Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A01
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: 115637255
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 5450143 characters in sequence are not A, C, G, or T
File 157 of 349
Found at i:50575264 original size:40 final size:40
Alignment explanation
Indices: 50575220--50575964 Score: 1267
Period size: 40 Copynumber: 18.6 Consensus size: 40
50575210 CAAGCTCAAT
* * * * *
50575220 TGCCTTCGGGTCTTAACCCGGGTATAGCAACTCGCACGAA
1 TGCCTTCGGGTCTTAGCCCGGATATATCAATTCGCACAAA
*
50575260 TGCCTTCGGGTCTTAGCCCGGATATATCAACTT-GCACAAT
1 TGCCTTCGGGTCTTAGCCCGGATATATCAA-TTCGCACAAA
* *
50575300 TGCCTTCGGTTCTTAGCCTGGATATATCAATTCGCACAAA
1 TGCCTTCGGGTCTTAGCCCGGATATATCAATTCGCACAAA
* * *
50575340 CGCCATCGGGTCTTAGCCCGGATATATCAGTTCGCACAAA
1 TGCCTTCGGGTCTTAGCCCGGATATATCAATTCGCACAAA
*
50575380 TGCCTTCGGGTCTTATCCCGGATATATCAATTCGCACAAA
1 TGCCTTCGGGTCTTAGCCCGGATATATCAATTCGCACAAA
*
50575420 TGCCTTCGGGTCTTATCCCGGATATATCAATTCGCACAAA
1 TGCCTTCGGGTCTTAGCCCGGATATATCAATTCGCACAAA
50575460 TGCCTTCGGGTCTTAGCCCGGATATATCAATTCGCACAAA
1 TGCCTTCGGGTCTTAGCCCGGATATATCAATTCGCACAAA
* *
50575500 TGCCTTCAGGTCTTATCCCGGATATATCAATTCGCACAAA
1 TGCCTTCGGGTCTTAGCCCGGATATATCAATTCGCACAAA
* *
50575540 TGCCTTCGGGTCTTATCCCGTATATATCAATTCGCACAAA
1 TGCCTTCGGGTCTTAGCCCGGATATATCAATTCGCACAAA
*
50575580 TGCCTTCGGGTCTTATCCCGGATATATCAATTCGCACAAA
1 TGCCTTCGGGTCTTAGCCCGGATATATCAATTCGCACAAA
*
50575620 TGCCTTCGGGTCTTATCCCGGATATATCAATTCGCACAAA
1 TGCCTTCGGGTCTTAGCCCGGATATATCAATTCGCACAAA
50575660 TGCCTTCGGGTCTTAGCCCGGATATATCAATTCGCACAAA
1 TGCCTTCGGGTCTTAGCCCGGATATATCAATTCGCACAAA
50575700 TGCCTTCGGGTCTTAGCCCGGATATATCAATTCGCACAAA
1 TGCCTTCGGGTCTTAGCCCGGATATATCAATTCGCACAAA
50575740 TGCCTTCGGGTCTTAGCCCGGATATATCAATTCGCACAAA
1 TGCCTTCGGGTCTTAGCCCGGATATATCAATTCGCACAAA
*
50575780 TGCCTTCGGGTCTTATCCCGGATATATCAATTCGCACAAA
1 TGCCTTCGGGTCTTAGCCCGGATATATCAATTCGCACAAA
*
50575820 TGCCTTCGGGTCTTATCCCGGATATATCAATTCGCACAAA
1 TGCCTTCGGGTCTTAGCCCGGATATATCAATTCGCACAAA
*
50575860 TGCCTTCGGGTCTTATCCCGGATATATCAATTCGCACAAA
1 TGCCTTCGGGTCTTAGCCCGGATATATCAATTCGCACAAA
*
50575900 TGCCTTCAGGTCTTAGCCCGGATATATCAATTCGCACAAA
1 TGCCTTCGGGTCTTAGCCCGGATATATCAATTCGCACAAA
50575940 TGCCTTCGGGTCTTAGCCCGGATAT
1 TGCCTTCGGGTCTTAGCCCGGATAT
50575965 CATTCAAATG
Statistics
Matches: 674, Mismatches: 29, Indels: 4
0.95 0.04 0.01
Matches are distributed among these distances:
39 2 0.00
40 671 1.00
41 1 0.00
ACGTcount: A:0.25, C:0.28, G:0.19, T:0.29
Consensus pattern (40 bp):
TGCCTTCGGGTCTTAGCCCGGATATATCAATTCGCACAAA
Found at i:50578376 original size:6 final size:6
Alignment explanation
Indices: 50578367--50578416 Score: 55
Period size: 6 Copynumber: 8.3 Consensus size: 6
50578357 CACATATTGG
* * * * *
50578367 TCATGT TCATAT TCATAT TCACAT TTACAT TCATTT TCATAT TCATAT
1 TCATAT TCATAT TCATAT TCATAT TCATAT TCATAT TCATAT TCATAT
50578415 TC
1 TC
50578417 CAGCAATAAC
Statistics
Matches: 37, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
6 37 1.00
ACGTcount: A:0.28, C:0.20, G:0.02, T:0.50
Consensus pattern (6 bp):
TCATAT
Found at i:50580565 original size:40 final size:40
Alignment explanation
Indices: 50580498--50580662 Score: 190
Period size: 40 Copynumber: 4.2 Consensus size: 40
50580488 ACCCAAGTAT
* *
50580498 CTTCGGGATTTAG-CCGGATATAACAACTCGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGCAACTCGCACAAATGC
**
50580537 CTTCGGGTTTTAGCCCGGATATAGCAACTCGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGCAACTCGCACAAATGC
* * * * *
50580577 CTTCGGGTCTTAGCCCGAATATAATC-ACTAGCATAAATGC
1 CTTCGGGACTTAGCCCGGATAT-AGCAACTCGCACAAATGC
* * * *
50580617 CTTCAGGACATAGCTCGGATATAGCAACTCGCACGAATGC
1 CTTCGGGACTTAGCCCGGATATAGCAACTCGCACAAATGC
50580657 CTTCGG
1 CTTCGG
50580663 ATCTTAGTCC
Statistics
Matches: 106, Mismatches: 17, Indels: 5
0.83 0.13 0.04
Matches are distributed among these distances:
39 14 0.13
40 90 0.85
41 2 0.02
ACGTcount: A:0.28, C:0.27, G:0.21, T:0.24
Consensus pattern (40 bp):
CTTCGGGACTTAGCCCGGATATAGCAACTCGCACAAATGC
Found at i:50585751 original size:46 final size:46
Alignment explanation
Indices: 50585698--50585826 Score: 213
Period size: 46 Copynumber: 2.8 Consensus size: 46
50585688 TATTTGGGCA
*
50585698 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
50585744 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
* * * *
50585790 ACCGAGCTCATTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
50585827 GCGGGTTACA
Statistics
Matches: 78, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
46 78 1.00
ACGTcount: A:0.21, C:0.21, G:0.29, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
Found at i:50587232 original size:26 final size:24
Alignment explanation
Indices: 50587188--50587255 Score: 68
Period size: 24 Copynumber: 2.8 Consensus size: 24
50587178 AAGAATAGAA
* *
50587188 AAAGAAATA-AAGCACAAAGAATTG
1 AAAGAAATAGAAGGAAAAAGAA-TG
50587212 AAACGAAATAGAAGGAAAAAGAGA-G
1 AAA-GAAATAGAAGGAAAAAGA-ATG
*
50587237 AAAGAAAAAGAAGGAAAAA
1 AAAGAAATAGAAGGAAAAA
50587256 TTCGGGTTTT
Statistics
Matches: 38, Mismatches: 3, Indels: 6
0.81 0.06 0.13
Matches are distributed among these distances:
24 18 0.47
25 10 0.26
26 9 0.24
27 1 0.03
ACGTcount: A:0.68, C:0.04, G:0.22, T:0.06
Consensus pattern (24 bp):
AAAGAAATAGAAGGAAAAAGAATG
Found at i:50588103 original size:41 final size:39
Alignment explanation
Indices: 50588057--50588196 Score: 115
Period size: 40 Copynumber: 3.6 Consensus size: 39
50588047 GACTTCGAGT
*
50588057 CGATGAGACACTGGGTGTCAAATTATTACTTCGGATAAATT
1 CGATGAGACACTGGGTGTCAAATTATTACTTCGGAT--ATC
** * * *
50588098 CGATGAGGTACTGGGT-ACCAA-T-TTACTTCGGCATAGC
1 CGATGAGACACTGGGTGTCAAATTATTACTTCGG-ATATC
* * * *
50588135 CGATGAGACACTGGATGTCAACTTATTGCTTCGAATTATC
1 CGATGAGACACTGGGTGTCAAATTATTACTTCGGA-TATC
* *
50588175 CGATGAGGCACTGGGTGCCAAA
1 CGATGAGACACTGGGTGTCAAA
50588197 CTGGTGTGTT
Statistics
Matches: 75, Mismatches: 19, Indels: 11
0.71 0.18 0.10
Matches are distributed among these distances:
37 14 0.19
38 11 0.15
39 5 0.07
40 31 0.41
41 14 0.19
ACGTcount: A:0.28, C:0.19, G:0.25, T:0.28
Consensus pattern (39 bp):
CGATGAGACACTGGGTGTCAAATTATTACTTCGGATATC
Found at i:50588479 original size:17 final size:15
Alignment explanation
Indices: 50588459--50588493 Score: 52
Period size: 17 Copynumber: 2.2 Consensus size: 15
50588449 GATTTGAATA
50588459 ATTGTATGACTATAGTT
1 ATTGTATGA-TATA-TT
50588476 ATTGTATGATATATT
1 ATTGTATGATATATT
50588491 ATT
1 ATT
50588494 TTACCTTTAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
15 5 0.28
16 4 0.22
17 9 0.50
ACGTcount: A:0.31, C:0.03, G:0.14, T:0.51
Consensus pattern (15 bp):
ATTGTATGATATATT
Found at i:50594137 original size:15 final size:15
Alignment explanation
Indices: 50594117--50594146 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
50594107 TGTTTTAAAC
50594117 CCCACGCATAAATTA
1 CCCACGCATAAATTA
50594132 CCCACGCATAAATTA
1 CCCACGCATAAATTA
50594147 TTCCGAGTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.40, C:0.33, G:0.07, T:0.20
Consensus pattern (15 bp):
CCCACGCATAAATTA
Found at i:50595956 original size:28 final size:28
Alignment explanation
Indices: 50595881--50595956 Score: 98
Period size: 28 Copynumber: 2.7 Consensus size: 28
50595871 TTTATAGAAT
* * *
50595881 AGATTGTCCTTGGCGGACATTCCACGTA
1 AGATAGTCCTTGGCGGACTTTCCACATA
* *
50595909 AGATAGTCCTTGGCGTACTTTTCACATA
1 AGATAGTCCTTGGCGGACTTTCCACATA
*
50595937 AGATAGTCATTGGCGGACTT
1 AGATAGTCCTTGGCGGACTT
50595957 CGCCTCTTCT
Statistics
Matches: 41, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
28 41 1.00
ACGTcount: A:0.24, C:0.21, G:0.24, T:0.32
Consensus pattern (28 bp):
AGATAGTCCTTGGCGGACTTTCCACATA
Found at i:50596444 original size:35 final size:35
Alignment explanation
Indices: 50596399--50596484 Score: 111
Period size: 35 Copynumber: 2.5 Consensus size: 35
50596389 TGGTGTCACT
* *
50596399 CTATAGAGCCAGTAGATCATTCATATGATGCCA-C
1 CTATAAAGCCAGTAGATCATTCACATGATGCCACC
* *
50596433 TTCATAAAGCCAGTAGATCATTCCCATGATGCCACC
1 CT-ATAAAGCCAGTAGATCATTCACATGATGCCACC
*
50596469 CTGTAAAGCCAGTAGA
1 CTATAAAGCCAGTAGA
50596485 CTATTTATCC
Statistics
Matches: 44, Mismatches: 6, Indels: 3
0.83 0.11 0.06
Matches are distributed among these distances:
34 1 0.02
35 41 0.93
36 2 0.05
ACGTcount: A:0.33, C:0.26, G:0.17, T:0.24
Consensus pattern (35 bp):
CTATAAAGCCAGTAGATCATTCACATGATGCCACC
Found at i:50597512 original size:28 final size:27
Alignment explanation
Indices: 50597454--50597513 Score: 86
Period size: 27 Copynumber: 2.2 Consensus size: 27
50597444 GTAATTAATG
*
50597454 TTTTTTTTAATTTAAAGGGATTAGTAA
1 TTTTTTTTAATATAAAGGGATTAGTAA
*
50597481 TTTTTTTTAA-ATAGAAGGGATTAGTTA
1 TTTTTTTTAATATA-AAGGGATTAGTAA
50597508 TTTTTT
1 TTTTTT
50597514 ATGTTGTTTT
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
26 2 0.07
27 28 0.93
ACGTcount: A:0.30, C:0.00, G:0.15, T:0.55
Consensus pattern (27 bp):
TTTTTTTTAATATAAAGGGATTAGTAA
Found at i:50597652 original size:108 final size:109
Alignment explanation
Indices: 50597538--50598149 Score: 846
Period size: 108 Copynumber: 5.6 Consensus size: 109
50597528 TTAGTAATTA
* * *
50597538 TTATAAATTATTTCTGTTTAGTTTAGT-TTT-TTGTGATTTTTTATGAATGTAATTTTTTTATTT
1 TTATAAATTGTTTGTGTTTAGTTTAGTGTTTATTGTGATTTTTTATGAATGTAATTTTTTTGTTT
50597601 TTTAAAATTATTTTAAAGTTATTTTGTTAGTAATTTATGATTAGG
66 TTT-AAATTATTTTAAAGTTATTTTGTTAGTAATTTATGATTAGG
* *
50597646 TTATAAATTGTTTTTGTTTAGTTTGGTGTTTATTGTGATTTTTTATGAATGTAATTTTTCTTGTT
1 TTATAAATTGTTTGTGTTTAGTTTAGTGTTTATTGTGATTTTTTATGAATGTAATTTTT-TTGTT
* *
50597711 TATT--ATTGTTTTAAAGTTATTTTGTTAGTAATTTATGATTAGG
65 TTTTAAATTATTTTAAAGTTATTTTGTTAGTAATTTATGATTAGG
* * *
50597754 TTATAAATTGTTTTTGTTTAGTTTGGTGTTTATTGTGATTTTTTATGAACGTAATTTTTCTTGTT
1 TTATAAATTGTTTGTGTTTAGTTTAGTGTTTATTGTGATTTTTTATGAATGTAATTTTT-TTGTT
* *
50597819 TATT--ATTATTTTAAAGTTATTTCGTTAGTAATTTATGATTAGG
65 TTTTAAATTATTTTAAAGTTATTTTGTTAGTAATTTATGATTAGG
*
50597862 TTATAAATTGTTTGGGTTTAGTTTAGTGTTTATTGTGATTTTTTATGAATGTAAATTTTTTGTGT
1 TTATAAATTGTTTGTGTTTAGTTTAGTGTTTATTGTGATTTTTTATGAATGT-AATTTTTT-TGT
* * **
50597927 TTTTAAAATTATTTTTAAAGTTAGTTTGTTAGTAATTTATGATTACT
64 TTTTTAAATTA-TTTTAAAGTTATTTTGTTAGTAATTTATGATTAGG
* *
50597974 TTATAAATTGTTTGTGTTTAGTTTAGTATTTATTGTGATTTTTTATCAATGTAAATTCTTTTGTG
1 TTATAAATTGTTTGTGTTTAGTTTAGTGTTTATTGTGATTTTTTATGAATGT-AATT-TTTT-TG
*
50598039 TTTTTTAAATTATTTTAAAGTTATTTTTTTAGTAATTTATGATTAGG
63 TTTTTTAAATTATTTTAAAGTTATTTTGTTAGTAATTTATGATTAGG
* * * * * *
50598086 TTATAAATT-ATT-TGTTTAGTTTAATGTGTATTTTGATTTATTAT-AATGTAGTTTTTTTGTTT
1 TTATAAATTGTTTGTGTTTAGTTTAGTGTTTATTGTGATTTTTTATGAATGTAATTTTTTTGTTT
50598148 TT
66 TT
50598150 GATTTATTTG
Statistics
Matches: 461, Mismatches: 34, Indels: 20
0.90 0.07 0.04
Matches are distributed among these distances:
106 7 0.02
107 4 0.01
108 219 0.48
109 21 0.05
110 54 0.12
111 13 0.03
112 125 0.27
113 18 0.04
ACGTcount: A:0.25, C:0.01, G:0.15, T:0.59
Consensus pattern (109 bp):
TTATAAATTGTTTGTGTTTAGTTTAGTGTTTATTGTGATTTTTTATGAATGTAATTTTTTTGTTT
TTTAAATTATTTTAAAGTTATTTTGTTAGTAATTTATGATTAGG
Found at i:50598430 original size:21 final size:22
Alignment explanation
Indices: 50598384--50598436 Score: 63
Period size: 21 Copynumber: 2.5 Consensus size: 22
50598374 TTATTGTAGT
* *
50598384 TATATTATTATTGTACTATATT
1 TATAATATTATTGTACTATATG
* *
50598406 TATAGTATTATT-TACTGTATG
1 TATAATATTATTGTACTATATG
50598427 TATAATATTA
1 TATAATATTA
50598437 ATGTGTTTTG
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
21 16 0.59
22 11 0.41
ACGTcount: A:0.34, C:0.04, G:0.08, T:0.55
Consensus pattern (22 bp):
TATAATATTATTGTACTATATG
Found at i:50607299 original size:48 final size:48
Alignment explanation
Indices: 50607254--50607346 Score: 132
Period size: 48 Copynumber: 1.9 Consensus size: 48
50607244 TTAAGATTCG
**
50607254 TTACAACATTAAAACTTGGAACAAACTTCGTAATTTAAATTAGATTAA
1 TTACAACATTAAAACAAGGAACAAACTTCGTAATTTAAATTAGATTAA
* * * *
50607302 TTGCAATATTAAAACAAGGAACAAACTTTGTAATATAAATTAGAT
1 TTACAACATTAAAACAAGGAACAAACTTCGTAATTTAAATTAGAT
50607347 ACATTGGAGT
Statistics
Matches: 39, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
48 39 1.00
ACGTcount: A:0.47, C:0.11, G:0.10, T:0.32
Consensus pattern (48 bp):
TTACAACATTAAAACAAGGAACAAACTTCGTAATTTAAATTAGATTAA
Found at i:50611217 original size:25 final size:25
Alignment explanation
