Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr10
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: 95480121
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.31
Warning! 2980117 characters in sequence are not A, C, G, or T
File 34 of 284
Found at i:11997365 original size:82 final size:81
Alignment explanation
Indices: 11997225--11997380 Score: 190
Period size: 82 Copynumber: 1.9 Consensus size: 81
11997215 AAATTGTACA
* * * *
11997225 GCACTAAGTGTGCGATTCTACTTTGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAAGTGT
1 GCACTAAGTGTGCGATTCTACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAAATGT
11997290 GCGAATTGACCATGCG
66 GCGAATTGACCATGCG
* ** *
11997306 GCACTAAGTGTGCGGGTT-TGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TGGCACTAAA
1 GCACTAAGTGTGC-GATTCT-ACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACTAAA
*
11997369 TGTGCGAGTTGA
63 TGTGCGAATTGA
11997381 TTATATAGCA
Statistics
Matches: 63, Mismatches: 9, Indels: 5
0.82 0.12 0.06
Matches are distributed among these distances:
81 15 0.24
82 48 0.76
ACGTcount: A:0.26, C:0.16, G:0.28, T:0.30
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTCTACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAAATGT
GCGAATTGACCATGCG
Found at i:12005392 original size:55 final size:54
Alignment explanation
Indices: 12005297--12005446 Score: 149
Period size: 55 Copynumber: 2.8 Consensus size: 54
12005287 CTACTTTGTT
* ** * *
12005297 GCACTAAGTGTGCGAAATGAATATGAT-GCACTAAGTGTGCGAATTGACCATGCG
1 GCACTAAATGTGCGAGTTGACTAT-ATAGCACTAAGTGTGCGAATTGACCACGCG
* * * * ** *
12005351 GCACTAAGTGTGCGGGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTG
1 GCACTAAATGTGCGAG-TTGACTATATAGCACTAAGTGTGCGAATTGACCACGCG
* *
12005406 GCACTAAATGTGCGAGTTGATTATATAGCACTGAGTGTGCG
1 GCACTAAATGTGCGAGTTGACTATATAGCACTAAGTGTGCG
12005447 GGCTCAATAT
Statistics
Matches: 79, Mismatches: 15, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
54 37 0.47
55 42 0.53
ACGTcount: A:0.27, C:0.15, G:0.29, T:0.29
Consensus pattern (54 bp):
GCACTAAATGTGCGAGTTGACTATATAGCACTAAGTGTGCGAATTGACCACGCG
Found at i:12005409 original size:27 final size:27
Alignment explanation
Indices: 12005269--12005446 Score: 146
Period size: 27 Copynumber: 6.6 Consensus size: 27
12005259 TAAATTGTAC
12005269 AGCACTAAGTGTGCGATTCT-ACTT-TGT
1 AGCACTAAGTGTGCGATT-TGA-TTATGT
* ** *
12005296 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGATTATGT
* ** *
12005322 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGATTATGT
* * *
12005350 GGCACTAAGTGTGCGGGTTTGACTATGT
1 AGCACTAAGTGTGC-GATTTGATTATGT
*
12005378 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGATTATGT
* * * *
12005405 GGCACTAAATGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGATTATGT
*
12005432 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
12005447 GGCTCAATAT
Statistics
Matches: 121, Mismatches: 25, Indels: 10
0.78 0.16 0.06
Matches are distributed among these distances:
26 2 0.02
27 97 0.80
28 22 0.18
ACGTcount: A:0.26, C:0.16, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGATTATGT
Found at i:12005410 original size:82 final size:81
Alignment explanation
Indices: 12005270--12005425 Score: 190
Period size: 82 Copynumber: 1.9 Consensus size: 81
12005260 AAATTGTACA
* * * *
12005270 GCACTAAGTGTGCGATTCTACTTTGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAAGTGT
1 GCACTAAGTGTGCGATTCTACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAAATGT
12005335 GCGAATTGACCATGCG
66 GCGAATTGACCATGCG
* ** *
12005351 GCACTAAGTGTGCGGGTT-TGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TGGCACTAAA
1 GCACTAAGTGTGC-GATTCT-ACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACTAAA
*
12005414 TGTGCGAGTTGA
63 TGTGCGAATTGA
12005426 TTATATAGCA
Statistics
Matches: 63, Mismatches: 9, Indels: 5
0.82 0.12 0.06
Matches are distributed among these distances:
81 15 0.24
82 48 0.76
ACGTcount: A:0.26, C:0.16, G:0.28, T:0.30
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTCTACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAAATGT
GCGAATTGACCATGCG
Found at i:12013500 original size:55 final size:54
Alignment explanation
Indices: 12013405--12013554 Score: 149
Period size: 55 Copynumber: 2.8 Consensus size: 54
12013395 CTACTTTGTT
* ** * *
12013405 GCACTAAGTGTGCGAAATGAATATGAT-GCACTAAGTGTGCGAATTGACCATGCG
1 GCACTAAATGTGCGAGTTGACTAT-ATAGCACTAAGTGTGCGAATTGACCACGCG
* * * * ** *
12013459 GCACTAAGTGTGCGGGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTG
1 GCACTAAATGTGCGAG-TTGACTATATAGCACTAAGTGTGCGAATTGACCACGCG
* *
12013514 GCACTAAATGTGCGAGTTGATTATATAGCACTGAGTGTGCG
1 GCACTAAATGTGCGAGTTGACTATATAGCACTAAGTGTGCG
12013555 GGCTCAATAT
Statistics
Matches: 79, Mismatches: 15, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
54 37 0.47
55 42 0.53
ACGTcount: A:0.27, C:0.15, G:0.29, T:0.29
Consensus pattern (54 bp):
GCACTAAATGTGCGAGTTGACTATATAGCACTAAGTGTGCGAATTGACCACGCG
Found at i:12013517 original size:27 final size:27
Alignment explanation
Indices: 12013377--12013554 Score: 146
Period size: 27 Copynumber: 6.6 Consensus size: 27
12013367 TAAATTGTAC
12013377 AGCACTAAGTGTGCGATTCT-ACTT-TGT
1 AGCACTAAGTGTGCGATT-TGA-TTATGT
* ** *
12013404 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGATTATGT
* ** *
12013430 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGATTATGT
* * *
12013458 GGCACTAAGTGTGCGGGTTTGACTATGT
1 AGCACTAAGTGTGC-GATTTGATTATGT
*
12013486 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGATTATGT
* * * *
12013513 GGCACTAAATGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGATTATGT
*
12013540 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
12013555 GGCTCAATAT
Statistics
Matches: 121, Mismatches: 25, Indels: 10
0.78 0.16 0.06
Matches are distributed among these distances:
26 2 0.02
27 97 0.80
28 22 0.18
ACGTcount: A:0.26, C:0.16, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGATTATGT
Found at i:12013518 original size:82 final size:81
Alignment explanation
Indices: 12013378--12013533 Score: 190
Period size: 82 Copynumber: 1.9 Consensus size: 81
12013368 AAATTGTACA
* * * *
12013378 GCACTAAGTGTGCGATTCTACTTTGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAAGTGT
1 GCACTAAGTGTGCGATTCTACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAAATGT
12013443 GCGAATTGACCATGCG
66 GCGAATTGACCATGCG
* ** *
12013459 GCACTAAGTGTGCGGGTT-TGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TGGCACTAAA
1 GCACTAAGTGTGC-GATTCT-ACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACTAAA
*
12013522 TGTGCGAGTTGA
63 TGTGCGAATTGA
12013534 TTATATAGCA
Statistics
Matches: 63, Mismatches: 9, Indels: 5
0.82 0.12 0.06
Matches are distributed among these distances:
81 15 0.24
82 48 0.76
ACGTcount: A:0.26, C:0.16, G:0.28, T:0.30
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTCTACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAAATGT
GCGAATTGACCATGCG
Found at i:12019337 original size:27 final size:28
Alignment explanation
Indices: 12019298--12019355 Score: 109
Period size: 27 Copynumber: 2.1 Consensus size: 28
12019288 GCAAAGTATG
12019298 AAATCTTTTGGTATTGATTTGGTTATAT
1 AAATCTTTTGGTATTGATTTGGTTATAT
12019326 AAAT-TTTTGGTATTGATTTGGTTATAT
1 AAATCTTTTGGTATTGATTTGGTTATAT
12019353 AAA
1 AAA
12019356 ACAATTGTAT
Statistics
Matches: 30, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
27 26 0.87
28 4 0.13
ACGTcount: A:0.29, C:0.02, G:0.17, T:0.52
Consensus pattern (28 bp):
AAATCTTTTGGTATTGATTTGGTTATAT
Found at i:12019365 original size:27 final size:27
Alignment explanation
Indices: 12019305--12019362 Score: 80
Period size: 27 Copynumber: 2.1 Consensus size: 27
12019295 ATGAAATCTT
***
12019305 TTGGTATTGATTTGGTTATATAAATTT
1 TTGGTATTGATTTGGTTATATAAACAA
12019332 TTGGTATTGATTTGGTTATATAAAACAA
1 TTGGTATTGATTTGGTTATAT-AAACAA
12019360 TTG
1 TTG
12019363 TATAGATCAG
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
27 21 0.78
28 6 0.22
ACGTcount: A:0.29, C:0.02, G:0.19, T:0.50
Consensus pattern (27 bp):
TTGGTATTGATTTGGTTATATAAACAA
Found at i:12020252 original size:19 final size:21
Alignment explanation
Indices: 12020228--12020268 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
12020218 TTATATATTA
12020228 AAAATGAA-T-TGTGAAATTG
1 AAAATGAATTATGTGAAATTG
12020247 AAAATGAATTATGTGAAATTG
1 AAAATGAATTATGTGAAATTG
12020268 A
1 A
12020269 TATGTTCTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
19 8 0.40
20 1 0.05
21 11 0.55
ACGTcount: A:0.49, C:0.00, G:0.20, T:0.32
Consensus pattern (21 bp):
AAAATGAATTATGTGAAATTG
Found at i:12031968 original size:21 final size:21
Alignment explanation
Indices: 12031922--12031968 Score: 51
Period size: 21 Copynumber: 2.2 Consensus size: 21
12031912 CAACTCCACT
*
12031922 TCAATCCTATTATTGATCTAA
1 TCAATCCTATTATTCATCTAA
* *
12031943 ACAATCCTTTTATATCATC-AA
1 TCAATCCTATTAT-TCATCTAA
12031964 TCAAT
1 TCAAT
12031969 ACCAAATACT
Statistics
Matches: 21, Mismatches: 4, Indels: 2
0.78 0.15 0.07
Matches are distributed among these distances:
21 17 0.81
22 4 0.19
ACGTcount: A:0.36, C:0.21, G:0.02, T:0.40
Consensus pattern (21 bp):
TCAATCCTATTATTCATCTAA
Found at i:12034191 original size:16 final size:17
Alignment explanation
Indices: 12034170--12034201 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
12034160 AAATATGCAA
12034170 TCACATAA-TTCATATT
1 TCACATAACTTCATATT
12034186 TCACATAACTTCATAT
1 TCACATAACTTCATAT
12034202 CATCAATTCA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 8 0.53
17 7 0.47
ACGTcount: A:0.38, C:0.22, G:0.00, T:0.41
Consensus pattern (17 bp):
TCACATAACTTCATATT
Found at i:12034460 original size:41 final size:41
Alignment explanation
Indices: 12034362--12034516 Score: 152
Period size: 43 Copynumber: 3.7 Consensus size: 41
12034352 GGCTCGTACA
* ** *
12034362 ATGCCAACGTCCCAGACGTGGTCTTACATGTAATCACATATCG
1 ATGCCAATGTCCCAGACGTGGTCTTACA-CAAATCAAATA-CG
* *
12034405 ATGCCACTATCCCAGACAG-GGTCTTACACAAATCAAATACG
1 ATGCCAATGTCCCAGAC-GTGGTCTTACACAAATCAAATACG
* * *
12034446 ATGTCAATGTCCCAGACATGGTCTTACACATATACACAAGT-CG
1 ATGCCAATGTCCCAGACGTGGTCTTACACAAAT-CA-AA-TACG
*
12034489 ATGCCAACGTCCCAGACGTGGTCTTACA
1 ATGCCAATGTCCCAGACGTGGTCTTACA
12034517 TGAAAATACA
Statistics
Matches: 93, Mismatches: 14, Indels: 10
0.79 0.12 0.09
Matches are distributed among these distances:
41 29 0.31
42 10 0.11
43 52 0.56
44 2 0.02
ACGTcount: A:0.31, C:0.28, G:0.17, T:0.23
Consensus pattern (41 bp):
ATGCCAATGTCCCAGACGTGGTCTTACACAAATCAAATACG
Found at i:12036868 original size:23 final size:25
Alignment explanation
Indices: 12036832--12036879 Score: 66
Period size: 23 Copynumber: 2.0 Consensus size: 25
12036822 ATTGGTTATA
12036832 CTCTAATTGTTTT-CTCTTCTCATCT
1 CTCTAATTGTTTTCCT-TTCTCATCT
12036857 CTCT-ATTG-TTTCCTTTCTCATCT
1 CTCTAATTGTTTTCCTTTCTCATCT
12036880 ACCTTTCCTT
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
23 12 0.55
24 6 0.27
25 4 0.18
ACGTcount: A:0.10, C:0.29, G:0.04, T:0.56
Consensus pattern (25 bp):
CTCTAATTGTTTTCCTTTCTCATCT
Found at i:12043626 original size:75 final size:75
Alignment explanation
Indices: 12043503--12043652 Score: 291
Period size: 75 Copynumber: 2.0 Consensus size: 75
12043493 ATAAAAATAT
*
12043503 GTCTGTCCTGATGAGTACAATTGGAATGCATGATTGAATTCGAATATTGGAAGTTATTGCCAAAA
1 GTCTGTCCTGATGAATACAATTGGAATGCATGATTGAATTCGAATATTGGAAGTTATTGCCAAAA
12043568 AAAGTTCTTG
66 AAAGTTCTTG
12043578 GTCTGTCCTGATGAATACAATTGGAATGCATGATTGAATTCGAATATTGGAAGTTATTGCCAAAA
1 GTCTGTCCTGATGAATACAATTGGAATGCATGATTGAATTCGAATATTGGAAGTTATTGCCAAAA
12043643 AAAGTTCTTG
66 AAAGTTCTTG
12043653 CTACTCACGT
Statistics
Matches: 74, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
75 74 1.00
ACGTcount: A:0.33, C:0.12, G:0.22, T:0.33
Consensus pattern (75 bp):
GTCTGTCCTGATGAATACAATTGGAATGCATGATTGAATTCGAATATTGGAAGTTATTGCCAAAA
AAAGTTCTTG
Found at i:12045846 original size:7 final size:7
Alignment explanation
Indices: 12045836--12045874 Score: 51
Period size: 7 Copynumber: 5.3 Consensus size: 7
12045826 AACTTAAAAA
12045836 TTAATTT
1 TTAATTT
12045843 TTAATTTGT
1 TTAA-TT-T
*
12045852 TTTATTT
