Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A05
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 102776486
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2328156 characters in sequence are not A, C, G, or T
File 2 of 325
Found at i:267472 original size:25 final size:24
Alignment explanation
Indices: 267444--267548 Score: 90
Period size: 25 Copynumber: 4.2 Consensus size: 24
267434 AATGAACAGT
*
267444 GAGCACTGACATGCTAAATATCAGA
1 GAGCACTGACGTGCT-AATATCAGA
*
267469 GAGCACT-AGCGTACTAATAATCAGA
1 GAGCACTGA-CGTGCTAAT-ATCAGA
267494 GAGCACTGGA-GTGCTAATATTCAGA
1 GAGCACT-GACGTGCTAATA-TCAGA
* *
267519 GAGCACCGGA-GTGCTAATATTCATA
1 GAGCA-CTGACGTGCTAATA-TCAGA
267544 GAGCA
1 GAGCA
267549 TGCTGAGGTC
Statistics
Matches: 69, Mismatches: 5, Indels: 12
0.80 0.06 0.14
Matches are distributed among these distances:
24 5 0.07
25 62 0.90
26 1 0.01
27 1 0.01
ACGTcount: A:0.36, C:0.19, G:0.24, T:0.21
Consensus pattern (24 bp):
GAGCACTGACGTGCTAATATCAGA
Found at i:267521 original size:27 final size:25
Alignment explanation
Indices: 267455--267548 Score: 118
Period size: 25 Copynumber: 3.8 Consensus size: 25
267445 AGCACTGACA
* *
267455 TGCTAA-ATATCAGAGAGCACTAGCG
1 TGCTAATAT-TCAGAGAGCACTGGAG
* *
267480 TACTAATAATCAGAGAGCACTGGAG
1 TGCTAATATTCAGAGAGCACTGGAG
*
267505 TGCTAATATTCAGAGAGCACCGGAG
1 TGCTAATATTCAGAGAGCACTGGAG
*
267530 TGCTAATATTCATAGAGCA
1 TGCTAATATTCAGAGAGCA
267549 TGCTGAGGTC
Statistics
Matches: 60, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
25 59 0.98
26 1 0.02
ACGTcount: A:0.36, C:0.18, G:0.23, T:0.22
Consensus pattern (25 bp):
TGCTAATATTCAGAGAGCACTGGAG
Found at i:275449 original size:25 final size:24
Alignment explanation
Indices: 275421--275525 Score: 99
Period size: 25 Copynumber: 4.2 Consensus size: 24
275411 AATGAACAGT
*
275421 GAGCACTGACATGCTAAATATCAGA
1 GAGCACTGACGTGCT-AATATCAGA
275446 GAGCACT-AGCGTGCTAATAATCAGA
1 GAGCACTGA-CGTGCTAAT-ATCAGA
275471 GAGCACTGGA-GTGCTAATATTCAGA
1 GAGCACT-GACGTGCTAATA-TCAGA
* *
275496 GAGCACCGGA-GTGCTAATATTCATA
1 GAGCA-CTGACGTGCTAATA-TCAGA
275521 GAGCA
1 GAGCA
275526 TGCTGAGGTC
Statistics
Matches: 71, Mismatches: 3, Indels: 12
0.83 0.03 0.14
Matches are distributed among these distances:
24 5 0.07
25 64 0.90
26 1 0.01
27 1 0.01
ACGTcount: A:0.35, C:0.19, G:0.25, T:0.21
Consensus pattern (24 bp):
GAGCACTGACGTGCTAATATCAGA
Found at i:275498 original size:27 final size:25
Alignment explanation
Indices: 275432--275525 Score: 127
Period size: 25 Copynumber: 3.8 Consensus size: 25
275422 AGCACTGACA
* *
275432 TGCTAA-ATATCAGAGAGCACTAGCG
1 TGCTAATAT-TCAGAGAGCACTGGAG
*
275457 TGCTAATAATCAGAGAGCACTGGAG
1 TGCTAATATTCAGAGAGCACTGGAG
*
275482 TGCTAATATTCAGAGAGCACCGGAG
1 TGCTAATATTCAGAGAGCACTGGAG
*
275507 TGCTAATATTCATAGAGCA
1 TGCTAATATTCAGAGAGCA
275526 TGCTGAGGTC
Statistics
Matches: 62, Mismatches: 6, Indels: 2
0.89 0.09 0.03
Matches are distributed among these distances:
25 61 0.98
26 1 0.02
ACGTcount: A:0.35, C:0.18, G:0.24, T:0.22
Consensus pattern (25 bp):
TGCTAATATTCAGAGAGCACTGGAG
Found at i:283438 original size:25 final size:24
Alignment explanation
Indices: 283410--283514 Score: 99
Period size: 25 Copynumber: 4.2 Consensus size: 24
283400 AATGAACAGT
*
283410 GAGCACTGACATGCTAAATATCAGA
1 GAGCACTGACGTGCT-AATATCAGA
283435 GAGCACT-AGCGTGCTAATAATCAGA
1 GAGCACTGA-CGTGCTAAT-ATCAGA
283460 GAGCACTGGA-GTGCTAATATTCAGA
1 GAGCACT-GACGTGCTAATA-TCAGA
* *
283485 GAGCACCGGA-GTGCTAATATTCATA
1 GAGCA-CTGACGTGCTAATA-TCAGA
283510 GAGCA
1 GAGCA
283515 TGCTGAGGTC
Statistics
Matches: 71, Mismatches: 3, Indels: 12
0.83 0.03 0.14
Matches are distributed among these distances:
24 5 0.07
25 64 0.90
26 1 0.01
27 1 0.01
ACGTcount: A:0.35, C:0.19, G:0.25, T:0.21
Consensus pattern (24 bp):
GAGCACTGACGTGCTAATATCAGA
Found at i:283487 original size:27 final size:25
Alignment explanation
Indices: 283421--283514 Score: 127
Period size: 25 Copynumber: 3.8 Consensus size: 25
283411 AGCACTGACA
* *
283421 TGCTAA-ATATCAGAGAGCACTAGCG
1 TGCTAATAT-TCAGAGAGCACTGGAG
*
283446 TGCTAATAATCAGAGAGCACTGGAG
1 TGCTAATATTCAGAGAGCACTGGAG
*
283471 TGCTAATATTCAGAGAGCACCGGAG
1 TGCTAATATTCAGAGAGCACTGGAG
*
283496 TGCTAATATTCATAGAGCA
1 TGCTAATATTCAGAGAGCA
283515 TGCTGAGGTC
Statistics
Matches: 62, Mismatches: 6, Indels: 2
0.89 0.09 0.03
Matches are distributed among these distances:
25 61 0.98
26 1 0.02
ACGTcount: A:0.35, C:0.18, G:0.24, T:0.22
Consensus pattern (25 bp):
TGCTAATATTCAGAGAGCACTGGAG
Found at i:292083 original size:55 final size:53
Alignment explanation
Indices: 291996--292201 Score: 193
Period size: 55 Copynumber: 3.8 Consensus size: 53
291986 ATTAGGGTTT
* * *
291996 AAGGATACCATGTAAGCCCGTGCCAAGGCATGGCAATTGGTAAGGTTTCTAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGC-ATTGGTAA-GTTTCTAAGGC
* * * * *
292051 AAGGAAATCATGTAAGACCATGTCAAGACATGGCATTGATAAGTTACTATAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGGTAAGTT--TCTAAGGC
* *
292106 AAAGG-TCCCATGTAAGACCATGCCAA-AGCATGGCATTGGTGAG-TTCGTAAGGC
1 -AAGGATACCATGTAAGACCATGCCAAGA-CATGGCATTGGTAAGTTTC-TAAGGC
* * * * *
292159 AAGGATACCACGTAAGACCATGACAAGTCATGGAAATGGTAAG
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGGTAAG
292202 GTACCCGTGT
Statistics
Matches: 122, Mismatches: 22, Indels: 16
0.76 0.14 0.10
Matches are distributed among these distances:
52 5 0.04
53 39 0.32
54 9 0.07
55 65 0.53
56 4 0.03
ACGTcount: A:0.35, C:0.18, G:0.26, T:0.21
Consensus pattern (53 bp):
AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGGTAAGTTTCTAAGGC
Found at i:293455 original size:12 final size:12
Alignment explanation
Indices: 293438--293462 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
293428 ACCCAAAACC
293438 CTTAGCCCAAAA
1 CTTAGCCCAAAA
293450 CTTAGCCCAAAA
1 CTTAGCCCAAAA
293462 C
1 C
293463 ACTAACCCAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.40, C:0.36, G:0.08, T:0.16
Consensus pattern (12 bp):
CTTAGCCCAAAA
Found at i:293559 original size:22 final size:22
Alignment explanation
Indices: 293534--293598 Score: 96
Period size: 22 Copynumber: 3.0 Consensus size: 22
293524 AAACCACTCC
293534 AACCACTCCAACCACTCCACTA
1 AACCACTCCAACCACTCCACTA
*
293556 AACCACTTCAACCAC-CCTACTA
1 AACCACTCCAACCACTCC-ACTA
*
293578 AACCACCCCAACCACTCCACT
1 AACCACTCCAACCACTCCACT
293599 TGCTTACAAA
Statistics
Matches: 38, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
21 2 0.05
22 34 0.89
23 2 0.05
ACGTcount: A:0.35, C:0.51, G:0.00, T:0.14
Consensus pattern (22 bp):
AACCACTCCAACCACTCCACTA
Found at i:293569 original size:9 final size:9
Alignment explanation
Indices: 293525--293552 Score: 56
Period size: 9 Copynumber: 3.1 Consensus size: 9
293515 TACTCCACTA
293525 AACCACTCC
1 AACCACTCC
293534 AACCACTCC
1 AACCACTCC
293543 AACCACTCC
1 AACCACTCC
293552 A
1 A
293553 CTAAACCACT
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:0.36, C:0.54, G:0.00, T:0.11
Consensus pattern (9 bp):
AACCACTCC
Found at i:294021 original size:3 final size:3
Alignment explanation
Indices: 293986--294079 Score: 56
Period size: 3 Copynumber: 31.3 Consensus size: 3
293976 GAGCTTTGTT
* * *
293986 TTA TTT TTA TT- TTA TT- TTA TTA TTT TTA CTA TTA TT- TATA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T-TA TTA
*
294029 TTA TTA TTA TT- TCTCA TGTA TATA TTA TTA TT- TATA CTA TTA TTA
1 TTA TTA TTA TTA T-T-A T-TA T-TA TTA TTA TTA T-TA TTA TTA TTA
294074 -TA TTA T
1 TTA TTA T
294080 ATATGCCCTC
Statistics
Matches: 71, Mismatches: 10, Indels: 20
0.70 0.10 0.20
Matches are distributed among these distances:
2 9 0.13
3 54 0.76
4 6 0.08
5 2 0.03
ACGTcount: A:0.29, C:0.04, G:0.01, T:0.66
Consensus pattern (3 bp):
TTA
Found at i:294054 original size:21 final size:18
Alignment explanation
Indices: 293986--294083 Score: 82
Period size: 18 Copynumber: 5.6 Consensus size: 18
293976 GAGCTTTGTT
*
293986 TTATTTTTATT-TTATT-
1 TTATTTATATTATTATTA
*
294002 TTA-TTAT-TT-TTACTA
1 TTATTTATATTATTATTA
294017 TTATTTATATTATTATTA
1 TTATTTATATTATTATTA
*
294035 TTATTTCTCATGTATATATTA
1 TTATTTAT-AT-TAT-TATTA
*
294056 TTATTTATACTATTATTA
1 TTATTTATATTATTATTA
294074 -TATTATATAT
1 TTATT-TATAT
294084 GCCCTCTCCA
Statistics
Matches: 67, Mismatches: 7, Indels: 14
0.76 0.08 0.16
Matches are distributed among these distances:
14 6 0.09
15 6 0.09
16 7 0.10
17 6 0.09
18 21 0.31
19 5 0.07
20 4 0.06
21 12 0.18
ACGTcount: A:0.30, C:0.04, G:0.01, T:0.65
Consensus pattern (18 bp):
TTATTTATATTATTATTA
Found at i:296354 original size:40 final size:37
Alignment explanation
Indices: 296283--296417 Score: 136
Period size: 35 Copynumber: 3.7 Consensus size: 37
296273 CATGGCAAAG
*
296283 TGTGAAATGTAAGTATGGTA--TCATCCATACTGAGT
1 TGTGAAATGTAGGTATGGTATTTCATCCATACTGAGT
296318 TGTGAAATGTAGGTATGGTATTATCAAATCCATACTGAGT
1 TGTGAAATGTAGGTATGGTATT-TC--ATCCATACTGAGT
** * * *
296358 TAAGAAACGTAGGTATTGCATTTC-T-CATAAC-GAGT
1 TGTGAAATGTAGGTATGGTATTTCATCCAT-ACTGAGT
*
296393 TGTAAAATGTAGGTATGGTATTTCA
1 TGTGAAATGTAGGTATGGTATTTCA
296418 ATGAGGAAAA
Statistics
Matches: 81, Mismatches: 12, Indels: 13
0.76 0.11 0.12
Matches are distributed among these distances:
35 44 0.54
36 3 0.04
38 2 0.02
39 2 0.02
40 30 0.37
ACGTcount: A:0.33, C:0.10, G:0.22, T:0.35
Consensus pattern (37 bp):
TGTGAAATGTAGGTATGGTATTTCATCCATACTGAGT
Found at i:303258 original size:40 final size:37
Alignment explanation
Indices: 303187--303321 Score: 136
