Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr06 132263754
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: 132263754
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 372 characters in sequence are not A, C, G, or T
File 373 of 433
Found at i:116928126 original size:40 final size:39
Alignment explanation
Indices: 116928081--116928328 Score: 302
Period size: 40 Copynumber: 6.2 Consensus size: 39
116928071 CGGAATACAA
*
116928081 CCGGATATAACCACACGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACAACA-GCACGAATGCCTTCGGGTCTTAGC
* * *
116928121 CCGGATATAACGACTAGCACAAATGCCTTCGGGTATTAGC
1 CCGGATATAACAAC-AGCACGAATGCCTTCGGGTCTTAGC
*
116928161 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACAAC-AGCACGAATGCCTTCGGGTCTTAGC
* * * *
116928201 CCGGATATAACGACTCGCACAAATGCCTTCGGGTATTAGC
1 CCGGATATAACAAC-AGCACGAATGCCTTCGGGTCTTAGC
*
116928241 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACAAC-AGCACGAATGCCTTCGGGTCTTAGC
* *
116928281 CCGGATATAGTC-ACTAGCAC-AATTGCCTTCGGGTCTTAAC
1 CCGGATATA-ACAAC-AGCACGAA-TGCCTTCGGGTCTTAGC
116928321 CCGGATAT
1 CCGGATAT
116928329 CATTCAATTG
Statistics
Matches: 187, Mismatches: 18, Indels: 6
0.89 0.09 0.03
Matches are distributed among these distances:
39 2 0.01
40 183 0.98
41 2 0.01
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (39 bp):
CCGGATATAACAACAGCACGAATGCCTTCGGGTCTTAGC
Found at i:116928214 original size:80 final size:80
Alignment explanation
Indices: 116928081--116928328 Score: 408
Period size: 80 Copynumber: 3.1 Consensus size: 80
116928071 CGGAATACAA
* **
116928081 CCGGATATAACCACACGCACGAATGCCTTCGGGTCTTAGCCCGGATATAACGACTAGCACAAATG
1 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATATAACGACTAGCACAAATG
116928146 CCTTCGGGTATTAGC
66 CCTTCGGGTATTAGC
*
116928161 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATATAACGACTCGCACAAATG
1 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATATAACGACTAGCACAAATG
116928226 CCTTCGGGTATTAGC
66 CCTTCGGGTATTAGC
* *
116928241 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATATAGTC-ACTAGCACAATT
1 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATATA-ACGACTAGCACAAAT
* *
116928305 GCCTTCGGGTCTTAAC
65 GCCTTCGGGTATTAGC
116928321 CCGGATAT
1 CCGGATAT
116928329 CATTCAATTG
Statistics
Matches: 158, Mismatches: 9, Indels: 2
0.93 0.05 0.01
Matches are distributed among these distances:
80 157 0.99
81 1 0.01
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (80 bp):
CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATATAACGACTAGCACAAATG
CCTTCGGGTATTAGC
Found at i:116928308 original size:120 final size:120
Alignment explanation
Indices: 116928081--116928328 Score: 365
Period size: 120 Copynumber: 2.1 Consensus size: 120
116928071 CGGAATACAA
* * *
116928081 CCGGATATAACCACACGCACGAATGCCTTCGGGTCTTAGCCCGGATATAACGACTAGCACAAATG
1 CCGGATATAACCACACGCACAAATGCCTTCGGGTATTAGCCCGGATATAACAACTAGCACAAATG
* *
116928146 CCTTCGGGTATTAGCCCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGC
66 CCTTCGGGTATTAGCCCGGATATAACAACTAGCACGAATGCCTTCGGGTCTTAAC
* * * *
116928201 CCGGATATAACGACTCGCACAAATGCCTTCGGGTATTAGCCCGGATATAACAACTTGCACGAATG
1 CCGGATATAACCACACGCACAAATGCCTTCGGGTATTAGCCCGGATATAACAACTAGCACAAATG
* *
116928266 CCTTCGGGTCTTAGCCCGGATATAGTC-ACTAGCAC-AATTGCCTTCGGGTCTTAAC
66 CCTTCGGGTATTAGCCCGGATATA-ACAACTAGCACGAA-TGCCTTCGGGTCTTAAC
116928321 CCGGATAT
1 CCGGATAT
116928329 CATTCAATTG
Statistics
Matches: 115, Mismatches: 11, Indels: 4
0.88 0.08 0.03
Matches are distributed among these distances:
119 2 0.02
120 112 0.97
121 1 0.01
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (120 bp):
CCGGATATAACCACACGCACAAATGCCTTCGGGTATTAGCCCGGATATAACAACTAGCACAAATG
CCTTCGGGTATTAGCCCGGATATAACAACTAGCACGAATGCCTTCGGGTCTTAAC
Found at i:116928434 original size:124 final size:125
Alignment explanation
Indices: 116928285--116928510 Score: 310
Period size: 124 Copynumber: 1.8 Consensus size: 125
116928275 CTTAGCCCGG
* * * * * *
116928285 ATATAGTCACTAGCACAATTGCCTTCGGGTCTTAACCCGGATATCATTCAATTGCTCATGCACAC
1 ATATAATCACTAGCACAATTGCCTTCGGGACTTAACCCGGATACCATTCAAATACTCATACACAC
* *
116928350 ATACATCAATAATCATTACACATTCAT-GTTTCATTTTCGTTACTAAGGCTCAAACACAA
66 ATACATCAATAATCATTACACATCCATAATTTCATTTTCGTTACTAAGGCTCAAACACAA
* * * *
116928409 ATATAATCACTAGCATAATTGCCTTCGGGACTTAGCTCGGGTACCATTCAAATACTCATACACAC
1 ATATAATCACTAGCACAATTGCCTTCGGGACTTAACCCGGATACCATTCAAATACTCATACACAC
* * *
116928474 GTATATCAGTAATCATTACACATCCATAATTTCATTT
66 ATACATCAATAATCATTACACATCCATAATTTCATTT
116928511 CACACAATTC
Statistics
Matches: 86, Mismatches: 15, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
124 78 0.91
125 8 0.09
ACGTcount: A:0.33, C:0.24, G:0.11, T:0.32
Consensus pattern (125 bp):
ATATAATCACTAGCACAATTGCCTTCGGGACTTAACCCGGATACCATTCAAATACTCATACACAC
ATACATCAATAATCATTACACATCCATAATTTCATTTTCGTTACTAAGGCTCAAACACAA
Found at i:116937779 original size:17 final size:18
Alignment explanation
Indices: 116937738--116937819 Score: 132
Period size: 18 Copynumber: 4.7 Consensus size: 18
116937728 TAATATTGTA
116937738 TATCATATCTAAGATTGC
1 TATCATATCTAAGATTGC
*
116937756 AATCATATCTAAGATTG-
1 TATCATATCTAAGATTGC
116937773 TATCATATCTAAGATTGC
1 TATCATATCTAAGATTGC
*
116937791 AATCATATCTAAGATTG-
1 TATCATATCTAAGATTGC
116937808 TATCATATCTAA
1 TATCATATCTAA
116937820 CATATCTAAG
Statistics
Matches: 59, Mismatches: 4, Indels: 3
0.89 0.06 0.05
Matches are distributed among these distances:
17 27 0.46
18 32 0.54
ACGTcount: A:0.38, C:0.15, G:0.10, T:0.38
Consensus pattern (18 bp):
TATCATATCTAAGATTGC
Found at i:116937784 original size:35 final size:35
Alignment explanation
Indices: 116937738--116937819 Score: 164
Period size: 35 Copynumber: 2.3 Consensus size: 35
116937728 TAATATTGTA
116937738 TATCATATCTAAGATTGCAATCATATCTAAGATTG
1 TATCATATCTAAGATTGCAATCATATCTAAGATTG
116937773 TATCATATCTAAGATTGCAATCATATCTAAGATTG
1 TATCATATCTAAGATTGCAATCATATCTAAGATTG
116937808 TATCATATCTAA
1 TATCATATCTAA
116937820 CATATCTAAG
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 47 1.00
ACGTcount: A:0.38, C:0.15, G:0.10, T:0.38
Consensus pattern (35 bp):
TATCATATCTAAGATTGCAATCATATCTAAGATTG
Found at i:116945001 original size:13 final size:13
Alignment explanation
Indices: 116944980--116945045 Score: 69
Period size: 13 Copynumber: 5.1 Consensus size: 13
116944970 CTAGTTTAGC
*
116944980 AATGTTTTTGAAA
1 AATGCTTTTGAAA
116944993 AATGCTTTTGAAA
1 AATGCTTTTGAAA
* * *
116945006 AATACTATGGAAA
1 AATGCTTTTGAAA
*
116945019 AATGCTTTTGAGA
1 AATGCTTTTGAAA
* *
116945032 AGTACTTTTGAAA
1 AATGCTTTTGAAA
116945045 A
1 A
116945046 GTTTGGTTTA
Statistics
Matches: 42, Mismatches: 11, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
13 42 1.00
ACGTcount: A:0.41, C:0.06, G:0.17, T:0.36
Consensus pattern (13 bp):
AATGCTTTTGAAA
Found at i:116945044 original size:26 final size:26
Alignment explanation
Indices: 116944985--116945045 Score: 86
Period size: 26 Copynumber: 2.3 Consensus size: 26
116944975 TTAGCAATGT
116944985 TTTTGAAAAATGCTTTTGAAAAATAC
1 TTTTGAAAAATGCTTTTGAAAAATAC
* * * *
116945011 TATGGAAAAATGCTTTTGAGAAGTAC
1 TTTTGAAAAATGCTTTTGAAAAATAC
116945037 TTTTGAAAA
1 TTTTGAAAA
116945046 GTTTGGTTTA
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
26 29 1.00
ACGTcount: A:0.41, C:0.07, G:0.16, T:0.36
Consensus pattern (26 bp):
TTTTGAAAAATGCTTTTGAAAAATAC
Found at i:116947022 original size:19 final size:19
Alignment explanation
Indices: 116946984--116947022 Score: 53
Period size: 18 Copynumber: 2.1 Consensus size: 19
116946974 AACAAGCAAC
*
116946984 TTGAGTTGAGCTCGCACTT
1 TTGAGTTGAGCTAGCACTT
116947003 TTGA-TTGAGCTAGCAGCTT
1 TTGAGTTGAGCTAGCA-CTT
116947022 T
1 T
116947023 AGGTGAGCTC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 10 0.56
19 8 0.44
ACGTcount: A:0.18, C:0.18, G:0.26, T:0.38
Consensus pattern (19 bp):
TTGAGTTGAGCTAGCACTT
Found at i:116952204 original size:2 final size:2
Alignment explanation
Indices: 116952199--116952226 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
116952189 CGAAAAAAAA
116952199 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
116952227 TATGTTATAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:116967105 original size:6 final size:6
Alignment explanation
Indices: 116967094--116967145 Score: 104
Period size: 6 Copynumber: 8.7 Consensus size: 6
116967084 GAAGATTACC
116967094 ATATAA ATATAA ATATAA ATATAA ATATAA ATATAA ATATAA ATATAA
1 ATATAA ATATAA ATATAA ATATAA ATATAA ATATAA ATATAA ATATAA
116967142 ATAT
1 ATAT
116967146 CGGGAATAAA
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 46 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (6 bp):
ATATAA
Found at i:116967287 original size:22 final size:21
Alignment explanation
Indices: 116967262--116967318 Score: 62
Period size: 22 Copynumber: 2.6 Consensus size: 21
116967252 CATTTATATC
*
116967262 TAATATCTTTTTTTACA-AATTT
1 TAATAT-TTTTTTTACATAA-GT
*
116967284 TAATCATTTTTTTTTCATAAGT
1 TAAT-ATTTTTTTTACATAAGT
116967306 TAATATTTTTTTT
1 TAATATTTTTTTT
116967319 TTATTTTGTG
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
21 9 0.29
22 18 0.58
23 4 0.13
ACGTcount: A:0.28, C:0.07, G:0.02, T:0.63
Consensus pattern (21 bp):
TAATATTTTTTTTACATAAGT
Found at i:116970181 original size:9 final size:9
Alignment explanation
Indices: 116970169--116970225 Score: 51
Period size: 9 Copynumber: 5.9 Consensus size: 9
116970159 TTTGATAAAC
116970169 ATGATATGT
1 ATGATATGT
*
116970178 ATGATATGCAC
1 ATGATATG--T
*
116970189 ATGACATGT
1 ATGATATGT
*
116970198 ATGATATGCAC
1 ATGATATG--T
116970209 ATGATATGT
1 ATGATATGT
116970218 ATGATATG
1 ATGATATG
116970226 CACATGAGAT
Statistics
Matches: 38, Mismatches: 6, Indels: 8
0.73 0.12 0.15
Matches are distributed among these distances:
9 23 0.61
11 15 0.39
ACGTcount: A:0.35, C:0.09, G:0.21, T:0.35
Consensus pattern (9 bp):
ATGATATGT
Found at i:116970192 original size:20 final size:20
Alignment explanation
Indices: 116970167--116970237 Score: 124
Period size: 20 Copynumber: 3.5 Consensus size: 20
116970157 ATTTTGATAA
116970167 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
*
116970187 ACATGACATGTATGATATGC
1 ACATGATATGTATGATATGC
116970207 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
*
116970227 ACATGAGATGT
1 ACATGATATGT
116970238 TCATAAATGC
Statistics
Matches: 48, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 48 1.00
ACGTcount: A:0.35, C:0.11, G:0.21, T:0.32
Consensus pattern (20 bp):
ACATGATATGTATGATATGC
Found at i:116970214 original size:11 final size:11
Alignment explanation
Indices: 116970178--116970232 Score: 55
Period size: 11 Copynumber: 5.4 Consensus size: 11
116970168 CATGATATGT
116970178 ATGATATGCAC
1 ATGATATGCAC
* *
116970189 ATGACATG--T
1 ATGATATGCAC
116970198 ATGATATGCAC
1 ATGATATGCAC
*
116970209 ATGATATG--T
1 ATGATATGCAC
116970218 ATGATATGCAC
1 ATGATATGCAC
116970229 ATGA
1 ATGA
116970233 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:116970314 original size:23 final size:23
Alignment explanation
Indices: 116970284--116970473 Score: 308
Period size: 23 Copynumber: 8.1 Consensus size: 23
116970274 AGGAAGTGCA
116970284 AAAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
116970307 AAAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
*
116970330 AAAGGGCTTATGCCCCAGTTATCA
1 AAAGGGCTTATGCCCCAGTTAT-T
*
116970354 AAAGGGCTTATGCCCCAGTTATCA
1 AAAGGGCTTATGCCCCAGTTAT-T
116970378 AAAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
* *
116970401 AAAGGGCTTATGCCCCAGTGATCA
1 AAAGGGCTTATGCCCCAGTTAT-T
116970425 AAAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
*
116970448 AAAGGGCTTTTGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
116970471 AAA
1 AAA
116970474 AGAGGCAAGG
Statistics
Matches: 158, Mismatches: 7, Indels: 4
0.93 0.04 0.02
Matches are distributed among these distances:
23 91 0.58
24 67 0.42
ACGTcount: A:0.28, C:0.23, G:0.22, T:0.28
Consensus pattern (23 bp):
AAAGGGCTTATGCCCCAGTTATT
Found at i:116970375 original size:47 final size:47
Alignment explanation
Indices: 116970282--116970475 Score: 327
Period size: 47 Copynumber: 4.1 Consensus size: 47
116970272 GGAGGAAGTG
116970282 CAAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTAT
1 CAAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTAT
* *
116970329 -TAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTAT
1 CAAAAGGGCTTATGCCCCAGTTAT-TAAAGGGCTTATGCCCCAGTTAT
*
116970376 CAAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTGAT
