Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr03 135709677
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: 135709677
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 350 characters in sequence are not A, C, G, or T
File 62 of 438
Found at i:16154504 original size:64 final size:64
Alignment explanation
Indices: 16154435--16154558 Score: 212
Period size: 64 Copynumber: 1.9 Consensus size: 64
16154425 TCATTCATAA
* *
16154435 CACATCTAGTTAAGAGCATTTGATTCATTTCGATCATAGGATCCTAATTATTTGACATAAACAT
1 CACATCTAGTTAAGAGCATTTGATTCATTTCGATCATAGCAGCCTAATTATTTGACATAAACAT
* *
16154499 CACATCTAGTTAGGAGCATTTGATTCATTTCGATCATAGCAGCCTAATTATTTGGCATAA
1 CACATCTAGTTAAGAGCATTTGATTCATTTCGATCATAGCAGCCTAATTATTTGACATAA
16154559 GCATATGAAA
Statistics
Matches: 56, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
64 56 1.00
ACGTcount: A:0.32, C:0.18, G:0.15, T:0.35
Consensus pattern (64 bp):
CACATCTAGTTAAGAGCATTTGATTCATTTCGATCATAGCAGCCTAATTATTTGACATAAACAT
Found at i:16154944 original size:44 final size:43
Alignment explanation
Indices: 16154811--16154952 Score: 126
Period size: 44 Copynumber: 3.3 Consensus size: 43
16154801 GTAAATAGAT
** * *
16154811 CTTATCTTTCTGAAGTTGCAGTAGAGCA-GATCATA-GCAAAC
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGGATCATATGCAAGC
* ** * * *
16154852 CTTATCTCCCTAAAGTTATAGTGGAGTAGGTTCAAATGACAAGC
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGGATCATATG-CAAGC
* * *
16154896 CTTATCTCCTTGAAGTTGCAGTGGAGCAGGCTCTATATGCAAGT
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGGATC-ATATGCAAGC
*
16154940 CTTATCTTCCTGA
1 CTTATCTCCCTGA
16154953 GGTAGCAAGG
Statistics
Matches: 77, Mismatches: 20, Indels: 5
0.75 0.20 0.05
Matches are distributed among these distances:
41 21 0.27
42 5 0.06
43 1 0.01
44 46 0.60
45 4 0.05
ACGTcount: A:0.27, C:0.20, G:0.20, T:0.32
Consensus pattern (43 bp):
CTTATCTCCCTGAAGTTGCAGTGGAGCAGGATCATATGCAAGC
Found at i:16155279 original size:177 final size:177
Alignment explanation
Indices: 16154893--16155302 Score: 509
Period size: 177 Copynumber: 2.3 Consensus size: 177
16154883 TCAAATGACA
* * ** * *
16154893 AGCCTTATCTCCTTGAAGTTGCAGTGGAGCAGGCTCTATATGCAAGTCTTATCTTCCTGAGGTAG
1 AGCCTTATCTCCCTGAAGTTGCAGTGGAGCAGGTTGAAGATACAAGTCTTATCTTCCTGAGGTAG
* * * ** *
16154958 CAAGGAAGTAGATTGAAATTATATATCTTATCTTTAAGTATCGGCTATGGAGCAGATTGAAGATG
66 CAAGGAAGTAGACTGAAATTACAAATCTTATCTCCAAGTATCGGCTATGGAGCAGATCGAAGATG
* *
16155023 GCGAATCTTATCTCCATGTATCGGCTATGGAGCAGATTTTAGCCACC
131 GCGAATCTTATCTCCAAGTATCGGCTATGGAGCAGATTTTAACCACC
* * * *
16155070 AGCCTTATCTCTCTGAGGTAGCAAG-AGAGCAGGTTGAAGATACAAGTCTTATCTTCCTGAGGTA
1 AGCCTTATCTCCCTGAAGTTGC-AGTGGAGCAGGTTGAAGATACAAGTCTTATCTTCCTGAGGTA
* *
16155134 GCAAGGAAGTAGACTGAAATTACAAATCTTATCTCCATGTATCGGCTATGGAGTAGATCGAAGAT
65 GCAAGGAAGTAGACTGAAATTACAAATCTTATCTCCAAGTATCGGCTATGGAGCAGATCGAAGAT
* * * * * *
16155199 GGTGAGTCTTATCTCTAAGTATCGGCTATGGAGCAGGTTTTAATCACT
130 GGCGAATCTTATCTCCAAGTATCGGCTATGGAGCAGATTTTAACCACC
* * * **
16155247 GGCTTTGTCTCCCTGAAGTTGCAGTGGAGCAGGTTGAAG-TCACAAACCTTATCTTC
1 AGCCTTATCTCCCTGAAGTTGCAGTGGAGCAGGTTGAAGAT-ACAAGTCTTATCTTC
16155303 TTGAAGTTAT
Statistics
Matches: 195, Mismatches: 35, Indels: 6
0.83 0.15 0.03
Matches are distributed among these distances:
176 3 0.02
177 190 0.97
178 2 0.01
ACGTcount: A:0.27, C:0.18, G:0.24, T:0.30
Consensus pattern (177 bp):
AGCCTTATCTCCCTGAAGTTGCAGTGGAGCAGGTTGAAGATACAAGTCTTATCTTCCTGAGGTAG
CAAGGAAGTAGACTGAAATTACAAATCTTATCTCCAAGTATCGGCTATGGAGCAGATCGAAGATG
GCGAATCTTATCTCCAAGTATCGGCTATGGAGCAGATTTTAACCACC
Found at i:16158231 original size:17 final size:17
Alignment explanation
Indices: 16158211--16158243 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
16158201 AGTCAACGTT
16158211 AATATACAAT-TAAATTA
1 AATATA-AATATAAATTA
16158228 AATATAAATATAAATT
1 AATATAAATATAAATT
16158244 TAAAATGTTA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 3 0.20
17 12 0.80
ACGTcount: A:0.61, C:0.03, G:0.00, T:0.36
Consensus pattern (17 bp):
AATATAAATATAAATTA
Found at i:16159996 original size:15 final size:15
Alignment explanation
Indices: 16159976--16160005 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
16159966 CATAATTTTC
16159976 TCAAATTATTTGACT
1 TCAAATTATTTGACT
16159991 TCAAATTATTTGACT
1 TCAAATTATTTGACT
16160006 AACATTCAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.33, C:0.13, G:0.07, T:0.47
Consensus pattern (15 bp):
TCAAATTATTTGACT
Found at i:16162004 original size:28 final size:29
Alignment explanation
Indices: 16161937--16162008 Score: 112
Period size: 29 Copynumber: 2.5 Consensus size: 29
16161927 ATAGTGAATC
*
16161937 CGCACACTTAGTGCTATATATATTCAGCT
1 CGCACACTTAGTGCTATATATATTCAACT
16161966 CGCACACTTAGTGCTATATA-A-TCAAACT
1 CGCACACTTAGTGCTATATATATTC-AACT
16161994 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
16162009 GTACAATTTT
Statistics
Matches: 41, Mismatches: 1, Indels: 3
0.91 0.02 0.07
Matches are distributed among these distances:
27 2 0.05
28 19 0.46
29 20 0.49
ACGTcount: A:0.29, C:0.26, G:0.14, T:0.31
Consensus pattern (29 bp):
CGCACACTTAGTGCTATATATATTCAACT
Found at i:16162030 original size:30 final size:28
Alignment explanation
Indices: 16161936--16162037 Score: 89
Period size: 28 Copynumber: 3.5 Consensus size: 28
16161926 TATAGTGAAT
* *
16161936 CCGCACACTTAGTGCTATATATATTC-AGC
1 CCGCACACTTAGTGCTATACA-A-TCAAAC
* *
16161965 TCGCACACTTAGTGCTATATAATCAAAC
1 CCGCACACTTAGTGCTATACAATCAAAC
* * *
16161993 TCGCACACTTAGTGCTGTACAATTTTAAAC
1 CCGCACACTTAGTGCTATACAA--TCAAAC
*
16162023 CCGCACACTCAGTGC
1 CCGCACACTTAGTGC
16162038 CAATCTTGTC
Statistics
Matches: 63, Mismatches: 7, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
27 2 0.03
28 23 0.37
29 20 0.32
30 18 0.29
ACGTcount: A:0.29, C:0.28, G:0.14, T:0.28
Consensus pattern (28 bp):
CCGCACACTTAGTGCTATACAATCAAAC
Found at i:16163365 original size:27 final size:25
Alignment explanation
Indices: 16163328--16163377 Score: 64
Period size: 27 Copynumber: 1.9 Consensus size: 25
16163318 ATCCACACTC
16163328 TTTTTTTTTTCATCATTTTCCTTTT
1 TTTTTTTTTTCATCATTTTCCTTTT
* *
16163353 TTTTTTTCATTTCTTTATTTTCCTT
1 TTTTTTT--TTTCATCATTTTCCTT
16163378 CCATAATGCA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
25 7 0.33
27 14 0.67
ACGTcount: A:0.08, C:0.16, G:0.00, T:0.76
Consensus pattern (25 bp):
TTTTTTTTTTCATCATTTTCCTTTT
Found at i:16171433 original size:5 final size:6
Alignment explanation
Indices: 16171411--16171440 Score: 51
Period size: 6 Copynumber: 5.0 Consensus size: 6
16171401 TAAAAAAATC
*
16171411 TAAAAC TAAAAA TAAAAA TAAAAA TAAAAA
1 TAAAAA TAAAAA TAAAAA TAAAAA TAAAAA
16171441 AATATATAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.80, C:0.03, G:0.00, T:0.17
Consensus pattern (6 bp):
TAAAAA
Found at i:16171449 original size:18 final size:17
Alignment explanation
Indices: 16171402--16171449 Score: 51
Period size: 18 Copynumber: 2.7 Consensus size: 17
16171392 ATAATTTAAT
* *
16171402 AAAAAAATCTAAAACTA
1 AAAAAAATATAAAAATA
*
16171419 AAAATAAAAATAAAAATA
1 AAAA-AAATATAAAAATA
16171437 AAAAAATATATAA
1 AAAAAA-ATATAA
16171450 TTTTATACAA
Statistics
Matches: 25, Mismatches: 4, Indels: 3
0.78 0.12 0.09
Matches are distributed among these distances:
17 6 0.24
18 19 0.76
ACGTcount: A:0.77, C:0.04, G:0.00, T:0.19
Consensus pattern (17 bp):
AAAAAAATATAAAAATA
Found at i:16171475 original size:9 final size:9
Alignment explanation
Indices: 16171461--16171546 Score: 127
Period size: 9 Copynumber: 9.6 Consensus size: 9
16171451 TTTATACAAA
16171461 TAATTCGGT
1 TAATTCGGT
16171470 TAATTCGGT
1 TAATTCGGT
*
16171479 TAATTCGGG
1 TAATTCGGT
*
16171488 TAATTCGGG
1 TAATTCGGT
16171497 TAATTCGGT
1 TAATTCGGT
*
16171506 TAATTCGAT
1 TAATTCGGT
* *
16171515 TAATTTGAT
1 TAATTCGGT
16171524 TAATTCGGT
1 TAATTCGGT
16171533 TAATTCGGT
1 TAATTCGGT
16171542 TAATT
1 TAATT
16171547 TTATACTTAA
Statistics
Matches: 71, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
9 71 1.00
ACGTcount: A:0.26, C:0.09, G:0.21, T:0.44
Consensus pattern (9 bp):
TAATTCGGT
Found at i:16172357 original size:11 final size:12
Alignment explanation
Indices: 16172341--16172369 Score: 51
Period size: 11 Copynumber: 2.5 Consensus size: 12
16172331 TAAATAATTT
16172341 AATTTCTAT-TC
1 AATTTCTATCTC
16172352 AATTTCTATCTC
1 AATTTCTATCTC
16172364 AATTTC
1 AATTTC
16172370 AATTTGGTCC
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
11 9 0.53
12 8 0.47
ACGTcount: A:0.28, C:0.21, G:0.00, T:0.52
Consensus pattern (12 bp):
AATTTCTATCTC
Found at i:16172844 original size:23 final size:23
Alignment explanation
Indices: 16172797--16172844 Score: 62
Period size: 22 Copynumber: 2.1 Consensus size: 23
16172787 TCGTTTCAGC
**
16172797 TTTTTGTTTCTTTTATGCTTTTT
1 TTTTTGTTTCTTTTAACCTTTTT
*
16172820 TTTTTGTTT-TTTTAACCTTTGT
1 TTTTTGTTTCTTTTAACCTTTTT
16172842 TTT
1 TTT
16172845 ATTTACTTTC
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
22 13 0.59
23 9 0.41
ACGTcount: A:0.06, C:0.08, G:0.08, T:0.77
Consensus pattern (23 bp):
TTTTTGTTTCTTTTAACCTTTTT
Found at i:16186134 original size:41 final size:41
Alignment explanation
Indices: 16186057--16186134 Score: 106
Period size: 41 Copynumber: 1.9 Consensus size: 41
16186047 TTTGATATTT
*
16186057 ATTCACCGGCAATAAGCCTGCTAGGCACGAAGCCCGATCAA
1 ATTCACCGGCAATAAGCCTGCTAGGCACGAAACCCGATCAA
*
16186098 ATTCCCCGGCACAT-AGCCTGCTAGGCTA-GAAACCCGA
1 ATTCACCGGCA-ATAAGCCTGCTAGGC-ACGAAACCCGA
16186135 ATATCATTTA
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
41 30 0.91
42 3 0.09
ACGTcount: A:0.29, C:0.33, G:0.22, T:0.15
Consensus pattern (41 bp):
ATTCACCGGCAATAAGCCTGCTAGGCACGAAACCCGATCAA
Found at i:16190508 original size:21 final size:21
Alignment explanation
Indices: 16190482--16190524 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
16190472 CGATCTCAAA
*
16190482 ACAATCCTTATAGCAATACTT
1 ACAATCCTTATAACAATACTT
*
16190503 ACAATCCTTATAACAATCCTT
1 ACAATCCTTATAACAATACTT
16190524 A
1 A
16190525 TAGGAATCAC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.40, C:0.26, G:0.02, T:0.33
Consensus pattern (21 bp):
ACAATCCTTATAACAATACTT
Found at i:16190532 original size:12 final size:12
Alignment explanation
Indices: 16190481--16190526 Score: 53
Period size: 12 Copynumber: 4.1 Consensus size: 12
16190471 TCGATCTCAA
16190481 AACAATCCTTAT
1 AACAATCCTTAT
* *
16190493 AGCAATAC-T-T
1 AACAATCCTTAT
16190503 -ACAATCCTTAT
1 AACAATCCTTAT
16190514 AACAATCCTTAT
1 AACAATCCTTAT
16190526 A
1 A
16190527 GGAATCACCC
Statistics
Matches: 27, Mismatches: 4, Indels: 6
0.73 0.11 0.16
Matches are distributed among these distances:
9 5 0.19
10 2 0.07
11 2 0.07
12 18 0.67
ACGTcount: A:0.41, C:0.24, G:0.02, T:0.33
Consensus pattern (12 bp):
AACAATCCTTAT
Found at i:16202209 original size:14 final size:15
Alignment explanation
Indices: 16202184--16202215 Score: 57
Period size: 14 Copynumber: 2.2 Consensus size: 15
16202174 ATTTTCTGTG
16202184 TTTATAATGTGTGAA
1 TTTATAATGTGTGAA
16202199 TTTAT-ATGTGTGAA
1 TTTATAATGTGTGAA
16202213 TTT
1 TTT
16202216 TTTTGTGTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 12 0.71
