Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01006550.1 Hibiscus syriacus cultivar Beakdansim tig00016004_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: 1576944
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 2 of 8
Found at i:194279 original size:12 final size:13
Alignment explanation
Indices: 194262--194292 Score: 55
Period size: 12 Copynumber: 2.5 Consensus size: 13
194252 GGTTCAGGGA
194262 AAAAAAAAAC-AG
1 AAAAAAAAACGAG
194274 AAAAAAAAACGAG
1 AAAAAAAAACGAG
194287 AAAAAA
1 AAAAAA
194293 GAGATCTACT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
12 10 0.56
13 8 0.44
ACGTcount: A:0.84, C:0.06, G:0.10, T:0.00
Consensus pattern (13 bp):
AAAAAAAAACGAG
Found at i:196978 original size:18 final size:18
Alignment explanation
Indices: 196955--196989 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
196945 AAAATTGAAA
196955 GTTTAGGTA-CTAAACCAG
1 GTTTA-GTACCTAAACCAG
196973 GTTTAGTACCTAAACCA
1 GTTTAGTACCTAAACCA
196990 TACTTAAGTT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 3 0.19
18 13 0.81
ACGTcount: A:0.34, C:0.20, G:0.17, T:0.29
Consensus pattern (18 bp):
GTTTAGTACCTAAACCAG
Found at i:196980 original size:55 final size:59
Alignment explanation
Indices: 196919--197029 Score: 142
Period size: 61 Copynumber: 1.9 Consensus size: 59
196909 TTATTTCATT
*
196919 TTTAGTACC-AA-A-ACTTAAGTGTT-GAA-AAAATTGAAAGTTTAGGTACTAAACCAGG
1 TTTAGTACCAAACATACTTAAGTGTTGGAAGAAAA-CGAAAGTTTAGGTACTAAACCAGG
*
196974 TTTAGTACCTAAACCATACTTAAGTTTTGGAAGAAAACGAAAGTTTAGGTACTAAA
1 TTTAGTACC-AAA-CATACTTAAGTGTTGGAAGAAAACGAAAGTTTAGGTACTAAA
197030 ACTGATCAAA
Statistics
Matches: 47, Mismatches: 2, Indels: 8
0.82 0.04 0.14
Matches are distributed among these distances:
55 9 0.19
57 2 0.04
59 1 0.02
60 10 0.21
61 21 0.45
62 4 0.09
ACGTcount: A:0.41, C:0.12, G:0.17, T:0.30
Consensus pattern (59 bp):
TTTAGTACCAAACATACTTAAGTGTTGGAAGAAAACGAAAGTTTAGGTACTAAACCAGG
Found at i:201299 original size:27 final size:27
Alignment explanation
Indices: 201269--201329 Score: 113
Period size: 27 Copynumber: 2.3 Consensus size: 27
201259 GTGCATCCTT
201269 CACAAAATATTCATAAGGATGAAAATC
1 CACAAAATATTCATAAGGATGAAAATC
201296 CACAAAATATTCATAAGGATGAAAATC
1 CACAAAATATTCATAAGGATGAAAATC
*
201323 CATAAAA
1 CACAAAA
201330 ACATCATTAT
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
27 33 1.00
ACGTcount: A:0.54, C:0.15, G:0.10, T:0.21
Consensus pattern (27 bp):
CACAAAATATTCATAAGGATGAAAATC
Found at i:202748 original size:13 final size:12
Alignment explanation
Indices: 202731--202780 Score: 73
Period size: 13 Copynumber: 4.0 Consensus size: 12
202721 AAAGACAATG
202731 AAAATAAATAAA
1 AAAATAAATAAA
202743 ACAAATAAATAAA
1 A-AAATAAATAAA
*
202756 AAAATAAGTAAA
1 AAAATAAATAAA
202768 AAAATTAAATAAA
1 AAAA-TAAATAAA
202781 GCAAAAAAAT
Statistics
Matches: 34, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
12 15 0.44
13 19 0.56
ACGTcount: A:0.78, C:0.02, G:0.02, T:0.18
Consensus pattern (12 bp):
AAAATAAATAAA
Found at i:202759 original size:25 final size:25
Alignment explanation
Indices: 202731--202780 Score: 75
Period size: 25 Copynumber: 2.0 Consensus size: 25
202721 AAAGACAATG
202731 AAAATAAATAAAACAAA-TAAATAAA
1 AAAATAAATAAAA-AAATTAAATAAA
*
202756 AAAATAAGTAAAAAAATTAAATAAA
1 AAAATAAATAAAAAAATTAAATAAA
202781 GCAAAAAAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 3 0.13
25 20 0.87
ACGTcount: A:0.78, C:0.02, G:0.02, T:0.18
Consensus pattern (25 bp):
AAAATAAATAAAAAAATTAAATAAA
Found at i:202838 original size:15 final size:15
Alignment explanation
Indices: 202818--202890 Score: 58
Period size: 15 Copynumber: 4.7 Consensus size: 15
202808 TAAGGAAAAG
*
202818 AATAAAATTAATAAA
1 AATAAAATAAATAAA
202833 AATAAAATAAATAAA
1 AATAAAATAAATAAA
*
202848 AA-AGAAATCAAAGAAA
1 AATA-AAAT-AAATAAA
** * *
202864 ACGAAAAAAGAAGAAA
1 AATAAAATA-AATAAA
202880 AATAAAATAAA
1 AATAAAATAAA
202891 AAATAACTAA
Statistics
Matches: 47, Mismatches: 7, Indels: 8
0.76 0.11 0.13
Matches are distributed among these distances:
14 1 0.02
15 23 0.49
16 22 0.47
17 1 0.02
ACGTcount: A:0.77, C:0.03, G:0.07, T:0.14
Consensus pattern (15 bp):
AATAAAATAAATAAA
Found at i:202892 original size:22 final size:22
Alignment explanation
Indices: 202830--202893 Score: 58
Period size: 25 Copynumber: 2.8 Consensus size: 22
202820 TAAAATTAAT
202830 AAAAATAAAATAAATAAAAAAGA
1 AAAAATAAAATAAA-AAAAAAGA
* * *
202853 AATCAAAGAAAACGAAAAAAGAAG-
1 AA--AAATAAAA-TAAAAAAAAAGA
202877 AAAAATAAAATAAAAAA
1 AAAAATAAAATAAAAAA
202894 TAACTAAATA
Statistics
Matches: 33, Mismatches: 5, Indels: 8
0.72 0.11 0.17
Matches are distributed among these distances:
21 6 0.18
22 7 0.21
23 2 0.06
24 2 0.06
25 13 0.39
26 3 0.09
ACGTcount: A:0.80, C:0.03, G:0.08, T:0.09
Consensus pattern (22 bp):
AAAAATAAAATAAAAAAAAAGA
Found at i:204129 original size:3 final size:3
Alignment explanation
Indices: 204116--204171 Score: 76
Period size: 3 Copynumber: 17.7 Consensus size: 3
204106 AAAAGAAATA
*
204116 AAT AAT AAAT AAT AAT AAAT AAT AAT AAT AAT AAT AAT AAAT AAT AAC
1 AAT AAT -AAT AAT AAT -AAT AAT AAT AAT AAT AAT AAT -AAT AAT AAT
204164 AAT AAT AA
1 AAT AAT AA
204172 ATATGAAAAG
Statistics
Matches: 48, Mismatches: 2, Indels: 6
0.86 0.04 0.11
Matches are distributed among these distances:
3 39 0.81
4 9 0.19
ACGTcount: A:0.70, C:0.02, G:0.00, T:0.29
Consensus pattern (3 bp):
AAT
Found at i:204139 original size:13 final size:13
Alignment explanation
Indices: 204112--204168 Score: 73
Period size: 13 Copynumber: 4.4 Consensus size: 13
204102 ATAAAAAAGA
204112 AATAAATAATAAAT
1 AATAAATAAT-AAT
204126 AAT-AATAAATAAT
1 AATAAAT-AATAAT
204139 AAT-AATAATAAT
1 AATAAATAATAAT
*
204151 AATAAATAATAAC
1 AATAAATAATAAT
204164 AATAA
1 AATAA
204169 TAAATATGAA
Statistics
Matches: 40, Mismatches: 1, Indels: 5
0.87 0.02 0.11
Matches are distributed among these distances:
12 9 0.22
13 25 0.62
14 6 0.15
ACGTcount: A:0.70, C:0.02, G:0.00, T:0.28
Consensus pattern (13 bp):
AATAAATAATAAT
Found at i:204144 original size:16 final size:16
Alignment explanation
Indices: 204116--204174 Score: 93
Period size: 16 Copynumber: 3.7 Consensus size: 16
204106 AAAAGAAATA
204116 AATAATAAATAATAAT
1 AATAATAAATAATAAT
204132 AAATAAT-AATAATAAT
1 -AATAATAAATAATAAT
*
204148 AATAATAAATAATAAC
1 AATAATAAATAATAAT
204164 AATAATAAATA
1 AATAATAAATA
204175 TGAAAAGTAT
Statistics
Matches: 40, Mismatches: 1, Indels: 3
0.91 0.02 0.07
Matches are distributed among these distances:
15 6 0.15
16 28 0.70
17 6 0.15
ACGTcount: A:0.69, C:0.02, G:0.00, T:0.29
Consensus pattern (16 bp):
AATAATAAATAATAAT
Found at i:204148 original size:22 final size:22
Alignment explanation
Indices: 204116--204171 Score: 94
Period size: 22 Copynumber: 2.5 Consensus size: 22
204106 AAAAGAAATA
204116 AATAATAAATAATAATAAATAAT
1 AATAAT-AATAATAATAAATAAT
204139 AATAATAATAATAATAAATAAT
1 AATAATAATAATAATAAATAAT
*
204161 AACAATAATAA
1 AATAATAATAA
204172 ATATGAAAAG
Statistics
Matches: 32, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
22 26 0.81
23 6 0.19
ACGTcount: A:0.70, C:0.02, G:0.00, T:0.29
Consensus pattern (22 bp):
AATAATAATAATAATAAATAAT
Found at i:204240 original size:39 final size:39
Alignment explanation
Indices: 204188--204283 Score: 119
Period size: 38 Copynumber: 2.5 Consensus size: 39
204178 AAAGTATATA
204188 TTTTTT-AAAACTATATAATA-AAAATTTTTAAAAAAT-T
1 TTTTTTAAAAACTATATAATATAAAA-TTTTAAAAAATGT
* *
204225 TTCTTTTAAAAACTATAT-ATATATAATTTTCAAAAATGT
1 TT-TTTTAAAAACTATATAATATAAAATTTTAAAAAATGT
*
204264 TTTTTAAAAAACTATATAAT
1 TTTTTTAAAAACTATATAAT
204284 TTTCAAAAAA
Statistics
Matches: 51, Mismatches: 3, Indels: 8
0.82 0.05 0.13
Matches are distributed among these distances:
37 2 0.04
38 31 0.61
39 18 0.35
ACGTcount: A:0.48, C:0.05, G:0.01, T:0.46
Consensus pattern (39 bp):
TTTTTTAAAAACTATATAATATAAAATTTTAAAAAATGT
Found at i:204320 original size:29 final size:28
Alignment explanation
Indices: 204243--204366 Score: 169
Period size: 29 Copynumber: 4.2 Consensus size: 28
204233 AAAACTATAT
*
204243 ATATATAATTTTCAAAAATGTTTTTTAAAAA
1 ATATATAATTTTCAAAAAAG--TTTT-AAAA
204274 ACTATATAATTTTCAAAAAAGTTTT-AAA
1 A-TATATAATTTTCAAAAAAGTTTTAAAA
204302 ATATATAATTTTCAAAAAAGTTTTAAAA
1 ATATATAATTTTCAAAAAAGTTTTAAAA
*
204330 ATTATATAATTTCCAAAAAAGTTTTCAAAA
1 A-TATATAATTTTCAAAAAAGTTTT-AAAA
204360 ATATATA
1 ATATATA
204367 TTATATATAG
Statistics
Matches: 87, Mismatches: 2, Indels: 10
0.88 0.02 0.10
Matches are distributed among these distances:
27 23 0.26
28 8 0.09
29 28 0.32
30 9 0.10
31 1 0.01
32 18 0.21
ACGTcount: A:0.51, C:0.06, G:0.03, T:0.40
Consensus pattern (28 bp):
ATATATAATTTTCAAAAAAGTTTTAAAA
Found at i:204370 original size:36 final size:36
Alignment explanation
Indices: 204330--204591 Score: 232
Period size: 36 Copynumber: 7.2 Consensus size: 36
204320 AGTTTTAAAA
* *
204330 ATTATATAATTTCCAAAAAAGTTTTCAAAAA-TATAT
1 ATTATATAATTTTCAAAAATGTTTT-AAAAACTATAT
*
204366 ATTATATATAGTTTTCAAAAATGTTTTCAAAAAAT-TAT
1 ATTATATA-A-TTTTCAAAAATGTTTT-AAAAACTATAT
* *
204404 A-TATATAGTTTTC-AAAATGATTTTAAAAACCATAT
1 ATTATATAATTTTCAAAAATG-TTTTAAAAACTATAT
**
204439 ATTATAT-ATTTTTTAAAATGTTTTAAAAACTATAT
1 ATTATATAATTTTCAAAAATGTTTTAAAAACTATAT
* * **
204474 ATTATCTAGTTTTCAAAAGCGTTTTAAAAACTATAT
1 ATTATATAATTTTCAAAAATGTTTTAAAAACTATAT
*
204510 GTTATATACA-TTTC-AAAATGATTTTAAAAACTATAT
1 ATTATATA-ATTTTCAAAAATG-TTTTAAAAACTATAT
* ** **
204546 ATTATATACATGTCTCAAAAATCATTTGCAAACTATAT
1 ATTATATA-AT-TTTCAAAAATGTTTTAAAAACTATAT
*
204584 AATATATA
1 ATTATATA
204592 TATAGATATA
Statistics
Matches: 187, Mismatches: 26, Indels: 24
0.79 0.11 0.10
Matches are distributed among these distances:
34 11 0.06
35 41 0.22
36 76 0.41
37 7 0.04
38 46 0.25
39 6 0.03
ACGTcount: A:0.45, C:0.08, G:0.05, T:0.42
Consensus pattern (36 bp):
ATTATATAATTTTCAAAAATGTTTTAAAAACTATAT
Found at i:204387 original size:56 final size:55
Alignment explanation
Indices: 204265--204371 Score: 144
Period size: 56 Copynumber: 1.9 Consensus size: 55
204255 CAAAAATGTT
* * *
204265 TTTTAAAAAACTATATAATTTTCAAAAAAGTTTTAAAATATATAATTTTCAAAAAAG
1 TTTT-AAAAATTATATAATTTCCAAAAAAGTTTTAAAATATATAATTAT-AAAAAAG
204322 TTTTAAAAATTATATAATTTCCAAAAAAGTTTTCAAAA-ATATATATTATA
1 TTTTAAAAATTATATAATTTCCAAAAAAGTTTT-AAAATATATA-ATTATA
204372 TATAGTTTTC
Statistics
Matches: 45, Mismatches: 3, Indels: 5
0.85 0.06 0.09
Matches are distributed among these distances:
56 33 0.73
57 12 0.27
ACGTcount: A:0.51, C:0.06, G:0.03, T:0.40
Consensus pattern (55 bp):
TTTTAAAAATTATATAATTTCCAAAAAAGTTTTAAAATATATAATTATAAAAAAG
Found at i:204414 original size:35 final size:34
Alignment explanation
Indices: 204302--204553 Score: 162
Period size: 36 Copynumber: 7.2 Consensus size: 34
204292 AAGTTTTAAA
* *
204302 ATATATAATTTTCAAAAAAGTTTT-AAAAA-T-T
1 ATATATAGTTTTCAAAAATGTTTTAAAAAATTAT
* *
204333 ATATA-A-TTTCCAAAAAAGTTTTCAAAAATATATATT
1 ATATATAGTTTTCAAAAATGTTTT-AAAAA-AT-TA-T
204369 ATATATAGTTTTCAAAAATGTTTTCAAAAAATTAT
1 ATATATAGTTTTCAAAAATGTTTT-AAAAAATTAT
204404 ATATATAGTTTTC-AAAATGATTTTAAAAACCA-TAT
1 ATATATAGTTTTCAAAAATG-TTTTAAAAA--ATTAT
** *
204439 ATTATATA-TTTTTTAAAATGTTTTAAAAACTATAT
1 A-TATATAGTTTTCAAAAATGTTTTAAAAAAT-TAT
* ** *
204474 ATTATCTAGTTTTCAAAAGCGTTTTAAAAACTATAT
1 A-TATATAGTTTTCAAAAATGTTTTAAAAAAT-TAT
* ** *
204510 GTTATATACATTTC-AAAATGATTTTAAAAACTATAT
1 -ATATATAGTTTTCAAAAATG-TTTTAAAAAAT-TAT
204546 ATTATATA
1 A-TATATA
204554 CATGTCTCAA
Statistics
Matches: 184, Mismatches: 17, Indels: 35
0.78 0.07 0.15
Matches are distributed among these distances:
29 15 0.08
30 1 0.01
31 9 0.05
32 1 0.01
34 12 0.07
35 49 0.27
36 74 0.40
37 3 0.02
38 20 0.11
ACGTcount: A:0.46, C:0.07, G:0.05, T:0.43
Consensus pattern (34 bp):
ATATATAGTTTTCAAAAATGTTTTAAAAAATTAT
Found at i:204491 original size:71 final size:71
Alignment explanation
Indices: 204362--204553 Score: 228
Period size: 71 Copynumber: 2.7 Consensus size: 71
204352 TTTCAAAAAT
*
204362 ATATATTATATATAGTTTTCAAAAATGTTTTCAAAAAAT-TATA-TATATAGTTTTCAAAATG-A
1 ATATATTATATAT--TTTT-AAAAATGTTTT-AAAAACTATATATTATATAGTTTTCAAAA-GCA
204424 TTTTAAAAACC
61 TTTTAAAAACC
* * *
204435 ATATATTATATATTTTTTAAAATGTTTTAAAAACTATATATTATCTAGTTTTCAAAAGCGTTTTA
1 ATATATTATATATTTTTAAAAATGTTTTAAAAACTATATATTATATAGTTTTCAAAAGCATTTTA
*
204500 AAAACT
66 AAAACC
* ** *
204506 ATATGTTATATACATTTCAAAATGATTTTAAAAACTATATATTATATA
1 ATATATTATATATTTTTAAAAATG-TTTTAAAAACTATATATTATATA
204554 CATGTCTCAA
Statistics
Matches: 105, Mismatches: 10, Indels: 9
0.85 0.08 0.07
Matches are distributed among these distances:
69 6 0.06
70 15 0.14
71 49 0.47
72 22 0.21
73 13 0.12
ACGTcount: A:0.44, C:0.07, G:0.05, T:0.44
Consensus pattern (71 bp):
ATATATTATATATTTTTAAAAATGTTTTAAAAACTATATATTATATAGTTTTCAAAAGCATTTTA
AAAACC
Found at i:206886 original size:22 final size:22
Alignment explanation
Indices: 206861--206910 Score: 73
Period size: 22 Copynumber: 2.3 Consensus size: 22
206851 GACTTGGTCG
206861 TTGACTTTGACCATAGTTGACT
1 TTGACTTTGACCATAGTTGACT
* * *
206883 TTGACCTTGGCCATCGTTGACT
1 TTGACTTTGACCATAGTTGACT
206905 TTGACT
1 TTGACT
206911 AAAAAGTTAA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.18, C:0.22, G:0.20, T:0.40
Consensus pattern (22 bp):
TTGACTTTGACCATAGTTGACT
Found at i:206941 original size:17 final size:17
