Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr12 103066607
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: 103066607
ACGTcount: A:0.32, C:0.17, G:0.18, T:0.33
Warning! 238 characters in sequence are not A, C, G, or T
File 222 of 345
Found at i:64473232 original size:15 final size:15
Alignment explanation
Indices: 64473212--64473281 Score: 77
Period size: 15 Copynumber: 4.6 Consensus size: 15
64473202 GTATCTTGGG
64473212 TTTCTTTATCCTGGA
1 TTTCTTTATCCTGGA
* *
64473227 TCTCTTTTATTCTGGA
1 TTTC-TTTATCCTGGA
* *
64473243 TTTCTTTATTCTGGG
1 TTTCTTTATCCTGGA
* *
64473258 TTTCTCTATCTTGGA
1 TTTCTTTATCCTGGA
64473273 TTTCTTTAT
1 TTTCTTTAT
64473282 TCGGTTTTCT
Statistics
Matches: 45, Mismatches: 9, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
15 32 0.71
16 13 0.29
ACGTcount: A:0.11, C:0.17, G:0.13, T:0.59
Consensus pattern (15 bp):
TTTCTTTATCCTGGA
Found at i:64473275 original size:30 final size:30
Alignment explanation
Indices: 64473203--64473291 Score: 92
Period size: 31 Copynumber: 3.0 Consensus size: 30
64473193 CATAGTATCG
* * * *
64473203 TATCTTGGGTTTCTTTATCCTGGATCTCTTT
1 TATCTTGGATTTCTTTATTCTGGATTTC-TC
*
64473234 TAT-TCTGGATTTCTTTATTCTGGGTTTCTC
1 TATCT-TGGATTTCTTTATTCTGGATTTCTC
*
64473264 TATCTTGGATTTCTTTATTC-GGTTTTCT
1 TATCTTGGATTTCTTTATTCTGGATTTCT
64473292 TGTTATCTTT
Statistics
Matches: 50, Mismatches: 6, Indels: 6
0.81 0.10 0.10
Matches are distributed among these distances:
29 7 0.14
30 20 0.40
31 23 0.46
ACGTcount: A:0.10, C:0.17, G:0.16, T:0.57
Consensus pattern (30 bp):
TATCTTGGATTTCTTTATTCTGGATTTCTC
Found at i:64475723 original size:46 final size:46
Alignment explanation
Indices: 64475673--64475848 Score: 232
Period size: 46 Copynumber: 3.8 Consensus size: 46
64475663 TATTTGGGCA
64475673 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
* * * *
64475719 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG---CGA-GCG
*
64475766 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
* *
64475812 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
64475849 GCGGGTTACA
Statistics
Matches: 112, Mismatches: 11, Indels: 14
0.82 0.08 0.10
Matches are distributed among these distances:
43 4 0.04
45 2 0.02
46 67 0.60
47 33 0.29
48 2 0.02
50 4 0.04
ACGTcount: A:0.20, C:0.22, G:0.30, T:0.28
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
Found at i:64475828 original size:93 final size:93
Alignment explanation
Indices: 64475669--64475840 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
64475659 TGGATATTTG
* *
64475669 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCGTCCGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
64475734 TTGAGTCCGAGTTCGTGAGATGTAACTA
66 TTGAGTCCGAGTTCGTGAGATGTAACTA
*
64475762 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
64475827 TTGAGTCCGAGTTC
66 TTGAGTCCGAGTTC
64475841 ACTTATGGGC
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.20, C:0.22, G:0.30, T:0.27
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
TTGAGTCCGAGTTCGTGAGATGTAACTA
Found at i:64477266 original size:3 final size:3
Alignment explanation
Indices: 64477234--64477401 Score: 137
Period size: 3 Copynumber: 56.3 Consensus size: 3
64477224 GGAGAGAGTG
* * * * *
64477234 TTA TTT TTA ATA TTG TTA TTA TTT TCTA TTA TTA TTA TTA TTA CTA
1 TTA TTA TTA TTA TTA TTA TTA TTA T-TA TTA TTA TTA TTA TTA TTA
* ** * * * * *
64477280 ATA CCA CTA TTA TCA TCA TTA TTA CTA TTA -TA TTA -TA ATA CTT-
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA -TTA
* * *
64477323 TTCA TTA TTA TTA CTA TT- GTG TTA TTA TTA TTA TTA TTA TTA TTA
1 TT-A TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
64477368 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
64477402 ATTTCTTTTT
Statistics
Matches: 134, Mismatches: 24, Indels: 14
0.78 0.14 0.08
Matches are distributed among these distances:
2 7 0.05
3 122 0.91
4 5 0.04
ACGTcount: A:0.32, C:0.07, G:0.02, T:0.60
Consensus pattern (3 bp):
TTA
Found at i:64477486 original size:17 final size:17
Alignment explanation
Indices: 64477461--64477498 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 17
64477451 AATTTAATAA
64477461 ATATATATTTT-TTTAGC
1 ATATATATTTTATTTA-C
*
64477478 ATATTTATTTTATTTAC
1 ATATATATTTTATTTAC
64477495 ATAT
1 ATAT
64477499 CATTACTTTA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 15 0.79
18 4 0.21
ACGTcount: A:0.32, C:0.05, G:0.03, T:0.61
Consensus pattern (17 bp):
ATATATATTTTATTTAC
Found at i:64479467 original size:126 final size:126
Alignment explanation
Indices: 64479240--64479750 Score: 637
Period size: 126 Copynumber: 4.0 Consensus size: 126
64479230 CATTTTTGGG
** * * * * * * *
64479240 CGACACTTTTTTAAGTGTTAGGATAGACTTGTCGATATACGTTTTGGCCAACTATTTGTGTAAGA
1 CGACACTTTCCTAAGTGTTGGGATAGACTTGCCGACATACGCTTTGGCCAACTCTTTATATAAGA
*
64479305 GTTGGGATATGCATGCCTAAGGCAACGCTTAAATAAGAGTCGGCTTTGTCCAACACTATGC
66 GTTGGGATATGCATGCCTAAGGCAACACTTAAATAAGAGTCGGCTTTGTCCAACACTATGC
* *
64479366 CGACACTTTCCTAAGTGTTGGGATAGACTTGCCGATATACACTTTGGCCAACTCTTTATATAAGA
1 CGACACTTTCCTAAGTGTTGGGATAGACTTGCCGACATACGCTTTGGCCAACTCTTTATATAAGA
* * * * *
64479431 GTTGGGATATGCATGCCTAAGACAACGCTTATATAAGAGTCGGCTTTGTTCAACACTACGC
66 GTTGGGATATGCATGCCTAAGGCAACACTTAAATAAGAGTCGGCTTTGTCCAACACTATGC
* * * * *
64479492 CGACACTTTTCTAAGTGTTGGGGTAGACTTGTCG-CATACGTTTTGGCCAACTCTTTGTATAAGA
1 CGACACTTTCCTAAGTGTTGGGATAGACTTGCCGACATACGCTTTGGCCAACTCTTTATATAAGA
*
64479556 GTTGGTATATGCATGCCTAAGGCAACACTTAAATAAGAGTCGGCTTTGTCCAACACTATGCCGAC
66 GTTGGGATATGCATGCCTAAGGCAACACTTAAATAAGAGTCGGCTTTGTCCAACACTAT---G-C
* *
64479621 ACTTTTAGGCCAACACTTTCCTAAGTGTTGGGATAGACTTGCCGACATATGCTTTGGTCAACTCT
1 -C------G---ACACTTTCCTAAGTGTTGGGATAGACTTGCCGACATACGCTTTGGCCAACTCT
* * *
64479686 TTATATAAGGGTTGGGATATACATGCCTAAGGCAACACTTAAATAAGAGTCGGTTTTGTCCAACA
56 TTATATAAGAGTTGGGATATGCATGCCTAAGGCAACACTTAAATAAGAGTCGGCTTTGTCCAACA
64479751 TTCTGCCAAC
Statistics
Matches: 333, Mismatches: 37, Indels: 16
0.86 0.10 0.04
Matches are distributed among these distances:
125 79 0.24
126 144 0.43
128 1 0.00
129 1 0.00
130 1 0.00
136 1 0.00
139 29 0.09
140 77 0.23
ACGTcount: A:0.27, C:0.20, G:0.22, T:0.31
Consensus pattern (126 bp):
CGACACTTTCCTAAGTGTTGGGATAGACTTGCCGACATACGCTTTGGCCAACTCTTTATATAAGA
GTTGGGATATGCATGCCTAAGGCAACACTTAAATAAGAGTCGGCTTTGTCCAACACTATGC
Found at i:64479745 original size:140 final size:139
Alignment explanation
Indices: 64479494--64479750 Score: 406
Period size: 140 Copynumber: 1.8 Consensus size: 139
64479484 CACTACGCCG
* * * * *
64479494 ACACTTTTCTAAGTGTTGGGGTAGACTTGTCGCATACGTTTTGGCCAACTCTTTGTATAAGAGTT
1 ACACTTTCCTAAGTGTTGGGATAGACTTGCCGCATACGCTTTGGCCAACTCTTTATATAAGAGTT
* *
64479559 GGTATATGCATGCCTAAGGCAACACTTAAATAAGAGTCGGCTTTGTCCAACACTATGCCGACACT
66 GGGATATACATGCCTAAGGCAACACTTAAATAAGAGTCGGCTTTGTCCAACACTATGCCGACACT
64479624 TTTAGGCCA
131 TTTAGGCCA
* * *
64479633 ACACTTTCCTAAGTGTTGGGATAGACTTGCCGACATATGCTTTGGTCAACTCTTTATATAAGGGT
1 ACACTTTCCTAAGTGTTGGGATAGACTTGCCG-CATACGCTTTGGCCAACTCTTTATATAAGAGT
*
64479698 TGGGATATACATGCCTAAGGCAACACTTAAATAAGAGTCGGTTTTGTCCAACA
65 TGGGATATACATGCCTAAGGCAACACTTAAATAAGAGTCGGCTTTGTCCAACA
64479751 TTCTGCCAAC
Statistics
Matches: 106, Mismatches: 11, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
139 29 0.27
140 77 0.73
ACGTcount: A:0.27, C:0.20, G:0.21, T:0.32
Consensus pattern (139 bp):
ACACTTTCCTAAGTGTTGGGATAGACTTGCCGCATACGCTTTGGCCAACTCTTTATATAAGAGTT
GGGATATACATGCCTAAGGCAACACTTAAATAAGAGTCGGCTTTGTCCAACACTATGCCGACACT
TTTAGGCCA
Found at i:64481364 original size:14 final size:14
Alignment explanation
Indices: 64481347--64481420 Score: 67
Period size: 14 Copynumber: 5.3 Consensus size: 14
64481337 ATCTAATTAA
* *
64481347 TTTAGGGTTTAAGG
1 TTTATGGTTTAGGG
*
64481361 TTTATGATTTAGGG
1 TTTATGGTTTAGGG
* *
64481375 TTTGTGGTTTAGGA
1 TTTATGGTTTAGGG
* * * *
64481389 TTTAAGGATTATGA
1 TTTATGGTTTAGGG
64481403 TTTATGGTTTAGGG
1 TTTATGGTTTAGGG
64481417 TTTA
1 TTTA
64481421 AAATTTTAGG
Statistics
Matches: 46, Mismatches: 14, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
14 46 1.00
ACGTcount: A:0.22, C:0.00, G:0.30, T:0.49
Consensus pattern (14 bp):
TTTATGGTTTAGGG
Found at i:64481370 original size:21 final size:21
Alignment explanation
Indices: 64481346--64481421 Score: 80
Period size: 21 Copynumber: 3.6 Consensus size: 21
64481336 TATCTAATTA
64481346 ATTTAGGGTTTAAGGTTTATG
1 ATTTAGGGTTTAAGGTTTATG
** *
64481367 ATTTAGGGTTTGTGGTTTAGG
1 ATTTAGGGTTTAAGGTTTATG
* * * *
64481388 ATTTAAGGATTATGATTTATG
1 ATTTAGGGTTTAAGGTTTATG
*
64481409 GTTTAGGGTTTAA
1 ATTTAGGGTTTAA
64481422 AATTTTAGGT
Statistics
Matches: 43, Mismatches: 12, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
21 43 1.00
ACGTcount: A:0.24, C:0.00, G:0.29, T:0.47
Consensus pattern (21 bp):
ATTTAGGGTTTAAGGTTTATG
Found at i:64483120 original size:31 final size:31
Alignment explanation
Indices: 64483082--64483145 Score: 110
Period size: 31 Copynumber: 2.1 Consensus size: 31
64483072 CCTTTTCATA
64483082 TTTCATATTTCATAACACTGGGCCGAAGCCT
1 TTTCATATTTCATAACACTGGGCCGAAGCCT
**
64483113 TTTCATATTTCATATTACTGGGCCGAAGCCT
1 TTTCATATTTCATAACACTGGGCCGAAGCCT
64483144 TT
1 TT
64483146 ACTGTAAACG
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.23, C:0.23, G:0.16, T:0.38
Consensus pattern (31 bp):
TTTCATATTTCATAACACTGGGCCGAAGCCT
Found at i:64483390 original size:24 final size:24
Alignment explanation
Indices: 64483339--64483455 Score: 170
Period size: 23 Copynumber: 5.0 Consensus size: 24
64483329 GCTTTATCAT
*
64483339 ATAACTGGAGGCCT-AGCCTCTTTTA
1 ATAACTGG-GGCATAAGCC-CTTTTA
*
64483364 ATAACTGGGGCAAAAGCCCTTTTA
1 ATAACTGGGGCATAAGCCCTTTTA
64483388 ATAACTGGGGCATAAGCCC-TTTA
1 ATAACTGGGGCATAAGCCCTTTTA
64483411 ATAACTGGGGCATAAGCCC-TTTA
1 ATAACTGGGGCATAAGCCCTTTTA
64483434 ATAACT-GGGCATAAGCCCTTTT
1 ATAACTGGGGCATAAGCCCTTTT
64483456 TCACTTCCTC
Statistics
Matches: 87, Mismatches: 3, Indels: 6
0.91 0.03 0.06
Matches are distributed among these distances:
22 12 0.14
23 36 0.41
24 27 0.31
25 12 0.14
ACGTcount: A:0.29, C:0.22, G:0.21, T:0.28
Consensus pattern (24 bp):
ATAACTGGGGCATAAGCCCTTTTA
Found at i:64483414 original size:47 final size:45
Alignment explanation
Indices: 64483360--64483454 Score: 163
Period size: 47 Copynumber: 2.1 Consensus size: 45
64483350 CCTAGCCTCT
64483360 TTTAATAACTGGGGCAAAAGCCCTTTTAATAACTGGGGCATAAGCCC
1 TTTAATAACTGGGGCAAAAGCCC-TTTAATAACT-GGGCATAAGCCC
*
64483407 TTTAATAACTGGGGCATAAGCCCTTTAATAACTGGGCATAAGCCC
1 TTTAATAACTGGGGCAAAAGCCCTTTAATAACTGGGCATAAGCCC
64483452 TTT
1 TTT
64483455 TTCACTTCCT
Statistics
Matches: 47, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
45 15 0.32
46 10 0.21
47 22 0.47
ACGTcount: A:0.31, C:0.21, G:0.20, T:0.28
Consensus pattern (45 bp):
TTTAATAACTGGGGCAAAAGCCCTTTAATAACTGGGCATAAGCCC
Found at i:64483530 original size:20 final size:20
Alignment explanation
Indices: 64483505--64483571 Score: 116
Period size: 20 Copynumber: 3.4 Consensus size: 20
64483495 TTATGATTAC
64483505 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
64483525 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
*
64483545 GTCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
*
64483565 ACCATGT
1 ATCATGT
64483572 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:64483536 original size:11 final size:11
Alignment explanation
Indices: 64483505--64483560 Score: 57
Period size: 11 Copynumber: 5.5 Consensus size: 11
64483495 TTATGATTAC
64483505 ATCATGTGCAT
1 ATCATGTGCAT
*
64483516 ATCA--TACAT
1 ATCATGTGCAT
64483525 ATCATGTGCAT
1 ATCATGTGCAT
*
64483536 ATCA--TACAT
1 ATCATGTGCAT
*
64483545 GTCATGTGCAT
1 ATCATGTGCAT
64483556 ATCAT
1 ATCAT
64483561 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:64484737 original size:12 final size:12
Alignment explanation
Indices: 64484712--64484747 Score: 54
Period size: 12 Copynumber: 3.0 Consensus size: 12
64484702 GCTGGTTTGA
*
64484712 AAGAAGAGAAGG
1 AAGAAGAGATGG
*
64484724 AAGAAAAGATGG
1 AAGAAGAGATGG
64484736 AAGAAGAGATGG
1 AAGAAGAGATGG
64484748 TAGATTCGGC
