Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A05
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: 100714657
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 3970000 characters in sequence are not A, C, G, or T
File 295 of 318
Found at i:93992540 original size:41 final size:41
Alignment explanation
Indices: 93992429--93992545 Score: 137
Period size: 41 Copynumber: 2.7 Consensus size: 41
93992419 AGGCACTTTA
*
93992429 TGTGTCGTATTTCAGGCACCTCGTGTGTCGTATTTCAGGCACCTCG
1 TGTGTCGTA--TCAGGCA-CTCATGTGTCGTA--TCAGGCACCTCG
*
93992475 TGTGTCGTATCAGGCACTCGTGTGTCGTATCAGGCACCTCG
1 TGTGTCGTATCAGGCACTCATGTGTCGTATCAGGCACCTCG
* *
93992516 TGTGTCGT-TTAGGCACTTTATGTGTCGTAT
1 TGTGTCGTATCAGGCAC-TCATGTGTCGTAT
93992546 ACTGATCAGG
Statistics
Matches: 67, Mismatches: 3, Indels: 7
0.87 0.04 0.09
Matches are distributed among these distances:
40 7 0.10
41 31 0.46
43 13 0.19
44 7 0.10
46 9 0.13
ACGTcount: A:0.14, C:0.23, G:0.27, T:0.36
Consensus pattern (41 bp):
TGTGTCGTATCAGGCACTCATGTGTCGTATCAGGCACCTCG
Found at i:93998784 original size:25 final size:26
Alignment explanation
Indices: 93998742--93998790 Score: 66
Period size: 25 Copynumber: 1.9 Consensus size: 26
93998732 ATTATTATTA
*
93998742 AAAGTAAAGTAAATAG-AAAGAAAAT
1 AAAGTAAAGTAAAAAGAAAAGAAAAT
93998767 AAAGTAAAG-AACAAAGAAAAGAAA
1 AAAGTAAAGTAA-AAAGAAAAGAAA
93998791 CAAAATAGGC
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
24 2 0.10
25 12 0.57
26 7 0.33
ACGTcount: A:0.71, C:0.02, G:0.16, T:0.10
Consensus pattern (26 bp):
AAAGTAAAGTAAAAAGAAAAGAAAAT
Found at i:94000329 original size:23 final size:23
Alignment explanation
Indices: 94000299--94000385 Score: 92
Period size: 21 Copynumber: 4.0 Consensus size: 23
94000289 GCTTTACTGA
* *
94000299 TCAGGCACTTTATGTGTCGTATT
1 TCAGGCACCTCATGTGTCGTATT
*
94000322 TCAGGCACCTCGTGTGTCGTA--
1 TCAGGCACCTCATGTGTCGTATT
*
94000343 TCAGGCACCTCGTGTGTCGT-TT
1 TCAGGCACCTCATGTGTCGTATT
* *
94000365 T-AGGCACTTTATGTGTCGTAT
1 TCAGGCACCTCATGTGTCGTAT
94000386 ACTATCAGGT
Statistics
Matches: 55, Mismatches: 6, Indels: 7
0.81 0.09 0.10
Matches are distributed among these distances:
21 35 0.64
22 2 0.04
23 18 0.33
ACGTcount: A:0.15, C:0.22, G:0.25, T:0.38
Consensus pattern (23 bp):
TCAGGCACCTCATGTGTCGTATT
Found at i:94005406 original size:8 final size:8
Alignment explanation
Indices: 94005395--94005520 Score: 62
Period size: 8 Copynumber: 15.4 Consensus size: 8
94005385 TTTTTGTTCT
94005395 TTTATATA
1 TTTATATA
*
94005403 TTTATATTT
1 TTTATA-TA
* *
94005412 TTTACAAAA
1 TTTA-TATA
*
94005421 TTTATAAA
1 TTTATATA
* *
94005429 TTTTTAGTT
1 TTTATA-TA
94005438 TTTATATA
1 TTTATATA
94005446 TTTATATA
1 TTTATATA
*
94005454 TTTTCATAAA
1 -TTT-ATATA
*
94005464 TTTATAAA
1 TTTATATA
94005472 TTT-TA-A
1 TTTATATA
*
94005478 CTTT-TTTA
1 -TTTATATA
94005486 TTTATATA
1 TTTATATA
94005494 -TTATATA
1 TTTATATA
* *
94005501 TTGTAAATT
1 TT-TATATA
94005510 TTTATATA
1 TTTATATA
94005518 TTT
1 TTT
94005521 TTTCAAATTA
Statistics
Matches: 91, Mismatches: 17, Indels: 20
0.71 0.13 0.16
Matches are distributed among these distances:
6 1 0.01
7 16 0.18
8 43 0.47
9 26 0.29
10 5 0.05
ACGTcount: A:0.35, C:0.02, G:0.02, T:0.61
Consensus pattern (8 bp):
TTTATATA
Found at i:94005443 original size:17 final size:18
Alignment explanation
Indices: 94005421--94005475 Score: 60
Period size: 18 Copynumber: 3.1 Consensus size: 18
94005411 TTTTACAAAA
94005421 TTTATAAATTT-T-TAGTT
1 TTTATAAATTTATATA-TT
*
94005438 TTTATATATTTATATATT
1 TTTATAAATTTATATATT
* *
94005456 TTCATAAATTTATAAATT
1 TTTATAAATTTATATATT
94005474 TT
1 TT
94005476 AACTTTTTTA
Statistics
Matches: 32, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
17 10 0.31
18 20 0.62
19 2 0.06
ACGTcount: A:0.35, C:0.02, G:0.02, T:0.62
Consensus pattern (18 bp):
TTTATAAATTTATATATT
Found at i:94005446 original size:43 final size:43
Alignment explanation
Indices: 94005394--94005495 Score: 140
Period size: 43 Copynumber: 2.4 Consensus size: 43
94005384 TTTTTTGTTC
*
94005394 TTTTATATATTTATATTTTTTACA-AAATTTATAAATTTTTAGT
1 TTTTATATATTTATATATTTT-CATAAATTTATAAATTTTTAGT
**
94005437 TTTTATATATTTATATATTTTCATAAATTTATAAA-TTTTAAC
1 TTTTATATATTTATATATTTTCATAAATTTATAAATTTTTAGT
94005479 TTTT-T-TATTTATATATT
1 TTTTATATATTTATATATT
94005496 ATATATTGTA
Statistics
Matches: 55, Mismatches: 3, Indels: 5
0.87 0.05 0.08
Matches are distributed among these distances:
40 12 0.22
41 1 0.02
42 11 0.20
43 31 0.56
ACGTcount: A:0.34, C:0.03, G:0.01, T:0.62
Consensus pattern (43 bp):
TTTTATATATTTATATATTTTCATAAATTTATAAATTTTTAGT
Found at i:94005508 original size:44 final size:43
Alignment explanation
Indices: 94005394--94005510 Score: 112
Period size: 43 Copynumber: 2.7 Consensus size: 43
94005384 TTTTTTGTTC
* * * *
94005394 TTTTATATATTTATATTTTTTACA-AAATTTATAAATTTTTAGT
1 TTTTATATATATATATATATT-CATAAATTTATAAATTTTAAGT
* * *
94005437 TTTTATATATTTATATATTTTCATAAATTTATAAATTTTAACTT
1 TTTTATATATATATATATATTCATAAATTTATAAATTTTAA-GT
* *
94005481 TTTTATTTATATATTATATATT-GTAAATTT
1 TTTTATATATATA-TATATATTCATAAATTT
94005511 TTATATATTT
Statistics
Matches: 64, Mismatches: 7, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
42 2 0.03
43 36 0.56
44 19 0.30
45 7 0.11
ACGTcount: A:0.35, C:0.03, G:0.02, T:0.61
Consensus pattern (43 bp):
TTTTATATATATATATATATTCATAAATTTATAAATTTTAAGT
Found at i:94005602 original size:16 final size:15
Alignment explanation
Indices: 94005559--94005606 Score: 51
Period size: 16 Copynumber: 3.0 Consensus size: 15
94005549 GATAAGGCTT
*
94005559 TTATATATTTTTAAT
1 TTATATATTTTTAAA
*
94005574 TGTAGATATTTTTATAAA
1 T-TATATA-TTTT-TAAA
94005592 TTATATATTTTTAAA
1 TTATATATTTTTAAA
94005607 AACAATAATA
Statistics
Matches: 27, Mismatches: 3, Indels: 6
0.75 0.08 0.17
Matches are distributed among these distances:
15 5 0.19
16 9 0.33
17 9 0.33
18 4 0.15
ACGTcount: A:0.38, C:0.00, G:0.04, T:0.58
Consensus pattern (15 bp):
TTATATATTTTTAAA
Found at i:94012941 original size:22 final size:21
Alignment explanation
Indices: 94012891--94012950 Score: 66
Period size: 22 Copynumber: 2.8 Consensus size: 21
94012881 ATACATGCAT
*
94012891 ATTTAATTATTTATATTTATTA
1 ATTTAATTAATTAT-TTTATTA
*
94012913 ATATAATTAATATATTTTATTA
1 ATTTAATTAAT-TATTTTATTA
* *
94012935 TTTTAATAAATTATTT
1 ATTTAATTAATTATTT
94012951 AATATTACAA
Statistics
Matches: 32, Mismatches: 5, Indels: 3
0.80 0.12 0.08
Matches are distributed among these distances:
21 5 0.16
22 24 0.75
23 3 0.09
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (21 bp):
ATTTAATTAATTATTTTATTA
Found at i:94013037 original size:27 final size:27
Alignment explanation
Indices: 94013005--94013058 Score: 74
Period size: 27 Copynumber: 2.0 Consensus size: 27
94012995 TTGAATTTTG
*
94013005 AATAATATATTATTGAA-AAATATTTAT
1 AATAATATATTAAT-AATAAATATTTAT
*
94013032 AATAATATTTTAATAATAAATATTTAT
1 AATAATATATTAATAATAAATATTTAT
94013059 TACAATTTAT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
26 2 0.08
27 22 0.92
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.46
Consensus pattern (27 bp):
AATAATATATTAATAATAAATATTTAT
Found at i:94013250 original size:28 final size:28
Alignment explanation
Indices: 94013218--94013278 Score: 74
Period size: 28 Copynumber: 2.2 Consensus size: 28
94013208 TGTAATTTAA
94013218 ATTAAGTTT-TA-ATTAAGTATTAT-TTATT
1 ATTAAGTTTATATATT--GTATTATATTA-T
94013246 ATTAAGTTTATATATTGTATTATATTAT
1 ATTAAGTTTATATATTGTATTATATTAT
94013274 ATTAA
1 ATTAA
94013279 TTATTACAAA
Statistics
Matches: 30, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
28 22 0.73
29 5 0.17
30 3 0.10
ACGTcount: A:0.38, C:0.00, G:0.07, T:0.56
Consensus pattern (28 bp):
ATTAAGTTTATATATTGTATTATATTAT
Found at i:94016347 original size:46 final size:47
Alignment explanation
Indices: 94016282--94016421 Score: 178
Period size: 46 Copynumber: 3.0 Consensus size: 47
94016272 TTATCTTTAA
* * * * *
94016282 CATGATGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTC-TGT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACTCATTTTCATAT
**
94016328 CATGTTGCCATGGTATCTTTCAACCATGGTCTTGTTCA-TTTCATAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACTCATTTTCATAT
* *
94016374 CACGTTGCCATGGTATCTTTCAACCATGGTCTTACACA-TTTCATAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACTCATTTTCATAT
94016420 CA
1 CA
94016422 GAGAGAACAC
Statistics
Matches: 82, Mismatches: 11, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
45 4 0.05
46 78 0.95
ACGTcount: A:0.21, C:0.24, G:0.14, T:0.41
Consensus pattern (47 bp):
CATGTTGCCATGGTATCTTTCAACCATGGTCTTACTCATTTTCATAT
Found at i:94019878 original size:42 final size:42
Alignment explanation
Indices: 94019819--94019947 Score: 204
Period size: 42 Copynumber: 3.0 Consensus size: 42
94019809 TAGGGTTAGT
*
94019819 TGAGATTTCATGTAAGACCATATCTGGGATATGGCATCGGTA
1 TGAGATTTCATGTAAGACCATATCTGGGATATGGCATTGGTA
* *
94019861 TGAGATTTCATGTAAGACCATAGCTGGGATATTGGCATTGATA
1 TGAGATTTCATGTAAGACCATATCTGGGATA-TGGCATTGGTA
**
94019904 TGAGATCCCATGTAAGACCATATCTGGGATATGGCATTGGTA
1 TGAGATTTCATGTAAGACCATATCTGGGATATGGCATTGGTA
94019946 TG
1 TG
94019948 GTACTATGTG
Statistics
Matches: 79, Mismatches: 7, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
42 42 0.53
43 37 0.47
ACGTcount: A:0.29, C:0.14, G:0.26, T:0.31
Consensus pattern (42 bp):
TGAGATTTCATGTAAGACCATATCTGGGATATGGCATTGGTA
Found at i:94019916 original size:43 final size:42
Alignment explanation
Indices: 94019827--94019947 Score: 188
Period size: 43 Copynumber: 2.9 Consensus size: 42
94019817 GTTGAGATTT
* **
94019827 CATGTAAGACCATATCTGGGATATGGCATCGGTATGAGATTT
1 CATGTAAGACCATATCTGGGATATGGCATTGGTATGAGATCC
* *
