among these distances:
28 93 0.99
29 1 0.01
ACGTcount: A:0.27, C:0.22, G:0.14, T:0.37
Consensus pattern (28 bp):
GACTTCCACATTTAAGATTATCTTGACA
Found at i:94326532 original size:56 final size:56
Alignment explanation
Indices: 94326472--94326625 Score: 159
Period size: 56 Copynumber: 2.8 Consensus size: 56
94326462 AGTCCCCACG
*
94326472 GACTTCCACATTTAAGATTGTCCTAGCAGACTTCCACATTTTAGATCATCTTGACA
1 GACTTCCACATTTAAGATTGTCCTAGCAGACTTCCACATTTAAGATCATCTTGACA
* * * * * *
94326528 GACTTTCGCATTTAAGATTATCCT-G-ATGGATTTCCACATTTAAGATCATCTTGGCG
1 GACTTCCACATTTAAGATTGTCCTAGCA--GACTTCCACATTTAAGATCATCTTGACA
* * * * * *
94326584 GGCTTCTACATTTTAGATTGTCTTAACAAACTTCCACATTTA
1 GACTTCCACATTTAAGATTGTCCTAGCAGACTTCCACATTTA
94326626 CAGTAATGCC
Statistics
Matches: 77, Mismatches: 17, Indels: 8
0.75 0.17 0.08
Matches are distributed among these distances:
54 1 0.01
55 1 0.01
56 74 0.96
58 1 0.01
ACGTcount: A:0.27, C:0.22, G:0.14, T:0.37
Consensus pattern (56 bp):
GACTTCCACATTTAAGATTGTCCTAGCAGACTTCCACATTTAAGATCATCTTGACA
Found at i:94335148 original size:19 final size:22
Alignment explanation
Indices: 94335120--94335160 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 22
94335110 CTTTGAATTA
94335120 GGGCACACGC-C-CGTGTGGAG
1 GGGCACACGCGCTCGTGTGGAG
94335140 GGGCA-ACGCGCTCGTGTGGAG
1 GGGCACACGCGCTCGTGTGGAG
94335161 ACTTGAACAT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 4 0.21
20 6 0.32
21 9 0.47
ACGTcount: A:0.15, C:0.27, G:0.46, T:0.12
Consensus pattern (22 bp):
GGGCACACGCGCTCGTGTGGAG
Found at i:94336508 original size:48 final size:47
Alignment explanation
Indices: 94336296--94336558 Score: 172
Period size: 48 Copynumber: 5.5 Consensus size: 47
94336286 TATAATGCCA
* *
94336296 ATGCCATGTCCCAGACATGGTCTTGCACTGGCTCATCCATCA-A-GT-T-G
1 ATGCCATGTCCCAGACATGGTCTTACACT-G-ACA-CCA-CATACGTGTCG
* * * * * *
94336343 ATGCTATGTCCCAAACATGGTCTTACACTGACTATCGAAAT-CGAGGCCG
1 ATGCCATGTCCCAGACATGGTCTTACACTGAC-A-CCACATACG-TGTCG
* * * * *
94336392 ACGCCATGTCCCATACATGGTCTTACACT-AGCTCTCACATATTCATGCCG
1 ATGCCATGTCCCAGACATGGTCTTACACTGA-CAC-CACATA--CGTGTCG
**
94336442 ATGTTATGTCCC-GAACATGGTCTTACACTGACACCACCATACGTGTCG
1 ATGCCATGTCCCAG-ACATGGTCTTACACTGACACCA-CATACGTGTCG
94336490 ATGCCATGTCCCAGACATGGTCTTACACTGACA-CATC-T-CGTAGTCG
1 ATGCCATGTCCCAGACATGGTCTTACACTGACACCA-CATACGT-GTCG
94336536 ATG-CATGTCCCAGACAT-GTCTTA
1 ATGCCATGTCCCAGACATGGTCTTA
94336559 TGCTAGCTCT
Statistics
Matches: 174, Mismatches: 26, Indels: 35
0.74 0.11 0.15
Matches are distributed among these distances:
44 6 0.03
45 19 0.11
46 14 0.08
47 30 0.17
48 38 0.22
49 31 0.18
50 34 0.20
51 2 0.01
ACGTcount: A:0.25, C:0.30, G:0.19, T:0.27
Consensus pattern (47 bp):
ATGCCATGTCCCAGACATGGTCTTACACTGACACCACATACGTGTCG
Found at i:94344087 original size:48 final size:49
Alignment explanation
Indices: 94343970--94344102 Score: 196
Period size: 48 Copynumber: 2.7 Consensus size: 49
94343960 CCATTAAGTT
* ** *
94343970 GATGCCATGTCCCAGACATGGTCTTACACTAGCTTCTACATATTCGTGCC
1 GATGCCATGTCCCAGACATGGTCTTACACTAACACCTACATA-TCATGCC
* *
94344020 GATGCCATGTCCCAAACATGGTCTTACACTAACACCTCCATA-CATGCC
1 GATGCCATGTCCCAGACATGGTCTTACACTAACACCTACATATCATGCC
94344068 GATGCCATGTCCCAGACATGGTCTTACACTAACAC
1 GATGCCATGTCCCAGACATGGTCTTACACTAACAC
94344103 ATCTCGTAGT
Statistics
Matches: 76, Mismatches: 7, Indels: 2
0.89 0.08 0.02
Matches are distributed among these distances:
48 39 0.51
50 37 0.49
ACGTcount: A:0.26, C:0.32, G:0.16, T:0.26
Consensus pattern (49 bp):
GATGCCATGTCCCAGACATGGTCTTACACTAACACCTACATATCATGCC
Found at i:94358155 original size:79 final size:78
Alignment explanation
Indices: 94358053--94358275 Score: 272
Period size: 79 Copynumber: 2.8 Consensus size: 78
94358043 GCTCCTCGTT
* *
94358053 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGG
1 CAAATGCCTTCGGG-CTTAGCCCGG-TATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGG
*
94358118 ATTTAGTAACTCGCA
64 AATTAGTAACTCGCA
* *
94358133 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCACAAATGCCTTCGGG-CTTAGCCCGGA
1 CAAATGCCTTCGGGCTTAGCCCGGTA-TAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGGA
*
94358197 ATTAGTATCTCGCA
65 ATTAGTAACTCGCA
* * * * *
94358211 CAAATGCCTTCGGATCTTAGTCCGGATATTGTCACTTAGCAC-AA-GCCTTCGGGACTTAGCCCG
1 CAAATGCCTTCGG-GCTTAGCCCGG-TATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGCCCG
94358274 GA
63 GA
94358276 CATCATTCAA
Statistics
Matches: 125, Mismatches: 13, Indels: 11
0.84 0.09 0.07
Matches are distributed among these distances:
78 45 0.36
79 60 0.48
80 20 0.16
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (78 bp):
CAAATGCCTTCGGGCTTAGCCCGGTATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGGAA
