Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01000920.1 Hibiscus syriacus cultivar Beakdansim tig00001834_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 95764
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Found at i:4546 original size:2 final size:2
Alignment explanation
Indices: 4539--4573 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
4529 AAATAAATTT
4539 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
4574 TCATAAACTT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:5094 original size:23 final size:23
Alignment explanation
Indices: 5030--5129 Score: 101
Period size: 23 Copynumber: 4.3 Consensus size: 23
5020 GAAGTGCCAT
* *
5030 GTAGAATTTGTCTCGAAGGACCGC
1 GTAGAA-TTGTCCCGAAGGACCAC
* *
5054 TTAGAATTTGTCCCGAAGGTCCAC
1 GTAGAA-TTGTCCCGAAGGACCAC
*
5078 GTAGAATTGTCCTGAAGGACCAC
1 GTAGAATTGTCCCGAAGGACCAC
* * * *
5101 ATAGATTTATCCCAAAGGACCAC
1 GTAGAATTGTCCCGAAGGACCAC
5124 GTAGAA
1 GTAGAA
5130 CCCTTGACTC
Statistics
Matches: 62, Mismatches: 14, Indels: 1
0.81 0.18 0.01
Matches are distributed among these distances:
23 37 0.60
24 25 0.40
ACGTcount: A:0.31, C:0.22, G:0.23, T:0.24
Consensus pattern (23 bp):
GTAGAATTGTCCCGAAGGACCAC
Found at i:5390 original size:22 final size:21
Alignment explanation
Indices: 5365--5405 Score: 55
Period size: 22 Copynumber: 1.9 Consensus size: 21
5355 AAAAATATAC
*
5365 ATTATATAAAACATAATAAAAT
1 ATTACATAAAACA-AATAAAAT
*
5387 ATTACATAAAATAAATAAA
1 ATTACATAAAACAAATAAA
5406 CGATCTTTTA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 6 0.35
22 11 0.65
ACGTcount: A:0.66, C:0.05, G:0.00, T:0.29
Consensus pattern (21 bp):
ATTACATAAAACAAATAAAAT
Found at i:7492 original size:229 final size:227
Alignment explanation
Indices: 6882--7719 Score: 1112
Period size: 226 Copynumber: 3.7 Consensus size: 227
6872 ATGTAAACGG
* * * * * *
6882 TAATATATTGATAATTTTGAAAACAAATAAAGTAATTAACCTATTTTGTTATCGTCGTATTTCTA
1 TAATATGTTGATAATATTGATAACAAATCAAGTAATTAACATATTTTGTTATCGTCGGATTTCTA
* ** *
6947 AGGCTCCATCAGCTTTAAACAGACGTTACCTATTGCATTAAATAAGCGCTACTTGTTATGTTATT
66 AGGCCCCATCAGCTTTAAACAGACACTACCTATTACATTAAATAAGCGCTACTTGTTATGTTATT
* * * * *
7012 ATGGTTGATAATATTTCCAATAACTAACTTATTTTGTTATCGTCGGATTTTTAAGGCTCCATCAG
131 ATGGTTGATAATATTTCCAGTAATTAACCTATTTTGTTATCGTCGGATTTCTAAGACTCCATCAG
*
7077 CTTAAACTTTGGTAACATTTTAGGCGCTATC-
196 CTTAAACTTTGGTAACATTTTAGGCGCTACCA
* * *
7108 TAATATGTTGATAATATTCATAACATATCAAGTAATTAACATATTTTGTTATCGTCAGATTTCTA
1 TAATATGTTGATAATATTGATAACAAATCAAGTAATTAACATATTTTGTTATCGTCGGATTTCTA
* * *
7173 AGACCCCATCAGCTTTAAACATG-CA-TCACCTATTACATTAAATAAGTGCTATTTGTTATGTTA
66 AGGCCCCATCAGCTTTAAACA-GACACT-ACCTATTACATTAAATAAGCGCTACTTGTTATGTTA
* * *
7236 TTATGGTTGATAATGTTTCTAGTAATTAACCTATTTTGTTATCGTCGAATTTCTAAGACTCCATC
129 TTATGGTTGATAATATTTCCAGTAATTAACCTATTTTGTTATCGTCGGATTTCTAAGACTCCATC
*
7301 AGCTTAAATTTTGGTAACATTTTAGGCGCTA-CA
194 AGCTTAAACTTTGGTAACATTTTAGGCGCTACCA
* *
7334 TAATATGTTGATAATATTGATAACAAATCAATTAATTAACCAATTTTTTTGTTATCGTCGGATTT
1 TAATATGTTGATAATATTGATAACAAATCAAGTAATTAA-C-A-TATTTTGTTATCGTCGGATTT
* * * * * * * *
7399 CTAAGGTCCCATCATCTTTTAAA-AGGCACTACCTATTACGTCACATAAGTGCTACTTGTTATAT
63 CTAAGGCCCCATCAGC-TTTAAACAGACACTACCTATTACATTAAATAAGCGCTACTTGTTATGT
* * * *
7463 TATTATGGTTGATAATGTTTCCCGTAATTAACCTATTTTGTTATCGTTGGATTTCTAAGTCTCCA
127 TATTATGGTTGATAATATTTCCAGTAATTAACCTATTTTGTTATCGTCGGATTTCTAAGACTCCA
*
7528 TCAGCTTAAACTTTGGTAACATCTTAGGCGCTACCA
192 TCAGCTTAAACTTTGGTAACATTTTAGGCGCTACCA
* *
7564 -AATATGTTGTTAATATTGATAACAAATCAAGTAATTAACATATTTTGTTATCGTCGTATTTCTA
1 TAATATGTTGATAATATTGATAACAAATCAAGTAATTAACATATTTTGTTATCGTCGGATTTCTA
* * ** * * * *
7628 AGGCCCCATCAGCTTTAAAAAGAAACTACCTATTATGTTACATAAGCACTACCTATTATGTTATT
66 AGGCCCCATCAGCTTTAAACAGACACTACCTATTACATTAAATAAGCGCTACTTGTTATGTTATT
*
7693 ATGGTTGATAATATTTTCAGTAATTAA
131 ATGGTTGATAATATTTCCAGTAATTAA
7720 TCAGTTATGT
Statistics
Matches: 539, Mismatches: 62, Indels: 22
0.87 0.10 0.04
Matches are distributed among these distances:
225 8 0.01
226 325 0.60
227 3 0.01
228 3 0.01
229 191 0.35
230 9 0.02
ACGTcount: A:0.32, C:0.16, G:0.13, T:0.40
Consensus pattern (227 bp):
TAATATGTTGATAATATTGATAACAAATCAAGTAATTAACATATTTTGTTATCGTCGGATTTCTA
AGGCCCCATCAGCTTTAAACAGACACTACCTATTACATTAAATAAGCGCTACTTGTTATGTTATT
ATGGTTGATAATATTTCCAGTAATTAACCTATTTTGTTATCGTCGGATTTCTAAGACTCCATCAG
CTTAAACTTTGGTAACATTTTAGGCGCTACCA
Found at i:7833 original size:21 final size:22
Alignment explanation
Indices: 7808--7864 Score: 107
Period size: 21 Copynumber: 2.6 Consensus size: 22
7798 ACCAACACAA
7808 ATAACATTTCTGGTGAAAA-AT
1 ATAACATTTCTGGTGAAAACAT
7829 ATAACATTTCTGGTGAAAACAT
1 ATAACATTTCTGGTGAAAACAT
7851 ATAACATTTCTGGT
1 ATAACATTTCTGGT
7865 AGCGCTTTTA
Statistics
Matches: 35, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
21 19 0.54
22 16 0.46
ACGTcount: A:0.39, C:0.12, G:0.14, T:0.35
Consensus pattern (22 bp):
ATAACATTTCTGGTGAAAACAT
Found at i:13639 original size:3 final size:3
Alignment explanation
Indices: 13616--13797 Score: 106
Period size: 3 Copynumber: 62.3 Consensus size: 3
13606 TTTATTTAAA
13616 TAT TA- TAT TA- TAT TA- TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* * * *
13661 TAT TAT TAT TAT T-T GTCT CTAT TAT TA- GAG TA- TAT ATAT TAT TTT
1 TAT TAT TAT TAT TAT -TAT -TAT TAT TAT TAT TAT TAT -TAT TAT TAT
* *
13706 TAT ATAT T-T TTT TAT T-T CTTT TAT T-T CT-T TAT TAT TAT TAT TAT
1 TAT -TAT TAT TAT TAT TAT -TAT TAT TAT -TAT TAT TAT TAT TAT TAT
*
13750 TAT TAT CA- TAT ATAT T-T TA- TAT TCAT T-T TACT TAT T-T TATT TAT
1 TAT TAT TAT TAT -TAT TAT TAT TAT T-AT TAT TA-T TAT TAT TA-T TAT
13794 TAT T
1 TAT T
13798 CTAAGTTTTT
Statistics
Matches: 146, Mismatches: 10, Indels: 46
0.72 0.05 0.23
Matches are distributed among these distances:
2 24 0.16
3 100 0.68
4 22 0.15
ACGTcount: A:0.29, C:0.04, G:0.02, T:0.65
Consensus pattern (3 bp):
TAT
Found at i:13761 original size:50 final size:53
Alignment explanation
Indices: 13633--13797 Score: 127
Period size: 57 Copynumber: 3.2 Consensus size: 53
13623 TTATATTATA
* *
13633 TTATTATTATTATTATTATTAT-TATTATTATTATTATT-ATTTGT-CTCTATTATTAGA
1 TTATTATTATTATTATTATCATATA-TATT-TTA-TATTCATTT-TACT-TATT-TTA-T
* * *
13690 GTA-TATATATTATTTTTAT-ATAT-TTTTTTAT-TTC-TTTTA-TT-TCTTTA-
1 TTATTAT-TATTATTATTATCATATATATTTTATATTCATTTTACTTAT-TTTAT
13737 TTATTATTATTATTATTATCATATATATTTTATATTCATTTTACTTATTTTAT
1 TTATTATTATTATTATTATCATATATATTTTATATTCATTTTACTTATTTTAT
13790 TTATTATT
1 TTATTATT
13798 CTAAGTTTTT
Statistics
Matches: 89, Mismatches: 6, Indels: 30
0.71 0.05 0.24
Matches are distributed among these distances:
47 13 0.15
48 7 0.08
49 11 0.12
50 5 0.06
51 7 0.08
52 11 0.12
53 10 0.11
54 3 0.03
55 3 0.03
56 5 0.06
57 14 0.16
ACGTcount: A:0.28, C:0.04, G:0.02, T:0.66
Consensus pattern (53 bp):
TTATTATTATTATTATTATCATATATATTTTATATTCATTTTACTTATTTTAT
Found at i:13826 original size:2 final size:2
Alignment explanation
Indices: 13821--13857 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
13811 TTTATATGTT
13821 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
13858 TACTTTATTT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:13957 original size:2 final size:2
Alignment explanation
Indices: 13945--13988 Score: 81
Period size: 2 Copynumber: 22.5 Consensus size: 2
13935 TATTAAATAC
13945 TA TA TA T- TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
13986 TA T
1 TA T
13989 TACCTAACAA
Statistics
Matches: 41, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
1 1 0.02
2 40 0.98
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:14148 original size:20 final size:21
Alignment explanation
Indices: 14125--14164 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 21
14115 TTTTAGATTT
14125 ATTTATTATGTTTT-TTTTAA
1 ATTTATTATGTTTTGTTTTAA
* *
14145 ATTTTTTGTGTTTTGTTTTA
1 ATTTATTATGTTTTGTTTTA
14165 TTTCGCTTTT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 12 0.71
