Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr12
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: 101062743
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 4026412 characters in sequence are not A, C, G, or T
File 153 of 297
Found at i:52406075 original size:18 final size:18
Alignment explanation
Indices: 52406052--52406090 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
52406042 ATCATTTATT
52406052 TAATTAAA-CCAATCAAAC
1 TAATTAAATCC-ATCAAAC
*
52406070 TAATTAAATTCATCAAAC
1 TAATTAAATCCATCAAAC
52406088 TAA
1 TAA
52406091 AATTTGACAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 18 0.95
19 1 0.05
ACGTcount: A:0.54, C:0.18, G:0.00, T:0.28
Consensus pattern (18 bp):
TAATTAAATCCATCAAAC
Found at i:52407998 original size:24 final size:24
Alignment explanation
Indices: 52407961--52408023 Score: 67
Period size: 24 Copynumber: 2.6 Consensus size: 24
52407951 TCATGTACAC
*
52407961 ATTATT-TATATTATTTTCA-TGATT
1 ATTATTGTAT-TTATTTTCACT-ACT
* *
52407985 ATTATTGTGTTTATTTTTACTACT
1 ATTATTGTATTTATTTTCACTACT
52408009 ATTATTGTATTTATT
1 ATTATTGTATTTATT
52408024 ATTAGTATTA
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
24 30 0.91
25 3 0.09
ACGTcount: A:0.25, C:0.05, G:0.06, T:0.63
Consensus pattern (24 bp):
ATTATTGTATTTATTTTCACTACT
Found at i:52408038 original size:24 final size:24
Alignment explanation
Indices: 52407982--52408038 Score: 69
Period size: 24 Copynumber: 2.4 Consensus size: 24
52407972 TATTTTCATG
* *
52407982 ATTATTATTGTGTTTATTTTTACT
1 ATTATTATTGTATTTATTATTACT
* *
52408006 ACTATTATTGTATTTATTATTAGT
1 ATTATTATTGTATTTATTATTACT
*
52408030 ATTAGTATT
1 ATTATTATT
52408039 ATAATTACTA
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.26, C:0.04, G:0.09, T:0.61
Consensus pattern (24 bp):
ATTATTATTGTATTTATTATTACT
Found at i:52408254 original size:23 final size:21
Alignment explanation
Indices: 52408228--52408345 Score: 71
Period size: 23 Copynumber: 5.3 Consensus size: 21
52408218 AATGTGTATG
52408228 TATTATATATATTTTTAATACTA
1 TATTATATATATTTTT-ATA-TA
* *
52408251 TATTATGTATA-TATTATAT-
1 TATTATATATATTTTTATATA
52408270 TATATATATATATTTATTATAT-
1 TAT-TATATATATTT-TTATATA
*
52408292 TTTTATGTATATATTTTTAATATCA
1 TATTA--TATATATTTTT-ATAT-A
* * *
52408317 CATTATTCATATGTTTTTTTATA
1 TATTA-T-ATATATTTTTATATA
52408340 TATTAT
1 TATTAT
52408346 CCCATGTAAA
Statistics
Matches: 75, Mismatches: 11, Indels: 19
0.71 0.10 0.18
Matches are distributed among these distances:
19 3 0.04
20 8 0.11
21 6 0.08
22 14 0.19
23 28 0.37
24 4 0.05
25 12 0.16
ACGTcount: A:0.35, C:0.03, G:0.03, T:0.59
Consensus pattern (21 bp):
TATTATATATATTTTTATATA
Found at i:52408297 original size:25 final size:25
Alignment explanation
Indices: 52408230--52408310 Score: 76
Period size: 25 Copynumber: 3.1 Consensus size: 25
52408220 TGTGTATGTA
52408230 TTATATATATTTTTA-ATACTATATTAT
1 TTAT-TATATTTTTATATA-TATA-TAT
*
52408257 GTA-TATATTATATTATATATATATAT
1 TTATTATATT-T-TTATATATATATAT
* *
52408283 TTATTATATTTTTATGTATATATTT
1 TTATTATATTTTTATATATATATAT
52408308 TTA
1 TTA
52408311 ATATCACATT
Statistics
Matches: 46, Mismatches: 4, Indels: 10
0.77 0.07 0.17
Matches are distributed among these distances:
25 21 0.46
26 7 0.15
27 15 0.33
28 3 0.07
ACGTcount: A:0.36, C:0.01, G:0.02, T:0.60
Consensus pattern (25 bp):
TTATTATATTTTTATATATATATAT
Found at i:52408298 original size:41 final size:39
Alignment explanation
Indices: 52408228--52408306 Score: 106
Period size: 41 Copynumber: 2.0 Consensus size: 39
52408218 AATGTGTATG
52408228 TATTATATATATTTTTAATACTATATTATGTATATATTA
1 TATTATATATATTTTTAATACTATATTATGTATATATTA
* *
52408267 TATTATATATATATATTTATTA-TATTTTTATGTATATATT
1 TATTATATATAT-T-TTTAATACTA-TATTATGTATATATT
52408307 TTTAATATCA
Statistics
Matches: 35, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
39 12 0.34
40 3 0.09
41 20 0.57
ACGTcount: A:0.37, C:0.01, G:0.03, T:0.59
Consensus pattern (39 bp):
TATTATATATATTTTTAATACTATATTATGTATATATTA
Found at i:52408304 original size:14 final size:14
Alignment explanation
Indices: 52408253--52408310 Score: 59
Period size: 14 Copynumber: 4.2 Consensus size: 14
52408243 TAATACTATA
52408253 TTATGTATATATTAT
1 TTATGTATATATT-T
* *
52408268 ATTATATATATATAT
1 -TTATGTATATATTT
52408283 TTA--T-TATATTT
1 TTATGTATATATTT
52408294 TTATGTATATATTT
1 TTATGTATATATTT
52408308 TTA
1 TTA
52408311 ATATCACATT
Statistics
Matches: 36, Mismatches: 3, Indels: 8
0.77 0.06 0.17
Matches are distributed among these distances:
11 9 0.25
12 1 0.03
13 1 0.03
14 13 0.36
15 1 0.03
16 11 0.31
ACGTcount: A:0.34, C:0.00, G:0.03, T:0.62
Consensus pattern (14 bp):
TTATGTATATATTT
Found at i:52408489 original size:3 final size:3
Alignment explanation
Indices: 52408483--52408550 Score: 75
Period size: 3 Copynumber: 22.0 Consensus size: 3
52408473 TTTATTCATA
* *
52408483 TAT TAT TAT CAT TAT TTT CTACGT TAT -AT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT -TA--T TAT TAT TAT TAT TAT TAT TAT TAT
*
52408530 TAT TAT TAT TAT TAT CAT TAT
1 TAT TAT TAT TAT TAT TAT TAT
52408551 CATTTTCATT
Statistics
Matches: 55, Mismatches: 6, Indels: 8
0.80 0.09 0.12
Matches are distributed among these distances:
2 2 0.04
3 49 0.89
4 1 0.02
5 2 0.04
6 1 0.02
ACGTcount: A:0.31, C:0.06, G:0.01, T:0.62
Consensus pattern (3 bp):
TAT
Found at i:52408559 original size:6 final size:6
Alignment explanation
Indices: 52408506--52408566 Score: 52
Period size: 6 Copynumber: 10.3 Consensus size: 6
52408496 ATTTTCTACG
* * * * *
52408506 TTAT-A TTATTA TTATTA TTATTA TTATTA TTATTA TTATCA TTATCA
1 TTATCA TTATCA TTATCA TTATCA TTATCA TTATCA TTATCA TTATCA
* *
52408553 TTTTCA TTGTCA TT
1 TTATCA TTATCA TT
52408567 GCCATTTTTG
Statistics
Matches: 52, Mismatches: 3, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
5 4 0.08
6 48 0.92
ACGTcount: A:0.30, C:0.07, G:0.02, T:0.62
Consensus pattern (6 bp):
TTATCA
Found at i:52421110 original size:44 final size:44
Alignment explanation
Indices: 52420986--52421516 Score: 799
Period size: 44 Copynumber: 12.2 Consensus size: 44
52420976 TCCTTGAAAC
*
52420986 AGATAACAGATTTGGCGTCTCTGTAACGGCGGAGAGCAGATCGA
1 AGATAACAGATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGA
*
52421030 AGAT----GATTTGGCATCTCTGTAGCGGCGGAGAGCAGATCGA
1 AGATAACAGATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGA
* * * * *
52421070 AGATAACAGATTTGGCATCTCTGTAGTGGCAGAGAACAGATCAA
1 AGATAACAGATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGA
*
52421114 AGATAACAGATTTGGCATCTCTGTAGCGGCGGAGAGCAGATCGA
1 AGATAACAGATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGA
52421158 AGATAACAGATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGA
1 AGATAACAGATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGA
* *
52421202 AGGTAACAGATTTGGCGTCTCTGTAGCGGCAGAGAGCAGATCGA
1 AGATAACAGATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGA
* * * *
52421246 AGATAACAGATTTGACATCTCCGTAGCGGTGGAGAGCAGATCGA
1 AGATAACAGATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGA
52421290 AGATAACAGATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGA
1 AGATAACAGATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGA
* * *
52421334 AGAT----GATTTGGCATCTCTGTAGCGGCAGAGAACAGATCGA
1 AGATAACAGATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGA
* * *
52421374 AGATAACAGATTTGGCGTCTTTGTAGCAGCAGAGAGCAGATCGA
1 AGATAACAGATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGA
52421418 AGATAACAGATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGA
1 AGATAACAGATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGA
* *
52421462 AGGTAACAGATTTGGCGTCTCTGTAGCGGCAGAGAGCAGATCGA
1 AGATAACAGATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGA
*
52421506 AAATAACAGAT
1 AGATAACAGAT
52421517 CGGTGTTCTT
Statistics
Matches: 442, Mismatches: 37, Indels: 16
0.89 0.07 0.03
Matches are distributed among these distances:
40 75 0.17
44 367 0.83
ACGTcount: A:0.30, C:0.18, G:0.31, T:0.21
Consensus pattern (44 bp):
AGATAACAGATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGA
Found at i:52422815 original size:8 final size:8
Alignment explanation
Indices: 52422802--52422836 Score: 70
Period size: 8 Copynumber: 4.4 Consensus size: 8
52422792 TTTTAATTCG
52422802 AATTTTAA
1 AATTTTAA
52422810 AATTTTAA
1 AATTTTAA
52422818 AATTTTAA
1 AATTTTAA
52422826 AATTTTAA
1 AATTTTAA
52422834 AAT
1 AAT
52422837 CGAGGAATGG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 27 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (8 bp):
AATTTTAA
Found at i:52425799 original size:38 final size:38
Alignment explanation
Indices: 52425751--52426068 Score: 456
Period size: 38 Copynumber: 8.3 Consensus size: 38
52425741 GGCACGAAGG
* * * *
52425751 CCCGAATATAATACCAGCACTAGGCCTGCGGGATTTAT
1 CCCGGATATAATACCAGCACGAAGCCTGCGGGATTTAA
* *
52425789 CCCGGATATAATATCAGCACGAAGCCTGCAGGATTTAA
1 CCCGGATATAATACCAGCACGAAGCCTGCGGGATTTAA
* ** * *
52425827 CCTGGATATTTTACTAGCACGAAGCCTGCGGGTCTTTAA
1 CCCGGATATAATACCAGCACGAAGCCTGCGGG-ATTTAA
*
52425866 GCCCGGATATAATACCAGCAAGAAGCCTGCGGGATTTAA
1 -CCCGGATATAATACCAGCACGAAGCCTGCGGGATTTAA
52425905 CCCGGATATAATACCAGCACGAAGCCTGCGGGATTTAA
1 CCCGGATATAATACCAGCACGAAGCCTGCGGGATTTAA
** *
52425943 CCCGGATATTTTACCAGCACGAAGCCTGCGGGTTTTTAA
1 CCCGGATATAATACCAGCACGAAGCCTGCGGG-ATTTAA
52425982 GCCCGGATATAATACCAGCACGAAGCCTGCGGGATTTAA
1 -CCCGGATATAATACCAGCACGAAGCCTGCGGGATTTAA
*
52426021 CCCGGATATAATACCAGCACGAAGCCTACGGGATTTAA
1 CCCGGATATAATACCAGCACGAAGCCTGCGGGATTTAA
52426059 CCCGGATATA
1 CCCGGATATA
52426069 CATCGAATAT
Statistics
Matches: 249, Mismatches: 27, Indels: 8
0.88 0.10 0.03
Matches are distributed among these distances:
38 172 0.69
39 20 0.08
40 57 0.23
ACGTcount: A:0.30, C:0.25, G:0.23, T:0.22
Consensus pattern (38 bp):
CCCGGATATAATACCAGCACGAAGCCTGCGGGATTTAA
Found at i:52425885 original size:78 final size:76
Alignment explanation
Indices: 52425751--52426068 Score: 456
Period size: 78 Copynumber: 4.1 Consensus size: 76
52425741 GGCACGAAGG
* * * * *
52425751 CCCGAATATAATACCAGCACTAGGCCTGCGGGATTTATCCCGGATATAATATCAGCACGAAGCCT
1 CCCGGATATAATACCAGCACGAAGCCTGCGGGATTTAACCCGGATATAATACCAGCACGAAGCCT
*
52425816 GCAGGATTTAA
66 GCGGGATTTAA
* ** * * *
52425827 CCTGGATATTTTACTAGCACGAAGCCTGCGGGTCTTTAAGCCCGGATATAATACCAGCAAGAAGC
1 CCCGGATATAATACCAGCACGAAGCCTGCGGG-ATTTAA-CCCGGATATAATACCAGCACGAAGC
52425892 CTGCGGGATTTAA
64 CTGCGGGATTTAA
**
52425905 CCCGGATATAATACCAGCACGAAGCCTGCGGGATTTAACCCGGATATTTTACCAGCACGAAGCCT
1 CCCGGATATAATACCAGCACGAAGCCTGCGGGATTTAACCCGGATATAATACCAGCACGAAGCCT
*
52425970 GCGGGTTTTTAA
66 GCGGG-ATTTAA
52425982 GCCCGGATATAATACCAGCACGAAGCCTGCGGGATTTAACCCGGATATAATACCAGCACGAAGCC
1 -CCCGGATATAATACCAGCACGAAGCCTGCGGGATTTAACCCGGATATAATACCAGCACGAAGCC
*
52426047 TACGGGATTTAA
65 TGCGGGATTTAA
52426059 CCCGGATATA
1 CCCGGATATA
52426069 CATCGAATAT
Statistics
Matches: 213, Mismatches: 25, Indels: 8
0.87 0.10 0.03
Matches are distributed among these distances:
76 64 0.30
77 19 0.09
78 130 0.61
ACGTcount: A:0.30, C:0.25, G:0.23, T:0.22
Consensus pattern (76 bp):
CCCGGATATAATACCAGCACGAAGCCTGCGGGATTTAACCCGGATATAATACCAGCACGAAGCCT
GCGGGATTTAA
Found at i:52425954 original size:116 final size:116
Alignment explanation
Indices: 52425750--52426067 Score: 537
Period size: 116 Copynumber: 2.7 Consensus size: 116
52425740 AGGCACGAAG
* * * * *
52425750 GCCCGAATATAATACCAGCACTAGGCCTGCGGGATTTATCCCGGATATAATATCAGCACGAAGCC
1 GCCCGGATATAATACCAGCACGAAGCCTGCGGGATTTAACCCGGATATAATACCAGCACGAAGCC
