Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr04 98600468
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: 98600468
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 273 characters in sequence are not A, C, G, or T
File 212 of 325
Found at i:65710484 original size:45 final size:45
Alignment explanation
Indices: 65710429--65710526 Score: 189
Period size: 45 Copynumber: 2.2 Consensus size: 45
65710419 TTGTTGAATG
65710429 AAAT-AGATATAAATAATAGTTTATTTCCTTTGATCATTGAATAT
1 AAATGAGATATAAATAATAGTTTATTTCCTTTGATCATTGAATAT
65710473 AAATGAGATATAAATAATAGTTTATTTCCTTTGATCATTGAATAT
1 AAATGAGATATAAATAATAGTTTATTTCCTTTGATCATTGAATAT
65710518 AAATGAGAT
1 AAATGAGAT
65710527 GTTAAGCATA
Statistics
Matches: 53, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
44 4 0.08
45 49 0.92
ACGTcount: A:0.42, C:0.06, G:0.11, T:0.41
Consensus pattern (45 bp):
AAATGAGATATAAATAATAGTTTATTTCCTTTGATCATTGAATAT
Found at i:65712357 original size:39 final size:39
Alignment explanation
Indices: 65712309--65712466 Score: 235
Period size: 39 Copynumber: 4.0 Consensus size: 39
65712299 TATGAATGTA
*
65712309 CGAATTGTGATATCCGGGCTAAGCCCGAAGGCAAATGTG
1 CGAATTGTGATATCCGGGCTAAGCCCGAAGGCAATTGTG
*
65712348 CCAATTGTGATATCCGGGCTAAGCCCGAAGGCAATTGTG
1 CGAATTGTGATATCCGGGCTAAGCCCGAAGGCAATTGTG
* *
65712387 CGAGTTATGATATCCGGGCTAAGCCCGAAGGCAATTGTG
1 CGAATTGTGATATCCGGGCTAAGCCCGAAGGCAATTGTG
* * * *
65712426 CGAGTTGTGATACCCGGGTTAAGTCCCGAAGGCATTTGTG
1 CGAATTGTGATATCCGGGCTAAG-CCCGAAGGCAATTGTG
65712466 C
1 C
65712467 TGGTTACCAC
Statistics
Matches: 109, Mismatches: 9, Indels: 1
0.92 0.08 0.01
Matches are distributed among these distances:
39 93 0.85
40 16 0.15
ACGTcount: A:0.25, C:0.22, G:0.30, T:0.23
Consensus pattern (39 bp):
CGAATTGTGATATCCGGGCTAAGCCCGAAGGCAATTGTG
Found at i:65719872 original size:39 final size:39
Alignment explanation
Indices: 65719818--65719974 Score: 233
Period size: 39 Copynumber: 4.0 Consensus size: 39
65719808 GATGTGTATG
65719818 AATGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCA
1 AATGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCA
*
65719857 AATGTGCGAATTGTGATATCCGGCCTAAGCCCGAAGGCA
1 AATGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCA
* * *
65719896 ATTGTGCGAGTTATGATATCCGGGCTAAGCCCGAAGGCA
1 AATGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCA
* * * *
65719935 ATTGTGCGAGTTGTGATACCCGGGTTAAGTCCCGAAGGCA
1 AATGTGCGAATTGTGATATCCGGGCTAAG-CCCGAAGGCA
65719975 TTTGTGTGGG
Statistics
Matches: 109, Mismatches: 8, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
39 99 0.91
40 10 0.09
ACGTcount: A:0.26, C:0.21, G:0.31, T:0.22
Consensus pattern (39 bp):
AATGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCA
Found at i:65721059 original size:26 final size:26
Alignment explanation
Indices: 65721030--65721170 Score: 129
Period size: 27 Copynumber: 5.3 Consensus size: 26
65721020 ATCCCTATTT
* *
65721030 AAAATACTTTGGTTTACAAAATTACC
1 AAAATACCTTGGTTTATAAAATTACC
* * * *
65721056 AAAATACCCTGCTTTGTAAAATTACT
1 AAAATACCTTGGTTTATAAAATTACC
*
65721082 AAAATACCCTTAGTTTATAAAATTACC
1 AAAATA-CCTTGGTTTATAAAATTACC
* * * *
65721109 AAAATACCCCTAGTTTGTAAAATTATC
1 AAAATA-CCTTGGTTTATAAAATTACC
* * *
65721136 AAAATACCCCTAGTTTGTAAAATTACC
1 AAAATA-CCTTGGTTTATAAAATTACC
65721163 AAAATACC
1 AAAATACC
65721171 CCTAATTTGT
Statistics
Matches: 99, Mismatches: 15, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
26 28 0.28
27 71 0.72
ACGTcount: A:0.43, C:0.19, G:0.06, T:0.32
Consensus pattern (26 bp):
AAAATACCTTGGTTTATAAAATTACC
Found at i:65721112 original size:27 final size:27
Alignment explanation
Indices: 65721047--65721198 Score: 209
Period size: 27 Copynumber: 5.7 Consensus size: 27
65721037 TTTGGTTTAC
65721047 AAAATTACCAAAATA-CCCT-GCTTTGT
1 AAAATTACCAAAATACCCCTAG-TTTGT
* * *
65721073 AAAATTACTAAAATACCCTTAGTTTAT
1 AAAATTACCAAAATACCCCTAGTTTGT
65721100 AAAATTACCAAAATACCCCTAGTTTGT
1 AAAATTACCAAAATACCCCTAGTTTGT
*
65721127 AAAATTATCAAAATACCCCTAGTTTGT
1 AAAATTACCAAAATACCCCTAGTTTGT
*
65721154 AAAATTACCAAAATACCCCTAATTTGT
1 AAAATTACCAAAATACCCCTAGTTTGT
* **
65721181 GAAATTACTGAAATACCC
1 AAAATTACCAAAATACCC
65721199 TCGACCTGTA
Statistics
Matches: 112, Mismatches: 12, Indels: 3
0.88 0.09 0.02
Matches are distributed among these distances:
26 14 0.12
27 97 0.87
28 1 0.01
ACGTcount: A:0.42, C:0.20, G:0.07, T:0.31
Consensus pattern (27 bp):
AAAATTACCAAAATACCCCTAGTTTGT
Found at i:65721167 original size:81 final size:79
Alignment explanation
Indices: 65721047--65721270 Score: 218
Period size: 81 Copynumber: 2.8 Consensus size: 79
65721037 TTTGGTTTAC
* * *
65721047 AAAATTACCAAAATACCCTGCTTTGTAAAATTACTAAAATACCCTTAGTTTATAAAATTACCAAA
1 AAAATTATCAAAATACCCTGATTTGTAAAATTACCAAAATACCC-TAGTTTATAAAATTACCAAA
**
65721112 ATACCCCTAG-TTTGT
65 ATA-CCCTAGACCTGT
* * * **
65721127 AAAATTATCAAAATACCCCT-AGTTTGTAAAATTACCAAAATACCCCTAATTTGTGAAATTACTG
1 AAAATTATCAAAATA-CCCTGA-TTTGTAAAATTACCAAAATA-CCCTAGTTTATAAAATTACCA
*
65721191 AAATACCCTCGACCTGT
63 AAATACCCTAGACCTGT
** * * * *
65721208 AAAATTATTGAAATACCCTCGACTTGTAAAATTACCAAAGTACCCTCGATTTATAGAATTACC
1 AAAATTATCAAAATACCCT-GATTTGTAAAATTACCAAAATACCCTAG-TTTATAAAATTACC
65721271 GTTTTACCCT
Statistics
Matches: 116, Mismatches: 21, Indels: 13
0.77 0.14 0.09
Matches are distributed among these distances:
80 27 0.23
81 85 0.73
82 4 0.03
ACGTcount: A:0.40, C:0.21, G:0.08, T:0.31
Consensus pattern (79 bp):
AAAATTATCAAAATACCCTGATTTGTAAAATTACCAAAATACCCTAGTTTATAAAATTACCAAAA
TACCCTAGACCTGT
Found at i:65721212 original size:27 final size:27
Alignment explanation
Indices: 65721182--65721256 Score: 107
Period size: 27 Copynumber: 2.8 Consensus size: 27
65721172 CTAATTTGTG
65721182 AAATTACTGAAATACCCTCGACCTGTA
1 AAATTACTGAAATACCCTCGACCTGTA
* *
65721209 AAATTATTGAAATACCCTCGACTTGTA
1 AAATTACTGAAATACCCTCGACCTGTA
*
65721236 AAATTAC-CAAAGTACCCTCGA
1 AAATTACTGAAA-TACCCTCGA
65721257 TTTATAGAAT
Statistics
Matches: 43, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
26 3 0.07
27 40 0.93
ACGTcount: A:0.39, C:0.24, G:0.11, T:0.27
Consensus pattern (27 bp):
AAATTACTGAAATACCCTCGACCTGTA
Found at i:65721646 original size:27 final size:27
Alignment explanation
Indices: 65721248--65721645 Score: 507
Period size: 27 Copynumber: 14.8 Consensus size: 27
65721238 ATTACCAAAG
*
65721248 TACCCTCGATTTATAGAATTACCGTTT
1 TACCCTCGATTTACAGAATTACCGTTT
** * *
65721275 TACCCTCGATTTGTAAAATTACTGTTT
1 TACCCTCGATTTACAGAATTACCGTTT
*
65721302 TACCCTCAATTTACAGAATTACCGTTT
1 TACCCTCGATTTACAGAATTACCGTTT
* **
65721329 TACCCT-TAGTTTACAGAATTACTATTT
1 TACCCTCGA-TTTACAGAATTACCGTTT
*
65721356 TACCCTCGATTTATAGAATTACCGTTT
1 TACCCTCGATTTACAGAATTACCGTTT
* *
65721383 TACCC-CTAATTTACATAATTACCGTTT
1 TACCCTC-GATTTACAGAATTACCGTTT
* *
65721410 TACCC-CGATTTACATAATTATCGTTT
1 TACCCTCGATTTACAGAATTACCGTTT
65721436 TACCCT-GATTTACAGAATTACCGTTT
1 TACCCTCGATTTACAGAATTACCGTTT
* *
65721462 CACCCTCGATTTACAGAATTACCATTT
1 TACCCTCGATTTACAGAATTACCGTTT
* * *
65721489 TACCCCCGATTTACATAATTATCGTTT
1 TACCCTCGATTTACAGAATTACCGTTT
65721516 TACCCTCGATTTACAGAATTACCGTTT
1 TACCCTCGATTTACAGAATTACCGTTT
* *
65721543 CACCCTCGATTTACAGAATTACCATTT
1 TACCCTCGATTTACAGAATTACCGTTT
* *
65721570 TACCCTCGATTTATAGAATTACTGTTT
1 TACCCTCGATTTACAGAATTACCGTTT
* * *
65721597 TACCCTTGATTTACAAAATTACTGTTT
1 TACCCTCGATTTACAGAATTACCGTTT
*
65721624 TACCCTCGATTTACAAAATTAC
1 TACCCTCGATTTACAGAATTAC
65721646 TAAAATACCC
Statistics
Matches: 324, Mismatches: 42, Indels: 10
0.86 0.11 0.03
Matches are distributed among these distances:
26 48 0.15
27 275 0.85
28 1 0.00
ACGTcount: A:0.28, C:0.24, G:0.09, T:0.40
Consensus pattern (27 bp):
TACCCTCGATTTACAGAATTACCGTTT
Found at i:65721682 original size:81 final size:81
Alignment explanation
Indices: 65721235--65721689 Score: 263
Period size: 81 Copynumber: 5.6 Consensus size: 81
65721225 CTCGACTTGT
* *** ** *
65721235 AAAATTACCAAAGTACCCTCGATTTATAGAATTACCGTTTTACCCTCGATTTGTAAAATTACTGT
1 AAAATTACCAAAATACCCTCGATTTATAGAATTACCGCAATACCCTCGATTTACAAAATTACCGT
* *
65721300 TTTACCCTCAATTTAC
66 TTCACCCTCGATTTAC
* **** * * ***** * *
65721316 AGAATTACCGTTTTACCCT-TAGTTTACAGAATTACTATTTTACCCTCGATTTATAGAATTACCG
1 AAAATTACCAAAATACCCTCGA-TTTATAGAATTACCGCAATACCCTCGATTTACAAAATTACCG
* *
65721380 TTTTACCC-CTAATTTAC
65 TTTCACCCTC-GATTTAC
* **** * * * *** *
65721397 ATAATTACCGTTTTACCC-CGATTTACATAATTATCGTTTTACCCT-GATTTACAGAATTACCGT
1 AAAATTACCAAAATACCCTCGATTTATAGAATTACCGCAATACCCTCGATTTACAAAATTACCGT
65721460 TTCACCCTCGATTTAC
66 TTCACCCTCGATTTAC
* *** * * * * *** *
65721476 AGAATTACCATTTTACCCCCGATTTACATAATTATCGTTTTACCCTCGATTTACAGAATTACCGT
1 AAAATTACCAAAATACCCTCGATTTATAGAATTACCGCAATACCCTCGATTTACAAAATTACCGT
65721541 TTCACCCTCGATTTAC
66 TTCACCCTCGATTTAC
* *** * *** * *
65721557 AGAATTACCATTTTACCCTCGATTTATAGAATTACTGTTTTACCCTTGATTTACAAAATTACTGT
1 AAAATTACCAAAATACCCTCGATTTATAGAATTACCGCAATACCCTCGATTTACAAAATTACCGT
*
65721622 TTTACCCTCGATTTAC
66 TTCACCCTCGATTTAC
* * * * *
65721638 AAAATTACTAAAATACCCTTGGTTTGT-GAAATTACCGCAATACCCTCAATTT
1 AAAATTACCAAAATACCCTCGATTTATAG-AATTACCGCAATACCCTCGATTT
65721690 GTAAAACTAC
Statistics
Matches: 321, Mismatches: 46, Indels: 14
0.84 0.12 0.04
Matches are distributed among these distances:
79 45 0.14
80 51 0.16
81 225 0.70
ACGTcount: A:0.29, C:0.23, G:0.09, T:0.38
Consensus pattern (81 bp):
AAAATTACCAAAATACCCTCGATTTATAGAATTACCGCAATACCCTCGATTTACAAAATTACCGT
TTCACCCTCGATTTAC
Found at i:65723072 original size:31 final size:31
Alignment explanation
Indices: 65723037--65723100 Score: 101
Period size: 31 Copynumber: 2.1 Consensus size: 31
65723027 CGTTTACAGT
65723037 AAAGGCTTCGGCCCAGTAATATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
** *
65723068 AAAGGCTTCGGCCCAGTGTTATGGAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
65723099 AA
1 AA
65723101 CATGAAAAGG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.36, C:0.16, G:0.25, T:0.23
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTAATATGAAATATGA
Found at i:65729340 original size:25 final size:24
Alignment explanation
Indices: 65729312--65729395 Score: 71
Period size: 25 Copynumber: 3.4 Consensus size: 24
65729302 CTGGAGGCCT
*
65729312 AGCCTCTTTTAAT-AACTGGGGCAAA
1 AGCC-CTTTTAATAAACTGAGGC-AA
*
65729337 AGCCCTTTTTGATAAACTGAGGCAA
1 AGCCC-TTTTAATAAACTGAGGCAA
** * *
65729362 AGCCCTTTTCGGTAAACTGGGGCAT
1 AGCCCTTTT-AATAAACTGAGGCAA
65729387 AGCCCTTTT
1 AGCCCTTTT
65729396 TGCACTTCCT
Statistics
Matches: 51, Mismatches: 5, Indels: 6
0.82 0.08 0.10
Matches are distributed among these distances:
24 5 0.10
25 38 0.75
26 8 0.16
ACGTcount: A:0.26, C:0.23, G:0.21, T:0.30
Consensus pattern (24 bp):
AGCCCTTTTAATAAACTGAGGCAA
Found at i:65729361 original size:26 final size:25
Alignment explanation
Indices: 65729325--65729397 Score: 101
Period size: 25 Copynumber: 2.9 Consensus size: 25
65729315 CTCTTTTAAT
65729325 AACTGGGGCAAAAGCCCTTTTTGATA
1 AACTGGGGC-AAAGCCCTTTTTGATA
* * *
65729351 AACTGAGGCAAAGCCCTTTTCGGTA
1 AACTGGGGCAAAGCCCTTTTTGATA
*
65729376 AACTGGGGCATAGCCCTTTTTG
1 AACTGGGGCAAAGCCCTTTTTG
65729398 CACTTCCTCC
Statistics
Matches: 41, Mismatches: 6, Indels: 1
0.85 0.12 0.02
Matches are distributed among these distances:
25 33 0.80
26 8 0.20
ACGTcount: A:0.26, C:0.22, G:0.25, T:0.27
Consensus pattern (25 bp):
AACTGGGGCAAAGCCCTTTTTGATA
Found at i:65729465 original size:9 final size:9
Alignment explanation
Indices: 65729451--65729507 Score: 69
Period size: 9 Copynumber: 5.9 Consensus size: 9
65729441 ACATCATGTG
65729451 CATATCATA
1 CATATCATA
*
65729460 CATATCATGTG
1 CATATCA--TA
65729471 CATATCATA
1 CATATCATA
65729480 CATATCATGA
1 CATATCAT-A
65729490 GCATATCATA
1 -CATATCATA
65729500 CATATCAT
1 CATATCAT
65729508 GTGCATATCA
Statistics
Matches: 42, Mismatches: 2, Indels: 8
0.81 0.04 0.15
Matches are distributed among these distances:
9 24 0.57
10 2 0.05
11 16 0.38
ACGTcount: A:0.39, C:0.21, G:0.07, T:0.33
Consensus pattern (9 bp):
CATATCATA
Found at i:65729466 original size:20 final size:20
Alignment explanation
Indices: 65729443--65729529 Score: 149
Period size: 20 Copynumber: 4.3 Consensus size: 20
65729433 TTATGAATAC
65729443 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
65729463 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
*
65729483 ATCATGAGCATATCATACAT
1 ATCATGTGCATATCATACAT
65729503 ATCATGTGCATATCATATCA-
1 ATCATGTGCATATCATA-CAT
65729523 ATCATGT
1 ATCATGT
65729530 ATACCAAAAC
Statistics
Matches: 64, Mismatches: 2, Indels: 2
0.94 0.03 0.03
Matches are distributed among these distances:
20 62 0.97
21 2 0.03
