Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A11
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: 113101708
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2797742 characters in sequence are not A, C, G, or T
File 252 of 352
Found at i:83151913 original size:5 final size:5
Alignment explanation
Indices: 83151903--83151927 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
83151893 GATACAATTC
83151903 ATCAT ATCAT ATCAT ATCAT ATCAT
1 ATCAT ATCAT ATCAT ATCAT ATCAT
83151928 TCTATTTTCT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.40, C:0.20, G:0.00, T:0.40
Consensus pattern (5 bp):
ATCAT
Found at i:83152179 original size:26 final size:26
Alignment explanation
Indices: 83152150--83152391 Score: 229
Period size: 26 Copynumber: 9.3 Consensus size: 26
83152140 ACATCGGCTT
*
83152150 AAGGCCTGTTAAATAAACACAGACTC
1 AAGGCCTGTTAAATAAACACCGACTC
** *
83152176 AAGGCCTACTAAATAAACACCGGCTC
1 AAGGCCTGTTAAATAAACACCGACTC
* ** * *
83152202 AAGGCTTACTAAATAACCACCGGCTC
1 AAGGCCTGTTAAATAAACACCGACTC
* * *
83152228 AAGGCCTGCTAAATAACCACTGACTC
1 AAGGCCTGTTAAATAAACACCGACTC
* * *
83152254 AGGGCTTGTTAAATAAACA-CTAGCTC
1 AAGGCCTGTTAAATAAACACCGA-CTC
* *
83152280 AAGGCCTTTTAAATGAACACC-AGCTC
1 AAGGCCTGTTAAATAAACACCGA-CTC
* *
83152306 AAGGCCTGTTAAATAACCACCGGCTC
1 AAGGCCTGTTAAATAAACACCGACTC
* *
83152332 AATGCCTGTTAAAAAAACACCGACTC
1 AAGGCCTGTTAAATAAACACCGACTC
* *
83152358 AATGCCTGCTAAAT-AACTACCGACTC
1 AAGGCCTGTTAAATAAAC-ACCGACTC
83152384 AAGGCCTG
1 AAGGCCTG
83152392 CTTTTCCAGT
Statistics
Matches: 181, Mismatches: 31, Indels: 8
0.82 0.14 0.04
Matches are distributed among these distances:
25 4 0.02
26 176 0.97
27 1 0.01
ACGTcount: A:0.36, C:0.28, G:0.16, T:0.20
Consensus pattern (26 bp):
AAGGCCTGTTAAATAAACACCGACTC
Found at i:83152267 original size:78 final size:77
Alignment explanation
Indices: 83152144--83152393 Score: 259
Period size: 78 Copynumber: 3.2 Consensus size: 77
83152134 AAATATACAT
* * * **
83152144 CGGCTTAAGGCCTGTTAAATAAACACAGACTCAAGGCCTACTAAATAAACACCGGCTCAAGGCTT
1 CGGCTCAAGGCCTGCTAAATAACCACAGACTCAAGGCCTGTTAAATAAACACCGGCTCAAGGCTT
83152209 ACTAAATAACCAC
66 -CTAAATAACCAC
* * * **
83152222 CGGCTCAAGGCCTGCTAAATAACCACTGACTCAGGGCTTGTTAAATAAACACTAGCTCAAGGCCT
1 CGGCTCAAGGCCTGCTAAATAACCACAGACTCAAGGCCTGTTAAATAAACACCGGCTCAAGG-CT
*
83152287 TTTAAATGAA-CAC
65 TCTAAAT-AACCAC
* * * * * * * *
83152300 CAGCTCAAGGCCTGTTAAATAACCACCGGCTCAATGCCTGTTAAAAAAACACCGACTCAATGCCT
1 CGGCTCAAGGCCTGCTAAATAACCACAGACTCAAGGCCTGTTAAATAAACACCGGCTCAA-GGCT
* *
83152365 GCTAAATAACTAC
65 TCTAAATAACCAC
*
83152378 CGACTCAAGGCCTGCT
1 CGGCTCAAGGCCTGCT
83152394 TTTCCAGTAT
Statistics
Matches: 139, Mismatches: 29, Indels: 8
0.79 0.16 0.05
Matches are distributed among these distances:
77 2 0.01
78 131 0.94
79 6 0.04
ACGTcount: A:0.35, C:0.28, G:0.16, T:0.21
Consensus pattern (77 bp):
CGGCTCAAGGCCTGCTAAATAACCACAGACTCAAGGCCTGTTAAATAAACACCGGCTCAAGGCTT
CTAAATAACCAC
Found at i:83157021 original size:97 final size:97
Alignment explanation
Indices: 83156854--83157050 Score: 360
Period size: 97 Copynumber: 2.0 Consensus size: 97
83156844 AATTGTTGTC
*
83156854 TTGTTTACAATTTTTTTTTTTAGGATAATTGAAGAGCAACTAACTTCTTTAGAGTCAAGAATCAC
1 TTGTTTACAA-TTTTTTTTTTAGGATAATAGAAGAGCAACTAACTTCTTTAGAGTCAAGAATCAC
83156919 AAATAGGGAAAATAGCATTTATCTACAAATGTT
65 AAATAGGGAAAATAGCATTTATCTACAAATGTT
83156952 TTGTTTACAA-TTTTTTTTTAGGATAATAGAAGAGCAAACTAACTTCTTTAGAGTCAAGAATCAC
1 TTGTTTACAATTTTTTTTTTAGGATAATAGAAGAGC-AACTAACTTCTTTAGAGTCAAGAATCAC
83157016 AAATAGGGAAAATAGCATTTATCTACAAATGTT
65 AAATAGGGAAAATAGCATTTATCTACAAATGTT
83157049 TT
1 TT
83157051 AAATCGAGTC
Statistics
Matches: 97, Mismatches: 1, Indels: 3
0.96 0.01 0.03
Matches are distributed among these distances:
96 24 0.25
97 63 0.65
98 10 0.10
ACGTcount: A:0.38, C:0.11, G:0.14, T:0.37
Consensus pattern (97 bp):
TTGTTTACAATTTTTTTTTTAGGATAATAGAAGAGCAACTAACTTCTTTAGAGTCAAGAATCACA
AATAGGGAAAATAGCATTTATCTACAAATGTT
Found at i:83159200 original size:3 final size:3
Alignment explanation
Indices: 83159192--83159220 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
83159182 AACTTGATTT
83159192 TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
83159221 GGCTGAGGGG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:83163342 original size:46 final size:44
Alignment explanation
Indices: 83163289--83163464 Score: 165
Period size: 46 Copynumber: 3.8 Consensus size: 44
83163279 TATTTGGGCA
83163289 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG-GAA-G
*** * *
83163335 TCCGAACTCGTTGAGTTGAGTCCGAGTTCGAGAGATGTAACTAGGCA-
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-ACTTATG-GA-T-GGAAG
*
83163382 TCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG-GAA-G
* * * * * *
83163428 CCCGACCTCATTGATTTTAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
83163465 GCGGGTTATA
Statistics
Matches: 106, Mismatches: 17, Indels: 14
0.77 0.12 0.10
Matches are distributed among these distances:
43 1 0.01
44 3 0.03
45 1 0.01
46 64 0.60
47 32 0.30
48 1 0.01
49 3 0.03
50 1 0.01
ACGTcount: A:0.21, C:0.21, G:0.28, T:0.30
Consensus pattern (44 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGGAAG
Found at i:83163450 original size:93 final size:93
Alignment explanation
Indices: 83163285--83163457 Score: 274
Period size: 93 Copynumber: 1.9 Consensus size: 93
83163275 GGGATATTTG
* * *
83163285 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCATTGAG
83163350 TTGAGTCCGAGTTCGAGAGATGTAACTA
66 TTGAGTCCGAGTTCGAGAGATGTAACTA
* * * *
83163378 GGCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAACGCCCGACCTCATTGAT
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCATTGAG
*
83163443 TTTAGTCCGAGTTCG
66 TTGAGTCCGAGTTCG
83163458 CTTATGGGCG
Statistics
Matches: 72, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
93 72 1.00
ACGTcount: A:0.21, C:0.21, G:0.28, T:0.29
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCATTGAG
TTGAGTCCGAGTTCGAGAGATGTAACTA
Found at i:83166426 original size:15 final size:15
Alignment explanation
Indices: 83166387--83166465 Score: 83
Period size: 15 Copynumber: 5.4 Consensus size: 15
83166377 GTATCTTGGG
*
83166387 TTTCTTTATCCTGGA
1 TTTCTTTATTCTGGA
*
83166402 TCTCTTTATTCTGGA
1 TTTCTTTATTCTGGA
*
83166417 TTTCTTTATTC-GGG
1 TTTCTTTATTCTGGA
*
83166431 TTTCTCTA-TCTTGGA
1 TTTCTTTATTC-TGGA
*
83166446 TTTCTTTATTC-GGT
1 TTTCTTTATTCTGGA
83166460 TTTCTT
1 TTTCTT
83166466 GTTATCTTTG
Statistics
Matches: 53, Mismatches: 8, Indels: 7
0.78 0.12 0.10
Matches are distributed among these distances:
13 2 0.04
14 17 0.32
15 32 0.60
16 2 0.04
ACGTcount: A:0.10, C:0.18, G:0.14, T:0.58
Consensus pattern (15 bp):
TTTCTTTATTCTGGA
Found at i:83166450 original size:29 final size:29
Alignment explanation
Indices: 83166378--83166464 Score: 95
Period size: 29 Copynumber: 3.0 Consensus size: 29
83166368 CATAGTATCG
* * * *
83166378 TATCTTGGGTTTCTTTATCCTGGATCTCTT
1 TATCTTGGATTTCTTTATTC-GGATTTCTC
*
83166408 TAT-TCTGGATTTCTTTATTCGGGTTTCTC
1 TATCT-TGGATTTCTTTATTCGGATTTCTC
*
83166437 TATCTTGGATTTCTTTATTCGGTTTTCT
1 TATCTTGGATTTCTTTATTCGGATTTCT
83166465 TGTTATCTTT
Statistics
Matches: 49, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
29 32 0.65
30 17 0.35
ACGTcount: A:0.10, C:0.17, G:0.16, T:0.56
Consensus pattern (29 bp):
TATCTTGGATTTCTTTATTCGGATTTCTC
Found at i:83168899 original size:46 final size:46
Alignment explanation
Indices: 83168846--83168970 Score: 205
Period size: 46 Copynumber: 2.7 Consensus size: 46
83168836 TGGGCATCCA
*
83168846 AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCG
1 AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGCCCG
*
83168892 AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAATGCCCG
1 AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGCCCG
* * *
83168938 AGCTCGTTGAGTTGAGTCCGAGTGCGCTTATGG
1 AACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
83168971 GCGGGTTACA
Statistics
Matches: 74, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
46 74 1.00
ACGTcount: A:0.20, C:0.19, G:0.30, T:0.30
Consensus pattern (46 bp):
AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGCCCG
Found at i:83172130 original size:20 final size:21
Alignment explanation
Indices: 83172095--83172134 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 21
83172085 AGCTTATGCT
83172095 AAGTAAATAGAATGGAATGGA
1 AAGTAAATAGAATGGAATGGA
*
83172116 AAGTAAGTA-AATGGAATGG
1 AAGTAAATAGAATGGAATGG
83172135 TTAATGATGA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 10 0.56
21 8 0.44
ACGTcount: A:0.50, C:0.00, G:0.30, T:0.20
Consensus pattern (21 bp):
AAGTAAATAGAATGGAATGGA
Found at i:83182221 original size:13 final size:13
Alignment explanation
Indices: 83182203--83182229 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
83182193 GCCTGATAGG
83182203 GACACGCCCGTGT
1 GACACGCCCGTGT
83182216 GACACGCCCGTGT
1 GACACGCCCGTGT
83182229 G
1 G
83182230 CGAGTGTTTC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.15, C:0.37, G:0.33, T:0.15
Consensus pattern (13 bp):
GACACGCCCGTGT
Found at i:83184934 original size:23 final size:22
Alignment explanation
Indices: 83184882--83184934 Score: 56
Period size: 23 Copynumber: 2.4 Consensus size: 22
83184872 TCCACGTCTT
*
83184882 TTTCTTTTGTTTCTTTTTCTAA
1 TTTCTTTTCTTTCTTTTTCTAA
83184904 -TTCATTTTCTCTTCTTTCTTC-AA
1 TTTC-TTTTCT-TTCTTT-TTCTAA
83184927 TTTCTTTT
1 TTTCTTTT
83184935 TCACTCTCAA
Statistics
Matches: 26, Mismatches: 1, Indels: 7
0.76 0.03 0.21
Matches are distributed among these distances:
21 3 0.12
22 5 0.19
23 12 0.46
24 6 0.23
ACGTcount: A:0.09, C:0.19, G:0.02, T:0.70
Consensus pattern (22 bp):
TTTCTTTTCTTTCTTTTTCTAA
Found at i:83194227 original size:55 final size:54
Alignment explanation
Indices: 83194140--83194394 Score: 260
Period size: 55 Copynumber: 4.8 Consensus size: 54
83194130 ATTAGGGTTT
*
83194140 AAGGATACCATGTAAGACCATGCCAAGGCATGGCAATTGGTAAGGTTTCTAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCAATTGGTAA-GTTTCTAAGGC
* * * * *
83194195 AAGGAAATCATGTAAGACCATGTCAAGACATGGC-ATTGATAAGTTACTATAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCAATTGGTAAGTT--TCTAAGGC
* * *
83194250 AAAGG-TCCCATGTAAGACCATGCCAAGGCATGGC-ATTGGTGAG-TTCATAAGGC
1 -AAGGATACCATGTAAGACCATGCCAAGACATGGCAATTGGTAAGTTTC-TAAGGC
* *
83194303 AAGGATACCATGTAAGACCATGTCAAGACATGACAA-TGGTAAGTTTC-AA---
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCAATTGGTAAGTTTCTAAGGC
* * **
83194352 AAGGATACCACGTAAGACCATGACAAGTTATGGCAA-TGGTAAG
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCAATTGGTAAG
83194395 GTACCCGCGT
Statistics
Matches: 169, Mismatches: 24, Indels: 20
0.79 0.11 0.09
Matches are distributed among these distances:
49 38 0.22
52 7 0.04
53 40 0.24
54 12 0.07
55 68 0.40
56 4 0.02
ACGTcount: A:0.36, C:0.17, G:0.25, T:0.22
Consensus pattern (54 bp):
AAGGATACCATGTAAGACCATGCCAAGACATGGCAATTGGTAAGTTTCTAAGGC
Found at i:83194346 original size:108 final size:110
Alignment explanation
Indices: 83194147--83194347 Score: 318
Period size: 108 Copynumber: 1.8 Consensus size: 110
83194137 TTTAAGGATA
*
83194147 CCATGTAAGACCATGCCAAGGCATGGCAATTGGTAAGGTTTCTAAGGCAAGGAAATCATGTAAGA
1 CCATGTAAGACCATGCCAAGGCATGGCAATTGGTAAGGTTTCTAAGGCAAGGAAACCATGTAAGA
* *
83194212 CCATGTCAAGACATGGCATTGATAAGTTACTATAAGGCAAAGGTC
66 CCATGTCAAGACATGACAATGATAAGTTACTATAAGGCAAAGGTC
* *
83194257 CCATGTAAGACCATGCCAAGGCATGGC-ATTGGTGA-G-TTCATAAGGCAAGGATACCATGTAAG
1 CCATGTAAGACCATGCCAAGGCATGGCAATTGGTAAGGTTTC-TAAGGCAAGGAAACCATGTAAG
*
83194319 ACCATGTCAAGACATGACAATGGTAAGTT
65 ACCATGTCAAGACATGACAATGATAAGTT
83194348 TCAAAAGGAT
Statistics
