Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01009001.1 Hibiscus syriacus cultivar Beakdansim tig00112383_pilon, whole genome shotgun sequence
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: 4740655
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 2 of 24
Found at i:281615 original size:51 final size:51
Alignment explanation
Indices: 281539--281639 Score: 193
Period size: 51 Copynumber: 2.0 Consensus size: 51
281529 GTAAGGAAGG
*
281539 ATAGGCTGTAAAGAAATATCGGTTTGAACAGGTTGAAATTCCTTGTAACTA
1 ATAGGCTGTAAAGAAATATCGGTTTGAACAGGCTGAAATTCCTTGTAACTA
281590 ATAGGCTGTAAAGAAATATCGGTTTGAACAGGCTGAAATTCCTTGTAACT
1 ATAGGCTGTAAAGAAATATCGGTTTGAACAGGCTGAAATTCCTTGTAACT
281640 CTCCCCCTGA
Statistics
Matches: 49, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
51 49 1.00
ACGTcount: A:0.35, C:0.13, G:0.22, T:0.31
Consensus pattern (51 bp):
ATAGGCTGTAAAGAAATATCGGTTTGAACAGGCTGAAATTCCTTGTAACTA
Found at i:283422 original size:14 final size:14
Alignment explanation
Indices: 283397--283470 Score: 103
Period size: 14 Copynumber: 5.0 Consensus size: 14
283387 CCTGATACCA
*
283397 TGTAGAAAAACAGAT
1 TGTAG-AAAACAGAC
283412 TGTAGAAAACAGAC
1 TGTAGAAAACAGAC
283426 TGTAGAAAAACAGAC
1 TGTAG-AAAACAGAC
283441 TGTGTAGAAAACAGAC
1 --TGTAGAAAACAGAC
283457 TGTAGAAAACAGAC
1 TGTAGAAAACAGAC
283471 AAGTCTGTTA
Statistics
Matches: 55, Mismatches: 1, Indels: 7
0.87 0.02 0.11
Matches are distributed among these distances:
14 27 0.49
15 14 0.25
16 9 0.16
17 5 0.09
ACGTcount: A:0.50, C:0.12, G:0.22, T:0.16
Consensus pattern (14 bp):
TGTAGAAAACAGAC
Found at i:283450 original size:31 final size:30
Alignment explanation
Indices: 283397--283470 Score: 125
Period size: 31 Copynumber: 2.5 Consensus size: 30
283387 CCTGATACCA
283397 TGTAGAAAAACAGA-TTGTAGAAAACAGAC
1 TGTAGAAAAACAGACTTGTAGAAAACAGAC
283426 TGTAGAAAAACAGACTGTGTAGAAAACAGAC
1 TGTAGAAAAACAGACT-TGTAGAAAACAGAC
283457 TGTAG-AAAACAGAC
1 TGTAGAAAAACAGAC
283471 AAGTCTGTTA
Statistics
Matches: 43, Mismatches: 0, Indels: 3
0.93 0.00 0.07
Matches are distributed among these distances:
29 14 0.33
30 10 0.23
31 19 0.44
ACGTcount: A:0.50, C:0.12, G:0.22, T:0.16
Consensus pattern (30 bp):
TGTAGAAAAACAGACTTGTAGAAAACAGAC
Found at i:290838 original size:58 final size:56
Alignment explanation
Indices: 290746--290855 Score: 175
Period size: 58 Copynumber: 1.9 Consensus size: 56
290736 TAAATAGTTC
* *
290746 ACCCTTAAGTGGGGTTTCGTGGGAATCATATTTGGATCCAAAATTTATGTTATTTT
1 ACCCTTAAGTGGGGGTTCATGGGAATCATATTTGGATCCAAAATTTATGTTATTTT
*
290802 ACCCTTAAGTGTGGGGTTCATGGTAATCATATTTTGGATCCAAAATTTATGTTA
1 ACCCTTAAGTG-GGGGTTCATGGGAATCATA-TTTGGATCCAAAATTTATGTTA
290856 AAAGCTATAA
Statistics
Matches: 49, Mismatches: 3, Indels: 2
0.91 0.06 0.04
Matches are distributed among these distances:
56 11 0.22
57 16 0.33
58 22 0.45
ACGTcount: A:0.26, C:0.13, G:0.21, T:0.40
Consensus pattern (56 bp):
ACCCTTAAGTGGGGGTTCATGGGAATCATATTTGGATCCAAAATTTATGTTATTTT
Found at i:291203 original size:15 final size:17
Alignment explanation
Indices: 291165--291226 Score: 79
Period size: 17 Copynumber: 3.6 Consensus size: 17
291155 AAATGTATAT
*
291165 AATATATGATTTTTGAA
1 AATATATAATTTTTGAA
*
291182 AATATATAATTTTTAAA
1 AATATATAATTTTTGAA
*
291199 AATATATATAGTTTTGAA
1 AATATATA-ATTTTTGAA
*
291217 AACATATAAT
1 AATATATAAT
291227 ATATATGGTT
Statistics
Matches: 38, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
17 24 0.63
18 14 0.37
ACGTcount: A:0.48, C:0.02, G:0.06, T:0.44
Consensus pattern (17 bp):
AATATATAATTTTTGAA
Found at i:291205 original size:19 final size:19
Alignment explanation
Indices: 291166--291229 Score: 60
Period size: 19 Copynumber: 3.4 Consensus size: 19
291156 AATGTATATA
* *
291166 ATATATGATTTTT-GAAA-
1 ATATATAATTTTTAAAAAT
291183 ATATATAATTTTTAAAAAT
1 ATATATAATTTTTAAAAAT
* *
291202 ATATATAGTTTTGAAAACAT
1 ATATATAATTTTTAAAA-AT
291222 ATAATATA
1 AT-ATATA
291230 TATGGTTTTT
Statistics
Matches: 39, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
17 12 0.31
18 3 0.08
19 15 0.38
20 4 0.10
21 5 0.13
ACGTcount: A:0.48, C:0.02, G:0.06, T:0.44
Consensus pattern (19 bp):
ATATATAATTTTTAAAAAT
Found at i:291257 original size:38 final size:40
Alignment explanation
Indices: 291206--291284 Score: 101
Period size: 40 Copynumber: 2.0 Consensus size: 40
291196 AAAAATATAT
* **
291206 ATAGTTTTGAAAACATATA-AT-ATATATGGTTTTTGAAA
1 ATAGTTTTGAAAACACATATATAATATATAATTTTTGAAA
291244 ATAGTATTT-AAAACACATATATAATATATAATTTTTGAAA
1 ATAGT-TTTGAAAACACATATATAATATATAATTTTTGAAA
291284 A
1 A
291285 CATATTATAG
Statistics
Matches: 35, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
38 14 0.40
39 5 0.14
40 16 0.46
ACGTcount: A:0.47, C:0.04, G:0.09, T:0.41
Consensus pattern (40 bp):
ATAGTTTTGAAAACACATATATAATATATAATTTTTGAAA
Found at i:291344 original size:27 final size:28
Alignment explanation
Indices: 291285--291346 Score: 76
Period size: 25 Copynumber: 2.3 Consensus size: 28
291275 TTTTTGAAAA
* *
291285 CATATTATAGTTTTTGAAAATAAATATGT
1 CATA-TATAGATTTTGAAAATAAATATAT
291314 --TATATAGATTTT-AAAATAAATATAT
1 CATATATAGATTTTGAAAATAAATATAT
291339 CATATATA
1 CATATATA
291347 TATATATATT
Statistics
Matches: 29, Mismatches: 2, Indels: 6
0.78 0.05 0.16
Matches are distributed among these distances:
25 12 0.41
26 9 0.31
27 8 0.28
ACGTcount: A:0.47, C:0.03, G:0.06, T:0.44
Consensus pattern (28 bp):
CATATATAGATTTTGAAAATAAATATAT
Found at i:291367 original size:9 final size:9
Alignment explanation
Indices: 291345--291437 Score: 59
Period size: 9 Copynumber: 10.0 Consensus size: 9
291335 ATATCATATA
291345 TATATATATAT
1 TATAT-TAT-T
291356 TATATTATT
1 TATATTATT
*
291365 TATAATATGT
1 TATATTAT-T
291375 T-TATTATT
1 TATATTATT
291383 TATATTATAT
1 TATATTAT-T
*
291393 TAT-TTCATA
1 TATATT-ATT
* *
291402 TATGTTATA
1 TATATTATT
291411 TATATCTA-T
1 TATAT-TATT
291420 TATATCTATT
1 TATAT-TATT
291430 TAT-TTATT
1 TATATTATT
291438 ATTTTCAAGT
Statistics
Matches: 70, Mismatches: 5, Indels: 17
0.76 0.05 0.18
Matches are distributed among these distances:
8 6 0.09
9 40 0.57
10 19 0.27
11 5 0.07
ACGTcount: A:0.34, C:0.03, G:0.02, T:0.60
Consensus pattern (9 bp):
TATATTATT
Found at i:291392 original size:32 final size:31
Alignment explanation
Indices: 291343--291432 Score: 119
Period size: 32 Copynumber: 2.8 Consensus size: 31
291333 ATATATCATA
291343 TATATATATATATTATATTATTTATAATATGT
1 TATATATATATATTATATTATTTAT-ATATGT
*
291375 T-TATTATTTATATTATATTATTTCATATATGT
1 TATA-TATATATATTATATTATTT-ATATATGT
*
291407 TATATATATCTATTATATCTATTTAT
1 TATATATATATATTATAT-TATTTAT
291433 TTATTATTTT
Statistics
Matches: 51, Mismatches: 3, Indels: 8
0.82 0.05 0.13
Matches are distributed among these distances:
31 2 0.04
32 40 0.78
33 9 0.18
ACGTcount: A:0.36, C:0.03, G:0.02, T:0.59
Consensus pattern (31 bp):
TATATATATATATTATATTATTTATATATGT
Found at i:291948 original size:41 final size:41
Alignment explanation
Indices: 291903--291994 Score: 175
Period size: 41 Copynumber: 2.2 Consensus size: 41
291893 AATCCACCAA
*
291903 GCAATATACAGTAGAAAACAATCGAAATAGGCAGAAACACG
1 GCAATATACAGTAGAAAACAATCGAAATAGGCAGAAACAAG
291944 GCAATATACAGTAGAAAACAATCGAAATAGGCAGAAACAAG
1 GCAATATACAGTAGAAAACAATCGAAATAGGCAGAAACAAG
291985 GCAATATACA
1 GCAATATACA
291995 AACAAAAATC
Statistics
Matches: 50, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 50 1.00
ACGTcount: A:0.52, C:0.16, G:0.18, T:0.13
Consensus pattern (41 bp):
GCAATATACAGTAGAAAACAATCGAAATAGGCAGAAACAAG
Found at i:291983 original size:19 final size:19
Alignment explanation
Indices: 291918--291983 Score: 55
Period size: 19 Copynumber: 3.3 Consensus size: 19
291908 ATACAGTAGA
291918 AAACAATCGAAATAGGCAG
1 AAACAATCGAAATAGGCAG
* *
291937 AAAC-A-CGGCAATATACAGTAG
1 AAACAATC-G-AA-ATA-GGCAG
291958 AAAACAATCGAAATAGGCAG
1 -AAACAATCGAAATAGGCAG
291978 AAACAA
1 AAACAA
291984 GGCAATATAC
Statistics
Matches: 36, Mismatches: 4, Indels: 14
0.67 0.07 0.26
Matches are distributed among these distances:
17 1 0.03
18 2 0.06
19 12 0.33
20 6 0.17
21 6 0.17
22 6 0.17
23 2 0.06
24 1 0.03
ACGTcount: A:0.55, C:0.17, G:0.18, T:0.11
Consensus pattern (19 bp):
AAACAATCGAAATAGGCAG
Found at i:293517 original size:27 final size:27
Alignment explanation
Indices: 293487--293552 Score: 132
Period size: 27 Copynumber: 2.4 Consensus size: 27
293477 CTTTAGATAG
293487 AATAAGATAAGACTTATTTAAACTTTA
1 AATAAGATAAGACTTATTTAAACTTTA
293514 AATAAGATAAGACTTATTTAAACTTTA
1 AATAAGATAAGACTTATTTAAACTTTA
293541 AATAAGATAAGA
1 AATAAGATAAGA
293553 ATAAGAGTAT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 39 1.00
ACGTcount: A:0.52, C:0.06, G:0.09, T:0.33
Consensus pattern (27 bp):
AATAAGATAAGACTTATTTAAACTTTA
Found at i:299514 original size:19 final size:19
Alignment explanation
Indices: 299490--299538 Score: 80
Period size: 19 Copynumber: 2.6 Consensus size: 19
299480 AGAGGTAAGG
299490 CTATCTAAAATAAAGCCAT
1 CTATCTAAAATAAAGCCAT
*
299509 CTATCTCAAATAAAGCCAT
1 CTATCTAAAATAAAGCCAT
*
299528 CTATCTGAAAT
1 CTATCTAAAAT
299539 CCCCATTTTA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
19 28 1.00
ACGTcount: A:0.43, C:0.22, G:0.06, T:0.29
Consensus pattern (19 bp):
CTATCTAAAATAAAGCCAT
Found at i:300235 original size:18 final size:18
Alignment explanation
Indices: 300198--300235 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
300188 TTTTAAGATT
*
300198 TTATATTCGATTTAAATA
1 TTATATTCGATTCAAATA
*
300216 TTATATTCGATTCAATTA
1 TTATATTCGATTCAAATA
300234 TT
1 TT
300236 CGAATATCAC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.34, C:0.08, G:0.05, T:0.53
Consensus pattern (18 bp):
TTATATTCGATTCAAATA
Found at i:308214 original size:16 final size:15
Alignment explanation
Indices: 308184--308229 Score: 56
Period size: 15 Copynumber: 3.0 Consensus size: 15
308174 GGGGAGTGGG
308184 AGTAATTTTTCAAAA
1 AGTAATTTTTCAAAA
308199 AGTAATTTTTCGAAAA
1 AGTAATTTTTC-AAAA
* * *
308215 AATGATTTTTTAAAA
1 AGTAATTTTTCAAAA
308230 GAAAATCTTA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
15 15 0.56
16 12 0.44
ACGTcount: A:0.46, C:0.04, G:0.09, T:0.41
Consensus pattern (15 bp):
AGTAATTTTTCAAAA
Found at i:308362 original size:18 final size:18
Alignment explanation
Indices: 308339--308376 Score: 67
Period size: 18 Copynumber: 2.1 Consensus size: 18
308329 TTTTAAGATT
308339 TTATATTCAATTTAAATA
1 TTATATTCAATTTAAATA
*
308357 TTATATTCAATTTAATTA
1 TTATATTCAATTTAAATA
308375 TT
1 TT
308377 TGAATATCAC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.39, C:0.05, G:0.00, T:0.55
Consensus pattern (18 bp):
TTATATTCAATTTAAATA
Found at i:316138 original size:31 final size:31
Alignment explanation
Indices: 316100--316224 Score: 198
Period size: 31 Copynumber: 4.0 Consensus size: 31
316090 CCCGAAGGAC
* * *
316100 CAGTCCATA-GATTCCGAAGAACCTAGGTAAT
1 CAGTCCATATG-TCCCGAAGAACATAGGTAAA
*
316131 CAGTCCATATGTCCCGAAGGACATAGGTAAA
1 CAGTCCATATGTCCCGAAGAACATAGGTAAA
316162 CAGTCCATATGTCCCGAAGAACATAGGTAAA
1 CAGTCCATATGTCCCGAAGAACATAGGTAAA
316193 CAGTCCATATGTCCCGAAGAACATAGGTAAA
1 CAGTCCATATGTCCCGAAGAACATAGGTAAA
316224 C
1 C
316225 CCTCGACCCT
Statistics
Matches: 88, Mismatches: 5, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
31 87 0.99
32 1 0.01
ACGTcount: A:0.37, C:0.23, G:0.20, T:0.20
Consensus pattern (31 bp):
CAGTCCATATGTCCCGAAGAACATAGGTAAA
Found at i:317178 original size:21 final size:21
Alignment explanation
Indices: 317154--317198 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
