Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr03 135709677
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: 135709677
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 350 characters in sequence are not A, C, G, or T
File 214 of 438
Found at i:66365912 original size:27 final size:27
Alignment explanation
Indices: 66365766--66365891 Score: 180
Period size: 27 Copynumber: 4.7 Consensus size: 27
66365756 CAAATCGAGA
* * * *
66365766 GTATTTCGATAATTTCACAAATCAGGG
1 GTATTTTGGTAATTTTACAAACCAGGG
* *
66365793 GTATTTTGGTAATTTTACAAGCCAGGA
1 GTATTTTGGTAATTTTACAAACCAGGG
*
66365820 GTATTTTGGTAATTTTACAAACTAGGG
1 GTATTTTGGTAATTTTACAAACCAGGG
*
66365847 GTATTTTAGTAATTTTACAAACCAGGG
1 GTATTTTGGTAATTTTACAAACCAGGG
66365874 GTATTTTGGTAATTTTAC
1 GTATTTTGGTAATTTTAC
66365892 TGATCGAGGG
Statistics
Matches: 87, Mismatches: 12, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 87 1.00
ACGTcount: A:0.30, C:0.10, G:0.20, T:0.40
Consensus pattern (27 bp):
GTATTTTGGTAATTTTACAAACCAGGG
Found at i:66365959 original size:27 final size:27
Alignment explanation
Indices: 66365937--66366290 Score: 505
Period size: 27 Copynumber: 13.1 Consensus size: 27
66365927 AATAATTTTG
* *
66365937 TAAATCGAGGATAAAACT-GTAATTCTG
1 TAAATCGAGGGTAAAA-TGGTAATTCTA
* *
66365964 TAAATCGAGGGTAAAACGATAATTCTA
1 TAAATCGAGGGTAAAATGGTAATTCTA
* * *
66365991 TAAATTGAGGGTAAAACGGTAATTATA
1 TAAATCGAGGGTAAAATGGTAATTCTA
*
66366018 TAAATCAAGGGTAAAATGGTAATTCTA
1 TAAATCGAGGGTAAAATGGTAATTCTA
* *
66366045 TAAATTGAGGGTAAAATGGTAATTCTG
1 TAAATCGAGGGTAAAATGGTAATTCTA
*
66366072 TAAATCGAGGGTAAAACGGTAATTCTA
1 TAAATCGAGGGTAAAATGGTAATTCTA
*
66366099 TAAATCGAGGGTAAAA-CGTAATTCTA
1 TAAATCGAGGGTAAAATGGTAATTCTA
*
66366125 TAAATCGAGGATAAAATGGTAATTCTA
1 TAAATCGAGGGTAAAATGGTAATTCTA
* *
66366152 TAAATCAAGGGTAAAATGGTAATTCTG
1 TAAATCGAGGGTAAAATGGTAATTCTA
* **
66366179 TAAATTGAGGGTAAAACAGTAATTCTA
1 TAAATCGAGGGTAAAATGGTAATTCTA
*
66366206 TAAATCGAGGGTAAAATGGTAATTCTG
1 TAAATCGAGGGTAAAATGGTAATTCTA
66366233 TAAATCGAGGGTAAAATGGTAATTCTA
1 TAAATCGAGGGTAAAATGGTAATTCTA
*
66366260 TAAATCGAGGGTAAAATGGTAATTCTG
1 TAAATCGAGGGTAAAATGGTAATTCTA
66366287 TAAA
1 TAAA
66366291 ATTTGAGGGC
Statistics
Matches: 291, Mismatches: 34, Indels: 4
0.88 0.10 0.01
Matches are distributed among these distances:
26 24 0.08
27 267 0.92
ACGTcount: A:0.42, C:0.08, G:0.21, T:0.29
Consensus pattern (27 bp):
TAAATCGAGGGTAAAATGGTAATTCTA
Found at i:66368541 original size:41 final size:44
Alignment explanation
Indices: 66368494--66368576 Score: 109
Period size: 44 Copynumber: 2.0 Consensus size: 44
66368484 GCGATTGAAA
*
66368494 TTAGCTTCGGCTA-CT-A-AAGGCACTAAGTGTGTGATATCGAC
1 TTAGCTTCGGCTAGCTGAGAAGGCACTAAGTGTGTGAAATCGAC
* * *
66368535 TTAGCTTCGGTTAGTTGAGATGGCACTAAGTGTGTGAAATCG
1 TTAGCTTCGGCTAGCTGAGAAGGCACTAAGTGTGTGAAATCG
66368577 TTCTATCTTC
Statistics
Matches: 35, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
41 12 0.34
42 1 0.03
43 1 0.03
44 21 0.60
ACGTcount: A:0.25, C:0.16, G:0.28, T:0.31
Consensus pattern (44 bp):
TTAGCTTCGGCTAGCTGAGAAGGCACTAAGTGTGTGAAATCGAC
Found at i:66376909 original size:40 final size:41
Alignment explanation
Indices: 66376856--66376943 Score: 142
Period size: 41 Copynumber: 2.2 Consensus size: 41
66376846 TTTTAAAATT
*
66376856 CAGAGCAATAGTGGCGTTCTA-AAAAAAACGCCGCTAAAAA
1 CAGAGCAACAGTGGCGTTCTAGAAAAAAACGCCGCTAAAAA
* *
66376896 CAGAGCAACAGTGGCGTTTTAGTAAAAAACGCCGCTAAAAA
1 CAGAGCAACAGTGGCGTTCTAGAAAAAAACGCCGCTAAAAA
66376937 CAGAGCA
1 CAGAGCA
66376944 TTAGCGGCGC
Statistics
Matches: 44, Mismatches: 3, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
40 19 0.43
41 25 0.57
ACGTcount: A:0.43, C:0.20, G:0.22, T:0.15
Consensus pattern (41 bp):
CAGAGCAACAGTGGCGTTCTAGAAAAAAACGCCGCTAAAAA
Found at i:66376982 original size:41 final size:41
Alignment explanation
Indices: 66376921--66377139 Score: 350
Period size: 41 Copynumber: 5.4 Consensus size: 41
66376911 GTTTTAGTAA
* *
66376921 AAAACGCCGCTAAAA-ACAGAGCATTAGCGGCGCTTTCTGT
1 AAAACGCCGCTAAAAGCCAGAGCATTAGCGGCGCTTTCGGT
* * **
66376961 AAAACGCTGCTAAAAGCCAGAGCATTAGCTGCGCTTTCTAT
1 AAAACGCCGCTAAAAGCCAGAGCATTAGCGGCGCTTTCGGT
*
66377002 AAAACGCCGCTAAAAGCCAGAGCATTAGCGGTGCTTTCGGT
1 AAAACGCCGCTAAAAGCCAGAGCATTAGCGGCGCTTTCGGT
* *
66377043 AAAACGCCACTAAAAGCTAGAGCATTAGCGGCGCTTTCGGT
1 AAAACGCCGCTAAAAGCCAGAGCATTAGCGGCGCTTTCGGT
66377084 AAAACGCCGCTAAAAGCCAGAGCATTAGCGGCGCTTTCGGT
1 AAAACGCCGCTAAAAGCCAGAGCATTAGCGGCGCTTTCGGT
66377125 AAAACGCCGCTAAAA
1 AAAACGCCGCTAAAA
66377140 ATCTCATAAC
Statistics
Matches: 164, Mismatches: 14, Indels: 1
0.92 0.08 0.01
Matches are distributed among these distances:
40 14 0.09
41 150 0.91
ACGTcount: A:0.32, C:0.25, G:0.23, T:0.19
Consensus pattern (41 bp):
AAAACGCCGCTAAAAGCCAGAGCATTAGCGGCGCTTTCGGT
Found at i:66377045 original size:82 final size:82
Alignment explanation
Indices: 66376880--66377139 Score: 353
Period size: 82 Copynumber: 3.2 Consensus size: 82
66376870 CGTTCTAAAA
* ** * * * * *
66376880 AAAACGCCGCTAAAA-ACAGAGCAACAGTGGCGTTTTAGTAAAAAACGCCGCTAAAA-ACAGAGC
1 AAAACGCCGCTAAAAGCCAGAGCATTAGCGGCGCTTTCG-ATAAAACGCCGCTAAAAGCCAGAGC
*
66376943 ATTAGCGGCGCTTTCTGT
65 ATTAGCGGCGCTTTCGGT
* * *
66376961 AAAACGCTGCTAAAAGCCAGAGCATTAGCTGCGCTTTCTATAAAACGCCGCTAAAAGCCAGAGCA
1 AAAACGCCGCTAAAAGCCAGAGCATTAGCGGCGCTTTCGATAAAACGCCGCTAAAAGCCAGAGCA
*
66377026 TTAGCGGTGCTTTCGGT
66 TTAGCGGCGCTTTCGGT
* * *
66377043 AAAACGCCACTAAAAGCTAGAGCATTAGCGGCGCTTTCGGTAAAACGCCGCTAAAAGCCAGAGCA
1 AAAACGCCGCTAAAAGCCAGAGCATTAGCGGCGCTTTCGATAAAACGCCGCTAAAAGCCAGAGCA
66377108 TTAGCGGCGCTTTCGGT
66 TTAGCGGCGCTTTCGGT
66377125 AAAACGCCGCTAAAA
1 AAAACGCCGCTAAAA
66377140 ATCTCATAAC
Statistics
Matches: 156, Mismatches: 21, Indels: 3
0.87 0.12 0.02
Matches are distributed among these distances:
81 30 0.19
82 126 0.81
ACGTcount: A:0.34, C:0.24, G:0.23, T:0.19
Consensus pattern (82 bp):
AAAACGCCGCTAAAAGCCAGAGCATTAGCGGCGCTTTCGATAAAACGCCGCTAAAAGCCAGAGCA
TTAGCGGCGCTTTCGGT
Found at i:66378968 original size:27 final size:27
Alignment explanation
Indices: 66378385--66378967 Score: 762
Period size: 27 Copynumber: 21.6 Consensus size: 27
66378375 AAAGTACTCC
66378385 CGATTTACAGAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
* *
66378412 C-AGTTTATAGAATTACTGTTTTACCCT
1 CGA-TTTACAGAATTACCGTTTTACCCT
** *
66378439 CGATTTGTAAAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
*
66378466 CGATTTATAGAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
** *
66378493 CGATTTGTAAAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
66378520 CGATTTACAGAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
**
66378547 C-AGTTTACAGAATTACTATTTTACCCT
1 CGA-TTTACAGAATTACCGTTTTACCCT
66378574 CGATTTACAGAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
**
66378601 C-AGTTTACAGAATTATTGTTTTACCCT
1 CGA-TTTACAGAATTACCGTTTTACCCT
* ** *
66378628 TGATTTACAGAATTACTATTTTACGCT
1 CGATTTACAGAATTACCGTTTTACCCT
*
66378655 CGATTTATAGAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
** *
66378682 CGATTTGTAAAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
66378709 CGATTTACAGAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
**
66378736 C-AGTTTACAGAATTACTATTTTACCCT
1 CGA-TTTACAGAATTACCGTTTTACCCT
*
66378763 CGATTTATAGAATTACCGTTTTACCC-
1 CGATTTACAGAATTACCGTTTTACCCT
* * * *
66378789 CTAATTTACATAATTACCATTTTACCCC
1 C-GATTTACAGAATTACCGTTTTACCCT
* *
66378817 CGATTTACATAATTATCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
66378844 CGATTTACAGAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
*
66378871 CGATTTACAGAATTACCATTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
* *
66378898 CGATTTATAGAATTACTGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
* *
66378925 TGATTTACAGAATTACTGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
*
66378952 CGATTTACAAAATTAC
1 CGATTTACAGAATTAC
66378968 TAAAATACCC
Statistics
Matches: 491, Mismatches: 55, Indels: 20
0.87 0.10 0.04
Matches are distributed among these distances:
26 5 0.01
27 481 0.98
28 5 0.01
ACGTcount: A:0.27, C:0.22, G:0.10, T:0.40
Consensus pattern (27 bp):
CGATTTACAGAATTACCGTTTTACCCT
Found at i:66380355 original size:20 final size:20
Alignment explanation
Indices: 66380295--66380355 Score: 104
Period size: 20 Copynumber: 3.0 Consensus size: 20
66380285 ATAAATATGG
*
66380295 TATGTATGAGATGCACATGA
1 TATGTATGATATGCACATGA
*
66380315 CATGTATGATATGCACATGA
1 TATGTATGATATGCACATGA
66380335 TATGTATGATATGCACATGA
1 TATGTATGATATGCACATGA
66380355 T
1 T
66380356 GTAATCATAA
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 38 1.00
ACGTcount: A:0.34, C:0.11, G:0.21, T:0.33
Consensus pattern (20 bp):
TATGTATGATATGCACATGA
Found at i:66380432 original size:24 final size:24
Alignment explanation
Indices: 66380405--66380547 Score: 218
Period size: 24 Copynumber: 6.0 Consensus size: 24
66380395 GAGGAAGTGA
66380405 AAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
*
66380429 AAAAGGGCTTATGCCCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTATT
66380453 AAAAGGGCTTATGCCCCAGTTA-T
1 AAAAGGGCTTATGCCCCAGTTATT
66380476 AAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
* *
66380500 GAAAGGGCTTTTGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
*
66380524 AAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAG-GGCTTATGCC-CCAGTTAT
66380548 ATGATAAAGC
Statistics
Matches: 109, Mismatches: 7, Indels: 5
0.90 0.06 0.04
Matches are distributed among these distances:
23 22 0.20
24 76 0.70
25 11 0.10
ACGTcount: A:0.29, C:0.22, G:0.22, T:0.27
Consensus pattern (24 bp):
AAAAGGGCTTATGCCCCAGTTATT
Found at i:66380497 original size:47 final size:48
Alignment explanation
Indices: 66380405--66380547 Score: 218
Period size: 47 Copynumber: 3.0 Consensus size: 48
66380395 GAGGAAGTGA
66380405 AAAAGGGCTTATGCCCCAGTTATTAAAAGGGCTTATGCCCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTATTAAAAGGGCTTATGCCCCAGTTATC
*
66380453 AAAAGGGCTTATGCCCCAGTTA-TAAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATTAAAAGGGCTTATGCCCCAGTTATC
* * *
66380500 GAAAGGGCTTTTGCCCCAGTTATTAAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAGGGCTTATGCCCCAGTTATTAAAAG-GGCTTATGCC-CCAGTTAT
66380548 ATGATAAAGC
Statistics
Matches: 88, Mismatches: 4, Indels: 5
0.91 0.04 0.05
Matches are distributed among these distances:
47 44 0.50
48 33 0.38
49 11 0.12
ACGTcount: A:0.29, C:0.22, G:0.22, T:0.27
Consensus pattern (48 bp):
AAAAGGGCTTATGCCCCAGTTATTAAAAGGGCTTATGCCCCAGTTATC
Found at i:66380521 original size:71 final size:72
Alignment explanation
Indices: 66380405--66380548 Score: 229
Period size: 71 Copynumber: 2.0 Consensus size: 72
66380395 GAGGAAGTGA
*
66380405 AAAAGGGCTTATGCCCCAGTTATTAAAAGGGCTTATGCCCCAGTTATCAAAAG-GGCTTATGCC-
1 AAAAGGGCTTATGCCCCAGTTATTAAAAGGGCTTATGCCCCAGTTATCAAAAGAGGC-TAGGCCT
66380468 CCAGTTAT
65 CCAGTTAT
* * *
66380476 AAAAGGGCTTATGCCCCAGTTATTGAAAGGGCTTTTGCCCCAGTTATTAAAAGAGGCTAGGCCTC
1 AAAAGGGCTTATGCCCCAGTTATTAAAAGGGCTTATGCCCCAGTTATCAAAAGAGGCTAGGCCTC
66380541 CAGTTAT
66 CAGTTAT
66380548 A
1 A
66380549 TGATAAAGCA
Statistics
Matches: 67, Mismatches: 4, Indels: 3
0.91 0.05 0.04
Matches are distributed among these distances:
71 55 0.82
72 12 0.18
ACGTcount: A:0.29, C:0.22, G:0.22, T:0.27
Consensus pattern (72 bp):
AAAAGGGCTTATGCCCCAGTTATTAAAAGGGCTTATGCCCCAGTTATCAAAAGAGGCTAGGCCTC
CAGTTAT
Found at i:66382349 original size:15 final size:15
Alignment explanation
Indices: 66382329--66382360 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
66382319 TTTAATTTAG
*
66382329 AAGATAAATGTATAT
1 AAGATAAATATATAT
66382344 AAGATAAATATATAT
1 AAGATAAATATATAT
66382359 AA
1 AA
66382361 AATATTATTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.59, C:0.00, G:0.09, T:0.31
