Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D04
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: 52479919
ACGTcount: A:0.33, C:0.16, G:0.17, T:0.33
Warning! 336953 characters in sequence are not A, C, G, or T
File 55 of 173
Found at i:15485724 original size:18 final size:18
Alignment explanation
Indices: 15485701--15485737 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
15485691 CATAAATCCG
15485701 ACCTGTCCTAGATTAGCA
1 ACCTGTCCTAGATTAGCA
15485719 ACCTGTCCTAGATTAGCA
1 ACCTGTCCTAGATTAGCA
15485737 A
1 A
15485738 GAAAATTCCA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.30, C:0.27, G:0.16, T:0.27
Consensus pattern (18 bp):
ACCTGTCCTAGATTAGCA
Found at i:15486654 original size:72 final size:71
Alignment explanation
Indices: 15486531--15486677 Score: 249
Period size: 72 Copynumber: 2.1 Consensus size: 71
15486521 CACTTTTTTG
* *
15486531 CTTTAGTTATTATTGTGATTATATCTGCTAATTGGGGTAAGTAAAGTTCAAACTTTGTAATATTC
1 CTTTAGTTATTATTGTGATTATATCTGCTAATTGGGGTAAGTAAAGGTCAAACCTTGTAATATTC
*
15486596 CACGAC
66 CACAAC
*
15486602 CTTTATGTTATTATTGTGATTATATCTGCTATTTGGGGTAAGTAAAGGTCAAACCTTGTAATATT
1 CTTTA-GTTATTATTGTGATTATATCTGCTAATTGGGGTAAGTAAAGGTCAAACCTTGTAATATT
15486667 CCACAAC
65 CCACAAC
15486674 CTTT
1 CTTT
15486678 TTGCATTGGT
Statistics
Matches: 71, Mismatches: 4, Indels: 1
0.93 0.05 0.01
Matches are distributed among these distances:
71 5 0.07
72 66 0.93
ACGTcount: A:0.29, C:0.14, G:0.16, T:0.41
Consensus pattern (71 bp):
CTTTAGTTATTATTGTGATTATATCTGCTAATTGGGGTAAGTAAAGGTCAAACCTTGTAATATTC
CACAAC
Found at i:15490384 original size:13 final size:13
Alignment explanation
Indices: 15490366--15490390 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
15490356 TATTTTAATA
15490366 TTATTTTGTGTGT
1 TTATTTTGTGTGT
15490379 TTATTTTGTGTG
1 TTATTTTGTGTG
15490391 CATTTGATTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.08, C:0.00, G:0.24, T:0.68
Consensus pattern (13 bp):
TTATTTTGTGTGT
Found at i:15492363 original size:41 final size:41
Alignment explanation
Indices: 15492317--15492420 Score: 149
Period size: 41 Copynumber: 2.5 Consensus size: 41
15492307 GACTATAAGT
*
15492317 CTAGCAGGCTAAGTGCCGGTGAT-CGAAATCAGGTTATAAAC
1 CTAGCAGGCTAAGTGCCGGTGATACG-AATCAGGCTATAAAC
* *
15492358 CTAGCAGGCTACA-TGCCGGTGATATGAATCAGGCTATAAGC
1 CTAGCAGGCTA-AGTGCCGGTGATACGAATCAGGCTATAAAC
15492399 CTAGCAGGCTAAGTGCCGGTGA
1 CTAGCAGGCTAAGTGCCGGTGA
15492421 ATATGTTAAA
Statistics
Matches: 57, Mismatches: 3, Indels: 6
0.86 0.05 0.09
Matches are distributed among these distances:
40 1 0.02
41 54 0.95
42 2 0.04
ACGTcount: A:0.29, C:0.21, G:0.29, T:0.21
Consensus pattern (41 bp):
CTAGCAGGCTAAGTGCCGGTGATACGAATCAGGCTATAAAC
Found at i:15510262 original size:44 final size:43
Alignment explanation
Indices: 15510214--15510499 Score: 147
Period size: 44 Copynumber: 6.6 Consensus size: 43
15510204 TCTTGTGTCT
* *
15510214 GCTCCACTACAACTTCAGGGAGATAAGATCTGACGTTTTAATCC
1 GCTCCACTGCAACTTCAGGGAGATAAGATCTGAC-TTTCAATCC
* * * * * * *
15510258 GCTCCACCGCAACTTTAGGGGGATAGGATTATCGGC-TTCAATCT
1 GCTCCACTGCAACTTCAGGGAGATAAGA-TCT-GACTTTCAATCC
* * * * * *
15510302 GTTCCACTGCAACCTCAGGGAGATAAGATTTGCCATCTTCGATCTG
1 GCTCCACTGCAACTTCAGGGAGATAAGATCTGAC-T-TTCAATC-C
* * * * *
15510348 GC-CCACTACAAC-TCAGGG-GAATAAGACCTG-CTTACTTAGTCT
1 GCTCCACTGCAACTTCAGGGAG-ATAAGATCTGACTT--TCAATCC
** * * * *
15510390 GCTCTGCTGCAACTACAGGGAGATAAGACCTGA--TGCGATCC
1 GCTCCACTGCAACTTCAGGGAGATAAGATCTGACTTTCAATCC
* * *
15510431 ACTCTACTGCAACTTCAGTGAGATAAGATCTGTTACTTT-AATCC
1 GCTCCACTGCAACTTCAGGGAGATAAGATCTG--ACTTTCAATCC
*
15510475 GCTCCACTACAACTTCAGGGAGATA
1 GCTCCACTGCAACTTCAGGGAGATA
15510500 GGATTATCGG
Statistics
Matches: 178, Mismatches: 47, Indels: 34
0.69 0.18 0.13
Matches are distributed among these distances:
41 30 0.17
42 5 0.03
43 16 0.09
44 105 0.59
45 19 0.11
46 3 0.02
ACGTcount: A:0.27, C:0.26, G:0.21, T:0.26
Consensus pattern (43 bp):
GCTCCACTGCAACTTCAGGGAGATAAGATCTGACTTTCAATCC
Found at i:15511678 original size:21 final size:22
Alignment explanation
Indices: 15511643--15511684 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 22
15511633 TTGGCCTCTC
*
15511643 CATTTTTACTCTTTCATTTTTT
1 CATTTTTAATCTTTCATTTTTT
15511665 CATTTTTAAT-TTTCATTTTT
1 CATTTTTAATCTTTCATTTTT
15511685 CATCATCCTC
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 10 0.53
22 9 0.47
ACGTcount: A:0.17, C:0.14, G:0.00, T:0.69
Consensus pattern (22 bp):
CATTTTTAATCTTTCATTTTTT
Found at i:15524197 original size:15 final size:15
Alignment explanation
Indices: 15524177--15524205 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
15524167 TTTGATGCCG
15524177 GGTGGTTTCCATCCC
1 GGTGGTTTCCATCCC
15524192 GGTGGTTTCCATCC
1 GGTGGTTTCCATCC
15524206 GTTTTGGTTG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.07, C:0.31, G:0.28, T:0.34
Consensus pattern (15 bp):
GGTGGTTTCCATCCC
Found at i:15532257 original size:2 final size:2
Alignment explanation
Indices: 15532250--15532274 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
15532240 CAAAAGTCAC
15532250 CA CA CA CA CA CA CA CA CA CA CA CA C
1 CA CA CA CA CA CA CA CA CA CA CA CA C
15532275 TCTCTCTCTC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.52, G:0.00, T:0.00
Consensus pattern (2 bp):
CA
Found at i:15532279 original size:2 final size:2
Alignment explanation
Indices: 15532274--15532312 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
15532264 CACACACACA
15532274 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT C
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT C
15532313 CCTATATATA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.00, C:0.51, G:0.00, T:0.49
Consensus pattern (2 bp):
CT
Found at i:15541854 original size:6 final size:6
Alignment explanation
Indices: 15541845--15541875 Score: 62
Period size: 6 Copynumber: 5.2 Consensus size: 6
15541835 AACGAAATAC
15541845 ATGAAA ATGAAA ATGAAA ATGAAA ATGAAA A
1 ATGAAA ATGAAA ATGAAA ATGAAA ATGAAA A
15541876 ATAAAAAATA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 25 1.00
ACGTcount: A:0.68, C:0.00, G:0.16, T:0.16
Consensus pattern (6 bp):
ATGAAA
Found at i:15542917 original size:20 final size:20
Alignment explanation
Indices: 15542894--15542932 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
15542884 AACTTTTCCA
15542894 TCCCCCTTT-TCCCTTTCCCT
1 TCCCCCTTTCT-CCTTTCCCT
*
15542914 TCCCTCTTTCTCCTTTCCC
1 TCCCCCTTTCTCCTTTCCC
15542933 CTTCTTTGCC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 16 0.94
21 1 0.06
ACGTcount: A:0.00, C:0.54, G:0.00, T:0.46
Consensus pattern (20 bp):
TCCCCCTTTCTCCTTTCCCT
Found at i:15544537 original size:56 final size:56
Alignment explanation
Indices: 15544471--15544583 Score: 217
Period size: 56 Copynumber: 2.0 Consensus size: 56
15544461 AATTATATTA
15544471 CATATGTTGTGTTTTGCTACATGGTTCTTTTTCTAGTTAGACATTCATGTTAAAAT
1 CATATGTTGTGTTTTGCTACATGGTTCTTTTTCTAGTTAGACATTCATGTTAAAAT
*
15544527 CATATGTTGTGTTTTGCTACTTGGTTCTTTTTCTAGTTAGACATTCATGTTAAAAT
1 CATATGTTGTGTTTTGCTACATGGTTCTTTTTCTAGTTAGACATTCATGTTAAAAT
15544583 C
1 C
15544584 TTTACTTATT
Statistics
Matches: 56, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
56 56 1.00
ACGTcount: A:0.22, C:0.13, G:0.16, T:0.49
Consensus pattern (56 bp):
CATATGTTGTGTTTTGCTACATGGTTCTTTTTCTAGTTAGACATTCATGTTAAAAT
Found at i:15545231 original size:32 final size:32
Alignment explanation
Indices: 15545182--15545253 Score: 83
Period size: 33 Copynumber: 2.2 Consensus size: 32
15545172 AGTTTTTATT
* *
15545182 AAATATTTTTAAGAAATTT-GCCAAACAATAGA
1 AAATA-TTTTAACAAATTTAGCCAAACAACAGA
* *
15545214 AAATATTTTACACAAATTTATCCAAACACCAGA
1 AAATATTTTA-ACAAATTTAGCCAAACAACAGA
15545247 AAATATT
1 AAATATT
15545254 AACTTTTCTA
Statistics
Matches: 34, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
31 5 0.15
32 12 0.35
33 17 0.50
ACGTcount: A:0.50, C:0.14, G:0.06, T:0.31
Consensus pattern (32 bp):
AAATATTTTAACAAATTTAGCCAAACAACAGA
Found at i:15547727 original size:14 final size:14
Alignment explanation
Indices: 15547708--15547734 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
15547698 AACAATGTGA
15547708 ATAATAATATATAC
1 ATAATAATATATAC
15547722 ATAATAATATATA
1 ATAATAATATATA
15547735 AAAAGGTTTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.59, C:0.04, G:0.00, T:0.37
Consensus pattern (14 bp):
ATAATAATATATAC
Found at i:15548676 original size:17 final size:17
Alignment explanation
Indices: 15548654--15548686 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
15548644 AAACCGAGAA
15548654 AAGAAA-AAGAAAAAACC
1 AAGAAAGAA-AAAAAACC
15548671 AAGAAAGAAAAAAAAC
1 AAGAAAGAAAAAAAAC
15548687 TGCAAATCAC
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
17 13 0.87
18 2 0.13
ACGTcount: A:0.79, C:0.09, G:0.12, T:0.00
Consensus pattern (17 bp):
AAGAAAGAAAAAAAACC
Found at i:15549596 original size:50 final size:50
Alignment explanation
Indices: 15549521--15549703 Score: 197
Period size: 50 Copynumber: 3.7 Consensus size: 50
15549511 TATAACTTTT
* * *
15549521 GGAAAGTAAGATTCGCCATTGTGGCTTTAACCTTTTTAACTGCAATGTCG
1 GGAAAGCAAGATTCACCATTGTGGCTTTAATCTTTTTAACTGCAATGTCG
* * * * ** * * *
15549571 GGAAAGCATGATTCGCTATTGTGGCTTTAATCTGTTCCACTGCACTGCCTA
1 GGAAAGCAAGATTCACCATTGTGGCTTTAATCTTTTTAACTGCAATGTC-G
* ** *
15549622 GG-AAGTAAGATTCACTGTTGTAGCTTTAATCTTTTTAACTGCAATGTCG
1 GGAAAGCAAGATTCACCATTGTGGCTTTAATCTTTTTAACTGCAATGTCG
*
15549671 GGAAAGCAAGATTCACCGTTGTGGCTTTAATCT
1 GGAAAGCAAGATTCACCATTGTGGCTTTAATCT
15549704 GTTCCACTAC
Statistics
Matches: 107, Mismatches: 24, Indels: 4
0.79 0.18 0.03
Matches are distributed among these distances:
49 2 0.02
50 103 0.96
51 2 0.02
ACGTcount: A:0.25, C:0.19, G:0.22, T:0.34
Consensus pattern (50 bp):
GGAAAGCAAGATTCACCATTGTGGCTTTAATCTTTTTAACTGCAATGTCG
Found at i:15549726 original size:100 final size:100
Alignment explanation
Indices: 15549519--15549733 Score: 295
Period size: 100 Copynumber: 2.1 Consensus size: 100
15549509 CTTATAACTT
* * * *
15549519 TTGGAAAGTAAGATTCGCCATTGTGGCTTTAACCTTTTTAACTGCAATGTCGGGAAAGCATGATT
1 TTGGGAAGTAAGATTCACCATTGTAGCTTTAACCTTTTTAACTGCAATGTCGGGAAAGCAAGATT
* * * *
15549584 CGCTATTGTGGCTTTAATCTGTTCCACTGCACTGC
66 CACCATTGTGGCTTTAATCTGTTCCACTACACCGC
* * ** *
15549619 CTAGGAAGTAAGATTCACTGTTGTAGCTTTAATCTTTTTAACTGCAATGTCGGGAAAGCAAGATT
1 TTGGGAAGTAAGATTCACCATTGTAGCTTTAACCTTTTTAACTGCAATGTCGGGAAAGCAAGATT
*
15549684 CACCGTTGTGGCTTTAATCTGTTCCACTACACCGC
66 CACCATTGTGGCTTTAATCTGTTCCACTACACCGC
15549719 TTGGGAAGATAAGAT
1 TTGGGAAG-TAAGAT
15549734 CTGTAATTCT
Statistics
Matches: 98, Mismatches: 16, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
100 92 0.94
101 6 0.06
ACGTcount: A:0.26, C:0.19, G:0.22, T:0.33
Consensus pattern (100 bp):
TTGGGAAGTAAGATTCACCATTGTAGCTTTAACCTTTTTAACTGCAATGTCGGGAAAGCAAGATT
CACCATTGTGGCTTTAATCTGTTCCACTACACCGC
Found at i:15550319 original size:129 final size:129
Alignment explanation
Indices: 15550141--15550396 Score: 431
Period size: 129 Copynumber: 2.0 Consensus size: 129
15550131 AACCTTCAAT
* *
15550141 CTATTCCACTGTTGACCAGGGATATAGGACTTATGGCTTAAATCTGCTTCCTTACACTTGAAGAT
1 CTATTCCACTGCTAACCAGGGATATAGGACTTATGGCTTAAATCTGCTTCCTTACACTTGAAGAT
* *
15550206 AAGATTTGCCGTCTTCAATCTGCTCCGCTATTGCTTAGGGAGACAAGATCTGTAATTTCCCAAC
66 AAGATTTGCCGTATTCAATCTGCTCCGCTACTGCTTAGGGAGACAAGATCTGTAATTTCCCAAC
* * *
15550270 CTATTCCACTGCTAATCAGGGATATAGGACTTGTGGCTTAAATCTGCTTCCTTACTCTTGAAGAT
1 CTATTCCACTGCTAACCAGGGATATAGGACTTATGGCTTAAATCTGCTTCCTTACACTTGAAGAT
* *
15550335 AAGATTTGCCGTATTCGATCTGCTCTGCTACTGCTTAGGGAGACAAGATCTGTAATTTCCCA