Indices: 50611164--50611217 Score: 58
Period size: 25 Copynumber: 2.2 Consensus size: 25
50611154 AAACTTATCT
* *
50611164 TTCTTTTTTCTTCTCCTTTCTTTAT
1 TTCTTTTTTCTTCTCCTCTCTTTAC
50611189 TTCTTTTTTC-TC-CCTCTCTTCTACC
1 TTCTTTTTTCTTCTCCTCTCTT-TA-C
50611214 TTCT
1 TTCT
50611218 CTTCTGCTAT
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
23 7 0.28
24 4 0.16
25 14 0.56
ACGTcount: A:0.04, C:0.31, G:0.00, T:0.65
Consensus pattern (25 bp):
TTCTTTTTTCTTCTCCTCTCTTTAC
Found at i:50611449 original size:22 final size:22
Alignment explanation
Indices: 50611406--50611449 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 22
50611396 ACTAATATAA
** **
50611406 AAATAAATTTTTTAAATTAAAG
1 AAATAAATTTTAGAAAAAAAAG
50611428 AAATAAATTTTAGAAAAAAAAG
1 AAATAAATTTTAGAAAAAAAAG
50611450 GGTGGTGTCA
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.61, C:0.00, G:0.07, T:0.32
Consensus pattern (22 bp):
AAATAAATTTTAGAAAAAAAAG
Found at i:50612450 original size:27 final size:27
Alignment explanation
Indices: 50612391--50612451 Score: 79
Period size: 27 Copynumber: 2.3 Consensus size: 27
50612381 CACCTAGGGA
*
50612391 AGAGGCGGCACTGGTGGCGGAGCTGAC
1 AGAGGCGGCACTGGTGGAGGAGCTGAC
* *
50612418 -GCAGGCGGTACTGGTGGAGGAGCTGGC
1 AG-AGGCGGCACTGGTGGAGGAGCTGAC
50612445 AGAGGCG
1 AGAGGCG
50612452 ACTCCACTTT
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
26 1 0.03
27 27 0.93
28 1 0.03
ACGTcount: A:0.18, C:0.20, G:0.51, T:0.11
Consensus pattern (27 bp):
AGAGGCGGCACTGGTGGAGGAGCTGAC
Found at i:50612586 original size:3 final size:3
Alignment explanation
Indices: 50612560--50612625 Score: 64
Period size: 3 Copynumber: 22.3 Consensus size: 3
50612550 GAAGGTAAGT
* * *
50612560 GAA GGA GAA GAA -AGA GAA GGA GAA GAA -AA GAA GAA GTA GAA GAA
1 GAA GAA GAA GAA GA-A GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA
* *
50612604 GAA GAA GAA GGA GAA GGA GAA G
1 GAA GAA GAA GAA GAA GAA GAA G
50612626 GCGAGAAAGG
Statistics
Matches: 50, Mismatches: 10, Indels: 6
0.76 0.15 0.09
Matches are distributed among these distances:
2 3 0.06
3 46 0.92
4 1 0.02
ACGTcount: A:0.59, C:0.00, G:0.39, T:0.02
Consensus pattern (3 bp):
GAA
Found at i:50612684 original size:12 final size:12
Alignment explanation
Indices: 50612667--50612691 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
50612657 AAAAATAGGG
50612667 AGAGAAGGAGAA
1 AGAGAAGGAGAA
50612679 AGAGAAGGAGAA
1 AGAGAAGGAGAA
50612691 A
1 A
50612692 AATAATATAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.60, C:0.00, G:0.40, T:0.00
Consensus pattern (12 bp):
AGAGAAGGAGAA
Found at i:50612800 original size:13 final size:13
Alignment explanation
Indices: 50612782--50612809 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
50612772 TGTTGATTAA
50612782 TTTAAATTTAATT
1 TTTAAATTTAATT
50612795 TTTAAATTTAATT
1 TTTAAATTTAATT
50612808 TT
1 TT
50612810 GTAGGGTATT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (13 bp):
TTTAAATTTAATT
Found at i:50613523 original size:109 final size:114
Alignment explanation
Indices: 50613310--50613536 Score: 311
Period size: 109 Copynumber: 2.0 Consensus size: 114
50613300 ACAAAAAATG
*
50613310 TTTACTTATTATCATTTTAAAATAATAATAATAATATTCGCATTTATTATGTATCGTTTATGTTA
1 TTTACTTATTATAATTTT-AAATAATAATAATAATA-T-GCATTTATTATGTATCGTTTATGTTA
*
50613375 TGTTTATGTTATATTTTTTTATCGGCATGTTATTTTTAGTATTTTAATATAAAAA
63 ---TTATGTTATATTTTTTTATCGGCATATTATTTTTAGTATTTTAATATAAAAA
* *
50613430 TTTACTTATTATAATTTT-AA-AATAATAATAATA-GTATTTATTATGTATGGTTTATGTTA-TA
1 TTTACTTATTATAATTTTAAATAATAATAATAATATGCATTTATTATGTATCGTTTATGTTATTA
* *
50613491 T-TTTTATTTTTTTATTGGCATATTATTTTTAGTATTTTAATATAAA
66 TGTTATATTTTTTTATCGGCATATTATTTTTAGTATTTTAATATAAA
50613537 TTTTTGTTTT
Statistics
Matches: 101, Mismatches: 6, Indels: 11
0.86 0.05 0.09
Matches are distributed among these distances:
109 42 0.42
110 3 0.03
114 24 0.24
117 13 0.13
118 2 0.02
120 17 0.17
ACGTcount: A:0.33, C:0.04, G:0.08, T:0.55
Consensus pattern (114 bp):
TTTACTTATTATAATTTTAAATAATAATAATAATATGCATTTATTATGTATCGTTTATGTTATTA
TGTTATATTTTTTTATCGGCATATTATTTTTAGTATTTTAATATAAAAA
Found at i:50614687 original size:14 final size:16
Alignment explanation
Indices: 50614663--50614696 Score: 54
Period size: 15 Copynumber: 2.2 Consensus size: 16
50614653 ATTTTCAGTG
50614663 TTTATTATGTGTG-AA
1 TTTATTATGTGTGAAA
50614678 TTTA-TATGTGTGAAA
1 TTTATTATGTGTGAAA
50614693 TTTA
1 TTTA
50614697 CGTGACTTAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 8 0.44
15 10 0.56
ACGTcount: A:0.29, C:0.00, G:0.18, T:0.53
Consensus pattern (16 bp):
TTTATTATGTGTGAAA
Found at i:50616752 original size:40 final size:40
Alignment explanation
Indices: 50616628--50616852 Score: 238
Period size: 40 Copynumber: 5.6 Consensus size: 40
50616618 TATTCGAATG
* * * *
50616628 ATATCCGGGCTAAGTCACGAAGGCTTTTGTGCTAAGTGACT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCT-AGCGACT
* * * * *
50616669 ATAACCGGACTAAGATCCGAAGGCATTCGTG-TGAGTTG-CT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCT-AG-CGACT
* *
50616709 ATATCAGGGCTAAGACCCGAAGGCATTTGTGCTAGCGATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGCGACT
*
50616749 ATATCCGGGCTAAAACCCGAAGGCATTTGTGCTAGCGACT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGCGACT
* * * *
50616789 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGACC
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGCGACT
* * *
50616829 ACATCCAGGCTAAAACCCGAAGGC
1 ATATCCGGGCTAAGACCCGAAGGC
50616853 CTTGCGCAAG
Statistics
Matches: 154, Mismatches: 27, Indels: 7
0.82 0.14 0.04
Matches are distributed among these distances:
39 1 0.01
40 126 0.82
41 27 0.18
ACGTcount: A:0.28, C:0.23, G:0.26, T:0.24
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGCGACT
Found at i:50616800 original size:80 final size:80
Alignment explanation
Indices: 50616628--50616852 Score: 265
Period size: 80 Copynumber: 2.8 Consensus size: 80
50616618 TATTCGAATG
* * * * * *
50616628 ATATCCGGGCTAAGTCACGAAGGCTTTTGTGCTAAGTGACTATAACCGGACTAAGATCCGAAGGC
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCT-AGTGACTATATCCGGGCTAAAACCCGAAGGC
*
50616693 ATTCGTGTGAGTTGCT
65 ATTCGTGTGAGTCGCT
* * * *
50616709 ATATCAGGGCTAAGACCCGAAGGCATTTGTGCTAGCGATTATATCCGGGCTAAAACCCGAAGGCA
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAAACCCGAAGGCA
*
50616774 TTTGTGCT-AG-CGACT
66 TTCGTG-TGAGTCG-CT
* * * *
50616789 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGACCACATCCAGGCTAAAACCCGAAGGC
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAAACCCGAAGGC
50616853 CTTGCGCAAG
Statistics
Matches: 122, Mismatches: 20, Indels: 5
0.83 0.14 0.03
Matches are distributed among these distances:
79 1 0.01
80 91 0.75
81 30 0.25
ACGTcount: A:0.28, C:0.23, G:0.26, T:0.24
Consensus pattern (80 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAAACCCGAAGGCA
TTCGTGTGAGTCGCT
Found at i:50616847 original size:120 final size:121
Alignment explanation
Indices: 50616628--50616852 Score: 271
Period size: 120 Copynumber: 1.9 Consensus size: 121
50616618 TATTCGAATG
** * *
50616628 ATATCCGGGCTAAGTCACGAAGGCTTTTGTGCTAAGTGACTATAACCGGACTAAGATCCGAAGGC
1 ATATCCGGGCTAAAACACGAAGGCATTTGTGCTAAGCGACTATAACCGGACTAAGATCCGAAGGC
* * * *
50616693 ATTCGTGTGAGTTGCTATATCAGGGCTAAGACCCGAAGGCATTTGTGCTAGCGATT
66 ATTCATGTGAGTTGCCACATCAGGGCTAAAACCCGAAGGCATTTGTGCTAGCGATT
* * *
50616749 ATATCCGGGCTAAAACCCGAAGGCATTTGTGCT-AGCGACTATATCCGGGCTAAG-TCCCGAAGG
1 ATATCCGGGCTAAAACACGAAGGCATTTGTGCTAAGCGACTATAACCGGACTAAGAT-CCGAAGG
*
50616812 CATTTATGCT-AG-TGACCACATCCA-GGCTAAAACCCGAAGGC
65 CATTCATG-TGAGTTG-CCACAT-CAGGGCTAAAACCCGAAGGC
50616853 CTTGCGCAAG
Statistics
Matches: 88, Mismatches: 12, Indels: 9
0.81 0.11 0.08
Matches are distributed among these distances:
119 3 0.03
120 53 0.60
121 32 0.36
ACGTcount: A:0.28, C:0.23, G:0.26, T:0.24
Consensus pattern (121 bp):
ATATCCGGGCTAAAACACGAAGGCATTTGTGCTAAGCGACTATAACCGGACTAAGATCCGAAGGC
ATTCATGTGAGTTGCCACATCAGGGCTAAAACCCGAAGGCATTTGTGCTAGCGATT
Found at i:50624874 original size:40 final size:40
Alignment explanation
Indices: 50624780--50625003 Score: 233
Period size: 40 Copynumber: 5.6 Consensus size: 40
50624770 TATTCGAATG
*
50624780 ATATCCGGGCTAAG-TCCCGAAGG-ATTTTGTGCTAAGTGACT
1 ATATCCGGGCTAAGAT-CCGAAGGCA-TTTGTGCT-AGCGACT
* * * * *
50624821 ATAACCGGACTAAGATCCGAAGGCATTCGTGCGAGTTG-CT
1 ATATCCGGGCTAAGATCCGAAGGCATTTGTGCTAG-CGACT
* *
50624861 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGCGATT
1 ATATCCGGGCTAAGATCCGAAGGCATTTGTGCTAGCGACT
*
50624901 ATATCCGGGCTAA-AACCGAAGGCATTTGTGCTAGCGACT
1 ATATCCGGGCTAAGATCCGAAGGCATTTGTGCTAGCGACT
* * *
50624940 ATATCCGGGCTAAG-TCCCGAAGGCATTTATGCTAGTGACC
1 ATATCCGGGCTAAGAT-CCGAAGGCATTTGTGCTAGCGACT
* * *
50624980 ACATCCGGGCTAACACCCGAAGGC
1 ATATCCGGGCTAAGATCCGAAGGC
50625004 CTTGCGCAAG
Statistics
Matches: 156, Mismatches: 20, Indels: 15
0.82 0.10 0.08
Matches are distributed among these distances:
39 38 0.24
40 89 0.57
41 27 0.17
42 2 0.01
ACGTcount: A:0.26, C:0.24, G:0.26, T:0.23
Consensus pattern (40 bp):
ATATCCGGGCTAAGATCCGAAGGCATTTGTGCTAGCGACT
Found at i:50624959 original size:79 final size:80
Alignment explanation
Indices: 50624780--50625003 Score: 274
Period size: 79 Copynumber: 2.8 Consensus size: 80
50624770 TATTCGAATG
* * * *
50624780 ATATCCGGGCTAAGTCCCGAAGG-ATTTTGTGCTAAGTGACTATAACCGGACTAAGATCCGAAGG
1 ATATCCGGGCTAAGTCCCGAAGGCA-TTTGTGCT-AGTGACTATATCCGGGCTAACAACCGAAGG
*
50624844 CATTCGTGCGAGTTGCT
64 CATTCGTGCGAGTCGCT
* * *
50624861 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGCGATTATATCCGGGCTAA-AACCGAAGGCA
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAACAACCGAAGGCA
* *
50624925 TTTGTGCTAG-CGACT
66 TTCGTGCGAGTCG-CT
* * * *
50624940 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGACCACATCCGGGCTAACACCCGAAGGC
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAACAACCGAAGGC
50625004 CTTGCGCAAG
Statistics
Matches: 124, Mismatches: 16, Indels: 7
0.84 0.11 0.05
Matches are distributed among these distances:
78 1 0.01
79 67 0.54
80 25 0.20
81 30 0.24
82 1 0.01
ACGTcount: A:0.26, C:0.24, G:0.26, T:0.23
Consensus pattern (80 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAACAACCGAAGGCA
TTCGTGCGAGTCGCT
Found at i:50624998 original size:119 final size:121
Alignment explanation
Indices: 50624780--50625003 Score: 287
Period size: 119 Copynumber: 1.9 Consensus size: 121
50624770 TATTCGAATG
** *
50624780 ATATCCGGGCTAAGTCCCGAAGGATTTTGTGCTAAGTGACTATAACCGGACTAAGATCCGAAGGC
1 ATATCCGGGCTAAGAACCGAAGGATTTTGTGCTAAGCGACTATAACCGGACTAAGATCCGAAGGC
* * * *
50624845 ATTCGTGCGAGTTGCTATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGCGATT
66 ATTCATGCGAGTTGCCACATCCGGGCTAACACCCGAAGGCATTTGTGCTAGCGATT
* *
50624901 ATATCCGGGCTAA-AACCGAAGGCA-TTTGTGCT-AGCGACTATATCCGGGCTAAG-TCCCGAAG
1 ATATCCGGGCTAAGAACCGAAGG-ATTTTGTGCTAAGCGACTATAACCGGACTAAGAT-CCGAAG
* *
50624962 GCATTTATGCTAG-TGACCACATCCGGGCTAACACCCGAAGGC
64 GCATTCATGCGAGTTG-CCACATCCGGGCTAACACCCGAAGGC
50625004 CTTGCGCAAG
Statistics
Matches: 89, Mismatches: 11, Indels: 8
0.82 0.10 0.07
Matches are distributed among these distances:
118 3 0.03
119 57 0.64
120 15 0.17
121 14 0.16
ACGTcount: A:0.26, C:0.24, G:0.26, T:0.23
Consensus pattern (121 bp):
ATATCCGGGCTAAGAACCGAAGGATTTTGTGCTAAGCGACTATAACCGGACTAAGATCCGAAGGC
ATTCATGCGAGTTGCCACATCCGGGCTAACACCCGAAGGCATTTGTGCTAGCGATT
Found at i:50626658 original size:13 final size:13
Alignment explanation
Indices: 50626640--50626664 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
50626630 TTTGAGATCG
50626640 TTGCTAAGTTATC
1 TTGCTAAGTTATC
50626653 TTGCTAAGTTAT
1 TTGCTAAGTTAT
50626665 TGAACAAGAC
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.24, C:0.12, G:0.16, T:0.48
Consensus pattern (13 bp):
TTGCTAAGTTATC
Found at i:50630482 original size:47 final size:47
Alignment explanation
Indices: 50630334--50630462 Score: 197
Period size: 47 Copynumber: 2.7 Consensus size: 47
50630324 TTGCGAGTGA
* *
50630334 TACCTTGATTTGGCTACGGGCCATGGTATAGGTATTCAGAGAGGAGT
1 TACCTTGATTTGGCTACGGGCCATGGTATAGGTACTCAGAGATGAGT
* * *
50630381 TACCTTGATTTGGCTACGGGCCATGGTATAGGTACTCCGGGATAAGT
1 TACCTTGATTTGGCTACGGGCCATGGTATAGGTACTCAGAGATGAGT
50630428 TACCTTGATTTGGCTTA-GGGCCATGGTATAGGTAC
1 TACCTTGATTTGGC-TACGGGCCATGGTATAGGTAC
50630463 GTATTGATTG
Statistics