1 TTAATTT
12045859 TTAATTT
1 TTAATTT
12045866 TTAATTT
1 TTAATTT
12045873 TT
1 TT
12045875 TTTCTTTTAT
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
7 20 0.71
8 4 0.14
9 4 0.14
ACGTcount: A:0.23, C:0.00, G:0.03, T:0.74
Consensus pattern (7 bp):
TTAATTT
Found at i:12045866 original size:23 final size:23
Alignment explanation
Indices: 12045836--12045882 Score: 76
Period size: 23 Copynumber: 2.0 Consensus size: 23
12045826 AACTTAAAAA
12045836 TTAATTTTTAATTTGTTTTATTT
1 TTAATTTTTAATTTGTTTTATTT
* *
12045859 TTAATTTTTAATTTTTTTTCTTT
1 TTAATTTTTAATTTGTTTTATTT
12045882 T
1 T
12045883 ATATTATTTC
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.19, C:0.02, G:0.02, T:0.77
Consensus pattern (23 bp):
TTAATTTTTAATTTGTTTTATTT
Found at i:12050661 original size:23 final size:23
Alignment explanation
Indices: 12050631--12051473 Score: 1668
Period size: 23 Copynumber: 36.7 Consensus size: 23
12050621 TTAAGTTTAG
12050631 GGTTAGGGTTTTCAACTTAATTA
1 GGTTAGGGTTTTCAACTTAATTA
12050654 GGTTAGGGTTTTCAACTTAATTA
1 GGTTAGGGTTTTCAACTTAATTA
12050677 GGTTAGGGTTTTCAACTTAATTA
1 GGTTAGGGTTTTCAACTTAATTA
12050700 GGTTAGGGTTTTCAACTTAATTA
1 GGTTAGGGTTTTCAACTTAATTA
12050723 GGTTAGGGTTTTCAACTTAATTA
1 GGTTAGGGTTTTCAACTTAATTA
12050746 GGTTAGGGTTTTCAACTTAATTA
1 GGTTAGGGTTTTCAACTTAATTA
12050769 GGTTAGGGTTTTCAACTTAATTA
1 GGTTAGGGTTTTCAACTTAATTA
12050792 GGTTAGGGTTTTCAACTTAATTA
1 GGTTAGGGTTTTCAACTTAATTA
12050815 GGTTAGGGTTTTCAACTTAATTA
1 GGTTAGGGTTTTCAACTTAATTA
12050838 GGTTAGGGTTTTCAACTTAATTA
1 GGTTAGGGTTTTCAACTTAATTA
12050861 GGTTAGGGTTTTCAACTTAATTA
1 GGTTAGGGTTTTCAACTTAATTA
12050884 GGTTAGGGTTTTCAACTTAATTA
1 GGTTAGGGTTTTCAACTTAATTA
12050907 GGTTAGGGTTTTCAACTTAATTA
1 GGTTAGGGTTTTCAACTTAATTA
12050930 GGTTAGGGTTTTCAACTTAATTA
1 GGTTAGGGTTTTCAACTTAATTA
12050953 GGTTAGGGTTTTCAACTTAATTA
1 GGTTAGGGTTTTCAACTTAATTA
12050976 GGTTAGGGTTTTCAACTTAATTA
1 GGTTAGGGTTTTCAACTTAATTA
12050999 GGTTAGGGTTTTCAACTTAATTA
1 GGTTAGGGTTTTCAACTTAATTA
12051022 GGTTAGGGTTTTCAACTTAATTA
1 GGTTAGGGTTTTCAACTTAATTA
12051045 GGTTAGGGTTTTCAACTTAATTA
1 GGTTAGGGTTTTCAACTTAATTA
12051068 GGTTAGGGTTTTCAACTTAATTA
1 GGTTAGGGTTTTCAACTTAATTA
12051091 GGTTAGGGTTTTCAACTTAATTA
1 GGTTAGGGTTTTCAACTTAATTA
12051114 GGTTAGGGTTTTCAACTTAATTA
1 GGTTAGGGTTTTCAACTTAATTA
12051137 GGTTAGGGTTTTCAACTTAATTA
1 GGTTAGGGTTTTCAACTTAATTA
12051160 GGTTAGGGTTTTCAACTTAATTA
1 GGTTAGGGTTTTCAACTTAATTA
12051183 GGTTAGGGTTTTCAACTTAATTA
1 GGTTAGGGTTTTCAACTTAATTA
12051206 GGTTAGGGTTTTCAACTTAATTA
1 GGTTAGGGTTTTCAACTTAATTA
12051229 GGTTAGGGTTTTCAACTTAATTA
1 GGTTAGGGTTTTCAACTTAATTA
12051252 GGTTAGGGTTTTCAACTTAATTA
1 GGTTAGGGTTTTCAACTTAATTA
12051275 GGTTAGGGTTTTCAACTTAATTA
1 GGTTAGGGTTTTCAACTTAATTA
12051298 GGTTAGGGTTTTCAACTTAATTA
1 GGTTAGGGTTTTCAACTTAATTA
12051321 GGTTAGGGTTTTCAACTTAATTA
1 GGTTAGGGTTTTCAACTTAATTA
12051344 GGTTAGGGTTTTCAACTTAATTA
1 GGTTAGGGTTTTCAACTTAATTA
12051367 GGTTAGGGTTTTCAACTTAATTA
1 GGTTAGGGTTTTCAACTTAATTA
12051390 GGTTAGGGTTTTCAACTTAATTA
1 GGTTAGGGTTTTCAACTTAATTA
12051413 GGTTAGGGTTTTCAACTTAATTA
1 GGTTAGGGTTTTCAACTTAATTA
* *
12051436 GGTTATGGTTTCCAACTTAATTA
1 GGTTAGGGTTTTCAACTTAATTA
12051459 GGTTAGGGTTTTCAA
1 GGTTAGGGTTTTCAA
12051474 TTTTTATCAC
Statistics
Matches: 816, Mismatches: 4, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 816 1.00
ACGTcount: A:0.26, C:0.09, G:0.22, T:0.43
Consensus pattern (23 bp):
GGTTAGGGTTTTCAACTTAATTA
Found at i:12051510 original size:25 final size:25
Alignment explanation
Indices: 12051475--12051938 Score: 690
Period size: 25 Copynumber: 18.7 Consensus size: 25
12051465 GGTTTTCAAT
*
12051475 TTTTATCACATCAAATAAACTTCTA
1 TTTTATTACATCAAATAAACTTCTA
12051500 TTTTATTACATCAAATAAACTTCTA
1 TTTTATTACATCAAATAAACTTCTA
12051525 TTTTATTACATCAAATAAACTTCTA
1 TTTTATTACATCAAATAAACTTCTA
12051550 TTTTATTACATCAAATAAACTTCTA
1 TTTTATTACATCAAATAAACTTCTA
12051575 TTTTATTACATCAAATAAACTTCTA
1 TTTTATTACATCAAATAAACTTCTA
12051600 TTTTATTACATCAAATAAACTTCTA
1 TTTTATTACATCAAATAAACTTCTA
12051625 TTTTATTACATCAAATAAACTTCTA
1 TTTTATTACATCAAATAAACTTCTA
12051650 TTTTATTACATCAAATAAACTTCTA
1 TTTTATTACATCAAATAAACTTCTA
12051675 TTTTATTACATCAAATAAACTTCTA
1 TTTTATTACATCAAATAAACTTCTA
12051700 TTTTATTACATCAAATAAACTTCTA
1 TTTTATTACATCAAATAAACTTCTA
12051725 TTTTATTACATCAAATAAACTTCTA
1 TTTTATTACATCAAATAAACTTCTA
* ***** *
12051750 TTTTATTACATC-TAGGGTTTTCAA
1 TTTTATTACATCAAATAAACTTCTA
*
12051774 TTTTTATCACATCAAATAAACTTCTA
1 -TTTTATTACATCAAATAAACTTCTA
*
12051800 TTTTATTACATCATATAAACTTCTA
1 TTTTATTACATCAAATAAACTTCTA
12051825 TTTTATTACATCAAATAAACTTCTA
1 TTTTATTACATCAAATAAACTTCTA
*
12051850 TTTTATTACATCAAGT-AA-TATC-A
1 TTTTATTACATCAAATAAACT-TCTA
** * * * **
12051873 --AAATAAC-TCAAAAAAATTTAAA
1 TTTTATTACATCAAATAAACTTCTA
12051895 TTTTTATTACATCAAATAAACTTCTA
1 -TTTTATTACATCAAATAAACTTCTA
12051921 TTTTATTACATCAAATAA
1 TTTTATTACATCAAATAA
12051939 TATCAAAATA
Statistics
Matches: 396, Mismatches: 33, Indels: 20
0.88 0.07 0.04
Matches are distributed among these distances:
20 4 0.01
21 7 0.02
22 2 0.01
23 2 0.01
24 9 0.02
25 356 0.90
26 16 0.04
ACGTcount: A:0.40, C:0.16, G:0.01, T:0.43
Consensus pattern (25 bp):
TTTTATTACATCAAATAAACTTCTA
Found at i:12051911 original size:71 final size:71
Alignment explanation
Indices: 12051825--12052006 Score: 321
Period size: 71 Copynumber: 2.6 Consensus size: 71
12051815 TAAACTTCTA
*
12051825 TTTTATTACATCAAATAAACTTCTATTTTATTACATCAAGTAATATCAAAATAACTCAAAAAAAT
1 TTTTATTACATCAAATAAACTTCTATTTTATTACATCAAATAATATCAAAATAACTCAAAAAAAT
12051890 TTAAAT
66 TTAAAT
*
12051896 TTTTATTACATCAAATAAACTTCTATTTTATTACATCAAATAATATCAAAATAACTCAAAAAATT
1 TTTTATTACATCAAATAAACTTCTATTTTATTACATCAAATAATATCAAAATAACTCAAAAAAAT
12051961 TTAAAT
66 TTAAAT
*
12051967 TTTTTTTACATC-AATAAAACTTCTATTTTATTACATCAAA
1 TTTTATTACATCAAAT-AAACTTCTATTTTATTACATCAAA
12052007 CAAACTTCAA
Statistics
Matches: 107, Mismatches: 3, Indels: 2
0.96 0.03 0.02
Matches are distributed among these distances:
70 3 0.03
71 104 0.97
ACGTcount: A:0.46, C:0.13, G:0.01, T:0.41
Consensus pattern (71 bp):
TTTTATTACATCAAATAAACTTCTATTTTATTACATCAAATAATATCAAAATAACTCAAAAAAAT
TTAAAT
Found at i:12052001 original size:25 final size:25
Alignment explanation
Indices: 12051967--12052014 Score: 71
Period size: 25 Copynumber: 1.9 Consensus size: 25
12051957 AATTTTAAAT
*
12051967 TTTTTTTACATCAATA-AAACTTCTA
1 TTTTATTACATCAA-ACAAACTTCTA
12051992 TTTTATTACATCAAACAAACTTC
1 TTTTATTACATCAAACAAACTTC
12052015 AAAATATTTA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 1 0.05
25 20 0.95
ACGTcount: A:0.38, C:0.19, G:0.00, T:0.44
Consensus pattern (25 bp):
TTTTATTACATCAAACAAACTTCTA
Found at i:12052485 original size:18 final size:18
Alignment explanation
Indices: 12052447--12052486 Score: 62
Period size: 18 Copynumber: 2.2 Consensus size: 18
12052437 GACTCGGAAA
*
12052447 AGGATACATATAAAGGTT
1 AGGATACATATAAAGGAT
*
12052465 AGGATACATATAAGGGAT
1 AGGATACATATAAAGGAT
12052483 AGGA
1 AGGA
12052487 AACGCACCTG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.45, C:0.05, G:0.28, T:0.23
Consensus pattern (18 bp):
AGGATACATATAAAGGAT
Found at i:12053733 original size:27 final size:27
Alignment explanation
Indices: 12053684--12053959 Score: 263
Period size: 27 Copynumber: 10.2 Consensus size: 27
12053674 AGGTCAATAG
*
12053684 AATGACCGAAATACGCCC-GTAGGGTAA
1 AATGACCGAAATAC-CCCTATAGGGTAA
*
12053711 AATAACCGAAATACCCCTATAGGGTAA
1 AATGACCGAAATACCCCTATAGGGTAA
* * ** *
12053738 AATTACCAAAATACCCCCGTAAGGTAA
1 AATGACCGAAATACCCCTATAGGGTAA
* * *
12053765 AATAACTGAAATA-CCCTCATAGGATAA
1 AATGACCGAAATACCCCT-ATAGGGTAA
*** * * *
12053792 AATGATTAAAATACCTCTGTAGAGTAA
1 AATGACCGAAATACCCCTATAGGGTAA
**
12053819 AATGATTGAAATA-CCCTCATAGGGTAA
1 AATGACCGAAATACCCCT-ATAGGGTAA
*
12053846 AATGACCGAAATA-CCCTCGTAGGGTAA
1 AATGACCGAAATACCCCT-ATAGGGTAA
*
12053873 AATGACCGAAATACCCCCATAGGGTAA
1 AATGACCGAAATACCCCTATAGGGTAA
* * *
12053900 AATGATCGAAATACCCTTATAGGATAA
1 AATGACCGAAATACCCCTATAGGGTAA
* *
12053927 AATGACCGAAATACCCCCATTGGGTAA
1 AATGACCGAAATACCCCTATAGGGTAA
12053954 AATGAC
1 AATGAC
12053960 TATTATACCC
Statistics
Matches: 205, Mismatches: 39, Indels: 10
0.81 0.15 0.04
Matches are distributed among these distances:
26 9 0.04
27 190 0.93
28 6 0.03
ACGTcount: A:0.42, C:0.20, G:0.17, T:0.21
Consensus pattern (27 bp):
AATGACCGAAATACCCCTATAGGGTAA
Found at i:12053970 original size:81 final size:80
Alignment explanation
Indices: 12053684--12053959 Score: 302
Period size: 81 Copynumber: 3.4 Consensus size: 80
12053674 AGGTCAATAG
* * * * * *
12053684 AATGACCGAAATACGCCCGTAGGGTAAAATAACCGAAATACCCCTATAGGGTAAAATTACCAAAA
1 AATGACCGAAATACCCCCATAGGGTAAAATGACCGAAATACCCCTATAGGGTAAAATGATCGAAA
*
12053749 TACCCCCGTA-AGGTAA
66 TA--CCCTTATAGGTAA
* * * * *** * * * *
12053765 AATAACTGAAATACCCTCATAGGATAAAATGATTAAAATACCTCTGTAGAGTAAAATGATTGAAA
1 AATGACCGAAATACCCCCATAGGGTAAAATGACCGAAATACCCCTATAGGGTAAAATGATCGAAA
*
12053830 TACCCTCATAGGGTAA
66 TACCCTTATA-GGTAA
* * *
12053846 AATGACCGAAATACCCTCGTAGGGTAAAATGACCGAAATACCCCCATAGGGTAAAATGATCGAAA
1 AATGACCGAAATACCCCCATAGGGTAAAATGACCGAAATACCCCTATAGGGTAAAATGATCGAAA
12053911 TACCCTTATAGGATAA
66 TACCCTTATAGG-TAA
*
12053927 AATGACCGAAATACCCCCATTGGGTAAAATGAC
1 AATGACCGAAATACCCCCATAGGGTAAAATGAC
12053960 TATTATACCC
Statistics
Matches: 157, Mismatches: 35, Indels: 6
0.79 0.18 0.03
Matches are distributed among these distances:
79 4 0.03
80 3 0.02
81 150 0.96
ACGTcount: A:0.42, C:0.20, G:0.17, T:0.21
Consensus pattern (80 bp):
AATGACCGAAATACCCCCATAGGGTAAAATGACCGAAATACCCCTATAGGGTAAAATGATCGAAA
TACCCTTATAGGTAA
Found at i:12055621 original size:17 final size:18
Alignment explanation
Indices: 12055589--12055622 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
12055579 AAATGTGGTT
12055589 TTAAATATTCAATTGTGC
1 TTAAATATTCAATTGTGC
*
12055607 TTAAA-ATTTAATTGTG
1 TTAAATATTCAATTGTG
12055623 TCTATTATAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 10 0.67
18 5 0.33
ACGTcount: A:0.35, C:0.06, G:0.12, T:0.47
Consensus pattern (18 bp):
TTAAATATTCAATTGTGC
Found at i:12061403 original size:60 final size:60
Alignment explanation
Indices: 12061310--12061429 Score: 222
Period size: 60 Copynumber: 2.0 Consensus size: 60
12061300 GGAATCGGAT
* *
12061310 GAGACGATTAGATCTTAGTACTCGCACCTTTTTTCAGGTAAATTTTGAGGATGAAATTTA
1 GAGACGATGAGATCTCAGTACTCGCACCTTTTTTCAGGTAAATTTTGAGGATGAAATTTA
12061370 GAGACGATGAGATCTCAGTACTCGCACCTTTTTTCAGGTAAATTTTGAGGATGAAATTTA
1 GAGACGATGAGATCTCAGTACTCGCACCTTTTTTCAGGTAAATTTTGAGGATGAAATTTA
12061430 ATTAGGGGGA
Statistics
Matches: 58, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
60 58 1.00
ACGTcount: A:0.30, C:0.14, G:0.21, T:0.35
Consensus pattern (60 bp):
GAGACGATGAGATCTCAGTACTCGCACCTTTTTTCAGGTAAATTTTGAGGATGAAATTTA
Found at i:12061723 original size:19 final size:20
Alignment explanation
Indices: 12061701--12061739 Score: 62
Period size: 19 Copynumber: 2.0 Consensus size: 20
12061691 TATTAGTGAT
12061701 TACATATGTAAAT-TTAATA
1 TACATATGTAAATATTAATA
*
12061720 TACATATGTATATATTAATA
1 TACATATGTAAATATTAATA
12061740 AATATGTTTA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 12 0.67
20 6 0.33
ACGTcount: A:0.46, C:0.05, G:0.05, T:0.44
Consensus pattern (20 bp):
TACATATGTAAATATTAATA
Found at i:12062868 original size:40 final size:41
Alignment explanation
Indices: 12062772--12062870 Score: 128
Period size: 41 Copynumber: 2.4 Consensus size: 41
12062762 TTCAGTTTAA
* * ** *
12062772 CCGATGAGACATTTGGTGCCAATTTACTACTTTGGATATAT
1 CCGATGAGACACTGGGTGAAAATTTACTACTTTGAATATAT
*
12062813 TCGATGAGACACTGGGTGAAAATTTACTACTTTGAAT-TAT
1 CCGATGAGACACTGGGTGAAAATTTACTACTTTGAATATAT
*
12062853 CCGATGAGGCACTGGGTG
1 CCGATGAGACACTGGGTG
12062871 CCAAACTGAT
Statistics
Matches: 50, Mismatches: 8, Indels: 1
0.85 0.14 0.02
Matches are distributed among these distances:
40 19 0.38
41 31 0.62
ACGTcount: A:0.27, C:0.16, G:0.24, T:0.32
Consensus pattern (41 bp):
CCGATGAGACACTGGGTGAAAATTTACTACTTTGAATATAT
Found at i:12063224 original size:17 final size:18
Alignment explanation
Indices: 12063192--12063229 Score: 60
Period size: 17 Copynumber: 2.2 Consensus size: 18
12063182 AAATGTGGTT