66 AAGATTTGCCGTATTCAATCTGCTCCGCTACTGCTTAGGGAGACAAGATCTGTAATTTCCCA
15550397 GATCTGTTCT
Statistics
Matches: 118, Mismatches: 9, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
129 118 1.00
ACGTcount: A:0.25, C:0.23, G:0.19, T:0.33
Consensus pattern (129 bp):
CTATTCCACTGCTAACCAGGGATATAGGACTTATGGCTTAAATCTGCTTCCTTACACTTGAAGAT
AAGATTTGCCGTATTCAATCTGCTCCGCTACTGCTTAGGGAGACAAGATCTGTAATTTCCCAAC
Found at i:15551625 original size:7 final size:7
Alignment explanation
Indices: 15551611--15551654 Score: 54
Period size: 7 Copynumber: 6.1 Consensus size: 7
15551601 AGTCTCTCCA
15551611 TCATTTT
1 TCATTTT
*
15551618 TTATTTT
1 TCATTTT
15551625 TCATTTT
1 TCATTTT
15551632 CTC-TTTT
1 -TCATTTT
15551639 TCATTTT
1 TCATTTT
15551646 TCACTTTT
1 TCA-TTTT
15551654 T
1 T
15551655 TGACTCGAAG
Statistics
Matches: 32, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
6 2 0.06
7 23 0.72
8 7 0.22
ACGTcount: A:0.11, C:0.16, G:0.00, T:0.73
Consensus pattern (7 bp):
TCATTTT
Found at i:15552518 original size:9 final size:9
Alignment explanation
Indices: 15552504--15552549 Score: 51
Period size: 8 Copynumber: 5.2 Consensus size: 9
15552494 TCCCCTTTTC
15552504 TTTTTCCTT
1 TTTTTCCTT
15552513 TTTTTCC-T
1 TTTTTCCTT
15552521 TTTTTCC-T
1 TTTTTCCTT
*
15552529 TCTTTCTCTT
1 TTTTTC-CTT
*
15552539 TTTTTCATT
1 TTTTTCCTT
15552548 TT
1 TT
15552550 CATTTTGACT
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
8 14 0.44
9 12 0.38
10 6 0.19
ACGTcount: A:0.02, C:0.22, G:0.00, T:0.76
Consensus pattern (9 bp):
TTTTTCCTT
Found at i:15552526 original size:17 final size:17
Alignment explanation
Indices: 15552504--15552549 Score: 56
Period size: 18 Copynumber: 2.6 Consensus size: 17
15552494 TCCCCTTTTC
*
15552504 TTTTTCCTTTTTTTCCT
1 TTTTTCCTTTTTCTCCT
*
15552521 TTTTTCCTTCTTTCTCTT
1 TTTTTCCTT-TTTCTCCT
*
15552539 TTTTTCATTTT
1 TTTTTCCTTTT
15552550 CATTTTGACT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
17 11 0.44
18 14 0.56
ACGTcount: A:0.02, C:0.22, G:0.00, T:0.76
Consensus pattern (17 bp):
TTTTTCCTTTTTCTCCT
Found at i:15560925 original size:18 final size:17
Alignment explanation
Indices: 15560892--15560930 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 17
15560882 TTTTATAAAT
15560892 TGTGAATTATATTTGATA
1 TGTGAATTATATTTGA-A
15560910 TGTGAATTA-ATATTGAA
1 TGTGAATTATAT-TTGAA
15560927 TGTG
1 TGTG
15560931 GAAGGAAAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
17 7 0.35
18 13 0.65
ACGTcount: A:0.33, C:0.00, G:0.21, T:0.46
Consensus pattern (17 bp):
TGTGAATTATATTTGAA
Found at i:15561062 original size:8 final size:8
Alignment explanation
Indices: 15561049--15561077 Score: 58
Period size: 8 Copynumber: 3.6 Consensus size: 8
15561039 CACTAGAGAC
15561049 CAGTGTTA
1 CAGTGTTA
15561057 CAGTGTTA
1 CAGTGTTA
15561065 CAGTGTTA
1 CAGTGTTA
15561073 CAGTG
1 CAGTG
15561078 AGTCCCGGGT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 21 1.00
ACGTcount: A:0.24, C:0.14, G:0.28, T:0.34
Consensus pattern (8 bp):
CAGTGTTA
Found at i:15561190 original size:23 final size:23
Alignment explanation
Indices: 15561164--15561236 Score: 128
Period size: 23 Copynumber: 3.2 Consensus size: 23
15561154 AGTGTTATTG
15561164 ATCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
* *
15561187 ATCAGTGGTAGCTACAGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
15561210 ATCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
15561233 ATCA
1 ATCA
15561237 ATGTGGCACT
Statistics
Matches: 46, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 46 1.00
ACGTcount: A:0.26, C:0.22, G:0.23, T:0.29
Consensus pattern (23 bp):
ATCAGTGGTAGCTTCGGCTACAT
Found at i:15594999 original size:44 final size:42
Alignment explanation
Indices: 15594936--15595665 Score: 245
Period size: 44 Copynumber: 16.9 Consensus size: 42
15594926 CGGTAGCCAG
15594936 CAAATCTTATCTC-CTTGAAGTTGCAGTGGAGCAGATTGGAGC
1 CAAATCTTATCTCTC-TGAAGTTGCAGTGGAGCAGATTGGAGC
* ** ** *
15594978 CGATAATCCTATCTCTCTGAAGTTGCAGTGGAGTGGATTAAATC
1 C-A-AATCTTATCTCTCTGAAGTTGCAGTGGAGCAGATTGGAGC
* * * * * * *
15595022 ACAGATCTTTTCTCTCTGAAGTTACAG-AGAGCAGATCGCA-T
1 -CAAATCTTATCTCTCTGAAGTTGCAGTGGAGCAGATTGGAGC
* * * * * *
15595063 CTAGTCTTATCTCCCTGAATTTGCAGTGGAGCAGACT-AAGC
1 CAAATCTTATCTCTCTGAAGTTGCAGTGGAGCAGATTGGAGC
* * * *
15595104 AAGCAAGTCTTATC-CTCCTGAAGTTGCAAT-GAGGCAGACTGAAGATGG
1 ---CAAATCTTATCTCT-CTGAAGTTGCAGTGGA-GCAGATTG--GA-GC
* * *
15595152 CAAATCTTATCTCCCTGAAGTTACAGTGGAGCAGATTAGAGC
1 CAAATCTTATCTCTCTGAAGTTGCAGTGGAGCAGATTGGAGC
* * * ** ** *
15595194 CGATAATCCTATCTCCCTGAAGTTACAGTGGAGTGGATTAAATC
1 C-A-AATCTTATCTCTCTGAAGTTGCAGTGGAGCAGATTGGAGC
* * * * *
15595238 ACAGATCTTATCTCTCTGAAGTTGCAG-AGAGCAGATCGCA-T
1 -CAAATCTTATCTCTCTGAAGTTGCAGTGGAGCAGATTGGAGC
* * * * *
15595279 CTAGTCTTATCTC-CTTAAAGTTGCAGTGGAGCAGACT-AAGC
1 CAAATCTTATCTCTC-TGAAGTTGCAGTGGAGCAGATTGGAGC
* * *
15595320 AAGCAAGTCTTATC-CTCCTGAAGTTGCAGT-GAGGCAGACTGAAGATGG
1 ---CAAATCTTATCTCT-CTGAAGTTGCAGTGGA-GCAGATTG--GA-GC
* *
15595368 CAAATCTTATCT-TCCTGAAGTTGCAGTGGAGCAAATTAGAGC
1 CAAATCTTATCTCT-CTGAAGTTGCAGTGGAGCAGATTGGAGC
* * * ** *
15595410 CGATAATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAAC
1 C-A-AATCTTATCTCTCTGAAGTTGCAGTGGAGCAGATTGGAGC
* * * * * * *
15595454 CTTGAATCTTATCTCTCTAAAGTTACAG-AGAGCAGATCGCA-T
1 C--AAATCTTATCTCTCTGAAGTTGCAGTGGAGCAGATTGGAGC
*** * * * * *
15595496 CTGGTCTTATCTCCCTAAAGTTGCAGTGAAGCAGACTAAGTAAG-
1 CAAATCTTATCTCTCTGAAGTTGCAGTGGAGCAGA-T-TG-GAGC
* * *
15595540 CAAGTCTTATCT-TCCTGAAGTTGCAGT-GAGGCAGACTGAAGATGG
1 CAAATCTTATCTCT-CTGAAGTTGCAGTGGA-GCAGATTG--GA-GC
* * * * **
15595585 CAAATCTTATCTCCCTGAAGTTGTAGTGGAGTAGGTTAAAGC
1 CAAATCTTATCTCTCTGAAGTTGCAGTGGAGCAGATTGGAGC
* * *
15595627 CGATAATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATT
1 C-A-AATCTTATCTCTCTGAAGTTGCAGTGGAGCAGATT
15595666 AACACCTTGG
Statistics
Matches: 509, Mismatches: 126, Indels: 104
0.69 0.17 0.14
Matches are distributed among these distances:
39 1 0.00
40 61 0.12
41 20 0.04
42 24 0.05
43 66 0.13
44 238 0.47
45 88 0.17
46 7 0.01
47 2 0.00
48 2 0.00
ACGTcount: A:0.28, C:0.20, G:0.23, T:0.28
Consensus pattern (42 bp):
CAAATCTTATCTCTCTGAAGTTGCAGTGGAGCAGATTGGAGC
Found at i:15595309 original size:216 final size:216
Alignment explanation
Indices: 15594935--15595740 Score: 1251
Period size: 216 Copynumber: 3.7 Consensus size: 216
15594925 TCGGTAGCCA
* * *
15594935 GCAAATCTTATCTCCTTGAAGTTGCAGTGGAGCAGATTGGAGCCGATAATCCTATCTCTCTGAAG
1 GCAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAGAGCCGATAATCCTATCTCCCTGAAG
* *
15595000 TTGCAGTGGAGTGGATTAAATCACAGATCTTTTCTCTCTGAAGTTACAGAGAGCAGATCGCATCT
66 TTGCAGTGGAGCGGATTAAATCACAGATCTTATCTCTCTGAAGTTACAGAGAGCAGATCGCATCT
* *
15595065 AGTCTTATCTCCCTGAATTTGCAGTGGAGCAGACTAAGCAAGCAAGTCTTATCCTCCTGAAGTTG
131 AGTCTTATCTCCCTAAAGTTGCAGTGGAGCAGACTAAGCAAGCAAGTCTTATCCTCCTGAAGTTG
*
15595130 CAATGAGGCAGACTGAAGATG
196 CAGTGAGGCAGACTGAAGATG
*
15595151 GCAAATCTTATCTCCCTGAAGTTACAGTGGAGCAGATTAGAGCCGATAATCCTATCTCCCTGAAG
1 GCAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAGAGCCGATAATCCTATCTCCCTGAAG
* * *
15595216 TTACAGTGGAGTGGATTAAATCACAGATCTTATCTCTCTGAAGTTGCAGAGAGCAGATCGCATCT
66 TTGCAGTGGAGCGGATTAAATCACAGATCTTATCTCTCTGAAGTTACAGAGAGCAGATCGCATCT
*
15595281 AGTCTTATCTCCTTAAAGTTGCAGTGGAGCAGACTAAGCAAGCAAGTCTTATCCTCCTGAAGTTG
131 AGTCTTATCTCCCTAAAGTTGCAGTGGAGCAGACTAAGCAAGCAAGTCTTATCCTCCTGAAGTTG
15595346 CAGTGAGGCAGACTGAAGATG
196 CAGTGAGGCAGACTGAAGATG
* *
15595367 GCAAATCTTATCTTCCTGAAGTTGCAGTGGAGCAAATTAGAGCCGATAATCCTATCTCCCTGAAG
1 GCAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAGAGCCGATAATCCTATCTCCCTGAAG
* * *
15595432 TTGCAGTGGAGCGGATTAAAAC-CTTGAATCTTATCTCTCTAAAGTTACAGAGAGCAGATCGCAT
66 TTGCAGTGGAGCGGATTAAATCAC-AG-ATCTTATCTCTCTGAAGTTACAGAGAGCAGATCGCAT
* * * *
15595496 CTGGTCTTATCTCCCTAAAGTTGCAGTGAAGCAGACTAAGTAAGCAAGTCTTATCTTCCTGAAGT
129 CTAGTCTTATCTCCCTAAAGTTGCAGTGGAGCAGACTAAGCAAGCAAGTCTTATCCTCCTGAAGT
15595561 TGCAGTGAGGCAGACTGAAGATG
194 TGCAGTGAGGCAGACTGAAGATG
* * * *
15595584 GCAAATCTTATCTCCCTGAAGTTGTAGTGGAGTAGGTTAAAGCCGATAATCCTATCTCCCTGAAG
1 GCAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAGAGCCGATAATCCTATCTCCCTGAAG
* *** *
15595649 TTGCAGTGGAGCGGATTAACACCTTGGATCTTATCTCTCTGAAGTTGCAGAGAGCAGATCGCA--
66 TTGCAGTGGAGCGGATTAA-ATCACAGATCTTATCTCTCTGAAGTTACAGAGAGCAGATCGCATC
* * *
15595712 -AGTCTTATCACCCTGAAGTTGCAGAGGAG
130 TAGTCTTATCTCCCTAAAGTTGCAGTGGAG
15595741 TAGATTGAAG
Statistics
Matches: 545, Mismatches: 41, Indels: 10
0.91 0.07 0.02
Matches are distributed among these distances:
214 24 0.04
215 1 0.00
216 287 0.53
217 230 0.42
218 3 0.01
ACGTcount: A:0.28, C:0.21, G:0.23, T:0.28
Consensus pattern (216 bp):
GCAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAGAGCCGATAATCCTATCTCCCTGAAG
TTGCAGTGGAGCGGATTAAATCACAGATCTTATCTCTCTGAAGTTACAGAGAGCAGATCGCATCT
AGTCTTATCTCCCTAAAGTTGCAGTGGAGCAGACTAAGCAAGCAAGTCTTATCCTCCTGAAGTTG
CAGTGAGGCAGACTGAAGATG
Found at i:15596020 original size:14 final size:14
Alignment explanation
Indices: 15596001--15596028 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
15595991 TAAAAGACGG
15596001 TGGCCCAAAACAAA
1 TGGCCCAAAACAAA
15596015 TGGCCCAAAACAAA
1 TGGCCCAAAACAAA
15596029 ATCAAAAACC
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:0.50, C:0.29, G:0.14, T:0.07
Consensus pattern (14 bp):
TGGCCCAAAACAAA
Found at i:15608292 original size:31 final size:31
Alignment explanation
Indices: 15608254--15608328 Score: 141
Period size: 31 Copynumber: 2.4 Consensus size: 31
15608244 GATATTAAAT
*
15608254 TTAATTTAATATTTATCTAGATAGTATTTTA
1 TTAATTTAATATTTATCTAGATAATATTTTA
15608285 TTAATTTAATATTTATCTAGATAATATTTTA
1 TTAATTTAATATTTATCTAGATAATATTTTA
15608316 TTAATTTAATATT
1 TTAATTTAATATT
15608329 AATGTGATTA
Statistics
Matches: 43, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
31 43 1.00
ACGTcount: A:0.37, C:0.03, G:0.04, T:0.56
Consensus pattern (31 bp):
TTAATTTAATATTTATCTAGATAATATTTTA
Found at i:15608297 original size:16 final size:16
Alignment explanation
Indices: 15608278--15608328 Score: 63
Period size: 16 Copynumber: 3.2 Consensus size: 16
15608268 ATCTAGATAG
15608278 TATTTTATTAATTTAA
1 TATTTTATTAATTTAA
15608294 TA-TTTATCTAGA--TAA
1 TATTTTAT-TA-ATTTAA
15608309 TATTTTATTAATTTAA
1 TATTTTATTAATTTAA
15608325 TATT
1 TATT
15608329 AATGTGATTA
Statistics
Matches: 30, Mismatches: 0, Indels: 10
0.75 0.00 0.25
Matches are distributed among these distances:
14 1 0.03
15 12 0.40
16 16 0.53
17 1 0.03
ACGTcount: A:0.37, C:0.02, G:0.02, T:0.59
Consensus pattern (16 bp):
TATTTTATTAATTTAA
Found at i:15615471 original size:18 final size:18
Alignment explanation
Indices: 15615444--15615480 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
15615434 ATATGATTTT
15615444 ACAAAAAAAAAAAAACAA
1 ACAAAAAAAAAAAAACAA
* *
15615462 ACAAACAAAACAAAACAA
1 ACAAAAAAAAAAAAACAA
15615480 A
1 A
15615481 AGCAAAAAGG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.84, C:0.16, G:0.00, T:0.00
Consensus pattern (18 bp):
ACAAAAAAAAAAAAACAA
Found at i:15618444 original size:21 final size:20
Alignment explanation
Indices: 15618393--15618444 Score: 50
Period size: 21 Copynumber: 2.5 Consensus size: 20
15618383 CTTTAGACAT
* *
15618393 TTAATTATTTAATTTTTTAA
1 TTAAATATTTAATTTTTAAA
**
15618413 TTTTATAATTTAATTTTTAAAA
1 TTAAAT-ATTTAATTTTT-AAA
15618435 TTAAATATTT
1 TTAAATATTT
15618445 TAATCACTTT
Statistics
Matches: 24, Mismatches: 6, Indels: 3
0.73 0.18 0.09
Matches are distributed among these distances:
20 3 0.12
21 15 0.62
22 6 0.25
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (20 bp):
TTAAATATTTAATTTTTAAA
