Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr13
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: 91551117
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2824764 characters in sequence are not A, C, G, or T
File 273 of 276
Found at i:90450381 original size:93 final size:92
Alignment explanation
Indices: 90450222--90450408 Score: 331
Period size: 93 Copynumber: 2.0 Consensus size: 92
90450212 AGAATTCTTA
*
90450222 GAATATTTTCCTTATATTATAAAGTACAAGAAAGGTAAGGAAAATATAGTGGCAGATGTGTTGTC
1 GAATATTTTCCTTATATTATAAAGTACAAGAAAGGTAAGAAAAATATAGTGGCAGATGTGTTGTC
90450287 TAGACGATACACTCTTTTATCTTATTTG
66 TAGACGATACACTC-TTTATCTTATTTG
*
90450315 GAATATTTTCCTTATATTATAAAGTACAAGAAAGGTACA-AAAAATATAGTGGCTGATGTGTTGT
1 GAATATTTTCCTTATATTATAAAGTACAAGAAAGGTA-AGAAAAATATAGTGGCAGATGTGTTGT
90450379 CTAGACGATACACTCTTTATCTTATTTG
65 CTAGACGATACACTCTTTATCTTATTTG
90450407 GA
1 GA
90450409 CTCTAAATTG
Statistics
Matches: 91, Mismatches: 2, Indels: 3
0.95 0.02 0.03
Matches are distributed among these distances:
92 15 0.16
93 75 0.82
94 1 0.01
ACGTcount: A:0.35, C:0.11, G:0.18, T:0.36
Consensus pattern (92 bp):
GAATATTTTCCTTATATTATAAAGTACAAGAAAGGTAAGAAAAATATAGTGGCAGATGTGTTGTC
TAGACGATACACTCTTTATCTTATTTG
Found at i:90456519 original size:19 final size:19
Alignment explanation
Indices: 90456497--90456539 Score: 59
Period size: 19 Copynumber: 2.3 Consensus size: 19
90456487 GTCAATTCAA
*
90456497 TTTAACATGAAGAATTTTT
1 TTTAACATGAAGAATATTT
* *
90456516 TTTAATATTAAGAATATTT
1 TTTAACATGAAGAATATTT
90456535 TTTAA
1 TTTAA
90456540 ATTTTATTAA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.40, C:0.02, G:0.07, T:0.51
Consensus pattern (19 bp):
TTTAACATGAAGAATATTT
Found at i:90458087 original size:11 final size:11
Alignment explanation
Indices: 90458071--90458121 Score: 50
Period size: 11 Copynumber: 4.5 Consensus size: 11
90458061 TTTTAAACCA
90458071 ATATATTTTAT
1 ATATATTTTAT
*
90458082 ATATATAATTAT
1 ATATAT-TTTAT
90458094 -TATTATTTTAT
1 ATA-TATTTTAT
* *
90458105 AAATATTTTTT
1 ATATATTTTAT
90458116 ATATAT
1 ATATAT
90458122 ATTGTATATT
Statistics
Matches: 32, Mismatches: 5, Indels: 6
0.74 0.12 0.14
Matches are distributed among these distances:
11 24 0.75
12 8 0.25
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (11 bp):
ATATATTTTAT
Found at i:90461918 original size:14 final size:16
Alignment explanation
Indices: 90461899--90461935 Score: 53
Period size: 15 Copynumber: 2.5 Consensus size: 16
90461889 CGATATCCTT
90461899 TTTGCAT-TCAT-GCA
1 TTTGCATCTCATAGCA
90461913 TTTGCATCTCATAGCA
1 TTTGCATCTCATAGCA
90461929 TTT-CATC
1 TTTGCATC
90461936 ATATCGTTTG
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
14 7 0.33
15 8 0.38
16 6 0.29
ACGTcount: A:0.22, C:0.24, G:0.11, T:0.43
Consensus pattern (16 bp):
TTTGCATCTCATAGCA
Found at i:90470063 original size:44 final size:44
Alignment explanation
Indices: 90470006--90470090 Score: 134
Period size: 44 Copynumber: 1.9 Consensus size: 44
90469996 TTGAAGAGAG
* *
90470006 CAGATTCGACATCTCTGTATTGTCAGAGAGCAGATCGAAGATAC
1 CAGATTCGACATCTCTGTATTGGCAGAGAACAGATCGAAGATAC
* *
90470050 CAGATTTGGCATCTCTGTATTGGCAGAGAACAGATCGAAGA
1 CAGATTCGACATCTCTGTATTGGCAGAGAACAGATCGAAGA
90470091 CATAGCTGAT
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
44 37 1.00
ACGTcount: A:0.32, C:0.19, G:0.25, T:0.25
Consensus pattern (44 bp):
CAGATTCGACATCTCTGTATTGGCAGAGAACAGATCGAAGATAC
Found at i:90470409 original size:205 final size:205
Alignment explanation
Indices: 90470077--90470587 Score: 808
Period size: 205 Copynumber: 2.5 Consensus size: 205
90470067 TATTGGCAGA
* *
90470077 GAACAGATCGAAGACATAGCTGATTTGGCTGTCACGTGTTTATGATGAAGCAAATCTAAGATGAT
1 GAACAAATCGAAGACATAGCTGATTTGGCTTTCACGTGTTTA-GATGAAGCAAATCTAAGATGAT
* * *
90470142 TTGTCATCTCTGTATTGTTATAGAACAAATCAAAGTCTGGCATCTCCACTTCAATGGAGAGCAGA
65 TTGTCATCTCTGTATTGTCAGAGAACAAATCAAAGTCTGGCATCTCCACTTCAATAGAGAGCAGA
* *
90470207 TACACAGCAAATCTGACCTTCAGACGATTAGACTGAAG-AAGATCCAAGATGATTTGGCATCCTT
130 TACACAGCAAATCTGACCTTCAAACGATTAGACTGAAGCAAGATCCAAGATGATTTGGCATCCAT
90470271 CTGCTTACAAG
195 CTGCTTACAAG
*
90470282 GAACAAATTGAAGACATAGCTGATTTGGCTTTCACGTGTTTACGATGAAGCAAATCTAAGATGAT
1 GAACAAATCGAAGACATAGCTGATTTGGCTTTCACGTGTTTA-GATGAAGCAAATCTAAGATGAT
* * *
90470347 TAGTCATCTCTGTATTGTCAGAGAACAAATCGAAGTCTGGCATCTCTACTTCAATAGAGAGCAGA
65 TTGTCATCTCTGTATTGTCAGAGAACAAATCAAAGTCTGGCATCTCCACTTCAATAGAGAGCAGA
* * *
90470412 TACATAGCAGATCTGACCTTCAAACGATTAGACTGAAGCAAGATCTAAGATGATTTGGCATCCAT
130 TACACAGCAAATCTGACCTTCAAACGATTAGACTGAAGCAAGATCCAAGATGATTTGGCATCCAT
*
90470477 GTGCTTACAAG
195 CTGCTTACAAG
** * *
90470488 GAACAAATCGAAGATGTAGCTGATTTGGCTTTCATGTGTTTATACTGAAGCAAATCTAAGATGAT
1 GAACAAATCGAAGACATAGCTGATTTGGCTTTCACGTGTTTAGA-TGAAGCAAATCTAAGATGAT
*
90470553 TTGTTATCTCTGTATTGTCAGAGAACAAATCAAAG
65 TTGTCATCTCTGTATTGTCAGAGAACAAATCAAAG
90470588 AAGCAGATTT
Statistics
Matches: 280, Mismatches: 24, Indels: 3
0.91 0.08 0.01
Matches are distributed among these distances:
205 156 0.56
206 124 0.44
ACGTcount: A:0.33, C:0.17, G:0.20, T:0.29
Consensus pattern (205 bp):
GAACAAATCGAAGACATAGCTGATTTGGCTTTCACGTGTTTAGATGAAGCAAATCTAAGATGATT
TGTCATCTCTGTATTGTCAGAGAACAAATCAAAGTCTGGCATCTCCACTTCAATAGAGAGCAGAT
ACACAGCAAATCTGACCTTCAAACGATTAGACTGAAGCAAGATCCAAGATGATTTGGCATCCATC
TGCTTACAAG
Found at i:90475933 original size:14 final size:16
Alignment explanation
Indices: 90475914--90475950 Score: 53
Period size: 15 Copynumber: 2.5 Consensus size: 16
90475904 TGATATCTTT
90475914 TTTGCAT-TCAT-GCA
1 TTTGCATCTCATAGCA
90475928 TTTGCATCTCATAGCA
1 TTTGCATCTCATAGCA
90475944 TTT-CATC
1 TTTGCATC
90475951 ATATCGTTTG
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
14 7 0.33
15 8 0.38
16 6 0.29
ACGTcount: A:0.22, C:0.24, G:0.11, T:0.43
Consensus pattern (16 bp):
TTTGCATCTCATAGCA
Found at i:90483974 original size:44 final size:44
Alignment explanation
Indices: 90483926--90484018 Score: 141
Period size: 44 Copynumber: 2.1 Consensus size: 44
90483916 GGAACAAGTT
* * *
90483926 GAAGATAGCAGATTCGGCATCTCTGTGTTGTCAGAGAGCAGATC
1 GAAGATACCAGATTCGGCATCTCTGTATTGGCAGAGAGCAGATC
* *
90483970 GAAGATACCAGATTTGGCATCTCTGTATTGGCAGAGAGTAGATC
1 GAAGATACCAGATTCGGCATCTCTGTATTGGCAGAGAGCAGATC
90484014 GAAGA
1 GAAGA
90484019 CATAGTTGAT
Statistics
Matches: 44, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
44 44 1.00
ACGTcount: A:0.30, C:0.16, G:0.29, T:0.25
Consensus pattern (44 bp):
GAAGATACCAGATTCGGCATCTCTGTATTGGCAGAGAGCAGATC
Found at i:90484338 original size:206 final size:206
Alignment explanation
Indices: 90484011--90484512 Score: 851
Period size: 206 Copynumber: 2.4 Consensus size: 206
90484001 CAGAGAGTAG
*
90484011 ATCGAAGACATAGTTGATTTGGCTTTCACGTGTTTACAATGAAGCAAATCTAAGATGATTTGTCA
1 ATCGAAGACATAGCTGATTTGGCTTTCACGTGTTTACAATGAAGCAAATCTAAGATGATTTGTCA
* *
90484076 TCTCTGTATTGTCATAGAACAAATCGAAGTCTGGCATCTCCACTTAAATGGAGAGCAGATACACA
66 TCTCTGTATTGTCAGAGAACAAATCGAAGTCTGGCATCTCCACTTAAATAGAGAGCAGATACACA
**
90484141 GCAGATCTGACCTTCAGGCGATTAGACTGAAGCAAGATCCAAGATGATTTGGCATCCTTGTGCTT
131 GCAGATCTGACCTTCAAACGATTAGACTGAAGCAAGATCCAAGATGATTTGGCATCCTTGTGCTT
90484206 ACAAGGAACAA
196 ACAAGGAACAA
*
90484217 ATCGAAGACATAGCTGATTTGGCTTTCACGTGTTTACGATGAAGCAAATCTAAGATGATTTGTCA
1 ATCGAAGACATAGCTGATTTGGCTTTCACGTGTTTACAATGAAGCAAATCTAAGATGATTTGTCA
* * * *
90484282 TCTCTGTATTGTTAGAGAACAAATCGAAGTCTGGCATCTCTACTTTAATAGAGAGCAGATACATA
66 TCTCTGTATTGTCAGAGAACAAATCGAAGTCTGGCATCTCCACTTAAATAGAGAGCAGATACACA
*
90484347 GCAGATCTGACCTTCAAACGATTAGACTGAAGCAAGATCCAAGATGATTTGGCATCTTTGTGCTT
131 GCAGATCTGACCTTCAAACGATTAGACTGAAGCAAGATCCAAGATGATTTGGCATCCTTGTGCTT
90484412 ACAAGGAACAA
196 ACAAGGAACAA
** * * * *
90484423 ATCGAAGATGTAGCTGATTTGGCTTTCACGTGTTTATACTAAAGCAAATCTAAGATGATTTGTTA
1 ATCGAAGACATAGCTGATTTGGCTTTCACGTGTTTACAATGAAGCAAATCTAAGATGATTTGTCA
90484488 TCTCTGTATTGTCAGAGAACAAATC
66 TCTCTGTATTGTCAGAGAACAAATC
90484513 AAAGAAGCAA
Statistics
Matches: 277, Mismatches: 19, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
206 277 1.00
ACGTcount: A:0.32, C:0.18, G:0.20, T:0.30
Consensus pattern (206 bp):
ATCGAAGACATAGCTGATTTGGCTTTCACGTGTTTACAATGAAGCAAATCTAAGATGATTTGTCA
TCTCTGTATTGTCAGAGAACAAATCGAAGTCTGGCATCTCCACTTAAATAGAGAGCAGATACACA
GCAGATCTGACCTTCAAACGATTAGACTGAAGCAAGATCCAAGATGATTTGGCATCCTTGTGCTT
ACAAGGAACAA
Found at i:90486358 original size:11 final size:11
Alignment explanation
Indices: 90486342--90486392 Score: 50
Period size: 11 Copynumber: 4.5 Consensus size: 11
90486332 TTTTAAACCA
90486342 ATATATTTTAT
1 ATATATTTTAT
*
90486353 ATATATAATTAT
1 ATATAT-TTTAT
90486365 -TATTATTTTAT
1 ATA-TATTTTAT
* *
90486376 AAATATTTTTT
1 ATATATTTTAT
90486387 ATATAT
1 ATATAT
90486393 ATTGTATATT
Statistics
Matches: 32, Mismatches: 5, Indels: 6
0.74 0.12 0.14
Matches are distributed among these distances:
11 24 0.75
12 8 0.25
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (11 bp):
ATATATTTTAT
Found at i:90487551 original size:13 final size:13
Alignment explanation
Indices: 90487533--90487559 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
90487523 AATTTGGCTT
90487533 ATATTTTAAATGG
1 ATATTTTAAATGG
90487546 ATATTTTAAATGG
1 ATATTTTAAATGG
90487559 A
1 A
90487560 CTTCCTTGCA
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:0.41, C:0.00, G:0.15, T:0.44
Consensus pattern (13 bp):
ATATTTTAAATGG
Found at i:90491674 original size:107 final size:107
Alignment explanation
Indices: 90491555--90491783 Score: 440
Period size: 107 Copynumber: 2.1 Consensus size: 107
90491545 ACTATTTCAA
90491555 AAAAAATTATTTTTTTAATCAAATAAAAGGGTTGCCGGTTATTAGTGTACAGCACCCCCAAAATT
1 AAAAAATTATTTTTTTAATCAAATAAAAGGGTTGCCGGTTATTAGTGTACAGCACCCCCAAAATT
90491620 TAAAAAAAATACATGGTGCCGACCATCTAATGTCTAAAATCC
66 TAAAAAAAATACATGGTGCCGACCATCTAATGTCTAAAATCC
*
90491662 AAAAAATTATTTTTTTAATCAAATAAAAGGGTTGCCTGTTATTAGTGTACAGCACCCCCAAAATT
1 AAAAAATTATTTTTTTAATCAAATAAAAGGGTTGCCGGTTATTAGTGTACAGCACCCCCAAAATT
*
90491727 TAAAAAGAATACATGGTGCCGACCATCTAATGTCTAAAATCC
66 TAAAAAAAATACATGGTGCCGACCATCTAATGTCTAAAATCC
90491769 AAAAAATTATTTTTT
1 AAAAAATTATTTTTT
90491784 AATAGAAAAA
Statistics
Matches: 120, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
107 120 1.00
ACGTcount: A:0.40, C:0.17, G:0.12, T:0.31
Consensus pattern (107 bp):
AAAAAATTATTTTTTTAATCAAATAAAAGGGTTGCCGGTTATTAGTGTACAGCACCCCCAAAATT
TAAAAAAAATACATGGTGCCGACCATCTAATGTCTAAAATCC
Found at i:90493025 original size:11 final size:11
Alignment explanation
Indices: 90493011--90493040 Score: 53
Period size: 10 Copynumber: 2.8 Consensus size: 11
90493001 ATAAAAAGTT
90493011 TTTAAAAAAAA
1 TTTAAAAAAAA
90493022 TTT-AAAAAAA
1 TTTAAAAAAAA
90493032 TTTAAAAAA
1 TTTAAAAAA
90493041 GTTAAAAATT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
10 10 0.56
11 8 0.44
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (11 bp):
TTTAAAAAAAA
Found at i:90493490 original size:16 final size:16
Alignment explanation
Indices: 90493469--90493502 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
90493459 TAAATCGTAT
90493469 AATACTAGAATATAAA
1 AATACTAGAATATAAA
* *
90493485 AATACTAGTATTTAAA
1 AATACTAGAATATAAA
90493501 AA
1 AA
90493503 AATTGGGTAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.59, C:0.06, G:0.06, T:0.29
Consensus pattern (16 bp):
AATACTAGAATATAAA
Found at i:90494045 original size:29 final size:27
Alignment explanation
Indices: 90493990--90494051 Score: 70
Period size: 29 Copynumber: 2.2 Consensus size: 27
90493980 TTATATTTGA
90493990 ATTTCAAATTTAATTTACATTTCAATTC
1 ATTT-AAATTTAATTTACATTTCAATTC
* * *
90494018 ATTTAAATTTATATTTTCCATTTTAATTT
1 ATTTAAATTTA-A-TTTACATTTCAATTC
90494047 ATTTA
1 ATTTA
90494052 TTTATCATTT
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
27 7 0.24
28 5 0.17
29 17 0.59
ACGTcount: A:0.34, C:0.10, G:0.00, T:0.56
Consensus pattern (27 bp):
ATTTAAATTTAATTTACATTTCAATTC
Found at i:90494062 original size:27 final size:27
Alignment explanation
Indices: 90494024--90494105 Score: 80
Period size: 27 Copynumber: 3.0 Consensus size: 27
90494014 ATTCATTTAA
*
90494024 ATTTAT-ATTTTCCATTTTAATTTATTT
1 ATTTATCA-TTTCAATTTTAATTTATTT
*
90494051 ATTTATCATTTCAATTTTTTATTTCATTT
1 ATTTATCATTTCAA-TTTTAATTT-ATTT
*
90494080 -TTT-TCATTTAAATTTATAATTTATTT
1 ATTTATCATTTCAATTT-TAATTTATTT
90494106 TCATTTAAAC
Statistics
Matches: 47, Mismatches: 4, Indels: 9
0.78 0.07 0.15
Matches are distributed among these distances:
26 7 0.15
27 24 0.51
28 12 0.26
29 4 0.09
ACGTcount: A:0.27, C:0.07, G:0.00, T:0.66
Consensus pattern (27 bp):
ATTTATCATTTCAATTTTAATTTATTT