Alignment explanation
Indices: 206909--206942 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
206899 TTGACTTTGA
*
206909 CTAAAAAGTTAAATTTT
1 CTAAAAAGTCAAATTTT
*
206926 CTAAAAAGTCATATTTT
1 CTAAAAAGTCAAATTTT
206943 ATGTTTCTCG
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.44, C:0.09, G:0.06, T:0.41
Consensus pattern (17 bp):
CTAAAAAGTCAAATTTT
Found at i:211744 original size:4 final size:4
Alignment explanation
Indices: 211737--211771 Score: 52
Period size: 4 Copynumber: 8.8 Consensus size: 4
211727 TTTATCAACT
* *
211737 TTTA TTTA TTTA TTTA TTAA TTAA TTTA TTTA TTT
1 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTT
211772 TTCATAGGGG
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
4 29 1.00
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (4 bp):
TTTA
Found at i:230775 original size:24 final size:24
Alignment explanation
Indices: 230744--230813 Score: 113
Period size: 24 Copynumber: 2.9 Consensus size: 24
230734 TTCGATATGA
230744 ATTCTGATATGATACTTGACCTGG
1 ATTCTGATATGATACTTGACCTGG
* *
230768 ATTTTGATCTGATACTTGACCTGG
1 ATTCTGATATGATACTTGACCTGG
*
230792 ATTCTGATTTGATACTTGACCT
1 ATTCTGATATGATACTTGACCT
230814 TAATTATGTT
Statistics
Matches: 42, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 42 1.00
ACGTcount: A:0.23, C:0.17, G:0.19, T:0.41
Consensus pattern (24 bp):
ATTCTGATATGATACTTGACCTGG
Found at i:230826 original size:24 final size:24
Alignment explanation
Indices: 230748--230828 Score: 99
Period size: 24 Copynumber: 3.4 Consensus size: 24
230738 ATATGAATTC
* *
230748 TGATATGATACTTGACCTGGATTT
1 TGATTTGATACTTGACCTGGATTA
* *
230772 TGATCTGATACTTGACCTGGATTC
1 TGATTTGATACTTGACCTGGATTA
**
230796 TGATTTGATACTTGACCTTAATTA
1 TGATTTGATACTTGACCTGGATTA
*
230820 TGTTTTGAT
1 TGATTTGAT
230829 TTTTGATATA
Statistics
Matches: 50, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 50 1.00
ACGTcount: A:0.23, C:0.14, G:0.19, T:0.44
Consensus pattern (24 bp):
TGATTTGATACTTGACCTGGATTA
Found at i:235256 original size:24 final size:24
Alignment explanation
Indices: 235229--235306 Score: 120
Period size: 24 Copynumber: 3.2 Consensus size: 24
235219 ATTTTCGACA
235229 TGAATTCTGATCTGATACTTGACC
1 TGAATTCTGATCTGATACTTGACC
*
235253 TGAATTTTGATCTGATACTTGACC
1 TGAATTCTGATCTGATACTTGACC
* * *
235277 TGGAGTCTGATTTGATACTTGACC
1 TGAATTCTGATCTGATACTTGACC
235301 TGAATT
1 TGAATT
235307 ATGTTTTTGA
Statistics
Matches: 47, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 47 1.00
ACGTcount: A:0.24, C:0.17, G:0.19, T:0.40
Consensus pattern (24 bp):
TGAATTCTGATCTGATACTTGACC
Found at i:235266 original size:48 final size:47
Alignment explanation
Indices: 235209--235306 Score: 126
Period size: 48 Copynumber: 2.1 Consensus size: 47
235199 TCACATGAAT
* *
235209 ATTTTATCTGAT-TTTCGACATGAATTCTGATCTGATACTTGACCTGA
1 ATTTTATCTGATACTT-GACATGAAGTCTGATCTGATACTTGACCTGA
* * *
235256 ATTTTGATCTGATACTTGACCTGGAGTCTGATTTGATACTTGACCTGA
1 ATTTT-ATCTGATACTTGACATGAAGTCTGATCTGATACTTGACCTGA
235304 ATT
1 ATT
235307 ATGTTTTTGA
Statistics
Matches: 44, Mismatches: 5, Indels: 3
0.85 0.10 0.06
Matches are distributed among these distances:
47 5 0.11
48 37 0.84
49 2 0.05
ACGTcount: A:0.24, C:0.16, G:0.17, T:0.42
Consensus pattern (47 bp):
ATTTTATCTGATACTTGACATGAAGTCTGATCTGATACTTGACCTGA
Found at i:237435 original size:19 final size:18
Alignment explanation
Indices: 237400--237442 Score: 50
Period size: 19 Copynumber: 2.3 Consensus size: 18
237390 TTAATTGCGA
237400 AAATTAAAAGTTAAATTC
1 AAATTAAAAGTTAAATTC
* *
237418 AAATTTAAAGATTCAATTC
1 AAATTAAAAG-TTAAATTC
*
237437 GAATTA
1 AAATTA
237443 CTTACCTTTG
Statistics
Matches: 20, Mismatches: 4, Indels: 1
0.80 0.16 0.04
Matches are distributed among these distances:
18 9 0.45
19 11 0.55
ACGTcount: A:0.51, C:0.07, G:0.07, T:0.35
Consensus pattern (18 bp):
AAATTAAAAGTTAAATTC
Found at i:238898 original size:5 final size:5
Alignment explanation
Indices: 238874--238943 Score: 54
Period size: 5 Copynumber: 13.4 Consensus size: 5
238864 AAAAAGAAAA
* *
238874 ATAAT ATTAAT AACAAT ATAAT ATAAT ATAAT AATATAT ACAAT ATAAT
1 ATAAT A-TAAT -ATAAT ATAAT ATAAT ATAAT -ATA-AT ATAAT ATAAT
*
238923 A-AAT AAAAT AATAA- ATAAT AT
1 ATAAT ATAAT -ATAAT ATAAT AT
238944 GTATGCTATA
Statistics
Matches: 53, Mismatches: 5, Indels: 14
0.74 0.07 0.19
Matches are distributed among these distances:
4 8 0.15
5 27 0.51
6 15 0.28
7 3 0.06
ACGTcount: A:0.63, C:0.03, G:0.00, T:0.34
Consensus pattern (5 bp):
ATAAT
Found at i:238899 original size:22 final size:20
Alignment explanation
Indices: 238874--238943 Score: 72
Period size: 22 Copynumber: 3.4 Consensus size: 20
238864 AAAAAGAAAA
238874 ATAATATTAATAACAATATAAT
1 ATAATA-TAATAA-AATATAAT
*
238896 ATAATATAATAATATATACAAT
1 ATAATATAATAA-A-ATATAAT
238918 ATAATA-AATAAAATAATAA-
1 ATAATATAATAAAAT-ATAAT
238937 ATAATAT
1 ATAATAT
238944 GTATGCTATA
Statistics
Matches: 42, Mismatches: 3, Indels: 8
0.79 0.06 0.15
Matches are distributed among these distances:
19 8 0.19
20 4 0.10
21 12 0.29
22 18 0.43
ACGTcount: A:0.63, C:0.03, G:0.00, T:0.34
Consensus pattern (20 bp):
ATAATATAATAAAATATAAT
Found at i:238933 original size:12 final size:12
Alignment explanation
Indices: 238891--238940 Score: 55
Period size: 12 Copynumber: 3.9 Consensus size: 12
238881 TAATAACAAT
*
238891 ATAATATAATATA
1 ATAATA-AATAAA
*
238904 ATAATATATACAA
1 ATAATAAATA-AA
238917 TATAATAAATAAA
1 -ATAATAAATAAA
238930 ATAATAAATAA
1 ATAATAAATAA
238941 TATGTATGCT
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
12 14 0.44
13 9 0.28
14 9 0.28
ACGTcount: A:0.66, C:0.02, G:0.00, T:0.32
Consensus pattern (12 bp):
ATAATAAATAAA
Found at i:239112 original size:37 final size:36
Alignment explanation
Indices: 238958--239211 Score: 341
Period size: 35 Copynumber: 7.0 Consensus size: 36
238948 GCTATATTTA
* *
238958 TTTTATAAACTATATATTATATGTTTTCAAAAATA-
1 TTTTAAAAACTATATATTATACGTTTTCAAAAATAT
*
238993 TTTTAAAAACTATATATTATACGTTTTCAAAAGTAT
1 TTTTAAAAACTATATATTATACGTTTTCAAAAATAT
* * *
239029 TTTTAAAACCTATATAGTATACATTTTCAAAAATA-
1 TTTTAAAAACTATATATTATACGTTTTCAAAAATAT
* *
239064 TTTAAAAAACTATATATTATACATTTTCAAAAATATT
1 TTTTAAAAACTATATATTATACGTTTTCAAAAATA-T
* *
239101 TTTTAAGAACTATATATTATACATTTTCAAAAATATTT
1 TTTTAAAAACTATATATTATACGTTTTCAAAAATA--T
*
239139 TTTTAAAAACTATATATTATACGTTTTCAAAACTATTT
1 TTTTAAAAACTATATATTATACGTTTTCAAAA--ATAT
*
239177 TTTTAAAAATTATATATTATACGTTTTCAAAAATA
1 TTTTAAAAACTATATATTATACGTTTTCAAAAATA
239212 CGATTTCAAA
Statistics
Matches: 196, Mismatches: 17, Indels: 11
0.88 0.08 0.05
Matches are distributed among these distances:
35 64 0.33
36 33 0.17
37 33 0.17
38 64 0.33
40 2 0.01
ACGTcount: A:0.44, C:0.08, G:0.03, T:0.45
Consensus pattern (36 bp):
TTTTAAAAACTATATATTATACGTTTTCAAAAATAT
Found at i:239141 original size:38 final size:37
Alignment explanation
Indices: 238958--239211 Score: 347
Period size: 38 Copynumber: 6.9 Consensus size: 37
238948 GCTATATTTA
* *
238958 TTTTATAAACTATATATTATATGTTTTCAAAAATA--
1 TTTTAAAAACTATATATTATACGTTTTCAAAAATATT
*
238993 TTTTAAAAACTATATATTATACGTTTTCAAAAGTA-T
1 TTTTAAAAACTATATATTATACGTTTTCAAAAATATT
* * *
239029 TTTTAAAACCTATATAGTATACATTTTCAAAAATA--
1 TTTTAAAAACTATATATTATACGTTTTCAAAAATATT
* *
239064 TTTAAAAAACTATATATTATACATTTTCAAAAATATT
1 TTTTAAAAACTATATATTATACGTTTTCAAAAATATT
* *
239101 TTTTAAGAACTATATATTATACATTTTCAAAAATATTT
1 TTTTAAAAACTATATATTATACGTTTTCAAAAATA-TT
*
239139 TTTTAAAAACTATATATTATACGTTTTCAAAACTATTT
1 TTTTAAAAACTATATATTATACGTTTTCAAAAATA-TT
*
239177 TTTTAAAAATTATATATTATACGTTTTCAAAAATA
1 TTTTAAAAACTATATATTATACGTTTTCAAAAATA
239212 CGATTTCAAA
Statistics
Matches: 198, Mismatches: 17, Indels: 5
0.90 0.08 0.02
Matches are distributed among these distances:
35 64 0.32
36 31 0.16
37 33 0.17
38 70 0.35
ACGTcount: A:0.44, C:0.08, G:0.03, T:0.45
Consensus pattern (37 bp):
TTTTAAAAACTATATATTATACGTTTTCAAAAATATT
Found at i:239236 original size:38 final size:36
Alignment explanation
Indices: 238958--239245 Score: 288
Period size: 38 Copynumber: 7.9 Consensus size: 36
238948 GCTATATTTA
*
238958 TTTTATAAAC-TATATATTATATGTTTTCAAAAATAT
1 TTTTA-AAACATATATATTATACGTTTTCAAAAATAT
* *
238994 TTTAAAAAC-TATATATTATACGTTTTCAAAAGTAT
1 TTTTAAAACATATATATTATACGTTTTCAAAAATAT
* * *
239029 TTTTAAAACCTATATAGTATACATTTTCAAAAATAT
1 TTTTAAAACATATATATTATACGTTTTCAAAAATAT
** *
239065 TTAAAAAAC-TATATATTATACATTTTCAAAAATATT
1 TTTTAAAACATATATATTATACGTTTTCAAAAATA-T
*
239101 TTTTAAGAAC-TATATATTATACATTTTCAAAAATATTT
1 TTTTAA-AACATATATATTATACGTTTTCAAAAATA--T
*
239139 TTTTAAAA-ACTATATATTATACGTTTTCAAAACTATTT
1 TTTTAAAACA-TATATATTATACGTTTTCAAAA--ATAT
*
239177 TTTTAAAA-ATTATATATTATACGTTTTCAAAAATACGA
1 TTTTAAAACA-TATATATTATACGTTTTCAAAAATA--T
*
239215 TTTCAAAACATATACTA-TATAC--TTTCAAAAA
1 TTTTAAAACATATA-TATTATACGTTTTCAAAAA
239246 AACTACATCT
Statistics
Matches: 222, Mismatches: 18, Indels: 24
0.84 0.07 0.09
Matches are distributed among these distances:
35 60 0.27
36 50 0.23
37 30 0.14
38 77 0.35
39 3 0.01
40 2 0.01
ACGTcount: A:0.44, C:0.09, G:0.03, T:0.44
Consensus pattern (36 bp):
TTTTAAAACATATATATTATACGTTTTCAAAAATAT
Found at i:248564 original size:45 final size:45
Alignment explanation
Indices: 248448--248991 Score: 853
Period size: 45 Copynumber: 12.2 Consensus size: 45
248438 ATCAACAAAT
* * * * *
248448 TTACCATTTATCCCATAAGCTCATAAACTTGTTTTACCAACATAC
1 TTACCATTTATTCCATAAGCTCGTAAGCCTATTTTACCAACATAC
* * * *
248493 TT-TCATTTATTCCAGAAGCTCATAAGCTTATTTTACCAACATAC
1 TTACCATTTATTCCATAAGCTCGTAAGCCTATTTTACCAACATAC
*
248537 TTACCATTTATTCCATAAGCTCGTAAGCCTATTTTACCAATATAC
1 TTACCATTTATTCCATAAGCTCGTAAGCCTATTTTACCAACATAC
* *
248582 TTACCCTTTATTCCATAAGCTCGTAAGCCTATTTTACCAATATAC
1 TTACCATTTATTCCATAAGCTCGTAAGCCTATTTTACCAACATAC
248627 TTACCA-TTATTCCATAAGCTCGTAAGCCTATTTTACCAACATAC
1 TTACCATTTATTCCATAAGCTCGTAAGCCTATTTTACCAACATAC
* *
248671 TTACCATTTATTCCATAAGCTCGTAAGCTTATTTTACCAATATAC
1 TTACCATTTATTCCATAAGCTCGTAAGCCTATTTTACCAACATAC
* *
248716 TTACCCTTTATTCCATAAGCTCGTAAGCCTATTTTACCAATATAC
1 TTACCATTTATTCCATAAGCTCGTAAGCCTATTTTACCAACATAC
248761 TTACCA-TTATTCCATAAGCTCGTAAGCCTATTTTACCAACATAC
1 TTACCATTTATTCCATAAGCTCGTAAGCCTATTTTACCAACATAC
*
248805 TTACCATTTATTCCATAAGCTCGTAAGCCTATTTTACCAATATAC
1 TTACCATTTATTCCATAAGCTCGTAAGCCTATTTTACCAACATAC
* *
248850 TTACCCTTTATTCCATAAGCTTGTAAGCCTATTTTACCAACATAC
1 TTACCATTTATTCCATAAGCTCGTAAGCCTATTTTACCAACATAC
248895 TTACCA-TTATTCCATAAGCTCGTAAGCCTATTTTACCAACATAC
1 TTACCATTTATTCCATAAGCTCGTAAGCCTATTTTACCAACATAC
* * *
248939 TTACCATTTATTCCATAAGCTCGCAAGCTTATTTTACCAATATAC
1 TTACCATTTATTCCATAAGCTCGTAAGCCTATTTTACCAACATAC
*
248984 ATACCATT
1 TTACCATT
248992 AACCTCATTT
Statistics
Matches: 466, Mismatches: 29, Indels: 8
0.93 0.06 0.02
Matches are distributed among these distances:
44 168 0.36
45 298 0.64
ACGTcount: A:0.31, C:0.26, G:0.06, T:0.37
Consensus pattern (45 bp):
TTACCATTTATTCCATAAGCTCGTAAGCCTATTTTACCAACATAC
Found at i:248627 original size:134 final size:134
Alignment explanation
Indices: 248448--248988 Score: 913
Period size: 134 Copynumber: 4.0 Consensus size: 134
248438 ATCAACAAAT
* * * * * * * *
248448 TTACCATTTATCCCATAAGCTCATAAACTTGTTTTACCAACATACTT-TCATTTATTCCAGAAGC
1 TTACCCTTTATTCCATAAGCTCGTAAGCCTATTTTACCAACATACTTACCA-TTATTCCATAAGC
* *
248512 TCATAAGCTTATTTTACCAACATACTTACCATTTATTCCATAAGCTCGTAAGCCTATTTTACCAA
65 TCGTAAGCCTATTTTACCAACATACTTACCATTTATTCCATAAGCTCGTAAGCCTATTTTACCAA
248577 TATAC
130 TATAC
*
248582 TTACCCTTTATTCCATAAGCTCGTAAGCCTATTTTACCAATATACTTACCATTATTCCATAAGCT
1 TTACCCTTTATTCCATAAGCTCGTAAGCCTATTTTACCAACATACTTACCATTATTCCATAAGCT
*
248647 CGTAAGCCTATTTTACCAACATACTTACCATTTATTCCATAAGCTCGTAAGCTTATTTTACCAAT
66 CGTAAGCCTATTTTACCAACATACTTACCATTTATTCCATAAGCTCGTAAGCCTATTTTACCAAT
248712 ATAC
131 ATAC
*
248716 TTACCCTTTATTCCATAAGCTCGTAAGCCTATTTTACCAATATACTTACCATTATTCCATAAGCT
1 TTACCCTTTATTCCATAAGCTCGTAAGCCTATTTTACCAACATACTTACCATTATTCCATAAGCT
248781 CGTAAGCCTATTTTACCAACATACTTACCATTTATTCCATAAGCTCGTAAGCCTATTTTACCAAT
66 CGTAAGCCTATTTTACCAACATACTTACCATTTATTCCATAAGCTCGTAAGCCTATTTTACCAAT
248846 ATAC
131 ATAC
*
248850 TTACCCTTTATTCCATAAGCTTGTAAGCCTATTTTACCAACATACTTACCATTATTCCATAAGCT
1 TTACCCTTTATTCCATAAGCTCGTAAGCCTATTTTACCAACATACTTACCATTATTCCATAAGCT
* *
248915 CGTAAGCCTATTTTACCAACATACTTACCATTTATTCCATAAGCTCGCAAGCTTATTTTACCAAT
66 CGTAAGCCTATTTTACCAACATACTTACCATTTATTCCATAAGCTCGTAAGCCTATTTTACCAAT
248980 ATAC
131 ATAC
*
248984 ATACC
1 TTACC
248989 ATTAACCTCA
Statistics
Matches: 388, Mismatches: 18, Indels: 2
0.95 0.04 0.00
Matches are distributed among these distances:
134 386 0.99
135 2 0.01
ACGTcount: A:0.31, C:0.26, G:0.06, T:0.37
Consensus pattern (134 bp):
TTACCCTTTATTCCATAAGCTCGTAAGCCTATTTTACCAACATACTTACCATTATTCCATAAGCT
CGTAAGCCTATTTTACCAACATACTTACCATTTATTCCATAAGCTCGTAAGCCTATTTTACCAAT
ATAC
Found at i:248640 original size:89 final size:89
Alignment explanation
Indices: 248448--248992 Score: 833
Period size: 89 Copynumber: 6.1 Consensus size: 89
248438 ATCAACAAAT
* * * * * * *
248448 TTACCATTTATCCCATAAGCTCATAAACTTGTTTTACCAACATACTT-TCATTTATTCCAGAAGC
1 TTACCA-TTATTCCATAAGCTCGTAAGCCTATTTTACCAACATACTTACCATTTATTCCATAAGC
* *
248512 TCATAAGCTTATTTTACCAACATAC
65 TCGTAAGCCTATTTTACCAACATAC
* *
248537 TTACCATTTATTCCATAAGCTCGTAAGCCTATTTTACCAATATACTTACCCTTTATTCCATAAGC
