Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A03
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: 108673976
ACGTcount: A:0.31, C:0.17, G:0.16, T:0.31
Warning! 5040000 characters in sequence are not A, C, G, or T
File 10 of 333
Found at i:2525307 original size:232 final size:229
Alignment explanation
Indices: 2524630--2525309 Score: 803
Period size: 232 Copynumber: 2.9 Consensus size: 229
2524620 GAATAAATTG
* * *
2524630 GAATGTATTCTTATTTATTAATAGGTTTTGGGTTCACGTGACTTGCAGTGGCAAACGCTTGTCAA
1 GAATGTATTCTTATTTATTAATAGGTTTTCGGTTCACATGACTCGCAGTGGCAAACGCTTGTCAA
* * * *
2524695 AAAGTATTTATAATTAATCAGATAGGCGGTTTTGCG-TTATTGTTAAGG-ATTTTAGGTTTTTAT
66 AAAGTATTTGTAATTAATCA-ATAGGCGATTTTG-GTTTATTATT-AGGAATTTTAGATTTTTAT
* * *
2524758 TGGATAATGGGAAGTTTTAAATTTCAAGATTTGTTTGAAATATTTAATAATGTGATTTACAATAA
128 TGGATAATGGGAAGTTTCAAATTTCAAGATTTGTTTAAAATATTTAATAAT-TGATTTATAATAA
* * *
2524823 TGAGG-TTATTTTTTTCATTTGGTAATAGGTCTTTTATTG
192 TGAGGTTTA-TTTTTT-ATTTGTTAATAGGTCTTTTACTA
* * * * *
2524862 GAATGTTTTCTTATTTATTGATAGGTTTTCAGTTCACATGACTCACGGTGGCAAACGCTTGTCAA
1 GAATGTATTCTTATTTATTAATAGGTTTTCGGTTCACATGACTCGCAGTGGCAAACGCTTGTCAA
* * * * * *
2524927 AAAGTATTTGTAACTAATTCAATATGC-AGTTTCGGTTTATTATTAGGAATCTTCGATTTTAATT
66 AAAGTATTTGTAATTAA-TCAATAGGCGA-TTTTGGTTTATTATTAGGAATTTTAGATTTTTATT
* * *
2524991 GGATAATGGGAAGTTTCAAATTTCAAGATTTGTTCAAAATATTTAATAATTTGATTTTTAATATT
129 GGATAATGGGAAGTTTCAAATTTCAAGATTTGTTTAAAATATTTAATAA-TTGATTTATAATAAT
* * ** *
2525056 GAGGTTCAGTTTTTATTTGTTAATATTTTTTTTCACTA
193 GAGGTTTATTTTTTATTTGTTAATAGGTCTTTT-ACTA
* *** * **
2525094 GAATGTATTCTTATTTATTAATAGGTTTTTGGTTCACATGACTCGCAACAGTAAATACTTGTCAA
1 GAATGTATTCTTATTTATTAATAGGTTTTCGGTTCACATGACTCGCAGTGGCAAACGCTTGTCAA
*
2525159 AAAGTATTTGTAATTAATCATATAGGCGATTTTGGTTTATTATTAGGAATTTTATGTTTTTTATT
66 AAAGTATTTGTAATTAATCA-ATAGGCGATTTTGGTTTATTATTAGGAATTTTA-GATTTTTATT
* * * * *
2525224 AGATAATAGAAAGTTTCGAATATCAAGATTTGTTTAAAATATTTAATAACTTGATTTATAATAAT
129 GGATAATGGGAAGTTTCAAATTTCAAGATTTGTTTAAAATATTTAATAA-TTGATTTATAATAAT
2525289 G-GGTTTATTTTTTATTTGTTA
193 GAGGTTTATTTTTTATTTGTTA
2525310 CTTTGGTATT
Statistics
Matches: 376, Mismatches: 62, Indels: 20
0.82 0.14 0.04
Matches are distributed among these distances:
231 22 0.06
232 282 0.75
233 72 0.19
ACGTcount: A:0.30, C:0.08, G:0.17, T:0.45
Consensus pattern (229 bp):
GAATGTATTCTTATTTATTAATAGGTTTTCGGTTCACATGACTCGCAGTGGCAAACGCTTGTCAA
AAAGTATTTGTAATTAATCAATAGGCGATTTTGGTTTATTATTAGGAATTTTAGATTTTTATTGG
ATAATGGGAAGTTTCAAATTTCAAGATTTGTTTAAAATATTTAATAATTGATTTATAATAATGAG
GTTTATTTTTTATTTGTTAATAGGTCTTTTACTA
Found at i:2526821 original size:76 final size:77
Alignment explanation
Indices: 2526713--2526858 Score: 206
Period size: 78 Copynumber: 1.9 Consensus size: 77
2526703 ATAAGGGCAC
* *
2526713 TATAATAAGTTTAAATAAGAGATGAAATTATGCTAAA-TCAAA-AAAAAAATTAAATCTCAAATT
1 TATAATAAGTTTAAATAAGAGATGAAACTATGCCAAATTCAAATAAAAAAATTAAATCTCAAATT
2526776 TGAACTTGAAAA
66 TGAACTTGAAAA
* * * * *
2526788 TATAATAAGTTTAGATAAAGAGATGAAACTATGCCAAATTGAAATAAAAGAATTTACTCTCAAAT
1 TATAATAAGTTTAAAT-AAGAGATGAAACTATGCCAAATTCAAATAAAAAAATTAAATCTCAAAT
2526853 TTGAAC
65 TTGAAC
2526859 ATAAGTTGTT
Statistics
Matches: 61, Mismatches: 7, Indels: 3
0.86 0.10 0.04
Matches are distributed among these distances:
75 15 0.25
76 19 0.31
77 4 0.07
78 23 0.38
ACGTcount: A:0.51, C:0.08, G:0.11, T:0.29
Consensus pattern (77 bp):
TATAATAAGTTTAAATAAGAGATGAAACTATGCCAAATTCAAATAAAAAAATTAAATCTCAAATT
TGAACTTGAAAA
Found at i:2528521 original size:30 final size:31
Alignment explanation
Indices: 2528481--2528539 Score: 77
Period size: 30 Copynumber: 1.9 Consensus size: 31
2528471 CTTGTTAGGA
*
2528481 GTAACTGTCTTACAGTTAGT-TGGTTAGCTTT
1 GTAACTGTCTT-CAGTTAATATGGTTAGCTTT
*
2528512 GTAAC-GTCTTTAGTTAATATGGTTAGCT
1 GTAACTGTCTTCAGTTAATATGGTTAGCT
2528540 GTTAGCTCAT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
29 6 0.24
30 14 0.56
31 5 0.20
ACGTcount: A:0.22, C:0.12, G:0.22, T:0.44
Consensus pattern (31 bp):
GTAACTGTCTTCAGTTAATATGGTTAGCTTT
Found at i:2533054 original size:30 final size:31
Alignment explanation
Indices: 2533014--2533072 Score: 77
Period size: 30 Copynumber: 1.9 Consensus size: 31
2533004 CATGTTAGGA
*
2533014 GTAACTGTCTTACAGTTAGT-TGGTTAGCTTT
1 GTAACTGTCTT-CAGTTAATATGGTTAGCTTT
*
2533045 GTAAC-GTCTTTAGTTAATATGGTTAGCT
1 GTAACTGTCTTCAGTTAATATGGTTAGCT
2533073 GTTAGCTCAT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
29 6 0.24
30 14 0.56
31 5 0.20
ACGTcount: A:0.22, C:0.12, G:0.22, T:0.44
Consensus pattern (31 bp):
GTAACTGTCTTCAGTTAATATGGTTAGCTTT
Found at i:2552013 original size:109 final size:112
Alignment explanation
Indices: 2551793--2552014 Score: 324
Period size: 109 Copynumber: 2.0 Consensus size: 112
2551783 TGAATTTAGC
* * * *
2551793 CCTCATGTATCCCCTTTCAGTCAATTTAGGTATTATAGTATTATTATTCTTTTTTGAGCTAAATT
1 CCTCATGTATACACTTTCAATCAATTTAGCTATTATAGTA-TATTATTCTTTTTTGAGCTAAATT
* * * *
2551858 TGACTGATTAACCTTTCAAAAAGTGTCCAATTGCTTTTCTTTAATGGA
65 TGACTGATTAACCTTTCAAAAAATATCAAATTACTTTTCTTTAATGGA
*
2551906 CCTCATGTATACACTTTCAATCAATTTAGCTATTATAG-A-ATTATTCTTTTTTGAGTTAAATTT
1 CCTCATGTATACACTTTCAATCAATTTAGCTATTATAGTATATTATTCTTTTTTGAGCTAAATTT
*
2551969 GACT-ATTAACCTTTCAAAAAATATCAAATTATTTTTCTTTAATGGA
66 GACTGATTAACCTTTCAAAAAATATCAAATTACTTTTCTTTAATGGA
2552015 AATACTAACT
Statistics
Matches: 99, Mismatches: 10, Indels: 4
0.88 0.09 0.04
Matches are distributed among these distances:
109 37 0.37
110 27 0.27
112 1 0.01
113 34 0.34
ACGTcount: A:0.30, C:0.15, G:0.10, T:0.45
Consensus pattern (112 bp):
CCTCATGTATACACTTTCAATCAATTTAGCTATTATAGTATATTATTCTTTTTTGAGCTAAATTT
GACTGATTAACCTTTCAAAAAATATCAAATTACTTTTCTTTAATGGA
Found at i:2556639 original size:22 final size:22
Alignment explanation
Indices: 2556614--2556659 Score: 56
Period size: 22 Copynumber: 2.1 Consensus size: 22
2556604 GATATTTGTG
* * *
2556614 TTTGCAAACTACTCAAATTTAA
1 TTTGAAAAATACTCAAATTCAA
*
2556636 TTTGAAAAATATTCAAATTCAA
1 TTTGAAAAATACTCAAATTCAA
2556658 TT
1 TT
2556660 CCGTAATATC
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.43, C:0.13, G:0.04, T:0.39
Consensus pattern (22 bp):
TTTGAAAAATACTCAAATTCAA
Found at i:2557875 original size:33 final size:33
Alignment explanation
Indices: 2557833--2557899 Score: 134
Period size: 33 Copynumber: 2.0 Consensus size: 33
2557823 CAGATATTGC
2557833 AGTGAAAAATAAAAGCCGTAGGAGTTAAAGTAT
1 AGTGAAAAATAAAAGCCGTAGGAGTTAAAGTAT
2557866 AGTGAAAAATAAAAGCCGTAGGAGTTAAAGTAT
1 AGTGAAAAATAAAAGCCGTAGGAGTTAAAGTAT
2557899 A
1 A
2557900 CTTACTTCCC
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 34 1.00
ACGTcount: A:0.49, C:0.06, G:0.24, T:0.21
Consensus pattern (33 bp):
AGTGAAAAATAAAAGCCGTAGGAGTTAAAGTAT
Found at i:2561790 original size:14 final size:15
Alignment explanation
Indices: 2561771--2561803 Score: 59
Period size: 14 Copynumber: 2.3 Consensus size: 15
2561761 AGTTTCAAAT
2561771 TTATGGATGAAGC-A
1 TTATGGATGAAGCAA
2561785 TTATGGATGAAGCAA
1 TTATGGATGAAGCAA
2561800 TTAT
1 TTAT
2561804 CAAAGGATGT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 13 0.72
15 5 0.28
ACGTcount: A:0.36, C:0.06, G:0.24, T:0.33
Consensus pattern (15 bp):
TTATGGATGAAGCAA
Found at i:2566195 original size:20 final size:20
Alignment explanation
Indices: 2566170--2566213 Score: 88
Period size: 20 Copynumber: 2.2 Consensus size: 20
2566160 ACTACTACAT
2566170 GATTAATTAATTATTCATTA
1 GATTAATTAATTATTCATTA
2566190 GATTAATTAATTATTCATTA
1 GATTAATTAATTATTCATTA
2566210 GATT
1 GATT
2566214 TTCTACTACT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.39, C:0.05, G:0.07, T:0.50
Consensus pattern (20 bp):
GATTAATTAATTATTCATTA
Found at i:2570380 original size:46 final size:46
Alignment explanation
Indices: 2570313--2570487 Score: 196
Period size: 46 Copynumber: 3.8 Consensus size: 46
2570303 TGTAACCCGC
2570313 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
* *
2570359 CCATAAGTGAACTCTGACTCAACTCAACGAGCTCGGATGCCTAGTT-ACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGG--G-C--GTTCGCAT
* * * ** *
2570409 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGAACATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
*
2570452 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGG
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGG
2570488 ATGCTCAACC
Statistics
Matches: 107, Mismatches: 13, Indels: 18
0.78 0.09 0.13
Matches are distributed among these distances:
42 2 0.02
43 3 0.03
44 2 0.02
45 2 0.02
46 62 0.58
47 25 0.23
48 3 0.03
49 2 0.02
50 3 0.03
51 3 0.03
ACGTcount: A:0.29, C:0.30, G:0.20, T:0.21
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
Found at i:2570433 original size:93 final size:93
Alignment explanation
Indices: 2570321--2570491 Score: 288
Period size: 93 Copynumber: 1.8 Consensus size: 93
2570311 GCCCATAAGT
** * *
2570321 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCTGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGAACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
2570386 CGAGCTCGGATGCCTAGTTACATCTCAC
66 CGAGCTCGGATGCCTAGTTACATCTCAC
*
2570414 GAACTCGGACTCAACTCAACGAGTTCGAACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGAACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
*
2570479 CGAGTTCGGATGC
66 CGAGCTCGGATGC
2570492 TCAACCATCC
Statistics
Matches: 72, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
93 72 1.00
ACGTcount: A:0.29, C:0.30, G:0.20, T:0.21
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGAACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGCTCGGATGCCTAGTTACATCTCAC
Found at i:2572331 original size:11 final size:11
Alignment explanation
Indices: 2572292--2572371 Score: 52
Period size: 11 Copynumber: 7.7 Consensus size: 11
2572282 TGCATATATG
2572292 ATATAATACATGA
1 ATAT-ATACAT-A
2572305 ATA-ATACGAT-
1 ATATATAC-ATA
2572315 ATATATACATA
1 ATATATACATA
2572326 ATATAT--ATA
1 ATATATACATA
*
2572335 ATA-A-A-AGA
1 ATATATACATA
2572343 ATAATATACATA
1 AT-ATATACATA
2572355 ATATATA-A-A
1 ATATATACATA
2572364 ATATATAC
1 ATATATAC
2572372 GTATATAACA
Statistics
Matches: 56, Mismatches: 2, Indels: 21
0.71 0.03 0.27
Matches are distributed among these distances:
8 5 0.09
9 15 0.27
10 7 0.12
11 20 0.36
12 6 0.11
13 3 0.05
ACGTcount: A:0.57, C:0.06, G:0.04, T:0.33
Consensus pattern (11 bp):
ATATATACATA
Found at i:2572477 original size:22 final size:22
Alignment explanation
Indices: 2572452--2572502 Score: 68
Period size: 22 Copynumber: 2.3 Consensus size: 22
2572442 TATAGCATTA
*
2572452 AAAATATTAAAATAAAA-TAAAT
1 AAAATAATAAAA-AAAACTAAAT
2572474 AAAATAATAAAAAAAACTAAAT
1 AAAATAATAAAAAAAACTAAAT
2572496 ACAAATA
1 A-AAATA
2572503 GATATATGTA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
21 4 0.15
22 17 0.65
23 5 0.19
ACGTcount: A:0.75, C:0.04, G:0.00, T:0.22
Consensus pattern (22 bp):
AAAATAATAAAAAAAACTAAAT
Found at i:2574655 original size:15 final size:17
Alignment explanation
Indices: 2574625--2574657 Score: 52
Period size: 15 Copynumber: 2.1 Consensus size: 17
2574615 TAAAAAATTT
2574625 AAAATTATTCAAAAATA
1 AAAATTATTCAAAAATA
2574642 AAAATTA-T-AAAAATA
1 AAAATTATTCAAAAATA
2574657 A
1 A
2574658 TTAAATTTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 8 0.50
16 1 0.06
17 7 0.44
ACGTcount: A:0.70, C:0.03, G:0.00, T:0.27
Consensus pattern (17 bp):
AAAATTATTCAAAAATA
Found at i:2579120 original size:45 final size:44
Alignment explanation
Indices: 2579068--2579314 Score: 340
Period size: 45 Copynumber: 5.6 Consensus size: 44
2579058 CGGGCTTCGG
* *
2579068 GCCTAGCAGGCTATGATGCCGGTGAAATACTATTCGGGCCTTTGA
1 GCCTAGCAGGCTATAATGCCGGTGAGATA-TATTCGGGCCTTTGA
*
2579113 GCCTAGCAGGCTATGATGCCGGTGAGATATCATTCGGGCCTTTGA
1 GCCTAGCAGGCTATAATGCCGGTGAGATAT-ATTCGGGCCTTTGA
*
2579158 GCCTAGCAGGCTATGATGCCGGTGAGATATTATTCGGGCCTTTGA
1 GCCTAGCAGGCTATAATGCCGGTGAGATA-TATTCGGGCCTTTGA
2579203 GCCTAGCAGGCTATAATGCCGGTGAGATACTATTCGGG-CTTTCGA
1 GCCTAGCAGGCTATAATGCCGGTGAGATA-TATTCGGGCCTTT-GA
* * *
2579248 GCCTAGCAGGTTATAATGCCGGTGAAATGATA-TCGGGCC-TCGA
1 GCCTAGCAGGCTATAATGCCGGTGAGAT-ATATTCGGGCCTTTGA
*
2579291 GCCTAGCAGGCGA-AATGCCGGTGA
1 GCCTAGCAGGCTATAATGCCGGTGA
2579315 TTAGAGAAAA
Statistics
Matches: 189, Mismatches: 8, Indels: 13
0.90 0.04 0.06
Matches are distributed among these distances:
42 11 0.06
43 13 0.07
44 11 0.06
45 152 0.80
46 2 0.01
ACGTcount: A:0.22, C:0.22, G:0.31, T:0.25
Consensus pattern (44 bp):
GCCTAGCAGGCTATAATGCCGGTGAGATATATTCGGGCCTTTGA
Found at i:2580084 original size:30 final size:30
Alignment explanation
Indices: 2580017--2580077 Score: 113
Period size: 30 Copynumber: 2.0 Consensus size: 30
2580007 TGTGAAAAGA
2580017 AAAGTTTTAAATTGATTGAAATTTTTCGGC
1 AAAGTTTTAAATTGATTGAAATTTTTCGGC
*
2580047 AAAGTTTTAAATTGATTGAAATTTTTTGGC
1 AAAGTTTTAAATTGATTGAAATTTTTCGGC
2580077 A
1 A
2580078 CGGTTTTTGT
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.34, C:0.05, G:0.16, T:0.44
Consensus pattern (30 bp):
AAAGTTTTAAATTGATTGAAATTTTTCGGC
Found at i:2582441 original size:14 final size:14
Alignment explanation
Indices: 2582422--2582449 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
2582412 CCTCACAATA
2582422 ATGTTATCTCTAGG
1 ATGTTATCTCTAGG
2582436 ATGTTATCTCTAGG
1 ATGTTATCTCTAGG
2582450 GAGAGAATGG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.21, C:0.14, G:0.21, T:0.43