Matches: 84, Mismatches: 6, Indels: 4
0.89 0.06 0.04
Matches are distributed among these distances:
107 3 0.04
108 47 0.56
109 7 0.08
110 27 0.32
ACGTcount: A:0.35, C:0.18, G:0.25, T:0.22
Consensus pattern (110 bp):
CCATGTAAGACCATGCCAAGGCATGGCAATTGGTAAGGTTTCTAAGGCAAGGAAACCATGTAAGA
CCATGTCAAGACATGACAATGATAAGTTACTATAAGGCAAAGGTC
Found at i:83201846 original size:34 final size:34
Alignment explanation
Indices: 83201808--83201912 Score: 89
Period size: 34 Copynumber: 3.2 Consensus size: 34
83201798 ATTGTATGAA
*
83201808 TGCCATTATCAAACTGATCTTTATTGTGTGTATC
1 TGCCATTATCAAACTGATCTTTATTGTATGTATC
** *
83201842 TGCCATT-T---TTTGTAT-TTGTCATTGTATG-A-A
1 TGCCATTATCAAACTG-ATCTT-T-ATTGTATGTATC
*
83201872 TGCCATTATCAAACTGATCTTTATTGTTTGTATC
1 TGCCATTATCAAACTGATCTTTATTGTATGTATC
83201906 TGCCATT
1 TGCCATT
83201913 GTATGAATGT
Statistics
Matches: 53, Mismatches: 8, Indels: 20
0.65 0.10 0.25
Matches are distributed among these distances:
30 11 0.21
31 5 0.09
32 14 0.26
33 5 0.09
34 18 0.34
ACGTcount: A:0.22, C:0.16, G:0.14, T:0.48
Consensus pattern (34 bp):
TGCCATTATCAAACTGATCTTTATTGTATGTATC
Found at i:83201856 original size:64 final size:64
Alignment explanation
Indices: 83201786--83201912 Score: 227
Period size: 64 Copynumber: 2.0 Consensus size: 64
83201776 TTTTGATATG
83201786 TTTGTATCTGCCATTGTATGAATGCCATTATCAAACTGATCTTTATTGTGTGTATCTGCCATTT
1 TTTGTATCTGCCATTGTATGAATGCCATTATCAAACTGATCTTTATTGTGTGTATCTGCCATTT
* * *
83201850 TTTGTATTTGTCATTGTATGAATGCCATTATCAAACTGATCTTTATTGTTTGTATCTGCCATT
1 TTTGTATCTGCCATTGTATGAATGCCATTATCAAACTGATCTTTATTGTGTGTATCTGCCATT
83201913 GTATGAATGT
Statistics
Matches: 60, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
64 60 1.00
ACGTcount: A:0.22, C:0.16, G:0.15, T:0.47
Consensus pattern (64 bp):
TTTGTATCTGCCATTGTATGAATGCCATTATCAAACTGATCTTTATTGTGTGTATCTGCCATTT
Found at i:83201921 original size:48 final size:48
Alignment explanation
Indices: 83201850--83201962 Score: 163
Period size: 48 Copynumber: 2.4 Consensus size: 48
83201840 TCTGCCATTT
* *
83201850 TTTGTATTTGTCATTGTATGAATGCCATTATCAAACTGATCTTTATTG
1 TTTGTATCTGCCATTGTATGAATGCCATTATCAAACTGATCTTTATTG
* * *
83201898 TTTGTATCTGCCATTGTATGAATGTCATTATCAAATTGATGTTTATTG
1 TTTGTATCTGCCATTGTATGAATGCCATTATCAAACTGATCTTTATTG
* *
83201946 TGTATATCTGCCATTGT
1 TTTGTATCTGCCATTGT
83201963 TTGTATCTGC
Statistics
Matches: 58, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
48 58 1.00
ACGTcount: A:0.24, C:0.12, G:0.16, T:0.48
Consensus pattern (48 bp):
TTTGTATCTGCCATTGTATGAATGCCATTATCAAACTGATCTTTATTG
Found at i:83202010 original size:62 final size:62
Alignment explanation
Indices: 83201894--83202155 Score: 409
Period size: 62 Copynumber: 4.2 Consensus size: 62
83201884 ACTGATCTTT
** * * * *
83201894 ATTGTTTGTATCTGCCATTGTATGAATGTCATTATCAAATTGATGTTTATTGTGTATATCTGCC
1 ATTGTTTGTATCTGCCATTAAAT-TAT-ACATTATTAAACTGATGTTTATTGTGTATATCTGCC
*
83201958 ATTGTTTGTATCTGCCATTAAATTATACATTATTAAACTAATGTTTATTGTGTATATCTGCC
1 ATTGTTTGTATCTGCCATTAAATTATACATTATTAAACTGATGTTTATTGTGTATATCTGCC
*
83202020 ATTGTTTG-ATTCTGCCATTAAATTATACATTATTAAAATGATGTTTATTGTGTATATCTGCC
1 ATTGTTTGTA-TCTGCCATTAAATTATACATTATTAAACTGATGTTTATTGTGTATATCTGCC
*
83202082 ATTGTTTGTATCTGCCATTAAATTATACATTATTAAACTGATGTTTATTGTGTATATCTGTC
1 ATTGTTTGTATCTGCCATTAAATTATACATTATTAAACTGATGTTTATTGTGTATATCTGCC
83202144 ATTGTTTGTATC
1 ATTGTTTGTATC
83202156 CAGGCTCCTA
Statistics
Matches: 185, Mismatches: 11, Indels: 6
0.92 0.05 0.03
Matches are distributed among these distances:
61 1 0.01
62 160 0.86
63 3 0.02
64 21 0.11
ACGTcount: A:0.27, C:0.12, G:0.14, T:0.48
Consensus pattern (62 bp):
ATTGTTTGTATCTGCCATTAAATTATACATTATTAAACTGATGTTTATTGTGTATATCTGCC
Found at i:83202039 original size:112 final size:110
Alignment explanation
Indices: 83201790--83202148 Score: 394
Period size: 124 Copynumber: 3.1 Consensus size: 110
83201780 GATATGTTTG
* * * *
83201790 TATCTGCCATTGTATGAATGCCATTATCAAACTGATCTTTATTGTGTGTATCTGCCATTTTTTGT
1 TATCTGCCATTGTATGAATGCCATTATCAAAATGATGTTTATTGTGTATATCTGCCATTGTTTGT
* * ** * * * * * *
83201855 ATTTGTCATTGTATGAATGCCATTATCAAACTGATCTTTATTGTTTG
66 ATCTGCCATTAAAT-TAT-ACATTATTAAACTGATGTTTATTGTGTA
* *
83201902 TATCTGCCATTGTATGAATGTCATTATCAAATTGATGTTTATTGTGTATATCTGCCATTGTTTGT
1 TATCTGCCATTGTATGAATGCCATTATCAAAATGATGTTTATTGTGTATATCTGCCATTGTTTGT
*
83201967 ATCTGCCATTAAATTATACATTATTAAACTAATGTTTATTGTGTA
66 ATCTGCCATTAAATTATACATTATTAAACTGATGTTTATTGTGTA
* *
83202012 TATCTGCCATTGTTTGATTCTGCCATTAAATTATACATTATTAAAATGATGTTTATTGTGTATAT
1 TATCTGCCATTGTATGA--ATGCC-----ATTAT-C------AAAATGATGTTTATTGTGTATAT
83202077 CTGCCATTGTTTGTATCTGCCATTAAATTATACATTATTAAACTGATGTTTATTGTGTA
52 CTGCCATTGTTTGTATCTGCCATTAAATTATACATTATTAAACTGATGTTTATTGTGTA
*
83202136 TATCTGTCATTGT
1 TATCTGCCATTGT
83202149 TTGTATCCAG
Statistics
Matches: 211, Mismatches: 22, Indels: 16
0.85 0.09 0.06
Matches are distributed among these distances:
110 38 0.18
111 2 0.01
112 73 0.35
117 5 0.02
118 1 0.00
124 92 0.44
ACGTcount: A:0.26, C:0.13, G:0.14, T:0.47
Consensus pattern (110 bp):
TATCTGCCATTGTATGAATGCCATTATCAAAATGATGTTTATTGTGTATATCTGCCATTGTTTGT
ATCTGCCATTAAATTATACATTATTAAACTGATGTTTATTGTGTA
Found at i:83204217 original size:43 final size:43
Alignment explanation
Indices: 83204133--83204303 Score: 233
Period size: 43 Copynumber: 4.1 Consensus size: 43
83204123 TCACATACAG
* *
83204133 TGATTGTTGGAAAGCTATTGACT-TTTTTTAATATGTATGCAA
1 TGATTGTTGGAAAGCTGTTGACTATTTTTTAATATGCATGCAA
* *
83204175 TGATTATTGGAAAGTTGTTGACTATTTTTTAATATGCATGCAA
1 TGATTGTTGGAAAGCTGTTGACTATTTTTTAATATGCATGCAA
*
83204218 TGATTGTTGGAAAGCTGTTGACTATTTTTTAATATGCATGTAA
1 TGATTGTTGGAAAGCTGTTGACTATTTTTTAATATGCATGCAA
* * * *
83204261 TGATTGTTGG--TG-TGTTGCCTACTTTTTAATATGTATGCAA
1 TGATTGTTGGAAAGCTGTTGACTATTTTTTAATATGCATGCAA
83204301 TGA
1 TGA
83204304 GTTTTTTTTA
Statistics
Matches: 116, Mismatches: 12, Indels: 4
0.88 0.09 0.03
Matches are distributed among these distances:
40 27 0.23
41 1 0.01
42 20 0.17
43 68 0.59
ACGTcount: A:0.27, C:0.08, G:0.20, T:0.45
Consensus pattern (43 bp):
TGATTGTTGGAAAGCTGTTGACTATTTTTTAATATGCATGCAA
Found at i:83204992 original size:21 final size:21
Alignment explanation
Indices: 83204966--83205015 Score: 73
Period size: 21 Copynumber: 2.4 Consensus size: 21
83204956 TGTTCGAACC
*
83204966 CAGCAAGAGGCTACCCCAAGT
1 CAGCAAGAGGCTACCCCAACT
*
83204987 CAGCAAGAGGGTACCCCAACT
1 CAGCAAGAGGCTACCCCAACT
*
83205008 CAACAAGA
1 CAGCAAGA
83205016 TGCCCTAACT
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.38, C:0.32, G:0.22, T:0.08
Consensus pattern (21 bp):
CAGCAAGAGGCTACCCCAACT
Found at i:83205534 original size:56 final size:56
Alignment explanation
Indices: 83205443--83205554 Score: 172
Period size: 56 Copynumber: 2.0 Consensus size: 56
83205433 TTATCATGCT
** *
83205443 ATTTGTTATCCAACTGTTATCTTTTCTAATTAGCAGCCATGTATACCAACTGTTAA
1 ATTTGTTATCCAACTGTTATCTTTTCTAACCAGCAGCCATGTATACCAAATGTTAA
*
83205499 ATTTGTATAT-CAATTGTTATCTTTTCTAACCAGCAGCCATGTATACCAAATGTTAA
1 ATTTGT-TATCCAACTGTTATCTTTTCTAACCAGCAGCCATGTATACCAAATGTTAA
83205555 GCAATTTGTA
Statistics
Matches: 51, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
56 48 0.94
57 3 0.06
ACGTcount: A:0.30, C:0.19, G:0.11, T:0.40
Consensus pattern (56 bp):
ATTTGTTATCCAACTGTTATCTTTTCTAACCAGCAGCCATGTATACCAAATGTTAA
Found at i:83205643 original size:28 final size:30
Alignment explanation
Indices: 83205611--83205669 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
83205601 AGCCATTTTT
83205611 AACAC-ATGT-TAAGCAACAAAAATATTCC
1 AACACAATGTGTAAGCAACAAAAATATTCC
* * *
83205639 AACACAATTTGTAATCAACAAAAATTTTCC
1 AACACAATGTGTAAGCAACAAAAATATTCC
83205669 A
1 A
83205670 TTTCATTCAA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
28 5 0.19
29 3 0.12
30 18 0.69
ACGTcount: A:0.49, C:0.20, G:0.05, T:0.25
Consensus pattern (30 bp):
AACACAATGTGTAAGCAACAAAAATATTCC
Found at i:83206128 original size:3 final size:3
Alignment explanation
Indices: 83206113--83206160 Score: 55
Period size: 3 Copynumber: 16.3 Consensus size: 3
83206103 CCATTTTTCC
* *
83206113 TCT TCT CCT TCT TCT TCT TC- TCTT TCT GCT TC- TCT TCT TCT TCT
1 TCT TCT TCT TCT TCT TCT TCT TC-T TCT TCT TCT TCT TCT TCT TCT
83206157 TCT T
1 TCT T
83206161 TTTTTCAAAC
Statistics
Matches: 38, Mismatches: 4, Indels: 6
0.79 0.08 0.12
Matches are distributed among these distances:
2 4 0.11
3 32 0.84
4 2 0.05
ACGTcount: A:0.00, C:0.35, G:0.02, T:0.62
Consensus pattern (3 bp):
TCT
Found at i:83206160 original size:12 final size:11
Alignment explanation
Indices: 83206122--83206156 Score: 52
Period size: 11 Copynumber: 3.1 Consensus size: 11
83206112 CTCTTCTCCT
83206122 TCTTCTTCTTC
1 TCTTCTTCTTC
*
83206133 TCTTTCTGCTTC
1 TC-TTCTTCTTC
83206145 TCTTCTTCTTC
1 TCTTCTTCTTC
83206156 T
1 T
83206157 TCTTTTTTTC
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
11 11 0.52
12 10 0.48
ACGTcount: A:0.00, C:0.34, G:0.03, T:0.63
Consensus pattern (11 bp):
TCTTCTTCTTC
Found at i:83206781 original size:19 final size:18
Alignment explanation
Indices: 83206740--83206822 Score: 80
Period size: 19 Copynumber: 4.4 Consensus size: 18
83206730 TAAGTTATAG
*
83206740 AAAATTATTAAAATTGTAA
1 AAAATTATTAAAAAT-TAA
83206759 AAAATTATTAAAAATTAA
1 AAAATTATTAAAAATTAA
*
83206777 TAAAATT-TTATAAAA-CAA
1 -AAAATTATTA-AAAATTAA
83206795 AAAATGTATTAAAATATTAA
1 AAAAT-TATTAAAA-ATTAA
*
83206815 AAAGTTAT
1 AAAATTAT
83206823 AGAAAATTTT
Statistics
Matches: 54, Mismatches: 4, Indels: 12
0.77 0.06 0.17
Matches are distributed among these distances:
17 5 0.09
18 12 0.22
19 31 0.57
20 6 0.11
ACGTcount: A:0.60, C:0.01, G:0.04, T:0.35
Consensus pattern (18 bp):
AAAATTATTAAAAATTAA
Found at i:83206807 original size:27 final size:25
Alignment explanation
Indices: 83206768--83206817 Score: 64
Period size: 27 Copynumber: 1.9 Consensus size: 25
83206758 AAAAATTATT
*
83206768 AAAAATTAATAAAATTTTATAAAACA
1 AAAAATTAATAAAATATTA-AAAACA
*
83206794 AAAAATGTATTAAAATATTAAAAA
1 AAAAAT-TAATAAAATATTAAAAA
83206818 GTTATAGAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
26 10 0.48
27 11 0.52
ACGTcount: A:0.66, C:0.02, G:0.02, T:0.30
Consensus pattern (25 bp):
AAAAATTAATAAAATATTAAAAACA
Found at i:83212940 original size:141 final size:141
Alignment explanation
Indices: 83212769--83213052 Score: 401
Period size: 141 Copynumber: 2.0 Consensus size: 141
83212759 TTTAATAAAA
* *
83212769 AATTACAAATGTATTTAGAAAACGAAGAATTAAACTTAAGACTCAAAGATAAAATAATTATTATT
1 AATTACAAATATATTTAGAAAACGAAGAATTAAACTTAAGACTCAAAGATAAAACAATTATTATT
* * *
83212834 TAACTATTTAA-CTAAATG-AGTTAATATGTTAAAAATATTAATTAAAAATAATAAAAAGTTTAA
66 TAACTATTTAATC-AAA-GCAGCTAATATGTTAAAAAAATTAATTAAAAATAATAAAAAGCTTAA
*
83212897 AACAATATGAAAT
129 AACAACATGAAAT
* * * * ** * *
83212910 AATTACAAATATGTTTAGAAGAGGAGGAATTAAACTTGGGACTCAATGATAAAACCATTATTATT
1 AATTACAAATATATTTAGAAAACGAAGAATTAAACTTAAGACTCAAAGATAAAACAATTATTATT
*
83212975 TAACTATTTAATCAAAGCAGCTAATATGTTAAAAAAATTTATTAAAAATAATAAAAAGCTTAAAA
66 TAACTATTTAATCAAAGCAGCTAATATGTTAAAAAAATTAATTAAAAATAATAAAAAGCTTAAAA
83213040 CAACATGAAAT
131 CAACATGAAAT
83213051 AA
1 AA
83213053 AAAATACAAA
Statistics
Matches: 126, Mismatches: 15, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
140 1 0.01
141 124 0.98
142 1 0.01
ACGTcount: A:0.52, C:0.07, G:0.10, T:0.31
Consensus pattern (141 bp):
AATTACAAATATATTTAGAAAACGAAGAATTAAACTTAAGACTCAAAGATAAAACAATTATTATT
TAACTATTTAATCAAAGCAGCTAATATGTTAAAAAAATTAATTAAAAATAATAAAAAGCTTAAAA
CAACATGAAAT
Found at i:83213094 original size:141 final size:137
Alignment explanation
Indices: 83212795--83213153 Score: 360
Period size: 141 Copynumber: 2.5 Consensus size: 137