Period size: 35 Copynumber: 3.7 Consensus size: 37
303177 CATGGCAAAG
*
303187 TGTGAAATGTAAGTATGGTA--TCATCCATACTGAGT
1 TGTGAAATGTAGGTATGGTATTTCATCCATACTGAGT
303222 TGTGAAATGTAGGTATGGTATTATCAAATCCATACTGAGT
1 TGTGAAATGTAGGTATGGTATT-TC--ATCCATACTGAGT
** * *
303262 TAAGAAACGTAGGTATGGCATTTC-T-CATAAC-GAGT
1 TGTGAAATGTAGGTATGGTATTTCATCCAT-ACTGAGT
* *
303297 TGTAAAATGTAGATATGGTATTTCA
1 TGTGAAATGTAGGTATGGTATTTCA
303322 ATGAGGAAAA
Statistics
Matches: 82, Mismatches: 11, Indels: 13
0.77 0.10 0.12
Matches are distributed among these distances:
35 44 0.54
36 3 0.04
38 2 0.02
39 2 0.02
40 31 0.38
ACGTcount: A:0.33, C:0.10, G:0.22, T:0.34
Consensus pattern (37 bp):
TGTGAAATGTAGGTATGGTATTTCATCCATACTGAGT
Found at i:306882 original size:50 final size:50
Alignment explanation
Indices: 306807--306983 Score: 302
Period size: 50 Copynumber: 3.5 Consensus size: 50
306797 CCATGGCAAC
306807 AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATGA
1 AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATGA
*
306857 AAGTGATAAGT-AGTAGCTTCGGCTACACTTATCTGATCAAGGACAAGTGA
1 AAGTGATAAGTGA-TAGCTTCGGCTACACTTATCTGATCAAGGACAAATGA
306907 AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATGA
1 AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATGA
* *
306957 CAAGTGAAAAGTGGTAGCTTCGGCTAC
1 -AAGTGATAAGTGATAGCTTCGGCTAC
306984 CTGATCAGTG
Statistics
Matches: 120, Mismatches: 4, Indels: 5
0.93 0.03 0.04
Matches are distributed among these distances:
49 1 0.01
50 94 0.78
51 25 0.21
ACGTcount: A:0.34, C:0.16, G:0.24, T:0.25
Consensus pattern (50 bp):
AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATGA
Found at i:306997 original size:31 final size:31
Alignment explanation
Indices: 306959--307107 Score: 237
Period size: 31 Copynumber: 4.8 Consensus size: 31
306949 ACAAATGACA
306959 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
1 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
306990 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
1 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
*
307021 AGTGAAAAGTGGTAGC-TCTTGCTACCTGATC
1 AGTGAAAAGTGGTAGCTTC-GGCTACCTGATC
* *
307052 AATGAAAAGTGGTAGCTCCGGCTACCTGATC
1 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
* *
307083 AATGAATAGTGGTAGCTTCGGCTAC
1 AGTGAAAAGTGGTAGCTTCGGCTAC
307108 AAGTGACAAG
Statistics
Matches: 110, Mismatches: 6, Indels: 4
0.92 0.05 0.03
Matches are distributed among these distances:
30 2 0.02
31 107 0.97
32 1 0.01
ACGTcount: A:0.27, C:0.19, G:0.28, T:0.26
Consensus pattern (31 bp):
AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
Found at i:307243 original size:46 final size:47
Alignment explanation
Indices: 307126--307290 Score: 164
Period size: 47 Copynumber: 3.6 Consensus size: 47
307116 AGTGATTTCC
* * * *
307126 GTATAAGACCATATCTGGGATATGGCACCGGTGTGATATATGCTACT
1 GTATAAGACCATATCTGGGATATGGCATCAGTGAGATATATGATACT
* *
307173 GTATAAGACCATATCTGGGATATGGCATCAGTGAGATATGTGATTC-
1 GTATAAGACCATATCTGGGATATGGCATCAGTGAGATATATGATACT
* * *
307219 GTGTAAGACCATAGCTGGGTTATGGCATC-----GATATATGAATA-T
1 GTATAAGACCATATCTGGGATATGGCATCAGTGAGATATATG-ATACT
* * *
307261 GTATAAAACCATAGCTGGGCTATGGCATCA
1 GTATAAGACCATATCTGGGATATGGCATCA
307291 TTATGCGAAG
Statistics
Matches: 101, Mismatches: 14, Indels: 10
0.81 0.11 0.08
Matches are distributed among these distances:
41 7 0.07
42 28 0.28
46 26 0.26
47 40 0.40
ACGTcount: A:0.30, C:0.15, G:0.25, T:0.29
Consensus pattern (47 bp):
GTATAAGACCATATCTGGGATATGGCATCAGTGAGATATATGATACT
Found at i:307285 original size:42 final size:42
Alignment explanation
Indices: 307226--307333 Score: 121
Period size: 42 Copynumber: 2.6 Consensus size: 42
307216 TTCGTGTAAG
* *
307226 ACCATAGCTGGGTTATGGCATCGATATAT-GAATATGTATAAA
1 ACCATAGCTGGGCTATGGCATCGAT-TATCGAAGATGTATAAA
* *
307268 ACCATAGCTGGGCTATGGCATC-ATTATGCGAAGATGTGTAAG
1 ACCATAGCTGGGCTATGGCATCGATTAT-CGAAGATGTATAAA
* **
307310 ACCATAGTTGAACTATGGCATCGA
1 ACCATAGCTGGGCTATGGCATCGA
307334 GAAAACGAAG
Statistics
Matches: 56, Mismatches: 7, Indels: 5
0.82 0.10 0.07
Matches are distributed among these distances:
40 3 0.05
41 2 0.04
42 50 0.89
43 1 0.02
ACGTcount: A:0.32, C:0.16, G:0.24, T:0.28
Consensus pattern (42 bp):
ACCATAGCTGGGCTATGGCATCGATTATCGAAGATGTATAAA
Found at i:312663 original size:6 final size:6
Alignment explanation
Indices: 312652--312677 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
312642 AAAAATGCAA
312652 GATATG GATATG GATATG GATATG GA
1 GATATG GATATG GATATG GATATG GA
312678 AGTATGGATG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.35, C:0.00, G:0.35, T:0.31
Consensus pattern (6 bp):
GATATG
Found at i:316224 original size:29 final size:29
Alignment explanation
Indices: 316186--316260 Score: 78
Period size: 29 Copynumber: 2.6 Consensus size: 29
316176 AACTTTAATT
316186 AAAATAATAAAACAATCATTAAATTTTAA
1 AAAATAATAAAACAATCATTAAATTTTAA
* ** * *
316215 AAAATTATAACTCAGTCATTAAATTTTACG
1 AAAATAATAAAACAATCATTAAATTTTA-A
* *
316245 GAAATAACAAAACAAT
1 AAAATAATAAAACAAT
316261 TACTAATAAC
Statistics
Matches: 34, Mismatches: 11, Indels: 1
0.74 0.24 0.02
Matches are distributed among these distances:
29 24 0.71
30 10 0.29
ACGTcount: A:0.56, C:0.11, G:0.04, T:0.29
Consensus pattern (29 bp):
AAAATAATAAAACAATCATTAAATTTTAA
Found at i:331895 original size:24 final size:23
Alignment explanation
Indices: 331868--331922 Score: 65
Period size: 24 Copynumber: 2.3 Consensus size: 23
331858 TGACGTACAA
*
331868 AAATTAATTTTTAACCATAAAAAT
1 AAATTAATTTTTAA-CAAAAAAAT
*
331892 AAATGAAATTTTTAACAAAAAAAT
1 AAAT-TAATTTTTAACAAAAAAAT
*
331916 TAATTAA
1 AAATTAA
331923 CATGTAAATA
Statistics
Matches: 26, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
23 2 0.08
24 15 0.58
25 9 0.35
ACGTcount: A:0.58, C:0.05, G:0.02, T:0.35
Consensus pattern (23 bp):
AAATTAATTTTTAACAAAAAAAT
Found at i:341069 original size:2 final size:2
Alignment explanation
Indices: 341062--341093 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
341052 CTATCATTAA
341062 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC
1 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC
341094 GCATATATAT
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:0.50, G:0.00, T:0.00
Consensus pattern (2 bp):
AC
Found at i:345216 original size:48 final size:48
Alignment explanation
Indices: 345158--345249 Score: 166
Period size: 48 Copynumber: 1.9 Consensus size: 48
345148 CACCTCGGCT
*
345158 TCTTTTATCCCTATCATGATCATCATCACTTTCAGTTCTCCGGTACCA
1 TCTTCTATCCCTATCATGATCATCATCACTTTCAGTTCTCCGGTACCA
*
345206 TCTTCTATCCCTATCATGATCATCATCACTTTTAGTTCTCCGGT
1 TCTTCTATCCCTATCATGATCATCATCACTTTCAGTTCTCCGGT
345250 GCCTATCTGT
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
48 42 1.00
ACGTcount: A:0.20, C:0.30, G:0.09, T:0.41
Consensus pattern (48 bp):
TCTTCTATCCCTATCATGATCATCATCACTTTCAGTTCTCCGGTACCA
Found at i:353868 original size:6 final size:6
Alignment explanation
Indices: 353857--353886 Score: 60
Period size: 6 Copynumber: 5.0 Consensus size: 6
353847 CACGGGTCTC
353857 ATTTTT ATTTTT ATTTTT ATTTTT ATTTTT
1 ATTTTT ATTTTT ATTTTT ATTTTT ATTTTT
353887 TGCTATAACT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 24 1.00
ACGTcount: A:0.17, C:0.00, G:0.00, T:0.83
Consensus pattern (6 bp):
ATTTTT
Found at i:354100 original size:22 final size:19
Alignment explanation
Indices: 354075--354115 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 19
354065 TGAAATTTGG
354075 TTAAATGATTTTCATCTAAAAT
1 TTAAAT-ATTTT-AT-TAAAAT
354097 TTAAATATTTTATTAAAAT
1 TTAAATATTTTATTAAAAT
354116 AATATATAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 6 0.32
20 2 0.11
21 5 0.26
22 6 0.32
ACGTcount: A:0.44, C:0.05, G:0.02, T:0.49
Consensus pattern (19 bp):
TTAAATATTTTATTAAAAT
Found at i:354579 original size:16 final size:16
Alignment explanation
Indices: 354558--354589 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
354548 CATCAAACAG
354558 CACTTAAACCTATGAA
1 CACTTAAACCTATGAA
354574 CACTTAAACCTATGAA
1 CACTTAAACCTATGAA
354590 GTATTGTTCC
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:0.44, C:0.25, G:0.06, T:0.25
Consensus pattern (16 bp):
CACTTAAACCTATGAA
Found at i:355982 original size:21 final size:21
Alignment explanation
Indices: 355925--355982 Score: 57
Period size: 21 Copynumber: 2.8 Consensus size: 21
355915 TTTTTCTCCT
* * *
355925 CAGCTGCAGGAGCTTCAGCGG
1 CAGCGGCAGCAGCTCCAGCGG
355946 CAGCGGCAGC-GCCTCCAGCCGG
1 CAGCGGCAGCAG-CTCCAG-CGG
355968 -AGCGGCAGCAGCTCC
1 CAGCGGCAGCAGCTCC
355983 TCCACCCCCG
Statistics
Matches: 31, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
20 1 0.03
21 26 0.84
22 4 0.13
ACGTcount: A:0.17, C:0.38, G:0.36, T:0.09
Consensus pattern (21 bp):
CAGCGGCAGCAGCTCCAGCGG
Found at i:356902 original size:97 final size:99
Alignment explanation
Indices: 356794--356994 Score: 309
Period size: 103 Copynumber: 2.0 Consensus size: 99
356784 TTTTTTATCA
* *
356794 TTTTATTTTACCCTTTCTACTATTCATCATTTTCTGAAC-C-T-AATTTTCTATTTAAATCTTTT
1 TTTTATTTTACCCTTTCTACTATTCATCATTTTCCG-ACTCTTAAAATTTCTATTTAAATCTTTT
356856 AAAAATTTTAAATTAATAAAAATAAAATTATATTT
65 AAAAATTTTAAATTAATAAAAATAAAATTATATTT
*
356891 TTTTATTTTACCCTTTTTACTATTCATCATTTTCCGACTCTTAAAAAAAATTTCTATTTAAATCT
1 TTTTATTTTACCCTTTCTACTATTCATCATTTTCCGACTCTT----AAAATTTCTATTTAAATCT
356956 TTTAAAAATTTTAAATTAATAAAAATAAAATTATATTT