94019869 CATGTAAGACCATAGCTGGGATATTGGCATTGATATGAGATCC
1 CATGTAAGACCATATCTGGGATA-TGGCATTGGTATGAGATCC
94019912 CATGTAAGACCATATCTGGGATATGGCATTGGTATG
1 CATGTAAGACCATATCTGGGATATGGCATTGGTATG
94019948 GTACTATGTG
Statistics
Matches: 71, Mismatches: 7, Indels: 2
0.89 0.09 0.03
Matches are distributed among these distances:
42 34 0.48
43 37 0.52
ACGTcount: A:0.29, C:0.15, G:0.26, T:0.30
Consensus pattern (42 bp):
CATGTAAGACCATATCTGGGATATGGCATTGGTATGAGATCC
Found at i:94020141 original size:11 final size:11
Alignment explanation
Indices: 94020125--94020149 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
94020115 TCACTATGGG
94020125 GATGACCTTGT
1 GATGACCTTGT
94020136 GATGACCTTGT
1 GATGACCTTGT
94020147 GAT
1 GAT
94020150 TATTGGTTTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.20, C:0.16, G:0.28, T:0.36
Consensus pattern (11 bp):
GATGACCTTGT
Found at i:94022089 original size:23 final size:23
Alignment explanation
Indices: 94022007--94022093 Score: 92
Period size: 21 Copynumber: 4.0 Consensus size: 23
94021997 CCTGATCAGT
*
94022007 ATACGACACATAAAGTGCCT-AA
1 ATACGACACACAAAGTGCCTGAA
* *
94022029 A-ACGACACACGAGGTGCCTG--
1 ATACGACACACAAAGTGCCTGAA
* *
94022049 ATACGACACACGAGGTGCCTGAA
1 ATACGACACACAAAGTGCCTGAA
*
94022072 ATACGACACATAAAGTGCCTGA
1 ATACGACACACAAAGTGCCTGA
94022094 TCAGTAAAGC
Statistics
Matches: 55, Mismatches: 6, Indels: 7
0.81 0.09 0.10
Matches are distributed among these distances:
20 1 0.02
21 34 0.62
22 1 0.02
23 19 0.35
ACGTcount: A:0.38, C:0.25, G:0.22, T:0.15
Consensus pattern (23 bp):
ATACGACACACAAAGTGCCTGAA
Found at i:94026829 original size:3 final size:3
Alignment explanation
Indices: 94026821--94026849 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
94026811 TTTATCCCTT
94026821 TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
94026850 TCTATCATTT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:94027297 original size:26 final size:26
Alignment explanation
Indices: 94027260--94027343 Score: 150
Period size: 26 Copynumber: 3.2 Consensus size: 26
94027250 TGATACAAAT
* *
94027260 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTTCA
94027286 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
94027312 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
94027338 TGATAA
1 TGATAA
94027344 GAATTTCATG
Statistics
Matches: 56, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 56 1.00
ACGTcount: A:0.33, C:0.05, G:0.25, T:0.37
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTTCA
Found at i:94033075 original size:26 final size:26
Alignment explanation
Indices: 94033038--94033121 Score: 150
Period size: 26 Copynumber: 3.2 Consensus size: 26
94033028 TGATACAAAT
* *
94033038 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTTCA
94033064 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
94033090 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
94033116 TGATAA
1 TGATAA
94033122 GAATTTCATG
Statistics
Matches: 56, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 56 1.00
ACGTcount: A:0.33, C:0.05, G:0.25, T:0.37
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTTCA
Found at i:94035843 original size:20 final size:20
Alignment explanation
Indices: 94035814--94035851 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
94035804 TTAGCATGGC
94035814 ATTTTTCATTT-TTTATTTT
1 ATTTTTCATTTGTTTATTTT
94035833 ATTTGTTCATTTGTTTATT
1 ATTT-TTCATTTGTTTATT
94035852 CATTTATTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
19 4 0.24
20 7 0.41
21 6 0.35
ACGTcount: A:0.16, C:0.05, G:0.05, T:0.74
Consensus pattern (20 bp):
ATTTTTCATTTGTTTATTTT
Found at i:94035856 original size:20 final size:19
Alignment explanation
Indices: 94035813--94035856 Score: 54
Period size: 20 Copynumber: 2.3 Consensus size: 19
94035803 ATTAGCATGG
94035813 CATTTTTCATTTTTTATTT
1 CATTTTTCATTTTTTATTT
*
94035832 TATTTGTTCATTTGTTTA-TT
1 CATTT-TTCATTT-TTTATTT
94035852 CATTT
1 CATTT
94035857 ATTATGTTAA
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
19 4 0.19
20 13 0.62
21 4 0.19
ACGTcount: A:0.16, C:0.09, G:0.05, T:0.70
Consensus pattern (19 bp):
CATTTTTCATTTTTTATTT
Found at i:94036956 original size:20 final size:20
Alignment explanation
Indices: 94036933--94036991 Score: 63
Period size: 20 Copynumber: 3.1 Consensus size: 20
94036923 AAAATAAAAA
94036933 TAAAATATTAAATAATTTAT
1 TAAAATATTAAATAATTTAT
*
94036953 TAAAATAATAAAT-A--TAT
1 TAAAATATTAAATAATTTAT
*
94036970 TAATTATATT-AATAATTTAT
1 TAA-AATATTAAATAATTTAT
94036990 TA
1 TA
94036992 TATGACTAAA
Statistics
Matches: 32, Mismatches: 3, Indels: 8
0.74 0.07 0.19
Matches are distributed among these distances:
17 9 0.28
18 5 0.16
19 1 0.03
20 17 0.53
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (20 bp):
TAAAATATTAAATAATTTAT
Found at i:94045054 original size:24 final size:24
Alignment explanation
Indices: 94045026--94045192 Score: 253
Period size: 24 Copynumber: 7.0 Consensus size: 24
94045016 AGGAGTAGTT
94045026 GGACTGCCACCTCCATATGATGGG
1 GGACTGCCACCTCCATATGATGGG
*
94045050 GGACTGCCACCTCCGTATGATGGG
1 GGACTGCCACCTCCATATGATGGG
*
94045074 GGACTGCCACCTCCGTATGATGGG
1 GGACTGCCACCTCCATATGATGGG
*
94045098 GGACTGCCACCTCCGTATGATGGG
1 GGACTGCCACCTCCATATGATGGG
* *
94045122 GGACTGCCTCCTCCATACGATGGG
1 GGACTGCCACCTCCATATGATGGG
* *
94045146 GGACTGCCTCCTCCATACGATGGG
1 GGACTGCCACCTCCATATGATGGG
* *
94045170 GGACTACCACCTCCAGATGATGG
1 GGACTGCCACCTCCATATGATGG
94045193 TGGAGTACCA
Statistics
Matches: 135, Mismatches: 8, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
24 135 1.00
ACGTcount: A:0.19, C:0.31, G:0.31, T:0.20
Consensus pattern (24 bp):
GGACTGCCACCTCCATATGATGGG
Found at i:94066084 original size:16 final size:17
Alignment explanation
Indices: 94066048--94066094 Score: 62
Period size: 16 Copynumber: 2.9 Consensus size: 17
94066038 GTTTAGTTTA
94066048 CTGTAATGGAATA-AGG
1 CTGTAATGGAATAGAGG
94066064 CTGTAATGGAATAGA-G
1 CTGTAATGGAATAGAGG
* *
94066080 TTGTAATGAAATAGA
1 CTGTAATGGAATAGA
94066095 ACTATAATTA
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
16 27 0.96
17 1 0.04
ACGTcount: A:0.40, C:0.04, G:0.28, T:0.28
Consensus pattern (17 bp):
CTGTAATGGAATAGAGG
Found at i:94069361 original size:10 final size:10
Alignment explanation
Indices: 94069285--94069364 Score: 90
Period size: 10 Copynumber: 7.8 Consensus size: 10
94069275 TTAAATTCTA
94069285 AAAGATAAAT
1 AAAGATAAAT
94069295 ACAA-ATAAAT
1 A-AAGATAAAT
* *
94069305 AAAAATAATT
1 AAAGATAAAT
94069315 AAAGATAAAT
1 AAAGATAAAT
*
94069325 AAGGATAAAT
1 AAAGATAAAT
*
94069335 AAAGATAAAA
1 AAAGATAAAT
94069345 ACTAAGATAAAT
1 A--AAGATAAAT
94069357 AAAGATAA
1 AAAGATAA
94069365 GAGCTAAAAT
Statistics
Matches: 59, Mismatches: 7, Indels: 8
0.80 0.09 0.11
Matches are distributed among these distances:
9 2 0.03
10 46 0.78
11 2 0.03
12 9 0.15
ACGTcount: A:0.69, C:0.03, G:0.09, T:0.20
Consensus pattern (10 bp):
AAAGATAAAT
Found at i:94070000 original size:8 final size:8
Alignment explanation
Indices: 94069987--94070019 Score: 50
Period size: 8 Copynumber: 4.1 Consensus size: 8
94069977 AATACATCAT
94069987 TTTTTTTC
1 TTTTTTTC
94069995 -TTTTTTC
1 TTTTTTTC
94070002 TTTTTTCTC
1 TTTTTT-TC
94070011 TTTTTTTC
1 TTTTTTTC
94070019 T
1 T
94070020 CCTCTTTTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
7 7 0.30
8 8 0.35
9 8 0.35
ACGTcount: A:0.00, C:0.15, G:0.00, T:0.85
Consensus pattern (8 bp):
TTTTTTTC
Found at i:94071694 original size:26 final size:25
Alignment explanation
Indices: 94071665--94071744 Score: 74
Period size: 26 Copynumber: 3.1 Consensus size: 25
94071655 ACTCTTTTAC
*
94071665 ATATTATCTATATTGAATTTTTATAT
1 ATATTATCTAT-TTTAATTTTTATAT
* *
94071691 ATATTGTTTATTTTTTTAATTTTTAT-T
1 ATATTATCTA---TTTTAATTTTTATAT
*
94071718 -TATTATCTATTTTAATTTTTTTAT
1 ATATTATCTATTTTAATTTTTATAT
94071742 ATA
1 ATA
94071745 ATGTTTGTAA
Statistics
Matches: 43, Mismatches: 6, Indels: 11
0.72 0.10 0.18
Matches are distributed among these distances:
23 12 0.28
24 1 0.02
25 2 0.05
26 15 0.35
27 1 0.02
28 11 0.26
29 1 0.02
ACGTcount: A:0.29, C:0.03, G:0.03, T:0.66
Consensus pattern (25 bp):
ATATTATCTATTTTAATTTTTATAT
Found at i:94072392 original size:2 final size:2
Alignment explanation
Indices: 94072385--94072410 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
94072375 AATTCATTCG
94072385 CA CA CA CA CA CA CA CA CA CA CA CA CA
1 CA CA CA CA CA CA CA CA CA CA CA CA CA
94072411 TATATATATA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.50, G:0.00, T:0.00
Consensus pattern (2 bp):
CA
Found at i:94072691 original size:39 final size:39
Alignment explanation
Indices: 94072668--94072772 Score: 183
Period size: 39 Copynumber: 2.7 Consensus size: 39
94072658 TCCCAGCACG
* *
94072668 TAGCCTGCGGACCTCAAGTCCGGATATATTTCTAGCATA
1 TAGCCTGCGGATCTCATGTCCGGATATATTTCTAGCATA
94072707 TAGCCTGCGGATCTCATGTCCGGATATATTTCTAGCATA
1 TAGCCTGCGGATCTCATGTCCGGATATATTTCTAGCATA
*
94072746 TAGCCTGCAGATCTCATGTCCGGATAT
1 TAGCCTGCGGATCTCATGTCCGGATAT
94072773 TTCCAATCTC
Statistics
Matches: 63, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
39 63 1.00
ACGTcount: A:0.24, C:0.25, G:0.21, T:0.30
Consensus pattern (39 bp):
TAGCCTGCGGATCTCATGTCCGGATATATTTCTAGCATA
Found at i:94075234 original size:25 final size:25
Alignment explanation
Indices: 94075204--94075348 Score: 139
Period size: 27 Copynumber: 5.5 Consensus size: 25
94075194 TTTTAAACTC
* **
94075204 TTTTTATATATCATTTGCTTTAAAA
1 TTTTTATATATTATTTATTTTAAAA
*
94075229 TTTTTATGTATTATTTATTTTAAATTA
1 TTTTTATATATTATTTATTTTAAA--A
* *
94075256 TTTTTACATATTATTTATTTTAAAT
1 TTTTTATATATTATTTATTTTAAAA
