Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A07
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: 93829987
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 4250000 characters in sequence are not A, C, G, or T
File 282 of 295
Found at i:89583943 original size:21 final size:21
Alignment explanation
Indices: 89583919--89583974 Score: 60
Period size: 21 Copynumber: 2.7 Consensus size: 21
89583909 TTAGCTTGTC
*
89583919 TTATTTTTATTTTTGCCTTTA
1 TTATTTTTATTTTTGCCCTTA
* *
89583940 TTATTGTTATTTTATTCCCTTA
1 TTATTTTTATTTT-TGCCCTTA
*
89583962 TT-TGTTTATTTTT
1 TTATTTTTATTTTT
89583975 TTATGTACTA
Statistics
Matches: 29, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
20 1 0.03
21 20 0.69
22 8 0.28
ACGTcount: A:0.14, C:0.09, G:0.05, T:0.71
Consensus pattern (21 bp):
TTATTTTTATTTTTGCCCTTA
Found at i:89585882 original size:18 final size:18
Alignment explanation
Indices: 89585859--89585900 Score: 59
Period size: 18 Copynumber: 2.3 Consensus size: 18
89585849 TTCAAGGTGC
89585859 AATTAATTTAAAATT-TTT
1 AATTAA-TTAAAATTATTT
*
89585877 AATTAATTAAATTTATTT
1 AATTAATTAAAATTATTT
89585895 AATTAA
1 AATTAA
89585901 AAAACTATTT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 7 0.32
18 15 0.68
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (18 bp):
AATTAATTAAAATTATTT
Found at i:89588918 original size:15 final size:16
Alignment explanation
Indices: 89588888--89588931 Score: 54
Period size: 15 Copynumber: 2.8 Consensus size: 16
89588878 AAAATGTAAT
89588888 TTTATCATTTTAATAA
1 TTTATCATTTTAATAA
*
89588904 TTTAT-ATTTTTATAA
1 TTTATCATTTTAATAA
*
89588919 TTTTTTCATTTTA
1 -TTTATCATTTTA
89588932 TAAATTAGTA
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
15 9 0.39
16 9 0.39
17 5 0.22
ACGTcount: A:0.30, C:0.05, G:0.00, T:0.66
Consensus pattern (16 bp):
TTTATCATTTTAATAA
Found at i:89588930 original size:16 final size:16
Alignment explanation
Indices: 89588884--89588934 Score: 61
Period size: 16 Copynumber: 3.2 Consensus size: 16
89588874 GTAAAAAATG
89588884 TAATTTTATCATTTTAA
1 TAATTTTATCATTTT-A
89588901 TAA-TTTAT-ATTTTTA
1 TAATTTTATCA-TTTTA
*
89588916 TAATTTTTTCATTTTA
1 TAATTTTATCATTTTA
89588932 TAA
1 TAA
89588935 ATTAGTACAT
Statistics
Matches: 30, Mismatches: 1, Indels: 7
0.79 0.03 0.18
Matches are distributed among these distances:
15 5 0.17
16 21 0.70
17 4 0.13
ACGTcount: A:0.33, C:0.04, G:0.00, T:0.63
Consensus pattern (16 bp):
TAATTTTATCATTTTA
Found at i:89590098 original size:23 final size:23
Alignment explanation
Indices: 89590066--89590118 Score: 88
Period size: 23 Copynumber: 2.3 Consensus size: 23
89590056 TTAGTGGCTA
* *
89590066 GTATTTTGTGATGCCTTTTTGGC
1 GTATTCTGTGATGCCTTTGTGGC
89590089 GTATTCTGTGATGCCTTTGTGGC
1 GTATTCTGTGATGCCTTTGTGGC
89590112 GTATTCT
1 GTATTCT
89590119 ATGACATCTA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
23 28 1.00
ACGTcount: A:0.09, C:0.15, G:0.26, T:0.49
Consensus pattern (23 bp):
GTATTCTGTGATGCCTTTGTGGC
Found at i:89591076 original size:137 final size:137
Alignment explanation
Indices: 89590830--89591101 Score: 501
Period size: 137 Copynumber: 2.0 Consensus size: 137
89590820 TTGGCGTATA
89590830 TGTAAGTGCCTATATTAAATAAGCATCTGTCAAAGACTGAAAACAAATTCAGAATCTTTAAGTTG
1 TGTAAGTGCCTATATTAAATAAGCATCTGTCAAAGACTGAAAACAAATTCAGAATCTTTAAGTTG
*
89590895 TGGAAATCAACAGTAAACATTCAAAGGTAACTTGGATTGAAATTCACTAAGTCCGTTGAACTTAT
66 TGGAAATCAACAGTAAACATTCAAAGGTAACTTAGATTGAAATTCACTAAGTCCGTTGAACTTAT
89590960 TAGTGTT
131 TAGTGTT
*
89590967 TGTAAGTGCCTATATTAGAA-AAGTATCTGTCAAAGACTGAAAACAAATTCAGAATCTTTAAGTT
1 TGTAAGTGCCTATATTA-AATAAGCATCTGTCAAAGACTGAAAACAAATTCAGAATCTTTAAGTT
*
89591031 GTGGAAATCAACAGTAAACATTCAAAGGTAACTTAGATTGAAATTCACTAAGTTCGTTGAACTTA
65 GTGGAAATCAACAGTAAACATTCAAAGGTAACTTAGATTGAAATTCACTAAGTCCGTTGAACTTA
89591096 TTAGTG
130 TTAGTG
89591102 CCTGTTGTTA
Statistics
Matches: 131, Mismatches: 3, Indels: 2
0.96 0.02 0.01
Matches are distributed among these distances:
137 129 0.98
138 2 0.02
ACGTcount: A:0.39, C:0.13, G:0.17, T:0.31
Consensus pattern (137 bp):
TGTAAGTGCCTATATTAAATAAGCATCTGTCAAAGACTGAAAACAAATTCAGAATCTTTAAGTTG
TGGAAATCAACAGTAAACATTCAAAGGTAACTTAGATTGAAATTCACTAAGTCCGTTGAACTTAT
TAGTGTT
Found at i:89591611 original size:18 final size:19
Alignment explanation
Indices: 89591574--89591621 Score: 71
Period size: 18 Copynumber: 2.5 Consensus size: 19
89591564 CGAGTTGATC
89591574 CAAATAACTTGATAATTAACT
1 CAAATAACTTG--AATTAACT
89591595 CAAATAACTTG-ATTAACT
1 CAAATAACTTGAATTAACT
89591613 CAAATAACT
1 CAAATAACT
89591622 CAAACTATTT
Statistics
Matches: 27, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
18 16 0.59
21 11 0.41
ACGTcount: A:0.48, C:0.17, G:0.04, T:0.31
Consensus pattern (19 bp):
CAAATAACTTGAATTAACT
Found at i:89594509 original size:40 final size:40
Alignment explanation
Indices: 89594445--89594521 Score: 118
Period size: 40 Copynumber: 1.9 Consensus size: 40
89594435 GATGGGTACC
* *
89594445 TTATGGTGTGTAGGGTTGGATGGGTCGATTATATCCCCAT
1 TTATGGTGTGCAGGGATGGATGGGTCGATTATATCCCCAT
* *
89594485 TTATGGTGTGCAGGGATGGGTGGGTCGATTTTATCCC
1 TTATGGTGTGCAGGGATGGATGGGTCGATTATATCCC
89594522 AACATGGTGT
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
40 33 1.00
ACGTcount: A:0.16, C:0.13, G:0.35, T:0.36
Consensus pattern (40 bp):
TTATGGTGTGCAGGGATGGATGGGTCGATTATATCCCCAT
Found at i:89599242 original size:5 final size:5
Alignment explanation
Indices: 89599232--89599262 Score: 62
Period size: 5 Copynumber: 6.2 Consensus size: 5
89599222 TCACTAGTTA
89599232 GGTTG GGTTG GGTTG GGTTG GGTTG GGTTG G
1 GGTTG GGTTG GGTTG GGTTG GGTTG GGTTG G
89599263 TGAGTAACAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 26 1.00
ACGTcount: A:0.00, C:0.00, G:0.61, T:0.39
Consensus pattern (5 bp):
GGTTG
Found at i:89605401 original size:14 final size:15
Alignment explanation
Indices: 89605382--89605438 Score: 53
Period size: 17 Copynumber: 3.5 Consensus size: 15
89605372 AATCTTTAAG
89605382 GATATG-CAATCTTA
1 GATATGACAATCTTA
89605396 GATATGATACAATCTTA
1 GATATG--ACAATCTTA
89605413 GATATGATATGCAATCTTA
1 GATATG--A--CAATCTTA
89605432 GATATGA
1 GATATGA
89605439 TATGCAATCT
Statistics
Matches: 38, Mismatches: 0, Indels: 7
0.84 0.00 0.16
Matches are distributed among these distances:
14 6 0.16
17 18 0.47
19 14 0.37
ACGTcount: A:0.39, C:0.11, G:0.16, T:0.35
Consensus pattern (15 bp):
GATATGACAATCTTA
Found at i:89605423 original size:36 final size:38
Alignment explanation
Indices: 89605382--89605460 Score: 126
Period size: 36 Copynumber: 2.1 Consensus size: 38
89605372 AATCTTTAAG
89605382 GATATGCAATCTTAGATATGATA-CAATCTT-AGATAT
1 GATATGCAATCTTAGATATGATAGCAATCTTAAGATAT
89605418 GATATGCAATCTTAGATATGATATGCAATCTTGAAGATAT
1 GATATGCAATCTTAGATATGATA-GCAATCTT-AAGATAT
89605458 GAT
1 GAT
89605461 CTTGTAATAA
Statistics
Matches: 39, Mismatches: 0, Indels: 4
0.91 0.00 0.09
Matches are distributed among these distances:
36 23 0.59
38 7 0.18
40 9 0.23
ACGTcount: A:0.38, C:0.10, G:0.16, T:0.35
Consensus pattern (38 bp):
GATATGCAATCTTAGATATGATAGCAATCTTAAGATAT
Found at i:89605429 original size:19 final size:19
Alignment explanation
Indices: 89605382--89605460 Score: 126
Period size: 19 Copynumber: 4.2 Consensus size: 19
89605372 AATCTTTAAG
89605382 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
89605401 GATA--CAATCTTAGATAT
1 GATATGCAATCTTAGATAT
89605418 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
89605437 GATATGCAATCTTGAAGATAT
1 GATATGCAATCTT--AGATAT
89605458 GAT
1 GAT
89605461 CTTGTAATAA
Statistics
Matches: 56, Mismatches: 0, Indels: 6
0.90 0.00 0.10
Matches are distributed among these distances:
17 17 0.30
19 30 0.54
21 9 0.16
ACGTcount: A:0.38, C:0.10, G:0.16, T:0.35
Consensus pattern (19 bp):
GATATGCAATCTTAGATAT
Found at i:89611431 original size:12 final size:12
Alignment explanation
Indices: 89611414--89611438 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
89611404 TTTGTGTGTG
89611414 TATATATATATT
1 TATATATATATT
89611426 TATATATATATT
1 TATATATATATT
89611438 T
1 T
89611439 GTGTAGCAAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (12 bp):
TATATATATATT
Found at i:89613078 original size:31 final size:31
Alignment explanation
Indices: 89613020--89613078 Score: 75
Period size: 31 Copynumber: 1.9 Consensus size: 31
89613010 GGTGCAATTA
* *
89613020 TATAAATGAAACTTTTATTGTGGTTCAAATG
1 TATAAATGAAACTTTCATTGTGATTCAAATG
*
89613051 TATACATGAAACTTTCATT-TCGATTCAA
1 TATAAATGAAACTTTCATTGT-GATTCAA
89613079 TCATACACAT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
30 1 0.04
31 23 0.96
ACGTcount: A:0.36, C:0.12, G:0.12, T:0.41
Consensus pattern (31 bp):
TATAAATGAAACTTTCATTGTGATTCAAATG
Found at i:89614354 original size:24 final size:24
Alignment explanation
Indices: 89614339--89614390 Score: 86
Period size: 24 Copynumber: 2.2 Consensus size: 24
89614329 AATCAATGTC
*
89614339 AAATATATTATGCTAATAAATGCT
1 AAATATATTATACTAATAAATGCT
*
89614363 AAATATATTATACTAATAAATACT
1 AAATATATTATACTAATAAATGCT
89614387 AAAT
1 AAAT
89614391 CTTCTAGAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.52, C:0.08, G:0.04, T:0.37
Consensus pattern (24 bp):
AAATATATTATACTAATAAATGCT
Found at i:89616906 original size:19 final size:19
Alignment explanation
Indices: 89616882--89616934 Score: 88
Period size: 19 Copynumber: 2.8 Consensus size: 19
89616872 AAATGAGAAT
89616882 CAGAATCAGAATCAGGTGA
1 CAGAATCAGAATCAGGTGA
*
89616901 CAGAATCAGAATTAGGTGA
1 CAGAATCAGAATCAGGTGA
*
89616920 CAGAATCAAAATCAG
1 CAGAATCAGAATCAG
89616935 TATCAGGTAA
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
19 31 1.00
ACGTcount: A:0.45, C:0.15, G:0.23, T:0.17
Consensus pattern (19 bp):
CAGAATCAGAATCAGGTGA
Found at i:89616908 original size:25 final size:25
Alignment explanation
Indices: 89616877--89616962 Score: 94
Period size: 25 Copynumber: 3.7 Consensus size: 25
89616867 AATCAAAATG
89616877 AGAATCAGAATCAGAATCAGGTGAC
1 AGAATCAGAATCAGAATCAGGTGAC
89616902 AGAATCAGAAT-----T-AGGTGAC
1 AGAATCAGAATCAGAATCAGGTGAC
* * *
89616921 AGAATCAAAATCAGTATCAGGTAAC
1 AGAATCAGAATCAGAATCAGGTGAC
*
89616946 AGAATCAGAACCAGAAT
1 AGAATCAGAATCAGAAT
89616963 GTGAATGCAA
Statistics
Matches: 50, Mismatches: 5, Indels: 12
0.75 0.07 0.18
Matches are distributed among these distances:
19 17 0.34
20 1 0.02
24 1 0.02
25 31 0.62
ACGTcount: A:0.47, C:0.15, G:0.21, T:0.17
Consensus pattern (25 bp):
AGAATCAGAATCAGAATCAGGTGAC
Found at i:89617117 original size:27 final size:26
Alignment explanation
Indices: 89617087--89617187 Score: 121
Period size: 27 Copynumber: 3.8 Consensus size: 26
89617077 CTACCATAAT
* *
89617087 AGATATTGTGACAGAGTCACCAGATAC
1 AGATATTGTGGCAGAGCCACCAGA-AC
89617114 AGATATTGTGGCAGAGCCACCAGAAC
1 AGATATTGTGGCAGAGCCACCAGAAC
* *
89617140 AGATATTTGTGGCATAGCCACCAGAAAT
1 AGATA-TTGTGGCAGAGCCACCAG-AAC
* *
89617168 AGATAATGTGGCAAAGCCAC
1 AGATATTGTGGCAGAGCCAC
89617188 TTAACAGAAT
Statistics
Matches: 66, Mismatches: 6, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
26 7 0.11
27 52 0.79
28 7 0.11
ACGTcount: A:0.37, C:0.20, G:0.24, T:0.20
Consensus pattern (26 bp):
AGATATTGTGGCAGAGCCACCAGAAC
Found at i:89617374 original size:22 final size:22
Alignment explanation
Indices: 89617346--89617410 Score: 78
Period size: 22 Copynumber: 3.0 Consensus size: 22
89617336 GCAAATACGT
*
89617346 TTGGCACACAGCCATAATCAGG
1 TTGGCACAAAGCCATAATCAGG
* *
89617368 TTGGCACAGAGCCAT-ATGTAGG
1 TTGGCACAAAGCCATAAT-CAGG
*
89617390 TTGGCGCAAAGCCATAATCAG
1 TTGGCACAAAGCCATAATCAG
89617411 AATAATTGGC
Statistics
Matches: 36, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
21 2 0.06
22 32 0.89
23 2 0.06
ACGTcount: A:0.31, C:0.23, G:0.26, T:0.20
Consensus pattern (22 bp):
TTGGCACAAAGCCATAATCAGG
Found at i:89617880 original size:27 final size:27
Alignment explanation
Indices: 89617850--89617976 Score: 173
Period size: 27 Copynumber: 4.7 Consensus size: 27
89617840 ATGGTAGTTT
* * * *
89617850 TACCCCACAAGGGTATCTAAGTAATTC
1 TACCCTACAGGGGTATTTCAGTAATTC
* *
89617877 TACCCTACAGGGGTATTTCGGTATTTC
1 TACCCTACAGGGGTATTTCAGTAATTC
* *
89617904 TACCCTACAAGGGTATTTCGGTAATTC