83212785 AGAAAACGAA
* ** *
83212795 GAATTAAACTTAAGACTCAAAGATAAAATAATTATTATTTAACTATTTAACTAAATGAGTTAATA
1 GAATCAAACTTAAGACTCAAAGATAAAACCATTATTATTTAACTATTTAAC-AAA-GAGCTAATA
* * * *
83212860 TGTTAAAAATATTAATTAAAAATAATAAAAAGTTTAAAACAATATGAAATAATTACAAATATGTT
64 TGTTAAAAAAATTAATTAAAAATAATAAAAAGCTTAAAACAACATGAAATAAATACAAATATG--
**
83212925 TAGAAGAGGAG
127 TAGAAGAAAAG
* ** *
83212936 GAATTAAACTTGGGACTCAATGATAAAACCATTATTATTTAACTATTTAATCAAAGCAGCTAATA
1 GAATCAAACTTAAGACTCAAAGATAAAACCATTATTATTTAACTATTTAA-CAAAG-AGCTAATA
*
83213001 TGTTAAAAAAATTTATTAAAAATAATAAAAAGCTTAAAACAACATGAAATAAAAAATACAAATAT
64 TGTTAAAAAAATTAATTAAAAATAATAAAAAGCTTAAAACAACATGAAAT---AAATACAAATAT
** *
83213066 G-AGCGGAAAAT
126 GTAGAAGAAAAG
* * * * ** * *
83213077 GTATCAAACCTAAGACTCAAAAATAAAACCACTAACATTTAACTATCTAACCAAAGAAACTAATT
1 GAATCAAACTTAAGACTCAAAGATAAAACCATTATTATTTAACTATTTAA-CAAAG-AGCTAA-T
*
83213142 ATATTAAAAAAA
63 ATGTTAAAAAAA
83213154 GTCAAAAATT
Statistics
Matches: 181, Mismatches: 31, Indels: 11
0.81 0.14 0.05
Matches are distributed among these distances:
140 1 0.01
141 155 0.86
142 13 0.07
144 12 0.07
ACGTcount: A:0.53, C:0.10, G:0.09, T:0.29
Consensus pattern (137 bp):
GAATCAAACTTAAGACTCAAAGATAAAACCATTATTATTTAACTATTTAACAAAGAGCTAATATG
TTAAAAAAATTAATTAAAAATAATAAAAAGCTTAAAACAACATGAAATAAATACAAATATGTAGA
AGAAAAG
Found at i:83218768 original size:11 final size:11
Alignment explanation
Indices: 83218752--83218776 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
83218742 TTATTGATAA
83218752 TTTACGATGGT
1 TTTACGATGGT
83218763 TTTACGATGGT
1 TTTACGATGGT
83218774 TTT
1 TTT
83218777 GCCCTTGCTC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.16, C:0.08, G:0.24, T:0.52
Consensus pattern (11 bp):
TTTACGATGGT
Found at i:83219184 original size:28 final size:28
Alignment explanation
Indices: 83219151--83219232 Score: 110
Period size: 28 Copynumber: 2.9 Consensus size: 28
83219141 TTTGAATCAT
* *
83219151 TCAATATTTTGCACACTAAGTGTCATTC
1 TCAATATTTCGCACACTAAGTGCCATTC
*
83219179 TCAATATCTCGCACACTAAGTGCCATTC
1 TCAATATTTCGCACACTAAGTGCCATTC
* * *
83219207 TCAATATTTCGTACACTGAGTACCAT
1 TCAATATTTCGCACACTAAGTGCCAT
83219233 ATTTGATTGA
Statistics
Matches: 47, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
28 47 1.00
ACGTcount: A:0.29, C:0.26, G:0.11, T:0.34
Consensus pattern (28 bp):
TCAATATTTCGCACACTAAGTGCCATTC
Found at i:83226110 original size:93 final size:93
Alignment explanation
Indices: 83225951--83226120 Score: 304
Period size: 93 Copynumber: 1.8 Consensus size: 93
83225941 GGATGGTTGA
* *
83225951 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGCGAACGCCCGAACTCGTTGAGT
83226016 TGAGTCCGAGTTCGTGAAATGTAACTAG
66 TGAGTCCGAGTTCGTGAAATGTAACTAG
* *
83226044 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGCGAACGCCCGAACTCGTTGAGT
83226109 TGAGTCCGAGTT
66 TGAGTCCGAGTT
83226121 TACTTAGGGG
Statistics
Matches: 73, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 73 1.00
ACGTcount: A:0.22, C:0.22, G:0.29, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAAATGTAACTAG
Found at i:83226126 original size:46 final size:46
Alignment explanation
Indices: 83225955--83226126 Score: 190
Period size: 46 Copynumber: 3.7 Consensus size: 46
83225945 GGTTGAGCAT
* * *
83225955 CCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGCGAATGT
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGC
* * * *
83226001 CCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--AATG-TAACTAGGC
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAC---GC
83226046 ATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGC
1 --CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGC
* *
83226094 CCGAGCTCGTTGAGTTGAGTCCGAGTTTACTTA
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
83226127 GGGGCGGGTT
Statistics
Matches: 104, Mismatches: 13, Indels: 18
0.77 0.10 0.13
Matches are distributed among these distances:
42 2 0.02
43 3 0.03
45 2 0.02
46 59 0.57
47 28 0.27
48 4 0.04
50 3 0.03
51 3 0.03
ACGTcount: A:0.22, C:0.22, G:0.28, T:0.28
Consensus pattern (46 bp):
CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGC
Found at i:83229321 original size:29 final size:30
Alignment explanation
Indices: 83229261--83229334 Score: 80
Period size: 31 Copynumber: 2.5 Consensus size: 30
83229251 TTAAGGTTAA
* ** *
83229261 AAAGGGTTTAAAATATTATTTTTCAATTTTT
1 AAAGGGTTTAAAA-ATAATTTACCAACTTTT
83229292 AAAGGGTTTAAAAA-AATTTACCAACTTTT
1 AAAGGGTTTAAAAATAATTTACCAACTTTT
*
83229321 -AAGGGTTCAAAAAT
1 AAAGGGTTTAAAAAT
83229335 TTTTTTTACC
Statistics
Matches: 37, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
28 12 0.32
29 11 0.30
30 1 0.03
31 13 0.35
ACGTcount: A:0.42, C:0.07, G:0.12, T:0.39
Consensus pattern (30 bp):
AAAGGGTTTAAAAATAATTTACCAACTTTT
Found at i:83238120 original size:19 final size:19
Alignment explanation
Indices: 83238096--83238186 Score: 134
Period size: 19 Copynumber: 4.9 Consensus size: 19
83238086 ATAATCTTCA
83238096 ATGATATGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
83238115 ATGATATGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
83238134 ATGATA--CAATCTTAGAT
1 ATGATATGCAATCTTAGAT
* *
83238151 ATGAT-TACAATCTTAAAT
1 ATGATATGCAATCTTAGAT
*
83238169 ATAATATGCAATCTTAGA
1 ATGATATGCAATCTTAGA
83238187 AGATATGATT
Statistics
Matches: 65, Mismatches: 4, Indels: 6
0.87 0.05 0.08
Matches are distributed among these distances:
17 16 0.25
18 14 0.22
19 35 0.54
ACGTcount: A:0.41, C:0.11, G:0.12, T:0.36
Consensus pattern (19 bp):
ATGATATGCAATCTTAGAT
Found at i:83238501 original size:18 final size:17
Alignment explanation
Indices: 83238478--83238511 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
83238468 TTTCCCTGAT
*
83238478 TTTTTTTATATATTTTAA
1 TTTTTTAATA-ATTTTAA
83238496 TTTTTTAATAATTTTA
1 TTTTTTAATAATTTTA
83238512 GTATCATATC
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (17 bp):
TTTTTTAATAATTTTAA
Found at i:83247973 original size:32 final size:33
Alignment explanation
Indices: 83247915--83247983 Score: 97
Period size: 33 Copynumber: 2.1 Consensus size: 33
83247905 AGAAAGGACC
* *
83247915 AAGTACTGTTGAGATGTGTTGACCGT-GAAGCT
1 AAGTACTGTTGACATATGTTGACCGTGGAAGCT
83247947 AAGTAACTGTTGACATATGTTG-CCGTGGAAGCT
1 AAGT-ACTGTTGACATATGTTGACCGTGGAAGCT
83247980 AAGT
1 AAGT
83247984 TAATCTTGGA
Statistics
Matches: 33, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
32 8 0.24
33 25 0.76
ACGTcount: A:0.28, C:0.13, G:0.29, T:0.30
Consensus pattern (33 bp):
AAGTACTGTTGACATATGTTGACCGTGGAAGCT
Found at i:83250473 original size:78 final size:78
Alignment explanation
Indices: 83250344--83250638 Score: 448
Period size: 78 Copynumber: 3.8 Consensus size: 78
83250334 CGGAGAAACA
* * * * *
83250344 GATTTGGCATCTCCATATTCGACGGAGAGCAGATGGAAGACATAGCAGATCTGACCTTCATTGAA
1 GATTTGGCATCTCTATATTAGACGGGGAGCAGATCGAAGACATAACAGATCTGACCTTCATTGAA
83250409 GCAGATCCAAGAT
66 GCAGATCCAAGAT
* *
83250422 GATTTGGCATCTCTATATTAGACGGGGAGCAGATCGAAGACACAACAGATCTGACCTTTATTGAA
1 GATTTGGCATCTCTATATTAGACGGGGAGCAGATCGAAGACATAACAGATCTGACCTTCATTGAA
83250487 GCAGATCCAAGAT
66 GCAGATCCAAGAT
* * * *
83250500 GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCAAAGATATAATAGAT-TGGACCTTCATTGA
1 GATTTGGCATCTCTATATTAGACGGGGAGCAGATCGAAGACATAACAGATCT-GACCTTCATTGA
83250564 AGCAGATCCAAGAT
65 AGCAGATCCAAGAT
* * *
83250578 GATTTGGCATCTCTGTATTAAACGGGGAGCAGATCGAAGACATAGCAGATCTGACCTTCAT
1 GATTTGGCATCTCTATATTAGACGGGGAGCAGATCGAAGACATAACAGATCTGACCTTCAT
83250639 GTGTTTACAT
Statistics
Matches: 197, Mismatches: 18, Indels: 4
0.90 0.08 0.02
Matches are distributed among these distances:
77 1 0.01
78 195 0.99
79 1 0.01
ACGTcount: A:0.32, C:0.19, G:0.24, T:0.25
Consensus pattern (78 bp):
GATTTGGCATCTCTATATTAGACGGGGAGCAGATCGAAGACATAACAGATCTGACCTTCATTGAA
GCAGATCCAAGAT
Found at i:83250838 original size:45 final size:45
Alignment explanation
Indices: 83250578--83250838 Score: 233
Period size: 45 Copynumber: 5.8 Consensus size: 45
83250568 GATCCAAGAT
* *
83250578 GATTTGGCATCTCTGTATTAAACGGGGAGCAGATCGAAGACATAGCA
1 GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAG--ATAACA
* * * * * * * *
83250625 GATCTGACCT-TCATGTGTTTACATC--GAAGCAGATCCAAGATGACA
1 GATTTGGCATCTC-TGT-ATTAGA-CGGGGAGCAGATCGAAGATAACA
* * * *
83250670 GATTTGCCATCTCTGTATTAGACGAGGAGCAAATCGGAGATAACA
1 GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGATAACA
* * * *
83250715 GATTTGGCATTTTTGTATTAGACGGGGAGCAGATTGAAGA-AGCA
1 GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGATAACA
** *
83250759 GATTTGGTGTCTCTGTATTAGACGGGGAGAAGATCGAAGATAACA
1 GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGATAACA
* * *
83250804 GATTTGACGTCTCTATATTAGACGGGGAGCAGATC
1 GATTTGGCATCTCTGTATTAGACGGGGAGCAGATC
83250839 AAAAATAGCA
Statistics
Matches: 169, Mismatches: 38, Indels: 16
0.76 0.17 0.07
Matches are distributed among these distances:
43 1 0.01
44 41 0.24
45 96 0.57
46 4 0.02
47 22 0.13
48 4 0.02
49 1 0.01
ACGTcount: A:0.31, C:0.16, G:0.27, T:0.26
Consensus pattern (45 bp):
GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGATAACA
Found at i:83251225 original size:19 final size:19
Alignment explanation
Indices: 83251201--83251273 Score: 132
Period size: 19 Copynumber: 3.9 Consensus size: 19
83251191 ATAATCTTCA
83251201 ATGATATGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
83251220 ATGATATGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
83251239 ATGATA--CAATCTTAGAT
1 ATGATATGCAATCTTAGAT
83251256 ATGATATGCAATCTTAGA
1 ATGATATGCAATCTTAGA
83251274 GGATATGATT
Statistics
Matches: 52, Mismatches: 0, Indels: 4
0.93 0.00 0.07
Matches are distributed among these distances:
17 17 0.33
19 35 0.67
ACGTcount: A:0.38, C:0.11, G:0.15, T:0.36
Consensus pattern (19 bp):
ATGATATGCAATCTTAGAT
Found at i:83251309 original size:21 final size:23
Alignment explanation
Indices: 83251265--83251309 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 23
83251255 TATGATATGC
*
83251265 AATCTTAGAGGATATGATTTTGT
1 AATCTTAGAGGATATGAATTTGT
*
83251288 AATCTTAGA-GAT-TTAATTTGT
1 AATCTTAGAGGATATGAATTTGT
83251309 A
1 A
83251310 GATACCTTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
21 8 0.40
22 3 0.15
23 9 0.45
ACGTcount: A:0.33, C:0.04, G:0.18, T:0.44
Consensus pattern (23 bp):
AATCTTAGAGGATATGAATTTGT
Found at i:83252513 original size:17 final size:16
Alignment explanation
Indices: 83252491--83252531 Score: 64
Period size: 16 Copynumber: 2.5 Consensus size: 16
83252481 TAATACCAAA
83252491 TATATTTTATAAATTTT
1 TATATTTTAT-AATTTT
83252508 TATATTTTATAATTTT
1 TATATTTTATAATTTT
*
83252524 TAAATTTT
1 TATATTTT
83252532 TTTATAGTTT
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
16 13 0.57
17 10 0.43
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (16 bp):
TATATTTTATAATTTT
Found at i:83262676 original size:21 final size:21
Alignment explanation
Indices: 83262650--83262689 Score: 80
Period size: 21 Copynumber: 1.9 Consensus size: 21
83262640 TTAAAAAATT
83262650 TTAAAAATATAAAAGTATTTA
1 TTAAAAATATAAAAGTATTTA
83262671 TTAAAAATATAAAAGTATT
1 TTAAAAATATAAAAGTATT
83262690 CTAATATTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.57, C:0.00, G:0.05, T:0.38
Consensus pattern (21 bp):
TTAAAAATATAAAAGTATTTA
Found at i:83269561 original size:7 final size:7
Alignment explanation
Indices: 83269551--83269585 Score: 61
Period size: 7 Copynumber: 5.0 Consensus size: 7
83269541 AGAAAATAGA
*
83269551 TGAAAAG
1 TGAAGAG
83269558 TGAAGAG
1 TGAAGAG
83269565 TGAAGAG
1 TGAAGAG
83269572 TGAAGAG
1 TGAAGAG
83269579 TGAAGAG
1 TGAAGAG
83269586 GCTTTATTTA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
7 27 1.00
