Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr04 98600468
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: 98600468
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 273 characters in sequence are not A, C, G, or T
File 62 of 325
Found at i:16528132 original size:20 final size:20
Alignment explanation
Indices: 16528109--16528153 Score: 90
Period size: 20 Copynumber: 2.2 Consensus size: 20
16528099 TGTCCATGAT
16528109 TTAAATATAAAAATTTTCTA
1 TTAAATATAAAAATTTTCTA
16528129 TTAAATATAAAAATTTTCTA
1 TTAAATATAAAAATTTTCTA
16528149 TTAAA
1 TTAAA
16528154 ATTCATTATC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.51, C:0.04, G:0.00, T:0.44
Consensus pattern (20 bp):
TTAAATATAAAAATTTTCTA
Found at i:16528216 original size:19 final size:19
Alignment explanation
Indices: 16528171--16528217 Score: 51
Period size: 19 Copynumber: 2.5 Consensus size: 19
16528161 ATCAAATTAA
*
16528171 AATAAAAATAAAAATATAG
1 AATAAAAATAAAAATAAAG
* *
16528190 AATCAAAACT-AAAATAAAT
1 AAT-AAAAATAAAAATAAAG
16528209 AATAAAAAT
1 AATAAAAAT
16528218 TAGATTAAAT
Statistics
Matches: 23, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
18 5 0.22
19 13 0.57
20 5 0.22
ACGTcount: A:0.72, C:0.04, G:0.02, T:0.21
Consensus pattern (19 bp):
AATAAAAATAAAAATAAAG
Found at i:16532338 original size:14 final size:14
Alignment explanation
Indices: 16532319--16532348 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
16532309 AAATCAAAGG
16532319 GATGGAGATTTAGA
1 GATGGAGATTTAGA
16532333 GATGGAGATTTAGA
1 GATGGAGATTTAGA
16532347 GA
1 GA
16532349 AGCAAGAAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.37, C:0.00, G:0.37, T:0.27
Consensus pattern (14 bp):
GATGGAGATTTAGA
Found at i:16532435 original size:14 final size:14
Alignment explanation
Indices: 16532416--16532445 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
16532406 AATGGTGGAA
16532416 GGATTTTGATTTGG
1 GGATTTTGATTTGG
16532430 GGATTTTGATTTGG
1 GGATTTTGATTTGG
16532444 GG
1 GG
16532446 GAAAAATTAG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.13, C:0.00, G:0.40, T:0.47
Consensus pattern (14 bp):
GGATTTTGATTTGG
Found at i:16532490 original size:13 final size:13
Alignment explanation
Indices: 16532474--16532507 Score: 59
Period size: 13 Copynumber: 2.6 Consensus size: 13
16532464 TGGGGATACC
16532474 GATTTTAGGGGGA
1 GATTTTAGGGGGA
16532487 GATTTTAGGGGGA
1 GATTTTAGGGGGA
*
16532500 AATTTTAG
1 GATTTTAG
16532508 ACGTTCCAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 20 1.00
ACGTcount: A:0.26, C:0.00, G:0.38, T:0.35
Consensus pattern (13 bp):
GATTTTAGGGGGA
Found at i:16532883 original size:52 final size:52
Alignment explanation
Indices: 16532827--16532927 Score: 202
Period size: 52 Copynumber: 1.9 Consensus size: 52
16532817 AAAAAGACTA
16532827 AAATTTTTATTAAATGGCTGTAATTAGAGAGACGAACAGCATAGTAGGGGAG
1 AAATTTTTATTAAATGGCTGTAATTAGAGAGACGAACAGCATAGTAGGGGAG
16532879 AAATTTTTATTAAATGGCTGTAATTAGAGAGACGAACAGCATAGTAGGG
1 AAATTTTTATTAAATGGCTGTAATTAGAGAGACGAACAGCATAGTAGGG
16532928 AGAGTGAGTG
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
52 49 1.00
ACGTcount: A:0.39, C:0.08, G:0.26, T:0.28
Consensus pattern (52 bp):
AAATTTTTATTAAATGGCTGTAATTAGAGAGACGAACAGCATAGTAGGGGAG
Found at i:16534138 original size:41 final size:41
Alignment explanation
Indices: 16534065--16534305 Score: 265
Period size: 41 Copynumber: 5.9 Consensus size: 41
16534055 ATTATATGAC
* * * *
16534065 TTTTAGCGGCGTTTTATCGAAAA-CACCACTAATGCTCTGGT
1 TTTTAGCGGCGTTTT-GCCAAAAGCGCCGCTAATGCTCTGGT
**
16534106 TTTTAGCGGCGTTTTGCCAAAAGCGTAGCTAATGCTCTGGT
1 TTTTAGCGGCGTTTTGCCAAAAGCGCCGCTAATGCTCTGGT
*
16534147 TTTTAGCGGCGTTTTGCCAAAAGTGCCGCTAATGCTCTGGT
1 TTTTAGCGGCGTTTTGCCAAAAGCGCCGCTAATGCTCTGGT
*
16534188 TTTTAGCGGCGTTTTTCCAAAAGCGCCGCTAATGCTCT-GT
1 TTTTAGCGGCGTTTTGCCAAAAGCGCCGCTAATGCTCTGGT
* * * * * *
16534228 TTTTAGCGGCATTTTAACAAAAAACGCCGCTATTGCTCT-AT
1 TTTTAGCGGCGTTTT-GCCAAAAGCGCCGCTAATGCTCTGGT
* ** *
16534269 TTTTAGTGGCGTTTTTGGTAAAA-CGCCGCTATTGCTC
1 TTTTAGCGGCG-TTTTGCCAAAAGCGCCGCTAATGCTC
16534306 CGTGTTTTAT
Statistics
Matches: 175, Mismatches: 22, Indels: 7
0.86 0.11 0.03
Matches are distributed among these distances:
40 35 0.20
41 136 0.78
42 4 0.02
ACGTcount: A:0.21, C:0.22, G:0.22, T:0.35
Consensus pattern (41 bp):
TTTTAGCGGCGTTTTGCCAAAAGCGCCGCTAATGCTCTGGT
Found at i:16542798 original size:10 final size:10
Alignment explanation
Indices: 16542777--16542810 Score: 52
Period size: 9 Copynumber: 3.4 Consensus size: 10
16542767 ATCAATTCAA
16542777 TTTTCACCTTT
1 TTTTCA-CTTT
16542788 TTTTC-CTTT
1 TTTTCACTTT
16542797 TTTTCACTTT
1 TTTTCACTTT
16542807 TTTT
1 TTTT
16542811 TTTATTTTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
9 9 0.41
10 8 0.36
11 5 0.23
ACGTcount: A:0.06, C:0.21, G:0.00, T:0.74
Consensus pattern (10 bp):
TTTTCACTTT
Found at i:16543061 original size:24 final size:24
Alignment explanation
Indices: 16543011--16543061 Score: 68
Period size: 25 Copynumber: 2.1 Consensus size: 24
16543001 TTAAAATATT
*
16543011 ATAAAAAATTAAAAACAAATAATA
1 ATAAAAAATGAAAAACAAATAATA
*
16543035 ATAAACAAATGAAAAATAAATAA-A
1 ATAAA-AAATGAAAAACAAATAATA
16543059 ATA
1 ATA
16543062 TTATTTTTTA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
24 9 0.38
25 15 0.62
ACGTcount: A:0.75, C:0.04, G:0.02, T:0.20
Consensus pattern (24 bp):
ATAAAAAATGAAAAACAAATAATA
Found at i:16543128 original size:11 final size:11
Alignment explanation
Indices: 16543112--16543180 Score: 67
Period size: 11 Copynumber: 6.5 Consensus size: 11
16543102 AATGTCTTTA
16543112 AAAATAATTTT
1 AAAATAATTTT
16543123 AAAATAATTTT
1 AAAATAATTTT
16543134 AAAA-AATATTT
1 AAAATAAT-TTT
*
16543145 AAAAT--TTTAA
1 AAAATAATTT-T
16543155 AAAATAATTTT
1 AAAATAATTTT
*
16543166 -TAA-AATTTT
1 AAAATAATTTT
16543175 AAAATA
1 AAAATA
16543181 TACATTTAAA
Statistics
Matches: 47, Mismatches: 4, Indels: 14
0.72 0.06 0.22
Matches are distributed among these distances:
9 8 0.17
10 13 0.28
11 23 0.49
12 3 0.06
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (11 bp):
AAAATAATTTT
Found at i:16543131 original size:44 final size:44
Alignment explanation
Indices: 16543075--16543171 Score: 117
Period size: 43 Copynumber: 2.2 Consensus size: 44
16543065 TTTTTTAAAA
**
16543075 TTTAAATATAATTTTTAAAAAAAATTGAATGTCTTT-AAAAATAA-T
1 TTTAAA-ATAA-TTTTAAAAAAAATTGAAAAT-TTTAAAAAATAATT
* *
16543120 TTTAAAATAATTTTAAAAAATATTTAAAATTTTAAAAAATAATT
1 TTTAAAATAATTTTAAAAAAAATTGAAAATTTTAAAAAATAATT
16543164 TTTAAAAT
1 TTTAAAAT
16543172 TTTAAAATAT
Statistics
Matches: 46, Mismatches: 4, Indels: 5
0.84 0.07 0.09
Matches are distributed among these distances:
42 3 0.07
43 24 0.52
44 13 0.28
45 6 0.13
ACGTcount: A:0.54, C:0.01, G:0.02, T:0.43
Consensus pattern (44 bp):
TTTAAAATAATTTTAAAAAAAATTGAAAATTTTAAAAAATAATT
Found at i:16543145 original size:22 final size:22
Alignment explanation
Indices: 16543111--16543201 Score: 89
Period size: 22 Copynumber: 4.1 Consensus size: 22
16543101 GAATGTCTTT
16543111 AAAAATAATTTTAAAATAATTTTA
1 AAAAATAA-TTTAAAA-AATTTTA
16543135 AAAAAT-ATTT--AAAATTTTA
1 AAAAATAATTTAAAAAATTTTA
**
16543154 AAAAATAATTTTTAAAATTTTA
1 AAAAATAATTTAAAAAATTTTA
* * *
16543176 AAATATACATTTAAAATATTATA
1 AAAAATA-ATTTAAAAAATTTTA
16543199 AAA
1 AAA
16543202 CAAATAATAA
Statistics
Matches: 58, Mismatches: 5, Indels: 9
0.81 0.07 0.12
Matches are distributed among these distances:
19 13 0.22
20 6 0.10
22 18 0.31
23 15 0.26
24 6 0.10
ACGTcount: A:0.58, C:0.01, G:0.00, T:0.41
Consensus pattern (22 bp):
AAAAATAATTTAAAAAATTTTA
Found at i:16543153 original size:30 final size:29
Alignment explanation
Indices: 16543117--16543179 Score: 83
Period size: 30 Copynumber: 2.1 Consensus size: 29
16543107 CTTTAAAAAT
16543117 AATTTT-AAAATAATTTTAAAAAATATTTAA
1 AATTTTAAAAATAATTTT-AAAAAT-TTTAA
*
16543147 AATTTTAAAAAATAATTTTTAAAATTTTAA
1 AATTTT-AAAAATAATTTTAAAAATTTTAA
16543177 AAT
1 AAT
16543180 ATACATTTAA
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
30 14 0.47
31 5 0.17
32 11 0.37
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (29 bp):
AATTTTAAAAATAATTTTAAAAATTTTAA
Found at i:16543158 original size:43 final size:43
Alignment explanation
Indices: 16543075--16543201 Score: 116
Period size: 43 Copynumber: 2.9 Consensus size: 43
16543065 TTTTTTAAAA
* **
16543075 TTTAAATATAATTTTTAAAAAAAATTGAATGTCTTT-AAAAATAAT
1 TTTAAA-ATAA-TTTTAAAAAAAATTTAAAAT-TTTAAAAAATAAT
*
16543120 TTTAAAATAATTTTAAAAAATATTTAAAATTTTAAAAAATAAT
1 TTTAAAATAATTTTAAAAAAAATTTAAAATTTTAAAAAATAAT
* * * *
16543163 TTT-TAA-AATTTTAAAATATACATTTAAAATATTATAAAA
1 TTTAAAATAATTTTAAAA-A-AAATTTAAAATTTTAAAAAA
16543202 CAAATAATAA
Statistics
Matches: 71, Mismatches: 8, Indels: 8
0.82 0.09 0.09
Matches are distributed among these distances:
41 10 0.14
42 6 0.08
43 45 0.63
44 4 0.06
45 6 0.08
ACGTcount: A:0.54, C:0.02, G:0.02, T:0.43
Consensus pattern (43 bp):
TTTAAAATAATTTTAAAAAAAATTTAAAATTTTAAAAAATAAT
Found at i:16543289 original size:21 final size:21
Alignment explanation
Indices: 16543273--16543327 Score: 83
Period size: 21 Copynumber: 2.5 Consensus size: 21
16543263 TTAAAATTTT
16543273 TTTTAAAAATTTTAAAAATAA
1 TTTTAAAAATTTTAAAAATAA
16543294 TTTTAAAAATTTTAAAAAATAA
1 TTTTAAAAATTTT-AAAAATAA
16543316 TAATTTAAAAAT
1 T--TTTAAAAAT
16543328 ATATTTAAAA
Statistics
Matches: 31, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
21 13 0.42
22 9 0.29
24 9 0.29
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (21 bp):
TTTTAAAAATTTTAAAAATAA
Found at i:16543295 original size:12 final size:12
Alignment explanation
Indices: 16543280--16543337 Score: 59
Period size: 12 Copynumber: 4.8 Consensus size: 12
16543270 TTTTTTTAAA
16543280 AATTTTAAAAAT
1 AATTTTAAAAAT
16543292 AATTTTAAAAAT
1 AATTTTAAAAAT
*
16543304 --TTTAAAAAAT
1 AATTTTAAAAAT
16543314 AATAATTTAAAAAT
1 AAT--TTTAAAAAT
16543328 -ATATTTAAAA
1 AAT-TTTAAAA
16543338 TTTTAAAAAT
Statistics
Matches: 40, Mismatches: 2, Indels: 8
0.80 0.04 0.16
Matches are distributed among these distances:
10 9 0.22
12 21 0.52
13 2 0.05
14 8 0.20
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (12 bp):
AATTTTAAAAAT
Found at i:16543310 original size:9 final size:9
Alignment explanation
Indices: 16543273--16543347 Score: 57
Period size: 9 Copynumber: 8.1 Consensus size: 9
16543263 TTAAAATTTT
16543273 TTTTAAAAA
1 TTTTAAAAA
16543282 TTTTAAAAATAA
1 TTTT--AAA-AA
16543294 TTTTAAAAA
1 TTTTAAAAA
16543303 TTTTAAAAA
1 TTTTAAAAA
* *
16543312 --ATAATAA
1 TTTTAAAAA
16543319 -TTTAAAAA
1 TTTTAAAAA
*
16543327 TATATTTAAAA
1 T-T-TTAAAAA
16543338 TTTTAAAAA
1 TTTTAAAAA
16543347 T
1 T
16543348 AATATTATAA
Statistics
Matches: 53, Mismatches: 6, Indels: 14
0.73 0.08 0.19
Matches are distributed among these distances:
7 5 0.09
8 5 0.09
9 22 0.42
10 5 0.09
11 10 0.19
12 6 0.11
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (9 bp):
TTTTAAAAA
Found at i:16543327 original size:36 final size:33
Alignment explanation
Indices: 16543283--16543359 Score: 102
Period size: 34 Copynumber: 2.2 Consensus size: 33
16543273 TTTTAAAAAT
16543283 TTTAAAAATA-ATTTTAAAAATTTTAAAAAATAATAA
1 TTTAAAAATATA-TTT-AAAATTTT-AAAAATAAT-A
16543319 TTTAAAAATATATTTAAAATTTTAAAAATAATA
1 TTTAAAAATATATTTAAAATTTTAAAAATAATA
16543352 TTATAAAA
1 TT-TAAAA
16543360 CATTTAAAAT
Statistics
Matches: 39, Mismatches: 0, Indels: 6
0.87 0.00 0.13
Matches are distributed among these distances:
