Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D10
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: 67973905
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.32
Warning! 1760000 characters in sequence are not A, C, G, or T
File 52 of 228
Found at i:15743926 original size:20 final size:23
Alignment explanation
Indices: 15743897--15743937 Score: 61
Period size: 21 Copynumber: 1.9 Consensus size: 23
15743887 AATGAAATAG
15743897 ATTTTAGTAA-AATTA-AACACA
1 ATTTTAGTAACAATTATAACACA
15743918 ATTTT-GTAACAATTATAACA
1 ATTTTAGTAACAATTATAACA
15743938 TAAATAAACT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 4 0.22
21 10 0.56
22 4 0.22
ACGTcount: A:0.49, C:0.10, G:0.05, T:0.37
Consensus pattern (23 bp):
ATTTTAGTAACAATTATAACACA
Found at i:15744765 original size:22 final size:22
Alignment explanation
Indices: 15744730--15744781 Score: 86
Period size: 22 Copynumber: 2.4 Consensus size: 22
15744720 CTGAGAGAGG
* *
15744730 AGATGATTGTGGGATGATTGAA
1 AGATGCTTGAGGGATGATTGAA
15744752 AGATGCTTGAGGGATGATTGAA
1 AGATGCTTGAGGGATGATTGAA
15744774 AGATGCTT
1 AGATGCTT
15744782 TAAGGATCAT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
22 28 1.00
ACGTcount: A:0.31, C:0.04, G:0.35, T:0.31
Consensus pattern (22 bp):
AGATGCTTGAGGGATGATTGAA
Found at i:15744788 original size:22 final size:22
Alignment explanation
Indices: 15744741--15744788 Score: 78
Period size: 22 Copynumber: 2.2 Consensus size: 22
15744731 GATGATTGTG
*
15744741 GGATGATTGAAAGATGCTTGAG
1 GGATGATTGAAAGATGCTTGAA
*
15744763 GGATGATTGAAAGATGCTTTAA
1 GGATGATTGAAAGATGCTTGAA
15744785 GGAT
1 GGAT
15744789 CATTAAAAAA
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:0.33, C:0.04, G:0.33, T:0.29
Consensus pattern (22 bp):
GGATGATTGAAAGATGCTTGAA
Found at i:15753276 original size:27 final size:27
Alignment explanation
Indices: 15753003--15753267 Score: 347
Period size: 27 Copynumber: 9.9 Consensus size: 27
15752993 ATTATGAGCA
* *
15753003 AAATACCTCCATAGGGTAAAATGACTG
1 AAATACCCCCATAGGGTAAAATGACCG
* *
15753030 AAATACCCCCATAGGGTAGAATTACCG
1 AAATACCCCCATAGGGTAAAATGACCG
*
15753057 AAATACCTCCATAGGGTAAAATGACCG
1 AAATACCCCCATAGGGTAAAATGACCG
*
15753084 AAATACCCTCATAGGGTAAAATGACCG
1 AAATACCCCCATAGGGTAAAATGACCG
* *
15753111 AAATACCCCCATAGGGTAAAATAATCG
1 AAATACCCCCATAGGGTAAAATGACCG
* *
15753138 AAATACCTCTATAGGGT-AAATGACCG
1 AAATACCCCCATAGGGTAAAATGACCG
* * * * *
15753164 AAATATCTCCATAGGATAGAATGACCA
1 AAATACCCCCATAGGGTAAAATGACCG
*
15753191 AAATACCCCCATAGGG-AAAATGACTG
1 AAATACCCCCATAGGGTAAAATGACCG
* *
15753217 AAATA-CCCCATAGGGTAAAATAACTG
1 AAATACCCCCATAGGGTAAAATGACCG
15753243 AAATACCCCCATAGGGTAAAATGAC
1 AAATACCCCCATAGGGTAAAATGAC
15753268 TGTTATACCT
Statistics
Matches: 206, Mismatches: 29, Indels: 6
0.85 0.12 0.02
Matches are distributed among these distances:
25 10 0.05
26 47 0.23
27 149 0.72
ACGTcount: A:0.42, C:0.22, G:0.17, T:0.19
Consensus pattern (27 bp):
AAATACCCCCATAGGGTAAAATGACCG
Found at i:15759861 original size:31 final size:32
Alignment explanation
Indices: 15759826--15759886 Score: 88
Period size: 31 Copynumber: 1.9 Consensus size: 32
15759816 AAAAACACTT
* *
15759826 AATAGCTCAGTGACTTAAATAAAAA-TTTTCA
1 AATAGCTCAATAACTTAAATAAAAACTTTTCA
*
15759857 AATAGTTCAATAACTTAAATAAAAACTTTT
1 AATAGCTCAATAACTTAAATAAAAACTTTT
15759887 GAATAATTCA
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
31 22 0.85
32 4 0.15
ACGTcount: A:0.48, C:0.11, G:0.07, T:0.34
Consensus pattern (32 bp):
AATAGCTCAATAACTTAAATAAAAACTTTTCA
Found at i:15759897 original size:31 final size:31
Alignment explanation
Indices: 15759838--15759899 Score: 90
Period size: 31 Copynumber: 2.0 Consensus size: 31
15759828 TAGCTCAGTG
*
15759838 ACTTAAATAAAAATTTTCAAATAGTTCAATA
1 ACTTAAATAAAAATTTTCAAATAATTCAATA
*
15759869 ACTTAAATAAAAACTTTT-GAATAATTCAATA
1 ACTTAAATAAAAA-TTTTCAAATAATTCAATA
15759900 GCTATTTTGT
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
31 24 0.86
32 4 0.14
ACGTcount: A:0.52, C:0.10, G:0.03, T:0.35
Consensus pattern (31 bp):
ACTTAAATAAAAATTTTCAAATAATTCAATA
Found at i:15765197 original size:30 final size:31
Alignment explanation
Indices: 15765145--15765250 Score: 128
Period size: 30 Copynumber: 3.5 Consensus size: 31
15765135 TGGTTGACAC
** *
15765145 ATCCCTTTCCATAATTCAATAGCT-AAGACT
1 ATCCCTTTTAATAATTCGATAGCTGAAGACT
* *
15765175 ATCCATTTTAATGATTCGATAGCTGAA-ACT
1 ATCCCTTTTAATAATTCGATAGCTGAAGACT
*
15765205 ATCCCTTTTCATAATTCGATAGCTGAAG-CT
1 ATCCCTTTTAATAATTCGATAGCTGAAGACT
*
15765235 ATCCCTTTTCATAATT
1 ATCCCTTTTAATAATT
15765251 TTGATGGTCG
Statistics
Matches: 66, Mismatches: 8, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
30 64 0.97
31 2 0.03
ACGTcount: A:0.30, C:0.23, G:0.09, T:0.38
Consensus pattern (31 bp):
ATCCCTTTTAATAATTCGATAGCTGAAGACT
Found at i:15765273 original size:31 final size:30
Alignment explanation
Indices: 15765235--15765397 Score: 129
Period size: 30 Copynumber: 5.4 Consensus size: 30
15765225 AGCTGAAGCT
*
15765235 ATCCCTTTTCATAATTTTGATGGTCGTCACC
1 ATCCCTTTTCAT-ATTTTGATAGTCGTCACC
*
15765266 ATCCCTTTTCAT-TGTTGATAGTCGTCACC
1 ATCCCTTTTCATATTTTGATAGTCGTCACC
* * *
15765295 ATCCCTTTTCAGATTTTGATAG-C-TAGAGCT
1 ATCCCTTTTCATATTTTGATAGTCGT-CA-CC
* * * * *
15765325 ATCCCTTTTCATGA-TTCGGTAGCCG-AAGCT
1 ATCCCTTTTCAT-ATTTTGATAGTCGTCA-CC
* *
15765355 ACCCCTTTTCATATTTTTTATAGTCGTCACC
1 ATCCCTTTTCATA-TTTTGATAGTCGTCACC
15765386 ATCCCTTTTCAT
1 ATCCCTTTTCAT
15765398 TGGTTGATAA
Statistics
Matches: 105, Mismatches: 18, Indels: 18
0.74 0.13 0.13
Matches are distributed among these distances:
28 1 0.01
29 29 0.28
30 41 0.39
31 33 0.31
32 1 0.01
ACGTcount: A:0.20, C:0.26, G:0.13, T:0.41
Consensus pattern (30 bp):
ATCCCTTTTCATATTTTGATAGTCGTCACC
Found at i:15767366 original size:26 final size:23
Alignment explanation
Indices: 15767336--15767386 Score: 66
Period size: 23 Copynumber: 2.1 Consensus size: 23
15767326 AGAAAAAGAT
15767336 AAATGAAAGAGATTTGAAAGTTGGAG
1 AAATGAAAGAGA--T-AAAGTTGGAG
*
15767362 AAATGAAGGAGATAAAGTTGGAG
1 AAATGAAAGAGATAAAGTTGGAG
15767385 AA
1 AA
15767387 GGCAAAAAAT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
23 12 0.50
24 1 0.04
26 11 0.46
ACGTcount: A:0.49, C:0.00, G:0.31, T:0.20
Consensus pattern (23 bp):
AAATGAAAGAGATAAAGTTGGAG
Found at i:15768626 original size:13 final size:13
Alignment explanation
Indices: 15768608--15768641 Score: 59
Period size: 13 Copynumber: 2.6 Consensus size: 13
15768598 ATTGAGCTAT
15768608 GGAACATGAGAAA
1 GGAACATGAGAAA
15768621 GGAACATGAGAAA
1 GGAACATGAGAAA
*
15768634 AGAACATG
1 GGAACATG
15768642 GTCCAAAGAC
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 20 1.00
ACGTcount: A:0.53, C:0.09, G:0.29, T:0.09
Consensus pattern (13 bp):
GGAACATGAGAAA
Found at i:15769768 original size:6 final size:6
Alignment explanation
Indices: 15769750--15769793 Score: 54
Period size: 6 Copynumber: 7.2 Consensus size: 6
15769740 TGCAAATGAA
*
15769750 TCATTT CTCATTT TCATTT TCATTT TCA-TT TCTATTT CCATTT T
1 TCATTT -TCATTT TCATTT TCATTT TCATTT TC-ATTT TCATTT T
15769794 GAGAAAATCA
Statistics
Matches: 33, Mismatches: 2, Indels: 5
0.82 0.05 0.12
Matches are distributed among these distances:
5 4 0.12
6 20 0.61
7 9 0.27
ACGTcount: A:0.16, C:0.20, G:0.00, T:0.64
Consensus pattern (6 bp):
TCATTT
Found at i:15773728 original size:20 final size:20
Alignment explanation
Indices: 15773703--15773743 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
15773693 GCTCGTCTAG
*
15773703 AATACTACCAGCTTGTTTGC
1 AATACTACCAGCTTATTTGC
*
15773723 AATACTACCAGTTTATTTGC
1 AATACTACCAGCTTATTTGC
15773743 A
1 A
15773744 TTATTGGTGG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.29, C:0.22, G:0.12, T:0.37
Consensus pattern (20 bp):
AATACTACCAGCTTATTTGC
Found at i:15773822 original size:40 final size:40
Alignment explanation
Indices: 15773734--15773843 Score: 112
Period size: 40 Copynumber: 2.8 Consensus size: 40
15773724 ATACTACCAG
* ***
15773734 TTTATTTGCATTATTGGTGGCTTGTCCACATTGCTGGCAA
1 TTTATCTGCATTATTGGTGGCTTGTCCACATTGCTAAAAA
* ** * *
15773774 CTCGTCTGCAATATTGGTGGCTTGTCCACATTTCTAAAAA
1 TTTATCTGCATTATTGGTGGCTTGTCCACATTGCTAAAAA
* * *
15773814 TTTATCTGCATTACTGCTGGCTTATCCACA
1 TTTATCTGCATTATTGGTGGCTTGTCCACA
15773844 AATTGGTGTG
Statistics
Matches: 54, Mismatches: 16, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
40 54 1.00
ACGTcount: A:0.21, C:0.22, G:0.18, T:0.39
Consensus pattern (40 bp):
TTTATCTGCATTATTGGTGGCTTGTCCACATTGCTAAAAA
Found at i:15782427 original size:12 final size:12
Alignment explanation
Indices: 15782410--15782435 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
15782400 CTTAAGCTGG
15782410 GTAGGTGGTGGA
1 GTAGGTGGTGGA
15782422 GTAGGTGGTGGA
1 GTAGGTGGTGGA
15782434 GT
1 GT
15782436 TGGACAGGGA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.15, C:0.00, G:0.58, T:0.27
Consensus pattern (12 bp):
GTAGGTGGTGGA
Found at i:15783877 original size:27 final size:27
Alignment explanation
Indices: 15783707--15783868 Score: 220
Period size: 27 Copynumber: 6.0 Consensus size: 27
15783697 CAAATAATCA
15783707 AATTACCCCCGAAGGGTAAAATGACTG
1 AATTACCCCCGAAGGGTAAAATGACTG
*
15783734 AATTAACCCCGAAGGGTAAAATGACTG
1 AATTACCCCCGAAGGGTAAAATGACTG
* * *
15783761 AATTACCCCTGAAAGGTAAAATGACCG
1 AATTACCCCCGAAGGGTAAAATGACTG
*
15783788 AATTACCCCCGAAGGGTAAAATGA-TCA
1 AATTACCCCCGAAGGGTAAAATGACT-G
* *
15783815 AATTACCCCCGAAGGGTAAAATAACCG
1 AATTACCCCCGAAGGGTAAAATGACTG
*
15783842 AAATACCCCC-ATAGGGTAAAATGACTG
1 AATTACCCCCGA-AGGGTAAAATGACTG
15783869 TTATACCCCT
Statistics
Matches: 117, Mismatches: 15, Indels: 6
0.85 0.11 0.04
Matches are distributed among these distances:
26 1 0.01
27 116 0.99
ACGTcount: A:0.40, C:0.22, G:0.20, T:0.18
Consensus pattern (27 bp):
AATTACCCCCGAAGGGTAAAATGACTG
Found at i:15784012 original size:27 final size:28
Alignment explanation
Indices: 15783967--15784040 Score: 75
Period size: 26 Copynumber: 2.8 Consensus size: 28
15783957 ATAAGGGAAG
**
15783967 TATACTG-TACTGGTGGCTTTGGC-ACA
1 TATACTGTTACTGGCAGCTTTGGCTACA
*
15783993 TATACTGTTACTGGCAGCTTT-GCTGCA
1 TATACTGTTACTGGCAGCTTTGGCTACA
* *
15784020 T-TAATATTACTGGCAGCTTTG
1 TATACTGTTACTGGCAGCTTTG
15784041 CTGCGATATT
Statistics
Matches: 40, Mismatches: 5, Indels: 5
0.80 0.10 0.10
Matches are distributed among these distances:
26 26 0.65
27 14 0.35
ACGTcount: A:0.20, C:0.19, G:0.23, T:0.38
Consensus pattern (28 bp):
TATACTGTTACTGGCAGCTTTGGCTACA
Found at i:15784196 original size:28 final size:28
Alignment explanation
Indices: 15784151--15784216 Score: 107
Period size: 28 Copynumber: 2.4 Consensus size: 28
15784141 ACTGCTTTGT
*
15784151 ACTGATTACTGTATTGGGCTAAGGCCCAC
1 ACTG-TTACTGTAATGGGCTAAGGCCCAC
15784180 ACTGTTACTGTAATGGGCTAAGGCCCAC
1 ACTGTTACTGTAATGGGCTAAGGCCCAC
15784208 ACTG-TACTG
1 ACTGTTACTG
15784217 ATACTGTATA
Statistics
Matches: 36, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
27 5 0.14
28 27 0.75
29 4 0.11
ACGTcount: A:0.24, C:0.24, G:0.24, T:0.27
Consensus pattern (28 bp):
ACTGTTACTGTAATGGGCTAAGGCCCAC
Found at i:15784222 original size:33 final size:33
Alignment explanation
Indices: 15784148--15784224 Score: 101
Period size: 28 Copynumber: 2.5 Consensus size: 33
15784138 ATCACTGCTT
*
15784148 TGTACTGATTACTGTATTGGGCTAAGGCCCACAC
1 TGTACTGA-TACTGTAATGGGCTAAGGCCCACAC
15784182 TG---T--TACTGTAATGGGCTAAGGCCCACAC
1 TGTACTGATACTGTAATGGGCTAAGGCCCACAC
15784210 TGTACTGATACTGTA
1 TGTACTGATACTGTA
15784225 TAGGGCTCAG
Statistics
Matches: 37, Mismatches: 1, Indels: 11
0.76 0.02 0.22
Matches are distributed among these distances:
28 26 0.70
31 2 0.05
33 7 0.19
34 2 0.05
ACGTcount: A:0.25, C:0.22, G:0.23, T:0.30
Consensus pattern (33 bp):
TGTACTGATACTGTAATGGGCTAAGGCCCACAC
Found at i:15789719 original size:62 final size:59
Alignment explanation
Indices: 15789648--15789764 Score: 171
Period size: 62 Copynumber: 1.9 Consensus size: 59
15789638 AGTGATTATC
** * *
15789648 TTAATATTAAATTTAATTTAATTTTTATCTTGTAGATAAATATTCTATTATTTTAATAAGAT
1 TTAATATTAAATTTAACCTAATATTTATC-T-T-GATAAATATTCTATTAATTTAATAAGAT
15789710 TTAATATTAAATTTAACCTAATATTTATCTTGATAAATATTCTATTAATTTAATA
1 TTAATATTAAATTTAACCTAATATTTATCTTGATAAATATTCTATTAATTTAATA
15789765 TTAAAGTGAT
Statistics
Matches: 51, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
59 23 0.45
60 1 0.02
61 1 0.02
62 26 0.51
ACGTcount: A:0.40, C:0.05, G:0.03, T:0.51
Consensus pattern (59 bp):
TTAATATTAAATTTAACCTAATATTTATCTTGATAAATATTCTATTAATTTAATAAGAT
Found at i:15790089 original size:18 final size:18