15 5 0.29
ACGTcount: A:0.28, C:0.00, G:0.19, T:0.53
Consensus pattern (15 bp):
TTTATAATGTGTGAA
Found at i:16203403 original size:43 final size:43
Alignment explanation
Indices: 16203353--16203509 Score: 169
Period size: 43 Copynumber: 3.7 Consensus size: 43
16203343 ATGTGTTTTT
*
16203353 TGTGTAAGACCACGTCTGGGACGTTGGCATCGATATGTGATTA
1 TGTGTAAGACCACGTCTGGGACATTGGCATCGATATGTGATTA
* * * * * *
16203396 TGTGTAAGACCATGTATGGGACATCGACATTG-TATTTGATTCA
1 TGTGTAAGACCACGTCTGGGACATTGGCATCGATATGTGATT-A
*
16203439 --TGTAAGACC-CTGTCTGGGACAGTGGCATCGATATGTGATTA
1 TGTGTAAGACCAC-GTCTGGGACATTGGCATCGATATGTGATTA
** *
16203480 CATGTAAGACCACATCTGGGACATTGGCAT
1 TGTGTAAGACCACGTCTGGGACATTGGCAT
16203510 TGAATGATAT
Statistics
Matches: 92, Mismatches: 16, Indels: 12
0.77 0.13 0.10
Matches are distributed among these distances:
41 24 0.26
42 16 0.17
43 51 0.55
44 1 0.01
ACGTcount: A:0.26, C:0.17, G:0.27, T:0.30
Consensus pattern (43 bp):
TGTGTAAGACCACGTCTGGGACATTGGCATCGATATGTGATTA
Found at i:16205414 original size:136 final size:137
Alignment explanation
Indices: 16205170--16205455 Score: 502
Period size: 136 Copynumber: 2.1 Consensus size: 137
16205160 CATTGGGCCT
** * *
16205170 AAGCCCATTCAGGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
1 AAGCCCATTTGGGTAACAGTGATACTGGGCCAAAGCCCTTTTCAGATTACAATAAACTGGGCCTT
*
16205235 AGCCCCTTATTCAGATTACAGTATGGCCCACAGGCCCATTTCAAAATACATGCAACATCAAT-AA
66 AGCCCCTTATTCAGATAACAGTATGGCCCACAGGCCCATTTCAAAATACATGCAACATCAATAAA
16205299 CATATGC
131 CATATGC
16205306 AAGCCCATTTGGGTAACAGTGATACTGGGCCAAAGCCCTTTTCAGATTACAATAAACTGGGCCTT
1 AAGCCCATTTGGGTAACAGTGATACTGGGCCAAAGCCCTTTTCAGATTACAATAAACTGGGCCTT
* *
16205371 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAGTAAA
66 AGCCCCTTATTCAGATAACAGTATGGCCCACAGGCCCATTTCAAAATACATGCAACATCAATAAA
16205436 CATATGC
131 CATATGC
16205443 AAGCCCATTTGGG
1 AAGCCCATTTGGG
16205456 GAGACTACTC
Statistics
Matches: 142, Mismatches: 7, Indels: 1
0.95 0.05 0.01
Matches are distributed among these distances:
136 120 0.85
137 22 0.15
ACGTcount: A:0.32, C:0.26, G:0.18, T:0.24
Consensus pattern (137 bp):
AAGCCCATTTGGGTAACAGTGATACTGGGCCAAAGCCCTTTTCAGATTACAATAAACTGGGCCTT
AGCCCCTTATTCAGATAACAGTATGGCCCACAGGCCCATTTCAAAATACATGCAACATCAATAAA
CATATGC
Found at i:16207277 original size:26 final size:26
Alignment explanation
Indices: 16207241--16207376 Score: 227
Period size: 26 Copynumber: 5.2 Consensus size: 26
16207231 CATGATATTC
16207241 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
*
16207267 TTATTATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* *
16207293 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
16207319 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* *
16207345 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
16207371 TTATCA
1 TTATCA
16207377 ATTTGTATCA
Statistics
Matches: 102, Mismatches: 8, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 102 1.00
ACGTcount: A:0.37, C:0.24, G:0.05, T:0.34
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:16209675 original size:21 final size:21
Alignment explanation
Indices: 16209649--16209693 Score: 90
Period size: 21 Copynumber: 2.1 Consensus size: 21
16209639 TATATAGTTG
16209649 TACATATTTCTAATAAATACA
1 TACATATTTCTAATAAATACA
16209670 TACATATTTCTAATAAATACA
1 TACATATTTCTAATAAATACA
16209691 TAC
1 TAC
16209694 TTTTAGAGAG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.47, C:0.16, G:0.00, T:0.38
Consensus pattern (21 bp):
TACATATTTCTAATAAATACA
Found at i:16209896 original size:25 final size:25
Alignment explanation
Indices: 16209862--16209912 Score: 102
Period size: 25 Copynumber: 2.0 Consensus size: 25
16209852 TACTCCCAAG
16209862 TGGAGAAAAGAGAAGAAATAGTCTA
1 TGGAGAAAAGAGAAGAAATAGTCTA
16209887 TGGAGAAAAGAGAAGAAATAGTCTA
1 TGGAGAAAAGAGAAGAAATAGTCTA
16209912 T
1 T
16209913 CTTGGAGACT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.51, C:0.04, G:0.27, T:0.18
Consensus pattern (25 bp):
TGGAGAAAAGAGAAGAAATAGTCTA
Found at i:16213702 original size:33 final size:33
Alignment explanation
Indices: 16213602--16213703 Score: 132
Period size: 33 Copynumber: 3.1 Consensus size: 33
16213592 CTTCAGCCGC
* *
16213602 CGCATACCCCTCAGTCTTGGCCACCACGCCCCA
1 CGCATGCCCCTCAGCCTTGGCCACCACGCCCCA
* * *
16213635 CACATGCCTCACAGCCTTGGCCACCACGCCCCA
1 CGCATGCCCCTCAGCCTTGGCCACCACGCCCCA
* * *
16213668 CGCATGCCCCTCAGCCTTGGTCACCACACTCCA
1 CGCATGCCCCTCAGCCTTGGCCACCACGCCCCA
16213701 CGC
1 CGC
16213704 GTCTGACACT
Statistics
Matches: 58, Mismatches: 11, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
33 58 1.00
ACGTcount: A:0.19, C:0.51, G:0.16, T:0.15
Consensus pattern (33 bp):
CGCATGCCCCTCAGCCTTGGCCACCACGCCCCA
Found at i:16214650 original size:36 final size:36
Alignment explanation
Indices: 16214584--16214656 Score: 89
Period size: 36 Copynumber: 2.0 Consensus size: 36
16214574 CTCTTTTTTT
*
16214584 TTGTTTCATTTATATGTTATTTCTAATATTTTATATG
1 TTGTTTCATTTATATGCTATTTCTAATATTTTA-ATG
16214621 TTGTTT-ATTTATAT-CTA-TTCTAACTTATTTTAATG
1 TTGTTTCATTTATATGCTATTTCTAA--TATTTTAATG
16214656 T
1 T
16214657 ACTATTTATT
Statistics
Matches: 33, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
34 6 0.18
35 6 0.18
36 15 0.45
37 6 0.18
ACGTcount: A:0.25, C:0.07, G:0.07, T:0.62
Consensus pattern (36 bp):
TTGTTTCATTTATATGCTATTTCTAATATTTTAATG
Found at i:16215111 original size:27 final size:26
Alignment explanation
Indices: 16215052--16215131 Score: 88
Period size: 26 Copynumber: 3.0 Consensus size: 26
16215042 TTTTGCTTTG
** * *
16215052 TGTATTATAGATTTTAAAATGCTTTA
1 TGTATTATTCATTTTAAATTGTTTTA
** *
16215078 TACATTATTTATTTTAAACTTGTTTTA
1 TGTATTATTCATTTTAAA-TTGTTTTA
16215105 TGTATTATTCATTTTAAATTGTTTTA
1 TGTATTATTCATTTTAAATTGTTTTA
16215131 T
1 T
16215132 TGTTTACTTT
Statistics
Matches: 44, Mismatches: 9, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
26 23 0.52
27 21 0.48
ACGTcount: A:0.30, C:0.05, G:0.07, T:0.57
Consensus pattern (26 bp):
TGTATTATTCATTTTAAATTGTTTTA
Found at i:16215549 original size:2 final size:2
Alignment explanation
Indices: 16215542--16215578 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
16215532 ATTTATTCTT
16215542 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
16215579 TTATGTTAAG
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:16218414 original size:14 final size:15
Alignment explanation
Indices: 16218395--16218504 Score: 60
Period size: 17 Copynumber: 6.5 Consensus size: 15
16218385 AATCTTCAAT
16218395 GATATG-CAATCTTA
1 GATATGACAATCTTA
16218409 GATATGATACAATCTTA
1 GATATG--ACAATCTTA
*
16218426 GATATGATTGCAATGTTA
1 GATATGA---CAATCTTA
16218444 GATATGATATGCAATCTTA
1 GATATG--A--CAATCTTA
*
16218463 GATATGATACAAGCTTA
1 GATATG--ACAATCTTA
*
16218480 GATATAATTGCAATCTTA
1 GATATGA---CAATCTTA
16218498 GATATGA
1 GATATGA
16218505 TATGCAATCT
Statistics
Matches: 79, Mismatches: 6, Indels: 18
0.77 0.06 0.17
Matches are distributed among these distances:
14 6 0.08
15 2 0.03
17 26 0.33
18 26 0.33
19 18 0.23
20 1 0.01
ACGTcount: A:0.38, C:0.10, G:0.16, T:0.35
Consensus pattern (15 bp):
GATATGACAATCTTA
Found at i:16218417 original size:19 final size:19
Alignment explanation
Indices: 16218393--16218518 Score: 183
Period size: 19 Copynumber: 6.9 Consensus size: 19
16218383 ATAATCTTCA
16218393 ATGATATGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
16218412 ATGATA--CAATCTTAGAT
1 ATGATATGCAATCTTAGAT
*
16218429 ATGAT-TGCAATGTTAGAT
1 ATGATATGCAATCTTAGAT
16218447 ATGATATGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
*
16218466 ATGATA--CAAGCTTAGAT
1 ATGATATGCAATCTTAGAT
*
16218483 ATAAT-TGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
16218501 ATGATATGCAATCTTAGA
1 ATGATATGCAATCTTAGA
16218519 AGATATGATT
Statistics
Matches: 95, Mismatches: 6, Indels: 12
0.84 0.05 0.11
Matches are distributed among these distances:
17 30 0.32
18 29 0.31
19 36 0.38
ACGTcount: A:0.38, C:0.10, G:0.16, T:0.36
Consensus pattern (19 bp):
ATGATATGCAATCTTAGAT
Found at i:16218439 original size:35 final size:36
Alignment explanation
Indices: 16218393--16218518 Score: 168
Period size: 35 Copynumber: 3.5 Consensus size: 36
16218383 ATAATCTTCA
16218393 ATGATATGCAATCTTAGATATGATACAATCTTAGAT
1 ATGATATGCAATCTTAGATATGATACAATCTTAGAT
*
16218429 ATGAT-TGCAATGTTAGATATGATATGCAATCTTAGAT
1 ATGATATGCAATCTTAGATATGATA--CAATCTTAGAT
* * *
16218466 ATGATA--CAAGCTTAGATATAATTGCAATCTTAGAT
1 ATGATATGCAATCTTAGATATGA-TACAATCTTAGAT
16218501 ATGATATGCAATCTTAGA
1 ATGATATGCAATCTTAGA
16218519 AGATATGATT
Statistics
Matches: 78, Mismatches: 6, Indels: 11
0.82 0.06 0.12
Matches are distributed among these distances:
35 35 0.45
36 17 0.22
37 26 0.33
ACGTcount: A:0.38, C:0.10, G:0.16, T:0.36
Consensus pattern (36 bp):
ATGATATGCAATCTTAGATATGATACAATCTTAGAT
Found at i:16218452 original size:54 final size:54
Alignment explanation
Indices: 16218393--16218518 Score: 225
Period size: 54 Copynumber: 2.3 Consensus size: 54
16218383 ATAATCTTCA
* * *
16218393 ATGATATGCAATCTTAGATATGATACAATCTTAGATATGATTGCAATGTTAGAT
1 ATGATATGCAATCTTAGATATGATACAAGCTTAGATATAATTGCAATCTTAGAT
16218447 ATGATATGCAATCTTAGATATGATACAAGCTTAGATATAATTGCAATCTTAGAT
1 ATGATATGCAATCTTAGATATGATACAAGCTTAGATATAATTGCAATCTTAGAT
16218501 ATGATATGCAATCTTAGA
1 ATGATATGCAATCTTAGA
16218519 AGATATGATT
Statistics
Matches: 69, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
54 69 1.00
ACGTcount: A:0.38, C:0.10, G:0.16, T:0.36
Consensus pattern (54 bp):
ATGATATGCAATCTTAGATATGATACAAGCTTAGATATAATTGCAATCTTAGAT
Found at i:16218544 original size:22 final size:22
Alignment explanation
Indices: 16218393--16218541 Score: 76
Period size: 19 Copynumber: 7.8 Consensus size: 22
16218383 ATAATCTTCA
16218393 ATGATATGCAATCTT---AGAT
1 ATGATATGCAATCTTAGAAGAT
16218412 ATGATA--CAATCTT---AGAT
1 ATGATATGCAATCTTAGAAGAT
*
16218429 ATGAT-TGCAATGTT---AGAT
1 ATGATATGCAATCTTAGAAGAT
16218447 ATGATATGCAATCTT---AGAT
1 ATGATATGCAATCTTAGAAGAT
*
16218466 ATGATA--CAAGCTTAG---AT
1 ATGATATGCAATCTTAGAAGAT
*
16218483 ATAAT-TGCAATCTT---AGAT
1 ATGATATGCAATCTTAGAAGAT
16218501 ATGATATGCAATCTTAGAAGAT
1 ATGATATGCAATCTTAGAAGAT
* *
16218523 ATGATTTTGTAATCTTAGA
1 ATGA-TATGCAATCTTAGA
16218542 GATTTAATTT
Statistics
Matches: 108, Mismatches: 8, Indels: 24
0.77 0.06 0.17
Matches are distributed among these distances:
17 28 0.26
18 27 0.25
19 33 0.31
22 8 0.07
23 12 0.11
ACGTcount: A:0.38, C:0.09, G:0.16, T:0.37
Consensus pattern (22 bp):
ATGATATGCAATCTTAGAAGAT
Found at i:16223356 original size:18 final size:18
Alignment explanation
Indices: 16223335--16223369 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
16223325 AATATATAAA
16223335 AATTGATGA-ACCTGGAAT
1 AATTGA-GATACCTGGAAT
16223353 AATTGAGATACCTGGAA
1 AATTGAGATACCTGGAA
16223370 CAAATTTAGC
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 2 0.12
18 14 0.88
ACGTcount: A:0.40, C:0.11, G:0.23, T:0.26
Consensus pattern (18 bp):
AATTGAGATACCTGGAAT
Found at i:16224689 original size:10 final size:11
Alignment explanation
Indices: 16224669--16224693 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