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.56, C:0.00, G:0.39, T:0.06
Consensus pattern (12 bp):
AAGAAGAGATGG
Found at i:64491190 original size:31 final size:31
Alignment explanation
Indices: 64491152--64491215 Score: 110
Period size: 31 Copynumber: 2.1 Consensus size: 31
64491142 CCTTTTCATA
64491152 TTTCATATTTCATAACACTGGGCCGAAGCCT
1 TTTCATATTTCATAACACTGGGCCGAAGCCT
**
64491183 TTTCATATTTCATATTACTGGGCCGAAGCCT
1 TTTCATATTTCATAACACTGGGCCGAAGCCT
64491214 TT
1 TT
64491216 ACTGTAAACG
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.23, C:0.23, G:0.16, T:0.38
Consensus pattern (31 bp):
TTTCATATTTCATAACACTGGGCCGAAGCCT
Found at i:64491484 original size:23 final size:23
Alignment explanation
Indices: 64491409--64491525 Score: 164
Period size: 23 Copynumber: 5.0 Consensus size: 23
64491399 GCTTTATCAT
*
64491409 ATAACTGGAGGCCT-AGCCTCTTTGA
1 ATAACTGG-GGCATAAGCC-CTTT-A
* *
64491434 ATAACTGGGGTAAAAGCCCTTTTA
1 ATAACTGGGGCATAAGCCC-TTTA
64491458 ATAACTGGGGCATAAGCCCTTTA
1 ATAACTGGGGCATAAGCCCTTTA
64491481 ATAACTGGGGCATAAGCCCTTTA
1 ATAACTGGGGCATAAGCCCTTTA
64491504 ATAACTGGGGCATAAGCCCTTT
1 ATAACTGGGGCATAAGCCCTTT
64491526 TTCACTCCTC
Statistics
Matches: 85, Mismatches: 5, Indels: 6
0.89 0.05 0.06
Matches are distributed among these distances:
23 49 0.58
24 21 0.25
25 15 0.18
ACGTcount: A:0.29, C:0.21, G:0.22, T:0.27
Consensus pattern (23 bp):
ATAACTGGGGCATAAGCCCTTTA
Found at i:64491600 original size:20 final size:20
Alignment explanation
Indices: 64491575--64491641 Score: 116
Period size: 20 Copynumber: 3.4 Consensus size: 20
64491565 TTATGATTAC
64491575 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
64491595 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
*
64491615 GTCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
*
64491635 ACCATGT
1 ATCATGT
64491642 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:64491606 original size:11 final size:11
Alignment explanation
Indices: 64491575--64491630 Score: 57
Period size: 11 Copynumber: 5.5 Consensus size: 11
64491565 TTATGATTAC
64491575 ATCATGTGCAT
1 ATCATGTGCAT
*
64491586 ATCA--TACAT
1 ATCATGTGCAT
64491595 ATCATGTGCAT
1 ATCATGTGCAT
*
64491606 ATCA--TACAT
1 ATCATGTGCAT
*
64491615 GTCATGTGCAT
1 ATCATGTGCAT
64491626 ATCAT
1 ATCAT
64491631 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:64491710 original size:25 final size:25
Alignment explanation
Indices: 64491678--64491725 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
64491668 ATACATAAAC
* * *
64491678 CCTAGGGGTATAATGGTCATTTTTA
1 CCTAGGGGCAAAACGGTCATTTTTA
64491703 CCTAGGGGCAAAACGGTCATTTT
1 CCTAGGGGCAAAACGGTCATTTT
64491726 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:0.25, T:0.33
Consensus pattern (25 bp):
CCTAGGGGCAAAACGGTCATTTTTA
Found at i:64498365 original size:2 final size:2
Alignment explanation
Indices: 64498358--64498397 Score: 53
Period size: 2 Copynumber: 20.0 Consensus size: 2
64498348 ATAATAATAC
* * *
64498358 TA TA TA TA AA AA TA TA TA TA TA TA TA TA TA TA TG TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
64498398 ATAGAAATAC
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.53, C:0.00, G:0.03, T:0.45
Consensus pattern (2 bp):
TA
Found at i:64498424 original size:3 final size:3
Alignment explanation
Indices: 64498418--64498451 Score: 68
Period size: 3 Copynumber: 11.3 Consensus size: 3
64498408 ACACTACTAT
64498418 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
64498452 ATATAGAAAT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:64498654 original size:3 final size:3
Alignment explanation
Indices: 64498646--64498878 Score: 101
Period size: 3 Copynumber: 75.3 Consensus size: 3
64498636 AATAGGGGTG
64498646 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA CA-A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA -ATA
* * * *
64498691 ACA ATA ATA CATA TATA TATA ATA ATA GTA GTCA AAA ATA A-A A-A ATA
1 ATA ATA ATA -ATA -ATA -ATA ATA ATA ATA AT-A ATA ATA ATA ATA ATA
* * * * *
64498738 ATA GA-A GTA ACA ACA ATG ATA GTA ATA AT- ATAA ATA A-A TATGGA
1 ATA -ATA ATA ATA ATA ATA ATA ATA ATA ATA AT-A ATA ATA -AT--A
** *
64498782 GAGG GT- ATA TATA AT- ATA ATA ATA AT- ATAA ATA ATA ATA TATA CATGA
1 -ATA ATA ATA -ATA ATA ATA ATA ATA ATA AT-A ATA ATA ATA -ATA -AT-A
* *
64498830 GA-A ATA ATA ATA ATA ATA AT- ATAA ATA ATA GTA AAA ATA ATA ATA
1 -ATA ATA ATA ATA ATA ATA ATA AT-A ATA ATA ATA ATA ATA ATA ATA
64498875 ATA A
1 ATA A
64498879 AAAAACAAAG
Statistics
Matches: 181, Mismatches: 26, Indels: 46
0.72 0.10 0.18
Matches are distributed among these distances:
2 16 0.09
3 134 0.74
4 27 0.15
5 2 0.01
6 2 0.01
ACGTcount: A:0.61, C:0.03, G:0.06, T:0.29
Consensus pattern (3 bp):
ATA
Found at i:64499412 original size:30 final size:30
Alignment explanation
Indices: 64499378--64499493 Score: 189
Period size: 30 Copynumber: 3.9 Consensus size: 30
64499368 ATTTGATGGT
64499378 GTAGGTGCAAGTGGGAGACAAGGTGGTGGA
1 GTAGGTGCAAGTGGGAGACAAGGTGGTGGA
*
64499408 GTAGGTGCAAGTGGGAGGCAAGGTGGTGGA
1 GTAGGTGCAAGTGGGAGACAAGGTGGTGGA
*
64499438 GTAGGTGCAAGTGGGAGGCAAGGTGGTGGA
1 GTAGGTGCAAGTGGGAGACAAGGTGGTGGA
*
64499468 GTAGGTACAAGTGGGA-AGCAAGGTGG
1 GTAGGTGCAAGTGGGAGA-CAAGGTGG
64499494 CTAGGGTTTT
Statistics
Matches: 82, Mismatches: 3, Indels: 2
0.94 0.03 0.02
Matches are distributed among these distances:
30 82 1.00
ACGTcount: A:0.26, C:0.07, G:0.51, T:0.16
Consensus pattern (30 bp):
GTAGGTGCAAGTGGGAGACAAGGTGGTGGA
Found at i:64499461 original size:18 final size:18
Alignment explanation
Indices: 64499410--64499462 Score: 55
Period size: 18 Copynumber: 3.3 Consensus size: 18
64499400 GTGGTGGAGT
64499410 AGGTGCAAGTGGGAGGCA
1 AGGTGCAAGTGGGAGGCA
*
64499428 AGGTG---GT-GGA-G-T
1 AGGTGCAAGTGGGAGGCA
64499440 AGGTGCAAGTGGGAGGCA
1 AGGTGCAAGTGGGAGGCA
64499458 AGGTG
1 AGGTG
64499463 GTGGAGTAGG
Statistics
Matches: 27, Mismatches: 2, Indels: 12
0.66 0.05 0.29
Matches are distributed among these distances:
12 5 0.19
13 1 0.04
14 3 0.11
15 4 0.15
16 3 0.11
17 1 0.04
18 10 0.37
ACGTcount: A:0.25, C:0.08, G:0.53, T:0.15
Consensus pattern (18 bp):
AGGTGCAAGTGGGAGGCA
Found at i:64500200 original size:87 final size:87
Alignment explanation
Indices: 64500053--64500665 Score: 885
Period size: 87 Copynumber: 7.1 Consensus size: 87
64500043 TTAGGGTTTG
* ** * *
64500053 TAAATTTAACCTGTTACCCTACTGCTTAGGGGTTTAAGGCTTATCGTCTTTGATCTGTTTCCCTA
1 TAAATTCAACCTGTTACCCTACTGCTTAGGGGTTTAAGGCCCATCGCCTTCGATCTGTTTCCCTA
*
64500118 CTGCTTAGGGGGTTAAGAACTA
66 CTGCTTAGGGGGTTAAGATCTA
* * *
64500140 TAAATTCAGCCTGTTACCCTACTGCTTAGGGGTTTAAGGCCCATCGCCTTCAATCCGTTTCCCTA
1 TAAATTCAACCTGTTACCCTACTGCTTAGGGGTTTAAGGCCCATCGCCTTCGATCTGTTTCCCTA
64500205 CTGCTTAGGGGGTTAAGATCTA
66 CTGCTTAGGGGGTTAAGATCTA
* * *
64500227 TAAATTCAGCCTGTTACCCTACTGCTTAGGGG-TTAAAGTCCATCGCCTTCGATCTGTTTCCCTA
1 TAAATTCAACCTGTTACCCTACTGCTTAGGGGTTTAAGGCCCATCGCCTTCGATCTGTTTCCCTA
*
64500291 CTGCTTAGGGGGTTAAGATCTG
66 CTGCTTAGGGGGTTAAGATCTA
* **
64500313 TAAATTCAACCTGTTACCCTACTGCTTAGGGGTTTAAGGTCCATCATCTTCGATCTGTTTCCCTA
1 TAAATTCAACCTGTTACCCTACTGCTTAGGGGTTTAAGGCCCATCGCCTTCGATCTGTTTCCCTA
*
64500378 CTGCTTA-GGGGTTAAGATCTG
66 CTGCTTAGGGGGTTAAGATCTA
* * * *
64500399 TAAATTTAATCTGCTACCCTACTGCTTAGGGGGTTAAGG-CCATCGCCTTCGATCTGTTTCCCTA
1 TAAATTCAACCTGTTACCCTACTGCTTAGGGGTTTAAGGCCCATCGCCTTCGATCTGTTTCCCTA
64500463 CTGCTTAGGGGGTTAAGATCTA
66 CTGCTTAGGGGGTTAAGATCTA
** *
64500485 TAAATTCAACCTGTTACCCTACTGCTTAGGGGTTTAAGGCCCATCATCTTTGATCTGTTTCCCTA
1 TAAATTCAACCTGTTACCCTACTGCTTAGGGGTTTAAGGCCCATCGCCTTCGATCTGTTTCCCTA
* *
64500550 CTGCTTAGGGGGTTAAGATATG
66 CTGCTTAGGGGGTTAAGATCTA
* * * * * *
64500572 TAAATTTAGCCTGCTACCCTACTGCTTAGGGGGTTAAGG-CTATCGCCTTCGATCTG-CTCCACT
1 TAAATTCAACCTGTTACCCTACTGCTTAGGGGTTTAAGGCCCATCGCCTTCGATCTGTTTCC-CT
*
64500635 ACTGCTTAGGGGGATAAGATCTA
65 ACTGCTTAGGGGGTTAAGATCTA
64500658 TAAATTCA
1 TAAATTCA
64500666 CTGATTCTAG
Statistics
Matches: 475, Mismatches: 47, Indels: 9
0.89 0.09 0.02
Matches are distributed among these distances:
85 33 0.07
86 219 0.46
87 223 0.47
ACGTcount: A:0.22, C:0.23, G:0.21, T:0.34
Consensus pattern (87 bp):
TAAATTCAACCTGTTACCCTACTGCTTAGGGGTTTAAGGCCCATCGCCTTCGATCTGTTTCCCTA
CTGCTTAGGGGGTTAAGATCTA
Found at i:64500629 original size:43 final size:43
Alignment explanation
Indices: 64500063--64500652 Score: 412
Period size: 43 Copynumber: 13.7 Consensus size: 43
64500053 TAAATTTAAC
* ** *
64500063 CTGTTACCCTACTGCTTAGGGGTTTAAGGCTTATCGTCTTTGAT
1 CTGTTACCCTACTGCTTAGGGGGTTAAGGC-TATCAACTTCGAT
* * * *
64500107 CTGTTTCCCTACTGCTTAGGGGGTTAAGAACTAT-AAATTC-AGC
1 CTGTTACCCTACTGCTTAGGGGGTTAAG-GCTATCAACTTCGA-T
* * ** *
64500150 CTGTTACCCTACTGCTTAGGGGTTTAAGGCCCATCGCCTTCAAT
1 CTGTTACCCTACTGCTTAGGGGGTTAAGG-CTATCAACTTCGAT
* * * * *
64500194 CCGTTTCCCTACTGCTTAGGGGGTTAAGATCTAT-AAATTC-AGC
1 CTGTTACCCTACTGCTTAGGGGGTTAAG-GCTATCAACTTCGA-T
* * **
64500237 CTGTTACCCTACTGCTTA-GGGGTTAAAGTCCATCGCCTTCGAT
1 CTGTTACCCTACTGCTTAGGGGGTT-AAGGCTATCAACTTCGAT
* * * * * *
64500280 CTGTTTCCCTACTGCTTAGGGGGTTAAGATCTGT-AAATTCAAC
1 CTGTTACCCTACTGCTTAGGGGGTTAAG-GCTATCAACTTCGAT
* * *
64500323 CTGTTACCCTACTGCTTAGGGGTTTAAGGTCCATCATCTTCGAT
1 CTGTTACCCTACTGCTTAGGGGGTTAAGG-CTATCAACTTCGAT
* * * * **
64500367 CTGTTTCCCTACTGCTTA-GGGGTTAAGATCTGT-AAATTTAAT
1 CTGTTACCCTACTGCTTAGGGGGTTAAG-GCTATCAACTTCGAT
* * **
64500409 CTGCTACCCTACTGCTTAGGGGGTTAAGGCCATCGCCTTCGAT
1 CTGTTACCCTACTGCTTAGGGGGTTAAGGCTATCAACTTCGAT
* * * * *
64500452 CTGTTTCCCTACTGCTTAGGGGGTTAAGATCTAT-AAATTCAAC
1 CTGTTACCCTACTGCTTAGGGGGTTAAG-GCTATCAACTTCGAT
* * * *
64500495 CTGTTACCCTACTGCTTAGGGGTTTAAGGCCCATCATCTTTGAT
1 CTGTTACCCTACTGCTTAGGGGGTTAAGG-CTATCAACTTCGAT
* * * * * *
64500539 CTGTTTCCCTACTGCTTAGGGGGTTAA-GATATGTAAATT-TAGC
1 CTGTTACCCTACTGCTTAGGGGGTTAAGGCTAT-CAACTTCGA-T
* **
64500582 CTGCTACCCTACTGCTTAGGGGGTTAAGGCTATCGCCTTCGAT
1 CTGTTACCCTACTGCTTAGGGGGTTAAGGCTATCAACTTCGAT
* *
64500625 CTGCT-CCACTACTGCTTAGGGGGATAAG
1 CTGTTACC-CTACTGCTTAGGGGGTTAAG
64500653 ATCTATAAAT
Statistics
Matches: 416, Mismatches: 105, Indels: 51
0.73 0.18 0.09
Matches are distributed among these distances:
42 40 0.10
43 245 0.59
44 129 0.31
45 2 0.00
ACGTcount: A:0.21, C:0.24, G:0.22, T:0.34
Consensus pattern (43 bp):
CTGTTACCCTACTGCTTAGGGGGTTAAGGCTATCAACTTCGAT
Found at i:64508941 original size:30 final size:30
Alignment explanation
Indices: 64508905--64508962 Score: 116
Period size: 30 Copynumber: 1.9 Consensus size: 30
64508895 ACATCGGCTT
64508905 GTACTGCTAACGTTTGCAAGTGATCAGCAA
1 GTACTGCTAACGTTTGCAAGTGATCAGCAA
64508935 GTACTGCTAACGTTTGCAAGTGATCAGC
1 GTACTGCTAACGTTTGCAAGTGATCAGC
64508963 CACTTCTCGT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.28, C:0.21, G:0.24, T:0.28
Consensus pattern (30 bp):
GTACTGCTAACGTTTGCAAGTGATCAGCAA
Found at i:64512819 original size:30 final size:32
Alignment explanation
Indices: 64512785--64512850 Score: 82
Period size: 36 Copynumber: 2.0 Consensus size: 32
64512775 TGGAGAGTGT
64512785 ATATATA-AT-ATAATAATAATATAAATAATA
1 ATATATACATAATAATAATAATATAAATAATA
64512815 ATATATACATGAGAAATAATAATAATATAAATAATA
1 ATATATACAT----AATAATAATAATATAAATAATA
64512851 GTAAAAATAA
Statistics
Matches: 30, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
30 7 0.23
31 2 0.07
36 21 0.70
ACGTcount: A:0.62, C:0.02, G:0.03, T:0.33
Consensus pattern (32 bp):
ATATATACATAATAATAATAATATAAATAATA
Found at i:64512870 original size:7 final size:8
Alignment explanation
Indices: 64512853--64512878 Score: 52
Period size: 8 Copynumber: 3.2 Consensus size: 8
64512843 AAATAATAGT
64512853 AAAAATAA
1 AAAAATAA
64512861 AAAAATAA
1 AAAAATAA
64512869 AAAAATAA
1 AAAAATAA
64512877 AA
1 AA
64512879 CAAAGCTCTC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 18 1.00
ACGTcount: A:0.88, C:0.00, G:0.00, T:0.12
Consensus pattern (8 bp):
AAAAATAA
Found at i:64513409 original size:30 final size:30
Alignment explanation
Indices: 64513373--64513458 Score: 136
Period size: 30 Copynumber: 2.9 Consensus size: 30
64513363 ATTTGATGGC
*
64513373 GTAGGTGCAAGTGGGAGGCAAGGTGGTGGA
1 GTAGGTGCAAGTGGGAGGCAAGGTGGTAGA
64513403 GTAGGTGCAAGTGGGAGGCAAGGTGGTAGA
