Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01007967.1 Hibiscus syriacus cultivar Beakdansim tig00110402_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: 2476418
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 1 of 11
Found at i:631 original size:53 final size:54
Alignment explanation
Indices: 504--715 Score: 283
Period size: 53 Copynumber: 4.0 Consensus size: 54
494 ACGGGGACAC
* * *
504 CATAGTGCCAATAC-G-AATTCATAAACTAATTATGAATTTCTTGGGGTGTACA
1 CATAGTGCCAATACGGAAATTCATAAACTAATTATGAATTTCTTAGGTTGCACA
* *
556 CAAAGTGCCAATACGGAAATTCAAAAACTAATTATGAATTTC-TAGGTTGCACA
1 CATAGTGCCAATACGGAAATTCATAAACTAATTATGAATTTCTTAGGTTGCACA
609 CATAGTGCCAATACGGAAATTCATAAACTAATTATGAATTTCTTAGGTTGCAC-
1 CATAGTGCCAATACGGAAATTCATAAACTAATTATGAATTTCTTAGGTTGCACA
* * * * *
662 CATAGT-CCAAATACGAAAAATCATAAACTTATTGTGAATTTCTTA-ATTGCACA
1 CATAGTGCC-AATACGGAAATTCATAAACTAATTATGAATTTCTTAGGTTGCACA
715 C
1 C
716 TATTCGCGTG
Statistics
Matches: 143, Mismatches: 12, Indels: 9
0.87 0.07 0.05
Matches are distributed among these distances:
52 21 0.15
53 88 0.62
54 34 0.24
ACGTcount: A:0.38, C:0.17, G:0.14, T:0.31
Consensus pattern (54 bp):
CATAGTGCCAATACGGAAATTCATAAACTAATTATGAATTTCTTAGGTTGCACA
Found at i:4884 original size:19 final size:20
Alignment explanation
Indices: 4862--4905 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
4852 GAGAAAAGGT
4862 AAAAGTTAA-AATGAAAGAG
1 AAAAGTTAATAATGAAAGAG
* *
4881 AAAAATTAATAATGAAAGAT
1 AAAAGTTAATAATGAAAGAG
4901 AAAAG
1 AAAAG
4906 AAAAAAGTTA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
19 8 0.38
20 13 0.62
ACGTcount: A:0.66, C:0.00, G:0.16, T:0.18
Consensus pattern (20 bp):
AAAAGTTAATAATGAAAGAG
Found at i:12410 original size:66 final size:68
Alignment explanation
Indices: 12326--12475 Score: 223
Period size: 67 Copynumber: 2.2 Consensus size: 68
12316 ACCCATTCAA
*
12326 GGGAACCGATACCCCCTCAACG-AAATGAATTTCCAGAATACTAGAGGGGAATCGATACCCCCA-
1 GGGAACCGATACCCCCTCAACGTAAATGAAATTCCAGAATACTAGAGGGGAATCGATACCCCCAG
12389 GGG
66 GGG
* * * * *
12392 GGGAACCGATACCCCCTCATCGTATATGAAATTCCAGAATGCTTGTGGGGAATCGATACCCCCAG
1 GGGAACCGATACCCCCTCAACGTAAATGAAATTCCAGAATACTAGAGGGGAATCGATACCCCCAG
12457 GGG
66 GGG
*
12460 GGGAACCGATTCCCCC
1 GGGAACCGATACCCCC
12476 ATGGAAAAAA
Statistics
Matches: 75, Mismatches: 7, Indels: 2
0.89 0.08 0.02
Matches are distributed among these distances:
66 21 0.28
67 36 0.48
68 18 0.24
ACGTcount: A:0.29, C:0.29, G:0.25, T:0.17
Consensus pattern (68 bp):
GGGAACCGATACCCCCTCAACGTAAATGAAATTCCAGAATACTAGAGGGGAATCGATACCCCCAG
GGG
Found at i:12816 original size:34 final size:29
Alignment explanation
Indices: 12777--12848 Score: 126
Period size: 29 Copynumber: 2.5 Consensus size: 29
12767 CATATTATGA
*
12777 TACATGACATGAATTTATATTAAATGTAT
1 TACATGACATGAATTCATATTAAATGTAT
*
12806 TACATGACATGAATTCATATTATATGTAT
1 TACATGACATGAATTCATATTAAATGTAT
12835 TACATGACATGAAT
1 TACATGACATGAAT
12849 ATGCAGAAAA
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
29 41 1.00
ACGTcount: A:0.40, C:0.10, G:0.11, T:0.39
Consensus pattern (29 bp):
TACATGACATGAATTCATATTAAATGTAT
Found at i:13287 original size:149 final size:149
Alignment explanation
Indices: 13017--13320 Score: 572
Period size: 149 Copynumber: 2.0 Consensus size: 149
13007 GGGTAGAGGG
*
13017 TCTACGCGGTTCTTTAGGACATATGTATATCCTTTGGAACCTGTGTGAAGTCTTGAAAGACACAT
1 TCTACGCGGTTCTTTAGGACATATGTATATCCTTTGGAACCTGTATGAAGTCTTGAAAGACACAT
13082 ACTTGATCCATAGTATATGTATATGATTCTTAAGGAATTCTATGTGGTCCTTATGGACATCATTA
66 ACTTGATCCATAGTATATGTATATGATTCTTAAGGAATTCTATGTGGTCCTTATGGACATCATTA
13147 TATGGCACTACGGTGCAAT
131 TATGGCACTACGGTGCAAT
*
13166 TCTACGTGGTTCTTTAGGACATATGTATATCCTTTGGAACCTGTATGAAGTCTTGAAAGACACAT
1 TCTACGCGGTTCTTTAGGACATATGTATATCCTTTGGAACCTGTATGAAGTCTTGAAAGACACAT
* *
13231 ACTTGATCCATAGTATATGTATATGATTCTTAAGGAATTCTATGTGGTCCTTATGGATATTATTA
66 ACTTGATCCATAGTATATGTATATGATTCTTAAGGAATTCTATGTGGTCCTTATGGACATCATTA
13296 TATGGCACTACGGTGCAAT
131 TATGGCACTACGGTGCAAT
13315 TCTACG
1 TCTACG
13321 GGGCACTTCG
Statistics
Matches: 151, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
149 151 1.00
ACGTcount: A:0.28, C:0.16, G:0.20, T:0.37
Consensus pattern (149 bp):
TCTACGCGGTTCTTTAGGACATATGTATATCCTTTGGAACCTGTATGAAGTCTTGAAAGACACAT
ACTTGATCCATAGTATATGTATATGATTCTTAAGGAATTCTATGTGGTCCTTATGGACATCATTA
TATGGCACTACGGTGCAAT
Found at i:13343 original size:23 final size:23
Alignment explanation
Indices: 13299--13343 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
13289 ATTATTATAT
*
13299 GGCACTACGGTGCAATTCTACGG
1 GGCACTACGGTGCAATTATACGG
* *
13322 GGCACTTCGGTGCATTTATACG
1 GGCACTACGGTGCAATTATACG
13344 AGCTGTGGTG
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.20, C:0.24, G:0.29, T:0.27
Consensus pattern (23 bp):
GGCACTACGGTGCAATTATACGG
Found at i:14115 original size:24 final size:24
Alignment explanation
Indices: 14071--14117 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
14061 ATAAAGAACC
*
14071 AAAATAAACTTAAATATACCATTA
1 AAAATAAACTTAAACATACCATTA
*
14095 AAAATAAAGTTTAAACA-ACCATT
1 AAAATAAA-CTTAAACATACCATT
14118 CAACCAACCA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
24 14 0.70
25 6 0.30
ACGTcount: A:0.57, C:0.13, G:0.02, T:0.28
Consensus pattern (24 bp):
AAAATAAACTTAAACATACCATTA
Found at i:15880 original size:22 final size:24
Alignment explanation
Indices: 15855--15911 Score: 70
Period size: 22 Copynumber: 2.6 Consensus size: 24
15845 ACACCACTCT
15855 ATATATTATTTTT-TTCAA-AGAA
1 ATATATTATTTTTATTCAATAGAA
*
15877 ATAT-TTATTTTTATTGAATAGAA
1 ATATATTATTTTTATTCAATAGAA
15900 ATA-A-TATTTTTA
1 ATATATTATTTTTA
15912 ATAAATATAT
Statistics
Matches: 31, Mismatches: 1, Indels: 6
0.82 0.03 0.16
Matches are distributed among these distances:
21 8 0.26
22 16 0.52
23 7 0.23
ACGTcount: A:0.40, C:0.02, G:0.05, T:0.53
Consensus pattern (24 bp):
ATATATTATTTTTATTCAATAGAA
Found at i:15918 original size:22 final size:23
Alignment explanation
Indices: 15873--15918 Score: 58
Period size: 22 Copynumber: 2.0 Consensus size: 23
15863 TTTTTTTCAA
* * *
15873 AGAAATATTTATTTTTATTGAAT
1 AGAAATATATATTTTTAATAAAT
15896 AGAAATA-ATATTTTTAATAAAT
1 AGAAATATATATTTTTAATAAAT
15918 A
1 A
15919 TATTTTGGGT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
22 13 0.65
23 7 0.35
ACGTcount: A:0.48, C:0.00, G:0.07, T:0.46
Consensus pattern (23 bp):
AGAAATATATATTTTTAATAAAT
Found at i:19663 original size:12 final size:12
Alignment explanation
Indices: 19646--19685 Score: 71
Period size: 12 Copynumber: 3.3 Consensus size: 12
19636 CACAACTTCA
19646 TTTTTTTCATTT
1 TTTTTTTCATTT
*
19658 TTTTTTTCAATT
1 TTTTTTTCATTT
19670 TTTTTTTCATTT
1 TTTTTTTCATTT
19682 TTTT
1 TTTT
19686 CATTTTTAAT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
12 26 1.00
ACGTcount: A:0.10, C:0.07, G:0.00, T:0.82
Consensus pattern (12 bp):
TTTTTTTCATTT
Found at i:24515 original size:11 final size:11
Alignment explanation
Indices: 24499--24534 Score: 51
Period size: 11 Copynumber: 3.5 Consensus size: 11
24489 TATGCACCGA
24499 TGCATCAGTAG
1 TGCATCAGTAG
24510 TGCATC-G-A-
1 TGCATCAGTAG
24518 TGCATCAGTAG
1 TGCATCAGTAG
24529 TGCATC
1 TGCATC
24535 GATGCATACC
Statistics
Matches: 22, Mismatches: 0, Indels: 6
0.79 0.00 0.21
Matches are distributed among these distances:
8 6 0.27
9 2 0.09
10 2 0.09
11 12 0.55
ACGTcount: A:0.25, C:0.22, G:0.25, T:0.28
Consensus pattern (11 bp):
TGCATCAGTAG
Found at i:24518 original size:19 final size:19
Alignment explanation
Indices: 24491--24541 Score: 93
Period size: 19 Copynumber: 2.7 Consensus size: 19
24481 ATGCATTTTA
*
24491 TGCACCGATGCATCAGTAG
1 TGCATCGATGCATCAGTAG
24510 TGCATCGATGCATCAGTAG
1 TGCATCGATGCATCAGTAG
24529 TGCATCGATGCAT
1 TGCATCGATGCAT
24542 ACCTTCATTA
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
19 31 1.00
ACGTcount: A:0.25, C:0.24, G:0.25, T:0.25
Consensus pattern (19 bp):
TGCATCGATGCATCAGTAG
Found at i:25389 original size:103 final size:103
Alignment explanation
Indices: 25164--25381 Score: 391
Period size: 103 Copynumber: 2.1 Consensus size: 103
25154 GTCAAGGGTC
* *
25164 TATGTGGTCCTTCGGGACATATATGTATTCTTTGTAACATGTGTGAAGTCTGGTGAGACACATAC
1 TATGTGGTCCTTCGGGACATATATGCATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATAC
* *
25229 TTGATCCTTGGTATATGTATATGATTCTTAAGGAATGA
66 TTGATCCCTAGTATATGTATATGATTCTTAAGGAATGA
*
25267 TATGTGGTCATTCGGGACATATATGCATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATAC
1 TATGTGGTCCTTCGGGACATATATGCATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATAC
25332 TTGATCCCTAGTATATGTATATGATTCTTAAGGAATGA
66 TTGATCCCTAGTATATGTATATGATTCTTAAGGAATGA
25370 TATGTGGTCCTT
1 TATGTGGTCCTT
25382 ATGGACATTA
Statistics
Matches: 109, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
103 109 1.00
ACGTcount: A:0.26, C:0.13, G:0.23, T:0.37
Consensus pattern (103 bp):
TATGTGGTCCTTCGGGACATATATGCATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATAC
TTGATCCCTAGTATATGTATATGATTCTTAAGGAATGA
Found at i:25430 original size:23 final size:23
Alignment explanation
Indices: 25397--25459 Score: 90
Period size: 23 Copynumber: 2.7 Consensus size: 23
25387 CATTATTTAT
25397 GGCACTACGGTGCAATTCTACGC
1 GGCACTACGGTGCAATTCTACGC
* *
25420 GGCACTCCGGTGCAATTCTACGT
1 GGCACTACGGTGCAATTCTACGC
* *
25443 GGCACTTCGGTACAATT
1 GGCACTACGGTGCAATT
25460 ATATGAGTTG
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 36 1.00
ACGTcount: A:0.21, C:0.29, G:0.25, T:0.25
Consensus pattern (23 bp):
GGCACTACGGTGCAATTCTACGC
Found at i:27402 original size:15 final size:15
Alignment explanation
Indices: 27384--27413 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
27374 AATCAGATGA
27384 GAGTTCGACAGACTC
1 GAGTTCGACAGACTC
27399 GAGTTCGACAGACTC
1 GAGTTCGACAGACTC
27414 CAACAGTAGG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.27, C:0.27, G:0.27, T:0.20
Consensus pattern (15 bp):
GAGTTCGACAGACTC
Found at i:31185 original size:103 final size:103
Alignment explanation
Indices: 31001--31218 Score: 373
Period size: 103 Copynumber: 2.1 Consensus size: 103
30991 GTCGAGGGTC
31001 TATGTGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATAC
1 TATGTGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATAC
* *
31066 TTGATCCTTGGCATATGTATATGATTCTTAAGGAATGA
66 TTGATCCCTAGCATATGTATATGATTCTTAAGGAATGA
*
31104 TATGTGGTCCTTCGGGACATATATGTATTTTTTGGAACATGTGTGAAGTCTGGTGAGACACATAC