94075281 TTTTTCCCATATATTATTTATTTT-AAA
1 TTTTT---ATATATTATTTATTTTAAAA
* *
94075308 TCTTTGTGTATATTATTTATTTTAAAG
1 T-TTT-TATATATTATTTATTTTAAAA
94075335 TTTTATATATATTA
1 TTTT-TATATATTA
94075349 CTCGGTTTAA
Statistics
Matches: 99, Mismatches: 13, Indels: 15
0.78 0.10 0.12
Matches are distributed among these distances:
25 25 0.25
26 26 0.26
27 29 0.29
28 18 0.18
29 1 0.01
ACGTcount: A:0.30, C:0.05, G:0.03, T:0.61
Consensus pattern (25 bp):
TTTTTATATATTATTTATTTTAAAA
Found at i:94075260 original size:52 final size:53
Alignment explanation
Indices: 94075193--94075308 Score: 135
Period size: 52 Copynumber: 2.2 Consensus size: 53
94075183 CACAATGTTC
* * * * *
94075193 ATTTTAAACTCTTTTTATATATCATTTGCTTTAAAATTTTT-ATGTATTATTT
1 ATTTTAAATTATTTTTACATATCATTTACTTTAAAATTTTTCATATATTATTT
* * *
94075245 ATTTTAAATTATTTTTACATATTATTTATTTTAAATTTTTTCCCATATATTATTT
1 ATTTTAAATTATTTTTACATATCATTTACTTTAAAATTTTT--CATATATTATTT
94075300 ATTTTAAAT
1 ATTTTAAAT
94075309 CTTTGTGTAT
Statistics
Matches: 53, Mismatches: 8, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
52 34 0.64
55 19 0.36
ACGTcount: A:0.31, C:0.07, G:0.02, T:0.60
Consensus pattern (53 bp):
ATTTTAAATTATTTTTACATATCATTTACTTTAAAATTTTTCATATATTATTT
Found at i:94075553 original size:27 final size:26
Alignment explanation
Indices: 94075205--94075564 Score: 175
Period size: 26 Copynumber: 13.5 Consensus size: 26
94075195 TTTAAACTCT
* ** *
94075205 TTTTATATATCATTTGCTTTAAAAT-
1 TTTTATATATTATTTATTTTAAATTG
* *
94075230 TTTTATGTATTATTTATTTTAAATTAT
1 TTTTATATATTATTTATTTTAAATT-G
*
94075257 TTTTACATATTATTTATTTTAAATT-
1 TTTTATATATTATTTATTTTAAATTG
94075282 TTTTCCCATATATTATTTATTTTAAATCT-
1 TTTT---ATATATTATTTATTTTAAAT-TG
* *
94075311 TTGTGTATATTATTTATTTTAAAGTT-
1 TTTTATATATTATTTATTTTAAA-TTG
* * *** *
94075337 TTATATATATTACTCGGTTTAAATTA
1 TTTTATATATTATTTATTTTAAATTG
* * *
94075363 TTTTATATGTTGTTTACTTTAAATT-
1 TTTTATATATTATTTATTTTAAATTG
* *
94075388 TCTTT-TACATTA-TTATTTTTAAAACTG
1 T-TTTATATATTATTTA-TTTT-AAATTG
* * *
94075415 TTTTATAT-TTTTTTATGTT--ATGTA
1 TTTTATATATTATTTATTTTAAAT-TG
* * *
94075439 TTTTAAAT-TTATTTTTTTTACATATTATT
1 TTTTATATATTATTTATTTTA-A-A-T-TG
* *
94075468 TAGTTTAAACTTTTATATGTCATTTTAAATTG
1 T--TTTATA-TATTAT-T-T-ATTTTAAATTG
* *
94075500 TTTTATAAATTAGTTATTTTAAATTG
1 TTTTATATATTATTTATTTTAAATTG
94075526 TTTTATATATTATTTTATTTTAAATTG
1 TTTTATATATTA-TTTATTTTAAATTG
*
94075553 TTTTACATATTA
1 TTTTATATATTA
94075565 AATTTTTTAT
Statistics
Matches: 259, Mismatches: 48, Indels: 54
0.72 0.13 0.15
Matches are distributed among these distances:
23 1 0.00
24 19 0.07
25 34 0.13
26 91 0.35
27 55 0.21
28 21 0.08
29 10 0.04
30 5 0.02
31 6 0.02
32 3 0.01
33 5 0.02
34 2 0.01
35 2 0.01
36 5 0.02
ACGTcount: A:0.29, C:0.05, G:0.05, T:0.61
Consensus pattern (26 bp):
TTTTATATATTATTTATTTTAAATTG
Found at i:94075578 original size:15 final size:16
Alignment explanation
Indices: 94075513--94075579 Score: 58
Period size: 15 Copynumber: 4.6 Consensus size: 16
94075503 TATAAATTAG
94075513 TTATT-TTAAATTGTT
1 TTATTATTAAATTGTT
*
94075528 TTA-TA-T--ATTATT
1 TTATTATTAAATTGTT
94075540 TTATT-TTAAATTGTT
1 TTATTATTAAATTGTT
*
94075555 TTACATATTAAATT-TT
1 TTA-TTATTAAATTGTT
94075571 TTATTATTA
1 TTATTATTA
94075580 TTTACTTAAA
Statistics
Matches: 41, Mismatches: 4, Indels: 14
0.69 0.07 0.24
Matches are distributed among these distances:
12 8 0.20
13 2 0.05
14 2 0.05
15 16 0.39
16 6 0.15
17 7 0.17
ACGTcount: A:0.31, C:0.01, G:0.03, T:0.64
Consensus pattern (16 bp):
TTATTATTAAATTGTT
Found at i:94075668 original size:22 final size:25
Alignment explanation
Indices: 94075629--94075686 Score: 61
Period size: 22 Copynumber: 2.5 Consensus size: 25
94075619 GTTTTTTATG
* *
94075629 TATTATTT-GTTTAGAATT-GTCT-
1 TATTATTTATTTTAGAATTACTCTA
*
94075651 TATTATTTATTTTA-AATTACTTTA
1 TATTATTTATTTTAGAATTACTCTA
94075675 TATTATTTATTT
1 TATTATTTATTT
94075687 CATTTCTTTA
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
22 12 0.40
23 6 0.20
24 12 0.40
ACGTcount: A:0.28, C:0.03, G:0.05, T:0.64
Consensus pattern (25 bp):
TATTATTTATTTTAGAATTACTCTA
Found at i:94078179 original size:39 final size:39
Alignment explanation
Indices: 94078135--94078266 Score: 201
Period size: 39 Copynumber: 3.4 Consensus size: 39
94078125 TAATAATCTG
*
94078135 TTATTCAGTACAGTAATTTAGTCATTCAGTAACTATCAA
1 TTATTCAGTACAGTAATTTAGTTATTCAGTAACTATCAA
* ** * *
94078174 ATATTCAGTGTAGTAGTTTAGTTATTCAATAACTATCAA
1 TTATTCAGTACAGTAATTTAGTTATTCAGTAACTATCAA
*
94078213 TTATTCAATACAGTAATTTAGTTATTCAGTAACTATCAA
1 TTATTCAGTACAGTAATTTAGTTATTCAGTAACTATCAA
94078252 TTATTCAGTACAGTA
1 TTATTCAGTACAGTA
94078267 GTTGACCCTA
Statistics
Matches: 80, Mismatches: 13, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
39 80 1.00
ACGTcount: A:0.36, C:0.13, G:0.11, T:0.40
Consensus pattern (39 bp):
TTATTCAGTACAGTAATTTAGTTATTCAGTAACTATCAA
Found at i:94078218 original size:18 final size:18
Alignment explanation
Indices: 94078195--94078258 Score: 65
Period size: 18 Copynumber: 3.4 Consensus size: 18
94078185 AGTAGTTTAG
94078195 TTATTCAATAACTATCAA
1 TTATTCAATAACTATCAA
* * *
94078213 TTATTCAATACAGTAATTTAG
1 TTATTCAATA-ACT-A-TCAA
*
94078234 TTATTCAGTAACTATCAA
1 TTATTCAATAACTATCAA
94078252 TTATTCA
1 TTATTCA
94078259 GTACAGTAGT
Statistics
Matches: 36, Mismatches: 7, Indels: 6
0.73 0.14 0.12
Matches are distributed among these distances:
18 19 0.53
19 3 0.08
20 3 0.08
21 11 0.31
ACGTcount: A:0.39, C:0.14, G:0.05, T:0.42
Consensus pattern (18 bp):
TTATTCAATAACTATCAA
Found at i:94078259 original size:18 final size:18
Alignment explanation
Indices: 94078158--94078261 Score: 64
Period size: 18 Copynumber: 5.4 Consensus size: 18
94078148 TAATTTAGTC
*
94078158 ATTCAGTAACTATCAAAT
1 ATTCAGTAACTATCAATT
* * * *
94078176 ATTCAGTGTAGTAGTTTAGTT
1 ATTCAGT-AACTA--TCAATT
*
94078197 ATTCAATAACTATCAATT
1 ATTCAGTAACTATCAATT
* * * *
94078215 ATTCAATACAGTAATTTAGTT
1 ATTCAGTA-ACT-A-TCAATT
94078236 ATTCAGTAACTATCAATT
1 ATTCAGTAACTATCAATT
94078254 ATTCAGTA
1 ATTCAGTA
94078262 CAGTAGTTGA
Statistics
Matches: 63, Mismatches: 17, Indels: 12
0.68 0.18 0.13
Matches are distributed among these distances:
18 31 0.49
19 6 0.10
20 6 0.10
21 20 0.32
ACGTcount: A:0.38, C:0.12, G:0.10, T:0.40
Consensus pattern (18 bp):
ATTCAGTAACTATCAATT
Found at i:94078481 original size:44 final size:44
Alignment explanation
Indices: 94078413--94078504 Score: 139
Period size: 44 Copynumber: 2.1 Consensus size: 44
94078403 CCGAAGCAAC
*
94078413 AGTAATAGTACGACACACAAAGTGCCTCATCGACTCAAAGTCGA
1 AGTAACAGTACGACACACAAAGTGCCTCATCGACTCAAAGTCGA
** * *
94078457 AGTAACAGTACGACACTTATAGTGCCTCATCGACTCAAGGTCGA
1 AGTAACAGTACGACACACAAAGTGCCTCATCGACTCAAAGTCGA
94078501 AGTA
1 AGTA
94078505 TCCCTGAATA
Statistics
Matches: 43, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
44 43 1.00
ACGTcount: A:0.36, C:0.24, G:0.20, T:0.21
Consensus pattern (44 bp):
AGTAACAGTACGACACACAAAGTGCCTCATCGACTCAAAGTCGA
Found at i:94079308 original size:13 final size:13
Alignment explanation
Indices: 94079292--94079317 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
94079282 CTATTTCTCC
94079292 TTTTTCTTTCTTT
1 TTTTTCTTTCTTT
94079305 TTTTTCTTTCTTT
1 TTTTTCTTTCTTT
94079318 CTTCTTTCCC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.00, C:0.15, G:0.00, T:0.85
Consensus pattern (13 bp):
TTTTTCTTTCTTT
Found at i:94079814 original size:26 final size:23
Alignment explanation
Indices: 94079754--94079805 Score: 79
Period size: 22 Copynumber: 2.3 Consensus size: 23
94079744 AATCTTATAA
*
94079754 TATTATATAATTATAATAAATATC
1 TATT-TATAATAATAATAAATATC
94079778 TATTTA-AATAATAATAAATATC
1 TATTTATAATAATAATAAATATC
94079800 TATTTA
1 TATTTA
94079806 CTTTAATAAA
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
22 21 0.78
23 2 0.07
24 4 0.15
ACGTcount: A:0.50, C:0.04, G:0.00, T:0.46
Consensus pattern (23 bp):
TATTTATAATAATAATAAATATC
Found at i:94080552 original size:8 final size:7
Alignment explanation
Indices: 94080539--94080597 Score: 58
Period size: 6 Copynumber: 9.0 Consensus size: 7
94080529 ATCCAAACAA
94080539 AATAAAGT
1 AATAAA-T
94080547 AATAAAT
1 AATAAAT
94080554 AATAAAAT
1 AAT-AAAT
94080562 AAT-AA-
1 AATAAAT
94080567 AATAAA-
1 AATAAAT
94080573 AATAAAT
1 AATAAAT
94080580 AA-AAAT
1 AATAAAT
94080586 AA-AAAT
1 AATAAAT
94080592 AA-AAAT
1 AATAAAT
94080598 TGGGTTGCCT
Statistics
Matches: 48, Mismatches: 0, Indels: 8
0.86 0.00 0.14
Matches are distributed among these distances:
5 3 0.06
6 26 0.54
7 6 0.12
8 13 0.27
ACGTcount: A:0.76, C:0.00, G:0.02, T:0.22
Consensus pattern (7 bp):
AATAAAT
Found at i:94080580 original size:23 final size:20
Alignment explanation
Indices: 94080537--94080597 Score: 68
Period size: 22 Copynumber: 2.8 Consensus size: 20
94080527 ATATCCAAAC
*
94080537 AAAATAAAGTAATAAATAATAA
1 AAAATAAAATAA-AAATAAT-A
94080559 AATAATAAAATAAAAATAAATA
1 AA-AATAAAATAAAAAT-AATA
94080581 AAAATAAAAATAAAAAT
1 AAAAT-AAAATAAAAAT
94080598 TGGGTTGCCT
Statistics
Matches: 35, Mismatches: 1, Indels: 6
0.83 0.02 0.14
Matches are distributed among these distances:
21 3 0.09
22 20 0.57
23 12 0.34
ACGTcount: A:0.77, C:0.00, G:0.02, T:0.21
Consensus pattern (20 bp):
AAAATAAAATAAAAATAATA
Found at i:94080584 original size:16 final size:16
Alignment explanation
Indices: 94080537--94080594 Score: 66
Period size: 16 Copynumber: 3.5 Consensus size: 16
94080527 ATATCCAAAC
94080537 AAAATAAAGTAATAAATA
1 AAAATAAA-TAA-AAATA
94080555 ATAAA-ATAAT-AAAATA
1 A-AAATA-AATAAAAATA
94080571 AAAATAAATAAAAATA
1 AAAATAAATAAAAATA
94080587 AAAATAAA
1 AAAATAAA
94080595 AATTGGGTTG
Statistics
Matches: 36, Mismatches: 0, Indels: 10
0.78 0.00 0.22