ACGTcount: A:0.36, C:0.20, G:0.10, T:0.34
Consensus pattern (20 bp):
ATCATGTGCATATCATACAT
Found at i:65729473 original size:40 final size:40
Alignment explanation
Indices: 65729429--65729528 Score: 125
Period size: 40 Copynumber: 2.5 Consensus size: 40
65729419 CCCAACCCAA
*
65729429 TGCATTATGAATAC-ATCATGTGCATATCATACATATCATG
1 TGCATTAT-AATACAATCATGAGCATATCATACATATCATG
*
65729469 TGCA-TATCATACATATCATGAGCATATCATACATATCATG
1 TGCATTATAATACA-ATCATGAGCATATCATACATATCATG
*
65729509 TGCA-TATCATATCAATCATG
1 TGCATTATAATA-CAATCATG
65729529 TATACCAAAA
Statistics
Matches: 55, Mismatches: 2, Indels: 6
0.87 0.03 0.10
Matches are distributed among these distances:
38 4 0.07
39 3 0.05
40 46 0.84
41 2 0.04
ACGTcount: A:0.36, C:0.19, G:0.11, T:0.34
Consensus pattern (40 bp):
TGCATTATAATACAATCATGAGCATATCATACATATCATG
Found at i:65729474 original size:11 final size:11
Alignment explanation
Indices: 65729443--65729518 Score: 74
Period size: 11 Copynumber: 7.5 Consensus size: 11
65729433 TTATGAATAC
65729443 ATCATGTGCAT
1 ATCATGTGCAT
*
65729454 ATCA--TACAT
1 ATCATGTGCAT
65729463 ATCATGTGCAT
1 ATCATGTGCAT
*
65729474 ATCA--TACAT
1 ATCATGTGCAT
*
65729483 ATCATGAGCAT
1 ATCATGTGCAT
*
65729494 ATCA--TACAT
1 ATCATGTGCAT
65729503 ATCATGTGCAT
1 ATCATGTGCAT
65729514 ATCAT
1 ATCAT
65729519 ATCAATCATG
Statistics
Matches: 51, Mismatches: 8, Indels: 12
0.72 0.11 0.17
Matches are distributed among these distances:
9 23 0.45
11 28 0.55
ACGTcount: A:0.36, C:0.20, G:0.11, T:0.34
Consensus pattern (11 bp):
ATCATGTGCAT
Found at i:65731938 original size:27 final size:27
Alignment explanation
Indices: 65731862--65731951 Score: 119
Period size: 27 Copynumber: 3.3 Consensus size: 27
65731852 TTTAGTTTAC
* *
65731862 TAAAATTACCGAAATACCCTTAG-TTTG
1 TAAAATTACTGAAATA-CCTTCGATTTG
* *
65731889 TAAAAATACTGAAATACCCTCGATTTG
1 TAAAATTACTGAAATACCTTCGATTTG
*
65731916 TAAAATTACTGAAATACCTTCGACTTG
1 TAAAATTACTGAAATACCTTCGATTTG
65731943 TAAAATTAC
1 TAAAATTAC
65731952 CAAAGTACCC
Statistics
Matches: 55, Mismatches: 7, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
26 4 0.07
27 51 0.93
ACGTcount: A:0.40, C:0.18, G:0.10, T:0.32
Consensus pattern (27 bp):
TAAAATTACTGAAATACCTTCGATTTG
Found at i:65731961 original size:54 final size:53
Alignment explanation
Indices: 65731862--65731967 Score: 126
Period size: 54 Copynumber: 2.0 Consensus size: 53
65731852 TTTAGTTTAC
* *
65731862 TAAAATTACCGAAATACCCTTAGTTTGTAAAAATACTGAAATACCCTCGATTTG
1 TAAAATTACCGAAATACCCTTAGCTTGTAAAAATACTCAAATACCC-CGATTTG
* * *
65731916 TAAAATTACTGAAATA-CCTTCGACTTGTAAAATTAC-CAAAGTACCCCGATTT
1 TAAAATTACCGAAATACCCTTAG-CTTGTAAAAATACTCAAA-TACCCCGATTT
65731968 ACAGAATTAT
Statistics
Matches: 45, Mismatches: 5, Indels: 5
0.82 0.09 0.09
Matches are distributed among these distances:
53 14 0.31
54 31 0.69
ACGTcount: A:0.39, C:0.20, G:0.10, T:0.31
Consensus pattern (53 bp):
TAAAATTACCGAAATACCCTTAGCTTGTAAAAATACTCAAATACCCCGATTTG
Found at i:65732027 original size:27 final size:27
Alignment explanation
Indices: 65731957--65732165 Score: 262
Period size: 27 Copynumber: 7.8 Consensus size: 27
65731947 ATTACCAAAG
*
65731957 TACCC-CGATTTACAGAATTATCGTTT
1 TACCCTCGATTTACAGAATTACCGTTT
*
65731983 TACCC-CGATTTACATAATTACCGTTT
1 TACCCTCGATTTACAGAATTACCGTTT
* * *
65732009 TACCC-CTGATTTACATAATTATCATTT
1 TACCCTC-GATTTACAGAATTACCGTTT
* *
65732036 TACCCTCAACTTACAGAATTACCGTTT
1 TACCCTCGATTTACAGAATTACCGTTT
*
65732063 TACCCTCGATTTACAGAATTACAGTTT
1 TACCCTCGATTTACAGAATTACCGTTT
* **
65732090 TACCCTCGATTTATAGAATTACTATTT
1 TACCCTCGATTTACAGAATTACCGTTT
* *
65732117 TACCCTTGATTTACAGAATTACTGTTT
1 TACCCTCGATTTACAGAATTACCGTTT
*
65732144 TACCCTCGATTTACAAAATTAC
1 TACCCTCGATTTACAGAATTAC
65732166 TAAAATACCC
Statistics
Matches: 161, Mismatches: 20, Indels: 3
0.88 0.11 0.02
Matches are distributed among these distances:
26 30 0.19
27 130 0.81
28 1 0.01
ACGTcount: A:0.29, C:0.23, G:0.08, T:0.39
Consensus pattern (27 bp):
TACCCTCGATTTACAGAATTACCGTTT
Found at i:65732174 original size:27 final size:27
Alignment explanation
Indices: 65732063--65732367 Score: 115
Period size: 27 Copynumber: 11.2 Consensus size: 27
65732053 ATTACCGTTT
* ***
65732063 TACCCTCGATTTACAGAATTAC-AGTTT
1 TACCCTCGATTTACAAAATTACTA-AAA
* * ***
65732090 TACCCTCGATTTATAGAATTACTATTT
1 TACCCTCGATTTACAAAATTACTAAAA
* * ****
65732117 TACCCTTGATTTACAGAATTACTGTTT
1 TACCCTCGATTTACAAAATTACTAAAA
65732144 TACCCTCGATTTACAAAATTACTAAAA
1 TACCCTCGATTTACAAAATTACTAAAA
* ** *
65732171 TACCCT-TAGTTTGTAAAATTACCAAAA
1 TACCCTCGA-TTTACAAAATTACTAAAA
* **
65732198 TACCC-CTAGTTTGTAAAATTA-TCAAAA
1 TACCCTCGA-TTTACAAAATTACT-AAAA
* *** **
65732225 TACCCT-TAGTTTGTGAAATTACCGAAA
1 TACCCTCGA-TTTACAAAATTACTAAAA
* * *
65732252 TACCCTCAATTTGCAAAATTACCAAAA
1 TACCCTCGATTTACAAAATTACTAAAA
*
65732279 TACCC-CTGATTTACAAAGTTAC-AGAAA
1 TACCCTC-GATTTACAAAATTACTA-AAA
*
65732306 TACCCTTGACTTT-CTAAAAATTA-TAGAAA
1 TACCCTCGA-TTTAC--AAAATTACTA-AAA
* * * *
65732335 TACCATTGGTTTACAAAATTACTGAAA
1 TACCCTCGATTTACAAAATTACTAAAA
65732362 TACCCT
1 TACCCT
65732368 TGGTTTGTAG
Statistics
Matches: 231, Mismatches: 31, Indels: 32
0.79 0.11 0.11
Matches are distributed among these distances:
26 3 0.01
27 200 0.87
28 9 0.04
29 19 0.08
ACGTcount: A:0.37, C:0.20, G:0.09, T:0.34
Consensus pattern (27 bp):
TACCCTCGATTTACAAAATTACTAAAA
Found at i:65732191 original size:54 final size:54
Alignment explanation
Indices: 65732144--65732367 Score: 181
Period size: 54 Copynumber: 4.1 Consensus size: 54
65732134 ATTACTGTTT
*
65732144 TACCCTCGATTTACAAAATTACTAAAATACCCTTAGTTTGTAAAATTACCAAAA
1 TACCCTCGATTTACAAAATTACTAAAATACCCTTAGTTTGTAAAATTACCGAAA
* ** *
65732198 TACCC-CTAGTTTGTAAAATTA-TCAAAATACCCTTAGTTTGTGAAATTACCGAAA
1 TACCCTCGA-TTTACAAAATTACT-AAAATACCCTTAGTTTGTAAAATTACCGAAA
* * * * * *
65732252 TACCCTCAATTTGCAAAATTACCAAAATACCCCT-GATT-TACAAAGTTACAGAAA
1 TACCCTCGATTTACAAAATTACTAAAATACCCTTAGTTTGTA-AAA-TTACCGAAA
* * * ** *
65732306 TACCCTTGACTTT-CTAAAAATTA-TAGAAATACCATTGGTTTACAAAATTACTGAAA
1 TACCCTCGA-TTTAC--AAAATTACTA-AAATACCCTTAGTTTGTAAAATTACCGAAA
65732362 TACCCT
1 TACCCT
65732368 TGGTTTGTAG
Statistics
Matches: 138, Mismatches: 20, Indels: 22
0.77 0.11 0.12
Matches are distributed among these distances:
52 1 0.01
53 9 0.07
54 86 0.62
55 6 0.04
56 29 0.21
57 6 0.04
58 1 0.01
ACGTcount: A:0.40, C:0.21, G:0.08, T:0.31
Consensus pattern (54 bp):
TACCCTCGATTTACAAAATTACTAAAATACCCTTAGTTTGTAAAATTACCGAAA
Found at i:65732202 original size:81 final size:82
Alignment explanation
Indices: 65731903--65732202 Score: 229
Period size: 81 Copynumber: 3.7 Consensus size: 82
65731893 AATACTGAAA
** * * *
65731903 TACCCTCGATTTGTAAAATTACTGAAATA-CCTTCGACTTGTAAAATTACCAAAGTACCC-CGAT
1 TACCCTCGATTTACAAAATTACTAAAATACCCTTCGATTTGTAAAATTACCAAATTACCCTCGAT
65731966 TTACAGAATTA-TCGTTT
66 TTACAGAATTACT-GTTT
* ***** * ** * * ** * *
65731983 TACCC-CGATTTACATAATTACCGTTTTACCCCT-GATTTACATAATTATCATTTTACCCTCAAC
1 TACCCTCGATTTACAAAATTACTAAAATACCCTTCGATTTGTAAAATTACCAAATTACCCTCGAT
*
65732046 TTACAGAATTACCGTTT
66 TTACAGAATTACTGTTT
* *** * * * ** *
65732063 TACCCTCGATTTACAGAATTAC-AGTTTTACCC-TCGATTTATAGAATTACTATTTTACCCTTGA
1 TACCCTCGATTTACAAAATTACTA-AAATACCCTTCGATTTGTAAAATTACCAAATTACCCTCGA
65732126 TTTACAGAATTACTGTTT
65 TTTACAGAATTACTGTTT
* *
65732144 TACCCTCGATTTACAAAATTACTAAAATACCCTTAG-TTTGTAAAATTACCAAAATACCC
1 TACCCTCGATTTACAAAATTACTAAAATACCCTTCGATTTGTAAAATTACCAAATTACCC
65732203 CTAGTTTGTA
Statistics
Matches: 172, Mismatches: 40, Indels: 15
0.76 0.18 0.07
Matches are distributed among these distances:
79 33 0.19
80 31 0.18
81 105 0.61
82 3 0.02
ACGTcount: A:0.32, C:0.23, G:0.08, T:0.37
Consensus pattern (82 bp):
TACCCTCGATTTACAAAATTACTAAAATACCCTTCGATTTGTAAAATTACCAAATTACCCTCGAT
TTACAGAATTACTGTTT
Found at i:65732307 original size:81 final size:81
Alignment explanation
Indices: 65732159--65732312 Score: 206
Period size: 81 Copynumber: 1.9 Consensus size: 81
65732149 TCGATTTACA
* * * * *
65732159 AAATTACTAAAATACCCTTAGTTTGTAAAATTACCAAAATACCCCTAGTTTGTAAAATTATCAAA
1 AAATTACCAAAATACCCTCAATTTGCAAAATTACCAAAATACCCCTAGATTGTAAAATTATCAAA
65732224 ATACCCTTAGTTTGTG
66 ATACCCTTAGTTTGTG
*
65732240 AAATTACCGAAATACCCTCAATTTGCAAAATTACCAAAATACCCCT-GATT-TACAAAGTTA-CA
1 AAATTACCAAAATACCCTCAATTTGCAAAATTACCAAAATACCCCTAGATTGTA-AAA-TTATCA
65732302 GAAATACCCTT
64 -AAATACCCTT
65732313 GACTTTCTAA
Statistics
Matches: 64, Mismatches: 6, Indels: 6
0.84 0.08 0.08
Matches are distributed among these distances:
79 2 0.03
80 8 0.12
81 54 0.84
ACGTcount: A:0.41, C:0.21, G:0.08, T:0.31
Consensus pattern (81 bp):
AAATTACCAAAATACCCTCAATTTGCAAAATTACCAAAATACCCCTAGATTGTAAAATTATCAAA
ATACCCTTAGTTTGTG
Found at i:65732370 original size:27 final size:27
Alignment explanation
Indices: 65732117--65732373 Score: 133
Period size: 27 Copynumber: 9.4 Consensus size: 27
65732107 ATTACTATTT
* * ***
65732117 TACCCTTGATTTACAGAATTACTGTTT
1 TACCCTTGGTTTACAAAATTACTGAAA
* * *
65732144 TACCCTCGATTTACAAAATTACTAAAA
1 TACCCTTGGTTTACAAAATTACTGAAA
* ** **
65732171 TACCCTTAGTTTGTAAAATTACCAAAA
1 TACCCTTGGTTTACAAAATTACTGAAA
* * ** *
65732198 TACCCCTAGTTTGTAAAATTA-TCAAAA
1 TACCCTTGGTTTACAAAATTACT-GAAA
* *** *
65732225 TACCCTTAGTTTGTGAAATTACCGAAA
1 TACCCTTGGTTTACAAAATTACTGAAA
*** * **
65732252 TACCCTCAATTTGCAAAATTACCAAAA
1 TACCCTTGGTTTACAAAATTACTGAAA
* * * *
65732279 TACCCCTGATTTACAAAGTTACAGAAA
1 TACCCTTGGTTTACAAAATTACTGAAA
*
65732306 TACCCTTGACTTT-CTAAAAATTA-TAGAAA
1 TACCCTTG-GTTTAC--AAAATTACT-GAAA
*
65732335 TACCATTGGTTTACAAAATTACTGAAA
1 TACCCTTGGTTTACAAAATTACTGAAA
65732362 TACCCTTGGTTT
1 TACCCTTGGTTT
65732374 GTAGATTTAC
Statistics
Matches: 185, Mismatches: 37, Indels: 16
0.78 0.16 0.07
Matches are distributed among these distances:
27 160 0.86
28 7 0.04
29 18 0.10
ACGTcount: A:0.38, C:0.20, G:0.09, T:0.33
Consensus pattern (27 bp):
TACCCTTGGTTTACAAAATTACTGAAA
Found at i:65732457 original size:27 final size:27
Alignment explanation
Indices: 65732414--65732487 Score: 80
Period size: 27 Copynumber: 2.7 Consensus size: 27
65732404 AAATGATTAA
*
65732414 AATACCCCTATTA-GGTAAAAAGACCGT
1 AATACCCCT-GTAGGGTAAAAAGACCGT
**
65732441 AA-AGCCCCTGTAGGGTAAAGTGACCGT
1 AATA-CCCCTGTAGGGTAAAAAGACCGT
*
65732468 AATACCCCTGTATGGTAAAA
1 AATACCCCTGTAGGGTAAAA
65732488 TGATGAATAT
Statistics
Matches: 39, Mismatches: 5, Indels: 6
0.78 0.10 0.12
Matches are distributed among these distances:
26 3 0.08
27 35 0.90
28 1 0.03
ACGTcount: A:0.36, C:0.22, G:0.20, T:0.22
Consensus pattern (27 bp):
AATACCCCTGTAGGGTAAAAAGACCGT
Found at i:65733680 original size:25 final size:25
Alignment explanation
Indices: 65733651--65733698 Score: 78
Period size: 25 Copynumber: 1.9 Consensus size: 25
65733641 TTATAATATG
* *
65733651 AAAATGACCATTTTGCCCCTAGGTA
1 AAAATGACCATTATACCCCTAGGTA
65733676 AAAATGACCATTATACCCCTAGG
1 AAAATGACCATTATACCCCTAGG
65733699 GTTTATACAT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.35, C:0.25, G:0.15, T:0.25
Consensus pattern (25 bp):
AAAATGACCATTATACCCCTAGGTA
Found at i:65733767 original size:20 final size:20
Alignment explanation
Indices: 65733742--65733825 Score: 141
Period size: 20 Copynumber: 4.2 Consensus size: 20
65733732 TAAACATGGT
*
65733742 ATGTATGATATGCACACGAC
1 ATGTATGATATGCACATGAC
*
65733762 ATGTATGATATGCACATGAT
1 ATGTATGATATGCACATGAC
65733782 ATGTATGATATGCACATGAC
1 ATGTATGATATGCACATGAC
*
65733802 ATGTATGATATGCACATGAG
1 ATGTATGATATGCACATGAC
65733822 ATGT
1 ATGT
65733826 TCATAAATGC
Statistics
Matches: 60, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 60 1.00
ACGTcount: A:0.35, C:0.13, G:0.21, T:0.31
Consensus pattern (20 bp):
ATGTATGATATGCACATGAC
Found at i:65733782 original size:11 final size:11
Alignment explanation
Indices: 65733766--65733820 Score: 55
Period size: 11 Copynumber: 5.4 Consensus size: 11
65733756 CACGACATGT
65733766 ATGATATGCAC
1 ATGATATGCAC
*
65733777 ATGATATG--T
1 ATGATATGCAC
65733786 ATGATATGCAC
1 ATGATATGCAC
* *
65733797 ATGACATG--T
1 ATGATATGCAC
65733806 ATGATATGCAC
1 ATGATATGCAC
65733817 ATGA
1 ATGA
65733821 GATGTTCATA
Statistics
Matches: 34, Mismatches: 6, Indels: 8
0.71 0.12 0.17
Matches are distributed among these distances:
9 15 0.44
11 19 0.56
ACGTcount: A:0.36, C:0.13, G:0.20, T:0.31
Consensus pattern (11 bp):
ATGATATGCAC
Found at i:65733951 original size:25 final size:24
Alignment explanation
Indices: 65733872--65734065 Score: 261
Period size: 25 Copynumber: 8.0 Consensus size: 24
65733862 AGGAAGTGCA
65733872 AAAGGGCTTATGCCCCAGTTAT-T
1 AAAGGGCTTATGCCCCAGTTATAT
65733895 AAAGGGCTTATGCCCCAGTTAT-T
1 AAAGGGCTTATGCCCCAGTTATAT