ACGTcount: A:0.46, C:0.00, G:0.40, T:0.14
Consensus pattern (7 bp):
TGAAGAG
Found at i:83270458 original size:29 final size:28
Alignment explanation
Indices: 83270420--83270478 Score: 73
Period size: 28 Copynumber: 2.1 Consensus size: 28
83270410 AAACCTCATT
* *
83270420 TATTTTTTACATCAATTTTTTTATAAATA
1 TATTTGTTACAT-AATATTTTTATAAATA
* *
83270449 TATTTGTTACATGATATTTTTATCAATA
1 TATTTGTTACATAATATTTTTATAAATA
83270477 TA
1 TA
83270479 ATGGGCGTAC
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
28 15 0.58
29 11 0.42
ACGTcount: A:0.34, C:0.07, G:0.03, T:0.56
Consensus pattern (28 bp):
TATTTGTTACATAATATTTTTATAAATA
Found at i:83271361 original size:3 final size:3
Alignment explanation
Indices: 83271355--83271382 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
83271345 AAAAAAACAT
83271355 TTC TTC TTC TTC TTC TTC TTC TTC TTC T
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC T
83271383 AATAATAATA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (3 bp):
TTC
Found at i:83275567 original size:26 final size:26
Alignment explanation
Indices: 83275536--83275643 Score: 189
Period size: 26 Copynumber: 4.2 Consensus size: 26
83275526 TGAAATGCCC
*
83275536 ATCATGGAACATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAACCCATT
83275562 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
* *
83275588 ATCATGGAATATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAACCCATT
83275614 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
83275640 ATCA
1 ATCA
83275644 ATTTGTACCA
Statistics
Matches: 77, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 77 1.00
ACGTcount: A:0.36, C:0.24, G:0.07, T:0.32
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:83283244 original size:21 final size:21
Alignment explanation
Indices: 83283220--83283273 Score: 63
Period size: 21 Copynumber: 2.6 Consensus size: 21
83283210 TGTCCCCTCT
*
83283220 ACATGGGCTTGTGGGGCCTTC
1 ACATGGGCGTGTGGGGCCTTC
* *
83283241 ACATGGGCGTGTGTGGCCTCC
1 ACATGGGCGTGTGGGGCCTTC
* *
83283262 ATATAGGCGTGT
1 ACATGGGCGTGT
83283274 AAACTCCCAC
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.13, C:0.22, G:0.37, T:0.28
Consensus pattern (21 bp):
ACATGGGCGTGTGGGGCCTTC
Found at i:83288758 original size:16 final size:17
Alignment explanation
Indices: 83288735--83288774 Score: 53
Period size: 17 Copynumber: 2.2 Consensus size: 17
83288725 TTACATGTAG
*
83288735 AAATAATAAAAAATATAAA
1 AAATAA-AATAAAT-TAAA
83288754 AAATAAAATAAATTAAA
1 AAATAAAATAAATTAAA
83288771 AAAT
1 AAAT
83288775 TACTCTTAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
17 8 0.40
18 6 0.30
19 6 0.30
ACGTcount: A:0.78, C:0.00, G:0.00, T:0.23
Consensus pattern (17 bp):
AAATAAAATAAATTAAA
Found at i:83297160 original size:3 final size:3
Alignment explanation
Indices: 83297152--83297361 Score: 121
Period size: 3 Copynumber: 69.7 Consensus size: 3
83297142 GTTTTATCAC
* *
83297152 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT -TT GTT AAT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
* * * *
83297199 ATT ACT ATT ATA ATT A-T ATT -TT ATT TTT GTGT -TT ATTT ATTT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT-T ATT A-TT A-TT ATT
* * * ** *
83297244 CATT -TT ATT ATT AATT CATT AAT -TT ATG AAT ATT AAC A-T ATT CTT
1 -ATT ATT ATT ATT -ATT -ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
* * * * *
83297289 ATT ATT TTT ATT AATGT ATT ATC ACT A-T ATTT ATC ATT ATT ATC ATT
1 ATT ATT ATT ATT -AT-T ATT ATT ATT ATT A-TT ATT ATT ATT ATT ATT
*
83297336 ATC ATT ATT ATT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT AT
83297362 ATTTTTACCC
Statistics
Matches: 160, Mismatches: 32, Indels: 30
0.72 0.14 0.14
Matches are distributed among these distances:
2 13 0.08
3 123 0.77
4 23 0.14
5 1 0.01
ACGTcount: A:0.32, C:0.05, G:0.02, T:0.61
Consensus pattern (3 bp):
ATT
Found at i:83297254 original size:16 final size:17
Alignment explanation
Indices: 83297230--83297263 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
83297220 TATTTTTGTG
*
83297230 TTTATTTATTTATTCAT
1 TTTATTTATTAATTCAT
83297247 TTTA-TTATTAATTCAT
1 TTTATTTATTAATTCAT
83297263 T
1 T
83297264 AATTTATGAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 12 0.75
17 4 0.25
ACGTcount: A:0.26, C:0.06, G:0.00, T:0.68
Consensus pattern (17 bp):
TTTATTTATTAATTCAT
Found at i:83297501 original size:15 final size:15
Alignment explanation
Indices: 83297481--83297515 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
83297471 TTATTATGTT
83297481 TATTATTACCATTAA
1 TATTATTACCATTAA
* *
83297496 TATTATTATCATTAC
1 TATTATTACCATTAA
83297511 TATTA
1 TATTA
83297516 CTATCAATTT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.37, C:0.11, G:0.00, T:0.51
Consensus pattern (15 bp):
TATTATTACCATTAA
Found at i:83302354 original size:21 final size:22
Alignment explanation
Indices: 83302330--83302375 Score: 53
Period size: 21 Copynumber: 2.2 Consensus size: 22
83302320 CAATTATAAA
*
83302330 ATTAAT-TTACTATATTAGA-AT
1 ATTAATATTACTAAATTA-ATAT
83302351 ATT-ATATTACTAAATTAATAT
1 ATTAATATTACTAAATTAATAT
83302372 ATTA
1 ATTA
83302376 TATCATTCTA
Statistics
Matches: 21, Mismatches: 1, Indels: 5
0.78 0.04 0.19
Matches are distributed among these distances:
20 3 0.14
21 18 0.86
ACGTcount: A:0.46, C:0.04, G:0.02, T:0.48
Consensus pattern (22 bp):
ATTAATATTACTAAATTAATAT
Found at i:83302376 original size:21 final size:21
Alignment explanation
Indices: 83302336--83302378 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 21
83302326 TAAAATTAAT
*
83302336 TTACTATATTAGAATATTATA
1 TTACTAAATTAGAATATTATA
83302357 TTACTAAATTA-ATATATTATA
1 TTACTAAATTAGA-ATATTATA
83302378 T
1 T
83302379 CATTCTATAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
20 1 0.05
21 19 0.95
ACGTcount: A:0.44, C:0.05, G:0.02, T:0.49
Consensus pattern (21 bp):
TTACTAAATTAGAATATTATA
Found at i:83304717 original size:22 final size:22
Alignment explanation
Indices: 83304685--83304726 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
83304675 ATGCTGCAAA
*
83304685 ACCATGCAATTTTCAACAATTT
1 ACCATGCAATTGTCAACAATTT
*
83304707 ACCATGTAATTGTCAACAAT
1 ACCATGCAATTGTCAACAAT
83304727 CTCCACCTTT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.38, C:0.21, G:0.07, T:0.33
Consensus pattern (22 bp):
ACCATGCAATTGTCAACAATTT
Found at i:83306655 original size:21 final size:21
Alignment explanation
Indices: 83306629--83306669 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
83306619 ACCTGCTCAA
* *
83306629 ACTCCACCTGTTTTGGAGTAC
1 ACTCCACCTGCTGTGGAGTAC
83306650 ACTCCACCTGCTGTGGAGTA
1 ACTCCACCTGCTGTGGAGTA
83306670 TCGCTTGTCT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.20, C:0.29, G:0.22, T:0.29
Consensus pattern (21 bp):
ACTCCACCTGCTGTGGAGTAC
Found at i:83307954 original size:26 final size:26
Alignment explanation
Indices: 83307925--83308032 Score: 189
Period size: 26 Copynumber: 4.2 Consensus size: 26
83307915 TGGTACAAAT
83307925 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
83307951 TGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
83307977 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
83308003 TGATAATGGTTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
83308029 TGAT
1 TGAT
83308033 GGGCATTTCA
Statistics
Matches: 77, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 77 1.00
ACGTcount: A:0.32, C:0.07, G:0.24, T:0.36
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:83316143 original size:12 final size:12
Alignment explanation
Indices: 83316123--83316163 Score: 55
Period size: 12 Copynumber: 3.4 Consensus size: 12
83316113 ATATGAATCA
*
83316123 ATTTCTATATAT
1 ATTTATATATAT
83316135 ATTTATATATAT
1 ATTTATATATAT
* *
83316147 ATTTATTTATTT
1 ATTTATATATAT
83316159 ATTTA
1 ATTTA
83316164 AATGTCATAT
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
12 26 1.00
ACGTcount: A:0.34, C:0.02, G:0.00, T:0.63
Consensus pattern (12 bp):
ATTTATATATAT
Found at i:83323423 original size:46 final size:46
Alignment explanation
Indices: 83323373--83323548 Score: 153
Period size: 46 Copynumber: 3.8 Consensus size: 46
83323363 TGATTGAGCA
*
83323373 TCCGAACTCGTTAAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * * * *
83323419 TCCGAACTCGTTGAGTGGAGTCCGAGTTC-GTGA--AATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
* * * *
83323464 CATCTGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATACGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * * *
83323512 CCCGAGCTCATTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
83323549 GCGGGTTACA
Statistics
Matches: 100, Mismatches: 21, Indels: 18
0.72 0.15 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
45 3 0.03
46 58 0.58
47 27 0.27
48 2 0.02
50 2 0.02
51 2 0.02
ACGTcount: A:0.23, C:0.21, G:0.28, T:0.28
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:83323533 original size:93 final size:93
Alignment explanation
Indices: 83323370--83323541 Score: 263
Period size: 93 Copynumber: 1.8 Consensus size: 93
83323360 GGATGATTGA
* * * * *
83323370 GCATCCGAACTCGTTAAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTAAGTTGAGTCCGAGTTCACCTATGGATACGAACGCCCGAACTCATTGAGT
83323435 GGAGTCCGAGTTCGTGAAATGTAACTAG
66 GGAGTCCGAGTTCGTGAAATGTAACTAG
* * *
83323463 GCATCTGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATACGAACGCCCGAGCTCATTGAGT
1 GCATCCGAACTCGTTAAGTTGAGTCCGAGTTCACCTATGGATACGAACGCCCGAACTCATTGAGT
*
83323528 TGAGTCCGAGTTCG
66 GGAGTCCGAGTTCG
83323542 CTTATGGGCG
Statistics
Matches: 70, Mismatches: 9, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
93 70 1.00
ACGTcount: A:0.23, C:0.22, G:0.28, T:0.27
Consensus pattern (93 bp):
GCATCCGAACTCGTTAAGTTGAGTCCGAGTTCACCTATGGATACGAACGCCCGAACTCATTGAGT
GGAGTCCGAGTTCGTGAAATGTAACTAG
Found at i:83331997 original size:19 final size:19
Alignment explanation
Indices: 83331966--83332003 Score: 60
Period size: 19 Copynumber: 2.0 Consensus size: 19
83331956 TAAGTTTTGA
83331966 AATTTATTAAATTTAGTTC
1 AATTTATTAAATTTAGTTC
83331985 AATTT-TTACAATTTAGTTC
1 AATTTATTA-AATTTAGTTC
83332004 CTGAACCAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 3 0.17
19 15 0.83
ACGTcount: A:0.34, C:0.08, G:0.05, T:0.53
Consensus pattern (19 bp):
AATTTATTAAATTTAGTTC
Found at i:83333084 original size:18 final size:18
Alignment explanation
Indices: 83333060--83333102 Score: 54
Period size: 18 Copynumber: 2.4 Consensus size: 18
83333050 GGGAGTTGGG
83333060 ATTATTTTCTT-AATTTCTT
1 ATTATTTT-TTAAATTT-TT
83333079 -TTATTTTTTAAATTTTT
1 ATTATTTTTTAAATTTTT
83333096 ATTATTT
1 ATTATTT
83333103 CCCAAAATTC
Statistics
Matches: 22, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
17 4 0.18
18 18 0.82
ACGTcount: A:0.23, C:0.05, G:0.00, T:0.72
Consensus pattern (18 bp):
ATTATTTTTTAAATTTTT
Found at i:83342918 original size:13 final size:13
Alignment explanation
Indices: 83342900--83342924 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
83342890 TATTATCAAC
83342900 TCAGAATTCAAAA
1 TCAGAATTCAAAA
83342913 TCAGAATTCAAA
1 TCAGAATTCAAA
83342925 TCACACTAAG
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:0.52, C:0.16, G:0.08, T:0.24
Consensus pattern (13 bp):
TCAGAATTCAAAA
Found at i:83348335 original size:28 final size:29
Alignment explanation
Indices: 83348276--83348342 Score: 73
Period size: 29 Copynumber: 2.3 Consensus size: 29
83348266 TTATCATTTA
* * *
83348276 TTTCTCATTTTAGTCCCTCAATATATACT
1 TTTCTCAATTTAATCCCTCAATATACACT
* *
83348305 TTTCTCAATTTAATCCCT-AATATGCATT
1 TTTCTCAATTTAATCCCTCAATATACACT
83348333 TTTACTCAAT
1 TTT-CTCAAT
83348343 ATCACTTTAC