1 TATGTGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATAC
* * *
31169 TTGGTCCCTAGTATATGTATATGATTCTTAATGAATGA
66 TTGATCCCTAGCATATGTATATGATTCTTAAGGAATGA
*
31207 TATATGGTCCTT
1 TATGTGGTCCTT
31219 ATGGACATTA
Statistics
Matches: 108, Mismatches: 7, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
103 108 1.00
ACGTcount: A:0.26, C:0.13, G:0.23, T:0.38
Consensus pattern (103 bp):
TATGTGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATAC
TTGATCCCTAGCATATGTATATGATTCTTAAGGAATGA
Found at i:31270 original size:23 final size:23
Alignment explanation
Indices: 31235--31297 Score: 90
Period size: 23 Copynumber: 2.7 Consensus size: 23
31225 ATTATTATAT
*
31235 GGCACTACGGTGCAATTCTACGC
1 GGCACTACAGTGCAATTCTACGC
* *
31258 GGCACTCCAGTGCAATTCTACGT
1 GGCACTACAGTGCAATTCTACGC
*
31281 GGCACTTCAGTGCAATT
1 GGCACTACAGTGCAATT
31298 ATATGAGCTG
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 36 1.00
ACGTcount: A:0.22, C:0.29, G:0.24, T:0.25
Consensus pattern (23 bp):
GGCACTACAGTGCAATTCTACGC
Found at i:40335 original size:2 final size:2
Alignment explanation
Indices: 40303--40327 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
40293 TATCACGCAT
40303 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
40328 GTTATATAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:40943 original size:2 final size:2
Alignment explanation
Indices: 40936--40986 Score: 102
Period size: 2 Copynumber: 25.5 Consensus size: 2
40926 TGGCTTATCT
40936 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
40978 TA TA TA TA T
1 TA TA TA TA T
40987 TCACAAACTT
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 49 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:59541 original size:14 final size:14
Alignment explanation
Indices: 59522--59551 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
59512 AAATTTATTT
59522 TTTAATTATAGTTA
1 TTTAATTATAGTTA
*
59536 TTTAATTATATTTA
1 TTTAATTATAGTTA
59550 TT
1 TT
59552 ATTTAATATG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.33, C:0.00, G:0.03, T:0.63
Consensus pattern (14 bp):
TTTAATTATAGTTA
Found at i:60125 original size:14 final size:14
Alignment explanation
Indices: 60106--60139 Score: 59
Period size: 14 Copynumber: 2.4 Consensus size: 14
60096 GAACCGGCCA
*
60106 GAACCGTTATTAGT
1 GAACCGCTATTAGT
60120 GAACCGCTATTAGT
1 GAACCGCTATTAGT
60134 GAACCG
1 GAACCG
60140 GCCAGAACCG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.29, C:0.21, G:0.24, T:0.26
Consensus pattern (14 bp):
GAACCGCTATTAGT
Found at i:60191 original size:10 final size:10
Alignment explanation
Indices: 60176--60213 Score: 51
Period size: 10 Copynumber: 3.8 Consensus size: 10
60166 GAACCAGCTG
60176 AAAACCGGAA
1 AAAACCGGAA
*
60186 AAAACCGGGA
1 AAAACCGGAA
60196 AAAACC-GAGA
1 AAAACCGGA-A
60206 AAAACCGG
1 AAAACCGG
60214 GATTTTTGTT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
9 1 0.04
10 22 0.92
11 1 0.04
ACGTcount: A:0.55, C:0.21, G:0.24, T:0.00
Consensus pattern (10 bp):
AAAACCGGAA
Found at i:60201 original size:20 final size:20
Alignment explanation
Indices: 60176--60215 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
60166 GAACCAGCTG
60176 AAAACCG-GAAAAAACCGGGA
1 AAAACCGAG-AAAAACCGGGA
60196 AAAACCGAGAAAAACCGGGA
1 AAAACCGAGAAAAACCGGGA
60216 TTTTTGTTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 18 0.95
21 1 0.05
ACGTcount: A:0.55, C:0.20, G:0.25, T:0.00
Consensus pattern (20 bp):
AAAACCGAGAAAAACCGGGA
Found at i:61598 original size:21 final size:21
Alignment explanation
Indices: 61559--61598 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
61549 CTTAAGAAAC
** *
61559 AAAAAAAAACATTACCAAATA
1 AAAAAAAAACAACAACAAATA
61580 AAAAAAAAACAACAACAAA
1 AAAAAAAAACAACAACAAA
61599 AACCGATCAG
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.78, C:0.15, G:0.00, T:0.07
Consensus pattern (21 bp):
AAAAAAAAACAACAACAAATA
Found at i:75388 original size:198 final size:198
Alignment explanation
Indices: 75041--75431 Score: 500
Period size: 198 Copynumber: 2.0 Consensus size: 198
75031 AAATTGGGTC
* * * *
75041 CGGGTTGGTTCAGGTTCTTTTAGAGGTTATCTAGGATAAGGTAGGGTTCGACTTTAGGGTGAAAA
1 CGGGTCGGGTCAGGTTCTTTTAGAGGTTATCTAGGATAAGGTAGAGTCCGACTTTAGGGTGAAAA
* * * * *
75106 TACCTACCTTGACTGGCCCAAAAAAAATTATAATTATATCTTATATATTTAAGGATACTTGCAAT
66 TACCAACCTCGACTGACCCAAAAAAAATTATAATTATATCTTATATATTTAAGGATAATTACAAT
* * *
75171 AATAGTCATCTACAAATTACTTTTTAATTAAATTCTTATTTTTATTGAATAAAAGTAATATTTAG
131 AATAATCATCTACAAATTACTTTTTAATTAAATTATTATATTTATTGAATAAAAGTAATATTTAG
75236 GTT
196 GTT
* ** * *
75239 CGGGTCGGGTCAGGTTCTTTTAGAGGTTATTTCA-GATCGGGTCGAGTCCGGCTTTAGGGTGAAA
1 CGGGTCGGGTCAGGTTCTTTTAGAGGTTATCT-AGGATAAGGTAGAGTCCGACTTTAGGGTGAAA
* ** * *
75303 ATACCAACCTCGATTGACCTGAAAAAAATTATAATT-TCA-CTTTATATATTTAGGGATAATTAT
65 ATACCAACCTCGACTGACCCAAAAAAAATTATAATTAT-ATC-TTATATATTTAAGGATAATTAC
* * * *
75366 AATAATAATTATCTAGAAATTACTTTTTAATTCAATTATTATATTTATTGAATAAAATTAATATT
128 AATAATAATCATCTACAAATTACTTTTTAATTAAATTATTATATTTATTGAATAAAAGTAATATT
75431 T
193 T
75432 TTAAATAAAT
Statistics
Matches: 164, Mismatches: 26, Indels: 6
0.84 0.13 0.03
Matches are distributed among these distances:
197 2 0.01
198 161 0.98
199 1 0.01
ACGTcount: A:0.34, C:0.11, G:0.16, T:0.39
Consensus pattern (198 bp):
CGGGTCGGGTCAGGTTCTTTTAGAGGTTATCTAGGATAAGGTAGAGTCCGACTTTAGGGTGAAAA
TACCAACCTCGACTGACCCAAAAAAAATTATAATTATATCTTATATATTTAAGGATAATTACAAT
AATAATCATCTACAAATTACTTTTTAATTAAATTATTATATTTATTGAATAAAAGTAATATTTAG
GTT
Found at i:75424 original size:22 final size:20
Alignment explanation
Indices: 75389--75448 Score: 52
Period size: 19 Copynumber: 3.0 Consensus size: 20
75379 TAGAAATTAC
* *
75389 TTTTTAATTCAATTATTATA
1 TTTTTAAATAAATTATTATA
*
75409 TTTATTGAATAAA--ATTAATA
1 TTT-TTAAATAAATTATT-ATA
75429 TTTTTAAATAAATATATTAT
1 TTTTTAAATAAAT-TATTAT
75449 TTCGAGTATG
Statistics
Matches: 31, Mismatches: 4, Indels: 9
0.70 0.09 0.20
Matches are distributed among these distances:
19 11 0.35
20 9 0.29
21 8 0.26
22 3 0.10
ACGTcount: A:0.43, C:0.02, G:0.02, T:0.53
Consensus pattern (20 bp):
TTTTTAAATAAATTATTATA
Found at i:75531 original size:27 final size:28
Alignment explanation
Indices: 75492--75546 Score: 67
Period size: 27 Copynumber: 2.0 Consensus size: 28
75482 CTCGAAAAGA
* *
75492 CGGGTCGGGTGGAATGTATAT-ATTTTT
1 CGGGTCAGATGGAATGTATATAATTTTT
* *
75519 CGGGTCAGATGGAGTGTGTATAATTTTT
1 CGGGTCAGATGGAATGTATATAATTTTT
75547 AAGTAGGATT
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
27 17 0.74
28 6 0.26
ACGTcount: A:0.20, C:0.07, G:0.33, T:0.40
Consensus pattern (28 bp):
CGGGTCAGATGGAATGTATATAATTTTT
Found at i:76063 original size:19 final size:20
Alignment explanation
Indices: 76024--76063 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
76014 TGGTTAACGG
* *
76024 AATATAAGATTACCAGTGGA
1 AATAAAAGATTAACAGTGGA
76044 AATAAAAGATTAACAG-GGA
1 AATAAAAGATTAACAGTGGA
76063 A
1 A
76064 TATGATTACT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 4 0.22
20 14 0.78
ACGTcount: A:0.53, C:0.07, G:0.20, T:0.20
Consensus pattern (20 bp):
AATAAAAGATTAACAGTGGA
Found at i:76722 original size:19 final size:20
Alignment explanation
Indices: 76683--76722 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
76673 TGGCTCACGG
* *
76683 AATATAAGATTACCAGTGGA
1 AATAAAAGATTAACAGTGGA
76703 AATAAAAGATTAACAG-GGA
1 AATAAAAGATTAACAGTGGA
76722 A
1 A
76723 TAGGATTACT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 4 0.22
20 14 0.78
ACGTcount: A:0.53, C:0.07, G:0.20, T:0.20
Consensus pattern (20 bp):
AATAAAAGATTAACAGTGGA
Found at i:77121 original size:14 final size:14
Alignment explanation
Indices: 77096--77134 Score: 53
Period size: 13 Copynumber: 2.9 Consensus size: 14
77086 AATAACAGAA
* *
77096 TAAGGATATTTTTG
1 TAAGAATATTTTTT
77110 TAAGAA-ATTTTTT
1 TAAGAATATTTTTT
77123 TAAGAATATTTT
1 TAAGAATATTTT
77135 AGTCCAAAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
13 12 0.55
14 10 0.45
ACGTcount: A:0.36, C:0.00, G:0.13, T:0.51
Consensus pattern (14 bp):
TAAGAATATTTTTT
Found at i:77266 original size:661 final size:663
Alignment explanation
Indices: 76008--78653 Score: 3905
Period size: 661 Copynumber: 4.0 Consensus size: 663
75998 ATACTTATGG
* * *
76008 TGCATTTGGTTAACGGAATATAAGATTACCAGTGGAAATAAAAGATTAACAGGGAATATGATTAC
1 TGCATTTGGCTCACGGAATATAAGATTACCAGTGGAAATAAAAGATTAACAGGGAATAGGATTAC
*
76073 TGAGAATGTTGTATTTTGTGTTTGGTTGATTTAGCAGGAATGTAAGATTACTGTGTTTGGTTAAA
66 TGAGAATGTTGTATTTTGTGTTTGGTTGATTTAGCAGGAATGTAAGATTACCGTGTTTGGTTAAA
* *
76138 GGAATAAAAGATTATTGGAATGTATATTTGACCAAATTGTCCTTATTATATATTTGT-T-TTTTT
131 GGAATAAAAGATTATTGGAATGTATATTTGACCAAATTGTCCTTATTATATATTTGTATAATATT
76201 AACAAGTTGGAAAATATTTATATATTTTC-TTAAAAAAAATTAAATTCATAAAATTTATATAATT
196 -ACAAGTTGGAAAATATTTATATATTTTCTTTAAAAAAAATTAAATTCATAAAATTTATATAATT
*
76265 TTTTTA-AAAATTGAAAATATAAAAAGGTTTAATGAAAGGGTAATATTTTATTTTAACCCCTGAA
260 TTTTTACAAAATTGAAAATATAAAAAAGTTTAATGAAAGGGTAATATTTTATTTTAACCCCTGAA
*
76329 CTTCATATAAAATTTTAATTATAGATTTTTTTTTGTAAATCTAAAATAGTTTAAGGATAAATTTG
325 CTTCATATAAAATTTTAATTATAGATTTTTTTTTGTAAATCTAAAATAATTTAAGGATAAATTTG
* *
76394 TAATTTAACCTTCGTAGAATTTTTATTATTCAATAACAGAATAAGGATATTTTTG-TAAGAAAT-
390 TAATTTAACCTTCGTAGAATTTTTATTATTCAATAACAGAATAAGGATATTTTTGAAAAAAAATA
*** *
76457 TTTTTTAAGAACATTTTAGTCCAAAATGCTGGTAATCCAACAATACCTAAGGAAAGGGAGGTAAT
455 AAATTTAAGAACATTTTAGTCCAAAACGCTGGTAATCCAACAATACCTAAGGAAAGGGAGGTAAT
*
76522 GACATTCCCGATAATATATCCCCAAAAATTCACTATTGGTAATGTAAGATTACCGAGAATGACAT
520 GACATTCCCGATAATATA-CCCCAAAAATTCACTATTGGTAATGTAACATTACCGAGAATGACAT
* * *
76587 TCTCGGCCAACCAAACGGGGGAATGTGGATTCCATTACCATGGGAATCTCACATTCCCCCAACCA
584 TCCCGGCCAACCAAACAGGGGAATGTGGATTCCATTACCATGGGAATCCCACATTCCCCCAACCA
76652 AACACACCCTTAGGT
649 AACACACCCTTAGGT
76667 TGCATTTGGCTCACGGAATATAAGATTACCAGTGGAAATAAAAGATTAACAGGGAATAGGATTAC
1 TGCATTTGGCTCACGGAATATAAGATTACCAGTGGAAATAAAAGATTAACAGGGAATAGGATTAC
*
76732 TGAGAATGTTGTATTTTGTGTTTGGTTGATTTAGCAGGAATGTAAGATTACTGTGTTTGGTTAAA
66 TGAGAATGTTGTATTTTGTGTTTGGTTGATTTAGCAGGAATGTAAGATTACCGTGTTTGGTTAAA
* *
76797 GGAATAAAAGATTATTGGAATGTATATTTGACCAAATTGTCCTTATTATATATTTGT-T-TTTTT
131 GGAATAAAAGATTATTGGAATGTATATTTGACCAAATTGTCCTTATTATATATTTGTATAATATT
*
76860 AACAAGTTGGAAAATGTTTATATATTTTCTTTAAAAAAAATTAAATTCATAAAATTTATATAATT
196 -ACAAGTTGGAAAATATTTATATATTTTCTTTAAAAAAAATTAAATTCATAAAATTTATATAATT
76925 ATTTTTA-AAAATTGAAAATATAAAAAAGTTTAATGAAAGGGTAATATTTTATTTTAACCCCTGA