1 CAAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTAT
*
116970423 CAAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTTTGCCCCAGTTAT
1 CAAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTAT
*
116970470 TAAAAG
1 CAAAAG
116970476 AGGCAAGGCC
Statistics
Matches: 137, Mismatches: 8, Indels: 4
0.92 0.05 0.03
Matches are distributed among these distances:
46 22 0.16
47 93 0.68
48 22 0.16
ACGTcount: A:0.28, C:0.23, G:0.22, T:0.27
Consensus pattern (47 bp):
CAAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTAT
Found at i:116971511 original size:20 final size:21
Alignment explanation
Indices: 116971478--116971517 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 21
116971468 TTCAGAGTTC
116971478 GGGTTTGGGCTTTGA-GTTTT
1 GGGTTTGGGCTTTGATGTTTT
116971498 GGGTTTGAGG-TTTGATGTTT
1 GGGTTTG-GGCTTTGATGTTT
116971518 AAGGTTTAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 12 0.67
21 6 0.33
ACGTcount: A:0.07, C:0.03, G:0.40, T:0.50
Consensus pattern (21 bp):
GGGTTTGGGCTTTGATGTTTT
Found at i:116975500 original size:2 final size:2
Alignment explanation
Indices: 116975482--116975519 Score: 58
Period size: 2 Copynumber: 19.0 Consensus size: 2
116975472 TTATAAATAG
* *
116975482 TA TA GA TA TA CA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
116975520 ATTGATATAC
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.03, G:0.03, T:0.45
Consensus pattern (2 bp):
TA
Found at i:116975689 original size:2 final size:2
Alignment explanation
Indices: 116975684--116975714 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
116975674 AATATGTACA
116975684 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
116975715 AACACGAGTT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:116977033 original size:82 final size:82
Alignment explanation
Indices: 116976894--116977048 Score: 213
Period size: 83 Copynumber: 1.9 Consensus size: 82
116976884 TCATATTAGT
* * ** *
116976894 TGCTGATTGTTCATGCATTTAAGGATTCAATGGATGGCATTAAAGGGGAAACATGCATTTGGGAC
1 TGCTGATTGTTCATGCACTTAAAGATTCAATGGACCGCATTAAAGGAGAAACATGCA-TTGGGAC
116976959 ATTCATGCAAGAGGGAGC
65 ATTCATGCAAGAGGGAGC
* * * *
116976977 TGCTGATTGTTCATGTACTTAAAGATTC-ATGGACCGCATTTATGGAGAAACATGCATTGGGACG
1 TGCTGATTGTTCATGCACTTAAAGATTCAATGGACCGCATTAAAGGAGAAACATGCATTGGGACA
116977041 TTCATGCA
66 TTCATGCA
116977049 TGTGGAAGTT
Statistics
Matches: 63, Mismatches: 9, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
81 15 0.24
82 23 0.37
83 25 0.40
ACGTcount: A:0.29, C:0.15, G:0.26, T:0.30
Consensus pattern (82 bp):
TGCTGATTGTTCATGCACTTAAAGATTCAATGGACCGCATTAAAGGAGAAACATGCATTGGGACA
TTCATGCAAGAGGGAGC
Found at i:116978442 original size:15 final size:15
Alignment explanation
Indices: 116978410--116978438 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
116978400 ATTTTCTATG
116978410 TTTATTATGTGTGAA
1 TTTATTATGTGTGAA
116978425 TTTA-TATGTGTGAA
1 TTTATTATGTGTGAA
116978439 ATTTTCGTGA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 10 0.71
15 4 0.29
ACGTcount: A:0.28, C:0.00, G:0.21, T:0.52
Consensus pattern (15 bp):
TTTATTATGTGTGAA
Found at i:116979645 original size:43 final size:43
Alignment explanation
Indices: 116979596--116979710 Score: 123
Period size: 41 Copynumber: 2.7 Consensus size: 43
116979586 TTTGGGACGT
*
116979596 TGGCATCGATATGTGATTACGTGTAAGACCATGTCCGAGACAAC
1 TGGCATCGATATGTGATTACATGTAAGACCATGTCCGAGAC-AC
* * *
116979640 T-GCATCG-TATTTGATT-CATGTAAGACGC-TGTCTGAGACAG
1 TGGCATCGATATGTGATTACATGTAAGAC-CATGTCCGAGACAC
*
116979680 TGGCATCGATATGAGA-TAGCATGTAAGACCA
1 TGGCATCGATATGTGATTA-CATGTAAGACCA
116979711 CGTATGGGAT
Statistics
Matches: 59, Mismatches: 6, Indels: 13
0.76 0.08 0.17
Matches are distributed among these distances:
40 2 0.03
41 25 0.42
42 15 0.25
43 16 0.27
44 1 0.02
ACGTcount: A:0.30, C:0.18, G:0.25, T:0.27
Consensus pattern (43 bp):
TGGCATCGATATGTGATTACATGTAAGACCATGTCCGAGACAC
Found at i:116982182 original size:27 final size:27
Alignment explanation
Indices: 116982144--116982482 Score: 423
Period size: 27 Copynumber: 12.6 Consensus size: 27
116982134 AAAGTACTCC
116982144 CGATTTACAGAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
* * *
116982171 C-AGGTTATAGAATTACTGTTTTACCCT
1 CGA-TTTACAGAATTACCGTTTTACCCT
** * *
116982198 CGATTTGTAAAATTACCATTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
*
116982225 TGATTTACAGAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
**
116982252 C-AGTTTACAGAATTACTATTTTACCCT
1 CGA-TTTACAGAATTACCGTTTTACCCT
*
116982279 CGATTTACAGAATTACCGTTTTACCCC
1 CGATTTACAGAATTACCGTTTTACCCT
* * *
116982306 CAATTTACATAATTACCATTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
* *
116982333 CGATTTACATAATTATCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
116982360 CGATTTACAGAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
* *
116982387 CGATTTACAGAATTATCATTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
* *
116982414 CGATTTATAGAATTACTGTTTTA-CCT
1 CGATTTACAGAATTACCGTTTTACCCT
* * *
116982440 TGATTTATAGAATTACTGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
*
116982467 CGATTTACAAAATTAC
1 CGATTTACAGAATTAC
116982483 TAAAATACCC
Statistics
Matches: 269, Mismatches: 38, Indels: 10
0.85 0.12 0.03
Matches are distributed among these distances:
26 27 0.10
27 240 0.89
28 2 0.01
ACGTcount: A:0.28, C:0.22, G:0.09, T:0.40
Consensus pattern (27 bp):
CGATTTACAGAATTACCGTTTTACCCT
Found at i:116983744 original size:24 final size:24
Alignment explanation
Indices: 116983716--116983762 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 24
116983706 CTATAACATG
* * *
116983716 AAAATGACCGTTTTGCCCCTAGGT
1 AAAATGACCATTATACCCCTAGGT
116983740 AAAATGACCATTATACCCCTAGG
1 AAAATGACCATTATACCCCTAGG
116983763 GTTTATATAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.32, C:0.26, G:0.17, T:0.26
Consensus pattern (24 bp):
AAAATGACCATTATACCCCTAGGT
Found at i:116983813 original size:9 final size:9
Alignment explanation
Indices: 116983801--116983893 Score: 73
Period size: 9 Copynumber: 9.9 Consensus size: 9
116983791 TTTGATAAAC
116983801 ATGATATGT
1 ATGATATGT
116983810 ATGATA--T
1 ATGATATGT
*
116983817 ATGACATGT
1 ATGATATGT
*
116983826 ATGATATGCAC
1 ATGATATG--T
116983837 ATGATATGT
1 ATGATATGT
*
116983846 ATGATATGCAC
1 ATGATATG--T
*
116983857 ATGACATGT
1 ATGATATGT
*
116983866 ATGATATGCAC
1 ATGATATG--T
116983877 ATGATATGT
1 ATGATATGT
116983886 ATGATATG
1 ATGATATG
116983894 CACATGAGAT
Statistics
Matches: 66, Mismatches: 10, Indels: 16
0.72 0.11 0.17
Matches are distributed among these distances:
7 6 0.09
9 37 0.56
11 23 0.35
ACGTcount: A:0.35, C:0.09, G:0.20, T:0.35
Consensus pattern (9 bp):
ATGATATGT
Found at i:116983825 original size:16 final size:16
Alignment explanation
Indices: 116983801--116983832 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
116983791 TTTGATAAAC
*
116983801 ATGATATGTATGATAT
1 ATGACATGTATGATAT
116983817 ATGACATGTATGATAT
1 ATGACATGTATGATAT
116983833 GCACATGATA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.38, C:0.03, G:0.19, T:0.41
Consensus pattern (16 bp):
ATGACATGTATGATAT
Found at i:116983840 original size:20 final size:20
Alignment explanation
Indices: 116983817--116983905 Score: 151
Period size: 20 Copynumber: 4.5 Consensus size: 20
116983807 TGTATGATAT
116983817 ATGACATGTATGATATGCAC
1 ATGACATGTATGATATGCAC
*
116983837 ATGATATGTATGATATGCAC
1 ATGACATGTATGATATGCAC
116983857 ATGACATGTATGATATGCAC
1 ATGACATGTATGATATGCAC
*
116983877 ATGATATGTATGATATGCAC
1 ATGACATGTATGATATGCAC
*
116983897 ATGAGATGT
1 ATGACATGT
116983906 TCATAAATGC
Statistics
Matches: 65, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 65 1.00
ACGTcount: A:0.35, C:0.11, G:0.21, T:0.33
Consensus pattern (20 bp):
ATGACATGTATGATATGCAC
Found at i:116983842 original size:11 final size:11
Alignment explanation
Indices: 116983826--116983900 Score: 72
Period size: 11 Copynumber: 7.4 Consensus size: 11
116983816 TATGACATGT
116983826 ATGATATGCAC
1 ATGATATGCAC
*
116983837 ATGATATG--T
1 ATGATATGCAC
116983846 ATGATATGCAC
1 ATGATATGCAC
* *
116983857 ATGACATG--T
1 ATGATATGCAC
116983866 ATGATATGCAC
1 ATGATATGCAC
*
116983877 ATGATATG--T
1 ATGATATGCAC
116983886 ATGATATGCAC
1 ATGATATGCAC
116983897 ATGA
1 ATGA
116983901 GATGTTCATA
Statistics
Matches: 50, Mismatches: 8, Indels: 12
0.71 0.11 0.17
Matches are distributed among these distances:
9 23 0.46
11 27 0.54
ACGTcount: A:0.36, C:0.12, G:0.20, T:0.32
Consensus pattern (11 bp):
ATGATATGCAC
Found at i:116983872 original size:40 final size:40
Alignment explanation
Indices: 116983799--116983905 Score: 177
Period size: 40 Copynumber: 2.8 Consensus size: 40
116983789 ATTTTGATAA
116983799 ACATGATATGTATGATAT----ATGACATGTATGATATGC
1 ACATGATATGTATGATATGCACATGACATGTATGATATGC
116983835 ACATGATATGTATGATATGCACATGACATGTATGATATGC
1 ACATGATATGTATGATATGCACATGACATGTATGATATGC
*
116983875 ACATGATATGTATGATATGCACATGAGATGT
1 ACATGATATGTATGATATGCACATGACATGT
116983906 TCATAAATGC
Statistics
Matches: 66, Mismatches: 1, Indels: 4
0.93 0.01 0.06
Matches are distributed among these distances:
36 18 0.27
40 48 0.73
ACGTcount: A:0.36, C:0.10, G:0.21, T:0.34
Consensus pattern (40 bp):
ACATGATATGTATGATATGCACATGACATGTATGATATGC
Found at i:116984007 original size:24 final size:24
Alignment explanation
Indices: 116983950--116984116 Score: 223
Period size: 24 Copynumber: 7.0 Consensus size: 24
116983940 GGAGGAAGTG
*
116983950 CAAAAGAGCTTATGCCCCAGTTAT
1 CAAAAGGGCTTATGCCCCAGTTAT
*
116983974 -TAAAGGGCTTATGCCCCAGTTAT
1 CAAAAGGGCTTATGCCCCAGTTAT
116983997 CAAAAGGGCTTATGCCCCAGTTAT
1 CAAAAGGGCTTATGCCCCAGTTAT
*
116984021 CAAAAGGGCTTACGCCCCAGTTAT
1 CAAAAGGGCTTATGCCCCAGTTAT
*
116984045 -TAAAGGGCTTATGCCCCAGTTAT
1 CAAAAGGGCTTATGCCCCAGTTAT
* *
116984068 AAAAAGGGCTTTTGCCCCAGTTAT
1 CAAAAGGGCTTATGCCCCAGTTAT
* *
116984092 TAAAAGAGGC-TAGGCCTCCAGTTAT
1 CAAAAG-GGCTTATGCC-CCAGTTAT
116984117 ATGATAAAGC
Statistics
Matches: 128, Mismatches: 11, Indels: 7
0.88 0.08 0.05
Matches are distributed among these distances:
23 42 0.33
24 75 0.59
25 11 0.09
ACGTcount: A:0.29, C:0.23, G:0.21, T:0.26
Consensus pattern (24 bp):
CAAAAGGGCTTATGCCCCAGTTAT
Found at i:116984019 original size:47 final size:48
Alignment explanation
Indices: 116983950--116984117 Score: 225
Period size: 47 Copynumber: 3.5 Consensus size: 48
116983940 GGAGGAAGTG
* *
116983950 CAAAAGAGCTTATGCCCCAGTTAT-TAAAGGGCTTATGCCCCAGTTAT
1 CAAAAGGGCTTATGCCCCAGTTATAAAAAGGGCTTATGCCCCAGTTAT
* *
116983997 CAAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTACGCCCCAGTTAT
1 CAAAAGGGCTTATGCCCCAGTTATAAAAAGGGCTTATGCCCCAGTTAT
* *
116984045 -TAAAGGGCTTATGCCCCAGTTATAAAAAGGGCTTTTGCCCCAGTTAT
1 CAAAAGGGCTTATGCCCCAGTTATAAAAAGGGCTTATGCCCCAGTTAT
* *
116984092 TAAAAGAGGC-TAGGCCTCCAGTTATA
1 CAAAAG-GGCTTATGCC-CCAGTTATA
116984118 TGATAAAGCA
Statistics
Matches: 108, Mismatches: 9, Indels: 6
0.88 0.07 0.05
Matches are distributed among these distances:
47 66 0.61
48 30 0.28
49 12 0.11
ACGTcount: A:0.30, C:0.23, G:0.21, T:0.26
Consensus pattern (48 bp):
CAAAAGGGCTTATGCCCCAGTTATAAAAAGGGCTTATGCCCCAGTTAT
Found at i:116984066 original size:71 final size:71
Alignment explanation
Indices: 116983950--116984116 Score: 255
Period size: 71 Copynumber: 2.3 Consensus size: 71
116983940 GGAGGAAGTG
* * *
116983950 CAAAAGAGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCC
1 CAAAAGGGCTTACGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATAAAAAGGGCTTATGCCCC
116984015 AGTTAT
66 AGTTAT
*
116984021 CAAAAGGGCTTACGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATAAAAAGGGCTTTTGCCCC
1 CAAAAGGGCTTACGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATAAAAAGGGCTTATGCCCC
116984086 AGTTAT
66 AGTTAT
* *
116984092 TAAAAGAGGC-TAGGCCTCCAGTTAT
1 CAAAAG-GGCTTACGCC-CCAGTTAT
116984117 ATGATAAAGC
Statistics
Matches: 88, Mismatches: 6, Indels: 3
0.91 0.06 0.03
Matches are distributed among these distances:
71 77 0.88
72 11 0.12
ACGTcount: A:0.29, C:0.23, G:0.21, T:0.26
Consensus pattern (71 bp):
CAAAAGGGCTTACGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATAAAAAGGGCTTATGCCCC
AGTTAT
Found at i:116987451 original size:160 final size:161
Alignment explanation
Indices: 116987259--116987552 Score: 457
Period size: 160 Copynumber: 1.8 Consensus size: 161
116987249 TAGAATTACT
** * *
116987259 GTTTTACCCTCGATTTGTAAAATTACCGTTTTACCCTTGATTTACAGAATTACCGTTTTACCCTC
1 GTTTTACCCTCGATTTACAAAATTACCGTTTTACCCTCGATTTACAGAATTACCATTTTACCCTC
*
116987324 -AGTTTACAGAATTACTATTTTACCCTCGATTTACAGAATTACCGTTTTACCC-CAATTTACATA