Matches: 76, Mismatches: 5, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
47 74 0.97
48 2 0.03
ACGTcount: A:0.22, C:0.17, G:0.30, T:0.31
Consensus pattern (47 bp):
TACCTTGATTTGGCTACGGGCCATGGTATAGGTACTCAGAGATGAGT
Found at i:50631859 original size:18 final size:17
Alignment explanation
Indices: 50631830--50631871 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 17
50631820 GACAATGTGA
50631830 TTATGT-TTAATGGATGT
1 TTATGTGTTAATGGAT-T
50631847 TTATGTGTTAATGGATT
1 TTATGTGTTAATGGATT
50631864 TTCATGTG
1 TT-ATGTG
50631872 AGAAATGTAA
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
17 9 0.39
18 14 0.61
ACGTcount: A:0.21, C:0.02, G:0.24, T:0.52
Consensus pattern (17 bp):
TTATGTGTTAATGGATT
Found at i:50633271 original size:28 final size:25
Alignment explanation
Indices: 50633205--50633279 Score: 89
Period size: 24 Copynumber: 2.9 Consensus size: 25
50633195 TATGACATTG
*
50633205 TGCTAAGTGAAATAAGACCATGGCA
1 TGCTAAGTGAAATAAGTCCATGGCA
* *
50633230 T-CTAAGCGAAATAAGTCCATGTCAATA
1 TGCTAAGTGAAATAAGTCCATGGC---A
50633257 TGCTAAGTGAAATAAGTCCATGG
1 TGCTAAGTGAAATAAGTCCATGG
50633280 TATTGTGCTA
Statistics
Matches: 41, Mismatches: 5, Indels: 5
0.80 0.10 0.10
Matches are distributed among these distances:
24 19 0.46
25 1 0.02
27 2 0.05
28 19 0.46
ACGTcount: A:0.39, C:0.16, G:0.21, T:0.24
Consensus pattern (25 bp):
TGCTAAGTGAAATAAGTCCATGGCA
Found at i:50633288 original size:28 final size:28
Alignment explanation
Indices: 50633201--50633294 Score: 99
Period size: 28 Copynumber: 3.5 Consensus size: 28
50633191 AGGATATGAC
* *
50633201 ATTGTGCTAAGTGAAATAAGACCATGGC
1 ATTGTGCTAAGTGAAATAAGTCCATGGT
*
50633229 A---T-CTAAGCGAAATAAGTCCAT-GT
1 ATTGTGCTAAGTGAAATAAGTCCATGGT
* *
50633252 CAATATGCTAAGTGAAATAAGTCCATGGT
1 -ATTGTGCTAAGTGAAATAAGTCCATGGT
50633281 ATTGTGCTAAGTGA
1 ATTGTGCTAAGTGA
50633295 GAAATTTTCC
Statistics
Matches: 54, Mismatches: 6, Indels: 12
0.75 0.08 0.17
Matches are distributed among these distances:
23 1 0.02
24 18 0.33
25 1 0.02
27 1 0.02
28 31 0.57
29 2 0.04
ACGTcount: A:0.36, C:0.14, G:0.22, T:0.28
Consensus pattern (28 bp):
ATTGTGCTAAGTGAAATAAGTCCATGGT
Found at i:50633373 original size:51 final size:51
Alignment explanation
Indices: 50633318--50633565 Score: 369
Period size: 51 Copynumber: 4.9 Consensus size: 51
50633308 TGAAGCTTAG
* *
50633318 GAATAAAATAGCTTTGGACACAAGTGTGTTACTATGTGAAGGCCAGTTTGT
1 GAATAAAATAGCTTTGGACACAAGTGTGGTACTATGTGAAGGCCACTTTGT
* * * *
50633369 GAATATAATAGGTTTGGACACAATTGTGGTACTA--T-ATGGCCACTTTGT
1 GAATAAAATAGCTTTGGACACAAGTGTGGTACTATGTGAAGGCCACTTTGT
*
50633417 GAATATAATAGCTTTGGACACAAGTGTGGTACTATGTGAAGGCCACTTTGT
1 GAATAAAATAGCTTTGGACACAAGTGTGGTACTATGTGAAGGCCACTTTGT
* *
50633468 GAATAAAATAGCTTTGCACACAAGTTTGGTACTATGTGAAGGCCACTTTGT
1 GAATAAAATAGCTTTGGACACAAGTGTGGTACTATGTGAAGGCCACTTTGT
*
50633519 GAATAAAATAGCTTTGG-CTACAAGGGTGGTACTATGTGAAGGCCACT
1 GAATAAAATAGCTTTGGAC-ACAAGTGTGGTACTATGTGAAGGCCACT
50633566 GTGTATCCGT
Statistics
Matches: 178, Mismatches: 15, Indels: 8
0.89 0.07 0.04
Matches are distributed among these distances:
48 43 0.24
49 1 0.01
50 2 0.01
51 132 0.74
ACGTcount: A:0.31, C:0.14, G:0.25, T:0.31
Consensus pattern (51 bp):
GAATAAAATAGCTTTGGACACAAGTGTGGTACTATGTGAAGGCCACTTTGT
Found at i:50633489 original size:99 final size:101
Alignment explanation
Indices: 50633318--50633565 Score: 369
Period size: 99 Copynumber: 2.5 Consensus size: 101
50633308 TGAAGCTTAG
* * * *
50633318 GAATAAAATAGCTTTGGACACAAGTGTGTTACTATGTGAAGGCCAGTTTGTGAATATAATAGGTT
1 GAATAAAATAGCTTTGGACACAAGTGTGGTACTATGTGAAGGCCACTTTGTGAATAAAATAGCTT
* *
50633383 TGGACACAA-TTGTGGTACTA-T-ATGGCCACTTTGT
66 TGCACACAAGTT-TGGTACTAGTGAAGGCCACTTTGT
*
50633417 GAATATAATAGCTTTGGACACAAGTGTGGTACTATGTGAAGGCCACTTTGTGAATAAAATAGCTT
1 GAATAAAATAGCTTTGGACACAAGTGTGGTACTATGTGAAGGCCACTTTGTGAATAAAATAGCTT
50633482 TGCACACAAGTTTGGTACTATGTGAAGGCCACTTTGT
66 TGCACACAAGTTTGGTACTA-GTGAAGGCCACTTTGT
*
50633519 GAATAAAATAGCTTTGG-CTACAAGGGTGGTACTATGTGAAGGCCACT
1 GAATAAAATAGCTTTGGAC-ACAAGTGTGGTACTATGTGAAGGCCACT
50633566 GTGTATCCGT
Statistics
Matches: 135, Mismatches: 9, Indels: 7
0.89 0.06 0.05
Matches are distributed among these distances:
99 76 0.56
100 2 0.01
101 2 0.01
102 55 0.41
ACGTcount: A:0.31, C:0.14, G:0.25, T:0.31
Consensus pattern (101 bp):
GAATAAAATAGCTTTGGACACAAGTGTGGTACTATGTGAAGGCCACTTTGTGAATAAAATAGCTT
TGCACACAAGTTTGGTACTAGTGAAGGCCACTTTGT
Found at i:50640057 original size:24 final size:25
Alignment explanation
Indices: 50639996--50640072 Score: 111
Period size: 24 Copynumber: 3.0 Consensus size: 25
50639986 ATGACATTGC
*
50639996 GCTAAGTGAAATAAGTCCATGTCAATAT
1 GCTAAGTGAAATAAGTCCATGGC---AT
50640024 GCTAAGTGAAATAAGTCCATGGCAT
1 GCTAAGTGAAATAAGTCCATGGCAT
50640049 -CTAAGTGAAATAAGTCCATGGCAT
1 GCTAAGTGAAATAAGTCCATGGCAT
50640073 TGTGCAAAGT
Statistics
Matches: 48, Mismatches: 1, Indels: 4
0.91 0.02 0.08
Matches are distributed among these distances:
24 24 0.50
25 2 0.04
28 22 0.46
ACGTcount: A:0.38, C:0.16, G:0.21, T:0.26
Consensus pattern (25 bp):
GCTAAGTGAAATAAGTCCATGGCAT
Found at i:50640163 original size:51 final size:51
Alignment explanation
Indices: 50640108--50640358 Score: 369
Period size: 51 Copynumber: 4.9 Consensus size: 51
50640098 TGAACCTTAG
* *
50640108 GAATAAAATAACTTTGGACACAAGTGTGGTACTATGTGAAGGCCAGTTTGT
1 GAATAAAATAGCTTTGGACACAAGTGTGGTACTATGTGAAGGCCACTTTGT
* * * *
50640159 GAATATAATAGCTTTGGACACAAGTGTGGTACTATATGAAGGCTACTTTGG
1 GAATAAAATAGCTTTGGACACAAGTGTGGTACTATGTGAAGGCCACTTTGT
*
50640210 GAATATAATAGCTTTGGACACAAGTGTGGTACTATGTGAAGGCCACTTTGT
1 GAATAAAATAGCTTTGGACACAAGTGTGGTACTATGTGAAGGCCACTTTGT
* * * *
50640261 GAAAAAAATAGCTTTAGACACAAGTGTGGTACTATGTAAAGGCCACCTTGT
1 GAATAAAATAGCTTTGGACACAAGTGTGGTACTATGTGAAGGCCACTTTGT
* *
50640312 GAATAAAGTAGCTTTGG-CTACAAGGGTGGTACTATGTGAAGGCCACT
1 GAATAAAATAGCTTTGGAC-ACAAGTGTGGTACTATGTGAAGGCCACT
50640359 ATGTATCTAT
Statistics
Matches: 179, Mismatches: 20, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
50 1 0.01
51 178 0.99
ACGTcount: A:0.32, C:0.14, G:0.25, T:0.29
Consensus pattern (51 bp):
GAATAAAATAGCTTTGGACACAAGTGTGGTACTATGTGAAGGCCACTTTGT
Found at i:50644430 original size:28 final size:29
Alignment explanation
Indices: 50644397--50644497 Score: 150
Period size: 29 Copynumber: 3.5 Consensus size: 29
50644387 TATAGTAAGT
* * *
50644397 CCGCACACTTAGTGTTATATAA-TCGAAC
1 CCGCACACTTAGTGCTATACAACTTGAAC
*
50644425 TCGCACACTTAGTGCTATACAACTTGAAC
1 CCGCACACTTAGTGCTATACAACTTGAAC
*
50644454 CCGCACACTTAGTGCTATACAATTTGAAC
1 CCGCACACTTAGTGCTATACAACTTGAAC
50644483 CCGCACACTTAGTGC
1 CCGCACACTTAGTGC
50644498 CAATTTCATG
Statistics
Matches: 66, Mismatches: 6, Indels: 1
0.90 0.08 0.01
Matches are distributed among these distances:
28 19 0.29
29 47 0.71
ACGTcount: A:0.30, C:0.29, G:0.15, T:0.27
Consensus pattern (29 bp):
CCGCACACTTAGTGCTATACAACTTGAAC
Found at i:50649085 original size:50 final size:49
Alignment explanation
Indices: 50648925--50649242 Score: 207
Period size: 49 Copynumber: 6.6 Consensus size: 49
50648915 TGTGTGCCAA
* * *
50648925 TGTAAGA-CATGTCTGGGACAT-GCATTGGCCAC-AT-TATAAGAGCCAG
1 TGTAAGACCATGTCTGGGACATGGCATCGG-CACGATATGTAAGAGCTAG
* * *
50648971 TGTAAGACCATGTCTGGGACATGGCATCGGCATTGAGACG--AGAGCTAG
1 TGTAAGACCATGTCTGGGACATGGCATCGGCA-CGATATGTAAGAGCTAG
*
50649019 TGTAAGACCATCTCTGGGACATGGCATCGGCACGGATATGTAAGAGCTAG
1 TGTAAGACCATGTCTGGGACATGGCATCGGCAC-GATATGTAAGAGCTAG
* * * * *
50649069 TGTAAGACCATGTCTGGGACATGG-AGTCGACCTCGAT-TTTGATAG-TCAG
1 TGTAAGACCATGTCTGGGACATGGCA-TCG-GCACGATATGTAAGAGCT-AG
* * * * * *
50649118 TGTAAGACCATGTCTGGGACATAGCGTCGGCCTCGAT-T-TCGATAG-TCAA
1 TGTAAGACCATGTCTGGGACATGGCATCGG-CACGATATGT-AAGAGCT-AG
* * * * * * * *
50649167 TGTAAGACCATGTGTGGGATAGGGCATC--AAC-TTGATGGATGAGCCAG
1 TGTAAGACCATGTCTGGGACATGGCATCGGCACGAT-ATGTAAGAGCTAG
50649214 TGTAAGACCATGTCTGGGACATGGCATCG
1 TGTAAGACCATGTCTGGGACATGGCATCG
50649243 ACATTATACC
Statistics
Matches: 216, Mismatches: 37, Indels: 36
0.75 0.13 0.12
Matches are distributed among these distances:
45 1 0.00
46 8 0.04
47 45 0.21
48 50 0.23
49 73 0.34
50 37 0.17
51 2 0.01
ACGTcount: A:0.27, C:0.19, G:0.30, T:0.24
Consensus pattern (49 bp):
TGTAAGACCATGTCTGGGACATGGCATCGGCACGATATGTAAGAGCTAG
Found at i:50657457 original size:40 final size:40
Alignment explanation
Indices: 50657409--50657675 Score: 471
Period size: 40 Copynumber: 6.7 Consensus size: 40
50657399 GCAAACACAT
* *
50657409 TTGCCTTCGGGTCTTAACCCGGACATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
*
50657449 TTGCCTTCGGGTCTTAGCCCGGATATATCATCTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
*
50657489 TTGCCTTCGGGTCATAGCCCGGATATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
50657529 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
*
50657569 TTGCCTTCGGGTCTTAGCCCGGATATATCATCTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
* *
50657609 TTGCCTTCGGGTCATAGCCTGGATATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
50657649 TTGCCTTCGGGTCTTAGCCCGGATATA
1 TTGCCTTCGGGTCTTAGCCCGGATATA
50657676 ATCCAATGCT
Statistics
Matches: 215, Mismatches: 12, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
40 215 1.00
ACGTcount: A:0.22, C:0.27, G:0.20, T:0.30
Consensus pattern (40 bp):
TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
Found at i:50659943 original size:32 final size:32
Alignment explanation
Indices: 50659907--50659971 Score: 121
Period size: 32 Copynumber: 2.0 Consensus size: 32
50659897 TGTATGCATT
50659907 TTAGCATTTTAATAGTTAATGGATGATGCGCA
1 TTAGCATTTTAATAGTTAATGGATGATGCGCA
*
50659939 TTAGCATTTTAATAGTTAATGGATGATGGGCA
1 TTAGCATTTTAATAGTTAATGGATGATGCGCA
50659971 T
1 T
50659972 GATAAGCATT
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.31, C:0.08, G:0.23, T:0.38
Consensus pattern (32 bp):
TTAGCATTTTAATAGTTAATGGATGATGCGCA
Found at i:50661482 original size:26 final size:26
Alignment explanation
Indices: 50661453--50661505 Score: 63
Period size: 26 Copynumber: 2.0 Consensus size: 26
50661443 TTTACAGTTT
*
50661453 TACCCTTAGGAGATAAATT-ACCGAAA
1 TACCCCTAGG-GATAAATTGACCGAAA
* *
50661479 TACCCCTAGGGTTAAATTGACCTAAA
1 TACCCCTAGGGATAAATTGACCGAAA
50661505 T
1 T
50661506 GCATATTTGA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
25 7 0.30
26 16 0.70
ACGTcount: A:0.38, C:0.21, G:0.15, T:0.26
Consensus pattern (26 bp):
TACCCCTAGGGATAAATTGACCGAAA
Found at i:50664616 original size:37 final size:37
Alignment explanation
Indices: 50664557--50664665 Score: 191
Period size: 37 Copynumber: 2.9 Consensus size: 37
50664547 AGCTCAGATG
* *
50664557 AAATCTCCACACGAAGTTATCGGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
50664594 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
*
50664631 TAATCTCCACACGTAGTCATCGGGTCTTACCCGGA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGA
50664666 ATATATTTCC
Statistics
Matches: 69, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
37 69 1.00
ACGTcount: A:0.27, C:0.31, G:0.19, T:0.23
Consensus pattern (37 bp):
AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
Found at i:50664851 original size:48 final size:48
Alignment explanation
Indices: 50664791--50665669 Score: 1506
Period size: 48 Copynumber: 18.0 Consensus size: 48
50664781 GGTCATTCGG
50664791 CCACAATATACATATCTCATACATATTTCACACTAGCCATTCGGCTTTA
1 CCAC-ATATACATATCTCATACATATTTCACACTAGCCATTCGGCTTTA
*
50664840 CCACATATACATATCTCATACATATTTCACATTAGCCATTCGGCTTTA
1 CCACATATACATATCTCATACATATTTCACACTAGCCATTCGGCTTTA
50664888 CCACATATACATATCTCATACATATTTCACACTAGCCATTCGGCTTTA
1 CCACATATACATATCTCATACATATTTCACACTAGCCATTCGGCTTTA
50664936 CCACATATACATATCTCATACATATTTCACACTAGCCATTCGGCTTTA
1 CCACATATACATATCTCATACATATTTCACACTAGCCATTCGGCTTTA
*
50664984 CCACATATACATATCTCATACATTTTTCACACTAGCCATTCGGCTTTA
1 CCACATATACATATCTCATACATATTTCACACTAGCCATTCGGCTTTA
* *
50665032 CCACATATACATATCTCATATATATATTTCACATTAGCCATTCGGCTTTA
1 CCACATATACATATCTC--ATACATATTTCACACTAGCCATTCGGCTTTA
*
50665082 CCACATATACATATCTCATACATATTTCACATTAGCCATTCGGCTTTA
1 CCACATATACATATCTCATACATATTTCACACTAGCCATTCGGCTTTA
50665130 CCACATATACATATCTCATACATATTTCACACTAGCCATTCGGCTTTA
1 CCACATATACATATCTCATACATATTTCACACTAGCCATTCGGCTTTA
* *
50665178 CCACATATACATATCTCATATATATATTTCACATTAGCCATTCGGCTTTA
1 CCACATATACATATCTC--ATACATATTTCACACTAGCCATTCGGCTTTA
*
50665228 CCACATATACATATCTCATACATTTTTCACACTAGCCATTCGGCTTTA