21 5 0.29
ACGTcount: A:0.17, C:0.00, G:0.10, T:0.72
Consensus pattern (21 bp):
ATTTATTATGTTTTGTTTTAA
Found at i:14202 original size:13 final size:13
Alignment explanation
Indices: 14184--14230 Score: 53
Period size: 13 Copynumber: 3.6 Consensus size: 13
14174 TTTCCTTTGA
14184 TTAATTTTCTTTT
1 TTAATTTTCTTTT
14197 TTAATTTTCTTATT
1 TTAATTTTCTT-TT
14211 TT--TTATTCTTTT
1 TTAATT-TTCTTTT
*
14223 TTTATTTT
1 TTAATTTT
14231 TTCTTCTTTT
Statistics
Matches: 30, Mismatches: 0, Indels: 8
0.79 0.00 0.21
Matches are distributed among these distances:
12 6 0.20
13 18 0.60
14 6 0.20
ACGTcount: A:0.15, C:0.06, G:0.00, T:0.79
Consensus pattern (13 bp):
TTAATTTTCTTTT
Found at i:14222 original size:8 final size:8
Alignment explanation
Indices: 14206--14273 Score: 52
Period size: 8 Copynumber: 8.6 Consensus size: 8
14196 TTTAATTTTC
14206 TTATT-TT
1 TTATTCTT
14213 TTATTCTT
1 TTATTCTT
* *
14221 TTTTTATT
1 TTATTCTT
14229 TT-TTCTT
1 TTATTCTT
**
14236 CTT-TTGAT
1 -TTATTCTT
14244 TTATTCTT
1 TTATTCTT
*
14252 TTATTATTT
1 TTATT-CTT
14261 TTATTCTT
1 TTATTCTT
14269 TTATT
1 TTATT
14274 TTTATTTTTA
Statistics
Matches: 48, Mismatches: 9, Indels: 7
0.75 0.14 0.11
Matches are distributed among these distances:
7 11 0.23
8 30 0.62
9 7 0.15
ACGTcount: A:0.13, C:0.07, G:0.01, T:0.78
Consensus pattern (8 bp):
TTATTCTT
Found at i:14225 original size:11 final size:10
Alignment explanation
Indices: 14209--14287 Score: 52
Period size: 10 Copynumber: 7.6 Consensus size: 10
14199 AATTTTCTTA
14209 TTTTTTATTCT
1 TTTTTTATT-T
14220 TTTTTTATTT
1 TTTTTTATTT
* *
14230 TTTCTTCTTT
1 TTTTTTATTT
**
14240 TGATTTATTCT
1 TTTTTTATT-T
*
14251 TTTATTATTT
1 TTTTTTATTT
*
14261 TTATTCT-TTT
1 TT-TTTTATTT
*
14271 ATTTTTATTT
1 TTTTTTATTT
14281 TTATTTT
1 TT-TTTT
14288 TGATTTATTT
Statistics
Matches: 50, Mismatches: 14, Indels: 8
0.69 0.19 0.11
Matches are distributed among these distances:
9 3 0.06
10 25 0.50
11 22 0.44
ACGTcount: A:0.13, C:0.06, G:0.01, T:0.80
Consensus pattern (10 bp):
TTTTTTATTT
Found at i:14230 original size:17 final size:18
Alignment explanation
Indices: 14210--14285 Score: 65
Period size: 16 Copynumber: 4.4 Consensus size: 18
14200 ATTTTCTTAT
14210 TTTTTATTCTT-TTTTTA
1 TTTTTATTCTTATTTTTA
* *
14227 -TTTT-TTCTTCTTTTGA
1 TTTTTATTCTTATTTTTA
*
14243 --TTTATTCTT-TTATTA
1 TTTTTATTCTTATTTTTA
14258 TTTTTATTCTTTTATTTTTA
1 TTTTTATTC--TTATTTTTA
14278 TTTTTATT
1 TTTTTATT
14286 TTTGATTTAT
Statistics
Matches: 48, Mismatches: 4, Indels: 11
0.76 0.06 0.17
Matches are distributed among these distances:
15 12 0.25
16 14 0.29
17 7 0.15
19 2 0.04
20 13 0.27
ACGTcount: A:0.13, C:0.07, G:0.01, T:0.79
Consensus pattern (18 bp):
TTTTTATTCTTATTTTTA
Found at i:14247 original size:31 final size:29
Alignment explanation
Indices: 14203--14282 Score: 90
Period size: 31 Copynumber: 2.7 Consensus size: 29
14193 TTTTTTAATT
* *
14203 TTCTTATTTTTTATTCTTTTTTTATTTTTTC
1 TTCTT-TTATTTATTCTTTTTTTA-TTTTTA
*
14234 TTCTTTTGATTTATTCTTTTATTATTTTTA
1 TTCTTTT-ATTTATTCTTTTTTTATTTTTA
*
14264 TTCTTTTATTT-TTATTTTT
1 TTCTTTTATTTATTCTTTTT
14283 ATTTTTGATT
Statistics
Matches: 43, Mismatches: 5, Indels: 5
0.81 0.09 0.09
Matches are distributed among these distances:
28 6 0.14
29 4 0.09
30 14 0.33
31 19 0.44
ACGTcount: A:0.12, C:0.07, G:0.01, T:0.79
Consensus pattern (29 bp):
TTCTTTTATTTATTCTTTTTTTATTTTTA
Found at i:14264 original size:48 final size:49
Alignment explanation
Indices: 14201--14296 Score: 128
Period size: 48 Copynumber: 2.0 Consensus size: 49
14191 TCTTTTTTAA
*
14201 TTTTCTTATTTTTTATTCTTTT-TTTATT-TTTTCT-TCTTTTGATTTATTC
1 TTTTATTATTTTTTATTCTTTTATTT-TTATTTT-TAT-TTTTGATTTATTC
14250 TTTTATTA-TTTTTATTCTTTTATTTTTATTTTTATTTTTGATTTATT
1 TTTTATTATTTTTTATTCTTTTATTTTTATTTTTATTTTTGATTTATT
14297 TAATATATTT
Statistics
Matches: 43, Mismatches: 1, Indels: 7
0.84 0.02 0.14
Matches are distributed among these distances:
48 28 0.65
49 15 0.35
ACGTcount: A:0.14, C:0.06, G:0.02, T:0.78
Consensus pattern (49 bp):
TTTTATTATTTTTTATTCTTTTATTTTTATTTTTATTTTTGATTTATTC
Found at i:14276 original size:6 final size:6
Alignment explanation
Indices: 14255--14318 Score: 53
Period size: 6 Copynumber: 10.2 Consensus size: 6
14245 TATTCTTTTA
14255 TTATTT TTATTCTT TTATTT TTATTT TTATTT TTGA--T TTATTT AATATATTT
1 TTATTT TTA-T-TT TTATTT TTATTT TTATTT TT-ATTT TTATTT --T-TATTT
14307 TTA-TT TTATTT T
1 TTATTT TTATTT T
14319 CCCTTTTGAT
Statistics
Matches: 49, Mismatches: 0, Indels: 18
0.73 0.00 0.27
Matches are distributed among these distances:
4 1 0.02
5 8 0.16
6 25 0.51
7 4 0.08
8 6 0.12
9 5 0.10
ACGTcount: A:0.20, C:0.02, G:0.02, T:0.77
Consensus pattern (6 bp):
TTATTT
Found at i:14284 original size:37 final size:38
Alignment explanation
Indices: 14243--14362 Score: 110
Period size: 37 Copynumber: 3.2 Consensus size: 38
14233 CTTCTTTTGA
14243 TTTATTCTTTTA-TTATTTTTATTCTTTTATTTTTATT
1 TTTATTCTTTTATTTATTTTTATTCTTTTATTTTTATT
* *
14280 TTTATT-TTTGATTTATTTAATATAT-TTTTA-TTTTA-T
1 TTTATTCTTTTATTTATTT-TTAT-TCTTTTATTTTTATT
**
14316 TTT-CCCTTTTGATTTATTTTT-TTCTTTTAGTTTTTATT
1 TTTATTCTTTT-ATTTATTTTTATTCTTTTA-TTTTTATT
*
14354 TTCATTCTT
1 TTTATTCTT
14363 ATGTTTTTTC
Statistics
Matches: 64, Mismatches: 9, Indels: 18
0.70 0.10 0.20
Matches are distributed among these distances:
34 1 0.02
35 6 0.09
36 12 0.19
37 30 0.47
38 11 0.17
39 4 0.06
ACGTcount: A:0.17, C:0.07, G:0.03, T:0.74
Consensus pattern (38 bp):
TTTATTCTTTTATTTATTTTTATTCTTTTATTTTTATT
Found at i:14981 original size:42 final size:41
Alignment explanation
Indices: 14934--15535 Score: 336
Period size: 43 Copynumber: 14.2 Consensus size: 41
14924 ATCCCACATA
*
14934 TTTATAATTGAGTCCTCTAATTTTTTAATATCACTTTTTACT
1 TTTATAATTGAG-CCTCTAATTTTTTAATCTCACTTTTTACT
* * **
14976 TTTATAATTGAGGCCTTTAATTTTTCTAATCTCGCTTCATAGC-
1 TTTATAATTGA-GCCTCTAATTTTT-TAATCTCACTTTTTA-CT
* *
15019 TTTATAATTGAAACGTCTAATTTTTTAATCTCACTTTTTA-T
1 TTTATAATTG-AGCCTCTAATTTTTTAATCTCACTTTTTACT
** * *
15060 CTTTATAATTGAGGTTCTAATTTTTTCAATTTCACTTTTTACA
1 -TTTATAATTGAGCCTCTAATTTTTT-AATCTCACTTTTTACT
* * *
15103 TTTATAATTGAGACTTGTAATTTTTTTCAAT-TCACTTTCTAGC-
1 TTTATAATTGAG-CCTCTAA-TTTTTT-AATCTCACTTTTTA-CT
* * *
15146 TTTATAATTAAAGTCC-CTAATTTTTGTAATCTCGCTTTTTACA
1 TTTATAATT-GAG-CCTCTAATTTTT-TAATCTCACTTTTTACT
* * *
15189 TTTGTAAATGAGCGTCCTAATTTTTTCAATCTCACTTTTTAC-
1 TTTATAATTGAGCCT-CTAATTTTTT-AATCTCACTTTTTACT
*** * * * *
15231 ---CCGA-TG-TCCAT-TATTATTTTTAATCTCACTTTCTATT
1 TTTATAATTGAGCC-TCTAAT-TTTTTAATCTCACTTTTTACT
* * * * *
15268 TTTATATTTGAAGCCTTTAGTTTTTTTAATCTCACATTTTAAT
1 TTTATAATTG-AGCCTCTA-ATTTTTTAATCTCACTTTTTACT
* * *
15311 TTTATAA-TGAGACTCTTAATTTTTTCAATCTCACCTTTTACC
1 TTTATAATTGAGCCTC-TAATTTTTT-AATCTCACTTTTTACT
** * * *
15353 TTTATAATTGAAACACTAAATTTTTTAATAT-AGCTTTTTTTACA
1 TTTATAATTGAGCCTCT-AATTTTTTAATCTCA-C--TTTTTACT
* * *
15397 TTTATAATTGAGGCC-CTTAGTTTTTTTCAATATCACTTTTTTACC
1 TTTATAATTGA-GCCTC-TA-ATTTTTT-AATCTCAC-TTTTTACT
* * *
15442 TTTATAATTGAAACGC-CTAATTTTTTAATTTCACTTTTTACC
1 TTTATAATTG-AGC-CTCTAATTTTTTAATCTCACTTTTTACT
* * *
15484 TTTATAATTGAGACTCCTAATTTTTTCAATCTAATTTTTTACT
1 TTTATAATTGAGCCT-CTAATTTTTT-AATCTCACTTTTTACT
15527 TTTATAATT
1 TTTATAATT
15536 TAAGACCTAC
Statistics
Matches: 443, Mismatches: 71, Indels: 91
0.73 0.12 0.15
Matches are distributed among these distances:
36 16 0.04
37 6 0.01
38 3 0.01
39 1 0.00
40 1 0.00
41 27 0.06
42 140 0.32
43 167 0.38
44 43 0.10
45 29 0.07
46 9 0.02
47 1 0.00
ACGTcount: A:0.27, C:0.15, G:0.07, T:0.51
Consensus pattern (41 bp):
TTTATAATTGAGCCTCTAATTTTTTAATCTCACTTTTTACT
Found at i:15042 original size:85 final size:84
Alignment explanation
Indices: 14874--15535 Score: 372
Period size: 85 Copynumber: 7.9 Consensus size: 84
14864 CATGCTCTTA
* * * * * * * *
14874 AATTTTGTAATTTCACTTTTTACTTTAATAACTGAGGTCTTTAAATTTTT--ATCCCAC---ATA
1 AATTTTTTAATCTCACTTTTTACTTTTATAATTGAGGCCTTTAATTTTTTCAATCTCACTTTTTA
** *
14934 -TTTATAATTGAGTCCTCT