Found at i:90494073 original size:20 final size:21
Alignment explanation
Indices: 90494016--90494074 Score: 63
Period size: 21 Copynumber: 3.0 Consensus size: 21
90494006 ACATTTCAAT
*
90494016 TCATTTAAATTTA--TATTT-
1 TCATTTCAATTTATTTATTTA
*
90494034 TCCATTTTAATTTATTTATTTA
1 T-CATTTCAATTTATTTATTTA
90494056 TCATTTCAATTT-TTTATTT
1 TCATTTCAATTTATTTATTT
90494075 CATTTTTTTC
Statistics
Matches: 35, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
18 1 0.03
19 11 0.31
20 7 0.20
21 15 0.43
22 1 0.03
ACGTcount: A:0.27, C:0.08, G:0.00, T:0.64
Consensus pattern (21 bp):
TCATTTCAATTTATTTATTTA
Found at i:90494127 original size:27 final size:26
Alignment explanation
Indices: 90494047--90494128 Score: 75
Period size: 23 Copynumber: 3.2 Consensus size: 26
90494037 ATTTTAATTT
*
90494047 ATTTATTTATCATTTCAATTTTTTATTTC-
1 ATTTATTT-TCATTT-AA-ATTTTA-TTCA
90494076 ATTT-TTTTCATTTAAA-TTTA-T-A
1 ATTTATTTTCATTTAAATTTTATTCA
90494098 ATTTATTTTCATTTAAACTTTTATTCA
1 ATTTATTTTCATTTAAA-TTTTATTCA
90494125 ATTT
1 ATTT
90494129 CATAATCACC
Statistics
Matches: 46, Mismatches: 1, Indels: 14
0.75 0.02 0.23
Matches are distributed among these distances:
22 5 0.11
23 12 0.26
24 4 0.09
25 4 0.09
26 3 0.07
27 11 0.24
28 3 0.07
29 4 0.09
ACGTcount: A:0.28, C:0.09, G:0.00, T:0.63
Consensus pattern (26 bp):
ATTTATTTTCATTTAAATTTTATTCA
Found at i:90494203 original size:5 final size:5
Alignment explanation
Indices: 90494138--90494194 Score: 51
Period size: 5 Copynumber: 10.6 Consensus size: 5
90494128 TCATAATCAC
* * *
90494138 CATTT CATTT CATTT CGTTT CATATT CATTAT AAATTA CATTT CATTT
1 CATTT CATTT CATTT CATTT CAT-TT CATT-T -CATTT CATTT CATTT
90494186 CATATT CAT
1 CAT-TT CAT
90494195 ATTTCATTTA
Statistics
Matches: 42, Mismatches: 6, Indels: 7
0.76 0.11 0.13
Matches are distributed among these distances:
5 28 0.67
6 11 0.26
7 3 0.07
ACGTcount: A:0.28, C:0.18, G:0.02, T:0.53
Consensus pattern (5 bp):
CATTT
Found at i:90494361 original size:10 final size:10
Alignment explanation
Indices: 90494343--90494376 Score: 50
Period size: 10 Copynumber: 3.3 Consensus size: 10
90494333 ATCAGGGTTA
90494343 TTTAAATTTT
1 TTTAAATTTT
*
90494353 TTTATATTTT
1 TTTAAATTTT
90494363 ATTTAAATTTT
1 -TTTAAATTTT
90494374 TTT
1 TTT
90494377 GTCAATTTAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
10 12 0.57
11 9 0.43
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (10 bp):
TTTAAATTTT
Found at i:90494372 original size:11 final size:11
Alignment explanation
Indices: 90494340--90494373 Score: 52
Period size: 11 Copynumber: 3.2 Consensus size: 11
90494330 TTAATCAGGG
90494340 TTATTTAAATT
1 TTATTTAAATT
*
90494351 TT-TTTATATT
1 TTATTTAAATT
90494361 TTATTTAAATT
1 TTATTTAAATT
90494372 TT
1 TT
90494374 TTTGTCAATT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
10 9 0.45
11 11 0.55
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (11 bp):
TTATTTAAATT
Found at i:90494612 original size:6 final size:5
Alignment explanation
Indices: 90494599--90494667 Score: 75
Period size: 5 Copynumber: 12.6 Consensus size: 5
90494589 TTTTTTTTTT
*
90494599 TTTCA TTTCAA TTTCA ATTCTA TTTCA TTTCA TTTCAA TTTTCA TTTCA
1 TTTCA TTTC-A TTTCA TTTC-A TTTCA TTTCA TTTC-A -TTTCA TTTCA
90494648 TTTTCA TTTCTA TTTCA TTT
1 -TTTCA TTTC-A TTTCA TTT
90494668 AAATTATATT
Statistics
Matches: 56, Mismatches: 2, Indels: 12
0.80 0.03 0.17
Matches are distributed among these distances:
5 31 0.55
6 21 0.38
7 4 0.07
ACGTcount: A:0.22, C:0.17, G:0.00, T:0.61
Consensus pattern (5 bp):
TTTCA
Found at i:90494625 original size:17 final size:17
Alignment explanation
Indices: 90494603--90494678 Score: 55
Period size: 16 Copynumber: 4.2 Consensus size: 17
90494593 TTTTTTTTTC
90494603 ATTTCAATTTCAATTCT
1 ATTTCAATTTCAATTCT
*
90494620 ATTTCATTTCATTTCAATTTT
1 ATTTCA----ATTTCAATTCT
* *
90494641 CATTTCATTTTCATTTCT
1 -ATTTCAATTTCAATTCT
* *
90494659 ATTTC-ATTTAAATTAT
1 ATTTCAATTTCAATTCT
90494675 ATTT
1 ATTT
90494679 TTTCCATTTA
Statistics
Matches: 46, Mismatches: 8, Indels: 11
0.71 0.12 0.17
Matches are distributed among these distances:
16 11 0.24
17 11 0.24
18 8 0.17
21 10 0.22
22 6 0.13
ACGTcount: A:0.26, C:0.14, G:0.00, T:0.59
Consensus pattern (17 bp):
ATTTCAATTTCAATTCT
Found at i:90494679 original size:39 final size:39
Alignment explanation
Indices: 90494598--90494672 Score: 114
Period size: 39 Copynumber: 1.9 Consensus size: 39
90494588 TTTTTTTTTT
* *
90494598 TTTTCATTTCAATTTCAATTCTATTTCATTTCATTTCAA
1 TTTTCATTTCAATTTCAATTCTATTTCATTTAAATTCAA
* *
90494637 TTTTCATTTCATTTTCATTTCTATTTCATTTAAATT
1 TTTTCATTTCAATTTCAATTCTATTTCATTTAAATT
90494673 ATATTTTTTC
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
39 32 1.00
ACGTcount: A:0.24, C:0.16, G:0.00, T:0.60
Consensus pattern (39 bp):
TTTTCATTTCAATTTCAATTCTATTTCATTTAAATTCAA
Found at i:90494688 original size:20 final size:20
Alignment explanation
Indices: 90494663--90494793 Score: 77
Period size: 20 Copynumber: 6.0 Consensus size: 20
90494653 ATTTCTATTT
90494663 CATTTAAA-TTATATTTTTTC
1 CATTTAAATTTA-ATTTTTTC
90494683 CATTTAAATTTAATTTTTTCC
1 CATTTAAATTTAATTTTTT-C
*
90494704 TCATTTCATTTAATTT-ATCTATCTTCC
1 -CATTT-A---AATTTAAT-T-T-TTTC
* *
90494731 CATTTTAATTTATTTTTTTC
1 CATTTAAATTTAATTTTTTC
* *
90494751 TCATTTTATTTATATTATTTTTTC
1 -CATTTAAATT-TA--ATTTTTTC
90494775 CATTTAAATTTAATTTTTT
1 CATTTAAATTTAATTTTTT
90494794 TCTCATTTCA
Statistics
Matches: 88, Mismatches: 8, Indels: 30
0.70 0.06 0.24
Matches are distributed among these distances:
20 25 0.28
21 14 0.16
22 15 0.17
23 10 0.11
24 7 0.08
25 2 0.02
26 11 0.12
27 2 0.02
28 2 0.02
ACGTcount: A:0.25, C:0.12, G:0.00, T:0.63
Consensus pattern (20 bp):
CATTTAAATTTAATTTTTTC
Found at i:90494714 original size:21 final size:21
Alignment explanation
Indices: 90494662--90494958 Score: 98
Period size: 21 Copynumber: 12.6 Consensus size: 21
90494652 CATTTCTATT
*
90494662 TCATTTAAATTATATTTTTT-C
1 TCATTTAATTTA-ATTTTTTCC
90494683 -CATTTAAATTTAATTTTTTCC
1 TCATTT-AATTTAATTTTTTCC
*
90494704 TCATTTCATTTAATTTATCTATCTTC
1 TCATTTAATTTAATTT-T-T-TC--C
* *
90494730 CCATTTTAATTT-ATTTTTTTC
1 TCA-TTTAATTTAATTTTTTCC
* *
90494751 TCATTTTATTTATATTATTTT-T
1 TCATTTAATTTA-ATT-TTTTCC
90494773 TCCATTTAAATTTAATTTTTTTCTC
1 T-CATTT-AATTTAA-TTTTTTC-C
*
90494798 ATTTCATTTAAATTTAAATTTTTTTC
1 ---TCATTT-AATTT-AATTTTTTCC
*
90494824 TCATTTCATTTAAATTTAAATTTTTTTC
1 TCA-----TTT-AATTT-AATTTTTTCC
* *
90494852 TCATTTCATTTAATTTATCTCTCATT
1 TCATTTAATTTAATTT-T-T-TC--C
*
90494878 TCATTTTAATTTAATTTTTTTC
1 TCA-TTTAATTTAATTTTTTCC
* **
90494900 TCATTTCATTTATATTATTTTTT
1 TCATTTAATTTA-ATT-TTTTCC
*
90494923 TCCATTTAAATTTAATATTTTCC
1 T-CATTT-AATTTAATTTTTTCC
*
90494946 TCATTTTATTTAA
1 TCATTTAATTTAA
90494959 ATTATCTTTA
Statistics
Matches: 216, Mismatches: 24, Indels: 72
0.69 0.08 0.23
Matches are distributed among these distances:
20 19 0.09
21 37 0.17
22 26 0.12
23 34 0.16
24 19 0.09
25 7 0.03
26 12 0.06
27 36 0.17
28 26 0.12
ACGTcount: A:0.26, C:0.12, G:0.00, T:0.62
Consensus pattern (21 bp):
TCATTTAATTTAATTTTTTCC
Found at i:90494809 original size:27 final size:27
Alignment explanation
Indices: 90494775--90495036 Score: 276
Period size: 27 Copynumber: 10.4 Consensus size: 27
90494765 TTATTTTTTC
90494775 CATTTAAATTTAATTTTTTTCTCATTT
1 CATTTAAATTTAATTTTTTTCTCATTT
90494802 CATTTAAATTTAAATTTTTTTCTCATTT
1 CATTTAAATTT-AATTTTTTTCTCATTT
90494830 CATTTAAATTTAAATTTTTTTCTCATTT
1 CATTTAAATTT-AATTTTTTTCTCATTT
*
90494858 CATTT-AATTT-A----TCTCTCATTT
1 CATTTAAATTTAATTTTTTTCTCATTT
*
90494879 CATTTTAATTTAATTTTTTTCTCATTT
1 CATTTAAATTTAATTTTTTTCTCATTT
*
90494906 CATTTATA-TT-A-TTTTTT-TC----
1 CATTTAAATTTAATTTTTTTCTCATTT
* *
90494925 CATTTAAATTTAATATTTTCCTCATTT
1 CATTTAAATTTAATTTTTTTCTCATTT
* * *
90494952 TATTTAAA-TT-A--TCTTTAT--TTT
1 CATTTAAATTTAATTTTTTTCTCATTT
*
90494973 AATTTAAATTTAATTTTTTTCTCATTT
1 CATTTAAATTTAATTTTTTTCTCATTT
*
90495000 CATTTAAATTTATTTTTTTTCTCATTT
1 CATTTAAATTTAATTTTTTTCTCATTT
90495027 CATTTAAATT
1 CATTTAAATT
90495037 ATCTTTCTTT
Statistics
Matches: 198, Mismatches: 16, Indels: 42
0.77 0.06 0.16
Matches are distributed among these distances:
19 7 0.04
20 2 0.01
21 25 0.13
22 11 0.06
23 10 0.05
24 6 0.03
25 8 0.04
26 4 0.02
27 76 0.38
28 49 0.25
ACGTcount: A:0.27, C:0.11, G:0.00, T:0.62
Consensus pattern (27 bp):
CATTTAAATTTAATTTTTTTCTCATTT
Found at i:90494985 original size:94 final size:94
Alignment explanation
Indices: 90494654--90495018 Score: 411
Period size: 94 Copynumber: 3.8 Consensus size: 94
90494644 TTCATTTTCA
* *
90494654 TTTCT-ATTTCATTTAAATTATATTTTTTCCATTTAAATTTAATTTTTTCCTCATTTCATTT-AA
1 TTTCTCATTTCATTTAAATTATCTTTTTTCCATTTAAATTTAATTTTTTTCTCATTTCATTTAAA
* * *
90494717 TTTATCTATCTTCCCATTTTAATTT-ATTTT
66 TTTAT-T-TTTTTCCATTTAAATTTAATTTT
* *
90494747 TTTCTCATTTTATTTATATTA--TTTTTTCCATTTAAATTTAATTTTTTTCTCATTTCATTTAAA
1 TTTCTCATTTCATTTAAATTATCTTTTTTCCATTTAAATTTAATTTTTTTCTCATTTCATTTAAA
90494810 TTTAAATTTTTTTCTCATTTCATTTAAATTTAAATTTT
66 TTT--A-TTTTTT-TC----CATTTAAATTT-AATTTT
* * *
90494848 TTTCTCATTTCATTTAATTTATCTCTCATTT-CATTTTAATTTAATTTTTTTCTCATTTCATTTA
1 TTTCTCATTTCATTTAAATTATCT-T-TTTTCCATTTAAATTTAATTTTTTTCTCATTTCATTTA
* *
90494912 TA-TTATTTTTTTCCATTTAAATTTAATATT
64 AATTTATTTTTTTCCATTTAAATTTAATTTT
* * **
90494942 TTCCTCATTTTATTTAAATTATCTTTATTTTAATTTAAATTTAATTTTTTTCTCATTTCATTTAA
1 TTTCTCATTTCATTTAAATTATCTTT-TTTCCATTTAAATTTAATTTTTTTCTCATTTCATTTAA
90495007 ATTTATTTTTTT
65 ATTTATTTTTTT
90495019 TCTCATTTCA
Statistics
Matches: 233, Mismatches: 20, Indels: 36
0.81 0.07 0.12
Matches are distributed among these distances:
92 38 0.16
93 14 0.06
94 74 0.32
95 24 0.10
96 1 0.00
99 12 0.05
100 6 0.03
101 24 0.10
103 3 0.01
104 34 0.15
105 3 0.01
ACGTcount: A:0.25, C:0.12, G:0.00, T:0.63
Consensus pattern (94 bp):
TTTCTCATTTCATTTAAATTATCTTTTTTCCATTTAAATTTAATTTTTTTCTCATTTCATTTAAA
TTTATTTTTTTCCATTTAAATTTAATTTT
Found at i:90495010 original size:75 final size:76
Alignment explanation
Indices: 90494925--90495069 Score: 211
Period size: 75 Copynumber: 1.9 Consensus size: 76
90494915 TATTTTTTTC
* *
90494925 CATTTAAATTTAATATTTTCCTCATTTTATTTAAATTATCTTTATTTTAATTTAAATTTA-ATTT
1 CATTTAAATTTAATATTTTCCTCATTTCATTTAAATTATCTTTATTTCAATTTAAATTTACATTT
90494989 TTTTCTCATTT
66 TTTTCTCATTT
* * * * * *
90495000 CATTTAAATTTATTTTTTTTCTCATTTCATTTAAATTATCTTTCTTTCCATTTTAATTTACATTT
1 CATTTAAATTTAATATTTTCCTCATTTCATTTAAATTATCTTTATTTCAATTTAAATTTACATTT
90495065 TTTTC
66 TTTTC
90495070 ATATTAATTT
Statistics
Matches: 61, Mismatches: 8, Indels: 1
0.87 0.11 0.01
Matches are distributed among these distances:
75 52 0.85
76 9 0.15
ACGTcount: A:0.26, C:0.12, G:0.00, T:0.62
Consensus pattern (76 bp):
CATTTAAATTTAATATTTTCCTCATTTCATTTAAATTATCTTTATTTCAATTTAAATTTACATTT
TTTTCTCATTT
Found at i:90495033 original size:48 final size:48
Alignment explanation
Indices: 90494654--90495026 Score: 388
Period size: 48 Copynumber: 7.8 Consensus size: 48
90494644 TTCATTTTCA
*
90494654 TTTCT-ATTTCATTTAAATTATATTTTTTC-CATTTAAATTTAATTTT
1 TTTCTCATTTCATTTAAATTATTTTTTTTCTCATTTAAATTTAATTTT
* * * * * * *
90494700 TTCCTCATTTCATTTAATTTATCTATCTTCCCATTTTAATTT-ATTTT
1 TTTCTCATTTCATTTAAATTATTTTTTTTCTCATTTAAATTTAATTTT
* *
90494747 TTTCTCATTTTATTTATATTA--TTTTTTC-CATTTAAATTTAATTTT
1 TTTCTCATTTCATTTAAATTATTTTTTTTCTCATTTAAATTTAATTTT
90494792 TTTCTCATTTCATTTAAATTTAAATTTTTTTCTCATTTCATTTAAATTTAAATTTT
1 TTTCTCATTTCATTTAAA-TT--ATTTTTTT-TC---TCATTTAAATTT-AATTTT
* * ** *
90494848 TTTCTCATTTCATTTAATTTATCTCTCATT-TCATTTTAATTTAATTTT
1 TTTCTCATTTCATTTAAATTAT-TTTTTTTCTCATTTAAATTTAATTTT
* *
90494896 TTTCTCATTTCATTTATATTA-TTTTTTTC-CATTTAAATTTAATATT
1 TTTCTCATTTCATTTAAATTATTTTTTTTCTCATTTAAATTTAATTTT
* * * *
90494942 TTCCTCATTTTATTTAAATTATCTTTATTT-TAATTTAAATTTAATTTT
1 TTTCTCATTTCATTTAAATTAT-TTTTTTTCTCATTTAAATTTAATTTT
90494990 TTTCTCATTTCATTTAAATTTATTTTTTTTCTCATTT
1 TTTCTCATTTCATTTAAA-TTATTTTTTTTCTCATTT
90495027 CATTTAAATT
Statistics
Matches: 269, Mismatches: 37, Indels: 39
0.78 0.11 0.11
Matches are distributed among these distances:
44 10 0.04
45 26 0.10
46 43 0.16
47 42 0.16
48 79 0.29
49 20 0.07
50 5 0.02
51 2 0.01
53 3 0.01
54 3 0.01
55 13 0.05
56 23 0.09
ACGTcount: A:0.25, C:0.12, G:0.00, T:0.63
Consensus pattern (48 bp):
TTTCTCATTTCATTTAAATTATTTTTTTTCTCATTTAAATTTAATTTT
Found at i:90495052 original size:48 final size:48
Alignment explanation
Indices: 90494802--90495069 Score: 126
Period size: 48 Copynumber: 5.4 Consensus size: 48
90494792 TTTCTCATTT
** *
90494802 CATTTAAATTTAAATTTTTTTCTCATTTCATTTAAATTTAAATTTTTTTC
1 CATTTAAATTT-AATTTTTTTCTCATTTCATTTAAA-TTATCTTTCTTTC