260 -TTTTTACAAAATTGAAAATATAAAAAAGTTTAATGAAAGGGTAATATTTTATTTTAACCCCTGA
*
76989 ACTTCATATAAAATTTTAATTATAGATTTTTTTTTGTAAATCTAAAATAGTTTAAGGATAAATTT
324 ACTTCATATAAAATTTTAATTATAGATTTTTTTTTGTAAATCTAAAATAATTTAAGGATAAATTT
* * *
77054 ATAATTTAACCTTCGTAGAATTTTTATTATTCAATAACAGAATAAGGATATTTTTG-TAAGAAAT
389 GTAATTTAACCTTCGTAGAATTTTTATTATTCAATAACAGAATAAGGATATTTTTGAAAAAAAAT
*** * *
77118 -TTTTTTAAGAATATTTTAGTCCAAAATGCTGGTAATCCAACAATACCTAAGGAAAGGGAGGTAA
454 AAAATTTAAGAACATTTTAGTCCAAAACGCTGGTAATCCAACAATACCTAAGGAAAGGGAGGTAA
*
77182 TGACATTCCCGATAATATATCCCCAAAAATTCACTATTGGTAATGTAAGATTACCGAGAATGACA
519 TGACATTCCCGATAATATA-CCCCAAAAATTCACTATTGGTAATGTAACATTACCGAGAATGACA
* * * *
77247 TTCCCAGCCAACCAAACGGGGGAATGTGGATTCCATTACCATGGAAATCTCACATTCCCCCAACC
583 TTCCCGGCCAACCAAACAGGGGAATGTGGATTCCATTACCATGGGAATCCCACATTCCCCCAACC
77312 AAACACACCCTTAGGT
648 AAACACACCCTTAGGT
* * **
77328 TGCATTTGGCTCACGGAATATAAGATTACCAGTGGGAATAAAAGATTACCAGATAATAGGATTAC
1 TGCATTTGGCTCACGGAATATAAGATTACCAGTGGAAATAAAAGATTAACAGGGAATAGGATTAC
* *
77393 TGGGAATGTTGTATTTTGTGTTTGGTTGGTTTAGCAGGAATGTAAGATTACCGTGTTTGGTTAAA
66 TGAGAATGTTGTATTTTGTGTTTGGTTGATTTAGCAGGAATGTAAGATTACCGTGTTTGGTTAAA
77458 -GAATAAAAGATTATTGGAATGTATATTTGACCAAATTGTCCTTATTATATATTTGTATAATATT
131 GGAATAAAAGATTATTGGAATGTATATTTGACCAAATTGTCCTTATTATATATTTGTATAATATT
* * * *
77522 ACAAATTGTAAAATATTTATATATTTTCTTT--AAAAAATTAAATTTATAATATTTATATAATTT
196 ACAAGTTGGAAAATATTTATATATTTTCTTTAAAAAAAATTAAATTCATAAAATTTATATAA-TT
* * ****
77585 TTTTTACAAAATTAAAAATATAAAAAATGTTTAATGAACGGGTAA-AAAACATTTTAACCCCTGA
260 TTTTTACAAAATTGAAAATATAAAAAA-GTTTAATGAAAGGGTAATATTTTATTTTAACCCCTGA
77649 ACTTCATATAAAATTTTAATTATAGATTTTTTTTTGTAAATCTAAAATAATTTAAGGATAAATTT
324 ACTTCATATAAAATTTTAATTATAGATTTTTTTTTGTAAATCTAAAATAATTTAAGGATAAATTT
* * * * *
77714 GTAATTTAACCTTTGTATAATTTTTATTATTCAATGACAGAAGAATGATATTTTTGAAAAAAAAT
389 GTAATTTAACCTTCGTAGAATTTTTATTATTCAATAACAGAATAAGGATATTTTTGAAAAAAAAT
* *** * *
77779 AAAAATTTAAGGACATTTTAGTCCAAAACG-TCGGTAATGTTACAATACCTAAGGGAATGGAGGT
454 -AAAATTTAAGAACATTTTAGTCCAAAACGCT-GGTAATCCAACAATACCTAAGGAAAGGGAGGT
* * * ** *
77843 AATGACATTCTCGGTAATATACCCCAAAAAATCTACTATTGGTAATAAAACATTACCGGGAATGA
517 AATGACATTCCCGATAATATACCCCAAAAATTC-ACTATTGGTAATGTAACATTACCGAGAATGA
* * * * * ***
77908 GATTCCCGGCCAACCAATCATGGGAATGTGGGATTCCCA-TCCCATGGGAATCCCACAATCCTTG
581 CATTCCCGGCCAACCAAACAGGGGAATGT-GGATT-CCATTACCATGGGAATCCCACATTCCCCC
* *
77972 AACCAAACACCCCCTTAGGG
644 AACCAAACACACCCTTAGGT
* * * ** * * *
77992 TGCGTTTGGTTCACGGAATATAAGATTACCAGTGGGAATGTAAGATTACCAAGGAATAGCATTAC
1 TGCATTTGGCTCACGGAATATAAGATTACCAGTGGAAATAAAAGATTAACAGGGAATAGGATTAC
* **
78057 TGGGAATGTTGTATTTTGTGTTTGGTTGGCTTAGCAGGAATGTAAGATTACCGTGTTTGGTTAAA
66 TGAGAATGTTGTATTTTGTGTTTGGTTGATTTAGCAGGAATGTAAGATTACCGTGTTTGGTTAAA
* *
78122 GGAATAAAAGATTATTGGAATGTATATTTGACCAAATTGTCCTAATTATATATTTGTGTAATATT
131 GGAATAAAAGATTATTGGAATGTATATTTGACCAAATTGTCCTTATTATATATTTGTATAATATT
*
78187 ACAAGTTGGAAAATATTTATATATTTTCTTTAAAAAAAAAAATTAAATTCATAATATTTATAT-A
196 ACAAGTTGGAAAATATTTATATATTTTCTTT---AAAAAAAATTAAATTCATAAAATTTATATAA
** * *
78251 -TTTTTTACAAAATT-AAAA-ATAAAAAAAATTAATGAAAGGGTAAAATTTTATTTTAACCCTTG
258 TTTTTTTACAAAATTGAAAATATAAAAAAGTTTAATGAAAGGGTAATATTTTATTTTAACCCCTG
*
78313 AACTTTATATAAAATTTTAATTATAGATTTTTTTTTGTAAATCTAAAATAATTTAAGGATAAATT
323 AACTTCATATAAAATTTTAATTATAGATTTTTTTTTGTAAATCTAAAATAATTTAAGGATAAATT
* * * * **
78378 TGTAATTTAACCTTCGTAAAAATTTTATTATTCGATGACAGAATAAATATATTTTTGAAAAAAAA
388 TGTAATTTAACCTTCGTAGAATTTTTATTATTCAATAACAGAATAAGGATATTTTTGAAAAAAAA
** *
78443 TAAAAATTTAAGGGCATTTTAGTCCAAAACGCCGGTAATCCAACAATACCTAAGGAAAGGGAGGT
453 T-AAAATTTAAGAACATTTTAGTCCAAAACGCTGGTAATCCAACAATACCTAAGGAAAGGGAGGT
* * * * * *
78508 AATGACATTCCCGGTAATATACCCGAAAAAATCCACTATTGGTAATCTTACATTACCGGGAAT-A
517 AATGACATTCCCGATAATATACCC-CAAAAATTCACTATTGGTAATGTAACATTACCGAGAATGA
* * *
78572 GGATTCCCGGGCTAACCAAACAGGGGAATGTGGATTCCATTCCCATGGGAATCCCACATTCCCCC
581 -CATTCCC-GGCCAACCAAACAGGGGAATGTGGATTCCATTACCATGGGAATCCCACATTCCCCC
* *
78637 ATCCAAACACCCCCTTA
644 AACCAAACACACCCTTA
78654 AGGTAACACA
Statistics
Matches: 1838, Mismatches: 123, Indels: 46
0.92 0.06 0.02
Matches are distributed among these distances:
659 251 0.14
660 241 0.13
661 570 0.31
662 15 0.01
663 119 0.06
664 180 0.10
665 392 0.21
666 29 0.02
667 14 0.01
669 1 0.00
670 26 0.01
ACGTcount: A:0.38, C:0.12, G:0.15, T:0.35
Consensus pattern (663 bp):
TGCATTTGGCTCACGGAATATAAGATTACCAGTGGAAATAAAAGATTAACAGGGAATAGGATTAC
TGAGAATGTTGTATTTTGTGTTTGGTTGATTTAGCAGGAATGTAAGATTACCGTGTTTGGTTAAA
GGAATAAAAGATTATTGGAATGTATATTTGACCAAATTGTCCTTATTATATATTTGTATAATATT
ACAAGTTGGAAAATATTTATATATTTTCTTTAAAAAAAATTAAATTCATAAAATTTATATAATTT
TTTTACAAAATTGAAAATATAAAAAAGTTTAATGAAAGGGTAATATTTTATTTTAACCCCTGAAC
TTCATATAAAATTTTAATTATAGATTTTTTTTTGTAAATCTAAAATAATTTAAGGATAAATTTGT
AATTTAACCTTCGTAGAATTTTTATTATTCAATAACAGAATAAGGATATTTTTGAAAAAAAATAA
AATTTAAGAACATTTTAGTCCAAAACGCTGGTAATCCAACAATACCTAAGGAAAGGGAGGTAATG
ACATTCCCGATAATATACCCCAAAAATTCACTATTGGTAATGTAACATTACCGAGAATGACATTC
CCGGCCAACCAAACAGGGGAATGTGGATTCCATTACCATGGGAATCCCACATTCCCCCAACCAAA
CACACCCTTAGGT
Found at i:77367 original size:20 final size:20
Alignment explanation
Indices: 77342--77379 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
77332 TTTGGCTCAC
*
77342 GGAATATAAGATTACCAGTG
1 GGAATAAAAGATTACCAGTG
77362 GGAATAAAAGATTACCAG
1 GGAATAAAAGATTACCAG
77380 ATAATAGGAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.45, C:0.11, G:0.24, T:0.21
Consensus pattern (20 bp):
GGAATAAAAGATTACCAGTG
Found at i:77573 original size:36 final size:38
Alignment explanation
Indices: 77524--77600 Score: 113
Period size: 37 Copynumber: 2.1 Consensus size: 38
77514 ATAATATTAC
77524 AAATTGTAAAATATTTATAT-ATTTTCTTTAAAAAATT
1 AAATTGTAAAATATTTATATAATTTTCTTTAAAAAATT
* * *
77561 AAATT-TATAATATTTATATAATTTTTTTTACAAAATT
1 AAATTGTAAAATATTTATATAATTTTCTTTAAAAAATT
77598 AAA
1 AAA
77601 AATATAAAAA
Statistics
Matches: 36, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
36 13 0.36
37 23 0.64
ACGTcount: A:0.47, C:0.03, G:0.01, T:0.49
Consensus pattern (38 bp):
AAATTGTAAAATATTTATATAATTTTCTTTAAAAAATT
Found at i:79210 original size:30 final size:30
Alignment explanation
Indices: 79174--79237 Score: 128
Period size: 30 Copynumber: 2.1 Consensus size: 30
79164 CCACTTGGTC
79174 GTTAAATAGTTAACAACGTTAAAATGAGTT
1 GTTAAATAGTTAACAACGTTAAAATGAGTT
79204 GTTAAATAGTTAACAACGTTAAAATGAGTT
1 GTTAAATAGTTAACAACGTTAAAATGAGTT
79234 GTTA
1 GTTA
79238 TATAAATGTA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 34 1.00
ACGTcount: A:0.42, C:0.06, G:0.17, T:0.34
Consensus pattern (30 bp):
GTTAAATAGTTAACAACGTTAAAATGAGTT
Found at i:79643 original size:2 final size:2
Alignment explanation
Indices: 79636--79675 Score: 80
Period size: 2 Copynumber: 20.0 Consensus size: 2
79626 CTCAACTTGA
79636 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
79676 CCTCCACCTG
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:80555 original size:21 final size:21
Alignment explanation
Indices: 80531--80570 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
80521 CTGCAACGCG
80531 ATAGTCCAAGTTCGCGTTGCA
1 ATAGTCCAAGTTCGCGTTGCA
* *
80552 ATAGTCGAAGTTTGCGTTG
1 ATAGTCCAAGTTCGCGTTG
80571 TGATTTTTCA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.23, C:0.17, G:0.28, T:0.33
Consensus pattern (21 bp):
ATAGTCCAAGTTCGCGTTGCA
Found at i:80640 original size:21 final size:20
Alignment explanation
Indices: 80616--80774 Score: 117
Period size: 21 Copynumber: 7.7 Consensus size: 20
80606 CATATTCGCA
*
80616 TTGCGATATTCCAAGTTCGTG
1 TTGCGATAGTCCAAGTTCG-G
*
80637 TTGCGATAGTCGAAGTTCGCG
1 TTGCGATAGTCCAAGTTCG-G
** *
80658 TTGCGATTTTCCAAATTC-G
1 TTGCGATAGTCCAAGTTCGG
* *
80677 TTGCGGTAGTCGAAGTTCGCG
1 TTGCGATAGTCCAAGTTCG-G
* *
80698 TTGCGATTTATTCCAAATTC-G
1 TTGCGA--TAGTCCAAGTTCGG
*
80719 TTGCGATAGTCGAAGTTCGCG
1 TTGCGATAGTCCAAGTTCG-G
* *
80740 TTGCGATGTATTCCAAATTC-G
1 TTGCGA--TAGTCCAAGTTCGG
80761 TTGCGATAGTCCAA
1 TTGCGATAGTCCAA
80775 AATCGCAACG
Statistics
Matches: 107, Mismatches: 23, Indels: 18
0.72 0.16 0.12
Matches are distributed among these distances:
19 30 0.28
21 59 0.55
23 18 0.17
ACGTcount: A:0.21, C:0.19, G:0.25, T:0.35
Consensus pattern (20 bp):
TTGCGATAGTCCAAGTTCGG
Found at i:80662 original size:42 final size:41
Alignment explanation
Indices: 80610--80771 Score: 247
Period size: 42 Copynumber: 3.9 Consensus size: 41
80600 GATTTACATA
* *
80610 TTCGCATTGCGA-TATTCCAAGTTCGTGTTGCGATAGTCGAAG
1 TTCGCGTTGCGATTATTCCAAATTC--GTTGCGATAGTCGAAG
*
80652 TTCGCGTTGCGATT-TTCCAAATTCGTTGCGGTAGTCGAAG
1 TTCGCGTTGCGATTATTCCAAATTCGTTGCGATAGTCGAAG
80692 TTCGCGTTGCGATTTATTCCAAATTCGTTGCGATAGTCGAAG
1 TTCGCGTTGCGA-TTATTCCAAATTCGTTGCGATAGTCGAAG
80734 TTCGCGTTGCGATGTATTCCAAATTCGTTGCGATAGTC
1 TTCGCGTTGCGAT-TATTCCAAATTCGTTGCGATAGTC
80772 CAAAATCGCA
Statistics
Matches: 112, Mismatches: 4, Indels: 8
0.90 0.03 0.06
Matches are distributed among these distances:
40 27 0.24
41 3 0.03
42 81 0.72
43 1 0.01
ACGTcount: A:0.20, C:0.20, G:0.25, T:0.35
Consensus pattern (41 bp):
TTCGCGTTGCGATTATTCCAAATTCGTTGCGATAGTCGAAG
Found at i:80875 original size:6 final size:6
Alignment explanation
Indices: 80864--80902 Score: 78
Period size: 6 Copynumber: 6.5 Consensus size: 6
80854 GACACGTATT
80864 ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG ACC
1 ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG ACC
80903 CGAGACAAGA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 33 1.00
ACGTcount: A:0.33, C:0.51, G:0.15, T:0.00
Consensus pattern (6 bp):
ACCACG
Found at i:81561 original size:21 final size:21
Alignment explanation
Indices: 81496--81692 Score: 174
Period size: 21 Copynumber: 9.4 Consensus size: 21
81486 ATTTTGGACT
81496 ATCGCAACGAATTT-GAATAA
1 ATCGCAACGAATTTGGAATAA
* * *
81516 ATCGTAACGCGAAGTTGGACT--
1 ATCGCAA--CGAATTTGGAATAA
81537 ATCGCAACGAATTTGGAATAA
1 ATCGCAACGAATTTGGAATAA
81558 ATCGCAACGAATTTGGAATAA
1 ATCGCAACGAATTTGGAATAA
* * *
81579 ATCGCAACGCGAACTTCGACT--
1 ATCGCAA--CGAATTTGGAATAA
* *
81600 ATCGCAATGAACTTGGAATAA
1 ATCGCAACGAATTTGGAATAA
* *
81621 ATCGCAACGCGAACTTGGACT--
1 ATCGCAA--CGAATTTGGAATAA
*
81642 ATCGCAATGAATTTGGAATAA
1 ATCGCAACGAATTTGGAATAA
*
81663 ATCGCAACGAATTTAGAATAA
1 ATCGCAACGAATTTGGAATAA
*
81684 ATCACAACG
1 ATCGCAACG
81693 CGAACTTGGA
Statistics