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
28 10 0.31
29 22 0.69
ACGTcount: A:0.27, C:0.22, G:0.03, T:0.48
Consensus pattern (29 bp):
TTTCTCAATTTAATCCCTCAATATACACT
Found at i:83350066 original size:36 final size:36
Alignment explanation
Indices: 83350019--83350091 Score: 128
Period size: 36 Copynumber: 2.0 Consensus size: 36
83350009 GGATTTAACT
*
83350019 TCAGAGTTAGACCATATCCATGACGTATTTCACGTC
1 TCAGAGTTAGACCATATCCATGACGTATTCCACGTC
*
83350055 TCAGAGTTAGACCGTATCCATGACGTATTCCACGTC
1 TCAGAGTTAGACCATATCCATGACGTATTCCACGTC
83350091 T
1 T
83350092 TTATGTTGAT
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
36 35 1.00
ACGTcount: A:0.26, C:0.26, G:0.18, T:0.30
Consensus pattern (36 bp):
TCAGAGTTAGACCATATCCATGACGTATTCCACGTC
Found at i:83358844 original size:33 final size:35
Alignment explanation
Indices: 83358778--83358856 Score: 90
Period size: 33 Copynumber: 2.3 Consensus size: 35
83358768 ATATATTTTC
* *
83358778 TATTTTTATTATATTATTAGATTAACATTATAAAAA
1 TATTTTTAATATATTATTA-ATTAACATAATAAAAA
* *
83358814 TATTTTTAATATATTATT-A-TAAGATAATAAAAT
1 TATTTTTAATATATTATTAATTAACATAATAAAAA
*
83358847 TATTATTAAT
1 TATTTTTAAT
83358857 TATAATAGGG
Statistics
Matches: 38, Mismatches: 5, Indels: 3
0.83 0.11 0.07
Matches are distributed among these distances:
33 20 0.53
34 1 0.03
36 17 0.45
ACGTcount: A:0.46, C:0.01, G:0.03, T:0.51
Consensus pattern (35 bp):
TATTTTTAATATATTATTAATTAACATAATAAAAA
Found at i:83362560 original size:46 final size:44
Alignment explanation
Indices: 83362501--83362615 Score: 140
Period size: 44 Copynumber: 2.6 Consensus size: 44
83362491 ACAGGACAGA
* *
83362501 ACAGAAATGAGCCATGTAAGTCCATATTAGAAATATGGCTTTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATT--AAATATGGCATTGGAG
* * *
83362547 GCAGGATTGAGCCATGTAAGTCCATATTATATATGGCATTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATTAAATATGGCATTGGAG
* **
83362591 ACAGGAATAATTCATGTAAGTCCAT
1 ACAGGAATGAGCCATGTAAGTCCAT
83362616 GTCAAAGACA
Statistics
Matches: 59, Mismatches: 10, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
44 34 0.58
46 25 0.42
ACGTcount: A:0.35, C:0.14, G:0.23, T:0.28
Consensus pattern (44 bp):
ACAGGAATGAGCCATGTAAGTCCATATTAAATATGGCATTGGAG
Found at i:83362596 original size:44 final size:45
Alignment explanation
Indices: 83362501--83362634 Score: 144
Period size: 46 Copynumber: 3.0 Consensus size: 45
83362491 ACAGGACAGA
* *
83362501 ACAGAAATGAGCCATGTAAGTCCATATTAGAAATATGGCTTTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATTA-AAATATGGCATTGGAG
* * *
83362547 GCAGGATTGAGCCATGTAAGTCCATATT-ATATATGGCATTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATTAAAATATGGCATTGGAG
* ** * * *
83362591 ACAGGAATAATTCATGTAAGTCCATGTCAAAGACATGGCATTGG
1 ACAGGAATGAGCCATGTAAGTCCATATTAAA-ATATGGCATTGG
83362635 CAGGATATTG
Statistics
Matches: 72, Mismatches: 14, Indels: 4
0.80 0.16 0.04
Matches are distributed among these distances:
44 35 0.49
45 1 0.01
46 36 0.50
ACGTcount: A:0.34, C:0.14, G:0.25, T:0.27
Consensus pattern (45 bp):
ACAGGAATGAGCCATGTAAGTCCATATTAAAATATGGCATTGGAG
Found at i:83365165 original size:18 final size:19
Alignment explanation
Indices: 83365139--83365185 Score: 60
Period size: 19 Copynumber: 2.5 Consensus size: 19
83365129 ACATGTTCGG
*
83365139 TTATTTATTAAAGACAAAA
1 TTATTTATTAAAGAAAAAA
*
83365158 TT-TTTATTTAAGGAAAAAA
1 TTATTTA-TTAAAGAAAAAA
83365177 TTATTTATT
1 TTATTTATT
83365186 TATTTTAGGC
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
18 4 0.17
19 16 0.67
20 4 0.17
ACGTcount: A:0.45, C:0.02, G:0.06, T:0.47
Consensus pattern (19 bp):
TTATTTATTAAAGAAAAAA
Found at i:83366749 original size:127 final size:125
Alignment explanation
Indices: 83366588--83366842 Score: 456
Period size: 127 Copynumber: 2.0 Consensus size: 125
83366578 GCTTATGGAA
83366588 ACAAAATTGAATCTTAATATAGAAATTGAAAAGGAAGAGAGGTATTAGGAGCAAAGGGAAAGAGC
1 ACAAAATTGAATCTTAATATAGAAATTGAAAAGGAAGAGAGGTATTAGGAGCAAAGGGAAAGAGC
83366653 AAACTAGCTAAAATTGGGGGACAAAAACACAATGTTTTTCATCAGTTTGCTTCCCAAAAGAG
66 AAACTAGCT--AATTGGGGGACAAAAACACAATGTTTTTCATCAGTTTGCTTCCCAAAAGAG
*
83366715 ACAAAATTGAATCTTAATATAGAAATTGAAAAGGAAGAGAGGTATTGGGAGCAAAGGGAAAGAGC
1 ACAAAATTGAATCTTAATATAGAAATTGAAAAGGAAGAGAGGTATTAGGAGCAAAGGGAAAGAGC
* * *
83366780 AAATTGGCTAATTGGGGGACAAAAACACAATGTTTTTCATCAGTTTGCTTCCTAAAAGAG
66 AAACTAGCTAATTGGGGGACAAAAACACAATGTTTTTCATCAGTTTGCTTCCCAAAAGAG
83366840 ACA
1 ACA
83366843 CACAAATCGT
Statistics
Matches: 124, Mismatches: 4, Indels: 2
0.95 0.03 0.02
Matches are distributed among these distances:
125 53 0.43
127 71 0.57
ACGTcount: A:0.43, C:0.11, G:0.23, T:0.23
Consensus pattern (125 bp):
ACAAAATTGAATCTTAATATAGAAATTGAAAAGGAAGAGAGGTATTAGGAGCAAAGGGAAAGAGC
AAACTAGCTAATTGGGGGACAAAAACACAATGTTTTTCATCAGTTTGCTTCCCAAAAGAG
Found at i:83376029 original size:57 final size:57
Alignment explanation
Indices: 83375936--83376092 Score: 199
Period size: 57 Copynumber: 2.8 Consensus size: 57
83375926 ATCATATAAC
* * ** * * *
83375936 AGGATTACCAGTCCAGGCTAAATCCTATCTCCAACATATGCTCACAAGAGCTTAATT
1 AGGATTACCAGTCCAGGCTAAATCCTTTATGTAACATATACTCAAAAGAGCTCAATT
* * *
83375993 AGGATTATCAGTCTAGGTTAAATCCTTTATGTAACATATACTCAAAAGAGCTCAATT
1 AGGATTACCAGTCCAGGCTAAATCCTTTATGTAACATATACTCAAAAGAGCTCAATT
*
83376050 AGGATTACCAGTCCAGGCTAAATCC-TAATTGTAACATATACTC
1 AGGATTACCAGTCCAGGCTAAATCCTTTA-TGTAACATATACTC
83376093 GAGAGGGATT
Statistics
Matches: 85, Mismatches: 14, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
56 2 0.02
57 83 0.98
ACGTcount: A:0.35, C:0.22, G:0.14, T:0.29
Consensus pattern (57 bp):
AGGATTACCAGTCCAGGCTAAATCCTTTATGTAACATATACTCAAAAGAGCTCAATT
Found at i:83380736 original size:26 final size:26
Alignment explanation
Indices: 83380686--83380736 Score: 66
Period size: 26 Copynumber: 2.0 Consensus size: 26
83380676 TTTATTTCAA
* *
83380686 TATGCAATATTATACATGAACTTTTT
1 TATGCAATATTATACATAAAATTTTT
* *
83380712 TATGCAATTTTATTCATAAAATTTT
1 TATGCAATATTATACATAAAATTTT
83380737 ATTTGATTCA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
26 21 1.00
ACGTcount: A:0.35, C:0.10, G:0.06, T:0.49
Consensus pattern (26 bp):
TATGCAATATTATACATAAAATTTTT
Found at i:83385176 original size:40 final size:39
Alignment explanation
Indices: 83385092--83385276 Score: 203
Period size: 40 Copynumber: 4.6 Consensus size: 39
83385082 TTGAATGATG
* * * *
83385092 TCCGGGCTAAGTCTCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTC-CGAAGGCATTTGTGC-GAGTTACTAAA
* * * *
83385132 TCCGGACTAAGATCCGAAGGCATTTGTGTGAGATACTAAT
1 TCCGGGCTAAG-TCCGAAGGCATTTGTGCGAGTTACTAAA
*
83385172 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCGAAGGCATTTGTGCGAGTTACTAAA
*
83385211 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGT-CCGAAGGCATTTGTGCGAGTTACTA-AA
*
83385252 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGT-CCGAAGGCATTTG
83385277 AACGGGGAGC
Statistics
Matches: 124, Mismatches: 17, Indels: 8
0.83 0.11 0.05
Matches are distributed among these distances:
39 34 0.27
40 80 0.65
41 10 0.08
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (39 bp):
TCCGGGCTAAGTCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:83385228 original size:79 final size:81
Alignment explanation
Indices: 83385092--83385276 Score: 218
Period size: 79 Copynumber: 2.3 Consensus size: 81
83385082 TTGAATGATG
* *
83385092 TCCGGGCTAAGTCTCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
*
83385156 TGTGTGAGATACTA-A
66 TGTGCGAGATACTATA
* * * **
83385171 TTCCGGGCTAAG-CCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCA
1 -TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCA
*
83385233 TTTGTGCGAGTTACTATA
64 TTTGTGCGAGATACTATA
* *
83385251 ACCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
83385277 AACGGGGAGC
Statistics
Matches: 90, Mismatches: 11, Indels: 8
0.83 0.10 0.07
Matches are distributed among these distances:
78 1 0.01
79 56 0.62
80 33 0.37
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
TGTGCGAGATACTATA
Found at i:83385298 original size:79 final size:79
Alignment explanation
Indices: 83385145--83385309 Score: 183
Period size: 79 Copynumber: 2.1 Consensus size: 79
83385135 GGACTAAGAT
* * ** **
83385145 CCGAAGGCATTTGTGTGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAA
1 CCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGGGACTAA
*
83385210 ATCCGGGTTAAGTC
66 ATCCGGGTTAAATC
* *
83385224 CCGAAGGCATTTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACG-GGGAGC
1 CCGAAGGCATTTGTGCGAGATACTAAT-ACCGGGCTAAG-CCCGAAGGCATTTGAACGAGGGA-C
* *
83385287 TATATCC-GGTTAAATT
63 TAAATCCGGGTTAAATC
83385303 CCGAAGG
1 CCGAAGG
83385310 TACGTGATTT
Statistics
Matches: 72, Mismatches: 11, Indels: 6
0.81 0.12 0.07
Matches are distributed among these distances:
78 2 0.03
79 47 0.65
80 23 0.32
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.25
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGGGACTAA
ATCCGGGTTAAATC
Found at i:83388706 original size:5 final size:5
Alignment explanation
Indices: 83388696--83388729 Score: 59
Period size: 5 Copynumber: 6.6 Consensus size: 5
83388686 CCAATTTGTG
83388696 AAAAT AAAAT AAAAAT AAAAT AAAAT AAAAT AAA
1 AAAAT AAAAT -AAAAT AAAAT AAAAT AAAAT AAA
83388730 GGACACACGA
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
5 23 0.82
6 5 0.18
ACGTcount: A:0.82, C:0.00, G:0.00, T:0.18
Consensus pattern (5 bp):
AAAAT
Found at i:83389401 original size:59 final size:59
Alignment explanation
Indices: 83389243--83389415 Score: 155
Period size: 54 Copynumber: 2.9 Consensus size: 59
83389233 TATTTATATT
* * *
83389243 AATTTATATTTCATGTATAATTATATTAAATTATTCAAATATTATTTATCCTTATATTTGA
1 AATTTATATTTCATGTATCATTATATTAAATTATT-AAATA-TATTTATCATTATACTTGA
* *
83389304 ATTTTTAAAATAGTTT-ATGTATCATTA-ATT---TTA-CAAATA-ATTTAT-ATTAATTACTTG
1 A-ATTT---ATA-TTTCATGTATCATTATATTAAATTATTAAATATATTTATCATT-A-TACTTG
83389361 A
59 A
83389362 AATTTATATTTCATGTATCATTATATTAAATTATTAAATATCATTTATCATTAT
1 AATTTATATTTCATGTATCATTATATTAAATTATTAAATAT-ATTTATCATTAT
83389416 TTTTAAATTT
Statistics
Matches: 89, Mismatches: 7, Indels: 33
0.69 0.05 0.26
Matches are distributed among these distances:
53 3 0.03
54 14 0.16
55 3 0.03
56 2 0.02
57 10 0.11
58 10 0.11
59 10 0.11
60 1 0.01
61 11 0.12
62 6 0.07
64 3 0.03
65 13 0.15
66 3 0.03
ACGTcount: A:0.39, C:0.06, G:0.03, T:0.51
Consensus pattern (59 bp):
AATTTATATTTCATGTATCATTATATTAAATTATTAAATATATTTATCATTATACTTGA
Found at i:83389424 original size:59 final size:58
Alignment explanation
Indices: 83389243--83389425 Score: 157
Period size: 59 Copynumber: 3.1 Consensus size: 58
83389233 TATTTATATT
* *
83389243 AATTTATATTTCATGTATAATTATATTAAATTATTCAAATATTATTTATCCTTATATTTGA
1 AATTTATATTTCATGTATCATTATATTAAATTATT-AAATA-TATTTATCATTAT-TTTGA
* *
83389304 ATTTTTAAAATAGTTT-ATGTATCATTA-ATT---TTA-CAAATA-ATTTAT-ATTAATTACTTG
1 A-ATTT---ATA-TTTCATGTATCATTATATTAAATTATTAAATATATTTATCATT-ATT--TTG
83389361 A
58 A
*
83389362 AATTTATATTTCATGTATCATTATATTAAATTATTAAATATCATTTATCATTATTTTTA
1 AATTTATATTTCATGTATCATTATATTAAATTATTAAATAT-ATTTATCATTATTTTGA
83389421 AATTT
1 AATTT
83389426 TTAAATATTA
Statistics
Matches: 98, Mismatches: 7, Indels: 36
0.70 0.05 0.26
Matches are distributed among these distances:
53 3 0.03
54 14 0.14
55 3 0.03
56 3 0.03
57 11 0.11
58 8 0.08
59 18 0.18
61 13 0.13
62 6 0.06
64 3 0.03
65 13 0.13
66 3 0.03
ACGTcount: A:0.38, C:0.06, G:0.03, T:0.52
Consensus pattern (58 bp):
AATTTATATTTCATGTATCATTATATTAAATTATTAAATATATTTATCATTATTTTGA
Found at i:83389430 original size:31 final size:30
Alignment explanation
Indices: 83389372--83389433 Score: 88
Period size: 31 Copynumber: 2.0 Consensus size: 30
83389362 AATTTATATT