* * * *
90494852 TCATTT-CATTTAATTTATCTCTCATTTCATTTTAATTTAAT-TTT-TTTC
1 -CATTTAAATTTAATTTTTTTCTCATTTCA-TTTAAATT-ATCTTTCTTTC
* * * * *
90494900 TCATTT-CATTTATATTATTTTTTTCCATTTAAATTTAATATTTTC-CTCATTT-
1 -CATTTAAATTTA-ATT-TTTTTCT-CATTT-CATTTAA-ATTATCTTTC-TTTC
* * * * *
90494952 TATTTAAA-TT-ATCTTTATTT-TAATTTAAATTT-AATT-TTTTTCTCATTT
1 CATTTAAATTTAAT-TTT-TTTCTCATTT-CATTTAAATTATCTTTCT--TTC
*
90495000 CATTTAAATTTATTTTTTTTCTCATTTCATTTAAATTATCTTTCTTTC
1 CATTTAAATTTAATTTTTTTCTCATTTCATTTAAATTATCTTTCTTTC
*
90495048 CATTTTAATTTACATTTTTTTC
1 CATTTAAATTTA-ATTTTTTTC
90495070 ATATTAATTT
Statistics
Matches: 169, Mismatches: 25, Indels: 48
0.70 0.10 0.20
Matches are distributed among these distances:
45 2 0.01
46 5 0.03
47 3 0.02
48 53 0.31
49 51 0.30
50 25 0.15
51 23 0.14
52 4 0.02
53 3 0.02
ACGTcount: A:0.26, C:0.12, G:0.00, T:0.62
Consensus pattern (48 bp):
CATTTAAATTTAATTTTTTTCTCATTTCATTTAAATTATCTTTCTTTC
Found at i:90495058 original size:27 final size:26
Alignment explanation
Indices: 90494776--90495068 Score: 203
Period size: 27 Copynumber: 11.6 Consensus size: 26
90494766 TATTTTTTCC
*
90494776 ATTTAAATTTAATTTTTTTCTCATTTC
1 ATTTAAATTT-ATTTTTTTCTCATTTA
*
90494803 ATTTAAATTTAAATTTTTTTCTCATTTC
1 ATTTAAATTT--ATTTTTTTCTCATTTA
*
90494831 ATTTAAATTTAAATTTTTTTCTCATTTC
1 ATTTAAATTT--ATTTTTTTCTCATTTA
* *
90494859 ATTT-AATTTA----TCTCTCATTTC
1 ATTTAAATTTATTTTTTTCTCATTTA
* *
90494880 ATTTTAATTTAATTTTTTTCTCATTTC
1 ATTTAAATTT-ATTTTTTTCTCATTTA
*
90494907 ATTTATA-TTATTTTTTTC-CATTTAA
1 ATTTAAATTTATTTTTTTCTCATTT-A
* *
90494932 ATTT-AA--TA--TTTTCCTCATTTT
1 ATTTAAATTTATTTTTTTCTCATTTA
* *
90494953 ATTTAAA-TTA--TCTTTAT--TTTA
1 ATTTAAATTTATTTTTTTCTCATTTA
*
90494974 ATTTAAATTTAATTTTTTTCTCATTTC
1 ATTTAAATTT-ATTTTTTTCTCATTTA
*
90495001 ATTTAAATTTATTTTTTTTCTCATTTC
1 ATTTAAATTTA-TTTTTTTCTCATTTA
90495028 ATTTAAA-TTATCTTTCTTTC-CATTTTA
1 ATTTAAATTTAT-TTT-TTTCTCA-TTTA
*
90495055 ATTTACATTT-TTTT
1 ATTTAAATTTATTTT
90495069 CATATTAATT
Statistics
Matches: 227, Mismatches: 17, Indels: 45
0.79 0.06 0.16
Matches are distributed among these distances:
21 33 0.15
22 14 0.06
23 10 0.04
24 6 0.03
25 20 0.09
26 14 0.06
27 79 0.35
28 51 0.22
ACGTcount: A:0.26, C:0.11, G:0.00, T:0.63
Consensus pattern (26 bp):
ATTTAAATTTATTTTTTTCTCATTTA
Found at i:90495099 original size:121 final size:119
Alignment explanation
Indices: 90494654--90495059 Score: 326
Period size: 121 Copynumber: 3.3 Consensus size: 119
90494644 TTCATTTTCA
* *
90494654 TTTCT-ATTTCATTTAAATTATATTTTTTCCATTTAAATTTAATTTTTTCCTCATTTCATTTAAT
1 TTTCTCATTTCATTTAAATTAT-TTTTTTCCATTTAAATTTAATATTTTCCTCATTTAATTT-A-
*** * * * * *
90494718 TTATCTATC-TTCCCATTTTAATTT-ATTTTTTTCTCATTTTATTTATA-TT-A-TTT
63 TTATCT-TCATTTTAATTTAAATTTAATTTATCTCTCATTTCATTTAAATTTAATTTT
* * * * * *
90494771 TTTC-CATTTAAATTT-AATTTTTTTCTCATTTCATTTAAATTTAAATTTTTTTCTCATTTCATT
1 TTTCTCATTT-CATTTAAATTATTTT-T--TTCCATTTAAATTT-AATATTTTCCTCATTTAATT
** ** * * *
90494834 TAAATTTAAATTTTTTTCTCATTT-CATTTAATTTATCTCTCATTTCATTTTAATTTAATTTT
61 T--A-TTATCTTCATTT-TAATTTAAATTTAATTTATCTCTCATTTCATTTAAATTTAATTTT
* *
90494896 TTTCTCATTTCATTTATATTATTTTTTTCCATTTAAATTTAATATTTTCCTCATTTTATTTAAAT
1 TTTCTCATTTCATTTAAATTATTTTTTTCCATTTAAATTTAATATTTTCCTCATTTAATTT--AT
* * * *
90494961 TATCTTTATTTTAATTTAAATTTAATTTTTTTCTCATTTCATTTAAATTTATTTTT
64 TATCTTCATTTTAATTTAAATTTAATTTATCTCTCATTTCATTTAAATTTAATTTT
*
90495017 TTTCTCATTTCATTTAAATTATCTTTCTTTCCATTTTAATTTA
1 TTTCTCATTTCATTTAAATTAT-TTT-TTTCCATTTAAATTTA
90495060 CATTTTTTTC
Statistics
Matches: 238, Mismatches: 33, Indels: 30
0.79 0.11 0.10
Matches are distributed among these distances:
116 3 0.01
117 14 0.06
118 4 0.02
119 13 0.05
120 26 0.11
121 76 0.32
122 47 0.20
123 30 0.13
124 1 0.00
125 12 0.05
126 12 0.05
ACGTcount: A:0.25, C:0.12, G:0.00, T:0.63
Consensus pattern (119 bp):
TTTCTCATTTCATTTAAATTATTTTTTTCCATTTAAATTTAATATTTTCCTCATTTAATTTATTA
TCTTCATTTTAATTTAAATTTAATTTATCTCTCATTTCATTTAAATTTAATTTT
Found at i:90502274 original size:46 final size:46
Alignment explanation
Indices: 90502219--90502312 Score: 179
Period size: 46 Copynumber: 2.0 Consensus size: 46
90502209 TTAAGGTGGG
90502219 AATTAAAGAAGTTAGGTGAATCTCAACATTCTTTACCTCATGGTTT
1 AATTAAAGAAGTTAGGTGAATCTCAACATTCTTTACCTCATGGTTT
*
90502265 AATTAAAGAAGTTAGGTGAATCTCAACATTCTTTATCTCATGGTTT
1 AATTAAAGAAGTTAGGTGAATCTCAACATTCTTTACCTCATGGTTT
90502311 AA
1 AA
90502313 GTACTTTTTG
Statistics
Matches: 47, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
46 47 1.00
ACGTcount: A:0.34, C:0.14, G:0.15, T:0.37
Consensus pattern (46 bp):
AATTAAAGAAGTTAGGTGAATCTCAACATTCTTTACCTCATGGTTT
Found at i:90504656 original size:26 final size:26
Alignment explanation
Indices: 90504634--90504688 Score: 78
Period size: 26 Copynumber: 2.2 Consensus size: 26
90504624 TCCTTTTGAC
90504634 TTTT-GAAAAT-ATTTTCTATTTTTCA
1 TTTTAGAAAATAATTTTC-ATTTTTCA
*
90504659 TTTTAGAAAATAATTTTCATTTTTTA
1 TTTTAGAAAATAATTTTCATTTTTCA
90504685 TTTT
1 TTTT
90504689 TAAAAATTAA
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
25 4 0.15
26 17 0.63
27 6 0.22
ACGTcount: A:0.29, C:0.05, G:0.04, T:0.62
Consensus pattern (26 bp):
TTTTAGAAAATAATTTTCATTTTTCA
Found at i:90504694 original size:26 final size:25
Alignment explanation
Indices: 90504634--90504695 Score: 72
Period size: 26 Copynumber: 2.4 Consensus size: 25
90504624 TCCTTTTGAC
*
90504634 TTTTGAAAATATTTTCTATTTTTCA
1 TTTTAAAAATATTTTCTATTTTTCA
*
90504659 TTTTAGAAAATAATTTTC-ATTTTTTA
1 TTTTA-AAAAT-ATTTTCTATTTTTCA
90504685 TTTTTAAAAAT
1 -TTTTAAAAAT
90504696 TAAAAATATG
Statistics
Matches: 32, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
25 4 0.12
26 17 0.53
27 11 0.34
ACGTcount: A:0.34, C:0.05, G:0.03, T:0.58
Consensus pattern (25 bp):
TTTTAAAAATATTTTCTATTTTTCA
Found at i:90508976 original size:22 final size:21
Alignment explanation
Indices: 90508951--90509020 Score: 70
Period size: 22 Copynumber: 3.2 Consensus size: 21
90508941 TTTTTAAATA
90508951 TAAAAAATTCAAAAAAATAATT
1 TAAAAAATT-AAAAAAATAATT
* *
90508973 TAAAAAATTAGAAAAAAGAA-G
1 TAAAAAATTA-AAAAAATAATT
* *
90508994 TATAAAAATTAAAAATATATTT
1 TA-AAAAATTAAAAAAATAATT
90509016 TAAAA
1 TAAAA
90509021 TTTTTAAGAA
Statistics
Matches: 39, Mismatches: 6, Indels: 7
0.75 0.12 0.13
Matches are distributed among these distances:
21 12 0.31
22 27 0.69
ACGTcount: A:0.67, C:0.01, G:0.04, T:0.27
Consensus pattern (21 bp):
TAAAAAATTAAAAAAATAATT
Found at i:90512318 original size:21 final size:21
Alignment explanation
Indices: 90512294--90512346 Score: 81
Period size: 21 Copynumber: 2.5 Consensus size: 21
90512284 GTCCCACGAG
90512294 GCCACAACCACA-GTTCCACAA
1 GCCACAACCA-AGGTTCCACAA
*
90512315 GCCACAAACAAGGTTCCACAA
1 GCCACAACCAAGGTTCCACAA
90512336 GCCACAACCAA
1 GCCACAACCAA
90512347 TGTCAGTTGT
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
20 1 0.03
21 28 0.97
ACGTcount: A:0.42, C:0.40, G:0.11, T:0.08
Consensus pattern (21 bp):
GCCACAACCAAGGTTCCACAA
Found at i:90512869 original size:45 final size:45
Alignment explanation
Indices: 90512799--90512889 Score: 146
Period size: 45 Copynumber: 2.0 Consensus size: 45
90512789 AATTTAATTA
** *
90512799 ACCATTATTAGCAGGTTTAGTTTCATTTAAGTCATGCATATATAT
1 ACCATTATTAGCAGGTTTAACTTCATTTAAGTCAAGCATATATAT
*
90512844 ACCATTATTAGCAGGTTTAACTTCATTTAGGTCAAGCATATATAT
1 ACCATTATTAGCAGGTTTAACTTCATTTAAGTCAAGCATATATAT
90512889 A
1 A
90512890 TTAATGCATA
Statistics
Matches: 42, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
45 42 1.00
ACGTcount: A:0.33, C:0.14, G:0.13, T:0.40
Consensus pattern (45 bp):
ACCATTATTAGCAGGTTTAACTTCATTTAAGTCAAGCATATATAT
Found at i:90512927 original size:36 final size:36
Alignment explanation
Indices: 90512887--90512959 Score: 110
Period size: 36 Copynumber: 2.0 Consensus size: 36
90512877 AAGCATATAT
* *
90512887 ATATTAATGCATATGTATACTGTTTAGCTTCATTTA
1 ATATTAATGCATATATATAATGTTTAGCTTCATTTA
* *
90512923 ATATTAATGCATATATATAATGTTTTGCTTTATTTA
1 ATATTAATGCATATATATAATGTTTAGCTTCATTTA
90512959 A
1 A
90512960 GTCATGCGCA
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
36 33 1.00
ACGTcount: A:0.33, C:0.08, G:0.10, T:0.49
Consensus pattern (36 bp):
ATATTAATGCATATATATAATGTTTAGCTTCATTTA
Found at i:90513116 original size:36 final size:36
Alignment explanation
Indices: 90513069--90513141 Score: 119
Period size: 36 Copynumber: 2.0 Consensus size: 36
90513059 AAGCATATAT
* *
90513069 ATATTAATGCATATGTATACTGTTTAGCTTCATTTA
1 ATATTAATGCATATATATAATGTTTAGCTTCATTTA
*
90513105 ATATTAATGCATATATATAATGTTTTGCTTCATTTA
1 ATATTAATGCATATATATAATGTTTAGCTTCATTTA
90513141 A
1 A
90513142 GTCATGCGCA
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
36 34 1.00
ACGTcount: A:0.33, C:0.10, G:0.10, T:0.48
Consensus pattern (36 bp):
ATATTAATGCATATATATAATGTTTAGCTTCATTTA
Found at i:90513119 original size:182 final size:183
Alignment explanation
Indices: 90512833--90513540 Score: 1172
Period size: 182 Copynumber: 3.8 Consensus size: 183
90512823 ATTTAAGTCA
* * * * * *
90512833 TGCATATATATACCATTATTAGCAGGTTTAACTTCATTTAGGTCAAGC-ATATATATATTAATGC
1 TGCATATATATACCATAATTAGCAGGTTTAGCTTGAGTTAAGCCAAGCAATATATATATTAATGC
*
90512897 ATATGTATACTGTTTAGCTTCATTTAATATTAATGCATATATATAATGTTTTGCTTTATTTAAGT
66 ATATGTATACTGTTTAGCTTCATTTAATATTAATGCATATATATAATGTTTTGCTTCATTTAAGT
90512962 CATGCGCATAATGCATATATATTCCATTTAACTTCATTTAAGTCATGCATAAT
131 CATGCGCATAATGCATATATATTCCATTTAACTTCATTTAAGTCATGCATAAT
*
90513015 TGCATATATATACCATAATTTGCAGGTTTAGCTTGAGTTAAGCCAAGC-ATATATATATTAATGC
1 TGCATATATATACCATAATTAGCAGGTTTAGCTTGAGTTAAGCCAAGCAATATATATATTAATGC
90513079 ATATGTATACTGTTTAGCTTCATTTAATATTAATGCATATATATAATGTTTTGCTTCATTTAAGT
66 ATATGTATACTGTTTAGCTTCATTTAATATTAATGCATATATATAATGTTTTGCTTCATTTAAGT
90513144 CATGCGCATAATGCATATATATTCCATTTAACTTCATTTAAGTCATGCATAAT
131 CATGCGCATAATGCATATATATTCCATTTAACTTCATTTAAGTCATGCATAAT
*
90513197 TGCATATATATACCATAATTAGCAGGTTTAGCTTGAGTTAACCCAAGCATATATATATATTAATG
1 TGCATATATATACCATAATTAGCAGGTTTAGCTTGAGTTAAGCCAAGCA-ATATATATATTAATG
* *
90513262 CATATGTATACTGTTTAGCTTCATTTAATATTAATGCATATATATAATATTTTGCTTTATTTAAG
65 CATATGTATACTGTTTAGCTTCATTTAATATTAATGCATATATATAATGTTTTGCTTCATTTAAG
90513327 TCATGCGCATAATGCATATATATTCCATTTAACTTCATTTAAGTCATGCATAAT
130 TCATGCGCATAATGCATATATATTCCATTTAACTTCATTTAAGTCATGCATAAT
*
90513381 TGCATATATATACCATAATTAGCAGATTTAGCTTGAGTTAAGCCAAGCATATATATATTTATATA
1 TGCATATATATACCATAATTAGCAGGTTTAGCTTGAGTTAAGCCAAGC------A-A--TATATA
*
90513446 TATTAATGCATATGTATACTGTTTAGCTTCATTTAATATTAAGGCATATATATAATGTTTTGCTT
57 TATTAATGCATATGTATACTGTTTAGCTTCATTTAATATTAATGCATATATATAATGTTTTGCTT
90513511 CATTTAAGTCAT--GCATAATTGCATATATAT
122 CATTTAAGTCATGCGCATAA-TGCATATATAT
90513541 ATCATAATTA
Statistics
Matches: 498, Mismatches: 17, Indels: 13
0.94 0.03 0.02
Matches are distributed among these distances:
182 220 0.44
184 178 0.36
190 9 0.02
191 11 0.02
192 80 0.16
ACGTcount: A:0.34, C:0.13, G:0.11, T:0.42
Consensus pattern (183 bp):
TGCATATATATACCATAATTAGCAGGTTTAGCTTGAGTTAAGCCAAGCAATATATATATTAATGC
ATATGTATACTGTTTAGCTTCATTTAATATTAATGCATATATATAATGTTTTGCTTCATTTAAGT
CATGCGCATAATGCATATATATTCCATTTAACTTCATTTAAGTCATGCATAAT
Found at i:90513179 original size:43 final size:42
Alignment explanation
Indices: 90513132--90513212 Score: 128
Period size: 42 Copynumber: 1.9 Consensus size: 42
90513122 TAATGTTTTG
*
90513132 CTTCATTTAAGTCATGCGCATAA-TGCATATATATTCCATTTAA
1 CTTCATTTAAGTCAT--GCATAATTGCATATATATACCATTTAA
90513175 CTTCATTTAAGTCATGCATAATTGCATATATATACCAT
1 CTTCATTTAAGTCATGCATAATTGCATATATATACCAT
90513213 AATTAGCAGG
Statistics
Matches: 36, Mismatches: 1, Indels: 3
0.90 0.03 0.08
Matches are distributed among these distances:
41 6 0.17
42 15 0.42
43 15 0.42
ACGTcount: A:0.33, C:0.19, G:0.09, T:0.40
Consensus pattern (42 bp):
CTTCATTTAAGTCATGCATAATTGCATATATATACCATTTAA
Found at i:90513300 original size:36 final size:36
Alignment explanation
Indices: 90513253--90513325 Score: 101
Period size: 36 Copynumber: 2.0 Consensus size: 36
90513243 GCATATATAT
* * *
90513253 ATATTAATGCATATGTATACTGTTTAGCTTCATTTA
1 ATATTAATGCATATATATAATATTTAGCTTCATTTA
* *
90513289 ATATTAATGCATATATATAATATTTTGCTTTATTTA
1 ATATTAATGCATATATATAATATTTAGCTTCATTTA
90513325 A
1 A
90513326 GTCATGCGCA
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
36 32 1.00
ACGTcount: A:0.34, C:0.08, G:0.08, T:0.49
Consensus pattern (36 bp):
ATATTAATGCATATATATAATATTTAGCTTCATTTA
Found at i:90513367 original size:43 final size:41
Alignment explanation
Indices: 90513257--90513396 Score: 128
Period size: 43 Copynumber: 3.5 Consensus size: 41
90513247 ATATATATAT
* ** *