12063192 TTAAATATTGAATTGTGC
1 TTAAATATTGAATTGTGC
*
12063210 TTAAA-ATTTAATTGTGC
1 TTAAATATTGAATTGTGC
12063227 TTA
1 TTA
12063230 TTATATTGTT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 14 0.74
18 5 0.26
ACGTcount: A:0.34, C:0.05, G:0.13, T:0.47
Consensus pattern (18 bp):
TTAAATATTGAATTGTGC
Found at i:12069538 original size:20 final size:21
Alignment explanation
Indices: 12069515--12069560 Score: 60
Period size: 21 Copynumber: 2.2 Consensus size: 21
12069505 CCCAGGCCAC
12069515 GTGGCTT-CACACATGGCC-GT
1 GTGGCTTCCACACA-GGCCTGT
*
12069535 GTGGCTTCCCCACAGGCCTGT
1 GTGGCTTCCACACAGGCCTGT
12069556 GTGGC
1 GTGGC
12069561 AAAACCGTGT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
20 11 0.48
21 12 0.52
ACGTcount: A:0.11, C:0.33, G:0.33, T:0.24
Consensus pattern (21 bp):
GTGGCTTCCACACAGGCCTGT
Found at i:12076948 original size:18 final size:18
Alignment explanation
Indices: 12076906--12076960 Score: 56
Period size: 18 Copynumber: 3.0 Consensus size: 18
12076896 ATGTAAGTCA
* *
12076906 TGTTAATAATTAATTAAAT
1 TGTTAAAAATTAA-AAAAT
*
12076925 TTTTAAAAATTAAAAAAT
1 TGTTAAAAATTAAAAAAT
* *
12076943 TGTTAACAATTTAAAAAT
1 TGTTAAAAATTAAAAAAT
12076961 ATAAATTTTT
Statistics
Matches: 30, Mismatches: 6, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
18 19 0.63
19 11 0.37
ACGTcount: A:0.53, C:0.02, G:0.04, T:0.42
Consensus pattern (18 bp):
TGTTAAAAATTAAAAAAT
Found at i:12077001 original size:16 final size:16
Alignment explanation
Indices: 12076980--12077014 Score: 61
Period size: 16 Copynumber: 2.2 Consensus size: 16
12076970 TTTAATTATA
12076980 TAAAAATAATAAAAAT
1 TAAAAATAATAAAAAT
*
12076996 TAAAAATGATAAAAAT
1 TAAAAATAATAAAAAT
12077012 TAA
1 TAA
12077015 TTAATTTTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.71, C:0.00, G:0.03, T:0.26
Consensus pattern (16 bp):
TAAAAATAATAAAAAT
Found at i:12084224 original size:67 final size:69
Alignment explanation
Indices: 12084141--12084273 Score: 189
Period size: 70 Copynumber: 1.9 Consensus size: 69
12084131 ATAAACAATA
* * *
12084141 TAATGGTTTTGCCTTTTAAC-TT-AATAAGTAAACATTTATCAAAACAACGTAATTTTGCCTTTT
1 TAATGGTTTTGACTTTTAACTTTAAAAAAGTAAACATTTATCAAAACAACGTAACTTTGCCTTTT
12084204 AACT
66 AACT
***
12084208 TAATGGTTTTGACTTTTAACTTTACAAAAAGTAAACATTTATCAAAATGGCGTAACTTTGCCTTT
1 TAATGGTTTTGACTTTTAACTTTA-AAAAAGTAAACATTTATCAAAACAACGTAACTTTGCCTTT
12084273 T
65 T
12084274 CTTATTTAGA
Statistics
Matches: 57, Mismatches: 6, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
67 19 0.33
68 2 0.04
70 36 0.63
ACGTcount: A:0.34, C:0.14, G:0.11, T:0.41
Consensus pattern (69 bp):
TAATGGTTTTGACTTTTAACTTTAAAAAAGTAAACATTTATCAAAACAACGTAACTTTGCCTTTT
AACT
Found at i:12084666 original size:15 final size:15
Alignment explanation
Indices: 12084642--12084675 Score: 59
Period size: 15 Copynumber: 2.3 Consensus size: 15
12084632 TTATCAAAAA
12084642 AAATTATAATTTTTT
1 AAATTATAATTTTTT
*
12084657 AAATTTTAATTTTTT
1 AAATTATAATTTTTT
12084672 AAAT
1 AAAT
12084676 AATTATTGAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (15 bp):
AAATTATAATTTTTT
Found at i:12086837 original size:27 final size:27
Alignment explanation
Indices: 12086807--12086961 Score: 150
Period size: 27 Copynumber: 5.7 Consensus size: 27
12086797 AAGTCCTTAT
* **
12086807 TACAGAATACGCCACAAAGGTGATCCA
1 TACAGAGTACGCCACAAAGGTGATATA
* *
12086834 TACAGAGTACACCACAAAGGTTATATA
1 TACAGAGTACGCCACAAAGGTGATATA
* ** * *
12086861 TAGAGAGTATACCACAAAGGCGACATA
1 TACAGAGTACGCCACAAAGGTGATATA
* *
12086888 TACAGATTATGCCACAAAGGTGATATA
1 TACAGAGTACGCCACAAAGGTGATATA
* **
12086915 TACAGAGTATGCCACAAAGGCAAT-TCA
1 TACAGAGTACGCCACAAAGGTGATAT-A
*
12086942 TTCAGAGTACGCCACAAAGG
1 TACAGAGTACGCCACAAAGG
12086962 CTGACAGGAT
Statistics
Matches: 107, Mismatches: 20, Indels: 2
0.83 0.16 0.02
Matches are distributed among these distances:
26 1 0.01
27 106 0.99
ACGTcount: A:0.41, C:0.21, G:0.19, T:0.19
Consensus pattern (27 bp):
TACAGAGTACGCCACAAAGGTGATATA
Found at i:12086949 original size:81 final size:82
Alignment explanation
Indices: 12086807--12086967 Score: 191
Period size: 81 Copynumber: 2.0 Consensus size: 82
12086797 AAGTCCTTAT
* ** * *
12086807 TACAGAATACGCCACAAAGGTGATCCATACAGAGTACACCACAAAGGTTATATATAGAGAGTATA
1 TACAGAATACGCCACAAAGGTGATACATACAGAGTACACCACAAAGGCAATATATACAGAGTACA
12086872 CCACAAAGGC-GACATA
66 CCACAAAGGCTGACATA
* * * ** *
12086888 TACAGATTATGCCACAAAGGTGATATATACAGAGTATGCCACAAAGGCAAT-TCATTCAGAGTAC
1 TACAGAATACGCCACAAAGGTGATACATACAGAGTACACCACAAAGGCAATAT-ATACAGAGTAC
*
12086952 GCCACAAAGGCTGACA
65 ACCACAAAGGCTGACA
12086968 GGATGCCACA
Statistics
Matches: 66, Mismatches: 12, Indels: 3
0.81 0.15 0.04
Matches are distributed among these distances:
80 1 0.02
81 61 0.92
82 4 0.06
ACGTcount: A:0.41, C:0.21, G:0.19, T:0.19
Consensus pattern (82 bp):
TACAGAATACGCCACAAAGGTGATACATACAGAGTACACCACAAAGGCAATATATACAGAGTACA
CCACAAAGGCTGACATA
Found at i:12086956 original size:54 final size:54
Alignment explanation
Indices: 12086807--12086961 Score: 170
Period size: 54 Copynumber: 2.9 Consensus size: 54
12086797 AAGTCCTTAT
* * ** * * *
12086807 TACAGAATACGCCACAAAGGTGATCCATACAGAGTACACCACAAAGGTTATATA
1 TACAGAGTATGCCACAAAGGCAATTCATACAGAGTACGCCACAAAGGTGATATA
* * * *
12086861 TAGAGAGTATACCACAAAGGCGACA-T-ATACAGATTATGCCACAAAGGTGATATA
1 TACAGAGTATGCCACAAAGGC-A-ATTCATACAGAGTACGCCACAAAGGTGATATA
*
12086915 TACAGAGTATGCCACAAAGGCAATTCATTCAGAGTACGCCACAAAGG
1 TACAGAGTATGCCACAAAGGCAATTCATACAGAGTACGCCACAAAGG
12086962 CTGACAGGAT
Statistics
Matches: 81, Mismatches: 16, Indels: 8
0.77 0.15 0.08
Matches are distributed among these distances:
52 1 0.01
53 2 0.02
54 77 0.95
56 1 0.01
ACGTcount: A:0.41, C:0.21, G:0.19, T:0.19
Consensus pattern (54 bp):
TACAGAGTATGCCACAAAGGCAATTCATACAGAGTACGCCACAAAGGTGATATA
Found at i:12092572 original size:38 final size:38
Alignment explanation
Indices: 12092521--12092633 Score: 118
Period size: 38 Copynumber: 3.0 Consensus size: 38
12092511 GTTATATCGT
* * *
12092521 TATTCAAGTTTTGTGCATAGTAGGCTTAGTGCTGGTGA
1 TATTCAGGATTTGTGCCTAGTAGGCTTAGTGCTGGTGA
* * ** *
12092559 TATTCAGGATTTGTGCCTAGCATGCTTAGTGCCAGTGT
1 TATTCAGGATTTGTGCCTAGTAGGCTTAGTGCTGGTGA
* * * *
12092597 TATTCAGGCTTAGTGCCTAGTAGGTTTATTGCTGGTG
1 TATTCAGGATTTGTGCCTAGTAGGCTTAGTGCTGGTG
12092634 TAATTAAAGT
Statistics
Matches: 59, Mismatches: 16, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
38 59 1.00
ACGTcount: A:0.19, C:0.14, G:0.28, T:0.39
Consensus pattern (38 bp):
TATTCAGGATTTGTGCCTAGTAGGCTTAGTGCTGGTGA
Found at i:12094237 original size:12 final size:12
Alignment explanation
Indices: 12094220--12094252 Score: 57
Period size: 12 Copynumber: 2.8 Consensus size: 12
12094210 TGCCACGCAC
12094220 GGCCGTGTGTCA
1 GGCCGTGTGTCA
*
12094232 GGCCGTGTGTTA
1 GGCCGTGTGTCA
12094244 GGCCGTGTG
1 GGCCGTGTG
12094253 CCAAGCTGTG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.06, C:0.21, G:0.45, T:0.27
Consensus pattern (12 bp):
GGCCGTGTGTCA
Found at i:12094252 original size:24 final size:24
Alignment explanation
Indices: 12094220--12094275 Score: 67
Period size: 24 Copynumber: 2.3 Consensus size: 24
12094210 TGCCACGCAC
* * **
12094220 GGCCGTGTGTCAGGCCGTGTGTTA
1 GGCCGTGTGCCAAGCCGTGTACTA
*
12094244 GGCCGTGTGCCAAGCTGTGTACTA
1 GGCCGTGTGCCAAGCCGTGTACTA
12094268 GGCCGTGT
1 GGCCGTGT
12094276 AACTCACTAG
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.11, C:0.23, G:0.39, T:0.27
Consensus pattern (24 bp):
GGCCGTGTGCCAAGCCGTGTACTA
Found at i:12096643 original size:11 final size:11
Alignment explanation
Indices: 12096627--12096660 Score: 61
Period size: 11 Copynumber: 3.2 Consensus size: 11
12096617 AAGGTTTTTG
12096627 AATTATTAATT
1 AATTATTAATT
12096638 AATTATTAATT
1 AATTATTAATT
12096649 AATTA-TAATT
1 AATTATTAATT
12096659 AA
1 AA
12096661 ATAATTGAAG
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
10 7 0.30
11 16 0.70
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (11 bp):
AATTATTAATT
Found at i:12097247 original size:22 final size:20
Alignment explanation
Indices: 12097195--12097233 Score: 78
Period size: 20 Copynumber: 1.9 Consensus size: 20
12097185 TTTATCTTCT
12097195 TAGAATAAATTATATTTTTA
1 TAGAATAAATTATATTTTTA
12097215 TAGAATAAATTATATTTTT
1 TAGAATAAATTATATTTTT
12097234 TGGGAATTAC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.44, C:0.00, G:0.05, T:0.51
Consensus pattern (20 bp):
TAGAATAAATTATATTTTTA
Found at i:12098862 original size:41 final size:41
Alignment explanation
Indices: 12098749--12098869 Score: 127
Period size: 41 Copynumber: 3.0 Consensus size: 41
12098739 GTGATAATCG
* * * *
12098749 GGCTTTGTGCCTAGT-AGGCTTTATGCCGGTGAATTATATCA
1 GGCTTTATGCCTA-TCAGGCTTAATGCCGGTGTATCATATCA
* * * * *
12098790 GGTTTTACGCCTAGCAGGCTTAATACCGGTGTACCATATCA
1 GGCTTTATGCCTATCAGGCTTAATGCCGGTGTATCATATCA
**
12098831 GGCTTTATGCCTATCAGGCTTCGTGCCGGTGTATCATAT
1 GGCTTTATGCCTATCAGGCTTAATGCCGGTGTATCATAT
12098870 TAAGATTTGT
Statistics
Matches: 63, Mismatches: 16, Indels: 2
0.78 0.20 0.02
Matches are distributed among these distances:
41 63 1.00
ACGTcount: A:0.20, C:0.21, G:0.25, T:0.34
Consensus pattern (41 bp):
GGCTTTATGCCTATCAGGCTTAATGCCGGTGTATCATATCA
Found at i:12107744 original size:58 final size:58
Alignment explanation
Indices: 12107674--12107789 Score: 223
Period size: 58 Copynumber: 2.0 Consensus size: 58
12107664 AATGAGGAGG
*
12107674 TCTTAAATAGCAATTTGACCAATTTTAAGTTCATGGACAAAATTAGGACATGGAAGGA
1 TCTTAAATAGCAATGTGACCAATTTTAAGTTCATGGACAAAATTAGGACATGGAAGGA
12107732 TCTTAAATAGCAATGTGACCAATTTTAAGTTCATGGACAAAATTAGGACATGGAAGGA
1 TCTTAAATAGCAATGTGACCAATTTTAAGTTCATGGACAAAATTAGGACATGGAAGGA
12107790 ATTTTTGGAA
Statistics
Matches: 57, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
58 57 1.00
ACGTcount: A:0.40, C:0.12, G:0.20, T:0.28
Consensus pattern (58 bp):
TCTTAAATAGCAATGTGACCAATTTTAAGTTCATGGACAAAATTAGGACATGGAAGGA
Found at i:12108229 original size:66 final size:66
Alignment explanation
Indices: 12108122--12108254 Score: 239
Period size: 66 Copynumber: 2.0 Consensus size: 66
12108112 TTAAATTATT
* *
12108122 TTAGACAACTTGTGCTACTCGGTTTTTAGTTAAAACAAGTAAAAGGGCTTAATCGGCAAAAATAC
1 TTAGACAACTAGTGCTACTCGGTTTTTAGTGAAAACAAGTAAAAGGGCTTAATCGGCAAAAATAC
12108187 C
66 C
*
12108188 TTAGACAACTAGTGCTACTCGGTTTTTAGTGAAAACGAGTAAAAGGGCTTAATCGGCAAAAATAC
1 TTAGACAACTAGTGCTACTCGGTTTTTAGTGAAAACAAGTAAAAGGGCTTAATCGGCAAAAATAC
12108253 C
66 C
12108254 T
1 T
12108255 AATAGTCACA
Statistics
Matches: 64, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
66 64 1.00
ACGTcount: A:0.36, C:0.17, G:0.20, T:0.28
Consensus pattern (66 bp):
TTAGACAACTAGTGCTACTCGGTTTTTAGTGAAAACAAGTAAAAGGGCTTAATCGGCAAAAATAC
C
Found at i:12109991 original size:26 final size:26
Alignment explanation
Indices: 12109962--12110069 Score: 180
Period size: 26 Copynumber: 4.2 Consensus size: 26
12109952 TGGTACAAAT
12109962 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
12109988 TGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
12110014 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
12110040 TGATAATGGTTTAGGTAAATGTTCCC
1 TGATAATGGGTTAGGTAAATGTTCCA
12110066 TGAT
1 TGAT
12110070 GGGCATTTCA
Statistics
Matches: 76, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 76 1.00
ACGTcount: A:0.31, C:0.08, G:0.24, T:0.36
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:12117089 original size:26 final size:26
Alignment explanation
Indices: 12117060--12117167 Score: 171
Period size: 26 Copynumber: 4.2 Consensus size: 26
12117050 TGGTACAAAT
*
12117060 TGATAATGGGTTAGATAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* * *
12117086 TGATAACGGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
12117112 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
12117138 TGATAATGGTTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
12117164 TGAT
1 TGAT
12117168 TGGCATTTCA
Statistics
Matches: 74, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
26 74 1.00
ACGTcount: A:0.33, C:0.08, G:0.23, T:0.35
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:12134700 original size:40 final size:40
Alignment explanation
Indices: 12134649--12134724 Score: 134