1 GTAGGTGCAAGTGGGAGGCAAGGTGGTAGA
* * *
64513433 GTAGGTACAAGTGGGAAGCAAAGTGG
1 GTAGGTGCAAGTGGGAGGCAAGGTGG
64513459 CTAGGGTTGT
Statistics
Matches: 52, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 52 1.00
ACGTcount: A:0.28, C:0.07, G:0.49, T:0.16
Consensus pattern (30 bp):
GTAGGTGCAAGTGGGAGGCAAGGTGGTAGA
Found at i:64513426 original size:18 final size:18
Alignment explanation
Indices: 64513375--64513427 Score: 55
Period size: 18 Copynumber: 3.3 Consensus size: 18
64513365 TTGATGGCGT
64513375 AGGTGCAAGTGGGAGGCA
1 AGGTGCAAGTGGGAGGCA
*
64513393 AGGTG---GT-GGA-G-T
1 AGGTGCAAGTGGGAGGCA
64513405 AGGTGCAAGTGGGAGGCA
1 AGGTGCAAGTGGGAGGCA
64513423 AGGTG
1 AGGTG
64513428 GTAGAGTAGG
Statistics
Matches: 27, Mismatches: 2, Indels: 12
0.66 0.05 0.29
Matches are distributed among these distances:
12 5 0.19
13 1 0.04
14 3 0.11
15 4 0.15
16 3 0.11
17 1 0.04
18 10 0.37
ACGTcount: A:0.25, C:0.08, G:0.53, T:0.15
Consensus pattern (18 bp):
AGGTGCAAGTGGGAGGCA
Found at i:64516377 original size:26 final size:24
Alignment explanation
Indices: 64516331--64516380 Score: 64
Period size: 26 Copynumber: 2.0 Consensus size: 24
64516321 ATTTGTTTTA
* *
64516331 ATATTTGTTTTTATGTTTTTAAAT
1 ATATTTGTTTTTATATATTTAAAT
64516355 ATATTTGATTTATTATATATTTAAAT
1 ATATTTG-TTT-TTATATATTTAAAT
64516381 TTTTTTATTT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
24 7 0.32
25 3 0.14
26 12 0.55
ACGTcount: A:0.32, C:0.00, G:0.06, T:0.62
Consensus pattern (24 bp):
ATATTTGTTTTTATATATTTAAAT
Found at i:64517717 original size:36 final size:36
Alignment explanation
Indices: 64517623--64518038 Score: 275
Period size: 36 Copynumber: 11.5 Consensus size: 36
64517613 CGTGTTTATT
* ** * * *
64517623 CCAACCTTTTT-AAGATTGTTTTAAACGGGTTTATC
1 CCAACCTTTTTAAAGGTTGCCTTAGACAGGTCTATC
* * * *
64517658 CCAATC-TTTTAAAGGCTACCTTAGACTGGTCTATC
1 CCAACCTTTTTAAAGGTTGCCTTAGACAGGTCTATC
* *
64517693 CCAACCTTTTTAAAAGTTGTCTTAGACAAGG-CATATC
1 CCAACCTTTTTAAAGGTTGCCTTAGAC-AGGTC-TATC
* ** * *
64517730 CTAACCTTTTT-AAGGTTGTATTAGAC-GGCTTTGTC
1 CCAACCTTTTTAAAGGTTGCCTTAGACAGG-TCTATC
*
64517765 TCAACCTTTTTAAAGGTTGCCTTAGACAAGGTCTATC
1 CCAACCTTTTTAAAGGTTGCCTTAGAC-AGGTCTATC
* * *
64517802 TCAACCTTTTT-AGGGTTGCTTTAGAC-GAGTCTATC
1 CCAACCTTTTTAAAGGTTGCCTTAGACAG-GTCTATC
** * * * *
64517837 CCAAATTTTTTTAAGGGCTACCTTAGACAAGGTTTATC
1 CC-AACCTTTTTAAAGGTTGCCTTAGAC-AGGTCTATC
* * *
64517875 CCAA--TTGTCTT-AAGGTTACCTTAAACAAGTCTATC
1 CCAACCTT-T-TTAAAGGTTGCCTTAGACAGGTCTATC
*
64517910 CCAACCTTTTTTAATGGTTGCCTTAGACAAGGTCTATC
1 CCAACC-TTTTTAAAGGTTGCCTTAGAC-AGGTCTATC
*
64517948 CCAACCTTTTT-AAGGTTACCTTA-A-ATGAGTCTAT-
1 CCAACCTTTTTAAAGGTTGCCTTAGACA-G-GTCTATC
* **
64517982 CCAACCTTTTTTAAGGGTTGCCTTAGATTGGTCTATC
1 CCAACC-TTTTTAAAGGTTGCCTTAGACAGGTCTATC
*
64518019 CCAACATTTTTTAAAGGTTG
1 CCAAC-CTTTTTAAAGGTTG
64518039 GCATTGACTA
Statistics
Matches: 301, Mismatches: 51, Indels: 56
0.74 0.12 0.14
Matches are distributed among these distances:
33 1 0.00
34 14 0.05
35 71 0.24
36 104 0.35
37 84 0.28
38 26 0.09
39 1 0.00
ACGTcount: A:0.26, C:0.21, G:0.16, T:0.38
Consensus pattern (36 bp):
CCAACCTTTTTAAAGGTTGCCTTAGACAGGTCTATC
Found at i:64517754 original size:72 final size:70
Alignment explanation
Indices: 64517678--64518038 Score: 291
Period size: 73 Copynumber: 5.0 Consensus size: 70
64517668 AAAGGCTACC
* * *
64517678 TTAGACTGGTCTATCCCAACCTTTTTAAAAGTTGTCTTAGACAAGG-CATATCCTAACCTTTTTA
1 TTAGAC-GGTCTATCCCAACCTTTTTAAAGGTTGCCTTAGACAAGGTC-TATCCCAACCTTTTTA
64517742 AGGTTGT
64 AGGTTGT
* * * *
64517749 ATTAGACGGCTTTGTCTCAACCTTTTTAAAGGTTGCCTTAGACAAGGTCTATCTCAACCTTTTTA
1 -TTAGACGG-TCTATCCCAACCTTTTTAAAGGTTGCCTTAGACAAGGTCTATCCCAACCTTTTTA
*
64517814 GGGTTGCT
64 AGGTTG-T
** * * * *
64517822 TTAGACGAGTCTATCCCAAATTTTTTTAAGGGCTACCTTAGACAAGGTTTATCCCAA--TTGTCT
1 TTAGACG-GTCTATCCC-AACCTTTTTAAAGGTTGCCTTAGACAAGGTCTATCCCAACCTT-T-T
**
64517885 TAAGGTTACC
62 TAAGGTT-GT
* * *
64517895 TTAAACAAGTCTATCCCAACCTTTTTTAATGGTTGCCTTAGACAAGGTCTATCCCAACCTTTTTA
1 TTAGAC-GGTCTATCCCAACC-TTTTTAAAGGTTGCCTTAGACAAGGTCTATCCCAACCTTTTTA
**
64517960 AGGTTACC
64 AGGTT-GT
* * * ** *
64517968 TTAAATGAGTCTAT-CCAACCTTTTTTAAGGGTTGCCTTAGA-TTGGTCTATCCCAACATTTTTT
1 TTAGACG-GTCTATCCCAACC-TTTTTAAAGGTTGCCTTAGACAAGGTCTATCCCAAC-CTTTTT
64518031 AAAGGTTG
63 -AAGGTTG
64518039 GCATTGACTA
Statistics
Matches: 238, Mismatches: 36, Indels: 30
0.78 0.12 0.10
Matches are distributed among these distances:
71 17 0.07
72 103 0.43
73 115 0.48
74 1 0.00
75 2 0.01
ACGTcount: A:0.26, C:0.20, G:0.16, T:0.38
Consensus pattern (70 bp):
TTAGACGGTCTATCCCAACCTTTTTAAAGGTTGCCTTAGACAAGGTCTATCCCAACCTTTTTAAG
GTTGT
Found at i:64517777 original size:35 final size:33
Alignment explanation
Indices: 64517624--64517836 Score: 115
Period size: 35 Copynumber: 6.0 Consensus size: 33
64517614 GTGTTTATTC
* * * *
64517624 CAACCTTTTTAAGATTGTTTTAAACGGGTTTATCC
1 CAACCTTTTTAAGGTTG-TTTAGAC-GGTCTATCT
* * *** *
64517659 CAATCTTTTAAAGGCTACCTTAGACTGGTCTATCC
1 CAACCTTTTTAAGG-TTGTTTAGAC-GGTCTATCT
*
64517694 CAACCTTTTTAAAAGTTGTCTTAGACAAGG-CATATC-
1 CAACCTTTTT-AAGGTTGT-TTAGAC--GGTC-TATCT
* *
64517730 CTAACCTTTTTAAGGTTGTATTAGACGGCTTTGTCT
1 C-AACCTTTTTAAGGTTGT-TTAGACGG-TCTATCT
*
64517766 CAACCTTTTTAAAGGTTGCCTTAGACAAGGTCTATCT
1 CAACCTTTTT-AAGGTTG-TTTAGAC--GGTCTATCT
*
64517803 CAACCTTTTTAGGGTTGCTTTAGACGAGTCTATC
1 CAACCTTTTTAAGGTTG-TTTAGACG-GTCTATC
64517837 CCAAATTTTT
Statistics
Matches: 139, Mismatches: 25, Indels: 28
0.72 0.13 0.15
Matches are distributed among these distances:
34 3 0.02
35 52 0.37
36 52 0.37
37 30 0.22
38 2 0.01
ACGTcount: A:0.25, C:0.20, G:0.16, T:0.38
Consensus pattern (33 bp):
CAACCTTTTTAAGGTTGTTTAGACGGTCTATCT
Found at i:64518037 original size:73 final size:73
Alignment explanation
Indices: 64517654--64518029 Score: 356
Period size: 72 Copynumber: 5.2 Consensus size: 73
64517644 TAAACGGGTT
* * * * ** *
64517654 TATCCCAATCTTTTAAAGGCTACCTTAGACTG-GTCTATCCCAACC-TTTTTAAAAGTTGTCTTA
1 TATCCCAACCTTTTTAAGGTTACCTTAAAC-GAGTCTATCCCAACCTTTTTTAAGGGTTGCCTTA
64517717 GACAAGG-C
65 GACAAGGTC
* *** * * * * *
64517725 ATATCCTAACCTTTTTAAGGTTGTATTAGACG-GCTTTGTCTCAACC-TTTTTAAAGGTTGCCTT
1 -TATCCCAACCTTTTTAAGGTTACCTTAAACGAG-TCTATCCCAACCTTTTTTAAGGGTTGCCTT
64517788 AGACAAGGTC
64 AGACAAGGTC
* * * * * ** * *
64517798 TATCTCAACCTTTTTAGGGTTGCTTTAGACGAGTCTATCCCAAATTTTTTTAAGGGCTACCTTAG
1 TATCCCAACCTTTTTAAGGTTACCTTAAACGAGTCTATCCCAACCTTTTTTAAGGGTTGCCTTAG
*
64517863 ACAAGGTT
66 ACAAGGTC
* *
64517871 TATCCCAA--TTGTCTTAAGGTTACCTTAAACAAGTCTATCCCAACCTTTTTTAATGGTTGCCTT
1 TATCCCAACCTT-T-TTAAGGTTACCTTAAACGAGTCTATCCCAACCTTTTTTAAGGGTTGCCTT
64517934 AGACAAGGTC
64 AGACAAGGTC
*
64517944 TATCCCAACCTTTTTAAGGTTACCTTAAATGAGTCTAT-CCAACCTTTTTTAAGGGTTGCCTTAG
1 TATCCCAACCTTTTTAAGGTTACCTTAAACGAGTCTATCCCAACCTTTTTTAAGGGTTGCCTTAG
**
64518008 A-TTGGTC
66 ACAAGGTC
*
64518015 TATCCCAACATTTTT
1 TATCCCAACCTTTTT
64518030 TAAAGGTTGG
Statistics
Matches: 252, Mismatches: 44, Indels: 17
0.81 0.14 0.05
Matches are distributed among these distances:
71 22 0.09
72 115 0.46
73 112 0.44
74 1 0.00
75 2 0.01
ACGTcount: A:0.26, C:0.22, G:0.15, T:0.38
Consensus pattern (73 bp):
TATCCCAACCTTTTTAAGGTTACCTTAAACGAGTCTATCCCAACCTTTTTTAAGGGTTGCCTTAG
ACAAGGTC
Found at i:64524575 original size:30 final size:30
Alignment explanation
Indices: 64524453--64524582 Score: 160
Period size: 29 Copynumber: 4.5 Consensus size: 30
64524443 ATAGTGAATC
* *
64524453 CGCACACTTAGTGCTATAT-ATTTTCAGCT
1 CGCACACTTAGTGCTATATAATTTTAAACT
* *
64524482 CGCACACTTAGTGCTA-ATAATTTTCAGCT
1 CGCACACTTAGTGCTATATAATTTTAAACT
*
64524511 CGCACACTTAGTGCTATATAA--TCAAACT
1 CGCACACTTAGTGCTATATAATTTTAAACT
* * *
64524539 CGCACACTTAGTGCTGTACAATTTTAAACC
1 CGCACACTTAGTGCTATATAATTTTAAACT
64524569 CGCACACTTAGTGC
1 CGCACACTTAGTGC
64524583 CAATCTTGTC
Statistics
Matches: 90, Mismatches: 7, Indels: 7
0.87 0.07 0.07
Matches are distributed among these distances:
28 25 0.28
29 42 0.47
30 23 0.26
ACGTcount: A:0.28, C:0.26, G:0.14, T:0.32
Consensus pattern (30 bp):
CGCACACTTAGTGCTATATAATTTTAAACT
Found at i:64526317 original size:10 final size:10
Alignment explanation
Indices: 64526299--64526346 Score: 62
Period size: 10 Copynumber: 4.8 Consensus size: 10
64526289 ATTTTGGGAT
*
64526299 TTATTTTTAA
1 TTATCTTTAA
64526309 TTATCTTTAA
1 TTATCTTTAA
64526319 TTATCTTTAA
1 TTATCTTTAA
*
64526329 TTAT-TTGTAT
1 TTATCTT-TAA
64526339 TTATCTTT
1 TTATCTTT
64526347 TAGAATTTAA
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
9 2 0.06
10 30 0.88
11 2 0.06
ACGTcount: A:0.25, C:0.06, G:0.02, T:0.67
Consensus pattern (10 bp):
TTATCTTTAA
Found at i:64527894 original size:20 final size:20
Alignment explanation
Indices: 64527865--64527970 Score: 77
Period size: 20 Copynumber: 5.3 Consensus size: 20
64527855 TACCAACGTA
64527865 CAAACAGGGGCACGTATGTG
1 CAAACAGGGGCACGTATGTG
* * ** * *
64527885 CAATCAGGGGTACCAAAGTA
1 CAAACAGGGGCACGTATGTG
* * *
64527905 CAAACAGAGGCATGTATATG
1 CAAACAGGGGCACGTATGTG
* * ** * *
64527925 CAATCAGGGGTACCAAAGTA
1 CAAACAGGGGCACGTATGTG
64527945 CAAACAGGGGCACGTATGTG
1 CAAACAGGGGCACGTATGTG
64527965 CAAACA
1 CAAACA
64527971 AATAATAATT
Statistics
Matches: 56, Mismatches: 30, Indels: 0
0.65 0.35 0.00
Matches are distributed among these distances:
20 56 1.00
ACGTcount: A:0.38, C:0.20, G:0.27, T:0.15
Consensus pattern (20 bp):
CAAACAGGGGCACGTATGTG
Found at i:64527906 original size:40 final size:40
Alignment explanation
Indices: 64527832--64527967 Score: 195
Period size: 40 Copynumber: 3.5 Consensus size: 40
64527822 GAGCATAAAT
* * * *
64527832 AGGGGCACGAAAGTG-AATCA-CGGTACCAACGTACAAAC
1 AGGGGCACGTATGTGCAATCAGGGGTACCAAAGTACAAAC
64527870 AGGGGCACGTATGTGCAATCAGGGGTACCAAAGTACAAAC
1 AGGGGCACGTATGTGCAATCAGGGGTACCAAAGTACAAAC
* * *
64527910 AGAGGCATGTATATGCAATCAGGGGTACCAAAGTACAAAC
1 AGGGGCACGTATGTGCAATCAGGGGTACCAAAGTACAAAC
64527950 AGGGGCACGTATGTGCAA
1 AGGGGCACGTATGTGCAA
64527968 ACAAATAATA
Statistics
Matches: 86, Mismatches: 10, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
38 13 0.15
39 5 0.06
40 68 0.79
ACGTcount: A:0.37, C:0.20, G:0.29, T:0.15
Consensus pattern (40 bp):
AGGGGCACGTATGTGCAATCAGGGGTACCAAAGTACAAAC
Found at i:64530225 original size:53 final size:53
Alignment explanation
Indices: 64530145--64530277 Score: 146
Period size: 53 Copynumber: 2.5 Consensus size: 53
64530135 TATATTCCCT
* *
64530145 TGATATGACAACAA-ATTGGACAACATCCAATACTCAAATGATATGCT-TTAAAG
1 TGATATGACAACAAGGTT-GACAACATCCAATAC-CAAATGATAAGCTATTAAAG
* * * * *
64530198 TGATATGACAACAAGGTTGAAAACATCCAGTACCCAATGATAAGCTATTCATG
1 TGATATGACAACAAGGTTGACAACATCCAATACCAAATGATAAGCTATTAAAG
*
64530251 TGATATAACAA-AAGGGTTGACAACATC
1 TGATATGACAACAA-GGTTGACAACATC
64530278 TATTATCCAT
Statistics
Matches: 68, Mismatches: 9, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
52 13 0.19
53 53 0.78
54 2 0.03
ACGTcount: A:0.42, C:0.17, G:0.16, T:0.25
Consensus pattern (53 bp):
TGATATGACAACAAGGTTGACAACATCCAATACCAAATGATAAGCTATTAAAG
Found at i:64537282 original size:12 final size:10
Alignment explanation
Indices: 64537247--64537275 Score: 51
Period size: 10 Copynumber: 3.0 Consensus size: 10
64537237 TTTTTGAAAA
64537247 TTAAAAAT-T
1 TTAAAAATAT
64537256 TTAAAAATAT
1 TTAAAAATAT
64537266 TTAAAAATAT
1 TTAAAAATAT
64537276 ATATAAATAA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
9 8 0.42
10 11 0.58
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (10 bp):
TTAAAAATAT
Found at i:64537546 original size:19 final size:20
Alignment explanation
Indices: 64537522--64537562 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 20
64537512 AATAAAAAAA
64537522 TTTTAAA-ACATTCTAATTT
1 TTTTAAATACATTCTAATTT
* *
64537541 TTTTAAATACTTTTTAATTT
1 TTTTAAATACATTCTAATTT
64537561 TT
1 TT
64537563 AGTAAATGCA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
19 7 0.37
20 12 0.63
ACGTcount: A:0.32, C:0.07, G:0.00, T:0.61
Consensus pattern (20 bp):
TTTTAAATACATTCTAATTT
Found at i:64539032 original size:37 final size:37
Alignment explanation
Indices: 64538986--64539060 Score: 150
Period size: 37 Copynumber: 2.0 Consensus size: 37