1 TTACCA-TTATTCCATAAGCTCGTAAGCCTATTTTACCAACATACTTACCATTTATTCCATAAGC
*
248602 TCGTAAGCCTATTTTACCAATATAC
65 TCGTAAGCCTATTTTACCAACATAC
248627 TTACCATTATTCCATAAGCTCGTAAGCCTATTTTACCAACATACTTACCATTTATTCCATAAGCT
1 TTACCATTATTCCATAAGCTCGTAAGCCTATTTTACCAACATACTTACCATTTATTCCATAAGCT
* *
248692 CGTAAGCTTATTTTACCAATATAC
66 CGTAAGCCTATTTTACCAACATAC
* *
248716 TTACCCTTTATTCCATAAGCTCGTAAGCCTATTTTACCAATATACTTACCA-TTATTCCATAAGC
1 TTA-CCATTATTCCATAAGCTCGTAAGCCTATTTTACCAACATACTTACCATTTATTCCATAAGC
248780 TCGTAAGCCTATTTTACCAACATAC
65 TCGTAAGCCTATTTTACCAACATAC
* *
248805 TTACCATTTATTCCATAAGCTCGTAAGCCTATTTTACCAATATACTTACCCTTTATTCCATAAGC
1 TTACCA-TTATTCCATAAGCTCGTAAGCCTATTTTACCAACATACTTACCATTTATTCCATAAGC
*
248870 TTGTAAGCCTATTTTACCAACATAC
65 TCGTAAGCCTATTTTACCAACATAC
248895 TTACCATTATTCCATAAGCTCGTAAGCCTATTTTACCAACATACTTACCATTTATTCCATAAGCT
1 TTACCATTATTCCATAAGCTCGTAAGCCTATTTTACCAACATACTTACCATTTATTCCATAAGCT
* * *
248960 CGCAAGCTTATTTTACCAATATAC
66 CGTAAGCCTATTTTACCAACATAC
*
248984 ATACCATTA
1 TTACCATTA
248993 ACCTCATTTA
Statistics
Matches: 423, Mismatches: 29, Indels: 8
0.92 0.06 0.02
Matches are distributed among these distances:
88 2 0.00
89 291 0.69
90 130 0.31
ACGTcount: A:0.31, C:0.26, G:0.06, T:0.37
Consensus pattern (89 bp):
TTACCATTATTCCATAAGCTCGTAAGCCTATTTTACCAACATACTTACCATTTATTCCATAAGCT
CGTAAGCCTATTTTACCAACATAC
Found at i:249188 original size:59 final size:58
Alignment explanation
Indices: 249125--249237 Score: 142
Period size: 59 Copynumber: 1.9 Consensus size: 58
249115 CTTCCCCTTT
*
249125 CATTTTAG-CATGCAAAGTGCCCTAT-TCAAAAAT-TCATACCATTAGTATGATTTTGTTAC
1 CATTTTAGACATGAAAAGT--CCTATGT-AAAAATCT-ATACCATTAGTATGATTTTGTTAC
*
249184 CATTTTAGCACATGAAAAGTCCTATGTGAAAATCTATACCATTAGTATGATTTT
1 CATTTTAG-ACATGAAAAGTCCTATGTAAAAATCTATACCATTAGTATGATTTT
249238 CTTATCTTTG
Statistics
Matches: 48, Mismatches: 2, Indels: 8
0.83 0.03 0.14
Matches are distributed among these distances:
59 37 0.77
60 2 0.04
61 9 0.19
ACGTcount: A:0.34, C:0.17, G:0.12, T:0.37
Consensus pattern (58 bp):
CATTTTAGACATGAAAAGTCCTATGTAAAAATCTATACCATTAGTATGATTTTGTTAC
Found at i:249418 original size:117 final size:117
Alignment explanation
Indices: 249180--249664 Score: 704
Period size: 117 Copynumber: 4.1 Consensus size: 117
249170 TATGATTTTG
* * * * ** * *
249180 TTACCATTTTAGCACATGAAAA-GTCCTATGTGAAAATCTATACCATT-AGTATGATTTTCTTAT
1 TTACCATTTTAGCACAT-AAAATGCCCTATATGGAAATCCATA-TTTTCAATATGATTTCCTTAT
* * * ** * * * *
249243 CTTTGTAGCACCCTTAGTGCTTTATCTAGAAATCCATACACTCAATATGATTCCC
64 CATT-TAGCACACTCAGTGCTCCATATGGAAATCTATACACTCAGTATGATTCCC
*
249298 TTACCATTTTAGCACATAAAATGCCCTATCTGGAAATCCATATTTTCAATATGATTTCCTTATCA
1 TTACCATTTTAGCACATAAAATGCCCTATATGGAAATCCATATTTTCAATATGATTTCCTTATCA
249363 TTTAGCACACTCAGTGCTCCATATGGAAATCTATACACTCAGTATGATTCCC
66 TTTAGCACACTCAGTGCTCCATATGGAAATCTATACACTCAGTATGATTCCC
*
249415 TTACCATTTTAGCACATAAAATGCCCTATATGGAAATCCATATTTTCAATATGATTTTCTTATCA
1 TTACCATTTTAGCACATAAAATGCCCTATATGGAAATCCATATTTTCAATATGATTTCCTTATCA
249480 TTTAGCACACTCAGTGCTCCATATGGAAATCTATACACTCAGTATGATTCCC
66 TTTAGCACACTCAGTGCTCCATATGGAAATCTATACACTCAGTATGATTCCC
* *
249532 TTACCTTTTTAGCACATAAAATGCCCTATATGGAAATCCATATTTTCAATATAATTTCCTTATCA
1 TTACCATTTTAGCACATAAAATGCCCTATATGGAAATCCATATTTTCAATATGATTTCCTTATCA
** *
249597 TTTAGCACACTCAGTGCTCCATGGGGAAATCTATACACTCAGTATGATTTCC
66 TTTAGCACACTCAGTGCTCCATATGGAAATCTATACACTCAGTATGATTCCC
*
249649 TTATCATTTTAGCACA
1 TTACCATTTTAGCACA
249665 CAAAGTGTCA
Statistics
Matches: 338, Mismatches: 27, Indels: 5
0.91 0.07 0.01
Matches are distributed among these distances:
117 288 0.85
118 50 0.15
ACGTcount: A:0.31, C:0.22, G:0.11, T:0.36
Consensus pattern (117 bp):
TTACCATTTTAGCACATAAAATGCCCTATATGGAAATCCATATTTTCAATATGATTTCCTTATCA
TTTAGCACACTCAGTGCTCCATATGGAAATCTATACACTCAGTATGATTCCC
Found at i:249692 original size:59 final size:58
Alignment explanation
Indices: 249213--249671 Score: 350
Period size: 59 Copynumber: 7.8 Consensus size: 58
249203 TCCTATGTGA
* * * * ** ** * *
249213 AAATCTATAC-CATTAGTATGATTTTCTTATCTTTGTAGCACCCTTAGTGCTTTATCTAG
1 AAATCTATACAC-TCAGTATGATTTCCTTATCATT-TAGCACACAAAGTGCTCCATATGG
* * * * * * *
249272 AAATCCATACACTCAATATGATTCCCTTACCATTTTAGCACATAAAATGC-CCTATCTGG
1 AAATCTATACACTCAGTATGATTTCCTTATCA-TTTAGCACACAAAGTGCTCC-ATATGG
* *** * **
249331 AAATCCATATTTTCAATATGATTTCCTTATCATTTAGCACACTCAGTGCTCCATATGG
1 AAATCTATACACTCAGTATGATTTCCTTATCATTTAGCACACAAAGTGCTCCATATGG
* * * *
249389 AAATCTATACACTCAGTATGATTCCCTTACCATTTTAGCACATAAAATGC-CCTATATGG
1 AAATCTATACACTCAGTATGATTTCCTTATCA-TTTAGCACACAAAGTGCTCC-ATATGG
* *** * * **
249448 AAATCCATATTTTCAATATGATTTTCTTATCATTTAGCACACTCAGTGCTCCATATGG
1 AAATCTATACACTCAGTATGATTTCCTTATCATTTAGCACACAAAGTGCTCCATATGG
* * * * *
249506 AAATCTATACACTCAGTATGATTCCCTTACCTTTTTAGCACATAAAATGC-CCTATATGG
1 AAATCTATACACTCAGTATGATTTCCTTATC-ATTTAGCACACAAAGTGCTCC-ATATGG
* *** * * ** **
249565 AAATCCATATTTTCAATATAATTTCCTTATCATTTAGCACACTCAGTGCTCCATGGGG
1 AAATCTATACACTCAGTATGATTTCCTTATCATTTAGCACACAAAGTGCTCCATATGG
249623 AAATCTATACACTCAGTATGATTTCCTTATCATTTTAGCACACAAAGTG
1 AAATCTATACACTCAGTATGATTTCCTTATCA-TTTAGCACACAAAGTG
249672 TCATTTGGTA
Statistics
Matches: 305, Mismatches: 84, Indels: 22
0.74 0.20 0.05
Matches are distributed among these distances:
58 132 0.43
59 170 0.56
60 3 0.01
ACGTcount: A:0.31, C:0.22, G:0.10, T:0.36
Consensus pattern (58 bp):
AAATCTATACACTCAGTATGATTTCCTTATCATTTAGCACACAAAGTGCTCCATATGG
Found at i:253909 original size:17 final size:18
Alignment explanation
Indices: 253889--253926 Score: 60
Period size: 18 Copynumber: 2.2 Consensus size: 18
253879 GATAAGAATG
253889 AAAAAAT-AAAAGAAAAC
1 AAAAAATGAAAAGAAAAC
*
253906 AAAAAATGAAAGGAAAAC
1 AAAAAATGAAAAGAAAAC
253924 AAA
1 AAA
253927 TTAGTAAGAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 7 0.37
18 12 0.63
ACGTcount: A:0.79, C:0.05, G:0.11, T:0.05
Consensus pattern (18 bp):
AAAAAATGAAAAGAAAAC
Found at i:256392 original size:5 final size:5
Alignment explanation
Indices: 256382--256425 Score: 54
Period size: 5 Copynumber: 8.4 Consensus size: 5
256372 ATTAATAACA
256382 ATAAT ATAAT ATAAT ATAAT A-AAT AATATAT ATATAT ATAAT AT
1 ATAAT ATAAT ATAAT ATAAT ATAAT -ATA-AT ATA-AT ATAAT AT
256426 GTATACTATA
Statistics
Matches: 36, Mismatches: 0, Indels: 6
0.86 0.00 0.14
Matches are distributed among these distances:
4 3 0.08
5 21 0.58
6 10 0.28
7 2 0.06
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (5 bp):
ATAAT
Found at i:256409 original size:22 final size:22
Alignment explanation
Indices: 256367--256424 Score: 73
Period size: 22 Copynumber: 2.5 Consensus size: 22
256357 AAAAAGAAAA
256367 ATAATATTAATAACAATAATATAAT
1 ATAATA-TAAT-ACAATAATAT-AT
256392 ATAATATAATA-AATAATATAT
1 ATAATATAATACAATAATATAT
256413 ATATATATAATA
1 ATA-ATATAATA
256425 TGTATACTAT
Statistics
Matches: 32, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
21 5 0.16
22 16 0.50
23 1 0.03
24 4 0.12
25 6 0.19
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.38
Consensus pattern (22 bp):
ATAATATAATACAATAATATAT
Found at i:256504 original size:35 final size:34
Alignment explanation
Indices: 256453--256787 Score: 274
Period size: 35 Copynumber: 9.2 Consensus size: 34
256443 TAAAAACTAT
* * *
256453 AAAAACTATTTTAAAAATAATATACTATATGTTTTC
1 AAAAA-TATTTAAAAAAT-ATATATTATACGTTTTC
256489 AAAAATATTTAAAAAAATTATATATTATACGTTTTC
1 AAAAATATTT-AAAAAA-TATATATTATACGTTTTC
* * **
256525 AACAGTAGTTTTAAAAGCTATATATTATACGTTTTC
1 AAAAATA--TTTAAAAAATATATATTATACGTTTTC
*
256561 AAAAATATTTAAAAAAATATATATTATATGTTTTC
1 AAAAATATTT-AAAAAATATATATTATACGTTTTC
* *
256596 AAAAATATTTTTTAAGAACTATATATTATACGTTTTC
1 AAAAATA---TTTAAAAAATATATATTATACGTTTTC
* *
256633 AAAACTATTTTTTTAAAAACTATATATTATACGTTTTC
1 AAAA--A--TATTTAAAAAATATATATTATACGTTTTC
* *
256671 AAAGATATTTTAAAAACTATATATTATACGTTTTC
1 AAAAATA-TTTAAAAAATATATATTATACGTTTTC
* *
256706 AAAACTATTTTTTAAAAAAACTATATATTATATGTTTTC
1 AAAA--A-TATTT-AAAAAA-TATATATTATACGTTTTC
* ** ** *
256745 AAAAAATGTTTTCCAAACCATTTATTATACGTTTTC
1 -AAAAAT-ATTTAAAAAATATATATTATACGTTTTC
256781 AAAAATA
1 AAAAATA
256788 CGTTTTCAAA
Statistics
Matches: 249, Mismatches: 30, Indels: 42
0.78 0.09 0.13
Matches are distributed among these distances:
34 4 0.02
35 69 0.28
36 69 0.28
37 38 0.15
38 46 0.18
39 18 0.07
40 4 0.02
41 1 0.00
ACGTcount: A:0.44, C:0.09, G:0.04, T:0.43
Consensus pattern (34 bp):
AAAAATATTTAAAAAATATATATTATACGTTTTC
Found at i:256540 original size:72 final size:70
Alignment explanation
Indices: 256459--256747 Score: 332
Period size: 72 Copynumber: 4.0 Consensus size: 70
256449 CTATAAAAAC
* * *
256459 TATTTTAAAAATAATATACTATATGTTTTCAAAA-ATATTTAAAAAAATTATATATTATACGTTT
1 TATTTTAAAAAT-ATATATTATACGTTTTCAAAACATATTTAAAAAAACTATATATTATACGTTT
256523 TCAACAG
65 TCAA-AG
* *
256530 TAGTTTTAAAAGCTATATATTATACGTTTTCAAAA-ATATTTAAAAAAA-TATATATTATATGTT
1 TA-TTTTAAAA-ATATATATTATACGTTTTCAAAACATATTTAAAAAAACTATATATTATACGTT
*
256593 TTCAAAAA
64 TTC-AAAG
* * **
256601 TATTTTTTAAGAACTATATATTATACGTTTTCAAAACTATTTTTTTAAAAACTATATATTATACG
1 TA--TTTTAA-AAATATATATTATACGTTTTCAAAAC-ATATTTAAAAAAACTATATATTATACG
256666 TTTTCAAAG
62 TTTTCAAAG
* *
256675 ATATTTTAAAAACTATATATTATACGTTTTCAAAACTATTTTTTAAAAAAACTATATATTATATG
1 -TATTTTAAAAA-TATATATTATACGTTTTCAAAAC-A-TATTTAAAAAAACTATATATTATACG
256740 TTTTCAAA
62 TTTTCAAA
256748 AAATGTTTTC
Statistics
Matches: 192, Mismatches: 15, Indels: 19
0.85 0.07 0.08
Matches are distributed among these distances:
71 22 0.11
72 73 0.38
73 34 0.18
74 44 0.23
75 19 0.10
ACGTcount: A:0.44, C:0.08, G:0.04, T:0.44
Consensus pattern (70 bp):
TATTTTAAAAATATATATTATACGTTTTCAAAACATATTTAAAAAAACTATATATTATACGTTTT
CAAAG
Found at i:256670 original size:110 final size:108
Alignment explanation
Indices: 256465--256787 Score: 407
Period size: 110 Copynumber: 3.0 Consensus size: 108
256455 AAACTATTTT
* ** *
256465 AAAAATAATATACTATATGTTTTCAAAAATA-TTTAAAAAAATTATATATTATACGTTTTCAACA
1 AAAAAT-ATATATTATATGTTTTCAAAAATATTTTTTAAAAACTATATATTATACGTTTTCAA-A
* *
256529 GTA-GTTTTAAAAGCTATATATTATACGTTTTCAAAAATATTTAA
64 ATATGTTTTAAAAACTATATATTATACGTTTTCAAAAATATTTAA
*
256573 AAAAATATATATTATATGTTTTCAAAAATATTTTTTAAGAACTATATATTATACGTTTTCAAAAC
1 AAAAATATATATTATATGTTTTCAAAAATATTTTTTAAAAACTATATATTATACGTTTTCAAAA-
* * *
256638 TATTTTTTTAAAAACTATATATTATACGTTTTCAAAGATATTTTA
65 TA-TGTTTTAAAAACTATATATTATACGTTTTCAAAAATATTTAA
* * * *
256683 AAAACTATATATTATACGTTTTCAAAACTATTTTTTAAAAAAACTATATATTATATGTTTTCAAA
1 AAAAATATATATTATATGTTTTCAAAAATATTTTTT--AAAAACTATATATTATACGTTTTCAAA
* ** * *
256748 AAATGTTTTCCAAACCATTTATTATACGTTTTCAAAAATA
64 ATATGTTTTAAAAACTATATATTATACGTTTTCAAAAATA
256788 CGTTTTCAAA
Statistics
Matches: 187, Mismatches: 22, Indels: 10
0.85 0.10 0.05
Matches are distributed among these distances:
107 24 0.13
108 35 0.19
110 101 0.54
111 1 0.01
112 26 0.14
ACGTcount: A:0.44, C:0.09, G:0.05, T:0.43
Consensus pattern (108 bp):
AAAAATATATATTATATGTTTTCAAAAATATTTTTTAAAAACTATATATTATACGTTTTCAAAAT
ATGTTTTAAAAACTATATATTATACGTTTTCAAAAATATTTAA
Found at i:256790 original size:14 final size:14
Alignment explanation
Indices: 256771--256798 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
256761 ACCATTTATT
256771 ATACGTTTTCAAAA
1 ATACGTTTTCAAAA
256785 ATACGTTTTCAAAA
1 ATACGTTTTCAAAA
256799 CATATATTAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.43, C:0.14, G:0.07, T:0.36
Consensus pattern (14 bp):
ATACGTTTTCAAAA
Found at i:256817 original size:36 final size:36
Alignment explanation
Indices: 256544--256821 Score: 140
Period size: 35 Copynumber: 7.6 Consensus size: 36
256534 TTTAAAAGCT
* *** *
256544 ATATATTATACGTTTTCAAAAATA--TTTAAAAAAAT
1 ATATATTATATGTTTTCAAAAA-ACGTTTTCCAAAAC
**
256579 ATATATTATATGTTTTCAAAAATA--TTTTTTAAGAAC
1 ATATATTATATGTTTTCAAAAA-ACGTTTTCCAA-AAC
* * ** **
256615 TATATATTATACGTTTTCAAAACTATTTTTTTAAAAAC
1 -ATATATTATATGTTTTCAAAA-AACGTTTTCCAAAAC
* * *
256653 TATATATTATACGTTTTCAAAGATA--TTTT-AAAAAC
1 -ATATATTATATGTTTTCAAA-AAACGTTTTCCAAAAC
* * ** **
256688 TATATATTATACGTTTTCAAAACTATTTTTTAAAAAAAC
1 -ATATATTATATGTTTTCAAAA-AACGTTTT-CCAAAAC
* *
256727 TATATATTATATGTTTTCAAAAAATGTTTTCCAAACC
1 -ATATATTATATGTTTTCAAAAAACGTTTTCCAAAAC
* *
256764 ATTTATTATACGTTTTCAAAAATACGTTTT-CAAAAC
1 ATATATTATATGTTTTCAAAAA-ACGTTTTCCAAAAC
**
256800 ATATATTATATACTTTCAAAAA
1 ATATATTATATGTTTTCAAAAA
256822 CTACATTTGA
Statistics
Matches: 209, Mismatches: 22, Indels: 23
0.82 0.09 0.09
Matches are distributed among these distances:
34 1 0.00
35 57 0.27
36 49 0.23
37 35 0.17
38 32 0.15
39 35 0.17
ACGTcount: A:0.43, C:0.10, G:0.04, T:0.44
Consensus pattern (36 bp):
ATATATTATATGTTTTCAAAAAACGTTTTCCAAAAC
Found at i:262266 original size:102 final size:102
Alignment explanation
Indices: 262128--262351 Score: 285
Period size: 102 Copynumber: 2.2 Consensus size: 102
262118 TTGGCAGGTT
* *
262128 AATGTCTTCCCCTTAAACTTGAAGCCATATTGCCATATGGATTCTGAATGGACTATTGAGTAGAT
1 AATGCCTTCCCCTTAAACTTGAAGCCATATTGCCATATAGATTCTGAATGGACTATTGAGTAGAT
*
262193 -GACATTTTGATACT-GAGGTCA-AAGAAGTTAGCAAATG
66 AG-CATTTCGATA-TAGAGGT-AGAAGAAGTTAGCAAATG
* * * * *
262230 AATGCCCTT-CCCTTAAACTTGAAGTCGTATTTCCATATAGATTCTGAATGGACTGTTGAGTGGA
1 AATG-CCTTCCCCTTAAACTTGAAGCCATATTGCCATATAGATTCTGAATGGACTATTGAGTAGA