1 CCACATATACATATCTCATACATATTTCACACTAGCCATTCGGCTTTA
50665276 CCACATATACATATCTCATACATATTTCACACTAGCCATTCGGCTTTA
1 CCACATATACATATCTCATACATATTTCACACTAGCCATTCGGCTTTA
* *
50665324 CCACACATATATATCTCATACATATTTATTTCACACTAGCCATTCGGCTTTA
1 CCACATATACATATCTCATAC--A--TATTTCACACTAGCCATTCGGCTTTA
50665376 CCACATATACATATCTCATACATATTTCACACTAGCCATTCGGCTTTA
1 CCACATATACATATCTCATACATATTTCACACTAGCCATTCGGCTTTA
* *
50665424 CCACATATACATATCTGATATACATATTTCACATTAGCCATTCGGCTTTA
1 CCACATATACATATCT--CATACATATTTCACACTAGCCATTCGGCTTTA
*
50665474 CCACATATACATATCTCATACATATTTCACATTAGCCATTCGGCTTTA
1 CCACATATACATATCTCATACATATTTCACACTAGCCATTCGGCTTTA
*
50665522 CCACATATACATATCTCATATACATATTTCACATTAGCCATTCGGCTTTA
1 CCACATATACATATCTC--ATACATATTTCACACTAGCCATTCGGCTTTA
*
50665572 CCACATATACATATCTCATACATATTTCACATTAGCCATTCGGCTTTA
1 CCACATATACATATCTCATACATATTTCACACTAGCCATTCGGCTTTA
50665620 CCACATATACATATCTCATACATATTTCACACTAGCCATTCGGCTTTA
1 CCACATATACATATCTCATACATATTTCACACTAGCCATTCGGCTTTA
50665668 CC
1 CC
50665670 GCACATTTAT
Statistics
Matches: 796, Mismatches: 22, Indels: 25
0.94 0.03 0.03
Matches are distributed among these distances:
48 560 0.70
49 4 0.01
50 187 0.23
52 45 0.06
ACGTcount: A:0.31, C:0.28, G:0.06, T:0.35
Consensus pattern (48 bp):
CCACATATACATATCTCATACATATTTCACACTAGCCATTCGGCTTTA
Found at i:50665150 original size:146 final size:144
Alignment explanation
Indices: 50664791--50665669 Score: 1506
Period size: 146 Copynumber: 6.0 Consensus size: 144
50664781 GGTCATTCGG
50664791 CCACAATATACATATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCT
1 CCAC-ATATACATATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCT
*
50664856 CATACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACACT
65 CATACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACACT
50664921 AGCCATTCGGCTTTA
130 AGCCATTCGGCTTTA
50664936 CCACATATACATATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTC
1 CCACATATACATATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTC
* * *
50665001 ATACATTTTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATATATATATTTCACAT
66 ATACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTC--ATACATATTTCACAC
50665066 TAGCCATTCGGCTTTA
129 TAGCCATTCGGCTTTA
*
50665082 CCACATATACATATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTC
1 CCACATATACATATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTC
* *
50665147 ATACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATATATATATTTCACAT
66 ATACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTC--ATACATATTTCACAC
50665212 TAGCCATTCGGCTTTA
129 TAGCCATTCGGCTTTA
*
50665228 CCACATATACATATCTCATACATTTTTCACACTAGCCATTCGGCTTTACCACATATACATATCTC
1 CCACATATACATATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTC
* *
50665293 ATACATATTTCACACTAGCCATTCGGCTTTACCACACATATATATCTCATACATATTTATTTCAC
66 ATACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATAC--A--TATTTCAC
50665358 ACTAGCCATTCGGCTTTA
127 ACTAGCCATTCGGCTTTA
50665376 CCACATATACATATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTG
1 CCACATATACATATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCT-
* * *
50665441 ATATACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACAT
65 -CATACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACAC
50665506 TAGCCATTCGGCTTTA
129 TAGCCATTCGGCTTTA
*
50665522 CCACATATACATATCTCATATACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATC
1 CCACATATACATATCTC--ATACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATC
*
50665587 TCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACAC
64 TCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACAC
50665652 TAGCCATTCGGCTTTA
129 TAGCCATTCGGCTTTA
50665668 CC
1 CC
50665670 GCACATTTAT
Statistics
Matches: 703, Mismatches: 21, Indels: 19
0.95 0.03 0.03
Matches are distributed among these distances:
144 110 0.16
145 4 0.01
146 405 0.58
148 135 0.19
150 49 0.07
ACGTcount: A:0.31, C:0.28, G:0.06, T:0.35
Consensus pattern (144 bp):
CCACATATACATATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTC
ATACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACACTA
GCCATTCGGCTTTA
Found at i:50665675 original size:98 final size:96
Alignment explanation
Indices: 50664791--50665669 Score: 1506
Period size: 98 Copynumber: 9.0 Consensus size: 96
50664781 GGTCATTCGG
50664791 CCACAATATACATATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCT
1 CCAC-ATATACATATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCT
*
50664856 CATACATATTTCACATTAGCCATTCGGCTTTA
65 CATACATATTTCACACTAGCCATTCGGCTTTA
50664888 CCACATATACATATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTC
1 CCACATATACATATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTC
50664953 ATACATATTTCACACTAGCCATTCGGCTTTA
66 ATACATATTTCACACTAGCCATTCGGCTTTA
*
50664984 CCACATATACATATCTCATACATTTTTCACACTAGCCATTCGGCTTTACCACATATACATATCTC
1 CCACATATACATATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTC
* *
50665049 ATATATATATTTCACATTAGCCATTCGGCTTTA
66 --ATACATATTTCACACTAGCCATTCGGCTTTA
*
50665082 CCACATATACATATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTC
1 CCACATATACATATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTC
50665147 ATACATATTTCACACTAGCCATTCGGCTTTA
66 ATACATATTTCACACTAGCCATTCGGCTTTA
* *
50665178 CCACATATACATATCTCATATATATATTTCACATTAGCCATTCGGCTTTACCACATATACATATC
1 CCACATATACATATCTC--ATACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATC
*
50665243 TCATACATTTTTCACACTAGCCATTCGGCTTTA
64 TCATACATATTTCACACTAGCCATTCGGCTTTA
* *
50665276 CCACATATACATATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACACATATATATCTC
1 CCACATATACATATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTC
50665341 ATACATATTTATTTCACACTAGCCATTCGGCTTTA
66 ATAC--A--TATTTCACACTAGCCATTCGGCTTTA
50665376 CCACATATACATATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTG
1 CCACATATACATATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCT-
* *
50665441 ATATACATATTTCACATTAGCCATTCGGCTTTA
65 -CATACATATTTCACACTAGCCATTCGGCTTTA
*
50665474 CCACATATACATATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTC
1 CCACATATACATATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTC
*
50665539 ATATACATATTTCACATTAGCCATTCGGCTTTA
66 --ATACATATTTCACACTAGCCATTCGGCTTTA
*
50665572 CCACATATACATATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTC
1 CCACATATACATATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTC
50665637 ATACATATTTCACACTAGCCATTCGGCTTTA
66 ATACATATTTCACACTAGCCATTCGGCTTTA
50665668 CC
1 CC
50665670 GCACATTTAT
Statistics
Matches: 748, Mismatches: 22, Indels: 25
0.94 0.03 0.03
Matches are distributed among these distances:
96 281 0.38
97 4 0.01
98 371 0.50
100 88 0.12
102 4 0.01
ACGTcount: A:0.31, C:0.28, G:0.06, T:0.35
Consensus pattern (96 bp):
CCACATATACATATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTC
ATACATATTTCACACTAGCCATTCGGCTTTA
Found at i:50668710 original size:55 final size:53
Alignment explanation
Indices: 50668631--50668879 Score: 206
Period size: 55 Copynumber: 4.7 Consensus size: 53
50668621 TTAAGGATAC
*
50668631 CATGTAAGACCATGCCAAGGCATGGCAATTGGTAAAGTTTCTAAGGCAAGAAAAT
1 CATGTAAGACCATGCCAAGACATGGC-ATTGGT-AAGTTTCTAAGGCAAGAAAAT
* * * **
50668686 CATGTAAGACCATGTCAAGACATGGCATTGATAAGTTACTATAAGGC-A-AAGGT
1 CATGTAAGACCATGCCAAGACATGGCATTGGTAAGTT--TCTAAGGCAAGAAAAT
* * * * *
50668739 CCCATGTAAGACCATGCCAAGGCATGGCATTGGTGAG-TTCATAAGGCAAGGATAC
1 --CATGTAAGACCATGCCAAGACATGGCATTGGTAAGTTTC-TAAGGCAAGAAAAT
* * * * *
50668794 CATGTAAGACCATGTCAAGACATGGCAATGGTAAGTTTC-AA---AAGGATAC
1 CATGTAAGACCATGCCAAGACATGGCATTGGTAAGTTTCTAAGGCAAGAAAAT
* * * *
50668843 CACGTAAGACCATGACAAGTCATGGCAATGGTAAGTT
1 CATGTAAGACCATGCCAAGACATGGCATTGGTAAGTT
50668880 ACCTGCGTAT
Statistics
Matches: 164, Mismatches: 22, Indels: 22
0.79 0.11 0.11
Matches are distributed among these distances:
49 42 0.26
52 3 0.02
53 45 0.27
54 11 0.07
55 63 0.38
ACGTcount: A:0.36, C:0.18, G:0.24, T:0.22
Consensus pattern (53 bp):
CATGTAAGACCATGCCAAGACATGGCATTGGTAAGTTTCTAAGGCAAGAAAAT
Found at i:50668829 original size:108 final size:110
Alignment explanation
Indices: 50668630--50668830 Score: 318
Period size: 108 Copynumber: 1.8 Consensus size: 110
50668620 TTTAAGGATA
*
50668630 CCATGTAAGACCATGCCAAGGCATGGCAATTGGTAAAGTTTCTAAGGCAAGAAAATCATGTAAGA
1 CCATGTAAGACCATGCCAAGGCATGGCAATTGGTAAAGTTTCTAAGGCAAGAAAACCATGTAAGA
*
50668695 CCATGTCAAGACATGGCATTGATAAGTTACTATAAGGCAAAGGTC
66 CCATGTCAAGACATGGCAATGATAAGTTACTATAAGGCAAAGGTC
* * *
50668740 CCATGTAAGACCATGCCAAGGCATGGC-ATTGGT-GAG-TTCATAAGGCAAGGATACCATGTAAG
1 CCATGTAAGACCATGCCAAGGCATGGCAATTGGTAAAGTTTC-TAAGGCAAGAAAACCATGTAAG
*
50668802 ACCATGTCAAGACATGGCAATGGTAAGTT
65 ACCATGTCAAGACATGGCAATGATAAGTT
50668831 TCAAAAGGAT
Statistics
Matches: 84, Mismatches: 6, Indels: 4
0.89 0.06 0.04
Matches are distributed among these distances:
107 3 0.04
108 48 0.57
109 6 0.07
110 27 0.32
ACGTcount: A:0.35, C:0.18, G:0.24, T:0.22
Consensus pattern (110 bp):
CCATGTAAGACCATGCCAAGGCATGGCAATTGGTAAAGTTTCTAAGGCAAGAAAACCATGTAAGA
CCATGTCAAGACATGGCAATGATAAGTTACTATAAGGCAAAGGTC
Found at i:50668867 original size:49 final size:49
Alignment explanation
Indices: 50668786--50668879 Score: 161
Period size: 49 Copynumber: 1.9 Consensus size: 49
50668776 TTCATAAGGC
* *
50668786 AAGGATACCATGTAAGACCATGTCAAGACATGGCAATGGTAAGTTTCAA
1 AAGGATACCACGTAAGACCATGACAAGACATGGCAATGGTAAGTTTCAA
*
50668835 AAGGATACCACGTAAGACCATGACAAGTCATGGCAATGGTAAGTT
1 AAGGATACCACGTAAGACCATGACAAGACATGGCAATGGTAAGTT
50668880 ACCTGCGTAT
Statistics
Matches: 42, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
49 42 1.00
ACGTcount: A:0.38, C:0.17, G:0.23, T:0.21
Consensus pattern (49 bp):
AAGGATACCACGTAAGACCATGACAAGACATGGCAATGGTAAGTTTCAA
Found at i:50669092 original size:16 final size:16
Alignment explanation
Indices: 50669071--50669101 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
50669061 ATAAATTTGA
50669071 TTAAGTAAGTAAGTAT
1 TTAAGTAAGTAAGTAT
*
50669087 TTAAGTAAGTGAGTA
1 TTAAGTAAGTAAGTA
50669102 AGTGAAGAAG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.42, C:0.00, G:0.23, T:0.35
Consensus pattern (16 bp):
TTAAGTAAGTAAGTAT
Found at i:50671736 original size:14 final size:14
Alignment explanation
Indices: 50671717--50671743 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
50671707 TTTTTTAATC
50671717 ATACTATTCTAACG
1 ATACTATTCTAACG
50671731 ATACTATTCTAAC
1 ATACTATTCTAAC
50671744 ATGTAATTTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.37, C:0.22, G:0.04, T:0.37
Consensus pattern (14 bp):
ATACTATTCTAACG
Found at i:50684150 original size:21 final size:20
Alignment explanation
Indices: 50684121--50684160 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 20
50684111 CTTAGAAACA
*
50684121 GGGCACACGCCCGTGTGGAT
1 GGGCACACGCCCGTCTGGAT
50684141 GGGCAACACGCCCGTCTGGA
1 GGGC-ACACGCCCGTCTGGA
50684161 ACTTGAACAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 4 0.22
21 14 0.78
ACGTcount: A:0.17, C:0.33, G:0.38, T:0.12
Consensus pattern (20 bp):
GGGCACACGCCCGTCTGGAT
Found at i:50692486 original size:21 final size:21
Alignment explanation
Indices: 50692462--50692505 Score: 88
Period size: 21 Copynumber: 2.1 Consensus size: 21
50692452 AGTGTTCGGT
50692462 ATGCTTTACCTCATCTCTAGA
1 ATGCTTTACCTCATCTCTAGA
50692483 ATGCTTTACCTCATCTCTAGA
1 ATGCTTTACCTCATCTCTAGA
50692504 AT
1 AT
50692506 AGATTAGGAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.25, C:0.27, G:0.09, T:0.39
Consensus pattern (21 bp):
ATGCTTTACCTCATCTCTAGA
Found at i:50698957 original size:47 final size:47
Alignment explanation
Indices: 50698799--50699186 Score: 596
Period size: 47 Copynumber: 8.1 Consensus size: 47
50698789 GAAATGATAG
50698799 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGA
50698848 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG----TATATATGTGA
*
50698899 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATACGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
*
50698946 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGAGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
50698993 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGA
* *
50699042 TAGGGCCTAATGGCCGAGGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
