Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008413.1 Hibiscus syriacus cultivar Beakdansim tig00111191_pilon, whole genome shotgun sequence
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: 2772818
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 5 of 10
Found at i:1381612 original size:214 final size:216
Alignment explanation
Indices: 1381203--1381608 Score: 506
Period size: 214 Copynumber: 1.9 Consensus size: 216
1381193 TTATGCATAC
* * *
1381203 ATTATAAGTATATACTTATATATATAAGTGCAAGGAATAATGGTAATTGAATCAAATCTTATCAA
1 ATTATAAGTATATAC-TATATATATAAGTGCAAGGAATAATGGCAATTGAATCAAACCCTATCAA
* * * * ** *
1381268 GGGTTTAAATTGATTTTATTTTGTTAACCAAGTTTGGTAGTATGACACCTAAAAAGATGATGGAG
65 AGGTTCAAATTGATATTATTTTGTTAACCAAGATTGGTAACATGACACCTAAAAAGATGATGGAA
* * * *
1381333 TCATTTAATGCTCATCTTTTTCAATTTATATAAACTATATAATAAAAGTATAAGTGTATATATAT
130 CCATTTAATACTCATCTTTTTCAATTTATATAAACTATATAATAAAAGTATAAATATATATATAT
1381398 AGAGAGAGAGGTATAAGTATAA
195 AGAGAGAGAGGTATAAGTATAA
* * *
1381420 ATTATAA-TATATA-TATA-ATATAAGTGGTAAGGAATAATGGCCATTGGATCAAACCCTATCAA
1 ATTATAAGTATATACTATATATATAAGT-GCAAGGAATAATGGCAATTGAATCAAACCCTATCAA
* *
1381482 AGGTTCAAATTGATATTATTTTGTTCACCAAGATTGGTAACATGGCACCT-AAAA-A-GATGGAA
65 AGGTTCAAATTGATATTATTTTGTTAACCAAGATTGGTAACATGACACCTAAAAAGATGATGGAA
* * * *
1381544 CCATTTAATACTCAT-TGTTTTCAATTTATAT-AAGTATA-AAGTATAAGTGTATATATATATAT
130 CCATTTAATACTCATCT-TTTTCAATTTATATAAACTATATAA-TAAAAGTATAAATATATATAT
1381606 ATA
193 ATA
1381609 TATATATATA
Statistics
Matches: 163, Mismatches: 23, Indels: 13
0.82 0.12 0.07
Matches are distributed among these distances:
209 2 0.01
210 26 0.16
211 33 0.20
212 1 0.01
213 12 0.07
214 76 0.47
216 6 0.04
217 7 0.04
ACGTcount: A:0.40, C:0.09, G:0.15, T:0.36
Consensus pattern (216 bp):
ATTATAAGTATATACTATATATATAAGTGCAAGGAATAATGGCAATTGAATCAAACCCTATCAAA
GGTTCAAATTGATATTATTTTGTTAACCAAGATTGGTAACATGACACCTAAAAAGATGATGGAAC
CATTTAATACTCATCTTTTTCAATTTATATAAACTATATAATAAAAGTATAAATATATATATATA
GAGAGAGAGGTATAAGTATAA
Found at i:1381632 original size:14 final size:15
Alignment explanation
Indices: 1381615--1381692 Score: 58
Period size: 15 Copynumber: 5.3 Consensus size: 15
1381605 TATATATATA
*
1381615 TATAAGTAT-TAAAG
1 TATAACTATATAAAG
1381629 TATAACTATATAAAG
1 TATAACTATATAAAG
* *
1381644 TATATA-TAAGTCTTAA-
1 TATA-ACT-A-TATAAAG
1381660 TAT-A-TATATTAAAG
1 TATAACTATA-TAAAG
1381674 TATAACTATATAAAG
1 TATAACTATATAAAG
1381689 TATA
1 TATA
1381693 TATAAGTCTT
Statistics
Matches: 51, Mismatches: 5, Indels: 15
0.72 0.07 0.21
Matches are distributed among these distances:
12 1 0.02
13 4 0.08
14 13 0.25
15 20 0.39
16 9 0.18
17 4 0.08
ACGTcount: A:0.50, C:0.04, G:0.08, T:0.38
Consensus pattern (15 bp):
TATAACTATATAAAG
Found at i:1381632 original size:20 final size:23
Alignment explanation
Indices: 1381611--1381691 Score: 89
Period size: 23 Copynumber: 3.5 Consensus size: 23
1381601 TATATATATA
1381611 TATATATAAGTATTAAAGTATAAC
1 TATATA-AAGTATTAAAGTATAAC
*
1381635 TATATAAAGTATATATAAGTCTTAA-
1 TATATAAAGTAT-TA-AAGT-ATAAC
1381660 TATAT--A-TATTAAAGTATAAC
1 TATATAAAGTATTAAAGTATAAC
1381680 TATATAAAGTAT
1 TATATAAAGTAT
1381692 ATATAAGTCT
Statistics
Matches: 48, Mismatches: 2, Indels: 15
0.74 0.03 0.23
Matches are distributed among these distances:
19 3 0.06
20 9 0.19
21 2 0.04
22 4 0.08
23 10 0.21
24 8 0.17
25 9 0.19
26 3 0.06
ACGTcount: A:0.49, C:0.04, G:0.07, T:0.40
Consensus pattern (23 bp):
TATATAAAGTATTAAAGTATAAC
Found at i:1381663 original size:45 final size:45
Alignment explanation
Indices: 1381571--1381708 Score: 178
Period size: 45 Copynumber: 3.1 Consensus size: 45
1381561 TTTTCAATTT
* * * *
1381571 ATATAAGTA-TAAAGTATAAGTGTATATA-TATATATATA-T-ATA
1 ATATAAGTATTAAAGTATAACTATATAAAGTATATATA-AGTCTTA
1381613 TATATAAGTATTAAAGTATAACTATATAAAGTATATATAAGTCTTA
1 -ATATAAGTATTAAAGTATAACTATATAAAGTATATATAAGTCTTA
1381659 ATATATA-TATTAAAGTATAACTATATAAAGTATATATAAGTCTTA
1 ATATA-AGTATTAAAGTATAACTATATAAAGTATATATAAGTCTTA
1381704 ATATA
1 ATATA
1381709 TATACATACA
Statistics
Matches: 86, Mismatches: 4, Indels: 8
0.88 0.04 0.08
Matches are distributed among these distances:
43 9 0.10
44 17 0.20
45 57 0.66
46 3 0.03
ACGTcount: A:0.49, C:0.03, G:0.08, T:0.40
Consensus pattern (45 bp):
ATATAAGTATTAAAGTATAACTATATAAAGTATATATAAGTCTTA
Found at i:1381709 original size:45 final size:45
Alignment explanation
Indices: 1381612--1381712 Score: 184
Period size: 45 Copynumber: 2.2 Consensus size: 45
1381602 ATATATATAT
1381612 ATATATAAGTATTAAAGTATAACTATATAAAGTATATATAAGTCTTA
1 ATATAT-A-TATTAAAGTATAACTATATAAAGTATATATAAGTCTTA
1381659 ATATATATATTAAAGTATAACTATATAAAGTATATATAAGTCTTA
1 ATATATATATTAAAGTATAACTATATAAAGTATATATAAGTCTTA
1381704 ATATATATA
1 ATATATATA
1381713 CATACAAGTG
Statistics
Matches: 54, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
45 47 0.87
46 1 0.02
47 6 0.11
ACGTcount: A:0.50, C:0.04, G:0.07, T:0.40
Consensus pattern (45 bp):
ATATATATATTAAAGTATAACTATATAAAGTATATATAAGTCTTA
Found at i:1382360 original size:13 final size:13
Alignment explanation
Indices: 1382337--1382380 Score: 54
Period size: 13 Copynumber: 3.3 Consensus size: 13
1382327 TAAAATTAAT
*
1382337 TTAATGATTATAA
1 TTAAAGATTATAA
1382350 TTAAA-ATTTATAA
1 TTAAAGA-TTATAA
1382363 TATAAAGATTATAA
1 T-TAAAGATTATAA
1382377 TTAA
1 TTAA
1382381 TATAAAAAGT
Statistics
Matches: 27, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
12 1 0.04
13 14 0.52
14 11 0.41
15 1 0.04
ACGTcount: A:0.52, C:0.00, G:0.05, T:0.43
Consensus pattern (13 bp):
TTAAAGATTATAA
Found at i:1392090 original size:20 final size:21
Alignment explanation
Indices: 1392043--1392093 Score: 63
Period size: 20 Copynumber: 2.5 Consensus size: 21
1392033 ATAGTATTTT
1392043 TCATATTTTAAAAGCTTTAAG
1 TCATATTTTAAAAGCTTTAAG
*
1392064 T-ACATTTTAAACA-CTTTAA-
1 TCATATTTTAAA-AGCTTTAAG
1392083 TCATATTTTAA
1 TCATATTTTAA
1392094 TTAACTAAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
19 1 0.04
20 23 0.88
21 2 0.08
ACGTcount: A:0.39, C:0.12, G:0.04, T:0.45
Consensus pattern (21 bp):
TCATATTTTAAAAGCTTTAAG
Found at i:1393930 original size:105 final size:106
Alignment explanation
Indices: 1393393--1393942 Score: 556
Period size: 106 Copynumber: 5.2 Consensus size: 106
1393383 ATATATTCAC
* * * * * * *
1393393 CACTATTAACAATAGAAATTGTGATGAATTTGTTAGACACTGAAGATATATTTTATTACCATTAA
1 CACTATTATCAATAGAAATTATGATGAATTTGTTTGACACTGAAAATATATTTTGTGACCATAAA
* * *
1393458 TATTAT-ACACTAAGTATT-TTTTAGTGACCAAATATTCAA
66 TATTGTCACACTAAGTATTGTTTTAGTGACCAAATGTTCGA
* * * * * * *
1393497 CACTATAATCAATAAAAATTATGATAAATTTATTTGACACT-AAAAGTCTATTTTGTGATCATCA
1 CACTATTATCAATAGAAATTATGATGAATTTGTTTGACACTGAAAA-TATATTTTGTGACCATAA
* * * ** *
1393561 ATGTTGTCGCATTAAGTATAATTTTAGTGACCAAATATTCGA
65 ATATTGTCACACTAAGTATTGTTTTAGTGACCAAATGTTCGA
* * * * * * *
1393603 CACTATTATCAATA-ATATTTGTGATAAATTTGTTTGACAC-AAAAGATCTATTTTGTGGCCATC
1 CACTATTATCAATAGA-AATTATGATGAATTTGTTTGACACTGAAA-ATATATTTTGTGACCATA
* * * *
1393666 AATGTTGCCACACTAAGTATTGTTTTAGCGACCACATGTTCGA
64 AATATTGTCACACTAAGTATTGTTTTAGTGACCAAATGTTCGA
* * * *
1393709 CACTATTA-CTAATAGAAATTGTGATGACTTCGTTTGACAATGAAAATATATTTTGTGACCATAA
1 CACTATTATC-AATAGAAATTATGATGAATTTGTTTGACACTGAAAATATATTTTGTGACCATAA
* * **
1393773 ATATTATCACACTAAGTATTGTTTTAGTGACTAAATGTTAAA
65 ATATTGTCACACTAAGTATTGTTTTAGTGACCAAATGTTCGA
* * * *
1393815 TACTATTATCAATAGAAATTATGATGAATTTATCTGACACTGAAAATATA-TTTGTTACCATAAA
1 CACTATTATCAATAGAAATTATGATGAATTTGTTTGACACTGAAAATATATTTTGTGACCATAAA
* * * *
1393879 TATGGTTACACTAAGTATTTTTTTAGTGATCAAATGTTCGA
66 TATTGTCACACTAAGTATTGTTTTAGTGACCAAATGTTCGA
*
1393920 CACTAGTATCAATAGAAATTATG
1 CACTATTATCAATAGAAATTATG
1393943 TAAAAAAAAT
Statistics
Matches: 368, Mismatches: 68, Indels: 19
0.81 0.15 0.04
Matches are distributed among these distances:
103 3 0.01
104 52 0.14
105 78 0.21
106 229 0.62
107 6 0.02
ACGTcount: A:0.37, C:0.13, G:0.13, T:0.38
Consensus pattern (106 bp):
CACTATTATCAATAGAAATTATGATGAATTTGTTTGACACTGAAAATATATTTTGTGACCATAAA
TATTGTCACACTAAGTATTGTTTTAGTGACCAAATGTTCGA
Found at i:1395698 original size:38 final size:39
Alignment explanation
Indices: 1395551--1395701 Score: 196
Period size: 39 Copynumber: 3.9 Consensus size: 39
1395541 GTACACCCTA
* * *
1395551 TAAGGACTTACCCTGTGCACAAAGTAGAGGAGCCCGCAA
1 TAAGGACTTACCCTGTGCACAAAGCAGAGGAGCCTGCAG
* * * *
1395590 TAAGGTCGTATCCTGTGCACAAAGCAGAGAAGCCTGCAG
1 TAAGGACTTACCCTGTGCACAAAGCAGAGGAGCCTGCAG
* *
1395629 TAAGGACTTACCCTGAGCACAAAGCCGAGGAGCCTGCAG
1 TAAGGACTTACCCTGTGCACAAAGCAGAGGAGCCTGCAG
* *
1395668 TAAGGACTTACCCTG-GTACAAAGCCGAGGAGCCT
1 TAAGGACTTACCCTGTGCACAAAGCAGAGGAGCCT
1395702 ACAGAAAGCA
Statistics
Matches: 98, Mismatches: 14, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
38 18 0.18
39 80 0.82
ACGTcount: A:0.31, C:0.26, G:0.27, T:0.16
Consensus pattern (39 bp):
TAAGGACTTACCCTGTGCACAAAGCAGAGGAGCCTGCAG
Found at i:1401337 original size:39 final size:39
Alignment explanation
Indices: 1401280--1401432 Score: 184
Period size: 39 Copynumber: 3.9 Consensus size: 39
1401270 TGTACACCCT
* * *
1401280 GTAAGGACTT-TCCTTGTGCACAAAGAAAAGGAGCCTGCA
1 GTAAGGACTTATCC-TGAGCACAAAGCAGAGGAGCCTGCA
* * *
1401319 ATAAGGTCTTATCCTGTGCACAAAGCAGAGGAGCCTGCA
1 GTAAGGACTTATCCTGAGCACAAAGCAGAGGAGCCTGCA
* *
1401358 GTAAGGACTTA-CCTGAGCACAAAGCCGAGGAGCCTGTA
1 GTAAGGACTTATCCTGAGCACAAAGCAGAGGAGCCTGCA
* * *
1401396 GTAAGGACTTACCCTGAGCACAAATCCGAGGAGCCTG
1 GTAAGGACTTATCCTGAGCACAAAGCAGAGGAGCCTG
1401433 TGGAAAGCGG
Statistics
Matches: 102, Mismatches: 10, Indels: 4
0.88 0.09 0.03
Matches are distributed among these distances:
38 35 0.34
39 64 0.63
40 3 0.03
ACGTcount: A:0.31, C:0.24, G:0.27, T:0.18
Consensus pattern (39 bp):
GTAAGGACTTATCCTGAGCACAAAGCAGAGGAGCCTGCA
Found at i:1401417 original size:77 final size:78
Alignment explanation
Indices: 1401280--1401432 Score: 191
Period size: 77 Copynumber: 2.0 Consensus size: 78
1401270 TGTACACCCT
* * * * *
1401280 GTAAGGACTTTCCTTGTGCACAAAGAAAAGGAGCCTGCAATAAGGTCTTATCCTGTGCACAAAGC
1 GTAAGGACTTACCTTGAGCACAAAGAAAAGGAGCCTGCAATAAGGACTTACCCTGAGCACAAAGC
1401345 AGAGGAGCCTGCA
66 AGAGGAGCCTGCA
*** * * *
1401358 GTAAGGACTTACC-TGAGCACAAAGCCGAGGAGCCTGTAGTAAGGACTTACCCTGAGCACAAATC
1 GTAAGGACTTACCTTGAGCACAAAGAAAAGGAGCCTGCAATAAGGACTTACCCTGAGCACAAAGC
*
1401422 CGAGGAGCCTG
66 AGAGGAGCCTG
1401433 TGGAAAGCGG
Statistics
Matches: 63, Mismatches: 12, Indels: 1
0.83 0.16 0.01
Matches are distributed among these distances:
77 51 0.81
78 12 0.19
ACGTcount: A:0.31, C:0.24, G:0.27, T:0.18
Consensus pattern (78 bp):
GTAAGGACTTACCTTGAGCACAAAGAAAAGGAGCCTGCAATAAGGACTTACCCTGAGCACAAAGC
AGAGGAGCCTGCA
Found at i:1402305 original size:23 final size:23
Alignment explanation
Indices: 1402262--1402306 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
1402252 AGACAAGGAC
* * *
1402262 GGATCGGGTCGGGTTAGTGGGTT
1 GGATCAGGTCGGGTCAATGGGTT
1402285 GGATCAGGTCGGGTCAATGGGT
1 GGATCAGGTCGGGTCAATGGGT
1402307 CAGATCGACC
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.13, C:0.11, G:0.49, T:0.27
Consensus pattern (23 bp):
GGATCAGGTCGGGTCAATGGGTT
Found at i:1402312 original size:23 final size:23
Alignment explanation
Indices: 1402263--1402312 Score: 55
Period size: 23 Copynumber: 2.2 Consensus size: 23
1402253 GACAAGGACG
* * * **
1402263 GATCGGGTCGGGTTAGTGGGTTG
1 GATCAGGTCGGGTCAATGGGTCA
1402286 GATCAGGTCGGGTCAATGGGTCA
1 GATCAGGTCGGGTCAATGGGTCA
1402309 GATC
1 GATC
1402313 GACCCATTTC
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.16, C:0.14, G:0.44, T:0.26
Consensus pattern (23 bp):
GATCAGGTCGGGTCAATGGGTCA
Found at i:1402826 original size:29 final size:30
Alignment explanation
Indices: 1402780--1402836 Score: 80
Period size: 29 Copynumber: 1.9 Consensus size: 30
1402770 GTTGGATCCA
* * *
1402780 AATTTAATCAAAATTTCACTTTGGTCCTAG
1 AATTAAATCAAAATTTCAATTTAGTCCTAG
1402810 AATTAAATCAAAA-TTCAATTTAGTCCT
1 AATTAAATCAAAATTTCAATTTAGTCCT
1402837 TGAAAATTTT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
29 12 0.50
30 12 0.50