* *
262294 TAGCATTTCGATATAGAGGTAGAAGAAGTTGGCAGATG
65 TAGCATTTCGATATAGAGGTAGAAGAAGTTAGCAAATG
*
262332 AATGCCTTCCCCTTGAACTT
1 AATGCCTTCCCCTTAAACTT
262352 AAAGAGATGT
Statistics
Matches: 106, Mismatches: 11, Indels: 10
0.83 0.09 0.08
Matches are distributed among these distances:
101 6 0.06
102 96 0.91
103 4 0.04
ACGTcount: A:0.30, C:0.17, G:0.21, T:0.32
Consensus pattern (102 bp):
AATGCCTTCCCCTTAAACTTGAAGCCATATTGCCATATAGATTCTGAATGGACTATTGAGTAGAT
AGCATTTCGATATAGAGGTAGAAGAAGTTAGCAAATG
Found at i:262997 original size:2 final size:2
Alignment explanation
Indices: 262990--263032 Score: 77
Period size: 2 Copynumber: 21.0 Consensus size: 2
262980 AATAGAAGAA
262990 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT CAT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT -AT AT
263033 TAACATGTAA
Statistics
Matches: 40, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
2 38 0.95
3 2 0.05
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:263665 original size:199 final size:194
Alignment explanation
Indices: 263134--263875 Score: 610
Period size: 192 Copynumber: 3.8 Consensus size: 194
263124 AAATTATTTG
* * * *** *
263134 CATTAACCACCA-AATTTCATCTATAGATAATATTCCTCTGTGGGGAACTATTTATC-CTACTA-
1 CATTAACCA-CATAATTTCATCTACATATAATGTTCCTCTACAGGGAACTA-TTATCTCCACTAT
* ** * * * *
263196 CCTCCATATTTTATGGGATGAGACACTGGTGTCTTAAATTAATAAACACTATGACATAACAAAGA
64 CTTCC-TGGTTGATGGGATAAGACACTGGTGTCTCAAATTAATAAACACTATGACATGACAAAGA
* * * * * *
263261 TTCTCTGCCATGTGTGAAAGAGCTTCTTGTGAAAAGTATCT-TTTCTTCTCTATTG-AGATTCTC
128 TTCTCTGCCATGTGTGAAAGAGCTTCTTGTGAAAAGTCTTTATTTTTTCTTTTTTGCAAATTCTC
263324 TA
193 TA
* * * * * *
263326 CATTAACCACTTGATTTCA-C-A-ATGGATAATATTTCTTTACCGGGGAACTATTTATCT-CACT
1 CATTAACCACATAATTTCATCTACAT--ATAATGTTCCTCTA-CAGGGAACTA-TTATCTCCACT
* ** * * * * * *
263387 AT-TTCCCTGGTTCATGCAATGAGACACTAGTGTCTCAAATTAATAGATACTATGACATGATAGA
62 ATCTT-CCTGGTTGATGGGATAAGACACTGGTGTCTCAAATTAATAAACACTATGACATGACAAA
* *
263451 GGTTCTCTGCCATGTGTGAAAGAGCTTCTTGTGAAAAATGTCTTTATTTTTTTTTTTTTGCAAAA
126 GATTCTCTGCCATGTGTGAAAGAGCTTCTTGTG-AAAA-GTCTTTATTTTTTCTTTTTTGC--AA
263516 ATTCTCTA
187 ATTCTCTA
* *
263524 CATTAACCACATAATTTCATCTACATATAATGTTCCTCTACAGGGAACTATTCACCTCCATTATC
1 CATTAACCACATAATTTCATCTACATATAATGTTCCTCTACAGGGAACTATT-ATCTCCACTATC
*
263589 TTTCTGGTTGATGGGATAAGACACTGGTGTCTCAAATTAA-AAGACACTATGACATGGA-AAAGA
65 TTCCTGGTTGATGGGATAAGACACTGGTGTCTCAAATTAATAA-ACACTATGACAT-GACAAAGA
* * * * * * ** *
263652 TTCTTTTCCATGTGTGAAAGAGTTTCTTGTGAAAAG-C--GA--TTTCCCTTTTTGCTGATGTTT
128 TTCTCTGCCATGTGTGAAAGAGCTTCTTGTGAAAAGTCTTTATTTTTTCTTTTTTGCAAAT-TCT
263712 CTA
192 CTA
* * * *
263715 CATTAACCACCTAATTTTATCTACATAAAATGTTCCTCTTCAGGGAACTATATATC-CCACTATC
1 CATTAACCACATAATTTCATCTACATATAATGTTCCTCTACAGGGAACTAT-TATCTCCACTATC
* * * *
263779 TCCCTGCTTGATGGGATGAA-ATA-TGTGTGTCTC-AATTAATAAACAATATGACATGA-AAGAG
65 TTCCTGGTTGATGGGAT-AAGACACTG-GTGTCTCAAATTAATAAACACTATGACATGACAA-AG
* * *
263840 ATTCTTTGCAATGTATGAAAGAGCTTCTTGTGAAAA
127 ATTCTCTGCCATGTGTGAAAGAGCTTCTTGTGAAAA
263876 ACGTCTTCCT
Statistics
Matches: 451, Mismatches: 72, Indels: 57
0.78 0.12 0.10
Matches are distributed among these distances:
188 4 0.01
189 54 0.12
190 35 0.08
191 69 0.15
192 123 0.27
193 6 0.01
194 5 0.01
195 10 0.02
196 1 0.00
197 3 0.01
198 43 0.10
199 91 0.20
200 5 0.01
201 2 0.00
ACGTcount: A:0.31, C:0.18, G:0.15, T:0.36
Consensus pattern (194 bp):
CATTAACCACATAATTTCATCTACATATAATGTTCCTCTACAGGGAACTATTATCTCCACTATCT
TCCTGGTTGATGGGATAAGACACTGGTGTCTCAAATTAATAAACACTATGACATGACAAAGATTC
TCTGCCATGTGTGAAAGAGCTTCTTGTGAAAAGTCTTTATTTTTTCTTTTTTGCAAATTCTCTA
Found at i:264178 original size:29 final size:29
Alignment explanation
Indices: 264110--264188 Score: 88
Period size: 29 Copynumber: 2.7 Consensus size: 29
264100 TTTAACGAAC
*
264110 TAGTGGTATAATTGAAACAAAATAAAAGTT
1 TAGT-GTATAATTGATACAAAATAAAAGTT
* *
264140 CAGTGTTATAATTGATA-AAATTAAAAGTT
1 TAGTG-TATAATTGATACAAAATAAAAGTT
*
264169 TAGTAGTATAAATGATACAA
1 TAGT-GTATAATTGATACAA
264189 CACCTAAAGT
Statistics
Matches: 41, Mismatches: 5, Indels: 6
0.79 0.10 0.12
Matches are distributed among these distances:
29 25 0.61
30 16 0.39
ACGTcount: A:0.48, C:0.04, G:0.15, T:0.33
Consensus pattern (29 bp):
TAGTGTATAATTGATACAAAATAAAAGTT
Found at i:268990 original size:17 final size:17
Alignment explanation
Indices: 268958--268991 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
268948 TTATTATAGT
* *
268958 ATTTATTATTAGATTGA
1 ATTTATTAATAAATTGA
268975 ATTTATTAATAAATTGA
1 ATTTATTAATAAATTGA
268992 CTCTATTTTC
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.41, C:0.00, G:0.09, T:0.50
Consensus pattern (17 bp):
ATTTATTAATAAATTGA
Found at i:270790 original size:20 final size:20
Alignment explanation
Indices: 270767--270818 Score: 86
Period size: 20 Copynumber: 2.6 Consensus size: 20
270757 GTTTCCAGAT
*
270767 TCGCAACGCGATTTTGACTA
1 TCGCAACGCGATTCTGACTA
270787 TCGCAACGCGATTCTGACTA
1 TCGCAACGCGATTCTGACTA
*
270807 TCACAACGCGAT
1 TCGCAACGCGAT
270819 AATACAAAAT
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):
TCGCAACGCGATTCTGACTA
Found at i:271013 original size:22 final size:22
Alignment explanation
Indices: 270978--271019 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
270968 TCACTCTCTA
* *
270978 CGACGACATTCGTCCCCATCGC
1 CGACGAAATCCGTCCCCATCGC
271000 CGACGAAATCCGTCCCCATC
1 CGACGAAATCCGTCCCCATC
271020 TTCGGTAAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.21, C:0.45, G:0.17, T:0.17
Consensus pattern (22 bp):
CGACGAAATCCGTCCCCATCGC
Found at i:271489 original size:20 final size:20
Alignment explanation
Indices: 271425--271491 Score: 100
Period size: 20 Copynumber: 3.4 Consensus size: 20
271415 AAATCGCAAC
*
271425 GCGATTTTCA-TTTCGCGTT
1 GCGATTTTCATTTTCGTGTT
**
271444 GCGATAGTCATTTTCGTGTT
1 GCGATTTTCATTTTCGTGTT
271464 GCGATTTTCATTTTCGTGTT
1 GCGATTTTCATTTTCGTGTT
271484 GCGATTTT
1 GCGATTTT
271492 AAGTTTCAGA
Statistics
Matches: 42, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
19 8 0.19
20 34 0.81
ACGTcount: A:0.12, C:0.16, G:0.22, T:0.49
Consensus pattern (20 bp):
GCGATTTTCATTTTCGTGTT
Found at i:271498 original size:20 final size:20
Alignment explanation
Indices: 271455--271498 Score: 70
Period size: 20 Copynumber: 2.2 Consensus size: 20
271445 CGATAGTCAT
* *
271455 TTTCGTGTTGCGATTTTCAT
1 TTTCGTGTTGCGATTTTAAG
271475 TTTCGTGTTGCGATTTTAAG
1 TTTCGTGTTGCGATTTTAAG
271495 TTTC
1 TTTC
271499 AGAAACTATT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.11, C:0.14, G:0.20, T:0.55
Consensus pattern (20 bp):
TTTCGTGTTGCGATTTTAAG
Found at i:272781 original size:21 final size:21
Alignment explanation
Indices: 272757--272812 Score: 60
Period size: 21 Copynumber: 2.7 Consensus size: 21
272747 TGGTGCATGG
* * *
272757 CGTGATGAGGTATCTACTTTA
1 CGTGATGAGGTAGCGACTCTA
*
272778 CGTGGTGAGGTAGCGACTCTA
1 CGTGATGAGGTAGCGACTCTA
272799 CGTGA-GATGGTAGC
1 CGTGATGA-GGTAGC
272813 ATCGTTGCAT
Statistics
Matches: 29, Mismatches: 5, Indels: 2
0.81 0.14 0.06
Matches are distributed among these distances:
20 2 0.07
21 27 0.93
ACGTcount: A:0.21, C:0.16, G:0.34, T:0.29
Consensus pattern (21 bp):
CGTGATGAGGTAGCGACTCTA
Found at i:273187 original size:20 final size:20
Alignment explanation
Indices: 273164--273201 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
273154 AATAGCAACG
* *
273164 TGAAAATCTCAATGCGAAAA
1 TGAAAATCGCAACGCGAAAA
273184 TGAAAATCGCAACGCGAA
1 TGAAAATCGCAACGCGAA
273202 TTTAGTTTCT
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:0.47, C:0.18, G:0.18, T:0.16
Consensus pattern (20 bp):
TGAAAATCGCAACGCGAAAA
Found at i:273271 original size:20 final size:20
Alignment explanation
Indices: 273246--273333 Score: 88
Period size: 20 Copynumber: 4.4 Consensus size: 20
273236 CGACTATCTT
*
273246 GTTGCGATAGTCAAATTCGC
1 GTTGCGATAGTCAATTTCGC
273266 GTTGCGATAGTC-ATTTCCGC
1 GTTGCGATAGTCAATTT-CGC
* *
273286 ATTGCGATAGTCATTTTCGC
1 GTTGCGATAGTCAATTTCGC
* ** * *
273306 GTTGCAATTTTAAATTTCGT
1 GTTGCGATAGTCAATTTCGC
273326 GTTGCGAT
1 GTTGCGAT
273334 TAAGTTTCAG
Statistics
Matches: 55, Mismatches: 11, Indels: 4
0.79 0.16 0.06
Matches are distributed among these distances:
19 3 0.05
20 49 0.89
21 3 0.05
ACGTcount: A:0.20, C:0.18, G:0.23, T:0.39
Consensus pattern (20 bp):
GTTGCGATAGTCAATTTCGC
Found at i:273875 original size:21 final size:21
Alignment explanation
Indices: 273780--273887 Score: 76
Period size: 21 Copynumber: 5.1 Consensus size: 21
273770 GCCCGACTCA
* *
273780 CCTATCATCGTTCAAGCGGTC
1 CCTATCATCGTTCAAGAGGCC
* *
273801 TCT-CCTATCGTTCAAGAGGCC
1 CCTATC-ATCGTTCAAGAGGCC
* *
273822 CCTATCATTC-CTCAAGAGTCC
1 CCTATCA-TCGTTCAAGAGGCC
* *
273843 CCTCTCACCGTTCAAGAGGCC
1 CCTATCATCGTTCAAGAGGCC
* * * *
273864 CTTGTCATCGTTGAAGAGGTC
1 CCTATCATCGTTCAAGAGGCC
273885 CCT
1 CCT
273888 CCTACCATTC
Statistics
Matches: 65, Mismatches: 18, Indels: 8
0.71 0.20 0.09
Matches are distributed among these distances:
20 2 0.03
21 60 0.92
22 3 0.05
ACGTcount: A:0.19, C:0.34, G:0.19, T:0.28
Consensus pattern (21 bp):
CCTATCATCGTTCAAGAGGCC
Found at i:273881 original size:42 final size:42
Alignment explanation
Indices: 273791--273902 Score: 104
Period size: 42 Copynumber: 2.7 Consensus size: 42
273781 CTATCATCGT
* * *
273791 TCAAGCGGTCTCTCCTATCGTTCAAGAGGCCCCTATCATTCC
1 TCAAGAGGTCCCTCCTACCGTTCAAGAGGCCCCTATCATTCC
* * *
273833 TCAAGA-GTCCC-CTCTCACCGTTCAAGAGGCCCTTGTCA-TCGT
1 TCAAGAGGTCCCTC-CT-ACCGTTCAAGAGGCCCCTATCATTC-C
* *
273875 TGAAGAGGTCCCTCCTACCATTCAAGAG
1 TCAAGAGGTCCCTCCTACCGTTCAAGAG
273903 CCCGATTCAC
Statistics
Matches: 57, Mismatches: 8, Indels: 10
0.76 0.11 0.13
Matches are distributed among these distances:
40 1 0.02
41 8 0.14
42 40 0.70
43 7 0.12
44 1 0.02
ACGTcount: A:0.21, C:0.34, G:0.19, T:0.26
Consensus pattern (42 bp):
TCAAGAGGTCCCTCCTACCGTTCAAGAGGCCCCTATCATTCC
Found at i:275293 original size:14 final size:14
Alignment explanation
Indices: 275274--275310 Score: 65
Period size: 14 Copynumber: 2.6 Consensus size: 14
275264 GCTTGTTTAA
275274 TTGATTTGTAAAAG
1 TTGATTTGTAAAAG
*
275288 TTGATTTTTAAAAG
1 TTGATTTGTAAAAG
275302 TTGATTTGT
1 TTGATTTGT
275311 TTAATTGATG
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.30, C:0.00, G:0.19, T:0.51
Consensus pattern (14 bp):
TTGATTTGTAAAAG
Found at i:275467 original size:20 final size:20
Alignment explanation
Indices: 275444--275507 Score: 92
Period size: 20 Copynumber: 3.2 Consensus size: 20
275434 AACACTAAAC
* *
275444 TCAAAATAGCAATGTGAAAG
1 TCAAAATCGCAATGCGAAAG
275464 TCAAAATCGCAATGCGAAAG
1 TCAAAATCGCAATGCGAAAG
* *
275484 CCAAAATCGCAACGCGAAAG
1 TCAAAATCGCAATGCGAAAG
275504 TCAA
1 TCAA
275508 TTCGCGTTGC
Statistics
Matches: 39, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 39 1.00
ACGTcount: A:0.47, C:0.20, G:0.19, T:0.14
Consensus pattern (20 bp):
TCAAAATCGCAATGCGAAAG
Found at i:275580 original size:20 final size:20
Alignment explanation
Indices: 275546--275716 Score: 210
Period size: 20 Copynumber: 8.8 Consensus size: 20
275536 GCAATTTTCT
* *
275546 CGTTACGATAGTCAAATTCC
1 CGTTGCGATAGTCAAATTCG
* * *
275566 CATTGCGATAATCAAATTCA
1 CGTTGCGATAGTCAAATTCG
275586 CGTTGCGATAGTCAAATTCG
1 CGTTGCGATAGTCAAATTCG
275606 CGTTGCGATAGTCAAATTCG
1 CGTTGCGATAGTCAAATTCG
*
275626 CGTTGCGATAGTTAAATTCG
1 CGTTGCGATAGTCAAATTCG
*
275646 CGTTGCGAT--T----TTTG
1 CGTTGCGATAGTCAAATTCG
*
275660 CGTTGCGATAGTCATATTCG
1 CGTTGCGATAGTCAAATTCG
*
275680 CGTTGCGATAGTCAAATTCA
1 CGTTGCGATAGTCAAATTCG
*
275700 CGTTGCGATATTCAAAT
1 CGTTGCGATAGTCAAAT
275717 GAATGTGTAA
Statistics
Matches: 132, Mismatches: 13, Indels: 12
0.84 0.08 0.08
Matches are distributed among these distances:
14 12 0.09
16 1 0.01
18 1 0.01
20 118 0.89
ACGTcount: A:0.26, C:0.19, G:0.21, T:0.33
Consensus pattern (20 bp):
CGTTGCGATAGTCAAATTCG
Found at i:275939 original size:140 final size:140
Alignment explanation
Indices: 275687--275969 Score: 494
Period size: 140 Copynumber: 2.0 Consensus size: 140
275677 TCGCGTTGCG
275687 ATAGTCAAATTCACGTTGCGATATTCAAATGAATGTGTAACAAGTGATAACAACTGAACAGAACA
1 ATAGTCAAATTCACGTTGCGATATTCAAATGAATGTGTAACAAGTGATAACAACTGAACAGAACA
* *
275752 TAGCAATGTTCAAACTCAAGTTACTAATACATGCCTAACTGAAAATGTTAAAAGTATATACATAA
66 TAGAAATGTTCAAACTCAAGTTACTAATACATGCCTAACTGAAAATGTTAAAAGTATACACATAA
275817 AATACACATA
131 AATACACATA
* * * *
275827 ATAGTCAAATTCGCGTTGCGATATTCAAATGAATGTGTAATAATTGATAACAACTGAACAGATCA
1 ATAGTCAAATTCACGTTGCGATATTCAAATGAATGTGTAACAAGTGATAACAACTGAACAGAACA
* *
275892 TAGAAATGTTCAAACTCAAGTTACTAATACATGCCTAACTGAAAATGTTAAAAGTTTGCACATAA
66 TAGAAATGTTCAAACTCAAGTTACTAATACATGCCTAACTGAAAATGTTAAAAGTATACACATAA
275957 AATACACATA
131 AATACACATA
275967 ATA
1 ATA
275970 CAACGTTTTC
Statistics
Matches: 135, Mismatches: 8, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
140 135 1.00
ACGTcount: A:0.44, C:0.15, G:0.13, T:0.28
Consensus pattern (140 bp):
ATAGTCAAATTCACGTTGCGATATTCAAATGAATGTGTAACAAGTGATAACAACTGAACAGAACA
TAGAAATGTTCAAACTCAAGTTACTAATACATGCCTAACTGAAAATGTTAAAAGTATACACATAA
AATACACATA
Found at i:276042 original size:12 final size:12
Alignment explanation
Indices: 276024--276062 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
276014 GTGAAGCCGG
**
276024 TTGTGATTGGGA
1 TTGTGATTTTGA
*
276036 TTTTGATTTTGA