16224659 TTCAATCAAC
16224669 TTTATTTTTTT
1 TTTATTTTTTT
16224680 TTTATTTTTTT
1 TTTATTTTTTT
16224691 TTT
1 TTT
16224694 CTCATTCAAG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.08, C:0.00, G:0.00, T:0.92
Consensus pattern (11 bp):
TTTATTTTTTT
Found at i:16228674 original size:28 final size:28
Alignment explanation
Indices: 16228642--16228697 Score: 94
Period size: 28 Copynumber: 2.0 Consensus size: 28
16228632 CACTTAACGA
*
16228642 ACCCTCTTCACCAACTGTTCATTTGAGG
1 ACCCTCTTCACCAACTATTCATTTGAGG
*
16228670 ACCCTCTTCGCCAACTATTCATTTGAGG
1 ACCCTCTTCACCAACTATTCATTTGAGG
16228698 CTTACTTCTC
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
28 26 1.00
ACGTcount: A:0.21, C:0.32, G:0.14, T:0.32
Consensus pattern (28 bp):
ACCCTCTTCACCAACTATTCATTTGAGG
Found at i:16232541 original size:14 final size:14
Alignment explanation
Indices: 16232522--16232561 Score: 53
Period size: 15 Copynumber: 2.8 Consensus size: 14
16232512 CATGTCTATA
16232522 TTAAATAATAAAAT
1 TTAAATAATAAAAT
**
16232536 TTAAATTGTATAAAT
1 TTAAATAATA-AAAT
16232551 TTAAATAATAA
1 TTAAATAATAA
16232562 TTAAAATTTA
Statistics
Matches: 21, Mismatches: 4, Indels: 2
0.78 0.15 0.07
Matches are distributed among these distances:
14 9 0.43
15 12 0.57
ACGTcount: A:0.57, C:0.00, G:0.03, T:0.40
Consensus pattern (14 bp):
TTAAATAATAAAAT
Found at i:16232576 original size:27 final size:28
Alignment explanation
Indices: 16232521--16232582 Score: 74
Period size: 27 Copynumber: 2.2 Consensus size: 28
16232511 TCATGTCTAT
*
16232521 ATTAAATAATAAAATTTAAATTGTATAAA
1 ATTAAATAAT-AAATTAAAATTGTATAAA
*
16232550 TTTAAATAAT-AATTAAAATT-TATTAAA
1 ATTAAATAATAAATTAAAATTGTA-TAAA
16232577 ATTAAA
1 ATTAAA
16232583 ATTCATATTT
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
26 2 0.07
27 18 0.62
29 9 0.31
ACGTcount: A:0.58, C:0.00, G:0.02, T:0.40
Consensus pattern (28 bp):
ATTAAATAATAAATTAAAATTGTATAAA
Found at i:16236227 original size:42 final size:42
Alignment explanation
Indices: 16236168--16236251 Score: 141
Period size: 42 Copynumber: 2.0 Consensus size: 42
16236158 ATCAAGAACC
* *
16236168 ATTTTTTAAAAAGAAAATAAGTTATATCATTATGAAGGTGAT
1 ATTTTTAAAAAAAAAAATAAGTTATATCATTATGAAGGTGAT
*
16236210 ATTTTTAAAAAAAAAAATAAGTTATATCGTTATGAAGGTGAT
1 ATTTTTAAAAAAAAAAATAAGTTATATCATTATGAAGGTGAT
16236252 GAGGTTTAAA
Statistics
Matches: 39, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
42 39 1.00
ACGTcount: A:0.46, C:0.02, G:0.14, T:0.37
Consensus pattern (42 bp):
ATTTTTAAAAAAAAAAATAAGTTATATCATTATGAAGGTGAT
Found at i:16236494 original size:19 final size:19
Alignment explanation
Indices: 16236472--16236508 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
16236462 AAATCTTAAA
16236472 TTAAATAATAAAATATTAT
1 TTAAATAATAAAATATTAT
* *
16236491 TTAAATTATTAAATATTA
1 TTAAATAATAAAATATTA
16236509 ATACTAATTC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (19 bp):
TTAAATAATAAAATATTAT
Found at i:16237436 original size:18 final size:16
Alignment explanation
Indices: 16237404--16237449 Score: 65
Period size: 18 Copynumber: 2.8 Consensus size: 16
16237394 AAATGAATAA
16237404 AGAAAGAAAAAGAAAT
1 AGAAAGAAAAAGAAAT
16237420 AGAAAGAACAAACGAAAT
1 AGAAAGAA-AAA-GAAAT
*
16237438 AGAAAGGAAAAG
1 AGAAAGAAAAAG
16237450 GAAAGAAAAT
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
16 9 0.33
17 6 0.22
18 12 0.44
ACGTcount: A:0.70, C:0.04, G:0.22, T:0.04
Consensus pattern (16 bp):
AGAAAGAAAAAGAAAT
Found at i:16238398 original size:40 final size:40
Alignment explanation
Indices: 16238351--16238427 Score: 100
Period size: 40 Copynumber: 1.9 Consensus size: 40
16238341 GGGTCCCAAT
* * *
16238351 TTACTTCGATTTAACCAATGAGACACTGGGTGTCAAATTA
1 TTACTTCGAATTAACCAATGAGACACTAGGTGCCAAATTA
* * *
16238391 TTACTTCGAATTATCCGATGAGGCACTAGGTGCCAAA
1 TTACTTCGAATTAACCAATGAGACACTAGGTGCCAAA
16238428 CTGGTGTGTT
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
40 31 1.00
ACGTcount: A:0.31, C:0.19, G:0.19, T:0.30
Consensus pattern (40 bp):
TTACTTCGAATTAACCAATGAGACACTAGGTGCCAAATTA
Found at i:16241696 original size:34 final size:33
Alignment explanation
Indices: 16241595--16241703 Score: 157
Period size: 33 Copynumber: 3.2 Consensus size: 33
16241585 TCCTGTTCCT
16241595 ACACATGGAGGAAGGCTTACAAGGGTCTTGCTCCC
1 ACACATGG-GGAAGGCTTAC-AGGGTCTTGCTCCC
* *
16241630 ACACATGGGG-AGGCTTACAGGAGTCCTACTCCC
1 ACACATGGGGAAGGCTTACAGG-GTCTTGCTCCC
16241663 ACACATGGGGAAGGCTTACGAGGGTCTTGCTCCC
1 ACACATGGGGAAGGCTTAC-AGGGTCTTGCTCCC
16241697 ACACATG
1 ACACATG
16241704 AGAGACACTT
Statistics
Matches: 67, Mismatches: 4, Indels: 7
0.86 0.05 0.09
Matches are distributed among these distances:
32 3 0.04
33 27 0.40
34 26 0.39
35 11 0.16
ACGTcount: A:0.25, C:0.28, G:0.28, T:0.19
Consensus pattern (33 bp):
ACACATGGGGAAGGCTTACAGGGTCTTGCTCCC
Found at i:16242268 original size:16 final size:17
Alignment explanation
Indices: 16242247--16242279 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
16242237 CACATTGAAG
16242247 TGTTTT-TTGAAAACCT
1 TGTTTTATTGAAAACCT
16242263 TGTTTTCATTGAAAACC
1 TGTTTT-ATTGAAAACC
16242280 CTTCTTTAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 6 0.40
18 9 0.60
ACGTcount: A:0.27, C:0.15, G:0.12, T:0.45
Consensus pattern (17 bp):
TGTTTTATTGAAAACCT
Found at i:16243597 original size:28 final size:29
Alignment explanation
Indices: 16243560--16243629 Score: 88
Period size: 28 Copynumber: 2.4 Consensus size: 29
16243550 AAGTCTACAT
*
16243560 ACATGCATATGGCCCACTAGGCCC-AATC
1 ACATTCATATGGCCCACTAGGCCCAAATC
* * *
16243588 TCATTCATATGGCCTATTAGGCCCAAATC
1 ACATTCATATGGCCCACTAGGCCCAAATC
*
16243617 ACGTTCATATGGC
1 ACATTCATATGGC
16243630 TCATCCGACC
Statistics
Matches: 35, Mismatches: 6, Indels: 1
0.83 0.14 0.02
Matches are distributed among these distances:
28 20 0.57
29 15 0.43
ACGTcount: A:0.27, C:0.30, G:0.17, T:0.26
Consensus pattern (29 bp):
ACATTCATATGGCCCACTAGGCCCAAATC
Found at i:16243973 original size:42 final size:42
Alignment explanation
Indices: 16243914--16244008 Score: 172
Period size: 42 Copynumber: 2.3 Consensus size: 42
16243904 TGTAGTGTAT
*
16243914 GTACACACCTTCTGCTTTATATCAAGATATCATAGGGTAGAA
1 GTACACACCTTCGGCTTTATATCAAGATATCATAGGGTAGAA
*
16243956 GTACACACCTTCGGCTTTATATCAAGCTATCATAGGGTAGAA
1 GTACACACCTTCGGCTTTATATCAAGATATCATAGGGTAGAA
16243998 GTACACACCTT
1 GTACACACCTT
16244009 ATAACCTGGA
Statistics
Matches: 51, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
42 51 1.00
ACGTcount: A:0.32, C:0.22, G:0.17, T:0.29
Consensus pattern (42 bp):
GTACACACCTTCGGCTTTATATCAAGATATCATAGGGTAGAA
Found at i:16248964 original size:52 final size:52
Alignment explanation
Indices: 16248902--16249007 Score: 212
Period size: 52 Copynumber: 2.0 Consensus size: 52
16248892 TAAGATATCA
16248902 AAAGTAACAAAAAGTTTTCATCCAAACAACTTACACAACCAAGTTCATACTT
1 AAAGTAACAAAAAGTTTTCATCCAAACAACTTACACAACCAAGTTCATACTT
16248954 AAAGTAACAAAAAGTTTTCATCCAAACAACTTACACAACCAAGTTCATACTT
1 AAAGTAACAAAAAGTTTTCATCCAAACAACTTACACAACCAAGTTCATACTT
16249006 AA
1 AA
16249008 CTCTTTACAT
Statistics
Matches: 54, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
52 54 1.00
ACGTcount: A:0.47, C:0.23, G:0.06, T:0.25
Consensus pattern (52 bp):
AAAGTAACAAAAAGTTTTCATCCAAACAACTTACACAACCAAGTTCATACTT
Found at i:16249845 original size:26 final size:26
Alignment explanation
Indices: 16249784--16249891 Score: 175
Period size: 26 Copynumber: 4.2 Consensus size: 26
16249774 TGATACAAAT
16249784 TGATAATAGGTTAGGTAAA--TTTCA
1 TGATAATAGGTTAGGTAAATGTTTCA
*
16249808 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTTCA
*
16249834 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTTCA
*
16249860 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTTCA
16249886 TGATAA
1 TGATAA
16249892 GAATTTCATG
Statistics
Matches: 79, Mismatches: 3, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
24 19 0.24
26 60 0.76
ACGTcount: A:0.34, C:0.05, G:0.24, T:0.37
Consensus pattern (26 bp):
TGATAATAGGTTAGGTAAATGTTTCA
Found at i:16251405 original size:26 final size:26
Alignment explanation
Indices: 16251376--16251428 Score: 72
Period size: 26 Copynumber: 2.0 Consensus size: 26
16251366 TTTACAGTTT
16251376 TACCCCTAGGAGATAAATT-ACCGAAA
1 TACCCCTAGG-GATAAATTGACCGAAA
* *
16251402 TACCCCTAGGGTTAAATTGACCTAAA
1 TACCCCTAGGGATAAATTGACCGAAA
16251428 T
1 T
16251429 GCATGTTTGA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 7 0.29
26 17 0.71
ACGTcount: A:0.38, C:0.23, G:0.15, T:0.25
Consensus pattern (26 bp):
TACCCCTAGGGATAAATTGACCGAAA
Found at i:16251922 original size:137 final size:137
Alignment explanation
Indices: 16251676--16251962 Score: 556
Period size: 137 Copynumber: 2.1 Consensus size: 137
16251666 GAGTAGTCTC
16251676 CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
1 CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
16251741 TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACC
66 TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACC
16251806 ACTGTTA
131 ACTGTTA
16251813 CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
1 CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
16251878 TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACC
66 TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACC
16251943 ACTGTTA
131 ACTGTTA
**
16251950 CCTGAATGGGCTT
1 CCCAAATGGGCTT
16251963 AGGCCCAATA
Statistics
Matches: 148, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
137 148 1.00
ACGTcount: A:0.24, C:0.19, G:0.25, T:0.31
Consensus pattern (137 bp):
CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACC
ACTGTTA
Found at i:16255789 original size:26 final size:26
Alignment explanation
Indices: 16255727--16255809 Score: 141
Period size: 26 Copynumber: 3.2 Consensus size: 26
16255717 TGATACAAAT
16255727 TGATAATAGGTTAGGTAAAT-TTTCA
1 TGATAATAGGTTAGGTAAATGTTTCA
*
16255752 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTTCA
*
16255778 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTTCA
16255804 TGATAA
1 TGATAA
16255810 GAATTTCATG
Statistics
Matches: 54, Mismatches: 3, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
25 20 0.37
26 34 0.63
ACGTcount: A:0.35, C:0.05, G:0.23, T:0.37
Consensus pattern (26 bp):
TGATAATAGGTTAGGTAAATGTTTCA
Found at i:16257322 original size:26 final size:26
Alignment explanation
Indices: 16257293--16257345 Score: 63
Period size: 26 Copynumber: 2.0 Consensus size: 26
16257283 TTTACAGTTT
16257293 TACCCCTAGGAGATAAATT-ACCGAAA
1 TACCCCTAGG-GATAAATTGACCGAAA
* * *
16257319 TACCTCTAGGGTTAAATTGACCTAAA
1 TACCCCTAGGGATAAATTGACCGAAA
16257345 T
1 T
16257346 GCATGTTTGA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
25 7 0.30
26 16 0.70
ACGTcount: A:0.38, C:0.21, G:0.15, T:0.26
Consensus pattern (26 bp):
TACCCCTAGGGATAAATTGACCGAAA
Found at i:16257839 original size:137 final size:137
Alignment explanation
Indices: 16257593--16257879 Score: 556
Period size: 137 Copynumber: 2.1 Consensus size: 137
16257583 GAGTAGTCTC
16257593 CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