Found at i:15621339 original size:17 final size:17
Alignment explanation
Indices: 15621317--15621350 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
15621307 ATCCACTAAT
*
15621317 CCACTACCACCAACAAC
1 CCACTACCAACAACAAC
15621334 CCACTACCAACAACAAC
1 CCACTACCAACAACAAC
15621351 AATCCACTAC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.44, C:0.50, G:0.00, T:0.06
Consensus pattern (17 bp):
CCACTACCAACAACAAC
Found at i:15625889 original size:17 final size:17
Alignment explanation
Indices: 15625867--15625900 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
15625857 ATCCACTAAT
*
15625867 CCACTACCACCAACAAC
1 CCACTACCAACAACAAC
15625884 CCACTACCAACAACAAC
1 CCACTACCAACAACAAC
15625901 AATCCACTAC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.44, C:0.50, G:0.00, T:0.06
Consensus pattern (17 bp):
CCACTACCAACAACAAC
Found at i:15626252 original size:50 final size:49
Alignment explanation
Indices: 15626129--15626282 Score: 182
Period size: 50 Copynumber: 3.0 Consensus size: 49
15626119 TGACCTCTTA
* * *
15626129 CTTATGAGATTTTCGGAATATCGCGATTTGTGATTTACGATCGCAAACTCCT
1 CTTATGAGATTTTCAGAATCTCGTGATTTGTGATTTACGATCGC-AA--CCT
*
15626181 ACTTATGAGATTTTCAGAATCTCATGATTTGCTGATTTACGATCGCAACCT
1 -CTTATGAGATTTTCAGAATCTCGTGATTTG-TGATTTACGATCGCAACCT
* * * *
15626232 CTTATGAGATTTTCAAAATCTTGTGGTTTGTTGATTTACGATTGCAACCT
1 CTTATGAGATTTTCAGAATCTCGTGATTTG-TGATTTACGATCGCAACCT
15626282 C
1 C
15626283 CTACTTACAA
Statistics
Matches: 90, Mismatches: 10, Indels: 5
0.86 0.10 0.05
Matches are distributed among these distances:
50 45 0.50
51 3 0.03
53 28 0.31
54 14 0.16
ACGTcount: A:0.25, C:0.18, G:0.18, T:0.39
Consensus pattern (49 bp):
CTTATGAGATTTTCAGAATCTCGTGATTTGTGATTTACGATCGCAACCT
Found at i:15626322 original size:54 final size:54
Alignment explanation
Indices: 15626053--15626360 Score: 183
Period size: 54 Copynumber: 5.8 Consensus size: 54
15626043 TGGATTCACG
* * * *
15626053 GATTTACGATCGCAACCT-CT-CATATACAAGATTTTCAGAATTTTACGGTTCACC
1 GATTTACGATCGCAACCTCCTAC-T-TACAAGATTTTCAGAATCTTACAGTTTATC
* *** * ** * * ** *
15626107 GATTTATGATCATGACCTCTTACTTATGAGATTTTCGGAATATCGC-GATTTGT-
1 GATTTACGATCGCAACCTCCTACTTACAAGATTTTCAGAATCTTACAG-TTTATC
* ** *
15626160 GATTTACGATCGCAAACTCCTACTTATGAGATTTTCAGAATC-T-CATGATTT-GC
1 GATTTACGATCGCAACCTCCTACTTACAAGATTTTCAGAATCTTACA-G-TTTATC
** * *** * *
15626213 TGATTTACGATCGCAA---CCT-CTTATGAGATTTTCAAAATCTTGTGGTTTGTT
1 -GATTTACGATCGCAACCTCCTACTTACAAGATTTTCAGAATCTTACAGTTTATC
*
15626264 GATTTACGATTGCAACCTCCTACTTACAAGATTTTCAGAATCTTACAGTTTATC
1 GATTTACGATCGCAACCTCCTACTTACAAGATTTTCAGAATCTTACAGTTTATC
* *
15626318 GATTTACAATCGCAACCTACC-GCTTACAAGATTTT-AGAATCTT
1 GATTTACGATCGCAACCT-CCTACTTACAAGATTTTCAGAATCTT
15626361 GTTGATGCCG
Statistics
Matches: 198, Mismatches: 41, Indels: 31
0.73 0.15 0.11
Matches are distributed among these distances:
50 36 0.18
51 6 0.03
53 51 0.26
54 100 0.51
55 4 0.02
56 1 0.01
ACGTcount: A:0.28, C:0.20, G:0.15, T:0.37
Consensus pattern (54 bp):
GATTTACGATCGCAACCTCCTACTTACAAGATTTTCAGAATCTTACAGTTTATC
Found at i:15626322 original size:104 final size:104
Alignment explanation
Indices: 15626053--15626337 Score: 276
Period size: 104 Copynumber: 2.7 Consensus size: 104
15626043 TGGATTCACG
* * * *
15626053 GATTTACGATCGCAACCT-CT-CATATACAAGATTTTCAGAATTTTACGGTTCACCGATTTATGA
1 GATTTACGATCGCAACCTCCTAC-T-TACAAGATTTTCAGAATCTTACAGTTTACCGATTTACGA
* **
15626116 TCATG-ACCTCTTACTTATGAGATTTTCGGAATATCGCGATTTGT
64 TC--GCAAC-C-TACTTATGAGATTTTCAAAATATCGCGATTTGT
* ** * *
15626160 GATTTACGATCGCAAACTCCTACTTATGAGATTTTCAGAATC-T-CATGATTTGCTGATTTACGA
1 GATTTACGATCGCAACCTCCTACTTACAAGATTTTCAGAATCTTACA-G-TTTACCGATTTACGA
* * * *
15626223 TCGCAACCT-CTTATGAGATTTTCAAAATCTTGTGGTTTGTT
64 TCGCAACCTACTTATGAGATTTTCAAAATATCGCGATTTG-T
* * *
15626264 GATTTACGATTGCAACCTCCTACTTACAAGATTTTCAGAATCTTACAGTTTATCGATTTACAATC
1 GATTTACGATCGCAACCTCCTACTTACAAGATTTTCAGAATCTTACAGTTTACCGATTTACGATC
15626329 GCAACCTAC
66 GCAACCTAC
15626338 CGCTTACAAG
Statistics
Matches: 145, Mismatches: 24, Indels: 20
0.77 0.13 0.11
Matches are distributed among these distances:
103 24 0.17
104 60 0.41
105 6 0.04
106 6 0.04
107 45 0.31
108 3 0.02
109 1 0.01
ACGTcount: A:0.28, C:0.20, G:0.15, T:0.37
Consensus pattern (104 bp):
GATTTACGATCGCAACCTCCTACTTACAAGATTTTCAGAATCTTACAGTTTACCGATTTACGATC
GCAACCTACTTATGAGATTTTCAAAATATCGCGATTTGT
Found at i:15626702 original size:24 final size:24
Alignment explanation
Indices: 15626675--15626975 Score: 212
Period size: 24 Copynumber: 12.5 Consensus size: 24
15626665 TACAGTTCGT
* *
15626675 ATAAATTTCTACTGCACAGCTAGC
1 ATAATTTTCTGCTGCACAGCTAGC
* * *
15626699 ATAATTTTCTGCTGTATAGCTCGC
1 ATAATTTTCTGCTGCACAGCTAGC
* * ** *
15626723 ATAAATTTTTTTCTATATAGCTAGC
1 AT-AATTTTCTGCTGCACAGCTAGC
* * * *
15626748 ATAATTTTCTGTTGTATAGCTTGC
1 ATAATTTTCTGCTGCACAGCTAGC
*
15626772 ATTATTTTCTGCTGCACAGCTAGC
1 ATAATTTTCTGCTGCACAGCTAGC
* **
15626796 ATAATTTTCTGTTGCACAATTCA-C
1 ATAATTTTCTGCTGCACAGCT-AGC
* * *
15626820 AT-ATTTTTTGTTGCAGAGCTAGC
1 ATAATTTTCTGCTGCACAGCTAGC
* * *
15626843 ATAATCTTCTACTCCACAGCTAGC
1 ATAATTTTCTGCTGCACAGCTAGC
* ** * *
15626867 ATAACTTTCTGCTATACAGTTCGC
1 ATAATTTTCTGCTGCACAGCTAGC
*
15626891 ATAATTTTCTACTGCACAGCTAGC
1 ATAATTTTCTGCTGCACAGCTAGC
* * * * * *
15626915 ATAATTTTTTGTTGTAGAGTTTGC
1 ATAATTTTCTGCTGCACAGCTAGC
*
15626939 ATAATTTT-TCGCTGCACAACTAGC
1 ATAATTTTCT-GCTGCACAGCTAGC
*
15626963 ATAATTTTTTGCT
1 ATAATTTTCTGCT
15626976 ACATAGCTTG
Statistics
Matches: 212, Mismatches: 59, Indels: 12
0.75 0.21 0.04
Matches are distributed among these distances:
22 1 0.00
23 18 0.08
24 171 0.81
25 22 0.10
ACGTcount: A:0.26, C:0.20, G:0.14, T:0.41
Consensus pattern (24 bp):
ATAATTTTCTGCTGCACAGCTAGC
Found at i:15626727 original size:48 final size:48
Alignment explanation
Indices: 15626649--15626809 Score: 187
Period size: 48 Copynumber: 3.3 Consensus size: 48
15626639 TCACCAGTTC
* * * *
15626649 GCATAATTTTTTGTTGTACAGTTCGTATAAATTTCTACTGCACAGCTA
1 GCATAATTTTCTGTTGTATAGCTCGCATAAATTTCTACTGCACAGCTA
* * * ** *
15626697 GCATAATTTTCTGCTGTATAGCTCGCATAAATTTTTTTCTATATAGCTA
1 GCATAATTTTCTGTTGTATAGCTCGCATAAA-TTTCTACTGCACAGCTA
* * * *
15626746 GCATAATTTTCTGTTGTATAGCTTGCATTATTTTCTGCTGCACAGCTA
1 GCATAATTTTCTGTTGTATAGCTCGCATAAATTTCTACTGCACAGCTA
15626794 GCATAATTTTCTGTTG
1 GCATAATTTTCTGTTG
15626810 CACAATTCAC
Statistics
Matches: 93, Mismatches: 19, Indels: 2
0.82 0.17 0.02
Matches are distributed among these distances:
48 54 0.58
49 39 0.42
ACGTcount: A:0.24, C:0.17, G:0.15, T:0.44
Consensus pattern (48 bp):
GCATAATTTTCTGTTGTATAGCTCGCATAAATTTCTACTGCACAGCTA
Found at i:15626843 original size:47 final size:48
Alignment explanation
Indices: 15626680--15626852 Score: 134
Period size: 49 Copynumber: 3.6 Consensus size: 48
15626670 TTCGTATAAA
* * * * * * *
15626680 TTTCTACTGCACAGCTAGCATAATTTTCTGCTGTATAGCTCGCATAAAT
1 TTTCTGCTGCACAGCTAGCATAATTTTCTGTTGCACAGATTGCA-ATAT
* * ** * * * * *
15626729 TTTTTTCTATATAGCTAGCATAATTTTCTGTTGTATAGCTTGCATTAT
1 TTTCTGCTGCACAGCTAGCATAATTTTCTGTTGCACAGATTGCAATAT
15626777 TTTCTGCTGCACAGCTAGCATAATTTTCTGTTGCACA-ATT-CACATAT
1 TTTCTGCTGCACAGCTAGCATAATTTTCTGTTGCACAGATTGCA-ATAT
* * * *
15626824 TTTTTGTTGCAGAGCTAGCATAATCTTCT
1 TTTCTGCTGCACAGCTAGCATAATTTTCT
15626853 ACTCCACAGC
Statistics
Matches: 101, Mismatches: 22, Indels: 4
0.80 0.17 0.03
Matches are distributed among these distances:
46 2 0.02
47 30 0.30
48 32 0.32
49 37 0.37
ACGTcount: A:0.24, C:0.19, G:0.14, T:0.43
Consensus pattern (48 bp):
TTTCTGCTGCACAGCTAGCATAATTTTCTGTTGCACAGATTGCAATAT
Found at i:15630207 original size:38 final size:39
Alignment explanation
Indices: 15630157--15630238 Score: 112
Period size: 38 Copynumber: 2.1 Consensus size: 39
15630147 CAATTTGACC
* *
15630157 TAATTTGATTCTTGTGCATAGTGTCATTATTTAGCCATA
1 TAATTTGATTCTTGTGCATAATATCATTATTTAGCCATA
* **
15630196 TAATTT-ATTCTTGTTCATAATATCATTATTTATTCATA
1 TAATTTGATTCTTGTGCATAATATCATTATTTAGCCATA
15630234 TAATT
1 TAATT
15630239 GACACCATTA
Statistics
Matches: 38, Mismatches: 5, Indels: 1
0.86 0.11 0.02
Matches are distributed among these distances:
38 32 0.84
39 6 0.16
ACGTcount: A:0.29, C:0.11, G:0.09, T:0.51
Consensus pattern (39 bp):
TAATTTGATTCTTGTGCATAATATCATTATTTAGCCATA
Found at i:15635343 original size:13 final size:14
Alignment explanation
Indices: 15635327--15635368 Score: 50
Period size: 13 Copynumber: 2.9 Consensus size: 14
15635317 TTTCAATTTT
15635327 ATTTTAATAATA-A
1 ATTTTAATAATATA
*
15635340 ATTTTAAAAATAATA
1 ATTTTAATAAT-ATA
15635355 ATTTTAAATAATAT
1 ATTTT-AATAATAT
15635369 TCTTCACATA
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
13 10 0.42
14 1 0.04
15 8 0.33
16 5 0.21
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (14 bp):
ATTTTAATAATATA
Found at i:15635353 original size:16 final size:16
Alignment explanation
Indices: 15635331--15635367 Score: 58
Period size: 16 Copynumber: 2.3 Consensus size: 16
15635321 AATTTTATTT
15635331 TAATAATAAATTTTAAA
1 TAATAAT-AATTTTAAA
15635348 -AATAATAATTTTAAA
1 TAATAATAATTTTAAA
15635363 TAATA
1 TAATA
15635368 TTCTTCACAT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
15 9 0.47
16 10 0.53
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (16 bp):
TAATAATAATTTTAAA
Found at i:15635533 original size:30 final size:29
Alignment explanation
Indices: 15635476--15635533 Score: 71
Period size: 29 Copynumber: 2.0 Consensus size: 29
15635466 CCAAATTTAC
* * **
15635476 AATTTAGTCTCTGTACTTTTATTTTTAAG
1 AATTTAGTCCCTCTACTTTTAGATTTAAG
15635505 AATTTAGTCCCTCTACTTTTTAGATTTAA
1 AATTTAGTCCCTCTAC-TTTTAGATTTAA
15635534 AAATCAAGTC
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
29 14 0.58
30 10 0.42
ACGTcount: A:0.26, C:0.14, G:0.09, T:0.52
Consensus pattern (29 bp):
AATTTAGTCCCTCTACTTTTAGATTTAAG
Found at i:15647401 original size:23 final size:24
Alignment explanation
Indices: 15647353--15647402 Score: 84
Period size: 24 Copynumber: 2.1 Consensus size: 24
15647343 TACCGAAGCT
*
15647353 ATTTAATAATCATCTTTTATAGAA
1 ATTTAATAATCATCTTTTATAAAA
15647377 ATTTAATAATCATC-TTTATAAAA
1 ATTTAATAATCATCTTTTATAAAA
15647400 ATT
1 ATT
15647403 ATAAAAAATA
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
23 11 0.44
24 14 0.56
ACGTcount: A:0.44, C:0.08, G:0.02, T:0.46
Consensus pattern (24 bp):
ATTTAATAATCATCTTTTATAAAA
Found at i:15647565 original size:19 final size:21
Alignment explanation
Indices: 15647523--15647597 Score: 63
Period size: 21 Copynumber: 3.8 Consensus size: 21
15647513 AGAAAAAACT
* *
15647523 AGAAAATTTTATAAATTCATA
1 AGAAAATTATAAAAATTCATA
15647544 AGAAAATTATAAAAATT-A-A
1 AGAAAATTATAAAAATTCATA
*
15647563 AG-AAA-TAT-AAAATTCTTA
1 AGAAAATTATAAAAATTCATA
*
15647581 A-AAAGAATATAAAAATT
1 AGAAA-ATTATAAAAATT
15647598 ATTGTATAAA
Statistics
Matches: 45, Mismatches: 3, Indels: 12
0.75 0.05 0.20
Matches are distributed among these distances:
16 6 0.13
17 3 0.07
18 7 0.16
19 4 0.09
20 4 0.09
21 21 0.47
ACGTcount: A:0.61, C:0.03, G:0.05, T:0.31
Consensus pattern (21 bp):
AGAAAATTATAAAAATTCATA
Found at i:15647837 original size:10 final size:9
Alignment explanation
Indices: 15647765--15647871 Score: 65
Period size: 9 Copynumber: 11.4 Consensus size: 9
15647755 TTTTGATGTA
15647765 TTTTATAAT
1 TTTTATAAT
*
15647774 TTTTTTAAT
1 TTTTATAAT
*
15647783 TTTTAATAAA
1 TTTT-ATAAT
* *
15647793 ATTTAAATAT
1 TTTTATA-AT
*
15647803 TTTTTTATAT
1 TTTTATA-AT
*
15647813 TTTTATTAAAA
1 TTTTA-T-AAT
*
15647824 TTTAATAAT
1 TTTTATAAT
*
15647833 TTTTATAAC
1 TTTTATAAT
*
15647842 TTTTATTGAT
1 TTTTA-TAAT
15647852 TTTTAT--T
1 TTTTATAAT
15647859 TTTTATAAT