1 TTGTGATTTTGA
276048 TTGTGATTTTGA
1 TTGTGATTTTGA
276060 TTG
1 TTG
276063 CCTTTTGCTT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
12 23 1.00
ACGTcount: A:0.15, C:0.00, G:0.28, T:0.56
Consensus pattern (12 bp):
TTGTGATTTTGA
Found at i:276050 original size:18 final size:18
Alignment explanation
Indices: 276027--276061 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
276017 AAGCCGGTTG
276027 TGATTGGGATTTTGATTT
1 TGATTGGGATTTTGATTT
*
276045 TGATTGTGATTTTGATT
1 TGATTGGGATTTTGATT
276062 GCCTTTTGCT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.17, C:0.00, G:0.26, T:0.57
Consensus pattern (18 bp):
TGATTGGGATTTTGATTT
Found at i:278113 original size:14 final size:14
Alignment explanation
Indices: 278094--278130 Score: 56
Period size: 14 Copynumber: 2.6 Consensus size: 14
278084 TCCCGTGGCA
278094 TTTTCTTCGGGGAC
1 TTTTCTTCGGGGAC
*
278108 TTTTCTTCGGGGAT
1 TTTTCTTCGGGGAC
278122 TTCTTCTTC
1 TT-TTCTTC
278131 TTCTTTTTCT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
14 15 0.71
15 6 0.29
ACGTcount: A:0.05, C:0.22, G:0.22, T:0.51
Consensus pattern (14 bp):
TTTTCTTCGGGGAC
Found at i:278387 original size:24 final size:24
Alignment explanation
Indices: 278336--278387 Score: 59
Period size: 24 Copynumber: 2.2 Consensus size: 24
278326 ATCCAAGTAT
** *
278336 TGACCAAGATCAAAGTCCGGGTAT
1 TGACCAAGATCAAAGTCCGAATAC
* *
278360 TGACCAAGATCAAATTTCGAATAC
1 TGACCAAGATCAAAGTCCGAATAC
278384 TGAC
1 TGAC
278388 TAGTACTCAC
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.37, C:0.21, G:0.19, T:0.23
Consensus pattern (24 bp):
TGACCAAGATCAAAGTCCGAATAC
Found at i:279190 original size:20 final size:20
Alignment explanation
Indices: 279165--279214 Score: 73
Period size: 20 Copynumber: 2.5 Consensus size: 20
279155 GTGTTGCGAC
279165 AGTCAGAATCACGTTACGAT
1 AGTCAGAATCACGTTACGAT
** *
279185 AGTCAGAATCGTGTTGCGAT
1 AGTCAGAATCACGTTACGAT
279205 AGTCAGAATC
1 AGTCAGAATC
279215 GAGTTGCGAT
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.32, C:0.18, G:0.24, T:0.26
Consensus pattern (20 bp):
AGTCAGAATCACGTTACGAT
Found at i:279241 original size:21 final size:21
Alignment explanation
Indices: 279212--279348 Score: 174
Period size: 21 Copynumber: 6.6 Consensus size: 21
279202 GATAGTCAGA
*
279212 ATCGAGTTGCGATTATGTATT
1 ATCGCGTTGCGATTATGTATT
279233 ATCGCGTTGCGATTATGTATT
1 ATCGCGTTGCGATTATGTATT
**
279254 ATCGCGTTGCGA-TA-GTTAGA
1 ATCGCGTTGCGATTATG-TATT
279274 ATCGCGTTGCGATTATGTATT
1 ATCGCGTTGCGATTATGTATT
* **
279295 ATCGCGCTGCGA-TA-GTCAGA
1 ATCGCGTTGCGATTATGT-ATT
279315 ATCGCGTTGCGATTATGTATT
1 ATCGCGTTGCGATTATGTATT
279336 ATCGCGTTGCGAT
1 ATCGCGTTGCGAT
279349 AGTCAGAACC
Statistics
Matches: 99, Mismatches: 11, Indels: 12
0.81 0.09 0.10
Matches are distributed among these distances:
19 3 0.03
20 30 0.30
21 63 0.64
22 3 0.03
ACGTcount: A:0.21, C:0.16, G:0.26, T:0.36
Consensus pattern (21 bp):
ATCGCGTTGCGATTATGTATT
Found at i:279278 original size:41 final size:41
Alignment explanation
Indices: 279176--279369 Score: 241
Period size: 41 Copynumber: 4.7 Consensus size: 41
279166 GTCAGAATCA
* * **
279176 CGTTACGATAGTCAGAATCGTGTTGCGA-TA-GTCAGAATCG
1 CGTTGCGATAGTCAGAATCGCGTTGCGATTATGT-ATTATCG
* **
279216 AGTTGCGATTATGT-ATTATCGCGTTGCGATTATGTATTATCG
1 CGTTGCGA-TA-GTCAGAATCGCGTTGCGATTATGTATTATCG
*
279258 CGTTGCGATAGTTAGAATCGCGTTGCGATTATGTATTATCG
1 CGTTGCGATAGTCAGAATCGCGTTGCGATTATGTATTATCG
*
279299 CGCTGCGATAGTCAGAATCGCGTTGCGATTATGTATTATCG
1 CGTTGCGATAGTCAGAATCGCGTTGCGATTATGTATTATCG
* *
279340 CGTTGCGATAGTCAGAACCCCGTTGCGATT
1 CGTTGCGATAGTCAGAATCGCGTTGCGATT
279370 TATATATTTG
Statistics
Matches: 134, Mismatches: 15, Indels: 9
0.85 0.09 0.06
Matches are distributed among these distances:
40 8 0.06
41 108 0.81
42 16 0.12
43 2 0.01
ACGTcount: A:0.23, C:0.18, G:0.26, T:0.34
Consensus pattern (41 bp):
CGTTGCGATAGTCAGAATCGCGTTGCGATTATGTATTATCG
Found at i:279340 original size:62 final size:60
Alignment explanation
Indices: 279181--279348 Score: 212
Period size: 62 Copynumber: 2.7 Consensus size: 60
279171 AATCACGTTA
* * *
279181 CGATAGTCAGAATCGTGTTGCGATAGTCAGAATCGAGTTGCGATTATGTATTATCGCGTTG
1 CGATAGTCAGAATCGCGTTGCGATAGT-AGAATCGCGTTGCGATTATGTATTATCGCGCTG
**
279242 CGATTATGT-ATTATCGCGTTGCGATAGTTAGAATCGCGTTGCGATTATGTATTATCGCGCTG
1 CGA-TA-GTCAGAATCGCGTTGCGATAG-TAGAATCGCGTTGCGATTATGTATTATCGCGCTG
**
279304 CGATAGTCAGAATCGCGTTGCGATTATGTATTATCGCGTTGCGAT
1 CGATAGTCAGAATCGCGTTGCGA-TA-GTAGAATCGCGTTGCGAT
279349 AGTCAGAACC
Statistics
Matches: 92, Mismatches: 9, Indels: 11
0.82 0.08 0.10
Matches are distributed among these distances:
60 2 0.02
61 18 0.20
62 68 0.74
63 4 0.04
ACGTcount: A:0.23, C:0.16, G:0.27, T:0.35
Consensus pattern (60 bp):
CGATAGTCAGAATCGCGTTGCGATAGTAGAATCGCGTTGCGATTATGTATTATCGCGCTG
Found at i:279400 original size:82 final size:82
Alignment explanation
Indices: 279233--279408 Score: 230
Period size: 82 Copynumber: 2.1 Consensus size: 82
279223 ATTATGTATT
* * * *
279233 ATCGCGTTGCGATTATGTATTATCGCGTTGCGATAGTTAGAATCGCGTTGCGATTATGTATTATC
1 ATCGCGTTGCGATTATGTATTATCGCGTTGCGATAGTCAGAACCCCGTTGCGATTATATATTATC
* *
279298 GCGCTGCGATAGTCAGA
66 GCACTGCGATAGTCAAA
279315 ATCGCGTTGCGATTATGTATTATCGCGTTGCGATAGTCAGAACCCCGTTGCGATTTATATATT-T
1 ATCGCGTTGCGATTATGTATTATCGCGTTGCGATAGTCAGAACCCCGTTGCGA-TTATATATTAT
* * **
279379 -GCATTGTGATTTTCTAAA
65 CGCACTGCGATAGTC-AAA
279397 ATCGCGTTGCGA
1 ATCGCGTTGCGA
279409 ATCTGGAAAT
Statistics
Matches: 82, Mismatches: 10, Indels: 4
0.85 0.10 0.04
Matches are distributed among these distances:
81 9 0.11
82 65 0.79
83 8 0.10
ACGTcount: A:0.22, C:0.18, G:0.24, T:0.36
Consensus pattern (82 bp):
ATCGCGTTGCGATTATGTATTATCGCGTTGCGATAGTCAGAACCCCGTTGCGATTATATATTATC
GCACTGCGATAGTCAAA
Found at i:281037 original size:16 final size:16
Alignment explanation
Indices: 281007--281049 Score: 59
Period size: 16 Copynumber: 2.6 Consensus size: 16
280997 TAAATTATTT
*
281007 ATTAACATTATTTTAAA
1 ATTAA-ATTAATTTAAA
281024 ATTAAATTAATTTAAA
1 ATTAAATTAATTTAAA
*
281040 TTTAAATTAA
1 ATTAAATTAA
281050 ATTTTTCTCA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
16 19 0.79
17 5 0.21
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (16 bp):
ATTAAATTAATTTAAA
Found at i:281274 original size:16 final size:15
Alignment explanation
Indices: 281239--281280 Score: 57
Period size: 16 Copynumber: 2.7 Consensus size: 15
281229 TTATCTAATC
281239 TATAATATAAAGAATA
1 TATAA-ATAAAGAATA
*
281255 TATAAATAAATAATA
1 TATAAATAAAGAATA
281270 TTATAAATAAA
1 -TATAAATAAA
281281 ATAAAAAAGA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
15 9 0.38
16 15 0.62
ACGTcount: A:0.64, C:0.00, G:0.02, T:0.33
Consensus pattern (15 bp):
TATAAATAAAGAATA
Found at i:281411 original size:4 final size:4
Alignment explanation
Indices: 281402--281445 Score: 54
Period size: 4 Copynumber: 10.8 Consensus size: 4
281392 AGACAAATGC
*
281402 AAAT AAAT AAAT AAAT AAAT AAAT -AAT ATTAT AAAT AAAAT AAA
1 AAAT AAAT AAAT AAAT AAAT AAAT AAAT A-AAT AAAT -AAAT AAA
281446 AATATATATA
Statistics
Matches: 35, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
3 3 0.09
4 25 0.71
5 7 0.20
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (4 bp):
AAAT
Found at i:281449 original size:20 final size:21
Alignment explanation
Indices: 281402--281455 Score: 69
Period size: 20 Copynumber: 2.7 Consensus size: 21
281392 AGACAAATGC
*
281402 AAATAA-ATAAATAAATAAAT
1 AAATAATATATATAAATAAAT
281422 AAATAATAT-TATAAATAAAAT
1 AAATAATATATATAAAT-AAAT
281443 AAA-AATATATATA
1 AAATAATATATATA
281456 TTCTTTGATG
Statistics
Matches: 30, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
20 17 0.57
21 13 0.43
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (21 bp):
AAATAATATATATAAATAAAT
Found at i:288502 original size:29 final size:30
Alignment explanation
Indices: 288460--288531 Score: 92
Period size: 30 Copynumber: 2.4 Consensus size: 30
288450 CCTGAATGAC
288460 CTATCCAGAGGTCACAAAG-ACCCCGAAAA
1 CTATCCAGAGGTCACAAAGAACCCCGAAAA
* * *
288489 CTATCCAGAGGTCATAAAGAACCTCGACAA
1 CTATCCAGAGGTCACAAAGAACCCCGAAAA
* *
288519 CTATTCATAGGTC
1 CTATCCAGAGGTC
288532 TCGAAAAATC
Statistics
Matches: 37, Mismatches: 5, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
29 18 0.49
30 19 0.51
ACGTcount: A:0.38, C:0.28, G:0.17, T:0.18
Consensus pattern (30 bp):
CTATCCAGAGGTCACAAAGAACCCCGAAAA
Found at i:289555 original size:64 final size:63
Alignment explanation
Indices: 289462--289603 Score: 153
Period size: 64 Copynumber: 2.2 Consensus size: 63
289452 TTCCTCTTGA
* * *
289462 AGTGCATCGATGAACTACCCATGTATCGATACACAAATTACCTTCGATGTTTTCAT-TTTAAAG
1 AGTGCATCGATGCACTACCCATGCATCGATACACAAATTACATTCGATG-TTTCATCTTTAAAG
* * * * * * *
289525 GGATGCATCGATGCACT-CCTTATGCATCGATGCACCATTTGCATTCGATGTTTCTTCTTTAAAG
1 AG-TGCATCGATGCACTACC-CATGCATCGATACACAAATTACATTCGATGTTTCATCTTTAAAG
289589 AGTGCATCGATGCAC
1 AGTGCATCGATGCAC
289604 ATTGAATATG
Statistics
Matches: 65, Mismatches: 11, Indels: 6
0.79 0.13 0.07
Matches are distributed among these distances:
63 21 0.32
64 44 0.68
ACGTcount: A:0.27, C:0.23, G:0.18, T:0.33
Consensus pattern (63 bp):
AGTGCATCGATGCACTACCCATGCATCGATACACAAATTACATTCGATGTTTCATCTTTAAAG
Found at i:292045 original size:4 final size:4
Alignment explanation
Indices: 292036--292142 Score: 214
Period size: 4 Copynumber: 26.8 Consensus size: 4
292026 ATGTAACCAA
292036 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
292084 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
292132 ATAC ATAC ATA
1 ATAC ATAC ATA
292143 TATGTCATTA
Statistics
Matches: 103, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 103 1.00
ACGTcount: A:0.50, C:0.24, G:0.00, T:0.25
Consensus pattern (4 bp):
ATAC
Found at i:292447 original size:29 final size:30
Alignment explanation
Indices: 292405--292476 Score: 101
Period size: 30 Copynumber: 2.4 Consensus size: 30
292395 CCAGAAAGAC
292405 CTATCCAGAGGTCACAAAG-ACCCCGGCAA
1 CTATCCAGAGGTCACAAAGAACCCCGGCAA
* *
292434 CTATCCAGAGGTCATAAAGAACCTCGGCAA
1 CTATCCAGAGGTCACAAAGAACCCCGGCAA
* *
292464 CTGTCCATAGGTC
1 CTATCCAGAGGTC
292477 CCGAAAAACC
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
29 18 0.47
30 20 0.53
ACGTcount: A:0.32, C:0.31, G:0.21, T:0.17
Consensus pattern (30 bp):
CTATCCAGAGGTCACAAAGAACCCCGGCAA
Found at i:292500 original size:31 final size:31
Alignment explanation
Indices: 292462--292526 Score: 94
Period size: 31 Copynumber: 2.1 Consensus size: 31
292452 GAACCTCGGC
*
292462 AACTGTCCATAGGTCCCGAAAAACCTAGGTA
1 AACTGTCCATAGGTCCCGAAAAACATAGGTA
* * *
292493 AACTGTCCATATGTCTCGAAAGACATAGGTA
1 AACTGTCCATAGGTCCCGAAAAACATAGGTA
292524 AAC
1 AAC
292527 CCTCGACTTT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.37, C:0.23, G:0.18, T:0.22
Consensus pattern (31 bp):
AACTGTCCATAGGTCCCGAAAAACATAGGTA
Found at i:299651 original size:33 final size:33
Alignment explanation
Indices: 299579--299651 Score: 85
Period size: 34 Copynumber: 2.2 Consensus size: 33
299569 CGAAAATTTT
*
299579 TAAAATTTTCTAATTATATAAAAAAATTAATTCA
1 TAAAA-TTTCTAATTATATAAAAAAATAAATTCA
* * *
299613 AAAAATTTCTAATTAATTTAAAAATATAAATT-A
1 TAAAATTTCTAATT-ATATAAAAAAATAAATTCA
299646 TAAAAT
1 TAAAAT
299652 AAAATTTTAT
Statistics
Matches: 33, Mismatches: 5, Indels: 3
0.80 0.12 0.07
Matches are distributed among these distances:
33 15 0.45
34 18 0.55
ACGTcount: A:0.56, C:0.04, G:0.00, T:0.40
Consensus pattern (33 bp):
TAAAATTTCTAATTATATAAAAAAATAAATTCA
Found at i:299929 original size:174 final size:173
Alignment explanation
Indices: 299611--299945 Score: 493
Period size: 174 Copynumber: 1.9 Consensus size: 173
299601 AAAATTAATT
299611 CAAAAAATTTCTAATTAATTTAAAAATATAAATTATAAAATAAAATTTTATATTAAAATTTTAAT
1 CAAAAAATTTCTAATTAATTTAAAAATATAAATTATAAAATAAAATTTTATATTAAAATTTTAAT
*
299676 TAATTATATTGATTTAGATTTAAAAGTTATTGAATCTTAAATATTAATTGGGTTTTAAATGATTT
66 TAATTATATTGATTTAGATTTAAAAGTTATTGAATCTTAAATATTAATTGGATTTTAAATGATTT
* *
299741 GGGCTGAGCCCATATGTTATATATAATATATTTATTTTTTAATCA
131 GGACTGAACCCATA--TTATATATAATATATTTATTTTTTAATCA
* *
299786 CAAAAACATTTAC-AATTAATTTAAATATAT-AATTAT-AAATAAAATTTTATA-TAAATTTTTT
1 CAAAAA-ATTT-CTAATTAATTTAAAAATATAAATTATAAAATAAAATTTTATATTAAA-ATTTT
* *
299847 AATTAATTAATATTGA-TTAGGTTTAAAAGTTATTGGATCTTAAATTATT-ATTGGATTTTAAAT
63 AATTAATT-ATATTGATTTAGATTTAAAAGTTATTGAATCTTAAA-TATTAATTGGATTTTAAAT
*
299910 GGTTTGGACTGAACCCATATTATATATAATATATTT
126 GATTTGGACTGAACCCATATTATATATAATATATTT
299946 GATATTTAAA
Statistics
Matches: 147, Mismatches: 8, Indels: 13
0.88 0.05 0.08
Matches are distributed among these distances:
172 17 0.12
173 4 0.03
174 82 0.56
175 23 0.16
176 20 0.14
177 1 0.01
ACGTcount: A:0.42, C:0.05, G:0.08, T:0.45
Consensus pattern (173 bp):
CAAAAAATTTCTAATTAATTTAAAAATATAAATTATAAAATAAAATTTTATATTAAAATTTTAAT
TAATTATATTGATTTAGATTTAAAAGTTATTGAATCTTAAATATTAATTGGATTTTAAATGATTT
GGACTGAACCCATATTATATATAATATATTTATTTTTTAATCA
Found at i:300073 original size:18 final size:18
Alignment explanation
Indices: 300037--300086 Score: 84
Period size: 18 Copynumber: 2.8 Consensus size: 18
300027 TTAACCGACC
*
300037 AACTAATTCGG-TGGTCG
1 AACTAATTCGGTTCGTCG
300054 AACTAATTCGGTTCGTCG
1 AACTAATTCGGTTCGTCG
300072 AACTAATTCGGTTCG
1 AACTAATTCGGTTCG
300087 GTCGGTTAAC
Statistics