66 GA-TTTACAGAATTACTATTTTACCCTCGATTTACAGAATTACCGTTTTACCCTCAATTTACAAA
116987387 ATTACCATTTTACCCCGATTTACATAATTATC
130 ATTACCATTTTACCCCGATTTACATAATTATC
* *
116987419 GTTTTACCCTCGATTTACAGAATTACCGTTTTACCCTCGATTTATAGAATTACCATTTTACCCTC
1 GTTTTACCCTCGATTTACAAAATTACCGTTTTACCCTCGATTTACAGAATTACCATTTTACCCTC
* * * * *
116987484 GATTTATAGAATTACTGTTTTACCCTTGATTTACAGAATTACTGTTTTACCCTCGATTTACAAAA
66 GATTTACAGAATTACTATTTTACCCTCGATTTACAGAATTACCGTTTTACCCTCAATTTACAAAA
116987549 TTAC
131 TTAC
116987553 TAAAATACCC
Statistics
Matches: 120, Mismatches: 12, Indels: 3
0.89 0.09 0.02
Matches are distributed among these distances:
160 105 0.88
161 15 0.12
ACGTcount: A:0.28, C:0.23, G:0.09, T:0.40
Consensus pattern (161 bp):
GTTTTACCCTCGATTTACAAAATTACCGTTTTACCCTCGATTTACAGAATTACCATTTTACCCTC
GATTTACAGAATTACTATTTTACCCTCGATTTACAGAATTACCGTTTTACCCTCAATTTACAAAA
TTACCATTTTACCCCGATTTACATAATTATC
Found at i:116987553 original size:27 final size:27
Alignment explanation
Indices: 116987215--116987552 Score: 441
Period size: 27 Copynumber: 12.6 Consensus size: 27
116987205 AAAGTACTCC
116987215 CGATTTACAGAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
* * *
116987242 C-AGGTTATAGAATTACTGTTTTACCCT
1 CGA-TTTACAGAATTACCGTTTTACCCT
** *
116987269 CGATTTGTAAAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
*
116987296 TGATTTACAGAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
**
116987323 C-AGTTTACAGAATTACTATTTTACCCT
1 CGA-TTTACAGAATTACCGTTTTACCCT
116987350 CGATTTACAGAATTACCGTTTTACCC-
1 CGATTTACAGAATTACCGTTTTACCCT
* * *
116987376 CAATTTACATAATTACCATTTTACCC-
1 CGATTTACAGAATTACCGTTTTACCCT
* *
116987402 CGATTTACATAATTATCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
116987429 CGATTTACAGAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
* *
116987456 CGATTTATAGAATTACCATTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
* *
116987483 CGATTTATAGAATTACTGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
* *
116987510 TGATTTACAGAATTACTGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
*
116987537 CGATTTACAAAATTAC
1 CGATTTACAGAATTAC
116987553 TAAAATACCC
Statistics
Matches: 274, Mismatches: 32, Indels: 10
0.87 0.10 0.03
Matches are distributed among these distances:
26 48 0.18
27 224 0.82
28 2 0.01
ACGTcount: A:0.28, C:0.22, G:0.09, T:0.40
Consensus pattern (27 bp):
CGATTTACAGAATTACCGTTTTACCCT
Found at i:116987589 original size:81 final size:81
Alignment explanation
Indices: 116987263--116987596 Score: 244
Period size: 81 Copynumber: 4.1 Consensus size: 81
116987253 ATTACTGTTT
** * * * ****
116987263 TACCCTCGATTTGTAAAATTACCGTTTTACCCTTGATTTACAGAATTACCGTTTTACCCTC-AGT
1 TACCCTCGATTTACAGAATTACCGTTTTACCCTCGATTTACAAAATTACCAAAATACCCTCGA-T
* *****
116987327 TTACAGAATTACTATTT
65 TTATAGAATTACCGCAA
* * ***
116987344 TACCCTCGATTTACAGAATTACCGTTTTACCC-CAATTTACATAATTACCATTTTACCC-CGATT
1 TACCCTCGATTTACAGAATTACCGTTTTACCCTCGATTTACAAAATTACCAAAATACCCTCGATT
* * * ***
116987407 TACATAATTATCGTTT
66 TATAGAATTACCGCAA
* * ***
116987423 TACCCTCGATTTACAGAATTACCGTTTTACCCTCGATTTATAGAATTACCATTTTACCCTCGATT
1 TACCCTCGATTTACAGAATTACCGTTTTACCCTCGATTTACAAAATTACCAAAATACCCTCGATT
* ***
116987488 TATAGAATTACTGTTT
66 TATAGAATTACCGCAA
* * * * *
116987504 TACCCTTGATTTACAGAATTACTGTTTTACCCTCGATTTACAAAATTACTAAAATACCCTTGGTT
1 TACCCTCGATTTACAGAATTACCGTTTTACCCTCGATTTACAAAATTACCAAAATACCCTCGATT
*
116987569 TGT-GAAATTACCGCAA
66 TATAG-AATTACCGCAA
*
116987585 TACCCTCAATTT
1 TACCCTCGATTT
116987597 GTAAAACTAC
Statistics
Matches: 214, Mismatches: 35, Indels: 8
0.83 0.14 0.03
Matches are distributed among these distances:
79 47 0.22
80 47 0.22
81 120 0.56
ACGTcount: A:0.29, C:0.23, G:0.09, T:0.39
Consensus pattern (81 bp):
TACCCTCGATTTACAGAATTACCGTTTTACCCTCGATTTACAAAATTACCAAAATACCCTCGATT
TATAGAATTACCGCAA
Found at i:116988813 original size:24 final size:24
Alignment explanation
Indices: 116988785--116988831 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 24
116988775 CTATAACATG
* * *
116988785 AAAATGACCGTTTTGCCCCTAGGT
1 AAAATGACCATTATACCCCTAGGT
116988809 AAAATGACCATTATACCCCTAGG
1 AAAATGACCATTATACCCCTAGG
116988832 GTTTATATAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.32, C:0.26, G:0.17, T:0.26
Consensus pattern (24 bp):
AAAATGACCATTATACCCCTAGGT
Found at i:116988882 original size:9 final size:9
Alignment explanation
Indices: 116988870--116988926 Score: 51
Period size: 9 Copynumber: 5.9 Consensus size: 9
116988860 TTTGATAAAC
116988870 ATGATATGT
1 ATGATATGT
*
116988879 ATGATATGCAC
1 ATGATATG--T
*
116988890 ATGACATGT
1 ATGATATGT
*
116988899 ATGATATGCAC
1 ATGATATG--T
116988910 ATGATATGT
1 ATGATATGT
116988919 ATGATATG
1 ATGATATG
116988927 CACATGAGAT
Statistics
Matches: 38, Mismatches: 6, Indels: 8
0.73 0.12 0.15
Matches are distributed among these distances:
9 23 0.61
11 15 0.39
ACGTcount: A:0.35, C:0.09, G:0.21, T:0.35
Consensus pattern (9 bp):
ATGATATGT
Found at i:116988893 original size:20 final size:20
Alignment explanation
Indices: 116988868--116988938 Score: 124
Period size: 20 Copynumber: 3.5 Consensus size: 20
116988858 ATTTTGATAA
116988868 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
*
116988888 ACATGACATGTATGATATGC
1 ACATGATATGTATGATATGC
116988908 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
*
116988928 ACATGAGATGT
1 ACATGATATGT
116988939 TCATAAATGC
Statistics
Matches: 48, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 48 1.00
ACGTcount: A:0.35, C:0.11, G:0.21, T:0.32
Consensus pattern (20 bp):
ACATGATATGTATGATATGC
Found at i:116988915 original size:11 final size:11
Alignment explanation
Indices: 116988879--116988933 Score: 55
Period size: 11 Copynumber: 5.4 Consensus size: 11
116988869 CATGATATGT
116988879 ATGATATGCAC
1 ATGATATGCAC
* *
116988890 ATGACATG--T
1 ATGATATGCAC
116988899 ATGATATGCAC
1 ATGATATGCAC
*
116988910 ATGATATG--T
1 ATGATATGCAC
116988919 ATGATATGCAC
1 ATGATATGCAC
116988930 ATGA
1 ATGA
116988934 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:116989040 original size:24 final size:24
Alignment explanation
Indices: 116988983--116989149 Score: 232
Period size: 24 Copynumber: 7.0 Consensus size: 24
116988973 GGAGGAAGTG
116988983 CAAAAGGGCTTATGCCCCAGTTAT
1 CAAAAGGGCTTATGCCCCAGTTAT
*
116989007 -TAAAGGGCTTATGCCCCAGTTAT
1 CAAAAGGGCTTATGCCCCAGTTAT
116989030 CAAAAGGGCTTATGCCCCAGTTAT
1 CAAAAGGGCTTATGCCCCAGTTAT
*
116989054 CAAAAGGGCTTACGCCCCAGTTAT
1 CAAAAGGGCTTATGCCCCAGTTAT
*
116989078 -TAAAGGGCTTATGCCCCAGTTAT
1 CAAAAGGGCTTATGCCCCAGTTAT
* *
116989101 AAAAAGGGCTTTTGCCCCAGTTAT
1 CAAAAGGGCTTATGCCCCAGTTAT
* *
116989125 TAAAAGAGGC-TAGGCCTCCAGTTAT
1 CAAAAG-GGCTTATGCC-CCAGTTAT
116989150 ATGATAAAGC
Statistics
Matches: 129, Mismatches: 10, Indels: 7
0.88 0.07 0.05
Matches are distributed among these distances:
23 43 0.33
24 75 0.58
25 11 0.09
ACGTcount: A:0.29, C:0.23, G:0.22, T:0.26
Consensus pattern (24 bp):
CAAAAGGGCTTATGCCCCAGTTAT
Found at i:116989052 original size:47 final size:48
Alignment explanation
Indices: 116988983--116989150 Score: 234
Period size: 47 Copynumber: 3.5 Consensus size: 48
116988973 GGAGGAAGTG
*
116988983 CAAAAGGGCTTATGCCCCAGTTAT-TAAAGGGCTTATGCCCCAGTTAT
1 CAAAAGGGCTTATGCCCCAGTTATAAAAAGGGCTTATGCCCCAGTTAT
* *
116989030 CAAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTACGCCCCAGTTAT
1 CAAAAGGGCTTATGCCCCAGTTATAAAAAGGGCTTATGCCCCAGTTAT
* *
116989078 -TAAAGGGCTTATGCCCCAGTTATAAAAAGGGCTTTTGCCCCAGTTAT
1 CAAAAGGGCTTATGCCCCAGTTATAAAAAGGGCTTATGCCCCAGTTAT
* *
116989125 TAAAAGAGGC-TAGGCCTCCAGTTATA
1 CAAAAG-GGCTTATGCC-CCAGTTATA
116989151 TGATAAAGCA
Statistics
Matches: 109, Mismatches: 8, Indels: 6
0.89 0.07 0.05
Matches are distributed among these distances:
47 67 0.61
48 30 0.28
49 12 0.11
ACGTcount: A:0.29, C:0.23, G:0.21, T:0.26
Consensus pattern (48 bp):
CAAAAGGGCTTATGCCCCAGTTATAAAAAGGGCTTATGCCCCAGTTAT
Found at i:116989099 original size:71 final size:71
Alignment explanation
Indices: 116988983--116989149 Score: 264
Period size: 71 Copynumber: 2.3 Consensus size: 71
116988973 GGAGGAAGTG
* *
116988983 CAAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCC
1 CAAAAGGGCTTACGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATAAAAAGGGCTTATGCCCC
116989048 AGTTAT
66 AGTTAT
*
116989054 CAAAAGGGCTTACGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATAAAAAGGGCTTTTGCCCC
1 CAAAAGGGCTTACGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATAAAAAGGGCTTATGCCCC
116989119 AGTTAT
66 AGTTAT
* *
116989125 TAAAAGAGGC-TAGGCCTCCAGTTAT
1 CAAAAG-GGCTTACGCC-CCAGTTAT
116989150 ATGATAAAGC
Statistics
Matches: 89, Mismatches: 5, Indels: 3
0.92 0.05 0.03
Matches are distributed among these distances:
71 78 0.88
72 11 0.12
ACGTcount: A:0.29, C:0.23, G:0.22, T:0.26
Consensus pattern (71 bp):
CAAAAGGGCTTACGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATAAAAAGGGCTTATGCCCC
AGTTAT
Found at i:116992597 original size:93 final size:93
Alignment explanation
Indices: 116992485--116992656 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
116992475 GCCCATAAGT
* *
116992485 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
116992550 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
*
116992578 GAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
116992643 CGAGTTCGGATGCC
66 CGAGTTCGGATGCC
116992657 CAAATATCCC
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.27, C:0.30, G:0.22, T:0.20
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:116992652 original size:46 final size:46
Alignment explanation
Indices: 116992477--116992652 Score: 232
Period size: 46 Copynumber: 3.8 Consensus size: 46
116992467 TGTAACCCGC
* * *
116992477 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
* *
116992523 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACG-CTCG---CAT
* *
116992573 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
116992616 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
116992653 TGCCCAAATA
Statistics
Matches: 112, Mismatches: 11, Indels: 14
0.82 0.08 0.10
Matches are distributed among these distances:
43 3 0.03
44 1 0.01
45 2 0.02
46 68 0.61
47 32 0.29
48 2 0.02
49 1 0.01
50 3 0.03
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.20
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
Found at i:116995368 original size:27 final size:27
Alignment explanation
Indices: 116995029--116995367 Score: 439
Period size: 27 Copynumber: 12.6 Consensus size: 27
116995019 AAAGTACTCC
116995029 CGATTTACAGAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
* * *
116995056 C-AGTTATAGAATTACTGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
** *
116995082 CGATTTGTAAAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
*
116995109 TGATTTACAGAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
**
116995136 C-AGTTTACAGAATTACTATTTTACCCT
1 CGA-TTTACAGAATTACCGTTTTACCCT
*
116995163 CGATTTACAGAATTACCGTTTTACCCC
1 CGATTTACAGAATTACCGTTTTACCCT
* * * *
116995190 CAATTTACATAATTACCATTTTACCCC
1 CGATTTACAGAATTACCGTTTTACCCT
* *
116995217 CGATTTACATAATTATCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
116995244 CGATTTACAGAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
* *
116995271 CGATTTATAGAATTACCATTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
* *
116995298 CGATTTATAGAATTACTGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
* * *
116995325 TGATTTATAGAATTACTGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
*
116995352 CGATTTACAAAATTAC
1 CGATTTACAGAATTAC
116995368 TAAACTACCC
Statistics
Matches: 275, Mismatches: 34, Indels: 6
0.87 0.11 0.02
Matches are distributed among these distances:
26 24 0.09
27 250 0.91
28 1 0.00
ACGTcount: A:0.28, C:0.23, G:0.09, T:0.40
Consensus pattern (27 bp):
CGATTTACAGAATTACCGTTTTACCCT
Found at i:116995404 original size:81 final size:81
Alignment explanation
Indices: 116995050--116995411 Score: 235
Period size: 81 Copynumber: 4.5 Consensus size: 81
116995040 ATTACCGTTT
* * *** ** * *
116995050 TACCCTC-AGTTATAGAATTACTGTTTTACCCTCGATTTGTAAAATTACCGTTTTACCCTTGATT
1 TACCCTCGATTTATAGAATTACCGCAATACCCTCGATTTACAGAATTACCGTTTTACCCTCGATT
* ****
116995114 TACAGAATTACCGTTT
66 TACAAAATTACCAAAC
* ***** * *
116995130 TACCCTC-AGTTTACAGAATTACTATTTTACCCTCGATTTACAGAATTACCGTTTTACCCCCAAT
1 TACCCTCGA-TTTATAGAATTACCGCAATACCCTCGATTTACAGAATTACCGTTTTACCCTCGAT
* ***
116995194 TTACATAATTACCATTT
65 TTACAAAATTACCAAAC
* * * * ***
116995211 TACCCCCGATTTACATAATTATCGTTTTACCCTCGATTTACAGAATTACCGTTTTACCCTCGATT