Period size: 40 Copynumber: 1.9 Consensus size: 40
12134639 GGACATAGCT
*
12134649 ACTCGCTCAAATGCCTTCGGGACTTAGCCCGGTTATAGTG
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGTTATAGTG
*
12134689 ACTCGCACAAATGCTTTCGGGACTTAGCCCGGTTAT
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGTTAT
12134725 CATCCGAATA
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
40 34 1.00
ACGTcount: A:0.21, C:0.28, G:0.24, T:0.28
Consensus pattern (40 bp):
ACTCGCACAAATGCCTTCGGGACTTAGCCCGGTTATAGTG
Found at i:12139278 original size:65 final size:65
Alignment explanation
Indices: 12139169--12139295 Score: 236
Period size: 65 Copynumber: 2.0 Consensus size: 65
12139159 CCTGTTCCAC
12139169 GAAAACTTAAGCATATCATAAAATACGGCTCATATGATCATTTCGTTACTTTAATATGAAAACAA
1 GAAAACTTAAGCATATCATAAAATACGGCTCATATGATCATTTCGTTACTTTAATATGAAAACAA
* *
12139234 GAAAACTTAAGCATATCATAAAATACGGCTCATATGATCGTTTCGTTACTTTCATATGAAAA
1 GAAAACTTAAGCATATCATAAAATACGGCTCATATGATCATTTCGTTACTTTAATATGAAAA
12139296 TAGATTCATC
Statistics
Matches: 60, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
65 60 1.00
ACGTcount: A:0.41, C:0.16, G:0.12, T:0.31
Consensus pattern (65 bp):
GAAAACTTAAGCATATCATAAAATACGGCTCATATGATCATTTCGTTACTTTAATATGAAAACAA
Found at i:12140177 original size:40 final size:40
Alignment explanation
Indices: 12140126--12140277 Score: 261
Period size: 40 Copynumber: 3.8 Consensus size: 40
12140116 GAACATAGCT
* *
12140126 ACTCGCTCAAATGCCTTCGGGACTTAGCCC-GATTATAGTG
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGA-TATAGTA
*
12140166 ACTCGCACAAATGCCTTCGGGACTGAGCCCGGATATAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATATAGTA
12140206 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATATAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATATAGTA
12140246 ACTCGCACAAATGCCTTCGGGACTTAGCCCGG
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGG
12140278 TTATTATCCG
Statistics
Matches: 107, Mismatches: 4, Indels: 2
0.95 0.04 0.02
Matches are distributed among these distances:
40 105 0.98
41 2 0.02
ACGTcount: A:0.25, C:0.29, G:0.24, T:0.22
Consensus pattern (40 bp):
ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATATAGTA
Found at i:12143529 original size:30 final size:30
Alignment explanation
Indices: 12143495--12143554 Score: 75
Period size: 30 Copynumber: 2.0 Consensus size: 30
12143485 ATTTAATACG
*
12143495 AACTTTAAAAAAATTACACTTTTGCCCCTA
1 AACTTTAAAAAAATTACACTTTTACCCCTA
*** *
12143525 AACTTTTGCATAATTACACTTTTACCCCTA
1 AACTTTAAAAAAATTACACTTTTACCCCTA
12143555 GGCTCGGGAA
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.35, C:0.25, G:0.03, T:0.37
Consensus pattern (30 bp):
AACTTTAAAAAAATTACACTTTTACCCCTA
Found at i:12148848 original size:46 final size:45
Alignment explanation
Indices: 12148781--12148947 Score: 187
Period size: 46 Copynumber: 3.6 Consensus size: 45
12148771 CGCCCCTAAG
*
12148781 TGAACTCGGACTCAACTCAACGAGTTCGGGCGTTCGCATCCATAAA
1 TGAACTCGGACTCAACTCAACGAGTTCGGACGTT-GCATCCATAAA
* * *
12148827 TGAACTCGGACTCAACTCAACGAGTTCAGATGCCTAGTTACAT-C-T-CA
1 TGAACTCGGACTCAACTCAACGAGTTC-G--GAC--GTTGCATCCATAAA
* * *
12148874 CGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCATAAG
1 TGAACTCGGACTCAACTCAACGAGTTCGGAC-GTTGCATCCATAAA
12148920 TGAACTCGGACTCAACTCAACGAGTTCG
1 TGAACTCGGACTCAACTCAACGAGTTCG
12148948 AATGCTCAGC
Statistics
Matches: 103, Mismatches: 10, Indels: 16
0.80 0.08 0.12
Matches are distributed among these distances:
43 6 0.06
44 3 0.03
45 1 0.01
46 55 0.53
47 28 0.27
48 1 0.01
49 3 0.03
50 3 0.03
51 3 0.03
ACGTcount: A:0.29, C:0.28, G:0.20, T:0.23
Consensus pattern (45 bp):
TGAACTCGGACTCAACTCAACGAGTTCGGACGTTGCATCCATAAA
Found at i:12148968 original size:46 final size:48
Alignment explanation
Indices: 12148777--12148962 Score: 162
Period size: 46 Copynumber: 4.0 Consensus size: 48
12148767 AACCCGCCCC
* *
12148777 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGGC--GTTC-GCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTC-GACATGCTCAGCATCCA
* *
12148823 TAAATGAACTCGGACTCAACTCAACGAGTTC-AGATGC-CTAGTTACAT-C-
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGACATGCTC-AG---CATCCA
* * *
12148871 TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACAT--T-TGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTC-GACATGCTCAGCATCCA
12148916 TAAGTGAACTCGGACTCAACTCAACGAGTTCGA-ATGCTCAGCCATCC
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGACATGCTCAG-CATCC
12148963 TAGTGACATG
Statistics
Matches: 112, Mismatches: 11, Indels: 32
0.72 0.07 0.21
Matches are distributed among these distances:
43 3 0.03
44 3 0.03
45 5 0.04
46 59 0.53
47 28 0.25
48 7 0.06
49 4 0.04
50 3 0.03
ACGTcount: A:0.30, C:0.28, G:0.19, T:0.23
Consensus pattern (48 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGACATGCTCAGCATCCA
Found at i:12149038 original size:46 final size:46
Alignment explanation
Indices: 12148971--12149062 Score: 175
Period size: 46 Copynumber: 2.0 Consensus size: 46
12148961 CCTAGTGACA
*
12148971 TGTCACTTGTATCCTAATCTATTCCTAAGGTTCAAACGGGCTTTTT
1 TGTCACTTGTATCCTAATCTATTCCTAAGGTTCAAACGGGATTTTT
12149017 TGTCACTTGTATCCTAATCTATTCCTAAGGTTCAAACGGGATTTTT
1 TGTCACTTGTATCCTAATCTATTCCTAAGGTTCAAACGGGATTTTT
12149063 CTCGAACACT
Statistics
Matches: 45, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
46 45 1.00
ACGTcount: A:0.23, C:0.21, G:0.15, T:0.41
Consensus pattern (46 bp):
TGTCACTTGTATCCTAATCTATTCCTAAGGTTCAAACGGGATTTTT
Found at i:12155290 original size:48 final size:48
Alignment explanation
Indices: 12155235--12155603 Score: 310
Period size: 48 Copynumber: 7.7 Consensus size: 48
12155225 AGGGTGAATT
*** * *
12155235 GCCGATGCCATGTTTTAAACATGGTCTTACACTGGCTCACATGTTGAG
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATATTGAG
* ** ** *
12155283 GCCGATGCCATGTCCTA-AGCATGGTCTTACACTGGCTGTCATAAGGTG
1 GCCGATGCCATGTCCCAGA-CATGGTCTTACACTGGCTCACATATTGAG
* * * * ** *
12155331 GTCGATGCCATGTCCCAGACATGGTCTTACACTAGCGCACAAATCAAT
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATATTGAG
* * * * *
12155379 GCCGAGGCCATGTCCCAGACATGGTCTTACGCTGGCTCTCATGTTGTG
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATATTGAG
* * * * * *** *
12155427 GTCGATGCCATGTCCCAGACATGGTCTTGCACTAGCACACACACCAAT
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATATTGAG
* * * * *
12155475 ACCGATGCCATGTCCCAAACATGGTCTTACACTGGCTCTCATGTTGTG
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATATTGAG
* * * ** *
12155523 GTCGATGCCATGTCCCAGACATGGTCTTACACTAGG-GCACACATCAAT
1 GCCGATGCCATGTCCCAGACATGGTCTTACACT-GGCTCACATATTGAG
*
12155571 GTCGATGCCATGTCCCAGACATGGTCTTACACT
1 GCCGATGCCATGTCCCAGACATGGTCTTACACT
12155604 AGCACTCATA
Statistics
Matches: 247, Mismatches: 71, Indels: 6
0.76 0.22 0.02
Matches are distributed among these distances:
47 1 0.00
48 243 0.98
49 3 0.01
ACGTcount: A:0.23, C:0.28, G:0.22, T:0.26
Consensus pattern (48 bp):
GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATATTGAG
Found at i:12155402 original size:96 final size:96
Alignment explanation
Indices: 12155283--12155612 Score: 491
Period size: 96 Copynumber: 3.4 Consensus size: 96
12155273 ACATGTTGAG
* * ***
12155283 GCCGATGCCATGTCCTA-AGCATGGTCTTACACTGGCTGTCATAAGGTGGTCGATGCCATGTCCC
1 GCCGATGCCATGTCCCAGA-CATGGTCTTACACTGGCTCTCATGTTGTGGTCGATGCCATGTCCC
*
12155347 AGACATGGTCTTACACTAGCGCACAAATCAAT
65 AGACATGGTCTTACACTAGCGCACACATCAAT
* *
12155379 GCCGAGGCCATGTCCCAGACATGGTCTTACGCTGGCTCTCATGTTGTGGTCGATGCCATGTCCCA
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATGTTGTGGTCGATGCCATGTCCCA
* * *
12155444 GACATGGTCTTGCACTAGCACACACACCAAT
66 GACATGGTCTTACACTAGCGCACACATCAAT
* *
12155475 ACCGATGCCATGTCCCAAACATGGTCTTACACTGGCTCTCATGTTGTGGTCGATGCCATGTCCCA
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATGTTGTGGTCGATGCCATGTCCCA
*
12155540 GACATGGTCTTACACTAGGGCACACATCAAT
66 GACATGGTCTTACACTAGCGCACACATCAAT
* * *
12155571 GTCGATGCCATGTCCCAGACATGGTCTTACACTAGCACTCAT
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCAT
12155613 ATCACCCAAA
Statistics
Matches: 209, Mismatches: 24, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
96 208 1.00
97 1 0.00
ACGTcount: A:0.23, C:0.29, G:0.22, T:0.25
Consensus pattern (96 bp):
GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATGTTGTGGTCGATGCCATGTCCCA
GACATGGTCTTACACTAGCGCACACATCAAT
Found at i:12155497 original size:144 final size:143
Alignment explanation
Indices: 12155333--12155608 Score: 349
Period size: 144 Copynumber: 1.9 Consensus size: 143
12155323 ATAAGGTGGT
*
12155333 CGATGCCATGTCCCAGACATGGTCTTACACTAGCGCACAAATCAAT-GCCGAGGCCATGTCCCAG
1 CGATGCCATGTCCCAAACATGGTCTTACACTAGCGCACAAAT-AATGGCCGAGGCCATGTCCCAG
* * * *** *
12155397 ACATGGTCTTACGCT-GGCTCTCATGTTGTGGTCGATGCCATGTCCCAGACATGGTCTTGCACTA
65 ACATGGTCTTACACTAGGCACACAT-CAAT-GTCGATGCCATGTCCCAGACATGGTCTTACACTA
12155461 GCACACACACCAATAC
128 GCACACACACCAATAC
* * * ** ** * *
12155477 CGATGCCATGTCCCAAACATGGTCTTACACTGGCTCTCATGTTGTGGTCGATGCCATGTCCCAGA
1 CGATGCCATGTCCCAAACATGGTCTTACACTAGCGCACAAATAATGGCCGAGGCCATGTCCCAGA
12155542 CATGGTCTTACACTAGGGCACACATCAATGTCGATGCCATGTCCCAGACATGGTCTTACACTAGC
66 CATGGTCTTACACTA-GGCACACATCAATGTCGATGCCATGTCCCAGACATGGTCTTACACTAGC
12155607 AC
130 AC
12155609 TCATATCACC
Statistics
Matches: 112, Mismatches: 17, Indels: 6
0.83 0.13 0.04
Matches are distributed among these distances:
143 1 0.01
144 103 0.92
145 1 0.01
146 7 0.06
ACGTcount: A:0.24, C:0.30, G:0.21, T:0.24
Consensus pattern (143 bp):
CGATGCCATGTCCCAAACATGGTCTTACACTAGCGCACAAATAATGGCCGAGGCCATGTCCCAGA
CATGGTCTTACACTAGGCACACATCAATGTCGATGCCATGTCCCAGACATGGTCTTACACTAGCA
CACACACCAATAC
Found at i:12157019 original size:18 final size:18
Alignment explanation
Indices: 12156996--12157036 Score: 73
Period size: 18 Copynumber: 2.3 Consensus size: 18
12156986 GTCCAATGAT
12156996 ATCAAAATACTTGAATTC
1 ATCAAAATACTTGAATTC
*
12157014 ATCAAAATATTTGAATTC
1 ATCAAAATACTTGAATTC
12157032 ATCAA
1 ATCAA
12157037 TACCCAAAAC
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.46, C:0.15, G:0.05, T:0.34
Consensus pattern (18 bp):
ATCAAAATACTTGAATTC
Found at i:12157972 original size:42 final size:42
Alignment explanation
Indices: 12157860--12158022 Score: 188
Period size: 42 Copynumber: 3.9 Consensus size: 42
12157850 TACCGTACCA
* * * *
12157860 ATGCCATATCCTAGATATGGTCTTACATGTCATCTCGTATCG
1 ATGCCATATCCCAGATATGGTCTTACACGTAATCTCATATCG
* **
12157902 ATGCCAATAGCCCACCTATGGTCTTACACG-AAGTCTCATATCG
1 ATGCC-ATATCCCAGATATGGTCTTACACGTAA-TCTCATATCG
* * *
12157945 ATTCCATATCCCAGATATGGTCTTACAC-AAAGTCTCATATTG
1 ATGCCATATCCCAGATATGGTCTTACACGTAA-TCTCATATCG
12157987 ATGCCATATCCC-GATATGGTCTTACACGTAATCTCA
1 ATGCCATATCCCAGATATGGTCTTACACGTAATCTCA
12158023 GTAACCCTAA
Statistics
Matches: 103, Mismatches: 14, Indels: 9
0.82 0.11 0.07
Matches are distributed among these distances:
41 20 0.19
42 51 0.50
43 32 0.31
ACGTcount: A:0.28, C:0.26, G:0.15, T:0.31
Consensus pattern (42 bp):
ATGCCATATCCCAGATATGGTCTTACACGTAATCTCATATCG
Found at i:12157990 original size:85 final size:83
Alignment explanation
Indices: 12157863--12158022 Score: 191
Period size: 85 Copynumber: 1.9 Consensus size: 83
12157853 CGTACCAATG
* *** *
12157863 CCATATCCTAGATATGGTCTTACATGTCATCTCGTATCGATGCCAATAGCCC-ACCTATGGTCTT
1 CCATATCCCAGATATGGTCTTACATCAAATCTCATATCGATGCC-ATAGCCCGA--TATGGTCTT
12157927 ACACG-AAGTCTCATATCGATT
63 ACACGTAA-TCTCATATCGATT
* *
12157948 CCATATCCCAGATATGGTCTTACA-CAAAGTCTCATATTGATGCCATATCCCGATATGGTCTTAC
1 CCATATCCCAGATATGGTCTTACATCAAA-TCTCATATCGATGCCATAGCCCGATATGGTCTTAC
12158012 ACGTAATCTCA
65 ACGTAATCTCA
12158023 GTAACCCTAA
Statistics
Matches: 65, Mismatches: 7, Indels: 8
0.81 0.09 0.10
Matches are distributed among these distances:
83 19 0.29
84 9 0.14
85 37 0.57
ACGTcount: A:0.28, C:0.27, G:0.14, T:0.31
Consensus pattern (83 bp):
CCATATCCCAGATATGGTCTTACATCAAATCTCATATCGATGCCATAGCCCGATATGGTCTTACA
CGTAATCTCATATCGATT
Found at i:12158686 original size:49 final size:49
Alignment explanation
Indices: 12158633--12158733 Score: 184
Period size: 49 Copynumber: 2.1 Consensus size: 49
12158623 TACATTTCCT
*