Matches are distributed among these distances:
15 6 0.17
16 21 0.58
17 1 0.03
18 3 0.08
19 5 0.14
ACGTcount: A:0.78, C:0.00, G:0.02, T:0.21
Consensus pattern (16 bp):
AAAATAAATAAAAATA
Found at i:94084788 original size:23 final size:22
Alignment explanation
Indices: 94084685--94084792 Score: 123
Period size: 21 Copynumber: 5.0 Consensus size: 22
94084675 CCTGATCAGT
* *
94084685 ATACGACACATAAAGTGCCT-A
1 ATACGACACATGAGGTGCCTGA
*
94084706 AAACGACACATGAGGTGCCTG-
1 ATACGACACATGAGGTGCCTGA
*
94084727 ATACGACACACGAGGTGCCTG-
1 ATACGACACATGAGGTGCCTGA
*
94084748 ATACGACACACGAGGTGCCTGAA
1 ATACGACACATGAGGTGCCTG-A
* *
94084771 ATACGACACATAAAGTGCCTGA
1 ATACGACACATGAGGTGCCTGA
94084793 TCGATAAAGC
Statistics
Matches: 76, Mismatches: 8, Indels: 5
0.85 0.09 0.06
Matches are distributed among these distances:
21 57 0.75
22 1 0.01
23 18 0.24
ACGTcount: A:0.36, C:0.25, G:0.23, T:0.16
Consensus pattern (22 bp):
ATACGACACATGAGGTGCCTGA
Found at i:94084790 original size:44 final size:42
Alignment explanation
Indices: 94084685--94084793 Score: 146
Period size: 42 Copynumber: 2.5 Consensus size: 42
94084675 CCTGATCAGT
* * *
94084685 ATACGACACATAAAGTGCCTAAAACGACACATGAGGTGCCTG
1 ATACGACACATAAAGTGCCTGATACGACACACGAGGTGCCTG
** *
94084727 ATACGACACACGAGGTGCCTGATACGACACACGAGGTGCCTG
1 ATACGACACATAAAGTGCCTGATACGACACACGAGGTGCCTG
94084769 AAATACGACACATAAAGTGCCTGAT
1 --ATACGACACATAAAGTGCCTGAT
94084794 CGATAAAGCC
Statistics
Matches: 56, Mismatches: 9, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
42 36 0.64
44 20 0.36
ACGTcount: A:0.36, C:0.25, G:0.23, T:0.17
Consensus pattern (42 bp):
ATACGACACATAAAGTGCCTGATACGACACACGAGGTGCCTG
Found at i:94085189 original size:15 final size:15
Alignment explanation
Indices: 94085164--94085221 Score: 80
Period size: 15 Copynumber: 3.8 Consensus size: 15
94085154 TCATATATAT
94085164 TATATAATTCAATCAA
1 TATA-AATTCAATCAA
94085180 TATAAATTCAATCAA
1 TATAAATTCAATCAA
* * *
94085195 AATAATTTTAATCAA
1 TATAAATTCAATCAA
94085210 TATAAATTCAAT
1 TATAAATTCAAT
94085222 AAATTCATCG
Statistics
Matches: 36, Mismatches: 6, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
15 32 0.89
16 4 0.11
ACGTcount: A:0.52, C:0.10, G:0.00, T:0.38
Consensus pattern (15 bp):
TATAAATTCAATCAA
Found at i:94086500 original size:5 final size:5
Alignment explanation
Indices: 94086492--94086523 Score: 64
Period size: 5 Copynumber: 6.4 Consensus size: 5
94086482 TCTTTAGTTT
94086492 ATATA ATATA ATATA ATATA ATATA ATATA AT
1 ATATA ATATA ATATA ATATA ATATA ATATA AT
94086524 TAAAACATAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 27 1.00
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (5 bp):
ATATA
Found at i:94088836 original size:18 final size:17
Alignment explanation
Indices: 94088803--94088841 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 17
94088793 TTGTATAAAT
94088803 TGTGAATTATATTTGATA
1 TGTGAATTATATTTGA-A
94088821 TGTGAATTA-ATATTGAA
1 TGTGAATTATAT-TTGAA
94088838 TGTG
1 TGTG
94088842 GAAGGAAAGT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
17 7 0.35
18 13 0.65
ACGTcount: A:0.33, C:0.00, G:0.21, T:0.46
Consensus pattern (17 bp):
TGTGAATTATATTTGAA
Found at i:94089094 original size:23 final size:23
Alignment explanation
Indices: 94089067--94089164 Score: 162
Period size: 23 Copynumber: 4.3 Consensus size: 23
94089057 AGTGTTATTG
94089067 ATCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
* *
94089090 TTCAGTGGTAGCTTTGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
*
94089113 -CCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
94089135 ATCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
94089158 ATCAGTG
1 ATCAGTG
94089165 TGGCACTTAT
Statistics
Matches: 69, Mismatches: 5, Indels: 2
0.91 0.07 0.03
Matches are distributed among these distances:
22 20 0.29
23 49 0.71
ACGTcount: A:0.20, C:0.21, G:0.27, T:0.32
Consensus pattern (23 bp):
ATCAGTGGTAGCTTCGGCTACAT
Found at i:94089133 original size:45 final size:45
Alignment explanation
Indices: 94089069--94089157 Score: 160
Period size: 45 Copynumber: 2.0 Consensus size: 45
94089059 TGTTATTGAT
* *
94089069 CAGTGGTAGCTTCGGCTACATTTCAGTGGTAGCTTTGGCTACATC
1 CAGTGGTAGCTTCGGCTACATATCAGTGGTAGCTTCGGCTACATC
94089114 CAGTGGTAGCTTCGGCTACATATCAGTGGTAGCTTCGGCTACAT
1 CAGTGGTAGCTTCGGCTACATATCAGTGGTAGCTTCGGCTACAT
94089158 ATCAGTGTGG
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
45 42 1.00
ACGTcount: A:0.19, C:0.22, G:0.27, T:0.31
Consensus pattern (45 bp):
CAGTGGTAGCTTCGGCTACATATCAGTGGTAGCTTCGGCTACATC
Found at i:94091782 original size:14 final size:14
Alignment explanation
Indices: 94091763--94091792 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
94091753 GATTCCAGCC
94091763 TCCGGTTGCCTCGA
1 TCCGGTTGCCTCGA
94091777 TCCGGTTGCCTCGA
1 TCCGGTTGCCTCGA
94091791 TC
1 TC
94091793 TGCCTTGGAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.07, C:0.37, G:0.27, T:0.30
Consensus pattern (14 bp):
TCCGGTTGCCTCGA
Found at i:94092433 original size:10 final size:10
Alignment explanation
Indices: 94092406--94092463 Score: 73
Period size: 10 Copynumber: 5.8 Consensus size: 10
94092396 TTAAATTCTA
94092406 AAAGATAAAT
1 AAAGATAAAT
*
94092416 ACAA-ATAATT
1 A-AAGATAAAT
*
94092426 AAAGATAATT
1 AAAGATAAAT
94092436 AAAGATAAAT
1 AAAGATAAAT
*
94092446 AAGGATAAAT
1 AAAGATAAAT
94092456 AAAGATAA
1 AAAGATAA
94092464 GAGCTAAAAT
Statistics
Matches: 42, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
9 2 0.05
10 38 0.90
11 2 0.05
ACGTcount: A:0.66, C:0.02, G:0.10, T:0.22
Consensus pattern (10 bp):
AAAGATAAAT
Found at i:94092442 original size:30 final size:30
Alignment explanation
Indices: 94092406--94092463 Score: 82
Period size: 30 Copynumber: 1.9 Consensus size: 30
94092396 TTAAATTCTA
*
94092406 AAAGATAAATACA-AATAATTAAAGATAATT
1 AAAGATAAATA-AGAATAAATAAAGATAATT
*
94092436 AAAGATAAATAAGGATAAATAAAGATAA
1 AAAGATAAATAAGAATAAATAAAGATAA
94092464 GAGCTAAAAT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
29 1 0.04
30 24 0.96
ACGTcount: A:0.66, C:0.02, G:0.10, T:0.22
Consensus pattern (30 bp):
AAAGATAAATAAGAATAAATAAAGATAATT
Found at i:94101410 original size:11 final size:11
Alignment explanation
Indices: 94101389--94101422 Score: 52
Period size: 11 Copynumber: 3.2 Consensus size: 11
94101379 AAAATTATTA
94101389 TTTTA-AATTT
1 TTTTAGAATTT
94101399 TTTTAGAATTT
1 TTTTAGAATTT
*
94101410 TTTTAGAAATT
1 TTTTAGAATTT
94101421 TT
1 TT
94101423 AAAAATATAT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
10 5 0.23
11 17 0.77
ACGTcount: A:0.29, C:0.00, G:0.06, T:0.65
Consensus pattern (11 bp):
TTTTAGAATTT
Found at i:94101413 original size:12 final size:12
Alignment explanation
Indices: 94101393--94101422 Score: 53
Period size: 11 Copynumber: 2.6 Consensus size: 12
94101383 TTATTATTTT
94101393 AAATTTTTTTAG
1 AAATTTTTTTAG
94101405 -AATTTTTTTAG
1 AAATTTTTTTAG
94101416 AAATTTT
1 AAATTTT
94101423 AAAAATATAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
11 11 0.65
12 6 0.35
ACGTcount: A:0.33, C:0.00, G:0.07, T:0.60
Consensus pattern (12 bp):
AAATTTTTTTAG
Found at i:94102100 original size:21 final size:21
Alignment explanation
Indices: 94102052--94102100 Score: 53
Period size: 21 Copynumber: 2.3 Consensus size: 21
94102042 CTCTACTATT
* * *
94102052 TCCGCGTTGGTTTTGTCCAAC
1 TCCGCCTTGGTTCTGGCCAAC
* *
94102073 TCAGCCTTGGTTCTGGCCACC
1 TCCGCCTTGGTTCTGGCCAAC
94102094 TCCGCCT
1 TCCGCCT
94102101 GGAGTGCATT
Statistics
Matches: 22, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.08, C:0.37, G:0.22, T:0.33
Consensus pattern (21 bp):
TCCGCCTTGGTTCTGGCCAAC
Found at i:94109178 original size:120 final size:120
Alignment explanation
Indices: 94108965--94109209 Score: 490
Period size: 120 Copynumber: 2.0 Consensus size: 120
94108955 ATATATATTG
94108965 ATATTAGAAAGTAAATAAAACTGGCCTCAAATGAGAATCAAAGAGGAGTATAAAGCATTTATTTC
1 ATATTAGAAAGTAAATAAAACTGGCCTCAAATGAGAATCAAAGAGGAGTATAAAGCATTTATTTC
94109030 AAAAGATAGCATCCCAGAAAAAGAATGAAACTTAGATATTCCAAATAAAAAATAT
66 AAAAGATAGCATCCCAGAAAAAGAATGAAACTTAGATATTCCAAATAAAAAATAT
94109085 ATATTAGAAAGTAAATAAAACTGGCCTCAAATGAGAATCAAAGAGGAGTATAAAGCATTTATTTC
1 ATATTAGAAAGTAAATAAAACTGGCCTCAAATGAGAATCAAAGAGGAGTATAAAGCATTTATTTC
94109150 AAAAGATAGCATCCCAGAAAAAGAATGAAACTTAGATATTCCAAATAAAAAATAT
66 AAAAGATAGCATCCCAGAAAAAGAATGAAACTTAGATATTCCAAATAAAAAATAT
94109205 ATATT
1 ATATT
94109210 GCATTAAATT
Statistics
Matches: 125, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
120 125 1.00
ACGTcount: A:0.51, C:0.11, G:0.14, T:0.24
Consensus pattern (120 bp):
ATATTAGAAAGTAAATAAAACTGGCCTCAAATGAGAATCAAAGAGGAGTATAAAGCATTTATTTC
AAAAGATAGCATCCCAGAAAAAGAATGAAACTTAGATATTCCAAATAAAAAATAT
Found at i:94113651 original size:24 final size:24
Alignment explanation
Indices: 94113619--94113666 Score: 96
Period size: 24 Copynumber: 2.0 Consensus size: 24
94113609 GTAAAGTTAG
94113619 ATTGTACTAGCATGTTGCATGTTT
1 ATTGTACTAGCATGTTGCATGTTT
94113643 ATTGTACTAGCATGTTGCATGTTT
1 ATTGTACTAGCATGTTGCATGTTT
94113667 CATAACTTCA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.21, C:0.12, G:0.21, T:0.46
Consensus pattern (24 bp):
ATTGTACTAGCATGTTGCATGTTT
Found at i:94115203 original size:20 final size:19
Alignment explanation
Indices: 94115174--94115211 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 19
94115164 AAAATTATAC
94115174 TTTTTAAATTTTTAATAAAA
1 TTTTTAAATTTTT-ATAAAA
*
94115194 TTTTTGAATTTTTATAAA
1 TTTTTAAATTTTTATAAA
94115212 GAACATTTAG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 5 0.29
20 12 0.71
ACGTcount: A:0.39, C:0.00, G:0.03, T:0.58
Consensus pattern (19 bp):
TTTTTAAATTTTTATAAAA