1 TACCCTACAGGGGTATTTCAGTAATTC
*
89617931 TACCTTACAGGGGTATTTCAGTAATTC
1 TACCCTACAGGGGTATTTCAGTAATTC
89617958 TACCCTACAGGGGTATTTC
1 TACCCTACAGGGGTATTTC
89617977 GATAATTTTG
Statistics
Matches: 88, Mismatches: 12, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 88 1.00
ACGTcount: A:0.25, C:0.23, G:0.19, T:0.33
Consensus pattern (27 bp):
TACCCTACAGGGGTATTTCAGTAATTC
Found at i:89617944 original size:54 final size:54
Alignment explanation
Indices: 89617842--89617983 Score: 187
Period size: 54 Copynumber: 2.6 Consensus size: 54
89617832 GGGGCAAAAT
* * **
89617842 GGTAGTTT-TACCCCACAAGGGTATCTAAGTAATTCTACCCTACAGGGGTATTTC
1 GGTA-TTTCTACCCTACAAGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTC
*
89617896 GGTATTTCTACCCTACAAGGGTATTTCGGTAATTCTACCTTACAGGGGTATTTC
1 GGTATTTCTACCCTACAAGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTC
* * * *
89617950 AGTAATTCTACCCTACAGGGGTATTTCGATAATT
1 GGTATTTCTACCCTACAAGGGTATTTCGGTAATT
89617984 TTGTAAATCG
Statistics
Matches: 78, Mismatches: 9, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
53 3 0.04
54 75 0.96
ACGTcount: A:0.25, C:0.20, G:0.20, T:0.35
Consensus pattern (54 bp):
GGTATTTCTACCCTACAAGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTC
Found at i:89617998 original size:27 final size:27
Alignment explanation
Indices: 89617968--89618071 Score: 70
Period size: 27 Copynumber: 3.9 Consensus size: 27
89617958 TACCCTACAG
89617968 GGGTATTTCGATAATTTTGTAAATCGA
1 GGGTATTTCGATAATTTTGTAAATCGA
*** *
89617995 GGGTAAAACGATAATTCTGTAAATC-A
1 GGGTATTTCGATAATTTTGTAAATCGA
* ** * *
89618021 GTGGTACTTT-GGTAATTTTACAAGTTGA
1 G-GGTA-TTTCGATAATTTTGTAAATCGA
*
89618049 GGGTATTTC-AGTAATTTGGTAAA
1 GGGTATTTCGA-TAATTTTGTAAA
89618072 CTAAAGTATT
Statistics
Matches: 54, Mismatches: 18, Indels: 10
0.66 0.22 0.12
Matches are distributed among these distances:
26 5 0.09
27 47 0.87
28 2 0.04
ACGTcount: A:0.32, C:0.08, G:0.23, T:0.38
Consensus pattern (27 bp):
GGGTATTTCGATAATTTTGTAAATCGA
Found at i:89622325 original size:255 final size:252
Alignment explanation
Indices: 89621846--89622353 Score: 867
Period size: 255 Copynumber: 2.0 Consensus size: 252
89621836 TAGTACCAGC
* * *
89621846 TACACTATCCAAATGCAACTTCAGTTAAAATTAATTTGCATCTGAAAGGCAACTTGACTTGACAT
1 TACACTATCCAAATGCAACATCAATTAAAATTAATTTGCATCTGAAAGGCAAATTGACTTGACAT
*
89621911 ATTTGATTAGCATTATTTGATCAATAAACCTAGACTCTTTAAGTACATTTGAGGATTTTAAGAAC
66 ATTTGATTAGCATTATTTGATCAATAAACCTAGACTCTTTAAGTACATTCGAGGATTTTAAGAAC
* *
89621976 ACTTTATTAAAGTTAAAACATGGAGAAAATCAAGTCAAAGAAGGATTTTTGAAGACTTTCAAATG
131 ACTTTATTAAAGTCAAAACATGGAGAAAATCAAGTCAAACAAGGATTTTTGAAGACTTTCAAATG
* *
89622041 TCATCCAGTTTCTTTAATTGAAGATATTTGTTTTCTAAAGAATATTGCACTGAGAAT
196 TCATCAAGTTTCTTTAATTGAAGATATTTGTTTTCTAAAGAATATTACACTGAGAAT
*
89622098 TACACTATCTAAATGCAACATCAATTAAAACTTAATTTGCATCT-AAATGG-AAATGTGACTTGA
1 TACACTATCCAAATGCAACATCAATTAAAA-TTAATTTGCATCTGAAA-GGCAAAT-TGACTTGA
*
89622161 CATATTTGATTAGCATTATTTGATCAATAAACCTAGACTCTTTAAGTATACCTTCGAGGATTTTA
63 CATATTTGATTAGCATTATTTGATCAATAAACCTAGACTCTTTAAG--TACATTCGAGGATTTTA
89622226 AGAACACTTTATTAAAGTCAAAACATGGAGAAAATCAAGTCAAACAAGGATTTTTGAAGACTTTC
126 AGAACACTTTATTAAAGTCAAAACATGGAGAAAATCAAGTCAAACAAGGATTTTTGAAGACTTTC
89622291 AAATGTCATCAAGTTTCTTTAATTGAAGATATTTGTTTTCTAAAGAATATTACACTGAGAAT
191 AAATGTCATCAAGTTTCTTTAATTGAAGATATTTGTTTTCTAAAGAATATTACACTGAGAAT
89622353 T
1 T
89622354 TTCTCTGTTA
Statistics
Matches: 241, Mismatches: 10, Indels: 7
0.93 0.04 0.03
Matches are distributed among these distances:
252 33 0.14
253 69 0.29
255 139 0.58
ACGTcount: A:0.38, C:0.14, G:0.14, T:0.35
Consensus pattern (252 bp):
TACACTATCCAAATGCAACATCAATTAAAATTAATTTGCATCTGAAAGGCAAATTGACTTGACAT
ATTTGATTAGCATTATTTGATCAATAAACCTAGACTCTTTAAGTACATTCGAGGATTTTAAGAAC
ACTTTATTAAAGTCAAAACATGGAGAAAATCAAGTCAAACAAGGATTTTTGAAGACTTTCAAATG
TCATCAAGTTTCTTTAATTGAAGATATTTGTTTTCTAAAGAATATTACACTGAGAAT
Found at i:89624111 original size:45 final size:45
Alignment explanation
Indices: 89624061--89624167 Score: 126
Period size: 45 Copynumber: 2.4 Consensus size: 45
89624051 GTAGCAGTAG
* * * *
89624061 CAGTAACAGTAACAGTATTCAACATACAAAGTG-CTGAATCTGTAA
1 CAGTAACGGTAACAGTAGTCAACACACAAAGTGTC-GAATCGGTAA
* * *
89624106 CAGTAATGGTAACAATAGTCGACACACAAAGTGTCGAATCGGTAA
1 CAGTAACGGTAACAGTAGTCAACACACAAAGTGTCGAATCGGTAA
*
89624151 TAGTAACGGTAACAGTA
1 CAGTAACGGTAACAGTA
89624168 ACAGTAGTCG
Statistics
Matches: 51, Mismatches: 10, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
45 50 0.98
46 1 0.02
ACGTcount: A:0.41, C:0.17, G:0.20, T:0.22
Consensus pattern (45 bp):
CAGTAACGGTAACAGTAGTCAACACACAAAGTGTCGAATCGGTAA
Found at i:89624811 original size:5 final size:5
Alignment explanation
Indices: 89624801--89624833 Score: 52
Period size: 5 Copynumber: 7.0 Consensus size: 5
89624791 TGTTTCTTCT
89624801 ATATA ATATA ATATA ATAT- A-ATA ATATA ATATA
1 ATATA ATATA ATATA ATATA ATATA ATATA ATATA
89624834 CTTAATTATT
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
3 2 0.08
4 2 0.08
5 22 0.85
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (5 bp):
ATATA
Found at i:89624826 original size:13 final size:13
Alignment explanation
Indices: 89624808--89624833 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
89624798 TCTATATAAT
89624808 ATAATATAATATA
1 ATAATATAATATA
89624821 ATAATATAATATA
1 ATAATATAATATA
89624834 CTTAATTATT
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:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (13 bp):
ATAATATAATATA
Found at i:89630928 original size:45 final size:45
Alignment explanation
Indices: 89630878--89630984 Score: 133
Period size: 45 Copynumber: 2.4 Consensus size: 45
89630868 GTAGTAATAG
** * * *
89630878 CAGTAACAATAACAGTATTCAACACATAAAGTGTTGAATCTGTAA
1 CAGTAACGGTAACAGTATTCAACACACAAAGTGTCGAATCGGTAA
* * * *
89630923 CAGTAATGGTAACAATATTCGATACACAAAGTGTCGAATCGGTAA
1 CAGTAACGGTAACAGTATTCAACACACAAAGTGTCGAATCGGTAA
89630968 CAGTAACGGTAACAGTA
1 CAGTAACGGTAACAGTA
89630985 ACAGTAGTCG
Statistics
Matches: 51, Mismatches: 11, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
45 51 1.00
ACGTcount: A:0.42, C:0.16, G:0.18, T:0.24
Consensus pattern (45 bp):
CAGTAACGGTAACAGTATTCAACACACAAAGTGTCGAATCGGTAA
Found at i:89630979 original size:12 final size:12
Alignment explanation
Indices: 89630962--89630986 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
89630952 AGTGTCGAAT
89630962 CGGTAACAGTAA
1 CGGTAACAGTAA
89630974 CGGTAACAGTAA
1 CGGTAACAGTAA
89630986 C
1 C
89630987 AGTAGTCGGC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.40, C:0.20, G:0.24, T:0.16
Consensus pattern (12 bp):
CGGTAACAGTAA
Found at i:89631360 original size:14 final size:14
Alignment explanation
Indices: 89631341--89631393 Score: 97
Period size: 14 Copynumber: 3.8 Consensus size: 14
89631331 TCAGTTCATT
*
89631341 AAATACGTACCTTA
1 AAATACTTACCTTA
89631355 AAATACTTACCTTA
1 AAATACTTACCTTA
89631369 AAATACTTACCTTA
1 AAATACTTACCTTA
89631383 AAATACTTACC
1 AAATACTTACC
89631394 ACACATTCAT
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
14 38 1.00
ACGTcount: A:0.43, C:0.23, G:0.02, T:0.32
Consensus pattern (14 bp):
AAATACTTACCTTA
Found at i:89631655 original size:5 final size:5
Alignment explanation
Indices: 89631645--89631692 Score: 96
Period size: 5 Copynumber: 9.6 Consensus size: 5
89631635 TGTTTCTTTT
89631645 ATATA ATATA ATATA ATATA ATATA ATATA ATATA ATATA ATATA ATA
1 ATATA ATATA ATATA ATATA ATATA ATATA ATATA ATATA ATATA ATA
89631693 ATATACTTAA
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 43 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (5 bp):
ATATA
Found at i:89637717 original size:18 final size:18
Alignment explanation
Indices: 89637694--89637731 Score: 76
Period size: 18 Copynumber: 2.1 Consensus size: 18
89637684 ATGATAACAT
89637694 ACGAAAGATAATAATCTA
1 ACGAAAGATAATAATCTA
89637712 ACGAAAGATAATAATCTA
1 ACGAAAGATAATAATCTA
89637730 AC
1 AC
89637732 TATTAACCAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.55, C:0.13, G:0.11, T:0.21
Consensus pattern (18 bp):
ACGAAAGATAATAATCTA
Found at i:89647039 original size:3 final size:3
Alignment explanation
Indices: 89647021--89647071 Score: 52
Period size: 3 Copynumber: 17.0 Consensus size: 3
89647011 TTAAATACTC
* *
89647021 TTA TTA TTT TTA -TA TTA TTAA TT- TTA TTA TTA TTA ATA TTA TTA
1 TTA TTA TTA TTA TTA TTA TT-A TTA TTA TTA TTA TTA TTA TTA TTA
89647065 TGTA TTA
1 T-TA TTA
89647072 GTTTATGTTT
Statistics
Matches: 40, Mismatches: 4, Indels: 8
0.77 0.08 0.15
Matches are distributed among these distances:
2 4 0.10
3 30 0.75
4 6 0.15
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.65
Consensus pattern (3 bp):
TTA
Found at i:89647051 original size:15 final size:15
Alignment explanation
Indices: 89647021--89647071 Score: 68
Period size: 15 Copynumber: 3.4 Consensus size: 15
89647011 TTAAATACTC
*
89647021 TTATTATTTTTA-TA
1 TTATTAATTTTATTA
89647035 TTATTAATTTTATTA
1 TTATTAATTTTATTA
*
89647050 TTATTAATATTATTA
1 TTATTAATTTTATTA
89647065 TGTATTA
1 T-TATTA
89647072 GTTTATGTTT
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
14 11 0.33
15 17 0.52
16 5 0.15
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.65
Consensus pattern (15 bp):
TTATTAATTTTATTA
Found at i:89650112 original size:20 final size:20
Alignment explanation
Indices: 89650083--89650136 Score: 63
Period size: 20 Copynumber: 2.7 Consensus size: 20
89650073 AGGGGCACAT
* * *
89650083 GCCCGCGTGGCTTGGGACAC
1 GCCCGTGTGGCCTGGAACAC
*
89650103 GCCCGTGTGGCCTGGAACAT
1 GCCCGTGTGGCCTGGAACAC
*
89650123 GCCAGTGTGGCCTG
1 GCCCGTGTGGCCTG
89650137 CCCATGGGTA
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.11, C:0.31, G:0.39, T:0.19
Consensus pattern (20 bp):
GCCCGTGTGGCCTGGAACAC
Found at i:89653843 original size:38 final size:38
Alignment explanation
Indices: 89653801--89653901 Score: 166
Period size: 38 Copynumber: 2.7 Consensus size: 38
89653791 TGTAATAGAA
**
89653801 CAATTCAACACTAGCAGTACTCATGCTTAACATGTATT
1 CAATTCAACACTAGCAGTAAACATGCTTAACATGTATT
89653839 CAATTCAACACTAGCAGTAAACATGCTTAACATGTATT
1 CAATTCAACACTAGCAGTAAACATGCTTAACATGTATT
* *
89653877 CAATTCAATACTAGCAATAAACATG
1 CAATTCAACACTAGCAGTAAACATG
89653902 TTCTATCATA
Statistics
Matches: 59, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
38 59 1.00
ACGTcount: A:0.40, C:0.22, G:0.10, T:0.29
Consensus pattern (38 bp):
CAATTCAACACTAGCAGTAAACATGCTTAACATGTATT
Found at i:89667520 original size:33 final size:33
Alignment explanation
Indices: 89667483--89667551 Score: 129
Period size: 33 Copynumber: 2.1 Consensus size: 33
89667473 ATATTGTAAA
*
89667483 AGATCGCATAGACTACTGAATGGAGTAGTCTAG
1 AGATCGCATAGACGACTGAATGGAGTAGTCTAG
89667516 AGATCGCATAGACGACTGAATGGAGTAGTCTAG
1 AGATCGCATAGACGACTGAATGGAGTAGTCTAG
89667549 AGA
1 AGA
89667552 CTATGTGACC
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 35 1.00
ACGTcount: A:0.35, C:0.14, G:0.29, T:0.22
Consensus pattern (33 bp):
AGATCGCATAGACGACTGAATGGAGTAGTCTAG
Found at i:89669893 original size:13 final size:13
Alignment explanation
Indices: 89669875--89669899 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
89669865 TAGATTGGAT
89669875 TTGATTATGTAAA
1 TTGATTATGTAAA
89669888 TTGATTATGTAA
1 TTGATTATGTAA
89669900 TCTTGTAAAT
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:0.36, C:0.00, G:0.16, T:0.48
Consensus pattern (13 bp):
TTGATTATGTAAA
Found at i:89670739 original size:18 final size:16
Alignment explanation
Indices: 89670716--89670752 Score: 56
Period size: 18 Copynumber: 2.2 Consensus size: 16
89670706 TAAGTTTATA
89670716 ATATATTATATTATATTT
1 ATATATTAT-TTA-ATTT
89670734 ATATATTATTTAATTT
1 ATATATTATTTAATTT
89670750 ATA
1 ATA
89670753 ACATAAAAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 7 0.37
17 3 0.16
18 9 0.47
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (16 bp):
ATATATTATTTAATTT
Found at i:89671297 original size:27 final size:27
Alignment explanation
Indices: 89671247--89671299 Score: 70
Period size: 27 Copynumber: 2.0 Consensus size: 27
89671237 CAAATATTAG
** *
89671247 TCAAAATAAATGCTGATTACAAATAAT