TTAGTAACTCGCA
Found at i:94358170 original size:39 final size:40
Alignment explanation
Indices: 94358053--94358275 Score: 280
Period size: 39 Copynumber: 5.7 Consensus size: 40
94358043 GCTCCTCGTT
* *
94358053 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAAT-TAGTAACTCGCA
* *
94358093 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCA
*
94358133 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCA
*
94358172 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCA
* * *
94358211 CAAATGCCTTC-GGATCTTAGTCCGGATATT-GTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGA-ATTAGTAAC-TCGCA
94358252 C-AA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
94358276 CATCATTCAA
Statistics
Matches: 167, Mismatches: 10, Indels: 13
0.88 0.05 0.07
Matches are distributed among these distances:
38 2 0.01
39 88 0.53
40 67 0.40
41 10 0.06
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCA
Found at i:94362715 original size:43 final size:42
Alignment explanation
Indices: 94362617--94362732 Score: 153
Period size: 43 Copynumber: 2.7 Consensus size: 42
94362607 AGGGTTACTA
* *
94362617 AGATTACGTGTAAGACCATACCTGGGATATGCCATCAATATG
1 AGATTACGTGTAAGACCATATCTGGGATATGACATCAATATG
* * *
94362659 AGACTT-CGTGTAAGACCATATCTGGGCTGTTGACATCGATATG
1 AGA-TTACGTGTAAGACCATATCTGGGAT-ATGACATCAATATG
*
94362702 AGATTACATGTAAGACCATATCTGGGATATG
1 AGATTACGTGTAAGACCATATCTGGGATATG
94362733 GCATTGGTAC
Statistics
Matches: 63, Mismatches: 8, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
42 27 0.43
43 36 0.57
ACGTcount: A:0.31, C:0.17, G:0.23, T:0.28
Consensus pattern (42 bp):
AGATTACGTGTAAGACCATATCTGGGATATGACATCAATATG
Found at i:94364079 original size:8 final size:8
Alignment explanation
Indices: 94364066--94364091 Score: 52
Period size: 8 Copynumber: 3.2 Consensus size: 8
94364056 AAGGGTGGAA
94364066 AAATGGCT
1 AAATGGCT
94364074 AAATGGCT
1 AAATGGCT
94364082 AAATGGCT
1 AAATGGCT
94364090 AA
1 AA
94364092 TTGTCTAGGA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 18 1.00
ACGTcount: A:0.42, C:0.12, G:0.23, T:0.23
Consensus pattern (8 bp):
AAATGGCT
Found at i:94367608 original size:38 final size:38
Alignment explanation
Indices: 94367556--94367678 Score: 151
Period size: 38 Copynumber: 3.2 Consensus size: 38
94367546 GGTCCTTAAC
* *
94367556 CCGGATATTTTTCCAGCACT-TAGCCTACGAACTTTAAGT
1 CCGGAT-TTATTCCAGCA-TATAGCCTGCGAACTTTAAGT
* *
94367595 CCGAATTTATTCCATCATATAGCCTGC-AGACTTTAAGT
1 CCGGATTTATTCCAGCATATAGCCTGCGA-ACTTTAAGT
* *
94367633 CCGGATTTATTCTAGCATATAGCCTGCGGACTTTAAGT
1 CCGGATTTATTCCAGCATATAGCCTGCGAACTTTAAGT
94367671 CCGGATTT
1 CCGGATTT
94367679 CTTGTTTTAC
Statistics
Matches: 73, Mismatches: 8, Indels: 7
0.83 0.09 0.08
Matches are distributed among these distances:
37 2 0.03
38 66 0.90
39 5 0.07
ACGTcount: A:0.25, C:0.24, G:0.17, T:0.34
Consensus pattern (38 bp):
CCGGATTTATTCCAGCATATAGCCTGCGAACTTTAAGT
Found at i:94374940 original size:39 final size:39
Alignment explanation
Indices: 94374897--94374999 Score: 97
Period size: 38 Copynumber: 2.7 Consensus size: 39
94374887 TACTAGCATG
* *
94374897 AGCCTGCGGGTCCTTAA-CCCGGATATTTTTCCAGCACT-T
1 AGCCTGCGGGACCTTAAGCCCGGAT-TTATTCCAGCA-TAT
* *
94374936 AGCCTGC-GGACTTTAAGTCCGGATTTATTCCAGCATAT
1 AGCCTGCGGGACCTTAAGCCCGGATTTATTCCAGCATAT
* * *
94374974 AGCCTGC-GGACTTTAAGTCTGGATTT
1 AGCCTGCGGGACCTTAAGCCCGGATTT
94375000 CTTCTTTTAC
Statistics
Matches: 57, Mismatches: 5, Indels: 5
0.85 0.07 0.07
Matches are distributed among these distances:
37 1 0.02
38 43 0.75
39 13 0.23
ACGTcount: A:0.20, C:0.25, G:0.22, T:0.32
Consensus pattern (39 bp):
AGCCTGCGGGACCTTAAGCCCGGATTTATTCCAGCATAT
Found at i:94374977 original size:38 final size:38
Alignment explanation
Indices: 94374915--94374999 Score: 127
Period size: 38 Copynumber: 2.2 Consensus size: 38
94374905 GGTCCTTAAC
*
94374915 CCGGATATTTTTCCAGCACTTAGCCTGCGGACTTTAAGT
1 CCGGAT-TTATTCCAGCACTTAGCCTGCGGACTTTAAGT
94374954 CCGGATTTATTCCAGCA-TATAGCCTGCGGACTTTAAGT
1 CCGGATTTATTCCAGCACT-TAGCCTGCGGACTTTAAGT
*
94374992 CTGGATTT
1 CCGGATTT
94375000 CTTCTTTTAC
Statistics
Matches: 43, Mismatches: 2, Indels: 3
0.90 0.04 0.06
Matches are distributed among these distances:
37 1 0.02
38 36 0.84
39 6 0.14
ACGTcount: A:0.21, C:0.24, G:0.21, T:0.34
Consensus pattern (38 bp):
CCGGATTTATTCCAGCACTTAGCCTGCGGACTTTAAGT
Found at i:94377622 original size:38 final size:38
Alignment explanation
Indices: 94377513--94377622 Score: 163
Period size: 38 Copynumber: 2.9 Consensus size: 38
94377503 TAACCCGGAT
*
94377513 ATTT-TTCCAGCACT-TAGCCTGCGGACTTTAAGTTCAG
1 ATTTATTCCAGCA-TATAGCCTGCGGACTTTAAGTCCAG
94377550 ATTTATTCCAGCATATAGCCTGCGGACTTTAAGTCC-G
