Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01003217.1 Hibiscus syriacus cultivar Beakdansim tig00006778_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: 150096
ACGTcount: A:0.32, C:0.18, G:0.17, T:0.33
Found at i:3313 original size:27 final size:28
Alignment explanation
Indices: 3278--3333 Score: 80
Period size: 27 Copynumber: 2.0 Consensus size: 28
3268 TTCACAGAAA
*
3278 ATTAGAAAATAAAA-TCAATAA-GTAAAT
1 ATTAAAAAATAAAATTC-ATAACGTAAAT
3305 ATTAAAAAATAAAATTCATAACGTAAAT
1 ATTAAAAAATAAAATTCATAACGTAAAT
3333 A
1 A
3334 CTTTATAGAA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
27 17 0.65
28 9 0.35
ACGTcount: A:0.62, C:0.05, G:0.05, T:0.27
Consensus pattern (28 bp):
ATTAAAAAATAAAATTCATAACGTAAAT
Found at i:4673 original size:175 final size:175
Alignment explanation
Indices: 4384--4911 Score: 843
Period size: 175 Copynumber: 3.0 Consensus size: 175
4374 AAATTAAATG
* * *
4384 TTTTTTAATTCAAAAAA-AGTTTATAATTAATTTAAAT-A-ATATAATTATAAAAT-AAAAATTT
1 TTTTTTAATT-AAAAAACAATTTAAAATTAATTTAAATAATATATAATTATAAAATAAAAAAATT
* **
4445 CAGATAAAATTTTTAATTAATTAATATTGATTTAGGTTTAAAAGTTATTGGATCTTAAATTATTA
65 -ATATAATTTTTTTAATTAATTAATATTGATTTAGGTTTAAAAGTTATTGGATCTTAAATTATTA
*
4510 ATTGGGTTTTAAATGGTTTGGGCTGAGCCCATATGTTATATATAATA
129 ATTGGGTTTTAAATGGTTTGGGATGAGCCCATATGTTATATATAATA
*
4557 TTTTTTAATTAAAAAACAATTTACAATTAATTTAAATAATATATAATTATAAAATAAAAAAATTA
1 TTTTTTAATTAAAAAACAATTTAAAATTAATTTAAATAATATATAATTATAAAATAAAAAAATTA
4622 TATAATTTTTTTAATTAATTAATATTGATTTAGGTTTAAAAGTTATTGGATCTTAAATTATTAAT
66 TATAATTTTTTTAATTAATTAATATTGATTTAGGTTTAAAAGTTATTGGATCTTAAATTATTAAT
*
4687 TGGGTTTTAAATGGTTTGGAATGAGCCCATATGTTATATATATATATA
131 TGGGTTTTAAATGGTTTGGGATGAGCCCATATG-T-TATATATA-ATA
4735 TTTTTTTTAATTAAAAAACAATTTAAAATTAATTT-AA-AATATATAATTATAAAATAAAAAAAA
1 --TTTTTTAATTAAAAAACAATTTAAAATTAATTTAAATAATATATAATTATAAAAT-AAAAAAA
* *
4798 TTATATAATTTTTTTAATTAATTAATATTGATTTAAGTTTAAAAGTTATTGGGTCTTAAATTATT
63 TTATATAATTTTTTTAATTAATTAATATTGATTTAGGTTTAAAAGTTATTGGATCTTAAATTATT
4863 AATTGGGTTTTAAATGGTTTGGGATGAGCCCATATGTTATATATAATA
128 AATTGGGTTTTAAATGGTTTGGGATGAGCCCATATGTTATATATAATA
4911 T
1 T
4912 ATTTAAAATT
Statistics
Matches: 333, Mismatches: 12, Indels: 19
0.91 0.03 0.05
Matches are distributed among these distances:
172 6 0.02
173 28 0.08
174 2 0.01
175 109 0.33
176 11 0.03
177 16 0.05
178 22 0.07
179 107 0.32
180 32 0.10
ACGTcount: A:0.42, C:0.03, G:0.10, T:0.45
Consensus pattern (175 bp):
TTTTTTAATTAAAAAACAATTTAAAATTAATTTAAATAATATATAATTATAAAATAAAAAAATTA
TATAATTTTTTTAATTAATTAATATTGATTTAGGTTTAAAAGTTATTGGATCTTAAATTATTAAT
TGGGTTTTAAATGGTTTGGGATGAGCCCATATGTTATATATAATA
Found at i:4846 original size:179 final size:178
Alignment explanation
Indices: 4384--4915 Score: 848
Period size: 179 Copynumber: 3.0 Consensus size: 178
4374 AAATTAAATG
* * *
4384 TTTTTTAATTCAAAAAA-AGTTTATAATTAATTT-AAATAATATAATTATAAAAT-AAAAATTTC
1 TTTTTTAATT-AAAAAACAATTTAAAATTAATTTAAAAT-ATATAATTATAAAATAAAAAAATT-
* **
4446 AGATAAAATTTTTAATTAATTAATATTGATTTAGGTTTAAAAGTTATTGGATCTTAAATTATTAA
63 ATATAATTTTTTTAATTAATTAATATTGATTTAGGTTTAAAAGTTATTGGATCTTAAATTATTAA
*
4511 TTGGGTTTTAAATGGTTTGGGCTGAGCCCATATG-T-TATATATA-ATA--
128 TTGGGTTTTAAATGGTTTGGGATGAGCCCATATGTTATATATATATATATT
*
4557 TTTTTTAATTAAAAAACAATTTACAATTAATTTAAATAATATATAATTATAAAATAAAAAAATTA
1 TTTTTTAATTAAAAAACAATTTAAAATTAATTT-AA-AATATATAATTATAAAATAAAAAAATTA
4622 TATAATTTTTTTAATTAATTAATATTGATTTAGGTTTAAAAGTTATTGGATCTTAAATTATTAAT
64 TATAATTTTTTTAATTAATTAATATTGATTTAGGTTTAAAAGTTATTGGATCTTAAATTATTAAT
*
4687 TGGGTTTTAAATGGTTTGGAATGAGCCCATATGTTATATATATATATATT
129 TGGGTTTTAAATGGTTTGGGATGAGCCCATATGTTATATATATATATATT
4737 TTTTTTAATTAAAAAACAATTTAAAATTAATTTAAAATATATAATTATAAAATAAAAAAAATTAT
1 TTTTTTAATTAAAAAACAATTTAAAATTAATTTAAAATATATAATTATAAAAT-AAAAAAATTAT
* *
4802 ATAATTTTTTTAATTAATTAATATTGATTTAAGTTTAAAAGTTATTGGGTCTTAAATTATTAATT
65 ATAATTTTTTTAATTAATTAATATTGATTTAGGTTTAAAAGTTATTGGATCTTAAATTATTAATT
4867 GGGTTTTAAATGGTTTGGGATGAGCCCATATGTTATATATA-ATATATT
130 GGGTTTTAAATGGTTTGGGATGAGCCCATATGTTATATATATATATATT
4915 T
1 T
4916 AAAATTTAAT
Statistics
Matches: 336, Mismatches: 12, Indels: 17
0.92 0.03 0.05
Matches are distributed among these distances:
172 6 0.02
173 24 0.07
175 110 0.33
176 11 0.03
177 8 0.02
178 29 0.09
179 116 0.35
180 32 0.10
ACGTcount: A:0.42, C:0.03, G:0.10, T:0.45
Consensus pattern (178 bp):
TTTTTTAATTAAAAAACAATTTAAAATTAATTTAAAATATATAATTATAAAATAAAAAAATTATA
TAATTTTTTTAATTAATTAATATTGATTTAGGTTTAAAAGTTATTGGATCTTAAATTATTAATTG
GGTTTTAAATGGTTTGGGATGAGCCCATATGTTATATATATATATATT
Found at i:5364 original size:2 final size:2
Alignment explanation
Indices: 5357--5388 Score: 55
Period size: 2 Copynumber: 16.0 Consensus size: 2
5347 ATTTTACCTT
*
5357 TA TA TA TA TA TA TA TA AA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
5389 ATACTCTTAG
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (2 bp):
TA
Found at i:11416 original size:23 final size:23
Alignment explanation
Indices: 11390--11441 Score: 77
Period size: 23 Copynumber: 2.3 Consensus size: 23
11380 TTGCGAGGCA
11390 TTTTTCTTTGACTTTGTAACACG
1 TTTTTCTTTGACTTTGTAACACG
* * *
11413 TTTTTATTTGCCTTTGTGACACG
1 TTTTTCTTTGACTTTGTAACACG
11436 TTTTTC
1 TTTTTC
11442 ACTTTTTTTC
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.13, C:0.17, G:0.13, T:0.56
Consensus pattern (23 bp):
TTTTTCTTTGACTTTGTAACACG
Found at i:13539 original size:34 final size:34
Alignment explanation
Indices: 13474--13567 Score: 95
Period size: 34 Copynumber: 2.8 Consensus size: 34
13464 ATAATATATA
* * *
13474 TTTAAATTTAAATAGTAAAATATGACT-TTATCT-
1 TTTAAATTTAAATATTAAAAGAT-ATTATTATCTG
* *
13507 TTTGAAGATTTCAA-ATTAAAATATATTATTATCTG
1 TTT-AA-ATTTAAATATTAAAAGATATTATTATCTG
13542 TTTAAATTTAAATATTAAAAGATATT
1 TTTAAATTTAAATATTAAAAGATATT
13568 TAGTTGGAGT
Statistics