33 3 0.08
34 14 0.36
35 8 0.21
36 13 0.33
37 1 0.03
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (33 bp):
TTTAAAAATATATTTAAAATTTTAAAAATAATA
Found at i:16543365 original size:23 final size:20
Alignment explanation
Indices: 16543274--16543391 Score: 93
Period size: 20 Copynumber: 5.8 Consensus size: 20
16543264 TAAAATTTTT
16543274 TTTAAAAATTTTAAAAATA-A
1 TTTAAAAA-TTTAAAAATATA
*
16543294 TTTTAAAAATTTTAAAA-A-A
1 -TTTAAAAATTTAAAAATATA
*
16543313 --TAATAATTTAAAAATATA
1 TTTAAAAATTTAAAAATATA
*
16543331 TTTAAAATTTTAAAAATAATA
1 TTTAAAAATTTAAAAAT-ATA
*
16543352 TTATAAAACATTTAAAATATACA
1 TT-TAAAA-ATTTAAAA-ATATA
16543375 TTTAAAATATTATAAAA
1 TTTAAAA-ATT-TAAAA
16543392 CCAATAATAA
Statistics
Matches: 80, Mismatches: 8, Indels: 16
0.77 0.08 0.15
Matches are distributed among these distances:
16 12 0.15
17 1 0.01
18 1 0.01
19 2 0.03
20 20 0.25
21 13 0.16
22 13 0.16
23 16 0.20
24 2 0.03
ACGTcount: A:0.58, C:0.02, G:0.00, T:0.40
Consensus pattern (20 bp):
TTTAAAAATTTAAAAATATA
Found at i:16543375 original size:13 final size:13
Alignment explanation
Indices: 16543359--16543384 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
16543349 ATATTATAAA
16543359 ACATTTAAAATAT
1 ACATTTAAAATAT
16543372 ACATTTAAAATAT
1 ACATTTAAAATAT
16543385 TATAAAACCA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.54, C:0.08, G:0.00, T:0.38
Consensus pattern (13 bp):
ACATTTAAAATAT
Found at i:16543402 original size:44 final size:42
Alignment explanation
Indices: 16543318--16543402 Score: 100
Period size: 44 Copynumber: 2.0 Consensus size: 42
16543308 AAAAATAATA
* *
16543318 ATTTAAAAATATATTTAAAATTTTAAAAATAATATTATAAAAC
1 ATTTAAAAATACATTTAAAATTTTAAAAACAATA-TATAAAAC
*
16543361 ATTTAAAATATACATTTAAAATATTATAAAACCAATA-ATAAA
1 ATTTAAAA-ATACATTTAAAAT-TT-TAAAAACAATATATAAA
16543403 CAAATAAATC
Statistics
Matches: 36, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
43 8 0.22
44 17 0.47
45 2 0.06
46 9 0.25
ACGTcount: A:0.59, C:0.05, G:0.00, T:0.36
Consensus pattern (42 bp):
ATTTAAAAATACATTTAAAATTTTAAAAACAATATATAAAAC
Found at i:16543460 original size:20 final size:19
Alignment explanation
Indices: 16543426--16543478 Score: 61
Period size: 20 Copynumber: 2.7 Consensus size: 19
16543416 CAAATAAAGG
* *
16543426 AAAAATAAGAAAAAAGTAA
1 AAAAATAAAAAAAAAATAA
* *
16543445 ATAAGTAAATAAAAAAATAA
1 AAAAATAAA-AAAAAAATAA
16543465 AAAAATAAAAAAAA
1 AAAAATAAAAAAAA
16543479 CGAAAAAGGA
Statistics
Matches: 27, Mismatches: 6, Indels: 2
0.77 0.17 0.06
Matches are distributed among these distances:
19 11 0.41
20 16 0.59
ACGTcount: A:0.81, C:0.00, G:0.06, T:0.13
Consensus pattern (19 bp):
AAAAATAAAAAAAAAATAA
Found at i:16543464 original size:16 final size:15
Alignment explanation
Indices: 16543426--16543477 Score: 52
Period size: 16 Copynumber: 3.3 Consensus size: 15
16543416 CAAATAAAGG
16543426 AAAAATAAGAAA-AA
1 AAAAATAAGAAATAA
*
16543440 AGTAAATAAGTAAATAA
1 A-AAAATAAG-AAATAA
*
16543457 AAAAATAAAAAAATAA
1 AAAAAT-AAGAAATAA
16543473 AAAAA
1 AAAAA
16543478 ACGAAAAAGG
Statistics
Matches: 31, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
14 1 0.03
15 7 0.23
16 18 0.58
17 5 0.16
ACGTcount: A:0.81, C:0.00, G:0.06, T:0.13
Consensus pattern (15 bp):
AAAAATAAGAAATAA
Found at i:16543468 original size:7 final size:8
Alignment explanation
Indices: 16543451--16543477 Score: 54
Period size: 8 Copynumber: 3.4 Consensus size: 8
16543441 GTAAATAAGT
16543451 AAATAAAA
1 AAATAAAA
16543459 AAATAAAA
1 AAATAAAA
16543467 AAATAAAA
1 AAATAAAA
16543475 AAA
1 AAA
16543478 ACGAAAAAGG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 19 1.00
ACGTcount: A:0.89, C:0.00, G:0.00, T:0.11
Consensus pattern (8 bp):
AAATAAAA
Found at i:16544084 original size:21 final size:22
Alignment explanation
Indices: 16544060--16544101 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
16544050 AAAAGTGACT
*
16544060 TTCTTTT-TTTAATATATAAAG
1 TTCTTTTATTAAATATATAAAG
16544081 TTCTTTTATTAAATATATAAA
1 TTCTTTTATTAAATATATAAA
16544102 CGTGAAAATA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 7 0.37
22 12 0.63
ACGTcount: A:0.38, C:0.05, G:0.02, T:0.55
Consensus pattern (22 bp):
TTCTTTTATTAAATATATAAAG
Found at i:16545153 original size:14 final size:14
Alignment explanation
Indices: 16545134--16545160 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
16545124 CAAACAAACT
16545134 AAAATAAAAGTCCC
1 AAAATAAAAGTCCC
16545148 AAAATAAAAGTCC
1 AAAATAAAAGTCC
16545161 ATTTACAAAA
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:0.59, C:0.19, G:0.07, T:0.15
Consensus pattern (14 bp):
AAAATAAAAGTCCC
Found at i:16546605 original size:21 final size:21
Alignment explanation
Indices: 16546562--16546602 Score: 64
Period size: 22 Copynumber: 1.9 Consensus size: 21
16546552 TTTACATACC
*
16546562 TTTTAAAATTTTATTTATTTA
1 TTTTAAAATTCTATTTATTTA
16546583 TTTTAAATATTCTATTTATT
1 TTTTAAA-ATTCTATTTATT
16546603 ATTCATTATA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 7 0.39
22 11 0.61
ACGTcount: A:0.32, C:0.02, G:0.00, T:0.66
Consensus pattern (21 bp):
TTTTAAAATTCTATTTATTTA
Found at i:16554438 original size:29 final size:29
Alignment explanation
Indices: 16554396--16554451 Score: 112
Period size: 29 Copynumber: 1.9 Consensus size: 29
16554386 TTTATTAAGG
16554396 ATGGTAGAACAAGAGGAGAAACAAATCTT
1 ATGGTAGAACAAGAGGAGAAACAAATCTT
16554425 ATGGTAGAACAAGAGGAGAAACAAATC
1 ATGGTAGAACAAGAGGAGAAACAAATC
16554452 CTACCTCAGA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 27 1.00
ACGTcount: A:0.50, C:0.11, G:0.25, T:0.14
Consensus pattern (29 bp):
ATGGTAGAACAAGAGGAGAAACAAATCTT
Found at i:16554462 original size:29 final size:29
Alignment explanation
Indices: 16554400--16554462 Score: 83
Period size: 29 Copynumber: 2.2 Consensus size: 29
16554390 TTAAGGATGG
* **
16554400 TAGAACAAGAGGAGAAACAAATCTTATGG
1 TAGAACAAGAGGAGAAACAAATCCTATCC
16554429 TAGAACAAGAGGAGAAACAAATCCTA-CC
1 TAGAACAAGAGGAGAAACAAATCCTATCC
16554457 TCAGAA
1 T-AGAA
16554463 GGAGTCGGTG
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
28 1 0.03
29 29 0.97
ACGTcount: A:0.49, C:0.16, G:0.21, T:0.14
Consensus pattern (29 bp):
TAGAACAAGAGGAGAAACAAATCCTATCC
Found at i:16560884 original size:21 final size:21
Alignment explanation
Indices: 16560841--16560881 Score: 64
Period size: 22 Copynumber: 1.9 Consensus size: 21
16560831 TTTACATACC
*
16560841 TTTTAAAATTTTATTTATTTA
1 TTTTAAAATTCTATTTATTTA
16560862 TTTTAAATATTCTATTTATT
1 TTTTAAA-ATTCTATTTATT
16560882 ATTCATTATA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 7 0.39
22 11 0.61
ACGTcount: A:0.32, C:0.02, G:0.00, T:0.66
Consensus pattern (21 bp):
TTTTAAAATTCTATTTATTTA
Found at i:16575791 original size:16 final size:16
Alignment explanation
Indices: 16575766--16575803 Score: 67
Period size: 16 Copynumber: 2.4 Consensus size: 16
16575756 AATTAATAAT
*
16575766 TAAATAGGATTGCAAA
1 TAAATTGGATTGCAAA
16575782 TAAATTGGATTGCAAA
1 TAAATTGGATTGCAAA
16575798 TAAATT
1 TAAATT
16575804 TTAAGATAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.47, C:0.05, G:0.16, T:0.32
Consensus pattern (16 bp):
TAAATTGGATTGCAAA
Found at i:16582858 original size:43 final size:44
Alignment explanation
Indices: 16582761--16582923 Score: 124
Period size: 43 Copynumber: 3.8 Consensus size: 44
16582751 GACATAGGAT
* * * *
16582761 CCGATATGTG-TTTTCGTGTAAGA-CACGTCTGAGAC-GTTGGCA
1 CCGATATTTGATTTACGTGTAAGACCATGTCTGGGACAG-TGGCA
* * * *
16582803 TCGACT-TATGATTTACGTGTAAGACCATGTTTGGGACATTGGCA
1 CCGA-TATTTGATTTACGTGTAAGACCATGTCTGGGACAGTGGCA
* * * *
16582847 TC-ATATTTGATTT-TGTGTAAGACCCTATCTGGGACAGTGGCA
1 CCGATATTTGATTTACGTGTAAGACCATGTCTGGGACAGTGGCA
* * *
16582889 CCGATATTTTA-TTACATGTAAGACCACGTCTGGGA
1 CCGATATTTGATTTACGTGTAAGACCATGTCTGGGA
16582924 TGTAACACCC
Statistics
Matches: 94, Mismatches: 20, Indels: 13
0.74 0.16 0.10
Matches are distributed among these distances:
42 34 0.36
43 44 0.47
44 16 0.17
ACGTcount: A:0.25, C:0.18, G:0.25, T:0.33
Consensus pattern (44 bp):
CCGATATTTGATTTACGTGTAAGACCATGTCTGGGACAGTGGCA
Found at i:16585162 original size:49 final size:49
Alignment explanation
Indices: 16585087--16585399 Score: 231
Period size: 49 Copynumber: 6.6 Consensus size: 49
16585077 TACGATGCCA
** * * *
16585087 ATGCCATGTTACAAACATGGTCTTACATTGGCTTTCATATATCGAGGCCG
1 ATGCCATGTCCCAGACA-GGTCTTACACTGGCTCTCATATATCGAGGCCG
* * *
16585137 ATGCCATGTCCCAGACAGGTCTTACACTGGCTCTCATCTATCGATGTCG
1 ATGCCATGTCCCAGACAGGTCTTACACTGGCTCTCATATATCGAGGCCG
* * * * *
16585186 ATGCCATGTCCCAGACAAGTCTTACACT-G---ACATATGTC-AAGCAG
1 ATGCCATGTCCCAGACAGGTCTTACACTGGCTCTCATATATCGAGGCCG
* * * * *
16585230 ATGCCATGTCCCAGATAGGTCTTAAACTAGCT-TGCATATCTCAAGGCCG
1 ATGCCATGTCCCAGACAGGTCTTACACTGGCTCT-CATATATCGAGGCCG
** * * * *
16585279 ATG-CATGTCCCA-ATCTTGTCTTACACTAGCTCTCGTCGTA---ATGCCG
1 ATGCCATGTCCCAGA-CAGGTCTTACACTGGCTCTCAT-ATATCGAGGCCG
* *
16585325 ATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCACA-AT-GTGGCCG
1 ATGCCATGTCCCAGACA-GGTCTTACACTGGCTCTCATATATCGAGGCCG
* *
16585373 ATG-CATGTCCCATACATGTCTTACACT
1 ATGCCATGTCCCAGACAGGTCTTACACT
16585400 AGCACACTTC
Statistics
Matches: 210, Mismatches: 40, Indels: 30
0.75 0.14 0.11
Matches are distributed among these distances:
44 28 0.13
45 7 0.03
46 19 0.09
47 23 0.11
48 56 0.27
49 63 0.30
50 14 0.07
ACGTcount: A:0.24, C:0.28, G:0.19, T:0.28
Consensus pattern (49 bp):
ATGCCATGTCCCAGACAGGTCTTACACTGGCTCTCATATATCGAGGCCG
Found at i:16585244 original size:93 final size:93
Alignment explanation
Indices: 16585136--16585402 Score: 271
Period size: 93 Copynumber: 2.8 Consensus size: 93
16585126 TATCGAGGCC
*
16585136 GATGCCATGTCCCAGACAGGTCTTACACTGGCTCTCATCTATCGATGTCGATGCCATGTCCCAGA
1 GATGCCATGTCCCAGACAGGTCTTACACTGGCTCTCATCTATCGATGCCGATG-CATGTCCCA-A
*
16585201 CAAGTCTTACACT-GACATAT-GTC-AA-GCA
64 CATGTCTTACACTAG-C-TATCGTCGAATGCA
* * * * * * *
16585229 GATGCCATGTCCCAGATAGGTCTTAAACTAGCT-TGCATATCTCAAGGCCGATGCATGTCCCAAT
1 GATGCCATGTCCCAGACAGGTCTTACACTGGCTCT-CATCTATCGATGCCGATGCATGTCCCAA-
* * *
16585293 CTTGTCTTACACTAGCTCTCGTCGTAATGCC
64 CATGTCTTACACTAGCTATCGTCG-AATGCA
*
16585324 GATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCA-CAAT-G-TGGCCGATGCATGTCCCAT
1 GATGCCATGTCCCAGACA-GGTCTTACACTGGCTCTCATCTATCGAT-GCCGATGCATGTCCCA-
16585386 ACATGTCTTACACTAGC
63 ACATGTCTTACACTAGC
16585403 ACACTTCCAT
Statistics
Matches: 142, Mismatches: 21, Indels: 21
0.77 0.11 0.11
Matches are distributed among these distances:
91 3 0.02
92 25 0.18
93 44 0.31
94 33 0.23
95 21 0.15
96 15 0.11
97 1 0.01
ACGTcount: A:0.24, C:0.29, G:0.19, T:0.27
Consensus pattern (93 bp):
GATGCCATGTCCCAGACAGGTCTTACACTGGCTCTCATCTATCGATGCCGATGCATGTCCCAACA
TGTCTTACACTAGCTATCGTCGAATGCA
Found at i:16585348 original size:48 final size:46
Alignment explanation
Indices: 16585133--16585402 Score: 200
Period size: 48 Copynumber: 5.8 Consensus size: 46
16585123 ATATATCGAG
*
16585133 GCCGATGCCATGTCCCAGACAGGTCTTACACTGGCTCTCATCTATCGAT
1 GCCGATGCCATGTCCCAGACAGGTCTTACACTAGCTCTCATCTA---AT
* * * *
16585182 GTCGATGCCATGTCCCAGACAAGTCTTACACT-GAC-AT-ATGTCAA-
1 GCCGATGCCATGTCCCAGACAGGTCTTACACTAG-CTCTCATCT-AAT
* * * *
16585226 GCAGATGCCATGTCCCAGATAGGTCTTAAACTAGCT-TGCATATCTCAAG
1 GCCGATGCCATGTCCCAGACAGGTCTTACACTAGCTCT-C--ATCT-AAT
** *
16585275 GCCGATG-CATGTCCCA-ATCTTGTCTTACACTAGCTCTCGTCGTAAT
1 GCCGATGCCATGTCCCAGA-CAGGTCTTACACTAGCTCTCATC-TAAT
*