90513257 TAATGCATATGTATACTGTTTAGCTTCATTTAA-T-AT---
1 TAATGCATATATATACCATTTAACTTCATTTAAGTCATGCA
** ** *
90513293 TAATGCATATATATAATATTTTGCTTTATTTAAGTCATGCGCA
1 TAATGCATATATATACCATTTAACTTCATTTAAGTCAT--GCA
*
90513336 TAATGCATATATATTCCATTTAACTTCATTTAAGTCATGCA
1 TAATGCATATATATACCATTTAACTTCATTTAAGTCATGCA
90513377 TAATTGCATATATATACCAT
1 TAA-TGCATATATATACCAT
90513397 AATTAGCAGA
Statistics
Matches: 84, Mismatches: 12, Indels: 10
0.79 0.11 0.09
Matches are distributed among these distances:
36 28 0.33
37 1 0.01
38 2 0.02
41 6 0.07
42 15 0.18
43 32 0.38
ACGTcount: A:0.34, C:0.14, G:0.09, T:0.44
Consensus pattern (41 bp):
TAATGCATATATATACCATTTAACTTCATTTAAGTCATGCA
Found at i:90513487 original size:36 final size:36
Alignment explanation
Indices: 90513445--90513517 Score: 110
Period size: 36 Copynumber: 2.0 Consensus size: 36
90513435 ATATTTATAT
* * *
90513445 ATATTAATGCATATGTATACTGTTTAGCTTCATTTA
1 ATATTAAGGCATATATATAATGTTTAGCTTCATTTA
*
90513481 ATATTAAGGCATATATATAATGTTTTGCTTCATTTA
1 ATATTAAGGCATATATATAATGTTTAGCTTCATTTA
90513517 A
1 A
90513518 GTCATGCATA
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
36 33 1.00
ACGTcount: A:0.33, C:0.10, G:0.11, T:0.47
Consensus pattern (36 bp):
ATATTAAGGCATATATATAATGTTTAGCTTCATTTA
Found at i:90513633 original size:36 final size:36
Alignment explanation
Indices: 90513586--90513676 Score: 103
Period size: 36 Copynumber: 2.5 Consensus size: 36
90513576 GCATATATAT
* * *
90513586 ATATTAATGCATTTGTATACTATTTAGCTTCATTTA
1 ATATTAATGCATATATATAATATTTAGCTTCATTTA
* *
90513622 ATATTAATGCATATATATAATGTTTTGCTTCATTTA
1 ATATTAATGCATATATATAATATTTAGCTTCATTTA
* *
90513658 AT-TCATGTGCATATATATA
1 ATATTA-ATGCATATATATA
90513677 TGTAACACCC
Statistics
Matches: 47, Mismatches: 7, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
35 2 0.04
36 45 0.96
ACGTcount: A:0.33, C:0.10, G:0.09, T:0.48
Consensus pattern (36 bp):
ATATTAATGCATATATATAATATTTAGCTTCATTTA
Found at i:90513636 original size:141 final size:143
Alignment explanation
Indices: 90513359--90513664 Score: 490
Period size: 141 Copynumber: 2.1 Consensus size: 143
90513349 TTCCATTTAA
90513359 CTTCATTTAAGTCATGCATAATTGCATATATATACCATAATTAGCAGATTTAGCTTGAGTTAAGC
1 CTTCATTTAAGTCATGCATAATTGCATATATATACCATAATTAGCAGATTTAGCTTGAGTTAAGC
*
90513424 CAAGCATATATATATTTATATATATTAATGCATATGTATACTGTTTAGCTTCATTTAATATTAAG
66 CAAGC----A-ATA-TTATATATATTAATGCATATGTATACTATTTAGCTTCATTTAATATTAAG
90513489 GCATATATATAATGTTTTG
125 GCATATATATAATGTTTTG
* *
90513508 CTTCATTTAAGTCATGCATAATTGCATATATATATCATAATTAGCAGGTTTAGCTTGAGTTAAGC
1 CTTCATTTAAGTCATGCATAATTGCATATATATACCATAATTAGCAGATTTAGCTTGAGTTAAGC
* *
90513573 CAAGC-ATA-TATATATATTAATGCATTTGTATACTATTTAGCTTCATTTAATATTAATGCATAT
66 CAAGCAATATTATATATATTAATGCATATGTATACTATTTAGCTTCATTTAATATTAAGGCATAT
90513636 ATATAATGTTTTG
131 ATATAATGTTTTG
*
90513649 CTTCATTTAATTCATG
1 CTTCATTTAAGTCATG
90513665 TGCATATATA
Statistics
Matches: 151, Mismatches: 6, Indels: 8
0.92 0.04 0.05
Matches are distributed among these distances:
141 80 0.53
143 3 0.02
149 68 0.45
ACGTcount: A:0.34, C:0.12, G:0.12, T:0.42
Consensus pattern (143 bp):
CTTCATTTAAGTCATGCATAATTGCATATATATACCATAATTAGCAGATTTAGCTTGAGTTAAGC
CAAGCAATATTATATATATTAATGCATATGTATACTATTTAGCTTCATTTAATATTAAGGCATAT
ATATAATGTTTTG
Found at i:90514412 original size:46 final size:47
Alignment explanation
Indices: 90514352--90514487 Score: 188
Period size: 46 Copynumber: 3.0 Consensus size: 47
90514342 TTTGACGTGA
* * * * * *
90514352 TGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTC-TGTCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTTCATATCAGGT
*
90514398 TGCCATGGTATCTTTCAACCATGGTCTTACACA-TCTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTTCATATCAGGT
90514444 TGCCATGGTATCTTTCAACCATGGTCTTACACA-TTTCATATCAG
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTTCATATCAG
90514488 AGAGCACACT
Statistics
Matches: 81, Mismatches: 8, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
45 3 0.04
46 78 0.96
ACGTcount: A:0.22, C:0.24, G:0.15, T:0.39
Consensus pattern (47 bp):
TGCCATGGTATCTTTCAACCATGGTCTTACACATTTTCATATCAGGT
Found at i:90516627 original size:11 final size:11
Alignment explanation
Indices: 90516611--90516659 Score: 62
Period size: 11 Copynumber: 4.3 Consensus size: 11
90516601 CTTTCTTTAT
90516611 ATACTAATAAA
1 ATACTAATAAA
90516622 ATACTAATAAA
1 ATACTAATAAA
*
90516633 ATATCTTATTAAA
1 ATA-C-TAATAAA
*
90516646 ATATTAATAAA
1 ATACTAATAAA
90516657 ATA
1 ATA
90516660 ATATTTATCT
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
11 23 0.70
12 1 0.03
13 9 0.27
ACGTcount: A:0.59, C:0.06, G:0.00, T:0.35
Consensus pattern (11 bp):
ATACTAATAAA
Found at i:90517215 original size:16 final size:17
Alignment explanation
Indices: 90517194--90517238 Score: 56
Period size: 18 Copynumber: 2.6 Consensus size: 17
90517184 TTAAGCCATG
90517194 CATATATTATAT-TATA
1 CATATATTATATATATA
*
90517210 CATATATATAGATATATA
1 CATATAT-TATATATATA
*
90517228 TATATATTATA
1 CATATATTATA
90517239 AAAGCCAATT
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
16 7 0.29
17 7 0.29
18 10 0.42
ACGTcount: A:0.47, C:0.04, G:0.02, T:0.47
Consensus pattern (17 bp):
CATATATTATATATATA
Found at i:90517630 original size:47 final size:48
Alignment explanation
Indices: 90517560--90517654 Score: 183
Period size: 47 Copynumber: 2.0 Consensus size: 48
90517550 TTTATTGTAG
90517560 ACTTTATTTTATTATTATTATTTATGTGAACCACAACTCTTTAAATAA
1 ACTTTATTTTATTATTATTATTTATGTGAACCACAACTCTTTAAATAA
90517608 ACTTTATTTT-TTATTATTATTTATGTGAACCACAACTCTTTAAATAA
1 ACTTTATTTTATTATTATTATTTATGTGAACCACAACTCTTTAAATAA
90517655 GAGTTTTAAA
Statistics
Matches: 47, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
47 37 0.79
48 10 0.21
ACGTcount: A:0.35, C:0.13, G:0.04, T:0.48
Consensus pattern (48 bp):
ACTTTATTTTATTATTATTATTTATGTGAACCACAACTCTTTAAATAA
Found at i:90517815 original size:36 final size:36
Alignment explanation
Indices: 90517768--90517841 Score: 148
Period size: 36 Copynumber: 2.1 Consensus size: 36
90517758 TTTTATAAGT
90517768 AAGTTACTCCATTGTTTTTGTTTTGAGTTAATTTTG
1 AAGTTACTCCATTGTTTTTGTTTTGAGTTAATTTTG
90517804 AAGTTACTCCATTGTTTTTGTTTTGAGTTAATTTTG
1 AAGTTACTCCATTGTTTTTGTTTTGAGTTAATTTTG
90517840 AA
1 AA
90517842 TGCTTTAATT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 38 1.00
ACGTcount: A:0.22, C:0.08, G:0.16, T:0.54
Consensus pattern (36 bp):
AAGTTACTCCATTGTTTTTGTTTTGAGTTAATTTTG
Found at i:90518082 original size:43 final size:43
Alignment explanation
Indices: 90518034--90518120 Score: 165
Period size: 43 Copynumber: 2.0 Consensus size: 43
90518024 TACTTCTCCT
*
90518034 ACTAAAGTTGTTTGCATAACAAAGAAGGGAAATACTCGAAGAA
1 ACTAAAGTTGTTCGCATAACAAAGAAGGGAAATACTCGAAGAA
90518077 ACTAAAGTTGTTCGCATAACAAAGAAGGGAAATACTCGAAGAA
1 ACTAAAGTTGTTCGCATAACAAAGAAGGGAAATACTCGAAGAA
90518120 A
1 A
90518121 GACCAAACCA
Statistics
Matches: 43, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
43 43 1.00
ACGTcount: A:0.47, C:0.13, G:0.21, T:0.20
Consensus pattern (43 bp):
ACTAAAGTTGTTCGCATAACAAAGAAGGGAAATACTCGAAGAA
Found at i:90518757 original size:149 final size:149
Alignment explanation
Indices: 90518486--90518782 Score: 576
Period size: 149 Copynumber: 2.0 Consensus size: 149
90518476 GATATTAGAA
*
90518486 ATGCATTGATTAATATGATCATTACGGATGAATTGCCTTTTAATTTTGTGGAAGGGGAGGGTTTT
1 ATGCATTGATTAATATGATCATTACGGATGAATTGCCTTTTAATTTTGTGGAAAGGGAGGGTTTT
90518551 AAGTTCTTTATTTCTATAGCATGCCCAAGGTTTCATCTTCCATCTCGTTGGAAAATTAGAAAAGG
66 AAGTTCTTTATTTCTATAGCATGCCCAAGGTTTCATCTTCCATCTCGTTGGAAAATTAGAAAAGG
90518616 TTGTCTTGATTTATTTAAG
131 TTGTCTTGATTTATTTAAG
90518635 ATGCATTGATTAATATGATCATTACGGATGAATTGCCTTTTAATTTTGTGGAAAGGGAGGGTTTT
1 ATGCATTGATTAATATGATCATTACGGATGAATTGCCTTTTAATTTTGTGGAAAGGGAGGGTTTT
*
90518700 AAGTTCTTTATTTCTATAGCATGCCCAAGGTTTCATCTTCCATCTCGTTGGACAATTAGAAAAGG
66 AAGTTCTTTATTTCTATAGCATGCCCAAGGTTTCATCTTCCATCTCGTTGGAAAATTAGAAAAGG
90518765 TTGTCTTGATTTATTTAA
131 TTGTCTTGATTTATTTAA
90518783 TTCCATGAAG
Statistics
Matches: 146, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
149 146 1.00
ACGTcount: A:0.27, C:0.12, G:0.20, T:0.40
Consensus pattern (149 bp):
ATGCATTGATTAATATGATCATTACGGATGAATTGCCTTTTAATTTTGTGGAAAGGGAGGGTTTT
AAGTTCTTTATTTCTATAGCATGCCCAAGGTTTCATCTTCCATCTCGTTGGAAAATTAGAAAAGG
TTGTCTTGATTTATTTAAG
Found at i:90519199 original size:178 final size:178
Alignment explanation
Indices: 90518900--90519254 Score: 665
Period size: 178 Copynumber: 2.0 Consensus size: 178
90518890 CAGCTCATTG
90518900 GATAGATGATGAGTGGAAGTTACAAAAGAGAATTATAAACTTTTGCCCAATTTCTGCTCATAGAG
1 GATAGATGATGAGTGGAAGTTACAAAAGAGAATTATAAACTTTTGCCCAATTTCTGCTCATAGAG
*
90518965 GTGAGAGCATTGGTCAAGCCCTTGAGAAATGTCTTCGGGATTGGGGGATTGAGAAGGTCTTTGCA
66 GTGAGAGCATTGGTCAAGCCCTTGAAAAATGTCTTCGGGATTGGGGGATTGAGAAGGTCTTTGCA
*
90519030 ATTACTGTTGATAATGTATCTTCTAACAATGTTGCTGTTGATTATTTT
131 ATTACTGTTGATAATGCATCTTCTAACAATGTTGCTGTTGATTATTTT
* *
90519078 GATAGATGATGAGTGGAAGTTACAAAAGAGAATTATAAATTTTTTCCCAATTTCTGCTCATAGAG
1 GATAGATGATGAGTGGAAGTTACAAAAGAGAATTATAAACTTTTGCCCAATTTCTGCTCATAGAG
90519143 GTGAGAGCATTGGTCAAGCCCTTGAAAAATGTCTTCGGGATTGGGGGATTGAGAAGGTCTTTGCA
66 GTGAGAGCATTGGTCAAGCCCTTGAAAAATGTCTTCGGGATTGGGGGATTGAGAAGGTCTTTGCA
*
90519208 ATTACTGTTGGTAATGCATCTTCTAACAATGTTGCTGTTGATTATTT
131 ATTACTGTTGATAATGCATCTTCTAACAATGTTGCTGTTGATTATTT
90519255 GAGAAAGAAG
Statistics
Matches: 172, Mismatches: 5, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
178 172 1.00
ACGTcount: A:0.29, C:0.12, G:0.25, T:0.34
Consensus pattern (178 bp):
GATAGATGATGAGTGGAAGTTACAAAAGAGAATTATAAACTTTTGCCCAATTTCTGCTCATAGAG
GTGAGAGCATTGGTCAAGCCCTTGAAAAATGTCTTCGGGATTGGGGGATTGAGAAGGTCTTTGCA
ATTACTGTTGATAATGCATCTTCTAACAATGTTGCTGTTGATTATTTT
Found at i:90521205 original size:21 final size:21
Alignment explanation
Indices: 90521179--90521220 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
90521169 ATTTTGCATA
90521179 CCTAAAATAGTTCTTTACATG
1 CCTAAAATAGTTCTTTACATG
90521200 CCTAAAATAGTTCTTTACATG
1 CCTAAAATAGTTCTTTACATG
90521221 TAATTATTTA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.33, C:0.19, G:0.10, T:0.38
Consensus pattern (21 bp):
CCTAAAATAGTTCTTTACATG
Found at i:90521248 original size:21 final size:22
Alignment explanation
Indices: 90521224--90521266 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
90521214 TTACATGTAA
* *
90521224 TTATTTAG-TAAATTATATTGT
1 TTATGTAGTTAAATAATATTGT
90521245 TTATGTAGTTAAATAATATTGT
1 TTATGTAGTTAAATAATATTGT
90521267 AATTCGTTTA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
21 7 0.37
22 12 0.63
ACGTcount: A:0.35, C:0.00, G:0.12, T:0.53
Consensus pattern (22 bp):
TTATGTAGTTAAATAATATTGT
Found at i:90523972 original size:26 final size:26
Alignment explanation
Indices: 90523943--90524000 Score: 91
Period size: 26 Copynumber: 2.2 Consensus size: 26
90523933 CATGAAATTC
90523943 TTATCATGAAACATTTACCTAA-CTCA
1 TTATCATGAAACATTTACCTAACCT-A
*
90523969 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCTA
90523995 TTATCA
1 TTATCA
90524001 ATTTGTATCA
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
26 28 0.93
27 2 0.07
ACGTcount: A:0.36, C:0.22, G:0.05, T:0.36
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCTA
Found at i:90525523 original size:32 final size:33
Alignment explanation
Indices: 90525466--90525528 Score: 85
Period size: 32 Copynumber: 1.9 Consensus size: 33
90525456 ATGTCTCATA
* *
90525466 TTTGTTCAATTCTTTTAATTTAAATTGTTGATT
1 TTTGTTCAATTCTTTTAATATAAATTATTGATT
90525499 TTTGTT-AATT-TTTTACATATAAATTATTGA
1 TTTGTTCAATTCTTTTA-ATATAAATTATTGA
90525529 ATTGTTAATT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
31 5 0.19
32 16 0.59
33 6 0.22
ACGTcount: A:0.29, C:0.05, G:0.08, T:0.59
Consensus pattern (33 bp):
TTTGTTCAATTCTTTTAATATAAATTATTGATT
Found at i:90527620 original size:27 final size:27
Alignment explanation
Indices: 90527586--90527643 Score: 75
Period size: 27 Copynumber: 2.2 Consensus size: 27
90527576 TCCTTCTTAC
90527586 TTTT-GAAAAT-ATTTTCTATTTTTCAT
1 TTTTAGAAAATAATTTT-TATTTTTCAT
* *
90527612 TTTTAGAAATTAATTTTTATTTTTTAT
1 TTTTAGAAAATAATTTTTATTTTTCAT
90527639 TTTTA
1 TTTTA
90527644 AAAGTTAAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
26 4 0.14
27 19 0.68
28 5 0.18
ACGTcount: A:0.28, C:0.03, G:0.03, T:0.66
Consensus pattern (27 bp):
TTTTAGAAAATAATTTTTATTTTTCAT
Found at i:90527651 original size:27 final size:28
Alignment explanation
Indices: 90527596--90527651 Score: 80
Period size: 27 Copynumber: 2.0 Consensus size: 28
90527586 TTTTGAAAAT
90527596 ATTTTCTATTTTTCATTTTTAGAAATTA