64538976 ATACTTTGGA
64538986 GGAAGTATTCTAAAAGGCAATTTACGCCTATTATTTG
1 GGAAGTATTCTAAAAGGCAATTTACGCCTATTATTTG
64539023 GGAAGTATTCTAAAAGGCAATTTACGCCTATTATTTG
1 GGAAGTATTCTAAAAGGCAATTTACGCCTATTATTTG
64539060 G
1 G
64539061 CAGCATGACT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.32, C:0.13, G:0.20, T:0.35
Consensus pattern (37 bp):
GGAAGTATTCTAAAAGGCAATTTACGCCTATTATTTG
Found at i:64543087 original size:45 final size:45
Alignment explanation
Indices: 64543023--64543113 Score: 164
Period size: 45 Copynumber: 2.0 Consensus size: 45
64543013 TATCATCTAC
64543023 ACCGATCACAAAAGCCTCAAATATCTCCTTACTCAAAAAGAGTTG
1 ACCGATCACAAAAGCCTCAAATATCTCCTTACTCAAAAAGAGTTG
* *
64543068 ACCGATCACAAAAGCCTCAAATATCTCCTTACTCAGAAGGAGTTG
1 ACCGATCACAAAAGCCTCAAATATCTCCTTACTCAAAAAGAGTTG
64543113 A
1 A
64543114 ATCTTAGACA
Statistics
Matches: 44, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
45 44 1.00
ACGTcount: A:0.38, C:0.26, G:0.13, T:0.22
Consensus pattern (45 bp):
ACCGATCACAAAAGCCTCAAATATCTCCTTACTCAAAAAGAGTTG
Found at i:64547617 original size:16 final size:16
Alignment explanation
Indices: 64547598--64547636 Score: 71
Period size: 16 Copynumber: 2.5 Consensus size: 16
64547588 ATGAAAACTG
64547598 CAAGTTTTGAAAGTGA
1 CAAGTTTTGAAAGTGA
64547614 CAAGTTTTGAAAGTGA
1 CAAGTTTTGAAAGTGA
64547630 CAA-TTTT
1 CAAGTTTT
64547637 CTCCAAGTCA
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
15 4 0.17
16 19 0.83
ACGTcount: A:0.36, C:0.08, G:0.21, T:0.36
Consensus pattern (16 bp):
CAAGTTTTGAAAGTGA
Found at i:64553034 original size:30 final size:30
Alignment explanation
Indices: 64552975--64553034 Score: 75
Period size: 30 Copynumber: 2.0 Consensus size: 30
64552965 ATTTACGACC
*
64552975 CTAGAGGTAAAATCGTAATTTTGTAAAAAT
1 CTAGAGGTAAAATCGTAATTTTGCAAAAAT
* * * *
64553005 CTAGGGGTAAAATGGTCATTTTGCCAAAAT
1 CTAGAGGTAAAATCGTAATTTTGCAAAAAT
64553035 ATGAATTATG
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.38, C:0.10, G:0.20, T:0.32
Consensus pattern (30 bp):
CTAGAGGTAAAATCGTAATTTTGCAAAAAT
Found at i:64553530 original size:96 final size:96
Alignment explanation
Indices: 64553362--64553624 Score: 280
Period size: 96 Copynumber: 2.7 Consensus size: 96
64553352 TATGTGAGCT
* * * * * *
64553362 AGTGTAAGATCATGTCTGGGACATGGCATC-G-ATCACATTATGAGAACTAGTGTAAGACCATGT
1 AGTGTAAGACCATGTCTGGGACATGGAATCGGCATC-GA-TATGTGAGCCAGTGTAAGACCATGT
* * * ** *
64553425 TTGGAACATGGCATCGGCAATGTTATGACAGCC
64 CTGGGACATGACATCGGCAACATTATGAAAGCC
* * * ***
64553458 AGTGTAAGACCATGTCTGGTACAT-GACATCGGCATTGATATGTGCGTTGGTGTAAGACCATGTC
1 AGTGTAAGACCATGTCTGGGACATGGA-ATCGGCATCGATATGTGAGCCAGTGTAAGACCATGTC
*
64553522 TGGGACATGACATCGGCCACATTATGAAAGCC
65 TGGGACATGACATCGGCAACATTATGAAAGCC
* * *
64553554 AGTGTAAGACCATGTCTGGGACATGGAATTGGCCTCGATATGTGAGCCAGTGTAAGTCCATGTCT
1 AGTGTAAGACCATGTCTGGGACATGGAATCGGCATCGATATGTGAGCCAGTGTAAGACCATGTCT
64553619 GGGACA
66 GGGACA
64553625 CAACATCAGC
Statistics
Matches: 137, Mismatches: 26, Indels: 8
0.80 0.15 0.05
Matches are distributed among these distances:
95 1 0.01
96 130 0.95
97 4 0.03
98 2 0.01
ACGTcount: A:0.28, C:0.19, G:0.28, T:0.26
Consensus pattern (96 bp):
AGTGTAAGACCATGTCTGGGACATGGAATCGGCATCGATATGTGAGCCAGTGTAAGACCATGTCT
GGGACATGACATCGGCAACATTATGAAAGCC
Found at i:64553602 original size:48 final size:48
Alignment explanation
Indices: 64553350--64553624 Score: 218
Period size: 48 Copynumber: 5.7 Consensus size: 48
64553340 ACATTTGGGT
* * * * ** *
64553350 GATATGTGAGCTAGTGTAAGATCATGTCTGGGACATGGCATCGATCAC
1 GATATGAGAGCCAGTGTAAGACCATGTCTGGGACATGGAATCGGCCTC
* * * * * *
64553398 -ATTATGAGAACTAGTGTAAGACCATGTTTGGAACATGGCATCGGCAAT-
1 GA-TATGAGAGCCAGTGTAAGACCATGTCTGGGACATGGAATCGGC-CTC
* * * * *
64553446 GTTATGACAGCCAGTGTAAGACCATGTCTGGTACAT-GACATCGGCATT
1 GATATGAGAGCCAGTGTAAGACCATGTCTGGGACATGGA-ATCGGCCTC
* * *** *
64553494 GATATGTGCGTTGGTGTAAGACCATGTCTGGGACAT-GACATCGGCCAC
1 GATATGAGAGCCAGTGTAAGACCATGTCTGGGACATGGA-ATCGGCCTC
* *
64553542 -ATTATGAAAGCCAGTGTAAGACCATGTCTGGGACATGGAATTGGCCTC
1 GA-TATGAGAGCCAGTGTAAGACCATGTCTGGGACATGGAATCGGCCTC
* *
64553590 GATATGTGAGCCAGTGTAAGTCCATGTCTGGGACA
1 GATATGAGAGCCAGTGTAAGACCATGTCTGGGACA
64553625 CAACATCAGC
Statistics
Matches: 181, Mismatches: 38, Indels: 16
0.77 0.16 0.07
Matches are distributed among these distances:
47 5 0.03
48 173 0.96
49 3 0.02
ACGTcount: A:0.28, C:0.18, G:0.28, T:0.26
Consensus pattern (48 bp):
GATATGAGAGCCAGTGTAAGACCATGTCTGGGACATGGAATCGGCCTC
Found at i:64553609 original size:144 final size:144
Alignment explanation
Indices: 64553349--64553620 Score: 359
Period size: 144 Copynumber: 1.9 Consensus size: 144
64553339 GACATTTGGG
* * * *
64553349 TGATATGTGAGCTAGTGTAAGATCATGTCTGGGACATGGCATCGATCACATTATGAGAACTAGTG
1 TGATATGTGAGCTAGTGTAAGACCATGTCTGGGACATGACATCGACCACATTATGAGAACCAGTG
* * *
64553414 TAAGACCATGTTTGGAACATGGCATCGGCAATGTTATGACAGCCAGTGTAAGACCATGTCTGGTA
66 TAAGACCATGTCTGGAACATGGAATCGGCAATGATATGACAGCCAGTGTAAGACCATGTCTGGTA
64553479 CATGACATCGGCAT
131 CATGACATCGGCAT
* * * *
64553493 TGATATGTGCGTTGGTGTAAGACCATGTCTGGGACATGACATCGGCCACATTATGA-AAGCCAGT
1 TGATATGTGAGCTAGTGTAAGACCATGTCTGGGACATGACATCGACCACATTATGAGAA-CCAGT
* * * ** *
64553557 GTAAGACCATGTCTGGGACATGGAATTGGC-CTCGATATGTGAGCCAGTGTAAGTCCATGTCTGG
65 GTAAGACCATGTCTGGAACATGGAATCGGCAAT-GATATGACAGCCAGTGTAAGACCATGTCTGG
64553621 GACACAACAT
Statistics
Matches: 109, Mismatches: 17, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
143 3 0.03
144 106 0.97
ACGTcount: A:0.27, C:0.18, G:0.28, T:0.27
Consensus pattern (144 bp):
TGATATGTGAGCTAGTGTAAGACCATGTCTGGGACATGACATCGACCACATTATGAGAACCAGTG
TAAGACCATGTCTGGAACATGGAATCGGCAATGATATGACAGCCAGTGTAAGACCATGTCTGGTA
CATGACATCGGCAT
Found at i:64573412 original size:33 final size:34
Alignment explanation
Indices: 64573341--64573415 Score: 116
Period size: 34 Copynumber: 2.2 Consensus size: 34
64573331 TTTGCATTTA
* *
64573341 TGATACTATTACTGTAATGGGCTAAGGCCCACAC
1 TGATACTATTACTGTAATAGGCTAAGGACCACAC
*
64573375 TGATACTATTACTGTAATAGGCTAA-GACCACAT
1 TGATACTATTACTGTAATAGGCTAAGGACCACAC
64573408 TGATACTA
1 TGATACTA
64573416 GACTGTCACT
Statistics
Matches: 38, Mismatches: 3, Indels: 1
0.90 0.07 0.02
Matches are distributed among these distances:
33 14 0.37
34 24 0.63
ACGTcount: A:0.33, C:0.20, G:0.17, T:0.29
Consensus pattern (34 bp):
TGATACTATTACTGTAATAGGCTAAGGACCACAC
Found at i:64575464 original size:31 final size:33
Alignment explanation
Indices: 64575401--64575466 Score: 91
Period size: 33 Copynumber: 2.1 Consensus size: 33
64575391 ATATATTACG
*
64575401 TAATTCTATATATTTTATATTATCATTAAATTT
1 TAATTCTATATATTTTATATAATCATTAAATTT
* *
64575434 TAATTTTATATATTTTA-ATAATTATT-AATTT
1 TAATTCTATATATTTTATATAATCATTAAATTT
64575465 TA
1 TA
64575467 TATAATTATT
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
31 7 0.23
32 7 0.23
33 16 0.53
ACGTcount: A:0.38, C:0.03, G:0.00, T:0.59
Consensus pattern (33 bp):
TAATTCTATATATTTTATATAATCATTAAATTT
Found at i:64575473 original size:17 final size:16
Alignment explanation
Indices: 64575445--64575477 Score: 57
Period size: 17 Copynumber: 2.0 Consensus size: 16
64575435 AATTTTATAT
64575445 ATTTTAATAATTATTA
1 ATTTTAATAATTATTA
64575461 ATTTTATATAATTATTA
1 ATTTTA-ATAATTATTA
64575478 TAAATATATA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 6 0.38
17 10 0.62
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (16 bp):
ATTTTAATAATTATTA
Found at i:64576751 original size:17 final size:18
Alignment explanation
Indices: 64576729--64576768 Score: 64
Period size: 18 Copynumber: 2.3 Consensus size: 18
64576719 GGCTAATCTG
64576729 GGCATGTGGG-CCACACA
1 GGCATGTGGGTCCACACA
*
64576746 GGCATGTGGGTCCACACG
1 GGCATGTGGGTCCACACA
64576764 GGCAT
1 GGCAT
64576769 ATGAGCCAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
17 10 0.48
18 11 0.52
ACGTcount: A:0.20, C:0.28, G:0.38, T:0.15
Consensus pattern (18 bp):
GGCATGTGGGTCCACACA
Found at i:64584617 original size:60 final size:60
Alignment explanation
Indices: 64584524--64584642 Score: 229
Period size: 60 Copynumber: 2.0 Consensus size: 60
64584514 CAAGAAGCTC
64584524 TAAAAGATAATTCGATAATCAATACGGTGGATTAATATCCATCAACCAGTAGAAAAACAA
1 TAAAAGATAATTCGATAATCAATACGGTGGATTAATATCCATCAACCAGTAGAAAAACAA
*
64584584 TAAAAGATAATTCGATAATCAATACGGTGGATTAGTATCCATCAACCAGTAGAAAAACA
1 TAAAAGATAATTCGATAATCAATACGGTGGATTAATATCCATCAACCAGTAGAAAAACA
64584643 TGTCTTAGAT
Statistics
Matches: 58, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
60 58 1.00
ACGTcount: A:0.47, C:0.15, G:0.14, T:0.24
Consensus pattern (60 bp):
TAAAAGATAATTCGATAATCAATACGGTGGATTAATATCCATCAACCAGTAGAAAAACAA
Found at i:64585770 original size:2 final size:2
Alignment explanation
Indices: 64585763--64585791 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
64585753 CATGACATTA
64585763 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
64585792 CATACATAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:64587892 original size:43 final size:44
Alignment explanation
Indices: 64587844--64587930 Score: 158
Period size: 43 Copynumber: 2.0 Consensus size: 44
64587834 TCGGCATCGT
64587844 AACAGATGACTCTCAGAAGATAGAGACATA-ATGTGACTGATTG
1 AACAGATGACTCTCAGAAGATAGAGACATAGATGTGACTGATTG
*
64587887 AACAGATGACTCTCAGAAGATAGAGACATAGATGTGATTGATTG
1 AACAGATGACTCTCAGAAGATAGAGACATAGATGTGACTGATTG
64587931 GACTTGAAAA
Statistics
Matches: 42, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
43 30 0.71
44 12 0.29
ACGTcount: A:0.39, C:0.13, G:0.24, T:0.24
Consensus pattern (44 bp):
AACAGATGACTCTCAGAAGATAGAGACATAGATGTGACTGATTG
Found at i:64598167 original size:21 final size:21
Alignment explanation
Indices: 64598141--64598183 Score: 77
Period size: 21 Copynumber: 2.0 Consensus size: 21
64598131 AGCAGTTAAG
64598141 GATGATTCTCAAGTTCTGCGT
1 GATGATTCTCAAGTTCTGCGT
*
64598162 GATGATTCTCAGGTTCTGCGT
1 GATGATTCTCAAGTTCTGCGT
64598183 G
1 G
64598184 TCCATCAGGT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.16, C:0.19, G:0.28, T:0.37
Consensus pattern (21 bp):
GATGATTCTCAAGTTCTGCGT
Found at i:64602456 original size:40 final size:39
Alignment explanation
Indices: 64602401--64602528 Score: 195
Period size: 40 Copynumber: 3.3 Consensus size: 39
64602391 ATATATTATA
* *
64602401 TATATCCGGGTCAAATCCCACAGGCTTCGTGTTGGTGATG
1 TATATCCGGGTCAAATCCCGCAGGCTTCGTGCTGGT-ATG
64602441 TATATCCGGGTCAAATCCCGCAGGCTTCGTGCTGGTAATG
1 TATATCCGGGTCAAATCCCGCAGGCTTCGTGCTGGT-ATG
* *
64602481 TATATCCGGGTTAAATCCCGCAGGCTTAGTGCTGGTAT-
1 TATATCCGGGTCAAATCCCGCAGGCTTCGTGCTGGTATG
64602519 TATATCCGGG
1 TATATCCGGG
64602529 CTTAAAGTTC
Statistics
Matches: 83, Mismatches: 5, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
38 10 0.12
39 2 0.02
40 71 0.86
ACGTcount: A:0.20, C:0.23, G:0.27, T:0.30
Consensus pattern (39 bp):
TATATCCGGGTCAAATCCCGCAGGCTTCGTGCTGGTATG
Found at i:64602542 original size:40 final size:40
Alignment explanation
Indices: 64602401--64602543 Score: 191
Period size: 40 Copynumber: 3.6 Consensus size: 40
64602391 ATATATTATA
* * * *
64602401 TATATCCGGGTCAAATCCCACAGGCTTCGTGTTGGTGATG
1 TATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAATG
*
64602441 TATATCCGGGTCAAATCCCGCAGGCTTCGTGCTGGTAATG
1 TATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAATG
*
64602481 TATATCCGGGTTAAATCCCGCAGGCTTAGTGCTGGT-AT-
1 TATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAATG
*
64602519 TATATCCGGGCTTAAAGTTCCGCAG
1 TATATCCGGG-TTAAA-TCCCGCAG
64602544 ACTTTGAGCT
Statistics
Matches: 95, Mismatches: 6, Indels: 4
0.90 0.06 0.04
Matches are distributed among these distances:
38 10 0.11
39 7 0.07
40 78 0.82
ACGTcount: A:0.21, C:0.23, G:0.27, T:0.29
Consensus pattern (40 bp):
TATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAATG
Found at i:64605690 original size:62 final size:60
Alignment explanation
Indices: 64605612--64605756 Score: 150
Period size: 61 Copynumber: 2.4 Consensus size: 60
64605602 TCAAGCCTTA
* * * *
64605612 CTGGGCCTAAGCCCTATT-CAGAAATCAGTG-TTAATTGGGCCTTAGCCCATATAAATATTAAT
1 CTGGGCCT-AGCCCTATTACA-AAATCAGAGCAT-ACTGGGCC-TAGCCCATATAAATATCAAT
* * * *