62 TTTAAAAATTTTAAATTAATAAAAATAAAATTATATTT
356994 T
1 T
356995 AATTTCACTA
Statistics
Matches: 94, Mismatches: 3, Indels: 8
0.90 0.03 0.08
Matches are distributed among these distances:
96 2 0.02
97 35 0.37
98 1 0.01
103 56 0.60
ACGTcount: A:0.37, C:0.12, G:0.01, T:0.50
Consensus pattern (99 bp):
TTTTATTTTACCCTTTCTACTATTCATCATTTTCCGACTCTTAAAATTTCTATTTAAATCTTTTA
AAAATTTTAAATTAATAAAAATAAAATTATATTT
Found at i:370171 original size:21 final size:23
Alignment explanation
Indices: 370129--370172 Score: 56
Period size: 21 Copynumber: 2.0 Consensus size: 23
370119 TAATAAATGA
*
370129 AAATTATAAAACTATTAAATATT
1 AAATTATAAAACTACTAAATATT
*
370152 AAATTA-AAAA-TACTATATATT
1 AAATTATAAAACTACTAAATATT
370173 TTCTAAAAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
21 9 0.47
22 4 0.21
23 6 0.32
ACGTcount: A:0.57, C:0.05, G:0.00, T:0.39
Consensus pattern (23 bp):
AAATTATAAAACTACTAAATATT
Found at i:375078 original size:20 final size:19
Alignment explanation
Indices: 375046--375098 Score: 52
Period size: 20 Copynumber: 2.7 Consensus size: 19
375036 ATTTAATGGT
* *
375046 TATATTTAAATATTTAAAA
1 TATATTTATATATTCAAAA
*
375065 TATAGTTTATATATTCAAAT
1 TATA-TTTATATATTCAAAA
*
375085 TAAATTTTATATAT
1 TATA-TTTATATAT
375099 AATTAATATT
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
19 4 0.14
20 24 0.86
ACGTcount: A:0.45, C:0.02, G:0.02, T:0.51
Consensus pattern (19 bp):
TATATTTATATATTCAAAA
Found at i:375139 original size:30 final size:30
Alignment explanation
Indices: 375099--375155 Score: 73
Period size: 30 Copynumber: 1.9 Consensus size: 30
375089 TTTTATATAT
375099 AATTAATA-TTTAT-TACTTAAAAATATTTAA
1 AATTAATATTTTATATA-TT-AAAATATTTAA
*
375129 AATTTATATTTTATATATTAAAATATT
1 AATTAATATTTTATATATTAAAATATT
375156 AACAACAAGT
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
30 15 0.62
31 7 0.29
32 2 0.08
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.51
Consensus pattern (30 bp):
AATTAATATTTTATATATTAAAATATTTAA
Found at i:375515 original size:31 final size:31
Alignment explanation
Indices: 375480--375548 Score: 95
Period size: 31 Copynumber: 2.2 Consensus size: 31
375470 TTAATGGCGG
*
375480 GTGACTAAAAAAG-AAAAATTCAAATAATTGA
1 GTGACTAAAAAAGAAAAAATT-AAAGAATTGA
* *
375511 GTGACCAAAAAAGAAAAAATTGAAGAATTGA
1 GTGACTAAAAAAGAAAAAATTAAAGAATTGA
375542 GTGACTA
1 GTGACTA
375549 TTTTATAACT
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
31 26 0.79
32 7 0.21
ACGTcount: A:0.55, C:0.07, G:0.17, T:0.20
Consensus pattern (31 bp):
GTGACTAAAAAAGAAAAAATTAAAGAATTGA
Found at i:377559 original size:46 final size:45
Alignment explanation
Indices: 377484--377658 Score: 154
Period size: 46 Copynumber: 3.8 Consensus size: 45
377474 TGTAACCCGC
* *
377484 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGC-TTAGCAT
* * * *
377530 CCATGAGTGAACTCGGACTCAACTCAACGAGCTCGATTGCCTAG-TT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCG--GGCTTAGCAT
* *** * * *
377576 ACATCTCTCGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCAT
1 CCATAAGT-GAACTCGGACTCAACTCAACGAGCTCGGGC-TTAGCAT
* * *
377623 CCATAAGTGAACTCGGACGCAACTTAACGAGTTCGG
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGG
377659 ATGCCCAAAC
Statistics
Matches: 102, Mismatches: 22, Indels: 10
0.76 0.16 0.07
Matches are distributed among these distances:
45 1 0.01
46 66 0.65
47 33 0.32
48 2 0.02
ACGTcount: A:0.27, C:0.29, G:0.22, T:0.22
Consensus pattern (45 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCTTAGCAT
Found at i:381467 original size:43 final size:43
Alignment explanation
Indices: 381393--381654 Score: 375
Period size: 43 Copynumber: 6.1 Consensus size: 43
381383 GTTAAATCCC
* *
381393 GCAGGCTTCGTGCTGGT-AT-TATATTCGGGCCTTCGTGCCTA
1 GCAGGCTTCGTGCCGGTGATGTGTATTCGGGCCTTCGTGCCTA
* *
381434 GCAGGCTTAGTGCCGGTGATGTGTATTCTGGCCTTCGTGCCTA
1 GCAGGCTTCGTGCCGGTGATGTGTATTCGGGCCTTCGTGCCTA
* * *
381477 GCAGGATTAGTGCCGATGATGTGTATTCGGGCCTTCGTGCCTA
1 GCAGGCTTCGTGCCGGTGATGTGTATTCGGGCCTTCGTGCCTA
* *
381520 GCAGACTTCGTGCCGGTGATGTGTATTCGGGCATTCGTGCCTA
1 GCAGGCTTCGTGCCGGTGATGTGTATTCGGGCCTTCGTGCCTA
* * * *
381563 ACAGGCTTCGTGCTGGTGATGTGTATTCGGGCATTCTTGCCTA
1 GCAGGCTTCGTGCCGGTGATGTGTATTCGGGCCTTCGTGCCTA
* *
381606 GCAGGCTTCGTGCCGGTGATGTGTATTCGGGCTTTTGTGCCTA
1 GCAGGCTTCGTGCCGGTGATGTGTATTCGGGCCTTCGTGCCTA
381649 GCAGGC
1 GCAGGC
381655 GTAATGCCGG
Statistics
Matches: 198, Mismatches: 21, Indels: 2
0.90 0.10 0.01
Matches are distributed among these distances:
41 15 0.08
42 2 0.01
43 181 0.91
ACGTcount: A:0.13, C:0.23, G:0.32, T:0.32
Consensus pattern (43 bp):
GCAGGCTTCGTGCCGGTGATGTGTATTCGGGCCTTCGTGCCTA
Found at i:382051 original size:45 final size:44
Alignment explanation
Indices: 381984--382110 Score: 154
Period size: 45 Copynumber: 2.9 Consensus size: 44
381974 TTGACTTGAT
* * **
381984 TATTCGGGCCTTTGAGCTTAGCAAACTATAATGCCGGTGAGATAC
1 TATTCGGGCCTTCGAGCCTAGCAGGCTATAATGCCGGTGAGA-AC
382029 TATTCGGGCCTTCGAGCCTAGCAGGCTATAATGCCGGT--GAAC
1 TATTCGGGCCTTCGAGCCTAGCAGGCTATAATGCCGGTGAGAAC
*
382071 TGATATCGGGCC-TCGAGCCTAACAGGCTA-AATGCCGGTGA
1 T-AT-TCGGGCCTTCGAGCCTAGCAGGCTATAATGCCGGTGA
382111 TTTGAGAAAA
Statistics
Matches: 73, Mismatches: 5, Indels: 9
0.84 0.06 0.10
Matches are distributed among these distances:
42 12 0.16
43 20 0.27
44 7 0.10
45 34 0.47
ACGTcount: A:0.24, C:0.24, G:0.28, T:0.24
Consensus pattern (44 bp):
TATTCGGGCCTTCGAGCCTAGCAGGCTATAATGCCGGTGAGAAC
Found at i:385404 original size:46 final size:46
Alignment explanation
Indices: 385344--385571 Score: 332
Period size: 46 Copynumber: 5.0 Consensus size: 46
385334 TTTGACATGA
* * * * * * *
385344 TGCCATAGTGTCTTTTAACTATGGTCTTACTCATTTTC-TGTCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACA-TTTCATATCAGGT
*** *
385390 TGCCATGGTATCTTTCAACCATGGTCTTGTTCATTTCATATCACGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
385436 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
*
385482 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGC
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
385528 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
385572 AGAGCACACT
Statistics
Matches: 168, Mismatches: 13, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
45 4 0.02
46 164 0.98
ACGTcount: A:0.22, C:0.24, G:0.15, T:0.39
Consensus pattern (46 bp):
TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
Found at i:386395 original size:16 final size:16
Alignment explanation
Indices: 386374--386405 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
386364 GAGTTACCGA
*
386374 TTCATTTATCCGATAT
1 TTCATTAATCCGATAT
386390 TTCATTAATCCGATAT
1 TTCATTAATCCGATAT
386406 CTTTTTTTTA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.28, C:0.19, G:0.06, T:0.47
Consensus pattern (16 bp):
TTCATTAATCCGATAT
Found at i:392688 original size:39 final size:37
Alignment explanation
Indices: 392621--392713 Score: 98
Period size: 39 Copynumber: 2.5 Consensus size: 37
392611 ACCAGAATGG
* *
392621 CACCCAGTGCCTCATCGGATAGTTCGAAGCAATAGTTGA
1 CACCCAGTGCCTCATCGGAAAGTCCGAAG-AA-AGTTGA
* *
392660 CACCCAGTGTCTCATCGGCAAAG-CCGAAGAAAGTTGG
1 CACCCAGTGCCTCATCGG-AAAGTCCGAAGAAAGTTGA
* *
392697 TACCCAGTACCTCATCG
1 CACCCAGTGCCTCATCG
392714 AATCTATCCG
Statistics
Matches: 46, Mismatches: 7, Indels: 4
0.81 0.12 0.07
Matches are distributed among these distances:
37 19 0.41
38 2 0.04
39 22 0.48
40 3 0.07
ACGTcount: A:0.28, C:0.29, G:0.23, T:0.20
Consensus pattern (37 bp):
CACCCAGTGCCTCATCGGAAAGTCCGAAGAAAGTTGA
Found at i:393077 original size:3 final size:3
Alignment explanation
Indices: 393069--393113 Score: 54
Period size: 3 Copynumber: 15.0 Consensus size: 3
393059 ATTCCCACTC
* * * *
393069 ATA ATA ATA ATA ATA CTA ATA ATA ATA CTA ATA CTA ATA TTA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
393114 CTTACCTCAC
Statistics
Matches: 34, Mismatches: 8, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
3 34 1.00
ACGTcount: A:0.58, C:0.07, G:0.00, T:0.36
Consensus pattern (3 bp):
ATA
Found at i:393114 original size:18 final size:18
Alignment explanation
Indices: 393069--393115 Score: 76
Period size: 18 Copynumber: 2.6 Consensus size: 18
393059 ATTCCCACTC
*
393069 ATAATAATAATAATACTA
1 ATAATAATACTAATACTA
393087 ATAATAATACTAATACTA
1 ATAATAATACTAATACTA
*
393105 ATATTAATACT
1 ATAATAATACT
393116 TACCTCACAT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
18 27 1.00
ACGTcount: A:0.55, C:0.09, G:0.00, T:0.36
Consensus pattern (18 bp):
ATAATAATACTAATACTA
Found at i:393115 original size:12 final size:12
Alignment explanation
Indices: 393073--393113 Score: 64
Period size: 12 Copynumber: 3.4 Consensus size: 12
393063 CCACTCATAA
393073 TAATAATAATAC
1 TAATAATAATAC
393085 TAATAATAATAC
1 TAATAATAATAC
* *
393097 TAATACTAATAT
1 TAATAATAATAC
393109 TAATA
1 TAATA
393114 CTTACCTCAC
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
12 27 1.00
ACGTcount: A:0.56, C:0.07, G:0.00, T:0.37
Consensus pattern (12 bp):
TAATAATAATAC
Found at i:393833 original size:16 final size:16
Alignment explanation
Indices: 393814--393848 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
393804 TTCTTTGTTC
393814 TTTCTATTCTGTTTCT
1 TTTCTATTCTGTTTCT
* *
393830 TTTCTGTTTTGTTTCT
1 TTTCTATTCTGTTTCT
393846 TTT
1 TTT
393849 ATATATAATA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.03, C:0.14, G:0.09, T:0.74
Consensus pattern (16 bp):
TTTCTATTCTGTTTCT