Matches: 31, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
17 11 0.35
18 20 0.65
ACGTcount: A:0.24, C:0.20, G:0.24, T:0.32
Consensus pattern (18 bp):
AACTAATTCGGTTCGTCG
Found at i:301725 original size:97 final size:93
Alignment explanation
Indices: 301572--301761 Score: 335
Period size: 97 Copynumber: 2.0 Consensus size: 93
301562 GGTGTCAAGC
301572 ACTTATACACTAACTTTTCCAATGATCATCATAAAGGAAAGCATTGAAGGACCGACTATAGAAAG
1 ACTTATACACTAACTTTTCCAATGATCATCATAAAGGAAAGCATTGAAGGACCGACTATAGAAAG
*
301637 CTATCAATGCAACATATGTCAAGGAGTT
66 CTATCAAGGCAACATATGTCAAGGAGTT
301665 ACTTATACACTAACTTTAAGTCCAATGATCATCATAAAGGGAAAGCATTGAAGGACCGACTATAG
1 ACTTATACACTAACTTT---TCCAATGATCATCATAAA-GGAAAGCATTGAAGGACCGACTATAG
301730 AAAGCTATCAAGGCAACATATGTCAAGGAGTT
62 AAAGCTATCAAGGCAACATATGTCAAGGAGTT
301762 CTAATCTACC
Statistics
Matches: 92, Mismatches: 1, Indels: 4
0.95 0.01 0.04
Matches are distributed among these distances:
93 17 0.18
96 18 0.20
97 57 0.62
ACGTcount: A:0.40, C:0.18, G:0.17, T:0.25
Consensus pattern (93 bp):
ACTTATACACTAACTTTTCCAATGATCATCATAAAGGAAAGCATTGAAGGACCGACTATAGAAAG
CTATCAAGGCAACATATGTCAAGGAGTT
Found at i:306376 original size:39 final size:40
Alignment explanation
Indices: 306329--306412 Score: 154
Period size: 39 Copynumber: 2.1 Consensus size: 40
306319 AACACACCCT
306329 TTAC-ATATCTCTACATAATACCATGAAAAGTTGATATTC
1 TTACAATATCTCTACATAATACCATGAAAAGTTGATATTC
306368 -TACAATATCTCTACATAATACCATGAAAAGTTGATATTC
1 TTACAATATCTCTACATAATACCATGAAAAGTTGATATTC
306407 TTACAA
1 TTACAA
306413 GTTAGAACCA
Statistics
Matches: 43, Mismatches: 0, Indels: 3
0.93 0.00 0.07
Matches are distributed among these distances:
38 3 0.07
39 35 0.81
40 5 0.12
ACGTcount: A:0.40, C:0.18, G:0.07, T:0.35
Consensus pattern (40 bp):
TTACAATATCTCTACATAATACCATGAAAAGTTGATATTC
Found at i:310685 original size:4 final size:4
Alignment explanation
Indices: 310676--310701 Score: 52
Period size: 4 Copynumber: 6.5 Consensus size: 4
310666 AATGGAAGAA
310676 GAAG GAAG GAAG GAAG GAAG GAAG GA
1 GAAG GAAG GAAG GAAG GAAG GAAG GA
310702 GAAGAAATAG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 22 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (4 bp):
GAAG
Found at i:311473 original size:2 final size:2
Alignment explanation
Indices: 311466--311514 Score: 98
Period size: 2 Copynumber: 24.5 Consensus size: 2
311456 TTGGTTAAAC
311466 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
311508 TA TA TA T
1 TA TA TA T
311515 CAATTTTGCT
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 47 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:313159 original size:20 final size:20
Alignment explanation
Indices: 313134--313182 Score: 89
Period size: 20 Copynumber: 2.5 Consensus size: 20
313124 AGTTAAAGGT
313134 TGATTCAAATGATCACTTCA
1 TGATTCAAATGATCACTTCA
313154 TGATTCAAATGATCACTTCA
1 TGATTCAAATGATCACTTCA
*
313174 AGATTCAAA
1 TGATTCAAA
313183 GTGACATTTA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.39, C:0.18, G:0.10, T:0.33
Consensus pattern (20 bp):
TGATTCAAATGATCACTTCA
Found at i:330167 original size:24 final size:24
Alignment explanation
Indices: 330140--330224 Score: 100
Period size: 24 Copynumber: 3.5 Consensus size: 24
330130 GTAAATGGAG
330140 ATATCAGAAATCAAAATAGAATTC
1 ATATCAGAAATCAAAATAGAATTC
* * *
330164 ATATCAGATATCATAATAGAATCC
1 ATATCAGAAATCAAAATAGAATTC
*
330188 A-AGTCAGAAATCAGAATAGAATTC
1 ATA-TCAGAAATCAAAATAGAATTC
* *
330212 AAATAAGAAATCA
1 ATATCAGAAATCA
330225 TATAAAACAT
Statistics
Matches: 52, Mismatches: 7, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
23 1 0.02
24 50 0.96
25 1 0.02
ACGTcount: A:0.53, C:0.13, G:0.11, T:0.24
Consensus pattern (24 bp):
ATATCAGAAATCAAAATAGAATTC
Found at i:341422 original size:32 final size:31
Alignment explanation
Indices: 341350--341426 Score: 91
Period size: 31 Copynumber: 2.5 Consensus size: 31
341340 CTAATGTGAC
* * *
341350 TCTTAGGTAGGCTCTGCGGCCCTGAGATCAT
1 TCTTAGGTAGGCCCTGCGACCCTAAGATCAT
** *
341381 TCTCGGGTAGGCCCTGCGACCCTAAGATATAT
1 TCTTAGGTAGGCCCTGCGACCCTAAGAT-CAT
341413 TCTTAGGTAGGCCC
1 TCTTAGGTAGGCCC
341427 CGTGGCCCCA
Statistics
Matches: 37, Mismatches: 8, Indels: 1
0.80 0.17 0.02
Matches are distributed among these distances:
31 23 0.62
32 14 0.38
ACGTcount: A:0.18, C:0.27, G:0.27, T:0.27
Consensus pattern (31 bp):
TCTTAGGTAGGCCCTGCGACCCTAAGATCAT
Found at i:347068 original size:80 final size:81
Alignment explanation
Indices: 346965--347133 Score: 315
Period size: 81 Copynumber: 2.1 Consensus size: 81
346955 TCATCCATAT
346965 AGAATTATACCAACAAAGGGTAAGAGAGCCAATAC-AGAGAGAGAGAATCTTTAATTTGACCC-A
1 AGAATTATACCAACAAAGGGTAAGAGAGCCAATACAAGAGAGAGAGAATCTTTAATTTGACCCGA
347028 TCCCCATGTCCTAAAA
66 TCCCCATGTCCTAAAA
347044 AGAATTATACCAGACAAAGGGTAAGAGAGCCAATACAAGAGAGAGAGAATCTTTAATTTGACCCG
1 AGAATTATACCA-ACAAAGGGTAAGAGAGCCAATACAAGAGAGAGAGAATCTTTAATTTGACCCG
347109 ATCCCCATGTCCTAAAA
65 ATCCCCATGTCCTAAAA
347126 AGAATTAT
1 AGAATTAT
347134 TTCAGATTTT
Statistics
Matches: 87, Mismatches: 0, Indels: 3
0.97 0.00 0.03
Matches are distributed among these distances:
79 12 0.14
80 23 0.26
81 27 0.31
82 25 0.29
ACGTcount: A:0.42, C:0.19, G:0.18, T:0.21
Consensus pattern (81 bp):
AGAATTATACCAACAAAGGGTAAGAGAGCCAATACAAGAGAGAGAGAATCTTTAATTTGACCCGA
TCCCCATGTCCTAAAA
Found at i:352820 original size:21 final size:19
Alignment explanation
Indices: 352787--352826 Score: 53
Period size: 21 Copynumber: 2.0 Consensus size: 19
352777 TTACCTGAAG
*
352787 AAAAAAAAAGAAATAAAGA
1 AAAAAAAAAGAAAGAAAGA
352806 AAAAAGAAGAAGAAAGAAAGA
1 AAAAA-AA-AAGAAAGAAAGA
352827 GAGAGGGATA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 5 0.28
20 2 0.11
21 11 0.61
ACGTcount: A:0.80, C:0.00, G:0.17, T:0.03
Consensus pattern (19 bp):
AAAAAAAAAGAAAGAAAGA
Found at i:356862 original size:16 final size:17
Alignment explanation
Indices: 356831--356877 Score: 69
Period size: 16 Copynumber: 2.8 Consensus size: 17
356821 ACTTTGACCA
356831 AAAAGTCAATTTTTTTG
1 AAAAGTCAATTTTTTTG
*
356848 AAAAGTTAA-TTTTTTG
1 AAAAGTCAATTTTTTTG
356864 AAAAGTCATATTTT
1 AAAAGTCA-ATTTT
356878 ATGTTTTTCG
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
16 14 0.54
17 9 0.35
18 3 0.12
ACGTcount: A:0.38, C:0.04, G:0.11, T:0.47
Consensus pattern (17 bp):
AAAAGTCAATTTTTTTG
Found at i:360826 original size:18 final size:18
Alignment explanation
Indices: 360803--360838 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
360793 TGGAATAATT
360803 GAATAATACGAAAATATG
1 GAATAATACGAAAATATG
*
360821 GAATAATACGATAATATG
1 GAATAATACGAAAATATG
360839 ATATATATAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.53, C:0.06, G:0.17, T:0.25
Consensus pattern (18 bp):
GAATAATACGAAAATATG
Found at i:364477 original size:26 final size:25
Alignment explanation
Indices: 364448--364505 Score: 75
Period size: 23 Copynumber: 2.4 Consensus size: 25
364438 TATTATCAAG
*
364448 TATAATAACATATTAGGTAGCGCTTA
1 TATAATAA-ATAATAGGTAGCGCTTA
*
364474 TATAAT--GTAATAGGTAGCGCTTA
1 TATAATAAATAATAGGTAGCGCTTA
364497 TATAATAAA
1 TATAATAAA
364506 ATAAGCATTT
Statistics
Matches: 27, Mismatches: 3, Indels: 5
0.77 0.09 0.14
Matches are distributed among these distances:
23 21 0.78
26 6 0.22
ACGTcount: A:0.41, C:0.09, G:0.16, T:0.34
Consensus pattern (25 bp):
TATAATAAATAATAGGTAGCGCTTA
Found at i:364508 original size:23 final size:23
Alignment explanation
Indices: 364461--364508 Score: 78
Period size: 23 Copynumber: 2.1 Consensus size: 23
364451 AATAACATAT
**
364461 TAGGTAGCGCTTATATAATGTAA
1 TAGGTAGCGCTTATATAATAAAA
364484 TAGGTAGCGCTTATATAATAAAA
1 TAGGTAGCGCTTATATAATAAAA
364507 TA
1 TA
364509 AGCATTTAAC
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.40, C:0.08, G:0.19, T:0.33
Consensus pattern (23 bp):
TAGGTAGCGCTTATATAATAAAA
Found at i:364570 original size:87 final size:87
Alignment explanation
Indices: 364424--364586 Score: 283
Period size: 87 Copynumber: 1.9 Consensus size: 87
364414 TATGTTATAT
* * *
364424 CATTTAATCGGAAATATTATCAAGTATAATAACATATTAGGTAGCGCTTATATAATGTAATAGGT
1 CATTTAATCGGAAATATTATCAAATACAATAACATATTAGGTAGCACTTATATAATGTAATAGGT
364489 AGCGCTTATATAATAAAATAAG
66 AGCGCTTATATAATAAAATAAG
364511 CATTTAA-CTGGAAATATTATCAAATACAATAACATATTAGGTAGCACTTATATAATGTAATAGG
1 CATTTAATC-GGAAATATTATCAAATACAATAACATATTAGGTAGCACTTATATAATGTAATAGG
364575 TAGCGCTTATAT
65 TAGCGCTTATAT
364587 TGACCTATTT
Statistics
Matches: 72, Mismatches: 3, Indels: 2
0.94 0.04 0.03
Matches are distributed among these distances:
86 1 0.01
87 71 0.99
ACGTcount: A:0.42, C:0.10, G:0.14, T:0.34
Consensus pattern (87 bp):
CATTTAATCGGAAATATTATCAAATACAATAACATATTAGGTAGCACTTATATAATGTAATAGGT
AGCGCTTATATAATAAAATAAG
Found at i:365304 original size:200 final size:200
Alignment explanation
Indices: 364604--365506 Score: 1406
Period size: 200 Copynumber: 4.5 Consensus size: 200
364594 TTTTGTAACT
* * * *
364604 AAACCGGTTTATTTATA-CCGGTAACATTGTAAATTTACCTATTACATTATAATTATCGGTTTCG
1 AAACCGGTATATTTCTATCGGGT-ACATTGTAAATTTACCTATTACATTATAATTATCGATTTCG
* ** * * * * *
364668 ATATTTTTGGGATCGATACAATTT-TAAATATATCGGCATTTTATGCATGCACC-TCGTTGGGCA
65 ATGTTTTTGGGATCGATACTTTTTATAAATGTATCGACACTTTATGCATGCACCAT-TTTTGGCA
* * * *
364731 TTCATTCTGGA-AAAAAGTATCGAAACAAACTT-AAAAAGTGTCGATACATTATGTAGAACTATT
129 TTCATTCTGGACAAAAAGTATCGACAC-AAGTTCCACAAGTGTCGATACATTATGTAGAACTATT
364794 TTCTCATG
193 TTCTCATG
* *
364802 AAACTGGTATATTTCTATCGGGTACATTGTAAATTTACCTATTACATTGTAATTATC-AGTTTCG
1 AAACCGGTATATTTCTATCGGGTACATTGTAAATTTACCTATTACATTATAATTATCGA-TTTCG
* * **
364866 ATGTTTTTGGGATCGATACTTTTAATAAATGTATCGACACTTTATGCGTGCACCCCTTTTGGCAT
65 ATGTTTTTGGGATCGATACTTTTTATAAATGTATCGACACTTTATGCATGCACCATTTTTGGCAT
*
364931 TCATTCTGGACAAAAAGTATCGACACAAGTTCCACAAGTGTCGATACATTATGTAGACCTATTTT
130 TCATTCTGGACAAAAAGTATCGACACAAGTTCCACAAGTGTCGATACATTATGTAGAACTA-TTT
* * *
364996 TTTCGTA
194 TCTCATG
* * *
365003 AAACCGGTAAATTTCTA-CAGGTTACATTGTAAATTTACATATTACATTATAATTATCGATTTCG
1 AAACCGGTATATTTCTATC-GGGTACATTGTAAATTTACCTATTACATTATAATTATCGATTTCG
365067 ATGTTTTTGGGATCGATACTTTTTATAAATGTATCGACACTTTATGCATGCACCATTTTTGGCAT
65 ATGTTTTTGGGATCGATACTTTTTATAAATGTATCGACACTTTATGCATGCACCATTTTTGGCAT
*
365132 TCATTCTGGACAACAAGTATCGACACAAGTTCCACAAGTGTCGATACATTATGTAGAACTATTTT
130 TCATTCTGGACAAAAAGTATCGACACAAGTTCCACAAGTGTCGATACATTATGTAGAACTATTTT
365197 CTCATG
195 CTCATG
365203 AAACCGGTATATTTCTATCGGGTACATTGTAAATTTACCTATTACATTATAATTATCGATTTCGA
1 AAACCGGTATATTTCTATCGGGTACATTGTAAATTTACCTATTACATTATAATTATCGATTTCGA
365268 TGTTTTTGGGATCGATACTTTTTATAAATGTATCGACACTTTATGCATGCACCATTTTTGGCATT
66 TGTTTTTGGGATCGATACTTTTTATAAATGTATCGACACTTTATGCATGCACCATTTTTGGCATT
*
365333 CATTCTGGACAACAAGTATCGACACAAGTTCCACAAGTGTCGATACATTATGTAGAACTATTTTC
131 CATTCTGGACAAAAAGTATCGACACAAGTTCCACAAGTGTCGATACATTATGTAGAACTATTTTC
365398 TCATG
196 TCATG
* *
365403 AAACCGGTATATTTCTATCGGGTACATTGTAAATTTACCTATTACATTATAATTATGGGTTTCGA
1 AAACCGGTATATTTCTATCGGGTACATTGTAAATTTACCTATTACATTATAATTATCGATTTCGA
365468 TGTTTTTGGGATCGATACTTTTTATAAATGTATCGACAC
66 TGTTTTTGGGATCGATACTTTTTATAAATGTATCGACAC
365507 ATATTTAGGT
Statistics
Matches: 651, Mismatches: 44, Indels: 18
0.91 0.06 0.03
Matches are distributed among these distances:
198 72 0.11
199 50 0.08
200 345 0.53
201 183 0.28
202 1 0.00
ACGTcount: A:0.30, C:0.16, G:0.15, T:0.38
Consensus pattern (200 bp):
AAACCGGTATATTTCTATCGGGTACATTGTAAATTTACCTATTACATTATAATTATCGATTTCGA
TGTTTTTGGGATCGATACTTTTTATAAATGTATCGACACTTTATGCATGCACCATTTTTGGCATT
CATTCTGGACAAAAAGTATCGACACAAGTTCCACAAGTGTCGATACATTATGTAGAACTATTTTC
TCATG
Found at i:365352 original size:401 final size:398
Alignment explanation
Indices: 364604--365506 Score: 1418
Period size: 401 Copynumber: 2.3 Consensus size: 398
364594 TTTTGTAACT
* * *
364604 AAACCGGTTTATTTATACCGGTAACATTGTAAATTTACCTATTACATTATAATTATCGGTTTCGA
1 AAACCGGTATATTTCTA-CGGTTACATTGTAAATTTACCTATTACATTATAATTATCGGTTTCGA
* ** * * *
364669 TATTTTTGGGATCGATACAATTT-TAAATATATCGGCATTTTATGCATGCACCTCGTTGGGCATT
65 TGTTTTTGGGATCGATACTTTTTATAAATGTATCGACACTTTATGCATGCACCTCGTTGGGCATT
364733 CATTCTGGAAAAAAGTATCGAAACAAACTTAAAAAGTGTCGATACATTATGTAGAACTATTTTCT
130 CATTCTGGAAAAAAGTATCGAAACAAACTTAAAAAGTGTCGATACATTATGTAGAACTATTTTCT
* *
364798 CATGAAACTGGTATATTTCTATCGGGTACATTGTAAATTTACCTATTACATTGTAATTATCAGTT
195 CATGAAACCGGTATATTTCTATCGGGTACATTGTAAATTTACCTATTACATTATAATTATCAGTT
* *
364863 TCGATGTTTTTGGGATCGATACTTTTAATAAATGTATCGACACTTTATGCGTGCACCCCTTTTGG
260 TCGATGTTTTTGGGATCGATACTTTTAATAAATGTATCGACACTTTATGCATGCACCACTTTTGG
*
364928 CATTCATTCTGGACAAAAAGTATCGACACAAGTTCCACAAGTGTCGATACATTATGTAGACCTAT
325 CATTCATTCTGGACAAAAAGTATCGACACAAGTTCCACAAGTGTCGATACATTATGTAGAACTA-
* *
364993 TTTTTTCGTA
389 TTTTCTCATA
* * *
365003 AAACCGGTAAATTTCTACAGGTTACATTGTAAATTTACATATTACATTATAATTATCGATTTCGA
1 AAACCGGTATATTTCTAC-GGTTACATTGTAAATTTACCTATTACATTATAATTATCGGTTTCGA
* *
365068 TGTTTTTGGGATCGATACTTTTTATAAATGTATCGACACTTTATGCATGCACCAT-TTTTGGCAT
65 TGTTTTTGGGATCGATACTTTTTATAAATGTATCGACACTTTATGCATGCACC-TCGTTGGGCAT
* * * * *
365132 TCATTCTGGACAACAAGTATCGACAC-AAGTTCCACAAGTGTCGATACATTATGTAGAACTATTT
129 TCATTCTGGA-AAAAAGTATCGAAACAAACTT-AAAAAGTGTCGATACATTATGTAGAACTATTT
365196 TCTCATGAAACCGGTATATTTCTATCGGGTACATTGTAAATTTACCTATTACATTATAATTATC-
192 TCTCATGAAACCGGTATATTTCTATCGGGTACATTGTAAATTTACCTATTACATTATAATTATCA