Found at i:94116854 original size:48 final size:48
Alignment explanation
Indices: 94116798--94116895 Score: 187
Period size: 48 Copynumber: 2.0 Consensus size: 48
94116788 TCATCTGCTC
94116798 TTTATTTTTGGCATTTTTGGACAGTGAGTTACATGGTAAAGAATTTTT
1 TTTATTTTTGGCATTTTTGGACAGTGAGTTACATGGTAAAGAATTTTT
*
94116846 TTTATTTTTGGCGTTTTTGGACAGTGAGTTACATGGTAAAGAATTTTT
1 TTTATTTTTGGCATTTTTGGACAGTGAGTTACATGGTAAAGAATTTTT
94116894 TT
1 TT
94116896 AAGTTTACTT
Statistics
Matches: 49, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
48 49 1.00
ACGTcount: A:0.23, C:0.06, G:0.21, T:0.49
Consensus pattern (48 bp):
TTTATTTTTGGCATTTTTGGACAGTGAGTTACATGGTAAAGAATTTTT
Found at i:94118576 original size:3 final size:3
Alignment explanation
Indices: 94118568--94118592 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
94118558 TAGATCTTGT
94118568 TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA T
94118593 CTTGGAGGAG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:94121876 original size:89 final size:89
Alignment explanation
Indices: 94121707--94121876 Score: 245
Period size: 89 Copynumber: 1.9 Consensus size: 89
94121697 GTTATGGTTA
*
94121707 AACCACAAAAGTTGTAGGTTAATACACTGCCAGATGGTTGTGAATGCACAACAGATTTGCAGATA
1 AACCACAAAAGTTGTAGGTTAATACACTGCCAGATGGTTGTGAATACACAACAGATTTGCAGATA
* *
94121772 AAAGCTGTCAGATAATGGGTGGTG
66 AAAGCTGCCAAATAATGGGTGGTG
* * *
94121796 AACCACCAAAGTTGTAGGTTAATATGA-TGCCAGATGGTTGTGAATACACAAC-GTGTTTGCAGA
1 AACCACAAAAGTTGTAGGTTAATA-CACTGCCAGATGGTTGTGAATACACAACAG-ATTTGCAGA
*
94121859 TAAAAGTTGCCAAATAAT
64 TAAAAGCTGCCAAATAAT
94121877 CTGTGGATAA
Statistics
Matches: 72, Mismatches: 7, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
88 1 0.01
89 70 0.97
90 1 0.01
ACGTcount: A:0.36, C:0.15, G:0.24, T:0.26
Consensus pattern (89 bp):
AACCACAAAAGTTGTAGGTTAATACACTGCCAGATGGTTGTGAATACACAACAGATTTGCAGATA
AAAGCTGCCAAATAATGGGTGGTG
Found at i:94124581 original size:26 final size:27
Alignment explanation
Indices: 94124550--94124628 Score: 99
Period size: 26 Copynumber: 3.0 Consensus size: 27
94124540 TATTATCCCT
*
94124550 ATTTTACCCCCAGTAAAATTTTA-AAG
1 ATTTTACCCCTAGTAAAATTTTAGAAG
*
94124576 ATTTTACCCCTAGTAAAA-TTTAGACG
1 ATTTTACCCCTAGTAAAATTTTAGAAG
* *
94124602 ATTTTGCCCCTGGTAAAATTTTGAGAA
1 ATTTTACCCCTAGTAAAATTTT-AGAA
94124629 AATATATTCA
Statistics
Matches: 45, Mismatches: 5, Indels: 4
0.83 0.09 0.07
Matches are distributed among these distances:
25 4 0.09
26 35 0.78
27 3 0.07
28 3 0.07
ACGTcount: A:0.34, C:0.18, G:0.13, T:0.35
Consensus pattern (27 bp):
ATTTTACCCCTAGTAAAATTTTAGAAG
Found at i:94124776 original size:6 final size:6
Alignment explanation
Indices: 94124765--94124810 Score: 74
Period size: 6 Copynumber: 7.7 Consensus size: 6
94124755 AGGATTGCAA
* *
94124765 ATTTCC ATTTCC ATTTTC ATTTCC ATTTTC ATTTCC ATTTCC ATTT
1 ATTTCC ATTTCC ATTTCC ATTTCC ATTTCC ATTTCC ATTTCC ATTT
94124811 TTGGAAACCT
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
6 36 1.00
ACGTcount: A:0.17, C:0.26, G:0.00, T:0.57
Consensus pattern (6 bp):
ATTTCC
Found at i:94129290 original size:21 final size:21
Alignment explanation
Indices: 94129266--94129307 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
94129256 GGTACCTGGT
94129266 AAAAGGTATTGATACTTTTTG
1 AAAAGGTATTGATACTTTTTG
*
94129287 AAAAGGTGTTGATACTTTTTG
1 AAAAGGTATTGATACTTTTTG
94129308 TAATTGACTG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.31, C:0.05, G:0.21, T:0.43
Consensus pattern (21 bp):
AAAAGGTATTGATACTTTTTG
Found at i:94129952 original size:17 final size:17
Alignment explanation
Indices: 94129932--94129966 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
94129922 CAATCACATA
94129932 GAATTTGCATTAGTGAT
1 GAATTTGCATTAGTGAT
94129949 GAATTTGCATTAGTGAT
1 GAATTTGCATTAGTGAT
94129966 G
1 G
94129967 TTCTTCTTGA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.29, C:0.06, G:0.26, T:0.40
Consensus pattern (17 bp):
GAATTTGCATTAGTGAT
Found at i:94137025 original size:23 final size:23
Alignment explanation
Indices: 94136999--94137070 Score: 98
Period size: 23 Copynumber: 3.3 Consensus size: 23
94136989 GTTAGTTAAG
94136999 TTATTTATCATTGTAGCTTAGGT
1 TTATTTATCATTGTAGCTTAGGT
* *
94137022 TTATTTA-CACT-TAG-TTAAG-
1 TTATTTATCATTGTAGCTTAGGT
94137041 TTATTTATCATTGTAGCTTAGGT
1 TTATTTATCATTGTAGCTTAGGT
94137064 TTATTTA
1 TTATTTA
94137071 CACTTTCAGT
Statistics
Matches: 41, Mismatches: 4, Indels: 8
0.77 0.08 0.15
Matches are distributed among these distances:
19 7 0.17
20 7 0.17
21 6 0.15
22 7 0.17
23 14 0.34
ACGTcount: A:0.25, C:0.08, G:0.14, T:0.53
Consensus pattern (23 bp):
TTATTTATCATTGTAGCTTAGGT
Found at i:94137036 original size:42 final size:42
Alignment explanation
Indices: 94136990--94137075 Score: 172
Period size: 42 Copynumber: 2.0 Consensus size: 42
94136980 ATTCTTAATG
94136990 TTAGTTAAGTTATTTATCATTGTAGCTTAGGTTTATTTACAC
1 TTAGTTAAGTTATTTATCATTGTAGCTTAGGTTTATTTACAC
94137032 TTAGTTAAGTTATTTATCATTGTAGCTTAGGTTTATTTACAC
1 TTAGTTAAGTTATTTATCATTGTAGCTTAGGTTTATTTACAC
94137074 TT
1 TT
94137076 TCAGTCCCTA
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
42 44 1.00
ACGTcount: A:0.26, C:0.09, G:0.14, T:0.51
Consensus pattern (42 bp):
TTAGTTAAGTTATTTATCATTGTAGCTTAGGTTTATTTACAC
Found at i:94137044 original size:19 final size:22
Alignment explanation
Indices: 94136990--94137075 Score: 76
Period size: 22 Copynumber: 4.1 Consensus size: 22
94136980 ATTCTTAATG
*
94136990 TTAG-TTAAG-TTATTTATCAT
1 TTAGCTTAAGTTTATTTATCAC
*
94137010 TGTAGCTTAGGTTTATTTA-CAC
1 T-TAGCTTAAGTTTATTTATCAC
*
94137032 TTAG-TTAAG-TTATTTATCAT
1 TTAGCTTAAGTTTATTTATCAC
*
94137052 TGTAGCTTAGGTTTATTTA-CAC
1 T-TAGCTTAAGTTTATTTATCAC
94137074 TT
1 TT
94137076 TCAGTCCCTA
Statistics
Matches: 53, Mismatches: 6, Indels: 13
0.74 0.08 0.18
Matches are distributed among these distances:
19 7 0.13
20 8 0.15
21 10 0.19
22 14 0.26
23 14 0.26
ACGTcount: A:0.26, C:0.09, G:0.14, T:0.51
Consensus pattern (22 bp):
TTAGCTTAAGTTTATTTATCAC
Found at i:94138463 original size:24 final size:24
Alignment explanation
Indices: 94138436--94138483 Score: 96
Period size: 24 Copynumber: 2.0 Consensus size: 24
94138426 CCAAATATGG
94138436 TCATTCCAAACATGCATCAATTTA
1 TCATTCCAAACATGCATCAATTTA
94138460 TCATTCCAAACATGCATCAATTTA
1 TCATTCCAAACATGCATCAATTTA
94138484 ACCATACTAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.38, C:0.25, G:0.04, T:0.33
Consensus pattern (24 bp):
TCATTCCAAACATGCATCAATTTA
Found at i:94138495 original size:24 final size:24
Alignment explanation
Indices: 94138437--94138496 Score: 68
Period size: 24 Copynumber: 2.5 Consensus size: 24
94138427 CAAATATGGT
* *
94138437 CATTCCAAACATGCATCAATTTAT
1 CATTACAAACATGCATCAATTTAC
*
94138461 CATTCCAAACATGCATCAATTTAAC
1 CATTACAAACATGCATCAATTT-AC
*
94138486 CA-TACTAACAT
1 CATTACAAACAT
94138497 AAAAAACAAG
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
24 29 0.91
25 3 0.09
ACGTcount: A:0.40, C:0.27, G:0.03, T:0.30
Consensus pattern (24 bp):
CATTACAAACATGCATCAATTTAC
Found at i:94139662 original size:33 final size:33
Alignment explanation
Indices: 94139566--94139682 Score: 137
Period size: 34 Copynumber: 3.5 Consensus size: 33
94139556 CATCGTCATG
* *
94139566 CCAACCAACACACCAGATGCTCA-CACTAGCCAAT
1 CCAACCAACACACCA-ATGCTCATCA-GAGCTAAT
** * *
94139600 CCCTCCAACACACTAAATGCTCATAAGAGCTAAT
1 CCAACCAACACAC-CAATGCTCATCAGAGCTAAT
*
94139634 CCAACCAACACACCAATACTCATCAGAGCTAAT
1 CCAACCAACACACCAATGCTCATCAGAGCTAAT
94139667 CCAACCAACACACCAA
1 CCAACCAACACACCAA
94139683 ACAAAGAGTA
Statistics
Matches: 70, Mismatches: 11, Indels: 5
0.81 0.13 0.06
Matches are distributed among these distances:
33 33 0.47
34 35 0.50
35 2 0.03
ACGTcount: A:0.41, C:0.38, G:0.07, T:0.14
Consensus pattern (33 bp):
CCAACCAACACACCAATGCTCATCAGAGCTAAT
Found at i:94142789 original size:6 final size:6
Alignment explanation
Indices: 94142778--94142826 Score: 64
Period size: 6 Copynumber: 8.2 Consensus size: 6
94142768 AACCAAACAG
* *
94142778 AAAGAA AAAGAA AAAGAA AAAGAA AAAGAA AGAA-AG AAAGAA AAGGAA
1 AAAGAA AAAGAA AAAGAA AAAGAA AAAGAA A-AAGAA AAAGAA AAAGAA
94142826 A
1 A
94142827 TAGGAAAGAA
Statistics
Matches: 38, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
5 2 0.05
6 34 0.89
7 2 0.05
ACGTcount: A:0.80, C:0.00, G:0.20, T:0.00
Consensus pattern (6 bp):
AAAGAA
Found at i:94143580 original size:13 final size:13
Alignment explanation
Indices: 94143562--94143586 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
94143552 ATTGAATTGG
94143562 TATATATATTGAA
1 TATATATATTGAA
94143575 TATATATATTGA
1 TATATATATTGA
94143587 TTATTTGAAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.44, C:0.00, G:0.08, T:0.48
Consensus pattern (13 bp):
TATATATATTGAA
Found at i:94149057 original size:14 final size:15
Alignment explanation
Indices: 94149017--94149058 Score: 50
Period size: 15 Copynumber: 2.8 Consensus size: 15
94149007 AATTTTATAA
*
94149017 TTTTTCAAATTGATT
1 TTTTTAAAATTGATT
*
94149032 TTTTATAGAATTG-TT
1 TTTT-TAAAATTGATT
94149047 TTTTTAAAATTG
1 TTTTTAAAATTG
94149059 GTATTATATA
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
14 7 0.30
15 10 0.43
16 6 0.26
ACGTcount: A:0.29, C:0.02, G:0.10, T:0.60
Consensus pattern (15 bp):
TTTTTAAAATTGATT
Found at i:94152188 original size:54 final size:54
Alignment explanation
Indices: 94152121--94152358 Score: 264
Period size: 54 Copynumber: 4.3 Consensus size: 54
94152111 GGTGCCAACT
* *
94152121 ATTAGAAGACCAGCACAAAAAAAATTTCCTAATATTTTTGTACTGGTGCCGACC
1 ATTAGAAGGCCAGCACAAAAAAAATTTCCTAATATTTTTGTACTGGTGCCGGCC
*
94152175 ATTAGAAGGCCAGCACAAAAAAAAATTCCTAATATTTTTGTACTGGTGCCGGCC