Consensus pattern (15 bp):
AAGATAAATATATAT
Found at i:66382399 original size:24 final size:24
Alignment explanation
Indices: 66382332--66382399 Score: 75
Period size: 24 Copynumber: 2.8 Consensus size: 24
66382322 AATTTAGAAG
* *
66382332 ATAAATGTATATAAGATAAATATAT
1 ATAAATATATATATGA-AAATATAT
* *
66382357 ATAAA-ATATTATTTTAAAATATAT
1 ATAAATATA-TATATGAAAATATAT
66382381 ATAAATATATATATGAAAA
1 ATAAATATATATATGAAAA
66382400 GTGGTTTAGT
Statistics
Matches: 35, Mismatches: 6, Indels: 5
0.76 0.13 0.11
Matches are distributed among these distances:
24 23 0.66
25 12 0.34
ACGTcount: A:0.57, C:0.00, G:0.04, T:0.38
Consensus pattern (24 bp):
ATAAATATATATATGAAAATATAT
Found at i:66389795 original size:15 final size:15
Alignment explanation
Indices: 66389751--66389806 Score: 64
Period size: 15 Copynumber: 3.8 Consensus size: 15
66389741 AACGACATGT
*
66389751 ATATTACTTAATTAAA
1 ATATTATTTAATT-AA
66389767 ATAATT-TTT-A-TAA
1 AT-ATTATTTAATTAA
66389780 ATATTATTTAATTAA
1 ATATTATTTAATTAA
66389795 ATATTATTTAAT
1 ATATTATTTAAT
66389807 CCCGCTACTT
Statistics
Matches: 35, Mismatches: 1, Indels: 9
0.78 0.02 0.20
Matches are distributed among these distances:
12 3 0.09
13 7 0.20
14 2 0.06
15 16 0.46
16 4 0.11
17 3 0.09
ACGTcount: A:0.46, C:0.02, G:0.00, T:0.52
Consensus pattern (15 bp):
ATATTATTTAATTAA
Found at i:66389944 original size:18 final size:18
Alignment explanation
Indices: 66389911--66390119 Score: 134
Period size: 18 Copynumber: 11.3 Consensus size: 18
66389901 TATTTGATAT
* *
66389911 CATAATTTATATAACTTA
1 CATAACTTACATAACTTA
* *
66389929 CAAAACGTACATAACTTA
1 CATAACTTACATAACTTA
* *
66389947 TATAACTTATATAACTTA
1 CATAACTTACATAACTTA
* *
66389965 CATAACTTATATAACATA
1 CATAACTTACATAACTTA
*
66389983 TATAACTTACATAACTTA
1 CATAACTTACATAACTTA
* *
66390001 CATAATACTTAAATATATTTTATA
1 CAT-A-ACTTACATA-A--CT-TA
*
66390025 TCATAATTTACATAACTTA
1 -CATAACTTACATAACTTA
*
66390044 CATAACTTATATAACTTA
1 CATAACTTACATAACTTA
* * * *
66390062 GATAA-ATATATAATTTA
1 CATAACTTACATAACTTA
* * * *
66390079 CATAA-ATATATATCATA
1 CATAACTTACATAACTTA
*
66390096 TCATAAATTACATAACTTA
1 -CATAACTTACATAACTTA
66390115 CATAA
1 CATAA
66390120 TACTTAAATA
Statistics
Matches: 150, Mismatches: 32, Indels: 18
0.75 0.16 0.09
Matches are distributed among these distances:
17 23 0.15
18 91 0.61
19 11 0.07
20 9 0.06
21 1 0.01
22 1 0.01
23 8 0.05
24 3 0.02
25 3 0.02
ACGTcount: A:0.47, C:0.13, G:0.01, T:0.38
Consensus pattern (18 bp):
CATAACTTACATAACTTA
Found at i:66389951 original size:9 final size:9
Alignment explanation
Indices: 66389912--66390119 Score: 114
Period size: 9 Copynumber: 22.4 Consensus size: 9
66389902 ATTTGATATC
*
66389912 ATAATTTAT
1 ATAACTTAT
*
66389921 ATAACTTAC
1 ATAACTTAT
* * *
66389930 AAAACGTAC
1 ATAACTTAT
66389939 ATAACTTAT
1 ATAACTTAT
66389948 ATAACTTAT
1 ATAACTTAT
*
66389957 ATAACTTAC
1 ATAACTTAT
66389966 ATAACTTAT
1 ATAACTTAT
*
66389975 ATAACATAT
1 ATAACTTAT
*
66389984 ATAACTTAC
1 ATAACTTAT
*
66389993 ATAACTTAC
1 ATAACTTAT
66390002 ATAATACTTAAAT
1 AT-A-ACTT--AT
**
66390015 ATATTTTATAT
1 ATA-ACT-TAT
* *
66390026 CATAATTTAC
1 -ATAACTTAT
*
66390036 ATAACTTAC
1 ATAACTTAT
66390045 ATAACTTAT
1 ATAACTTAT
*
66390054 ATAACTTAG
1 ATAACTTAT
*
66390063 ATAA-ATAT
1 ATAACTTAT
* *
66390071 ATAATTTAC
1 ATAACTTAT
*
66390080 ATAA-ATAT
1 ATAACTTAT
* *
66390088 ATATCATAT
1 ATAACTTAT
* *
66390097 CATAAATTAC
1 -ATAACTTAT
*
66390107 ATAACTTAC
1 ATAACTTAT
66390116 ATAA
1 ATAA
66390120 TACTTAAATA
Statistics
Matches: 158, Mismatches: 32, Indels: 18
0.76 0.15 0.09
Matches are distributed among these distances:
8 11 0.07
9 121 0.77
10 8 0.05
11 8 0.05
12 6 0.04
13 4 0.03
ACGTcount: A:0.48, C:0.13, G:0.01, T:0.38
Consensus pattern (9 bp):
ATAACTTAT
Found at i:66390066 original size:27 final size:27
Alignment explanation
Indices: 66389917--66390119 Score: 140
Period size: 27 Copynumber: 7.3 Consensus size: 27
66389907 ATATCATAAT
* *
66389917 TTATATAACTTACAAAACGTACATAAC
1 TTATATAACTTACATAACTTACATAAC
*
66389944 TTATATAACTTATATAACTTACATAAC
1 TTATATAACTTACATAACTTACATAAC
* *
66389971 TTATATAACATATATAACTTACATAAC
1 TTATATAACTTACATAACTTACATAAC
* * * *
66389998 TTACATAATACTTAAATATATTTTATATCATAAT
1 TTATAT-A-ACTTACATA-A--CT-TA-CATAAC
* *
66390032 TTACATAACTTACATAACTTATATAAC
1 TTATATAACTTACATAACTTACATAAC
* * * *
66390059 TTAGATAA-ATATATAATTTACATAA-
1 TTATATAACTTACATAACTTACATAAC
* * * *
66390084 ATATATATCATATCATAAATTACATAAC
1 TTATATAACTTA-CATAACTTACATAAC
*
66390112 TTACATAA
1 TTATATAA
66390120 TACTTAAATA
Statistics
Matches: 140, Mismatches: 26, Indels: 19
0.76 0.14 0.10
Matches are distributed among these distances:
25 5 0.04
26 16 0.11
27 78 0.56
28 8 0.06
29 8 0.06
30 1 0.01
31 1 0.01
32 9 0.06
33 3 0.02
34 11 0.08
ACGTcount: A:0.47, C:0.13, G:0.01, T:0.38
Consensus pattern (27 bp):
TTATATAACTTACATAACTTACATAAC
Found at i:66390167 original size:43 final size:45
Alignment explanation
Indices: 66390073--66390169 Score: 112
Period size: 43 Copynumber: 2.2 Consensus size: 45
66390063 ATAAATATAT
* * *
66390073 AATTTACATAAATATATATCATATCATAAATTACATAACTTACAT
1 AATTTACTTAAATATATATCATATCATAAATAACATAACTTACAA
* **
66390118 AA--TACTTAAATATATATCATA-CATACATAAC-TAGTTTACAA
1 AATTTACTTAAATATATATCATATCATAAATAACATAACTTACAA
66390159 AATTTACTTAA
1 AATTTACTTAA
66390170 CTTACATAAT
Statistics
Matches: 44, Mismatches: 6, Indels: 6
0.79 0.11 0.11
Matches are distributed among these distances:
41 9 0.20
42 8 0.18
43 25 0.57
45 2 0.05
ACGTcount: A:0.48, C:0.13, G:0.01, T:0.37
Consensus pattern (45 bp):
AATTTACTTAAATATATATCATATCATAAATAACATAACTTACAA
Found at i:66395802 original size:19 final size:18
Alignment explanation
Indices: 66395778--66395821 Score: 63
Period size: 19 Copynumber: 2.4 Consensus size: 18
66395768 ATGAAATTTT
66395778 AATTATTATTATGAGATAA
1 AATTATTATTATGAGA-AA
*
66395797 AATTATTATTATTAGAAA
1 AATTATTATTATGAGAAA
66395815 AA-TATTA
1 AATTATTA
66395822 CTGTATGTAT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
17 5 0.21
18 4 0.17
19 15 0.62
ACGTcount: A:0.50, C:0.00, G:0.07, T:0.43
Consensus pattern (18 bp):
AATTATTATTATGAGAAA
Found at i:66396343 original size:15 final size:15
Alignment explanation
Indices: 66396323--66396353 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
66396313 TGGAGTTCAG
66396323 GTGGATTCTGCTAGA
1 GTGGATTCTGCTAGA
66396338 GTGGATTCTGCTAGA
1 GTGGATTCTGCTAGA
66396353 G
1 G
66396354 GAGAGTTGGA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.19, C:0.13, G:0.35, T:0.32
Consensus pattern (15 bp):
GTGGATTCTGCTAGA
Found at i:66397682 original size:28 final size:28
Alignment explanation
Indices: 66397649--66397717 Score: 113
Period size: 28 Copynumber: 2.5 Consensus size: 28
66397639 GCGTAGATCA
66397649 CGAAATTACCCCTAAAGAGCAAAATTAC
1 CGAAATTACCCCTAAAGAGCAAAATTAC
*
66397677 TGAAATTACCCCTAAAGAGCAAAATTAC
1 CGAAATTACCCCTAAAGAGCAAAATTAC
*
66397705 CGATA-TACCCCTA
1 CGAAATTACCCCTA
66397718 GAGTTTTAAA
Statistics
Matches: 38, Mismatches: 3, Indels: 1
0.90 0.07 0.02
Matches are distributed among these distances:
27 8 0.21
28 30 0.79
ACGTcount: A:0.43, C:0.26, G:0.10, T:0.20
Consensus pattern (28 bp):
CGAAATTACCCCTAAAGAGCAAAATTAC
Found at i:66399466 original size:43 final size:42
Alignment explanation
Indices: 66399419--66399691 Score: 343
Period size: 43 Copynumber: 6.4 Consensus size: 42
66399409 ATCTGCCAAA
* * *
66399419 TTTAGCGGCG-TTTGTAAAAAAAGCGCCGCTAAAAGCCTTGACG
1 TTTAGCGGCGCTTT-TACACAAA-CGCCGCTAAAAGCCTTGACC
*
66399462 TTTAGCGGCGCTTTATGCACAAACGCCGCTAAAAGCCTTGACC
1 TTTAGCGGCGCTTT-TACACAAACGCCGCTAAAAGCCTTGACC
*
66399505 TTTAGCGGCGCTTTTACCACAAACGCCGCTAAAAAGCCTTGACG
1 TTTAGCGGCGCTTTTA-CACAAACGCCGCT-AAAAGCCTTGACC
* * *
66399549 TTTAGCGGCGCTTTTACCACAAACGCAGTTAAAAGCCTTGACG
1 TTTAGCGGCGCTTTTA-CACAAACGCCGCTAAAAGCCTTGACC
*
66399592 TTTAGCGGCGCTTTTCCCACAAACGCCGCTAAAAGCCTT-ACC
1 TTTAGCGGCGCTTTT-ACACAAACGCCGCTAAAAGCCTTGACC
* * *
66399634 TTTAGCGGCGCTTTTCCCATAAACGCCACTAAAAGCCTTGACC
1 TTTAGCGGCGCTTTT-ACACAAACGCCGCTAAAAGCCTTGACC
*
66399677 TTTAGCGGCGTTTTT
1 TTTAGCGGCGCTTTT
66399692 TTCCAATAAA
Statistics
Matches: 209, Mismatches: 16, Indels: 10
0.89 0.07 0.04
Matches are distributed among these distances:
42 40 0.19
43 121 0.58
44 48 0.23
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.26
Consensus pattern (42 bp):
TTTAGCGGCGCTTTTACACAAACGCCGCTAAAAGCCTTGACC
Found at i:66399570 original size:87 final size:86
Alignment explanation
Indices: 66399442--66399691 Score: 378
Period size: 87 Copynumber: 2.9 Consensus size: 86
66399432 GTAAAAAAAG
*
66399442 CGCCGCTAAAAGCCTTGACGTTTAGCGGCGC-TTTATGCACAAACGCCGCTAAAAGCCTTGACCT
1 CGCCGCTAAAAGCCTTGACGTTTAGCGGCGCTTTTA-CCACAAACGCCGCTAAAAGCCTTGACCT
66399506 TTAGCGGCGCTTTTACCACAAA
65 TTAGCGGCGCTTTTACCACAAA
* * *
66399528 CGCCGCTAAAAAGCCTTGACGTTTAGCGGCGCTTTTACCACAAACGCAGTTAAAAGCCTTGACGT
1 CGCCGCT-AAAAGCCTTGACGTTTAGCGGCGCTTTTACCACAAACGCCGCTAAAAGCCTTGACCT
*
66399593 TTAGCGGCGCTTTTCCCACAAA
65 TTAGCGGCGCTTTTACCACAAA
* * * *
66399615 CGCCGCTAAAAGCCTT-ACCTTTAGCGGCGCTTTTCCCATAAACGCCACTAAAAGCCTTGACCTT
1 CGCCGCTAAAAGCCTTGACGTTTAGCGGCGCTTTTACCACAAACGCCGCTAAAAGCCTTGACCTT
*
66399679 TAGCGGCGTTTTT
66 TAGCGGCGCTTTT
66399692 TTCCAATAAA
Statistics
Matches: 149, Mismatches: 13, Indels: 5
0.89 0.08 0.03
Matches are distributed among these distances:
85 53 0.36
86 16 0.11
87 76 0.51
88 4 0.03
ACGTcount: A:0.25, C:0.30, G:0.20, T:0.25
Consensus pattern (86 bp):
CGCCGCTAAAAGCCTTGACGTTTAGCGGCGCTTTTACCACAAACGCCGCTAAAAGCCTTGACCTT
TAGCGGCGCTTTTACCACAAA
Found at i:66399704 original size:130 final size:130
Alignment explanation
Indices: 66399448--66399691 Score: 404
Period size: 130 Copynumber: 1.9 Consensus size: 130
66399438 AAAGCGCCGC
*
66399448 TAAAAGCCTTGACGTTTAGCGGCGCTTTATGCACAAACGCCGCTAAAAGCCTTGACCTTTAGCGG
1 TAAAAGCCTTGACGTTTAGCGGCGCTTTATCCACAAACGCCGCTAAAAGCCTTGACCTTTAGCGG
* *
66399513 CGCTTTTACCACAAACGCCGCTAAAAAGCCTTGACGTTTAGCGGCGCTTTTACCACAAACGCAGT
66 CGCTTTTACCACAAACGCCACTAAAAAGCCTTGACCTTTAGCGGCGCTTTTACCACAAACGCAGT
66399578 TAAAAGCCTTGACGTTTAGCGGCGCTTT-TCCCACAAACGCCGCTAAAAGCCTT-ACCTTTAGCG
1 TAAAAGCCTTGACGTTTAGCGGCGCTTTAT-CCACAAACGCCGCTAAAAGCCTTGACCTTTAGCG
* * *
66399641 GCGCTTTTCCCATAAACGCCACT-AAAAGCCTTGACCTTTAGCGGCGTTTTT
65 GCGCTTTTACCACAAACGCCACTAAAAAGCCTTGACCTTTAGCGGCGCTTTT
66399692 TTCCAATAAA
Statistics
Matches: 107, Mismatches: 6, Indels: 4
0.91 0.05 0.03
Matches are distributed among these distances:
128 26 0.24
129 31 0.29
130 50 0.47
ACGTcount: A:0.25, C:0.29, G:0.20, T:0.26
Consensus pattern (130 bp):
TAAAAGCCTTGACGTTTAGCGGCGCTTTATCCACAAACGCCGCTAAAAGCCTTGACCTTTAGCGG
CGCTTTTACCACAAACGCCACTAAAAAGCCTTGACCTTTAGCGGCGCTTTTACCACAAACGCAGT
Found at i:66400534 original size:26 final size:26
Alignment explanation
Indices: 66400480--66400564 Score: 97
Period size: 26 Copynumber: 3.4 Consensus size: 26
66400470 GGCTATATAA
**
66400480 CAGGAAGCTCAT-AAGAGCCA-TAAT
1 CAGGAAGCTCATAAAGAGATATTAAT
* *
66400504 CAGGAAGTTCATAAAGA-ACTTTTAAT
1 CAGGAAGCTCATAAAGAGA-TATTAAT
66400530 CAGGAAGCTCATAAAGAGATATTAAT
1 CAGGAAGCTCATAAAGAGATATTAAT
66400556 CAGG-AGCTC
1 CAGGAAGCTC
66400565 CGGGTAGCCA
Statistics
Matches: 51, Mismatches: 6, Indels: 7
0.80 0.09 0.11
Matches are distributed among these distances:
24 11 0.22
25 9 0.18
26 30 0.59
27 1 0.02
ACGTcount: A:0.41, C:0.16, G:0.20, T:0.22
Consensus pattern (26 bp):
CAGGAAGCTCATAAAGAGATATTAAT
Found at i:66412474 original size:24 final size:23
Alignment explanation
Indices: 66412428--66412551 Score: 99
Period size: 23 Copynumber: 5.3 Consensus size: 23
66412418 AAGCTCCTCC
*
66412428 TGAGCTGATGAACAGTAATCTCTTT
1 TGAGCTGA--AACAGTAAGCTCTTT
* *
66412453 TGAGCTGAAAACGGTAAGCTCTAT