* *
365260 GATTTCGATGTTTTTGGGATCGATACTTTTTATAAATGTATCGACACTTTATGCATGCACCATTT
257 G-TTTCGATGTTTTTGGGATCGATACTTTTAATAAATGTATCGACACTTTATGCATGCACCACTT
*
365325 TTGGCATTCATTCTGGACAACAAGTATCGACACAAGTTCCACAAGTGTCGATACATTATGTAGAA
321 TTGGCATTCATTCTGGACAAAAAGTATCGACACAAGTTCCACAAGTGTCGATACATTATGTAGAA
*
365390 CTATTTTCTCATG
386 CTATTTTCTCATA
* *
365403 AAACCGGTATATTTCTATCGGGTACATTGTAAATTTACCTATTACATTATAATTATGGGTTTCGA
1 AAACCGGTATATTTCTA-CGGTTACATTGTAAATTTACCTATTACATTATAATTATCGGTTTCGA
365468 TGTTTTTGGGATCGATACTTTTTATAAATGTATCGACAC
65 TGTTTTTGGGATCGATACTTTTTATAAATGTATCGACAC
365507 ATATTTAGGT
Statistics
Matches: 462, Mismatches: 35, Indels: 13
0.91 0.07 0.03
Matches are distributed among these distances:
398 1 0.00
399 77 0.17
400 152 0.33
401 232 0.50
ACGTcount: A:0.30, C:0.16, G:0.15, T:0.38
Consensus pattern (398 bp):
AAACCGGTATATTTCTACGGTTACATTGTAAATTTACCTATTACATTATAATTATCGGTTTCGAT
GTTTTTGGGATCGATACTTTTTATAAATGTATCGACACTTTATGCATGCACCTCGTTGGGCATTC
ATTCTGGAAAAAAGTATCGAAACAAACTTAAAAAGTGTCGATACATTATGTAGAACTATTTTCTC
ATGAAACCGGTATATTTCTATCGGGTACATTGTAAATTTACCTATTACATTATAATTATCAGTTT
CGATGTTTTTGGGATCGATACTTTTAATAAATGTATCGACACTTTATGCATGCACCACTTTTGGC
ATTCATTCTGGACAAAAAGTATCGACACAAGTTCCACAAGTGTCGATACATTATGTAGAACTATT
TTCTCATA
Found at i:368016 original size:19 final size:19
Alignment explanation
Indices: 367992--368039 Score: 87
Period size: 19 Copynumber: 2.5 Consensus size: 19
367982 TTACATTCAC
367992 ATACAAAATTATAAATCAT
1 ATACAAAATTATAAATCAT
*
368011 ATACAAAATTATGAATCAT
1 ATACAAAATTATAAATCAT
368030 ATACAAAATT
1 ATACAAAATT
368040 TCCCCTACGT
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
19 28 1.00
ACGTcount: A:0.56, C:0.10, G:0.02, T:0.31
Consensus pattern (19 bp):
ATACAAAATTATAAATCAT
Found at i:370102 original size:198 final size:198
Alignment explanation
Indices: 369685--375342 Score: 8960
Period size: 198 Copynumber: 28.6 Consensus size: 198
369675 TAACTTTAAA
* * *
369685 AAGTGTCGATACATTATGTAAACCTATTTTCTAATTAACCGGTAT-TGTTCTACC-ATTAACATT
1 AAGTGTCGATACATTATGTAGACCTATTATCTAATTAACCGGTATAT-TTCTACCGGTT-ACATT
* * * **
369748 GGAAATTGACCTATTACTTTATAATTATATTATTCGATGTTTATGGGATCGATACTTTTTATAAA
64 GGAAATTGACCTATTACATTATAATTATCTTATTCGATGTTTTTGGGATCGATACAATTT-TAAA
* * ** * * * * *
369813 TGTATCGACACTTTATTCATGCACCTCGATT-GGTGATTCATTCTGGACAAAAAGAATTGACACA
128 TGTATCGACACTTTATGCGTGCACC-CTTTTAGG-CATTCATTCTGGACAACAAGTATCGGCACA
* *
369877 AGTT-AAA
191 AATTCAAC
* * * * ** *
369884 AAGTGTAGATACATTATGTAGACTTATT-TTTGAATTAACCGGTGTATTTCTATTGGTTACATTA
1 AAGTGTCGATACATTATGTAGACCTATTATCT-AATTAACCGGTATATTTCTACCGGTTACATTG
* * * *
369948 TAAAGTT-ACCTATTATATTATAATTAT-TGGT-TTCGATTTTTTTGGGATAGATACAATTTTAA
65 GAAA-TTGACCTATTACATTATAATTATCT--TATTCGATGTTTTTGGGATCGATACAATTTTAA
* * *
370010 ATGTATCGACACTTTATGTGTGCACCCTTTTAGGCATTCATTCTGGACAACAAGTATTGGTACAA
127 ATGTATCGACACTTTATGCGTGCACCCTTTTAGGCATTCATTCTGGACAACAAGTATCGGCACAA
*
370075 ATTCCAC
192 ATTCAAC
* * * *
370082 AAGTG-CTAATACATTATGTAGACCTATTATATAATTAACCGGTATATTCCTACCAGTTACATTG
1 AAGTGTC-GATACATTATGTAGACCTATTATCTAATTAACCGGTATATTTCTACCGGTTACATTG
370146 GAAATTGACCTATTACATTATAATTATCTTATTCGATGTTTTTGGGATCGATACAATTTTAAATG
65 GAAATTGACCTATTACATTATAATTATCTTATTCGATGTTTTTGGGATCGATACAATTTTAAATG
* * * *
370211 TATCGATACTTTATGCGTACACCTTTTTAGGCATTCATTCTAGACAACAAGTATCGGCACAAATT
130 TATCGACACTTTATGCGTGCACCCTTTTAGGCATTCATTCTGGACAACAAGTATCGGCACAAATT
370276 CAAC
195 CAAC
* * ** * *
370280 AAGTGTCGATATATTATATAGACCTATTATCTAATTAACATGTATAATTCTACCGCTTACATTGG
1 AAGTGTCGATACATTATGTAGACCTATTATCTAATTAACCGGTATATTTCTACCGGTTACATTGG
* * * *
370345 AAATTGACCTATTACATTATAATGATCTTATTCGATGTTTCTGGGATCGATACAATCTTGAATGT
66 AAATTGACCTATTACATTATAATTATCTTATTCGATGTTTTTGGGATCGATACAATTTTAAATGT
* * *
370410 ATCGACACTTTATGCGTGTAACCTTTTAGACATTCATTCTGGACAACAAGTATCGGCACAAATTC
131 ATCGACACTTTATGCGTGCACCCTTTTAGGCATTCATTCTGGACAACAAGTATCGGCACAAATTC
*
370475 CAC
196 AAC
* *
370478 AATTGTCGATACATTATGTAGACCTATTATCTAATTAACAGGTATATTTCTACCGGTTACATTGG
1 AAGTGTCGATACATTATGTAGACCTATTATCTAATTAACCGGTATATTTCTACCGGTTACATTGG
*
370543 AAATAGACCTATTACATTATAATTATCTTATTCGATGTTTTTGGGATCGATACAATTTTAAATGT
66 AAATTGACCTATTACATTATAATTATCTTATTCGATGTTTTTGGGATCGATACAATTTTAAATGT
*
370608 ATCGACACTTTATGCGTGCACCCTTTTAGTCATTCATTCTGGACAACAAGTATCGGCACAAATTC
131 ATCGACACTTTATGCGTGCACCCTTTTAGGCATTCATTCTGGACAACAAGTATCGGCACAAATTC
370673 AAC
196 AAC
*
370676 AAGTGTCGATACATTATGTAGACCTATTATCTAATTAACCGGTATATTTATACCGGTTACATTGG
1 AAGTGTCGATACATTATGTAGACCTATTATCTAATTAACCGGTATATTTCTACCGGTTACATTGG
*
370741 AAATTGACCTATTACATTATAATGATCTTATTCGATGTTTTTGGGATCGATACAATTTTAAATGT
66 AAATTGACCTATTACATTATAATTATCTTATTCGATGTTTTTGGGATCGATACAATTTTAAATGT
* * * *
370806 ATCGACACTTTATGCGTACACCTTTTTAGGCATTCATTCTAGACAACAAGTATCGACACAAATTC
131 ATCGACACTTTATGCGTGCACCCTTTTAGGCATTCATTCTGGACAACAAGTATCGGCACAAATTC
370871 AAC
196 AAC
* * * *
370874 AAGTGTCGATATATTATATAGACCTATTATCTAATTAACCGGTATAATTCTACCTGTTACATTGG
1 AAGTGTCGATACATTATGTAGACCTATTATCTAATTAACCGGTATATTTCTACCGGTTACATTGG
* * * *
370939 AAATTGACCTATTACATTATAATGATCTTATTCGATGTTTCTAGGATTGATACAATTTTAAATGT
66 AAATTGACCTATTACATTATAATTATCTTATTCGATGTTTTTGGGATCGATACAATTTTAAATGT
* *
371004 ATCGACACTTTATGCGTGTACCCTTTTAGGCATTCATTCTGCACAACAAGTATCGGCACAAATTC
131 ATCGACACTTTATGCGTGCACCCTTTTAGGCATTCATTCTGGACAACAAGTATCGGCACAAATTC
*
371069 CAC
196 AAC
* * *
371072 AATTGTCGATACATTATGTAGACCTATTATCTAATTAACAGGTATATTTGTACCGGTTACATTGG
1 AAGTGTCGATACATTATGTAGACCTATTATCTAATTAACCGGTATATTTCTACCGGTTACATTGG
*
371137 AAATTAACCTATTACATTATAATTATCTTATTCGATGTTTTTGGGATCGATACAATTTTAAATGT
66 AAATTGACCTATTACATTATAATTATCTTATTCGATGTTTTTGGGATCGATACAATTTTAAATGT
* * *
371202 ATCGACACTTTATGCGTGCACCCTTTTAGTCATTCATTCTGGACAACAAGTATCAGCACAAATTA
131 ATCGACACTTTATGCGTGCACCCTTTTAGGCATTCATTCTGGACAACAAGTATCGGCACAAATTC
371267 AAC
196 AAC
* *
371270 AAGTGTCGATACATTATGTAGACCTATTATATAATTAACCCGTATATTTCTACCGGTTACATTGG
1 AAGTGTCGATACATTATGTAGACCTATTATCTAATTAACCGGTATATTTCTACCGGTTACATTGG
371335 AAATTGACCTATTACATTATAATTATCTTATTCGATGTTTTTGGGATCGATACAATTTTAAATGT
66 AAATTGACCTATTACATTATAATTATCTTATTCGATGTTTTTGGGATCGATACAATTTTAAATGT
* *
371400 ATCGATACTTTATGCGTGCACCCTTTTAGTCATTCATTCTGGACAACAAGTATCGGCACAAATTC
131 ATCGACACTTTATGCGTGCACCCTTTTAGGCATTCATTCTGGACAACAAGTATCGGCACAAATTC
371465 AAC
196 AAC
* * * *
371468 AAATGTCGATACATTATGTAGACCAATTATCTAATTAACTGGTATATTTATACCGGTTACATTGG
1 AAGTGTCGATACATTATGTAGACCTATTATCTAATTAACCGGTATATTTCTACCGGTTACATTGG
* * *
371533 AAATTGACCTATTACATTATAATGATCTTATTCGATGTTTTTGGGATTGATATAATTTTAAATGT
66 AAATTGACCTATTACATTATAATTATCTTATTCGATGTTTTTGGGATCGATACAATTTTAAATGT
* * * *
371598 ATCGACACTTTATGCCTGCACCCATTTAGGCATTCATACTGAACAACAAGTATCGGCACAAATTC
131 ATCGACACTTTATGCGTGCACCCTTTTAGGCATTCATTCTGGACAACAAGTATCGGCACAAATTC
*
371663 CAC
196 AAC
* *
371666 AACTGTCGATACATTATGTAGACCTATTATCTAATTAACCGATATATTTCTACCGGTTACATTGG
1 AAGTGTCGATACATTATGTAGACCTATTATCTAATTAACCGGTATATTTCTACCGGTTACATTGG
*
371731 AAATTGACCTATTACATTATAATTATCTTATTCGATGTTTTTGGGATCGAAACAATTTTAAATGT
66 AAATTGACCTATTACATTATAATTATCTTATTCGATGTTTTTGGGATCGATACAATTTTAAATGT
* * *
371796 ATCGACACTTTATGTGTGCACCATTTTAGGCATTCATTCTGAACAACAAGTATCGGCACAAATTC
131 ATCGACACTTTATGCGTGCACCCTTTTAGGCATTCATTCTGGACAACAAGTATCGGCACAAATTC
371861 AAC
196 AAC
* * ***
371864 AAGTGTCGATACATTATGTAGACCTATTATCTAATTAACCGATATATTTATATTTGTTACATTGG
1 AAGTGTCGATACATTATGTAGACCTATTATCTAATTAACCGGTATATTTCTACCGGTTACATTGG
*
371929 AAATTGACCTATTACATTATAATGATCTTATTCGATGTTTTTGGGATCGATACAATTTTAAATGT
66 AAATTGACCTATTACATTATAATTATCTTATTCGATGTTTTTGGGATCGATACAATTTTAAATGT
* *
371994 ATTGACACTTTATGCGTGCACCCTTTTAGGCATTCATTCTAGACAACAAGTATCGGCACAAATTC
131 ATCGACACTTTATGCGTGCACCCTTTTAGGCATTCATTCTGGACAACAAGTATCGGCACAAATTC
372059 AAC
196 AAC
*
372062 AAGTGTCGATACATTATGTAGACCTATTATCTAATTAACCCGTATATTTCTACCGGTTACATTGG
1 AAGTGTCGATACATTATGTAGACCTATTATCTAATTAACCGGTATATTTCTACCGGTTACATTGG
372127 AAATTGACCTATTACATTATAATTATCTTATTCGATGTTTTTGGGATCGATACAATTTTAAATGT
66 AAATTGACCTATTACATTATAATTATCTTATTCGATGTTTTTGGGATCGATACAATTTTAAATGT
*
372192 ATCGACACTTTATGCGTGCACCCTTTTAGTCATTCATTCTGGACAACAAGTATCGGCACAAATTC
131 ATCGACACTTTATGCGTGCACCCTTTTAGGCATTCATTCTGGACAACAAGTATCGGCACAAATTC
372257 AAC
196 AAC
*
372260 AAGTGTCGATACATTATGTAGACCTATTATCTAATTAACCGGTATATTTCTACCGGCTACATTGG
1 AAGTGTCGATACATTATGTAGACCTATTATCTAATTAACCGGTATATTTCTACCGGTTACATTGG
* *
372325 AAATTGACCTATTACATTATAATGATCTTATTTGATGTTTTTGGGATCGATACAATTTTAAATGT
66 AAATTGACCTATTACATTATAATTATCTTATTCGATGTTTTTGGGATCGATACAATTTTAAATGT
* *** **
372390 ATCGACACTTTATGCGTGCACCATTTTAGGCATTCATTCAACACAACAAGTATCGGTTCAAATTC
131 ATCGACACTTTATGCGTGCACCCTTTTAGGCATTCATTCTGGACAACAAGTATCGGCACAAATTC
* *
372455 CAT
196 AAC
* **
372458 AAGTGTTC-ATACATTATGTAGACCTATTATCTAATTAACCGATATATTTCTACTAGTTACATTG
1 AAGTG-TCGATACATTATGTAGACCTATTATCTAATTAACCGGTATATTTCTACCGGTTACATTG
372522 GAAATTGACCTATTACATTATAATTATCTTATTCGATGTTTTTGGGATCGATACAATTTTAAATG
65 GAAATTGACCTATTACATTATAATTATCTTATTCGATGTTTTTGGGATCGATACAATTTTAAATG
* * *
372587 TATCGACACTTTATGCGTACACCTTTTTAGGCATTCATTCTAGACAACAAGTATCGGCACAAATT
130 TATCGACACTTTATGCGTGCACCCTTTTAGGCATTCATTCTGGACAACAAGTATCGGCACAAATT
372652 CAAC
195 CAAC
** * *
372656 AAGTGTCGATTTATTATATAGACCTATTATCTAATTAACCGGTATAATTCTACCGGTTACATTGG
1 AAGTGTCGATACATTATGTAGACCTATTATCTAATTAACCGGTATATTTCTACCGGTTACATTGG
* * *
372721 AAATTGACCTATTACATTATAATGATCTTATTCGATGTTTCTGGGATCGATACAATTTTGAATGT
66 AAATTGACCTATTACATTATAATTATCTTATTCGATGTTTTTGGGATCGATACAATTTTAAATGT
* * * *
372786 ATCGACACTTTATGTGTGTACCCTTTTAGACATTCATTCTGGACAACAAGTATCAGCACAAATTC
131 ATCGACACTTTATGCGTGCACCCTTTTAGGCATTCATTCTGGACAACAAGTATCGGCACAAATTC
372851 AAC
196 AAC
*
372854 AAGTGTCGATACATTATGTAGACCTATTATCTAATTAACCCGTATATTTCTACCGGTTACATTGG
1 AAGTGTCGATACATTATGTAGACCTATTATCTAATTAACCGGTATATTTCTACCGGTTACATTGG
372919 AAATTGACCTATTACATTATAATTATCTTATTCGATGTTTTTGGGATCGATACAATTTTAAATGT
66 AAATTGACCTATTACATTATAATTATCTTATTCGATGTTTTTGGGATCGATACAATTTTAAATGT
** * * **
372984 ATCGACACTTTATGCGTGCACCCTTTTAATCATTCATTTTGGACACCAAGTATCGATACAAATTC
131 ATCGACACTTTATGCGTGCACCCTTTTAGGCATTCATTCTGGACAACAAGTATCGGCACAAATTC
373049 AAC
196 AAC
* *
373052 AAGGGTCGATACATTATGTAGACCTATTATCTAATTAACCGGTATATTTCTACCGGCTACATTGG
1 AAGTGTCGATACATTATGTAGACCTATTATCTAATTAACCGGTATATTTCTACCGGTTACATTGG
*
373117 AAATTGACCTATTACATTATAATGATCTTATTCGATGTTTTTGGGATCGATACAATTTTAAATGT
66 AAATTGACCTATTACATTATAATTATCTTATTCGATGTTTTTGGGATCGATACAATTTTAAATGT
* * * *
373182 ATCGACACTTTATGCGTACACCTTTTTAGGCATTCATTCTAGACAACAAGTATCGACACAAATTC
131 ATCGACACTTTATGCGTGCACCCTTTTAGGCATTCATTCTGGACAACAAGTATCGGCACAAATTC
373247 AAC
196 AAC
* * * *
373250 AAGTGTCGATATATTATATAGACCTATTATCTAATTAACTGGTATAATTCTACCGGTTACATTGG
1 AAGTGTCGATACATTATGTAGACCTATTATCTAATTAACCGGTATATTTCTACCGGTTACATTGG
* * *
373315 AAATTGACCTATTACATTATAATGATCTTATTCGATGTTTCTGGGATTGATACAATTTTAAATGT
66 AAATTGACCTATTACATTATAATTATCTTATTCGATGTTTTTGGGATCGATACAATTTTAAATGT
*
373380 ATCGACACTTTATGCGTGTACCCTTTTAGGCATTCATTCTGGACAACAAGTATCGGCACAAATTC
131 ATCGACACTTTATGCGTGCACCCTTTTAGGCATTCATTCTGGACAACAAGTATCGGCACAAATTC
*
373445 CAC
196 AAC
* *
373448 AATTGTCGATACATTATGTAGACCTATTATCTAATTAACAGGTATATTTCTACCGGTTACATTGG
1 AAGTGTCGATACATTATGTAGACCTATTATCTAATTAACCGGTATATTTCTACCGGTTACATTGG
*
373513 AAATTGACCTATTACATTATAATTATCTTATTCGATGTTTTTGGGATCAATACAATTTTAAATGT
66 AAATTGACCTATTACATTATAATTATCTTATTCGATGTTTTTGGGATCGATACAATTTTAAATGT
* * *
373578 ATCGACACTTTATGCGTGCACCCTCTTAGTCATTCATTCTGGACAACAAGTATCGGCACAAATTA
131 ATCGACACTTTATGCGTGCACCCTTTTAGGCATTCATTCTGGACAACAAGTATCGGCACAAATTC
373643 AAC
196 AAC
* *
373646 AAGTGTCGATACATTATGTAGACCTATTATCTAATTAACCCGTATATTTCTACCGGTTATATTGG
1 AAGTGTCGATACATTATGTAGACCTATTATCTAATTAACCGGTATATTTCTACCGGTTACATTGG
373711 AAATTGACCTATTACATTATAATTATCTTATTCGATGTTTTTGGGATCGATACAATTTTAAATGT
66 AAATTGACCTATTACATTATAATTATCTTATTCGATGTTTTTGGGATCGATACAATTTTAAATGT
*
373776 ATCGACACTTTATGCGTGCACCCTTTTAGTCATTCATTCTGGACAACAAGTATCGGCACAAATTC
131 ATCGACACTTTATGCGTGCACCCTTTTAGGCATTCATTCTGGACAACAAGTATCGGCACAAATTC
373841 AAC
196 AAC
* *
373844 AAGTGTCGATACATTATGTAGACCTATTATCTAATTAATCGGTATATTTATACCGGTTACATTGG
1 AAGTGTCGATACATTATGTAGACCTATTATCTAATTAACCGGTATATTTCTACCGGTTACATTGG
*
373909 AAATTGACCTATTACATTATAATGATCTTATTCGATGTTTTTGGGATCGATACAATTTTAAATGT
66 AAATTGACCTATTACATTATAATTATCTTATTCGATGTTTTTGGGATCGATACAATTTTAAATGT
* * *
373974 ATCGACACTTTATACGTGCACCCTTTTAGGCATTCATTCTGAACAACAAGTATCGACACAAATTC
131 ATCGACACTTTATGCGTGCACCCTTTTAGGCATTCATTCTGGACAACAAGTATCGGCACAAATTC
*
374039 CAC
196 AAC
* * * * *
374042 AAGTTTCGATACATTATGTAGACCTATTATCTAAATAACTGATATATTTCAACCGGTTACATTGG
1 AAGTGTCGATACATTATGTAGACCTATTATCTAATTAACCGGTATATTTCTACCGGTTACATTGG
*
374107 AAATTGACCTATTACATTATAATCATCTTATTCGATGTTTTTGGGATCGATACAATTTTAAATGT
66 AAATTGACCTATTACATTATAATTATCTTATTCGATGTTTTTGGGATCGATACAATTTTAAATGT
*
374172 ATCGACACTTTATGCGTGCACCATTTTAGGCATTCATTCTGGACAACAAGTATCGGCACAAATTC
131 ATCGACACTTTATGCGTGCACCCTTTTAGGCATTCATTCTGGACAACAAGTATCGGCACAAATTC
374237 AAC
196 AAC
* ***
374240 AAGTGTCGATACATTATGTAGACCTATTATCTAATTAACCGGTATATTTATATTTGTTACATTGG
1 AAGTGTCGATACATTATGTAGACCTATTATCTAATTAACCGGTATATTTCTACCGGTTACATTGG
** *
374305 AAATTGACCTATTACATTATAATGCTCTTATTTGATGTTTTTGGGATCGATACAATTTTAAATGT
66 AAATTGACCTATTACATTATAATTATCTTATTCGATGTTTTTGGGATCGATACAATTTTAAATGT
* * *