Found at i:393875 original size:14 final size:17
Alignment explanation
Indices: 393854--393894 Score: 61
Period size: 14 Copynumber: 2.6 Consensus size: 17
393844 CTTTTATATA
393854 TAATAATATAA-T-ATT
1 TAATAATATAATTAATT
393869 T-ATAATATAATTAATT
1 TAATAATATAATTAATT
393885 TAATAATATA
1 TAATAATATA
393895 CTTTATAATT
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
14 9 0.39
15 2 0.09
16 4 0.17
17 8 0.35
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
TAATAATATAATTAATT
Found at i:393890 original size:17 final size:15
Alignment explanation
Indices: 393849--393894 Score: 58
Period size: 14 Copynumber: 3.0 Consensus size: 15
393839 TGTTTCTTTT
*
393849 ATATATAATAATATA
1 ATATTTAATAATATA
393864 ATATTT-ATAATATA
1 ATATTTAATAATATA
393878 ATTAATTTAATAATATA
1 A-T-ATTTAATAATATA
393895 CTTTATAATT
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
14 9 0.33
15 6 0.22
16 4 0.15
17 8 0.30
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (15 bp):
ATATTTAATAATATA
Found at i:393902 original size:12 final size:11
Alignment explanation
Indices: 393874--393917 Score: 52
Period size: 12 Copynumber: 3.7 Consensus size: 11
393864 ATATTTATAA
393874 TATAATTAATT
1 TATAATTAATT
*
393885 TAATAATATACTT
1 T-ATAAT-TAATT
393898 TATAATTAATT
1 TATAATTAATT
393909 TATATATTA
1 TATA-ATTA
393918 TATAAATAAT
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
11 9 0.32
12 14 0.50
13 5 0.18
ACGTcount: A:0.45, C:0.02, G:0.00, T:0.52
Consensus pattern (11 bp):
TATAATTAATT
Found at i:393926 original size:24 final size:24
Alignment explanation
Indices: 393875--393927 Score: 63
Period size: 24 Copynumber: 2.2 Consensus size: 24
393865 TATTTATAAT
**
393875 ATAATTAATTTAATAATATACTTT
1 ATAATTAATTTAATAATATACTAA
*
393899 ATAATTAATTTATATATTATA-TAA
1 ATAATTAATTTA-ATAATATACTAA
393923 ATAAT
1 ATAAT
393928 AATATAAAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
24 18 0.72
25 7 0.28
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (24 bp):
ATAATTAATTTAATAATATACTAA
Found at i:394833 original size:15 final size:15
Alignment explanation
Indices: 394813--394848 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 15
394803 TGTTTCTTTG
394813 TTCTTTCTATTCTGT
1 TTCTTTCTATTCTGT
* *
394828 TTCTTTCTGTTTTGT
1 TTCTTTCTATTCTGT
394843 TTCTTT
1 TTCTTT
394849 TATATATAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.03, C:0.17, G:0.08, T:0.72
Consensus pattern (15 bp):
TTCTTTCTATTCTGT
Found at i:394873 original size:21 final size:21
Alignment explanation
Indices: 394847--394931 Score: 77
Period size: 23 Copynumber: 3.9 Consensus size: 21
394837 TTTTGTTTCT
394847 TTTATATATAATAATATAATA
1 TTTATATATAATAATATAATA
*
394868 TTTATAATATAATTAATTTAATA
1 TTTAT-ATATAA-TAATATAATA
*
394891 TACTT-TATA-ATTAAT-TATATA
1 T--TTATATATAATAATATA-ATA
394912 TTTATATAATAATAATATAA
1 TTTATAT-ATAATAATATAA
394932 AAATCTAAGA
Statistics
Matches: 52, Mismatches: 3, Indels: 17
0.72 0.04 0.24
Matches are distributed among these distances:
19 2 0.04
20 5 0.10
21 14 0.27
22 13 0.25
23 15 0.29
24 1 0.02
25 2 0.04
ACGTcount: A:0.49, C:0.01, G:0.00, T:0.49
Consensus pattern (21 bp):
TTTATATATAATAATATAATA
Found at i:394924 original size:19 final size:20
Alignment explanation
Indices: 394851--394930 Score: 58
Period size: 19 Copynumber: 3.9 Consensus size: 20
394841 GTTTCTTTTA
*
394851 TATATAATAA-TATAATATTT
1 TATATAATAATTAT-ATACTT
394871 ATAATATAATTAATTTAATATACTT
1 -T-ATATAA-TAA-TT-ATATACTT
*
394896 TATA-ATTAATTATATA-TT
1 TATATAATAATTATATACTT
*
394914 TATATAATAATAATATA
1 TATATAATAATTATATA
394931 AAAATCTAAG
Statistics
Matches: 49, Mismatches: 4, Indels: 14
0.73 0.06 0.21
Matches are distributed among these distances:
18 6 0.12
19 15 0.31
20 2 0.04
21 4 0.08
22 7 0.14
23 6 0.12
24 1 0.02
25 6 0.12
26 2 0.04
ACGTcount: A:0.50, C:0.01, G:0.00, T:0.49
Consensus pattern (20 bp):
TATATAATAATTATATACTT
Found at i:395835 original size:16 final size:16
Alignment explanation
Indices: 395816--395850 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
395806 TTCTTTGTTC
395816 TTTCTATTCTGTTTCT
1 TTTCTATTCTGTTTCT
* *
395832 TTTCTGTTTTGTTTCT
1 TTTCTATTCTGTTTCT
395848 TTT
1 TTT
395851 ATATATAATA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.03, C:0.14, G:0.09, T:0.74
Consensus pattern (16 bp):
TTTCTATTCTGTTTCT
Found at i:395876 original size:17 final size:17
Alignment explanation
Indices: 395854--395931 Score: 53
Period size: 15 Copynumber: 4.9 Consensus size: 17
395844 TTCTTTTATA
395854 TATAATAATATAATATT
1 TATAATAATATAATATT
* *
395871 TATAAT-ATA-ATTAAT
1 TATAATAATATAATATT
*
395886 T-TAATAATAT-A-CTT
1 TATAATAATATAATATT
*
395900 TATAATTAATTTATATATT
1 TATAA-TAATATA-ATATT
395919 TAT-ATAA-ATAATA
1 TATAATAATATAATA
395932 ATATAAAAAT
Statistics
Matches: 46, Mismatches: 8, Indels: 16
0.66 0.11 0.23
Matches are distributed among these distances:
14 6 0.13
15 14 0.30
16 10 0.22
17 9 0.20
18 2 0.04
19 5 0.11
ACGTcount: A:0.50, C:0.01, G:0.00, T:0.49
Consensus pattern (17 bp):
TATAATAATATAATATT
Found at i:395877 original size:14 final size:17
Alignment explanation
Indices: 395856--395896 Score: 61
Period size: 14 Copynumber: 2.6 Consensus size: 17
395846 CTTTTATATA
395856 TAATAATATAA-T-ATT
1 TAATAATATAATTAATT
395871 T-ATAATATAATTAATT
1 TAATAATATAATTAATT
395887 TAATAATATA
1 TAATAATATA
395897 CTTTATAATT
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
14 9 0.39
15 2 0.09
16 4 0.17
17 8 0.35
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
TAATAATATAATTAATT
Found at i:395914 original size:11 final size:11
Alignment explanation
Indices: 395876--395914 Score: 51
Period size: 12 Copynumber: 3.4 Consensus size: 11
395866 ATATTTATAA
395876 TATAATTAATT
1 TATAATTAATT
*
395887 TAATAATATACTT
1 T-ATAAT-TAATT
395900 TATAATTAATT
1 TATAATTAATT
395911 TATA
1 TATA
395915 TATTTATATA
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
11 9 0.38
12 10 0.42
13 5 0.21
ACGTcount: A:0.46, C:0.03, G:0.00, T:0.51
Consensus pattern (11 bp):
TATAATTAATT
Found at i:395933 original size:24 final size:24
Alignment explanation
Indices: 395850--395930 Score: 87
Period size: 24 Copynumber: 3.4 Consensus size: 24
395840 TTGTTTCTTT
*
395850 TATATATAA-TAATATAATATTTA
1 TATATATAATTAATTTAATATTTA
*
395873 TA-ATATAATTAATTTAATA-ATA
1 TATATATAATTAATTTAATATTTA
*
395895 TACTTTATAATTAATTTATATATTTA
1 TA-TATATAATTAATTTA-ATATTTA
*
395921 TATAAATAAT
1 TATATATAAT
395931 AATATAAAAA
Statistics
Matches: 47, Mismatches: 6, Indels: 8
0.77 0.10 0.13
Matches are distributed among these distances:
22 10 0.21
23 11 0.23
24 13 0.28
25 9 0.19
26 4 0.09
ACGTcount: A:0.49, C:0.01, G:0.00, T:0.49
Consensus pattern (24 bp):
TATATATAATTAATTTAATATTTA
Found at i:396831 original size:25 final size:25
Alignment explanation
Indices: 396799--396846 Score: 87
Period size: 25 Copynumber: 1.9 Consensus size: 25
396789 GTTTCGTCTC
*
396799 TTCTATTCTGTTTCTTTTTTGTTCT
1 TTCTATTCTGTTTCTTTTCTGTTCT
396824 TTCTATTCTGTTTCTTTTCTGTT
1 TTCTATTCTGTTTCTTTTCTGTT
396847 TTGTTTCTTT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.04, C:0.17, G:0.08, T:0.71
Consensus pattern (25 bp):
TTCTATTCTGTTTCTTTTCTGTTCT
Found at i:396842 original size:16 final size:16
Alignment explanation
Indices: 396823--396857 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
396813 TTTTTTGTTC
396823 TTTCTATTCTGTTTCT
1 TTTCTATTCTGTTTCT
* *
396839 TTTCTGTTTTGTTTCT
1 TTTCTATTCTGTTTCT
396855 TTT
1 TTT
396858 ATATATAATA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.03, C:0.14, G:0.09, T:0.74
Consensus pattern (16 bp):
TTTCTATTCTGTTTCT
Found at i:396883 original size:17 final size:17
Alignment explanation
Indices: 396861--396938 Score: 53
Period size: 15 Copynumber: 4.9 Consensus size: 17
396851 TTCTTTTATA
396861 TATAATAATATAATATT
1 TATAATAATATAATATT
* *
396878 TATAAT-ATA-ATTAAT
1 TATAATAATATAATATT
*
396893 T-TAATAATAT-A-CTT
1 TATAATAATATAATATT
*
396907 TATAATTAATTTATATATT
1 TATAA-TAATATA-ATATT
396926 TAT-ATAA-ATAATA
1 TATAATAATATAATA
396939 ATATAAAAAT
Statistics
Matches: 46, Mismatches: 8, Indels: 16
0.66 0.11 0.23
Matches are distributed among these distances:
14 6 0.13
15 14 0.30
16 10 0.22
17 9 0.20
18 2 0.04
19 5 0.11
ACGTcount: A:0.50, C:0.01, G:0.00, T:0.49
Consensus pattern (17 bp):
TATAATAATATAATATT
Found at i:396884 original size:14 final size:17
Alignment explanation
Indices: 396863--396903 Score: 61
Period size: 14 Copynumber: 2.6 Consensus size: 17
396853 CTTTTATATA
396863 TAATAATATAA-T-ATT
1 TAATAATATAATTAATT
396878 T-ATAATATAATTAATT
1 TAATAATATAATTAATT
396894 TAATAATATA
1 TAATAATATA
396904 CTTTATAATT
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
14 9 0.39
15 2 0.09
16 4 0.17
17 8 0.35
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
TAATAATATAATTAATT
Found at i:396921 original size:11 final size:11
Alignment explanation
Indices: 396883--396921 Score: 51
Period size: 12 Copynumber: 3.4 Consensus size: 11
396873 ATATTTATAA
396883 TATAATTAATT
1 TATAATTAATT
*
396894 TAATAATATACTT
1 T-ATAAT-TAATT
396907 TATAATTAATT
1 TATAATTAATT
396918 TATA
1 TATA
396922 TATTTATATA
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
11 9 0.38
12 10 0.42
13 5 0.21
ACGTcount: A:0.46, C:0.03, G:0.00, T:0.51
Consensus pattern (11 bp):
TATAATTAATT
Found at i:396940 original size:24 final size:24
Alignment explanation