317144 TATTGTTCGT
* *
317154 TTGAAGGGGTATCGGTTCCCC
1 TTGAAGGGGTACCGATTCCCC
*
317175 TTGAATGGGTACCGATTCCCC
1 TTGAAGGGGTACCGATTCCCC
317196 TTG
1 TTG
317199 CCCAGAAATC
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.16, C:0.24, G:0.29, T:0.31
Consensus pattern (21 bp):
TTGAAGGGGTACCGATTCCCC
Found at i:320386 original size:31 final size:31
Alignment explanation
Indices: 320348--320472 Score: 198
Period size: 31 Copynumber: 4.0 Consensus size: 31
320338 CCAAAAGGAC
* * *
320348 CAGTCCATA-GATTCCGAAGAACCTAGGTAAT
1 CAGTCCATATG-TCCCGAAGAACATAGGTAAA
*
320379 CAGTCCATATGTCCCGAAGGACATAGGTAAA
1 CAGTCCATATGTCCCGAAGAACATAGGTAAA
320410 CAGTCCATATGTCCCGAAGAACATAGGTAAA
1 CAGTCCATATGTCCCGAAGAACATAGGTAAA
320441 CAGTCCATATGTCCCGAAGAACATAGGTAAA
1 CAGTCCATATGTCCCGAAGAACATAGGTAAA
320472 C
1 C
320473 CCTCGACCCT
Statistics
Matches: 88, Mismatches: 5, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
31 87 0.99
32 1 0.01
ACGTcount: A:0.37, C:0.23, G:0.20, T:0.20
Consensus pattern (31 bp):
CAGTCCATATGTCCCGAAGAACATAGGTAAA
Found at i:321422 original size:21 final size:21
Alignment explanation
Indices: 321398--321442 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
321388 TGTTGTTCGT
* *
321398 TTGAAGGGGTATCGGTTCCCC
1 TTGAAGGGGTACCGATTCCCC
*
321419 TTGAATGGGTACCGATTCCCC
1 TTGAAGGGGTACCGATTCCCC
321440 TTG
1 TTG
321443 CCCAGAAATC
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.16, C:0.24, G:0.29, T:0.31
Consensus pattern (21 bp):
TTGAAGGGGTACCGATTCCCC
Found at i:325425 original size:2 final size:2
Alignment explanation
Indices: 325418--325457 Score: 71
Period size: 2 Copynumber: 20.0 Consensus size: 2
325408 CACACTTAGT
*
325418 TA TA TA TA TA TA TA TA TA TA TA TA GA 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
325458 AAGCACACTT
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.03, T:0.47
Consensus pattern (2 bp):
TA
Found at i:333035 original size:13 final size:13
Alignment explanation
Indices: 333017--333044 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
333007 GTACTATAAC
333017 CTTCTCCATCAAG
1 CTTCTCCATCAAG
333030 CTTCTCCATCAAG
1 CTTCTCCATCAAG
333043 CT
1 CT
333045 GTCCAACAGA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.21, C:0.39, G:0.07, T:0.32
Consensus pattern (13 bp):
CTTCTCCATCAAG
Found at i:340100 original size:2 final size:2
Alignment explanation
Indices: 340095--340158 Score: 74
Period size: 2 Copynumber: 32.0 Consensus size: 2
340085 GTATATAGAA
* * * * *
340095 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT GT GT GT GT GT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
*
340137 AT GT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT
340159 TCTTATATGC
Statistics
Matches: 58, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 58 1.00
ACGTcount: A:0.41, C:0.00, G:0.09, T:0.50
Consensus pattern (2 bp):
AT
Found at i:340616 original size:22 final size:22
Alignment explanation
Indices: 340588--340650 Score: 101
Period size: 22 Copynumber: 2.9 Consensus size: 22
340578 GAGGGTCTAC
*
340588 GTGGTCCTTCGGGACATATACA
1 GTGGTCCTTCGGGACAAATACA
340610 GTGGTCCTTCGGGACAAATACA
1 GTGGTCCTTCGGGACAAATACA
340632 -TAGGTCCTTCGGGACAAAT
1 GT-GGTCCTTCGGGACAAAT
340651 TTCATATGCC
Statistics
Matches: 39, Mismatches: 1, Indels: 2
0.93 0.02 0.05
Matches are distributed among these distances:
21 1 0.03
22 38 0.97
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.25
Consensus pattern (22 bp):
GTGGTCCTTCGGGACAAATACA
Found at i:341404 original size:21 final size:21
Alignment explanation
Indices: 341378--341420 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
341368 CTGTAGCAGT
341378 ACTGTAACAGTGCATAGATGC
1 ACTGTAACAGTGCATAGATGC
* *
341399 ACTGTAGCAGTGCATCGATGC
1 ACTGTAACAGTGCATAGATGC
341420 A
1 A
341421 TAAATTAGAT
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:0.30, C:0.21, G:0.26, T:0.23
Consensus pattern (21 bp):
ACTGTAACAGTGCATAGATGC
Found at i:345815 original size:19 final size:19
Alignment explanation
Indices: 345788--345835 Score: 87
Period size: 19 Copynumber: 2.5 Consensus size: 19
345778 TTATGTGTAC
*
345788 CGATGCACCCATAGTGCAT
1 CGATACACCCATAGTGCAT
345807 CGATACACCCATAGTGCAT
1 CGATACACCCATAGTGCAT
345826 CGATACACCC
1 CGATACACCC
345836 CTAAAGGAAA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
19 28 1.00
ACGTcount: A:0.29, C:0.35, G:0.17, T:0.19
Consensus pattern (19 bp):
CGATACACCCATAGTGCAT
Found at i:346621 original size:22 final size:22
Alignment explanation
Indices: 346593--346655 Score: 83
Period size: 22 Copynumber: 2.9 Consensus size: 22
346583 GAGGGTCTAC
*
346593 GTGGTCCTTCGGGACATATACA
1 GTGGTCCTTCGGGACAAATACA
346615 GTGGTCCTTCGGGACAAATACA
1 GTGGTCCTTCGGGACAAATACA
* *
346637 -TAGGTCATTCAGGACAAAT
1 GT-GGTCCTTCGGGACAAAT
346656 TTCATATGCC
Statistics
Matches: 37, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
21 1 0.03
22 36 0.97
ACGTcount: A:0.29, C:0.21, G:0.25, T:0.25
Consensus pattern (22 bp):
GTGGTCCTTCGGGACAAATACA
Found at i:347449 original size:12 final size:12
Alignment explanation
Indices: 347434--347473 Score: 53
Period size: 12 Copynumber: 3.3 Consensus size: 12
347424 TTTTCACTGC
* *
347434 TCATGGCACTCT
1 TCATGGTACTAT
*
347446 TCATGGTACTGT
1 TCATGGTACTAT
347458 TCATGGTACTAT
1 TCATGGTACTAT
347470 TCAT
1 TCAT
347474 CACTGTTCAT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
12 25 1.00
ACGTcount: A:0.20, C:0.23, G:0.17, T:0.40
Consensus pattern (12 bp):
TCATGGTACTAT
Found at i:353408 original size:14 final size:14
Alignment explanation
Indices: 353377--353427 Score: 57
Period size: 15 Copynumber: 3.5 Consensus size: 14
353367 ACATTAAAAT
*
353377 AATATTATTTTGATA
1 AATAATATTTT-ATA
*
353392 AATAATATTTTAAA
1 AATAATATTTTATA
*
353406 AATAATTTTTTTATA
1 AATAA-TATTTTATA
353421 AATAATA
1 AATAATA
353428 AAAAGAGTTT
Statistics
Matches: 30, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
14 8 0.27
15 22 0.73
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (14 bp):
AATAATATTTTATA
Found at i:353618 original size:75 final size:75
Alignment explanation
Indices: 353478--353619 Score: 248
Period size: 75 Copynumber: 1.9 Consensus size: 75
353468 AAATGGTGTG
* *
353478 TGTGTACGGTGGTTGTTTGCCGATGTGATCTGAGGTTGTGGGTATGGCCGGTGGTCCTACCCCCA
1 TGTGTACGGTGGTTGTTTGCCGATGAGATCTGAGGTTGTGGGTATGGCCGGTGGTCCTAACCCCA
353543 ATGGTAAGTA
66 ATGGTAAGTA
* *
353553 TGTGTATGGTGGTTGTTTGCCGATGAGATCTGAGGTTGTGGGTATGGCCGGTGGTCCTAATCCCA
1 TGTGTACGGTGGTTGTTTGCCGATGAGATCTGAGGTTGTGGGTATGGCCGGTGGTCCTAACCCCA
353618 AT
66 AT
353620 TATTGCCCAT
Statistics
Matches: 63, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
75 63 1.00
ACGTcount: A:0.15, C:0.16, G:0.36, T:0.33
Consensus pattern (75 bp):
TGTGTACGGTGGTTGTTTGCCGATGAGATCTGAGGTTGTGGGTATGGCCGGTGGTCCTAACCCCA
ATGGTAAGTA
Found at i:357852 original size:12 final size:12
Alignment explanation
Indices: 357835--357865 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
357825 AATCCTGGAG
357835 TATGGAGTAATT
1 TATGGAGTAATT
357847 TATGGAGTAATT
1 TATGGAGTAATT
*
357859 TGTGGAG
1 TATGGAG
357866 GAATCCGTAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.29, C:0.00, G:0.32, T:0.39
Consensus pattern (12 bp):
TATGGAGTAATT
Found at i:358446 original size:31 final size:32
Alignment explanation
Indices: 358392--358456 Score: 87
Period size: 31 Copynumber: 2.1 Consensus size: 32
358382 TGACACTACA
*
358392 TTTTTCTGAGACTCAAAAGTCATACATTTACC
1 TTTTTCTGAGACACAAAAGTCATACATTTACC
* * *
358424 TTTTTC-GAGACACCAAATTCATACTTTTACC
1 TTTTTCTGAGACACAAAAGTCATACATTTACC
358455 TT
1 TT
358457 CTTGGGTAGA
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
31 23 0.79
32 6 0.21
ACGTcount: A:0.29, C:0.23, G:0.08, T:0.40
Consensus pattern (32 bp):
TTTTTCTGAGACACAAAAGTCATACATTTACC
Found at i:360450 original size:64 final size:63
Alignment explanation
Indices: 360382--360537 Score: 167
Period size: 64 Copynumber: 2.5 Consensus size: 63
360372 TTGAAGGTGT
* **
360382 ATCGATGCACATGTAGTGCATCGATGCA-CTCTTTTAA-AATAAAAACATCGAATGCA-ATTAGT
1 ATCGATGCACAAGTAGTGCATCGATGCATC-CCATTAATAAT-AAAACATCGAAT-CATATTA-T
360444 GC
62 GC
* * *
360446 ATCGATGCATAAGGCA-TGCATCGATGCATCCCATTAATAATAAAACATCGAATCATTTTATGC
1 ATCGATGCACAA-GTAGTGCATCGATGCATCCCATTAATAATAAAACATCGAATCATATTATGC
* *
360509 ACCGATGCACAAGTAGTGCATCGGTGCAT
1 ATCGATGCACAAGTAGTGCATCGATGCAT
360538 ACCTTCATTA
Statistics
Matches: 77, Mismatches: 10, Indels: 11
0.79 0.10 0.11
Matches are distributed among these distances:
62 2 0.03
63 27 0.35
64 42 0.55
65 6 0.08
ACGTcount: A:0.35, C:0.21, G:0.18, T:0.27
Consensus pattern (63 bp):
ATCGATGCACAAGTAGTGCATCGATGCATCCCATTAATAATAAAACATCGAATCATATTATGC
Found at i:367212 original size:21 final size:21
Alignment explanation
Indices: 367186--367242 Score: 114
Period size: 21 Copynumber: 2.7 Consensus size: 21
367176 TTTTGGGCAG
367186 AGTGCATCGATGCATATTCAT
1 AGTGCATCGATGCATATTCAT
367207 AGTGCATCGATGCATATTCAT
1 AGTGCATCGATGCATATTCAT
367228 AGTGCATCGATGCAT
1 AGTGCATCGATGCAT
367243 CAAGGTTAAA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 36 1.00
ACGTcount: A:0.28, C:0.19, G:0.21, T:0.32
Consensus pattern (21 bp):
AGTGCATCGATGCATATTCAT
Found at i:367344 original size:64 final size:64
Alignment explanation
Indices: 367276--367432 Score: 169
Period size: 64 Copynumber: 2.5 Consensus size: 64
367266 TTGAAGGTGT
* **
367276 ATCGATGCACAGGTAGTGCATTGATGCA-CTCTTTTAA-AATAAAAACATCGAATGCA-ATTAGT
1 ATCGATGCACAGGTAGTGCATCGATGCATC-CCATTAATAAT-AAAACATCGAATGCATATTA-T
367338 GC
63 GC
* * * *
367340 ATCGATGCATAAGGCA-TGCATCGATGCATCCCATTAATAATAAAACATTGAATGCATTTTATGC
1 ATCGATGCA-CAGGTAGTGCATCGATGCATCCCATTAATAATAAAACATCGAATGCATATTATGC
* *
367404 ACCGATGCACAAGTAGTGCATCGATGCAT
1 ATCGATGCACAGGTAGTGCATCGATGCAT
367433 ACCTTCATTA
Statistics
Matches: 77, Mismatches: 11, Indels: 10
0.79 0.11 0.10
Matches are distributed among these distances:
63 3 0.04
64 63 0.82
65 11 0.14
ACGTcount: A:0.35, C:0.19, G:0.18, T:0.27
Consensus pattern (64 bp):
ATCGATGCACAGGTAGTGCATCGATGCATCCCATTAATAATAAAACATCGAATGCATATTATGC
Found at i:370899 original size:247 final size:242
Alignment explanation
Indices: 370330--371404 Score: 1431
Period size: 246 Copynumber: 4.4 Consensus size: 242
370320 GAAACTAAAT
* * *
370330 GATTTCCAAAGTTT-TTACTTAGTAAGTCCTTT-AGACCATCAATAAGTCTTTCGAGCATGATGC
1 GATTTCCAAAGTTTCTTACTTAGTAAGT-CTTTCGGGCCATCAGTAAGTCTTTCGAGCATGATGC
* * * *
370393 TTAAATCCTTCGGGTTATCTGTATGTCTTTCGAGCAAGATGATAAGTCTTTCGGGCCATCCAAAA
65 TTAAATCCTTCGGGTCATCTGTAAGTCTTTCGAGCAAGATGATAAGTCCTTCGGGCCATCCATAA
* * *
370458 GACCTTTGGGCAGGATGTTTTCACATGATTTTAAAAAACATGAGAAAGTAATTTCCAAAGTTTCT
130 GACCTTCGGGTAGGATGTTTTCACATGATTTTAAAAAAAAT-AGAAAGTAATTTCCAAAGTTTCT
* * * *
370523 CATTTAAA-ACTTTTCTAAAAATTTGTTTCTTTTGAAAAATAAGAAAACA
194 CATTTAAACA-TTTTCTGAAAATTGGTTTCTTTTGAAAAGTAAGAAAAAA
* * * *
370572 -ATTTCTAAAGTTTCTTACTTAGTAAGTCATTCGGGCCATCAGAAAATCTTTCGAGCATGATGCT
1 GATTTCCAAAGTTTCTTACTTAGTAAGTCTTTCGGGCCATCAGTAAGTCTTTCGAGCATGATGCT
*
370636 TAAATCCTTCGGGTCATCTGTAAGTCTTTCGAGCAAGATGATAAGTCCTTTGGGCCATCCATAAG
66 TAAATCCTTCGGGTCATCTGTAAGTCTTTCGAGCAAGATGATAAGTCCTTCGGGCCATCCATAAG
370701 ACCTTCGGGTAGGATG-TTTCACATGATTTTCAAAAAAAAAATTTGAGAAAGTAATTTCCAAAGT
131 ACCTTCGGGTAGGATGTTTTCACATGATTTT---AAAAAAAA--T-AGAAAGTAATTTCCAAAGT
370765 TTCTCATTTAAACATTTTCTGAAAATTGGTTTCTTTTGAAAAGTAAGAAAAAA
190 TTCTCATTTAAACATTTTCTGAAAATTGGTTTCTTTTGAAAAGTAAGAAAAAA