1 TTTTATAAT
15647868 TTTT
1 TTTT
15647872 TGCTACATGT
Statistics
Matches: 74, Mismatches: 17, Indels: 14
0.70 0.16 0.13
Matches are distributed among these distances:
7 7 0.09
9 34 0.46
10 26 0.35
11 6 0.08
12 1 0.01
ACGTcount: A:0.33, C:0.01, G:0.01, T:0.65
Consensus pattern (9 bp):
TTTTATAAT
Found at i:15647847 original size:29 final size:29
Alignment explanation
Indices: 15647764--15647848 Score: 109
Period size: 30 Copynumber: 2.9 Consensus size: 29
15647754 TTTTTGATGT
* *
15647764 ATTTTATAATTTTTTTAATTTTTAATAAA
1 ATTTAATAATTTTTTTAATTTTTATTAAA
15647793 ATTTAA-ATATTTTTTTATATTTTTATTAAA
1 ATTTAATA-ATTTTTTTA-ATTTTTATTAAA
* *
15647823 ATTTAATAATTTTTATAACTTTTATT
1 ATTTAATAATTTTTTTAATTTTTATT
15647849 GATTTTTATT
Statistics
Matches: 49, Mismatches: 4, Indels: 6
0.83 0.07 0.10
Matches are distributed among these distances:
28 1 0.02
29 22 0.45
30 25 0.51
31 1 0.02
ACGTcount: A:0.36, C:0.01, G:0.00, T:0.62
Consensus pattern (29 bp):
ATTTAATAATTTTTTTAATTTTTATTAAA
Found at i:15649082 original size:28 final size:28
Alignment explanation
Indices: 15649027--15649083 Score: 69
Period size: 28 Copynumber: 2.0 Consensus size: 28
15649017 ATAATAAATA
**
15649027 TATTTTTTAAATTTTAAAAATATTTTTT
1 TATTTTTTAAATTTTAAAAATAAATTTT
** *
15649055 TATTTTTTTTATTTTTAAAATAAATTTT
1 TATTTTTTAAATTTTAAAAATAAATTTT
15649083 T
1 T
15649084 GGTGTTTATT
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
28 24 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (28 bp):
TATTTTTTAAATTTTAAAAATAAATTTT
Found at i:15649844 original size:21 final size:22
Alignment explanation
Indices: 15649795--15649842 Score: 78
Period size: 22 Copynumber: 2.2 Consensus size: 22
15649785 AATAAACACC
*
15649795 AAAAATTTATTTTAAAAATAAA
1 AAAAATATATTTTAAAAATAAA
*
15649817 AAAAATATATTTTAAAATTAAA
1 AAAAATATATTTTAAAAATAAA
15649839 AAAA
1 AAAA
15649843 TAAAAATATA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (22 bp):
AAAAATATATTTTAAAAATAAA
Found at i:15656221 original size:24 final size:22
Alignment explanation
Indices: 15656190--15656271 Score: 69
Period size: 22 Copynumber: 3.6 Consensus size: 22
15656180 ATTTTCACAA
15656190 AAAAATTCAATATCAATATCC-TTC
1 AAAAATTC--TATCAAT-TCCGTTC
*
15656214 AAAAATTCTCTCAATTCCGTTC
1 AAAAATTCTATCAATTCCGTTC
* **
15656236 AAAAATTCTCTCAAATTCTTTTC
1 AAAAATTCTATC-AATTCCGTTC
*
15656259 -AAAATTCTCTCAA
1 AAAAATTCTATCAA
15656272 ACTCTCAAAT
Statistics
Matches: 53, Mismatches: 3, Indels: 7
0.84 0.05 0.11
Matches are distributed among these distances:
21 5 0.09
22 32 0.60
23 8 0.15
24 8 0.15
ACGTcount: A:0.39, C:0.23, G:0.01, T:0.37
Consensus pattern (22 bp):
AAAAATTCTATCAATTCCGTTC
Found at i:15656236 original size:22 final size:21
Alignment explanation
Indices: 15656202--15656271 Score: 88
Period size: 22 Copynumber: 3.2 Consensus size: 21
15656192 AAATTCAATA
15656202 TCAATATCCTTCAAAAATTCTC
1 TCAAT-TCCTTCAAAAATTCTC
15656224 TCAATTCCGTTCAAAAATTCTC
1 TCAATTCC-TTCAAAAATTCTC
*
15656246 TCAAATTCTTTTC-AAAATTCTC
1 TC-AATTC-CTTCAAAAATTCTC
15656268 TCAA
1 TCAA
15656272 ACTCTCAAAT
Statistics
Matches: 44, Mismatches: 1, Indels: 7
0.85 0.02 0.13
Matches are distributed among these distances:
21 5 0.11
22 31 0.70
23 8 0.18
ACGTcount: A:0.34, C:0.26, G:0.01, T:0.39
Consensus pattern (21 bp):
TCAATTCCTTCAAAAATTCTC
Found at i:15656251 original size:10 final size:10
Alignment explanation
Indices: 15656238--15656283 Score: 51
Period size: 10 Copynumber: 4.6 Consensus size: 10
15656228 TTCCGTTCAA
15656238 AAATTCTCTC
1 AAATTCTCTC
*
15656248 AAATTCTTTTC
1 AAATTC-TCTC
15656259 AAAATTCTCTC
1 -AAATTCTCTC
15656270 AAA--CTCTC
1 AAATTCTCTC
15656278 AAATTC
1 AAATTC
15656284 CTTCCAAAAT
Statistics
Matches: 30, Mismatches: 2, Indels: 8
0.75 0.05 0.20
Matches are distributed among these distances:
8 8 0.27
10 10 0.33
11 6 0.20
12 6 0.20
ACGTcount: A:0.35, C:0.26, G:0.00, T:0.39
Consensus pattern (10 bp):
AAATTCTCTC
Found at i:15656272 original size:22 final size:23
Alignment explanation
Indices: 15656211--15656272 Score: 92
Period size: 22 Copynumber: 2.8 Consensus size: 23
15656201 ATCAATATCC
15656211 TTCAAAAATTCTCTC-AATTCCG
1 TTCAAAAATTCTCTCAAATTCCG
**
15656233 TTCAAAAATTCTCTCAAATTCTT
1 TTCAAAAATTCTCTCAAATTCCG
15656256 TTC-AAAATTCTCTCAAA
1 TTCAAAAATTCTCTCAAA
15656273 CTCTCAAATT
Statistics
Matches: 37, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
22 29 0.78
23 8 0.22
ACGTcount: A:0.35, C:0.24, G:0.02, T:0.39
Consensus pattern (23 bp):
TTCAAAAATTCTCTCAAATTCCG
Found at i:15656279 original size:30 final size:30
Alignment explanation
Indices: 15656243--15656301 Score: 91
Period size: 30 Copynumber: 2.0 Consensus size: 30
15656233 TTCAAAAATT
* * *
15656243 CTCTCAAATTCTTTTCAAAATTCTCTCAAA
1 CTCTCAAATTCCTTCCAAAATCCTCTCAAA
15656273 CTCTCAAATTCCTTCCAAAATCCTCTCAA
1 CTCTCAAATTCCTTCCAAAATCCTCTCAA
15656302 TTTCCTTCAA
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.32, C:0.32, G:0.00, T:0.36
Consensus pattern (30 bp):
CTCTCAAATTCCTTCCAAAATCCTCTCAAA
Found at i:15656312 original size:21 final size:22
Alignment explanation
Indices: 15656273--15656326 Score: 67
Period size: 22 Copynumber: 2.5 Consensus size: 22
15656263 TTCTCTCAAA
15656273 CTCTCAAATTCCTTCCAAAATC
1 CTCTCAAATTCCTTCCAAAATC
* *
15656295 CTCTCAATTTCCTTCAAAAAAT-
1 CTCTCAAATTCCTTC-CAAAATC
15656317 CTC-CAAATTC
1 CTCTCAAATTC
15656327 ATATTAAATT
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
21 6 0.21
22 17 0.61
23 5 0.18
ACGTcount: A:0.33, C:0.33, G:0.00, T:0.33
Consensus pattern (22 bp):
CTCTCAAATTCCTTCCAAAATC
Found at i:15656419 original size:28 final size:28
Alignment explanation
Indices: 15656358--15656419 Score: 74
Period size: 28 Copynumber: 2.2 Consensus size: 28
15656348 TAAATTTCAT
*
15656358 TATTTTAAGAAAATTTTAAATTTTTTAT
1 TATTTTAAGAAAATTTTAAATTTTTTAA
*
15656386 TTTTTTAA-AATAATTTT-AATATTTTTAA
1 TATTTTAAGAA-AATTTTAAAT-TTTTTAA
15656414 TATTTT
1 TATTTT
15656420 CAACAATGGC
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
27 5 0.17
28 24 0.83
ACGTcount: A:0.37, C:0.00, G:0.02, T:0.61
Consensus pattern (28 bp):
TATTTTAAGAAAATTTTAAATTTTTTAA
Found at i:15656509 original size:7 final size:7
Alignment explanation
Indices: 15656492--15656521 Score: 53
Period size: 7 Copynumber: 4.4 Consensus size: 7
15656482 ATGGTAAGTA
15656492 TTAAA-T
1 TTAAATT
15656498 TTAAATT
1 TTAAATT
15656505 TTAAATT
1 TTAAATT
15656512 TTAAATT
1 TTAAATT
15656519 TTA
1 TTA
15656522 TTTAAGATAT
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
6 5 0.22
7 18 0.78
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (7 bp):
TTAAATT
Found at i:15656546 original size:14 final size:15
Alignment explanation
Indices: 15656517--15656550 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
15656507 AAATTTTAAA
15656517 TTTTATTTAAGATAT
1 TTTTATTTAAGATAT
*
15656532 TTTTATTTATG-TAT
1 TTTTATTTAAGATAT
15656546 TTTTA
1 TTTTA
15656551 GATATTTATT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 8 0.44
15 10 0.56
ACGTcount: A:0.26, C:0.00, G:0.06, T:0.68
Consensus pattern (15 bp):
TTTTATTTAAGATAT
Found at i:15661342 original size:3 final size:3
Alignment explanation
Indices: 15661334--15661370 Score: 74
Period size: 3 Copynumber: 12.3 Consensus size: 3
15661324 CTTTCTTTTG
15661334 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
15661371 ATAACATATA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 34 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:15661593 original size:27 final size:27
Alignment explanation
Indices: 15661560--15661615 Score: 112
Period size: 27 Copynumber: 2.1 Consensus size: 27
15661550 ATTTACTTAG
15661560 CCAAGATCTAATTCATTACTAAACTAA
1 CCAAGATCTAATTCATTACTAAACTAA
15661587 CCAAGATCTAATTCATTACTAAACTAA
1 CCAAGATCTAATTCATTACTAAACTAA
15661614 CC
1 CC
15661616 TGATAAATAT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.43, C:0.25, G:0.04, T:0.29
Consensus pattern (27 bp):
CCAAGATCTAATTCATTACTAAACTAA
Found at i:15663181 original size:15 final size:14
Alignment explanation
Indices: 15663139--15663183 Score: 54
Period size: 15 Copynumber: 3.0 Consensus size: 14
15663129 AATATGCCAA
15663139 ACTAATTTTTTCAAT
1 ACTAATTTTTT-AAT
*
15663154 ACTCATTTCTTTAAT
1 ACTAATTT-TTTAAT
15663169 ACTTAATTTTTTAAT
1 AC-TAATTTTTTAAT
15663184 TTATTGTCGA
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
15 18 0.69
16 8 0.31
ACGTcount: A:0.31, C:0.13, G:0.00, T:0.56
Consensus pattern (14 bp):
ACTAATTTTTTAAT
Found at i:15669706 original size:35 final size:36
Alignment explanation
Indices: 15669645--15669726 Score: 121
Period size: 35 Copynumber: 2.3 Consensus size: 36
15669635 AATCCCTTCA
* *
15669645 AAACACACCAATTGCTCACAAGAGCTAATCCAACCG
1 AAACACGCCAATTGCTCACAAAAGCTAATCCAACCG
* *
15669681 AAACACGCCAA-TGCTCATAAAAGCTAGTCCAACCG
1 AAACACGCCAATTGCTCACAAAAGCTAATCCAACCG
15669716 AAACACGCCAA
1 AAACACGCCAA
15669727 ACAGAGAGTA
Statistics
Matches: 42, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
35 32 0.76
36 10 0.24
ACGTcount: A:0.43, C:0.33, G:0.12, T:0.12
Consensus pattern (36 bp):
AAACACGCCAATTGCTCACAAAAGCTAATCCAACCG
Found at i:15670448 original size:20 final size:22
Alignment explanation
Indices: 15670423--15670465 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
15670413 AATACATGGT
15670423 ATTCATC-AT-AAAAATTCAAA
1 ATTCATCAATGAAAAATTCAAA
*
15670443 ATTCATCAATGAAAACTTCAAA
1 ATTCATCAATGAAAAATTCAAA
15670465 A
1 A
15670466 AATTTTAACA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
20 7 0.35
21 2 0.10
22 11 0.55
ACGTcount: A:0.53, C:0.16, G:0.02, T:0.28
Consensus pattern (22 bp):
ATTCATCAATGAAAAATTCAAA
Found at i:15670819 original size:23 final size:23
Alignment explanation
Indices: 15670775--15670819 Score: 54
Period size: 23 Copynumber: 2.0 Consensus size: 23
15670765 TCAATTAGGG
* **
15670775 CTTAATTATCACTTAAGTCATTC
1 CTTAATTATCAATTAAACCATTC
*
15670798 CTTAATTATTAATTAAACCATT
1 CTTAATTATCAATTAAACCATT
15670820 TAATAACCTA
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.36, C:0.18, G:0.02, T:0.44
Consensus pattern (23 bp):
CTTAATTATCAATTAAACCATTC
Found at i:15677820 original size:18 final size:18
Alignment explanation
Indices: 15677789--15677831 Score: 50
Period size: 18 Copynumber: 2.4 Consensus size: 18
15677779 TCGAGTTTGG
* * *
15677789 CCATGCACACTATGCGTT
1 CCATGCAAAATATGCATT
15677807 CCATGCAAAATATGCATT
1 CCATGCAAAATATGCATT
*
15677825 TCATGCA
1 CCATGCA
15677832 TTCCATGCAA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.30, C:0.28, G:0.14, T:0.28
Consensus pattern (18 bp):
CCATGCAAAATATGCATT
Found at i:15677830 original size:27 final size:27
Alignment explanation
Indices: 15677800--15677868 Score: 93
Period size: 27 Copynumber: 2.6 Consensus size: 27
15677790 CATGCACACT
*
15677800 ATGCGTTCCATGCAAAATATGCATTTC
1 ATGCGTTCCATGCAAAACATGCATTTC
* *
15677827 ATGCATTCCATGCAACACATGCATTTC
1 ATGCGTTCCATGCAAAACATGCATTTC
**
15677854 ATGCGAACCATGCAA
1 ATGCGTTCCATGCAA
15677869 TGTGCTGCAT
Statistics
Matches: 36, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 36 1.00
ACGTcount: A:0.32, C:0.26, G:0.14, T:0.28
Consensus pattern (27 bp):
ATGCGTTCCATGCAAAACATGCATTTC
Found at i:15677847 original size:18 final size:18
Alignment explanation
Indices: 15677826--15677867 Score: 59
Period size: 18 Copynumber: 2.3 Consensus size: 18
15677816 ATATGCATTT
15677826 CATGCATTCCATGC-AAC
1 CATGCATTCCATGCGAAC
*
15677843 ACATGCATTTCATGCGAAC
1 -CATGCATTCCATGCGAAC
15677862 CATGCA
1 CATGCA
15677868 ATGTGCTGCA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 19 0.86
19 3 0.14