50699089 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
* * * * * * * *
50699136 CAGGGCCGAGTGGCCAACGTGATGGATGTGAAAGTGTATAAATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
50699183 TAAG
1 TAAG
50699187 TCCCGAAGGG
Statistics
Matches: 317, Mismatches: 18, Indels: 10
0.92 0.05 0.03
Matches are distributed among these distances:
47 188 0.59
49 80 0.25
51 49 0.15
ACGTcount: A:0.32, C:0.09, G:0.30, T:0.28
Consensus pattern (47 bp):
TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
Found at i:50699080 original size:143 final size:143
Alignment explanation
Indices: 50698799--50699186 Score: 627
Period size: 143 Copynumber: 2.7 Consensus size: 143
50698789 GAAATGATAG
50698799 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCG
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCG
*
50698864 ATGTGATGAATGTGAAAGTGTATATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTG
64 ATGTGATGAATGTGAAAGTG--TATATATATGTGATAAGGCCTAATGGCCGAGGTGATGAATGTG
50698929 AAAGTGTATATACGTGA
127 AAAGTGTATATACGTGA
*
50698946 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGAGATAAGGCCTAATGGCCGAT
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGAT
*
50699011 GTGATGAATGTGAAAGTGTATATATATGTGATAGGGCCTAATGGCCGAGGTGATGAATGTGAAAG
66 GTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGAGGTGATGAATGTGAAAG
*
50699076 TGTATATATGTGA
131 TGTATATACGTGA
* * * * * *
50699089 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGACAGGGCCGAGTGGCCAAC
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGAT
*
50699154 GTGATGGATGTGAAAGTGTATA-A-ATGTGATAAG
66 GTGATGAATGTGAAAGTGTATATATATGTGATAAG
50699187 TCCCGAAGGG
Statistics
Matches: 228, Mismatches: 13, Indels: 6
0.92 0.05 0.02
Matches are distributed among these distances:
141 9 0.04
142 1 0.00
143 136 0.60
145 46 0.20
147 36 0.16
ACGTcount: A:0.32, C:0.09, G:0.30, T:0.28
Consensus pattern (143 bp):
TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGAT
GTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGAGGTGATGAATGTGAAAG
TGTATATACGTGA
Found at i:50699361 original size:37 final size:37
Alignment explanation
Indices: 50699305--50699383 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
50699295 CCGAGCTCTA
* * *
50699305 AAGACCCGATGACTACGTGTGGGGATTTTGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
*
50699342 AAGACCCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
50699379 AAGAC
1 AAGAC
50699384 TTCGTAATAA
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.24, C:0.19, G:0.32, T:0.25
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
Found at i:50700792 original size:11 final size:10
Alignment explanation
Indices: 50700767--50700827 Score: 54
Period size: 10 Copynumber: 6.1 Consensus size: 10
50700757 ACCAATAAAA
50700767 TAAA-TGAGC
1 TAAATTGAGC
*
50700776 TGAATTGTAGC
1 TAAATTG-AGC
50700787 TAAATTGAGC
1 TAAATTGAGC
**
50700797 TCGATTGAGC
1 TAAATTGAGC
50700807 TGAAA-TGAGC
1 T-AAATTGAGC
*
50700817 TCAATTGAGC
1 TAAATTGAGC
50700827 T
1 T
50700828 GGTCGGAGTT
Statistics
Matches: 41, Mismatches: 7, Indels: 7
0.75 0.13 0.13
Matches are distributed among these distances:
9 5 0.12
10 26 0.63
11 10 0.24
ACGTcount: A:0.33, C:0.13, G:0.25, T:0.30
Consensus pattern (10 bp):
TAAATTGAGC
Found at i:50700828 original size:20 final size:20
Alignment explanation
Indices: 50700768--50700828 Score: 79
Period size: 20 Copynumber: 3.0 Consensus size: 20
50700758 CCAATAAAAT
*
50700768 AAATGAGCTGAATTGTAGCT-
1 AAATGAGCTCAATTG-AGCTG
*
50700788 AAATTGAGCTCGATTGAGCTG
1 AAA-TGAGCTCAATTGAGCTG
50700809 AAATGAGCTCAATTGAGCTG
1 AAATGAGCTCAATTGAGCTG
50700829 GTCGGAGTTG
Statistics
Matches: 36, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
20 23 0.64
21 13 0.36
ACGTcount: A:0.33, C:0.13, G:0.26, T:0.28
Consensus pattern (20 bp):
AAATGAGCTCAATTGAGCTG
Found at i:50711207 original size:37 final size:37
Alignment explanation
Indices: 50711154--50711264 Score: 213
Period size: 37 Copynumber: 3.0 Consensus size: 37
50711144 GAAGTGATTG
*
50711154 TCTAAACCATTATACTAAAACTGACAATATGATGCAA
1 TCTAAACCATTCTACTAAAACTGACAATATGATGCAA
50711191 TCTAAACCATTCTACTAAAACTGACAATATGATGCAA
1 TCTAAACCATTCTACTAAAACTGACAATATGATGCAA
50711228 TCTAAACCATTCTACTAAAACTGACAATATGATGCAA
1 TCTAAACCATTCTACTAAAACTGACAATATGATGCAA
50711265 CCTACTTTGC
Statistics
Matches: 73, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
37 73 1.00
ACGTcount: A:0.44, C:0.21, G:0.08, T:0.27
Consensus pattern (37 bp):
TCTAAACCATTCTACTAAAACTGACAATATGATGCAA
Found at i:50712005 original size:55 final size:55
Alignment explanation
Indices: 50711926--50712067 Score: 151
Period size: 55 Copynumber: 2.6 Consensus size: 55
50711916 TGACATGGCA
* ** * * **
50711926 GTGGGCGAACCTGCCAAAACAACACGAGCGTGTGACACACCCGTGCCTTGAAA-C
1 GTGGGCGAACCTGTCAAATTAACACGGGCGTGTGACACACCCATGCCAAGAAATC
* * * *
50711980 TGTGGCCGAACCTGTCAAATTAACACGGGAGTGTGACACGCCCATGCCAAGCAATC
1 -GTGGGCGAACCTGTCAAATTAACACGGGCGTGTGACACACCCATGCCAAGAAATC
* *
50712036 GTGGGCGAACCTGTTAGATTAACACGGGCGTG
1 GTGGGCGAACCTGTCAAATTAACACGGGCGTG
50712068 GCCCTTAATA
Statistics
Matches: 71, Mismatches: 15, Indels: 2
0.81 0.17 0.02
Matches are distributed among these distances:
55 70 0.99
56 1 0.01
ACGTcount: A:0.27, C:0.27, G:0.28, T:0.17
Consensus pattern (55 bp):
GTGGGCGAACCTGTCAAATTAACACGGGCGTGTGACACACCCATGCCAAGAAATC
Found at i:50721424 original size:48 final size:48
Alignment explanation
Indices: 50721366--50721558 Score: 264
Period size: 48 Copynumber: 4.0 Consensus size: 48
50721356 CACGATGTCT
* * * * * *
50721366 CATATTGATGCCAATACCATATCCAATATATGGTCTTACATGGGATCA
1 CATAATGATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCA
* * *
50721414 CAT-GTCGATGCCAATG-CATGTCCCAGACATTGTCTTACATGGGATCT
1 CATAAT-GATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCA
* *
50721461 CATAATGATGCCAATGCCATGTCCCAGACATTGTCTTACATGGGATCC
1 CATAATGATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCA
50721509 CATAATGATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCA
1 CATAATGATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCA
50721557 CA
1 CA
50721559 CATAACCCTA
Statistics
Matches: 130, Mismatches: 12, Indels: 6
0.88 0.08 0.04
Matches are distributed among these distances:
47 39 0.30
48 91 0.70
ACGTcount: A:0.28, C:0.25, G:0.19, T:0.28
Consensus pattern (48 bp):
CATAATGATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCA
Found at i:50721473 original size:95 final size:96
Alignment explanation
Indices: 50721363--50721555 Score: 273
Period size: 95 Copynumber: 2.0 Consensus size: 96
50721353 TTACACGATG
* * * *
50721363 TCTCATATTGATGCCAATACCATATCCAATATATGGTCTTACATGGGATCACAT-GTCGATGCCA
1 TCTCATAATGATGCCAATACCATATCCAAGACATGGTCTTACATGGGATCACATAAT-GATGCCA
*
50721427 ATG-CATGTCCCAGACATTGTCTTACATGGGA
65 ATGCCATGTCCCAGACATGGTCTTACATGGGA
* * * * *
50721458 TCTCATAATGATGCCAATGCCATGTCCCAGACATTGTCTTACATGGGATCCCATAATGATGCCAA
1 TCTCATAATGATGCCAATACCATATCCAAGACATGGTCTTACATGGGATCACATAATGATGCCAA
50721523 TGCCATGTCCCAGACATGGTCTTACATGGGA
66 TGCCATGTCCCAGACATGGTCTTACATGGGA
50721554 TC
1 TC
50721556 ACACATAACC
Statistics
Matches: 86, Mismatches: 10, Indels: 3
0.87 0.10 0.03
Matches are distributed among these distances:
95 56 0.65
96 30 0.35
ACGTcount: A:0.27, C:0.25, G:0.19, T:0.29
Consensus pattern (96 bp):
TCTCATAATGATGCCAATACCATATCCAAGACATGGTCTTACATGGGATCACATAATGATGCCAA
TGCCATGTCCCAGACATGGTCTTACATGGGA
Found at i:50724271 original size:27 final size:27
Alignment explanation
Indices: 50724240--50724417 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
50724230 TAAATTGTAC
50724240 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
50724267 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
50724293 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
50724321 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
50724349 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
50724376 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
50724403 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
50724418 GACTCAATAT
Statistics
Matches: 129, Mismatches: 19, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 23 0.18
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:50724354 original size:82 final size:81
Alignment explanation
Indices: 50724241--50724396 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
50724231 AAATTGTACA
* *
50724241 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
50724305 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
50724322 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
50724387 TGCGAGTTGA
65 TGCGAATTGA
50724397 TTATATAGCA
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 15 0.22
82 51 0.76
83 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:50724408 original size:82 final size:81
Alignment explanation
Indices: 50724237--50724417 Score: 229
Period size: 82 Copynumber: 2.2 Consensus size: 81
50724227 GATTAAATTG
* *
50724237 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
50724302 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
50724318 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
50724382 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
50724400 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
50724418 GACTCAATAT
Statistics
Matches: 84, Mismatches: 14, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
81 18 0.21
82 66 0.79
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:50732468 original size:27 final size:27
Alignment explanation
Indices: 50732437--50732614 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
50732427 TAAATTGTAC
50732437 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
50732464 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
50732490 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
50732518 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
50732546 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
50732573 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
50732600 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
50732615 GACTCAATAT
Statistics
Matches: 129, Mismatches: 19, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 23 0.18
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:50732551 original size:82 final size:81
Alignment explanation
Indices: 50732438--50732593 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
50732428 AAATTGTACA
* *
50732438 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
50732502 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
50732519 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
50732584 TGCGAGTTGA
65 TGCGAATTGA
50732594 TTATATAGCA
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 15 0.22
82 51 0.76
83 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:50732605 original size:82 final size:81
Alignment explanation
Indices: 50732434--50732614 Score: 229
Period size: 82 Copynumber: 2.2 Consensus size: 81
50732424 GATTAAATTG
* *
50732434 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
50732499 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
50732515 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
50732579 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
50732597 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
50732615 GACTCAATAT
Statistics
Matches: 84, Mismatches: 14, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
81 18 0.21
82 66 0.79
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:50743132 original size:16 final size:16
Alignment explanation
Indices: 50743113--50743143 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
50743103 CTTCTTCACT
50743113 TACTCACTTACTTAAA
1 TACTCACTTACTTAAA
*
50743129 TACTTACTTACTTAA
1 TACTCACTTACTTAA
50743144 TCAAATTTAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.35, C:0.23, G:0.00, T:0.42
Consensus pattern (16 bp):
TACTCACTTACTTAAA
Found at i:50743149 original size:20 final size:20
Alignment explanation
Indices: 50743110--50743149 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
50743100 AAACTTCTTC
* *
50743110 ACTTACTCACTTACTTAAAT
1 ACTTACTCACTTAATCAAAT
*
50743130 ACTTACTTACTTAATCAAAT
1 ACTTACTCACTTAATCAAAT
50743150 TTATTAATAC