* *
370818 GATTTCCAAAGTTTCTTACTTAGTAAGTCTTTCGGGCCATCAGTAAGTCTTTTGAGCAAGATGCT
1 GATTTCCAAAGTTTCTTACTTAGTAAGTCTTTCGGGCCATCAGTAAGTCTTTCGAGCATGATGCT
* * * * * *
370883 TAAATCCTTTGGGTCATTTGTAAGTCTTTTGAGCAAGATAATAAGTCCTTCAGGCCACCCATAAG
66 TAAATCCTTCGGGTCATCTGTAAGTCTTTCGAGCAAGATGATAAGTCCTTCGGGCCATCCATAAG
* *
370948 ACCTTCAGGTAGGATGTTTTCACATGA-TTT-AAAAAAA-A-AAAGTAATTTCAAAAGTTTCTCA
131 ACCTTCGGGTAGGATGTTTTCACATGATTTTAAAAAAAATAGAAAGTAATTTCCAAAGTTTCTCA
* * *
371009 TTTAAACCTTTTCTGAAAATTAGTTTCTTTTGAAAAGTAAGAAAACA
196 TTTAAACATTTTCTGAAAATTGGTTTCTTTTGAAAAGTAAGAAAAAA
* *
371056 -ATTTCCAAAGTTTCTTACTTAGTAAGTCTTTCGGACCATCAGAAAGTCTTTCGAGCATGATGCT
1 GATTTCCAAAGTTTCTTACTTAGTAAGTCTTTCGGGCCATCAGTAAGTCTTTCGAGCATGATGCT
* * * * *
371120 TAAATCTTTCGGGTCATCAT-TAAGTCTTTCAAGAAATATGATAAGTCATTCGGGCCATCCATAA
66 TAAATCCTTCGGGTCATC-TGTAAGTCTTTCGAGCAAGATGATAAGTCCTTCGGGCCATCCATAA
371184 GACCTTCGGGTAGGATGTTTTCACATGATTTTCAAAAAACAAATATAGAAAGTAATTTCCAAAGT
130 GACCTTCGGGTAGGATGTTTTCACATGATTTT---AAAA-AAA-ATAGAAAGTAATTTCCAAAGT
* * *
371249 TTCTCATTTAAATATTTTCTGAAAACTGGTTTCTTTTGAAAAGTAAG-AAAAC
190 TTCTCATTTAAACATTTTCTGAAAATTGGTTTCTTTTGAAAAGTAAGAAAAAA
* * * * * * *
371301 GATTTCCAAAGTTGCTTACTTAG-AAGTCCTCCAGGCCATTAGTATGTCTTTCGAGCATGATGAT
1 GATTTCCAAAGTTTCTTACTTAGTAAGTCTTTCGGGCCATCAGTAAGTCTTTCGAGCATGATGCT
** * *
371365 TAAATCCTTCAAGTCATCTATAAGTCATTT-GGGCAAGATG
66 TAAATCCTTCGGGTCATCTGTAAGTC-TTTCGAGCAAGATG
371405 TTTTTGCATG
Statistics
Matches: 734, Mismatches: 76, Indels: 43
0.86 0.09 0.05
Matches are distributed among these distances:
237 138 0.19
238 70 0.10
239 1 0.00
241 29 0.04
242 117 0.16
243 10 0.01
244 9 0.01
245 64 0.09
246 151 0.21
247 135 0.18
248 10 0.01
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.35
Consensus pattern (242 bp):
GATTTCCAAAGTTTCTTACTTAGTAAGTCTTTCGGGCCATCAGTAAGTCTTTCGAGCATGATGCT
TAAATCCTTCGGGTCATCTGTAAGTCTTTCGAGCAAGATGATAAGTCCTTCGGGCCATCCATAAG
ACCTTCGGGTAGGATGTTTTCACATGATTTTAAAAAAAATAGAAAGTAATTTCCAAAGTTTCTCA
TTTAAACATTTTCTGAAAATTGGTTTCTTTTGAAAAGTAAGAAAAAA
Found at i:371257 original size:484 final size:487
Alignment explanation
Indices: 370330--371403 Score: 1592
Period size: 484 Copynumber: 2.2 Consensus size: 487
370320 GAAACTAAAT
* *
370330 GATTTCCAAAGTTT-TTACTTAGTAAGTCCTTT-AGACCATCAATAAGTCTTTCGAGCATGATGC
1 GATTTCCAAAGTTTCTTACTTAGTAAGT-CTTTCAGGCCATCAGTAAGTCTTTCGAGCATGATGC
* * * * * *
370393 TTAAATCCTTCGGGTTATCTGTATGTCTTTCGAGCAAGATGATAAGTCTTTCGGGCCATCCAAAA
65 TTAAATCCTTCGGGTCATCTGTAAGTCTTTCGAGCAAGATAATAAGTCCTTCAGGCCACCCAAAA
** *
370458 GACCTTTGGGCAGGATGTTTTCACATGATTTTAAAAAACATGAGAAAGTAATTTCCAAAGTTTCT
130 GACCTTCAGGCAGGATGTTTTCACATGATTTTAAAAAACA-GAGAAAGTAATTTCAAAAGTTTCT
* *
370523 CATTTAAAACTTTTCTAAAAATTTGTTTCTTTTGAAAAATAAGAAAACAATTTCTAAAGTTTCTT
194 CATTTAAAACTTTTCTAAAAATTAGTTTCTTTTGAAAAATAAGAAAACAATTTCCAAAGTTTCTT
*
370588 ACTTAGTAAGTCATTCGGGCCATCAGAAAATCTTTCGAGCATGATGCTTAAATCCTTCGGGTCAT
259 ACTTAGTAAGTCATTCGGACCATCAGAAAATCTTTCGAGCATGATGCTTAAATCCTTCGGGTCAT
* * * *
370653 CTGTAAGTCTTTCGAGCAAGATGATAAGTCCTTTGGGCCATCCATAAGACCTTCGGGTAGGATGT
324 CTGTAAGTCTTTCAAGAAAGATGATAAGTCATTCGGGCCATCCATAAGACCTTCGGGTAGGATGT
*
370718 TTCACATGATTTTCAAAAAAAAAATTTGAGAAAGTAATTTCCAAAGTTTCTCATTTAAACATTTT
389 TTCACATGATTTTCAAAAAAAAAATATGAGAAAGTAATTTCCAAAGTTTCTCATTTAAACATTTT
*
370783 CTGAAAATTGGTTTCTTTTGAAAAGTAAGAAAAAA
454 CTGAAAACTGGTTTCTTTTGAAAAGTAAG-AAAAA
* * *
370818 GATTTCCAAAGTTTCTTACTTAGTAAGTCTTTCGGGCCATCAGTAAGTCTTTTGAGCAAGATGCT
1 GATTTCCAAAGTTTCTTACTTAGTAAGTCTTTCAGGCCATCAGTAAGTCTTTCGAGCATGATGCT
* * * *
370883 TAAATCCTTTGGGTCATTTGTAAGTCTTTTGAGCAAGATAATAAGTCCTTCAGGCCACCCATAAG
66 TAAATCCTTCGGGTCATCTGTAAGTCTTTCGAGCAAGATAATAAGTCCTTCAGGCCACCCAAAAG
*
370948 ACCTTCAGGTAGGATGTTTTCACATGA-TTTAAAAAA-A-A-AAAGTAATTTCAAAAGTTTCTCA
131 ACCTTCAGGCAGGATGTTTTCACATGATTTTAAAAAACAGAGAAAGTAATTTCAAAAGTTTCTCA
* * *
371009 TTTAAACCTTTTCTGAAAATTAGTTTCTTTTGAAAAGTAAGAAAACAATTTCCAAAGTTTCTTAC
196 TTTAAAACTTTTCTAAAAATTAGTTTCTTTTGAAAAATAAGAAAACAATTTCCAAAGTTTCTTAC
* * *
371074 TTAGTAAGTCTTTCGGACCATCAGAAAGTCTTTCGAGCATGATGCTTAAATCTTTCGGGTCATCA
261 TTAGTAAGTCATTCGGACCATCAGAAAATCTTTCGAGCATGATGCTTAAATCCTTCGGGTCATC-
*
371139 T-TAAGTCTTTCAAGAAATATGATAAGTCATTCGGGCCATCCATAAGACCTTCGGGTAGGATGTT
325 TGTAAGTCTTTCAAGAAAGATGATAAGTCATTCGGGCCATCCATAAGACCTTCGGGTAGGATG-T
* *
371203 TTCACATGATTTTCAAAAAACAAATAT-AGAAAGTAATTTCCAAAGTTTCTCATTTAAATATTTT
389 TTCACATGATTTTCAAAAAAAAAATATGAGAAAGTAATTTCCAAAGTTTCTCATTTAAACATTTT
*
371267 CTGAAAACTGGTTTCTTTTGAAAAGTAAGAAAAC
454 CTGAAAACTGGTTTCTTTTGAAAAGTAAGAAAAA
* * * * * *
371301 GATTTCCAAAGTTGCTTACTTAG-AAGTCCTCCAGGCCATTAGTATGTCTTTCGAGCATGATGAT
1 GATTTCCAAAGTTTCTTACTTAGTAAGTCTTTCAGGCCATCAGTAAGTCTTTCGAGCATGATGCT
** * *
371365 TAAATCCTTCAAGTCATCTATAAGTCATTT-GGGCAAGAT
66 TAAATCCTTCGGGTCATCTGTAAGTC-TTTCGAGCAAGAT
371404 GTTTTTGCAT
Statistics
Matches: 528, Mismatches: 53, Indels: 16
0.88 0.09 0.03
Matches are distributed among these distances:
482 62 0.12
483 29 0.05
484 262 0.50
485 28 0.05
487 1 0.00
488 27 0.05
489 119 0.23
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.35
Consensus pattern (487 bp):
GATTTCCAAAGTTTCTTACTTAGTAAGTCTTTCAGGCCATCAGTAAGTCTTTCGAGCATGATGCT
TAAATCCTTCGGGTCATCTGTAAGTCTTTCGAGCAAGATAATAAGTCCTTCAGGCCACCCAAAAG
ACCTTCAGGCAGGATGTTTTCACATGATTTTAAAAAACAGAGAAAGTAATTTCAAAAGTTTCTCA
TTTAAAACTTTTCTAAAAATTAGTTTCTTTTGAAAAATAAGAAAACAATTTCCAAAGTTTCTTAC
TTAGTAAGTCATTCGGACCATCAGAAAATCTTTCGAGCATGATGCTTAAATCCTTCGGGTCATCT
GTAAGTCTTTCAAGAAAGATGATAAGTCATTCGGGCCATCCATAAGACCTTCGGGTAGGATGTTT
CACATGATTTTCAAAAAAAAAATATGAGAAAGTAATTTCCAAAGTTTCTCATTTAAACATTTTCT
GAAAACTGGTTTCTTTTGAAAAGTAAGAAAAA
Found at i:371979 original size:135 final size:135
Alignment explanation
Indices: 371732--371986 Score: 348
Period size: 135 Copynumber: 1.9 Consensus size: 135
371722 AACTCAATTC
* * * *
371732 AATCTTCCCTAAAGAACAATGGAATTAATCAACATTTCTAGATCTGATTTTCCCTGAAGAAGCAG
1 AATCTTCCCTAAAGAACAATGGAATTAATAAACATTTCCAGATCTAATTTTCCCTAAAGAAGCAG
* * * * * *
371797 CGGAACAAATCCCTATTTTTTCCATATTTGATTTTTCCTAAGGAACAGTGGAACAAGTCTGCCTC
66 CGGAACAAATCCCTATTATTTCCAGATTAGATCTTCCCTAAGAAACAGTGGAACAAGTCTGCCTC
371862 GATTA
131 GATTA
* * * *
371867 AATCTTCCCTGAATAACAGTGGAATTAATAAACATTTCCAGATCTAATTTTGCCTAAAGAAGCAG
1 AATCTTCCCTAAAGAACAATGGAATTAATAAACATTTCCAGATCTAATTTTCCCTAAAGAAGCAG
* * * *
371932 CGGAACATATCCCTCTTATTTCCAGATTAGATCTTCCCTTAGAAACAGTTGAACA
66 CGGAACAAATCCCTATTATTTCCAGATTAGATCTTCCCTAAGAAACAGTGGAACA
371987 TATTTTATCT
Statistics
Matches: 102, Mismatches: 18, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
135 102 1.00
ACGTcount: A:0.34, C:0.21, G:0.14, T:0.31
Consensus pattern (135 bp):
AATCTTCCCTAAAGAACAATGGAATTAATAAACATTTCCAGATCTAATTTTCCCTAAAGAAGCAG
CGGAACAAATCCCTATTATTTCCAGATTAGATCTTCCCTAAGAAACAGTGGAACAAGTCTGCCTC
GATTA
Found at i:372319 original size:3 final size:3
Alignment explanation
Indices: 372311--372344 Score: 68
Period size: 3 Copynumber: 11.3 Consensus size: 3
372301 ATCATACTAG
372311 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
372345 TACTTTAGTT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:372357 original size:6 final size:5
Alignment explanation
Indices: 372311--372382 Score: 56
Period size: 6 Copynumber: 13.0 Consensus size: 5
372301 ATCATACTAG
*
372311 TATTAT TATTAT TATTAT TATTAT TATTAT TA-TT TACTT TAGTTT TAGTTT
1 TATT-T TATT-T TATT-T TATT-T TATT-T TATTT TATTT TA-TTT TA-TTT
372362 TATTTT TATTT TATTT TATTT
1 TA-TTT TATTT TATTT TATTT
372383 ACAAGCCAAA
Statistics
Matches: 62, Mismatches: 2, Indels: 5
0.90 0.03 0.07
Matches are distributed among these distances:
4 3 0.05
5 18 0.29
6 41 0.66
ACGTcount: A:0.25, C:0.01, G:0.03, T:0.71
Consensus pattern (5 bp):
TATTT
Found at i:374810 original size:131 final size:131
Alignment explanation
Indices: 374603--374944 Score: 526
Period size: 131 Copynumber: 2.6 Consensus size: 131
374593 CATTTCGGTT
*
374603 GGAGTAATAAATGACTGCTTTAAGGCATGAGAGGTCATTTATTCTTGATTGGAAATAATTAGATA
1 GGAGTAATAAATGACTGCTTTAAGGCATGAGAGGTCATTTATTCTCGATTGGAAATAATTAGATA
* * * * *
374668 TTATCGTTTTCTCTCGAATCAATATTTATTTTTAAGAAGAAATAGTGATATCTCTTCATTT-TGA
66 TTATCATTTTCTCTCGAATCAATATTGAATTTTAAGAAGAAATAGTGATAACCCTTCATTTCT-A
374732 TC
130 TC
* * *
374734 GTAGTAATAAATGACTGCTTTAAGGAAAT-AGAGGTCATTTATTCTCGATTGAAAATAATTAGAT
1 GGAGTAATAAATGACTGCTTTAAGG-CATGAGAGGTCATTTATTCTCGATTGGAAATAATTAGAT
*
374798 ATTATCATTTTCTGTCGAATCAATATTGAATTTTAAGAAGAAATAGTGATAACCCTTCATTTCTA
65 ATTATCATTTTCTCTCGAATCAATATTGAATTTTAAGAAGAAATAGTGATAACCCTTCATTTCTA
*
374863 TT
130 TC
* *
374865 GGAGTAATAAATGATTGCTTTAAGGCATGAGAGGTCATTTATTCTCGATTGGAAATAATTAGATG
1 GGAGTAATAAATGACTGCTTTAAGGCATGAGAGGTCATTTATTCTCGATTGGAAATAATTAGATA
*
374930 TTATCATTTTTTCTC
66 TTATCATTTTCTCTC
374945 TTAGAATTAT
Statistics
Matches: 190, Mismatches: 18, Indels: 6
0.89 0.08 0.03
Matches are distributed among these distances:
130 2 0.01
131 185 0.97
132 3 0.02
ACGTcount: A:0.33, C:0.11, G:0.17, T:0.39
Consensus pattern (131 bp):
GGAGTAATAAATGACTGCTTTAAGGCATGAGAGGTCATTTATTCTCGATTGGAAATAATTAGATA
TTATCATTTTCTCTCGAATCAATATTGAATTTTAAGAAGAAATAGTGATAACCCTTCATTTCTAT
C
Found at i:377479 original size:13 final size:13
Alignment explanation
Indices: 377435--377479 Score: 56
Period size: 13 Copynumber: 3.4 Consensus size: 13
377425 TATTTTCTAT
377435 ATTAATTATAATC
1 ATTAATTATAATC
*
377448 CTTATATTATAAATC
1 ATTA-ATTAT-AATC
377463 -TTAATTATAATC
1 ATTAATTATAATC
377475 ATTAA
1 ATTAA
377480 ATTAATTTCA
Statistics
Matches: 28, Mismatches: 1, Indels: 6
0.80 0.03 0.17
Matches are distributed among these distances:
12 4 0.14
13 12 0.43
14 8 0.29
15 4 0.14
ACGTcount: A:0.44, C:0.09, G:0.00, T:0.47
Consensus pattern (13 bp):
ATTAATTATAATC
Found at i:377555 original size:21 final size:20
Alignment explanation
Indices: 377521--377563 Score: 52
Period size: 20 Copynumber: 2.1 Consensus size: 20
377511 CATGATTTTA
377521 TTAAATTATATAAAATT-AAT
1 TTAAATTATAT-AAATTCAAT
*
377541 TTAAATATTTATAAATTCAAT
1 TTAAAT-TATATAAATTCAAT
377562 TT
1 TT
377564 TTTATGTACG
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
20 11 0.55
21 9 0.45
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (20 bp):
TTAAATTATATAAATTCAAT
Found at i:377600 original size:23 final size:25
Alignment explanation
Indices: 377574--377621 Score: 66
Period size: 24 Copynumber: 2.0 Consensus size: 25
377564 TTTATGTACG
377574 AATTAA-TTAATAA-TTTAA-ATATA
1 AATTAACTTAA-AACTTTAATATATA
377597 AATTAACTTAAAACTTTAATATATA
1 AATTAACTTAAAACTTTAATATATA
377622 TATATATATA
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
23 8 0.36
24 9 0.41
25 5 0.23
ACGTcount: A:0.54, C:0.04, G:0.00, T:0.42
Consensus pattern (25 bp):
AATTAACTTAAAACTTTAATATATA
Found at i:378168 original size:8 final size:8
Alignment explanation
Indices: 378076--378152 Score: 59
Period size: 8 Copynumber: 9.5 Consensus size: 8
378066 TGATATACAT
378076 ATATATAC
1 ATATATAC
*
378084 ATACATAC
1 ATATATAC
*
378092 ATACATAC
1 ATATATAC
378100 AT-TATAC
1 ATATATAC
378107 ATATATAC
1 ATATATAC
*
378115 TTATGTATAC
1 --ATATATAC
*
378125 ATATACT-T
1 ATATA-TAC
378133 ATATATAC
1 ATATATAC
* *
378141 CTATATAG
1 ATATATAC
378149 ATAT
1 ATAT
378153 TTTTATATAC
Statistics
Matches: 55, Mismatches: 9, Indels: 10
0.74 0.12 0.14
Matches are distributed among these distances:
7 7 0.13
8 40 0.73
9 1 0.02
10 7 0.13
ACGTcount: A:0.44, C:0.14, G:0.03, T:0.39
Consensus pattern (8 bp):
ATATATAC