12158633 ACCATTAGACATAAAAATACACAAATATCAATCATGGGTAAAATTTTAG
1 ACCATTAGACATAAAAATAAACAAATATCAATCATGGGTAAAATTTTAG
*
12158682 ACCATTAGACATCAAAATAAACAAATATCAATCATGGGTAAAATTTTAG
1 ACCATTAGACATAAAAATAAACAAATATCAATCATGGGTAAAATTTTAG
12158731 ACC
1 ACC
12158734 TTGATTATTT
Statistics
Matches: 50, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
49 50 1.00
ACGTcount: A:0.49, C:0.16, G:0.10, T:0.26
Consensus pattern (49 bp):
ACCATTAGACATAAAAATAAACAAATATCAATCATGGGTAAAATTTTAG
Found at i:12159856 original size:29 final size:29
Alignment explanation
Indices: 12159789--12159857 Score: 102
Period size: 29 Copynumber: 2.4 Consensus size: 29
12159779 ACACCAGGGG
*
12159789 ACACACGACTGTGTAAATGACCGTGTATC
1 ACACACGGCTGTGTAAATGACCGTGTATC
* * *
12159818 ACACATGGCTGTGTACATGATCGTGTATC
1 ACACACGGCTGTGTAAATGACCGTGTATC
12159847 ACACACGGCTG
1 ACACACGGCTG
12159858 AGACACACAC
Statistics
Matches: 35, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
29 35 1.00
ACGTcount: A:0.28, C:0.25, G:0.23, T:0.25
Consensus pattern (29 bp):
ACACACGGCTGTGTAAATGACCGTGTATC
Found at i:12161608 original size:21 final size:20
Alignment explanation
Indices: 12161580--12161618 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 20
12161570 CAAAACCTGT
12161580 ATAACTATCATCAAACATTC
1 ATAACTATCATCAAACATTC
* *
12161600 ATAATCTATGATTAAACAT
1 ATAA-CTATCATCAAACAT
12161619 CAAAATACAT
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 4 0.25
21 12 0.75
ACGTcount: A:0.46, C:0.18, G:0.03, T:0.33
Consensus pattern (20 bp):
ATAACTATCATCAAACATTC
Found at i:12165499 original size:43 final size:43
Alignment explanation
Indices: 12165372--12165500 Score: 147
Period size: 43 Copynumber: 3.0 Consensus size: 43
12165362 ATACCATACA
* * * *
12165372 ATGCCAATGTCCCAGACATGGTCTTACATGTA-ATCACATATCG
1 ATGCCAACGTCCCAGACATGGTCTTACACG-AGAACACATATTG
* *
12165415 ATGCC-ACTGTCCTC-GACAAGGTCTTACTCGAGAACACATATTG
1 ATGCCAAC-GTCC-CAGACATGGTCTTACACGAGAACACATATTG
*
12165458 ATGCCAACGTCCCAGACGTGGTCTTACACGAGAACACATATTG
1 ATGCCAACGTCCCAGACATGGTCTTACACGAGAACACATATTG
12165501 GAAATCCTAT
Statistics
Matches: 72, Mismatches: 9, Indels: 10
0.79 0.10 0.11
Matches are distributed among these distances:
42 3 0.04
43 66 0.92
44 3 0.04
ACGTcount: A:0.29, C:0.27, G:0.19, T:0.25
Consensus pattern (43 bp):
ATGCCAACGTCCCAGACATGGTCTTACACGAGAACACATATTG
Found at i:12171712 original size:83 final size:83
Alignment explanation
Indices: 12171573--12171738 Score: 305
Period size: 83 Copynumber: 2.0 Consensus size: 83
12171563 AATCGTGGCG
*
12171573 TGGTGTTATTTTGAAAACAATTATCATTTTGAAAACACATCCTAAGTCTAGCCCATTTATTAACA
1 TGGTGTTATTTTGAAAACAATTATCATTTTGAAAACACATCCTAAATCTAGCCCATTTATTAACA
*
12171638 AATAGATTAAAGTTATTA
66 AACAGATTAAAGTTATTA
*
12171656 TGGTGTTATTTTGAAAACAATTATCATTTTGAAAACACGTCCTAAATCTAGCCCATTTATTAACA
1 TGGTGTTATTTTGAAAACAATTATCATTTTGAAAACACATCCTAAATCTAGCCCATTTATTAACA
12171721 AACAGATTAAAGTTATTA
66 AACAGATTAAAGTTATTA
12171739 AAAATAAAAT
Statistics
Matches: 80, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
83 80 1.00
ACGTcount: A:0.39, C:0.14, G:0.11, T:0.37
Consensus pattern (83 bp):
TGGTGTTATTTTGAAAACAATTATCATTTTGAAAACACATCCTAAATCTAGCCCATTTATTAACA
AACAGATTAAAGTTATTA
Found at i:12172413 original size:26 final size:26
Alignment explanation
Indices: 12172343--12172465 Score: 178
Period size: 26 Copynumber: 4.8 Consensus size: 26
12172333 CCTCTTTAAT
**
12172343 AACTGGGGCA-AAGCCCTTTTCGGTA
1 AACTGGGGCATAAGCCCTTTTCAATA
**
12172368 AACTGGCACA-AAGCCCTTTTCAATA
1 AACTGGGGCATAAGCCCTTTTCAATA
**
12172393 AACTGGGGCATAAGCCCTTTTCGGTA
1 AACTGGGGCATAAGCCCTTTTCAATA
12172419 AACTGGGGCATAAGCCCTTTTCAATA
1 AACTGGGGCATAAGCCCTTTTCAATA
12172445 AACTGGGGCATAAGCCCTTTT
1 AACTGGGGCATAAGCCCTTTT
12172466 GCACTTCCTC
Statistics
Matches: 87, Mismatches: 10, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
25 29 0.33
26 58 0.67
ACGTcount: A:0.28, C:0.24, G:0.22, T:0.26
Consensus pattern (26 bp):
AACTGGGGCATAAGCCCTTTTCAATA
Found at i:12172450 original size:52 final size:51
Alignment explanation
Indices: 12172343--12172465 Score: 212
Period size: 52 Copynumber: 2.4 Consensus size: 51
12172333 CCTCTTTAAT
12172343 AACTGGGGCA-AAGCCCTTTTCGGTAAACTGGCACAAAGCCCTTTTCAATA
1 AACTGGGGCATAAGCCCTTTTCGGTAAACTGGCACAAAGCCCTTTTCAATA
**
12172393 AACTGGGGCATAAGCCCTTTTCGGTAAACTGGGGCATAAGCCCTTTTCAATA
1 AACTGGGGCATAAGCCCTTTTCGGTAAACTGGCACA-AAGCCCTTTTCAATA
12172445 AACTGGGGCATAAGCCCTTTT
1 AACTGGGGCATAAGCCCTTTT
12172466 GCACTTCCTC
Statistics
Matches: 69, Mismatches: 2, Indels: 2
0.95 0.03 0.03
Matches are distributed among these distances:
50 10 0.14
51 23 0.33
52 36 0.52
ACGTcount: A:0.28, C:0.24, G:0.22, T:0.26
Consensus pattern (51 bp):
AACTGGGGCATAAGCCCTTTTCGGTAAACTGGCACAAAGCCCTTTTCAATA
Found at i:12173298 original size:27 final size:26
Alignment explanation
Indices: 12173268--12173361 Score: 91
Period size: 27 Copynumber: 3.5 Consensus size: 26
12173258 GGGCATATTC
*
12173268 GTCATTTTACCATACAGGGG-TATTACG
1 GTCACTTTACC-TACAGGGGCT-TTACG
* *
12173295 GTCACTTTACCTTGCAGGGGCTTTACA
1 GTCACTTTACC-TACAGGGGCTTTACG
*
12173322 GTCACTTTACCCTACAGGGGCTTTATG
1 GTCACTTTA-CCTACAGGGGCTTTACG
**
12173349 GTCTTTTTACCTA
1 GTCACTTTACCTA
12173362 ATAGGGGTAT
Statistics
Matches: 56, Mismatches: 9, Indels: 5
0.80 0.13 0.07
Matches are distributed among these distances:
26 4 0.07
27 49 0.88
28 3 0.05
ACGTcount: A:0.20, C:0.23, G:0.20, T:0.36
Consensus pattern (26 bp):
GTCACTTTACCTACAGGGGCTTTACG
Found at i:12173443 original size:27 final size:27
Alignment explanation
Indices: 12173417--12173695 Score: 147
Period size: 27 Copynumber: 10.3 Consensus size: 27
12173407 ACCTACAAAC
*
12173417 CAAGGGTATTTCAGTAATTTTGTAAAC
1 CAAGGGTATTTCAGTAATTTTGTAAAT
*
12173444 CAATGGTATTTCCA-TAATTTCTAG-AAAGT
1 CAAGGGTATTT-CAGTAATTT-T-GTAAA-T
* *
12173473 CAAGGGTATTTCTGTAACTTTGTAAAT
1 CAAGGGTATTTCAGTAATTTTGTAAAT
* ** **
12173500 CAGGGGTATTTTGGTAATTTTACAAAT
1 CAAGGGTATTTCAGTAATTTTGTAAAT
** * *
12173527 TGAGGGTATTTCGGTAA-TTT-TACAT
1 CAAGGGTATTTCAGTAATTTTGTAAAT
* * * ** *
12173552 ACCAGGGTTATTTTAGAAATTTTACAGA-
1 -CAAGGG-TATTTCAGTAATTTTGTAAAT
* ** * *
12173580 CTAGGGTATTTTGGTAATTTTACT-GAT
1 CAAGGGTATTTCAGTAATTTT-GTAAAT
* ** *
12173607 CGAGGGTATTTTGGTAATTTTGTAAAC
1 CAAGGGTATTTCAGTAATTTTGTAAAT
*
12173634 CAAGGGTATTTTAGTAATTTTGTAAAT
1 CAAGGGTATTTCAGTAATTTTGTAAAT
* ***
12173661 CGAGGGTAAAACAGTAATTTTGTAAAT
1 CAAGGGTATTTCAGTAATTTTGTAAAT
*
12173688 TAAGGGTA
1 CAAGGGTA
12173696 AAACAGTAAT
Statistics
Matches: 196, Mismatches: 43, Indels: 26
0.74 0.16 0.10
Matches are distributed among these distances:
25 3 0.02
26 23 0.12
27 138 0.70
28 14 0.07
29 18 0.09
ACGTcount: A:0.31, C:0.09, G:0.21, T:0.39
Consensus pattern (27 bp):
CAAGGGTATTTCAGTAATTTTGTAAAT
Found at i:12173599 original size:80 final size:80
Alignment explanation
Indices: 12173503--12173654 Score: 216
Period size: 80 Copynumber: 1.9 Consensus size: 80
12173493 TGTAAATCAG
* *
12173503 GGGTATTTTGGTAATTTTACAAATTGAGGGTATTTCGGTAATTTTACATACC-AGGGTTATTTTA
1 GGGTATTTTGGTAATTTTACAAATCGAGGGTATTTCGGTAATTTTACAAACCAAGGG-TATTTTA
12173567 GAAATTTTACAGACTA
65 GAAATTTTACAGACTA
** * **
12173583 GGGTATTTTGGTAATTTTACTGATCGAGGGTATTTTGGTAATTTTGTAAACCAAGGGTATTTTAG
1 GGGTATTTTGGTAATTTTACAAATCGAGGGTATTTCGGTAATTTTACAAACCAAGGGTATTTTAG
*
12173648 TAATTTT
66 AAATTTT
12173655 GTAAATCGAG
Statistics
Matches: 63, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
80 59 0.94
81 4 0.06
ACGTcount: A:0.28, C:0.07, G:0.22, T:0.43
Consensus pattern (80 bp):
GGGTATTTTGGTAATTTTACAAATCGAGGGTATTTCGGTAATTTTACAAACCAAGGGTATTTTAG
AAATTTTACAGACTA
Found at i:12173663 original size:54 final size:54
Alignment explanation
Indices: 12173392--12173668 Score: 179
Period size: 54 Copynumber: 5.1 Consensus size: 54
12173382 TCATCCTACA
* *** * * *
12173392 AGGGTGTTTTGGTAAACCTACAAACCAAGGGTATTTCAGTAATTTTGTAAACCA
1 AGGGTATTTTGGTAATTTTACAAACCAAGGGTATTTTAGTAATTTTGTAAATCG
* *** * * *
12173446 ATGGTATTTCCATAATTTCTAGAAAGTCAAGGGTATTTCT-GTAACTTTGTAAATC-
1 AGGGTATTTTGGTAATTT-TACAAA-CCAAGGGTATTT-TAGTAATTTTGTAAATCG
*** ** * *
12173501 AGGGGTATTTTGGTAATTTTACAAATTGAGGGTATTTCGGTAA-TTT-TACATACC
1 A-GGGTATTTTGGTAATTTTACAAACCAAGGGTATTTTAGTAATTTTGTAAAT-CG
* * * * * * *
12173555 AGGGTTATTTTAGAAATTTTACAGA-CTAGGGTATTTTGGTAATTTTACT-GATCG
1 AGGG-TATTTTGGTAATTTTACAAACCAAGGGTATTTTAGTAATTTT-GTAAATCG
**
12173609 AGGGTATTTTGGTAATTTTGTAAACCAAGGGTATTTTAGTAATTTTGTAAATCG
1 AGGGTATTTTGGTAATTTTACAAACCAAGGGTATTTTAGTAATTTTGTAAATCG
12173663 AGGGTA
1 AGGGTA
12173669 AAACAGTAAT
Statistics
Matches: 171, Mismatches: 39, Indels: 26
0.72 0.17 0.11
Matches are distributed among these distances:
52 4 0.02
53 37 0.22
54 79 0.46
55 13 0.08
56 38 0.22
ACGTcount: A:0.30, C:0.10, G:0.21, T:0.39
Consensus pattern (54 bp):
AGGGTATTTTGGTAATTTTACAAACCAAGGGTATTTTAGTAATTTTGTAAATCG
Found at i:12173759 original size:26 final size:27
Alignment explanation
Indices: 12173646--12173775 Score: 163
Period size: 27 Copynumber: 4.9 Consensus size: 27
12173636 AGGGTATTTT
12173646 AGTAATTTTGTAAATCGAGGGTAAAAC
1 AGTAATTTTGTAAATCGAGGGTAAAAC
**
12173673 AGTAATTTTGTAAATTAAGGGTAAAAC
1 AGTAATTTTGTAAATCGAGGGTAAAAC
* * *
12173700 AGTAATTCTATAAATTGAGGGTAAAAC
1 AGTAATTTTGTAAATCGAGGGTAAAAC
* *
12173727 GGTAATTTTGTAAATCGAGGAT-AAAC
1 AGTAATTTTGTAAATCGAGGGTAAAAC
* * *
12173753 GGTAATTCTATAAATCGAGGGTA
1 AGTAATTTTGTAAATCGAGGGTA
12173776 CTTTGGTAAT
Statistics
Matches: 89, Mismatches: 13, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
26 23 0.26
27 66 0.74
ACGTcount: A:0.41, C:0.07, G:0.22, T:0.31
Consensus pattern (27 bp):
AGTAATTTTGTAAATCGAGGGTAAAAC
Found at i:12173788 original size:53 final size:54
Alignment explanation
Indices: 12173619--12173775 Score: 181
Period size: 54 Copynumber: 2.9 Consensus size: 54
12173609 AGGGTATTTT
* * **** * *
12173619 GGTAATTTTGTAAACCAAGGGTATTTTAGTAATTTTGTAAATCGAGGGTAAAAC
1 GGTAATTTTGTAAATCAAGGATAAAACAGTAATTCTATAAATCGAGGGTAAAAC
* * * *
12173673 AGTAATTTTGTAAATTAAGGGTAAAACAGTAATTCTATAAATTGAGGGTAAAAC
1 GGTAATTTTGTAAATCAAGGATAAAACAGTAATTCTATAAATCGAGGGTAAAAC
* *
12173727 GGTAATTTTGTAAATCGAGGAT-AAACGGTAATTCTATAAATCGAGGGTA
1 GGTAATTTTGTAAATCAAGGATAAAACAGTAATTCTATAAATCGAGGGTA
12173776 CTTTGGTAAT
Statistics
Matches: 87, Mismatches: 16, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
53 25 0.29
54 62 0.71
ACGTcount: A:0.39, C:0.07, G:0.22, T:0.32
Consensus pattern (54 bp):
GGTAATTTTGTAAATCAAGGATAAAACAGTAATTCTATAAATCGAGGGTAAAAC
Found at i:12174943 original size:7 final size:7
Alignment explanation
Indices: 12174931--12175010 Score: 106
Period size: 7 Copynumber: 11.1 Consensus size: 7
12174921 ATTAATCAAT
12174931 CCTAAAC
1 CCTAAAC
12174938 CCTAAAC
1 CCTAAAC
*
12174945 CCTAAAA
1 CCTAAAC
12174952 CCTAAAC
1 CCTAAAC
**
12174959 TTTAAAAC
1 CCT-AAAC
12174967 CCTAAAC
1 CCTAAAC
*
12174974 CTTAAAAC
1 CCT-AAAC
12174982 CCTAAAC
1 CCTAAAC
12174989 CCTAAAC
1 CCTAAAC
12174996 CCTAAAC
1 CCTAAAC
12175003 CCTAAAC
1 CCTAAAC
12175010 C
1 C
12175011 AGAGCGGATA
Statistics
Matches: 63, Mismatches: 8, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
7 52 0.83
8 11 0.17
ACGTcount: A:0.45, C:0.38, G:0.00, T:0.17
Consensus pattern (7 bp):
CCTAAAC
Found at i:12174967 original size:29 final size:29
Alignment explanation
Indices: 12174931--12175008 Score: 113
Period size: 29 Copynumber: 2.7 Consensus size: 29
12174921 ATTAATCAAT
12174931 CCTAAACCCTAAACCCTAAAA-CCTAAAC
1 CCTAAACCCTAAACCCTAAAACCCTAAAC
** *
12174959 TTTAAAACCCTAAACCTTAAAACCCTAAAC
1 CCT-AAACCCTAAACCCTAAAACCCTAAAC
12174989 CCTAAACCCTAAACCCTAAA
1 CCTAAACCCTAAACCCTAAA
12175009 CCAGAGCGGA
Statistics
Matches: 42, Mismatches: 6, Indels: 3
0.82 0.12 0.06
Matches are distributed among these distances:
28 1 0.02
29 33 0.79
30 8 0.19
ACGTcount: A:0.46, C:0.36, G:0.00, T:0.18
Consensus pattern (29 bp):
CCTAAACCCTAAACCCTAAAACCCTAAAC
Found at i:12174970 original size:15 final size:15
Alignment explanation
Indices: 12174934--12175008 Score: 109
Period size: 15 Copynumber: 5.1 Consensus size: 15
12174924 AATCAATCCT
12174934 AAACCCTAAACCCTA
1 AAACCCTAAACCCTA
**
12174949 AAA-CCTAAACTTTA
1 AAACCCTAAACCCTA