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.38, C:0.23, G:0.00, T:0.40
Consensus pattern (20 bp):
ACTTACTCACTTAATCAAAT
Found at i:50751010 original size:43 final size:42
Alignment explanation
Indices: 50750875--50751027 Score: 157
Period size: 43 Copynumber: 3.6 Consensus size: 42
50750865 TAGGACTTCC
* * * *
50750875 GATATGTGATTTCGTGTAAGACCACGTCTGGGACATTGGTATC
1 GATATTTGATTTCGTGTAAGACCATGTCTGGGACA-TGGCATT
* *
50750918 GAT-TTGAGATTTACGTGTAAGACCATGTCTGGGACATCAGCA-T
1 GATATT-TGATTT-CGTGTAAGACCATGTCTGGGACAT-GGCATT
* *
50750961 CATATTTGATTTCGTGTAAGACCTTGTCTGGGACAGTGGCATT
1 GATATTTGATTTCGTGTAAGACCATGTCTGGGACA-TGGCATT
* *
50751004 GATATTTGATTACATGTAAGACCA
1 GATATTTGATTTCGTGTAAGACCA
50751028 CATCTAGGAT
Statistics
Matches: 90, Mismatches: 14, Indels: 12
0.78 0.12 0.10
Matches are distributed among these distances:
42 26 0.29
43 38 0.42
44 26 0.29
ACGTcount: A:0.26, C:0.16, G:0.25, T:0.33
Consensus pattern (42 bp):
GATATTTGATTTCGTGTAAGACCATGTCTGGGACATGGCATT
Found at i:50761819 original size:28 final size:28
Alignment explanation
Indices: 50761788--50761853 Score: 69
Period size: 28 Copynumber: 2.3 Consensus size: 28
50761778 AGTGTGAAAA
* *
50761788 ATATTAAGAATGGAACTTGGTGTACGAG
1 ATATTAAGAATGGAACTTAGCGTACGAG
* * *
50761816 ATATTGAGTATGGCACTTAGCGTACGAG
1 ATATTAAGAATGGAACTTAGCGTACGAG
*
50761844 ACATTGAAGA
1 ATATT-AAGA
50761854 TGCAACGGCA
Statistics
Matches: 29, Mismatches: 8, Indels: 1
0.76 0.21 0.03
Matches are distributed among these distances:
28 27 0.93
29 2 0.07
ACGTcount: A:0.35, C:0.11, G:0.27, T:0.27
Consensus pattern (28 bp):
ATATTAAGAATGGAACTTAGCGTACGAG
Found at i:50766073 original size:53 final size:53
Alignment explanation
Indices: 50765988--50766194 Score: 193
Period size: 55 Copynumber: 3.8 Consensus size: 53
50765978 TCCATTTTTA
* *
50765988 AACTTACCATTGCCATGTCTTG-ATACGGTCTTACGTGGTATCCTTGCCTTAT-G
1 AACTTACCAATGCCATGTCTTGCAT--GGTCTTACATGGTATCCTTGCCTTATAG
* * * *
50766041 AACTCACCATTGCCATGTCTTAGCATGGTCTTACATGGGATCTTTGCCTTATAG
1 AACTTACCAATGCCATGTCTT-GCATGGTCTTACATGGTATCCTTGCCTTATAG
** * * * * *
50766095 TAGTTTATCAATGCCATGTCTTGACATAGTCTTACATGATTTCCTTGCCTTGTAG
1 -AACTTACCAATGCCATGTCTTG-CATGGTCTTACATGGTATCCTTGCCTTATAG
* * * *
50766150 AACTTACCAATACCATGCCTTGGCATGGTCTTACTTAGTATCCTT
1 AACTTACCAATGCCATGTCTT-GCATGGTCTTACATGGTATCCTT
50766195 AAACCCTAAT
Statistics
Matches: 123, Mismatches: 25, Indels: 11
0.77 0.16 0.07
Matches are distributed among these distances:
53 43 0.35
54 36 0.29
55 44 0.36
ACGTcount: A:0.22, C:0.24, G:0.17, T:0.38
Consensus pattern (53 bp):
AACTTACCAATGCCATGTCTTGCATGGTCTTACATGGTATCCTTGCCTTATAG
Found at i:50766194 original size:54 final size:54
Alignment explanation
Indices: 50765988--50766194 Score: 200
Period size: 53 Copynumber: 3.8 Consensus size: 54
50765978 TCCATTTTTA
* ** * *
50765988 AACTTACCATTGCCATGTCTTGATACGGTCTTACGTGGTATCCTTGCCTTAT-G
1 AACTTACCAATGCCATGTCTTGGCATGGTCTTACATGGTATCCTTGCCTTATAG
* * * * *
50766041 AACTCACCATTGCCATGTCTTAGCATGGTCTTACATGGGATCTTTGCCTTATAG
1 AACTTACCAATGCCATGTCTTGGCATGGTCTTACATGGTATCCTTGCCTTATAG
** * * * * * *
50766095 TAGTTTATCAATGCCATGTCTTGACATAGTCTTACATGATTTCCTTGCCTTGTAG
1 -AACTTACCAATGCCATGTCTTGGCATGGTCTTACATGGTATCCTTGCCTTATAG
* * * *
50766150 AACTTACCAATACCATGCCTTGGCATGGTCTTACTTAGTATCCTT
1 AACTTACCAATGCCATGTCTTGGCATGGTCTTACATGGTATCCTT
50766195 AAACCCTAAT
Statistics
Matches: 120, Mismatches: 32, Indels: 3
0.77 0.21 0.02
Matches are distributed among these distances:
53 44 0.37
54 35 0.29
55 41 0.34
ACGTcount: A:0.22, C:0.24, G:0.17, T:0.38
Consensus pattern (54 bp):
AACTTACCAATGCCATGTCTTGGCATGGTCTTACATGGTATCCTTGCCTTATAG
Found at i:50783886 original size:13 final size:13
Alignment explanation
Indices: 50783870--50783903 Score: 52
Period size: 13 Copynumber: 2.6 Consensus size: 13
50783860 ACAGTCTGAT
50783870 AACAAAGAGGAAG-
1 AACAAAGA-GAAGC
50783883 AACAAAGAGAAGC
1 AACAAAGAGAAGC
50783896 AACAAAGA
1 AACAAAGA
50783904 AAAATATTAT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
12 4 0.20
13 16 0.80
ACGTcount: A:0.65, C:0.12, G:0.24, T:0.00
Consensus pattern (13 bp):
AACAAAGAGAAGC
Found at i:50785291 original size:1 final size:1
Alignment explanation
Indices: 50785280--50785319 Score: 62
Period size: 1 Copynumber: 40.0 Consensus size: 1
50785270 TCTATTTGGG
* *
50785280 TTTTCTTTTTTTTTTTTTCTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
50785320 GCCTTTAGCT
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
1 35 1.00
ACGTcount: A:0.00, C:0.05, G:0.00, T:0.95
Consensus pattern (1 bp):
T
Found at i:50785299 original size:14 final size:14
Alignment explanation
Indices: 50785280--50785319 Score: 73
Period size: 14 Copynumber: 2.9 Consensus size: 14
50785270 TCTATTTGGG
50785280 TTTTCTTTTTTTTT
1 TTTTCTTTTTTTTT
50785294 TTTTCTTTTTTTTT
1 TTTTCTTTTTTTTT
50785308 TTTT-TTTTTTTT
1 TTTTCTTTTTTTT
50785320 GCCTTTAGCT
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
13 8 0.31
14 18 0.69
ACGTcount: A:0.00, C:0.05, G:0.00, T:0.95
Consensus pattern (14 bp):
TTTTCTTTTTTTTT
Found at i:50789362 original size:22 final size:22
Alignment explanation
Indices: 50789303--50789362 Score: 57
Period size: 22 Copynumber: 2.7 Consensus size: 22
50789293 CAACCTAAAC
* *
50789303 TTTCTCTTTTGTTGTTGTTTTG
1 TTTCTATTTTGTTGTTGTATTG
* * * * *
50789325 CTGCCATCTTGCTGTTGTATTG
1 TTTCTATTTTGTTGTTGTATTG
50789347 TTTCTATTTTGTTGTT
1 TTTCTATTTTGTTGTT
50789363 ATTATTTGAA
Statistics
Matches: 26, Mismatches: 12, Indels: 0
0.68 0.32 0.00
Matches are distributed among these distances:
22 26 1.00
ACGTcount: A:0.05, C:0.13, G:0.18, T:0.63
Consensus pattern (22 bp):
TTTCTATTTTGTTGTTGTATTG
Found at i:50796506 original size:40 final size:40
Alignment explanation
Indices: 50796462--50796558 Score: 106
Period size: 41 Copynumber: 2.4 Consensus size: 40
50796452 ACCAGTTTGG
* *
50796462 CACCCAGTGCCTTATCGGAT-AATTCGAAGTAGTAAATTAA
1 CACCCAGTG-CTTATCGAATAAATCCGAAGTAGTAAATTAA
* * *
50796502 CACCCAATGTTTCATCGAATAAATCCGAAGTAGTAAATTGA
1 CACCCAGTGCTT-ATCGAATAAATCCGAAGTAGTAAATTAA
*
50796543 CACCAAGTGTCTTATC
1 CACCCAGTG-CTTATC
50796559 AGTTAAACTG
Statistics
Matches: 46, Mismatches: 8, Indels: 5
0.78 0.14 0.08
Matches are distributed among these distances:
39 2 0.04
40 14 0.30
41 28 0.61
42 2 0.04
ACGTcount: A:0.35, C:0.22, G:0.15, T:0.28
Consensus pattern (40 bp):
CACCCAGTGCTTATCGAATAAATCCGAAGTAGTAAATTAA
Found at i:50797540 original size:26 final size:26
Alignment explanation
Indices: 50797493--50797578 Score: 88
Period size: 26 Copynumber: 3.3 Consensus size: 26
50797483 AGGCCATGGC
50797493 TTTCTTTC-TTCTTTCTCTTTTTATT
1 TTTCTTTCTTTCTTTCTCTTTTTATT
*
50797518 TTTCTTTCTTTCTTTC-CTGTTTTGTT
1 TTTCTTTCTTTCTTTCTCT-TTTTATT
* *
50797544 TTACTTTGTTTCTTTTTCTCTTTCTT-TT
1 TTTCTTTCTTTC--TTTCTCTTT-TTATT
50797572 TTTCTTT
1 TTTCTTT
50797579 TATTTATTTG
Statistics
Matches: 51, Mismatches: 4, Indels: 9
0.80 0.06 0.14
Matches are distributed among these distances:
25 10 0.20
26 23 0.45
28 14 0.27
29 4 0.08
ACGTcount: A:0.02, C:0.19, G:0.03, T:0.76
Consensus pattern (26 bp):
TTTCTTTCTTTCTTTCTCTTTTTATT
Found at i:50800934 original size:40 final size:40
Alignment explanation
Indices: 50800889--50801040 Score: 207
Period size: 40 Copynumber: 3.8 Consensus size: 40
50800879 ATAACCACAA
* * *
50800889 GCACAATTGCCTTCGGGTCTTAACCCGGGTATAGCAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATAGCAACTC
*
50800929 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATAGCAACTC
* * *
50800969 GCACAAATGCCTTCGGGTCTTAGCCCGGATAAAATC-ACTA
1 GCACAAATGCCTTCGGGTCTTAGCCCGGAT-ATAGCAACTC
* *
50801009 GCATAAATGCCTTCGGGACTTAGCCCGGATAT
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATAT
50801041 CATTCAAATG
Statistics
Matches: 102, Mismatches: 9, Indels: 3
0.89 0.08 0.03
Matches are distributed among these distances:
39 1 0.01
40 97 0.95
41 4 0.04
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (40 bp):
GCACAAATGCCTTCGGGTCTTAGCCCGGATATAGCAACTC
Found at i:50809085 original size:40 final size:40
Alignment explanation
Indices: 50809040--50809191 Score: 207
Period size: 40 Copynumber: 3.8 Consensus size: 40
50809030 ATAACCACAA
* * *
50809040 GCACAATTGCCTTCGGGTCTTAACCCGGGTATAGCAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATAGCAACTC
*
50809080 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATAGCAACTC
* * *
50809120 GCACAAATGCCTTCGGGTCTTAGCCCGGATAAAATC-ACTA
1 GCACAAATGCCTTCGGGTCTTAGCCCGGAT-ATAGCAACTC
* *
50809160 GCATAAATGCCTTCGGGACTTAGCCCGGATAT
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATAT
50809192 CATTCAAATG
Statistics
Matches: 102, Mismatches: 9, Indels: 3
0.89 0.08 0.03
Matches are distributed among these distances:
39 1 0.01
40 97 0.95
41 4 0.04
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (40 bp):
GCACAAATGCCTTCGGGTCTTAGCCCGGATATAGCAACTC
Found at i:50814393 original size:6 final size:6
Alignment explanation
Indices: 50814382--50814407 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
50814372 CACGTATCAA
50814382 TCATAT TCATAT TCATAT TCATAT TC
1 TCATAT TCATAT TCATAT TCATAT TC
50814408 CACCATAACT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.31, C:0.19, G:0.00, T:0.50
Consensus pattern (6 bp):
TCATAT
Found at i:50818127 original size:15 final size:17
Alignment explanation
Indices: 50818107--50818146 Score: 50
Period size: 15 Copynumber: 2.5 Consensus size: 17
50818097 ACAAGTAAGG
50818107 CACATTAACATA-AAT-
1 CACATTAACATACAATA
50818122 CACATT-ACATACAATA
1 CACATTAACATACAATA
50818138 CAACATTAA
1 C-ACATTAA
50818147 ATTTACATAA
Statistics
Matches: 21, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
14 5 0.24
15 9 0.43
16 1 0.05
17 5 0.24
18 1 0.05
ACGTcount: A:0.53, C:0.23, G:0.00, T:0.25
Consensus pattern (17 bp):
CACATTAACATACAATA
Found at i:50823114 original size:24 final size:24
Alignment explanation
Indices: 50823082--50823131 Score: 100
Period size: 24 Copynumber: 2.1 Consensus size: 24
50823072 ATTATCGTTA
50823082 CAATCAAACAACAGAACGGCCTTT
1 CAATCAAACAACAGAACGGCCTTT
50823106 CAATCAAACAACAGAACGGCCTTT
1 CAATCAAACAACAGAACGGCCTTT
50823130 CA
1 CA
50823132 CCCATCCTAC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.42, C:0.30, G:0.12, T:0.16
Consensus pattern (24 bp):
CAATCAAACAACAGAACGGCCTTT
Found at i:50823363 original size:27 final size:27
Alignment explanation
Indices: 50823333--50823537 Score: 214
Period size: 27 Copynumber: 7.6 Consensus size: 27
50823323 ATATTGAGCC
* * * *
50823333 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCCACATAATCAAAT
*
50823360 CGCACACTTAGTGCCACGTAATCAAAT
1 CGCACACTTAGTGCCACATAATCAAAT
*
50823387 CGCACACTTAGTGCCACGTAATCAAAT
1 CGCACACTTAGTGCCACATAATCAAAT
* * *
50823414 CGCACACTTAGTGCTACATAGTCAGACT
1 CGCACACTTAGTGCCACATAATCA-AAT
* ** *
50823442 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCCACATAATCAAAT
* **
50823469 CGCACACTTAGTG-CATCATATTCATTT
1 CGCACACTTAGTGCCA-CATAATCAAAT
* * *
50823496 CGCACACTTAGTGCAACATAGTCGAAT
1 CGCACACTTAGTGCCACATAATCAAAT
50823523 CGCACACTTAGTGCC
1 CGCACACTTAGTGCC
50823538 GCACAATTTA
Statistics
Matches: 152, Mismatches: 23, Indels: 6
0.84 0.13 0.03
Matches are distributed among these distances:
26 1 0.01
27 127 0.84
28 24 0.16
ACGTcount: A:0.29, C:0.29, G:0.16, T:0.25
Consensus pattern (27 bp):
CGCACACTTAGTGCCACATAATCAAAT
Found at i:50854566 original size:46 final size:47
Alignment explanation
Indices: 50854446--50854608 Score: 266
Period size: 46 Copynumber: 3.6 Consensus size: 47
50854436 GTTTCTCACC
50854446 TTCACATTCATCACATC-GCCATTAGGCCTTATCACACATAT--ACT
1 TTCACATTCATCACATCGGCCATTAGGCCTTATCACACATATACACT
50854490 TTCACATTCATC-CATCGGCCATTAGGCCTTATCACA-ATATACACT
1 TTCACATTCATCACATCGGCCATTAGGCCTTATCACACATATACACT
* *
50854535 TTCACATTCATCGCATCGGCCATTAGGCCTTATCACATATATACACT
1 TTCACATTCATCACATCGGCCATTAGGCCTTATCACACATATACACT
50854582 TTCACATTCAT-ACATCGGCCATTAGGC
1 TTCACATTCATCACATCGGCCATTAGGC
50854609 ATCTATCTTT
Statistics
Matches: 113, Mismatches: 1, Indels: 8
0.93 0.01 0.07
Matches are distributed among these distances:
43 8 0.07
44 31 0.27
45 15 0.13
46 39 0.35
47 20 0.18
ACGTcount: A:0.28, C:0.31, G:0.10, T:0.31
Consensus pattern (47 bp):
TTCACATTCATCACATCGGCCATTAGGCCTTATCACACATATACACT
Found at i:50858019 original size:38 final size:39
Alignment explanation