Matches: 51, Mismatches: 5, Indels: 9
0.78 0.08 0.14
Matches are distributed among these distances:
33 11 0.22
34 31 0.61
35 9 0.18
ACGTcount: A:0.44, C:0.04, G:0.06, T:0.46
Consensus pattern (34 bp):
TTTAAATTTAAATATTAAAAGATATTATTATCTG
Found at i:14175 original size:20 final size:19
Alignment explanation
Indices: 14134--14192 Score: 59
Period size: 18 Copynumber: 3.2 Consensus size: 19
14124 GTCCAACAAT
*
14134 TAATATTT-AATTTATTAA
1 TAATATTTAAAATTATTAA
*
14152 TAATATTTAAAATTATATAC
1 TAATATTTAAAATTAT-TAA
* *
14172 TAATATAT-AAAGTATTAA
1 TAATATTTAAAATTATTAA
14190 TAA
1 TAA
14193 GAAATCCAAA
Statistics
Matches: 34, Mismatches: 5, Indels: 4
0.79 0.12 0.09
Matches are distributed among these distances:
18 13 0.38
19 12 0.35
20 9 0.26
ACGTcount: A:0.51, C:0.02, G:0.02, T:0.46
Consensus pattern (19 bp):
TAATATTTAAAATTATTAA
Found at i:16049 original size:30 final size:30
Alignment explanation
Indices: 16006--16064 Score: 91
Period size: 30 Copynumber: 2.0 Consensus size: 30
15996 TTAAATTCTC
* *
16006 TTATTAATAACCTTTTTCCTTATTTTTTAA
1 TTATAAATAACCTTTGTCCTTATTTTTTAA
*
16036 TTATAAATTACCTTTGTCCTTATTTTTTA
1 TTATAAATAACCTTTGTCCTTATTTTTTA
16065 TTTTTAAAAT
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.25, C:0.14, G:0.02, T:0.59
Consensus pattern (30 bp):
TTATAAATAACCTTTGTCCTTATTTTTTAA
Found at i:18393 original size:29 final size:30
Alignment explanation
Indices: 18345--18445 Score: 96
Period size: 29 Copynumber: 3.3 Consensus size: 30
18335 AAACTCAAAA
* * *
18345 TGTATATTTTTTATTAATTGAATGATTTGTT
1 TGTA-ATTTATTAATAATTGAATGATTTATT
* * * *
18376 TGTGATTTTTTGA-AATTGAATGATCTATT
1 TGTAATTTATTAATAATTGAATGATTTATT
* *
18405 TGTAATTTATTAATAATTGGATGATTTATGA
1 TGTAATTTATTAATAATTGAATGATTTAT-T
18436 TGTAATTTAT
1 TGTAATTTAT
18446 CCGAAGAAAA
Statistics
Matches: 57, Mismatches: 11, Indels: 4
0.79 0.15 0.06
Matches are distributed among these distances:
29 24 0.42
30 20 0.35
31 13 0.23
ACGTcount: A:0.30, C:0.01, G:0.15, T:0.54
Consensus pattern (30 bp):
TGTAATTTATTAATAATTGAATGATTTATT
Found at i:28553 original size:21 final size:21
Alignment explanation
Indices: 28490--28555 Score: 96
Period size: 21 Copynumber: 3.1 Consensus size: 21
28480 TGAAAAGGAT
*
28490 CATGCGTTGAATTCAATGGAC
1 CATGCGTTGAATTCAATGGAG
* *
28511 CATGCGTTGAATTAAATTGAG
1 CATGCGTTGAATTCAATGGAG
*
28532 CATGCATTGAATTCAATGGAG
1 CATGCGTTGAATTCAATGGAG
28553 CAT
1 CAT
28556 CACACGTTGA
Statistics
Matches: 39, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 39 1.00
ACGTcount: A:0.32, C:0.15, G:0.23, T:0.30
Consensus pattern (21 bp):
CATGCGTTGAATTCAATGGAG
Found at i:38823 original size:14 final size:14
Alignment explanation
Indices: 38804--38832 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
38794 CTTCCAACTG
38804 TATGTATATATATA
1 TATGTATATATATA
38818 TATGTATATATATA
1 TATGTATATATATA
38832 T
1 T
38833 CTTTAATTTG
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:0.41, C:0.00, G:0.07, T:0.52
Consensus pattern (14 bp):
TATGTATATATATA
Found at i:41763 original size:11 final size:11
Alignment explanation
Indices: 41747--41771 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
41737 ATAAAAAATA
41747 CCCCTTAGCAG
1 CCCCTTAGCAG
41758 CCCCTTAGCAG
1 CCCCTTAGCAG
41769 CCC
1 CCC
41772 ATGTTTTTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.16, C:0.52, G:0.16, T:0.16
Consensus pattern (11 bp):
CCCCTTAGCAG
Found at i:45090 original size:15 final size:16
Alignment explanation
Indices: 45062--45093 Score: 57
Period size: 15 Copynumber: 2.1 Consensus size: 16
45052 AAAATCTTTC
45062 TTTCCCGTTCTGGATT
1 TTTCCCGTTCTGGATT
45078 TTTCCCG-TCTGGATT
1 TTTCCCGTTCTGGATT
45093 T
1 T
45094 GGATCTGCCA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 9 0.56
16 7 0.44
ACGTcount: A:0.06, C:0.25, G:0.19, T:0.50
Consensus pattern (16 bp):
TTTCCCGTTCTGGATT
Found at i:45868 original size:16 final size:16
Alignment explanation
Indices: 45844--45877 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
45834 TATCGCCGAC
*
45844 CGAATTTCACTATTCA
1 CGAAATTCACTATTCA
45860 CGAAATTCACTATTCA
1 CGAAATTCACTATTCA
45876 CG
1 CG
45878 TGAATAGTAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.32, C:0.26, G:0.09, T:0.32
Consensus pattern (16 bp):
CGAAATTCACTATTCA
Found at i:47500 original size:3 final size:3
Alignment explanation
Indices: 47489--47531 Score: 70
Period size: 3 Copynumber: 14.3 Consensus size: 3
47479 TTTTTTATCG
47489 TTA TT- TTA TTA TTA TTA TTA TTA TTA TTA TTTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA -TTA TTA TTA TTA T
47532 GTTTATTAAT
Statistics
Matches: 38, Mismatches: 0, Indels: 4
0.90 0.00 0.10
Matches are distributed among these distances:
2 2 0.05
3 33 0.87
4 3 0.08
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (3 bp):
TTA
Found at i:47538 original size:19 final size:19
Alignment explanation
Indices: 47489--47531 Score: 72
Period size: 19 Copynumber: 2.4 Consensus size: 19
47479 TTTTTTATCG
47489 TTATT-TTATTA-TTATTA
1 TTATTATTATTATTTATTA
47506 TTATTATTATTATTTATTA
1 TTATTATTATTATTTATTA
47525 TTATTAT
1 TTATTAT
47532 GTTTATTAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
17 5 0.21
18 6 0.25
19 13 0.54
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (19 bp):
TTATTATTATTATTTATTA
Found at i:47628 original size:25 final size:25
Alignment explanation
Indices: 47599--47673 Score: 150
Period size: 25 Copynumber: 3.0 Consensus size: 25
47589 CAATCAACCC
47599 ATCAGATTAGGGTTTCAAACCCTAA
1 ATCAGATTAGGGTTTCAAACCCTAA
47624 ATCAGATTAGGGTTTCAAACCCTAA
1 ATCAGATTAGGGTTTCAAACCCTAA
47649 ATCAGATTAGGGTTTCAAACCCTAA
1 ATCAGATTAGGGTTTCAAACCCTAA
47674 TCCCCTAAAT
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 50 1.00
ACGTcount: A:0.36, C:0.20, G:0.16, T:0.28
Consensus pattern (25 bp):
ATCAGATTAGGGTTTCAAACCCTAA