* * *
52425815 TGCAGGATTTAACCTGGATATTTTACTAGCACGAAGCCTGCGGGTCTTTAA
66 TGCGGGATTTAACCCGGATATTTTACCAGCACGAAGCCTGCGGGTCTTTAA
*
52425866 GCCCGGATATAATACCAGCAAGAAGCCTGCGGGATTTAACCCGGATATAATACCAGCACGAAGCC
1 GCCCGGATATAATACCAGCACGAAGCCTGCGGGATTTAACCCGGATATAATACCAGCACGAAGCC
*
52425931 TGCGGGATTTAACCCGGATATTTTACCAGCACGAAGCCTGCGGGTTTTTAA
66 TGCGGGATTTAACCCGGATATTTTACCAGCACGAAGCCTGCGGGTCTTTAA
52425982 GCCCGGATATAATACCAGCACGAAGCCTGCGGGATTTAACCCGGATATAATACCAGCACGAAGCC
1 GCCCGGATATAATACCAGCACGAAGCCTGCGGGATTTAACCCGGATATAATACCAGCACGAAGCC
*
52426047 TACGGGATTTAACCCGGATAT
66 TGCGGGATTTAACCCGGATAT
52426068 ACATCGAATA
Statistics
Matches: 190, Mismatches: 12, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
116 190 1.00
ACGTcount: A:0.30, C:0.25, G:0.23, T:0.22
Consensus pattern (116 bp):
GCCCGGATATAATACCAGCACGAAGCCTGCGGGATTTAACCCGGATATAATACCAGCACGAAGCC
TGCGGGATTTAACCCGGATATTTTACCAGCACGAAGCCTGCGGGTCTTTAA
Found at i:52434733 original size:21 final size:21
Alignment explanation
Indices: 52434707--52434747 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
52434697 ATCTGCTCAA
* *
52434707 ACTCCACCTGTTTTGGAGTAC
1 ACTCCACCTGCTGTGGAGTAC
52434728 ACTCCACCTGCTGTGGAGTA
1 ACTCCACCTGCTGTGGAGTA
52434748 TTGCTCGTCT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.20, C:0.29, G:0.22, T:0.29
Consensus pattern (21 bp):
ACTCCACCTGCTGTGGAGTAC
Found at i:52441114 original size:16 final size:15
Alignment explanation
Indices: 52441093--52441135 Score: 59
Period size: 16 Copynumber: 2.7 Consensus size: 15
52441083 TAAAAGGGTT
*
52441093 TTTTTTTTTGTCTTTC
1 TTTTTTTTTAT-TTTC
52441109 TTTTTTATTTATTTTC
1 TTTTTT-TTTATTTTC
52441125 TTTTTTTTTAT
1 TTTTTTTTTAT
52441136 CTACTTACAT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
15 5 0.20
16 16 0.64
17 4 0.16
ACGTcount: A:0.07, C:0.07, G:0.02, T:0.84
Consensus pattern (15 bp):
TTTTTTTTTATTTTC
Found at i:52441956 original size:3 final size:3
Alignment explanation
Indices: 52441948--52442289 Score: 94
Period size: 3 Copynumber: 112.3 Consensus size: 3
52441938 TATTTATTTG
* * * *
52441948 TTA TTA TTA -TA TTT TGTA TTA TTA TCA CTA TTA CTA TTA TTA -TA
1 TTA TTA TTA TTA TTA T-TA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* * ** * *
52441992 TTTA TTA TCA TTA TTA TTC TCC CTA TTA TTA TT- TCCTA CTA TTA TTA
1 -TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T--TA TTA TTA TTA
* * * ** * *
52442039 TTTA TTG TCA TTA TCA TTA TTA CGA CTA TCA TTA TTA TTA TT- TTA
1 -TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* * * * * * *
52442084 TTTA TTA TCA TTA TTA TTC CTA TTA TTA TT- TT- TTA CTG CTA ATA
1 -TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* * * * * *
52442128 TTTA TTA TCA TTA TTG TTA CTA TTA TTA TTTA TTA TTG TTA CTA CTA
1 -TTA TTA TTA TTA TTA TTA TTA TTA TTA -TTA TTA TTA TTA TTA TTA
* * * * *
52442175 TTA CTTA -TA TTCG TTA GTA TCA TTA TTAA TT- TTA TCT- GTA TT- TTCT
1 TTA -TTA TTA TT-A TTA TTA TTA TTA TT-A TTA TTA T-TA TTA TTA TT-A
* * * *
52442221 TTA CTA TTA TTT TTA TTA TCA TTA TTTA TTTA TTTA TTA TTA TTG TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA -TTA -TTA -TTA TTA TTA TTA TTA
* *
52442269 TTA TTA TTG TCA -TA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA T
52442290 ATATGTTTTA
Statistics
Matches: 243, Mismatches: 72, Indels: 48
0.67 0.20 0.13
Matches are distributed among these distances:
2 19 0.08
3 186 0.77
4 38 0.16
ACGTcount: A:0.27, C:0.10, G:0.03, T:0.60
Consensus pattern (3 bp):
TTA
Found at i:52442035 original size:16 final size:14
Alignment explanation
Indices: 52442001--52442041 Score: 55
Period size: 16 Copynumber: 2.7 Consensus size: 14
52441991 ATTTATTATC
52442001 ATTATTATTCTCCCT
1 ATTATTATT-TCCCT
52442016 ATTATTATTTCCTACT
1 ATTATTATTTCC--CT
52442032 ATTATTATTT
1 ATTATTATTT
52442042 ATTGTCATTA
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
14 3 0.12
15 9 0.38
16 12 0.50
ACGTcount: A:0.24, C:0.17, G:0.00, T:0.59
Consensus pattern (14 bp):
ATTATTATTTCCCT
Found at i:52442060 original size:92 final size:89
Alignment explanation
Indices: 52441977--52442141 Score: 231
Period size: 89 Copynumber: 1.8 Consensus size: 89
52441967 TATTATCACT
* *
52441977 ATTACTATTATTATATTTATTATCATTATTATTCTCCCTATTATTATTTCCTACTATTATTATTT
1 ATTACTATTATTATATTTATTATCATTATTA-T-T-CCTATTATTATTTCCTACTACTAATATTT
*
52442042 ATTGTCATTATCATTATTACGACTATC
63 ATTATCATTATCATTATTACGACTATC
* * ** *
52442069 ATTATTATTATTTTATTTATTATCATTATTATTCCTATTATTATTTTTTACTGCTAATATTTATT
1 ATTACTATTATTATATTTATTATCATTATTATTCCTATTATTATTTCCTACTACTAATATTTATT
52442134 ATCATTAT
66 ATCATTAT
52442142 TGTTACTATT
Statistics
Matches: 65, Mismatches: 8, Indels: 3
0.86 0.11 0.04
Matches are distributed among these distances:
89 34 0.52
90 1 0.02
91 1 0.02
92 29 0.45
ACGTcount: A:0.28, C:0.12, G:0.02, T:0.58
Consensus pattern (89 bp):
ATTACTATTATTATATTTATTATCATTATTATTCCTATTATTATTTCCTACTACTAATATTTATT
ATCATTATCATTATTACGACTATC
Found at i:52442147 original size:28 final size:26
Alignment explanation
Indices: 52442104--52442163 Score: 66
Period size: 28 Copynumber: 2.2 Consensus size: 26
52442094 TTATTATTCC
* *
52442104 TATTATTATTTTTTACTGCTAATATT
1 TATTATCATTTTTTACTACTAATATT
* *
52442130 TATTATCATTATTGTTACTATTATTATT
1 TATTATCATT-TT-TTACTACTAATATT
52442158 TATTAT
1 TATTAT
52442164 TGTTACTACT
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
26 9 0.32
27 2 0.07
28 17 0.61
ACGTcount: A:0.28, C:0.07, G:0.03, T:0.62
Consensus pattern (26 bp):
TATTATCATTTTTTACTACTAATATT
Found at i:52442162 original size:22 final size:22
Alignment explanation
Indices: 52442129--52442201 Score: 78
Period size: 22 Copynumber: 3.4 Consensus size: 22
52442119 CTGCTAATAT
*
52442129 TTATTA-TCATTATTGTTACTA
1 TTATTATTTATTATTGTTACTA
52442150 TTATTATTTATTATTGTTACTA
1 TTATTATTTATTATTGTTACTA
* * *
52442172 CTATTACTTA-TATTCGTTAGTA
1 TTATTATTTATTATT-GTTACTA
*
52442194 TCATTATT
1 TTATTATT
52442202 AATTTTATCT
Statistics
Matches: 43, Mismatches: 7, Indels: 3
0.81 0.13 0.06
Matches are distributed among these distances:
21 10 0.23
22 33 0.77
ACGTcount: A:0.27, C:0.10, G:0.05, T:0.58
Consensus pattern (22 bp):
TTATTATTTATTATTGTTACTA
Found at i:52446668 original size:27 final size:27
Alignment explanation
Indices: 52446612--52446816 Score: 155
Period size: 27 Copynumber: 7.6 Consensus size: 27
52446602 TTAGTTTACC
* * *
52446612 AAATTACCAAAATACCC-TCGATTAGCA
1 AAATTACCAAAATACCCTTGGTTTA-TA
* * *
52446639 AAATTACTAGAATACCTTTGGTTTATA
1 AAATTACCAAAATACCCTTGGTTTATA
** *
52446666 AAAACACCAAAATACCCTTGGTTTACA
1 AAATTACCAAAATACCCTTGGTTTATA
* *
52446693 AAATTACCAAAATACCCCTGGTTTGTA
1 AAATTACCAAAATACCCTTGGTTTATA
* * *
52446720 AAATTACTAGAATACCATTGGTTTATA
1 AAATTACCAAAATACCCTTGGTTTATA
* * * *
52446747 AAATCACCAAAATA-CCTCGATTTGTA
1 AAATTACCAAAATACCCTTGGTTTATA
* * ** *
52446773 AGATTACTAAAATA-CCTTCGACTTGTA
1 AAATTACCAAAATACCCTT-GGTTTATA
*
52446800 AAATTACCAAAGTACCC
1 AAATTACCAAAATACCC
52446817 CCGATTTACA
Statistics
Matches: 138, Mismatches: 37, Indels: 5
0.77 0.21 0.03
Matches are distributed among these distances:
26 22 0.16
27 109 0.79
28 7 0.05
ACGTcount: A:0.41, C:0.20, G:0.09, T:0.29
Consensus pattern (27 bp):
AAATTACCAAAATACCCTTGGTTTATA
Found at i:52446741 original size:81 final size:81
Alignment explanation
Indices: 52446605--52446762 Score: 246
Period size: 81 Copynumber: 2.0 Consensus size: 81
52446595 GAATATTTTA
* *
52446605 GTTTACCAAATTACCAAAATACCCTCGATTAGCAAAATTACTAGAATACCTTTGGTTTATAAAAA
1 GTTTACAAAATTACCAAAATACCCTCGATTAGCAAAATTACTAGAATACCATTGGTTTATAAAAA
52446670 CACCAAAATACCCTTG
66 CACCAAAATACCCTTG
* * *
52446686 GTTTACAAAATTACCAAAATACCC-CTGGTTTGTAAAATTACTAGAATACCATTGGTTTATAAAA
1 GTTTACAAAATTACCAAAATACCCTC-GATTAGCAAAATTACTAGAATACCATTGGTTTATAAAA
*
52446750 TCACCAAAATACC
65 ACACCAAAATACC
52446763 TCGATTTGTA
Statistics
Matches: 70, Mismatches: 6, Indels: 2
0.90 0.08 0.03
Matches are distributed among these distances:
80 1 0.01
81 69 0.99
ACGTcount: A:0.41, C:0.21, G:0.09, T:0.29
Consensus pattern (81 bp):
GTTTACAAAATTACCAAAATACCCTCGATTAGCAAAATTACTAGAATACCATTGGTTTATAAAAA
CACCAAAATACCCTTG
Found at i:52446802 original size:53 final size:54
Alignment explanation
Indices: 52446674--52446832 Score: 151
Period size: 54 Copynumber: 3.0 Consensus size: 54
52446664 TAAAAACACC
* ** * *
52446674 AAAATACCCTTGGTTTACAAAATTACCAAAATACCCCTGGTTTGTAAAATTACT
1 AAAATACCATTGACTTATAAAATTACCAAAATACCCCTGATTTGTAAAATTACT
* ** * * *
52446728 AGAATACCATTGGTTTATAAAATCACCAAAATACCTC-GATTTGTAAGATTACT
1 AAAATACCATTGACTTATAAAATTACCAAAATACCCCTGATTTGTAAAATTACT
* * * **
52446781 AAAATACC-TTCGACTTGTAAAATTACCAAAGTACCCCCGATTTACAAAATTA
1 AAAATACCATT-GACTTATAAAATTACCAAAATACCCCTGATTTGTAAAATTA
52446833 TCGTTTTACC
Statistics
Matches: 86, Mismatches: 17, Indels: 4
0.80 0.16 0.04
Matches are distributed among these distances:
52 2 0.02
53 41 0.48
54 43 0.50
ACGTcount: A:0.40, C:0.20, G:0.09, T:0.30
Consensus pattern (54 bp):
AAAATACCATTGACTTATAAAATTACCAAAATACCCCTGATTTGTAAAATTACT
Found at i:52446829 original size:27 final size:27
Alignment explanation
Indices: 52446799--52446864 Score: 69
Period size: 27 Copynumber: 2.4 Consensus size: 27
52446789 TTCGACTTGT
52446799 AAAATTACCAAAGTACCCCCGATTTAC
1 AAAATTACCAAAGTACCCCCGATTTAC
* **** * *
52446826 AAAATTATCGTTTTACCCTCGATTTAT
1 AAAATTACCAAAGTACCCCCGATTTAC
52446853 AAAATTACCAAA
1 AAAATTACCAAA
52446865 ACAACCCTAT
Statistics
Matches: 28, Mismatches: 11, Indels: 0
0.72 0.28 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.41, C:0.23, G:0.06, T:0.30
Consensus pattern (27 bp):
AAAATTACCAAAGTACCCCCGATTTAC
Found at i:52446885 original size:27 final size:27
Alignment explanation
Indices: 52446855--52447194 Score: 334
Period size: 27 Copynumber: 12.7 Consensus size: 27
52446845 CGATTTATAA
* * *
52446855 AATTACCAAAACAACCCTATAGGGTAG
1 AATTACCGAAATAACCCTGTAGGGTAG
* *
52446882 AATTACCGAAATACCCCTGTAGGGCAG
1 AATTACCGAAATAACCCTGTAGGGTAG
* * *
52446909 AATTACCGAAAT-ACTCGTATAGGATAG
1 AATTACCGAAATAAC-CCTGTAGGGTAG
* *
52446936 AATTACCAAAAT-ACCCTTGTATGGTAG
1 AATTACCGAAATAACCC-TGTAGGGTAG
* *
52446963 AATTACTGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATAACCCTGTAGGGTAG
* * *
52446990 AATTACTGAAAT-ACTCCTATAAGGTAG
1 AATTACCGAAATAAC-CCTGTAGGGTAG
* *
52447017 AATTATCGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATAACCCTGTAGGGTAG
**
52447044 AATTATTGAAAT-ACCCTGTTA-GGTAG
1 AATTACCGAAATAACCCTG-TAGGGTAG
* *
52447070 AATTATCGAAATAGCCCTGTAGGGTAG
1 AATTACCGAAATAACCCTGTAGGGTAG
** *
52447097 AATTACTAAAATACCCCTGTAGGGTAG
1 AATTACCGAAATAACCCTGTAGGGTAG
52447124 AATTACCGAAAT-ACCCTTGTAGGGTAG
1 AATTACCGAAATAACCC-TGTAGGGTAG
* * *
52447151 AAATACTGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATAACCCTGTAGGGTAG
*
52447178 AATTACCGAGAT-ACCCT
1 AATTACCGAAATAACCCT
52447195 CATGGGGTAA
Statistics
Matches: 258, Mismatches: 45, Indels: 21
0.80 0.14 0.06
Matches are distributed among these distances:
26 33 0.13
27 218 0.84
28 7 0.03
ACGTcount: A:0.36, C:0.19, G:0.19, T:0.26
Consensus pattern (27 bp):
AATTACCGAAATAACCCTGTAGGGTAG
Found at i:52447192 original size:81 final size:81
Alignment explanation
Indices: 52446855--52447193 Score: 414
Period size: 81 Copynumber: 4.2 Consensus size: 81
52446845 CGATTTATAA
* * * * *
52446855 AATTACCAAAACAACCCTATAGGGTAGAATTACCGAAATACCCCTGTAGGGCAGAATTACCGAAA
1 AATTACCAAAATACCCCTGTAGGGTAGAATTACCGAAATACCCCTGTAGGGTAGAATTACTGAAA
* * *
52446920 TACTCGTATAGGATAG