Indices: 396857--396937 Score: 87
Period size: 24 Copynumber: 3.4 Consensus size: 24
396847 TTGTTTCTTT
*
396857 TATATATAA-TAATATAATATTTA
1 TATATATAATTAATTTAATATTTA
*
396880 TA-ATATAATTAATTTAATA-ATA
1 TATATATAATTAATTTAATATTTA
*
396902 TACTTTATAATTAATTTATATATTTA
1 TA-TATATAATTAATTTA-ATATTTA
*
396928 TATAAATAAT
1 TATATATAAT
396938 AATATAAAAA
Statistics
Matches: 47, Mismatches: 6, Indels: 8
0.77 0.10 0.13
Matches are distributed among these distances:
22 10 0.21
23 11 0.23
24 13 0.28
25 9 0.19
26 4 0.09
ACGTcount: A:0.49, C:0.01, G:0.00, T:0.49
Consensus pattern (24 bp):
TATATATAATTAATTTAATATTTA
Found at i:401880 original size:21 final size:21
Alignment explanation
Indices: 401838--401880 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 21
401828 TTCACTATAC
*
401838 ATTCTTTCATCAGTATCATTT
1 ATTCTTTCATCAGCATCATTT
*
401859 ATTCTTTCTTCAGACATC-TTT
1 ATTCTTTCATCAG-CATCATTT
401880 A
1 A
401881 ATCTATAAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
21 16 0.84
22 3 0.16
ACGTcount: A:0.23, C:0.21, G:0.05, T:0.51
Consensus pattern (21 bp):
ATTCTTTCATCAGCATCATTT
Found at i:402991 original size:39 final size:37
Alignment explanation
Indices: 402924--403016 Score: 98
Period size: 39 Copynumber: 2.5 Consensus size: 37
402914 ACCAGAATGG
* *
402924 CACCCAGTGCCTCATCGGATAGTTCGAAGCAATAGTTGA
1 CACCCAGTGCCTCATCGGAAAGTCCGAAG-AA-AGTTGA
* *
402963 CACCCAGTGTCTCATCGGCAAAG-CCGAAGAAAGTTGG
1 CACCCAGTGCCTCATCGG-AAAGTCCGAAGAAAGTTGA
* *
403000 TACCCAGTACCTCATCG
1 CACCCAGTGCCTCATCG
403017 AATCTATCCG
Statistics
Matches: 46, Mismatches: 7, Indels: 4
0.81 0.12 0.07
Matches are distributed among these distances:
37 19 0.41
38 2 0.04
39 22 0.48
40 3 0.07
ACGTcount: A:0.28, C:0.29, G:0.23, T:0.20
Consensus pattern (37 bp):
CACCCAGTGCCTCATCGGAAAGTCCGAAGAAAGTTGA
Found at i:403215 original size:23 final size:25
Alignment explanation
Indices: 403160--403225 Score: 75
Period size: 24 Copynumber: 2.7 Consensus size: 25
403150 ACATATATTC
* *
403160 TCAATTCAATCAATTTT-CACATTT
1 TCAATTCAATCATTTTTCCACACTT
403184 TCAATTCAATCATTTTTCCAC-CTT
1 TCAATTCAATCATTTTTCCACACTT
*
403208 TCAA-TCAATAATTATTTC
1 TCAATTCAATCATT-TTTC
403226 ACAACTTCAC
Statistics
Matches: 37, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
23 8 0.22
24 26 0.70
25 3 0.08
ACGTcount: A:0.32, C:0.23, G:0.00, T:0.45
Consensus pattern (25 bp):
TCAATTCAATCATTTTTCCACACTT
Found at i:403376 original size:3 final size:3
Alignment explanation
Indices: 403368--403412 Score: 54
Period size: 3 Copynumber: 15.0 Consensus size: 3
403358 ATTCCCACTC
* * * *
403368 ATA ATA ATA ATA ATA CTA ATA ATA ATA CTA ATA CTA ATA TTA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
403413 CTTACCTCAC
Statistics
Matches: 34, Mismatches: 8, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
3 34 1.00
ACGTcount: A:0.58, C:0.07, G:0.00, T:0.36
Consensus pattern (3 bp):
ATA
Found at i:403413 original size:18 final size:18
Alignment explanation
Indices: 403368--403414 Score: 76
Period size: 18 Copynumber: 2.6 Consensus size: 18
403358 ATTCCCACTC
*
403368 ATAATAATAATAATACTA
1 ATAATAATACTAATACTA
403386 ATAATAATACTAATACTA
1 ATAATAATACTAATACTA
*
403404 ATATTAATACT
1 ATAATAATACT
403415 TACCTCACAT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
18 27 1.00
ACGTcount: A:0.55, C:0.09, G:0.00, T:0.36
Consensus pattern (18 bp):
ATAATAATACTAATACTA
Found at i:403414 original size:12 final size:12
Alignment explanation
Indices: 403372--403412 Score: 64
Period size: 12 Copynumber: 3.4 Consensus size: 12
403362 CCACTCATAA
403372 TAATAATAATAC
1 TAATAATAATAC
403384 TAATAATAATAC
1 TAATAATAATAC
* *
403396 TAATACTAATAT
1 TAATAATAATAC
403408 TAATA
1 TAATA
403413 CTTACCTCAC
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
12 27 1.00
ACGTcount: A:0.56, C:0.07, G:0.00, T:0.37
Consensus pattern (12 bp):
TAATAATAATAC
Found at i:404172 original size:17 final size:17
Alignment explanation
Indices: 404150--404227 Score: 53
Period size: 15 Copynumber: 4.9 Consensus size: 17
404140 TTCTTTTATA
404150 TATAATAATATAATATT
1 TATAATAATATAATATT
* *
404167 TATAAT-ATA-ATTAAT
1 TATAATAATATAATATT
*
404182 T-TAATAATAT-A-CTT
1 TATAATAATATAATATT
*
404196 TATAATTAATTTATATATT
1 TATAA-TAATATA-ATATT
404215 TAT-ATAA-ATAATA
1 TATAATAATATAATA
404228 ATATAAAAAT
Statistics
Matches: 46, Mismatches: 8, Indels: 16
0.66 0.11 0.23
Matches are distributed among these distances:
14 6 0.13
15 14 0.30
16 10 0.22
17 9 0.20
18 2 0.04
19 5 0.11
ACGTcount: A:0.50, C:0.01, G:0.00, T:0.49
Consensus pattern (17 bp):
TATAATAATATAATATT
Found at i:404173 original size:14 final size:17
Alignment explanation
Indices: 404152--404192 Score: 61
Period size: 14 Copynumber: 2.6 Consensus size: 17
404142 CTTTTATATA
404152 TAATAATATAA-T-ATT
1 TAATAATATAATTAATT
404167 T-ATAATATAATTAATT
1 TAATAATATAATTAATT
404183 TAATAATATA
1 TAATAATATA
404193 CTTTATAATT
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
14 9 0.39
15 2 0.09
16 4 0.17
17 8 0.35
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
TAATAATATAATTAATT
Found at i:404210 original size:11 final size:11
Alignment explanation
Indices: 404172--404210 Score: 51
Period size: 12 Copynumber: 3.4 Consensus size: 11
404162 ATATTTATAA
404172 TATAATTAATT
1 TATAATTAATT
*
404183 TAATAATATACTT
1 T-ATAAT-TAATT
404196 TATAATTAATT
1 TATAATTAATT
404207 TATA
1 TATA
404211 TATTTATATA
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
11 9 0.38
12 10 0.42
13 5 0.21
ACGTcount: A:0.46, C:0.03, G:0.00, T:0.51
Consensus pattern (11 bp):
TATAATTAATT
Found at i:404229 original size:24 final size:24
Alignment explanation
Indices: 404146--404226 Score: 87
Period size: 24 Copynumber: 3.4 Consensus size: 24
404136 TTGTTTCTTT
*
404146 TATATATAA-TAATATAATATTTA
1 TATATATAATTAATTTAATATTTA
*
404169 TA-ATATAATTAATTTAATA-ATA
1 TATATATAATTAATTTAATATTTA
*
404191 TACTTTATAATTAATTTATATATTTA
1 TA-TATATAATTAATTTA-ATATTTA
*
404217 TATAAATAAT
1 TATATATAAT
404227 AATATAAAAA
Statistics
Matches: 47, Mismatches: 6, Indels: 8
0.77 0.10 0.13
Matches are distributed among these distances:
22 10 0.21
23 11 0.23
24 13 0.28
25 9 0.19
26 4 0.09
ACGTcount: A:0.49, C:0.01, G:0.00, T:0.49
Consensus pattern (24 bp):
TATATATAATTAATTTAATATTTA
Found at i:408357 original size:6 final size:6
Alignment explanation
Indices: 408346--408388 Score: 54
Period size: 6 Copynumber: 7.3 Consensus size: 6
408336 CTAAATTAAT
*
408346 AAAATA AAAATA AAAAT- -AAATA AAAATA AATAATA AAACTA AA
1 AAAATA AAAATA AAAATA AAAATA AAAATA AA-AATA AAAATA AA
408389 TAAAACAAAG
Statistics
Matches: 33, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
4 4 0.12
6 23 0.70
7 6 0.18
ACGTcount: A:0.79, C:0.02, G:0.00, T:0.19
Consensus pattern (6 bp):
AAAATA
Found at i:408365 original size:17 final size:18
Alignment explanation
Indices: 408337--408388 Score: 72
Period size: 16 Copynumber: 2.9 Consensus size: 18
408327 TAGCCTATTC
408337 TAAATTAATAAAATAAAAA
1 TAAA-TAATAAAATAAAAA
408356 TAAA-AAT-AAATAAAAA
1 TAAATAATAAAATAAAAA
408372 TAAATAATAAAACTAAA
1 TAAATAATAAAA-TAAA
408389 TAAAACAAAG
Statistics
Matches: 30, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
16 13 0.43
17 6 0.20
18 3 0.10
19 8 0.27
ACGTcount: A:0.75, C:0.02, G:0.00, T:0.23
Consensus pattern (18 bp):
TAAATAATAAAATAAAAA
Found at i:408382 original size:13 final size:13
Alignment explanation
Indices: 408337--408391 Score: 57
Period size: 13 Copynumber: 4.5 Consensus size: 13
408327 TAGCCTATTC
408337 TAAATTAAT-AAAA
1 TAAA-TAATAAAAA
408350 TAAA-AATAAAAA
1 TAAATAATAAAAA
408362 T--A-AATAAAAA
1 TAAATAATAAAAA
*
408372 TAAATAATAAAAC
1 TAAATAATAAAAA
408385 TAAATAA
1 TAAATAA
408392 AACAAAGTAA
Statistics
Matches: 37, Mismatches: 1, Indels: 8
0.80 0.02 0.17
Matches are distributed among these distances:
10 10 0.27
11 3 0.08
12 6 0.16
13 18 0.49
ACGTcount: A:0.75, C:0.02, G:0.00, T:0.24
Consensus pattern (13 bp):
TAAATAATAAAAA
Found at i:408394 original size:10 final size:10
Alignment explanation
Indices: 408338--408393 Score: 58
Period size: 10 Copynumber: 5.2 Consensus size: 10
408328 AGCCTATTCT
*
408338 AAATTAATAA
1 AAATAAATAA
*
408348 AATAAAAATAA
1 AA-ATAAATAA
408359 AAATAAATAA
1 AAATAAATAA
408369 AAATAAATAATA
1 AAATAAAT-A-A
408381 AAACTAAATAA
1 AAA-TAAATAA
408392 AA
1 AA
408394 CAAAGTAATA
Statistics
Matches: 39, Mismatches: 3, Indels: 7
0.80 0.06 0.14
Matches are distributed among these distances:
10 17 0.44
11 12 0.31
12 5 0.13
13 5 0.13
ACGTcount: A:0.77, C:0.02, G:0.00, T:0.21
Consensus pattern (10 bp):
AAATAAATAA
Found at i:408403 original size:23 final size:23
Alignment explanation
Indices: 408338--408393 Score: 80
Period size: 23 Copynumber: 2.5 Consensus size: 23
408328 AGCCTATTCT
*
408338 AAATTAAT-AAAATAAA-AATAA
1 AAATAAATAAAAATAAATAATAA
408359 AAATAAATAAAAATAAATAATAA
1 AAATAAATAAAAATAAATAATAA
*
408382 AACTAAATAAAA
1 AAATAAATAAAA
408394 CAAAGTAATA
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
21 7 0.23
22 8 0.26
23 16 0.52
ACGTcount: A:0.77, C:0.02, G:0.00, T:0.21
Consensus pattern (23 bp):
AAATAAATAAAAATAAATAATAA
Found at i:409719 original size:18 final size:18
Alignment explanation
Indices: 409696--409778 Score: 70
Period size: 18 Copynumber: 4.8 Consensus size: 18
409686 TATTTTAATG
409696 AATTATATAATCAATTTA
1 AATTATATAATCAATTTA
* *
409714 AATTAT-TTATTAGA--TA