Alignment explanation
Indices: 15790068--15790102 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
15790058 CGGTCGAAGC
15790068 GCTCATCCTAGACGAATT
1 GCTCATCCTAGACGAATT
15790086 GCTCATCCTAGACGAAT
1 GCTCATCCTAGACGAAT
15790103 CGAAAAGGTA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.29, C:0.29, G:0.17, T:0.26
Consensus pattern (18 bp):
GCTCATCCTAGACGAATT
Found at i:15801112 original size:14 final size:14
Alignment explanation
Indices: 15801093--15801120 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
15801083 AAGACAATTT
15801093 TCTCCTTATGCAAA
1 TCTCCTTATGCAAA
15801107 TCTCCTTATGCAAA
1 TCTCCTTATGCAAA
15801121 CTATTTGCTC
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:0.29, C:0.29, G:0.07, T:0.36
Consensus pattern (14 bp):
TCTCCTTATGCAAA
Found at i:15810520 original size:21 final size:21
Alignment explanation
Indices: 15810469--15810521 Score: 70
Period size: 21 Copynumber: 2.5 Consensus size: 21
15810459 CGATAGCCAA
*
15810469 AATAAAAATAATAAATCGAAG
1 AATAAAAATAATAAATAGAAG
* *
15810490 ACTAAAAATAATAAATAGAAT
1 AATAAAAATAATAAATAGAAG
*
15810511 AATAACAATAA
1 AATAAAAATAA
15810522 ATGCAATAGT
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.68, C:0.06, G:0.06, T:0.21
Consensus pattern (21 bp):
AATAAAAATAATAAATAGAAG
Found at i:15810621 original size:51 final size:51
Alignment explanation
Indices: 15810566--15810672 Score: 130
Period size: 51 Copynumber: 2.1 Consensus size: 51
15810556 TAATGTCCAG
* *
15810566 AAATAAATTAAAAATAAATACAAAAT-AAAATTAA-AGAAACT-AAATAAACAA
1 AAATAAA-TAAAAAGAAATAAAAAATAAAAATTAATA-AAA-TAAAATAAACAA
* *
15810617 AAATAAATAATAAGAAATAAAAAATAAAAATTAATAAAATAAAATAAATAA
1 AAATAAATAAAAAGAAATAAAAAATAAAAATTAATAAAATAAAATAAACAA
15810668 AAATA
1 AAATA
15810673 GGGCAAAAGG
Statistics
Matches: 49, Mismatches: 4, Indels: 6
0.83 0.07 0.10
Matches are distributed among these distances:
50 16 0.33
51 32 0.65
52 1 0.02
ACGTcount: A:0.75, C:0.03, G:0.02, T:0.21
Consensus pattern (51 bp):
AAATAAATAAAAAGAAATAAAAAATAAAAATTAATAAAATAAAATAAACAA
Found at i:15810623 original size:14 final size:13
Alignment explanation
Indices: 15810575--15810670 Score: 79
Period size: 14 Copynumber: 7.2 Consensus size: 13
15810565 GAAATAAATT
15810575 AAAAATAAATACAA
1 AAAAATAAATA-AA
* *
15810589 AATAA-AATTAAA
1 AAAAATAAATAAA
* *
15810601 GAAACTAAATAAA
1 AAAAATAAATAAA
15810614 CAAAAATAAATAATA
1 -AAAAATAAATAA-A
*
15810629 AGAAATAAA-AAA
1 AAAAATAAATAAA
*
15810641 TAAAAATTAATAAA
1 -AAAAATAAATAAA
15810655 ATAAAATAAATAAA
1 A-AAAATAAATAAA
15810669 AA
1 AA
15810671 TAGGGCAAAA
Statistics
Matches: 64, Mismatches: 12, Indels: 13
0.72 0.13 0.15
Matches are distributed among these distances:
12 5 0.08
13 21 0.33
14 37 0.58
15 1 0.02
ACGTcount: A:0.76, C:0.03, G:0.02, T:0.19
Consensus pattern (13 bp):
AAAAATAAATAAA
Found at i:15810634 original size:24 final size:22
Alignment explanation
Indices: 15810607--15810672 Score: 66
Period size: 24 Copynumber: 3.0 Consensus size: 22
15810597 TAAAGAAACT
15810607 AAATAAACAAAAATAAATAATAA
1 AAATAAA-AAAAATAAATAATAA
15810630 GAAATAAAAAATAA-AAATTAAT-A
1 -AAATAAAAAA-AATAAA-TAATAA
*
15810653 AAATAAAATAAATAAA-AATA
1 AAATAAAAAAAATAAATAATA
15810673 GGGCAAAAGG
Statistics
Matches: 37, Mismatches: 1, Indels: 11
0.76 0.02 0.22
Matches are distributed among these distances:
20 3 0.08
21 2 0.05
22 12 0.32
23 7 0.19
24 13 0.35
ACGTcount: A:0.77, C:0.02, G:0.02, T:0.20
Consensus pattern (22 bp):
AAATAAAAAAAATAAATAATAA
Found at i:15821479 original size:18 final size:18
Alignment explanation
Indices: 15821458--15821501 Score: 70
Period size: 18 Copynumber: 2.4 Consensus size: 18
15821448 GGATTAGTGG
15821458 GCCCAATAGGAGCATTCA
1 GCCCAATAGGAGCATTCA
* *
15821476 GCCCAAGAGGAGCATTCG
1 GCCCAATAGGAGCATTCA
15821494 GCCCAATA
1 GCCCAATA
15821502 TTAGTGAGAC
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.32, C:0.30, G:0.25, T:0.14
Consensus pattern (18 bp):
GCCCAATAGGAGCATTCA
Found at i:15822849 original size:13 final size:13
Alignment explanation
Indices: 15822831--15822856 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
15822821 TATAGAAGTA
15822831 GATAACCACCTTC
1 GATAACCACCTTC
15822844 GATAACCACCTTC
1 GATAACCACCTTC
15822857 CTTAACAGAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.38, G:0.08, T:0.23
Consensus pattern (13 bp):
GATAACCACCTTC
Found at i:15824610 original size:8 final size:9
Alignment explanation
Indices: 15824558--15824611 Score: 51
Period size: 9 Copynumber: 6.1 Consensus size: 9
15824548 GTGAAATGAG
15824558 TTTATAATT
1 TTTATAATT
*
15824567 TTTATGATT
1 TTTATAATT
*
15824576 TCTA-AATT
1 TTTATAATT
15824584 TATTA-ATATT
1 T-TTATA-ATT
15824594 TTTATAATT
1 TTTATAATT
15824603 TTTA-AATT
1 TTTATAATT
15824611 T
1 T
15824612 CTTTAGTTTT
Statistics
Matches: 38, Mismatches: 4, Indels: 7
0.78 0.08 0.14
Matches are distributed among these distances:
8 9 0.24
9 24 0.63
10 5 0.13
ACGTcount: A:0.33, C:0.02, G:0.02, T:0.63
Consensus pattern (9 bp):
TTTATAATT
Found at i:15824736 original size:9 final size:9
Alignment explanation
Indices: 15824722--15824827 Score: 55
Period size: 9 Copynumber: 12.1 Consensus size: 9
15824712 TTTTTAGTAC
15824722 TTTATAATT
1 TTTATAATT
*
15824731 TTTATAA-A
1 TTTATAATT
*
15824739 TTAATAATT
1 TTTATAATT
*
15824748 TTT-T-ATA
1 TTTATAATT
15824755 TTT-TAATT
1 TTTATAATT
*
15824763 TTTAAAATT
1 TTTATAATT
*
15824772 TTTA-AA-A
1 TTTATAATT
15824779 TTTATAATT
1 TTTATAATT
*
15824788 TTTA-GATT
1 TTTATAATT
15824796 TTCTAAATAATT
1 TT-T--ATAATT
* *
15824808 ATTAATATTT
1 -TTTATAATT
15824818 TTTATAATT
1 TTTATAATT
15824827 T
1 T
15824828 CTAAACCTTT
Statistics
Matches: 72, Mismatches: 15, Indels: 20
0.67 0.14 0.19
Matches are distributed among these distances:
7 10 0.14
8 21 0.29
9 30 0.42
10 5 0.07
11 1 0.01
12 3 0.04
13 2 0.03
ACGTcount: A:0.38, C:0.01, G:0.01, T:0.60
Consensus pattern (9 bp):
TTTATAATT
Found at i:15824760 original size:18 final size:17
Alignment explanation
Indices: 15824711--15824772 Score: 51
Period size: 17 Copynumber: 3.8 Consensus size: 17
15824701 CAAGATGCTC
*
15824711 ATTTTTAGTACTTT-ATA
1 ATTTTTA-TAATTTAATA
*
15824728 ATTTTTATAAATTAATA
1 ATTTTTATAATTTAATA
15824745 ATTTTT-TATATTT--TA
1 ATTTTTATA-ATTTAATA
*
15824760 ATTTTTAAAATTT
1 ATTTTTATAATTT
15824773 TTAAAATTTA
Statistics
Matches: 38, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
15 12 0.32
16 7 0.18
17 19 0.50
ACGTcount: A:0.35, C:0.02, G:0.02, T:0.61
Consensus pattern (17 bp):
ATTTTTATAATTTAATA
Found at i:15824774 original size:16 final size:16
Alignment explanation
Indices: 15824726--15824802 Score: 57
Period size: 16 Copynumber: 4.7 Consensus size: 16
15824716 TAGTACTTTA
**
15824726 TAATTTTTATAAATTAA
1 TAATTTTTA-AAATTTT
* *
15824743 TAATTTTTTATA-TTT
1 TAATTTTTAAAATTTT
15824758 TAATTTTTAAAATTTT
1 TAATTTTTAAAATTTT
** *
15824774 TAAAATTTATAATTTT
1 TAATTTTTAAAATTTT
15824790 TAGATTTTCTAAA
1 TA-ATTTT-TAAA
15824803 TAATTATTAA
Statistics
Matches: 45, Mismatches: 12, Indels: 5
0.73 0.19 0.08
Matches are distributed among these distances:
15 11 0.24
16 20 0.44
17 11 0.24
18 3 0.07
ACGTcount: A:0.39, C:0.01, G:0.01, T:0.58
Consensus pattern (16 bp):
TAATTTTTAAAATTTT
Found at i:15824840 original size:18 final size:18
Alignment explanation
Indices: 15824817--15824851 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
15824807 TATTAATATT
*
15824817 TTTTATAATTTCTAAACC
1 TTTTATAATTTCCAAACC
*
15824835 TTTTATAGTTTCCAAAC
1 TTTTATAATTTCCAAAC
15824852 TTAGACAATC
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.31, C:0.17, G:0.03, T:0.49
Consensus pattern (18 bp):
TTTTATAATTTCCAAACC
Found at i:15824919 original size:20 final size:20
Alignment explanation
Indices: 15824891--15824952 Score: 64
Period size: 20 Copynumber: 3.4 Consensus size: 20
15824881 AGATGTACCT
*
15824891 TTATATTATTTATCTTTAAA
1 TTATTTTATTTATCTTTAAA
*
15824911 TTATTTTATTTCTCTTTAAA
1 TTATTTTATTTATCTTTAAA
15824931 --A-TTTA-TTAT-TTTAAA
1 TTATTTTATTTATCTTTAAA
15824946 TT-TTTTA
1 TTATTTTA
15824953 CTAACATGGC
Statistics
Matches: 36, Mismatches: 3, Indels: 9
0.75 0.06 0.19
Matches are distributed among these distances:
15 6 0.17
16 3 0.08
17 8 0.22
18 1 0.03
20 18 0.50
ACGTcount: A:0.31, C:0.05, G:0.00, T:0.65
Consensus pattern (20 bp):
TTATTTTATTTATCTTTAAA
Found at i:15825869 original size:20 final size:19
Alignment explanation
Indices: 15825824--15825865 Score: 75
Period size: 19 Copynumber: 2.2 Consensus size: 19
15825814 AACAAGGAAG
*
15825824 AAAGAAAAAAATTTAAAAT
1 AAAGAAAAAAATTTAAAAA
15825843 AAAGAAAAAAATTTAAAAA
1 AAAGAAAAAAATTTAAAAA
15825862 AAAG
1 AAAG
15825866 GAAATGAGAG
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.76, C:0.00, G:0.07, T:0.17
Consensus pattern (19 bp):
AAAGAAAAAAATTTAAAAA
Found at i:15832380 original size:19 final size:18
Alignment explanation
Indices: 15832356--15832408 Score: 70
Period size: 19 Copynumber: 2.8 Consensus size: 18
15832346 TTAAAAATAT
*
15832356 AAATTTTGGAATTTTTATA
1 AAATTTT-GAATTTTTAAA
*
15832375 AAATTTTGAATTTTAAAA
1 AAATTTTGAATTTTTAAA
15832393 AATATTTTGAATTTTT
1 AA-ATTTTGAATTTTT
15832409 TTGTAACTTT
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
18 11 0.37
19 19 0.63
ACGTcount: A:0.40, C:0.00, G:0.08, T:0.53
Consensus pattern (18 bp):
AAATTTTGAATTTTTAAA
Found at i:15834865 original size:20 final size:20
Alignment explanation
Indices: 15834840--15834888 Score: 89
Period size: 20 Copynumber: 2.5 Consensus size: 20
15834830 AATCACGTAA
*
15834840 GTATCGATACTAAAACATAG
1 GTATCGATAATAAAACATAG
15834860 GTATCGATAATAAAACATAG
1 GTATCGATAATAAAACATAG
15834880 GTATCGATA
1 GTATCGATA
15834889 TTTTTCTTAC
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.45, C:0.12, G:0.16, T:0.27
Consensus pattern (20 bp):
GTATCGATAATAAAACATAG
Found at i:15852157 original size:21 final size:21
Alignment explanation
Indices: 15852131--15852170 Score: 80
Period size: 21 Copynumber: 1.9 Consensus size: 21
15852121 TGAATTTGGC
15852131 GTGTCACATTGAAGTGTTTGT
1 GTGTCACATTGAAGTGTTTGT
15852152 GTGTCACATTGAAGTGTTT
1 GTGTCACATTGAAGTGTTT
15852171 TTCGAGCAAC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.20, C:0.10, G:0.28, T:0.42
Consensus pattern (21 bp):
GTGTCACATTGAAGTGTTTGT
Found at i:15852764 original size:28 final size:28
Alignment explanation
Indices: 15852724--15852810 Score: 138
Period size: 28 Copynumber: 3.1 Consensus size: 28
15852714 TAGTGACAGT
15852724 ACAGTGTGGGCCTTAGCCCAATACAATA
1 ACAGTGTGGGCCTTAGCCCAATACAATA
*
15852752 ACAGTGTGGGCCTTAGCCCAATACAGTA
1 ACAGTGTGGGCCTTAGCCCAATACAATA
* * *
15852780 ACAGTGTGGGCCTCAACCCAATACATTA
1 ACAGTGTGGGCCTTAGCCCAATACAATA
15852808 ACA
1 ACA
15852811 ATACAGTGCA
Statistics
Matches: 55, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
28 55 1.00
ACGTcount: A:0.32, C:0.26, G:0.21, T:0.21
Consensus pattern (28 bp):
ACAGTGTGGGCCTTAGCCCAATACAATA
Found at i:15853035 original size:22 final size:22
Alignment explanation
Indices: 15853010--15853075 Score: 73
Period size: 22 Copynumber: 3.0 Consensus size: 22
15853000 GCTGCCAGTT
15853010 AACAGAACGGCTAAAAGCCATA
1 AACAGAACGGCTAAAAGCCATA
* *
15853032 AACAGAAAC-GC-AATAAGCCTTG
1 AACAG-AACGGCTAA-AAGCCATA
*
15853054 AACAGAACGGCTACAAGCCATA
1 AACAGAACGGCTAAAAGCCATA
15853076 CACTTCCTCT
Statistics
Matches: 35, Mismatches: 5, Indels: 8
0.73 0.10 0.17
Matches are distributed among these distances:
21 5 0.14
22 26 0.74
23 4 0.11
ACGTcount: A:0.47, C:0.24, G:0.18, T:0.11
Consensus pattern (22 bp):
AACAGAACGGCTAAAAGCCATA
Found at i:15853270 original size:27 final size:26
Alignment explanation
Indices: 15853240--15853330 Score: 94
Period size: 27 Copynumber: 3.4 Consensus size: 26
15853230 GGATATATCA
15853240 ATCATTTTACCCTATAGGGGTATTTTG
1 ATCATTTTACCCT-TAGGGGTATTTTG
* * *
15853267 ATCATTTTA-ACTTACGAGTGTATTTCG
1 ATCATTTTACCCTTA-G-GGGTATTTTG
*
15853294 ATCATTTTACCCTTCGGGGGTATTTTG
1 ATCATTTTACCCTT-AGGGGTATTTTG
*
15853321 GTCATTTTAC
1 ATCATTTTAC
15853331 AATTTAAAGG
Statistics
Matches: 52, Mismatches: 8, Indels: 8
0.76 0.12 0.12
Matches are distributed among these distances:
25 2 0.04
26 3 0.06
27 43 0.83
28 4 0.08
ACGTcount: A:0.21, C:0.16, G:0.18, T:0.45
Consensus pattern (26 bp):
ATCATTTTACCCTTAGGGGTATTTTG
Found at i:15853369 original size:27 final size:27
Alignment explanation
Indices: 15853295--15853409 Score: 113
Period size: 27 Copynumber: 4.3 Consensus size: 27
15853285 TGTATTTCGA
* * **
15853295 TCATTTTACCCTTCGGGGGTATTTTGG