Matches: 144, Mismatches: 20, Indels: 25
0.76 0.11 0.13
Matches are distributed among these distances:
19 28 0.19
20 6 0.04
21 82 0.57
22 6 0.04
23 22 0.15
ACGTcount: A:0.39, C:0.19, G:0.19, T:0.23
Consensus pattern (21 bp):
ATCGCAACGAATTTGGAATAA
Found at i:81588 original size:63 final size:62
Alignment explanation
Indices: 81496--81629 Score: 214
Period size: 63 Copynumber: 2.1 Consensus size: 62
81486 ATTTTGGACT
* * * *
81496 ATCGCAACGAATTTGAATAAATCGTAACGCGAAGTTGGACTATCGCAACGAATTTGGAATAA
1 ATCGCAACGAATTTGAATAAATCGCAACGCGAACTTCGACTATCGCAACGAACTTGGAATAA
*
81558 ATCGCAACGAATTTGGAATAAATCGCAACGCGAACTTCGACTATCGCAATGAACTTGGAATAA
1 ATCGCAACGAATTT-GAATAAATCGCAACGCGAACTTCGACTATCGCAACGAACTTGGAATAA
81621 ATCGCAACG
1 ATCGCAACG
81630 CGAACTTGGA
Statistics
Matches: 66, Mismatches: 5, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
62 14 0.21
63 52 0.79
ACGTcount: A:0.38, C:0.19, G:0.20, T:0.22
Consensus pattern (62 bp):
ATCGCAACGAATTTGAATAAATCGCAACGCGAACTTCGACTATCGCAACGAACTTGGAATAA
Found at i:81646 original size:63 final size:63
Alignment explanation
Indices: 81516--81711 Score: 220
Period size: 63 Copynumber: 3.1 Consensus size: 63
81506 ATTTGAATAA
* * * *
81516 ATCGTAACGCGAAGTTGGACTATCGCAACGAATTTGGAATAAATCGCAA--CGAATTTGGAAT
1 ATCGCAACGCGAACTTGGACTATCGCAACGAATTTGGAATAAATCGCAACGCGAACTTGGACT
* * *
81577 AAATCGCAACGCGAACTTCGACTATCGCAATGAACTTGGAATAAATCGCAACGCGAACTTGGACT
1 --ATCGCAACGCGAACTTGGACTATCGCAACGAATTTGGAATAAATCGCAACGCGAACTTGGACT
* * * * *
81642 ATCGCAA--TGAATTTGGAATAAATCGCAACGAATTTAGAATAAATCACAACGCGAACTTGGACT
1 ATCGCAACGCGAACTTGGACT--ATCGCAACGAATTTGGAATAAATCGCAACGCGAACTTGGACT
81705 ATCGCAA
1 ATCGCAA
81712 TGCAATAGTC
Statistics
Matches: 114, Mismatches: 15, Indels: 8
0.83 0.11 0.06
Matches are distributed among these distances:
61 8 0.07
63 96 0.84
65 10 0.09
ACGTcount: A:0.38, C:0.20, G:0.20, T:0.22
Consensus pattern (63 bp):
ATCGCAACGCGAACTTGGACTATCGCAACGAATTTGGAATAAATCGCAACGCGAACTTGGACT
Found at i:81692 original size:105 final size:104
Alignment explanation
Indices: 81492--81713 Score: 363
Period size: 105 Copynumber: 2.1 Consensus size: 104
81482 TGCGATTTTG
* * * *
81492 GACTATCGCAACGAATTTGAATAAATCGTAACGCGAAGTTGGACTATCGCAACGAATTTGGAATA
1 GACTATCGCAATGAATTGGAATAAATCGCAACGCGAACTTGGACTATCGCAACGAATTTGGAATA
* *
81557 AATCGCAACGAATTTGGAATAAATCGCAACGCGAACTTC
66 AATCGCAACGAATTTAGAATAAATCACAACGCGAACTTC
*
81596 GACTATCGCAATGAACTTGGAATAAATCGCAACGCGAACTTGGACTATCGCAATGAATTTGGAAT
1 GACTATCGCAATGAA-TTGGAATAAATCGCAACGCGAACTTGGACTATCGCAACGAATTTGGAAT
*
81661 AAATCGCAACGAATTTAGAATAAATCACAACGCGAACTTG
65 AAATCGCAACGAATTTAGAATAAATCACAACGCGAACTTC
81701 GACTATCGCAATG
1 GACTATCGCAATG
81714 CAATAGTCGA
Statistics
Matches: 109, Mismatches: 8, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
104 14 0.13
105 95 0.87
ACGTcount: A:0.38, C:0.19, G:0.20, T:0.23
Consensus pattern (104 bp):
GACTATCGCAATGAATTGGAATAAATCGCAACGCGAACTTGGACTATCGCAACGAATTTGGAATA
AATCGCAACGAATTTAGAATAAATCACAACGCGAACTTC
Found at i:89564 original size:29 final size:30
Alignment explanation
Indices: 89492--89565 Score: 80
Period size: 29 Copynumber: 2.5 Consensus size: 30
89482 CGATTTAACG
*
89492 GTTCAGTGGTATAATTGTAACGAAAATCAAA
1 GTTCAGTGGTATAATTGTAAC-AAAATAAAA
* **
89523 GTTCAATATTATAATTG-AA-AAAATTAAAA
1 GTTCAGTGGTATAATTGTAACAAAA-TAAAA
89552 GTTCAGTGGTATAA
1 GTTCAGTGGTATAA
89566 ACGTTACAAC
Statistics
Matches: 35, Mismatches: 7, Indels: 4
0.76 0.15 0.09
Matches are distributed among these distances:
28 4 0.11
29 15 0.43
30 2 0.06
31 14 0.40
ACGTcount: A:0.45, C:0.07, G:0.16, T:0.32
Consensus pattern (30 bp):
GTTCAGTGGTATAATTGTAACAAAATAAAA
Found at i:94850 original size:10 final size:10
Alignment explanation
Indices: 94837--94873 Score: 65
Period size: 10 Copynumber: 3.7 Consensus size: 10
94827 CGACCGAGGC
94837 CATCCGAAAG
1 CATCCGAAAG
*
94847 CATCCGAGAG
1 CATCCGAAAG
94857 CATCCGAAAG
1 CATCCGAAAG
94867 CATCCGA
1 CATCCGA
94874 CCGAGGCCAT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
10 25 1.00
ACGTcount: A:0.35, C:0.32, G:0.22, T:0.11
Consensus pattern (10 bp):
CATCCGAAAG
Found at i:94926 original size:33 final size:33
Alignment explanation
Indices: 94874--94958 Score: 125
Period size: 33 Copynumber: 2.6 Consensus size: 33
94864 AAGCATCCGA
* * * *
94874 CCGAGGCCATCCGAACGAGCTATGCCAGGGCAT
1 CCGAGGGCAACCGAGCGAGCTATGCCAGGGAAT
*
94907 CCGAGGGCAACCGAGCGAGCTATGCGAGGGAAT
1 CCGAGGGCAACCGAGCGAGCTATGCCAGGGAAT
94940 CCGAGGGCAACCGAGCGAG
1 CCGAGGGCAACCGAGCGAG
94959 GGTAGGTCGC
Statistics
Matches: 47, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
33 47 1.00
ACGTcount: A:0.26, C:0.29, G:0.36, T:0.08
Consensus pattern (33 bp):
CCGAGGGCAACCGAGCGAGCTATGCCAGGGAAT
Found at i:95048 original size:23 final size:23
Alignment explanation
Indices: 95019--95070 Score: 77
Period size: 23 Copynumber: 2.3 Consensus size: 23
95009 CCCTCAGATT
*
95019 CCCTCGCATAGCTCGCTCGGTTG
1 CCCTCGCATAGCTCGCTCGGATG
*
95042 CCCTCGCATAGCTCGTTCGGATG
1 CCCTCGCATAGCTCGCTCGGATG
*
95065 GCCTCG
1 CCCTCG
95071 GTCGGATGGC
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 26 1.00
ACGTcount: A:0.10, C:0.38, G:0.27, T:0.25
Consensus pattern (23 bp):
CCCTCGCATAGCTCGCTCGGATG
Found at i:95075 original size:14 final size:14
Alignment explanation
Indices: 95053--95085 Score: 57
Period size: 14 Copynumber: 2.4 Consensus size: 14
95043 CCTCGCATAG
*
95053 CTCGTTCGGATGGC
1 CTCGGTCGGATGGC
95067 CTCGGTCGGATGGC
1 CTCGGTCGGATGGC
95081 CTCGG
1 CTCGG
95086 ATGCTCTCGG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.06, C:0.30, G:0.39, T:0.24
Consensus pattern (14 bp):
CTCGGTCGGATGGC
Found at i:95085 original size:10 final size:10
Alignment explanation
Indices: 95072--95108 Score: 58
Period size: 10 Copynumber: 3.7 Consensus size: 10
95062 ATGGCCTCGG
95072 TCGGATGGCC
1 TCGGATGGCC
95082 TCGGAT-GCTC
1 TCGGATGGC-C
95092 TCGGATGGCC
1 TCGGATGGCC
95102 TCGGATG
1 TCGGATG
95109 CTTTCGGATG
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
9 2 0.08
10 21 0.84
11 2 0.08
ACGTcount: A:0.11, C:0.27, G:0.38, T:0.24
Consensus pattern (10 bp):
TCGGATGGCC
Found at i:95097 original size:20 final size:20
Alignment explanation
Indices: 95072--95120 Score: 89
Period size: 20 Copynumber: 2.5 Consensus size: 20
95062 ATGGCCTCGG
95072 TCGGATGGCCTCGGATGCTC
1 TCGGATGGCCTCGGATGCTC
*
95092 TCGGATGGCCTCGGATGCTT
1 TCGGATGGCCTCGGATGCTC
95112 TCGGATGGC
1 TCGGATGGC
95121 TCGATCGATG
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.10, C:0.27, G:0.37, T:0.27
Consensus pattern (20 bp):
TCGGATGGCCTCGGATGCTC
Found at i:95115 original size:10 final size:10
Alignment explanation
Indices: 95072--95118 Score: 53
Period size: 10 Copynumber: 4.7 Consensus size: 10
95062 ATGGCCTCGG
95072 TCGGATGGC-C
1 TCGGAT-GCTC
95082 TCGGATGCTC
1 TCGGATGCTC
95092 TCGGATGGC-C
1 TCGGAT-GCTC
*
95102 TCGGATGCTT
1 TCGGATGCTC
95112 TCGGATG
1 TCGGATG
95119 GCTCGATCGA
Statistics
Matches: 33, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
9 4 0.12
10 27 0.82
11 2 0.06
ACGTcount: A:0.11, C:0.26, G:0.36, T:0.28
Consensus pattern (10 bp):
TCGGATGCTC
Found at i:96531 original size:76 final size:74
Alignment explanation
Indices: 96398--96569 Score: 274
Period size: 76 Copynumber: 2.3 Consensus size: 74
96388 TTCGAAACAA
* * *
96398 CTGCAATTCATTCCCTCAACTAGAAAAATGTAGGTATCCAAGGGGAATTAGCAGATGAAATTAAG
1 CTGCATTTCATCCCCTCAACTAGAAAAATGTAGGTATCCAAGGGGAATTAGAAGATGAAATTAAG
96463 ATATCATAG
66 ATATCATAG
*
96472 CTGCACTACTTCATCCCCTCAACTAG-AAAATGTAGGTATCCAAGGGGCATTAGAAGATGAAATT
1 CTGCA-T--TTCATCCCCTCAACTAGAAAAATGTAGGTATCCAAGGGGAATTAGAAGATGAAATT
96536 AAGATATCATAG
63 AAGATATCATAG
96548 CTGCATTTCATCCCCTCAACTA
1 CTGCATTTCATCCCCTCAACTA
96570 TGAACAATAG
Statistics
Matches: 91, Mismatches: 4, Indels: 7
0.89 0.04 0.07
Matches are distributed among these distances:
73 16 0.18
74 5 0.05
75 1 0.01
76 53 0.58
77 16 0.18
ACGTcount: A:0.36, C:0.21, G:0.17, T:0.26
Consensus pattern (74 bp):
CTGCATTTCATCCCCTCAACTAGAAAAATGTAGGTATCCAAGGGGAATTAGAAGATGAAATTAAG
ATATCATAG
Found at i:98671 original size:28 final size:27
Alignment explanation
Indices: 98628--98700 Score: 74
Period size: 28 Copynumber: 2.6 Consensus size: 27
98618 TATTTTTGAC
*
98628 AAAAAAAATAAGTTTAGGTACTTTTTTG
1 AAAAAAAAT-ACTTTAGGTACTTTTTTG
* ***
98656 AATAAAAAATACTTTAAGTACTTAGATG
1 AA-AAAAAATACTTTAGGTACTTTTTTG
98684 AAAAAAATATACTTTAG
1 AAAAAAA-ATACTTTAG
98701 ATTTTATTTA
Statistics
Matches: 37, Mismatches: 6, Indels: 4
0.79 0.13 0.09
Matches are distributed among these distances:
27 5 0.14
28 25 0.68
29 7 0.19
ACGTcount: A:0.49, C:0.05, G:0.11, T:0.34
Consensus pattern (27 bp):
AAAAAAAATACTTTAGGTACTTTTTTG
Found at i:100171 original size:2 final size:2
Alignment explanation
Indices: 100164--100197 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
100154 ATTATACCCA
100164 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
100198 GTGTGTGTGT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:101305 original size:3 final size:3
Alignment explanation
Indices: 101299--101347 Score: 64
Period size: 3 Copynumber: 16.7 Consensus size: 3
101289 TTTTTTTTAA
** *
101299 TAT TAT TAT TAT TAT CGT TA- TAT TAT TAT TAT TAC TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
101346 TA
1 TA
101348 ATTTACAAAT
Statistics
Matches: 39, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
2 2 0.05
3 37 0.95
ACGTcount: A:0.33, C:0.04, G:0.02, T:0.61
Consensus pattern (3 bp):
TAT
Found at i:108535 original size:14 final size:15
Alignment explanation
Indices: 108516--108546 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
108506 AAGAGAAGAC
108516 AAATTTG-TGGGGCA
1 AAATTTGATGGGGCA
108530 AAATTTGATGGGGCA
1 AAATTTGATGGGGCA
108545 AA
1 AA
108547 TAAAACAATT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 7 0.44
15 9 0.56
ACGTcount: A:0.35, C:0.06, G:0.32, T:0.26
Consensus pattern (15 bp):
AAATTTGATGGGGCA
Found at i:109384 original size:105 final size:103
Alignment explanation
Indices: 109197--109436 Score: 288
Period size: 105 Copynumber: 2.3 Consensus size: 103
109187 TGAGAATTTT
* * *
109197 AAAACAAATTGCGTCTCGCTTGAGACATTTTTCCTTTGAGATACAAATTTTGAATTTGATTCACT
1 AAAACAAATTTCGTCTCGCTTGAGACATTTTCCCTTTGAGATACAAATTTCGAATTTGATTCACT
* ***
109262 AAAAACAAAATTAATCTCACCTT-AGATTGTTGTTTCTTTC
66 AAAAACAAAATTAATCTCA-CTTGAGATCG-T-TTTCTCAA
* * *