83389372 TCATGTATCATTATATTAAATTATTAAATA
1 TCATGTATCATTATATTAAATTATTAAATA
* * *
83389402 TCATTTATCATTATTTTTAAATTTTTAAATA
1 TCATGTATCATTA-TATTAAATTATTAAATA
83389433 T
1 T
83389434 TATATGTATA
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
30 12 0.43
31 16 0.57
ACGTcount: A:0.39, C:0.06, G:0.02, T:0.53
Consensus pattern (30 bp):
TCATGTATCATTATATTAAATTATTAAATA
Found at i:83389487 original size:119 final size:118
Alignment explanation
Indices: 83389243--83389525 Score: 376
Period size: 119 Copynumber: 2.4 Consensus size: 118
83389233 TATTTATATT
* * * *
83389243 AATTTATATTTCATGTATAATTATATTAAATTATTCAAATATTATTTATCCTTATATTTGAATTT
1 AATTTATATTTCATGTATCATTATATTAAATTATT-AAATATCATTTATCATTATATTTAAATTT
* * *
83389308 TTAAAATAGTTTATGTATCATTAATTTTACAAATAATTTATATTAATTACTTGA
65 TTAAAATAGTTTATGTATAATTAATTTTAAAAATAATTTATATTAAGTACTTGA
*
83389362 AATTTATATTTCATGTATCATTATATTAAATTATTAAATATCATTTATCATTATTTTTAAATTTT
1 AATTTATATTTCATGTATCATTATATTAAATTATTAAATATCATTTATCATTATATTTAAATTTT
*
83389427 T-AAATA-TTATATGTATAATTAATTTTAAAAATAA-TTATATTTGAACGTA-TTTA
66 TAAAATAGTT-TATGTATAATTAATTTTAAAAATAATTTATA-TT-AA-GTACTTGA
* *
83389480 AATTTTATATTTCATTTATCATTATAGTAAATTATTTAAATATCAT
1 AA-TTTATATTTCATGTATCATTATATTAAATTA-TTAAATATCAT
83389526 CTAAGTCAAT
Statistics
Matches: 147, Mismatches: 11, Indels: 11
0.87 0.07 0.07
Matches are distributed among these distances:
116 7 0.05
117 30 0.20
118 34 0.23
119 65 0.44
120 11 0.07
ACGTcount: A:0.40, C:0.05, G:0.04, T:0.52
Consensus pattern (118 bp):
AATTTATATTTCATGTATCATTATATTAAATTATTAAATATCATTTATCATTATATTTAAATTTT
TAAAATAGTTTATGTATAATTAATTTTAAAAATAATTTATATTAAGTACTTGA
Found at i:83398764 original size:133 final size:133
Alignment explanation
Indices: 83398621--83398873 Score: 391
Period size: 133 Copynumber: 1.9 Consensus size: 133
83398611 TTATTCATTT
* *
83398621 AAAAAATTCTTAAAAACGAAGGTAAGGTTCGATACTTGGCAATTC-GGAGAATTGTGCCCTATCG
1 AAAAAATTCTTAAAAACGAAGGTAAAGTTCGATACTTGGCAATTCGGGA-AATAGTGCCCTATCG
*
83398685 TGCTGGGTTGCAATTTCCCGTTTGTTCAAAACAATCGAATGTTCCTTTGGAATTTCTTTCATGTC
65 TGCTGGGTTGCAATTTCCCGTTTGTTCAAAACAATCGAATATTCCTTTGGAATTTCTTTCATGTC
83398750 TTAA
130 TTAA
* * * **
83398754 AAAAAATTCTTCAAAACTAAGGTAAAGTTCGGTGTTTGGCAATTCGGGAAATAGTGCCCTATCGT
1 AAAAAATTCTTAAAAACGAAGGTAAAGTTCGATACTTGGCAATTCGGGAAATAGTGCCCTATCGT
* * *
83398819 GCTGGGTTGCGATTTCCCGTTTGTTCAAAATAATCGAATATTCCTTTGGACTTTC
66 GCTGGGTTGCAATTTCCCGTTTGTTCAAAACAATCGAATATTCCTTTGGAATTTC
83398874 ACTCGTGTTT
Statistics
Matches: 108, Mismatches: 11, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
133 105 0.97
134 3 0.03
ACGTcount: A:0.28, C:0.17, G:0.20, T:0.34
Consensus pattern (133 bp):
AAAAAATTCTTAAAAACGAAGGTAAAGTTCGATACTTGGCAATTCGGGAAATAGTGCCCTATCGT
GCTGGGTTGCAATTTCCCGTTTGTTCAAAACAATCGAATATTCCTTTGGAATTTCTTTCATGTCT
TAA
Found at i:83404697 original size:52 final size:48
Alignment explanation
Indices: 83404635--83404827 Score: 196
Period size: 47 Copynumber: 4.0 Consensus size: 48
83404625 GAAATGTGAT
* *
83404635 TTCCGTATAAGACCATAGCTGGGCTATGGCTTCGGAGAAATGTGATATGTGC
1 TTCCGTATAAGACCATAGCTGGGATATGGCATC-GAG---TGTGATATGTGC
* *
83404687 TTCCGTATAAGACCATATCCGGGATATGGCATCG-GTGTGATATGTGC
1 TTCCGTATAAGACCATAGCTGGGATATGGCATCGAGTGTGATATGTGC
* * *
83404734 TACTGTATAAGACCATATCTGGGATATGGCATC-AGTGTGATATGTG-
1 TTCCGTATAAGACCATAGCTGGGATATGGCATCGAGTGTGATATGTGC
* * * * *
83404780 ATCCGTGTAAGACCATGGCTGGGCTATGGCCTCG-GTATGTGATATGTG
1 TTCCGTATAAGACCATAGCTGGGATATGGCATCGAG--TGTGATATGTG
83404828 ACTATGTGCA
Statistics
Matches: 122, Mismatches: 15, Indels: 12
0.82 0.10 0.08
Matches are distributed among these distances:
46 26 0.21
47 54 0.44
48 11 0.09
50 1 0.01
51 1 0.01
52 29 0.24
ACGTcount: A:0.24, C:0.17, G:0.29, T:0.30
Consensus pattern (48 bp):
TTCCGTATAAGACCATAGCTGGGATATGGCATCGAGTGTGATATGTGC
Found at i:83404815 original size:93 final size:97
Alignment explanation
Indices: 83404639--83404846 Score: 228
Period size: 93 Copynumber: 2.1 Consensus size: 97
83404629 TGTGATTTCC
* * *
83404639 GTATAAGACCATAGCTGGGCTATGGCTTCGGAGAAATGTGATATGTGCTTCCGTATAAGACCATA
1 GTATAAGACCATAGCTGGGATATGGCATC-GAG--ATGTGATATGTGCATCCGTATAAGACCATA
*
83404704 TCCGGGATATGGCATCGG-TGTGATATGTG-CTACT
63 GCCGGGATATGGCATCGGATGTGATATGTGACTA-T
* * * *
83404738 GTATAAGACCATATCTGGGATATGGCATC-AG-TGTGATATGTG-ATCCGTGTAAGACCATGGCT
1 GTATAAGACCATAGCTGGGATATGGCATCGAGATGTGATATGTGCATCCGTATAAGACCATAGCC
* *
83404800 GGGCTATGGCCTCGGTATGTGATATGTGACTAT
66 GGGATATGGCATCGG-ATGTGATATGTGACTAT
**
83404833 GTGCAAGACCATAG
1 GTATAAGACCATAG
83404847 TTTTACTATG
Statistics
Matches: 93, Mismatches: 13, Indels: 10
0.80 0.11 0.09
Matches are distributed among these distances:
93 28 0.30
94 11 0.12
95 23 0.25
96 3 0.03
97 2 0.02
99 26 0.28
ACGTcount: A:0.25, C:0.17, G:0.29, T:0.29
Consensus pattern (97 bp):
GTATAAGACCATAGCTGGGATATGGCATCGAGATGTGATATGTGCATCCGTATAAGACCATAGCC
GGGATATGGCATCGGATGTGATATGTGACTAT
Found at i:83405213 original size:24 final size:22
Alignment explanation
Indices: 83405170--83405213 Score: 52
Period size: 24 Copynumber: 1.9 Consensus size: 22
83405160 ATAAATTGTG
* *
83405170 AAAATTGAGTTAAGGGCTGAAT
1 AAAATTGAGTTAAAGCCTGAAT
83405192 AAAATATGAGATTAAAGCCTGA
1 AAAAT-TGAG-TTAAAGCCTGA
83405214 TGAGTCTAGT
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
22 5 0.28
23 4 0.22
24 9 0.50
ACGTcount: A:0.45, C:0.07, G:0.23, T:0.25
Consensus pattern (22 bp):
AAAATTGAGTTAAAGCCTGAAT
Found at i:83408790 original size:16 final size:16
Alignment explanation
Indices: 83408769--83408799 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
83408759 AATTTATTAA
83408769 ATTAAATAATTTTCTT
1 ATTAAATAATTTTCTT
83408785 ATTAAATAATTTTCT
1 ATTAAATAATTTTCT
83408800 CAACCCAATT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.39, C:0.06, G:0.00, T:0.55
Consensus pattern (16 bp):
ATTAAATAATTTTCTT
Found at i:83411862 original size:21 final size:21
Alignment explanation
Indices: 83411838--83411882 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
83411828 TAATATAAAA
83411838 TATTTT-CAAAATAATATTTAT
1 TATTTTACAAAATAA-ATTTAT
* *
83411859 TATTTTATAAAATAAATTTTT
1 TATTTTACAAAATAAATTTAT
83411880 TAT
1 TAT
83411883 AATTTTACAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
21 14 0.67
22 7 0.33
ACGTcount: A:0.42, C:0.02, G:0.00, T:0.56
Consensus pattern (21 bp):
TATTTTACAAAATAAATTTAT
Found at i:83420256 original size:5 final size:5
Alignment explanation
Indices: 83420246--83420270 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
83420236 AGTATAAATA
83420246 TATAT TATAT TATAT TATAT TATAT
1 TATAT TATAT TATAT TATAT TATAT
83420271 ATAATAAAAG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (5 bp):
TATAT
Found at i:83421265 original size:10 final size:10
Alignment explanation
Indices: 83421250--83421275 Score: 52
Period size: 10 Copynumber: 2.6 Consensus size: 10
83421240 TGAAAAGTGA
83421250 ATTGAATTGT
1 ATTGAATTGT
83421260 ATTGAATTGT
1 ATTGAATTGT
83421270 ATTGAA
1 ATTGAA
83421276 ATGAGAATTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 16 1.00
ACGTcount: A:0.35, C:0.00, G:0.19, T:0.46
Consensus pattern (10 bp):
ATTGAATTGT
Found at i:83424880 original size:46 final size:46
Alignment explanation
Indices: 83424828--83424960 Score: 239
Period size: 46 Copynumber: 2.9 Consensus size: 46
83424818 AGTGTGCTCT
83424828 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGACAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGACAAC
*
83424874 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGACAAC
* *
83424920 CTAATATGAAATGTATAAGACCATGGTTGAAAGATACCATG
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATG
83424961 GTTGAAAGAT
Statistics
Matches: 84, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
46 84 1.00
ACGTcount: A:0.39, C:0.14, G:0.22, T:0.25
Consensus pattern (46 bp):
CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGACAAC
Found at i:83424959 original size:62 final size:62
Alignment explanation
Indices: 83424893--83425023 Score: 244
Period size: 62 Copynumber: 2.1 Consensus size: 62
83424883 AATGTGTAAG
83424893 ACCATGGTTGAAAGATACCATGGCAACCTAATATGAAATGTATAAGACCATGGTTGAAAGAT
1 ACCATGGTTGAAAGATACCATGGCAACCTAATATGAAATGTATAAGACCATGGTTGAAAGAT
* *
83424955 ACCATGGTTGAAAGATACCATGGCAACTTAATATGAAATGTGTAAGACCATGGTTGAAAGAT
1 ACCATGGTTGAAAGATACCATGGCAACCTAATATGAAATGTATAAGACCATGGTTGAAAGAT
83425017 ACCATGG
1 ACCATGG
83425024 CAACTTGATA
Statistics
Matches: 67, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
62 67 1.00
ACGTcount: A:0.39, C:0.15, G:0.22, T:0.24
Consensus pattern (62 bp):
ACCATGGTTGAAAGATACCATGGCAACCTAATATGAAATGTATAAGACCATGGTTGAAAGAT
Found at i:83424960 original size:16 final size:16
Alignment explanation
Indices: 83424939--83424977 Score: 78
Period size: 16 Copynumber: 2.4 Consensus size: 16
83424929 AATGTATAAG
83424939 ACCATGGTTGAAAGAT
1 ACCATGGTTGAAAGAT
83424955 ACCATGGTTGAAAGAT
1 ACCATGGTTGAAAGAT
83424971 ACCATGG
1 ACCATGG
83424978 CAACTTAATA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 23 1.00
ACGTcount: A:0.36, C:0.15, G:0.26, T:0.23
Consensus pattern (16 bp):
ACCATGGTTGAAAGAT
Found at i:83425005 original size:46 final size:46
Alignment explanation
Indices: 83424955--83425260 Score: 409
Period size: 46 Copynumber: 6.7 Consensus size: 46
83424945 GTTGAAAGAT
* * * **
83424955 ACCATGGTTGAAAGATACCATGGCAACTTAATATGAAATGTGTAAG
1 ACCATGGTTGAAAGATACCATGGCAACATGACATGAAATGAATAAG
* * *
83425001 ACCATGGTTGAAAGATACCATGGCAACTTGATATGAAAT-ATGTAAG
1 ACCATGGTTGAAAGATACCATGGCAACATGACATGAAATGA-ATAAG
* *
83425047 ACCATGGTTGAAAGATACCATGGCAACGTGATATGAAATGAATAAG
1 ACCATGGTTGAAAGATACCATGGCAACATGACATGAAATGAATAAG
**
83425093 ACCATGGTTGAAAGATACCATGGCAACATGACGGGAAATGAATAAG
1 ACCATGGTTGAAAGATACCATGGCAACATGACATGAAATGAATAAG
* *
83425139 ACCATGGTTGAAAGATACCATGGCAGCGTGACATGAAATGAATAAG
1 ACCATGGTTGAAAGATACCATGGCAACATGACATGAAATGAATAAG
*
83425185 ACCATGGTTGAAAGATACCATGGCAACATGACA-GAAAATGAGTAAG
1 ACCATGGTTGAAAGATACCATGGCAACATGACATG-AAATGAATAAG
* * * *
83425231 ACCATAGTTGAAAGACACTATGGCATCATG
1 ACCATGGTTGAAAGATACCATGGCAACATG
83425261 TCAAAGATAA
Statistics
Matches: 238, Mismatches: 19, Indels: 6
0.90 0.07 0.02
Matches are distributed among these distances:
45 1 0.00
46 236 0.99
47 1 0.00
ACGTcount: A:0.40, C:0.15, G:0.24, T:0.22
Consensus pattern (46 bp):
ACCATGGTTGAAAGATACCATGGCAACATGACATGAAATGAATAAG
Found at i:83425036 original size:108 final size:108
Alignment explanation
Indices: 83424847--83425069 Score: 383
Period size: 108 Copynumber: 2.1 Consensus size: 108
83424837 AATGTGTAAG
*
83424847 ACCATGGTTGAAAGATACCATGACAACCTGATATGAAATGTGTAAGACCATGGTTGAAAGATACC
1 ACCATGGTTGAAAGATACCATGACAACCTAATATGAAATGTGTAAGACCATGGTTGAAAGATACC
*
83424912 ATGGCAACCTAATATGAAATGTATAAGACCATGGTTGAAAGAT
66 ATGGCAACCTAATATGAAATATATAAGACCATGGTTGAAAGAT
* *
83424955 ACCATGGTTGAAAGATACCATGGCAACTTAATATGAAATGTGTAAGACCATGGTTGAAAGATACC
1 ACCATGGTTGAAAGATACCATGACAACCTAATATGAAATGTGTAAGACCATGGTTGAAAGATACC
* * *
83425020 ATGGCAACTTGATATGAAATATGTAAGACCATGGTTGAAAGAT
66 ATGGCAACCTAATATGAAATATATAAGACCATGGTTGAAAGAT
83425063 ACCATGG
1 ACCATGG
83425070 CAACGTGATA
Statistics
Matches: 108, Mismatches: 7, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
108 108 1.00
ACGTcount: A:0.39, C:0.14, G:0.22, T:0.25
Consensus pattern (108 bp):
ACCATGGTTGAAAGATACCATGACAACCTAATATGAAATGTGTAAGACCATGGTTGAAAGATACC
ATGGCAACCTAATATGAAATATATAAGACCATGGTTGAAAGAT
Found at i:83425562 original size:16 final size:17
Alignment explanation
Indices: 83425541--83425573 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
83425531 ATGATGGAGC
*
83425541 ATGAAAT-ATTGATATA
1 ATGAAATGATTAATATA