Consensus pattern (14 bp):
ATGTTATCTCTAGG
Found at i:2590342 original size:21 final size:19
Alignment explanation
Indices: 2590313--2590351 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 19
2590303 TTTCTTCTAA
2590313 TAATATTATTGAAAAGTAAC
1 TAATATTATT-AAAAGTAAC
*
2590333 TAATCATTATTTAAAGTAA
1 TAAT-ATTATTAAAAGTAA
2590352 ACTGACTTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 11 0.65
21 6 0.35
ACGTcount: A:0.49, C:0.05, G:0.08, T:0.38
Consensus pattern (19 bp):
TAATATTATTAAAAGTAAC
Found at i:2590625 original size:13 final size:12
Alignment explanation
Indices: 2590605--2590634 Score: 51
Period size: 13 Copynumber: 2.4 Consensus size: 12
2590595 TTTTTAATTT
2590605 AAATTTTAAAAA
1 AAATTTTAAAAA
2590617 AAATATTTAAAAA
1 AAAT-TTTAAAAA
2590630 AAATT
1 AAATT
2590635 GGTGATCAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
12 5 0.29
13 12 0.71
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (12 bp):
AAATTTTAAAAA
Found at i:2597780 original size:16 final size:16
Alignment explanation
Indices: 2597761--2597806 Score: 67
Period size: 16 Copynumber: 2.9 Consensus size: 16
2597751 ACTTGTTCCA
2597761 AACATGAGTTGTTTTG
1 AACATGAGTTGTTTTG
*
2597777 AACAT-AGTTGTTTTT
1 AACATGAGTTGTTTTG
*
2597792 AACAAGAGTTGTTTT
1 AACATGAGTTGTTTT
2597807 ATGGTGATGC
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
15 13 0.48
16 14 0.52
ACGTcount: A:0.28, C:0.07, G:0.20, T:0.46
Consensus pattern (16 bp):
AACATGAGTTGTTTTG
Found at i:2597807 original size:15 final size:15
Alignment explanation
Indices: 2597761--2597807 Score: 51
Period size: 15 Copynumber: 3.1 Consensus size: 15
2597751 ACTTGTTCCA
*
2597761 AACATGAGTTGTTTT
1 AACAAGAGTTGTTTT
*
2597776 GAAC-ATAGTTGTTTTT
1 -AACAAGAGTTG-TTTT
2597792 AACAAGAGTTGTTTT
1 AACAAGAGTTGTTTT
2597807 A
1 A
2597808 TGGTGATGCT
Statistics
Matches: 26, Mismatches: 3, Indels: 5
0.76 0.09 0.15
Matches are distributed among these distances:
15 13 0.50
16 13 0.50
ACGTcount: A:0.30, C:0.06, G:0.19, T:0.45
Consensus pattern (15 bp):
AACAAGAGTTGTTTT
Found at i:2617011 original size:32 final size:32
Alignment explanation
Indices: 2616975--2617040 Score: 132
Period size: 32 Copynumber: 2.1 Consensus size: 32
2616965 CGATATATTC
2616975 AAAAGGATTATTAGGCATTTTAGTCTAAATTT
1 AAAAGGATTATTAGGCATTTTAGTCTAAATTT
2617007 AAAAGGATTATTAGGCATTTTAGTCTAAATTT
1 AAAAGGATTATTAGGCATTTTAGTCTAAATTT
2617039 AA
1 AA
2617041 CTATTAATGA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 34 1.00
ACGTcount: A:0.39, C:0.06, G:0.15, T:0.39
Consensus pattern (32 bp):
AAAAGGATTATTAGGCATTTTAGTCTAAATTT
Found at i:2623467 original size:31 final size:30
Alignment explanation
Indices: 2623432--2623492 Score: 70
Period size: 30 Copynumber: 2.0 Consensus size: 30
2623422 GAAACAGAAT
*
2623432 GAAAGCAAACGAAAC-AGAGAAGAACAGGGGA
1 GAAAG-AAACGAAACAAGA-AAGAAAAGGGGA
* *
2623463 GAAAGAAAGGAAAGAAGAAAGAAAAGGGGA
1 GAAAGAAACGAAACAAGAAAGAAAAGGGGA
2623493 AATAAGGTTT
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
30 18 0.69
31 8 0.31
ACGTcount: A:0.59, C:0.07, G:0.34, T:0.00
Consensus pattern (30 bp):
GAAAGAAACGAAACAAGAAAGAAAAGGGGA
Found at i:2624053 original size:39 final size:39
Alignment explanation
Indices: 2623946--2624080 Score: 123
Period size: 39 Copynumber: 3.4 Consensus size: 39
2623936 GACCTCGAGT
* * *
2623946 CGATGAGACACTGGGTGTC-ACTATATTTCTTCGGATAGATT
1 CGATGAGACACTGGGTGTCAAC--TATTACTTCGGCTAG-TC
** ** *
2623987 CGATGAGGTACTGGGTACCAACT-TTACTTCGGCTAGGC
1 CGATGAGACACTGGGTGTCAACTATTACTTCGGCTAGTC
*
2624025 CGATGAGACACTGGGTGTCAACTATTACTTCGAACTA-TC
1 CGATGAGACACTGGGTGTCAACTATTACTTCG-GCTAGTC
*
2624064 CGATGAGGCACTGGGTG
1 CGATGAGACACTGGGTG
2624081 CCATATTGGT
Statistics
Matches: 76, Mismatches: 15, Indels: 8
0.77 0.15 0.08
Matches are distributed among these distances:
38 19 0.25
39 36 0.47
40 4 0.05
41 15 0.20
42 2 0.03
ACGTcount: A:0.24, C:0.21, G:0.27, T:0.28
Consensus pattern (39 bp):
CGATGAGACACTGGGTGTCAACTATTACTTCGGCTAGTC
Found at i:2625690 original size:131 final size:129
Alignment explanation
Indices: 2625456--2625785 Score: 477
Period size: 131 Copynumber: 2.6 Consensus size: 129
2625446 CTATTCATTC
*
2625456 AAAAATTCTTTAAAACGAAGGAAATGTTCGATGTTTGGCAATTCAGGGAATCGTGCCCTA-TCGT
1 AAAAATTC-TTAAAACGAAGGAAATGTTCGATGTTTGGCAATTCGGGGAATCGTGCCCTACT-GT
* **
2625520 GCTGGGTTGCAATTTCCCGTTTGTTCAAAATAATCGAATATTCCTTTGGAATTTCACTCATGTCT
64 GCTGGGTTGCAATTTCCCGTTTGCTCAAAATAATCGAATATTCCTTTAAAATTTCACTCATGT-T
2625585 TT
128 TT
* *
2625587 AAAAATTCTTCAAAACGAAGGAAATGTTTGGTGTTTGGCAATTCGGGGAATCGTGCCCTACTGTG
1 AAAAATTCTT-AAAACGAAGGAAATGTTCGATGTTTGGCAATTCGGGGAATCGTGCCCTACTGTG
2625652 CTGGGTTGCAATTTCCCGTTTGCTCAAAATAATCGAATATTCCTTTAAAATTTCACTCATGTTTT
65 CTGGGTTGCAATTTCCCGTTTGCTCAAAATAATCGAATATTCCTTTAAAATTTCACTCATGTTTT
** * * * * **
2625717 CTAAATTC-TAAAAC-AAAGCAATGTTCAATGTTTGGAAATTCGGGGAATCGTGCCCTACCATGC
1 AAAAATTCTTAAAACGAAGGAAATGTTCGATGTTTGGCAATTCGGGGAATCGTGCCCTACTGTGC
2625780 TGGGTT
66 TGGGTT
2625786 TCGATTTTTT
Statistics
Matches: 181, Mismatches: 16, Indels: 8
0.88 0.08 0.04
Matches are distributed among these distances:
127 47 0.26
128 5 0.03
129 1 0.01
130 11 0.06
131 116 0.64
132 1 0.01
ACGTcount: A:0.28, C:0.18, G:0.20, T:0.34
Consensus pattern (129 bp):
AAAAATTCTTAAAACGAAGGAAATGTTCGATGTTTGGCAATTCGGGGAATCGTGCCCTACTGTGC
TGGGTTGCAATTTCCCGTTTGCTCAAAATAATCGAATATTCCTTTAAAATTTCACTCATGTTTT
Found at i:2640704 original size:24 final size:24
Alignment explanation
Indices: 2640680--2640728 Score: 66
Period size: 24 Copynumber: 2.1 Consensus size: 24
2640670 TTGGAAGGTT
2640680 TTTA-CTCTGCT-GTTTTGGCACG
1 TTTATCTCTGCTAGTTTTGGCACG
* *
2640702 TTTATGTCTGCTATTTTTGGCACG
1 TTTATCTCTGCTAGTTTTGGCACG
2640726 TTT
1 TTT
2640729 CTTAGGATTT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
22 4 0.17
23 6 0.26
24 13 0.57
ACGTcount: A:0.10, C:0.18, G:0.20, T:0.51
Consensus pattern (24 bp):
TTTATCTCTGCTAGTTTTGGCACG
Found at i:2643027 original size:16 final size:17
Alignment explanation
Indices: 2643006--2643040 Score: 63
Period size: 16 Copynumber: 2.1 Consensus size: 17
2642996 AAAAATTGTT
2643006 TTACTTTTC-TATATTA
1 TTACTTTTCATATATTA
2643022 TTACTTTTCATATATTA
1 TTACTTTTCATATATTA
2643039 TT
1 TT
2643041 TTATGTATTA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
16 9 0.50
17 9 0.50
ACGTcount: A:0.26, C:0.11, G:0.00, T:0.63
Consensus pattern (17 bp):
TTACTTTTCATATATTA
Found at i:2643211 original size:14 final size:14
Alignment explanation
Indices: 2643189--2643224 Score: 54
Period size: 14 Copynumber: 2.5 Consensus size: 14
2643179 GTTTTGTTTC
2643189 ATTACTTTTATATAT
1 ATTA-TTTTATATAT
*
2643204 ATTATTTTATTTAT
1 ATTATTTTATATAT
2643218 ATTATTT
1 ATTATTT
2643225 GTAACATTAT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
14 16 0.80
15 4 0.20
ACGTcount: A:0.31, C:0.03, G:0.00, T:0.67
Consensus pattern (14 bp):
ATTATTTTATATAT
Found at i:2643260 original size:23 final size:20
Alignment explanation
Indices: 2643244--2643291 Score: 66
Period size: 17 Copynumber: 2.5 Consensus size: 20
2643234 TATATATAAA
2643244 TTTTATTATATGTTATATAT
1 TTTTATTATATGTTATATAT
*
2643264 TTTTATTATA--TTATTTA-
1 TTTTATTATATGTTATATAT
2643281 TTTTATTATAT
1 TTTTATTATAT
2643292 TTTTATATGT
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
17 10 0.38
18 6 0.23
20 10 0.38
ACGTcount: A:0.29, C:0.00, G:0.02, T:0.69
Consensus pattern (20 bp):
TTTTATTATATGTTATATAT
Found at i:2643269 original size:20 final size:18
Alignment explanation
Indices: 2643195--2643299 Score: 86
Period size: 18 Copynumber: 5.5 Consensus size: 18
2643185 TTTCATTACT
* *
2643195 TTTATATATATTATTTTA
1 TTTATATATTTTATTATA
2643213 TTTATATTATTTGTAACATTATA
1 TTTATA-TATTT-T---ATTATA
* *
2643236 TATATAAATTTTATTATA
1 TTTATATATTTTATTATA
2643254 TGTTATATATTTTTATTATA
1 T-TTATATA-TTTTATTATA
*
2643274 -TTATTTATTTTATTATA
1 TTTATATATTTTATTATA
*
2643291 TTTTTATAT
1 TTTATATAT
2643300 GTAAAATATT
Statistics
Matches: 70, Mismatches: 9, Indels: 16
0.74 0.09 0.17
Matches are distributed among these distances:
17 10 0.14
18 25 0.36
19 9 0.13
20 11 0.16
21 1 0.01
22 4 0.06
23 10 0.14
ACGTcount: A:0.33, C:0.01, G:0.02, T:0.64
Consensus pattern (18 bp):
TTTATATATTTTATTATA
Found at i:2643298 original size:25 final size:28
Alignment explanation
Indices: 2643246--2643299 Score: 69
Period size: 27 Copynumber: 2.0 Consensus size: 28
2643236 TATATAAATT
*
2643246 TTATTATATGTTATATATTTTTATTATA
1 TTATTATATGTTATATATATTTATTATA
*
2643274 TTATT-TATTTTAT-TATATTT-TTATA
1 TTATTATATGTTATATATATTTATTATA
2643299 T
1 T
2643300 GTAAAATATT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
25 6 0.25
26 6 0.25
27 7 0.29
28 5 0.21
ACGTcount: A:0.30, C:0.00, G:0.02, T:0.69
Consensus pattern (28 bp):
TTATTATATGTTATATATATTTATTATA
Found at i:2661355 original size:22 final size:23
Alignment explanation
Indices: 2661327--2661370 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 23
2661317 CAAAAAGTTA
2661327 AAAAGTTATCATTGAA-TTATTC
1 AAAAGTTATCATTGAAGTTATTC
* *
2661349 AAAAGTTTTCATTTAAGTTATT
1 AAAAGTTATCATTGAAGTTATT
2661371 TTGGTTATAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 14 0.74
23 5 0.26
ACGTcount: A:0.39, C:0.07, G:0.09, T:0.45
Consensus pattern (23 bp):
AAAAGTTATCATTGAAGTTATTC
Found at i:2662612 original size:15 final size:15
Alignment explanation
Indices: 2662565--2662612 Score: 51
Period size: 15 Copynumber: 3.1 Consensus size: 15
2662555 CTAAAATGGT
*
2662565 AATTTTAAAATTTAA
1 AATTTTAAATTTTAA
**
2662580 TTTTTTATAATTTATAA
1 AATTTTA-AATTT-TAA
2662597 AATTTTAAATTTTAA
1 AATTTTAAATTTTAA
2662612 A
1 A
2662613 TTAATAATAA
Statistics
Matches: 26, Mismatches: 5, Indels: 4
0.74 0.14 0.11
Matches are distributed among these distances:
15 9 0.35
16 9 0.35
17 8 0.31
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (15 bp):
AATTTTAAATTTTAA
Found at i:2669127 original size:14 final size:14
Alignment explanation
Indices: 2669110--2669144 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 14
2669100 TGTTGTCATT
2669110 TTATTATCATATTG
1 TTATTATCATATTG
**
2669124 TTATTATTTTATTG
1 TTATTATCATATTG
2669138 TTATTAT
1 TTATTAT
2669145 TTAGATATTA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.26, C:0.03, G:0.06, T:0.66
Consensus pattern (14 bp):
TTATTATCATATTG
Found at i:2669145 original size:14 final size:14
Alignment explanation
Indices: 2669119--2669146 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
2669109 TTTATTATCA
2669119 TATTGTTATTATTT
1 TATTGTTATTATTT
2669133 TATTGTTATTATTT
1 TATTGTTATTATTT
2669147 AGATATTATA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.21, C:0.00, G:0.07, T:0.71
Consensus pattern (14 bp):
TATTGTTATTATTT
Found at i:2669212 original size:31 final size:31
Alignment explanation
Indices: 2669174--2669234 Score: 104
Period size: 31 Copynumber: 2.0 Consensus size: 31
2669164 TATTTTATTA
*
2669174 TTAATTTTGCTATTATTTTAAAAGTATTTGC
1 TTAATTTTGCTACTATTTTAAAAGTATTTGC
*
2669205 TTAATTTTGCTACTATTTTAGAAGTATTTG
1 TTAATTTTGCTACTATTTTAAAAGTATTTG
2669235 TTTATTAAGT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 28 1.00
ACGTcount: A:0.28, C:0.07, G:0.11, T:0.54
Consensus pattern (31 bp):
TTAATTTTGCTACTATTTTAAAAGTATTTGC
Found at i:2669759 original size:22 final size:19
Alignment explanation
Indices: 2669711--2669751 Score: 82
Period size: 19 Copynumber: 2.2 Consensus size: 19
2669701 TTCACCGCTA
2669711 CTATTTTTCAGAACAATTC
1 CTATTTTTCAGAACAATTC
2669730 CTATTTTTCAGAACAATTC
1 CTATTTTTCAGAACAATTC
2669749 CTA
1 CTA
2669752 ATATTTTTGG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.32, C:0.22, G:0.05, T:0.41
Consensus pattern (19 bp):
CTATTTTTCAGAACAATTC
Found at i:2671645 original size:121 final size:121
Alignment explanation
Indices: 2671430--2671647 Score: 305
Period size: 121 Copynumber: 1.8 Consensus size: 121
2671420 CTCATGCATT
* * * * *
2671430 TGAAATTTCAAAAGGATATTTGGCTATCTGGTCAAACGGTAAGTCGAAACCTAGCACGATTGGGT
1 TGAAACTTCAAAAGGATATTTAGCTATCTGGTCAAACGGAAAATCGAAACCTAGCACGATTGGGC
* **
2671495 ACGATTTCTCGAATTTCTAAATGCAAAATATTGCCTCAAATTTAAGAAAACATGAA
66 ACGATTTCTCGAATTTCCAAACACAAAATATTGCCTCAAATTTAAGAAAACATGAA
* *
2671551 TGAAACTTCAAAAGGATATTTAGTTAT-TCGGTCAAACGGAAAATCGAAACTTAGCACG-TTAGG
1 TGAAACTTCAAAAGGATATTTAGCTATCT-GGTCAAACGGAAAATCGAAACCTAGCACGATT-GG
*
2671614 GCACGATTTCTCGAATTTCCAAACACGAAATATT
64 GCACGATTTCTCGAATTTCCAAACACAAAATATT
2671648 TTCTTATTTT
Statistics
Matches: 84, Mismatches: 11, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
120 3 0.04
121 81 0.96
ACGTcount: A:0.37, C:0.17, G:0.18, T:0.28
Consensus pattern (121 bp):
TGAAACTTCAAAAGGATATTTAGCTATCTGGTCAAACGGAAAATCGAAACCTAGCACGATTGGGC
ACGATTTCTCGAATTTCCAAACACAAAATATTGCCTCAAATTTAAGAAAACATGAA
Found at i:2673656 original size:12 final size:13
Alignment explanation
Indices: 2673634--2673662 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
2673624 AATATAAATA
2673634 AATAGGTAATAAT
1 AATAGGTAATAAT
2673647 AATA-GTAATAAT
1 AATAGGTAATAAT
2673659 AATA
1 AATA
2673663 ATAGGACTAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 12 0.75
13 4 0.25
ACGTcount: A:0.59, C:0.00, G:0.10, T:0.31
Consensus pattern (13 bp):
AATAGGTAATAAT
Found at i:2673673 original size:15 final size:15
Alignment explanation