Found at i:51661 original size:31 final size:32
Alignment explanation
Indices: 51625--51686 Score: 117
Period size: 32 Copynumber: 2.0 Consensus size: 32
51615 ATTTTACATG
51625 TACTAACTTATTT-TTCTCTTTTGTTTGTGTA
1 TACTAACTTATTTCTTCTCTTTTGTTTGTGTA
51656 TACTAACTTATTTCTTCTCTTTTGTTTGTGT
1 TACTAACTTATTTCTTCTCTTTTGTTTGTGT
51687 CATTTTGTCA
Statistics
Matches: 30, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
31 13 0.43
32 17 0.57
ACGTcount: A:0.15, C:0.15, G:0.10, T:0.61
Consensus pattern (32 bp):
TACTAACTTATTTCTTCTCTTTTGTTTGTGTA
Found at i:54123 original size:26 final size:25
Alignment explanation
Indices: 54094--54171 Score: 76
Period size: 26 Copynumber: 3.2 Consensus size: 25
54084 AATTTTTGAC
54094 ATTCTATCTCTTTGAGACCTTGAAAT
1 ATTCT-TCTCTTTGAGACCTTGAAAT
* *
54120 A---TTCT-TTT-CGACCTTGAAAC
1 ATTCTTCTCTTTGAGACCTTGAAAT
*
54140 ATTCCCTCTCTTTGAGACCTTGAAAT
1 ATT-CTTCTCTTTGAGACCTTGAAAT
54166 ATTCTT
1 ATTCTT
54172 TCCACCTTGA
Statistics
Matches: 40, Mismatches: 6, Indels: 13
0.68 0.10 0.22
Matches are distributed among these distances:
20 11 0.28
21 3 0.08
22 3 0.08
23 1 0.03
24 3 0.08
25 5 0.12
26 14 0.35
ACGTcount: A:0.24, C:0.23, G:0.10, T:0.42
Consensus pattern (25 bp):
ATTCTTCTCTTTGAGACCTTGAAAT
Found at i:54132 original size:20 final size:20
Alignment explanation
Indices: 54109--54183 Score: 62
Period size: 20 Copynumber: 3.5 Consensus size: 20
54099 ATCTCTTTGA
54109 GACCTTGAAATATTCTTTTC
1 GACCTTGAAATATTCTTTTC
* *
54129 GACCTTGAAACATTCCCTCTCTTTGA
1 GACCTTGAAATA-T---TCT-TTT-C
54155 GACCTTGAAATATTC-TTTC
1 GACCTTGAAATATTCTTTTC
*
54174 CACCTTGAAA
1 GACCTTGAAA
54184 CACTGTATTT
Statistics
Matches: 44, Mismatches: 5, Indels: 13
0.71 0.08 0.21
Matches are distributed among these distances:
19 9 0.20
20 14 0.32
21 1 0.02
22 2 0.05
24 3 0.07
25 4 0.09
26 11 0.25
ACGTcount: A:0.27, C:0.25, G:0.11, T:0.37
Consensus pattern (20 bp):
GACCTTGAAATATTCTTTTC
Found at i:56017 original size:4 final size:4
Alignment explanation
Indices: 56008--56039 Score: 50
Period size: 4 Copynumber: 8.5 Consensus size: 4
55998 AGAAAAGTAT
56008 ATAC ATAC ATAC --AC ATAC ATAC ATAC ATAC AT
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC AT
56040 GATACATAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
2 2 0.08
4 24 0.92
ACGTcount: A:0.50, C:0.25, G:0.00, T:0.25
Consensus pattern (4 bp):
ATAC
Found at i:56027 original size:14 final size:14
Alignment explanation
Indices: 56008--56034 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
55998 AGAAAAGTAT
56008 ATACATACATACAC
1 ATACATACATACAC
56022 ATACATACATACA
1 ATACATACATACA
56035 TACATGATAC
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:0.52, C:0.26, G:0.00, T:0.22
Consensus pattern (14 bp):
ATACATACATACAC
Found at i:56427 original size:36 final size:36
Alignment explanation
Indices: 56364--56472 Score: 121
Period size: 38 Copynumber: 2.9 Consensus size: 36
56354 ATCTTATTAA
* * * *
56364 AAAAACAAAGTGTCGTCTCACTAGAGACAGTTTTCTT
1 AAAAACAAA-TGTTGTCTCGCTTGAGACACTTTTCTT
56401 AAAAACAAATGTTGTCTCGCTTGAGACAACTTTCTCTT
1 AAAAACAAATGTTGTCTCGCTTGAGAC-ACTTT-TCTT
* *
56439 TAAAACAAAT-TATGTCTCGCTTGAGACATTTTTC
1 AAAAACAAATGT-TGTCTCGCTTGAGACACTTTTC
56473 CACAAACTTT
Statistics
Matches: 63, Mismatches: 6, Indels: 7
0.83 0.08 0.09
Matches are distributed among these distances:
36 17 0.27
37 18 0.29
38 28 0.44
ACGTcount: A:0.33, C:0.19, G:0.14, T:0.34
Consensus pattern (36 bp):
AAAAACAAATGTTGTCTCGCTTGAGACACTTTTCTT
Found at i:56557 original size:91 final size:94
Alignment explanation
Indices: 56394--56562 Score: 238
Period size: 91 Copynumber: 1.8 Consensus size: 94
56384 CTAGAGACAG
* * * *
56394 TTTTCTTAAAAACAAATGTTGTCTCGCTTGAGACAACTTTCTCTTTAAAACAAATTATGTCTCGC
1 TTTTCTTAAAAACAAATGTTGTCTCGCTTAAGACAACTTTATCTTCAAAACAAATTATGTCTCAC
56459 TTGAGACATTTTTCCACAAACTTTGAGAT
66 TTGAGACATTTTTCCACAAACTTTGAGAT
* *
56488 TTTTC-TAAAAACAAATTTTGTCTCGCTTAAGGCAA-TTTAT-TTCAAAACAAATT-TCGTCTCA
1 TTTTCTTAAAAACAAATGTTGTCTCGCTTAAGACAACTTTATCTTCAAAACAAATTAT-GTCTCA
*
56549 TTTGAGACATTTTT
65 CTTGAGACATTTTT
56563 TCCTTTGAGA
Statistics
Matches: 67, Mismatches: 7, Indels: 5
0.85 0.09 0.06
Matches are distributed among these distances:
90 1 0.01
91 30 0.45
92 4 0.06
93 27 0.40
94 5 0.07
ACGTcount: A:0.31, C:0.18, G:0.11, T:0.40
Consensus pattern (94 bp):
TTTTCTTAAAAACAAATGTTGTCTCGCTTAAGACAACTTTATCTTCAAAACAAATTATGTCTCAC
TTGAGACATTTTTCCACAAACTTTGAGAT
Found at i:56681 original size:30 final size:30
Alignment explanation
Indices: 56647--56705 Score: 109
Period size: 30 Copynumber: 2.0 Consensus size: 30
56637 AAACAAAATT
56647 TTTGTCTCACTTGAGATCGTTTTCACAAAC
1 TTTGTCTCACTTGAGATCGTTTTCACAAAC
*
56677 TTTGTCTCACTTGAGATCGTTTTCTCAAA
1 TTTGTCTCACTTGAGATCGTTTTCACAAA
56706 AAACAAACTT
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.22, C:0.22, G:0.14, T:0.42
Consensus pattern (30 bp):
TTTGTCTCACTTGAGATCGTTTTCACAAAC
Found at i:56744 original size:36 final size:36
Alignment explanation
Indices: 56671--56801 Score: 142
Period size: 36 Copynumber: 3.7 Consensus size: 36
56661 GATCGTTTTC
** *
56671 ACAAACTTTGTCTCACTTGAGATCGTTTTCTCAAAAA
1 ACAAACTTTGTCTCACTTGAGA-CAATTTCTCTAAAA
*
56708 ACAAACTTTGTCTCGCTTGAGACAATTTCTCTAAAA
1 ACAAACTTTGTCTCACTTGAGACAATTTCTCTAAAA
* * *
56744 ACAAACTTTGTCTCATTTGAGACTATATCT-T-AAA
1 ACAAACTTTGTCTCACTTGAGACAATTTCTCTAAAA
* *
56778 GCAAA-TTTCGTCTCGCTTGAGACA
1 ACAAACTTT-GTCTCACTTGAGACA
56802 TCATTTTCTC
Statistics
Matches: 81, Mismatches: 12, Indels: 5
0.83 0.12 0.05
Matches are distributed among these distances:
33 3 0.04
34 19 0.23
35 1 0.01
36 37 0.46
37 21 0.26
ACGTcount: A:0.32, C:0.21, G:0.12, T:0.34
Consensus pattern (36 bp):
ACAAACTTTGTCTCACTTGAGACAATTTCTCTAAAA
Found at i:57139 original size:30 final size:29
Alignment explanation
Indices: 57060--57148 Score: 128