83425557 ATGAAATGATTAATATA
1 ATGAAATGATTAATATA
83425574 TACTTATGAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 7 0.47
17 8 0.53
ACGTcount: A:0.52, C:0.00, G:0.12, T:0.36
Consensus pattern (17 bp):
ATGAAATGATTAATATA
Found at i:83428589 original size:93 final size:93
Alignment explanation
Indices: 83428477--83428647 Score: 256
Period size: 93 Copynumber: 1.8 Consensus size: 93
83428467 GCCCCTAAGT
** *
83428477 GAACTCGGACTCAACTCAACGAGCTCA-AGTGTTCGCATCCATAAGTGAACTCGAACTCAACTCA
1 GAACTCGGACTCAACTCAACGAGCTCAGA-CATTCACATCCATAAGTGAACTCGAACTCAACTCA
83428541 ACGAA-TTCGGATGCCTAGTTACATTTCAC
65 AC-AAGTTCGGATGCCTAGTTACATTTCAC
* * *
83428570 GAACTCGGACTCAACTCAACGAGTTCGGACATTCACATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCAGACATTCACATCCATAAGTGAACTCGAACTCAACTCAA
83428635 CAAGTTCGGATGC
66 CAAGTTCGGATGC
83428648 TCAACCATCC
Statistics
Matches: 70, Mismatches: 6, Indels: 4
0.88 0.08 0.05
Matches are distributed among these distances:
92 2 0.03
93 67 0.96
94 1 0.01
ACGTcount: A:0.32, C:0.28, G:0.18, T:0.22
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCAGACATTCACATCCATAAGTGAACTCGAACTCAACTCAA
CAAGTTCGGATGCCTAGTTACATTTCAC
Found at i:83428635 original size:46 final size:47
Alignment explanation
Indices: 83428472--83428644 Score: 169
Period size: 46 Copynumber: 3.7 Consensus size: 47
83428462 AACCCGCCCC
* * ** *
83428472 TAAGTGAACTCGGACTCAACTCAACGAGCTC-AAGTGTTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGAGCATTCACATCCA
* * *
83428518 TAAGTGAACTCGAACTCAACTCAACGAATTCGGATGCCTAGTT-ACAT--T
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA-G-C-A-TTCACATCCA
* *
83428566 TCA-CGAACTCGGACTCAACTCAACGAGTTCGGA-CATTCACATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGAGCATTCACATCCA
*
83428611 TAAGTGAACTCGGACTCAACTCAACAAGTTCGGA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
83428645 TGCTCAACCA
Statistics
Matches: 102, Mismatches: 16, Indels: 18
0.75 0.12 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
44 1 0.01
45 2 0.02
46 56 0.55
47 28 0.27
48 3 0.03
50 3 0.03
51 2 0.02
ACGTcount: A:0.32, C:0.27, G:0.18, T:0.23
Consensus pattern (47 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGAGCATTCACATCCA
Found at i:83431068 original size:15 final size:15
Alignment explanation
Indices: 83431044--83431091 Score: 62
Period size: 15 Copynumber: 3.2 Consensus size: 15
83431034 AGGAAACCGA
83431044 ATAAAGAAATCCAAG
1 ATAAAGAAATCCAAG
*
83431059 ATAGAGAAATCC-AG
1 ATAAAGAAATCCAAG
*
83431073 AATAAAGAAACCCAAG
1 -ATAAAGAAATCCAAG
83431089 ATA
1 ATA
83431092 CGATACTATA
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
14 2 0.07
15 24 0.86
16 2 0.07
ACGTcount: A:0.58, C:0.15, G:0.15, T:0.12
Consensus pattern (15 bp):
ATAAAGAAATCCAAG
Found at i:83455264 original size:25 final size:23
Alignment explanation
Indices: 83455203--83455271 Score: 61
Period size: 22 Copynumber: 3.0 Consensus size: 23
83455193 GTGCAACCAC
*
83455203 TTTT-CTTATATTAAAATA-TTT
1 TTTTACTTTTATTAAAATATTTT
* *
83455224 TTTTACTTTAAATAAAATATTATT
1 TTTTACTTTTATTAAAATATT-TT
*
83455248 ATTTTATTTTTATTAAAAATATTT
1 -TTTTACTTTTATT-AAAATATTT
83455272 AAATATATAT
Statistics
Matches: 37, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
21 4 0.11
22 11 0.30
23 1 0.03
24 2 0.05
25 11 0.30
26 8 0.22
ACGTcount: A:0.38, C:0.03, G:0.00, T:0.59
Consensus pattern (23 bp):
TTTTACTTTTATTAAAATATTTT
Found at i:83455830 original size:58 final size:59
Alignment explanation
Indices: 83455765--83455877 Score: 192
Period size: 58 Copynumber: 1.9 Consensus size: 59
83455755 TTGTTTTTTA
* *
83455765 TAATTATTTTAAAATTAATTTGTTAGTAA-TAGGATTATGTTATAAATTGTTGTGTTTG
1 TAATTATTTTAAAACTAATTTATTAGTAATTAGGATTATGTTATAAATTGTTGTGTTTG
83455823 TAATTATTTTAAAACTAATTTATTAGTAATTTAGGATTATGTTATAAATTGTTGT
1 TAATTATTTTAAAACTAATTTATTAGTAA-TTAGGATTATGTTATAAATTGTTGT
83455878 ATTTAGTTTA
Statistics
Matches: 51, Mismatches: 2, Indels: 2
0.93 0.04 0.04
Matches are distributed among these distances:
58 27 0.53
60 24 0.47
ACGTcount: A:0.35, C:0.01, G:0.13, T:0.51
Consensus pattern (59 bp):
TAATTATTTTAAAACTAATTTATTAGTAATTAGGATTATGTTATAAATTGTTGTGTTTG
Found at i:83456328 original size:105 final size:105
Alignment explanation
Indices: 83456071--83456459 Score: 550
Period size: 102 Copynumber: 3.8 Consensus size: 105
83456061 TTATAGTTAT
* * * *
83456071 TTATTTTGTTAATAATTTATGGGACTAGG-T-TACAAATTGTTAGTGTTTAG-TATAGGGTTTTG
1 TTATTTTGTTAGTAATTTAT--GATTAGGTTATATAAATTGTTAGTGTTTAGTTATAGTGTTTTG
*
83456133 TGATTTTTTAGTAATGTAATTTTTAAAAA-AATAATTTTATAG
64 TGATTTTTTAGTAAT-TTATTTTTAAAAATAATAATTTTATAG
83456175 TTATTTTGTTAGTAA---ATGATTAGGTTATATAAATTGTTAGTGTTTAGTTAT-GTGTTTTGTG
1 TTATTTTGTTAGTAATTTATGATTAGGTTATATAAATTGTTAGTGTTTAGTTATAGTGTTTTGTG
83456236 ATTTTTTAGTAATTTATTTTTAAAAAATAATAATTTTATAG
66 ATTTTTTAGTAATTTATTTTT-AAAAATAATAATTTTATAG
* * *
83456277 TTATTTTTTTAGTAATTTATGATTAGATTATATAAATTGTTTGTGTTTAGTTAT-GTGTTTTGTG
1 TTATTTTGTTAGTAATTTATGATTAGGTTATATAAATTGTTAGTGTTTAGTTATAGTGTTTTGTG
* *
83456341 ATTTTTTAGTAATGTA--TTTAAAAATACTAATTTTATAG
66 ATTTTTTAGTAATTTATTTTTAAAAATAATAATTTTATAG
83456379 TTATTTTGTTAGTAATTTATGATTAGGTTATATAAATTGTTAGTGTTTAGTT-TAGTGTTTTGTG
1 TTATTTTGTTAGTAATTTATGATTAGGTTATATAAATTGTTAGTGTTTAGTTATAGTGTTTTGTG
83456443 ATTTTTTAATGTAATTT
66 ATTTTTT-A-GTAATTT
83456460 TTATATAATG
Statistics
Matches: 260, Mismatches: 14, Indels: 22
0.88 0.05 0.07
Matches are distributed among these distances:
99 6 0.02
100 8 0.03
101 49 0.19
102 114 0.44
103 4 0.02
104 20 0.08
105 59 0.23
ACGTcount: A:0.30, C:0.01, G:0.16, T:0.54
Consensus pattern (105 bp):
TTATTTTGTTAGTAATTTATGATTAGGTTATATAAATTGTTAGTGTTTAGTTATAGTGTTTTGTG
ATTTTTTAGTAATTTATTTTTAAAAATAATAATTTTATAG
Found at i:83456483 original size:15 final size:16
Alignment explanation
Indices: 83456447--83456483 Score: 58
Period size: 15 Copynumber: 2.4 Consensus size: 16
83456437 TTTGTGATTT
83456447 TTTAATGTAATTTTTA
1 TTTAATGTAATTTTTA
*
83456463 TATAATGTAA-TTTTA
1 TTTAATGTAATTTTTA
83456478 TTTAAT
1 TTTAAT
83456484 TTTATTTATT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
15 10 0.53
16 9 0.47
ACGTcount: A:0.35, C:0.00, G:0.05, T:0.59
Consensus pattern (16 bp):
TTTAATGTAATTTTTA
Found at i:83458553 original size:33 final size:33
Alignment explanation
Indices: 83458516--83458580 Score: 103
Period size: 33 Copynumber: 2.0 Consensus size: 33
83458506 CGCTCCTTCT
* *
83458516 GGCCCGTATCCACCGTCATACTCCATTCCTCCC
1 GGCCCGTATCCACCGTCACACTCCACTCCTCCC
*
83458549 GGCCCGTATCCACCGTCGCACTCCACTCCTCC
1 GGCCCGTATCCACCGTCACACTCCACTCCTCC
83458581 TAGCTCAATT
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
33 29 1.00
ACGTcount: A:0.14, C:0.51, G:0.14, T:0.22
Consensus pattern (33 bp):
GGCCCGTATCCACCGTCACACTCCACTCCTCCC
Found at i:83458935 original size:75 final size:75
Alignment explanation
Indices: 83458775--83459001 Score: 312
Period size: 75 Copynumber: 3.0 Consensus size: 75
83458765 AATAAATTCA
* * * * *
83458775 TATTTATGTAATAATTTTTTTACCATTTTAGTTATCAATTTTATGATTTTTTTTTGCAATTTAAG
1 TATTTATGTAATGACTTTTTTGCCATTTTA-TTATCAATTTTATG-GTTTTTTTTGCAATTTAAA
*
83458840 TAGTCAACTTTG
64 TAGTAAACTTTG
83458852 TATTTATGTAATGACTTTTTTGCCATTTTATTATCAATTTTATGGTTTTTTTTGCAATTTAAATA
1 TATTTATGTAATGACTTTTTTGCCATTTTATTATCAATTTTATGGTTTTTTTTGCAATTTAAATA
83458917 GTAAACTTTG
66 GTAAACTTTG
* * * *
83458927 TATTTATGTATTGACTTTTTCGCTATTTCAATTATCAATTTTATGG-TTTTTTTGCAATTTAAAT
1 TATTTATGTAATGACTTTTTTGCCATTT-TATTATCAATTTTATGGTTTTTTTTGCAATTTAAAT
*
83458991 AAATAAACTTT
65 -AGTAAACTTT
83459002 AAACTAACTT
Statistics
Matches: 137, Mismatches: 11, Indels: 5
0.90 0.07 0.03
Matches are distributed among these distances:
75 71 0.52
76 39 0.28
77 27 0.20
ACGTcount: A:0.28, C:0.08, G:0.09, T:0.55
Consensus pattern (75 bp):
TATTTATGTAATGACTTTTTTGCCATTTTATTATCAATTTTATGGTTTTTTTTGCAATTTAAATA
GTAAACTTTG
Found at i:83463033 original size:37 final size:37
Alignment explanation
Indices: 83462992--83463065 Score: 148
Period size: 37 Copynumber: 2.0 Consensus size: 37
83462982 TACTGAGTGG
83462992 TCTATTTGCTTATGACTTACTAAGCTATAAAAAGCTT
1 TCTATTTGCTTATGACTTACTAAGCTATAAAAAGCTT
83463029 TCTATTTGCTTATGACTTACTAAGCTATAAAAAGCTT
1 TCTATTTGCTTATGACTTACTAAGCTATAAAAAGCTT
83463066 ACTCTGTGAC
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 37 1.00
ACGTcount: A:0.32, C:0.16, G:0.11, T:0.41
Consensus pattern (37 bp):
TCTATTTGCTTATGACTTACTAAGCTATAAAAAGCTT
Found at i:83476788 original size:31 final size:31
Alignment explanation
Indices: 83476750--83476812 Score: 126
Period size: 31 Copynumber: 2.0 Consensus size: 31
83476740 GGTTTATAGT
83476750 TCTAAAATTTTTGGTAGTGAACATCTGTCAG
1 TCTAAAATTTTTGGTAGTGAACATCTGTCAG
83476781 TCTAAAATTTTTGGTAGTGAACATCTGTCAG
1 TCTAAAATTTTTGGTAGTGAACATCTGTCAG
83476812 T
1 T
83476813 TTGTTGATTG
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.29, C:0.13, G:0.19, T:0.40
Consensus pattern (31 bp):
TCTAAAATTTTTGGTAGTGAACATCTGTCAG
Found at i:83480196 original size:40 final size:40
Alignment explanation
Indices: 83480074--83480283 Score: 164
Period size: 40 Copynumber: 5.4 Consensus size: 40
83480064 ACGATTGGCT
* * * * * *
83480074 GATTTAATATTGCGACCTTCGATTTTTTAACAATTTGTTT
1 GATTTAATATCGCGACCTTCGATATTCTAACAGTTTGCTC
* * * * * **
83480114 GATTTAATATCAC-AGC-T-GTTATTTTTATGGTTTGCTC
1 GATTTAATATCGCGACCTTCGATATTCTAACAGTTTGCTC
* * *
83480151 AATTTAATATCGCGACCTTCGATATTCTAACAATTTGCTT
1 GATTTAATATCGCGACCTTCGATATTCTAACAGTTTGCTC
* * *
83480191 GATTTAATATCGCG-GCTGTC-AT-TT-TTACAGTTCGCTC
1 GATTTAATATCGCGACCT-TCGATATTCTAACAGTTTGCTC
* * *
83480228 GATTTAAGATCGTGACCTTCGATATTCTAACAGTTCGCTC
1 GATTTAATATCGCGACCTTCGATATTCTAACAGTTTGCTC
83480268 GATTTAATATCGCGAC
1 GATTTAATATCGCGAC
83480284 TATCATTTTT
Statistics
Matches: 129, Mismatches: 33, Indels: 16
0.72 0.19 0.09
Matches are distributed among these distances:
37 46 0.36
38 9 0.07
39 9 0.07
40 65 0.50
ACGTcount: A:0.25, C:0.18, G:0.15, T:0.42
Consensus pattern (40 bp):
GATTTAATATCGCGACCTTCGATATTCTAACAGTTTGCTC
Found at i:83480209 original size:77 final size:77
Alignment explanation
Indices: 83480075--83480392 Score: 316
Period size: 77 Copynumber: 4.1 Consensus size: 77
83480065 CGATTGGCTG
* * * * * * * * * * *
83480075 ATTTAATATTGCGACCTTCGATTTTTTAACAATTTGTTTGATTTAATATCACAGCTGTTATTTTT
1 ATTTAAGATCGCGACCTTCGATATTCTAACAATTCGCTCGATTTAATATCGCGGCTATCATTTTT
* *
83480140 ATGGTTTGCTCA
66 ATAGTTCGCTCA
* * * *
83480152 ATTTAATATCGCGACCTTCGATATTCTAACAATTTGCTTGATTTAATATCGCGGCTGTCATTTTT
1 ATTTAAGATCGCGACCTTCGATATTCTAACAATTCGCTCGATTTAATATCGCGGCTATCATTTTT
* *
83480217 ACAGTTCGCTCG
66 ATAGTTCGCTCA
* * *
83480229 ATTTAAGATCGTGACCTTCGATATTCTAACAGTTCGCTCGATTTAATATCGCGACTATCATTTTT
1 ATTTAAGATCGCGACCTTCGATATTCTAACAATTCGCTCGATTTAATATCGCGGCTATCATTTTT
83480294 ATAGTTCGCTCA
66 ATAGTTCGCTCA
* * * * * * *
83480306 ATATAAGATCACGACATCCAATATTCTAACAATTCGCTCAATTTAATAAT-GTGAG-TATCATTT
1 ATTTAAGATCGCGACCTTCGATATTCTAACAATTCGCTCGATTTAAT-ATCGCG-GCTATCATTT
* * *
83480369 TTATGGTTTGCTCG
64 TTATAGTTCGCTCA
83480383 ATTTAAGATC
1 ATTTAAGATC
83480393 ATGACTTTCG
Statistics
Matches: 205, Mismatches: 34, Indels: 4
0.84 0.14 0.02
Matches are distributed among these distances:
77 203 0.99
78 2 0.01
ACGTcount: A:0.27, C:0.18, G:0.14, T:0.42
Consensus pattern (77 bp):
ATTTAAGATCGCGACCTTCGATATTCTAACAATTCGCTCGATTTAATATCGCGGCTATCATTTTT
ATAGTTCGCTCA
Found at i:83480464 original size:185 final size:185
Alignment explanation
Indices: 83480228--83480577 Score: 459
Period size: 185 Copynumber: 1.9 Consensus size: 185
83480218 CAGTTCGCTC
* * * * *
83480228 GATTTAAGATCGTGACCTTCGATATTCTAACAGTTCGCTCGATTTAATATCGCGACTATCATTTT