1 TCATTTTACCCTTCGGAGGTAATTCAG
** ***
15853322 TCATTTTACAATTTAAAGGTAATTCAG
1 TCATTTTACCCTTCGGAGGTAATTCAG
* * *
15853349 TCATTTTACCCTTTGGTGGTAATTTAG
1 TCATTTTACCCTTCGGAGGTAATTCAG
15853376 TCATTTTACCCTTCGGAGGTAATTCAG
1 TCATTTTACCCTTCGGAGGTAATTCAG
*
15853403 TTATTTT
1 TCATTTT
15853410 TTGGCCCAAG
Statistics
Matches: 69, Mismatches: 19, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
27 69 1.00
ACGTcount: A:0.22, C:0.16, G:0.17, T:0.45
Consensus pattern (27 bp):
TCATTTTACCCTTCGGAGGTAATTCAG
Found at i:15853396 original size:54 final size:54
Alignment explanation
Indices: 15853295--15853409 Score: 140
Period size: 54 Copynumber: 2.1 Consensus size: 54
15853285 TGTATTTCGA
* * *
15853295 TCATTTTACCCTTCGGGGGTATTTTGGTCATTTTACAATTTAAAGGTAATTCAG
1 TCATTTTACCCTTCGGGGGTAATTTAGTCATTTTACAATTCAAAGGTAATTCAG
* * ** **
15853349 TCATTTTACCCTTTGGTGGTAATTTAGTCATTTTACCCTTCGGAGGTAATTCAG
1 TCATTTTACCCTTCGGGGGTAATTTAGTCATTTTACAATTCAAAGGTAATTCAG
*
15853403 TTATTTT
1 TCATTTT
15853410 TTGGCCCAAG
Statistics
Matches: 51, Mismatches: 10, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
54 51 1.00
ACGTcount: A:0.22, C:0.16, G:0.17, T:0.45
Consensus pattern (54 bp):
TCATTTTACCCTTCGGGGGTAATTTAGTCATTTTACAATTCAAAGGTAATTCAG
Found at i:15855390 original size:21 final size:21
Alignment explanation
Indices: 15855366--15855407 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
15855356 CCCGAATTTG
*
15855366 GCGTGTCACGTTGAACTGTTT
1 GCGTGTCACATTGAACTGTTT
*
15855387 GCGTGTCACATTGAAGTGTTT
1 GCGTGTCACATTGAACTGTTT
15855408 TTCGAAAATC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.17, C:0.17, G:0.29, T:0.38
Consensus pattern (21 bp):
GCGTGTCACATTGAACTGTTT
Found at i:15855966 original size:28 final size:28
Alignment explanation
Indices: 15855922--15855987 Score: 105
Period size: 28 Copynumber: 2.4 Consensus size: 28
15855912 AAACCACATG
15855922 CAGTAACAGTCTAGGCCTTAGCCCAATA
1 CAGTAACAGTCTAGGCCTTAGCCCAATA
* *
15855950 CAGTAACAGTGTGGGCCTTAGCCCAATA
1 CAGTAACAGTCTAGGCCTTAGCCCAATA
*
15855978 CAGTAGCAGT
1 CAGTAACAGT
15855988 ACAGTGTAGT
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
28 35 1.00
ACGTcount: A:0.30, C:0.26, G:0.23, T:0.21
Consensus pattern (28 bp):
CAGTAACAGTCTAGGCCTTAGCCCAATA
Found at i:15856428 original size:25 final size:26
Alignment explanation
Indices: 15856400--15856454 Score: 78
Period size: 27 Copynumber: 2.1 Consensus size: 26
15856390 CATTTCGACT
15856400 CCTA-GGGGTATATT-AGTCATTTTAC
1 CCTAGGGGGTAT-TTCAGTCATTTTAC
15856425 CCTATGGGGGTATTTCAGTCATTTTAC
1 CCTA-GGGGGTATTTCAGTCATTTTAC
15856452 CCT
1 CCT
15856455 TCAGTGATAT
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
25 4 0.15
26 2 0.07
27 21 0.78
ACGTcount: A:0.20, C:0.20, G:0.20, T:0.40
Consensus pattern (26 bp):
CCTAGGGGGTATTTCAGTCATTTTAC
Found at i:15856465 original size:27 final size:27
Alignment explanation
Indices: 15856415--15856720 Score: 269
Period size: 27 Copynumber: 11.3 Consensus size: 27
15856405 GGGTATATTA
* * *
15856415 GTCATTTTACCCTAT-GGGGGTATTTCA
1 GTCATTTTACCCT-TCAGGGGTAATTCG
* * * *
15856442 GTCATTTTACCCTTCAGTGATATTTTG
1 GTCATTTTACCCTTCAGGGGTAATTCG
* * ** * *
15856469 GTCATTTTTCTCTTTTGTGGTACTTCG
1 GTCATTTTACCCTTCAGGGGTAATTCG
*
15856496 GTCATTTTACCCTTTAGGGGTAATTCG
1 GTCATTTTACCCTTCAGGGGTAATTCG
* * *
15856523 GTTATTTTACCTTTCAGGTGTAATTCG
1 GTCATTTTACCCTTCAGGGGTAATTCG
*
15856550 GTCATTTTACCCTTCGGGGGTAATTCG
1 GTCATTTTACCCTTCAGGGGTAATTCG
* *
15856577 ATCA-TTTACCCTTCGGGGGTAATTCG
1 GTCATTTTACCCTTCAGGGGTAATTCG
* *
15856603 GTCATTTTACCCTTTAGGAGTAATTCG
1 GTCATTTTACCCTTCAGGGGTAATTCG
* * * *
15856630 GTCATTTTTCCTTTCGGGGGTAATTTCA
1 GTCATTTTACCCTTCAGGGGTAA-TTCG
* *
15856658 GTCATTTTATCCTTC-GAGGGTAATTCT
1 GTCATTTTACCCTTCAG-GGGTAATTCG
* *
15856685 ATCATTTTATCCTTC-GTGGGTAATTCG
1 GTCATTTTACCCTTCAG-GGGTAATTCG
15856712 GTCAATTTT
1 GTC-ATTTT
15856721 TTACCGAAGC
Statistics
Matches: 230, Mismatches: 44, Indels: 9
0.81 0.16 0.03
Matches are distributed among these distances:
26 26 0.11
27 178 0.77
28 26 0.11
ACGTcount: A:0.17, C:0.19, G:0.20, T:0.44
Consensus pattern (27 bp):
GTCATTTTACCCTTCAGGGGTAATTCG
Found at i:15856530 original size:81 final size:80
Alignment explanation
Indices: 15856415--15856721 Score: 298
Period size: 81 Copynumber: 3.8 Consensus size: 80
15856405 GGGTATATTA
* * * * *
15856415 GTCATTTTACCCTATGGGGGTATTTCAGTCATTTTACCCTTCAGTGATATTTTGGTCATTTTTCT
1 GTCATTTTACCCTTTGGGGGTAATTCGGTCATTTTACCCTTCAGTGATAATTCGGTCATTTTTC-
* * *
15856480 CTTTTGTGGTACTTCG
65 CTTTGGGGGTAATTCG
* * * *
15856496 GTCATTTTACCCTTTAGGGGTAATTCGGTTATTTTACCTTTCAGGTG-TAATTCGGTCATTTTAC
1 GTCATTTTACCCTTTGGGGGTAATTCGGTCATTTTACCCTTCA-GTGATAATTCGGTCATTTT-T
*
15856560 CCTTCGGGGGTAATTCG
64 CCTTTGGGGGTAATTCG
* * *
15856577 ATCA-TTTACCCTTCGGGGGTAATTCGGTCATTTTACCCTTTAG-GAGTAATTCGGTCATTTTTC
1 GTCATTTTACCCTTTGGGGGTAATTCGGTCATTTTACCCTTCAGTGA-TAATTCGGTCATTTTTC
*
15856640 CTTTCGGGGGTAATTTCA
65 CTTT-GGGGGTAA-TTCG
* * * ** * *
15856658 GTCATTTTATCCTTCGAGGGTAATTCTATCATTTTATCCTTC-GTGGGTAATTCGGTCAATTTTT
1 GTCATTTTACCCTTTGGGGGTAATTCGGTCATTTTACCCTTCAGT-GATAATTCGGTC-ATTTTT
15856722 TACCGAAGCC
Statistics
Matches: 186, Mismatches: 30, Indels: 18
0.79 0.13 0.08
Matches are distributed among these distances:
78 1 0.01
79 5 0.03
80 56 0.30
81 72 0.39
82 45 0.24
83 7 0.04
ACGTcount: A:0.17, C:0.19, G:0.20, T:0.44
Consensus pattern (80 bp):
GTCATTTTACCCTTTGGGGGTAATTCGGTCATTTTACCCTTCAGTGATAATTCGGTCATTTTTCC
TTTGGGGGTAATTCG
Found at i:15856709 original size:82 final size:80
Alignment explanation
Indices: 15856443--15856721 Score: 246
Period size: 80 Copynumber: 3.4 Consensus size: 80
15856433 GGTATTTCAG
* * * * ** * * *
15856443 TCATTTTACCCTTCAGTGA-TATTTTGGTCATTTTTCTCTTTTGTGGTACTTCGGTCATTTTACC
1 TCATTTTACCCTTTAG-GAGTAATTCGGTCATTTTTCCCTTCGGGGGTAATTCGATCA-TTTACC
* *
15856507 CTT-TAGGGGTAATTCGG
64 CTTCGA-GGGTAATTCGA
* * *
15856524 TTATTTTA-CCTTTCAGGTGTAATTCGGTCATTTTACCCTTCGGGGGTAATTCGATCATTTACCC
1 TCATTTTACCCTTT-AGGAGTAATTCGGTCATTTTTCCCTTCGGGGGTAATTCGATCATTTACCC
* *
15856588 TTCGGGGGTAATTCGG
65 TTCGAGGGTAATTCGA
* *
15856604 TCATTTTACCCTTTAGGAGTAATTCGGTCATTTTTCCTTTCGGGGGTAATTTC-AGTCATTTTAT
1 TCATTTTACCCTTTAGGAGTAATTCGGTCATTTTTCCCTTCGGGGGTAA-TTCGA-TCA-TTTAC
*
15856668 CCTTCGAGGGTAATTCTA
63 CCTTCGAGGGTAATTCGA
*
15856686 TCATTTTATCCTTCGT-GG-GTAATTCGGTCAATTTTT
1 TCATTTTACCCTT--TAGGAGTAATTCGGTC-ATTTTT
15856722 TACCGAAGCC
Statistics
Matches: 165, Mismatches: 23, Indels: 18
0.80 0.11 0.09
Matches are distributed among these distances:
80 65 0.39
81 49 0.30
82 42 0.25
83 8 0.05
84 1 0.01
ACGTcount: A:0.17, C:0.19, G:0.19, T:0.45
Consensus pattern (80 bp):
TCATTTTACCCTTTAGGAGTAATTCGGTCATTTTTCCCTTCGGGGGTAATTCGATCATTTACCCT
TCGAGGGTAATTCGA
Found at i:15863340 original size:19 final size:21
Alignment explanation
Indices: 15863316--15863358 Score: 63
Period size: 19 Copynumber: 2.1 Consensus size: 21
15863306 TTTTAATATT
*
15863316 TTATTTAATT-TAT-TCCTAA
1 TTATTTAATTATATAACCTAA
15863335 TTATTTAATTATATAACCTAA
1 TTATTTAATTATATAACCTAA
15863356 TTA
1 TTA
15863359 CGGTTTTTGG
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 10 0.48
20 3 0.14
21 8 0.38
ACGTcount: A:0.37, C:0.09, G:0.00, T:0.53
Consensus pattern (21 bp):
TTATTTAATTATATAACCTAA
Found at i:15869475 original size:15 final size:15
Alignment explanation
Indices: 15869455--15869485 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
15869445 CCAACCTTCA
*
15869455 AATTTTAGGTCAATT
1 AATTTTACGTCAATT
15869470 AATTTTACGTCAATT
1 AATTTTACGTCAATT
15869485 A
1 A
15869486 TACATAATAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.35, C:0.10, G:0.10, T:0.45
Consensus pattern (15 bp):
AATTTTACGTCAATT
Found at i:15871741 original size:11 final size:11
Alignment explanation
Indices: 15871725--15871751 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
15871715 TAGAAATTAG
15871725 TTTGTGAAACT
1 TTTGTGAAACT
15871736 TTTGTGAAACT
1 TTTGTGAAACT
15871747 TTTGT
1 TTTGT
15871752 ATTGATTTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.22, C:0.07, G:0.19, T:0.52
Consensus pattern (11 bp):
TTTGTGAAACT
Found at i:15873287 original size:91 final size:92
Alignment explanation
Indices: 15873164--15873343 Score: 274
Period size: 91 Copynumber: 2.0 Consensus size: 92
15873154 TTGATTTTAG
* *
15873164 TAAATTCATATAAGAACATTTTATTATTAAGAATTTTATGAAATTATATATCACTATTAAATTAT
1 TAAATTCATATAAGAACAATTTATTATCAAGAATTTTATGAAATTATATATCACTATTAAATTAT
* *
15873229 ATTTAAT-ATTAATTATTTTAAATTGTA
66 ATGTAATAATT-ATCATTTTAAATTGTA
* * *
15873256 TAAATTCATATTAGAA-AATTTATTATCAAGAATTTTATGAAATTATATATTATTATTAAATTAT
1 TAAATTCATATAAGAACAATTTATTATCAAGAATTTTATGAAATTATATATCACTATTAAATTAT
15873320 ATGTAATAATTATCATTTTAAATT
66 ATGTAATAATTATCATTTTAAATT
15873344 ATACAAATCC
Statistics
Matches: 80, Mismatches: 7, Indels: 3
0.89 0.08 0.03
Matches are distributed among these distances:
91 62 0.77
92 18 0.22
ACGTcount: A:0.44, C:0.04, G:0.04, T:0.48
Consensus pattern (92 bp):
TAAATTCATATAAGAACAATTTATTATCAAGAATTTTATGAAATTATATATCACTATTAAATTAT
ATGTAATAATTATCATTTTAAATTGTA
Found at i:15873390 original size:91 final size:91
Alignment explanation
Indices: 15873165--15873371 Score: 254
Period size: 91 Copynumber: 2.3 Consensus size: 91
15873155 TGATTTTAGT
* * * *
15873165 AAATTCATATAAGAACATTTTATTATTAAGAATTTTATGAAATTATATATCACTATTAAATTATA
1 AAATCCATAAAAGAA-AATTTATTATCAAGAATTTTATGAAATTATATATCACTATTAAATTATA
* * * *
15873230 TTTAATATTAATTATTTTAAATTGTAT
65 TGTAATATTAATCATTTTAAATTATAC
* ** * *
15873257 AAATTCATATTAGAAAATTTATTATCAAGAATTTTATGAAATTATATATTATTATTAAATTATAT
1 AAATCCATAAAAGAAAATTTATTATCAAGAATTTTATGAAATTATATATCACTATTAAATTATAT
15873322 GTAATAATT-ATCATTTTAAATTATAC
66 GTAAT-ATTAATCATTTTAAATTATAC
* *
15873348 AAATCCATAAAATATAATTTATTA
1 AAATCCATAAAAGAAAATTTATTA
15873372 GTTATAATTA
Statistics
Matches: 100, Mismatches: 14, Indels: 3
0.85 0.12 0.03
Matches are distributed among these distances:
91 83 0.83
92 17 0.17
ACGTcount: A:0.45, C:0.05, G:0.04, T:0.46
Consensus pattern (91 bp):
AAATCCATAAAAGAAAATTTATTATCAAGAATTTTATGAAATTATATATCACTATTAAATTATAT
GTAATATTAATCATTTTAAATTATAC
Found at i:15873511 original size:66 final size:64
Alignment explanation
Indices: 15873425--15873635 Score: 183
Period size: 66 Copynumber: 3.4 Consensus size: 64
15873415 AAATATATTT
* *
15873425 AATATTAATTATTTCAAATTTTATTTTATAGTATCATATATTATGATTTGAGTAAATTCATATAA
1 AATATTAATTA-TTAAAATTATATTTTA-AGTATCATATATTATGATTTGAGTAAATTCATATAA
15873490 G
64 G
* * * * **
15873491 AATATTAATTATTAAGAATT-T-TATTAA--ATTATATATT-TTAATT-A-T-AA-T-ATAT-TT
1 AATATTAATTATTAA-AATTATATTTTAAGTATCATATATTATGATTTGAGTAAATTCATATAAG
* * * *
15873545 AATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGGTTTGAGTAAATTCATATAA
1 AATATTAATTAT-TAAAATTATATTTTA-AGTATCATATATTATGATTTGAGTAAATTCATATAA
15873610 G
64 G
15873611 AATATTAATTATTAAGAATTATATT
1 AATATTAATTATTAA-AATTATATT
15873636 AAATTATATA
Statistics
Matches: 110, Mismatches: 20, Indels: 30
0.69 0.12 0.19
Matches are distributed among these distances:
54 14 0.13
55 7 0.06
56 5 0.05
57 3 0.03
58 1 0.01
59 10 0.09
60 7 0.06
61 10 0.09
62 1 0.01
63 3 0.03
64 5 0.05
65 10 0.09
66 34 0.31
ACGTcount: A:0.42, C:0.03, G:0.07, T:0.49
Consensus pattern (64 bp):
AATATTAATTATTAAAATTATATTTTAAGTATCATATATTATGATTTGAGTAAATTCATATAAG
Found at i:15873511 original size:120 final size:120
Alignment explanation
Indices: 15873387--15873679 Score: 500
Period size: 120 Copynumber: 2.4 Consensus size: 120
15873377 AATTATTTTA
* * *
15873387 AATTTTATTAAATCATATATTTTAATTAAAATATATTTAATATTAATTAT-TTCAAATTT-TATT
1 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTT--AATTTATATT
*
15873450 TTATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
64 TTACAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
15873507 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTAATTTATATTTT
1 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTAATTTATATTTT
*
15873572 ACAGTATCATATATTATGGTTTGAGTAAATTCATATAAGAATATTAATTATTAAG
66 ACAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
*
15873627 AATTATATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTT
1 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTT
15873680 TAAATATGAT
Statistics
Matches: 165, Mismatches: 6, Indels: 4
0.94 0.03 0.02
Matches are distributed among these distances:
119 5 0.03
120 158 0.96
121 2 0.01
ACGTcount: A:0.43, C:0.02, G:0.05, T:0.50
Consensus pattern (120 bp):
AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTAATTTATATTTT
ACAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
Found at i:15873547 original size:15 final size:15
Alignment explanation
Indices: 15873512--15873563 Score: 56
Period size: 15 Copynumber: 3.6 Consensus size: 15
15873502 TTAAGAATTT
*
15873512 TATTAAATTAT-ATA
1 TATTTAATTATAATA
15873526 T-TTTAATTATAATA
1 TATTTAATTATAATA
*
15873540 TATTTAATAATAAT-
1 TATTTAATTATAATA
15873554 TATGTTAATT
1 TAT-TTAATT
15873564 TATATTTTAC
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
13 8 0.25
14 8 0.25
15 16 0.50
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (15 bp):
TATTTAATTATAATA
Found at i:15873662 original size:16 final size:16
Alignment explanation
Indices: 15873641--15873682 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
15873631 ATATTAAATT
*
15873641 ATATATTTTAATTATA
1 ATATATTTTAATAATA
15873657 ATATA-TTTAATAATA
1 ATATATTTTAATAATA
15873672 AT-TATGTTTAA
1 ATATAT-TTTAA
15873683 ATATGATTAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
14 2 0.09
15 11 0.48
16 10 0.43
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.52
Consensus pattern (16 bp):
ATATATTTTAATAATA
Found at i:15873813 original size:18 final size:17
Alignment explanation
Indices: 15873785--15873819 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
15873775 ATTATTAAGA
*
15873785 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
15873802 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
15873820 TTAAATAACA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:15874002 original size:45 final size:44
Alignment explanation
Indices: 15873913--15874007 Score: 136
Period size: 45 Copynumber: 2.1 Consensus size: 44
15873903 TTACACCTCT
*
15873913 ATTACATTCAACCAAACACAGGATTACTATTACGCCTCTATTCC
1 ATTACATTCAACCAAACACAGGATTACTATTACACCTCTATTCC
*** *
15873957 ATTACATTCAACCAAACAGTTGATTTGCTATTACACCTCTATTCC
1 ATTACATTCAACCAAACACAGGA-TTACTATTACACCTCTATTCC
15874002 ATTACA
1 ATTACA
15874008 GCGAACCAAA
Statistics
Matches: 45, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
44 20 0.44
45 25 0.56
ACGTcount: A:0.34, C:0.27, G:0.06, T:0.33
Consensus pattern (44 bp):
ATTACATTCAACCAAACACAGGATTACTATTACACCTCTATTCC
Found at i:15875241 original size:39 final size:39
Alignment explanation
Indices: 15875198--15875299 Score: 168
Period size: 39 Copynumber: 2.6 Consensus size: 39
15875188 CATGATTCAG
* * *
15875198 GTGGATCAGCTCTTATGAGCTTCTGTTGGCATTTTTTGA
1 GTGGACCAGCTCTTATGAGCTTCTGTTGGCATGTTTCGA
15875237 GTGGACCAGCTCTTATGAGCTTCTGTTGGCATGTTTCGA
1 GTGGACCAGCTCTTATGAGCTTCTGTTGGCATGTTTCGA
*
15875276 ATGGACCAGCTCTTATGAGCTTCT
1 GTGGACCAGCTCTTATGAGCTTCT
15875300 ATTTGGCGTA
Statistics
Matches: 59, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
39 59 1.00
ACGTcount: A:0.17, C:0.20, G:0.25, T:0.38
Consensus pattern (39 bp):
GTGGACCAGCTCTTATGAGCTTCTGTTGGCATGTTTCGA
Found at i:15875359 original size:23 final size:21
Alignment explanation
Indices: 15875333--15875376 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 21
15875323 TAAAAACCCT
15875333 AGAAAACTGTAGAGAAAAACTAA
1 AGAAAACT-TAGAG-AAAACTAA
*
15875356 AGAAAACTTATAGAAAACTAA
1 AGAAAACTTAGAGAAAACTAA
15875377 GCTAAATGTG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
21 8 0.40
22 4 0.20
23 8 0.40
ACGTcount: A:0.61, C:0.09, G:0.14, T:0.16
Consensus pattern (21 bp):
AGAAAACTTAGAGAAAACTAA
Found at i:15882719 original size:5 final size:5
Alignment explanation
Indices: 15882706--15882744 Score: 60
Period size: 5 Copynumber: 7.8 Consensus size: 5
15882696 TCTCGCTTCT
* *
15882706 TTTTC TTTTG TTTTG TTTTG TTTTT TTTTG TTTTG TTTT
1 TTTTG TTTTG TTTTG TTTTG TTTTG TTTTG TTTTG TTTT
15882745 TCTTGACAGA
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
5 31 1.00
ACGTcount: A:0.00, C:0.03, G:0.13, T:0.85
Consensus pattern (5 bp):
TTTTG
Found at i:15883356 original size:13 final size:13
Alignment explanation
Indices: 15883340--15883364 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
15883330 AAAAATATTT
15883340 TAAAAATAAAAAA
1 TAAAAATAAAAAA
15883353 TAAAAATAAAAA
1 TAAAAATAAAAA
15883365 TATTTTTTAA
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:0.84, C:0.00, G:0.00, T:0.16
Consensus pattern (13 bp):
TAAAAATAAAAAA
Found at i:15885279 original size:21 final size:23
Alignment explanation
Indices: 15885255--15885297 Score: 56
Period size: 21 Copynumber: 2.0 Consensus size: 23
15885245 AAACATGTGA
15885255 TTTAATAG-CTAAA-AAC-TTAGT
1 TTTAA-AGACTAAATAACATTAGT
15885276 TTTAAAGACTAAATAACATTAG
1 TTTAAAGACTAAATAACATTAG
15885298 AAACTCATAA
Statistics
Matches: 19, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
20 2 0.11
21 10 0.53
22 3 0.16
23 4 0.21
ACGTcount: A:0.47, C:0.09, G:0.09, T:0.35
Consensus pattern (23 bp):
TTTAAAGACTAAATAACATTAGT
Found at i:15889582 original size:39 final size:39
Alignment explanation
Indices: 15889539--15889742 Score: 137
Period size: 39 Copynumber: 5.2 Consensus size: 39
15889529 CAAATATTAA
* * *
15889539 TAAAATTCCTATTGGGAAATCAATTTTGTAACTAAATAC
1 TAAAATTCTTATTGGGAAACCAATTTTCTAACTAAATAC
* ** * * * *
15889578 TAAAATTCTTAATAAGAAACCATAATCTCTCAAC-AACTAA
1 TAAAATTCTTATTGGGAAACCA-ATTTTCT-AACTAAATAC
* * * *
15889618 TAAAATTCTTATTGGAAAATCAATTTTTTAACCAAATAC
1 TAAAATTCTTATTGGGAAACCAATTTTCTAACTAAATAC
* * *
15889657 TAAAATTCTTAATT-GGAAACCATAATCTCTCAACT-ATTAC
1 TAAAATTCTT-ATTGGGAAACCA-ATTTTCT-AACTAAATAC
* * * *
15889697 TATAATTAC-TATTGGAAAACCAATTTTGTAACAAAATAC
1 TAAAATT-CTTATTGGGAAACCAATTTTCTAACTAAATAC
15889736 TAAAATT
1 TAAAATT
15889743 ATTTTTGAAA
Statistics
Matches: 121, Mismatches: 35, Indels: 18
0.70 0.20 0.10
Matches are distributed among these distances:
38 6 0.05
39 58 0.48
40 50 0.41
41 7 0.06
ACGTcount: A:0.45, C:0.15, G:0.06, T:0.34
Consensus pattern (39 bp):
TAAAATTCTTATTGGGAAACCAATTTTCTAACTAAATAC
Found at i:15889619 original size:79 final size:79
Alignment explanation
Indices: 15889494--15889742 Score: 331
Period size: 79 Copynumber: 3.2 Consensus size: 79
15889484 AAAAAAACCC
* * * *
15889494 AAATACTAAAATTCTT-ATTATAAACTATAATGTCTCAA-ATATTAATAAAATTCCTATTGGGAA
1 AAATACTAAAATTCTTAATTAGAAACCATAATCTCTCAACA-ATTAATAAAATTCCTATTGGAAA
*
15889557 ATCAATTTTGTAACT
65 ATCAATTTTGTAACA
* * *
15889572 AAATACTAAAATTCTTAATAAGAAACCATAATCTCTCAACAACTAATAAAATTCTTATTGGAAAA
1 AAATACTAAAATTCTTAATTAGAAACCATAATCTCTCAACAATTAATAAAATTCCTATTGGAAAA
* *
15889637 TCAATTTTTTAACC
66 TCAATTTTGTAACA
* * * * *
15889651 AAATACTAAAATTCTTAATTGGAAACCATAATCTCTCAACTATTACTATAATTACTATTGGAAAA
1 AAATACTAAAATTCTTAATTAGAAACCATAATCTCTCAACAATTAATAAAATTCCTATTGGAAAA
*
15889716 CCAATTTTGTAACA
66 TCAATTTTGTAACA
15889730 AAATACTAAAATT
1 AAATACTAAAATT
15889743 ATTTTTGAAA
Statistics
Matches: 149, Mismatches: 20, Indels: 3
0.87 0.12 0.02
Matches are distributed among these distances:
78 16 0.11
79 132 0.89
80 1 0.01
ACGTcount: A:0.45, C:0.14, G:0.05, T:0.35
Consensus pattern (79 bp):
AAATACTAAAATTCTTAATTAGAAACCATAATCTCTCAACAATTAATAAAATTCCTATTGGAAAA
TCAATTTTGTAACA
Found at i:15889627 original size:40 final size:40
Alignment explanation
Indices: 15889572--15889690 Score: 127
Period size: 40 Copynumber: 3.0 Consensus size: 40
15889562 TTTTGTAACT
* **
15889572 AAATACTAAAATTCTTAATAAGAAACCATAATCTCTCAAC
1 AAATAATAAAATTCTTAATTGGAAACCATAATCTCTCAAC
* * * *
15889612 AACTAATAAAATTCTT-ATTGGAAA--ATCAATTTTTTAACC
1 AAATAATAAAATTCTTAATTGGAAACCAT-AATCTCTCAA-C
*
15889651 AAATACTAAAATTCTTAATTGGAAACCATAATCTCTCAAC
1 AAATAATAAAATTCTTAATTGGAAACCATAATCTCTCAAC
15889691 TATTACTATA
Statistics
Matches: 62, Mismatches: 12, Indels: 10
0.74 0.14 0.12
Matches are distributed among these distances:
37 2 0.03
38 7 0.11
39 21 0.34
40 23 0.37
41 7 0.11
42 2 0.03
ACGTcount: A:0.46, C:0.18, G:0.04, T:0.32
Consensus pattern (40 bp):
AAATAATAAAATTCTTAATTGGAAACCATAATCTCTCAAC
Found at i:15889698 original size:40 final size:39
Alignment explanation
Indices: 15889495--15889714 Score: 137
Period size: 39 Copynumber: 5.6 Consensus size: 39
15889485 AAAAAACCCA
** * * *
15889495 AATACTAAAATTCTTATTATAAACTATAATGTCTCAAAT
1 AATACTAAAATTCTTATTGGAAACCATAATCTCTCAACT
* * * * * * *
15889534 ATTAATAAAATTCCTATTGGGAAATCA-ATTTTGT-AACT
1 AATACTAAAATTCTTATT-GGAAACCATAATCTCTCAACT
**
15889572 AAATACTAAAATTCTTAATAAGAAACCATAATCTCTCAAC-
1 -AATACTAAAATTCTT-ATTGGAAACCATAATCTCTCAACT
* * * * *
15889612 AACTAATAAAATTCTTATTGGAAA--ATCAATTTTTTAACCA
1 AA-TACTAAAATTCTTATTGGAAACCAT-AATCTCTCAA-CT
15889652 AATACTAAAATTCTTAATTGGAAACCATAATCTCTCAACT
1 AATACTAAAATTCTT-ATTGGAAACCATAATCTCTCAACT
* *
15889692 ATTACTATAATTAC-TATTGGAAA
1 AATACTAAAATT-CTTATTGGAAA
15889715 ACCAATTTTG
Statistics
Matches: 135, Mismatches: 33, Indels: 26
0.70 0.17 0.13
Matches are distributed among these distances:
37 2 0.01
38 10 0.07
39 66 0.49
40 44 0.33
41 11 0.08
42 2 0.01
ACGTcount: A:0.45, C:0.15, G:0.05, T:0.35
Consensus pattern (39 bp):
AATACTAAAATTCTTATTGGAAACCATAATCTCTCAACT
Found at i:15889801 original size:23 final size:23
Alignment explanation
Indices: 15889775--15889829 Score: 60
Period size: 23 Copynumber: 2.4 Consensus size: 23
15889765 AATCAAATGC
15889775 TTTG-TAA-AAAAAATTTAAAAAAT
1 TTTGTTAATAAAAAA-TT-AAAAAT
*
15889798 TTTGTTAATTAAAAATTAAAAAT
1 TTTGTTAATAAAAAATTAAAAAT
*
15889821 TTTATTAAT
1 TTTGTTAAT
15889830 GATATGATTT
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
23 18 0.64
24 5 0.18
25 5 0.18
ACGTcount: A:0.53, C:0.00, G:0.04, T:0.44
Consensus pattern (23 bp):
TTTGTTAATAAAAAATTAAAAAT
Found at i:15893874 original size:51 final size:51
Alignment explanation
Indices: 15893798--15893959 Score: 297
Period size: 51 Copynumber: 3.2 Consensus size: 51
15893788 CTGATCAGTA
15893798 ACAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAGTGACAAGTG
1 ACAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAGTGACAAGTG
15893849 ACAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAGTGACAAGTG
1 ACAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAGTGACAAGTG
* * *
15893900 ACAAGTGATAAGTGGTAGCTTTAGTTACACTTATCTGATCAATGATAAGTG
1 ACAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAGTGACAAGTG
15893951 ACAAGTGAT
1 ACAAGTGAT
15893960 GTGATATGTG
Statistics
Matches: 108, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
51 108 1.00
ACGTcount: A:0.33, C:0.14, G:0.23, T:0.30
Consensus pattern (51 bp):
ACAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAGTGACAAGTG
Found at i:15898496 original size:39 final size:38
Alignment explanation
Indices: 15898453--15898678 Score: 197
Period size: 39 Copynumber: 5.8 Consensus size: 38
15898443 CAACTATTAA
* *
15898453 TAAAATTCCTATTGGGAAATCAATTTTGTAACTAAATAC
1 TAAAATTCTTATT-GGAAACCAATTTTGTAACTAAATAC
* * * * * *
15898492 TAAAATTCTTAATGGAAACCATAATCTCTCAACT-ACTAA
1 TAAAATTCTTATTGGAAACCA-ATTTTGT-AACTAAATAC
* *
15898531 TAAAATTCTTATTGGAAATCAATTTTGTAACCAAATAC
1 TAAAATTCTTATTGGAAACCAATTTTGTAACTAAATAC
* * *
15898569 TAAAATTCTTAATTGGAAACC-ATAATCGCTCAACT-ATTAC
1 TAAAATTCTT-ATTGGAAACCAAT-TTTG-T-AACTAAATAC
* * *
15898609 TATAATTCCTATTGGAAAACCAATTTTGTAACAAAATAC
1 TAAAATTCTTATTGG-AAACCAATTTTGTAACTAAATAC
*
15898648 TAAAATTCTTATTGGAAACACAACTTTGTAA
1 TAAAATTCTTATTGGAAAC-CAATTTTGTAA
15898679 TCAAATGCTT
Statistics
Matches: 146, Mismatches: 30, Indels: 22
0.74 0.15 0.11
Matches are distributed among these distances:
37 3 0.02
38 33 0.23
39 81 0.55
40 24 0.16
41 5 0.03
ACGTcount: A:0.42, C:0.16, G:0.08, T:0.34
Consensus pattern (38 bp):
TAAAATTCTTATTGGAAACCAATTTTGTAACTAAATAC
Found at i:15898544 original size:78 final size:78
Alignment explanation
Indices: 15898408--15898666 Score: 358
Period size: 78 Copynumber: 3.3 Consensus size: 78
15898398 AAAAAAGCCC
* * ** * *
15898408 AAATGCTAAAATTCTTATTATAAACTATAATGTCTCAACTATTAATAAAATTCCTATTGGGAAAT
1 AAATACTAAAATTCTTAATGGAAACCATAATCTCTCAACTATTAATAAAATTCCTATTGGGAAAT
*
15898473 CAATTTTGTAACT
66 CAATTTTGTAACA
* *
15898486 AAATACTAAAATTCTTAATGGAAACCATAATCTCTCAACTACTAATAAAATTCTTATT-GGAAAT
1 AAATACTAAAATTCTTAATGGAAACCATAATCTCTCAACTATTAATAAAATTCCTATTGGGAAAT
*
15898550 CAATTTTGTAACC
66 CAATTTTGTAACA
* * * *
15898563 AAATACTAAAATTCTTAATTGGAAACCATAATCGCTCAACTATTACTATAATTCCTATTGGAAAA
1 AAATACTAAAATTCTTAA-TGGAAACCATAATCTCTCAACTATTAATAAAATTCCTATTGGGAAA
*
15898628 CCAATTTTGTAACA
65 TCAATTTTGTAACA
*
15898642 AAATACTAAAATTCTTATTGGAAAC
1 AAATACTAAAATTCTTAATGGAAAC
15898667 ACAACTTTGT
Statistics
Matches: 161, Mismatches: 18, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
77 36 0.22
78 92 0.57
79 33 0.20
ACGTcount: A:0.42, C:0.15, G:0.07, T:0.35