64605674 CTGGGCCATAGCCCTATTACAATATCAGAGCATACTGGGCCTAGCCCATATCAGTATCAGT
1 CTGGGCC-TAGCCCTATTACAAAATCAGAGCATACTGGGCCTAGCCCATATAAATATCAAT
64605735 CTGGGCCGTAGCCCTATTACAA
1 CTGGGCC-TAGCCCTATTACAA
64605757 GTCGAGATAT
Statistics
Matches: 71, Mismatches: 9, Indels: 7
0.82 0.10 0.08
Matches are distributed among these distances:
61 37 0.52
62 30 0.42
63 4 0.06
ACGTcount: A:0.28, C:0.26, G:0.19, T:0.27
Consensus pattern (60 bp):
CTGGGCCTAGCCCTATTACAAAATCAGAGCATACTGGGCCTAGCCCATATAAATATCAAT
Found at i:64608197 original size:12 final size:12
Alignment explanation
Indices: 64608182--64608254 Score: 51
Period size: 15 Copynumber: 5.7 Consensus size: 12
64608172 AAATTAACAA
64608182 AAATAATTTTAT
1 AAATAATTTTAT
64608194 AAAT-ATTTTAT
1 AAATAATTTTAT
64608205 AAATATATTTGTAT
1 AAATA-ATTT-TAT
* *
64608219 CTAATAATTATAAT
1 -AAATAATT-TTAT
64608233 GATAATAATTTTCAT
1 -A-AATAATTTT-AT
64608248 AAA-AATT
1 AAATAATT
64608255 AAAATATTAG
Statistics
Matches: 49, Mismatches: 5, Indels: 14
0.72 0.07 0.21
Matches are distributed among these distances:
11 11 0.22
12 8 0.16
13 6 0.12
14 10 0.20
15 14 0.29
ACGTcount: A:0.48, C:0.03, G:0.03, T:0.47
Consensus pattern (12 bp):
AAATAATTTTAT
Found at i:64609473 original size:96 final size:96
Alignment explanation
Indices: 64609309--64609497 Score: 351
Period size: 96 Copynumber: 2.0 Consensus size: 96
64609299 ATATCGGTGT
*
64609309 CATCTATTTATAGGGAGAATAGATGAAAACGTTGTTGAATTGTAAAAGCCTATTTTAGTAGAAAC
1 CATCTATTTATAGGGAGAATAGATGAAAACGTTGTTGAATTGTAAAAGCCTATTTTAATAGAAAC
*
64609374 ATGAATTCCTAGTCTTCATAATTTAATCCAA
66 ATGAACTCCTAGTCTTCATAATTTAATCCAA
64609405 CATCTATTTATAGGGAGAATAGATGAAAACGTTGTTGAATTGTAAAAGCCTATTTTAATAGAAAC
1 CATCTATTTATAGGGAGAATAGATGAAAACGTTGTTGAATTGTAAAAGCCTATTTTAATAGAAAC
*
64609470 ATGAACTCGTAGTCTTCATAATTTAATC
66 ATGAACTCCTAGTCTTCATAATTTAATC
64609498 TAATCCAATA
Statistics
Matches: 90, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
96 90 1.00
ACGTcount: A:0.38, C:0.12, G:0.16, T:0.34
Consensus pattern (96 bp):
CATCTATTTATAGGGAGAATAGATGAAAACGTTGTTGAATTGTAAAAGCCTATTTTAATAGAAAC
ATGAACTCCTAGTCTTCATAATTTAATCCAA
Found at i:64615207 original size:2 final size:2
Alignment explanation
Indices: 64615200--64615225 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
64615190 ACAACAAACT
64615200 TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA
64615226 ATTAAGCCAC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:64616796 original size:54 final size:55
Alignment explanation
Indices: 64616692--64616845 Score: 175
Period size: 56 Copynumber: 2.8 Consensus size: 55
64616682 AACATAGCAT
* * * * *
64616692 GCCTCTCAACAGGGCTATATAATAGCACCCGGACCTAGCATGCATCACATAA-CCAC
1 GCCTCTCAACAGGGCTACAT-A-AGCTCCCGGACCTAGCATGTACCACATAATACAC
* * *
64616748 GCCTCTCAATAGGGCTACATAAGCTCCCGAACCTAGCATGTACCACATAATTACAT
1 GCCTCTCAACAGGGCTACATAAGCTCCCGGACCTAGCATGTACCACATAA-TACAC
* * *
64616804 GCCTCTCAACGGGGTTACACAAGCTCCCGGACCTAGCATGTA
1 GCCTCTCAACAGGGCTACATAAGCTCCCGGACCTAGCATGTA
64616846 TCACGTCATC
Statistics
Matches: 83, Mismatches: 13, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
54 25 0.30
55 1 0.01
56 57 0.69
ACGTcount: A:0.30, C:0.32, G:0.18, T:0.20
Consensus pattern (55 bp):
GCCTCTCAACAGGGCTACATAAGCTCCCGGACCTAGCATGTACCACATAATACAC
Found at i:64617841 original size:51 final size:51
Alignment explanation
Indices: 64617765--64617868 Score: 208
Period size: 51 Copynumber: 2.0 Consensus size: 51
64617755 CGGGGCAAAG
64617765 ATAGACTTACAATCAAGCTTAAAAGTTTTACAAACCCTAGCCATGTCTTCC
1 ATAGACTTACAATCAAGCTTAAAAGTTTTACAAACCCTAGCCATGTCTTCC
64617816 ATAGACTTACAATCAAGCTTAAAAGTTTTACAAACCCTAGCCATGTCTTCC
1 ATAGACTTACAATCAAGCTTAAAAGTTTTACAAACCCTAGCCATGTCTTCC
64617867 AT
1 AT
64617869 CTCCATATAC
Statistics
Matches: 53, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
51 53 1.00
ACGTcount: A:0.36, C:0.25, G:0.10, T:0.30
Consensus pattern (51 bp):
ATAGACTTACAATCAAGCTTAAAAGTTTTACAAACCCTAGCCATGTCTTCC
Found at i:64623138 original size:22 final size:23
Alignment explanation
Indices: 64623113--64623164 Score: 63
Period size: 23 Copynumber: 2.3 Consensus size: 23
64623103 TTAATAGGGA
*
64623113 TAATTTAGATGTTTT-AAAATAT
1 TAATTAAGATGTTTTAAAAATAT
*
64623135 TAA-TAAGGTGTTTTGAAAAATAT
1 TAATTAAGATGTTTT-AAAAATAT
64623158 TAATTAA
1 TAATTAA
64623165 ATTTCTATAA
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
21 9 0.36
22 3 0.12
23 10 0.40
24 3 0.12
ACGTcount: A:0.44, C:0.00, G:0.12, T:0.44
Consensus pattern (23 bp):
TAATTAAGATGTTTTAAAAATAT
Found at i:64624875 original size:40 final size:40
Alignment explanation
Indices: 64624813--64624889 Score: 93
Period size: 40 Copynumber: 1.9 Consensus size: 40
64624803 TCGGTACCAG
* *
64624813 TTGGTGTATAGGGTTGGATGGGTTGATTAAATCCCCATAC
1 TTGGTGTATAGGATTGGATGGGTCGATTAAATCCCCATAC
* **
64624853 TTGGTGTGTAGGATT-GAGTGGGTCGATTCTATCCCCA
1 TTGGTGTATAGGATTGGA-TGGGTCGATTAAATCCCCA
64624890 CATGGTGTGT
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
39 2 0.06
40 29 0.94
ACGTcount: A:0.19, C:0.14, G:0.31, T:0.35
Consensus pattern (40 bp):
TTGGTGTATAGGATTGGATGGGTCGATTAAATCCCCATAC
Found at i:64627270 original size:25 final size:25
Alignment explanation
Indices: 64627242--64627291 Score: 91
Period size: 25 Copynumber: 2.0 Consensus size: 25
64627232 TTCGTTTGGA
64627242 GAGTTTGACTTAATTTTGGGTATGG
1 GAGTTTGACTTAATTTTGGGTATGG
*
64627267 GAGTTTGCCTTAATTTTGGGTATGG
1 GAGTTTGACTTAATTTTGGGTATGG
64627292 ACTGGCTGGT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.18, C:0.06, G:0.32, T:0.44
Consensus pattern (25 bp):
GAGTTTGACTTAATTTTGGGTATGG
Found at i:64633230 original size:2 final size:2
Alignment explanation
Indices: 64633223--64633247 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
64633213 AATGTCCCAT
64633223 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
64633248 TACTAAACCT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:64635642 original size:24 final size:25
Alignment explanation
Indices: 64635601--64635648 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 25
64635591 TAAGTCAAAT
* * *
64635601 TTAATTAAAAATTTTAAAT-TTAAA
1 TTAATAAAAAAATATAAATATTAAA
64635625 TTAATAAAAAAATATAAATATTAA
1 TTAATAAAAAAATATAAATATTAA
64635649 GAACAAAACA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
24 16 0.80
25 4 0.20
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (25 bp):
TTAATAAAAAAATATAAATATTAAA
Found at i:64640862 original size:24 final size:24
Alignment explanation
Indices: 64640833--64640884 Score: 68
Period size: 24 Copynumber: 2.2 Consensus size: 24
64640823 TTCGTAGGTC
* * *
64640833 AAATAAATTTTGCTAATAAATGCT
1 AAATAAATTATACTAATAAATCCT
*
64640857 AAATAAATTATATTAATAAATCCT
1 AAATAAATTATACTAATAAATCCT
64640881 AAAT
1 AAAT
64640885 CTTCTAGAAA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.52, C:0.08, G:0.04, T:0.37
Consensus pattern (24 bp):
AAATAAATTATACTAATAAATCCT
Found at i:64642838 original size:24 final size:24
Alignment explanation
Indices: 64642810--64642861 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
64642800 TTTGTAGGTC
* *
64642810 AAATAAATTATGCTAATAAATGCT
1 AAATAAATTATACTAATAAATACT
*
64642834 AAATATATTATACTAATAAATACT
1 AAATAAATTATACTAATAAATACT
64642858 AAAT
1 AAAT
64642862 CTTCTAGAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.54, C:0.08, G:0.04, T:0.35
Consensus pattern (24 bp):
AAATAAATTATACTAATAAATACT
Found at i:64647179 original size:19 final size:18
Alignment explanation
Indices: 64647120--64647182 Score: 60
Period size: 19 Copynumber: 3.6 Consensus size: 18
64647110 ATTCGTGCCT
*
64647120 TTCTTTCTTTTTT-TTT-
1 TTCTTTATTTTTTATTTC
*
64647136 TTCTTTATGTTTTATTTC
1 TTCTTTATTTTTTATTTC
*
64647154 TTTTTTATTTCTTTA-TTC
1 TTCTTTATTT-TTTATTTC
64647172 ATTCTTTATTT
1 -TTCTTTATTT
64647183 AATCAATATA
Statistics
Matches: 38, Mismatches: 5, Indels: 5
0.79 0.10 0.10
Matches are distributed among these distances:
16 11 0.29
17 3 0.08
18 11 0.29
19 13 0.34
ACGTcount: A:0.10, C:0.11, G:0.02, T:0.78
Consensus pattern (18 bp):
TTCTTTATTTTTTATTTC
Found at i:64649821 original size:19 final size:17
Alignment explanation
Indices: 64649784--64649817 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
64649774 CACACACGGC
64649784 CTAAACACACACCCGTG
1 CTAAACACACACCCGTG
*
64649801 CTAAACACACACTCGTG
1 CTAAACACACACCCGTG
64649818 TGCTTACCTG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.35, C:0.38, G:0.12, T:0.15
Consensus pattern (17 bp):
CTAAACACACACCCGTG
Found at i:64655498 original size:23 final size:23
Alignment explanation
Indices: 64655472--64655515 Score: 79
Period size: 23 Copynumber: 1.9 Consensus size: 23
64655462 TCAGACCTTA
*
64655472 GGTAGTGTCTCTTGTCACATTAC
1 GGTAGTGTCTCTCGTCACATTAC
64655495 GGTAGTGTCTCTCGTCACATT
1 GGTAGTGTCTCTCGTCACATT
64655516 CTTGCTACCA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.16, C:0.23, G:0.23, T:0.39
Consensus pattern (23 bp):
GGTAGTGTCTCTCGTCACATTAC
Found at i:64657400 original size:453 final size:453
Alignment explanation
Indices: 64656554--64659271 Score: 4703
Period size: 453 Copynumber: 6.0 Consensus size: 453
64656544 CGGACGAACT
* * *
64656554 CCGTGTACAACTCATTCATCATATGGAGAAATGCCTCTCGAGCCCCTTCTCCTCCTTCTTGACTA
1 CCGTGTACAACTCATTCATCATATGGAGAAATGCCTCTCGAGCCCCTTCTCCTCCTCCCTAACTA
* * * * *
64656619 ACC-TGGGAGGTCGATTATTGGATGGTACCGCCCCTTCGGTAGAGGCTGGTGCATTACTTTCTAC
66 ACCGTGGGAGGTCGATTATCGGATGGCACCGCCCCTTCGGCAGGGGCCGGTGCATTACTTTCTAC
* *
64656683 GTCATCCGCCATAGTTCGATCGGGATCCATTACTATATAAAAACACAATTTAAAAAATCAAGAGT
131 GTCATCCGCCATAGTTCGATCGGGATCCATTACTATATGAAAACACAATTTAAAAGATCAAGAGT
* *
64656748 TGTCACACTATCACAATCTATTTATAGCATGTATAGCTAGACTCGTACACACATTACGTTAGTCT
196 CGTCACACTATCACAATCTATTTATAGCATGTATAGCTAGACTCGTACACACGTTACGTTAGTCT
* **
64656813 GTGAACTGACTAAACCATAGCTCTGATACCACTAAATATAACACCCCACACATGCG-CTCTACAT
261 GTGAACTGACTAAACCATAGCTTTGATACCACTAAATATAACACCCCACACATGCGTC-CTACGC
64656877 TGGGTCAGAATATGAGGCATTACCTAACATAAACTTATGCATATAAATGTTTTCATAATACCAAA
325 TGGGTCAGAATATGAGGCATTACCTAACATAAACTTATGCATATAAATGTTTTCATAATACCAAA
64656942 ACATGGTCAAATTTAAAACTTTTTCAATTTTATTTATAAACTCCTTCATAAGAGCCTACTAAGC
390 ACATGGTCAAATTTAAAACTTTTTCAATTTTATTTATAAACTCCTTCATAAGAGCCTACTAAGC
* * *
64657006 CCGTGTACAACTCATTTATCATGTGGAGAAATGCCTTTCGAGCCCCTTCTCCTCCTCCCTAACTA
1 CCGTGTACAACTCATTCATCATATGGAGAAATGCCTCTCGAGCCCCTTCTCCTCCTCCCTAACTA
* *
64657071 ACCGTAGGAGGTCGATTATCGGATGGCACCGCCCCTTCGGCAGGGGCTGGTGCATTACTTTCTAC
66 ACCGTGGGAGGTCGATTATCGGATGGCACCGCCCCTTCGGCAGGGGCCGGTGCATTACTTTCTAC
* *
64657136 ATCATCCGCCATAGTTCGATCGGGATGCATTACTATATGAAAACACAATTTAAAAGATCAAGAGT
131 GTCATCCGCCATAGTTCGATCGGGATCCATTACTATATGAAAACACAATTTAAAAGATCAAGAGT
*
64657201 CGTCACACTATCACAATCTATTTATAGCATGTATAGCTAGACTTGTACACACGTTACGTTAGTCT
196 CGTCACACTATCACAATCTATTTATAGCATGTATAGCTAGACTCGTACACACGTTACGTTAGTCT
* *
64657266 ATGAACTGACTAAACCATAGCTCTGATACCACTAAATATAACACCCCACACATGCGTCCTACGCT
261 GTGAACTGACTAAACCATAGCTTTGATACCACTAAATATAACACCCCACACATGCGTCCTACGCT
* * *
64657331 GGGTCGGAATATGAGGCATTACCTAACATAAACTTATGTATATAAATGTTTTCATAATACCAGAA
326 GGGTCAGAATATGAGGCATTACCTAACATAAACTTATGCATATAAATGTTTTCATAATACCAAAA
64657396 CATGGTCAAATTTAAAACTTTTTCAATTTTATTTATAAACTCCTTCATAAGAGCCTACTAAGC
391 CATGGTCAAATTTAAAACTTTTTCAATTTTATTTATAAACTCCTTCATAAGAGCCTACTAAGC
* * *
64657459 CTGTGTACAACTCATTCATCATGTGGAGAAATGCCTCTCGAGCCCCTTCTCCTCCTCCCTGACTA
1 CCGTGTACAACTCATTCATCATATGGAGAAATGCCTCTCGAGCCCCTTCTCCTCCTCCCTAACTA
*
64657524 ACCGTGGGAGGTCGATTATCGGATGGCACCGCCCCTTCGGCAGGGGCCAGTGCATTACTTTCTAC
66 ACCGTGGGAGGTCGATTATCGGATGGCACCGCCCCTTCGGCAGGGGCCGGTGCATTACTTTCTAC
* * *
64657589 GTCATCCGCCATAGTTCGATCGGGATGCATTCCTGTATGAAAACACAATTTAAAAGATCAAGAGT
131 GTCATCCGCCATAGTTCGATCGGGATCCATTACTATATGAAAACACAATTTAAAAGATCAAGAGT
* *
64657654 CGTCACACTATCACAATTTATTTATAGCATGTATAGCTAGACTCGTACACACGTTACGTTAGTTT
196 CGTCACACTATCACAATCTATTTATAGCATGTATAGCTAGACTCGTACACACGTTACGTTAGTCT
*
64657719 GTGAA-TCGACTAAACCATAGCTTTGATACCACTAAATATAACACCCCACACATGCGCCCTACGC
261 GTGAACT-GACTAAACCATAGCTTTGATACCACTAAATATAACACCCCACACATGCGTCCTACGC
64657783 TGGGTCAGAATATGAGGCATTACCTAACATAAACTTATGCATATAAATGTTTTCATAATACCAAA