1 GATTTAAGATCGCGACCTTCAATATTCTAACAATTCACTCGATTAAATATCGCGACTATCATTTT
* *
83480293 TATAGTTCGCTCAATATAAGATCACGACATCCAATATTCTAACAATTCGCTCAATTTAATAATGT
66 TACAGTTCGCTCAATATAAGATCACGACATCCAATATTCTAACAATTCACTCAATTTAATAATGT
* *
83480358 GAG-TATCATTTTTATGGTTTGCTCGATTTAAGATCATGACTTTCGTAGTTTGTTT
131 -AGTTATCATTTTTACGGTTCGCTCGATTTAAGATCATGACTTTCGTAGTTTGTTT
* *
83480413 GATTTGAGATCGCGACCTTCAATATTCTAACAATTCACTTGATTAAATATCGCGACTATCATTTT
1 GATTTAAGATCGCGACCTTCAATATTCTAACAATTCACTCGATTAAATATCGCGACTATCATTTT
* * ** * ** * *** * * *
83480478 TCCAGTTTGCTTGATTTAAGATGGCGACCTTTGATATTCTAACAGTTCACTTAATTTAATATTGT
66 TACAGTTCGCTCAATATAAGATCACGACATCCAATATTCTAACAATTCACTCAATTTAATAATGT
83480543 AGTTATCATTTTTACGGTTCGCTCGATTTAAGATC
131 AGTTATCATTTTTACGGTTCGCTCGATTTAAGATC
83480578 GCAACCTTCG
Statistics
Matches: 139, Mismatches: 25, Indels: 2
0.84 0.15 0.01
Matches are distributed among these distances:
184 2 0.01
185 137 0.99
ACGTcount: A:0.28, C:0.17, G:0.15, T:0.40
Consensus pattern (185 bp):
GATTTAAGATCGCGACCTTCAATATTCTAACAATTCACTCGATTAAATATCGCGACTATCATTTT
TACAGTTCGCTCAATATAAGATCACGACATCCAATATTCTAACAATTCACTCAATTTAATAATGT
AGTTATCATTTTTACGGTTCGCTCGATTTAAGATCATGACTTTCGTAGTTTGTTT
Found at i:83480539 original size:77 final size:77
Alignment explanation
Indices: 83480413--83480838 Score: 407
Period size: 77 Copynumber: 5.6 Consensus size: 77
83480403 TAGTTTGTTT
* * * *
83480413 GATTTGAGATCGCGACCTTCAATATTCTAACAATTCACTTGATTAAATATCGCGACTATCATTTT
1 GATTTAAGATCGCGACCTTCAATATTCTAACAGTTCACTTGATTTAATATCGCGATTATCATTTT
* * *
83480478 TCCAGTTTGCTT
66 TACAGTTCGCTC
* ** * * *
83480490 GATTTAAGATGGCGACCTTTGATATTCTAACAGTTCACTTAATTTAATATTG-TAGTTATCATTT
1 GATTTAAGATCGCGACCTTCAATATTCTAACAGTTCACTTGATTTAATATCGCGA-TTATCATTT
*
83480554 TTACGGTTCGCTC
65 TTACAGTTCGCTC
* * * * * *
83480567 GATTTAAGATCGCAACCTTCGATATTCTAACAGTTCACTTGACTTAATATTGTGATTGTCATTTT
1 GATTTAAGATCGCGACCTTCAATATTCTAACAGTTCACTTGATTTAATATCGCGATTATCATTTT
* *
83480632 TACGGTTCACTC
66 TACAGTTCGCTC
* * ** * * *
83480644 GATTTGAGATAC-CAACCTTTGATATTCTAATAGTTCACTTGATTTAATATCGCTATTGTCATTT
1 GATTTAAGAT-CGCGACCTTCAATATTCTAACAGTTCACTTGATTTAATATCGCGATTATCATTT
*
83480708 TTAC-GCTTCACTC
65 TTACAG-TTCGCTC
* * * * * *
83480721 GATTTAAGATCGCGACCATCAATTTTCTAACGGTTCGCTTGATTTAATATCGTGA-CAGTCATTT
1 GATTTAAGATCGCGACCTTCAATATTCTAACAGTTCACTTGATTTAATATCGCGATTA-TCATTT
83480785 TTACAG-TCGCT-
65 TTACAGTTCGCTC
* * * *
83480796 GATTTAATATCACGACTTTCAATTTTCTAACAGTTCAC-TGATT
1 GATTTAAGATCGCGACCTTCAATATTCTAACAGTTCACTTGATT
83480839 CACGATCATG
Statistics
Matches: 293, Mismatches: 49, Indels: 17
0.82 0.14 0.05
Matches are distributed among these distances:
74 5 0.02
75 32 0.11
76 7 0.02
77 246 0.84
78 3 0.01
ACGTcount: A:0.27, C:0.19, G:0.14, T:0.41
Consensus pattern (77 bp):
GATTTAAGATCGCGACCTTCAATATTCTAACAGTTCACTTGATTTAATATCGCGATTATCATTTT
TACAGTTCGCTC
Found at i:83480631 original size:262 final size:262
Alignment explanation
Indices: 83480159--83480653 Score: 623
Period size: 262 Copynumber: 1.9 Consensus size: 262
83480149 TCAATTTAAT
* ** * * *
83480159 ATCGCGACCTTCGATATTCTAACAATTTGCTTGATTTAATATCGCGGCTGTCATTTTTACAGTTC
1 ATCGCGACCTTCAATATTCTAACAATTCACTTGATTAAATATCGCGACTATCATTTTTACAGTTC
* * * *
83480224 GCTCGATTTAAGATCGTGACCTTCGATATTCTAACAGTTCGCTCGATTTAATATCGCGACTATCA
66 GCTCGATTTAAGATCGCGACCTTCGATATTCTAACAGTTCACTCAATTTAATATCGAGACTATCA
* * * *
83480289 TTTTTATAGTTCGCTCAATATAAGATCACGACATCCAATATTCTAACAATTCGCTCAATTTAATA
131 TTTTTACAGTTCGCTCAATATAAGATCACAACATCCAATATTCTAACAATTCACTCAACTTAATA
* **
83480354 ATGTGAGTATCATTTTTATGGTTTGCTCGATTTAAGATCATGACTTTCGTAGTTTGTTTGATTTG
196 ATGTGAGTATCATTTTTACGGTTCACTCGATTTAAGATCATGACTTTCGTAGTTTGTTTGATTTG
83480419 AG
261 AG
* *
83480421 ATCGCGACCTTCAATATTCTAACAATTCACTTGATTAAATATCGCGACTATCATTTTTCCAGTTT
1 ATCGCGACCTTCAATATTCTAACAATTCACTTGATTAAATATCGCGACTATCATTTTTACAGTTC
* * * * * *
83480486 GCTTGATTTAAGATGGCGACCTTTGATATTCTAACAGTTCACTTAATTTAATATTGTAG-TTATC
66 GCTCGATTTAAGATCGCGACCTTCGATATTCTAACAGTTCACTCAATTTAATATCG-AGACTATC
* * * * * * * * **
83480550 ATTTTTACGGTTCGCTCGATTTAAGATCGCAACCTTCGATATTCTAACAGTTCACTTGACTTAAT
130 ATTTTTACAGTTCGCTCAATATAAGATCACAACATCCAATATTCTAACAATTCACTCAACTTAAT
* * * *
83480615 ATTGTGATTGTCATTTTTACGGTTCACTCGATTTGAGAT
195 AATGTGAGTATCATTTTTACGGTTCACTCGATTTAAGAT
83480654 ACCAACCTTT
Statistics
Matches: 193, Mismatches: 39, Indels: 2
0.82 0.17 0.01
Matches are distributed among these distances:
262 192 0.99
263 1 0.01
ACGTcount: A:0.26, C:0.18, G:0.15, T:0.40
Consensus pattern (262 bp):
ATCGCGACCTTCAATATTCTAACAATTCACTTGATTAAATATCGCGACTATCATTTTTACAGTTC
GCTCGATTTAAGATCGCGACCTTCGATATTCTAACAGTTCACTCAATTTAATATCGAGACTATCA
TTTTTACAGTTCGCTCAATATAAGATCACAACATCCAATATTCTAACAATTCACTCAACTTAATA
ATGTGAGTATCATTTTTACGGTTCACTCGATTTAAGATCATGACTTTCGTAGTTTGTTTGATTTG
AG
Found at i:83480693 original size:154 final size:153
Alignment explanation
Indices: 83480413--83480791 Score: 463
Period size: 154 Copynumber: 2.5 Consensus size: 153
83480403 TAGTTTGTTT
* * * *
83480413 GATTTGAGATCGCGACCTTCAATATTCTAACAATTCACTTGATTAAATATCGCGACTATCATTTT
1 GATTTAAGATCGCGACCTTCAATATTCTAACAGTTCACTTGATT-AATATCGTGACTGTCATTTT
* ** * ** * *
83480478 TCCAGTTTGCTTGATTTAAGATGGCGACCTTTGATATTCTAACAGTTCACTTAATTTAATATTG-
65 TACAGTTCACTCGATTTAAGATACCAACCTTTGATATTCTAACAGTTCACTTAATTTAATATCGC
* *
83480542 TAGTTATCATTTTTACGGTTCGCTC
130 TA-TTATCATTTTTACGCTTCACTC
* * * *
83480567 GATTTAAGATCGCAACCTTCGATATTCTAACAGTTCACTTGACTTAATATTGTGATTGTCATTTT
1 GATTTAAGATCGCGACCTTCAATATTCTAACAGTTCACTTGA-TTAATATCGTGACTGTCATTTT
* * * *
83480632 TACGGTTCACTCGATTTGAGATACCAACCTTTGATATTCTAATAGTTCACTTGATTTAATATCGC
65 TACAGTTCACTCGATTTAAGATACCAACCTTTGATATTCTAACAGTTCACTTAATTTAATATCGC
*
83480697 TATTGTCATTTTTACGCTTCACTC
130 TATTATCATTTTTACGCTTCACTC
* * * * *
83480721 GATTTAAGATCGCGACCATCAATTTTCTAACGGTTCGCTTGATTTAATATCGTGACAGTCATTTT
1 GATTTAAGATCGCGACCTTCAATATTCTAACAGTTCACTTGA-TTAATATCGTGACTGTCATTTT
83480786 TACAGT
65 TACAGT
83480792 CGCTGATTTA
Statistics
Matches: 189, Mismatches: 34, Indels: 4
0.83 0.15 0.02
Matches are distributed among these distances:
154 185 0.98
155 4 0.02
ACGTcount: A:0.26, C:0.19, G:0.14, T:0.41
Consensus pattern (153 bp):
GATTTAAGATCGCGACCTTCAATATTCTAACAGTTCACTTGATTAATATCGTGACTGTCATTTTT
ACAGTTCACTCGATTTAAGATACCAACCTTTGATATTCTAACAGTTCACTTAATTTAATATCGCT
ATTATCATTTTTACGCTTCACTC
Found at i:83480765 original size:40 final size:39
Alignment explanation
Indices: 83480721--83480838 Score: 120
Period size: 35 Copynumber: 3.1 Consensus size: 39
83480711 CGCTTCACTC
* *
83480721 GATTTAAGATCGCGACCATCAATTTTCTAACGGTTCGCTT
1 GATTTAATATCGCGACCATCAATTTTCTAACAGTTCGC-T
*
83480761 GATTTAATATCGTGA-CAGTC-ATTTT-T-ACAG-TCGCT
1 GATTTAATATCGCGACCA-TCAATTTTCTAACAGTTCGCT
* ** *
83480796 GATTTAATATCACGACTTTCAATTTTCTAACAGTTCACT
1 GATTTAATATCGCGACCATCAATTTTCTAACAGTTCGCT
83480835 GATT
1 GATT
83480839 CACGATCATG
Statistics
Matches: 64, Mismatches: 8, Indels: 13
0.75 0.09 0.15
Matches are distributed among these distances:
35 16 0.25
36 9 0.14
37 4 0.06
38 5 0.08
39 15 0.23
40 15 0.23
ACGTcount: A:0.27, C:0.19, G:0.14, T:0.39
Consensus pattern (39 bp):
GATTTAATATCGCGACCATCAATTTTCTAACAGTTCGCT
Found at i:83481408 original size:17 final size:18
Alignment explanation
Indices: 83481386--83481419 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
83481376 AGTTGAATTG
83481386 AAATTGC-AAAATTAAAT
1 AAATTGCAAAAATTAAAT
83481403 AAATTGCAAAAATTAAA
1 AAATTGCAAAAATTAAA
83481420 ATAGAGAATA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 7 0.44
18 9 0.56
ACGTcount: A:0.62, C:0.06, G:0.06, T:0.26
Consensus pattern (18 bp):
AAATTGCAAAAATTAAAT
Found at i:83482184 original size:10 final size:10
Alignment explanation
Indices: 83482135--83482177 Score: 61
Period size: 10 Copynumber: 4.3 Consensus size: 10
83482125 TTAAATTCTA
83482135 AAAGATAAAT
1 AAAGATAAAT
83482145 ATAA-ATAAAT
1 A-AAGATAAAT
*
83482155 AAAGATAATT
1 AAAGATAAAT
83482165 AAAGATAAAT
1 AAAGATAAAT
83482175 AAA
1 AAA
83482178 ATTAAATCCT
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
9 2 0.07
10 25 0.86
11 2 0.07
ACGTcount: A:0.70, C:0.00, G:0.07, T:0.23
Consensus pattern (10 bp):
AAAGATAAAT
Found at i:83482234 original size:14 final size:13
Alignment explanation
Indices: 83482198--83482235 Score: 58
Period size: 13 Copynumber: 2.8 Consensus size: 13
83482188 AAAATTAAAT
83482198 CTAAATAATTATC
1 CTAAATAATTATC
*
83482211 CTTAATAATTATC
1 CTAAATAATTATC
83482224 CTAATATAATTA
1 CTAA-ATAATTA
83482236 AATATTAAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
13 15 0.68
14 7 0.32
ACGTcount: A:0.45, C:0.13, G:0.00, T:0.42
Consensus pattern (13 bp):
CTAAATAATTATC
Found at i:83482956 original size:96 final size:97
Alignment explanation
Indices: 83482830--83483013 Score: 255
Period size: 96 Copynumber: 1.9 Consensus size: 97
83482820 ATTTAATTTA
* ** * * *
83482830 TTTATTTTTTCTTAGGAGTATATTGAACCTTTTGACACAAAGAGATATGACAGCTAAGCA-CTTC
1 TTTATTTTTTCTTAAGAACATATCGAACCTTTTGACACAAAGAGAGATGACAGCCAAGCATC-TC
83482894 ACCCCGGTTACTCAGCCCAACACACTCCTAATT
65 ACCCCGGTTACTCAGCCCAACACACTCCTAATT
** * *
83482927 TTTA-TTTTTCTTAAGAACATATCGAACCTTTTGATGCGAAGAGAGATGATAGCCAAGCATCTCA
1 TTTATTTTTTCTTAAGAACATATCGAACCTTTTGACACAAAGAGAGATGACAGCCAAGCATCTCA
83482991 CCCCGGTTACTCAGCCCAACACA
66 CCCCGGTTACTCAGCCCAACACA
83483014 TTCTTAAAAA
Statistics
Matches: 76, Mismatches: 10, Indels: 3
0.85 0.11 0.03
Matches are distributed among these distances:
96 71 0.93
97 5 0.07
ACGTcount: A:0.30, C:0.25, G:0.15, T:0.30
Consensus pattern (97 bp):
TTTATTTTTTCTTAAGAACATATCGAACCTTTTGACACAAAGAGAGATGACAGCCAAGCATCTCA
CCCCGGTTACTCAGCCCAACACACTCCTAATT
Found at i:83485563 original size:4 final size:4
Alignment explanation
Indices: 83485549--83485638 Score: 51
Period size: 4 Copynumber: 21.8 Consensus size: 4
83485539 TTAATATCCA
* * *
83485549 AAAT AAAAT AAAT AATT AAGT -AAT AAAT AATT AAAAT AAA- ATAAT AAAT
1 AAAT -AAAT AAAT AAAT AAAT AAAT AAAT AAAT -AAAT AAAT A-AAT AAAT
* * *
83485598 AATT AAATT AAA- ATAAT AAAT AATT AAAAT AAAA AAAT AAA
1 AAAT AAA-T AAAT A-AAT AAAT AAAT -AAAT AAAT AAAT AAA
83485639 AATAAAAATA
Statistics
Matches: 66, Mismatches: 11, Indels: 17
0.70 0.12 0.18
Matches are distributed among these distances:
3 4 0.06
4 46 0.70
5 16 0.24
ACGTcount: A:0.71, C:0.00, G:0.01, T:0.28
Consensus pattern (4 bp):
AAAT
Found at i:83485584 original size:28 final size:29
Alignment explanation
Indices: 83485550--83485625 Score: 88
Period size: 28 Copynumber: 2.7 Consensus size: 29
83485540 TAATATCCAA
*
83485550 AATAAAATAAATAATTAAGTAA-TAAA-T
1 AATAAAATAAATAATTAAATAATTAAATT
83485577 AATTAAAATAAAATAA-TAAATAATTAAATT
1 AA-TAAAAT-AAATAATTAAATAATTAAATT
83485607 AA-AATAATAAATAATTAAA
1 AATAA-AATAAATAATTAAA
83485626 ATAAAAAAAT
Statistics
Matches: 42, Mismatches: 1, Indels: 10
0.79 0.02 0.19
Matches are distributed among these distances:
27 2 0.05
28 20 0.48
29 17 0.40
30 3 0.07
ACGTcount: A:0.68, C:0.00, G:0.01, T:0.30
Consensus pattern (29 bp):
AATAAAATAAATAATTAAATAATTAAATT
Found at i:83485595 original size:21 final size:21
Alignment explanation
Indices: 83485569--83485650 Score: 130
Period size: 21 Copynumber: 4.0 Consensus size: 21
83485559 AATAATTAAG
83485569 TAATAAATAATTAAAATAAAA
1 TAATAAATAATTAAAATAAAA
*
83485590 TAATAAATAATTAAATTAAAA
1 TAATAAATAATTAAAATAAAA
83485611 TAATAAATAATTAAAATAAAA
1 TAATAAATAATTAAAATAAAA
* *
83485632 AAATAAA-AATAAAAATAAA
1 TAATAAATAATTAAAATAAA
83485651 GAAAAATAAA
Statistics
Matches: 57, Mismatches: 4, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
20 11 0.19
21 46 0.81
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (21 bp):
TAATAAATAATTAAAATAAAA
Done.