1 TGAGCTG-AAACAGTAAGCTCTTT
66412477 TGAGCT-AAACAGTAAGCTCTTT
1 TGAGCTGAAACAGTAAGCTCTTT
** * * ***
66412499 CAAGCTGAATCGGTAAGCTCCAA
1 TGAGCTGAAACAGTAAGCTCTTT
*
66412522 TGAGTTGAAACAGTAAGCT-TTT
1 TGAGCTGAAACAGTAAGCTCTTT
66412544 TCGAGCTG
1 T-GAGCTG
66412552 TGGTGAGTCC
Statistics
Matches: 75, Mismatches: 21, Indels: 8
0.72 0.20 0.08
Matches are distributed among these distances:
22 19 0.25
23 30 0.40
24 18 0.24
25 7 0.09
26 1 0.01
ACGTcount: A:0.31, C:0.18, G:0.23, T:0.29
Consensus pattern (23 bp):
TGAGCTGAAACAGTAAGCTCTTT
Found at i:66412497 original size:46 final size:46
Alignment explanation
Indices: 66412428--66412551 Score: 135
Period size: 46 Copynumber: 2.7 Consensus size: 46
66412418 AAGCTCCTCC
* * *
66412428 TGAGCTGATGAACAGTAATCTCTTTTGAGCTGAAAACGGTAAGCTCTAT
1 TGAGCTGA--AACAGTAAGCTCTTTTGAGCTG-AAACGGTAAGCTCCAA
** *
66412477 TGAGCT-AAACAGTAAGCTCTTTCAAGCTGAATCGGTAAGCTCCAA
1 TGAGCTGAAACAGTAAGCTCTTTTGAGCTGAAACGGTAAGCTCCAA
*
66412522 TGAGTTGAAACAGTAAGCT-TTTTCGAGCTG
1 TGAGCTGAAACAGTAAGCTCTTTT-GAGCTG
66412552 TGGTGAGTCC
Statistics
Matches: 64, Mismatches: 9, Indels: 7
0.80 0.11 0.09
Matches are distributed among these distances:
45 21 0.33
46 36 0.56
48 1 0.02
49 6 0.09
ACGTcount: A:0.31, C:0.18, G:0.23, T:0.29
Consensus pattern (46 bp):
TGAGCTGAAACAGTAAGCTCTTTTGAGCTGAAACGGTAAGCTCCAA
Found at i:66415535 original size:49 final size:49
Alignment explanation
Indices: 66415465--66415869 Score: 742
Period size: 49 Copynumber: 8.3 Consensus size: 49
66415455 CCCTTCGGGA
* *
66415465 CTTATCACAT-T-TATACACTTTCACATTCATCACATCAGCCATTAGGC
1 CTTATCACATATATACACACTTTCACATTCATCACATCGGCCATTAGGC
*
66415512 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACACTTTCACATTCATCACATCGGCCATTAGGC
66415561 CTTATCACATATATACACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACACTTTCACATTCATCACATCGGCCATTAGGC
*
66415610 CTTATCACATATATACACACTTTCACATTCTTCACATCGGCCATTAGGC
1 CTTATCACATATATACACACTTTCACATTCATCACATCGGCCATTAGGC
66415659 CTTATCACATATATACACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACACTTTCACATTCATCACATCGGCCATTAGGC
66415708 CTTATCACATATATACACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACACTTTCACATTCATCACATCGGCCATTAGGC
* *
66415757 CTTATCACATATATATACACTTTCACTTTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACACTTTCACATTCATCACATCGGCCATTAGGC
66415806 CTTATCACATATATACACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACACTTTCACATTCATCACATCGGCCATTAGGC
66415855 CTTATCACATATATA
1 CTTATCACATATATA
66415870 TATCTCATAC
Statistics
Matches: 348, Mismatches: 8, Indels: 2
0.97 0.02 0.01
Matches are distributed among these distances:
47 10 0.03
48 1 0.00
49 337 0.97
ACGTcount: A:0.30, C:0.30, G:0.08, T:0.32
Consensus pattern (49 bp):
CTTATCACATATATACACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:66419191 original size:40 final size:40
Alignment explanation
Indices: 66419109--66419273 Score: 142
Period size: 40 Copynumber: 4.2 Consensus size: 40
66419099 AAATTGAATG
* * ** *
66419109 ATATCCGGGCTAAG-CCCGAAGACAATTATGCTG-GAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGC-GAGTGACT
* * *
66419148 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGTGACT
* * *
66419188 ATATCCAGGCTAAGA-CCGAAGGC-ATTCGTGCGAGTTATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCGAGTGACT
* * *
66419227 CTATCCGGGCTAAGACCCGAAGGCATTTGTGC-ACGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCGA-GTGACT
66419267 ATATCCG
1 ATATCCG
66419274 ATTATATTCC
Statistics
Matches: 101, Mismatches: 19, Indels: 11
0.77 0.15 0.08
Matches are distributed among these distances:
38 3 0.03
39 43 0.43
40 53 0.52
41 2 0.02
ACGTcount: A:0.27, C:0.22, G:0.26, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGTGACT
Found at i:66422832 original size:40 final size:40
Alignment explanation
Indices: 66422787--66422953 Score: 185
Period size: 40 Copynumber: 4.2 Consensus size: 40
66422777 CGGAATATAA
66422787 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * * * *
66422827 CCGGATAGAATAACTCGCACGAATGCCTTCGGGCCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
* * *
66422867 CCGGATATAACCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * *
66422907 CCGGATATAATTTCCAGCATAATTGTCTTCGGG-CTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
66422946 CCGGATAT
1 CCGGATAT
66422954 CATTCAATTT
Statistics
Matches: 107, Mismatches: 19, Indels: 3
0.83 0.15 0.02
Matches are distributed among these distances:
39 14 0.13
40 93 0.87
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.26
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:66422937 original size:80 final size:79
Alignment explanation
Indices: 66422787--66422953 Score: 205
Period size: 80 Copynumber: 2.1 Consensus size: 79
66422777 CGGAATATAA
* *
66422787 CCGGATATAATCACGTGCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATAACTCGCACGAATG
1 CCGGATATAACCACGTGCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTCGCACGAATG
66422852 CCTTCGGGCCTTAGC
66 CCTTCGGG-CTTAGC
* * ** *
66422867 CCGGATATAACCAC-TAGCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAA
1 CCGGATATAACCACGT-GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTC-GCACGAA
*
66422929 TTGTCTTCGGGCTTAGC
64 -TGCCTTCGGGCTTAGC
66422946 CCGGATAT
1 CCGGATAT
66422954 CATTCAATTT
Statistics
Matches: 76, Mismatches: 8, Indels: 7
0.84 0.09 0.08
Matches are distributed among these distances:
79 18 0.24
80 58 0.76
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.26
Consensus pattern (79 bp):
CCGGATATAACCACGTGCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTCGCACGAATG
CCTTCGGGCTTAGC
Found at i:66423802 original size:17 final size:19
Alignment explanation
Indices: 66423779--66423824 Score: 53
Period size: 17 Copynumber: 2.5 Consensus size: 19
66423769 AAGAAGCATG
66423779 AATCATGCTCAAGAATG-C
1 AATCATGCTCAAGAATGAC
*
66423797 -ATCATGGC-CAAGTATGAC
1 AATCAT-GCTCAAGAATGAC
66423815 AATCATGCTC
1 AATCATGCTC
66423825 CTTTTCAACT
Statistics
Matches: 23, Mismatches: 1, Indels: 7
0.74 0.03 0.23
Matches are distributed among these distances:
17 12 0.52
18 5 0.22
19 6 0.26
ACGTcount: A:0.35, C:0.24, G:0.17, T:0.24
Consensus pattern (19 bp):
AATCATGCTCAAGAATGAC
Found at i:66431009 original size:21 final size:20
Alignment explanation
Indices: 66430980--66431032 Score: 58
Period size: 20 Copynumber: 2.8 Consensus size: 20
66430970 GGAAGAATAA
66430980 AGAAATGAAAAAAAAAAAAG
1 AGAAATGAAAAAAAAAAAAG
* *
66431000 AGAATATG-AAGAAAAACAA-
1 AGAA-ATGAAAAAAAAAAAAG
66431019 AGAAA-GAAAAAAAA
1 AGAAATGAAAAAAAA
66431033 GTGTTCATTC
Statistics
Matches: 28, Mismatches: 3, Indels: 6
0.76 0.08 0.16
Matches are distributed among these distances:
17 1 0.04
18 7 0.25
19 4 0.14
20 13 0.46
21 3 0.11
ACGTcount: A:0.77, C:0.02, G:0.15, T:0.06
Consensus pattern (20 bp):
AGAAATGAAAAAAAAAAAAG
Found at i:66432251 original size:29 final size:30
Alignment explanation
Indices: 66432179--66432243 Score: 114
Period size: 30 Copynumber: 2.2 Consensus size: 30
66432169 TGACGAGATT
*
66432179 GGCACTAAGTGTGCATGCTGGAAAATATAT
1 GGCACTAAGTGTGCATGCTGGAAAATATAC
66432209 GGCACTAAGTGTGCATGCTGGAAAA-ATAC
1 GGCACTAAGTGTGCATGCTGGAAAATATAC
66432238 GGCACT
1 GGCACT
66432244 GGGTGTGCGA
Statistics
Matches: 34, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
29 9 0.26
30 25 0.74
ACGTcount: A:0.32, C:0.17, G:0.28, T:0.23
Consensus pattern (30 bp):
GGCACTAAGTGTGCATGCTGGAAAATATAC
Found at i:66437182 original size:22 final size:22
Alignment explanation
Indices: 66437124--66437228 Score: 95
Period size: 22 Copynumber: 4.6 Consensus size: 22
66437114 CCTGAGCTGA
* *
66437124 TGAACAATAAGCTCTTTTGAGC
1 TGAACAGTAAGCTCTATTGAGC
*
66437146 TGAAAACGGTAAGCTCTATTGAGC
1 TG--AACAGTAAGCTCTATTGAGC
66437170 TGAACAGTAAGCTCT-TTCGAGC
1 TGAACAGTAAGCTCTATT-GAGC
* * * *
66437192 TGAATCAATAAGTTCCAATGAGC
1 TGAA-CAGTAAGCTCTATTGAGC
66437215 TGAAACAGTAAGCT
1 TG-AACAGTAAGCT
66437229 TCTTCGAGCT
Statistics
Matches: 67, Mismatches: 10, Indels: 11
0.76 0.11 0.12
Matches are distributed among these distances:
21 2 0.03
22 22 0.33
23 21 0.31
24 22 0.33
ACGTcount: A:0.34, C:0.18, G:0.21, T:0.27
Consensus pattern (22 bp):
TGAACAGTAAGCTCTATTGAGC
Found at i:66437237 original size:23 final size:23
Alignment explanation
Indices: 66437117--66437239 Score: 83
Period size: 23 Copynumber: 5.3 Consensus size: 23
66437107 AGCTCCTCCT
* * *
66437117 GAGCTGATGAACAATAAGCTCTTTT
1 GAGCTGA--AACAGTAAGCTCATTC
*
66437142 GAGCTGAAAACGGTAAGCTCTATT-
1 GAGCTG-AAACAGTAAGCTC-ATTC
*
66437166 GAGCTG-AACAGTAAGCTCTTTC
1 GAGCTGAAACAGTAAGCTCATTC
* * * *
66437188 GAGCTGAATCAATAAGTTCCAAT-
1 GAGCTGAAACAGTAAGCT-CATTC
66437211 GAGCTGAAACAGTAAGCTTC-TTC
1 GAGCTGAAACAGTAAGC-TCATTC
66437234 GAGCTG
1 GAGCTG
66437240 TGGTGAGTCT
Statistics
Matches: 77, Mismatches: 14, Indels: 16
0.72 0.13 0.15
Matches are distributed among these distances:
21 2 0.03
22 18 0.23
23 29 0.38
24 19 0.25
25 8 0.10
26 1 0.01
ACGTcount: A:0.32, C:0.19, G:0.23, T:0.27
Consensus pattern (23 bp):
GAGCTGAAACAGTAAGCTCATTC
Found at i:66440254 original size:48 final size:46
Alignment explanation
Indices: 66440188--66440354 Score: 131
Period size: 46 Copynumber: 3.6 Consensus size: 46
66440178 AAGATGACGC
* * * *
66440188 CATGTCCCAGATAGGTCTTACACTAGCTTATATATCGCGAG-ACCGATG
1 CATGTCCCAGACATGTCTTACACTAGCTT-T-CATCGC-AGTACCCATG
* * * *
66440236 CATGTCCCAGACATGTCTTACGCTAGCTTTCGTCTCAGTGCCCATG
1 CATGTCCCAGACATGTCTTACACTAGCTTTCATCGCAGTACCCATG
* ** ** * **
66440282 CATGTCCCAGACATGTCTTACACTGGCACTCAT-GCTCTGGCTGATG
1 CATGTCCCAGACATGTCTTACACTAGCTTTCATCGCAGT-ACCCATG
*
66440328 CATGTCCTAGACATGTCTTACACTAGC
1 CATGTCCCAGACATGTCTTACACTAGC
66440355 ACACATATAA
Statistics
Matches: 97, Mismatches: 20, Indels: 6
0.79 0.16 0.05
Matches are distributed among these distances:
45 4 0.04
46 66 0.68
47 1 0.01
48 26 0.27
ACGTcount: A:0.22, C:0.29, G:0.20, T:0.29
Consensus pattern (46 bp):
CATGTCCCAGACATGTCTTACACTAGCTTTCATCGCAGTACCCATG
Found at i:66440329 original size:46 final size:46
Alignment explanation
Indices: 66440230--66440356 Score: 157
Period size: 46 Copynumber: 2.8 Consensus size: 46
66440220 TATCGCGAGA
* ** *
66440230 CCGATGCATGTCCCAGACATGTCTTACGCTAGCTTTCGTCTCAGTG
1 CCGATGCATGTCCCAGACATGTCTTACACTAGCACTCATCTCAGTG
* * *
66440276 CCCATGCATGTCCCAGACATGTCTTACACTGGCACTCATGCTCTG-G
1 CCGATGCATGTCCCAGACATGTCTTACACTAGCACTCAT-CTCAGTG
* *
66440322 CTGATGCATGTCCTAGACATGTCTTACACTAGCAC
1 CCGATGCATGTCCCAGACATGTCTTACACTAGCAC
66440357 ACATATAACC
Statistics
Matches: 69, Mismatches: 11, Indels: 2
0.84 0.13 0.02
Matches are distributed among these distances:
46 65 0.94
47 4 0.06
ACGTcount: A:0.20, C:0.31, G:0.20, T:0.28
Consensus pattern (46 bp):
CCGATGCATGTCCCAGACATGTCTTACACTAGCACTCATCTCAGTG
Found at i:66445862 original size:93 final size:93
Alignment explanation
Indices: 66445750--66445919 Score: 313
Period size: 93 Copynumber: 1.8 Consensus size: 93
66445740 CCCATAAGTG
* *
66445750 AACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAAC
1 AACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAAC
66445815 GAGTTCGGATGCCTAGTTACATCTCACA
66 GAGTTCGGATGCCTAGTTACATCTCACA
*
66445843 AACTCGGACTCAACTCAACGAGTTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAAC
1 AACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAAC
66445908 GAGTTCGGATGC
66 GAGTTCGGATGC
66445920 TCAACCATCC
Statistics
Matches: 74, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 74 1.00
ACGTcount: A:0.28, C:0.30, G:0.21, T:0.21
Consensus pattern (93 bp):
AACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAAC
GAGTTCGGATGCCTAGTTACATCTCACA
Found at i:66445935 original size:46 final size:46
Alignment explanation