Consensus pattern (78 bp):
AAATACTAAAATTCTTAATGGAAACCATAATCTCTCAACTATTAATAAAATTCCTATTGGGAAAT
CAATTTTGTAACA
Found at i:15898720 original size:22 final size:22
Alignment explanation
Indices: 15898696--15898737 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
15898686 CTTTGTAAAA
15898696 AAAATT-TAAAAATTATTAATT
1 AAAATTATAAAAATTATTAATT
*
15898717 AAAATTATAAAATTTATTAAT
1 AAAATTATAAAAATTATTAAT
15898738 GATATGATTT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 6 0.32
22 13 0.68
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (22 bp):
AAAATTATAAAAATTATTAATT
Found at i:15910541 original size:24 final size:25
Alignment explanation
Indices: 15910491--15910547 Score: 75
Period size: 24 Copynumber: 2.3 Consensus size: 25
15910481 ATAACCCAAC
15910491 ATTATAAATTTTGTTATTATATAATA
1 ATTATAAATTTTGTTA-TATATAATA
15910517 ATTATATAATTTT-TTA-ATATAATA
1 ATTATA-AATTTTGTTATATATAATA
15910541 ATT-TAAA
1 ATTATAAA
15910548 AATATATAAA
Statistics
Matches: 30, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
22 2 0.07
23 2 0.07
24 11 0.37
26 9 0.30
27 6 0.20
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.53
Consensus pattern (25 bp):
ATTATAAATTTTGTTATATATAATA
Found at i:15916019 original size:13 final size:13
Alignment explanation
Indices: 15916002--15916045 Score: 56
Period size: 13 Copynumber: 3.5 Consensus size: 13
15915992 TATCATTTTG
*
15916002 ATAAAAATATTAG
1 ATAAAAATATTAA
15916015 ATAAAAA-A-TAA
1 ATAAAAATATTAA
*
15916026 ATATAAATATTAA
1 ATAAAAATATTAA
15916039 ATAAAAA
1 ATAAAAA
15916046 AACTGCAGAT
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
11 8 0.31
12 2 0.08
13 16 0.62
ACGTcount: A:0.70, C:0.00, G:0.02, T:0.27
Consensus pattern (13 bp):
ATAAAAATATTAA
Found at i:15919695 original size:13 final size:13
Alignment explanation
Indices: 15919673--15919704 Score: 57
Period size: 13 Copynumber: 2.5 Consensus size: 13
15919663 GCGCATGAAT
15919673 ATAA-AAATAATA
1 ATAATAAATAATA
15919685 ATAATAAATAATA
1 ATAATAAATAATA
15919698 ATAATAA
1 ATAATAA
15919705 TGATACAAGA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
12 4 0.21
13 15 0.79
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (13 bp):
ATAATAAATAATA
Found at i:15920206 original size:19 final size:19
Alignment explanation
Indices: 15920182--15920273 Score: 157
Period size: 19 Copynumber: 4.8 Consensus size: 19
15920172 AATCATATCT
*
15920182 TCTAAGATTGCTTATCATA
1 TCTAAGATTGCATATCATA
*
15920201 TCTAAGATTACATATCATA
1 TCTAAGATTGCATATCATA
15920220 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
*
15920239 TCTAAGATTACATATCATA
1 TCTAAGATTGCATATCATA
15920258 TCTAAGATTGCATATC
1 TCTAAGATTGCATATC
15920274 CTTGAAGATT
Statistics
Matches: 68, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
19 68 1.00
ACGTcount: A:0.37, C:0.16, G:0.09, T:0.38
Consensus pattern (19 bp):
TCTAAGATTGCATATCATA
Found at i:15920236 original size:38 final size:38
Alignment explanation
Indices: 15920159--15920273 Score: 176
Period size: 38 Copynumber: 2.9 Consensus size: 38
15920149 AAATTAAATC
* *
15920159 TCTAAGATTACAAAATCATATCTTCTAAGATTGCTTATCATA
1 TCTAAGATTAC-ATATCATA---TCTAAGATTGCATATCATA
15920201 TCTAAGATTACATATCATATCTAAGATTGCATATCATA
1 TCTAAGATTACATATCATATCTAAGATTGCATATCATA
15920239 TCTAAGATTACATATCATATCTAAGATTGCATATC
1 TCTAAGATTACATATCATATCTAAGATTGCATATC
15920274 CTTGAAGATT
Statistics
Matches: 71, Mismatches: 2, Indels: 4
0.92 0.03 0.05
Matches are distributed among these distances:
38 53 0.75
41 7 0.10
42 11 0.15
ACGTcount: A:0.38, C:0.17, G:0.08, T:0.37
Consensus pattern (38 bp):
TCTAAGATTACATATCATATCTAAGATTGCATATCATA
Found at i:15920970 original size:44 final size:44
Alignment explanation
Indices: 15920909--15921808 Score: 422
Period size: 44 Copynumber: 20.8 Consensus size: 44
15920899 ACCCGATGCG
* *
15920909 ATCTGCT-CTCTGCAACTTCAGAGAGATAAGATCTGTGATTTTA
1 ATCTGCTCCACTGCAACTTCAGGGAGATAAGATCTGTGATTTTA
** * * **
15920952 ATCCACTCCACTGCAACTTCAGGGAGATAGGAT-TATTGGCTTTA
1 ATCTGCTCCACTGCAACTTCAGGGAGATAAGATCT-GTGATTTTA
* ** *
15920996 ATCTACTCCACTGCAACTTCAGGGAGATAAGAT-TCGCCATCTTCA
1 ATCTGCTCCACTGCAACTTCAGGGAGATAAGATCT-GTGAT-TTTA
* * * *
15921041 GTCTGC-CTCACTACAACTTCA-GGAGGATAAG-GCT-TGCTTACTTA
1 ATCTGCTC-CACTGCAACTTCAGGGA-GATAAGATCTGTGATT--TTA
* * ***
15921085 ATCTGCTCCACTGTAACTTCAGGGAGATAAGA-CT-AGA-TGCG
1 ATCTGCTCCACTGCAACTTCAGGGAGATAAGATCTGTGATTTTA
* * *
15921126 ATCTGCT-CTCTGTAACTTCAGAGAGATAAGATCTGTGATTTTA
1 ATCTGCTCCACTGCAACTTCAGGGAGATAAGATCTGTGATTTTA
* * * * **
15921169 ATCCGCTCCACTGCGACTTCAGGGAGATAGGAT-TATTGGCTTTA
1 ATCTGCTCCACTGCAACTTCAGGGAGATAAGATCT-GTGATTTTA
** *
15921213 ATCTGCTCCACTGCAACTTCAGGGAGATAAGAT-TCGCCATCTTCA
1 ATCTGCTCCACTGCAACTTCAGGGAGATAAGATCT-GTGAT-TTTA
* * * *
15921258 GTCTGC-CTCACTACAACTTCA-GGAGGATAA-AGCT-TGCTTACTTA
1 ATCTGCTC-CACTGCAACTTCAGGGA-GATAAGATCTGTGATT--TTA
* * ***
15921302 ATCTGCTCCACTGTAACTTCAGGGAGATAAGA-CT-AGA-TGCG
1 ATCTGCTCCACTGCAACTTCAGGGAGATAAGATCTGTGATTTTA
* * * * **
15921343 ATCTGCT-CTCTGCGACTTCAGGGAGATAGGAT-TATTGGCTTTA
1 ATCTGCTCCACTGCAACTTCAGGGAGATAAGATCT-GTGATTTTA
*
15921386 ATCTGCTCCACTGCAACTTCAGGGAGATAAGA-CTCGCT--TTCTTGG
1 ATCTGCTCCACTGCAACTTCAGGGAGATAAGATCT-G-TGATT-TT-A
* * * * ** **
15921431 GTCTGCTCTACTGCAACTTTAGGTAGATAAGA-C-CCGA-TGCA
1 ATCTGCTCCACTGCAACTTCAGGGAGATAAGATCTGTGATTTTA
* * * *
15921472 ATCTGCT-CTCTGTAACTTCAGAGAGATAAGATTTGTGATTTTA
1 ATCTGCTCCACTGCAACTTCAGGGAGATAAGATCTGTGATTTTA
** * * * *
15921515 ATCCACTCCACTGCAACTTCAGGGAGATAGGAT-TATTAGCTTTA
1 ATCTGCTCCACTGCAACTTCAGGGAGATAAGATCTGTGA-TTTTA
* ** *
15921559 ATCTGCTCCACTGAAACTTCAGGGAGATAAGAT-TCGCCATATTCA
1 ATCTGCTCCACTGCAACTTCAGGGAGATAAGATCT-GTGAT-TTTA
* * * * *
15921604 GTTTGC-CTCACTACAACTTCA-GGAGGATAAG-GCT-TGCTTACTTA
1 ATCTGCTC-CACTGCAACTTCAGGGA-GATAAGATCTGTGATT--TTA
* * * * ***
15921648 GTCTGCTCCACTACAACTTTAGGGAGATAAGA-CT-AGA-TGCG
1 ATCTGCTCCACTGCAACTTCAGGGAGATAAGATCTGTGATTTTA
* * * *
15921689 ATCTGCT-CTCTGCAACTTTAGAGAAATAAGATCTGTGATTTTA
1 ATCTGCTCCACTGCAACTTCAGGGAGATAAGATCTGTGATTTTA
* ** * * * **
15921732 ATCCGCTCCACTGTGACTTTAGGGAGATAGGAT-TATTGGCTTTA
1 ATCTGCTCCACTGCAACTTCAGGGAGATAAGATCT-GTGATTTTA
15921776 ATCTGCTCCACTGCAACTTCAGGGAGATAAGAT
1 ATCTGCTCCACTGCAACTTCAGGGAGATAAGAT
15921809 TCACCATCTT
Statistics
Matches: 633, Mismatches: 168, Indels: 111
0.69 0.18 0.12
Matches are distributed among these distances:
40 81 0.13
41 30 0.05
42 10 0.02
43 48 0.08
44 343 0.54
45 121 0.19
ACGTcount: A:0.27, C:0.22, G:0.21, T:0.30
Consensus pattern (44 bp):
ATCTGCTCCACTGCAACTTCAGGGAGATAAGATCTGTGATTTTA
Found at i:15921158 original size:217 final size:217
Alignment explanation
Indices: 15920869--15921414 Score: 923
Period size: 217 Copynumber: 2.5 Consensus size: 217
15920859 ATTTCTTGAG
** * **
15920869 TCTGCTCCACTACAACTTTAGGGAGATAAGACCCGATGCGATCTGCTCTCTGCAACTTCAGAGAG
1 TCTGCTCCACTGTAACTTCAGGGAGATAAGACTAGATGCGATCTGCTCTCTGCAACTTCAGAGAG
*
15920934 ATAAGATCTGTGATTTTAATCCACTCCACTGCAACTTCAGGGAGATAGGATTATTGGCTTTAATC
66 ATAAGATCTGTGATTTTAATCCGCTCCACTGCAACTTCAGGGAGATAGGATTATTGGCTTTAATC
15920999 TACTCCACTGCAACTTCAGGGAGATAAGATTCGCCATCTTCAGTCTGCCTCACTACAACTTCAGG
131 TACTCCACTGCAACTTCAGGGAGATAAGATTCGCCATCTTCAGTCTGCCTCACTACAACTTCAGG
*
15921064 AGGATAAGGCTTGCTTACTTAA
196 AGGATAAAGCTTGCTTACTTAA
*
15921086 TCTGCTCCACTGTAACTTCAGGGAGATAAGACTAGATGCGATCTGCTCTCTGTAACTTCAGAGAG
1 TCTGCTCCACTGTAACTTCAGGGAGATAAGACTAGATGCGATCTGCTCTCTGCAACTTCAGAGAG
*
15921151 ATAAGATCTGTGATTTTAATCCGCTCCACTGCGACTTCAGGGAGATAGGATTATTGGCTTTAATC
66 ATAAGATCTGTGATTTTAATCCGCTCCACTGCAACTTCAGGGAGATAGGATTATTGGCTTTAATC
*
15921216 TGCTCCACTGCAACTTCAGGGAGATAAGATTCGCCATCTTCAGTCTGCCTCACTACAACTTCAGG
131 TACTCCACTGCAACTTCAGGGAGATAAGATTCGCCATCTTCAGTCTGCCTCACTACAACTTCAGG
15921281 AGGATAAAGCTTGCTTACTTAA
196 AGGATAAAGCTTGCTTACTTAA
* *
15921303 TCTGCTCCACTGTAACTTCAGGGAGATAAGACTAGATGCGATCTGCTCTCTGCGACTTCAGGGAG
1 TCTGCTCCACTGTAACTTCAGGGAGATAAGACTAGATGCGATCTGCTCTCTGCAACTTCAGAGAG
* * ** *
15921368 ATAGGAT-TATTGGCTTTAATCTGCTCCACTGCAACTTCAGGGAGATA
66 ATAAGATCT-GTGATTTTAATCCGCTCCACTGCAACTTCAGGGAGATA
15921415 AGACTCGCTT
Statistics
Matches: 309, Mismatches: 19, Indels: 2
0.94 0.06 0.01
Matches are distributed among these distances:
216 1 0.00
217 308 1.00
ACGTcount: A:0.27, C:0.23, G:0.21, T:0.29
Consensus pattern (217 bp):
TCTGCTCCACTGTAACTTCAGGGAGATAAGACTAGATGCGATCTGCTCTCTGCAACTTCAGAGAG
ATAAGATCTGTGATTTTAATCCGCTCCACTGCAACTTCAGGGAGATAGGATTATTGGCTTTAATC
TACTCCACTGCAACTTCAGGGAGATAAGATTCGCCATCTTCAGTCTGCCTCACTACAACTTCAGG
AGGATAAAGCTTGCTTACTTAA
Found at i:15921278 original size:173 final size:173
Alignment explanation
Indices: 15921099--15921634 Score: 692
Period size: 173 Copynumber: 3.1 Consensus size: 173
15921089 GCTCCACTGT
*
15921099 AACTTCAGG-GAGATAAGACTAGATGCGATCTGCTCTCTGTAACTTCAGAGAGATAAGATCTGTG
1 AACTTCAGGAG-GATAAGACTAGATGCAATCTGCTCTCTGTAACTTCAGAGAGATAAGATCTGTG
15921163 ATTTTAATCCGCTCCACTGCGACTTCAGGGAGATAGGATTATTGGCTTTAATCTGCTCCACTGCA
65 ATTTTAATCCGCTCCACTGCGACTTCAGGGAGATAGGATTATTGGCTTTAATCTGCTCCACTGCA
15921228 ACTTCAGGGAGATAAGATTCGCCATCTTCAGTCTGCCTCACTAC
130 ACTTCAGGGAGATAAGATTCGCCATCTTCAGTCTGCCTCACTAC
* * * * *
15921272 AACTTCAGGAGGATAA-AGCTTGCTTACTTAATCTGCTCCACTGTAACTTCAGGGAGATAAGA-C
1 AACTTCAGGAGGATAAGA-CTAG-ATGC--AATCTGCT-CTCTGTAACTTCAGAGAGATAAGATC
* *** * *
15921335 T-AGA-TGCGATCTGCT-CTCTGCGACTTCAGGGAGATAGGATTATTGGCTTTAATCTGCTCCAC
61 TGTGATTTTAATCCGCTCCACTGCGACTTCAGGGAGATAGGATTATTGGCTTTAATCTGCTCCAC
* ** ** *
15921397 TGCAACTTCAGGGAGATAAGACTCGCTTTCTTGGGTCTG-CTCTACTGC
126 TGCAACTTCAGGGAGATAAGATTCGCCATCTTCAGTCTGCCTC-ACTAC
* ** *
15921445 AACTTTAGGTA-GATAAGACCCGATGCAATCTGCTCTCTGTAACTTCAGAGAGATAAGATTTGTG
1 AACTTCAGG-AGGATAAGACTAGATGCAATCTGCTCTCTGTAACTTCAGAGAGATAAGATCTGTG
* * * *
15921509 ATTTTAATCCACTCCACTGCAACTTCAGGGAGATAGGATTATTAGCTTTAATCTGCTCCACTGAA
65 ATTTTAATCCGCTCCACTGCGACTTCAGGGAGATAGGATTATTGGCTTTAATCTGCTCCACTGCA
* *
15921574 ACTTCAGGGAGATAAGATTCGCCATATTCAGTTTGCCTCACTAC
130 ACTTCAGGGAGATAAGATTCGCCATCTTCAGTCTGCCTCACTAC
15921618 AACTTCAGGAGGATAAG
1 AACTTCAGGAGGATAAG
15921635 GCTTGCTTAC
Statistics
Matches: 303, Mismatches: 45, Indels: 30
0.80 0.12 0.08
Matches are distributed among these distances:
169 22 0.07
170 9 0.03
171 2 0.01
172 13 0.04
173 209 0.69
174 15 0.05
175 2 0.01
176 9 0.03
177 22 0.07
ACGTcount: A:0.27, C:0.22, G:0.21, T:0.29
Consensus pattern (173 bp):
AACTTCAGGAGGATAAGACTAGATGCAATCTGCTCTCTGTAACTTCAGAGAGATAAGATCTGTGA
TTTTAATCCGCTCCACTGCGACTTCAGGGAGATAGGATTATTGGCTTTAATCTGCTCCACTGCAA
CTTCAGGGAGATAAGATTCGCCATCTTCAGTCTGCCTCACTAC
Found at i:15921404 original size:84 final size:87
Alignment explanation
Indices: 15921177--15921683 Score: 305
Period size: 89 Copynumber: 5.8 Consensus size: 87
15921167 TAATCCGCTC
15921177 CACTGCGACTTCAGGGAGATAGGATTATTGGCTTTAATCTGCTCCACTGCAACTTCAGGGAGATA
1 CACTGCGACTTCAGGGAGATAGGATTATTGGCTTTAATCTGCTCCACTGCAACTTCAGGGAGATA
* *
15921242 AGATTCGCCATCTTCAGTCTGCCT
66 AGACTAG-CATC-TCAGTCTGCCT
* * * * * * *
15921266 CACTACAACTTCA-GGAGGATAAAGCTTGCTT-AC-TTAATCTGCTCCACTGTAACTTCAGGGAG
1 CACTGCGACTTCAGGGA-GAT-AGGATT-ATTGGCTTTAATCTGCTCCACTGCAACTTCAGGGAG
*
15921328 ATAAGACTAG-AT-GC-GATCTG-CT
63 ATAAGACTAGCATCTCAG-TCTGCCT
*
15921350 CTCTGCGACTTCAGGGAGATAGGATTATTGGCTTTAATCTGCTCCACTGCAACTTCAGGGAGATA
1 CACTGCGACTTCAGGGAGATAGGATTATTGGCTTTAATCTGCTCCACTGCAACTTCAGGGAGATA
* * **
15921415 AGACTCGCTTTCTTGGGTCTG-CT
66 AGACTAGC-ATC-TCAGTCTGCCT
* * * * ** * * *
15921438 CTACTGCAACTTTAGGTAGATAAGACCCGA-T-GC---AATCTGCT-CTCTGTAACTTCAGAGAG
1 C-ACTGCGACTTCAGGGAGATAGGA--TTATTGGCTTTAATCTGCTCCACTGCAACTTCAGGGAG
* * * * * *
15921497 ATAAGATTTGTGATTTTAATC--CACT
63 ATAAGACTAG-CATCTCAGTCTGC-CT
* * *
15921522 CCACTGCAACTTCAGGGAGATAGGATTATTAGCTTTAATCTGCTCCACTGAAACTTCAGGGAGAT
1 -CACTGCGACTTCAGGGAGATAGGATTATTGGCTTTAATCTGCTCCACTGCAACTTCAGGGAGAT
* * * *
15921587 AAGATTCGCCATATTCAGTTTGCCT
65 AAGACTAG-CAT-CTCAGTCTGCCT
* * * * * * * *
15921612 CACTACAACTTCA-GGAGGATAAGGCTTGCTT-AC-TTAGTCTGCTCCACTACAACTTTAGGGAG
1 CACTGCGACTTCAGGGA-GAT-AGGATT-ATTGGCTTTAATCTGCTCCACTGCAACTTCAGGGAG
15921674 ATAAGACTAG
63 ATAAGACTAG
15921684 ATGCGATCTG
Statistics
Matches: 323, Mismatches: 64, Indels: 62
0.72 0.14 0.14
Matches are distributed among these distances:
82 3 0.01
83 6 0.02
84 80 0.25
85 33 0.10
86 9 0.03
87 10 0.03
88 39 0.12
89 123 0.38
90 14 0.04
91 6 0.02
ACGTcount: A:0.27, C:0.22, G:0.21, T:0.30
Consensus pattern (87 bp):
CACTGCGACTTCAGGGAGATAGGATTATTGGCTTTAATCTGCTCCACTGCAACTTCAGGGAGATA
AGACTAGCATCTCAGTCTGCCT