325 TGGGTCAGAATATGAGGCATTACCTAACATAAACTTATGCATATAAATGTTTTCATAATACCAAA
*
64657848 ACATGGTCAAATTTAAAACTTCTTCAATTTTATTTATAAACTCCTTCATAAGAGCCTACTAAGC
390 ACATGGTCAAATTTAAAACTTTTTCAATTTTATTTATAAACTCCTTCATAAGAGCCTACTAAGC
*
64657912 CCGTGTACAACTCATTCATCATATGGAGAAATGCCTCTCGAGCCCCTTCTCCCCCTCCCTAACTA
1 CCGTGTACAACTCATTCATCATATGGAGAAATGCCTCTCGAGCCCCTTCTCCTCCTCCCTAACTA
* *
64657977 ACCGTGAGAGGTCGATTATCGGATGGCACCGCCCCTTCAGCAGGGGCCGGTGCATTACTTTCTAC
66 ACCGTGGGAGGTCGATTATCGGATGGCACCGCCCCTTCGGCAGGGGCCGGTGCATTACTTTCTAC
* * *
64658042 GTCATCTGCCATAGTTCGATCAGGATCCATTACTATATGAAAAC-CTAATTTAAAAGATCAGGAG
131 GTCATCCGCCATAGTTCGATCGGGATCCATTACTATATGAAAACAC-AATTTAAAAGATCAAGAG
* *
64658106 TCGTCACACTATCACAATCTATTTATAGCATGTATAGCTAGACTCGTACACATGCTACGTTAGTC
195 TCGTCACACTATCACAATCTATTTATAGCATGTATAGCTAGACTCGTACACACGTTACGTTAGTC
*
64658171 TGTGAACCGACTAAACCATAGCTTTGATACCACTAAATATAACACCCCACACATGCGTCCTACGC
260 TGTGAACTGACTAAACCATAGCTTTGATACCACTAAATATAACACCCCACACATGCGTCCTACGC
* * *
64658236 TGGGTCGGAATATGAGGCATTACCTAACATAAACTTATGTATATAAATGTTTTCATAATACCAGA
325 TGGGTCAGAATATGAGGCATTACCTAACATAAACTTATGCATATAAATGTTTTCATAATACCAAA
64658301 ACATGGTCAAATTTAAAACTTTTTCAATTTTATTTATAAACTCCTTCATAAGAGCCTACTAAGC
390 ACATGGTCAAATTTAAAACTTTTTCAATTTTATTTATAAACTCCTTCATAAGAGCCTACTAAGC
* * *
64658365 CTGTGTACAACTCATTCATCATGTGGAGAAATGCCTCTCGAGCCCCTTCTCCTCCTCCCTGACTA
1 CCGTGTACAACTCATTCATCATATGGAGAAATGCCTCTCGAGCCCCTTCTCCTCCTCCCTAACTA
*
64658430 ACCGTGGGAGGTCGATTATCGGATGGCACCG-CCCTTCGGCAGGGGCCAGTGCATTACTTTCTAC
66 ACCGTGGGAGGTCGATTATCGGATGGCACCGCCCCTTCGGCAGGGGCCGGTGCATTACTTTCTAC
* * *
64658494 GTCATCCGCCATAGTTCGATCGGGATGCATTCCTGTATGAAAACACAATTTAAAAGATCAAGAGT
131 GTCATCCGCCATAGTTCGATCGGGATCCATTACTATATGAAAACACAATTTAAAAGATCAAGAGT
* *
64658559 CGTCACACTATCACAATTTATTTATAGCATGTATAGCTAGACTCGTACACACGTTACGTTAGTTT
196 CGTCACACTATCACAATCTATTTATAGCATGTATAGCTAGACTCGTACACACGTTACGTTAGTCT
*
64658624 GTGAA-TCGACTAAACCATAGCTTTGATACCACTAAATATAACACCCCACACATGCGCCCTACGC
261 GTGAACT-GACTAAACCATAGCTTTGATACCACTAAATATAACACCCCACACATGCGTCCTACGC
64658688 TGGGTCAGAATATGAGGCATTACCTAACATAAACTTATGCATATAAATGTTTTCATAATACCAAA
325 TGGGTCAGAATATGAGGCATTACCTAACATAAACTTATGCATATAAATGTTTTCATAATACCAAA
*
64658753 ACATGGTCAAATTTAAAACTTCTTCAATTTTATTTATAAACTCCTTCATAAGAGCCTACTAAGC
390 ACATGGTCAAATTTAAAACTTTTTCAATTTTATTTATAAACTCCTTCATAAGAGCCTACTAAGC
*
64658817 CCGTGTACAACTCATTCATCATATGGAGAAATGCCTCTCGAGCCCCTTCTCCCCCTCCCTAACTA
1 CCGTGTACAACTCATTCATCATATGGAGAAATGCCTCTCGAGCCCCTTCTCCTCCTCCCTAACTA
* *
64658882 ACCGTGAGAGGTCGATTATCGGATGGCACCGCCCCTTCAGCAGGGGCCGGTGCATTACTTTCTAC
66 ACCGTGGGAGGTCGATTATCGGATGGCACCGCCCCTTCGGCAGGGGCCGGTGCATTACTTTCTAC
* * *
64658947 GTCATCTGCCATAGTTCGATCAGGATCCATTACTATATGAAAAC-CTAATTTAAAAGATCAGGAG
131 GTCATCCGCCATAGTTCGATCGGGATCCATTACTATATGAAAACAC-AATTTAAAAGATCAAGAG
* *
64659011 TCGTCACACTATCACAATCTATTTATAGCATGTATAGCTAGACTCGTACACATGCTACGTTAGTC
195 TCGTCACACTATCACAATCTATTTATAGCATGTATAGCTAGACTCGTACACACGTTACGTTAGTC
*
64659076 TGTGAACCGACTAAACCATAGCTTTGATACCACTAAATATAACACCCCACACATGCGTCCTACGC
260 TGTGAACTGACTAAACCATAGCTTTGATACCACTAAATATAACACCCCACACATGCGTCCTACGC
64659141 TGGGTCAGAATATGAGGCATTACCTAACATAAACTTATGCATATAAATGTTTTCATAATACCAAA
325 TGGGTCAGAATATGAGGCATTACCTAACATAAACTTATGCATATAAATGTTTTCATAATACCAAA
64659206 ACATGGTCAAATTTAAAACTTTTTCAATTTTATTTATAAACTCCTTCATAAGAGCCTACTAAGC
390 ACATGGTCAAATTTAAAACTTTTTCAATTTTATTTATAAACTCCTTCATAAGAGCCTACTAAGC
64659270 CC
1 CC
64659272 AAAACATCCA
Statistics
Matches: 2146, Mismatches: 110, Indels: 19
0.94 0.05 0.01
Matches are distributed among these distances:
452 491 0.23
453 1654 0.77
454 1 0.00
ACGTcount: A:0.31, C:0.25, G:0.16, T:0.29
Consensus pattern (453 bp):
CCGTGTACAACTCATTCATCATATGGAGAAATGCCTCTCGAGCCCCTTCTCCTCCTCCCTAACTA
ACCGTGGGAGGTCGATTATCGGATGGCACCGCCCCTTCGGCAGGGGCCGGTGCATTACTTTCTAC
GTCATCCGCCATAGTTCGATCGGGATCCATTACTATATGAAAACACAATTTAAAAGATCAAGAGT
CGTCACACTATCACAATCTATTTATAGCATGTATAGCTAGACTCGTACACACGTTACGTTAGTCT
GTGAACTGACTAAACCATAGCTTTGATACCACTAAATATAACACCCCACACATGCGTCCTACGCT
GGGTCAGAATATGAGGCATTACCTAACATAAACTTATGCATATAAATGTTTTCATAATACCAAAA
CATGGTCAAATTTAAAACTTTTTCAATTTTATTTATAAACTCCTTCATAAGAGCCTACTAAGC
Found at i:64667639 original size:2 final size:2
Alignment explanation
Indices: 64667626--64667665 Score: 71
Period size: 2 Copynumber: 20.0 Consensus size: 2
64667616 TTAAGTTGTC
*
64667626 AT AT AT AC AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
64667666 GGTATAGGGT
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:64669887 original size:671 final size:671
Alignment explanation
Indices: 64668606--64669954 Score: 2572
Period size: 671 Copynumber: 2.0 Consensus size: 671
64668596 ATTTGAGTAA
*
64668606 TGTGAATATTAAGTAAGCTAAATTTGTTATTATAGATCAAGAAAAAAGAAGTACGGACCTTGATC
1 TGTGAATATTAAGTAAGCTAAATTTGGTATTATAGATCAAGAAAAAAGAAGTACGGACCTTGATC
64668671 GGGGAAAGAATTAGGTGTTTGACGATTAAATCCTTATCTACTATTTTAGGTACCGAGGTAAGTTC
66 GGGGAAAGAATTAGGTGTTTGACGATTAAATCCTTATCTACTATTTTAGGTACCGAGGTAAGTTC
*
64668736 GTATGTAAATAATGCATTGTTTATTTATGTTTTAAATACTTTAATATTGTATGAATTTATGATTA
131 GTATGTAAATAACGCATTGTTTATTTATGTTTTAAATACTTTAATATTGTATGAATTTATGATTA
64668801 ACTCTTGGGATGAAATCGACAATGGATGATGAATGAGAAATATCCCGGTTGAACCTTAGGAATAG
196 ACTCTTGGGATGAAATCGACAATGGATGATGAATGAGAAATATCCCGGTTGAACCTTAGGAATAG
64668866 TTAGGATACAAATGTCATGACATTAGGGTTAGTTGAGATTACGTGTAAAACCATATCTGGGATAT
261 TTAGGATACAAATGTCATGACATTAGGGTTAGTTGAGATTACGTGTAAAACCATATCTGGGATAT
*
64668931 GACATTGATATGAGAATTTGTGTAAGACCATAGTTGGGCTATTGGCATTAATGTGAGATACCATG
326 GACATTGATATGAGAATTTGTGTAAGACCATAGTTGGGCTATTGGCATCAATGTGAGATACCATG
64668996 TAAGACCATATCTGAGATATGTCATTGGTATGGTACTATGTATGTGAGATATCCCGAGTATCTTT
391 TAAGACCATATCTGAGATATGTCATTGGTATGGTACTATGTATGTGAGATATCCCGAGTATCTTT
* *
64669061 TAGTATTCCAAGTGGTTCAACGGGAAACTTAAACAGCAATGTTTAAGTTGTCAGAGACTATGGTA
456 TAGTATTCCAAGTGGTTCAACAGGAAACTGAAACAGCAATGTTTAAGTTGTCAGAGACTATGGTA
64669126 TGTTGCGAACAATTATGGTGAGTTCCAAGTCAGTACAGGTATGTATACAAAACTCATGCTTAATG
521 TGTTGCGAACAATTATGGTGAGTTCCAAGTCAGTACAGGTATGTATACAAAACTCATGCTTAATG
64669191 AGTTCGATATGTGATGAAACCTCGGATTGGTTGATCGAGTAAGTTATGATGTTAAGATTTTTAAA
586 AGTTCGATATGTGATGAAACCTCGGATTGGTTGATCGAGTAAGTTATGATGTTAAGATTTTTAAA
64669256 TACATCTATGCTAAGCTTGAT
651 TACATCTATGCTAAGCTTGAT
*
64669277 TGTGAATATTAAGTAAGCTAAATTTGGTATTATAGATCAAGAAAAAAGAAGTATGGACCTTGATC
1 TGTGAATATTAAGTAAGCTAAATTTGGTATTATAGATCAAGAAAAAAGAAGTACGGACCTTGATC
64669342 GGGGAAAGAATTAGGTGTTTGACGATTAAATCCTTATCTACTATTTTAGGTACCGAGGTAAGTTC
66 GGGGAAAGAATTAGGTGTTTGACGATTAAATCCTTATCTACTATTTTAGGTACCGAGGTAAGTTC
* *
64669407 GTATGTAAATAACGCATTGTTTATTTATTTTTTAAATACTTTAATATTGTATGAATTTATGATTG
131 GTATGTAAATAACGCATTGTTTATTTATGTTTTAAATACTTTAATATTGTATGAATTTATGATTA
64669472 ACTCTTGGGATGAAATCGACAATGGATGATGAATGAGAAATATCCCGGTTGAACCTTAGGAATAG
196 ACTCTTGGGATGAAATCGACAATGGATGATGAATGAGAAATATCCCGGTTGAACCTTAGGAATAG
64669537 TTAGGATACAAATGTCATGACATTAGGGTTAGTTGAGATTACGTGTAAAACCATATCTGGGATAT
261 TTAGGATACAAATGTCATGACATTAGGGTTAGTTGAGATTACGTGTAAAACCATATCTGGGATAT
*
64669602 GACATTGATATGAGAGTTTGTGTAAGACCATAGTTGGGCTATTGGCATCAATGTGAGATACCATG
326 GACATTGATATGAGAATTTGTGTAAGACCATAGTTGGGCTATTGGCATCAATGTGAGATACCATG
*
64669667 TAAGACCATATCTGAGATATGTCATTGGTATGGTACTATGTATGTGAGATATCCTGAGTATCTTT
391 TAAGACCATATCTGAGATATGTCATTGGTATGGTACTATGTATGTGAGATATCCCGAGTATCTTT
*
64669732 TAGTATTCCAAGTGGTTCAACAGGAAACTGAAACGGCAATGTTTAAGTTGTCAGAGACTATGGTA
456 TAGTATTCCAAGTGGTTCAACAGGAAACTGAAACAGCAATGTTTAAGTTGTCAGAGACTATGGTA
*
64669797 TGTTGCGAACAATTATGGTGAGTTGCAAGTCAGTACAGGTATGTATACAAAACTCATGCTTAATG
521 TGTTGCGAACAATTATGGTGAGTTCCAAGTCAGTACAGGTATGTATACAAAACTCATGCTTAATG
*
64669862 AGTTTGATATGTGATGAAACCTCGGATTGGTTGATCGAGTAAGTTATGATGTTAAGATTTTTAAA
586 AGTTCGATATGTGATGAAACCTCGGATTGGTTGATCGAGTAAGTTATGATGTTAAGATTTTTAAA
64669927 TACATCTATGCTAAGCTTGAT
651 TACATCTATGCTAAGCTTGAT
*
64669948 TATGAAT
1 TGTGAAT
64669955 TCACAATGAC
Statistics
Matches: 664, Mismatches: 14, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
671 664 1.00
ACGTcount: A:0.33, C:0.11, G:0.22, T:0.34
Consensus pattern (671 bp):
TGTGAATATTAAGTAAGCTAAATTTGGTATTATAGATCAAGAAAAAAGAAGTACGGACCTTGATC
GGGGAAAGAATTAGGTGTTTGACGATTAAATCCTTATCTACTATTTTAGGTACCGAGGTAAGTTC
GTATGTAAATAACGCATTGTTTATTTATGTTTTAAATACTTTAATATTGTATGAATTTATGATTA
ACTCTTGGGATGAAATCGACAATGGATGATGAATGAGAAATATCCCGGTTGAACCTTAGGAATAG
TTAGGATACAAATGTCATGACATTAGGGTTAGTTGAGATTACGTGTAAAACCATATCTGGGATAT
GACATTGATATGAGAATTTGTGTAAGACCATAGTTGGGCTATTGGCATCAATGTGAGATACCATG
TAAGACCATATCTGAGATATGTCATTGGTATGGTACTATGTATGTGAGATATCCCGAGTATCTTT
TAGTATTCCAAGTGGTTCAACAGGAAACTGAAACAGCAATGTTTAAGTTGTCAGAGACTATGGTA
TGTTGCGAACAATTATGGTGAGTTCCAAGTCAGTACAGGTATGTATACAAAACTCATGCTTAATG
AGTTCGATATGTGATGAAACCTCGGATTGGTTGATCGAGTAAGTTATGATGTTAAGATTTTTAAA
TACATCTATGCTAAGCTTGAT
Found at i:64672356 original size:15 final size:17
Alignment explanation
Indices: 64672336--64672368 Score: 52
Period size: 15 Copynumber: 2.1 Consensus size: 17
64672326 AGAATATTCA
64672336 ATTTTTT-AAGAA-CAT
1 ATTTTTTCAAGAATCAT
64672351 ATTTTTTCAAGAATCAT
1 ATTTTTTCAAGAATCAT
64672368 A
1 A
64672369 GTTGGAAGAC
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 7 0.44
16 5 0.31
17 4 0.25
ACGTcount: A:0.39, C:0.09, G:0.06, T:0.45
Consensus pattern (17 bp):
ATTTTTTCAAGAATCAT
Found at i:64674206 original size:8 final size:8
Alignment explanation
Indices: 64674193--64674249 Score: 60
Period size: 8 Copynumber: 6.4 Consensus size: 8
64674183 CCACCTCAAC
64674193 AAAAATAA
1 AAAAATAA
64674201 AAAAATAA
1 AAAAATAA
64674209 AAAAATATA
1 AAAAATA-A
64674218 AAAATATAA
1 AAAA-ATAA
64674227 AGTATAAAGTAA
1 A--A-AAA-TAA
64674239 AAAAATAA
1 AAAAATAA
64674247 AAA
1 AAA
64674250 GAATTTAATA
Statistics
Matches: 43, Mismatches: 0, Indels: 12
0.78 0.00 0.22
Matches are distributed among these distances:
8 21 0.49
9 10 0.23
10 4 0.09
11 2 0.05
12 6 0.14
ACGTcount: A:0.79, C:0.00, G:0.04, T:0.18
Consensus pattern (8 bp):
AAAAATAA
Found at i:64675960 original size:20 final size:20
Alignment explanation
Indices: 64675935--64675979 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
64675925 AGGGACTAAA
* *
64675935 ATGAAAAGTTGTAAAATTTG
1 ATGAAAAATTATAAAATTTG
*
64675955 ATGAAAAATTATAAAATTTT
1 ATGAAAAATTATAAAATTTG
64675975 ATGAA
1 ATGAA
64675980 TACATGTGCT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.51, C:0.00, G:0.13, T:0.36
Consensus pattern (20 bp):
ATGAAAAATTATAAAATTTG
Found at i:64682030 original size:5 final size:5
Alignment explanation
Indices: 64682022--64682046 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
64682012 AAAAATAAAA
64682022 TTTAT TTTAT TTTAT TTTAT TTTAT
1 TTTAT TTTAT TTTAT TTTAT TTTAT
64682047 GGTTTGTATT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (5 bp):
TTTAT
Found at i:64692946 original size:54 final size:54
Alignment explanation
Indices: 64692855--64693062 Score: 267
Period size: 54 Copynumber: 3.8 Consensus size: 54
64692845 CATATGACCT
* * * *
64692855 AAGGCTCGACTCACTTCTTGCAATATGGGTTGATTTTTGAAAAACAAAAATTAA
1 AAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAAAAATTAA
* *
64692909 AAGG-TACAACTCACCTCTCGCAATATGAGTTGCTTTTTGAAAAACAGAAATTAA
1 AAGGCT-CAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAAAAATTAA
** * *
64692963 AAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAATTATAAATTGA
1 AAGGCTCAACTCACCTCTCGCAATATGAGTTGA--TTTTTGAAAAACAAAAATTAA
*
64693019 AAGGCTCAAC-CTACCTCTCGTAATATGAGTTGATTTTTGAAAAA
1 AAGGCTCAACTC-ACCTCTCGCAATATGAGTTGATTTTTGAAAAA
64693063 TAGGAATTGG
Statistics
Matches: 136, Mismatches: 13, Indels: 10
0.86 0.08 0.06
Matches are distributed among these distances:
53 1 0.01
54 86 0.63
55 2 0.01
56 47 0.35
ACGTcount: A:0.36, C:0.17, G:0.15, T:0.32
Consensus pattern (54 bp):
AAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAAAAATTAA
Found at i:64693046 original size:110 final size:108
Alignment explanation
Indices: 64692855--64693062 Score: 276
Period size: 110 Copynumber: 1.9 Consensus size: 108
64692845 CATATGACCT
* * * *
64692855 AAGGCTCGACTCACTTCTTGCAATATGGGTTGATTTTTGAAAAACAAAAATTAAAAGGTACAACT