Indices: 66445741--66445921 Score: 226
Period size: 46 Copynumber: 3.9 Consensus size: 46
66445731 TGTAACCCGC
* * *
66445741 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
* *
66445787 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACG-CTCG---CAT
*
66445837 CTCA-CA---AACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
1 C-CATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
*
66445880 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTC
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTC
66445922 AACCATCCTA
Statistics
Matches: 116, Mismatches: 10, Indels: 18
0.81 0.07 0.12
Matches are distributed among these distances:
42 2 0.02
43 5 0.04
46 71 0.61
47 31 0.27
50 5 0.04
51 2 0.02
ACGTcount: A:0.28, C:0.30, G:0.21, T:0.21
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
Found at i:66450431 original size:29 final size:29
Alignment explanation
Indices: 66450397--66450556 Score: 177
Period size: 29 Copynumber: 5.6 Consensus size: 29
66450387 TAATCGATCA
*
66450397 CGCACACTTAGTGCCAT-GTGATTT-AAGCT
1 CGCACACTTAGTGCCATACT--TTTCAAGCT
* * **
66450426 CGCACACATAGTGCCGTATA-ATTT-AAATT
1 CGCACACTTAGTGCC--ATACTTTTCAAGCT
66450455 CGCACACTT-GTGCCATACTTTTCAAGCT
1 CGCACACTTAGTGCCATACTTTTCAAGCT
*
66450483 TGCACACTTAGTGCCATACTTTTCAAGCT
1 CGCACACTTAGTGCCATACTTTTCAAGCT
*
66450512 TGCACACTTAGTGCCATACTTTTCAAGCT
1 CGCACACTTAGTGCCATACTTTTCAAGCT
*
66450541 TGCACACTTAGTGCCA
1 CGCACACTTAGTGCCA
66450557 ATCTTGTCAC
Statistics
Matches: 116, Mismatches: 9, Indels: 12
0.85 0.07 0.09
Matches are distributed among these distances:
26 3 0.03
27 3 0.03
28 16 0.14
29 92 0.79
31 2 0.02
ACGTcount: A:0.26, C:0.27, G:0.16, T:0.32
Consensus pattern (29 bp):
CGCACACTTAGTGCCATACTTTTCAAGCT
Found at i:66458404 original size:29 final size:29
Alignment explanation
Indices: 66458371--66458501 Score: 212
Period size: 29 Copynumber: 4.5 Consensus size: 29
66458361 AATCGATCAC
* *
66458371 GCACACTTAGTGCCAT-GTGATTT-AAGCTC
1 GCACACTTAGTGCCATACT--TTTCAAGCTT
66458400 GCACACTTAGTGCCATACTTTTCAAGCTT
1 GCACACTTAGTGCCATACTTTTCAAGCTT
66458429 GCACACTTAGTGCCATACTTTTCAAGCTT
1 GCACACTTAGTGCCATACTTTTCAAGCTT
66458458 GCACACTTAGTGCCATACTTTTCAAGCTT
1 GCACACTTAGTGCCATACTTTTCAAGCTT
66458487 GCACACTTAGTGCCA
1 GCACACTTAGTGCCA
66458502 ATCTTGTCAC
Statistics
Matches: 98, Mismatches: 2, Indels: 4
0.94 0.02 0.04
Matches are distributed among these distances:
28 3 0.03
29 94 0.96
30 1 0.01
ACGTcount: A:0.24, C:0.27, G:0.16, T:0.32
Consensus pattern (29 bp):
GCACACTTAGTGCCATACTTTTCAAGCTT
Found at i:66465521 original size:30 final size:30
Alignment explanation
Indices: 66465485--66465545 Score: 113
Period size: 30 Copynumber: 2.0 Consensus size: 30
66465475 GAAATGACCT
66465485 TTCCTAGTTTCCTTATTAAGCCTACGGTAG
1 TTCCTAGTTTCCTTATTAAGCCTACGGTAG
*
66465515 TTCCTAGTTTCCTTATTAAGCCTATGGTAG
1 TTCCTAGTTTCCTTATTAAGCCTACGGTAG
66465545 T
1 T
66465546 CCATACACAT
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.20, C:0.21, G:0.16, T:0.43
Consensus pattern (30 bp):
TTCCTAGTTTCCTTATTAAGCCTACGGTAG
Found at i:66468099 original size:28 final size:28
Alignment explanation
Indices: 66468059--66468122 Score: 103
Period size: 28 Copynumber: 2.3 Consensus size: 28
66468049 TGTACTAGAG
*
66468059 TACCCCTATGTATGCAAAATTACCAT-TA
1 TACCCCTATGTATGCAAAATGACC-TCTA
66468087 TACCCCTATGTATGCAAAATGACCTCTA
1 TACCCCTATGTATGCAAAATGACCTCTA
66468115 TACCCCTA
1 TACCCCTA
66468123 GGGTTAATTT
Statistics
Matches: 34, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
27 1 0.03
28 33 0.97
ACGTcount: A:0.33, C:0.30, G:0.08, T:0.30
Consensus pattern (28 bp):
TACCCCTATGTATGCAAAATGACCTCTA
Found at i:66469438 original size:11 final size:10
Alignment explanation
Indices: 66469410--66469443 Score: 50
Period size: 10 Copynumber: 3.3 Consensus size: 10
66469400 AGCCTGTAAG
66469410 TATTCTGAAT
1 TATTCTGAAT
*
66469420 TTTTCTGAAT
1 TATTCTGAAT
66469430 ATATTCTGAAT
1 -TATTCTGAAT
66469441 TAT
1 TAT
66469444 CTGTCTGTAC
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
10 12 0.57
11 9 0.43
ACGTcount: A:0.29, C:0.09, G:0.09, T:0.53
Consensus pattern (10 bp):
TATTCTGAAT
Found at i:66475940 original size:28 final size:28
Alignment explanation
Indices: 66475895--66475958 Score: 85
Period size: 28 Copynumber: 2.3 Consensus size: 28
66475885 TGTACTAGAG
*
66475895 TACCCCTATATATACAAAATTACCAT-TA
1 TACCCCTATATATACAAAATGACC-TCTA
* *
66475923 TACCCCTATGTATGCAAAATGACCTCTA
1 TACCCCTATATATACAAAATGACCTCTA
66475951 TACCCCTA
1 TACCCCTA
66475959 GGGTTAATTT
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
27 1 0.03
28 31 0.97
ACGTcount: A:0.36, C:0.30, G:0.05, T:0.30
Consensus pattern (28 bp):
TACCCCTATATATACAAAATGACCTCTA
Found at i:66476121 original size:27 final size:28
Alignment explanation
Indices: 66476063--66476152 Score: 112
Period size: 27 Copynumber: 3.2 Consensus size: 28
66476053 AGGAAGCGTC
*
66476063 CTGGTGGCTA-TGCCACAAATTATCTGTT
1 CTGGTGGC-ACTGCCACAAAATATCTGTT
* **
66476091 CTGGTGGCCCTGCCAC-GTATATCTGTT
1 CTGGTGGCACTGCCACAAAATATCTGTT
66476118 CTGGTGGCACTGCCACAAAATATCTGTAT
1 CTGGTGGCACTGCCACAAAATATCTGT-T
66476147 CTGGTG
1 CTGGTG
66476153 ACTCTGTCAC
Statistics
Matches: 52, Mismatches: 7, Indels: 5
0.81 0.11 0.08
Matches are distributed among these distances:
27 23 0.44
28 22 0.42
29 7 0.13
ACGTcount: A:0.19, C:0.24, G:0.24, T:0.32
Consensus pattern (28 bp):
CTGGTGGCACTGCCACAAAATATCTGTT
Found at i:66476171 original size:55 final size:56
Alignment explanation
Indices: 66476063--66476177 Score: 137
Period size: 55 Copynumber: 2.1 Consensus size: 56
66476053 AGGAAGCGTC
* *
66476063 CTGGTGGCTATGCCACAAATTATCTGTTCTGGTGGCCCTGCCACGTATATCTGT-T
1 CTGGTGGCTATGCCACAAAATATCTGTTCTGGTGACCCTGCCACGTATATCTGTAT
* * * *
66476118 CTGGTGGC-ACTGCCACAAAATATCTGTATCTGGTGACTCTGTCAC-TTTTTCTGTAT
1 CTGGTGGCTA-TGCCACAAAATATCTGT-TCTGGTGACCCTGCCACGTATATCTGTAT
66476174 CTGG
1 CTGG
66476178 CAGCCATGCT
Statistics
Matches: 51, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
54 1 0.02
55 31 0.61
56 19 0.37
ACGTcount: A:0.17, C:0.24, G:0.23, T:0.36
Consensus pattern (56 bp):
CTGGTGGCTATGCCACAAAATATCTGTTCTGGTGACCCTGCCACGTATATCTGTAT
Found at i:66491864 original size:40 final size:40
Alignment explanation
Indices: 66491737--66491866 Score: 145
Period size: 40 Copynumber: 3.2 Consensus size: 40
66491727 ATGCTGGAAA
* * *
66491737 TTATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGG
1 TTATATCCGGGATAAGACCCGAAGGCATTTGTGCGAGTGG
* * * **
66491777 CTATATCCGAGATAAGACCCGAAGGCATTCGTGCGAGTCA
1 TTATATCCGGGATAAGACCCGAAGGCATTTGTGCGAGTGG
* * *
66491817 TTCTATCCGGGCTAAGACCCGAAGGCATTTGTGC-ACATGG
1 TTATATCCGGGATAAGACCCGAAGGCATTTGTGCGA-GTGG
66491857 TTATATCCGG
1 TTATATCCGG
66491867 TTATATTCCG
Statistics
Matches: 72, Mismatches: 17, Indels: 2
0.79 0.19 0.02
Matches are distributed among these distances:
39 1 0.01
40 71 0.99
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.25
Consensus pattern (40 bp):
TTATATCCGGGATAAGACCCGAAGGCATTTGTGCGAGTGG
Found at i:66494455 original size:24 final size:24
Alignment explanation
Indices: 66494394--66494457 Score: 119
Period size: 24 Copynumber: 2.7 Consensus size: 24
66494384 AGAAAATACA
*
66494394 GCACTATGTGTGCAAGGCTATGCG
1 GCACTATGTGTGCGAGGCTATGCG
66494418 GCACTATGTGTGCGAGGCTATGCG
1 GCACTATGTGTGCGAGGCTATGCG
66494442 GCACTATGTGTGCGAG
1 GCACTATGTGTGCGAG
66494458 AAAACATGGC
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
24 39 1.00
ACGTcount: A:0.19, C:0.20, G:0.36, T:0.25
Consensus pattern (24 bp):
GCACTATGTGTGCGAGGCTATGCG
Found at i:66503625 original size:30 final size:31
Alignment explanation
Indices: 66503549--66503631 Score: 143
Period size: 31 Copynumber: 2.7 Consensus size: 31
66503539 TCAGTCTCAA
*
66503549 CATAT-ACTGGGCCGAAGCCTTTTCATAAAT
1 CATATCACTAGGCCGAAGCCTTTTCATAAAT
66503579 CATATCACTAGGCCGAAGCCTTTTCATAAAT
1 CATATCACTAGGCCGAAGCCTTTTCATAAAT
66503610 CATATCACT-GGCCGAAGCCTTT
1 CATATCACTAGGCCGAAGCCTTT
66503632 ACTGTAAGCG
Statistics
Matches: 51, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
30 18 0.35
31 33 0.65
ACGTcount: A:0.29, C:0.27, G:0.16, T:0.29
Consensus pattern (31 bp):
CATATCACTAGGCCGAAGCCTTTTCATAAAT
Found at i:66503702 original size:42 final size:42
Alignment explanation
Indices: 66503655--66503747 Score: 159
Period size: 42 Copynumber: 2.2 Consensus size: 42
66503645 TGGCCCATAG
* * *
66503655 GCCCATTTCAATATCACATGTAATATCAATGAATGTATGCAA
1 GCCCATTTCAATATCACATGAAATACCAATGAATGCATGCAA
66503697 GCCCATTTCAATATCACATGAAATACCAATGAATGCATGCAA
1 GCCCATTTCAATATCACATGAAATACCAATGAATGCATGCAA
66503739 GCCCATTTC
1 GCCCATTTC
66503748 GGGAGACTAC
Statistics
Matches: 48, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
42 48 1.00
ACGTcount: A:0.37, C:0.24, G:0.12, T:0.28
Consensus pattern (42 bp):
GCCCATTTCAATATCACATGAAATACCAATGAATGCATGCAA
Found at i:66503934 original size:24 final size:24
Alignment explanation
Indices: 66503887--66503937 Score: 66
Period size: 24 Copynumber: 2.1 Consensus size: 24
66503877 GCCTAACCTA
* *
66503887 TTTTAATAACTGGGGTAGAACCCT
1 TTTTAATAAATGGGGCAGAACCCT
* *
66503911 TTTTGATAAATGGGGCAGAGCCCT
1 TTTTAATAAATGGGGCAGAACCCT
66503935 TTT
1 TTT
66503938 AGCACTTCCT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.25, C:0.16, G:0.24, T:0.35
Consensus pattern (24 bp):
TTTTAATAAATGGGGCAGAACCCT
Found at i:66506944 original size:27 final size:27
Alignment explanation
Indices: 66506914--66506972 Score: 73
Period size: 27 Copynumber: 2.2 Consensus size: 27
66506904 GTATACCTAG
* * *
66506914 ACCCCAATTAGATGAAATGACTGTTAT
1 ACCCCAATGAGATAAAATGACTGATAT
* *
66506941 ACCCCTATGAGGTAAAATGACTGATAT
1 ACCCCAATGAGATAAAATGACTGATAT
66506968 ACCCC
1 ACCCC
66506973 TGTGATATGT
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.36, C:0.24, G:0.15, T:0.25
Consensus pattern (27 bp):
ACCCCAATGAGATAAAATGACTGATAT
Found at i:66510488 original size:16 final size:16
Alignment explanation
Indices: 66510467--66510501 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
66510457 CCCCTTCCAT
66510467 TTTATTT-ATTTGTTTA
1 TTTATTTCATTT-TTTA
66510483 TTTATTTCATTTTTTA
1 TTTATTTCATTTTTTA
66510499 TTT
1 TTT
66510502 GTTTTATTAT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 14 0.78
17 4 0.22
ACGTcount: A:0.17, C:0.03, G:0.03, T:0.77
Consensus pattern (16 bp):
TTTATTTCATTTTTTA
Found at i:66510502 original size:24 final size:26
Alignment explanation
Indices: 66510471--66510523 Score: 76
Period size: 24 Copynumber: 2.1 Consensus size: 26
66510461 TTCCATTTTA
66510471 TTTATTTG-TTTATT-T-ATTTCATTT
1 TTTATTTGTTTTATTATCATTT-ATTT
66510495 TTTATTTGTTTTATTATCATTTATTT
1 TTTATTTGTTTTATTATCATTTATTT
66510521 TTT
1 TTT
66510524 TTACTATTTT
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
24 8 0.31
25 6 0.23
26 8 0.31
27 4 0.15
ACGTcount: A:0.17, C:0.04, G:0.04, T:0.75
Consensus pattern (26 bp):
TTTATTTGTTTTATTATCATTTATTT
Found at i:66510511 original size:12 final size:13
Alignment explanation
Indices: 66510466--66510509 Score: 56
Period size: 12 Copynumber: 3.5 Consensus size: 13
66510456 GCCCCTTCCA
66510466 TTTTATTTATTTG
1 TTTTATTTATTTG
*
66510479 -TTTATTTATTTC
1 TTTTATTTATTTG
*
66510491 ATTT-TTTATTTG
1 TTTTATTTATTTG
66510503 TTTTATT
1 TTTTATT
66510510 ATCATTTATT
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
12 21 0.81
13 5 0.19
ACGTcount: A:0.16, C:0.02, G:0.05, T:0.77
Consensus pattern (13 bp):
TTTTATTTATTTG
Found at i:66512099 original size:18 final size:17
Alignment explanation
Indices: 66512076--66512120 Score: 54
Period size: 18 Copynumber: 2.5 Consensus size: 17
66512066 ATCTTATTTA
66512076 TTTTCTTTTCAGTTGTCT
1 TTTTCTTTTC-GTTGTCT
* *
66512094 TTTTCTTTTTCTTTTTCT