ACGTcount: A:0.31, C:0.31, G:0.14, T:0.24
Consensus pattern (18 bp):
CATGCATTCCATGCGAAC
Found at i:15679232 original size:17 final size:17
Alignment explanation
Indices: 15679206--15679241 Score: 63
Period size: 17 Copynumber: 2.1 Consensus size: 17
15679196 AATATTATTT
*
15679206 ATTAATTAAAATTTTCA
1 ATTAAATAAAATTTTCA
15679223 ATTAAATAAAATTTTCA
1 ATTAAATAAAATTTTCA
15679240 AT
1 AT
15679242 CTAATTCTAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.50, C:0.06, G:0.00, T:0.44
Consensus pattern (17 bp):
ATTAAATAAAATTTTCA
Found at i:15693084 original size:117 final size:121
Alignment explanation
Indices: 15692845--15693107 Score: 288
Period size: 117 Copynumber: 2.2 Consensus size: 121
15692835 AGCTATTTTG
* * * *
15692845 AACTTAAGCAAATTTTCCAAAATAAT--C-AGCTAGGAATATATAAATCTGCGAGCTATTTTGAA
1 AACTTAAACAAATATTCTAAAATAATCACTAGCTAGGAATATATAAATCTGCGAGCTATTCTGAA
* * * ** * *
15692907 CTTAAGCATATTTTCTAAAATAATCAGTTGGGAATATAAATCTGCGAGCTGTTTTA
66 CTTAAACAAATTTTCCAAAATAATCAACTGGGAATATAAATCTGCAAGCTGTTCTA
* * * * *
15692963 AACTTTAACAAATATTC-AAAA-AATCACTAGCTGGGAATATA-AATTC-GCGAGCTGTTCTGAG
1 AACTTAAACAAATATTCTAAAATAATCACTAGCTAGGAATATATAAATCTGCGAGCTATTCTGAA
* * *
15693024 CTTAAACAAATTTTCCAAAATCATCAACTGGGAATATAAATCTGCAAGTTGTTCTG
66 CTTAAACAAATTTTCCAAAATAATCAACTGGGAATATAAATCTGCAAGCTGTTCTA
* *
15693080 AACTTAAACATATTTTCTAAAATAATCA
1 AACTTAAACAAATATTCTAAAATAATCA
15693108 GTTGAGAATA
Statistics
Matches: 119, Mismatches: 21, Indels: 9
0.80 0.14 0.06
Matches are distributed among these distances:
116 3 0.03
117 76 0.64
118 23 0.19
119 17 0.14
ACGTcount: A:0.40, C:0.15, G:0.13, T:0.32
Consensus pattern (121 bp):
AACTTAAACAAATATTCTAAAATAATCACTAGCTAGGAATATATAAATCTGCGAGCTATTCTGAA
CTTAAACAAATTTTCCAAAATAATCAACTGGGAATATAAATCTGCAAGCTGTTCTA
Found at i:15693131 original size:58 final size:58
Alignment explanation
Indices: 15692843--15693122 Score: 296
Period size: 58 Copynumber: 4.8 Consensus size: 58
15692833 CAAGCTATTT
* * * *
15692843 TGAACTTAAGCAAATTTTCCAAAATAATCAGCTAGGAATATATAAATCTGCGAGCTATTT
1 TGAACTTAAACAAATTTTCCAAAATAATCAGCT-GGGA-ATATAAATCTGCGAGCTGTTC
* * * * *
15692903 TGAACTTAAGCATATTTTCTAAAATAATCAGTTGGGAATATAAATCTGCGAGCTGTTT
1 TGAACTTAAACAAATTTTCCAAAATAATCAGCTGGGAATATAAATCTGCGAGCTGTTC
* * *
15692961 TAAACTTTAACAAATATT-CAAAA-AATCACTAGCTGGGAATATAAAT-TCGCGAGCTGTTC
1 TGAACTTAAACAAATTTTCCAAAATAAT--C-AGCTGGGAATATAAATCT-GCGAGCTGTTC
* * * * *
15693020 TGAGCTTAAACAAATTTTCCAAAATCATCAACTGGGAATATAAATCTGCAAGTTGTTC
1 TGAACTTAAACAAATTTTCCAAAATAATCAGCTGGGAATATAAATCTGCGAGCTGTTC
* * * *
15693078 TGAACTTAAACATATTTTCTAAAATAATCAGTTGAGAATATAAAT
1 TGAACTTAAACAAATTTTCCAAAATAATCAGCTGGGAATATAAAT
15693123 TCGCAAGTTA
Statistics
Matches: 185, Mismatches: 28, Indels: 16
0.81 0.12 0.07
Matches are distributed among these distances:
56 3 0.02
57 4 0.02
58 97 0.52
59 44 0.24
60 35 0.19
61 2 0.01
ACGTcount: A:0.40, C:0.14, G:0.14, T:0.33
Consensus pattern (58 bp):
TGAACTTAAACAAATTTTCCAAAATAATCAGCTGGGAATATAAATCTGCGAGCTGTTC
Found at i:15693303 original size:70 final size:70
Alignment explanation
Indices: 15693199--15693817 Score: 604
Period size: 70 Copynumber: 8.8 Consensus size: 70
15693189 ATTCTAGCAT
* * * * * * *
15693199 TATGAAATCAGCTAGCCTTGCAATTACAGTTGGGAGCTTTTAAGTCTCGCTAACAGTTTAAAGAC
1 TATGAAATCAGCGAGCCTTGAAATTACAGCTGGGAGCTTTTAACTCTCGCTAACTGTTTGAAGGC
* *
15693264 TACAA
66 TGCGA
* * * * * *
15693269 TATGAAATCAGCGAGCCTTGGAATTACAACTGGGAGTTTTTAACTATTGCTAACTGTTTGAAGGT
1 TATGAAATCAGCGAGCCTTGAAATTACAGCTGGGAGCTTTTAACTCTCGCTAACTGTTTGAAGGC
*
15693334 TGCAA
66 TGCGA
* * * * * *
15693339 TATGAAATCAGCGAGTCTTGAAATTACAGCTGAGAGCGTTTAGCTCTCACTAATTGTTTGGAA-G
1 TATGAAATCAGCGAGCCTTGAAATTACAGCTGGGAGCTTTTAACTCTCGCTAACTGTTT-GAAGG
**
15693403 CCACGA
65 CTGCGA
* * * * *
15693409 TATGAAATTAGCGAGCCTTGAAATTACAACTGGGAGCTTTTAACTCTTGCTAACTATTTGAAGGT
1 TATGAAATCAGCGAGCCTTGAAATTACAGCTGGGAGCTTTTAACTCTCGCTAACTGTTTGAAGGC
15693474 TGCGA
66 TGCGA
* * *
15693479 TATGAAATCAGCGAGCCTTGAAATTATAGCTGAGAGCTTTTAACTCTCGCTAACTGTTTGGAGGC
1 TATGAAATCAGCGAGCCTTGAAATTACAGCTGGGAGCTTTTAACTCTCGCTAACTGTTTGAAGGC
* *
15693544 CGCAA
66 TGCGA
* * * ** *
15693549 TATGAAATCAACAAGCCTTGAAATTACAGTTAAGAGCTTTTAACT-T-GCTAACTGTTTGGAGG-
1 TATGAAATCAGCGAGCCTTGAAATTACAGCTGGGAGCTTTTAACTCTCGCTAACTGTTTGAAGGC
15693611 TCGCGA
66 T-GCGA
* * * *
15693617 TATGAAATTAGCGAGCCTTGAAATTACAACTGGGAGCTTTTAACTCTAGCTAACTATTT-AGAGG
1 TATGAAATCAGCGAGCCTTGAAATTACAGCTGGGAGCTTTTAACTCTCGCTAACTGTTTGA-AGG
*
15693681 CCGCGA
65 CTGCGA
* * * * * * *
15693687 TATGAAATCAGCGAGCCTTGAAATTATAGTTAGGAGCTTTTAACTATCACTTACCGTTTGTTTGG
1 TATGAAATCAGCGAGCCTTGAAATTACAGCTGGGAGCTTTTAACTCTCGC-TAAC---TGTTTGA
*
15693752 AGG-TCGCAA
62 AGGCT-GCGA
* **
15693761 TATGAAA-CTAGCGAGCCTTGAAATTACAACTACGAGCTTTTAACTCTCGCTAACTGT
1 TATGAAATC-AGCGAGCCTTGAAATTACAGCTGGGAGCTTTTAACTCTCGCTAACTGT
15693818 AACACCCCTA
Statistics
Matches: 447, Mismatches: 88, Indels: 28
0.79 0.16 0.05
Matches are distributed among these distances:
68 57 0.13
69 5 0.01
70 323 0.72
71 6 0.01
73 4 0.01
74 52 0.12
ACGTcount: A:0.31, C:0.18, G:0.21, T:0.31
Consensus pattern (70 bp):
TATGAAATCAGCGAGCCTTGAAATTACAGCTGGGAGCTTTTAACTCTCGCTAACTGTTTGAAGGC
TGCGA
Found at i:15696517 original size:70 final size:70
Alignment explanation
Indices: 15696402--15696557 Score: 242
Period size: 70 Copynumber: 2.2 Consensus size: 70
15696392 GGCCGTTACA
* *
15696402 CTAACTGTTTAGAGGCCGCGATATGAAATCAACGAGCCTTAAAATTACAGCTGGGAGCTTTTGAA
1 CTAACTATTTAGAGGCCGCGATATGAAATCAACGAGCCTTAAAATTACAGCAGGGAGCTTTT-AA
*
15696467 -TCTTG
65 CTCTCG
* *
15696472 CTAACTATTTAGAGGTCGCGATATGAAATCAACGAGCCTTGAAATTACAGCAGGGAGCTTTTAAC
1 CTAACTATTTAGAGGCCGCGATATGAAATCAACGAGCCTTAAAATTACAGCAGGGAGCTTTTAAC
15696537 TCTCG
66 TCTCG
*
15696542 CTAACTATTTGGAGGC
1 CTAACTATTTAGAGGC
15696558 ACATCATGAT
Statistics
Matches: 78, Mismatches: 7, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
69 2 0.03
70 76 0.97
ACGTcount: A:0.30, C:0.19, G:0.22, T:0.28
Consensus pattern (70 bp):
CTAACTATTTAGAGGCCGCGATATGAAATCAACGAGCCTTAAAATTACAGCAGGGAGCTTTTAAC
TCTCG
Found at i:15699279 original size:19 final size:19
Alignment explanation
Indices: 15699255--15699301 Score: 51
Period size: 19 Copynumber: 2.5 Consensus size: 19
15699245 AAAATAAAAT
**
15699255 AAAATAAAATTATATTTTA-
1 AAAATAAAA-TATATGCTAC
*
15699274 AAAATAGAATATATGCTAC
1 AAAATAAAATATATGCTAC
15699293 AAAATAAAA
1 AAAATAAAA
15699302 ATACTATTGT
Statistics
Matches: 23, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
18 7 0.30
19 16 0.70
ACGTcount: A:0.62, C:0.04, G:0.04, T:0.30
Consensus pattern (19 bp):
AAAATAAAATATATGCTAC
Found at i:15699532 original size:18 final size:18
Alignment explanation
Indices: 15699502--15699540 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
15699492 GACCCACTAT
*
15699502 TTTTAATATATTTTAAAA
1 TTTTAATATATTTAAAAA
15699520 TTTT-ATATAATTTAAAAA
1 TTTTAATAT-ATTTAAAAA
15699538 TTT
1 TTT
15699541 ACATTTAAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 4 0.21
18 15 0.79
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (18 bp):
TTTTAATATATTTAAAAA
Found at i:15699533 original size:17 final size:17
Alignment explanation
Indices: 15699502--15699541 Score: 53
Period size: 17 Copynumber: 2.3 Consensus size: 17
15699492 GACCCACTAT
*
15699502 TTTTAATATATTTTAAAA
1 TTTT-ATATAATTTAAAA
15699520 TTTTATATAATTTAAAA
1 TTTTATATAATTTAAAA
*
15699537 ATTTA
1 TTTTA
15699542 CATTTAAAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
17 16 0.80
18 4 0.20
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (17 bp):
TTTTATATAATTTAAAA
Found at i:15707325 original size:56 final size:56
Alignment explanation
Indices: 15707254--15707366 Score: 226
Period size: 56 Copynumber: 2.0 Consensus size: 56
15707244 GGATTTTCCA
15707254 ACTCTTATTGCAATTTCATGGATTTCTTTGTCATCCGTTTTATCTGTTTAATGAAT
1 ACTCTTATTGCAATTTCATGGATTTCTTTGTCATCCGTTTTATCTGTTTAATGAAT
15707310 ACTCTTATTGCAATTTCATGGATTTCTTTGTCATCCGTTTTATCTGTTTAATGAAT
1 ACTCTTATTGCAATTTCATGGATTTCTTTGTCATCCGTTTTATCTGTTTAATGAAT
15707366 A
1 A
15707367 AATGTCTTGC
Statistics
Matches: 57, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
56 57 1.00
ACGTcount: A:0.22, C:0.16, G:0.12, T:0.50
Consensus pattern (56 bp):
ACTCTTATTGCAATTTCATGGATTTCTTTGTCATCCGTTTTATCTGTTTAATGAAT
Found at i:15711935 original size:10 final size:10
Alignment explanation
Indices: 15711922--15711962 Score: 52
Period size: 10 Copynumber: 4.4 Consensus size: 10
15711912 TTAAGTTAAA
15711922 TTTAAAAT-T
1 TTTAAAATAT
*
15711931 TTT-TAAT-T
1 TTTAAAATAT
15711939 TTTAAAATAT
1 TTTAAAATAT
15711949 TTTAAAATAT
1 TTTAAAATAT
15711959 TTTA
1 TTTA
15711963 TTTTGTTAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
8 7 0.25
9 6 0.21
10 15 0.54
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (10 bp):
TTTAAAATAT
Found at i:15713921 original size:24 final size:24
Alignment explanation
Indices: 15713894--15713943 Score: 64
Period size: 24 Copynumber: 2.1 Consensus size: 24
15713884 CGATAGAGAC
*
15713894 GAAGCCGAAAGTAGAGATGAAGAT
1 GAAGACGAAAGTAGAGATGAAGAT
** *
15713918 GAAGACGACGGTGGAGATGAAGAT
1 GAAGACGAAAGTAGAGATGAAGAT
15713942 GA
1 GA
15713944 GTACGAGGGT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.42, C:0.08, G:0.38, T:0.12
Consensus pattern (24 bp):
GAAGACGAAAGTAGAGATGAAGAT
Found at i:15717330 original size:23 final size:23
Alignment explanation
Indices: 15717270--15717353 Score: 93
Period size: 23 Copynumber: 3.8 Consensus size: 23
15717260 CTTGATCAGT
15717270 ATACGACACAT-AAGTGCCTGAA
1 ATACGACACATAAAGTGCCTGAA
****
15717292 AT--GACACACGGGGTGCCTGAA
1 ATACGACACATAAAGTGCCTGAA
*
15717313 ATACGACACATAAAGTGCCTGAT
1 ATACGACACATAAAGTGCCTGAA
*
15717336 ATACAACACATAAAGTGC
1 ATACGACACATAAAGTGC
15717354 ATGACCGGCA
Statistics
Matches: 50, Mismatches: 9, Indels: 5
0.78 0.14 0.08
Matches are distributed among these distances:
20 6 0.12
21 11 0.22
22 2 0.04
23 31 0.62
ACGTcount: A:0.39, C:0.23, G:0.20, T:0.18
Consensus pattern (23 bp):
ATACGACACATAAAGTGCCTGAA
Found at i:15718354 original size:9 final size:9
Alignment explanation
Indices: 15718342--15718380 Score: 53
Period size: 9 Copynumber: 4.3 Consensus size: 9
15718332 TTTCATTTTT
15718342 ATTTCTTTA
1 ATTTCTTTA
15718351 ATTTCTTTA
1 ATTTCTTTA
15718360 ATTTACTTT-
1 ATTT-CTTTA
*
15718369 ATTTTTTTA
1 ATTTCTTTA
15718378 ATT
1 ATT
15718381 ATAATAATAT
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
8 3 0.11
9 20 0.74
10 4 0.15
ACGTcount: A:0.23, C:0.08, G:0.00, T:0.69
Consensus pattern (9 bp):
ATTTCTTTA
Found at i:15722828 original size:62 final size:57
Alignment explanation
Indices: 15722740--15722864 Score: 160
Period size: 62 Copynumber: 2.1 Consensus size: 57
15722730 TCCAAAAATA
* * * *
15722740 ATATTATTTTAATAGTTTAGTATTAAATTTAATTTACTGTTTATCTTATAGATAAATATT
1 ATATTATTTTAATAGTTTAATATTAAATTTAATATAATATTTATC-T-T-GATAAATATT
*
15722800 CTATTATTTTAATAAGATTTAATATTAAATTTAATATAATATTTATCTTGATAAATATT
1 ATATTATTTTAAT-AG-TTTAATATTAAATTTAATATAATATTTATCTTGATAAATATT
15722859 ATATTA
1 ATATTA
15722865 ATTAAATATT
Statistics
Matches: 57, Mismatches: 6, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
59 15 0.26
60 13 0.23
61 3 0.05
62 26 0.46
ACGTcount: A:0.40, C:0.03, G:0.05, T:0.52
Consensus pattern (57 bp):
ATATTATTTTAATAGTTTAATATTAAATTTAATATAATATTTATCTTGATAAATATT
Found at i:15728840 original size:29 final size:29
Alignment explanation
Indices: 15728794--15728858 Score: 121
Period size: 29 Copynumber: 2.2 Consensus size: 29
15728784 CGAGACTATA
15728794 TTGCTCACACAAGCTGACAGTGATCAGGG
1 TTGCTCACACAAGCTGACAGTGATCAGGG
*