Period size: 29 Copynumber: 3.1 Consensus size: 29
57050 CTCTTGAGAT
*
57060 AAATCTTTGAGTCTGTTCCTTTTGAATA-A
1 AAATCTTTGAGTCTGTTTCTTTTGAA-ACA
57089 AAATCTTTGAGT-TGTTTCTTTTGAAACA
1 AAATCTTTGAGTCTGTTTCTTTTGAAACA
*
57117 AATATCTTTGAGTCTATTTCTTTTGAAACA
1 AA-ATCTTTGAGTCTGTTTCTTTTGAAACA
57147 AA
1 AA
57149 GTTTTGTCTC
Statistics
Matches: 55, Mismatches: 2, Indels: 5
0.89 0.03 0.08
Matches are distributed among these distances:
27 1 0.02
28 15 0.27
29 22 0.40
30 17 0.31
ACGTcount: A:0.30, C:0.12, G:0.12, T:0.45
Consensus pattern (29 bp):
AAATCTTTGAGTCTGTTTCTTTTGAAACA
Found at i:57234 original size:1 final size:1
Alignment explanation
Indices: 57228--57252 Score: 50
Period size: 1 Copynumber: 25.0 Consensus size: 1
57218 ACAATTTTGT
57228 AAAAAAAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAA
57253 TTTGAGATTG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 24 1.00
ACGTcount: A:1.00, C:0.00, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:57348 original size:67 final size:66
Alignment explanation
Indices: 57273--57466 Score: 247
Period size: 67 Copynumber: 3.0 Consensus size: 66
57263 TTTCTTTTCG
*
57273 AAAAATCTTTGAGTTTGTTTCTTTGGAAACAAAATTTTGTCTCTCTTAAGATAGTTTCTTTTGAA
1 AAAAATCTTTGAGTTTGTTTCTTTGGAAACAAAATTTTGTATCTCTTAAGATAGTTTCTTTTGAA
57338 A
66 A
*
57339 CAAAAATCTTTGAGTTTGTTTCTTTGGAAACAAAA-TTT-TATCTCTTAAGATAATTTCTTTTG-
1 -AAAAATCTTTGAGTTTGTTTCTTTGGAAACAAAATTTTGTATCTCTTAAGATAGTTTCTTTTGA
57401 AA
65 AA
* * * * * *
57403 AAAAATCTTTGAATCTGTTTCTCTT--AAA-ATGAATTTTGTATCTCTTGAGACAGTTTCTCTTG
1 AAAAATCTTTGAGTTTGTTTCT-TTGGAAACA-AAATTTTGTATCTCTTAAGATAGTTTCTTTTG
57465 AA
64 AA
57467 GTAAATCTTT
Statistics
Matches: 113, Mismatches: 9, Indels: 12
0.84 0.07 0.09
Matches are distributed among these distances:
61 1 0.01
62 5 0.04
63 23 0.20
64 24 0.21
65 23 0.20
66 3 0.03
67 34 0.30
ACGTcount: A:0.31, C:0.12, G:0.12, T:0.45
Consensus pattern (66 bp):
AAAAATCTTTGAGTTTGTTTCTTTGGAAACAAAATTTTGTATCTCTTAAGATAGTTTCTTTTGAA
A
Found at i:58112 original size:40 final size:41
Alignment explanation
Indices: 58051--58506 Score: 263
Period size: 40 Copynumber: 10.7 Consensus size: 41
58041 TGGCCAGCCG
* * * *
58051 TCCTCATCATGTAGGAACCGTGTCATCCC-CAGACCAGAGC
1 TCCTCATCACGTAGGAGCCGTGTCATCCCTTAGACCAGATC
* * * *
58091 TCTTCATCACGTAGGAGCCGTGTCA-ACCATAGATAACCAG-CC
1 TCCTCATCACGTAGGAGCCGTGTCATCCCTTAG---ACCAGATC
* * *
58133 GTCCTCATCACGTAGGAACCGTGTTATCACCTTTAGATGGCCAGAAC
1 -TCCTCATCACGTAGGAGCCGTGTCATC-CC-TTAGA---CCAGATC
* * *
58180 TCTTCATCACGTATGAGCCGTGTCATCAGC-T-GACCAGATC
1 TCCTCATCACGTAGGAGCCGTGTCATC-CCTTAGACCAGATC
*
58220 TCCTCATCACGTAGGAGCCGTGTCA-CCCTTAGATAACCAG-CC
1 TCCTCATCACGTAGGAGCCGTGTCATCCCTTAG---ACCAGATC
* * *
58262 GTCCTCATCACGTAGGAACCGTGTTATCACCTTTAGATGGCCAGAAC
1 -TCCTCATCACGTAGGAGCCGTGTCATC-CC-TTAGA---CCAGATC
* * *
58309 TCTTCATCACGTATGAGCCGTGTCATCAGC-T-GACCAGATC
1 TCCTCATCACGTAGGAGCCGTGTCATC-CCTTAGACCAGATC
*
58349 TCCTCATCACGTAGGAGCCGTGTCA-CCCTTAGATAACCAG-CC
1 TCCTCATCACGTAGGAGCCGTGTCATCCCTTAG---ACCAGATC
* * *
58391 GTCCTCATCACGTAGGAACCGTATTATCACCTTTAGATGGCCAGATC
1 -TCCTCATCACGTAGGAGCCGTGTCATC-CC-TTAGA---CCAGATC
* * ** **
58438 TCTTCATCACGTATGAGCCGTGTC-TTTCTCCGACCAGATC
1 TCCTCATCACGTAGGAGCCGTGTCATCCCTTAGACCAGATC
* *
58478 TCTTCATCACGTATGAGCCGTGTCA-CCCT
1 TCCTCATCACGTAGGAGCCGTGTCATCCCT
58507 AGATAACCAG
Statistics
Matches: 327, Mismatches: 50, Indels: 78
0.72 0.11 0.17
Matches are distributed among these distances:
38 2 0.01
39 6 0.02
40 117 0.36
42 3 0.01
43 92 0.28
44 5 0.02
45 7 0.02
46 92 0.28
47 3 0.01
ACGTcount: A:0.24, C:0.31, G:0.20, T:0.25
Consensus pattern (41 bp):
TCCTCATCACGTAGGAGCCGTGTCATCCCTTAGACCAGATC
Found at i:58190 original size:46 final size:45
Alignment explanation
Indices: 58084--58578 Score: 319
Period size: 46 Copynumber: 11.4 Consensus size: 45
58074 CATCCCCAGA
* * * * **
58084 CCAGAGCTCTTCATCACGTAGGAGCCGTGTCA--ACCATAGATAA
1 CCAGATCTCCTCATCACGTAGGAGCCGTGTTATCACCTTAGATGG
* *
58127 CCAG-CCGTCCTCATCACGTAGGAACCGTGTTATCACCTTTAGATGG
1 CCAGATC-TCCTCATCACGTAGGAGCCGTGTTATCACC-TTAGATGG
* * * * *
58173 CCAGAACTCTTCATCACGTATGAGCCGTGTCATCAGC-T-GA---
1 CCAGATCTCCTCATCACGTAGGAGCCGTGTTATCACCTTAGATGG
* **
58213 CCAGATCTCCTCATCACGTAGGAGCCGTGTCA-C-CCTTAGATAA
1 CCAGATCTCCTCATCACGTAGGAGCCGTGTTATCACCTTAGATGG
* *
58256 CCAG-CCGTCCTCATCACGTAGGAACCGTGTTATCACCTTTAGATGG
1 CCAGATC-TCCTCATCACGTAGGAGCCGTGTTATCACC-TTAGATGG
* * * * *
58302 CCAGAACTCTTCATCACGTATGAGCCGTGTCATCAGC-T-GA---
1 CCAGATCTCCTCATCACGTAGGAGCCGTGTTATCACCTTAGATGG
* **
58342 CCAGATCTCCTCATCACGTAGGAGCCGTGTCA-C-CCTTAGATAA
1 CCAGATCTCCTCATCACGTAGGAGCCGTGTTATCACCTTAGATGG
* * *
58385 CCAG-CCGTCCTCATCACGTAGGAACCGTATTATCACCTTTAGATGG
1 CCAGATC-TCCTCATCACGTAGGAGCCGTGTTATCACC-TTAGATGG
* * * *
58431 CCAGATCTCTTCATCACGTATGAGCCGTGTCTTTCTCC---GA---
1 CCAGATCTCCTCATCACGTAGGAGCCGTGT-TATCACCTTAGATGG
* * * **
58471 CCAGATCTCTTCATCACGTATGAGCCGTG---TCACCCTAGATAA
1 CCAGATCTCCTCATCACGTAGGAGCCGTGTTATCACCTTAGATGG
* **
58513 CCAG-CCGTCCTCATCACGTAGGAATCGTGTTATCACCTTTAGATGG
1 CCAGATC-TCCTCATCACGTAGGAGCCGTGTTATCACC-TTAGATGG
* *
58559 CCAGAACTCTTCATCACGTA
1 CCAGATCTCCTCATCACGTA
58579 TGAACAGTGT
Statistics
Matches: 358, Mismatches: 56, Indels: 73
0.74 0.11 0.15
Matches are distributed among these distances:
36 4 0.01
38 2 0.01
39 6 0.02
40 91 0.25
41 1 0.00
42 25 0.07
43 85 0.24
44 4 0.01
45 12 0.03
46 119 0.33
47 9 0.03
ACGTcount: A:0.24, C:0.31, G:0.19, T:0.26
Consensus pattern (45 bp):
CCAGATCTCCTCATCACGTAGGAGCCGTGTTATCACCTTAGATGG
Found at i:58268 original size:129 final size:129
Alignment explanation
Indices: 58054--58581 Score: 871
Period size: 129 Copynumber: 4.1 Consensus size: 129
58044 CCAGCCGTCC
* * * ** * * * *
58054 TCATCATGTAGGAACCGTGTCATCCCCAGACCAGAGCTCTTCATCACGTAGGAGCCGTGTCAACC