66 CTTTATAATTGAAACGTCT
* * **
14952 AATTTTTTAATATCACTTTTTACTTTTATAATTGAGGCCTTTAA-TTTTTCTAATCTCGCTTCAT
1 AATTTTTTAATCTCACTTTTTACTTTTATAATTGAGGCCTTTAATTTTTTC-AATCTCACTTTTT
15016 AGCTTTATAATTGAAACGTCT
65 A-CTTTATAATTGAAACGTCT
*
15037 AATTTTTTAATCTCACTTTTTA-TCTTTATAATTGAGG--TTCTAATTTTTTCAATTTCACTTTT
1 AATTTTTTAATCTCACTTTTTACT-TTTATAATTGAGGCCTT-TAATTTTTTCAATCTCACTTTT
* * *
15099 TACATTTATAATTGAGACTTGT
64 TAC-TTTATAATTGAAACGTCT
* * * * *
15121 AATTTTTTTCAAT-TCACTTTCTAGC-TTTATAATTAAAGTCC-CTAATTTTTGT-AATCTCGCT
1 AA-TTTTTT-AATCTCACTTTTTA-CTTTTATAATT-GAGGCCTTTAATTTTT-TCAATCTCACT
* * *
15182 TTTTACATTTGTAAATG-AGCGTCCT
61 TTTTAC-TTTATAATTGAAACGT-CT
*** * * * *
15207 AATTTTTTCAATCTCACTTTTTAC----CCGA-T--GTCCATT-ATTATTTTTAATCTCACTTTC
1 AATTTTTT-AATCTCACTTTTTACTTTTATAATTGAGGCCTTTAATT-TTTTCAATCTCACTTTT
* * * * *
15264 TATTTTTATATTTGAAGCCTTT
64 TA-CTTTATAATTGAAACGTCT
* * * * *
15286 AGTTTTTTTAATCTCACATTTTAATTTTATAA-TGA-GACTCTTAATTTTTTCAATCTCACCTTT
1 A-ATTTTTTAATCTCACTTTTTACTTTTATAATTGAGGCCT-TTAATTTTTTCAATCTCACTTTT
*
15349 TACCTTTATAATTGAAAC-ACT
64 TA-CTTTATAATTGAAACGTCT
* * * * *
15370 AAATTTTTTAATAT-AGCTTTTTTTACATTTATAATTGAGGCCCTTAGTTTTTTTCAATATCACT
1 -AATTTTTTAATCTCA-C--TTTTTACTTTTATAATTGAGGCCTTTA-ATTTTTTCAATCTCAC-
*
15434 TTTTTACCTTTATAATTGAAACGCCT
60 TTTTTA-CTTTATAATTGAAACGTCT
* * * * * *
15460 AATTTTTTAATTTCACTTTTTACCTTTATAATTGA-GACTCCTAATTTTTTCAATCTAATTTTTT
1 AATTTTTTAATCTCACTTTTTACTTTTATAATTGAGGCCT-TTAATTTTTTCAATCTCACTTTTT
15524 ACTTTTATAATT
65 AC-TTTATAATT
15536 TAAGACCTAC
Statistics
Matches: 455, Mismatches: 81, Indels: 89
0.73 0.13 0.14
Matches are distributed among these distances:
77 5 0.01
78 47 0.10
79 38 0.08
80 15 0.03
81 1 0.00
82 1 0.00
83 9 0.02
84 45 0.10
85 138 0.30
86 76 0.17
87 27 0.06
88 16 0.04
89 34 0.07
90 3 0.01
ACGTcount: A:0.27, C:0.15, G:0.07, T:0.51
Consensus pattern (84 bp):
AATTTTTTAATCTCACTTTTTACTTTTATAATTGAGGCCTTTAATTTTTTCAATCTCACTTTTTA
CTTTATAATTGAAACGTCT
Found at i:15377 original size:207 final size:207
Alignment explanation
Indices: 15040--15437 Score: 465
Period size: 207 Copynumber: 1.9 Consensus size: 207
15030 AACGTCTAAT
* * * *
15040 TTTTTAATCTCACTTTTTATCTTTATAATTGAGGTTCTAATTTTTTCAATTTCACTTTTTACATT
1 TTTTTAATCTCACTTTCTATCTTTATAATTGAGCTTCTAATTTTTTCAATCTCACATTTTACATT
* *
15105 TATAATTGAGACTTGTAATTTTTTTCAATTCACTTTCTAGCTTTATAATTAAAGTCCCTAATTTT
66 TATAATTGAGACTTGTAATTTTTTTCAATTCACTTTCTACCTTTATAATTAAAG-CACTAATTTT
* * * * *
15170 TGTAATCTCGC-TTTTTACATTTGTAAATGAGCGTCC-TA-ATTTTTTCAATCTCACTTTTTACC
130 T-TAATATAGCTTTTTTACATTTATAAATGAG-GCCCTTAGATTTTTTCAATATCACTTTTTACC
15232 CGATGTCCATTATTA
193 CGATGTCCATTATTA
* * * *
15247 TTTTTAATCTCACTTTCTATTTTTATATTTGAAGCCTT-TAGTTTTTTTAATCTCACATTTTA-A
1 TTTTTAATCTCACTTTCTATCTTTATAATTG-AG-CTTCTAATTTTTTCAATCTCACATTTTACA
15310 TTTTATAA-TGAGACTCT-TAA-TTTTTTCAATCTCACCTTT-TACCTTTATAATTGAAA-CACT
64 -TTTATAATTGAGACT-TGTAATTTTTTTCAAT-TCA-CTTTCTACCTTTATAATT-AAAGCACT
* *
15370 AAATTTTTTAATATAGCTTTTTTTACATTTATAATTGAGGCCCTTAGTTTTTTTCAATATCACTT
124 -AATTTTTTAATATAGC-TTTTTTACATTTATAAATGAGGCCCTTAGATTTTTTCAATATCACTT
15435 TTT
187 TTT
15438 TACCTTTATA
Statistics
Matches: 162, Mismatches: 17, Indels: 22
0.81 0.08 0.11
Matches are distributed among these distances:
206 20 0.12
207 64 0.40
208 57 0.35
209 21 0.13
ACGTcount: A:0.26, C:0.16, G:0.07, T:0.52
Consensus pattern (207 bp):
TTTTTAATCTCACTTTCTATCTTTATAATTGAGCTTCTAATTTTTTCAATCTCACATTTTACATT
TATAATTGAGACTTGTAATTTTTTTCAATTCACTTTCTACCTTTATAATTAAAGCACTAATTTTT
TAATATAGCTTTTTTACATTTATAAATGAGGCCCTTAGATTTTTTCAATATCACTTTTTACCCGA
TGTCCATTATTA
Found at i:15394 original size:44 final size:43
Alignment explanation
Indices: 15289--15535 Score: 186
Period size: 42 Copynumber: 5.7 Consensus size: 43
15279 AGCCTTTAGT
* * ** * * *
15289 TTTTTTAATCTCAC-ATTTTAATTTTATAA-TGAGACTCTTAA
1 TTTTTTAATATCACTTTTTTACCTTTATAATTGAAACCCTAAA
* * *
15330 TTTTTTCAATCTCAC-CTTTTACCTTTATAATTGAAACACTAAA
1 TTTTTT-AATATCACTTTTTTACCTTTATAATTGAAACCCTAAA
* ** **
15373 TTTTTTAATAT-AGCTTTTTTTACATTTATAATTGAGGCCCTTAGT
1 TTTTTTAATATCA-C-TTTTTTACCTTTATAATTGAAACCC-TAAA
15418 TTTTTTCAATATCACTTTTTTACCTTTATAATTGAAACGCCT-AA
1 TTTTTT-AATATCACTTTTTTACCTTTATAATTGAAAC-CCTAAA
* *
15462 TTTTTTAATTTCAC-TTTTTACCTTTATAATTGAGACTCCT-AA
1 TTTTTTAATATCACTTTTTTACCTTTATAATTGAAAC-CCTAAA
* * *
15504 TTTTTTCA-ATCTAATTTTTTACTTTTATAATT
1 TTTTTTAATATC-ACTTTTTTACCTTTATAATT
15536 TAAGACCTAC
Statistics
Matches: 169, Mismatches: 26, Indels: 20
0.79 0.12 0.09
Matches are distributed among these distances:
41 9 0.05
42 59 0.35
43 38 0.22
44 25 0.15
45 29 0.17
46 8 0.05
47 1 0.01
ACGTcount: A:0.28, C:0.15, G:0.05, T:0.52
Consensus pattern (43 bp):
TTTTTTAATATCACTTTTTTACCTTTATAATTGAAACCCTAAA
Found at i:16587 original size:25 final size:26
Alignment explanation
Indices: 16548--16602 Score: 67
Period size: 25 Copynumber: 2.2 Consensus size: 26
16538 TTGGAATTCT
* * *
16548 TAAAAAGAAAGTAAAAAAATGTTAGA
1 TAAAAAGAAACTAAAAAAATATTAAA
*
16574 TAAAAA-AAACTAAATAAATATTAAA
1 TAAAAAGAAACTAAAAAAATATTAAA
16599 TAAA
1 TAAA
16603 TCCAAGAACA
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
25 19 0.76
26 6 0.24
ACGTcount: A:0.69, C:0.02, G:0.07, T:0.22
Consensus pattern (26 bp):
TAAAAAGAAACTAAAAAAATATTAAA
Found at i:16730 original size:46 final size:41
Alignment explanation
Indices: 16649--16734 Score: 93
Period size: 43 Copynumber: 2.0 Consensus size: 41
16639 TGAAATACTA
*
16649 AAATAATAAATCAAAGGAAAAAAAGAAAATTAAAATATAAAT
1 AAATAATAAATCAAAGGAAAAAAAGAAAATAAAAAT-TAAAT
*
16691 AAATAAATAAGTCAAAAGG-AAAAAAGAATTGAATAAAAATTAAA
1 AAAT-AATAAATC-AAAGGAAAAAAAGAA---AATAAAAATTAAA
16735 AAAGAGGAAA
Statistics
Matches: 37, Mismatches: 2, Indels: 7
0.80 0.04 0.15
Matches are distributed among these distances:
42 4 0.11
43 16 0.43
44 5 0.14
45 4 0.11
46 8 0.22
ACGTcount: A:0.70, C:0.02, G:0.09, T:0.19
Consensus pattern (41 bp):
AAATAATAAATCAAAGGAAAAAAAGAAAATAAAAATTAAAT
Found at i:16753 original size:7 final size:7
Alignment explanation
Indices: 16743--16824 Score: 51
Period size: 7 Copynumber: 11.3 Consensus size: 7
16733 AAAAAGAGGA
16743 AAAAAAT
1 AAAAAAT
16750 AAAAAAT
1 AAAAAAT
16757 AAAAATAAT
1 -AAAA-AAT
*
16766 GAGAAAAT
1 -AAAAAAT
16774 -AAAAAT
1 AAAAAAT
* *
16780 AATAAGT
1 AAAAAAT
*
16787 CAAAAGAAG
1 -AAAA-AAT
* *
16796 AATAGA-
1 AAAAAAT
16802 AAAAAAT
1 AAAAAAT
16809 AAAAAAT
1 AAAAAAT
16816 AAAAAAT
1 AAAAAAT
16823 AA
1 AA
16825 TATAATAATA
Statistics
Matches: 57, Mismatches: 12, Indels: 12
0.70 0.15 0.15
Matches are distributed among these distances:
6 9 0.16
7 28 0.49
8 13 0.23
9 7 0.12
ACGTcount: A:0.77, C:0.01, G:0.07, T:0.15
Consensus pattern (7 bp):
AAAAAAT
Found at i:16772 original size:25 final size:24
Alignment explanation
Indices: 16722--16778 Score: 62
Period size: 25 Copynumber: 2.3 Consensus size: 24
16712 AAAAGAATTG
*
16722 AATAAAAATTAAAAAAGAGGAAAAA
1 AATAAAAAATAAAAAAGAGG-AAAA
* *
16747 AATAAAAAATAAAAATA-ATGAGAA
1 AATAAAAAATAAAAA-AGAGGAAAA
16771 AATAAAAA
1 AATAAAAA
16779 TAATAAGTCA
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
24 11 0.39
25 16 0.57
26 1 0.04
ACGTcount: A:0.77, C:0.00, G:0.09, T:0.14
Consensus pattern (24 bp):
AATAAAAAATAAAAAAGAGGAAAA
Found at i:16901 original size:3 final size:3
Alignment explanation
Indices: 16893--16943 Score: 58
Period size: 3 Copynumber: 18.7 Consensus size: 3
16883 AGAAAAAACA
*
16893 AAT AAT AAT AAT AAT AAT AAT AAT GA- AAT AA- AAT AA- AAT AA- AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
16937 AA- AAT AA
1 AAT AAT AA
16944 AGAATAAAAA
Statistics
Matches: 41, Mismatches: 2, Indels: 10
0.77 0.04 0.19
Matches are distributed among these distances:
2 9 0.22
3 32 0.78
ACGTcount: A:0.73, C:0.00, G:0.02, T:0.25
Consensus pattern (3 bp):
AAT
Found at i:16913 original size:15 final size:15
Alignment explanation
Indices: 16893--16943 Score: 58
Period size: 13 Copynumber: 3.7 Consensus size: 15