*
12174963 AAACCCTAAACCTTA
1 AAACCCTAAACCCTA
12174978 AAACCCTAAACCCT-
1 AAACCCTAAACCCTA
12174992 AAACCCTAAACCCTA
1 AAACCCTAAACCCTA
12175007 AA
1 AA
12175009 CCAGAGCGGA
Statistics
Matches: 54, Mismatches: 4, Indels: 4
0.87 0.06 0.06
Matches are distributed among these distances:
14 26 0.48
15 28 0.52
ACGTcount: A:0.48, C:0.35, G:0.00, T:0.17
Consensus pattern (15 bp):
AAACCCTAAACCCTA
Found at i:12176167 original size:31 final size:31
Alignment explanation
Indices: 12176129--12176920 Score: 1575
Period size: 31 Copynumber: 25.5 Consensus size: 31
12176119 TTTAACGGTT
12176129 ACTGGGCCGAAGCCTTTTCATAAATCATATC
1 ACTGGGCCGAAGCCTTTTCATAAATCATATC
12176160 ACTGGGCCGAAGCCTTTTCATAAATCATATC
1 ACTGGGCCGAAGCCTTTTCATAAATCATATC
12176191 ACTGGGCCGAAGCCTTTTCATAAATCATATC
1 ACTGGGCCGAAGCCTTTTCATAAATCATATC
12176222 ACTGGGCCGAAGCCTTTTCATAAATCATATC
1 ACTGGGCCGAAGCCTTTTCATAAATCATATC
12176253 ACTGGGCCGAAGCCTTTTCATAAATCATATC
1 ACTGGGCCGAAGCCTTTTCATAAATCATATC
12176284 ACTGGGCCGAAGCCTTTTCATAAATCATATC
1 ACTGGGCCGAAGCCTTTTCATAAATCATATC
12176315 ACTGGGCCGAAGCCTTTTCATAAATCATATC
1 ACTGGGCCGAAGCCTTTTCATAAATCATATC
12176346 ACTGGGCCGAAGCCTTTTCATAAATCATATC
1 ACTGGGCCGAAGCCTTTTCATAAATCATATC
12176377 ACTGGGCCGAAGCCTTTTCATAAATCATATC
1 ACTGGGCCGAAGCCTTTTCATAAATCATATC
12176408 ACTGGGCCGAAGCCTTTTCATAAATCATATC
1 ACTGGGCCGAAGCCTTTTCATAAATCATATC
12176439 ACTGGGCCGAAGCCTTTTCATAAATCATATC
1 ACTGGGCCGAAGCCTTTTCATAAATCATATC
12176470 ACTGGGCCGAAGCCTTTTCATAAATCATATC
1 ACTGGGCCGAAGCCTTTTCATAAATCATATC
12176501 ACTGGGCCGAAGCCTTTTCATAAATCATATC
1 ACTGGGCCGAAGCCTTTTCATAAATCATATC
12176532 ACTGGGCCGAAGCCTTTTCATAAATCATATC
1 ACTGGGCCGAAGCCTTTTCATAAATCATATC
12176563 ACTGGGCCGAAGCCTTTTCATAAATCATATC
1 ACTGGGCCGAAGCCTTTTCATAAATCATATC
12176594 ACTGGGCCGAAGCCTTTTCATAAATCATATC
1 ACTGGGCCGAAGCCTTTTCATAAATCATATC
12176625 ACTGGGCCGAAGCCTTTTCATAAATCATATC
1 ACTGGGCCGAAGCCTTTTCATAAATCATATC
12176656 ACTGGGCCGAAGCCTTTTCATAAATCATATC
1 ACTGGGCCGAAGCCTTTTCATAAATCATATC
12176687 ACTGGGCCGAAGCCTTTTCATAAATCATATC
1 ACTGGGCCGAAGCCTTTTCATAAATCATATC
12176718 ACTGGGCCGAAGCCTTTTCATAAATCATATC
1 ACTGGGCCGAAGCCTTTTCATAAATCATATC
12176749 ACTGGGCCGAAGCCTTTTCATAAATCATATC
1 ACTGGGCCGAAGCCTTTTCATAAATCATATC
12176780 ACTGGGCCGAAGCCTTTTCATAAATCATATC
1 ACTGGGCCGAAGCCTTTTCATAAATCATATC
12176811 ACTGGGCCGAAGCCTTTTCATAAATCATATC
1 ACTGGGCCGAAGCCTTTTCATAAATCATATC
12176842 ACTGGGCCGAAGCCTTTTCATAAATCATATC
1 ACTGGGCCGAAGCCTTTTCATAAATCATATC
12176873 ACTGGGCCGAAGCCTTTTCATAAATCATATC
1 ACTGGGCCGAAGCCTTTTCATAAATCATATC
*
12176904 ATTGGGCCGAAGCCTTT
1 ACTGGGCCGAAGCCTTT
12176921 ACTGTAAACG
Statistics
Matches: 760, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 760 1.00
ACGTcount: A:0.29, C:0.26, G:0.16, T:0.29
Consensus pattern (31 bp):
ACTGGGCCGAAGCCTTTTCATAAATCATATC
Found at i:12176991 original size:42 final size:42
Alignment explanation
Indices: 12176944--12177031 Score: 140
Period size: 42 Copynumber: 2.1 Consensus size: 42
12176934 TGGCCCTTAG
* ** *
12176944 GCCCATTTCAATATCACATGTAATGTCAATGGATGTATGCAA
1 GCCCATTTCAATATCACATGAAATACCAATGAATGTATGCAA
12176986 GCCCATTTCAATATCACATGAAATACCAATGAATGTATGCAA
1 GCCCATTTCAATATCACATGAAATACCAATGAATGTATGCAA
12177028 GCCC
1 GCCC
12177032 GTTTGGGGAG
Statistics
Matches: 42, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
42 42 1.00
ACGTcount: A:0.35, C:0.23, G:0.15, T:0.27
Consensus pattern (42 bp):
GCCCATTTCAATATCACATGAAATACCAATGAATGTATGCAA
Found at i:12177251 original size:26 final size:26
Alignment explanation
Indices: 12177180--12177302 Score: 169
Period size: 26 Copynumber: 4.8 Consensus size: 26
12177170 CCTCTTTAAT
* **
12177180 AACTAGGGCA-AAGCCCTTTTCGGTA
1 AACTGGGGCATAAGCCCTTTTCAATA
12177205 AACTGGGGCA-AAGCCCTTTTCAATA
1 AACTGGGGCATAAGCCCTTTTCAATA
**
12177230 AACTGGGGCATAAGCCCTTTTCGGTA
1 AACTGGGGCATAAGCCCTTTTCAATA
*
12177256 AATTGGGGCATAAGCCCTTTTCAATA
1 AACTGGGGCATAAGCCCTTTTCAATA
*
12177282 AACTAGGGCATAAGCCCTTTT
1 AACTGGGGCATAAGCCCTTTT
12177303 GCACTTCCTC
Statistics
Matches: 87, Mismatches: 10, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
25 32 0.37
26 55 0.63
ACGTcount: A:0.28, C:0.23, G:0.22, T:0.27
Consensus pattern (26 bp):
AACTGGGGCATAAGCCCTTTTCAATA
Found at i:12177291 original size:52 final size:51
Alignment explanation
Indices: 12177180--12177302 Score: 212
Period size: 52 Copynumber: 2.4 Consensus size: 51
12177170 CCTCTTTAAT
12177180 AACTAGGGCA-AAGCCCTTTTCGGTAAACTGGGGCAAAGCCCTTTTCAATA
1 AACTAGGGCATAAGCCCTTTTCGGTAAACTGGGGCAAAGCCCTTTTCAATA
* *
12177230 AACTGGGGCATAAGCCCTTTTCGGTAAATTGGGGCATAAGCCCTTTTCAATA
1 AACTAGGGCATAAGCCCTTTTCGGTAAACTGGGGCA-AAGCCCTTTTCAATA
12177282 AACTAGGGCATAAGCCCTTTT
1 AACTAGGGCATAAGCCCTTTT
12177303 GCACTTCCTC
Statistics
Matches: 68, Mismatches: 3, Indels: 2
0.93 0.04 0.03
Matches are distributed among these distances:
50 9 0.13
51 24 0.35
52 35 0.51
ACGTcount: A:0.28, C:0.23, G:0.22, T:0.27
Consensus pattern (51 bp):
AACTAGGGCATAAGCCCTTTTCGGTAAACTGGGGCAAAGCCCTTTTCAATA
Found at i:12178140 original size:27 final size:27
Alignment explanation
Indices: 12178110--12178182 Score: 85
Period size: 27 Copynumber: 2.7 Consensus size: 27
12178100 TATTCATCAT
12178110 TTTACCATACAGGGGTATTACGGTCAC
1 TTTACCATACAGGGGTATTACGGTCAC
* **
12178137 TTTACCCTACAGGGGCT-TTACGGTCTT
1 TTTACCATACAGGGG-TATTACGGTCAC
* *
12178164 TTTACAATATAGGGGTATT
1 TTTACCATACAGGGGTATT
12178183 TTAGTCATTT
Statistics
Matches: 38, Mismatches: 6, Indels: 4
0.79 0.12 0.08
Matches are distributed among these distances:
26 1 0.03
27 36 0.95
28 1 0.03
ACGTcount: A:0.23, C:0.19, G:0.22, T:0.36
Consensus pattern (27 bp):
TTTACCATACAGGGGTATTACGGTCAC
Found at i:12178243 original size:27 final size:27
Alignment explanation
Indices: 12178213--12178265 Score: 70
Period size: 27 Copynumber: 2.0 Consensus size: 27
12178203 GGGTGTTTTG
*
12178213 GTAAATCTACAAACCAAGGGTATTTCA
1 GTAAATCTAAAAACCAAGGGTATTTCA
* * *
12178240 GTAATTTTAAAAACCAATGGTATTTC
1 GTAAATCTAAAAACCAAGGGTATTTC
12178266 CATAATTTTT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 22 1.00
ACGTcount: A:0.40, C:0.15, G:0.13, T:0.32
Consensus pattern (27 bp):
GTAAATCTAAAAACCAAGGGTATTTCA
Found at i:12178424 original size:53 final size:52
Alignment explanation
Indices: 12178315--12178463 Score: 149
Period size: 53 Copynumber: 2.8 Consensus size: 52
12178305 TAAATTAGGA
* *
12178315 GTATTTTGGTAATTTTACAAATTGAGGGTATTTCGGTAATTTTACAAACCAGGG
1 GTATTTTGGTAATTTTAC-AACT-AGGGTATTTTGGTAATTTTACAAACCAGGG
* * ** *
12178369 GTATTTTAGCAATTTTACAGACTAGGGTATTTTGGTAATTTTACTGATC-GAGG
1 GTATTTTGGTAATTTTACA-ACTAGGGTATTTTGGTAATTTTACAAACCAG-GG
* *
12178422 GTATTTTGGTAATTTTTA-AACCAAGGGTATTTTAGTAATTTT
1 GTATTTTGGTAA-TTTTACAA-CTAGGGTATTTTGGTAATTTT
12178464 GTAAATCGAG
Statistics
Matches: 80, Mismatches: 11, Indels: 9
0.80 0.11 0.09
Matches are distributed among these distances:
52 2 0.03
53 55 0.69
54 23 0.29
ACGTcount: A:0.28, C:0.08, G:0.21, T:0.43
Consensus pattern (52 bp):
GTATTTTGGTAATTTTACAACTAGGGTATTTTGGTAATTTTACAAACCAGGG
Found at i:12178476 original size:27 final size:27
Alignment explanation
Indices: 12178229--12178531 Score: 161
Period size: 27 Copynumber: 11.2 Consensus size: 27
12178219 CTACAAACCA
* * * *
12178229 AGGGTATTTCAGTAATTTTAAAAACCA
1 AGGGTATTTTAGTAATTTTATAAATCG
* * * *
12178256 ATGGTATTTCCA-TAATTTTTAGAAAGTCA
1 AGGGTATTT-TAGTAA-TTTTATAAA-TCG
* * *
12178285 AGGGTATTTCT-GTAACTTTGTAAAT-T
1 AGGGTATTT-TAGTAATTTTATAAATCG
* * *
12178311 AGGAGTATTTTGGTAATTTTACAAATTG
1 AGG-GTATTTTAGTAATTTTATAAATCG
** * *
12178339 AGGGTATTTCGGTAATTTTACAAA-CC
1 AGGGTATTTTAGTAATTTTATAAATCG
* * * *
12178365 AGGGGTATTTTAGCAATTTTACAGA-CT
1 A-GGGTATTTTAGTAATTTTATAAATCG
* *
12178392 AGGGTATTTTGGTAATTTTACT-GATCG
1 AGGGTATTTTAGTAATTTTA-TAAATCG
* * *
12178419 AGGGTATTTTGGTAATTTT-TAAACCA
1 AGGGTATTTTAGTAATTTTATAAATCG
*
12178445 AGGGTATTTTAGTAATTTTGTAAATCG
1 AGGGTATTTTAGTAATTTTATAAATCG
*** * *
12178472 AGGGTAAAATAGTAATTATATAAATCA
1 AGGGTATTTTAGTAATTTTATAAATCG
*** *
12178499 AGGGTAAAATAGTAATTCTATAAATCG
1 AGGGTATTTTAGTAATTTTATAAATCG
12178526 AGGGTA
1 AGGGTA
12178532 AAATGGTAAT
Statistics
Matches: 225, Mismatches: 39, Indels: 24
0.78 0.14 0.08
Matches are distributed among these distances:
25 1 0.00
26 44 0.20
27 147 0.65
28 19 0.08
29 14 0.06
ACGTcount: A:0.34, C:0.08, G:0.20, T:0.38
Consensus pattern (27 bp):
AGGGTATTTTAGTAATTTTATAAATCG
Found at i:12178476 original size:80 final size:81
Alignment explanation
Indices: 12178229--12178477 Score: 236
Period size: 80 Copynumber: 3.1 Consensus size: 81
12178219 CTACAAACCA
** * * * * ** * *
12178229 AGGGTATTTCAGTAATTTTAAAAACCAATGGTATTTCCATAATTTTTAGAAAGTCAAGGGTATTT
1 AGGGTATTTTGGTAATTTTACAAATCGAGGGTATTTCGGTAA-TTTTACAAA-CCAAGGGTATTT
*
12178294 CT-GTAACTTTGTAAAT-T
64 -TAGTAATTTTGTAAATCT
* *
12178311 AGGAGTATTTTGGTAATTTTACAAATTGAGGGTATTTCGGTAATTTTACAAACCAGGGGTATTTT
1 AGG-GTATTTTGGTAATTTTACAAATCGAGGGTATTTCGGTAATTTTACAAACCAAGGGTATTTT
* ** *
12178376 AGCAATTTTACAGA-CT
65 AGTAATTTTGTAAATCT
** * *
12178392 AGGGTATTTTGGTAATTTTACTGATCGAGGGTATTTTGGTAATTTT-TAAACCAAGGGTATTTTA
1 AGGGTATTTTGGTAATTTTACAAATCGAGGGTATTTCGGTAATTTTACAAACCAAGGGTATTTTA
*
12178456 GTAATTTTGTAAATCG
66 GTAATTTTGTAAATCT
12178472 AGGGTA
1 AGGGTA
12178478 AAATAGTAAT
Statistics
Matches: 135, Mismatches: 28, Indels: 10
0.78 0.16 0.06
Matches are distributed among these distances:
79 25 0.19
80 47 0.35
81 22 0.16
82 11 0.08
83 30 0.22
ACGTcount: A:0.31, C:0.08, G:0.20, T:0.40
Consensus pattern (81 bp):
AGGGTATTTTGGTAATTTTACAAATCGAGGGTATTTCGGTAATTTTACAAACCAAGGGTATTTTA
GTAATTTTGTAAATCT
Found at i:12178487 original size:80 final size:80
Alignment explanation
Indices: 12178323--12178504 Score: 186
Period size: 80 Copynumber: 2.3 Consensus size: 80
12178313 GAGTATTTTG
* *
12178323 GTAATTTTACAAATTGAGGGTATTTCGGTAATTTTACAAACCAGGGGTATTTTAGCAATTTTACA
1 GTAATTTTACAAATCGAGGGTATTTCGGTAATTTTACAAACCAAGGGTATTTTAGCAATTTTACA
* * *** *
12178388 GACTAGGGTATTTTG
66 AACGAGGGTAAAATA
** * * * **
12178403 GTAATTTTACTGATCGAGGGTATTTTGGTAATTTT-TAAACCAAGGGTATTTTAGTAATTTTGTA
1 GTAATTTTACAAATCGAGGGTATTTCGGTAATTTTACAAACCAAGGGTATTTTAGCAATTTTACA
12178467 AATCGAGGGTAAAATA
66 AA-CGAGGGTAAAATA
* * *
12178483 GTAATTATATAAATCAAGGGTA
1 GTAATTTTACAAATCGAGGGTA
12178505 AAATAGTAAT
Statistics
Matches: 81, Mismatches: 20, Indels: 2
0.79 0.19 0.02
Matches are distributed among these distances:
79 25 0.31
80 56 0.69
ACGTcount: A:0.33, C:0.08, G:0.21, T:0.38
Consensus pattern (80 bp):
GTAATTTTACAAATCGAGGGTATTTCGGTAATTTTACAAACCAAGGGTATTTTAGCAATTTTACA
AACGAGGGTAAAATA
Found at i:12178523 original size:54 final size:54
Alignment explanation
Indices: 12178454--12178585 Score: 183
Period size: 54 Copynumber: 2.4 Consensus size: 54
12178444 AAGGGTATTT
* *
12178454 TAGTAATTTTGTAAATCGAGGGTAAAATAGTAATTATATAAATCAAGGGTAAAA
1 TAGTAATTCTATAAATCGAGGGTAAAATAGTAATTATATAAATCAAGGGTAAAA
* * * *
12178508 TAGTAATTCTATAAATCGAGGGTAAAATGGTAATTCTGTAAATTAAGGGTAAAA
1 TAGTAATTCTATAAATCGAGGGTAAAATAGTAATTATATAAATCAAGGGTAAAA
** *
12178562 CGGTAATTCTATAAATCGAAGGTA
1 TAGTAATTCTATAAATCGAGGGTA
12178586 CTTTGGTAAT
Statistics
Matches: 69, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
54 69 1.00
ACGTcount: A:0.43, C:0.06, G:0.20, T:0.31
Consensus pattern (54 bp):
TAGTAATTCTATAAATCGAGGGTAAAATAGTAATTATATAAATCAAGGGTAAAA
Found at i:12178532 original size:27 final size:27
Alignment explanation
Indices: 12178454--12178585 Score: 165
Period size: 27 Copynumber: 4.9 Consensus size: 27
12178444 AAGGGTATTT
* *
12178454 TAGTAATTTTGTAAATCGAGGGTAAAA
1 TAGTAATTCTATAAATCGAGGGTAAAA
* *
12178481 TAGTAATTATATAAATCAAGGGTAAAA
1 TAGTAATTCTATAAATCGAGGGTAAAA
12178508 TAGTAATTCTATAAATCGAGGGTAAAA
1 TAGTAATTCTATAAATCGAGGGTAAAA
* * **
12178535 TGGTAATTCTGTAAATTAAGGGTAAAA
1 TAGTAATTCTATAAATCGAGGGTAAAA
** *
12178562 CGGTAATTCTATAAATCGAAGGTA
1 TAGTAATTCTATAAATCGAGGGTA
12178586 CTTTGGTAAT
Statistics
Matches: 91, Mismatches: 14, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
27 91 1.00
ACGTcount: A:0.43, C:0.06, G:0.20, T:0.31
Consensus pattern (27 bp):
TAGTAATTCTATAAATCGAGGGTAAAA
Found at i:12198742 original size:40 final size:40