65733918 AAAGGGCTTATGCCCCAGTTATGAT
1 AAAGGGCTTATGCCCCAGTTAT-AT
65733943 AAAGGGCTTATGCCCCAGTTATGAT
1 AAAGGGCTTATGCCCCAGTTAT-AT
* *
65733968 GAAGGGCTTATGCCCCAGTTGTGAT
1 AAAGGGCTTATGCCCCAGTTAT-AT
*
65733993 AAAGGGCTTATGCCCCAGTTATAA
1 AAAGGGCTTATGCCCCAGTTATAT
*
65734017 AAAGGGCTTTTGCCCCAGTTACTA-
1 AAAGGGCTTATGCCCCAGTTA-TAT
*
65734041 AAAGAGGC-TAGGCCTCCAGTTATAT
1 AAAG-GGCTTATGCC-CCAGTTATAT
65734066 GATAAAGTAG
Statistics
Matches: 157, Mismatches: 8, Indels: 10
0.90 0.05 0.06
Matches are distributed among these distances:
23 45 0.29
24 31 0.20
25 81 0.52
ACGTcount: A:0.27, C:0.21, G:0.24, T:0.28
Consensus pattern (24 bp):
AAAGGGCTTATGCCCCAGTTATAT
Found at i:65734293 original size:31 final size:31
Alignment explanation
Indices: 65734257--65734320 Score: 83
Period size: 31 Copynumber: 2.1 Consensus size: 31
65734247 CGTTTATAGT
** *
65734257 AAAGGCTTTGGCCCAGTAATATGAAATTTGA
1 AAAGGCTTCAGCCCAGTAATATGAAATATGA
**
65734288 AAAGGCTTCAGCCCAGTGTTATGAAATATGA
1 AAAGGCTTCAGCCCAGTAATATGAAATATGA
65734319 AA
1 AA
65734321 TATGAAAAGA
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
31 28 1.00
ACGTcount: A:0.38, C:0.14, G:0.22, T:0.27
Consensus pattern (31 bp):
AAAGGCTTCAGCCCAGTAATATGAAATATGA
Found at i:65737877 original size:15 final size:15
Alignment explanation
Indices: 65737857--65737886 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
65737847 ATTATGAAAT
65737857 ATATGTTTTGGATTG
1 ATATGTTTTGGATTG
*
65737872 ATATGTTTTGTATTG
1 ATATGTTTTGGATTG
65737887 GAATTTTTGA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.20, C:0.00, G:0.23, T:0.57
Consensus pattern (15 bp):
ATATGTTTTGGATTG
Found at i:65741569 original size:94 final size:92
Alignment explanation
Indices: 65741453--65741623 Score: 218
Period size: 94 Copynumber: 1.8 Consensus size: 92
65741443 TTTCACAGCC
* * ** *
65741453 GATGCATGTCCCAGACATGTCTTACACTGGCT-TACGTCCCGAGGCCAATGCATGTCCCAGACAT
1 GATGCATGTCCCAGACATGTCTTACAATGGCTCT-CATAACGAGGCCAATGCATGTACCAGACAT
65741517 GTCCTACACTAGCACTCGTCTCAATGCT
65 GTCCTACACTAGCACTCGTCTCAATGCT
* * * *
65741545 GATGCCATGTCCTAGACATGGTCTTACAATGGCTCTCATAACGTGGGCGATGCATGTACCAGACA
1 GATG-CATGTCCCAGACAT-GTCTTACAATGGCTCTCATAACGAGGCCAATGCATGTACCAGACA
*
65741610 TGTCTTACACTAGC
64 TGTCCTACACTAGC
65741624 CCACAATAAC
Statistics
Matches: 66, Mismatches: 10, Indels: 4
0.82 0.12 0.05
Matches are distributed among these distances:
92 4 0.06
93 13 0.20
94 48 0.73
95 1 0.02
ACGTcount: A:0.24, C:0.29, G:0.21, T:0.26
Consensus pattern (92 bp):
GATGCATGTCCCAGACATGTCTTACAATGGCTCTCATAACGAGGCCAATGCATGTACCAGACATG
TCCTACACTAGCACTCGTCTCAATGCT
Found at i:65748635 original size:56 final size:56
Alignment explanation
Indices: 65748499--65748705 Score: 281
Period size: 56 Copynumber: 3.7 Consensus size: 56
65748489 CAGACAGGGT
* * * * * * * *
65748499 CTTACTCGTACACATATATCGGATTCATATATCAATGCCAACATATTAAA-GTGGT
1 CTTACTCGCACATATATATCAGAGTCACATATCGATGCCAACGTATTAAACGTGGA
*
65748554 CTTACTCGCACAAATATATCAGAGTCACATATCGATGCCAACGTATTAAACGTGGA
1 CTTACTCGCACATATATATCAGAGTCACATATCGATGCCAACGTATTAAACGTGGA
* * * *
65748610 CTTACTCGCACATATATATCGGAGTCAAATATAGATGCCAACGTATTAAACATGGA
1 CTTACTCGCACATATATATCAGAGTCACATATCGATGCCAACGTATTAAACGTGGA
*
65748666 CTTACTCGCACATATATATCAAAGTCACATATCGATGCCA
1 CTTACTCGCACATATATATCAGAGTCACATATCGATGCCA
65748706 CATATACTTC
Statistics
Matches: 134, Mismatches: 17, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
55 43 0.32
56 91 0.68
ACGTcount: A:0.36, C:0.22, G:0.14, T:0.28
Consensus pattern (56 bp):
CTTACTCGCACATATATATCAGAGTCACATATCGATGCCAACGTATTAAACGTGGA
Found at i:65748704 original size:112 final size:111
Alignment explanation
Indices: 65748499--65748705 Score: 308
Period size: 111 Copynumber: 1.9 Consensus size: 111
65748489 CAGACAGGGT
* * * * *
65748499 CTTACTCGTACACATATATCGGATTCATATATCAATGCCAACATATTAAAGTGGTCTTACTCGCA
1 CTTACTCGCACACATATATCGGAGTCAAATATCAATGCCAACATATTAAAATGGACTTACTCGCA
*
65748564 CAAATATATCAGAGTCACATATCGATGCCAACGTATTAAACGTGGA
66 CAAATATATCAAAGTCACATATCGATGCCAACGTATTAAACGTGGA
* *
65748610 CTTACTCGCACATATATATCGGAGTCAAATAT-AGATGCCAACGTATTAAACATGGACTTACTCG
1 CTTACTCGCACACATATATCGGAGTCAAATATCA-ATGCCAACATATTAAA-ATGGACTTACTCG
*
65748674 CACATATATATCAAAGTCACATATCGATGCCA
64 CACAAATATATCAAAGTCACATATCGATGCCA
65748706 CATATACTTC
Statistics
Matches: 85, Mismatches: 9, Indels: 3
0.88 0.09 0.03
Matches are distributed among these distances:
110 1 0.01
111 43 0.51
112 41 0.48
ACGTcount: A:0.36, C:0.22, G:0.14, T:0.28
Consensus pattern (111 bp):
CTTACTCGCACACATATATCGGAGTCAAATATCAATGCCAACATATTAAAATGGACTTACTCGCA
CAAATATATCAAAGTCACATATCGATGCCAACGTATTAAACGTGGA
Found at i:65757011 original size:29 final size:29
Alignment explanation
Indices: 65756978--65757066 Score: 80
Period size: 29 Copynumber: 3.2 Consensus size: 29
65756968 ATCAATGCCA
65756978 TGCCTTGACATGGTCTTACATGATTTCCT
1 TGCCTTGACATGGTCTTACATGATTTCCT
* ** * *
65757007 TGCCTT-ATA-GAACTTATCA--A-TGCCA
1 TGCCTTGACATGGTCTTA-CATGATTTCCT
*
65757032 TGCCTTGGCATGGTCTTACATGATTTCCT
1 TGCCTTGACATGGTCTTACATGATTTCCT
65757061 TGCCTT
1 TGCCTT
65757067 ATAGAACTTA
Statistics
Matches: 43, Mismatches: 11, Indels: 12
0.65 0.17 0.18
Matches are distributed among these distances:
25 9 0.21
26 4 0.09
27 10 0.23
28 5 0.12
29 15 0.35
ACGTcount: A:0.19, C:0.25, G:0.17, T:0.39
Consensus pattern (29 bp):
TGCCTTGACATGGTCTTACATGATTTCCT
Found at i:65757035 original size:25 final size:25
Alignment explanation
Indices: 65757007--65757091 Score: 66
Period size: 25 Copynumber: 3.2 Consensus size: 25
65756997 ATGATTTCCT
65757007 TGCCTTATAGAACTTATCAATGCCA
1 TGCCTTATAGAACTTATCAATGCCA
** * *
65757032 TGCCTTGGCAT-GGTCTTA-CATGATTTCCT
1 TGCCTT---ATAGAACTTATCA--A-TGCCA
65757061 TGCCTTATAGAACTTATCAATGCCA
1 TGCCTTATAGAACTTATCAATGCCA
65757086 TGCCTT
1 TGCCTT
65757092 GGCATGGTCT
Statistics
Matches: 44, Mismatches: 8, Indels: 16
0.65 0.12 0.24
Matches are distributed among these distances:
25 15 0.34
26 5 0.11
27 10 0.23
28 5 0.11
29 9 0.20
ACGTcount: A:0.24, C:0.25, G:0.15, T:0.36
Consensus pattern (25 bp):
TGCCTTATAGAACTTATCAATGCCA
Found at i:65757044 original size:54 final size:54
Alignment explanation
Indices: 65756854--65757115 Score: 357
Period size: 54 Copynumber: 4.9 Consensus size: 54
65756844 TTTCCTTTTT
* * * * * * *
65756854 GAACTTACCATTGCCATGTCTTGACATGGTCTTACGTGGTATCTTTGCCTTATA
1 GAACTTATCAATGCCATGCCTTGGCATGGTCTTACATGATATCCTTGCCTTATA
* * **
65756908 -AACTCAACAATGCCATGCCTTGGCATGGTCTTACATGGGA-CCTTTGCCTTATA
1 GAACTTATCAATGCCATGCCTTGGCATGGTCTTACATGATATCC-TTGCCTTATA
* * *
65756961 TTAACTTATCAATGCCATGCCTTGACATGGTCTTACATGATTTCCTTGCCTTATA
1 -GAACTTATCAATGCCATGCCTTGGCATGGTCTTACATGATATCCTTGCCTTATA
*
65757016 GAACTTATCAATGCCATGCCTTGGCATGGTCTTACATGATTTCCTTGCCTTATA
1 GAACTTATCAATGCCATGCCTTGGCATGGTCTTACATGATATCCTTGCCTTATA
65757070 GAACTTATCAATGCCATGCCTTGGCATGGTCTTACATGATATCCTT
1 GAACTTATCAATGCCATGCCTTGGCATGGTCTTACATGATATCCTT
65757116 ATCTTACCAA
Statistics
Matches: 187, Mismatches: 17, Indels: 8
0.88 0.08 0.04
Matches are distributed among these distances:
52 1 0.01
53 43 0.23
54 97 0.52
55 44 0.24
56 2 0.01
ACGTcount: A:0.23, C:0.24, G:0.17, T:0.36
Consensus pattern (54 bp):
GAACTTATCAATGCCATGCCTTGGCATGGTCTTACATGATATCCTTGCCTTATA
Found at i:65757242 original size:47 final size:46
Alignment explanation
Indices: 65757078--65757302 Score: 177
Period size: 47 Copynumber: 4.8 Consensus size: 46
65757068 TAGAACTTAT
* * * * * * *
65757078 CAATGCCATGCCTTGGCATGGTCTTACATGATATCCTTATC-TTAC
1 CAATGCCATGTCTTGACGTGGTCTTACATGGTATCCTTGTCAATGC
*** * *
65757123 CAAATGCCATGTTCCAAACATGGTCTTACATGGTATCCTTGTCTTAGTGC
1 C-AATGCCATG-TCTTGACGTGGTCTTACATGGTATCCTTGTC--AATGC
** *
65757173 CAATGCCACATCTTGATGTGGTCTTACATGG-AGTCCTTAGTCAATGC
1 CAATGCCATGTCTTGACGTGGTCTTACATGGTA-TCCTT-GTCAATGC
* * * ** *
65757220 CGATGCCATGTCTTGACGTGGTCTTACACGGGATCCTTG-CCTTAC
1 CAATGCCATGTCTTGACGTGGTCTTACATGGTATCCTTGTCAATGC
*
65757265 CAATGCCATGTCTTGACATGGTCTTACATGGTATCCTT
1 CAATGCCATGTCTTGACGTGGTCTTACATGGTATCCTT
65757303 AACCGTCAAT
Statistics
Matches: 143, Mismatches: 29, Indels: 16
0.76 0.15 0.09
Matches are distributed among these distances:
45 38 0.27
46 10 0.07
47 60 0.42
48 22 0.15
49 10 0.07
50 3 0.02
ACGTcount: A:0.21, C:0.25, G:0.20, T:0.34
Consensus pattern (46 bp):
CAATGCCATGTCTTGACGTGGTCTTACATGGTATCCTTGTCAATGC
Found at i:65757356 original size:44 final size:44
Alignment explanation
Indices: 65757307--65757391 Score: 118
Period size: 44 Copynumber: 1.9 Consensus size: 44
65757297 ATCCTTAACC
* *
65757307 GTCAATTCCTCCTTAAATGCCATGTTATGAA-CATGGAATTTTCT
1 GTCAATTCCTCCTTAAATGCCATGGTA-CAACCATGGAATTTTCT
* *
65757351 GTCAATTCTTCCTTAATTGCCATGGTACAACCATGGAATTT
1 GTCAATTCCTCCTTAAATGCCATGGTACAACCATGGAATTT
65757392 GAGATATCAA
Statistics
Matches: 36, Mismatches: 4, Indels: 2
0.86 0.10 0.05
Matches are distributed among these distances:
43 2 0.06
44 34 0.94
ACGTcount: A:0.27, C:0.21, G:0.14, T:0.38
Consensus pattern (44 bp):
GTCAATTCCTCCTTAAATGCCATGGTACAACCATGGAATTTTCT
Found at i:65757974 original size:30 final size:30
Alignment explanation
Indices: 65757929--65757990 Score: 106
Period size: 30 Copynumber: 2.1 Consensus size: 30
65757919 TCCCTAACTC
* *
65757929 AAACTTTTTCAAAATTACAATTTTGCCCCT
1 AAACCTTTGCAAAATTACAATTTTGCCCCT
65757959 AAACCTTTGCAAAATTACAATTTTGCCCCT
1 AAACCTTTGCAAAATTACAATTTTGCCCCT
65757989 AA
1 AA
65757991 GCTTGGAAAT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.35, C:0.24, G:0.05, T:0.35
Consensus pattern (30 bp):
AAACCTTTGCAAAATTACAATTTTGCCCCT
Found at i:65760739 original size:27 final size:27
Alignment explanation
Indices: 65760709--65760917 Score: 240
Period size: 27 Copynumber: 7.7 Consensus size: 27
65760699 TTAGTTTACC
65760709 AAATTACCAAAATACCCCTGGTTTGTA
1 AAATTACCAAAATACCCCTGGTTTGTA
*
65760736 AAATTACCAAAATACCTCTGGTTTGTA
1 AAATTACCAAAATACCCCTGGTTTGTA
*
65760763 AAATTATCAAAATACCCCTGGTTTGTA
1 AAATTACCAAAATACCCCTGGTTTGTA
* *
65760790 AAATTATCAAAATACCCCTAGTTTGTA
1 AAATTACCAAAATACCCCTGGTTTGTA
* *
65760817 AAATTACCAAAATACCCCTGATTTGTG
1 AAATTACCAAAATACCCCTGGTTTGTA
** ***
65760844 AAATTACTGAAATA-CCCTCAACTTGTA
1 AAATTACCAAAATACCCCT-GGTTTGTA
*** * **
65760871 AAATTATTGAAATACCCTTGACTTGTA
1 AAATTACCAAAATACCCCTGGTTTGTA
*
65760898 AAATTACCAAAGTACCCCTG
1 AAATTACCAAAATACCCCTG
65760918 ATTTACAGAA
Statistics
Matches: 159, Mismatches: 21, Indels: 4
0.86 0.11 0.02
Matches are distributed among these distances:
26 4 0.03
27 152 0.96
28 3 0.02
ACGTcount: A:0.38, C:0.21, G:0.10, T:0.31
Consensus pattern (27 bp):
AAATTACCAAAATACCCCTGGTTTGTA
Found at i:65760965 original size:81 final size:81
Alignment explanation
Indices: 65760704--65760967 Score: 196
Period size: 81 Copynumber: 3.3 Consensus size: 81
65760694 ATACTTTAGT
* * * * * * *
65760704 TTACCAAATTACCAAAATACCCCTGGTTTGTAAAATTACCAAAATACCTCTGGTTTGTA-AAATT
1 TTACAAAATTATCAAAATACCCCTAGCTTGTAAAATTACCAAAATACCCCTGATTT-CAGAAATT
* ***
65760768 A-TCAAAATACCC-CTGGT
65 ACT-GAAATACCCTC-AAC
** * **
65760785 TTGTAAAATTATCAAAATACCCCTAGTTTGTAAAATTACCAAAATACCCCTGATTTGTGAAATTA
1 TTACAAAATTATCAAAATACCCCTAGCTTGTAAAATTACCAAAATACCCCTGATTTCAGAAATTA
65760850 CTGAAATACCCTCAAC
66 CTGAAATACCCTCAAC
** ** * *
65760866 TTGTAAAATTATTGAAATA-CCCTTGACTTGTAAAATTACCAAAGTACCCCTGATTTACAG-AAT
1 TTACAAAATTATCAAAATACCCCTAG-CTTGTAAAATTACCAAAATACCCCTGATTT-CAGAAAT
*** * *
65760929 TACTGTTTTACCCTCGAT
64 TACTGAAATACCCTCAAC
*
65760947 TTACAAAATTACCAAAATACC
1 TTACAAAATTATCAAAATACC
65760968 TTTGTAGGGT
Statistics
Matches: 147, Mismatches: 30, Indels: 11
0.78 0.16 0.06
Matches are distributed among these distances:
80 5 0.03
81 138 0.94
82 4 0.03
ACGTcount: A:0.38, C:0.21, G:0.09, T:0.32
Consensus pattern (81 bp):
TTACAAAATTATCAAAATACCCCTAGCTTGTAAAATTACCAAAATACCCCTGATTTCAGAAATTA
CTGAAATACCCTCAAC
Found at i:65760986 original size:27 final size:27
Alignment explanation
Indices: 65760956--65761198 Score: 317
Period size: 27 Copynumber: 9.0 Consensus size: 27
65760946 TTTACAAAAT
* **
65760956 TACCAAAATACCTTTGTAGGGTAGAAA
1 TACCGAAATACCCCTGTAGGGTAGAAA
*
65760983 TACCGAAATACCCTTGTAGGGTAGAAA
1 TACCGAAATACCCCTGTAGGGTAGAAA
65761010 TACCGAAATACCCCTGTAGGGTAGAAA
1 TACCGAAATACCCCTGTAGGGTAGAAA
*
65761037 TACCGAAATACCCCTGTAGGGTAGAAT
1 TACCGAAATACCCCTGTAGGGTAGAAA
** * *
65761064 TACTAAAATACCCCTATAGGGTAGAAT
1 TACCGAAATACCCCTGTAGGGTAGAAA
**
65761091 TACCGAAATACCTTTGTAGGGTAGAAA
1 TACCGAAATACCCCTGTAGGGTAGAAA
* *
65761118 TACCGAAATACCCCTCTAGGGTAGAAT
1 TACCGAAATACCCCTGTAGGGTAGAAA
* *
65761145 TACTGAAATACCCCTGTAGGGTAGAAT
1 TACCGAAATACCCCTGTAGGGTAGAAA
* * *