Indices: 2673640--2673673 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
2673630 AATAAATAGG
*
2673640 TAATAATAATAGTAA
1 TAATAATAATAGGAA
*
2673655 TAATAATAATAGGAC
1 TAATAATAATAGGAA
2673670 TAAT
1 TAAT
2673674 TCAAAATGGG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.56, C:0.03, G:0.09, T:0.32
Consensus pattern (15 bp):
TAATAATAATAGGAA
Found at i:2675283 original size:98 final size:98
Alignment explanation
Indices: 2675112--2675302 Score: 280
Period size: 98 Copynumber: 1.9 Consensus size: 98
2675102 GACCTGACAC
2675112 GATCTCCTCTACTGTAACCTTAAAGAGATAAGATCCTTTATTTTAATCCACTCCACTATAATCTC
1 GATCTCCTCTACTGTAACCTTAAAGAGATAAGATCCTTTATTTTAATCCACTCCACTATAATCTC
*
2675177 AGGCAGATAGGATTACTATCTTCAATCTAATGT
66 AGGCAGATAGGATTACTAGCTTCAATCTAATGT
* * * * *
2675210 GATCTGCTCTACTGTAA-CTTCAGAGAGATAAGATCTTTTATTTTAATCCGCTCCACTGTAA-CT
1 GATCTCCTCTACTGTAACCTT-AAAGAGATAAGATCCTTTATTTTAATCCACTCCACTATAATC-
2675273 TCAGAG-AGATAGGATTACTAGCTTCAATCT
64 TCAG-GCAGATAGGATTACTAGCTTCAATCT
2675303 GCTCCGCTGT
Statistics
Matches: 84, Mismatches: 6, Indels: 6
0.88 0.06 0.06
Matches are distributed among these distances:
97 4 0.05
98 79 0.94
99 1 0.01
ACGTcount: A:0.30, C:0.21, G:0.14, T:0.35
Consensus pattern (98 bp):
GATCTCCTCTACTGTAACCTTAAAGAGATAAGATCCTTTATTTTAATCCACTCCACTATAATCTC
AGGCAGATAGGATTACTAGCTTCAATCTAATGT
Found at i:2675307 original size:44 final size:43
Alignment explanation
Indices: 2675211--2675377 Score: 131
Period size: 44 Copynumber: 3.8 Consensus size: 43
2675201 ATCTAATGTG
* ** * *
2675211 ATCTGCTCTACTGTAACTTCAGAGAGATAAGATCTTTTATTTTA
1 ATCTGCTCCACTGTAACTTCAGAGAGATAAGAT-TACTACTTCA
* *
2675255 ATCCGCTCCACTGTAACTTCAGAGAGATAGGATTACTAGCTTCA
1 ATCTGCTCCACTGTAACTTCAGAGAGATAAGATTACTA-CTTCA
* * * * *
2675299 ATCTGCTCCGCTGTAA-TCTCAGGGAGATAAGATTTGAAATTCTTCG
1 ATCTGCTCCACTGTAACT-TCAGAGAGATAAGA-TT--ACTACTTCA
* *
2675345 GTCTGCTCCACTGTAA-TCTCAGGGAGATAAGAT
1 ATCTGCTCCACTGTAACT-TCAGAGAGATAAGAT
2675378 CTGAAATCTT
Statistics
Matches: 102, Mismatches: 16, Indels: 9
0.80 0.13 0.07
Matches are distributed among these distances:
43 4 0.04
44 59 0.58
45 3 0.03
46 34 0.33
47 2 0.02
ACGTcount: A:0.28, C:0.20, G:0.19, T:0.32
Consensus pattern (43 bp):
ATCTGCTCCACTGTAACTTCAGAGAGATAAGATTACTACTTCA
Found at i:2675359 original size:46 final size:45
Alignment explanation
Indices: 2675211--2675596 Score: 223
Period size: 46 Copynumber: 8.7 Consensus size: 45
2675201 ATCTAATGTG
* * **
2675211 ATCTGCTCTACTGTAA-CTTCAGAGAGATAAGATCTTTTATT-TT-A
1 ATCTGCTCCACTGTAATC-TCAGGGAGATAAGAT-TTGAATTCTTCA
* * * * *
2675255 ATCCGCTCCACTGTAA-CTTCAGAGAGATAGGA-TT-ACTAGCTTCA
1 ATCTGCTCCACTGTAATC-TCAGGGAGATAAGATTTGAAT-TCTTCA
* *
2675299 ATCTGCTCCGCTGTAATCTCAGGGAGATAAGATTTGAAATTCTTCG
1 ATCTGCTCCACTGTAATCTCAGGGAGATAAGATTTG-AATTCTTCA
* * * *
2675345 GTCTGCTCCACTGTAATCTCAGGGAGATAAGATCTGAAATCTTTCG
1 ATCTGCTCCACTGTAATCTCAGGGAGATAAGATTTGAATTC-TTCA
* * ** * *
2675391 GTCTGCTCCACTGTGATCTCAGGGAGATAAGACCTG-A---TGCG
1 ATCTGCTCCACTGTAATCTCAGGGAGATAAGATTTGAATTCTTCA
* * *
2675432 ATCTACTCTACTGTAA-CTTCAGGGAGATAAGATCCTT-TATT-TT-A
1 ATCTGCTCCACTGTAATC-TCAGGGAGATAAGAT--TTGAATTCTTCA
** * * *
2675476 ATCCACTCCGCTGTAA-CTTCAGGGAGATAGGA--T-AGTGTCTTCA
1 ATCTGCTCCACTGTAATC-TCAGGGAGATAAGATTTGAAT-TCTTCA
* * *
2675519 ATCTGCTCCGCTGTAATCTGAGGGAGATAAGATTTGAAATTCTTTA
1 ATCTGCTCCACTGTAATCTCAGGGAGATAAGATTTG-AATTCTTCA
* * *
2675565 GTCTGTTCCACTGTAATCTCAGGGAAATAAGA
1 ATCTGCTCCACTGTAATCTCAGGGAGATAAGA
2675597 CCTGGTGCGA
Statistics
Matches: 275, Mismatches: 45, Indels: 42
0.76 0.12 0.12
Matches are distributed among these distances:
40 3 0.01
41 31 0.11
42 4 0.01
43 31 0.11
44 85 0.31
45 10 0.04
46 107 0.39
47 4 0.01
ACGTcount: A:0.27, C:0.20, G:0.20, T:0.32
Consensus pattern (45 bp):
ATCTGCTCCACTGTAATCTCAGGGAGATAAGATTTGAATTCTTCA
Found at i:2675610 original size:87 final size:86
Alignment explanation
Indices: 2675300--2675638 Score: 258
Period size: 87 Copynumber: 3.8 Consensus size: 86
2675290 CTAGCTTCAA
* ** * *
2675300 TCTGCTCCGCTGTAATCTCAGGGAGATAAGATTTGAAATTCTTCGGTCTGCTCCACTGTAATCTC
1 TCTGCTCCACTGTAATCTCAGGGAGATAAGACCTG--A---TGCGATCTGCTCCACTGTAATCTC
* *
2675365 AGGGAGATAAGATCTGAAATCTTTCGG
61 AGGGAGATAAGATTTGAAATCTTT-AG
* * *
2675392 TCTGCTCCACTGTGATCTCAGGGAGATAAGACCTGATGCGATCTACTCTACTGTAA-CTTCAGGG
1 TCTGCTCCACTGTAATCTCAGGGAGATAAGACCTGATGCGATCTGCTCCACTGTAATC-TCAGGG
* *
2675456 AGATAAGATCCTT--TAT-TTTAA
65 AGATAAGAT--TTGAAATCTTTAG
** * * ** * * * * *
2675477 TCCACTCCGCTGTAA-CTTCAGGGAGATAGGATAGTGTCTTCAATCTGCTCCGCTGTAATCTGAG
1 TCTGCTCCACTGTAATC-TCAGGGAGATAAGA-CCTG-ATGCGATCTGCTCCACTGTAATCTCAG
2675541 GGAGATAAGATTTGAAATTCTTTAG
63 GGAGATAAGATTTGAAA-TCTTTAG
* * * * *
2675566 TCTGTTCCACTGTAATCTCAGGGAAATAAGACCTGGTGCGATCTGCTCTACTGTAA-CTTCAGAG
1 TCTGCTCCACTGTAATCTCAGGGAGATAAGACCTGATGCGATCTGCTCCACTGTAATC-TCAGGG
2675630 AGATAAGAT
65 AGATAAGAT
2675639 CCTTTAATCC
Statistics
Matches: 191, Mismatches: 43, Indels: 31
0.72 0.16 0.12
Matches are distributed among these distances:
84 1 0.01
85 26 0.14
86 7 0.04
87 92 0.48
88 4 0.02
89 28 0.15
90 2 0.01
92 31 0.16
ACGTcount: A:0.27, C:0.20, G:0.22, T:0.31
Consensus pattern (86 bp):
TCTGCTCCACTGTAATCTCAGGGAGATAAGACCTGATGCGATCTGCTCCACTGTAATCTCAGGGA
GATAAGATTTGAAATCTTTAG
Found at i:2686752 original size:35 final size:35
Alignment explanation
Indices: 2686711--2686804 Score: 113
Period size: 36 Copynumber: 2.7 Consensus size: 35
2686701 ACAGTCCTTC
* * *
2686711 CTATATTGGTGAAGTGGATCGACGATGCAGAT-TTT
1 CTATATTGGTGAAGTAGATCGAAGAT-CAGATCTAT
2686746 CTATATTGGTGGAAGTAGATCGAAGATCAGATCTAT
1 CTATATTGGT-GAAGTAGATCGAAGATCAGATCTAT
*
2686782 CTGTATTGGTGAAG--GATCGAAGA
1 CTATATTGGTGAAGTAGATCGAAGA
2686805 GATTTGTCTT
Statistics
Matches: 53, Mismatches: 4, Indels: 6
0.84 0.06 0.10
Matches are distributed among these distances:
33 9 0.17
35 19 0.36
36 25 0.47
ACGTcount: A:0.30, C:0.11, G:0.29, T:0.31
Consensus pattern (35 bp):
CTATATTGGTGAAGTAGATCGAAGATCAGATCTAT
Found at i:2686905 original size:73 final size:70
Alignment explanation
Indices: 2686818--2686950 Score: 223
Period size: 69 Copynumber: 1.9 Consensus size: 70
2686808 TTGTCTTCCA
2686818 TATTGGTGGCGAAGTAGATCGAAGAAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCA
1 TATTGGTGGCGAAGTAGATCGAAG-AAGCAG---TTGTCTTCATGTATTGGCGTGAAGTAGATCA
2686883 GATATGTTC
62 GATATGTTC
2686892 TATTGG-GGCGAAGTAGATCGAAGAAGCAGTTGTCTTCATGTATTGGCGTGAAGTAGATC
1 TATTGGTGGCGAAGTAGATCGAAGAAGCAGTTGTCTTCATGTATTGGCGTGAAGTAGATC
2686951 GAAGATGCAG
Statistics
Matches: 59, Mismatches: 0, Indels: 5
0.92 0.00 0.08
Matches are distributed among these distances:
69 30 0.51
72 6 0.10
73 17 0.29
74 6 0.10
ACGTcount: A:0.28, C:0.12, G:0.30, T:0.30
Consensus pattern (70 bp):
TATTGGTGGCGAAGTAGATCGAAGAAGCAGTTGTCTTCATGTATTGGCGTGAAGTAGATCAGATA
TGTTC
Found at i:2686968 original size:40 final size:40
Alignment explanation
Indices: 2686892--2687789 Score: 116
Period size: 44 Copynumber: 21.6 Consensus size: 40
2686882 AGATATGTTC
* * * *
2686892 TATTGGGGCGAAGTAGATCGAAGAAGCAGTTGTCTTCATG
1 TATTGGCGCGAAGTAGATCGAAGAAGCAGATCTCTTCATA
* * *
2686932 TATTGGCGTGAAGTAGATCGAAGATGCAGATCTCTTCCTA
1 TATTGGCGCGAAGTAGATCGAAGAAGCAGATCTCTTCATA
* * **
2686972 TATTGGTAG-GAAGTGGATCG-AGAACGCAGATCTTGTCTTCCCA
1 TATTGG-CGCGAAGTAGATCGAAGAA-GCAGATC---TCTTCATA
* * * *
2687015 TACTGGTGGCGAAGTAGATCGCAGAA-AAGATCT-TGTC-T-
1 TATTGG-CGCGAAGTAGATCGAAGAAGCAGATCTCT-TCATA
* * * * *
2687053 T-CTGGCGTGAAGTAGAT-GGAGATAGCTG-TCCTATCTTCCTA
1 TATTGGCGCGAAGTAGATCGAAGA-AGCAGAT-C--TCTTCATA
* * * * **
2687094 TATTGGTAG-GAA-TGGATCGACGACGCAGATCTTGTCTTTCCCA
1 TATTGG-CGCGAAGTAGATCGAAGAAGCAGATC---TC-TTCATA
* * * *
2687137 TACTGGTGGCGAAGTAGATCGAAGAAAGCAGATCTTATTTCATG
1 TATTGG-CGCGAAGTAGATCGAAG-AAGCAGATC-T-CTTCATA
* * * * *
2687181 TATTGGCGTGAAGTAGATCGAAGATGCAGATTTTGTTCCTA
1 TATTGGCGCGAAGTAGATCGAAGAAGCAGA-TCTCTTCATA
* * * *
2687222 TATTGGTAG-GAAGTAGGTCGGA-AAGCAGATCTTGTCTTCATG
1 TATTGG-CGCGAAGTAGATCGAAGAAGCAGATC---TCTTCATA
* * * *
2687264 TATTGGCGTGAAGTAGATCAAAG-A-TAG-T-TC-T-ATC
1 TATTGGCGCGAAGTAGATCGAAGAAGCAGATCTCTTCATA
*** * * * *
2687298 TCCCGGGGCAAGAAGTAGATCGGAGATAGCTGATCCTATCTTCCTA
1 TATTGGCGC--GAAGTAGATCGAAGA-AGCAGAT-C--TCTTCATA
* * * * **
2687344 T-TTGGTAG-GAAATGGATCGAAGATGCA-ATCTTGTCTTCCCA
1 TATTGG-CGCGAAGTAGATCGAAGAAGCAGATC---TCTTCATA
* * *
2687385 TACTGGTGGCG-AGTAGATCGAAGAAAGCAGATCTTATCTTCATG
1 TATTGG-CGCGAAGTAGATCGAAG-AAGCAGATC---TCTTCATA
* * *
2687429 TATTGGCGTGAAGTAGATCGAAGATGCAGATTCTGCTTCCTA
1 TATTGGCGCGAAGTAGATCGAAGAAGCAGA-TCT-CTTCATA
* * *
2687471 TATTGGTAG-GAAGTAGGTCGAAGAAAGCAGATCTTGTCTTCATG
1 TATTGG-CGCGAAGTAGATCGAAG-AAGCAGATC---TCTTCATA
* * * *
2687515 TATTGGCGTGAAGTAGATCAAAG-A-TAG-T-TC-T-ATC
1 TATTGGCGCGAAGTAGATCGAAGAAGCAGATCTCTTCATA
** ** * * *
2687549 T-CGGGCAAGAAGTAGATCGGAGATAGCTGATCCTATCTTCCTA
1 TATTGGCGCGAAGTAGATCGAAGA-AGCAGAT-C--TCTTCATA
* * * * * **
2687592 TATTGGTAG-GAAATGGATCGAAGATGCAGATTTGTCTTCCCA
1 TATTGG-CGCGAAGTAGATCGAAGAAGCAGA--TCTCTTCATA
* *
2687634 TATTGGTGGCGAAGTAGATCGAAGAAAGCAGATCTTATCTTCATG
1 TATTGG-CGCGAAGTAGATCGAAG-AAGCAGATC---TCTTCATA
* * *
2687679 TATTGGCGTGAAGTAGATCGAAGATGCAGATTCTGCCTTCCTA
1 TATTGGCGCGAAGTAGATCGAAGAAGCAGA-TCT--CTTCATA
* * * *
2687722 TATTGGTAG-GAAGTAGGTCGAAGAAAGCAGATCTTGTCTTCGTG
1 TATTGG-CGCGAAGTAGATCGAAG-AAGCAGATC---TCTTCATA
* *
2687766 TATTGGCGTGAAGTAGATCAAAGA
1 TATTGGCGCGAAGTAGATCGAAGA
2687790 TAGTTCTATC
Statistics
Matches: 620, Mismatches: 150, Indels: 173
0.66 0.16 0.18
Matches are distributed among these distances:
33 15 0.02
34 9 0.01
35 7 0.01
36 29 0.05
37 7 0.01
38 2 0.00
39 9 0.01
40 71 0.11
41 51 0.08
42 104 0.17
43 133 0.21
44 143 0.23
45 28 0.05
46 12 0.02
ACGTcount: A:0.28, C:0.16, G:0.27, T:0.29
Consensus pattern (40 bp):
TATTGGCGCGAAGTAGATCGAAGAAGCAGATCTCTTCATA
Found at i:2687277 original size:42 final size:39
Alignment explanation
Indices: 2687160--2687286 Score: 125
Period size: 42 Copynumber: 3.1 Consensus size: 39
2687150 GTAGATCGAA
2687160 GAAAGCAGATCTTATTTCATGTATTGGCGTGAAGTAGATC
1 GAAAGCAGATCTT-TTTCATGTATTGGCGTGAAGTAGATC
* * * *
2687200 GAAGATGCAGAT-TTTGTTCCTATATTGGTAG-GAAGTAGGTC
1 GAA-A-GCAGATCTTT-TTCATGTATTGG-CGTGAAGTAGATC
2687241 GGAAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATC
1 -GAAAGCAGATCTT-T-TTCATGTATTGGCGTGAAGTAGATC
2687283 -AAAG
1 GAAAG
2687287 ATAGTTCTAT
Statistics
Matches: 70, Mismatches: 9, Indels: 16
0.74 0.09 0.17
Matches are distributed among these distances:
40 14 0.20
41 26 0.37
42 30 0.43
ACGTcount: A:0.29, C:0.12, G:0.28, T:0.31
Consensus pattern (39 bp):
GAAAGCAGATCTTTTTCATGTATTGGCGTGAAGTAGATC
Found at i:2687444 original size:44 final size:44
Alignment explanation
Indices: 2687396--2689717 Score: 502
Period size: 44 Copynumber: 53.5 Consensus size: 44
2687386 ACTGGTGGCG
*
2687396 AGTAGATCGAAGAAAGCAGATCTTATCTTCATGTATTGGCGTGA
1 AGTAGATCGAAGAAAGCAGATCTTATCTTCCTGTATTGGCGTGA
* * * *
2687440 AGTAGATCGAAG-ATGCAGAT-TCT-GCTTCCTATATTGGTAG-GA
1 AGTAGATCGAAGAAAGCAGATCT-TATCTTCCTGTATTGG-CGTGA
* * *
2687482 AGTAGGTCGAAGAAAGCAGATCTTGTCTTCATGTATTGGCGTGA
1 AGTAGATCGAAGAAAGCAGATCTTATCTTCCTGTATTGGCGTGA
* * * **
2687526 AGTAGATC-AA-AGA-TAGTTC-TATC-T-C-G----GGCAAGA
1 AGTAGATCGAAGAAAGCAGATCTTATCTTCCTGTATTGGCGTGA
* * * * * *
2687559 AGTAGATCGGAGATAGCTGATCCTATCTTCCTATATTGGTAG-GA
1 AGTAGATCGAAGAAAGCAGATCTTATCTTCCTGTATTGG-CGTGA
* * * * ** * *
2687603 AATGGATCGAAG-ATGCAGAT-TTGTCTTCCCATATTGGTGGCGA
1 AGTAGATCGAAGAAAGCAGATCTTATCTTCCTGTATTGG-CGTGA
*
2687646 AGTAGATCGAAGAAAGCAGATCTTATCTTCATGTATTGGCGTGA
1 AGTAGATCGAAGAAAGCAGATCTTATCTTCCTGTATTGGCGTGA
* ** * *
2687690 AGTAGATCGAAG-ATGCAGAT-TCTGCCTTCCTATATTGGTAG-GA
1 AGTAGATCGAAGAAAGCAGATCT-TATCTTCCTGTATTGG-CGTGA
* * *
2687733 AGTAGGTCGAAGAAAGCAGATCTTGTCTTCGTGTATTGGCGTGA
1 AGTAGATCGAAGAAAGCAGATCTTATCTTCCTGTATTGGCGTGA
* * * * **
2687777 AGTAGATC-AA-AGA-TAGTTC-TATC-TCC-G---GGGCAAGA
1 AGTAGATCGAAGAAAGCAGATCTTATCTTCCTGTATTGGCGTGA
* * * * *
2687812 AGTAGATCG-GGATAGCTGATCCTAT-TTCCT-TATTGGTAG-GA
1 AGTAGATCGAAGAAAGCAGATCTTATCTTCCTGTATTGG-CGTGA
* * * * ** * * *
2687853 AATGGATCGAAG-ATGCAGATCTTGTCTTCCCATACTGGTGGCGA
1 AGTAGATCGAAGAAAGCAGATCTTATCTTCCTGTATTGG-CGTGA
* *
2687897 AGTAGATCGAAGAAAGCAGATCTTATCTTCATGTATTGGAGTGA
1 AGTAGATCGAAGAAAGCAGATCTTATCTTCCTGTATTGGCGTGA
* ** * *
2687941 AGTAGATCGAAG-ATGCAGAT-TCTGCCTTCCTATATTGGTAG-GA
1 AGTAGATCGAAGAAAGCAGATCT-TATCTTCCTGTATTGG-CGTGA
* * *
2687984 AGTAGGTCGAAGAAAGCAGATCTTGTCTTCATGTATTGGCGTGA
1 AGTAGATCGAAGAAAGCAGATCTTATCTTCCTGTATTGGCGTGA
* * * * * **
2688028 AGTAGATC-AA-AGA-TAGTTC-TATC-TCCCG---GGGCAAGA
1 AGTAGATCGAAGAAAGCAGATCTTATCTTCCTGTATTGGCGTGA
* * * * * *
2688064 AGTAGATCGGAGATAGCTGATCCTATCTTCCTATATTGGTAG-GA
1 AGTAGATCGAAGAAAGCAGATCTTATCTTCCTGTATTGG-CGTGA
* * * * ** * *
2688108 AATGGATCGAAG--TGCAGATCTTGTCTTCCCATATTGGTGGCGA
1 AGTAGATCGAAGAAAGCAGATCTTATCTTCCTGTATTGG-CGTGA
* ** ** *
2688151 AGTAGATTGAAGATTGCAGATCTTGCCTTCCTGTATTTGGCAGCGA
1 AGTAGATCGAAGAAAGCAGATCTTATCTTCCTGTA-TTGGC-GTGA
* ** * * * * * * *
2688197 AGTAGGTCGAAGATGGCGGATTTTACCTCCCTG-ACT-ACAGTGG
1 AGTAGATCGAAGAAAGCAGATCTTATCTTCCTGTATTGGC-GTGA
* * * * *
2688240 AGTACATTGAAGCAA-TA-AT-TCTATCTCCCTGTATTTGGCAGTGGA
1 AGTAGATCGAAGAAAGCAGATCT-TATCTTCCTGTA-TTGGC-GT-GA
* * ** *
2688285 A-TAGATTGAA-AATTGCAGATCTTGCCTTCCTGTATTTGGCAGCGA
1 AGTAGATCGAAGAA-AGCAGATCTTATCTTCCTGTA-TTGGC-GTGA