66 TACCCCTATAGGGTAG
* * *
52446936 AATTACCAAAATACCCTTGTATGGTAGAATTACTGAAATACCCCTGTAGGGTAGAATTACTGAAA
1 AATTACCAAAATACCCCTGTAGGGTAGAATTACCGAAATACCCCTGTAGGGTAGAATTACTGAAA
* *
52447001 TACTCCTATAAGGTAG
66 TACCCCTATAGGGTAG
* * **
52447017 AATTATCGAAATACCCCTGTAGGGTAGAATTATTGAAATA-CCCTGTTA-GGTAGAATTA-TCGA
1 AATTACCAAAATACCCCTGTAGGGTAGAATTACCGAAATACCCCTG-TAGGGTAGAATTACT-GA
* *
52447079 AATAGCCCTGTAGGGTAG
64 AATACCCCTATAGGGTAG
* * *
52447097 AATTACTAAAATACCCCTGTAGGGTAGAATTACCGAAATACCCTTGTAGGGTAGAAATACTGAAA
1 AATTACCAAAATACCCCTGTAGGGTAGAATTACCGAAATACCCCTGTAGGGTAGAATTACTGAAA
*
52447162 TACCCCTGTAGGGTAG
66 TACCCCTATAGGGTAG
* *
52447178 AATTACCGAGATACCC
1 AATTACCAAAATACCC
52447194 TCATGGGGTA
Statistics
Matches: 222, Mismatches: 31, Indels: 10
0.84 0.12 0.04
Matches are distributed among these distances:
79 1 0.00
80 68 0.31
81 152 0.68
82 1 0.00
ACGTcount: A:0.37, C:0.19, G:0.19, T:0.25
Consensus pattern (81 bp):
AATTACCAAAATACCCCTGTAGGGTAGAATTACCGAAATACCCCTGTAGGGTAGAATTACTGAAA
TACCCCTATAGGGTAG
Found at i:52447203 original size:54 final size:53
Alignment explanation
Indices: 52446868--52447210 Score: 393
Period size: 54 Copynumber: 6.4 Consensus size: 53
52446858 TACCAAAACA
* *
52446868 ACCCTATAGGGTAGAATTACCGAAATACCCCTGTAGGGCAGAATTACCGAAAT
1 ACCCTATAGGGTAGAATTACTGAAATACCCCTGTAGGGTAGAATTACCGAAAT
* * ** * * *
52446921 ACTCGTATAGGATAGAATTACCAAAATACCCTTGTATGGTAGAATTACTGAAAT
1 AC-CCTATAGGGTAGAATTACTGAAATACCCCTGTAGGGTAGAATTACCGAAAT
* * * * *
52446975 ACCCCTGTAGGGTAGAATTACTGAAATACTCCTATAAGGTAGAATTATCGAAAT
1 A-CCCTATAGGGTAGAATTACTGAAATACCCCTGTAGGGTAGAATTACCGAAAT
* * *
52447029 ACCCCTGTAGGGTAGAATTATTGAAATA-CCCTGTTA-GGTAGAATTATCGAAAT
1 A-CCCTATAGGGTAGAATTACTGAAATACCCCTG-TAGGGTAGAATTACCGAAAT
* *
52447082 AGCCCTGTAGGGTAGAATTACTAAAATACCCCTGTAGGGTAGAATTACCGAAAT
1 A-CCCTATAGGGTAGAATTACTGAAATACCCCTGTAGGGTAGAATTACCGAAAT
* * *
52447136 ACCCTTGTAGGGTAGAAATACTGAAATACCCCTGTAGGGTAGAATTACCGAGAT
1 ACCC-TATAGGGTAGAATTACTGAAATACCCCTGTAGGGTAGAATTACCGAAAT
* *
52447190 ACCCTCATGGGGTAAAATTAC
1 ACCCT-ATAGGGTAGAATTAC
52447211 CATTTTGCCC
Statistics
Matches: 251, Mismatches: 32, Indels: 13
0.85 0.11 0.04
Matches are distributed among these distances:
53 53 0.21
54 197 0.78
55 1 0.00
ACGTcount: A:0.36, C:0.18, G:0.20, T:0.26
Consensus pattern (53 bp):
ACCCTATAGGGTAGAATTACTGAAATACCCCTGTAGGGTAGAATTACCGAAAT
Found at i:52447593 original size:22 final size:23
Alignment explanation
Indices: 52447568--52447617 Score: 59
Period size: 22 Copynumber: 2.3 Consensus size: 23
52447558 GATGGCTCTA
*
52447568 TGCCAATC-TAAATATGGCTTCG
1 TGCCAATCTTAAATATGCCTTCG
* *
52447590 TGCC-ATCTTGACTATGCCTTCG
1 TGCCAATCTTAAATATGCCTTCG
52447612 TGCCAA
1 TGCCAA
52447618 ACGTATTTAC
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
21 3 0.13
22 19 0.83
23 1 0.04
ACGTcount: A:0.22, C:0.28, G:0.18, T:0.32
Consensus pattern (23 bp):
TGCCAATCTTAAATATGCCTTCG
Found at i:52447805 original size:27 final size:27
Alignment explanation
Indices: 52447774--52447838 Score: 78
Period size: 27 Copynumber: 2.4 Consensus size: 27
52447764 TATTCTGTTG
*
52447774 AGTGGCTTTGCCAC-ATTATCTGATTCT
1 AGTGGCTTTGCCACAAATATCTG-TTCT
* *
52447801 GGTGGCTATGCCACAAATATCTGTTCT
1 AGTGGCTTTGCCACAAATATCTGTTCT
*
52447828 AGAGGCTTTGC
1 AGTGGCTTTGC
52447839 TTCAACTTAC
Statistics
Matches: 31, Mismatches: 6, Indels: 2
0.79 0.15 0.05
Matches are distributed among these distances:
27 24 0.77
28 7 0.23
ACGTcount: A:0.20, C:0.22, G:0.23, T:0.35
Consensus pattern (27 bp):
AGTGGCTTTGCCACAAATATCTGTTCT
Found at i:52448030 original size:6 final size:6
Alignment explanation
Indices: 52447986--52448081 Score: 81
Period size: 6 Copynumber: 15.7 Consensus size: 6
52447976 ATTCACATTT
* * * *
52447986 TGATTT TGATTC TG-TTACC TGATAC TGATTC TAATTC TGATTC TG-TCACC
1 TGATTC TGATTC TGATT--C TGATTC TGATTC TGATTC TGATTC TGAT--TC
*
52448036 TGATTC TGATTC TGATTC TGGTTC TGATTC TGATTC T-AGTTC TGAT
1 TGATTC TGATTC TGATTC TGATTC TGATTC TGATTC TGA-TTC TGAT
52448082 AATGTTTCTT
Statistics
Matches: 73, Mismatches: 9, Indels: 16
0.74 0.09 0.16
Matches are distributed among these distances:
5 4 0.05
6 60 0.82
7 7 0.10
8 2 0.03
ACGTcount: A:0.18, C:0.18, G:0.17, T:0.48
Consensus pattern (6 bp):
TGATTC
Found at i:52448030 original size:31 final size:31
Alignment explanation
Indices: 52447992--52448061 Score: 104
Period size: 31 Copynumber: 2.3 Consensus size: 31
52447982 ATTTTGATTT
*
52447992 TGATTCTGTTACCTGATACTGATTCTAATTC
1 TGATTCTGTCACCTGATACTGATTCTAATTC
* *
52448023 TGATTCTGTCACCTGATTCTGATTCTGATTC
1 TGATTCTGTCACCTGATACTGATTCTAATTC
*
52448054 TGGTTCTG
1 TGATTCTG
52448062 ATTCTGATTC
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 35 1.00
ACGTcount: A:0.17, C:0.20, G:0.17, T:0.46
Consensus pattern (31 bp):
TGATTCTGTCACCTGATACTGATTCTAATTC
Found at i:52448831 original size:17 final size:17
Alignment explanation
Indices: 52448806--52448839 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
52448796 TGTTTATGGT
* *
52448806 AAAATAATTTTTTATTG
1 AAAAGAATTTTTCATTG
52448823 AAAAGAATTTTTCATTG
1 AAAAGAATTTTTCATTG
52448840 GCCACAATTT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.41, C:0.03, G:0.09, T:0.47
Consensus pattern (17 bp):
AAAAGAATTTTTCATTG
Found at i:52448961 original size:29 final size:30
Alignment explanation
Indices: 52448929--52448998 Score: 79
Period size: 29 Copynumber: 2.4 Consensus size: 30
52448919 TTGATTTAAT
52448929 GTGTAATTGTACAAATGAAAC-TTAATTTG
1 GTGTAATTGTACAAATGAAACTTTAATTTG
* * **
52448958 GTGTAATTATATATGTGAAACTTTAATTTG
1 GTGTAATTGTACAAATGAAACTTTAATTTG
* *
52448988 GTTTAAATGTA
1 GTGTAATTGTA
52448999 TACTTGAACC
Statistics
Matches: 33, Mismatches: 7, Indels: 1
0.80 0.17 0.02
Matches are distributed among these distances:
29 17 0.52
30 16 0.48
ACGTcount: A:0.36, C:0.04, G:0.17, T:0.43
Consensus pattern (30 bp):
GTGTAATTGTACAAATGAAACTTTAATTTG
Found at i:52454238 original size:31 final size:33
Alignment explanation
Indices: 52454191--52454255 Score: 89
Period size: 33 Copynumber: 2.0 Consensus size: 33
52454181 TTTGAAAATT
52454191 TTTATTTATATTATTTAAA-ATATAAAATATAA
1 TTTATTTATATTATTTAAATATATAAAATATAA
* *
52454223 TTTATTT-TTTTATTTAAATTATTTAAAATATAA
1 TTTATTTATATTATTTAAA-TATATAAAATATAA
52454256 AATATAATTT
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
31 10 0.34
32 7 0.24
33 12 0.41
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (33 bp):
TTTATTTATATTATTTAAATATATAAAATATAA
Found at i:52454244 original size:40 final size:40
Alignment explanation
Indices: 52454189--52454270 Score: 155
Period size: 40 Copynumber: 2.0 Consensus size: 40
52454179 CATTTGAAAA
*
52454189 TTTTTATTTATATTATTTAAAATATAAAATATAATTTATT
1 TTTTTATTTAAATTATTTAAAATATAAAATATAATTTATT
52454229 TTTTTATTTAAATTATTTAAAATATAAAATATAATTTATT
1 TTTTTATTTAAATTATTTAAAATATAAAATATAATTTATT
52454269 TT
1 TT
52454271 AAATATGTAA
Statistics
Matches: 41, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
40 41 1.00
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (40 bp):
TTTTTATTTAAATTATTTAAAATATAAAATATAATTTATT
Found at i:52456050 original size:6 final size:6
Alignment explanation
Indices: 52456041--52456066 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
52456031 TTTTTTATTT
52456041 TTAAAA TTAAAA TTAAAA TTAAAA TT
1 TTAAAA TTAAAA TTAAAA TTAAAA TT
52456067 TTTATTTTAC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (6 bp):
TTAAAA
Found at i:52466236 original size:3 final size:3
Alignment explanation
Indices: 52466228--52467036 Score: 1618
Period size: 3 Copynumber: 269.7 Consensus size: 3
52466218 GTGAGGTAAG
52466228 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
52466276 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
52466324 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
52466372 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
52466420 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
52466468 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
52466516 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
52466564 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
52466612 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
52466660 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
52466708 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
52466756 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
52466804 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
52466852 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
52466900 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
52466948 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
52466996 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
52467037 AGATGAGTGG
Statistics
Matches: 806, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 806 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:52467215 original size:23 final size:26
Alignment explanation
Indices: 52467189--52467237 Score: 77
Period size: 23 Copynumber: 2.0 Consensus size: 26
52467179 TTTGTGGATT
52467189 AATTATTG-ATTGAAAA-GTG-GAAA
1 AATTATTGAATTGAAAATGTGAGAAA
52467212 AATTATTGAATTGAAAATGTGAGAAA
1 AATTATTGAATTGAAAATGTGAGAAA
52467238 TTGTGATTGA
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
23 8 0.35
24 8 0.35
25 3 0.13
26 4 0.17
ACGTcount: A:0.49, C:0.00, G:0.20, T:0.31
Consensus pattern (26 bp):
AATTATTGAATTGAAAATGTGAGAAA
Found at i:52478871 original size:21 final size:21
Alignment explanation
Indices: 52478842--52478881 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
52478832 ATGAATAATA
*
52478842 TAATTGTTTTG-CGTTTTAACT
1 TAATGGTTTTGAC-TTTTAACT
52478863 TAATGGTTTTGACTTTTAA
1 TAATGGTTTTGACTTTTAA
52478882 TTTTAGAAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
21 16 0.94
22 1 0.06
ACGTcount: A:0.23, C:0.07, G:0.15, T:0.55
Consensus pattern (21 bp):
TAATGGTTTTGACTTTTAACT
Found at i:52488805 original size:13 final size:13
Alignment explanation
Indices: 52488781--52488824 Score: 63
Period size: 13 Copynumber: 3.5 Consensus size: 13
52488771 TTAGATTAAA
52488781 ATTATA-TATTTT
1 ATTATATTATTTT
52488793 ATTATATTATTTT
1 ATTATATTATTTT
*
52488806 AATATATTATTTT
1 ATTATATTATTTT
*
52488819 TTTATA
1 ATTATA
52488825 AATTAATTAT
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
12 6 0.21
13 22 0.79
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (13 bp):
ATTATATTATTTT
Found at i:52488813 original size:18 final size:18
Alignment explanation
Indices: 52488792--52488839 Score: 50
Period size: 15 Copynumber: 2.8 Consensus size: 18
52488782 TTATATATTT
52488792 TATTATATTATTTTAATA
1 TATTATATTATTTTAATA
52488810 TATTAT-TT-TTTT-ATA
1 TATTATATTATTTTAATA
*
52488825 AATTA-ATTATATTTA
1 TATTATATTAT-TTTA
52488840 TTAATAAAAT
Statistics
Matches: 25, Mismatches: 1, Indels: 8
0.74 0.03 0.24
Matches are distributed among these distances:
15 9 0.36
16 5 0.20
17 5 0.20
18 6 0.24
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (18 bp):
TATTATATTATTTTAATA
Found at i:52488837 original size:21 final size:23
Alignment explanation
Indices: 52488804--52488847 Score: 56
Period size: 21 Copynumber: 2.0 Consensus size: 23
52488794 TTATATTATT
* *
52488804 TTAATATATTATTTTTTTATAAA
1 TTAATATATTATTTATTAATAAA
52488827 TTAAT-TA-TATTTATTAATAAA
1 TTAATATATTATTTATTAATAAA
52488848 ATGTATTATG
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
21 12 0.63
22 2 0.11
23 5 0.26
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (23 bp):