65761172 TACCGAGATACCCTTGTGGGGTA-AAA
1 TACCGAAATACCCCTGTAGGGTAGAAA
65761198 T
1 T
65761199 TACCATTTTA
Statistics
Matches: 192, Mismatches: 24, Indels: 1
0.88 0.11 0.00
Matches are distributed among these distances:
26 3 0.02
27 189 0.98
ACGTcount: A:0.36, C:0.19, G:0.21, T:0.24
Consensus pattern (27 bp):
TACCGAAATACCCCTGTAGGGTAGAAA
Found at i:65763368 original size:43 final size:43
Alignment explanation
Indices: 65763307--65763511 Score: 323
Period size: 43 Copynumber: 4.9 Consensus size: 43
65763297 GAATATTCGG
*
65763307 ATGATAACCAGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
1 ATGATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
* *
65763350 ATGATAACCGGGCCAAGTCCCGAAGGCATTTGTGTGAGTTACT
1 ATGATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
65763393 ATGATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
1 ATGATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
65763436 AT-AT--CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
1 ATGATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
* *
65763476 AT-AT--CCGGGCTAAGTCCCGAAGGCAGTTGAGCGAGT
1 ATGATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGT
65763512 AGCTACATCC
Statistics
Matches: 155, Mismatches: 7, Indels: 3
0.94 0.04 0.02
Matches are distributed among these distances:
40 70 0.45
42 2 0.01
43 83 0.54
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.25
Consensus pattern (43 bp):
ATGATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
Found at i:65763455 original size:40 final size:40
Alignment explanation
Indices: 65763317--65763537 Score: 302
Period size: 40 Copynumber: 5.4 Consensus size: 40
65763307 ATGATAACCA
65763317 GGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATGATAACCG
1 GGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAT-AT--CCG
* *
65763360 GGCCAAGTCCCGAAGGCATTTGTGTGAGTTACTATGATAACCG
1 GGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAT-AT--CCG
65763403 GGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCG
1 GGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCG
65763443 GGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCG
1 GGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCG
* * *
65763483 GGCTAAGTCCCGAAGGCAGTTGAGCGAG-TAGCTACATCC-
1 GGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATATCCG
* *
65763522 GGCTAAATCCCAAAGG
1 GGCTAAGTCCCGAAGG
65763538 TACTTGGTTT
Statistics
Matches: 168, Mismatches: 9, Indels: 6
0.92 0.05 0.03
Matches are distributed among these distances:
39 16 0.10
40 76 0.45
42 2 0.01
43 74 0.44
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.24
Consensus pattern (40 bp):
GGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCG
Found at i:65765187 original size:39 final size:39
Alignment explanation
Indices: 65765106--65765296 Score: 319
Period size: 39 Copynumber: 4.9 Consensus size: 39
65765096 TATGGTAACC
* * * *
65765106 CGCACAAATGCCTTCGGGACTTAACCCGGATATCACAACT
1 CGCACAATTGCCTTCGGG-CTTAGCCCGGATATCATAGCT
*
65765146 CGCACAATTGCCTTCGGGCTTAGCCCGGGTATCATAGCT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCATAGCT
65765185 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCATAGCT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCATAGCT
*
65765224 CGCACAATTGCCTTCGGGCTTAGCCCGGGTATCATAGCT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCATAGCT
65765263 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCA
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCA
65765297 CTCGAACATT
Statistics
Matches: 143, Mismatches: 8, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
39 126 0.88
40 17 0.12
ACGTcount: A:0.21, C:0.31, G:0.23, T:0.24
Consensus pattern (39 bp):
CGCACAATTGCCTTCGGGCTTAGCCCGGATATCATAGCT
Found at i:65770172 original size:27 final size:28
Alignment explanation
Indices: 65770115--65770184 Score: 115
Period size: 27 Copynumber: 2.5 Consensus size: 28
65770105 AAACTTGTAC
*
65770115 AGCACTAAGTGTGCGAGTTTGATCATGT
1 AGCACTAAGTGTGCGAGTTTGATCATAT
*
65770143 AGCACTAAGTGTGCGAG-TTGATTATAT
1 AGCACTAAGTGTGCGAGTTTGATCATAT
65770170 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
65770185 GACACTATAT
Statistics
Matches: 40, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
27 23 0.57
28 17 0.43
ACGTcount: A:0.27, C:0.14, G:0.29, T:0.30
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAGTTTGATCATAT
Found at i:65777805 original size:43 final size:43
Alignment explanation
Indices: 65777744--65777948 Score: 332
Period size: 43 Copynumber: 4.9 Consensus size: 43
65777734 GAATATTCGG
65777744 ATGATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
1 ATGATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
* *
65777787 ATGATAACCGGGCCAAGTCCCGAAGGCATTTGTGTGAGTTACT
1 ATGATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
65777830 ATGATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
1 ATGATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
65777873 AT-AT--CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
1 ATGATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
* *
65777913 AT-AT--CCGGGCTAAGTCCCGAAGGCAGTTGAGCGAGT
1 ATGATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGT
65777949 AGCTATATCC
Statistics
Matches: 156, Mismatches: 6, Indels: 3
0.95 0.04 0.02
Matches are distributed among these distances:
40 70 0.45
42 2 0.01
43 84 0.54
ACGTcount: A:0.25, C:0.21, G:0.29, T:0.25
Consensus pattern (43 bp):
ATGATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
Found at i:65777892 original size:40 final size:40
Alignment explanation
Indices: 65777751--65777958 Score: 310
Period size: 40 Copynumber: 5.0 Consensus size: 40
65777741 CGGATGATAA
65777751 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATGAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAT-AT
* *
65777792 AACCGGGCCAAGTCCCGAAGGCATTTGTGTGAGTTACTATGAT
1 --CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAT-AT
65777835 AACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 --CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
65777877 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* *
65777917 CCGGGCTAAGTCCCGAAGGCAGTTGAGCGAG-TAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATAT
65777957 CC
1 CC
65777959 AGCTAAATCC
Statistics
Matches: 158, Mismatches: 6, Indels: 5
0.93 0.04 0.03
Matches are distributed among these distances:
39 2 0.01
40 77 0.49
42 2 0.01
43 77 0.49
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:65779365 original size:6 final size:6
Alignment explanation
Indices: 65779356--65779548 Score: 69
Period size: 6 Copynumber: 31.3 Consensus size: 6
65779346 TTGCATTCAC
* * * * *
65779356 ATTCTT ATTCTG ATTCT- ATTACCTG ATACTG ATTTTG ATT-TT ATTACCTA
1 ATTCTG ATTCTG ATTCTG ATT--CTG ATTCTG ATTCTG ATTCTG ATT--CTG
* * *
65779406 ATTCTG ATTCT- AGTTCTG ATTTTG ATTATG -TTACCTG ATAT-TG ATTCTA
1 ATTCTG ATTCTG A-TTCTG ATTCTG ATTCTG ATT--CTG AT-TCTG ATTCTG
* * * * *
65779455 ATTCTG -TTACCTA ATTTTG ATTCTG ATTTTG ATTTTG ATTCTG -TCACCTG
1 ATTCTG ATT--CTG ATTCTG ATTCTG ATTCTG ATTCTG ATTCTG AT--TCTG
* * *
65779505 ATTCTG ATTCTA ATTCTG ATTCTC ATTTTG ATTCT- AGTTCTG AT
1 ATTCTG ATTCTG ATTCTG ATTCTG ATTCTG ATTCTG A-TTCTG AT
65779549 AATGTTTCTT
Statistics
Matches: 140, Mismatches: 26, Indels: 42
0.67 0.12 0.20
Matches are distributed among these distances:
5 15 0.11
6 103 0.74
7 11 0.08
8 10 0.07
9 1 0.01
ACGTcount: A:0.21, C:0.15, G:0.12, T:0.52
Consensus pattern (6 bp):
ATTCTG
Found at i:65779400 original size:25 final size:25
Alignment explanation
Indices: 65779366--65779414 Score: 71
Period size: 25 Copynumber: 2.0 Consensus size: 25
65779356 ATTCTTATTC
*
65779366 TGATTCTATTACCTGATACTGATTT
1 TGATTCTATTACCTAATACTGATTT
* *
65779391 TGATTTTATTACCTAATTCTGATT
1 TGATTCTATTACCTAATACTGATT
65779415 CTAGTTCTGA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.24, C:0.14, G:0.10, T:0.51
Consensus pattern (25 bp):
TGATTCTATTACCTAATACTGATTT
Found at i:65779425 original size:37 final size:37
Alignment explanation
Indices: 65779384--65779460 Score: 102
Period size: 37 Copynumber: 2.1 Consensus size: 37
65779374 TTACCTGATA
* *
65779384 CTGATTTTGATTTTATTACCTAAT-TCTGATTCTAGTT
1 CTGATTTTGATTATATTACCTAATAT-TGATTCTAATT
* *
65779421 CTGATTTTGATTATGTTACCTGATATTGATTCTAATT
1 CTGATTTTGATTATATTACCTAATATTGATTCTAATT
65779458 CTG
1 CTG
65779461 TTACCTAATT
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
37 34 0.97
38 1 0.03
ACGTcount: A:0.22, C:0.13, G:0.13, T:0.52
Consensus pattern (37 bp):
CTGATTTTGATTATATTACCTAATATTGATTCTAATT
Found at i:65779465 original size:62 final size:62
Alignment explanation
Indices: 65779374--65779548 Score: 205
Period size: 62 Copynumber: 2.8 Consensus size: 62
65779364 TCTGATTCTA
* * * * * *
65779374 TTACCTGATACTGATTTTGATTTTATTACCTAATTCTGATTCTAGTTCTGATTTTGATTATG
1 TTACCTGATATTGATTCTAATTCTGTTACCTAATTTTGATTCTAGTTCTGATTTTGATTATG
* *
65779436 TTACCTGATATTGATTCTAATTCTGTTACCTAATTTTGATTCT-GATTTTGATTTTGATTCTG
1 TTACCTGATATTGATTCTAATTCTGTTACCTAATTTTGATTCTAG-TTCTGATTTTGATTATG
* *
65779498 TCACCTGAT-TCTGATTCTAATTCTGATT--CTCATTTTGATTCTAGTTCTGAT
1 TTACCTGATAT-TGATTCTAATTCTG-TTACCTAATTTTGATTCTAGTTCTGAT
65779549 AATGTTTCTT
Statistics
Matches: 98, Mismatches: 11, Indels: 9
0.83 0.09 0.08
Matches are distributed among these distances:
61 21 0.21
62 75 0.77
63 2 0.02
ACGTcount: A:0.21, C:0.15, G:0.13, T:0.51
Consensus pattern (62 bp):
TTACCTGATATTGATTCTAATTCTGTTACCTAATTTTGATTCTAGTTCTGATTTTGATTATG
Found at i:65779481 original size:37 final size:37
Alignment explanation
Indices: 65779440--65779515 Score: 98
Period size: 37 Copynumber: 2.1 Consensus size: 37
65779430 ATTATGTTAC
* *
65779440 CTGATATTGATTCTAATTCTGTTACCTAATTTTGATT
1 CTGATATTGATTCTAATTCTGTCACCTAATTCTGATT
* * * *
65779477 CTGATTTTGATTTTGATTCTGTCACCTGATTCTGATT
1 CTGATATTGATTCTAATTCTGTCACCTAATTCTGATT
65779514 CT
1 CT
65779516 AATTCTGATT
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
37 33 1.00
ACGTcount: A:0.20, C:0.16, G:0.13, T:0.51
Consensus pattern (37 bp):
CTGATATTGATTCTAATTCTGTCACCTAATTCTGATT
Found at i:65779525 original size:37 final size:37
Alignment explanation
Indices: 65779455--65779525 Score: 97
Period size: 37 Copynumber: 1.9 Consensus size: 37
65779445 ATTGATTCTA
* * * *
65779455 ATTCTGTTACCTAATTTTGATTCTGATTTTGATTTTG
1 ATTCTGTCACCTAATTCTGATTCTAATTCTGATTTTG
*
65779492 ATTCTGTCACCTGATTCTGATTCTAATTCTGATT
1 ATTCTGTCACCTAATTCTGATTCTAATTCTGATT
65779526 CTCATTTTGA
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
37 29 1.00
ACGTcount: A:0.20, C:0.15, G:0.13, T:0.52
Consensus pattern (37 bp):
ATTCTGTCACCTAATTCTGATTCTAATTCTGATTTTG
Found at i:65786805 original size:49 final size:49
Alignment explanation
Indices: 65786728--65786965 Score: 271
Period size: 49 Copynumber: 4.8 Consensus size: 49
65786718 TAGACAAGGC
* * *
65786728 TATCTGGTACACATAGTAGTCTGCACTTAGTACTACACATGCGACCAAT
1 TATCCGGTACACGTAGTAGCCTGCACTTAGTACTACACATGCGACCAAT
* * * *
65786777 TATCCGGTACATGTAGTAGCCTGCACTTAGTACTACACACGTGACCTAAC
1 TATCCGGTACACGTAGTAGCCTGCACTTAGTACTACACATGCGACC-AAT
* * * * * * *
65786827 CATCTGATACATGTAGTAGCTTGCACTTAGTACTACACACT-TGATCAAAGT
1 TATCCGGTACACGTAGTAGCCTGCACTTAGTACTACACA-TGCGA-CCAA-T
* * * *
65786878 TATCGGGTATACATAGTAGCCTGCACTTCGTACTACACATGCGACCAAT
1 TATCCGGTACACGTAGTAGCCTGCACTTAGTACTACACATGCGACCAAT
65786927 TATCCGGTACACGTAGTAGCCTGCACTTAGTACTACACA
1 TATCCGGTACACGTAGTAGCCTGCACTTAGTACTACACA
65786966 CGTGACCTCA
Statistics
Matches: 156, Mismatches: 28, Indels: 10
0.80 0.14 0.05
Matches are distributed among these distances:
49 76 0.49
50 46 0.29
51 34 0.22
ACGTcount: A:0.29, C:0.26, G:0.17, T:0.28
Consensus pattern (49 bp):
TATCCGGTACACGTAGTAGCCTGCACTTAGTACTACACATGCGACCAAT
Found at i:65787229 original size:27 final size:27
Alignment explanation
Indices: 65787199--65787252 Score: 81
Period size: 27 Copynumber: 2.0 Consensus size: 27
65787189 AGGTACAACC
* *
65787199 CATGTAATAGTAATTTAACATTCAATT
1 CATGTAACAATAATTTAACATTCAATT
*
65787226 CATGTAACAATAATTTACCATTCAATT
1 CATGTAACAATAATTTAACATTCAATT
65787253 TCACATGACA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.41, C:0.15, G:0.06, T:0.39
Consensus pattern (27 bp):
CATGTAACAATAATTTAACATTCAATT
Found at i:65792404 original size:28 final size:28
Alignment explanation
Indices: 65792357--65792424 Score: 113
Period size: 28 Copynumber: 2.5 Consensus size: 28
65792347 TTTAAAACCC
*
65792357 TAGGGGT-ATATC-GTAATTTTGCTCTT
1 TAGGGGTAATTTCGGTAATTTTGCTCTT
65792383 TAGGGGTAATTTCGGTAATTTTGCTCTT