1 ATTTATTCCAGCATATAGCCTGCGGACTTTAAGTCCAG
*
94377587 AATTTATTCTAGCATATAGCCTGCGGACTTTAAGTC
1 -ATTTATTCCAGCATATAGCCTGCGGACTTTAAGTC
94377623 TGGATTTCTT
Statistics
Matches: 68, Mismatches: 2, Indels: 5
0.91 0.03 0.07
Matches are distributed among these distances:
37 6 0.09
38 62 0.91
ACGTcount: A:0.25, C:0.23, G:0.18, T:0.35
Consensus pattern (38 bp):
ATTTATTCCAGCATATAGCCTGCGGACTTTAAGTCCAG
Found at i:94381629 original size:27 final size:27
Alignment explanation
Indices: 94381598--94381775 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
94381588 TAAATTGTAC
94381598 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
94381625 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
94381651 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
94381679 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
94381707 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
94381734 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
94381761 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
94381776 GACTCAATAT
Statistics
Matches: 129, Mismatches: 19, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 23 0.18
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:94381712 original size:82 final size:81
Alignment explanation
Indices: 94381599--94381754 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
94381589 AAATTGTACA
* *
94381599 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
94381663 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
94381680 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
94381745 TGCGAGTTGA
65 TGCGAATTGA
94381755 TTATATAGCA
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 15 0.22
82 51 0.76
83 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:94381766 original size:82 final size:81
Alignment explanation
Indices: 94381595--94381775 Score: 229
Period size: 82 Copynumber: 2.2 Consensus size: 81
94381585 GATTAAATTG
* *
94381595 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
94381660 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
94381676 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
94381740 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
94381758 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
94381776 GACTCAATAT
Statistics
Matches: 84, Mismatches: 14, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
81 18 0.21
82 66 0.79
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:94393305 original size:37 final size:37
Alignment explanation
Indices: 94393255--94393333 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
94393245 TTATTACGAA
* * *
94393255 GTCTTACCCGGACATAATCTCCACACGAAGTTATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
*
94393292 GTCTTACCCGGACAAAATCCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
94393329 GTCTT
1 GTCTT
94393334 TAGAGCTCGG
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.25, C:0.32, G:0.19, T:0.24
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
Found at i:94393845 original size:24 final size:23
Alignment explanation
Indices: 94393797--94393854 Score: 66
Period size: 24 Copynumber: 2.5 Consensus size: 23
94393787 TAATCAAACA
94393797 TTATTATATATATATCATATCATT
1 TTATTAT-TATATATCATATCATT
*
94393821 TTATTATTAT-TATCATTATTTATT
1 TTATTATTATATATCA-TA-TCATT
94393845 TTATT-TTATA
1 TTATTATTATA
94393855 CTTTTCAACT
Statistics
Matches: 30, Mismatches: 1, Indels: 6
0.81 0.03 0.16
Matches are distributed among these distances:
22 5 0.17
23 9 0.30
24 16 0.53
ACGTcount: A:0.33, C:0.05, G:0.00, T:0.62
Consensus pattern (23 bp):
TTATTATTATATATCATATCATT
Found at i:94411265 original size:29 final size:29
Alignment explanation
Indices: 94411208--94411317 Score: 127
Period size: 29 Copynumber: 3.9 Consensus size: 29
94411198 TACCTGTATC
* * * *
94411208 TGGCCCATTAAG-CCTAATCATATTCATA
1 TGGCCCATTAGGCCCAAATCACATTTATA
94411236 TGGCCCATTAGGCCCAAATCAC-TTGTATA
1 TGGCCCATTAGGCCCAAATCACATT-TATA
*
94411265 TGGCCAATTAGGCCCAAATCACATTTATA
1 TGGCCCATTAGGCCCAAATCACATTTATA
* *
94411294 TGGCCCGTTAGGCCC-AGTCACATT
1 TGGCCCATTAGGCCCAAATCACATT
94411318 CATAATCATG
Statistics
Matches: 71, Mismatches: 8, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
28 21 0.30
29 48 0.68
30 2 0.03
ACGTcount: A:0.28, C:0.27, G:0.16, T:0.28
Consensus pattern (29 bp):
TGGCCCATTAGGCCCAAATCACATTTATA
Found at i:94417607 original size:56 final size:56
Alignment explanation
Indices: 94417521--94417752 Score: 437
Period size: 56 Copynumber: 4.1 Consensus size: 56
94417511 ACAAGGGATG
94417521 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
1 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