1 AATTATATAATCA-ATTTA
*
409730 AA--ATGATAAT-AATTTTT
1 AATTAT-ATAATCAA-TTTA
409747 AATTATATAATCAATTTA
1 AATTATATAATCAATTTA
409765 AATTATATAATCAA
1 AATTATATAATCAA
409779 CAGGCCAGGG
Statistics
Matches: 51, Mismatches: 5, Indels: 18
0.69 0.07 0.24
Matches are distributed among these distances:
14 3 0.06
15 1 0.02
16 7 0.14
17 7 0.14
18 29 0.57
19 4 0.08
ACGTcount: A:0.49, C:0.04, G:0.02, T:0.45
Consensus pattern (18 bp):
AATTATATAATCAATTTA
Found at i:422836 original size:13 final size:13
Alignment explanation
Indices: 422818--422843 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
422808 TAACATGTAC
422818 ATTTCTGCTACTA
1 ATTTCTGCTACTA
422831 ATTTCTGCTACTA
1 ATTTCTGCTACTA
422844 GTTATGCTTC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.23, C:0.23, G:0.08, T:0.46
Consensus pattern (13 bp):
ATTTCTGCTACTA
Found at i:432885 original size:19 final size:20
Alignment explanation
Indices: 432846--432891 Score: 60
Period size: 20 Copynumber: 2.4 Consensus size: 20
432836 CTACACTTAC
432846 TTTAAATTAAAATTTACA-T
1 TTTAAATTAAAATTTACATT
*
432865 TTTAAATTAATTATTTA-ATT
1 TTTAAATTAA-AATTTACATT
432885 TTTAAAT
1 TTTAAAT
432892 ACATAATATT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
19 11 0.46
20 13 0.54
ACGTcount: A:0.43, C:0.02, G:0.00, T:0.54
Consensus pattern (20 bp):
TTTAAATTAAAATTTACATT
Found at i:434608 original size:15 final size:15
Alignment explanation
Indices: 434569--434608 Score: 55
Period size: 15 Copynumber: 2.7 Consensus size: 15
434559 AATCTCTTTA
*
434569 TTTTAATTTGATCAT
1 TTTTAATTTTATCAT
434584 TTTTAATTTTAT-AT
1 TTTTAATTTTATCAT
434598 TTTTCAATTTT
1 TTTT-AATTTT
434609 TAAATTTTCA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
14 6 0.26
15 17 0.74
ACGTcount: A:0.25, C:0.05, G:0.03, T:0.68
Consensus pattern (15 bp):
TTTTAATTTTATCAT
Found at i:436332 original size:18 final size:18
Alignment explanation
Indices: 436246--436332 Score: 61
Period size: 18 Copynumber: 4.7 Consensus size: 18
436236 AAATGAATAT
436246 AAATTATGT-AAATTATAA
1 AAATTAT-TAAAATTATAA
* *
436264 AAATTTTCTGAAAAATACTAA
1 AAATTAT-T-AAAATTA-TAA
* * *
436285 AATTTATTAACATGATAA
1 AAATTATTAAAATTATAA
*
436303 AAATT-TTAAAAATTATAT
1 AAATTATT-AAAATTATAA
436321 AAATTATTAAAA
1 AAATTATTAAAA
436333 CAATGAAAAA
Statistics
Matches: 52, Mismatches: 12, Indels: 10
0.70 0.16 0.14
Matches are distributed among these distances:
17 2 0.04
18 30 0.58
19 6 0.12
20 6 0.12
21 8 0.15
ACGTcount: A:0.55, C:0.03, G:0.03, T:0.38
Consensus pattern (18 bp):
AAATTATTAAAATTATAA
Found at i:436672 original size:17 final size:18
Alignment explanation
Indices: 436647--436681 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
436637 AAAAAAAGCT
*
436647 ATTTTTTTAT-ATTTTTA
1 ATTTATTTATCATTTTTA
436664 ATTTATTTATCATTTTTA
1 ATTTATTTATCATTTTTA
436682 TGTTTCTTAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 9 0.56
18 7 0.44
ACGTcount: A:0.26, C:0.03, G:0.00, T:0.71
Consensus pattern (18 bp):
ATTTATTTATCATTTTTA
Found at i:456772 original size:19 final size:19
Alignment explanation
Indices: 456748--456784 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
456738 GAAAAAAAAA
* *
456748 GGAAAATTGAGGAAATAAG
1 GGAAAAATGAGAAAATAAG
456767 GGAAAAATGAGAAAATAA
1 GGAAAAATGAGAAAATAA
456785 CAAAATTTAC
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:0.59, C:0.00, G:0.27, T:0.14
Consensus pattern (19 bp):
GGAAAAATGAGAAAATAAG
Found at i:458134 original size:25 final size:25
Alignment explanation
Indices: 458105--458156 Score: 77
Period size: 25 Copynumber: 2.1 Consensus size: 25
458095 AAGAATAATT
*
458105 TGAATATTTGATATTGCCTAATAAA
1 TGAATATCTGATATTGCCTAATAAA
* *
458130 TGAATATCTGATATTGCTTAGTAAA
1 TGAATATCTGATATTGCCTAATAAA
458155 TG
1 TG
458157 TCAAGCCAAA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.37, C:0.08, G:0.15, T:0.40
Consensus pattern (25 bp):
TGAATATCTGATATTGCCTAATAAA
Found at i:459759 original size:42 final size:43
Alignment explanation
Indices: 459695--459850 Score: 169
Period size: 42 Copynumber: 3.7 Consensus size: 43
459685 CCTCGATTAA
*
459695 GATTTACGTATAAGACCATGTCTGAGACATCGGCATCGTATCT
1 GATTTACGTATAAGACCATGTCTGGGACATCGGCATCGTATCT
* * *
459738 GATTT-CGTGTAAGACCGTGTCTGGGACA-CAGGCCTCG-AT-T
1 GATTTACGTATAAGACCATGTCTGGGACATC-GGCATCGTATCT
* * *
459778 GAGATTTACTTATAAGACCATGTCTGGGATATTGGCATCGTATCT
1 --GATTTACGTATAAGACCATGTCTGGGACATCGGCATCGTATCT
* *
459823 GATTT-CGTGTAAGACCCTGTCTGGGACA
1 GATTTACGTATAAGACCATGTCTGGGACA
459851 GAGGTATCGA
Statistics
Matches: 92, Mismatches: 14, Indels: 15
0.76 0.12 0.12
Matches are distributed among these distances:
40 1 0.01
41 3 0.03
42 50 0.54
43 35 0.38
44 2 0.02
45 1 0.01
ACGTcount: A:0.24, C:0.20, G:0.25, T:0.31
Consensus pattern (43 bp):
GATTTACGTATAAGACCATGTCTGGGACATCGGCATCGTATCT
Found at i:459802 original size:43 final size:42
Alignment explanation
Indices: 459675--459850 Score: 146
Period size: 42 Copynumber: 4.1 Consensus size: 42
459665 TGGTGGTTTC
*
459675 GGGACATAGGCCTCGATTAAGATTTACGTATAAGACCATGTCT
1 GGGACACAGGCCTCGATT-AGATTTACGTATAAGACCATGTCT
* * * *
459718 GAGACATC-GGCATCGTATCT-GATTT-CGTGTAAGACCGTGTCT
1 GGGACA-CAGGCCTCG-AT-TAGATTTACGTATAAGACCATGTCT
*
459760 GGGACACAGGCCTCGATTGAGATTTACTTATAAGACCATGTCT
1 GGGACACAGGCCTCGATT-AGATTTACGTATAAGACCATGTCT
* ** * * *
459803 GGGATATTGGCATCGTATCT-GATTT-CGTGTAAGACCCTGTCT
1 GGGACACAGGCCTCG-AT-TAGATTTACGTATAAGACCATGTCT
459845 GGGACA
1 GGGACA
459851 GAGGTATCGA
Statistics
Matches: 106, Mismatches: 18, Indels: 19
0.74 0.13 0.13
Matches are distributed among these distances:
40 1 0.01
41 3 0.03
42 50 0.47
43 46 0.43
44 4 0.04
45 2 0.02
ACGTcount: A:0.25, C:0.20, G:0.26, T:0.30
Consensus pattern (42 bp):
GGGACACAGGCCTCGATTAGATTTACGTATAAGACCATGTCT
Found at i:459818 original size:85 final size:85
Alignment explanation
Indices: 459675--459850 Score: 289
Period size: 85 Copynumber: 2.1 Consensus size: 85
459665 TGGTGGTTTC
*
459675 GGGACATAGGCCTCGATTAAGATTTACGTATAAGACCATGTCTGAGACATCGGCATCGTATCTGA
1 GGGACACAGGCCTCGATTAAGATTTACGTATAAGACCATGTCTGAGACATCGGCATCGTATCTGA
*
459740 TTTCGTGTAAGACCGTGTCT
66 TTTCGTGTAAGACCCTGTCT
* * * * *
459760 GGGACACAGGCCTCGATTGAGATTTACTTATAAGACCATGTCTGGGATATTGGCATCGTATCTGA
1 GGGACACAGGCCTCGATTAAGATTTACGTATAAGACCATGTCTGAGACATCGGCATCGTATCTGA
459825 TTTCGTGTAAGACCCTGTCT
66 TTTCGTGTAAGACCCTGTCT
459845 GGGACA
1 GGGACA
459851 GAGGTATCGA
Statistics
Matches: 84, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
85 84 1.00
ACGTcount: A:0.25, C:0.20, G:0.26, T:0.30
Consensus pattern (85 bp):
GGGACACAGGCCTCGATTAAGATTTACGTATAAGACCATGTCTGAGACATCGGCATCGTATCTGA
TTTCGTGTAAGACCCTGTCT
Found at i:461634 original size:13 final size:13
Alignment explanation
Indices: 461618--461642 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
461608 CTTTTCTCCT
461618 TTTCTTTCTTTTC
1 TTTCTTTCTTTTC
461631 TTTCTTTCTTTT
1 TTTCTTTCTTTT
461643 TCTCCCCTGC
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.00, C:0.20, G:0.00, T:0.80
Consensus pattern (13 bp):
TTTCTTTCTTTTC
Found at i:470927 original size:29 final size:28
Alignment explanation
Indices: 470845--470928 Score: 123
Period size: 28 Copynumber: 3.0 Consensus size: 28
470835 AACACACCAG
* *
470845 TATAATCCTCCAAAACACACCAGTATCA
1 TATAATCCTCCAAAACACACCAGAATAA
* *
470873 TATAATCCTCCCAAACACATCAGAATAA
1 TATAATCCTCCAAAACACACCAGAATAA
470901 TATAATCCATCCAAAACACACCAGAATA
1 TATAATCC-TCCAAAACACACCAGAATA
470929 GCACAAAGTG
Statistics
Matches: 49, Mismatches: 6, Indels: 1
0.88 0.11 0.02
Matches are distributed among these distances:
28 32 0.65
29 17 0.35
ACGTcount: A:0.46, C:0.30, G:0.04, T:0.20
Consensus pattern (28 bp):
TATAATCCTCCAAAACACACCAGAATAA
Found at i:473479 original size:17 final size:16
Alignment explanation
Indices: 473447--473480 Score: 50
Period size: 17 Copynumber: 2.1 Consensus size: 16
473437 TTGGCTATTC
*
473447 TGTTTCTTTCTTCTTT
1 TGTTTCTTTATTCTTT
473463 TGTTTCTTTTATTCTTT
1 TGTTTC-TTTATTCTTT
473480 T
1 T
473481 ATTTTAACTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 6 0.38
17 10 0.62
ACGTcount: A:0.03, C:0.15, G:0.06, T:0.76
Consensus pattern (16 bp):
TGTTTCTTTATTCTTT
Found at i:473528 original size:14 final size:14
Alignment explanation
Indices: 473469--473519 Score: 50
Period size: 14 Copynumber: 3.6 Consensus size: 14
473459 CTTTTGTTTC
*
473469 TTTTA-TTCTTTTA
1 TTTTATTTCCTTTA
* *
473482 TTTTAACTTACTTTA
1 TTTT-ATTTCCTTTA
*
473497 CTTTATTTCCTTTA
1 TTTTATTTCCTTTA
473511 TTTTATTTC
1 TTTTATTTC
473520 TTTTGTTTTC
Statistics
Matches: 30, Mismatches: 6, Indels: 3
0.77 0.15 0.08
Matches are distributed among these distances:
13 4 0.13
14 17 0.57
15 9 0.30
ACGTcount: A:0.18, C:0.14, G:0.00, T:0.69
Consensus pattern (14 bp):
TTTTATTTCCTTTA
Found at i:473688 original size:14 final size:17
Alignment explanation
Indices: 473669--473705 Score: 53
Period size: 14 Copynumber: 2.4 Consensus size: 17
473659 ATTTATTTCT
473669 TAATATAA-T-ATTT-A
1 TAATATAATTAATTTAA
473683 TAATATAATTAATTTAA
1 TAATATAATTAATTTAA
473700 TAATAT
1 TAATAT
473706 CCTTTATAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
14 8 0.40
15 1 0.05
16 4 0.20
17 7 0.35
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (17 bp):
TAATATAATTAATTTAA
Found at i:474726 original size:23 final size:22
Alignment explanation
Indices: 474696--474739 Score: 61
Period size: 23 Copynumber: 2.0 Consensus size: 22