1 AAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAAAAATTAAAAGGTACAACT
*
64692920 CACCTCTCGCAATATGAGTTGCTTTTTGAAAAACAGAAATTAA
66 CACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTAA
** * *
64692963 AAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAATTATAAATTGAAAGGCT-CA
1 AAGGCTCAACTCACCTCTCGCAATATGAGTTGA--TTTTTGAAAAACAAAAATTAAAAGG-TACA
*
64693027 AC-CTACCTCTCGTAATATGAGTTGATTTTTGAAAAA
63 ACTC-ACCTCTCGCAATATGAGTTGATTTTTGAAAAA
64693063 TAGGAATTGG
Statistics
Matches: 86, Mismatches: 10, Indels: 6
0.84 0.10 0.06
Matches are distributed among these distances:
108 29 0.34
109 1 0.01
110 55 0.64
111 1 0.01
ACGTcount: A:0.36, C:0.17, G:0.15, T:0.32
Consensus pattern (108 bp):
AAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAAAAATTAAAAGGTACAACT
CACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTAA
Found at i:64693328 original size:258 final size:256
Alignment explanation
Indices: 64693019--64693486 Score: 803
Period size: 258 Copynumber: 1.8 Consensus size: 256
64693009 TATAAATTGA
* *
64693019 AAGGCTCAACCTACCTCTCGTAATATGAGTTGATTTTTGAAAAATAGGAATTGGAAAGTAGAAAT
1 AAGGCTCAACCTACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGGAATTGGAAAGTAGAAAT
64693084 TGAAAATACCTCAGCGTGCCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAC
66 TGAAAATACCTCAGCGTGCCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAC
* * * *
64693149 ATAAATTGAAATTACCTTAACGTGTCTTGAGGTTCAACTCACCTCTCGCAATATGAGTTGATTTT
131 ATAAATTGAAATTACCTCAACGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGCTGATTTT
*
64693214 GGAAAAGTAAAAATTAAAGACAGGATTTGAACAAGAGAATTTGAAAATACCTCGGCGTGCCCC
196 -GAAAA-CAAAAATTAAAGACAGGATTTGAACAAGAGAATTTGAAAATACCTCGGCGTGCCCC
*
64693277 AAGGCTCAA-CTCACTTCTCGCAATATGAGTTGATTTTTGAAAAACAGGAATTGGAAAGTAGAAA
1 AAGGCTCAACCT-ACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGGAATTGGAAAGTAGAAA
64693341 TTGAAAATACCTCAGCGTGCCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAA
65 TTGAAAATACCTCAGCGTGCCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAA
* * *
64693406 CATAAATTGAAATTACCTCATCGTGTCCTGTGGCTCAACTCACCTTTCGCAATATGAGCTGATTT
130 CATAAATTGAAATTACCTCAACGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGCTGATTT
64693471 TGAAAACAAAAATTAA
195 TGAAAACAAAAATTAA
64693487 GAATACCTCA
Statistics
Matches: 198, Mismatches: 11, Indels: 4
0.93 0.05 0.02
Matches are distributed among these distances:
256 9 0.05
257 7 0.04
258 182 0.92
ACGTcount: A:0.34, C:0.19, G:0.18, T:0.28
Consensus pattern (256 bp):
AAGGCTCAACCTACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGGAATTGGAAAGTAGAAAT
TGAAAATACCTCAGCGTGCCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAC
ATAAATTGAAATTACCTCAACGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGCTGATTTT
GAAAACAAAAATTAAAGACAGGATTTGAACAAGAGAATTTGAAAATACCTCGGCGTGCCCC
Found at i:64693456 original size:71 final size:72
Alignment explanation
Indices: 64693338--64693542 Score: 272
Period size: 71 Copynumber: 2.9 Consensus size: 72
64693328 TGGAAAGTAG
* * *
64693338 AAATTGAAAATACCTCAGCGTGCCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTG
1 AAATTGAAAATACCTCAACGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTG
*
64693403 -AAACAT
66 AAAACAA
* * * * *
64693409 AAATTGAAATTACCTCATCGTGTCCTGTGGCTCAACTCACCTTTCGCAATATGAGCTGA-TTTTG
1 AAATTGAAAATACCTCAACGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTG
64693473 AAAACAA
66 AAAACAA
* * *
64693480 AAATT-AAGAATACCTCAACGTGTCTTGAGGCTCAACTCATCTCTCGCAATATAAGTTGATTTT
1 AAATTGAA-AATACCTCAACGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTT
64693543 CCTTGAAAAG
Statistics
Matches: 115, Mismatches: 16, Indels: 5
0.85 0.12 0.04
Matches are distributed among these distances:
70 7 0.06
71 105 0.91
72 3 0.03
ACGTcount: A:0.31, C:0.23, G:0.16, T:0.30
Consensus pattern (72 bp):
AAATTGAAAATACCTCAACGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTG
AAAACAA
Found at i:64703833 original size:35 final size:35
Alignment explanation
Indices: 64703769--64703836 Score: 86
Period size: 35 Copynumber: 1.9 Consensus size: 35
64703759 ACACAATATG
* *
64703769 GTATTTAAAATATATATATATATGTATATATAATA
1 GTATTTAAAATATATACATATATGAATATATAATA
64703804 GTATTTAAGAATATATACATA-A-GAAATATATAA
1 GTATTTAA-AATATATACATATATG-AATATATAA
64703837 CAAATGGCAT
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
34 1 0.03
35 17 0.59
36 11 0.38
ACGTcount: A:0.51, C:0.01, G:0.07, T:0.40
Consensus pattern (35 bp):
GTATTTAAAATATATACATATATGAATATATAATA
Found at i:64710912 original size:30 final size:31
Alignment explanation
Indices: 64710878--64710945 Score: 81
Period size: 30 Copynumber: 2.3 Consensus size: 31
64710868 TATTATATAT
*
64710878 ATACATATAATATAGTTATTAAGAA-A-ATAC-
1 ATACATAT-ATATA-ATATTAAGAATATATACA
64710908 ATACA-ATATATAATATTAAGAATATATACA
1 ATACATATATATAATATTAAGAATATATACA
64710938 ATACATAT
1 ATACATAT
64710946 GGTATTAAAA
Statistics
Matches: 33, Mismatches: 1, Indels: 7
0.80 0.02 0.17
Matches are distributed among these distances:
27 9 0.27
28 6 0.18
29 6 0.18
30 10 0.30
31 2 0.06
ACGTcount: A:0.54, C:0.07, G:0.04, T:0.34
Consensus pattern (31 bp):
ATACATATATATAATATTAAGAATATATACA
Found at i:64710945 original size:27 final size:26
Alignment explanation
Indices: 64710874--64710960 Score: 77
Period size: 27 Copynumber: 3.2 Consensus size: 26
64710864 TACATATTAT
*
64710874 ATATATACATATAATATAGTTATTAAGAAA
1 ATATATACA-ATAATATA-ATATTAAG--A
*
64710904 ATACATACAAT-ATATAATATTAAGA
1 ATATATACAATAATATAATATTAAGA
** *
64710929 ATATATACAATACATATGGTATTAAAA
1 ATATATACAATA-ATATAATATTAAGA
64710956 ATATA
1 ATATA
64710961 GTATTGTAAA
Statistics
Matches: 49, Mismatches: 6, Indels: 7
0.79 0.10 0.11
Matches are distributed among these distances:
25 11 0.22
27 23 0.47
28 5 0.10
29 2 0.04
30 8 0.16
ACGTcount: A:0.54, C:0.06, G:0.06, T:0.34
Consensus pattern (26 bp):
ATATATACAATAATATAATATTAAGA
Found at i:64712949 original size:40 final size:40
Alignment explanation
Indices: 64712864--64713014 Score: 134
Period size: 40 Copynumber: 3.8 Consensus size: 40
64712854 AATTGAATGA
* * *
64712864 TATCCGGGCTAA-ATCCCGAAGACAATTATGCTG-GAAATTA-
1 TATCCGGGCTAAGA-CCCGAAGGCAATTGTGC-GAGATA-TAC
* * *
64712904 TATCCGGGTTAAGACCCGAAGGCAATTGTGCTAG-TGGCTAC
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGAT--ATAC
*
64712945 -ATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGATATTC
1 TATCCGGGCTAAGACCCGAAGGCAATT-GTGCGAGATATAC
*
64712984 TATCCGGGCTAAGACCCGAAGGCATTTGTGC
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGC
64713015 ACGTGATTAT
Statistics
Matches: 91, Mismatches: 11, Indels: 18
0.76 0.09 0.15
Matches are distributed among these distances:
39 5 0.05
40 82 0.90
41 4 0.04
ACGTcount: A:0.27, C:0.23, G:0.26, T:0.23
Consensus pattern (40 bp):
TATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGATATAC
Found at i:64713028 original size:40 final size:40
Alignment explanation
Indices: 64712900--64713030 Score: 158
Period size: 40 Copynumber: 3.3 Consensus size: 40
64712890 TATGCTGGAA
* * *
64712900 ATTATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTG
1 ATTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTG
** * *
64712940 GCTACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGAT-
1 ATTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAG-TG
*
64712980 ATTCTATCCGGGCTAAGACCCGAAGGCATTTGTGC-ACGTG
1 ATTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGA-GTG
64713020 ATTATATCCGG
1 ATTATATCCGG
64713031 TTATATTCCG
Statistics
Matches: 75, Mismatches: 13, Indels: 6
0.80 0.14 0.06
Matches are distributed among these distances:
39 2 0.03
40 72 0.96
41 1 0.01
ACGTcount: A:0.25, C:0.23, G:0.27, T:0.24
Consensus pattern (40 bp):
ATTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTG
Found at i:64714545 original size:23 final size:22
Alignment explanation
Indices: 64714508--64714561 Score: 65
Period size: 24 Copynumber: 2.4 Consensus size: 22
64714498 ATAGTATAAG
*
64714508 AAATATATAACTAAT-GACATT
1 AAATATATAACTAATAGACATA
*
64714529 AAATATATATACATAATAGATATA
1 AAATATATA-AC-TAATAGACATA
64714553 AAATATATA
1 AAATATATA
64714562 CAATATATAC
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
21 9 0.32
22 2 0.07
23 4 0.14
24 13 0.46
ACGTcount: A:0.57, C:0.06, G:0.04, T:0.33
Consensus pattern (22 bp):
AAATATATAACTAATAGACATA
Found at i:64714561 original size:22 final size:22
Alignment explanation
Indices: 64714466--64714563 Score: 69
Period size: 22 Copynumber: 4.3 Consensus size: 22
64714456 TTTTAGAATG
*
64714466 TATACATAAGATGATAT-AAATA
1 TATACATAATA-GATATAAAATA
*
64714488 CATACATGGAATAG-TATAAGAAATA
1 TATACAT--AATAGATAT-A-AAATA
*
64714513 TATA-ACTAAT-GACATTAAATATA
1 TATACA-TAATAGATA-TAAA-ATA
64714536 TATACATAATAGATATAAAATA
1 TATACATAATAGATATAAAATA
64714558 TATACA
1 TATACA
64714564 ATATATACCT
Statistics
Matches: 60, Mismatches: 5, Indels: 22
0.69 0.06 0.25
Matches are distributed among these distances:
22 21 0.35
23 21 0.35
24 9 0.15
25 9 0.15
ACGTcount: A:0.54, C:0.07, G:0.08, T:0.31
Consensus pattern (22 bp):
TATACATAATAGATATAAAATA
Found at i:64714807 original size:3 final size:3
Alignment explanation
Indices: 64714799--64714835 Score: 74
Period size: 3 Copynumber: 12.3 Consensus size: 3
64714789 ATAACAACCC
64714799 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
64714836 GATAAATAAC
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 34 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:64715559 original size:18 final size:17
Alignment explanation
Indices: 64715534--64715573 Score: 55
Period size: 18 Copynumber: 2.3 Consensus size: 17
64715524 GTAGATTTTT
64715534 TAAAAAAAATAGAAA-AA
1 TAAAAAAAAT-GAAATAA
64715551 TAAATAAAAATGAAATAA
1 TAAA-AAAAATGAAATAA
64715569 TAAAA
1 TAAAA
64715574 GTAAACAAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
17 9 0.43
18 12 0.57
ACGTcount: A:0.78, C:0.00, G:0.05, T:0.17
Consensus pattern (17 bp):
TAAAAAAAATGAAATAA
Found at i:64718140 original size:22 final size:21
Alignment explanation
Indices: 64718084--64718126 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
64718074 TATCAAATAC
64718084 ATATATATACATGTACCGAAA
1 ATATATATACATGTACCGAAA
64718105 ATATATATACATGTACCGAAA
1 ATATATATACATGTACCGAAA
64718126 A
1 A
64718127 ATAATCTAAC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.49, C:0.14, G:0.09, T:0.28
Consensus pattern (21 bp):
ATATATATACATGTACCGAAA
Found at i:64730870 original size:64 final size:64
Alignment explanation
Indices: 64730797--64731013 Score: 145
Period size: 64 Copynumber: 3.3 Consensus size: 64
64730787 CTACGCCAGA
* *
64730797 GCCCTTTTCAAATTACAATAAACTAGGCCTTAGCCCCTTATTCAGATAACAGTATGGCCCATAG
1 GCCCATTTCAAAATACAATAAACTAGGCCTTAGCCCCTTATTCAGATAACAGTATGGCCCATAG
* *** * ** *
64730861 GCCCATTTCAAAATAC-ATGCAACATCAATAACATATGCAAGCCC--ATTTGGGTAACAGTGGTA
1 GCCCATTTCAAAATACAAT--AA-A-CTAGGCCTTA-GC---CCCTTATTCAGATAACA---GTA
* *
64730923 CTGGGCCAGA-
55 -TGGCCCATAG
* * * * *
64730933 GCCCTTTTCAGATTACAATAAACTGGGCCTTAGCCCCTTATACAGATAACAGTATGGCCCATAG
1 GCCCATTTCAAAATACAATAAACTAGGCCTTAGCCCCTTATTCAGATAACAGTATGGCCCATAG
64730997 GCCCATTTCAAAATACA
1 GCCCATTTCAAAATACA
64731014 TGCAACATCA
Statistics
Matches: 107, Mismatches: 30, Indels: 32
0.63 0.18 0.19
Matches are distributed among these distances:
63 9 0.08
64 31 0.29
65 5 0.05
66 1 0.01
67 13 0.12
68 4 0.04
69 13 0.12
70 1 0.01
71 5 0.05
72 16 0.15
73 9 0.08
ACGTcount: A:0.33, C:0.26, G:0.16, T:0.25
Consensus pattern (64 bp):
GCCCATTTCAAAATACAATAAACTAGGCCTTAGCCCCTTATTCAGATAACAGTATGGCCCATAG
Found at i:64731007 original size:136 final size:136
Alignment explanation
Indices: 64730763--64731184 Score: 745
Period size: 136 Copynumber: 3.1 Consensus size: 136
64730753 TATTGGGCCT
** ** * *
64730763 AAGCCCATTCAGGTAACAGTGGTACTACGCCAGAGCCCTTTTCAAATTACAATAAACTAGGCCTT
1 AAGCCCATTTGGGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
64730828 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAATAAC
66 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAATAAC
64730893 ATATGC