1 CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
16257658 TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACC
66 TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACC
16257723 ACTGTTA
131 ACTGTTA
16257730 CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
1 CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
16257795 TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACC
66 TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACC
16257860 ACTGTTA
131 ACTGTTA
**
16257867 CCTGAATGGGCTT
1 CCCAAATGGGCTT
16257880 AGGCCCAATA
Statistics
Matches: 148, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
137 148 1.00
ACGTcount: A:0.24, C:0.19, G:0.25, T:0.31
Consensus pattern (137 bp):
CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACC
ACTGTTA
Found at i:16263658 original size:17 final size:16
Alignment explanation
Indices: 16263631--16263672 Score: 50
Period size: 17 Copynumber: 2.5 Consensus size: 16
16263621 ATTAGAATTT
16263631 ATATATTTTA-TAATTAA
1 ATAT-TTTTATTAA-TAA
16263648 ATACTTTTTATTAATAA
1 ATA-TTTTTATTAATAA
16263665 ATATTTTT
1 ATATTTTT
16263673 CAAAAAACAA
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
16 5 0.22
17 14 0.61
18 4 0.17
ACGTcount: A:0.40, C:0.02, G:0.00, T:0.57
Consensus pattern (16 bp):
ATATTTTTATTAATAA
Found at i:16268940 original size:18 final size:19
Alignment explanation
Indices: 16268906--16268941 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
16268896 ATTTGATTAA
16268906 AAAATAAAAATTATTTTAT
1 AAAATAAAAATTATTTTAT
*
16268925 AAAATAATAA-TATTTTA
1 AAAATAAAAATTATTTTA
16268942 GTAATATAAG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 7 0.44
19 9 0.56
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (19 bp):
AAAATAAAAATTATTTTAT
Found at i:16273789 original size:21 final size:22
Alignment explanation
Indices: 16273760--16273816 Score: 89
Period size: 21 Copynumber: 2.6 Consensus size: 22
16273750 TTTAGGTTTC
*
16273760 TTTTATTTATTTGGGCTTGTAA
1 TTTTTTTTATTTGGGCTTGTAA
16273782 -TTTTTTTATTTGGGCTTGTAA
1 TTTTTTTTATTTGGGCTTGTAA
16273803 TTTATTTTTATTTG
1 TTT-TTTTTATTTG
16273817 TTTGTAAATT
Statistics
Matches: 32, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
21 20 0.62
22 2 0.06
23 10 0.31
ACGTcount: A:0.16, C:0.04, G:0.16, T:0.65
Consensus pattern (22 bp):
TTTTTTTTATTTGGGCTTGTAA
Found at i:16276721 original size:26 final size:26
Alignment explanation
Indices: 16276673--16276799 Score: 116
Period size: 26 Copynumber: 5.0 Consensus size: 26
16276663 CCTTTATAGG
* * *
16276673 GATTTATTT-GAGAAGACTTTGTGAT
1 GATTTATTTGGGGAAGCCTTTGTGGT
*
16276698 GATTTATTTGGGGAAGCCTCTGT-GT
1 GATTTATTTGGGGAAGCCTTTGTGGT
* ** ** * *
16276723 CGAGTTACCT-GTAAATCCTTTATGGT
1 -GATTTATTTGGGGAAGCCTTTGTGGT
16276749 GATTTATTTGGGGAAGCCTTTGTGGT
1 GATTTATTTGGGGAAGCCTTTGTGGT
*
16276775 GATTTATTTGGGAAAGCCTTTGTGG
1 GATTTATTTGGGGAAGCCTTTGTGG
16276800 CAAGTCATCT
Statistics
Matches: 78, Mismatches: 20, Indels: 7
0.74 0.19 0.07
Matches are distributed among these distances:
25 24 0.31
26 54 0.69
ACGTcount: A:0.20, C:0.10, G:0.28, T:0.41
Consensus pattern (26 bp):
GATTTATTTGGGGAAGCCTTTGTGGT
Found at i:16276792 original size:77 final size:76
Alignment explanation
Indices: 16276661--16276849 Score: 220
Period size: 77 Copynumber: 2.5 Consensus size: 76
16276651 TTGTGTGAGA
* * * * * *
16276661 AACCTTTATAGG-GATTTATTTGAGAAGACTTTGTGATGATTTATTTGGGGAAGCCTCTGTGTCG
1 AACCTTTAT-GGTGATTTATTTGGGAAGCCTTTGTGGTGATTTATTTGGGAAAGCCTCTGTGGCA
*
16276725 AGTTACCTGTA-
65 AGTCACCTGTAC
*
16276736 AATCCTTTATGGTGATTTATTTGGGGAAGCCTTTGTGGTGATTTATTTGGGAAAGCCTTTGTGGC
1 AA-CCTTTATGGTGATTTATTT-GGGAAGCCTTTGTGGTGATTTATTTGGGAAAGCCTCTGTGGC
*
16276801 AAGTCATCTGTAC
64 AAGTCACCTGTAC
* * * *
16276814 AACTTTTGTGGTAATTTATTTGGGATGCCTTTGTGG
1 AACCTTTATGGTGATTTATTTGGGAAGCCTTTGTGG
16276850 CAGGTTATCT
Statistics
Matches: 97, Mismatches: 13, Indels: 7
0.83 0.11 0.06
Matches are distributed among these distances:
75 4 0.04
76 30 0.31
77 61 0.63
78 2 0.02
ACGTcount: A:0.21, C:0.12, G:0.26, T:0.41
Consensus pattern (76 bp):
AACCTTTATGGTGATTTATTTGGGAAGCCTTTGTGGTGATTTATTTGGGAAAGCCTCTGTGGCAA
GTCACCTGTAC
Found at i:16276846 original size:25 final size:25
Alignment explanation
Indices: 16276739--16276849 Score: 89
Period size: 26 Copynumber: 4.4 Consensus size: 25
16276729 ACCTGTAAAT
* *
16276739 CCTTTATGGTGATTTATTTGGGGAAG
1 CCTTTGTGGTAATTTATTT-GGGAAG
*
16276765 CCTTTGTGGTGATTTATTTGGGAAAG
1 CCTTTGTGGTAATTTATTTGGG-AAG
* * * * * *
16276791 CCTTTGTGGCAAGTCATCT-GTACAA
1 CCTTTGTGGTAATTTATTTGGGA-AG
* *
16276816 CTTTTGTGGTAATTTATTTGGGATG
1 CCTTTGTGGTAATTTATTTGGGAAG
16276841 CCTTTGTGG
1 CCTTTGTGG
16276850 CAGGTTATCT
Statistics
Matches: 65, Mismatches: 17, Indels: 7
0.73 0.19 0.08
Matches are distributed among these distances:
24 1 0.02
25 27 0.42
26 37 0.57
ACGTcount: A:0.18, C:0.12, G:0.28, T:0.42
Consensus pattern (25 bp):
CCTTTGTGGTAATTTATTTGGGAAG
Found at i:16276872 original size:50 final size:51
Alignment explanation
Indices: 16276766--16276876 Score: 147
Period size: 50 Copynumber: 2.2 Consensus size: 51
16276756 TTGGGGAAGC
*
16276766 CTTTGTGGTGATTTATTTGGGAAAGCCTTTGTGGCAAGTCATCTGTACAACT
1 CTTTGTGGTAATTTATTTGGGAAAGCCTTTGTGGCAAGTCATCTGTA-AACT
* * *
16276818 -TTTGTGGTAATTTATTTGGG-ATGCCTTTGTGGCAGGTTATCTGT-AACGT
1 CTTTGTGGTAATTTATTTGGGAAAGCCTTTGTGGCAAGTCATCTGTAAAC-T
16276867 CTTTGTGGTA
1 CTTTGTGGTA
16276877 GGTTACCTAT
Statistics
Matches: 53, Mismatches: 4, Indels: 6
0.84 0.06 0.10
Matches are distributed among these distances:
48 3 0.06
49 1 0.02
50 30 0.57
51 19 0.36
ACGTcount: A:0.18, C:0.13, G:0.27, T:0.42
Consensus pattern (51 bp):
CTTTGTGGTAATTTATTTGGGAAAGCCTTTGTGGCAAGTCATCTGTAAACT
Found at i:16284385 original size:3 final size:3
Alignment explanation
Indices: 16284377--16284404 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
16284367 GACAAGTGAC
16284377 ATA ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA A
16284405 CTAGAAGTGA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:16286018 original size:30 final size:30
Alignment explanation
Indices: 16285982--16286039 Score: 107
Period size: 30 Copynumber: 1.9 Consensus size: 30
16285972 ATCCAAAGAC
*
16285982 ACAAAGGGATAATTAATGATGCACTATGAT
1 ACAAAGGGATAATTAATAATGCACTATGAT
16286012 ACAAAGGGATAATTAATAATGCACTATG
1 ACAAAGGGATAATTAATAATGCACTATG
16286040 TTCTAGTCAG
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.45, C:0.10, G:0.19, T:0.26
Consensus pattern (30 bp):
ACAAAGGGATAATTAATAATGCACTATGAT
Found at i:16286623 original size:26 final size:26
Alignment explanation
Indices: 16286571--16286681 Score: 159
Period size: 26 Copynumber: 4.2 Consensus size: 26
16286561 TGGTACAAAT
16286571 TGATAATGGCGTTAGGTAAAATATTCCA
1 TGATAATGG-GTTAGGT-AAATATTCCA
*
16286599 TGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATATTCCA
*
16286625 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATATTCCA
* *
16286651 TGATAATGGTTTAGGTAAATGTTTCCA
1 TGATAATGGGTTAGGTAAAT-ATTCCA
16286678 TGAT
1 TGAT
16286682 GGGAATTTCA
Statistics
Matches: 77, Mismatches: 5, Indels: 3
0.91 0.06 0.04
Matches are distributed among these distances:
26 53 0.69
27 15 0.19
28 9 0.12
ACGTcount: A:0.33, C:0.08, G:0.23, T:0.36
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATATTCCA
Found at i:16292367 original size:26 final size:26
Alignment explanation
Indices: 16292338--16292446 Score: 182
Period size: 26 Copynumber: 4.2 Consensus size: 26
16292328 TGGTACAAAT
16292338 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
16292364 TGATAATAGGATTAGGTAAATATTCCA
1 TGATAAT-GGGTTAGGTAAATGTTCCA
16292391 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
16292417 TGATAATGGTTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
16292443 TGAT
1 TGAT
16292447 GGGAATTTCA
Statistics
Matches: 77, Mismatches: 5, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
26 53 0.69
27 24 0.31
ACGTcount: A:0.33, C:0.07, G:0.24, T:0.36
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:16292401 original size:53 final size:52
Alignment explanation
Indices: 16292338--16292446 Score: 191
Period size: 53 Copynumber: 2.1 Consensus size: 52
16292328 TGGTACAAAT
16292338 TGATAATGGGTTAGGTAAATGTTCCATGATAATAGGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCATGATAAT-GGATTAGGTAAATATTCCA
* *
16292391 TGATAATGGGTTAGGTAAATGTTCCATGATAATGGTTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCATGATAATGGATTAGGTAAATATTCCA
16292443 TGAT
1 TGAT
16292447 GGGAATTTCA
Statistics
Matches: 54, Mismatches: 2, Indels: 1
0.95 0.04 0.02
Matches are distributed among these distances:
52 21 0.39
53 33 0.61
ACGTcount: A:0.33, C:0.07, G:0.24, T:0.36
Consensus pattern (52 bp):
TGATAATGGGTTAGGTAAATGTTCCATGATAATGGATTAGGTAAATATTCCA
Found at i:16296985 original size:406 final size:406
Alignment explanation
Indices: 16296233--16297002 Score: 1459
Period size: 406 Copynumber: 1.9 Consensus size: 406
16296223 TAAAAACATA
*
16296233 AAAATTACAAGAAAAAGACTTAATTGCGCTAACCAATTTATGGATTTAAGATGTATTTCTCTCCC
1 AAAATTACAAGAAAAAGACTTAATTGCGCTAACCAATTTATGGATTGAAGATGTATTTCTCTCCC
16296298 TTCCCACCGAACATGCATATATTATATTAAGTTTAAATTATTAATTATATAATTATACCATCCAC
66 TTCCCACCGAACATGCATATATTATATTAAGTTTAAATTATTAATTATATAATTATACCATCCAC
16296363 TTACATGAAATTTAACATGGTATAATTTCTATTTTGAACCTTGGGTTAATTACAATTTAAGTCCT
131 TTACATGAAATTTAACATGGTATAATTTCTATTTTGAACCTTGGGTTAATTACAATTTAAGTCCT
* * * *
16296428 TTAGCCATTTACTAATTAAAAATCTATAGTGATTAAACTTTACGATTTAGTCCCTGGACCTCAAT
196 TAAGCCATTTACTAATTAAAAATCTATAGCGATTAAACTTTACAATTTAGTCCCTGGACATCAAT
*
16296493 TAAGCCCTAATACGGCTAAATTACTTATCCAAAATTCAATTCACTTATAACACAACTCCATAAAT
261 TAAGCCCTAATACGGCTAAATTACTTATCCAAAATTCAATTCACTTATAAAACAACTCCATAAAT
16296558 ATTTTTATTCAAATTTAATAAAAATATGTACAGGTTCGAAGATGTATTTCTCTCCCTTCCCACCG
326 ATTTTTATTCAAATTTAATAAAAATATGTACAGGTTCGAAGATGTATTTCTCTCCCTTCCCACCG
16296623 AACATGCATATATTAT
391 AACATGCATATATTAT
16296639 AAAATTACAAGAAAAAGACTTAATTGCGCTAACCAATTTATGGATTGAAGATGTATTTCTCTCCC
1 AAAATTACAAGAAAAAGACTTAATTGCGCTAACCAATTTATGGATTGAAGATGTATTTCTCTCCC
*
16296704 TTCCCACCGAACATGTATATATTATATTAAGTTTAAATTATTAATTATATAATTATACCATCCAC
66 TTCCCACCGAACATGCATATATTATATTAAGTTTAAATTATTAATTATATAATTATACCATCCAC
*
16296769 TTACATGAAATTTAACATGGTATAATTTCTATTTTGAACCTTGGGTTAATTGCAATTTAAGTCCT
131 TTACATGAAATTTAACATGGTATAATTTCTATTTTGAACCTTGGGTTAATTACAATTTAAGTCCT
16296834 TAAGCCATTTACTAATTAAAAATCTATAGCGATTAAACTTTACAATTTAGTCCCTGGACATCAAT
196 TAAGCCATTTACTAATTAAAAATCTATAGCGATTAAACTTTACAATTTAGTCCCTGGACATCAAT
*
16296899 TAAGCCCTAATACGGCTAAATTACTTTTCCAAAATTCAATTCACTTATAAAACAACTCCATAAAT
261 TAAGCCCTAATACGGCTAAATTACTTATCCAAAATTCAATTCACTTATAAAACAACTCCATAAAT
16296964 ATTTTTATTCAAATTTAATAAAAATATGTACAGGTTCGA
326 ATTTTTATTCAAATTTAATAAAAATATGTACAGGTTCGA
16297003 TTTACAAAAA
Statistics
Matches: 355, Mismatches: 9, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
406 355 1.00
ACGTcount: A:0.37, C:0.17, G:0.09, T:0.36
Consensus pattern (406 bp):
AAAATTACAAGAAAAAGACTTAATTGCGCTAACCAATTTATGGATTGAAGATGTATTTCTCTCCC
TTCCCACCGAACATGCATATATTATATTAAGTTTAAATTATTAATTATATAATTATACCATCCAC