474686 AAAATAAAGT
* *
474696 AAATAAAAGAATAAAAAGAATG
1 AAATAAAAAAACAAAAAGAATG
474718 AAATAAAAAAAACAAAAAGAAT
1 AAAT-AAAAAAACAAAAAGAAT
474740 AAGAAACAGA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 4 0.21
23 15 0.79
ACGTcount: A:0.77, C:0.02, G:0.09, T:0.11
Consensus pattern (22 bp):
AAATAAAAAAACAAAAAGAATG
Found at i:475744 original size:23 final size:23
Alignment explanation
Indices: 475709--475773 Score: 121
Period size: 23 Copynumber: 2.8 Consensus size: 23
475699 GATTTATAAT
475709 ATTCTGGGTGTGTTTGGGTTGGAC
1 ATTCT-GGTGTGTTTGGGTTGGAC
475733 ATTCTGGTGTGTTTGGGTTGGAC
1 ATTCTGGTGTGTTTGGGTTGGAC
475756 ATTCTGGTGTGTTTGGGT
1 ATTCTGGTGTGTTTGGGT
475774 GGAATCCGCG
Statistics
Matches: 41, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
23 36 0.88
24 5 0.12
ACGTcount: A:0.08, C:0.08, G:0.40, T:0.45
Consensus pattern (23 bp):
ATTCTGGTGTGTTTGGGTTGGAC
Found at i:481687 original size:20 final size:20
Alignment explanation
Indices: 481658--481710 Score: 65
Period size: 20 Copynumber: 2.7 Consensus size: 20
481648 ATTATATATA
*
481658 TTAA-AATTATTATTATGAT
1 TTAATAATTATTATGATGAT
*
481677 TTAATAATTATTATGATTAT
1 TTAATAATTATTATGATGAT
481697 TTAATGAA-TATTAT
1 TTAAT-AATTATTAT
481711 ATTTTAAATA
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
19 4 0.13
20 24 0.80
21 2 0.07
ACGTcount: A:0.42, C:0.00, G:0.06, T:0.53
Consensus pattern (20 bp):
TTAATAATTATTATGATGAT
Found at i:482192 original size:23 final size:22
Alignment explanation
Indices: 482154--482209 Score: 60
Period size: 22 Copynumber: 2.5 Consensus size: 22
482144 TATGTTAATT
*
482154 AAAAAAATAAAGTAAATAAAAGAA
1 AAAAAAAGAAAGTAAA-AAAA-AA
*
482178 TAAAAAAGAAA-TAAAAAAAAA
1 AAAAAAAGAAAGTAAAAAAAAA
482199 AACAAAAAGAA
1 AA-AAAAAGAA
482210 TAAGAAACAG
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
21 3 0.11
22 12 0.43
23 4 0.14
24 9 0.32
ACGTcount: A:0.82, C:0.02, G:0.07, T:0.09
Consensus pattern (22 bp):
AAAAAAAGAAAGTAAAAAAAAA
Found at i:482727 original size:25 final size:24
Alignment explanation
Indices: 482681--482727 Score: 67
Period size: 25 Copynumber: 1.9 Consensus size: 24
482671 ATAAAAATTC
*
482681 AATTAATTATTAAATTAATATTGT
1 AATTAATAATTAAATTAATATTGT
*
482705 AATTAATAATGTAAATTATTATT
1 AATTAATAAT-TAAATTAATATT
482728 ATATTTTTCG
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
24 9 0.45
25 11 0.55
ACGTcount: A:0.47, C:0.00, G:0.04, T:0.49
Consensus pattern (24 bp):
AATTAATAATTAAATTAATATTGT
Found at i:483228 original size:23 final size:23
Alignment explanation
Indices: 483193--483257 Score: 121
Period size: 23 Copynumber: 2.8 Consensus size: 23
483183 GATTTATAAT
483193 ATTCTGGGTGTGTTTGGGTTGGAC
1 ATTCT-GGTGTGTTTGGGTTGGAC
483217 ATTCTGGTGTGTTTGGGTTGGAC
1 ATTCTGGTGTGTTTGGGTTGGAC
483240 ATTCTGGTGTGTTTGGGT
1 ATTCTGGTGTGTTTGGGT
483258 GGAATCCGCG
Statistics
Matches: 41, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
23 36 0.88
24 5 0.12
ACGTcount: A:0.08, C:0.08, G:0.40, T:0.45
Consensus pattern (23 bp):
ATTCTGGTGTGTTTGGGTTGGAC
Found at i:485588 original size:54 final size:53
Alignment explanation
Indices: 485424--485593 Score: 202
Period size: 53 Copynumber: 3.2 Consensus size: 53
485414 GGCCGTTACA
* * *
485424 GTCTTACACGGG-AGCACTTATCACTTTTCTCCGATGCCATAGCCCAGCTATG
1 GTCTTATACGGGAATCACTTATCACTTTTATCCGATGCCATAGCCCAGCTATG
* *
485476 GTCTTATAC--GAATCACTTGTATCACTTTAATCCGAAGCCATAGCCCAGCTATG
1 GTCTTATACGGGAATCAC-T-TATCACTTTTATCCGATGCCATAGCCCAGCTATG
* * * * *
485529 ATCTTATACGGGAATCACTTATCACTTATTTTCTGATGTCATAGCCCAACTATG
1 GTCTTATACGGGAATCACTTATCACTT-TTATCCGATGCCATAGCCCAGCTATG
485583 GTCTTATACGG
1 GTCTTATACGG
485594 ATATTGCTTA
Statistics
Matches: 99, Mismatches: 13, Indels: 10
0.81 0.11 0.08
Matches are distributed among these distances:
50 1 0.01
51 4 0.04
52 9 0.09
53 47 0.47
54 31 0.31
55 7 0.07
ACGTcount: A:0.25, C:0.26, G:0.16, T:0.32
Consensus pattern (53 bp):
GTCTTATACGGGAATCACTTATCACTTTTATCCGATGCCATAGCCCAGCTATG
Found at i:486855 original size:183 final size:183
Alignment explanation
Indices: 486529--486886 Score: 626
Period size: 183 Copynumber: 2.0 Consensus size: 183
486519 TGACAGATAC
* *
486529 GGGTTAGGGGTGTTACAATTATTATTGAGCTCATTCACATGAATCTGTCATTTGAAATTGTGATA
1 GGGTTAAGGGTATTACAATTATTATTGAGCTCATTCACATGAATCTGTCATTTGAAATTGTGATA
* * *
486594 GACAATAAGAAATAGTGAATGGCATGCTTATGCATGGTTATATGTATTTATCTAAAACACAAGAA
66 GACAAGAAGAAATAGAGAATGGCATGCTTATGCATGGTTATATATATTTATCTAAAACACAAGAA
486659 AATGATGGTTATATATTTGATAGATGGAGACACGAGACTATGATACGGGTTAG
131 AATGATGGTTATATATTTGATAGATGGAGACACGAGACTATGATACGGGTTAG
*
486712 GGGTTAAGGGTATTACAGTTATTATTGAGCTCATTCACATGAATCTGTCATTTGAAATTGTGATA
1 GGGTTAAGGGTATTACAATTATTATTGAGCTCATTCACATGAATCTGTCATTTGAAATTGTGATA
* *
486777 GACAAGAAGAAATAGAGAATGGCATGCTTATGTATGGTTATATATATTTATCTGAAACACAAGAA
66 GACAAGAAGAAATAGAGAATGGCATGCTTATGCATGGTTATATATATTTATCTAAAACACAAGAA
* *
486842 AATGATGGTTATATATTTGATATATGGAGACATGAGACTATGATA
131 AATGATGGTTATATATTTGATAGATGGAGACACGAGACTATGATA
486887 TATGAATATT
Statistics
Matches: 165, Mismatches: 10, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
183 165 1.00
ACGTcount: A:0.35, C:0.09, G:0.22, T:0.33
Consensus pattern (183 bp):
GGGTTAAGGGTATTACAATTATTATTGAGCTCATTCACATGAATCTGTCATTTGAAATTGTGATA
GACAAGAAGAAATAGAGAATGGCATGCTTATGCATGGTTATATATATTTATCTAAAACACAAGAA
AATGATGGTTATATATTTGATAGATGGAGACACGAGACTATGATACGGGTTAG
Found at i:489504 original size:23 final size:23
Alignment explanation
Indices: 489478--489523 Score: 92
Period size: 23 Copynumber: 2.0 Consensus size: 23
489468 ACTGAAACGT
489478 AAATTTATTAATAGTTTAGTCAC
1 AAATTTATTAATAGTTTAGTCAC
489501 AAATTTATTAATAGTTTAGTCAC
1 AAATTTATTAATAGTTTAGTCAC
489524 GTTTAGTTGA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.39, C:0.09, G:0.09, T:0.43
Consensus pattern (23 bp):
AAATTTATTAATAGTTTAGTCAC
Found at i:493723 original size:5 final size:5
Alignment explanation
Indices: 493705--493746 Score: 50
Period size: 5 Copynumber: 8.4 Consensus size: 5
493695 GAAAAAAAGG
* *
493705 GAAAA GATAA GAAAT GAAAA GAAAA GAAAA -AGAAA GAAAA GA
1 GAAAA GAAAA GAAAA GAAAA GAAAA GAAAA GA-AAA GAAAA GA
493747 GACGAGACGA
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
4 1 0.03
5 29 0.94
6 1 0.03
ACGTcount: A:0.74, C:0.00, G:0.21, T:0.05
Consensus pattern (5 bp):
GAAAA
Found at i:499085 original size:101 final size:101
Alignment explanation
Indices: 498980--499243 Score: 483
Period size: 101 Copynumber: 2.6 Consensus size: 101
498970 ACACTGATCA
* * * *
498980 CATTTATCACTTGTCACTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTATCACTTGT
1 CATTTGTCACTTATCACTGATCAGATAAGTGTAGCTGAGGCTACCACTTATCACTTATCACTTGT
499045 CACTGATCAGATAAGAGTAGCTAAGCTACCACTTAT
66 CACTGATCAGATAAGAGTAGCTAAGCTACCACTTAT
499081 CATTTGTCACTTATCACTGATCAGATAAGTGTAGCTGAGGCTACCACTTATCACTTATCACTTGT
1 CATTTGTCACTTATCACTGATCAGATAAGTGTAGCTGAGGCTACCACTTATCACTTATCACTTGT
499146 CACTGATCAGATAAGAGTAGCTAAGCTACCACTTAT
66 CACTGATCAGATAAGAGTAGCTAAGCTACCACTTAT
*
499182 CATTTGTCACTTATCACTGATCAGATAAGTGTAGCTGAGGCTACCACTTATCACTTGTCACT
1 CATTTGTCACTTATCACTGATCAGATAAGTGTAGCTGAGGCTACCACTTATCACTTATCACT
499244 GATCAGAAGT
Statistics
Matches: 158, Mismatches: 5, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
101 158 1.00
ACGTcount: A:0.30, C:0.23, G:0.15, T:0.32
Consensus pattern (101 bp):
CATTTGTCACTTATCACTGATCAGATAAGTGTAGCTGAGGCTACCACTTATCACTTATCACTTGT
CACTGATCAGATAAGAGTAGCTAAGCTACCACTTAT
Found at i:499092 original size:50 final size:51
Alignment explanation
Indices: 498983--499243 Score: 400
Period size: 51 Copynumber: 5.2 Consensus size: 51
498973 CTGATCACAT
*
498983 TTATCACTTGTCACTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCAC
1 TTATCACTTGTCACTGATCAGATAAGTGTAGCTGAAGCTACCACTTATCAC
* *
499034 TTATCACTTGTCACTGATCAGATAAGAGTAGCT-AAGCTACCACTTATCAT
1 TTATCACTTGTCACTGATCAGATAAGTGTAGCTGAAGCTACCACTTATCAC
* * *
499084 TTGTCACTTATCACTGATCAGATAAGTGTAGCTGAGGCTACCACTTATCAC
1 TTATCACTTGTCACTGATCAGATAAGTGTAGCTGAAGCTACCACTTATCAC
* *
499135 TTATCACTTGTCACTGATCAGATAAGAGTAGCT-AAGCTACCACTTATCAT
1 TTATCACTTGTCACTGATCAGATAAGTGTAGCTGAAGCTACCACTTATCAC
* * *
499185 TTGTCACTTATCACTGATCAGATAAGTGTAGCTGAGGCTACCACTTATCAC
1 TTATCACTTGTCACTGATCAGATAAGTGTAGCTGAAGCTACCACTTATCAC
*
499236 TTGTCACT
1 TTATCACT
499244 GATCAGAAGT
Statistics
Matches: 191, Mismatches: 17, Indels: 4
0.90 0.08 0.02
Matches are distributed among these distances:
50 91 0.48
51 100 0.52
ACGTcount: A:0.30, C:0.23, G:0.15, T:0.32
Consensus pattern (51 bp):
TTATCACTTGTCACTGATCAGATAAGTGTAGCTGAAGCTACCACTTATCAC
Found at i:505869 original size:101 final size:101
Alignment explanation
Indices: 505764--506027 Score: 474
Period size: 101 Copynumber: 2.6 Consensus size: 101
505754 ACACTGATCA
* * * *
505764 CATTTATCACTTGTCACTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTATCACTTGT
1 CATTTGTCACTTATCACTGATCAGATAAGTGTAGCTGAGGCTACCACTTATCACTTATCACTTGT
505829 CACTGATCAGATAAGAGTAGCTAAGCTACCACTTAT
66 CACTGATCAGATAAGAGTAGCTAAGCTACCACTTAT
*
505865 CATTTGTCACTTATCACTGATTAGATAAGTGTAGCTGAGGCTACCACTTATCACTTATCACTTGT
1 CATTTGTCACTTATCACTGATCAGATAAGTGTAGCTGAGGCTACCACTTATCACTTATCACTTGT
505930 CACTGATCAGATAAGAGTAGCTAAGCTACCACTTAT
66 CACTGATCAGATAAGAGTAGCTAAGCTACCACTTAT
*
505966 CATTTGTCACTTATCACTGATCAGATAAGTGTAGCTGAGGCTACCACTTATCACTTGTCACT
1 CATTTGTCACTTATCACTGATCAGATAAGTGTAGCTGAGGCTACCACTTATCACTTATCACT
506028 GATCAGAAGT