Found at i:378230 original size:32 final size:32
Alignment explanation
Indices: 378192--378336 Score: 118
Period size: 32 Copynumber: 4.4 Consensus size: 32
378182 TATATATAAG
*
378192 TATATATATGCATAAGTATAATGTATACTTATA
1 TATATATAT-TATAAGTATAATGTATACTTATA
*
378225 T-TATATACTTATAAGTATAATGTATAGTTATA
1 TATATATA-TTATAAGTATAATGTATACTTATA
* * *
378257 TATATATATATTTAAGTATAATGTGTGCATTATA
1 TATATATAT-TATAAGTATAATGTATAC-TTATA
* *
378291 AATATA-ATGTATATGTAT-AT-TATACATGTATA
1 TATATATAT-TATAAGTATAATGTATAC-T-TATA
*
378323 TATATGTACTTATA
1 TATATATA-TTATA
378337 TATATAAGTG
Statistics
Matches: 91, Mismatches: 14, Indels: 14
0.76 0.12 0.12
Matches are distributed among these distances:
31 5 0.05
32 39 0.43
33 36 0.40
34 11 0.12
ACGTcount: A:0.41, C:0.04, G:0.10, T:0.46
Consensus pattern (32 bp):
TATATATATTATAAGTATAATGTATACTTATA
Found at i:378390 original size:17 final size:17
Alignment explanation
Indices: 378365--378430 Score: 51
Period size: 17 Copynumber: 3.5 Consensus size: 17
378355 ATCTTATAAG
378365 TATAATATATAGTTATA
1 TATAATATATAGTTATA
* *
378382 TATATTATACATACATATATAA
1 TATA--ATATATA-GT-TAT-A
378404 GTATAATATATAGTTATA
1 -TATAATATATAGTTATA
*
378422 TATATTATA
1 TATAATATA
378431 CACACACACA
Statistics
Matches: 38, Mismatches: 5, Indels: 12
0.69 0.09 0.22
Matches are distributed among these distances:
17 12 0.32
18 1 0.03
19 9 0.24
20 2 0.05
21 9 0.24
22 1 0.03
23 4 0.11
ACGTcount: A:0.47, C:0.03, G:0.05, T:0.45
Consensus pattern (17 bp):
TATAATATATAGTTATA
Found at i:378422 original size:23 final size:23
Alignment explanation
Indices: 378359--378425 Score: 74
Period size: 23 Copynumber: 3.2 Consensus size: 23
378349 ATGTATATCT
378359 TATAAGTATAATATATAGTTATA
1 TATAAGTATAATATATAGTTATA
* *
378382 TAT-A-T-T-ATACATA--CATA
1 TATAAGTATAATATATAGTTATA
378399 TATAAGTATAATATATAGTTATA
1 TATAAGTATAATATATAGTTATA
378422 TATA
1 TATA
378426 TTATACACAC
Statistics
Matches: 34, Mismatches: 4, Indels: 12
0.68 0.08 0.24
Matches are distributed among these distances:
17 6 0.18
18 1 0.03
19 7 0.21
20 2 0.06
21 7 0.21
22 1 0.03
23 10 0.29
ACGTcount: A:0.48, C:0.03, G:0.06, T:0.43
Consensus pattern (23 bp):
TATAAGTATAATATATAGTTATA
Found at i:378453 original size:2 final size:2
Alignment explanation
Indices: 378448--378525 Score: 58
Period size: 2 Copynumber: 40.0 Consensus size: 2
378438 ACACACACAC
* * * *
378448 AT AT AT AT AT AT AC AC AT AT AT A- AA ACT AT A- AT GT AT ACT -T
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A-T AT AT AT AT AT A-T AT
378489 AT AT -T AT AT AT ACT AT A- AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT A-T AT AT AT AT AT AT AT AT AT AT AT AT
378526 TTAATATTTT
Statistics
Matches: 63, Mismatches: 5, Indels: 16
0.75 0.06 0.19
Matches are distributed among these distances:
1 5 0.08
2 54 0.86
3 4 0.06
ACGTcount: A:0.49, C:0.06, G:0.01, T:0.44
Consensus pattern (2 bp):
AT
Found at i:378503 original size:27 final size:26
Alignment explanation
Indices: 378452--378525 Score: 78
Period size: 27 Copynumber: 2.8 Consensus size: 26
378442 ACACACATAT
* * *
378452 ATATATATACACATATATAAAACTATA
1 ATATATATATATATATAT-ATACTATA
*
378479 ATGTATACT-TATATTATATATACTATA
1 ATATATA-TATATA-TATATATACTATA
378506 ATATATATATATATATATAT
1 ATATATATATATATATATAT
378526 TTAATATTTT
Statistics
Matches: 39, Mismatches: 5, Indels: 7
0.76 0.10 0.14
Matches are distributed among these distances:
26 8 0.21
27 25 0.64
28 6 0.15
ACGTcount: A:0.49, C:0.07, G:0.01, T:0.43
Consensus pattern (26 bp):
ATATATATATATATATATATACTATA
Found at i:378511 original size:12 final size:13
Alignment explanation
Indices: 378449--378524 Score: 70
Period size: 12 Copynumber: 5.9 Consensus size: 13
378439 CACACACACA
378449 TATATATATATAC
1 TATATATATATAC
* *
378462 -ACATATATAAAAC
1 TATATATAT-ATAC
*
378475 TATA-ATGTATAC
1 TATATATATATAC
378487 TTATATTATATATAC
1 -TATA-TATATATAC
378502 TATA-ATATATA-
1 TATATATATATAC
378513 TATATATATATA
1 TATATATATATA
378525 TTTAATATTT
Statistics
Matches: 51, Mismatches: 6, Indels: 13
0.73 0.09 0.19
Matches are distributed among these distances:
11 4 0.08
12 24 0.47
13 10 0.20
14 6 0.12
15 7 0.14
ACGTcount: A:0.49, C:0.07, G:0.01, T:0.43
Consensus pattern (13 bp):
TATATATATATAC
Found at i:383996 original size:24 final size:23
Alignment explanation
Indices: 383969--384039 Score: 72
Period size: 24 Copynumber: 3.0 Consensus size: 23
383959 TCAAGGGGAA
383969 TCATCTGCTGTAAAAGTACAAGCT
1 TCATCTGCT-TAAAAGTACAAGCT
* *
383993 TCATCTTCTACAAAAGCT-CAAGCT
1 TCATCTGCT-TAAAAG-TACAAGCT
*
384017 TCATCTGCTTCAAAAGCACAAGC
1 TCATCTGCTT-AAAAGTACAAGC
384040 CTCTGTAACC
Statistics
Matches: 38, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
24 37 0.97
25 1 0.03
ACGTcount: A:0.34, C:0.27, G:0.13, T:0.27
Consensus pattern (23 bp):
TCATCTGCTTAAAAGTACAAGCT
Found at i:389440 original size:22 final size:22
Alignment explanation
Indices: 389414--389463 Score: 73
Period size: 22 Copynumber: 2.3 Consensus size: 22
389404 CATATATAAT
389414 ATATATAATTTTTGAAAACATA
1 ATATATAATTTTTGAAAACATA
* * *
389436 TTATATAGTTTTTGAAAATATA
1 ATATATAATTTTTGAAAACATA
389458 ATATAT
1 ATATAT
389464 GTTATATAGT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.46, C:0.02, G:0.06, T:0.46
Consensus pattern (22 bp):
ATATATAATTTTTGAAAACATA
Found at i:389468 original size:29 final size:26
Alignment explanation
Indices: 389436--389489 Score: 81
Period size: 29 Copynumber: 2.0 Consensus size: 26
389426 TGAAAACATA
389436 TTATATAGTTTTTGAAAATATAATATATG
1 TTATATAGTTTTT--AAATA-AATATATG
389465 TTATATAGTTTTTAAATAAATATAT
1 TTATATAGTTTTTAAATAAATATAT
389490 AGTGTACATA
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
26 7 0.28
27 5 0.20
29 13 0.52
ACGTcount: A:0.43, C:0.00, G:0.07, T:0.50
Consensus pattern (26 bp):
TTATATAGTTTTTAAATAAATATATG
Found at i:389507 original size:5 final size:5
Alignment explanation
Indices: 389497--389585 Score: 82
Period size: 5 Copynumber: 18.4 Consensus size: 5
389487 TATAGTGTAC
** *
389497 ATATT ATATT ATA-T ATTATT -TACA ATATT AT-TT A-A-T ATTTT ATATT
1 ATATT ATATT ATATT A-TATT ATATT ATATT ATATT ATATT ATATT ATATT
389543 -TATT ATATT ATATT ATATT ATATT ATATT ATTATT AATATT AT
1 ATATT ATATT ATATT ATATT ATATT ATATT A-TATT -ATATT AT
389586 TTTTCATTTT
Statistics
Matches: 69, Mismatches: 6, Indels: 18
0.74 0.06 0.19
Matches are distributed among these distances:
3 2 0.03
4 11 0.16
5 46 0.67
6 9 0.13
7 1 0.01
ACGTcount: A:0.39, C:0.01, G:0.00, T:0.60
Consensus pattern (5 bp):
ATATT
Found at i:390726 original size:19 final size:19
Alignment explanation
Indices: 390673--390727 Score: 51
Period size: 19 Copynumber: 2.9 Consensus size: 19
390663 CTCTTTAATA
* *
390673 TTTATATTTTAAACTTATC
1 TTTATATTTTTAATTTATC
*
390692 TTTAT-TTTATCT-ATTTCTC
1 TTTATATTT-T-TAATTTATC
390711 TTTATATTTTTAATTTA
1 TTTATATTTTTAATTTA
390728 GCCATTTTTT
Statistics
Matches: 28, Mismatches: 4, Indels: 8
0.70 0.10 0.20
Matches are distributed among these distances:
18 4 0.14
19 21 0.75
20 3 0.11
ACGTcount: A:0.25, C:0.09, G:0.00, T:0.65
Consensus pattern (19 bp):
TTTATATTTTTAATTTATC
Found at i:391693 original size:2 final size:2
Alignment explanation
Indices: 391686--391717 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
391676 ATATTTTAAA
391686 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
391718 TGTGTCGGAA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:393601 original size:15 final size:12
Alignment explanation
Indices: 393567--393598 Score: 64
Period size: 12 Copynumber: 2.7 Consensus size: 12
393557 ATATAATTTG
393567 AAATTATTTAAA
1 AAATTATTTAAA
393579 AAATTATTTAAA
1 AAATTATTTAAA
393591 AAATTATT
1 AAATTATT
393599 ATTATTATTA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (12 bp):
AAATTATTTAAA
Found at i:395137 original size:24 final size:24
Alignment explanation
Indices: 395105--395181 Score: 145
Period size: 24 Copynumber: 3.2 Consensus size: 24
395095 TTTCACGCAG
395105 GCAGGTCTTCACGCGGAGAAAAAA
1 GCAGGTCTTCACGCGGAGAAAAAA
395129 GCAGGTCTTCACGCGGAGAAAAAA
1 GCAGGTCTTCACGCGGAGAAAAAA
*
395153 CCAGGTCTTCACGCGGAGAAAAAA
1 GCAGGTCTTCACGCGGAGAAAAAA
395177 GCAGG
1 GCAGG
395182 ACATGACATC
Statistics
Matches: 51, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 51 1.00
ACGTcount: A:0.36, C:0.22, G:0.30, T:0.12
Consensus pattern (24 bp):
GCAGGTCTTCACGCGGAGAAAAAA
Found at i:396325 original size:16 final size:16
Alignment explanation
Indices: 396268--396323 Score: 60
Period size: 16 Copynumber: 3.4 Consensus size: 16
396258 AAGTAAACAT
*
396268 AAAATAATACGAAAAA
1 AAAATAATAAGAAAAA
* *
396284 AAAATAATAATAATAA
1 AAAATAATAAGAAAAA
396300 AAAATGAA-AAGAAAACA
1 AAAAT-AATAAGAAAA-A
396317 AAAATAA
1 AAAATAA
396324 AATAAAAATA
Statistics
Matches: 33, Mismatches: 5, Indels: 4
0.79 0.12 0.10
Matches are distributed among these distances:
16 25 0.76
17 8 0.24
ACGTcount: A:0.77, C:0.04, G:0.05, T:0.14
Consensus pattern (16 bp):
AAAATAATAAGAAAAA
Found at i:396328 original size:35 final size:35
Alignment explanation
Indices: 396278--396353 Score: 86
Period size: 40 Copynumber: 2.1 Consensus size: 35
396268 AAAATAATAC
396278 GAAAAAAAAATAAT-AATAAT-AAAAAAT-GAAAA
1 GAAAAAAAAATAATAAATAATAAAAAAATAGAAAA
396310 GAAAACAAAAATAAAATAAAAATAATAAAAAAATAGAAAA
1 GAAAA-AAAAAT--AAT--AAATAATAAAAAAATAGAAAA
396350 GAAA
1 GAAA
396354 CATATTCAAA
Statistics
Matches: 36, Mismatches: 0, Indels: 8
0.82 0.00 0.18
Matches are distributed among these distances:
32 5 0.14
33 6 0.17
35 3 0.08
38 6 0.17
39 7 0.19
40 9 0.25
ACGTcount: A:0.79, C:0.01, G:0.07, T:0.13
Consensus pattern (35 bp):
GAAAAAAAAATAATAAATAATAAAAAAATAGAAAA
Found at i:396330 original size:16 final size:15
Alignment explanation
Indices: 396279--396331 Score: 61
Period size: 16 Copynumber: 3.3 Consensus size: 15
396269 AAATAATACG
396279 AAAAAAAAATAATAAT
1 AAAAAAAAATAA-AAT
* *
396295 AATAAAAAATGAAAAG
1 AAAAAAAAAT-AAAAT
396311 AAAACAAAAATAAAAT
1 AAAA-AAAAATAAAAT
396327 AAAAA
1 AAAAA
396332 TAATAAAAAA
Statistics
Matches: 31, Mismatches: 4, Indels: 5
0.77 0.10 0.12
Matches are distributed among these distances:
15 1 0.03
16 22 0.71
17 8 0.26
ACGTcount: A:0.81, C:0.02, G:0.04, T:0.13
Consensus pattern (15 bp):
AAAAAAAAATAAAAT
Found at i:396330 original size:27 final size:27
Alignment explanation
Indices: 396266--396330 Score: 69
Period size: 27 Copynumber: 2.4 Consensus size: 27
396256 ACAAGTAAAC
* * *
396266 ATAAAATAATACGAAAAAAAAATAATA
1 ATAAAATAAAACGAAAAAAAAACAAAA
* *
396293 ATAATAA-AAAATGAAAAGAAAACAAAA
1 ATAA-AATAAAACGAAAAAAAAACAAAA
396320 ATAAAATAAAA
1 ATAAAATAAAA
396331 ATAATAAAAA
Statistics
Matches: 31, Mismatches: 5, Indels: 4
0.77 0.12 0.10
Matches are distributed among these distances:
26 2 0.06
27 27 0.87
28 2 0.06
ACGTcount: A:0.77, C:0.03, G:0.05, T:0.15
Consensus pattern (27 bp):
ATAAAATAAAACGAAAAAAAAACAAAA
Found at i:396335 original size:38 final size:39
Alignment explanation
Indices: 396279--396353 Score: 118
Period size: 38 Copynumber: 1.9 Consensus size: 39
396269 AAATAATACG
*
396279 AAAAAAAAATAATAATAAT-AAAAAAT-GAAAAGAAAAC
1 AAAAAAAAATAAAAATAATAAAAAAATAGAAAAGAAAAC
396316 AAAAATAAAATAAAAATAATAAAAAAATAGAAAAGAAA
1 AAAAA-AAAATAAAAATAATAAAAAAATAGAAAAGAAA
396354 CATATTCAAA
Statistics
Matches: 34, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
37 5 0.15
38 13 0.38
39 7 0.21
40 9 0.26
ACGTcount: A:0.80, C:0.01, G:0.05, T:0.13
Consensus pattern (39 bp):