15728823 TTGCTCACACAAGTTGACAGTGATCAGGG
1 TTGCTCACACAAGCTGACAGTGATCAGGG
15728852 TTGCTCA
1 TTGCTCA
15728859 GGCTAAACCA
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 35 1.00
ACGTcount: A:0.26, C:0.23, G:0.26, T:0.25
Consensus pattern (29 bp):
TTGCTCACACAAGCTGACAGTGATCAGGG
Found at i:15733907 original size:4 final size:4
Alignment explanation
Indices: 15733898--15733964 Score: 116
Period size: 4 Copynumber: 16.8 Consensus size: 4
15733888 TGCATTAGAC
15733898 ATAG ATAG ATAG ATAG ATAG ATAG ATAG ATAG ATAG ATAG ATAG ATAG
1 ATAG ATAG ATAG ATAG ATAG ATAG ATAG ATAG ATAG ATAG ATAG ATAG
* *
15733946 ATAG ATGG ATGG ATAG ATA
1 ATAG ATAG ATAG ATAG ATA
15733965 CCTCAAGGAC
Statistics
Matches: 61, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
4 61 1.00
ACGTcount: A:0.48, C:0.00, G:0.27, T:0.25
Consensus pattern (4 bp):
ATAG
Found at i:15736420 original size:50 final size:50
Alignment explanation
Indices: 15736366--15736464 Score: 164
Period size: 50 Copynumber: 2.0 Consensus size: 50
15736356 CAAATTGGAT
*
15736366 ATTAACCTTTGAATTAATG-TCTCACCTCACTTTTTCATTAAGGTTGTTAC
1 ATTAACCCTTGAATTAATGTTCT-ACCTCACTTTTTCATTAAGGTTGTTAC
*
15736416 ATTAACCCTTGAATTAATGTTCTACCTCACTTTTTCGTTAAGGTTGTTA
1 ATTAACCCTTGAATTAATGTTCTACCTCACTTTTTCATTAAGGTTGTTA
15736465 GGACAATTAA
Statistics
Matches: 46, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
50 43 0.93
51 3 0.07
ACGTcount: A:0.25, C:0.19, G:0.11, T:0.44
Consensus pattern (50 bp):
ATTAACCCTTGAATTAATGTTCTACCTCACTTTTTCATTAAGGTTGTTAC
Found at i:15737507 original size:5 final size:5
Alignment explanation
Indices: 15737499--15737529 Score: 53
Period size: 5 Copynumber: 6.2 Consensus size: 5
15737489 TAAATAAGTA
*
15737499 ATTAT ATTAT ATTAT ATTAT ACTAT ATTAT A
1 ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT A
15737530 AACAAATAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
5 24 1.00
ACGTcount: A:0.42, C:0.03, G:0.00, T:0.55
Consensus pattern (5 bp):
ATTAT
Found at i:15737607 original size:16 final size:17
Alignment explanation
Indices: 15737576--15737611 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 17
15737566 ACGAAAACAG
15737576 AGAAACAAAAACGAAAA
1 AGAAACAAAAACGAAAA
*
15737593 AGAAAGAAAAA-GAAAA
1 AGAAACAAAAACGAAAA
15737609 AGA
1 AGA
15737612 GAAAGAAGGA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 8 0.44
17 10 0.56
ACGTcount: A:0.78, C:0.06, G:0.17, T:0.00
Consensus pattern (17 bp):
AGAAACAAAAACGAAAA
Found at i:15738572 original size:22 final size:22
Alignment explanation
Indices: 15738543--15738599 Score: 80
Period size: 22 Copynumber: 2.6 Consensus size: 22
15738533 CTAGTACGAC
15738543 AGTGCTCTCTGTTTAGCACATTT
1 AGTGCTCTCTGTTTAGCAC-TTT
*
15738566 -GTGCTCTATGTTTAGCACTTT
1 AGTGCTCTCTGTTTAGCACTTT
*
15738587 AGTACTCTCTGTT
1 AGTGCTCTCTGTT
15738600 CATTAGTGCA
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
21 3 0.10
22 27 0.90
ACGTcount: A:0.16, C:0.21, G:0.18, T:0.46
Consensus pattern (22 bp):
AGTGCTCTCTGTTTAGCACTTT
Found at i:15746659 original size:42 final size:42
Alignment explanation
Indices: 15746612--15746696 Score: 134
Period size: 42 Copynumber: 2.0 Consensus size: 42
15746602 TTCTTGACTA
*
15746612 ATATAAAAAACATAGTGAAACATCACATCTAATTTATAACTC
1 ATATAAAAAACATAATGAAACATCACATCTAATTTATAACTC
* * *
15746654 ATATAACAAACATAATGAAACATCACGTCTAATTTATGACTC
1 ATATAAAAAACATAATGAAACATCACATCTAATTTATAACTC
15746696 A
1 A
15746697 AACATAATGA
Statistics
Matches: 39, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
42 39 1.00
ACGTcount: A:0.48, C:0.18, G:0.06, T:0.28
Consensus pattern (42 bp):
ATATAAAAAACATAATGAAACATCACATCTAATTTATAACTC
Found at i:15749213 original size:35 final size:35
Alignment explanation
Indices: 15749167--15749237 Score: 142
Period size: 35 Copynumber: 2.0 Consensus size: 35
15749157 AATTTTCATC
15749167 GACAACTAATTTTTGTTTTTTTCAAAAATGAAAAT
1 GACAACTAATTTTTGTTTTTTTCAAAAATGAAAAT
15749202 GACAACTAATTTTTGTTTTTTTCAAAAATGAAAAT
1 GACAACTAATTTTTGTTTTTTTCAAAAATGAAAAT
15749237 G
1 G
15749238 GTTTCGACAT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 36 1.00
ACGTcount: A:0.39, C:0.08, G:0.10, T:0.42
Consensus pattern (35 bp):
GACAACTAATTTTTGTTTTTTTCAAAAATGAAAAT
Found at i:15750876 original size:88 final size:89
Alignment explanation
Indices: 15750727--15750908 Score: 348
Period size: 88 Copynumber: 2.1 Consensus size: 89
15750717 CACCACTAAA
15750727 GGAGATAGTAGCTACGCCGAGGAGAGACGACATTTCGGAGGAGAAGTGGATGGCAATTCTTCAAA
1 GGAGATAGTAGCTACGCCGAGGAGAGACGACATTTCGGAGGAGAAGTGGATGGCAATTCTTCAAA
*
15750792 ATCTTCAGGAGGGGGACGTTAAG-
66 ATCTTCAGGAGGAGGACGTTAAGT
15750815 GGAGATAGTAGCTACGCCGAGGAGAGACGACATTTCGGAGGAGAAGTGGATGGCAATTCTTCAAA
1 GGAGATAGTAGCTACGCCGAGGAGAGACGACATTTCGGAGGAGAAGTGGATGGCAATTCTTCAAA
15750880 ATCTTCAGGAGGAGGACGTTAAGT
66 ATCTTCAGGAGGAGGACGTTAAGT
15750904 GGAGA
1 GGAGA
15750909 GCTCCTTGGT
Statistics
Matches: 92, Mismatches: 1, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
88 87 0.95
89 5 0.05
ACGTcount: A:0.31, C:0.14, G:0.35, T:0.19
Consensus pattern (89 bp):
GGAGATAGTAGCTACGCCGAGGAGAGACGACATTTCGGAGGAGAAGTGGATGGCAATTCTTCAAA
ATCTTCAGGAGGAGGACGTTAAGT
Found at i:15759077 original size:26 final size:25
Alignment explanation
Indices: 15759034--15759082 Score: 64
Period size: 26 Copynumber: 1.9 Consensus size: 25
15759024 CAGAATTTTT
15759034 TTGTTCTTGTAATGCTTTATTCTTCA
1 TTGTTCTTGTAATGCTTT-TTCTTCA
*
15759060 TTGTTCTTG-AATATCTTTTTCTT
1 TTGTTCTTGTAAT-GCTTTTTCTT
15759083 TTCAAGACAC
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
25 8 0.38
26 13 0.62
ACGTcount: A:0.14, C:0.14, G:0.10, T:0.61
Consensus pattern (25 bp):
TTGTTCTTGTAATGCTTTTTCTTCA
Found at i:15759616 original size:44 final size:44
Alignment explanation
Indices: 15759504--15760457 Score: 787
Period size: 44 Copynumber: 21.5 Consensus size: 44
15759494 TACTGGTGGC
* * *** * * *
15759504 GAAGTAGATCGAAGAAAGTAGATCTTGTCTTCCCATACTGGTGGC
1 GAAGTAGATCGAAGATAGCAGATCTTGTCTTCATGTATTGG-CGT
* * * *
15759549 GAAGTAGATCGAAGAAAGTAGATCTTGTCTTCATGTATCGGCAT
1 GAAGTAGATCGAAGATAGCAGATCTTGTCTTCATGTATTGGCGT
* * *
15759593 GAAGTAGATCAAAGGTAGCAGATCTTATCTTCATGTATTGGCGT
1 GAAGTAGATCGAAGATAGCAGATCTTGTCTTCATGTATTGGCGT
*** * * *
15759637 GAAGTAGATCGAAGATAGCAGATCTTGTCTTCCCATACTGGTGGC
1 GAAGTAGATCGAAGATAGCAGATCTTGTCTTCATGTATTGG-CGT
*
15759682 GAAGTAGATCGAAGAAAGCAGATCTTGTCTTCATGTATTGGCGT
1 GAAGTAGATCGAAGATAGCAGATCTTGTCTTCATGTATTGGCGT
* * *
15759726 GAAGTAGATCAAAGATAGTAGATCTTGTCTTCATGTATTGGTGT
1 GAAGTAGATCGAAGATAGCAGATCTTGTCTTCATGTATTGGCGT
* * * * * *
15759770 GAAGTAGATCGAAGATAACAGATATTGTCTTC-TCATACTGGTGGC
1 GAAGTAGATCGAAGATAGCAGATCTTGTCTTCAT-GTATTGG-CGT
* * * * *
15759815 GAAGTTAGATCGAAGATAGCAGATCCTGTCTTCCTATGTTGGTAG-
1 GAAG-TAGATCGAAGATAGCAGATCTTGTCTTCATGTATTGG-CGT
* *** * * *
15759860 GAAGTGGATCGAAGAT-GCAGATCTTGTCTTCCCATACTGGTGGC
1 GAAGTAGATCGAAGATAGCAGATCTTGTCTTCATGTATTGG-CGT
* * *
15759904 GAAGTAGATCGAAGAAAGTAAATCTTGTCTTCATGTATTGGCGT
1 GAAGTAGATCGAAGATAGCAGATCTTGTCTTCATGTATTGGCGT
* * * *
15759948 GAAGTAGATCGAAGATAGCAGATCCTGTCTTCCTATATTGGTAG-
1 GAAGTAGATCGAAGATAGCAGATCTTGTCTTCATGTATTGG-CGT
* * *
15759992 GAAGTGGATCGAAGAT-GCAGATCTTGTCTTCCCATACTAGTGGC--
1 GAAGTAGATCGAAGATAGCAGATCTTGTCTT--CAT-GTATTGGCGT
* * *
15760036 AAAATAGATCGAAGAAAGCAGATCTTGTCTTCATGTATTGGCGT
1 GAAGTAGATCGAAGATAGCAGATCTTGTCTTCATGTATTGGCGT
* * * * *
15760080 GAAGTAGATCGAAGATAGCAGAACCTGTCTTCCTATATTGGTAG-
1 GAAGTAGATCGAAGATAGCAGATCTTGTCTTCATGTATTGG-CGT
* * *** * *
15760124 GAAGTGGATCGAAGAT-GCAGATCTTGTCTCCCCATATTGGTGGC
1 GAAGTAGATCGAAGATAGCAGATCTTGTCTTCATGTATTGG-CGT
* * * **
15760168 GAAGTAGATCGAAAAAAGCAGATCTTGTCTTCATGTATCGGTAT
1 GAAGTAGATCGAAGATAGCAGATCTTGTCTTCATGTATTGGCGT
* * * *
15760212 GAAGTAGATCAAAGGTAGCAGATCTTGTCTTCACGTATTGGTGT
1 GAAGTAGATCGAAGATAGCAGATCTTGTCTTCATGTATTGGCGT
15760256 GAAGTAGATCGAAGAT-GACAGATCTTGTCTTCATGTATTGGCGT
1 GAAGTAGATCGAAGATAG-CAGATCTTGTCTTCATGTATTGGCGT
* * *** * * *
15760300 GAAATAGATCCAAGATAGCAGATCTTGTCTTCCCATACTGGTGGC
1 GAAGTAGATCGAAGATAGCAGATCTTGTCTTCATGTATTGG-CGT
* * ** *
15760345 GAAATAGATCGAAGAAAATAGATCTTGTCTTCATGTATTGGCAT
1 GAAGTAGATCGAAGATAGCAGATCTTGTCTTCATGTATTGGCGT
* ** * * **
15760389 GAAGTAGATC-AAGGATAACAGATCTTACCTTCCTGTACTGATAGT
1 GAAGTAGATCGAA-GATAGCAGATCTTGTCTTCATGTATTG-GCGT
* *
15760434 GAAGTAGATCAAAAATAGCAGATC
1 GAAGTAGATCGAAGATAGCAGATC
15760458 ATATCCAGTC
Statistics
Matches: 735, Mismatches: 151, Indels: 46
0.79 0.16 0.05
Matches are distributed among these distances:
42 6 0.01
43 64 0.09
44 433 0.59
45 192 0.26
46 39 0.05
47 1 0.00
ACGTcount: A:0.30, C:0.16, G:0.25, T:0.29
Consensus pattern (44 bp):
GAAGTAGATCGAAGATAGCAGATCTTGTCTTCATGTATTGGCGT
Found at i:15759662 original size:88 final size:89
Alignment explanation
Indices: 15759504--15760457 Score: 896
Period size: 88 Copynumber: 10.8 Consensus size: 89
15759494 TACTGGTGGC
* * * * * * *
15759504 GAAGTAGATCGAAGAAAGTAGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCGAAGAAAGTA
1 GAAGTAGATCGAAGATAGCAGATCTTGTCTTCCTATATTGGTGGTGAAGTAGATCGAAGATAGCA
*
15759569 GATCTTGTCTTCATGTATCGGCAT
66 GATCTTGTCTTCATGTATTGGCAT
* * * * * *
15759593 GAAGTAGATCAAAGGTAGCAGATCTTATCTTCATGTATTGG-CGTGAAGTAGATCGAAGATAGCA
1 GAAGTAGATCGAAGATAGCAGATCTTGTCTTCCTATATTGGTGGTGAAGTAGATCGAAGATAGCA
* **
15759657 GATCTTGTCTTCCCATACTGGTGGC--
66 GATCTTGTCTT--CAT-GTATTGGCAT
* * * * * *
15759682 GAAGTAGATCGAAGAAAGCAGATCTTGTCTTCATGTATTGG-CGTGAAGTAGATCAAAGATAGTA
1 GAAGTAGATCGAAGATAGCAGATCTTGTCTTCCTATATTGGTGGTGAAGTAGATCGAAGATAGCA
**
15759746 GATCTTGTCTTCATGTATTGGTGT
66 GATCTTGTCTTCATGTATTGGCAT
* * * *
15759770 GAAGTAGATCGAAGATAACAGATATTGTCTT-CTCATACTGGTGGCGAAGTTAGATCGAAGATAG
1 GAAGTAGATCGAAGATAGCAGATCTTGTCTTCCT-ATATTGGTGGTGAAG-TAGATCGAAGATAG
* * * * * *
15759834 CAGATCCTGTCTTCCTATGTTGGTAG
64 CAGATCTTGTCTTCATGTATTGGCAT
* * * * * *
15759860 GAAGTGGATCGAAGAT-GCAGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCGAAGAAAGTA
1 GAAGTAGATCGAAGATAGCAGATCTTGTCTTCCTATATTGGTGGTGAAGTAGATCGAAGATAGCA
* *
15759924 AATCTTGTCTTCATGTATTGGCGT
66 GATCTTGTCTTCATGTATTGGCAT
* * *
15759948 GAAGTAGATCGAAGATAGCAGATCCTGTCTTCCTATATTGGTAG-GAAGTGGATCGAAGAT-GCA
1 GAAGTAGATCGAAGATAGCAGATCTTGTCTTCCTATATTGGTGGTGAAGTAGATCGAAGATAGCA
* *
15760011 GATCTTGTCTTCCCATACTAGTGGCA-
66 GATCTTGTCTT--CAT-GTATTGGCAT
* * * * *
15760037 -AAATAGATCGAAGAAAGCAGATCTTGTCTTCATGTATTGG-CGTGAAGTAGATCGAAGATAGCA
1 GAAGTAGATCGAAGATAGCAGATCTTGTCTTCCTATATTGGTGGTGAAGTAGATCGAAGATAGCA
* * * * * *
15760100 GAACCTGTCTTCCTATATTGGTAG
66 GATCTTGTCTTCATGTATTGGCAT
* * * * * *
15760124 GAAGTGGATCGAAGAT-GCAGATCTTGTCTCCCCATATTGGTGGCGAAGTAGATCGAAAAAAGCA
1 GAAGTAGATCGAAGATAGCAGATCTTGTCTTCCTATATTGGTGGTGAAGTAGATCGAAGATAGCA
* *
15760188 GATCTTGTCTTCATGTATCGGTAT
66 GATCTTGTCTTCATGTATTGGCAT
* * *
15760212 GAAGTAGATCAAAGGTAGCAGATCTTGTCTTCAC-GTATTGGT-GTGAAGTAGATCGAAGAT-GA
1 GAAGTAGATCGAAGATAGCAGATCTTGTCTTC-CTATATTGGTGGTGAAGTAGATCGAAGATAG-
*
15760274 CAGATCTTGTCTTCATGTATTGGCGT
64 CAGATCTTGTCTTCATGTATTGGCAT
* * * * * * * **
15760300 GAAATAGATCCAAGATAGCAGATCTTGTCTTCCCATACTGGTGGCGAAATAGATCGAAGAAAATA
1 GAAGTAGATCGAAGATAGCAGATCTTGTCTTCCTATATTGGTGGTGAAGTAGATCGAAGATAGCA
15760365 GATCTTGTCTTCATGTATTGGCAT
66 GATCTTGTCTTCATGTATTGGCAT
* ** * * * * * *
15760389 GAAGTAGATC-AAGGATAACAGATCTTACCTTCCTGTACTGATAGTGAAGTAGATCAAAAATAGC
1 GAAGTAGATCGAA-GATAGCAGATCTTGTCTTCCTATATTGGTGGTGAAGTAGATCGAAGATAGC
15760453 AGATC
65 AGATC
15760458 ATATCCAGTC
Statistics
Matches: 704, Mismatches: 136, Indels: 50
0.79 0.15 0.06
Matches are distributed among these distances:
86 10 0.01
87 41 0.06
88 309 0.44
89 282 0.40
90 58 0.08