TTAATATATTATTTATTAATAAA
Found at i:52490178 original size:3 final size:3
Alignment explanation
Indices: 52490170--52490201 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
52490160 ATAAACAATG
52490170 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TC
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TC
52490202 ACTGCCGTCG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.00, C:0.34, G:0.00, T:0.66
Consensus pattern (3 bp):
TCT
Found at i:52496693 original size:21 final size:21
Alignment explanation
Indices: 52496667--52496706 Score: 80
Period size: 21 Copynumber: 1.9 Consensus size: 21
52496657 AACAGGACCA
52496667 CTGATGTGGCAAGTTAACTAG
1 CTGATGTGGCAAGTTAACTAG
52496688 CTGATGTGGCAAGTTAACT
1 CTGATGTGGCAAGTTAACT
52496707 TGCCACGCTG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.28, C:0.15, G:0.28, T:0.30
Consensus pattern (21 bp):
CTGATGTGGCAAGTTAACTAG
Found at i:52497536 original size:3 final size:3
Alignment explanation
Indices: 52497528--52497560 Score: 66
Period size: 3 Copynumber: 11.0 Consensus size: 3
52497518 GTATGTCCAT
52497528 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC
52497561 CTCTCCTCTC
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (3 bp):
TTC
Found at i:52500541 original size:28 final size:27
Alignment explanation
Indices: 52500494--52500563 Score: 70
Period size: 28 Copynumber: 2.5 Consensus size: 27
52500484 TAAAAAAATA
*
52500494 TAATTTTTAAAACATTTTTA-ATGATTTG
1 TAATTTTTAAAA-ATATTTATAT-ATTTG
*
52500522 TAATTTTTAAAAATAATTTATATATTTT
1 TAATTTTTAAAAAT-ATTTATATATTTG
*
52500550 TAAAATTTTAAAAA
1 T-AATTTTTAAAAA
52500564 ACTAATTAAA
Statistics
Matches: 36, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
27 2 0.06
28 21 0.58
29 13 0.36
ACGTcount: A:0.44, C:0.01, G:0.03, T:0.51
Consensus pattern (27 bp):
TAATTTTTAAAAATATTTATATATTTG
Found at i:52505387 original size:50 final size:50
Alignment explanation
Indices: 52505316--52505500 Score: 361
Period size: 50 Copynumber: 3.7 Consensus size: 50
52505306 ACATGCCAAA
52505316 GCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTCTCGGTGCCCAT
1 GCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTCTCGGTGCCCAT
52505366 GCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTCTCGGTGCCCAT
1 GCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTCTCGGTGCCCAT
52505416 GCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTCTCGGTGCCCAT
1 GCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTCTCGGTGCCCAT
*
52505466 GCCATGTCCCAGACATGGTCTTACATGGGATCTCT
1 GCCATGTCCCAGACATGGTCTTACATGGGACCTCT
52505501 TTACCCAAAT
Statistics
Matches: 134, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
50 134 1.00
ACGTcount: A:0.17, C:0.33, G:0.24, T:0.26
Consensus pattern (50 bp):
GCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTCTCGGTGCCCAT
Found at i:52505616 original size:13 final size:13
Alignment explanation
Indices: 52505595--52505626 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
52505585 GCTTGGATCA
*
52505595 TCATCAAATAAAT
1 TCATAAAATAAAT
52505608 TCATAAAATAAAT
1 TCATAAAATAAAT
52505621 TCATAA
1 TCATAA
52505627 TTGCTGGAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.56, C:0.12, G:0.00, T:0.31
Consensus pattern (13 bp):
TCATAAAATAAAT
Found at i:52505874 original size:30 final size:30
Alignment explanation
Indices: 52505838--52505895 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
52505828 CCTCGACTCT
*
52505838 AACTTTTTCAAAATTACAATTTTGCCCCTA
1 AACTTTTACAAAATTACAATTTTGCCCCTA
* *
52505868 AACTTTTACATAATTACATTTTTGCCCC
1 AACTTTTACAAAATTACAATTTTGCCCC
52505896 AAGGCTCGGA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.31, C:0.24, G:0.03, T:0.41
Consensus pattern (30 bp):
AACTTTTACAAAATTACAATTTTGCCCCTA
Found at i:52519139 original size:73 final size:73
Alignment explanation
Indices: 52518995--52519142 Score: 224
Period size: 73 Copynumber: 2.0 Consensus size: 73
52518985 CTGAAACAGA
* * *
52518995 TACTTAATTGCTCAACCTACTTATTGACCCTAACTACAAACCTCAAAACTTCTAACCCCAAATTC
1 TACTTAATTGCTAAACCTACTTATTGACCCTAACTACAAACCTCAAAACTTCTAACCCCAAAATA
*
52519060 TGAGGTGT
66 TAAGGTGT
* * * *
52519068 TACTTAATTGTTAAACCTATTTATTGACCCTAACTACAAACCTCAAAACTTCTAATCCTAAAATA
1 TACTTAATTGCTAAACCTACTTATTGACCCTAACTACAAACCTCAAAACTTCTAACCCCAAAATA
52519133 TAAGGTGT
66 TAAGGTGT
52519141 TA
1 TA
52519143 AAACTCACCC
Statistics
Matches: 67, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
73 67 1.00
ACGTcount: A:0.36, C:0.24, G:0.07, T:0.32
Consensus pattern (73 bp):
TACTTAATTGCTAAACCTACTTATTGACCCTAACTACAAACCTCAAAACTTCTAACCCCAAAATA
TAAGGTGT
Found at i:52520272 original size:19 final size:19
Alignment explanation
Indices: 52520248--52520341 Score: 66
Period size: 19 Copynumber: 4.8 Consensus size: 19
52520238 TTTAACTATT
*
52520248 TTTTTTATAATTTTTAATG
1 TTTTTTATAATTTTTAATA
**
52520267 TTTTTTATTTTTTTTAATA
1 TTTTTTATAATTTTTAATA
**
52520286 -TTTTTATTAAAATTTAATA
1 TTTTTTA-TAATTTTTAATA
* *
52520305 ATTTTTATCATTCTTATTAAT-
1 TTTTTTAT-AAT-TT-TTAATA
*
52520326 TTTTTTATCATTTTTA
1 TTTTTTATAATTTTTA
52520342 TTATATGTTA
Statistics
Matches: 57, Mismatches: 13, Indels: 11
0.70 0.16 0.14
Matches are distributed among these distances:
18 9 0.16
19 27 0.47
20 8 0.14
21 8 0.14
22 5 0.09
ACGTcount: A:0.28, C:0.03, G:0.01, T:0.68
Consensus pattern (19 bp):
TTTTTTATAATTTTTAATA
Found at i:52524626 original size:24 final size:24
Alignment explanation
Indices: 52524599--52524650 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
52524589 TTAGTAAGTC
52524599 AAATAAACCATACTAATAAATACT
1 AAATAAACCATACTAATAAATACT
* **
52524623 AAATATATTATACTAATAAATACT
1 AAATAAACCATACTAATAAATACT
52524647 AAAT
1 AAAT
52524651 CTTCTAGAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.58, C:0.12, G:0.00, T:0.31
Consensus pattern (24 bp):
AAATAAACCATACTAATAAATACT
Found at i:52526593 original size:24 final size:24
Alignment explanation
Indices: 52526566--52526617 Score: 68
Period size: 24 Copynumber: 2.2 Consensus size: 24
52526556 TTAGTAAGTC
*
52526566 AAATAAACCATACTAATAAATGCT
1 AAATAAACCATACTAATAAATACT
* **
52526590 AAATATATTATACTAATAAATACT
1 AAATAAACCATACTAATAAATACT
52526614 AAAT
1 AAAT
52526618 CTTCTAGAAA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.56, C:0.12, G:0.02, T:0.31
Consensus pattern (24 bp):
AAATAAACCATACTAATAAATACT
Found at i:52530861 original size:25 final size:25
Alignment explanation
Indices: 52530814--52530861 Score: 62
Period size: 25 Copynumber: 1.9 Consensus size: 25
52530804 TATATATTAC
* *
52530814 ATACATAAATAATTATATTTATTCA
1 ATACAAAAATAATTATATGTATTCA
52530839 ATACAAAAATAATT-TGATGTATT
1 ATACAAAAATAATTAT-ATGTATT
52530862 TATTTCTTTA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
24 1 0.05
25 19 0.95
ACGTcount: A:0.48, C:0.06, G:0.04, T:0.42
Consensus pattern (25 bp):
ATACAAAAATAATTATATGTATTCA
Found at i:52530959 original size:30 final size:30
Alignment explanation
Indices: 52530891--52530959 Score: 77
Period size: 31 Copynumber: 2.3 Consensus size: 30
52530881 GATTAAATCA
*
52530891 AAATTAAAGTTTCAAGTATATATTTGAACC
1 AAATTAAAGTTTCAAGTATATAATTGAACC
* * *
52530921 ACAATTAAAGTTTTATGTGTATAATT-ATACC
1 A-AATTAAAGTTTCAAGTATATAATTGA-ACC
52530952 AAATTAAA
1 AAATTAAA
52530960 ATCCGTATAT
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
30 9 0.27
31 24 0.73
ACGTcount: A:0.45, C:0.09, G:0.09, T:0.38
Consensus pattern (30 bp):
AAATTAAAGTTTCAAGTATATAATTGAACC
Found at i:52532564 original size:200 final size:200
Alignment explanation
Indices: 52532221--52532621 Score: 793
Period size: 200 Copynumber: 2.0 Consensus size: 200
52532211 AGCATCAATA
52532221 GCCAAAATGATGTCGTTTTACATCAAACTCGAAAATCGACCCGACCCAGTAGCTAGGATCCGCGT
1 GCCAAAATGATGTCGTTTTACATCAAACTCGAAAATCGACCCGACCCAGTAGCTAGGATCCGCGT
52532286 GTTTTTAATGGAAGGGCTAATTGCACTTTTAGCCCTTCCGATTTTTAATGATTTTTTCAATCAAG
66 GTTTTTAATGGAAGGGCTAATTGCACTTTTAGCCCTTCCGATTTTTAATGATTTTTTCAATCAAG
52532351 TATTTTAGTTTTTTTAATTTTACCCCACAATTTATTGCACTTTCAATTTGATCTCTATTTGAACG
131 TATTTTAGTTTTTTTAATTTTACCCCACAATTTATTGCACTTTCAATTTGATCTCTATTTGAACG
52532416 ACGTC
196 ACGTC
*
52532421 GCCAAAATGATGTCGTTTTACATCAAACTCGAAAATTGACCCGACCCAGTAGCTAGGATCCGCGT
1 GCCAAAATGATGTCGTTTTACATCAAACTCGAAAATCGACCCGACCCAGTAGCTAGGATCCGCGT
52532486 GTTTTTAATGGAAGGGCTAATTGCACTTTTAGCCCTTCCGATTTTTAATGATTTTTTCAATCAAG
66 GTTTTTAATGGAAGGGCTAATTGCACTTTTAGCCCTTCCGATTTTTAATGATTTTTTCAATCAAG
52532551 TATTTTAGTTTTTTTAATTTTACCCCACAATTTATTGCACTTTCAATTTGATCTCTATTTGAACG
131 TATTTTAGTTTTTTTAATTTTACCCCACAATTTATTGCACTTTCAATTTGATCTCTATTTGAACG
52532616 ACGTC
196 ACGTC
52532621 G
1 G
52532622 TTTTGGAGAA
Statistics
Matches: 200, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
200 200 1.00
ACGTcount: A:0.26, C:0.20, G:0.15, T:0.38
Consensus pattern (200 bp):
GCCAAAATGATGTCGTTTTACATCAAACTCGAAAATCGACCCGACCCAGTAGCTAGGATCCGCGT
GTTTTTAATGGAAGGGCTAATTGCACTTTTAGCCCTTCCGATTTTTAATGATTTTTTCAATCAAG
TATTTTAGTTTTTTTAATTTTACCCCACAATTTATTGCACTTTCAATTTGATCTCTATTTGAACG
ACGTC
Found at i:52537418 original size:46 final size:46
Alignment explanation
Indices: 52537351--52537535 Score: 289
Period size: 46 Copynumber: 4.0 Consensus size: 46
52537341 CATGGAAAAG
* *
52537351 TGTGAAACGTAAGTATGGTATTTCAGTGAAGAAAACCATACTGAGT
1 TGTGAAAAGTAGGTATGGTATTTCAGTGAAGAAAACCATACTGAGT
** *
52537397 TGTGAAAAGTAGGTATGGTATTTTGGTAAAGAAAACCATACTGAGT
1 TGTGAAAAGTAGGTATGGTATTTCAGTGAAGAAAACCATACTGAGT
*
52537443 TGTGAAAAGTAGGTATGGTGTTTCAGTGAAGAAAACCATACTGAGT
1 TGTGAAAAGTAGGTATGGTATTTCAGTGAAGAAAACCATACTGAGT
* * *
52537489 TGTGAAAAGTACGTATGGTATTTCCGTGAAGAAAACCATACTAAGT
1 TGTGAAAAGTAGGTATGGTATTTCAGTGAAGAAAACCATACTGAGT
52537535 T
1 T
52537536 ATAGCCTTGT
Statistics
Matches: 126, Mismatches: 13, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
46 126 1.00
ACGTcount: A:0.36, C:0.10, G:0.25, T:0.29
Consensus pattern (46 bp):
TGTGAAAAGTAGGTATGGTATTTCAGTGAAGAAAACCATACTGAGT
Found at i:52540916 original size:50 final size:50
Alignment explanation
Indices: 52540800--52541048 Score: 275
Period size: 50 Copynumber: 4.8 Consensus size: 50
52540790 GATAATAACA
* * * ** * *
52540800 TGCCAAAGCCATGTCTCAGACATGGTCTTACATGGGATGTTCTCGTGAT-GG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGA-CCTCTCAT-CTCGG
* *
52540851 TGCCCATGCCATGTCCCAGACATGGTCTTATAGGGGACCTCTCATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
* * *
52540901 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
* *
52540951 TGCCCATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATGATCTTAAGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTC---ATC-T-CGG
* *
52541006 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCTCT
1 -TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCT
52541049 TTACCCAAAT
Statistics
Matches: 169, Mismatches: 22, Indels: 9
0.85 0.11 0.05
Matches are distributed among these distances:
49 1 0.01
50 92 0.54
51 32 0.19
53 2 0.01
54 1 0.01
55 2 0.01
56 39 0.23
ACGTcount: A:0.20, C:0.29, G:0.24, T:0.27
Consensus pattern (50 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
Found at i:52540977 original size:100 final size:104
Alignment explanation
Indices: 52540799--52541048 Score: 348
Period size: 100 Copynumber: 2.4 Consensus size: 104
52540789 TGATAATAAC
* **
52540799 ATGCCAAAGCCATGTCTCAGACATGGTCTTACATGGGATGTTCTCGTGATGGTGCCCATGCCATG
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGA-CCTCTCGTGATGGTGCCCATGCCATG
* *
52540864 TCCCAGACATGGTCTTATAGGGGACCTCTC-ATC-T-CGG