109302 AAAACAAATTTCGTCTCGCTTGAGACCTTTTCCCTTTGAGATCCAAATTTCGAATTTGTTTCAC-
1 AAAACAAATTTCGTCTCGCTTGAGACATTTTCCCTTTGAGATACAAATTTCGAATTTGATTCACT
* * *
109366 ATTAAACAAAGTTGATCTCACTTGAGATCGTTTTCTCAA
66 A-AAAACAAAATTAATCTCACTTGAGATCGTTTTCTCAA
*
109405 AAAACAAACTTT-GTCTCGCTTGAGACAATTTC
1 AAAACAAA-TTTCGTCTCGCTTGAGACATTTTC
109437 TCTAAAAACA
Statistics
Matches: 117, Mismatches: 15, Indels: 8
0.84 0.11 0.06
Matches are distributed among these distances:
103 31 0.26
104 8 0.07
105 78 0.67
ACGTcount: A:0.31, C:0.20, G:0.12, T:0.37
Consensus pattern (103 bp):
AAAACAAATTTCGTCTCGCTTGAGACATTTTCCCTTTGAGATACAAATTTCGAATTTGATTCACT
AAAAACAAAATTAATCTCACTTGAGATCGTTTTCTCAA
Found at i:109427 original size:37 final size:36
Alignment explanation
Indices: 109381--109466 Score: 109
Period size: 36 Copynumber: 2.4 Consensus size: 36
109371 ACAAAGTTGA
**
109381 TCTCACTTGAGATCGTTTTCTCAAAAAACAAACTTTG
1 TCTCACTTGAGA-CAATTTCTCAAAAAACAAACTTTG
* * *
109418 TCTCGCTTGAGACAATTTCTCTAAAAACAAATTTTG
1 TCTCACTTGAGACAATTTCTCAAAAAACAAACTTTG
*
109454 TCTCATTTGAGAC
1 TCTCACTTGAGAC
109467 TATATCTTAA
Statistics
Matches: 42, Mismatches: 7, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
36 31 0.74
37 11 0.26
ACGTcount: A:0.31, C:0.21, G:0.12, T:0.36
Consensus pattern (36 bp):
TCTCACTTGAGACAATTTCTCAAAAAACAAACTTTG
Found at i:109444 original size:36 final size:35
Alignment explanation
Indices: 109369--109501 Score: 108
Period size: 36 Copynumber: 3.7 Consensus size: 35
109359 GTTTCACATT
* * ** *
109369 AAACAAAGTTGATCTCACTTGAGATCGTTTTCTCAAA
1 AAACAAATTTG-TCTCGCTTGAGA-CAATTTCTCTAA
109406 AAACAAACTTTGTCTCGCTTGAGACAATTTCTCTAA
1 AAACAAA-TTTGTCTCGCTTGAGACAATTTCTCTAA
** * *
109442 AAACAAATTTTGTCTCATTTGAGACTATATCT-T-A
1 AAACAAA-TTTGTCTCGCTTGAGACAATTTCTCTAA
* *
109476 AAGCGAATTTCGTCTCGCTTGAGACA
1 AAACAAATTT-GTCTCGCTTGAGACA
109502 TCATTTTCTC
Statistics
Matches: 79, Mismatches: 15, Indels: 7
0.78 0.15 0.07
Matches are distributed among these distances:
33 3 0.04
34 18 0.23
35 1 0.01
36 36 0.46
37 18 0.23
38 3 0.04
ACGTcount: A:0.33, C:0.20, G:0.14, T:0.34
Consensus pattern (35 bp):
AAACAAATTTGTCTCGCTTGAGACAATTTCTCTAA
Found at i:109787 original size:28 final size:28
Alignment explanation
Indices: 109756--109819 Score: 101
Period size: 28 Copynumber: 2.3 Consensus size: 28
109746 GTGGAAAAAA
*
109756 AAATCTTTGAGAGTGTTTCTTTAGAAAC
1 AAATCTTTGAGACTGTTTCTTTAGAAAC
* *
109784 AAATCTTTGAGTCTGTTTCTTTTGAAAC
1 AAATCTTTGAGACTGTTTCTTTAGAAAC
109812 AAATCTTT
1 AAATCTTT
109820 AAATCAATTT
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
28 33 1.00
ACGTcount: A:0.30, C:0.12, G:0.14, T:0.44
Consensus pattern (28 bp):
AAATCTTTGAGACTGTTTCTTTAGAAAC
Found at i:109830 original size:28 final size:28
Alignment explanation
Indices: 109771--109831 Score: 77
Period size: 28 Copynumber: 2.2 Consensus size: 28
109761 TTTGAGAGTG
* * **
109771 TTTCTTTAGAAACAAATCTTTGAGTCTG
1 TTTCTTTAGAAACAAATCTTTAAATCAA
*
109799 TTTCTTTTGAAACAAATCTTTAAATCAA
1 TTTCTTTAGAAACAAATCTTTAAATCAA
109827 TTTCT
1 TTTCT
109832 CCTGAAACCA
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.31, C:0.15, G:0.08, T:0.46
Consensus pattern (28 bp):
TTTCTTTAGAAACAAATCTTTAAATCAA
Found at i:109837 original size:28 final size:28
Alignment explanation
Indices: 109779--109839 Score: 68
Period size: 28 Copynumber: 2.2 Consensus size: 28
109769 TGTTTCTTTA
* * ** **
109779 GAAACAAATCTTTGAGTCTGTTTCTTTT
1 GAAACAAATCTTTAAATCAATTTCTCCT
109807 GAAACAAATCTTTAAATCAATTTCTCCT
1 GAAACAAATCTTTAAATCAATTTCTCCT
109835 GAAAC
1 GAAAC
109840 CATGATCCCT
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.34, C:0.18, G:0.10, T:0.38
Consensus pattern (28 bp):
GAAACAAATCTTTAAATCAATTTCTCCT
Found at i:110163 original size:133 final size:134
Alignment explanation
Indices: 109847--110196 Score: 578
Period size: 133 Copynumber: 2.6 Consensus size: 134
109837 AACCATGATC
109847 CCTAAAGATGGCCAGAACTCTTCATCACGTATGAGCCGTGCCATCCCCTGACCAGATCTCCTCAT
1 CCTAAAGATGGCCAGAACTCTTCATCACGTATGAGCCGTGCCATCCCCTGACCAGATCTCCTCAT
* * * *
109912 CATGTAGGAGCCATGTCAACCATAGATAACCAGCCGTCCTCATCACGTAGGAACCGTGTTATCGC
66 CACGTAGGAGCCGTGTCAACCATAGATAACCAGCCGTCCTCATCACGTAGGAACCGGGTTATCAC
109977 CCTA
131 CCTA
*
109981 CCTAAAGATGGCCAGAACTCTTCATCACGTATGAGCCGTGCCATCCCCTGACCAGACCTCCTCAT
1 CCTAAAGATGGCCAGAACTCTTCATCACGTATGAGCCGTGCCATCCCCTGACCAGATCTCCTCAT
* *
110046 CACGTAGGAGCCGTGTCATCC-TAGATAACCAGCCGTCCTCATCACGTAGGAATCGGGTTATCAC
66 CACGTAGGAGCCGTGTCAACCATAGATAACCAGCCGTCCTCATCACGTAGGAACCGGGTTATCAC
110110 TCCT-
131 -CCTA
* * * *
110114 CCTAAAGATGACCAGAACTCTTCATCACATATGAGCAGTGTCATCCCCTGACCAGATCTCCTCAT
1 CCTAAAGATGGCCAGAACTCTTCATCACGTATGAGCCGTGCCATCCCCTGACCAGATCTCCTCAT
110179 CACGTAGGAGCCGTGTCA
66 CACGTAGGAGCCGTGTCA
110197 CCCTTAGACG
Statistics
Matches: 203, Mismatches: 12, Indels: 3
0.93 0.06 0.01
Matches are distributed among these distances:
133 118 0.58
134 85 0.42
ACGTcount: A:0.26, C:0.33, G:0.19, T:0.23
Consensus pattern (134 bp):
CCTAAAGATGGCCAGAACTCTTCATCACGTATGAGCCGTGCCATCCCCTGACCAGATCTCCTCAT
CACGTAGGAGCCGTGTCAACCATAGATAACCAGCCGTCCTCATCACGTAGGAACCGGGTTATCAC
CCTA
Found at i:110402 original size:3 final size:3
Alignment explanation
Indices: 110396--110444 Score: 64
Period size: 3 Copynumber: 16.7 Consensus size: 3
110386 TTTTTTTTAA
** *
110396 TAT TAT TAT TAT TAT CGT TA- TAT TAT TAT TAT TAC TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
110443 TA
1 TA
110445 ATTTACAAAT
Statistics
Matches: 39, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
2 2 0.05
3 37 0.95
ACGTcount: A:0.33, C:0.04, G:0.02, T:0.61
Consensus pattern (3 bp):
TAT
Found at i:122584 original size:29 final size:29
Alignment explanation
Indices: 122550--122629 Score: 99
Period size: 32 Copynumber: 2.7 Consensus size: 29
122540 CTTTTTAATT
122550 TAAGTACCTAAAGTATTTTTTGGTCT-AAA
1 TAAGTACCTAAAGTATTTTTTGGT-TAAAA
*
122579 TAAGTACCTAAAGTTATATTTTTTTGTTAAAA
1 TAAGTACCTAAAG---TATTTTTTGGTTAAAA
*
122611 TAAGTATCTAAAGTATTTT
1 TAAGTACCTAAAGTATTTT
122630 ATGTGAAAAT
Statistics
Matches: 45, Mismatches: 2, Indels: 8
0.82 0.04 0.15
Matches are distributed among these distances:
29 19 0.42
31 1 0.02
32 25 0.56
ACGTcount: A:0.36, C:0.07, G:0.11, T:0.45
Consensus pattern (29 bp):
TAAGTACCTAAAGTATTTTTTGGTTAAAA
Found at i:122612 original size:32 final size:32
Alignment explanation
Indices: 122516--122624 Score: 95
Period size: 32 Copynumber: 3.5 Consensus size: 32
122506 CTTATATCAC
* * *
122516 AAATAAGTATCT-AAGGTATATATTCTTT-TTA
1 AAATAAGTACCTAAAGTTATAT-TTTTTTGTTA
** *
122547 ATTTAAGTACCTAAAG---TATTTTTTGGTCT-
1 AAATAAGTACCTAAAGTTATATTTTTTTGT-TA
122576 AAATAAGTACCTAAAGTTATATTTTTTTGTTA
1 AAATAAGTACCTAAAGTTATATTTTTTTGTTA
*
122608 AAATAAGTATCTAAAGT
1 AAATAAGTACCTAAAGT
122625 ATTTTATGTG
Statistics
Matches: 62, Mismatches: 9, Indels: 13
0.74 0.11 0.15
Matches are distributed among these distances:
28 4 0.06
29 18 0.29
30 1 0.02
31 10 0.16
32 29 0.47
ACGTcount: A:0.38, C:0.07, G:0.11, T:0.44
Consensus pattern (32 bp):
AAATAAGTACCTAAAGTTATATTTTTTTGTTA
Found at i:122615 original size:61 final size:60
Alignment explanation
Indices: 122516--122629 Score: 149
Period size: 61 Copynumber: 1.9 Consensus size: 60
122506 CTTATATCAC
* **
122516 AAATAAGTATCTAAGGTATATATTCTTTTTAATTTAAGTACCTAAAGTATTTTTTGGTCT
1 AAATAAGTACCTAAGGTATATATTCTTTTTAAAATAAGTACCTAAAGTATTTTTTGGTCT
* * *
122576 AAATAAGTACCTAAAGT-TATATTTTTTTGTTAAAATAAGTATCTAAAGTATTTT
1 AAATAAGTACCTAAGGTATATA-TTCTTT-TTAAAATAAGTACCTAAAGTATTTT
122630 ATGTGAAAAT
Statistics
Matches: 46, Mismatches: 6, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
59 4 0.09
60 20 0.43
61 22 0.48
ACGTcount: A:0.37, C:0.07, G:0.11, T:0.46
Consensus pattern (60 bp):
AAATAAGTACCTAAGGTATATATTCTTTTTAAAATAAGTACCTAAAGTATTTTTTGGTCT
Found at i:122638 original size:28 final size:28
Alignment explanation
Indices: 122550--122640 Score: 92
Period size: 32 Copynumber: 3.1 Consensus size: 28
122540 CTTTTTAATT
*
122550 TAAGTACCTAAAGTATTTTTTGGTCTAAA
1 TAAGTACCTAAAGTATTTTTT-GTCAAAA
*
122579 TAAGTACCTAAAGTTATATTTTTTTGTTAAAA
1 TAAGTACCTAAAG---TA-TTTTTTGTCAAAA
* * *
122611 TAAGTATCTAAAGTATTTTATGTGAAAA
1 TAAGTACCTAAAGTATTTTTTGTCAAAA
122639 TA
1 TA
122641 GGTATATAAA
Statistics
Matches: 53, Mismatches: 5, Indels: 9
0.79 0.07 0.13
Matches are distributed among these distances:
28 13 0.25
29 15 0.28
32 19 0.36
33 6 0.11
ACGTcount: A:0.38, C:0.07, G:0.12, T:0.43
Consensus pattern (28 bp):
TAAGTACCTAAAGTATTTTTTGTCAAAA
Found at i:122645 original size:28 final size:28
Alignment explanation
Indices: 122598--122655 Score: 71
Period size: 28 Copynumber: 2.1 Consensus size: 28
122588 AAAGTTATAT
* * * *
122598 TTTTTTGTTAAAATAAGTATCTAAAGTA
1 TTTTATGTGAAAATAAGTATATAAACTA
*
122626 TTTTATGTGAAAATAGGTATATAAACTA
1 TTTTATGTGAAAATAAGTATATAAACTA
122654 TT
1 TT
122656 CATACTTATT
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
28 25 1.00
ACGTcount: A:0.40, C:0.03, G:0.12, T:0.45
Consensus pattern (28 bp):
TTTTATGTGAAAATAAGTATATAAACTA
Found at i:122799 original size:31 final size:30
Alignment explanation
Indices: 122765--122846 Score: 96
Period size: 31 Copynumber: 2.7 Consensus size: 30
122755 ATTTTGATAA
122765 AAAAAAATACTTTAGATACTTATTTTGACC
1 AAAAAAATACTTTAGATACTTATTTTGACC
* * **
122795 AAAAATATAACTTTAGGTGTTTATTTTGACC
1 AAAAAAAT-ACTTTAGATACTTATTTTGACC
122826 -AAAAAATACTTTA-AGTACTTA
1 AAAAAAATACTTTAGA-TACTTA
122847 AATAAAAATG
Statistics
Matches: 42, Mismatches: 8, Indels: 5
0.76 0.15 0.09
Matches are distributed among these distances:
29 10 0.24
30 13 0.31
31 19 0.45
ACGTcount: A:0.43, C:0.11, G:0.09, T:0.38
Consensus pattern (30 bp):
AAAAAAATACTTTAGATACTTATTTTGACC
Found at i:123986 original size:26 final size:28
Alignment explanation
Indices: 123935--123993 Score: 79
Period size: 27 Copynumber: 2.2 Consensus size: 28
123925 ATTTTTTTTT
*
123935 TTAAA-ATTTTTCTAATTTATATAAAAA
1 TTAAATATTTTTCTAATTTATAAAAAAA
*
123962 TTAAATATTTTT-TAATTTA-AAAAAAT
1 TTAAATATTTTTCTAATTTATAAAAAAA
123988 TTAAAT
1 TTAAAT
123994 TAATTTAATA
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
26 11 0.38
27 12 0.41
28 6 0.21
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (28 bp):
TTAAATATTTTTCTAATTTATAAAAAAA
Found at i:124342 original size:186 final size:190
Alignment explanation
Indices: 123985--124331 Score: 496
Period size: 184 Copynumber: 1.9 Consensus size: 190