1 ATTTTCTATTTTTCATTTTTAGAAATTA
*
90527624 ATTTT-TATTTTTTATTTTTA-AAAGTTA
1 ATTTTCTATTTTTCATTTTTAGAAA-TTA
90527651 A
1 A
90527652 AAAATATATT
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
26 3 0.12
27 18 0.69
28 5 0.19
ACGTcount: A:0.30, C:0.04, G:0.04, T:0.62
Consensus pattern (28 bp):
ATTTTCTATTTTTCATTTTTAGAAATTA
Found at i:90528082 original size:9 final size:9
Alignment explanation
Indices: 90528070--90528096 Score: 54
Period size: 9 Copynumber: 3.0 Consensus size: 9
90528060 AAATTGAATA
90528070 AATTTAAAT
1 AATTTAAAT
90528079 AATTTAAAT
1 AATTTAAAT
90528088 AATTTAAAT
1 AATTTAAAT
90528097 TTATTATTAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 18 1.00
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (9 bp):
AATTTAAAT
Found at i:90528745 original size:26 final size:27
Alignment explanation
Indices: 90528701--90528751 Score: 77
Period size: 26 Copynumber: 1.9 Consensus size: 27
90528691 TGCCAATCCT
90528701 TTCTTTTAATTTTATAATATAATATTC
1 TTCTTTTAATTTTATAATATAATATTC
* *
90528728 TTCTTTT-ATTTTTTAATATTATAT
1 TTCTTTTAATTTTATAATATAATAT
90528752 ATTACAACAT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
26 15 0.68
27 7 0.32
ACGTcount: A:0.29, C:0.06, G:0.00, T:0.65
Consensus pattern (27 bp):
TTCTTTTAATTTTATAATATAATATTC
Found at i:90529018 original size:10 final size:10
Alignment explanation
Indices: 90529003--90529028 Score: 52
Period size: 10 Copynumber: 2.6 Consensus size: 10
90528993 TATGAACTTT
90529003 GATTTTGTAC
1 GATTTTGTAC
90529013 GATTTTGTAC
1 GATTTTGTAC
90529023 GATTTT
1 GATTTT
90529029 ATACATGAAA
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:0.19, C:0.08, G:0.19, T:0.54
Consensus pattern (10 bp):
GATTTTGTAC
Found at i:90530677 original size:23 final size:23
Alignment explanation
Indices: 90530627--90530696 Score: 79
Period size: 23 Copynumber: 3.0 Consensus size: 23
90530617 GTACCGCACC
*
90530627 AAAGTGCCAATAACAGAAGCAC-
1 AAAGTGCCAATAACAGAAGTACT
*
90530649 AGAAGTGCCAGTAACAGAAGTACT
1 A-AAGTGCCAATAACAGAAGTACT
* * *
90530673 AAAGTACTAATAACAAAAGTACT
1 AAAGTGCCAATAACAGAAGTACT
90530696 A
1 A
90530697 TGCCCGAAGG
Statistics
Matches: 40, Mismatches: 6, Indels: 3
0.82 0.12 0.06
Matches are distributed among these distances:
22 1 0.03
23 38 0.95
24 1 0.03
ACGTcount: A:0.50, C:0.17, G:0.17, T:0.16
Consensus pattern (23 bp):
AAAGTGCCAATAACAGAAGTACT
Found at i:90531532 original size:43 final size:43
Alignment explanation
Indices: 90531456--90531698 Score: 235
Period size: 43 Copynumber: 5.6 Consensus size: 43
90531446 GCCGCTAAAA
* * * * * *
90531456 TTAGCAGCGCTTGTTTGAAAAAATGCAGCTAAAGATCATGACCT
1 TTAGCGGCGCTT-TTTAAAAAAACGCCGCTAAAGATCAGGACTT
*
90531500 TTAGCGGCGCTTTTTAAAAAAATGCCGCTAAAGA-CTAGGACTT
1 TTAGCGGCGCTTTTTAAAAAAACGCCGCTAAAGATC-AGGACTT
* * *
90531543 TTAGCGGCGCTTTTTTAAAAAAACGCTGCTAAAGACCAAGACTT
1 TTAGCGGCGC-TTTTTAAAAAAACGCCGCTAAAGATCAGGACTT
* * * *
90531587 TTAGCAGTGCTTTTT-AAAAAACGCTGCTAAAGATCATGACTT
1 TTAGCGGCGCTTTTTAAAAAAACGCCGCTAAAGATCAGGACTT
* * * *
90531629 TTAGCGGCG-TTTTTATAGAAAGCGCCACTAAAGAT-AGGGACCT
1 TTAGCGGCGCTTTTTA-AAAAAACGCCGCTAAAGATCA-GGACTT
90531672 TTAGCGGCGC-TTTTATAAAAAACGCCG
1 TTAGCGGCGCTTTTTA-AAAAAACGCCG
90531699 TTAATTTGCC
Statistics
Matches: 169, Mismatches: 23, Indels: 15
0.82 0.11 0.07
Matches are distributed among these distances:
41 5 0.03
42 34 0.20
43 82 0.49
44 47 0.28
45 1 0.01
ACGTcount: A:0.33, C:0.19, G:0.21, T:0.28
Consensus pattern (43 bp):
TTAGCGGCGCTTTTTAAAAAAACGCCGCTAAAGATCAGGACTT
Found at i:90531623 original size:129 final size:131
Alignment explanation
Indices: 90531456--90531693 Score: 340
Period size: 129 Copynumber: 1.8 Consensus size: 131
90531446 GCCGCTAAAA
*
90531456 TTAGCAGCGCTTGTTTGAAAAAATGCAGCTAAAGATCATGACCTTTAGCGGCGCTTTTTA-AAAA
1 TTAGCAGCGCTTGTTTGAAAAAACGCAGCTAAAGATCATGACCTTTAGCGGCG-TTTTTATAAAA
* * * *
90531520 AATGCCGCTAAAGACTA-GGACTTTTAGCGGCGCTTTTTTAAAAAAACGCTGCTAAAGACCAAGA
65 AACGCCACTAAAGA-TAGGGACCTTTAGCGGCGCTTTTATAAAAAAACGCTGCTAAAGACCAAGA
90531584 CTT
129 CTT
* * * *
90531587 TTAGCAGTGCTT-TTT-AAAAAACGCTGCTAAAGATCATGACTTTTAGCGGCGTTTTTATAGAAA
1 TTAGCAGCGCTTGTTTGAAAAAACGCAGCTAAAGATCATGACCTTTAGCGGCGTTTTTATAAAAA
*
90531650 GCGCCACTAAAGATAGGGACCTTTAGCGGCGCTTTTATAAAAAA
66 ACGCCACTAAAGATAGGGACCTTTAGCGGCGCTTTTATAAAAAA
90531694 CGCCGTTAAT
Statistics
Matches: 95, Mismatches: 10, Indels: 6
0.86 0.09 0.05
Matches are distributed among these distances:
128 8 0.08
129 73 0.77
130 3 0.03
131 11 0.12
ACGTcount: A:0.33, C:0.18, G:0.20, T:0.29
Consensus pattern (131 bp):
TTAGCAGCGCTTGTTTGAAAAAACGCAGCTAAAGATCATGACCTTTAGCGGCGTTTTTATAAAAA
ACGCCACTAAAGATAGGGACCTTTAGCGGCGCTTTTATAAAAAAACGCTGCTAAAGACCAAGACT
T
Found at i:90531691 original size:86 final size:86
Alignment explanation
Indices: 90531456--90531698 Score: 235
Period size: 87 Copynumber: 2.8 Consensus size: 86
90531446 GCCGCTAAAA
* * * * * *
90531456 TTAGCAGCGCTTGTTTGAAAAAATG-CAGCTAAAGATCATGACCTTTAGCGGCGCTTTTTAAAAA
1 TTAGCGGCGCTTTTTTAAAAAAACGCCA-CTAAAGACCAAGACCTTTAGCGGCGCTTTTT-AAAA
*
90531520 AATGCCGCTAAAGACTAGGACTT
64 AACGCCGCTAAAGACTAGGACTT
** * * *
90531543 TTAGCGGCGCTTTTTTAAAAAAACGCTGCTAAAGACCAAGACTTTTAGCAGTGCTTTTTAAAAAA
1 TTAGCGGCGCTTTTTTAAAAAAACGCCACTAAAGACCAAGACCTTTAGCGGCGCTTTTTAAAAAA
* *
90531608 CGCTGCTAAAGA-TCATGACTT
66 CGCCGCTAAAGACT-AGGACTT
* * * *
90531629 TTAGCGGCG--TTTTTATAGAAAGCGCCACTAAAGA-TAGGGACCTTTAGCGGCGCTTTTATAAA
1 TTAGCGGCGCTTTTTTA-AAAAAACGCCACTAAAGACCA-AGACCTTTAGCGGCGCTTTT-TAAA
90531691 AAACGCCG
63 AAACGCCG
90531699 TTAATTTGCC
Statistics
Matches: 127, Mismatches: 24, Indels: 11
0.78 0.15 0.07
Matches are distributed among these distances:
84 7 0.06
85 31 0.24
86 42 0.33
87 47 0.37
ACGTcount: A:0.33, C:0.19, G:0.21, T:0.28
Consensus pattern (86 bp):
TTAGCGGCGCTTTTTTAAAAAAACGCCACTAAAGACCAAGACCTTTAGCGGCGCTTTTTAAAAAA
CGCCGCTAAAGACTAGGACTT
Found at i:90536426 original size:9 final size:9
Alignment explanation
Indices: 90536412--90536483 Score: 63
Period size: 9 Copynumber: 7.7 Consensus size: 9
90536402 ATGTATTAGT
90536412 TAAGTTATG
1 TAAGTTATG
90536421 TAAGTTGTTATG
1 TAA---GTTATG
*
90536433 TACGTTATG
1 TAAGTTATG
*
90536442 TGAGTTATG
1 TAAGTTATG
*
90536451 TAAATTATG
1 TAAGTTATG
* *
90536460 TAAGTTTTA
1 TAAGTTATG
*
90536469 TGAGTTATG
1 TAAGTTATG
90536478 TAAGTT
1 TAAGTT
90536484 GTTATGTAAA
Statistics
Matches: 48, Mismatches: 12, Indels: 6
0.73 0.18 0.09
Matches are distributed among these distances:
9 40 0.83
12 8 0.17
ACGTcount: A:0.29, C:0.01, G:0.22, T:0.47
Consensus pattern (9 bp):
TAAGTTATG
Found at i:90536458 original size:18 final size:18
Alignment explanation
Indices: 90536427--90536501 Score: 60
Period size: 18 Copynumber: 4.0 Consensus size: 18
90536417 TATGTAAGTT
** *
90536427 GTTATGTACGTTATGTGA
1 GTTATGTAAATTATGTAA
90536445 GTTATGTAAATTATGTAA
1 GTTATGTAAATTATGTAA
* * * *
90536463 GTTTTATGAGTTATGTAA
1 GTTATGTAAATTATGTAA
90536481 GTTGTTATGTAAATTATGTAA
1 ---GTTATGTAAATTATGTAA
90536502 CTTTAAACTA
Statistics
Matches: 43, Mismatches: 11, Indels: 3
0.75 0.19 0.05
Matches are distributed among these distances:
18 29 0.67
21 14 0.33
ACGTcount: A:0.31, C:0.01, G:0.21, T:0.47
Consensus pattern (18 bp):
GTTATGTAAATTATGTAA
Found at i:90536459 original size:39 final size:38
Alignment explanation
Indices: 90536416--90536501 Score: 113
Period size: 39 Copynumber: 2.2 Consensus size: 38
90536406 ATTAGTTAAG
90536416 TTATGTAAGTTGTTATGTACGTTATGT-G-AGTTATGTAAA
1 TTATGTAAGTT-TTATG-A-GTTATGTAGTAGTTATGTAAA
*
90536455 TTATGTAAGTTTTATGAGTTATGTAAGTTGTTATGTAAA
1 TTATGTAAGTTTTATGAGTTATGT-AGTAGTTATGTAAA
90536494 TTATGTAA
1 TTATGTAA
90536502 CTTTAAACTA
Statistics
Matches: 43, Mismatches: 1, Indels: 6
0.86 0.02 0.12
Matches are distributed among these distances:
36 7 0.16
37 1 0.02
38 6 0.14
39 29 0.67
ACGTcount: A:0.30, C:0.01, G:0.21, T:0.48
Consensus pattern (38 bp):
TTATGTAAGTTTTATGAGTTATGTAGTAGTTATGTAAA
Found at i:90536472 original size:27 final size:27
Alignment explanation
Indices: 90536428--90536480 Score: 79
Period size: 27 Copynumber: 2.0 Consensus size: 27
90536418 ATGTAAGTTG
* *
90536428 TTATGTACGTTATGTGAGTTATGTAAA
1 TTATGTAAGTTATATGAGTTATGTAAA
*
90536455 TTATGTAAGTTTTATGAGTTATGTAA
1 TTATGTAAGTTATATGAGTTATGTAA
90536481 GTTGTTATGT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.30, C:0.02, G:0.21, T:0.47
Consensus pattern (27 bp):
TTATGTAAGTTATATGAGTTATGTAAA
Found at i:90536953 original size:241 final size:241
Alignment explanation
Indices: 90536523--90536976 Score: 881
Period size: 241 Copynumber: 1.9 Consensus size: 241
90536513 ATGATAAATG
90536523 CTTTTTCCAAGTCTTTTTGAATTTTTTAAGATTCATCATACGTGGCGTTGTTACACCTAGGGAGG
1 CTTTTTCCAAGTCTTTTTGAATTTTTTAAGATTCATCATACGTGGCGTTGTTACACCTAGGGAGG
*
90536588 ATCCATTATATCTTACAGCTCGATATAAGGCAACCCGTCAGGTTTCCAGCCTATATACTTTGAAT
66 ATCCATTACATCTTACAGCTCGATATAAGGCAACCCGTCAGGTTTCCAGCCTATATACTTTGAAT
90536653 CTTTAAAATATTTAAAATAAGGTTGGAGAGAAGGTCAGCTATTGTTGTAATTTTAATGGACAAGC
131 CTTTAAAATATTTAAAATAAGGTTGGAGAGAAGGTCAGCTATTGTTGTAATTTTAATGGACAAGC
*
90536718 AAGCTACATGGTAATAAATATTCAATAGTAAATGAGCGCGATAGAA
196 AAGATACATGGTAATAAATATTCAATAGTAAATGAGCGCGATAGAA
*
90536764 CTTTTTTCAAGTCTTTTTGAATTTTTTAAGATTCATCATACGTGGCGTTGTTACACCTAGGGAGG
1 CTTTTTCCAAGTCTTTTTGAATTTTTTAAGATTCATCATACGTGGCGTTGTTACACCTAGGGAGG
90536829 ATCCATTACATCTTACAGCTCGATATAAGGCAACCCGTCAGGTTTCCAGCCTATATACTTTGAAT
66 ATCCATTACATCTTACAGCTCGATATAAGGCAACCCGTCAGGTTTCCAGCCTATATACTTTGAAT
90536894 CTTTAAAATATTTAAAATAAGGTTGGAGAGAAGGTCAGCTATTGTTGTAATTTTAATGGACAAGC
131 CTTTAAAATATTTAAAATAAGGTTGGAGAGAAGGTCAGCTATTGTTGTAATTTTAATGGACAAGC
90536959 AAGATACATGGTAATAAA
196 AAGATACATGGTAATAAA
90536977 ATTAATTCAT
Statistics
Matches: 210, Mismatches: 3, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
241 210 1.00
ACGTcount: A:0.32, C:0.15, G:0.19, T:0.34
Consensus pattern (241 bp):
CTTTTTCCAAGTCTTTTTGAATTTTTTAAGATTCATCATACGTGGCGTTGTTACACCTAGGGAGG
ATCCATTACATCTTACAGCTCGATATAAGGCAACCCGTCAGGTTTCCAGCCTATATACTTTGAAT
CTTTAAAATATTTAAAATAAGGTTGGAGAGAAGGTCAGCTATTGTTGTAATTTTAATGGACAAGC
AAGATACATGGTAATAAATATTCAATAGTAAATGAGCGCGATAGAA
Found at i:90537125 original size:23 final size:23
Alignment explanation
Indices: 90537099--90537148 Score: 100
Period size: 23 Copynumber: 2.2 Consensus size: 23
90537089 GTTCAAGTTT
90537099 ATTTAAAGGGCTGCAATTCATAC
1 ATTTAAAGGGCTGCAATTCATAC
90537122 ATTTAAAGGGCTGCAATTCATAC
1 ATTTAAAGGGCTGCAATTCATAC
90537145 ATTT
1 ATTT
90537149 GATTAATGTT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 27 1.00
ACGTcount: A:0.34, C:0.16, G:0.16, T:0.34
Consensus pattern (23 bp):
ATTTAAAGGGCTGCAATTCATAC
Found at i:90538212 original size:14 final size:14
Alignment explanation
Indices: 90538190--90538227 Score: 60
Period size: 14 Copynumber: 2.7 Consensus size: 14
90538180 TTAGTATACA
90538190 ATATAATATTACTTC
1 ATAT-ATATTACTTC
90538205 ATATATATTACTTC
1 ATATATATTACTTC
90538219 ATATA-ATTA
1 ATATATATTA
90538228 TTATAGTAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
13 4 0.17
14 15 0.65
15 4 0.17
ACGTcount: A:0.42, C:0.11, G:0.00, T:0.47
Consensus pattern (14 bp):
ATATATATTACTTC
Found at i:90539744 original size:19 final size:19
Alignment explanation
Indices: 90539720--90539757 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
90539710 GGTCGTCCAC
90539720 TCGGAGTCTTCAACGGCAG
1 TCGGAGTCTTCAACGGCAG
90539739 TCGGAGTCTTCAACGGCAG
1 TCGGAGTCTTCAACGGCAG
90539758 AAGGATATTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.21, C:0.26, G:0.32, T:0.21
Consensus pattern (19 bp):
TCGGAGTCTTCAACGGCAG
Found at i:90539814 original size:19 final size:20
Alignment explanation
Indices: 90539775--90539826 Score: 79
Period size: 19 Copynumber: 2.6 Consensus size: 20
90539765 TTTTGATTTT
*
90539775 GATTTGGGGAAATATTTAGG
1 GATTTGGGGAAATAGTTAGG
*
90539795 GATTAGGGGAAA-AGTTAGG
1 GATTTGGGGAAATAGTTAGG
90539814 GATTTGGGGAAAT
1 GATTTGGGGAAAT
90539827 TTGGATGGGG
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
19 17 0.61
20 11 0.39
ACGTcount: A:0.33, C:0.00, G:0.38, T:0.29
Consensus pattern (20 bp):
GATTTGGGGAAATAGTTAGG
Found at i:90541142 original size:29 final size:30
Alignment explanation
Indices: 90541106--90541162 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
90541096 ATAGTTTAGA
* *
90541106 TCATGGG-TTATGATTTAGGGGTTAGGCGG
1 TCATGGGTTTATGATTTAAGGGCTAGGCGG
90541135 TCATGGGTTTATGATTTAAGGGCTAGGC
1 TCATGGGTTTATGATTTAAGGGCTAGGC
90541163 TTCATATTTT
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
29 7 0.28
30 18 0.72
ACGTcount: A:0.19, C:0.09, G:0.37, T:0.35