1 TACCCTCGATTTATAGAATTACCGCAATACCCTCGATTTACAGAATTACCGTTTTACCCTCGATT
* * ***
116995276 TATAGAATTACCATTT
66 TACAAAATTACCAAAC
* *** * * *
116995292 TACCCTCGATTTATAGAATTACTGTTTTACCCTTGATTTATAGAATTACTGTTTTACCCTCGATT
1 TACCCTCGATTTATAGAATTACCGCAATACCCTCGATTTACAGAATTACCGTTTTACCCTCGATT
*
116995357 TACAAAATTACTAAAC
66 TACAAAATTACCAAAC
* * * *
116995373 TACCCTTGGTTTGT-GAAATTACCGCAATACCCTCAATTT
1 TACCCTCGATTTATAG-AATTACCGCAATACCCTCGATTT
116995412 GTAAAACTAC
Statistics
Matches: 236, Mismatches: 43, Indels: 5
0.83 0.15 0.02
Matches are distributed among these distances:
80 9 0.04
81 226 0.96
82 1 0.00
ACGTcount: A:0.28, C:0.23, G:0.09, T:0.40
Consensus pattern (81 bp):
TACCCTCGATTTATAGAATTACCGCAATACCCTCGATTTACAGAATTACCGTTTTACCCTCGATT
TACAAAATTACCAAAC
Found at i:116996636 original size:25 final size:24
Alignment explanation
Indices: 116996603--116996650 Score: 60
Period size: 25 Copynumber: 2.0 Consensus size: 24
116996593 CTATAACATG
* * *
116996603 AAAATGACCGTTTTGCCCCTAGGT
1 AAAATGACCATTATACCCCTAGGT
116996627 AAAAGTGACCATTATACCCCTAGG
1 AAAA-TGACCATTATACCCCTAGG
116996651 GTTTATATAT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
24 4 0.20
25 16 0.80
ACGTcount: A:0.31, C:0.25, G:0.19, T:0.25
Consensus pattern (24 bp):
AAAATGACCATTATACCCCTAGGT
Found at i:116996701 original size:9 final size:9
Alignment explanation
Indices: 116996689--116996745 Score: 51
Period size: 9 Copynumber: 5.9 Consensus size: 9
116996679 TTTGATAAAC
116996689 ATGATATGT
1 ATGATATGT
*
116996698 ATGATATGCAC
1 ATGATATG--T
*
116996709 ATGACATGT
1 ATGATATGT
*
116996718 ATGATATGCAC
1 ATGATATG--T
116996729 ATGATATGT
1 ATGATATGT
116996738 ATGATATG
1 ATGATATG
116996746 CACATGAGAT
Statistics
Matches: 38, Mismatches: 6, Indels: 8
0.73 0.12 0.15
Matches are distributed among these distances:
9 23 0.61
11 15 0.39
ACGTcount: A:0.35, C:0.09, G:0.21, T:0.35
Consensus pattern (9 bp):
ATGATATGT
Found at i:116996712 original size:20 final size:20
Alignment explanation
Indices: 116996687--116996757 Score: 124
Period size: 20 Copynumber: 3.5 Consensus size: 20
116996677 ATTTTGATAA
116996687 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
*
116996707 ACATGACATGTATGATATGC
1 ACATGATATGTATGATATGC
116996727 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
*
116996747 ACATGAGATGT
1 ACATGATATGT
116996758 TCATAAATGC
Statistics
Matches: 48, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 48 1.00
ACGTcount: A:0.35, C:0.11, G:0.21, T:0.32
Consensus pattern (20 bp):
ACATGATATGTATGATATGC
Found at i:116996734 original size:11 final size:11
Alignment explanation
Indices: 116996698--116996752 Score: 55
Period size: 11 Copynumber: 5.4 Consensus size: 11
116996688 CATGATATGT
116996698 ATGATATGCAC
1 ATGATATGCAC
* *
116996709 ATGACATG--T
1 ATGATATGCAC
116996718 ATGATATGCAC
1 ATGATATGCAC
*
116996729 ATGATATG--T
1 ATGATATGCAC
116996738 ATGATATGCAC
1 ATGATATGCAC
116996749 ATGA
1 ATGA
116996753 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:116996834 original size:23 final size:23
Alignment explanation
Indices: 116996804--116996970 Score: 262
Period size: 23 Copynumber: 7.1 Consensus size: 23
116996794 AGGAAGTGCA
116996804 AAAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
*
116996827 AAAGGGCTTATGCCCCAGTTATCA
1 AAAGGGCTTATGCCCCAGTTAT-T
*
116996851 AAAGGGCTTATGCCCCAGTTATCA
1 AAAGGGCTTATGCCCCAGTTAT-T
*
116996875 AAAGGGCTTACGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
116996898 AAAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
*
116996921 AAAGGGCTTATGCCCCAGTTATAA
1 AAAGGGCTTATGCCCCAGTTAT-T
*
116996945 AAAGGGCTTTTGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
116996968 AAA
1 AAA
116996971 AGAGGCTAGG
Statistics
Matches: 135, Mismatches: 7, Indels: 4
0.92 0.05 0.03
Matches are distributed among these distances:
23 69 0.51
24 66 0.49
ACGTcount: A:0.29, C:0.23, G:0.21, T:0.28
Consensus pattern (23 bp):
AAAGGGCTTATGCCCCAGTTATT
Found at i:116996859 original size:24 final size:23
Alignment explanation
Indices: 116996803--116996977 Score: 260
Period size: 24 Copynumber: 7.4 Consensus size: 23
116996793 GAGGAAGTGC
116996803 AAAAGGGCTTATGCCCCAGTTAT
1 AAAAGGGCTTATGCCCCAGTTAT
*
116996826 TAAAGGGCTTATGCCCCAGTTAT
1 AAAAGGGCTTATGCCCCAGTTAT
116996849 CAAAAGGGCTTATGCCCCAGTTAT
1 -AAAAGGGCTTATGCCCCAGTTAT
*
116996873 CAAAAGGGCTTACGCCCCAGTTAT
1 -AAAAGGGCTTATGCCCCAGTTAT
*
116996897 TAAAGGGCTTATGCCCCAGTTAT
1 AAAAGGGCTTATGCCCCAGTTAT
*
116996920 TAAAGGGCTTATGCCCCAGTTAT
1 AAAAGGGCTTATGCCCCAGTTAT
*
116996943 AAAAAGGGCTTTTGCCCCAGTTATT
1 -AAAAGGGCTTATGCCCCAGTTA-T
116996968 AAAAGAGGCT
1 AAAAG-GGCT
116996978 AGGCCTCCAT
Statistics
Matches: 141, Mismatches: 7, Indels: 6
0.92 0.05 0.04
Matches are distributed among these distances:
23 66 0.47
24 70 0.50
25 5 0.04
ACGTcount: A:0.29, C:0.22, G:0.22, T:0.27
Consensus pattern (23 bp):
AAAAGGGCTTATGCCCCAGTTAT
Found at i:116996871 original size:47 final size:47
Alignment explanation
Indices: 116996802--116996970 Score: 277
Period size: 47 Copynumber: 3.6 Consensus size: 47
116996792 GGAGGAAGTG
116996802 CAAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTAT
1 CAAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTAT
* *
116996849 CAAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTACGCCCCAGTTAT
1 CAAAAGGGCTTATGCCCCAGTTAT-TAAAGGGCTTATGCCCCAGTTAT
*
116996897 -TAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTAT
1 CAAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTAT
* *
116996943 AAAAAGGGCTTTTGCCCCAGTTATTAAA
1 CAAAAGGGCTTATGCCCCAGTTATTAAA
116996971 AGAGGCTAGG
Statistics
Matches: 113, Mismatches: 7, Indels: 4
0.91 0.06 0.03
Matches are distributed among these distances:
46 21 0.19
47 71 0.63
48 21 0.19
ACGTcount: A:0.29, C:0.23, G:0.21, T:0.27
Consensus pattern (47 bp):
CAAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTAT
Found at i:116999837 original size:33 final size:33
Alignment explanation
Indices: 116999795--116999860 Score: 105
Period size: 33 Copynumber: 2.0 Consensus size: 33
116999785 TTCTTATGTG
*
116999795 TGTGAGACTTTAGTATTTAATAAGACTATGCCT
1 TGTGAGACTTTAGTATTCAATAAGACTATGCCT
* *
116999828 TGTGAGACTTTAGTATTCAGTAAGACTTTGCCT
1 TGTGAGACTTTAGTATTCAATAAGACTATGCCT
116999861 GTTGTGTCTA
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.27, C:0.14, G:0.20, T:0.39
Consensus pattern (33 bp):
TGTGAGACTTTAGTATTCAATAAGACTATGCCT
Found at i:117002366 original size:72 final size:72
Alignment explanation
Indices: 117002242--117002382 Score: 230
Period size: 72 Copynumber: 2.0 Consensus size: 72
117002232 AATCCAAGTC
* * *
117002242 AGAATTGCACAAGGTTTGAGCACTTGCACTTGGGCGTGGCATATGGTCGTGTCCCTGTCGAGCCC
1 AGAATTGCACAAGGTTTGAGCACTTGCACATGGGCGTGGCACACGGTCGTGTCCCTGTCGAGCCC
117002307 AAGTGTT
66 AAGTGTT
*
117002314 AGAATTGCACAAGGTTTGAGCACTTGCACATGGGCGTGGCACACGG-CGGTGTCCCTGTCGATCC
1 AGAATTGCACAAGGTTTGAGCACTTGCACATGGGCGTGGCACACGGTC-GTGTCCCTGTCGAGCC
117002378 CAAGT
65 CAAGT
117002383 CTAGTTTTAC
Statistics
Matches: 64, Mismatches: 4, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
71 1 0.02
72 63 0.98
ACGTcount: A:0.21, C:0.24, G:0.30, T:0.25
Consensus pattern (72 bp):
AGAATTGCACAAGGTTTGAGCACTTGCACATGGGCGTGGCACACGGTCGTGTCCCTGTCGAGCCC
AAGTGTT
Found at i:117006948 original size:2 final size:2
Alignment explanation
Indices: 117006941--117006965 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
117006931 GATAAGGATT
117006941 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
117006966 TCAAATGTGT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:117009546 original size:16 final size:15
Alignment explanation
Indices: 117009527--117009573 Score: 51
Period size: 16 Copynumber: 3.1 Consensus size: 15
117009517 AAAAGAGTGA
117009527 AAATGGAAAAGAAAAG
1 AAATGGAAAA-AAAAG
*
117009543 AAATCAGAAAAAAAAG
1 AAAT-GGAAAAAAAAG
*
117009559 AAA-GGAAAAACAAG
1 AAATGGAAAAAAAAG
117009573 A
1 A
117009574 GAAAAGAGTA
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
14 10 0.37
16 12 0.44
17 5 0.19
ACGTcount: A:0.72, C:0.04, G:0.19, T:0.04
Consensus pattern (15 bp):
AAATGGAAAAAAAAG
Found at i:117013013 original size:81 final size:83
Alignment explanation
Indices: 117012844--117013013 Score: 218
Period size: 83 Copynumber: 2.1 Consensus size: 83
117012834 GTTCACATTG
* * * *
117012844 GCTGCTGATTGTTCATGTATTTGAAGATTCAATGGACGACATTAAAGGGGAAACATGCATTTGGG
1 GCTGCTAATTGTTCATGTACTTGAAGATTCAATGGACCACATTAAAGGAGAAACATGCATTTGGG
* *
117012909 AGGTTCATGTAAGAGGGA
66 ACGTTCATGCAAGAGGGA
* * * *
117012927 GCTGCTAATTGTTCATGTACTTGAATATTC-GTGGACCACATTTATGGAGAAACATGCA-TTGGG
1 GCTGCTAATTGTTCATGTACTTGAAGATTCAATGGACCACATTAAAGGAGAAACATGCATTTGGG
* *
117012990 ACGTTCATGCATGTGGGA
66 ACGTTCATGCAAGAGGGA
117013008 GCTGCT
1 GCTGCT
117013014 GGTTGCTTTC
Statistics
Matches: 75, Mismatches: 12, Indels: 2
0.84 0.13 0.02
Matches are distributed among these distances:
81 25 0.33
82 23 0.31
83 27 0.36
ACGTcount: A:0.27, C:0.14, G:0.28, T:0.31
Consensus pattern (83 bp):
GCTGCTAATTGTTCATGTACTTGAAGATTCAATGGACCACATTAAAGGAGAAACATGCATTTGGG
ACGTTCATGCAAGAGGGA
Found at i:117014440 original size:43 final size:43
Alignment explanation
Indices: 117014276--117014432 Score: 174
Period size: 43 Copynumber: 3.7 Consensus size: 43
117014266 ACATTAGGTT
* *
117014276 ATCGAGATGTGATTACATGTAAGACCATGTTTGGGACATTGGC
1 ATCGATATGTGATTACATGTAAGACCATGTCTGGGACATTGGC
* * * *
117014319 ATTG-TATTGAGATTACGTGTAAGACCATGTTTGGGACATTGGC
1 ATCGATA-TGTGATTACATGTAAGACCATGTCTGGGACATTGGC
* * * * *
117014362 ATCGTTAAT-TGATTTCGTGTAAGACCCTGTCTGGGACAGTGGC
1 ATCGAT-ATGTGATTACATGTAAGACCATGTCTGGGACATTGGC
*
117014405 ATCGATATGTGATAACATGTAAGACCAT
1 ATCGATATGTGATTACATGTAAGACCAT
117014433 ACCTGGGATA
Statistics
Matches: 95, Mismatches: 15, Indels: 8
0.81 0.13 0.07
Matches are distributed among these distances:
42 3 0.03
43 89 0.94
44 2 0.02
45 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.26, T:0.32
Consensus pattern (43 bp):
ATCGATATGTGATTACATGTAAGACCATGTCTGGGACATTGGC
Found at i:117021882 original size:266 final size:267
Alignment explanation
Indices: 117021403--117021935 Score: 1005
Period size: 266 Copynumber: 2.0 Consensus size: 267
117021393 AAGGGAGTGT
117021403 GTGCGACTTGTTTATTTCAAGAATAGGCTGGATTCACCCAGTTGTACTTATATTTAATTATAACT
1 GTGCGACTTGTTTATTTCAAGAATAGGCTGGATTCACCCAGTTGTACTTATATTTAATTATAACT
*
117021468 AGGAAAGAAAAGAGTGCATGATCTCGCGAATTACTTCTGAATAAAATTTTAAAATCATATTATAG
66 AGGAAAGAAAAGAGTGCATGATCCCGCGAATTACTTCTGAATAAAATTTTAAAATCATATTATAG
* *
117021533 GACCATAACATTTCATGATTCATTGATACATCGACTTTTATTCTTTATTAACTAATAATTTGGGA
131 GACCATAACATTTCATGATTCATTGATACATCGACTTTGATTCTTTATTAACCAATAATTTGGGA
117021598 CCATTAACATGGTTAAGGCCAAACCTGTTTGATTAGTTATAACTATATTGAAT-AAAATTTCAAA
196 CCATTAACATGGTTAAGGCCAAACCTGTTTGATTAGTTATAACTATATTGAATAAAAATTTCAAA
117021662 ATTTTGA
261 ATTTTGA
*
117021669 GTGCTACTTGTTTATTTCAAGAATAGGCTGGATTCACCCAGTTGTACTTATATTTAATTATAACT
1 GTGCGACTTGTTTATTTCAAGAATAGGCTGGATTCACCCAGTTGTACTTATATTTAATTATAACT
117021734 AGGAAAGAAAAGAGTGCATGATCCCGCGAATTACTTCTGAATAAAATTTTAAAATCATATTATAG
66 AGGAAAGAAAAGAGTGCATGATCCCGCGAATTACTTCTGAATAAAATTTTAAAATCATATTATAG
* *
117021799 GACCATAGCATTTCGTGATTCATTGATACATCGACTTTGATTCTTTATTAACCAATAATTTGGGA
131 GACCATAACATTTCATGATTCATTGATACATCGACTTTGATTCTTTATTAACCAATAATTTGGGA
117021864 CCATTAACATGGTTAAGGCCAAACCTGTTTGATTAGTTATAACTATATTGAATAAAAATTTCAAA
196 CCATTAACATGGTTAAGGCCAAACCTGTTTGATTAGTTATAACTATATTGAATAAAAATTTCAAA
117021929 ATTTTGA
261 ATTTTGA
117021936 CTAGATCTTC
Statistics
Matches: 260, Mismatches: 6, Indels: 1
0.97 0.02 0.00
Matches are distributed among these distances:
266 242 0.93
267 18 0.07
ACGTcount: A:0.35, C:0.14, G:0.15, T:0.36
Consensus pattern (267 bp):
GTGCGACTTGTTTATTTCAAGAATAGGCTGGATTCACCCAGTTGTACTTATATTTAATTATAACT
AGGAAAGAAAAGAGTGCATGATCCCGCGAATTACTTCTGAATAAAATTTTAAAATCATATTATAG
GACCATAACATTTCATGATTCATTGATACATCGACTTTGATTCTTTATTAACCAATAATTTGGGA
CCATTAACATGGTTAAGGCCAAACCTGTTTGATTAGTTATAACTATATTGAATAAAAATTTCAAA
ATTTTGA
Found at i:117022928 original size:305 final size:303
Alignment explanation
Indices: 117022274--117023190 Score: 1579
Period size: 305 Copynumber: 3.0 Consensus size: 303
117022264 TGCCTACATG
*
117022274 AAAAGATTCCTTATCTAAAGATTTGACTCTTTTTATAAACTCCTTACTAAAATTTCTTCAGTTCA
1 AAAAGATTCCTTATTTAAAGATTTGACTCTTTTTATAAACTCCTTACTAAAATTTCTTCAGTTCA
* *
117022339 TTGATAAAACTCCAATCAGTATACAATTCATCATAAAACAATTTTTCTGGTGTGAA-TTTTTTTT
66 TTGATAAAACTCCAATCATTATACAATTCATCATAAAACAATTTCTCTGGTGTGAATTTTTTTTT