374370 ATCGACACTTTATGCGTGCACCCTTTTAGTCATTCATTTTGGACAACAAGTATCGACACAAATTC
131 ATCGACACTTTATGCGTGCACCCTTTTAGGCATTCATTCTGGACAACAAGTATCGGCACAAATTC
374435 AAC
196 AAC
* * *
374438 AAGTGTCGATACATTATGTAGACCTATTATCTAATTAACCGGTATATTTCTATCGGCTACATTAG
1 AAGTGTCGATACATTATGTAGACCTATTATCTAATTAACCGGTATATTTCTACCGGTTACATTGG
* *
374503 AAATTGACCTATTACATTATAATGATCTTATTCGATGTTTTTGGGATTGATACAATTTTAAATGT
66 AAATTGACCTATTACATTATAATTATCTTATTCGATGTTTTTGGGATCGATACAATTTTAAATGT
* * * *
374568 ATCGACACTTTATGCGTGAACCATTTTAGGCATTCATTCTGAACAATAAGTATCGGCACAAATTC
131 ATCGACACTTTATGCGTGCACCCTTTTAGGCATTCATTCTGGACAACAAGTATCGGCACAAATTC
*
374633 CAC
196 AAC
* * *
374636 AAGTGTTGATACATTATGTAGACCTATTATCTAATTAACCGATGTATTTCTACCGGTTACATTGG
1 AAGTGTCGATACATTATGTAGACCTATTATCTAATTAACCGGTATATTTCTACCGGTTACATTGG
374701 AAATTGACCTATTACATTATAATTATCTTATTCGATGTTTTTGGGATCGATACAATTTTAAATGT
66 AAATTGACCTATTACATTATAATTATCTTATTCGATGTTTTTGGGATCGATACAATTTTAAATGT
* *
374766 ATCGACACTTTATGCGTACACCCTTTTAGGCATTCATTCTGGACAAAAAGTATCGGCACAAATTC
131 ATCGACACTTTATGCGTGCACCCTTTTAGGCATTCATTCTGGACAACAAGTATCGGCACAAATTC
374831 AAC
196 AAC
**
374834 AAGTGTCGATACATTATGTAGACCTATTATCTAATTAACCGGTATATTTCTACATGTTACATTGG
1 AAGTGTCGATACATTATGTAGACCTATTATCTAATTAACCGGTATATTTCTACCGGTTACATTGG
* **
374899 AAATTGACCTATTACATTATAGTTATCTTATTCGATGTTTTTCTGATCGATACAATTTTAAATGT
66 AAATTGACCTATTACATTATAATTATCTTATTCGATGTTTTTGGGATCGATACAATTTTAAATGT
* *
374964 ATCGACACTTTATGTGTGCACCCTTTTAGGCATTCATTCTGGACAACAAGTATCGGCCCAAATTC
131 ATCGACACTTTATGCGTGCACCCTTTTAGGCATTCATTCTGGACAACAAGTATCGGCACAAATTC
*
375029 CAC
196 AAC
* *
375032 AAGTGTCAATACATTATGTAGACCTATTATCTAATTAACCGGTATATTTCTATCGGTTACATTGG
1 AAGTGTCGATACATTATGTAGACCTATTATCTAATTAACCGGTATATTTCTACCGGTTACATTGG
*
375097 AAATTGACCTATTACATTATAATTATCTTATTCGATGTTTTTGGGATCGATACAATTTTAAATTT
66 AAATTGACCTATTACATTATAATTATCTTATTCGATGTTTTTGGGATCGATACAATTTTAAATGT
* * * * *
375162 ATCGACACTTTATGAGTGCACCCTTTTAGGCCTTTATTCTTGACAACAAGTATCAGCACAAATTC
131 ATCGACACTTTATGCGTGCACCCTTTTAGGCATTCATTCTGGACAACAAGTATCGGCACAAATTC
*
375227 CAC
196 AAC
* * * * * * * *
375230 AAGTGTCGATACATTATGTAGACATATTATCTAATTAACTGATATATATCTACTGATTACGTTGT
1 AAGTGTCGATACATTATGTAGACCTATTATCTAATTAACCGGTATATTTCTACCGGTTACATTGG
* * *
375295 AAATTTACCTATTACATTATAATTATCTTATTTGATGTTTTTTGGATC
66 AAATTGACCTATTACATTATAATTATCTTATTCGATGTTTTTGGGATC
375343 TAGATTTTTA
Statistics
Matches: 5032, Mismatches: 411, Indels: 33
0.92 0.08 0.01
Matches are distributed among these distances:
197 36 0.01
198 4893 0.97
199 97 0.02
200 6 0.00
ACGTcount: A:0.31, C:0.17, G:0.14, T:0.37
Consensus pattern (198 bp):
AAGTGTCGATACATTATGTAGACCTATTATCTAATTAACCGGTATATTTCTACCGGTTACATTGG
AAATTGACCTATTACATTATAATTATCTTATTCGATGTTTTTGGGATCGATACAATTTTAAATGT
ATCGACACTTTATGCGTGCACCCTTTTAGGCATTCATTCTGGACAACAAGTATCGGCACAAATTC
AAC
Found at i:375419 original size:13 final size:13
Alignment explanation
Indices: 375403--375428 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
375393 ACATTAATAA
375403 CTAGTATTGATAT
1 CTAGTATTGATAT
375416 CTAGTATTGATAT
1 CTAGTATTGATAT
375429 TTCAACAATC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.08, G:0.15, T:0.46
Consensus pattern (13 bp):
CTAGTATTGATAT
Found at i:376585 original size:18 final size:18
Alignment explanation
Indices: 376562--376598 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
376552 CGAAATTTAT
376562 ATTGAAATTCAAACTCAA
1 ATTGAAATTCAAACTCAA
* *
376580 ATTGAAATTTAAATTCAA
1 ATTGAAATTCAAACTCAA
376598 A
1 A
376599 CTCCAATTAC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.51, C:0.11, G:0.05, T:0.32
Consensus pattern (18 bp):
ATTGAAATTCAAACTCAA
Found at i:377172 original size:15 final size:15
Alignment explanation
Indices: 377129--377173 Score: 63
Period size: 15 Copynumber: 3.0 Consensus size: 15
377119 ACTATGTTTT
* *
377129 CCCTCACCGTCATAC
1 CCCTGACCGTCATCC
377144 CCCTGACCGTCATCC
1 CCCTGACCGTCATCC
*
377159 CCCTGAGCGTCATCC
1 CCCTGACCGTCATCC
377174 ACCCCTCCAA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 27 1.00
ACGTcount: A:0.16, C:0.51, G:0.13, T:0.20
Consensus pattern (15 bp):
CCCTGACCGTCATCC
Found at i:377490 original size:22 final size:24
Alignment explanation
Indices: 377462--377518 Score: 66
Period size: 24 Copynumber: 2.5 Consensus size: 24
377452 AACCTTCATT
377462 TATAATAAAAT-T-TATCATTTTA
1 TATAATAAAATGTATATCATTTTA
*
377484 TATAAT-AATTGTAATATCATTTTA
1 TATAATAAAATGT-ATATCATTTTA
*
377508 TATAAAAAAAT
1 TATAATAAAAT
377519 AAAAACATTA
Statistics
Matches: 28, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
21 3 0.11
22 7 0.25
24 15 0.54
25 3 0.11
ACGTcount: A:0.49, C:0.04, G:0.02, T:0.46
Consensus pattern (24 bp):
TATAATAAAATGTATATCATTTTA
Found at i:379274 original size:183 final size:182
Alignment explanation
Indices: 378925--379417 Score: 816
Period size: 183 Copynumber: 2.7 Consensus size: 182
378915 TACGCCTTCT
*
378925 TATTAATGTATCGACACTTTCAACATATCCGGTAGCGCTTTACCGGTTTTGTCATTTATAGA-CC
1 TATTAATGTATCGACACTTTCAACATATCCGGTAGCGCTTTACCGGTTTTGTCATTTATAGATCG
*
378989 AGTTTTGTCA-TTTTTTACCTGTTATATTATTATGGATCGATACATTTTTATAAAGTATCGACAC
66 A-TTTTGTCATTTTTTTACCTGTTATATTGTTATGGATCGATACATTTTTATAAAGTATCGACAC
* *
379053 TTTATAGGCATTATTATTGCTCTTCTTTTAAATTCCAAAAGTTTCGATACTTA
130 TTTATAGGCATTACTATTGCTCTTCTTTTAAATTCCAAAAGTGTCGATACTTA
379106 TATTAATGTATCGACACTTTCAACATATCCGGTAGCGCTTTACCGGTTTTGTCATTTATAGATCG
1 TATTAATGTATCGACACTTTCAACATATCCGGTAGCGCTTTACCGGTTTTGTCATTTATAGATCG
* *
379171 ATTTTGTCATTTTTTTTACTTGTTATATTGTTATGGATCAATACATTTTTATAAAGTATCGACAC
66 ATTTTGTCA-TTTTTTTACCTGTTATATTGTTATGGATCGATACATTTTTATAAAGTATCGACAC
*
379236 TTTATAGGCGCCATTACTATT-C-C-TCTTTTAAATTCCAAAGGTGTCGATACTTA
130 TTTATA-G-G-CATTACTATTGCTCTTCTTTTAAATTCCAAAAGTGTCGATACTTA
* *
379289 TATTAATGTATCGACACTTTAAATATATCCGGTAGCGCTTTACCGGTTTTGTCATTTATAGATCG
1 TATTAATGTATCGACACTTTCAACATATCCGGTAGCGCTTTACCGGTTTTGTCATTTATAGATCG
*
379354 ATTTTGTCATTTTTTTACCTGTTATATTGTTAAGGATCGATACATTTTTATAAAGTATCGACAC
66 ATTTTGTCATTTTTTTACCTGTTATATTGTTATGGATCGATACATTTTTATAAAGTATCGACAC
379418 AAACCGACAA
Statistics
Matches: 294, Mismatches: 12, Indels: 11
0.93 0.04 0.03
Matches are distributed among these distances:
181 70 0.24
182 54 0.18
183 157 0.53
184 2 0.01
185 2 0.01
186 9 0.03
ACGTcount: A:0.27, C:0.16, G:0.14, T:0.43
Consensus pattern (182 bp):
TATTAATGTATCGACACTTTCAACATATCCGGTAGCGCTTTACCGGTTTTGTCATTTATAGATCG
ATTTTGTCATTTTTTTACCTGTTATATTGTTATGGATCGATACATTTTTATAAAGTATCGACACT
TTATAGGCATTACTATTGCTCTTCTTTTAAATTCCAAAAGTGTCGATACTTA
Found at i:382556 original size:16 final size:16
Alignment explanation
Indices: 382535--382567 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
382525 GTACTTTACC
382535 CTTATTATCATAAAAA
1 CTTATTATCATAAAAA
*
382551 CTTATTATCATAGAAA
1 CTTATTATCATAAAAA
382567 C
1 C
382568 AAGCATAAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.45, C:0.15, G:0.03, T:0.36
Consensus pattern (16 bp):
CTTATTATCATAAAAA
Found at i:383019 original size:5 final size:5
Alignment explanation
Indices: 383009--383033 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
382999 TACTTCTTGC
383009 CTTTT CTTTT CTTTT CTTTT CTTTT
1 CTTTT CTTTT CTTTT CTTTT CTTTT
383034 TTGTACCTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.00, C:0.20, G:0.00, T:0.80
Consensus pattern (5 bp):
CTTTT
Found at i:384541 original size:31 final size:31
Alignment explanation
Indices: 384503--384566 Score: 101
Period size: 31 Copynumber: 2.1 Consensus size: 31
384493 TAAATAAACT
384503 ATATATTTAATGTTCTCCTATCGTCATAAGC
1 ATATATTTAATGTTCTCCTATCGTCATAAGC
* * *
384534 ATATATTTAATGTTCTCCTTTCTTCGTAAGC
1 ATATATTTAATGTTCTCCTATCGTCATAAGC
384565 AT
1 AT
384567 CAGTTACAGT
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.27, C:0.19, G:0.09, T:0.45
Consensus pattern (31 bp):
ATATATTTAATGTTCTCCTATCGTCATAAGC
Found at i:386077 original size:14 final size:13
Alignment explanation
Indices: 386060--386090 Score: 53
Period size: 13 Copynumber: 2.3 Consensus size: 13
386050 CTTAATTACA
386060 AAAATTTAAAATTT
1 AAAATTT-AAATTT
386074 AAAATTTAAATTT
1 AAAATTTAAATTT
386087 AAAA
1 AAAA
386091 ACCAGATTCA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 10 0.59
14 7 0.41
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (13 bp):
AAAATTTAAATTT
Found at i:386086 original size:6 final size:7
Alignment explanation
Indices: 386060--386090 Score: 55
Period size: 7 Copynumber: 4.6 Consensus size: 7
386050 CTTAATTACA
386060 AAAATTT
1 AAAATTT
386067 AAAATTT
1 AAAATTT
386074 AAAATTT
1 AAAATTT
386081 -AAATTT
1 AAAATTT
386087 AAAA
1 AAAA
386091 ACCAGATTCA
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
6 6 0.26
7 17 0.74
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (7 bp):
AAAATTT
Found at i:386179 original size:13 final size:13
Alignment explanation
Indices: 386163--386187 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
386153 GTTAAATCGT
386163 AAAAATAAAAATA
1 AAAAATAAAAATA
386176 AAAAATAAAAAT
1 AAAAATAAAAAT
386188 GTTAAAAAAG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.84, C:0.00, G:0.00, T:0.16
Consensus pattern (13 bp):
AAAAATAAAAATA
Found at i:387493 original size:23 final size:22
Alignment explanation
Indices: 387463--387535 Score: 92
Period size: 23 Copynumber: 3.2 Consensus size: 22
387453 TTCGAACCCT
*
387463 TAAAAAAAGGAAAAATAATTAAA
1 TAAAAAAA-GAAAAATAAATAAA
*
387486 TAAAAAAATAAAAATAAAGTAAA
1 TAAAAAAAGAAAAATAAA-TAAA
*
387509 TAAATAAAGAATAAATAAATAAA
1 TAAAAAAAGAA-AAATAAATAAA
387532 TAAA
1 TAAA
387536 TAATTATATA
Statistics
Matches: 44, Mismatches: 4, Indels: 4
0.85 0.08 0.08
Matches are distributed among these distances:
22 8 0.18
23 29 0.66
24 7 0.16
ACGTcount: A:0.75, C:0.00, G:0.05, T:0.19
Consensus pattern (22 bp):
TAAAAAAAGAAAAATAAATAAA
Found at i:387513 original size:19 final size:19
Alignment explanation
Indices: 387482--387555 Score: 87
Period size: 19 Copynumber: 3.8 Consensus size: 19
387472 GAAAAATAAT
*
387482 TAAATAAAAAAATAAA-AA
1 TAAATAAATAAATAAAGAA
387500 TAAAGTAAATAAATAAAGAA
1 TAAA-TAAATAAATAAAGAA
*
387520 TAAATAAATAAATAAATAA
1 TAAATAAATAAATAAAGAA
*
387539 TTATATAAATAATATAA
1 -TAAATAAATAA-ATAA
387556 TAATTTTTGA
Statistics
Matches: 49, Mismatches: 3, Indels: 5
0.86 0.05 0.09
Matches are distributed among these distances:
18 4 0.08
19 25 0.51
20 16 0.33
21 4 0.08
ACGTcount: A:0.72, C:0.00, G:0.03, T:0.26
Consensus pattern (19 bp):
TAAATAAATAAATAAAGAA
Found at i:387514 original size:4 final size:4
Alignment explanation
Indices: 387475--387555 Score: 78
Period size: 4 Copynumber: 20.5 Consensus size: 4
387465 AAAAAAGGAA
* * *
387475 AAAT AATT AAAT AAAA AAAT -AA- AAAT AAAGT AAAT AAAT AAA- GAAT
1 AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAA-T AAAT AAAT AAAT AAAT
* *
387521 AAAT AAAT AAAT AAAT AATT ATAT AAAT AATAT AA
1 AAAT AAAT AAAT AAAT AAAT AAAT AAAT AA-AT AA
387556 TAATTTTTGA
Statistics
Matches: 62, Mismatches: 10, Indels: 9
0.77 0.12 0.11
Matches are distributed among these distances:
3 6 0.10
4 48 0.77
5 8 0.13
ACGTcount: A:0.72, C:0.00, G:0.02, T:0.26
Consensus pattern (4 bp):
AAAT
Found at i:387639 original size:2 final size:2
Alignment explanation
Indices: 387632--387660 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
387622 AACTATCTAT
387632 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 T
387661 TAAAAAATTT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:387705 original size:38 final size:35
Alignment explanation
Indices: 387696--388023 Score: 247
Period size: 37 Copynumber: 8.7 Consensus size: 35
387686 TAAATATATG
387696 TTTTCAAAAACTATATATTATATATATTTT-AAAATA
1 TTTTCAAAAACTATATATTATATAT-TTTTCAAAA-A
* *
387732 TTTTCAAAAACTTTATATTATATATGTTTTCAAAATG
1 TTTTCAAAAACTATATATTATATAT-TTTTCAAAA-A
*
387769 TTTTCAAAAATTATATATTATATATATTTTCAAAAA
1 TTTTCAAAAACTATATATTATATAT-TTTTCAAAAA
387805 TGTTTTCAAAAACTATATATTATATATGTTTTC-AAAA
1 --TTTTCAAAAACTATATATTATATAT-TTTTCAAAAA
* *
387842 TGTTTCAAAAACTATATATTATATATATTTTTGAATACCA
1 T-TTTCAAAAACTATATA-T-TATATATTTTTCAA-A-AA
*
387882 TTTTC-AAAACTATATAATATTATTATATTTTTGAAAACCAA
1 TTTTCAAAAAC--TAT-ATATTA-TATATTTTT-CAAA--AA
* * *
387923 TTTTTTAAAAAGTATATATTATAT-GTTTTCAAAAACTA
1 -TTTTCAAAAACTATATATTATATATTTTTC-AAAA--A
387961 TTTTCTAAAAA-TATATA-T-TATATTTTTCAAAAAATA
1 TTTTC-AAAAACTATATATTATATATTTTTC--AAAA-A
*
387997 TTTTCAAAAATTATACTATATATATAT
1 TTTTCAAAAACTATA-TAT-TATATAT
388024 ATATATATAT
Statistics
Matches: 245, Mismatches: 19, Indels: 52
0.78 0.06 0.16
Matches are distributed among these distances:
35 9 0.04
36 62 0.25
37 63 0.26
38 55 0.22
39 11 0.04
40 27 0.11
41 10 0.04
42 4 0.02
43 4 0.02
ACGTcount: A:0.43, C:0.07, G:0.03, T:0.47
Consensus pattern (35 bp):
TTTTCAAAAACTATATATTATATATTTTTCAAAAA
Found at i:387706 original size:28 final size:28
Alignment explanation
Indices: 387668--387722 Score: 101
Period size: 28 Copynumber: 2.0 Consensus size: 28
387658 TATTAAAAAA
387668 TTTTCAAAAACTATATATTAAATATATG
1 TTTTCAAAAACTATATATTAAATATATG
*
387696 TTTTCAAAAACTATATATTATATATAT
1 TTTTCAAAAACTATATATTAAATATAT
387723 TTTAAAATAT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
28 26 1.00
ACGTcount: A:0.45, C:0.07, G:0.02, T:0.45
Consensus pattern (28 bp):
TTTTCAAAAACTATATATTAAATATATG
Done.