1 TTTTC-TTTTCGTTGTCT
66512112 TTTTCTTTT
1 TTTTCTTTT
66512121 TCTTTTTCTT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
17 4 0.17
18 15 0.62
19 5 0.21
ACGTcount: A:0.02, C:0.16, G:0.04, T:0.78
Consensus pattern (17 bp):
TTTTCTTTTCGTTGTCT
Found at i:66512102 original size:6 final size:6
Alignment explanation
Indices: 66512091--66512133 Score: 86
Period size: 6 Copynumber: 7.2 Consensus size: 6
66512081 TTTTCAGTTG
66512091 TCTTTT TCTTTT TCTTTT TCTTTT TCTTTT TCTTTT TCTTTT T
1 TCTTTT TCTTTT TCTTTT TCTTTT TCTTTT TCTTTT TCTTTT T
66512134 ATTTCTTAGA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 37 1.00
ACGTcount: A:0.00, C:0.16, G:0.00, T:0.84
Consensus pattern (6 bp):
TCTTTT
Found at i:66518683 original size:58 final size:57
Alignment explanation
Indices: 66518611--66518721 Score: 150
Period size: 58 Copynumber: 1.9 Consensus size: 57
66518601 TGAATGTGAC
* *
66518611 TGGGCCTAACGGGCCATATAAATGTGATTTGGGCCTAATAGGCCATATACAGGTGGTT
1 TGGGCCTAACGGGCCATATAAATATGA-TTGGGCCTAATAGGCCAAATACAGGTGGTT
* * * * *
66518669 TGGGCCTAATGGGCCATATGAATATGATTGGGCTTAATGGGCCAAATATAGGT
1 TGGGCCTAACGGGCCATATAAATATGATTGGGCCTAATAGGCCAAATACAGGT
66518722 ATGTGAATTT
Statistics
Matches: 46, Mismatches: 7, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
57 22 0.48
58 24 0.52
ACGTcount: A:0.27, C:0.15, G:0.30, T:0.28
Consensus pattern (57 bp):
TGGGCCTAACGGGCCATATAAATATGATTGGGCCTAATAGGCCAAATACAGGTGGTT
Found at i:66518707 original size:28 final size:28
Alignment explanation
Indices: 66518598--66518712 Score: 124
Period size: 29 Copynumber: 4.0 Consensus size: 28
66518588 GAATTTGTGA
* *
66518598 ATATGAATGTGACTGGGCCTAACGGGCC
1 ATATGAATGTGATTGGGCCTAATGGGCC
* *
66518626 ATATAAATGTGATTTGGGCCTAATAGGCC
1 ATATGAATGTGA-TTGGGCCTAATGGGCC
* *
66518655 ATAT-ACAGGTGGTTTGGGCCTAATGGGCC
1 ATATGA-ATGT-GATTGGGCCTAATGGGCC
* *
66518684 ATATGAATATGATTGGGCTTAATGGGCC
1 ATATGAATGTGATTGGGCCTAATGGGCC
66518712 A
1 A
66518713 AATATAGGTA
Statistics
Matches: 72, Mismatches: 11, Indels: 8
0.79 0.12 0.09
Matches are distributed among these distances:
28 29 0.40
29 41 0.57
30 2 0.03
ACGTcount: A:0.27, C:0.16, G:0.30, T:0.28
Consensus pattern (28 bp):
ATATGAATGTGATTGGGCCTAATGGGCC
Found at i:66525496 original size:40 final size:40
Alignment explanation
Indices: 66525421--66525601 Score: 210
Period size: 40 Copynumber: 4.6 Consensus size: 40
66525411 GCTACTCGTT
* *
66525421 CAAACGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCA
* * *
66525461 CAAATGCCTTCGGGACTTAACCTGGATTTAATAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* *
66525501 C-AATGCCTTCGGG-CTTAGCCCAGAATTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* * *
66525539 CAAATGCCTTC-GGATCTTAGTCCGGATTTAGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAAC-TCGCA
66525580 CAAA-GCCTTCGGGACTTAGCCC
1 CAAATGCCTTCGGGACTTAGCCC
66525602 AGACATCATT
Statistics
Matches: 119, Mismatches: 16, Indels: 12
0.81 0.11 0.08
Matches are distributed among these distances:
38 23 0.19
39 21 0.18
40 62 0.52
41 13 0.11
ACGTcount: A:0.27, C:0.28, G:0.20, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
Found at i:66525542 original size:78 final size:80
Alignment explanation
Indices: 66525421--66525604 Score: 225
Period size: 78 Copynumber: 2.3 Consensus size: 80
66525411 GCTACTCGTT
* **
66525421 CAAACGCCTTCGGGACATAGCCC-GGTTATAGTAACTCGCACAAATGCCTTCGGGA-CTTA-ACC
1 CAAA-GCCTTCGGGACTTAGCCCAGAAT-TAGTAACTCGCACAAATGCCTTC-GGATCTTAGACC
*
66525483 TGGATTTAATAAC-TCGCA
63 -GGATTTAATAACTTAGCA
* *
66525501 CAATGCCTTCGGG-CTTAGCCCAGAATTAGTAACTCGCACAAATGCCTTCGGATCTTAGTCCGGA
1 CAAAGCCTTCGGGACTTAGCCCAGAATTAGTAACTCGCACAAATGCCTTCGGATCTTAGACCGGA
* *
66525565 TTTAGTCACTTAGCA
66 TTTAATAACTTAGCA
66525580 CAAAGCCTTCGGGACTTAGCCCAGA
1 CAAAGCCTTCGGGACTTAGCCCAGA
66525605 CATCATTCGA
Statistics
Matches: 90, Mismatches: 9, Indels: 10
0.83 0.08 0.09
Matches are distributed among these distances:
77 3 0.03
78 44 0.49
79 29 0.32
80 14 0.16
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (80 bp):
CAAAGCCTTCGGGACTTAGCCCAGAATTAGTAACTCGCACAAATGCCTTCGGATCTTAGACCGGA
TTTAATAACTTAGCA
Found at i:66528291 original size:27 final size:29
Alignment explanation
Indices: 66528251--66528310 Score: 79
Period size: 28 Copynumber: 2.1 Consensus size: 29
66528241 AGGACATCCA
** *
66528251 AGAATTTTTTGAAT-TTAAAATCTTGTTT
1 AGAATTTTTTGAATCCAAAAATATTGTTT
66528279 AGAA-TTTTTGAATCCAAAAATATTGTTT
1 AGAATTTTTTGAATCCAAAAATATTGTTT
66528307 AGAA
1 AGAA
66528311 GAGCAAACAA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
27 9 0.32
28 19 0.68
ACGTcount: A:0.38, C:0.05, G:0.12, T:0.45
Consensus pattern (29 bp):
AGAATTTTTTGAATCCAAAAATATTGTTT
Found at i:66532848 original size:24 final size:24
Alignment explanation
Indices: 66532821--66532894 Score: 121
Period size: 24 Copynumber: 3.0 Consensus size: 24
66532811 AAGGCTGTCA
66532821 GGAGAAGATTTAGGAGCTGATAAG
1 GGAGAAGATTTAGGAGCTGATAAG
* *
66532845 GGAGAGGATTTAGGAGCTGATAAA
1 GGAGAAGATTTAGGAGCTGATAAG
66532869 GGAGAAGATTTAGGAGCTGATCAAG
1 GGAGAAGATTTAGGAGCTGAT-AAG
66532894 G
1 G
66532895 AGCAGGAGTT
Statistics
Matches: 45, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
24 42 0.93
25 3 0.07
ACGTcount: A:0.36, C:0.05, G:0.38, T:0.20
Consensus pattern (24 bp):
GGAGAAGATTTAGGAGCTGATAAG
Found at i:66534601 original size:27 final size:28
Alignment explanation
Indices: 66534571--66534640 Score: 106
Period size: 27 Copynumber: 2.5 Consensus size: 28
66534561 ATAATAAGTC
*
66534571 CGCACACTTAGTGCTATATAATC-AGCT
1 CGCACACTTAGTGCTATATAATCAAACT
* *
66534598 CGCACACATAGTGCTATATAATCAAATT
1 CGCACACTTAGTGCTATATAATCAAACT
66534626 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
66534641 GTACAAATTT
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
27 22 0.58
28 16 0.42
ACGTcount: A:0.31, C:0.26, G:0.14, T:0.29
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:66537490 original size:32 final size:34
Alignment explanation
Indices: 66537424--66537490 Score: 84
Period size: 32 Copynumber: 2.0 Consensus size: 34
66537414 CTATGGGCCG
* *
66537424 TATTGTTATTTGAATAAGGGGCTAAGGCCTAGTT
1 TATTGTGATTTGAATAAGGGGCTAAGGCCCAGTT
**
66537458 TATTGTGATTTGAA-AA-GGGCTCTGGCCCAGTT
1 TATTGTGATTTGAATAAGGGGCTAAGGCCCAGTT
66537490 T
1 T
66537491 CACTGTTAAC
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
32 14 0.48
33 2 0.07
34 13 0.45
ACGTcount: A:0.24, C:0.12, G:0.27, T:0.37
Consensus pattern (34 bp):
TATTGTGATTTGAATAAGGGGCTAAGGCCCAGTT
Found at i:66543715 original size:21 final size:24
Alignment explanation
Indices: 66543648--66543740 Score: 123
Period size: 24 Copynumber: 3.9 Consensus size: 24
66543638 AAGGCTGTCA
* *
66543648 GGAGAAGATTTAGGAGTTGATAAG
1 GGAGAGGATTTAGGAGATGATAAG
66543672 GGAGAGGATTTAGGAGATGATAAG
1 GGAGAGGATTTAGGAGATGATAAG
* * *
66543696 GGAGAGGATTTAGGTGATAATAAA
1 GGAGAGGATTTAGGAGATGATAAG
* *
66543720 GGAGAAGATTTAGGAGCTGAT
1 GGAGAGGATTTAGGAGATGAT
66543741 CAAAGAGCAG
Statistics
Matches: 60, Mismatches: 9, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 60 1.00
ACGTcount: A:0.38, C:0.01, G:0.38, T:0.24
Consensus pattern (24 bp):
GGAGAGGATTTAGGAGATGATAAG
Found at i:66545064 original size:32 final size:32
Alignment explanation
Indices: 66544980--66545064 Score: 75
Period size: 32 Copynumber: 2.6 Consensus size: 32
66544970 GTACAGTTAT
* * *
66544980 CTGAATAAGGGGCTAAGGCCCAGTTTATTGTGAT
1 CTGAA-AA-GGGCTTAGGCCCAGTTTACTGTGAA
*
66545014 CTGAAAAGGGCTCT-GGCCCAGTTTCACTGTTAA
1 CTGAAAAGGGCT-TAGGCCCAGTTT-ACTGTGAA
*
66545047 CTG-AATGGGCTTAGGCCC
1 CTGAAAAGGGCTTAGGCCC
66545065 GATGGGCTTG
Statistics
Matches: 43, Mismatches: 5, Indels: 8
0.77 0.09 0.14
Matches are distributed among these distances:
31 1 0.02
32 27 0.63
33 10 0.23
34 5 0.12
ACGTcount: A:0.24, C:0.21, G:0.28, T:0.27
Consensus pattern (32 bp):
CTGAAAAGGGCTTAGGCCCAGTTTACTGTGAA
Found at i:66551701 original size:26 final size:26
Alignment explanation
Indices: 66551665--66551798 Score: 151
Period size: 27 Copynumber: 5.0 Consensus size: 26
66551655 TCGTTAAGAT
*
66551665 CCCCTGTTTGTAAAATTATCAAAATA
1 CCCCTGTTTGTAAAATTATCGAAATA
66551691 CCCCTGTTTGTAAAATTATCGAAATA
1 CCCCTGTTTGTAAAATTATCGAAATA
* * *
66551717 CCCACTATTTATAAAATTACCGAAATA
1 CCC-CTGTTTGTAAAATTATCGAAATA
* *
66551744 CCTCCAGTTTGTAAAGTTATCGAAATA
1 CC-CCTGTTTGTAAAATTATCGAAATA
* * * *
66551771 CCCCCAGTTTGCAAAGTTACCGAAATA
1 -CCCCTGTTTGTAAAATTATCGAAATA
66551798 C
1 C
66551799 TCTTGTAGGG
Statistics
Matches: 94, Mismatches: 11, Indels: 6
0.85 0.10 0.05
Matches are distributed among these distances:
26 29 0.31
27 62 0.66
28 3 0.03
ACGTcount: A:0.37, C:0.22, G:0.10, T:0.31
Consensus pattern (26 bp):
CCCCTGTTTGTAAAATTATCGAAATA
Found at i:66552248 original size:27 final size:27
Alignment explanation
Indices: 66552218--66552281 Score: 76
Period size: 27 Copynumber: 2.4 Consensus size: 27
66552208 CTTTATACCA
* *
66552218 ATCATATTTATCTG-TGGCTATGTGCCT
1 ATCATATTTAT-TGATGACTATGTGCCG
* *
66552245 ATCATATTTATTGATGACTTTGTGTCG
1 ATCATATTTATTGATGACTATGTGCCG
66552272 ATCATATTTA
1 ATCATATTTA
66552282 CCCATGGTTG
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
26 2 0.06
27 30 0.94
ACGTcount: A:0.23, C:0.14, G:0.16, T:0.47
Consensus pattern (27 bp):
ATCATATTTATTGATGACTATGTGCCG
Found at i:66555225 original size:28 final size:29
Alignment explanation
Indices: 66555159--66555228 Score: 108
Period size: 28 Copynumber: 2.5 Consensus size: 29
66555149 TTTAAAACCC
* *
66555159 TAGGGGT-ATATCGGTAATTTTGCTTTTT
1 TAGGGGTAATTTCGGTAATTTTGCTTCTT
66555187 TAGGGGTAATTTCGGTAATTTTGC-TCTT
1 TAGGGGTAATTTCGGTAATTTTGCTTCTT
66555215 TAGGGGTAATTTCG
1 TAGGGGTAATTTCG
66555229 TGATCTACGC
Statistics
Matches: 39, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
28 24 0.62
29 15 0.38
ACGTcount: A:0.19, C:0.09, G:0.27, T:0.46
Consensus pattern (29 bp):
TAGGGGTAATTTCGGTAATTTTGCTTCTT
Found at i:66562860 original size:15 final size:17
Alignment explanation
Indices: 66562842--66562873 Score: 50
Period size: 15 Copynumber: 2.0 Consensus size: 17
66562832 TAGCATATTT
66562842 TACCAAA-TCA-ATTCA
1 TACCAAACTCACATTCA
66562857 TACCAAACTCACATTCA
1 TACCAAACTCACATTCA
66562874 CAAGTATCAA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
15 7 0.47
16 3 0.20
17 5 0.33
ACGTcount: A:0.44, C:0.31, G:0.00, T:0.25
Consensus pattern (17 bp):
TACCAAACTCACATTCA
Found at i:66563957 original size:24 final size:27
Alignment explanation
Indices: 66563930--66563981 Score: 74
Period size: 24 Copynumber: 2.0 Consensus size: 27
66563920 AGTTCATGCA
66563930 ATATTAAAGC-ATTTAA-ATAC-AATT
1 ATATTAAAGCTATTTAACATACGAATT
66563954 ATATTAAAGCTTATTTAACATACGAATT
1 ATATTAAAGC-TATTTAACATACGAATT
66563982 TACCTCGGTT
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
24 10 0.42
26 6 0.25
27 4 0.17
28 4 0.17
ACGTcount: A:0.46, C:0.10, G:0.06, T:0.38
Consensus pattern (27 bp):
ATATTAAAGCTATTTAACATACGAATT
Found at i:66569534 original size:20 final size:22
Alignment explanation
Indices: 66569516--66569581 Score: 78
Period size: 23 Copynumber: 2.9 Consensus size: 22
66569506 TCACCAATAT
*
66569516 CGCAGCATAGTTGCTAATAGTAA
1 CGCAGCAAAGTTGCTAATAGT-A
*
66569539 CGCAGTAAAGTTGCTAATAGTAA
1 CGCAGCAAAGTTGCTAATAGT-A
* *
66569562 CGCAGTAAAGCTGCTAATAG
1 CGCAGCAAAGTTGCTAATAG
66569582 CGGTAAACGT
Statistics
Matches: 40, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
23 40 1.00
ACGTcount: A:0.36, C:0.17, G:0.23, T:0.24
Consensus pattern (22 bp):
CGCAGCAAAGTTGCTAATAGTA
Found at i:66569542 original size:23 final size:23
Alignment explanation
Indices: 66569524--66569581 Score: 107
Period size: 23 Copynumber: 2.5 Consensus size: 23
66569514 ATCGCAGCAT
66569524 AGTTGCTAATAGTAACGCAGTAA