* * ** * * * *** *
2688330 AGCAGATCAAAGATGGCAAATTTTA-CTCCCTG-A-CCACAGTGG
1 AGTAGATCGAAGAAAGCAGATCTTATCTTCCTGTATTGGC-GTGA
* * ** * *
2688372 AGTACATTGAAG-CCG-ATAAT-TCTATCTCCCTGTATTTGGCAGTGGA
1 AGTAGATCGAAGAAAGCA-GATCT-TATCTTCCTGTA-TTGGC-GT-GA
* ** ** *
2688418 A-TAGATTGAAGATTGCAGATCTTGCCTTCCTGTATTCGGCAGCGA
1 AGTAGATCGAAGAAAGCAGATCTTATCTTCCTGTATT-GGC-GTGA
* ** * * * * * *
2688463 AGTAGATCAAAGATGGCAGATTTTACCTCCCTG-ACT-ACAGTGG
1 AGTAGATCGAAGAAAGCAGATCTTATCTTCCTGTATTGGC-GTGA
** * * *
2688506 AGT--A-C-ATTAAAGCCGATAACTCTATCTCTCTATCTGGCATTTG-GTGGAA
1 AGTAGATCGAAGAAAGCAGAT--CT-TATCT-TC---CT-GTATTGGCGT-G-A
* ** * * * * *
2688555 TAGATTAAAGATCAAAGATGGCAGATTTTA-CTTCCCTG-ACT-ACATGGG
1 -AG--T--AGATCGAAGAAAGCAGATCTTATCTT-CCTGTATTGGCGT-GA
* ** * * *
2688603 AGTA-ATTGAAG-CCG-ATAACTCTATCTCCCTGTATTTGGCGTGGA
1 AGTAGATCGAAGAAAGCAGATCT-TATCTTCCTGTA-TTGGCGT-GA
** ** * ** **
2688647 A-TAGATTAAAGATTGTAGATCTTGCCTTCCTGTATTTGGCAGCAA
1 AGTAGATCGAAGAAAGCAGATCTTATCTTCCTGTA-TTGGC-GTGA
* ** * * * * *
2688692 AGCAGATCGAAGATGGCAGATTTTACCTCCCTG-ATT-AC-AGA
1 AGTAGATCGAAGAAAGCAGATCTTATCTTCCTGTATTGGCGTGA
* * * * ** * *
2688733 AGTGGATCGACG-ACGCAGATCTTGTCTTCCCATATTGGTGGCGA
1 AGTAGATCGAAGAAAGCAGATCTTATCTTCCTGTATTGG-CGTGA
* * *
2688777 AGTAGATCGCAGAAAGCAGATCTTGTCTTCATGTATTGGCGTGA
1 AGTAGATCGAAGAAAGCAGATCTTATCTTCCTGTATTGGCGTGA
* * * * * * **
2688821 AGTAGATCGAAGATAGTAAGGTCCTATTTTCCTATATTGATAG-GA
1 AGTAGATCGAAGAAAG-CAGATCTTATCTTCCTGTATTG-GCGTGA
* * * * ** * *
2688866 AGTGGATCCAAG-ATGCAGATCTTGTCTTCCCATATTGGTGGCGA
1 AGTAGATCGAAGAAAGCAGATCTTATCTTCCTGTATTGG-CGTGA
* * *
2688910 AGTAGATCGCAGAAAGCAGATCTTGTCTTCATGTATTGGCGTGA
1 AGTAGATCGAAGAAAGCAGATCTTATCTTCCTGTATTGGCGTGA
* * * * * * **
2688954 AGTAGATCGAAAGATAGTAGGTCCTATTTTCCTATATT-TAG-GA
1 AGTAGATCG-AAGAAAGCAGATCTTATCTTCCTGTATTGGCGTGA
* * * * ** * *
2688997 AGTGGATCCAAG-ATGCAGATCTTGTCTTCCCATATTGGTGGCGA
1 AGTAGATCGAAGAAAGCAGATCTTATCTTCCTGTATTGG-CGTGA
* * *
2689041 AGTAGATCGCAGAAAGCAGATCTTGTCTTCATGTATTGGCGTGA
1 AGTAGATCGAAGAAAGCAGATCTTATCTTCCTGTATTGGCGTGA
* * * *
2689085 AGTAGATCGAAGATATCAGATC-TAT-TTCCTATATTGGTAG-GA
1 AGTAGATCGAAGAAAGCAGATCTTATCTTCCTGTATTGG-CGTGA
* * * * * *
2689127 AGTGGATCGAAG-ATGCAGATCTTGTCTT-CTCATATTGGTGGCGA
1 AGTAGATCGAAGAAAGCAGATCTTATCTTCCT-GTATTGG-CGTGA
* * * ** * *
2689171 AGTAGATCGCAGAAA-AAGATCTTGTCTTCCCATATTGGTGGCGA
1 AGTAGATCGAAGAAAGCAGATCTTATCTTCCTGTATTGG-CGTGA
* *
2689215 AGTAGATCGAAGAAAGCAGATCTTGTCTTCATGTATTGGCGTGA
1 AGTAGATCGAAGAAAGCAGATCTTATCTTCCTGTATTGGCGTGA
* * * * *
2689259 AGTAGATCGAAGATATCAGATCCTATCTTCCTATATTGGTAG-GA
1 AGTAGATCGAAGAAAGCAGATCTTATCTTCCTGTATTGG-CGTGA
* * ** * *
2689303 AGT-GAATCGAAG-ATGCAGATCTTGTCTTCCCATATTGGTGGCGA
1 AGTAG-ATCGAAGAAAGCAGATCTTATCTTCCTGTATTGG-CGTGA
* * * ** * *
2689347 AGTAGATCGCAGAAAACAGA--TTGTCTTCCCATATTGGTGGCGA
1 AGTAGATCGAAGAAAGCAGATCTTATCTTCCTGTATTGG-CGTGA
*
2689390 AGTAGATCGAAGAAAGCAGATCTTAT-TTCATGTATTGGCGTGA
1 AGTAGATCGAAGAAAGCAGATCTTATCTTCCTGTATTGGCGTGA
* * * * *
2689433 AGTAGATCGAAGATATCAGATCCTATCTTCCTATATTGGTAG-GA
1 AGTAGATCGAAGAAAGCAGATCTTATCTTCCTGTATTGG-CGTGA
* * ** *
2689477 AGTAGATCGAAG-ATGCAGATCTTGTCTTCCCATATTGGTG-GCAA
1 AGTAGATCGAAGAAAGCAGATCTTATCTTCCTGTATTGGCGTG--A
* * * *
2689521 AGTAGATCGCAGAAA-CAGATCTTGTCTT-CTCATATTGGTG-GCAA
1 AGTAGATCGAAGAAAGCAGATCTTATCTTCCT-GTATTGGCGTG--A
* * *
2689565 AGTAGAT-GCAGAAAGCAGATCGTATCTTCATGTATTGGCGTGA
1 AGTAGATCGAAGAAAGCAGATCTTATCTTCCTGTATTGGCGTGA
* * * * * * *
2689608 AGTAGATCAAAGATAGCAGGTCCTGTCTTCCTATATTGGTAG-GA
1 AGTAGATCGAAGAAAGCAGATCTTATCTTCCTGTATTGG-CGTGA
* * * * * ** * *
2689652 AGTGGATCGACG-ATGCATATCTTGTCTTCCCATACTGGTGGTGA
1 AGTAGATCGAAGAAAGCAGATCTTATCTTCCTGTATTGG-CGTGA
*
2689696 AGTAGATCGAAGAAAGCCGATC
1 AGTAGATCGAAGAAAGCAGATC
2689718 GACGATGGCA
Statistics
Matches: 1666, Mismatches: 453, Indels: 317
0.68 0.19 0.13
Matches are distributed among these distances:
33 13 0.01
34 1 0.00
35 15 0.01
36 18 0.01
37 9 0.01
38 10 0.01
39 17 0.01
40 32 0.02
41 95 0.06
42 140 0.08
43 342 0.21
44 534 0.32
45 260 0.16
46 141 0.08
47 9 0.01
48 3 0.00
49 5 0.00
50 3 0.00
51 2 0.00
52 1 0.00
53 1 0.00
54 3 0.00
55 2 0.00
56 2 0.00
57 1 0.00
58 7 0.00
ACGTcount: A:0.28, C:0.17, G:0.25, T:0.30
Consensus pattern (44 bp):
AGTAGATCGAAGAAAGCAGATCTTATCTTCCTGTATTGGCGTGA
Found at i:2687703 original size:87 final size:88
Alignment explanation
Indices: 2687557--2689708 Score: 833
Period size: 87 Copynumber: 24.7 Consensus size: 88
2687547 TCTCGGGCAA
* * * * * * * *
2687557 GAAGTAGATCGGAGATAGCTGATCCTATCTTCCTATATTGGTAG-GAAATGGATCGAAGATGCAG
1 GAAGTAGATCGAAGAAAGCAGATCTTATCTTCCTGTATTGG-CGTGAAGTAGATCGAAGATGCAG
2687621 AT-TTGTCTTCCCATATTGGTGGC
65 ATCTTGTCTTCCCATATTGGTGGC
*
2687644 GAAGTAGATCGAAGAAAGCAGATCTTATCTTCATGTATTGGCGTGAAGTAGATCGAAGATGCAGA
1 GAAGTAGATCGAAGAAAGCAGATCTTATCTTCCTGTATTGGCGTGAAGTAGATCGAAGATGCAGA
* * *
2687709 T-TCTGCCTTCCTATATTGGTAG-
66 TCT-TGTCTTCCCATATTGGTGGC
* * * * *
2687731 GAAGTAGGTCGAAGAAAGCAGATCTTGTCTTCGTGTATTGGCGTGAAGTAGATCAAAGAT--AGT
1 GAAGTAGATCGAAGAAAGCAGATCTTATCTTCCTGTATTGGCGTGAAGTAGATCGAAGATGCAGA
*
2687794 TC-TATC-T-CC-----GG-GGC
66 TCTTGTCTTCCCATATTGGTGGC
* * * * * * *
2687808 AAGAAGTAGATCG-GGATAGCTGATCCTAT-TTCCT-TATTGGTAG-GAAATGGATCGAAGATGC
1 --GAAGTAGATCGAAGAAAGCAGATCTTATCTTCCTGTATTGG-CGTGAAGTAGATCGAAGATGC
*
2687869 AGATCTTGTCTTCCCATACTGGTGGC
63 AGATCTTGTCTTCCCATATTGGTGGC
* *
2687895 GAAGTAGATCGAAGAAAGCAGATCTTATCTTCATGTATTGGAGTGAAGTAGATCGAAGATGCAGA
1 GAAGTAGATCGAAGAAAGCAGATCTTATCTTCCTGTATTGGCGTGAAGTAGATCGAAGATGCAGA
* * *
2687960 T-TCTGCCTTCCTATATTGGTAG-
66 TCT-TGTCTTCCCATATTGGTGGC
* * * * *
2687982 GAAGTAGGTCGAAGAAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCAAAGAT--AGT
1 GAAGTAGATCGAAGAAAGCAGATCTTATCTTCCTGTATTGGCGTGAAGTAGATCGAAGATGCAGA
*
2688045 TC-TATC-TCCC-----GG-GGC
66 TCTTGTCTTCCCATATTGGTGGC
* * * * * * * *
2688060 AAGAAGTAGATCGGAGATAGCTGATCCTATCTTCCTATATTGGTAG-GAAATGGATCGAAG-TGC
1 --GAAGTAGATCGAAGAAAGCAGATCTTATCTTCCTGTATTGG-CGTGAAGTAGATCGAAGATGC
2688123 AGATCTTGTCTTCCCATATTGGTGGC
63 AGATCTTGTCTTCCCATATTGGTGGC
* ** ** * *
2688149 GAAGTAGATTGAAGATTGCAGATCTTGCCTTCCTGTATTTGGCAGCGAAGTAGGTCGAAGATGGC
1 GAAGTAGATCGAAGAAAGCAGATCTTATCTTCCTGTA-TTGGC-GTGAAGTAGATCGAAGAT-GC
* * **
2688214 GGAT-TT-TACCTCCC-TGACTACAGT-G-
63 AGATCTTGT-CTTCCCAT-A-T-TGGTGGC
* * * * * * *
2688239 G-AGTACATTGAAGCAA-TA-AT-TCTATCTCCCTGTATTTGGCAGTGGAA-TAGATTGAAAATT
1 GAAGTAGATCGAAGAAAGCAGATCT-TATCTTCCTGTA-TTGGC-GT-GAAGTAGATCGAAGA-T
* ** **
2688299 GCAGATCTTGCCTTCCTGTATTTGGCAGC
61 GCAGATCTTGTCTTCCCATA-TTGGTGGC
* * ** * * * *** * * * *
2688328 GAAGCAGATCAAAGATGGCAAATTTTA-CTCCCTG-A-CCACAGTGGAGTACATTG-A-A-GCCG
1 GAAGTAGATCGAAGAAAGCAGATCTTATCTTCCTGTATTGGC-GTGAAGTAGATCGAAGATGCAG
* * * * *
2688387 ATAATTCTATCTCCCTGTATTTGGCAGTG-
65 AT-CTTGTCT-TCCC-ATA-TTGG-TG-GC
* ** ** * *
2688416 GAA-TAGATTGAAGATTGCAGATCTTGCCTTCCTGTATTCGGCAGCGAAGTAGATCAAAGATGGC
1 GAAGTAGATCGAAGAAAGCAGATCTTATCTTCCTGTATT-GGC-GTGAAGTAGATCGAAGAT-GC
* **
2688480 AGAT-TT-TACCTCCC-TGACTACAGT-G-
63 AGATCTTGT-CTTCCCAT-A-T-TGGTGGC
** * * *
2688505 G-AGT--A-C-ATTAAAGCCGATAACTCTATCTCTCTATCTGGCATTTG-GTGGAATAGATTAAA
1 GAAGTAGATCGAAGAAAGCAGAT--CT-TATCT-TC---CT-GTATTGGCGT-G-A-AG--T--A
* ***
2688564 GATCAAAGATGGCAGAT-TT-TACTTCCC-TGACTACATGG-
51 GATCGAAGAT-GCAGATCTTGT-CTTCCCAT-A-TTGGTGGC
* ** * * * **
2688602 G-AGTA-ATTGAAG-CCG-ATAACTCTATCTCCCTGTATTTGGCGTGGAA-TAGATTAAAGATTG
1 GAAGTAGATCGAAGAAAGCAGATCT-TATCTTCCTGTA-TTGGCGT-GAAGTAGATCGAAGA-TG
* * ** **
2688662 TAGATCTTGCCTTCCTGTATTTGGCAGC
62 CAGATCTTGTCTTCCCATA-TTGGTGGC
* * ** * * * * * * * *
2688690 AAAGCAGATCGAAGATGGCAGATTTTACCTCCCTG-ATT-AC-AGAAGTGGATCGACGACGCAGA
1 GAAGTAGATCGAAGAAAGCAGATCTTATCTTCCTGTATTGGCGTGAAGTAGATCGAAGATGCAGA
2688752 TCTTGTCTTCCCATATTGGTGGC
66 TCTTGTCTTCCCATATTGGTGGC
* * * *
2688775 GAAGTAGATCGCAGAAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAGTAA
1 GAAGTAGATCGAAGAAAGCAGATCTTATCTTCCTGTATTGGCGTGAAGTAGATCGAAGAT-G-CA
* * * * * * *
2688840 GGTCCTATTTTCCTATATTGATAG-
64 GATCTTGTCTTCCCATATTGGTGGC
* * * * ** * * * *
2688864 GAAGTGGATCCAAG-ATGCAGATCTTGTCTTCCCATATTGGTGGCGAAGTAGATCGCAGAAAGCA
1 GAAGTAGATCGAAGAAAGCAGATCTTATCTTCCTGTATTGG-CGTGAAGTAGATCGAAG-ATGCA
*** * *
2688928 GATCTTGTCTTCATGTATTGG-CGT
64 GATCTTGTCTTCCCATATTGGTGGC
* * * * * * ** * *
2688952 GAAGTAGATCGAAAGATAGTAGGTCCTATTTTCCTATATT-TAG-GAAGTGGATCCAAGATGCAG
1 GAAGTAGATCG-AAGAAAGCAGATCTTATCTTCCTGTATTGGCGTGAAGTAGATCGAAGATGCAG
2689015 ATCTTGTCTTCCCATATTGGTGGC
65 ATCTTGTCTTCCCATATTGGTGGC
* * * *
2689039 GAAGTAGATCGCAGAAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATATCAG
1 GAAGTAGATCGAAGAAAGCAGATCTTATCTTCCTGTATTGGCGTGAAGTAGATCGAAGAT-GCAG
* * *
2689104 ATC-TAT-TTCCTATATTGGTAG-
65 ATCTTGTCTTCCCATATTGGTGGC
* * * * * * * ***
2689125 GAAGTGGATCGAAG-ATGCAGATCTTGTCTT-CTCATATTGGTGGCGAAGTAGATCGCAGAAAAA
1 GAAGTAGATCGAAGAAAGCAGATCTTATCTTCCT-GTATTGG-CGTGAAGTAGATCGAAGATGCA
2689188 GATCTTGTCTTCCCATATTGGTGGC
64 GATCTTGTCTTCCCATATTGGTGGC
* * *
2689213 GAAGTAGATCGAAGAAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATATCAG
1 GAAGTAGATCGAAGAAAGCAGATCTTATCTTCCTGTATTGGCGTGAAGTAGATCGAAGAT-GCAG
* * * *
2689278 ATCCTATCTTCCTATATTGGTAG-
65 ATCTTGTCTTCCCATATTGGTGGC
* * ** * * * **
2689301 GAAGT-GAATCGAAG-ATGCAGATCTTGTCTTCCCATATTGGTGGCGAAGTAGATCGCAGAAAAC
1 GAAGTAG-ATCGAAGAAAGCAGATCTTATCTTCCTGTATTGG-CGTGAAGTAGATCGAAG-ATGC
2689364 AGA--TTGTCTTCCCATATTGGTGGC
63 AGATCTTGTCTTCCCATATTGGTGGC
* *
2689388 GAAGTAGATCGAAGAAAGCAGATCTTAT-TTCATGTATTGGCGTGAAGTAGATCGAAGATATCAG
1 GAAGTAGATCGAAGAAAGCAGATCTTATCTTCCTGTATTGGCGTGAAGTAGATCGAAGAT-GCAG
* * * *
2689452 ATCCTATCTTCCTATATTGGTAG-
65 ATCTTGTCTTCCCATATTGGTGGC
* * ** * * **
2689475 GAAGTAGATCGAAG-ATGCAGATCTTGTCTTCCCATATTGGTG-GCAAAGTAGATCGCAGAAACA
1 GAAGTAGATCGAAGAAAGCAGATCTTATCTTCCTGTATTGGCGTG--AAGTAGATCGAAGATGCA
*
2689538 GATCTTGTCTTCTCATATTGGTGGC
64 GATCTTGTCTTCCCATATTGGTGGC
* * * * *
2689563 AAAGTAGAT-GCAGAAAGCAGATCGTATCTTCATGTATTGGCGTGAAGTAGATCAAAGATAGCAG
1 GAAGTAGATCGAAGAAAGCAGATCTTATCTTCCTGTATTGGCGTGAAGTAGATCGAAGAT-GCAG
* * * *
2689627 GTCCTGTCTTCCTATATTGGTAG-
65 ATCTTGTCTTCCCATATTGGTGGC
* * * * * ** * *
2689650 GAAGTGGATCGACG-ATGCATATCTTGTCTTCCCATACTGGTGGTGAAGTAGATCGAAGA
1 GAAGTAGATCGAAGAAAGCAGATCTTATCTTCCTGTATTGG-CGTGAAGTAGATCGAAGA
2689709 AAGCCGATCG
Statistics
Matches: 1529, Mismatches: 388, Indels: 295
0.69 0.18 0.13
Matches are distributed among these distances:
76 20 0.01
77 8 0.01
78 17 0.01
79 14 0.01
80 45 0.03
81 7 0.00
82 4 0.00
83 8 0.01
84 10 0.01
85 85 0.06
86 172 0.11
87 469 0.31
88 347 0.23
89 121 0.08
90 64 0.04
91 41 0.03
92 26 0.02
93 14 0.01
95 7 0.00
96 9 0.01
97 37 0.02
98 2 0.00
99 1 0.00
100 1 0.00
ACGTcount: A:0.28, C:0.17, G:0.25, T:0.30
Consensus pattern (88 bp):
GAAGTAGATCGAAGAAAGCAGATCTTATCTTCCTGTATTGGCGTGAAGTAGATCGAAGATGCAGA
TCTTGTCTTCCCATATTGGTGGC
Found at i:2687730 original size:251 final size:253
Alignment explanation
Indices: 2686898--2688211 Score: 2059
Period size: 251 Copynumber: 5.3 Consensus size: 253
2686888 GTTCTATTGG
*
2686898 GGCGAAGTAGATCGAAG-AAGCAG---TTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATGC
1 GGCGAAGTAGATCGAAGAAAGCAGATCTTATCTTCATGTATTGGCGTGAAGTAGATCGAAGATGC
* *** *
2686959 AGA-TCT-CTTCCTATATTGGTAGGAAGT-GGATCG-AGAACGCAGATCTTGTCTTCCCATACTG
66 AGATTCTGCTTCCTATATTGGTAGGAAGTAGG-TCGAAGAAAGCAGATCTTGTCTTCATGTATTG
* * ** * * * * * **
2687020 GTGGCGAAGTAGATCGCAGAAAAGATCTTGTCTTC-TGGCGTGAAGTAGAT-GGAGATAGCTG-T
130 G-CGTGAAGTAGATCAAAG-ATAGTTC-TATCTCCGGGGCAAGAAGTAGATCGGAGATAGCTGAT
* *
2687082 CCTATCTTCCTATATTGGTAGG-AATGGATCGACGACGCAGATCTTGTCTTTCCCATACTGGT
192 CCTATCTTCCTATATTGGTAGGAAATGGATCGAAGATGCAGATCTTGTC-TTCCCATACTGGT
2687144 GGCGAAGTAGATCGAAGAAAGCAGATCTTAT-TTCATGTATTGGCGTGAAGTAGATCGAAGATGC
1 GGCGAAGTAGATCGAAGAAAGCAGATCTTATCTTCATGTATTGGCGTGAAGTAGATCGAAGATGC
*
2687208 AGATTTTG-TTCCTATATTGGTAGGAAGTAGGTCG--GAAAGCAGATCTTGTCTTCATGTATTGG
66 AGATTCTGCTTCCTATATTGGTAGGAAGTAGGTCGAAGAAAGCAGATCTTGTCTTCATGTATTGG
2687270 CGTGAAGTAGATCAAAGATAGTTCTATCTCCCGGGGCAAGAAGTAGATCGGAGATAGCTGATCCT
131 CGTGAAGTAGATCAAAGATAGTTCTATCT-CCGGGGCAAGAAGTAGATCGGAGATAGCTGATCCT
2687335 ATCTTCCTAT-TTGGTAGGAAATGGATCGAAGATGCA-ATCTTGTCTTCCCATACTGGT
195 ATCTTCCTATATTGGTAGGAAATGGATCGAAGATGCAGATCTTGTCTTCCCATACTGGT
2687392 GGCG-AGTAGATCGAAGAAAGCAGATCTTATCTTCATGTATTGGCGTGAAGTAGATCGAAGATGC
1 GGCGAAGTAGATCGAAGAAAGCAGATCTTATCTTCATGTATTGGCGTGAAGTAGATCGAAGATGC
2687456 AGATTCTGCTTCCTATATTGGTAGGAAGTAGGTCGAAGAAAGCAGATCTTGTCTTCATGTATTGG
66 AGATTCTGCTTCCTATATTGGTAGGAAGTAGGTCGAAGAAAGCAGATCTTGTCTTCATGTATTGG
2687521 CGTGAAGTAGATCAAAGATAGTTCTATCT-C-GGGCAAGAAGTAGATCGGAGATAGCTGATCCTA
131 CGTGAAGTAGATCAAAGATAGTTCTATCTCCGGGGCAAGAAGTAGATCGGAGATAGCTGATCCTA
*
2687584 TCTTCCTATATTGGTAGGAAATGGATCGAAGATGCAGAT-TTGTCTTCCCATATTGGT
196 TCTTCCTATATTGGTAGGAAATGGATCGAAGATGCAGATCTTGTCTTCCCATACTGGT
2687641 GGCGAAGTAGATCGAAGAAAGCAGATCTTATCTTCATGTATTGGCGTGAAGTAGATCGAAGATGC
1 GGCGAAGTAGATCGAAGAAAGCAGATCTTATCTTCATGTATTGGCGTGAAGTAGATCGAAGATGC
*
2687706 AGATTCTGCCTTCCTATATTGGTAGGAAGTAGGTCGAAGAAAGCAGATCTTGTCTTCGTGTATTG
66 AGATTCTG-CTTCCTATATTGGTAGGAAGTAGGTCGAAGAAAGCAGATCTTGTCTTCATGTATTG
2687771 GCGTGAAGTAGATCAAAGATAGTTCTATCTCCGGGGCAAGAAGTAGATCGG-GATAGCTGATCCT
130 GCGTGAAGTAGATCAAAGATAGTTCTATCTCCGGGGCAAGAAGTAGATCGGAGATAGCTGATCCT