*
94417577 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAGAATAAAATAAGAAGC
1 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
94417633 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
1 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
* *
94417689 ATGGGCAAAACATGTCATCAAACATGTTGTGTTAATGGAAGAATAAAATAAGAAGC
1 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
94417745 ATGGGCAA
1 ATGGGCAA
94417753 TAAACTAATA
Statistics
Matches: 172, Mismatches: 4, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
56 172 1.00
ACGTcount: A:0.45, C:0.09, G:0.22, T:0.23
Consensus pattern (56 bp):
ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
Found at i:94424448 original size:56 final size:56
Alignment explanation
Indices: 94424362--94424481 Score: 231
Period size: 56 Copynumber: 2.1 Consensus size: 56
94424352 ACAAGGGATG
94424362 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
1 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
*
94424418 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAGAATAAAATAAGAAGC
1 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
94424474 ATGGGCAA
1 ATGGGCAA
94424482 TAAACTAATA
Statistics
Matches: 63, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
56 63 1.00
ACGTcount: A:0.45, C:0.09, G:0.23, T:0.23
Consensus pattern (56 bp):
ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
Found at i:94429267 original size:18 final size:18
Alignment explanation
Indices: 94429244--94429279 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
94429234 TGTGTTATCA
94429244 GGTTGCTTACTGATTTTC
1 GGTTGCTTACTGATTTTC
94429262 GGTTGCTTACTGATTTTC
1 GGTTGCTTACTGATTTTC
94429280 TTTTCATATG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.11, C:0.17, G:0.22, T:0.50
Consensus pattern (18 bp):
GGTTGCTTACTGATTTTC
Found at i:94436423 original size:22 final size:22
Alignment explanation
Indices: 94436395--94436439 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 22
94436385 TGACGTAATG
94436395 TAGGAATATTCTGTAAATATTT
1 TAGGAATATTCTGTAAATATTT
* *
94436417 TAGGAATATTTTGTAGATATTT
1 TAGGAATATTCTGTAAATATTT
94436439 T
1 T
94436440 CTTTATTAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.33, C:0.02, G:0.16, T:0.49
Consensus pattern (22 bp):
TAGGAATATTCTGTAAATATTT
Found at i:94440201 original size:22 final size:22
Alignment explanation
Indices: 94440173--94440217 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 22
94440163 AGGGGGAGTG
94440173 TAGGAATATTCTGTAAATATTT
1 TAGGAATATTCTGTAAATATTT
* *
94440195 TAGGAATATTTTGTAGATATTT
1 TAGGAATATTCTGTAAATATTT
94440217 T
1 T
94440218 CTTTATTAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.33, C:0.02, G:0.16, T:0.49
Consensus pattern (22 bp):
TAGGAATATTCTGTAAATATTT
Found at i:94448082 original size:27 final size:27
Alignment explanation
Indices: 94448051--94448228 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
94448041 TAAATTGTAC
94448051 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
94448078 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
94448104 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
94448132 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
94448160 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
94448187 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
94448214 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
94448229 GACTCAATAT
Statistics
Matches: 129, Mismatches: 19, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 23 0.18
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:94448165 original size:82 final size:81
Alignment explanation
Indices: 94448052--94448207 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
94448042 AAATTGTACA
* *
94448052 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
94448116 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
94448133 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
94448198 TGCGAGTTGA
65 TGCGAATTGA
94448208 TTATATAGCA
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 15 0.22
82 51 0.76
83 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:94448219 original size:82 final size:81
Alignment explanation
Indices: 94448048--94448228 Score: 229
Period size: 82 Copynumber: 2.2 Consensus size: 81
94448038 GATTAAATTG
* *
94448048 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
94448113 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
94448129 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
94448193 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
94448211 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
94448229 GACTCAATAT