1 TAGGGGTAATTTCGGTAATTTTGCTCTT
65792411 TAGGGGTAATTTCG
1 TAGGGGTAATTTCG
65792425 TGATCTACGC
Statistics
Matches: 39, Mismatches: 1, Indels: 2
0.93 0.02 0.05
Matches are distributed among these distances:
26 7 0.18
27 4 0.10
28 28 0.72
ACGTcount: A:0.19, C:0.10, G:0.26, T:0.44
Consensus pattern (28 bp):
TAGGGGTAATTTCGGTAATTTTGCTCTT
Found at i:65797090 original size:40 final size:40
Alignment explanation
Indices: 65797045--65797211 Score: 176
Period size: 40 Copynumber: 4.2 Consensus size: 40
65797035 CGGAATATAA
65797045 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * * * *
65797085 CCGGATAGAATAACTCGCACGAATGCCTTCGGGCCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * *
65797125 CCGGATATAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * *
65797165 CCGGATATAATTTCCAGCATAATTGTCTTCGGG-CTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
65797204 CCGGATAT
1 CCGGATAT
65797212 CATTCAATTT
Statistics
Matches: 105, Mismatches: 21, Indels: 3
0.81 0.16 0.02
Matches are distributed among these distances:
39 14 0.13
40 91 0.87
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.26
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:65797195 original size:80 final size:79
Alignment explanation
Indices: 65797061--65797211 Score: 198
Period size: 80 Copynumber: 1.9 Consensus size: 79
65797051 ATAATCACGT
*
65797061 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATAACTCGCACGAATGCCTTCGGGCCTTAGCC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTCGCACGAATGCCTTCGGG-CTTAGCC
65797126 CGGATATAGCCACTA
65 CGGATATAGCCACTA
* * ** * *
65797141 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAATTGTCTTCGGGCTTAGC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTC-GCACGAA-TGCCTTCGGGCTTAGC
65797204 CCGGATAT
64 CCGGATAT
65797212 CATTCAATTT
Statistics
Matches: 62, Mismatches: 7, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
79 17 0.27
80 45 0.73
ACGTcount: A:0.24, C:0.28, G:0.23, T:0.26
Consensus pattern (79 bp):
GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTCGCACGAATGCCTTCGGGCTTAGCCC
GGATATAGCCACTA
Found at i:65799663 original size:18 final size:20
Alignment explanation
Indices: 65799623--65799664 Score: 52
Period size: 18 Copynumber: 2.2 Consensus size: 20
65799613 TAACAAATAG
*
65799623 AAAAACTTGAACATCTTCGA
1 AAAAACTTGAACATCTTCCA
*
65799643 AAAAACTT-ACCAT-TTCCA
1 AAAAACTTGAACATCTTCCA
65799661 AAAA
1 AAAA
65799665 TACCCTTCTT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
18 8 0.40
19 4 0.20
20 8 0.40
ACGTcount: A:0.50, C:0.21, G:0.05, T:0.24
Consensus pattern (20 bp):
AAAAACTTGAACATCTTCCA
Found at i:65803064 original size:21 final size:21
Alignment explanation
Indices: 65803023--65803064 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
65803013 CTCCCCATTT
* *
65803023 CCCCCGATTCCTCAACTTGTA
1 CCCCCGATGCCTCAACGTGTA
*
65803044 CCCCCGATGCCTCAAGGTGTA
1 CCCCCGATGCCTCAACGTGTA
65803065 AATCTGATAA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.19, C:0.40, G:0.17, T:0.24
Consensus pattern (21 bp):
CCCCCGATGCCTCAACGTGTA
Found at i:65805856 original size:2 final size:2
Alignment explanation
Indices: 65805849--65805873 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
65805839 GAGACTAGTC
65805849 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
65805874 CATGTCATGA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:65808850 original size:40 final size:40
Alignment explanation
Indices: 65808805--65808971 Score: 185
Period size: 40 Copynumber: 4.2 Consensus size: 40
65808795 CGGAATATAA
65808805 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * * *
65808845 CCGGATAGAATAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * *
65808885 CCGGATATAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * *
65808925 CCGGATATAATTTCCAGCATAATTGTCTTCGGG-CTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
65808964 CCGGATAT
1 CCGGATAT
65808972 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:0.27, G:0.22, T:0.26
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:65816862 original size:39 final size:40
Alignment explanation
Indices: 65816741--65816868 Score: 138
Period size: 39 Copynumber: 3.2 Consensus size: 40
65816731 CGGAATATAA
*
65816741 CCGGATATAATC-ACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAA-CAAC-TAGCACGAATGCCTTCGGGTCTTAGC
* * *
65816781 CCGGATAGAATAACTCGCACGAATGCCTTCGGG-CTTAGC
1 CCGGATATAACAACTAGCACGAATGCCTTCGGGTCTTAGC
* * * *
65816820 CCGGATATAGCCACTAGCAC-ATTGCCTTCGGGTCTTAAC
1 CCGGATATAACAACTAGCACGAATGCCTTCGGGTCTTAGC
65816859 CCGGATATAA
1 CCGGATATAA
65816869 TTCCAGCATA
Statistics
Matches: 74, Mismatches: 11, Indels: 7
0.80 0.12 0.08
Matches are distributed among these distances:
38 11 0.15
39 36 0.49
40 27 0.36
ACGTcount: A:0.26, C:0.28, G:0.23, T:0.23
Consensus pattern (40 bp):
CCGGATATAACAACTAGCACGAATGCCTTCGGGTCTTAGC
Found at i:65824793 original size:40 final size:40
Alignment explanation
Indices: 65824748--65824914 Score: 176
Period size: 40 Copynumber: 4.2 Consensus size: 40
65824738 CGGAATATAA
65824748 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * * * *
65824788 CCGGATAGAATAACTCGCACGAATGCCTTCGGGCCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * *
65824828 CCGGATATAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * *
65824868 CCGGATATAATTTCCAGCATAATTGTCTTCGGG-CTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
65824907 CCGGATAT
1 CCGGATAT
65824915 CATTCAATTT
Statistics
Matches: 105, Mismatches: 21, Indels: 3
0.81 0.16 0.02
Matches are distributed among these distances:
39 14 0.13
40 91 0.87
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.26
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:65824898 original size:80 final size:79
Alignment explanation
Indices: 65824764--65824914 Score: 198
Period size: 80 Copynumber: 1.9 Consensus size: 79
65824754 ATAATCACGT
*
65824764 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATAACTCGCACGAATGCCTTCGGGCCTTAGCC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTCGCACGAATGCCTTCGGG-CTTAGCC
65824829 CGGATATAGCCACTA
65 CGGATATAGCCACTA
* * ** * *
65824844 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAATTGTCTTCGGGCTTAGC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTC-GCACGAA-TGCCTTCGGGCTTAGC
65824907 CCGGATAT
64 CCGGATAT
65824915 CATTCAATTT
Statistics
Matches: 62, Mismatches: 7, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
79 17 0.27
80 45 0.73
ACGTcount: A:0.24, C:0.28, G:0.23, T:0.26
Consensus pattern (79 bp):
GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTCGCACGAATGCCTTCGGGCTTAGCCC
GGATATAGCCACTA
Found at i:65826172 original size:56 final size:53
Alignment explanation
Indices: 65826109--65826217 Score: 132
Period size: 56 Copynumber: 2.0 Consensus size: 53
65826099 CCCCCTTTTC
65826109 CCTTAGTA-ATTTCGGCCAAGAAGAT-GAGAAAGGATGAACAAATTTTTCTTTTCTTT
1 CCTTAGTACA-TTCGGCCAAGAAGATGGAG-AAGGATGAAC--ATTTTT-TTTTCTTT
***
65826165 CCTTAGTACATTCGGCCAAGCCTATGGAGAAGGATGAACATTTTTTTTTCTTT
1 CCTTAGTACATTCGGCCAAGAAGATGGAGAAGGATGAACATTTTTTTTTCTTT
65826218 TTTTTTTTTC
Statistics
Matches: 48, Mismatches: 3, Indels: 7
0.83 0.05 0.12
Matches are distributed among these distances:
53 8 0.17
54 6 0.12
56 30 0.62
57 4 0.08
ACGTcount: A:0.28, C:0.17, G:0.18, T:0.37
Consensus pattern (53 bp):
CCTTAGTACATTCGGCCAAGAAGATGGAGAAGGATGAACATTTTTTTTTCTTT
Found at i:65829751 original size:28 final size:28
Alignment explanation
Indices: 65829705--65829773 Score: 113
Period size: 28 Copynumber: 2.5 Consensus size: 28
65829695 TTTAAAACCC
*
65829705 TAGGGGT-ATATCGGTAATTTTGCTCTT
1 TAGGGGTAATTTCGGTAATTTTGCTCTT
*
65829732 TAGGGGTAATTTCGGTAATTTTGTTCTT
1 TAGGGGTAATTTCGGTAATTTTGCTCTT
65829760 TAGGGGTAATTTCG
1 TAGGGGTAATTTCG
65829774 TGATCTACGC
Statistics
Matches: 39, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
27 7 0.18
28 32 0.82
ACGTcount: A:0.19, C:0.09, G:0.28, T:0.45
Consensus pattern (28 bp):
TAGGGGTAATTTCGGTAATTTTGCTCTT
Found at i:65831416 original size:20 final size:20
Alignment explanation
Indices: 65831393--65831430 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
65831383 CACATCCAAA
*
65831393 TACAAAATTTTAAAAATCTT
1 TACAAAATATTAAAAATCTT
*
65831413 TACAAAATATTGAAAATC
1 TACAAAATATTAAAAATC
65831431 GCGAATAAAC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.53, C:0.11, G:0.03, T:0.34
Consensus pattern (20 bp):
TACAAAATATTAAAAATCTT
Found at i:65833145 original size:12 final size:12
Alignment explanation
Indices: 65833128--65833152 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
65833118 AGCACAATAG
65833128 TTTTATGATATA
1 TTTTATGATATA
65833140 TTTTATGATATA
1 TTTTATGATATA
65833152 T
1 T
65833153 ATTAACTTTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.32, C:0.00, G:0.08, T:0.60
Consensus pattern (12 bp):
TTTTATGATATA
Found at i:65833611 original size:25 final size:28
Alignment explanation
Indices: 65833559--65833612 Score: 69
Period size: 25 Copynumber: 2.0 Consensus size: 28
65833549 TTATCGCTCT
* *
65833559 TATGTGTTGAATGATCGATTTTGCATAA
1 TATGTGTTGAATGATCGATTATGAATAA
65833587 TATG-GTTGAAT-AT-GATTATGAATAA
1 TATGTGTTGAATGATCGATTATGAATAA
65833612 T
1 T
65833613 GCATGATGAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
25 11 0.46
26 2 0.08
27 7 0.29
28 4 0.17
ACGTcount: A:0.33, C:0.04, G:0.20, T:0.43
Consensus pattern (28 bp):
TATGTGTTGAATGATCGATTATGAATAA
Found at i:65841286 original size:45 final size:45
Alignment explanation
Indices: 65841222--65841312 Score: 164
Period size: 45 Copynumber: 2.0 Consensus size: 45
65841212 CAAAAAAATG
65841222 TGTCACATACATCATGAACTCAGACCACAACTCAATGAGTTCAGA
1 TGTCACATACATCATGAACTCAGACCACAACTCAATGAGTTCAGA
**
65841267 TGTCACATATGTCATGAACTCAGACCACAACTCAATGAGTTCAGA
1 TGTCACATACATCATGAACTCAGACCACAACTCAATGAGTTCAGA
65841312 T
1 T
65841313 CACATAATTC
Statistics
Matches: 44, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
45 44 1.00
ACGTcount: A:0.36, C:0.25, G:0.14, T:0.24
Consensus pattern (45 bp):
TGTCACATACATCATGAACTCAGACCACAACTCAATGAGTTCAGA
Found at i:65841310 original size:21 final size:21
Alignment explanation
Indices: 65841241--65841316 Score: 64
Period size: 21 Copynumber: 3.5 Consensus size: 21
65841231 CATCATGAAC
65841241 TCAGACCACAACTCAATGAGT
1 TCAGACCACAACTCAATGAGT
* * **
65841262 TCAGATGTCACATATGTC-ATGAAC
1 TCAGA--CCACA-A-CTCAATGAGT
65841286 TCAGACCACAACTCAATGAGT
1 TCAGACCACAACTCAATGAGT
*
65841307 TCAGATCACA
1 TCAGACCACA
65841317 TAATTCCTAG
Statistics
Matches: 41, Mismatches: 9, Indels: 10
0.68 0.15 0.17
Matches are distributed among these distances:
20 2 0.05
21 19 0.46
22 4 0.10
23 4 0.10
24 10 0.24
25 2 0.05
ACGTcount: A:0.37, C:0.26, G:0.14, T:0.22
Consensus pattern (21 bp):
TCAGACCACAACTCAATGAGT
Found at i:65850637 original size:29 final size:29
Alignment explanation
Indices: 65850576--65850639 Score: 92
Period size: 29 Copynumber: 2.2 Consensus size: 29
65850566 AGAAAGATGT
***
65850576 AATTTGGGTTGTTGTTGATCGACAAATGC
1 AATTTGGGTTGTTGTTGATCGACAAACAA
*
65850605 AATTTGGGTTGTTGTTGATCGACTAACAA
1 AATTTGGGTTGTTGTTGATCGACAAACAA
65850634 AATTTG
1 AATTTG
65850640 CCCATTTCAT
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
29 31 1.00
ACGTcount: A:0.27, C:0.09, G:0.25, T:0.39
Consensus pattern (29 bp):
AATTTGGGTTGTTGTTGATCGACAAACAA
Found at i:65853157 original size:34 final size:33
Alignment explanation
Indices: 65853109--65853198 Score: 94
Period size: 33 Copynumber: 2.7 Consensus size: 33
65853099 GTTTCAGTTA
* *
65853109 GGGCCTTAG-CCATTTTAGAATCAGAAACAGTG
1 GGGCCTAAGCCCATTTCAGAATCAGAAACAGTG
* * *
65853141 TGGGCCTGAGCCCATTTCAGTAAT-AGTATCAGTG
1 -GGGCCTAAGCCCATTTCAG-AATCAGAAACAGTG
*
65853175 GGGCCTAAGCCCATTACAGAATCA
1 GGGCCTAAGCCCATTTCAGAATCA
65853199 ATACAGTATG
Statistics
Matches: 48, Mismatches: 6, Indels: 6
0.80 0.10 0.10
Matches are distributed among these distances:
32 3 0.06
33 26 0.54
34 16 0.33
35 3 0.06
ACGTcount: A:0.29, C:0.22, G:0.24, T:0.24
Consensus pattern (33 bp):
GGGCCTAAGCCCATTTCAGAATCAGAAACAGTG
Found at i:65855600 original size:29 final size:28
Alignment explanation
Indices: 65855563--65855618 Score: 85
Period size: 29 Copynumber: 2.0 Consensus size: 28
65855553 TGCGAGTTAT
*
65855563 ACTGATTTGGCTTCGGGCCATGCATATCG
1 ACTGATTTGGCTTCGAGCCATG-ATATCG
*
65855592 ACTGGTTTGGCTTCGAGCCATGATATC
1 ACTGATTTGGCTTCGAGCCATGATATC
65855619 AGTATTTTGG
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
28 5 0.20
29 20 0.80
ACGTcount: A:0.18, C:0.23, G:0.27, T:0.32
Consensus pattern (28 bp):