Consensus pattern (30 bp):
TCATGGGTTTATGATTTAAGGGCTAGGCGG
Found at i:90541739 original size:41 final size:41
Alignment explanation
Indices: 90541693--90541789 Score: 97
Period size: 41 Copynumber: 2.4 Consensus size: 41
90541683 CGGCACTTTT
* *
90541693 ACAAAACCGCCACTATAGCTCAACCTTTTGTGGCGTTTGGA
1 ACAAAACCGCCACTATAGCTCAACCTTTTGCGGCATTTGGA
*** * *** *
90541734 ACAAAAGTACCACTATATCTCAGTTTTTTGCGGCATTTTGA
1 ACAAAACCGCCACTATAGCTCAACCTTTTGCGGCATTTGGA
90541775 A-AAAACCGCCACTAT
1 ACAAAACCGCCACTAT
90541790 TTCTCAGTTT
Statistics
Matches: 43, Mismatches: 13, Indels: 1
0.75 0.23 0.02
Matches are distributed among these distances:
40 11 0.26
41 32 0.74
ACGTcount: A:0.31, C:0.25, G:0.15, T:0.29
Consensus pattern (41 bp):
ACAAAACCGCCACTATAGCTCAACCTTTTGCGGCATTTGGA
Found at i:90541795 original size:40 final size:41
Alignment explanation
Indices: 90541743--90541846 Score: 149
Period size: 40 Copynumber: 2.6 Consensus size: 41
90541733 AACAAAAGTA
* *
90541743 CCACTATATCTCAGTTTTTTGCGGCATTTT-GA-AAAAACCG
1 CCACTATTTCTCAGTTTTTAGCGGCATTTTGGATAAAAA-CG
*
90541783 CCACTATTTCTCAGTTTTTAGCGGCGTTTTGGATAAAAACG
1 CCACTATTTCTCAGTTTTTAGCGGCATTTTGGATAAAAACG
*
90541824 CCACTATTGCTCAGTTTTTAGCG
1 CCACTATTTCTCAGTTTTTAGCG
90541847 CGTTTTGTTT
Statistics
Matches: 58, Mismatches: 4, Indels: 3
0.89 0.06 0.05
Matches are distributed among these distances:
40 27 0.47
41 26 0.45
42 5 0.09
ACGTcount: A:0.24, C:0.22, G:0.17, T:0.37
Consensus pattern (41 bp):
CCACTATTTCTCAGTTTTTAGCGGCATTTTGGATAAAAACG
Found at i:90544159 original size:35 final size:36
Alignment explanation
Indices: 90544100--90544167 Score: 120
Period size: 35 Copynumber: 1.9 Consensus size: 36
90544090 TTTCTGCCGT
*
90544100 TCCAAATTCCCACCCCCTCTCCCAATTTTTCCTCGG
1 TCCAAATTCCCACCCCCTCCCCCAATTTTTCCTCGG
90544136 TCCAAATTCCCA-CCCCTCCCCCAATTTTTCCT
1 TCCAAATTCCCACCCCCTCCCCCAATTTTTCCT
90544168 TTCTTCTTTA
Statistics
Matches: 31, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
35 19 0.61
36 12 0.39
ACGTcount: A:0.18, C:0.49, G:0.03, T:0.31
Consensus pattern (36 bp):
TCCAAATTCCCACCCCCTCCCCCAATTTTTCCTCGG
Found at i:90544296 original size:21 final size:21
Alignment explanation
Indices: 90544284--90544324 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
90544274 CACGACCACA
*
90544284 GTTCCACAAGCCACAAACAAG
1 GTTCCACAAGCCACAACCAAG
90544305 GTTCCACAAGCCACAACCAA
1 GTTCCACAAGCCACAACCAA
90544325 CGTCAGTTGT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.41, C:0.37, G:0.12, T:0.10
Consensus pattern (21 bp):
GTTCCACAAGCCACAACCAAG
Found at i:90544862 original size:45 final size:45
Alignment explanation
Indices: 90544792--90544882 Score: 137
Period size: 45 Copynumber: 2.0 Consensus size: 45
90544782 AATTAAATTA
* ** *
90544792 ACCATTATTAATAGGTTTAGTTTCATTTAAGTCATGCATATATAT
1 ACCATTATTAACAGGTTTAACTTCATTTAAGTCAAGCATATATAT
*
90544837 ACCATTATTAGCAGGTTTAACTTCATTTAAGTCAAGCATATATAT
1 ACCATTATTAACAGGTTTAACTTCATTTAAGTCAAGCATATATAT
90544882 A
1 A
90544883 TATTAATGCA
Statistics
Matches: 41, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
45 41 1.00
ACGTcount: A:0.35, C:0.13, G:0.11, T:0.41
Consensus pattern (45 bp):
ACCATTATTAACAGGTTTAACTTCATTTAAGTCAAGCATATATAT
Found at i:90545135 original size:184 final size:184
Alignment explanation
Indices: 90544826--90545346 Score: 920
Period size: 184 Copynumber: 2.8 Consensus size: 184
90544816 ATTTAAGTCA
* * * * * *
90544826 TGCATATATATACCATTATTAGCAGGTTTAACTTCATTTAAGTCAAGCATATATATATATTAATG
1 TGCATATATATACCATAATTAGCAGATTTAGCTTGAGTTAAGCCAAGCATATATATATATTAATG
90544891 CATATGTATACTGTTTAGCTTCATTTAATATTAAGGCATATATATAAAATTTTGCTTTATTTAAG
66 CATATGTATACTGTTTAGCTTCATTTAATATTAAGGCATATATATAAAATTTTGCTTTATTTAAG
90544956 TCATGCGCATAATGCATATATATTCCATTTAACTTAATTTAAGTCATGCATAAT
131 TCATGCGCATAATGCATATATATTCCATTTAACTTAATTTAAGTCATGCATAAT
90545010 TGCATATATATACCATAATTAGCAGATTTAGCTTGAGTTAAGCCAAGCATATATATATATTAATG
1 TGCATATATATACCATAATTAGCAGATTTAGCTTGAGTTAAGCCAAGCATATATATATATTAATG
90545075 CATATGTATACTGTTTAGCTTCATTTAATATTAAGGCATATATATAAAATTTTGCTTTATTTAAG
66 CATATGTATACTGTTTAGCTTCATTTAATATTAAGGCATATATATAAAATTTTGCTTTATTTAAG
90545140 TCATGCGCATAATGCATATATATTCCATTTAACTTAATTTAAGTCATGCATAAT
131 TCATGCGCATAATGCATATATATTCCATTTAACTTAATTTAAGTCATGCATAAT
90545194 TGCATATATATACCATAATTAGCAGATTTAGCTTGAGTTAAGCCAAGCATATATATATATTAATG
1 TGCATATATATACCATAATTAGCAGATTTAGCTTGAGTTAAGCCAAGCATATATATATATTAATG
* ** *
90545259 CATATGTATACTGTTTAGCTTCATTTAATATTAATGCATATATATAATGTTTTGCTTCATTTAAG
66 CATATGTATACTGTTTAGCTTCATTTAATATTAAGGCATATATATAAAATTTTGCTTTATTTAAG
*
90545324 TCATACGCATATAT--ATATATATT
131 TCATGCGCATA-ATGCATATATATT
90545347 AATGCATTAT
Statistics
Matches: 325, Mismatches: 11, Indels: 3
0.96 0.03 0.01
Matches are distributed among these distances:
183 9 0.03
184 314 0.97
185 2 0.01
ACGTcount: A:0.36, C:0.12, G:0.11, T:0.41
Consensus pattern (184 bp):
TGCATATATATACCATAATTAGCAGATTTAGCTTGAGTTAAGCCAAGCATATATATATATTAATG
CATATGTATACTGTTTAGCTTCATTTAATATTAAGGCATATATATAAAATTTTGCTTTATTTAAG
TCATGCGCATAATGCATATATATTCCATTTAACTTAATTTAAGTCATGCATAAT
Found at i:90545297 original size:36 final size:36
Alignment explanation
Indices: 90545250--90545322 Score: 119
Period size: 36 Copynumber: 2.0 Consensus size: 36
90545240 GCATATATAT
* *
90545250 ATATTAATGCATATGTATACTGTTTAGCTTCATTTA
1 ATATTAATGCATATATATAATGTTTAGCTTCATTTA
*
90545286 ATATTAATGCATATATATAATGTTTTGCTTCATTTA
1 ATATTAATGCATATATATAATGTTTAGCTTCATTTA
90545322 A
1 A
90545323 GTCATACGCA
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
36 34 1.00
ACGTcount: A:0.33, C:0.10, G:0.10, T:0.48
Consensus pattern (36 bp):
ATATTAATGCATATATATAATGTTTAGCTTCATTTA
Found at i:90545334 original size:36 final size:36
Alignment explanation
Indices: 90545250--90545340 Score: 105
Period size: 36 Copynumber: 2.5 Consensus size: 36
90545240 GCATATATAT
* * *
90545250 ATATTAATGCATATGTATACTGTTTAGCTTCATTTA
1 ATATTAACGCATATATATAATGTTTAGCTTCATTTA
* *
90545286 ATATTAATGCATATATATAATGTTTTGCTTCATTTA
1 ATATTAACGCATATATATAATGTTTAGCTTCATTTA
90545322 AGTCA-T-ACGCATATATATA
1 A-T-ATTAACGCATATATATA
90545341 TATATTAATG
Statistics
Matches: 49, Mismatches: 4, Indels: 4
0.86 0.07 0.07
Matches are distributed among these distances:
36 46 0.94
37 2 0.04
38 1 0.02
ACGTcount: A:0.34, C:0.11, G:0.10, T:0.45
Consensus pattern (36 bp):
ATATTAACGCATATATATAATGTTTAGCTTCATTTA
Found at i:90545411 original size:16 final size:17
Alignment explanation
Indices: 90545390--90545434 Score: 56
Period size: 18 Copynumber: 2.6 Consensus size: 17
90545380 TTAAGCCATG
90545390 CATATATTATAT-TATA
1 CATATATTATATATATA
*
90545406 CATATATATAGATATATA
1 CATATAT-TATATATATA
*
90545424 TATATATTATA
1 CATATATTATA
90545435 AAAGCCAATT
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
16 7 0.29
17 7 0.29
18 10 0.42
ACGTcount: A:0.47, C:0.04, G:0.02, T:0.47
Consensus pattern (17 bp):
CATATATTATATATATA
Found at i:90548874 original size:21 final size:22
Alignment explanation
Indices: 90548850--90548892 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
90548840 TTACATGTAA
* *
90548850 TTATTTAG-TAAATTATATTGT
1 TTATGTAGTTAAATAATATTGT
90548871 TTATGTAGTTAAATAATATTGT
1 TTATGTAGTTAAATAATATTGT
90548893 AATTCGTTTA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
21 7 0.37
22 12 0.63
ACGTcount: A:0.35, C:0.00, G:0.12, T:0.53
Consensus pattern (22 bp):
TTATGTAGTTAAATAATATTGT
Found at i:90563058 original size:12 final size:12
Alignment explanation
Indices: 90563041--90563065 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
90563031 GACTTCTAGG
90563041 ATATTCACATCC
1 ATATTCACATCC
90563053 ATATTCACATCC
1 ATATTCACATCC
90563065 A
1 A
90563066 CTGTTTATCT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.36, C:0.32, G:0.00, T:0.32
Consensus pattern (12 bp):
ATATTCACATCC
Found at i:90563120 original size:21 final size:22
Alignment explanation
Indices: 90563078--90563122 Score: 65
Period size: 22 Copynumber: 2.1 Consensus size: 22
90563068 GTTTATCTTT
90563078 ATATCATAACTATAAATTCTAC
1 ATATCATAACTATAAATTCTAC
* *
90563100 ATATCATACCTAT-AGTTCTAC
1 ATATCATAACTATAAATTCTAC
90563121 AT
1 AT
90563123 GCCTCACATA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 9 0.43
22 12 0.57
ACGTcount: A:0.40, C:0.20, G:0.02, T:0.38
Consensus pattern (22 bp):
ATATCATAACTATAAATTCTAC
Found at i:90563571 original size:49 final size:49
Alignment explanation
Indices: 90563374--90563618 Score: 146
Period size: 49 Copynumber: 5.1 Consensus size: 49
90563364 GCACCACCAT
* * * *
90563374 CTTTTCTGTAAGCCTCT-CTCATGCGTTTGGGAGCAGAGTAA-TCTTATTA
1 CTTTTC-GTAAGCCTCTCCCCATGCATCTGGAAGCAGAGTAACT-TTATTA
* * * * * * * * *
90563423 CCTTTCATAAACCTCCCCCCAAGCATTTGGGAG-A-AGTCATTTTATTA
1 CTTTTCGTAAGCCTCTCCCCATGCATCTGGAAGCAGAGTAACTTTATTA
* * * * * * ** * *
90563470 -TCTTCCTTAAGCCTCCCCCCATGCATCTAG-AGTAGGGCCATTTTATTT
1 CT-TTTCGTAAGCCTCTCCCCATGCATCTGGAAGCAGAGTAACTTTATTA
** *
90563518 CTTTTCGTAAGCCTC-CCCTCATGTGTCTTGG-AGCAGGGTAACTTTATTA
1 CTTTTCGTAAGCCTCTCCC-CATGCATC-TGGAAGCAGAGTAACTTTATTA
*
90563567 CTTTTCGTAAGCCTCTCCCCATGCATCTGGAAGCAGAGTCACTTTATTA
1 CTTTTCGTAAGCCTCTCCCCATGCATCTGGAAGCAGAGTAACTTTATTA
90563616 CTT
1 CTT
90563619 ATAGATTTTC
Statistics
Matches: 154, Mismatches: 32, Indels: 20
0.75 0.16 0.10
Matches are distributed among these distances:
46 2 0.01
47 36 0.23
48 39 0.25
49 74 0.48
50 3 0.02
ACGTcount: A:0.21, C:0.27, G:0.17, T:0.36
Consensus pattern (49 bp):
CTTTTCGTAAGCCTCTCCCCATGCATCTGGAAGCAGAGTAACTTTATTA
Found at i:90570240 original size:22 final size:22
Alignment explanation
Indices: 90570215--90570256 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
90570205 TTAGTTAAAA
90570215 TAAC-ATTCTAATATTTTTATTT
1 TAACTATTCTAAT-TTTTTATTT
*
90570237 TAACTATTTTAATTTTTTAT
1 TAACTATTCTAATTTTTTAT
90570257 AATTACATTT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
22 11 0.61
23 7 0.39
ACGTcount: A:0.31, C:0.07, G:0.00, T:0.62
Consensus pattern (22 bp):
TAACTATTCTAATTTTTTATTT
Found at i:90573272 original size:2 final size:2
Alignment explanation
Indices: 90573265--90573296 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
90573255 GGATTTAGGG
90573265 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
90573297 AAATGGTGTT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
GA
Found at i:90575639 original size:15 final size:15
Alignment explanation
Indices: 90575619--90575647 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
90575609 CTAGAATGTG
90575619 ATAATGCACTTCTAA
1 ATAATGCACTTCTAA
90575634 ATAATGCACTTCTA
1 ATAATGCACTTCTA
90575648 GTCGAGACTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.38, C:0.21, G:0.07, T:0.34
Consensus pattern (15 bp):
ATAATGCACTTCTAA
Found at i:90576955 original size:30 final size:32
Alignment explanation
Indices: 90576904--90576966 Score: 87
Period size: 30 Copynumber: 2.0 Consensus size: 32
90576894 AGACTATATC
90576904 TTTATAATTTTTAAAAGGTTAAA-T-TAATTT
1 TTTATAATTTTTAAAAGGTTAAAGTGTAATTT
*
90576934 TTTAT-ATTTTTAAAGGAGTTAAAGTGTAATTT
1 TTTATAATTTTTAAAAG-GTTAAAGTGTAATTT
90576966 T
1 T
90576967 ACCTTTTATT
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
29 10 0.34
30 11 0.38
31 1 0.03
32 7 0.24
ACGTcount: A:0.37, C:0.00, G:0.11, T:0.52
Consensus pattern (32 bp):
TTTATAATTTTTAAAAGGTTAAAGTGTAATTT
Found at i:90576967 original size:30 final size:29
Alignment explanation
Indices: 90576904--90576966 Score: 74
Period size: 29 Copynumber: 2.1 Consensus size: 29
90576894 AGACTATATC
90576904 TTTATAATTTTTAAAAGGTTAAATTAATT
1 TTTATAATTTTTAAAAGGTTAAATTAATT
*
90576933 TTT-TATATTTTTAAAGGAGTTAAAGTGTAATT
1 TTTATA-ATTTTTAAAAG-GTTAAA-T-TAATT
90576965 TT
1 TT
90576967 ACCTTTTATT
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
28 2 0.07
29 13 0.45
30 6 0.21
31 1 0.03
32 7 0.24
ACGTcount: A:0.37, C:0.00, G:0.11, T:0.52
Consensus pattern (29 bp):
TTTATAATTTTTAAAAGGTTAAATTAATT
Found at i:90587402 original size:89 final size:88
Alignment explanation
Indices: 90587201--90587497 Score: 290
Period size: 89 Copynumber: 3.4 Consensus size: 88
90587191 ACGTGAGCAA
* * *
90587201 AGGCTCAACTTACTTCTCGCAATATGAGTTGATTTTTGAAAACA-GAATTTGCAAAACAGATTTT
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAACATAAATTTGCAAAACAGATTTT
*
90587265 AAAAATACCTCGGCATGTGACCCG
66 AAAAATACCTCAG-ATGTGACCCG
* * *
90587289 AGGCTCAACTCACCTATCGTAATATGAGTTGATTTTTGAAAAGCATAAATTTAG-AAAA-ATATT
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAA-CATAAATTT-GCAAAACAGATT
* * *
90587352 AATTGAAAATATCTCAG-TGTGCCCCG
64 --TTAAAAATACCTCAGATGTGACCCG
* *