TTACATGAAATTTAACATGGTATAATTTCTATTTTGAACCTTGGGTTAATTACAATTTAAGTCCT
TAAGCCATTTACTAATTAAAAATCTATAGCGATTAAACTTTACAATTTAGTCCCTGGACATCAAT
TAAGCCCTAATACGGCTAAATTACTTATCCAAAATTCAATTCACTTATAAAACAACTCCATAAAT
ATTTTTATTCAAATTTAATAAAAATATGTACAGGTTCGAAGATGTATTTCTCTCCCTTCCCACCG
AACATGCATATATTAT
Found at i:16298710 original size:2 final size:2
Alignment explanation
Indices: 16298703--16298734 Score: 55
Period size: 2 Copynumber: 16.0 Consensus size: 2
16298693 TAAAATTATG
*
16298703 AT AT AT AT AT AT AT AT AT AT AC AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
16298735 TATTAAGAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:16308552 original size:43 final size:43
Alignment explanation
Indices: 16308499--16308653 Score: 134
Period size: 43 Copynumber: 3.6 Consensus size: 43
16308489 AACTTTAGCT
* *
16308499 ACGCATTTCACACAAATGCCGCTAAAAAATGTGACTTTTAACG
1 ACGCATTTCACACAAACGCCGCTAAAAAATGTGACATTTAACG
* * *
16308542 ACGCCTTTCACACAAACGCCGCTAAAGAATGTGACATTTAGCG
1 ACGCATTTCACACAAACGCCGCTAAAAAATGTGACATTTAACG
* * * * * * * *
16308585 GCACATTTCATACAAGCGCCACTAAATAACA-G-AACCTTTAGCG
1 ACGCATTTCACACAAACGCCGCTAAA-AA-ATGTGACATTTAACG
* * *
16308628 GCGCTTTTCACACAAACGTCGCTAAA
1 ACGCATTTCACACAAACGCCGCTAAA
16308654 GAACATGACG
Statistics
Matches: 90, Mismatches: 20, Indels: 4
0.79 0.18 0.04
Matches are distributed among these distances:
43 87 0.97
44 2 0.02
45 1 0.01
ACGTcount: A:0.35, C:0.27, G:0.15, T:0.23
Consensus pattern (43 bp):
ACGCATTTCACACAAACGCCGCTAAAAAATGTGACATTTAACG
Found at i:16312094 original size:13 final size:14
Alignment explanation
Indices: 16312068--16312096 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
16312058 ACTAAAGATG
16312068 AATTAAACCATTAT
1 AATTAAACCATTAT
16312082 AATTAAA-CATTAT
1 AATTAAACCATTAT
16312095 AA
1 AA
16312097 ATATTTAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 8 0.53
14 7 0.47
ACGTcount: A:0.55, C:0.10, G:0.00, T:0.34
Consensus pattern (14 bp):
AATTAAACCATTAT
Found at i:16312370 original size:12 final size:12
Alignment explanation
Indices: 16312355--16312380 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
16312345 ATCATCCTCT
16312355 TCATCAGATTCA
1 TCATCAGATTCA
16312367 TCATCAGATTCA
1 TCATCAGATTCA
16312379 TC
1 TC
16312381 CCTCGATCTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.31, C:0.27, G:0.08, T:0.35
Consensus pattern (12 bp):
TCATCAGATTCA
Found at i:16314567 original size:18 final size:20
Alignment explanation
Indices: 16314544--16314582 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 20
16314534 AAGAGGGAAT
16314544 AAAG-AAATG-GAAAAAAAA
1 AAAGAAAATGAGAAAAAAAA
16314562 AAAGAAAATGATGAAAAAAAA
1 AAAGAAAATGA-GAAAAAAAA
16314583 TGTGTGTGGA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
18 4 0.22
19 5 0.28
21 9 0.50
ACGTcount: A:0.77, C:0.00, G:0.15, T:0.08
Consensus pattern (20 bp):
AAAGAAAATGAGAAAAAAAA
Found at i:16315921 original size:29 final size:29
Alignment explanation
Indices: 16315889--16315991 Score: 118
Period size: 29 Copynumber: 3.6 Consensus size: 29
16315879 GTGACGAGAT
* *
16315889 TGGCACTGAGTGTGCGAGCTTGAAATGTA
1 TGGCACTAAGTGTGCGAGCTTGAAATATA
* * *
16315918 TGGCACTAAGTGTGCGAGTTTGGACTATA
1 TGGCACTAAGTGTGCGAGCTTGAAATATA
* * *
16315947 TGGCACTATGTGTGCGGGCTT-AAATCACA
1 TGGCACTAAGTGTGCGAGCTTGAAAT-ATA
16315976 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
16315992 TGATCCAGTA
Statistics
Matches: 61, Mismatches: 12, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
28 2 0.03
29 59 0.97
ACGTcount: A:0.23, C:0.17, G:0.32, T:0.28
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGAGCTTGAAATATA
Found at i:16317505 original size:9 final size:9
Alignment explanation
Indices: 16317491--16317518 Score: 56
Period size: 9 Copynumber: 3.1 Consensus size: 9
16317481 TATGTATTAC
16317491 GTAAGTTAT
1 GTAAGTTAT
16317500 GTAAGTTAT
1 GTAAGTTAT
16317509 GTAAGTTAT
1 GTAAGTTAT
16317518 G
1 G
16317519 ATATATATTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 19 1.00
ACGTcount: A:0.32, C:0.00, G:0.25, T:0.43
Consensus pattern (9 bp):
GTAAGTTAT
Found at i:16320619 original size:40 final size:40
Alignment explanation
Indices: 16320575--16320651 Score: 127
Period size: 40 Copynumber: 1.9 Consensus size: 40
16320565 TACGGTACGT
*
16320575 TTGGTGTGTAGGGCTGGATAGGTCGATTTTATCCCCATAC
1 TTGGTGTGTAGGGCTGGATAGGTCAATTTTATCCCCATAC
* *
16320615 TTGGTGTGTAGGGCTGGGTGGGTCAATTTTATCCCCA
1 TTGGTGTGTAGGGCTGGATAGGTCAATTTTATCCCCA
16320652 CATGGTATGT
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
40 34 1.00
ACGTcount: A:0.16, C:0.17, G:0.32, T:0.35
Consensus pattern (40 bp):
TTGGTGTGTAGGGCTGGATAGGTCAATTTTATCCCCATAC
Found at i:16321969 original size:7 final size:7
Alignment explanation
Indices: 16321959--16321988 Score: 60
Period size: 7 Copynumber: 4.3 Consensus size: 7
16321949 TTAACCCAAC
16321959 ACCCTAA
1 ACCCTAA
16321966 ACCCTAA
1 ACCCTAA
16321973 ACCCTAA
1 ACCCTAA
16321980 ACCCTAA
1 ACCCTAA
16321987 AC
1 AC
16321989 TTCAACCACT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 23 1.00
ACGTcount: A:0.43, C:0.43, G:0.00, T:0.13
Consensus pattern (7 bp):
ACCCTAA
Found at i:16322025 original size:20 final size:20
Alignment explanation
Indices: 16321972--16322028 Score: 71
Period size: 20 Copynumber: 2.9 Consensus size: 20
16321962 CTAAACCCTA
*
16321972 AACCCTAAACCCTAAACTTC
1 AACCCTAAACCTTAAACTTC
*
16321992 AACCACT-AACCTTAAACTTT
1 AACC-CTAAACCTTAAACTTC
*
16322012 AACCCTAAATCTTAAAC
1 AACCCTAAACCTTAAAC
16322029 ACTGAAACCA
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
19 2 0.06
20 28 0.88
21 2 0.06
ACGTcount: A:0.42, C:0.33, G:0.00, T:0.25
Consensus pattern (20 bp):
AACCCTAAACCTTAAACTTC
Found at i:16324377 original size:14 final size:13
Alignment explanation
Indices: 16324355--16324407 Score: 54
Period size: 14 Copynumber: 3.8 Consensus size: 13
16324345 GAATTATTAT
*
16324355 TTAATTAATTATAA
1 TTAAATAATTA-AA
16324369 TTAAATAATTAAA
1 TTAAATAATTAAA
16324382 GTTAGAA-AATTAAA
1 -TTA-AATAATTAAA
16324396 TTAAATTAATTA
1 TTAAA-TAATTA
16324408 GCCATTGTGA
Statistics
Matches: 34, Mismatches: 1, Indels: 8
0.79 0.02 0.19
Matches are distributed among these distances:
12 2 0.06
13 5 0.15
14 25 0.74
15 2 0.06
ACGTcount: A:0.55, C:0.00, G:0.04, T:0.42
Consensus pattern (13 bp):
TTAAATAATTAAA
Found at i:16326006 original size:22 final size:22
Alignment explanation
Indices: 16325950--16326008 Score: 75
Period size: 22 Copynumber: 2.7 Consensus size: 22
16325940 TAAGAGGTAT
*
16325950 TTACAAATCAAATC-TCTAAGA
1 TTACAAATCATATCTTCTAAGA
*
16325971 TTACAAAATTATATCTTCTAAGA
1 TTAC-AAATCATATCTTCTAAGA
*
16325994 TTACATATCATATCT
1 TTACAAATCATATCT
16326009 AAGATTGCAT
Statistics
Matches: 32, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
21 4 0.12
22 17 0.53
23 11 0.34
ACGTcount: A:0.42, C:0.17, G:0.03, T:0.37
Consensus pattern (22 bp):
TTACAAATCATATCTTCTAAGA
Found at i:16329372 original size:33 final size:33
Alignment explanation
Indices: 16329317--16329472 Score: 113
Period size: 33 Copynumber: 4.7 Consensus size: 33
16329307 AATTGATGGA
* *
16329317 TAAGACCATGGCTGGGCCATGGCAATATATGTG
1 TAAGACCATAGCTGGGCTATGGCAATATATGTG
* * *
16329350 TAAGACCATAGCTAGGCTATGGC-ATCCTGATG-A
1 TAAGACCATAGCTGGGCTATGGCAAT-AT-ATGTG
* * ** *
16329383 TAAGACCAT-GTTTGGGATATGGCACCACGA-GTG
1 TAAGACCATAG-CTGGGCTATGGCAATA-TATGTG
* * *
16329416 TAAGACCATGGCTGGGCCATGGCAATACATGTG
1 TAAGACCATAGCTGGGCTATGGCAATATATGTG
* *
16329449 TAAGACCATAGTTGGACTATGGCA
1 TAAGACCATAGCTGGGCTATGGCA
16329473 TCATACCAGA
Statistics
Matches: 92, Mismatches: 23, Indels: 16
0.70 0.18 0.12
Matches are distributed among these distances:
32 5 0.05
33 83 0.90
34 4 0.04
ACGTcount: A:0.29, C:0.19, G:0.28, T:0.24
Consensus pattern (33 bp):
TAAGACCATAGCTGGGCTATGGCAATATATGTG
Found at i:16329595 original size:46 final size:46
Alignment explanation
Indices: 16329537--16329647 Score: 186
Period size: 46 Copynumber: 2.4 Consensus size: 46
16329527 TTCAAATGTG
16329537 TAAGACCATGGTTGAAAGATACCATGACAACATGACAGGAAATAAA
1 TAAGACCATGGTTGAAAGATACCATGACAACATGACAGGAAATAAA
* * *
16329583 TAAGACCGTGGTTGAAAGATACCATGACAACATGACAGGAAATGAG
1 TAAGACCATGGTTGAAAGATACCATGACAACATGACAGGAAATAAA
*
16329629 TAAGACCATAGTTGAAAGA
1 TAAGACCATGGTTGAAAGA
16329648 AAATGAGTAA
Statistics
Matches: 60, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
46 60 1.00
ACGTcount: A:0.45, C:0.14, G:0.23, T:0.18
Consensus pattern (46 bp):
TAAGACCATGGTTGAAAGATACCATGACAACATGACAGGAAATAAA
Found at i:16329656 original size:26 final size:26
Alignment explanation
Indices: 16329622--16329673 Score: 104
Period size: 26 Copynumber: 2.0 Consensus size: 26
16329612 ACATGACAGG
16329622 AAATGAGTAAGACCATAGTTGAAAGA
1 AAATGAGTAAGACCATAGTTGAAAGA
16329648 AAATGAGTAAGACCATAGTTGAAAGA
1 AAATGAGTAAGACCATAGTTGAAAGA
16329674 CACTATGGCA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.50, C:0.08, G:0.23, T:0.19
Consensus pattern (26 bp):
AAATGAGTAAGACCATAGTTGAAAGA
Found at i:16334039 original size:23 final size:22
Alignment explanation
Indices: 16333994--16334051 Score: 64
Period size: 22 Copynumber: 2.6 Consensus size: 22
16333984 AAGCGGTATC
* *
16333994 TACAAATCAAATC-TCTAAAAT
1 TACAAATTATATCTTCTAAAAT
*
16334015 TACAAAATTATATCTTCTAAGAT
1 TAC-AAATTATATCTTCTAAAAT
*
16334038 TACATATTATATCT
1 TACAAATTATATCT
16334052 AAGATTGCAT
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
21 3 0.10
22 18 0.58
23 10 0.32
ACGTcount: A:0.45, C:0.16, G:0.02, T:0.38
Consensus pattern (22 bp):
TACAAATTATATCTTCTAAAAT
Found at i:16342141 original size:28 final size:28
Alignment explanation
Indices: 16342101--16342155 Score: 110
Period size: 28 Copynumber: 2.0 Consensus size: 28
16342091 TGGGCACAAA
16342101 GATGCTGAATTTAATAGTTTCAACTTAT
1 GATGCTGAATTTAATAGTTTCAACTTAT
16342129 GATGCTGAATTTAATAGTTTCAACTTA
1 GATGCTGAATTTAATAGTTTCAACTTA
16342156 GGATTGTGAT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.33, C:0.11, G:0.15, T:0.42
Consensus pattern (28 bp):
GATGCTGAATTTAATAGTTTCAACTTAT
Found at i:16344942 original size:117 final size:117
Alignment explanation
Indices: 16344745--16345210 Score: 505
Period size: 117 Copynumber: 4.0 Consensus size: 117
16344735 CTTGTTCTCT
* * * ** *
16344745 AATTTCATTTTCATCGGAACTA-AG--TCTATGCCTTCCACGATGCTCAAAGGGATCACTTACAG
1 AATTTCATTTCCATCGGAACTATGGCTTCTACGCCTTTGACGATGCTCAAGGGGATCACTTACAG
* * * *
16344807 A-TCTAGCTCCCAAGAAATGATGCCTGA-GAAGAGGCCAGCCGAAAGGTTCTTG
66 ATTC-AGCTCCCAAGAAATGACGCCTGAGGAA-AGGCCAACCTAAAGATTCTTG
* ** * *** * *
16344859 ATTTTCATTTTGACCGGAACTATGGAAGCTACACCTTTGACGATGCTCAAGGGGATTACTTACAG
1 AATTTCATTTCCATCGGAACTATGGCTTCTACGCCTTTGACGATGCTCAAGGGGATCACTTACAG
** *
16344924 ATTCAGCTCCC-AGAAAATGACGCCTGAGGAAAGGCCGGCCTAAAGATTCTAG
66 ATTCAGCTCCCAAG-AAATGACGCCTGAGGAAAGGCCAACCTAAAGATTCTTG
* * * * * *
16344976 AATTTCATTTCCATTGGAACCATAGCTTCTACGCCTTTGACGATGCTCAAGGTGATTACTTATAG
1 AATTTCATTTCCATCGGAACTATGGCTTCTACGCCTTTGACGATGCTCAAGGGGATCACTTACAG
* * * *
16345041 ATTCTGCTCCCAAGAAATAACGCCCGAGGAAAGGCCAACCTAAAGGTTCTTG