ACGTcount: A:0.39, C:0.16, G:0.07, T:0.39
Consensus pattern (30 bp):
AATTAAATCAAAATTTCAATTTAGTCCTAG
Found at i:1404472 original size:19 final size:20
Alignment explanation
Indices: 1404425--1404484 Score: 59
Period size: 20 Copynumber: 3.0 Consensus size: 20
1404415 TGGGTTTGAG
* *
1404425 TACCGATTCTGGATGAACAG
1 TACCGATACTGGATGAACAA
**
1404445 TACTAATACTGG-TGAACAA
1 TACCGATACTGGATGAACAA
* *
1404464 TACCGATACTAGACGAACAA
1 TACCGATACTGGATGAACAA
1404484 T
1 T
1404485 GCCAATAATG
Statistics
Matches: 31, Mismatches: 8, Indels: 2
0.76 0.20 0.05
Matches are distributed among these distances:
19 15 0.48
20 16 0.52
ACGTcount: A:0.38, C:0.20, G:0.18, T:0.23
Consensus pattern (20 bp):
TACCGATACTGGATGAACAA
Found at i:1404525 original size:15 final size:15
Alignment explanation
Indices: 1404505--1404537 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
1404495 GTATTATATG
*
1404505 GTAATATTAGTACTT
1 GTAATAGTAGTACTT
1404520 GTAATAGTAGTACTT
1 GTAATAGTAGTACTT
1404535 GTA
1 GTA
1404538 TTAGAAATAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.33, C:0.06, G:0.18, T:0.42
Consensus pattern (15 bp):
GTAATAGTAGTACTT
Found at i:1418989 original size:2 final size:2
Alignment explanation
Indices: 1418984--1419016 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
1418974 GAAAGAAAAA
1418984 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1419017 AATTATAAAT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:1429151 original size:39 final size:39
Alignment explanation
Indices: 1428963--1429154 Score: 167
Period size: 39 Copynumber: 5.0 Consensus size: 39
1428953 CCTAAACACC
* *
1428963 CAGTAAGGGCTTA-CCT-ATGCACAAAGCAGAGGAGCCTA
1 CAGTAAGGACTTACCCTGA-GCACAAAGCAGAGGAGCCTG
* *** * * * *
1429001 CAGTAAGGTCTTATATTGTGAACAAAGCAGATGAGCTTG
1 CAGTAAGGACTTACCCTGAGCACAAAGCAGAGGAGCCTG
* * * * *
1429040 TAGTAAGGACATACCCTGAGCACAAAGCCGATGAG-TTG
1 CAGTAAGGACTTACCCTGAGCACAAAGCAGAGGAGCCTG
* * *
1429078 CAGTAAGGACTTACTCTTACCACAAAGCCA-AGGAGCCTG
1 CAGTAAGGACTTACCCTGAGCACAAAG-CAGAGGAGCCTG
*
1429117 CAGTAAGGACTTACCCTGAGCACAAAGCTGAGGAGCCT
1 CAGTAAGGACTTACCCTGAGCACAAAGCAGAGGAGCCT
1429155 ATAGAAAACG
Statistics
Matches: 120, Mismatches: 29, Indels: 9
0.76 0.18 0.06
Matches are distributed among these distances:
38 42 0.35
39 78 0.65
ACGTcount: A:0.33, C:0.22, G:0.25, T:0.19
Consensus pattern (39 bp):
CAGTAAGGACTTACCCTGAGCACAAAGCAGAGGAGCCTG
Found at i:1429988 original size:16 final size:16
Alignment explanation
Indices: 1429967--1430005 Score: 69
Period size: 16 Copynumber: 2.4 Consensus size: 16
1429957 AATGGTTAGT
1429967 GGGTCGGATCAGATAC
1 GGGTCGGATCAGATAC
*
1429983 GGGTCGGGTCAGATAC
1 GGGTCGGATCAGATAC
1429999 GGGTCGG
1 GGGTCGG
1430006 TTCCAAGCAG
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.18, C:0.18, G:0.46, T:0.18
Consensus pattern (16 bp):
GGGTCGGATCAGATAC
Found at i:1434443 original size:5 final size:5
Alignment explanation
Indices: 1434433--1434459 Score: 54
Period size: 5 Copynumber: 5.4 Consensus size: 5
1434423 TAGGGGTGTT
1434433 TTCGG TTCGG TTCGG TTCGG TTCGG TT
1 TTCGG TTCGG TTCGG TTCGG TTCGG TT
1434460 TTTTACCAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 22 1.00
ACGTcount: A:0.00, C:0.19, G:0.37, T:0.44
Consensus pattern (5 bp):
TTCGG
Found at i:1434572 original size:19 final size:19
Alignment explanation
Indices: 1434548--1434615 Score: 81
Period size: 19 Copynumber: 3.7 Consensus size: 19
1434538 AAACCGAAAC
1434548 CGGTTTTTTCGGTTCGGTT
1 CGGTTTTTTCGGTTCGGTT
*
1434567 CGGTTTTTT---TAACGGTT
1 CGGTTTTTTCGGT-TCGGTT
*
1434584 CGGGTTTTTCGGTTCGGTT
1 CGGTTTTTTCGGTTCGGTT
1434603 CGG-TTTTTCGGTT
1 CGGTTTTTTCGGTT
1434616 TCAATAAAAA
Statistics
Matches: 42, Mismatches: 3, Indels: 9
0.78 0.06 0.17
Matches are distributed among these distances:
16 1 0.02
17 13 0.31
18 10 0.24
19 17 0.40
20 1 0.02
ACGTcount: A:0.03, C:0.15, G:0.31, T:0.51
Consensus pattern (19 bp):
CGGTTTTTTCGGTTCGGTT
Found at i:1434607 original size:18 final size:18
Alignment explanation
Indices: 1434552--1434615 Score: 80
Period size: 18 Copynumber: 3.6 Consensus size: 18
1434542 CGAAACCGGT
1434552 TTTTTCGGTTCGGTTCGG
1 TTTTTCGGTTCGGTTCGG
1434570 TTTTT---TTAACGGTTCGGG
1 TTTTTCGGTT--CGGTTC-GG
1434588 TTTTTCGGTTCGGTTCGG
1 TTTTTCGGTTCGGTTCGG
1434606 TTTTTCGGTT
1 TTTTTCGGTT
1434616 TCAATAAAAA
Statistics
Matches: 40, Mismatches: 0, Indels: 12
0.77 0.00 0.23
Matches are distributed among these distances:
15 2 0.05
17 6 0.15
18 24 0.60
19 6 0.15
21 2 0.05
ACGTcount: A:0.03, C:0.14, G:0.30, T:0.53
Consensus pattern (18 bp):
TTTTTCGGTTCGGTTCGG
Found at i:1435674 original size:22 final size:22
Alignment explanation
Indices: 1435631--1435858 Score: 137
Period size: 22 Copynumber: 10.0 Consensus size: 22
1435621 TTTTTATCAT
1435631 ATAATATATAGTTTTGTCGAAAAA
1 ATAATATATAGTTTT-T-GAAAAA
* *
1435655 ATAATATATGGTTTTTGAAAAT
1 ATAATATATAGTTTTTGAAAAA
*
1435677 ATACAGTATAT--CTTTT-AAAAA
1 ATA-A-TATATAGTTTTTGAAAAA
* * *
1435698 CAT-ATGGTATAGTTTTTGAATAC
1 -ATAAT-ATATAGTTTTTGAAAAA
*
1435721 ATATTATATAGTTTTTGAACAACAA
1 ATAATATATAGTTTTTG-A-AA-AA
*
1435746 ATAATATATAGTTTTTGAAAAT
1 ATAATATATAGTTTTTGAAAAA
* *
1435768 AT-ATAGTATATTTTTTGAAAAC
1 ATAATA-TATAGTTTTTGAAAAA
* * **
1435790 ATAATATAAACTTTTAAAAAAACA
1 ATAATATATAGTTTT-TGAAAA-A
1435814 TATAATATATAGTTTTTG-AAAA
1 -ATAATATATAGTTTTTGAAAAA
* *
1435836 AT-ATAGCATAGTTTTTTAAAAA
1 ATAATA-TATAGTTTTTGAAAAA
1435858 A
1 A
1435859 ACATATTATA
Statistics
Matches: 159, Mismatches: 27, Indels: 38
0.71 0.12 0.17
Matches are distributed among these distances:
19 1 0.01
20 7 0.04
21 18 0.11
22 63 0.40
23 19 0.12
24 21 0.13
25 30 0.19
ACGTcount: A:0.45, C:0.05, G:0.09, T:0.41
Consensus pattern (22 bp):
ATAATATATAGTTTTTGAAAAA
Found at i:1435760 original size:47 final size:47
Alignment explanation
Indices: 1435654--1435795 Score: 145
Period size: 47 Copynumber: 3.1 Consensus size: 47
1435644 TTGTCGAAAA
* * *
1435654 AATAATATATGGTTTTTGAAAATATACAGTATA-TCTTTTAAAAACAT
1 AATAATATATAGTTTTTGAAAATATATAGTATAGT-TTTTGAAAACAT
**
1435701 -AT--GGTATAGTTTTTGAATACATAT-TA-TATAGTTTTTGAACAACA-
1 AATAATATATAGTTTTTGAA-A-ATATATAGTATAGTTTTTGAA-AACAT
*
1435745 AATAATATATAGTTTTTGAAAATATATAGTATATTTTTTGAAAACAT
1 AATAATATATAGTTTTTGAAAATATATAGTATAGTTTTTGAAAACAT
1435792 AATA
1 AATA
1435796 TAAACTTTTA
Statistics
Matches: 77, Mismatches: 8, Indels: 20
0.73 0.08 0.19
Matches are distributed among these distances:
44 22 0.29
45 13 0.17
46 13 0.17
47 29 0.38
ACGTcount: A:0.43, C:0.05, G:0.10, T:0.42
Consensus pattern (47 bp):
AATAATATATAGTTTTTGAAAATATATAGTATAGTTTTTGAAAACAT
Found at i:1435783 original size:69 final size:68
Alignment explanation
Indices: 1435689--1435857 Score: 194
Period size: 69 Copynumber: 2.4 Consensus size: 68
1435679 ACAGTATATC
* * * * * * * ** *
1435689 TTTTAAAAACATATGGTATAGTTTTTGAATACATATTATATAGTTTTTGAACAACAAATAATATA
1 TTTTGAAAA-ATATAGTATATTTTTTGAAAACATAATATAAACTTTTAAAAAAACAAATAATATA
1435754 TAGT
65 TAGT
*
1435758 TTTTGAAAATATATAGTATATTTTTTGAAAACATAATATAAACTTTTAAAAAAACATATAATATA
1 TTTTGAAAA-ATATAGTATATTTTTTGAAAACATAATATAAACTTTTAAAAAAACAAATAATATA
1435823 TAGT
65 TAGT
* *
1435827 TTTTGAAAAATATAGCATAGTTTTTTAAAAA
1 TTTTGAAAAATATAGTATA-TTTTTTGAAAA
1435858 AACATATTAT
Statistics
Matches: 85, Mismatches: 14, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
68 9 0.11
69 76 0.89
ACGTcount: A:0.46, C:0.05, G:0.08, T:0.41
Consensus pattern (68 bp):
TTTTGAAAAATATAGTATATTTTTTGAAAACATAATATAAACTTTTAAAAAAACAAATAATATAT
AGT
Found at i:1435889 original size:21 final size:21
Alignment explanation
Indices: 1435856--1435895 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
1435846 GTTTTTTAAA
*
1435856 AAAACATATTATATGATATTC
1 AAAACATAATATATGATATTC
* *
1435877 AAAATATAATATATTATAT
1 AAAACATAATATATGATAT
1435896 AGTTTTTAAT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.53, C:0.05, G:0.03, T:0.40
Consensus pattern (21 bp):
AAAACATAATATATGATATTC
Found at i:1440548 original size:24 final size:24
Alignment explanation
Indices: 1440521--1440588 Score: 73
Period size: 24 Copynumber: 2.8 Consensus size: 24
1440511 TCAAGGGAAC
* * *
1440521 TCATCTCCTGTAAAATCACAAGCT
1 TCATCTACTGCAAAAGCACAAGCT
*
1440545 TCATCTACTGCAAAAGCACAAGTT
1 TCATCTACTGCAAAAGCACAAGCT
** *
1440569 TTGTCTGCTGCAAAAGCACA
1 TCATCTACTGCAAAAGCACA
1440589 TGCCTCTGTA
Statistics
Matches: 37, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
24 37 1.00
ACGTcount: A:0.34, C:0.26, G:0.13, T:0.26
Consensus pattern (24 bp):
TCATCTACTGCAAAAGCACAAGCT
Found at i:1454368 original size:23 final size:23
Alignment explanation
Indices: 1454342--1454396 Score: 74
Period size: 25 Copynumber: 2.3 Consensus size: 23
1454332 TTTGAAAACG
*
1454342 TTTTGAATATATATAATATATAA
1 TTTTGAACATATATAATATATAA
*
1454365 TTTTGAAAACATATATAATATATAG
1 TTTTG--AACATATATAATATATAA
1454390 TTTTGAA
1 TTTTGAA
1454397 AAACATTTTG
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
23 7 0.25
25 21 0.75
ACGTcount: A:0.45, C:0.02, G:0.07, T:0.45
Consensus pattern (23 bp):
TTTTGAACATATATAATATATAA
Found at i:1454378 original size:27 final size:25
Alignment explanation
Indices: 1454350--1454398 Score: 89
Period size: 25 Copynumber: 2.0 Consensus size: 25
1454340 CGTTTTGAAT
1454350 ATATATAATATATAATTTTGAAAAC
1 ATATATAATATATAATTTTGAAAAC
*
1454375 ATATATAATATATAGTTTTGAAAA
1 ATATATAATATATAATTTTGAAAA
1454399 ACATTTTGAA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.51, C:0.02, G:0.06, T:0.41
Consensus pattern (25 bp):
ATATATAATATATAATTTTGAAAAC
Found at i:1454408 original size:37 final size:37
Alignment explanation
Indices: 1454364--1454536 Score: 181
Period size: 37 Copynumber: 4.6 Consensus size: 37
1454354 ATAATATATA
*
1454364 ATTTTGAAAACATATATAATATATAGTTTTGAAAAAC
1 ATTTTGAAAATATATATAATATATAGTTTTGAAAAAC
*
1454401 ATTTTGAAAATATATATAATATACAGTTTTG-AAAAC
1 ATTTTGAAAATATATATAATATATAGTTTTGAAAAAC
* * * * *
1454437 GTTTTGGAAAATATATATAATATATAATATAGAAAAAT
1 ATTTT-GAAAATATATATAATATATAGTTTTGAAAAAC
*
1454475 ATTTTTGAAAATATATATAATATCT-GATTTTGAAAATA-
1 A-TTTTGAAAATATATATAATATATAG-TTTTGAAAA-AC
* *
1454513 TTTTTCAAAAAATATATATAATAT
1 ATTTT--GAAAATATATATAATAT
1454537 TATTTTTTAA
Statistics
Matches: 114, Mismatches: 15, Indels: 12
0.81 0.11 0.09
Matches are distributed among these distances:
36 9 0.08
37 55 0.48
38 29 0.25
39 21 0.18
ACGTcount: A:0.49, C:0.03, G:0.08, T:0.40
Consensus pattern (37 bp):
ATTTTGAAAATATATATAATATATAGTTTTGAAAAAC
Found at i:1454510 original size:75 final size:73
Alignment explanation
Indices: 1454365--1454510 Score: 204
Period size: 74 Copynumber: 2.0 Consensus size: 73
1454355 TAATATATAA
* * *
1454365 TTTTGAAAACATATATAATATATAGTTTTGAAAAACATTTTGAAAATATATATAATATACAGTTT
1 TTTTGAAAACATATATAATATATAATATAGAAAAACATTTTGAAAATATATATAATATACAGTTT
1454430 TGAAAACG
66 TGAAAACG
* * *
1454438 TTTTGGAAAATATATATAATATATAATATAGAAAAATATTTTTGAAAATATATATAATAT-CTGA
1 TTTT-GAAAACATATATAATATATAATATAGAAAAACA-TTTTGAAAATATATATAATATACAG-
1454502 TTTTGAAAA
63 TTTTGAAAA
1454511 TATTTTTCAA
Statistics
Matches: 64, Mismatches: 6, Indels: 4
0.86 0.08 0.05
Matches are distributed among these distances:
73 4 0.06
74 30 0.47
75 30 0.47
ACGTcount: A:0.48, C:0.03, G:0.09, T:0.40
Consensus pattern (73 bp):
TTTTGAAAACATATATAATATATAATATAGAAAAACATTTTGAAAATATATATAATATACAGTTT
TGAAAACG
Found at i:1454528 original size:75 final size:74
Alignment explanation
Indices: 1454365--1454530 Score: 208
Period size: 75 Copynumber: 2.2 Consensus size: 74
1454355 TAATATATAA
* * * *
1454365 TTTTGAAAACATATATAATATATAGTTTTGAAAAACATTTTGAAAATATATATAATATACAGTTT
1 TTTTGAAAAAATATATAATATATAATATAGAAAAACATTTTGAAAATATATATAATATACAGTTT
*
1454430 TGAAAACGT
66 TGAAAACAT
* * * *
1454439 TTTGGAAAATATATATAATATATAATATAGAAAAATATTTTTGAAAATATATATAATAT-CTGAT
1 TTTTGAAAAAATATATAATATATAATATAGAAAAACA-TTTTGAAAATATATATAATATACAG-T
*
1454503 TTTGAAAATAT
64 TTTGAAAACAT
*
1454514 TTTTCAAAAAATATATA
1 TTTTGAAAAAATATATA
1454531 TAATATTATT
Statistics
Matches: 78, Mismatches: 12, Indels: 3