* * * *
117022403 TTGTATTATTTCCCCCAAAGTTGCTAAACTAGGTGGATACATAAAAGATATTTTTTTCTTTTCCA
131 TTGTATCATTTTCCCAAAAGTTGCTAAACTAGGTGGATACGTAAAAGATATTTTTTTCTTTTCCA
*
117022468 TCACTTTGACATGTATAAAAAAAA-ATTGTGACATTTCATTTTTTATAGCATTTTCAACCCTATC
196 TCACTTTGACATGTATAAAAAAAATATTGTGACATTTCATTTTTTATAGCATTTTCAACCCTGTC
*
117022532 -TTTTTTATATATCGCAAAGGTCGATTCCATCGTTTAGAGTAA
261 ATTTTTTATATATCGCAAAGGTCGATTCCATCGTTTAGAATAA
* *
117022574 AAAAGATTCCTTATTTAAAGATTTGACTCATTTTATAAACTCCTTACTAAAATTTATTCAGTTCA
1 AAAAGATTCCTTATTTAAAGATTTGACTCTTTTTATAAACTCCTTACTAAAATTTCTTCAGTTCA
117022639 TTGATAAAACTCCAATCATTATACAATTCATCATAAAACAATTTCTCTGGTGTGAATGTTTTTTT
66 TTGATAAAACTCCAATCATTATACAATTCATCATAAAACAATTTCTCTGGTGTGAAT-TTTTTTT
117022704 TTTGTATCATTTTCCCAAAAGTTGCTAAACTAGGTGGATACGTAAAAGATATTTTTTTCTTTTCC
130 TTTGTATCATTTTCCCAAAAGTTGCTAAACTAGGTGGATACGTAAAAGATATTTTTTTCTTTTCC
*
117022769 ATCACTTTGACATGTATAAAAAAAAATATTGTGACATTTCATTTCTTATAGCATTTTCAACCCTG
195 ATCACTTTGACATGTAT-AAAAAAAATATTGTGACATTTCATTTTTTATAGCATTTTCAACCCTG
*
117022834 TCATTTTTTATTTATCGCAAAGGTCGATTCCATCGTTTAGAATAA
259 TCATTTTTTATATATCGCAAAGGTCGATTCCATCGTTTAGAATAA
117022879 AAAAGATTCCTTATTTAAAGATTTGACTCTTTTTATAAACTCCTTACTAAAATTTCTTCAGTTCA
1 AAAAGATTCCTTATTTAAAGATTTGACTCTTTTTATAAACTCCTTACTAAAATTTCTTCAGTTCA
*
117022944 TTGATAAAACTCCAATCATTATACAATTCATCATAAAACAATTTCTCTAGTGTGAATATTTTTTT
66 TTGATAAAACTCCAATCATTATACAATTCATCATAAAACAATTTCTCTGGTGTGAAT-TTTTTTT
117023009 TTTGTATCATTTTCCCAAAAGTTGCTAAACTAGGTGGATACGTAAAAGATATTTTTTTTTTCTTT
130 TTTGTATCATTTTCCCAAAAGTTGCTAAACTAGGTGGATACGTAAAAGATA---TTTTTTTCTTT
*
117023074 TCCATCACTTTGACATGTATAAAAAAAATATTGTGACATTTCATTTTTTATAGCATTTTCAATCC
192 TCCATCACTTTGACATGTATAAAAAAAATATTGTGACATTTCATTTTTTATAGCATTTTCAACCC
* * * *
117023139 GGTAATTTTTTTATATATCGCAAAGGCCTATTCCATCGTTTAGAATAA
257 TGTCA-TTTTTTATATATCGCAAAGGTCGATTCCATCGTTTAGAATAA
117023187 AAAA
1 AAAA
117023191 TAAGTGTCAC
Statistics
Matches: 584, Mismatches: 24, Indels: 10
0.94 0.04 0.02
Matches are distributed among these distances:
300 116 0.20
302 85 0.15
303 8 0.01
304 38 0.07
305 217 0.37
307 46 0.08
308 74 0.13
ACGTcount: A:0.33, C:0.16, G:0.10, T:0.42
Consensus pattern (303 bp):
AAAAGATTCCTTATTTAAAGATTTGACTCTTTTTATAAACTCCTTACTAAAATTTCTTCAGTTCA
TTGATAAAACTCCAATCATTATACAATTCATCATAAAACAATTTCTCTGGTGTGAATTTTTTTTT
TTGTATCATTTTCCCAAAAGTTGCTAAACTAGGTGGATACGTAAAAGATATTTTTTTCTTTTCCA
TCACTTTGACATGTATAAAAAAAATATTGTGACATTTCATTTTTTATAGCATTTTCAACCCTGTC
ATTTTTTATATATCGCAAAGGTCGATTCCATCGTTTAGAATAA
Found at i:117034557 original size:49 final size:49
Alignment explanation
Indices: 117034498--117034686 Score: 193
Period size: 50 Copynumber: 3.8 Consensus size: 49
117034488 GTAGACAAGG
* * * * * *
117034498 TTATCAGGTACGCATAGTAGCTTGCACATACTACTACACATGTGACCAA
1 TTATCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGTGACCAA
* *
117034547 TTATCTGGTACACGTAGTAGCCTACACTTAGTACTACACACGTGACCTAA
1 TTATCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGTGACC-AA
** * * **
117034597 CCATCTGATACACGTAGTAGCCTGCACTTAGTACTACACACGTGATTGAAA
1 TTATCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGTGA--CCAA
*
117034648 TTAT-TGGGTACGCATAGTAG-CTGCACTTAGTACTACACA
1 TTATCT-GGTACACATAGTAGCCTGCACTTAGTACTACACA
117034687 TGCGACCTCC
Statistics
Matches: 117, Mismatches: 19, Indels: 7
0.82 0.13 0.05
Matches are distributed among these distances:
49 39 0.33
50 63 0.54
51 15 0.13
ACGTcount: A:0.31, C:0.24, G:0.17, T:0.28
Consensus pattern (49 bp):
TTATCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGTGACCAA
Found at i:117037960 original size:2 final size:2
Alignment explanation
Indices: 117037953--117038014 Score: 65
Period size: 2 Copynumber: 31.0 Consensus size: 2
117037943 TGTACATACC
* * *
117037953 TA TA TA TA TA TA T- TG T- TA CTA TA GA TT TA TGA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA -TA TA TA TA TA T-A TA TA TA TA TA
117037995 TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA
117038015 AAGTGACTTG
Statistics
Matches: 52, Mismatches: 4, Indels: 8
0.81 0.06 0.12
Matches are distributed among these distances:
1 2 0.04
2 46 0.88
3 4 0.08
ACGTcount: A:0.44, C:0.02, G:0.05, T:0.50
Consensus pattern (2 bp):
TA
Found at i:117038290 original size:20 final size:20
Alignment explanation
Indices: 117038265--117038314 Score: 64
Period size: 20 Copynumber: 2.5 Consensus size: 20
117038255 GCTTGTACGA
*
117038265 TTCGGTGCCCTTGTTTACAC
1 TTCGGTGCCCTTGTTCACAC
* *
117038285 TTCGGTGTCCTTGTTCGCAC
1 TTCGGTGCCCTTGTTCACAC
*
117038305 TACGGTGCCC
1 TTCGGTGCCC
117038315 CTGTATGCAT
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.08, C:0.32, G:0.24, T:0.36
Consensus pattern (20 bp):
TTCGGTGCCCTTGTTCACAC
Found at i:117039627 original size:29 final size:29
Alignment explanation
Indices: 117039585--117039641 Score: 96
Period size: 29 Copynumber: 2.0 Consensus size: 29
117039575 CAAGTCAGGT
*
117039585 TGTTACACAACCTAGAACATGACCTAAGC
1 TGTTACACAACCTAGAACATAACCTAAGC
*
117039614 TGTTACACGACCTAGAACATAACCTAAG
1 TGTTACACAACCTAGAACATAACCTAAG
117039642 ACAAGGGCGT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 26 1.00
ACGTcount: A:0.39, C:0.26, G:0.14, T:0.21
Consensus pattern (29 bp):
TGTTACACAACCTAGAACATAACCTAAGC
Found at i:117041484 original size:29 final size:29
Alignment explanation
Indices: 117041452--117041571 Score: 111
Period size: 29 Copynumber: 4.2 Consensus size: 29
117041442 TCACTTAACT
*
117041452 AAGATAGCCACAAGGGTATCCTTTTAATA
1 AAGATAGCCACAAAGGTATCCTTTTAATA
* * * *
117041481 AAGACAGCCATAAAGGTGTCCTTTTAACA
1 AAGATAGCCACAAAGGTATCCTTTTAATA
* *
117041510 AAGATAGCTACAAAGG-CTCC-TTTAATA
1 AAGATAGCCACAAAGGTATCCTTTTAATA
* *
117041537 GAGATTAGCCACAAAGG-ATTTCTTTTAATA
1 AAGA-TAGCCACAAAGGTA-TCCTTTTAATA
*
117041567 GAGAT
1 AAGAT
117041572 CACTGTAAAG
Statistics
Matches: 74, Mismatches: 14, Indels: 6
0.79 0.15 0.06
Matches are distributed among these distances:
27 9 0.12
28 14 0.19
29 40 0.54
30 11 0.15
ACGTcount: A:0.38, C:0.17, G:0.17, T:0.28
Consensus pattern (29 bp):
AAGATAGCCACAAAGGTATCCTTTTAATA
Found at i:117041553 original size:57 final size:57
Alignment explanation
Indices: 117041446--117041643 Score: 161
Period size: 58 Copynumber: 3.4 Consensus size: 57
117041436 AGACATTCAC
* * * * *
117041446 TTAACTAAGATAGCCACAAGGGTATCCTTTTAATAAAGA-CAGCCATAAAGG-TGTCCTT
1 TTAACAAAGATAGCCACAAAGG-CTCC-TTTAATAGAGATCAGCCACAAAGGAT-TCCTT
* * *
117041504 TTAACAAAGATAGCTACAAAGGCTCCTTTAATAGAGATTAGCCACAAAGGATTTCTT
1 TTAACAAAGATAGCCACAAAGGCTCCTTTAATAGAGATCAGCCACAAAGGATTCCTT
* * *** *
117041561 TTAATAGAGATCA-CTGTAAAGGCTTCCTTATAATAGAGATCA-CCACAAAGGCTTCCGTT
1 TTAACAAAGAT-AGCCACAAAGGC-TCCTT-TAATAGAGATCAGCCACAAAGGATTCC-TT
* *
117041620 TTAACATAGATTGCCACAAAGGCT
1 TTAACAAAGATAGCCACAAAGGCT
117041644 TACTTACAGA
Statistics
Matches: 112, Mismatches: 21, Indels: 14
0.76 0.14 0.10
Matches are distributed among these distances:
56 10 0.09
57 34 0.30
58 39 0.35
59 29 0.26
ACGTcount: A:0.36, C:0.19, G:0.17, T:0.28
Consensus pattern (57 bp):
TTAACAAAGATAGCCACAAAGGCTCCTTTAATAGAGATCAGCCACAAAGGATTCCTT
Found at i:117041566 original size:30 final size:29
Alignment explanation
Indices: 117041470--117041644 Score: 126
Period size: 29 Copynumber: 6.0 Consensus size: 29
117041460 CACAAGGGTA
* *
117041470 TCCTTTTAATAAAGA-CAGCCATAAAGG-T
1 TCCTTTTAATAGAGATCA-CCACAAAGGCT
* * *
117041498 GTCCTTTTAACAAAGAT-AGCTACAAAGGC-
1 -TCCTTTTAATAGAGATCA-CCACAAAGGCT
* *
117041527 TCC-TTTAATAGAGATTAGCCACAAAGGAT
1 TCCTTTTAATAGAGATCA-CCACAAAGGCT
* ***
117041556 TTCTTTTAATAGAGATCACTGTAAAGGCT
1 TCCTTTTAATAGAGATCACCACAAAGGCT
*
117041585 TCCTTATAATAGAGATCACCACAAAGGCT
1 TCCTTTTAATAGAGATCACCACAAAGGCT
* * **
117041614 TCCGTTTTAACATAGATTGCCACAAAGGCT
1 TCC-TTTTAATAGAGATCACCACAAAGGCT
117041644 T
1 T
117041645 ACTTACAGAA
Statistics
Matches: 117, Mismatches: 23, Indels: 11
0.77 0.15 0.07
Matches are distributed among these distances:
27 10 0.09
28 13 0.11
29 59 0.50
30 35 0.30
ACGTcount: A:0.35, C:0.19, G:0.16, T:0.29
Consensus pattern (29 bp):
TCCTTTTAATAGAGATCACCACAAAGGCT
Found at i:117041641 original size:59 final size:59
Alignment explanation
Indices: 117041446--117041649 Score: 170
Period size: 59 Copynumber: 3.5 Consensus size: 59
117041436 AGACATTCAC
* * * * * *
117041446 TTAACTAAGATAGCCAC-AAGGGTATCCTTTTAATAAAGA-CAGCCATAAAGG-TGTCCTT
1 TTAACAAAGATAGCTACAAAGGCT-TCCTTATAATAGAGATCAGCCACAAAGGAT-TCCTT
* *
117041504 TTAACAAAGATAGCTACAAAGGC-TCCTT-TAATAGAGATTAGCCACAAAGGATTTCTT
1 TTAACAAAGATAGCTACAAAGGCTTCCTTATAATAGAGATCAGCCACAAAGGATTCCTT
* * ** *
117041561 TTAATAGAGATCA-CTGTAAAGGCTTCCTTATAATAGAGATCA-CCACAAAGGCTTCCGTT
1 TTAACAAAGAT-AGCTACAAAGGCTTCCTTATAATAGAGATCAGCCACAAAGGATTCC-TT
* * * *
117041620 TTAACATAGATTGCCACAAAGGCTTACTTA
1 TTAACAAAGATAGCTACAAAGGCTTCCTTA
117041650 CAGAAACTAC
Statistics
Matches: 117, Mismatches: 21, Indels: 15
0.76 0.14 0.10
Matches are distributed among these distances:
56 8 0.07
57 36 0.31
58 34 0.29
59 39 0.33
ACGTcount: A:0.36, C:0.19, G:0.16, T:0.28
Consensus pattern (59 bp):
TTAACAAAGATAGCTACAAAGGCTTCCTTATAATAGAGATCAGCCACAAAGGATTCCTT
Found at i:117045246 original size:43 final size:43
Alignment explanation
Indices: 117045186--117045295 Score: 166
Period size: 43 Copynumber: 2.6 Consensus size: 43
117045176 GCATTATAGG
* * * *
117045186 ATGCTAGGCTCAAAGGCCCAAATACACATCACCGGCACGAAGC
1 ATGCTAGGCACGAAGGCCCGAATACACATCACCGGCACAAAGC
* *
117045229 CTGCTGGGCACGAAGGCCCGAATACACATCACCGGCACAAAGC
1 ATGCTAGGCACGAAGGCCCGAATACACATCACCGGCACAAAGC
117045272 ATGCTAGGCACGAAGGCCCGAATA
1 ATGCTAGGCACGAAGGCCCGAATA
117045296 TAATTCCAGC
Statistics
Matches: 59, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
43 59 1.00
ACGTcount: A:0.33, C:0.32, G:0.25, T:0.11
Consensus pattern (43 bp):
ATGCTAGGCACGAAGGCCCGAATACACATCACCGGCACAAAGC
Found at i:117051126 original size:22 final size:21
Alignment explanation
Indices: 117051096--117051142 Score: 58
Period size: 22 Copynumber: 2.2 Consensus size: 21
117051086 TACAAATTAA
117051096 ATCTCCAAGATTACAAGATCAT
1 ATCTCCAAGATTAC-AGATCAT
* * *
117051118 ATCTTCAAGATTGCATATCAT
1 ATCTCCAAGATTACAGATCAT
117051139 ATCT
1 ATCT
117051143 AAGATTGCAT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
21 10 0.45
22 12 0.55
ACGTcount: A:0.36, C:0.21, G:0.09, T:0.34
Consensus pattern (21 bp):
ATCTCCAAGATTACAGATCAT
Found at i:117051136 original size:16 final size:16
Alignment explanation
Indices: 117051115--117051165 Score: 57
Period size: 19 Copynumber: 2.9 Consensus size: 16
117051105 ATTACAAGAT
117051115 CATATCTTCAAGATTG
1 CATATCTTCAAGATTG
117051131 CATATCATATCTAAGATTG
1 CATATC-T-TC-AAGATTG
*
117051150 CATATCCTTAAAGATT
1 CATAT-CTTCAAGATT
117051166 ATATTTCCAT
Statistics
Matches: 30, Mismatches: 1, Indels: 7
0.79 0.03 0.18
Matches are distributed among these distances:
16 6 0.20
17 7 0.23
18 3 0.10
19 13 0.43
20 1 0.03
ACGTcount: A:0.35, C:0.18, G:0.10, T:0.37
Consensus pattern (16 bp):
CATATCTTCAAGATTG
Found at i:117051148 original size:19 final size:21
Alignment explanation
Indices: 117051113--117051155 Score: 72
Period size: 19 Copynumber: 2.1 Consensus size: 21
117051103 AGATTACAAG
117051113 ATCATATCTTCAAGATTGCAT
1 ATCATATCTTCAAGATTGCAT
117051134 ATCATATC-T-AAGATTGCAT
1 ATCATATCTTCAAGATTGCAT
117051153 ATC
1 ATC
117051156 CTTAAAGATT
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
19 13 0.59
20 1 0.05
21 8 0.36
ACGTcount: A:0.35, C:0.19, G:0.09, T:0.37
Consensus pattern (21 bp):
ATCATATCTTCAAGATTGCAT
Found at i:117054424 original size:46 final size:46
Alignment explanation
Indices: 117054374--117054466 Score: 168
Period size: 46 Copynumber: 2.0 Consensus size: 46
117054364 ATCTTAATTA
* *
117054374 GAAAATTTGTTCTCAATAAATTACATTAAATTAATTCCCAGGAAAG
1 GAAAATTTCTTCTCAAAAAATTACATTAAATTAATTCCCAGGAAAG
117054420 GAAAATTTCTTCTCAAAAAATTACATTAAATTAATTCCCAGGAAAG
1 GAAAATTTCTTCTCAAAAAATTACATTAAATTAATTCCCAGGAAAG
117054466 G
1 G
117054467 TTGGAGGGGT
Statistics
Matches: 45, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
46 45 1.00
ACGTcount: A:0.44, C:0.14, G:0.11, T:0.31
Consensus pattern (46 bp):
GAAAATTTCTTCTCAAAAAATTACATTAAATTAATTCCCAGGAAAG
Found at i:117066318 original size:26 final size:25
Alignment explanation
Indices: 117066278--117066368 Score: 89
Period size: 24 Copynumber: 3.7 Consensus size: 25
117066268 GGACTCACTG
*
117066278 CAGCTTGTAAGAGCTTACTGATATAT
1 CAGCTCGTAAGAGCTTACTGAT-TAT
* *
117066304 CAGCTCGTAAAAGCTTACT-ATTCT
1 CAGCTCGTAAGAGCTTACTGATTAT
* *
117066328 CAACTCGTATGAGCTTACTGATT-T
1 CAGCTCGTAAGAGCTTACTGATTAT