123975 AATTTAAAAA
* *
123985 AATTTAAATTAATTTAATAATATAATTATAAAAATATTTCAGATAAATTTTTTAATTAATTAATA
1 AATTTAAATTAATATAATAATATAATAATAAAAATATTTCAGATAAATTTTTTAATTAATTAATA
* * * **
124050 TTGATTTAGGTTTAAAAGTTATTGTATCTTAAATTATTAATTGGGTTTTAAATGGTTTGGGATTA
66 TTGATTTAGGTTTAAAAGTTATTGTATCTAAAATTATTAATTGAGTTTTAAATAGTTTGGGACGA
* *
124115 GCCCATATGTTATATAATATATATATATAATATTTTTTAATTAAAAAACAGTTCACAATT
131 GCCCATATGTTATATAATATAAATATATAAAATTTTTTAATTAAAAAACAGTTCACAATT
* *
124175 AATTTAAA-TAATAT-ATAATTATAA-AATAAAAA-ATTT-ATATAATTTTTTTAATTAATTAAT
1 AATTTAAATTAATATAATAA-TATAATAATAAAAATATTTCAGATAAATTTTTTAATTAATTAAT
* *
124235 ATTGATTTATGTTTAAAAGTTATTG-AT-TAAAATTATTAATTGAGTTTTAAATAGTTTGGGCCG
65 ATTGATTTAGGTTTAAAAGTTATTGTATCTAAAATTATTAATTGAGTTTTAAATAGTTTGGGACG
*
124298 AGCCCATATGTTATAT-ATA-AAATATTTAAAATTT
130 AGCCCATATGTTATATAATATAAATATATAAAATTT
124332 AAAATTTAAT
Statistics
Matches: 142, Mismatches: 14, Indels: 10
0.86 0.08 0.06
Matches are distributed among these distances:
182 12 0.08
183 3 0.02
184 46 0.32
185 2 0.01
186 46 0.32
187 4 0.03
188 11 0.08
189 10 0.07
190 8 0.06
ACGTcount: A:0.42, C:0.04, G:0.09, T:0.46
Consensus pattern (190 bp):
AATTTAAATTAATATAATAATATAATAATAAAAATATTTCAGATAAATTTTTTAATTAATTAATA
TTGATTTAGGTTTAAAAGTTATTGTATCTAAAATTATTAATTGAGTTTTAAATAGTTTGGGACGA
GCCCATATGTTATATAATATAAATATATAAAATTTTTTAATTAAAAAACAGTTCACAATT
Found at i:125515 original size:24 final size:24
Alignment explanation
Indices: 125487--125533 Score: 94
Period size: 24 Copynumber: 2.0 Consensus size: 24
125477 TATGGGTAAG
125487 TTACATCATTTATCACTAAACTAA
1 TTACATCATTTATCACTAAACTAA
125511 TTACATCATTTATCACTAAACTA
1 TTACATCATTTATCACTAAACTA
125534 TTTATTCACT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.40, C:0.21, G:0.00, T:0.38
Consensus pattern (24 bp):
TTACATCATTTATCACTAAACTAA
Found at i:125751 original size:16 final size:17
Alignment explanation
Indices: 125701--125752 Score: 58
Period size: 16 Copynumber: 3.2 Consensus size: 17
125691 AAAAAATTTA
125701 AATTTGAAAGTTAGAGT
1 AATTTGAAAGTTAGAGT
*
125718 GA-TT-AAA-TTAGGAGT
1 AATTTGAAAGTTA-GAGT
125733 AATTTGAAAGTTA-AGT
1 AATTTGAAAGTTAGAGT
125749 AATT
1 AATT
125753 AAATTAAAAA
Statistics
Matches: 29, Mismatches: 2, Indels: 9
0.73 0.05 0.22
Matches are distributed among these distances:
14 3 0.10
15 8 0.28
16 11 0.38
17 4 0.14
18 3 0.10
ACGTcount: A:0.42, C:0.00, G:0.21, T:0.37
Consensus pattern (17 bp):
AATTTGAAAGTTAGAGT
Found at i:126382 original size:20 final size:21
Alignment explanation
Indices: 126341--126382 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
126331 TCTGGGCAAG
* *
126341 GGGGAATCGGTACCCATTCAA
1 GGGGAACCGATACCCATTCAA
126362 GGGGAACCGATACCC-TTCAA
1 GGGGAACCGATACCCATTCAA
126382 G
1 G
126383 CGAATATGAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
20 6 0.32
21 13 0.68
ACGTcount: A:0.29, C:0.26, G:0.29, T:0.17
Consensus pattern (21 bp):
GGGGAACCGATACCCATTCAA
Found at i:131093 original size:22 final size:22
Alignment explanation
Indices: 131065--131111 Score: 60
Period size: 21 Copynumber: 2.2 Consensus size: 22
131055 GATTTCTGGG
* *
131065 CAAGGGGGAATCGGTACCCATT
1 CAAGGGGGAACCGATACCCATT
*
131087 CAA-GGGGAACCGATACCCCTT
1 CAAGGGGGAACCGATACCCATT
131108 CAAG
1 CAAG
131112 CGAATATGAA
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
21 18 0.86
22 3 0.14
ACGTcount: A:0.30, C:0.28, G:0.28, T:0.15
Consensus pattern (22 bp):
CAAGGGGGAACCGATACCCATT
Found at i:131697 original size:18 final size:18
Alignment explanation
Indices: 131674--131708 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
131664 CTAGGAGATT
131674 TGAACATA-AATGATAAGA
1 TGAACATATAA-GATAAGA
131692 TGAACATATAAGATAAG
1 TGAACATATAAGATAAG
131709 CTAGAGGGGA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 14 0.88
19 2 0.12
ACGTcount: A:0.54, C:0.06, G:0.17, T:0.23
Consensus pattern (18 bp):
TGAACATATAAGATAAGA
Found at i:142489 original size:22 final size:24
Alignment explanation
Indices: 142464--142509 Score: 78
Period size: 22 Copynumber: 2.0 Consensus size: 24
142454 ATCTAAATTC
142464 AATTCTATAGAATT-A-TTTTTTT
1 AATTCTATAGAATTAAGTTTTTTT
142486 AATTCTATAGAATTAAGTTTTTTT
1 AATTCTATAGAATTAAGTTTTTTT
142510 TCTCTTCAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
22 14 0.64
23 1 0.05
24 7 0.32
ACGTcount: A:0.33, C:0.04, G:0.07, T:0.57
Consensus pattern (24 bp):
AATTCTATAGAATTAAGTTTTTTT
Found at i:145490 original size:21 final size:21
Alignment explanation
Indices: 145443--145498 Score: 62
Period size: 21 Copynumber: 2.8 Consensus size: 21
145433 TCAACTAATC
145443 TATTAT-TT-TTAATAAATAA
1 TATTATATTATTAATAAATAA
** *
145462 TACAATATTATTAATTAATAA
1 TATTATATTATTAATAAATAA
*
145483 TATTATATTACTAATA
1 TATTATATTATTAATA
145499 TCCTCATATA
Statistics
Matches: 28, Mismatches: 7, Indels: 2
0.76 0.19 0.05
Matches are distributed among these distances:
19 4 0.14
20 2 0.07
21 22 0.79
ACGTcount: A:0.48, C:0.04, G:0.00, T:0.48
Consensus pattern (21 bp):
TATTATATTATTAATAAATAA
Found at i:147498 original size:20 final size:21
Alignment explanation
Indices: 147473--147524 Score: 61
Period size: 21 Copynumber: 2.5 Consensus size: 21
147463 TTTTCCCAAT
*
147473 TCGCAATGCGAA-TAAGTAAA
1 TCGCAATGCGAATTAAGAAAA
* **
147493 TCGCAACGCGAATTGGGAAAA
1 TCGCAATGCGAATTAAGAAAA
147514 TCGCAATGCGA
1 TCGCAATGCGA
147525 TACTGACTAT
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
20 11 0.42
21 15 0.58
ACGTcount: A:0.38, C:0.19, G:0.25, T:0.17
Consensus pattern (21 bp):
TCGCAATGCGAATTAAGAAAA
Found at i:147538 original size:20 final size:20
Alignment explanation
Indices: 147513--147626 Score: 113
Period size: 20 Copynumber: 5.7 Consensus size: 20
147503 AATTGGGAAA
*
147513 ATCGCAATGCGATACTGACT
1 ATCGCAACGCGATACTGACT
* *
147533 ATCGCAATGCGATACTTACT
1 ATCGCAACGCGATACTGACT
* * *
147553 ATCGCAATGCGATAAT-ACAAA
1 ATCGCAACGCGATACTGAC--T
*
147574 ATCGCAACGAGATACTGACT
1 ATCGCAACGCGATACTGACT
* *
147594 TTCGCAACGCGATTCTGACT
1 ATCGCAACGCGATACTGACT
*
147614 TTCGCAACGCGAT
1 ATCGCAACGCGAT
147627 TTACATAGCG
Statistics
Matches: 81, Mismatches: 10, Indels: 6
0.84 0.10 0.06
Matches are distributed among these distances:
19 2 0.02
20 64 0.79
21 13 0.16
22 2 0.02
ACGTcount: A:0.32, C:0.25, G:0.18, T:0.25
Consensus pattern (20 bp):
ATCGCAACGCGATACTGACT
Found at i:147557 original size:61 final size:61
Alignment explanation
Indices: 147510--147626 Score: 162
Period size: 61 Copynumber: 1.9 Consensus size: 61
147500 GCGAATTGGG
* * * * *
147510 AAAATCGCAATGCGATACTGACTATCGCAATGCGATACTTACTATCGCAATGCGATAATAC
1 AAAATCGCAACGAGATACTGACTATCGCAACGCGATACTGACTATCGCAACGCGATAATAC
* * *
147571 AAAATCGCAACGAGATACTGACTTTCGCAACGCGATTCTGACTTTCGCAACGCGAT
1 AAAATCGCAACGAGATACTGACTATCGCAACGCGATACTGACTATCGCAACGCGAT
147627 TTACATAGCG
Statistics
Matches: 48, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
61 48 1.00
ACGTcount: A:0.33, C:0.25, G:0.18, T:0.24
Consensus pattern (61 bp):
AAAATCGCAACGAGATACTGACTATCGCAACGCGATACTGACTATCGCAACGCGATAATAC
Found at i:148302 original size:34 final size:33
Alignment explanation
Indices: 148220--148307 Score: 140
Period size: 33 Copynumber: 2.6 Consensus size: 33
148210 ATTGCGATTT
* *
148220 TCATCTCGCGTTGTGATTCTCTCGTCGCGATAG
1 TCATTTCGCGTTGCGATTCTCTCGTCGCGATAG
*
148253 TCATTTCGCGTTGCGATTCTCTCGTTGCGATAG
1 TCATTTCGCGTTGCGATTCTCTCGTCGCGATAG
148286 TCATTTCCGCGTTGCGATTCTC
1 TCATTT-CGCGTTGCGATTCTC
148308 ATTATCTCGT
Statistics
Matches: 51, Mismatches: 3, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
33 36 0.71
34 15 0.29
ACGTcount: A:0.11, C:0.27, G:0.23, T:0.39
Consensus pattern (33 bp):
TCATTTCGCGTTGCGATTCTCTCGTCGCGATAG
Found at i:148309 original size:20 final size:20
Alignment explanation
Indices: 148275--148332 Score: 64
Period size: 20 Copynumber: 2.9 Consensus size: 20
148265 GCGATTCTCT
**
148275 CGTTGCGATAGTCATTTCCG
1 CGTTGCGATTCTCATTTCCG
*
148295 CGTTGCGATTCTCATTAT-CT
1 CGTTGCGATTCTCATT-TCCG
*
148315 CGTTGCGATTTTCATTTC
1 CGTTGCGATTCTCATTTC
148333 AACCAAAAGA
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
19 1 0.03
20 30 0.94
21 1 0.03
ACGTcount: A:0.14, C:0.24, G:0.19, T:0.43
Consensus pattern (20 bp):
CGTTGCGATTCTCATTTCCG
Found at i:148450 original size:25 final size:26
Alignment explanation
Indices: 148396--148452 Score: 66
Period size: 25 Copynumber: 2.3 Consensus size: 26
148386 TTATGTTTAT
*
148396 TGTTTTTGGTATATCTTGACAGTGTA
1 TGTTTTTGGTATATCTTAACAGTGTA
*
148422 -GTTTTTGGTATATC-TAAC-TTGGTA
1 TGTTTTTGGTATATCTTAACAGT-GTA
148446 TGTTTTT
1 TGTTTTT
148453 TGTTTTTGTA
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
23 1 0.04
24 6 0.22
25 20 0.74
ACGTcount: A:0.18, C:0.07, G:0.21, T:0.54
Consensus pattern (26 bp):
TGTTTTTGGTATATCTTAACAGTGTA
Found at i:150373 original size:42 final size:42
Alignment explanation
Indices: 150297--150459 Score: 182
Period size: 42 Copynumber: 3.9 Consensus size: 42
150287 GACTCGCCTG
* * * * * *
150297 TCATCCCTCAAGAGTCCACTCCTATCGTTGAAGAGGCCCCTA
1 TCATTCCTCGAGAGTCCCCTCCCACCGTTCAAGAGGCCCCTA
* * * *
150339 TCATTCCTCGAGAGTCCCCTCCCACCATTTAAGAGGCCACTG
1 TCATTCCTCGAGAGTCCCCTCCCACCGTTCAAGAGGCCCCTA
* * * * * *
150381 TCATCCCTCAAGAGTCCACTCCTATCGTTGAAGAGGCCCCTA
1 TCATTCCTCGAGAGTCCCCTCCCACCGTTCAAGAGGCCCCTA
150423 TCATTCCTCGAGAGTCCCCTCCCACCGTTCAAGAGGC
1 TCATTCCTCGAGAGTCCCCTCCCACCGTTCAAGAGGC
150460 TACTGTCATC
Statistics
Matches: 97, Mismatches: 24, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
42 97 1.00
ACGTcount: A:0.22, C:0.37, G:0.17, T:0.23
Consensus pattern (42 bp):
TCATTCCTCGAGAGTCCCCTCCCACCGTTCAAGAGGCCCCTA
Found at i:150478 original size:84 final size:84
Alignment explanation
Indices: 150294--150469 Score: 325
Period size: 84 Copynumber: 2.1 Consensus size: 84
150284 CCCGACTCGC
150294 CTGTCATCCCTCAAGAGTCCACTCCTATCGTTGAAGAGGCCCCTATCATTCCTCGAGAGTCCCCT
1 CTGTCATCCCTCAAGAGTCCACTCCTATCGTTGAAGAGGCCCCTATCATTCCTCGAGAGTCCCCT
*
150359 CCCACCATTTAAGAGGCCA
66 CCCACCATTCAAGAGGCCA
150378 CTGTCATCCCTCAAGAGTCCACTCCTATCGTTGAAGAGGCCCCTATCATTCCTCGAGAGTCCCCT
1 CTGTCATCCCTCAAGAGTCCACTCCTATCGTTGAAGAGGCCCCTATCATTCCTCGAGAGTCCCCT
* *
150443 CCCACCGTTCAAGAGGCTA
66 CCCACCATTCAAGAGGCCA
150462 CTGTCATC
1 CTGTCATC
150470 GTTGAAGAGG
Statistics
Matches: 89, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
84 89 1.00
ACGTcount: A:0.22, C:0.37, G:0.17, T:0.24
Consensus pattern (84 bp):