16585321 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCA-C-AATGT
1 GCCGATGCCATGTCCCAGACA-GGTCTTACACTAGCTCTCATCTAA--T
* *
16585368 GGCCGATG-CATGTCCCATACATGTCTTACACTAGC
1 -GCCGATGCCATGTCCCAGACAGGTCTTACACTAGC
16585403 ACACTTCCAT
Statistics
Matches: 179, Mismatches: 24, Indels: 39
0.74 0.10 0.16
Matches are distributed among these distances:
44 29 0.16
45 4 0.02
46 23 0.13
47 29 0.16
48 56 0.31
49 38 0.21
ACGTcount: A:0.24, C:0.30, G:0.20, T:0.27
Consensus pattern (46 bp):
GCCGATGCCATGTCCCAGACAGGTCTTACACTAGCTCTCATCTAAT
Found at i:16591644 original size:49 final size:49
Alignment explanation
Indices: 16591576--16591937 Score: 295
Period size: 49 Copynumber: 7.6 Consensus size: 49
16591566 CATCTAAGTC
* * *
16591576 GATGCCATGTTCCAAACAGGTCTTACACTGACTTTTATATATCGAGGCT
1 GATGCCATGTCCCAGACAGGTCTTACACTGACTTTCATATATCGAGGCT
* *
16591625 GATGCCATGTCCTAGACAGGTCTTACACTGACTTTCATATATCAAGGCT
1 GATGCCATGTCCCAGACAGGTCTTACACTGACTTTCATATATCGAGGCT
* * * *
16591674 AATGCCATGTCCCAGACAGGTCTTACACTGGCTCTCATCTATCG-GTG-T
1 GATGCCATGTCCCAGACAGGTCTTACACTGACTTTCATATATCGAG-GCT
* * * * *
16591722 CGATGCCATGTCCTAGATAGGTCTTACACTGA----CACATGTC-AAGCT
1 -GATGCCATGTCCCAGACAGGTCTTACACTGACTTTCATATATCGAGGCT
* * *
16591767 GATGCCATGTCCCAGACAGGTCTTACACT-AGCTTGCATATCTCGAGGCC
1 GATGCCATGTCCCAGACAGGTCTTACACTGA-CTTTCATATATCGAGGCT
* * * ** * * *
16591816 GATG-CATGTCCCAGGCATGTCTTACACT-AGCTCTCACCT-T-AATGCC
1 GATGCCATGTCCCAGACAGGTCTTACACTGA-CTTTCATATATCGAGGCT
* ** *
16591862 GATGCCATGTCCCAGACATGGTCTTACACTGGCCCTCATA-AT-GTGGCT
1 GATGCCATGTCCCAGACA-GGTCTTACACTGACTTTCATATATCGAGGCT
* *
16591910 GATG-CATGTCCCATACATGTCTTACACT
1 GATGCCATGTCCCAGACAGGTCTTACACT
16591938 AGCACACTTC
Statistics
Matches: 254, Mismatches: 45, Indels: 31
0.77 0.14 0.09
Matches are distributed among these distances:
43 1 0.00
44 28 0.11
45 6 0.02
46 18 0.07
47 25 0.10
48 59 0.23
49 117 0.46
ACGTcount: A:0.24, C:0.28, G:0.20, T:0.29
Consensus pattern (49 bp):
GATGCCATGTCCCAGACAGGTCTTACACTGACTTTCATATATCGAGGCT
Found at i:16591696 original size:98 final size:95
Alignment explanation
Indices: 16591576--16591937 Score: 325
Period size: 98 Copynumber: 3.8 Consensus size: 95
16591566 CATCTAAGTC
* * *
16591576 GATGCCATGTTCCAAACAGGTCTTACACTGACTTTTATATATCGAGGCTGATGCCATGTCCTAGA
1 GATGCCATGTCCCAGACAGGTCTTACACTGACTTTCATATATCGAGGCTGATGCCATGTCCTAGA
*
16591641 CAGGTCTTACACTGACTTTCATATATCAAGGCT
66 CAGGTCTTACACTGAC-TTCACAT-TCAA-GCT
* * * *
16591674 AATGCCATGTCCCAGACAGGTCTTACACTGGCTCTCATCTATCG-GTG-TCGATGCCATGTCCTA
1 GATGCCATGTCCCAGACAGGTCTTACACTGACTTTCATATATCGAG-GCT-GATGCCATGTCCTA
*
16591737 GATAGGTCTTACACTGA---CACATGTCAAGCT
64 GACAGGTCTTACACTGACTTCACAT-TCAAGCT
* * * *
16591767 GATGCCATGTCCCAGACAGGTCTTACACT-AGCTTGCATATCTCGAGGCCGATG-CATGTCCCAG
1 GATGCCATGTCCCAGACAGGTCTTACACTGA-CTTTCATATATCGAGGCTGATGCCATGTCCTAG
* * * *
16591830 GCATGTCTTACACT-AGCTCTCACCTT-AATGCC
65 ACAGGTCTTACACTGA-CT-TCACATTCAA-GCT
* ** * * *
16591862 GATGCCATGTCCCAGACATGGTCTTACACTGGCCCTCATA-AT-GTGGCTGATG-CATGTCCCAT
1 GATGCCATGTCCCAGACA-GGTCTTACACTGACTTTCATATATCGAGGCTGATGCCATGTCCTAG
*
16591924 ACATGTCTTACACT
65 ACAGGTCTTACACT
16591938 AGCACACTTC
Statistics
Matches: 219, Mismatches: 32, Indels: 30
0.78 0.11 0.11
Matches are distributed among these distances:
91 1 0.00
92 20 0.09
93 45 0.21
94 41 0.19
95 22 0.10
96 20 0.09
97 2 0.01
98 68 0.31
ACGTcount: A:0.24, C:0.28, G:0.20, T:0.29
Consensus pattern (95 bp):
GATGCCATGTCCCAGACAGGTCTTACACTGACTTTCATATATCGAGGCTGATGCCATGTCCTAGA
CAGGTCTTACACTGACTTCACATTCAAGCT
Found at i:16591838 original size:48 final size:45
Alignment explanation
Indices: 16591767--16591940 Score: 156
Period size: 48 Copynumber: 3.7 Consensus size: 45
16591757 ATGTCAAGCT
*
16591767 GATGCCATGTCCCAGACAGGTCTTACACTAGCTTGCATATCTCGAGGCC
1 GATGCCATGTCCCAGACATGTCTTACACTAGC-T-CATA-CT-GAGGCC
* * *
16591816 GATG-CATGTCCCAGGCATGTCTTACACTAGCTC-TCACCTTAATGCC
1 GATGCCATGTCCCAGACATGTCTTACACTAGCTCAT-A-C-TGAGGCC
* * * *
16591862 GATGCCATGTCCCAGACATGGTCTTACACTGGCCCTCATAATGTGGCT
1 GATGCCATGTCCCAGACAT-GTCTTACACTAG--CTCATACTGAGGCC
*
16591910 GATG-CATGTCCCATACATGTCTTACACTAGC
1 GATGCCATGTCCCAGACATGTCTTACACTAGC
16591941 ACACTTCCAT
Statistics
Matches: 104, Mismatches: 14, Indels: 19
0.76 0.10 0.14
Matches are distributed among these distances:
44 1 0.01
45 1 0.01
46 22 0.21
47 28 0.27
48 43 0.41
49 4 0.04
50 4 0.04
51 1 0.01
ACGTcount: A:0.22, C:0.30, G:0.20, T:0.27
Consensus pattern (45 bp):
GATGCCATGTCCCAGACATGTCTTACACTAGCTCATACTGAGGCC
Found at i:16591918 original size:142 final size:145
Alignment explanation
Indices: 16591575--16591940 Score: 379
Period size: 142 Copynumber: 2.6 Consensus size: 145
16591565 ACATCTAAGT
* * * ** * *
16591575 CGATGCCATGTTCCAAACAGGTCTTACACTGACTTTTATATATCGAGGCTGATGCCATGTCCTAG
1 CGATGCCATGTCCCAGACAGGTCTTACACTGGCACTCATA-AT-GAGGCTGATGCCATGTCCCAG
* * *
16591640 ACAGGTCTTACACT-GACTTTCATATATCAAGGCTAATGCCATGTCCCAGACAGGTCTTACACTG
64 ACAGGTCTTACACTAG-CTTGCATATATCAAGGCCAATGCCATGTCCCAGACAGGTCTTACACTA
* ** *
16591704 GCTCTCATCTATCGGTGT
128 GCTCTCACCTATCAATGC
* * * * * *
16591722 CGATGCCATGTCCTAGATAGGTCTTACACT-G-ACACAT-GTCAAGCTGATGCCATGTCCCAGAC
1 CGATGCCATGTCCCAGACAGGTCTTACACTGGCACTCATAATGAGGCTGATGCCATGTCCCAGAC
* * * * *
16591784 AGGTCTTACACTAGCTTGCATATCTCGAGGCCGATG-CATGTCCCAGGCATGTCTTACACTAGCT
66 AGGTCTTACACTAGCTTGCATATATCAAGGCCAATGCCATGTCCCAGACAGGTCTTACACTAGCT
16591848 CTCACCT-T-AATGC
131 CTCACCTATCAATGC
* * *
16591861 CGATGCCATGTCCCAGACATGGTCTTACACTGGCCCTCATAATGTGGCTGATG-CATGTCCCATA
1 CGATGCCATGTCCCAGACA-GGTCTTACACTGGCACTCATAATGAGGCTGATGCCATGTCCCAGA
*
16591925 CATGTCTTACACTAGC
65 CAGGTCTTACACTAGC
16591941 ACACTTCCAT
Statistics
Matches: 179, Mismatches: 35, Indels: 15
0.78 0.15 0.07
Matches are distributed among these distances:
139 19 0.11
140 12 0.07
141 32 0.18
142 78 0.44
143 10 0.06
145 2 0.01
147 26 0.15
ACGTcount: A:0.24, C:0.28, G:0.20, T:0.28
Consensus pattern (145 bp):
CGATGCCATGTCCCAGACAGGTCTTACACTGGCACTCATAATGAGGCTGATGCCATGTCCCAGAC
AGGTCTTACACTAGCTTGCATATATCAAGGCCAATGCCATGTCCCAGACAGGTCTTACACTAGCT
CTCACCTATCAATGC
Found at i:16594248 original size:40 final size:40
Alignment explanation
Indices: 16594010--16594234 Score: 341
Period size: 40 Copynumber: 5.7 Consensus size: 40
16594000 TCGAATGATG
* * *
16594010 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
*
16594050 TCC-GACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
*
16594089 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
16594129 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
16594169 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
16594210 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
16594235 AATGAGTAGC
Statistics
Matches: 172, Mismatches: 8, Indels: 10
0.91 0.04 0.05
Matches are distributed among these distances:
39 26 0.15
40 144 0.84
41 2 0.01
ACGTcount: A:0.24, C:0.22, G:0.27, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:16602306 original size:39 final size:40
Alignment explanation
Indices: 16602108--16602292 Score: 261
Period size: 40 Copynumber: 4.7 Consensus size: 40
16602098 TCGAATGATG
* * *
16602108 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
*
16602148 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
*
16602188 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
16602228 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
16602269 -CCGGGCTATGTCCC-AAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
16602293 AACGAGTAGC
Statistics
Matches: 133, Mismatches: 8, Indels: 9
0.89 0.05 0.06
Matches are distributed among these distances:
39 11 0.08
40 112 0.84
41 10 0.08
ACGTcount: A:0.24, C:0.22, G:0.27, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:16613073 original size:24 final size:24
Alignment explanation
Indices: 16613033--16613094 Score: 72
Period size: 25 Copynumber: 2.5 Consensus size: 24
16613023 GATTATGTAG
16613033 AAAGAATAAAGAAATGAA-AAAAAA
1 AAAGAA-AAAGAAATGAAGAAAAAA
* *
16613057 AAAGAAAGAGAATATGAAGAAAAAC
1 AAAGAAAAAGAA-ATGAAGAAAAAA
*
16613082 AAAGAAAAGGAAA
1 AAAGAAAAAGAAA
16613095 AAAAAGTGTT
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
23 5 0.16
24 12 0.38
25 15 0.47
ACGTcount: A:0.74, C:0.02, G:0.18, T:0.06
Consensus pattern (24 bp):
AAAGAAAAAGAAATGAAGAAAAAA
Found at i:16614297 original size:29 final size:29
Alignment explanation
Indices: 16614264--16614328 Score: 112
Period size: 29 Copynumber: 2.2 Consensus size: 29
16614254 GTGACGAGAT
*
16614264 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAAAATA
16614293 TGGCACTAAGTGTGCATGCTGGAAAAATA
1 TGGCACTAAGTGTGCATGCTGGAAAAATA
*
16614322 CGGCACT
1 TGGCACT
16614329 GGGTGTGCGA
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
29 34 1.00
ACGTcount: A:0.31, C:0.17, G:0.28, T:0.25
Consensus pattern (29 bp):
TGGCACTAAGTGTGCATGCTGGAAAAATA
Found at i:16617983 original size:40 final size:40
Alignment explanation
Indices: 16617923--16618070 Score: 206
Period size: 40 Copynumber: 3.7 Consensus size: 40
16617913 ACAATCACAA
* * * * *
16617923 GCACAATTGCCTTCGAGTCTTAACCCGGGTATAGCAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATAACAACTC
16617963 GCACAAATGCCTTCGGGTCTTAGCCCGGATATAACAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATAACAACTC
* *
16618003 GCACAAATGCCTTCGGGTCTTAGCCCGGATATAACCACTA
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATAACAACTC
* * *
16618043 GCATAAATGCCTTCAGGACTTAGCCCGG
1 GCACAAATGCCTTCGGGTCTTAGCCCGG
16618071 GTATCATTCA
Statistics
Matches: 98, Mismatches: 10, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
40 98 1.00
ACGTcount: A:0.26, C:0.30, G:0.21, T:0.23
Consensus pattern (40 bp):
GCACAAATGCCTTCGGGTCTTAGCCCGGATATAACAACTC
Found at i:16623895 original size:40 final size:40
Alignment explanation
Indices: 16623840--16624055 Score: 325
Period size: 40 Copynumber: 5.5 Consensus size: 40
16623830 CGGATGATAA
* *
16623840 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTA-ATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA-T
16623880 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
16623920 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* *
16623960 CCGGGCTAGGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
16624000 CC-GGCTAAGT-CCGAAGGCATTTGAGCGAG-TAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATAT
*
16624038 CC-GGCTAAATCCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
16624056 TACTTGGTTT
Statistics
Matches: 165, Mismatches: 8, Indels: 7
0.92 0.04 0.04
Matches are distributed among these distances:
37 2 0.01
38 32 0.19
39 14 0.08
40 116 0.70
41 1 0.01
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:16629699 original size:20 final size:21
Alignment explanation
Indices: 16629674--16629714 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
16629664 GCATCCGATC
16629674 GTCAGAA-TCGTACGCGGATT
1 GTCAGAAGTCGTACGCGGATT
16629694 GTCAGAAGTCGTACGCGGATT
1 GTCAGAAGTCGTACGCGGATT
16629715 TAAAACGAAG
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 7 0.35
21 13 0.65
ACGTcount: A:0.24, C:0.20, G:0.32, T:0.24
Consensus pattern (21 bp):
GTCAGAAGTCGTACGCGGATT
Found at i:16632142 original size:40 final size:40
Alignment explanation
Indices: 16632087--16632304 Score: 343
Period size: 40 Copynumber: 5.5 Consensus size: 40
16632077 CGGATGATAA
* *