Indices: 50857964--50858051 Score: 151
Period size: 38 Copynumber: 2.3 Consensus size: 39
50857954 GCTCTCGGGA
*
50857964 TTAGCACGGATATATCACTAGCACGAATGCTCTTCGGAC
1 TTAGCCCGGATATATCACTAGCACGAATGCTCTTCGGAC
*
50858003 TTAGCCCGGATA-ATCACTAGCATGAATGCTCTTCGGAC
1 TTAGCCCGGATATATCACTAGCACGAATGCTCTTCGGAC
50858041 TTAGCCCGGAT
1 TTAGCCCGGAT
50858052 TTAGTAATGC
Statistics
Matches: 47, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
38 36 0.77
39 11 0.23
ACGTcount: A:0.26, C:0.26, G:0.22, T:0.26
Consensus pattern (39 bp):
TTAGCCCGGATATATCACTAGCACGAATGCTCTTCGGAC
Found at i:50858494 original size:28 final size:28
Alignment explanation
Indices: 50858427--50858497 Score: 99
Period size: 28 Copynumber: 2.5 Consensus size: 28
50858417 TAATCAACCA
*
50858427 CACACTTAGTGCCATGTACTTTAAACTCG
1 CACACTTAGTGCCATG-ACTTTAAACCCG
*
50858456 CACACTTAGTGCCATG-CTTTCAAGCCCG
1 CACACTTAGTGCCATGACTTT-AAACCCG
50858484 CACACTTAGTGCCA
1 CACACTTAGTGCCA
50858498 ATCTCACAAC
Statistics
Matches: 39, Mismatches: 2, Indels: 3
0.89 0.05 0.07
Matches are distributed among these distances:
27 4 0.10
28 19 0.49
29 16 0.41
ACGTcount: A:0.25, C:0.32, G:0.15, T:0.27
Consensus pattern (28 bp):
CACACTTAGTGCCATGACTTTAAACCCG
Found at i:50858540 original size:43 final size:43
Alignment explanation
Indices: 50858479--50858622 Score: 274
Period size: 43 Copynumber: 3.4 Consensus size: 43
50858469 ATGCTTTCAA
50858479 GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
1 GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
50858522 GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
1 GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
50858565 GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
1 GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
50858608 GCCCG--CACTTAGTGC
1 GCCCGCACACTTAGTGC
50858623 TGAAAACCAA
Statistics
Matches: 101, Mismatches: 0, Indels: 2
0.98 0.00 0.02
Matches are distributed among these distances:
41 10 0.10
43 91 0.90
ACGTcount: A:0.26, C:0.35, G:0.15, T:0.23
Consensus pattern (43 bp):
GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
Found at i:50860736 original size:47 final size:47
Alignment explanation
Indices: 50860625--50861083 Score: 823
Period size: 47 Copynumber: 9.7 Consensus size: 47
50860615 GCCCTTCGGG
*
50860625 ACTTATCACATTCATCACATCGGCCATTAGGCCCTATCACATATATATAC
1 ACTT-TCACATTCATCACATCGGCCATTAGGCCTTATCAC--ATATATAC
* *
50860675 GCTTTCACATTCATCACATCGGCCATTAGGCCTTATCGCATATATAC
1 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
50860722 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
1 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
*
50860769 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACACATATAC
1 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
50860816 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC--ATATAC
1 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
*
50860861 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACACATATAC
1 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
*
50860908 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACACATATAC
1 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
50860955 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
1 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
50861002 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
1 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
50861049 ACTTTCACATTCATCACATCGGCCATTAGGCCTTA
1 ACTTTCACATTCATCACATCGGCCATTAGGCCTTA
50861084 CTATCATTTC
Statistics
Matches: 400, Mismatches: 7, Indels: 7
0.97 0.02 0.02
Matches are distributed among these distances:
45 45 0.11
47 319 0.80
49 33 0.08
50 3 0.01
ACGTcount: A:0.29, C:0.31, G:0.09, T:0.31
Consensus pattern (47 bp):
ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
Found at i:50860855 original size:22 final size:22
Alignment explanation
Indices: 50860828--50860900 Score: 60
Period size: 22 Copynumber: 3.3 Consensus size: 22
50860818 TTTCACATTC
50860828 ATCACATCGGCCATTAGGCCTT
1 ATCACATCGGCCATTAGGCCTT
*** * *
50860850 ATCACATATACACTTTCA--CATT
1 ATCACATCGGC-CATT-AGGCCTT
50860872 CATCACATCGGCCATTAGGCCTT
1 -ATCACATCGGCCATTAGGCCTT
50860895 ATCACA
1 ATCACA
50860901 CATATACACT
Statistics
Matches: 36, Mismatches: 10, Indels: 10
0.64 0.18 0.18
Matches are distributed among these distances:
21 1 0.03
22 20 0.56
23 14 0.39
24 1 0.03
ACGTcount: A:0.29, C:0.32, G:0.11, T:0.29
Consensus pattern (22 bp):
ATCACATCGGCCATTAGGCCTT
Found at i:50860955 original size:186 final size:187
Alignment explanation
Indices: 50860625--50861083 Score: 812
Period size: 186 Copynumber: 2.4 Consensus size: 187
50860615 GCCCTTCGGG
* *
50860625 ACTTATCACATTCATCACATCGGCCATTAGGCCCTATCACATATATATACGCTTTCACATTCATC
1 ACTT-TCACATTCATCACATCGGCCATTAGGCCTTATCAC--A-ATATACACTTTCACATTCATC
* *
50860690 ACATCGGCCATTAGGCCTTATCGCATATATACACTTTCACATTCATCACATCGGCCATTAGGCCT
62 ACATCGGCCATTAGGCCTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAGGCCT
*
50860755 TATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACACATATAC
127 TATCACACATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACACATATAC
50860816 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC-ATATACACTTTCACATTCATCACAT
1 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACAATATACACTTTCACATTCATCACAT
50860880 CGGCCATTAGGCCTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATC
66 CGGCCATTAGGCCTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATC
*
50860945 ACACATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
131 ACACATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACACATATAC
50861002 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACA
1 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACA-ATATACACTTTCACATTCATCACA
50861067 TCGGCCATTAGGCCTTA
65 TCGGCCATTAGGCCTTA
50861084 CTATCATTTC
Statistics
Matches: 260, Mismatches: 6, Indels: 7
0.95 0.02 0.03
Matches are distributed among these distances:
186 181 0.70
188 41 0.16
190 34 0.13
191 4 0.02
ACGTcount: A:0.29, C:0.31, G:0.09, T:0.31
Consensus pattern (187 bp):
ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACAATATACACTTTCACATTCATCACAT
CGGCCATTAGGCCTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATC
ACACATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACACATATAC
Found at i:50869748 original size:42 final size:42
Alignment explanation
Indices: 50869690--50869774 Score: 170
Period size: 42 Copynumber: 2.0 Consensus size: 42
50869680 AAGTCTAATC
50869690 ATCAACAATACCCTAGTTCAATTCCAACTAGGTCTCAACTAA
1 ATCAACAATACCCTAGTTCAATTCCAACTAGGTCTCAACTAA
50869732 ATCAACAATACCCTAGTTCAATTCCAACTAGGTCTCAACTAA
1 ATCAACAATACCCTAGTTCAATTCCAACTAGGTCTCAACTAA
50869774 A
1 A
50869775 CTTTGACAAT
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
42 43 1.00
ACGTcount: A:0.39, C:0.28, G:0.07, T:0.26
Consensus pattern (42 bp):
ATCAACAATACCCTAGTTCAATTCCAACTAGGTCTCAACTAA
Found at i:50874370 original size:43 final size:43
Alignment explanation
Indices: 50874315--50874397 Score: 139
Period size: 43 Copynumber: 1.9 Consensus size: 43
50874305 CAGTACAACA
*
50874315 ATTAAAGGAATGATATTCTAGGATCTTTAGCTATATTAGTACG
1 ATTAAAGGAATGATATTCTAGGATCTTTAGCTATACTAGTACG
* *
50874358 ATTAAAGTAATGATATTCTAGGCTCTTTAGCTATACTAGT
1 ATTAAAGGAATGATATTCTAGGATCTTTAGCTATACTAGT
50874398 GGATGTATTT
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
43 37 1.00
ACGTcount: A:0.34, C:0.11, G:0.17, T:0.39
Consensus pattern (43 bp):
ATTAAAGGAATGATATTCTAGGATCTTTAGCTATACTAGTACG
Found at i:50875319 original size:28 final size:28
Alignment explanation
Indices: 50875254--50875308 Score: 101
Period size: 28 Copynumber: 2.0 Consensus size: 28
50875244 GAGTAAGGAT
*
50875254 AATGTCATGAATAAGAGCAGAGAAAGGC
1 AATGTCATGAATAAGAGAAGAGAAAGGC
50875282 AATGTCATGAATAAGAGAAGAGAAAGG
1 AATGTCATGAATAAGAGAAGAGAAAGG
50875309 TGACTTGATG
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
28 26 1.00
ACGTcount: A:0.49, C:0.07, G:0.29, T:0.15
Consensus pattern (28 bp):
AATGTCATGAATAAGAGAAGAGAAAGGC
Found at i:50878050 original size:17 final size:18
Alignment explanation
Indices: 50878020--50878057 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 18
50878010 TTGAACTTGG
50878020 TTGTTAAATAAACTTGTT
1 TTGTTAAATAAACTTGTT
* *
50878038 TTGTTAAGT-AACTTTTT
1 TTGTTAAATAAACTTGTT
50878055 TTG
1 TTG
50878058 AATTTAGGGT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
17 10 0.56
18 8 0.44
ACGTcount: A:0.26, C:0.05, G:0.13, T:0.55
Consensus pattern (18 bp):
TTGTTAAATAAACTTGTT
Found at i:50887383 original size:65 final size:66
Alignment explanation
Indices: 50887302--50887433 Score: 248
Period size: 66 Copynumber: 2.0 Consensus size: 66
50887292 ACTTGCGTAA
50887302 TAGGGTGTTGGCCGAATGCTTCTTCCCTA-CTTTTTGGGTTCTGAGTTTCTATAAGTTAGCATAT
1 TAGGGTGTTGGCCGAATGCTTCTTCCCTATCTTTTTGGGTTCTGAGTTTCTATAAGTTAGCATAT
50887366 G
66 G
*
50887367 TAGGGTGTTGGCCGAATGCTTCTTCCCTATTTTTTTGGGTTCTGAGTTTCTATAAGTTAGCATAT
1 TAGGGTGTTGGCCGAATGCTTCTTCCCTATCTTTTTGGGTTCTGAGTTTCTATAAGTTAGCATAT
50887432 G
66 G
50887433 T
1 T
50887434 TGACTTAAGC
Statistics
Matches: 65, Mismatches: 1, Indels: 1
0.97 0.01 0.01
Matches are distributed among these distances:
65 29 0.45
66 36 0.55
ACGTcount: A:0.17, C:0.16, G:0.24, T:0.43
Consensus pattern (66 bp):
TAGGGTGTTGGCCGAATGCTTCTTCCCTATCTTTTTGGGTTCTGAGTTTCTATAAGTTAGCATAT
G
Found at i:50892239 original size:13 final size:13
Alignment explanation
Indices: 50892218--50892248 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
50892208 CTTTGAAGGG
50892218 CACACGGGCTAGA
1 CACACGGGCTAGA
*
50892231 CACATGGGCTAGA
1 CACACGGGCTAGA
50892244 CACAC
1 CACAC
50892249 AGGCGTGTGG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.32, C:0.32, G:0.26, T:0.10
Consensus pattern (13 bp):
CACACGGGCTAGA
Found at i:50906822 original size:42 final size:44
Alignment explanation
Indices: 50906730--50906898 Score: 195
Period size: 43 Copynumber: 4.0 Consensus size: 44
50906720 CATAAGCTCG
* * * *
50906730 TACAATGCC-ATATCTCAGATATGGTCTTACATGTTATCACATA
1 TACAATGCCAATATCCCAGACATGGTCTTACACGTAATCACATA
* * *
50906773 T-CGATGCCACTATCCCAGACAAGGTCTTACACG-AATCA-ATA
1 TACAATGCCAATATCCCAGACATGGTCTTACACGTAATCACATA
*
50906814 TACAATGCCAATGTCCCAGACATGGTCTTACACGTAATCACA-A
1 TACAATGCCAATATCCCAGACATGGTCTTACACGTAATCACATA
* ** *
50906857 TACAATGTCAATGCCCCAGACATGGTCTTACATGTAATCACA
1 TACAATGCCAATATCCCAGACATGGTCTTACACGTAATCACA
50906899 ACTCGATAAC
Statistics
Matches: 108, Mismatches: 14, Indels: 8
0.83 0.11 0.06
Matches are distributed among these distances:
41 4 0.04
42 38 0.35
43 65 0.60
44 1 0.01
ACGTcount: A:0.34, C:0.26, G:0.14, T:0.27
Consensus pattern (44 bp):
TACAATGCCAATATCCCAGACATGGTCTTACACGTAATCACATA
Found at i:50910088 original size:45 final size:45
Alignment explanation
Indices: 50910028--50910115 Score: 149
Period size: 45 Copynumber: 2.0 Consensus size: 45
50910018 CCAAAACATG
*
50910028 TGTCATATATATCATGAACGCAGACCACAACTCAATGAGTTCATA
1 TGTCACATATATCATGAACGCAGACCACAACTCAATGAGTTCATA
* *
50910073 TGTCACATATGTCATGAACTCAGACCACAACTCAATGAGTTCA
1 TGTCACATATATCATGAACGCAGACCACAACTCAATGAGTTCA
50910116 GATCACATAA
Statistics
Matches: 40, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
45 40 1.00
ACGTcount: A:0.36, C:0.24, G:0.14, T:0.26
Consensus pattern (45 bp):
TGTCACATATATCATGAACGCAGACCACAACTCAATGAGTTCATA
Found at i:50910116 original size:21 final size:21
Alignment explanation
Indices: 50910048--50910122 Score: 53
Period size: 21 Copynumber: 3.4 Consensus size: 21
50910038 ATCATGAACG
50910048 CAGACCACAACTCAATGAGTT
1 CAGACCACAACTCAATGAGTT
* * * **
50910069 CATATGTCACATATGTC-ATGAACT
1 CAGA--CCACA-A-CTCAATGAGTT
50910093 CAGACCACAACTCAATGAGTT
1 CAGACCACAACTCAATGAGTT
*
50910114 CAGATCACA
1 CAGACCACA
50910123 TAATTTCTAG
Statistics
Matches: 38, Mismatches: 11, Indels: 10
0.64 0.19 0.17
Matches are distributed among these distances:
20 2 0.05
21 17 0.45
22 4 0.11
23 4 0.11
24 9 0.24
25 2 0.05
ACGTcount: A:0.37, C:0.27, G:0.13, T:0.23
Consensus pattern (21 bp):
CAGACCACAACTCAATGAGTT
Found at i:50923021 original size:26 final size:26
Alignment explanation
Indices: 50922985--50923042 Score: 107
Period size: 26 Copynumber: 2.2 Consensus size: 26
50922975 TGCCCTAAAT
*