1 AGTTGCTAATAGTAACGCAGTAA
66569547 AGTTGCTAATAGTAACGCAGTAA
1 AGTTGCTAATAGTAACGCAGTAA
*
66569570 AGCTGCTAATAG
1 AGTTGCTAATAG
66569582 CGGTAAACGT
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
23 34 1.00
ACGTcount: A:0.38, C:0.14, G:0.22, T:0.26
Consensus pattern (23 bp):
AGTTGCTAATAGTAACGCAGTAA
Found at i:66573682 original size:40 final size:40
Alignment explanation
Indices: 66573604--66573728 Score: 130
Period size: 40 Copynumber: 3.1 Consensus size: 40
66573594 TCGAATGATG
* *
66573604 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTATA
*
66573644 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTATA
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTATA
* * * **
66573684 ACCGGGCTATGTCCCAAAGGCATTTGAACGAG-TAGCTATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATA
66573724 TCCGG
1 TCCGG
66573729 TTAAACTCCG
Statistics
Matches: 71, Mismatches: 10, Indels: 8
0.80 0.11 0.09
Matches are distributed among these distances:
39 3 0.04
40 60 0.85
41 8 0.11
ACGTcount: A:0.26, C:0.22, G:0.26, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA
Found at i:66585703 original size:26 final size:26
Alignment explanation
Indices: 66585674--66585780 Score: 205
Period size: 26 Copynumber: 4.1 Consensus size: 26
66585664 GATACAAATA
66585674 GATAATGGGTTAGGTAAATGTTCCAT
1 GATAATGGGTTAGGTAAATGTTCCAT
*
66585700 GATAATGGGTTAGGTAAATGTTTCAT
1 GATAATGGGTTAGGTAAATGTTCCAT
66585726 GATAATGGGTTAGGTAAATGTTCCAT
1 GATAATGGGTTAGGTAAATGTTCCAT
66585752 GATAATGGGTTAGGTAAATGTTCCAT
1 GATAATGGGTTAGGTAAATGTTCCAT
66585778 GAT
1 GAT
66585781 GGGAATTTCA
Statistics
Matches: 79, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
26 79 1.00
ACGTcount: A:0.31, C:0.07, G:0.27, T:0.36
Consensus pattern (26 bp):
GATAATGGGTTAGGTAAATGTTCCAT
Found at i:66592798 original size:26 final size:26
Alignment explanation
Indices: 66592765--66592872 Score: 189
Period size: 26 Copynumber: 4.2 Consensus size: 26
66592755 TGATACAAAT
66592765 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* **
66592791 TGACAATGGGTTAGGTAAATGTTTAA
1 TGATAATGGGTTAGGTAAATGTTCCA
66592817 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
66592843 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
66592869 TGAT
1 TGAT
66592873 GGGAATTTCA
Statistics
Matches: 76, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 76 1.00
ACGTcount: A:0.31, C:0.06, G:0.27, T:0.35
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:66594654 original size:32 final size:34
Alignment explanation
Indices: 66594593--66594657 Score: 89
Period size: 32 Copynumber: 2.0 Consensus size: 34
66594583 CTATGGGCCA
*
66594593 TATTGTTATCTGAATAAAGGGCTAAGGCCCAGTT
1 TATTGTAATCTGAATAAAGGGCTAAGGCCCAGTT
**
66594627 TATTGTAATCTG-A-AAAGGGCTCTGGCCCAGT
1 TATTGTAATCTGAATAAAGGGCTAAGGCCCAGT
66594658 ACCACTGTTA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
32 16 0.57
33 1 0.04
34 11 0.39
ACGTcount: A:0.28, C:0.17, G:0.25, T:0.31
Consensus pattern (34 bp):
TATTGTAATCTGAATAAAGGGCTAAGGCCCAGTT
Found at i:66598507 original size:40 final size:40
Alignment explanation
Indices: 66598463--66598630 Score: 203
Period size: 40 Copynumber: 4.2 Consensus size: 40
66598453 CGAAATACAA
*
66598463 CCGGATATAACCACATGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACTTGCACGAATGCCTTCGGGTCTTAGC
* * * *
66598503 CCGGATAGAACGACTTGCACAAATGCCTTCGGGTATTAGC
1 CCGGATATAACCACTTGCACGAATGCCTTCGGGTCTTAGC
* *
66598543 CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACTTGCACGAATGCCTTCGGGTCTTAGC
* ** * * *
66598583 CCGGATGTAGTCACTAGCA-TAATCGCCTTCGGGCCTTAGC
1 CCGGATATAACCACTTGCACGAAT-GCCTTCGGGTCTTAGC
66598623 CCGGATAT
1 CCGGATAT
66598631 CATTCAAAGA
Statistics
Matches: 109, Mismatches: 18, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
39 3 0.03
40 106 0.97
ACGTcount: A:0.24, C:0.28, G:0.24, T:0.24
Consensus pattern (40 bp):
CCGGATATAACCACTTGCACGAATGCCTTCGGGTCTTAGC
Found at i:66606406 original size:40 final size:40
Alignment explanation
Indices: 66606362--66606529 Score: 203
Period size: 40 Copynumber: 4.2 Consensus size: 40
66606352 TCGAATACAA
*
66606362 CCGGATATAACCACATGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACTTGCACGAATGCCTTCGGGTCTTAGC
* * * *
66606402 CCGGATAGAACGACTTGCACAAATGCCTTCGGGTATTAGC
1 CCGGATATAACCACTTGCACGAATGCCTTCGGGTCTTAGC
* *
66606442 CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACTTGCACGAATGCCTTCGGGTCTTAGC
* ** * * *
66606482 CCGGATGTAGTCACTAGCA-TAATCGCCTTCGGGCCTTAGC
1 CCGGATATAACCACTTGCACGAAT-GCCTTCGGGTCTTAGC
66606522 CCGGATAT
1 CCGGATAT
66606530 CATTCAAAGA
Statistics
Matches: 109, Mismatches: 18, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
39 3 0.03
40 106 0.97
ACGTcount: A:0.24, C:0.28, G:0.24, T:0.24
Consensus pattern (40 bp):
CCGGATATAACCACTTGCACGAATGCCTTCGGGTCTTAGC
Found at i:66611702 original size:93 final size:93
Alignment explanation
Indices: 66611590--66611761 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
66611580 GCCCATAAGT
* *
66611590 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
66611655 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
*
66611683 GAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
66611748 CGAGTTCGGATGCC
66 CGAGTTCGGATGCC
66611762 CAAATATCCC
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:0.27, C:0.30, G:0.22, T:0.20
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:66611757 original size:46 final size:46
Alignment explanation
Indices: 66611582--66611757 Score: 232
Period size: 46 Copynumber: 3.8 Consensus size: 46
66611572 TGTAACCCGC
* * *
66611582 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
* *
66611628 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACG-CTCG---CAT
* *
66611678 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
66611721 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
66611758 TGCCCAAATA
Statistics
Matches: 112, Mismatches: 11, Indels: 14
0.82 0.08 0.10
Matches are distributed among these distances:
43 3 0.03
44 1 0.01
45 2 0.02
46 68 0.61
47 32 0.29
48 2 0.02
49 1 0.01
50 3 0.03
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.20
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
Found at i:66616971 original size:49 final size:49
Alignment explanation
Indices: 66616898--66617024 Score: 168
Period size: 49 Copynumber: 2.6 Consensus size: 49
66616888 GTTGTTGACG
66616898 CCATGTCCCAGACATGGTCTTACACTGACT-TCCATATATCGAG-GTCGACA
1 CCATGTCCCAGACA-GGTCTTACACTGACTCT-CATATATCG-GTGTCGACA
* * * **
66616948 CCATGTCCCAAACAGGTCTTACACTGGCTCTCATCTATCGGTGTCGATG
1 CCATGTCCCAGACAGGTCTTACACTGACTCTCATATATCGGTGTCGACA
66616997 CCATGTCCCAGACAGGTCTTACACTGAC
1 CCATGTCCCAGACAGGTCTTACACTGAC
66617025 ACACAACAAG
Statistics
Matches: 68, Mismatches: 7, Indels: 5
0.85 0.09 0.06
Matches are distributed among these distances:
48 1 0.01
49 53 0.78
50 14 0.21
ACGTcount: A:0.24, C:0.31, G:0.19, T:0.26
Consensus pattern (49 bp):
CCATGTCCCAGACAGGTCTTACACTGACTCTCATATATCGGTGTCGACA
Found at i:66617490 original size:46 final size:45
Alignment explanation
Indices: 66617438--66617560 Score: 160
Period size: 46 Copynumber: 2.7 Consensus size: 45
66617428 CCTCGAGGTT
66617438 GATGCATGTCCCAGACATGTCTTACACTAGCTCTCATCTCAA-T-GCC
1 GATGCATGTCCCAGACATGTCTTACACTAGCTCTCA--T-AAGTGGCC
** *
66617484 GATGCATGTCTTAGACATGTCTTACACTGGCTCTCATAATGTGGCC
1 GATGCATGTCCCAGACATGTCTTACACTAGCTCTCATAA-GTGGCC
*
66617530 AATGCATGTCCCAGACATGTCTTACACTAGC
1 GATGCATGTCCCAGACATGTCTTACACTAGC
66617561 ACGCATATCA
Statistics
Matches: 67, Mismatches: 7, Indels: 6
0.84 0.09 0.08
Matches are distributed among these distances:
43 2 0.03
44 1 0.01
45 1 0.01
46 63 0.94
ACGTcount: A:0.24, C:0.28, G:0.18, T:0.29
Consensus pattern (45 bp):
GATGCATGTCCCAGACATGTCTTACACTAGCTCTCATAAGTGGCC
Found at i:66626703 original size:16 final size:15
Alignment explanation
Indices: 66626672--66626702 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
66626662 AGTCGGGTTA
66626672 TAAAATTTTTCTTTT
1 TAAAATTTTTCTTTT
66626687 TAAAATTTTTCTTTT
1 TAAAATTTTTCTTTT
66626702 T
1 T
66626703 TCTAAGTTGA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.26, C:0.06, G:0.00, T:0.68
Consensus pattern (15 bp):
TAAAATTTTTCTTTT
Found at i:66628330 original size:54 final size:54
Alignment explanation
Indices: 66628266--66628398 Score: 221
Period size: 54 Copynumber: 2.5 Consensus size: 54
66628256 TTTACCACGA
* *
66628266 GATTACCAGTCCAGGCTAAATCCCCCGTAGTATAAACTCATAGAGTAATATCGG
1 GATTACCAGTCCAGGCTAAATCCCCCATAGTATAAACTCATAGAGTAATACCGG
** *
66628320 GATTACCAGTCTGGGCTAAATCCCCCATAGTATAAACTCATAGAGTAATGCCGG
1 GATTACCAGTCCAGGCTAAATCCCCCATAGTATAAACTCATAGAGTAATACCGG
66628374 GATTACCAGTCCAGGCTAAATCCCC
1 GATTACCAGTCCAGGCTAAATCCCC
66628399 TACAATGACA
Statistics
Matches: 72, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
54 72 1.00
ACGTcount: A:0.32, C:0.26, G:0.19, T:0.23
Consensus pattern (54 bp):
GATTACCAGTCCAGGCTAAATCCCCCATAGTATAAACTCATAGAGTAATACCGG
Found at i:66633355 original size:39 final size:40
Alignment explanation
Indices: 66633260--66633466 Score: 204
Period size: 40 Copynumber: 5.2 Consensus size: 40
66633250 CGGAATACAA
* *
66633260 CCGGATATAACCACATGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGC
* * * *
66633300 CCGGATAGAACGACTTGCACAAATGCCTTCGGGTATTAG-
1 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGC
*
66633339 CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGC
* ** * *
66633379 CCGGATGTGGTC-ACTAGCAC-AATGGCCTTCGGGTCTTAAC
1 CCGGATAT-AACAACTTGCACGAAT-GCCTTCGGGTCTTAGC
** * ** * *
66633419 CCGGATATAATTACTAGCATAAATGTCTTCGGGACTTAGC
1 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGC
66633459 CCGGATAT
1 CCGGATAT
66633467 CATTCAATTG
Statistics
Matches: 139, Mismatches: 23, Indels: 10
0.81 0.13 0.06
Matches are distributed among these distances:
39 37 0.27
40 98 0.71
41 4 0.03
ACGTcount: A:0.25, C:0.26, G:0.24, T:0.26
Consensus pattern (40 bp):
CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGC
Found at i:66633399 original size:79 final size:80
Alignment explanation
Indices: 66633260--66633465 Score: 229
Period size: 79 Copynumber: 2.6 Consensus size: 80
66633250 CGGAATACAA
* * *
66633260 CCGGATATAACCACATGCACGAATGCCTTCGGGTCTTAGCCCGGATAGAACGACTTGCACAAAT-
1 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATAGAACGACTAGCAC-AATG
*
66633324 GCCTTCGGGTATT-AG
65 GCCTTCGGGTATTAAC
* * **
66633339 CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATGTGGTC-ACTAGCACAATG
1 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGAT-AGAACGACTAGCACAATG
*
66633403 GCCTTCGGGTCTTAAC
65 GCCTTCGGGTATTAAC
** * ** * *
66633419 CCGGATATAATTACTAGCATAAATGTCTTCGGGACTTAGCCCGGATA
1 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATA
66633466 TCATTCAATT
Statistics
Matches: 106, Mismatches: 18, Indels: 6
0.82 0.14 0.05
Matches are distributed among these distances:
78 3 0.03
79 62 0.58
80 41 0.39
ACGTcount: A:0.25, C:0.26, G:0.24, T:0.25
Consensus pattern (80 bp):
CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATAGAACGACTAGCACAATGG
CCTTCGGGTATTAAC
Found at i:66641348 original size:40 final size:39
Alignment explanation
Indices: 66641303--66641510 Score: 202
Period size: 40 Copynumber: 5.2 Consensus size: 39
66641293 CGGAATACAA
*
66641303 CCGGATATAACCACATGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* * *
66641343 CCGGATAGAACGACTTGCACAAATGCCTTCGGGTATTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* * *
66641383 CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* *** *
66641423 CCGGATGTGGTCACTAGCAC-AATGGCCTTCGGGTCTTAAC
1 CCGGATATAACCACT-GCACAAAT-GCCTTCGGGTCTTAGC
** * * *
66641463 CCGGATATAATTACTAGCATAAATGTCTTCGGGACTTAGC