16632087 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTA-ATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA-T
16632127 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
16632167 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* *
16632207 CCGGGCTAGGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
16632247 CCGGGCTAAGTCCCGAAGGCATTTGAGCGAG-TAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATAT
*
16632287 CC-GGCTAAATCCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
16632305 TACTTGGTTT
Statistics
Matches: 168, Mismatches: 8, Indels: 5
0.93 0.04 0.03
Matches are distributed among these distances:
39 17 0.10
40 150 0.89
41 1 0.01
ACGTcount: A:0.23, C:0.23, G:0.28, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:16637584 original size:41 final size:40
Alignment explanation
Indices: 16637448--16637620 Score: 215
Period size: 40 Copynumber: 4.3 Consensus size: 40
16637438 TCTTCGAAAT
* **
16637448 TTAG-CCGGATATAACCACAAGCAC-AATTGCCTTCGGGTC
1 TTAGCCCGGATATAACAACTCGCACGAA-TGCCTTCGGGTC
* * *** * *
16637487 TTAACCCGGATTTGGTAACTTGCACAAATGCCTTCGGGTC
1 TTAGCCCGGATATAACAACTCGCACGAATGCCTTCGGGTC
*
16637527 TTAGCCCGGATATAACAACTCGCACGAATGCCTTCGGGTT
1 TTAGCCCGGATATAACAACTCGCACGAATGCCTTCGGGTC
16637567 TTAGACCCGGATATAACAACTCGCACGAATGCCTTCGGGTC
1 TTAG-CCCGGATATAACAACTCGCACGAATGCCTTCGGGTC
16637608 TTAGCCCGGATAT
1 TTAGCCCGGATAT
16637621 CATTCAATTG
Statistics
Matches: 114, Mismatches: 17, Indels: 5
0.84 0.12 0.04
Matches are distributed among these distances:
39 3 0.03
40 70 0.61
41 41 0.36
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.25
Consensus pattern (40 bp):
TTAGCCCGGATATAACAACTCGCACGAATGCCTTCGGGTC
Found at i:16637607 original size:81 final size:80
Alignment explanation
Indices: 16637448--16637620 Score: 224
Period size: 81 Copynumber: 2.2 Consensus size: 80
16637438 TCTTCGAAAT
* * *** *
16637448 TTAG-CCGGATATAACCACAAGCACAATTGCCTTCGGGTCTTAACCCGGATTTGGTAACTTGCAC
1 TTAGCCCGGATATAACAACAAGCACAATTGCCTTCGGGTCTTAACCCGGATATAACAACTCGCAC
16637512 AAATGCCTTCGGGTC
66 AAATGCCTTCGGGTC
** *
16637527 TTAGCCCGGATATAACAACTCGCACGAA-TGCCTTCGGGTTTTAGACCCGGATATAACAACTCGC
1 TTAGCCCGGATATAACAACAAGCAC-AATTGCCTTCGGGTCTTA-ACCCGGATATAACAACTCGC
*
16637591 ACGAATGCCTTCGGGTC
64 ACAAATGCCTTCGGGTC
16637608 TTAGCCCGGATAT
1 TTAGCCCGGATAT
16637621 CATTCAATTG
Statistics
Matches: 81, Mismatches: 10, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
79 4 0.05
80 31 0.38
81 46 0.57
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.25
Consensus pattern (80 bp):
TTAGCCCGGATATAACAACAAGCACAATTGCCTTCGGGTCTTAACCCGGATATAACAACTCGCAC
AAATGCCTTCGGGTC
Found at i:16640997 original size:19 final size:19
Alignment explanation
Indices: 16640973--16641017 Score: 90
Period size: 19 Copynumber: 2.4 Consensus size: 19
16640963 TAGAGGCACA
16640973 TGGCCAAGGTACATGCCCG
1 TGGCCAAGGTACATGCCCG
16640992 TGGCCAAGGTACATGCCCG
1 TGGCCAAGGTACATGCCCG
16641011 TGGCCAA
1 TGGCCAA
16641018 AGGCTGCGTC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 26 1.00
ACGTcount: A:0.22, C:0.31, G:0.31, T:0.16
Consensus pattern (19 bp):
TGGCCAAGGTACATGCCCG
Found at i:16642191 original size:49 final size:49
Alignment explanation
Indices: 16642051--16642191 Score: 151
Period size: 49 Copynumber: 2.9 Consensus size: 49
16642041 AAAAGATGTT
* * *
16642051 GATGCCGTGTCCTAGACATGGTCTTACACTGGCTAGCA-C-ATCAAAGTC
1 GATGCCGTGTCCCAGACA-GGTCTTACACTGGCTATCATCTATCGAAGTC
* * * * * *
16642099 GATACCATGTCCCAGACAGGTCTTACACTGACTTTCATGTATCGAGGTC
1 GATGCCGTGTCCCAGACAGGTCTTACACTGGCTATCATCTATCGAAGTC
* * *
16642148 GATGCCGTGTCCCATACAGGTCTTACATTGGCTCTCATCTATCG
1 GATGCCGTGTCCCAGACAGGTCTTACACTGGCTATCATCTATCG
16642192 GTGTCAATGC
Statistics
Matches: 75, Mismatches: 16, Indels: 3
0.80 0.17 0.03
Matches are distributed among these distances:
47 16 0.21
48 15 0.20
49 44 0.59
ACGTcount: A:0.23, C:0.28, G:0.21, T:0.28
Consensus pattern (49 bp):
GATGCCGTGTCCCAGACAGGTCTTACACTGGCTATCATCTATCGAAGTC
Found at i:16642427 original size:26 final size:24
Alignment explanation
Indices: 16642397--16642446 Score: 73
Period size: 26 Copynumber: 2.0 Consensus size: 24
16642387 AAATAAAAAA
*
16642397 ATTTAAAAATATAATAAATCAAATAT
1 ATTTAAAAACATAA-AAA-CAAATAT
16642423 ATTTAAAAACATAAAAACAAATAT
1 ATTTAAAAACATAAAAACAAATAT
16642447 TAAAACAAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 7 0.30
25 3 0.13
26 13 0.57
ACGTcount: A:0.64, C:0.06, G:0.00, T:0.30
Consensus pattern (24 bp):
ATTTAAAAACATAAAAACAAATAT
Found at i:16642466 original size:21 final size:21
Alignment explanation
Indices: 16642417--16642475 Score: 59
Period size: 21 Copynumber: 2.8 Consensus size: 21
16642407 ATAATAAATC
*
16642417 AAAT-ATATTTAAAA-ACATAA
1 AAATAATA-TTAAAACAAATAA
*
16642437 AAACAAATATTAAAACAAATAA
1 AAA-TAATATTAAAACAAATAA
*
16642459 AAATAATACTAAAACAA
1 AAATAATATTAAAACAA
16642476 TTCTTAAAAC
Statistics
Matches: 32, Mismatches: 4, Indels: 5
0.78 0.10 0.12
Matches are distributed among these distances:
20 3 0.09
21 18 0.56
22 11 0.34
ACGTcount: A:0.69, C:0.08, G:0.00, T:0.22
Consensus pattern (21 bp):
AAATAATATTAAAACAAATAA
Found at i:16645920 original size:22 final size:23
Alignment explanation
Indices: 16645866--16645917 Score: 63
Period size: 23 Copynumber: 2.3 Consensus size: 23
16645856 TTATAAACCT
16645866 AATAAAAA-TAAG-CTTAAAGAAA
1 AATAAAAAGT-AGTCTTAAAGAAA
* *
16645888 AATAAAAAGTAGTCTTAAAGTAG
1 AATAAAAAGTAGTCTTAAAGAAA
16645911 AATAAAA
1 AATAAAA
16645918 GTAAAAACAT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
22 10 0.38
23 16 0.62
ACGTcount: A:0.63, C:0.04, G:0.12, T:0.21
Consensus pattern (23 bp):
AATAAAAAGTAGTCTTAAAGAAA
Found at i:16647958 original size:55 final size:55
Alignment explanation
Indices: 16647850--16647963 Score: 122
Period size: 55 Copynumber: 2.1 Consensus size: 55
16647840 GTTAATTTGA
* ** * *
16647850 CAGGTTCGACCATGGGTTCAAGACACGGGCGTGGTGAATGCCAGTGCTATTTTCT
1 CAGGTTCAACCATGGGTTCAAGACACGGGCGTGGTGAACACCAGTACTATTTTCG
* * * * *
16647905 CAGGTTCAACCAT-GGTTCTAAGACACGGGCGTGTTGCACACCCGTATTGTTTTCG
1 CAGGTTCAACCATGGGTTC-AAGACACGGGCGTGGTGAACACCAGTACTATTTTCG
16647960 CAGG
1 CAGG
16647964 ATCGCCCACG
Statistics
Matches: 48, Mismatches: 10, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
54 5 0.10
55 43 0.90
ACGTcount: A:0.20, C:0.24, G:0.29, T:0.27
Consensus pattern (55 bp):
CAGGTTCAACCATGGGTTCAAGACACGGGCGTGGTGAACACCAGTACTATTTTCG
Found at i:16651553 original size:28 final size:28
Alignment explanation
Indices: 16651488--16651586 Score: 128
Period size: 28 Copynumber: 3.5 Consensus size: 28
16651478 TCATGAATTG
* ** *
16651488 GCACTAAGTGTGCGGGTTCAAATTGTATA
1 GCACTAAGTGTGCGAGTT-TGATTATATA
16651517 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
16651545 GCACTAAGTGTGCGAGTTTGACTAT-TAA
1 GCACTAAGTGTGCGAGTTTGATTATAT-A
16651573 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
16651587 GCTTATTATA
Statistics
Matches: 64, Mismatches: 5, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
27 1 0.02
28 46 0.72
29 17 0.27
ACGTcount: A:0.27, C:0.14, G:0.27, T:0.31
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATATA
Found at i:16659973 original size:28 final size:28
Alignment explanation
Indices: 16659908--16660006 Score: 128
Period size: 28 Copynumber: 3.5 Consensus size: 28
16659898 TCATGAATTG
* ** *
16659908 GCACTAAGTGTGCGGGTTCAAATTGTATA
1 GCACTAAGTGTGCGAGTT-TGATTATATA
16659937 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
16659965 GCACTAAGTGTGCGAGTTTGACTAT-TAA
1 GCACTAAGTGTGCGAGTTTGATTATAT-A
16659993 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
16660007 GCCTTATTAT
Statistics
Matches: 64, Mismatches: 5, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
27 1 0.02
28 46 0.72
29 17 0.27
ACGTcount: A:0.27, C:0.14, G:0.27, T:0.31
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATATA
Found at i:16664323 original size:6 final size:6
Alignment explanation
Indices: 16664302--16664341 Score: 53
Period size: 6 Copynumber: 6.5 Consensus size: 6
16664292 GTTTAAAAAC
* *
16664302 TTTTTA TTTATTA TTTTTA TTTTCA CTTTTA TTTTTA TTT
1 TTTTTA TTT-TTA TTTTTA TTTTTA TTTTTA TTTTTA TTT
16664342 ATCTTCTTTA
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
6 23 0.79
7 6 0.21
ACGTcount: A:0.17, C:0.05, G:0.00, T:0.78
Consensus pattern (6 bp):
TTTTTA
Found at i:16670370 original size:46 final size:46
Alignment explanation
Indices: 16670320--16670492 Score: 210
Period size: 46 Copynumber: 3.7 Consensus size: 46
16670310 TGGTTGAGCA
16670320 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * * *
16670366 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--AATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
16670411 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* *
16670459 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
16670493 GGGGCGGGTT
Statistics
Matches: 107, Mismatches: 11, Indels: 18
0.79 0.08 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
45 3 0.03
46 61 0.57
47 29 0.27
48 3 0.03
50 3 0.03
51 2 0.02
ACGTcount: A:0.22, C:0.21, G:0.28, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:16670476 original size:93 final size:93
Alignment explanation
Indices: 16670317--16670487 Score: 315
Period size: 93 Copynumber: 1.8 Consensus size: 93
16670307 GGATGGTTGA
* *
16670317 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
16670382 TGAGTCCGAGTTCGTGAAATGTAACTAG
66 TGAGTCCGAGTTCGTGAAATGTAACTAG
*
16670410 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
16670475 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
16670488 ACTTAGGGGC
Statistics
Matches: 75, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.22, C:0.22, G:0.29, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAAATGTAACTAG
Found at i:16684882 original size:40 final size:39
Alignment explanation
Indices: 16684732--16684883 Score: 234
Period size: 39 Copynumber: 3.9 Consensus size: 39
16684722 AAATGTTCGA
* *
16684732 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATT
1 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTT
*
16684771 GTGACATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTT
1 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTT
*
16684810 ATGATATCCGGGCTAAG-CCGAAGGCAATTGTGCGAGTT
1 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTT
* *
16684848 GTGATATCCGGGTTAAGTCCCGAAGGCATTTGTGCG
1 GTGATATCCGGGCTAAG-CCCGAAGGCAATTGTGCG
16684884 GGTTACCATA
Statistics
Matches: 103, Mismatches: 8, Indels: 3
0.90 0.07 0.03
Matches are distributed among these distances:
38 36 0.35
39 51 0.50
40 16 0.16
ACGTcount: A:0.24, C:0.20, G:0.32, T:0.24
Consensus pattern (39 bp):
GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTT
Found at i:16684899 original size:40 final size:39
Alignment explanation
Indices: 16684733--16684914 Score: 231
Period size: 39 Copynumber: 4.6 Consensus size: 39
16684723 AATGTTCGAG
* * *
16684733 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATTG
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
*
16684772 TGACATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
*
16684811 TGATATCCGGGCTAAG-CCGAAGGCAATTGTGCGAGTTG
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
* * *
16684849 TGATATCCGGGTTAAGTCCCGAAGGCATTTGTGCGGGTTA
1 TGATATCCGGGCTAAG-CCCGAAGGCAATTGTGCGAGTTA
** * *
16684889 CCATAACCGGGCTATGTCCCGAAGGC
1 TGATATCCGGGCTAAG-CCCGAAGGC