16883 AGAAAAAACA
16893 AATAATAATAATAAT
1 AATAATAATAATAAT
*
16908 AATAATAATGA-AAT
1 AATAATAATAATAAT
16922 AA-AATAA-AATAA-
1 AATAATAATAATAAT
16934 AATAA-AATAA
1 AATAATAATAA
16944 AGAATAAAAA
Statistics
Matches: 31, Mismatches: 2, Indels: 8
0.76 0.05 0.20
Matches are distributed among these distances:
12 5 0.16
13 11 0.35
14 5 0.16
15 10 0.32
ACGTcount: A:0.73, C:0.00, G:0.02, T:0.25
Consensus pattern (15 bp):
AATAATAATAATAAT
Found at i:16928 original size:5 final size:5
Alignment explanation
Indices: 16896--16944 Score: 62
Period size: 5 Copynumber: 9.2 Consensus size: 5
16886 AAAAACAAAT
*
16896 AATAA TAATAA TAATAA TAATGA AATAA AATAA AATAA AATAA AATAA
1 AATAA -AATAA -AATAA -AATAA AATAA AATAA AATAA AATAA AATAA
16944 A
1 A
16945 GAATAAAAAA
Statistics
Matches: 41, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
5 25 0.61
6 16 0.39
ACGTcount: A:0.73, C:0.00, G:0.02, T:0.24
Consensus pattern (5 bp):
AATAA
Found at i:17199 original size:12 final size:12
Alignment explanation
Indices: 17182--17206 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
17172 CACACAAACC
17182 CCCTCCCCAAAA
1 CCCTCCCCAAAA
17194 CCCTCCCCAAAA
1 CCCTCCCCAAAA
17206 C
1 C
17207 GACGTCGCAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.32, C:0.60, G:0.00, T:0.08
Consensus pattern (12 bp):
CCCTCCCCAAAA
Found at i:19036 original size:22 final size:21
Alignment explanation
Indices: 19010--19050 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
19000 AACGACGTTT
19010 TTGAAAAATTACTCCCCCTTAC
1 TTGAAAAATT-CTCCCCCTTAC
* *
19032 TTGAACACTTCTCCCCCTT
1 TTGAAAAATTCTCCCCCTT
19051 TAAAACACCT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 9 0.53
22 8 0.47
ACGTcount: A:0.24, C:0.37, G:0.05, T:0.34
Consensus pattern (21 bp):
TTGAAAAATTCTCCCCCTTAC
Found at i:19350 original size:15 final size:15
Alignment explanation
Indices: 19324--19371 Score: 51
Period size: 17 Copynumber: 3.0 Consensus size: 15
19314 TTCAAACATC
*
19324 CAAACAAATCCAAAGT
1 CAAAC-AATCCAAAAT
*
19340 CTAACAATCCACAAAAT
1 CAAACAAT-C-CAAAAT
19357 CAAACAATCCAAAAT
1 CAAACAATCCAAAAT
19372 ATTCAAAATG
Statistics
Matches: 27, Mismatches: 3, Indels: 5
0.77 0.09 0.14
Matches are distributed among these distances:
15 9 0.33
16 6 0.22
17 12 0.44
ACGTcount: A:0.56, C:0.27, G:0.02, T:0.15
Consensus pattern (15 bp):
CAAACAATCCAAAAT
Found at i:20650 original size:12 final size:12
Alignment explanation
Indices: 20635--20660 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
20625 TTCAGGAATA
20635 GGAGGAGGATTT
1 GGAGGAGGATTT
20647 GGAGGAGGATTT
1 GGAGGAGGATTT
20659 GG
1 GG
20661 TTGACGGTGT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.23, C:0.00, G:0.54, T:0.23
Consensus pattern (12 bp):
GGAGGAGGATTT
Found at i:26927 original size:17 final size:18
Alignment explanation
Indices: 26888--26929 Score: 50
Period size: 18 Copynumber: 2.4 Consensus size: 18
26878 AATAAGTTTT
*
26888 CTTGAAAGAAAAATGAAT
1 CTTGAAAGAAAAATGAAG
* *
26906 ATTGAATGAAAAAT-AAG
1 CTTGAAAGAAAAATGAAG
26923 CTTGAAA
1 CTTGAAA
26930 TGCTCAAACT
Statistics
Matches: 19, Mismatches: 5, Indels: 1
0.76 0.20 0.04
Matches are distributed among these distances:
17 7 0.37
18 12 0.63
ACGTcount: A:0.55, C:0.05, G:0.17, T:0.24
Consensus pattern (18 bp):
CTTGAAAGAAAAATGAAG
Found at i:27855 original size:19 final size:19
Alignment explanation
Indices: 27830--27894 Score: 60
Period size: 19 Copynumber: 3.4 Consensus size: 19
27820 CTGGACCAGA
27830 AAAATAAAACAAAATAAAT
1 AAAATAAAACAAAATAAAT
* ** *
27849 TAAATAAAATTAAATGAAT
1 AAAATAAAACAAAATAAAT
*
27868 AAAATAAAATAATAAT-AAT
1 AAAATAAAACAA-AATAAAT
27887 AATAATAA
1 AA-AATAA
27895 TAATAATAAT
Statistics
Matches: 38, Mismatches: 6, Indels: 3
0.81 0.13 0.06
Matches are distributed among these distances:
19 30 0.79
20 8 0.21
ACGTcount: A:0.72, C:0.02, G:0.02, T:0.25
Consensus pattern (19 bp):
AAAATAAAACAAAATAAAT
Found at i:27857 original size:14 final size:12
Alignment explanation
Indices: 27840--27905 Score: 55
Period size: 12 Copynumber: 5.1 Consensus size: 12
27830 AAAATAAAAC
27840 AAAATAAATTAAAT
1 AAAATAAA-T-AAT
27854 AAAATTAAATGAAT
1 AAAA-TAAAT-AAT
27868 AAAATAAAATAAT
1 AAAAT-AAATAAT
27881 AATAAT-AATAAT
1 AA-AATAAATAAT
27893 AATAAT-AATAAT
1 AA-AATAAATAAT
27905 A
1 A
27906 TACTAATAAT
Statistics
Matches: 48, Mismatches: 1, Indels: 8
0.84 0.02 0.14
Matches are distributed among these distances:
12 19 0.40
13 6 0.12
14 19 0.40
15 4 0.08
ACGTcount: A:0.70, C:0.00, G:0.02, T:0.29
Consensus pattern (12 bp):
AAAATAAATAAT
Found at i:27883 original size:3 final size:3
Alignment explanation
Indices: 27865--27919 Score: 80
Period size: 3 Copynumber: 19.3 Consensus size: 3
27855 AAATTAAATG
*
27865 AAT AA- AAT AA- AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT -AT ACT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
27910 AAT AAT AAT A
1 AAT AAT AAT A
27920 CAATATAAAC
Statistics
Matches: 47, Mismatches: 2, Indels: 6
0.85 0.04 0.11
Matches are distributed among these distances:
2 6 0.13
3 41 0.87
ACGTcount: A:0.67, C:0.02, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:27943 original size:9 final size:8
Alignment explanation
Indices: 27865--27940 Score: 50
Period size: 9 Copynumber: 9.1 Consensus size: 8
27855 AAATTAAATG
*
27865 AATAAAAT
1 AATAATAT
27873 AA-AATAAT
1 AATAAT-AT
27881 AATAATAAT
1 AATAAT-AT
27890 AATAATAAT
1 AATAAT-AT
27899 AATAATAT
1 AATAATAT
*
27907 ACTAATAAT
1 AATAAT-AT
27916 AATACAATAT
1 AAT--AATAT
*
27926 AA-ACTAT
1 AATAATAT
27933 -ATAATAT
1 AATAATAT
27940 A
1 A
27941 TATGTTGAGT
Statistics
Matches: 56, Mismatches: 5, Indels: 14
0.75 0.07 0.19
Matches are distributed among these distances:
6 1 0.02
7 10 0.18
8 13 0.23
9 25 0.45
10 4 0.07
11 3 0.05
ACGTcount: A:0.64, C:0.04, G:0.00, T:0.32
Consensus pattern (8 bp):
AATAATAT
Found at i:31330 original size:22 final size:23
Alignment explanation
Indices: 31284--31341 Score: 91
Period size: 22 Copynumber: 2.6 Consensus size: 23
31274 AACCTCAAGA
31284 GGAATCGATTCCCCTTCAAAGGG
1 GGAATCGATTCCCCTTCAAAGGG
*
31307 GGAATCGGTTCCCCTTC-AAGGG
1 GGAATCGATTCCCCTTCAAAGGG
*
31329 GGTATCGATTCCC
1 GGAATCGATTCCC
31342 GCTGCACTAA
Statistics
Matches: 32, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
22 16 0.50
23 16 0.50
ACGTcount: A:0.21, C:0.28, G:0.28, T:0.24
Consensus pattern (23 bp):
GGAATCGATTCCCCTTCAAAGGG
Found at i:35151 original size:22 final size:21
Alignment explanation
Indices: 35109--35148 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
35099 TGAGTTATTT
*
35109 TCATTTTTCAATTTTGAAACA
1 TCATTTTTCAATTTTAAAACA
35130 TCATTTTT-ATATTTTAAAA
1 TCATTTTTCA-ATTTTAAAA
35149 ACAATTTCTC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 1 0.06
21 16 0.94
ACGTcount: A:0.35, C:0.10, G:0.03, T:0.53
Consensus pattern (21 bp):
TCATTTTTCAATTTTAAAACA
Found at i:37591 original size:36 final size:35
Alignment explanation
Indices: 37416--37589 Score: 160
Period size: 34 Copynumber: 4.9 Consensus size: 35
37406 ACAATATATA
* *
37416 TTTCAAAAATATTTTTAAACTATATA-T-TAT-AT
1 TTTCAAAAAGATTTTAAAACTATATATTATATAAT
** *
37448 TTAAAAAAAAAGTTTTCAAAACTATATATTATATAATT
1 TTTCAAAAAGA-TTTT-AAAACTATATATTATATAA-T
* *
37486 TTTCAAAAAAATTTTAAAACAATATATTATAT-AT
1 TTTCAAAAAGATTTTAAAACTATATATTATATAAT
* *
37520 TTTCAAAATGTTTTTTTAAAAACTATATATTATATAAT
1 TTTCAAAAAG--ATTTT-AAAACTATATATTATATAAT
* *
37558 TTTCAAAAAGACTTT-AAACTATATAATATATA
1 TTTCAAAAAGATTTTAAAACTATATATTATATA
37590 TATATATAAT
Statistics
Matches: 117, Mismatches: 15, Indels: 18
0.78 0.10 0.12
Matches are distributed among these distances:
32 8 0.07
33 4 0.03
34 35 0.30
35 2 0.02
36 26 0.22
37 21 0.18
38 21 0.18
ACGTcount: A:0.48, C:0.06, G:0.02, T:0.44
Consensus pattern (35 bp):
TTTCAAAAAGATTTTAAAACTATATATTATATAAT
Found at i:38442 original size:85 final size:85
Alignment explanation
Indices: 38353--39124 Score: 911