Found at i:15921449 original size:129 final size:129
Alignment explanation
Indices: 15921303--15921543 Score: 331
Period size: 129 Copynumber: 1.9 Consensus size: 129
15921293 GCTTACTTAA
* * * * *
15921303 TCTGCTCCACTGTAACTTCAGGGAGATAAGACTAGATGCGATCTGCTCTCTGCGACTTCAGGGAG
1 TCTGCTCCACTGCAACTTCAGGGAGATAAGACCAGATGCAATCTGCTCTCTGCAACTTCAGAGAG
* * **
15921368 ATAGGATTAT-TGGCTTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGACTCGCTTTCTTGGG
66 ATAAGATT-TGTGACTTTAATCCACTCCACTGCAACTTCAGGGAGATAAGACTCGCTTTCTTGGG
* * * * *
15921432 TCTGCTCTACTGCAACTTTAGGTAGATAAGACCCGATGCAATCTGCTCTCTGTAACTTCAGAGAG
1 TCTGCTCCACTGCAACTTCAGGGAGATAAGACCAGATGCAATCTGCTCTCTGCAACTTCAGAGAG
*
15921497 ATAAGATTTGTGATTTTAATCCACTCCACTGCAACTTCAGGGAGATA
66 ATAAGATTTGTGACTTTAATCCACTCCACTGCAACTTCAGGGAGATA
15921544 GGATTATTAG
Statistics
Matches: 96, Mismatches: 15, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
128 1 0.01
129 95 0.99
ACGTcount: A:0.26, C:0.22, G:0.22, T:0.30
Consensus pattern (129 bp):
TCTGCTCCACTGCAACTTCAGGGAGATAAGACCAGATGCAATCTGCTCTCTGCAACTTCAGAGAG
ATAAGATTTGTGACTTTAATCCACTCCACTGCAACTTCAGGGAGATAAGACTCGCTTTCTTGGG
Found at i:15921704 original size:173 final size:173
Alignment explanation
Indices: 15921179--15921706 Score: 663
Period size: 173 Copynumber: 3.1 Consensus size: 173
15921169 ATCCGCTCCA
*
15921179 CTGCGACTTCAGGGAGATAGGATTATTGGCTTTAATCTGCTCCACTGCAACTTCAGGGAGATAAG
1 CTGCAACTTCAGGGAGATAGGATTATTGGCTTTAATCTGCTCCACTGCAACTTCAGGGAGATAAG
*
15921244 ATTCGCCATCTTCAGTCTGCCTCACTACAACTTCAGGAGGATAAAGCTTGCTTACTTAATCTGCT
66 ATTCGCCATCTTCAGTCTGCCTCACTACAACTTCAGGAGGATAAGGCTTGCTTACTTAATCTGCT
15921309 CCACTGTAACTTCAGGGAGATAAGACTAGATGCGATCTGCTCT
131 CCACTGTAACTTCAGGGAGATAAGACTAGATGCGATCTGCTCT
*
15921352 CTGCGACTTCAGGGAGATAGGATTATTGGCTTTAATCTGCTCCACTGCAACTTCAGGGAGATAAG
1 CTGCAACTTCAGGGAGATAGGATTATTGGCTTTAATCTGCTCCACTGCAACTTCAGGGAGATAAG
* ** ** * * * ** * *
15921417 ACTCGCTTTCTTGGGTCTG-CTCTACTGCAACTTTAGGTA-GATAAGACCCG-ATGC--AATCTG
66 ATTCGCCATCTTCAGTCTGCCTC-ACTACAACTTCAGG-AGGATAAGGCTTGCTTACTTAATCTG
* * * * *** ** *
15921477 CT-CTCTGTAACTTCAGAGAGATAAGATTTGTGATTTTAATCCACTCCA
129 CTCCACTGTAACTTCAGGGAGATAAGA-CT-AGA-TGCGATCTGCT-CT
* *
15921525 CTGCAACTTCAGGGAGATAGGATTATTAGCTTTAATCTGCTCCACTGAAACTTCAGGGAGATAAG
1 CTGCAACTTCAGGGAGATAGGATTATTGGCTTTAATCTGCTCCACTGCAACTTCAGGGAGATAAG
* * *
15921590 ATTCGCCATATTCAGTTTGCCTCACTACAACTTCAGGAGGATAAGGCTTGCTTACTTAGTCTGCT
66 ATTCGCCATCTTCAGTCTGCCTCACTACAACTTCAGGAGGATAAGGCTTGCTTACTTAATCTGCT
** *
15921655 CCACTACAACTTTAGGGAGATAAGACTAGATGCGATCTGCTCT
131 CCACTGTAACTTCAGGGAGATAAGACTAGATGCGATCTGCTCT
15921698 CTGCAACTT
1 CTGCAACTT
15921707 TAGAGAAATA
Statistics
Matches: 289, Mismatches: 54, Indels: 24
0.79 0.15 0.07
Matches are distributed among these distances:
169 22 0.08
170 9 0.03
171 2 0.01
172 12 0.04
173 203 0.70
174 12 0.04
175 2 0.01
176 8 0.03
177 19 0.07
ACGTcount: A:0.26, C:0.23, G:0.21, T:0.30
Consensus pattern (173 bp):
CTGCAACTTCAGGGAGATAGGATTATTGGCTTTAATCTGCTCCACTGCAACTTCAGGGAGATAAG
ATTCGCCATCTTCAGTCTGCCTCACTACAACTTCAGGAGGATAAGGCTTGCTTACTTAATCTGCT
CCACTGTAACTTCAGGGAGATAAGACTAGATGCGATCTGCTCT
Found at i:15921734 original size:173 final size:172
Alignment explanation
Indices: 15921179--15921765 Score: 628
Period size: 173 Copynumber: 3.4 Consensus size: 172
15921169 ATCCGCTCCA
* *
15921179 CTGCGACTTCAGGGAGATAGGATTATTGGCTTTAATCTGCTCCACTGCAACTTCAGGGAGATAAG
1 CTGCAACTTCAGGGAGATAGGATTA-TGACTTTAATCTGCTCCACTGCAACTTCAGGGAGATAAG
*
15921244 ATTCGCCATCTTCAGTCTGCCTCACTACAACTTCAGGAGGATAAAGCTTGCTTACTTAATCTGCT
65 ATTCGCCATCTTCAGTCTGCCTCACTACAACTTCAGGAGGATAAGGCTTGCTTACTTAATCTGCT
15921309 CCACTGTAACTTCAGGGAGATAAGACTAGATGCGATCTGCTCT
130 CCACTGTAACTTCAGGGAGATAAGACTAGATGCGATCTGCTCT
* *
15921352 CTGCGACTTCAGGGAGATAGGATTATTGGCTTTAATCTGCTCCACTGCAACTTCAGGGAGATAAG
1 CTGCAACTTCAGGGAGATAGGATTA-TGACTTTAATCTGCTCCACTGCAACTTCAGGGAGATAAG
* ** ** * * * ** * *
15921417 ACTCGCTTTCTTGGGTCTG-CTCTACTGCAACTTTAGGTA-GATAAGACCCG-ATGC--AATCTG
65 ATTCGCCATCTTCAGTCTGCCTC-ACTACAACTTCAGG-AGGATAAGGCTTGCTTACTTAATCTG
* * * * *** ** *
15921477 CT-CTCTGTAACTTCAGAGAGATAAGATTTGTGATTTTAATCCACTCCA
128 CTCCACTGTAACTTCAGGGAGATAAGA-CT-AGA-TGCGATCTGCT-CT
* *
15921525 CTGCAACTTCAGGGAGATAGGATTATTAGCTTTAATCTGCTCCACTGAAACTTCAGGGAGATAAG
1 CTGCAACTTCAGGGAGATAGGATTATGA-CTTTAATCTGCTCCACTGCAACTTCAGGGAGATAAG
* * *
15921590 ATTCGCCATATTCAGTTTGCCTCACTACAACTTCAGGAGGATAAGGCTTGCTTACTTAGTCTGCT
65 ATTCGCCATCTTCAGTCTGCCTCACTACAACTTCAGGAGGATAAGGCTTGCTTACTTAATCTGCT
** *
15921655 CCACTACAACTTTAGGGAGATAAGACTAGATGCGATCTGCTCT
130 CCACTGTAACTTCAGGGAGATAAGACTAGATGCGATCTGCTCT
* * * * * * * ** * *
15921698 CTGCAACTTTAGAGAAATAAGATCTGTGATTTTAATCCGCTCCACTGTGACTTTAGGGAGATAGG
1 CTGCAACTTCAGGGAGATAGGAT-TATGACTTTAATCTGCTCCACTGCAACTTCAGGGAGATAAG
15921763 ATT
65 ATT
15921766 ATTGGCTTTA
Statistics
Matches: 333, Mismatches: 67, Indels: 28
0.78 0.16 0.07
Matches are distributed among these distances:
169 22 0.07
170 9 0.03
171 2 0.01
172 13 0.04
173 243 0.73
174 15 0.05
175 2 0.01
176 8 0.02
177 19 0.06
ACGTcount: A:0.27, C:0.22, G:0.21, T:0.30
Consensus pattern (172 bp):
CTGCAACTTCAGGGAGATAGGATTATGACTTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGA
TTCGCCATCTTCAGTCTGCCTCACTACAACTTCAGGAGGATAAGGCTTGCTTACTTAATCTGCTC
CACTGTAACTTCAGGGAGATAAGACTAGATGCGATCTGCTCT
Found at i:15921734 original size:346 final size:346
Alignment explanation
Indices: 15921086--15921807 Score: 1063
Period size: 346 Copynumber: 2.1 Consensus size: 346
15921076 GCTTACTTAA
* * *
15921086 TCTGCTCCACTGTAACTTCAGGGAGATAAGACTAGATGCGATCTGCTCTCTGTAACTTCAGAGAG
1 TCTGCTCCACTGCAACTTCAGGGAGATAAGACCAGATGCAATCTGCTCTCTGTAACTTCAGAGAG
* * *
15921151 ATAAGATCTGTGATTTTAATCCGCTCCACTGCGACTTCAGGGAGATAGGATTATTGGCTTTAATC
66 ATAAGATCTGTGATTTTAATCCACTCCACTGCAACTTCAGGGAGATAGGATTATTAGCTTTAATC
* *
15921216 TGCTCCACTGCAACTTCAGGGAGATAAGATTCGCCATCTTCAGTCTGCCTCACTACAACTTCAGG
131 TGCTCCACTGAAACTTCAGGGAGATAAGATTCGCCATATTCAGTCTGCCTCACTACAACTTCAGG
**
15921281 AGGATAAAGCTTGCTTACTTAATCTGCTCCACTGTAACTTCAGGGAGATAAGACTAGATGCGATC
196 AGGATAAAGCTTGCTTACTTAATCTGCTCCACTACAACTTCAGGGAGATAAGACTAGATGCGATC
* * * * * * *
15921346 TGCTCTCTGCGACTTCAGGGAGATAGGATTATTGGCTTTAATCTGCTCCACTGCAACTTCAGGGA
261 TGCTCTCTGCAACTTCAGAGAAATAAGATTAGTGACTTTAATCCGCTCCACTGCAACTTCAGGGA
15921411 GATAAGACTCGCTTTCTTGGG
326 GATAAGACTCGCTTTCTTGGG
* * * *
15921432 TCTGCTCTACTGCAACTTTAGGTAGATAAGACCCGATGCAATCTGCTCTCTGTAACTTCAGAGAG
1 TCTGCTCCACTGCAACTTCAGGGAGATAAGACCAGATGCAATCTGCTCTCTGTAACTTCAGAGAG
*
15921497 ATAAGATTTGTGATTTTAATCCACTCCACTGCAACTTCAGGGAGATAGGATTATTAGCTTTAATC
66 ATAAGATCTGTGATTTTAATCCACTCCACTGCAACTTCAGGGAGATAGGATTATTAGCTTTAATC
*
15921562 TGCTCCACTGAAACTTCAGGGAGATAAGATTCGCCATATTCAGTTTGCCTCACTACAACTTCAGG
131 TGCTCCACTGAAACTTCAGGGAGATAAGATTCGCCATATTCAGTCTGCCTCACTACAACTTCAGG
* * *
15921627 AGGATAAGGCTTGCTTACTTAGTCTGCTCCACTACAACTTTAGGGAGATAAGACTAGATGCGATC
196 AGGATAAAGCTTGCTTACTTAATCTGCTCCACTACAACTTCAGGGAGATAAGACTAGATGCGATC
* * ** *
15921692 TGCTCTCTGCAACTTTAGAGAAATAAGATCT-GTGATTTTAATCCGCTCCACTGTGACTTTAGGG
261 TGCTCTCTGCAACTTCAGAGAAATAAGAT-TAGTGACTTTAATCCGCTCCACTGCAACTTCAGGG
* ** * ***
15921756 AGATAGGA-T-TATTGGCTTTAA
325 AGATAAGACTCGCTT-TCTTGGG
15921777 TCTGCTCCACTGCAACTTCAGGGAGATAAGA
1 TCTGCTCCACTGCAACTTCAGGGAGATAAGA
15921808 TTCACCATCT
Statistics
Matches: 333, Mismatches: 41, Indels: 5
0.88 0.11 0.01
Matches are distributed among these distances:
344 2 0.01
345 32 0.10
346 298 0.89
347 1 0.00
ACGTcount: A:0.27, C:0.22, G:0.21, T:0.30
Consensus pattern (346 bp):
TCTGCTCCACTGCAACTTCAGGGAGATAAGACCAGATGCAATCTGCTCTCTGTAACTTCAGAGAG
ATAAGATCTGTGATTTTAATCCACTCCACTGCAACTTCAGGGAGATAGGATTATTAGCTTTAATC
TGCTCCACTGAAACTTCAGGGAGATAAGATTCGCCATATTCAGTCTGCCTCACTACAACTTCAGG
AGGATAAAGCTTGCTTACTTAATCTGCTCCACTACAACTTCAGGGAGATAAGACTAGATGCGATC
TGCTCTCTGCAACTTCAGAGAAATAAGATTAGTGACTTTAATCCGCTCCACTGCAACTTCAGGGA
GATAAGACTCGCTTTCTTGGG
Found at i:15921810 original size:217 final size:218
Alignment explanation
Indices: 15921394--15921822 Score: 628
Period size: 217 Copynumber: 2.0 Consensus size: 218
15921384 TAATCTGCTC
* * * * * *
15921394 CACTGCAACTTCAGGGAGATAAGACTCGCTTTCTTGGGTCTGCTCTACTGCAACTTTAGGTAGAT
1 CACTACAACTTCAGGGAGATAAGACTCGCTTACTTGAGTCTGCTCCACTACAACTTTAGGGAGAT
* * * *
15921459 AAGACCCGATGCAATCTGCTCTCTGTAACTTCAGAGAGATAAGATTTGTGATTTTAATCCACTCC
66 AAGACCAGATGCAATCTGCTCTCTGCAACTTCAGAGAAATAAGATCTGTGATTTTAATCCACTCC
15921524 ACTGCAACTTCAGGGAGATAGGATTATTAGCTTTAATCTGCTCCACTGAAACTTCAGGGAGATAA
131 ACTGCAACTTCAGGGAGATAGGATTATTAGCTTTAATCTGCTCCACTGAAACTTCAGGGAGATAA
*
15921589 GATTCGCCATATTCAGTTTGCCT
196 GATTCACCATATTCAGTTTGCCT
* *
15921612 CACTACAACTTCA-GGAGGATAAGGCTTGCTTACTT-AGTCTGCTCCACTACAACTTTAGGGAGA
1 CACTACAACTTCAGGGA-GATAAGACTCGCTTACTTGAGTCTGCTCCACTACAACTTTAGGGAGA
* * * *
15921675 TAAGACTAGATGCGATCTGCTCTCTGCAACTTTAGAGAAATAAGATCTGTGATTTTAATCCGCTC
65 TAAGACCAGATGCAATCTGCTCTCTGCAACTTCAGAGAAATAAGATCTGTGATTTTAATCCACTC
** * * *
15921740 CACTGTGACTTTAGGGAGATAGGATTATTGGCTTTAATCTGCTCCACTGCAACTTCAGGGAGATA
130 CACTGCAACTTCAGGGAGATAGGATTATTAGCTTTAATCTGCTCCACTGAAACTTCAGGGAGATA
*
15921805 AGATTCACCATCTTCAGT
195 AGATTCACCATATTCAGT
15921823 CTTTTAAATT
Statistics
Matches: 187, Mismatches: 23, Indels: 3
0.88 0.11 0.01
Matches are distributed among these distances:
217 160 0.86
218 27 0.14
ACGTcount: A:0.28, C:0.22, G:0.20, T:0.31
Consensus pattern (218 bp):
CACTACAACTTCAGGGAGATAAGACTCGCTTACTTGAGTCTGCTCCACTACAACTTTAGGGAGAT
AAGACCAGATGCAATCTGCTCTCTGCAACTTCAGAGAAATAAGATCTGTGATTTTAATCCACTCC
ACTGCAACTTCAGGGAGATAGGATTATTAGCTTTAATCTGCTCCACTGAAACTTCAGGGAGATAA
GATTCACCATATTCAGTTTGCCT
Found at i:15922231 original size:44 final size:44
Alignment explanation
Indices: 15922176--15922294 Score: 145
Period size: 44 Copynumber: 2.7 Consensus size: 44
15922166 TGTTATTTTT
* * *
15922176 AACCTACTCCACTGTTGCTCAGGGAGATAGGA-TTCATAATCTTC
1 AACCTATTCCACTGCTGCTCAGGGAGATAGGACTT-ACAATCTTC
*
15922220 AACCTATTCCACTGCTGAC-CAGGGAGATAAGACTTACAATCTTC
1 AACCTATTCCACTGCTG-CTCAGGGAGATAGGACTTACAATCTTC
*
15922264 AACCTATTCCACTACTG-TCTAGGGAGATAGG
1 AACCTATTCCACTGCTGCTC-AGGGAGATAGG
15922295 GCTGGGGTCA
Statistics
Matches: 65, Mismatches: 6, Indels: 8
0.82 0.08 0.10
Matches are distributed among these distances:
43 1 0.02
44 61 0.94
45 3 0.05
ACGTcount: A:0.29, C:0.25, G:0.18, T:0.27
Consensus pattern (44 bp):
AACCTATTCCACTGCTGCTCAGGGAGATAGGACTTACAATCTTC
Found at i:15922356 original size:88 final size:88
Alignment explanation
Indices: 15922294--15922871 Score: 859
Period size: 88 Copynumber: 6.6 Consensus size: 88
15922284 AGGGAGATAG
* * *
15922294 GGCTGGGGTCATCGATCTGCTTCACTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTAACCTGC
1 GGCTGGTGTCTTCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTAACCTGC
* *
15922359 TCCGCTGCAACCCAGAGAGGCAA
66 TCCGCTACAACCCAGGGAGGCAA
15922382 GGCTGGTGTCTTCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTAACCTGC
1 GGCTGGTGTCTTCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTAACCTGC
* *
15922447 TCCGCTGCAACCCAAGGAGGCAA
66 TCCGCTACAACCCAGGGAGGCAA
* * *
15922470 GGCTGGTATCTTCGATCTGCTTCGCTATCGGTGCAGGAAGGCAAGATCTACTATTTTTAACCTGC
1 GGCTGGTGTCTTCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTAACCTGC
* * *
15922535 TTCGCTACAGCCCAGAGAGGCAA
66 TCCGCTACAACCCAGGGAGGCAA
* ** * *
15922558 GGCTGGTGTCTTCAATCTGCTTCGCTGTCGACGCAAGAAGGCAAGATCTGCTATTTTTAACTTGC
1 GGCTGGTGTCTTCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTAACCTGC
* * *
15922623 TCTGCTATAACTCAGGGAGGCAA
66 TCCGCTACAACCCAGGGAGGCAA
*
15922646 GGCTGGTGTCTTCGATCTGCTTCGTTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTAACCTGC
1 GGCTGGTGTCTTCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTAACCTGC
* *
15922711 TCCGCTGCAACCCAGGGATGCAA
66 TCCGCTACAACCCAGGGAGGCAA
* * *
15922734 GGCTAGTGTCTTCGATCTGCTTCGCTATCGGTGCAGGAAGGCAAGATCTGCTATTTTTAACCTAC
1 GGCTGGTGTCTTCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTAACCTGC
* *
15922799 TCCGCTACAACTCAGGGAGACAA
66 TCCGCTACAACCCAGGGAGGCAA
* * * *
15922822 GGTTAGTGTCTTCGATCTGCTTCGCTGTCGGAGCAGGAAGACAAGATCTG
1 GGCTGGTGTCTTCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTG
15922872 TTATCTTCAC
Statistics
Matches: 440, Mismatches: 50, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
88 440 1.00
ACGTcount: A:0.21, C:0.25, G:0.27, T:0.27
Consensus pattern (88 bp):
GGCTGGTGTCTTCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTAACCTGC
TCCGCTACAACCCAGGGAGGCAA
Found at i:15922408 original size:43 final size:43
Alignment explanation