65 TCCCAGACATGGTCTTACAGGGGACCTCTCAATCTTAAGG
* *
52540901 -TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGT-CTCGGTGCCCATGCCATG
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTGAT-GGTGCCCATGCCATG
52540964 TCCCAGACATGGTCTTACAGGGGACCTCTCATGATCTTAAGG
65 TCCCAGACATGGTCTTACAGGGGACCTCTCA--ATCTTAAGG
* *
52541006 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCTCT
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCT
52541049 TTACCCAAAT
Statistics
Matches: 132, Mismatches: 9, Indels: 10
0.87 0.06 0.07
Matches are distributed among these distances:
99 1 0.01
100 50 0.38
101 35 0.27
103 3 0.02
104 1 0.01
105 2 0.02
106 40 0.30
ACGTcount: A:0.21, C:0.29, G:0.24, T:0.26
Consensus pattern (104 bp):
ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTGATGGTGCCCATGCCATGT
CCCAGACATGGTCTTACAGGGGACCTCTCAATCTTAAGG
Found at i:52541164 original size:13 final size:13
Alignment explanation
Indices: 52541143--52541174 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
52541133 GCTTGGATCA
*
52541143 TCATCAAATAAAT
1 TCATAAAATAAAT
52541156 TCATAAAATAAAT
1 TCATAAAATAAAT
52541169 TCATAA
1 TCATAA
52541175 TTGCTGGAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.56, C:0.12, G:0.00, T:0.31
Consensus pattern (13 bp):
TCATAAAATAAAT
Found at i:52541420 original size:30 final size:30
Alignment explanation
Indices: 52541386--52541443 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
52541376 CCTCGACTCT
*
52541386 AACTTTTTTAAAATTACAAATTTGCCCCTA
1 AACTTTTATAAAATTACAAATTTGCCCCTA
* **
52541416 AACTTTTATATAATTACATTTTTGCCCC
1 AACTTTTATAAAATTACAAATTTGCCCC
52541444 AAGGCTCGGA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.33, C:0.21, G:0.03, T:0.43
Consensus pattern (30 bp):
AACTTTTATAAAATTACAAATTTGCCCCTA
Found at i:52555228 original size:16 final size:16
Alignment explanation
Indices: 52555209--52555248 Score: 53
Period size: 16 Copynumber: 2.4 Consensus size: 16
52555199 ATTAATGAGT
*
52555209 ATAATATTATATGAAA
1 ATAATATTATATAAAA
*
52555225 ATAATACTATATAAAA
1 ATAATATTATATAAAA
52555241 ATATATAT
1 ATA-ATAT
52555249 ACACGTATAA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
16 17 0.85
17 3 0.15
ACGTcount: A:0.57, C:0.03, G:0.03, T:0.38
Consensus pattern (16 bp):
ATAATATTATATAAAA
Found at i:52558106 original size:5 final size:5
Alignment explanation
Indices: 52558096--52558138 Score: 58
Period size: 5 Copynumber: 9.4 Consensus size: 5
52558086 GGTCCCTTGG
52558096 TTTCT TTTCT TTT-T TTTCT TTTC- TTTC- TTTC- TTTCT TTTCT TT
1 TTTCT TTTCT TTTCT TTTCT TTTCT TTTCT TTTCT TTTCT TTTCT TT
52558139 ATTTTCCGGC
Statistics
Matches: 36, Mismatches: 0, Indels: 4
0.90 0.00 0.10
Matches are distributed among these distances:
4 16 0.44
5 20 0.56
ACGTcount: A:0.00, C:0.19, G:0.00, T:0.81
Consensus pattern (5 bp):
TTTCT
Found at i:52558114 original size:9 final size:9
Alignment explanation
Indices: 52558096--52558144 Score: 64
Period size: 9 Copynumber: 5.4 Consensus size: 9
52558086 GGTCCCTTGG
52558096 TTTCTTTTCT
1 TTTC-TTTCT
*
52558106 TTTTTTTCT
1 TTTCTTTCT
52558115 TTTCTTTC-
1 TTTCTTTCT
52558123 TTTCTTTCT
1 TTTCTTTCT
*
52558132 TTTCTTTAT
1 TTTCTTTCT
52558141 TTTC
1 TTTC
52558145 CGGCCACCGT
Statistics
Matches: 35, Mismatches: 3, Indels: 3
0.85 0.07 0.07
Matches are distributed among these distances:
8 8 0.23
9 24 0.69
10 3 0.09
ACGTcount: A:0.02, C:0.18, G:0.00, T:0.80
Consensus pattern (9 bp):
TTTCTTTCT
Found at i:52563067 original size:28 final size:27
Alignment explanation
Indices: 52563014--52563115 Score: 86
Period size: 29 Copynumber: 3.7 Consensus size: 27
52563004 CGTAGAATTA
52563014 AATTTTATATTTTTATATAAAA-AAATAT
1 AATTTTATATTTTTA-A-AAAATAAATAT
* *
52563042 AATTTTATAATTTTAAAAAACTAAATTAA
1 AATTTTATATTTTTAAAAAA-TAAA-TAT
52563071 AATTTGT-TATTTTTAAAAAATTAAAATAT
1 AATTT-TATATTTTTAAAAAA-T-AAATAT
*
52563100 AA--TTATATTATTAAAA
1 AATTTTATATTTTTAAAA
52563116 TTTTATAAAG
Statistics
Matches: 62, Mismatches: 6, Indels: 13
0.77 0.07 0.16
Matches are distributed among these distances:
26 5 0.08
27 12 0.19
28 17 0.27
29 24 0.39
30 4 0.06
ACGTcount: A:0.52, C:0.01, G:0.01, T:0.46
Consensus pattern (27 bp):
AATTTTATATTTTTAAAAAATAAATAT
Found at i:52563074 original size:29 final size:28
Alignment explanation
Indices: 52563009--52563091 Score: 84
Period size: 28 Copynumber: 3.0 Consensus size: 28
52562999 AACCGCGTAG
52563009 AATT-AAATTTTATATTTTTATATAAAA-A
1 AATTAAAATTTTATATTTTTA-A-AAAATA
* *
52563037 AA-TATAATTTTATAATTTTAAAAAACTA
1 AATTAAAATTTTATATTTTTAAAAAA-TA
52563065 AATTAAAATTTGT-TATTTTTAAAAAAT
1 AATTAAAATTT-TATATTTTTAAAAAAT
52563092 TAAAATATAA
Statistics
Matches: 46, Mismatches: 4, Indels: 10
0.77 0.07 0.17
Matches are distributed among these distances:
26 4 0.09
27 2 0.04
28 20 0.43
29 19 0.41
30 1 0.02
ACGTcount: A:0.51, C:0.01, G:0.01, T:0.47
Consensus pattern (28 bp):
AATTAAAATTTTATATTTTTAAAAAATA
Found at i:52563103 original size:29 final size:29
Alignment explanation
Indices: 52563014--52563103 Score: 87
Period size: 29 Copynumber: 3.1 Consensus size: 29
52563004 CGTAGAATTA
* *
52563014 AATTTTATATTTTTATATAAA--AAAATAT
1 AATTTTATAATTTTA-AAAAACTAAAATAT
* *
52563042 AATTTTATAATTTTAAAAAACTAAATTAA
1 AATTTTATAATTTTAAAAAACTAAAATAT
* *
52563071 AATTTGT-TATTTTTAAAAAATTAAAATAT
1 AATTT-TATAATTTTAAAAAACTAAAATAT
52563100 AATT
1 AATT
52563104 ATATTATTAA
Statistics
Matches: 51, Mismatches: 8, Indels: 5
0.80 0.12 0.08
Matches are distributed among these distances:
27 4 0.08
28 14 0.27
29 32 0.63
30 1 0.02
ACGTcount: A:0.51, C:0.01, G:0.01, T:0.47
Consensus pattern (29 bp):
AATTTTATAATTTTAAAAAACTAAAATAT
Found at i:52563270 original size:34 final size:34
Alignment explanation
Indices: 52563227--52563331 Score: 183
Period size: 34 Copynumber: 3.1 Consensus size: 34
52563217 CAAAGAACGC
52563227 CCTCAGCTCGTGGTGACACTTACTCTTTTTAGGT
1 CCTCAGCTCGTGGTGACACTTACTCTTTTTAGGT
* *
52563261 CCTCAGCTCGTGGTGACACTTATTCTTTTTATGT
1 CCTCAGCTCGTGGTGACACTTACTCTTTTTAGGT
*
52563295 CCTCAGCTCGTGGTGACACTTACTCTTTTTAGAT
1 CCTCAGCTCGTGGTGACACTTACTCTTTTTAGGT
52563329 CCT
1 CCT
52563332 TTTTTTTTTT
Statistics
Matches: 66, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
34 66 1.00
ACGTcount: A:0.15, C:0.27, G:0.18, T:0.40
Consensus pattern (34 bp):
CCTCAGCTCGTGGTGACACTTACTCTTTTTAGGT
Found at i:52565564 original size:12 final size:12
Alignment explanation
Indices: 52565547--52565593 Score: 67
Period size: 12 Copynumber: 3.9 Consensus size: 12
52565537 ATTATTTTTT
52565547 ACTTATTTACTC
1 ACTTATTTACTC
* *
52565559 ACTTATTTATTT
1 ACTTATTTACTC
*
52565571 ACTTATTTATTC
1 ACTTATTTACTC
52565583 ACTTATTTACT
1 ACTTATTTACT
52565594 TCAATTTTTT
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
12 31 1.00
ACGTcount: A:0.26, C:0.17, G:0.00, T:0.57
Consensus pattern (12 bp):
ACTTATTTACTC
Found at i:52565576 original size:24 final size:24
Alignment explanation
Indices: 52565538--52565591 Score: 92
Period size: 24 Copynumber: 2.3 Consensus size: 24
52565528 TTCTTCTTAA
52565538 TTATTT-TTTACTTATTTACTCAC
1 TTATTTATTTACTTATTTACTCAC
*
52565561 TTATTTATTTACTTATTTATTCAC
1 TTATTTATTTACTTATTTACTCAC
52565585 TTATTTA
1 TTATTTA
52565592 CTTCAATTTT
Statistics
Matches: 29, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
23 6 0.21
24 23 0.79
ACGTcount: A:0.24, C:0.13, G:0.00, T:0.63
Consensus pattern (24 bp):
TTATTTATTTACTTATTTACTCAC
Found at i:52570469 original size:50 final size:51
Alignment explanation
Indices: 52570392--52570520 Score: 174
Period size: 50 Copynumber: 2.5 Consensus size: 51
52570382 GACCATGGCA
*
52570392 ACAAGTGATAAGTGATAGCTTCGGCTACACTT-ATCTGATCAAGGA-AAAGTG
1 ACAAGTGATAAGTGATAGCTTCGGCTACACTTAAT-AGATCAAGGACAAA-TG
*
52570443 A-AAGTGATAAGTGATAGCTTCGGCTACACTTAATAGATCAATGACAAATG
1 ACAAGTGATAAGTGATAGCTTCGGCTACACTTAATAGATCAAGGACAAATG
* * *
52570493 ACAAGTGAAAAGTGGTAGCTTCAGCTAC
1 ACAAGTGATAAGTGATAGCTTCGGCTAC
52570521 CTGATCAGTG
Statistics
Matches: 70, Mismatches: 5, Indels: 6
0.86 0.06 0.07
Matches are distributed among these distances:
50 41 0.59
51 29 0.41
ACGTcount: A:0.37, C:0.16, G:0.22, T:0.25
Consensus pattern (51 bp):
ACAAGTGATAAGTGATAGCTTCGGCTACACTTAATAGATCAAGGACAAATG
Found at i:52570534 original size:31 final size:31
Alignment explanation
Indices: 52570496--52570640 Score: 220
Period size: 31 Copynumber: 4.7 Consensus size: 31
52570486 ACAAATGACA
*
52570496 AGTGAAAAGTGGTAGCTTCAGCTACCTGATC
1 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
*
52570527 AGTGAAAAGTGGTAGCTTCTGCTACCTGATC
1 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
* *
52570558 AGTGAAAAGTGATAG-TTCCGGCTACCTGATA
1 AGTGAAAAGTGGTAGCTT-CGGCTACCTGATC
*
52570589 AGTGAAAAATGGTAGCTTCGGCTACCTGATC
1 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
*
52570620 AGTGAATAGTGGTAGCTTCGG
1 AGTGAAAAGTGGTAGCTTCGG
52570641 TTACAAGTGA
Statistics
Matches: 103, Mismatches: 9, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
30 2 0.02
31 99 0.96
32 2 0.02
ACGTcount: A:0.28, C:0.17, G:0.28, T:0.27
Consensus pattern (31 bp):
AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
Found at i:52570723 original size:46 final size:45
Alignment explanation
Indices: 52570673--52570786 Score: 146
Period size: 42 Copynumber: 2.6 Consensus size: 45
52570663 GATTTCCGTA
* *
52570673 TAAGACCATATCTGGGATATGGCATCAGTGAAATATGTGATT-CGTG
1 TAAGACCATAGCTGGGCTATGGCATCAGTG--ATATGTGATTACGTG
* *
52570719 TAAGACCATAGCTGGGCTACGG--T-ATTGATATGTGATTACGTG
1 TAAGACCATAGCTGGGCTATGGCATCAGTGATATGTGATTACGTG
52570761 TAAGACCATAGCTGGGCTATGGCATC
1 TAAGACCATAGCTGGGCTATGGCATC
52570787 NNNNNNNNNN
Statistics
Matches: 59, Mismatches: 5, Indels: 9
0.81 0.07 0.12
Matches are distributed among these distances:
41 10 0.17
42 25 0.42
43 3 0.05
44 2 0.03
46 19 0.32
ACGTcount: A:0.28, C:0.16, G:0.27, T:0.29
Consensus pattern (45 bp):
TAAGACCATAGCTGGGCTATGGCATCAGTGATATGTGATTACGTG
Found at i:52573049 original size:33 final size:34
Alignment explanation
Indices: 52572987--52573058 Score: 92
Period size: 34 Copynumber: 2.1 Consensus size: 34
52572977 ACTCAAAAAT
* *
52572987 TAAAATATTTAAATAAAAAATAATCCAACCCAAA
1 TAAATTATTCAAATAAAAAATAATCCAACCCAAA
* * *
52573021 TAAATTATTCAAATAAAAAGTAAT-CAACCTAAT
1 TAAATTATTCAAATAAAAAATAATCCAACCCAAA
52573054 TAAAT
1 TAAAT
52573059 AATTTAATCT
Statistics
Matches: 33, Mismatches: 5, Indels: 1
0.85 0.13 0.03
Matches are distributed among these distances:
33 12 0.36
34 21 0.64
ACGTcount: A:0.58, C:0.12, G:0.01, T:0.28
Consensus pattern (34 bp):
TAAATTATTCAAATAAAAAATAATCCAACCCAAA
Found at i:52573117 original size:20 final size:21
Alignment explanation
Indices: 52573092--52573131 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 21
52573082 GAAAATTTTG
*
52573092 AATATAAAATTACAT-ATTCC
1 AATATAAAATAACATGATTCC
52573112 AATATAAAATAACATGATTC
1 AATATAAAATAACATGATTC
52573132 AACTCAACCC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 14 0.78
21 4 0.22
ACGTcount: A:0.53, C:0.12, G:0.03, T:0.33
Consensus pattern (21 bp):
AATATAAAATAACATGATTCC
Found at i:52573552 original size:24 final size:24
Alignment explanation
Indices: 52573525--52573615 Score: 71
Period size: 25 Copynumber: 3.7 Consensus size: 24
52573515 TTTAAAAGGT
52573525 TTTATATTAATTATTTTAATTATA
1 TTTATATTAATTATTTTAATTATA
* *
52573549 TTTAAAATTTA-TATTTT-ATGTAT-
1 TTT-ATATTAATTATTTTAAT-TATA
* **
52573572 TGTTATATTAAATTATTTAAACAATA
1 T-TTATATT-AATTATTTTAATTATA
52573598 TTTATATTAATTCATTTT
1 TTTATATTAATT-ATTTT
52573616 TTACTTATCA