16684915 GTTTGAACGA
Statistics
Matches: 126, Mismatches: 15, Indels: 3
0.88 0.10 0.02
Matches are distributed among these distances:
38 36 0.29
39 50 0.40
40 40 0.32
ACGTcount: A:0.24, C:0.22, G:0.31, T:0.23
Consensus pattern (39 bp):
TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
Found at i:16687590 original size:14 final size:14
Alignment explanation
Indices: 16687573--16687607 Score: 52
Period size: 14 Copynumber: 2.4 Consensus size: 14
16687563 AACCTAACCC
16687573 AAAAAAAAACAAAA
1 AAAAAAAAACAAAA
*
16687587 AAAAAAAAAGAAAA
1 AAAAAAAAACAAAA
16687601 AGAAAAA
1 A-AAAAA
16687608 CTTACCCCAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 14 0.74
15 5 0.26
ACGTcount: A:0.91, C:0.03, G:0.06, T:0.00
Consensus pattern (14 bp):
AAAAAAAAACAAAA
Found at i:16703391 original size:14 final size:14
Alignment explanation
Indices: 16703372--16703400 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
16703362 CCACATCAAT
16703372 CAGAAATGTTTCAC
1 CAGAAATGTTTCAC
16703386 CAGAAATGTTTCAC
1 CAGAAATGTTTCAC
16703400 C
1 C
16703401 TCCTCGGCTA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.34, C:0.24, G:0.14, T:0.28
Consensus pattern (14 bp):
CAGAAATGTTTCAC
Found at i:16711498 original size:48 final size:48
Alignment explanation
Indices: 16711442--16711723 Score: 284
Period size: 48 Copynumber: 5.9 Consensus size: 48
16711432 TTAATTTGCT
* * *
16711442 GATGCCATGTCCCAAACATGGTCTTACACTGGCTCACATGTCGAGGCC
1 GATGCCATGTCCCAGACATGGTCTTACACTAGCTCACATATCGAGGCC
* * *
16711490 GATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCA-AGTCGCGACC
1 GATGCCATGTCCCAGACATGGTCTTACACTAGCTCACATA-TCGAGGCC
* * * * *
16711538 GATGCCATGTCCCAGACATGGTCTTACACTAGCTCTA-GTCTCAATGTC
1 GATGCCATGTCCCAGACATGGTCTTACACTAGCTC-ACATATCGAGGCC
* * * * *
16711586 GATGCCATGTCCCAGACATGGTCTTACACTGGCACTCATAAC-A-TCATC
1 GATGCCATGTCCCAGACATGGTCTTACACTAGCTCACATATCGAGGC--C
* * * * * *
16711634 GATGCCATGTTCCAAACATGGTCTAACACTGGCTCTCATATCGTGGCC
1 GATGCCATGTCCCAGACATGGTCTTACACTAGCTCACATATCGAGGCC
* *
16711682 GATACCATGTCCCAGACATGGTCTTACACTAGCACACATATC
1 GATGCCATGTCCCAGACATGGTCTTACACTAGCTCACATATC
16711724 ACCCAAATGT
Statistics
Matches: 190, Mismatches: 36, Indels: 16
0.79 0.15 0.07
Matches are distributed among these distances:
47 1 0.01
48 188 0.99
50 1 0.01
ACGTcount: A:0.25, C:0.31, G:0.19, T:0.25
Consensus pattern (48 bp):
GATGCCATGTCCCAGACATGGTCTTACACTAGCTCACATATCGAGGCC
Found at i:16711606 original size:96 final size:94
Alignment explanation
Indices: 16711442--16711721 Score: 321
Period size: 96 Copynumber: 2.9 Consensus size: 94
16711432 TTAATTTGCT
* * *
16711442 GATGCCATGTCCCAAACATGGTCTTACACTGGCTCACATGTCGAGGCCGATGCCATGTCCCAGAC
1 GATGCCATGTCCCAAACATGGTCTTACACTGGCTC-TATATC-ATGCCGATGCCATGTCCCAGAC
* *
16711507 ATGGTCTTACACTAGCTCTCA-AGTC-GCGACC
64 ATGGTCTTACACTAGCACTCATA-ACAGC-ACC
* * * *
16711538 GATGCCATGTCCCAGACATGGTCTTACACTAGCTCTAGTCTCAATGTCGATGCCATGTCCCAGAC
1 GATGCCATGTCCCAAACATGGTCTTACACTGGCTCTA-TATC-ATGCCGATGCCATGTCCCAGAC
* * *
16711603 ATGGTCTTACACTGGCACTCATAACATCATC
64 ATGGTCTTACACTAGCACTCATAACAGCACC
* * * *
16711634 GATGCCATGTTCCAAACATGGTCTAACACTGGCTCTCATATCGTGGCCGATACCATGTCCCAGAC
1 GATGCCATGTCCCAAACATGGTCTTACACTGGCTCT-ATATCAT-GCCGATGCCATGTCCCAGAC
*
16711699 ATGGTCTTACACTAGCACACATA
64 ATGGTCTTACACTAGCACTCATA
16711722 TCACCCAAAT
Statistics
Matches: 157, Mismatches: 22, Indels: 10
0.83 0.12 0.05
Matches are distributed among these distances:
95 2 0.01
96 152 0.97
97 3 0.02
ACGTcount: A:0.25, C:0.31, G:0.19, T:0.25
Consensus pattern (94 bp):
GATGCCATGTCCCAAACATGGTCTTACACTGGCTCTATATCATGCCGATGCCATGTCCCAGACAT
GGTCTTACACTAGCACTCATAACAGCACC
Found at i:16711702 original size:144 final size:144
Alignment explanation
Indices: 16711442--16711714 Score: 381
Period size: 144 Copynumber: 1.9 Consensus size: 144
16711432 TTAATTTGCT
* ** *
16711442 GATGCCATGTCCCAAACATGGTCTTACACTGGCTCACATGTCGAGGCCGATGCCATGTCCCAGAC
1 GATGCCATGTCCCAAACATGGTCTTACACTGGCACACATAACGAGGCCGATGCCATGTCCCAAAC
* *
16711507 ATGGTCTTACACTAGCTCTCAAGTCGCGACCGATGCCATGTCCCAGACATGGTCTTACACTAGCT
66 ATGGTCTAACACTAGCTCTCAAGTCGCGACCGATACCATGTCCCAGACATGGTCTTACACTAGCT
16711572 CTAGTCTCAATGTC
131 CTAGTCTCAATGTC
* * * *
16711586 GATGCCATGTCCCAGACATGGTCTTACACTGGCACTCATAAC-A-TCATCGATGCCATGTTCCAA
1 GATGCCATGTCCCAAACATGGTCTTACACTGGCACACATAACGAGGC--CGATGCCATGTCCCAA
* * *
16711649 ACATGGTCTAACACTGGCTCTCATA-TCGTGGCCGATACCATGTCCCAGACATGGTCTTACACTA
64 ACATGGTCTAACACTAGCTCTCA-AGTCGCGACCGATACCATGTCCCAGACATGGTCTTACACTA
16711713 GC
128 GC
16711715 ACACATATCA
Statistics
Matches: 113, Mismatches: 13, Indels: 6
0.86 0.10 0.05
Matches are distributed among these distances:
142 1 0.01
143 1 0.01
144 110 0.97
145 1 0.01
ACGTcount: A:0.24, C:0.31, G:0.20, T:0.25
Consensus pattern (144 bp):
GATGCCATGTCCCAAACATGGTCTTACACTGGCACACATAACGAGGCCGATGCCATGTCCCAAAC
ATGGTCTAACACTAGCTCTCAAGTCGCGACCGATACCATGTCCCAGACATGGTCTTACACTAGCT
CTAGTCTCAATGTC
Found at i:16713655 original size:40 final size:40
Alignment explanation
Indices: 16713610--16713797 Score: 236
Period size: 40 Copynumber: 4.7 Consensus size: 40
16713600 ATAACCACAA
* * *
16713610 GCACAATTGCCTTCGGGTCTCAACCCGGGTATAGAAACTC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATATAGAAACTC
* *
16713650 GCACAAATGCCTTCGGGTCTTAGCCCGGATGTA-ACAACTC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATATAGA-AACTC
* *
16713690 GCACAAATGCCTTCGGGTCTTAACCCAGATATAGCAACTC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATATAGAAACTC
* *
16713730 GCACAAATGCCTTCGGGTCTTAACCCGGATATA-ATCACTA
1 GCACAAATGCCTTCGGGTCTTAACCCGGATATAGA-AACTC
* * *
16713770 GCATAAATGCCTTCGGGGCTTAGCCCGG
1 GCACAAATGCCTTCGGGTCTTAACCCGG
16713798 GTATCATTCA
Statistics
Matches: 129, Mismatches: 16, Indels: 6
0.85 0.11 0.04
Matches are distributed among these distances:
39 1 0.01
40 128 0.99
ACGTcount: A:0.26, C:0.29, G:0.22, T:0.23
Consensus pattern (40 bp):
GCACAAATGCCTTCGGGTCTTAACCCGGATATAGAAACTC
Found at i:16713715 original size:80 final size:80
Alignment explanation
Indices: 16713594--16713801 Score: 283
Period size: 80 Copynumber: 2.6 Consensus size: 80
16713584 CGGAATTTAG
* * * *
16713594 CCGGATATAACCACAAGCACAATTGCCTTCGGGTCTCAACCCGGGTATAGAAACTCGCACAAATG
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAACCCGGGTATAGAAACTCGCACAAATG
*
16713659 CCTTCGGGTCTTAGC
66 CCTTCGGGTCTTAAC
* * * * *
16713674 CCGGATGTAA-CAACTCGCACAAATGCCTTCGGGTCTTAACCCAGATATAGCAACTCGCACAAAT
1 CCGGATATAATC-ACTAGCACAAATGCCTTCGGGTCTTAACCCGGGTATAGAAACTCGCACAAAT
16713738 GCCTTCGGGTCTTAAC
65 GCCTTCGGGTCTTAAC
* * *
16713754 CCGGATATAATCACTAGCATAAATGCCTTCGGGGCTTAGCCCGGGTAT
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAACCCGGGTAT
16713802 CATTCAATTG
Statistics
Matches: 110, Mismatches: 16, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
79 1 0.01
80 108 0.98
81 1 0.01
ACGTcount: A:0.27, C:0.29, G:0.21, T:0.23
Consensus pattern (80 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAACCCGGGTATAGAAACTCGCACAAATG
CCTTCGGGTCTTAAC
Found at i:16723712 original size:29 final size:29
Alignment explanation
Indices: 16723670--16723729 Score: 102
Period size: 29 Copynumber: 2.1 Consensus size: 29
16723660 CAAATAGCCG
16723670 AAGCTAGTTTAAATCACACACTTAGTGCC
1 AAGCTAGTTTAAATCACACACTTAGTGCC
**
16723699 AAGCTAGTTTAAATCGTACACTTAGTGCC
1 AAGCTAGTTTAAATCACACACTTAGTGCC
16723728 AA
1 AA
16723730 AACTTCCGAT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.35, C:0.22, G:0.15, T:0.28
Consensus pattern (29 bp):
AAGCTAGTTTAAATCACACACTTAGTGCC
Found at i:16731019 original size:93 final size:93
Alignment explanation
Indices: 16730907--16731078 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
16730897 GCCCATAAGT
* *
16730907 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
16730972 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
*
16731000 GAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
16731065 CGAGTTCGGATGCC
66 CGAGTTCGGATGCC
16731079 CAAATATCCC
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.27, C:0.30, G:0.22, T:0.20
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:16731074 original size:46 final size:46
Alignment explanation
Indices: 16730899--16731074 Score: 232
Period size: 46 Copynumber: 3.8 Consensus size: 46
16730889 TGTAACCCGC
* * *
16730899 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
* *
16730945 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACG-CTCG---CAT
* *
16730995 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
16731038 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
16731075 TGCCCAAATA
Statistics
Matches: 112, Mismatches: 11, Indels: 14
0.82 0.08 0.10
Matches are distributed among these distances:
43 3 0.03
44 1 0.01
45 2 0.02
46 68 0.61
47 32 0.29
48 2 0.02
49 1 0.01
50 3 0.03
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.20
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
Found at i:16733499 original size:30 final size:30
Alignment explanation
Indices: 16733455--16733543 Score: 101
Period size: 30 Copynumber: 3.0 Consensus size: 30
16733445 CAAAGATAAC
16733455 AAGAAAACC-GAATAAAGAAATCCAAGATA
1 AAGAAAACCAGAATAAAGAAATCCAAGATA
* *
16733484 GAGAAACCCAGAATAAAGAAATCC-AGAATA
1 AAGAAAACCAGAATAAAGAAATCCAAG-ATA
* * * *
16733514 AAGAGATCCAGGATAAAGAAACCCAAGATA
1 AAGAAAACCAGAATAAAGAAATCCAAGATA
16733544 CGATACTATG
Statistics
Matches: 50, Mismatches: 7, Indels: 5
0.81 0.11 0.08
Matches are distributed among these distances:
29 9 0.18
30 39 0.78
31 2 0.04
ACGTcount: A:0.57, C:0.16, G:0.17, T:0.10
Consensus pattern (30 bp):
AAGAAAACCAGAATAAAGAAATCCAAGATA
Found at i:16733503 original size:15 final size:15
Alignment explanation
Indices: 16733455--16733534 Score: 92
Period size: 15 Copynumber: 5.4 Consensus size: 15
16733445 CAAAGATAAC
*
16733455 AAGAAAACC-GAATA
1 AAGAAATCCAGAATA
16733469 AAGAAATCCA-AGATA
1 AAGAAATCCAGA-ATA
* *
16733484 GAGAAACCCAGAATA
1 AAGAAATCCAGAATA
16733499 AAGAAATCCAGAATA
1 AAGAAATCCAGAATA
* *
16733514 AAGAGATCCAGGATA
1 AAGAAATCCAGAATA
16733529 AAGAAA
1 AAGAAA
16733535 CCCAAGATAC
Statistics
Matches: 55, Mismatches: 8, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
14 9 0.16
15 45 0.82
16 1 0.02
ACGTcount: A:0.59, C:0.14, G:0.17, T:0.10
Consensus pattern (15 bp):
AAGAAATCCAGAATA
Found at i:16733543 original size:15 final size:15
Alignment explanation
Indices: 16733466--16733543 Score: 79
Period size: 15 Copynumber: 5.2 Consensus size: 15
16733456 AGAAAACCGA
16733466 ATAAAGAAATCCAAG
1 ATAAAGAAATCCAAG
* *
16733481 ATAGAGAAA-CCCAG
1 ATAAAGAAATCCAAG
16733495 AATAAAGAAATCC-AG
1 -ATAAAGAAATCCAAG
* *
16733510 AATAAAGAGATCCAGG
1 -ATAAAGAAATCCAAG
*
16733526 ATAAAGAAACCCAAG
1 ATAAAGAAATCCAAG
16733541 ATA
1 ATA
16733544 CGATACTATG
Statistics
Matches: 52, Mismatches: 8, Indels: 6
0.79 0.12 0.09
Matches are distributed among these distances:
14 4 0.08
15 45 0.87
16 3 0.06
ACGTcount: A:0.56, C:0.15, G:0.17, T:0.12
Consensus pattern (15 bp):
ATAAAGAAATCCAAG
Found at i:16736605 original size:93 final size:93
Alignment explanation
Indices: 16736493--16736664 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
16736483 GCCCATAAGT
* *
16736493 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
16736558 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
*
16736586 GAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