Period size: 85 Copynumber: 9.1 Consensus size: 85
38343 TCTCAACTTA
* * ** * * * * **
38353 AGTTATGCTTTAAATTTAACATGCCCCTGAGCTGAATGAAATCGAACTCAAAGGTATTTATTGAC
1 AGTTATGCTTTAAATTTGATATGCCTTTGAGCTGAGTGTAATCGAACTCGAAGGTCTTGGTTGAC
38418 AGATAACCCTTCTCGCCTTG
66 AGATAACCCTTCTCGCCTTG
* * *
38438 AGTTATGCTATAAATTTGATATGCCTTTGAGCTGAATGTAATCGAACTCGAAGGTCTTGGTTGAT
1 AGTTATGCTTTAAATTTGATATGCCTTTGAGCTGAGTGTAATCGAACTCGAAGGTCTTGGTTGAC
*
38503 AGATAACTCTTCTCGCCTTG
66 AGATAACCCTTCTCGCCTTG
* * * * * * * *
38523 AGTTATACTGTAAATTGGATATACCTTAGAGCTAATTGTAATCGAACTCGAAGGTCTTTTGTTGA
1 AGTTATGCTTTAAATTTGATATGCCTTTGAGCTGAGTGTAATCGAACTCGAAGGTC-TTGGTTGA
** * * **
38588 CAGATAGTCATTATTTCCTTG
65 CAGATAACCCTTCTCGCCTTG
* *
38609 AGCTATGCTATT-AATTTGATGTGCCTTTGAGCTGAGTGTAATCGAACTCGAAGGTCTTGGTTGA
1 AGTTATGCT-TTAAATTTGATATGCCTTTGAGCTGAGTGTAATCGAACTCGAAGGTCTTGGTTGA
* *
38673 TAGATAACCCTTATCGCCTTG
65 CAGATAACCCTTCTCGCCTTG
* * * * * *
38694 AGTTTTGCTGTAAATTTGATGTGCCTTTGAGCTGAGTGTAATCGAACTCGAAGGACTTGGTTAAA
1 AGTTATGCTTTAAATTTGATATGCCTTTGAGCTGAGTGTAATCGAACTCGAAGGTCTTGGTTGAC
*
38759 AGATATCCCTTCTCGCCTTG
66 AGATAACCCTTCTCGCCTTG
* * * * * * *
38779 AGCTATG-TTATAAATTTGATGTGCCTTGGAGTTGAGTGTAATCAAACTCTAAGGTCTTAGTTGA
1 AGTTATGCTT-TAAATTTGATATGCCTTTGAGCTGAGTGTAATCGAACTCGAAGGTCTTGGTTGA
38843 CAGATAACCCTTCTCGCCTTG
65 CAGATAACCCTTCTCGCCTTG
* * *
38864 AGTTATG-TTGTAAATTTGATATTCCTTTAAGCTGAGTGTAATTGAACTCGAAGGTCTTGGTTGA
1 AGTTATGCTT-TAAATTTGATATGCCTTTGAGCTGAGTGTAATCGAACTCGAAGGTCTTGGTTGA
** *
38928 CAGATAATTCTTCTCACCTTG
65 CAGATAACCCTTCTCGCCTTG
* * * * * *
38949 AGTTATTCTGTAAATTTGATATTCCTTTGAGCTAAGTATAATCGAACTCGAAGGCCTTGGTTGAC
1 AGTTATGCTTTAAATTTGATATGCCTTTGAGCTGAGTGTAATCGAACTCGAAGGTCTTGGTTGAC
*
39014 AGATAGCCCTTCTCGCCTTG
66 AGATAACCCTTCTCGCCTTG
* * * *
39034 AGTTATGCTCTAAATTTGATGTGCCTTTAAGCTGAGTGTAATCGAACTCAAAGGTCTTGGTTGAC
1 AGTTATGCTTTAAATTTGATATGCCTTTGAGCTGAGTGTAATCGAACTCGAAGGTCTTGGTTGAC
*
39099 AGATAACCCTTCTCGCCTTT
66 AGATAACCCTTCTCGCCTTG
39119 AGTTAT
1 AGTTAT
39125 TCTGTACTGG
Statistics
Matches: 582, Mismatches: 100, Indels: 10
0.84 0.14 0.01
Matches are distributed among these distances:
84 2 0.00
85 513 0.88
86 66 0.11
87 1 0.00
ACGTcount: A:0.26, C:0.17, G:0.20, T:0.36
Consensus pattern (85 bp):
AGTTATGCTTTAAATTTGATATGCCTTTGAGCTGAGTGTAATCGAACTCGAAGGTCTTGGTTGAC
AGATAACCCTTCTCGCCTTG
Found at i:44232 original size:8 final size:8
Alignment explanation
Indices: 44214--44249 Score: 56
Period size: 8 Copynumber: 4.5 Consensus size: 8
44204 AGGGAAAAAT
44214 AAAAT-AA
1 AAAATAAA
44221 AAAATAAA
1 AAAATAAA
44229 AAAATAAAA
1 AAAAT-AAA
44238 AAAATAAA
1 AAAATAAA
44246 AAAA
1 AAAA
44250 GTCAAAAGGA
Statistics
Matches: 27, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
7 5 0.19
8 14 0.52
9 8 0.30
ACGTcount: A:0.89, C:0.00, G:0.00, T:0.11
Consensus pattern (8 bp):
AAAATAAA
Found at i:44314 original size:18 final size:19
Alignment explanation
Indices: 44274--44328 Score: 60
Period size: 19 Copynumber: 2.8 Consensus size: 19
44264 AGAATTGAAT
*
44274 AAAAATTAAAAAAAGAGGA
1 AAAAATAAAAAAAAGAGGA
44293 AAAAATAAAAAAAATGA-GA
1 AAAAATAAAAAAAA-GAGGA
44312 AAACAA-AAATAAAAAGA
1 AAA-AATAAA-AAAAAGA
44329 ATAAGTCAAA
Statistics
Matches: 32, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
19 23 0.72
20 9 0.28
ACGTcount: A:0.78, C:0.02, G:0.11, T:0.09
Consensus pattern (19 bp):
AAAAATAAAAAAAAGAGGA
Found at i:44339 original size:25 final size:23
Alignment explanation
Indices: 44293--44357 Score: 67
Period size: 23 Copynumber: 2.7 Consensus size: 23
44283 AAAAAGAGGA
*
44293 AAAAATAAAAAAAATGAGAAAAC
1 AAAAATAAAAAAAATAAGAAAAC
* *
44316 AAAAATAAAAAGAATAAGTCAAAAG
1 AAAAATAAAAAAAATAAG--AAAAC
*
44341 AAGAATAAATAAAAATA
1 AAAAATAAA-AAAAATA
44358 GATACAAAAT
Statistics
Matches: 34, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
23 16 0.47
25 12 0.35
26 6 0.18
ACGTcount: A:0.75, C:0.03, G:0.09, T:0.12
Consensus pattern (23 bp):
AAAAATAAAAAAAATAAGAAAAC
Found at i:44385 original size:8 final size:8
Alignment explanation
Indices: 44372--44406 Score: 52
Period size: 8 Copynumber: 4.2 Consensus size: 8
44362 CAAAATACAA
44372 AATAATAT
1 AATAATAT
44380 AATAATAT
1 AATAATAT
44388 AATAATAGT
1 AATAATA-T
*
44397 AATAAAAT
1 AATAATAT
44405 AA
1 AA
44407 ATAAAATAGG
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
8 18 0.72
9 7 0.28
ACGTcount: A:0.66, C:0.00, G:0.03, T:0.31
Consensus pattern (8 bp):
AATAATAT
Found at i:44585 original size:12 final size:11
Alignment explanation
Indices: 44548--44601 Score: 56
Period size: 12 Copynumber: 4.8 Consensus size: 11
44538 CATGTTACGA
*
44548 AAATAAATAAT
1 AAATAAAAAAT
*
44559 -AATAAAAAAC
1 AAATAAAAAAT
*
44569 CAATAAAAATAT
1 AAATAAAAA-AT
44581 AAATAAATAAAT
1 AAATAAA-AAAT
44593 AAATAAAAA
1 AAATAAAAA
44602 GGGATCAAAA
Statistics
Matches: 36, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
10 8 0.22
11 10 0.28
12 16 0.44
13 2 0.06
ACGTcount: A:0.76, C:0.04, G:0.00, T:0.20
Consensus pattern (11 bp):
AAATAAAAAAT
Found at i:45754 original size:5 final size:5
Alignment explanation
Indices: 45709--45743 Score: 70
Period size: 5 Copynumber: 7.0 Consensus size: 5
45699 ACCAGAAAAA
45709 TAAAT TAAAT TAAAT TAAAT TAAAT TAAAT TAAAT
1 TAAAT TAAAT TAAAT TAAAT TAAAT TAAAT TAAAT
45744 GAATAAAATA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 30 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (5 bp):
TAAAT
Found at i:45880 original size:35 final size:34
Alignment explanation
Indices: 45783--45881 Score: 94
Period size: 35 Copynumber: 2.8 Consensus size: 34
45773 AATACAATAT
* * **
45783 AAACTATATAATATATATATTTCAAAAATATTTTT
1 AAACTATATATTATATAT-TTTCAAAAAAATTTCA
*
45818 AAACTATATATTAT-T-TTTTAAAAAAAAAAATTTCA
1 AAACTATATATTATATATTTT---CAAAAAAATTTCA
45853 AAACTATATATTATATAGTTTTCAAAAAA
1 AAACTATATATTATATA-TTTTCAAAAAA
45882 TATTATATAA
Statistics
Matches: 52, Mismatches: 6, Indels: 12
0.74 0.09 0.17
Matches are distributed among these distances:
32 3 0.06
33 1 0.02
34 1 0.02
35 42 0.81
36 1 0.02
38 4 0.08
ACGTcount: A:0.52, C:0.06, G:0.01, T:0.41
Consensus pattern (34 bp):
AAACTATATATTATATATTTTCAAAAAAATTTCA
Found at i:45890 original size:23 final size:21
Alignment explanation
Indices: 45860--45906 Score: 78
Period size: 21 Copynumber: 2.2 Consensus size: 21
45850 TCAAAACTAT
45860 ATATTATAT-AGTTTTCAAAAA
1 ATATTATATAAG-TTTCAAAAA
45881 ATATTATATAAGTTTCAAAAA
1 ATATTATATAAGTTTCAAAAA
45902 ATATT
1 ATATT
45907 TTTTAAACTA
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
21 23 0.92
22 2 0.08
ACGTcount: A:0.49, C:0.04, G:0.04, T:0.43
Consensus pattern (21 bp):
ATATTATATAAGTTTCAAAAA
Found at i:45939 original size:37 final size:37
Alignment explanation
Indices: 45881--46015 Score: 143
Period size: 37 Copynumber: 3.5 Consensus size: 37
45871 TTTTCAAAAA
*
45881 ATATTATATAAGTTTCAAAAAATATTTTTT-AAACTAT
1 ATATTATATAATTTTC-AAAAATATTTTTTAAAACTAT
*
45918 ATATTATATAATTTTTCAAAAA-ATGTTTTTAAAACCAT
1 ATATTATATAA-TTTTCAAAAATAT-TTTTTAAAACTAT
*
45956 ATATTATAT-ATTTTC-AAAATGTTTGTTTTAAAAAAACTAT
1 ATATTATATAATTTTCAAAAAT-ATT-TTTT---AAAACTAT
45996 ATATTATATAATTTTCAAAA
1 ATATTATATAATTTTCAAAA
46016 TGACTTCAAA
Statistics
Matches: 83, Mismatches: 4, Indels: 17
0.80 0.04 0.16
Matches are distributed among these distances:
35 4 0.05
36 8 0.10
37 27 0.33
38 19 0.23
40 16 0.19
41 6 0.07
42 3 0.04
ACGTcount: A:0.45, C:0.06, G:0.03, T:0.46
Consensus pattern (37 bp):
ATATTATATAATTTTCAAAAATATTTTTTAAAACTAT
Found at i:45947 original size:38 final size:37
Alignment explanation
Indices: 45881--46015 Score: 150
Period size: 38 Copynumber: 3.5 Consensus size: 37
45871 TTTTCAAAAA
* *
45881 ATATTATATAAGTTTCAAAAAATATTTTTTAAACTAT
1 ATATTATATAATTTTCAAAAAATGTTTTTTAAACTAT
* *
45918 ATATTATATAATTTTTCAAAAAATGTTTTTAAAACCAT
1 ATATTATATAA-TTTTCAAAAAATGTTTTTTAAACTAT
45956 ATATTATAT-ATTTTC--AAAATGTTTGTTTTAAAAAAACTAT
1 ATATTATATAATTTTCAAAAAATG-TT-TTTT----AAACTAT