66 ATTCAGCTCCCAAGAAATGACGCCTGAGGAAAGGCCAACCTAAAGATTCTTG
* *
16345093 AATTTCATTTCCATCAGAACTATGGCTTCTACGCCTTTGACGATGCTCAAGGGGATCACTTATAG
1 AATTTCATTTCCATCGGAACTATGGCTTCTACGCCTTTGACGATGCTCAAGGGGATCACTTACAG
* * * *
16345158 ATTC-GACTTCTAGGAAATGATGCCTGAGGAAAGGCCAACCTAAAGATTCTTG
66 ATTCAG-CTCCCAAGAAATGACGCCTGAGGAAAGGCCAACCTAAAGATTCTTG
16345210 A
1 A
16345211 TTATTAGAAC
Statistics
Matches: 295, Mismatches: 49, Indels: 13
0.83 0.14 0.04
Matches are distributed among these distances:
114 19 0.06
115 1 0.00
116 3 0.01
117 265 0.90
118 7 0.02
ACGTcount: A:0.30, C:0.23, G:0.21, T:0.27
Consensus pattern (117 bp):
AATTTCATTTCCATCGGAACTATGGCTTCTACGCCTTTGACGATGCTCAAGGGGATCACTTACAG
ATTCAGCTCCCAAGAAATGACGCCTGAGGAAAGGCCAACCTAAAGATTCTTG
Found at i:16345190 original size:234 final size:234
Alignment explanation
Indices: 16344781--16345207 Score: 574
Period size: 234 Copynumber: 1.8 Consensus size: 234
16344771 TATGCCTTCC
* * * *
16344781 ACGATGCTCAAAGGGATCACTTACAGATCTAGCTCCCAAGAAATGATGCCTGAGAAGAGGCCAGC
1 ACGATGCTCAAAGGGATCACTTACAGATCTAGCTCCCAAGAAATAACGCCCGAGAAGAGGCCAAC
* ** *
16344846 CGAAAGGTTCTTGATTTTCATTTTGACCGGAACTATGGAAGCTACACCTTTGACGATGCTCAAGG
66 CGAAAGGTTCTTGAATTTCATTTCCACCAGAACTATGGAAGCTACACCTTTGACGATGCTCAAGG
* **
16344911 GGATTACTTACAGATTCAGCTCCCAGAAAATGACGCCTGAGGAAAGGCCGGCCTAAAGATTCTAG
131 GGATCACTTACAGATTCAGCTCCCAGAAAATGACGCCTGAGGAAAGGCCAACCTAAAGATTCTAG
16344976 AATTTCATTTCCATTGGAACCATAGCTTCTACGCCTTTG
196 AATTTCATTTCCATTGGAACCATAGCTTCTACGCCTTTG
* *
16345015 ACGATGCTC-AAGGTGATTACTTATAGATTCT-GCTCCCAAGAAATAACGCCCGAGGAA-AGGCC
1 ACGATGCTCAAAGG-GATCACTTACAGA-TCTAGCTCCCAAGAAATAACGCCCGA-GAAGAGGCC
* * *** *
16345077 AACCTAAAGGTTCTTGAATTTCATTTCCATCAGAACTATGGCTTCTACGCCTTTGACGATGCTCA
63 AACCGAAAGGTTCTTGAATTTCATTTCCACCAGAACTATGGAAGCTACACCTTTGACGATGCTCA
* * * * *
16345142 AGGGGATCACTTATAGATTC-GACTTCTAGGAAATGATGCCTGAGGAAAGGCCAACCTAAAGATT
128 AGGGGATCACTTACAGATTCAG-CTCCCAGAAAATGACGCCTGAGGAAAGGCCAACCTAAAGATT
16345206 CT
192 CT
16345208 TGATTATTAG
Statistics
Matches: 165, Mismatches: 24, Indels: 8
0.84 0.12 0.04
Matches are distributed among these distances:
233 5 0.03
234 154 0.93
235 6 0.04
ACGTcount: A:0.30, C:0.23, G:0.22, T:0.26
Consensus pattern (234 bp):
ACGATGCTCAAAGGGATCACTTACAGATCTAGCTCCCAAGAAATAACGCCCGAGAAGAGGCCAAC
CGAAAGGTTCTTGAATTTCATTTCCACCAGAACTATGGAAGCTACACCTTTGACGATGCTCAAGG
GGATCACTTACAGATTCAGCTCCCAGAAAATGACGCCTGAGGAAAGGCCAACCTAAAGATTCTAG
AATTTCATTTCCATTGGAACCATAGCTTCTACGCCTTTG
Found at i:16345358 original size:150 final size:150
Alignment explanation
Indices: 16345093--16345520 Score: 547
Period size: 150 Copynumber: 2.9 Consensus size: 150
16345083 AAGGTTCTTG
* * * *
16345093 AATTTCATTTCCATCAGAACTATGGCTTCTACGCCTTTGACGATGCTCAAGGGGATCACTTATAG
1 AATTTCATTTCCATCAGAACTATGGCTTCTACGCCTTCGACGATGCTCAAGGGGATTATTTACAG
* * * * *
16345158 ATTCGACTTCTAGGAAATGATGCCTGAGGAAAGGCCAACCTAAAGATTCTTGATTATTAGAACGT
66 ATTCGGCTCCTAGTAAATGATGCCTGAGCAAAGGCCAACCTAAAGGTTCTTGATTATTAGAACGT
16345223 TGTAC-GTGTTCTTGTTCTCT
131 TGTACAG-GTTCTTGTTCTCT
* ** * * *
16345243 AATTTCACTTCCATGGGAACTATGGCTTCTACACCTTCGACGATGCTCCAGGGGATTATTTACAA
1 AATTTCATTTCCATCAGAACTATGGCTTCTACGCCTTCGACGATGCTCAAGGGGATTATTTACAG
* * * * *
16345308 ATTCGGCTCCCAGTAAATGACT-TCTGAGCAACGGCCAACCTAAAGGTTCTTGATTATCAAAACG
66 ATTCGGCTCCTAGTAAATGA-TGCCTGAGCAAAGGCCAACCTAAAGGTTCTTGATTATTAGAACG
*
16345372 TTGTGCAGGTTCTTGTTCTCT
130 TTGTACAGGTTCTTGTTCTCT
* * *
16345393 AATTTCATTTCCATCAAAACTATGGCTTCTACGCCCTCGAAGA-GACTCAAGGGGATTATTTACA
1 AATTTCATTTCCATCAGAACTATGGCTTCTACGCCTTCGACGATG-CTCAAGGGGATTATTTACA
* * * * *
16345457 GATTCGGGTCCTAGTAAACGATGCCCGAGCAAAGGCCAACCTATAGGTTCTTGATTATTGGAAC
65 GATTCGGCTCCTAGTAAATGATGCCTGAGCAAAGGCCAACCTAAAGGTTCTTGATTATTAGAAC
16345521 AATCACGATT
Statistics
Matches: 234, Mismatches: 40, Indels: 8
0.83 0.14 0.03
Matches are distributed among these distances:
149 2 0.01
150 230 0.98
151 2 0.01
ACGTcount: A:0.27, C:0.22, G:0.20, T:0.31
Consensus pattern (150 bp):
AATTTCATTTCCATCAGAACTATGGCTTCTACGCCTTCGACGATGCTCAAGGGGATTATTTACAG
ATTCGGCTCCTAGTAAATGATGCCTGAGCAAAGGCCAACCTAAAGGTTCTTGATTATTAGAACGT
TGTACAGGTTCTTGTTCTCT
Found at i:16348264 original size:5 final size:6
Alignment explanation
Indices: 16348247--16348271 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
16348237 ATATCTCATT
16348247 ATAAAA ATAAAA ATAAAA ATAAAA A
1 ATAAAA ATAAAA ATAAAA ATAAAA A
16348272 AACTTTCCTC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.84, C:0.00, G:0.00, T:0.16
Consensus pattern (6 bp):
ATAAAA
Found at i:16350483 original size:19 final size:19
Alignment explanation
Indices: 16350440--16350488 Score: 57
Period size: 19 Copynumber: 2.6 Consensus size: 19
16350430 TATGCTTTTT
*
16350440 ATATTTTTATACTTTTTAAT
1 ATATTTTTATA-TTTTTAAA
16350460 A-ATTTTTAT-TTTTTAAAA
1 ATATTTTTATATTTTT-AAA
16350478 ATATTTTTATA
1 ATATTTTTATA
16350489 ATCTTTTTGA
Statistics
Matches: 25, Mismatches: 1, Indels: 6
0.78 0.03 0.19
Matches are distributed among these distances:
17 5 0.20
18 3 0.12
19 16 0.64
20 1 0.04
ACGTcount: A:0.35, C:0.02, G:0.00, T:0.63
Consensus pattern (19 bp):
ATATTTTTATATTTTTAAA
Found at i:16351499 original size:2 final size:2
Alignment explanation
Indices: 16351440--16351479 Score: 80
Period size: 2 Copynumber: 20.0 Consensus size: 2
16351430 TTATTTTGTT
16351440 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
16351480 ATTTGAAACA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:16355137 original size:21 final size:21
Alignment explanation
Indices: 16355111--16355154 Score: 88
Period size: 21 Copynumber: 2.1 Consensus size: 21
16355101 ACCAAAACTC
16355111 TTATGGAAATATTATCTTATG
1 TTATGGAAATATTATCTTATG
16355132 TTATGGAAATATTATCTTATG
1 TTATGGAAATATTATCTTATG
16355153 TT
1 TT
16355155 GATTTTTAGC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.32, C:0.05, G:0.14, T:0.50
Consensus pattern (21 bp):
TTATGGAAATATTATCTTATG
Found at i:16361902 original size:39 final size:39
Alignment explanation
Indices: 16361848--16362117 Score: 310
Period size: 39 Copynumber: 6.7 Consensus size: 39
16361838 GAATGCTCGA
16361848 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATT
1 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATT
* * ** *
16361887 GTGATACCCGGGCTAAGCCCAAAGGCAATTGTGTGAGTT
1 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATT
*
16361926 ATGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATT
1 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATT
* * * *
16361965 GTGATATCCGGGTTAAGTCTCGAAGGCAATTGTGCGAGTT
1 GTGATATCCGGGCTAAG-CCCGAAGGCAATTGTGCAAATT
*
16362005 ATGATATCCGGGCTAAGCCCGAAGGCAATT-TGCAAATT
1 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATT
16362043 GCGACGAGTTATGATAT-CGGGCTAAGCCCGAAGGCAATTGTGCAAATT
1 -------G---TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATT
*
16362091 GTGATATCCGGGTTAAGTCCCGAAGGC
1 GTGATATCCGGGCTAAG-CCCGAAGGC
16362118 CTTTGTGCGG
Statistics
Matches: 194, Mismatches: 23, Indels: 27
0.80 0.09 0.11
Matches are distributed among these distances:
38 12 0.06
39 102 0.53
40 43 0.22
41 1 0.01
47 22 0.11
48 14 0.07
ACGTcount: A:0.27, C:0.20, G:0.29, T:0.24
Consensus pattern (39 bp):
GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATT
Found at i:16362067 original size:47 final size:49
Alignment explanation
Indices: 16361999--16362091 Score: 172
Period size: 47 Copynumber: 1.9 Consensus size: 49
16361989 GGCAATTGTG
16361999 CGAGTTATGATATCCGGGCTAAGCCCGAAGGCAATT-TGCAAATTGCGA
1 CGAGTTATGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATTGCGA
16362047 CGAGTTATGATAT-CGGGCTAAGCCCGAAGGCAATTGTGCAAATTG
1 CGAGTTATGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATTG
16362092 TGATATCCGG
Statistics
Matches: 44, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
47 22 0.50
48 22 0.50
ACGTcount: A:0.29, C:0.19, G:0.28, T:0.24
Consensus pattern (49 bp):
CGAGTTATGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATTGCGA
Found at i:16362096 original size:126 final size:127
Alignment explanation
Indices: 16361921--16362156 Score: 386
Period size: 126 Copynumber: 1.9 Consensus size: 127
16361911 GCAATTGTGT
*
16361921 GAGTTATGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATTGTGATATCCGGGTTAAGTCTC
1 GAGTTATGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATTGTGATATCCGGGTTAAGTCCC
* *
16361986 GAAGGCAATTGTGCGAGTTATGATATCCGGGCTAAG-CCCGAAGGCAATTTGCAAATTGCGAC
66 GAAGGCAATTGTGCGAGTTA-CATAACCGGGCTAAGTCCCGAAGGCAATTTGCAAATTGCGAC
16362048 GAGTTATGATAT-CGGGCTAAGCCCGAAGGCAATTGTGCAAATTGTGATATCCGGGTTAAGTCCC
1 GAGTTATGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATTGTGATATCCGGGTTAAGTCCC
** * *
16362112 GAAGGCCTTTGTGCGGGTTACATAACCGGGCTATGTCCCGAAGGC
66 GAAGGCAATTGTGCGAGTTACATAACCGGGCTAAGTCCCGAAGGC
16362157 GTTTGAACGA
Statistics
Matches: 101, Mismatches: 7, Indels: 3
0.91 0.06 0.03
Matches are distributed among these distances:
125 12 0.12
126 77 0.76
127 12 0.12
ACGTcount: A:0.26, C:0.20, G:0.29, T:0.25
Consensus pattern (127 bp):
GAGTTATGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATTGTGATATCCGGGTTAAGTCCC
GAAGGCAATTGTGCGAGTTACATAACCGGGCTAAGTCCCGAAGGCAATTTGCAAATTGCGAC
Found at i:16370045 original size:39 final size:39
Alignment explanation
Indices: 16369991--16370134 Score: 234
Period size: 39 Copynumber: 3.7 Consensus size: 39
16369981 TGAATGTTGA
16369991 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATT
1 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATT
* * *
16370030 GTGATACCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTT
1 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATT
*
16370069 ATGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATT
1 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATT
*
16370108 GTGATATCCGGGTTAAGTCCCGAAGGC
1 GTGATATCCGGGCTAAG-CCCGAAGGC
16370135 CTTTGTGCGG
Statistics
Matches: 95, Mismatches: 9, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
39 86 0.91
40 9 0.09
ACGTcount: A:0.26, C:0.22, G:0.30, T:0.22
Consensus pattern (39 bp):
GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATT
Found at i:16370083 original size:78 final size:79
Alignment explanation
Indices: 16369992--16370174 Score: 269
Period size: 78 Copynumber: 2.3 Consensus size: 79
16369982 GAATGTTGAG
16369992 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATTGTGATACCCGGGCTAAG-CCCGAAGGC
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATTGTGATACCCGGGCTAAGTCCCGAAGGC
16370056 AATTGTGCGAGTTA
66 AATTGTGCGAGTTA
* *
16370070 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATTGTGATATCCGGGTTAAGTCCCGAAGGC
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATTGTGATACCCGGGCTAAGTCCCGAAGGC
** *
16370135 CTTTGTGCGGGTTA
66 AATTGTGCGAGTTA
** * *
16370149 CCATAACCGGGCTATGTCCCGAAGGC
1 TGATATCCGGGCTAAG-CCCGAAGGC
16370175 GTTTGAACGA
Statistics
Matches: 94, Mismatches: 9, Indels: 2
0.90 0.09 0.02
Matches are distributed among these distances:
78 53 0.56
79 32 0.34
80 9 0.10
ACGTcount: A:0.25, C:0.23, G:0.30, T:0.23
Consensus pattern (79 bp):
TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATTGTGATACCCGGGCTAAGTCCCGAAGGC
AATTGTGCGAGTTA
Found at i:16373825 original size:10 final size:10
Alignment explanation
Indices: 16373812--16373849 Score: 51
Period size: 10 Copynumber: 3.8 Consensus size: 10
16373802 TTATTGTCAT
16373812 TTATCTTTAA
1 TTATCTTTAA
16373822 TTATCTTTAA
1 TTATCTTTAA
*
16373832 TTAT-TTGTAT
1 TTATCTT-TAA
16373842 TTATCTTT
1 TTATCTTT
16373850 TAGAATTTAA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
9 2 0.08
10 21 0.84
11 2 0.08
ACGTcount: A:0.24, C:0.08, G:0.03, T:0.66
Consensus pattern (10 bp):
TTATCTTTAA
Found at i:16382562 original size:96 final size:97
Alignment explanation
Indices: 16382398--16382581 Score: 291
Period size: 96 Copynumber: 1.9 Consensus size: 97
16382388 TTTTTAAGAA
* *
16382398 TGTGTTGGACTGAGTAACCGGGGTGAGGTGCTTGGCTGTCATCTCTCTTCGCGTAAAAAGGTTCG
1 TGTGTTGGACTGAGTAACCGGGGTGAGGTGCTTGGCTGTCATCTCTCTTCACGTAAAAAGATTCG
*
16382463 ATATGTTCTTAA-AAAAAATAAAAATTAGGAG
66 ATATATTCTTAAGAAAAAATAAAAATTAGGAG
* *
16382494 TGTGTTGTG-CTGAGTAACCGGGGTTAGGTGCTTGGCTGTCATCTCTCTTCACGTCAAAAGATTC
1 TGTGTTG-GACTGAGTAACCGGGGTGAGGTGCTTGGCTGTCATCTCTCTTCACGTAAAAAGATTC
*
16382558 GATATATTCTTAAGGAAAAATAAA
65 GATATATTCTTAAGAAAAAATAAA
16382582 TAAATAATAA
Statistics
Matches: 80, Mismatches: 6, Indels: 3
0.90 0.07 0.03
Matches are distributed among these distances:
96 70 0.88
97 10 0.12
ACGTcount: A:0.28, C:0.15, G:0.26, T:0.32
Consensus pattern (97 bp):
TGTGTTGGACTGAGTAACCGGGGTGAGGTGCTTGGCTGTCATCTCTCTTCACGTAAAAAGATTCG
ATATATTCTTAAGAAAAAATAAAAATTAGGAG
Found at i:16383214 original size:10 final size:10
Alignment explanation
Indices: 16383199--16383248 Score: 59
Period size: 10 Copynumber: 5.0 Consensus size: 10
16383189 TAGTTTTAGG
16383199 ATTTAT-TTT
1 ATTTATCTTT
16383208 CATTTATCTTT
1 -ATTTATCTTT
*
16383219 AATTATCTTT
1 ATTTATCTTT
16383229 ATTTAT-TTGT
1 ATTTATCTT-T
16383239 ATTTATCTTT
1 ATTTATCTTT
16383249 TAGAATTTAT
Statistics
Matches: 35, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
9 2 0.06
10 28 0.80
11 5 0.14
ACGTcount: A:0.22, C:0.08, G:0.02, T:0.68
Consensus pattern (10 bp):
ATTTATCTTT
Found at i:16385423 original size:54 final size:54
Alignment explanation
Indices: 16385353--16385471 Score: 184
Period size: 54 Copynumber: 2.2 Consensus size: 54
16385343 TTAGGGTTAC
* *
16385353 TAAGACTATATGTAAGACCATATCTGGGATATGGAATCAATATGAGACTACATG
1 TAAGACTATATATAAGACCATATCTAGGATATGGAATCAATATGAGACTACATG
* * *
16385407 TAAGACTATGTATAAGACCATATCTAGGATATGGAATCAATATTAGACTACGTG
1 TAAGACTATATATAAGACCATATCTAGGATATGGAATCAATATGAGACTACATG
*
16385461 TAAGACCATAT
1 TAAGACTATAT
16385472 CTGGGATATG
Statistics
Matches: 58, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
54 58 1.00
ACGTcount: A:0.39, C:0.13, G:0.18, T:0.29
Consensus pattern (54 bp):
TAAGACTATATATAAGACCATATCTAGGATATGGAATCAATATGAGACTACATG
Found at i:16385456 original size:42 final size:42
Alignment explanation
Indices: 16385409--16385612 Score: 219
Period size: 42 Copynumber: 4.8 Consensus size: 42
16385399 ACTACATGTA
* * *
16385409 AGACTATGTATAAGACCATATCTAGGATATGGAATCAATATT
1 AGACTACGTATAAGACCATATCTAGGATATGGCATCAATATG
* *
16385451 AGACTACGTGTAAGACCATATCTGGGATATGGCATCAATATG
1 AGACTACGTATAAGACCATATCTAGGATATGGCATCAATATG
* *
16385493 AGACTACGTATAAGACCATATCTGGGATATGGCATCGATATG
1 AGACTACGTATAAGACCATATCTAGGATATGGCATCAATATG
* * * * ** *
16385535 AGACTTCGTGTAAGACCATAGCTAGGCTATTGGCATTGATACG
1 AGACTACGTATAAGACCATATCTAGGATA-TGGCATCAATATG
* * * * * *
16385578 ATATTACATGTAAGACCATATTTGGGATATGGCAT
1 AGACTACGTATAAGACCATATCTAGGATATGGCAT
16385613 TGGTAAGGTA
Statistics
Matches: 139, Mismatches: 22, Indels: 2
0.85 0.13 0.01
Matches are distributed among these distances:
42 107 0.77
43 32 0.23
ACGTcount: A:0.34, C:0.15, G:0.22, T:0.29
Consensus pattern (42 bp):
AGACTACGTATAAGACCATATCTAGGATATGGCATCAATATG
Found at i:16385550 original size:84 final size:85
Alignment explanation
Indices: 16385409--16385612 Score: 248
Period size: 84 Copynumber: 2.4 Consensus size: 85
16385399 ACTACATGTA
* * * * *
16385409 AGACTATGTATAAGACCATATCTAGGATATGGAATCAATATTAGACTACGTGTAAGACCATATCT
1 AGACTACGTATAAGACCATATCTGGGATATGGCATCAATATGAGACTACGTGTAAGACCATAGCT
* *
16385474 GGGATA-TGGCATCAATATG
66 AGGATATTGGCATCAATACG
* *
16385493 AGACTACGTATAAGACCATATCTGGGATATGGCATCGATATGAGACTTCGTGTAAGACCATAGCT
1 AGACTACGTATAAGACCATATCTGGGATATGGCATCAATATGAGACTACGTGTAAGACCATAGCT
* **
16385558 AGGCTATTGGCATTGATACG
66 AGGATATTGGCATCAATACG
* * * * *
16385578 ATATTACATGTAAGACCATATTTGGGATATGGCAT
1 AGACTACGTATAAGACCATATCTGGGATATGGCAT
16385613 TGGTAAGGTA
Statistics
Matches: 102, Mismatches: 17, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
84 62 0.61
85 40 0.39
ACGTcount: A:0.34, C:0.15, G:0.22, T:0.29
Consensus pattern (85 bp):
AGACTACGTATAAGACCATATCTGGGATATGGCATCAATATGAGACTACGTGTAAGACCATAGCT
AGGATATTGGCATCAATACG
Found at i:16386589 original size:18 final size:18
Alignment explanation
Indices: 16386565--16386711 Score: 161
Period size: 18 Copynumber: 8.2 Consensus size: 18
16386555 TATCAATATC
*
16386565 ATTCAGTAACAATCAATT
1 ATTCAGTAACAGTCAATT
* *
16386583 GTTCAGTAACAGTCGATT
1 ATTCAGTAACAGTCAATT
*
16386601 -TTCAGTAACAGTCATTT
1 ATTCAGTAACAGTCAATT
*
16386618 ATTCAGAAACAGTCAATT
1 ATTCAGTAACAGTCAATT
* * *
16386636 ATTCAGTAATAATCAGTT
1 ATTCAGTAACAGTCAATT
* *
16386654 ATTCAGTAACAGCCATTT
1 ATTCAGTAACAGTCAATT
* *
16386672 ATTTAGTAACAGTTAATT
1 ATTCAGTAACAGTCAATT
* *
16386690 ATTCAGTAACAATCAGTT
1 ATTCAGTAACAGTCAATT
16386708 ATTC
1 ATTC
16386712 GATACTTTTA
Statistics
Matches: 105, Mismatches: 23, Indels: 2
0.81 0.18 0.02
Matches are distributed among these distances:
17 15 0.14
18 90 0.86
ACGTcount: A:0.37, C:0.16, G:0.12, T:0.36
Consensus pattern (18 bp):
ATTCAGTAACAGTCAATT
Found at i:16386683 original size:54 final size:54
Alignment explanation
Indices: 16386565--16386711 Score: 199
Period size: 54 Copynumber: 2.7 Consensus size: 54
16386555 TATCAATATC
* * * *
16386565 ATTCAGTAACAATCAATTGTTCAGTAACAGTC-GATT-TTCAGTAACAGTCATTT
1 ATTCAGTAACAGTCAATTATTCAGTAACAATCAG-TTATTCAGTAACAGCCATTT
* *
16386618 ATTCAGAAACAGTCAATTATTCAGTAATAATCAGTTATTCAGTAACAGCCATTT
1 ATTCAGTAACAGTCAATTATTCAGTAACAATCAGTTATTCAGTAACAGCCATTT
* *
16386672 ATTTAGTAACAGTTAATTATTCAGTAACAATCAGTTATTC
1 ATTCAGTAACAGTCAATTATTCAGTAACAATCAGTTATTC
16386712 GATACTTTTA
Statistics
Matches: 82, Mismatches: 10, Indels: 3
0.86 0.11 0.03
Matches are distributed among these distances:
53 29 0.35
54 53 0.65
ACGTcount: A:0.37, C:0.16, G:0.12, T:0.36
Consensus pattern (54 bp):
ATTCAGTAACAGTCAATTATTCAGTAACAATCAGTTATTCAGTAACAGCCATTT
Found at i:16386881 original size:45 final size:45
Alignment explanation
Indices: 16386827--16386925 Score: 137
Period size: 45 Copynumber: 2.2 Consensus size: 45
16386817 ACAGGAATTA
* *
16386827 GTAACAGTATTCAACACACAAAGTG-CTGAATCTGTAACAGTAATG
1 GTAACAGTATTCAACACACAAAGTGTC-GAATCGGTAACAGTAACG
**
16386872 GTAACAGTATTTGACACACAAAGTGTCGAATCGGTAACAGTAACG
1 GTAACAGTATTCAACACACAAAGTGTCGAATCGGTAACAGTAACG
*
16386917 GTAATAGTA
1 GTAACAGTA
16386926 ACAGTAGTTG
Statistics
Matches: 48, Mismatches: 5, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
45 47 0.98
46 1 0.02
ACGTcount: A:0.39, C:0.16, G:0.20, T:0.24
Consensus pattern (45 bp):
GTAACAGTATTCAACACACAAAGTGTCGAATCGGTAACAGTAACG
Found at i:16387251 original size:36 final size:34
Alignment explanation
Indices: 16387211--16387285 Score: 91
Period size: 32 Copynumber: 2.2 Consensus size: 34
16387201 ACATTCAATT
16387211 ATTCAATATCCACATCAATCACATATATTCATATAA
1 ATTCAATAT-CA-ATCAATCACATATATTCATATAA
* **
16387247 ATTC-A-ATGAATTTATCACATATATTCATATAA
1 ATTCAATATCAATCAATCACATATATTCATATAA
16387279 ATTCAAT
1 ATTCAAT
16387286 GAATTTATCA
Statistics
Matches: 34, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
32 25 0.74
33 2 0.06
34 2 0.06
35 1 0.03
36 4 0.12
ACGTcount: A:0.44, C:0.17, G:0.01, T:0.37
Consensus pattern (34 bp):
ATTCAATATCAATCAATCACATATATTCATATAA
Found at i:16387266 original size:32 final size:32
Alignment explanation
Indices: 16387228--16387299 Score: 144
Period size: 32 Copynumber: 2.2 Consensus size: 32
16387218 ATCCACATCA
16387228 ATCACATATATTCATATAAATTCAATGAATTT
1 ATCACATATATTCATATAAATTCAATGAATTT
16387260 ATCACATATATTCATATAAATTCAATGAATTT
1 ATCACATATATTCATATAAATTCAATGAATTT
16387292 ATCACATA
1 ATCACATA
16387300 CTAAATCAAT
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 40 1.00
ACGTcount: A:0.44, C:0.14, G:0.03, T:0.39
Consensus pattern (32 bp):
ATCACATATATTCATATAAATTCAATGAATTT
Found at i:16387722 original size:17 final size:15
Alignment explanation
Indices: 16387694--16387727 Score: 50
Period size: 17 Copynumber: 2.1 Consensus size: 15
16387684 TCCCTATTTC
16387694 TCCCTTTTCTTTCTT
1 TCCCTTTTCTTTCTT
16387709 TCCCTTTTTCCTTTCTT
1 TCCC-TTTT-CTTTCTT
16387726 TC
1 TC
16387728 TTTCTCTCTC
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 4 0.24
16 4 0.24
17 9 0.53
ACGTcount: A:0.00, C:0.35, G:0.00, T:0.65
Consensus pattern (15 bp):
TCCCTTTTCTTTCTT
Found at i:16387782 original size:3 final size:3
Alignment explanation
Indices: 16387774--16387815 Score: 66
Period size: 3 Copynumber: 14.0 Consensus size: 3
16387764 TTCTTTTTGT
* *
16387774 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAT TTA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
16387816 ATATCTTTTT
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (3 bp):
TAA
Found at i:16388223 original size:21 final size:20
Alignment explanation
Indices: 16388188--16388227 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
16388178 TACAAAAATC
16388188 TTATAATATAATTTATATAAA
1 TTATAATATAATTTA-ATAAA
* *
16388209 TTATAATTTATTTTAATAA
1 TTATAATATAATTTAATAA
16388228 CAAGTATAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 4 0.24
21 13 0.76
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (20 bp):
TTATAATATAATTTAATAAA
Found at i:16388515 original size:16 final size:16
Alignment explanation
Indices: 16388494--16388533 Score: 55
Period size: 16 Copynumber: 2.5 Consensus size: 16
16388484 AAATTGTTTC
*
16388494 ATAATATAATATAATT-
1 ATAATATAAT-CAATTA
16388510 ATAATATAATCAATTA
1 ATAATATAATCAATTA
16388526 ATAATATA
1 ATAATATA
16388534 TAATATATAT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 4 0.18
16 18 0.82
ACGTcount: A:0.57, C:0.03, G:0.00, T:0.40
Consensus pattern (16 bp):
ATAATATAATCAATTA
Found at i:16400760 original size:25 final size:25
Alignment explanation
Indices: 16400726--16400809 Score: 118
Period size: 25 Copynumber: 3.4 Consensus size: 25
16400716 CGGGCACACC
16400726 ACAGCTCGTATAAGCTTCCCAATTT
1 ACAGCTCGTATAAGCTTCCCAATTT
16400751 ACAGCTCGTATGAA-CTTCCCAATTT
1 ACAGCTCGTAT-AAGCTTCCCAATTT
* *
16400776 ACAGCTCGTATGAGCTT-CCAGATTC
1 ACAGCTCGTATAAGCTTCCCA-ATTT
16400801 ACAGCTCGT
1 ACAGCTCGT
16400810 GAGAGCATAC
Statistics
Matches: 54, Mismatches: 2, Indels: 6
0.87 0.03 0.10
Matches are distributed among these distances:
24 4 0.07
25 48 0.89
26 2 0.04
ACGTcount: A:0.26, C:0.29, G:0.15, T:0.30
Consensus pattern (25 bp):
ACAGCTCGTATAAGCTTCCCAATTT