0.84 0.13 0.03
Matches are distributed among these distances:
74 33 0.42
75 45 0.58
ACGTcount: A:0.48, C:0.04, G:0.08, T:0.40
Consensus pattern (74 bp):
TTTTGAAAAAATATATAATATATAATATAGAAAAACATTTTGAAAATATATATAATATACAGTTT
TGAAAACAT
Found at i:1454549 original size:75 final size:74
Alignment explanation
Indices: 1454370--1454557 Score: 193
Period size: 75 Copynumber: 2.5 Consensus size: 74
1454360 TATAATTTTG
* * *
1454370 AAAACATATATAATATATAGTTTTGAAAAACA-TTTTGAAAATATATATAATATACAGTTTTGAA
1 AAAATATATATAATATATA-TTTTTAAAAATATTTTTGAAAATATATATAATATACAGTTTTGAA
* **
1454434 AACGTTTTGG
65 AAAGTTTTAA
* ** *
1454444 AAAATATATATAATATATAATATAGAAAAATATTTTTGAAAATATATATAATAT-CTGATTTTGA
1 AAAATATATATAATATAT-ATTTTTAAAAATATTTTTGAAAATATATATAATATACAG-TTTTGA
*
1454508 AAATATTTTTCAA
64 AAA-AGTTTT-AA
1454521 AAAATATATATAATAT-TATTTTTTAAAATATATTTTT
1 AAAATATATATAATATATA-TTTTTAAAA-ATATTTTT
1454558 TATTTATATT
Statistics
Matches: 95, Mismatches: 12, Indels: 11
0.81 0.10 0.09
Matches are distributed among these distances:
74 28 0.29
75 32 0.34
76 11 0.12
77 24 0.25
ACGTcount: A:0.48, C:0.03, G:0.06, T:0.43
Consensus pattern (74 bp):
AAAATATATATAATATATATTTTTAAAAATATTTTTGAAAATATATATAATATACAGTTTTGAAA
AAGTTTTAA
Found at i:1458362 original size:3 final size:3
Alignment explanation
Indices: 1458354--1458394 Score: 82
Period size: 3 Copynumber: 13.7 Consensus size: 3
1458344 AATTACACAC
1458354 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
1458395 CCCCACATAA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 38 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
ATA
Found at i:1461254 original size:6 final size:5
Alignment explanation
Indices: 1461180--1461265 Score: 50
Period size: 5 Copynumber: 16.4 Consensus size: 5
1461170 CACCTATTTG
* * *
1461180 TTTTA TTTTA TTTATA TGTATA TTTTC TTAATA TTTTA -TTTA -TTTA
1 TTTTA TTTTA TTT-TA T-TTTA TTTTA TT-TTA TTTTA TTTTA TTTTA
* * *
1461226 TATTA CTATTA TTTTC TTTTA TTTATA TTTTA TTTCTA TT
1 TTTTA -TTTTA TTTTA TTTTA TTT-TA TTTTA TTT-TA TT
1461266 CTTTATATAT
Statistics
Matches: 64, Mismatches: 10, Indels: 13
0.74 0.11 0.15
Matches are distributed among these distances:
4 8 0.12
5 32 0.50
6 23 0.36
7 1 0.02
ACGTcount: A:0.24, C:0.05, G:0.01, T:0.70
Consensus pattern (5 bp):
TTTTA
Found at i:1461256 original size:11 final size:11
Alignment explanation
Indices: 1461180--1461265 Score: 58
Period size: 11 Copynumber: 8.2 Consensus size: 11
1461170 CACCTATTTG
1461180 TTTTATTT-TA
1 TTTTATTTATA
*
1461190 TTTATATGTATA
1 TTT-TATTTATA
* *
1461202 TTTTCTTAATA
1 TTTTATTTATA
1461213 TTTTATTTAT-
1 TTTTATTTATA
*
1461223 TTATA-TTACTA
1 TTTTATTTA-TA
*
1461234 --TTATTT-TC
1 TTTTATTTATA
1461242 TTTTATTTATA
1 TTTTATTTATA
*
1461253 TTTTATTTCTA
1 TTTTATTTATA
1461264 TT
1 TT
1461266 CTTTATATAT
Statistics
Matches: 57, Mismatches: 11, Indels: 15
0.69 0.13 0.18
Matches are distributed among these distances:
8 1 0.02
9 5 0.09
10 16 0.28
11 30 0.53
12 5 0.09
ACGTcount: A:0.24, C:0.05, G:0.01, T:0.70
Consensus pattern (11 bp):
TTTTATTTATA
Found at i:1461456 original size:16 final size:17
Alignment explanation
Indices: 1461431--1461466 Score: 56
Period size: 16 Copynumber: 2.2 Consensus size: 17
1461421 AACCATATCT
1461431 TATTATTATTATATAGA
1 TATTATTATTATATAGA
*
1461448 TATTA-TATTATATATA
1 TATTATTATTATATAGA
1461464 TAT
1 TAT
1461467 AACCTAACAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 13 0.72
17 5 0.28
ACGTcount: A:0.42, C:0.00, G:0.03, T:0.56
Consensus pattern (17 bp):
TATTATTATTATATAGA
Found at i:1461568 original size:18 final size:19
Alignment explanation
Indices: 1461530--1461576 Score: 78
Period size: 19 Copynumber: 2.5 Consensus size: 19
1461520 ACCAAACCTT
1461530 TATCCTTTTTTCAAATCTG
1 TATCCTTTTTTCAAATCTG
1461549 TATCCTTTTTTCAAAT-TG
1 TATCCTTTTTTCAAATCTG
1461567 TATCCCTTTT
1 TAT-CCTTTT
1461577 CTATTTTCGG
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
18 5 0.19
19 22 0.81
ACGTcount: A:0.19, C:0.21, G:0.04, T:0.55
Consensus pattern (19 bp):
TATCCTTTTTTCAAATCTG
Found at i:1461818 original size:16 final size:17
Alignment explanation
Indices: 1461793--1461833 Score: 57
Period size: 16 Copynumber: 2.5 Consensus size: 17
1461783 TGTGTTTGTT
*
1461793 TTTATTTTATTAATTTA
1 TTTATCTTATTAATTTA
*
1461810 -TTATCTTATTTATTTA
1 TTTATCTTATTAATTTA
1461826 TTTATCTT
1 TTTATCTT
1461834 CTCTTTTTTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
16 14 0.67
17 7 0.33
ACGTcount: A:0.24, C:0.05, G:0.00, T:0.71
Consensus pattern (17 bp):
TTTATCTTATTAATTTA
Found at i:1462859 original size:6 final size:6
Alignment explanation
Indices: 1462848--1462893 Score: 62
Period size: 6 Copynumber: 8.2 Consensus size: 6
1462838 TTTCTTGCCA
*
1462848 TTTATT TTTATT TTTA-- -TTATT TTTATT TTTATA TTTATT TTTATT
1 TTTATT TTTATT TTTATT TTTATT TTTATT TTTATT TTTATT TTTATT
1462893 T
1 T
1462894 AACTGTTTAC
Statistics
Matches: 35, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
3 3 0.09
6 32 0.91
ACGTcount: A:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (6 bp):
TTTATT
Found at i:1462867 original size:15 final size:15
Alignment explanation
Indices: 1462849--1462892 Score: 67
Period size: 15 Copynumber: 3.1 Consensus size: 15
1462839 TTCTTGCCAT
1462849 TTATTTTTATTTTTA
1 TTATTTTTATTTTTA
1462864 TTATTTTTATTTTTA
1 TTATTTTTATTTTTA
1462879 -TA--TTTATTTTTA
1 TTATTTTTATTTTTA
1462891 TT
1 TT
1462893 TAACTGTTTA
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
12 10 0.36
13 1 0.04
14 2 0.07
15 15 0.54
ACGTcount: A:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (15 bp):
TTATTTTTATTTTTA
Found at i:1473285 original size:105 final size:105
Alignment explanation
Indices: 1473156--1473967 Score: 1006
Period size: 105 Copynumber: 7.6 Consensus size: 105
1473146 TTTCAACTCC
* *
1473156 ACGAATGGACCGCTGGTTGTCAACAACAACTTCCTAATTTCAGAGCCAATTTCAACTTCACAGCG
1 ACGAAGGGACCGCTGGTTGTCAACAACAACTTCCCAATTTCAGAGCCAATTTCAACTTCACAGCG
1473221 AAGGATATTGGACTCCAGACAACACAAGTTCAACTTCACG
66 AAGGATATTGGACTCCAGACAACACAAGTTCAACTTCACG
* *
1473261 ACGAAGGGACCGCTAGTTGTCAACAACAACTTCCTAATTTCAGAGCCAATTTCAACTTCACAGCG
1 ACGAAGGGACCGCTGGTTGTCAACAACAACTTCCCAATTTCAGAGCCAATTTCAACTTCACAGCG
*
1473326 AAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACG
66 AAGGATATTGGACTCCAGACAACACAAGTTCAACTTCACG
1473366 ACGAAGGGACCGCTGGTTGTCAACAACAACTTCCCAATTTCAGAGCCAATTTCAACTTCACAGCG
1 ACGAAGGGACCGCTGGTTGTCAACAACAACTTCCCAATTTCAGAGCCAATTTCAACTTCACAGCG
* *
1473431 AAGGATATTGGACTCCAGACAACGCAAGTTTAACTTCACG
66 AAGGATATTGGACTCCAGACAACACAAGTTCAACTTCACG
* * *
1473471 ACGAAGGGACCGCTGGTTGTCAATAATAACTTCCCAATGTCAGAGCCAATTTCAACTTCACAGCG
1 ACGAAGGGACCGCTGGTTGTCAACAACAACTTCCCAATTTCAGAGCCAATTTCAACTTCACAGCG
* *
1473536 AAGGATATT-GACTCCAGACATCGCAAGTTCAACTTCACG
66 AAGGATATTGGACTCCAGACAACACAAGTTCAACTTCACG
* * *
1473575 ACGAAGGGACCGTTGGTTGTCAATAAACAATTTCCCAATTTCAGAGCCAATTTCAACTTCACAGC
1 ACGAAGGGACCGCTGGTTGTCAA-CAACAACTTCCCAATTTCAGAGCCAATTTCAACTTCACAGC
* * *
1473640 GAAGGATATTGGACTCGAAACAACACAAGTTCAACTTCACA
65 GAAGGATATTGGACTCCAGACAACACAAGTTCAACTTCACG
** * ** * *
1473681 ACGAAGGGA-CGACTGGTTGTCAACAAGCAACTTTTCAGTTTC-GCCCGCAATTTTAACTCCACG
1 ACGAAGGGACCG-CTGGTTGTCAACAA-CAACTTCCCAATTTCAGAGC-CAATTTCAACTTCAC-
* * *
1473744 ATG-G-AGGATATCGTGCCACTCGAGACAACACAAGTTCAACTTCACA
62 A-GCGAAGGATAT--TG-GACTCCAGACAACACAAGTTCAACTTCACG
* *
1473790 ACGAAGGGACGGCTGGTTGTCAACGAACAATTTCCCAATTTCCTAATTTCAGAGCCAATTTTCAA
1 ACGAAGGGACCGCTGGTTGTCAAC-AACAA-----C---TTCCCAATTTCAGAGCCAA-TTTCAA
* * * *
1473855 CTTCACAGCGAAGGATATTAGACTCAAGACAGCACAAGCTCAACTTCAC-
56 CTTCACAGCGAAGGATATTGGACTCCAGACAACACAAGTTCAACTTCACG
* * ** * * ** *
1473904 AGCGAAGGGGCGGCTGACTGTCAACAAACAATTTCCCAATTCCAGATACAATTCCAACTTCACA
1 A-CGAAGGGACCGCTGGTTGTCAAC-AACAACTTCCCAATTTCAGAGCCAATTTCAACTTCACA
1473968 AATAGATTGA
Statistics
Matches: 625, Mismatches: 57, Indels: 49
0.85 0.08 0.07
Matches are distributed among these distances:
104 50 0.08
105 328 0.52
106 87 0.14
107 17 0.03
108 3 0.00
109 52 0.08
110 3 0.00
114 2 0.00
115 50 0.08
116 2 0.00
117 12 0.02
118 19 0.03
ACGTcount: A:0.33, C:0.26, G:0.18, T:0.23
Consensus pattern (105 bp):
ACGAAGGGACCGCTGGTTGTCAACAACAACTTCCCAATTTCAGAGCCAATTTCAACTTCACAGCG
AAGGATATTGGACTCCAGACAACACAAGTTCAACTTCACG
Found at i:1475479 original size:29 final size:29
Alignment explanation
Indices: 1475447--1475503 Score: 80
Period size: 29 Copynumber: 2.0 Consensus size: 29
1475437 TTTCTTAATA
1475447 TTTTATTTAT-TTATATTACTATTATTTTC
1 TTTTATTTATATT-TATTACTATTATTTTC
* *
1475476 TTTTATTTATATTTATTTCTATTCTTTT
1 TTTTATTTATATTTATTACTATTATTTT
1475504 TATATACATT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
29 23 0.92
30 2 0.08
ACGTcount: A:0.21, C:0.07, G:0.00, T:0.72
Consensus pattern (29 bp):
TTTTATTTATATTTATTACTATTATTTTC
Found at i:1475489 original size:35 final size:33
Alignment explanation
Indices: 1475414--1475498 Score: 95
Period size: 35 Copynumber: 2.5 Consensus size: 33
1475404 ATCTATTTGT
1475414 TTTAT-TTTATTTATATGTATATTTTTCTTAATA
1 TTTATATTTATTTATAT-TATATTTTTCTTAATA
*
1475447 TTT-TATTTATTTATATTACTATTATTTTCTT-TTA
1 TTTATATTTATTTATATTA-TA-T-TTTTCTTAATA
*
1475481 TTTATATTTATTTCTATT
1 TTTATATTTATTTATATT
1475499 CTTTTTATAT
Statistics
Matches: 45, Mismatches: 2, Indels: 8
0.82 0.04 0.15
Matches are distributed among these distances:
32 3 0.07
33 16 0.36
34 6 0.13
35 20 0.44
ACGTcount: A:0.25, C:0.05, G:0.01, T:0.69
Consensus pattern (33 bp):
TTTATATTTATTTATATTATATTTTTCTTAATA
Found at i:1475804 original size:20 final size:19
Alignment explanation
Indices: 1475759--1475808 Score: 75
Period size: 19 Copynumber: 2.6 Consensus size: 19
1475749 ACCAAACCTT
1475759 TATCCTTTTTTCAAATCTG
1 TATCCTTTTTTCAAATCTG
1475778 TATCCTTTTTTCAAAT-TCG
1 TATCCTTTTTTCAAATCT-G
*
1475797 TATCCCTTTTTC
1 TATCCTTTTTTC
1475809 TATTTTCGGT
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
18 1 0.03
19 28 0.97
ACGTcount: A:0.18, C:0.24, G:0.04, T:0.54
Consensus pattern (19 bp):
TATCCTTTTTTCAAATCTG
Found at i:1476048 original size:16 final size:17
Alignment explanation
Indices: 1476023--1476063 Score: 57
Period size: 16 Copynumber: 2.5 Consensus size: 17
1476013 TGTGTTTGTT
*
1476023 TTTATTTTATTAATTTA
1 TTTATCTTATTAATTTA
*
1476040 -TTATCTTATTTATTTA
1 TTTATCTTATTAATTTA
1476056 TTTATCTT
1 TTTATCTT
1476064 CGCTTTTTTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
16 14 0.67
17 7 0.33
ACGTcount: A:0.24, C:0.05, G:0.00, T:0.71
Consensus pattern (17 bp):
TTTATCTTATTAATTTA
Found at i:1478064 original size:14 final size:15
Alignment explanation
Indices: 1478031--1478063 Score: 66
Period size: 15 Copynumber: 2.2 Consensus size: 15
1478021 TATTAAAGTC
1478031 AAAATATTTACCTGA
1 AAAATATTTACCTGA
1478046 AAAATATTTACCTGA
1 AAAATATTTACCTGA
1478061 AAA
1 AAA
1478064 TTCATAGAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.52, C:0.12, G:0.06, T:0.30
Consensus pattern (15 bp):
AAAATATTTACCTGA
Found at i:1479218 original size:13 final size:13
Alignment explanation
Indices: 1479202--1479242 Score: 64
Period size: 13 Copynumber: 3.2 Consensus size: 13
1479192 TTTACAAATA
1479202 ATTTTTATATATT
1 ATTTTTATATATT
* *
1479215 ATTTTTATAAAAT
1 ATTTTTATATATT
1479228 ATTTTTATATATT
1 ATTTTTATATATT
1479241 AT
1 AT
1479243 GAATAAATAA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
13 24 1.00
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (13 bp):
ATTTTTATATATT
Found at i:1479248 original size:24 final size:26
Alignment explanation
Indices: 1479197--1479254 Score: 68
Period size: 26 Copynumber: 2.3 Consensus size: 26
1479187 TAATCTTTAC
**
1479197 AAATAATTTTTATATATTATTTTTATA
1 AAATAATTTTTATATATTA-TTGAATA
1479224 AAAT-ATTTTTATATATTA-TGAAT-
1 AAATAATTTTTATATATTATTGAATA
1479247 AAATAATT
1 AAATAATT
1479255 AGGGTGGAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
23 4 0.14
24 6 0.21
26 14 0.50
27 4 0.14
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.53
Consensus pattern (26 bp):