1 TCATCACGTATGAGCCGTGTCATCAGCTGACCAGATCTCCTCATCACGTAGGAGCCGTGTCACCC
*
58119 ATAGATAACCAGCCGTCCTCATCACGTAGGAACCGTGTTATCACCTTTAGATGGCCAGAACTCT
66 TTAGATAACCAGCCGTCCTCATCACGTAGGAACCGTGTTATCACCTTTAGATGGCCAGAACTCT
58183 TCATCACGTATGAGCCGTGTCATCAGCTGACCAGATCTCCTCATCACGTAGGAGCCGTGTCACCC
1 TCATCACGTATGAGCCGTGTCATCAGCTGACCAGATCTCCTCATCACGTAGGAGCCGTGTCACCC
58248 TTAGATAACCAGCCGTCCTCATCACGTAGGAACCGTGTTATCACCTTTAGATGGCCAGAACTCT
66 TTAGATAACCAGCCGTCCTCATCACGTAGGAACCGTGTTATCACCTTTAGATGGCCAGAACTCT
58312 TCATCACGTATGAGCCGTGTCATCAGCTGACCAGATCTCCTCATCACGTAGGAGCCGTGTCACCC
1 TCATCACGTATGAGCCGTGTCATCAGCTGACCAGATCTCCTCATCACGTAGGAGCCGTGTCACCC
* *
58377 TTAGATAACCAGCCGTCCTCATCACGTAGGAACCGTATTATCACCTTTAGATGGCCAGATCTCT
66 TTAGATAACCAGCCGTCCTCATCACGTAGGAACCGTGTTATCACCTTTAGATGGCCAGAACTCT
* * * * *
58441 TCATCACGTATGAGCCGTGTCTTTC-TCCGACCAGATCTCTTCATCACGTATGAGCCGTGTCACC
1 TCATCACGTATGAGCCGTGTC-ATCAGCTGACCAGATCTCCTCATCACGTAGGAGCCGTGTCACC
*
58505 C-TAGATAACCAGCCGTCCTCATCACGTAGGAATCGTGTTATCACCTTTAGATGGCCAGAACTCT
65 CTTAGATAACCAGCCGTCCTCATCACGTAGGAACCGTGTTATCACCTTTAGATGGCCAGAACTCT
58569 TCATCACGTATGA
1 TCATCACGTATGA
58582 ACAGTGTCGT
Statistics
Matches: 378, Mismatches: 20, Indels: 3
0.94 0.05 0.01
Matches are distributed among these distances:
128 73 0.19
129 303 0.80
130 2 0.01
ACGTcount: A:0.24, C:0.30, G:0.20, T:0.26
Consensus pattern (129 bp):
TCATCACGTATGAGCCGTGTCATCAGCTGACCAGATCTCCTCATCACGTAGGAGCCGTGTCACCC
TTAGATAACCAGCCGTCCTCATCACGTAGGAACCGTGTTATCACCTTTAGATGGCCAGAACTCT
Found at i:58760 original size:3 final size:3
Alignment explanation
Indices: 58749--58788 Score: 64
Period size: 3 Copynumber: 13.3 Consensus size: 3
58739 TTTTTTATCG
58749 TTA TT- TTA TTA TTA TTA TTA TTA TTA TTTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA -TTA TTA TTA TTA T
58789 GTTTATTAAT
Statistics
Matches: 35, Mismatches: 0, Indels: 4
0.90 0.00 0.10
Matches are distributed among these distances:
2 2 0.06
3 30 0.86
4 3 0.09
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (3 bp):
TTA
Found at i:58781 original size:22 final size:22
Alignment explanation
Indices: 58753--58796 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 22
58743 TTATCGTTAT
58753 TTTATTATTATTAT-TATTATTA
1 TTTATTATTATTATGT-TTATTA
58775 TTTATTATTATTATGTTTATTA
1 TTTATTATTATTATGTTTATTA
58797 ATTACATATT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
22 20 0.95
23 1 0.05
ACGTcount: A:0.30, C:0.00, G:0.02, T:0.68
Consensus pattern (22 bp):
TTTATTATTATTATGTTTATTA
Found at i:58885 original size:25 final size:25
Alignment explanation
Indices: 58856--58930 Score: 150
Period size: 25 Copynumber: 3.0 Consensus size: 25
58846 CAATCAACCC
58856 ATCAGATTAGGGTTTCAAACCCTAA
1 ATCAGATTAGGGTTTCAAACCCTAA
58881 ATCAGATTAGGGTTTCAAACCCTAA
1 ATCAGATTAGGGTTTCAAACCCTAA
58906 ATCAGATTAGGGTTTCAAACCCTAA
1 ATCAGATTAGGGTTTCAAACCCTAA
58931 TCCCCTAAAT
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 50 1.00
ACGTcount: A:0.36, C:0.20, G:0.16, T:0.28
Consensus pattern (25 bp):
ATCAGATTAGGGTTTCAAACCCTAA
Found at i:66265 original size:22 final size:23
Alignment explanation
Indices: 66240--66307 Score: 61
Period size: 22 Copynumber: 2.9 Consensus size: 23
66230 AAATAATTTT
66240 TTTAATTTTTATTTAA-A-AATTA
1 TTTAATTTTTATTTAATATAA-TA
66262 TTTAATGATATTTATTTAATATAATA
1 TTTAAT--T-TTTATTTAATATAATA
* *
66288 ATTAA-TTTTATTTATTATAA
1 TTTAATTTTTATTTAATATAA
66308 AAAAGTAATT
Statistics
Matches: 39, Mismatches: 2, Indels: 10
0.76 0.04 0.20
Matches are distributed among these distances:
22 19 0.49
23 1 0.03
24 1 0.03
25 9 0.23
26 7 0.18
27 2 0.05
ACGTcount: A:0.41, C:0.00, G:0.01, T:0.57
Consensus pattern (23 bp):
TTTAATTTTTATTTAATATAATA
Found at i:67573 original size:26 final size:25
Alignment explanation
Indices: 67527--67590 Score: 67
Period size: 26 Copynumber: 2.5 Consensus size: 25
67517 AATAATTACT
*
67527 TTTTTATAATAAATAAAATT-AATTA
1 TTTTTA-AATAAATAAAATTAAATAA
**
67552 TTATATTAAATAAATATCATTAAATAA
1 TT-T-TTAAATAAATAAAATTAAATAA
67579 TTTTTAAATAAA
1 TTTTTAAATAAA
67591 AATTAAAAAA
Statistics
Matches: 33, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
25 11 0.33
26 13 0.39
27 9 0.27
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.45
Consensus pattern (25 bp):
TTTTTAAATAAATAAAATTAAATAA
Found at i:77546 original size:21 final size:21
Alignment explanation
Indices: 77503--77548 Score: 56
Period size: 21 Copynumber: 2.2 Consensus size: 21
77493 TCGTCATGTT
** *
77503 AACACCGTAAGCTATCATATC
1 AACACCGTAAAATATCACATC
*
77524 AACACCGTAAAATATCACGTC
1 AACACCGTAAAATATCACATC
77545 AACA
1 AACA
77549 TCTAACGGTT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.43, C:0.28, G:0.09, T:0.20
Consensus pattern (21 bp):
AACACCGTAAAATATCACATC
Found at i:80747 original size:14 final size:15
Alignment explanation
Indices: 80728--80772 Score: 56
Period size: 14 Copynumber: 3.0 Consensus size: 15
80718 TATAAGGTAA
80728 TTTTATTATAATT-T
1 TTTTATTATAATTAT
*
80742 TTTTATTATACTTAT
1 TTTTATTATAATTAT
*
80757 TGTTTATTATGATTAT
1 T-TTTATTATAATTAT
80773 ATGAAAAAAA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
14 12 0.46
15 2 0.08
16 12 0.46
ACGTcount: A:0.27, C:0.02, G:0.04, T:0.67
Consensus pattern (15 bp):
TTTTATTATAATTAT
Found at i:81856 original size:27 final size:26
Alignment explanation
Indices: 81780--81855 Score: 91
Period size: 26 Copynumber: 2.9 Consensus size: 26
81770 AAATGATAAA
*
81780 TAATAAAAAAATTACAATAAAAAAGTC
1 TAATAAACAAA-TACAATAAAAAAGTC
*
81807 TAATAAACAACTACAATAAAAAAGTAC
1 TAATAAACAAATACAATAAAAAAGT-C
* *
81834 TAA-ATACAAATATAATAAAAAA
1 TAATAAACAAATACAATAAAAAA
81856 AATAAAATCA
Statistics
Matches: 43, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
26 30 0.70
27 13 0.30
ACGTcount: A:0.67, C:0.09, G:0.03, T:0.21
Consensus pattern (26 bp):
TAATAAACAAATACAATAAAAAAGTC