50922985 ATGTGTATATGGATTGATTTGAATGA
1 ATGTGAATATGGATTGATTTGAATGA
50923011 ATGTGAATATGGATTGATTTGAATGA
1 ATGTGAATATGGATTGATTTGAATGA
50923037 ATGTGA
1 ATGTGA
50923043 GATTCAATAA
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 31 1.00
ACGTcount: A:0.33, C:0.00, G:0.28, T:0.40
Consensus pattern (26 bp):
ATGTGAATATGGATTGATTTGAATGA
Found at i:50923506 original size:43 final size:43
Alignment explanation
Indices: 50923335--50923507 Score: 145
Period size: 43 Copynumber: 4.0 Consensus size: 43
50923325 CATAGGATTT
* * * * * *
50923335 TCGATATGTGATTTCGTGAAAGACCACATCTGGGACGTTGGCA
1 TCGATATTTGATTACGTGTAAGACCATATCTAGGACATTGGCA
* * * * *
50923378 TCGAT-TTGAGATTTATGTGTAAGACCATGTCTAGGACATCGACA
1 TCGATATT-TGA-TTACGTGTAAGACCATATCTAGGACATTGGCA
* * *
50923422 TCG-TATTTGATTTCGTGTGAA-ACCCTATCTAGGACAATGGCA
1 TCGATATTTGATTACGTGT-AAGACCATATCTAGGACATTGGCA
* * *
50923464 TCGATATTTGATTACATGTAAGACCATGTCTAGGACGTTGGCA
1 TCGATATTTGATTACGTGTAAGACCATATCTAGGACATTGGCA
50923507 T
1 T
50923508 TGTACGAGCT
Statistics
Matches: 99, Mismatches: 25, Indels: 12
0.73 0.18 0.09
Matches are distributed among these distances:
42 28 0.28
43 43 0.43
44 28 0.28
ACGTcount: A:0.27, C:0.17, G:0.24, T:0.32
Consensus pattern (43 bp):
TCGATATTTGATTACGTGTAAGACCATATCTAGGACATTGGCA
Found at i:50927701 original size:16 final size:16
Alignment explanation
Indices: 50927682--50927712 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
50927672 CTTCTTCACT
50927682 TACTCACTTACTTAAA
1 TACTCACTTACTTAAA
*
50927698 TACTTACTTACTTAA
1 TACTCACTTACTTAA
50927713 TTAAATTTAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.35, C:0.23, G:0.00, T:0.42
Consensus pattern (16 bp):
TACTCACTTACTTAAA
Found at i:50927702 original size:20 final size:20
Alignment explanation
Indices: 50927679--50927718 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
50927669 AAACTTCTTC
*
50927679 ACTTACTCACTTACTTAAAT
1 ACTTACTCACTTAATTAAAT
*
50927699 ACTTACTTACTTAATTAAAT
1 ACTTACTCACTTAATTAAAT
50927719 TTATTAATAC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.38, C:0.20, G:0.00, T:0.42
Consensus pattern (20 bp):
ACTTACTCACTTAATTAAAT
Found at i:50928094 original size:55 final size:53
Alignment explanation
Indices: 50927972--50928158 Score: 182
Period size: 55 Copynumber: 3.5 Consensus size: 53
50927962 GCTATGTCTC
*
50927972 GACATGGTCTTACATGGTATCCTTGCCTTATGAACTCACCAATGCCATGCCTT
1 GACATGGTCTTACATGGTATCCTTGCCTTATGAACTCACCAATGCCATGCATT
* * * * *
50928025 GGCATGGTCTTACATGGGA-CCTTTGCCTTATAGTAACTTATCAATGCCATGTATT
1 GACATGGTCTTACATGGTATCC-TTGCCTTAT-G-AACTCACCAATGCCATGCATT
* * * **
50928080 GACATGATCCTACATGGTATCCTTGCCTTA-GAAACCTTACCAATTTTCATGTC-TT
1 GACATGGTCTTACATGGTATCCTTGCCTTATG-AA-CTCACCAA-TGCCATG-CATT
*
50928135 GGCATGGTCTTACATGGTATCCTT
1 GACATGGTCTTACATGGTATCCTT
50928159 AAACCCTAAT
Statistics
Matches: 109, Mismatches: 18, Indels: 12
0.78 0.13 0.09
Matches are distributed among these distances:
52 2 0.02
53 29 0.27
54 8 0.07
55 68 0.62
56 2 0.02
ACGTcount: A:0.23, C:0.24, G:0.18, T:0.35
Consensus pattern (53 bp):
GACATGGTCTTACATGGTATCCTTGCCTTATGAACTCACCAATGCCATGCATT
Found at i:50935292 original size:40 final size:40
Alignment explanation
Indices: 50935232--50935321 Score: 171
Period size: 40 Copynumber: 2.2 Consensus size: 40
50935222 TCCCATTTTA
*
50935232 TTTCATTAAATTGCCAAATGACCAAAATGCCCTTAAGCCC
1 TTTCTTTAAATTGCCAAATGACCAAAATGCCCTTAAGCCC
50935272 TTTCTTTAAATTGCCAAATGACCAAAATGCCCTTAAGCCC
1 TTTCTTTAAATTGCCAAATGACCAAAATGCCCTTAAGCCC
50935312 TTTCTTTAAA
1 TTTCTTTAAA
50935322 ATTTTATCCA
Statistics
Matches: 49, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
40 49 1.00
ACGTcount: A:0.33, C:0.26, G:0.09, T:0.32
Consensus pattern (40 bp):
TTTCTTTAAATTGCCAAATGACCAAAATGCCCTTAAGCCC
Found at i:50939370 original size:43 final size:43
Alignment explanation
Indices: 50939322--50939405 Score: 134
Period size: 43 Copynumber: 2.0 Consensus size: 43
50939312 CAGTGCAACA
*
50939322 ATTAAAGGAAT-GATAATCTAGGATCTTTAGCTATATTAGTGAG
1 ATTAAAGGAATCG-TAATCTAAGATCTTTAGCTATATTAGTGAG
*
50939365 ATTAAAGGAATCGTATTCTAAGATCTTTAGCTATATTAGTG
1 ATTAAAGGAATCGTAATCTAAGATCTTTAGCTATATTAGTG
50939406 GGTGTATTTT
Statistics
Matches: 38, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
43 37 0.97
44 1 0.03
ACGTcount: A:0.36, C:0.08, G:0.19, T:0.37
Consensus pattern (43 bp):
ATTAAAGGAATCGTAATCTAAGATCTTTAGCTATATTAGTGAG
Found at i:50946716 original size:30 final size:30
Alignment explanation
Indices: 50946654--50946718 Score: 94
Period size: 30 Copynumber: 2.2 Consensus size: 30
50946644 ACTTATTTAA
*
50946654 TTGTTAATTTTGTTATTATTTTAAAGATAT
1 TTGTTAATTTTGTTATTATTTTAAAGACAT
* * *
50946684 TTGTTAATTTTTTTATTATTTTAGAGGCAT
1 TTGTTAATTTTGTTATTATTTTAAAGACAT
50946714 TTGTT
1 TTGTT
50946719 TATTAAGTTG
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.25, C:0.02, G:0.12, T:0.62
Consensus pattern (30 bp):
TTGTTAATTTTGTTATTATTTTAAAGACAT
Found at i:50959285 original size:38 final size:38
Alignment explanation
Indices: 50959234--50959425 Score: 240
Period size: 38 Copynumber: 5.0 Consensus size: 38
50959224 AGCACTCGAT
*
50959234 ATATATCCGGGTTAAGTCTCACAGGCTTCGTGCTGGTA
1 ATATATCCGGGTTAAGTCTCGCAGGCTTCGTGCTGGTA
* *
50959272 ATATATCTGGGTTAAGTCTCGTAGGCTTCGTGCTGGTA
1 ATATATCCGGGTTAAGTCTCGCAGGCTTCGTGCTGGTA
* * *
50959310 ATATATCCGGGTTAAATCCCGCAGGCTTCATGCTGGTA
1 ATATATCCGGGTTAAGTCTCGCAGGCTTCGTGCTGGTA
* *
50959348 ATATATCCGGGTTAAAGTCTCGCAGGCTTAGTACTGGTA
1 ATATATCCGGGTT-AAGTCTCGCAGGCTTCGTGCTGGTA
* * * * *
50959387 TTATATCCGAGCTTAAAGTCCCGCAGGCTTTGTACTGGT
1 ATATATCCG-GGTT-AAGTCTCGCAGGCTTCGTGCTGGT
50959426 GACTGGATTC
Statistics
Matches: 135, Mismatches: 17, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
38 81 0.60
39 28 0.21
40 26 0.19
ACGTcount: A:0.22, C:0.20, G:0.26, T:0.32
Consensus pattern (38 bp):
ATATATCCGGGTTAAGTCTCGCAGGCTTCGTGCTGGTA
Found at i:50967487 original size:38 final size:39
Alignment explanation
Indices: 50967436--50967589 Score: 195
Period size: 38 Copynumber: 4.0 Consensus size: 39
50967426 AGCACTCGAT
50967436 ATATATCCGGGTT-AAGTCCCGCAGGCTTCGTGCTGGTA
1 ATATATCCGGGTTAAAGTCCCGCAGGCTTCGTGCTGGTA
* * * *
50967474 ATATATCCGGGTT-AAGCCCCACGGGCTTCGTGTTGGTA
1 ATATATCCGGGTTAAAGTCCCGCAGGCTTCGTGCTGGTA
* *
50967512 ATATATCCGGGTTAAAGTCTCGCAGGCTTAGTGCTGGTA
1 ATATATCCGGGTTAAAGTCCCGCAGGCTTCGTGCTGGTA
* * * *
50967551 TTATATCCGAGCTTAAAGTCTCGCAGGCTTTGTGCTGGT
1 ATATATCCG-GGTTAAAGTCCCGCAGGCTTCGTGCTGGT
50967590 GACTGGATTC
Statistics
Matches: 101, Mismatches: 13, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
38 47 0.47
39 27 0.27
40 27 0.27
ACGTcount: A:0.19, C:0.21, G:0.28, T:0.31
Consensus pattern (39 bp):
ATATATCCGGGTTAAAGTCCCGCAGGCTTCGTGCTGGTA
Found at i:50976087 original size:31 final size:31
Alignment explanation
Indices: 50976049--50976112 Score: 101
Period size: 31 Copynumber: 2.1 Consensus size: 31
50976039 CCTTTTCATA
*
50976049 TTTCATATTTCATAACACTGGGCCGAAGCCT
1 TTTCATATTTCATAACACTAGGCCGAAGCCT
**
50976080 TTTCATATTTCATATTACTAGGCCGAAGCCT
1 TTTCATATTTCATAACACTAGGCCGAAGCCT
50976111 TT
1 TT
50976113 ACTATAAACG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.25, C:0.23, G:0.14, T:0.38
Consensus pattern (31 bp):
TTTCATATTTCATAACACTAGGCCGAAGCCT
Found at i:50976380 original size:23 final size:23
Alignment explanation
Indices: 50976305--50976444 Score: 194
Period size: 23 Copynumber: 6.0 Consensus size: 23
50976295 GCTTTATCAT
*
50976305 ATAACTGGAGGCCT-AGCCTCTTTGA
1 ATAACTGG-GGCATAAGCC-CTTT-A
*
50976330 ATAACTGGGGCAAAAGCCCTTTTA
1 ATAACTGGGGCATAAGCCC-TTTA
50976354 ATAA-TAGGGGCATAAGCCCTTTA
1 ATAACT-GGGGCATAAGCCCTTTA
*
50976377 ATAACTGGGGCATAACCCCTTTA
1 ATAACTGGGGCATAAGCCCTTTA
50976400 ATAACTGGGGCATAAGCCCTTTA
1 ATAACTGGGGCATAAGCCCTTTA
50976423 ATAACTGGGGCATAAGCCCTTT
1 ATAACTGGGGCATAAGCCCTTT
50976445 TTCACTTCCT
Statistics
Matches: 106, Mismatches: 5, Indels: 10
0.88 0.04 0.08
Matches are distributed among these distances:
23 69 0.65
24 22 0.21
25 15 0.14
ACGTcount: A:0.30, C:0.22, G:0.21, T:0.26
Consensus pattern (23 bp):
ATAACTGGGGCATAAGCCCTTTA
Found at i:50976520 original size:20 final size:20
Alignment explanation
Indices: 50976495--50976561 Score: 116
Period size: 20 Copynumber: 3.4 Consensus size: 20
50976485 TTATGATTAC
50976495 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
50976515 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
*
50976535 GTCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
*
50976555 ACCATGT
1 ATCATGT
50976562 TTATCAAAAT
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 44 1.00
ACGTcount: A:0.33, C:0.21, G:0.12, T:0.34
Consensus pattern (20 bp):
ATCATGTGCATATCATACAT
Found at i:50976526 original size:11 final size:11
Alignment explanation
Indices: 50976495--50976550 Score: 57
Period size: 11 Copynumber: 5.5 Consensus size: 11
50976485 TTATGATTAC
50976495 ATCATGTGCAT
1 ATCATGTGCAT
*
50976506 ATCA--TACAT
1 ATCATGTGCAT
50976515 ATCATGTGCAT
1 ATCATGTGCAT
*
50976526 ATCA--TACAT
1 ATCATGTGCAT
*
50976535 GTCATGTGCAT
1 ATCATGTGCAT
50976546 ATCAT
1 ATCAT
50976551 ACATACCATG
Statistics
Matches: 35, Mismatches: 6, Indels: 8
0.71 0.12 0.16
Matches are distributed among these distances:
9 15 0.43
11 20 0.57
ACGTcount: A:0.32, C:0.20, G:0.12, T:0.36
Consensus pattern (11 bp):
ATCATGTGCAT
Found at i:50976630 original size:25 final size:25
Alignment explanation
Indices: 50976598--50976645 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
50976588 ATACATAAAC
* * *
50976598 CCTAGGGGTATAAGGGTCATTTTTA
1 CCTAGGGGCAAAACGGTCATTTTTA
50976623 CCTAGGGGCAAAACGGTCATTTT
1 CCTAGGGGCAAAACGGTCATTTT
50976646 CATGTTATAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.25, C:0.17, G:0.27, T:0.31
Consensus pattern (25 bp):
CCTAGGGGCAAAACGGTCATTTTTA
Found at i:50983772 original size:43 final size:43
Alignment explanation
Indices: 50983695--50983860 Score: 208
Period size: 43 Copynumber: 3.9 Consensus size: 43
50983685 TTTTATCAAA
**** * *
50983695 TCACCGGCATT-TAGCCTGCTAGGTTTTAAACCCGATATCATT
1 TCACCGGCATTATAGCCTGCTAGGCCCGAAGCCCGATATCATC
*
50983737 TCACCGGCATTATAGCCTGCTAGGCCCGAAGCCCGATATTATC
1 TCACCGGCATTATAGCCTGCTAGGCCCGAAGCCCGATATCATC
* * * *
50983780 TCACCGGCGTTATAGCCTACTAGGCTCGAAGCCCGATATTATC
1 TCACCGGCATTATAGCCTGCTAGGCCCGAAGCCCGATATCATC
* *
50983823 TCACCGGCATTATAGCCTGCTAGGCCCGTAGCTCGATA
1 TCACCGGCATTATAGCCTGCTAGGCCCGAAGCCCGATA
50983861 ATATTATTCA
Statistics
Matches: 108, Mismatches: 15, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
42 11 0.10
43 97 0.90
ACGTcount: A:0.23, C:0.30, G:0.20, T:0.27
Consensus pattern (43 bp):
TCACCGGCATTATAGCCTGCTAGGCCCGAAGCCCGATATCATC
Found at i:50983900 original size:86 final size:86
Alignment explanation
Indices: 50983725--50983907 Score: 228
Period size: 86 Copynumber: 2.1 Consensus size: 86
50983715 AGGTTTTAAA
* *
50983725 CCCGATATCATTTCACCGGCATTATAGCCTGCTAGGCCCGAAGCCCGATATTATCTCACCGGCGT
1 CCCGATATCATCTCACCGGCATTATAGCCTGCTAGGCCCGAAGCCCGATATTATCTCACCAGCGT
*
50983790 TATAGCCTACTAGGCTCGAAG
66 TAAAGCCTACTAGGCTCGAAG
* * *
50983811 CCCGATATTATCTCACCGGCATTATAGCCTGCTAGGCCCGTAGCTCGATAATATTAT-TCACCAG
1 CCCGATATCATCTCACCGGCATTATAGCCTGCTAGGCCCGAAGCCCG---ATATTATCTCACCAG
* * *
50983875 C-TTAAAGCTTGCTAGGC-CGAGG
63 CGTTAAAGCCTACTAGGCTCGAAG
50983897 CCCGAATATCA
1 CCCG-ATATCA
50983908 CATTTCGATA
Statistics
Matches: 83, Mismatches: 10, Indels: 7
0.83 0.10 0.07
Matches are distributed among these distances:
86 51 0.61
87 18 0.22
88 7 0.08
89 7 0.08
ACGTcount: A:0.25, C:0.30, G:0.20, T:0.25
Consensus pattern (86 bp):
CCCGATATCATCTCACCGGCATTATAGCCTGCTAGGCCCGAAGCCCGATATTATCTCACCAGCGT
TAAAGCCTACTAGGCTCGAAG
Found at i:50992718 original size:39 final size:39
Alignment explanation
Indices: 50992633--50992725 Score: 123
Period size: 39 Copynumber: 2.4 Consensus size: 39
50992623 GGTCTTTAAC
* *
50992633 CCGGATATTTTTCCAGCACGTAGCCTGCGGACCTCAAGT
1 CCGGATATATTTCCAGCACATAGCCTGCGGACCTCAAGT
* * *
50992672 CCAGATATATTTCCAGCATATAGCCTGCGGACCTCATGT
1 CCGGATATATTTCCAGCACATAGCCTGCGGACCTCAAGT
**
50992711 TTGGATATATTTCCA
1 CCGGATATATTTCCA
50992726 ATCTTATAAA
Statistics
Matches: 46, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
39 46 1.00
ACGTcount: A:0.24, C:0.27, G:0.19, T:0.30
Consensus pattern (39 bp):
CCGGATATATTTCCAGCACATAGCCTGCGGACCTCAAGT
Done.