ACTGATTTGGCTTCGAGCCATGATATCG
Found at i:65857422 original size:46 final size:46
Alignment explanation
Indices: 65857372--65857547 Score: 216
Period size: 46 Copynumber: 3.8 Consensus size: 46
65857362 TGGTTGAGCA
65857372 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
65857418 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
65857463 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
65857511 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
65857548 GCGGGTTACA
Statistics
Matches: 111, Mismatches: 10, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 3 0.03
46 63 0.57
47 29 0.26
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.20, C:0.21, G:0.30, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:65857528 original size:93 final size:93
Alignment explanation
Indices: 65857369--65857540 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
65857359 GGATGGTTGA
* *
65857369 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
65857434 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
*
65857462 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
65857527 TGAGTCCGAGTTCG
66 TGAGTCCGAGTTCG
65857541 CTTATGGGCG
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:0.21, C:0.22, G:0.30, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:65861559 original size:27 final size:27
Alignment explanation
Indices: 65861528--65861581 Score: 108
Period size: 27 Copynumber: 2.0 Consensus size: 27
65861518 ATGGCTTGTG
65861528 TATTTTGAATGTGGCATGTATGGCAAA
1 TATTTTGAATGTGGCATGTATGGCAAA
65861555 TATTTTGAATGTGGCATGTATGGCAAA
1 TATTTTGAATGTGGCATGTATGGCAAA
65861582 ATACTCACTT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.30, C:0.07, G:0.26, T:0.37
Consensus pattern (27 bp):
TATTTTGAATGTGGCATGTATGGCAAA
Found at i:65863403 original size:27 final size:27
Alignment explanation
Indices: 65863345--65863452 Score: 130
Period size: 27 Copynumber: 4.0 Consensus size: 27
65863335 TGGCTGCCAA
* *
65863345 AACAGATAA-TGTGACAGAGTCACCAG
1 AACAGATAATTGTGGCAGAGCCACCAG
*
65863371 ATACAGATAATCGTGGCAGAGCCACCAG
1 A-ACAGATAATTGTGGCAGAGCCACCAG
65863399 AACAGA-AATATGTGGCAGAGCCACCAG
1 AACAGATAAT-TGTGGCAGAGCCACCAG
** *
65863426 ATTAGATAATTGTGGCATAGCCACCAG
1 AACAGATAATTGTGGCAGAGCCACCAG
65863453 GACGCTTCCT
Statistics
Matches: 71, Mismatches: 7, Indels: 7
0.84 0.08 0.08
Matches are distributed among these distances:
26 4 0.06
27 49 0.69
28 18 0.25
ACGTcount: A:0.38, C:0.21, G:0.24, T:0.17
Consensus pattern (27 bp):
AACAGATAATTGTGGCAGAGCCACCAG
Found at i:65863441 original size:54 final size:54
Alignment explanation
Indices: 65863345--65863452 Score: 146
Period size: 54 Copynumber: 2.0 Consensus size: 54
65863335 TGGCTGCCAA
* *
65863345 AACAGATAATGTGACAGAGTCACCAGATACAGATAATCGTGGCAGAGCCACCAG
1 AACAGAAAATGTGACAGAGCCACCAGATACAGATAATCGTGGCAGAGCCACCAG
* * * *
65863399 AACAGAAATATGTGGCAGAGCCACCAGAT-TAGATAATTGTGGCATAGCCACCAG
1 AACAGAAA-ATGTGACAGAGCCACCAGATACAGATAATCGTGGCAGAGCCACCAG
65863453 GACGCTTCCT
Statistics
Matches: 47, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
54 29 0.62
55 18 0.38
ACGTcount: A:0.38, C:0.21, G:0.24, T:0.17
Consensus pattern (54 bp):
AACAGAAAATGTGACAGAGCCACCAGATACAGATAATCGTGGCAGAGCCACCAG
Found at i:65864897 original size:24 final size:24
Alignment explanation
Indices: 65864870--65864940 Score: 115
Period size: 24 Copynumber: 3.0 Consensus size: 24
65864860 CTAGATTTCC
** *
65864870 TCCCTTATCTGCTCCTAAATCGTA
1 TCCCTTATCAACTCCTAAATCCTA
65864894 TCCCTTATCAACTCCTAAATCCTA
1 TCCCTTATCAACTCCTAAATCCTA
65864918 TCCCTTATCAACTCCTAAATCCT
1 TCCCTTATCAACTCCTAAATCCT
65864941 CTCCTGACAG
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
24 44 1.00
ACGTcount: A:0.25, C:0.37, G:0.03, T:0.35
Consensus pattern (24 bp):
TCCCTTATCAACTCCTAAATCCTA
Found at i:65869205 original size:18 final size:18
Alignment explanation
Indices: 65869175--65869209 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
65869165 GGTTCTGCCT
65869175 CTCAGTATGCTTTACCTC
1 CTCAGTATGCTTTACCTC
65869193 CTCAGCTAT-CTTTACCT
1 CTCAG-TATGCTTTACCT
65869210 TCTCCACCAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 13 0.81
19 3 0.19
ACGTcount: A:0.17, C:0.34, G:0.09, T:0.40
Consensus pattern (18 bp):
CTCAGTATGCTTTACCTC
Found at i:65871475 original size:30 final size:30
Alignment explanation
Indices: 65871439--65871569 Score: 171
Period size: 30 Copynumber: 4.5 Consensus size: 30
65871429 GACAAGATTG
* * * * *
65871439 GCACTAAGTGTGCGGGTTTAAAATTGTACA
1 GCACTAAGTGTGCGAGCTGAAAATTATATA
*
65871469 GCACTAAGTGTGCGAGTTTG---ATTATATA
1 GCACTAAGTGTGCGAG-CTGAAAATTATATA
65871497 GCACTAAGTGTGCGAGCTGAAAATTATATA
1 GCACTAAGTGTGCGAGCTGAAAATTATATA
65871527 GCACTAAGTGTGCGAGCTGAAAA-TATATA
1 GCACTAAGTGTGCGAGCTGAAAATTATATA
65871556 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
65871570 GATTCACTAT
Statistics
Matches: 92, Mismatches: 5, Indels: 9
0.87 0.05 0.08
Matches are distributed among these distances:
27 2 0.02
28 22 0.24
29 20 0.22
30 46 0.50
31 2 0.02
ACGTcount: A:0.32, C:0.14, G:0.26, T:0.28
Consensus pattern (30 bp):
GCACTAAGTGTGCGAGCTGAAAATTATATA
Found at i:65871530 original size:58 final size:58
Alignment explanation
Indices: 65871439--65871569 Score: 174
Period size: 58 Copynumber: 2.2 Consensus size: 58
65871429 GACAAGATTG
* * * * * *
65871439 GCACTAAGTGTGCGGGTTTAAAATTGTACAGCACTAAGTGTGCGAGTTTG-ATTATATA
1 GCACTAAGTGTGCGAGCTGAAAATTATACAGCACTAAGTGTGCGAG-CTGAAATATATA
*
65871497 GCACTAAGTGTGCGAGCTGAAAATTATATAGCACTAAGTGTGCGAGCTGAAAATATATA
1 GCACTAAGTGTGCGAGCTGAAAATTATACAGCACTAAGTGTGCGAGCTG-AAATATATA
65871556 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
65871570 GATTCACTAT
Statistics
Matches: 64, Mismatches: 7, Indels: 3
0.86 0.09 0.04
Matches are distributed among these distances:
57 2 0.03
58 41 0.64
59 21 0.33
ACGTcount: A:0.32, C:0.14, G:0.26, T:0.28
Consensus pattern (58 bp):
GCACTAAGTGTGCGAGCTGAAAATTATACAGCACTAAGTGTGCGAGCTGAAATATATA
Found at i:65879436 original size:30 final size:30
Alignment explanation
Indices: 65879400--65879530 Score: 171
Period size: 30 Copynumber: 4.5 Consensus size: 30
65879390 GACAAGATTG
* * * * *
65879400 GCACTAAGTGTGCGGGTTTAAAATTGTACA
1 GCACTAAGTGTGCGAGCTGAAAATTATATA
*
65879430 GCACTAAGTGTGCGAGTTTG---ATTATATA
1 GCACTAAGTGTGCGAG-CTGAAAATTATATA
65879458 GCACTAAGTGTGCGAGCTGAAAATTATATA
1 GCACTAAGTGTGCGAGCTGAAAATTATATA
65879488 GCACTAAGTGTGCGAGCTGAAAA-TATATA
1 GCACTAAGTGTGCGAGCTGAAAATTATATA
65879517 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
65879531 GATTCACTAT
Statistics
Matches: 92, Mismatches: 5, Indels: 9
0.87 0.05 0.08
Matches are distributed among these distances:
27 2 0.02
28 22 0.24
29 20 0.22
30 46 0.50
31 2 0.02
ACGTcount: A:0.32, C:0.14, G:0.26, T:0.28
Consensus pattern (30 bp):
GCACTAAGTGTGCGAGCTGAAAATTATATA
Found at i:65879491 original size:58 final size:58
Alignment explanation
Indices: 65879400--65879530 Score: 174
Period size: 58 Copynumber: 2.2 Consensus size: 58
65879390 GACAAGATTG
* * * * * *
65879400 GCACTAAGTGTGCGGGTTTAAAATTGTACAGCACTAAGTGTGCGAGTTTG-ATTATATA
1 GCACTAAGTGTGCGAGCTGAAAATTATACAGCACTAAGTGTGCGAG-CTGAAATATATA
*
65879458 GCACTAAGTGTGCGAGCTGAAAATTATATAGCACTAAGTGTGCGAGCTGAAAATATATA
1 GCACTAAGTGTGCGAGCTGAAAATTATACAGCACTAAGTGTGCGAGCTG-AAATATATA
65879517 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
65879531 GATTCACTAT
Statistics
Matches: 64, Mismatches: 7, Indels: 3
0.86 0.09 0.04
Matches are distributed among these distances:
57 2 0.03
58 41 0.64
59 21 0.33
ACGTcount: A:0.32, C:0.14, G:0.26, T:0.28
Consensus pattern (58 bp):
GCACTAAGTGTGCGAGCTGAAAATTATACAGCACTAAGTGTGCGAGCTGAAATATATA
Found at i:65882395 original size:27 final size:26
Alignment explanation
Indices: 65882333--65882411 Score: 86
Period size: 27 Copynumber: 2.9 Consensus size: 26
65882323 AGCATGGCTG
* * *
65882333 CCAAAATAGATAATGTGACAGAGTCA
1 CCAAAACAGATAATGTGGCAGAGCCA
*
65882359 CCAGATACAGATAATCGTGGCAGAGCCA
1 CCA-AAACAGATAAT-GTGGCAGAGCCA
*
65882387 CCAAAACAGAAATATGTGGCAGAGC
1 CCAAAACAGATA-ATGTGGCAGAGC
65882412 TATAATATCC
Statistics
Matches: 44, Mismatches: 6, Indels: 5
0.80 0.11 0.09
Matches are distributed among these distances:
26 3 0.07
27 26 0.59
28 15 0.34
ACGTcount: A:0.42, C:0.20, G:0.23, T:0.15
Consensus pattern (26 bp):
CCAAAACAGATAATGTGGCAGAGCCA
Found at i:65883739 original size:46 final size:46
Alignment explanation
Indices: 65883684--65883856 Score: 176
Period size: 46 Copynumber: 3.7 Consensus size: 46
65883674 ACAAGTGACA
65883684 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * * * * *
65883730 TCCGAACTCGTTCAGTTGAGTCTGAGTTC-GTGA--AATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
65883775 CATCCGAACTCGTTGAGTTGAGTCCAAGTTCACTTATGGATGCGAATG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* *
65883823 -CATGAGCTCGTTGAGTTGAGTCCGAGTTCACTTA
1 TC-CGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
65883857 GGGGCGGGTT
Statistics
Matches: 101, Mismatches: 16, Indels: 20
0.74 0.12 0.15
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
45 4 0.04
46 56 0.55
47 26 0.26
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.23, C:0.20, G:0.27, T:0.31
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:65883841 original size:93 final size:93
Alignment explanation
Indices: 65883682--65883851 Score: 279
Period size: 93 Copynumber: 1.8 Consensus size: 93
65883672 ATACAAGTGA
*
65883682 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTCAGTT
1 CATCCGAACTCGTTGAGTTGAGTCCAAGTTCACTTATGGATGCGAATGTCCGAACTCGTTCAGTT
*
65883747 GAGTCTGAGTTCGTGAAATGTAACTAGG
66 GAGTCCGAGTTCGTGAAATGTAACTAGG
* * *
65883775 CATCCGAACTCGTTGAGTTGAGTCCAAGTTCACTTATGGATGCGAATG-CATGAGCTCGTTGAGT
1 CATCCGAACTCGTTGAGTTGAGTCCAAGTTCACTTATGGATGCGAATGTC-CGAACTCGTTCAGT
65883839 TGAGTCCGAGTTC
65 TGAGTCCGAGTTC
65883852 ACTTAGGGGC
Statistics
Matches: 71, Mismatches: 5, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
92 1 0.01
93 70 0.99
ACGTcount: A:0.23, C:0.20, G:0.27, T:0.30
Consensus pattern (93 bp):
CATCCGAACTCGTTGAGTTGAGTCCAAGTTCACTTATGGATGCGAATGTCCGAACTCGTTCAGTT
GAGTCCGAGTTCGTGAAATGTAACTAGG
Found at i:65889284 original size:46 final size:46
Alignment explanation
Indices: 65889231--65889448 Score: 246
Period size: 46 Copynumber: 4.7 Consensus size: 46
65889221 GGTTGAGCAT
* *
65889231 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGT
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGC
* * * * *
65889277 CCAAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--AATG-TAACTAGGC
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAC---GC
* *
65889322 ATCCGAACTCGTTGAGTTGAGTCTGAGTTCACTTATAGATGCGAACGC
1 --CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGC
* * *
65889370 CCGAGCTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCGAACAC
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGC
*
65889416 CCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTA
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
65889449 AGGGCGGGTT
Statistics
Matches: 146, Mismatches: 17, Indels: 18
0.81 0.09 0.10
Matches are distributed among these distances:
42 2 0.01
43 3 0.02
45 3 0.02
46 102 0.70
47 26 0.18
48 4 0.03
50 3 0.02
51 3 0.02
ACGTcount: A:0.23, C:0.21, G:0.27, T:0.29
Consensus pattern (46 bp):
CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGC
Found at i:65889386 original size:93 final size:93
Alignment explanation
Indices: 65889227--65889397 Score: 279
Period size: 93 Copynumber: 1.8 Consensus size: 93
65889217 GGATGGTTGA
* * *
65889227 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCAAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATAGATGCGAACGCCCAAACTCGTTGAGT
65889292 TGAGTCCGAGTTCGTGAAATGTAACTAG
66 TGAGTCCGAGTTCGTGAAATGTAACTAG
* * *
65889320 GCATCCGAACTCGTTGAGTTGAGTCTGAGTTCACTTATAGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATAGATGCGAACGCCCAAACTCGTTGAGT
*
65889385 TGAGTCTGAGTTC
66 TGAGTCCGAGTTC
65889398 ACTTATGGAT
Statistics
Matches: 71, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
93 71 1.00
ACGTcount: A:0.23, C:0.20, G:0.27, T:0.29
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATAGATGCGAACGCCCAAACTCGTTGAGT
TGAGTCCGAGTTCGTGAAATGTAACTAG
Found at i:65889529 original size:13 final size:13
Alignment explanation
Indices: 65889511--65889542 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
65889501 GCAAAATAGG
*
65889511 TTTTTAGCGGTGT
1 TTTTTAGCGGCGT
65889524 TTTTTAGCGGCGT
1 TTTTTAGCGGCGT
65889537 TTTTTA
1 TTTTTA