Found at i:99231 original size:22 final size:23
Alignment explanation
Indices: 99192--99267 Score: 145
Period size: 23 Copynumber: 3.3 Consensus size: 23
99182 ATTTATCTTT
99192 TAAATTTTGTAAAAAAAATTATA
1 TAAATTTTGTAAAAAAAATTATA
99215 TAAATTTTGTAAAAAAAATTATA
1 TAAATTTTGTAAAAAAAATTATA
99238 TAAATTTTGT-AAAAAAATTATA
1 TAAATTTTGTAAAAAAAATTATA
99260 TAAATTTT
1 TAAATTTT
99268 ATGAATTTAA
Statistics
Matches: 53, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
22 20 0.38
23 33 0.62
ACGTcount: A:0.54, C:0.00, G:0.04, T:0.42
Consensus pattern (23 bp):
TAAATTTTGTAAAAAAAATTATA
Found at i:99517 original size:20 final size:20
Alignment explanation
Indices: 99481--99518 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
99471 ATCTTATTGC
**
99481 CTGATAATCTTTTATTCCCA
1 CTGATAATCTTACATTCCCA
99501 CTGATAATCTTACATTCC
1 CTGATAATCTTACATTCC
99519 GTGAACCAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.26, C:0.26, G:0.05, T:0.42
Consensus pattern (20 bp):
CTGATAATCTTACATTCCCA
Found at i:115132 original size:5 final size:5
Alignment explanation
Indices: 115122--115192 Score: 124
Period size: 5 Copynumber: 14.2 Consensus size: 5
115112 TAGTTTGCCC
* *
115122 TATAA TATAA TATAA TATAA TATAA TATGA TATAA TATGA TATAA TATAA
1 TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA
115172 TATAA TATAA TATAA TATAA T
1 TATAA TATAA TATAA TATAA T
115193 GAGAAAATAC
Statistics
Matches: 62, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
5 62 1.00
ACGTcount: A:0.56, C:0.00, G:0.03, T:0.41
Consensus pattern (5 bp):
TATAA
Found at i:116970 original size:17 final size:17
Alignment explanation
Indices: 116948--116981 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
116938 TGTGAAACTA
116948 TAAATAAATA-AATTTAT
1 TAAATAAA-ACAATTTAT
116965 TAAATAAAACAATTTAT
1 TAAATAAAACAATTTAT
116982 ATATTAACAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 1 0.06
17 15 0.94
ACGTcount: A:0.59, C:0.03, G:0.00, T:0.38
Consensus pattern (17 bp):
TAAATAAAACAATTTAT
Found at i:118223 original size:20 final size:21
Alignment explanation
Indices: 118198--118290 Score: 100
Period size: 21 Copynumber: 4.5 Consensus size: 21
118188 TTTTCCCAAT
*
118198 TCGCAATGCGAA-TAAGTAAA
1 TCGCAATGCGAATTAAGAAAA
* **
118218 TCGCAACGCGAATTGGGAAAA
1 TCGCAATGCGAATTAAGAAAA
*
118239 TCGCAATGCGAA-TAAGTAAA
1 TCGCAATGCGAATTAAGAAAA
* **
118259 TCGCAACGCGAATTGGGAAAA
1 TCGCAATGCGAATTAAGAAAA
118280 TCGCAATGCGA
1 TCGCAATGCGA
118291 TACTTACTAT
Statistics
Matches: 58, Mismatches: 13, Indels: 3
0.78 0.18 0.04
Matches are distributed among these distances:
20 27 0.47
21 31 0.53
ACGTcount: A:0.40, C:0.18, G:0.25, T:0.17
Consensus pattern (21 bp):
TCGCAATGCGAATTAAGAAAA
Found at i:118304 original size:41 final size:41
Alignment explanation
Indices: 118198--118290 Score: 186
Period size: 41 Copynumber: 2.3 Consensus size: 41
118188 TTTTCCCAAT
118198 TCGCAATGCGAATAAGTAAATCGCAACGCGAATTGGGAAAA
1 TCGCAATGCGAATAAGTAAATCGCAACGCGAATTGGGAAAA
118239 TCGCAATGCGAATAAGTAAATCGCAACGCGAATTGGGAAAA
1 TCGCAATGCGAATAAGTAAATCGCAACGCGAATTGGGAAAA
118280 TCGCAATGCGA
1 TCGCAATGCGA
118291 TACTTACTAT
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 52 1.00
ACGTcount: A:0.40, C:0.18, G:0.25, T:0.17
Consensus pattern (41 bp):
TCGCAATGCGAATAAGTAAATCGCAACGCGAATTGGGAAAA
Found at i:118376 original size:20 final size:20
Alignment explanation
Indices: 118328--118379 Score: 86
Period size: 20 Copynumber: 2.6 Consensus size: 20
118318 TAATACAAAA
* *
118328 TCGCAACGAGATACTTACTT
1 TCGCAACGCGATACTGACTT
118348 TCGCAACGCGATACTGACTT
1 TCGCAACGCGATACTGACTT
118368 TCGCAACGCGAT
1 TCGCAACGCGAT
118380 TTACATAGCG
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.27, C:0.29, G:0.19, T:0.25
Consensus pattern (20 bp):
TCGCAACGCGATACTGACTT
Found at i:118979 original size:20 final size:19
Alignment explanation
Indices: 118934--119064 Score: 137
Period size: 19 Copynumber: 7.1 Consensus size: 19
118924 ATAATCGCAA
118934 CGCGTTGCGATTTTCATTT
1 CGCGTTGCGATTTTCATTT
*
118953 CGCGTTGCGATTTTTATTT
1 CGCGTTGCGATTTTCATTT
118972 CGCGGTTGCGATTTTCATTT
1 CGC-GTTGCGATTTTCATTT
*
118992 CGCGTTGCGATTGTC---T
1 CGCGTTGCGATTTTCATTT
* * **
119008 -G-GTCGTGATAGTCATTT
1 CGCGTTGCGATTTTCATTT
*
119025 CGCGTTGCGATTCTCATTAT
1 CGCGTTGCGATTTTCATT-T
*
119045 CTCGTTGCGATTTTCATTT
1 CGCGTTGCGATTTTCATTT
119064 C
1 C
119065 AACCAAAAGA
Statistics
Matches: 93, Mismatches: 12, Indels: 14
0.78 0.10 0.12
Matches are distributed among these distances:
14 9 0.10
15 1 0.01
16 1 0.01
17 1 0.01
18 1 0.01
19 45 0.48
20 35 0.38
ACGTcount: A:0.11, C:0.21, G:0.23, T:0.45
Consensus pattern (19 bp):
CGCGTTGCGATTTTCATTT
Found at i:121128 original size:42 final size:42
Alignment explanation
Indices: 121068--121190 Score: 122
Period size: 42 Copynumber: 2.9 Consensus size: 42
121058 GCCCGACTCG
* * *
121068 CCTATCATCCCTCAAGAGTCCACTCCTATCGTTGAAGAGGCC
1 CCTATCATCCCTCAAGAGTCCACTCCCACCGTTCAAGAGGCC
* * *
121110 CCTATCATTCCTCGAGAGTCCCCTCCCACCGTTCAAGAGGCC
1 CCTATCATCCCTCAAGAGTCCACTCCCACCGTTCAAGAGGCC
* * ** * *
121152 ACTGTCATCGTTGAAGAGGTCC-CTCCCACCATTCAAGAG
1 CCTATCATCCCTCAAGA-GTCCACTCCCACCGTTCAAGAG
121191 CCCGATTCAC
Statistics
Matches: 66, Mismatches: 14, Indels: 2
0.80 0.17 0.02
Matches are distributed among these distances:
42 62 0.94
43 4 0.06
ACGTcount: A:0.23, C:0.37, G:0.18, T:0.23
Consensus pattern (42 bp):
CCTATCATCCCTCAAGAGTCCACTCCCACCGTTCAAGAGGCC
Found at i:121148 original size:21 final size:21
Alignment explanation
Indices: 121124--121190 Score: 55
Period size: 21 Copynumber: 3.2 Consensus size: 21
121114 TCATTCCTCG
121124 AGAGTCCCCTCCCACCGTTCA
1 AGAGTCCCCTCCCACCGTTCA
* * ** * *
121145 AGAGGCCACTGTCATCGTTGA
1 AGAGTCCCCTCCCACCGTTCA
*
121166 AGAGGT-CCCTCCCACCATTCA
1 AGA-GTCCCCTCCCACCGTTCA
121187 AGAG
1 AGAG
121191 CCCGATTCAC
Statistics