Indices: 15922355--15922584 Score: 133
Period size: 43 Copynumber: 5.3 Consensus size: 43
15922345 TATTTTTAAC
* * * *
15922355 CTGCTCCGCTGCAACCCAGAGAGGCAAGGCTGGTGTCTTCGAT
1 CTGCTTCGCTGCAGCCCAGAGAGGCAAGGCTGGTATCTTCAAT
* ** * * * * *
15922398 CTGCTTCGCTGTCGGTGCAG-GAAGGCAAGATCTGCTATTTTTAAC
1 CTGCTTCGCTG-CAGCCCAGAG-AGGCAAG-GCTGGTATCTTCAAT
* * *
15922443 CTGCTCCGCTGCAACCCA-AGGAGGCAAGGCTGGTATCTTCGAT
1 CTGCTTCGCTGCAGCCCAGA-GAGGCAAGGCTGGTATCTTCAAT
* * ** * ** * * *
15922486 CTGCTTCGCTATCGGTGCAG-GAAGGCAAGATCTACTATTTTTAAC
1 CTGCTTCGCT-GCAGCCCAGAG-AGGCAAG-GCTGGTATCTTCAAT
* *
15922531 CTGCTTCGCTACAGCCCAGAGAGGCAAGGCTGGTGTCTTCAAT
1 CTGCTTCGCTGCAGCCCAGAGAGGCAAGGCTGGTATCTTCAAT
15922574 CTGCTTCGCTG
1 CTGCTTCGCTG
15922585 TCGACGCAAG
Statistics
Matches: 129, Mismatches: 48, Indels: 20
0.65 0.24 0.10
Matches are distributed among these distances:
43 48 0.37
44 43 0.33
45 38 0.29
ACGTcount: A:0.20, C:0.27, G:0.27, T:0.26
Consensus pattern (43 bp):
CTGCTTCGCTGCAGCCCAGAGAGGCAAGGCTGGTATCTTCAAT
Found at i:15924098 original size:23 final size:23
Alignment explanation
Indices: 15924071--15924116 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
15924061 TCACCTTGGC
15924071 CTCTCCATTTTCTTTCTTCTTTT
1 CTCTCCATTTTCTTTCTTCTTTT
** * *
15924094 CTCTCTTTTTTTTTTCTTTTTTT
1 CTCTCCATTTTCTTTCTTCTTTT
15924117 ATATTTTGAA
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.02, C:0.24, G:0.00, T:0.74
Consensus pattern (23 bp):
CTCTCCATTTTCTTTCTTCTTTT
Found at i:15924223 original size:14 final size:15
Alignment explanation
Indices: 15924200--15924232 Score: 50
Period size: 14 Copynumber: 2.3 Consensus size: 15
15924190 ATCTATGCTT
15924200 TTCCAAATAAGGT-C
1 TTCCAAATAAGGTCC
*
15924214 TTCCACATAAGGTCC
1 TTCCAAATAAGGTCC
15924229 TTCC
1 TTCC
15924233 CAATTTGGGA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 12 0.71
15 5 0.29
ACGTcount: A:0.27, C:0.30, G:0.12, T:0.30
Consensus pattern (15 bp):
TTCCAAATAAGGTCC
Found at i:15925090 original size:25 final size:26
Alignment explanation
Indices: 15925039--15925099 Score: 70
Period size: 26 Copynumber: 2.3 Consensus size: 26
15925029 AAGAAAATCC
* **
15925039 AAAAGAATGAAAGAATAATTATTTCA
1 AAAAGAATGAAAAAATAATTAGCTCA
*
15925065 AAAAGAATGAAAAAAT-ATTGGCTCA
1 AAAAGAATGAAAAAATAATTAGCTCA
15925090 AAAATGAATG
1 AAAA-GAATG
15925100 CAAAGATGTA
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
25 10 0.33
26 20 0.67
ACGTcount: A:0.57, C:0.05, G:0.15, T:0.23
Consensus pattern (26 bp):
AAAAGAATGAAAAAATAATTAGCTCA
Found at i:15929395 original size:3 final size:3
Alignment explanation
Indices: 15929365--15929418 Score: 54
Period size: 3 Copynumber: 17.0 Consensus size: 3
15929355 GCGCAAGAAT
* * *
15929365 ATA AAA ATA AAA ATA AAA ATA ATAA ATA ATAA ATA ATAA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA AT-A ATA AT-A ATA AT-A ATA ATA ATA
15929413 ATA ATA
1 ATA ATA
15929419 CAAGATTAAT
Statistics
Matches: 42, Mismatches: 6, Indels: 6
0.78 0.11 0.11
Matches are distributed among these distances:
3 33 0.79
4 9 0.21
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (3 bp):
ATA
Found at i:15929408 original size:7 final size:7
Alignment explanation
Indices: 15929365--15929416 Score: 76
Period size: 6 Copynumber: 8.0 Consensus size: 7
15929355 GCGCAAGAAT
15929365 ATAA-AA
1 ATAATAA
15929371 ATAA-AA
1 ATAATAA
15929377 ATAA-AA
1 ATAATAA
15929383 ATAATAA
1 ATAATAA
15929390 ATAATAA
1 ATAATAA
15929397 ATAATAA
1 ATAATAA
15929404 ATAAT-A
1 ATAATAA
15929410 ATAATAA
1 ATAATAA
15929417 TACAAGATTA
Statistics
Matches: 44, Mismatches: 0, Indels: 3
0.94 0.00 0.06
Matches are distributed among these distances:
6 22 0.50
7 22 0.50
ACGTcount: A:0.75, C:0.00, G:0.00, T:0.25
Consensus pattern (7 bp):
ATAATAA
Found at i:15929916 original size:19 final size:19
Alignment explanation
Indices: 15929892--15929983 Score: 166
Period size: 19 Copynumber: 4.8 Consensus size: 19
15929882 AATCATATCT
15929892 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
*
15929911 TCTAAGATTACATATCATA
1 TCTAAGATTGCATATCATA
15929930 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
*
15929949 TCTAAGATTACATATCATA
1 TCTAAGATTGCATATCATA
15929968 TCTAAGATTGCATATC
1 TCTAAGATTGCATATC
15929984 CTTGAAGATT
Statistics
Matches: 69, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 69 1.00
ACGTcount: A:0.38, C:0.16, G:0.09, T:0.37
Consensus pattern (19 bp):
TCTAAGATTGCATATCATA
Found at i:15929941 original size:38 final size:38
Alignment explanation
Indices: 15929869--15929983 Score: 185
Period size: 38 Copynumber: 2.9 Consensus size: 38
15929859 AAATTAAATC
*
15929869 TCTAAGATTACAAAATCATATCTTCTAAGATTGCATATCATA
1 TCTAAGATTAC-ATATCATA---TCTAAGATTGCATATCATA
15929911 TCTAAGATTACATATCATATCTAAGATTGCATATCATA
1 TCTAAGATTACATATCATATCTAAGATTGCATATCATA
15929949 TCTAAGATTACATATCATATCTAAGATTGCATATC
1 TCTAAGATTACATATCATATCTAAGATTGCATATC
15929984 CTTGAAGATT
Statistics
Matches: 72, Mismatches: 1, Indels: 4
0.94 0.01 0.05
Matches are distributed among these distances:
38 54 0.75
41 7 0.10
42 11 0.15
ACGTcount: A:0.39, C:0.17, G:0.08, T:0.37
Consensus pattern (38 bp):
TCTAAGATTACATATCATATCTAAGATTGCATATCATA
Found at i:15931871 original size:23 final size:23
Alignment explanation
Indices: 15931839--15931882 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
15931829 CCTTTATTTT
* *
15931839 TTTAATATTTATATTGTTTTTAA
1 TTTAAAATTTAAATTGTTTTTAA
*
15931862 TTTAAAATTTAAATTTTTTTT
1 TTTAAAATTTAAATTGTTTTT
15931883 TCATATATTA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.32, C:0.00, G:0.02, T:0.66
Consensus pattern (23 bp):
TTTAAAATTTAAATTGTTTTTAA
Found at i:15935754 original size:12 final size:12
Alignment explanation
Indices: 15935739--15935769 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
15935729 GGGATTTTAT
*
15935739 TTTTTCTTTTCG
1 TTTTTCTTTTCA
15935751 TTTTTCTTTTCA
1 TTTTTCTTTTCA
15935763 TTTTTCT
1 TTTTTCT
15935770 GTAAAGGGCA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.03, C:0.16, G:0.03, T:0.77
Consensus pattern (12 bp):
TTTTTCTTTTCA
Found at i:15949363 original size:87 final size:87
Alignment explanation
Indices: 15949216--15949540 Score: 454
Period size: 87 Copynumber: 3.7 Consensus size: 87
15949206 CTGCGTTAAC
* * * * *
15949216 AGTGGAGCAGATCGAAGACAGCAAATCTTATCTTCCCTAGGAGTAGGGAAACATATTTAAGCCAT
1 AGTGGAGCAGATCGAAGACGGCAAATCTCATCTTCCCCAAGAGTAGGGAAACAGATTTAAGCCAT
15949281 TAATCCTATCTCCCTAAGCAAT
66 TAATCCTATCTCCCTAAGCAAT
* * * *
15949303 TGTGGAGCGGATCGAAGACGGCGAATCTCATCTTCCCCAGGAGTAGGGAAACAGATTTAAGCCAT
1 AGTGGAGCAGATCGAAGACGGCAAATCTCATCTTCCCCAAGAGTAGGGAAACAGATTTAAGCCAT
15949368 TAATCCTATCTCCCTAAGCAAT
66 TAATCCTATCTCCCTAAGCAAT
* * *
15949390 AGTGGAGCGGATCGAAGACGGCGAATCTCATCTTCCCCAAGAGTAGGGAAACAGATTTAAGCCAC
1 AGTGGAGCAGATCGAAGACGGCAAATCTCATCTTCCCCAAGAGTAGGGAAACAGATTTAAGCCAT
** *
15949455 TGGTTCTATCTCCCTAAGCAAT
66 TAATCCTATCTCCCTAAGCAAT
* * * * *
15949477 AGTGAAGCAGATCCAAGACGGCAAACCAT-ATCTTCCCCAATAATAGGGAAACAGATTTAAGCCA
1 AGTGGAGCAGATCGAAGACGGCAAATC-TCATCTTCCCCAAGAGTAGGGAAACAGATTTAAGCCA
15949541 CAAATACTAC
Statistics
Matches: 217, Mismatches: 20, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
87 216 1.00
88 1 0.00
ACGTcount: A:0.33, C:0.23, G:0.21, T:0.22
Consensus pattern (87 bp):
AGTGGAGCAGATCGAAGACGGCAAATCTCATCTTCCCCAAGAGTAGGGAAACAGATTTAAGCCAT
TAATCCTATCTCCCTAAGCAAT
Found at i:15950139 original size:12 final size:12
Alignment explanation
Indices: 15950117--15950152 Score: 56
Period size: 12 Copynumber: 3.1 Consensus size: 12
15950107 GGGGGAGGGA
15950117 TTTT-ATTTTTC
1 TTTTCATTTTTC
*
15950128 TTTTCGTTTTTC
1 TTTTCATTTTTC
15950140 TTTTCATTTTTC
1 TTTTCATTTTTC
15950152 T
1 T
15950153 GTAAAAGGGC
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
11 4 0.18
12 18 0.82
ACGTcount: A:0.06, C:0.14, G:0.03, T:0.78
Consensus pattern (12 bp):
TTTTCATTTTTC
Found at i:15954090 original size:25 final size:25
Alignment explanation
Indices: 15954034--15954094 Score: 68
Period size: 25 Copynumber: 2.4 Consensus size: 25
15954024 AGCTCTTATG
* * * *
15954034 AGCTTACCGATACTCAGCTTGTACA
1 AGCTTACCGTTACTCAGCTCGAAAA
* *
15954059 AGGTTACCGTTATTCAGCTCGAAAA
1 AGCTTACCGTTACTCAGCTCGAAAA
15954084 AGCTTACCGTT
1 AGCTTACCGTT
15954095 TATAACTCGT
Statistics
Matches: 29, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
25 29 1.00
ACGTcount: A:0.28, C:0.25, G:0.18, T:0.30
Consensus pattern (25 bp):
AGCTTACCGTTACTCAGCTCGAAAA
Found at i:15962883 original size:22 final size:24
Alignment explanation
Indices: 15962829--15962883 Score: 64
Period size: 22 Copynumber: 2.5 Consensus size: 24
15962819 TATATAACTG
15962829 ATAATAT-TA-AAATATATACATA
1 ATAATATATATAAATATATACATA
* *
15962851 ATATTATATATAAAT-TATTCAT-
1 ATAATATATATAAATATATACATA
15962873 ATAATATATAT
1 ATAATATATAT
15962884 TAAAAAAATT
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
22 16 0.57
23 8 0.29
24 4 0.14
ACGTcount: A:0.53, C:0.04, G:0.00, T:0.44
Consensus pattern (24 bp):
ATAATATATATAAATATATACATA
Found at i:15963184 original size:3 final size:3
Alignment explanation
Indices: 15963176--15963219 Score: 70
Period size: 3 Copynumber: 14.3 Consensus size: 3
15963166 ACTAATGTAC
*
15963176 AAT AAT AAT AAT AAT AAT AAT AAT AAAT AAT AAT ATT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT -AAT AAT AAT AAT AAT AAT A
15963220 TGAAAATAAC
Statistics
Matches: 38, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
3 35 0.92
4 3 0.08
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
AAT
Found at i:15964114 original size:35 final size:35
Alignment explanation
Indices: 15964068--15964136 Score: 129
Period size: 35 Copynumber: 2.0 Consensus size: 35
15964058 GGGTGTGTGA
15964068 TGGTGCTGGTGGCAGACAGCATGGGAGAGTGGGAG
1 TGGTGCTGGTGGCAGACAGCATGGGAGAGTGGGAG
*
15964103 TGGTGCTGGTGGCAGACTGCATGGGAGAGTGGGA
1 TGGTGCTGGTGGCAGACAGCATGGGAGAGTGGGA
15964137 AGAGGCAAGT
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
35 33 1.00
ACGTcount: A:0.19, C:0.12, G:0.51, T:0.19
Consensus pattern (35 bp):
TGGTGCTGGTGGCAGACAGCATGGGAGAGTGGGAG
Found at i:15965203 original size:12 final size:12
Alignment explanation
Indices: 15965186--15965218 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
15965176 ATTTTTTATT
15965186 TATAAATATTAA
1 TATAAATATTAA
*
15965198 TATAAATATAAA
1 TATAAATATTAA
15965210 T-TAAATATT
1 TATAAATATT
15965219 TTATTATCAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
11 7 0.37
12 12 0.63
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (12 bp):
TATAAATATTAA
Found at i:15969076 original size:14 final size:15
Alignment explanation
Indices: 15969040--15969076 Score: 51
Period size: 14 Copynumber: 2.5 Consensus size: 15
15969030 TGGCACATAG
15969040 AATTA-ATTTTATTT
1 AATTATATTTTATTT
15969054 AAGTTATATTTT-TTT
1 AA-TTATATTTTATTT
15969069 AATTATAT
1 AATTATAT
15969077 GATTATCGAG
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
14 8 0.38
15 8 0.38
16 5 0.24
ACGTcount: A:0.35, C:0.00, G:0.03, T:0.62
Consensus pattern (15 bp):
AATTATATTTTATTT
Found at i:15969137 original size:8 final size:8
Alignment explanation
Indices: 15969124--15969171 Score: 80
Period size: 8 Copynumber: 6.1 Consensus size: 8
15969114 TCAATACATG
15969124 AATTGAAA
1 AATTGAAA
15969132 AATTGAAA
1 AATTGAAA
15969140 AATTGAAA
1 AATTGAAA
15969148 AATTGAAA
1 AATTGAAA
*
15969156 AATTGAGA
1 AATTGAAA
15969164 AATT-AAA
1 AATTGAAA
15969171 A
1 A
15969172 TTTCTTAAAA
Statistics
Matches: 38, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
7 3 0.08
8 35 0.92
ACGTcount: A:0.62, C:0.00, G:0.12, T:0.25
Consensus pattern (8 bp):
AATTGAAA
Found at i:15971095 original size:24 final size:25
Alignment explanation
Indices: 15971067--15971116 Score: 66
Period size: 26 Copynumber: 2.0 Consensus size: 25
15971057 TTTTTATATT
*
15971067 ATATAAGA-AAAAAGATTATAGATA
1 ATATAAGATAAAAAAATTATAGATA
*
15971091 ATATAAGATTAAAAAAATTGTAGATA
1 ATATAAGA-TAAAAAAATTATAGATA
15971117 TTTTGAATTG
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
24 8 0.36
26 14 0.64
ACGTcount: A:0.60, C:0.00, G:0.12, T:0.28
Consensus pattern (25 bp):
ATATAAGATAAAAAAATTATAGATA
Found at i:15977462 original size:14 final size:14
Alignment explanation
Indices: 15977428--15977456 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
15977418 TACTTGCAAG
15977428 TTCAACTAACCAAC
1 TTCAACTAACCAAC
15977442 TTCAACTAACCAAC
1 TTCAACTAACCAAC
15977456 T
1 T
15977457 GTAACTGAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.41, C:0.34, G:0.00, T:0.24