Alignment explanation
Indices: 12198714--12198804 Score: 173
Period size: 40 Copynumber: 2.3 Consensus size: 40
12198704 CGGGATTCAG
12198714 CCCGGATATAACAACCAGCACAAATGCCTTTGGGACTTAA
1 CCCGGATATAACAACCAGCACAAATGCCTTTGGGACTTAA
*
12198754 CCCGGATATAACAACCAGCACGAATGCCTTTGGGACTTAA
1 CCCGGATATAACAACCAGCACAAATGCCTTTGGGACTTAA
12198794 CCCGGATATAA
1 CCCGGATATAA
12198805 TCCTCAATTG
Statistics
Matches: 50, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
40 50 1.00
ACGTcount: A:0.34, C:0.27, G:0.19, T:0.20
Consensus pattern (40 bp):
CCCGGATATAACAACCAGCACAAATGCCTTTGGGACTTAA
Found at i:12205509 original size:40 final size:40
Alignment explanation
Indices: 12205441--12205612 Score: 197
Period size: 40 Copynumber: 4.3 Consensus size: 40
12205431 ACTCAAGTAT
* *
12205441 CTTCGGGAT-TTAGCC-GGATATAACAACTCGTACAAATGC
1 CTTCGGG-TCTTAGCCTGGATATAGCAACTCGCACAAATGC
12205480 CTTCGGGTCTTAGCCTGGATATAGCAACTCGCACAAATGC
1 CTTCGGGTCTTAGCCTGGATATAGCAACTCGCACAAATGC
* * * * *
12205520 CTTCGGGTCTGAGCCCGGATATAATC-ACTAGCATAAATGC
1 CTTCGGGTCTTAGCCTGGATAT-AGCAACTCGCACAAATGC
* * * *
12205560 CTTCGGGACATAGCTTGGATATAGCAACTCGCACGAATGC
1 CTTCGGGTCTTAGCCTGGATATAGCAACTCGCACAAATGC
*
12205600 CTTCGGATCTTAG
1 CTTCGGGTCTTAG
12205613 TCCGGTTATC
Statistics
Matches: 110, Mismatches: 19, Indels: 7
0.81 0.14 0.05
Matches are distributed among these distances:
38 1 0.01
39 15 0.14
40 92 0.84
41 2 0.02
ACGTcount: A:0.27, C:0.25, G:0.23, T:0.26
Consensus pattern (40 bp):
CTTCGGGTCTTAGCCTGGATATAGCAACTCGCACAAATGC
Found at i:12213916 original size:40 final size:40
Alignment explanation
Indices: 12213858--12214025 Score: 223
Period size: 40 Copynumber: 4.2 Consensus size: 40
12213848 TCTTTGGGAT
*
12213858 TTAG-CCGGATATAACAACTCGCACAAATGCCTTCGGGTC
1 TTAGCCCGGATATAGCAACTCGCACAAATGCCTTCGGGTC
*
12213897 TTAGCCTGGATATAGCAACTCGCACAAATGCCTTCGGGTC
1 TTAGCCCGGATATAGCAACTCGCACAAATGCCTTCGGGTC
* * * *
12213937 TTAGCCCGGATATAATC-ACTAGCATAAATGCCTTCGGGAC
1 TTAGCCCGGATAT-AGCAACTCGCACAAATGCCTTCGGGTC
* * *
12213977 ATAGCCCGGATATAGCAACTCGCACGAATGCCTTCGGATC
1 TTAGCCCGGATATAGCAACTCGCACAAATGCCTTCGGGTC
*
12214017 TTAGTCCGG
1 TTAGCCCGG
12214026 TTATCATCCG
Statistics
Matches: 110, Mismatches: 16, Indels: 5
0.84 0.12 0.04
Matches are distributed among these distances:
39 6 0.05
40 102 0.93
41 2 0.02
ACGTcount: A:0.27, C:0.27, G:0.22, T:0.24
Consensus pattern (40 bp):
TTAGCCCGGATATAGCAACTCGCACAAATGCCTTCGGGTC
Found at i:12218373 original size:40 final size:40
Alignment explanation
Indices: 12218310--12218414 Score: 156
Period size: 40 Copynumber: 2.6 Consensus size: 40
12218300 AACCCAATTA
* * * *
12218310 CCTTCGGGATTTAGCCCGAATATAACAACTAGCACAAATG
1 CCTTCGGGACTTAACCCGGATATAACAACCAGCACAAATG
*
12218350 CCTTCGGGACTTAACCCGGATATAACAACCAGCACGAATG
1 CCTTCGGGACTTAACCCGGATATAACAACCAGCACAAATG
*
12218390 CCTTCGGGAGTTAACCCGGATATAA
1 CCTTCGGGACTTAACCCGGATATAA
12218415 TCCTCAATTG
Statistics
Matches: 59, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
40 59 1.00
ACGTcount: A:0.32, C:0.27, G:0.20, T:0.21
Consensus pattern (40 bp):
CCTTCGGGACTTAACCCGGATATAACAACCAGCACAAATG
Found at i:12223201 original size:28 final size:28
Alignment explanation
Indices: 12223165--12223248 Score: 89
Period size: 33 Copynumber: 2.9 Consensus size: 28
12223155 TATTCAATAA
12223165 CAGT-ACAGTCTGGGCCTAAGCCCTATG
1 CAGTAACAGTCTGGGCCTAAGCCCTATG
12223192 CAGTAACAGTACATTTTGGGCCTAAGCCCTATG
1 CAGTAACAGT-C----TGGGCCTAAGCCCTATG
* * *
12223225 CAGTAATAGTGTGGGCCTATGCCC
1 CAGTAACAGTCTGGGCCTAAGCCC
12223249 AAAATAGTAT
Statistics
Matches: 48, Mismatches: 3, Indels: 11
0.77 0.05 0.18
Matches are distributed among these distances:
27 4 0.08
28 17 0.35
29 1 0.02
33 26 0.54
ACGTcount: A:0.24, C:0.26, G:0.25, T:0.25
Consensus pattern (28 bp):
CAGTAACAGTCTGGGCCTAAGCCCTATG
Found at i:12223227 original size:33 final size:33
Alignment explanation
Indices: 12223130--12223230 Score: 130
Period size: 33 Copynumber: 3.0 Consensus size: 33
12223120 AACAGTGCAT
* * * * *
12223130 ACAGTAACAATCTGAGCCTGAGCCCTATTCAATA
1 ACAGT-ACAGTCTGGGCCTAAGCCCTATGCAGTA
12223164 ACAGTACAGTCTGGGCCTAAGCCCTATGCAGTA
1 ACAGTACAGTCTGGGCCTAAGCCCTATGCAGTA
* *
12223197 ACAGTACATTTTGGGCCTAAGCCCTATGCAGTA
1 ACAGTACAGTCTGGGCCTAAGCCCTATGCAGTA
12223230 A
1 A
12223231 TAGTGTGGGC
Statistics
Matches: 60, Mismatches: 7, Indels: 1
0.88 0.10 0.01
Matches are distributed among these distances:
33 55 0.92
34 5 0.08
ACGTcount: A:0.31, C:0.26, G:0.20, T:0.24
Consensus pattern (33 bp):
ACAGTACAGTCTGGGCCTAAGCCCTATGCAGTA
Found at i:12223402 original size:23 final size:23
Alignment explanation
Indices: 12223376--12223456 Score: 103
Period size: 23 Copynumber: 3.5 Consensus size: 23
12223366 ATCGCAGCGT
12223376 AGCTGCTAATAGTAATGCAACAA
1 AGCTGCTAATAGTAATGCAACAA
* *
12223399 AGCTACTAGTAGTAA--CATAGCAA
1 AGCTGCTAATAGTAATGCA-A-CAA
*
12223422 AGCTGCTAATAGTAATGCAGCAA
1 AGCTGCTAATAGTAATGCAACAA
12223445 AGCTGCTAATAG
1 AGCTGCTAATAG
12223457 CGGTAAACGT
Statistics
Matches: 49, Mismatches: 5, Indels: 8
0.79 0.08 0.13
Matches are distributed among these distances:
21 2 0.04
22 1 0.02
23 44 0.90
25 2 0.04
ACGTcount: A:0.41, C:0.17, G:0.20, T:0.22
Consensus pattern (23 bp):
AGCTGCTAATAGTAATGCAACAA
Found at i:12230501 original size:28 final size:28
Alignment explanation
Indices: 12230441--12230502 Score: 72
Period size: 28 Copynumber: 2.2 Consensus size: 28
12230431 CCTATTCAAT
*
12230441 AACAGT-ACAATCTGGGCCTAAGCCCTA
1 AACAGTAACAATCTGGGCCTAAGCCCAA
** * *
12230468 TGCAGTAACAATGTGGGCCTATGCCCAA
1 AACAGTAACAATCTGGGCCTAAGCCCAA
12230496 AACAGTA
1 AACAGTA
12230503 TAATCACAAT
Statistics
Matches: 27, Mismatches: 7, Indels: 1
0.77 0.20 0.03
Matches are distributed among these distances:
27 4 0.15
28 23 0.85
ACGTcount: A:0.34, C:0.26, G:0.21, T:0.19
Consensus pattern (28 bp):
AACAGTAACAATCTGGGCCTAAGCCCAA
Found at i:12232151 original size:27 final size:26
Alignment explanation
Indices: 12232103--12232162 Score: 66
Period size: 27 Copynumber: 2.3 Consensus size: 26
12232093 GCGAAGATGC
*
12232103 CAGATATTGTGACAAAGTCACCAGATA
1 CAGATATTGTGACAAAGCCACCAGA-A
* * *
12232130 CAGATATTGTGGCTAGGCCACCAGAA
1 CAGATATTGTGACAAAGCCACCAGAA
*
12232156 TAGATAT
1 CAGATAT
12232163 ATATATATGA
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
26 7 0.25
27 21 0.75
ACGTcount: A:0.37, C:0.18, G:0.22, T:0.23
Consensus pattern (26 bp):
CAGATATTGTGACAAAGCCACCAGAA
Found at i:12237459 original size:25 final size:25
Alignment explanation
Indices: 12237430--12237477 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
12237420 TTATAATATG
* * *
12237430 AAAATGACCGTTTTGCCCCTAGGTA
1 AAAATGACCATTATACCCCTAGGTA
12237455 AAAATGACCATTATACCCCTAGG
1 AAAATGACCATTATACCCCTAGG
12237478 GTTTATATAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.33, C:0.25, G:0.17, T:0.25
Consensus pattern (25 bp):
AAAATGACCATTATACCCCTAGGTA
Found at i:12237539 original size:20 final size:20
Alignment explanation
Indices: 12237514--12237556 Score: 86
Period size: 20 Copynumber: 2.1 Consensus size: 20
12237504 ATTTTGATAA
12237514 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
12237534 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
12237554 ACA
1 ACA
12237557 CGAGATGTTC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.37, C:0.12, G:0.19, T:0.33
Consensus pattern (20 bp):
ACATGATATGTATGATATGC
Found at i:12237564 original size:20 final size:20
Alignment explanation
Indices: 12237521--12237564 Score: 70
Period size: 20 Copynumber: 2.2 Consensus size: 20
12237511 TAAACATGAT
* *
12237521 ATGTATGATATGCACATGAT
1 ATGTATGATATGCACACGAG
12237541 ATGTATGATATGCACACGAG
1 ATGTATGATATGCACACGAG
12237561 ATGT
1 ATGT
12237565 TCATAAATGC
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.34, C:0.11, G:0.23, T:0.32
Consensus pattern (20 bp):
ATGTATGATATGCACACGAG
Found at i:12237677 original size:24 final size:25
Alignment explanation
Indices: 12237611--12237685 Score: 129
Period size: 23 Copynumber: 3.1 Consensus size: 25
12237601 GAGGAAGTGC
12237611 AAAAGGGCTTATGCCCCAGTTATT-
1 AAAAGGGCTTATGCCCCAGTTATTA
12237635 -AAAGGGCTTATGCCCCAGTTATTA
1 AAAAGGGCTTATGCCCCAGTTATTA
12237659 AAAAGGGCTT-TGCCCCAGTTATTA
1 AAAAGGGCTTATGCCCCAGTTATTA
12237683 AAA
1 AAA
12237686 GAGCCTAGGC
Statistics
Matches: 49, Mismatches: 0, Indels: 4
0.92 0.00 0.08
Matches are distributed among these distances:
23 23 0.47
24 17 0.35
25 9 0.18
ACGTcount: A:0.32, C:0.20, G:0.20, T:0.28
Consensus pattern (25 bp):
AAAAGGGCTTATGCCCCAGTTATTA
Found at i:12242501 original size:27 final size:26
Alignment explanation
Indices: 12242454--12242504 Score: 66
Period size: 27 Copynumber: 1.9 Consensus size: 26
12242444 CGAGGCTGCT
*
12242454 AGATATTGTGACGAAGTCACCAGAAC
1 AGATATTGTGACGAAGCCACCAGAAC
* *
12242480 AGATATATGTGGCGAGGCCACCAGA
1 AGATAT-TGTGACGAAGCCACCAGA
12242505 TTGCAGCGAG
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
26 6 0.29
27 15 0.71
ACGTcount: A:0.35, C:0.20, G:0.27, T:0.18
Consensus pattern (26 bp):
AGATATTGTGACGAAGCCACCAGAAC
Found at i:12245000 original size:50 final size:50
Alignment explanation
Indices: 12244885--12245123 Score: 290
Period size: 50 Copynumber: 4.9 Consensus size: 50
12244875 GTGTTACAGT
* * * *
12244885 GCCGATGCCATGTCCTAGACATGGTCTTACACT-G-ACACATA--TC-AA
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATATCTCGAG
* * ** * *
12244930 GCTGATGTCATGTCTAAGACATAGTCTTACATTAGCTCTCATATCTCGAG
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATATCTCGAG
* * *
12244980 GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTGATTTCTCGAA
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATATCTCGAG
* *
12245030 GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTTTCATATCTTGAG
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATATCTCGAG
* *
12245080 GTCGATGCCATGTCCCAAACATGGTCTTACACTAGCTCTCATAT
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATAT
12245124 ATCCCCAGCA
Statistics
Matches: 163, Mismatches: 26, Indels: 5
0.84 0.13 0.03
Matches are distributed among these distances:
45 27 0.17
46 1 0.01
47 5 0.03
49 2 0.01
50 128 0.79
ACGTcount: A:0.25, C:0.28, G:0.18, T:0.29
Consensus pattern (50 bp):
GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATATCTCGAG
Found at i:12245419 original size:20 final size:21
Alignment explanation
Indices: 12245394--12245432 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
12245384 TCTTAAAAGT
12245394 AGGGC-ACACGCCCGTGTGGA
1 AGGGCAACACGCCCGTGTGGA
12245414 AGGGCAACACGCCCGTGTG
1 AGGGCAACACGCCCGTGTG
12245433 ACCAATTCGA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 5 0.28
21 13 0.72
ACGTcount: A:0.21, C:0.31, G:0.38, T:0.10
Consensus pattern (21 bp):
AGGGCAACACGCCCGTGTGGA
Found at i:12252944 original size:50 final size:50
Alignment explanation
Indices: 12252877--12253313 Score: 587
Period size: 50 Copynumber: 8.8 Consensus size: 50
12252867 CATCAAAGTT
** ** *
12252877 GATGCCATGTCTTAGACATGGTCTTACACT-GACTCTTGTATATCGAGGCC
1 GATGCCATGTCCCAGACATGGTCTTACACTAG-CTCTCATATCTCGAGGCC
* * * * *
12252927 GATGCCATGTCCCAGACATGGCCTTACACT-G-ACACATA--TCAAAGCC
1 GATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATATCTCGAGGCC
* * *
12252973 GATACCATGTCCCAGACATGGTCTAACACTAGCTCTTATATCTCGAGGCC
1 GATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATATCTCGAGGCC
*
12253023 GATGCCATGTCCCAAACATGGTCTTACACTAGCTCTCATATCTCGAGGCC
1 GATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATATCTCGAGGCC
* *
12253073 AATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATATCTCGAGGCT
1 GATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATATCTCGAGGCC
* * *
12253123 GATACCATGTCCTAAACATGGTCTTACACTAGCTCTCATATCTCGAGGCC
1 GATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATATCTCGAGGCC
* * * * *
12253173 GATACAATGTCCCAGACATGGTCTTAGACTAGCTCTTATTTCTCGAGGCC
1 GATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATATCTCGAGGCC
*
12253223 GATGCCATGTCCCAGACATGGTCTTACAATAGCTCTCATATCTCGAGGCC
1 GATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATATCTCGAGGCC
* *
12253273 GATGCCATGTCCGAGACATGGTCTTACGCTAGCTCTCATAT