* *
117066352 -AGTTCGTCAGAGCTTAC
1 CAGCTCGTAAGAGCTTAC
117066369 CGTTTCAACT
Statistics
Matches: 54, Mismatches: 10, Indels: 5
0.78 0.14 0.07
Matches are distributed among these distances:
23 13 0.24
24 19 0.35
25 5 0.09
26 17 0.31
ACGTcount: A:0.27, C:0.21, G:0.18, T:0.34
Consensus pattern (25 bp):
CAGCTCGTAAGAGCTTACTGATTAT
Found at i:117071559 original size:23 final size:23
Alignment explanation
Indices: 117071516--117071560 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
117071506 GATCTACTAA
**
117071516 GCCTTTGTGGCATTTTATGTTTG
1 GCCTTTGTGGCAAATTATGTTTG
*
117071539 GCCTTTGTGGCAAATTCTGTTT
1 GCCTTTGTGGCAAATTATGTTT
117071561 CATCTCATTG
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.11, C:0.16, G:0.24, T:0.49
Consensus pattern (23 bp):
GCCTTTGTGGCAAATTATGTTTG
Found at i:117081168 original size:23 final size:23
Alignment explanation
Indices: 117081138--117081191 Score: 108
Period size: 23 Copynumber: 2.3 Consensus size: 23
117081128 TAGCTAGTTG
117081138 AAACCAAAAATGAGTTGCATATA
1 AAACCAAAAATGAGTTGCATATA
117081161 AAACCAAAAATGAGTTGCATATA
1 AAACCAAAAATGAGTTGCATATA
117081184 AAACCAAA
1 AAACCAAA
117081192 TGAATAGAAA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 31 1.00
ACGTcount: A:0.56, C:0.15, G:0.11, T:0.19
Consensus pattern (23 bp):
AAACCAAAAATGAGTTGCATATA
Found at i:117082082 original size:19 final size:20
Alignment explanation
Indices: 117082040--117082083 Score: 54
Period size: 19 Copynumber: 2.2 Consensus size: 20
117082030 CTATATTAAC
** *
117082040 ACAGTTGGGCCCATTTCAAT
1 ACAGTTGGGCCCATAACAAA
117082060 ACAGTT-GGCCCATAACAAA
1 ACAGTTGGGCCCATAACAAA
117082079 ACAGT
1 ACAGT
117082084 CTTATACGAT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
19 15 0.71
20 6 0.29
ACGTcount: A:0.34, C:0.25, G:0.18, T:0.23
Consensus pattern (20 bp):
ACAGTTGGGCCCATAACAAA
Found at i:117084564 original size:19 final size:19
Alignment explanation
Indices: 117084540--117084578 Score: 69
Period size: 19 Copynumber: 2.1 Consensus size: 19
117084530 TCTAGGATGC
*
117084540 ACATATAATTGGAGCCAAT
1 ACATATAATTAGAGCCAAT
117084559 ACATATAATTAGAGCCAAT
1 ACATATAATTAGAGCCAAT
117084578 A
1 A
117084579 TAAGAGAGGC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.46, C:0.15, G:0.13, T:0.26
Consensus pattern (19 bp):
ACATATAATTAGAGCCAAT
Found at i:117089235 original size:40 final size:40
Alignment explanation
Indices: 117089169--117089335 Score: 169
Period size: 40 Copynumber: 4.2 Consensus size: 40
117089159 AAATTGAATG
* * *
117089169 ATATCCGGGCTAAG-CCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* * ***
117089208 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
*
117089248 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGC-GAGTTATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTG-GTAATT
* * ** *
117089288 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCACGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
117089328 ATATCCGG
1 ATATCCGG
117089336 TTATATTCCG
Statistics
Matches: 105, Mismatches: 18, Indels: 9
0.80 0.14 0.07
Matches are distributed among these distances:
39 16 0.15
40 87 0.83
41 2 0.02
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
Found at i:117097228 original size:40 final size:40
Alignment explanation
Indices: 117097169--117097310 Score: 124
Period size: 40 Copynumber: 3.5 Consensus size: 40
117097159 AAATTGAATG
* * *
117097169 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
* * * ***
117097209 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
* * * ** *
117097249 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTTATT
1 ATATCCGGGCTAAGACCCGAAGACAATT-ATGCTAGAAACT
*
117097289 CTATCCGGGCTAAGACCCGAAG
1 ATATCCGGGCTAAGACCCGAAG
117097311 GCATTTGTGC
Statistics
Matches: 86, Mismatches: 15, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
39 3 0.03
40 83 0.97
ACGTcount: A:0.27, C:0.23, G:0.27, T:0.23
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
Found at i:117097311 original size:40 final size:39
Alignment explanation
Indices: 117097208--117097336 Score: 152
Period size: 40 Copynumber: 3.2 Consensus size: 39
117097198 TGCTGGAAAT
* * *
117097208 TATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGC
1 TATATCCGGGCTAAGACCCGAAGGC-ATTGTGCGAGTGAC
* *
117097248 TATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTAT
1 TATATCCGGGCTAAGACCCGAAGGCATT-GTGCGAGTGAC
* *
117097288 TCTATCCGGGCTAAGACCCGAAGGCATTTGTGC-ACGTGAT
1 TATATCCGGGCTAAGACCCGAAGGCA-TTGTGCGA-GTGAC
117097328 TATATCCGG
1 TATATCCGG
117097337 TTATATTCCG
Statistics
Matches: 78, Mismatches: 8, Indels: 6
0.85 0.09 0.07
Matches are distributed among these distances:
39 4 0.05
40 72 0.92
41 2 0.03
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (39 bp):
TATATCCGGGCTAAGACCCGAAGGCATTGTGCGAGTGAC
Found at i:117098581 original size:26 final size:26
Alignment explanation
Indices: 117098552--117098783 Score: 218
Period size: 27 Copynumber: 8.7 Consensus size: 26
117098542 TTTGGTTTAC
117098552 AAAATTACCAAAATACCCT-GCTTTGT
1 AAAATTACCAAAATACCCTAG-TTTGT
* * *
117098578 AAAATTACTAAAATACCCTTGGTTTAT
1 AAAATTACCAAAATACCC-TAGTTTGT
117098605 AAAATTACCAAAATACCCCTAGTTTGT
1 AAAATTACCAAAATA-CCCTAGTTTGT
117098632 AAAATTA-CAAAATACCCCTAGTTTGT
1 AAAATTACCAAAATA-CCCTAGTTTGT
*
117098658 AAAATTATCAAAATACCCCTAGTTT-T
1 AAAATTACCAAAATA-CCCTAGTTTGT
*
117098684 AAAATTACCAAAATACCCCTAATTTGT
1 AAAATTACCAAAATA-CCCTAGTTTGT
* ** * **
117098711 GAAATTACTGAAATACCCTCGACCTGT
1 AAAATTACCAAAATACCCTAG-TTTGT
*** * *
117098738 AAAATTATTGAAATACCCTCGACTTGT
1 AAAATTACCAAAATACCCTAG-TTTGT
*
117098765 AAAATTACCAAAGTACCCT
1 AAAATTACCAAAATACCCT
117098784 CGATTTATAG
Statistics
Matches: 179, Mismatches: 21, Indels: 11
0.85 0.10 0.05
Matches are distributed among these distances:
26 71 0.40
27 104 0.58
28 4 0.02
ACGTcount: A:0.41, C:0.21, G:0.08, T:0.31
Consensus pattern (26 bp):
AAAATTACCAAAATACCCTAGTTTGT
Found at i:117098613 original size:53 final size:53
Alignment explanation
Indices: 117098534--117098783 Score: 229
Period size: 53 Copynumber: 4.7 Consensus size: 53
117098524 TATCCATGTT
* **
117098534 TAAAATA-CTTTGGTTTACAAAATTACCAAAATACCCT-GCTTTGTAAAATTAC
1 TAAAATACCCTTGGTTTGTAAAATTACCAAAATACCCTAG-TTTGTAAAATTAC
*
117098586 TAAAATACCCTTGGTTTATAAAATTACCAAAATACCCCTAGTTTGTAAAATTAC
1 TAAAATACCCTTGGTTTGTAAAATTACCAAAATA-CCCTAGTTTGTAAAATTAC
* * *
117098640 -AAAATACCCCTAGTTTGTAAAATTATCAAAATACCCCTAGTTT-TAAAATTAC
1 TAAAATACCCTTGGTTTGTAAAATTACCAAAATA-CCCTAGTTTGTAAAATTAC
* * ** * ** * ** *
117098692 CAAAATACCCCTAATTTGTGAAATTACTGAAATACCCTCGACCTGTAAAATTAT
1 TAAAATACCCTTGGTTTGTAAAATTACCAAAATACCCTAG-TTTGTAAAATTAC
* * ** *
117098746 TGAAATACCCTCGACTTGTAAAATTACCAAAGTACCCT
1 TAAAATACCCTTGGTTTGTAAAATTACCAAAATACCCT
117098784 CGATTTATAG
Statistics
Matches: 167, Mismatches: 25, Indels: 10
0.83 0.12 0.05
Matches are distributed among these distances:
52 21 0.13
53 92 0.55
54 53 0.32
55 1 0.01
ACGTcount: A:0.40, C:0.20, G:0.08, T:0.32
Consensus pattern (53 bp):
TAAAATACCCTTGGTTTGTAAAATTACCAAAATACCCTAGTTTGTAAAATTAC
Found at i:117098617 original size:27 final size:27
Alignment explanation
Indices: 117098552--117098728 Score: 236
Period size: 27 Copynumber: 6.7 Consensus size: 27
117098542 TTTGGTTTAC
117098552 AAAATTACCAAAATA-CCCT-GCTTTGT
1 AAAATTACCAAAATACCCCTAG-TTTGT
* * * *
117098578 AAAATTACTAAAATACCCTTGGTTTAT
1 AAAATTACCAAAATACCCCTAGTTTGT
117098605 AAAATTACCAAAATACCCCTAGTTTGT
1 AAAATTACCAAAATACCCCTAGTTTGT
117098632 AAAATTA-CAAAATACCCCTAGTTTGT
1 AAAATTACCAAAATACCCCTAGTTTGT
*
117098658 AAAATTATCAAAATACCCCTAGTTT-T
1 AAAATTACCAAAATACCCCTAGTTTGT
*
117098684 AAAATTACCAAAATACCCCTAATTTGT
1 AAAATTACCAAAATACCCCTAGTTTGT
* **
117098711 GAAATTACTGAAATACCC
1 AAAATTACCAAAATACCC
117098729 TCGACCTGTA
Statistics
Matches: 135, Mismatches: 12, Indels: 7
0.88 0.08 0.05
Matches are distributed among these distances:
26 64 0.47
27 70 0.52
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:117098798 original size:54 final size:54
Alignment explanation
Indices: 117098552--117098963 Score: 155
Period size: 54 Copynumber: 7.7 Consensus size: 54
117098542 TTTGGTTTAC
* * * * ** * ** *
117098552 AAAATTACCAAAATACCCT-GCTTTGTAAAATTACTAAAATACCCTTGGTTTAT
1 AAAATTACCAAAGTACCCTCGATTTATAGAATTACCGAAATACCCTCGACTTGT
* * * * * * *
117098605 AAAATTACCAAAATACCC-CTAGTTTGTAAAATTA-CAAAATACCC-CTAGTTTGT
1 AAAATTACCAAAGTACCCTCGA-TTTATAGAATTACCGAAATACCCTCGA-CTTGT
* * * * * * *
117098658 AAAATTATCAAAATACCC-CTAGTTT-TAAAATTACCAAAATACCC-CTAATTTGT
1 AAAATTACCAAAGTACCCTCGA-TTTATAGAATTACCGAAATACCCTC-GACTTGT
* * ** * * **
117098711 GAAATTACTGAAA-TACCCTCGACCTGTAAAATTATTGAAATACCCTCGACTTGT
1 AAAATTAC-CAAAGTACCCTCGATTTATAGAATTACCGAAATACCCTCGACTTGT
*** *
117098765 AAAATTACCAAAGTACCCTCGATTTATAGAATTACCGTTTTACCCTCGATTTGT
1 AAAATTACCAAAGTACCCTCGATTTATAGAATTACCGAAATACCCTCGACTTGT
**** *** *
117098819 AAAATTACCGTTTTACCCTCGATTTATAGAATTACCGTTTTACCCTC-AGTT-T
1 AAAATTACCAAAGTACCCTCGATTTATAGAATTACCGAAATACCCTCGACTTGT
* *** *** *
117098871 ACAGAATTACTATTTTACCCTCGATTTATAGAATTACCGTTTTACCCTC-AGTT-T
1 A-A-AATTACCAAAGTACCCTCGATTTATAGAATTACCGAAATACCCTCGACTTGT
* ***
117098925 ACAGAATTACTATTTTACCCTCGATTTATAGAATTACCG
1 A-A-AATTACCAAAGTACCCTCGATTTATAGAATTACCG
117098964 TTTTACCCCT
Statistics
Matches: 308, Mismatches: 39, Indels: 23
0.83 0.11 0.06
Matches are distributed among these distances:
52 10 0.03
53 90 0.29
54 207 0.67
55 1 0.00
ACGTcount: A:0.35, C:0.21, G:0.09, T:0.35
Consensus pattern (54 bp):
AAAATTACCAAAGTACCCTCGATTTATAGAATTACCGAAATACCCTCGACTTGT
Found at i:117099151 original size:27 final size:27
Alignment explanation
Indices: 117098778--117099150 Score: 466
Period size: 27 Copynumber: 13.8 Consensus size: 27
117098768 ATTACCAAAG
*
117098778 TACCCTCGATTTATAGAATTACCGTTT
1 TACCCTCGATTTACAGAATTACCGTTT
** *
117098805 TACCCTCGATTTGTAAAATTACCGTTT
1 TACCCTCGATTTACAGAATTACCGTTT
*
117098832 TACCCTCGATTTATAGAATTACCGTTT
1 TACCCTCGATTTACAGAATTACCGTTT
**
117098859 TACCCTC-AGTTTACAGAATTACTATTT
1 TACCCTCGA-TTTACAGAATTACCGTTT
*
117098886 TACCCTCGATTTATAGAATTACCGTTT
1 TACCCTCGATTTACAGAATTACCGTTT
**
117098913 TACCCTC-AGTTTACAGAATTACTATTT
1 TACCCTCGA-TTTACAGAATTACCGTTT
*
117098940 TACCCTCGATTTATAGAATTACCGTTT
1 TACCCTCGATTTACAGAATTACCGTTT
* *
117098967 TACCC-CTAATTTACATAATTACCGTTT
1 TACCCTC-GATTTACAGAATTACCGTTT
* *
117098994 TACCC-CTGATTTACATAATTATCGTTT
1 TACCCTC-GATTTACAGAATTACCGTTT
* *
117099021 TACCCTCAATTTACAGAATTACTGTTT
1 TACCCTCGATTTACAGAATTACCGTTT
* *
117099048 TACCCTAGATTTACAGAATTACCATTT
1 TACCCTCGATTTACAGAATTACCGTTT
* *
117099075 TACCCTCGATTTATAGAATTACTGTTT
1 TACCCTCGATTTACAGAATTACCGTTT
* *
117099102 TACCCTTGATTTACAGAATTACTGTTT
1 TACCCTCGATTTACAGAATTACCGTTT
*
117099129 TACCCTCGATTTACAAAATTAC
1 TACCCTCGATTTACAGAATTAC
117099151 TAAAATACCC
Statistics
Matches: 303, Mismatches: 37, Indels: 12
0.86 0.11 0.03
Matches are distributed among these distances:
26 3 0.01
27 297 0.98
28 3 0.01
ACGTcount: A:0.28, C:0.22, G:0.09, T:0.41
Consensus pattern (27 bp):
TACCCTCGATTTACAGAATTACCGTTT
Found at i:117100414 original size:25 final size:25
Alignment explanation
Indices: 117100385--117100432 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
117100375 TTATAATATG
* * *
117100385 AAAATGACCGTTTTGCCCCTAGGTA
1 AAAATGACCATTATACCCCTAGGTA
117100410 AAAATGACCATTATACCCCTAGG
1 AAAATGACCATTATACCCCTAGG
117100433 GTTTATGTAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.33, C:0.25, G:0.17, T:0.25
Consensus pattern (25 bp):
AAAATGACCATTATACCCCTAGGTA
Found at i:117100501 original size:20 final size:20
Alignment explanation
Indices: 117100476--117100534 Score: 100
Period size: 20 Copynumber: 3.0 Consensus size: 20
117100466 TAAATATGGT
117100476 ATGTATGATATGCACATGAA
1 ATGTATGATATGCACATGAA
* *
117100496 ATGTATGCTATGCACATGAT
1 ATGTATGATATGCACATGAA
117100516 ATGTATGATATGCACATGA
1 ATGTATGATATGCACATGA
117100535 GGTAATCATA
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 36 1.00
ACGTcount: A:0.36, C:0.12, G:0.20, T:0.32
Consensus pattern (20 bp):
ATGTATGATATGCACATGAA
Found at i:117100612 original size:24 final size:24
Alignment explanation
Indices: 117100585--117100703 Score: 170
Period size: 24 Copynumber: 5.0 Consensus size: 24
117100575 GAGGAAGTGA
*
117100585 AAAAGGGCTTATGCCCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTATT
117100609 AAAAGGGCTTATGCCCCAGTTA-T
1 AAAAGGGCTTATGCCCCAGTTATT
117100632 AAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
* *
117100656 GAAAGGGCTTTTGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
*
117100680 AAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAG-GGCTTATGCC-CCAGTTAT
117100704 ATGATAAAGC
Statistics
Matches: 86, Mismatches: 6, Indels: 5
0.89 0.06 0.05
Matches are distributed among these distances:
23 22 0.26
24 53 0.62
25 11 0.13
ACGTcount: A:0.29, C:0.22, G:0.23, T:0.27
Consensus pattern (24 bp):
AAAAGGGCTTATGCCCCAGTTATT
Found at i:117100654 original size:47 final size:48
Alignment explanation
Indices: 117100585--117100703 Score: 170
Period size: 47 Copynumber: 2.5 Consensus size: 48
117100575 GAGGAAGTGA
117100585 AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTA-T
1 AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATT
** *
117100632 AAAAGGGCTTATGCCCCAGTTATTGAAAGGGCTTTTGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATT
*
117100680 AAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAG-GGCTTATGCC-CCAGTTAT
117100704 ATGATAAAGC
Statistics
Matches: 65, Mismatches: 4, Indels: 4
0.89 0.05 0.05
Matches are distributed among these distances:
47 43 0.66
48 11 0.17
49 11 0.17
ACGTcount: A:0.29, C:0.22, G:0.23, T:0.27
Consensus pattern (48 bp):
AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATT
Found at i:117100930 original size:31 final size:31
Alignment explanation
Indices: 117100895--117100958 Score: 119
Period size: 31 Copynumber: 2.1 Consensus size: 31
117100885 CGTTTACAGT
117100895 AAAGGCTTCGGCCCAGTAATATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
*
117100926 AAAGGCTTCGGCCCAGTATTATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
117100957 AA
1 AA
117100959 TATGAAAAGG
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.39, C:0.16, G:0.22, T:0.23
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTAATATGAAATATGA
Found at i:117104013 original size:31 final size:31
Alignment explanation
Indices: 117103972--117104035 Score: 101
Period size: 31 Copynumber: 2.1 Consensus size: 31
117103962 CCTTTTCATA
*
117103972 TTTCATATTTCATAACACTGGGCCGAAGCCT
1 TTTCAAATTTCATAACACTGGGCCGAAGCCT
**
117104003 TTTCAAATTTCATATTACTGGGCCGAAGCCT
1 TTTCAAATTTCATAACACTGGGCCGAAGCCT
117104034 TT
1 TT
117104036 ACGGTAAACG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.25, C:0.23, G:0.16, T:0.36
Consensus pattern (31 bp):
TTTCAAATTTCATAACACTGGGCCGAAGCCT
Found at i:117104281 original size:24 final size:24
Alignment explanation
Indices: 117104229--117104418 Score: 278
Period size: 24 Copynumber: 8.0 Consensus size: 24
117104219 GCTTTATCAT
*
117104229 ATAACTGGAGGCCT-AGCCTCTTTTA
1 ATAACTGG-GGCATAAGCC-CTTTTA
* *
117104254 ATAACTGGGGCAAAAGCCCTTTTT
1 ATAACTGGGGCATAAGCCCTTTTA
117104278 ATAACTGGGGCATAAGCCC-TTTA
1 ATAACTGGGGCATAAGCCCTTTTA
* *
117104301 ATAACTGGGGCGTAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTA
*
117104325 ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTA
*
117104349 ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTA
117104373 ATAACTGGGGCATAAGCCC-TTTA
1 ATAACTGGGGCATAAGCCCTTTTA
117104396 ATAACTGGGGCATAAGCCCTTTT
1 ATAACTGGGGCATAAGCCCTTTT
117104419 TCACTTCCTC
Statistics
Matches: 153, Mismatches: 9, Indels: 7
0.91 0.05 0.04
Matches are distributed among these distances:
23 43 0.28
24 98 0.64
25 12 0.08
ACGTcount: A:0.26, C:0.22, G:0.23, T:0.29
Consensus pattern (24 bp):
ATAACTGGGGCATAAGCCCTTTTA
Found at i:117104305 original size:47 final size:48
Alignment explanation
Indices: 117104228--117104419 Score: 291
Period size: 47 Copynumber: 4.0 Consensus size: 48
117104218 TGCTTTATCA
* *
117104228 TATAACTGGAGGCCT-AGCCTCTTTTAATAACTGGGGCAAAAGCCCTTTT
1 TATAACTGG-GGCATAAGCC-CTTTTAATAACTGGGGCATAAGCCCTTTT
*
117104277 TATAACTGGGGCATAAGCCC-TTTAATAACTGGGGCGTAAGCCCTTTT
1 TATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCTTTT
* *
117104324 GATAACTGGGGCATAAGCCCTTTTGATAACTGGGGCATAAGCCCTTTT
1 TATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCTTTT
*
117104372 GATAACTGGGGCATAAGCCC-TTTAATAACTGGGGCATAAGCCCTTTT
1 TATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCTTTT
117104419 T
1 T
117104420 CACTTCCTCC
Statistics
Matches: 133, Mismatches: 8, Indels: 6
0.90 0.05 0.04
Matches are distributed among these distances:
47 70 0.53
48 50 0.38
49 13 0.10
ACGTcount: A:0.26, C:0.21, G:0.23, T:0.30
Consensus pattern (48 bp):
TATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCTTTT
Found at i:117104329 original size:71 final size:72
Alignment explanation
Indices: 117104229--117104419 Score: 289
Period size: 71 Copynumber: 2.7 Consensus size: 72
117104219 GCTTTATCAT
* *
117104229 ATAACTGGAGGCCT-AGCCTCTTTTAATAACTGGGGCAAAAGCCCTTTTTATAACTGGGGCATAA
1 ATAACTGG-GGCATAAGCC-CTTTTAATAACTGGGGCATAAGCCCTTTTTATAACTGGGGCATAA
117104293 GCCC-TTTA
64 GCCCTTTTA
* * *
117104301 ATAACTGGGGCGTAAGCCCTTTTGATAACTGGGGCATAAGCCCTTTTGATAACTGGGGCATAAGC
1 ATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCTTTTTATAACTGGGGCATAAGC
*
117104366 CCTTTTG
66 CCTTTTA
117104373 ATAACTGGGGCATAAGCCC-TTTAATAACTGGGGCATAAGCCCTTTTT
1 ATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCTTTTT
117104420 CACTTCCTCC
Statistics
Matches: 109, Mismatches: 8, Indels: 5
0.89 0.07 0.04
Matches are distributed among these distances:
71 76 0.70
72 33 0.30
ACGTcount: A:0.26, C:0.21, G:0.23, T:0.29
Consensus pattern (72 bp):
ATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCTTTTTATAACTGGGGCATAAGC
CCTTTTA
Found at i:117104491 original size:9 final size:9
Alignment explanation
Indices: 117104477--117104533 Score: 51
Period size: 9 Copynumber: 5.9 Consensus size: 9
117104467 ATCTCGTGTG
117104477 CATATCATA
1 CATATCATA
*
117104486 CATATCATGTG
1 CATATCA--TA
117104497 CATATCATA
1 CATATCATA
* *
117104506 CATGTCATGTG
1 CATATCA--TA
117104517 CATATCATA
1 CATATCATA
117104526 CATATCAT
1 CATATCAT
117104534 GTTTATCAAA
Statistics
Matches: 38, Mismatches: 6, Indels: 8
0.73 0.12 0.15
Matches are distributed among these distances:
9 23 0.61
11 15 0.39
ACGTcount: A:0.35, C:0.21, G:0.09, T:0.35
Consensus pattern (9 bp):
CATATCATA
Found at i:117104496 original size:20 final size:20
Alignment explanation
Indices: 117104473--117104535 Score: 117
Period size: 20 Copynumber: 3.1 Consensus size: 20
117104463 GAACATCTCG
117104473 TGTGCATATCATACATATCA
1 TGTGCATATCATACATATCA
*
117104493 TGTGCATATCATACATGTCA
1 TGTGCATATCATACATATCA
117104513 TGTGCATATCATACATATCA
1 TGTGCATATCATACATATCA
117104533 TGT
1 TGT
117104536 TTATCAAAAT
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 41 1.00
ACGTcount: A:0.32, C:0.19, G:0.13, T:0.37
Consensus pattern (20 bp):
TGTGCATATCATACATATCA
Found at i:117104618 original size:25 final size:25
Alignment explanation
Indices: 117104572--117104619 Score: 60
Period size: 25 Copynumber: 1.9 Consensus size: 25
117104562 ATATATAAAC
* * * *
117104572 CCTAGGGGTATAATGGTTATTTTTA
1 CCTAGGGGCAAAACGGTCATTTTTA
117104597 CCTAGGGGCAAAACGGTCATTTT
1 CCTAGGGGCAAAACGGTCATTTT
117104620 CATATTATAA
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 19 1.00
ACGTcount: A:0.25, C:0.15, G:0.25, T:0.35
Consensus pattern (25 bp):
CCTAGGGGCAAAACGGTCATTTTTA
Found at i:117105891 original size:27 final size:27
Alignment explanation
Indices: 117105862--117106199 Score: 425
Period size: 27 Copynumber: 12.6 Consensus size: 27
117105852 GGGTATTTTA
* *
117105862 GTAATTTTGTAAATCGAGGGTAAAACA
1 GTAATTCTGTAAATCGAGGGTAAAACG
* * *
117105889 GTAATTCTGTAAATCAAGGGTGAAACA
1 GTAATTCTGTAAATCGAGGGTAAAACG
* *
117105916 GTAATTCTATAAATCGAGGGTAAAATG
1 GTAATTCTGTAAATCGAGGGTAAAACG
117105943 GTAATTCTGTAAAT-GAGGGTAAAA-G
1 GTAATTCTGTAAATCGAGGGTAAAACG
117105968 GTAATTCTGTAAATCGAGGGTAAAACG
1 GTAATTCTGTAAATCGAGGGTAAAACG
* * * *
117105995 ATAATTATGTAAATCGGGGGTAAAACA
1 GTAATTCTGTAAATCGAGGGTAAAACG
* *
117106022 GTAATTATGTAAATTG-GGGTAAAACG
1 GTAATTCTGTAAATCGAGGGTAAAACG
**
117106048 GTAATTCTGTAAATCGAGGGTAAAATA
1 GTAATTCTGTAAATCGAGGGTAAAACG
117106075 GTAATTCTGTAAA-CTGAGGGTAAAACG
1 GTAATTCTGTAAATC-GAGGGTAAAACG
*
117106102 GATAATTCTATAAATCGAGGGTAAAACG
1 G-TAATTCTGTAAATCGAGGGTAAAACG
* **
117106130 GTAATTTTACAAATCGAGGGTAAAACG
1 GTAATTCTGTAAATCGAGGGTAAAACG
* *
117106157 GTAATTCTAT-AACCTGAGGGTAAAACG
1 GTAATTCTGTAAATC-GAGGGTAAAACG
117106184 GTAATTCTGTAAATCG
1 GTAATTCTGTAAATCG
117106200 GGAGTACTTT
Statistics
Matches: 273, Mismatches: 30, Indels: 16
0.86 0.09 0.05
Matches are distributed among these distances:
25 15 0.05
26 47 0.17
27 183 0.67
28 27 0.10
29 1 0.00
ACGTcount: A:0.40, C:0.09, G:0.23, T:0.28
Consensus pattern (27 bp):
GTAATTCTGTAAATCGAGGGTAAAACG
Found at i:117106243 original size:81 final size:82
Alignment explanation
Indices: 117105871--117106232 Score: 303
Period size: 79 Copynumber: 4.5 Consensus size: 82
117105861 AGTAATTTTG
* * ** * **
117105871 TAAATCGAGGGTAAAACAGTAATTCTGTAAATCAAGGGTGAAACAGTAATTCTATAAA-TCGAGG
1 TAAATCGAGGGTAAAACGGTAATTTTACAAATCGAGGGCAAAACAGTAATTCTATAAACT-GAGG
* *
117105935 GTAAAATGG-TAATTCTG
65 GTAAAACGGATAATTCTA
* ** * * * *
117105952 TAAAT-GAGGGTAAAA-GGTAATTCTGTAAATCGAGGGTAAAAC-GATAATTATGTAAA-TCGGG
1 TAAATCGAGGGTAAAACGGTAATTTTACAAATCGAGGGCAAAACAG-TAATTCTATAAACT-GAG
* * *
117106013 GGTAAAACAG-TAATTATG
64 GGTAAAACGGATAATTCTA
* * ** * * *
117106031 TAAATTG-GGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAATAGTAATTCTGTAAACTGAGGG
1 TAAATCGAGGGTAAAACGGTAATTTTACAAATCGAGGGCAAAACAGTAATTCTATAAACTGAGGG
117106095 TAAAACGGATAATTCTA
66 TAAAACGGATAATTCTA
* * *
117106112 TAAATCGAGGGTAAAACGGTAATTTTACAAATCGAGGGTAAAACGGTAATTCTATAACCTGAGGG
1 TAAATCGAGGGTAAAACGGTAATTTTACAAATCGAGGGCAAAACAGTAATTCTATAAACTGAGGG
*
117106177 TAAAACGG-TAATTCTG
66 TAAAACGGATAATTCTA
**** *
117106193 TAAATCG-GGAGTACTTTGGTAATTTTACAAGTCGAGGGCA
1 TAAATCGAGG-GTAAAACGGTAATTTTACAAATCGAGGGCA
117106233 TTTCAGTAAT
Statistics
Matches: 243, Mismatches: 30, Indels: 16
0.84 0.10 0.06
Matches are distributed among these distances:
78 1 0.00
79 66 0.27
80 61 0.25
81 57 0.23
82 58 0.24
ACGTcount: A:0.39, C:0.10, G:0.24, T:0.27
Consensus pattern (82 bp):
TAAATCGAGGGTAAAACGGTAATTTTACAAATCGAGGGCAAAACAGTAATTCTATAAACTGAGGG
TAAAACGGATAATTCTA
Found at i:117109090 original size:31 final size:31
Alignment explanation
Indices: 117109049--117109112 Score: 101
Period size: 31 Copynumber: 2.1 Consensus size: 31
117109039 CCTTTTCATA
*
117109049 TTTCATATTTCATAACACTGGGCCGAAGCCT
1 TTTCAAATTTCATAACACTGGGCCGAAGCCT
**
117109080 TTTCAAATTTCATATTACTGGGCCGAAGCCT
1 TTTCAAATTTCATAACACTGGGCCGAAGCCT
117109111 TT
1 TT
117109113 ACGGTAAACG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.25, C:0.23, G:0.16, T:0.36
Consensus pattern (31 bp):
TTTCAAATTTCATAACACTGGGCCGAAGCCT
Found at i:117109358 original size:24 final size:24
Alignment explanation
Indices: 117109306--117109495 Score: 278
Period size: 24 Copynumber: 8.0 Consensus size: 24
117109296 GCTTTATCAT
*
117109306 ATAACTGGAGGCCT-AGCCTCTTTTA
1 ATAACTGG-GGCATAAGCC-CTTTTA
* *
117109331 ATAACTGGGGCAAAAGCCCTTTTT
1 ATAACTGGGGCATAAGCCCTTTTA
117109355 ATAACTGGGGCATAAGCCC-TTTA
1 ATAACTGGGGCATAAGCCCTTTTA
* *
117109378 ATAACTGGGGCGTAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTA
*
117109402 ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTA
*
117109426 ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTA
117109450 ATAACTGGGGCATAAGCCC-TTTA
1 ATAACTGGGGCATAAGCCCTTTTA
117109473 ATAACTGGGGCATAAGCCCTTTT
1 ATAACTGGGGCATAAGCCCTTTT
117109496 TCACTTCCTC
Statistics
Matches: 153, Mismatches: 9, Indels: 7
0.91 0.05 0.04
Matches are distributed among these distances:
23 43 0.28
24 98 0.64
25 12 0.08
ACGTcount: A:0.26, C:0.22, G:0.23, T:0.29
Consensus pattern (24 bp):
ATAACTGGGGCATAAGCCCTTTTA
Found at i:117109382 original size:47 final size:48
Alignment explanation
Indices: 117109305--117109496 Score: 291
Period size: 47 Copynumber: 4.0 Consensus size: 48
117109295 TGCTTTATCA
* *
117109305 TATAACTGGAGGCCT-AGCCTCTTTTAATAACTGGGGCAAAAGCCCTTTT
1 TATAACTGG-GGCATAAGCC-CTTTTAATAACTGGGGCATAAGCCCTTTT
*
117109354 TATAACTGGGGCATAAGCCC-TTTAATAACTGGGGCGTAAGCCCTTTT
1 TATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCTTTT
* *
117109401 GATAACTGGGGCATAAGCCCTTTTGATAACTGGGGCATAAGCCCTTTT
1 TATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCTTTT
*
117109449 GATAACTGGGGCATAAGCCC-TTTAATAACTGGGGCATAAGCCCTTTT
1 TATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCTTTT
117109496 T
1 T
117109497 CACTTCCTCC
Statistics
Matches: 133, Mismatches: 8, Indels: 6
0.90 0.05 0.04
Matches are distributed among these distances:
47 70 0.53
48 50 0.38