Statistics
Matches: 51, Mismatches: 8, Indels: 15
0.69 0.11 0.20
Matches are distributed among these distances:
23 7 0.14
24 19 0.37
25 23 0.45
26 2 0.04
ACGTcount: A:0.37, C:0.02, G:0.02, T:0.58
Consensus pattern (24 bp):
TTTATATTAATTATTTTAATTATA
Found at i:52573774 original size:16 final size:16
Alignment explanation
Indices: 52573741--52573775 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
52573731 TTCTACGTAA
*
52573741 TTTTTCAAAAGCATTT
1 TTTTTCAAAAGCACTT
*
52573757 TTTTTCAAAAGTACTT
1 TTTTTCAAAAGCACTT
52573773 TTT
1 TTT
52573776 CAATTGCAAC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.29, C:0.11, G:0.06, T:0.54
Consensus pattern (16 bp):
TTTTTCAAAAGCACTT
Found at i:52578286 original size:22 final size:22
Alignment explanation
Indices: 52578261--52578309 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 22
52578251 TGTTTTCTCC
*
52578261 TTATTTTGTTACCATTTTACTA
1 TTATTTTGCTACCATTTTACTA
* * *
52578283 TTATGTTGCTACGATTTTATTA
1 TTATTTTGCTACCATTTTACTA
52578305 TTATT
1 TTATT
52578310 GTTTGGATAT
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.22, C:0.10, G:0.08, T:0.59
Consensus pattern (22 bp):
TTATTTTGCTACCATTTTACTA
Found at i:52599727 original size:25 final size:24
Alignment explanation
Indices: 52599699--52599745 Score: 58
Period size: 24 Copynumber: 1.9 Consensus size: 24
52599689 TTATTGCAAA
* *
52599699 TCAATAAACAAAAGGGGGTTTGTTT
1 TCAA-AAACAAAAAGGGGATTGTTT
*
52599724 TCAAATACAAAAAGGGGATTGT
1 TCAAAAACAAAAAGGGGATTGT
52599746 ATTACACAGA
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
24 15 0.79
25 4 0.21
ACGTcount: A:0.40, C:0.09, G:0.23, T:0.28
Consensus pattern (24 bp):
TCAAAAACAAAAAGGGGATTGTTT
Found at i:52599819 original size:15 final size:18
Alignment explanation
Indices: 52599795--52599831 Score: 53
Period size: 16 Copynumber: 2.2 Consensus size: 18
52599785 TGTTTTCATA
52599795 TTTTCTTTTC-TTAG-TT
1 TTTTCTTTTCTTTAGATT
52599811 TTTTC-TTTCTTTAGATT
1 TTTTCTTTTCTTTAGATT
52599828 TTTT
1 TTTT
52599832 TATTTTATTT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
15 4 0.21
16 9 0.47
17 6 0.32
ACGTcount: A:0.08, C:0.11, G:0.05, T:0.76
Consensus pattern (18 bp):
TTTTCTTTTCTTTAGATT
Found at i:52600028 original size:122 final size:121
Alignment explanation
Indices: 52599807--52600051 Score: 472
Period size: 121 Copynumber: 2.0 Consensus size: 121
52599797 TTCTTTTCTT
*
52599807 AGTTTTTTCTTTCTTTAGATTTTTTTATTTTATTTTCTGTGTTAAATCTTTTTTAAAAATAAAAA
1 AGTTTTTTCTTTCTTTAGATTTTTTTATTTTATTTTCTGTGTTAAATATTTTTTAAAAATAAAAA
52599872 TAAAAACGAAAGAGGGGCTGAAAACTTACCTATTCTTCGCGTCCCGCCACCATCGG
66 TAAAAACGAAAGAGGGGCTGAAAACTTACCTATTCTTCGCGTCCCGCCACCATCGG
52599928 AGTTTTTTCTTTCTTTAGATTTTTTTATTTTATTTTCTGTGTTAAATATTTTTTAAAAATAAAAA
1 AGTTTTTTCTTTCTTTAGATTTTTTTATTTTATTTTCTGTGTTAAATATTTTTTAAAAATAAAAA
52599993 TAAAAAACGAAAGAGGGGCTGAAAACTTACCTATTCTTCGCGTCCCGCCACCATCGG
66 T-AAAAACGAAAGAGGGGCTGAAAACTTACCTATTCTTCGCGTCCCGCCACCATCGG
52600050 AG
1 AG
52600052 ATTTCCCGAT
Statistics
Matches: 122, Mismatches: 1, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
121 65 0.53
122 57 0.47
ACGTcount: A:0.30, C:0.16, G:0.13, T:0.41
Consensus pattern (121 bp):
AGTTTTTTCTTTCTTTAGATTTTTTTATTTTATTTTCTGTGTTAAATATTTTTTAAAAATAAAAA
TAAAAACGAAAGAGGGGCTGAAAACTTACCTATTCTTCGCGTCCCGCCACCATCGG
Found at i:52600364 original size:99 final size:97
Alignment explanation
Indices: 52600208--52600402 Score: 363
Period size: 99 Copynumber: 2.0 Consensus size: 97
52600198 ATGAAAAGGG
*
52600208 GGAAGGAAAGAGTTTTTGGTTTTTTTTCTTGAAAAAAAAGGAACCGGCAGAATAGAAAAGTAGGA
1 GGAAAGAAAGAGTTTTTGGTTTTTTTTCTTGAAAAAAAAGGAACCGGCAGAATAGAAAAGTAGGA
52600273 AAGCTTTTTTAAAATCATTTGAAAAGGTACCT
66 AAGCTTTTTTAAAATCATTTGAAAAGGTACCT
52600305 GGAAAGAAAGAGTTTTTGGTTTTTTTTTTCTTGAAAAAAAAGGAACCGGCAGAATAGAAAAGTAG
1 GGAAAGAAAGAGTTTTTGG--TTTTTTTTCTTGAAAAAAAAGGAACCGGCAGAATAGAAAAGTAG
52600370 GAAAGCTTTTTTAAAATCATTTGAAAAGGTACC
64 GAAAGCTTTTTTAAAATCATTTGAAAAGGTACC
52600403 GTGAGTGTAG
Statistics
Matches: 95, Mismatches: 1, Indels: 2
0.97 0.01 0.02
Matches are distributed among these distances:
97 18 0.19
99 77 0.81
ACGTcount: A:0.39, C:0.08, G:0.22, T:0.30
Consensus pattern (97 bp):
GGAAAGAAAGAGTTTTTGGTTTTTTTTCTTGAAAAAAAAGGAACCGGCAGAATAGAAAAGTAGGA
AAGCTTTTTTAAAATCATTTGAAAAGGTACCT
Found at i:52600397 original size:51 final size:51
Alignment explanation
Indices: 52600243--52600403 Score: 122
Period size: 51 Copynumber: 3.2 Consensus size: 51
52600233 TTCTTGAAAA
52600243 AAAAGGAACCGGCAGAATAGAAAAGTAGGAAAGCTTTTTTAAAATCATTTG
1 AAAAGGAACCGGCAGAATAGAAAAGTAGGAAAGCTTTTTTAAAATCATTTG
* * **** * ***
52600294 AAAAGGTACCTG--GAA-AG-AAAG-AGTTTTTGGTTTTTT-TTTTC--TTG
1 AAAAGGAACCGGCAGAATAGAAAAGTAG-GAAAGCTTTTTTAAAATCATTTG
52600338 AAAAAAAAGGAACCGGCAGAATAGAAAAGTAGGAAAGCTTTTTTAAAATCATTTG
1 ----AAAAGGAACCGGCAGAATAGAAAAGTAGGAAAGCTTTTTTAAAATCATTTG
*
52600393 AAAAGGTACCG
1 AAAAGGAACCG
52600404 TGAGTGTAGT
Statistics
Matches: 76, Mismatches: 21, Indels: 26
0.62 0.17 0.21
Matches are distributed among these distances:
44 3 0.04
46 4 0.05
47 11 0.14
48 12 0.16
49 3 0.04
50 3 0.04
51 22 0.29
52 11 0.14
53 4 0.05
55 3 0.04
ACGTcount: A:0.42, C:0.09, G:0.22, T:0.27
Consensus pattern (51 bp):
AAAAGGAACCGGCAGAATAGAAAAGTAGGAAAGCTTTTTTAAAATCATTTG
Found at i:52600585 original size:95 final size:94
Alignment explanation
Indices: 52600420--52600618 Score: 364
Period size: 95 Copynumber: 2.1 Consensus size: 94
52600410 TAGTGGGGGG
52600420 TTGTAAATTCTCCCTAAAAGGGATATTTATGCGATCAGTCATTTTCATTCGCAACTCCATTCAAT
1 TTGTAAATTCTCCCTAAAAGGGATATTTATGCGATCAGTCATTTTCATTCGCAACTCCATTCAAT
52600485 CGGCCCCCATTTCCAATTTTCTTTTGTTT
66 CGGCCCCCATTTCCAATTTTCTTTTGTTT
*
52600514 TTNGTAAATTCTCCCTAAAAGGGATATTTATGCGATCAGTCGTTTTCATTCGCAACTCCATTCAA
1 TT-GTAAATTCTCCCTAAAAGGGATATTTATGCGATCAGTCATTTTCATTCGCAACTCCATTCAA
52600579 TCGGCCCCCATTTCCAATTTTCTTTTGTTT
65 TCGGCCCCCATTTCCAATTTTCTTTTGTTT
*
52600609 TT-TTAATTCT
1 TTGTAAATTCT
52600619 AACCCTCAGA
Statistics
Matches: 102, Mismatches: 2, Indels: 3
0.95 0.02 0.03
Matches are distributed among these distances:
93 7 0.07
94 2 0.02
95 93 0.91
ACGTcount: A:0.23, C:0.24, G:0.12, T:0.42
Consensus pattern (94 bp):
TTGTAAATTCTCCCTAAAAGGGATATTTATGCGATCAGTCATTTTCATTCGCAACTCCATTCAAT
CGGCCCCCATTTCCAATTTTCTTTTGTTT
Found at i:52609780 original size:249 final size:248
Alignment explanation
Indices: 52609342--52609838 Score: 913
Period size: 249 Copynumber: 2.0 Consensus size: 248
52609332 CTCCCACGAG
*
52609342 AAGAAAACCAATTGGCCGATGCCCTGGCCACTTTGGCTTCAATGTTCAAAGTAAACAGAGAAACA
1 AAGAAAACCAATTGGCCGATGCCCTGGCCACTTTGGCTTCAATGTTCAAAGCAAACAGAGAAACA
* *
52609407 GAAATAATGCCTCTTCAAATGAGCATATATGAAGTTTCTGCACATTGTTTCATCATTGAAAAAGA
66 GAAATAATGCCTCTTCAAATGAGCATATATGAAGTTCCTGCACATTGTTTCAGCATTGAAAAAGA
*
52609472 GCCAGATGGACGGCCATGGTTCTATGATGTCTTAGAATATATCAAGAATCAAAAGTATCCCGAAC
131 GCCAGATGGACGGCCATGGTTCCATGATGTCTTAGAATATATCAAGAATCAAAAGTATCCCGAAC
52609537 AAGCAAACGAGAACGACAAAAGAACAATCAGAAGAATGGCAGCAGGATTCGTT
196 AAGCAAACGAGAACGACAAAAGAACAATCAGAAGAATGGCAGCAGGATTCGTT
* * *
52609590 NAAGAAAACCAATTGGCTGATGCCCTGGCTACTTTGGCTTCAATGTTCAAAGCAAACAGAGAAAT
1 -AAGAAAACCAATTGGCCGATGCCCTGGCCACTTTGGCTTCAATGTTCAAAGCAAACAGAGAAAC
52609655 AGAAATAATGCCTCTTCAAATGAGCATATATGAAGTTCCTGCACATTGTTTCAGCATTGAAAAAG
65 AGAAATAATGCCTCTTCAAATGAGCATATATGAAGTTCCTGCACATTGTTTCAGCATTGAAAAAG
52609720 AGCCAGATGGACGGCCATGGTTCCATGATGTCTTAGAATATATCAAGAATCAAAAGTATCCCGAA
130 AGCCAGATGGACGGCCATGGTTCCATGATGTCTTAGAATATATCAAGAATCAAAAGTATCCCGAA
*
52609785 CAAGCAAACGAGAACGACAAAAGAACAATCAGAAGAATGGCAGCGGGATTCGTT
195 CAAGCAAACGAGAACGACAAAAGAACAATCAGAAGAATGGCAGCAGGATTCGTT
52609839 CTTGATGGGG
Statistics
Matches: 240, Mismatches: 8, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
249 240 1.00
ACGTcount: A:0.38, C:0.19, G:0.21, T:0.22
Consensus pattern (248 bp):
AAGAAAACCAATTGGCCGATGCCCTGGCCACTTTGGCTTCAATGTTCAAAGCAAACAGAGAAACA
GAAATAATGCCTCTTCAAATGAGCATATATGAAGTTCCTGCACATTGTTTCAGCATTGAAAAAGA
GCCAGATGGACGGCCATGGTTCCATGATGTCTTAGAATATATCAAGAATCAAAAGTATCCCGAAC
AAGCAAACGAGAACGACAAAAGAACAATCAGAAGAATGGCAGCAGGATTCGTT
Found at i:52610569 original size:118 final size:117
Alignment explanation
Indices: 52610357--52610595 Score: 453
Period size: 118 Copynumber: 2.0 Consensus size: 117
52610347 CAAGAAGATG
52610357 ATGA-AAGAAGTGTGTGAGCAATTCCAAATAAAGCATCATAACTCCTCGCCCTATCGCCCAAAGA
1 ATGACAAGAAGTGTGTGAGCAATTCCAAATAAAGCATCATAACTCCTCGCCCTATCGCCCAAAGA
*
52610421 TGAACAGAGCTGTTGAAGCGGCCAACAAGAATATTAAGAAGATTATTGGGAAA
66 TGAACAGAGCTGCTGAAGCGGCCAACAAGAATATTAAGAAGATTATT-GGAAA
52610474 ATGACAAGAAGTGTGTGAGCAATTCCAAATAAAGCATCATAACTCCTCGCCCTATCGCCCAAAGA
1 ATGACAAGAAGTGTGTGAGCAATTCCAAATAAAGCATCATAACTCCTCGCCCTATCGCCCAAAGA
52610539 TGAACAGAGCTGCTGAAGCGGCCAACAAGAATATTAAGAAGATTATTGGAAA
66 TGAACAGAGCTGCTGAAGCGGCCAACAAGAATATTAAGAAGATTATTGGAAA
52610591 ATGAC
1 ATGAC
52610596 CGAGTCATAT
Statistics
Matches: 120, Mismatches: 1, Indels: 2
0.98 0.01 0.02
Matches are distributed among these distances:
117 14 0.12
118 106 0.88
ACGTcount: A:0.39, C:0.20, G:0.21, T:0.20
Consensus pattern (117 bp):
ATGACAAGAAGTGTGTGAGCAATTCCAAATAAAGCATCATAACTCCTCGCCCTATCGCCCAAAGA
TGAACAGAGCTGCTGAAGCGGCCAACAAGAATATTAAGAAGATTATTGGAAA
Found at i:52611120 original size:11 final size:11
Alignment explanation
Indices: 52611104--52611139 Score: 65
Period size: 11 Copynumber: 3.4 Consensus size: 11
52611094 TTATGCCTAA
52611104 AAAAAAGAAAC
1 AAAAAAGAAAC
52611115 AAAAAAGAAAC
1 AAAAAAGAAAC
52611126 AAAAAAGAAA-
1 AAAAAAGAAAC
52611136 AAAA
1 AAAA
52611140 GGGTGATCAA
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
10 4 0.16
11 21 0.84
ACGTcount: A:0.86, C:0.06, G:0.08, T:0.00
Consensus pattern (11 bp):
AAAAAAGAAAC
Found at i:52612272 original size:75 final size:75
Alignment explanation
Indices: 52612002--52612574 Score: 731
Period size: 74 Copynumber: 7.7 Consensus size: 75
52611992 TATTTCTGTT
* ** ** **
52612002 TCAAAAAAATCAACTTATATTGCGAGAGGTGAGTTGAGCCTCAAGATACATTGAGGTATTTTCAA
1 TCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGGCACGCTGAGGTATTTTCAA
**
52612067 --ATTCAACTT-
66 TTATT--GTTTG
* *
52612076 TCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGGCACACTGAGGTATTTTAAA
1 TCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGGCACGCTGAGGTATTTTCAA
*
52612141 TTACTGTTTG
66 TTATTGTTTG
52612151 TC-AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGGCACGCTGAGGTATTTTCAA
1 TCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGGCACGCTGAGGTATTTTCAA
52612215 TTATTGTTTG
66 TTATTGTTTG
* * * *
52612225 TTAAAAAGATCAACTCATATTGCGGGAGGTGAGTTGAGCCTCGGGGCACGCTGAAGTATTTTCAA
1 TCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGGCACGCTGAGGTATTTTCAA
52612290 TTATTGTTTG
66 TTATTGTTTG
* * * *
52612300 TCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGTTGAGATATTTTCAA
1 TCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGGCACGCTGAGGTATTTTCAA
*
52612365 TT-TCTGTTTT
66 TTAT-TGTTTG
* ** *
52612375 TC---AAATTCAACTCATATTGCGAGAGGTGAGTTGAGCCTTAGGGCACGCCGAGGTATTTTCAA
1 TCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGGCACGCTGAGGTATTTTCAA
*
52612437 --ATTCTACTT-
66 TTATTGT--TTG
* **
52612446 TCAAAAAAATCAACTTATATTGCGAGAGGTGAGTTGAGCCTCGGGGCACGCCAAGGTATTTTCAA
1 TCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGGCACGCTGAGGTATTTTCAA
*
52612511 TTACTGTTTG
66 TTATTGTTTG
*
52612521 TC--AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGGCAAGCTGAGG
1 TCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGGCACGCTGAGG
52612575 AAAAAAATCA
Statistics
Matches: 441, Mismatches: 44, Indels: 29
0.86 0.09 0.06
Matches are distributed among these distances:
70 2 0.00
71 3 0.01
72 56 0.13
73 48 0.11
74 188 0.43
75 139 0.32
76 5 0.01
ACGTcount: A:0.30, C:0.17, G:0.24, T:0.30
Consensus pattern (75 bp):
TCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGGCACGCTGAGGTATTTTCAA
TTATTGTTTG
Found at i:52612586 original size:127 final size:128
Alignment explanation
Indices: 52612448--52612689 Score: 405
Period size: 127 Copynumber: 1.9 Consensus size: 128
52612438 TTCTACTTTC
* *
52612448 AAAAAAATCAACTTATATTGCGAGAGGTGAGTTGAGCCTCGGGGCACGCCAAGGTATTTTCAATT
1 AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACGCCAAGGTATTTTCAATT
*
52612513 ACTGTTTGTC-AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGGCAAGCTGAGG
66 ACTGTTTGTCAAAAAATCAACTAATATTGCGAGAGGTGAGTTGAGCCTCGGGGCAAGCTGAGG
* **
52612575 AAAAAAATCAACTCATATTGCGGGAGGTGAGTTGAGCCTCAGGGCACGCTGAGGTATTTTCAATT
1 AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACGCCAAGGTATTTTCAATT
*
52612640 ATTGTTTGTCAAAAAAATCAACTAATATTGCGAGAGGTGAGTTGAGCCTC
66 ACTGTTTGTC-AAAAAATCAACTAATATTGCGAGAGGTGAGTTGAGCCTC
52612690 AGGACACGCT
Statistics
Matches: 106, Mismatches: 7, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
127 69 0.65
129 37 0.35
ACGTcount: A:0.31, C:0.17, G:0.26, T:0.26
Consensus pattern (128 bp):
AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACGCCAAGGTATTTTCAATT
ACTGTTTGTCAAAAAATCAACTAATATTGCGAGAGGTGAGTTGAGCCTCGGGGCAAGCTGAGG
Found at i:52612603 original size:54 final size:54
Alignment explanation
Indices: 52612523--52612628 Score: 185
Period size: 54 Copynumber: 2.0 Consensus size: 54
52612513 ACTGTTTGTC
*
52612523 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGGCAAGCTGAGGAA
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCAAGCTGAGGAA
* *
52612577 AAAAATCAACTCATATTGCGGGAGGTGAGTTGAGCCTCAGGGCACGCTGAGG
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCAAGCTGAGG
52612629 TATTTTCAAT
Statistics
Matches: 49, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
54 49 1.00
ACGTcount: A:0.31, C:0.18, G:0.32, T:0.19
Consensus pattern (54 bp):
AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCAAGCTGAGGAA
Found at i:52612698 original size:75 final size:74
Alignment explanation
Indices: 52612575--52612958 Score: 364
Period size: 75 Copynumber: 5.0 Consensus size: 74
52612565 CAAGCTGAGG
* *
52612575 AAAAAAATCAACTCATATTGCGGGAGGTGAGTTGAGCCTCAGGGCACGCTGAGGTATTTTCAATT
1 AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATT
*
52612640 ATTGTTTGTC
66 -TTGTTTTTC
* *
52612650 AAAAAAATCAACTAATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGATATTTTCAATT
1 AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATT
52612715 TCTGTTTTTC
66 T-TGTTTTTC
* * * * *
52612725 --AAAATTCAACTCATATTGCGACAGGTGAGTTGAGCCTCGGGGCACGCTGAGGTATTGTCAATT
1 AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAA-T
*
52612788 TTTGTGTTTTA
65 TTTGT-TTTTC
* * * **
52612799 ATTTATTTTTCAAAAATCAACTCATATCGCGAGAGGTGAGTTGAGCCTCAAGTCACATTGAGGTA
1 A---A------AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTA
* * **
52612864 TTTTTAA-TTT-ATCATC
57 TTTTCAATTTTGTTTTTC
* * *
52612880 AAAAAAATCAACTCATATTGCGAGGGGTGAGTTGAGCCT-TGGCTCACAAGCTGAGGTATTTTCA
1 AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG---ACACGCTGAGGTATTTTCA
*
52612944 ATTTCTGCTTTTC
63 ATTT-TGTTTTTC
52612957 AA
1 AA
52612959 TTTCTGCTTT
Statistics
Matches: 250, Mismatches: 39, Indels: 38
0.76 0.12 0.12
Matches are distributed among these distances:
71 1 0.00
72 35 0.14
73 57 0.23
74 23 0.09
75 70 0.28
76 1 0.00
77 5 0.02
78 1 0.00
81 3 0.01
83 3 0.01
85 51 0.20
ACGTcount: A:0.29, C:0.16, G:0.22, T:0.33
Consensus pattern (74 bp):
AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATT
TTGTTTTTC
Found at i:52612736 original size:202 final size:200
Alignment explanation
Indices: 52612381--52612776 Score: 614
Period size: 202 Copynumber: 2.0 Consensus size: 200
52612371 TTTTTCAAAT
*
52612381 TCAACTCATATTGCGAGAGGTGAGTTGAGCCTTAGGGCACGCCGAGGTATTTTCAAATTCTACTT
1 TCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACGCCGAGGTATTTTCAAATTCTA-TT
* * * *
52612446 TCAAAAAAATCAACTTATATTGCGAGAGGTGAGTTGAGCCTCGGGGCACGCCAAGGTATTTTCAA
65 TCAAAAAAATCAACTAATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCCAAGATATTTTCAA
*
52612511 TTACTGTTTGTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGGCAAGCTGAGGA
130 TTACTGTTTGTCAAAAATCAACTCATATTGCGACAGGTGAGTTGAGCCTCGGGGCAAGCTGAGGA
52612576 AAAAAA
195 AAAAAA
* * *
52612582 TCAACTCATATTGCGGGAGGTGAGTTGAGCCTCAGGGCACGCTGAGGTATTTTCAATTATTGT-T
1 TCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACGCCGAGGTATTTTCAA--ATTCTAT
**
52612646 TGTCAAAAAAATCAACTAATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGATATTTTC
64 T-TCAAAAAAATCAACTAATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCCAAGATATTTTC
* * * *
52612711 AATTTCTGTTTTTCAAAATTCAACTCATATTGCGACAGGTGAGTTGAGCCTCGGGGCACGCTGAG
128 AATTACTGTTTGTCAAAAATCAACTCATATTGCGACAGGTGAGTTGAGCCTCGGGGCAAGCTGAG
52612776 G
193 G
52612777 TATTGTCAAT
Statistics
Matches: 177, Mismatches: 15, Indels: 5
0.90 0.08 0.03
Matches are distributed among these distances:
201 55 0.31
202 118 0.67
203 4 0.02
ACGTcount: A:0.29, C:0.18, G:0.26, T:0.28
Consensus pattern (200 bp):
TCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACGCCGAGGTATTTTCAAATTCTATTT
CAAAAAAATCAACTAATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCCAAGATATTTTCAAT
TACTGTTTGTCAAAAATCAACTCATATTGCGACAGGTGAGTTGAGCCTCGGGGCAAGCTGAGGAA
AAAAA
Found at i:52612927 original size:72 final size:74
Alignment explanation
Indices: 52612810--52612947 Score: 192
Period size: 72 Copynumber: 1.9 Consensus size: 74
52612800 TTTATTTTTC
* *
52612810 AAAAATCAACTCATATCGCGAGAGGTGAGTTGAGCCTCAAGTCAC-A-TTGAGGTATTTTTAATT
1 AAAAATCAACTCATATCGCGAGAGGTGAGTTGAGCCTCAAGTCACAAGCTGAGGTATTTTCAATT
52612873 TATCATCAA
66 TATCATCAA
* * **
52612882 AAAAATCAACTCATATTGCGAGGGGTGAGTTGAGCCT-TGGCTCACAAGCTGAGGTATTTTCAAT
1 AAAAATCAACTCATATCGCGAGAGGTGAGTTGAGCCTCAAG-TCACAAGCTGAGGTATTTTCAAT
52612946 TT
65 TT
52612948 CTGCTTTTCA
Statistics
Matches: 57, Mismatches: 6, Indels: 4
0.85 0.09 0.06
Matches are distributed among these distances:
71 1 0.02
72 39 0.68
73 1 0.02
74 16 0.28
ACGTcount: A:0.32, C:0.17, G:0.21, T:0.30
Consensus pattern (74 bp):
AAAAATCAACTCATATCGCGAGAGGTGAGTTGAGCCTCAAGTCACAAGCTGAGGTATTTTCAATT
TATCATCAA
Found at i:52612957 original size:14 final size:14
Alignment explanation
Indices: 52612938--52612972 Score: 70
Period size: 14 Copynumber: 2.5 Consensus size: 14
52612928 AGCTGAGGTA
52612938 TTTTCAATTTCTGC
1 TTTTCAATTTCTGC
52612952 TTTTCAATTTCTGC
1 TTTTCAATTTCTGC
52612966 TTTTCAA
1 TTTTCAA
52612973 AAAAATCAAC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.17, C:0.20, G:0.06, T:0.57
Consensus pattern (14 bp):
TTTTCAATTTCTGC
Found at i:52613006 original size:163 final size:159
Alignment explanation
Indices: 52612631--52613035 Score: 476
Period size: 158 Copynumber: 2.5 Consensus size: 159
52612621 CGCTGAGGTA
* *
52612631 TTTTCAATTATTGTTTGTCAAAAAAATCAACTAATATTGCGAGAGGTGAGTTGAGCCTCAGGACA
1 TTTTCAATT-TTGTTT-TCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACA
* * ** *** *
52612696 CGCTGAGATATTTTCAATTTCTGTTTTTCAAAATTCAACTCATATTGCGACAGGTGAGTTGAGCC
64 CGCTGAGGTATTTTCAATTTATGCATCAAAAAAATCAACTCATATTGCGACAGGTGAGTTGAGCC
* *
52612761 TCGGGGCACGCTGAGGTATTGTCAATTTTTG
129 TCGGCGCACGCTGAGGTATTGTCAATTTCTG
* * *
52612792 TGTTTTAATTTAT-TTTTC--AAAAATCAACTCATATCGCGAGAGGTGAGTTGAGCCTCAAGTCA
1 T-TTTCAATTT-TGTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACA
** * **
52612854 CATTGAGGTATTTTTAATTTAT-CATCAAAAAAATCAACTCATATTGCGAGGGGTGAGTTGAGCC
64 CGCTGAGGTATTTTCAATTTATGCATCAAAAAAATCAACTCATATTGCGACAGGTGAGTTGAGCC
* * *
52612918 TTGGCTCACAAGCTGAGGTATTTTCAATTTCTG
129 TCGGCGCAC--GCTGAGGTATTGTCAATTTCTG
* *
52612951 CTTTTCAATTTCTGCTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGAGGC
1 -TTTTCAATTT-TG-TTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGAC
52613016 ACGCTGAGGTATTTTCAATT
63 ACGCTGAGGTATTTTCAATT
52613036 AATGTTTTTT
Statistics
Matches: 204, Mismatches: 31, Indels: 16
0.81 0.12 0.06
Matches are distributed among these distances:
157 40 0.20
158 57 0.28
159 29 0.14
160 3 0.01
161 10 0.05
162 8 0.04
163 57 0.28
ACGTcount: A:0.28, C:0.17, G:0.20, T:0.35
Consensus pattern (159 bp):
TTTTCAATTTTGTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACG
CTGAGGTATTTTCAATTTATGCATCAAAAAAATCAACTCATATTGCGACAGGTGAGTTGAGCCTC
GGCGCACGCTGAGGTATTGTCAATTTCTG
Found at i:52613085 original size:88 final size:89
Alignment explanation
Indices: 52612881--52613123 Score: 316
Period size: 88 Copynumber: 2.7 Consensus size: 89
52612871 TTTATCATCA
* * *
52612881 AAAAAATCAACTCATATTGCGAGGGGTGAGTTGAGCCTTGGCTCACAAGCTGAGGTATTTTCAAT
1 AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGCGCAC-AGCTGAGGTATTTTCAAT
** *
52612946 TTCTGCTTTTCAATTTCTGCTTTTC
65 TAATGCTTTTCAATTTATGCTTTTC
52612971 AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGAG-GCAC-GCTGAGGTATTTTCAA
1 -AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCG-GCGCACAGCTGAGGTATTTTCAA
*
52613034 TTAATGTTTTTTCAATTTATGCTTTTC
64 TTAATG-CTTTTCAATTTATGCTTTTC
*
52613061 -AAAAATCAACTCATATTACGAGAGGTGAGTTGAGCCTCGG-GTCACATG-TCGAGGTATTTTCA
1 AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGCG-CACA-GCT-GAGGTATTTTCA
52613123 A
63 A
52613124 AATCTACTTT
Statistics
Matches: 138, Mismatches: 8, Indels: 13
0.87 0.05 0.08
Matches are distributed among these distances:
87 2 0.01
88 41 0.30
89 21 0.15
90 32 0.23
91 41 0.30
92 1 0.01
ACGTcount: A:0.28, C:0.17, G:0.21, T:0.34
Consensus pattern (89 bp):
AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGCGCACAGCTGAGGTATTTTCAATT
AATGCTTTTCAATTTATGCTTTTC
Found at i:52613516 original size:15 final size:18
Alignment explanation
Indices: 52613492--52613528 Score: 53
Period size: 16 Copynumber: 2.2 Consensus size: 18
52613482 TGTTTTCATA
52613492 TTTTCTTTTC-TTAG-TT
1 TTTTCTTTTCTTTAGATT
52613508 TTTTC-TTTCTTTAGATT
1 TTTTCTTTTCTTTAGATT
52613525 TTTT
1 TTTT
52613529 TATTTTATTT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
15 4 0.21
16 9 0.47
17 6 0.32
ACGTcount: A:0.08, C:0.11, G:0.05, T:0.76
Consensus pattern (18 bp):
TTTTCTTTTCTTTAGATT
Found at i:52616680 original size:40 final size:42
Alignment explanation
Indices: 52616635--52616713 Score: 135
Period size: 40 Copynumber: 1.9 Consensus size: 42
52616625 TAAATTTAAG
52616635 TACAATCTCAAAATTAA-TTTTTTT-TATAATCTGAAATAAT
1 TACAATCTCAAAATTAATTTTTTTTCTATAATCTGAAATAAT
*
52616675 TACAATCTCAAAATTAATTTTTTTTCTATAGTCTGAAAT
1 TACAATCTCAAAATTAATTTTTTTTCTATAATCTGAAAT
52616714 GACAAATCCT
Statistics
Matches: 36, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
40 17 0.47
41 7 0.19
42 12 0.33
ACGTcount: A:0.39, C:0.11, G:0.04, T:0.46
Consensus pattern (42 bp):
TACAATCTCAAAATTAATTTTTTTTCTATAATCTGAAATAAT
Found at i:52617716 original size:21 final size:22
Alignment explanation
Indices: 52617668--52617718 Score: 56
Period size: 21 Copynumber: 2.5 Consensus size: 22
52617658 TCATTTTTAA
52617668 TATTTAATATTTTAATGTGTTT
1 TATTTAATATTTTAATGTGTTT
*
52617690 GA--TAATCATTTTAAT-T-TTT
1 TATTTAAT-ATTTTAATGTGTTT
52617709 TATTTAATAT
1 TATTTAATAT
52617719 AATTTTTTCA
Statistics
Matches: 24, Mismatches: 2, Indels: 8