1 TCAAAATAAATGAAGAGTACAAATAAT
*
89671274 TCAAAATAAATGAAGAGTAGAAATAA
1 TCAAAATAAATGAAGAGTACAAATAA
89671300 CATTGTCTAA
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:0.57, C:0.08, G:0.11, T:0.25
Consensus pattern (27 bp):
TCAAAATAAATGAAGAGTACAAATAAT
Found at i:89674113 original size:351 final size:352
Alignment explanation
Indices: 89672844--89674240 Score: 2537
Period size: 352 Copynumber: 4.0 Consensus size: 352
89672834 TACCCTAATA
* *
89672844 GACTTTAGCATTCAGCATTTAAAAGGGTTGATCACTAATGTTGTTTCCTATTGCTGTAGCTATTT
1 GACTTTAGCATTCAGCATTTAAAAGGGTTGATCACTAATGTCGTTTCCTATTGCTGTAGCTAGTT
* *
89672909 TTGTTAATCAGACTCCATTAATTGTCAGAAACGGGTATACCTAAAGTTTTAACA--TA--T---A
66 TTGTTAATCAGACTCCATTAATTGTCGGAAACGGGTATATCTAAAGTTTTAACATGTACTTGGAA
*
89672967 --TCCTTGAAAGGACAAACTTTATACCATGTCCAACTAAAAAACTATATAAACTAGCTTAAAGAT
131 GGTCCTTGAAAGGAAAAACTTTATACCATGTCCAACTAAAAAACTATATAAACTAGCTTAAAGAT
* *
89673030 AGGTTAGCACCAATTTTTGCCATGCATCAACCAAGATTTCCAGCCTTAAGAATCTTTTGACATGG
196 AGGTTAGCACCAATTTTTGCCAAGCATCAACCAAGATTTCCAACCTTAAGAATCTTTTGACATGG
*
89673095 CACCTCAAATTGGACATAAATTGCTCCCCCCAAAGAAAAAGGCAAACAAATTTTAGTCTATGATG
261 CACCTC-AACTGGACATAAATTGCTCCCCCCAAAGAAAAAGGCAAACAAATTTTAGTCTATGATG
89673160 TTTCTCAACTAAACCTTATATAGGGATG
325 TTTCTCAACTAAACCTTATATAGGGATG
* *
89673188 GA-TTTAGCATTCAGCATTTAAAAGGGTTGATCACTAATGTCGTTTCCTACTGCCGTAGCTAGTT
1 GACTTTAGCATTCAGCATTTAAAAGGGTTGATCACTAATGTCGTTTCCTATTGCTGTAGCTAGTT
89673252 TTGTTAATCAGACTCCATTAATTGTCGGAAACGGGTATATCTAAAGTTTTAACATGTACTTGGAA
66 TTGTTAATCAGACTCCATTAATTGTCGGAAACGGGTATATCTAAAGTTTTAACATGTACTTGGAA
89673317 GGTCCTTGAAAGGAAAAACTTTATACCATGTCCAACTAAAAAACTATATAAACTAGCTTAAAGAT
131 GGTCCTTGAAAGGAAAAACTTTATACCATGTCCAACTAAAAAACTATATAAACTAGCTTAAAGAT
*
89673382 AGGTTAGCACCAATTTTTGCCATGCATCAACCAAGATTTCCAACCTTAAGAATCTTTTGACATGG
196 AGGTTAGCACCAATTTTTGCCAAGCATCAACCAAGATTTCCAACCTTAAGAATCTTTTGACATGG
89673447 CACCTCAACTGGACATAAATTGCTCCCCCCAAAGAAAAAGGCAAACAAATTTTAGTCTATGATGT
261 CACCTCAACTGGACATAAATTGCTCCCCCCAAAGAAAAAGGCAAACAAATTTTAGTCTATGATGT
89673512 TTCTCAACTAAACCTTATATAGGGATG
326 TTCTCAACTAAACCTTATATAGGGATG
*
89673539 GACTTTAGCATTCAGCATTTAAAAGGGTTGATCACTAGTGTCGTTTCCTATTGCTGTAGCTAGTT
1 GACTTTAGCATTCAGCATTTAAAAGGGTTGATCACTAATGTCGTTTCCTATTGCTGTAGCTAGTT
89673604 TTGTTAATCAGACTCCATTAATTGTCGGAAACGGGTATATCTAAAGTTTTAACATGTACTTGGAA
66 TTGTTAATCAGACTCCATTAATTGTCGGAAACGGGTATATCTAAAGTTTTAACATGTACTTGGAA
89673669 GGTCCTTGAAAGGAAAAACTTTATACCATGTCCAACTAAAAAACTATATAAACTAGCTTAAAGAT
131 GGTCCTTGAAAGGAAAAACTTTATACCATGTCCAACTAAAAAACTATATAAACTAGCTTAAAGAT
* *
89673734 AGGTTAGCACCAATTCTTGCTAAGCATCAACCAAGATTTCCAACCTTAAGAATCTTTTGACATGG
196 AGGTTAGCACCAATTTTTGCCAAGCATCAACCAAGATTTCCAACCTTAAGAATCTTTTGACATGG
89673799 CACCTCAACTGGACATAAATTGCTCCCCCCAAAGAAAAAGGCAAACAAATTTTAGTCTATGATGT
261 CACCTCAACTGGACATAAATTGCTCCCCCCAAAGAAAAAGGCAAACAAATTTTAGTCTATGATGT
89673864 TTCTCAACTAAACCTTATATAGGGATG
326 TTCTCAACTAAACCTTATATAGGGATG
89673891 GACTTTAGCATTCAGCATTTAAAAGGGTTGATCACTAATGTCG-TTCCTATTGCTGTAGCTAGTT
1 GACTTTAGCATTCAGCATTTAAAAGGGTTGATCACTAATGTCGTTTCCTATTGCTGTAGCTAGTT
89673955 TTGTTAATCAGACTCCATTAATTGTCGGAAACGGGTATATCTAAAGTTTTAACATGTACTTGGAA
66 TTGTTAATCAGACTCCATTAATTGTCGGAAACGGGTATATCTAAAGTTTTAACATGTACTTGGAA
*
89674020 GGTCCTTGAAAGGAAAAACTTTATAGCATGTCCAACTAAAAAACTATATAAACTAGCTTAAAGAT
131 GGTCCTTGAAAGGAAAAACTTTATACCATGTCCAACTAAAAAACTATATAAACTAGCTTAAAGAT
*
89674085 AGGTTAGCACCAATTTTTGCTAAGCATCAACCAAGATTTCCAACCTTAAGAATCTTTTGACATGG
196 AGGTTAGCACCAATTTTTGCCAAGCATCAACCAAGATTTCCAACCTTAAGAATCTTTTGACATGG
* *
89674150 CACCTCAACTGGACATAAATTGCTGCCCCCAAAGAAAAAGGCAAGCAAATTTTAGTCTATGATGT
261 CACCTCAACTGGACATAAATTGCTCCCCCCAAAGAAAAAGGCAAACAAATTTTAGTCTATGATGT
*
89674215 TTCTCAACTAAACGTTATATAGGGAT
326 TTCTCAACTAAACCTTATATAGGGAT
89674241 TGCCATGGAT
Statistics
Matches: 1022, Mismatches: 21, Indels: 13
0.97 0.02 0.01
Matches are distributed among these distances:
343 110 0.11
344 2 0.00
345 2 0.00
347 1 0.00
350 1 0.00
351 389 0.38
352 517 0.51
ACGTcount: A:0.34, C:0.19, G:0.16, T:0.31
Consensus pattern (352 bp):
GACTTTAGCATTCAGCATTTAAAAGGGTTGATCACTAATGTCGTTTCCTATTGCTGTAGCTAGTT
TTGTTAATCAGACTCCATTAATTGTCGGAAACGGGTATATCTAAAGTTTTAACATGTACTTGGAA
GGTCCTTGAAAGGAAAAACTTTATACCATGTCCAACTAAAAAACTATATAAACTAGCTTAAAGAT
AGGTTAGCACCAATTTTTGCCAAGCATCAACCAAGATTTCCAACCTTAAGAATCTTTTGACATGG
CACCTCAACTGGACATAAATTGCTCCCCCCAAAGAAAAAGGCAAACAAATTTTAGTCTATGATGT
TTCTCAACTAAACCTTATATAGGGATG
Found at i:89674181 original size:703 final size:695
Alignment explanation
Indices: 89672844--89674240 Score: 2519
Period size: 703 Copynumber: 2.0 Consensus size: 695
89672834 TACCCTAATA
* *
89672844 GACTTTAGCATTCAGCATTTAAAAGGGTTGATCACTAATGTTGTTTCCTATTGCTGTAGCTATTT
1 GACTTTAGCATTCAGCATTTAAAAGGGTTGATCACTAATGTCGTTTCCTATTGCTGTAGCTAGTT
89672909 TTGTTAATCAGACTCCATTAATTGTCAGAAACGGGTATACCTAAAGTTTTAACATATATCCTTGA
66 TTGTTAATCAGACTCCATTAATTGTCAGAAACGGGTATACCTAAAGTTTTAACATATATCCTTGA
*
89672974 AAGGACAAACTTTATACCATGTCCAACTAAAAAACTATATAAACTAGCTTAAAGATAGGTTAGCA
131 AAGGAAAAACTTTATACCATGTCCAACTAAAAAACTATATAAACTAGCTTAAAGATAGGTTAGCA
* * *
89673039 CCAATTTTTGCCATGCATCAACCAAGATTTCCAGCCTTAAGAATCTTTTGACATGGCACCTCAAA
196 CCAATTCTTGCCAAGCATCAACCAAGATTTCCAACCTTAAGAATCTTTTGACATGGCACCTCAAA
*
89673104 TTGGACATAAATTGCTCCCCCCAAAGAAAAAGGCAAACAAATTTTAGTCTATGATGTTTCTCAAC
261 CTGGACATAAATTGCTCCCCCCAAAGAAAAAGGCAAACAAATTTTAGTCTATGATGTTTCTCAAC
89673169 TAAACCTTATATAGGGATGGATTTAGCATTCAGCATTTAAAAGGGTTGATCACTAATGTCGTTTC
326 TAAACCTTATATAGGGATGGATTTAGCATTCAGCATTTAAAAGGGTTGATCACTAATGTCGTTTC
89673234 CTACTGCCGTAGCTAGTTTTGTTAATCAGACTCCATTAATTGTCGGAAACGGGTATATCTAAAGT
391 CTACTGCCGTAGCTAGTTTTGTTAATCAGACTCCATTAATTGTCGGAAACGGGTATATCTAAAGT
89673299 TTTAACATGTACTTGGAAGGTCCTTGAAAGGAAAAACTTTATACCATGTCCAACTAAAAAACTAT
456 TTTAACATGTACTTGGAAGGTCCTTGAAAGGAAAAACTTTATACCATGTCCAACTAAAAAACTAT
*
89673364 ATAAACTAGCTTAAAGATAGGTTAGCACCAATTTTTGCCATGCATCAACCAAGATTTCCAACCTT
521 ATAAACTAGCTTAAAGATAGGTTAGCACCAATTTTTGCCAAGCATCAACCAAGATTTCCAACCTT
89673429 AAGAATCTTTTGACATGGCACCTCAACTGGACATAAATTGCTCCCCCCAAAGAAAAAGGCAAACA
586 AAGAATCTTTTGACATGGCACCTCAACTGGACATAAATTGCTCCCCCCAAAGAAAAAGGCAAACA
89673494 AATTTTAGTCTATGATGTTTCTCAACTAAACCTTATATAGGGATG
651 AATTTTAGTCTATGATGTTTCTCAACTAAACCTTATATAGGGATG
*
89673539 GACTTTAGCATTCAGCATTTAAAAGGGTTGATCACTAGTGTCGTTTCCTATTGCTGTAGCTAGTT
1 GACTTTAGCATTCAGCATTTAAAAGGGTTGATCACTAATGTCGTTTCCTATTGCTGTAGCTAGTT
* *
89673604 TTGTTAATCAGACTCCATTAATTGTCGGAAACGGGTATATCTAAAGTTTTAACATGTACTTGGAA
66 TTGTTAATCAGACTCCATTAATTGTCAGAAACGGGTATACCTAAAGTTTTAACA--TA--T---A
89673669 GGTCCTTGAAAGGAAAAACTTTATACCATGTCCAACTAAAAAACTATATAAACTAGCTTAAAGAT
124 --TCCTTGAAAGGAAAAACTTTATACCATGTCCAACTAAAAAACTATATAAACTAGCTTAAAGAT
*
89673734 AGGTTAGCACCAATTCTTGCTAAGCATCAACCAAGATTTCCAACCTTAAGAATCTTTTGACATGG
187 AGGTTAGCACCAATTCTTGCCAAGCATCAACCAAGATTTCCAACCTTAAGAATCTTTTGACATGG
89673799 CACCTC-AACTGGACATAAATTGCTCCCCCCAAAGAAAAAGGCAAACAAATTTTAGTCTATGATG
252 CACCTCAAACTGGACATAAATTGCTCCCCCCAAAGAAAAAGGCAAACAAATTTTAGTCTATGATG
89673863 TTTCTCAACTAAACCTTATATAGGGATGGACTTTAGCATTCAGCATTTAAAAGGGTTGATCACTA
317 TTTCTCAACTAAACCTTATATAGGGATGGA-TTTAGCATTCAGCATTTAAAAGGGTTGATCACTA
* *
89673928 ATGTCG-TTCCTATTGCTGTAGCTAGTTTTGTTAATCAGACTCCATTAATTGTCGGAAACGGGTA
381 ATGTCGTTTCCTACTGCCGTAGCTAGTTTTGTTAATCAGACTCCATTAATTGTCGGAAACGGGTA
*
89673992 TATCTAAAGTTTTAACATGTACTTGGAAGGTCCTTGAAAGGAAAAACTTTATAGCATGTCCAACT
446 TATCTAAAGTTTTAACATGTACTTGGAAGGTCCTTGAAAGGAAAAACTTTATACCATGTCCAACT
*
89674057 AAAAAACTATATAAACTAGCTTAAAGATAGGTTAGCACCAATTTTTGCTAAGCATCAACCAAGAT
511 AAAAAACTATATAAACTAGCTTAAAGATAGGTTAGCACCAATTTTTGCCAAGCATCAACCAAGAT
*
89674122 TTCCAACCTTAAGAATCTTTTGACATGGCACCTCAACTGGACATAAATTGCTGCCCCCAAAGAAA
576 TTCCAACCTTAAGAATCTTTTGACATGGCACCTCAACTGGACATAAATTGCTCCCCCCAAAGAAA
* *
89674187 AAGGCAAGCAAATTTTAGTCTATGATGTTTCTCAACTAAACGTTATATAGGGAT
641 AAGGCAAACAAATTTTAGTCTATGATGTTTCTCAACTAAACCTTATATAGGGAT
89674241 TGCCATGGAT
Statistics
Matches: 673, Mismatches: 19, Indels: 12
0.96 0.03 0.02
Matches are distributed among these distances:
695 114 0.17
697 2 0.00
699 1 0.00
702 1 0.00
703 386 0.57
704 169 0.25
ACGTcount: A:0.34, C:0.19, G:0.16, T:0.31
Consensus pattern (695 bp):
GACTTTAGCATTCAGCATTTAAAAGGGTTGATCACTAATGTCGTTTCCTATTGCTGTAGCTAGTT
TTGTTAATCAGACTCCATTAATTGTCAGAAACGGGTATACCTAAAGTTTTAACATATATCCTTGA
AAGGAAAAACTTTATACCATGTCCAACTAAAAAACTATATAAACTAGCTTAAAGATAGGTTAGCA
CCAATTCTTGCCAAGCATCAACCAAGATTTCCAACCTTAAGAATCTTTTGACATGGCACCTCAAA
CTGGACATAAATTGCTCCCCCCAAAGAAAAAGGCAAACAAATTTTAGTCTATGATGTTTCTCAAC
TAAACCTTATATAGGGATGGATTTAGCATTCAGCATTTAAAAGGGTTGATCACTAATGTCGTTTC
CTACTGCCGTAGCTAGTTTTGTTAATCAGACTCCATTAATTGTCGGAAACGGGTATATCTAAAGT
TTTAACATGTACTTGGAAGGTCCTTGAAAGGAAAAACTTTATACCATGTCCAACTAAAAAACTAT
ATAAACTAGCTTAAAGATAGGTTAGCACCAATTTTTGCCAAGCATCAACCAAGATTTCCAACCTT
AAGAATCTTTTGACATGGCACCTCAACTGGACATAAATTGCTCCCCCCAAAGAAAAAGGCAAACA
AATTTTAGTCTATGATGTTTCTCAACTAAACCTTATATAGGGATG
Found at i:89680148 original size:9 final size:9
Alignment explanation
Indices: 89680134--89680166 Score: 57
Period size: 9 Copynumber: 3.7 Consensus size: 9
89680124 GTTAAACGAA
89680134 TCGAGTTAT
1 TCGAGTTAT
*
89680143 TCGAGTTAA
1 TCGAGTTAT
89680152 TCGAGTTAT
1 TCGAGTTAT
89680161 TCGAGT
1 TCGAGT
89680167 CAACTCGAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
9 22 1.00
ACGTcount: A:0.24, C:0.12, G:0.24, T:0.39
Consensus pattern (9 bp):
TCGAGTTAT
Found at i:89680155 original size:18 final size:18
Alignment explanation
Indices: 89680132--89680166 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
89680122 GAGTTAAACG
89680132 AATCGAGTTATTCGAGTT
1 AATCGAGTTATTCGAGTT
89680150 AATCGAGTTATTCGAGT
1 AATCGAGTTATTCGAGT
89680167 CAACTCGAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.29, C:0.11, G:0.23, T:0.37
Consensus pattern (18 bp):
AATCGAGTTATTCGAGTT
Found at i:89684611 original size:14 final size:16
Alignment explanation
Indices: 89684594--89684625 Score: 50
Period size: 14 Copynumber: 2.1 Consensus size: 16
89684584 CATGTATAAA
89684594 AAATTTTA-A-AATAG
1 AAATTTTACATAATAG
89684608 AAATTTTACATAATAG
1 AAATTTTACATAATAG
89684624 AA
1 AA
89684626 CAATTTAAAG
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 8 0.50
15 1 0.06
16 7 0.44
ACGTcount: A:0.56, C:0.03, G:0.06, T:0.34
Consensus pattern (16 bp):
AAATTTTACATAATAG
Found at i:89684728 original size:22 final size:22
Alignment explanation
Indices: 89684703--89684744 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
89684693 TAAGATAATT
89684703 TTAAAAAACAAATG-ATAAAATC
1 TTAAAAAA-AAATGAATAAAATC
*
89684725 TTAAATAAAAATGAATAAAA
1 TTAAAAAAAAATGAATAAAA
89684745 ACATAAATTA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 5 0.28
22 13 0.72
ACGTcount: A:0.67, C:0.05, G:0.05, T:0.24
Consensus pattern (22 bp):
TTAAAAAAAAATGAATAAAATC
Found at i:89684751 original size:22 final size:22
Alignment explanation
Indices: 89684712--89684758 Score: 60
Period size: 22 Copynumber: 2.1 Consensus size: 22
89684702 TTTAAAAAAC
* *
89684712 AAATGATAAAATCTTAAA-TAA
1 AAATGATAAAAACATAAATTAA
89684733 AAATGAATAAAAACATAAATTAA
1 AAATG-ATAAAAACATAAATTAA
89684756 AAA
1 AAA
89684759 AACTCCATTG
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
21 5 0.23
22 11 0.50
23 6 0.27
ACGTcount: A:0.68, C:0.04, G:0.04, T:0.23
Consensus pattern (22 bp):
AAATGATAAAAACATAAATTAA
Found at i:89685990 original size:19 final size:19
Alignment explanation
Indices: 89685966--89686003 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
89685956 ACTTTTATTG
*
89685966 TTTTTTTATATTTTGGTTT
1 TTTTTTTATATTTTAGTTT
*
89685985 TTTTTTTATCTTTTAGTTT
1 TTTTTTTATATTTTAGTTT
89686004 CATAGTGGGC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.11, C:0.03, G:0.08, T:0.79
Consensus pattern (19 bp):
TTTTTTTATATTTTAGTTT
Found at i:89686496 original size:177 final size:177
Alignment explanation
Indices: 89686244--89687162 Score: 1156
Period size: 177 Copynumber: 5.2 Consensus size: 177
89686234 TTGATGACTT
* **
89686244 AAATCTGTTCCATTGCCGATACATGGAGATAAGATTCGCTGTCTTCGATCTGCTCCACTA-TTGC
1 AAATCTGCTCCATTGCCGATACATGGAGATAAGATTCGCCATCTTCGATCTGCTCCACTACTT-C