45996 ATATTATATAATTTTCAAAA
1 ATATTATATAATTTTCAAAA
46016 TGACTTCAAA
Statistics
Matches: 82, Mismatches: 6, Indels: 14
0.80 0.06 0.14
Matches are distributed among these distances:
34 6 0.07
35 2 0.02
36 8 0.10
37 12 0.15
38 31 0.38
40 15 0.18
41 6 0.07
43 2 0.02
ACGTcount: A:0.45, C:0.06, G:0.03, T:0.46
Consensus pattern (37 bp):
ATATTATATAATTTTCAAAAAATGTTTTTTAAACTAT
Found at i:47425 original size:2 final size:2
Alignment explanation
Indices: 47418--47444 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
47408 TTAATTAATA
47418 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
47445 CTTAACATGC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:59148 original size:22 final size:23
Alignment explanation
Indices: 59097--59160 Score: 66
Period size: 22 Copynumber: 3.0 Consensus size: 23
59087 TTTAAAATCG
*
59097 GTATCGATACC---GTAAGGG-G
1 GTATCGATACCATAGTAAGGGTA
*
59116 GTATCGGTACCATAGT-AGGGTA
1 GTATCGATACCATAGTAAGGGTA
*
59138 GTATCGATACCATGGTAAGGGTA
1 GTATCGATACCATAGTAAGGGTA
59161 TCGAAACCAG
Statistics
Matches: 36, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
19 10 0.28
21 4 0.11
22 16 0.44
23 6 0.17
ACGTcount: A:0.28, C:0.14, G:0.33, T:0.25
Consensus pattern (23 bp):
GTATCGATACCATAGTAAGGGTA
Found at i:59163 original size:20 final size:20
Alignment explanation
Indices: 59114--59169 Score: 58
Period size: 22 Copynumber: 2.7 Consensus size: 20
59104 TACCGTAAGG
* *
59114 GGGTATCGGTACCATAGTAG
1 GGGTATCGATACCATAGTAA
*
59134 GGTAGTATCGATACCATGGTAA
1 GG--GTATCGATACCATAGTAA
*
59156 GGGTATCGAAACCA
1 GGGTATCGATACCA
59170 GGCAACATCG
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
20 13 0.43
22 17 0.57
ACGTcount: A:0.30, C:0.16, G:0.30, T:0.23
Consensus pattern (20 bp):
GGGTATCGATACCATAGTAA
Found at i:59264 original size:22 final size:22
Alignment explanation
Indices: 59208--59258 Score: 84
Period size: 22 Copynumber: 2.3 Consensus size: 22
59198 ATACCTGGAG
*
59208 GAAGTATCAGTGCCATAATATT
1 GAAGTATCAGTACCATAATATT
*
59230 GAAGTATCAGTACCATAGTATT
1 GAAGTATCAGTACCATAATATT
59252 GAAGTAT
1 GAAGTAT
59259 TGGTACTAGG
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
22 27 1.00
ACGTcount: A:0.37, C:0.12, G:0.20, T:0.31
Consensus pattern (22 bp):
GAAGTATCAGTACCATAATATT
Found at i:59751 original size:45 final size:45
Alignment explanation
Indices: 59695--60033 Score: 516
Period size: 45 Copynumber: 7.5 Consensus size: 45
59685 TGGAAATAAT
* *** * * *
59695 AATGTATATGGGTGCATTATTGGCATAAAAGGATTCTATAGTTGA
1 AATGCATATGGGTGCATTATCAACAGAAAAGTATACTATAGTTGA
* *
59740 AATGCATATGGGTGCATTATCAACAGAAAAGTATATTGTAGTTGA
1 AATGCATATGGGTGCATTATCAACAGAAAAGTATACTATAGTTGA
* *
59785 AATGCATATGTGTTCATTATCAACAGAAAAGTATACTATAGTTGA
1 AATGCATATGGGTGCATTATCAACAGAAAAGTATACTATAGTTGA
*
59830 AATGCATATGGGTGCATTACCAACAGAAAAGTATACTATAGTTGA
1 AATGCATATGGGTGCATTATCAACAGAAAAGTATACTATAGTTGA
*
59875 AATGCATATGGGTGCATTACCAACAGAAAAGTATACTATAGTTGA
1 AATGCATATGGGTGCATTATCAACAGAAAAGTATACTATAGTTGA
* *
59920 AATGCATATGGGTGCATTATCAACAGAAAAGTATGCTATGGTTGA
1 AATGCATATGGGTGCATTATCAACAGAAAAGTATACTATAGTTGA
*
59965 AATGCATATGGGTGCATTATCAACAGAAAAATATACTATAGTTGA
1 AATGCATATGGGTGCATTATCAACAGAAAAGTATACTATAGTTGA
* *
60010 AATGCATATGGGCGCATTGTCAAC
1 AATGCATATGGGTGCATTATCAAC
60034 GTGAATGGAG
Statistics
Matches: 270, Mismatches: 24, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
45 270 1.00
ACGTcount: A:0.38, C:0.12, G:0.21, T:0.30
Consensus pattern (45 bp):
AATGCATATGGGTGCATTATCAACAGAAAAGTATACTATAGTTGA
Found at i:62361 original size:19 final size:20
Alignment explanation
Indices: 62314--62362 Score: 57
Period size: 19 Copynumber: 2.5 Consensus size: 20
62304 AGTTACATGA
62314 TATATGTGATATGAAAATATG
1 TATATGTGATATG-AAATATG
*
62335 -ACTATGTGATATG-AATGTG
1 TA-TATGTGATATGAAATATG
62354 TATATGTGA
1 TATATGTGA
62363 CAAACATAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 6
0.78 0.03 0.19
Matches are distributed among these distances:
19 12 0.48
20 2 0.08
21 11 0.44
ACGTcount: A:0.37, C:0.02, G:0.22, T:0.39
Consensus pattern (20 bp):
TATATGTGATATGAAATATG
Found at i:62564 original size:28 final size:28
Alignment explanation
Indices: 62524--62627 Score: 172
Period size: 28 Copynumber: 3.7 Consensus size: 28
62514 TTGGAATATG
*
62524 TATGTGGTCCTTCAGGACATATGTGTTA
1 TATGTGGTCCTTCGGGACATATGTGTTA
62552 TATGTGGTCCTTCGGGACATATGTGTTA
1 TATGTGGTCCTTCGGGACATATGTGTTA
**
62580 TATGTGGTCCTTCGGGACATATGTAATA
1 TATGTGGTCCTTCGGGACATATGTGTTA
*
62608 TATGTGGTCCTTCGCGACAT
1 TATGTGGTCCTTCGGGACAT
62628 TTCTACGTTT
Statistics
Matches: 72, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
28 72 1.00
ACGTcount: A:0.20, C:0.16, G:0.26, T:0.38
Consensus pattern (28 bp):
TATGTGGTCCTTCGGGACATATGTGTTA
Found at i:62957 original size:9 final size:9
Alignment explanation
Indices: 62939--62988 Score: 64
Period size: 9 Copynumber: 5.6 Consensus size: 9
62929 AAGAGATATG
*
62939 AATGAGAAT
1 AATGATAAT
*
62948 AATGCTAAT
1 AATGATAAT
62957 AATGATAAT
1 AATGATAAT
*
62966 AATAATAAT
1 AATGATAAT
*
62975 AATAATAAT
1 AATGATAAT
62984 AATGA
1 AATGA
62989 AATGATATAT
Statistics
Matches: 36, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
9 36 1.00
ACGTcount: A:0.58, C:0.02, G:0.10, T:0.30
Consensus pattern (9 bp):
AATGATAAT
Found at i:62967 original size:3 final size:3
Alignment explanation
Indices: 62953--62986 Score: 59
Period size: 3 Copynumber: 11.3 Consensus size: 3
62943 AGAATAATGC
*
62953 TAA TAA TGA TAA TAA TAA TAA TAA TAA TAA TAA T
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
62987 GAAATGATAT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.62, C:0.00, G:0.03, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:63002 original size:6 final size:6
Alignment explanation
Indices: 62993--63700 Score: 1319
Period size: 6 Copynumber: 119.3 Consensus size: 6
62983 TAATGAAATG
*
62993 ATATAT ATATGT ATATGT ATATGT ATATGT ATATGT ATATGT ATATGT
1 ATATGT ATATGT ATATGT ATATGT ATATGT ATATGT ATATGT ATATGT
63041 ATATGT ATATGT ATATGT ATATGT ATATGT ATATGT ATATGT ATATGT
1 ATATGT ATATGT ATATGT ATATGT ATATGT ATATGT ATATGT ATATGT
63089 ATATGT ATATGT ATATGT ATATGT ATATGT ATATGT ATATGT ATATGT
1 ATATGT ATATGT ATATGT ATATGT ATATGT ATATGT ATATGT ATATGT
63137 ATATGT ATATGT ATATGT ATATG- -TATGT ATATGT ATATGT ATATGT
1 ATATGT ATATGT ATATGT ATATGT ATATGT ATATGT ATATGT ATATGT
63183 ATATGT ATATGT ATATGT ATATGT ATATGT ATATGT ATATGT ATATGT
1 ATATGT ATATGT ATATGT ATATGT ATATGT ATATGT ATATGT ATATGT
63231 ATATGT ATATGT ATATGT ATATGT ATATGT ATATGT ATATGT ATATGT
1 ATATGT ATATGT ATATGT ATATGT ATATGT ATATGT ATATGT ATATGT
63279 ATATGT ATATGT ATATGT ATATGT ATATGT ATATGT ATATGT ATATGT
1 ATATGT ATATGT ATATGT ATATGT ATATGT ATATGT ATATGT ATATGT
63327 ATATGT ATATG- -TATGT ATATGT ATATGT ATATGT ATATGT ATATGT
1 ATATGT ATATGT ATATGT ATATGT ATATGT ATATGT ATATGT ATATGT
63373 ATATGT ATATGT ATATG- -TATGT ATATGT ATATGT ATATGT ATATGT
1 ATATGT ATATGT ATATGT ATATGT ATATGT ATATGT ATATGT ATATGT
63419 ATATG- -TATGT ATATGT ATATGT ATATGT ATATGT ATATGT ATATGTAT
1 ATATGT ATATGT ATATGT ATATGT ATATGT ATATGT ATATGT ATATG--T
63467 ATATGT ATATGT ATATGT ATATGT ATATGT ATATG- -TATGT ATATGT
1 ATATGT ATATGT ATATGT ATATGT ATATGT ATATGT ATATGT ATATGT
63513 ATATGT ATATGT ATATGT ATATGT ATATGT ATATGT ATATGT ATATGT
1 ATATGT ATATGT ATATGT ATATGT ATATGT ATATGT ATATGT ATATGT
63561 ATATGT ATATGT ATATGT ATATGT ATATGT ATATGT ATATGT ATATGT
1 ATATGT ATATGT ATATGT ATATGT ATATGT ATATGT ATATGT ATATGT
63609 ATATGT ATATGT ATATGT ATATGT ATATGT ATATGT ATATGT ATATGT
1 ATATGT ATATGT ATATGT ATATGT ATATGT ATATGT ATATGT ATATGT
63657 ATATGT ATATGT ATATGT ATATGT ATATGT ATATGT ATATGT AT
1 ATATGT ATATGT ATATGT ATATGT ATATGT ATATGT ATATGT AT
63701 GTATTTATGT
Statistics
Matches: 689, Mismatches: 1, Indels: 24
0.96 0.00 0.03
Matches are distributed among these distances:
4 20 0.03
6 663 0.96
8 6 0.01