CTGTCATCCCTCAAGAGTCCACTCCTATCGTTGAAGAGGCCCCTATCATTCCTCGAGAGTCCCCT
CCCACCATTCAAGAGGCCA
Found at i:150499 original size:84 final size:84
Alignment explanation
Indices: 150294--150499 Score: 270
Period size: 84 Copynumber: 2.5 Consensus size: 84
150284 CCCGACTCGC
* * * *
150294 CTGTCATCCCTCAAGAGTCCACTCCTATCGTTGAAGAGGCCCCTATCATTCCTCGAGAGTCCCCT
1 CTGTCATCCCTCAAGAGTCCACTCCCACCATTCAAGAGGCCCCTATCATTCCTCGAGAGTCCCCT
*
150359 CCCACCATTTAAGAGGCCA
66 CCCACCATTCAAGAGGCCA
* * * *
150378 CTGTCATCCCTCAAGAGTCCACTCCTATCGTTGAAGAGGCCCCTATCATTCCTCGAGAGTCCCCT
1 CTGTCATCCCTCAAGAGTCCACTCCCACCATTCAAGAGGCCCCTATCATTCCTCGAGAGTCCCCT
* *
150443 CCCACCGTTCAAGAGGCTA
66 CCCACCATTCAAGAGGCCA
** *
150462 CTGTCATCGTTGAAGAGGTCC-CTCCCACCATTCAAGAG
1 CTGTCATCCCTCAAGA-GTCCACTCCCACCATTCAAGAG
150500 CCCGATTCAC
Statistics
Matches: 111, Mismatches: 10, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
84 107 0.96
85 4 0.04
ACGTcount: A:0.22, C:0.36, G:0.18, T:0.24
Consensus pattern (84 bp):
CTGTCATCCCTCAAGAGTCCACTCCCACCATTCAAGAGGCCCCTATCATTCCTCGAGAGTCCCCT
CCCACCATTCAAGAGGCCA
Found at i:151876 original size:14 final size:14
Alignment explanation
Indices: 151857--151892 Score: 63
Period size: 14 Copynumber: 2.6 Consensus size: 14
151847 ATTGTTTAAT
151857 TGATTTGTAAAAGG
1 TGATTTGTAAAAGG
*
151871 TGATTTGTAAAAGT
1 TGATTTGTAAAAGG
151885 TGATTTGT
1 TGATTTGT
151893 TTAATTGATG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.31, C:0.00, G:0.25, T:0.44
Consensus pattern (14 bp):
TGATTTGTAAAAGG
Found at i:152036 original size:14 final size:14
Alignment explanation
Indices: 152017--152073 Score: 60
Period size: 14 Copynumber: 3.7 Consensus size: 14
152007 GCGAAATGAA
152017 AATCGCAACGAGAG
1 AATCGCAACGAGAG
*
152031 AATCGCAACGCGAAATGAA
1 AATCGCAA--CG--A-GAG
152050 AATCGCAACGAGAG
1 AATCGCAACGAGAG
152064 AATCGCAACG
1 AATCGCAACG
152074 CGAAATTAAA
Statistics
Matches: 36, Mismatches: 2, Indels: 10
0.75 0.04 0.21
Matches are distributed among these distances:
14 20 0.56
15 1 0.03
16 2 0.06
17 2 0.06
18 1 0.03
19 10 0.28
ACGTcount: A:0.44, C:0.23, G:0.25, T:0.09
Consensus pattern (14 bp):
AATCGCAACGAGAG
Found at i:152044 original size:33 final size:33
Alignment explanation
Indices: 151999--152088 Score: 153
Period size: 33 Copynumber: 2.7 Consensus size: 33
151989 AAAAAGTACT
*
151999 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
1 ATCGCAACGCGAAATGAAAATCGCAACGAGAGA
152032 ATCGCAACGCGAAATGAAAATCGCAACGAGAGA
1 ATCGCAACGCGAAATGAAAATCGCAACGAGAGA
* *
152065 ATCGCAACGCGAAATTAAATTCGC
1 ATCGCAACGCGAAATGAAAATCGC
152089 GTTGCGATTT
Statistics
Matches: 54, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 54 1.00
ACGTcount: A:0.43, C:0.21, G:0.22, T:0.13
Consensus pattern (33 bp):
ATCGCAACGCGAAATGAAAATCGCAACGAGAGA
Found at i:152058 original size:19 final size:19
Alignment explanation
Indices: 151999--152059 Score: 69
Period size: 19 Copynumber: 3.5 Consensus size: 19
151989 AAAAAGTACT
*
151999 ATCGCAATGCGAAATGAAA
1 ATCGCAACGCGAAATGAAA
*
152018 ATCGCAA--CG--A-GAGA
1 ATCGCAACGCGAAATGAAA
152032 ATCGCAACGCGAAATGAAA
1 ATCGCAACGCGAAATGAAA
152051 ATCGCAACG
1 ATCGCAACG
152060 AGAGAATCGC
Statistics
Matches: 35, Mismatches: 2, Indels: 10
0.74 0.04 0.21
Matches are distributed among these distances:
14 10 0.29
15 1 0.03
16 2 0.06
17 2 0.06
18 1 0.03
19 19 0.54
ACGTcount: A:0.44, C:0.21, G:0.23, T:0.11
Consensus pattern (19 bp):
ATCGCAACGCGAAATGAAA
Found at i:152106 original size:19 final size:19
Alignment explanation
Indices: 152084--152234 Score: 80
Period size: 19 Copynumber: 8.7 Consensus size: 19
152074 CGAAATTAAA
152084 TTCGCGTTGCGATTTTCAT
1 TTCGCGTTGCGATTTTCAT
*
152103 TTCGCATTGCGA--TTC--
1 TTCGCGTTGCGATTTTCAT
* *
152118 -CCTCGTTGCGATTTTCAT
1 TTCGCGTTGCGATTTTCAT
* *
152136 TTCGCATTGCGA-----AA
1 TTCGCGTTGCGATTTTCAT
*
152150 TTAGCGTTGCGATTTTCAT
1 TTCGCGTTGCGATTTTCAT
*
152169 TTCGCATTGCGA--TTC--
1 TTCGCGTTGCGATTTTCAT
*
152184 -TCTCGTTGCGATTTTCAT
1 TTCGCGTTGCGATTTTCAT
* ** *
152202 TTCGCATTGCGATAGTAAT
1 TTCGCGTTGCGATTTTCAT
152221 TTCCGCGTTGCGAT
1 TT-CGCGTTGCGAT
152235 AGACAATAAG
Statistics
Matches: 95, Mismatches: 21, Indels: 31
0.65 0.14 0.21
Matches are distributed among these distances:
14 28 0.29
16 6 0.06
17 6 0.06
19 45 0.47
20 10 0.11
ACGTcount: A:0.15, C:0.23, G:0.21, T:0.42
Consensus pattern (19 bp):
TTCGCGTTGCGATTTTCAT
Found at i:152130 original size:33 final size:32
Alignment explanation
Indices: 152088--152214 Score: 193
Period size: 33 Copynumber: 3.9 Consensus size: 32
152078 ATTAAATTCG
152088 CGTTGCGATTTTCATTTCGCATTGCGATTCCCT
1 CGTTGCGATTTTCATTTCGCATTGCGATT-CCT
**
152121 CGTTGCGATTTTCATTTCGCATTGCGAAATT-AG
1 CGTTGCGATTTTCATTTCGCATTGCG--ATTCCT
152154 CGTTGCGATTTTCATTTCGCATTGCGATTCTCT
1 CGTTGCGATTTTCATTTCGCATTGCGATTC-CT
152187 CGTTGCGATTTTCATTTCGCATTGCGAT
1 CGTTGCGATTTTCATTTCGCATTGCGAT
152215 AGTAATTTCC
Statistics
Matches: 86, Mismatches: 4, Indels: 8
0.88 0.04 0.08
Matches are distributed among these distances:
31 3 0.03
33 80 0.93
35 3 0.03
ACGTcount: A:0.15, C:0.23, G:0.20, T:0.43
Consensus pattern (32 bp):
CGTTGCGATTTTCATTTCGCATTGCGATTCCT
Found at i:152166 original size:66 final size:66
Alignment explanation
Indices: 152081--152213 Score: 248
Period size: 66 Copynumber: 2.0 Consensus size: 66
152071 ACGCGAAATT
*
152081 AAATTCGCGTTGCGATTTTCATTTCGCATTGCGATTCCCTCGTTGCGATTTTCATTTCGCATTGC
1 AAATTAGCGTTGCGATTTTCATTTCGCATTGCGATTCCCTCGTTGCGATTTTCATTTCGCATTGC
152146 G
66 G
*
152147 AAATTAGCGTTGCGATTTTCATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCATTGC
1 AAATTAGCGTTGCGATTTTCATTTCGCATTGCGATTCCCTCGTTGCGATTTTCATTTCGCATTGC
152212 G
66 G
152213 A
1 A
152214 TAGTAATTTC
Statistics
Matches: 65, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
66 65 1.00
ACGTcount: A:0.17, C:0.23, G:0.20, T:0.41
Consensus pattern (66 bp):
AAATTAGCGTTGCGATTTTCATTTCGCATTGCGATTCCCTCGTTGCGATTTTCATTTCGCATTGC
G
Found at i:154736 original size:24 final size:24
Alignment explanation
Indices: 154702--154755 Score: 81
Period size: 24 Copynumber: 2.2 Consensus size: 24
154692 CTGAAACATC
*
154702 ATCAAAATCCGAGTATTGACCAAT
1 ATCAAAATCCGAGTATTGACCAAG
* *
154726 ATCAAAGTCCGGGTATTGACCAAG
1 ATCAAAATCCGAGTATTGACCAAG
154750 ATCAAA
1 ATCAAA
154756 TTTCGAATAC
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.41, C:0.20, G:0.17, T:0.22
Consensus pattern (24 bp):
ATCAAAATCCGAGTATTGACCAAG
Found at i:155565 original size:20 final size:21
Alignment explanation
Indices: 155540--155591 Score: 70
Period size: 21 Copynumber: 2.5 Consensus size: 21
155530 TTTTCCTAAT
*
155540 TCGCAATGCGAA-TAAGTAAA
1 TCGCAATGCGAATTAAGAAAA
**
155560 TCGCAATGCGAATTTGGAAAA
1 TCGCAATGCGAATTAAGAAAA
155581 TCGCAATGCGA
1 TCGCAATGCGA
155592 TACTGACTAT
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
20 12 0.43
21 16 0.57
ACGTcount: A:0.38, C:0.17, G:0.23, T:0.21
Consensus pattern (21 bp):
TCGCAATGCGAATTAAGAAAA
Found at i:155665 original size:20 final size:20
Alignment explanation
Indices: 155576--155667 Score: 67
Period size: 20 Copynumber: 4.5 Consensus size: 20
155566 TGCGAATTTG
* *
155576 GAAAATCGCAATGCGATACT
1 GAAAATCGCAACGAGATACT
** *
155596 GACTATCGCAACGAGATAAT
1 GAAAATCGCAACGAGATACT
* * *
155616 AAAAAAACGCAACGAGATTCT
1 -GAAAATCGCAACGAGATACT
*** *
155637 GACTTTCGCAACGAGATTCT
1 GAAAATCGCAACGAGATACT
155657 GAAAATCGCAA
1 GAAAATCGCAA
155668 TCATCTTCAA
Statistics
Matches: 52, Mismatches: 19, Indels: 2
0.71 0.26 0.03
Matches are distributed among these distances:
20 38 0.73
21 14 0.27
ACGTcount: A:0.41, C:0.21, G:0.18, T:0.20
Consensus pattern (20 bp):
GAAAATCGCAACGAGATACT
Found at i:155955 original size:20 final size:20
Alignment explanation
Indices: 155880--155947 Score: 75
Period size: 20 Copynumber: 3.4 Consensus size: 20
155870 CAACGGGGAA
155880 ATCGCAACGCGAAAATGGCT
1 ATCGCAACGCGAAAATGGCT
** ***
155900 ATCGCAATTCG-AAATGAAAA
1 ATCGCAACGCGAAAATG-GCT
155920 ATCGCAACGCGAAAATGGCT
1 ATCGCAACGCGAAAATGGCT
155940 ATCGCAAC
1 ATCGCAAC
155948 TAGAAAATTG
Statistics
Matches: 36, Mismatches: 10, Indels: 4
0.72 0.20 0.08
Matches are distributed among these distances:
19 5 0.14
20 26 0.72
21 5 0.14
ACGTcount: A:0.40, C:0.24, G:0.21, T:0.16
Consensus pattern (20 bp):
ATCGCAACGCGAAAATGGCT
Found at i:155998 original size:14 final size:14
Alignment explanation
Indices: 155979--156032 Score: 54
Period size: 14 Copynumber: 3.5 Consensus size: 14
155969 GAAAATCGCA
155979 TTGCGATTTTCTCG
1 TTGCGATTTTCTCG
155993 TTGCGATTTTCATTTCG
1 TTGCGATTTTC---TCG
*
156010 CATTACGATTTTCTCG
1 --TTGCGATTTTCTCG
156026 TTGCGAT
1 TTGCGAT
156033 AGTCAGTTTC
Statistics
Matches: 33, Mismatches: 2, Indels: 10
0.73 0.04 0.22
Matches are distributed among these distances:
14 17 0.52
16 3 0.09
17 3 0.09
19 10 0.30
ACGTcount: A:0.13, C:0.20, G:0.19, T:0.48
Consensus pattern (14 bp):
TTGCGATTTTCTCG
Found at i:155998 original size:33 final size:33
Alignment explanation
Indices: 155961--156031 Score: 79
Period size: 33 Copynumber: 2.2 Consensus size: 33
155951 AAAATTGCAA
*
155961 TGCGAAATGAAAATCGCATTGCGATTTTCTCGT
1 TGCGAAATGAAAATCGCATTACGATTTTCTCGT
** ** **
155994 TGCGATTTTCATTTCGCATTACGATTTTCTCGT
1 TGCGAAATGAAAATCGCATTACGATTTTCTCGT
156027 TGCGA
1 TGCGA
156032 TAGTCAGTTT
Statistics
Matches: 31, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
33 31 1.00
ACGTcount: A:0.21, C:0.20, G:0.20, T:0.39
Consensus pattern (33 bp):
TGCGAAATGAAAATCGCATTACGATTTTCTCGT
Found at i:157662 original size:21 final size:20
Alignment explanation
Indices: 157638--157697 Score: 59
Period size: 21 Copynumber: 2.9 Consensus size: 20
157628 AACGGTGGGG
157638 GGGGACTCTTGAGGGA-GGATA
1 GGGGACTCTTGAGGGATGG--A
* **
157659 GGGGCCTCTTGAACGATTGGA
1 GGGGACTCTTGAGGGA-TGGA
157680 GGGGACTCTTGAGGGATG
1 GGGGACTCTTGAGGGATG
157698 ACAGGTGAGT
Statistics
Matches: 31, Mismatches: 6, Indels: 5
0.74 0.14 0.12
Matches are distributed among these distances:
20 2 0.06
21 27 0.87
23 2 0.06
ACGTcount: A:0.20, C:0.13, G:0.45, T:0.22
Consensus pattern (20 bp):
GGGGACTCTTGAGGGATGGA
Found at i:158089 original size:20 final size:19
Alignment explanation
Indices: 158066--158131 Score: 69
Period size: 20 Copynumber: 3.4 Consensus size: 19
158056 AACTTAAAAC
158066 CGCAACGCGAAAATGACTAT
1 CGCAACGCG-AAATGACTAT
*
158086 CGCAACGCGGAAATGGCTAT
1 CGCAACGC-GAAATGACTAT
* * **
158106 CACAATGCGAAATGAAAAT