Matches: 32, Mismatches: 13, Indels: 3
0.67 0.27 0.06
Matches are distributed among these distances:
20 1 0.03
21 30 0.94
22 1 0.03
ACGTcount: A:0.24, C:0.36, G:0.21, T:0.19
Consensus pattern (21 bp):
AGAGTCCCCTCCCACCGTTCA
Found at i:122516 original size:14 final size:14
Alignment explanation
Indices: 122497--122532 Score: 63
Period size: 14 Copynumber: 2.6 Consensus size: 14
122487 ATTGTTTAAT
122497 TGATTTGTAAAAGG
1 TGATTTGTAAAAGG
*
122511 TGATTTGTAAAAGT
1 TGATTTGTAAAAGG
122525 TGATTTGT
1 TGATTTGT
122533 TTAATTGATG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.31, C:0.00, G:0.25, T:0.44
Consensus pattern (14 bp):
TGATTTGTAAAAGG
Found at i:122697 original size:33 final size:32
Alignment explanation
Indices: 122660--122770 Score: 152
Period size: 33 Copynumber: 3.4 Consensus size: 32
122650 GAAATGAAAA
*
122660 TCGCATTGCGATTCCCTCATTGCGATTTTCATT
1 TCGCATTGCGATT-CCTCGTTGCGATTTTCATT
**
122693 TCGCATTGCGAAATT-AGCGTTGCGATTTTCATT
1 TCGCATTGCG--ATTCCTCGTTGCGATTTTCATT
122726 TCGCATTGCGATTCTCTCGTTGCGATTTTCATT
1 TCGCATTGCGATTC-CTCGTTGCGATTTTCATT
122759 TCGCATTGCGAT
1 TCGCATTGCGAT
122771 AGTAATTTCC
Statistics
Matches: 69, Mismatches: 5, Indels: 8
0.84 0.06 0.10
Matches are distributed among these distances:
31 3 0.04
33 63 0.91
35 3 0.04
ACGTcount: A:0.16, C:0.23, G:0.19, T:0.41
Consensus pattern (32 bp):
TCGCATTGCGATTCCTCGTTGCGATTTTCATT
Found at i:122701 original size:19 final size:19
Alignment explanation
Indices: 122677--122770 Score: 82
Period size: 19 Copynumber: 5.5 Consensus size: 19
122667 GCGATTCCCT
122677 CATTGCGATTTTCATTTCG
1 CATTGCGATTTTCATTTCG
* *
122696 CATTGCGA-----AATTAG
1 CATTGCGATTTTCATTTCG
*
122710 CGTTGCGATTTTCATTTCG
1 CATTGCGATTTTCATTTCG
*
122729 CATTGCGA--TTC-TCTCG
1 CATTGCGATTTTCATTTCG
122745 --TTGCGATTTTCATTTCG
1 CATTGCGATTTTCATTTCG
122762 CATTGCGAT
1 CATTGCGAT
122771 AGTAATTTCC
Statistics
Matches: 57, Mismatches: 8, Indels: 20
0.67 0.09 0.24
Matches are distributed among these distances:
14 17 0.30
16 7 0.12
17 7 0.12
19 26 0.46
ACGTcount: A:0.17, C:0.21, G:0.19, T:0.43
Consensus pattern (19 bp):
CATTGCGATTTTCATTTCG
Found at i:123542 original size:18 final size:18
Alignment explanation
Indices: 123516--123560 Score: 63
Period size: 18 Copynumber: 2.5 Consensus size: 18
123506 GTCGATCAGA
* *
123516 TGATGGCTCTGGGTGGGG
1 TGATGGCTCTGGGCGAGG
*
123534 TGATAGCTCTGGGCGAGG
1 TGATGGCTCTGGGCGAGG
123552 TGATGGCTC
1 TGATGGCTC
123561 CCGAAGTGGA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.11, C:0.16, G:0.47, T:0.27
Consensus pattern (18 bp):
TGATGGCTCTGGGCGAGG
Found at i:125119 original size:22 final size:22
Alignment explanation
Indices: 125094--125159 Score: 123
Period size: 22 Copynumber: 3.0 Consensus size: 22
125084 GATTTAGATA
*
125094 GACGGATTTCGCCGGAGATGGG
1 GACGGATTTCGTCGGAGATGGG
125116 GACGGATTTCGTCGGAGATGGG
1 GACGGATTTCGTCGGAGATGGG
125138 GACGGATTTCGTCGGAGATGGG
1 GACGGATTTCGTCGGAGATGGG
125160 TGAGAGAGTG
Statistics
Matches: 43, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
22 43 1.00
ACGTcount: A:0.18, C:0.15, G:0.45, T:0.21
Consensus pattern (22 bp):
GACGGATTTCGTCGGAGATGGG
Found at i:125370 original size:20 final size:20
Alignment explanation
Indices: 125347--125398 Score: 86
Period size: 20 Copynumber: 2.6 Consensus size: 20
125337 GATTATGTAA
*
125347 ATCGCGTTGCGAAAGTCAGT
1 ATCGCGTTGCGAAAGTAAGT
125367 ATCGCGTTGCGAAAGTAAGT
1 ATCGCGTTGCGAAAGTAAGT
*
125387 ATCTCGTTGCGA
1 ATCGCGTTGCGA
125399 TTTTGTATTA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.25, C:0.19, G:0.29, T:0.27
Consensus pattern (20 bp):
ATCGCGTTGCGAAAGTAAGT
Found at i:125453 original size:20 final size:20
Alignment explanation
Indices: 125409--125501 Score: 87
Period size: 20 Copynumber: 4.5 Consensus size: 20
125399 TTTTGTATTA
* **
125409 TCGCATTGCGATTTTCCCAAT
1 TCGCATTGCGA-TTTACTTAT
*
125430 TCGCGTTGCGATTTACTTAT
1 TCGCATTGCGATTTACTTAT
* * **
125450 TCGCATTACGATTTTCCCAAT
1 TCGCATTGCGA-TTTACTTAT
*
125471 TCGCGTTGCGATTTACTTAT
1 TCGCATTGCGATTTACTTAT
125491 TCGCATTGCGA
1 TCGCATTGCGA
125502 ATTGGGAAAA
Statistics
Matches: 56, Mismatches: 15, Indels: 3
0.76 0.20 0.04
Matches are distributed among these distances:
20 31 0.55
21 25 0.45
ACGTcount: A:0.18, C:0.25, G:0.17, T:0.40
Consensus pattern (20 bp):
TCGCATTGCGATTTACTTAT
Found at i:125454 original size:41 final size:41
Alignment explanation
Indices: 125409--125501 Score: 177
Period size: 41 Copynumber: 2.3 Consensus size: 41
125399 TTTTGTATTA
125409 TCGCATTGCGATTTTCCCAATTCGCGTTGCGATTTACTTAT
1 TCGCATTGCGATTTTCCCAATTCGCGTTGCGATTTACTTAT
*
125450 TCGCATTACGATTTTCCCAATTCGCGTTGCGATTTACTTAT
1 TCGCATTGCGATTTTCCCAATTCGCGTTGCGATTTACTTAT
125491 TCGCATTGCGA
1 TCGCATTGCGA
125502 ATTGGGAAAA
Statistics
Matches: 50, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
41 50 1.00
ACGTcount: A:0.18, C:0.25, G:0.17, T:0.40
Consensus pattern (41 bp):
TCGCATTGCGATTTTCCCAATTCGCGTTGCGATTTACTTAT
Found at i:126647 original size:23 final size:23
Alignment explanation
Indices: 126616--126686 Score: 90
Period size: 23 Copynumber: 3.1 Consensus size: 23
126606 AGGGAGCAAT
*
126616 AAACTGCTACAGTACAAGTATCA
1 AAACAGCTACAGTACAAGTATCA
* *
126639 AAACAGCTACAGTACATGCATCA
1 AAACAGCTACAGTACAAGTATCA
*
126662 AAATAGCTACAGTAC-AGTCATCA
1 AAACAGCTACAGTACAAGT-ATCA
126685 AA
1 AA
126687 GCAACCAACG
Statistics
Matches: 41, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
22 1 0.02
23 40 0.98
ACGTcount: A:0.45, C:0.23, G:0.13, T:0.20
Consensus pattern (23 bp):
AAACAGCTACAGTACAAGTATCA
Found at i:130181 original size:46 final size:46
Alignment explanation
Indices: 130128--130236 Score: 191
Period size: 46 Copynumber: 2.4 Consensus size: 46
130118 ACACCACAAG
*
130128 TCATGATAATAAGAATATAGCTTAATTTAGGGTCGGGTTGTTTCAT
1 TCATGATAATAAGAATATAGCTTAATTTAGAGTCGGGTTGTTTCAT