Statistics
Matches: 84, Mismatches: 14, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
81 18 0.21
82 66 0.79
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:94449481 original size:48 final size:47
Alignment explanation
Indices: 94449425--94449578 Score: 170
Period size: 48 Copynumber: 3.3 Consensus size: 47
94449415 ATTACGAGAA
* *
94449425 CTAGTGTAAGAAATGTTTAGGACATGCATCGGCCTCGAGAGATGCAAG
1 CTAGTGTAAGACATGTCT-GGACATGCATCGGCCTCGAGAGATGCAAG
* * *
94449473 CTAGTGTAAGACATGTCTGAGACATGTATCGGCATTGAGACGA-G--AG
1 CTAGTGTAAGACATGTCTG-GACATGCATCGGCCTCGAGA-GATGCAAG
* * * *
94449519 CTGGTGCAAGACATGTCTGGGACATGCATCGGCCTCGAGATATACAAG
1 CTAGTGTAAGACATGTCT-GGACATGCATCGGCCTCGAGAGATGCAAG
94449567 CTAGTGTAAGAC
1 CTAGTGTAAGAC
94449579 CTATTTGGGA
Statistics
Matches: 86, Mismatches: 14, Indels: 12
0.77 0.12 0.11
Matches are distributed among these distances:
45 1 0.01
46 35 0.41
47 2 0.02
48 46 0.53
49 2 0.02
ACGTcount: A:0.30, C:0.18, G:0.29, T:0.23
Consensus pattern (47 bp):
CTAGTGTAAGACATGTCTGGACATGCATCGGCCTCGAGAGATGCAAG
Found at i:94449590 original size:48 final size:47
Alignment explanation
Indices: 94449378--94449578 Score: 167
Period size: 46 Copynumber: 4.3 Consensus size: 47
94449368 TGATACGTGT
* * * * *
94449378 GCTAGTGTAAGACATGTCTGGGATATGCATCAG--AC-ACATTACGAGA
1 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGAATAC-A-A
* * * * *
94449424 ACTAGTGTAAGAAATGTTTAGGACATGCATCGGCCTCGAGAGATGCAA
1 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGA-ATACAA
* * * * ** *
94449472 GCTAGTGTAAGACATGTCTGAGACATGTATCGGCATTGAGACGA-GA
1 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGAATACAA
* *
94449518 GCTGGTGCAAGACATGTCTGGGACATGCATCGGCCTCGAGATATACAA
1 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGA-ATACAA
94449566 GCTAGTGTAAGAC
1 GCTAGTGTAAGAC
94449579 CTATTTGGGA
Statistics
Matches: 116, Mismatches: 33, Indels: 10
0.73 0.21 0.06
Matches are distributed among these distances:
46 63 0.54
47 1 0.01
48 47 0.41
49 3 0.03
50 2 0.02
ACGTcount: A:0.31, C:0.18, G:0.28, T:0.23
Consensus pattern (47 bp):
GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGAATACAA
Found at i:94452203 original size:19 final size:19
Alignment explanation
Indices: 94452179--94452217 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 19
94452169 TGTACGAGAT
**
94452179 TTGCACTTTGGTGCCTTTG
1 TTGCACTTCAGTGCCTTTG
94452198 TTGCACTTCAGTGCCTTTG
1 TTGCACTTCAGTGCCTTTG
94452217 T
1 T
94452218 ATACATTTCC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.08, C:0.23, G:0.23, T:0.46
Consensus pattern (19 bp):
TTGCACTTCAGTGCCTTTG
Found at i:94456162 original size:114 final size:114
Alignment explanation
Indices: 94456023--94456251 Score: 449
Period size: 114 Copynumber: 2.0 Consensus size: 114
94456013 ACTGCCCACC
94456023 TGCGTAAGAGTCACTAAATAAATCATAACTCGATTCAAAAAACTCAAAGTTTAAATTCATGAATT
1 TGCGTAAGAGTCACTAAATAAATCATAACTCGATTCAAAAAACTCAAAGTTTAAATTCATGAATT
*
94456088 TTCCCTGAAACTAGACTCATATATCTTCTTACTAATTTTTTTCTATAAT
66 TTCCCTGAAACTAGACTCATATATCTTCTTACTAATTTTTTTCTAGAAT
94456137 TGCGTAAGAGTCACTAAATAAATCATAACTCGATTCAAAAAACTCAAAGTTTAAATTCATGAATT
1 TGCGTAAGAGTCACTAAATAAATCATAACTCGATTCAAAAAACTCAAAGTTTAAATTCATGAATT
94456202 TTCCCTGAAACTAGACTCATATATCTTCTTACTAATTTTTTTCTAGAAT
66 TTCCCTGAAACTAGACTCATATATCTTCTTACTAATTTTTTTCTAGAAT
94456251 T
1 T
94456252 CTTGGTTTAG
Statistics
Matches: 114, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
114 114 1.00
ACGTcount: A:0.38, C:0.17, G:0.08, T:0.37
Consensus pattern (114 bp):
TGCGTAAGAGTCACTAAATAAATCATAACTCGATTCAAAAAACTCAAAGTTTAAATTCATGAATT
TTCCCTGAAACTAGACTCATATATCTTCTTACTAATTTTTTTCTAGAAT
Found at i:94457550 original size:55 final size:53
Alignment explanation
Indices: 94457425--94457613 Score: 245
Period size: 55 Copynumber: 3.5 Consensus size: 53
94457415 AACTTACCAT
* * *
94457425 TGCCATGTCTTGACATGGTCTTACGTGGTATCCTTGCCTTAT-GAACTCACCAA
1 TGCCATGCCTTGACATGGTCTTACATGGTA-CCTTGCCTTATAGAACTCATCAA
* *
94457478 TGCCATGCCTTGGCATGGTCTTACATGGGACCTTTGCCTTATAGTAACTCATCAA
1 TGCCATGCCTTGACATGGTCTTACATGGTACC-TTGCCTTATAG-AACTCATCAA
* * * *
94457533 TGCCATGTCTTGACATGGTCTTACATGATTTCCTTGCCTTATAGAACTTATCAA
1 TGCCATGCCTTGACATGGTCTTACATG-GTACCTTGCCTTATAGAACTCATCAA
*
94457587 TGCCATGCCTTGGCATGGTCTTACATG
1 TGCCATGCCTTGACATGGTCTTACATG
94457614 ATATCCTTAT
Statistics
Matches: 119, Mismatches: 13, Indels: 7
0.86 0.09 0.05
Matches are distributed among these distances:
52 2 0.02
53 35 0.29
54 35 0.29
55 45 0.38
56 2 0.02
ACGTcount: A:0.21, C:0.25, G:0.19, T:0.35
Consensus pattern (53 bp):
TGCCATGCCTTGACATGGTCTTACATGGTACCTTGCCTTATAGAACTCATCAA
Found at i:94457655 original size:47 final size:47