1 CCGGATATAACCACT-GCACAAATGCCTTCGGGTCTTAGC
66641503 CCGGATAT
1 CCGGATAT
66641511 CATTCAATTG
Statistics
Matches: 141, Mismatches: 24, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
39 4 0.03
40 134 0.95
41 3 0.02
ACGTcount: A:0.25, C:0.26, G:0.24, T:0.25
Consensus pattern (39 bp):
CCGGATATAACCACTGCACAAATGCCTTCGGGTCTTAGC
Found at i:66641443 original size:80 final size:80
Alignment explanation
Indices: 66641303--66641509 Score: 238
Period size: 80 Copynumber: 2.6 Consensus size: 80
66641293 CGGAATACAA
* * *
66641303 CCGGATATAACCACATGCACGAATGCCTTCGGGTCTTAGCCCGGATAGAACGACTTGCACAAAT-
1 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATAGAACGACTAGCAC-AATG
*
66641367 GCCTTCGGGTATTAGC
65 GCCTTCGGGTATTAAC
* * **
66641383 CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATGTGGTC-ACTAGCACAATG
1 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGAT-AGAACGACTAGCACAATG
*
66641447 GCCTTCGGGTCTTAAC
65 GCCTTCGGGTATTAAC
** * ** * *
66641463 CCGGATATAATTACTAGCATAAATGTCTTCGGGACTTAGCCCGGATA
1 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATA
66641510 TCATTCAATT
Statistics
Matches: 107, Mismatches: 18, Indels: 5
0.82 0.14 0.04
Matches are distributed among these distances:
79 3 0.03
80 102 0.95
81 2 0.02
ACGTcount: A:0.25, C:0.26, G:0.24, T:0.25
Consensus pattern (80 bp):
CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATAGAACGACTAGCACAATGG
CCTTCGGGTATTAAC
Found at i:66647466 original size:27 final size:27
Alignment explanation
Indices: 66647427--66647532 Score: 149
Period size: 27 Copynumber: 3.9 Consensus size: 27
66647417 TGTTGGGACG
66647427 AAATACCCCCATAGGGTAAAATGACCA
1 AAATACCCCCATAGGGTAAAATGACCA
* ***
66647454 AAATACCCTCATAGGGTAAAATGATTG
1 AAATACCCCCATAGGGTAAAATGACCA
66647481 AAATACCCCCATAGGGTAAAATGACCA
1 AAATACCCCCATAGGGTAAAATGACCA
** *
66647508 AAATACCCCTGTAAGGTAAAATGAC
1 AAATACCCCCATAGGGTAAAATGAC
66647533 AGTTTTTCCC
Statistics
Matches: 68, Mismatches: 11, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 68 1.00
ACGTcount: A:0.43, C:0.22, G:0.16, T:0.19
Consensus pattern (27 bp):
AAATACCCCCATAGGGTAAAATGACCA
Found at i:66647526 original size:54 final size:54
Alignment explanation
Indices: 66647426--66647531 Score: 178
Period size: 54 Copynumber: 2.0 Consensus size: 54
66647416 ATGTTGGGAC
*
66647426 GAAATACCCCCATAGGGTAAAATGACCAAAATACCCTCATAGGGTAAAATGATT
1 GAAATACCCCCATAGGGTAAAATGACCAAAATACCCTCATAAGGTAAAATGATT
*
66647480 GAAATACCCCCATAGGGTAAAATGACCAAAATACCC-CTGTAAGGTAAAATGA
1 GAAATACCCCCATAGGGTAAAATGACCAAAATACCCTC-ATAAGGTAAAATGA
66647532 CAGTTTTTCC
Statistics
Matches: 49, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
53 1 0.02
54 48 0.98
ACGTcount: A:0.43, C:0.21, G:0.17, T:0.19
Consensus pattern (54 bp):
GAAATACCCCCATAGGGTAAAATGACCAAAATACCCTCATAAGGTAAAATGATT
Found at i:66647554 original size:27 final size:27
Alignment explanation
Indices: 66647522--66647765 Score: 328
Period size: 27 Copynumber: 9.0 Consensus size: 27
66647512 ACCCCTGTAA
* *
66647522 GGTAAAATGACAGTTTTTCCCTTATGT
1 GGTAAAATGACTGTTTTGCCCTTATGT
* *
66647549 GTTAAAATGA-TGATTTTGCCCTTATAT
1 GGTAAAATGACTG-TTTTGCCCTTATGT
*
66647576 GATAAAATGACTGTTTTGCCCTTATGT
1 GGTAAAATGACTGTTTTGCCCTTATGT
*
66647603 GGAAAAATGACTGTTTTGCCCTTATGT
1 GGTAAAATGACTGTTTTGCCCTTATGT
*
66647630 GTTAAAATGACTGTTTTGCCCTTATGT
1 GGTAAAATGACTGTTTTGCCCTTATGT
* * *
66647657 GTTAAAATGACAGTTTTTCCCTTATGT
1 GGTAAAATGACTGTTTTGCCCTTATGT
*
66647684 GGTAAAATGACTGTTTTGCCCTTATGA
1 GGTAAAATGACTGTTTTGCCCTTATGT
* *
66647711 GGTAAAATGAATATTTTGCCCTTATGT
1 GGTAAAATGACTGTTTTGCCCTTATGT
* * *
66647738 GGTAAGATGATTGTTTTGCCCCTATGT
1 GGTAAAATGACTGTTTTGCCCTTATGT
66647765 G
1 G
66647766 ATGTATGTTT
Statistics
Matches: 192, Mismatches: 23, Indels: 4
0.88 0.11 0.02
Matches are distributed among these distances:
26 1 0.01
27 189 0.98
28 2 0.01
ACGTcount: A:0.25, C:0.14, G:0.20, T:0.41
Consensus pattern (27 bp):
GGTAAAATGACTGTTTTGCCCTTATGT
Found at i:66647582 original size:81 final size:81
Alignment explanation
Indices: 66647497--66647735 Score: 194
Period size: 81 Copynumber: 3.0 Consensus size: 81
66647487 CCCCATAGGG
* * *
66647497 TAAAATGACCAAAATACCCCTGTAAGGTAAAATGACAGTTTTTCCCTTATGTGTTAAAATGA-TG
1 TAAAATGACCAAAATACCCCTATAAGGAAAAATGACAGTTTTGCCCTTATGTGTTAAAATGACTG
66647561 ATTTTGCCCTTATATGA
66 -TTTTGCCCTTATATGA
***** * * ** *
66647578 TAAAATGACTGTTTTGCCCTTATGTGGAAAAATGACTGTTTTGCCCTTATGTGTTAAAATGACTG
1 TAAAATGACCAAAATACCCCTATAAGGAAAAATGACAGTTTTGCCCTTATGTGTTAAAATGACTG
* *
66647643 TTTTGCCCTTATGTGT
66 TTTTGCCCTTATATGA
*** * * ** * * * * *
66647659 TAAAATGA-CAGTTTTTCCCTTATGTGGTAAAATGACTGTTTTGCCCTTATGAGGTAAAATGAAT
1 TAAAATGACCA-AAATACCCCTATAAGGAAAAATGACAGTTTTGCCCTTATGTGTTAAAATGACT
*
66647723 ATTTTGCCCTTAT
65 GTTTTGCCCTTAT
66647736 GTGGTAAGAT
Statistics
Matches: 133, Mismatches: 23, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
81 131 0.98
82 2 0.02
ACGTcount: A:0.29, C:0.15, G:0.17, T:0.39
Consensus pattern (81 bp):
TAAAATGACCAAAATACCCCTATAAGGAAAAATGACAGTTTTGCCCTTATGTGTTAAAATGACTG
TTTTGCCCTTATATGA
Found at i:66648154 original size:18 final size:18
Alignment explanation
Indices: 66648088--66648160 Score: 74
Period size: 18 Copynumber: 4.1 Consensus size: 18
66648078 GGACTTGCAT
* *
66648088 ACTGCTTACTATTACTGC
1 ACTGTTTACTGTTACTGC
* * *
66648106 ACTATTTACTATTACTGT
1 ACTGTTTACTGTTACTGC
*
66648124 ACTGATTACTGTTACTGC
1 ACTGTTTACTGTTACTGC
* *
66648142 ACTGTTTATTGTTATTGC
1 ACTGTTTACTGTTACTGC
66648160 A
1 A
66648161 ATGGGCCAAG
Statistics
Matches: 45, Mismatches: 10, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
18 45 1.00
ACGTcount: A:0.23, C:0.19, G:0.12, T:0.45
Consensus pattern (18 bp):
ACTGTTTACTGTTACTGC
Found at i:66650124 original size:93 final size:93
Alignment explanation
Indices: 66650012--66650183 Score: 299
Period size: 93 Copynumber: 1.8 Consensus size: 93
66650002 GCCCATAAGT
* * *
66650012 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCAGACTCAACTCAA
66650077 CGAGCTCGGATGCCTAGTTACATCTCTC
66 CGAGCTCGGATGCCTAGTTACATCTCTC
*
66650105 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCAGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCAGACTCAACTCAA
*
66650170 CGAGTTCGGATGCC
66 CGAGCTCGGATGCC
66650184 CAAATATCCT
Statistics
Matches: 74, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 74 1.00
ACGTcount: A:0.28, C:0.30, G:0.21, T:0.21
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCAGACTCAACTCAA
CGAGCTCGGATGCCTAGTTACATCTCTC
Found at i:66650179 original size:46 final size:46
Alignment explanation
Indices: 66650004--66650179 Score: 205
Period size: 46 Copynumber: 3.8 Consensus size: 46
66649994 TGTAACCCGC
* *
66650004 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
*
66650050 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGG--ATGC-CTAGTT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGC-A--T
* *** *
66650096 ACATCTCTCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGT-GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
* *
66650143 CCATAAGTGAACTCAGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGA
66650180 TGCCCAAATA
Statistics
Matches: 110, Mismatches: 13, Indels: 14
0.80 0.09 0.10
Matches are distributed among these distances:
43 1 0.01
44 3 0.03
46 69 0.63
47 32 0.29
49 4 0.04
50 1 0.01
ACGTcount: A:0.29, C:0.30, G:0.20, T:0.21
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
Found at i:66652891 original size:55 final size:53
Alignment explanation
Indices: 66652825--66652962 Score: 150
Period size: 53 Copynumber: 2.6 Consensus size: 53
66652815 GCAAGAAAAT
* *
66652825 CATGTAAGACCATGTCAAGACATGGCATTGATAAACTACGATAAGGAAAAGATCC
1 CATGTAAGACCATGTCAAGACATGGCAATGAT-AACTAC-ATAAGGAAAAGATAC
* * * * * * *
66652880 CATGTAAGACCATGTCAAGGCATGACAATGATGAGTTCATAAGGCAAGGATAC
1 CATGTAAGACCATGTCAAGACATGGCAATGATAACTACATAAGGAAAAGATAC
** *
66652933 CACATAAGACCATGTCAAGACATGGAAATG
1 CATGTAAGACCATGTCAAGACATGGCAATG
66652963 GTAAATTTAA
Statistics
Matches: 69, Mismatches: 14, Indels: 2
0.81 0.16 0.02
Matches are distributed among these distances:
53 37 0.54
54 3 0.04
55 29 0.42
ACGTcount: A:0.41, C:0.18, G:0.22, T:0.20
Consensus pattern (53 bp):
CATGTAAGACCATGTCAAGACATGGCAATGATAACTACATAAGGAAAAGATAC
Found at i:66659028 original size:27 final size:27
Alignment explanation
Indices: 66658955--66659029 Score: 71
Period size: 27 Copynumber: 2.8 Consensus size: 27
66658945 ATTACTGAAA
* *
66658955 TACCCTCGACTTGTAAAATTACCAAAG
1 TACCCTCGATTTGAAAAATTACCAAAG
* ****
66658982 TACCCTCGATTT-ACAGAATTACCCTTT
1 TACCCTCGATTTGA-AAAATTACCAAAG
66659009 TACCCTCGATTTGAAAAATTA
1 TACCCTCGATTTGAAAAATTA
66659030 TTAAAATACC
Statistics
Matches: 38, Mismatches: 8, Indels: 4
0.76 0.16 0.08
Matches are distributed among these distances:
27 37 0.97
28 1 0.03
ACGTcount: A:0.33, C:0.25, G:0.09, T:0.32
Consensus pattern (27 bp):
TACCCTCGATTTGAAAAATTACCAAAG
Found at i:66659091 original size:27 final size:27
Alignment explanation
Indices: 66659061--66659140 Score: 92
Period size: 27 Copynumber: 3.0 Consensus size: 27
66659051 GAGTTACTGA
66659061 AATACCCTTGTAGGGTAGAAATACCAG
1 AATACCCTTGTAGGGTAGAAATACCAG
* *
66659088 AATACCCCTGTAGGGTAGAATTACC-G
1 AATACCCTTGTAGGGTAGAAATACCAG
* *
66659114 AGATACTCTTGTGGGGTA-AAATTACCA
1 A-ATACCCTTGTAGGGTAGAAA-TACCA
66659141 TTTTGCCCCT
Statistics
Matches: 44, Mismatches: 6, Indels: 5
0.80 0.11 0.09
Matches are distributed among these distances:
26 4 0.09
27 40 0.91
ACGTcount: A:0.34, C:0.19, G:0.23, T:0.25
Consensus pattern (27 bp):
AATACCCTTGTAGGGTAGAAATACCAG
Found at i:66659092 original size:54 final size:54
Alignment explanation
Indices: 66659034--66659140 Score: 135
Period size: 54 Copynumber: 2.0 Consensus size: 54
66659024 AAATTATTAA
* *
66659034 AATACCCATGTAGAGTAGAGTTACTGAAATACCCTTGTAGGGTAGAAA-TACCAG
1 AATACCCATGTAGAGTAGAATTACCGAAATACCCTTGTAGGGTA-AAATTACCAG
* * * * *
66659088 AATACCCCTGTAGGGTAGAATTACCGAGATACTCTTGTGGGGTAAAATTACCA
1 AATACCCATGTAGAGTAGAATTACCGAAATACCCTTGTAGGGTAAAATTACCA
66659141 TTTTGCCCCT
Statistics
Matches: 45, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
53 3 0.07
54 42 0.93
ACGTcount: A:0.35, C:0.18, G:0.22, T:0.25
Consensus pattern (54 bp):
AATACCCATGTAGAGTAGAATTACCGAAATACCCTTGTAGGGTAAAATTACCAG
Found at i:66659780 original size:27 final size:26
Alignment explanation
Indices: 66659750--66659857 Score: 117
Period size: 27 Copynumber: 4.0 Consensus size: 26
66659740 ATTCTGTTAA
* * * *
66659750 GTGGCTTTGCCACATTATCTATTTTTG
1 GTGGCTATGCCACAATATCT-GTTCTG
66659777 GTGGCTATGCCACAAATATCTGTTCTG
1 GTGGCTATGCCAC-AATATCTGTTCTG
*
66659804 GTGGCTCTGCCACAATATCTGTATCTG
1 GTGGCTATGCCACAATATCTGT-TCTG
* * *
66659831 GTGACTCTGTCACAATATCTGTTCTG
1 GTGGCTATGCCACAATATCTGTTCTG
66659857 G
1 G
66659858 CAGCTATGTT
Statistics
Matches: 72, Mismatches: 7, Indels: 5
0.86 0.08 0.06
Matches are distributed among these distances:
26 14 0.19
27 52 0.72
28 6 0.08
ACGTcount: A:0.19, C:0.22, G:0.21, T:0.38
Consensus pattern (26 bp):
GTGGCTATGCCACAATATCTGTTCTG
Found at i:66659808 original size:54 final size:53
Alignment explanation
Indices: 66659750--66659857 Score: 135
Period size: 54 Copynumber: 2.0 Consensus size: 53
66659740 ATTCTGTTAA
* * * * *
66659750 GTGGCTTTGCCACATTATCTATTTTTGGTGGCTATGCCACAAATATCTGTTCTG
1 GTGGCTCTGCCACAATATCTATATCTGGTGACTATGCCAC-AATATCTGTTCTG
* * *
66659804 GTGGCTCTGCCACAATATCTGTATCTGGTGACTCTGTCACAATATCTGTTCTG
1 GTGGCTCTGCCACAATATCTATATCTGGTGACTATGCCACAATATCTGTTCTG
66659857 G
1 G
66659858 CAGCTATGTT
Statistics
Matches: 46, Mismatches: 8, Indels: 1
0.84 0.15 0.02
Matches are distributed among these distances:
53 14 0.30
54 32 0.70
ACGTcount: A:0.19, C:0.22, G:0.21, T:0.38