AAATAATTTTTATATATTATTGAATA
Found at i:1479305 original size:30 final size:29
Alignment explanation
Indices: 1479269--1479351 Score: 82
Period size: 29 Copynumber: 2.8 Consensus size: 29
1479259 TGGAAAATGC
*
1479269 TATTTATAAA-TATATTATTTTTATAAATAA
1 TATTTATAAAGTA-A-TATATTTATAAATAA
1479299 TATTTATAAAGTAATATATTTATAAAATTAA
1 TATTTATAAAGTAATATATTTAT-AAA-TAA
* *
1479330 TA--CATAAAATAATATATTTATA
1 TATTTATAAAGTAATATATTTATA
1479352 TTATAAACTA
Statistics
Matches: 47, Mismatches: 3, Indels: 8
0.81 0.05 0.14
Matches are distributed among these distances:
28 1 0.02
29 25 0.53
30 14 0.30
31 7 0.15
ACGTcount: A:0.51, C:0.01, G:0.01, T:0.47
Consensus pattern (29 bp):
TATTTATAAAGTAATATATTTATAAATAA
Found at i:1479319 original size:16 final size:15
Alignment explanation
Indices: 1479269--1479351 Score: 68
Period size: 17 Copynumber: 5.5 Consensus size: 15
1479259 TGGAAAATGC
1479269 TATTTATAAATATATTA
1 TATTTATAAATA-A-TA
*
1479286 TTTTTATAAAT-A-A
1 TATTTATAAATAATA
1479299 TATTTATAAAGTAATA
1 TATTTATAAA-TAATA
1479315 TATTTATAAAATTAATA
1 TATTTAT-AAA-TAATA
*
1479332 CA--TA-AAATAATA
1 TATTTATAAATAATA
1479344 TATTTATA
1 TATTTATA
1479352 TTATAAACTA
Statistics
Matches: 54, Mismatches: 5, Indels: 16
0.72 0.07 0.21
Matches are distributed among these distances:
12 6 0.11
13 13 0.24
14 3 0.06
15 5 0.09
16 8 0.15
17 19 0.35
ACGTcount: A:0.51, C:0.01, G:0.01, T:0.47
Consensus pattern (15 bp):
TATTTATAAATAATA
Found at i:1479331 original size:17 final size:16
Alignment explanation
Indices: 1479269--1479324 Score: 57
Period size: 16 Copynumber: 3.6 Consensus size: 16
1479259 TGGAAAATGC
1479269 TATTTATAAA-TATATTA
1 TATTTATAAAGTA-A-TA
*
1479286 TTTTTATAAA-T-A-A
1 TATTTATAAAGTAATA
1479299 TATTTATAAAGTAATA
1 TATTTATAAAGTAATA
1479315 TATTTATAAA
1 TATTTATAAA
1479325 ATTAATACAT
Statistics
Matches: 34, Mismatches: 2, Indels: 7
0.79 0.05 0.16
Matches are distributed among these distances:
13 10 0.29
14 1 0.03
15 2 0.06
16 11 0.32
17 10 0.29
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (16 bp):
TATTTATAAAGTAATA
Found at i:1479331 original size:31 final size:30
Alignment explanation
Indices: 1479269--1479352 Score: 93
Period size: 30 Copynumber: 2.8 Consensus size: 30
1479259 TGGAAAATGC
*
1479269 TATTTATAAAT-ATATTATTTTTATAAATAA
1 TATTTATAAATAATA-TATTTATATAAATAA
1479299 TATTTATAAAGTAATATATTTATA-AAATTAA
1 TATTTATAAA-TAATATATTTATATAAA-TAA
**
1479330 TACATA-AAATAATATATTTATAT
1 TATTTATAAATAATATATTTATAT
1479353 TATAAACTAA
Statistics
Matches: 47, Mismatches: 3, Indels: 8
0.81 0.05 0.14
Matches are distributed among these distances:
29 13 0.28
30 16 0.34
31 15 0.32
32 3 0.06
ACGTcount: A:0.50, C:0.01, G:0.01, T:0.48
Consensus pattern (30 bp):
TATTTATAAATAATATATTTATATAAATAA
Found at i:1479663 original size:2 final size:2
Alignment explanation
Indices: 1479658--1479693 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
1479648 TTTATTACAA
1479658 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1479694 CACGAATGAA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1479853 original size:2 final size:2
Alignment explanation
Indices: 1479846--1479879 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
1479836 CAGATTAATC
1479846 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1479880 TAAAAACTTT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1480544 original size:5 final size:5
Alignment explanation
Indices: 1480536--1480615 Score: 55
Period size: 5 Copynumber: 16.4 Consensus size: 5
1480526 ATTTATTTTA
*
1480536 AATAT AATAT AAT-T -ATAT CACATA- AAAAT -ATAT AATAT AATAT AATAT
1 AATAT AATAT AATAT AATAT -A-ATAT AATAT AATAT AATAT AATAT AATAT
* *
1480584 ATTATT AA-A- AATAT AATAT AAATAA AATAT AA
1 AATA-T AATAT AATAT AATAT -AATAT AATAT AA
1480616 ATGGGTAAAC
Statistics
Matches: 59, Mismatches: 6, Indels: 20
0.69 0.07 0.24
Matches are distributed among these distances:
3 4 0.07
4 8 0.14
5 38 0.64
6 6 0.10
7 3 0.05
ACGTcount: A:0.61, C:0.03, G:0.00, T:0.36
Consensus pattern (5 bp):
AATAT
Found at i:1480578 original size:33 final size:31
Alignment explanation
Indices: 1480536--1480614 Score: 90
Period size: 30 Copynumber: 2.5 Consensus size: 31
1480526 ATTTATTTTA
1480536 AATATAATATAATTATATCACATAAAAATATAT
1 AATATAATATAA-TATATCA-ATAAAAATATAT
* *
1480569 AATATAATATAATATAT-TATTAAAA-ATAT
1 AATATAATATAATATATCAATAAAAATATAT
*
1480598 AATATAAATAAAATATA
1 AATAT-AATATAATATA
1480615 AATGGGTAAA
Statistics
Matches: 42, Mismatches: 3, Indels: 5
0.84 0.06 0.10
Matches are distributed among these distances:
29 9 0.21
30 16 0.38
32 5 0.12
33 12 0.29
ACGTcount: A:0.61, C:0.03, G:0.00, T:0.37
Consensus pattern (31 bp):
AATATAATATAATATATCAATAAAAATATAT
Found at i:1480616 original size:24 final size:23
Alignment explanation
Indices: 1480560--1480616 Score: 62
Period size: 24 Copynumber: 2.4 Consensus size: 23
1480550 ATATCACATA
*
1480560 AAAATAT-ATAATATAATATAAT
1 AAAATATAAAAATATAATATAAT
* *
1480582 ATATTATTAAAAATATAATATAAAT
1 AAAATA-TAAAAATATAATAT-AAT
1480607 AAAATATAAA
1 AAAATATAAA
1480617 TGGGTAAACA
Statistics
Matches: 27, Mismatches: 5, Indels: 4
0.75 0.14 0.11
Matches are distributed among these distances:
22 4 0.15
23 1 0.04
24 15 0.56
25 7 0.26
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (23 bp):
AAAATATAAAAATATAATATAAT
Found at i:1497762 original size:2 final size:2
Alignment explanation
Indices: 1497755--1497809 Score: 110
Period size: 2 Copynumber: 27.5 Consensus size: 2
1497745 TAATATAAAC
1497755 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1497797 AT AT AT AT AT AT A
1 AT AT AT AT AT AT A
1497810 ATCGCAAAAT
Statistics
Matches: 53, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 53 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:1499232 original size:30 final size:30
Alignment explanation
Indices: 1499198--1499254 Score: 78
Period size: 30 Copynumber: 1.9 Consensus size: 30
1499188 TTTTTTTCGA
*
1499198 GGACTAAATTAAAATTTTAACTAAATTTAG
1 GGACTAAAGTAAAATTTTAACTAAATTTAG
* * *
1499228 GGACTAAAGTGAAATTTTGATTAAATT
1 GGACTAAAGTAAAATTTTAACTAAATT
1499255 CAAATCCAAA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
30 23 1.00
ACGTcount: A:0.44, C:0.05, G:0.14, T:0.37
Consensus pattern (30 bp):
GGACTAAAGTAAAATTTTAACTAAATTTAG
Found at i:1504526 original size:82 final size:82
Alignment explanation
Indices: 1504384--1505047 Score: 884
Period size: 82 Copynumber: 8.1 Consensus size: 82
1504374 CTTCGAGGAT
* * *
1504384 ATCAGACTGGATCTGTGCCTCTTTTT-GGGAATTCAGATCAATTTTTGAAGAAGTATATGCTCCA
1 ATCAGACTGGATATGTGCCTCTTTTTCGGGTATTCAGATCAATTTTTGAAGATGTATATGCTCCA
1504448 CTATTCATTCAGGGGAG
66 CTATTCATTCAGGGGAG
* *
1504465 ATCAGACTGGATATGTGCCTCTTTTTCGAGTATTCAGATCAATTTTTAAAGATGTATATGCTCCA
1 ATCAGACTGGATATGTGCCTCTTTTTCGGGTATTCAGATCAATTTTTGAAGATGTATATGCTCCA
* *
1504530 CTATTCATTTAGGGAAG
66 CTATTCATTCAGGGGAG
* * * * *
1504547 ATCAGACTGGATATGTGCCTCTTTTTCGGGTATTCAAATCAATATTTGAAAATGTATTTGCTCTA
1 ATCAGACTGGATATGTGCCTCTTTTTCGGGTATTCAGATCAATTTTTGAAGATGTATATGCTCCA
* *
1504612 CTATTCATTTAGGGAAG
66 CTATTCATTCAGGGGAG
* * * * *
1504629 ATCAGACTGGATCTGTGCCTCTTTTTCGGGTATTCAGATTAATTTTTGAAGATGTATCTACTTCA
1 ATCAGACTGGATATGTGCCTCTTTTTCGGGTATTCAGATCAATTTTTGAAGATGTATATGCTCCA
*
1504694 TTATTCATTCAGGGGAG
66 CTATTCATTCAGGGGAG
* * * * *
1504711 ATCATACTGGATCTATGCCTCTTTTTTCGGGTATTCAGATCAATTTTTGAATATGTATATGCTCT
1 ATCAGACTGGATATGTGCCTC-TTTTTCGGGTATTCAGATCAATTTTTGAAGATGTATATGCTCC
* * * *
1504776 ACTATTTATTTATGGAAG
65 ACTATTCATTCAGGGGAG
* * * * *
1504794 ATTAGACTGGATTTGTGCCTCTTTTTCGGGTATTTAGATCAATTTTTAAAGATGTATTTGCTCCA
1 ATCAGACTGGATATGTGCCTCTTTTTCGGGTATTCAGATCAATTTTTGAAGATGTATATGCTCCA
1504859 CTATTCATTCAGGGGAG
66 CTATTCATTCAGGGGAG
* ** * *
1504876 ATCAGACTGGATATATGCCTCTTTTTTAGGTATTCAGATCAATTTTTGAACAAGTAT-TGCTCCA
1 ATCAGACTGGATATGTGCCTCTTTTTCGGGTATTCAGATCAATTTTTGAAGATGTATATGCTCCA
*
1504940 CTATTCATTTAGGGGAG
66 CTATTCATTCAGGGGAG
* * *
1504957 ATCAAACTGGATCA-GTGCCTCTTTTTCGGGTATTCAGATCAATTTTTGAAGATGTATCTTCTCC
1 ATCAGACTGGAT-ATGTGCCTCTTTTTCGGGTATTCAGATCAATTTTTGAAGATGTATATGCTCC
*
1505021 ACTATTCAATCAGGGGAG
65 ACTATTCATTCAGGGGAG
*
1505039 ATTAGACTG
1 ATCAGACTG
1505048 AAAATTGATT
Statistics
Matches: 506, Mismatches: 73, Indels: 7
0.86 0.12 0.01
Matches are distributed among these distances:
81 97 0.19
82 342 0.68
83 67 0.13
ACGTcount: A:0.26, C:0.16, G:0.19, T:0.39
Consensus pattern (82 bp):
ATCAGACTGGATATGTGCCTCTTTTTCGGGTATTCAGATCAATTTTTGAAGATGTATATGCTCCA
CTATTCATTCAGGGGAG
Found at i:1504818 original size:247 final size:244
Alignment explanation
Indices: 1504384--1505047 Score: 936
Period size: 247 Copynumber: 2.7 Consensus size: 244
1504374 CTTCGAGGAT
*
1504384 ATCAGACTGGATCTGTGCCTCTTTTTGGGAATTCAGATCAATTTTTGAAGAAGTATATGCTCCAC
1 ATCAGACTGGATCTGTGCCTCTTTTTGGGTATTCAGATCAATTTTTGAAGAAGTAT-TGCTCCAC
* * * * *
1504449 TATTCATTCAGGGGAGATCAGACTGGATATGTGCCTCTTTTTCGAGTATTCAGATCAATTTTTAA
65 TATTCATTCAGGGGAGATCAAACTGGATCTATGCCTCTTTTTCGGGTATTCAGATCAATTTTTGA
1504514 AGATGTATATGCTCCACTATTCATTTAGGGAAGATCAGACTGGATATGTGCCTCTTTTTCGGGTA
130 AGATGTATATGCTCCACTATTCATTTAGGGAAGATCAGACTGGATATGTGCCTCTTTTTCGGGTA
* *
1504579 TTCAAATCAATATTTGAAA-ATGTATTTGCTCTACTATTCATTTAGGGAAG
195 TTCAAATCAAT-TTTGAAAGATGTATTTGCTCCACTATTCATTCAGGGAAG
* * * *
1504629 ATCAGACTGGATCTGTGCCTCTTTTTCGGGTATTCAGATTAATTTTTGAAGATGTATCTACTTCA
1 ATCAGACTGGATCTGTGCCTCTTTTT-GGGTATTCAGATCAATTTTTGAAGAAGTAT-TGCTCCA
* *
1504694 TTATTCATTCAGGGGAGATCATACTGGATCTATGCCTCTTTTTTCGGGTATTCAGATCAATTTTT
64 CTATTCATTCAGGGGAGATCAAACTGGATCTATGCCTC-TTTTTCGGGTATTCAGATCAATTTTT
* * * * * *
1504759 GAATATGTATATGCTCTACTATTTATTTATGGAAGATTAGACTGGATTTGTGCCTCTTTTTCGGG
128 GAAGATGTATATGCTCCACTATTCATTTAGGGAAGATCAGACTGGATATGTGCCTCTTTTTCGGG
* * * *
1504824 TATTTAGATCAATTTTTAAAGATGTATTTGCTCCACTATTCATTCAGGGGAG
193 TATTCAAATCAATTTTGAAAGATGTATTTGCTCCACTATTCATTCAGGGAAG
* * * *
1504876 ATCAGACTGGATATATGCCTCTTTTTTAGGTATTCAGATCAATTTTTGAACAAGTATTGCTCCAC
1 ATCAGACTGGATCTGTGCCTC-TTTTTGGGTATTCAGATCAATTTTTGAAGAAGTATTGCTCCAC
*
1504941 TATTCATTTAGGGGAGATCAAACTGGATC-AGTGCCTCTTTTTCGGGTATTCAGATCAATTTTTG
65 TATTCATTCAGGGGAGATCAAACTGGATCTA-TGCCTCTTTTTCGGGTATTCAGATCAATTTTTG
* * * * * *
1505005 AAGATGTATCTTCTCCACTATTCAATCAGGGGAGATTAGACTG
129 AAGATGTATATGCTCCACTATTCATTTAGGGAAGATCAGACTG
1505048 AAAATTGATT
Statistics
Matches: 370, Mismatches: 44, Indels: 10
0.87 0.10 0.02
Matches are distributed among these distances:
245 88 0.24
246 110 0.30
247 167 0.45
248 5 0.01
ACGTcount: A:0.26, C:0.16, G:0.19, T:0.39
Consensus pattern (244 bp):
ATCAGACTGGATCTGTGCCTCTTTTTGGGTATTCAGATCAATTTTTGAAGAAGTATTGCTCCACT
ATTCATTCAGGGGAGATCAAACTGGATCTATGCCTCTTTTTCGGGTATTCAGATCAATTTTTGAA
GATGTATATGCTCCACTATTCATTTAGGGAAGATCAGACTGGATATGTGCCTCTTTTTCGGGTAT
TCAAATCAATTTTGAAAGATGTATTTGCTCCACTATTCATTCAGGGAAG
Found at i:1506303 original size:36 final size:36
Alignment explanation
Indices: 1506214--1506339 Score: 141
Period size: 36 Copynumber: 3.5 Consensus size: 36
1506204 TTTCTTGCTA
* * *
1506214 ATATGAGCCTTCAAAATGCCCCA-ATAGTTTCAAACTG
1 ATATAAGCCTTCAAAATGCCTCACAT--TTTCATACTG
* *
1506251 ATGTGAA-CGTTC-AAATGCCTCACATTTTCATACTG
1 ATAT-AAGCCTTCAAAATGCCTCACATTTTCATACTG
1506286 ATATAAGCCTTCAAAATGCCTCACATTTTCATACTG
1 ATATAAGCCTTCAAAATGCCTCACATTTTCATACTG
* *
1506322 ATGTGAGCCTTCAAAATG
1 ATATAAGCCTTCAAAATG
1506340 ACTTACATGG
Statistics
Matches: 76, Mismatches: 9, Indels: 9
0.81 0.10 0.10
Matches are distributed among these distances:
34 2 0.03
35 16 0.21
36 48 0.63
37 9 0.12
38 1 0.01
ACGTcount: A:0.33, C:0.23, G:0.13, T:0.31
Consensus pattern (36 bp):
ATATAAGCCTTCAAAATGCCTCACATTTTCATACTG
Found at i:1515201 original size:147 final size:147
Alignment explanation
Indices: 1514934--1515227 Score: 498
Period size: 147 Copynumber: 2.0 Consensus size: 147
1514924 TCTTTCAGCT
1514934 GATGCAACTGTCACTAGCATAGTTAACAAAATTTGGTAAGCAATTGAAACATTTGGATAGCAATC
1 GATGCAACTGTCACTAGCATAGTTAACAAAATTTGGTAAGCAATTGAAACATTTGGATAGCAATC
* *
1514999 CACAACTTTGACAAATTTGAGAATTTCAAATGTAGACAATAACTCATTTGGCAAAGTCATTTGTA