Alignment explanation
Indices: 94457600--94457721 Score: 226
Period size: 47 Copynumber: 2.6 Consensus size: 47
94457590 CATGCCTTGG
*
94457600 CATGGTCTTACATGATATCCTTATCTTACCAAATGCCATGTTCCAAA
1 CATGGTCTTACATGGTATCCTTATCTTACCAAATGCCATGTTCCAAA
94457647 CATGGTCTTACATGGTATCCTTATCTTACCAAATGCCATGTTCCAAA
1 CATGGTCTTACATGGTATCCTTATCTTACCAAATGCCATGTTCCAAA
*
94457694 CATGGTCTTACATGGTATCCTTGTCTTA
1 CATGGTCTTACATGGTATCCTTATCTTA
94457722 GTGCCAATGC
Statistics
Matches: 73, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
47 73 1.00
ACGTcount: A:0.26, C:0.25, G:0.13, T:0.36
Consensus pattern (47 bp):
CATGGTCTTACATGGTATCCTTATCTTACCAAATGCCATGTTCCAAA
Found at i:94457911 original size:44 final size:44
Alignment explanation
Indices: 94457862--94457945 Score: 116
Period size: 44 Copynumber: 1.9 Consensus size: 44
94457852 TCCTTAACCA
* *
94457862 TCAATTCCTCCTTAAATGCCATGTTATGAA-CATGGACTTTTTTG
1 TCAATTCCTCCTTAAATGCCATGGTA-CAACCATGGACTTTTTTG
* *
94457906 TCAATTCTTCCTTAATTGCCATGGTACAACCATGGACTTT
1 TCAATTCCTCCTTAAATGCCATGGTACAACCATGGACTTT
94457946 GAGATATCAA
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
43 2 0.06
44 33 0.94
ACGTcount: A:0.25, C:0.23, G:0.13, T:0.39
Consensus pattern (44 bp):
TCAATTCCTCCTTAAATGCCATGGTACAACCATGGACTTTTTTG
Found at i:94462674 original size:40 final size:41
Alignment explanation
Indices: 94462630--94462707 Score: 104
Period size: 40 Copynumber: 1.9 Consensus size: 41
94462620 ACCAGCATTT
** *
94462630 AGCCTGCTAGGTTTTAAACCTGAATTCA-TCACCGGCACGA
1 AGCCTGCTAGACTTTAAACCTGAACTCATTCACCGGCACGA
**
94462670 AGCCTGCTAGACTTTAAGTCTGAACTCATTCACCGGCA
1 AGCCTGCTAGACTTTAAACCTGAACTCATTCACCGGCA
94462708 TTTCGCCTGC
Statistics
Matches: 32, Mismatches: 5, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
40 23 0.72
41 9 0.28
ACGTcount: A:0.27, C:0.28, G:0.19, T:0.26
Consensus pattern (41 bp):
AGCCTGCTAGACTTTAAACCTGAACTCATTCACCGGCACGA
Found at i:94462716 original size:41 final size:40
Alignment explanation
Indices: 94462618--94462894 Score: 187
Period size: 43 Copynumber: 6.6 Consensus size: 40
94462608 TTATATCAAA
* * *
94462618 TCACCAGCATTTAGCCTGCTAGGTTTTAAACCTGAATTCA-
1 TCACCGGCATTTAGCCTGCTAGGCTTTAAGCCTGAA-TCAT
*** * *
94462658 TCACCGGCACGAAGCCTGCTAGACTTTAAGTCTGAACTCAT
1 TCACCGGCATTTAGCCTGCTAGGCTTTAAGCCTGAA-TCAT
* * *
94462699 TCACCGGCATTTCGCCTGCTAGGCTTGAAGCCCGATATCATT
1 TCACCGGCATTTAGCCTGCTAGGCTTTAAGCCTGA-ATCA-T
*** * *
94462741 TCACCGGCATTATAGCCTGCTAGGCCCGAAGCCCGATATTAT
1 TCACCGGCATT-TAGCCTGCTAGGCTTTAAGCCTGA-ATCAT
*** * *
94462783 CTCACCGGCATTATAGCCTGCTAGGCCCGAAGCCCGATATTAT
1 -TCACCGGCATT-TAGCCTGCTAGGCTTTAAGCCTGA-ATCAT
*** * *
94462826 CTCACCGGCATTATAGCCTGCTAGGCCCGAAGCCCGATATTAT
1 -TCACCGGCATT-TAGCCTGCTAGGCTTTAAGCCTGA-ATCAT
94462869 CTCACCGGCATTATAGCCTGCTAGGC
1 -TCACCGGCATT-TAGCCTGCTAGGC
94462895 CCGAAGCCCG
Statistics
Matches: 211, Mismatches: 21, Indels: 7
0.88 0.09 0.03
Matches are distributed among these distances:
40 31 0.15
41 30 0.14
42 14 0.07
43 136 0.64
ACGTcount: A:0.23, C:0.31, G:0.20, T:0.26
Consensus pattern (40 bp):
TCACCGGCATTTAGCCTGCTAGGCTTTAAGCCTGAATCAT
Found at i:94462772 original size:43 final size:43
Alignment explanation
Indices: 94462699--94462907 Score: 366
Period size: 43 Copynumber: 4.9 Consensus size: 43
94462689 CTGAACTCAT
* ** * *
94462699 TCACCGGCATT-TCGCCTGCTAGGCTTGAAGCCCGATATCATT
1 TCACCGGCATTATAGCCTGCTAGGCCCGAAGCCCGATATTATC
94462741 TCACCGGCATTATAGCCTGCTAGGCCCGAAGCCCGATATTATC
1 TCACCGGCATTATAGCCTGCTAGGCCCGAAGCCCGATATTATC
94462784 TCACCGGCATTATAGCCTGCTAGGCCCGAAGCCCGATATTATC
1 TCACCGGCATTATAGCCTGCTAGGCCCGAAGCCCGATATTATC
94462827 TCACCGGCATTATAGCCTGCTAGGCCCGAAGCCCGATATTATC
1 TCACCGGCATTATAGCCTGCTAGGCCCGAAGCCCGATATTATC
94462870 TCACCGGCATTATAGCCTGCTAGGCCCGAAGCCCGATA
1 TCACCGGCATTATAGCCTGCTAGGCCCGAAGCCCGATA
94462908 ATATTATTCA
Statistics
Matches: 161, Mismatches: 5, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
42 11 0.07
43 150 0.93
ACGTcount: A:0.22, C:0.33, G:0.22, T:0.23
Consensus pattern (43 bp):
TCACCGGCATTATAGCCTGCTAGGCCCGAAGCCCGATATTATC
Found at i:94464255 original size:35 final size:35
Alignment explanation
Indices: 94464209--94464277 Score: 129
Period size: 35 Copynumber: 2.0 Consensus size: 35
94464199 CATGAAGTTA
*
94464209 CCAAGACTCATCATTTGCTATTTCACACACACTCC
1 CCAAGACTCATCAGTTGCTATTTCACACACACTCC
94464244 CCAAGACTCATCAGTTGCTATTTCACACACACTC
1 CCAAGACTCATCAGTTGCTATTTCACACACACTC
94464278 ACATCTAATC
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
35 33 1.00
ACGTcount: A:0.29, C:0.36, G:0.07, T:0.28
Consensus pattern (35 bp):
CCAAGACTCATCAGTTGCTATTTCACACACACTCC
Found at i:94464878 original size:14 final size:15