Consensus pattern (14 bp):
TTCAACTAACCAAC
Found at i:15978293 original size:22 final size:24
Alignment explanation
Indices: 15978268--15978312 Score: 67
Period size: 22 Copynumber: 1.9 Consensus size: 24
15978258 TATGTTTAAA
15978268 TATATTTTA-ATTT-TTAATTTAT
1 TATATTTTATATTTATTAATTTAT
15978290 TATATTTTATATTTAGTTAATTT
1 TATATTTTATATTTA-TTAATTT
15978313 TAATTTTAGT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
22 9 0.45
23 4 0.20
25 7 0.35
ACGTcount: A:0.31, C:0.00, G:0.02, T:0.67
Consensus pattern (24 bp):
TATATTTTATATTTATTAATTTAT
Found at i:15978303 original size:16 final size:15
Alignment explanation
Indices: 15978274--15978323 Score: 57
Period size: 16 Copynumber: 3.1 Consensus size: 15
15978264 TAAATATATT
15978274 TTAATTTTTAATTTA-
1 TTAA-TTTTAATTTAG
15978289 TTATATTTTATATTTAG
1 TTA-ATTTTA-ATTTAG
15978306 TTAATTTTAATTTTAG
1 TTAATTTTAA-TTTAG
15978322 TT
1 TT
15978324 TATTCCACAT
Statistics
Matches: 31, Mismatches: 0, Indels: 7
0.82 0.00 0.18
Matches are distributed among these distances:
15 9 0.29
16 19 0.61
17 3 0.10
ACGTcount: A:0.30, C:0.00, G:0.04, T:0.66
Consensus pattern (15 bp):
TTAATTTTAATTTAG
Found at i:15979914 original size:87 final size:87
Alignment explanation
Indices: 15979767--15979986 Score: 253
Period size: 87 Copynumber: 2.5 Consensus size: 87
15979757 TGCATTGCGA
* * * **
15979767 TAAACCGCTGTA-CAGACATGTTGTAGTTTAAACTGCCAAATCAGATAATAACACGTAGCAAAAC
1 TAAACCGCTGTACCA-ATAAGTTGTAG-TTAAACTGCCAGATCAGATAATAACACACAGCAAAAC
* *
15979831 TGACGTATATGTAGTACAGTGTGG
64 TGACGTACATGCAGTACAGTGTGG
* * * * * *
15979855 TAAACTGCTGTACTAATAAGTTGTAGTTAAATTACCAGATCAGATAATAGCACACAGCAAAGCTG
1 TAAACCGCTGTACCAATAAGTTGTAGTTAAACTGCCAGATCAGATAATAACACACAGCAAAACTG
*
15979920 ACGTACATGCGGTACAGTGTGG
66 ACGTACATGCAGTACAGTGTGG
* * **
15979942 TAAACCGTTGTACCGATAAGTTACAGTTAAACTGCCAGATCAGAT
1 TAAACCGCTGTACCAATAAGTTGTAGTTAAACTGCCAGATCAGAT
15979987 CAAAATCAGT
Statistics
Matches: 109, Mismatches: 22, Indels: 3
0.81 0.16 0.02
Matches are distributed among these distances:
87 88 0.81
88 20 0.18
89 1 0.01
ACGTcount: A:0.36, C:0.18, G:0.20, T:0.26
Consensus pattern (87 bp):
TAAACCGCTGTACCAATAAGTTGTAGTTAAACTGCCAGATCAGATAATAACACACAGCAAAACTG
ACGTACATGCAGTACAGTGTGG
Found at i:15981208 original size:42 final size:42
Alignment explanation
Indices: 15981109--15981439 Score: 346
Period size: 42 Copynumber: 7.9 Consensus size: 42
15981099 GTTTACAAAC
* * *
15981109 AAAAACACCGTTAAAGACCATGTTCTTTAGCGGCGCTTAG-A
1 AAAAACGCCGCTAAAGAACATGTTCTTTAGCGGCGCTTAGAA
*
15981150 AAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTAGAA
1 AAAAACGCCGCTAAAGAACATGTTCTTTAGCGGCGCTTAGAA
*
15981192 AAAAACGCCGCTAAAGAACATGTTCTTTAGCGGCG-TTTGTAA
1 AAAAACGCCGCTAAAGAACATGTTCTTTAGCGGCGCTTAG-AA
* * * *
15981234 AAAAATGCCACTAAAGACCATGTTCTTTAGCGGCGCTTAGGA
1 AAAAACGCCGCTAAAGAACATGTTCTTTAGCGGCGCTTAGAA
*
15981276 AAAAACGCCGCTAAAGAACATGTTCTTTAGCGGCGCTTA-AGG
1 AAAAACGCCGCTAAAGAACATGTTCTTTAGCGGCGCTTAGA-A
* * * ****
15981318 GAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGTTTTTTTT
1 AAAAACGCCGCTAAAGAACATGTTCTTTAGCGGCG-CTTAGAA
** * * * ****
15981361 CTAATCGCCGCTAAAGAACATGTTCTTTAGTGGC-ATTTTTT
1 AAAAACGCCGCTAAAGAACATGTTCTTTAGCGGCGCTTAGAA
* * *
15981402 ACAAACGCCGCAAAAGAACATGTTCTTTAGTGGCGCTT
1 AAAAACGCCGCTAAAGAACATGTTCTTTAGCGGCGCTT
15981440 TTATACAAAA
Statistics
Matches: 251, Mismatches: 32, Indels: 13
0.85 0.11 0.04
Matches are distributed among these distances:
41 76 0.30
42 141 0.56
43 34 0.14
ACGTcount: A:0.31, C:0.21, G:0.21, T:0.27
Consensus pattern (42 bp):
AAAAACGCCGCTAAAGAACATGTTCTTTAGCGGCGCTTAGAA
Found at i:15981313 original size:126 final size:125
Alignment explanation
Indices: 15981120--15981439 Score: 417
Period size: 126 Copynumber: 2.5 Consensus size: 125
15981110 AAAACACCGT
*
15981120 TAAAGACCATGTTCTTTAGCGGCGCTTAGAAAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCG
1 TAAAGACCATGTTCTTTAGCGGCGCTTAGAAAAAACGCCGCTAAAGAACATGTTCTTTAGCGGCG
15981185 CTT-AGAAAAAAACGCCGCTAAAGAACATGTTCTTTAGCGGCGTTTGTAAAAAAATGCCAC
66 CTTAAG-AAAAAACGCCGCTAAAGAACATGTTCTTTAGCGGCGTTTGTAAAAAAATGCCAC
15981245 TAAAGACCATGTTCTTTAGCGGCGCTTAGGAAAAAACGCCGCTAAAGAACATGTTCTTTAGCGGC
1 TAAAGACCATGTTCTTTAGCGGCGCTTA-GAAAAAACGCCGCTAAAGAACATGTTCTTTAGCGGC
** * * ***** *
15981310 GCTTAAGGGAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGTTTTTTTTCTAATCGCCGC
65 GCTTAAGAAAAAACGCCGCTAAAGAACATGTTCTTTAGCGGCGTTTGTAAAAAAAT-GCCAC
* * ** *** * * *
15981372 TAAAGAACATGTTCTTTAGTGGCATTTTTTACAAACGCCGCAAAAGAACATGTTCTTTAGTGGCG
1 TAAAGACCATGTTCTTTAGCGGCGCTTAGAAAAAACGCCGCTAAAGAACATGTTCTTTAGCGGCG
15981437 CTT
66 CTT
15981440 TTATACAAAA
Statistics
Matches: 171, Mismatches: 21, Indels: 5
0.87 0.11 0.03
Matches are distributed among these distances:
125 28 0.16
126 114 0.67
127 29 0.17
ACGTcount: A:0.30, C:0.21, G:0.21, T:0.28
Consensus pattern (125 bp):
TAAAGACCATGTTCTTTAGCGGCGCTTAGAAAAAACGCCGCTAAAGAACATGTTCTTTAGCGGCG
CTTAAGAAAAAACGCCGCTAAAGAACATGTTCTTTAGCGGCGTTTGTAAAAAAATGCCAC
Found at i:15987331 original size:11 final size:9
Alignment explanation
Indices: 15987283--15987712 Score: 95
Period size: 7 Copynumber: 50.0 Consensus size: 9
15987273 AATTGCAATG
15987283 GTAAGTTAT
1 GTAAGTTAT
15987292 GTAAGTTAT
1 GTAAGTTAT
15987301 GTAAGTTAAAT
1 GTAAGTT--AT
15987312 GT-A-TTAT
1 GTAAGTTAT
15987319 GTAAGTTAAAT
1 GTAAGTT--AT
15987330 GTAAG-T-T
1 GTAAGTTAT
15987337 GTAAGTTAT
1 GTAAGTTAT
*
15987346 -TATGTATTAT
1 GTAAG--TTAT
15987356 GTAAG-T-T
1 GTAAGTTAT
15987363 GTAAGTTAAAT
1 GTAAGTT--AT
*
15987374 GT-A-TTGT
1 GTAAGTTAT
15987381 GTAAG-T-T
1 GTAAGTTAT
15987388 GTAAGTTAAAT
1 GTAAGTT--AT
15987399 GT-A-TTAT
1 GTAAGTTAT
15987406 GTAAG-T-T
1 GTAAGTTAT
15987413 GTAAGTTAT
1 GTAAGTTAT
*
15987422 -TATGTATTAT
1 GTAAG--TTAT
15987432 GTAAG-T-T
1 GTAAGTTAT
15987439 GTAAGTTAT
1 GTAAGTTAT
* *
15987448 -TATGTATTGT
1 GTAAG--TTAT
15987458 GTAAG-T-T
1 GTAAGTTAT
15987465 GTAAGTTAAAT
1 GTAAGTT--AT
15987476 GT-A-TTAT
1 GTAAGTTAT
15987483 GTAAGTTAAAT
1 GTAAGTT--AT
15987494 GT-A-TTAT
1 GTAAGTTAT
15987501 GTAAG-T-T
1 GTAAGTTAT
15987508 GTAAGTTAAAT
1 GTAAGTT--AT
15987519 GT-A-TTAT
1 GTAAGTTAT
15987526 GTAAG-T-T
1 GTAAGTTAT
15987533 GTAAGTTAAAT
1 GTAAGTT--AT
15987544 GT-A-TTAT
1 GTAAGTTAT
15987551 GTAAG-T-T
1 GTAAGTTAT
15987558 GTAAGTTAT
1 GTAAGTTAT
*
15987567 -TATGTATTAT
1 GTAAG--TTAT
15987577 GTAAG-T-T
1 GTAAGTTAT
15987584 GTAAGTTAT
1 GTAAGTTAT
* *
15987593 -TATGTATTGT
1 GTAAG--TTAT
15987603 GTAAG-T-T
1 GTAAGTTAT
15987610 GTAAGTTAAAT
1 GTAAGTT--AT
15987621 GT-A-TTAT
1 GTAAGTTAT
15987628 GTAAGTTAAAT
1 GTAAGTT--AT
15987639 GT-A-TTAT
1 GTAAGTTAT
15987646 GTAAG-T-T
1 GTAAGTTAT
15987653 GTAAGTTAAAT
1 GTAAGTT--AT
15987664 GT-A-TTAT
1 GTAAGTTAT
15987671 GTAAG-T-T
1 GTAAGTTAT
15987678 GTAAGTTAT
1 GTAAGTTAT
*
15987687 -TATGTATTAT
1 GTAAG--TTAT
15987697 GTAAG-T-T
1 GTAAGTTAT
15987704 GTAAGTTAT
1 GTAAGTTAT
15987713 TATGTATTGT
Statistics
Matches: 318, Mismatches: 15, Indels: 176
0.62 0.03 0.35
Matches are distributed among these distances:
7 123 0.39
8 55 0.17
9 49 0.15
10 33 0.10
11 58 0.18
ACGTcount: A:0.34, C:0.00, G:0.20, T:0.46
Consensus pattern (9 bp):
GTAAGTTAT
Found at i:15987362 original size:26 final size:25
Alignment explanation
Indices: 15987328--15987868 Score: 701
Period size: 26 Copynumber: 22.1 Consensus size: 25
15987318 TGTAAGTTAA
15987328 ATGTAAGTTGTAAGTTATTATGTATT
1 ATGTAAGTTGTAAGTTA-TATGTATT
*
15987354 ATGTAAGTTGTAAGTTAAATGTATT
1 ATGTAAGTTGTAAGTTATATGTATT
* *
15987379 GTGTAAGTTGTAAGTTAAATGTATT
1 ATGTAAGTTGTAAGTTATATGTATT
15987404 ATGTAAGTTGTAAGTTATTATGTATT
1 ATGTAAGTTGTAAGTTA-TATGTATT
15987430 ATGTAAGTTGTAAGTTATTATGTATT
1 ATGTAAGTTGTAAGTTA-TATGTATT
* *
15987456 GTGTAAGTTGTAAGTTAAATGTATT
1 ATGTAAGTTGTAAGTTATATGTATT
15987481 ATGTAAG-T-T-A---A-ATGTATT
1 ATGTAAGTTGTAAGTTATATGTATT
*
15987499 ATGTAAGTTGTAAGTTAAATGTATT
1 ATGTAAGTTGTAAGTTATATGTATT
*
15987524 ATGTAAGTTGTAAGTTAAATGTATT
1 ATGTAAGTTGTAAGTTATATGTATT
15987549 ATGTAAGTTGTAAGTTATTATGTATT
1 ATGTAAGTTGTAAGTTA-TATGTATT
15987575 ATGTAAGTTGTAAGTTATTATGTATT
1 ATGTAAGTTGTAAGTTA-TATGTATT
* *
15987601 GTGTAAGTTGTAAGTTAAATGTATT
1 ATGTAAGTTGTAAGTTATATGTATT
15987626 ATGTAAG-T-T-A---A-ATGTATT
1 ATGTAAGTTGTAAGTTATATGTATT
*
15987644 ATGTAAGTTGTAAGTTAAATGTATT
1 ATGTAAGTTGTAAGTTATATGTATT
15987669 ATGTAAGTTGTAAGTTATTATGTATT
1 ATGTAAGTTGTAAGTTA-TATGTATT
15987695 ATGTAAGTTGTAAGTTATTATGTATT
1 ATGTAAGTTGTAAGTTA-TATGTATT
*
15987721 GTGTAAGTTGTAAGTTATTATGTATT
1 ATGTAAGTTGTAAGTTA-TATGTATT
15987747 ATGTAAGTTGTAAGTTATTATGTATT
1 ATGTAAGTTGTAAGTTA-TATGTATT
* *
15987773 GTGTAAGTTGTAAGTTAAATGTATT
1 ATGTAAGTTGTAAGTTATATGTATT
* *
15987798 ATGTCA---GTCA---A-ATGTATT
1 ATGTAAGTTGTAAGTTATATGTATT
*
15987816 ATGTAAGTTGTAAGTTAAATGTATT
1 ATGTAAGTTGTAAGTTATATGTATT
15987841 ATGTAAGTTGTAAGTTATTATGTATT
1 ATGTAAGTTGTAAGTTA-TATGTATT
15987867 AT
1 AT
15987869 TTAATAAAAT
Statistics
Matches: 468, Mismatches: 22, Indels: 50
0.87 0.04 0.09
Matches are distributed among these distances:
18 40 0.09
19 5 0.01
20 2 0.00
21 5 0.01
22 5 0.01
23 2 0.00
24 5 0.01
25 181 0.39
26 223 0.48
ACGTcount: A:0.33, C:0.00, G:0.20, T:0.47
Consensus pattern (25 bp):
ATGTAAGTTGTAAGTTATATGTATT
Found at i:15987849 original size:18 final size:18
Alignment explanation
Indices: 15987781--15987824 Score: 70
Period size: 18 Copynumber: 2.4 Consensus size: 18
15987771 TTGTGTAAGT
15987781 TGTAAGTTAAATGTATTA
1 TGTAAGTTAAATGTATTA
* *
15987799 TGTCAGTCAAATGTATTA
1 TGTAAGTTAAATGTATTA
15987817 TGTAAGTT
1 TGTAAGTT
15987825 GTAAGTTAAA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.34, C:0.05, G:0.18, T:0.43
Consensus pattern (18 bp):
TGTAAGTTAAATGTATTA
Found at i:15987850 original size:120 final size:122
Alignment explanation
Indices: 15987328--15987868 Score: 661
Period size: 120 Copynumber: 4.4 Consensus size: 122
15987318 TGTAAGTTAA
*
15987328 ATGTAAGTTGTAAGTTATTATGTATTATGTAAGTTGTAAGTTAAATGTATTGTGTAAGTTGTAAG
1 ATGTAAGTTGTAAGTTATTATGTATTATGTAAGTTGTAAGTTAAATGTATTATGTAAGTTGTAAG
*
15987393 TTAAATGTATTATGTAAGTTGTAAGTTATTATGTATTATGTAAGTTGTAAGTTATTATGTATT
66 TTAAATGTATTATGTAAGTTGTAAGTTA-AATGTATTATGTAA--TGTAA--TA-TATGTATT
* *
15987456 GTGTAAGTTGTAAGTTA-AATG---TAT-T-A--TGTAAGTTAAATGTATTATGTAAGTTGTAAG
1 ATGTAAGTTGTAAGTTATTATGTATTATGTAAGTTGTAAGTTAAATGTATTATGTAAGTTGTAAG
15987513 TTAAATGTATTATGTAAGTTGTAAGTTAAATGTATTATGTAAGTTGTAAGTTATTATGTATT
66 TTAAATGTATTATGTAAGTTGTAAGTTAAATGTATTATGTAA--TGTAA--TA-TATGTATT
*
15987575 ATGTAAGTTGTAAGTTATTATGTATTGTGTAAGTTGTAAGTTAAATG---TAT-T-A--TGTAAG
1 ATGTAAGTTGTAAGTTATTATGTATTATGTAAGTTGTAAGTTAAATGTATTATGTAAGTTGTAAG
15987633 TTAAATGTATTATGTAAGTTGTAAGTTAAATGTATTATGTAAGTTGTAAGTTATTATGTATT
66 TTAAATGTATTATGTAAGTTGTAAGTTAAATGTATTATGTAA--TGTAA--TA-TATGTATT
* *
15987695 ATGTAAGTTGTAAGTTATTATGTATTGTGTAAGTTGTAAGTTATTATGTATTATGTAAGTTGTAA
1 ATGTAAGTTGTAAGTTATTATGTATTATGTAAGTTGTAAGTTA-AATGTATTATGTAAGTTGTAA
* * * *
15987760 GTTATTATGTATTGTGTAAGTTGTAAGTTAAATGTATTATGTCA-GTCA-A-ATGTATT
65 GTTA-AATGTATTATGTAAGTTGTAAGTTAAATGTATTATGTAATGTAATATATGTATT
* *
15987816 ATGTAAGTTGTAAGTTA-AATGTATTATGTAAGTTGTAAGTTATTATGTATTAT
1 ATGTAAGTTGTAAGTTATTATGTATTATGTAAGTTGTAAGTTA-AATGTATTAT
15987869 TTAATAAAAT
Statistics
Matches: 382, Mismatches: 14, Indels: 42
0.87 0.03 0.10
Matches are distributed among these distances:
119 49 0.13
120 206 0.54
121 27 0.07
122 2 0.01
123 5 0.01
124 10 0.03
125 2 0.01
126 4 0.01
127 16 0.04
128 25 0.07
129 36 0.09
ACGTcount: A:0.33, C:0.00, G:0.20, T:0.47
Consensus pattern (122 bp):
ATGTAAGTTGTAAGTTATTATGTATTATGTAAGTTGTAAGTTAAATGTATTATGTAAGTTGTAAG
TTAAATGTATTATGTAAGTTGTAAGTTAAATGTATTATGTAATGTAATATATGTATT
Found at i:15988062 original size:74 final size:74
Alignment explanation
Indices: 15987905--15988052 Score: 296
Period size: 74 Copynumber: 2.0 Consensus size: 74
15987895 ACATTACTAA
15987905 TATAATTATTAATAATATTTAATAAAATAACATTTTATTTTAATAGTCAATTTTAATATTCCACA
1 TATAATTATTAATAATATTTAATAAAATAACATTTTATTTTAATAGTCAATTTTAATATTCCACA
15987970 TATTTTTTT
66 TATTTTTTT
15987979 TATAATTATTAATAATATTTAATAAAATAACATTTTATTTTAATAGTCAATTTTAATATTCCACA
1 TATAATTATTAATAATATTTAATAAAATAACATTTTATTTTAATAGTCAATTTTAATATTCCACA
15988044 TATTTTTTT
66 TATTTTTTT
15988053 ATATTTTATT
Statistics
Matches: 74, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
74 74 1.00
ACGTcount: A:0.41, C:0.07, G:0.01, T:0.51
Consensus pattern (74 bp):
TATAATTATTAATAATATTTAATAAAATAACATTTTATTTTAATAGTCAATTTTAATATTCCACA
TATTTTTTT
Done.