ACGTcount: A:0.33, C:0.00, G:0.17, T:0.50
Consensus pattern (6 bp):
ATATGT
Found at i:64825 original size:20 final size:20
Alignment explanation
Indices: 64781--65038 Score: 99
Period size: 20 Copynumber: 12.6 Consensus size: 20
64771 AATGACCAAT
* * *
64781 AAAATCGTAACGCGATAT-C
1 AAAATCGCAACGCGATTTAG
64800 AAAATCGCAACGCGATTTAG
1 AAAATCGCAACGCGATTTAG
** ***
64820 AAAATCGCAACGTTAAAAAG
1 AAAATCGCAACGCGATTTAG
**
64840 AAAATCGCAACG-G-TCAAAAG
1 AAAATCGCAACGCGAT--TTAG
* * * **
64860 GAAATTGCAACGCGAGCTTCC
1 AAAATCGCAACGCGA-TTTAG
**
64881 AAGTTCGCAACGCGATTTAGAAG
1 AAAATCGCAACGCGATTT---AG
* * *
64904 AAAATCGCAATGCGATTGAT
1 AAAATCGCAACGCGATTTAG
* * *
64924 AGAATCGCAATGCGATTTAT
1 AAAATCGCAACGCGATTTAG
* * *
64944 ATAATCGCAATGCGATTGAG
1 AAAATCGCAACGCGATTTAG
* *
64964 AGAGTCGCAACGCGATTTAGAAG
1 AAAATCGCAACGCGATTT---AG
* * *
64987 AAAATCGCAATGCGACTGAG
1 AAAATCGCAACGCGATTTAG
* * *
65007 AGAATCGCAATGCGATTTAT
1 AAAATCGCAACGCGATTTAG
*
65027 AGAATCGCAACG
1 AAAATCGCAACG
65039 TTGAAAATCG
Statistics
Matches: 179, Mismatches: 48, Indels: 23
0.72 0.19 0.09
Matches are distributed among these distances:
19 16 0.09
20 122 0.68
21 12 0.07
23 29 0.16
ACGTcount: A:0.39, C:0.19, G:0.22, T:0.20
Consensus pattern (20 bp):
AAAATCGCAACGCGATTTAG
Found at i:64959 original size:40 final size:40
Alignment explanation
Indices: 64904--65036 Score: 176
Period size: 40 Copynumber: 3.2 Consensus size: 40
64894 GATTTAGAAG
*
64904 AAAATCGCAATGCGATTGATAGAATCGCAATGCGATTTAT
1 AAAATCGCAATGCGATTGAGAGAATCGCAATGCGATTTAT
* * * *
64944 ATAATCGCAATGCGATTGAGAGAGTCGCAACGCGATTTAGAAG
1 AAAATCGCAATGCGATTGAGAGAATCGCAATGCGATTT---AT
*
64987 AAAATCGCAATGCGACTGAGAGAATCGCAATGCGATTTAT
1 AAAATCGCAATGCGATTGAGAGAATCGCAATGCGATTTAT
*
65027 AGAATCGCAA
1 AAAATCGCAA
65037 CGTTGAAAAT
Statistics
Matches: 79, Mismatches: 11, Indels: 6
0.82 0.11 0.06
Matches are distributed among these distances:
40 44 0.56
43 35 0.44
ACGTcount: A:0.38, C:0.17, G:0.23, T:0.23
Consensus pattern (40 bp):
AAAATCGCAATGCGATTGAGAGAATCGCAATGCGATTTAT
Found at i:65007 original size:43 final size:43
Alignment explanation
Indices: 64885--65025 Score: 198
Period size: 43 Copynumber: 3.3 Consensus size: 43
64875 GCTTCCAAGT
*
64885 TCGCAACGCGATTTAGAAGAAAATCGCAATGCGATTGATAGAA
1 TCGCAACGCGATTTAGAAGAAAATCGCAATGCGATTGAGAGAA
* * * *
64928 TCGCAATGCGATTT---ATATAATCGCAATGCGATTGAGAGAG
1 TCGCAACGCGATTTAGAAGAAAATCGCAATGCGATTGAGAGAA
*
64968 TCGCAACGCGATTTAGAAGAAAATCGCAATGCGACTGAGAGAA
1 TCGCAACGCGATTTAGAAGAAAATCGCAATGCGATTGAGAGAA
*
65011 TCGCAATGCGATTTA
1 TCGCAACGCGATTTA
65026 TAGAATCGCA
Statistics
Matches: 84, Mismatches: 11, Indels: 6
0.83 0.11 0.06
Matches are distributed among these distances:
40 35 0.42
43 49 0.58
ACGTcount: A:0.36, C:0.17, G:0.24, T:0.23
Consensus pattern (43 bp):
TCGCAACGCGATTTAGAAGAAAATCGCAATGCGATTGAGAGAA
Found at i:65152 original size:6 final size:6
Alignment explanation
Indices: 65141--65184 Score: 81
Period size: 6 Copynumber: 7.5 Consensus size: 6
65131 GACACGTATT
65141 ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG ACC-CG ACC
1 ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG ACC
65185 CGAGACGAGA
Statistics
Matches: 38, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
5 5 0.13
6 33 0.87
ACGTcount: A:0.32, C:0.52, G:0.16, T:0.00
Consensus pattern (6 bp):
ACCACG
Found at i:65882 original size:6 final size:6
Alignment explanation
Indices: 65866--65910 Score: 83
Period size: 6 Copynumber: 7.7 Consensus size: 6
65856 TCTCGTCTCG
65866 GGTCG- GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGTC
1 GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGTC
65911 ACTGAGGCGA
Statistics
Matches: 39, Mismatches: 0, Indels: 1
0.98 0.00 0.03
Matches are distributed among these distances:
5 5 0.13
6 34 0.87
ACGTcount: A:0.00, C:0.18, G:0.51, T:0.31
Consensus pattern (6 bp):
GGTCGT
Found at i:72170 original size:20 final size:21
Alignment explanation
Indices: 72133--72172 Score: 64
Period size: 21 Copynumber: 1.9 Consensus size: 21
72123 TTTTACCTTT
72133 TTATTTTCACTACTTTTTTTC
1 TTATTTTCACTACTTTTTTTC
72154 TTATTTT-ACTAACTTTTTT
1 TTATTTTCACT-ACTTTTTT
72173 GCTTTCATGT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 3 0.17
21 15 0.83
ACGTcount: A:0.17, C:0.15, G:0.00, T:0.68
Consensus pattern (21 bp):
TTATTTTCACTACTTTTTTTC
Found at i:75227 original size:95 final size:95
Alignment explanation
Indices: 75119--75300 Score: 294
Period size: 95 Copynumber: 1.9 Consensus size: 95
75109 ATATTATTTA
* *
75119 TATACAATAAAGCTTGAGTTATCCCTCT-AGAGCAATTGGTTAAACGCCCCCTCTTTATGGATAA
1 TATACAATAAAGCTTGAGATATCCCTCTAAG-GCAATTGGTTAAACGCCCCCGCTTTATGGATAA
* *
75183 TATTCAGCTAGCCTGATAAAGGTGATTATAT
65 GATTCAGCTAACCTGATAAAGGTGATTATAT
* *
75214 TATACAATAAAGCTTGAGATGTCCCTCTAAGGCAATTGGTTAAACGCCCCGGCTTTATGGATAAG
1 TATACAATAAAGCTTGAGATATCCCTCTAAGGCAATTGGTTAAACGCCCCCGCTTTATGGATAAG
75279 ATTCAGCTAACCTGATAAAGGT
66 ATTCAGCTAACCTGATAAAGGT
75301 ATTTACATAT
Statistics
Matches: 80, Mismatches: 6, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
95 78 0.98
96 2 0.03
ACGTcount: A:0.32, C:0.19, G:0.19, T:0.30
Consensus pattern (95 bp):
TATACAATAAAGCTTGAGATATCCCTCTAAGGCAATTGGTTAAACGCCCCCGCTTTATGGATAAG
ATTCAGCTAACCTGATAAAGGTGATTATAT
Found at i:76708 original size:36 final size:37
Alignment explanation
Indices: 76651--76731 Score: 119
Period size: 36 Copynumber: 2.2 Consensus size: 37
76641 TAATTTACTC
* *
76651 AAAACAAAGTTTTGTCTCTCTTGAGACGGTTTCTCTT
1 AAAACAAAGTTTTGTCTCTCTTGAGACGATTTCCCTT
*
76688 AAAACAAA-TTTTTTCTCTCTTGAGACGATTTCCCTT
1 AAAACAAAGTTTTGTCTCTCTTGAGACGATTTCCCTT
*
76724 GAAACAAA
1 AAAACAAA
76732 AACTTTGAAT
Statistics
Matches: 40, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
36 32 0.80
37 8 0.20
ACGTcount: A:0.31, C:0.20, G:0.12, T:0.37
Consensus pattern (37 bp):
AAAACAAAGTTTTGTCTCTCTTGAGACGATTTCCCTT
Found at i:76804 original size:36 final size:36
Alignment explanation
Indices: 76746--76833 Score: 133
Period size: 36 Copynumber: 2.4 Consensus size: 36
76736 TTGAATTTGT
76746 TTTCCTTGAAACAAAGTTTTGTCACTCTTGAGACGG
1 TTTCCTTGAAACAAAGTTTTGTCACTCTTGAGACGG
* *
76782 TTTCTCTTAAAACAAA-TTTTGTCTCTCTTGAGACGG
1 TTTC-CTTGAAACAAAGTTTTGTCACTCTTGAGACGG
76818 TTTCCCTTGAAACAAA
1 TTT-CCTTGAAACAAA
76834 AACTTTGAAT
Statistics
Matches: 47, Mismatches: 3, Indels: 4
0.87 0.06 0.07
Matches are distributed among these distances:
36 36 0.77
37 11 0.23
ACGTcount: A:0.27, C:0.20, G:0.15, T:0.38
Consensus pattern (36 bp):
TTTCCTTGAAACAAAGTTTTGTCACTCTTGAGACGG
Found at i:76828 original size:102 final size:102
Alignment explanation
Indices: 76652--76917 Score: 478
Period size: 102 Copynumber: 2.6 Consensus size: 102
76642 AATTTACTCA
*
76652 AAACAAAGTTTTGTCTCTCTTGAGACGGTTTCTCTTAAAACAAATTTTTTCTCTCTTGAGACGAT
1 AAACAAAGTTTTGTCTCTCTTGAGACGGTTTCTCTTAAAACAAATTTTGTCTCTCTTGAGACGAT
76717 TTCCCTTGAAACAAAAACTTTGAATTTGTTTTCCTTG
66 TTCCCTTGAAACAAAAACTTTGAATTTGTTTTCCTTG
* *
76754 AAACAAAGTTTTGTCACTCTTGAGACGGTTTCTCTTAAAACAAATTTTGTCTCTCTTGAGACGGT
1 AAACAAAGTTTTGTCTCTCTTGAGACGGTTTCTCTTAAAACAAATTTTGTCTCTCTTGAGACGAT
76819 TTCCCTTGAAACAAAAACTTTGAATTTGTTTTCCTTG
66 TTCCCTTGAAACAAAAACTTTGAATTTGTTTTCCTTG
* * *
76856 AAACAAAGTTTTGTCTCTCTTGAGACAGTTTCTTTTAAAACAAATTTTGTCTCTCTTAAGAC
1 AAACAAAGTTTTGTCTCTCTTGAGACGGTTTCTCTTAAAACAAATTTTGTCTCTCTTGAGAC
76918 ATTAAATATT
Statistics
Matches: 157, Mismatches: 7, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
102 157 1.00
ACGTcount: A:0.28, C:0.18, G:0.13, T:0.40
Consensus pattern (102 bp):
AAACAAAGTTTTGTCTCTCTTGAGACGGTTTCTCTTAAAACAAATTTTGTCTCTCTTGAGACGAT
TTCCCTTGAAACAAAAACTTTGAATTTGTTTTCCTTG
Found at i:77483 original size:324 final size:327
Alignment explanation
Indices: 76956--77607 Score: 1116
Period size: 324 Copynumber: 2.0 Consensus size: 327
76946 TGGGAGGAGA
* * *
76956 AGAAATTACACAAAAAAAAAATAGTGAGAAAAACACACAAATATTACGAGCAAAATCGGAAAATA