2687835 AT-TTCCT-TATTGGTAGGAAATGGATCGAAGATGCAGATCTTGTCTTCCCATACTGGT
195 ATCTTCCTATATTGGTAGGAAATGGATCGAAGATGCAGATCTTGTCTTCCCATACTGGT
*
2687892 GGCGAAGTAGATCGAAGAAAGCAGATCTTATCTTCATGTATTGGAGTGAAGTAGATCGAAGATGC
1 GGCGAAGTAGATCGAAGAAAGCAGATCTTATCTTCATGTATTGGCGTGAAGTAGATCGAAGATGC
2687957 AGATTCTGCCTTCCTATATTGGTAGGAAGTAGGTCGAAGAAAGCAGATCTTGTCTTCATGTATTG
66 AGATTCTG-CTTCCTATATTGGTAGGAAGTAGGTCGAAGAAAGCAGATCTTGTCTTCATGTATTG
2688022 GCGTGAAGTAGATCAAAGATAGTTCTATCTCCCGGGGCAAGAAGTAGATCGGAGATAGCTGATCC
130 GCGTGAAGTAGATCAAAGATAGTTCTATCT-CCGGGGCAAGAAGTAGATCGGAGATAGCTGATCC
*
2688087 TATCTTCCTATATTGGTAGGAAATGGATCGAAG-TGCAGATCTTGTCTTCCCATATTGGT
194 TATCTTCCTATATTGGTAGGAAATGGATCGAAGATGCAGATCTTGTCTTCCCATACTGGT
* ** ** * * *
2688146 GGCGAAGTAGATTGAAGATTGCAGATCTTGCCTTCCTGTATTTGGCAGCGAAGTAGGTCGAAGAT
1 GGCGAAGTAGATCGAAGAAAGCAGATCTTATCTTCATGTA-TTGGC-GTGAAGTAGATCGAAGAT
2688211 G
64 G
2688212 GCGGATTTTA
Statistics
Matches: 1003, Mismatches: 36, Indels: 48
0.92 0.03 0.04
Matches are distributed among these distances:
246 21 0.02
247 38 0.04
248 124 0.12
249 160 0.16
250 158 0.16
251 324 0.32
252 37 0.04
253 33 0.03
254 64 0.06
255 27 0.03
256 17 0.02
ACGTcount: A:0.28, C:0.16, G:0.27, T:0.29
Consensus pattern (253 bp):
GGCGAAGTAGATCGAAGAAAGCAGATCTTATCTTCATGTATTGGCGTGAAGTAGATCGAAGATGC
AGATTCTGCTTCCTATATTGGTAGGAAGTAGGTCGAAGAAAGCAGATCTTGTCTTCATGTATTGG
CGTGAAGTAGATCAAAGATAGTTCTATCTCCGGGGCAAGAAGTAGATCGGAGATAGCTGATCCTA
TCTTCCTATATTGGTAGGAAATGGATCGAAGATGCAGATCTTGTCTTCCCATACTGGT
Found at i:2688172 original size:167 final size:169
Alignment explanation
Indices: 2687396--2688210 Score: 565
Period size: 164 Copynumber: 4.9 Consensus size: 169
2687386 ACTGGTGGCG
* * * *
2687396 AGTAGATCGAAGAAAGCAGATCTTATCTTCATGTATTGGCGTGAAGTAGATCGAAGATGCAGATT
1 AGTAGATCGAAGAAAGCAGATCCTATCTTCATATATTGGAGTGAAATAGATCGAAGATGCAGATT
* * *
2687461 CTG-CTTCCTATATTGGTAGGAAGTAGGTCGAAGAAAGCAGATCTTGTCTTCATGTA-TTGGC-G
66 CTGCCTTCCCATATTGGTAGGAAGTAGATCGAAGAAAGCAGATCTTGCCTTCATGTATTTGGCAG
*
2687523 TGAAGTAGATCAAAGATAGTTCTATCT--C-GGGCAAGA
131 CGAAGTAGATCAAAGATAGTTCTATCTCCCGGGGCAAGA
* * * * *
2687559 AGTAGATCGGAGATAGCTGATCCTATCTTCCTATATTGGTAG-GAAATGGATCGAAGATGCAGAT
1 AGTAGATCGAAGAAAGCAGATCCTATCTTCATATATTGG-AGTGAAATAGATCGAAGATGCAGAT
* * **
2687623 T-TGTCTTCCCATATTGGTGGCGAAGTAGATCGAAGAAAGCAGATCTTATCTTCATGTA-TTGGC
65 TCTGCCTTCCCATATTGGTAG-GAAGTAGATCGAAGAAAGCAGATCTTGCCTTCATGTATTTGGC
* * ** *** * *
2687686 -GTGAAGTAGATCGAAGATGCAGATTCTGCCTTCCTATATTGGTAGGA
129 AGCGAAGTAGATCAAAGAT--AG-TTCTATC-TCC---CGGGGCAAGA
* * * * * * * *
2687733 AGTAGGTCGAAGAAAGCAGATCTTGTCTTCGTGTATTGGCGTGAAGTAGATCAAAGAT--AG-TT
1 AGTAGATCGAAGAAAGCAGATCCTATCTTCATATATTGGAGTGAAATAGATCGAAGATGCAGATT
** ** * * * * * * ** * *
2687795 CTATC-T-CC---GGGGCAAGAAGTAGATCG-GGATAGCTGATCCT-ATTTCCT-TA-TTGGTAG
66 CTGCCTTCCCATATTGGTAGGAAGTAGATCGAAGAAAGCAGATCTTGCCTTCATGTATTTGGCAG
* * * * *
2687851 -GAAATGGATCGAAGATGCAGATCTTGTCTTCCCATACTGGTGGC--GA
131 CGAAGTAGATCAAAGAT--AGTTC-TATC-T-CC---C-GG-GGCAAGA
* * *
2687897 AGTAGATCGAAGAAAGCAGATCTTATCTTCATGTATTGGAGTGAAGTAGATCGAAGATGCAGATT
1 AGTAGATCGAAGAAAGCAGATCCTATCTTCATATATTGGAGTGAAATAGATCGAAGATGCAGATT
* * *
2687962 CTGCCTTCCTATATTGGTAGGAAGTAGGTCGAAGAAAGCAGATCTTGTCTTCATGTA-TTGGC-G
66 CTGCCTTCCCATATTGGTAGGAAGTAGATCGAAGAAAGCAGATCTTGCCTTCATGTATTTGGCAG
*
2688025 TGAAGTAGATCAAAGATAGTTCTATCTCCCGGGGCAAGA
131 CGAAGTAGATCAAAGATAGTTCTATCTCCCGGGGCAAGA
* * * * *
2688064 AGTAGATCGGAGATAGCTGATCCTATCTTCCTATATTGGTAG-GAAATGGATCGAAG-TGCAGA-
1 AGTAGATCGAAGAAAGCAGATCCTATCTTCATATATTGG-AGTGAAATAGATCGAAGATGCAGAT
* * * ** *
2688126 TCTTGTCTTCCCATATTGGTGGCGAAGTAGATTGAAGATTGCAGATCTTGCCTTCCTGTATTTGG
65 TC-TGCCTTCCCATATTGGTAG-GAAGTAGATCGAAGAAAGCAGATCTTGCCTTCATGTATTTGG
* *
2688191 CAGCGAAGTAGGTCGAAGAT
128 CAGCGAAGTAGATCAAAGAT
2688211 GGCGGATTTT
Statistics
Matches: 510, Mismatches: 103, Indels: 72
0.74 0.15 0.11
Matches are distributed among these distances:
162 4 0.01
163 97 0.19
164 120 0.24
165 15 0.03
166 41 0.08
167 91 0.18
168 9 0.02
169 16 0.03
170 4 0.01
171 4 0.01
172 21 0.04
173 15 0.03
174 54 0.11
175 19 0.04
ACGTcount: A:0.28, C:0.15, G:0.27, T:0.29
Consensus pattern (169 bp):
AGTAGATCGAAGAAAGCAGATCCTATCTTCATATATTGGAGTGAAATAGATCGAAGATGCAGATT
CTGCCTTCCCATATTGGTAGGAAGTAGATCGAAGAAAGCAGATCTTGCCTTCATGTATTTGGCAG
CGAAGTAGATCAAAGATAGTTCTATCTCCCGGGGCAAGA
Found at i:2688328 original size:133 final size:134
Alignment explanation
Indices: 2688153--2688533 Score: 649
Period size: 133 Copynumber: 2.9 Consensus size: 134
2688143 GGTGGCGAAG
* * *
2688153 TAGATTGAAGATTGCAGATCTTGCCTTCCTGTATTTGGCAGCGAAGTAGGTCGAAGATGGCGGAT
1 TAGATTGAAGATTGCAGATCTTGCCTTCCTGTATTTGGCAGCGAAGTAGATCAAAGATGGCAGAT
*
2688218 TTTACCTCCCTGACTACAGTGGAGTACATTGAAG-CAATAATTCTATCTCCCTGTATTTGGCAGT
66 TTTACCTCCCTGACTACAGTGGAGTACATTGAAGCCGATAATTCTATCTCCCTGTATTTGGCAGT
2688282 GGAA
131 GGAA
* * *
2688286 TAGATTGAAAATTGCAGATCTTGCCTTCCTGTATTTGGCAGCGAAGCAGATCAAAGATGGCAAAT
1 TAGATTGAAGATTGCAGATCTTGCCTTCCTGTATTTGGCAGCGAAGTAGATCAAAGATGGCAGAT
*
2688351 TTTA-CTCCCTGACCACAGTGGAGTACATTGAAGCCGATAATTCTATCTCCCTGTATTTGGCAGT
66 TTTACCTCCCTGACTACAGTGGAGTACATTGAAGCCGATAATTCTATCTCCCTGTATTTGGCAGT
2688415 GGAA
131 GGAA
*
2688419 TAGATTGAAGATTGCAGATCTTGCCTTCCTGTATTCGGCAGCGAAGTAGATCAAAGATGGCAGAT
1 TAGATTGAAGATTGCAGATCTTGCCTTCCTGTATTTGGCAGCGAAGTAGATCAAAGATGGCAGAT
* *
2688484 TTTACCTCCCTGACTACAGTGGAGTACATTAAAGCCGATAACTCTATCTC
66 TTTACCTCCCTGACTACAGTGGAGTACATTGAAGCCGATAATTCTATCTC
2688534 TCTATCTGGC
Statistics
Matches: 231, Mismatches: 15, Indels: 3
0.93 0.06 0.01
Matches are distributed among these distances:
132 28 0.12
133 161 0.70
134 42 0.18
ACGTcount: A:0.28, C:0.20, G:0.23, T:0.30
Consensus pattern (134 bp):
TAGATTGAAGATTGCAGATCTTGCCTTCCTGTATTTGGCAGCGAAGTAGATCAAAGATGGCAGAT
TTTACCTCCCTGACTACAGTGGAGTACATTGAAGCCGATAATTCTATCTCCCTGTATTTGGCAGT
GGAA
Found at i:2688469 original size:46 final size:46
Alignment explanation
Indices: 2688147--2688495 Score: 140
Period size: 46 Copynumber: 7.8 Consensus size: 46
2688137 CATATTGGTG
*
2688147 GCGAAGTAGATTGAAGATTGCAGATCTTGCCTTCCTGTATTTGGCA
1 GCGAAGTAGATTGAAGATTGCAGATCTTGCCTCCCTGTATTTGGCA
* * * * * * * *
2688193 GCGAAGTAGGTCGAAGATGGCGGATTTTACCTCCCTG-A-CT-ACA
1 GCGAAGTAGATTGAAGATTGCAGATCTTGCCTCCCTGTATTTGGCA
* * * *
2688236 GTGGAGTACATTGAAGCAAT--A-ATTCTAT--CTCCCTGTATTTGGCA
1 GCGAAGTAGATTGAAG-ATTGCAGA-TCT-TGCCTCCCTGTATTTGGCA
* * *
2688280 GTGGAA-TAGATTGAAAATTGCAGATCTTGCCTTCCTGTATTTGGCA
1 G-CGAAGTAGATTGAAGATTGCAGATCTTGCCTCCCTGTATTTGGCA
* ** * * ** ***
2688326 GCGAAGCAGATCAAAGATGGCAAAT-TTTACTCCCTG-A--CCACA
1 GCGAAGTAGATTGAAGATTGCAGATCTTGCCTCCCTGTATTTGGCA
* * * ** *
2688368 GTGGAGTACATTGAAG-CCG-ATAATTCTAT--CTCCCTGTATTTGGCA
1 GCGAAGTAGATTGAAGATTGCA-GA-TCT-TGCCTCCCTGTATTTGGCA
* * *
2688413 GTGGAA-TAGATTGAAGATTGCAGATCTTGCCTTCCTGTATTCGGCA
1 G-CGAAGTAGATTGAAGATTGCAGATCTTGCCTCCCTGTATTTGGCA
** * * *
2688459 GCGAAGTAGATCAAAGATGGCAGATTTTACCTCCCTG
1 GCGAAGTAGATTGAAGATTGCAGATCTTGCCTCCCTG
2688496 ACTACAGTGG
Statistics
Matches: 212, Mismatches: 65, Indels: 52
0.64 0.20 0.16
Matches are distributed among these distances:
40 1 0.00
41 11 0.05
42 23 0.11
43 19 0.09
44 17 0.08
45 36 0.17
46 104 0.49
47 1 0.00
ACGTcount: A:0.27, C:0.20, G:0.24, T:0.30
Consensus pattern (46 bp):
GCGAAGTAGATTGAAGATTGCAGATCTTGCCTCCCTGTATTTGGCA
Found at i:2689095 original size:131 final size:131
Alignment explanation
Indices: 2688731--2689717 Score: 1005
Period size: 131 Copynumber: 7.5 Consensus size: 131
2688721 CCTGATTACA
* *
2688731 GAAGTGGATCGACGACGCAGATCTTGTCTTCCCATATTGGTGGCGAAGTAGATCGCAGAAAGCAG
1 GAAGTGGATCGAAGATGCAGATCTTGTCTTCCCATATTGGTGGCGAAGTAGATCGCAGAAAGCAG
* * * *
2688796 ATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAGTAAGGTCCTATTTTCCTATATTGA
66 ATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAG-CAGATCCTGTCTTCCTATATTG-
2688861 TAG
129 TAG
*
2688864 GAAGTGGATCCAAGATGCAGATCTTGTCTTCCCATATTGGTGGCGAAGTAGATCGCAGAAAGCAG
1 GAAGTGGATCGAAGATGCAGATCTTGTCTTCCCATATTGGTGGCGAAGTAGATCGCAGAAAGCAG
* * * *
2688929 ATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAAGATAGTAGGTCCTATTTTCCTATATT-T
66 ATCTTGTCTTCATGTATTGGCGTGAAGTAGATCG-AAGATAGCAGATCCTGTCTTCCTATATTGT
2688993 AG
130 AG
*
2688995 GAAGTGGATCCAAGATGCAGATCTTGTCTTCCCATATTGGTGGCGAAGTAGATCGCAGAAAGCAG
1 GAAGTGGATCGAAGATGCAGATCTTGTCTTCCCATATTGGTGGCGAAGTAGATCGCAGAAAGCAG
* *
2689060 ATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATATCAGAT-CTAT-TTCCTATATTGGT
66 ATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAGCAGATCCTGTCTTCCTATATT-GT
2689123 AG
130 AG
* *
2689125 GAAGTGGATCGAAGATGCAGATCTTGTCTTCTCATATTGGTGGCGAAGTAGATCGCAGAAA-AAG
1 GAAGTGGATCGAAGATGCAGATCTTGTCTTCCCATATTGGTGGCGAAGTAGATCGCAGAAAGCAG
*** * * * * * * *
2689189 ATCTTGTCTTCCCATATTGGTGGCGAAGTAGATCGAAGAAAGCAGATCTTGTCTTCATGTATTGG
66 ATCTTGTCTTCATGTATTGG-CGTGAAGTAGATCGAAGATAGCAGATCCTGTCTTCCTATATTGT
*
2689254 CG
130 AG
* * * * * * * *
2689256 TGAAGTAGATCGAAGATATCAGATCCTATCTTCCTATATTGGTAG-GAAGT-GAATCGAAG-ATG
1 -GAAGTGGATCGAAGAT-GCAGATCTTGTCTTCCCATATTGGTGGCGAAGTAG-ATCGCAGAAAG
*** * * * * * *
2689318 CAGATCTTGTCTTCCCATATTGGTGGCGAAGTAGATCGCAGAAAACAGAT--TGTCTTCCCATAT
63 CAGATCTTGTCTTCATGTATTGG-CGTGAAGTAGATCGAAGATAGCAGATCCTGTCTTCCTATAT
*
2689381 TGGTGG
127 T-GTAG
* * * *** * * * * *
2689387 CGAAGTAGATCGAAGAAAGCAGATCTTAT-TTCATGTATTGG-CGTGAAGTAGATCGAAGATATC
1 -GAAGTGGATCGAAG-ATGCAGATCTTGTCTTCCCATATTGGTGGCGAAGTAGATCGCAGAAAGC
* * * * * * *
2689450 AGATCCTATCTTCCTATATTGGTAG-GAAGTAGATCGAAGAT-GCAGATCTTGTCTTCCCATATT
64 AGATCTTGTCTTCATGTATTGG-CGTGAAGTAGATCGAAGATAGCAGATCCTGTCTTCCTATATT
2689513 GGT-G
128 -GTAG
* * ** * *
2689517 GCAAAGTAGATCGCAGAAACAGATCTTGTCTTCTCATATTGGTGGCAAAGTAGAT-GCAGAAAGC
1 G--AAGTGGATCGAAGATGCAGATCTTGTCTTCCCATATTGGTGGCGAAGTAGATCGCAGAAAGC
* * * *
2689581 AGATCGTATCTTCATGTATTGGCGTGAAGTAGATCAAAGATAGCAGGTCCTGTCTTCCTATATTG
64 AGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAGCAGATCCTGTCTTCCTATATT-
2689646 GTAG
128 GTAG
* * * * * *
2689650 GAAGTGGATCGACGATGCATATCTTGTCTTCCCATACTGGTGGTGAAGTAGATCGAAGAAAGCCG
1 GAAGTGGATCGAAGATGCAGATCTTGTCTTCCCATATTGGTGGCGAAGTAGATCGCAGAAAGCAG
2689715 ATC
66 ATC
2689718 GACGATGGCA
Statistics
Matches: 740, Mismatches: 89, Indels: 51
0.84 0.10 0.06
Matches are distributed among these distances:
128 10 0.01
129 30 0.04
130 153 0.21
131 276 0.37
132 125 0.17
133 139 0.19
134 7 0.01
ACGTcount: A:0.28, C:0.16, G:0.26, T:0.30
Consensus pattern (131 bp):
GAAGTGGATCGAAGATGCAGATCTTGTCTTCCCATATTGGTGGCGAAGTAGATCGCAGAAAGCAG
ATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAGCAGATCCTGTCTTCCTATATTGTA
G
Found at i:2689204 original size:174 final size:176
Alignment explanation
Indices: 2689013--2689710 Score: 1156
Period size: 174 Copynumber: 4.0 Consensus size: 176
2689003 TCCAAGATGC
* *
2689013 AGATCTTGTCTTCCCATATTGGTGGCGAAGTAGATCGCAGAAAGCAGATCTTGTCTTCATGTATT
1 AGATCTTGTCTTCCCATATTGGTGGCGAAGTAGATCGAAGAAAGCAGATCTTATCTTCATGTATT
2689078 GGCGTGAAGTAGATCGAAGATATCAGAT-CTAT-TTCCTATATTGGTAGGAAGTGGATCGAAGAT
66 GGCGTGAAGTAGATCGAAGATATCAGATCCTATCTTCCTATATTGGTAGGAAGTGGATCGAAGAT
*
2689141 GCAGATCTTGTCTTCTCATATTGGTGGCGAAGTAGATCGCAGAAAA
131 GCAGATCTTGTCTTCCCATATTGGTGGCGAAGTAGATCGCAGAAAA
*
2689187 AGATCTTGTCTTCCCATATTGGTGGCGAAGTAGATCGAAGAAAGCAGATCTTGTCTTCATGTATT
1 AGATCTTGTCTTCCCATATTGGTGGCGAAGTAGATCGAAGAAAGCAGATCTTATCTTCATGTATT
*
2689252 GGCGTGAAGTAGATCGAAGATATCAGATCCTATCTTCCTATATTGGTAGGAAGTGAATCGAAGAT
66 GGCGTGAAGTAGATCGAAGATATCAGATCCTATCTTCCTATATTGGTAGGAAGTGGATCGAAGAT
2689317 GCAGATCTTGTCTTCCCATATTGGTGGCGAAGTAGATCGCAGAAAA
131 GCAGATCTTGTCTTCCCATATTGGTGGCGAAGTAGATCGCAGAAAA
2689363 CAGA--TTGTCTTCCCATATTGGTGGCGAAGTAGATCGAAGAAAGCAGATCTTAT-TTCATGTAT
1 -AGATCTTGTCTTCCCATATTGGTGGCGAAGTAGATCGAAGAAAGCAGATCTTATCTTCATGTAT
*
2689425 TGGCGTGAAGTAGATCGAAGATATCAGATCCTATCTTCCTATATTGGTAGGAAGTAGATCGAAGA
65 TGGCGTGAAGTAGATCGAAGATATCAGATCCTATCTTCCTATATTGGTAGGAAGTGGATCGAAGA
* *
2689490 TGCAGATCTTGTCTTCCCATATTGGTGGCAAAGTAGATCGCAGAAAC
130 TGCAGATCTTGTCTTCCCATATTGGTGGCGAAGTAGATCGCAGAAAA
* * * *
2689537 AGATCTTGTCTTCTCATATTGGTGGCAAAGTAGAT-GCAGAAAGCAGATCGTATCTTCATGTATT
1 AGATCTTGTCTTCCCATATTGGTGGCGAAGTAGATCGAAGAAAGCAGATCTTATCTTCATGTATT
* * * * *
2689601 GGCGTGAAGTAGATCAAAGATAGCAGGTCCTGTCTTCCTATATTGGTAGGAAGTGGATCGACGAT
66 GGCGTGAAGTAGATCGAAGATATCAGATCCTATCTTCCTATATTGGTAGGAAGTGGATCGAAGAT
* * * *
2689666 GCATATCTTGTCTTCCCATACTGGTGGTGAAGTAGATCGAAGAAA
131 GCAGATCTTGTCTTCCCATATTGGTGGCGAAGTAGATCGCAGAAA
2689711 GCCGATCGAC
Statistics
Matches: 495, Mismatches: 23, Indels: 11
0.94 0.04 0.02
Matches are distributed among these distances:
173 3 0.01
174 225 0.45
175 189 0.38
176 75 0.15
177 3 0.01
ACGTcount: A:0.29, C:0.16, G:0.25, T:0.30
Consensus pattern (176 bp):
AGATCTTGTCTTCCCATATTGGTGGCGAAGTAGATCGAAGAAAGCAGATCTTATCTTCATGTATT
GGCGTGAAGTAGATCGAAGATATCAGATCCTATCTTCCTATATTGGTAGGAAGTGGATCGAAGAT
GCAGATCTTGTCTTCCCATATTGGTGGCGAAGTAGATCGCAGAAAA
Found at i:2691305 original size:3 final size:3
Alignment explanation
Indices: 2691292--2691378 Score: 56
Period size: 3 Copynumber: 29.3 Consensus size: 3
2691282 TTTATATTTT
*
2691292 TTA TT- TTA TTA TTA TTA TTA -TA TTA TTTA CTA -TA TTA TCT- TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA -TTA TTA TTA TTA T-TA TTA
* * * * * *