Found at i:16400824 original size:25 final size:25
Alignment explanation
Indices: 16400776--16400843 Score: 73
Period size: 25 Copynumber: 2.7 Consensus size: 25
16400766 TTCCCAATTT
* * * *
16400776 ACAGCTCGTATGAGCTTCCAGATTC
1 ACAGCTCGTAAGAGCATACTGATTC
*
16400801 ACAGCTCGTGAGAGCATACTGATTC
1 ACAGCTCGTAAGAGCATACTGATTC
* *
16400826 ATAGCTTGTAAGAGCATA
1 ACAGCTCGTAAGAGCATA
16400844 GATGAATATG
Statistics
Matches: 35, Mismatches: 8, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
25 35 1.00
ACGTcount: A:0.29, C:0.22, G:0.22, T:0.26
Consensus pattern (25 bp):
ACAGCTCGTAAGAGCATACTGATTC
Found at i:16406549 original size:3 final size:3
Alignment explanation
Indices: 16406541--16406565 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
16406531 ATAGTGAGAA
16406541 AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT A
16406566 GCATTAAAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:16406975 original size:21 final size:22
Alignment explanation
Indices: 16406941--16406981 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
16406931 ATAATTTAAT
*
16406941 ATATATATATAAAATTTTAAGC
1 ATATATATAAAAAATTTTAAGC
16406963 ATATA-ATAAAAAATTTTAA
1 ATATATATAAAAAATTTTAA
16406982 TTTAGTTTCG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 13 0.72
22 5 0.28
ACGTcount: A:0.56, C:0.02, G:0.02, T:0.39
Consensus pattern (22 bp):
ATATATATAAAAAATTTTAAGC
Found at i:16409056 original size:16 final size:15
Alignment explanation
Indices: 16409035--16409068 Score: 50
Period size: 16 Copynumber: 2.2 Consensus size: 15
16409025 CTCGGTGGTT
*
16409035 TTTTTTTTTTTTAATA
1 TTTTTTATTTTTAA-A
16409051 TTTTTTATTTTTAAA
1 TTTTTTATTTTTAAA
16409066 TTT
1 TTT
16409069 ATACTAAAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 4 0.24
16 13 0.76
ACGTcount: A:0.21, C:0.00, G:0.00, T:0.79
Consensus pattern (15 bp):
TTTTTTATTTTTAAA
Found at i:16409966 original size:22 final size:22
Alignment explanation
Indices: 16409941--16409987 Score: 67
Period size: 22 Copynumber: 2.1 Consensus size: 22
16409931 TTTGTTGTTG
*
16409941 TTTCGCTACTATTTTACTATCA
1 TTTCGCTACTATATTACTATCA
* *
16409963 TTTCGCTATTATATTACTATTA
1 TTTCGCTACTATATTACTATCA
16409985 TTT
1 TTT
16409988 TCTTGTTATT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.23, C:0.17, G:0.04, T:0.55
Consensus pattern (22 bp):
TTTCGCTACTATATTACTATCA
Found at i:16410493 original size:2 final size:2
Alignment explanation
Indices: 16410488--16410531 Score: 88
Period size: 2 Copynumber: 22.0 Consensus size: 2
16410478 ACATTGCACA
16410488 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
16410530 AT
1 AT
16410532 CAATCTTCTC
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 42 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:16411055 original size:16 final size:16
Alignment explanation
Indices: 16411036--16411090 Score: 51
Period size: 16 Copynumber: 3.4 Consensus size: 16
16411026 AAAATTACAA
16411036 AAAATAAAAAAATTAT
1 AAAATAAAAAAATTAT
*
16411052 AAAATAAAATAAA-AAT
1 AAAATAAAA-AAATTAT
*
16411068 AAAATCAACAAATATTA-
1 AAAAT-AA-AAAAATTAT
16411085 AAAATA
1 AAAATA
16411091 TTAAAATTGA
Statistics
Matches: 32, Mismatches: 3, Indels: 8
0.74 0.07 0.19
Matches are distributed among these distances:
16 17 0.53
17 12 0.38
18 3 0.09
ACGTcount: A:0.75, C:0.04, G:0.00, T:0.22
Consensus pattern (16 bp):
AAAATAAAAAAATTAT
Found at i:16411358 original size:9 final size:9
Alignment explanation
Indices: 16411344--16411404 Score: 70
Period size: 9 Copynumber: 6.7 Consensus size: 9
16411334 TAAAATCAGC
16411344 AAATATTAA
1 AAATATTAA
16411353 AAATATTAA
1 AAATATTAA
*
16411362 AATTATATAA
1 AAATAT-TAA
**
16411372 ACTTATTAA
1 AAATATTAA
16411381 AAATA-TAA
1 AAATATTAA
16411389 AAATATATAA
1 AAATAT-TAA
16411399 AAATAT
1 AAATAT
16411405 AAATATTTAT
Statistics
Matches: 45, Mismatches: 4, Indels: 5
0.83 0.07 0.09
Matches are distributed among these distances:
8 8 0.18
9 20 0.44
10 17 0.38
ACGTcount: A:0.64, C:0.02, G:0.00, T:0.34
Consensus pattern (9 bp):
AAATATTAA
Found at i:16411372 original size:266 final size:262
Alignment explanation
Indices: 16410891--16412712 Score: 1820
Period size: 266 Copynumber: 7.0 Consensus size: 262
16410881 GTTAACTAAA
* * *
16410891 ATAATCAATTAAGCCTTTTCGTTAACGATTTTTGTCATCGACCACGTTGACCATTAAAATAAACT
1 ATAATCAATTAAGCC-TTTCGTTAACGGTTTCTGTCATTGACCACGTTGACCATTAAAATAAACT
* * * * * * * *
16410956 AACAAATCAATCAAATGATGACACAGGGTAGTTTCAGGCACAATCTCATATTTTTCCCTTAAAAT
65 GACAGATCAATCAGATGGTGACACATGGCAGTTTCAGGCACAATCTAATATTTTTCCCTTAAAAC
* * *
16411021 TAATAAAAATTACAAAAAATAAAAAAATTATAAAATAAAATAAAAATAAAATCAACAAATATTAA
130 TGATAAAAATTACAAAAAA-AATAATA-TATAAAATAAAAT-AAAATAAAATCAACAAATATTAA
16411086 AAATATTAAAATTGATATAAACTTATTAAAACTATAAAAAATTATATAATAATATAAATATTTAT
192 AAATATTAAAATTGATATAAACTTATTAAAACTATAAAAAATTATATAATAATATAAATATTTAT
16411151 AAATAT
257 AAATAT
* * * *
16411157 ATAATCAATTAAGCCATTTCGTTAACGGTTTTTGTCATTGACCATGATGACTATTAAAATAAACT
1 ATAATCAATTAAGCC-TTTCGTTAACGGTTTCTGTCATTGACCACGTTGACCATTAAAATAAACT
* * *
16411222 GACAGATCAATCAGATGGTAACACATGGCAGTTTCAGGCACAATCTACTATTTTACCCTTAAAAC
65 GACAGATCAATCAGATGGTGACACATGGCAGTTTCAGGCACAATCTAATATTTTTCCCTTAAAAC
* * *
16411287 TAATAAAAATTACAAATATATATATATATATATAAAATAAAATAAAATAAAATCAGCAAATATTA
130 TGATAAAAATTACAAA-A-A-AAATA-ATATATAAAATAAAATAAAATAAAATCAACAAATATTA
* *
16411352 AAAATATTAAAATT-ATATAAACTTATTAAAAATAT-AAAAA-TATATAAAAATATAAATATTTA
191 AAAATATTAAAATTGATATAAACTTATTAAAACTATAAAAAATTATATAATAATATAAATATTTA
16411414 TAAATAT
256 TAAATAT
* * *** * *
16411421 ATAATTAATTAAGCCTTCCGTTAATAATTT-TAGTCATCGACCACGTTAACCATTAAAATAAACT
1 ATAATCAATTAAGCCTTTCGTTAACGGTTTCT-GTCATTGACCACGTTGACCATTAAAATAAACT
* *
16411485 GACAGATCAATCAGATGGTGACACATGGCAATTTCAGGCACAATCTCATATTTTTCCCTTAAAAC
65 GACAGATCAATCAGATGGTGACACATGGCAGTTTCAGGCACAATCTAATATTTTTCCCTTAAAAC
* * *
16411550 TGATTAAAATTAC--AAAAAATAA-A-AT-CAAT-AAAT---AT----T-AA-AAATATTAAAAT
130 TGATAAAAATTACAAAAAAAATAATATATAAAATAAAATAAAATAAAATCAACAAATATTAAAAA
* * * * * *
16411600 TGATATAAACTT-AT-TAAAAC-TATAAAAAATTATATAATAA-TATA-AAT-ATTTATA-A---
195 T-AT-TAAAATTGATAT-AAACTTAT-TAAAACTATA-AAAAATTATATAATAATATAAATATTT
16411655 ----ATAT
255 ATAAATAT
* *
16411659 ATAATCAATTAAGCCCTTTCGTTAACGGTTTCTGTCATTGACCACGTTGACCAATAAAATAAATT
1 ATAATCAATTAAG-CCTTTCGTTAACGGTTTCTGTCATTGACCACGTTGACCATTAAAATAAACT
* * * * * *
16411724 GACAAATCAATTATATGGTGACACATGGAAGTTTCAAGCACGATCTAATATTTTTCCCTTAAAAC
65 GACAGATCAATCAGATGGTGACACATGGCAGTTTCAGGCACAATCTAATATTTTTCCCTTAAAAC
* *
16411789 TGATAAAAATTAC---------AA-A-ATAAAAT---ACAAAATAAAATCAGCAAATATTAAAAA
130 TGATAAAAATTACAAAAAAAATAATATATAAAATAAAATAAAATAAAATCAACAAATATTAAAAA
* * *
16411840 TATTAAAATTGATATAAAATTATTAAAACTATAAAAAAATATATAATAATAGAAATATTTATAAA
195 TATTAAAATTGATATAAACTTATTAAAACTATAAAAAATTATATAATAATATAAATATTTATAAA
16411905 TAT
260 TAT
* * * * * * *
16411908 ATAATCAATTAAGCTCTTCCATTAATGATTTCAGTCATCT-ATCATGTTGA-CAGTTAAAATAAA
1 ATAATCAATTAAGC-CTTTCGTTAACGGTTTCTGTCAT-TGACCACGTTGACCA-TTAAAATAAA
* *
16411971 TTGACAGATCAATAAGAT-G-G--ACATGGCAGTTTCAGGCACAATCTAATATTTTTCCCTTAAA
63 CTGACAGATCAATCAGATGGTGACACATGGCAGTTTCAGGCACAATCTAATATTTTTCCCTTAAA
* * *** *
16412032 ACTGATAAAAATTA-AAAAAAAAGTAAAAAATTTTATAAAATAAAAATAAAATCAATAAATATTA
128 ACTGATAAAAATTACAAAAAAAA-TAATATATAAAATAAAAT-AAAATAAAATCAACAAATATTA
* * *
16412096 AAAATATTAAAATTAATATAAACTTATTAAAACTATAATAGATTATATAATAATATAAATATTTA
191 AAAATATTAAAATTGATATAAACTTATTAAAACTATAAAAAATTATATAATAATATAAATATTTA
*
16412161 TCAATAT
256 TAAATAT
*** *
16412168 ATAATCAATTAAGCCATTTCGTTAACGGTTTCTGTCATTGACCACGTTGAAGGTTAAAATAGACT
1 ATAATCAATTAAGCC-TTTCGTTAACGGTTTCTGTCATTGACCACGTTGACCATTAAAATAAACT
** * * * ** * * *
16412233 GATGGATCAATCATATGGTGATACATGGTAGTTTCAAACACGATCTAATATTTTTCTCTTAAAAT
65 GACAGATCAATCAGATGGTGACACATGGCAGTTTCAGGCACAATCTAATATTTTTCCCTTAAAAC
* * * *
16412298 TGATAAAAATTGATAAAAATTACAA-AA-ATAAAACAATTATAA-AAAATAAAATCAGCAAATAT
130 TGATAAAAATT-ACAAAAA--A-AATAATATATAA-AA-TAAAATAAAATAAAATCAACAAATAT
*
16412360 TAAAAATATTAAAATTGATATAAACTTATGAAAACTATAAAAAATATATATAATAATATAAATAT
189 TAAAAATATTAAAATTGATATAAACTTATTAAAACTATAAAAAAT-TATATAATAATATAAATAT
16412425 TTATAAATAT
253 TTATAAATAT
* * * * * *
16412435 ATAATCAATTAAGCCCTTCCGTTAACGGTTTCTATCATTGACCACATTGACCGTTTAAATAAAGT
1 ATAATCAATTAAG-CCTTTCGTTAACGGTTTCTGTCATTGACCACGTTGACCATTAAAATAAACT
** * * *
16412500 GATGGATCAAGCAGATGGTGACACATGGGAGTTTCAGGCACAATCTAATATTTTTCCCTTAAAAT
65 GACAGATCAATCAGATGGTGACACATGGCAGTTTCAGGCACAATCTAATATTTTTCCCTTAAAAC
* *
16412565 TGATAAAAATCACAAAAAATAAAAAAAAATTATAAAATAAAATAATAAATAATAAATAAAATCAA
130 TGATAAAAATTAC----AA-AAAAAATAA-TAT---ATAAAAT-A-AAAT-A-AAATAAAATCAA
* * *
16412630 CAAATATTAAAAATATTAAAATTGATATAAACTTATTAAAATTATACAATAA-TATA-AATATTA
182 CAAATATTAAAAATATTAAAATTGATATAAACTTATTAAAACTATA-AAAAATTATATAATAATA
*
16412693 TAAATA-TTATAAAAAT
246 TAAATATTTATAAATAT
16412709 ATAA
1 ATAA
16412713 AATTCTAATA
Statistics
Matches: 1299, Mismatches: 168, Indels: 170
0.79 0.10 0.10
Matches are distributed among these distances:
231 1 0.00
232 5 0.00
233 3 0.00
234 2 0.00
238 27 0.02
239 130 0.10
240 20 0.02
241 4 0.00
242 1 0.00
244 12 0.01
245 60 0.05
246 25 0.02
247 3 0.00
248 12 0.01
249 67 0.05
250 3 0.00
253 4 0.00
254 5 0.00
255 3 0.00
256 5 0.00
257 1 0.00
258 4 0.00
259 4 0.00
260 147 0.11
261 2 0.00
262 2 0.00
263 109 0.08
264 90 0.07
265 6 0.00
266 216 0.17
267 188 0.14
268 25 0.02
269 8 0.01
270 2 0.00
271 5 0.00
272 1 0.00
273 3 0.00
274 18 0.01
275 12 0.01
276 5 0.00
277 55 0.04
278 4 0.00
ACGTcount: A:0.49, C:0.11, G:0.08, T:0.32
Consensus pattern (262 bp):
ATAATCAATTAAGCCTTTCGTTAACGGTTTCTGTCATTGACCACGTTGACCATTAAAATAAACTG
ACAGATCAATCAGATGGTGACACATGGCAGTTTCAGGCACAATCTAATATTTTTCCCTTAAAACT
GATAAAAATTACAAAAAAAATAATATATAAAATAAAATAAAATAAAATCAACAAATATTAAAAAT
ATTAAAATTGATATAAACTTATTAAAACTATAAAAAATTATATAATAATATAAATATTTATAAAT
AT
Found at i:16411380 original size:28 final size:27
Alignment explanation
Indices: 16411347--16411399 Score: 88
Period size: 27 Copynumber: 1.9 Consensus size: 27
16411337 AATCAGCAAA
*
16411347 TATTAAAAATATTAAAATTATATAAACT
1 TATTAAAAATA-TAAAAATATATAAACT
16411375 TATTAAAAATATAAAAATATATAAA
1 TATTAAAAATATAAAAATATATAAA
16411400 AATATAAATA
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
27 13 0.54
28 11 0.46
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.36
Consensus pattern (27 bp):
TATTAAAAATATAAAAATATATAAACT
Found at i:16411401 original size:18 final size:18
Alignment explanation
Indices: 16411344--16411424 Score: 76
Period size: 18 Copynumber: 4.4 Consensus size: 18
16411334 TAAAATCAGC
16411344 AAATATTAAAAATAT-TAA
1 AAATA-TAAAAATATATAA
* *
16411362 AATTATATAAACT-TATTAA
1 AAATATA-AAAATATA-TAA
16411381 AAATATAAAAATATATAA
1 AAATATAAAAATATATAA
* *
16411399 AAATATAAATATTTATAA
1 AAATATAAAAATATATAA
*
16411417 ATATATAA
1 AAATATAA
16411425 TTAATTAAGC
Statistics
Matches: 52, Mismatches: 7, Indels: 8
0.78 0.10 0.12
Matches are distributed among these distances:
17 3 0.06
18 38 0.73
19 11 0.21
ACGTcount: A:0.63, C:0.01, G:0.00, T:0.36
Consensus pattern (18 bp):
AAATATAAAAATATATAA
Done.