Alignment explanation
Indices: 94464849--94464878 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
94464839 CAAAATTTAG
94464849 ACATGATACTTTCAC
1 ACATGATACTTTCAC
94464864 ACATGATAC-TTCAC
1 ACATGATACTTTCAC
94464878 A
1 A
94464879 TATAATAAAC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 6 0.40
15 9 0.60
ACGTcount: A:0.37, C:0.27, G:0.07, T:0.30
Consensus pattern (15 bp):
ACATGATACTTTCAC
Found at i:94480503 original size:40 final size:40
Alignment explanation
Indices: 94480425--94480648 Score: 276
Period size: 40 Copynumber: 5.5 Consensus size: 40
94480415 ACCCAAGTAT
* *
94480425 CTTCGGGATTTAG-CCGGATATAG-CAACTCGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTC-ACTAGCACAAATGC
* **
94480464 CTTCGGGTCTTAGCCCGGATATAGTCACTAGCATGAATGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
94480504 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
*
94480544 CTTCGGGACTTAGCCCGGGTATAG-CAACTACTCGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTC-ACTA---GCACAAATGC
* * *
94480587 CTTCAGGACTTAGCCCGGATATAGTAACTTGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
*
94480627 AC-TCGGGACTTAGCCTGGATAT
1 -CTTCGGGACTTAGCCCGGATAT
94480649 CATCCGAATA
Statistics
Matches: 162, Mismatches: 15, Indels: 15
0.84 0.08 0.08
Matches are distributed among these distances:
39 12 0.07
40 113 0.70
41 2 0.01
43 35 0.22
ACGTcount: A:0.26, C:0.26, G:0.23, T:0.24
Consensus pattern (40 bp):
CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
Found at i:94480621 original size:83 final size:80
Alignment explanation
Indices: 94480425--94480648 Score: 283
Period size: 83 Copynumber: 2.8 Consensus size: 80
94480415 ACCCAAGTAT
* * * *
94480425 CTTCGGGATTTAG-CCGGATATAGCAACTCGCACAAATGCCTTCGGGTCTTAGCCCGGATATAGT
1 CTTCGGGACTTAGCCCGGATATAGTAACTAGCACAAATGCCTTCGGGACTTAGCCCGGATATAGT
**
94480489 CACTAGCATGAATGC
66 CACTAGCACAAATGC
* *
94480504 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGCCTTCGGGACTTAGCCCGGGTATAG-
1 CTTCGGGACTTAGCCCGGATATAGTAACTAGCACAAATGCCTTCGGGACTTAGCCCGGATATAGT
94480568 CAACTACTCGCACAAATGC
66 C-ACTA---GCACAAATGC
* * *
94480587 CTTCAGGACTTAGCCCGGATATAGTAACTTGCACAAATGCAC-TCGGGACTTAGCCTGGATAT
1 CTTCGGGACTTAGCCCGGATATAGTAACTAGCACAAATGC-CTTCGGGACTTAGCCCGGATAT
94480649 CATCCGAATA
Statistics
Matches: 126, Mismatches: 13, Indels: 8
0.86 0.09 0.05
Matches are distributed among these distances:
79 13 0.10
80 49 0.39
83 63 0.50
84 1 0.01
ACGTcount: A:0.26, C:0.26, G:0.23, T:0.24
Consensus pattern (80 bp):
CTTCGGGACTTAGCCCGGATATAGTAACTAGCACAAATGCCTTCGGGACTTAGCCCGGATATAGT
CACTAGCACAAATGC
Found at i:94490260 original size:17 final size:19
Alignment explanation
Indices: 94490231--94490267 Score: 60
Period size: 18 Copynumber: 2.1 Consensus size: 19
94490221 TTAGAATTCT
94490231 TACCAAGAGTTCAT-CTCA
1 TACCAAGAGTTCATACTCA
94490249 TACCAA-AGTTCATACTCA
1 TACCAAGAGTTCATACTCA
94490267 T
1 T
94490268 GGGTTTTACA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 7 0.39
18 11 0.61
ACGTcount: A:0.35, C:0.27, G:0.08, T:0.30
Consensus pattern (19 bp):
TACCAAGAGTTCATACTCA
Found at i:94496410 original size:27 final size:27
Alignment explanation
Indices: 94496380--94496694 Score: 328
Period size: 27 Copynumber: 11.7 Consensus size: 27
94496370 TTTAGTTTAC
94496380 AAAATTACCAAAATACCCCTGGTTTGT
1 AAAATTACCAAAATACCCCTGGTTTGT
* * *
94496407 AAAATTACTAAAATACCCTTGGTTTAT
1 AAAATTACCAAAATACCCCTGGTTTGT
*
94496434 AAAATCACCAAAATACCCCTGGTTTGT
1 AAAATTACCAAAATACCCCTGGTTTGT
** **
94496461 AAAATTACCAAAATACCATTGGTTTAC
1 AAAATTACCAAAATACCCCTGGTTTGT
*
94496488 AAAATTACCAAAATACCCTTGGTTTGT
1 AAAATTACCAAAATACCCCTGGTTTGT
* * * * *
94496515 AAAATCACTAAAATACCCTTTGTTTAT
1 AAAATTACCAAAATACCCCTGGTTTGT
94496542 AAAATTACCAAAATACCCCTGGTTTGT
1 AAAATTACCAAAATACCCCTGGTTTGT
* *
94496569 AAAATTACCAAAATACCCTTAGTTTGT
1 AAAATTACCAAAATACCCCTGGTTTGT
** *
94496596 AAAATTACCAAAATACCCCTAATTTGC
1 AAAATTACCAAAATACCCCTGGTTTGT
* ** ***
94496623 GAAATTACTGAAATA-CCCTCGACCTGT
1 AAAATTACCAAAATACCCCT-GGTTTGT
** **
94496650 AAAATTATTAAAATA-CCCTCGACTTGT
1 AAAATTACCAAAATACCCCT-GGTTTGT
*
94496677 AAAATTACCAAAGTACCC
1 AAAATTACCAAAATACCC
94496695 TTGATTTACA
Statistics
Matches: 243, Mismatches: 43, Indels: 3
0.84 0.15 0.01
Matches are distributed among these distances:
26 4 0.02
27 237 0.98
28 2 0.01
ACGTcount: A:0.40, C:0.21, G:0.09, T:0.30
Consensus pattern (27 bp):
AAAATTACCAAAATACCCCTGGTTTGT
Found at i:94496446 original size:54 final size:54
Alignment explanation
Indices: 94496374--94496641 Score: 392
Period size: 54 Copynumber: 5.0 Consensus size: 54
94496364 GAATACTTTA
*
94496374 GTTTACAAAATTACCAAAATACCCCTGGTTTGTAAAATTACTAAAATACCCTTG