66 CACAACTTTGACAAATTTGAGAATTTCAAAAGCAGACAATAACTCATTTGGCAAAGTCATTTGTA
1515064 ACACTTTCAATTATGAA
131 ACACTTTCAATTATGAA
* * * * *
1515081 GATGCATCTGTCATTGGCATAGTTAAGAGAATTTGGTAAGCAATTGAAACATTTGGATAGCAATC
1 GATGCAACTGTCACTAGCATAGTTAACAAAATTTGGTAAGCAATTGAAACATTTGGATAGCAATC
* *
1515146 CACAACTTTGACAAATTTGAGAATTTCAAAAGCCGACATTAACTCATTTGGCAAAGTCATTTGTA
66 CACAACTTTGACAAATTTGAGAATTTCAAAAGCAGACAATAACTCATTTGGCAAAGTCATTTGTA
*
1515211 ACACTTTGAATTATGAA
131 ACACTTTCAATTATGAA
1515228 AAAAGATCTT
Statistics
Matches: 137, Mismatches: 10, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
147 137 1.00
ACGTcount: A:0.37, C:0.15, G:0.16, T:0.31
Consensus pattern (147 bp):
GATGCAACTGTCACTAGCATAGTTAACAAAATTTGGTAAGCAATTGAAACATTTGGATAGCAATC
CACAACTTTGACAAATTTGAGAATTTCAAAAGCAGACAATAACTCATTTGGCAAAGTCATTTGTA
ACACTTTCAATTATGAA
Found at i:1517748 original size:20 final size:20
Alignment explanation
Indices: 1517723--1517804 Score: 67
Period size: 20 Copynumber: 3.7 Consensus size: 20
1517713 AATATACATG
1517723 GCATCCTTTCATGCCTTAAT
1 GCATCCTTTCATGCCTTAAT
*
1517743 GCATCCTTTTCATGCATTTTCAATTAT
1 GCATCC-TTTCATGC--CTT--A--AT
1517770 GGCAT-CTGTTCATGCCTTAAT
1 -GCATCCT-TTCATGCCTTAAT
1517791 GCATCCTTTCATGC
1 GCATCCTTTCATGC
1517805 ATTTTCAATT
Statistics
Matches: 50, Mismatches: 2, Indels: 20
0.69 0.03 0.28
Matches are distributed among these distances:
20 17 0.34
21 12 0.24
23 3 0.06
25 3 0.06
26 1 0.02
27 10 0.20
28 4 0.08
ACGTcount: A:0.20, C:0.27, G:0.12, T:0.41
Consensus pattern (20 bp):
GCATCCTTTCATGCCTTAAT
Found at i:1517891 original size:47 final size:47
Alignment explanation
Indices: 1517695--1517957 Score: 388
Period size: 47 Copynumber: 5.6 Consensus size: 47
1517685 CGTATTAACA
*
1517695 CATCCTTTTATGCATTTT-AATATACATGGCATCCT-TTCATGCCTTAATG
1 CATCCTTTCATGCATTTTCAAT-T--ATGGCAT-CTGTTCATGCCTTAATG
1517744 CATCCTTTTCATGCATTTTCAATTATGGCATCTGTTCATGCCTTAATG
1 CATCC-TTTCATGCATTTTCAATTATGGCATCTGTTCATGCCTTAATG
*
1517792 CATCCTTTCATGCATTTTCAATTATGACAT-TGTTCATGCCTTAATG
1 CATCCTTTCATGCATTTTCAATTATGGCATCTGTTCATGCCTTAATG
*
1517838 CATCCTTTCATGCATTTTCAATTATGGCATCTGTTCATTCCTTAATG
1 CATCCTTTCATGCATTTTCAATTATGGCATCTGTTCATGCCTTAATG
* * *
1517885 CATCCTTTCATACATTTTCAATTATGGCATCCGTCCATGCCTTAATG
1 CATCCTTTCATGCATTTTCAATTATGGCATCTGTTCATGCCTTAATG
* *
1517932 CATCTTTTCATGCATTTTTAATTATG
1 CATCCTTTCATGCATTTTCAATTATG
1517958 AATCTGATTT
Statistics
Matches: 199, Mismatches: 11, Indels: 10
0.90 0.05 0.05
Matches are distributed among these distances:
46 45 0.23
47 107 0.54
48 26 0.13
49 5 0.03
50 13 0.07
51 3 0.02
ACGTcount: A:0.23, C:0.23, G:0.11, T:0.44
Consensus pattern (47 bp):
CATCCTTTCATGCATTTTCAATTATGGCATCTGTTCATGCCTTAATG
Found at i:1517924 original size:140 final size:142
Alignment explanation
Indices: 1517695--1517958 Score: 410
Period size: 140 Copynumber: 1.9 Consensus size: 142
1517685 CGTATTAACA
* *
1517695 CATCCTTTTATGCATTTTAATATACATGGCATCCTTTCATGCCTTAATGCATCCTTTTCATGCAT
1 CATCCTTTCATGCATTTTAATATA-ATGGCATCCTTTCATGCCTTAATGCATCCTTTTCATACAT
* *
1517760 TTTCAATTATGGCATCTGTTCATGCCTTAATGCATCCTTTCATGCATTTTCAATTATGACATTGT
65 TTTCAATTATGGCATCCGTCCATGCCTTAATGCATCCTTTCATGCATTTTCAATTATGACATTGT
1517825 TCATGCCTTAATG
130 TCATGCCTTAATG
*
1517838 CATCCTTTCATGCATTTTCAAT-T-ATGGCAT-CTGTTCATTCCTTAATGCATCC-TTTCATACA
1 CATCCTTTCATGCATTTT-AATATAATGGCATCCT-TTCATGCCTTAATGCATCCTTTTCATACA
* *
1517899 TTTTCAATTATGGCATCCGTCCATGCCTTAATGCATCTTTTCATGCATTTTTAATTATGA
64 TTTTCAATTATGGCATCCGTCCATGCCTTAATGCATCCTTTCATGCATTTTCAATTATGA
1517959 ATCTGATTTA
Statistics
Matches: 112, Mismatches: 7, Indels: 7
0.89 0.06 0.06
Matches are distributed among these distances:
140 66 0.59
141 25 0.22
143 18 0.16
144 3 0.03
ACGTcount: A:0.23, C:0.23, G:0.11, T:0.44
Consensus pattern (142 bp):
CATCCTTTCATGCATTTTAATATAATGGCATCCTTTCATGCCTTAATGCATCCTTTTCATACATT
TTCAATTATGGCATCCGTCCATGCCTTAATGCATCCTTTCATGCATTTTCAATTATGACATTGTT
CATGCCTTAATG
Found at i:1517963 original size:93 final size:94
Alignment explanation
Indices: 1517720--1517957 Score: 388
Period size: 93 Copynumber: 2.5 Consensus size: 94
1517710 TTTAATATAC
*
1517720 ATGGCATCCTTTCATGCCTTAATGCATCCTTTTCATGCATTTTCAATTATGGCATCTGTTCATGC
1 ATGGCATCCGTTCATGCCTTAATGCAT-CTTTTCATGCATTTTCAATTATGGCATCTGTTCATGC
*
1517785 CTTAATGCATCCTTTCATGCATTTTCAATT
65 CTTAATGCATCCTTTCATACATTTTCAATT
* * * *
1517815 ATGACAT-TGTTCATGCCTTAATGCATCCTTTCATGCATTTTCAATTATGGCATCTGTTCATTCC
1 ATGGCATCCGTTCATGCCTTAATGCATCTTTTCATGCATTTTCAATTATGGCATCTGTTCATGCC
1517879 TTAATGCATCCTTTCATACATTTTCAATT
66 TTAATGCATCCTTTCATACATTTTCAATT
* *
1517908 ATGGCATCCGTCCATGCCTTAATGCATCTTTTCATGCATTTTTAATTATG
1 ATGGCATCCGTTCATGCCTTAATGCATCTTTTCATGCATTTTCAATTATG
1517958 AATCTGATTT
Statistics
Matches: 131, Mismatches: 11, Indels: 3
0.90 0.08 0.02
Matches are distributed among these distances:
93 70 0.53
94 55 0.42
95 6 0.05
ACGTcount: A:0.22, C:0.23, G:0.11, T:0.43
Consensus pattern (94 bp):
ATGGCATCCGTTCATGCCTTAATGCATCTTTTCATGCATTTTCAATTATGGCATCTGTTCATGCC
TTAATGCATCCTTTCATACATTTTCAATT
Found at i:1518573 original size:21 final size:20
Alignment explanation
Indices: 1518526--1518576 Score: 59
Period size: 20 Copynumber: 2.5 Consensus size: 20
1518516 CCCTTACAAT
1518526 AGTATCGATACTGCATCAAC
1 AGTATCGATACTGCATCAAC
* *
1518546 GGTATCGATACTG-ATTGAATC
1 AGTATCGATACTGCA-TCAA-C
1518567 AGTATCGATA
1 AGTATCGATA
1518577 TTATACAACA
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
19 1 0.04
20 15 0.58
21 10 0.38
ACGTcount: A:0.33, C:0.18, G:0.20, T:0.29
Consensus pattern (20 bp):
AGTATCGATACTGCATCAAC
Found at i:1520427 original size:38 final size:35
Alignment explanation
Indices: 1520372--1520451 Score: 90
Period size: 38 Copynumber: 2.2 Consensus size: 35
1520362 GGAAATCAGT
* *
1520372 TGGAAATCTCGACGTCTTTAGGGTTGAGATTTCCAACA
1 TGGAAATCCCGACGTCTTTA-GGTTG-GAATTCCAA-A
*
1520410 TGGAAATCCCGGA-GTCTTTAGGTTGGAATTCCTAA
1 TGGAAATCCC-GACGTCTTTAGGTTGGAATTCCAAA
1520445 TGGAAAT
1 TGGAAAT
1520452 GGATTTCTCG
Statistics
Matches: 38, Mismatches: 3, Indels: 5
0.83 0.07 0.11
Matches are distributed among these distances:
35 8 0.21
36 7 0.18
37 5 0.13
38 16 0.42
39 2 0.05
ACGTcount: A:0.28, C:0.16, G:0.25, T:0.31
Consensus pattern (35 bp):
TGGAAATCCCGACGTCTTTAGGTTGGAATTCCAAA
Found at i:1521416 original size:45 final size:45
Alignment explanation
Indices: 1521365--1521461 Score: 131
Period size: 45 Copynumber: 2.2 Consensus size: 45
1521355 AATATCAATA
** * *
1521365 GGTTGGTGGTTAATAATTATCTTTTAATAACTCGAGTAGGTTAGT
1 GGTTGGTGGTTAATAATTATCCATTAACAACCCGAGTAGGTTAGT
* * *
1521410 GGTTGGTGGTTATTAATTATCCATTAACATCCCGAGTAGGTTGGT
1 GGTTGGTGGTTAATAATTATCCATTAACAACCCGAGTAGGTTAGT
1521455 GGTTGGT
1 GGTTGGT
1521462 AGTTGCAGAG
Statistics
Matches: 45, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
45 45 1.00
ACGTcount: A:0.23, C:0.09, G:0.28, T:0.40
Consensus pattern (45 bp):
GGTTGGTGGTTAATAATTATCCATTAACAACCCGAGTAGGTTAGT
Found at i:1525646 original size:18 final size:18
Alignment explanation
Indices: 1525625--1525660 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
1525615 TTAGGTTCGG
1525625 AGCTAAAATTTGGTTCAC
1 AGCTAAAATTTGGTTCAC
1525643 AGCTAAAATTTGGTTCAC
1 AGCTAAAATTTGGTTCAC
1525661 TTTATGGGTC
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:0.33, C:0.17, G:0.17, T:0.33
Consensus pattern (18 bp):
AGCTAAAATTTGGTTCAC
Found at i:1525908 original size:23 final size:23
Alignment explanation
Indices: 1525882--1525932 Score: 95
Period size: 23 Copynumber: 2.3 Consensus size: 23
1525872 CTTGTGTTCA
1525882 TCTCCTGACTGTCGTGTACTCTT
1 TCTCCTGACTGTCGTGTACTCTT
1525905 TCTCCTGACTGTCGTGTACTCTT
1 TCTCCTGACTGTCGTGTACTCTT
1525928 T-TCCT
1 TCTCCT
1525933 CAATTTAAGT
Statistics
Matches: 28, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
22 4 0.14
23 24 0.86
ACGTcount: A:0.08, C:0.31, G:0.16, T:0.45
Consensus pattern (23 bp):
TCTCCTGACTGTCGTGTACTCTT
Found at i:1526143 original size:28 final size:28
Alignment explanation
Indices: 1526112--1526170 Score: 66
Period size: 28 Copynumber: 2.1 Consensus size: 28
1526102 ATTTTATAAA
1526112 TTTAGTCTT-AATTCAATAAATTTAATCT
1 TTTA-TCTTAAATTCAATAAATTTAATCT
* * * *
1526140 TTTATTTTAAATTCGATCAATTTAATTT
1 TTTATCTTAAATTCAATAAATTTAATCT
1526168 TTT
1 TTT
1526171 TTATGATACT
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
27 3 0.12
28 23 0.88
ACGTcount: A:0.32, C:0.08, G:0.03, T:0.56
Consensus pattern (28 bp):
TTTATCTTAAATTCAATAAATTTAATCT
Found at i:1543725 original size:18 final size:19
Alignment explanation
Indices: 1543709--1543755 Score: 67
Period size: 19 Copynumber: 2.5 Consensus size: 19
1543699 CTATTCCTTC
*
1543709 TTTTATTTCATTTCCTTGT
1 TTTTATTTCATTTCCTTAT
**
1543728 TTTTAAATCATTTCCTTAT
1 TTTTATTTCATTTCCTTAT
1543747 TTTTATTTC
1 TTTTATTTC
1543756 CTTAAATCAT
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
19 23 1.00
ACGTcount: A:0.17, C:0.15, G:0.02, T:0.66
Consensus pattern (19 bp):
TTTTATTTCATTTCCTTAT
Found at i:1545269 original size:50 final size:50
Alignment explanation
Indices: 1545163--1545257 Score: 115
Period size: 50 Copynumber: 1.9 Consensus size: 50
1545153 TCACACTCCA
* * * * *
1545163 ATTTGCCTTTTCATTGTGACTAGGAGGGTTGGTTAGAGCCATATTATCGTG
1 ATTTTCCTTTTCATTGTGACTAGGAGGGATCGATAGAG-CACATTATCGTG
1545214 -TTTTCCTTTTCATTGTGACTAGGAGGGATCGATAG-G-ACATTATC
1 ATTTTCCTTTTCATTGTGACTAGGAGGGATCGATAGAGCACATTATC
1545258 CTTTGATTTT
Statistics
Matches: 39, Mismatches: 5, Indels: 4
0.81 0.10 0.08
Matches are distributed among these distances:
47 7 0.18
49 1 0.03
50 31 0.79
ACGTcount: A:0.21, C:0.15, G:0.25, T:0.39
Consensus pattern (50 bp):
ATTTTCCTTTTCATTGTGACTAGGAGGGATCGATAGAGCACATTATCGTG
Found at i:1550584 original size:19 final size:19
Alignment explanation
Indices: 1550562--1550659 Score: 74
Period size: 19 Copynumber: 5.1 Consensus size: 19
1550552 TCGGGTCGGG
1550562 TCAGACCGGTCAAACCGGT
1 TCAGACCGGTCAAACCGGT
*
1550581 TCAGACCGGTCAAATCGGT
1 TCAGACCGGTCAAACCGGT
* *
1550600 TC-GAACTGGTTGAAACCGGT
1 TCAG-ACCGG-TCAAACCGGT
* *
1550620 T-AAACCGGTCAGAACCAGT
1 TCAGACCGGTCA-AACCGGT
* * *
1550639 TGAAAACCGGTTAAACCGGT
1 T-CAGACCGGTCAAACCGGT
1550659 T
1 T
1550660 TCCAGCAGCC
Statistics
Matches: 63, Mismatches: 10, Indels: 11
0.75 0.12 0.13
Matches are distributed among these distances:
18 3 0.05
19 35 0.56
20 16 0.25
21 9 0.14
ACGTcount: A:0.30, C:0.24, G:0.26, T:0.20
Consensus pattern (19 bp):
TCAGACCGGTCAAACCGGT
Found at i:1550618 original size:29 final size:31
Alignment explanation
Indices: 1550585--1550659 Score: 93
Period size: 29 Copynumber: 2.5 Consensus size: 31
1550575 ACCGGTTCAG
* * **
1550585 ACCGGTCAAATCGGTTC-GAACTGGTTG-AA
1 ACCGGTTAAACCGGTTCAGAACCAGTTGAAA
1550614 ACCGGTTAAACCGG-TCAGAACCAGTTGAAA
1 ACCGGTTAAACCGGTTCAGAACCAGTTGAAA
1550644 ACCGGTTAAACCGGTT
1 ACCGGTTAAACCGGTT
1550660 TCCAGCAGCC
Statistics
Matches: 39, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
28 2 0.05
29 20 0.51
30 16 0.41
31 1 0.03
ACGTcount: A:0.31, C:0.23, G:0.25, T:0.21
Consensus pattern (31 bp):
ACCGGTTAAACCGGTTCAGAACCAGTTGAAA
Found at i:1550659 original size:9 final size:9
Alignment explanation
Indices: 1550566--1550659 Score: 62
Period size: 9 Copynumber: 9.8 Consensus size: 9
1550556 GTCGGGTCAG
*
1550566 ACCGGTCAA
1 ACCGGTTAA
*
1550575 ACCGGTTCAG
1 ACCGGTT-AA
*
1550585 ACCGGTCAA
1 ACCGGTTAA
* *
1550594 ATCGGTTCGA
1 ACCGGTT-AA
*
1550604 ACTGGTTGAA
1 ACCGGTT-AA
1550614 ACCGGTTAA
1 ACCGGTTAA
*
1550623 ACCGGTCAGA
1 ACCGGTTA-A
*
1550633 ACCAGTTGAAA
1 ACCGGTT--AA
1550644 ACCGGTTAA
1 ACCGGTTAA
1550653 ACCGGTT
1 ACCGGTT
1550660 TCCAGCAGCC
Statistics
Matches: 64, Mismatches: 16, Indels: 10
0.71 0.18 0.11
Matches are distributed among these distances:
9 30 0.47
10 26 0.41
11 7 0.11
12 1 0.02
ACGTcount: A:0.30, C:0.24, G:0.26, T:0.20
Consensus pattern (9 bp):
ACCGGTTAA
Found at i:1557785 original size:7 final size:7
Alignment explanation
Indices: 1557773--1557810 Score: 67
Period size: 7 Copynumber: 5.4 Consensus size: 7