49 13 0.10
ACGTcount: A:0.26, C:0.21, G:0.23, T:0.30
Consensus pattern (48 bp):
TATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCTTTT
Found at i:117109406 original size:71 final size:72
Alignment explanation
Indices: 117109306--117109496 Score: 289
Period size: 71 Copynumber: 2.7 Consensus size: 72
117109296 GCTTTATCAT
* *
117109306 ATAACTGGAGGCCT-AGCCTCTTTTAATAACTGGGGCAAAAGCCCTTTTTATAACTGGGGCATAA
1 ATAACTGG-GGCATAAGCC-CTTTTAATAACTGGGGCATAAGCCCTTTTTATAACTGGGGCATAA
117109370 GCCC-TTTA
64 GCCCTTTTA
* * *
117109378 ATAACTGGGGCGTAAGCCCTTTTGATAACTGGGGCATAAGCCCTTTTGATAACTGGGGCATAAGC
1 ATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCTTTTTATAACTGGGGCATAAGC
*
117109443 CCTTTTG
66 CCTTTTA
117109450 ATAACTGGGGCATAAGCCC-TTTAATAACTGGGGCATAAGCCCTTTTT
1 ATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCTTTTT
117109497 CACTTCCTCC
Statistics
Matches: 109, Mismatches: 8, Indels: 5
0.89 0.07 0.04
Matches are distributed among these distances:
71 76 0.70
72 33 0.30
ACGTcount: A:0.26, C:0.21, G:0.23, T:0.29
Consensus pattern (72 bp):
ATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCTTTTTATAACTGGGGCATAAGC
CCTTTTA
Found at i:117109567 original size:9 final size:9
Alignment explanation
Indices: 117109553--117109609 Score: 51
Period size: 9 Copynumber: 5.9 Consensus size: 9
117109543 ATCTCGTGTG
117109553 CATATCATA
1 CATATCATA
*
117109562 CATATCATGTG
1 CATATCA--TA
117109573 CATATCATA
1 CATATCATA
* *
117109582 CATGTCATGTG
1 CATATCA--TA
117109593 CATATCATA
1 CATATCATA
117109602 CATATCAT
1 CATATCAT
117109610 GTTTATCAAA
Statistics
Matches: 38, Mismatches: 6, Indels: 8
0.73 0.12 0.15
Matches are distributed among these distances:
9 23 0.61
11 15 0.39
ACGTcount: A:0.35, C:0.21, G:0.09, T:0.35
Consensus pattern (9 bp):
CATATCATA
Found at i:117109572 original size:20 final size:20
Alignment explanation
Indices: 117109549--117109611 Score: 117
Period size: 20 Copynumber: 3.1 Consensus size: 20
117109539 GAACATCTCG
117109549 TGTGCATATCATACATATCA
1 TGTGCATATCATACATATCA
*
117109569 TGTGCATATCATACATGTCA
1 TGTGCATATCATACATATCA
117109589 TGTGCATATCATACATATCA
1 TGTGCATATCATACATATCA
117109609 TGT
1 TGT
117109612 TTATCAAAAT
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 41 1.00
ACGTcount: A:0.32, C:0.19, G:0.13, T:0.37
Consensus pattern (20 bp):
TGTGCATATCATACATATCA
Found at i:117109694 original size:25 final size:25
Alignment explanation
Indices: 117109648--117109695 Score: 60
Period size: 25 Copynumber: 1.9 Consensus size: 25
117109638 ATATATAAAC
* * * *
117109648 CCTAGGGGTATAATGGTTATTTTTA
1 CCTAGGGGCAAAACGGTCATTTTTA
117109673 CCTAGGGGCAAAACGGTCATTTT
1 CCTAGGGGCAAAACGGTCATTTT
117109696 CATATTATAA
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 19 1.00
ACGTcount: A:0.25, C:0.15, G:0.25, T:0.35
Consensus pattern (25 bp):
CCTAGGGGCAAAACGGTCATTTTTA
Found at i:117110130 original size:8 final size:8
Alignment explanation
Indices: 117110117--117110144 Score: 56
Period size: 8 Copynumber: 3.5 Consensus size: 8
117110107 AAATGCCAGA
117110117 ATTTCGGC
1 ATTTCGGC
117110125 ATTTCGGC
1 ATTTCGGC
117110133 ATTTCGGC
1 ATTTCGGC
117110141 ATTT
1 ATTT
117110145 TATCGCTTTA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 20 1.00
ACGTcount: A:0.14, C:0.21, G:0.21, T:0.43
Consensus pattern (8 bp):
ATTTCGGC
Found at i:117110966 original size:27 final size:27
Alignment explanation
Indices: 117110936--117111276 Score: 379
Period size: 27 Copynumber: 12.6 Consensus size: 27
117110926 AGGGTATTTT
*
117110936 AGTAATTTTGTAAATCGAGGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
* *
117110963 AGTAATTCTGTAAATCAAGGGTGAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
* *
117110990 AGTAATTCTATAAATCGAGGGTAAAAT
1 AGTAATTCTGTAAATCGAGGGTAAAAC
* *
117111017 GGTAATTCTGTAAATTGAGGGTAAAA-
1 AGTAATTCTGTAAATCGAGGGTAAAAC
117111043 AGGTAATTCTGTAAATCGAGGGTAAAAC
1 A-GTAATTCTGTAAATCGAGGGTAAAAC
* *
117111071 -GATAATTATGTAAATCGGGGGTAAAAC
1 AG-TAATTCTGTAAATCGAGGGTAAAAC
* *
117111098 AGTAATTATGTAAAT-TAGAGGTAAAAC
1 AGTAATTCTGTAAATCGAG-GGTAAAAC
* *
117111125 GGTAATTCTGTAAATCGAGGGTAAAAT
1 AGTAATTCTGTAAATCGAGGGTAAAAC
117111152 AGTAATTCTGTAAA-CTGAGGGTAAAAC
1 AGTAATTCTGTAAATC-GAGGGTAAAAC
*
117111179 -GATAATTCTATAAATCGAGGGTAAAAC
1 AG-TAATTCTGTAAATCGAGGGTAAAAC
* * **
117111206 GGTAATTTTACAAATCGAGGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
* * *
117111233 GGTAATTCTAT-AACCTGAGGGTAAAAC
1 AGTAATTCTGTAAATC-GAGGGTAAAAC
* *
117111260 GGTAATTTTGTAAATCG
1 AGTAATTCTGTAAATCG
117111277 GGAGTACTTT
Statistics
Matches: 271, Mismatches: 31, Indels: 24
0.83 0.10 0.07
Matches are distributed among these distances:
26 7 0.03
27 256 0.94
28 8 0.03
ACGTcount: A:0.40, C:0.09, G:0.23, T:0.28
Consensus pattern (27 bp):
AGTAATTCTGTAAATCGAGGGTAAAAC
Found at i:117115566 original size:26 final size:23
Alignment explanation
Indices: 117115536--117115706 Score: 131
Period size: 22 Copynumber: 7.3 Consensus size: 23
117115526 GGACTCACCA
*
117115536 CAGCTCGTATGAGCTTACTGATATAT
1 CAGCTCATATGAGCTTACTG-T-T-T
*
117115562 CAGCTCATAAGAGCTTACTGTTTT
1 CAGCTCATATGAGCTTACTG-TTT
117115586 CAGCTCAT-TGGAGCTTACTGTTT
1 CAGCTCATAT-GAGCTTACTGTTT
* **
117115609 TAGCTGGTATGAGCTTACTG-TT
1 CAGCTCATATGAGCTTACTGTTT
117115631 CAGCTCA-ATAGAGCTTACTGTTT
1 CAGCTCATAT-GAGCTTACTGTTT
* * *
117115654 -AGCTTGATA-GAGTTTACCG-TT
1 CAGC-TCATATGAGCTTACTGTTT
117115675 CAGCTCAT-TAGAGCTTACTGTTCAT
1 CAGCTCATAT-GAGCTTACTGTT--T
117115700 CAGCTCA
1 CAGCTCA
117115707 GGGGGAGCTT
Statistics
Matches: 117, Mismatches: 16, Indels: 25
0.74 0.10 0.16
Matches are distributed among these distances:
21 7 0.06
22 38 0.32
23 23 0.20
24 21 0.18
25 9 0.08
26 19 0.16
ACGTcount: A:0.23, C:0.20, G:0.20, T:0.36
Consensus pattern (23 bp):
CAGCTCATATGAGCTTACTGTTT
Found at i:117115622 original size:23 final size:24
Alignment explanation
Indices: 117115546--117115653 Score: 98
Period size: 24 Copynumber: 4.5 Consensus size: 24
117115536 CAGCTCGTAT
* **
117115546 GAGCTTACTGATATATCAGCTCATAA
1 GAGCTTACTG-T-TTTCAGCTCATTG
117115572 GAGCTTACTGTTTTCAGCTCATTG
1 GAGCTTACTGTTTTCAGCTCATTG
**
117115596 GAGCTTACTGTTTT-AGCTGGTAT-
1 GAGCTTACTGTTTTCAGCTCAT-TG
* *
117115619 GAGCTTACTG--TTCAGCTCAATA
1 GAGCTTACTGTTTTCAGCTCATTG
117115641 GAGCTTACTGTTT
1 GAGCTTACTGTTT
117115654 AGCTTGATAG
Statistics
Matches: 69, Mismatches: 8, Indels: 12
0.78 0.09 0.13
Matches are distributed among these distances:
21 3 0.04
22 14 0.20
23 15 0.22
24 26 0.38
25 1 0.01
26 10 0.14
ACGTcount: A:0.23, C:0.19, G:0.20, T:0.38
Consensus pattern (24 bp):
GAGCTTACTGTTTTCAGCTCATTG
Found at i:117115676 original size:44 final size:44
Alignment explanation
Indices: 117115584--117115696 Score: 156
Period size: 44 Copynumber: 2.5 Consensus size: 44
117115574 GCTTACTGTT
* * *
117115584 TTCAGCTCATTGGAGCTTACTGTTTTAGCTGGTATGAGCTTACTG
1 TTCAGCTCATTAGAGCTTACTG-TTTAGCTGATATGAGCTTACCG
* *
117115629 TTCAGCTCAATAGAGCTTACTGTTTAGCTTGATA-GAGTTTACCG
1 TTCAGCTCATTAGAGCTTACTGTTTAGC-TGATATGAGCTTACCG
117115673 TTCAGCTCATTAGAGCTTACTGTT
1 TTCAGCTCATTAGAGCTTACTGTT
117115697 CATCAGCTCA
Statistics
Matches: 61, Mismatches: 6, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
44 37 0.61
45 24 0.39
ACGTcount: A:0.21, C:0.19, G:0.21, T:0.39
Consensus pattern (44 bp):
TTCAGCTCATTAGAGCTTACTGTTTAGCTGATATGAGCTTACCG
Found at i:117119907 original size:42 final size:42
Alignment explanation
Indices: 117119773--117119922 Score: 194
Period size: 42 Copynumber: 3.5 Consensus size: 42
117119763 AAAACGCCAC
* ** *
117119773 AAAAGATCATGACTTTTAGCATCGTTTGTGGGAAAGC-ACGCT
1 AAAAG-TCATGGCTTTTAGCGGCGTTTGTGGGAAAGCGCCGCT
117119815 AAAAGTCATGGCTTTTAGCGGCGTTTGTGGGAAAAGCGCCGCT
1 AAAAGTCATGGCTTTTAGCGGCGTTTGTGGG-AAAGCGCCGCT
* * * *
117119858 AAAAGTCATGGCCTTTAGTGGCGTTTGTGGGGAAGCGCCACT
1 AAAAGTCATGGCTTTTAGCGGCGTTTGTGGGAAAGCGCCGCT
*
117119900 AAAAGTCACGGCTTTTAGCGGCG
1 AAAAGTCATGGCTTTTAGCGGCG
117119923 CTTTTGTTAC
Statistics
Matches: 95, Mismatches: 11, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
41 23 0.24
42 39 0.41
43 33 0.35
ACGTcount: A:0.25, C:0.19, G:0.30, T:0.26
Consensus pattern (42 bp):
AAAAGTCATGGCTTTTAGCGGCGTTTGTGGGAAAGCGCCGCT
Found at i:117120781 original size:13 final size:14
Alignment explanation
Indices: 117120755--117120783 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
117120745 ACTAACGATG
117120755 AATTAAACCATTAT
1 AATTAAACCATTAT
117120769 AATTAAA-CATTAT
1 AATTAAACCATTAT
117120782 AA
1 AA
117120784 ATATTTATAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 8 0.53
14 7 0.47
ACGTcount: A:0.55, C:0.10, G:0.00, T:0.34
Consensus pattern (14 bp):
AATTAAACCATTAT
Found at i:117125906 original size:9 final size:9
Alignment explanation
Indices: 117125889--117126091 Score: 141
Period size: 9 Copynumber: 22.7 Consensus size: 9
117125879 ATATTTATGT
117125889 GTTATGTAA
1 GTTATGTAA
*
117125898 GTTAAGTAA
1 GTTATGTAA
*
117125907 GTTTTGTAA
1 GTTATGTAA
117125916 GTTATGTAA
1 GTTATGTAA
*
117125925 GATATG--A
1 GTTATGTAA
117125932 --TATGATAA
1 GTTATG-TAA
* *
117125940 -ATATTTAA
1 GTTATGTAA
*
117125948 GTATTATCTAA
1 G--TTATGTAA
117125959 GTTATGTAA
1 GTTATGTAA
*
117125968 GTTATGATAT
1 GTTATG-TAA
* *
117125978 GATATATATA
1 GTTATGTA-A
*
117125988 TTTATGTAA
1 GTTATGTAA
117125997 GTTATGTAA
1 GTTATGTAA
*
117126006 GTTATAT-A
1 GTTATGTAA
* *
117126014 TTTATCTAA
1 GTTATGTAA
*
117126023 GTTATATAA
1 GTTATGTAA
117126032 GTTATGTAA
1 GTTATGTAA
117126041 GTTATGTAA
1 GTTATGTAA
*
117126050 GTTATGATAT
1 GTTATG-TAA
* *
117126060 GATATAT-A
1 GTTATGTAA
*
117126068 TTTATGTAA
1 GTTATGTAA
117126077 GTTATGTAA
1 GTTATGTAA
117126086 GTTATG
1 GTTATG
117126092 ATATGATATA
Statistics
Matches: 151, Mismatches: 31, Indels: 24
0.73 0.15 0.12
Matches are distributed among these distances:
5 4 0.03
7 1 0.01
8 14 0.09
9 108 0.72
10 17 0.11
11 7 0.05
ACGTcount: A:0.36, C:0.01, G:0.17, T:0.46
Consensus pattern (9 bp):
GTTATGTAA
Found at i:117125989 original size:45 final size:39
Alignment explanation
Indices: 117125911--117126104 Score: 202
Period size: 36 Copynumber: 4.9 Consensus size: 39
117125901 AAGTAAGTTT
* * *
117125911 TGTAAGTTATGTAAGATATGATATGATAAATATTTAAGTATTA
1 TGTAAGTTATGTAAGTTATGATATG-TATATATAT-A-T-TTA
*
117125954 TCTAAGTTATGTAAGTTATGATATG-ATATATATATTTA
1 TGTAAGTTATGTAAGTTATGATATGTATATATATATTTA
* *
117125992 TGTAAGTTATGTAAGTTAT-ATATTTATCTAAGTTATATAAGTTA
1 TGTAAGTTATGTAAGTTATGATATGTA--T-A--TATAT-ATTTA
117126036 TGTAAGTTATGTAAGTTATGATATG---ATATATATTTA
1 TGTAAGTTATGTAAGTTATGATATGTATATATATATTTA
117126072 TGTAAGTTATGTAAGTTATGATATG-ATATATAT
1 TGTAAGTTATGTAAGTTATGATATGTATATATAT
117126105 TTAATATTAA
Statistics
Matches: 132, Mismatches: 9, Indels: 25
0.80 0.05 0.15
Matches are distributed among these distances:
36 29 0.22
37 9 0.07
38 28 0.21
39 2 0.02
40 2 0.02
41 7 0.05
43 28 0.21
44 23 0.17
45 4 0.03
ACGTcount: A:0.38, C:0.01, G:0.15, T:0.46
Consensus pattern (39 bp):
TGTAAGTTATGTAAGTTATGATATGTATATATATATTTA
Found at i:117126078 original size:54 final size:54
Alignment explanation
Indices: 117125960--117126091 Score: 167
Period size: 54 Copynumber: 2.4 Consensus size: 54
117125950 ATTATCTAAG
* * * * *
117125960 TTATGTAAGTTATGATATGATATATATATTTATGTAAGTTATGTAAGTTATATAT
1 TTATGTAAGTTAT-ATAAGTTATGTATAGTTATGTAAGTTATGTAAGATATATAT
* *
117126015 TTATCTAAGTTATATAAGTTATGTA-AGTTATGTAAGTTATGATATGATATATAT
1 TTATGTAAGTTATATAAGTTATGTATAGTTATGTAAGTTATG-TAAGATATATAT
*
117126069 TTATGTAAGTTATGTAAGTTATG
1 TTATGTAAGTTATATAAGTTATG
117126092 ATATGATATA
Statistics
Matches: 67, Mismatches: 9, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
53 15 0.22
54 40 0.60
55 12 0.18
ACGTcount: A:0.36, C:0.01, G:0.16, T:0.48
Consensus pattern (54 bp):
TTATGTAAGTTATATAAGTTATGTATAGTTATGTAAGTTATGTAAGATATATAT
Found at i:117130479 original size:26 final size:26
Alignment explanation
Indices: 117130448--117130555 Score: 189
Period size: 26 Copynumber: 4.2 Consensus size: 26
117130438 TGAAATGCCC
*
117130448 ATCATGGAACATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAACCCATT
117130474 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
* *
117130500 ATCATGGAATATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAACCCATT
117130526 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
117130552 ATCA
1 ATCA
117130556 ATTTGTACCA
Statistics
Matches: 77, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 77 1.00
ACGTcount: A:0.36, C:0.24, G:0.07, T:0.32
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Done.