91 4 0.01
ACGTcount: A:0.30, C:0.16, G:0.25, T:0.29
Consensus pattern (89 bp):
GAAGTAGATCGAAGATAGCAGATCTTGTCTTCCTATATTGGTGGTGAAGTAGATCGAAGATAGCA
GATCTTGTCTTCATGTATTGGCAT
Found at i:15759989 original size:132 final size:133
Alignment explanation
Indices: 15759436--15760359 Score: 930
Period size: 132 Copynumber: 7.0 Consensus size: 133
15759426 TAGGTTGAAA
* *
15759436 ATAGCAGATCATGTCTTCCTATATTGGTAGGAAGTGGAT--TA-A---AGATCTTGTCTTCCCAT
1 ATAGCAGATCCTGTCTTCCTATATTGGTAGGAAGTGGATCGAAGATGCAGATCTTGTCTTCCCAT
* **
15759495 ACTGGTGGCGAAGTAGATCGAAGAAAGTAGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCG
66 ACTGGTGGCGAAGTAGATCGAAGAAAGCAGATCTTGTCTTCATATACTGGTGGCGAAGTAGATCG
15759560 AAG
131 AAG
* * * * * * * * * * * * ***
15759563 AAAGTAGATCTTGTCTTCATGTATCGGCATGAAGTAGATCAAAGGTAGCAGATCTTATCTTCATG
1 ATAGCAGATCCTGTCTTCCTATATTGGTAGGAAGTGGATCGAAGAT-GCAGATCTTGTCTTCCCA
* * * * **
15759628 TATTGG-CGTGAAGTAGATCGAAGATAGCAGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATC
65 TACTGGTGGCGAAGTAGATCGAAGAAAGCAGATCTTGTCTTCATATACTGGTGGCGAAGTAGATC
15759692 GAAG
130 GAAG
* * * * * * * * **
15759696 AAAGCAGATCTTGTCTTCATGTATTGG-CGTGAAGTAGATCAAAGATAGTAGATCTTGTCTTCAT
1 ATAGCAGATCCTGTCTTCCTATATTGGTAG-GAAGTGGATCGAAGAT-GCAGATCTTGTCTTCCC
* * * *
15759760 GTATTGGT-GTGAAGTAGATCGAAGATAA-CAGATATTGTCTTC-TCATACTGGTGGCGAAGTTA
64 ATACTGGTGGCGAAGTAGATCGAAGA-AAGCAGATCTTGTCTTCAT-ATACTGGTGGCGAAG-TA
15759822 GATCGAAG
126 GATCGAAG
*
15759830 ATAGCAGATCCTGTCTTCCTATGTTGGTAGGAAGTGGATCGAAGATGCAGATCTTGTCTTCCCAT
1 ATAGCAGATCCTGTCTTCCTATATTGGTAGGAAGTGGATCGAAGATGCAGATCTTGTCTTCCCAT
* * * * * *
15759895 ACTGGTGGCGAAGTAGATCGAAGAAAGTAAATCTTGTCTTCATGTATTGG-CGTGAAGTAGATCG
66 ACTGGTGGCGAAGTAGATCGAAGAAAGCAGATCTTGTCTTCATATACTGGTGGCGAAGTAGATCG
15759959 AAG
131 AAG
15759962 ATAGCAGATCCTGTCTTCCTATATTGGTAGGAAGTGGATCGAAGATGCAGATCTTGTCTTCCCAT
1 ATAGCAGATCCTGTCTTCCTATATTGGTAGGAAGTGGATCGAAGATGCAGATCTTGTCTTCCCAT
* * * * * * *
15760027 ACTAGTGGCAAAATAGATCGAAGAAAGCAGATCTTGTCTTCATGTATTGG-CGTGAAGTAGATCG
66 ACTGGTGGCGAAGTAGATCGAAGAAAGCAGATCTTGTCTTCATATACTGGTGGCGAAGTAGATCG
15760091 AAG
131 AAG
* *
15760094 ATAGCAGAACCTGTCTTCCTATATTGGTAGGAAGTGGATCGAAGATGCAGATCTTGTCTCCCCAT
1 ATAGCAGATCCTGTCTTCCTATATTGGTAGGAAGTGGATCGAAGATGCAGATCTTGTCTTCCCAT
* * * **
15760159 ATTGGTGGCGAAGTAGATCGAAAAAAGCAGATCTTGTCTTCATGTA-TCGGT-ATGAAGTAGATC
66 ACTGGTGGCGAAGTAGATCGAAGAAAGCAGATCTTGTCTTCATATACT-GGTGGCGAAGTAGATC
*
15760222 AAAG
130 GAAG
* * * * *
15760226 GTAGCAGATCTTGTCTTCAC-GTATTGGT-GTGAAGTAGATCGAAGATGACAGATCTTGTCTTCA
1 ATAGCAGATCCTGTCTTC-CTATATTGGTAG-GAAGTGGATCGAAGATG-CAGATCTTGTCTTCC
** * * * * * * ** *
15760289 TGTATTGG-CGTGAAATAGATCCAAGATAGCAGATCTTGTCTTCCCATACTGGTGGCGAAATAGA
63 CATACTGGTGGCGAAGTAGATCGAAGAAAGCAGATCTTGTCTTCATATACTGGTGGCGAAGTAGA
15760353 TCGAAG
128 TCGAAG
15760359 A
1 A
15760360 AAATAGATCT
Statistics
Matches: 685, Mismatches: 89, Indels: 40
0.84 0.11 0.05
Matches are distributed among these distances:
127 30 0.04
129 1 0.00
131 2 0.00
132 328 0.48
133 226 0.33
134 96 0.14
135 2 0.00
ACGTcount: A:0.29, C:0.16, G:0.26, T:0.30
Consensus pattern (133 bp):
ATAGCAGATCCTGTCTTCCTATATTGGTAGGAAGTGGATCGAAGATGCAGATCTTGTCTTCCCAT
ACTGGTGGCGAAGTAGATCGAAGAAAGCAGATCTTGTCTTCATATACTGGTGGCGAAGTAGATCG
AAG
Found at i:15768959 original size:42 final size:42
Alignment explanation
Indices: 15768873--15768959 Score: 111
Period size: 42 Copynumber: 2.1 Consensus size: 42
15768863 TATGTTTGAG
* * *
15768873 TCATAAATTAGACGTGATGTTTCATTATGTTTGTTATATGAT
1 TCATAAATTAGACATGATGTTTCACTATGTTTGTTACATGAT
* * * *
15768915 TCATAAATTCGATATGATGTTTCACTATGTTTTTTACATTAT
1 TCATAAATTAGACATGATGTTTCACTATGTTTGTTACATGAT
15768957 TCA
1 TCA
15768960 AGAAAGTAGG
Statistics
Matches: 38, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
42 38 1.00
ACGTcount: A:0.29, C:0.10, G:0.13, T:0.48
Consensus pattern (42 bp):
TCATAAATTAGACATGATGTTTCACTATGTTTGTTACATGAT
Found at i:15774327 original size:39 final size:39
Alignment explanation
Indices: 15774284--15774401 Score: 119
Period size: 39 Copynumber: 3.0 Consensus size: 39
15774274 TCATATTTAA
* * *
15774284 CATATAGTCACATAACATACAAGCATATATCACCATACT
1 CATATAATCACATAACATTCAAGCATATATCACAATACT
* * * * * *
15774323 CATATAATCTCATGACGTTTAAGCATATTTCATAATACT
1 CATATAATCACATAACATTCAAGCATATATCACAATACT
** * *
15774362 TGTAAAATCACATAACATTCAAGCATATACCACAATACT
1 CATATAATCACATAACATTCAAGCATATATCACAATACT
15774401 C
1 C
15774402 TAAAACATCT
Statistics
Matches: 59, Mismatches: 20, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
39 59 1.00
ACGTcount: A:0.42, C:0.23, G:0.06, T:0.30
Consensus pattern (39 bp):
CATATAATCACATAACATTCAAGCATATATCACAATACT
Found at i:15790062 original size:22 final size:22
Alignment explanation
Indices: 15790031--15790074 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
15790021 AAAAGTTTGT
15790031 ATGCTAATTCATGAAATCAAAG
1 ATGCTAATTCATGAAATCAAAG
*
15790053 ATGCTCATTCATGAAATCAAAG
1 ATGCTAATTCATGAAATCAAAG
15790075 CTACTAGATG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.43, C:0.16, G:0.14, T:0.27
Consensus pattern (22 bp):
ATGCTAATTCATGAAATCAAAG
Found at i:15793481 original size:16 final size:16
Alignment explanation
Indices: 15793462--15793493 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
15793452 TTCCTTCAGA
15793462 TTTATTTAACTGTTTT
1 TTTATTTAACTGTTTT
*
15793478 TTTATTTAATTGTTTT
1 TTTATTTAACTGTTTT
15793494 CAGCTTTTAC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.19, C:0.03, G:0.06, T:0.72
Consensus pattern (16 bp):
TTTATTTAACTGTTTT
Found at i:15798537 original size:15 final size:15
Alignment explanation
Indices: 15798509--15798543 Score: 54
Period size: 16 Copynumber: 2.3 Consensus size: 15
15798499 ATCAATAACT
15798509 AAAAAAATAAAAATA
1 AAAAAAATAAAAATA
15798524 CAAAAAAAT-AAAATA
1 -AAAAAAATAAAAATA
15798539 AAAAA
1 AAAAA
15798544 GTGTTACCAT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 5 0.26
15 6 0.32
16 8 0.42
ACGTcount: A:0.86, C:0.03, G:0.00, T:0.11
Consensus pattern (15 bp):
AAAAAAATAAAAATA
Found at i:15806442 original size:10 final size:10
Alignment explanation
Indices: 15806441--15806469 Score: 51
Period size: 10 Copynumber: 3.0 Consensus size: 10
15806431 AAGTAAAATT
15806441 AAATTAAT-A
1 AAATTAATAA
15806450 AAATTAATAA
1 AAATTAATAA
15806460 AAATTAATAA
1 AAATTAATAA
15806470 TATATTTTTC
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
9 8 0.42
10 11 0.58
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (10 bp):
AAATTAATAA
Found at i:15806898 original size:5 final size:5
Alignment explanation
Indices: 15806883--15806919 Score: 65
Period size: 5 Copynumber: 7.2 Consensus size: 5
15806873 TTATAATAGT
15806883 TTAATA TTAAA TTAAA TTAAA TTAAA TTAAA TTAAA T
1 TTAA-A TTAAA TTAAA TTAAA TTAAA TTAAA TTAAA T
15806920 ACTTATCTTA
Statistics
Matches: 31, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
5 27 0.87
6 4 0.13
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (5 bp):
TTAAA
Found at i:15807233 original size:25 final size:25
Alignment explanation
Indices: 15807194--15807241 Score: 62
Period size: 25 Copynumber: 1.9 Consensus size: 25
15807184 TTGTAAAGAG
*
15807194 AAAATTCTCTGAAGAGATTATTTCAA
1 AAAATTCTCTAAAGAGATT-TTTCAA
*
15807220 AAAATT-TCTAAAGATATTTTTC
1 AAAATTCTCTAAAGAGATTTTTC
15807242 TAATATACAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
24 4 0.20
25 10 0.50
26 6 0.30
ACGTcount: A:0.42, C:0.10, G:0.08, T:0.40
Consensus pattern (25 bp):
AAAATTCTCTAAAGAGATTTTTCAA
Found at i:15807638 original size:43 final size:43
Alignment explanation
Indices: 15807577--15807683 Score: 135
Period size: 43 Copynumber: 2.5 Consensus size: 43
15807567 GAGTAAGTCG
* *
15807577 AAGCAATTATATTGGCACACAAGGTGTACCATC-GAGCAAGCCA
1 AAGCAATTATATTGGCACACAAGGTGCACCATCGGA-CAAACCA
* * *
15807620 AAGCAATTATATTGGCACACGAGGTGCATCATCGGACAAACCG
1 AAGCAATTATATTGGCACACAAGGTGCACCATCGGACAAACCA
* *
15807663 AAGCAATTATACTCGCACACA
1 AAGCAATTATATTGGCACACA
15807684 TAGTGTTAGA
Statistics
Matches: 55, Mismatches: 8, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
43 53 0.96
44 2 0.04
ACGTcount: A:0.37, C:0.24, G:0.20, T:0.19
Consensus pattern (43 bp):
AAGCAATTATATTGGCACACAAGGTGCACCATCGGACAAACCA
Found at i:15813416 original size:51 final size:51
Alignment explanation
Indices: 15813356--15813463 Score: 144
Period size: 51 Copynumber: 2.1 Consensus size: 51
15813346 AATGAAAAAC
* * * ** *
15813356 AAAATGGAAAAATGGAATTATTTTAAAATGAATGTGATTTTCTCCAAAATG
1 AAAATGGAAAAATGAAATCATTTGAAAATGAATAAGATTTTATCCAAAATG
* *
15813407 AAAATGGAAAAATGAAATCATTTGAAAATGAATAAGGTTTTATCTAAAATG
1 AAAATGGAAAAATGAAATCATTTGAAAATGAATAAGATTTTATCCAAAATG
15813458 AAAATG
1 AAAATG
15813464 AACTGAAAAG
Statistics
Matches: 49, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
51 49 1.00
ACGTcount: A:0.49, C:0.05, G:0.16, T:0.31
Consensus pattern (51 bp):
AAAATGGAAAAATGAAATCATTTGAAAATGAATAAGATTTTATCCAAAATG
Found at i:15814597 original size:20 final size:20
Alignment explanation
Indices: 15814568--15814608 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
15814558 ATCAAATTGG
*
15814568 TTTAATTAACATAAACTTAA
1 TTTAACTAACATAAACTTAA
* *
15814588 TTTAACTAACTTAACCTTAA
1 TTTAACTAACATAAACTTAA
15814608 T
1 T
15814609 CAATACTTAG
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.44, C:0.15, G:0.00, T:0.41
Consensus pattern (20 bp):
TTTAACTAACATAAACTTAA
Found at i:15816301 original size:39 final size:39
Alignment explanation
Indices: 15816242--15816320 Score: 140
Period size: 39 Copynumber: 2.0 Consensus size: 39
15816232 TGTAAATCAT
15816242 AACCAACTGAAGTAACCTTTAACAAAGAATAAACACAAC
1 AACCAACTGAAGTAACCTTTAACAAAGAATAAACACAAC
* *
15816281 AACCATCTGAAGTAAGCTTTAACAAAGAATAAACACAAC
1 AACCAACTGAAGTAACCTTTAACAAAGAATAAACACAAC
15816320 A
1 A
15816321 CCTGTCCAAT
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
39 38 1.00
ACGTcount: A:0.53, C:0.22, G:0.09, T:0.16
Consensus pattern (39 bp):
AACCAACTGAAGTAACCTTTAACAAAGAATAAACACAAC
Found at i:15820323 original size:8 final size:8
Alignment explanation
Indices: 15820310--15820339 Score: 51
Period size: 8 Copynumber: 3.8 Consensus size: 8
15820300 TTATCAGCTA
*
15820310 TTATTATT
1 TTATTAAT
15820318 TTATTAAT
1 TTATTAAT
15820326 TTATTAAT
1 TTATTAAT
15820334 TTATTA
1 TTATTA
15820340 TTCCAAATTT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
8 21 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (8 bp):
TTATTAAT
Found at i:15820790 original size:13 final size:14
Alignment explanation
Indices: 15820774--15820802 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
15820764 TTTCCATCTA
15820774 TCTTCTTTATT-TT
1 TCTTCTTTATTGTT
15820787 TCTTCTTTATTGTT
1 TCTTCTTTATTGTT
15820801 TC
1 TC
15820803 AATATTTGAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 11 0.73
14 4 0.27
ACGTcount: A:0.07, C:0.17, G:0.03, T:0.72
Consensus pattern (14 bp):
TCTTCTTTATTGTT
Found at i:15820907 original size:27 final size:27
Alignment explanation
Indices: 15820876--15820929 Score: 74
Period size: 27 Copynumber: 2.0 Consensus size: 27
15820866 CAACATAAAG
15820876 AGTCTGTCGAG-ACATTAAACATGGGGT
1 AGTCTG-CGAGAACATTAAACATGGGGT
* *
15820903 AGTCTGCTAGAACATTAAACGTGGGGT
1 AGTCTGCGAGAACATTAAACATGGGGT
15820930 TACATGTGTA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
26 3 0.12
27 21 0.88
ACGTcount: A:0.30, C:0.15, G:0.30, T:0.26
Consensus pattern (27 bp):
AGTCTGCGAGAACATTAAACATGGGGT
Found at i:15821025 original size:94 final size:94
Alignment explanation
Indices: 15820855--15821041 Score: 284
Period size: 94 Copynumber: 2.0 Consensus size: 94