1557763 GTCAAAGAAA
1557773 GTCAACG
1 GTCAACG
1557780 GTCAACG
1 GTCAACG
1557787 GTCAACG
1 GTCAACG
*
1557794 ATCAACG
1 GTCAACG
1557801 GTCAACG
1 GTCAACG
1557808 GTC
1 GTC
1557811 GGGTCGGGTC
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
7 29 1.00
ACGTcount: A:0.29, C:0.29, G:0.26, T:0.16
Consensus pattern (7 bp):
GTCAACG
Found at i:1557848 original size:19 final size:19
Alignment explanation
Indices: 1557824--1557863 Score: 62
Period size: 19 Copynumber: 2.1 Consensus size: 19
1557814 TCGGGTCGGG
1557824 TCAGACCGATAAAACCGGT
1 TCAGACCGATAAAACCGGT
* *
1557843 TCAGACCGGTCAAACCGGT
1 TCAGACCGATAAAACCGGT
1557862 TC
1 TC
1557864 GAACCGGTTG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.30, C:0.30, G:0.23, T:0.17
Consensus pattern (19 bp):
TCAGACCGATAAAACCGGT
Found at i:1557852 original size:10 final size:10
Alignment explanation
Indices: 1557835--1557929 Score: 110
Period size: 10 Copynumber: 9.9 Consensus size: 10
1557825 CAGACCGATA
1557835 AAACCGGTTC
1 AAACCGGTTC
*
1557845 AGACCGG-TC
1 AAACCGGTTC
1557854 AAACCGGTTC
1 AAACCGGTTC
* *
1557864 GAACCGGTTG
1 AAACCGGTTC
1557874 AAACCGG-TC
1 AAACCGGTTC
*
1557883 AAACCGGTTG
1 AAACCGGTTC
1557893 AAACCGG-TC
1 AAACCGGTTC
1557902 AAACCGG-TC
1 AAACCGGTTC
1557911 AGAACCGGTT-
1 A-AACCGGTTC
1557921 AAACCGGTT
1 AAACCGGTT
1557930 TCCAGCAGCC
Statistics
Matches: 73, Mismatches: 8, Indels: 9
0.81 0.09 0.10
Matches are distributed among these distances:
9 35 0.48
10 37 0.51
11 1 0.01
ACGTcount: A:0.29, C:0.27, G:0.26, T:0.17
Consensus pattern (10 bp):
AAACCGGTTC
Found at i:1557869 original size:19 final size:20
Alignment explanation
Indices: 1557835--1557929 Score: 110
Period size: 19 Copynumber: 5.0 Consensus size: 20
1557825 CAGACCGATA
*
1557835 AAACCGGTTCAGACCGG-TC
1 AAACCGGTTCAAACCGGTTC
* *
1557854 AAACCGGTTCGAACCGGTTG
1 AAACCGGTTCAAACCGGTTC
*
1557874 AAACCGG-TCAAACCGGTTG
1 AAACCGGTTCAAACCGGTTC
1557893 AAACCGG-TCAAACCGG-TC
1 AAACCGGTTCAAACCGGTTC
1557911 AGAACCGGTT-AAACCGGTT
1 A-AACCGGTTCAAACCGGTT
1557930 TCCAGCAGCC
Statistics
Matches: 67, Mismatches: 5, Indels: 7
0.85 0.06 0.09
Matches are distributed among these distances:
18 2 0.03
19 55 0.82
20 10 0.15
ACGTcount: A:0.29, C:0.27, G:0.26, T:0.17
Consensus pattern (20 bp):
AAACCGGTTCAAACCGGTTC
Found at i:1557879 original size:29 final size:28
Alignment explanation
Indices: 1557836--1557929 Score: 127
Period size: 29 Copynumber: 3.3 Consensus size: 28
1557826 AGACCGATAA
*
1557836 AACCGGTTCAGACCGGTCAAACCGGTTCG
1 AACCGGTTCAAACCGGTCAAACCGGTT-G
*
1557865 AACCGGTTGAAACCGGTCAAACCGGTTG
1 AACCGGTTCAAACCGGTCAAACCGGTTG
*
1557893 AAACCGG-TCAAACCGGTCAGAACCGGTTA
1 -AACCGGTTCAAACCGGTCA-AACCGGTTG
1557922 AACCGGTT
1 AACCGGTT
1557930 TCCAGCAGCC
Statistics
Matches: 58, Mismatches: 4, Indels: 6
0.85 0.06 0.09
Matches are distributed among these distances:
28 18 0.31
29 40 0.69
ACGTcount: A:0.29, C:0.28, G:0.27, T:0.17
Consensus pattern (28 bp):
AACCGGTTCAAACCGGTCAAACCGGTTG
Found at i:1575349 original size:3 final size:3
Alignment explanation
Indices: 1575341--1575427 Score: 63
Period size: 3 Copynumber: 29.7 Consensus size: 3
1575331 TAAATGATAT
* * * * * *
1575341 TAA TAA TAA TAC TAA TAA TTA TTA TAA TAT TATG TTA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA-A TAA TAA TAA TAA
* * *
1575387 TAA T-A TAA TAA TAA T-A TAG TAG TAA TAA TTA TAA T-A TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
1575428 TTTATAACCA
Statistics
Matches: 67, Mismatches: 13, Indels: 8
0.76 0.15 0.09
Matches are distributed among these distances:
2 6 0.09
3 60 0.90
4 1 0.01
ACGTcount: A:0.54, C:0.01, G:0.03, T:0.41
Consensus pattern (3 bp):
TAA
Found at i:1575388 original size:31 final size:31
Alignment explanation
Indices: 1575346--1575427 Score: 89
Period size: 31 Copynumber: 2.7 Consensus size: 31
1575336 GATATTAATA
* * *
1575346 ATAATACTAATAATTATTATAATATTAT-GTT
1 ATAATAATAATAATTATAATAATAATATAG-T
1575377 ATAATAATAATAA-TATAATAATAATATAGT
1 ATAATAATAATAATTATAATAATAATATAGT
*
1575407 AGTAATAATTATAA-TATAATA
1 A-TAATAATAATAATTATAATA
1575428 TTTATAACCA
Statistics
Matches: 45, Mismatches: 4, Indels: 4
0.85 0.08 0.08
Matches are distributed among these distances:
30 14 0.31
31 31 0.69
ACGTcount: A:0.54, C:0.01, G:0.04, T:0.41
Consensus pattern (31 bp):
ATAATAATAATAATTATAATAATAATATAGT
Found at i:1575396 original size:11 final size:11
Alignment explanation
Indices: 1575380--1575427 Score: 55
Period size: 11 Copynumber: 4.5 Consensus size: 11
1575370 TTATGTTATA
1575380 ATAATAATAAT
1 ATAATAATAAT
1575391 ATAATAATAAT
1 ATAATAATAAT
* *
1575402 ATAGTAGT-A-
1 ATAATAATAAT
*
1575411 ATAATTATAAT
1 ATAATAATAAT
1575422 ATAATA
1 ATAATA
1575428 TTTATAACCA
Statistics
Matches: 29, Mismatches: 6, Indels: 4
0.74 0.15 0.10
Matches are distributed among these distances:
9 5 0.17
10 2 0.07
11 22 0.76
ACGTcount: A:0.58, C:0.00, G:0.04, T:0.38
Consensus pattern (11 bp):
ATAATAATAAT
Found at i:1575404 original size:25 final size:25
Alignment explanation
Indices: 1575341--1575428 Score: 74
Period size: 25 Copynumber: 3.5 Consensus size: 25
1575331 TAAATGATAT
*
1575341 TAATAATAATACTAATAAT--TATTA
1 TAATAATAATA-TAATAATAATAATA
**
1575365 TAATATTATGTTATAATAATAATAATA
1 TAATA--ATAATATAATAATAATAATA
* *
1575392 TAATAATAATATAGTAGTAATAATTA
1 TAATAATAATATAATAATAATAA-TA
1575418 TAAT-ATAATAT
1 TAATAATAATAT
1575429 TTATAACCAG
Statistics
Matches: 52, Mismatches: 7, Indels: 9
0.76 0.10 0.13
Matches are distributed among these distances:
24 5 0.10
25 28 0.54
26 10 0.19
27 9 0.17
ACGTcount: A:0.53, C:0.01, G:0.03, T:0.42
Consensus pattern (25 bp):
TAATAATAATATAATAATAATAATA
Found at i:1575432 original size:14 final size:14
Alignment explanation
Indices: 1575341--1575434 Score: 77
Period size: 14 Copynumber: 6.6 Consensus size: 14
1575331 TAAATGATAT
*
1575341 TAATAATAATACTAA
1 TAATTATAATA-TAA
1575356 TAATTAT--TATAA
1 TAATTATAATATAA
**
1575368 T-ATTATGTTATAA
1 TAATTATAATATAA
*
1575381 TAATAATAATATAA
1 TAATTATAATATAA
*
1575395 TAATAATATAGTAGTAA
1 TAAT--TATAATA-TAA
1575412 TAATTATAATATAA
1 TAATTATAATATAA
*
1575426 TATTTATAA
1 TAATTATAA
1575435 CCAGGACAAA
Statistics
Matches: 65, Mismatches: 8, Indels: 13
0.76 0.09 0.15
Matches are distributed among these distances:
11 5 0.08
12 4 0.06
13 8 0.12
14 24 0.37
15 12 0.18
16 5 0.08
17 7 0.11
ACGTcount: A:0.53, C:0.01, G:0.03, T:0.43
Consensus pattern (14 bp):
TAATTATAATATAA
Found at i:1575958 original size:113 final size:112
Alignment explanation
Indices: 1575672--1575959 Score: 427
Period size: 112 Copynumber: 2.6 Consensus size: 112
1575662 TGTCACTCAT
* * *
1575672 GGAATATCAAATCTTGGAAAAAGAGACATGTTCCGATTACTCTGAAGGGAATATCAGATATGGGG
1 GGAATATCAAATCTTGGAAAAAGAGACATGTTCCGCTTACTCTGAAGGGAATATCAGATCTGAGG
* *
1575737 GAGTTAATTCATTAAATCGAGGCAGACTTGTTTCACTTACTCTGAAA
66 GAGCTAATTCATTAAATCGAGGCAGACTTGTTCCACTTACTCTGAAA
* *
1575784 GAAATA-CAAATCTTGGAAAAAAGAGACATGTTTCGCTTACTCTGAAGGGAATATCAGATCTGAG
1 GGAATATCAAATCTTGG-AAAAAGAGACATGTTCCGCTTACTCTGAAGGGAATATCAGATCTGAG
*
1575848 GGAGCTGATTCATTAAATCGAGGCAGACTTGTTCCACTTACTCT-AAA
65 GGAGCTAATTCATTAAATCGAGGCAGACTTGTTCCACTTACTCTGAAA
* * * *
1575895 GGGAATATCAAATATTGGAAAAGATAGACTTGTTCCGCTTACTCTGAAGGGAATATCATATCTGA
1 -GGAATATCAAATCTTGGAAAA-AGAGACATGTTCCGCTTACTCTGAAGGGAATATCAGATCTGA
1575960 AAGTCTCGGG
Statistics
Matches: 158, Mismatches: 14, Indels: 7
0.88 0.08 0.04
Matches are distributed among these distances:
111 13 0.08
112 98 0.62
113 47 0.30
ACGTcount: A:0.35, C:0.15, G:0.22, T:0.28
Consensus pattern (112 bp):
GGAATATCAAATCTTGGAAAAAGAGACATGTTCCGCTTACTCTGAAGGGAATATCAGATCTGAGG
GAGCTAATTCATTAAATCGAGGCAGACTTGTTCCACTTACTCTGAAA
Found at i:1592705 original size:16 final size:16
Alignment explanation
Indices: 1592684--1592716 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
1592674 TATGGATTTC
1592684 GTGTTAGGCTTACCAA
1 GTGTTAGGCTTACCAA
1592700 GTGTTAGGCTTACCAA
1 GTGTTAGGCTTACCAA
1592716 G
1 G
1592717 GACAAAGAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.24, C:0.18, G:0.27, T:0.30
Consensus pattern (16 bp):
GTGTTAGGCTTACCAA
Found at i:1594173 original size:21 final size:21
Alignment explanation
Indices: 1594149--1594205 Score: 60
Period size: 21 Copynumber: 2.7 Consensus size: 21
1594139 TGACACTAAG
*
1594149 TACCTAACTAGCTACCTATAC
1 TACCTAACTAGCTAACTATAC
* * *
1594170 TACCTAGCTAGTTAACTATGC
1 TACCTAACTAGCTAACTATAC
* *
1594191 TATCTACCTAGCTAA
1 TACCTAACTAGCTAA
1594206 GTGACCTACC
Statistics
Matches: 29, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
21 29 1.00
ACGTcount: A:0.32, C:0.28, G:0.09, T:0.32
Consensus pattern (21 bp):
TACCTAACTAGCTAACTATAC
Found at i:1595147 original size:44 final size:44
Alignment explanation
Indices: 1595090--1595307 Score: 177
Period size: 44 Copynumber: 4.9 Consensus size: 44
1595080 TCATAACCTT
* * *
1595090 ATTTTGCTCGATTCTATTACAGAATGAGGTGGATCAACATCAAC
1 ATTTTGCTCGATTCCATTACAAAAGGAGGTGGATCAACATCAAC
* * * * *
1595134 ATTTTGTTTGATTCCATTACACAAGGAGTTGAATCAACAT-AACC
1 ATTTTGCTCGATTCCATTACAAAAGGAGGTGGATCAACATCAA-C
* * * * * *
1595178 TTAGTTTGCTCGATTCAATCAAAAAAGGAGATAGATCAACATCAAC
1 --ATTTTGCTCGATTCCATTACAAAAGGAGGTGGATCAACATCAAC
* * * * ***
1595224 ATTTTGTTTGATTCCATAACATAAGGAGGTGGATCAACATTGTC
1 ATTTTGCTCGATTCCATTACAAAAGGAGGTGGATCAACATCAAC
* * **
1595268 ATTTCGCTCGATTCCATCACAAAAGGACTTGGATCAACAT
1 ATTTTGCTCGATTCCATTACAAAAGGAGGTGGATCAACAT
1595308 AACCTTATTT
Statistics
Matches: 134, Mismatches: 36, Indels: 8
0.75 0.20 0.04
Matches are distributed among these distances:
43 2 0.01
44 99 0.74
46 31 0.23
47 2 0.01
ACGTcount: A:0.34, C:0.18, G:0.17, T:0.31
Consensus pattern (44 bp):
ATTTTGCTCGATTCCATTACAAAAGGAGGTGGATCAACATCAAC
Found at i:1595223 original size:90 final size:90
Alignment explanation
Indices: 1595081--1595263 Score: 258
Period size: 90 Copynumber: 2.0 Consensus size: 90
1595071 GTTGGACCAT
* * * * * * * *
1595081 CATAACCTTATTTTGCTCGATTCTATTACAGAATGAGGTGGATCAACATCAACATTTTGTTTGAT
1 CATAACCTTAGTTTGCTCGATTCAATCAAAAAAGGAGATAGATCAACATCAACATTTTGTTTGAT
* *
1595146 TCCATTACACAAGGAGTTGAATCAA
66 TCCATAACACAAGGAGGTGAATCAA
1595171 CATAACCTTAGTTTGCTCGATTCAATCAAAAAAGGAGATAGATCAACATCAACATTTTGTTTGAT
1 CATAACCTTAGTTTGCTCGATTCAATCAAAAAAGGAGATAGATCAACATCAACATTTTGTTTGAT
* *
1595236 TCCATAACATAAGGAGGTGGATCAA
66 TCCATAACACAAGGAGGTGAATCAA
1595261 CAT
1 CAT
1595264 TGTCATTTCG
Statistics
Matches: 81, Mismatches: 12, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
90 81 1.00
ACGTcount: A:0.35, C:0.17, G:0.16, T:0.32
Consensus pattern (90 bp):
CATAACCTTAGTTTGCTCGATTCAATCAAAAAAGGAGATAGATCAACATCAACATTTTGTTTGAT
TCCATAACACAAGGAGGTGAATCAA
Found at i:1595319 original size:90 final size:89
Alignment explanation
Indices: 1595119--1595307 Score: 238
Period size: 90 Copynumber: 2.1 Consensus size: 89
1595109 CAGAATGAGG
* * *
1595119 TGGATCAACATCAACATTTTGTTTGATTCCATTACACAAGGAGTTGAATCAACATAACCTTAGTT
1 TGGATCAACATCAACATTTTGTTTGATTCCATAACACAAGGAGGTGAATCAACAT-ACCTCAGTT
*
1595184 TGCTCGATTCAATCAAAAAAGGAGA
65 TGCTCGATTCAATCAAAAAAGGACA
* * * **
1595209 TAGATCAACATCAACATTTTGTTTGATTCCATAACATAAGGAGGTGGATCAACAT-TGTCA-TTT
1 TGGATCAACATCAACATTTTGTTTGATTCCATAACACAAGGAGGTGAATCAACATACCTCAGTTT
* * *
1595272 CGCTCGATTCCATCACAAAAGGACT
66 -GCTCGATTCAATCAAAAAAGGACA
1595297 TGGATCAACAT
1 TGGATCAACAT
1595308 AACCTTATTT
Statistics
Matches: 85, Mismatches: 13, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
87 3 0.04
88 32 0.38
90 50 0.59
ACGTcount: A:0.35, C:0.19, G:0.16, T:0.30
Consensus pattern (89 bp):
TGGATCAACATCAACATTTTGTTTGATTCCATAACACAAGGAGGTGAATCAACATACCTCAGTTT
GCTCGATTCAATCAAAAAAGGACA
Found at i:1595340 original size:134 final size:132
Alignment explanation
Indices: 1595090--1595585 Score: 497
Period size: 134 Copynumber: 3.7 Consensus size: 132
1595080 TCATAACCTT
* * * * *** * * * *
1595090 ATTTTGCTCGATTCTATTACAGAATGAGGTGGATCAACATCAACATTTTGTTTGATTCCATTACA
1 ATTTTGTTCGATTCCATCACAGAACGAGGTGGATCAACATTTTCATTTCGCTCGATTCCATCACA