*
89686308 TTAGGGAGATAAGATCTTCAATCTCCAGTCTGCTTCCTTGCTACCTTAAGAAGATAAGACTACAA
65 TTAGGGAGATAAGATCTTCAATCTTCAGTCTGCTTCCTTGCTACCTTAAGAAGATAAGACTACAA
* **
89686373 TCACCAACCTGCTCTCTTGTTACCTCAGAGAGATAAGGCTAGTAACTA
130 TCACCAACCTGCTCTCTTGCTACCTCAGAGAGATAAGGCTAGTGGCTA
*
89686421 AAATCTGCTCCATTGTCGATACATGGAGATAAGATTCGCCATCTTCGATCTGCTCCACTACTTCT
1 AAATCTGCTCCATTGCCGATACATGGAGATAAGATTCGCCATCTTCGATCTGCTCCACTACTTCT
* *
89686486 TAGGGAGATAAGATCTTCCATCTTCAGTCTGCTTCCCTGCTA-CTTCAAGAAGATAAGACTACAA
66 TAGGGAGATAAGATCTTCAATCTTCAGTCTGCTTCCTTGCTACCTT-AAGAAGATAAGACTACAA
** * *
89686550 TTGCCAACCTGCTCTCTTGCTACCTCAGAGAGATAAGGCCAGTGACTA
130 TCACCAACCTGCTCTCTTGCTACCTCAGAGAGATAAGGCTAGTGGCTA
* * * * * * *
89686598 AAATATGCTCCATTACAGATACATAGAGATAAGATTCGCC-GCATTCGATCTGCTCCACCACTAC
1 AAATCTGCTCCATTGCCGATACATGGAGATAAGATTCGCCATC-TTCGATCTGCTCCACTACTTC
* * * * * *
89686662 TTAGGGAGATAAGATCCTCAATCTTCAGTCTGTTTCC-TGCAACCTCAGGAAGATAAGACTACCA
65 TTAGGGAGATAAGATCTTCAATCTTCAGTCTGCTTCCTTGCTACCTTAAGAAGATAAGACTACAA
*
89686726 T-ATTCAACCTGCTCTCTTGCTACCTCAGAGAGATAAGGCTAGTGGCTA
130 TCA-CCAACCTGCTCTCTTGCTACCTCAGAGAGATAAGGCTAGTGGCTA
* * ** * *
89686774 AAATTTTCTCCATTGTTGATACATGGAGATAAGATTCGCCATCTTCGATCTGTTCCACTACTGCT
1 AAATCTGCTCCATTGCCGATACATGGAGATAAGATTCGCCATCTTCGATCTGCTCCACTACTTCT
* * * * * * *
89686839 TAGGGAGATAAGATCTTCAATCCTCAGTCTGCTTCCTTACTACATCAAAAAAATAAGATTACAAT
66 TAGGGAGATAAGATCTTCAATCTTCAGTCTGCTTCCTTGCTACCTTAAGAAGATAAGACTACAAT
* * * * *
89686904 CTCCAACCTGCTCTCTTGCTACCTCAAAGAGATAAGGGTGGTGGCTT
131 CACCAACCTGCTCTCTTGCTACCTCAGAGAGATAAGGCTAGTGGCTA
* * *
89686951 AAATCTGCTCCATTGCTGATACATGGAGATAAGATTCGCCATCTTCGATCTGTTTCACTACTGT-
1 AAATCTGCTCCATTGCCGATACATGGAGATAAGATTCGCCATCTTCGATCTGCTCCACTACT-TC
* * * * *
89687015 TTAGGGAGATAAGATCCTCAATCTTCAGTCTGCTTTCTTGCTA-CGTCAGAAATATAAGACT-CA
65 TTAGGGAGATAAGATCTTCAATCTTCAGTCTGCTTCCTTGCTACCTTAAG-AAGATAAGACTACA
** *
89687078 ATCTTCAACCTGCTCTCTTGCTACCTCAGAGAGATAAGGCT-GAT-GCTT
129 ATCACCAACCTGCTCTCTTGCTACCTCAGAGAGATAAGGCTAG-TGGCTA
* * * *
89687126 AAACCTACTCCATTGCCAATATATGGAGATAAGATTC
1 AAATCTGCTCCATTGCCGATACATGGAGATAAGATTC
89687163 ACCGTCTTTG
Statistics
Matches: 649, Mismatches: 82, Indels: 24
0.86 0.11 0.03
Matches are distributed among these distances:
175 37 0.06
176 195 0.30
177 415 0.64
178 2 0.00
ACGTcount: A:0.29, C:0.24, G:0.17, T:0.30
Consensus pattern (177 bp):
AAATCTGCTCCATTGCCGATACATGGAGATAAGATTCGCCATCTTCGATCTGCTCCACTACTTCT
TAGGGAGATAAGATCTTCAATCTTCAGTCTGCTTCCTTGCTACCTTAAGAAGATAAGACTACAAT
CACCAACCTGCTCTCTTGCTACCTCAGAGAGATAAGGCTAGTGGCTA
Found at i:89687115 original size:43 final size:44
Alignment explanation
Indices: 89687020--89687115 Score: 122
Period size: 43 Copynumber: 2.2 Consensus size: 44
89687010 ACTGTTTAGG
** * *
89687020 GAGATAAGATCCTCAATCTTCAGTCTGCTTTCTTGCTACGTCAGA
1 GAGATAAGA-CCTCAATCTTCAACCTGCTCTCTTGCTACCTCAGA
* *
89687065 AATATAAGA-CTCAATCTTCAACCTGCTCTCTTGCTACCTCAGA
1 GAGATAAGACCTCAATCTTCAACCTGCTCTCTTGCTACCTCAGA
89687108 GAGATAAG
1 GAGATAAG
89687116 GCTGATGCTT
Statistics
Matches: 43, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
43 36 0.84
45 7 0.16
ACGTcount: A:0.29, C:0.25, G:0.16, T:0.30
Consensus pattern (44 bp):
GAGATAAGACCTCAATCTTCAACCTGCTCTCTTGCTACCTCAGA
Found at i:89687199 original size:353 final size:353
Alignment explanation
Indices: 89686238--89687204 Score: 1262
Period size: 353 Copynumber: 2.7 Consensus size: 353
89686228 ACAAGGTTGA
* * *
89686238 TGACTTAAATCTGTTCCATTGCCGATACATGGAGATAAGATTCGCTGTCTTCGATCTGCTCCACT
1 TGACTTAAATCTGCTCCATTGCAGATACATGGAGATAAGATTCGC-CTCTTCGATCTGCTCCACT
* * * * *
89686303 ATTGCTTAGGGAGATAAGATCTTCAATCTCCAGTCTGCTTCCTTGCTACCTTA-AGAAGATAAGA
65 ACTGCTTAGGGAGATAAGATCCTCAATCTTCAGTCTGCTTTCTTGCTACCTCAGA-AAGATAAGA
** * * *
89686367 CTACAATCACCAACCTGCTCTCTTGTTACCTCAGAGAGATAAGGCTAGTAACTAAAATCTGCTCC
129 CTACAATCTTCAACCTGCTCTCTTGCTACCTCAGAGAGATAAGGCTAGTAGCTAAAATCTACTCC
* *
89686432 ATTGTCGATACATGGAGATAAGATTCGCCATCTTCGATCTGCTCCACTACTTCTTAGGGAGATAA
194 ATTGTCGATACATGGAGATAAGATTCGCCATCTTCGATCTGTTCCACTACTACTTAGGGAGATAA
* * * * * *
89686497 GATCTTCCATCTTCAGTCTGCTTCCCTGCTACTTCAAGAAGATAAGACTACAATTGCCAACCTGC
259 GATCTTCAATCCTCAGTCTGCTTCCCTACTACATCAAAAAAATAAGACTACAATTGCCAACCTGC
*
89686562 TCTCTTGCTACCTCAGAGAGATAAGGCCAG
324 TCTCTTGCTACCTCAAAGAGATAAGGCCAG
* * * * * *
89686592 TGACTAAAATATGCTCCATTACAGATACATAGAGATAAGATTCGCCGCATTCGATCTGCTCCACC
1 TGACTTAAATCTGCTCCATTGCAGATACATGGAGATAAGATTCGCCTC-TTCGATCTGCTCCACT
* * * *
89686657 ACTACTTAGGGAGATAAGATCCTCAATCTTCAGTCTG-TTTCCTGCAACCTCAGGAAGATAAGAC
65 ACTGCTTAGGGAGATAAGATCCTCAATCTTCAGTCTGCTTTCTTGCTACCTCAGAAAGATAAGAC
* * * * *
89686721 TACCATATTCAACCTGCTCTCTTGCTACCTCAGAGAGATAAGGCTAGTGGCTAAAATTTTCTCCA
130 TACAATCTTCAACCTGCTCTCTTGCTACCTCAGAGAGATAAGGCTAGTAGCTAAAATCTACTCCA
* *
89686786 TTGTTGATACATGGAGATAAGATTCGCCATCTTCGATCTGTTCCACTACTGCTTAGGGAGATAAG
195 TTGTCGATACATGGAGATAAGATTCGCCATCTTCGATCTGTTCCACTACTACTTAGGGAGATAAG
* *
89686851 ATCTTCAATCCTCAGTCTGCTTCCTTACTACATCAAAAAAATAAGATTACAATCT-CCAACCTGC
260 ATCTTCAATCCTCAGTCTGCTTCCCTACTACATCAAAAAAATAAGACTACAAT-TGCCAACCTGC
***
89686915 TCTCTTGCTACCTCAAAGAGATAAGGGTGG
324 TCTCTTGCTACCTCAAAGAGATAAGGCCAG
* * * *
89686945 TGGCTTAAATCTGCTCCATTGCTGATACATGGAGATAAGATTCGCCATCTTCGATCTGTTTCACT
1 TGACTTAAATCTGCTCCATTGCAGATACATGGAGATAAGATTCGCC-TCTTCGATCTGCTCCACT
* * *
89687010 ACTGTTTAGGGAGATAAGATCCTCAATCTTCAGTCTGCTTTCTTGCTACGTCAGAAATATAAGAC
65 ACTGCTTAGGGAGATAAGATCCTCAATCTTCAGTCTGCTTTCTTGCTACCTCAGAAAGATAAGAC
* *
89687075 T-CAATCTTCAACCTGCTCTCTTGCTACCTCAGAGAGATAAGGCT-G-ATGCTTAAACCTACTCC
130 TACAATCTTCAACCTGCTCTCTTGCTACCTCAGAGAGATAAGGCTAGTA-GCTAAAATCTACTCC
* * * * * * * ** *
89687137 ATTGCCAATATATGGAGATAAGATTCACCGTCTTTGGTCTGTTCCACCGCAACTTCAGGGAGATA
194 ATTGTCGATACATGGAGATAAGATTCGCCATCTTCGATCTGTTCCACTACTACTT-AGGGAGATA
89687202 AGA
258 AGA
89687205 CCTGTCACTT
Statistics
Matches: 528, Mismatches: 78, Indels: 15
0.85 0.13 0.02
Matches are distributed among these distances:
352 55 0.10
353 361 0.68
354 112 0.21
ACGTcount: A:0.28, C:0.25, G:0.17, T:0.30
Consensus pattern (353 bp):
TGACTTAAATCTGCTCCATTGCAGATACATGGAGATAAGATTCGCCTCTTCGATCTGCTCCACTA
CTGCTTAGGGAGATAAGATCCTCAATCTTCAGTCTGCTTTCTTGCTACCTCAGAAAGATAAGACT
ACAATCTTCAACCTGCTCTCTTGCTACCTCAGAGAGATAAGGCTAGTAGCTAAAATCTACTCCAT
TGTCGATACATGGAGATAAGATTCGCCATCTTCGATCTGTTCCACTACTACTTAGGGAGATAAGA
TCTTCAATCCTCAGTCTGCTTCCCTACTACATCAAAAAAATAAGACTACAATTGCCAACCTGCTC
TCTTGCTACCTCAAAGAGATAAGGCCAG
Found at i:89687465 original size:64 final size:64
Alignment explanation
Indices: 89687363--89687554 Score: 312
Period size: 64 Copynumber: 3.0 Consensus size: 64
89687353 TTCATGTATC
* *
89687363 ATGCTTATGCCAAATAATTAGGATGCTATGATCAAAATGAATCAAATGCTCCTAACTAGATGTG
1 ATGCTTATGTCAAATAATTAGGATGCTATGATCGAAATGAATCAAATGCTCCTAACTAGATGTG
* ** * * *
89687427 ATGCTTATGTCAACTAATTAGGACACTATAATCGAAATGAATCAAATGTTCCTAACTAGATATG
1 ATGCTTATGTCAAATAATTAGGATGCTATGATCGAAATGAATCAAATGCTCCTAACTAGATGTG
89687491 ATGCTTATGTCAAATAATTAGGATGCTATGATCGAAATGAATCAAATGCTCCTAACTAGATGTG
1 ATGCTTATGTCAAATAATTAGGATGCTATGATCGAAATGAATCAAATGCTCCTAACTAGATGTG
89687555 TTATGAATGA
Statistics
Matches: 114, Mismatches: 14, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
64 114 1.00
ACGTcount: A:0.38, C:0.15, G:0.17, T:0.31
Consensus pattern (64 bp):
ATGCTTATGTCAAATAATTAGGATGCTATGATCGAAATGAATCAAATGCTCCTAACTAGATGTG
Found at i:89688638 original size:11 final size:10
Alignment explanation
Indices: 89688624--89688671 Score: 62
Period size: 11 Copynumber: 4.6 Consensus size: 10
89688614 CTTTTTCTCT
89688624 TTTTTTTTTGA
1 TTTTTTTTT-A
89688635 TTTTTTTTTGA
1 TTTTTTTTT-A
89688646 -TTTTTTTTA
1 TTTTTTTTTA
89688655 TTCTTTTTTTA
1 TT-TTTTTTTA
89688666 TTTTTT
1 TTTTTT
89688672 CTCTCCTTTT
Statistics
Matches: 35, Mismatches: 0, Indels: 5
0.88 0.00 0.12
Matches are distributed among these distances:
9 1 0.03
10 13 0.37
11 21 0.60
ACGTcount: A:0.08, C:0.02, G:0.04, T:0.85
Consensus pattern (10 bp):
TTTTTTTTTA
Found at i:89688649 original size:20 final size:20
Alignment explanation
Indices: 89688626--89688689 Score: 69
Period size: 20 Copynumber: 3.2 Consensus size: 20
89688616 TTTTCTCTTT
89688626 TTTTTTTGATT-TTTTTTTGA
1 TTTTTTTGATTCTTTTTTT-A
*
89688646 TTTTTTTTATTCTTTTTTTA
1 TTTTTTTGATTCTTTTTTTA
* *
89688666 TTTTTTCT-CTCCTTTTTTTA
1 TTTTTT-TGATTCTTTTTTTA
89688686 TTTT
1 TTTT
89688690 AATTTTTTTA
Statistics
Matches: 39, Mismatches: 3, Indels: 4
0.85 0.07 0.09
Matches are distributed among these distances:
20 31 0.79
21 8 0.21
ACGTcount: A:0.08, C:0.08, G:0.03, T:0.81
Consensus pattern (20 bp):
TTTTTTTGATTCTTTTTTTA
Found at i:89688713 original size:14 final size:14
Alignment explanation
Indices: 89688678--89688713 Score: 54
Period size: 14 Copynumber: 2.6 Consensus size: 14
89688668 TTTTCTCTCC
*
89688678 TTTTTTTATTTTAA
1 TTTTTTTATTTCAA
*
89688692 TTTTTTTATTTCGA
1 TTTTTTTATTTCAA
89688706 TTTTTTTA
1 TTTTTTTA
89688714 AGGTCTCAAG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.17, C:0.03, G:0.03, T:0.78
Consensus pattern (14 bp):
TTTTTTTATTTCAA
Found at i:89695287 original size:34 final size:30
Alignment explanation
Indices: 89695211--89695290 Score: 88
Period size: 34 Copynumber: 2.5 Consensus size: 30
89695201 ACTATATATA
* *
89695211 AAAAATAATGTATAATATAATTTTTAAAAT
1 AAAAATAATGTATAATATAATTTTGAAAAC
*
89695241 AATATATAATGTATAATGTATAAATTTTGAAAAC
1 AA-AAATAATGTATAA--TAT-AATTTTGAAAAC
89695275 AAAAATACATGTATAA
1 AAAAATA-ATGTATAA
89695291 AGAAAATTTC
Statistics
Matches: 41, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
30 2 0.05
31 12 0.29
33 7 0.17
34 20 0.49
ACGTcount: A:0.55, C:0.03, G:0.06, T:0.36
Consensus pattern (30 bp):
AAAAATAATGTATAATATAATTTTGAAAAC
Found at i:89695435 original size:21 final size:21
Alignment explanation
Indices: 89695403--89695456 Score: 58
Period size: 22 Copynumber: 2.5 Consensus size: 21
89695393 TAAGATAATT
89695403 TTAAA-AACAAAT-AATAAAATC
1 TTAAATAA-AAATGAATAAAA-C
89695424 TTAAATAAAAATGAATAAAAC
1 TTAAATAAAAATGAATAAAAC
*
89695445 ATAAATTAAAAA
1 TTAAA-TAAAAA
89695457 AACTCCATTG
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
21 14 0.48
22 15 0.52
ACGTcount: A:0.69, C:0.06, G:0.02, T:0.24
Consensus pattern (21 bp):
TTAAATAAAAATGAATAAAAC
Found at i:89696697 original size:19 final size:18
Alignment explanation
Indices: 89696660--89696694 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
89696650 TGGGCTTTTA
89696660 TTTTTTTTATATTTTGGT
1 TTTTTTTTATATTTTGGT
*
89696678 TTTTTTTTATTTTTTGG
1 TTTTTTTTATATTTTGG
89696695 GTTCATAGTG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.09, C:0.00, G:0.11, T:0.80
Consensus pattern (18 bp):
TTTTTTTTATATTTTGGT
Found at i:89696953 original size:21 final size:21
Alignment explanation
Indices: 89696928--89697051 Score: 97
Period size: 22 Copynumber: 6.1 Consensus size: 21
89696918 TTTTATATTA
89696928 TTAAAAATATATATTTAATAT
1 TTAAAAATATATATTTAATAT
89696949 TTAAAAATA-ATA-TT--TA-
1 TTAAAAATATATATTTAATAT
89696965 --AAAAATA-ATATTATAA-AT
1 TTAAAAATATATATT-TAATAT
*
89696983 TTAAAAAATATATATTTAAAAT
1 TT-AAAAATATATATTTAATAT
89697005 TTAAAAAATATATATTATAAAATAT
1 TT-AAAAATATATATT-T--AATAT
* *
89697030 TT-AAAATATAAATTTAAAAT
1 TTAAAAATATATATTTAATAT
89697050 TT
1 TT
89697052 TATAAAATTA
Statistics
Matches: 87, Mismatches: 3, Indels: 27
0.74 0.03 0.23
Matches are distributed among these distances:
14 10 0.11
15 1 0.01
16 1 0.01
17 3 0.03
19 2 0.02
20 9 0.10
21 19 0.22
22 24 0.28
23 12 0.14
25 6 0.07
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (21 bp):
TTAAAAATATATATTTAATAT
Found at i:89696955 original size:22 final size:22
Alignment explanation
Indices: 89696930--89697051 Score: 79
Period size: 20 Copynumber: 6.0 Consensus size: 22
89696920 TTATATTATT
89696930 AAAAATATATATTTAATATTT-
1 AAAAATATATATTTAATATTTA
89696951 AAAAATA-ATATTTAA-A---A
1 AAAAATATATATTTAATATTTA
* * *
89696968 AATAATAT-TA-TAAAT-TTAA
1 AAAAATATATATTTAATATTTA
*
89696987 A-AAATATATATTTAAAATTTA
1 AAAAATATATATTTAATATTTA
89697008 AAAAATATATATTATAAAATATTT-
1 AAAAATATATATT-T--AATATTTA
* *
89697032 -AAAATATAAATTTAAAATTT