2691335 CTA TTA TTG TTA GTA TTA TTA CTA CTTA TTA TTA CTA TCA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA -TTA TTA TTA TTA TTA TTA T
2691379 ATTTATACCC
Statistics
Matches: 64, Mismatches: 13, Indels: 14
0.70 0.14 0.15
Matches are distributed among these distances:
2 7 0.11
3 51 0.80
4 6 0.09
ACGTcount: A:0.30, C:0.08, G:0.02, T:0.60
Consensus pattern (3 bp):
TTA
Found at i:2697604 original size:13 final size:14
Alignment explanation
Indices: 2697581--2697613 Score: 52
Period size: 13 Copynumber: 2.5 Consensus size: 14
2697571 TAGATTGGGT
2697581 TTCTT-TTGTATTC
1 TTCTTGTTGTATTC
2697594 TT-TTGTTGTATTC
1 TTCTTGTTGTATTC
2697607 TTCTTGT
1 TTCTTGT
2697614 AGTGTATAGT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
12 2 0.11
13 12 0.67
14 4 0.22
ACGTcount: A:0.06, C:0.12, G:0.12, T:0.70
Consensus pattern (14 bp):
TTCTTGTTGTATTC
Found at i:2711992 original size:25 final size:25
Alignment explanation
Indices: 2711932--2712002 Score: 65
Period size: 25 Copynumber: 2.8 Consensus size: 25
2711922 TTATATCAAT
*
2711932 AAATAAATTAA-TTTTTTTAGTTAAA
1 AAATAAATTAATTTTTTTTA-ATAAA
* *
2711957 AAATTAA-TAATTTTTTTTAATAAT
1 AAATAAATTAATTTTTTTTAATAAA
* *
2711981 GAATAAATTAATCATTTTTTAA
1 AAATAAATTAAT-TTTTTTTAA
2712003 AAATTTTAAA
Statistics
Matches: 37, Mismatches: 6, Indels: 5
0.77 0.12 0.10
Matches are distributed among these distances:
24 11 0.30
25 18 0.49
26 8 0.22
ACGTcount: A:0.46, C:0.01, G:0.03, T:0.49
Consensus pattern (25 bp):
AAATAAATTAATTTTTTTTAATAAA
Found at i:2715054 original size:35 final size:35
Alignment explanation
Indices: 2715008--2715080 Score: 128
Period size: 35 Copynumber: 2.1 Consensus size: 35
2714998 GCTACAGTAT
*
2715008 TTTATTAATAAAAAACAGCATCGCTTTATTTGTCC
1 TTTATTAATAAAAAACAGCATCACTTTATTTGTCC
*
2715043 TTTATTAATAAAAAATAGCATCACTTTATTTGTCC
1 TTTATTAATAAAAAACAGCATCACTTTATTTGTCC
2715078 TTT
1 TTT
2715081 TTTACTCAAT
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
35 36 1.00
ACGTcount: A:0.34, C:0.15, G:0.07, T:0.44
Consensus pattern (35 bp):
TTTATTAATAAAAAACAGCATCACTTTATTTGTCC
Found at i:2717858 original size:31 final size:32
Alignment explanation
Indices: 2717823--2717891 Score: 81
Period size: 31 Copynumber: 2.2 Consensus size: 32
2717813 TTATAAAATG
2717823 GTCACTA-AACTATTC-AAATGTTTTCATTCAA
1 GTCACTATAACTATTCGAAA-GTTTTCATTCAA
** *
2717854 GTCAC-ATAACTATTCGAAAGTTTTTGTTTAA
1 GTCACTATAACTATTCGAAAGTTTTCATTCAA
2717885 GTCACTA
1 GTCACTA
2717892 GACAATGAAG
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
30 1 0.03
31 27 0.84
32 4 0.12
ACGTcount: A:0.33, C:0.17, G:0.10, T:0.39
Consensus pattern (32 bp):
GTCACTATAACTATTCGAAAGTTTTCATTCAA
Found at i:2720192 original size:33 final size:33
Alignment explanation
Indices: 2720150--2720216 Score: 107
Period size: 33 Copynumber: 2.0 Consensus size: 33
2720140 TTTATGTTTA
** *
2720150 TCTAAAGTAACCCTAATGATTTTGTATGACTTT
1 TCTAAAGTAACCAAAATGACTTTGTATGACTTT
2720183 TCTAAAGTAACCAAAATGACTTTGTATGACTTT
1 TCTAAAGTAACCAAAATGACTTTGTATGACTTT
2720216 T
1 T
2720217 TATGGAGATG
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
33 31 1.00
ACGTcount: A:0.33, C:0.15, G:0.12, T:0.40
Consensus pattern (33 bp):
TCTAAAGTAACCAAAATGACTTTGTATGACTTT
Found at i:2723443 original size:18 final size:19
Alignment explanation
Indices: 2723402--2723443 Score: 50
Period size: 18 Copynumber: 2.3 Consensus size: 19
2723392 CTTTATCATG
* *
2723402 CATTTTTTCCTTTTATCTC
1 CATTTTTTCCTTATATCCC
*
2723421 TATTTTTT-CTTATATCCC
1 CATTTTTTCCTTATATCCC
2723439 CATTT
1 CATTT
2723444 CTATGCAATC
Statistics
Matches: 19, Mismatches: 4, Indels: 1
0.79 0.17 0.04
Matches are distributed among these distances:
18 12 0.63
19 7 0.37
ACGTcount: A:0.14, C:0.24, G:0.00, T:0.62
Consensus pattern (19 bp):
CATTTTTTCCTTATATCCC
Found at i:2724224 original size:29 final size:31
Alignment explanation
Indices: 2724187--2724246 Score: 88
Period size: 31 Copynumber: 2.0 Consensus size: 31
2724177 TGTGTATGTA
* *
2724187 TAAAATTTTAATA-AA-TAAAAAATATATAT
1 TAAAATTTTAAAAGAATTAAAAAATAGATAT
2724216 TAAAATTTTAAAAGAATTAAAAAATAGATAT
1 TAAAATTTTAAAAGAATTAAAAAATAGATAT
2724247 AAATTAACTA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
29 12 0.44
30 2 0.07
31 13 0.48
ACGTcount: A:0.62, C:0.00, G:0.03, T:0.35
Consensus pattern (31 bp):
TAAAATTTTAAAAGAATTAAAAAATAGATAT
Found at i:2729169 original size:30 final size:30
Alignment explanation
Indices: 2729134--2729190 Score: 114
Period size: 30 Copynumber: 1.9 Consensus size: 30
2729124 CGTAATGAAA
2729134 AAAAGGATATTCATATATGATAGTACGTAG
1 AAAAGGATATTCATATATGATAGTACGTAG
2729164 AAAAGGATATTCATATATGATAGTACG
1 AAAAGGATATTCATATATGATAGTACG
2729191 CATACGAGAG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.44, C:0.07, G:0.19, T:0.30
Consensus pattern (30 bp):
AAAAGGATATTCATATATGATAGTACGTAG
Found at i:2733199 original size:55 final size:53
Alignment explanation
Indices: 2732972--2733202 Score: 162
Period size: 55 Copynumber: 4.2 Consensus size: 53
2732962 GTTTGGATTG
* * * * *
2732972 AATCGAATGTTATGCT-AGAATATT-C-TTTTCAATCGATTGTTTTTTATGTTTA
1 AATCGATTGTTATGTTGA-AATATTACTTTTTTAATAGATTG-TTTATATGTTTA
** * * * * *
2733024 AATAAATTATCATGTTGAAATGTTATTTCTTTTAAATAGATTATTTATATGTTTA
1 AATCGATTGTTATGTTGAAATATTACTT-TTTT-AATAGATTGTTTATATGTTTA
* * * *
2733079 AATCGATTGTTATGATGGAATACTACTTCCTTTTTTAATTGATTGTTTATATATTTA
1 AATCGATTGTTATG-TTGAA-A-TA-TTACTTTTTTAATAGATTGTTTATATGTTTA
* * * *
2733136 AATGGATTGTTATGTTGAAATATTGCTTATTTTGAATAAATTGTTTATATGTTCA
1 AATCGATTGTTATGTTGAAATATTACTT-TTTT-AATAGATTGTTTATATGTTTA
*
2733191 AATTGATTGTTA
1 AATCGATTGTTA
2733203 CATAACAAGT
Statistics
Matches: 137, Mismatches: 31, Indels: 19
0.73 0.17 0.10
Matches are distributed among these distances:
52 15 0.11
53 6 0.04
54 7 0.05
55 53 0.39
56 15 0.11
57 32 0.23
58 5 0.04
59 4 0.03
ACGTcount: A:0.31, C:0.06, G:0.13, T:0.50
Consensus pattern (53 bp):
AATCGATTGTTATGTTGAAATATTACTTTTTTAATAGATTGTTTATATGTTTA
Found at i:2733695 original size:190 final size:189
Alignment explanation
Indices: 2733372--2733752 Score: 672
Period size: 190 Copynumber: 2.0 Consensus size: 189
2733362 ATCTCACCCC
*
2733372 TTCAATATGCTTTTCCACGTCCAAGAGTCGGGTGATCATCTCTGCACGTCTAGAAATTTTTTATT
1 TTCAATATGCTTTTCCACGTCCAAGAGTCGGGTGATCATCTCTGCACATCTAGAAATTTTTTATT
* * *
2733437 AGAGCAGTATTTAGTTAAGAACGTAGCATGGGCCACAGCATGTAGCCTTGTGAGTATTCATCAGG
66 AGAGCAGTATTTAGTTAAGAACGTAGCATGAGCCACAGCATGCAACCTTGTGAGTATTCATCAGG
2733502 CTTGTTTGCAAAGAACTGCATCGTTCATTACTTCAGCTTAACGGATGTCCAATCCATCCT
131 CTTGTTTGCAAAGAACTGCATCGTTCATTA-TTCAGCTTAACGGATGTCCAATCCATCCT
*
2733562 TTCAATATGCTTTTCCACGTCCAAGAGTCGGGTGATCATCTCTGTACATCTAGAAATTTTTTATT
1 TTCAATATGCTTTTCCACGTCCAAGAGTCGGGTGATCATCTCTGCACATCTAGAAATTTTTTATT
*
2733627 AGAGTAGTATTTAGTTAAGAACGTAGCATGAGCCACAGCATGCAACCTTGTGAGTATTCATCAGG
66 AGAGCAGTATTTAGTTAAGAACGTAGCATGAGCCACAGCATGCAACCTTGTGAGTATTCATCAGG
* * *
2733692 CTTGTTTGCAAAGAAGTGCATCGTTCATTATTCAGCTTAACGGATGTCGAATCTATCCT
131 CTTGTTTGCAAAGAACTGCATCGTTCATTATTCAGCTTAACGGATGTCCAATCCATCCT
2733751 TT
1 TT
2733753 TGTTTTCACC
Statistics
Matches: 182, Mismatches: 9, Indels: 1
0.95 0.05 0.01
Matches are distributed among these distances:
189 29 0.16
190 153 0.84
ACGTcount: A:0.27, C:0.20, G:0.20, T:0.34
Consensus pattern (189 bp):
TTCAATATGCTTTTCCACGTCCAAGAGTCGGGTGATCATCTCTGCACATCTAGAAATTTTTTATT
AGAGCAGTATTTAGTTAAGAACGTAGCATGAGCCACAGCATGCAACCTTGTGAGTATTCATCAGG
CTTGTTTGCAAAGAACTGCATCGTTCATTATTCAGCTTAACGGATGTCCAATCCATCCT
Found at i:2742970 original size:14 final size:13
Alignment explanation
Indices: 2742951--2742980 Score: 51
Period size: 14 Copynumber: 2.2 Consensus size: 13
2742941 TCTACTTCGT
2742951 TTTTGTTTCTTTTG
1 TTTTGTTTC-TTTG
2742965 TTTTGTTTCTTTG
1 TTTTGTTTCTTTG
2742978 TTT
1 TTT
2742981 CTTTAATTCT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 7 0.44
14 9 0.56
ACGTcount: A:0.00, C:0.07, G:0.13, T:0.80
Consensus pattern (13 bp):
TTTTGTTTCTTTG
Found at i:2745432 original size:14 final size:14
Alignment explanation
Indices: 2745408--2745441 Score: 52
Period size: 13 Copynumber: 2.4 Consensus size: 14
2745398 TCTCTACTTC
2745408 GTTTCTGTTTCTTTT
1 GTTTCTGTTTC-TTT
2745423 GTTT-TGTTTCTTT
1 GTTTCTGTTTCTTT
2745436 GTTTCT
1 GTTTCT
2745442 TTAATTCTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
13 7 0.39
14 7 0.39
15 4 0.22
ACGTcount: A:0.00, C:0.12, G:0.15, T:0.74
Consensus pattern (14 bp):
GTTTCTGTTTCTTT
Found at i:2751383 original size:14 final size:14
Alignment explanation
Indices: 2751359--2751392 Score: 52
Period size: 13 Copynumber: 2.4 Consensus size: 14
2751349 TCTCTACTTC
2751359 GTTTCTGTTTCTTTT
1 GTTTCTGTTTC-TTT
2751374 GTTT-TGTTTCTTT
1 GTTTCTGTTTCTTT
2751387 GTTTCT
1 GTTTCT
2751393 TTAATTCTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
13 7 0.39
14 7 0.39
15 4 0.22
ACGTcount: A:0.00, C:0.12, G:0.15, T:0.74
Consensus pattern (14 bp):
GTTTCTGTTTCTTT
Found at i:2761759 original size:41 final size:41
Alignment explanation
Indices: 2761697--2761775 Score: 113
Period size: 41 Copynumber: 1.9 Consensus size: 41
2761687 TTTCAAGTTT
* *
2761697 TTTTTAATTAATGTTTATAATTAATAAATTTTTTATTTTTA
1 TTTTTAATTAATCTTTATAATTAATAAATATTTTATTTTTA
* * *
2761738 TTTTTAATTCATCTTTTTAATTAATAACTATTTTATTT
1 TTTTTAATTAATCTTTATAATTAATAAATATTTTATTT
2761776 ATAAAATCAA
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
41 33 1.00
ACGTcount: A:0.32, C:0.04, G:0.01, T:0.63
Consensus pattern (41 bp):
TTTTTAATTAATCTTTATAATTAATAAATATTTTATTTTTA
Found at i:2761836 original size:15 final size:15
Alignment explanation
Indices: 2761807--2761845 Score: 51
Period size: 15 Copynumber: 2.5 Consensus size: 15
2761797 AAATATAATT
2761807 ATTTTTAGTAAATATA
1 ATTTTTA-TAAATATA
*
2761823 ATTTTTATATATATA
1 ATTTTTATAAATATA
*
2761838 ATATTTAT
1 ATTTTTAT
2761846 TTTTCAATTC
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
15 14 0.67
16 7 0.33
ACGTcount: A:0.41, C:0.00, G:0.03, T:0.56
Consensus pattern (15 bp):
ATTTTTATAAATATA
Found at i:2761843 original size:17 final size:18
Alignment explanation
Indices: 2761797--2761843 Score: 55
Period size: 16 Copynumber: 2.7 Consensus size: 18
2761787 TAATTATTGC
2761797 AAATATAATTATTTTTAGT
1 AAATATAA-TATTTTTAGT
2761816 AAATAT-A-ATTTTTA-T
1 AAATATAATATTTTTAGT
*
2761831 ATATATAATATTT
1 AAATATAATATTT
2761844 ATTTTTCAAT
Statistics
Matches: 25, Mismatches: 1, Indels: 6
0.78 0.03 0.19
Matches are distributed among these distances:
15 6 0.24
16 8 0.32
17 4 0.16
18 1 0.04
19 6 0.24
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.53
Consensus pattern (18 bp):
AAATATAATATTTTTAGT
Found at i:2762106 original size:22 final size:22
Alignment explanation
Indices: 2762076--2762117 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
2762066 AATACTTTAT
*
2762076 TAATGATATAATTATTATTAAA
1 TAATAATATAATTATTATTAAA
**
2762098 TAATAATATTTTTATTATTA
1 TAATAATATAATTATTATTA
2762118 TGTAGGTTGT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 17 1.00
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.52
Consensus pattern (22 bp):
TAATAATATAATTATTATTAAA
Found at i:2763785 original size:23 final size:23
Alignment explanation
Indices: 2763741--2763785 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
2763731 ATTAATATTT
* *
2763741 ATATTATTAAACTATATTTAATA
1 ATATTACTAAACTATATATAATA
2763764 ATATTACT-AACTATAATATAAT
1 ATATTACTAAACTAT-ATATAAT
2763786 TGAATTTATT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
22 6 0.32
23 13 0.68
ACGTcount: A:0.49, C:0.07, G:0.00, T:0.44
Consensus pattern (23 bp):
ATATTACTAAACTATATATAATA
Found at i:2766712 original size:32 final size:32
Alignment explanation
Indices: 2766666--2766728 Score: 117
Period size: 32 Copynumber: 2.0 Consensus size: 32
2766656 TCAACTTTGT
*
2766666 ATACTAATTTTAATTAAATTATATAATATTTC
1 ATACCAATTTTAATTAAATTATATAATATTTC
2766698 ATACCAATTTTAATTAAATTATATAATATTT
1 ATACCAATTTTAATTAAATTATATAATATTT
2766729 ATTATTAATT
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.44, C:0.06, G:0.00, T:0.49
Consensus pattern (32 bp):
ATACCAATTTTAATTAAATTATATAATATTTC
Found at i:2767066 original size:11 final size:11
Alignment explanation
Indices: 2767052--2767091 Score: 53
Period size: 11 Copynumber: 3.6 Consensus size: 11
2767042 GTTTTCTCCT
2767052 TATTTTGCTAC
1 TATTTTGCTAC
* *
2767063 TATTTTACTAT
1 TATTTTGCTAC
*
2767074 TATGTTGCTAC
1 TATTTTGCTAC
2767085 TATTTTG
1 TATTTTG
2767092 TTGTTATTGT
Statistics
Matches: 23, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
11 23 1.00
ACGTcount: A:0.20, C:0.12, G:0.10, T:0.57
Consensus pattern (11 bp):
TATTTTGCTAC
Found at i:2767336 original size:12 final size:12
Alignment explanation
Indices: 2767315--2767348 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
2767305 TATATATTTT
*
2767315 AAAATTATATAA
1 AAAATAATATAA
2767327 AAAATAATATAA
1 AAAATAATATAA
*
2767339 AAATTAATAT
1 AAAATAATAT
2767349 GGGCGGGCCG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (12 bp):
AAAATAATATAA
Found at i:2770454 original size:22 final size:22
Alignment explanation
Indices: 2770429--2770525 Score: 97
Period size: 22 Copynumber: 4.5 Consensus size: 22
2770419 AGAGCATTAT
*
2770429 AGTGCTAAACAGAGAGTACCGA
1 AGTGCTAAACAGAGAGCACCGA
* *
2770451 AGTGCCAAGCAGAGAGCACC-A
1 AGTGCTAAACAGAGAGCACCGA
* * * *
2770472 AATGCTAAGCAAACAGCACCGA