* * * * *
1595155 CAAGGAGTTGAATCAACATAACCTTAGTTTGCTCGATTCAATCAAAAAAGGAGATAGATCAACAT
66 AAAGGAGTTGGATCAACATAACCTTATTTTGCTCGATTCTATC--ATAAGGAGATAGATCAACAT
1595220 CAAC
129 CAAC
* * * * *
1595224 ATTTTGTTTGATTCCATAACATAAGGAGGTGGATCAACATTGTCATTTCGCTCGATTCCATCACA
1 ATTTTGTTCGATTCCATCACAGAACGAGGTGGATCAACATTTTCATTTCGCTCGATTCCATCACA
* * * * *
1595289 AAAGGACTTGGATCAACATAACCTTATTTTGATAGATTTTATCGCTGAAGGAGATAGATCAACAT
66 AAAGGAGTTGGATCAACATAACCTTATTTTGCTCGATTCTATC-AT-AAGGAGATAGATCAACAT
**
1595354 CTTC
129 CAAC
* * * * *
1595358 ATTTTATTCAATTCCATCACAGAACGAGGTGAATTAACATTTTCATTTCACTCGATTCCATCACA
1 ATTTTGTTCGATTCCATCACAGAACGAGGTGGATCAACATTTTCATTTCGCTCGATTCCATCACA
* * * * * * * *
1595423 AAAGGAGTTGGATTAGCATTATCTTATTTTTCTCGATTCTATCATAGATGAGGTAGACCAACATC
66 AAAGGAGTTGGATCAACATAACCTTATTTTGCTCGATTCTATCATA-AGGAGATAGATCAACATC
*
1595488 GAC
130 AAC
* * * * *
1595491 ATTTTGTTCGGTTCCATCATAGAATGAGGTGGATCAACATTTTCATTTTGCTTGATTCCATCACA
1 ATTTTGTTCGATTCCATCACAGAACGAGGTGGATCAACATTTTCATTTCGCTCGATTCCATCACA
* **
1595556 AAAAGAGTTGGATCAGTATAACCTTATTTT
66 AAAGGAGTTGGATCAACATAACCTTATTTT
1595586 TATCGATTAT
Statistics
Matches: 294, Mismatches: 66, Indels: 5
0.81 0.18 0.01
Matches are distributed among these distances:
132 1 0.00
133 97 0.33
134 196 0.67
ACGTcount: A:0.32, C:0.18, G:0.16, T:0.34
Consensus pattern (132 bp):
ATTTTGTTCGATTCCATCACAGAACGAGGTGGATCAACATTTTCATTTCGCTCGATTCCATCACA
AAAGGAGTTGGATCAACATAACCTTATTTTGCTCGATTCTATCATAAGGAGATAGATCAACATCA
AC
Found at i:1595538 original size:44 final size:44
Alignment explanation
Indices: 1595345--1595570 Score: 152
Period size: 44 Copynumber: 5.1 Consensus size: 44
1595335 GAAGGAGATA
* * *
1595345 GATCAACATCTTCATTTTATTCAATTCCATCACAGAACGAGGTG
1 GATCAACATTTTCATTTTATTCGATTCCATCACAGAATGAGGTG
* * * * * * *
1595389 AATTAACATTTTCATTTCACTCGATTCCATCACAAAAGGAGTTG
1 GATCAACATTTTCATTTTATTCGATTCCATCACAGAATGAGGTG
* * * * * *
1595433 GATTAGCATTATCTTATTTT-TCTCGATTCTATCATAG-ATGAGGTA
1 GATCAACATT-T-TCATTTTAT-TCGATTCCATCACAGAATGAGGTG
* *** * * *
1595478 GACCAACATCGACATTTTGTTCGGTTCCATCATAGAATGAGGTG
1 GATCAACATTTTCATTTTATTCGATTCCATCACAGAATGAGGTG
* * * *
1595522 GATCAACATTTTCATTTTGCTT-GATTCCATCACAAAAAGAGTTG
1 GATCAACATTTTCATTTT-ATTCGATTCCATCACAGAATGAGGTG
1595566 GATCA
1 GATCA
1595571 GTATAACCTT
Statistics
Matches: 136, Mismatches: 40, Indels: 12
0.72 0.21 0.06
Matches are distributed among these distances:
43 18 0.13
44 87 0.64
45 14 0.10
46 17 0.12
ACGTcount: A:0.31, C:0.19, G:0.15, T:0.35
Consensus pattern (44 bp):
GATCAACATTTTCATTTTATTCGATTCCATCACAGAATGAGGTG
Found at i:1609840 original size:2 final size:2
Alignment explanation
Indices: 1609833--1609859 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
1609823 AATTAAAATT
1609833 AC AC AC AC AC AC AC AC AC AC AC AC AC A
1 AC AC AC AC AC AC AC AC AC AC AC AC AC A
1609860 TATATATATA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.48, G:0.00, T:0.00
Consensus pattern (2 bp):
AC
Found at i:1609864 original size:2 final size:2
Alignment explanation
Indices: 1609859--1609889 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
1609849 ACACACACAC
1609859 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1609890 GATTAATCTT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:1611227 original size:94 final size:95
Alignment explanation
Indices: 1611083--1611271 Score: 283
Period size: 94 Copynumber: 2.0 Consensus size: 95
1611073 ATATCGACTA
* *
1611083 GGTAGTATCGATACCATGGTAAGGGTATCAATACCAAGCAATATCGAACCTAAAATTGGTATCGA
1 GGTAGTATCGATACCATGGTAAGGGTATCAATACCAAGAAATATCAAACCTAAAATTGGTATCGA
*
1611148 TATC-GAAAGAGGGTATCGATACCATAGTAT
66 TACCAGAAAG-GGGTATCGATACCATAGTAT
* * * *
1611178 GGTAGTAT-GATACCATGGTAAGGGTATCGATACTAGGAAATTTCAAACCTAAAATTGGTATCGA
1 GGTAGTATCGATACCATGGTAAGGGTATCAATACCAAGAAATATCAAACCTAAAATTGGTATCGA
*
1611242 TACCATAAAGGGGTATCGATACCATAGTAT
66 TACCAGAAAGGGGTATCGATACCATAGTAT
1611272 ATAAGTATCG
Statistics
Matches: 85, Mismatches: 8, Indels: 3
0.89 0.08 0.03
Matches are distributed among these distances:
94 73 0.86
95 12 0.14
ACGTcount: A:0.37, C:0.15, G:0.22, T:0.26
Consensus pattern (95 bp):
GGTAGTATCGATACCATGGTAAGGGTATCAATACCAAGAAATATCAAACCTAAAATTGGTATCGA
TACCAGAAAGGGGTATCGATACCATAGTAT
Found at i:1611279 original size:94 final size:95
Alignment explanation
Indices: 1611085--1611292 Score: 278
Period size: 94 Copynumber: 2.2 Consensus size: 95
1611075 ATCGACTAGG
* *
1611085 TAGTATCGATACCATGGTAAGGGTATCAATACCAAGCAATATCGAACCTAAAATTGGTATCGATA
1 TAGTATCGATACCATGGTAAGGGTATCAATACCAAGAAATATCAAACCTAAAATTGGTATCGATA
* *
1611150 TCGAAAGAGGGTATCGATACCATAGTATGG
66 CCGAAAGAGGGTATCGATACCATAGTATGA
* * * *
1611180 TAGTAT-GATACCATGGTAAGGGTATCGATACTAGGAAATTTCAAACCTAAAATTGGTATCGATA
1 TAGTATCGATACCATGGTAAGGGTATCAATACCAAGAAATATCAAACCTAAAATTGGTATCGATA
*
1611244 CCATAAAG-GGGTATCGATACCATAGTAT-A
66 CC-GAAAGAGGGTATCGATACCATAGTATGA
* *
1611273 TAAGTATCGGTACCAGGGTA
1 T-AGTATCGATACCATGGTA
1611293 GTAGTATAGA
Statistics
Matches: 99, Mismatches: 11, Indels: 6
0.85 0.09 0.05
Matches are distributed among these distances:
93 1 0.01
94 78 0.79
95 20 0.20
ACGTcount: A:0.37, C:0.15, G:0.22, T:0.26
Consensus pattern (95 bp):
TAGTATCGATACCATGGTAAGGGTATCAATACCAAGAAATATCAAACCTAAAATTGGTATCGATA
CCGAAAGAGGGTATCGATACCATAGTATGA
Found at i:1611708 original size:59 final size:59
Alignment explanation
Indices: 1611606--1611811 Score: 290
Period size: 59 Copynumber: 3.5 Consensus size: 59
1611596 GTGTGCAAAA
* * *
1611606 TTAAGAAATTCCTACTAAG-GTATGAATTTTCGTATAGGGCACTTCGTGTGCTAAAATG
1 TTAAGAAATTCATACTAAGTGTATGAATTTCCGTATAGGACACTTCGTGTGCTAAAATG
* * *
1611664 TTAAGAAATTCATACTAAGTGTATGAATTTCCATATAGAACACTTCGTGTGGTAAAATG
1 TTAAGAAATTCATACTAAGTGTATGAATTTCCGTATAGGACACTTCGTGTGCTAAAATG
* *
1611723 TTAAGAAATTCATACTAAGTGTATGAATTTCCGTATTGGGA-ACTTTGTGTGCTAAAATG
1 TTAAGAAATTCATACTAAGTGTATGAATTTCCGTA-TAGGACACTTCGTGTGCTAAAATG
* * *
1611782 ATAAGAAATTCATATTAAGTGTAAGAATTT
1 TTAAGAAATTCATACTAAGTGTATGAATTT
1611812 TTGTGTGGGA
Statistics
Matches: 132, Mismatches: 14, Indels: 3
0.89 0.09 0.02
Matches are distributed among these distances:
58 18 0.14
59 111 0.84
60 3 0.02
ACGTcount: A:0.35, C:0.11, G:0.18, T:0.35
Consensus pattern (59 bp):
TTAAGAAATTCATACTAAGTGTATGAATTTCCGTATAGGACACTTCGTGTGCTAAAATG
Found at i:1612141 original size:68 final size:68
Alignment explanation
Indices: 1612029--1612441 Score: 576
Period size: 68 Copynumber: 6.1 Consensus size: 68
1612019 AGTGAGAAAA
* * **
1612029 TTTGAGACCTAACTGTGTATATGA-AGAAAGGTGTCATTTATGCCAGTTAGATGAAAAACTAAGT
1 TTTGAGGCCTAACTGTGCATATGACAGAAAGGTGTCATTTATGCCAGTTAGATGAAAGGCTAAGT
1612093 GCC
66 GCC
* ** *
1612096 TTTGAGGCCTAACTATGCATATGATGGAAAGGTGACATTTATGCCAGTTAGATGAAAGGCTAAGT
1 TTTGAGGCCTAACTGTGCATATGACAGAAAGGTGTCATTTATGCCAGTTAGATGAAAGGCTAAGT
1612161 GCC
66 GCC
* *
1612164 TTTGAGGCCTAACTGTGCATATGATAGAAAAGTGTCATTTATGCCAGTTAGATGAAAGGCTAAGT
1 TTTGAGGCCTAACTGTGCATATGACAGAAAGGTGTCATTTATGCCAGTTAGATGAAAGGCTAAGT
1612229 GCC
66 GCC
* * * *
1612232 TTGGAGGCCTAACTATGCATATGACAGAAAGGTGTCATTTATACTAGTTAGATGAAAGGCTAAGT
1 TTTGAGGCCTAACTGTGCATATGACAGAAAGGTGTCATTTATGCCAGTTAGATGAAAGGCTAAGT
*
1612297 GTC
66 GCC
* * *
1612300 TTTGAGGCCTAACTGTGCATATGAAAGAAAGGTGTCATTTACGCCAGTTAGATGAAAGGCTAAAT
1 TTTGAGGCCTAACTGTGCATATGACAGAAAGGTGTCATTTATGCCAGTTAGATGAAAGGCTAAGT
1612365 GCC
66 GCC
* ** * * * *
1612368 TTTGATGCCTAACTGTGCATATGACAGAAATATGTCAATTATGCCAATTAGATGAATGGTTAAGT
1 TTTGAGGCCTAACTGTGCATATGACAGAAAGGTGTCATTTATGCCAGTTAGATGAAAGGCTAAGT
*
1612433 ACC
66 GCC
*
1612436 ATTGAG
1 TTTGAG
1612442 TAAAATAATA
Statistics
Matches: 306, Mismatches: 39, Indels: 1
0.88 0.11 0.00
Matches are distributed among these distances:
67 21 0.07
68 285 0.93
ACGTcount: A:0.32, C:0.14, G:0.24, T:0.29
Consensus pattern (68 bp):
TTTGAGGCCTAACTGTGCATATGACAGAAAGGTGTCATTTATGCCAGTTAGATGAAAGGCTAAGT
GCC
Found at i:1612853 original size:81 final size:81
Alignment explanation
Indices: 1612374--1612828 Score: 676
Period size: 81 Copynumber: 5.6 Consensus size: 81
1612364 TGCCTTTGAT
* * ** * *
1612374 GCCTAACTGTGCATATGACAGAAATATGTCAATTATGCCAATTAGATGAATGGTTAAGTACCATT
1 GCCTAGCTGTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAATGGTTAAGTACCGTT
*
1612439 GAGTAAAATAATAATG
66 GAGTAAAAGAATAATG
* * * *
1612455 ACCTAGATGTGCATTTGATAGAAATGTGTCAATTATGCCAGTTAGATGAATGGTTAAGTACCGTT
1 GCCTAGCTGTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAATGGTTAAGTACCGTT
1612520 GAGTAAAAGAATAATG
66 GAGTAAAAGAATAATG
** * *
1612536 GCCTAATTGTGTATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAATGGTTAAGTATCGTT
1 GCCTAGCTGTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAATGGTTAAGTACCGTT
1612601 GAGTAAAAGAATAATG
66 GAGTAAAAGAATAATG
* * *
1612617 GCCTAGTTGTGCATTTGACAGAAATGTGTCATTTATGCCAGTTAGATGAATGGTTAAGTACCGTT
1 GCCTAGCTGTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAATGGTTAAGTACCGTT
1612682 GAGTAAAAGAATAATG
66 GAGTAAAAGAATAATG
* * * *
1612698 GCCTAGCTATACATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAATGATTAAGTACCATT
1 GCCTAGCTGTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAATGGTTAAGTACCGTT
1612763 GAGTAAAAGAATAATG
66 GAGTAAAAGAATAATG
* * * *
1612779 GACTAGCTGTGCATTTGAAAGAAAGGTGTCAATTATGTCAGTTATATGAA
1 GCCTAGCTGTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAA
1612829 CAATTAAACA
Statistics
Matches: 340, Mismatches: 34, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
81 340 1.00
ACGTcount: A:0.36, C:0.11, G:0.23, T:0.31
Consensus pattern (81 bp):
GCCTAGCTGTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAATGGTTAAGTACCGTT
GAGTAAAAGAATAATG
Found at i:1612866 original size:29 final size:29
Alignment explanation
Indices: 1612824--1612882 Score: 82
Period size: 29 Copynumber: 2.0 Consensus size: 29
1612814 TGTCAGTTAT
* * *
1612824 ATGAACAATTAAACATTGTTGAGTAAAAG
1 ATGAACAATAAAACACTGTTGAATAAAAG
*
1612853 ATGAACGATAAAACACTGTTGAATAAAAG
1 ATGAACAATAAAACACTGTTGAATAAAAG
1612882 A
1 A
1612883 ATAATGTATT
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
29 26 1.00
ACGTcount: A:0.51, C:0.08, G:0.17, T:0.24
Consensus pattern (29 bp):
ATGAACAATAAAACACTGTTGAATAAAAG
Found at i:1625216 original size:24 final size:24
Alignment explanation
Indices: 1625171--1625216 Score: 56
Period size: 24 Copynumber: 1.9 Consensus size: 24
1625161 GACTGATTCA
* * * *
1625171 GTTAGGTTGGGCTGGTTTGGTTAG
1 GTTAGGATGGACTGATTCGGTTAG
1625195 GTTAGGATGGACTGATTCGGTT
1 GTTAGGATGGACTGATTCGGTT
1625217 GGGCCGGTTC
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
24 18 1.00
ACGTcount: A:0.13, C:0.07, G:0.41, T:0.39
Consensus pattern (24 bp):
GTTAGGATGGACTGATTCGGTTAG
Found at i:1629393 original size:139 final size:139
Alignment explanation
Indices: 1629165--1629592 Score: 513
Period size: 139 Copynumber: 3.1 Consensus size: 139
1629155 ATGTTGAGCC
* * * * * *
1629165 AAGGTTGAACAAATTCTTTTTCATTTTTGAACTTTTTCTCCCTCGTC-GATGAGTTCTTCTCGTT
1 AAGGTTGAACAAGTTC-TTATCA-TTATGAACTTATTCTCCCTCATCGGATGAGTTCTTCTCATT
* * *
1629229 ATGAACTCTCCACTGGAAATGTTGATCCCTCGAGTGAGGTGTTACTAATTCAACTCCATATGTCA
64 ATGAACTCTCCAC-GGAAATGTTGATCCCTCGAGTGAGGTGTTGCTGATTCAACTCCATATGTGA
*
1629294 TGAATCGA-GCT
128 TGAATCAACGCT
* * *
1629305 GAGGTTGAACAAGTTCTTATCATTATAAACTTATTCTCCCTCATCGGATGAGTTCTTCCCATTAT
1 AAGGTTGAACAAGTTCTTATCATTATGAACTTATTCTCCCTCATCGGATGAGTTCTTCTCATTAT
**
1629370 GAACTCTCCACGGGAAACATTGATCCCTCGAGTGAGGTGTTGCTGATTCAACTCCATATGTGATG
66 GAACTCTCCAC-GGAAATGTTGATCCCTCGAGTGAGGTGTTGCTGATTCAACTCCATATGTGATG
1629435 AAT-AACGCT
130 AATCAACGCT
* * * * * * * *
1629444 AAGGTTGAACAAGTTGTTCTCATTATGAACTTCTTCTCACTCATAGAATAAGTTCTTTTCATTAT
1 AAGGTTGAACAAGTTCTTATCATTATGAACTTATTCTCCCTCATCGGATGAGTTCTTCTCATTAT
* * * * * *
1629509 GAACTTTCAACTGAAATGTTGATTCCTCGAGTGAGGTGTTGTTGATTCAATTCCATATGTGATGA
66 GAACTCTCCACGGAAATGTTGATCCCTCGAGTGAGGTGTTGCTGATTCAACTCCATATGTGATGA
*
1629574 ATCAA-ACT
131 ATCAACGCT
*
1629582 AAGGTTAAACA
1 AAGGTTGAACA
1629593 TGTAACACCC
Statistics
Matches: 248, Mismatches: 37, Indels: 8