Statistics
Matches: 156, Mismatches: 7, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
101 156 1.00
ACGTcount: A:0.30, C:0.23, G:0.15, T:0.33
Consensus pattern (101 bp):
CATTTGTCACTTATCACTGATCAGATAAGTGTAGCTGAGGCTACCACTTATCACTTATCACTTGT
CACTGATCAGATAAGAGTAGCTAAGCTACCACTTAT
Found at i:505876 original size:50 final size:51
Alignment explanation
Indices: 505767--506027 Score: 391
Period size: 51 Copynumber: 5.2 Consensus size: 51
505757 CTGATCACAT
*
505767 TTATCACTTGTCACTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCAC
1 TTATCACTTGTCACTGATCAGATAAGTGTAGCTGAAGCTACCACTTATCAC
* *
505818 TTATCACTTGTCACTGATCAGATAAGAGTAGCT-AAGCTACCACTTATCAT
1 TTATCACTTGTCACTGATCAGATAAGTGTAGCTGAAGCTACCACTTATCAC
* * * *
505868 TTGTCACTTATCACTGATTAGATAAGTGTAGCTGAGGCTACCACTTATCAC
1 TTATCACTTGTCACTGATCAGATAAGTGTAGCTGAAGCTACCACTTATCAC
* *
505919 TTATCACTTGTCACTGATCAGATAAGAGTAGCT-AAGCTACCACTTATCAT
1 TTATCACTTGTCACTGATCAGATAAGTGTAGCTGAAGCTACCACTTATCAC
* * *
505969 TTGTCACTTATCACTGATCAGATAAGTGTAGCTGAGGCTACCACTTATCAC
1 TTATCACTTGTCACTGATCAGATAAGTGTAGCTGAAGCTACCACTTATCAC
*
506020 TTGTCACT
1 TTATCACT
506028 GATCAGAAGT
Statistics
Matches: 189, Mismatches: 19, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
50 90 0.48
51 99 0.52
ACGTcount: A:0.30, C:0.23, G:0.15, T:0.33
Consensus pattern (51 bp):
TTATCACTTGTCACTGATCAGATAAGTGTAGCTGAAGCTACCACTTATCAC
Found at i:511642 original size:26 final size:21
Alignment explanation
Indices: 511591--511648 Score: 107
Period size: 21 Copynumber: 2.8 Consensus size: 21
511581 TCCACTATTA
511591 TATCTAATCTCACCGCTACAG
1 TATCTAATCTCACCGCTACAG
511612 TATCTAATCTCACCGCTACAG
1 TATCTAATCTCACCGCTACAG
*
511633 TAACTAATCTCACCGC
1 TATCTAATCTCACCGC
511649 CACCGCTGTT
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 36 1.00
ACGTcount: A:0.29, C:0.34, G:0.09, T:0.28
Consensus pattern (21 bp):
TATCTAATCTCACCGCTACAG
Found at i:517296 original size:26 final size:27
Alignment explanation
Indices: 517249--517301 Score: 65
Period size: 27 Copynumber: 2.0 Consensus size: 27
517239 TTGTGTTTAG
517249 TTTATTAAAAAAAAAATCAA-TTAACT
1 TTTATTAAAAAAAAAATCAATTTAACT
* *
517275 TTTATATAAAAGAAAAGT-AATTTAACT
1 TTTAT-TAAAAAAAAAATCAATTTAACT
517302 AAAATTGAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
26 7 0.30
27 16 0.70
ACGTcount: A:0.55, C:0.06, G:0.04, T:0.36
Consensus pattern (27 bp):
TTTATTAAAAAAAAAATCAATTTAACT
Found at i:527700 original size:13 final size:13
Alignment explanation
Indices: 527684--527709 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
527674 AAATTTATAC
527684 TCAACTTTTATGG
1 TCAACTTTTATGG
527697 TCAACTTTTATGG
1 TCAACTTTTATGG
527710 GAAAATGGCT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.23, C:0.15, G:0.15, T:0.46
Consensus pattern (13 bp):
TCAACTTTTATGG
Found at i:533397 original size:9 final size:9
Alignment explanation
Indices: 533383--533412 Score: 60
Period size: 9 Copynumber: 3.3 Consensus size: 9
533373 TTCAGGATTA
533383 TTTTGTTTG
1 TTTTGTTTG
533392 TTTTGTTTG
1 TTTTGTTTG
533401 TTTTGTTTG
1 TTTTGTTTG
533410 TTT
1 TTT
533413 ATGGTATTAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 21 1.00
ACGTcount: A:0.00, C:0.00, G:0.20, T:0.80
Consensus pattern (9 bp):
TTTTGTTTG
Found at i:537841 original size:18 final size:18
Alignment explanation
Indices: 537807--537845 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
537797 AGAATATAAT
*
537807 AAAAATATTTAAGAATTA
1 AAAAAGATTTAAGAATTA
537825 AAAAAGATTATAA-AATTA
1 AAAAAGATT-TAAGAATTA
537843 AAA
1 AAA
537846 TATTCTATCG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 16 0.84
19 3 0.16
ACGTcount: A:0.67, C:0.00, G:0.05, T:0.28
Consensus pattern (18 bp):
AAAAAGATTTAAGAATTA
Found at i:545824 original size:54 final size:54
Alignment explanation
Indices: 545742--545897 Score: 183
Period size: 54 Copynumber: 2.8 Consensus size: 54
545732 ATAGATAGAC
* * * *
545742 AGAGCGTTAAGACTATGAACTATCATCAGTTTTGCTCTACAGCTGAA-CCAAAGT
1 AGAGC-TTAAGACTACGAACTAACATCAGTTTTGCTCTAAAGCTGAAGCAAAAGT
545796 AGAGCATTAAGACTACGAACTAACATCAGTTTTGCTCTAAAGCTGAAGCAAAAGT
1 AGAGC-TTAAGACTACGAACTAACATCAGTTTTGCTCTAAAGCTGAAGCAAAAGT
* *
545851 AGAGC--AAGACTACAATGAACTAACATCAGTTTAGCTCCAAAGACTGA
1 AGAGCTTAAGACTAC---GAACTAACATCAGTTTTGCTCTAAAG-CTGA
545898 CAGATTACTT
Statistics
Matches: 90, Mismatches: 7, Indels: 8
0.86 0.07 0.08
Matches are distributed among these distances:
52 8 0.09
54 43 0.48
55 35 0.39
56 4 0.04
ACGTcount: A:0.38, C:0.20, G:0.18, T:0.24
Consensus pattern (54 bp):
AGAGCTTAAGACTACGAACTAACATCAGTTTTGCTCTAAAGCTGAAGCAAAAGT
Found at i:550110 original size:15 final size:15
Alignment explanation
Indices: 550092--550124 Score: 50
Period size: 15 Copynumber: 2.2 Consensus size: 15
550082 TTAGAATTTT
550092 AATTAA-TTGATTGAG
1 AATTAACTTGATTG-G
550107 AATTAACTTGATTGG
1 AATTAACTTGATTGG
550122 AAT
1 AAT
550125 GAATATTTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 10 0.59
16 7 0.41
ACGTcount: A:0.39, C:0.03, G:0.18, T:0.39
Consensus pattern (15 bp):
AATTAACTTGATTGG
Found at i:550899 original size:18 final size:18
Alignment explanation
Indices: 550876--550915 Score: 73
Period size: 18 Copynumber: 2.3 Consensus size: 18
550866 ATCTATTTAC
550876 CATTTTAATCATTTAACT
1 CATTTTAATCATTTAACT
550894 CATTTTAATCATTTAACT
1 CATTTTAATCATTTAACT
550912 -ATTT
1 CATTT
550916 AAAAAATTAT
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
17 4 0.18
18 18 0.82
ACGTcount: A:0.33, C:0.15, G:0.00, T:0.53
Consensus pattern (18 bp):
CATTTTAATCATTTAACT
Found at i:551977 original size:19 final size:19
Alignment explanation
Indices: 551932--551977 Score: 51
Period size: 20 Copynumber: 2.4 Consensus size: 19
551922 ATTTTCATAA
551932 TTTTA-AAAAATTCTATAT
1 TTTTATAAAAATTCTATAT
*
551950 TTTTAATAAAATTTCTAT-T
1 TTTT-ATAAAAATTCTATAT
551969 TCTTTATAA
1 T-TTTATAA
551978 TTTTTTTAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 5
0.80 0.03 0.17
Matches are distributed among these distances:
18 4 0.17
19 7 0.29
20 13 0.54
ACGTcount: A:0.39, C:0.07, G:0.00, T:0.54
Consensus pattern (19 bp):
TTTTATAAAAATTCTATAT
Found at i:552403 original size:29 final size:29
Alignment explanation
Indices: 552366--552435 Score: 83
Period size: 29 Copynumber: 2.4 Consensus size: 29
552356 ATCAAATTAA
*
552366 TAAAA-TTAAAAGTATTAAT-AATT-AGATC
1 TAAAATTTAAAA-TA-TAATAAATTAAAATC
*
552394 TAAAATTTAAAATATAATAAATTAAAATT
1 TAAAATTTAAAATATAATAAATTAAAATC
552423 TAAAATTTAAAAT
1 TAAAATTTAAAAT
552436 TTAAAATTTT
Statistics
Matches: 37, Mismatches: 2, Indels: 5
0.84 0.05 0.11
Matches are distributed among these distances:
27 4 0.11
28 11 0.30
29 22 0.59
ACGTcount: A:0.59, C:0.01, G:0.03, T:0.37
Consensus pattern (29 bp):
TAAAATTTAAAATATAATAAATTAAAATC
Found at i:552404 original size:7 final size:7
Alignment explanation
Indices: 552394--552444 Score: 75
Period size: 7 Copynumber: 7.1 Consensus size: 7
552384 TAATTAGATC
552394 TAAAATT
1 TAAAATT
*
552401 TAAAATA
1 TAAAATT
*
552408 TAATAAAT
1 TAA-AATT
552416 TAAAATT
1 TAAAATT
552423 TAAAATT
1 TAAAATT
552430 TAAAATT
1 TAAAATT
552437 TAAAATT
1 TAAAATT
552444 T
1 T
552445 TAAAGAGTAA
Statistics
Matches: 39, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
7 34 0.87
8 5 0.13
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (7 bp):
TAAAATT
Found at i:552407 original size:22 final size:22
Alignment explanation
Indices: 552394--552444 Score: 77
Period size: 22 Copynumber: 2.4 Consensus size: 22
552384 TAATTAGATC
552394 TAAAATTTAAAATATAATAAAT
1 TAAAATTTAAAATATAATAAAT
* *
552416 TAAAATTTAAAATTTAA-AATT
1 TAAAATTTAAAATATAATAAAT
552437 TAAAATTT
1 TAAAATTT
552445 TAAAGAGTAA
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
21 11 0.41
22 16 0.59
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (22 bp):
TAAAATTTAAAATATAATAAAT
Found at i:552420 original size:15 final size:14
Alignment explanation
Indices: 552367--552441 Score: 53
Period size: 14 Copynumber: 5.2 Consensus size: 14
552357 TCAAATTAAT
552367 AAAATTAAAAGTATTA
1 AAAATTAAAA-TA-TA
* * *
552383 ATAATT-AGATCTA
1 AAAATTAAAATATA
*
552396 AAATTTAAAATATA
1 AAAATTAAAATATA
*
552410 ATAAATTAAAATTTA
1 A-AAATTAAAATATA
* *
552425 AAATTTAAAATTTA
1 AAAATTAAAATATA
552439 AAA
1 AAA
552442 TTTTAAAGAG
Statistics
Matches: 47, Mismatches: 10, Indels: 6
0.75 0.16 0.10
Matches are distributed among these distances:
13 6 0.13
14 22 0.47
15 14 0.30
16 5 0.11
ACGTcount: A:0.60, C:0.01, G:0.03, T:0.36
Consensus pattern (14 bp):
AAAATTAAAATATA
Found at i:558019 original size:5 final size:5
Alignment explanation
Indices: 558009--558040 Score: 64
Period size: 5 Copynumber: 6.4 Consensus size: 5
557999 TTATTAAATG
558009 ATTTA ATTTA ATTTA ATTTA ATTTA ATTTA AT
1 ATTTA ATTTA ATTTA ATTTA ATTTA ATTTA AT
558041 ATTTATGATT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 27 1.00
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (5 bp):
ATTTA
Found at i:568685 original size:17 final size:17
Alignment explanation
Indices: 568651--568684 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
568641 AGCGCAACCC
568651 ATTTTTTTAATATTAAA
1 ATTTTTTTAATATTAAA
*
568668 ATTTTTTTCAT-TTAAA
1 ATTTTTTTAATATTAAA
568684 A
1 A
568685 AAATATTTTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 6 0.38
17 10 0.62
ACGTcount: A:0.38, C:0.03, G:0.00, T:0.59
Consensus pattern (17 bp):
ATTTTTTTAATATTAAA
Done.