90587378 AGGCTCAACTCACCTCTCGCAATATGAGTGGATTTTTGAAAAACATAAA-TTG---AACAGA-AT
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTG-AAAACATAAATTTGCAAAACAGATTT
* * * * ***
90587438 TGAAAATACATCA-ACGTGTCTTA
65 TAAAAATACCTCAGATGTGACCCG
*
90587461 AGGCTCAACTCACCTATCGCAATATGAGTTGATTTTT
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTT
90587498 TTGAAAAATA
Statistics
Matches: 177, Mismatches: 24, Indels: 21
0.80 0.11 0.09
Matches are distributed among these distances:
83 51 0.29
85 2 0.01
86 2 0.01
87 1 0.01
88 40 0.23
89 55 0.31
90 13 0.07
91 13 0.07
ACGTcount: A:0.35, C:0.18, G:0.16, T:0.30
Consensus pattern (88 bp):
AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAACATAAATTTGCAAAACAGATTTT
AAAAATACCTCAGATGTGACCCG
Found at i:90587555 original size:73 final size:73
Alignment explanation
Indices: 90587436--90587577 Score: 284
Period size: 73 Copynumber: 1.9 Consensus size: 73
90587426 ATTGAACAGA
90587436 ATTGAAAATACATCAACGTGTCTTAAGGCTCAACTCACCTATCGCAATATGAGTTGATTTTTTTG
1 ATTGAAAATACATCAACGTGTCTTAAGGCTCAACTCACCTATCGCAATATGAGTTGATTTTTTTG
90587501 AAAAATAG
66 AAAAATAG
90587509 ATTGAAAATACATCAACGTGTCTTAAGGCTCAACTCACCTATCGCAATATGAGTTGATTTTTTTG
1 ATTGAAAATACATCAACGTGTCTTAAGGCTCAACTCACCTATCGCAATATGAGTTGATTTTTTTG
90587574 AAAA
66 AAAA
90587578 GCATAAATTA
Statistics
Matches: 69, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
73 69 1.00
ACGTcount: A:0.35, C:0.17, G:0.15, T:0.33
Consensus pattern (73 bp):
ATTGAAAATACATCAACGTGTCTTAAGGCTCAACTCACCTATCGCAATATGAGTTGATTTTTTTG
AAAAATAG
Found at i:90587752 original size:90 final size:91
Alignment explanation
Indices: 90587534--90587752 Score: 282
Period size: 90 Copynumber: 2.4 Consensus size: 91
90587524 ACGTGTCTTA
* * **
90587534 AGGCTCAACTCACCTATCGCAATATGAGTTGATTTTTTTGAAAAGCATAAATTAAAAAACATTAA
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTTGAAAAACATAAATTAAAAAACAGAAA
90587599 TTGAAAATACCTCAGCATGTGATCCTG
65 TTGAAAATACCTCAGCATGTGATCCTG
* * * * **
90587626 AGGCTCAATTCACCTCTAGCAATATGAATTGA-TTTTTGAAAAACATAAATTGAAAAATGGAAAT
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAAACATAAATTAAAAAACAGAAAT
* *
90587690 TGTAAATACCTC-GATATGTGA-CCTG
66 TGAAAATACCTCAG-CATGTGATCCTG
*
90587715 AGGTTCAACTCACCTCTCGCAATATGAGTTGATTTTTT
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTT
90587753 TGATGAACAG
Statistics
Matches: 109, Mismatches: 16, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
89 33 0.30
90 48 0.44
92 28 0.26
ACGTcount: A:0.36, C:0.17, G:0.15, T:0.32
Consensus pattern (91 bp):
AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAAACATAAATTAAAAAACAGAAAT
TGAAAATACCTCAGCATGTGATCCTG
Found at i:90587916 original size:78 final size:76
Alignment explanation
Indices: 90587763--90587956 Score: 197
Period size: 78 Copynumber: 2.6 Consensus size: 76
90587753 TGATGAACAG
* * * *
90587763 ACCTCTCGCAATATGAGTTGAGTTTTGAAACAA-A--AATT-AACAATACCTCAGC--GTG-TCC
1 ACCTCTCACAATATGAGTTAATTTTTGAAA-AACATTAATTGAA-AATACCTCGGCATGTGATCC
*
90587821 CGAGGCTCAACTC
64 TGAGGCTCAACTC
*
90587834 ACCTCTCACAATATGAGTTAATTTTTTTTAAAAACATTAATTGAAAATACCTCGGCATGTGATCC
1 ACCTCTCACAATATGAGTTAA--TTTTTGAAAAACATTAATTGAAAATACCTCGGCATGTGATCC
*
90587899 TGAGGCTCAATTC
64 TGAGGCTCAACTC
* * *
90587912 ACCTCT-AGCAATATGAATTGATTTTTGAAAAACATAAATTGAAAA
1 ACCTCTCA-CAATATGAGTTAATTTTTGAAAAACATTAATTGAAAA
90587957 ATGGAAATTG
Statistics
Matches: 102, Mismatches: 11, Indels: 15
0.80 0.09 0.12
Matches are distributed among these distances:
71 19 0.19
72 2 0.02
73 8 0.08
75 14 0.14
76 24 0.24
77 4 0.04
78 31 0.30
ACGTcount: A:0.36, C:0.20, G:0.14, T:0.30
Consensus pattern (76 bp):
ACCTCTCACAATATGAGTTAATTTTTGAAAAACATTAATTGAAAATACCTCGGCATGTGATCCTG
AGGCTCAACTC
Found at i:90588152 original size:78 final size:74
Alignment explanation
Indices: 90587961--90588165 Score: 199
Period size: 71 Copynumber: 2.8 Consensus size: 74
90587951 TGAAAAATGG
* ** * * *
90587961 AAATTGTAAATACCTCGATATGTGA-CCTGAGGTTCAACTCACCTCTCGCAATATGAGTTGAGTT
1 AAATTGAAAATACCTCGGCATGTGATCCTGAGGCTCAACTCACCTCTCACAATATGAGTTAAGTT
90588025 TTGAAACAA
66 TTGAAACAA
* *
90588034 AAATT-AACAATACCTCAGC--GTG-TCCCGAGGCTCAACTCACCTCTCACAATATGAGTTAATT
1 AAATTGAA-AATACCTCGGCATGTGATCCTGAGGCTCAACTCACCTCTCACAATATGAGTTAA--
* *
90588095 TTTTTTAAA-AA
63 GTTTTGAAACAA
*
90588106 CATTAATTGAAAATACCTCGGCATGTGATCCTGAGGCTCAATTCACCTCT-AGCAATATGA
1 -A--AATTGAAAATACCTCGGCATGTGATCCTGAGGCTCAACTCACCTCTCA-CAATATGA
90588166 ATGGATTTTT
Statistics
Matches: 107, Mismatches: 13, Indels: 19
0.77 0.09 0.14
Matches are distributed among these distances:
71 35 0.33
72 3 0.03
73 21 0.20
75 14 0.13
76 2 0.02
77 4 0.04
78 28 0.26
ACGTcount: A:0.33, C:0.22, G:0.15, T:0.30
Consensus pattern (74 bp):
AAATTGAAAATACCTCGGCATGTGATCCTGAGGCTCAACTCACCTCTCACAATATGAGTTAAGTT
TTGAAACAA
Found at i:90588174 original size:78 final size:75
Alignment explanation
Indices: 90587962--90589141 Score: 353
Period size: 73 Copynumber: 15.9 Consensus size: 75
90587952 GAAAAATGGA
* ** * * *
90587962 AATTGTAAATACCTCGATATGTGA-CCTGAGGTTCAACTCACCTCTCGCAATATGAGTTGAGTTT
1 AATTGAAAATACCTCGGCATGTGATCCTGAGGCTCAACTCACCTCTAGCAATATGAGTTGATTTT
90588026 TGAAACAA-A-
66 TGAAA-AACAT
* * *
90588035 AATT-AACAATACCTCAGC--GTG-TCCCGAGGCTCAACTCACCTCTCA-CAATATGAGTTAATT
1 AATTGAA-AATACCTCGGCATGTGATCCTGAGGCTCAACTCACCTCT-AGCAATATGAGTTGA--
*
90588095 TTTTTTAAAAACATT
62 TTTTTGAAAAACA-T
* * *
90588110 AATTGAAAATACCTCGGCATGTGATCCTGAGGCTCAATTCACCTCTAGCAATATGAATGGATTTT
1 AATTGAAAATACCTCGGCATGTGATCCTGAGGCTCAACTCACCTCTAGCAATATGAGTTGATTTT
90588175 TGAAAAACAT
66 TGAAAAACAT
* * * * ** * * **
90588185 AAATTGAAAA-A---CGGAAATTGTAAACACCTTGACATGTGACCTGAGGTTCAACTC-ACCTCT
1 -AATTGAAAATACCTCGG-CA-TGT-GA-TCC-TG--A-G-G--CTCA-ACTCACCTCTAGC-AA
** *
90588245 TGCAATAGAGTTGATTTTTTTGATGAACAAA
52 T---AT-GAGTTGATT--TTTGAAAAAC-AT
* * *
90588276 AATT-AAAACTACCTCAGC--GTG-TCCTGAGGTTCAACTCACCTCTCGCAATATGAGTTGATTT
1 AATTGAAAA-TACCTCGGCATGTGATCCTGAGGCTCAACTCACCTCTAGCAATATGAGTTGA--T
90588337 TTTTG-AAAA-AT
63 TTTTGAAAAACAT
* * * * * * *
90588348 AGATTGAAAATACATC--AACGTG-TCTTAAGGCTCAACTCACCTATCGCAATATGAGTTGATTT
1 A-ATTGAAAATACCTCGGCATGTGATCCTGAGGCTCAACTCACCTCTAGCAATATGAGTTGA--T
90588410 TTTTG-AAAA-AT
63 TTTTGAAAAACAT
* * * * * * *
90588421 AGATTGAAAATACATC--AACGTG-TCTTAAGGCTCAACTCACCTATCGCAATATGAGTTGATTT
1 A-ATTGAAAATACCTCGGCATGTGATCCTGAGGCTCAACTCACCTCTAGCAATATGAGTTGA--T
90588483 TTTTG-AAAA-AT
63 TTTTGAAAAACAT
* * * * * * *
90588494 AGATTGAAAATACATC--AACGTG-TCTTAAGGCTCAACTCACCTATCGCAATATGAGTTGATTT
1 A-ATTGAAAATACCTCGGCATGTGATCCTGAGGCTCAACTCACCTCTAGCAATATGAGTTGA--T
90588556 TTTTG-AAAA-AT
63 TTTTGAAAAACAT
* * * * * * *
90588567 AGATTGAAAATACATC--AACGTG-TCTTAAGGCTCAACTCACCTATCGCAATATGAGTTGATTT
1 A-ATTGAAAATACCTCGGCATGTGATCCTGAGGCTCAACTCACCTCTAGCAATATGAGTTGA--T
90588629 TTTTG-AAAA-AT
63 TTTTGAAAAACAT
* * * * * * *
90588640 AGATTGAAAATACATC--AACGTG-TCTTAAGGCTCAACTCACCTATCGCAATATGAGTTGATTT
1 A-ATTGAAAATACCTCGGCATGTGATCCTGAGGCTCAACTCACCTCTAGCAATATGAGTTGA--T
90588702 TTTTG-AAAA-AT
63 TTTTGAAAAACAT
* * * * * * *
90588713 AGATTGAAAATACATC--AACGTG-TCTTAAGGCTCAACTCACCTATCGCAATATGAGTTGATTT
1 A-ATTGAAAATACCTCGGCATGTGATCCTGAGGCTCAACTCACCTCTAGCAATATGAGTTGA--T
90588775 TTTTG-AAAA-AT
63 TTTTGAAAAACAT
* * * * * * *
90588786 AGATTGAAAATACATC--AACGTG-TCTTAAGGCTCAACTCACCTATCGCAATATGAGTTGATTT
1 A-ATTGAAAATACCTCGGCATGTGATCCTGAGGCTCAACTCACCTCTAGCAATATGAGTTGA--T
90588848 TTTTG-AAAA-AT
63 TTTTGAAAAACAT
* * * * * * *
90588859 AGATTGAAAATACATC--AACGTG-TCTTAAGGCTCAACTCACCTATCGCAATATGAGTTGATTT
1 A-ATTGAAAATACCTCGGCATGTGATCCTGAGGCTCAACTCACCTCTAGCAATATGAGTTGA--T
90588921 TTTTG-AAAA-AT
63 TTTTGAAAAACAT
* * * * * * *
90588932 AGATTGAAAATACATC--AACGTG-TCTTAAGGCTCAACTCACCTATCGCAATATGAGTTGATTT
1 A-ATTGAAAATACCTCGGCATGTGATCCTGAGGCTCAACTCACCTCTAGCAATATGAGTTGA--T
90588994 TTTTG-AAAA-AT
63 TTTTGAAAAACAT
* * * * * * *
90589005 AGATTGAAAATACATC--AACGTG-TCTTAAGGCTCAACTCACCTATCGCAATATGAGTTGATTT
1 A-ATTGAAAATACCTCGGCATGTGATCCTGAGGCTCAACTCACCTCTAGCAATATGAGTTGA--T
90589067 TTTTG-AAAA-AT
63 TTTTGAAAAACAT
* * * * * * *
90589078 AGATTGAAAATACATC--AACGTG-TCTTAAGGCTCAACTCACCTATCGCAATATGAGTTGATTT
1 A-ATTGAAAATACCTCGGCATGTGATCCTGAGGCTCAACTCACCTCTAGCAATATGAGTTGATTT
90589140 TT
65 TT
90589142 TTGAAACAGA
Statistics
Matches: 1008, Mismatches: 53, Indels: 94
0.87 0.05 0.08
Matches are distributed among these distances:
71 39 0.04
72 8 0.01
73 795 0.79
74 9 0.01
75 28 0.03
76 27 0.03
77 8 0.01
78 30 0.03
79 8 0.01
80 4 0.00
81 1 0.00
82 1 0.00
83 6 0.01
84 9 0.01
86 2 0.00
87 4 0.00
88 7 0.01
89 4 0.00
90 14 0.01
91 2 0.00
94 2 0.00
ACGTcount: A:0.35, C:0.18, G:0.15, T:0.32
Consensus pattern (75 bp):
AATTGAAAATACCTCGGCATGTGATCCTGAGGCTCAACTCACCTCTAGCAATATGAGTTGATTTT
TGAAAAACAT
Found at i:90588181 original size:238 final size:238
Alignment explanation
Indices: 90587763--90588346 Score: 1001
Period size: 238 Copynumber: 2.4 Consensus size: 238
90587753 TGATGAACAG
90587763 ACCTCTCGCAATATGAGTTGAGTTTTGAAACAAAAATTAACAATACCTCAGCGTGTCCCGAGGCT
1 ACCTCTCGCAATATGAGTTGAGTTTTGAAACAAAAATTAACAATACCTCAGCGTGTCCCGAGGCT
90587828 CAACTCACCTCTCACAATATGAGTTAATTTTTTTTAAAAACATTAATTGAAAATACCTCGGCATG
66 CAACTCACCTCTCACAATATGAGTTAATTTTTTTTAAAAACATTAATTGAAAATACCTCGGCATG
*
90587893 TGATCCTGAGGCTCAATTCACCTCTAGCAATATGAATTGATTTTTGAAAAACATAAATTGAAAAA
131 TGATCCTGAGGCTCAATTCACCTCTAGCAATATGAATGGATTTTTGAAAAACATAAATTGAAAAA
* * *
90587958 TGGAAATTGTAAATACCTCGATATGTGACCTGAGGTTCAACTC
196 CGGAAATTGTAAACACCTCGACATGTGACCTGAGGTTCAACTC
90588001 ACCTCTCGCAATATGAGTTGAGTTTTGAAACAAAAATTAACAATACCTCAGCGTGTCCCGAGGCT
1 ACCTCTCGCAATATGAGTTGAGTTTTGAAACAAAAATTAACAATACCTCAGCGTGTCCCGAGGCT
90588066 CAACTCACCTCTCACAATATGAGTTAATTTTTTTTAAAAACATTAATTGAAAATACCTCGGCATG
66 CAACTCACCTCTCACAATATGAGTTAATTTTTTTTAAAAACATTAATTGAAAATACCTCGGCATG
90588131 TGATCCTGAGGCTCAATTCACCTCTAGCAATATGAATGGATTTTTGAAAAACATAAATTGAAAAA
131 TGATCCTGAGGCTCAATTCACCTCTAGCAATATGAATGGATTTTTGAAAAACATAAATTGAAAAA
*
90588196 CGGAAATTGTAAACACCTTGACATGTGACCTGAGGTTCAACTC
196 CGGAAATTGTAAACACCTCGACATGTGACCTGAGGTTCAACTC
* * *
90588239 ACCTCTTGCAATA-GAGTTGATTTTTTTGATGAACAAAAATTAA-AACTACCTCAGCGTGTCCTG
1 ACCTCTCGCAATATGAGTTGA--GTTTTGA--AACAAAAATTAACAA-TACCTCAGCGTGTCCCG
* * * *
90588302 AGGTTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAAA
61 AGGCTCAACTCACCTCTCACAATATGAGTTAATTTTTTTTAAAAA
90588347 TAGATTGAAA
Statistics
Matches: 329, Mismatches: 12, Indels: 7
0.95 0.03 0.02
Matches are distributed among these distances:
237 7 0.02
238 245 0.74
239 6 0.02
240 2 0.01
241 69 0.21
ACGTcount: A:0.35, C:0.20, G:0.15, T:0.30
Consensus pattern (238 bp):
ACCTCTCGCAATATGAGTTGAGTTTTGAAACAAAAATTAACAATACCTCAGCGTGTCCCGAGGCT
CAACTCACCTCTCACAATATGAGTTAATTTTTTTTAAAAACATTAATTGAAAATACCTCGGCATG
TGATCCTGAGGCTCAATTCACCTCTAGCAATATGAATGGATTTTTGAAAAACATAAATTGAAAAA
CGGAAATTGTAAACACCTCGACATGTGACCTGAGGTTCAACTC
Found at i:90589187 original size:73 final size:73
Alignment explanation
Indices: 90588232--90589147 Score: 1694
Period size: 73 Copynumber: 12.5 Consensus size: 73
90588222 GACCTGAGGT
* * * * *
90588232 TCAACTCACCTCTTGCAATA-GAGTTGATTTTTTTGATGAACAA-AAATT-AAAACTACCTCAGC
1 TCAACTCACCTATCGCAATATGAGTTGATTTTTTTGA--AA-AATAGATTGAAAA-TACATCAAC
* * *
90588294 GTGTCCTGAGGT
62 GTGTCTTAAGGC
*
90588306 TCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAAATAGATTGAAAATACATCAACGTGT
1 TCAACTCACCTATCGCAATATGAGTTGATTTTTTTGAAAAATAGATTGAAAATACATCAACGTGT
90588371 CTTAAGGC
66 CTTAAGGC
90588379 TCAACTCACCTATCGCAATATGAGTTGATTTTTTTGAAAAATAGATTGAAAATACATCAACGTGT
1 TCAACTCACCTATCGCAATATGAGTTGATTTTTTTGAAAAATAGATTGAAAATACATCAACGTGT
90588444 CTTAAGGC
66 CTTAAGGC
90588452 TCAACTCACCTATCGCAATATGAGTTGATTTTTTTGAAAAATAGATTGAAAATACATCAACGTGT
1 TCAACTCACCTATCGCAATATGAGTTGATTTTTTTGAAAAATAGATTGAAAATACATCAACGTGT
90588517 CTTAAGGC
66 CTTAAGGC
90588525 TCAACTCACCTATCGCAATATGAGTTGATTTTTTTGAAAAATAGATTGAAAATACATCAACGTGT
1 TCAACTCACCTATCGCAATATGAGTTGATTTTTTTGAAAAATAGATTGAAAATACATCAACGTGT
90588590 CTTAAGGC
66 CTTAAGGC
90588598 TCAACTCACCTATCGCAATATGAGTTGATTTTTTTGAAAAATAGATTGAAAATACATCAACGTGT
1 TCAACTCACCTATCGCAATATGAGTTGATTTTTTTGAAAAATAGATTGAAAATACATCAACGTGT
90588663 CTTAAGGC
66 CTTAAGGC
90588671 TCAACTCACCTATCGCAATATGAGTTGATTTTTTTGAAAAATAGATTGAAAATACATCAACGTGT
1 TCAACTCACCTATCGCAATATGAGTTGATTTTTTTGAAAAATAGATTGAAAATACATCAACGTGT
90588736 CTTAAGGC
66 CTTAAGGC
90588744 TCAACTCACCTATCGCAATATGAGTTGATTTTTTTGAAAAATAGATTGAAAATACATCAACGTGT
1 TCAACTCACCTATCGCAATATGAGTTGATTTTTTTGAAAAATAGATTGAAAATACATCAACGTGT
90588809 CTTAAGGC
66 CTTAAGGC
90588817 TCAACTCACCTATCGCAATATGAGTTGATTTTTTTGAAAAATAGATTGAAAATACATCAACGTGT