15820845 TTTTATTTGA
* ** * *
15820855 CTCGGCTATAGCAACATAAAGAGTCTGTCGAGACATTAAACATGGGGTAGTCTGCTAGAACATTA
1 CTCGGCTATAACAACATAAAGAGTCTACCGAGACATTAAACACGGGGTAGTCCGCTAGAACATTA
*
15820920 AACGTGGGGTTACATGTGTAAGACCATAG
66 AACATGGGGTTACATGTGTAAGACCATAG
* * *
15820949 CTCGGTTATAACAACATAGAGAGTCTACCGAGACATTAAACACGGGGTAGTCCGCTAGAACATTG
1 CTCGGCTATAACAACATAAAGAGTCTACCGAGACATTAAACACGGGGTAGTCCGCTAGAACATTA
*
15821014 AACATGTGGTTACATGTGTAAGACCATA
66 AACATGGGGTTACATGTGTAAGACCATA
15821042 ACTCAACTAT
Statistics
Matches: 83, Mismatches: 10, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
94 83 1.00
ACGTcount: A:0.34, C:0.18, G:0.24, T:0.24
Consensus pattern (94 bp):
CTCGGCTATAACAACATAAAGAGTCTACCGAGACATTAAACACGGGGTAGTCCGCTAGAACATTA
AACATGGGGTTACATGTGTAAGACCATAG
Found at i:15821061 original size:94 final size:94
Alignment explanation
Indices: 15820860--15821065 Score: 268
Period size: 94 Copynumber: 2.2 Consensus size: 94
15820850 TTTGACTCGG
* * ** * * *
15820860 CTATAGCAACATAAAGAGTCTGTCGAGACATTAAACATGGGGTAGTCTGCTAGAACATTAAACGT
1 CTATAACAACATAGAGAGTCTACCGAGACATTAAACACGGGGTAGTCCGCTAGAACATTAAACAT
* **
15820925 GGGGTTACATGTGTAAGACCATAGCTCGG
66 GGGGTTACATGTGTAAGACCATAACTCAA
* *
15820954 TTATAACAACATAGAGAGTCTACCGAGACATTAAACACGGGGTAGTCCGCTAGAACATTGAACAT
1 CTATAACAACATAGAGAGTCTACCGAGACATTAAACACGGGGTAGTCCGCTAGAACATTAAACAT
*
15821019 GTGGTTACATGTGTAAGACCATAACTCAA
66 GGGGTTACATGTGTAAGACCATAACTCAA
* * *
15821048 CTATGATAGCATAGAGAG
1 CTATAACAACATAGAGAG
15821066 CCCGTTGGGA
Statistics
Matches: 95, Mismatches: 17, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
94 95 1.00
ACGTcount: A:0.35, C:0.17, G:0.23, T:0.24
Consensus pattern (94 bp):
CTATAACAACATAGAGAGTCTACCGAGACATTAAACACGGGGTAGTCCGCTAGAACATTAAACAT
GGGGTTACATGTGTAAGACCATAACTCAA
Found at i:15821078 original size:94 final size:94
Alignment explanation
Indices: 15820883--15821093 Score: 251
Period size: 94 Copynumber: 2.2 Consensus size: 94
15820873 AAGAGTCTGT
* *
15820883 CGAGACATTAAACATGGGGTAGTCTGCTAGAACATTAAACGTGGGGTTACATGTGTAAGACCATA
1 CGAGACATTAAACATGGGGTAGTCCGCTAGAACATTAAACATGGGGTTACATGTGTAAGACCATA
* *** * *
15820948 GCTCGGTTATAACAACATAGAGAGTCTAC
66 ACTCAACTATAACAACATAGAGAGCCCAC
* * *
15820977 CGAGACATTAAACACGGGGTAGTCCGCTAGAACATTGAACATGTGGTTACATGTGTAAGACCATA
1 CGAGACATTAAACATGGGGTAGTCCGCTAGAACATTAAACATGGGGTTACATGTGTAAGACCATA
* * * **
15821042 ACTCAACTATGATAGCATAGAGAGCCCGT
66 ACTCAACTATAACAACATAGAGAGCCCAC
* * *
15821071 TGGGACATTAAACATAGGGTAGT
1 CGAGACATTAAACATGGGGTAGT
15821094 TGTTAGAGTA
Statistics
Matches: 97, Mismatches: 20, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
94 97 1.00
ACGTcount: A:0.34, C:0.18, G:0.25, T:0.24
Consensus pattern (94 bp):
CGAGACATTAAACATGGGGTAGTCCGCTAGAACATTAAACATGGGGTTACATGTGTAAGACCATA
ACTCAACTATAACAACATAGAGAGCCCAC
Found at i:15828298 original size:74 final size:74
Alignment explanation
Indices: 15828177--15829279 Score: 1643
Period size: 74 Copynumber: 15.0 Consensus size: 74
15828167 AACAAAGGCA
* * *
15828177 ACAATCCATGTGTTAGAATTCATCAACTGCTTTACATGCTAACAATCTTAACTTGCTATCTAAAC
1 ACAATCCACGTGTTAGAAATCATCAACTGCTTTACATGCTAACAATCTTAACTCGCTATCTAAAC
15828242 ACACAACAT
66 ACACAACAT
* *
15828251 ACAATCCACATGTTAGAAATCATCAACTGCTTTACATGCTAACAATCTTAACACGCTATCTAAAC
1 ACAATCCACGTGTTAGAAATCATCAACTGCTTTACATGCTAACAATCTTAACTCGCTATCTAAAC
15828316 ACACAACAT
66 ACACAACAT
* ** **
15828325 ACAATCCACGTGTTAGAATTCATCAACTGCTTTACATGCTAACAATCAAAACTCGCTATCTAGGC
1 ACAATCCACGTGTTAGAAATCATCAACTGCTTTACATGCTAACAATCTTAACTCGCTATCTAAAC
15828390 ACACAACAT
66 ACACAACAT
* *
15828399 ACAATCCACGTGTTAGAAATCATCAACTGCTTTACATGCTAACAACCTTAACGCGCTATCTAAAC
1 ACAATCCACGTGTTAGAAATCATCAACTGCTTTACATGCTAACAATCTTAACTCGCTATCTAAAC
15828464 ACACAACAT
66 ACACAACAT
* *
15828473 ACAACCCACGTGTTAGAATTCATCAACTGCTTTACATGCTAACAATCTTAACTCGCTATCTAAAC
1 ACAATCCACGTGTTAGAAATCATCAACTGCTTTACATGCTAACAATCTTAACTCGCTATCTAAAC
15828538 ACACAACAT
66 ACACAACAT
* *
15828547 ACAATCCACATGTTAGAAATCATCAACTGCTTTACATGCTAACAATCTTAACGCGCTATCTAAAC
1 ACAATCCACGTGTTAGAAATCATCAACTGCTTTACATGCTAACAATCTTAACTCGCTATCTAAAC
15828612 ACACAACAT
66 ACACAACAT
* ** *
15828621 ACAATCCACGTGTTAGAATTCATCAACTGCTTTACATGCTAACAATCAGAACTCGCTATCTAAGC
1 ACAATCCACGTGTTAGAAATCATCAACTGCTTTACATGCTAACAATCTTAACTCGCTATCTAAAC
15828686 ACACAACAT
66 ACACAACAT
* * *
15828695 ACAATCCACGTGTTAGAAATCATCAACTGCTTTACATGCTAACAACCTTAACGCGCTATCTAAGC
1 ACAATCCACGTGTTAGAAATCATCAACTGCTTTACATGCTAACAATCTTAACTCGCTATCTAAAC
15828760 ACACAACAT
66 ACACAACAT
* * * * * *
15828769 ACAACCCAC-TGTTAGAATTCATCAACTGCTTAACATGCTAGCAATCATAACTTGCTATCTAAAC
1 ACAATCCACGTGTTAGAAATCATCAACTGCTTTACATGCTAACAATCTTAACTCGCTATCTAAAC
15828833 ACACAACAT
66 ACACAACAT
* * * * *
15828842 ACAATCCATGTGTTAGAAATCATCAACTGCTTTACAGGCTAACAACCTTAGCGCGCTATCTAAAC
1 ACAATCCACGTGTTAGAAATCATCAACTGCTTTACATGCTAACAATCTTAACTCGCTATCTAAAC
15828907 ACACAACAT
66 ACACAACAT
*
15828916 ACAATCCACGTGTTAG-AATCCATCAACTGTTTTACATGCTAACAATCTTAACTCGCTATCTAAA
1 ACAATCCACGTGTTAGAAAT-CATCAACTGCTTTACATGCTAACAATCTTAACTCGCTATCTAAA
15828980 C-CACAACAT
65 CACACAACAT
*
15828989 ACAATCCACGTGTTAGAATTCATCAACTGCTTTACATGCTAACAATCTTAACTCGCTATCTAAAC
1 ACAATCCACGTGTTAGAAATCATCAACTGCTTTACATGCTAACAATCTTAACTCGCTATCTAAAC
15829054 -CACAACAT
66 ACACAACAT
* *
15829062 ACAATCCACGTGTTAGAATTCATCAACTGCTTTACATGCTAACAATCTTAACTTGCTATCTAAAC
1 ACAATCCACGTGTTAGAAATCATCAACTGCTTTACATGCTAACAATCTTAACTCGCTATCTAAAC
15829127 ACACAACAT
66 ACACAACAT
* * * * * * * *
15829136 GCAACCCACATGTT-----TCATCAACTTCTTTACATGCTAACAACCTTATCGCGCTACCTAAAC
1 ACAATCCACGTGTTAGAAATCATCAACTGCTTTACATGCTAACAATCTTAACTCGCTATCTAAAC
*
15829196 ACAAAACA-
66 ACACAACAT
* ** *
15829204 AAAATTCCACGTACTAG-AATCCATCAACTGCTTTACATGCTAACAATCTTAACTCACTATCTAA
1 ACAA-TCCACGTGTTAGAAAT-CATCAACTGCTTTACATGCTAACAATCTTAACTCGCTATCTAA
15829268 ACACACAACAT
64 ACACACAACAT
15829279 A
1 A
15829280 TAATAGAGTA
Statistics
Matches: 928, Mismatches: 90, Indels: 21
0.89 0.09 0.02
Matches are distributed among these distances:
68 2 0.00
69 53 0.06
73 207 0.22
74 665 0.72
75 1 0.00
ACGTcount: A:0.37, C:0.27, G:0.09, T:0.27
Consensus pattern (74 bp):
ACAATCCACGTGTTAGAAATCATCAACTGCTTTACATGCTAACAATCTTAACTCGCTATCTAAAC
ACACAACAT
Found at i:15830924 original size:17 final size:18
Alignment explanation
Indices: 15830886--15830922 Score: 51
Period size: 16 Copynumber: 2.2 Consensus size: 18
15830876 TGGTTCATGC
15830886 AAAGAGCAATGCAGAAAG
1 AAAGAGCAATGCAGAAAG
*
15830904 AAAGAG-AATGGAG-AAG
1 AAAGAGCAATGCAGAAAG
15830920 AAA
1 AAA
15830923 AGTTAAAAGG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
16 6 0.33
17 6 0.33
18 6 0.33
ACGTcount: A:0.59, C:0.05, G:0.30, T:0.05
Consensus pattern (18 bp):
AAAGAGCAATGCAGAAAG
Found at i:15838967 original size:21 final size:22
Alignment explanation
Indices: 15838938--15838984 Score: 78
Period size: 21 Copynumber: 2.2 Consensus size: 22
15838928 CAGAAGGAGT
*
15838938 GAGTAGTACTTCGCAGCAGGTG
1 GAGTAGTACTCCGCAGCAGGTG
15838960 GAGT-GTACTCCGCAGCAGGTG
1 GAGTAGTACTCCGCAGCAGGTG
15838981 GAGT
1 GAGT
15838985 TTGAGCAGAG
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
21 20 0.83
22 4 0.17
ACGTcount: A:0.21, C:0.19, G:0.38, T:0.21
Consensus pattern (22 bp):
GAGTAGTACTCCGCAGCAGGTG
Found at i:15845765 original size:43 final size:42
Alignment explanation
Indices: 15845661--15845784 Score: 133
Period size: 43 Copynumber: 2.9 Consensus size: 42
15845651 AATGATTTCG
* * * * *
15845661 TGTAAGACCATGTCTGGGACATCAGCATTGATATGAGATTACG
1 TGTAAGACCATGTATGGGACAT-GGCATTGATATGTGATAACA
* * *
15845704 TGTAAGACCCTGTTTGGGACAGTGGCATCGATATGTGATAACA
1 TGTAAGACCATGTATGGGACA-TGGCATTGATATGTGATAACA
* *
15845747 TGTAAGACCATATATGGGATATGGCATTG-TATGTGATA
1 TGTAAGACCATGTATGGGACATGGCATTGATATGTGATA
15845785 TATGTGTTTT
Statistics
Matches: 68, Mismatches: 12, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
41 9 0.13
42 7 0.10
43 51 0.75
44 1 0.01
ACGTcount: A:0.30, C:0.14, G:0.27, T:0.30
Consensus pattern (42 bp):
TGTAAGACCATGTATGGGACATGGCATTGATATGTGATAACA
Found at i:15846452 original size:22 final size:22
Alignment explanation
Indices: 15846427--15846709 Score: 135
Period size: 22 Copynumber: 12.5 Consensus size: 22
15846417 TGAGCAAACT
15846427 AATGCTGTCCGAATGTTGGTTA
1 AATGCTGTCCGAATGTTGGTTA
*
15846449 AATGCTATCCGAATGTTGGTTA
1 AATGCTGTCCGAATGTTGGTTA
* * **
15846471 AATGCTGTCCATAAT-TAAGCATA
1 AATGCTGTCC-GAATGT-TGGTTA
*
15846494 CTAATGCTGTCCAAATGTTGGTTA
1 --AATGCTGTCCGAATGTTGGTTA
* * *
15846518 AATGTTGTCCGAATATTGTTTA
1 AATGCTGTCCGAATGTTGGTTA
* * * * **
15846540 AAAGCTTTCCATAAT-TAAGCATA
1 AATGCTGTCC-GAATGT-TGGTTA
* *
15846563 CTAATGCTGTCTGAATGTTAGTTA
1 --AATGCTGTCCGAATGTTGGTTA
* * *
15846587 AATGTTGTTCGAATATT-GTTAA
1 AATGCTGTCCGAATGTTGGTT-A
** *
15846609 AATGCTGTCTTTAA--TTGAGCATA
1 AATGCTGTC-CGAATGTTG-G-TTA
* *
15846632 CTAATGTTGTCCGAATGATGGTTA
1 --AATGCTGTCCGAATGTTGGTTA
* *
15846656 AATGCCGTTCGAATGTTGGTTA
1 AATGCTGTCCGAATGTTGGTTA
* * *
15846678 AATGTTGTCTGAATGTTGCTTA
1 AATGCTGTCCGAATGTTGGTTA
15846700 AATGCTGTCC
1 AATGCTGTCC
15846710 ATTTAATGCT
Statistics
Matches: 188, Mismatches: 54, Indels: 38
0.67 0.19 0.14
Matches are distributed among these distances:
21 5 0.03
22 121 0.64
23 16 0.09
24 16 0.09
25 28 0.15
26 2 0.01
ACGTcount: A:0.28, C:0.13, G:0.20, T:0.38
Consensus pattern (22 bp):
AATGCTGTCCGAATGTTGGTTA
Found at i:15846687 original size:69 final size:69
Alignment explanation
Indices: 15846419--15846686 Score: 331
Period size: 69 Copynumber: 3.9 Consensus size: 69
15846409 TTCATATTTG
* * *
15846419 AGCAAACTAATGCTGTCCGAATGTTGGTTAAATGCTATCCGAATGTTGGTTAAATGCTGTCCATA
1 AGCATACTAATGCTGTCCGAATGTTGGTTAAATGCTGTCCGAATATTGGTTAAATGCTGTCCATA
15846484 ATTA
66 ATTA
* * * * *
15846488 AGCATACTAATGCTGTCCAAATGTTGGTTAAATGTTGTCCGAATATTGTTTAAAAGCTTTCCATA
1 AGCATACTAATGCTGTCCGAATGTTGGTTAAATGCTGTCCGAATATTGGTTAAATGCTGTCCATA
15846553 ATTA
66 ATTA
* * * * **
15846557 AGCATACTAATGCTGTCTGAATGTTAGTTAAATGTTGTTCGAATATT-GTTAAAATGCTGTCTTT
1 AGCATACTAATGCTGTCCGAATGTTGGTTAAATGCTGTCCGAATATTGGTT-AAATGCTGTCCAT
*
15846621 AATTG
65 AATTA
* * * * * *
15846626 AGCATACTAATGTTGTCCGAATGATGGTTAAATGCCGTTCGAATGTTGGTTAAATGTTGTC
1 AGCATACTAATGCTGTCCGAATGTTGGTTAAATGCTGTCCGAATATTGGTTAAATGCTGTC
15846687 TGAATGTTGC
Statistics
Matches: 171, Mismatches: 26, Indels: 4
0.85 0.13 0.02
Matches are distributed among these distances:
68 2 0.01
69 166 0.97
70 3 0.02
ACGTcount: A:0.29, C:0.13, G:0.20, T:0.37
Consensus pattern (69 bp):
AGCATACTAATGCTGTCCGAATGTTGGTTAAATGCTGTCCGAATATTGGTTAAATGCTGTCCATA
ATTA
Found at i:15854976 original size:29 final size:30
Alignment explanation
Indices: 15854914--15854975 Score: 90
Period size: 30 Copynumber: 2.1 Consensus size: 30
15854904 ACACATCCAA
* **
15854914 TTTT-AAAAAGTCGAATTTGATTATTAACC
1 TTTTAAAAAAATCGAATTTGACCATTAACC
15854943 TTTTAAAAAAATCGAATTTGACCATTAACC
1 TTTTAAAAAAATCGAATTTGACCATTAACC
15854973 TTT
1 TTT
15854976 AGAAAGAGTA
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
29 4 0.14
30 25 0.86
ACGTcount: A:0.39, C:0.13, G:0.08, T:0.40
Consensus pattern (30 bp):
TTTTAAAAAAATCGAATTTGACCATTAACC
Found at i:15855352 original size:20 final size:17
Alignment explanation
Indices: 15855315--15855350 Score: 54
Period size: 19 Copynumber: 2.0 Consensus size: 17
15855305 TTGATTAATT
15855315 TAAAAAAAATTTAAAAA
1 TAAAAAAAATTTAAAAA
15855332 TAAAATAAAATATTAAAAA
1 TAAAA-AAAAT-TTAAAAA
15855351 ATGGAGAGAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 5 0.29
18 5 0.29
19 7 0.41
ACGTcount: A:0.75, C:0.00, G:0.00, T:0.25
Consensus pattern (17 bp):
TAAAAAAAATTTAAAAA
Done.