1 AGAAATTACAC-AAAAAAAAATAGTAAGAAAAACACACAAATATTACGAGCAAAATCGAAAAACA
*
77021 AGCCTTGTAATTTCTCGAAGTTAAATAAAGAGAAAATGTATACTTTTTACCTATTTGTCTTTCAG
65 AGCCTTGTAATTTCTCGAAGTTAAATAAAGAGAAAAAGTATACTTTTTACCTATTTGTCTTTCAG
*
77086 TTGTTTGCATGTAGTCTTCTTTGCCCTTTGATTCGAAAAGAAACCAAACAAAAAACATTTTGAGC
130 TTGCTTGCATGTAGTCTTCTTTGCCCTTTGATTCGAAAAGAAACCAAACAAAAAACATTTTGAGC
* *
77151 TAATGATCAAAAGTGAGTTTTTGAAATTTTAATTTCATATCTATGCTCCCCAGAGG-CTTTTTTG
195 TAATGATCAAAAGTGAGTTTTCGAAATTTTAATTTCATATCTACGCTCCCCAGAGGTCTTTTTTG
* * *
77215 C-AGAAACAAAACACATATTTAAACTGAGGGAATGAAGGGCTTTT-AAAAATCAAACGTTTTTTG
260 CGA-AAACAAAACACATATTTAAACTGAGGGAATAAAGAGATTTTAAAAAATCAAACGTTTTTTG
77278 AGTT
324 AGTT
*
77282 AGAAATTACAC-GAAAAAAATAGTAAGAAAAACACACAAATATTACGAGCAAAATCGAAAAACAA
1 AGAAATTACACAAAAAAAAATAGTAAGAAAAACACACAAATATTACGAGCAAAATCGAAAAACAA
77346 GCCTTGTAATTTCTCGAAGTTAAATAAAGAGAAAAAGTATACTTTTTTACCTATTTGTCTTTCAG
66 GCCTTGTAATTTCTCGAAGTTAAATAAAGAGAAAAAGTATAC-TTTTTACCTATTTGTCTTTCAG
*
77411 TTGCTTGCATGTAGTCTTCTTTGCCCTTTGATTCGAAAAGAAACCAAACAAAAAA-GTTTTGAGC
130 TTGCTTGCATGTAGTCTTCTTTGCCCTTTGATTCGAAAAGAAACCAAACAAAAAACATTTTGAGC
*
77475 TAATGATCAAAAGTGAGTTTTCGAAATTTTAATTTCATATCTACGCTCCCCAGAGGTTTTTTTTG
195 TAATGATCAAAAGTGAGTTTTCGAAATTTTAATTTCATATCTACGCTCCCCAGAGGTCTTTTTTG
*
77540 CGAAAACAAAACACGTATTTAAACTGAGGGAATAAAGAGATTTTAAAAAATCAAACGTTTTTTGA
260 CGAAAACAAAACACATATTTAAACTGAGGGAATAAAGAGATTTTAAAAAATCAAACGTTTTTTGA
77605 GTT
325 GTT
77608 TCGCCGCCGA
Statistics
Matches: 308, Mismatches: 14, Indels: 8
0.93 0.04 0.02
Matches are distributed among these distances:
324 152 0.49
325 121 0.39
326 35 0.11
ACGTcount: A:0.40, C:0.14, G:0.15, T:0.31
Consensus pattern (327 bp):
AGAAATTACACAAAAAAAAATAGTAAGAAAAACACACAAATATTACGAGCAAAATCGAAAAACAA
GCCTTGTAATTTCTCGAAGTTAAATAAAGAGAAAAAGTATACTTTTTACCTATTTGTCTTTCAGT
TGCTTGCATGTAGTCTTCTTTGCCCTTTGATTCGAAAAGAAACCAAACAAAAAACATTTTGAGCT
AATGATCAAAAGTGAGTTTTCGAAATTTTAATTTCATATCTACGCTCCCCAGAGGTCTTTTTTGC
GAAAACAAAACACATATTTAAACTGAGGGAATAAAGAGATTTTAAAAAATCAAACGTTTTTTGAG
TT
Found at i:78164 original size:37 final size:36
Alignment explanation
Indices: 78094--78165 Score: 83
Period size: 37 Copynumber: 1.9 Consensus size: 36
78084 TTTAACTATA
* *
78094 TTTTCTATTTTATTTTTTATATTTCTTTATTTTTAG
1 TTTTCTATTTTATTTTTTATATTACTCTATTTTTAG
*
78130 TTTTCTA-TTTATTTATATTATATTACTACTTTTTTT
1 TTTTCTATTTTATTT-T-TTATATTACT-CTATTTTT
78166 TATTTATTGT
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
35 7 0.23
36 8 0.27
37 9 0.30
38 6 0.20
ACGTcount: A:0.19, C:0.07, G:0.01, T:0.72
Consensus pattern (36 bp):
TTTTCTATTTTATTTTTTATATTACTCTATTTTTAG
Found at i:78281 original size:4 final size:4
Alignment explanation
Indices: 78237--78261 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
78227 CTTTTTATAT
78237 TTTA TTTA TTTA TTTA TTTA TTTA T
1 TTTA TTTA TTTA TTTA TTTA TTTA T
78262 CTTTCTTCCT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 21 1.00
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (4 bp):
TTTA
Found at i:78341 original size:12 final size:12
Alignment explanation
Indices: 78326--78358 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
78316 GTTTTATTCA
78326 TTTTTTTTA-TT
1 TTTTTTTTATTT
78337 TTTTTTTTATTT
1 TTTTTTTTATTT
*
78349 TTTTCTTTAT
1 TTTTTTTTAT
78359 GTCATTTGTT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
11 9 0.45
12 11 0.55
ACGTcount: A:0.09, C:0.03, G:0.00, T:0.88
Consensus pattern (12 bp):
TTTTTTTTATTT
Found at i:78352 original size:11 final size:11
Alignment explanation
Indices: 78326--78358 Score: 57
Period size: 11 Copynumber: 2.9 Consensus size: 11
78316 GTTTTATTCA
78326 TTTTTTTTATT
1 TTTTTTTTATT
78337 TTTTTTTTATT
1 TTTTTTTTATT
78348 TTTTTCTTTAT
1 TTTTT-TTTAT
78359 GTCATTTGTT
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 16 0.76
12 5 0.24
ACGTcount: A:0.09, C:0.03, G:0.00, T:0.88
Consensus pattern (11 bp):
TTTTTTTTATT
Found at i:82389 original size:20 final size:20
Alignment explanation
Indices: 82364--82406 Score: 61
Period size: 20 Copynumber: 2.1 Consensus size: 20
82354 AGGCTTTGTT
*
82364 TGGGT-AATGGGTATTGTAAA
1 TGGGTAAATGGATA-TGTAAA
82384 TGGGTAAATGGATATGTAAA
1 TGGGTAAATGGATATGTAAA
82404 TGG
1 TGG
82407 TTTGGGTAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 14 0.67
21 7 0.33
ACGTcount: A:0.33, C:0.00, G:0.35, T:0.33
Consensus pattern (20 bp):
TGGGTAAATGGATATGTAAA
Found at i:86768 original size:17 final size:18
Alignment explanation
Indices: 86746--86784 Score: 53
Period size: 19 Copynumber: 2.2 Consensus size: 18
86736 CCGTTATAAG
*
86746 ACTTA-GTGCATCGGTAC
1 ACTTAGGTGAATCGGTAC
86763 ACTTAGGGTGAATCGGTAC
1 ACTTA-GGTGAATCGGTAC
86782 ACT
1 ACT
86785 AATTACATTC
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 5 0.26
19 14 0.74
ACGTcount: A:0.26, C:0.21, G:0.26, T:0.28
Consensus pattern (18 bp):
ACTTAGGTGAATCGGTAC
Found at i:86896 original size:84 final size:84
Alignment explanation
Indices: 86755--86932 Score: 311
Period size: 84 Copynumber: 2.1 Consensus size: 84
86745 GACTTAGTGC
86755 ATCGGTACACTTAGGGTGAATCGGTACACTAATTACATTCGATGTTTCAAAAGAGCCAGGAGTGC
1 ATCGGTACACTTAGGGTGAATCGGTACACTAATTACATTCGATGTTTCAAAAGAGCCAGGAGTGC
86820 ATCGATGCATGGTCTGTGA
66 ATCGATGCATGGTCTGTGA
* *
86839 ATCGGTACACTTGGGGTGCATCGGTACACTAATTACATTCGATGTTTCAAAAGAGCCAGGAGTGC
1 ATCGGTACACTTAGGGTGAATCGGTACACTAATTACATTCGATGTTTCAAAAGAGCCAGGAGTGC
* *
86904 TTCGATGCATGGTCTGTGC
66 ATCGATGCATGGTCTGTGA
*
86923 ATCGTTACAC
1 ATCGGTACAC
86933 AAAATGCATT
Statistics
Matches: 89, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
84 89 1.00
ACGTcount: A:0.26, C:0.20, G:0.26, T:0.28
Consensus pattern (84 bp):
ATCGGTACACTTAGGGTGAATCGGTACACTAATTACATTCGATGTTTCAAAAGAGCCAGGAGTGC
ATCGATGCATGGTCTGTGA
Found at i:86967 original size:65 final size:63
Alignment explanation
Indices: 86854--87009 Score: 179
Period size: 65 Copynumber: 2.4 Consensus size: 63
86844 TACACTTGGG
* * * * * *
86854 GTGCATCGGTACACTAATTACATTCGATGTTTCAAAAGAGCCAGGAGTGCTTCGATGCATGGTCT
1 GTGCATC-GTACACAAAATGCATTCGATGTTTCAAAAGAGCCAAGAGTGCATCGATGCATGAT-T
***
86919 GTGCATCGTTACACAAAATGCATTCGATGTTTCAATAA-ATTGAAGAGTGCATCGATGCATGATT
1 GTGCATCG-TACACAAAATGCATTCGATGTTTCAA-AAGAGCCAAGAGTGCATCGATGCATGATT
86983 GTGCATCAGTACACAAAATGCATTCGA
1 GTGCATC-GTACACAAAATGCATTCGA
87010 AAGAGGGTGT
Statistics
Matches: 79, Mismatches: 9, Indels: 7
0.83 0.09 0.07
Matches are distributed among these distances:
64 27 0.34
65 50 0.63
66 2 0.03
ACGTcount: A:0.31, C:0.19, G:0.22, T:0.29
Consensus pattern (63 bp):
GTGCATCGTACACAAAATGCATTCGATGTTTCAAAAGAGCCAAGAGTGCATCGATGCATGATT
Found at i:92571 original size:22 final size:21
Alignment explanation
Indices: 92529--92568 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
92519 GAGATTATTT
*
92529 TCATTTTTTAATTTTGAAATA
1 TCATTTTTTAATTTTAAAATA
92550 TCATTTTTGT-ATTTTAAAA
1 TCATTTTT-TAATTTTAAAA
92569 ATAATTTCTC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
21 16 0.94
22 1 0.06
ACGTcount: A:0.33, C:0.05, G:0.05, T:0.57
Consensus pattern (21 bp):
TCATTTTTTAATTTTAAAATA
Found at i:94545 original size:65 final size:64
Alignment explanation
Indices: 94471--94623 Score: 200
Period size: 65 Copynumber: 2.4 Consensus size: 64
94461 ACACTTGGGA
* * * *
94471 TGCATCGGTACACTAATTACATTCGATGTTTCAA-AAGAGCCAGGAGTGCACCGATGCATGGTTT
1 TGCATCGGTACACAAAATACATTCGATGTTTCAATAA-AGCCAAGAGTGCACCGATGCATGG-CT
94535 G
64 G
* ** *
94536 TGCATCGGTACACAAAATGCATTCGATGTTTCAATAAATTCAAGAGTGCATCGATGCATGGCTG
1 TGCATCGGTACACAAAATACATTCGATGTTTCAATAAAGCCAAGAGTGCACCGATGCATGGCTG
*
94600 TGCATCGGTACACAAAATGCATTC
1 TGCATCGGTACACAAAATACATTC
94624 AAAATAGGGT
Statistics
Matches: 79, Mismatches: 8, Indels: 3
0.88 0.09 0.03
Matches are distributed among these distances:
64 26 0.33
65 51 0.65
66 2 0.03
ACGTcount: A:0.30, C:0.20, G:0.22, T:0.27
Consensus pattern (64 bp):
TGCATCGGTACACAAAATACATTCGATGTTTCAATAAAGCCAAGAGTGCACCGATGCATGGCTG
Done.