1 AAAAATATATATTTAATATTT
89697052 TATAAAATTA
Statistics
Matches: 79, Mismatches: 9, Indels: 27
0.69 0.08 0.23
Matches are distributed among these distances:
16 3 0.04
17 8 0.10
18 5 0.06
19 5 0.06
20 17 0.22
21 11 0.14
22 12 0.15
23 12 0.15
25 6 0.08
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (22 bp):
AAAAATATATATTTAATATTTA
Found at i:89696959 original size:13 final size:13
Alignment explanation
Indices: 89696943--89696981 Score: 60
Period size: 14 Copynumber: 2.8 Consensus size: 13
89696933 AATATATATT
89696943 TAATATTTAAAAA
1 TAATATTTAAAAA
89696956 TAATATTTAAAAAA
1 TAATATTT-AAAAA
89696970 TAATATTATAAA
1 TAATATT-TAAA
89696982 TTTAAAAAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
13 8 0.33
14 15 0.62
15 1 0.04
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (13 bp):
TAATATTTAAAAA
Found at i:89696968 original size:34 final size:36
Alignment explanation
Indices: 89696921--89697003 Score: 109
Period size: 35 Copynumber: 2.3 Consensus size: 36
89696911 AAGTTGTTTT
*
89696921 TATATTATTAAAAATATATATT-TAATATTT-AAAAATA
1 TATATT-TAAAAAATA-ATATTATAA-ATTTAAAAAATA
89696958 -ATATTTAAAAAATAATATTATAAATTTAAAAAATA
1 TATATTTAAAAAATAATATTATAAATTTAAAAAATA
89696993 TATATTTAAAA
1 TATATTTAAAA
89697004 TTTAAAAAAT
Statistics
Matches: 42, Mismatches: 1, Indels: 7
0.84 0.02 0.14
Matches are distributed among these distances:
34 9 0.21
35 18 0.43
36 15 0.36
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (36 bp):
TATATTTAAAAAATAATATTATAAATTTAAAAAATA
Found at i:89696997 original size:56 final size:60
Alignment explanation
Indices: 89696930--89697048 Score: 167
Period size: 56 Copynumber: 2.0 Consensus size: 60
89696920 TTATATTATT
* *
89696930 AAAAATATATATTTAATATTT-AAAAATA-ATATT-TAAAA-A-ATAATATTATAAATTTA
1 AAAAATATATATTTAAAATTTAAAAAATATATATTATAAAATATATAA-AATATAAATTTA
*
89696986 AAAAATATATATTTAAAATTTAAAAAATATATATTATAAAATATTTAAAATATAAATTTA
1 AAAAATATATATTTAAAATTTAAAAAATATATATTATAAAATATATAAAATATAAATTTA
89697046 AAA
1 AAA
89697049 TTTTATAAAA
Statistics
Matches: 55, Mismatches: 3, Indels: 6
0.86 0.05 0.09
Matches are distributed among these distances:
56 20 0.36
57 7 0.13
58 5 0.09
59 5 0.09
60 15 0.27
61 3 0.05
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (60 bp):
AAAAATATATATTTAAAATTTAAAAAATATATATTATAAAATATATAAAATATAAATTTA
Found at i:89697049 original size:45 final size:43
Alignment explanation
Indices: 89696960--89697051 Score: 132
Period size: 45 Copynumber: 2.1 Consensus size: 43
89696950 TAAAAATAAT
*
89696960 ATTTAAAAAATAATATTATAAATTTAAAAAATATATATTTAAA
1 ATTTAAAAAATAATATTATAAATTTAAAAAATATAAATTTAAA
*
89697003 ATTTAAAAAATATATATTATAAAATATT-TAAAATATAAATTTAAA
1 ATTTAAAAAATA-ATATTAT-AAAT-TTAAAAAATATAAATTTAAA
89697048 ATTT
1 ATTT
89697052 TATAAAATTA
Statistics
Matches: 44, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
43 12 0.27
44 7 0.16
45 23 0.52
46 2 0.05
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (43 bp):
ATTTAAAAAATAATATTATAAATTTAAAAAATATAAATTTAAA
Found at i:89697057 original size:23 final size:23
Alignment explanation
Indices: 89696961--89697059 Score: 111
Period size: 22 Copynumber: 4.4 Consensus size: 23
89696951 AAAAATAATA
89696961 TTTAAAAAATA-ATA-TTATAAA-
1 TTTAAAAAATATATATTTA-AAAT
89696982 TTTAAAAAATATATATTTAAAA-
1 TTTAAAAAATATATATTTAAAAT
89697004 TTTAAAAAATATATATTATAAAAT
1 TTTAAAAAATATATATT-TAAAAT
*
89697028 ATTT--AAAATATAAATTTAAAAT
1 -TTTAAAAAATATATATTTAAAAT
*
89697050 TTTATAAAAT
1 TTTAAAAAAT
89697060 TAATAATAAA
Statistics
Matches: 70, Mismatches: 1, Indels: 12
0.84 0.01 0.14
Matches are distributed among these distances:
21 14 0.20
22 29 0.41
23 24 0.34
25 3 0.04
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (23 bp):
TTTAAAAAATATATATTTAAAAT
Found at i:89697082 original size:46 final size:45
Alignment explanation
Indices: 89696987--89697083 Score: 106
Period size: 46 Copynumber: 2.1 Consensus size: 45
89696977 ATAAATTTAA
* * * ***
89696987 AAAATATATATTTAAAATTTAAAAAATATATATTATAAAATATTT
1 AAAATATAAATTTAAAATTTAAAAAATATATAATAAAAAATAAGG
*
89697032 AAAATATAAATTTAAAATTTTATAAAAT-TAATAATAAAAAATAAGG
1 AAAATATAAATTTAAAA-TTTAAAAAATAT-ATAATAAAAAATAAGG
89697078 AAAATA
1 AAAATA
89697084 AATAAATAAA
Statistics
Matches: 43, Mismatches: 7, Indels: 3
0.81 0.13 0.06
Matches are distributed among these distances:
45 17 0.40
46 26 0.60
ACGTcount: A:0.62, C:0.00, G:0.02, T:0.36
Consensus pattern (45 bp):
AAAATATAAATTTAAAATTTAAAAAATATATAATAAAAAATAAGG
Found at i:89698017 original size:23 final size:21
Alignment explanation
Indices: 89697974--89698033 Score: 68
Period size: 22 Copynumber: 2.8 Consensus size: 21
89697964 AATGTATATT
* *
89697974 TTTATAATATATATTTTTAAAA
1 TTTAAAATATAT-TTTTTTAAA
89697996 TTTAAAATATTATTTTTTTAAA
1 TTTAAAATA-TATTTTTTTAAA
89698018 TATT-AAATATATTTTT
1 T-TTAAAATATATTTTT
89698034 AATAATATTT
Statistics
Matches: 34, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
21 7 0.21
22 22 0.65
23 5 0.15
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (21 bp):
TTTAAAATATATTTTTTTAAA
Found at i:89698040 original size:21 final size:22
Alignment explanation
Indices: 89697982--89698042 Score: 67
Period size: 21 Copynumber: 2.9 Consensus size: 22
89697972 TTTTTATAAT
89697982 ATATATTTTTAA-AAT-TTAAA
1 ATATATTTTTAATAATATTAAA
*
89698002 ATATTATTTTT-TTAAATATT-AA
1 ATA-TATTTTTAAT-AATATTAAA
89698024 ATATATTTTTAATAATATT
1 ATATATTTTTAATAATATT
89698043 TAAACATTAA
Statistics
Matches: 34, Mismatches: 2, Indels: 9
0.76 0.04 0.20
Matches are distributed among these distances:
20 3 0.09
21 20 0.59
22 9 0.26
23 2 0.06
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (22 bp):
ATATATTTTTAATAATATTAAA
Found at i:89698044 original size:29 final size:27
Alignment explanation
Indices: 89698012--89698070 Score: 73
Period size: 27 Copynumber: 2.1 Consensus size: 27
89698002 ATATTATTTT
* * *
89698012 TTTAAATATTAAATATATTTTTAATAATA
1 TTTAAACATTAAA-AT-TTTTAAATAAAA
89698041 TTTAAACATTAAAATTTTTAAATAAAA
1 TTTAAACATTAAAATTTTTAAATAAAA
89698068 TTT
1 TTT
89698071 TTATAAAAAT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
27 13 0.48
28 2 0.07
29 12 0.44
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (27 bp):
TTTAAACATTAAAATTTTTAAATAAAA
Found at i:89698073 original size:29 final size:29
Alignment explanation
Indices: 89698010--89698065 Score: 71
Period size: 29 Copynumber: 2.0 Consensus size: 29
89698000 AAATATTATT
* *
89698010 TTTTTAAATATTAAATATATTTTTAATAA
1 TTTTTAAACATTAAATATATTTTAAATAA
*
89698039 TATTTAAACATTAAA-AT-TTTTAAATAA
1 TTTTTAAACATTAAATATATTTTAAATAA
89698066 AATTTTTATA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
27 9 0.38
28 2 0.08
29 13 0.54
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (29 bp):
TTTTTAAACATTAAATATATTTTAAATAA
Found at i:89698079 original size:12 final size:13
Alignment explanation
Indices: 89698050--89698087 Score: 60
Period size: 13 Copynumber: 3.0 Consensus size: 13
89698040 ATTTAAACAT
89698050 TAAAATTTTTAAA
1 TAAAATTTTTAAA
*
89698063 TAAAATTTTTATA
1 TAAAATTTTTAAA
89698076 -AAAATTTTTAAA
1 TAAAATTTTTAAA
89698088 AGCTTTAAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
12 11 0.48
13 12 0.52
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (13 bp):
TAAAATTTTTAAA
Found at i:89698146 original size:14 final size:14
Alignment explanation
Indices: 89698129--89698155 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
89698119 TACATAGAAT
89698129 TTTTTAAATTATTA
1 TTTTTAAATTATTA
89698143 TTTTTAAATTATT
1 TTTTTAAATTATT
89698156 TTTAAAGATA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (14 bp):
TTTTTAAATTATTA
Found at i:89698489 original size:22 final size:21
Alignment explanation
Indices: 89698442--89698487 Score: 67
Period size: 20 Copynumber: 2.2 Consensus size: 21
89698432 AAATATTATT
*
89698442 AAAATATATATTTAATATTTA
1 AAAATATATATTTAAAATTTA
89698463 AAAATA-ATATTTAAAATTTA
1 AAAATATATATTTAAAATTTA
89698483 GAAAA
1 -AAAA
89698488 ATTAATTTCA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 13 0.57
21 10 0.43
ACGTcount: A:0.59, C:0.00, G:0.02, T:0.39
Consensus pattern (21 bp):
AAAATATATATTTAAAATTTA
Found at i:89698512 original size:36 final size:35
Alignment explanation
Indices: 89698458--89698561 Score: 115
Period size: 36 Copynumber: 3.0 Consensus size: 35
89698448 TATATTTAAT
89698458 ATTT-AAAAATAATATTTAAAATTTA-GAAAAATTA
1 ATTTCAAAAATAATATTTAAAATTTATGAAAAA-TA
* * *
89698492 ATTTCAAAAATTAATTTTTAAAATTTATTAGAAATA
1 ATTTCAAAAA-TAATATTTAAAATTTATGAAAAATA
* * *
89698528 ATTTCAAATAT-ATATTTAAAATTTTTAAAAAATA
1 ATTTCAAAAATAATATTTAAAATTTATGAAAAATA
89698562 TATATTATAA
Statistics
Matches: 59, Mismatches: 8, Indels: 6
0.81 0.11 0.08
Matches are distributed among these distances:
34 23 0.39
35 6 0.10
36 26 0.44
37 4 0.07
ACGTcount: A:0.54, C:0.02, G:0.02, T:0.42
Consensus pattern (35 bp):
ATTTCAAAAATAATATTTAAAATTTATGAAAAATA
Found at i:89698516 original size:13 final size:13
Alignment explanation
Indices: 89698484--89698508 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
89698474 TAAAATTTAG
89698484 AAAAATTAATTTC
1 AAAAATTAATTTC
89698497 AAAAATTAATTT
1 AAAAATTAATTT
89698509 TTAAAATTTA
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:0.56, C:0.04, G:0.00, T:0.40
Consensus pattern (13 bp):
AAAAATTAATTTC
Found at i:89698543 original size:23 final size:22
Alignment explanation
Indices: 89698517--89698586 Score: 54
Period size: 23 Copynumber: 3.0 Consensus size: 22
89698507 TTTTAAAATT
89698517 TATTAGAAATAATTTCAAATATA
1 TATTA-AAATAATTTCAAATATA
* *
89698540 TATTTAAAAT-TTTTAAAAAATATA
1 TA-TTAAAATAATTT--CAAATATA
89698564 TATTATAAA-ACATTTCAAATATA
1 TATTA-AAATA-ATTTCAAATATA
89698587 CATTTCAAAT
Statistics
Matches: 37, Mismatches: 4, Indels: 12
0.70 0.08 0.23
Matches are distributed among these distances:
22 3 0.08
23 16 0.43
24 15 0.41
25 3 0.08
ACGTcount: A:0.53, C:0.04, G:0.01, T:0.41
Consensus pattern (22 bp):
TATTAAAATAATTTCAAATATA
Found at i:89698621 original size:10 final size:9
Alignment explanation
Indices: 89698608--89698708 Score: 51
Period size: 9 Copynumber: 10.9 Consensus size: 9
89698598 TTTTAAAATT
89698608 AATAACAAAA
1 AATAA-AAAA
*
89698618 AATAAATAA
1 AATAAAAAA
89698627 AATAAATAAA
1 AATAAA-AAA
* *
89698637 CA-AAATAA
1 AATAAAAAA
*
89698645 AATAAGAAA
1 AATAAAAAA
*
89698654 AATATAAAAC
1 AATA-AAAAA
**
89698664 TTTAAAAAA
1 AATAAAAAA
*
89698673 ATTAAAGAAA
1 AATAAA-AAA
* *
89698683 AAGACAAAA
1 AATAAAAAA
**
89698692 GTTAAAAAA
1 AATAAAAAA
89698701 AATAAAAA
1 AATAAAAA
89698709 GAAAAAAAGT
Statistics
Matches: 65, Mismatches: 22, Indels: 9
0.68 0.23 0.09
Matches are distributed among these distances:
8 3 0.05
9 43 0.66
10 19 0.29
ACGTcount: A:0.75, C:0.04, G:0.04, T:0.17
Consensus pattern (9 bp):
AATAAAAAA
Found at i:89698630 original size:9 final size:9
Alignment explanation
Indices: 89698616--89698649 Score: 52
Period size: 9 Copynumber: 3.8 Consensus size: 9
89698606 TTAATAACAA
89698616 AAAATAAAT
1 AAAATAAAT
89698625 AAAATAAAT
1 AAAATAAAT
89698634 AAACA-AAAT
1 AAA-ATAAAT
89698643 AAAATAA
1 AAAATAA
89698650 GAAAAATATA
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
8 1 0.04
9 21 0.91
10 1 0.04
ACGTcount: A:0.79, C:0.03, G:0.00, T:0.18
Consensus pattern (9 bp):
AAAATAAAT
Found at i:89698633 original size:13 final size:13
Alignment explanation
Indices: 89698603--89698645 Score: 50
Period size: 13 Copynumber: 3.2 Consensus size: 13
89698593 AAATTTTTTA
* *
89698603 AAATTAATAACAAA
1 AAATAAATAA-AAT
89698617 AAATAAATAAAAT
1 AAATAAATAAAAT
*
89698630 AAATAAACAAAAT
1 AAATAAATAAAAT
89698643 AAA
1 AAA
89698646 ATAAGAAAAA
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
13 17 0.65
14 9 0.35
ACGTcount: A:0.77, C:0.05, G:0.00, T:0.19
Consensus pattern (13 bp):
AAATAAATAAAAT
Found at i:89698647 original size:23 final size:24
Alignment explanation
Indices: 89698601--89698657 Score: 66
Period size: 23 Copynumber: 2.5 Consensus size: 24
89698591 TCAAATTTTT
*
89698601 TAAAATTAAT-AACAAAAAATAAA
1 TAAAATAAATAAACAAAAAATAAA
*
89698624 TAAAATAAATAAACAAAATA-AAA
1 TAAAATAAATAAACAAAAAATAAA