1 GTTTATAAAATTACCAAAATACCCCTGGTTTGTAAAATTACTAAAATACCCTTG
* * *
94496428 GTTTATAAAATCACCAAAATACCCCTGGTTTGTAAAATTACCAAAATACCATTG
1 GTTTATAAAATTACCAAAATACCCCTGGTTTGTAAAATTACTAAAATACCCTTG
* * * *
94496482 GTTTACAAAATTACCAAAATACCCTTGGTTTGTAAAATCACTAAAATACCCTTT
1 GTTTATAAAATTACCAAAATACCCCTGGTTTGTAAAATTACTAAAATACCCTTG
* *
94496536 GTTTATAAAATTACCAAAATACCCCTGGTTTGTAAAATTACCAAAATACCCTTA
1 GTTTATAAAATTACCAAAATACCCCTGGTTTGTAAAATTACTAAAATACCCTTG
* ** ** *
94496590 GTTTGTAAAATTACCAAAATACCCCTAATTTGCGAAATTACTGAAATACCCT
1 GTTTATAAAATTACCAAAATACCCCTGGTTTGTAAAATTACTAAAATACCCT
94496642 CGACCTGTAA
Statistics
Matches: 191, Mismatches: 23, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
54 191 1.00
ACGTcount: A:0.40, C:0.21, G:0.09, T:0.31
Consensus pattern (54 bp):
GTTTATAAAATTACCAAAATACCCCTGGTTTGTAAAATTACTAAAATACCCTTG
Found at i:94496518 original size:81 final size:81
Alignment explanation
Indices: 94496374--94496615 Score: 367
Period size: 81 Copynumber: 3.0 Consensus size: 81
94496364 GAATACTTTA
* * *
94496374 GTTTACAAAATTACCAAAATACCCCTGGTTTGTAAAATTACTAAAATACCCTTGGTTTATAAAAT
1 GTTTATAAAATTACCAAAATACCCCTGGTTTGTAAAATTACCAAAATACCCTTGGTTTGTAAAAT
94496439 CACCAAAATACCCCTG
66 CACCAAAATACCCCTG
* ** **
94496455 GTTTGTAAAATTACCAAAATACCATTGGTTTACAAAATTACCAAAATACCCTTGGTTTGTAAAAT
1 GTTTATAAAATTACCAAAATACCCCTGGTTTGTAAAATTACCAAAATACCCTTGGTTTGTAAAAT
* * *
94496520 CACTAAAATACCCTTT
66 CACCAAAATACCCCTG
*
94496536 GTTTATAAAATTACCAAAATACCCCTGGTTTGTAAAATTACCAAAATACCCTTAGTTTGTAAAAT
1 GTTTATAAAATTACCAAAATACCCCTGGTTTGTAAAATTACCAAAATACCCTTGGTTTGTAAAAT
*
94496601 TACCAAAATACCCCT
66 CACCAAAATACCCCT
94496616 AATTTGCGAA
Statistics
Matches: 141, Mismatches: 20, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
81 141 1.00
ACGTcount: A:0.40, C:0.21, G:0.08, T:0.31
Consensus pattern (81 bp):
GTTTATAAAATTACCAAAATACCCCTGGTTTGTAAAATTACCAAAATACCCTTGGTTTGTAAAAT
CACCAAAATACCCCTG
Found at i:94496628 original size:81 final size:81
Alignment explanation
Indices: 94496380--94496694 Score: 362
Period size: 81 Copynumber: 3.9 Consensus size: 81
94496370 TTTAGTTTAC
* *
94496380 AAAATTACCAAAATACCCCTGGTTTGTAAAATTACTAAAATACCCTTGGTTTATAAAATCACCAA
1 AAAATTACCAAAATACCCCTGGTTTGTAAAATTACCAAAATACCCTTGGTTTGTAAAATCACCAA
*
94496445 AATACCCCTGGTTTGT
66 AATACCCCTAGTTTGT
** ** *
94496461 AAAATTACCAAAATACCATTGGTTTACAAAATTACCAAAATACCCTTGGTTTGTAAAATCACTAA
1 AAAATTACCAAAATACCCCTGGTTTGTAAAATTACCAAAATACCCTTGGTTTGTAAAATCACCAA
* * *
94496526 AATACCCTTTGTTTAT
66 AATACCCCTAGTTTGT
* *
94496542 AAAATTACCAAAATACCCCTGGTTTGTAAAATTACCAAAATACCCTTAGTTTGTAAAATTACCAA
1 AAAATTACCAAAATACCCCTGGTTTGTAAAATTACCAAAATACCCTTGGTTTGTAAAATCACCAA
* *
94496607 AATACCCCTAATTTGC
66 AATACCCCTAGTTTGT
* ** *** ** * ** *
94496623 GAAATTACTGAAATA-CCCTCGACCTGTAAAATTATTAAAATACCCTCGACTTGTAAAATTACCA
1 AAAATTACCAAAATACCCCT-GGTTTGTAAAATTACCAAAATACCCTTGGTTTGTAAAATCACCA
*
94496687 AAGTACCC
65 AAATACCC
94496695 TTGATTTACA
Statistics
Matches: 198, Mismatches: 35, Indels: 2
0.84 0.15 0.01
Matches are distributed among these distances:
80 4 0.02
81 194 0.98
ACGTcount: A:0.40, C:0.21, G:0.09, T:0.30
Consensus pattern (81 bp):
AAAATTACCAAAATACCCCTGGTTTGTAAAATTACCAAAATACCCTTGGTTTGTAAAATCACCAA
AATACCCCTAGTTTGT
Found at i:94496710 original size:54 final size:53
Alignment explanation
Indices: 94496375--94496751 Score: 323
Period size: 54 Copynumber: 7.0 Consensus size: 53
94496365 AATACTTTAG
* * *
94496375 TTTACAAAATTACCAAAATACCCCTGGTTTGTAAAATTACTAAAATACCCTTGG
1 TTTA-AAAATTACCAAAATACCCCTGATTTGTAAAATTACCAAAATACCCTTGA
* * * *
94496429 TTTATAAAATCACCAAAATACCCCTGGTTTGTAAAATTACCAAAATACCATTGG
1 TTTA-AAAATTACCAAAATACCCCTGATTTGTAAAATTACCAAAATACCCTTGA
* * * *
94496483 TTTACAAAATTACCAAAATACCCTTGGTTTGTAAAATCACTAAAATACCCTTTG-
1 TTTA-AAAATTACCAAAATACCCCTGATTTGTAAAATTACCAAAATACCC-TTGA
*
94496537 TTTATAAAATTACCAAAATACCCCTGGTTTGTAAAATTACCAAAATACCCTT-A
1 TTTA-AAAATTACCAAAATACCCCTGATTTGTAAAATTACCAAAATACCCTTGA
* * ** ** *
94496590 GTTTGTAAAATTACCAAAATACCCCTAATTTGCGAAATTACTGAAATACCCTCGA
1 -TTT-AAAAATTACCAAAATACCCCTGATTTGTAAAATTACCAAAATACCCTTGA
* ** * *
94496645 CCTGT-AAAATTATTAAAATA-CCCTCGACTTGTAAAATTACCAAAGTACCCTTGA
1 --TTTAAAAATTACCAAAATACCCCT-GATTTGTAAAATTACCAAAATACCCTTGA
* ***** * *
94496699 TTTACAGAATTACTGTTTTA-CCCTCGATTTATAAAATTACCAAAATGCCCTTG
1 TTTA-AAAATTACCAAAATACCCCT-GATTTGTAAAATTACCAAAATACCCTTG
94496752 TAGGGTAGAA
Statistics
Matches: 269, Mismatches: 45, Indels: 18
0.81 0.14 0.05
Matches are distributed among these distances:
52 2 0.01
53 6 0.02
54 255 0.95
55 4 0.01
56 2 0.01
ACGTcount: A:0.38, C:0.21, G:0.09, T:0.32
Consensus pattern (53 bp):
TTTAAAAATTACCAAAATACCCCTGATTTGTAAAATTACCAAAATACCCTTGA
Done.