Consensus pattern (53 bp):
GTGGCTCTGCCACAATATCTATATCTGGTGACTATGCCACAATATCTGTTCTG
Found at i:66660032 original size:31 final size:29
Alignment explanation
Indices: 66659996--66660134 Score: 108
Period size: 31 Copynumber: 4.7 Consensus size: 29
66659986 AATTCTATTA
*
66659996 CCTGATATTGATTCTGATTCTGTCACCTAAT
1 CCTGATACTGATTCTGATTCTGT-ACCT-AT
* *
66660027 TCTGATACTGATTCTGATTCTG-ATTCTAT
1 CCTGATACTGATTCTGATTCTGTA-CCTAT
**
66660056 CACCTGATTTTGATTCTGATTCTGT---TA-
1 --CCTGATACTGATTCTGATTCTGTACCTAT
*
66660083 CCTGATACTGATTCTGATTTTGTCACCTAAT
1 CCTGATACTGATTCTGATTCTGT-ACCT-AT
* *
66660114 TCTGATACTGATTTTGATTCT
1 CCTGATACTGATTCTGATTCT
66660135 AATTCTGTCG
Statistics
Matches: 86, Mismatches: 12, Indels: 20
0.73 0.10 0.17
Matches are distributed among these distances:
25 20 0.23
28 2 0.02
29 4 0.05
30 3 0.03
31 57 0.66
ACGTcount: A:0.21, C:0.19, G:0.14, T:0.46
Consensus pattern (29 bp):
CCTGATACTGATTCTGATTCTGTACCTAT
Found at i:66660043 original size:6 final size:6
Alignment explanation
Indices: 66660025--66660186 Score: 91
Period size: 6 Copynumber: 26.3 Consensus size: 6
66660015 CTGTCACCTA
* * *
66660025 ATTCTG ATACTG ATTCTG ATTCTG ATTCT- ATCACCTG ATTTTG ATTCTG
1 ATTCTG ATTCTG ATTCTG ATTCTG ATTCTG AT--TCTG ATTCTG ATTCTG
* * * * *
66660074 ATTCTG -TTACCTG ATACTG ATTCTG ATTTTG -TCACCTA ATTCTG ATACTG
1 ATTCTG ATT--CTG ATTCTG ATTCTG ATTCTG AT--TCTG ATTCTG ATTCTG
* * * * *
66660124 ATTTTG ATTCTA ATTCTG -TCGCCTG ATTCTG ATTCTG ATTCTT ATTTTG
1 ATTCTG ATTCTG ATTCTG AT--TCTG ATTCTG ATTCTG ATTCTG ATTCTG
66660173 ATTCT- AGTTCTG AT
1 ATTCTG A-TTCTG AT
66660187 AATGTTTCTT
Statistics
Matches: 116, Mismatches: 26, Indels: 28
0.68 0.15 0.16
Matches are distributed among these distances:
5 7 0.06
6 94 0.81
7 10 0.09
8 5 0.04
ACGTcount: A:0.20, C:0.18, G:0.14, T:0.48
Consensus pattern (6 bp):
ATTCTG
Found at i:66660045 original size:37 final size:37
Alignment explanation
Indices: 66660004--66660177 Score: 141
Period size: 37 Copynumber: 4.4 Consensus size: 37
66659994 TACCTGATAT
66660004 TGATTCTGATTCTGTCACCTAATTCTGATACTGATTC
1 TGATTCTGATTCTGTCACCTAATTCTGATACTGATTC
* *
66660041 TGATTCTGATTCTATCACCTGATTTTGATTCTGATTCTGTTACCTGATAC
1 TGATTCTGATTCTGTCACCT-A-----ATTCTGATACTG--A--T--T-C
* *
66660091 TGATTCTGATTTTGTCACCTAATTCTGATACTGATTT
1 TGATTCTGATTCTGTCACCTAATTCTGATACTGATTC
* * * *
66660128 TGATTCTAATTCTGTCGCCTGATTCTGATTCTGATTC
1 TGATTCTGATTCTGTCACCTAATTCTGATACTGATTC
* *
66660165 TTATTTTGATTCT
1 TGATTCTGATTCT
66660178 AGTTCTGATA
Statistics
Matches: 109, Mismatches: 15, Indels: 26
0.73 0.10 0.17
Matches are distributed among these distances:
37 60 0.55
38 2 0.02
40 1 0.01
42 1 0.01
43 11 0.10
44 11 0.10
45 1 0.01
47 1 0.01
49 2 0.02
50 19 0.17
ACGTcount: A:0.20, C:0.19, G:0.14, T:0.48
Consensus pattern (37 bp):
TGATTCTGATTCTGTCACCTAATTCTGATACTGATTC
Found at i:66660076 original size:62 final size:61
Alignment explanation
Indices: 66659979--66660165 Score: 225
Period size: 62 Copynumber: 3.0 Consensus size: 61
66659969 ATTCACATTA
* * *
66659979 TGATTCTAATTCTATTACCTGATATTGATTCTGATTCTGTCACCTAATTCTGATACTGATTC
1 TGATTCTAATTCTA-TACCTGATTTTGATTCTGATTCTGTCACCTGATTCTGATTCTGATTC
* * * *
66660041 TGATTCTGATTCTATCACCTGATTTTGATTCTGATTCTGTTACCTGATACTGATTCTGATTT
1 TGATTCTAATTCTAT-ACCTGATTTTGATTCTGATTCTGTCACCTGATTCTGATTCTGATTC
* * *
66660103 TG-TCACCTAATTCTGATA-CTGATTTTGATTCTAATTCTGTCGCCTGATTCTGATTCTGATTC
1 TGAT--TCTAATTCT-ATACCTGATTTTGATTCTGATTCTGTCACCTGATTCTGATTCTGATTC
66660165 T
1 T
66660166 TATTTTGATT
Statistics
Matches: 107, Mismatches: 14, Indels: 8
0.83 0.11 0.06
Matches are distributed among these distances:
61 2 0.02
62 95 0.89
63 8 0.07
64 2 0.02
ACGTcount: A:0.21, C:0.19, G:0.13, T:0.47
Consensus pattern (61 bp):
TGATTCTAATTCTATACCTGATTTTGATTCTGATTCTGTCACCTGATTCTGATTCTGATTC
Found at i:66660119 original size:87 final size:87
Alignment explanation
Indices: 66659979--66660165 Score: 293
Period size: 87 Copynumber: 2.1 Consensus size: 87
66659969 ATTCACATTA
* *
66659979 TGATTCTAATTCTATTACCTGATATTGATTCTGATTCTGTCACCTAATTCTGATACTGATTCTGA
1 TGATTCTGATTCTATTACCTGATACTGATTCTGATTCTGTCACCTAATTCTGATACTGATTCTGA
* *
66660044 TTCTGATTCTATCACCTGATTT
66 TTCTAATTCTATCACCTGATTC
* * *
66660066 TGATTCTGATTCTGTTACCTGATACTGATTCTGATTTTGTCACCTAATTCTGATACTGATTTTGA
1 TGATTCTGATTCTATTACCTGATACTGATTCTGATTCTGTCACCTAATTCTGATACTGATTCTGA
* *
66660131 TTCTAATTCTGTCGCCTGATTC
66 TTCTAATTCTATCACCTGATTC
66660153 TGATTCTGATTCT
1 TGATTCTGATTCT
66660166 TATTTTGATT
Statistics
Matches: 91, Mismatches: 9, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
87 91 1.00
ACGTcount: A:0.21, C:0.19, G:0.13, T:0.47
Consensus pattern (87 bp):
TGATTCTGATTCTATTACCTGATACTGATTCTGATTCTGTCACCTAATTCTGATACTGATTCTGA
TTCTAATTCTATCACCTGATTC
Found at i:66660129 original size:25 final size:25
Alignment explanation
Indices: 66660034--66660126 Score: 123
Period size: 25 Copynumber: 3.7 Consensus size: 25
66660024 AATTCTGATA
*
66660034 CTGATTCTGATTCTGATTCTATCAC
1 CTGATTCTGATTCTGATTCTGTCAC
* *
66660059 CTGATTTTGATTCTGATTCTGTTAC
1 CTGATTCTGATTCTGATTCTGTCAC
* *
66660084 CTGATACTGATTCTGATTTTGTCAC
1 CTGATTCTGATTCTGATTCTGTCAC
* *
66660109 CTAATTCTGATACTGATT
1 CTGATTCTGATTCTGATT
66660127 TTGATTCTAA
Statistics
Matches: 58, Mismatches: 10, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
25 58 1.00
ACGTcount: A:0.20, C:0.19, G:0.14, T:0.46
Consensus pattern (25 bp):
CTGATTCTGATTCTGATTCTGTCAC
Found at i:66665729 original size:24 final size:24
Alignment explanation
Indices: 66665702--66665780 Score: 88
Period size: 24 Copynumber: 3.1 Consensus size: 24
66665692 CTGTTGAAAT
66665702 ATGAAAGTTTGATGATAGATTTTC
1 ATGAAAGTTTGATGATAGATTTTC
**
66665726 ATGAAAGTTTGATGATTA-ATGTTGAA
1 ATGAAAGTTTGATGA-TAGAT-TT-TC
66665752 ATAAGAAAGTTTGATGATAGATTTTC
1 AT--GAAAGTTTGATGATAGATTTTC
66665778 ATG
1 ATG
66665781 TTTTGTAAAG
Statistics
Matches: 45, Mismatches: 4, Indels: 12
0.74 0.07 0.20
Matches are distributed among these distances:
24 18 0.40
25 4 0.09
26 4 0.09
27 4 0.09
28 15 0.33
ACGTcount: A:0.37, C:0.03, G:0.22, T:0.39
Consensus pattern (24 bp):
ATGAAAGTTTGATGATAGATTTTC
Found at i:66665738 original size:52 final size:52
Alignment explanation
Indices: 66665681--66665780 Score: 173
Period size: 52 Copynumber: 1.9 Consensus size: 52
66665671 CTATGTGTTC
* * *
66665681 TTTGATGTTTACTGTTGAAATATGAAAGTTTGATGATAGATTTTCATGAAAG
1 TTTGATGATTAATGTTGAAATAAGAAAGTTTGATGATAGATTTTCATGAAAG
66665733 TTTGATGATTAATGTTGAAATAAGAAAGTTTGATGATAGATTTTCATG
1 TTTGATGATTAATGTTGAAATAAGAAAGTTTGATGATAGATTTTCATG
66665781 TTTTGTAAAG
Statistics
Matches: 45, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
52 45 1.00
ACGTcount: A:0.34, C:0.03, G:0.21, T:0.42
Consensus pattern (52 bp):
TTTGATGATTAATGTTGAAATAAGAAAGTTTGATGATAGATTTTCATGAAAG
Found at i:66665760 original size:28 final size:27
Alignment explanation
Indices: 66665681--66665769 Score: 87
Period size: 28 Copynumber: 3.3 Consensus size: 27
66665671 CTATGTGTTC
* *
66665681 TTTGATGTTTACTGTTGAAATATGAAAG
1 TTTGATGATTAATGTTGAAATA-GAAAG
**
66665709 TTTGATGA-TAGAT-TT-TCAT-GAAAG
1 TTTGATGATTA-ATGTTGAAATAGAAAG
66665733 TTTGATGATTAATGTTGAAATAAGAAAG
1 TTTGATGATTAATGTTGAAAT-AGAAAG
66665761 TTTGATGAT
1 TTTGATGAT
66665770 AGATTTTCAT
Statistics
Matches: 49, Mismatches: 6, Indels: 12
0.73 0.09 0.18
Matches are distributed among these distances:
24 15 0.31
25 4 0.08
26 4 0.08
27 4 0.08
28 22 0.45
ACGTcount: A:0.35, C:0.02, G:0.21, T:0.42
Consensus pattern (27 bp):
TTTGATGATTAATGTTGAAATAGAAAG
Found at i:66666242 original size:29 final size:31
Alignment explanation
Indices: 66666193--66666251 Score: 70
Period size: 29 Copynumber: 2.0 Consensus size: 31
66666183 AATGTGTATC
* *
66666193 TATTTATTTGATGGATGAAAT-T-GAGATAG
1 TATTTATTTAATAGATGAAATGTGGAGATAG
66666222 TATTTATTATAATAGAT-AAATGTGGAGATA
1 TATTTATT-TAATAGATGAAATGTGGAGATA
66666252 TTAAATTTAA
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
29 12 0.48
30 7 0.28
31 6 0.24
ACGTcount: A:0.39, C:0.00, G:0.20, T:0.41
Consensus pattern (31 bp):
TATTTATTTAATAGATGAAATGTGGAGATAG
Found at i:66668659 original size:2 final size:2
Alignment explanation
Indices: 66668652--66668696 Score: 74
Period size: 2 Copynumber: 23.0 Consensus size: 2
66668642 TATTTAACTA
*
66668652 AC AC AC AC AC AC AC AC AC AC -C AC AC AC AC AC AC AC AC AC GC
1 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC
66668693 AC AC
1 AC AC
66668697 TGTAATATCC
Statistics
Matches: 40, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
1 1 0.03
2 39 0.98
ACGTcount: A:0.47, C:0.51, G:0.02, T:0.00
Consensus pattern (2 bp):
AC
Found at i:66668677 original size:17 final size:17
Alignment explanation
Indices: 66668655--66668688 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
66668645 TTAACTAACA
66668655 CACACACACACACACAC
1 CACACACACACACACAC
66668672 CACACACACACACACAC
1 CACACACACACACACAC
66668689 ACGCACACTG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.47, C:0.53, G:0.00, T:0.00
Consensus pattern (17 bp):
CACACACACACACACAC
Found at i:66670141 original size:93 final size:93
Alignment explanation
Indices: 66669982--66670153 Score: 292
Period size: 93 Copynumber: 1.8 Consensus size: 93
66669972 GGGATATTTG
*
66669982 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATAGATGCGAGCGTCTGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATAGATGCGAACGTCTGAACTCGTTGAG
66670047 TTGAGTCCGAGTTCGTGAGATGTAACTA
66 TTGAGTCCGAGTTCGTGAGATGTAACTA
* * *
66670075 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG-CTCGAGCTTGTTGA
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATAGATGCGAACGTCT-GAACTCGTTGA
66670139 GTTGAGTCCGAGTTC
65 GTTGAGTCCGAGTTC
66670154 ACTTATGGGC
Statistics
Matches: 74, Mismatches: 4, Indels: 2
0.93 0.05 0.03
Matches are distributed among these distances:
92 2 0.03
93 72 0.97
ACGTcount: A:0.21, C:0.20, G:0.30, T:0.29
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATAGATGCGAACGTCTGAACTCGTTGAG
TTGAGTCCGAGTTCGTGAGATGTAACTA
Found at i:66670160 original size:46 final size:46
Alignment explanation
Indices: 66669988--66670161 Score: 196
Period size: 46 Copynumber: 3.8 Consensus size: 46
66669978 TTTGGGCATC
* *
66669988 CGAACTCGTTGAGTTGAGTCCGAGTTCACTTATAGATGCGAGCG-T
1 CGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCT
* * *
66670033 CTGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGGCAT
1 C-GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAC---GC-T
66670080 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCT
1 -CGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCT
* *
66670127 CGAGCTTGTTGAGTTGAGTCCGAGTTCACTTATGG
1 CGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
66670162 GCGGGTACAT
Statistics
Matches: 109, Mismatches: 9, Indels: 21
0.78 0.06 0.15
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
45 4 0.04
46 59 0.54
47 28 0.26
48 5 0.05
50 4 0.04
51 3 0.03
ACGTcount: A:0.21, C:0.20, G:0.29, T:0.30
Consensus pattern (46 bp):
CGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCT
Found at i:66673086 original size:15 final size:15
Alignment explanation
Indices: 66673066--66673134 Score: 84
Period size: 15 Copynumber: 4.6 Consensus size: 15
66673056 GTATCTTGGG
66673066 TTTCTTTATCCTGGA
1 TTTCTTTATCCTGGA
* *
66673081 TCTCTTTATTCTGGA
1 TTTCTTTATCCTGGA
* *
66673096 TTTCTTTATTCTGGG
1 TTTCTTTATCCTGGA
* *
66673111 TTTCTCTATCTTGGA
1 TTTCTTTATCCTGGA
66673126 TTTCTTTAT
1 TTTCTTTAT
66673135 TCGGTTTTCT
Statistics
Matches: 45, Mismatches: 9, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
15 45 1.00
ACGTcount: A:0.12, C:0.17, G:0.13, T:0.58
Consensus pattern (15 bp):
TTTCTTTATCCTGGA
Done.