89698647 TAAGAA-AAATA
1 TAA-AATAAATA
89698658 TAAAACTTTA
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
23 20 0.67
24 10 0.33
ACGTcount: A:0.75, C:0.04, G:0.02, T:0.19
Consensus pattern (24 bp):
TAAAATAAATAAACAAAAAATAAA
Found at i:89698670 original size:29 final size:27
Alignment explanation
Indices: 89698638--89698725 Score: 76
Period size: 29 Copynumber: 3.3 Consensus size: 27
89698628 ATAAATAAAC
* * *
89698638 AAAATAAAATAAGAAAAATATAAAACTTT
1 AAAA-AAAATAAGAAAAAGACAAAA-GTT
*
89698667 AAAAAAATTAAAGAAAAAGACAAAAGTT
1 AAAAAAAAT-AAGAAAAAGACAAAAGTT
89698695 AAAAAAAATAA-AAAGAA-A-AAAAG-T
1 AAAAAAAATAAGAAA-AAGACAAAAGTT
89698719 AAAAAAA
1 AAAAAAA
89698726 CCAGAAGACT
Statistics
Matches: 52, Mismatches: 5, Indels: 9
0.79 0.08 0.14
Matches are distributed among these distances:
24 8 0.15
25 5 0.10
26 4 0.08
27 4 0.08
28 14 0.27
29 17 0.33
ACGTcount: A:0.76, C:0.02, G:0.07, T:0.15
Consensus pattern (27 bp):
AAAAAAAATAAGAAAAAGACAAAAGTT
Found at i:89698715 original size:24 final size:24
Alignment explanation
Indices: 89698680--89698725 Score: 67
Period size: 24 Copynumber: 1.9 Consensus size: 24
89698670 AAAATTAAAG
*
89698680 AAAAAG-ACAAAAGTTAAAAAAAAT
1 AAAAAGAAAAAAAG-TAAAAAAAAT
89698704 AAAAAGAAAAAAAGTAAAAAAA
1 AAAAAGAAAAAAAGTAAAAAAA
89698726 CCAGAAGACT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
24 14 0.70
25 6 0.30
ACGTcount: A:0.80, C:0.02, G:0.09, T:0.09
Consensus pattern (24 bp):
AAAAAGAAAAAAAGTAAAAAAAAT
Found at i:89702352 original size:17 final size:18
Alignment explanation
Indices: 89702330--89702378 Score: 55
Period size: 19 Copynumber: 2.7 Consensus size: 18
89702320 TCATGGATGC
89702330 ATATATATAAACTAT-TA
1 ATATATATAAACTATATA
* *
89702347 ATATATTATATACTATATG
1 ATATA-TATAAACTATATA
89702366 ATATGATATAAAC
1 ATAT-ATATAAAC
89702379 ATTCTAGGAA
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
17 5 0.19
18 9 0.35
19 11 0.42
20 1 0.04
ACGTcount: A:0.49, C:0.06, G:0.04, T:0.41
Consensus pattern (18 bp):
ATATATATAAACTATATA
Found at i:89704087 original size:19 final size:18
Alignment explanation
Indices: 89704063--89704099 Score: 65
Period size: 19 Copynumber: 2.0 Consensus size: 18
89704053 TTATGTTTCA
89704063 TATTATTATATTATTTATT
1 TATTATTATA-TATTTATT
89704082 TATTATTATATATTTATT
1 TATTATTATATATTTATT
89704100 ATGTAAATAT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 8 0.44
19 10 0.56
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (18 bp):
TATTATTATATATTTATT
Found at i:89704088 original size:63 final size:63
Alignment explanation
Indices: 89703948--89704090 Score: 168
Period size: 63 Copynumber: 2.3 Consensus size: 63
89703938 TTTAACCCCT
* * *
89703948 TTTTTATTTTTGTTATTTTACTGTTAAATTAATTAATTTGAGCTTTATTCTCATTATTTTTATA
1 TTTTTATTTTTATTATTTTACTATTAAATTAATTAATTTGAGC-TTATTCTCATTATTATTATA
* *
89704012 TTTGTT-TTTTTATTATTTT-CTATTAATTTAATTAATTTGAG-TTATGTTTCA-TATTATTATA
1 TTT-TTATTTTTATTATTTTACTATTAAATTAATTAATTTGAGCTTAT-TCTCATTATTATTATA
89704073 TTATTTATTTATTATTAT
1 TT-TTTATTT-TTATTAT
89704091 ATATTTATTA
Statistics
Matches: 69, Mismatches: 5, Indels: 11
0.81 0.06 0.13
Matches are distributed among these distances:
61 17 0.25
62 8 0.12
63 27 0.39
64 15 0.22
65 2 0.03
ACGTcount: A:0.26, C:0.04, G:0.06, T:0.64
Consensus pattern (63 bp):
TTTTTATTTTTATTATTTTACTATTAAATTAATTAATTTGAGCTTATTCTCATTATTATTATA
Found at i:89704111 original size:17 final size:14
Alignment explanation
Indices: 89704071--89704101 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
89704061 CATATTATTA
*
89704071 TATTATTTATTTAT
1 TATTATATATTTAT
89704085 TATTATATATTTAT
1 TATTATATATTTAT
89704099 TAT
1 TAT
89704102 GTAAATATAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (14 bp):
TATTATATATTTAT
Found at i:89711164 original size:17 final size:18
Alignment explanation
Indices: 89711113--89711164 Score: 54
Period size: 17 Copynumber: 2.9 Consensus size: 18
89711103 TTATTTTCAT
*
89711113 ATTATTTGTTAATATTTTC
1 ATTATTT-TAAATATTTTC
* *
89711132 ATTATTTTGACT-TTTTC
1 ATTATTTTAAATATTTTC
89711149 A-TATTTTAAATATTTT
1 ATTATTTTAAATATTTT
89711165 TAATATAGTA
Statistics
Matches: 28, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
16 8 0.29
17 10 0.36
18 3 0.11
19 7 0.25
ACGTcount: A:0.27, C:0.06, G:0.04, T:0.63
Consensus pattern (18 bp):
ATTATTTTAAATATTTTC
Found at i:89716120 original size:20 final size:19
Alignment explanation
Indices: 89716090--89716135 Score: 65
Period size: 20 Copynumber: 2.4 Consensus size: 19
89716080 ATTGGGCCTT
*
89716090 GCCCATATCAATACAGTTG
1 GCCCATATCAATACAATTG
*
89716109 GACCCATTTCAATACAATTG
1 G-CCCATATCAATACAATTG
89716129 GCCCATA
1 GCCCATA
89716136 ACAAAATAGC
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
19 6 0.26
20 17 0.74
ACGTcount: A:0.33, C:0.28, G:0.13, T:0.26
Consensus pattern (19 bp):
GCCCATATCAATACAATTG
Found at i:89717106 original size:17 final size:19
Alignment explanation
Indices: 89717084--89717121 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
89717074 TGAGAGAAGG
*
89717084 ATAGAA-AA-GAATAAAAA
1 ATAGAAGAAGGAAAAAAAA
89717101 ATAGAAGAAGGAAAAAAAA
1 ATAGAAGAAGGAAAAAAAA
89717120 AT
1 AT
89717122 TCTAAAGGCC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
17 6 0.33
18 2 0.11
19 10 0.56
ACGTcount: A:0.74, C:0.00, G:0.16, T:0.11
Consensus pattern (19 bp):
ATAGAAGAAGGAAAAAAAA
Found at i:89719498 original size:4 final size:4
Alignment explanation
Indices: 89719477--89719511 Score: 52
Period size: 4 Copynumber: 8.5 Consensus size: 4
89719467 AACTATTTTG
*
89719477 TACA CTACA TAAA TACA TACA TACA TACA TACA TA
1 TACA -TACA TACA TACA TACA TACA TACA TACA TA
89719512 TATATAAACA
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
4 24 0.86
5 4 0.14
ACGTcount: A:0.51, C:0.23, G:0.00, T:0.26
Consensus pattern (4 bp):
TACA
Found at i:89721286 original size:13 final size:13
Alignment explanation
Indices: 89721268--89721301 Score: 52
Period size: 12 Copynumber: 2.7 Consensus size: 13
89721258 TTTTGATTTG
89721268 TTTGGGTTTAAAT
1 TTTGGGTTTAAAT
*
89721281 TTTGGG-TTAGAT
1 TTTGGGTTTAAAT
89721293 TTTGGGTTT
1 TTTGGGTTT
89721302 GTAAATGGGC
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
12 11 0.58
13 8 0.42
ACGTcount: A:0.15, C:0.00, G:0.29, T:0.56
Consensus pattern (13 bp):
TTTGGGTTTAAAT
Found at i:89721943 original size:73 final size:73
Alignment explanation
Indices: 89721815--89722059 Score: 386
Period size: 73 Copynumber: 3.5 Consensus size: 73
89721805 CGGCATGTGA
*
89721815 TCTTGA-GCCCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAAGCAGAAATTGAAAATACC
1 TCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAAGCAGAAATTGAAAATACC
89721879 TCAACGTG
66 TCAACGTG
89721887 TCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAAGCAGAAATTGAAAATACC
1 TCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAAGCAGAAATTGAAAATACC
89721952 TCAACGTG
66 TCAACGTG
*
89721960 TCTTGAGGCTCAACTCATTTCTCGCAATATGA---G----TTG--AA-CAGAAATTGAAATTACC
1 TCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAAGCAGAAATTGAAAATACC
*
89722015 TCAATGTG
66 TCAACGTG
89722023 TCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGA
1 TCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGA
89722060 TTCTTTCAAA
Statistics
Matches: 165, Mismatches: 3, Indels: 15
0.90 0.02 0.08
Matches are distributed among these distances:
63 55 0.33
64 2 0.01
66 4 0.02
70 1 0.01
72 6 0.04
73 97 0.59
ACGTcount: A:0.32, C:0.19, G:0.18, T:0.31
Consensus pattern (73 bp):
TCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAAGCAGAAATTGAAAATACC
TCAACGTG
Found at i:89722034 original size:63 final size:63
Alignment explanation
Indices: 89721935--89722059 Score: 232
Period size: 63 Copynumber: 2.0 Consensus size: 63
89721925 TTTTGAAAAG
89721935 CAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAA
1 CAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAA
* *
89721998 CAGAAATTGAAATTACCTCAATGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGA
1 CAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGA
89722060 TTCTTTCAAA
Statistics
Matches: 60, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
63 60 1.00
ACGTcount: A:0.32, C:0.20, G:0.18, T:0.30
Consensus pattern (63 bp):
CAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAA
Found at i:89722145 original size:88 final size:87
Alignment explanation
Indices: 89721996--89722239 Score: 285
Period size: 88 Copynumber: 2.7 Consensus size: 87
89721986 ATATGAGTTG
* ** * **
89721996 AACAGAAATTGAAATTACCTCAATGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAT
1 AACAGAAATTGAAAATACCTCGGTGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGAT
89722061 TCTTTCAAAAACATAATAAT-AAA
66 TCTTTCAAAAACA-AA-AATCAAA
* *
89722084 AACAGAAATGGAAAATACCTCGGTGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGAT
1 AACAGAAATTGAAAATACCTCGGTGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-
* * *
89722149 TTTTTTTGAAAAACAGAAATCAAA
65 -TTCTTTCAAAAACAAAAATCAAA
* **
89722173 AGGC-TTAATTGAAAATACCTCGGCGTGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTT
1 A-ACAGAAATTGAAAATACCTC-G-GTGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTT
89722237 GAT
63 GAT
89722240 ATTAAAACAC
Statistics
Matches: 134, Mismatches: 16, Indels: 11
0.83 0.10 0.07
Matches are distributed among these distances:
88 59 0.44
89 20 0.15
90 14 0.10
91 41 0.31
ACGTcount: A:0.34, C:0.20, G:0.17, T:0.29
Consensus pattern (87 bp):
AACAGAAATTGAAAATACCTCGGTGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGAT
TCTTTCAAAAACAAAAATCAAA
Found at i:89722335 original size:14 final size:15
Alignment explanation
Indices: 89722315--89722364 Score: 57
Period size: 14 Copynumber: 3.3 Consensus size: 15
89722305 AGCTGATTTC
*
89722315 GAAAAAGTAGAAATT
1 GAAAAAGCAGAAATT
89722330 -AAAAAGCAGAAATT
1 GAAAAAGCAGAAATT
* *
89722344 GAAAAAACGAAAAATT
1 GAAAAAGC-AGAAATT
89722360 GAAAA
1 GAAAA
89722365 TACCTCAGCG
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
14 13 0.43
15 6 0.20
16 11 0.37
ACGTcount: A:0.66, C:0.04, G:0.16, T:0.14
Consensus pattern (15 bp):
GAAAAAGCAGAAATT
Found at i:89722948 original size:73 final size:73
Alignment explanation
Indices: 89722796--89723815 Score: 630
Period size: 73 Copynumber: 13.7 Consensus size: 73
89722786 ACGTGAGCCA
* * ** * * *
89722796 AGGCTCAACTCACCTTTCGCAATGTGAGTTGATTTTTTTG-AAAGTAGAATTTGAAAATACCTCG
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGA--TTTTTGAAAAACAGAAATTGAAATTACCTCA
* *
89722860 GCGTGCCCCG
64 GCGTGTCCTG
*
89722870 AGGCTCAACTCACCTATCGCAATATGAGTTGATTTTTGAAAAACAGAAATTGAAATTACCTCAGC
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTGAAATTACCTCAGC
89722935 GTGTCCTG
66 GTGTCCTG
*
89722943 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACATAAATTGAACAGGAATTGAA
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTG---A--AA-T---
* *
89723008 ATACCTCAACGTGTCTTG
57 -TACCTCAGCGTGTCCTG
* *
89723026 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTCTTGAAAAGCAGAAATTGAAAATACCTCA
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTT-TTGAAAAACAGAAATTGAAATTACCTCA
** *
89723091 ATGTGTCTTG
64 GCGTGTCCTG
*
89723101 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTG-ACAACAGAAATTGAAATTACCTCAG
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTGAAAAACAGAAATTGAAATTACCTCAG
89723165 CGTGTCCTG
65 CGTGTCCTG
** ** * *
89723174 AGGCTCAACTCATTTCTCGCAATATGAGTTGAAATTTGGAAAACAGAAATTAAAAGGTTCAACC-
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTGAAA--TT--ACCT
* *
89723238 CA-CCTCTCGCAATATG
62 CAGCGTGTC-C----TG
* *** * * * * * * * * * ** *
89723254 AGTTGAT-TTTTGAACAC-AG-AATTTGCCAAATAGA-TTTTGAAAATAC----CTCGGCA-TGC
1 AG--GCTCAACTCACCTCTCGCAATATG---AGTTGATTTTTGAAAA-ACAGAAATTGAAATTAC
* * *
89723310 C-C--CGAG-GCTC
60 CTCAGCGTGTCCTG
* * * * * *** *
89723320 A-ACTCACCTCTCGCAATAT-G-AGT-TGA-TT--TTTGAAAAACAGAAATTGAAA-T-----TA
1 AGGCTCAACTCAC-C--TCTCGCAATATGAGTTGATTTTTGAAA-A-ACA--GAAATTGAAATTA
89723372 CCTCAGCGTGTCCTG
59 CCTCAGCGTGTCCTG
*
89723387 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACATAAATTGAACAGAAATTGAA
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATT-----GAAA-T---
* * *
89723452 ATACCTCAACGTGTCTTA
57 -TACCTCAGCGTGTCCTG
* *
89723470 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTCTTGAAAAGCAGAAATTGAAAATACCTCA
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTT-TTGAAAAACAGAAATTGAAATTACCTCA
** *
89723535 ATGTGTCTTG
64 GCGTGTCCTG
* * *
89723545 AGGCTCAACTCACCTCTCGCAATATGTGTTGATTTTTTG-ACAACAGAAATTGAAATTACCTAAG
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTGAAAAACAGAAATTGAAATTACCTCAG
89723609 CGTGTCCTG
65 CGTGTCCTG
* * *
89723618 AGGTTCAACTCACCTCTAGCAATATGAGTTGA-TTTTGAAAAACAAAAATTGAAATTACCTCAGC
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTGAAATTACCTCAGC
89723682 GTGTCCTG
66 GTGTCCTG
** ** *
89723690 AGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTTTTTTTACAACAGAAATTGAAATTACCTC
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGA---TTTTTGAAAAACAGAAATTGAAATTACCTC
89723755 AGCGTGTCCTG
63 AGCGTGTCCTG
* * *
89723766 AGGTTCAACTCACCTCTAGCAATATGAGTTGA-TTTTGAAAAACAAAAATT
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATT
89723816 AAAAGGCTTA
Statistics
Matches: 743, Mismatches: 127, Indels: 154
0.73 0.12 0.15
Matches are distributed among these distances:
61 5 0.01
62 3 0.00
63 5 0.01
64 2 0.00
65 3 0.00
66 8 0.01
67 12 0.02
68 12 0.02
69 4 0.01
70 2 0.00
71 11 0.01
72 84 0.11
73 208 0.28
74 36 0.05
75 109 0.15
76 68 0.09
77 3 0.00
78 4 0.01
79 6 0.01
80 11 0.01
81 10 0.01
82 9 0.01
83 93 0.13
84 6 0.01
85 29 0.04
ACGTcount: A:0.32, C:0.20, G:0.17, T:0.30
Consensus pattern (73 bp):
AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTGAAATTACCTCAGC
GTGTCCTG
Found at i:89723123 original size:231 final size:230
Alignment explanation
Indices: 89722355--89723815 Score: 1305
Period size: 231 Copynumber: 6.3 Consensus size: 230
89722345 AAAAAACGAA
*
89722355 AAATTGAAAATACCTCAGCGTG-CGAGCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTT
1 AAATTGAAAATACCTCAGCGTGTC---CTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA---
* * * * **
89722419 TTTTTTGAAAAGCAGAACTTGAACA-TACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAA
60 -TTTTTGAAAAACAGAAATTGAA-ATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAA
* * * * * ***
89722483 TATGAGTTAAATTTTTTTTGAGAAGCAGAAATTGGAAAAAACATCTATTGAAAATACCTTGGCGT
123 TATGAGTT-GA----TTTTGAAAAACAGAAATT-GAACAGA-A---ATTG-AAATACCTCAACG-
* * * * * *
89722548 ATGACTTGAGG-TCCATTCACCTCTAGCAATATGAATTGATTTTTGAAAACATAATTGAAAAACA
176 -TGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTT-----C----TTGAAAAGCA
89722612 G
230 G
* * *
89722613 AAATGGAAAATACCTCAGCATGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGGTTTTTG
1 AAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTG
** * * *
89722678 CCAAACAGTAATTGAAAATACCTCAGCGTG-CCCGAGGCTCAACTCACCTCTCGCAATATGAGTT
66 AAAAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTT
* * ** * **
89722742 GATTTAG-AAAACAGACATAAAACAGAAATTGAAAGTGA-CTCAACACGTGAGC-CAAGGCTCAA
131 GATTTTGAAAAACAGAAATTGAACAGAAATTGAAA-T-ACCTC-A-ACGTG-TCTTGAGGCTCAA
* * * *
89722804 CTCACCTTTCGCAATGTGAGTTGATTTTTTTG-AAAGTAG
191 CTCACCTCTCGCAATATGAGTTGATTTTCTTGAAAAGCAG
* * * * *
89722843 AATTTGAAAATACCTCGGCGTGCCCCGAGGCTCAACTCACCTATCGCAATATGAGTTGATTTTTG
1 AAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTG
89722908 AAAAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTT
66 AAAAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTT
* *
89722973 GATTTTTGAAAAACATAAATTGAACAGGAATTGAAATACCTCAACGTGTCTTGAGGCTCAACTCA
131 GA-TTTTGAAAAACAGAAATTGAACAGAAATTGAAATACCTCAACGTGTCTTGAGGCTCAACTCA
89723038 CCTCTCGCAATATGAGTTGATTTTCTTGAAAAGCAG
195 CCTCTCGCAATATGAGTTGATTTTCTTGAAAAGCAG
** *
89723074 AAATTGAAAATACCTCAATGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTT
1 AAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTT
* **
89723139 G-ACAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCATTTCTCGCAATATGAGT
65 GAAAAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGT
* * ** * ** * ** *
89723203 TGAAATTTGGAAAACAGAAATT-AA-A-AGGTTCAACCCACCTC-TCGCAAT-ATGA-G-T----
130 TG-ATTTTGAAAAACAGAAATTGAACAGAAATTGAA-ATACCTCAACG-TGTCTTGAGGCTCAAC
* * * * * * * * * *
89723257 TGA-TTTTTG-AACA-CAG--AATTTGC---CAAA-TAG
192 TCACCTCTCGCAATATGAGTTGATTTTCTTGAAAAGCAG
** * * * *
89723287 ATTTTGAAAATACCTCGGCATGCCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTG
1 AAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTG
89723352 AAAAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTT
66 AAAAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTT
* *
89723417 GATTTTTGAAAAACATAAATTGAACAGAAATTGAAATACCTCAACGTGTCTTAAGGCTCAACTCA
131 GA-TTTTGAAAAACAGAAATTGAACAGAAATTGAAATACCTCAACGTGTCTTGAGGCTCAACTCA
89723482 CCTCTCGCAATATGAGTTGATTTTCTTGAAAAGCAG
195 CCTCTCGCAATATGAGTTGATTTTCTTGAAAAGCAG
** * *
89723518 AAATTGAAAATACCTCAATGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGTGTTGATTTTTT
1 AAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTT
* * * *
89723583 G-ACAACAGAAATTGAAATTACCTAAGCGTGTCCTGAGGTTCAACTCACCTCTAGCAATATGAGT
65 GAAAAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGT
* * *
89723647 TGATTTTGAAAAACAAAAATT-----GAAA-T----TACCTCAGCGTGTCCTGAGGCTCAACTCA
130 TGATTTTGAAAAACAGAAATTGAACAGAAATTGAAATACCTCAACGTGTCTTGAGGCTCAACTCA
** * * *
89723702 TTTCTCGCAATATGAGTTGATTTTTTTTTTACAA-CAG
195 CCTCTCGCAATATGAGTTGA--TTTTCTTGAAAAGCAG
* * *
89723739 AAATTGAAATTACCTCAGCGTGTCCTGAGGTTCAACTCACCTCTAGCAATATGAGTTGA-TTTTG
1 AAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTG
*
89723803 AAAAACAAAAATT
66 AAAAACAGAAATT
89723816 AAAAGGCTTA
Statistics
Matches: 994, Mismatches: 165, Indels: 126
0.77 0.13 0.10
Matches are distributed among these distances:
212 7 0.01
213 129 0.13
214 5 0.01
215 7 0.01
216 9 0.01
217 6 0.01
218 1 0.00
219 7 0.01
220 57 0.06
221 58 0.06
222 13 0.01
223 3 0.00
224 4 0.00
225 6 0.01
226 1 0.00
227 6 0.01
228 9 0.01
229 8 0.01
230 152 0.15
231 287 0.29
232 21 0.02
233 22 0.02
239 3 0.00
240 16 0.02
241 24 0.02
242 2 0.00
243 1 0.00
244 4 0.00
245 8 0.01
246 4 0.00
250 1 0.00
251 31 0.03
252 28 0.03
256 33 0.03
258 20 0.02
259 1 0.00
ACGTcount: A:0.33, C:0.20, G:0.17, T:0.29
Consensus pattern (230 bp):
AAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTG
AAAAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTT
GATTTTGAAAAACAGAAATTGAACAGAAATTGAAATACCTCAACGTGTCTTGAGGCTCAACTCAC
CTCTCGCAATATGAGTTGATTTTCTTGAAAAGCAG
Found at i:89723197 original size:148 final size:147
Alignment explanation
Indices: 89722995--89723819 Score: 772
Period size: 148 Copynumber: 5.6 Consensus size: 147
89722985 ACATAAATTG
* * *
89722995 AACAGGAATTGAAA-TACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGAT
1 AACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGAT
* *
89723059 TTTCTTGAAAAGCAGAAATTGAAAATACCTCAATGTGTCTTGAGGCTCAACTCACCTCTCGCAAT
66 TTT-TTGAAAAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAAT
89723124 ATGAGTTGATTTTTTGAC
130 ATGAGTTGATTTTTTGAC
**
89723142 AACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCATTTCTCGCAATATGAGTTGA-
1 AACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGAT
** * *** **** * * * *
89723206 AATTTGGAAAACAGAAATT-AAAA-GGTTCAACCCACCTCT----CGCAATATGA-GT-T-G-AT
66 TTTTTGAAAAACAGAAATTGAAAATACCTCAACGTGTCT-TGAGGCTCAA-CTCACCTCTCGCA-
* * **** *** *
89723261 TTTTGAACACAGAATTTGCC
128 ATATGAGTTGATTTTTTGAC
* ** * * * * *
89723281 AAATAGATTTTGAAAATACCTCGGCATGCCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGA
1 -AACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA
* * *
89723346 -TTTTTGAAAAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAAT
65 TTTTTTGAAAAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAAT
89723410 ATGAGTTGA-TTTTTGAAAAAC
130 ATGAGTTGATTTTTTG----AC
* * *
89723431 ATAAATTGAACAGAAATTGAAA-TACCTCAACGTGTCTTAAGGCTCAACTCACCTCTCGCAATAT
1 --------AACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATAT
* *
89723495 GAGTTGATTTTCTTGAAAAGCAGAAATTGAAAATACCTCAATGTGTCTTGAGGCTCAACTCACCT
58 GAGTTGATTTT-TTGAAAAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCT
*
89723560 CTCGCAATATGTGTTGATTTTTTGAC
122 CTCGCAATATGAGTTGATTTTTTGAC
* * *
89723586 AACAGAAATTGAAATTACCTAAGCGTGTCCTGAGGTTCAACTCACCTCTAGCAATATGAGTTGA-
1 AACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGAT
* * * * **
89723650 -TTTTGAAAAACAAAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCATTTCTCGCAATA
66 TTTTTGAAAAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATA
*
89723714 TGAGTTGATTTTTTTTTTAC
131 TGAGTTGA---TTTTTTGAC
* *
89723734 AACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGTTCAACTCACCTCTAGCAATATGAGTTGA-
1 AACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGAT
*
89723798 -TTTTGAAAAACAAAAATT-AAAA
66 TTTTTGAAAAACAGAAATTGAAAA
89723820 GGCTTAACTC
Statistics
Matches: 543, Mismatches: 102, Indels: 66
0.76 0.14 0.09
Matches are distributed among these distances:
138 1 0.00
139 11 0.02
140 71 0.13
141 9 0.02
142 7 0.01
144 8 0.01
145 71 0.13
146 21 0.04
147 37 0.07
148 178 0.33
150 1 0.00
155 2 0.00
156 42 0.08
157 14 0.03
158 64 0.12
159 6 0.01
ACGTcount: A:0.33, C:0.20, G:0.17, T:0.30
Consensus pattern (147 bp):
AACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGAT
TTTTTGAAAAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATA
TGAGTTGATTTTTTGAC
Found at i:89723912 original size:121 final size:125
Alignment explanation
Indices: 89723690--89723922 Score: 321
Period size: 121 Copynumber: 1.9 Consensus size: 125
89723680 GCGTGTCCTG
* * *
89723690 AGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTTTTTTTACAACAGAAATTGAAATTACCTC
1 AGGCTCAACTCACTTCTCGCAATATGAGTTGA---TTTTTTTA-AACAGAAATTAAAAATACCTC
* *
89723755 AGCGTGTCCTGAGGTTCAACTCACCTCTAGCAATATGAGTTGATTTTGAAAAACAAAAATTAAA
62 AACGTGTCCTGAGGCTCAACTCACCTCTAGCAATATGAGTTGATTTTGAAAAACAAAAATTAAA
*
89723819 AGGCTTAACTCACTTCTCGCAATATGAGTTGA-TTTTTT-AA-A-AAATTAAAAATACCTCAACG
1 AGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTTTAAACAGAAATTAAAAATACCTCAACG
* * *
89723880 TGTCTTGAGGCTCAACTCATCTCTCGCAATATGAGTTGATTTT
66 TGTCCTGAGGCTCAACTCACCTCTAGCAATATGAGTTGATTTT
89723923 CCTTGAAAAG
Statistics
Matches: 95, Mismatches: 9, Indels: 8
0.85 0.08 0.07
Matches are distributed among these distances:
121 56 0.59
122 1 0.01
123 2 0.02
125 6 0.06
129 30 0.32
ACGTcount: A:0.33, C:0.18, G:0.15, T:0.34
Consensus pattern (125 bp):
AGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTTTAAACAGAAATTAAAAATACCTCAACG
TGTCCTGAGGCTCAACTCACCTCTAGCAATATGAGTTGATTTTGAAAAACAAAAATTAAA
Found at i:89739088 original size:43 final size:43
Alignment explanation
Indices: 89739031--89739203 Score: 170
Period size: 43 Copynumber: 4.0 Consensus size: 43
89739021 ACATTAGGTT
* *
89739031 ATCGAGATATGATTACATGTAAGACCATGTCTGGGACATTGGC
1 ATCGATATTTGATTACATGTAAGACCATGTCTGGGACATTGGC
* ** * *
89739074 ATTG-TATTGTGATTATGTATAAAACCATGTCTGGGACATTGGC
1 ATCGATATT-TGATTACATGTAAGACCATGTCTGGGACATTGGC
* * * * * * *
89739117 ATCGTTAATCGATTTCGTGTAAGACCCTGTCTGGGACAGTGGC
1 ATCGATATTTGATTACATGTAAGACCATGTCTGGGACATTGGC
* * *
89739160 ATCGATATTTGATAACATGTAAGACCATATCTGGGATA-TGGC
1 ATCGATATTTGATTACATGTAAGACCATGTCTGGGACATTGGC
89739202 AT
1 AT
89739204 TGTACAAGCT
Statistics
Matches: 103, Mismatches: 25, Indels: 5
0.77 0.19 0.04
Matches are distributed among these distances:
42 8 0.08
43 92 0.89
44 3 0.03
ACGTcount: A:0.28, C:0.16, G:0.24, T:0.32
Consensus pattern (43 bp):
ATCGATATTTGATTACATGTAAGACCATGTCTGGGACATTGGC
Found at i:89739461 original size:29 final size:29
Alignment explanation
Indices: 89739419--89739478 Score: 120
Period size: 29 Copynumber: 2.1 Consensus size: 29
89739409 TGCCAAAATG
89739419 TGTTTATTTGGCTATAATGAGGTATGAAT
1 TGTTTATTTGGCTATAATGAGGTATGAAT
89739448 TGTTTATTTGGCTATAATGAGGTATGAAT
1 TGTTTATTTGGCTATAATGAGGTATGAAT
89739477 TG
1 TG
89739479 CATGACATGT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 31 1.00
ACGTcount: A:0.27, C:0.03, G:0.25, T:0.45
Consensus pattern (29 bp):