1 AGTGCTAAACAGAGAGCACCGA
* *
2770494 AGTGCTAAATAGAGAGCACCAA
1 AGTGCTAAACAGAGAGCACCGA
*
2770516 AGTGCAAAAC
1 AGTGCTAAAC
2770526 TCGTACAAGC
Statistics
Matches: 59, Mismatches: 15, Indels: 2
0.78 0.20 0.03
Matches are distributed among these distances:
21 17 0.29
22 42 0.71
ACGTcount: A:0.43, C:0.23, G:0.24, T:0.10
Consensus pattern (22 bp):
AGTGCTAAACAGAGAGCACCGA
Found at i:2770479 original size:43 final size:44
Alignment explanation
Indices: 2770429--2770525 Score: 115
Period size: 43 Copynumber: 2.2 Consensus size: 44
2770419 AGAGCATTAT
* * * *
2770429 AGTGCTAAACAGAGAGTACCGAAGTGCCAAGCAGAGAGCACCAA
1 AGTGCTAAACAAACAGCACCGAAGTGCCAAACAGAGAGCACCAA
* * *
2770473 A-TGCTAAGCAAACAGCACCGAAGTGCTAAATAGAGAGCACCAA
1 AGTGCTAAACAAACAGCACCGAAGTGCCAAACAGAGAGCACCAA
*
2770516 AGTGCAAAAC
1 AGTGCTAAAC
2770526 TCGTACAAGC
Statistics
Matches: 43, Mismatches: 9, Indels: 2
0.80 0.17 0.04
Matches are distributed among these distances:
43 36 0.84
44 7 0.16
ACGTcount: A:0.43, C:0.23, G:0.24, T:0.10
Consensus pattern (44 bp):
AGTGCTAAACAAACAGCACCGAAGTGCCAAACAGAGAGCACCAA
Found at i:2776754 original size:17 final size:17
Alignment explanation
Indices: 2776732--2776765 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
2776722 CTTCCTTTTT
2776732 GACTCTTTAATAAACGA
1 GACTCTTTAATAAACGA
2776749 GACTCTTTAATAAACGA
1 GACTCTTTAATAAACGA
2776766 AGTTGTGATC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.41, C:0.18, G:0.12, T:0.29
Consensus pattern (17 bp):
GACTCTTTAATAAACGA
Found at i:2779158 original size:23 final size:22
Alignment explanation
Indices: 2779131--2779177 Score: 60
Period size: 22 Copynumber: 2.1 Consensus size: 22
2779121 TTATTTGTTT
2779131 ATTGTATA-ATTTAATTTTAAAAA
1 ATTGTATATATTT--TTTTAAAAA
*
2779154 ATTGTGTATATTTTTTTAAAAA
1 ATTGTATATATTTTTTTAAAAA
2779176 AT
1 AT
2779178 AAAATTAAGT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
22 11 0.50
23 7 0.32
24 4 0.18
ACGTcount: A:0.43, C:0.00, G:0.06, T:0.51
Consensus pattern (22 bp):
ATTGTATATATTTTTTTAAAAA
Found at i:2782561 original size:16 final size:16
Alignment explanation
Indices: 2782540--2782574 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
2782530 TAAAGTGAAA
*
2782540 AGAAAATAGGAAGGAT
1 AGAAAATAGGAAGAAT
*
2782556 AGAAAATTGGAAGAAT
1 AGAAAATAGGAAGAAT
2782572 AGA
1 AGA
2782575 TCAATAGAAA
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:0.57, C:0.00, G:0.29, T:0.14
Consensus pattern (16 bp):
AGAAAATAGGAAGAAT
Found at i:2811493 original size:25 final size:27
Alignment explanation
Indices: 2811445--2811495 Score: 70
Period size: 27 Copynumber: 2.0 Consensus size: 27
2811435 TAAATAAAAA
* *
2811445 ATTTTAAAAATATAATAAATCAAATAT
1 ATTTAAAAAACATAATAAATCAAATAT
2811472 ATTTAAAAAACATAA-AAA-CAAATA
1 ATTTAAAAAACATAATAAATCAAATA
2811496 CTAAAACAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
25 6 0.27
26 3 0.14
27 13 0.59
ACGTcount: A:0.65, C:0.06, G:0.00, T:0.29
Consensus pattern (27 bp):
ATTTAAAAAACATAATAAATCAAATAT
Found at i:2811503 original size:12 final size:12
Alignment explanation
Indices: 2811486--2811525 Score: 50
Period size: 12 Copynumber: 3.6 Consensus size: 12
2811476 AAAAAACATA
2811486 AAAACAAATACT
1 AAAACAAATACT
2811498 AAAACAAATA--
1 AAAACAAATACT
*
2811508 AAAA-TAATACT
1 AAAACAAATACT
2811519 AAAACAA
1 AAAACAA
2811526 TTTTTAAAAC
Statistics
Matches: 23, Mismatches: 2, Indels: 6
0.74 0.06 0.19
Matches are distributed among these distances:
9 4 0.17
10 4 0.17
11 4 0.17
12 11 0.48
ACGTcount: A:0.72, C:0.12, G:0.00, T:0.15
Consensus pattern (12 bp):
AAAACAAATACT
Found at i:2811508 original size:22 final size:22
Alignment explanation
Indices: 2811475--2811525 Score: 70
Period size: 21 Copynumber: 2.4 Consensus size: 22
2811465 CAAATATATT
2811475 TAAAA-AACATAAAAACAAATAC
1 TAAAACAACATAAAAA-AAATAC
*
2811497 TAAAACAA-ATAAAAATAATAC
1 TAAAACAACATAAAAAAAATAC
2811518 TAAAACAA
1 TAAAACAA
2811526 TTTTTAAAAC
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
21 13 0.48
22 12 0.44
23 2 0.07
ACGTcount: A:0.73, C:0.12, G:0.00, T:0.16
Consensus pattern (22 bp):
TAAAACAACATAAAAAAAATAC
Found at i:2814554 original size:21 final size:20
Alignment explanation
Indices: 2814530--2814569 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 20
2814520 TAGTTGTTAG
*
2814530 GAAGCTAAGTTTCAAGACTTA
1 GAAGCTAAGTCTCAA-ACTTA
2814551 GAAGCTAAGTCTCAAACTT
1 GAAGCTAAGTCTCAAACTT
2814570 GGAGGTAAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 4 0.22
21 14 0.78
ACGTcount: A:0.38, C:0.17, G:0.17, T:0.28
Consensus pattern (20 bp):
GAAGCTAAGTCTCAAACTTA
Found at i:2820781 original size:8 final size:9
Alignment explanation
Indices: 2820760--2820785 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
2820750 TAAATTTTAA
2820760 AAAAAATTC
1 AAAAAATTC
2820769 AAAAAATTC
1 AAAAAATTC
2820778 AAAAAATT
1 AAAAAATT
2820786 ATTCTTTAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.69, C:0.08, G:0.00, T:0.23
Consensus pattern (9 bp):
AAAAAATTC
Found at i:2821196 original size:21 final size:21
Alignment explanation
Indices: 2821154--2821196 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
2821144 ATCAACTCTG
* *
2821154 TTAAACATTAAATAATATTTT
1 TTAAACAATAAATAATAATTT
*
2821175 TTAAACAATAAATATTAATTT
1 TTAAACAATAAATAATAATTT
2821196 T
1 T
2821197 AAATTAATTT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.49, C:0.05, G:0.00, T:0.47
Consensus pattern (21 bp):
TTAAACAATAAATAATAATTT
Found at i:2823043 original size:13 final size:13
Alignment explanation
Indices: 2823025--2823056 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
2823015 TTTCCAGCAA
2823025 TTATGAATTTATT
1 TTATGAATTTATT
2823038 TTATGAATTTATT
1 TTATGAATTTATT
*
2823051 TGATGA
1 TTATGA
2823057 TGATCCAAGC
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:0.31, C:0.00, G:0.12, T:0.56
Consensus pattern (13 bp):
TTATGAATTTATT
Found at i:2823264 original size:50 final size:50
Alignment explanation
Indices: 2823151--2823392 Score: 297
Period size: 50 Copynumber: 4.7 Consensus size: 50
2823141 ATTTGGGTAA
* * *
2823151 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCTTAAGATCATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCA-CC--GAGA-C--G
*
2823207 AGAGGTCCCCTGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
* * *
2823257 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
* * *
2823307 AGAGGTCCCCTATAAGACCATGTCTGGGACATGGCATGGGCACC-ATCACG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGA-GACG
**
2823357 AGAACATCCCATGTAAGACCATGTCTGGGACATGGC
1 AG-AGGTCCCATGTAAGACCATGTCTGGGACATGGC
2823393 TTTGGCATGT
Statistics
Matches: 166, Mismatches: 18, Indels: 9
0.86 0.09 0.05
Matches are distributed among these distances:
49 1 0.01
50 91 0.55
51 29 0.17
52 1 0.01
53 3 0.02
55 2 0.01
56 39 0.23
ACGTcount: A:0.26, C:0.24, G:0.29, T:0.20
Consensus pattern (50 bp):
AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
Found at i:2823340 original size:100 final size:103
Alignment explanation
Indices: 2823151--2823400 Score: 364
Period size: 100 Copynumber: 2.4 Consensus size: 103
2823141 ATTTGGGTAA
2823151 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCTTAAGATCATGAGAGGTCCC
1 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCC---AGATCATGAGAGGTCCC
* *
2823216 CTGTAAGACCATGTCTGGGACATGGCATGGGCACCGA-GACG
63 CTATAAGACCATGTCTGGGACATGGCATGGGCACC-ATCACG
* * *
2823257 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCA-CC-GA-GATGAGAGGTCCCCTA
1 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCAGATCATGAGAGGTCCCCTA
2823319 TAAGACCATGTCTGGGACATGGCATGGGCACCATCACG
66 TAAGACCATGTCTGGGACATGGCATGGGCACCATCACG
* *
2823357 AGAACATCCCATGTAAGACCATGTCTGGGACATGGCTTTGGCAT
1 AG-AGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCAT
2823401 GTTATTATCA
Statistics
Matches: 133, Mismatches: 8, Indels: 10
0.88 0.05 0.07
Matches are distributed among these distances:
99 1 0.01
100 51 0.38
101 39 0.29
105 2 0.02
106 40 0.30
ACGTcount: A:0.26, C:0.24, G:0.29, T:0.21
Consensus pattern (103 bp):
AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCAGATCATGAGAGGTCCCCTA
TAAGACCATGTCTGGGACATGGCATGGGCACCATCACG
Found at i:2830163 original size:13 final size:13
Alignment explanation
Indices: 2830145--2830176 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
2830135 TTTCCAGCAA
2830145 TTATGAATTTATT
1 TTATGAATTTATT
2830158 TTATGAATTTATT
1 TTATGAATTTATT
*
2830171 TGATGA
1 TTATGA
2830177 TGATCCAAGC
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:0.31, C:0.00, G:0.12, T:0.56
Consensus pattern (13 bp):
TTATGAATTTATT
Found at i:2830384 original size:50 final size:50
Alignment explanation
Indices: 2830271--2830512 Score: 306
Period size: 50 Copynumber: 4.7 Consensus size: 50
2830261 ATTTGGGTAA
* * *
2830271 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCTTAAGATCATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCA-CC--GAGA-C--G
*
2830327 AGAGGTCCCCTGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
* *
2830377 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
* * *
2830427 AGAGGTCCCCTATAAGACCATGTCTGGGACATGGCATGGGCACC-ATCACG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGA-GACG
**
2830477 AGAACATCCCATGTAAGACCATGTCTGGGACATGGC
1 AG-AGGTCCCATGTAAGACCATGTCTGGGACATGGC
2830513 TTTGGCATGT
Statistics
Matches: 168, Mismatches: 16, Indels: 9
0.87 0.08 0.05
Matches are distributed among these distances:
49 1 0.01
50 93 0.55
51 29 0.17
52 1 0.01
53 3 0.02
55 2 0.01
56 39 0.23
ACGTcount: A:0.27, C:0.24, G:0.29, T:0.20
Consensus pattern (50 bp):
AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
Found at i:2830455 original size:100 final size:103
Alignment explanation
Indices: 2830271--2830520 Score: 373
Period size: 100 Copynumber: 2.4 Consensus size: 103
2830261 ATTTGGGTAA
2830271 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCTTAAGATCATGAGAGGTCCC
1 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCC---AGATCATGAGAGGTCCC
* *
2830336 CTGTAAGACCATGTCTGGGACATGGCATGGGCACCGA-GACG
63 CTATAAGACCATGTCTGGGACATGGCATGGGCACC-ATCACG
* *
2830377 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA-CC-GA-GATGAGAGGTCCCCTA
1 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCAGATCATGAGAGGTCCCCTA
2830439 TAAGACCATGTCTGGGACATGGCATGGGCACCATCACG
66 TAAGACCATGTCTGGGACATGGCATGGGCACCATCACG
* *
2830477 AGAACATCCCATGTAAGACCATGTCTGGGACATGGCTTTGGCAT
1 AG-AGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCAT
2830521 GTTATTATCA
Statistics
Matches: 134, Mismatches: 7, Indels: 10
0.89 0.05 0.07
Matches are distributed among these distances:
99 1 0.01
100 51 0.38
101 39 0.29
105 2 0.01
106 41 0.31
ACGTcount: A:0.26, C:0.24, G:0.29, T:0.21
Consensus pattern (103 bp):
AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCAGATCATGAGAGGTCCCCTA
TAAGACCATGTCTGGGACATGGCATGGGCACCATCACG
Found at i:2835260 original size:20 final size:19
Alignment explanation
Indices: 2835235--2835278 Score: 54
Period size: 19 Copynumber: 2.3 Consensus size: 19
2835225 GGACTAAATT
2835235 AAAAATATATAAATTTATG-G
1 AAAAAT-TATAAATTT-TGTG
*
2835255 AAAAATTCTAAATTTTGTG
1 AAAAATTATAAATTTTGTG
2835274 AAAAA
1 AAAAA
2835279 CATGGGCTGC
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
18 2 0.09
19 14 0.64
20 6 0.27
ACGTcount: A:0.55, C:0.02, G:0.09, T:0.34
Consensus pattern (19 bp):
AAAAATTATAAATTTTGTG
Found at i:2835802 original size:24 final size:24
Alignment explanation
Indices: 2835775--2835824 Score: 59
Period size: 24 Copynumber: 2.1 Consensus size: 24
2835765 AGCGTCTCAT
2835775 TATTAGCTCT-TATGAGC-ATCCCGA
1 TATTAGCTCTCT-TGAGCTA-CCCGA
*
2835799 TATTGGCTCTCTTGAGCTACCCGA
1 TATTAGCTCTCTTGAGCTACCCGA
2835823 TA
1 TA
2835825 CATGACTCTC
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
24 21 0.91
25 2 0.09
ACGTcount: A:0.22, C:0.26, G:0.18, T:0.34
Consensus pattern (24 bp):
TATTAGCTCTCTTGAGCTACCCGA
Found at i:2836034 original size:25 final size:25
Alignment explanation
Indices: 2835952--2836034 Score: 64
Period size: 25 Copynumber: 3.4 Consensus size: 25
2835942 TAAGCTTTCG
* **
2835952 ATATGGCTCACATGAGCTT-CT-CA
1 ATATGGCTCTCATGAGCTTCCTGTT
**
2835975 ATTATGGCTCTTTTGAGCTTTCC-GTT
1 A-TATGGCTCTCATGAGC-TTCCTGTT
* *
2836001 ACATAGCTCTCATGAGCTTCCTGTT
1 ATATGGCTCTCATGAGCTTCCTGTT
2836026 ATATGGCTC
1 ATATGGCTC
2836035 GAAAGAGCTA
Statistics
Matches: 44, Mismatches: 11, Indels: 8
0.70 0.17 0.13
Matches are distributed among these distances:
23 1 0.02
24 17 0.39
25 24 0.55
26 2 0.05
ACGTcount: A:0.19, C:0.24, G:0.18, T:0.39
Consensus pattern (25 bp):
ATATGGCTCTCATGAGCTTCCTGTT
Found at i:2838690 original size:31 final size:31
Alignment explanation
Indices: 2838612--2838701 Score: 87
Period size: 31 Copynumber: 3.0 Consensus size: 31
2838602 TCAAATGAAT
*
2838612 GCCAAACC-TTTCAAAA-TAGTCAAATAAGG
1 GCCAAACCTTTTCAAAAGTACTCAAATAAGG
* * ** * *
2838641 GCCTAACATTTTTGAAAGTACTCAGATAGGG
1 GCCAAACCTTTTCAAAAGTACTCAAATAAGG
*
2838672 GCCAAACCTTTTCAAAAGTGCTCAAA-AAGG
1 GCCAAACCTTTTCAAAAGTACTCAAATAAGG
2838702 ACTTCTCAAA
Statistics
Matches: 45, Mismatches: 14, Indels: 3
0.73 0.23 0.05
Matches are distributed among these distances:
29 6 0.13
30 9 0.20
31 30 0.67
ACGTcount: A:0.39, C:0.20, G:0.18, T:0.23
Consensus pattern (31 bp):