65889543 AAAAGAGCCG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.09, C:0.09, G:0.25, T:0.56
Consensus pattern (13 bp):
TTTTTAGCGGCGT
Found at i:65889712 original size:40 final size:39
Alignment explanation
Indices: 65889641--65889747 Score: 153
Period size: 40 Copynumber: 2.7 Consensus size: 39
65889631 CTTTTAGTGG
* *
65889641 CTTTAGCGGCGCTTCTTAAAA-CGCCGCTATAGGTACAC
1 CTTTAGCGGCGTTTTTTAAAAGCGCCGCTATAGGTACAC
65889679 CTTTAGCGGCGTTTTTTAAGAAGCGCCGCTATAGGTACAC
1 CTTTAGCGGCGTTTTTTAA-AAGCGCCGCTATAGGTACAC
* *
65889719 CTATAGCGGCGTTTTTCAAAAAGCGCCGC
1 CTTTAGCGGCGTTTTT-TAAAAGCGCCGC
65889748 AAAAGAGTTT
Statistics
Matches: 62, Mismatches: 4, Indels: 4
0.89 0.06 0.06
Matches are distributed among these distances:
38 17 0.27
39 2 0.03
40 41 0.66
41 2 0.03
ACGTcount: A:0.23, C:0.26, G:0.23, T:0.27
Consensus pattern (39 bp):
CTTTAGCGGCGTTTTTTAAAAGCGCCGCTATAGGTACAC
Found at i:65889806 original size:154 final size:154
Alignment explanation
Indices: 65889526--65889979 Score: 740
Period size: 154 Copynumber: 3.0 Consensus size: 154
65889516 AGCGGTGTTT
*
65889526 TTTAGCGGCGTTTTTTAAAAAGAGCCGCTATAGGTACACCTATAGCGGCGTTTTTCAAAAACCGC
1 TTTAGCGGCGTTTTTTAAAAAGCGCCGCTATAGGTACACCTATAGCGGCGTTTTTCAAAAA-CGC
* *
65889591 CGCAAAAGAGTTTTACAAAACAATGTCGTTTTGTATTGACCTTTTAGTGGCTTTAGCGGCGCTTC
65 CGCAAAAGAGTTTTACAAAACAACGTCGTTTTGTATTGACCTTTTAGTGGCTTTAGCGGCGCTTT
*
65889656 TT-AAAACGCCGCTATAGGTACACC
130 TTAAAAACACCGCTATAGGTACACC
*
65889680 TTTAGCGGCGTTTTTTAAGAAGCGCCGCTATAGGTACACCTATAGCGGCGTTTTTCAAAAAGCGC
1 TTTAGCGGCGTTTTTTAAAAAGCGCCGCTATAGGTACACCTATAGCGGCGTTTTTCAAAAA-CGC
65889745 CGCAAAAGAGTTTTACAAAACAACGTCGTTTTGTATTGACCTTTTAGTGGCTTTAGCGGCGCTTT
65 CGCAAAAGAGTTTTACAAAACAACGTCGTTTTGTATTGACCTTTTAGTGGCTTTAGCGGCGCTTT
65889810 TTAAAAACACCGCTATAGGTACACC
130 TTAAAAACACCGCTATAGGTACACC
* * * *
65889835 TTTAGCGGCGTTTTTTAAAAAGCACCGCTATATGTACACCTATAGTGGCATTTTTCAAAAA----
1 TTTAGCGGCGTTTTTTAAAAAGCGCCGCTATAGGTACACCTATAGCGGCGTTTTTCAAAAACGCC
* * *
65889896 GC-AAAGAGTTTTACAAAACGACATCGTTTTATATTGACCTTTTAGTGGCTTTAGCGGCGCTTTT
66 GCAAAAGAGTTTTACAAAACAACGTCGTTTTGTATTGACCTTTTAGTGGCTTTAGCGGCGCTTTT
65889960 TAAAAACACCGCTATAGGTA
131 TAAAAACACCGCTATAGGTA
65889980 TTGTAACACC
Statistics
Matches: 285, Mismatches: 14, Indels: 7
0.93 0.05 0.02
Matches are distributed among these distances:
149 79 0.28
150 2 0.01
154 127 0.45
155 77 0.27
ACGTcount: A:0.28, C:0.20, G:0.20, T:0.31
Consensus pattern (154 bp):
TTTAGCGGCGTTTTTTAAAAAGCGCCGCTATAGGTACACCTATAGCGGCGTTTTTCAAAAACGCC
GCAAAAGAGTTTTACAAAACAACGTCGTTTTGTATTGACCTTTTAGTGGCTTTAGCGGCGCTTTT
TAAAAACACCGCTATAGGTACACC
Found at i:65889872 original size:40 final size:40
Alignment explanation
Indices: 65889795--65889898 Score: 147
Period size: 40 Copynumber: 2.6 Consensus size: 40
65889785 CTTTTAGTGG
*
65889795 CTTTAGCGGCGCTTTTTAAAAA-CACCGCTATAGGTACAC
1 CTTTAGCGGCGTTTTTTAAAAAGCACCGCTATAGGTACAC
*
65889834 CTTTAGCGGCGTTTTTTAAAAAGCACCGCTATATGTACAC
1 CTTTAGCGGCGTTTTTTAAAAAGCACCGCTATAGGTACAC
* * * *
65889874 CTATAGTGGCATTTTTCAAAAAGCA
1 CTTTAGCGGCGTTTTTTAAAAAGCA
65889899 AAGAGTTTTA
Statistics
Matches: 58, Mismatches: 6, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
39 21 0.36
40 37 0.64
ACGTcount: A:0.30, C:0.22, G:0.17, T:0.31
Consensus pattern (40 bp):
CTTTAGCGGCGTTTTTTAAAAAGCACCGCTATAGGTACAC
Found at i:65890579 original size:6 final size:6
Alignment explanation
Indices: 65890568--65890723 Score: 146
Period size: 6 Copynumber: 25.8 Consensus size: 6
65890558 GAACCAAATG
*
65890568 AGAATC AGAATC AGAATC AGTAA-C AGAATC AGAATC AGAATC A-ATATT
1 AGAATC AGAATC AGAATC AG-AATC AGAATC AGAATC AGAATC AGA-ATC
* *
65890616 AGTAA-C AGAATC AGAATC AGAATC AGAATT AG-GTGAC AGAATC AGAATC
1 AG-AATC AGAATC AGAATC AGAATC AGAATC AGAAT--C AGAATC AGAATC
* *
65890665 AGAATC AGTAA-C AGAAT- AGAATC AGAATC AGAATT ACGTGA-C AGAATC
1 AGAATC AG-AATC AGAATC AGAATC AGAATC AGAATC A-G-AATC AGAATC
65890713 AGAATC AGAAT
1 AGAATC AGAAT
65890724 GTGAATGCAA
Statistics
Matches: 125, Mismatches: 10, Indels: 30
0.76 0.06 0.18
Matches are distributed among these distances:
5 14 0.11
6 99 0.79
7 9 0.07
8 3 0.02
ACGTcount: A:0.49, C:0.14, G:0.18, T:0.19
Consensus pattern (6 bp):
AGAATC
Found at i:65890629 original size:54 final size:53
Alignment explanation
Indices: 65890568--65890723 Score: 177
Period size: 54 Copynumber: 2.8 Consensus size: 53
65890558 GAACCAAATG
65890568 AGAATCAGAATCAGAATCAGTAACAGAATCAGAATCAGAATCAATATTAGTAACAGAATC
1 AGAATCAGAATCAGAATCAGTAACAGAATCAGAATCAGAATC---A--A-TAACAGAA-C
* * * *
65890628 AGAATCAGAATCAGAATTAGGTGACAGAATCAGAATCAGAATCAGTAACAGAAT
1 AGAATCAGAATCAGAATCA-GTAACAGAATCAGAATCAGAATCAATAACAGAAC
* *
65890682 AGAATCAGAATCAGAATTACGTGACAGAATCAGAATCAGAAT
1 AGAATCAGAATCAGAATCA-GTAACAGAATCAGAATCAGAAT
65890724 GTGAATGCAA
Statistics
Matches: 90, Mismatches: 5, Indels: 8
0.87 0.05 0.08
Matches are distributed among these distances:
54 41 0.46
55 8 0.09
58 1 0.01
60 18 0.20
61 22 0.24
ACGTcount: A:0.49, C:0.14, G:0.18, T:0.19
Consensus pattern (53 bp):
AGAATCAGAATCAGAATCAGTAACAGAATCAGAATCAGAATCAATAACAGAAC
Found at i:65890878 original size:27 final size:26
Alignment explanation
Indices: 65890841--65890906 Score: 87
Period size: 27 Copynumber: 2.5 Consensus size: 26
65890831 AGCATGGCTG
*
65890841 CCAGAACAGATATCGTGACAGAGTCA
1 CCAGAACAGATATCGTGACAGAGCCA
* *
65890867 CCAGATACAGATATTGTGGCAGAGCCA
1 CCAGA-ACAGATATCGTGACAGAGCCA
65890894 CCAGAATCAGATA
1 CCAGAA-CAGATA
65890907 ATGTGGCAAA
Statistics
Matches: 35, Mismatches: 3, Indels: 3
0.85 0.07 0.07
Matches are distributed among these distances:
26 6 0.17
27 29 0.83
ACGTcount: A:0.38, C:0.23, G:0.23, T:0.17
Consensus pattern (26 bp):
CCAGAACAGATATCGTGACAGAGCCA
Found at i:65890911 original size:27 final size:27
Alignment explanation
Indices: 65890841--65890914 Score: 82
Period size: 27 Copynumber: 2.8 Consensus size: 27
65890831 AGCATGGCTG
* *
65890841 CCAGAA-CAGAT-ATCGTGACAGAGTCA
1 CCAGAATCAGATAAT-GTGGCAGAGCCA
*
65890867 CCAG-ATACAGATATTGTGGCAGAGCCA
1 CCAGAAT-CAGATAATGTGGCAGAGCCA
65890894 CCAGAATCAGATAATGTGGCA
1 CCAGAATCAGATAATGTGGCA
65890915 AACCCACCTA
Statistics
Matches: 40, Mismatches: 4, Indels: 7
0.78 0.08 0.14
Matches are distributed among these distances:
25 1 0.03
26 4 0.10
27 32 0.80
28 3 0.08
ACGTcount: A:0.36, C:0.22, G:0.24, T:0.18
Consensus pattern (27 bp):
CCAGAATCAGATAATGTGGCAGAGCCA
Found at i:65890921 original size:27 final size:27
Alignment explanation
Indices: 65890865--65890922 Score: 73
Period size: 27 Copynumber: 2.1 Consensus size: 27
65890855 GTGACAGAGT
* * *
65890865 CACCAGATACAGATATTGTGGCAGAGC
1 CACCAGATACAGATAATGTGGCAAACC
65890892 CACCAGA-ATCAGATAATGTGGCAAACC
1 CACCAGATA-CAGATAATGTGGCAAACC
65890919 CACC
1 CACC
65890923 TAACAGAATA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
26 1 0.04
27 26 0.96
ACGTcount: A:0.36, C:0.28, G:0.21, T:0.16
Consensus pattern (27 bp):
CACCAGATACAGATAATGTGGCAAACC
Found at i:65891126 original size:22 final size:22
Alignment explanation
Indices: 65891078--65891136 Score: 64
Period size: 22 Copynumber: 2.7 Consensus size: 22
65891068 GTAAATACGT
*
65891078 TTGGCACGAAGCCATAGTCAAG
1 TTGGCACAAAGCCATAGTCAAG
* * * *
65891100 ATGGCACAAAGCCATATTTAGG
1 TTGGCACAAAGCCATAGTCAAG
*
65891122 TTGGCACAGAGCCAT
1 TTGGCACAAAGCCAT
65891137 TAATAACGGG
Statistics
Matches: 30, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
22 30 1.00
ACGTcount: A:0.32, C:0.22, G:0.25, T:0.20
Consensus pattern (22 bp):
TTGGCACAAAGCCATAGTCAAG
Found at i:65891302 original size:27 final size:26
Alignment explanation
Indices: 65891223--65891305 Score: 112
Period size: 27 Copynumber: 3.1 Consensus size: 26
65891213 TCGATCGGTC
* * *
65891223 AACAGATATTGTGACAGAGTCACCAA
1 AACAGATATTGTGGCAGAGCCACCAG
65891249 ATACAGATATTGTGGCAGAGCCACCAG
1 A-ACAGATATTGTGGCAGAGCCACCAG
*
65891276 AACAGATATTTGTGGCATAGCCACCAG
1 AACAGATA-TTGTGGCAGAGCCACCAG
65891303 AAC
1 AAC
65891306 GCTTCCTCCG
Statistics
Matches: 51, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
26 8 0.16
27 43 0.84
ACGTcount: A:0.37, C:0.22, G:0.22, T:0.19
Consensus pattern (26 bp):
AACAGATATTGTGGCAGAGCCACCAG
Found at i:65891534 original size:27 final size:27
Alignment explanation
Indices: 65891504--65891698 Score: 239
Period size: 27 Copynumber: 7.3 Consensus size: 27
65891494 GGGGCAAAAT
* * *
65891504 GGTAATTTTACCCCACAAGGGTATCTC
1 GGTAATTCTACCCTACAAGGGTATTTC
*
65891531 GGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
*
65891558 GGTATTTCTACCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* * *
65891585 GATAATTCTACCCTACAGGGGTATTTT
1 GGTAATTCTACCCTACAAGGGTATTTC
* *
65891612 GGTAATTCTATCCTATAAGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* * *
65891639 AGTAATTCTACCCTATAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* *
65891666 -GAAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
*
65891692 AGTAATT
1 GGTAATT
65891699 TCACAATCAA
Statistics
Matches: 146, Mismatches: 21, Indels: 2
0.86 0.12 0.01
Matches are distributed among these distances:
26 24 0.16
27 122 0.84
ACGTcount: A:0.26, C:0.20, G:0.19, T:0.35
Consensus pattern (27 bp):
GGTAATTCTACCCTACAAGGGTATTTC
Found at i:65891733 original size:27 final size:27
Alignment explanation
Indices: 65891703--65892026 Score: 473
Period size: 27 Copynumber: 12.2 Consensus size: 27
65891693 GTAATTTCAC
*
65891703 AATCAAGGGTAAAACGGTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
* *
65891730 AATCGAGGGTAAAACGATAATTTTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
* *
65891757 AA-CTGAGGGTAAACCAGTAATTCTGTA
1 AATC-GAGGGTAAAACGGTAATTCTGTA
* * **
65891784 AATCAAGGGTAAAAC-GTAATTTTACA
1 AATCGAGGGTAAAACGGTAATTCTGTA
65891810 AATCGAGGGTAAAACGGTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
*
65891837 AATCGAGGGTAAAACAGTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
65891864 AA-CTGAGGGTAAAACGGTAATTCTGTA
1 AATC-GAGGGTAAAACGGTAATTCTGTA
65891891 AATCGAGGGTAAAACGGTAATT-T-TA
1 AATCGAGGGTAAAACGGTAATTCTGTA
65891916 AATCGAGGGTAAAACGGTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
*
65891943 AATCGAGGGTAAAAC-GTAATTCTATA
1 AATCGAGGGTAAAACGGTAATTCTGTA
*
65891969 AAT-GAGGGTAAAACGGTAATTCTATA
1 AATCGAGGGTAAAACGGTAATTCTGTA
65891995 AATCGAGGGTAAAACGGTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
65892022 AATCG
1 AATCG
65892027 GAGTACTTTG
Statistics
Matches: 268, Mismatches: 20, Indels: 18
0.88 0.07 0.06
Matches are distributed among these distances:
25 35 0.13
26 53 0.20
27 178 0.66
28 2 0.01
ACGTcount: A:0.40, C:0.11, G:0.23, T:0.27
Consensus pattern (27 bp):
AATCGAGGGTAAAACGGTAATTCTGTA
Found at i:65891779 original size:107 final size:104
Alignment explanation
Indices: 65891693--65891992 Score: 398
Period size: 107 Copynumber: 2.9 Consensus size: 104
65891683 GGGTATTTCA
* * *
65891693 GTAATTTCACAATCAAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAACGATAATTTTGTAA
1 GTAATTTTACAATCGAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAACGATAATTCTGTAA
* * *
65891758 ACTGAGGGTAAACCAGTAATTCTGTAA-ATCAAGGGTAAAAC
66 ACTGAGGGTAAAACGGTAATTC--TAATA-CAGGGGTAAAAC
65891799 GTAATTTTACAAATCGAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAAC-AGTAATTCTGT
1 GTAATTTTAC-AATCGAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAACGA-TAATTCTGT
65891863 AAACTGAGGGTAAAACGGTAATTCTGTAA-ATC-GAGGGTAAAAC
64 AAACTGAGGGTAAAACGGTAATTC--TAATA-CAG-GGGTAAAAC
*
65891906 GGTAATTTTA-AATCGAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAACG-TAATTCTATA
1 -GTAATTTTACAATCGAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAACGATAATTCTGTA
65891969 AA-TGAGGGTAAAACGGTAATTCTA
65 AACTGAGGGTAAAACGGTAATTCTA
65891993 TAAATCGAGG
Statistics
Matches: 182, Mismatches: 7, Indels: 14
0.90 0.03 0.07
Matches are distributed among these distances:
102 2 0.01
104 20 0.11
105 11 0.06
106 52 0.29
107 88 0.48
108 9 0.05
ACGTcount: A:0.40, C:0.11, G:0.22, T:0.27
Consensus pattern (104 bp):
GTAATTTTACAATCGAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAACGATAATTCTGTAA
ACTGAGGGTAAAACGGTAATTCTAATACAGGGGTAAAAC
Found at i:65892042 original size:79 final size:81
Alignment explanation
Indices: 65891703--65892025 Score: 446
Period size: 79 Copynumber: 4.0 Consensus size: 81
65891693 GTAATTTCAC
* * *
65891703 AATCA-AGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAACGATAATTTTGTAAA-CTGAGGG
1 AATCAGAGGGTAAAA-GGTAATTCTATAAATCGAGGGTAAAACGGTAATTCTGTAAATC-GAGGG
*
65891766 TAAACCAGTAATTCTGTA
64 TAAAACAGTAATTCTGTA
* * *
65891784 AATCA-AGGGTAAAACGTAATTTTACAAATCGAGGGTAAAACGGTAATTCTGTAAATCGAGGGTA