AAAAAAAAATAAAAATAATAAAAAAATAGAAAAGAAAAC
Found at i:396526 original size:22 final size:23
Alignment explanation
Indices: 396501--396590 Score: 67
Period size: 22 Copynumber: 3.9 Consensus size: 23
396491 ATATATAAAT
*
396501 AAATATAAAAAAAATCAT-ATTA
1 AAATATAAAAAAAATAATAATTA
* * *
396523 AAATAATAATAATAATAATAATGA
1 AAAT-ATAAAAAAAATAATAATTA
*
396547 AAAT-TAATAAAAATAATAATATA
1 AAATATAAAAAAAATAATAAT-TA
* * *
396570 AAAAAGTAAAAATAATCATAA
1 AAATA-TAAAAAAAATAATAA
396591 CAGGTTAAAT
Statistics
Matches: 53, Mismatches: 10, Indels: 7
0.76 0.14 0.10
Matches are distributed among these distances:
22 19 0.36
23 15 0.28
24 7 0.13
25 12 0.23
ACGTcount: A:0.69, C:0.02, G:0.02, T:0.27
Consensus pattern (23 bp):
AAATATAAAAAAAATAATAATTA
Found at i:396530 original size:3 final size:3
Alignment explanation
Indices: 396524--396567 Score: 54
Period size: 3 Copynumber: 14.3 Consensus size: 3
396514 ATCATATTAA
*
396524 AAT AAT AAT AAT AAT AAT AAT GAA- AATT AAT AAA AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT -AAT AA-T AAT AAT AAT AAT AAT A
396568 TAAAAAAGTA
Statistics
Matches: 36, Mismatches: 2, Indels: 6
0.82 0.05 0.14
Matches are distributed among these distances:
2 2 0.06
3 30 0.83
4 4 0.11
ACGTcount: A:0.68, C:0.00, G:0.02, T:0.30
Consensus pattern (3 bp):
AAT
Found at i:396574 original size:25 final size:24
Alignment explanation
Indices: 396493--396574 Score: 78
Period size: 25 Copynumber: 3.4 Consensus size: 24
396483 ATATACACAT
* *
396493 ATATAAATAAAT-ATAAAAAAAATC
1 ATATAAA-AAATAATAAAAATAATA
* *
396517 ATAT-TAAAATAATAATAATAATA
1 ATATAAAAAATAATAAAAATAATA
* *
396540 ATAATGAAAATTAATAAAAATAATA
1 AT-ATAAAAAATAATAAAAATAATA
396565 ATATAAAAAA
1 ATATAAAAAA
396575 GTAAAAATAA
Statistics
Matches: 46, Mismatches: 9, Indels: 6
0.75 0.15 0.10
Matches are distributed among these distances:
22 4 0.09
23 12 0.26
24 12 0.26
25 18 0.39
ACGTcount: A:0.70, C:0.01, G:0.01, T:0.28
Consensus pattern (24 bp):
ATATAAAAAATAATAAAAATAATA
Found at i:396590 original size:25 final size:28
Alignment explanation
Indices: 396527--396590 Score: 73
Period size: 25 Copynumber: 2.4 Consensus size: 28
396517 ATATTAAAAT
*
396527 AATAATAATAATAATAATGAAAATTAATA
1 AATAATAATAATAATAA-GAAAAGTAATA
396556 AA-AATAATAAT-ATAA-AAAAGTAA-A
1 AATAATAATAATAATAAGAAAAGTAATA
*
396580 AATAATCATAA
1 AATAATAATAA
396591 CAGGTTAAAT
Statistics
Matches: 32, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
24 3 0.09
25 14 0.44
27 4 0.12
28 9 0.28
29 2 0.06
ACGTcount: A:0.69, C:0.02, G:0.03, T:0.27
Consensus pattern (28 bp):
AATAATAATAATAATAAGAAAAGTAATA
Found at i:398394 original size:34 final size:34
Alignment explanation
Indices: 398355--398546 Score: 200
Period size: 34 Copynumber: 5.8 Consensus size: 34
398345 CGAAGGTTTG
*
398355 GTGTTTCAATAG-AACAT-TTTCAAAGGTTCTTTTT
1 GTGTTTCAAGAGAAAC-TGTTTCAAAGGTT-TTTTT
**
398389 GTGTTTCAAGAGAAACAATTTCAAAGG-TTTTTT
1 GTGTTTCAAGAGAAACTGTTTCAAAGGTTTTTTT
* * *
398422 GTGTTTAAATAGAAACTGTCTC-AAGGTTTTTTT
1 GTGTTTCAAGAGAAACTGTTTCAAAGGTTTTTTT
* *
398455 -T-TTTCAAGAGAAACTGTCTC-AAGTTTTTTTTT
1 GTGTTTCAAGAGAAACTGTTTCAAAG-GTTTTTTT
* *
398487 TTGTTTCAAGAGAAACTGTTTCAAATGTTTTTTT
1 GTGTTTCAAGAGAAACTGTTTCAAAGGTTTTTTT
**
398521 GTGTTTCAAGAGAAACAATTTCAAAG
1 GTGTTTCAAGAGAAACTGTTTCAAAG
398547 ATTGATGCTT
Statistics
Matches: 134, Mismatches: 17, Indels: 14
0.81 0.10 0.08
Matches are distributed among these distances:
31 20 0.15
32 12 0.09
33 29 0.22
34 59 0.44
35 14 0.10
ACGTcount: A:0.30, C:0.10, G:0.16, T:0.44
Consensus pattern (34 bp):
GTGTTTCAAGAGAAACTGTTTCAAAGGTTTTTTT
Found at i:398632 original size:21 final size:21
Alignment explanation
Indices: 398566--398636 Score: 64
Period size: 21 Copynumber: 3.6 Consensus size: 21
398556 TCAAGAGAAA
398566 TTGTCTCAAGAGAGACAAAACT
1 TTGTCTCAAGAGAGACAAAA-T
*
398588 TTGTTTC-A-AG-G--AAAA-
1 TTGTCTCAAGAGAGACAAAAT
*
398603 CTGTCTCAAGAGAGACAAAAT
1 TTGTCTCAAGAGAGACAAAAT
*
398624 TTGTTTCAAGAGA
1 TTGTCTCAAGAGA
398637 AACTGTCTCA
Statistics
Matches: 38, Mismatches: 5, Indels: 13
0.68 0.09 0.23
Matches are distributed among these distances:
15 5 0.13
16 1 0.03
17 6 0.16
18 1 0.03
19 1 0.03
20 6 0.16
21 12 0.32
22 6 0.16
ACGTcount: A:0.39, C:0.14, G:0.20, T:0.27
Consensus pattern (21 bp):
TTGTCTCAAGAGAGACAAAAT
Found at i:398640 original size:36 final size:36
Alignment explanation
Indices: 398555--398977 Score: 318
Period size: 36 Copynumber: 12.1 Consensus size: 36
398545 AGATTGATGC
*
398555 TTCAAGAGAAATTGTCTCAAGAGAGACAAAACTTTGT
1 TTCAAGAGAAACTGTCTCAAGAGAGACAAAA-TTTGT
398592 TTCAAG-GAAAACTGTCTCAAGAGAGACAAAATTTGT
1 TTCAAGAG-AAACTGTCTCAAGAGAGACAAAATTTGT
* * *
398628 TTCAAGAGAAACTGTCTCAAGAGAGTCAAAGCTTAGTT
1 TTCAAGAGAAACTGTCTCAAGAGAGACAAA-ATTTG-T
* * * * *
398666 TTCAAAAGAAATTATCTCAAGATAGACGAAATTTGT
1 TTCAAGAGAAACTGTCTCAAGAGAGACAAAATTTGT
* ** *
398702 TTAAAG-GAAAACAAAT-TC-A-A-AG----ATTTTGT
1 TTCAAGAG-AAAC-TGTCTCAAGAGAGACAAAATTTGT
* **
398731 TTCAA-AGGAAACTGTCTCAAGAGAGATAAAATTTAA
1 TTCAAGA-GAAACTGTCTCAAGAGAGACAAAATTTGT
*
398767 TTCAAGGGAAACTGTCTCAAGAGAGACAAAATTTGT
1 TTCAAGAGAAACTGTCTCAAGAGAGACAAAATTTGT
* * *
398803 TTCAAGAGAAACTGTCTAAAGAGATACAAAACTTAGT
1 TTCAAGAGAAACTGTCTCAAGAGAGACAAAA-TTTGT
* *
398840 TCCAAAAGAAACTGTCTCAAG-G-GACATGAAATTTGT
1 TTCAAGAGAAACTGTCTCAAGAGAGACA--AAATTTGT
* * *
398876 TTCAAG-GAAAACAGAT-TC-A-A-AG----ATTTTAT
1 TTCAAGAG-AAACTG-TCTCAAGAGAGACAAAATTTGT
*
398905 TTCAAGGGAAACTGTCTCAAGAGAGAC-AAATTT-T
1 TTCAAGAGAAACTGTCTCAAGAGAGACAAAATTTGT
*
398939 TTTAAGAGAAACTGTCTCAAGAGAGACAAAACTTTGT
1 TTCAAGAGAAACTGTCTCAAGAGAGACAAAA-TTTGT
398976 TT
1 TT
398978 TGAGTAAATT
Statistics
Matches: 306, Mismatches: 45, Indels: 70
0.73 0.11 0.17
Matches are distributed among these distances:
28 2 0.01
29 34 0.11
30 4 0.01
31 2 0.01
32 4 0.01
33 2 0.01
34 27 0.09
35 15 0.05
36 125 0.41
37 66 0.22
38 25 0.08
ACGTcount: A:0.42, C:0.13, G:0.18, T:0.27
Consensus pattern (36 bp):
TTCAAGAGAAACTGTCTCAAGAGAGACAAAATTTGT
Found at i:398789 original size:175 final size:172
Alignment explanation
Indices: 398533--398977 Score: 588
Period size: 174 Copynumber: 2.5 Consensus size: 172
398523 GTTTCAAGAG
* * * *
398533 AAACAATTTCAAAGATTGATGCTTC-AAGAGAAATTGTCTCAAGAGAGACAAAACTTTGTTTCAA
1 AAACAAATTCAAAGATT-TTGTTTCAAAG-GAAACTGTCTCAAGAGAGA-AAAA-TTT-TTTCAA
* * *
398597 GGAAAACTGTCTCAAGAGAGACAAAATTTGTTTCAAGAGAAACTGTCTCAAGAGAGT-CAAAGCT
61 GGGAAACTGTCTCAAGAGAGACAAAATTTGTTTCAAGAGAAACTGTCTAAAGAGA-TACAAAACT
* * * *
398661 TAGTTTTCAAAAGAAATTATCTCAAGATAGACGAAATTTGTTTAAAGGA
125 TAG-TTCCAAAAGAAACTATCTCAAGAGACACGAAATTTGTTTAAAGGA
*
398710 AAACAAATTCAAAGATTTTGTTTCAAAGGAAACTGTCTCAAGAGAGATAAAATTTAATTCAAGGG
1 AAACAAATTCAAAGATTTTGTTTCAAAGGAAACTGTCTCAAGAGAGA-AAAATTT-TTTCAAGGG
398775 AAACTGTCTCAAGAGAGACAAAATTTGTTTCAAGAGAAACTGTCTAAAGAGATACAAAACTTAGT
64 AAACTGTCTCAAGAGAGACAAAATTTGTTTCAAGAGAAACTGTCTAAAGAGATACAAAACTTAGT
* * * *
398840 TCCAAAAGAAACTGTCTCAAGGGACATGAAATTTGTTTCAAGGA
129 TCCAAAAGAAACTATCTCAAGAGACACGAAATTTGTTTAAAGGA
* * * * * *
398884 AAACAGATTCAAAGATTTTATTTCAAGGGAAACTGTCTCAAGAGAGACAAATTTTTTTAAGAGAA
1 AAACAAATTCAAAGATTTTGTTTCAAAGGAAACTGTCTCAAGAGAGAAAAATTTTTTCAAGGGAA
398949 ACTGTCTCAAGAGAGACAAAACTTTGTTT
66 ACTGTCTCAAGAGAGACAAAA-TTTGTTT
398978 TGAGTAAATT
Statistics
Matches: 240, Mismatches: 25, Indels: 10
0.87 0.09 0.04
Matches are distributed among these distances:
172 29 0.12
173 13 0.05
174 82 0.34
175 70 0.29
176 27 0.11
177 19 0.08
ACGTcount: A:0.42, C:0.13, G:0.18, T:0.27
Consensus pattern (172 bp):
AAACAAATTCAAAGATTTTGTTTCAAAGGAAACTGTCTCAAGAGAGAAAAATTTTTTCAAGGGAA
ACTGTCTCAAGAGAGACAAAATTTGTTTCAAGAGAAACTGTCTAAAGAGATACAAAACTTAGTTC
CAAAAGAAACTATCTCAAGAGACACGAAATTTGTTTAAAGGA
Found at i:398950 original size:34 final size:36
Alignment explanation
Indices: 398898--398968 Score: 119
Period size: 34 Copynumber: 2.0 Consensus size: 36
398888 AGATTCAAAG
*
398898 ATTTTATTTCAAGGGAAACTGTCTCAAGAGAGACAA
1 ATTTTATTTCAAGAGAAACTGTCTCAAGAGAGACAA
398934 ATTTT-TTT-AAGAGAAACTGTCTCAAGAGAGACAA
1 ATTTTATTTCAAGAGAAACTGTCTCAAGAGAGACAA
398968 A
1 A
398969 ACTTTGTTTT
Statistics
Matches: 34, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
34 26 0.76
35 3 0.09
36 5 0.15
ACGTcount: A:0.41, C:0.13, G:0.18, T:0.28
Consensus pattern (36 bp):
ATTTTATTTCAAGAGAAACTGTCTCAAGAGAGACAA
Found at i:400486 original size:95 final size:95
Alignment explanation
Indices: 400355--400552 Score: 333
Period size: 95 Copynumber: 2.1 Consensus size: 95
400345 TGTATAGATG
*
400355 TTATAATCACCTTTATCAGGCTAGCTGAATATTATCCATAAAGCCGGGGCGTTTAACCAATTGCT
1 TTATAATCACCTTTATCAGGCTAGCTGAATATTATCCATAAAGCCGAGGCGTTTAACCAATTGCT
*
400420 CTAGAGGGACAACTCAAGCTTTATTGTACA
66 CTAGAGGGACAACTAAAGCTTTATTGTACA
* *
400450 TTATAATCACCTTTATTAGGCTAGCTGAATCTTATCCATAAAGCCGAGGCGTTTAACCAATTGCT
1 TTATAATCACCTTTATCAGGCTAGCTGAATATTATCCATAAAGCCGAGGCGTTTAACCAATTGCT
* *
400515 TTAGAGGGACAACTAAAGCTTTATTGTATA
66 CTAGAGGGACAACTAAAGCTTTATTGTACA
400545 TATATAAT
1 T-TATAAT
400553 ATTATAATTT
Statistics
Matches: 96, Mismatches: 6, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
95 90 0.94
96 6 0.06
ACGTcount: A:0.32, C:0.19, G:0.17, T:0.33
Consensus pattern (95 bp):
TTATAATCACCTTTATCAGGCTAGCTGAATATTATCCATAAAGCCGAGGCGTTTAACCAATTGCT
CTAGAGGGACAACTAAAGCTTTATTGTACA
Found at i:404637 original size:23 final size:24
Alignment explanation
Indices: 404611--404671 Score: 70
Period size: 23 Copynumber: 2.5 Consensus size: 24
404601 TGGAGAACAA
* * *
404611 ATAAAATAATAAAACAAATAA-AC
1 ATAAAATAATAAAAAAAAAAAGAA
404634 ATAAAATAATACAAAAAAAAAAGAA
1 ATAAAATAATA-AAAAAAAAAAGAA
404659 ATAATAATAATAA
1 ATAA-AATAATAA
404672 TAATAATAAT
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
23 11 0.34
24 8 0.25
25 6 0.19
26 7 0.22
ACGTcount: A:0.75, C:0.05, G:0.02, T:0.18
Consensus pattern (24 bp):
ATAAAATAATAAAAAAAAAAAGAA
Found at i:404664 original size:3 final size:3
Alignment explanation
Indices: 404658--404699 Score: 84
Period size: 3 Copynumber: 14.0 Consensus size: 3
404648 AAAAAAAAGA
404658 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
404700 GAGAAGAAAA
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 39 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:404911 original size:10 final size:10
Alignment explanation
Indices: 404873--404920 Score: 51
Period size: 10 Copynumber: 4.6 Consensus size: 10
404863 AAATATTATG
*
404873 TAAAAATAAA
1 TAAATATAAA
404883 TAAATATATACA
1 TAAATATA-A-A
* *
404895 CATATATAAA
1 TAAATATAAA
404905 TAAATATAAA
1 TAAATATAAA
404915 TAAATA
1 TAAATA
404921 ATAATATTAT
Statistics
Matches: 31, Mismatches: 5, Indels: 4
0.77 0.12 0.10
Matches are distributed among these distances:
10 22 0.71
11 2 0.06
12 7 0.23
ACGTcount: A:0.67, C:0.04, G:0.00, T:0.29
Consensus pattern (10 bp):
TAAATATAAA
Found at i:404921 original size:18 final size:18
Alignment explanation
Indices: 404876--404921 Score: 56
Period size: 18 Copynumber: 2.6 Consensus size: 18
404866 TATTATGTAA
*
404876 AAATAAATAAATATATAC
1 AAATAAATAAATAAATAC
* * *
404894 ACATATATAAATAAATAT
1 AAATAAATAAATAAATAC
404912 AAATAAATAA
1 AAATAAATAA
404922 TAATATTATT
Statistics
Matches: 22, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.67, C:0.04, G:0.00, T:0.28
Consensus pattern (18 bp):
AAATAAATAAATAAATAC
Found at i:404985 original size:20 final size:20
Alignment explanation
Indices: 404956--404998 Score: 52
Period size: 19 Copynumber: 2.1 Consensus size: 20
404946 AATTAATTTG