1 ATTAGAAGGCCAGCACAAAAAAAATTTCCTAATATTTTTGTACTGGTGCCGGCC
** ** * *
94152229 ATTAGAAAACCAGCACTCAAAAAATTT--TGAATTTTTTTTTACTACAGTGGTGCCGGCC
1 ATTAGAAGGCCAGCACAAAAAAAATTTCCT-AA--TATTTTT-GTAC--TGGTGCCGGCC
* * * * *
94152287 ATTAGAAGGTCAGCACCAAAAAAAAATTTCCTGATATTTTTGTACAGGTGTCGGTC
1 ATTAGAAGGCCAGCA-C-AAAAAAAATTTCCTAATATTTTTGTACTGGTGCCGGCC
94152343 ATTAGAAGGCCAGCAC
1 ATTAGAAGGCCAGCAC
94152359 CAAATTTTTT
Statistics
Matches: 152, Mismatches: 22, Indels: 19
0.79 0.11 0.10
Matches are distributed among these distances:
52 1 0.01
53 2 0.01
54 73 0.48
55 7 0.05
56 25 0.16
58 26 0.17
59 7 0.05
60 9 0.06
61 1 0.01
62 1 0.01
ACGTcount: A:0.35, C:0.19, G:0.18, T:0.28
Consensus pattern (54 bp):
ATTAGAAGGCCAGCACAAAAAAAATTTCCTAATATTTTTGTACTGGTGCCGGCC
Found at i:94152293 original size:166 final size:165
Alignment explanation
Indices: 94151999--94152358 Score: 431
Period size: 166 Copynumber: 2.2 Consensus size: 165
94151989 TTTTACTAGT
* *
94151999 CTGGTGCC-AGCCATTAGAAGGCCAGCACCAAAAAAAATTTTCCTGATACTTTTGCACTAGAGCC
1 CTGGTGCCGA-CCATTAGAAGGCCAGCA-CAAAAAAAATATTCCTAATACTTTTGCACTAGAGCC
* * ** *
94152063 GGTTGAAGACTAGCACCCAAAAAATTTTGAAATTTTTTTTACGAGTGTGGTGCCAACTATTAGAA
64 GGTTGAAAACCAGCACCCAAAAAATTTTGAAATTTTTTTTACGACAGTGGTGCCAACCATTAGAA
94152128 GACCAGCA-C-AAAAAAAATTTCCTAATATTTTTGTA
129 GACCAGCACCAAAAAAAAATTTCCTAATATTTTTGTA
* * * *
94152163 CTGGTGCCGACCATTAGAAGGCCAGCACAAAAAAAA-ATTCCTAATATTTTTGTACTGGTGCCGG
1 CTGGTGCCGACCATTAGAAGGCCAGCACAAAAAAAATATTCCTAATACTTTTGCACTAGAGCCGG
* * * **
94152227 CCATTAGAAAACCAGCACTCAAAAAATTTTGAATTTTTTTTTACTACAGTGGTGCCGGCCATTAG
66 ---TT-GAAAACCAGCACCCAAAAAATTTTGAAATTTTTTTTACGACAGTGGTGCCAACCATTAG
** *
94152292 AAGGTCAGCACCAAAAAAAAATTTCCTGATATTTTTGTA
127 AAGACCAGCACCAAAAAAAAATTTCCTAATATTTTTGTA
* * **
94152331 CAGGTGTCGGTCATTAGAAGGCCAGCAC
1 CTGGTGCCGACCATTAGAAGGCCAGCAC
94152359 CAAATTTTTT
Statistics
Matches: 166, Mismatches: 23, Indels: 10
0.83 0.12 0.05
Matches are distributed among these distances:
162 22 0.13
163 9 0.05
164 25 0.15
165 3 0.02
166 57 0.34
167 1 0.01
168 49 0.30
ACGTcount: A:0.34, C:0.20, G:0.18, T:0.28
Consensus pattern (165 bp):
CTGGTGCCGACCATTAGAAGGCCAGCACAAAAAAAATATTCCTAATACTTTTGCACTAGAGCCGG
TTGAAAACCAGCACCCAAAAAATTTTGAAATTTTTTTTACGACAGTGGTGCCAACCATTAGAAGA
CCAGCACCAAAAAAAAATTTCCTAATATTTTTGTA
Found at i:94153535 original size:29 final size:29
Alignment explanation
Indices: 94153502--94153569 Score: 136
Period size: 29 Copynumber: 2.3 Consensus size: 29
94153492 TATAAAAATG
94153502 TCACTAAATTATTAATTTTTCTGATTTAA
1 TCACTAAATTATTAATTTTTCTGATTTAA
94153531 TCACTAAATTATTAATTTTTCTGATTTAA
1 TCACTAAATTATTAATTTTTCTGATTTAA
94153560 TCACTAAATT
1 TCACTAAATT
94153570 GTTCGAGTTC
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 39 1.00
ACGTcount: A:0.35, C:0.12, G:0.03, T:0.50
Consensus pattern (29 bp):
TCACTAAATTATTAATTTTTCTGATTTAA
Found at i:94155216 original size:7 final size:8
Alignment explanation
Indices: 94155197--94155223 Score: 54
Period size: 8 Copynumber: 3.4 Consensus size: 8
94155187 TTAGTCTTTT
94155197 TTTTTTAC
1 TTTTTTAC
94155205 TTTTTTAC
1 TTTTTTAC
94155213 TTTTTTAC
1 TTTTTTAC
94155221 TTT
1 TTT
94155224 ACTTTTGTCT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 19 1.00
ACGTcount: A:0.11, C:0.11, G:0.00, T:0.78
Consensus pattern (8 bp):
TTTTTTAC
Found at i:94155243 original size:20 final size:19
Alignment explanation
Indices: 94155190--94155244 Score: 65
Period size: 20 Copynumber: 2.7 Consensus size: 19
94155180 TGCCATGTTA
*
94155190 GTCTTTTTTTTTTACTTTT
1 GTCTTTTTTCTTTACTTTT
*
94155209 TTACTTTTTTACTTTACTTTT
1 GT-CTTTTTT-CTTTACTTTT
94155230 GTCTTTTTCTCTTTA
1 GTCTTTTT-TCTTTA
94155245 TTTATTTTAT
Statistics
Matches: 30, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
19 1 0.03
20 18 0.60
21 11 0.37
ACGTcount: A:0.09, C:0.15, G:0.04, T:0.73
Consensus pattern (19 bp):
GTCTTTTTTCTTTACTTTT
Found at i:94155267 original size:17 final size:18
Alignment explanation
Indices: 94155241--94155278 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 18
94155231 TCTTTTTCTC
* *
94155241 TTTATTTATT-TTATTTA
1 TTTATCTATTATTATTAA
94155258 TTTATCTATTATTATTAA
1 TTTATCTATTATTATTAA
94155276 TTT
1 TTT
94155279 TAAAAATTTT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
17 9 0.50
18 9 0.50
ACGTcount: A:0.26, C:0.03, G:0.00, T:0.71
Consensus pattern (18 bp):
TTTATCTATTATTATTAA
Found at i:94155301 original size:23 final size:24
Alignment explanation
Indices: 94155275--94155326 Score: 61
Period size: 23 Copynumber: 2.2 Consensus size: 24
94155265 ATTATTATTA
*
94155275 ATTTTAAAAATTTTA-AAATATGT
1 ATTTTAAAAATTTTATAAATATAT
* * *
94155298 ATTTGAAATATTTTATTAATATAT
1 ATTTTAAAAATTTTATAAATATAT
94155322 ATTTT
1 ATTTT
94155327 GAAATTACTT
Statistics
Matches: 23, Mismatches: 5, Indels: 1
0.79 0.17 0.03
Matches are distributed among these distances:
23 13 0.57
24 10 0.43
ACGTcount: A:0.42, C:0.00, G:0.04, T:0.54
Consensus pattern (24 bp):
ATTTTAAAAATTTTATAAATATAT
Found at i:94155342 original size:26 final size:25
Alignment explanation
Indices: 94155285--94155343 Score: 66
Period size: 26 Copynumber: 2.3 Consensus size: 25
94155275 ATTTTAAAAA
*
94155285 TTTTAAAATATGTATTTGAAATATT
1 TTTTAAAATATATATTTGAAATATT
*
94155310 TTATTAATATATAT-TTTGAAATTACTT
1 TT-TTAAAATATATATTTGAAA-TA-TT
94155337 TTTTAAA
1 TTTTAAA
94155344 TTTTAAATAT
Statistics
Matches: 28, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
25 9 0.32
26 15 0.54
27 4 0.14
ACGTcount: A:0.39, C:0.02, G:0.05, T:0.54
Consensus pattern (25 bp):
TTTTAAAATATATATTTGAAATATT
Found at i:94155347 original size:21 final size:23
Alignment explanation
Indices: 94155320--94155376 Score: 75
Period size: 22 Copynumber: 2.6 Consensus size: 23
94155310 TTATTAATAT
*
94155320 ATATTTTGAA-ATTACTTTTTTA
1 ATATTTTAAATATTACTTTTTTA
*
94155342 A-ATTTTAAATATTATTTTTTTA
1 ATATTTTAAATATTACTTTTTTA
94155364 ATA-TTTAAATATT
1 ATATTTTAAATATT
94155377 TTAAACTTTC
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
21 7 0.23
22 23 0.74
23 1 0.03
ACGTcount: A:0.37, C:0.02, G:0.02, T:0.60
Consensus pattern (23 bp):
ATATTTTAAATATTACTTTTTTA
Found at i:94155459 original size:14 final size:15
Alignment explanation
Indices: 94155434--94155466 Score: 59
Period size: 14 Copynumber: 2.3 Consensus size: 15
94155424 TTAATTTGTT
94155434 TTATAATATTTTAAA
1 TTATAATATTTTAAA
94155449 TTATAAT-TTTTAAA
1 TTATAATATTTTAAA
94155463 TTAT
1 TTAT
94155467 TTTTAAAGAT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 11 0.61
15 7 0.39
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (15 bp):
TTATAATATTTTAAA
Found at i:94155711 original size:17 final size:17
Alignment explanation
Indices: 94155689--94155724 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
94155679 CATCTTTCAC
*
94155689 TTTTTTTTACTTATTTA
1 TTTTTTTTAATTATTTA
*
94155706 TTTTTTTTAATTTTTTA
1 TTTTTTTTAATTATTTA
94155723 TT
1 TT
94155725 ATCTTTTGTC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.17, C:0.03, G:0.00, T:0.81
Consensus pattern (17 bp):
TTTTTTTTAATTATTTA
Found at i:94155981 original size:12 final size:12
Alignment explanation
Indices: 94155966--94156018 Score: 51
Period size: 12 Copynumber: 4.6 Consensus size: 12
94155956 TAAAATTAAT
94155966 AATAAAAAATAA
1 AATAAAAAATAA
94155978 AATAAATAAAT-A
1 AATAAA-AAATAA
*
94155990 AAT-AAAGATAA
1 AATAAAAAATAA
94156001 AGA-AAAAAATAA
1 A-ATAAAAAATAA
94156013 AA-AAAA
1 AATAAAA
94156019 TGTCAGAGAA
Statistics
Matches: 35, Mismatches: 2, Indels: 9
0.76 0.04 0.20
Matches are distributed among these distances:
10 3 0.09
11 9 0.26
12 19 0.54
13 4 0.11
ACGTcount: A:0.81, C:0.00, G:0.04, T:0.15
Consensus pattern (12 bp):
AATAAAAAATAA
Found at i:94155989 original size:23 final size:22
Alignment explanation
Indices: 94155957--94156019 Score: 67
Period size: 23 Copynumber: 2.8 Consensus size: 22
94155947 CAAGTTTTTT
*
94155957 AAAATTAATAATAAAAAATAAA-
1 AAAATAAATAA-AAAAAATAAAG
*
94155979 ATAAATAAATAAATAAAGATAAAG
1 A-AAATAAATAAA-AAAAATAAAG
94156003 AAAA-AAATAAAAAAAAT
1 AAAATAAATAAAAAAAAT
94156020 GTCAGAGAAA
Statistics
Matches: 35, Mismatches: 3, Indels: 7
0.78 0.07 0.16
Matches are distributed among these distances:
21 5 0.14
22 9 0.26
23 20 0.57
24 1 0.03
ACGTcount: A:0.78, C:0.00, G:0.03, T:0.19
Consensus pattern (22 bp):
AAAATAAATAAAAAAAATAAAG
Found at i:94156010 original size:18 final size:17
Alignment explanation
Indices: 94155969--94156014 Score: 65
Period size: 18 Copynumber: 2.6 Consensus size: 17
94155959 AATTAATAAT
*
94155969 AAAAAATAAAATAAATA
1 AAAAAATAAAATAAAGA
*
94155986 AATAAATAAAGATAAAGA
1 AAAAAATAAA-ATAAAGA
94156004 AAAAAATAAAA
1 AAAAAATAAAA
94156015 AAAATGTCAG
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
17 10 0.40
18 15 0.60
ACGTcount: A:0.80, C:0.00, G:0.04, T:0.15
Consensus pattern (17 bp):
AAAAAATAAAATAAAGA
Found at i:94156014 original size:8 final size:8
Alignment explanation
Indices: 94155969--94156017 Score: 53
Period size: 8 Copynumber: 5.8 Consensus size: 8
94155959 AATTAATAAT
94155969 AAAAAATA
1 AAAAAATA
94155977 AAATAAATA
1 AAA-AAATA
*
94155986 AATAAATA
1 AAAAAATA
*
94155994 AAGATAAAGA
1 AA-A-AAATA
94156004 AAAAAATA
1 AAAAAATA
94156012 AAAAAA
1 AAAAAA
94156018 ATGTCAGAGA
Statistics
Matches: 34, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
8 20 0.59
9 8 0.24
10 6 0.18
ACGTcount: A:0.82, C:0.00, G:0.04, T:0.14
Consensus pattern (8 bp):
AAAAAATA
Found at i:94156113 original size:22 final size:22
Alignment explanation
Indices: 94156064--94156118 Score: 60
Period size: 21 Copynumber: 2.6 Consensus size: 22
94156054 AAAAAACAAA
* **
94156064 TTTAAAAAAT-ATATTTAATGT