0.71 0.06 0.24
Matches are distributed among these distances:
19 4 0.17
20 7 0.29
21 12 0.50
22 1 0.04
ACGTcount: A:0.31, C:0.02, G:0.06, T:0.61
Consensus pattern (22 bp):
TATTTAATATTTTAATGTGTTT
Found at i:52619391 original size:27 final size:27
Alignment explanation
Indices: 52619361--52619415 Score: 110
Period size: 27 Copynumber: 2.0 Consensus size: 27
52619351 AAGAGAAGCC
52619361 CCAAAATGGAGTTGAAAAAGATGAGAA
1 CCAAAATGGAGTTGAAAAAGATGAGAA
52619388 CCAAAATGGAGTTGAAAAAGATGAGAA
1 CCAAAATGGAGTTGAAAAAGATGAGAA
52619415 C
1 C
52619416 ATGTAGGAGA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.51, C:0.09, G:0.25, T:0.15
Consensus pattern (27 bp):
CCAAAATGGAGTTGAAAAAGATGAGAA
Found at i:52621852 original size:53 final size:54
Alignment explanation
Indices: 52621795--52621905 Score: 172
Period size: 55 Copynumber: 2.1 Consensus size: 54
52621785 GGAATTCCAA
52621795 CCAAAATTTG-TTTT-ATTTATCAGATGAAGACACTTCGGTCTATTCTCAATTCT
1 CCAAAATTTGTTTTTCATTTATCAGATG-AGACACTTCGGTCTATTCTCAATTCT
* *
52621848 CCAAAATTTGTTTTTTCTTTTATCAGATGAGACACTTTGGTCTATTCTCAATTCT
1 CCAAAATTTG-TTTTTCATTTATCAGATGAGACACTTCGGTCTATTCTCAATTCT
52621903 CCA
1 CCA
52621906 TATATACAAC
Statistics
Matches: 53, Mismatches: 2, Indels: 4
0.90 0.03 0.07
Matches are distributed among these distances:
53 10 0.19
55 32 0.60
56 11 0.21
ACGTcount: A:0.26, C:0.20, G:0.11, T:0.43
Consensus pattern (54 bp):
CCAAAATTTGTTTTTCATTTATCAGATGAGACACTTCGGTCTATTCTCAATTCT
Found at i:52635021 original size:12 final size:13
Alignment explanation
Indices: 52634997--52635029 Score: 50
Period size: 13 Copynumber: 2.5 Consensus size: 13
52634987 TTATGCAATG
52634997 AATTTTCTCTTTTT
1 AATTTT-TCTTTTT
52635011 -ATTTTTCTTTTT
1 AATTTTTCTTTTT
52635023 AATTTTT
1 AATTTTT
52635030 AATCAAATTT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
12 7 0.39
13 11 0.61
ACGTcount: A:0.15, C:0.09, G:0.00, T:0.76
Consensus pattern (13 bp):
AATTTTTCTTTTT
Found at i:52636757 original size:18 final size:18
Alignment explanation
Indices: 52636734--52636768 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
52636724 GCCCCCTCAC
52636734 AAAAAAAAACCTAACCCA
1 AAAAAAAAACCTAACCCA
52636752 AAAAAAAAACCTAACCC
1 AAAAAAAAACCTAACCC
52636769 CCCCCCAAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.66, C:0.29, G:0.00, T:0.06
Consensus pattern (18 bp):
AAAAAAAAACCTAACCCA
Found at i:52636767 original size:23 final size:23
Alignment explanation
Indices: 52636741--52636785 Score: 54
Period size: 23 Copynumber: 2.0 Consensus size: 23
52636731 CACAAAAAAA
*
52636741 AACCTAACCCAAAAAAAAAACCT
1 AACCCAACCCAAAAAAAAAACCT
** *
52636764 AACCCCCCCCCAAAAAAAAACC
1 AACCCAACCCAAAAAAAAAACC
52636786 AAGAAACCCT
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.56, C:0.40, G:0.00, T:0.04
Consensus pattern (23 bp):
AACCCAACCCAAAAAAAAAACCT
Found at i:52639188 original size:42 final size:42
Alignment explanation
Indices: 52639140--52639248 Score: 121
Period size: 42 Copynumber: 2.6 Consensus size: 42
52639130 CCGAATCAAT
* *
52639140 TATACTAGCTCATAAGTCCATCATTAGATGAACCGAAGGAAA
1 TATACTAGCTCATAAGTGCATCATTAGATGAACCGAAGAAAA
* * **
52639182 TGTACTAGCAT-ATAAATGCATCATCGGATGAACCGAAGAAAA
1 TATACTAGC-TCATAAGTGCATCATTAGATGAACCGAAGAAAA
* * *
52639224 TATATTGGCACATAAGTGCATCATT
1 TATACTAGCTCATAAGTGCATCATT
52639249 GGCTAAATCG
Statistics
Matches: 53, Mismatches: 12, Indels: 4
0.77 0.17 0.06
Matches are distributed among these distances:
42 52 0.98
43 1 0.02
ACGTcount: A:0.39, C:0.17, G:0.17, T:0.26
Consensus pattern (42 bp):
TATACTAGCTCATAAGTGCATCATTAGATGAACCGAAGAAAA
Found at i:52641323 original size:15 final size:15
Alignment explanation
Indices: 52641303--52641334 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
52641293 GAGTTATAAC
52641303 TAGCAAAAGAAAAGG
1 TAGCAAAAGAAAAGG
52641318 TAGCAAAAGAAAAGG
1 TAGCAAAAGAAAAGG
52641333 TA
1 TA
52641335 TAAGATTAGC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.59, C:0.06, G:0.25, T:0.09
Consensus pattern (15 bp):
TAGCAAAAGAAAAGG
Found at i:52642232 original size:34 final size:34
Alignment explanation
Indices: 52642194--52642262 Score: 111
Period size: 34 Copynumber: 2.0 Consensus size: 34
52642184 GCTTGACAAC
* * *
52642194 TATGTACATTTGTGATTATGAATTGTTACATGAA
1 TATGTACATTTCTGAGTATGAATTATTACATGAA
52642228 TATGTACATTTCTGAGTATGAATTATTACATGAA
1 TATGTACATTTCTGAGTATGAATTATTACATGAA
52642262 T
1 T
52642263 CTCATGACTA
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
34 32 1.00
ACGTcount: A:0.33, C:0.07, G:0.16, T:0.43
Consensus pattern (34 bp):
TATGTACATTTCTGAGTATGAATTATTACATGAA
Found at i:52655667 original size:33 final size:32
Alignment explanation
Indices: 52655625--52655690 Score: 123
Period size: 33 Copynumber: 2.0 Consensus size: 32
52655615 CACCTACACA
52655625 ACTCATATGGCACACAATATAGTATCATTAGGC
1 ACTCATATGGCACACAATATAG-ATCATTAGGC
52655658 ACTCATATGGCACACAATATAGATCATTAGGC
1 ACTCATATGGCACACAATATAGATCATTAGGC
52655690 A
1 A
52655691 TATATTTCAA
Statistics
Matches: 33, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
32 11 0.33
33 22 0.67
ACGTcount: A:0.38, C:0.21, G:0.15, T:0.26
Consensus pattern (32 bp):
ACTCATATGGCACACAATATAGATCATTAGGC
Found at i:52658219 original size:33 final size:32
Alignment explanation
Indices: 52658177--52658242 Score: 123
Period size: 33 Copynumber: 2.0 Consensus size: 32
52658167 CACCTACACA
52658177 ACTCATATGGCACACAATATAGTATCATTAGGC
1 ACTCATATGGCACACAATATAG-ATCATTAGGC
52658210 ACTCATATGGCACACAATATAGATCATTAGGC
1 ACTCATATGGCACACAATATAGATCATTAGGC
52658242 A
1 A
52658243 TATATTTCAA
Statistics
Matches: 33, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
32 11 0.33
33 22 0.67
ACGTcount: A:0.38, C:0.21, G:0.15, T:0.26
Consensus pattern (32 bp):
ACTCATATGGCACACAATATAGATCATTAGGC
Found at i:52658877 original size:26 final size:26
Alignment explanation
Indices: 52658848--52658955 Score: 180
Period size: 26 Copynumber: 4.2 Consensus size: 26
52658838 TGGTACAAAT
52658848 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* * *
52658874 TGATAATGGATTAAGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
52658900 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
52658926 TGATAATGGTTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
52658952 TGAT
1 TGAT
52658956 GGGCATTTCA
Statistics
Matches: 75, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
26 75 1.00
ACGTcount: A:0.33, C:0.07, G:0.23, T:0.36
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:52660471 original size:26 final size:26
Alignment explanation
Indices: 52660442--52660494 Score: 72
Period size: 26 Copynumber: 2.0 Consensus size: 26
52660432 TTTACAGTTT
52660442 TACCCCTAGGAGATAAATT-ACCGAAA
1 TACCCCTAGG-GATAAATTGACCGAAA
* *
52660468 TACCCCTAGGGTTAAATTGACCTAAA
1 TACCCCTAGGGATAAATTGACCGAAA
52660494 T
1 T
52660495 GCATGTTTGA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 7 0.29
26 17 0.71
ACGTcount: A:0.38, C:0.23, G:0.15, T:0.25
Consensus pattern (26 bp):
TACCCCTAGGGATAAATTGACCGAAA
Found at i:52662262 original size:48 final size:48
Alignment explanation
Indices: 52662198--52662309 Score: 118
Period size: 48 Copynumber: 2.3 Consensus size: 48
52662188 GTACCTATAC
* * * * *
52662198 CATGGCTCAAAGCCAAATTAAG-GTAACTTATATCCGAAGTACTAATAT
1 CATGGCCCGAAGCCAAA-TAAGTATAACTTACACCCGAAGTACTAATAT
* * * *
52662246 CGTGGCCCGAAGCCAAATCAGTATAACTTGCACCCGAAGTGCTAATAT
1 CATGGCCCGAAGCCAAATAAGTATAACTTACACCCGAAGTACTAATAT
*
52662294 CATGGCCCGAATCCAA
1 CATGGCCCGAAGCCAA
52662310 CTCAATGTAT
Statistics
Matches: 52, Mismatches: 11, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
47 3 0.06
48 49 0.94
ACGTcount: A:0.35, C:0.25, G:0.18, T:0.22
Consensus pattern (48 bp):
CATGGCCCGAAGCCAAATAAGTATAACTTACACCCGAAGTACTAATAT
Found at i:52662922 original size:20 final size:21
Alignment explanation
Indices: 52662881--52662923 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 21
52662871 AAACTTGTTT
*
52662881 ATCTATCAACAAGCATTCAAA
1 ATCTATCAACAAACATTCAAA
*
52662902 ATCTATCATCAAACA-TCAAA
1 ATCTATCAACAAACATTCAAA
52662922 AT
1 AT
52662924 ACACATTTAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
20 7 0.35
21 13 0.65
ACGTcount: A:0.49, C:0.23, G:0.02, T:0.26
Consensus pattern (21 bp):
ATCTATCAACAAACATTCAAA
Found at i:52664270 original size:41 final size:41
Alignment explanation
Indices: 52664203--52664285 Score: 112
Period size: 41 Copynumber: 2.0 Consensus size: 41
52664193 CTACTACGCT
* *
52664203 CAAAGCCTGATATAACACACCAGCACAAAGCTTGCTAAGCA
1 CAAAGCCTGATATAACAAACCAGCACAAAGCCTGCTAAGCA
* * * *
52664244 CAAAGCTTGATATAATAAACCGGCACAAAGCCTGCTAGGCA
1 CAAAGCCTGATATAACAAACCAGCACAAAGCCTGCTAAGCA
52664285 C
1 C
52664286 GGAGCCCGAA
Statistics
Matches: 36, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
41 36 1.00
ACGTcount: A:0.40, C:0.28, G:0.17, T:0.16
Consensus pattern (41 bp):
CAAAGCCTGATATAACAAACCAGCACAAAGCCTGCTAAGCA
Found at i:52665094 original size:10 final size:10
Alignment explanation
Indices: 52665079--52665103 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
52665069 TTTTCCGTTC
52665079 TTTAATTTTG
1 TTTAATTTTG
52665089 TTTAATTTTG
1 TTTAATTTTG
52665099 TTTAA
1 TTTAA
52665104 ACTTTCATTA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.24, C:0.00, G:0.08, T:0.68
Consensus pattern (10 bp):
TTTAATTTTG
Found at i:52667684 original size:19 final size:19
Alignment explanation
Indices: 52667648--52667685 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
52667638 ATTCATGGGT
*
52667648 TAAAATATTTATTTAAATA
1 TAAAATATTTATTAAAATA
52667667 TAAAA-ATTTATCTAAAATA
1 TAAAATATTTAT-TAAAATA
52667686 CGAGAAAATT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
18 6 0.35
19 11 0.65
ACGTcount: A:0.55, C:0.03, G:0.00, T:0.42
Consensus pattern (19 bp):
TAAAATATTTATTAAAATA
Found at i:52668289 original size:24 final size:25
Alignment explanation
Indices: 52668262--52668310 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 25
52668252 CTTTTTTTAT
*
52668262 TAAATAAAAAAT-TTTAAAATATAA
1 TAAATAAAAAATATTTAAAACATAA
* *
52668286 TAAATCAAATATATTTAAAACATAA
1 TAAATAAAAAATATTTAAAACATAA
52668311 AAACAAATAT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
24 10 0.48
25 11 0.52
ACGTcount: A:0.63, C:0.04, G:0.00, T:0.33
Consensus pattern (25 bp):
TAAATAAAAAATATTTAAAACATAA
Found at i:52668303 original size:25 final size:23
Alignment explanation
Indices: 52668274--52668338 Score: 75
Period size: 25 Copynumber: 2.9 Consensus size: 23
52668264 AATAAAAAAT
*
52668274 TTTAAAATATAATAAATCAAATATA
1 TTTAAAACATAA-AAA-CAAATATA
52668299 TTTAAAACATAAAAAC-AA-ATA
1 TTTAAAACATAAAAACAAATATA
52668320 -TTAAAACA-AAAAACAAATA
1 TTTAAAACATAAAAACAAATA
52668339 AAAAAATAAG
Statistics
Matches: 37, Mismatches: 1, Indels: 8
0.80 0.02 0.17
Matches are distributed among these distances:
19 6 0.16
20 10 0.27
21 4 0.11
22 2 0.05
23 1 0.03
24 3 0.08
25 11 0.30
ACGTcount: A:0.66, C:0.08, G:0.00, T:0.26
Consensus pattern (23 bp):
TTTAAAACATAAAAACAAATATA
Found at i:52668333 original size:19 final size:20
Alignment explanation
Indices: 52668300--52668338 Score: 71
Period size: 19 Copynumber: 2.0 Consensus size: 20
52668290 TCAAATATAT
52668300 TTAAAACATAAAAACAAATA
1 TTAAAACATAAAAACAAATA
52668320 TTAAAACA-AAAAACAAATA
1 TTAAAACATAAAAACAAATA
52668339 AAAAAATAAG
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 11 0.58
20 8 0.42
ACGTcount: A:0.72, C:0.10, G:0.00, T:0.18
Consensus pattern (20 bp):
TTAAAACATAAAAACAAATA
Done.