1 CGCAACGCGAAATGACTAT
158125 CGCAACG
1 CGCAACG
158132 ACAAAATCGC
Statistics
Matches: 37, Mismatches: 8, Indels: 3
0.77 0.17 0.06
Matches are distributed among these distances:
19 13 0.35
20 23 0.62
21 1 0.03
ACGTcount: A:0.39, C:0.24, G:0.23, T:0.14
Consensus pattern (19 bp):
CGCAACGCGAAATGACTAT
Found at i:158139 original size:14 final size:14
Alignment explanation
Indices: 158120--158210 Score: 83
Period size: 14 Copynumber: 5.9 Consensus size: 14
158110 ATGCGAAATG
158120 AAAATCGCAACGAC
1 AAAATCGCAACGAC
*
158134 AAAATCGCAATACGAAATG
1 AAAATCGC-A-ACG--A-C
158153 AAAATCGCAACGAC
1 AAAATCGCAACGAC
*
158167 AAAATCGCAATGCGAA
1 AAAATCGCAA--CGAC
158183 ATGAAATCGCAACGAC
1 A--AAATCGCAACGAC
158199 AAAATCGCAACG
1 AAAATCGCAACG
158211 CGAAACACAA
Statistics
Matches: 64, Mismatches: 4, Indels: 18
0.74 0.05 0.21
Matches are distributed among these distances:
14 29 0.45
15 2 0.03
16 11 0.17
17 3 0.05
18 11 0.17
19 8 0.12
ACGTcount: A:0.49, C:0.23, G:0.16, T:0.11
Consensus pattern (14 bp):
AAAATCGCAACGAC
Found at i:158158 original size:19 final size:19
Alignment explanation
Indices: 158134--158194 Score: 62
Period size: 18 Copynumber: 3.5 Consensus size: 19
158124 TCGCAACGAC
158134 AAAATCGCAATACGAAATG
1 AAAATCGCAATACGAAATG
*
158153 AAAATCGC-A-ACG--A-C
1 AAAATCGCAATACGAAATG
*
158167 AAAATCGCAATGCGAAATG
1 AAAATCGCAATACGAAATG
158186 -AAATCGCAA
1 AAAATCGCAA
158195 CGACAAAATC
Statistics
Matches: 34, Mismatches: 3, Indels: 11
0.71 0.06 0.23
Matches are distributed among these distances:
14 8 0.24
15 2 0.06
16 2 0.06
17 3 0.09
18 11 0.32
19 8 0.24
ACGTcount: A:0.51, C:0.20, G:0.16, T:0.13
Consensus pattern (19 bp):
AAAATCGCAATACGAAATG
Found at i:158195 original size:32 final size:33
Alignment explanation
Indices: 158108--158215 Score: 191
Period size: 33 Copynumber: 3.3 Consensus size: 33
158098 ATGGCTATCA
158108 CAATGCGAAATGAAAATCGCAACGACAAAATCG
1 CAATGCGAAATGAAAATCGCAACGACAAAATCG
*
158141 CAATACGAAATGAAAATCGCAACGACAAAATCG
1 CAATGCGAAATGAAAATCGCAACGACAAAATCG
158174 CAATGCGAAATG-AAATCGCAACGACAAAATCG
1 CAATGCGAAATGAAAATCGCAACGACAAAATCG
*
158206 CAACGCGAAA
1 CAATGCGAAA
158216 CACAAATCGC
Statistics
Matches: 72, Mismatches: 3, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
32 29 0.40
33 43 0.60
ACGTcount: A:0.49, C:0.22, G:0.18, T:0.11
Consensus pattern (33 bp):
CAATGCGAAATGAAAATCGCAACGACAAAATCG
Found at i:158244 original size:19 final size:18
Alignment explanation
Indices: 158222--158303 Score: 100
Period size: 19 Copynumber: 4.7 Consensus size: 18
158212 GAAACACAAA
158222 TCGCATTGCGATTTTCATT
1 TCGCATTGCGATTTT-ATT
*
158241 TCGCGTTGCGATTTTATT
1 TCGCATTGCGATTTTATT
*
158259 TCGCATTGCGA-TTT-TG
1 TCGCATTGCGATTTTATT
158275 TCG--TTGCGATTTTCATT
1 TCGCATTGCGATTTT-ATT
158292 TCGCATTGCGAT
1 TCGCATTGCGAT
158304 GGCCATTTCC
Statistics
Matches: 54, Mismatches: 4, Indels: 10
0.79 0.06 0.15
Matches are distributed among these distances:
14 6 0.11
15 3 0.06
16 4 0.07
17 7 0.13
18 13 0.24
19 21 0.39
ACGTcount: A:0.13, C:0.20, G:0.21, T:0.46
Consensus pattern (18 bp):
TCGCATTGCGATTTTATT
Found at i:158322 original size:20 final size:19
Alignment explanation
Indices: 158288--158342 Score: 56
Period size: 20 Copynumber: 2.8 Consensus size: 19
158278 TTGCGATTTT
* *
158288 CATTTCGCATTGCGATGGC
1 CATTTCGCGTTGCGATAGC
*
158307 CATTTCCGCGTTGCGATAGT
1 CATTT-CGCGTTGCGATAGC
*
158327 CATTTTCGTGTTGCGA
1 CA-TTTCGCGTTGCGA
158343 AAGTAAACTA
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
19 5 0.17
20 22 0.73
21 3 0.10
ACGTcount: A:0.15, C:0.24, G:0.25, T:0.36
Consensus pattern (19 bp):
CATTTCGCGTTGCGATAGC
Found at i:160213 original size:20 final size:20
Alignment explanation
Indices: 160188--160240 Score: 63
Period size: 20 Copynumber: 2.7 Consensus size: 20
160178 AATAGTTTCT
160188 GAAAATGAAAATCGCAACAC
1 GAAAATGAAAATCGCAACAC
** *
160208 GAAAATGACTATCGCAACGC
1 GAAAATGAAAATCGCAACAC
*
160228 GAAACT-AAAATCG
1 GAAAATGAAAATCG
160241 TGTTGCGATT
Statistics
Matches: 27, Mismatches: 6, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
19 5 0.19
20 22 0.81
ACGTcount: A:0.49, C:0.21, G:0.17, T:0.13
Consensus pattern (20 bp):
GAAAATGAAAATCGCAACAC
Found at i:160502 original size:22 final size:22
Alignment explanation
Indices: 160475--160518 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
160465 GAAGGAGATA
160475 GACGGATTTCGCCGGAGATGGG
1 GACGGATTTCGCCGGAGATGGG
*
160497 GACGGATTTCGTCGGAGATGGG
1 GACGGATTTCGCCGGAGATGGG
160519 TGAGAGAGTG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.18, C:0.16, G:0.45, T:0.20
Consensus pattern (22 bp):
GACGGATTTCGCCGGAGATGGG
Found at i:160732 original size:20 final size:20
Alignment explanation
Indices: 160707--160758 Score: 86
Period size: 20 Copynumber: 2.6 Consensus size: 20
160697 ATTATGTATT
160707 ATCGCGTTGCGAAAGTCAGA
1 ATCGCGTTGCGAAAGTCAGA
*
160727 ATCGCGTTGCGAAAGTCAGT
1 ATCGCGTTGCGAAAGTCAGA
*
160747 ATCTCGTTGCGA
1 ATCGCGTTGCGA
160759 TTTTGTATTA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.25, C:0.21, G:0.29, T:0.25
Consensus pattern (20 bp):
ATCGCGTTGCGAAAGTCAGA
Found at i:160792 original size:20 final size:20
Alignment explanation
Indices: 160767--160820 Score: 99
Period size: 20 Copynumber: 2.7 Consensus size: 20
160757 GATTTTGTAT
160767 TATCGCATTGCGATAGTAAG
1 TATCGCATTGCGATAGTAAG
*
160787 TATCGCATTGCGATAGTCAG
1 TATCGCATTGCGATAGTAAG
160807 TATCGCATTGCGAT
1 TATCGCATTGCGAT
160821 TTTCCCAATT
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 33 1.00
ACGTcount: A:0.26, C:0.19, G:0.24, T:0.31
Consensus pattern (20 bp):
TATCGCATTGCGATAGTAAG
Found at i:160792 original size:61 final size:61
Alignment explanation
Indices: 160686--160823 Score: 186
Period size: 61 Copynumber: 2.3 Consensus size: 61
160676 CGCTTTGAAA
* * * * *
160686 ATCGTATTGCGATTATGTATTATCGCGTTGCGAAAGTCAGAATCGCGTTGCGAAAGTCAGT
1 ATCGCATTGCGATTTTGTATTATCGCATTGCGAAAGTAAGAATCGCATTGCGAAAGTCAGT
* * * * *
160747 ATCTCGTTGCGATTTTGTATTATCGCATTGCGATAGTAAGTATCGCATTGCGATAGTCAGT
1 ATCGCATTGCGATTTTGTATTATCGCATTGCGAAAGTAAGAATCGCATTGCGAAAGTCAGT
160808 ATCGCATTGCGATTTT
1 ATCGCATTGCGATTTT
160824 CCCAATTCGC
Statistics
Matches: 65, Mismatches: 12, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
61 65 1.00
ACGTcount: A:0.24, C:0.17, G:0.24, T:0.36
Consensus pattern (61 bp):
ATCGCATTGCGATTTTGTATTATCGCATTGCGAAAGTAAGAATCGCATTGCGAAAGTCAGT
Found at i:160839 original size:61 final size:61
Alignment explanation
Indices: 160706--160841 Score: 157
Period size: 61 Copynumber: 2.2 Consensus size: 61
160696 GATTATGTAT
* * * * * ** *
160706 TATCGCGTTGCGAAAGTCAGAATCGCGTTGCGAAAGTCAGTATCTCGTTGCGATTTTGTAT
1 TATCGCGTTGCGATAGTAAGAATCGCATTGCGAAAGTCAGTATCGCATTGCGATTTTCCAA
* * *
160767 TATCGCATTGCGATAGTAAGTATCGCATTGCGATAGTCAGTATCGCATTGCGATTTTCCCAA
1 TATCGCGTTGCGATAGTAAGAATCGCATTGCGAAAGTCAGTATCGCATTGCGATTTT-CCAA
160829 T-TCGCGTTGCGAT
1 TATCGCGTTGCGAT
160842 TTACTTATTC
Statistics
Matches: 62, Mismatches: 12, Indels: 2
0.82 0.16 0.03
Matches are distributed among these distances:
61 60 0.97
62 2 0.03
ACGTcount: A:0.23, C:0.20, G:0.24, T:0.33
Consensus pattern (61 bp):
TATCGCGTTGCGATAGTAAGAATCGCATTGCGAAAGTCAGTATCGCATTGCGATTTTCCAA
Found at i:166290 original size:17 final size:17
Alignment explanation
Indices: 166252--166289 Score: 60
Period size: 16 Copynumber: 2.3 Consensus size: 17
166242 CATTTTTCAT
166252 CTTTTATTCTCTTCTTC
1 CTTTTATTCTCTTCTTC
166269 CTTTTA-TCTCTTCTTC
1 CTTTTATTCTCTTCTTC
*
166285 GTTTT
1 CTTTT
166290 TGCATCAAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
16 14 0.70
17 6 0.30
ACGTcount: A:0.05, C:0.26, G:0.03, T:0.66
Consensus pattern (17 bp):
CTTTTATTCTCTTCTTC
Found at i:167015 original size:11 final size:11
Alignment explanation
Indices: 166999--167024 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
166989 TAAAAGTTTT
166999 AACAAAAACAA
1 AACAAAAACAA
167010 AACAAAAACAA
1 AACAAAAACAA
167021 AACA
1 AACA
167025 GAAGAAACAC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.81, C:0.19, G:0.00, T:0.00
Consensus pattern (11 bp):
AACAAAAACAA
Found at i:167680 original size:37 final size:36
Alignment explanation
Indices: 167600--167681 Score: 94
Period size: 37 Copynumber: 2.2 Consensus size: 36
167590 GAAAATATTT
*
167600 ATATAATATTTATATATTTTCTTTAAAAAAATTAAA
1 ATATAAAATTTATATATTTTCTTTAAAAAAATTAAA
* * *
167636 TTCATAAAATTTATATATATTT-TTTTACAAAATTGAAA
1 AT-ATAAAATTTATATAT-TTTCTTTAAAAAAATT-AAA
167674 ATATAAAA
1 ATATAAAA
167682 AGGTTTAATG
Statistics
Matches: 38, Mismatches: 5, Indels: 5
0.79 0.10 0.10
Matches are distributed among these distances:
36 1 0.03
37 30 0.79
38 7 0.18
ACGTcount: A:0.50, C:0.04, G:0.01, T:0.45
Consensus pattern (36 bp):
ATATAAAATTTATATATTTTCTTTAAAAAAATTAAA
Found at i:170463 original size:14 final size:15
Alignment explanation
Indices: 170435--170464 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
170425 ACGGATCAAA
170435 ACTAATAGTTTATGT
1 ACTAATAGTTTATGT
170450 ACTAATAG-TTATGT
1 ACTAATAGTTTATGT
170464 A
1 A
170465 TGGTTTTGGA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 7 0.47
15 8 0.53
ACGTcount: A:0.37, C:0.07, G:0.13, T:0.43
Consensus pattern (15 bp):
ACTAATAGTTTATGT
Found at i:171152 original size:11 final size:10
Alignment explanation
Indices: 171131--171185 Score: 74
Period size: 10 Copynumber: 5.4 Consensus size: 10
171121 TTAATTTTTT
171131 AAATGAATAA
1 AAATGAATAA
171141 AAATGCAATAA
1 AAATG-AATAA
*
171152 AAATGAATTA
1 AAATGAATAA
171162 AAATGAATAA
1 AAATGAATAA
* *
171172 AATTCAATAA
1 AAATGAATAA
171182 AAAT
1 AAAT
171186 ATAATGTAAA
Statistics
Matches: 39, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
10 29 0.74
11 10 0.26
ACGTcount: A:0.65, C:0.04, G:0.07, T:0.24
Consensus pattern (10 bp):
AAATGAATAA
Found at i:172172 original size:11 final size:10
Alignment explanation
Indices: 172124--172179 Score: 58
Period size: 10 Copynumber: 5.4 Consensus size: 10
172114 TTACATTATG
*
172124 TTTTTATTGA
1 TTTTTATTCA
*
172134 ATTTTATTCA
1 TTTTTATTCA
*
172144 TTTTTAATTCT
1 TTTTT-ATTCA
172155 TTTTTATTGCA
1 TTTTTATT-CA
*
172166 TTTTTATTTA
1 TTTTTATTCA
172176 TTTT
1 TTTT
172180 AAAAAATAAT
Statistics
Matches: 38, Mismatches: 6, Indels: 4
0.79 0.12 0.08
Matches are distributed among these distances:
10 20 0.53
11 18 0.47
ACGTcount: A:0.20, C:0.05, G:0.04, T:0.71
Consensus pattern (10 bp):
TTTTTATTCA
Done.