* *
130174 TCATGATAATAAGATTATAGCTTAATTTAGAGTCGGTTTGTTTCAT
1 TCATGATAATAAGAATATAGCTTAATTTAGAGTCGGGTTGTTTCAT
130220 TCATGATAATAAGAATA
1 TCATGATAATAAGAATA
130237 GGTTTGCTTC
Statistics
Matches: 59, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
46 59 1.00
ACGTcount: A:0.34, C:0.08, G:0.18, T:0.39
Consensus pattern (46 bp):
TCATGATAATAAGAATATAGCTTAATTTAGAGTCGGGTTGTTTCAT
Found at i:131144 original size:4 final size:4
Alignment explanation
Indices: 131135--131179 Score: 90
Period size: 4 Copynumber: 11.2 Consensus size: 4
131125 AATATTTTCT
131135 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA T
1 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA T
131180 CTACACCCTA
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 41 1.00
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (4 bp):
TTTA
Found at i:134388 original size:17 final size:17
Alignment explanation
Indices: 134368--134400 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
134358 TTTTTTCTTT
134368 AAAAAATTATTTTTTTA
1 AAAAAATTATTTTTTTA
134385 AAAAAATTATTTTTTT
1 AAAAAATTATTTTTTT
134401 CTCTAAAAGA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (17 bp):
AAAAAATTATTTTTTTA
Found at i:141315 original size:3 final size:3
Alignment explanation
Indices: 141307--141347 Score: 82
Period size: 3 Copynumber: 13.7 Consensus size: 3
141297 GAACTGTTAC
141307 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
141348 ATAGTCATTT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 38 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
ATT
Found at i:142925 original size:44 final size:44
Alignment explanation
Indices: 142862--142947 Score: 145
Period size: 44 Copynumber: 2.0 Consensus size: 44
142852 CAGTAGATTC
*
142862 TATCACATATAATTATTTTTAAATAATTAAATAAATATATATCT
1 TATCACATATAATTATTTTTAAATAATTAAATAAATAAATATCT
* *
142906 TATCATATATAATTATTTTTAAATAATTAATTAAATAAATAT
1 TATCACATATAATTATTTTTAAATAATTAAATAAATAAATAT
142948 ATTTTAAATT
Statistics
Matches: 39, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
44 39 1.00
ACGTcount: A:0.49, C:0.05, G:0.00, T:0.47
Consensus pattern (44 bp):
TATCACATATAATTATTTTTAAATAATTAAATAAATAAATATCT
Found at i:142970 original size:27 final size:27
Alignment explanation
Indices: 142912--142979 Score: 68
Period size: 27 Copynumber: 2.6 Consensus size: 27
142902 ATCTTATCAT
* *
142912 ATATAATTAT-TTTTAAATAATTAATT
1 ATATAAATATATTTTAAATAATTAATG
* * *
142938 AAATAAATATATTTTAAATTATTTATG
1 ATATAAATATATTTTAAATAATTAATG
142965 ATAT-AATATAATTTT
1 ATATAAATAT-ATTTT
142980 TATTTAATTT
Statistics
Matches: 34, Mismatches: 6, Indels: 3
0.79 0.14 0.07
Matches are distributed among these distances:
26 13 0.38
27 21 0.62
ACGTcount: A:0.47, C:0.00, G:0.01, T:0.51
Consensus pattern (27 bp):
ATATAAATATATTTTAAATAATTAATG
Found at i:143043 original size:54 final size:51
Alignment explanation
Indices: 142981--143081 Score: 130
Period size: 54 Copynumber: 1.9 Consensus size: 51
142971 TATAATTTTT
* *
142981 ATTTAATTTTTAAATAATTGAATATTTTATTATATGATAAATAAATATTATAA
1 ATTTAATTTTAAAATAATTGAATA-TTAATTATAT-ATAAATAAATATTATAA
* * *
143034 ATTTAAATTTTAAAATAATTTAATATTAATTTTATATAAATAATTATT
1 ATTT-AATTTTAAAATAATTGAATATTAATTATATATAAATAAATATT
143082 TAATTATTTT
Statistics
Matches: 42, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
52 12 0.29
53 12 0.29
54 18 0.43
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (51 bp):
ATTTAATTTTAAAATAATTGAATATTAATTATATATAAATAAATATTATAA
Found at i:143084 original size:22 final size:22
Alignment explanation
Indices: 143033--143086 Score: 58
Period size: 22 Copynumber: 2.4 Consensus size: 22
143023 AAATATTATA
*
143033 AATTTAAATTTTAAAATAATTT
1 AATTTAATTTTTAAAATAATTT
143055 AATATTAATTTTATATAAATAA-TT
1 AAT-TTAATTTT-TA-AAATAATTT
143079 -ATTTAATT
1 AATTTAATT
143087 ATTTTTATTC
Statistics
Matches: 28, Mismatches: 1, Indels: 6
0.80 0.03 0.17
Matches are distributed among these distances:
22 9 0.32
23 9 0.32
24 4 0.14
25 6 0.21
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (22 bp):
AATTTAATTTTTAAAATAATTT
Found at i:144490 original size:17 final size:18
Alignment explanation
Indices: 144459--144499 Score: 68
Period size: 17 Copynumber: 2.4 Consensus size: 18
144449 TGACCGGTCA
144459 CGACCCGACCCGTTGACC
1 CGACCCGACCCGTTGACC
144477 CGACCCGA-CCGTTGACC
1 CGACCCGACCCGTTGACC
144494 C-ACCCG
1 CGACCCG
144500 TTGACCGATG
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
16 5 0.22
17 10 0.43
18 8 0.35
ACGTcount: A:0.17, C:0.51, G:0.22, T:0.10
Consensus pattern (18 bp):
CGACCCGACCCGTTGACC
Found at i:144565 original size:29 final size:29
Alignment explanation
Indices: 144533--144600 Score: 75
Period size: 29 Copynumber: 2.3 Consensus size: 29
144523 ATTTGGTTTT
* *
144533 GGTGCTATTTTGAG-AATTAATTCGAAAAG
1 GGTGCTATTTTG-GTAATTAATTCAAAAAA
* * *
144562 GGTGCTATATTGGTAATTATTTTAAAAAA
1 GGTGCTATTTTGGTAATTAATTCAAAAAA
144591 GGTGCTATTT
1 GGTGCTATTT
144601 GTGTAAAATG
Statistics
Matches: 32, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
28 1 0.03
29 31 0.97
ACGTcount: A:0.32, C:0.06, G:0.22, T:0.40
Consensus pattern (29 bp):
GGTGCTATTTTGGTAATTAATTCAAAAAA
Found at i:145338 original size:23 final size:24
Alignment explanation
Indices: 145285--145353 Score: 77
Period size: 23 Copynumber: 2.9 Consensus size: 24
145275 ATATAAATAG
* *
145285 TTTATCTGATTTTTGACCTGGATT
1 TTTATATGATATTTGACCTGGATT
* *
145309 CTGATATGATATTTGACCT-GATT
1 TTTATATGATATTTGACCTGGATT
* *
145332 TTTATATGATACTTGACATGGA
1 TTTATATGATATTTGACCTGGA
145354 CTCTGTTTTG
Statistics
Matches: 36, Mismatches: 8, Indels: 2
0.78 0.17 0.04
Matches are distributed among these distances:
23 19 0.53
24 17 0.47
ACGTcount: A:0.25, C:0.12, G:0.17, T:0.46
Consensus pattern (24 bp):
TTTATATGATATTTGACCTGGATT
Done.