131 ATATGC
64730899 AAGCCCATTTGGGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
1 AAGCCCATTTGGGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
*
64730964 AGCCCCTTATACAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAATAAC
66 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAATAAC
64731029 ATATGC
131 ATATGC
*
64731035 AAGCCCATTTGGGTAATAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
1 AAGCCCATTTGGGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
* *
64731100 AGACCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAGTAAA
66 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAAT-AA
64731165 CATATGC
130 CATATGC
64731172 AAGCCCATTTGGG
1 AAGCCCATTTGGG
64731185 GAGACTACTC
Statistics
Matches: 274, Mismatches: 11, Indels: 1
0.96 0.04 0.00
Matches are distributed among these distances:
136 252 0.92
137 22 0.08
ACGTcount: A:0.33, C:0.25, G:0.18, T:0.25
Consensus pattern (136 bp):
AAGCCCATTTGGGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAATAAC
ATATGC
Found at i:64731469 original size:25 final size:27
Alignment explanation
Indices: 64731432--64731485 Score: 67
Period size: 26 Copynumber: 2.1 Consensus size: 27
64731422 TCAAACATGC
64731432 ATTTAGGTCAATTTAAC-CCTAGGGGT
1 ATTTAGGTCAATTTAACACCTAGGGGT
* **
64731458 ATTTCGGT-AATTTTGCACCTAGGGGT
1 ATTTAGGTCAATTTAACACCTAGGGGT
64731484 AT
1 AT
64731486 AACAGTAATT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
25 6 0.25
26 18 0.75
ACGTcount: A:0.24, C:0.15, G:0.24, T:0.37
Consensus pattern (27 bp):
ATTTAGGTCAATTTAACACCTAGGGGT
Found at i:64732979 original size:14 final size:14
Alignment explanation
Indices: 64732962--64733004 Score: 56
Period size: 14 Copynumber: 3.2 Consensus size: 14
64732952 CATGAAATTC
64732962 TTATCATGAAACAT
1 TTATCATGAAACAT
64732976 TTATC-T-AAACCA-
1 TTATCATGAAA-CAT
64732988 TTATCATGAAACAT
1 TTATCATGAAACAT
64733002 TTA
1 TTA
64733005 CCTAACCCAT
Statistics
Matches: 25, Mismatches: 0, Indels: 8
0.76 0.00 0.24
Matches are distributed among these distances:
12 8 0.32
13 6 0.24
14 11 0.44
ACGTcount: A:0.42, C:0.16, G:0.05, T:0.37
Consensus pattern (14 bp):
TTATCATGAAACAT
Found at i:64732998 original size:26 final size:26
Alignment explanation
Indices: 64732962--64733071 Score: 166
Period size: 26 Copynumber: 4.2 Consensus size: 26
64732952 CATGAAATTC
* *
64732962 TTATCATGAAACATTTATCTAAACCA
1 TTATCATGAAACATTTACCTAACCCA
64732988 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* * *
64733014 TTATCATGGAATATTTACCTAATCCA
1 TTATCATGAAACATTTACCTAACCCA
*
64733040 TTATCATGGAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
64733066 TTATCA
1 TTATCA
64733072 ATTTGTATCA
Statistics
Matches: 77, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 77 1.00
ACGTcount: A:0.37, C:0.23, G:0.05, T:0.35
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:64733002 original size:13 final size:13
Alignment explanation
Indices: 64732962--64733002 Score: 50
Period size: 12 Copynumber: 3.2 Consensus size: 13
64732952 CATGAAATTC
64732962 TTATCATGAAACA
1 TTATCATGAAACA
64732975 TTTATC-T-AAACCA
1 -TTATCATGAAA-CA
64732988 TTATCATGAAACA
1 TTATCATGAAACA
64733001 TT
1 TT
64733003 TACCTAACCC
Statistics
Matches: 24, Mismatches: 0, Indels: 7
0.77 0.00 0.23
Matches are distributed among these distances:
12 8 0.33
13 8 0.33
14 8 0.33
ACGTcount: A:0.41, C:0.17, G:0.05, T:0.37
Consensus pattern (13 bp):
TTATCATGAAACA
Found at i:64738184 original size:17 final size:18
Alignment explanation
Indices: 64738159--64738192 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
64738149 CTCTTTTTCC
64738159 TTCACTAGGATTTTTTTT
1 TTCACTAGGATTTTTTTT
*
64738177 TTCA-TAGGGTTTTTTT
1 TTCACTAGGATTTTTTT
64738193 ATCTTAGTAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 11 0.73
18 4 0.27
ACGTcount: A:0.15, C:0.09, G:0.15, T:0.62
Consensus pattern (18 bp):
TTCACTAGGATTTTTTTT
Found at i:64740177 original size:3 final size:3
Alignment explanation
Indices: 64740169--64740201 Score: 57
Period size: 3 Copynumber: 11.0 Consensus size: 3
64740159 TGCTAAAATC
*
64740169 AAT AAT AAT AAT AAT AAT ATT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
64740202 CTAATTTTTT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (3 bp):
AAT
Found at i:64741735 original size:19 final size:18
Alignment explanation
Indices: 64741694--64741736 Score: 50
Period size: 19 Copynumber: 2.3 Consensus size: 18
64741684 TGCCATGTTT
*
64741694 AAAAATTAAAAAAATAAT
1 AAAAATTAAAAAAATAAC
* *
64741712 TAAAATCTAAAAAAATCAC
1 AAAAAT-TAAAAAAATAAC
64741731 AAAAAT
1 AAAAAT
64741737 ATGAAAACCT
Statistics
Matches: 20, Mismatches: 4, Indels: 1
0.80 0.16 0.04
Matches are distributed among these distances:
18 5 0.25
19 15 0.75
ACGTcount: A:0.72, C:0.07, G:0.00, T:0.21
Consensus pattern (18 bp):
AAAAATTAAAAAAATAAC
Found at i:64750412 original size:35 final size:35
Alignment explanation
Indices: 64750351--64750464 Score: 156
Period size: 35 Copynumber: 3.2 Consensus size: 35
64750341 AATCCCTTCA
* * *
64750351 AAACACACCAACTGCTCACAAGAGCTAGTCCTACCG
1 AAACACGCCAA-TGCTCATAAGAGCTAGTCCAACCG
* *
64750387 AAACATGCCAATGCTCATAATAGCTAGTCCAACCG
1 AAACACGCCAATGCTCATAAGAGCTAGTCCAACCG
* *
64750422 AAACACGCCAATGCTCATAAGAGATAGTCCAACTG
1 AAACACGCCAATGCTCATAAGAGCTAGTCCAACCG
64750457 AAACACGC
1 AAACACGC
64750465 TAAACAAAAA
Statistics
Matches: 69, Mismatches: 9, Indels: 1
0.87 0.11 0.01
Matches are distributed among these distances:
35 60 0.87
36 9 0.13
ACGTcount: A:0.39, C:0.31, G:0.15, T:0.16
Consensus pattern (35 bp):
AAACACGCCAATGCTCATAAGAGCTAGTCCAACCG
Found at i:64752421 original size:35 final size:34
Alignment explanation
Indices: 64752381--64752473 Score: 114
Period size: 35 Copynumber: 2.7 Consensus size: 34
64752371 TCGATACGGA
* * * *
64752381 AAATACCATACCTACGTATTATAGCTCGGTTTGG
1 AAATACCATACCTACATATCATAGCTCAGTATGG
*
64752415 AGAATACCATACCTACATATCATAGCTTAGTATGG
1 A-AATACCATACCTACATATCATAGCTCAGTATGG
*
64752450 AATATACCATACCTACATGTCATA
1 AA-ATACCATACCTACATATCATA
64752474 ACATTTCCAT
Statistics
Matches: 51, Mismatches: 6, Indels: 3
0.85 0.10 0.05
Matches are distributed among these distances:
34 2 0.04
35 49 0.96
ACGTcount: A:0.35, C:0.22, G:0.13, T:0.30
Consensus pattern (34 bp):
AAATACCATACCTACATATCATAGCTCAGTATGG
Found at i:64752494 original size:35 final size:35
Alignment explanation
Indices: 64752418--64752494 Score: 84
Period size: 35 Copynumber: 2.2 Consensus size: 35
64752408 GGTTTGGAGA
* **
64752418 ATACCATACCTACATATCATAGCTTAGTATGGAAT
1 ATACCATACCTACATATCATAACTTACCATGGAAT
* * *
64752453 ATACCATACCTACATGTCATAACATTTCCATGGATT
1 ATACCATACCTACATATCATAAC-TTACCATGGAAT
64752489 A-ACCAT
1 ATACCAT
64752495 GGTCTTATCC
Statistics
Matches: 35, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
35 26 0.74
36 9 0.26
ACGTcount: A:0.36, C:0.23, G:0.09, T:0.31
Consensus pattern (35 bp):
ATACCATACCTACATATCATAACTTACCATGGAAT
Found at i:64754319 original size:16 final size:16
Alignment explanation
Indices: 64754298--64754333 Score: 63
Period size: 16 Copynumber: 2.2 Consensus size: 16
64754288 AATTTACCAC
*
64754298 TTAAGTCCTTTCTTAT
1 TTAAGTCCTTCCTTAT
64754314 TTAAGTCCTTCCTTAT
1 TTAAGTCCTTCCTTAT
64754330 TTAA
1 TTAA
64754334 CTTTCAAGCT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.22, C:0.19, G:0.06, T:0.53
Consensus pattern (16 bp):
TTAAGTCCTTCCTTAT
Found at i:64756160 original size:16 final size:16
Alignment explanation
Indices: 64756139--64756170 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
64756129 TGTACCAATC
64756139 CAACATGAGAATAAAT
1 CAACATGAGAATAAAT
64756155 CAACATGAGAATAAAT
1 CAACATGAGAATAAAT
64756171 GATTCCTAAG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.56, C:0.12, G:0.12, T:0.19
Consensus pattern (16 bp):
CAACATGAGAATAAAT
Found at i:64756354 original size:30 final size:30
Alignment explanation
Indices: 64756318--64756541 Score: 190
Period size: 30 Copynumber: 7.5 Consensus size: 30
64756308 TTACCACCAG
*
64756318 TTTTCATAGTTCGATAGTCGATGCTATCCC
1 TTTTCATAGTTCGATAGTCGAAGCTATCCC
* * *
64756348 TTTTCATATTTTGAT-GATC-ATCA-CCATCCC
1 TTTTCATAGTTCGATAG-TCGA--AGCTATCCC
* * * *
64756378 TTTTCACAGTT-GATGGTCGTCA-CCATCCC
1 TTTTCATAGTTCGATAGTCG-AAGCTATCCC
* * * *
64756407 CTTTCATAATTTGATAGCCGAAGCTATCCC
1 TTTTCATAGTTCGATAGTCGAAGCTATCCC
* *
64756437 TTTTCATAATTCGATAGTCGAAGCTATCCT
1 TTTTCATAGTTCGATAGTCGAAGCTATCCC
64756467 TTTTCATAGTTCGATAG-CTGAAGCTATCCC
1 TTTTCATAGTTCGATAGTC-GAAGCTATCCC
* * * * *
64756497 TTTTAATAGCTCGATAGCCGAAGTTATACC
1 TTTTCATAGTTCGATAGTCGAAGCTATCCC
64756527 TTTTCATAGTTCGAT
1 TTTTCATAGTTCGAT
64756542 GGTCATGTAA
Statistics
Matches: 158, Mismatches: 26, Indels: 20
0.77 0.13 0.10
Matches are distributed among these distances:
29 25 0.16
30 132 0.84
31 1 0.01
ACGTcount: A:0.24, C:0.24, G:0.14, T:0.38
Consensus pattern (30 bp):
TTTTCATAGTTCGATAGTCGAAGCTATCCC
Found at i:64756400 original size:29 final size:30
Alignment explanation
Indices: 64756343--64756412 Score: 88
Period size: 29 Copynumber: 2.4 Consensus size: 30
64756333 AGTCGATGCT
* *
64756343 ATCCCTTTTCATATTTTGATGATCATCACC
1 ATCCCTTTTCACATGTTGATGATCATCACC
* *
64756373 ATCCCTTTTCACA-GTTGATGGTCGTCACC
1 ATCCCTTTTCACATGTTGATGATCATCACC
*
64756402 ATCCCCTTTCA
1 ATCCCTTTTCA
64756413 TAATTTGATA
Statistics
Matches: 35, Mismatches: 5, Indels: 1
0.85 0.12 0.02
Matches are distributed among these distances:
29 23 0.66
30 12 0.34
ACGTcount: A:0.20, C:0.31, G:0.10, T:0.39
Consensus pattern (30 bp):
ATCCCTTTTCACATGTTGATGATCATCACC
Found at i:64759007 original size:25 final size:27
Alignment explanation
Indices: 64758970--64759022 Score: 74
Period size: 26 Copynumber: 2.0 Consensus size: 27
64758960 TCAAACATGC
64758970 ATTTAGGTCAATTTAAC-CCTAGGGGT
1 ATTTAGGTCAATTTAACTCCTAGGGGT
* *
64758996 ATTTCGGT-AATTTATCTCCTAGGGGT
1 ATTTAGGTCAATTTAACTCCTAGGGGT
64759022 A
1 A
64759023 AAACTGTAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 7 0.29
26 17 0.71
ACGTcount: A:0.25, C:0.15, G:0.23, T:0.38
Consensus pattern (27 bp):
ATTTAGGTCAATTTAACTCCTAGGGGT
Found at i:64765362 original size:12 final size:12
Alignment explanation
Indices: 64765345--64765375 Score: 62
Period size: 12 Copynumber: 2.6 Consensus size: 12
64765335 AGTACTACCT
64765345 CGGCCTCGACCA
1 CGGCCTCGACCA
64765357 CGGCCTCGACCA
1 CGGCCTCGACCA
64765369 CGGCCTC
1 CGGCCTC
64765376 TTCCCGAGTA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.13, C:0.52, G:0.26, T:0.10
Consensus pattern (12 bp):
CGGCCTCGACCA
Found at i:64767002 original size:25 final size:27
Alignment explanation
Indices: 64766965--64767014 Score: 68
Period size: 26 Copynumber: 1.9 Consensus size: 27
64766955 TCAAACATGC
64766965 ATTTAGGTCAATTTAAC-CCTAGGGGT
1 ATTTAGGTCAATTTAACTCCTAGGGGT
* *
64766991 ATTTCGGT-AATTTATCTCCTAGGG
1 ATTTAGGTCAATTTAACTCCTAGGG
64767015 TAAAACTGTA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
25 7 0.33
26 14 0.67
ACGTcount: A:0.24, C:0.16, G:0.22, T:0.38
Consensus pattern (27 bp):
ATTTAGGTCAATTTAACTCCTAGGGGT
Found at i:64768528 original size:30 final size:30
Alignment explanation
Indices: 64768492--64768550 Score: 118
Period size: 30 Copynumber: 2.0 Consensus size: 30
64768482 AATGCTTACC
64768492 ATGCCCATCATCCATTAACTATTAAAATGA
1 ATGCCCATCATCCATTAACTATTAAAATGA
64768522 ATGCCCATCATCCATTAACTATTAAAATG
1 ATGCCCATCATCCATTAACTATTAAAATG
64768551 CTAAAATGCA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.39, C:0.24, G:0.07, T:0.31
Consensus pattern (30 bp):
ATGCCCATCATCCATTAACTATTAAAATGA
Found at i:64774443 original size:17 final size:18
Alignment explanation
Indices: 64774401--64774446 Score: 51
Period size: 17 Copynumber: 2.7 Consensus size: 18
64774391 TATCATTTAC
**
64774401 CATTTATCAAGCATTATT
1 CATTTATCGGGCATTATT
*
64774419 -ATTGATCGGGCATT-TT
1 CATTTATCGGGCATTATT
64774435 CATTTATCGGGC
1 CATTTATCGGGC
64774447 TATAACGAGT
Statistics
Matches: 23, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
16 2 0.09
17 21 0.91
ACGTcount: A:0.24, C:0.17, G:0.17, T:0.41
Consensus pattern (18 bp):
CATTTATCGGGCATTATT
Done.