16736651 CGAGTTCGGATGCC
66 CGAGTTCGGATGCC
16736665 CAAATATCCA
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.27, C:0.30, G:0.22, T:0.20
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:16736660 original size:46 final size:46
Alignment explanation
Indices: 16736485--16736660 Score: 232
Period size: 46 Copynumber: 3.8 Consensus size: 46
16736475 TGTAACCCGC
* * *
16736485 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
* *
16736531 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACG-CTCG---CAT
* *
16736581 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
16736624 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
16736661 TGCCCAAATA
Statistics
Matches: 112, Mismatches: 11, Indels: 14
0.82 0.08 0.10
Matches are distributed among these distances:
43 3 0.03
44 1 0.01
45 2 0.02
46 68 0.61
47 32 0.29
48 2 0.02
49 1 0.01
50 3 0.03
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.20
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
Found at i:16754131 original size:13 final size:13
Alignment explanation
Indices: 16754113--16754141 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
16754103 TGTTGTTTAT
16754113 TAAACTAATTAAC
1 TAAACTAATTAAC
16754126 TAAACTAATTAAC
1 TAAACTAATTAAC
16754139 TAA
1 TAA
16754142 TTAAACTAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.55, C:0.14, G:0.00, T:0.31
Consensus pattern (13 bp):
TAAACTAATTAAC
Found at i:16755621 original size:93 final size:93
Alignment explanation
Indices: 16755509--16755680 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
16755499 CGCCCATAAG
* *
16755509 CGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
16755574 ACGAGTTCGGATGCCTAGTTACATCTCA
66 ACGAGTTCGGATGCCTAGTTACATCTCA
*
16755602 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
16755667 ACGAGTTCGGATGC
66 ACGAGTTCGGATGC
16755681 TCAACCATCC
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.21
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATCTCA
Found at i:16755677 original size:46 final size:46
Alignment explanation
Indices: 16755502--16755677 Score: 216
Period size: 46 Copynumber: 3.8 Consensus size: 46
16755492 TGTAACCCGC
* * *
16755502 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
* *
16755548 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCAT
*
16755598 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
*
16755641 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA
16755678 TGCTCAACCA
Statistics
Matches: 111, Mismatches: 10, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 2 0.02
46 63 0.57
47 29 0.26
48 2 0.02
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.29, C:0.30, G:0.21, T:0.20
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:16763178 original size:46 final size:45
Alignment explanation
Indices: 16763077--16763170 Score: 136
Period size: 46 Copynumber: 2.1 Consensus size: 45
16763067 TGTAACCCGC
* *
16763077 CCATAAGTGAACTCGGACTCAACTCAACAAGTTCGGACATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACAAGTTCGGA-ATGCGCAA
* *
16763123 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGG-ATGCTCAA
1 CCATAAGTGAACTCGGACTCAACTCAACAAGTTCGGAATGCGCAA
16763167 CCAT
1 CCAT
16763171 CCTAGTGACA
Statistics
Matches: 44, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
44 9 0.20
46 35 0.80
ACGTcount: A:0.32, C:0.29, G:0.18, T:0.21
Consensus pattern (45 bp):
CCATAAGTGAACTCGGACTCAACTCAACAAGTTCGGAATGCGCAA
Found at i:16767115 original size:5 final size:6
Alignment explanation
Indices: 16767102--16767140 Score: 60
Period size: 6 Copynumber: 6.5 Consensus size: 6
16767092 AATAAAATTG
* *
16767102 AAATGA AAATAA AAATAA AAATAA AAACAA AAATAA AAA
1 AAATAA AAATAA AAATAA AAATAA AAATAA AAATAA AAA
16767141 GATAGGAGGA
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
6 30 1.00
ACGTcount: A:0.82, C:0.03, G:0.03, T:0.13
Consensus pattern (6 bp):
AAATAA
Found at i:16770635 original size:31 final size:31
Alignment explanation
Indices: 16770594--16770657 Score: 101
Period size: 31 Copynumber: 2.1 Consensus size: 31
16770584 CCTTTTCATA
*
16770594 TTTCATATTTCATAACACTGGGCCGAAGCCT
1 TTTCAAATTTCATAACACTGGGCCGAAGCCT
**
16770625 TTTCAAATTTCATATTACTGGGCCGAAGCCT
1 TTTCAAATTTCATAACACTGGGCCGAAGCCT
16770656 TT
1 TT
16770658 ACGGTAAACG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.25, C:0.23, G:0.16, T:0.36
Consensus pattern (31 bp):
TTTCAAATTTCATAACACTGGGCCGAAGCCT
Found at i:16770985 original size:23 final size:24
Alignment explanation
Indices: 16770850--16771039 Score: 251
Period size: 24 Copynumber: 8.0 Consensus size: 24
16770840 GCTTTATCAT
* *
16770850 ATAACTGGAGGCCT-AGCCTCTTTTA
1 ATAACTGG-GGCATAAGCC-CTTTTG
* * *
16770875 ATAACTAGGGCAAAAGCCCTTTTT
1 ATAACTGGGGCATAAGCCCTTTTG
*
16770899 ATAACTGGGGCGTAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTG
*
16770923 ATAACTGGGGCGTAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTG
*
16770947 ATAACTGGGGCGTAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTG
16770971 ATAACT-GGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTG
**
16770994 ATAACTGGGGCATAAGCCC-TTCA
1 ATAACTGGGGCATAAGCCCTTTTG
16771017 ATAACTGGGGCATAAGCCCTTTT
1 ATAACTGGGGCATAAGCCCTTTT
16771040 TCACTTCCTC
Statistics
Matches: 150, Mismatches: 12, Indels: 7
0.89 0.07 0.04
Matches are distributed among these distances:
23 43 0.29
24 96 0.64
25 11 0.07
ACGTcount: A:0.25, C:0.22, G:0.24, T:0.29
Consensus pattern (24 bp):
ATAACTGGGGCATAAGCCCTTTTG
Found at i:16771112 original size:9 final size:9
Alignment explanation
Indices: 16771098--16771174 Score: 64
Period size: 9 Copynumber: 7.9 Consensus size: 9
16771088 ATCTCGTGTG
16771098 CATATCATA
1 CATATCATA
*
16771107 CATATCATGTG
1 CATATCA--TA
16771118 CATATCATA
1 CATATCATA
* *
16771127 CATGTCATGTG
1 CATATCA--TA
16771138 CATATCATA
1 CATATCATA
*
16771147 CATATCATGTG
1 CATATCA--TA
16771158 CATATCATA
1 CATATCATA
16771167 CATATCAT
1 CATATCAT
16771175 GTTTATCAAA
Statistics
Matches: 54, Mismatches: 8, Indels: 12
0.73 0.11 0.16
Matches are distributed among these distances:
9 31 0.57
11 23 0.43
ACGTcount: A:0.35, C:0.21, G:0.09, T:0.35
Consensus pattern (9 bp):
CATATCATA
Found at i:16771117 original size:20 final size:20
Alignment explanation
Indices: 16771094--16771176 Score: 157
Period size: 20 Copynumber: 4.2 Consensus size: 20
16771084 GAACATCTCG
16771094 TGTGCATATCATACATATCA
1 TGTGCATATCATACATATCA
*
16771114 TGTGCATATCATACATGTCA
1 TGTGCATATCATACATATCA
16771134 TGTGCATATCATACATATCA
1 TGTGCATATCATACATATCA
16771154 TGTGCATATCATACATATCA
1 TGTGCATATCATACATATCA
16771174 TGT
1 TGT
16771177 TTATCAAAAT
Statistics
Matches: 61, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 61 1.00
ACGTcount: A:0.33, C:0.19, G:0.12, T:0.36
Consensus pattern (20 bp):
TGTGCATATCATACATATCA
Found at i:16771123 original size:11 final size:11
Alignment explanation
Indices: 16771094--16771165 Score: 66
Period size: 11 Copynumber: 7.1 Consensus size: 11
16771084 GAACATCTCG
16771094 TGTGCATATCA
1 TGTGCATATCA
*
16771105 --TACATATCA
1 TGTGCATATCA
16771114 TGTGCATATCA
1 TGTGCATATCA
* *
16771125 --TACATGTCA
1 TGTGCATATCA
16771134 TGTGCATATCA
1 TGTGCATATCA
*
16771145 --TACATATCA
1 TGTGCATATCA
16771154 TGTGCATATCA
1 TGTGCATATCA
16771165 T
1 T
16771166 ACATATCATG
Statistics
Matches: 47, Mismatches: 8, Indels: 12
0.70 0.12 0.18
Matches are distributed among these distances:
9 23 0.49
11 24 0.51
ACGTcount: A:0.32, C:0.19, G:0.12, T:0.36
Consensus pattern (11 bp):
TGTGCATATCA
Found at i:16771259 original size:25 final size:25
Alignment explanation
Indices: 16771213--16771260 Score: 60
Period size: 25 Copynumber: 1.9 Consensus size: 25
16771203 ATATATAAAC
* * * *
16771213 CCTAGGGGTATAATGGTTATTTTTA
1 CCTAGGGGCAAAACGGTCATTTTTA
16771238 CCTAGGGGCAAAACGGTCATTTT
1 CCTAGGGGCAAAACGGTCATTTT
16771261 CATATTATAA
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 19 1.00
ACGTcount: A:0.25, C:0.15, G:0.25, T:0.35
Consensus pattern (25 bp):
CCTAGGGGCAAAACGGTCATTTTTA
Found at i:16772520 original size:27 final size:27
Alignment explanation
Indices: 16772500--16773083 Score: 671
Period size: 27 Copynumber: 21.6 Consensus size: 27
16772490 AGGGTATTTT
*
16772500 AGTAATTTTGTAAATCGAGGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
*
16772527 AGTAATTCTGTAAATCAAGGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
* *
16772554 AGTAATTCTATAAATCGAGGGTAAAAT
1 AGTAATTCTGTAAATCGAGGGTAAAAC
* *
16772581 GGTAATTCTGTAAATCGAGGGCAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
*
16772608 GGTAATTCTGTAAATCGAGGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
* *
16772635 -GATAATTATGTAAATCGAGGGTAAAAT
1 AG-TAATTCTGTAAATCGAGGGTAAAAC
* * *
16772662 GGTAATTATGTAAAT-TAGGGGTAAAAC
1 AGTAATTCTGTAAATCGA-GGGTAAAAC
* * *
16772689 GGTAATTCTATAAATCGAGGGTAAAAT
1 AGTAATTCTGTAAATCGAGGGTAAAAC
*
16772716 AGTAATTTTGTAAA-CTGAGGGTAAAAC
1 AGTAATTCTGTAAATC-GAGGGTAAAAC
*
16772743 GGTAATTCTGTAAATCGAGGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
* * **
16772770 GGTAATTTTACAAATCGAGGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
* *
16772797 GGTAATTCTATAAATCGAGGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
*
16772824 AGTAATTCTGTAAATCAAGGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
*
16772851 AATAATTCTGTAAA-CTGAGGGTAAAAC
1 AGTAATTCTGTAAATC-GAGGGTAAAAC
* *
16772878 GGTAATTCTGTAAATCGAGGGTAAAAT
1 AGTAATTCTGTAAATCGAGGGTAAAAC
16772905 AGTAATTCTGTAAA-CTGAGGGTAAAAC
1 AGTAATTCTGTAAATC-GAGGGTAAAAC
* *
16772932 GGTAATTCTATAAATCGAGGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
* ** *
16772959 -GATAATTTTACAAATCGAGGGTAAAAT
1 AG-TAATTCTGTAAATCGAGGGTAAAAC
* *
16772986 GGTAATTCTATAAATCGAGGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
* **
16773013 -GATAATTTTACAAATCGAGGGTAAAAC
1 AG-TAATTCTGTAAATCGAGGGTAAAAC
*
16773040 AGTAATTCTATAAA-CTGAGGGTAAAAC
1 AGTAATTCTGTAAATC-GAGGGTAAAAC
* *
16773067 GGTAATTTTGTAAATCG
1 AGTAATTCTGTAAATCG
16773084 GGAGTACTTT
Statistics
Matches: 487, Mismatches: 54, Indels: 32
0.85 0.09 0.06
Matches are distributed among these distances:
26 8 0.02
27 471 0.97
28 8 0.02
ACGTcount: A:0.41, C:0.09, G:0.22, T:0.28
Consensus pattern (27 bp):
AGTAATTCTGTAAATCGAGGGTAAAAC
Found at i:16772586 original size:81 final size:81
Alignment explanation
Indices: 16772501--16773083 Score: 748
Period size: 81 Copynumber: 7.2 Consensus size: 81
16772491 GGGTATTTTA
* * * *
16772501 GTAATTTTGTAAATCGAGGGTAAAACAGTAATTCTGTAAATCAAGGGTAAAACAGTAATTCTATA
1 GTAATTCTGTAAATCGAGGGTAAAACGGTAATTCTATAAATCGAGGGTAAAACAGTAATTCTATA
16772566 AATCGAGGGTAAAATG
66 AATCGAGGGTAAAATG
* * * *
16772582 GTAATTCTGTAAATCGAGGGCAAAACGGTAATTCTGTAAATCGAGGGTAAAAC-GATAATTATGT
1 GTAATTCTGTAAATCGAGGGTAAAACGGTAATTCTATAAATCGAGGGTAAAACAG-TAATTCTAT
16772646 AAATCGAGGGTAAAATG
65 AAATCGAGGGTAAAATG
* * * * *
16772663 GTAATTATGTAAAT-TAGGGGTAAAACGGTAATTCTATAAATCGAGGGTAAAATAGTAATTTTGT
1 GTAATTCTGTAAATCGA-GGGTAAAACGGTAATTCTATAAATCGAGGGTAAAACAGTAATTCTAT
*
16772727 AAA-CTGAGGGTAAAACG
65 AAATC-GAGGGTAAAATG
* * *
16772744 GTAATTCTGTAAATCGAGGGTAAAACGGTAATTTTACAAATCGAGGGTAAAACGGTAATTCTATA
1 GTAATTCTGTAAATCGAGGGTAAAACGGTAATTCTATAAATCGAGGGTAAAACAGTAATTCTATA
**
16772809 AATCGAGGGTAAAACA
66 AATCGAGGGTAAAATG
* ** * * *
16772825 GTAATTCTGTAAATCAAGGGTAAAACAATAATTCTGTAAA-CTGAGGGTAAAACGGTAATTCTGT