0.85 0.13 0.03
Matches are distributed among these distances:
138 82 0.33
139 152 0.61
140 14 0.06
ACGTcount: A:0.27, C:0.20, G:0.18, T:0.36
Consensus pattern (139 bp):
AAGGTTGAACAAGTTCTTATCATTATGAACTTATTCTCCCTCATCGGATGAGTTCTTCTCATTAT
GAACTCTCCACGGAAATGTTGATCCCTCGAGTGAGGTGTTGCTGATTCAACTCCATATGTGATGA
ATCAACGCT
Found at i:1629840 original size:21 final size:21
Alignment explanation
Indices: 1629816--1629868 Score: 97
Period size: 21 Copynumber: 2.5 Consensus size: 21
1629806 GTGTACAATG
1629816 GGGGAATCGGTTCCTGTAGCA
1 GGGGAATCGGTTCCTGTAGCA
1629837 GGGGAATCGGTTCCTGTAGCA
1 GGGGAATCGGTTCCTGTAGCA
*
1629858 GTGGAATCGGT
1 GGGGAATCGGT
1629869 ACCCCCTGTA
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 31 1.00
ACGTcount: A:0.19, C:0.17, G:0.40, T:0.25
Consensus pattern (21 bp):
GGGGAATCGGTTCCTGTAGCA
Found at i:1630342 original size:46 final size:45
Alignment explanation
Indices: 1630273--1630442 Score: 236
Period size: 45 Copynumber: 3.8 Consensus size: 45
1630263 GATAAAATCT
*
1630273 CTTACCATTTATCCCATAAGCTCGAAAGCTTATTTTACCAATATA
1 CTTACCATTTATACCATAAGCTCGAAAGCTTATTTTACCAATATA
*
1630318 CTTACCATTTAATACCATAAGCTCGTAAGCTTATTTTACCAATATA
1 CTTACCATTT-ATACCATAAGCTCGAAAGCTTATTTTACCAATATA
* * * *
1630364 CTTACCATTTATTCCATAAGCTCGTAAGTTTATCTTACCAATATA
1 CTTACCATTTATACCATAAGCTCGAAAGCTTATTTTACCAATATA
* *
1630409 CTTGCCA-TTATACCACAAGCTC-ATAAGCTTATTT
1 CTTACCATTTATACCATAAGCTCGA-AAGCTTATTT
1630443 ACACGGTTAC
Statistics
Matches: 112, Mismatches: 11, Indels: 5
0.88 0.09 0.04
Matches are distributed among these distances:
44 21 0.19
45 48 0.43
46 43 0.38
ACGTcount: A:0.32, C:0.24, G:0.07, T:0.37
Consensus pattern (45 bp):
CTTACCATTTATACCATAAGCTCGAAAGCTTATTTTACCAATATA
Found at i:1630493 original size:19 final size:20
Alignment explanation
Indices: 1630471--1630511 Score: 66
Period size: 19 Copynumber: 2.1 Consensus size: 20
1630461 AACCAATAAA
*
1630471 CCATAAACCATAGA-AATAG
1 CCATAAACAATAGACAATAG
1630490 CCATAAACAATAGACAATAG
1 CCATAAACAATAGACAATAG
1630510 CC
1 CC
1630512 CAATATACAA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
19 13 0.65
20 7 0.35
ACGTcount: A:0.51, C:0.24, G:0.10, T:0.15
Consensus pattern (20 bp):
CCATAAACAATAGACAATAG
Found at i:1630610 original size:40 final size:40
Alignment explanation
Indices: 1630566--1630646 Score: 153
Period size: 40 Copynumber: 2.0 Consensus size: 40
1630556 ACCGTAGTGC
*
1630566 TACACATAAGGTCGTGCCCACCATATACACCGAAGTGTAT
1 TACACATAAGGTCGTGCCCACCATATACACAGAAGTGTAT
1630606 TACACATAAGGTCGTGCCCACCATATACACAGAAGTGTAT
1 TACACATAAGGTCGTGCCCACCATATACACAGAAGTGTAT
1630646 T
1 T
1630647 GTAAACCTGC
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
40 40 1.00
ACGTcount: A:0.33, C:0.26, G:0.17, T:0.23
Consensus pattern (40 bp):
TACACATAAGGTCGTGCCCACCATATACACAGAAGTGTAT
Found at i:1632988 original size:139 final size:139
Alignment explanation
Indices: 1632639--1632998 Score: 521
Period size: 138 Copynumber: 2.6 Consensus size: 139
1632629 GGGTATTACA
* * *
1632639 GAACAAGTTCTTTTCATTATTAAATTCTTGTCCCTCATCGGATGAGTTCTTCTCATTATGAACTC
1 GAACAAGTTCTTCTCATTATTAACTTCTTCTCCCTCATCGGATGAGTTCTTCTCATTATGAACTC
1632704 TCCACTGGAAATGTTGATCCCTCGAGTAAGGTGTTGTTGATTCAACTCCATATGTGATGAAACAA
66 TCCACTGGAAATGTTGATCCCTCGAGTAAGGTGTTGTTGATTCAACTCCATATGTGATGAAACAA
*
1632769 GCTATGGTT
131 GCTAAGGTT
* *
1632778 GAGC-A-TCTCTTCTCATTATTAACTTCCTCTCCCTCATCGGATGAGTTCTTCTCATTATGAACT
1 GAACAAGT-TCTTCTCATTATTAACTTCTTCTCCCTCATCGGATGAGTTCTTCTCATTATGAACT
* * * * **
1632841 CTCCACTGGACATGTTGATCCCTCGAGTGAGGTTTTGTAT-ATTCAATTCCATATGTGATGAGTC
65 CTCCACTGGAAATGTTGATCCCTCGAGTAAGGTGTTGT-TGATTCAACTCCATATGTGATGAAAC
1632905 AAG-TAAAGGTT
129 AAGCT-AAGGTT
* * * *
1632916 GAACAAGTTCTTCTCATTATGAACTTTTTCTCCATCATTGGATGAGTTCTTCTCATTATGAACTC
1 GAACAAGTTCTTCTCATTATTAACTTCTTCTCCCTCATCGGATGAGTTCTTCTCATTATGAACTC
1632981 TCCACTGGAAATGTTGAT
66 TCCACTGGAAATGTTGAT
1632999 TGGTTTATCC
Statistics
Matches: 197, Mismatches: 19, Indels: 10
0.87 0.08 0.04
Matches are distributed among these distances:
137 2 0.01
138 120 0.61
139 74 0.38
140 1 0.01
ACGTcount: A:0.25, C:0.21, G:0.17, T:0.38
Consensus pattern (139 bp):
GAACAAGTTCTTCTCATTATTAACTTCTTCTCCCTCATCGGATGAGTTCTTCTCATTATGAACTC
TCCACTGGAAATGTTGATCCCTCGAGTAAGGTGTTGTTGATTCAACTCCATATGTGATGAAACAA
GCTAAGGTT
Found at i:1633732 original size:101 final size:98
Alignment explanation
Indices: 1633485--1633870 Score: 336
Period size: 101 Copynumber: 3.8 Consensus size: 98
1633475 AATTTTACGA
* * * *
1633485 GTGAAACAAA-TTCAAAATTTGAGTTTCAAGGGAAACTGTTTCAAGCAAGACGAAATT--TATT-
1 GTGAAA-AAATTTC-AAATTTGTGTTTCAAGGGAAACTGTCTC-AGCGAGACGAAATTGATTTTA
* *
1633546 --AAAAAAATCTCAAGTGAGATTAATTTGGTTTTAG
63 GGAAAAAAATCTCAAGTGAGATTAATTTTGTTTCAG
* * *** *
1633580 GTGAAACAAATTTCAAATTTTGTGTTTCAAGGGAAACTATATCAAAAAGACGAAATTGGTTTTGA
1 GTGAAA-AAATTTCAAA-TTTGTGTTTCAAGGGAAACTGTCTCAGCGAGACGAAATTGATTTT-A
* * *
1633645 GGAAAAAAATCTTAAGTGAGATTGATTTTGTTTCGG
63 GGAAAAAAATCTCAAGTGAGATTAATTTTGTTTCAG
* * *
1633681 GTGAAATAATTTCTAAATTTGTGTTTCAAGGGATATTGTCTCTAGCGAGACGAAATTGATTTTAA
1 GTGAAAAAATTTC-AAATTTGTGTTTCAAGGGAAACTGTCTC-AGCGAGACGAAATTGATTTT-A
* * *
1633746 GAAAAAAATAATCTCAAGTGAGATCAATTTTGGTTTCAA
63 G-GAAAAA-AATCTCAAGTGAGATTAATTTT-GTTTCAG
** * *
1633785 GTG-AGGAAGTTCAAAATTTGTGTTTCAAGGGAAAACTGTCTCAAGCGAGACAAAATTGATTTTA
1 GTGAAAAAATTTC-AAATTTGTGTTTCAAGGG-AAACTGTCTC-AGCGAGACGAAATTGATTTTA
* *
1633849 AGAAAAGTAATCTCAAGTGAGA
63 GGAAAA-AAATCTCAAGTGAGA
1633871 AAAAATTTCA
Statistics
Matches: 238, Mismatches: 38, Indels: 23
0.80 0.13 0.08
Matches are distributed among these distances:
95 25 0.11
96 25 0.11
97 3 0.01
100 27 0.11
101 56 0.24
102 23 0.10
103 44 0.18
104 35 0.15
ACGTcount: A:0.39, C:0.09, G:0.20, T:0.32
Consensus pattern (98 bp):
GTGAAAAAATTTCAAATTTGTGTTTCAAGGGAAACTGTCTCAGCGAGACGAAATTGATTTTAGGA
AAAAAATCTCAAGTGAGATTAATTTTGTTTCAG
Found at i:1635377 original size:21 final size:21
Alignment explanation
Indices: 1635349--1635455 Score: 84
Period size: 20 Copynumber: 5.2 Consensus size: 21
1635339 ACTTGATCTG
1635349 TTTT-CTTTTTTCTTCTCTCT
1 TTTTGCTTTTTTCTTCTCTCT
1635369 TTTTGC-TTTTT-TTCTCTCT
1 TTTTGCTTTTTTCTTCTCTCT
1635388 CTTTTGCTTTCTTT-TCTCTCTCT
1 -TTTTGCTTT-TTTCT-TCTCTCT
* * *
1635411 TCTT-CATTTTTCTT-TTTCT
1 TTTTGCTTTTTTCTTCTCTCT
*
1635430 TTTTGCTATATCTTC-TCTCTCT
1 TTTTGCT-T-TTTTCTTCTCTCT
1635452 TTTT
1 TTTT
1635456 TGTGTTGTAA
Statistics
Matches: 70, Mismatches: 7, Indels: 18
0.74 0.07 0.19
Matches are distributed among these distances:
19 15 0.21
20 20 0.29
21 9 0.13
22 19 0.27
23 7 0.10
ACGTcount: A:0.03, C:0.24, G:0.03, T:0.70
Consensus pattern (21 bp):
TTTTGCTTTTTTCTTCTCTCT
Found at i:1635378 original size:19 final size:20
Alignment explanation
Indices: 1635356--1635454 Score: 89
Period size: 21 Copynumber: 4.9 Consensus size: 20
1635346 CTGTTTTCTT
1635356 TTTTCTTCTCTCT-TTTTGC
1 TTTTCTTCTCTCTCTTTTGC
*
1635375 TTTTTTTCTCTCTCTTTTGC
1 TTTTCTTCTCTCTCTTTTGC
*
1635395 TTTCTTTTCTCTCTCTTCTT-C
1 TTT-TCTTCTCTCTCTT-TTGC
*
1635416 ATTTTTCTT-TTTCT-TTTTGC
1 --TTTTCTTCTCTCTCTTTTGC
*
1635436 TATATCTTCTCTCTCTTTT
1 T-TTTCTTCTCTCTCTTTT
1635455 TTGTGTTGTA
Statistics
Matches: 66, Mismatches: 5, Indels: 16
0.76 0.06 0.18
Matches are distributed among these distances:
18 1 0.02
19 19 0.29
20 16 0.24
21 22 0.33
22 5 0.08
23 3 0.05
ACGTcount: A:0.03, C:0.25, G:0.03, T:0.69
Consensus pattern (20 bp):
TTTTCTTCTCTCTCTTTTGC
Found at i:1636800 original size:20 final size:20
Alignment explanation
Indices: 1636772--1636831 Score: 68
Period size: 20 Copynumber: 3.0 Consensus size: 20
1636762 TATAGATGAT
* *
1636772 AATGTAAAGATGCACATGCA
1 AATGCAAAGATGCAAATGCA
**
1636792 AATGCAAAGATGCAAATGGG
1 AATGCAAAGATGCAAATGCA
*
1636812 AATGCAAA-ATGTAAATGCA
1 AATGCAAAGATGCAAATGCA
1636831 A
1 A
1636832 CAAAGGAATT
Statistics
Matches: 33, Mismatches: 7, Indels: 1
0.80 0.17 0.02
Matches are distributed among these distances:
19 9 0.27
20 24 0.73
ACGTcount: A:0.48, C:0.12, G:0.22, T:0.18
Consensus pattern (20 bp):
AATGCAAAGATGCAAATGCA
Found at i:1639478 original size:27 final size:27
Alignment explanation
Indices: 1639436--1639489 Score: 81
Period size: 27 Copynumber: 2.0 Consensus size: 27
1639426 GTCAGGACCA
1639436 TAATAATGCGAATCATACCCCAGATCG
1 TAATAATGCGAATCATACCCCAGATCG
** *
1639463 TAATAATGCGGGTCATACCCCGGATCG
1 TAATAATGCGAATCATACCCCAGATCG
1639490 GGTCACCGTA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.31, C:0.26, G:0.20, T:0.22
Consensus pattern (27 bp):
TAATAATGCGAATCATACCCCAGATCG
Found at i:1653028 original size:17 final size:17
Alignment explanation
Indices: 1653006--1653048 Score: 86
Period size: 17 Copynumber: 2.5 Consensus size: 17
1652996 TATAGGCGTT
1653006 GTCTATCCTACTCCAGC
1 GTCTATCCTACTCCAGC
1653023 GTCTATCCTACTCCAGC
1 GTCTATCCTACTCCAGC
1653040 GTCTATCCT
1 GTCTATCCT
1653049 TTTAGTCGAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 26 1.00
ACGTcount: A:0.16, C:0.40, G:0.12, T:0.33
Consensus pattern (17 bp):
GTCTATCCTACTCCAGC
Found at i:1656296 original size:184 final size:184
Alignment explanation
Indices: 1655987--1656354 Score: 736
Period size: 184 Copynumber: 2.0 Consensus size: 184
1655977 CGATCTTCCT
1655987 CCCGTATATGATCGAGTTCAAGAGCATCAATCTTTTCACAAGGACAGTGGTGTTGTGAGATATTG
1 CCCGTATATGATCGAGTTCAAGAGCATCAATCTTTTCACAAGGACAGTGGTGTTGTGAGATATTG
1656052 GCATCAGCTTGCCTTTGAGAAAATGGTTCCATAACTTCACGTTCAGTTTTTGGGCTTGGCGATCT
66 GCATCAGCTTGCCTTTGAGAAAATGGTTCCATAACTTCACGTTCAGTTTTTGGGCTTGGCGATCT
1656117 ACTCTTTTCCTCATTGGAGCATTCTCTTTGAACTTGGCCCACCCGAATCATAAA
131 ACTCTTTTCCTCATTGGAGCATTCTCTTTGAACTTGGCCCACCCGAATCATAAA
1656171 CCCGTATATGATCGAGTTCAAGAGCATCAATCTTTTCACAAGGACAGTGGTGTTGTGAGATATTG
1 CCCGTATATGATCGAGTTCAAGAGCATCAATCTTTTCACAAGGACAGTGGTGTTGTGAGATATTG
1656236 GCATCAGCTTGCCTTTGAGAAAATGGTTCCATAACTTCACGTTCAGTTTTTGGGCTTGGCGATCT
66 GCATCAGCTTGCCTTTGAGAAAATGGTTCCATAACTTCACGTTCAGTTTTTGGGCTTGGCGATCT
1656301 ACTCTTTTCCTCATTGGAGCATTCTCTTTGAACTTGGCCCACCCGAATCATAAA
131 ACTCTTTTCCTCATTGGAGCATTCTCTTTGAACTTGGCCCACCCGAATCATAAA
1656355 TCTTCCATCT
Statistics
Matches: 184, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
184 184 1.00
ACGTcount: A:0.24, C:0.22, G:0.21, T:0.33
Consensus pattern (184 bp):
CCCGTATATGATCGAGTTCAAGAGCATCAATCTTTTCACAAGGACAGTGGTGTTGTGAGATATTG
GCATCAGCTTGCCTTTGAGAAAATGGTTCCATAACTTCACGTTCAGTTTTTGGGCTTGGCGATCT
ACTCTTTTCCTCATTGGAGCATTCTCTTTGAACTTGGCCCACCCGAATCATAAA
Found at i:1669850 original size:92 final size:90
Alignment explanation
Indices: 1669597--1669997 Score: 341
Period size: 92 Copynumber: 4.4 Consensus size: 90
1669587 ATTTAAAAAA
* * * * *
1669597 TGATAATTACAATAATTATCTTTCTTTTAAATATA-AAAAATCTATCTCAACTCATATTA-G-AT
1 TGATAATTACAATAATTATCTTT-TTTTAAATATATAAACA--TATTTCAACT-AAATAAGGTTT
* * *
1669659 TATATAT--ATATATATATTATTAAAGTT
62 TATATATAAATATATATATAAATAAAGAT
* * * * * * * *
1669686 TGATAATTATAATAATTATCACTCTTTTAAATATATAAACTTATTCCAAAGTAGATAATGTTTTA
1 TGATAATTACAATAATTATC-TTTTTTTAAATATATAAACATATTTC-AACTAAATAAGGTTTTA
*
1669751 TCATATAAATATATATATAAATAGAGAT
64 T-ATATAAATATATATATAAATAAAGAT
* *
1669779 TGATATTTACAATAATTATCTTTTTTTAAATATATAAACATATTTTAACTCAAATAAGGTTTTAT
1 TGATAATTACAATAATTATCTTTTTTTAAATATATAAACATATTTCAACT-AAATAAGGTTTTAT
* * *
1669844 AATATAAATATATATTTTAATATAA-TT
65 -ATATAAATATATATATAAATA-AAGAT
* * *
1669871 TGATAATTACAATAATTAT-ATTTTTTAAATATATAAATC-TATTTCAACTAAGATTAGGTTCTA
1 TGATAATTACAATAATTATCTTTTTTTAAATATATAAA-CATATTTCAACTAA-ATAAGGTTTTA
* * *
1669934 TATGATATATATATATATATATAAAGAC
64 TAT-ATAAATATATATATAAATAAAGAT
* ** *
1669962 TGATAATTACAATAATTACCTCCTTTTAAATGTATA
1 TGATAATTACAATAATTATCTTTTTTTAAATATATA
1669998 TAATTATTCA
Statistics
Matches: 251, Mismatches: 46, Indels: 27
0.77 0.14 0.08
Matches are distributed among these distances:
88 8 0.03
89 34 0.14
90 14 0.06
91 76 0.30
92 84 0.33
93 35 0.14
ACGTcount: A:0.43, C:0.08, G:0.05, T:0.44
Consensus pattern (90 bp):
TGATAATTACAATAATTATCTTTTTTTAAATATATAAACATATTTCAACTAAATAAGGTTTTATA
TATAAATATATATATAAATAAAGAT
Done.