404956 AAAATAAATAGAAATAAATAA
1 AAAATAAATAGAAA-AAATAA
* *
404977 AAAAT-AATATAAAAAGTAA
1 AAAATAAATAGAAAAAATAA
404996 AAA
1 AAA
404999 TAACCATAAC
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
19 8 0.40
20 7 0.35
21 5 0.25
ACGTcount: A:0.77, C:0.00, G:0.05, T:0.19
Consensus pattern (20 bp):
AAAATAAATAGAAAAAATAA
Found at i:419395 original size:30 final size:29
Alignment explanation
Indices: 419356--419425 Score: 72
Period size: 30 Copynumber: 2.3 Consensus size: 29
419346 AAAGTTTTTA
* *
419356 AAAATATATATATACATA-ACTTAACTACAT
1 AAAACATATATATACATACACAT-AC-ACAT
419386 AAAACATATAAATATACATACACATACACAT
1 AAAACATAT--ATATACATACACATACACAT
419417 -AAACATATA
1 AAAACATATA
419426 CATATAAATA
Statistics
Matches: 35, Mismatches: 2, Indels: 8
0.78 0.04 0.18
Matches are distributed among these distances:
28 1 0.03
30 16 0.46
31 4 0.11
32 11 0.31
33 3 0.09
ACGTcount: A:0.57, C:0.16, G:0.00, T:0.27
Consensus pattern (29 bp):
AAAACATATATATACATACACATACACAT
Found at i:419395 original size:32 final size:31
Alignment explanation
Indices: 419354--419431 Score: 90
Period size: 32 Copynumber: 2.5 Consensus size: 31
419344 AAAAAGTTTT
* *
419354 TAAAA-ATATATATATACATA-ACTTAACTACA
1 TAAAACATATAAATATACATACACAT-AC-ACA
419385 TAAAACATATAAATATACATACACATACACA
1 TAAAACATATAAATATACATACACATACACA
*
419416 T-AAACATATACATATA
1 TAAAACATATAAATATA
419432 AATATTTAAT
Statistics
Matches: 42, Mismatches: 3, Indels: 5
0.84 0.06 0.10
Matches are distributed among these distances:
30 14 0.33
31 9 0.21
32 16 0.38
33 3 0.07
ACGTcount: A:0.56, C:0.15, G:0.00, T:0.28
Consensus pattern (31 bp):
TAAAACATATAAATATACATACACATACACA
Found at i:419430 original size:6 final size:6
Alignment explanation
Indices: 419389--419436 Score: 51
Period size: 6 Copynumber: 8.0 Consensus size: 6
419379 ACTACATAAA
* * * * *
419389 ACATAT AAATAT ACATAC ACATAC ACATAA ACATAT ACATAT AAATAT
1 ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT
419437 TTAATATGGC
Statistics
Matches: 36, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
6 36 1.00
ACGTcount: A:0.56, C:0.17, G:0.00, T:0.27
Consensus pattern (6 bp):
ACATAT
Found at i:420715 original size:3 final size:3
Alignment explanation
Indices: 420707--420731 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
420697 ATAAAAAGAT
420707 TAA TAA TAA TAA TAA TAA TAA TAA T
1 TAA TAA TAA TAA TAA TAA TAA TAA T
420732 TAAGATTATA
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:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (3 bp):
TAA
Found at i:425709 original size:18 final size:18
Alignment explanation
Indices: 425686--425741 Score: 51
Period size: 18 Copynumber: 3.1 Consensus size: 18
425676 ATAACTTTGC
425686 TACATAAAACATATAATA
1 TACATAAAACATATAATA
* *
425704 TACAT-ACACATAAACATA
1 TACATAAAACATATA-ATA
* *
425722 TACATATAAATATTTAATA
1 TACATA-AAACATATAATA
425741 T
1 T
425742 GGCATCACTT
Statistics
Matches: 29, Mismatches: 6, Indels: 5
0.73 0.15 0.12
Matches are distributed among these distances:
17 7 0.24
18 13 0.45
19 4 0.14
20 5 0.17
ACGTcount: A:0.55, C:0.12, G:0.00, T:0.32
Consensus pattern (18 bp):
TACATAAAACATATAATA
Found at i:425734 original size:12 final size:13
Alignment explanation
Indices: 425686--425734 Score: 52
Period size: 12 Copynumber: 4.1 Consensus size: 13
425676 ATAACTTTGC
*
425686 TACATAAAACATA
1 TACATATAACATA
425699 TA-ATAT-ACATA
1 TACATATAACATA
*
425710 CACATA-AACATA
1 TACATATAACATA
425722 TACATATAA-ATA
1 TACATATAACATA
425734 T
1 T
425735 TTAATATGGC
Statistics
Matches: 30, Mismatches: 3, Indels: 7
0.75 0.08 0.17
Matches are distributed among these distances:
11 6 0.20
12 20 0.67
13 4 0.13
ACGTcount: A:0.57, C:0.14, G:0.00, T:0.29
Consensus pattern (13 bp):
TACATATAACATA
Found at i:426782 original size:76 final size:75
Alignment explanation
Indices: 426632--426817 Score: 255
Period size: 76 Copynumber: 2.5 Consensus size: 75
426622 TAAAGCCAAA
* * * * * *
426632 AATTCTAGATTGCTCAGTGGGAACCGATTCCCCCCATAGGAGGAACCGATTCCCCCCTGAATGGT
1 AATTCCAGAATGCTCGGAGGGAACCGATT-CCCCCATAGGAGGAACCGATTCCCCCCTAAAAGGT
426697 TTGGCTCCGAG
65 TTGGCTCCGAG
* *
426708 ATTTCCAGAATGCTCGGAGGGAACCGATTCCCCCATAGGAGGAACCGATTCCCCCCTAAACAGTT
1 AATTCCAGAATGCTCGGAGGGAACCGATTCCCCCATAGGAGGAACCGATTCCCCCCTAAA-AGGT
* *
426773 TTTGTTCCGAG
65 TTGGCTCCGAG
*
426784 AATTCCAGTATGCTCGGAGGGAACCGATTCCCCC
1 AATTCCAGAATGCTCGGAGGGAACCGATTCCCCC
426818 CTGTTCAACG
Statistics
Matches: 97, Mismatches: 12, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
75 30 0.31
76 67 0.69
ACGTcount: A:0.24, C:0.30, G:0.24, T:0.23
Consensus pattern (75 bp):
AATTCCAGAATGCTCGGAGGGAACCGATTCCCCCATAGGAGGAACCGATTCCCCCCTAAAAGGTT
TGGCTCCGAG
Found at i:432614 original size:21 final size:22
Alignment explanation
Indices: 432599--432671 Score: 78
Period size: 21 Copynumber: 3.4 Consensus size: 22
432589 AGGAAATCGA
432599 TCCCCCCTTGA-GGGAACCGAT
1 TCCCCCCTTGAGGGGAACCGAT
*
432620 TCCCCCTTTGAAGGGGAACCGAT
1 TCCCCCCTTG-AGGGGAACCGAT
** *
432643 TCCCCCC-ACAGGGGAATCGAT
1 TCCCCCCTTGAGGGGAACCGAT
*
432664 ACCCCCCT
1 TCCCCCCT
432672 GGGGTTCTGT
Statistics
Matches: 43, Mismatches: 6, Indels: 5
0.80 0.11 0.09
Matches are distributed among these distances:
21 26 0.60
22 1 0.02
23 16 0.37
ACGTcount: A:0.21, C:0.40, G:0.22, T:0.18
Consensus pattern (22 bp):
TCCCCCCTTGAGGGGAACCGAT
Found at i:435341 original size:76 final size:76
Alignment explanation
Indices: 435210--435418 Score: 260
Period size: 76 Copynumber: 2.8 Consensus size: 76
435200 TAAAGCCAAA
* * * *
435210 AATTCCAGATTGCTCAGAGGGAACCGATTCCCCCCATAGGAGGAACCGATTCCCCCCTGAA-TGG
1 AATTCCAGAATGCTCGGAGGGAACCGATT-CCCCCATAGGAGGAACCGATTCCCCCCTAAACAGG
435274 TTTGGCTCCGAG
65 TTTGGCTCCGAG
* * *
435286 ATTTCCAGAATGCTCGGAGGGAACCGATTCCCCTATAGGAGGAACCGATTCCCCCCTAAACAGTT
1 AATTCCAGAATGCTCGGAGGGAACCGATTCCCCCATAGGAGGAACCGATTCCCCCCTAAACAGGT
* * *
435351 TTTGTTCTGAG
66 TTGGCTCCGAG
* * * *
435362 AATTCCAGTATGCTCGGAGGGAACCGATCCCCCCCA-AGGGGGTACCGATTCCCCCCT
1 AATTCCAGAATGCTCGGAGGGAACCGAT-TCCCCCATAGGAGGAACCGATTCCCCCCT
435419 GTTCAACGGT
Statistics
Matches: 115, Mismatches: 16, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
75 29 0.25
76 81 0.70
77 5 0.04
ACGTcount: A:0.23, C:0.31, G:0.24, T:0.22
Consensus pattern (76 bp):
AATTCCAGAATGCTCGGAGGGAACCGATTCCCCCATAGGAGGAACCGATTCCCCCCTAAACAGGT
TTGGCTCCGAG
Found at i:439391 original size:12 final size:12
Alignment explanation
Indices: 439356--439398 Score: 50
Period size: 12 Copynumber: 3.5 Consensus size: 12
439346 ATAACTTAGC
439356 TACATAAAACATA
1 TACAT-AAACATA
* *
439369 TAAATATACATA
1 TACATAAACATA
*
439381 CACATAAACATA
1 TACATAAACATA
439393 TACATA
1 TACATA
439399 TAAATATTTA
Statistics
Matches: 24, Mismatches: 6, Indels: 1
0.77 0.19 0.03
Matches are distributed among these distances:
12 20 0.83
13 4 0.17
ACGTcount: A:0.58, C:0.16, G:0.00, T:0.26
Consensus pattern (12 bp):
TACATAAACATA
Found at i:440699 original size:14 final size:14
Alignment explanation
Indices: 440680--440706 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
440670 ATAAAAAGAT
440680 TAATAATAATAATA
1 TAATAATAATAATA
440694 TAATAATAATAAT
1 TAATAATAATAAT
440707 TAAGATTATA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (14 bp):
TAATAATAATAATA
Found at i:441949 original size:31 final size:29
Alignment explanation
Indices: 441914--441975 Score: 72
Period size: 31 Copynumber: 2.1 Consensus size: 29
441904 AAGTTTTAAA
441914 AAAATTAAAAGTTTAGA-TATTAAAACATATT
1 AAAATTAAAAGTTTA-ATTATT-AAACAT-TT
* *
441945 AAAATTGATAGTTTAATTATTAAACATTT
1 AAAATTAAAAGTTTAATTATTAAACATTT
441974 AA
1 AA
441976 TTTATTCTAT
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
29 4 0.14
30 7 0.25
31 17 0.61
ACGTcount: A:0.52, C:0.03, G:0.06, T:0.39
Consensus pattern (29 bp):
AAAATTAAAAGTTTAATTATTAAACATTT
Found at i:442981 original size:3 final size:3
Alignment explanation
Indices: 442973--443303 Score: 202
Period size: 3 Copynumber: 112.7 Consensus size: 3
442963 ACATTGCATT
*
442973 AAG AAG AAG AAG AAG AAG AAG -AG AAG AAG AAG AAG AAG GAG AAG AAG
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
* * * * * *
443020 AAG AAG GAG AAG AAG AAG AAG GAG AAG AAG GAG GAG GAG GAG AAG AAG
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
* * * * * *
443068 GAG AAG GAG AAG GAG AAG GAG AAG AATG -AG AAT AAG GAG AAG AAG
1 AAG AAG AAG AAG AAG AAG AAG AAG AA-G AAG AAG AAG AAG AAG AAG
* * * * * * * * *
443113 CATG -AG AAG GAG AAG AAG CAG CAG GAG AAG GAG CAG GAG AAG CAG
1 -AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
* * * * *
443158 AAG -AG GAG AGG GAG AAG AAAG AAG GAG AAAG AAG AAG AA- AAGG AAA
1 AAG AAG AAG AAG AAG AAG -AAG AAG AAG -AAG AAG AAG AAG AA-G AAG
* **
443204 AAT AAG -AG AAG AAAG AAG -AG AAG AAG AAG AAG GTG AA- AAG AA-
1 AAG AAG AAG AAG -AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
* ** *
443246 AGG AA- AAG AAG AAG AAG GTG AAG -AG AA- AAG -AG AAG AAG GAG AAG
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
*
443290 AAA AAG AAG AAG AA
1 AAG AAG AAG AAG AA
443304 CCTTTACCCA
Statistics
Matches: 252, Mismatches: 57, Indels: 38
0.73 0.16 0.11
Matches are distributed among these distances:
2 23 0.09
3 216 0.86
4 13 0.05
ACGTcount: A:0.58, C:0.02, G:0.39, T:0.02
Consensus pattern (3 bp):
AAG
Found at i:442983 original size:23 final size:23
Alignment explanation
Indices: 442931--442977 Score: 94
Period size: 23 Copynumber: 2.0 Consensus size: 23
442921 ATCCCCATTG
442931 ACGAGAAACACATTGCATTAAGA
1 ACGAGAAACACATTGCATTAAGA
442954 ACGAGAAACACATTGCATTAAGA
1 ACGAGAAACACATTGCATTAAGA
442977 A
1 A
442978 GAAGAAGAAG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.49, C:0.17, G:0.17, T:0.17
Consensus pattern (23 bp):
ACGAGAAACACATTGCATTAAGA
Found at i:444022 original size:3 final size:3
Alignment explanation
Indices: 444014--444092 Score: 79
Period size: 3 Copynumber: 25.7 Consensus size: 3
444004 TTCATTTAAA
* * *
444014 TAT TAT TAT TAT TAT TAT TAT TAT AAT TAT AAT TACT AAT T-T TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA-T TAT TAT TAT
* *
444059 TATT TAT TAC TAA TAT TAT TAT TAAT TAT TAT TA
1 TA-T TAT TAT TAT TAT TAT TAT T-AT TAT TAT TA
444093 CAAACGGGCC
Statistics
Matches: 63, Mismatches: 9, Indels: 8
0.79 0.11 0.10
Matches are distributed among these distances:
2 2 0.03
3 53 0.84
4 8 0.13
ACGTcount: A:0.38, C:0.03, G:0.00, T:0.59
Consensus pattern (3 bp):
TAT
Found at i:444069 original size:19 final size:19
Alignment explanation
Indices: 444017--444086 Score: 81
Period size: 19 Copynumber: 3.8 Consensus size: 19
444007 ATTTAAATAT
* *
444017 TATTATTATT-ATTATTAT
1 TATTATTATTAATTACTAA
*
444035 TATAATTA-TAATTACTAA
1 TATTATTATTAATTACTAA
* *
444053 TTTTATTATTTATTACTAA
1 TATTATTATTAATTACTAA
444072 TATTATTATTAATTA
1 TATTATTATTAATTA
444087 TTATTACAAA
Statistics
Matches: 42, Mismatches: 8, Indels: 3
0.79 0.15 0.06
Matches are distributed among these distances:
17 1 0.02
18 19 0.45
19 22 0.52
ACGTcount: A:0.39, C:0.03, G:0.00, T:0.59
Consensus pattern (19 bp):
TATTATTATTAATTACTAA
Found at i:446110 original size:7 final size:7
Alignment explanation
Indices: 446098--446149 Score: 59
Period size: 7 Copynumber: 6.9 Consensus size: 7
446088 CTTTCAATTT
446098 TTTATTA
1 TTTATTA
446105 TTTATTA
1 TTTATTA
*
446112 TTTTTATA
1 TTTAT-TA
446120 TATTATTA
1 T-TTATTA
446128 TTTATTA
1 TTTATTA
446135 TTTTATTTA
1 -TTTA-TTA
446144 TTTATT
1 TTTATT