1 TTTAAAAAATAATATTCAAAAT
*
94156085 TTAAAAAAATAATATTCAAAAT
1 TTTAAAAAATAATATTCAAAAT
94156107 TTT-AAAAATAAT
1 TTTAAAAAATAAT
94156119 TTAAATAATA
Statistics
Matches: 28, Mismatches: 5, Indels: 2
0.80 0.14 0.06
Matches are distributed among these distances:
21 18 0.64
22 10 0.36
ACGTcount: A:0.56, C:0.02, G:0.02, T:0.40
Consensus pattern (22 bp):
TTTAAAAAATAATATTCAAAAT
Found at i:94156119 original size:12 final size:13
Alignment explanation
Indices: 94156104--94156140 Score: 53
Period size: 12 Copynumber: 3.1 Consensus size: 13
94156094 TAATATTCAA
94156104 AATTTTAAA-AAT
1 AATTTTAAATAAT
94156116 AA-TTTAAATAAT
1 AATTTTAAATAAT
94156128 AA-TTTAAATAAT
1 AATTTTAAATAAT
94156140 A
1 A
94156141 TTTAAAATTT
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
11 6 0.25
12 18 0.75
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (13 bp):
AATTTTAAATAAT
Found at i:94156549 original size:31 final size:31
Alignment explanation
Indices: 94156514--94156670 Score: 108
Period size: 31 Copynumber: 4.8 Consensus size: 31
94156504 TTGAATATCT
*
94156514 TTAAA-AATAATTTAAAATATTATAAATTAAA
1 TTAAATAAT-ATTTAAAATATTATAAAATAAA
*
94156545 TTAAATAATATTTAAATTATTATAAAATAAA
1 TTAAATAATATTTAAAATATTATAAAATAAA
*
94156576 -TAAATTTGAATGTTTAAAATATT-TAAATATTAAA
1 TTAAA--T-AATATTTAAAATATTATAAA-A-TAAA
* * *
94156610 -AAAATAATATTTAAAAT-TTAAAAAAGTAAT
1 TTAAATAATATTTAAAATATTATAAAA-TAAA
*
94156640 TTCAAAATATATATTAATAAAATATTTTAAA
1 TT--AAATA-ATATT--TAAAATATTATAAA
94156671 TATATATTTT
Statistics
Matches: 100, Mismatches: 12, Indels: 22
0.75 0.09 0.16
Matches are distributed among these distances:
30 10 0.10
31 39 0.39
32 9 0.09
33 19 0.19
34 12 0.12
36 6 0.06
37 5 0.05
ACGTcount: A:0.57, C:0.01, G:0.02, T:0.40
Consensus pattern (31 bp):
TTAAATAATATTTAAAATATTATAAAATAAA
Found at i:94156572 original size:22 final size:22
Alignment explanation
Indices: 94156529--94156574 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 22
94156519 AATAATTTAA
*
94156529 AATATTATAAATTAAATTAAAT
1 AATATTATAAATTAAATAAAAT
*
94156551 AATATT-TAAATTATTATAAAAT
1 AATATTATAAATTA-AATAAAAT
94156573 AA
1 AA
94156575 ATAAATTTGA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
21 7 0.33
22 14 0.67
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (22 bp):
AATATTATAAATTAAATAAAAT
Found at i:94156620 original size:22 final size:22
Alignment explanation
Indices: 94156593--94156647 Score: 69
Period size: 22 Copynumber: 2.5 Consensus size: 22
94156583 GAATGTTTAA
94156593 AATATTT-AAATATTAAAAAAAT
1 AATATTTAAAAT-TTAAAAAAAT
*
94156615 AATATTTAAAATTTAAAAAAGT
1 AATATTTAAAATTTAAAAAAAT
*
94156637 AAT-TTCAAAAT
1 AATATTTAAAAT
94156648 ATATATTAAT
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
21 7 0.23
22 19 0.63
23 4 0.13
ACGTcount: A:0.60, C:0.02, G:0.02, T:0.36
Consensus pattern (22 bp):
AATATTTAAAATTTAAAAAAAT
Found at i:94156684 original size:22 final size:23
Alignment explanation
Indices: 94156644--94156692 Score: 64
Period size: 22 Copynumber: 2.1 Consensus size: 23
94156634 AGTAATTTCA
94156644 AAATATATATTAATAAAATATTTT
1 AAATATATATT-ATAAAATATTTT
* *
94156668 AAATATATATT-TTAAATTTTTT
1 AAATATATATTATAAAATATTTT
94156690 AAA
1 AAA
94156693 GTTAATAATA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
22 12 0.52
24 11 0.48
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (23 bp):
AAATATATATTATAAAATATTTT
Found at i:94158676 original size:15 final size:16
Alignment explanation
Indices: 94158646--94158676 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
94158636 GTCTGTGAAG
94158646 CTATTTCATGAATGCT
1 CTATTTCATGAATGCT
94158662 CTATTTCAT-AATGCT
1 CTATTTCATGAATGCT
94158677 TGTTCGACCG
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 6 0.40
16 9 0.60
ACGTcount: A:0.26, C:0.19, G:0.10, T:0.45
Consensus pattern (16 bp):
CTATTTCATGAATGCT
Found at i:94160188 original size:31 final size:30
Alignment explanation
Indices: 94160137--94160205 Score: 77
Period size: 31 Copynumber: 2.3 Consensus size: 30
94160127 GATTAAATCA
* *
94160137 AAATTAAAATTTTAAATATATATTTA-AAC
1 AAATTAAAATTTCAAATATATAGTTACAAC
**
94160166 TATAATTAAAATTTCATGTATATAGTTACAAC
1 -A-AATTAAAATTTCAAATATATAGTTACAAC
94160198 AAATTAAA
1 AAATTAAA
94160206 TTGCGAAGCC
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
30 8 0.24
31 22 0.67
32 3 0.09
ACGTcount: A:0.52, C:0.06, G:0.03, T:0.39
Consensus pattern (30 bp):
AAATTAAAATTTCAAATATATAGTTACAAC
Found at i:94160653 original size:30 final size:32
Alignment explanation
Indices: 94160619--94160683 Score: 89
Period size: 30 Copynumber: 2.1 Consensus size: 32
94160609 ATGTCACATC
*
94160619 AATAAATAATTCAAAATTT-A-TAAAAATATA
1 AATAAATAAATCAAAATTTAATTAAAAATATA
*
94160649 AATAATTAAATCAAAATTTAAATTAAAAATATA
1 AATAAATAAATCAAAATTT-AATTAAAAATATA
94160682 AA
1 AA
94160684 AAAGTTCAAA
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
30 17 0.57
32 1 0.03
33 12 0.40
ACGTcount: A:0.65, C:0.03, G:0.00, T:0.32
Consensus pattern (32 bp):
AATAAATAAATCAAAATTTAATTAAAAATATA
Found at i:94166023 original size:49 final size:49
Alignment explanation
Indices: 94165912--94166023 Score: 120
Period size: 49 Copynumber: 2.3 Consensus size: 49
94165902 TTGGTACACT
* * * *
94165912 GATGGCCGGCACTAGAGATGTAAATTTTTTTTTTGGGTATTGATCGTGTA
1 GATGGCCGGCACCAGAGATGTAAA-TTTTTTTTTAGGTATTGACCATGTA
* * * *
94165962 -ATGGTCGACACCAGAGATGTTAAA-TTTTTTTTAGGTGTTGGCCATGTA
1 GATGGCCGGCACCAGAGATG-TAAATTTTTTTTTAGGTATTGACCATGTA
94166010 GATGGCCGGCACCA
1 GATGGCCGGCACCA
94166024 AGTACTTTTT
Statistics
Matches: 50, Mismatches: 10, Indels: 5
0.77 0.15 0.08
Matches are distributed among these distances:
48 19 0.38
49 27 0.54
50 4 0.08
ACGTcount: A:0.23, C:0.14, G:0.28, T:0.35
Consensus pattern (49 bp):
GATGGCCGGCACCAGAGATGTAAATTTTTTTTTAGGTATTGACCATGTA
Found at i:94167543 original size:6 final size:6
Alignment explanation
Indices: 94167498--94167553 Score: 53
Period size: 6 Copynumber: 9.5 Consensus size: 6
94167488 AAGAACTTTG
* * * *
94167498 TTTTT- TTTTTC TCTTTC TCTTTC ATTTTC ATTTTC ATTTTT- TTTTTC
1 TTTTTC TTTTTC TTTTTC TTTTTC TTTTTC TTTTTC -TTTTTC TTTTTC
94167545 TTTTTC TTT
1 TTTTTC TTT
94167554 CCCTCCAATC
Statistics
Matches: 44, Mismatches: 4, Indels: 5
0.83 0.08 0.09
Matches are distributed among these distances:
5 10 0.23
6 30 0.68
7 4 0.09
ACGTcount: A:0.05, C:0.16, G:0.00, T:0.79
Consensus pattern (6 bp):
TTTTTC
Found at i:94178292 original size:5 final size:5
Alignment explanation
Indices: 94178282--94178313 Score: 64
Period size: 5 Copynumber: 6.4 Consensus size: 5
94178272 AAAAAAATGC
94178282 AAAAG AAAAG AAAAG AAAAG AAAAG AAAAG AA
1 AAAAG AAAAG AAAAG AAAAG AAAAG AAAAG AA
94178314 TCAAAAGAAC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 27 1.00
ACGTcount: A:0.81, C:0.00, G:0.19, T:0.00
Consensus pattern (5 bp):
AAAAG
Found at i:94178321 original size:14 final size:14
Alignment explanation
Indices: 94178287--94178330 Score: 52
Period size: 14 Copynumber: 3.1 Consensus size: 14
94178277 AATGCAAAAG
*
94178287 AAAAGAAAAGAAAAG
1 AAAAGAAAAG-AAAC
*
94178302 AAAAGAAAAGAATC
1 AAAAGAAAAGAAAC
*
94178316 AAAAGAACAGAAAC
1 AAAAGAAAAGAAAC
94178330 A
1 A
94178331 TGAAAAGTTG
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
14 15 0.60
15 10 0.40
ACGTcount: A:0.75, C:0.07, G:0.16, T:0.02
Consensus pattern (14 bp):
AAAAGAAAAGAAAC
Found at i:94184019 original size:18 final size:18
Alignment explanation
Indices: 94183986--94184036 Score: 59
Period size: 18 Copynumber: 2.8 Consensus size: 18
94183976 GTTTACATTT
*
94183986 AGTTCGTATTCATATAAG
1 AGTTCGCATTCATATAAG
94184004 -GTTCGCATTGCATATAAG
1 AGTTCGCATT-CATATAAG
* *
94184022 AGTTCACATACATAT
1 AGTTCGCATTCATAT
94184037 TTACCTTAAG
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
17 8 0.29
18 13 0.46
19 7 0.25
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.35
Consensus pattern (18 bp):
AGTTCGCATTCATATAAG
Found at i:94193183 original size:31 final size:31
Alignment explanation
Indices: 94193124--94193199 Score: 91
Period size: 31 Copynumber: 2.4 Consensus size: 31
94193114 ACACATATAT
*
94193124 ATATACTAAATAAAATAATAAAATAATAATAA
1 ATAT-CTAATTAAAATAATAAAATAATAATAA
* *
94193156 ATATCTTATTAAAAT-ATTAAATAAATAATAA
1 ATATCTAATTAAAATAATAAAAT-AATAATAA
*
94193187 TTATCTAATTAAA
1 ATATCTAATTAAA
94193200 TAACTATAAA
Statistics
Matches: 38, Mismatches: 5, Indels: 3
0.83 0.11 0.07
Matches are distributed among these distances:
30 6 0.16
31 28 0.74
32 4 0.11
ACGTcount: A:0.61, C:0.04, G:0.00, T:0.36
Consensus pattern (31 bp):
ATATCTAATTAAAATAATAAAATAATAATAA
Found at i:94193189 original size:23 final size:23
Alignment explanation
Indices: 94193130--94193189 Score: 56
Period size: 23 Copynumber: 2.7 Consensus size: 23
94193120 ATATATATAC
94193130 TAAAT-AA-AATAA-TAAAATAA
1 TAAATAAATAATAATTAAAATAA
* * *
94193150 T-AATAAATATCTTATTAAAATAT
1 TAAATAAATA-ATAATTAAAATAA
94193173 TAAATAAATAATAATTA
1 TAAATAAATAATAATTA
94193190 TCTAATTAAA
Statistics
Matches: 30, Mismatches: 5, Indels: 7
0.71 0.12 0.17
Matches are distributed among these distances:
19 3 0.10
20 3 0.10
21 1 0.03
22 2 0.07
23 13 0.43
24 8 0.27
ACGTcount: A:0.63, C:0.02, G:0.00, T:0.35
Consensus pattern (23 bp):
TAAATAAATAATAATTAAAATAA
Found at i:94196856 original size:42 final size:42
Alignment explanation
Indices: 94196805--94197052 Score: 399
Period size: 42 Copynumber: 5.9 Consensus size: 42
94196795 GTTTACAAAC
* *
94196805 AAAAACGCCGTTAAAGACCATGTTCTTTAGCGGCGCTTAGAA
1 AAAAACGCCGCTAAAGAACATGTTCTTTAGCGGCGCTTAGAA
*
94196847 AAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTAGAA
1 AAAAACGCCGCTAAAGAACATGTTCTTTAGCGGCGCTTAGAA