1 GATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATAT
12253314 ATCCCTAGCA
Statistics
Matches: 339, Mismatches: 44, Indels: 8
0.87 0.11 0.02
Matches are distributed among these distances:
46 33 0.10
47 1 0.00
48 7 0.02
50 298 0.88
ACGTcount: A:0.25, C:0.29, G:0.19, T:0.27
Consensus pattern (50 bp):
GATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATATCTCGAGGCC
Found at i:12260239 original size:37 final size:37
Alignment explanation
Indices: 12260189--12260264 Score: 152
Period size: 37 Copynumber: 2.1 Consensus size: 37
12260179 TCTGACTTCA
12260189 ACCAGGACATTTTTTATCATTTCATTATTATTAACAT
1 ACCAGGACATTTTTTATCATTTCATTATTATTAACAT
12260226 ACCAGGACATTTTTTATCATTTCATTATTATTAACAT
1 ACCAGGACATTTTTTATCATTTCATTATTATTAACAT
12260263 AC
1 AC
12260265 TTCATGGATT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 39 1.00
ACGTcount: A:0.33, C:0.17, G:0.05, T:0.45
Consensus pattern (37 bp):
ACCAGGACATTTTTTATCATTTCATTATTATTAACAT
Found at i:12271983 original size:27 final size:27
Alignment explanation
Indices: 12271952--12272719 Score: 870
Period size: 27 Copynumber: 28.7 Consensus size: 27
12271942 GCGTAGCTGA
*
12271952 ACCCTTATGAGATAAAATGACGATTTT
1 ACCCTTATGTGATAAAATGACGATTTT
* *
12271979 ACCCTTATGTGATAAAATGATGATATT
1 ACCCTTATGTGATAAAATGACGATTTT
* * *
12272006 GCCCTTATGTAATAAAATGACGATATT
1 ACCCTTATGTGATAAAATGACGATTTT
* *
12272033 GCCCTTATGTAATAAAATGACGATTTT
1 ACCCTTATGTGATAAAATGACGATTTT
*
12272060 ACCCTTATGTGATAAAATAACGATATTT
1 ACCCTTATGTGATAAAATGACGAT-TTT
* *
12272088 -CCCTTATGTGATAAAATAACAATTTT
1 ACCCTTATGTGATAAAATGACGATTTT
* *
12272114 ACCTTTATGTGATAAAATGACGATATT
1 ACCCTTATGTGATAAAATGACGATTTT
* * *
12272141 GCCCTTATGTGATAAAATGATGATATT
1 ACCCTTATGTGATAAAATGACGATTTT
* *
12272168 ACCCTTATGTGATAAAATAACAATTTT
1 ACCCTTATGTGATAAAATGACGATTTT
* *
12272195 ACCCTTATGTGATAAAATAATGATTTT
1 ACCCTTATGTGATAAAATGACGATTTT
* *
12272222 ACCCTTATGTGATAAAATGATGATATT
1 ACCCTTATGTGATAAAATGACGATTTT
* *
12272249 GCCCTTATGTGATAAAATGATGATTTT
1 ACCCTTATGTGATAAAATGACGATTTT
* * ** *
12272276 ACCC-T-TGTGATATATTG-CCCTTAT
1 ACCCTTATGTGATAAAATGACGATTTT
**** * *
12272300 GTGATAAATGTGATAAAATGATGATTTT
1 ACCCT-TATGTGATAAAATGACGATTTT
*
12272328 ACCC-T-TGTGATAAAATGACGATATT
1 ACCCTTATGTGATAAAATGACGATTTT
* *
12272353 GCCCTTATGTGATAAAATGATGATTTT
1 ACCCTTATGTGATAAAATGACGATTTT
*
12272380 ACCC-T-TGTGATAAAATGACGATATT
1 ACCCTTATGTGATAAAATGACGATTTT
*
12272405 GCCCTTATGTGATAAAATGACGATTTT
1 ACCCTTATGTGATAAAATGACGATTTT
*
12272432 ACCCTTATGTGATAAAATGACGATATT
1 ACCCTTATGTGATAAAATGACGATTTT
* *
12272459 GCCCTTATGTGATAAAATGACGATATT
1 ACCCTTATGTGATAAAATGACGATTTT
* * *
12272486 GCCCTTATATGATAAAATGACGATATT
1 ACCCTTATGTGATAAAATGACGATTTT
* * * *
12272513 GCCCTCATGTGATAAAATGATGATATT
1 ACCCTTATGTGATAAAATGACGATTTT
* * * *
12272540 GCCCTTATGTGATAAAACGATGACTTT
1 ACCCTTATGTGATAAAATGACGATTTT
*
12272567 ACCCTTATGTGATAAAATGACGATATT
1 ACCCTTATGTGATAAAATGACGATTTT
* * *
12272594 GCCCTTATGTAATAAAATGACAATTTT
1 ACCCTTATGTGATAAAATGACGATTTT
* *
12272621 ACCCTTATTTGATAAAATGACAATTTT
1 ACCCTTATGTGATAAAATGACGATTTT
*
12272648 ACCCTCATGTGATAAAATGACGATATTT
1 ACCCTTATGTGATAAAATGACGAT-TTT
*
12272676 -CCATTATGTGATAAAATGACGATTTT
1 ACCCTTATGTGATAAAATGACGATTTT
* *
12272702 TCCTTTATGTGATAAAAT
1 ACCCTTATGTGATAAAAT
12272720 AACCGAAATA
Statistics
Matches: 638, Mismatches: 91, Indels: 24
0.85 0.12 0.03
Matches are distributed among these distances:
24 3 0.00
25 52 0.08
26 10 0.02
27 564 0.88
28 9 0.01
ACGTcount: A:0.35, C:0.14, G:0.15, T:0.36
Consensus pattern (27 bp):
ACCCTTATGTGATAAAATGACGATTTT
Found at i:12272772 original size:27 final size:27
Alignment explanation
Indices: 12272735--12272829 Score: 95
Period size: 27 Copynumber: 3.5 Consensus size: 27
12272725 AAATACCCTC
12272735 AGGGTAAAATGACTAAAATA-CCACCAT
1 AGGGTAAAATGACTAAAATATCC-CCAT
* * *
12272762 AGGGTAGAATGACCAAAATATCCCTAT
1 AGGGTAAAATGACTAAAATATCCCCAT
** *
12272789 AGGGTAAAATGACTGTAATA-CCCCTGT
1 AGGGTAAAATGACTAAAATATCCCC-AT
*
12272816 AAGGTAAAATGACT
1 AGGGTAAAATGACT
12272830 TATTTGCCCT
Statistics
Matches: 56, Mismatches: 10, Indels: 4
0.80 0.14 0.06
Matches are distributed among these distances:
26 3 0.05
27 51 0.91
28 2 0.04
ACGTcount: A:0.42, C:0.17, G:0.19, T:0.22
Consensus pattern (27 bp):
AGGGTAAAATGACTAAAATATCCCCAT
Found at i:12272827 original size:54 final size:52
Alignment explanation
Indices: 12272714--12272828 Score: 124
Period size: 54 Copynumber: 2.2 Consensus size: 52
12272704 CTTTATGTGA
* * *
12272714 TAAAATAACCGAAATACCCTCAGGGTAAAATGACTAAAATACCACCATAGGG
1 TAAAATGACCAAAATACCCTCAGGGTAAAATGACTAAAATACCACCATAAGG
* * ** *
12272766 TAGAATGACCAAAATATCCCTATAGGGTAAAATGACTGTAATACC-CCTGTAAGG
1 TAAAATGACCAAAATA-CCCT-CAGGGTAAAATGACTAAAATACCACC-ATAAGG
12272820 TAAAATGAC
1 TAAAATGAC
12272829 TTATTTGCCC
Statistics
Matches: 51, Mismatches: 9, Indels: 4
0.80 0.14 0.06
Matches are distributed among these distances:
52 13 0.25
53 6 0.12
54 32 0.63
ACGTcount: A:0.43, C:0.19, G:0.17, T:0.21
Consensus pattern (52 bp):
TAAAATGACCAAAATACCCTCAGGGTAAAATGACTAAAATACCACCATAAGG
Found at i:12274326 original size:42 final size:42
Alignment explanation
Indices: 12274239--12274362 Score: 117
Period size: 42 Copynumber: 3.0 Consensus size: 42
12274229 ATGTCATCAT
* * * *
12274239 GATGCCATAGCCTA-ACTATGGTCTTACAC-AAAGTCTCATATC
1 GATGCCATATCCCAGAC-ATGGTCTTACACGAAA-TCACATACC
* * * *
12274281 GATGCCATGTTCTAGACATGGTCTTACACGAAATCACATGCC
1 GATGCCATATCCCAGACATGGTCTTACACGAAATCACATACC
* * *
12274323 GATGCCATATCCCAGATATGGTCTTATACGAGATCACATA
1 GATGCCATATCCCAGACATGGTCTTACACGAAATCACATA
12274363 TATATATTAA
Statistics
Matches: 67, Mismatches: 13, Indels: 4
0.80 0.15 0.05
Matches are distributed among these distances:
42 62 0.93
43 5 0.07
ACGTcount: A:0.31, C:0.25, G:0.17, T:0.27
Consensus pattern (42 bp):
GATGCCATATCCCAGACATGGTCTTACACGAAATCACATACC
Found at i:12276482 original size:37 final size:37
Alignment explanation
Indices: 12276438--12276512 Score: 150
Period size: 37 Copynumber: 2.0 Consensus size: 37
12276428 CCATAAGAAC
12276438 ATTATTAATACAAATTGTATTAATTCTCATGATTTCT
1 ATTATTAATACAAATTGTATTAATTCTCATGATTTCT
12276475 ATTATTAATACAAATTGTATTAATTCTCATGATTTCT
1 ATTATTAATACAAATTGTATTAATTCTCATGATTTCT
12276512 A
1 A
12276513 CTTACTCGTT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.36, C:0.11, G:0.05, T:0.48
Consensus pattern (37 bp):
ATTATTAATACAAATTGTATTAATTCTCATGATTTCT
Found at i:12291116 original size:41 final size:41
Alignment explanation
Indices: 12291035--12291132 Score: 115
Period size: 41 Copynumber: 2.4 Consensus size: 41
12291025 ACATTGACAC
* * *
12291035 AAAGACTACTAGGCCCAAAGCCTGATATAACACACCGGCAT
1 AAAGCCTACTAAGCACAAAGCCTGATATAACACACCGGCAT
* * * * *
12291076 GAAGCCTGCTAAGCACAAAGCTTGATATAATACACTGGCAT
1 AAAGCCTACTAAGCACAAAGCCTGATATAACACACCGGCAT
*
12291117 AAAGCCTACTAGGCAC
1 AAAGCCTACTAAGCAC
12291133 GGTGTAATAC
Statistics
Matches: 46, Mismatches: 11, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
41 46 1.00
ACGTcount: A:0.38, C:0.27, G:0.18, T:0.17
Consensus pattern (41 bp):
AAAGCCTACTAAGCACAAAGCCTGATATAACACACCGGCAT
Found at i:12295264 original size:43 final size:43
Alignment explanation
Indices: 12295194--12295362 Score: 241
Period size: 43 Copynumber: 3.9 Consensus size: 43
12295184 TCTGAATTCA
*
12295194 TTCACCGGCATT-TCGCCTGCTAGGCTTGAAGCCCGATATTAT
1 TTCACCGGCATTATAGCCTGCTAGGCTTGAAGCCCGATATTAT
* *
12295236 TTCACCGGCATTATAGTCTGCTAGGCTTGAGGCCCGATATTAT
1 TTCACCGGCATTATAGCCTGCTAGGCTTGAAGCCCGATATTAT
* *
12295279 CTCACCGGCATTATAGCCTGCTAGGCTTGAAGCCCGATATCAT
1 TTCACCGGCATTATAGCCTGCTAGGCTTGAAGCCCGATATTAT
* * **
12295322 TTCACTGGCATTATAGCCGGCTAGGCCCGAAGCCCGTATAT
1 TTCACCGGCATTATAGCCTGCTAGGCTTGAAGCCCG-ATAT
12295363 CACATTTCGA
Statistics
Matches: 113, Mismatches: 12, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
42 12 0.11
43 97 0.86
44 4 0.04
ACGTcount: A:0.21, C:0.28, G:0.22, T:0.28
Consensus pattern (43 bp):
TTCACCGGCATTATAGCCTGCTAGGCTTGAAGCCCGATATTAT
Found at i:12297460 original size:24 final size:25
Alignment explanation
Indices: 12297418--12297465 Score: 80
Period size: 24 Copynumber: 2.0 Consensus size: 25
12297408 ACACAAACGT
12297418 AGCTCTTCATGAGCATCCTGATATA
1 AGCTCTTCATGAGCATCCTGATATA
*
12297443 AGCTCTT-ATGAGCTTCCTGATAT
1 AGCTCTTCATGAGCATCCTGATAT
12297466 GGCTCGCTTG
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
24 15 0.68
25 7 0.32
ACGTcount: A:0.25, C:0.23, G:0.17, T:0.35
Consensus pattern (25 bp):
AGCTCTTCATGAGCATCCTGATATA
Found at i:12297994 original size:17 final size:17
Alignment explanation
Indices: 12297951--12297995 Score: 51
Period size: 15 Copynumber: 2.8 Consensus size: 17
12297941 AAATTCATGA
*
12297951 AAATG-ATGGTAT-ATG
1 AAATGAATGATATAATG
*
12297966 AAAT-ATTGATATAATG
1 AAATGAATGATATAATG
12297982 AAATGAATGATATA
1 AAATGAATGATATA
12297996 TGCTTATAAG
Statistics
Matches: 24, Mismatches: 3, Indels: 4
0.77 0.10 0.13
Matches are distributed among these distances:
15 9 0.38
16 7 0.29
17 8 0.33
ACGTcount: A:0.49, C:0.00, G:0.18, T:0.33
Consensus pattern (17 bp):
AAATGAATGATATAATG
Found at i:12299376 original size:38 final size:38
Alignment explanation
Indices: 12299322--12299407 Score: 129
Period size: 38 Copynumber: 2.3 Consensus size: 38
12299312 CATGGAGCTT
12299322 GAATATCACCGACACAAAGCCTGCTAGGCAC-AAAGCCC
1 GAATATCACCGACACAAAGCCTGCTAGGCACGAAA-CCC
* * *
12299360 GAATATCACCGGCACAAAGCCTGCTAGGTACGGAACCC
1 GAATATCACCGACACAAAGCCTGCTAGGCACGAAACCC
12299398 GAATATCACC
1 GAATATCACC
12299408 ACGTTTCTAT
Statistics
Matches: 44, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
38 42 0.95
39 2 0.05
ACGTcount: A:0.35, C:0.33, G:0.20, T:0.13
Consensus pattern (38 bp):
GAATATCACCGACACAAAGCCTGCTAGGCACGAAACCC
Found at i:12304916 original size:36 final size:34
Alignment explanation
Indices: 12304865--12304949 Score: 102
Period size: 36 Copynumber: 2.5 Consensus size: 34
12304855 CACTTTCGTA
*
12304865 TTCCTACTTCAATTTGGAATTGGATTATTCTCTCTT
1 TTCCTACTTCAATTTGGAATTGAATTATT-T-TCTT
* *
12304901 TTCCTATTTCCATTTGGAATTGAATTATTTTCTT
1 TTCCTACTTCAATTTGGAATTGAATTATTTTCTT
12304935 TT-CT-CTTTCAATTTG
1 TTCCTAC-TTCAATTTG
12304950 ATGTGGGAAT
Statistics
Matches: 43, Mismatches: 5, Indels: 5
0.81 0.09 0.09
Matches are distributed among these distances:
33 10 0.23
34 6 0.14
35 1 0.02
36 26 0.60
ACGTcount: A:0.19, C:0.18, G:0.09, T:0.54
Consensus pattern (34 bp):
TTCCTACTTCAATTTGGAATTGAATTATTTTCTT
Found at i:12310020 original size:36 final size:34
Alignment explanation
Indices: 12309980--12310064 Score: 102
Period size: 36 Copynumber: 2.5 Consensus size: 34
12309970 CACTTTTGTA
*
12309980 TTCCTACTTCAATTTGGAATTGGATTATTCTCTCTT
1 TTCCTACTTCAATTTGGAATTGAATTATT-T-TCTT
* *
12310016 TTCCTATTTCCATTTGGAATTGAATTATTTTCTT
1 TTCCTACTTCAATTTGGAATTGAATTATTTTCTT
12310050 TT-CT-CTTTCAATTTG
1 TTCCTAC-TTCAATTTG
12310065 ATGTGGGAAT
Statistics
Matches: 43, Mismatches: 5, Indels: 5
0.81 0.09 0.09
Matches are distributed among these distances:
33 10 0.23
34 6 0.14
35 1 0.02
36 26 0.60
ACGTcount: A:0.19, C:0.18, G:0.09, T:0.54
Consensus pattern (34 bp):
TTCCTACTTCAATTTGGAATTGAATTATTTTCTT
Found at i:12311773 original size:21 final size:21
Alignment explanation
Indices: 12311734--12311773 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
12311724 AGACTAAACC
*
12311734 AAAAACTTTAGAAAGTTTTGG
1 AAAAACTTTAGAAAATTTTGG
12311755 AAAAAC-TTAGAAAAATTTT
1 AAAAACTTTAG-AAAATTTT
12311774 CAAGAAACAG
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 4 0.24
21 13 0.76
ACGTcount: A:0.50, C:0.05, G:0.12, T:0.33
Consensus pattern (21 bp):
AAAAACTTTAGAAAATTTTGG
Found at i:12315584 original size:20 final size:21
Alignment explanation
Indices: 12315559--12315600 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
12315549 TAAGCATGTA
*
12315559 TTTTGAAT-TTTCTTGATAGT
1 TTTTGAATGTTTCATGATAGT
*
12315579 TTTTGAATGTTTGATGATAGT
1 TTTTGAATGTTTCATGATAGT
12315600 T
1 T
12315601 ATACAAGTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
20 8 0.42
21 11 0.58
ACGTcount: A:0.21, C:0.02, G:0.19, T:0.57
Consensus pattern (21 bp):
TTTTGAATGTTTCATGATAGT
Done.