1 TCAACTCACCTATCGCAATATGAGTTGATTTTTTTGAAAAATAGATTGAAAATACATCAACGTGT
90588882 CTTAAGGC
66 CTTAAGGC
90588890 TCAACTCACCTATCGCAATATGAGTTGATTTTTTTGAAAAATAGATTGAAAATACATCAACGTGT
1 TCAACTCACCTATCGCAATATGAGTTGATTTTTTTGAAAAATAGATTGAAAATACATCAACGTGT
90588955 CTTAAGGC
66 CTTAAGGC
90588963 TCAACTCACCTATCGCAATATGAGTTGATTTTTTTGAAAAATAGATTGAAAATACATCAACGTGT
1 TCAACTCACCTATCGCAATATGAGTTGATTTTTTTGAAAAATAGATTGAAAATACATCAACGTGT
90589028 CTTAAGGC
66 CTTAAGGC
90589036 TCAACTCACCTATCGCAATATGAGTTGATTTTTTTGAAAAATAGATTGAAAATACATCAACGTGT
1 TCAACTCACCTATCGCAATATGAGTTGATTTTTTTGAAAAATAGATTGAAAATACATCAACGTGT
90589101 CTTAAGGC
66 CTTAAGGC
90589109 TCAACTCACCTATCGCAATATGAGTTGATTTTTTTGAAA
1 TCAACTCACCTATCGCAATATGAGTTGATTTTTTTGAAA
90589148 CAGAAATAAA
Statistics
Matches: 831, Mismatches: 8, Indels: 7
0.98 0.01 0.01
Matches are distributed among these distances:
72 2 0.00
73 790 0.95
74 23 0.03
75 16 0.02
ACGTcount: A:0.35, C:0.17, G:0.15, T:0.33
Consensus pattern (73 bp):
TCAACTCACCTATCGCAATATGAGTTGATTTTTTTGAAAAATAGATTGAAAATACATCAACGTGT
CTTAAGGC
Found at i:90601138 original size:25 final size:23
Alignment explanation
Indices: 90601086--90601140 Score: 58
Period size: 25 Copynumber: 2.3 Consensus size: 23
90601076 TATAAATAGT
90601086 AATAGTGTTAGAAATATACTATA
1 AATAGTGTTAGAAATATACTATA
* *
90601109 TATAGTGTTTGAAGTATATAC-ATAA
1 AATAGTGTTAGAA--ATATACTAT-A
90601134 AATAGTG
1 AATAGTG
90601141 AAAATATAAC
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
23 11 0.42
24 2 0.08
25 13 0.50
ACGTcount: A:0.44, C:0.04, G:0.16, T:0.36
Consensus pattern (23 bp):
AATAGTGTTAGAAATATACTATA
Found at i:90610052 original size:47 final size:47
Alignment explanation
Indices: 90609943--90610053 Score: 136
Period size: 47 Copynumber: 2.4 Consensus size: 47
90609933 CCGGGATAAG
*
90609943 CACATAGTGCTTCATCGGAACAAATCCGAAACTTTAACATTATAGTA
1 CACATAGTGCTTCATCGGAACAAATCCGAAACTTTAACAGTATAGTA
* * * * *
90609990 CGCAAAGTACTTCATCGGAACAAATCCGGAACTTTAACAGTAGTCG-A
1 CACATAGTGCTTCATCGGAACAAATCCGAAACTTTAACAGTA-TAGTA
90610037 CACATAGTG-TCTCATCG
1 CACATAGTGCT-TCATCG
90610054 ACTCAATGTC
Statistics
Matches: 53, Mismatches: 9, Indels: 4
0.80 0.14 0.06
Matches are distributed among these distances:
46 1 0.02
47 50 0.94
48 2 0.04
ACGTcount: A:0.35, C:0.23, G:0.16, T:0.25
Consensus pattern (47 bp):
CACATAGTGCTTCATCGGAACAAATCCGAAACTTTAACAGTATAGTA
Found at i:90617675 original size:13 final size:12
Alignment explanation
Indices: 90617657--90617691 Score: 52
Period size: 13 Copynumber: 2.8 Consensus size: 12
90617647 TTTAAAATAG
90617657 ATAAAAATAAGAA
1 ATAAAAATAA-AA
90617670 ATAAAAATAAAA
1 ATAAAAATAAAA
90617682 ATAAATAATA
1 ATAAA-AATA
90617692 TATTAAATAG
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
12 7 0.33
13 14 0.67
ACGTcount: A:0.77, C:0.00, G:0.03, T:0.20
Consensus pattern (12 bp):
ATAAAAATAAAA
Found at i:90617677 original size:6 final size:6
Alignment explanation
Indices: 90617657--90617691 Score: 52
Period size: 6 Copynumber: 5.5 Consensus size: 6
90617647 TTTAAAATAG
90617657 ATAAAA ATAAGAA ATAAAA ATAAAA ATAAATA ATA
1 ATAAAA ATAA-AA ATAAAA ATAAAA ATAAA-A ATA
90617692 TATTAAATAG
Statistics
Matches: 27, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
6 17 0.63
7 10 0.37
ACGTcount: A:0.77, C:0.00, G:0.03, T:0.20
Consensus pattern (6 bp):
ATAAAA
Found at i:90617950 original size:3 final size:3
Alignment explanation
Indices: 90617942--90618316 Score: 164
Period size: 3 Copynumber: 128.0 Consensus size: 3
90617932 AAAGGAAAGT
90617942 ATA ATA ATA ATA ATA ATA ATA ATA ATGA A-A ATA AT- ATA A-A GA-A
1 ATA ATA ATA ATA ATA ATA ATA ATA AT-A ATA ATA ATA ATA ATA -ATA
* * * * *
90617985 ATA AGA ATA AGA ATA ATG ATA A-A CATA A-A AGA A-A AT- ATA ATT
1 ATA ATA ATA ATA ATA ATA ATA ATA -ATA ATA ATA ATA ATA ATA ATA
* * * * *
90618027 ATA GT- ATA A-A A-A ATA ATA GTA AAA ATA ATA ATA ATA TTA TTA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* * * * *
90618072 AAA AGA ATA ATA A-A A-A ATA A-A A-A GATGA AT- GTA ATA GTA ACA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA -AT-A ATA ATA ATA ATA ATA
* * * *
90618114 TATA ATA ATA ATG A-A ATA ACA CTA ATA ATA AAA AT- ATA GA-A GATA
1 -ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA -ATA -ATA
* * * *
90618159 ATA A-A ATA ATA ATA ATG AT- ATG TTA ACA ATA ATA ATA ATA ATAA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT-A
* * * *
90618203 ATA GAAA ATA ATA ATA TATGA ATA ATA AT- ATG CTA ATA ATA ACA ATA
1 ATA -ATA ATA ATA ATA -AT-A ATA ATA ATA ATA ATA ATA ATA ATA ATA
* * * * * *
90618250 GTA AAA ATA GAAA ATA ATA AAA ATA AAA ATA ATA TTA ATA ATA ATA
1 ATA ATA ATA -ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* *
90618296 CTA ATA ATA AGA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA
90618317 TTAAAATTAA
Statistics
Matches: 280, Mismatches: 62, Indels: 60
0.70 0.15 0.15
Matches are distributed among these distances:
2 35 0.12
3 223 0.80
4 20 0.07
5 2 0.01
ACGTcount: A:0.64, C:0.02, G:0.06, T:0.27
Consensus pattern (3 bp):
ATA
Found at i:90618214 original size:14 final size:17
Alignment explanation
Indices: 90618189--90618232 Score: 63
Period size: 17 Copynumber: 2.6 Consensus size: 17
90618179 TGTTAACAAT
*
90618189 AATAATAATAATAAATAG
1 AATAATAATAATATAT-G
90618207 AA-AATAATAATATATG
1 AATAATAATAATATATG
90618223 AATAATAATA
1 AATAATAATA
90618233 TGCTAATAAT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
16 3 0.12
17 19 0.79
18 2 0.08
ACGTcount: A:0.66, C:0.00, G:0.05, T:0.30
Consensus pattern (17 bp):
AATAATAATAATATATG
Found at i:90618244 original size:14 final size:14
Alignment explanation
Indices: 90618166--90618233 Score: 54
Period size: 14 Copynumber: 4.8 Consensus size: 14
90618156 ATAATAAAAT
90618166 AATAATAATGATATG
1 AATAATAAT-ATATG
*
90618181 TTAACAATAATA-AT-
1 --AATAATAATATATG
90618195 AATAATAA-ATA-G
1 AATAATAATATATG
90618207 AAAATAATAATATATG
1 --AATAATAATATATG
90618223 AATAATAATAT
1 AATAATAATAT
90618234 GCTAATAATA
Statistics
Matches: 43, Mismatches: 2, Indels: 15
0.72 0.03 0.25
Matches are distributed among these distances:
11 1 0.02
12 8 0.19
14 19 0.44
15 5 0.12
16 2 0.05
17 8 0.19
ACGTcount: A:0.60, C:0.01, G:0.06, T:0.32
Consensus pattern (14 bp):
AATAATAATATATG
Found at i:90621756 original size:21 final size:21
Alignment explanation
Indices: 90621730--90621772 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
90621720 ACAAGTAATC
90621730 ATACATGTAATCCATTTTTAA
1 ATACATGTAATCCATTTTTAA
90621751 ATACATGTAATCCATTTTTAA
1 ATACATGTAATCCATTTTTAA
90621772 A
1 A
90621773 CAAACTTAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.40, C:0.14, G:0.05, T:0.42
Consensus pattern (21 bp):
ATACATGTAATCCATTTTTAA
Found at i:90622169 original size:34 final size:36
Alignment explanation
Indices: 90622093--90622173 Score: 112
Period size: 37 Copynumber: 2.3 Consensus size: 36
90622083 TGATACAATT
* *
90622093 ATCTATGAAAATAGATCCATGTCTTCCGACTACAATC
1 ATCTATGAAAATAGATCCATGTCATCCGAC-AAAATC
*
90622130 ATCTATGAAAATAGCTCCATGTCATCC-A-AAAATC
1 ATCTATGAAAATAGATCCATGTCATCCGACAAAATC
90622164 ATCTATGAAA
1 ATCTATGAAA
90622174 GTGATAATGT
Statistics
Matches: 41, Mismatches: 3, Indels: 3
0.87 0.06 0.06
Matches are distributed among these distances:
34 15 0.37
36 1 0.02
37 25 0.61
ACGTcount: A:0.40, C:0.22, G:0.10, T:0.28
Consensus pattern (36 bp):
ATCTATGAAAATAGATCCATGTCATCCGACAAAATC
Found at i:90625250 original size:16 final size:16
Alignment explanation
Indices: 90625229--90625260 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
90625219 ATAGTCAAAC
90625229 CCTCTAATTGTAGTGT
1 CCTCTAATTGTAGTGT
90625245 CCTCTAATTGTAGTGT
1 CCTCTAATTGTAGTGT
90625261 TTGGTAAATG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.19, C:0.19, G:0.19, T:0.44
Consensus pattern (16 bp):
CCTCTAATTGTAGTGT
Found at i:90627747 original size:241 final size:240
Alignment explanation
Indices: 90627233--90627897 Score: 828
Period size: 241 Copynumber: 2.8 Consensus size: 240
90627223 TAAGAAGCAA
* * * *
90627233 ACTTGGAGAAGGGTTTGGATCAATTTTGTGTTCAAGTTGTTTTAGGTTCAAGTGGCTTGAGTCTT
1 ACTTGGAGAAGGGTTTGGATCAATTTTGTGTTCGAGTTGTTTTGGGTTCAAGTGGTTTGAGTCTA
* * * ** * *
90627298 GAATTTTTAAGTGGGAT-ATTATAAATTCAAGTTATTTTGGATATTCGA-AGGCTAATATCCACT
66 GGATTTTTAAGTGGG-TCATTATTAGTTCAAGCCATTTTGGATATTCGAGA-ACTAATATTCACT
* * * * * *
90627361 TCAAATATGCTAGAAATAGTAATTAGAATATTCAAATTTAAATA-C--C--ATC--CAATAACCA
129 TTAAATTTGCTAGGAATAGTAATTAGAATATCCGAATTTAAATATCATCTAATCTACAATATCCA
* *
90627419 ATCCTCAAAATGCAAGTTAAAAATTTGCAAATATTCAAATTTGCACT
194 ATCCTCAAAAAGCAAGTTAAAAATTTGCAAATATTCAAATCTGCACT
* * * *
90627466 ACTTGAAGAAGGTTTTGGATCAATTTTGTGTTCGAGTTGTTTTGGGTTCATGTGGTTTGAGTCAA
1 ACTTGGAGAAGGGTTTGGATCAATTTTGTGTTCGAGTTGTTTTGGGTTCAAGTGGTTTGAGTCTA
* *
90627531 GGATTTTTAAGTGGGTCATTATTAGTTCAAGCCATTTTGGATGTGCGAGAACTAATATTCACTTT
66 GGATTTTTAAGTGGGTCATTATTAGTTCAAGCCATTTTGGATATTCGAGAACTAATATTCACTTT
* * *
90627596 GAATTTGCTAGGAATAGTAATTAGAAAATCCGAATTTAAATATCATCTGAATCTACAATATCTGA
131 AAATTTGCTAGGAATAGTAATTAGAATATCCGAATTTAAATATCATCT-AATCTACAATATC-CA
* *
90627661 ATCCT-AAAAAGCAAGTTAGATATTTGCAAATATTCAAATCTGCACT
194 ATCCTCAAAAAGCAAGTTAAAAATTTGCAAATATTCAAATCTGCACT
* * *
90627707 ACTTGGAGAAGGGTTTGAATCAATTTTGTGTTCGAGTTGTTTTGGGATCAAGTAGTTTGAGTCTA
1 ACTTGGAGAAGGGTTTGGATCAATTTTGTGTTCGAGTTGTTTTGGGTTCAAGTGGTTTGAGTCTA
* * * ** *
90627772 GGATTTTTAGGTGGGCCGTTGCTAGTTCAAGCCATTTTGGATATTCAAGAACTAATATTCACTTT
66 GGATTTTTAAGTGGGTCATTATTAGTTCAAGCCATTTTGGATATTCGAGAACTAATATTCACTTT
* * * *
90627837 AAATTTGCTAGGGATAGTAATTATAATATCTGAATTTAAATATCATCTTAATTTACAATAT
131 AAATTTGCTAGGAATAGTAATTAGAATATCCGAATTTAAATATCATC-TAATCTACAATAT
90627898 ATCGGAATCC
Statistics
Matches: 369, Mismatches: 51, Indels: 16
0.85 0.12 0.04
Matches are distributed among these distances:
232 1 0.00
233 144 0.39
234 2 0.01
236 1 0.00
239 3 0.01
241 211 0.57
242 7 0.02
ACGTcount: A:0.32, C:0.12, G:0.19, T:0.37
Consensus pattern (240 bp):
ACTTGGAGAAGGGTTTGGATCAATTTTGTGTTCGAGTTGTTTTGGGTTCAAGTGGTTTGAGTCTA
GGATTTTTAAGTGGGTCATTATTAGTTCAAGCCATTTTGGATATTCGAGAACTAATATTCACTTT
AAATTTGCTAGGAATAGTAATTAGAATATCCGAATTTAAATATCATCTAATCTACAATATCCAAT
CCTCAAAAAGCAAGTTAAAAATTTGCAAATATTCAAATCTGCACT
Found at i:90627889 original size:17 final size:18
Alignment explanation
Indices: 90627864--90627897 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
90627854 TAATTATAAT
90627864 ATCTGAATTTA-AATATC
1 ATCTGAATTTACAATATC
*
90627881 ATCTTAATTTACAATAT
1 ATCTGAATTTACAATAT
90627898 ATCGGAATCC
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 10 0.67
18 5 0.33
ACGTcount: A:0.41, C:0.12, G:0.03, T:0.44
Consensus pattern (18 bp):
ATCTGAATTTACAATATC
Found at i:90634640 original size:20 final size:22
Alignment explanation
Indices: 90634606--90634647 Score: 70
Period size: 20 Copynumber: 2.0 Consensus size: 22
90634596 ATTTTTTAAA
90634606 AATATTTATATTATTTTAATTT
1 AATATTTATATTATTTTAATTT
90634628 AATATTTA-A-TATTTTAATTT
1 AATATTTATATTATTTTAATTT
90634648 TTTTATTTAT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
20 11 0.55
21 1 0.05
22 8 0.40
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (22 bp):
AATATTTATATTATTTTAATTT
Found at i:90640584 original size:23 final size:22
Alignment explanation
Indices: 90640558--90640613 Score: 67
Period size: 23 Copynumber: 2.5 Consensus size: 22
90640548 TGAAATTTTG
90640558 ATTACATTTATTTTAGTTTTAAA
1 ATTA-ATTTATTTTAGTTTTAAA
* * *
90640581 ATTAAATATCTTTTATTTTTAAA
1 ATT-AATTTATTTTAGTTTTAAA
90640604 ATTAATTTAT
1 ATTAATTTAT
90640614 GTTTTCTATT
Statistics
Matches: 27, Mismatches: 5, Indels: 3
0.77 0.14 0.09
Matches are distributed among these distances:
22 5 0.19
23 21 0.78
24 1 0.04
ACGTcount: A:0.38, C:0.04, G:0.02, T:0.57
Consensus pattern (22 bp):
ATTAATTTATTTTAGTTTTAAA
Found at i:90642249 original size:50 final size:53
Alignment explanation
Indices: 90642181--90642279 Score: 159
Period size: 50 Copynumber: 1.9 Consensus size: 53
90642171 AGAACACACT
*
90642181 TGGGCACTGAGTGCCAAGCCCGAAGGCTA-ACATCC-CT-CCAGAAACATGTC
1 TGGGCACTAAGTGCCAAGCCCGAAGGCTACACATCCTCTCCCAGAAACATGTC
*
90642231 TGGGCACTAAGTGTCAAGCCCGAAGGCTACACATCCTCTCCCAGAAACA
1 TGGGCACTAAGTGCCAAGCCCGAAGGCTACACATCCTCTCCCAGAAACA
90642280 CGCCTGAATC
Statistics
Matches: 44, Mismatches: 2, Indels: 3
0.90 0.04 0.06
Matches are distributed among these distances:
50 27 0.61
51 6 0.14
52 2 0.05
53 9 0.20
ACGTcount: A:0.29, C:0.32, G:0.22, T:0.16
Consensus pattern (53 bp):
TGGGCACTAAGTGCCAAGCCCGAAGGCTACACATCCTCTCCCAGAAACATGTC
Done.