TGTTTATTTGGCTATAATGAGGTATGAAT
Found at i:89740641 original size:9 final size:9
Alignment explanation
Indices: 89740627--89740651 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
89740617 GGTATTTTTC
89740627 GGTAATTCG
1 GGTAATTCG
89740636 GGTAATTCG
1 GGTAATTCG
89740645 GGTAATT
1 GGTAATT
89740652 TTTAACCAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.24, C:0.08, G:0.32, T:0.36
Consensus pattern (9 bp):
GGTAATTCG
Found at i:89741913 original size:15 final size:14
Alignment explanation
Indices: 89741857--89741927 Score: 56
Period size: 15 Copynumber: 4.9 Consensus size: 14
89741847 TTATTATGTT
*
89741857 TCTATTTATATTTA
1 TCTATTTTTATTTA
*
89741871 T-T-TTGTTATTCTAA
1 TCTATTTTTATT-T-A
*
89741885 TACTATTATTATTTA
1 T-CTATTTTTATTTA
89741900 TCTAATTTTTATTTA
1 TCT-ATTTTTATTTA
*
89741915 TCTATTTATATTT
1 TCTATTTTTATTT
89741928 CTACTATTAT
Statistics
Matches: 46, Mismatches: 5, Indels: 12
0.73 0.08 0.19
Matches are distributed among these distances:
12 6 0.13
13 2 0.04
14 14 0.30
15 15 0.33
16 2 0.04
17 7 0.15
ACGTcount: A:0.27, C:0.07, G:0.01, T:0.65
Consensus pattern (14 bp):
TCTATTTTTATTTA
Found at i:89741926 original size:29 final size:28
Alignment explanation
Indices: 89741857--89741927 Score: 67
Period size: 29 Copynumber: 2.5 Consensus size: 28
89741847 TTATTATGTT
89741857 TCTATTTATATTTATTTTGTTATTCTAA
1 TCTATTTATATTTATTTTGTTATTCTAA
*
89741885 TACTA-TTATTATTTATCTAATTTTTATT-T-A
1 T-CTATTTA-TATTTAT-T--TTGTTATTCTAA
89741915 TCTATTTATATTT
1 TCTATTTATATTT
89741928 CTACTATTAT
Statistics
Matches: 36, Mismatches: 1, Indels: 11
0.75 0.02 0.23
Matches are distributed among these distances:
28 4 0.11
29 18 0.50
30 6 0.17
31 1 0.03
32 7 0.19
ACGTcount: A:0.27, C:0.07, G:0.01, T:0.65
Consensus pattern (28 bp):
TCTATTTATATTTATTTTGTTATTCTAA
Found at i:89741952 original size:15 final size:17
Alignment explanation
Indices: 89741924--89741991 Score: 59
Period size: 17 Copynumber: 3.9 Consensus size: 17
89741914 ATCTATTTAT
89741924 ATTTCTACTATTATTAA
1 ATTTCTACTATTATTAA
*
89741941 ATTTCTA-T-TTATTAT
1 ATTTCTACTATTATTAA
* *
89741956 ATTTCTGTTTCTATTTATTAT
1 ATTTC---TACTA-TTATTAA
89741977 ATTTCTACTATTATT
1 ATTTCTACTATTATT
89741992 TTCATTATTA
Statistics
Matches: 42, Mismatches: 3, Indels: 12
0.74 0.05 0.21
Matches are distributed among these distances:
15 11 0.26
16 1 0.02
17 12 0.29
18 5 0.12
19 1 0.02
21 12 0.29
ACGTcount: A:0.26, C:0.10, G:0.01, T:0.62
Consensus pattern (17 bp):
ATTTCTACTATTATTAA
Found at i:89741968 original size:21 final size:21
Alignment explanation
Indices: 89741942--89741982 Score: 82
Period size: 21 Copynumber: 2.0 Consensus size: 21
89741932 TATTATTAAA
89741942 TTTCTATTTATTATATTTCTG
1 TTTCTATTTATTATATTTCTG
89741963 TTTCTATTTATTATATTTCT
1 TTTCTATTTATTATATTTCT
89741983 ACTATTATTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.20, C:0.10, G:0.02, T:0.68
Consensus pattern (21 bp):
TTTCTATTTATTATATTTCTG
Found at i:89741991 original size:21 final size:21
Alignment explanation
Indices: 89741944--89741992 Score: 64
Period size: 21 Copynumber: 2.3 Consensus size: 21
89741934 TTATTAAATT
* *
89741944 TCTATTTATTATATTTCTGTT
1 TCTATTTATTATATTTCTCTA
89741965 TCTATTTATTATATTTCTACTA
1 TCTATTTATTATATTTCT-CTA
89741987 T-TATTT
1 TCTATTT
89741993 TCATTATTAT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
21 23 0.92
22 2 0.08
ACGTcount: A:0.22, C:0.10, G:0.02, T:0.65
Consensus pattern (21 bp):
TCTATTTATTATATTTCTCTA
Found at i:89742000 original size:12 final size:13
Alignment explanation
Indices: 89741887--89742005 Score: 56
Period size: 15 Copynumber: 9.0 Consensus size: 13
89741877 TATTCTAATA
89741887 CTATTATTATTTAT
1 CTATTATTATTT-T
*
89741901 CTAATTTTTATTTAT
1 CT-ATTATTATTT-T
89741916 CTATT-TATATTTCT
1 CTATTAT-TATTT-T
*
89741930 ACTATTATTAAATTT
1 -CTATTATT-ATTTT
89741945 CTATTTATTATATTT
1 CTA-TTATTAT-TTT
*
89741960 CTGTT-TCTA--TT
1 CTATTAT-TATTTT
89741971 -TATTA-TA-TTT
1 CTATTATTATTTT
*
89741981 CTACTATTATTTT
1 CTATTATTATTTT
89741994 C-ATTATTATTTT
1 CTATTATTATTTT
89742006 TCTTATATAT
Statistics
Matches: 84, Mismatches: 8, Indels: 28
0.70 0.07 0.23
Matches are distributed among these distances:
9 2 0.02
10 5 0.06
11 6 0.07
12 12 0.14
13 6 0.07
14 19 0.23
15 30 0.36
16 4 0.05
ACGTcount: A:0.26, C:0.09, G:0.01, T:0.64
Consensus pattern (13 bp):
CTATTATTATTTT
Found at i:89742115 original size:3 final size:3
Alignment explanation
Indices: 89742107--89742278 Score: 126
Period size: 3 Copynumber: 57.7 Consensus size: 3
89742097 TTTAAAACTT
89742107 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA -TA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* * * *
89742154 TT- TCTA CGTA CTA -TA TT- TCTA TT- TATA TTTA TGTA TTA ATA TCA
1 TTA T-TA -TTA TTA TTA TTA T-TA TTA T-TA -TTA T-TA TTA TTA TTA
* * * *
89742198 TTA TT- TTT TTA TT- TT- TTA TTA TTA TCA TTA TTA TTA CTA TTA GTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* * *
89742243 CTA TTA TTA TTT TCTA TTA TTA TTA CTA TTA TTA TT
1 TTA TTA TTA TTA T-TA TTA TTA TTA TTA TTA TTA TT
89742279 TATAGTATAT
Statistics
Matches: 137, Mismatches: 18, Indels: 28
0.75 0.10 0.15
Matches are distributed among these distances:
2 13 0.09
3 113 0.82
4 10 0.07
5 1 0.01
ACGTcount: A:0.30, C:0.06, G:0.02, T:0.63
Consensus pattern (3 bp):
TTA
Found at i:89743329 original size:6 final size:6
Alignment explanation
Indices: 89743318--89743346 Score: 58
Period size: 6 Copynumber: 4.8 Consensus size: 6
89743308 TGGCGACTCC
89743318 CATTTT CATTTT CATTTT CATTTT CATTT
1 CATTTT CATTTT CATTTT CATTTT CATTT
89743347 CCAAAATAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.17, C:0.17, G:0.00, T:0.66
Consensus pattern (6 bp):
CATTTT
Found at i:89749904 original size:13 final size:12
Alignment explanation
Indices: 89749886--89749930 Score: 58
Period size: 13 Copynumber: 3.8 Consensus size: 12
89749876 AGGTGGTTGT
89749886 TTTTCTTTTTAAA
1 TTTTCTTTTT-AA
89749899 TTTTCTTTTTAA
1 TTTTCTTTTTAA
*
89749911 TTTTC-CTTT-A
1 TTTTCTTTTTAA
89749921 TTTTCTTTTT
1 TTTTCTTTTT
89749931 CCCAAATTTC
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
10 6 0.21
11 6 0.21
12 7 0.24
13 10 0.34
ACGTcount: A:0.13, C:0.11, G:0.00, T:0.76
Consensus pattern (12 bp):
TTTTCTTTTTAA
Found at i:89761548 original size:11 final size:11
Alignment explanation
Indices: 89761532--89761564 Score: 52
Period size: 11 Copynumber: 3.2 Consensus size: 11
89761522 AATGTTTTCT
89761532 AATAAATTTAA
1 AATAAATTTAA
89761543 AATAAATTTAA
1 AATAAATTTAA
89761554 AA-AAA-TTAA
1 AATAAATTTAA
89761563 AA
1 AA
89761565 AACTTTATAC
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
9 6 0.27
10 3 0.14
11 13 0.59
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (11 bp):
AATAAATTTAA
Found at i:89766887 original size:24 final size:26
Alignment explanation
Indices: 89766857--89766910 Score: 67
Period size: 26 Copynumber: 2.2 Consensus size: 26
89766847 TTTTGTATAT
*
89766857 ATTTTTA-AAA-ATATAAATTTTAGA
1 ATTTTTACAAACATATAAATTTTAAA
* *
89766881 ATTTTTACAAACATTTTAATTTTAAA
1 ATTTTTACAAACATATAAATTTTAAA
89766907 ATTT
1 ATTT
89766911 ATTTTAAATT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
24 7 0.28
25 3 0.12
26 15 0.60
ACGTcount: A:0.44, C:0.04, G:0.02, T:0.50
Consensus pattern (26 bp):
ATTTTTACAAACATATAAATTTTAAA
Found at i:89766922 original size:19 final size:19
Alignment explanation
Indices: 89766893--89766942 Score: 68
Period size: 20 Copynumber: 2.6 Consensus size: 19
89766883 TTTTACAAAC
89766893 ATTTT-AATTTT-AAAATTT
1 ATTTTAAATTTTGAAAA-TT
89766911 ATTTTAAATTTTTGAAAATT
1 ATTTTAAA-TTTTGAAAATT
89766931 ATTTTAAATTTT
1 ATTTTAAATTTT
89766943 TTTATAAATA
Statistics
Matches: 29, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
18 5 0.17
19 6 0.21
20 14 0.48
21 4 0.14
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.60
Consensus pattern (19 bp):
ATTTTAAATTTTGAAAATT
Found at i:89766944 original size:21 final size:20
Alignment explanation
Indices: 89766900--89766943 Score: 72
Period size: 20 Copynumber: 2.2 Consensus size: 20
89766890 AACATTTTAA
89766900 TTTTAAAATTTATTTTAAAT
1 TTTTAAAATTTATTTTAAAT
89766920 TTTTGAAAA-TTATTTTAAAT
1 TTTT-AAAATTTATTTTAAAT
89766940 TTTT
1 TTTT
89766944 TTATAAATAG
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
20 19 0.83
21 4 0.17
ACGTcount: A:0.36, C:0.00, G:0.02, T:0.61
Consensus pattern (20 bp):
TTTTAAAATTTATTTTAAAT
Found at i:89769260 original size:17 final size:18
Alignment explanation
Indices: 89769223--89769260 Score: 60
Period size: 18 Copynumber: 2.2 Consensus size: 18
89769213 GAAATCATGG
*
89769223 TTTAGGTTGAAAATTTGA
1 TTTAGGTTGAAAATGTGA
89769241 TTTAGGTTGAAAA-GTGA
1 TTTAGGTTGAAAATGTGA
89769258 TTT
1 TTT
89769261 TCAACGTCAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 6 0.32
18 13 0.68
ACGTcount: A:0.32, C:0.00, G:0.24, T:0.45
Consensus pattern (18 bp):
TTTAGGTTGAAAATGTGA
Found at i:89772522 original size:36 final size:36
Alignment explanation
Indices: 89772476--89772545 Score: 95
Period size: 36 Copynumber: 1.9 Consensus size: 36
89772466 ATAATAAAAT
* * *
89772476 TAATATTAAAATAAGAGTTATACAATATCCAAATAA
1 TAATAATAAAATAAGAGTAATACAATAACCAAATAA
* *
89772512 TAATAATAAAATAATAGTAATATAATAACCAAAT
1 TAATAATAAAATAAGAGTAATACAATAACCAAAT
89772546 GATATTAAAA
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
36 29 1.00
ACGTcount: A:0.59, C:0.07, G:0.04, T:0.30
Consensus pattern (36 bp):
TAATAATAAAATAAGAGTAATACAATAACCAAATAA
Found at i:89772523 original size:14 final size:14
Alignment explanation
Indices: 89772506--89772539 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
89772496 TACAATATCC
89772506 AAATAATAATAATA
1 AAATAATAATAATA
*
89772520 AAATAATAGTAATA
1 AAATAATAATAATA
*
89772534 TAATAA
1 AAATAA
89772540 CCAAATGATA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.68, C:0.00, G:0.03, T:0.29
Consensus pattern (14 bp):
AAATAATAATAATA
Found at i:89773291 original size:16 final size:16
Alignment explanation
Indices: 89773270--89773304 Score: 70
Period size: 16 Copynumber: 2.2 Consensus size: 16
89773260 TTCTACAATT
89773270 ACGAGAATTAAGTAAA
1 ACGAGAATTAAGTAAA
89773286 ACGAGAATTAAGTAAA
1 ACGAGAATTAAGTAAA
89773302 ACG
1 ACG
89773305 GCAAAGGATC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.54, C:0.09, G:0.20, T:0.17
Consensus pattern (16 bp):
ACGAGAATTAAGTAAA
Found at i:89786159 original size:46 final size:46
Alignment explanation
Indices: 89786099--89786364 Score: 343
Period size: 46 Copynumber: 6.0 Consensus size: 46
89786089 TTTGACGTGA
* * * * * *
89786099 TGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTC-TGTCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACA-TTTCATATCAGGT
* ** * * *
89786145 TGCCATGGTATCTTTCAACCATAGTCTTATTCTTTTCATGTCACGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
*
89786191 TGCCATGGTATCTTTCAACCATGGTCTTACACATCTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
89786237 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
89786283 TGCCATGGTATCTTTCAACCATGGTCTT--ACA---C--AT-AGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
89786321 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
89786365 AGAGCACACT
Statistics
Matches: 196, Mismatches: 15, Indels: 18
0.86 0.07 0.08
Matches are distributed among these distances:
38 32 0.16
39 2 0.01
40 3 0.02
41 1 0.01
43 1 0.01
44 3 0.02
45 6 0.03
46 148 0.76
ACGTcount: A:0.22, C:0.24, G:0.15, T:0.39
Consensus pattern (46 bp):
TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
Found at i:89786330 original size:38 final size:38
Alignment explanation
Indices: 89786279--89786354 Score: 152
Period size: 38 Copynumber: 2.0 Consensus size: 38
89786269 ATTTCATATC
89786279 AGGTTGCCATGGTATCTTTCAACCATGGTCTTACACAT
1 AGGTTGCCATGGTATCTTTCAACCATGGTCTTACACAT
89786317 AGGTTGCCATGGTATCTTTCAACCATGGTCTTACACAT
1 AGGTTGCCATGGTATCTTTCAACCATGGTCTTACACAT
89786355 TTCATATCAG
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 38 1.00
ACGTcount: A:0.24, C:0.24, G:0.18, T:0.34
Consensus pattern (38 bp):
AGGTTGCCATGGTATCTTTCAACCATGGTCTTACACAT
Done.