*
94196889 AAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTAGAA
1 AAAAACGCCGCTAAAGAACATGTTCTTTAGCGGCGCTTAGAA
*
94196931 AAAAACGCCGCTAAAGAACATGTTCTTTAGCGGCG-TTTGTAA
1 AAAAACGCCGCTAAAGAACATGTTCTTTAGCGGCGCTTAG-AA
* * *
94196973 AAAAATGCCACTAAAGACCATGTTCTTTAGCGGCGCTTAGAA
1 AAAAACGCCGCTAAAGAACATGTTCTTTAGCGGCGCTTAGAA
*
94197015 AAAAACGCCGCTAAAGAACATGTTCTTTAGTGGCGCTT
1 AAAAACGCCGCTAAAGAACATGTTCTTTAGCGGCGCTT
94197053 TTATACAAAA
Statistics
Matches: 192, Mismatches: 12, Indels: 4
0.92 0.06 0.02
Matches are distributed among these distances:
41 3 0.02
42 186 0.97
43 3 0.02
ACGTcount: A:0.33, C:0.21, G:0.21, T:0.25
Consensus pattern (42 bp):
AAAAACGCCGCTAAAGAACATGTTCTTTAGCGGCGCTTAGAA
Found at i:94197144 original size:14 final size:14
Alignment explanation
Indices: 94197121--94197154 Score: 59
Period size: 14 Copynumber: 2.4 Consensus size: 14
94197111 GCCCTCCTGT
*
94197121 AGCAAAATTTCAAA
1 AGCAACATTTCAAA
94197135 AGCAACATTTCAAA
1 AGCAACATTTCAAA
94197149 AGCAAC
1 AGCAAC
94197155 CAATAGCAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.53, C:0.21, G:0.09, T:0.18
Consensus pattern (14 bp):
AGCAACATTTCAAA
Found at i:94197446 original size:21 final size:21
Alignment explanation
Indices: 94197378--94197448 Score: 79
Period size: 21 Copynumber: 3.4 Consensus size: 21
94197368 TTTTGCTCTG
* *
94197378 CTCTGCTTCTCTTGCTGCAGC
1 CTCTGCTTCCCTCGCTGCAGC
* *
94197399 CTCCGCTTCCCTCGCTGCAGT
1 CTCTGCTTCCCTCGCTGCAGC
* * *
94197420 CGCTGCTTCCCTCGCTTCCGC
1 CTCTGCTTCCCTCGCTGCAGC
94197441 CTCTGCTT
1 CTCTGCTT
94197449 TAAGTTGTAG
Statistics
Matches: 40, Mismatches: 10, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
21 40 1.00
ACGTcount: A:0.03, C:0.45, G:0.18, T:0.34
Consensus pattern (21 bp):
CTCTGCTTCCCTCGCTGCAGC
Found at i:94198527 original size:230 final size:231
Alignment explanation
Indices: 94198196--94198704 Score: 772
Period size: 230 Copynumber: 2.2 Consensus size: 231
94198186 TAATGCAAAT
*** * **
94198196 TTGCGGCG-TTTA-ATAAAAGCGCCACTAAAACCAACTAAGTAAACGGCGTTGTTTTCCGTAACA
1 TTGCGGCGTTTTATATAAAA-CGCCACTAAATGTAA-TAAGAAAACGGCGTCATTTTCCGTAACA
* * *
94198259 CCATTTCGATTTTGCGGCGTTTATATATAAGCGCCACTAAATATAAGGTCAAACGCAGTCGTTTA
64 CCATTTCGAGTTTGCGACGTTTATATATAAACGCCACTAAATATAAGGTCAAACGCAGTCGTTTA
* *
94198324 AAGCAAACTCCTGTAATCTTTAAAATATATTTGCGGCGTTTTGGGTGTAACGCCACAAATATC-C
129 AAGCAAACTCCTGTAATCTTTAAAATATATTTGCGGCGTTTTGGGTGTAACGCCACAAATAACAA
* * * *
94198388 TTGAAAACGATGCCGTTTCTGTAACAAAGAAAACATAC
194 TGGAAAACGACGCCGTTCCCGTAACAAAGAAAACATAC
* *
94198426 TTGCGGCGTTTTATCTAAAACGCCACTAAATGTAATAAGAAAACGGCGTCATTTTTCGTAACACC
1 TTGCGGCGTTTTATATAAAACGCCACTAAATGTAATAAGAAAACGGCGTCATTTTCCGTAACACC
* *
94198491 ATTTCGAGTTTGCGACGTTTATATATAAATGCCACTAAATATAAGGTCAAACGCAGTCGTTTAAC
66 ATTTCGAGTTTGCGACGTTTATATATAAACGCCACTAAATATAAGGTCAAACGCAGTCGTTTAAA
* *
94198556 GCAAACTCGTGTAATCTTTAAAATATATTTGCGGCGTTTTGGGTGTAACGCCACTAATAACAATG
131 GCAAACTCCTGTAATCTTTAAAATATATTTGCGGCGTTTTGGGTGTAACGCCACAAATAACAATG
*
94198621 GAAAACGACGCCGTTCCCGTAACAAAGAAAACATAG
196 GAAAACGACGCCGTTCCCGTAACAAAGAAAACATAC
*
94198657 TTGCGGCGTTTTGTATAAAACGCCACTAAATGTAATAAGAAAACGGCG
1 TTGCGGCGTTTTATATAAAACGCCACTAAATGTAATAAGAAAACGGCG
94198705 CCGTTTTCTT
Statistics
Matches: 252, Mismatches: 24, Indels: 5
0.90 0.09 0.02
Matches are distributed among these distances:
230 152 0.60
231 95 0.38
232 5 0.02
ACGTcount: A:0.34, C:0.20, G:0.18, T:0.28
Consensus pattern (231 bp):
TTGCGGCGTTTTATATAAAACGCCACTAAATGTAATAAGAAAACGGCGTCATTTTCCGTAACACC
ATTTCGAGTTTGCGACGTTTATATATAAACGCCACTAAATATAAGGTCAAACGCAGTCGTTTAAA
GCAAACTCCTGTAATCTTTAAAATATATTTGCGGCGTTTTGGGTGTAACGCCACAAATAACAATG
GAAAACGACGCCGTTCCCGTAACAAAGAAAACATAC
Found at i:94199166 original size:7 final size:7
Alignment explanation
Indices: 94199156--94199192 Score: 56
Period size: 7 Copynumber: 5.3 Consensus size: 7
94199146 AACTCAAAAA
*
94199156 CCCAAAT
1 CCCAAAC
94199163 CCCAAAC
1 CCCAAAC
94199170 CCCAAAC
1 CCCAAAC
94199177 CCCAAAC
1 CCCAAAC
*
94199184 CACAAAC
1 CCCAAAC
94199191 CC
1 CC
94199193 TTACATCCGA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
7 27 1.00
ACGTcount: A:0.43, C:0.54, G:0.00, T:0.03
Consensus pattern (7 bp):
CCCAAAC
Found at i:94199512 original size:15 final size:16
Alignment explanation
Indices: 94199484--94199514 Score: 55
Period size: 15 Copynumber: 2.0 Consensus size: 16
94199474 CCCTAACACG
94199484 ACCCCTATAACCCTAA
1 ACCCCTATAACCCTAA
94199500 ACCCCTA-AACCCTAA
1 ACCCCTATAACCCTAA
94199515 GTCTTAAAGC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 8 0.53
16 7 0.47
ACGTcount: A:0.39, C:0.45, G:0.00, T:0.16
Consensus pattern (16 bp):
ACCCCTATAACCCTAA
Found at i:94199803 original size:18 final size:21
Alignment explanation
Indices: 94199780--94199828 Score: 59
Period size: 18 Copynumber: 2.5 Consensus size: 21
94199770 ATTAATCACG
94199780 ATATTAATTTG-GTG-TTT-T
1 ATATTAATTTGTGTGATTTAT
* *
94199798 ATATTACTTTGTTTGATTTAT
1 ATATTAATTTGTGTGATTTAT
94199819 ATATTAATTT
1 ATATTAATTT
94199829 AGTCGAACTA
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
18 10 0.40
19 2 0.08
20 3 0.12
21 10 0.40
ACGTcount: A:0.27, C:0.02, G:0.10, T:0.61
Consensus pattern (21 bp):
ATATTAATTTGTGTGATTTAT
Found at i:94200474 original size:40 final size:38
Alignment explanation
Indices: 94200380--94200478 Score: 101
Period size: 39 Copynumber: 2.5 Consensus size: 38
94200370 CGTCGTTGGC
* * *
94200380 CTTATTTTTTTGCGGCGCTTTTTGTGAATCGCCGCTAGTG
1 CTTA-TTTTTAGCGGCG-TTTTCGTGAATCGCCGCTAATG
* *
94200420 CTTATTATTAGCGGCGTTTTCGTTAATGCGCCGCTAATG
1 CTTATTTTTAGCGGCGTTTTCGTGAAT-CGCCGCTAATG
94200459 -TTCAATTTTTAGCGGCGTTT
1 CTT--ATTTTTAGCGGCGTTT
94200479 GTTGTCCAAA
Statistics
Matches: 50, Mismatches: 6, Indels: 6
0.81 0.10 0.10
Matches are distributed among these distances:
38 11 0.22
39 20 0.40
40 19 0.38
ACGTcount: A:0.14, C:0.19, G:0.23, T:0.43
Consensus pattern (38 bp):
CTTATTTTTAGCGGCGTTTTCGTGAATCGCCGCTAATG
Found at i:94200978 original size:17 final size:17
Alignment explanation
Indices: 94200927--94200980 Score: 51
Period size: 17 Copynumber: 3.2 Consensus size: 17
94200917 CGCTTGTTTT
*
94200927 ATAAAATTATT-ATTTAA
1 ATAAAATTATTGA-TAAA
*
94200944 ATAACAA-TATAG-TAAA
1 ATAA-AATTATTGATAAA
94200960 ATAAAATTATTGATAAA
1 ATAAAATTATTGATAAA
94200977 ATAA
1 ATAA
94200981 TATTTAAAAT
Statistics
Matches: 30, Mismatches: 3, Indels: 8
0.73 0.07 0.20
Matches are distributed among these distances:
15 2 0.07
16 11 0.37
17 15 0.50
18 2 0.07
ACGTcount: A:0.59, C:0.02, G:0.04, T:0.35
Consensus pattern (17 bp):
ATAAAATTATTGATAAA
Found at i:94201219 original size:23 final size:24
Alignment explanation
Indices: 94201174--94201224 Score: 70
Period size: 23 Copynumber: 2.2 Consensus size: 24
94201164 TATCTAATAC
*
94201174 TTTTTTTTAATTTTAGAAATAAAG
1 TTTTTTTTAATTCTAGAAATAAAG
94201198 TTTTTTTTAA-TCTA-AAAGTAAAG
1 TTTTTTTTAATTCTAGAAA-TAAAG
94201221 TTTT
1 TTTT
94201225 AAATAATTTA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
22 3 0.12
23 12 0.48
24 10 0.40
ACGTcount: A:0.35, C:0.02, G:0.08, T:0.55
Consensus pattern (24 bp):
TTTTTTTTAATTCTAGAAATAAAG
Found at i:94201455 original size:22 final size:22
Alignment explanation
Indices: 94201429--94201472 Score: 88
Period size: 22 Copynumber: 2.0 Consensus size: 22
94201419 AAAAAATCAG
94201429 TTTTGAGAGAAAAATATTTTAA
1 TTTTGAGAGAAAAATATTTTAA
94201451 TTTTGAGAGAAAAATATTTTAA
1 TTTTGAGAGAAAAATATTTTAA
94201473 CTATTATTAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.45, C:0.00, G:0.14, T:0.41
Consensus pattern (22 bp):
TTTTGAGAGAAAAATATTTTAA
Found at i:94201656 original size:22 final size:22
Alignment explanation
Indices: 94201630--94201695 Score: 73
Period size: 21 Copynumber: 3.0 Consensus size: 22
94201620 TGATAATTAA
94201630 ATAATATTTATTTATTTTTATG
1 ATAATATTTATTTATTTTTATG
*
94201652 ATAATA-TTATTTATCTTTATG
1 ATAATATTTATTTATTTTTATG
*
94201673 A-AAAATATTATATTATGTTTTAT
1 ATAATAT-TTAT-TTAT-TTTTAT
94201696 TTTCAAATTT
Statistics
Matches: 37, Mismatches: 3, Indels: 6
0.80 0.07 0.13
Matches are distributed among these distances:
20 3 0.08
21 15 0.41
22 10 0.27
23 4 0.11
24 5 0.14
ACGTcount: A:0.36, C:0.02, G:0.05, T:0.58
Consensus pattern (22 bp):
ATAATATTTATTTATTTTTATG
Found at i:94201695 original size:51 final size:52
Alignment explanation
Indices: 94201595--94201698 Score: 122
Period size: 51 Copynumber: 2.0 Consensus size: 52
94201585 GATATAAATA
* * *
94201595 TTATGATAAATAATATTTACCTTTATGATAATTAAATAATATTTATTTATTT
1 TTATGATAAATAATATTTACCTTTATGAAAAATAAATAATATGTATTTATTT
* * * *
94201647 TTATGAT-AATATTATTTATCTTTATGAAAAATATTATATTATGT-TTTATTT
1 TTATGATAAATAATATTTACCTTTATGAAAAATA-AATAATATGTATTTATTT
94201698 T
1 T
94201699 CAAATTTAAA
Statistics
Matches: 44, Mismatches: 7, Indels: 3
0.81 0.13 0.06
Matches are distributed among these distances:
51 30 0.68
52 14 0.32
ACGTcount: A:0.38, C:0.03, G:0.05, T:0.55
Consensus pattern (52 bp):
TTATGATAAATAATATTTACCTTTATGAAAAATAAATAATATGTATTTATTT
Found at i:94202067 original size:13 final size:14
Alignment explanation
Indices: 94202049--94202107 Score: 52
Period size: 14 Copynumber: 4.4 Consensus size: 14
94202039 TTATAACTTT
*
94202049 AAATT-AAATATTG
1 AAATTCAAATATTA
* *
94202062 AAATT-AATAAATTT
1 AAATTCAA-ATATTA
94202076 AAATTCAAATATTA
1 AAATTCAAATATTA
*
94202090 AAATTGAAA-ATTA
1 AAATTCAAATATTA
94202103 AAATT
1 AAATT
94202108 GTGTGATGGA
Statistics
Matches: 39, Mismatches: 5, Indels: 4
0.81 0.10 0.08
Matches are distributed among these distances:
13 16 0.41
14 21 0.54
15 2 0.05
ACGTcount: A:0.58, C:0.02, G:0.03, T:0.37
Consensus pattern (14 bp):
AAATTCAAATATTA
Done.