446150 TTATTCAAGA
Statistics
Matches: 39, Mismatches: 2, Indels: 8
0.80 0.04 0.16
Matches are distributed among these distances:
7 19 0.49
8 14 0.36
9 6 0.15
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (7 bp):
TTTATTA
Found at i:446117 original size:16 final size:16
Alignment explanation
Indices: 446096--446151 Score: 60
Period size: 16 Copynumber: 3.2 Consensus size: 16
446086 TTCTTTCAAT
446096 TTTTTATTATTTATTA
1 TTTTTATTATTTATTA
446112 TTTTTA-TATATTATTA
1 TTTTTATTAT-TTATTA
446128 TTTATTATTTTATTTATTTA
1 TTT-TTA--TTATTTA-TTA
446148 TTTT
1 TTTT
446152 ATTCAAGAAT
Statistics
Matches: 34, Mismatches: 0, Indels: 9
0.79 0.00 0.21
Matches are distributed among these distances:
15 3 0.09
16 15 0.44
17 3 0.09
19 4 0.12
20 9 0.26
ACGTcount: A:0.25, C:0.00, G:0.00, T:0.75
Consensus pattern (16 bp):
TTTTTATTATTTATTA
Found at i:446118 original size:13 final size:14
Alignment explanation
Indices: 446102--446154 Score: 69
Period size: 13 Copynumber: 4.1 Consensus size: 14
446092 CAATTTTTTA
446102 TTATTTATTATT-T
1 TTATTTATTATTAT
*
446115 TTATATATTATTAT
1 TTATTTATTATTAT
446129 TTA-TTATT-TTAT
1 TTATTTATTATTAT
446141 TTATTTATT-TTAT
1 TTATTTATTATTAT
446154 T
1 T
446155 CAAGAATTAA
Statistics
Matches: 36, Mismatches: 2, Indels: 4
0.86 0.05 0.10
Matches are distributed among these distances:
12 7 0.19
13 25 0.69
14 4 0.11
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (14 bp):
TTATTTATTATTAT
Found at i:446125 original size:20 final size:20
Alignment explanation
Indices: 446094--446154 Score: 67
Period size: 20 Copynumber: 3.1 Consensus size: 20
446084 TTTTCTTTCA
*
446094 ATTTTTTATTATTTATTATT
1 ATTTTATATTATTTATTATT
446114 -TTTATATATTA-TTATTTATT
1 ATTT-TATATTATTTA-TTATT
446134 ATTTTAT-TTATTTATT-TT
1 ATTTTATATTATTTATTATT
446152 ATT
1 ATT
446155 CAAGAATTAA
Statistics
Matches: 36, Mismatches: 1, Indels: 10
0.77 0.02 0.21
Matches are distributed among these distances:
18 5 0.14
19 11 0.31
20 17 0.47
21 3 0.08
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (20 bp):
ATTTTATATTATTTATTATT
Found at i:446148 original size:23 final size:23
Alignment explanation
Indices: 446094--446149 Score: 80
Period size: 23 Copynumber: 2.5 Consensus size: 23
446084 TTTTCTTTCA
446094 ATTT-TTTATTATTTATTATTTT
1 ATTTATTTATTATTTATTATTTT
*
446116 -TATATATTATTATTTATTATTTT
1 ATTTAT-TTATTATTTATTATTTT
446139 ATTTATTTATT
1 ATTTATTTATT
446150 TTATTCAAGA
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
21 2 0.07
22 1 0.03
23 22 0.76
24 4 0.14
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (23 bp):
ATTTATTTATTATTTATTATTTT
Found at i:450432 original size:72 final size:72
Alignment explanation
Indices: 450341--450475 Score: 234
Period size: 72 Copynumber: 1.9 Consensus size: 72
450331 ATACAATAAA
* *
450341 GCTTGAGTTATCCCCCTAAAGCAATTGGTTAATAGCCCTGGCTTTATGGATAATATTCAGCTAGT
1 GCTTGAGTTATCCCCCTAAAGCAATTGGTTAATAGCCCCGGCTTTATGGATAATAGTCAGCTAGT
450406 CTGTTAT
66 CTGTTAT
* *
450413 GCTTGAGTTGTCCCTCTAAAGCAATTGGTTAATAGCCCCGGCTTTATGGATAATAGTCAGCTA
1 GCTTGAGTTATCCCCCTAAAGCAATTGGTTAATAGCCCCGGCTTTATGGATAATAGTCAGCTA
450476 ACCCATTATA
Statistics
Matches: 59, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
72 59 1.00
ACGTcount: A:0.25, C:0.20, G:0.21, T:0.34
Consensus pattern (72 bp):
GCTTGAGTTATCCCCCTAAAGCAATTGGTTAATAGCCCCGGCTTTATGGATAATAGTCAGCTAGT
CTGTTAT
Found at i:452791 original size:114 final size:114
Alignment explanation
Indices: 452582--452898 Score: 467
Period size: 114 Copynumber: 2.8 Consensus size: 114
452572 AGAATAATGT
*
452582 GCTC-ATAGTATCTTCTGGAAGTGTTCTTTGAATTATCTAATCTGATTTGGTATGAACTCCAAAA
1 GCTCAATAGCATCTTCTGGAAGTGTTCTTTGAATTATCTAATCTGATTTGGTATGAACTCCAAAA
* *
452646 TCAATCATTGAATTTGGAAGATGAATTTGCTCATGGTAGAAATAAGGAG
66 TCAATCATTGAATTTGAAAGATGAATTTGCTCATAGTAGAAATAAGGAG
452695 GCTCAATAGCATCTTCTGGAAGTGTTCTTTGAATTATCTAATCTGATTTGGTATGAACTCCAAAA
1 GCTCAATAGCATCTTCTGGAAGTGTTCTTTGAATTATCTAATCTGATTTGGTATGAACTCCAAAA
*
452760 TCAATCATTGGATTTGAAAGATGAATTTGCTCATAGTAGAAATAAGGAG
66 TCAATCATTGAATTTGAAAGATGAATTTGCTCATAGTAGAAATAAGGAG
* * * * * * * * * *
452809 ACCCAATAGCATTTTCTGGAAGTATTCTTTGAGTTATCTGATCTGGTTCGGTAGGAA-TCCCATA
1 GCTCAATAGCATCTTCTGGAAGTGTTCTTTGAATTATCTAATCTGATTTGGTATGAACT-CCAAA
* *
452873 ACCAATCATTGAAATTGAAAGATGAA
65 ATCAATCATTGAATTTGAAAGATGAA
452899 CTGCATGATC
Statistics
Matches: 185, Mismatches: 17, Indels: 3
0.90 0.08 0.01
Matches are distributed among these distances:
113 5 0.03
114 180 0.97
ACGTcount: A:0.32, C:0.14, G:0.20, T:0.34
Consensus pattern (114 bp):
GCTCAATAGCATCTTCTGGAAGTGTTCTTTGAATTATCTAATCTGATTTGGTATGAACTCCAAAA
TCAATCATTGAATTTGAAAGATGAATTTGCTCATAGTAGAAATAAGGAG
Found at i:455085 original size:40 final size:40
Alignment explanation
Indices: 455030--455109 Score: 142
Period size: 40 Copynumber: 2.0 Consensus size: 40
455020 TGAGCAGAGT
455030 CCACAGAAAAGGATGAATGCGTTGTCAAATGTTTTACATC
1 CCACAGAAAAGGATGAATGCGTTGTCAAATGTTTTACATC
* *
455070 CCACAGAAAAGGATGAATGTGTTGTCAAGTGTTTTACATC
1 CCACAGAAAAGGATGAATGCGTTGTCAAATGTTTTACATC
455110 TAAGCTGAAA
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
40 38 1.00
ACGTcount: A:0.34, C:0.16, G:0.21, T:0.29
Consensus pattern (40 bp):
CCACAGAAAAGGATGAATGCGTTGTCAAATGTTTTACATC
Found at i:455528 original size:22 final size:22
Alignment explanation
Indices: 455497--455551 Score: 67
Period size: 22 Copynumber: 2.5 Consensus size: 22
455487 ATCTACACTC
**
455497 TTCAAAGATGGTAGATTC-CTTT
1 TTCAAAGATGACAGATTCTC-TT
*
455519 TTTAAAGATGACAGATTCTCTT
1 TTCAAAGATGACAGATTCTCTT
455541 TTCAAAGATGA
1 TTCAAAGATGA
455552 AAGCTTTATC
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
22 27 0.96
23 1 0.04
ACGTcount: A:0.33, C:0.13, G:0.16, T:0.38
Consensus pattern (22 bp):
TTCAAAGATGACAGATTCTCTT
Found at i:456149 original size:113 final size:113
Alignment explanation
Indices: 455968--457248 Score: 2313
Period size: 113 Copynumber: 11.4 Consensus size: 113
455958 CCATCATTCA
* * * *
455968 ATGGATCAACATTTCCAGAG-AGAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAG
1 ATGGATTATCATTGCCAGAGAAG-GTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAA
* * ** *
456032 TTCATAATGAGAAGAACTTGTTCAACTTTTTGTTCAAATCCATCA-TCTG
65 TTCATAATGAGAAGAATTTGTTCAACCTTTTGTTTGAATTCATCACT-TG
*
456081 ATGGATCATCATTGCCAGAGAAGGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAAT
1 ATGGATTATCATTGCCAGAGAAGGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAAT
** *
456146 TCATAATGAGAAGAATTTGTTCAACCTTTTGTTCAAATCCATCA-TCTG
66 TCATAATGAGAAGAATTTGTTCAACCTTTTGTTTGAATTCATCACT-TG
*
456194 ATGGATCATCATTGCCAGAGAAGGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAAT
1 ATGGATTATCATTGCCAGAGAAGGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAAT
456259 TCATAATGAGAAGAATTTGTTCAACCTTTTGTTTGAATTCATCACTTG
66 TCATAATGAGAAGAATTTGTTCAACCTTTTGTTTGAATTCATCACTTG
*
456307 ATGGATTATCATTGCCAGAGAAGGTTCATGATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAAT
1 ATGGATTATCATTGCCAGAGAAGGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAAT
456372 TCATAATGAGAAGAATTTGTTCAACCTTTTGTTTGAATTCATCACTTG
66 TCATAATGAGAAGAATTTGTTCAACCTTTTGTTTGAATTCATCACTTG
456420 ATGGATTATCATTGCCAGAGAAGGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAA-AAAT
1 ATGGATTATCATTGCCAGAGAAGGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAAT
456484 TCATAATGAGAAGAATTTGTTCAACCTTTTGTTTGAATTCATCACTTG
66 TCATAATGAGAAGAATTTGTTCAACCTTTTGTTTGAATTCATCACTTG
* *
456532 ATGGATTATCATTGCCAGAGAAGGTTAATAATGAGAAGAAATCATCTGAAGAAGGAAGAAGAAAT
1 ATGGATTATCATTGCCAGAGAAGGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAAT
456597 TCATAATGAGAAGAATTTGTTCAACCTTTTGTTTGAATTCATCACTTG
66 TCATAATGAGAAGAATTTGTTCAACCTTTTGTTTGAATTCATCACTTG
456645 ATGGATTATCATTGCCAGAGAAGGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAAT
1 ATGGATTATCATTGCCAGAGAAGGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAAT
456710 TCATAATGAGAAGAATTTGTTCAACCTTTTGTTTGAATTCATCACTTG
66 TCATAATGAGAAGAATTTGTTCAACCTTTTGTTTGAATTCATCACTTG
456758 ATGGATTATCATTGCCAGAGAAGGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAG-AGAAAG
1 ATGGATTATCATTGCCAGAGAAGGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAA-
456822 TTCATAATGAGAAGAATTTGTTCAACCTTTTGTTTGAATTCATCACTTG
65 TTCATAATGAGAAGAATTTGTTCAACCTTTTGTTTGAATTCATCACTTG
456871 ATGGATTATCATTGCCAGAGAAGGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAAT
1 ATGGATTATCATTGCCAGAGAAGGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAAT
456936 TCATAATGAGAAGAATTTGTTCAACCTTTTGTTTGAATTCATCACTTG
66 TCATAATGAGAAGAATTTGTTCAACCTTTTGTTTGAATTCATCACTTG
*
456984 ATGGATTATCATTGCCAGAGAAGGTTCATAATGAGAAGAACTCATCTGAAGAATGAAGAAGAAAT
1 ATGGATTATCATTGCCAGAGAAGGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAAT
457049 TCATAATGAGAAGAATTTGTTCAACCTTTTGTTTGAATTCATCACTTG
66 TCATAATGAGAAGAATTTGTTCAACCTTTTGTTTGAATTCATCACTTG
457097 ATGGATTATCATTGCCAGAGAAGGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAG-AAT
1 ATGGATTATCATTGCCAGAGAAGGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAAT
457161 TCATAATGAGAAGAATTTGTTCAACCTTTTGTTTGAATTCATCACTTG
66 TCATAATGAGAAGAATTTGTTCAACCTTTTGTTTGAATTCATCACTTG
*
457209 ATGGATTATCATTGCCAGAGAAAGTTCATAATGAGAAGAA
1 ATGGATTATCATTGCCAGAGAAGGTTCATAATGAGAAGAA
457249 TTTGTTCAAC
Statistics
Matches: 1145, Mismatches: 18, Indels: 11
0.98 0.02 0.01
Matches are distributed among these distances:
112 205 0.18
113 932 0.81
114 8 0.01
ACGTcount: A:0.37, C:0.13, G:0.20, T:0.30
Consensus pattern (113 bp):
ATGGATTATCATTGCCAGAGAAGGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAAT
TCATAATGAGAAGAATTTGTTCAACCTTTTGTTTGAATTCATCACTTG
Found at i:456608 original size:24 final size:23
Alignment explanation
Indices: 456565--456609 Score: 56
Period size: 24 Copynumber: 1.9 Consensus size: 23
456555 GTTAATAATG
*
456565 AGAAGAAATCATCTGAAGAAGGA
1 AGAAGAAATCATATGAAGAAGGA
456588 AGAAGAAATTCATAATG-AGAAG
1 AGAAGAAA-TCAT-ATGAAGAAG
456610 AATTTGTTCA
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
23 8 0.42
24 9 0.47
25 2 0.11
ACGTcount: A:0.53, C:0.07, G:0.24, T:0.16
Consensus pattern (23 bp):
AGAAGAAATCATATGAAGAAGGA
Found at i:457283 original size:73 final size:73
Alignment explanation
Indices: 457160--457321 Score: 263
Period size: 73 Copynumber: 2.2 Consensus size: 73
457150 GGAAGAAGAA
* * *
457160 TTCATAATGAGAAGAATTTGTTCAACCTTTTGTTTGAATTCATCACTTGATGGATTATCATTGCC
1 TTCATAATGAGAAGAATTTGTTCAACCTTTTGCTTGAATTCATCACTTGATGGATCAACATTGCC
457225 AGAG-AAAG
66 AG-GTAAAG
*
457233 TTCATAATGAGAAGAATTTGTTCAACCTTTTGCTTGAATTCATCATTTGATGGATCAACATTGCC
1 TTCATAATGAGAAGAATTTGTTCAACCTTTTGCTTGAATTCATCACTTGATGGATCAACATTGCC
*
457298 AGGTAGAG
66 AGGTAAAG
457306 TTCATAATGAGAAGAA
1 TTCATAATGAGAAGAA
457322 CTCGTCATCT
Statistics
Matches: 83, Mismatches: 5, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
72 1 0.01
73 82 0.99
ACGTcount: A:0.33, C:0.14, G:0.19, T:0.35
Consensus pattern (73 bp):
TTCATAATGAGAAGAATTTGTTCAACCTTTTGCTTGAATTCATCACTTGATGGATCAACATTGCC
AGGTAAAG
Found at i:457367 original size:677 final size:675
Alignment explanation
Indices: 455951--457248 Score: 1910
Period size: 677 Copynumber: 1.9 Consensus size: 675
455941 TTAGCAAAGA
* * *
455951 TTCAAATCCATCAT-TCAATGGATCAACATTTCCAGAG-AGAGTTCATAATGAGAAGAACTCATC
1 TTCAAATCCATCATCT-GATGGATCATCATTGCCAGAGAAG-GTTCATAATGAGAAGAACTCATC
* * *
456014 TGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACTTTTTGTTCAAATCCATCATC
64 TGAAGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTGTTCAAATCCATCATC
456079 TGATGGATCATCATTGCCAGAGAAGGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAA
129 TGATGGATCATCATTGCCAGAGAAGGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAA
** * *
456144 ATTCATAATGAGAAGAATTTGTTCAACCTTTTGTTCAAATCCATCA-TCTGATGGATCATCATTG
194 ATTCATAATGAGAAGAATTTGTTCAACCTTTTGTTTGAATTCATCACT-TGATGGATTATCATTG
456208 CCAGAGAAGGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAATTCATAATGAGAAGA
258 CCAGAGAAGGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAATTCATAATGAGAAGA
*
456273 ATTTGTTCAACCTTTTGTTTGAATTCATCACTTGATGGATTATCATTGCCAGAGAAGGTTCATGA
323 ATTTGTTCAACCTTTTGTTTGAATTCATCACTTGATGGATTATCATTGCCAGAGAAGGTTCATAA
456338 TGAGAAGAACTCATCTGAAGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTG
388 TGAGAAGAACTCATCTGAAGAAGGAAGAA-AAATTCATAATGAGAAGAATTTGTTCAACCTTTTG
* * * *
456403 TTTGAATTCATCACTTGATGGATTATCATTGCCAGAGAAGGTTCATAATGAGAAGAACTCATCTG
452 TTTGAATTCATCACTTGATGGATTATCATTGCCAGAGAAAGTTAATAATGAGAAGAAATCATCTC
* * * ** * * * *
456468 AAGAAGGAAGAA-AAATTCATAATGAGAAGAATTTGTTCAACCTTTTGTTTGAATTCATCACTTG
517 AAGAAGGAAGAAGAAATTCATAAT--GAAGAATTGGATCAACATTCAGGTAGAATTCATCAATAG
* * * * * * *
456532 ATGGATTATCATTGCCAGAGAAGGTTAATAATGAGAAGAAATCATCTGAAGAAGGAAGAAGAAAT
580 AAGAATCATCATTGCAAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAAT
*
456597 TCATAATGAGAAGAATTTGTTCAACCTTTTG
645 TCATAATGAGAAGAACTTGTTCAACCTTTTG
** * *
456628 TTTGAATTCATCA-CTTGATGGATTATCATTGCCAGAGAAGGTTCATAATGAGAAGAACTCATCT
1 TTCAAATCCATCATC-TGATGGATCATCATTGCCAGAGAAGGTTCATAATGAGAAGAACTCATCT
** *
456692 GAAGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTGTTTGAATTCATCA-CT
65 GAAGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTGTTCAAATCCATCATC-
*
456756 TGATGGATTATCATTGCCAGAGAAGGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAG-AGAA
129 TGATGGATCATCATTGCCAGAGAAGGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAA
456820 AGTTCATAATGAGAAGAATTTGTTCAACCTTTTGTTTGAATTCATCACTTGATGGATTATCATTG
194 A-TTCATAATGAGAAGAATTTGTTCAACCTTTTGTTTGAATTCATCACTTGATGGATTATCATTG
456885 CCAGAGAAGGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAATTCATAATGAGAAGA
258 CCAGAGAAGGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAATTCATAATGAGAAGA
456950 ATTTGTTCAACCTTTTGTTTGAATTCATCACTTGATGGATTATCATTGCCAGAGAAGGTTCATAA
323 ATTTGTTCAACCTTTTGTTTGAATTCATCACTTGATGGATTATCATTGCCAGAGAAGGTTCATAA
*
457015 TGAGAAGAACTCATCTGAAGAATGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTG
388 TGAGAAGAACTCATCTGAAGAAGGAAGAA-AAATTCATAATGAGAAGAATTTGTTCAACCTTTTG
* * * *
457080 TTTGAATTCATCACTTGATGGATTATCATTGCCAGAGAAGGTTCATAATGAGAAGAACTCATCTG
452 TTTGAATTCATCACTTGATGGATTATCATTGCCAGAGAAAGTTAATAATGAGAAGAAATCATCTC
* * * ** * * * *
457145 AAGAAGGAAGAAG-AATTCATAATGAGAAGAATTTGTTCAACCTTTTGTTTGAATTCATCACTTG
517 AAGAAGGAAGAAGAAATTCATAAT--GAAGAATTGGATCAACATTCAGGTAGAATTCATCAATAG
* * * *
457209 ATGGATTATCATTGCCAGAGAAAGTTCATAATGAGAAGAA
580 AAGAATCATCATTGCAAGAGAAAGTTCATAATGAGAAGAA
457249 TTTGTTCAAC
Statistics
Matches: 592, Mismatches: 22, Indels: 14
0.94 0.04 0.02
Matches are distributed among these distances:
676 6 0.01
677 582 0.98
678 4 0.01
ACGTcount: A:0.37, C:0.13, G:0.20, T:0.30
Consensus pattern (675 bp):
TTCAAATCCATCATCTGATGGATCATCATTGCCAGAGAAGGTTCATAATGAGAAGAACTCATCTG
AAGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTGTTCAAATCCATCATCTG
ATGGATCATCATTGCCAGAGAAGGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAAT
TCATAATGAGAAGAATTTGTTCAACCTTTTGTTTGAATTCATCACTTGATGGATTATCATTGCCA
GAGAAGGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAATTCATAATGAGAAGAATT
TGTTCAACCTTTTGTTTGAATTCATCACTTGATGGATTATCATTGCCAGAGAAGGTTCATAATGA
GAAGAACTCATCTGAAGAAGGAAGAAAAATTCATAATGAGAAGAATTTGTTCAACCTTTTGTTTG
AATTCATCACTTGATGGATTATCATTGCCAGAGAAAGTTAATAATGAGAAGAAATCATCTCAAGA
AGGAAGAAGAAATTCATAATGAAGAATTGGATCAACATTCAGGTAGAATTCATCAATAGAAGAAT
CATCATTGCAAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAATTCATAA
TGAGAAGAACTTGTTCAACCTTTTG
Found at i:457619 original size:3 final size:3
Alignment explanation
Indices: 457611--457707 Score: 115
Period size: 3 Copynumber: 31.7 Consensus size: 3
457601 TTCATTTAAA
*
457611 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT AAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* * * *
457659 AAT TACT AAT T-T TAT TATT TAT TAC TAA TAT TAT TAT TAAT TAT TAT
1 TAT TA-T TAT TAT TAT TA-T TAT TAT TAT TAT TAT TAT T-AT TAT TAT
457706 TA
1 TA
457708 CAAACGGGCC
Statistics
Matches: 81, Mismatches: 9, Indels: 8
0.83 0.09 0.08
Matches are distributed among these distances:
2 2 0.02
3 71 0.88
4 8 0.10
ACGTcount: A:0.37, C:0.02, G:0.00, T:0.61
Consensus pattern (3 bp):
TAT
Found at i:464650 original size:225 final size:225
Alignment explanation
Indices: 464193--464865 Score: 905
Period size: 225 Copynumber: 3.0 Consensus size: 225
464183 ATCAATATTA
* * * * * * *
464193 AAAAATGATAATAAATTCAACACCAACACCATTGTTAATTTTTTAACAATAAG-TGGCTGAAAGA
1 AAAAATGATAATAAACTCCACACCAGCACCATTGATAATTTTTTAATAAT-AGTTGTC-AAAAGA
* * * *
464257 GAACAAGAATATAACGTTAGTTATGACTATAAAATAAAAAATAGTTGAATGACCAAAAACTACTA
64 GAACAAAAATATAACGTTAGCTATGACAATAAAATAAAAAATAGTTGAGTGACCAAAAACTACTA
* * * * *
464322 AGTTAT-AATAGAGTGACCAGATAGATAATTTATTTTAAAAATGAATTAAGAATTTTTAAAAGAC
129 AGTAATGACT-GAGTGACCAAATAGATAATTTATTCTAAAAATGGATTAAGAATTTTTAAAAGAC
*
464386 ACGATAATAAAAAGTGATTATATTATTTAATTG
193 ACAATAATAAAAAGTGATTATATTATTTAATTG
464419 -AAAATGATAATAAACTCCACACCAGCACCATTGATAATTTTTTAATAATAGTTGATCAAAAGAG
1 AAAAATGATAATAAACTCCACACCAGCACCATTGATAATTTTTTAATAATAGTTG-TCAAAAGAG
*
464483 AACAAAAATATAACGTTAGCTATGACAATAAAATAAAAAATAATTGAGTGACCAAAAACTACTAA
65 AACAAAAATATAACGTTAGCTATGACAATAAAATAAAAAATAGTTGAGTGACCAAAAACTACTAA
* * * *
464548 ATAATGACTTAGTGACCAAATAGATAATTTATTCT-AAAATGGATTAAGATTTTTTAAAAGGCAC
130 GTAATGACTGAGTGACCAAATAGATAATTTATTCTAAAAATGGATTAAGAATTTTTAAAAGACAC
464612 AATAATAAAAAGTGATTATATTATTTAATTG
195 AATAATAAAAAGTGATTATATTATTTAATTG
* * * *
464643 AAAAATGATACTAAACTCCACATCAGCATCATTGATAATTTTTTTAATGATA-TGTGTCAAAAGA
1 AAAAATGATAATAAACTCCACACCAGCACCATTGATAA-TTTTTTAATAATAGT-TGTCAAAAGA
* * * * * *
464707 GAACAAAAATATAAGGTTAACTATG--ATTATAA-CAAAAA-AGTTGAGTGACCAAAAACCACTA
64 GAACAAAAATATAACGTTAGCTATGACAATAAAATAAAAAATAGTTGAGTGACCAAAAACTACTA
* *
464768 AGTAATGACTGAGAGACCAAATAGATAATTTATTCTAAAAATGGATTAAGAATTTTTAAAAAACA
129 AGTAATGACTGAGTGACCAAATAGATAATTTATTCTAAAAATGGATTAAGAATTTTTAAAAGACA
* *
464833 GAATAATAAAAAGTGATTATATTATTTCATTG
194 CAATAATAAAAAGTGATTATATTATTTAATTG
464865 A
1 A
464866 GTAATTATTT
Statistics
Matches: 399, Mismatches: 41, Indels: 18
0.87 0.09 0.04
Matches are distributed among these distances:
221 54 0.14
222 61 0.15
223 5 0.01
224 58 0.15
225 204 0.51
226 17 0.04
ACGTcount: A:0.48, C:0.10, G:0.12, T:0.30
Consensus pattern (225 bp):
AAAAATGATAATAAACTCCACACCAGCACCATTGATAATTTTTTAATAATAGTTGTCAAAAGAGA
ACAAAAATATAACGTTAGCTATGACAATAAAATAAAAAATAGTTGAGTGACCAAAAACTACTAAG
TAATGACTGAGTGACCAAATAGATAATTTATTCTAAAAATGGATTAAGAATTTTTAAAAGACACA
ATAATAAAAAGTGATTATATTATTTAATTG
Found at i:466630 original size:11 final size:11
Alignment explanation
Indices: 466612--466641 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
466602 AAATACTTTG
466612 TAAAATTATTT
1 TAAAATTATTT
*
466623 TGAAATTATTT
1 TAAAATTATTT
466634 TAAAATTA
1 TAAAATTA
466642 AAACTTAATT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (11 bp):
TAAAATTATTT
Found at i:466996 original size:2 final size:2
Alignment explanation
Indices: 466989--467076 Score: 176
Period size: 2 Copynumber: 44.0 Consensus size: 2
466979 GCCAATGGAT
466989 TA 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 TA
467031 TA 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 TA
467073 TA TA
1 TA TA
467077 GCTTAAGCTT
Statistics
Matches: 86, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 86 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:469174 original size:22 final size:22
Alignment explanation
Indices: 469149--469230 Score: 78
Period size: 23 Copynumber: 3.7 Consensus size: 22
469139 AGAACCCCAT
* *
469149 GGGGGTATCGATTCCCCTACAA
1 GGGGGAATCGATTCCCCTTCAA
* *
469171 GGGGGAATCGGTTTCCCTTCAAA
1 GGGGGAATCGATTCCCCTTC-AA
* *
469194 TGGGGAATCGGTTCCCCTTCAA
1 GGGGGAATCGATTCCCCTTCAA
469216 --GGGATATCGATTCCC
1 GGGGGA-ATCGATTCCC
469231 TCTGCACCAA
Statistics
Matches: 51, Mismatches: 7, Indels: 5
0.81 0.11 0.08
Matches are distributed among these distances:
20 4 0.08
21 9 0.18
22 18 0.35
23 20 0.39
ACGTcount: A:0.21, C:0.26, G:0.28, T:0.26
Consensus pattern (22 bp):
GGGGGAATCGATTCCCCTTCAA
Found at i:469186 original size:23 final size:22
Alignment explanation
Indices: 469149--469218 Score: 86
Period size: 22 Copynumber: 3.1 Consensus size: 22
469139 AGAACCCCAT
* * *
469149 GGGGGTATCGATTCCCCTACAA
1 GGGGGAATCGGTTCCCCTTCAA
*
469171 GGGGGAATCGGTTTCCCTTCAAA
1 GGGGGAATCGGTTCCCCTTC-AA
*
469194 TGGGGAATCGGTTCCCCTTCAA
1 GGGGGAATCGGTTCCCCTTCAA
469216 GGG
1 GGG
469219 ATATCGATTC
Statistics
Matches: 40, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
22 20 0.50
23 20 0.50
ACGTcount: A:0.20, C:0.24, G:0.31, T:0.24
Consensus pattern (22 bp):
GGGGGAATCGGTTCCCCTTCAA
Found at i:473053 original size:22 final size:21
Alignment explanation
Indices: 473011--473050 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
473001 GATTTTATTT
*
473011 TCATTTTTCAATTTTGAAATA
1 TCATTTTTCAATTTTAAAATA
473032 TCATTTTT-ATATTTTAAAA
1 TCATTTTTCA-ATTTTAAAA
473051 ATAATTTCTC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 1 0.06
21 16 0.94
ACGTcount: A:0.35, C:0.07, G:0.03, T:0.55
Consensus pattern (21 bp):
TCATTTTTCAATTTTAAAATA
Found at i:475122 original size:11 final size:11
Alignment explanation
Indices: 475106--475135 Score: 60
Period size: 11 Copynumber: 2.7 Consensus size: 11
475096 AAATACTTTG
475106 TAAAATTATTT
1 TAAAATTATTT
475117 TAAAATTATTT
1 TAAAATTATTT
475128 TAAAATTA
1 TAAAATTA
475136 AAACTTAATT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 19 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (11 bp):
TAAAATTATTT
Found at i:475490 original size:2 final size:2
Alignment explanation
Indices: 475483--475539 Score: 107
Period size: 2 Copynumber: 29.0 Consensus size: 2
475473 GCCAATTGAT
475483 TA TA TA TA TA TA TA T- 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 TA
475524 TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA
475540 GCTTAAGCTG
Statistics
Matches: 54, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
1 1 0.02
2 53 0.98
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:476652 original size:11 final size:11
Alignment explanation
Indices: 476634--476663 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
476624 AAATACTTTG
476634 TAAAATTATTT
1 TAAAATTATTT
*
476645 TGAAATTATTT
1 TAAAATTATTT
476656 TAAAATTA
1 TAAAATTA
476664 AAACTTAATT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (11 bp):
TAAAATTATTT
Found at i:478269 original size:15 final size:15
Alignment explanation
Indices: 478249--478279 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
478239 CATCTAGTTC
*
478249 CATAATGACAAAATG
1 CATAATGAAAAAATG
478264 CATAATGAAAAAATG
1 CATAATGAAAAAATG
478279 C
1 C
478280 TCACATTGTC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.55, C:0.13, G:0.13, T:0.19
Consensus pattern (15 bp):
CATAATGAAAAAATG
Done.