1 GTAATTCTGTAAATCGAGGGTAAAACGGTAATTCTATAAATC-GAGGGTAAAACAGTAATTCTAT
*
16772889 AAATCGAGGGTAAAATA
65 AAATCGAGGGTAAAATG
*
16772906 GTAATTCTGTAAA-CTGAGGGTAAAACGGTAATTCTATAAATCGAGGGTAAAAC-GATAATTTTA
1 GTAATTCTGTAAATC-GAGGGTAAAACGGTAATTCTATAAATCGAGGGTAAAACAG-TAATTCTA
*
16772969 CAAATCGAGGGTAAAATG
64 TAAATCGAGGGTAAAATG
* * * *
16772987 GTAATTCTATAAATCGAGGGTAAAACGATAATTTTACAAATCGAGGGTAAAACAGTAATTCTATA
1 GTAATTCTGTAAATCGAGGGTAAAACGGTAATTCTATAAATCGAGGGTAAAACAGTAATTCTATA
*
16773052 AA-CTGAGGGTAAAACG
66 AATC-GAGGGTAAAATG
*
16773068 GTAATTTTGTAAATCG
1 GTAATTCTGTAAATCG
16773084 GGAGTACTTT
Statistics
Matches: 442, Mismatches: 47, Indels: 26
0.86 0.09 0.05
Matches are distributed among these distances:
80 7 0.02
81 429 0.97
82 6 0.01
ACGTcount: A:0.41, C:0.09, G:0.22, T:0.28
Consensus pattern (81 bp):
GTAATTCTGTAAATCGAGGGTAAAACGGTAATTCTATAAATCGAGGGTAAAACAGTAATTCTATA
AATCGAGGGTAAAATG
Found at i:16776849 original size:13 final size:13
Alignment explanation
Indices: 16776831--16776859 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
16776821 GGTTGTTTAT
16776831 TAAACTAATTAAC
1 TAAACTAATTAAC
16776844 TAAACTAATTAAC
1 TAAACTAATTAAC
16776857 TAA
1 TAA
16776860 TTAAACTAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.55, C:0.14, G:0.00, T:0.31
Consensus pattern (13 bp):
TAAACTAATTAAC
Found at i:16778712 original size:29 final size:29
Alignment explanation
Indices: 16778680--16778814 Score: 155
Period size: 29 Copynumber: 4.7 Consensus size: 29
16778670 ATACCCTCCG
** * *
16778680 AGCTCGCACACCCAGTGCCGTATTTTTCC
1 AGCTCGCACACTTAGTGCCATATATTTCC
* * * *
16778709 AGCTTGCACACATAGTGTCATATTTTTCC
1 AGCTCGCACACTTAGTGCCATATATTTCC
*
16778738 AGCAT-GCACACTTAGTGCCTTATATTTCC
1 AGC-TCGCACACTTAGTGCCATATATTTCC
*
16778767 AGCACGCACACTTAGTGCCATATATTTCC
1 AGCTCGCACACTTAGTGCCATATATTTCC
*
16778796 AGCACGCACACTTAGTGCC
1 AGCTCGCACACTTAGTGCC
16778815 GATCTCGTCA
Statistics
Matches: 93, Mismatches: 11, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
29 92 0.99
30 1 0.01
ACGTcount: A:0.24, C:0.31, G:0.16, T:0.30
Consensus pattern (29 bp):
AGCTCGCACACTTAGTGCCATATATTTCC
Found at i:16778747 original size:58 final size:58
Alignment explanation
Indices: 16778626--16778815 Score: 179
Period size: 58 Copynumber: 3.3 Consensus size: 58
16778616 TACTCGATTT
* * * *** *
16778626 CGCACACTTAGTGCCACGTA-ATTT-AAGCCCGCACACACAGTGCCATA-CCCTCCGAGCT
1 CGCACACTTAGTG-C-CGTATATTTCCAGCACGCACACATAGTGCCATATATTTCC-AGCA
** * ** * *
16778684 CGCACACCCAGTGCCGTATTTTTCCAGCTTGCACACATAGTGTCATATTTTTCCAGCA
1 CGCACACTTAGTGCCGTATATTTCCAGCACGCACACATAGTGCCATATATTTCCAGCA
* * *
16778742 TGCACACTTAGTGCCTTATATTTCCAGCACGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCGTATATTTCCAGCACGCACACATAGTGCCATATATTTCCAGCA
16778800 CGCACACTTAGTGCCG
1 CGCACACTTAGTGCCG
16778816 ATCTCGTCAC
Statistics
Matches: 105, Mismatches: 24, Indels: 6
0.78 0.18 0.04
Matches are distributed among these distances:
56 4 0.04
57 4 0.04
58 94 0.90
59 3 0.03
ACGTcount: A:0.24, C:0.33, G:0.16, T:0.26
Consensus pattern (58 bp):
CGCACACTTAGTGCCGTATATTTCCAGCACGCACACATAGTGCCATATATTTCCAGCA
Found at i:16781791 original size:46 final size:47
Alignment explanation
Indices: 16781683--16781806 Score: 133
Period size: 46 Copynumber: 2.6 Consensus size: 47
16781673 TGTCTTCGAC
* * *
16781683 ATGGACTTACATGAATTATTCCTGTCTCCAATGCCATATATATATATCTAAT
1 ATGGACTTACATGGATCATTCCTGTCTCCAAAGCC----A-ATATATCTAAT
* *
16781735 ATGGGCTTACATGGATCATTCCTGTCTCCAAAGCC-ATATATCTGAT
1 ATGGACTTACATGGATCATTCCTGTCTCCAAAGCCAATATATCTAAT
* *
16781781 ATGGACTTACATGGCTCATTTCTGTC
1 ATGGACTTACATGGATCATTCCTGTC
16781807 CTGTCCTGTC
Statistics
Matches: 64, Mismatches: 8, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
46 33 0.52
52 31 0.48
ACGTcount: A:0.27, C:0.22, G:0.15, T:0.36
Consensus pattern (47 bp):
ATGGACTTACATGGATCATTCCTGTCTCCAAAGCCAATATATCTAAT
Found at i:16788763 original size:41 final size:44
Alignment explanation
Indices: 16788717--16788800 Score: 120
Period size: 44 Copynumber: 2.0 Consensus size: 44
16788707 GTGTGTGTTT
16788717 CGAGATAGCTTC-GGCT-ATATG-TGGCACTAAGTGTGCAATAC
1 CGAGATAGCTTCAGGCTAATATGATGGCACTAAGTGTGCAATAC
** *
16788758 CGAGATAGCTTCAGTTTAATGTGATGGCACTAAGTGTGCAATA
1 CGAGATAGCTTCAGGCTAATATGATGGCACTAAGTGTGCAATA
16788801 TTGTTATAGC
Statistics
Matches: 37, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
41 12 0.32
42 2 0.05
43 4 0.11
44 19 0.51
ACGTcount: A:0.29, C:0.17, G:0.26, T:0.29
Consensus pattern (44 bp):
CGAGATAGCTTCAGGCTAATATGATGGCACTAAGTGTGCAATAC
Found at i:16791536 original size:49 final size:49
Alignment explanation
Indices: 16791476--16791598 Score: 158
Period size: 49 Copynumber: 2.5 Consensus size: 49
16791466 TAAGTCGATG
* *
16791476 CCATGTCCCAGATAGGTCTTACATTGACTTCCATATATCGAGGCCGGTA
1 CCATGTCCCAGATAGGTCTTACACTGACTTACATATATCGAGGCCGGTA
* * *
16791525 CCATGTCCCAGATAGGTCTTACACTGGCTTACATATCTCGAGGCCGAT-
1 CCATGTCCCAGATAGGTCTTACACTGACTTACATATATCGAGGCCGGTA
* * * *
16791573 GCATTTCCCAGACATGTCTTACACTG
1 CCATGTCCCAGATAGGTCTTACACTG
16791599 GCTCTCGCCT
Statistics
Matches: 65, Mismatches: 9, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
48 22 0.34
49 43 0.66
ACGTcount: A:0.24, C:0.28, G:0.20, T:0.28
Consensus pattern (49 bp):
CCATGTCCCAGATAGGTCTTACACTGACTTACATATATCGAGGCCGGTA
Found at i:16791634 original size:46 final size:45
Alignment explanation
Indices: 16791566--16791692 Score: 159
Period size: 46 Copynumber: 2.8 Consensus size: 45
16791556 CATATCTCGA
* * *
16791566 GGCCGATGCATTTCCCAGACATGTCTTACACTGGCTCTCGCCTCAA-T
1 GGCCGATGCATGTCCCAGACATGTCTTACACTAGCTCT--CAT-AAGT
*
16791613 -GCCGATGCATGTCCCAAACATGTCTTACACTAGCTCTCATAATGT
1 GGCCGATGCATGTCCCAGACATGTCTTACACTAGCTCTCATAA-GT
*
16791658 GGCCGATGCATGTCCCAGACATGTCTTACAGTAGC
1 GGCCGATGCATGTCCCAGACATGTCTTACACTAGC
16791693 ACACATATCA
Statistics
Matches: 71, Mismatches: 6, Indels: 7
0.85 0.07 0.08
Matches are distributed among these distances:
43 2 0.03
44 2 0.03
45 1 0.01
46 66 0.93
ACGTcount: A:0.23, C:0.31, G:0.20, T:0.27
Consensus pattern (45 bp):
GGCCGATGCATGTCCCAGACATGTCTTACACTAGCTCTCATAAGT
Found at i:16797272 original size:35 final size:36
Alignment explanation
Indices: 16797231--16797314 Score: 113
Period size: 35 Copynumber: 2.4 Consensus size: 36
16797221 TTCTGATTCC
16797231 CATGTTAAGCATGCT-AT-TATTCTGATTTTGACTC-
1 CATGTTAAGCATGCTAATGT-TTCTGATTTTGACTCA
*
16797265 CTATGTTAAGCATG-TAATGTTTCTGATTTTGATTCA
1 C-ATGTTAAGCATGCTAATGTTTCTGATTTTGACTCA
16797301 CATGTTAAGCATGC
1 CATGTTAAGCATGC
16797315 CACTGTGCTA
Statistics
Matches: 44, Mismatches: 1, Indels: 8
0.83 0.02 0.15
Matches are distributed among these distances:
34 2 0.05
35 40 0.91
36 2 0.05
ACGTcount: A:0.25, C:0.15, G:0.17, T:0.43
Consensus pattern (36 bp):
CATGTTAAGCATGCTAATGTTTCTGATTTTGACTCA
Found at i:16799878 original size:39 final size:39
Alignment explanation
Indices: 16799785--16799909 Score: 189
Period size: 39 Copynumber: 3.2 Consensus size: 39
16799775 CCTGCAATTT
** * *
16799785 GCCTGCTAGGTATAAACCCAAACTTAACACCGGCACGAG
1 GCCTGCTAGGTATAAACCTGAATTTATCACCGGCACGAG
*
16799824 G-CTGCTAGGTATAAACCTGAATTTATCACTGGCACGAG
1 GCCTGCTAGGTATAAACCTGAATTTATCACCGGCACGAG
*
16799862 GCCTACTAGGTATAAACCTGAATTTATCACCGGCACGAG
1 GCCTGCTAGGTATAAACCTGAATTTATCACCGGCACGAG
16799901 GCCTGCTAG
1 GCCTGCTAG
16799910 ACATTAAGTT
Statistics
Matches: 77, Mismatches: 8, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
38 33 0.43
39 44 0.57
ACGTcount: A:0.30, C:0.26, G:0.22, T:0.22
Consensus pattern (39 bp):
GCCTGCTAGGTATAAACCTGAATTTATCACCGGCACGAG
Found at i:16808337 original size:27 final size:28
Alignment explanation
Indices: 16808307--16808376 Score: 106
Period size: 27 Copynumber: 2.5 Consensus size: 28
16808297 ATAATAAGTC
*
16808307 CGCACACTTAGTGCTATATAATC-AGCT
1 CGCACACTTAGTGCTATATAATCAAACT
* *
16808334 CGCACACATAGTGCTATATAATCAAATT
1 CGCACACTTAGTGCTATATAATCAAACT
16808362 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
16808377 GTACAAATTT
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
27 22 0.58
28 16 0.42
ACGTcount: A:0.31, C:0.26, G:0.14, T:0.29
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:16816249 original size:27 final size:28
Alignment explanation
Indices: 16816219--16816288 Score: 106
Period size: 27 Copynumber: 2.5 Consensus size: 28
16816209 ATAATAAGTC
*
16816219 CGCACACTTAGTGCTATATAATC-AGCT
1 CGCACACTTAGTGCTATATAATCAAACT
* *
16816246 CGCACACATAGTGCTATATAATCAAATT
1 CGCACACTTAGTGCTATATAATCAAACT
16816274 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
16816289 GTACAAATTT
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
27 22 0.58
28 16 0.42
ACGTcount: A:0.31, C:0.26, G:0.14, T:0.29
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:16819073 original size:29 final size:29
Alignment explanation
Indices: 16819021--16819076 Score: 78
Period size: 29 Copynumber: 1.9 Consensus size: 29
16819011 TTAAAGTTCT
*
16819021 AATATCATGGCCCGAAGCCAAAATCAGCC
1 AATATCATGGCCCAAAGCCAAAATCAGCC
*
16819050 AATATGCATGGCCCAAAG-CTAAATCAG
1 AATAT-CATGGCCCAAAGCCAAAATCAG
16819077 TATATCTCGC
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
29 13 0.54
30 11 0.46
ACGTcount: A:0.39, C:0.27, G:0.18, T:0.16
Consensus pattern (29 bp):
AATATCATGGCCCAAAGCCAAAATCAGCC
Found at i:16821202 original size:13 final size:13
Alignment explanation
Indices: 16821184--16821208 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
16821174 TCATATACAA
16821184 ATATACCAAATCC
1 ATATACCAAATCC
16821197 ATATACCAAATC
1 ATATACCAAATC
16821209 TATTAAAATT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.48, C:0.28, G:0.00, T:0.24
Consensus pattern (13 bp):
ATATACCAAATCC
Found at i:16821809 original size:47 final size:47
Alignment explanation
Indices: 16821739--16821865 Score: 173
Period size: 47 Copynumber: 2.7 Consensus size: 47
16821729 CATAATCGAT
* * * * *
16821739 AAGTACCTATAGCAAGGGCCGTAGCCAAATCAAGGTAACTTATCTCG
1 AAGTACCTATACCATGGCCCGTAGCCAAATCAAGGTAACTCATCTCA
* *
16821786 TAGTACCTATACCATGGCCCGTAGCCAAATCAAGGTAACTCCTCTCA
1 AAGTACCTATACCATGGCCCGTAGCCAAATCAAGGTAACTCATCTCA
* *
16821833 AAATACCTATACCATGGCCCGTATCCAAATCAA
1 AAGTACCTATACCATGGCCCGTAGCCAAATCAA
16821866 TGTATTATTC
Statistics
Matches: 70, Mismatches: 10, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
47 70 1.00
ACGTcount: A:0.34, C:0.28, G:0.16, T:0.22
Consensus pattern (47 bp):
AAGTACCTATACCATGGCCCGTAGCCAAATCAAGGTAACTCATCTCA
Found at i:16825329 original size:46 final size:46
Alignment explanation
Indices: 16825279--16825454 Score: 198
Period size: 46 Copynumber: 3.8 Consensus size: 46
16825269 TGGTTGAGCA
16825279 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
16825325 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
* *
16825370 CATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * * *
16825418 CCCGAGCTCGTTGATTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
16825455 GCGGGTTACA
Statistics
Matches: 110, Mismatches: 11, Indels: 18
0.79 0.08 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 3 0.03
46 63 0.57
47 28 0.25
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.20, C:0.21, G:0.30, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:16825437 original size:93 final size:93
Alignment explanation
Indices: 16825276--16825447 Score: 299
Period size: 93 Copynumber: 1.8 Consensus size: 93
16825266 GGATGGTTGA