1 AATCAGAGGGTAAAAGGTAATTCTATAAATCGAGGGTAAAACGGTAATTCTGTAAATCGAGGGTA
65891848 AAACAGTAATTCTGTA
66 AAACAGTAATTCTGTA
* *
65891864 AA-CTGAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAACGGTAATT-T-TAAATCGAGGGT
1 AATCAGAGGGTAAAA-GGTAATTCTATAAATCGAGGGTAAAACGGTAATTCTGTAAATCGAGGGT
*
65891926 AAAACGGTAATTCTGTA
65 AAAACAGTAATTCTGTA
* *
65891943 AATC-GAGGGTAAAACGTAATTCTATAAAT-GAGGGTAAAACGGTAATTCTATAAATCGAGGGTA
1 AATCAGAGGGTAAAAGGTAATTCTATAAATCGAGGGTAAAACGGTAATTCTGTAAATCGAGGGTA
*
65892006 AAACGGTAATTCTGTA
66 AAACAGTAATTCTGTA
65892022 AATC
1 AATC
65892026 GGAGTACTTT
Statistics
Matches: 221, Mismatches: 15, Indels: 14
0.88 0.06 0.06
Matches are distributed among these distances:
77 18 0.08
78 14 0.06
79 74 0.33
80 70 0.32
81 45 0.20
ACGTcount: A:0.40, C:0.11, G:0.23, T:0.27
Consensus pattern (81 bp):
AATCAGAGGGTAAAAGGTAATTCTATAAATCGAGGGTAAAACGGTAATTCTGTAAATCGAGGGTA
AAACAGTAATTCTGTA
Found at i:65895739 original size:6 final size:6
Alignment explanation
Indices: 65895724--65895880 Score: 103
Period size: 6 Copynumber: 25.8 Consensus size: 6
65895714 AACCAAAATG
* * *
65895724 AGAATC AGAATT AGAATC AGTAA-C AGAATC AAAATC AGAATC A-ATATT
1 AGAATC AGAATC AGAATC AG-AATC AGAATC AGAATC AGAATC AGA-ATC
* * *
65895772 AGTAA-C AGAATC AGAATC AGAATC AGAATT AG-GTGAC AGAATC AAAATC
1 AG-AATC AGAATC AGAATC AGAATC AGAATC AGAAT--C AGAATC AGAATC
* * *
65895821 AGAAAT- AGTAA-C AGAATC AAAATC AGAATC AGAATT ACGTGA-C AGAATC
1 AG-AATC AG-AATC AGAATC AGAATC AGAATC AGAATC A-G-AATC AGAATC
65895870 AGAATC AGAAT
1 AGAATC AGAAT
65895881 GTGAATGCAA
Statistics
Matches: 117, Mismatches: 19, Indels: 30
0.70 0.11 0.18
Matches are distributed among these distances:
5 9 0.08
6 95 0.81
7 10 0.09
8 3 0.03
ACGTcount: A:0.51, C:0.13, G:0.16, T:0.20
Consensus pattern (6 bp):
AGAATC
Found at i:65895834 original size:55 final size:56
Alignment explanation
Indices: 65895724--65895880 Score: 201
Period size: 55 Copynumber: 2.7 Consensus size: 56
65895714 AACCAAAATG
* * *
65895724 AGAATCAGAATTAGAATCAGTAACAGAATCAAAATCAGAATCAATATTAGTAACAGAATC
1 AGAATCAGAATCAGAATTAGTGACAGAATCAAAATCAG----AATATTAGTAACAGAATC
65895784 AGAATCAGAATCAGAATTAGGTGACAGAATCAAAATCAGAA-A-TAGTAACAGAATC
1 AGAATCAGAATCAGAATTA-GTGACAGAATCAAAATCAGAATATTAGTAACAGAATC
* *
65895839 AAAATCAGAATCAGAATTACGTGACAGAATCAGAATCAGAAT
1 AGAATCAGAATCAGAATTA-GTGACAGAATCAAAATCAGAAT
65895881 GTGAATGCAA
Statistics
Matches: 89, Mismatches: 6, Indels: 8
0.86 0.06 0.08
Matches are distributed among these distances:
55 51 0.57
56 1 0.01
57 2 0.02
60 17 0.19
61 18 0.20
ACGTcount: A:0.51, C:0.13, G:0.16, T:0.20
Consensus pattern (56 bp):
AGAATCAGAATCAGAATTAGTGACAGAATCAAAATCAGAATATTAGTAACAGAATC
Found at i:65895875 original size:25 final size:25
Alignment explanation
Indices: 65895783--65895880 Score: 99
Period size: 25 Copynumber: 3.7 Consensus size: 25
65895773 GTAACAGAAT
*
65895783 CAGAATCAGAATCAGAATTAGGTGA
1 CAGAATCAGAATCAGAATTACGTGA
* *
65895808 CAGAATCAAAATCAGAAATAGTAACAG-AA
1 CAGAATCAGAATCAG-AAT--T-AC-GTGA
*
65895837 TCAAAATCAGAATCAGAATTACGTGA
1 -CAGAATCAGAATCAGAATTACGTGA
65895863 CAGAATCAGAATCAGAAT
1 CAGAATCAGAATCAGAAT
65895881 GTGAATGCAA
Statistics
Matches: 59, Mismatches: 7, Indels: 14
0.74 0.09 0.17
Matches are distributed among these distances:
25 32 0.54
26 6 0.10
27 1 0.02
28 1 0.02
29 5 0.08
30 14 0.24
ACGTcount: A:0.50, C:0.14, G:0.17, T:0.18
Consensus pattern (25 bp):
CAGAATCAGAATCAGAATTACGTGA
Found at i:65896046 original size:27 final size:26
Alignment explanation
Indices: 65896002--65896071 Score: 86
Period size: 27 Copynumber: 2.6 Consensus size: 26
65895992 TGGCTGCCAA
* * *
65896002 AACAGATATCGTGACAGAGTCACCAG
1 AACAGATATTGTGGCAGAGCCACCAG
65896028 ATACAGATATTGTGGCAGAGCCACCAG
1 A-ACAGATATTGTGGCAGAGCCACCAG
*
65896055 AATCAGATAATGTGGCA
1 AA-CAGATATTGTGGCA
65896072 AACCCACCTA
Statistics
Matches: 38, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
26 2 0.05
27 36 0.95
ACGTcount: A:0.37, C:0.20, G:0.24, T:0.19
Consensus pattern (26 bp):
AACAGATATTGTGGCAGAGCCACCAG
Found at i:65896078 original size:27 final size:27
Alignment explanation
Indices: 65896022--65896079 Score: 73
Period size: 27 Copynumber: 2.1 Consensus size: 27
65896012 GTGACAGAGT
* * *
65896022 CACCAGATACAGATATTGTGGCAGAGC
1 CACCAGATACAGATAATGTGGCAAACC
65896049 CACCAGA-ATCAGATAATGTGGCAAACC
1 CACCAGATA-CAGATAATGTGGCAAACC
65896076 CACC
1 CACC
65896080 TAACAGAATA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
26 1 0.04
27 26 0.96
ACGTcount: A:0.36, C:0.28, G:0.21, T:0.16
Consensus pattern (27 bp):
CACCAGATACAGATAATGTGGCAAACC
Found at i:65896461 original size:27 final size:26
Alignment explanation
Indices: 65896382--65896464 Score: 112
Period size: 27 Copynumber: 3.1 Consensus size: 26
65896372 TCGATCGGTC
* * *
65896382 AACAGATATTGTGACAGAGTCACCAA
1 AACAGATATTGTGGCAGAGCCACCAG
65896408 ATACAGATATTGTGGCAGAGCCACCAG
1 A-ACAGATATTGTGGCAGAGCCACCAG
*
65896435 AACAGATATTTGTGGCATAGCCACCAG
1 AACAGATA-TTGTGGCAGAGCCACCAG
65896462 AAC
1 AAC
65896465 GCTTCCTCCG
Statistics
Matches: 51, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
26 8 0.16
27 43 0.84
ACGTcount: A:0.37, C:0.22, G:0.22, T:0.19
Consensus pattern (26 bp):
AACAGATATTGTGGCAGAGCCACCAG
Found at i:65896693 original size:27 final size:27
Alignment explanation
Indices: 65896663--65896857 Score: 205
Period size: 27 Copynumber: 7.3 Consensus size: 27
65896653 GGGGCAAAAT
* * *
65896663 GGTAATTTTACCCCACAAGGGTATCTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* *
65896690 GGTAATTCTA-CCTA-TAGCAGTATTTC
1 GGTAATTCTACCCTACAAG-GGTATTTC
*
65896716 GGTATTTCTACCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* * *
65896743 GATAATTCTACCCTACAGGGGTATTTT
1 GGTAATTCTACCCTACAAGGGTATTTC
* *
65896770 GGTAATTCTATCCTATAAGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
** * *
65896797 AATAATTCTACCCTATAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* *
65896824 GGAAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
*
65896851 AGTAATT
1 GGTAATT
65896858 TCACAATCAA
Statistics
Matches: 138, Mismatches: 27, Indels: 6
0.81 0.16 0.04
Matches are distributed among these distances:
25 2 0.01
26 18 0.13
27 116 0.84
28 2 0.01
ACGTcount: A:0.27, C:0.19, G:0.18, T:0.36
Consensus pattern (27 bp):
GGTAATTCTACCCTACAAGGGTATTTC
Found at i:65896791 original size:54 final size:54
Alignment explanation
Indices: 65896663--65896850 Score: 243
Period size: 54 Copynumber: 3.5 Consensus size: 54
65896653 GGGGCAAAAT
* * * * **
65896663 GGTAATTTTACCCCACAAGGGTATCTCGGTAATTCTA-CCTATAGCAGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTCGATAATTCTACCCTATAGGGGTATTTC
* * *
65896716 GGTATTTCTACCCTACAAGGGTATTTCGATAATTCTACCCTACAGGGGTATTTT
1 GGTAATTCTACCCTACAAGGGTATTTCGATAATTCTACCCTATAGGGGTATTTC
* * *
65896770 GGTAATTCTATCCTATAAGGGTATTTCAATAATTCTACCCTATAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTCGATAATTCTACCCTATAGGGGTATTTC
* *
65896824 GGAAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
65896851 AGTAATTTCA
Statistics
Matches: 115, Mismatches: 19, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
53 32 0.28
54 83 0.72
ACGTcount: A:0.26, C:0.20, G:0.18, T:0.36
Consensus pattern (54 bp):
GGTAATTCTACCCTACAAGGGTATTTCGATAATTCTACCCTATAGGGGTATTTC
Found at i:65896819 original size:81 final size:81
Alignment explanation
Indices: 65896665--65896857 Score: 239
Period size: 81 Copynumber: 2.4 Consensus size: 81
65896655 GGCAAAATGG
* * * * ** *
65896665 TAATTTTACCCCACAAGGGTATCTCGGTAATTCTACCTATAGCAGTATTTCGGTATTTCTACCCT
1 TAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCTATAGCAGTATTTCAATAATTCTACCCT
65896730 ACAAGGGTATTTC-GA
66 ACAAGGGTATTTCGGA
* *
65896745 TAATTCTACCCTACAGGGGTATTTTGGTAATTCTATCCTATAAG-GGTATTTCAATAATTCTACC
1 TAATTCTACCCTACAGGGGTATTTCGGTAATTCTA-CCTAT-AGCAGTATTTCAATAATTCTACC
* *
65896809 CTATAGGGGTATTTCGGA
64 CTACAAGGGTATTTCGGA
*
65896827 -AATTCTACCCTACAGGGGTATTTCAGTAATT
1 TAATTCTACCCTACAGGGGTATTTCGGTAATT
65896858 TCACAATCAA
Statistics
Matches: 97, Mismatches: 13, Indels: 5
0.84 0.11 0.04
Matches are distributed among these distances:
80 30 0.31
81 63 0.65
82 4 0.04
ACGTcount: A:0.27, C:0.20, G:0.17, T:0.36
Consensus pattern (81 bp):
TAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCTATAGCAGTATTTCAATAATTCTACCCT
ACAAGGGTATTTCGGA
Found at i:65896892 original size:27 final size:27
Alignment explanation
Indices: 65896862--65897559 Score: 900
Period size: 27 Copynumber: 26.0 Consensus size: 27
65896852 GTAATTTCAC
* *
65896862 AATCAAGGGTAAAATGGTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
* *
65896889 AATCGAGGGTAAAACGATAATTTTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
*
65896916 AA-CTGAGGGT-AAACTAGTAATTCTGTA
1 AATC-GAGGGTAAAAC-GGTAATTCTGTA
* * * **
65896943 AATCAAGGGTAAAACGATAATTTTACA
1 AATCGAGGGTAAAACGGTAATTCTGTA
* *
65896970 AATCAAGGGTAAAACGGTAATTCTATA
1 AATCGAGGGTAAAACGGTAATTCTGTA
**
65896997 AATCGAGGGTAAAATAGTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
* *
65897024 AA-CTGAGGGTAAAACGATAATTTTGTA
1 AATC-GAGGGTAAAACGGTAATTCTGTA
* ** *
65897051 ATTCGAGGGTAAAATAGTAATTTTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
*
65897078 AA-CTGAGGGTAAAACGATAATTCTGTA
1 AATC-GAGGGTAAAACGGTAATTCTGTA
* **
65897105 AATCGAGGGTAAAACGGTAATTTTACA
1 AATCGAGGGTAAAACGGTAATTCTGTA
*
65897132 AATCGAGGGTAAAACGGTAATTCTATA
1 AATCGAGGGTAAAACGGTAATTCTGTA
*
65897159 AATCGAGGGTAAAACAGTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
*
65897186 AA-CTGAGGGTAAAACGGTAATTCTATA
1 AATC-GAGGGTAAAACGGTAATTCTGTA
*
65897213 AATCGAGGGTAAAACGGTAATTCTATA
1 AATCGAGGGTAAAACGGTAATTCTGTA
65897240 AATCGAGGGTAAAACGGTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
65897267 AAT-GAGGGTAAAACGGTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
65897293 AA-CTGAGGGTAAAACGGTAATTCTGTA
1 AATC-GAGGGTAAAACGGTAATTCTGTA
* **
65897320 AATCGAGGGTAAAAC-GTAATTTTAAA
1 AATCGAGGGTAAAACGGTAATTCTGTA
*
65897346 AATCAAGGGTAAAACGGTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
65897373 AATCGAGGGTAAAACGGTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
*
65897400 AA-CTGAGGGTAAAACGATAATTCTGTA
1 AATC-GAGGGTAAAACGGTAATTCTGTA
*
65897427 AATCGAGGGTAAAACGATAATT-T-TA
1 AATCGAGGGTAAAACGGTAATTCTGTA
65897452 AATCGAGGGTAAAACGGTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
65897479 AATCGAGGGTAAAACGGTAATT-T-TAA
1 AATCGAGGGTAAAACGGTAATTCTGT-A
*
65897505 AATCGAGGGTAAAACGGTAATTCTATA
1 AATCGAGGGTAAAACGGTAATTCTGTA
* *
65897532 AATCGAGGGTAAAACAGTAATTATGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
65897559 A
1 A
65897560 TTCAGGAGTA
Statistics
Matches: 593, Mismatches: 57, Indels: 42
0.86 0.08 0.06
Matches are distributed among these distances:
25 24 0.04
26 82 0.14
27 476 0.80
28 11 0.02
ACGTcount: A:0.41, C:0.10, G:0.22, T:0.27
Consensus pattern (27 bp):
AATCGAGGGTAAAACGGTAATTCTGTA
Found at i:65899552 original size:6 final size:6
Alignment explanation
Indices: 65899490--65899644 Score: 137
Period size: 6 Copynumber: 25.8 Consensus size: 6
65899480 AACCAAAATG
*
65899490 AGAATC AGAAT- AGAATC AGTAA-C AGAATC A-AATC AGAATC A-ATATT
1 AGAATC AGAATC AGAATC AG-AATC AGAATC AGAATC AGAATC AGA-ATC
* *
65899536 AGTAA-C AGAATC AGAATC AGAATC AGAATT AG-GTGAC AGAATC AGAATC
1 AG-AATC AGAATC AGAATC AGAATC AGAATC AGAAT--C AGAATC AGAATC
* *
65899585 AGAATC AGTAA-C AGAATC AGAATC AGAATC AGAATT ACGTGA-C AGAATC
1 AGAATC AG-AATC AGAATC AGAATC AGAATC AGAATC A-G-AATC AGAATC
65899634 AGAATC AGAAT
1 AGAATC AGAAT
65899645 GTGAATGCAA
Statistics
Matches: 123, Mismatches: 10, Indels: 32
0.75 0.06 0.19
Matches are distributed among these distances:
5 19 0.15
6 92 0.75
7 9 0.07
8 3 0.02
ACGTcount: A:0.49, C:0.14, G:0.17, T:0.19
Consensus pattern (6 bp):
AGAATC
Found at i:65899585 original size:55 final size:55
Alignment explanation
Indices: 65899520--65899644 Score: 216
Period size: 55 Copynumber: 2.3 Consensus size: 55
65899510 AACAGAATCA
* *
65899520 AATCAGAATCA-ATATTAGTAACAGAATCAGAATCAGAATCAGAATTAGGTGACAG
1 AATCAGAATCAGA-ATCAGTAACAGAATCAGAATCAGAATCAGAATTACGTGACAG
65899575 AATCAGAATCAGAATCAGTAACAGAATCAGAATCAGAATCAGAATTACGTGACAG
1 AATCAGAATCAGAATCAGTAACAGAATCAGAATCAGAATCAGAATTACGTGACAG
65899630 AATCAGAATCAGAAT
1 AATCAGAATCAGAAT
65899645 GTGAATGCAA
Statistics
Matches: 67, Mismatches: 2, Indels: 2
0.94 0.03 0.03
Matches are distributed among these distances:
55 66 0.99
56 1 0.01
ACGTcount: A:0.48, C:0.14, G:0.18, T:0.20
Consensus pattern (55 bp):
AATCAGAATCAGAATCAGTAACAGAATCAGAATCAGAATCAGAATTACGTGACAG
Done.