GCCAAACCTTTTCAAAAGTACTCAAATAAGG
Found at i:2839748 original size:15 final size:15
Alignment explanation
Indices: 2839728--2839765 Score: 76
Period size: 15 Copynumber: 2.5 Consensus size: 15
2839718 CTAACAAAAG
2839728 AACCCAATACCCACA
1 AACCCAATACCCACA
2839743 AACCCAATACCCACA
1 AACCCAATACCCACA
2839758 AACCCAAT
1 AACCCAAT
2839766 TACCATGCCC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 23 1.00
ACGTcount: A:0.47, C:0.45, G:0.00, T:0.08
Consensus pattern (15 bp):
AACCCAATACCCACA
Found at i:2853857 original size:12 final size:12
Alignment explanation
Indices: 2853835--2853869 Score: 52
Period size: 12 Copynumber: 2.8 Consensus size: 12
2853825 AATATAAATA
2853835 AATAGGTAATAAT
1 AATA-GTAATAAT
2853848 AATAGTAATAAT
1 AATAGTAATAAT
*
2853860 AATAATAATA
1 AATAGTAATA
2853870 GGACTAATTC
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
12 17 0.81
13 4 0.19
ACGTcount: A:0.60, C:0.00, G:0.09, T:0.31
Consensus pattern (12 bp):
AATAGTAATAAT
Found at i:2855123 original size:16 final size:19
Alignment explanation
Indices: 2855102--2855137 Score: 51
Period size: 16 Copynumber: 2.1 Consensus size: 19
2855092 AGTATAAATG
2855102 ATATAC-AA-AAC-AATAT
1 ATATACGAATAACTAATAT
2855118 ATATACGAATAACTAATAT
1 ATATACGAATAACTAATAT
2855137 A
1 A
2855138 CACAAAATAC
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
16 6 0.35
17 2 0.12
18 3 0.18
19 6 0.35
ACGTcount: A:0.58, C:0.11, G:0.03, T:0.28
Consensus pattern (19 bp):
ATATACGAATAACTAATAT
Found at i:2855266 original size:14 final size:14
Alignment explanation
Indices: 2855247--2855279 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
2855237 AAAACAGAAT
2855247 GAAAATATACAA-AA
1 GAAAATA-ACAACAA
2855261 GAAAATAACAACAA
1 GAAAATAACAACAA
2855275 GAAAA
1 GAAAA
2855280 AAAAAAGGTG
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 4 0.22
14 14 0.78
ACGTcount: A:0.73, C:0.09, G:0.09, T:0.09
Consensus pattern (14 bp):
GAAAATAACAACAA
Found at i:2855770 original size:24 final size:24
Alignment explanation
Indices: 2855738--2855783 Score: 74
Period size: 24 Copynumber: 1.9 Consensus size: 24
2855728 GGAGTGGTTT
* *
2855738 AGTGGGGTGATGGAGTTAGTGGCA
1 AGTGAGGTGACGGAGTTAGTGGCA
2855762 AGTGAGGTGACGGAGTTAGTGG
1 AGTGAGGTGACGGAGTTAGTGG
2855784 TCGGTTTAGT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.22, C:0.04, G:0.50, T:0.24
Consensus pattern (24 bp):
AGTGAGGTGACGGAGTTAGTGGCA
Found at i:2857758 original size:177 final size:176
Alignment explanation
Indices: 2857449--2857838 Score: 627
Period size: 177 Copynumber: 2.2 Consensus size: 176
2857439 GAGATACTTC
*
2857449 AGCTTTCTCTGGTCTTTCATTGTATGTTTCACCAACACGACATTCATGAGTTTCCACCGACTTAG
1 AGCTTTCTCTGG-CTTTCATTGTATGTTTCACCAACACGACATTCATAAGTTTCCACCGACTTAG
* *
2857514 TAGCATTTTCTTCTATCTCGGCATTAACATTGTCAAAATTGAATTCTTTAAGTGACCCAAGAGTG
65 TAGCATTTTCTTCTATCTCGCCATTAACATTGTCAAAATTGAATTCTTTAACTGACCCAAGAGTG
*
2857579 ATGGATCGGTTCTTATGGTTCTGTGGTTTGCCTTCCCCATCTGCTGG
130 ATGGATCGGTTCTTATGGTGCTGTGGTTTGCCTTCCCCATCTGCTGG
* * *
2857626 AGCTTGCTCTGGCCTTTCATTGTATGTTTCACCAACACGACCTTCATAAGTTTCCACTGACTTAG
1 AGCTTTCTCTGG-CTTTCATTGTATGTTTCACCAACACGACATTCATAAGTTTCCACCGACTTAG
* * * *
2857691 TAGCATTTTCTTCTATCTCTCCATTAATATTGTCGAAATTGAATTCTTTAACTGACCCGAGAGTG
65 TAGCATTTTCTTCTATCTCGCCATTAACATTGTCAAAATTGAATTCTTTAACTGACCCAAGAGTG
*
2857756 ATGGATCGGTTCTTATGGTGCTGTGGTTTGCCTTCCCTATCTGCTGG
130 ATGGATCGGTTCTTATGGTGCTGTGGTTTGCCTTCCCCATCTGCTGG
* *
2857803 AGCTTTCTCTGGTTTTCCGTTGTATGTTTCACCAAC
1 AGCTTTCTCTGGCTTT-CATTGTATGTTTCACCAAC
2857839 TCTACATACA
Statistics
Matches: 196, Mismatches: 16, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
176 3 0.02
177 193 0.98
ACGTcount: A:0.20, C:0.23, G:0.18, T:0.39
Consensus pattern (176 bp):
AGCTTTCTCTGGCTTTCATTGTATGTTTCACCAACACGACATTCATAAGTTTCCACCGACTTAGT
AGCATTTTCTTCTATCTCGCCATTAACATTGTCAAAATTGAATTCTTTAACTGACCCAAGAGTGA
TGGATCGGTTCTTATGGTGCTGTGGTTTGCCTTCCCCATCTGCTGG
Found at i:2857868 original size:177 final size:175
Alignment explanation
Indices: 2857449--2857888 Score: 612
Period size: 177 Copynumber: 2.5 Consensus size: 175
2857439 GAGATACTTC
* *
2857449 AGCTTTCTCTGGTCTTTCATTGTATGTTTCACCAACACGACATTCATGAGTTTCCACCGACTTAG
1 AGCTTTCTCTGGT-TTTCATTGTATGTTTCACCAACACGACATTCA-GAATTTCCAACGACTTAG
** *
2857514 TAGCATTTTCTTCTATCTCGGCATTAACATTGTCAAAATTGAATTCTTTAAGTGACCCAAGAGTG
64 TAGCATTTTCTTCTATCTCTCCATTAACATTGTCAAAATTGAATTCTTTAACTGACCCAAGAGTG
*
2857579 ATGGATCGGTTCTTATGGTTCTGTGGTTTGCCTTCCCCATCTGCTGG
129 ATGGATCGGTTCTTATGGTGCTGTGGTTTGCCTTCCCCATCTGCTGG
* * * *
2857626 AGCTTGCTCTGGCCTTTCATTGTATGTTTCACCAACACGACCTTCATAAGTTTCC-ACTGACTTA
1 AGCTTTCTCTGG-TTTTCATTGTATGTTTCACCAACACGACATTCAGAA-TTTCCAAC-GACTTA
* * *
2857690 GTAGCATTTTCTTCTATCTCTCCATTAATATTGTCGAAATTGAATTCTTTAACTGACCCGAGAGT
63 GTAGCATTTTCTTCTATCTCTCCATTAACATTGTCAAAATTGAATTCTTTAACTGACCCAAGAGT
*
2857755 GATGGATCGGTTCTTATGGTGCTGTGGTTTGCCTTCCCTATCTGCTGG
128 GATGGATCGGTTCTTATGGTGCTGTGGTTTGCCTTCCCCATCTGCTGG
* * * * *
2857803 AGCTTTCTCTGGTTTTCCGTTGTATGTTTCACCAACTCTACATACAGAATTATCCAACAACTTAG
1 AGCTTTCTCTGGTTTT-CATTGTATGTTTCACCAACACGACATTCAGAATT-TCCAACGACTTAG
* * *
2857868 TGGCGTTTTCTTCTCTCTCTC
64 TAGCATTTTCTTCTATCTCTC
2857889 TTGCTGCTTC
Statistics
Matches: 231, Mismatches: 26, Indels: 12
0.86 0.10 0.04
Matches are distributed among these distances:
176 7 0.03
177 222 0.96
178 2 0.01
ACGTcount: A:0.20, C:0.24, G:0.17, T:0.39
Consensus pattern (175 bp):
AGCTTTCTCTGGTTTTCATTGTATGTTTCACCAACACGACATTCAGAATTTCCAACGACTTAGTA
GCATTTTCTTCTATCTCTCCATTAACATTGTCAAAATTGAATTCTTTAACTGACCCAAGAGTGAT
GGATCGGTTCTTATGGTGCTGTGGTTTGCCTTCCCCATCTGCTGG
Found at i:2860352 original size:20 final size:22
Alignment explanation
Indices: 2860310--2860353 Score: 56
Period size: 22 Copynumber: 2.1 Consensus size: 22
2860300 GAGAAAAAAT
* *
2860310 AAAAAATTATATAATTTTTTTA
1 AAAAAATTATATAATATTCTTA
2860332 AAAAAATTAT-TAA-ATTCTTA
1 AAAAAATTATATAATATTCTTA
2860352 AA
1 AA
2860354 TCAAAAATCC
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
20 7 0.35
21 3 0.15
22 10 0.50
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.43
Consensus pattern (22 bp):
AAAAAATTATATAATATTCTTA
Found at i:2862042 original size:89 final size:89
Alignment explanation
Indices: 2861924--2862105 Score: 364
Period size: 89 Copynumber: 2.0 Consensus size: 89
2861914 TGAAGTTTTA
2861924 TATATATAATTGTACCAAATTAAAATTCATGTATCAAATTGCATATTGAACTAAAGTTTATGTAC
1 TATATATAATTGTACCAAATTAAAATTCATGTATCAAATTGCATATTGAACTAAAGTTTATGTAC
2861989 GAGTTTGATATTTATCCTTTTCTT
66 GAGTTTGATATTTATCCTTTTCTT
2862013 TATATATAATTGTACCAAATTAAAATTCATGTATCAAATTGCATATTGAACTAAAGTTTATGTAC
1 TATATATAATTGTACCAAATTAAAATTCATGTATCAAATTGCATATTGAACTAAAGTTTATGTAC
2862078 GAGTTTGATATTTATCCTTTTCTT
66 GAGTTTGATATTTATCCTTTTCTT
2862102 TATA
1 TATA
2862106 ATATTTTACG
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
89 93 1.00
ACGTcount: A:0.35, C:0.11, G:0.10, T:0.44
Consensus pattern (89 bp):
TATATATAATTGTACCAAATTAAAATTCATGTATCAAATTGCATATTGAACTAAAGTTTATGTAC
GAGTTTGATATTTATCCTTTTCTT
Found at i:2867096 original size:15 final size:17
Alignment explanation
Indices: 2867075--2867115 Score: 59
Period size: 15 Copynumber: 2.5 Consensus size: 17
2867065 TAATTTTTTA
2867075 AAAATTATAAAAAT-AT
1 AAAATTATAAAAATAAT
*
2867091 -AAATTATTAAAATAAT
1 AAAATTATAAAAATAAT
2867107 AAAATTATA
1 AAAATTATA
2867116 TTTTTATTAT
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
15 12 0.57
16 2 0.10
17 7 0.33
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (17 bp):
AAAATTATAAAAATAAT
Found at i:2867963 original size:18 final size:18
Alignment explanation
Indices: 2867940--2867984 Score: 54
Period size: 19 Copynumber: 2.4 Consensus size: 18
2867930 TTTTAAAAAA
2867940 TATAAATTTTGGAATTGT
1 TATAAATTTTGGAATTGT
* *
2867958 TATAAATATTTTGAATTTT
1 TATAAAT-TTTGGAATTGT
*
2867977 TAAAAATT
1 TATAAATT
2867985 ATTTTGATTT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
18 8 0.35
19 15 0.65
ACGTcount: A:0.40, C:0.00, G:0.09, T:0.51
Consensus pattern (18 bp):
TATAAATTTTGGAATTGT
Found at i:2867983 original size:19 final size:20
Alignment explanation
Indices: 2867945--2867996 Score: 63
Period size: 19 Copynumber: 2.6 Consensus size: 20
2867935 AAAAATATAA
* *
2867945 ATTTTGGAATTGTTATAAA-T
1 ATTTT-GAATTTTTAAAAATT
2867965 ATTTTGAATTTTTAAAAATT
1 ATTTTGAATTTTTAAAAATT
2867985 ATTTTG-ATTTTT
1 ATTTTGAATTTTT
2867997 TTGTAATTTT
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
19 17 0.59
20 12 0.41
ACGTcount: A:0.33, C:0.00, G:0.10, T:0.58
Consensus pattern (20 bp):
ATTTTGAATTTTTAAAAATT
Found at i:2868343 original size:31 final size:31
Alignment explanation
Indices: 2868308--2868366 Score: 84
Period size: 31 Copynumber: 1.9 Consensus size: 31
2868298 GAATAATTAC
2868308 TGAACAATAT-GAAAGTTTTCATTTAAGTAAT
1 TGAACAAT-TCGAAAGTTTTCATTTAAGTAAT
* *
2868339 TGAACTATTCGAAAGTTTTTATTTAAGT
1 TGAACAATTCGAAAGTTTTCATTTAAGT
2868367 TGTTAGGTTA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
30 1 0.04
31 24 0.96
ACGTcount: A:0.37, C:0.07, G:0.14, T:0.42
Consensus pattern (31 bp):
TGAACAATTCGAAAGTTTTCATTTAAGTAAT
Found at i:2879866 original size:29 final size:29
Alignment explanation
Indices: 2879825--2879888 Score: 103
Period size: 29 Copynumber: 2.2 Consensus size: 29
2879815 AATGAGTTAT
*
2879825 ATGAC-AGACATCCTTCACATGCGCAATG
1 ATGACAAGACATCCTTCACATGCACAATG
*
2879853 ATGACAAGACATCCTTCTCATGCACAATG
1 ATGACAAGACATCCTTCACATGCACAATG
2879882 ATGACAA
1 ATGACAA
2879889 CACCTCCAAT
Statistics
Matches: 33, Mismatches: 2, Indels: 1
0.92 0.06 0.03
Matches are distributed among these distances:
28 5 0.15
29 28 0.85
ACGTcount: A:0.36, C:0.27, G:0.16, T:0.22
Consensus pattern (29 bp):
ATGACAAGACATCCTTCACATGCACAATG
Found at i:2880729 original size:6 final size:6
Alignment explanation
Indices: 2880718--2880742 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
2880708 TAGGAGTTTT
2880718 TTTTAG TTTTAG TTTTAG TTTTAG T
1 TTTTAG TTTTAG TTTTAG TTTTAG T
2880743 GTTCTAATTA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.16, C:0.00, G:0.16, T:0.68
Consensus pattern (6 bp):
TTTTAG
Found at i:2895371 original size:24 final size:25
Alignment explanation
Indices: 2895325--2895376 Score: 72
Period size: 24 Copynumber: 2.1 Consensus size: 25
2895315 AAGTATTCAC
2895325 TTTAATTGATTAATATTTTAATA-A
1 TTTAATTGATTAATATTTTAATATA
*
2895349 TTTAATT-ATTAATTTTTTAAATATA
1 TTTAATTGATTAATATTTT-AATATA
2895374 TTT
1 TTT
2895377 TTAGTTAATA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
23 10 0.40
24 11 0.44
25 4 0.16
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.60
Consensus pattern (25 bp):
TTTAATTGATTAATATTTTAATATA
Found at i:2895661 original size:19 final size:19
Alignment explanation
Indices: 2895634--2895670 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
2895624 GACGTCACCT
*
2895634 TATTTAAAAGTTTAAATAA
1 TATTGAAAAGTTTAAATAA
2895653 TATTGAAAAGTTTAAATA
1 TATTGAAAAGTTTAAATA
2895671 TATACAATCT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.51, C:0.00, G:0.08, T:0.41
Consensus pattern (19 bp):
TATTGAAAAGTTTAAATAA
Found at i:2899938 original size:8 final size:9
Alignment explanation
Indices: 2899909--2899942 Score: 50
Period size: 9 Copynumber: 3.7 Consensus size: 9
2899899 ATTCCCTGTG
*
2899909 AAAATTTAA
1 AAAAATTAA
2899918 AAAGAATTAA
1 AAA-AATTAA
2899928 AAAAATTAA
1 AAAAATTAA
2899937 AAAAAT
1 AAAAAT
2899943 AACGTGATTC
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
9 15 0.65
10 8 0.35
ACGTcount: A:0.74, C:0.00, G:0.03, T:0.24
Consensus pattern (9 bp):
AAAAATTAA
Found at i:2901312 original size:66 final size:68
Alignment explanation
Indices: 2901242--2901367 Score: 175
Period size: 66 Copynumber: 1.9 Consensus size: 68
2901232 CAATTTTGTC
* * *
2901242 TTTTTTAGTCACCAAAATGGAAACATCC-AATATCCAAGATAGTTGGGTGA-CAAAAAAAAGTTT
1 TTTTTTAGTCACCAAAATGGAAACATCCAAAAATCCAAAATAGTTAGGTGATCAAAAAAAAGTTT
2901305 GCT
66 GCT
* * * *
2901308 TTTTTTGGTCTCCAGAATGGAGACATCCAAAAATCCAAAATAGTTAGGTGATCAAAAAAA
1 TTTTTTAGTCACCAAAATGGAAACATCCAAAAATCCAAAATAGTTAGGTGATCAAAAAAA
2901368 GATAAAATTA
Statistics
Matches: 51, Mismatches: 7, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
66 24 0.47
67 19 0.37
68 8 0.16
ACGTcount: A:0.40, C:0.15, G:0.17, T:0.28
Consensus pattern (68 bp):
TTTTTTAGTCACCAAAATGGAAACATCCAAAAATCCAAAATAGTTAGGTGATCAAAAAAAAGTTT
GCT
Found at i:2904066 original size:26 final size:26
Alignment explanation
Indices: 2904030--2904082 Score: 106
Period size: 26 Copynumber: 2.0 Consensus size: 26
2904020 GGAGAGGAGA
2904030 TTATGACATTTAAGATAGTTGAAGGC
1 TTATGACATTTAAGATAGTTGAAGGC
2904056 TTATGACATTTAAGATAGTTGAAGGC
1 TTATGACATTTAAGATAGTTGAAGGC
2904082 T
1 T
2904083 GGGAAAAGAT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.34, C:0.08, G:0.23, T:0.36
Consensus pattern (26 bp):
TTATGACATTTAAGATAGTTGAAGGC
Found at i:2904264 original size:15 final size:15
Alignment explanation
Indices: 2904244--2904275 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
2904234 GGAGCCTGCT
2904244 CTAATATTCCTTTTG
1 CTAATATTCCTTTTG
2904259 CTAATATTCCTTTTG
1 CTAATATTCCTTTTG
2904274 CT
1 CT
2904276 GAAGTTGTAC
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:0.19, C:0.22, G:0.06, T:0.53
Consensus pattern (15 bp):
CTAATATTCCTTTTG
Done.