* *
16825276 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
16825341 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
* * *
16825369 GCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGATT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
16825434 TGAGTCCGAGTTCG
66 TGAGTCCGAGTTCG
16825448 CTTATGGGCG
Statistics
Matches: 74, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 74 1.00
ACGTcount: A:0.20, C:0.22, G:0.30, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:16830515 original size:40 final size:40
Alignment explanation
Indices: 16830470--16830636 Score: 176
Period size: 40 Copynumber: 4.2 Consensus size: 40
16830460 CGGAATATAA
16830470 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * * * *
16830510 CCGGATAGAATAACTCGCACGAATGCCTTCGGGCCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * *
16830550 CCGGATATAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * *
16830590 CCGGATATAATTTCCAGCATAATTGTCTTCGGG-CTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
16830629 CCGGATAT
1 CCGGATAT
16830637 CATTCAATTT
Statistics
Matches: 105, Mismatches: 21, Indels: 3
0.81 0.16 0.02
Matches are distributed among these distances:
39 14 0.13
40 91 0.87
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.26
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:16830620 original size:80 final size:79
Alignment explanation
Indices: 16830486--16830636 Score: 198
Period size: 80 Copynumber: 1.9 Consensus size: 79
16830476 ATAATCACGT
*
16830486 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATAACTCGCACGAATGCCTTCGGGCCTTAGCC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTCGCACGAATGCCTTCGGG-CTTAGCC
16830551 CGGATATAGCCACTA
65 CGGATATAGCCACTA
* * ** * *
16830566 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAATTGTCTTCGGGCTTAGC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTC-GCACGAA-TGCCTTCGGGCTTAGC
16830629 CCGGATAT
64 CCGGATAT
16830637 CATTCAATTT
Statistics
Matches: 62, Mismatches: 7, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
79 17 0.27
80 45 0.73
ACGTcount: A:0.24, C:0.28, G:0.23, T:0.26
Consensus pattern (79 bp):
GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTCGCACGAATGCCTTCGGGCTTAGCCC
GGATATAGCCACTA
Found at i:16831892 original size:58 final size:58
Alignment explanation
Indices: 16831822--16831937 Score: 148
Period size: 58 Copynumber: 2.0 Consensus size: 58
16831812 AATCCTCCCC
16831822 CTTTCCCTTAGTA-ATTTCGGCCAAGAAGAT-GAGAAAGGATGAACAAATTTTTTTCTTTT
1 CTTTCCCTTAGTACA-TTCGGCCAAGAAGATGGAG-AAGGATGAAC-AATTTTTTTCTTTT
*** *
16831881 CTTT-CCTTAGTACATTCGGCCAAGCCTATGGAGAAGGATGAACATTTTTTTTCTTTT
1 CTTTCCCTTAGTACATTCGGCCAAGAAGATGGAGAAGGATGAACAATTTTTTTCTTTT
16831938 TTTTTTTTTC
Statistics
Matches: 51, Mismatches: 4, Indels: 6
0.84 0.07 0.10
Matches are distributed among these distances:
57 13 0.25
58 30 0.59
59 8 0.16
ACGTcount: A:0.27, C:0.17, G:0.17, T:0.39
Consensus pattern (58 bp):
CTTTCCCTTAGTACATTCGGCCAAGAAGATGGAGAAGGATGAACAATTTTTTTCTTTT
Found at i:16836076 original size:46 final size:46
Alignment explanation
Indices: 16836026--16836201 Score: 207
Period size: 46 Copynumber: 3.8 Consensus size: 46
16836016 TGGTTGAGCA
16836026 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
16836072 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
* *
16836117 CATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
16836165 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
16836202 GCGGGTTACA
Statistics
Matches: 111, Mismatches: 10, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 3 0.03
46 64 0.58
47 28 0.25
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.20, C:0.21, G:0.30, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:16836182 original size:93 final size:93
Alignment explanation
Indices: 16836023--16836194 Score: 308
Period size: 93 Copynumber: 1.8 Consensus size: 93
16836013 GGATGGTTGA
* *
16836023 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
16836088 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
* *
16836116 GCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
16836181 TGAGTCCGAGTTCG
66 TGAGTCCGAGTTCG
16836195 CTTATGGGCG
Statistics
Matches: 75, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.20, C:0.22, G:0.30, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:16843904 original size:30 final size:30
Alignment explanation
Indices: 16843868--16843924 Score: 87
Period size: 30 Copynumber: 1.9 Consensus size: 30
16843858 ATCCCGAGCC
16843868 TAGGGGCAAAAATGTAAATATGCAAAAGTT
1 TAGGGGCAAAAATGTAAATATGCAAAAGTT
* * *
16843898 TAGGGGCAAAATTGTAATTTTGCAAAA
1 TAGGGGCAAAAATGTAAATATGCAAAA
16843925 ATTTGAGTTA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.44, C:0.07, G:0.23, T:0.26
Consensus pattern (30 bp):
TAGGGGCAAAAATGTAAATATGCAAAAGTT
Found at i:16844412 original size:46 final size:45
Alignment explanation
Indices: 16844357--16844528 Score: 179
Period size: 46 Copynumber: 3.7 Consensus size: 45
16844347 TGAGCATCCA
16844357 AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCG
1 AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG-GAATGTCCG
* * * * *
16844403 AACTTGTTGAGTTGAGTCCGAGTTC-GTGA--AATGTAACTAGGCATCCG
1 AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGGAA-T--G--TCCG
* *
16844450 AACTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGGGAATGCCCG
1 AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGAT-GGAATGTCCG
* *
16844496 AGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 AACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
16844529 GCGGGTTACA
Statistics
Matches: 102, Mismatches: 15, Indels: 18
0.76 0.11 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
45 3 0.03
46 57 0.56
47 27 0.26
48 3 0.03
50 3 0.03
51 3 0.03
ACGTcount: A:0.22, C:0.18, G:0.30, T:0.31
Consensus pattern (45 bp):
AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGGAATGTCCG
Found at i:16844509 original size:93 final size:93
Alignment explanation
Indices: 16844350--16844521 Score: 290
Period size: 93 Copynumber: 1.8 Consensus size: 93
16844340 GGATGGTTGA
* *
16844350 GCATCCAAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTTGTTGAGT
1 GCATCCAAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGCCCGAACTCGTTGAGT
16844415 TGAGTCCGAGTTCGTGAAATGTAACTAG
66 TGAGTCCGAGTTCGTGAAATGTAACTAG
* * * *
16844443 GCATCCGAACTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGGGAATGCCCGAGCTCGTTGAGT
1 GCATCCAAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGCCCGAACTCGTTGAGT
16844508 TGAGTCCGAGTTCG
66 TGAGTCCGAGTTCG
16844522 CTTATGGGCG
Statistics
Matches: 73, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
93 73 1.00
ACGTcount: A:0.22, C:0.19, G:0.29, T:0.30
Consensus pattern (93 bp):
GCATCCAAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAAATGTAACTAG
Found at i:16849193 original size:27 final size:27
Alignment explanation
Indices: 16849125--16849195 Score: 72
Period size: 27 Copynumber: 2.6 Consensus size: 27
16849115 CGACTTGTAA
* *
16849125 AATTACCAAAGTACTCC-CGATTTACAG
1 AATTACCAAAATAC-CCTCAATTTACAG
****
16849152 AATTACCGTTTTACCCTCAATTTACAG
1 AATTACCAAAATACCCTCAATTTACAG
16849179 AATTACCAAAATACCCT
1 AATTACCAAAATACCCT
16849196 TGGTTTATAA
Statistics
Matches: 34, Mismatches: 9, Indels: 2
0.76 0.20 0.04
Matches are distributed among these distances:
26 2 0.06
27 32 0.94
ACGTcount: A:0.37, C:0.27, G:0.07, T:0.30
Consensus pattern (27 bp):
AATTACCAAAATACCCTCAATTTACAG
Found at i:16849202 original size:27 final size:27
Alignment explanation
Indices: 16849172--16849302 Score: 140
Period size: 27 Copynumber: 4.9 Consensus size: 27
16849162 TTACCCTCAA
*
16849172 TTTACAGAATTACCAAAATACCCTTGG
1 TTTACAAAATTACCAAAATACCCTTGG
* * *
16849199 TTTATAAAATCACCAAAATACCCCTGG
1 TTTACAAAATTACCAAAATACCCTTGG
* *
16849226 TTT-CTAAAATTACTAAAATACCCTTTG
1 TTTAC-AAAATTACCAAAATACCCTTGG
* *
16849253 TTTATAAAATTACCAAAATACCCATGG
1 TTTACAAAATTACCAAAATACCCTTGG
* *
16849280 TTTGA-AAAATTACTATAATACCC
1 TTT-ACAAAATTACCAAAATACCC
16849303 CTGTAGGGTA
Statistics
Matches: 86, Mismatches: 15, Indels: 6
0.80 0.14 0.06
Matches are distributed among these distances:
27 85 0.99
28 1 0.01
ACGTcount: A:0.40, C:0.21, G:0.07, T:0.32
Consensus pattern (27 bp):
TTTACAAAATTACCAAAATACCCTTGG
Found at i:16849281 original size:54 final size:54
Alignment explanation
Indices: 16849179--16849302 Score: 185
Period size: 54 Copynumber: 2.3 Consensus size: 54
16849169 CAATTTACAG
* * *
16849179 AATTACCAAAATACCCTTGGTTTATAAAATCACCAAAATACCCCTGGTTTCTAA
1 AATTACTAAAATACCCTTGGTTTATAAAATCACCAAAATACCCATGGTTTCAAA
* * *
16849233 AATTACTAAAATACCCTTTGTTTATAAAATTACCAAAATACCCATGGTTTGAAA
1 AATTACTAAAATACCCTTGGTTTATAAAATCACCAAAATACCCATGGTTTCAAA
*
16849287 AATTACTATAATACCC
1 AATTACTAAAATACCC
16849303 CTGTAGGGTA
Statistics
Matches: 63, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
54 63 1.00
ACGTcount: A:0.41, C:0.21, G:0.06, T:0.31
Consensus pattern (54 bp):
AATTACTAAAATACCCTTGGTTTATAAAATCACCAAAATACCCATGGTTTCAAA
Found at i:16849315 original size:27 final size:27
Alignment explanation
Indices: 16849285--16849346 Score: 90
Period size: 27 Copynumber: 2.3 Consensus size: 27
16849275 CATGGTTTGA
16849285 AAAATTACT-ATAATACCCCTGTAGGGT
1 AAAATTACTGA-AATACCCCTGTAGGGT
* *
16849312 AAAATTACTGAAATACCCTTGTGGGGT
1 AAAATTACTGAAATACCCCTGTAGGGT
16849339 AAAATTAC
1 AAAATTAC
16849347 CATTTTGCCC
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
27 31 0.97
28 1 0.03
ACGTcount: A:0.39, C:0.16, G:0.16, T:0.29
Consensus pattern (27 bp):
AAAATTACTGAAATACCCCTGTAGGGT
Found at i:16849315 original size:54 final size:54
Alignment explanation
Indices: 16849179--16849329 Score: 144
Period size: 54 Copynumber: 2.8 Consensus size: 54
16849169 CAATTTACAG
* ** * * *
16849179 AATTACCAAAATACCCT-TGGTTTATAAAATCACCAAAATACCCCTGGTTTCTAA
1 AATTACTAAAATACCCTCT-GTGGATAAAATTACCAAAATACCCATGGTTTCAAA
* ** *
16849233 AATTACTAAAATACCCTTTGTTTATAAAATTACCAAAATACCCATGGTTTGAAA
1 AATTACTAAAATACCCTCTGTGGATAAAATTACCAAAATACCCATGGTTTCAAA
* * **
16849287 AATTACTATAATACCC-CTGTAGGGTAAAATTACTGAAATACCC
1 AATTACTAAAATACCCTCTGT-GGATAAAATTACCAAAATACCC
16849330 TTGTGGGGTA
Statistics
Matches: 83, Mismatches: 12, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
53 3 0.04
54 79 0.95
55 1 0.01
ACGTcount: A:0.40, C:0.21, G:0.09, T:0.30
Consensus pattern (54 bp):
AATTACTAAAATACCCTCTGTGGATAAAATTACCAAAATACCCATGGTTTCAAA
Found at i:16849315 original size:81 final size:81
Alignment explanation
Indices: 16849179--16849331 Score: 202
Period size: 81 Copynumber: 1.9 Consensus size: 81
16849169 CAATTTACAG
* **
16849179 AATTACCAAAATACCCTTGGTTTATAAAATCACCAAAATACCCCTGGTTTCTAAAATTACTAAAA
1 AATTACCAAAATACCCATGGTTTATAAAATCACCAAAATACCCCTGGTGGCTAAAATTACTAAAA
16849244 TACCCTTTGTTTATAA
66 TACCCTTTGTTTATAA
* * * * *
16849260 AATTACCAAAATACCCATGGTTTGA-AAAATTACTATAATACCCCT-GTAGGGTAAAATTACTGA
1 AATTACCAAAATACCCATGGTTT-ATAAAATCACCAAAATACCCCTGGT-GGCTAAAATTACTAA
16849323 AATACCCTT
64 AATACCCTT
16849332 GTGGGGTAAA
Statistics
Matches: 62, Mismatches: 8, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
80 2 0.03
81 59 0.95
82 1 0.02
ACGTcount: A:0.40, C:0.20, G:0.08, T:0.31
Consensus pattern (81 bp):
AATTACCAAAATACCCATGGTTTATAAAATCACCAAAATACCCCTGGTGGCTAAAATTACTAAAA
TACCCTTTGTTTATAA
Done.