Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NTFQ01014538.1 Kokia drynarioides strain JFW-HI SEQ_129577, 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: 245537
ACGTcount: A:0.34, C:0.16, G:0.16, T:0.34
Warning! 75 characters in sequence are not A, C, G, or T
Found at i:148 original size:12 final size:12
Alignment explanation
Indices: 127--200 Score: 51
Period size: 12 Copynumber: 6.1 Consensus size: 12
117 ATAACATCCA
127 AACAACCAAAAT
1 AACAACCAAAAT
*
139 AACAATCAAAAT
1 AACAACCAAAAT
* * *
151 AGCAGCAAAAAT
1 AACAACCAAAAT
*
163 ATAGCAACAAAAAT
1 A-A-CAACCAAAAT
** *
177 AACAATAAAAAC
1 AACAACCAAAAT
189 AAC-ACCAAAAT
1 AACAACCAAAAT
200 A
1 A
201 GTAAAAAAAC
Statistics
Matches: 48, Mismatches: 12, Indels: 5
0.74 0.18 0.08
Matches are distributed among these distances:
11 6 0.12
12 31 0.65
13 1 0.02
14 10 0.21
ACGTcount: A:0.66, C:0.19, G:0.04, T:0.11
Consensus pattern (12 bp):
AACAACCAAAAT
Found at i:232 original size:21 final size:22
Alignment explanation
Indices: 183--230 Score: 87
Period size: 22 Copynumber: 2.2 Consensus size: 22
173 AAATAACAAT
183 AAAAACAACACCAAAATAGTAA
1 AAAAACAACACCAAAATAGTAA
*
205 AAAAACAGCACCAAAATAGTAA
1 AAAAACAACACCAAAATAGTAA
227 AAAA
1 AAAA
231 CACCAAAACA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.69, C:0.17, G:0.06, T:0.08
Consensus pattern (22 bp):
AAAAACAACACCAAAATAGTAA
Found at i:236 original size:18 final size:18
Alignment explanation
Indices: 184--243 Score: 66
Period size: 18 Copynumber: 3.1 Consensus size: 18
174 AATAACAATA
184 AAAACAACACCAAAATAGT
1 AAAA-AACACCAAAATAGT
203 AAAAAAACAGCACCAAAATAGT
1 --AAAAA-A-CACCAAAATAGT
*
225 AAAAAACACCAAAACAGT
1 AAAAAACACCAAAATAGT
243 A
1 A
244 GAAACACAAA
Statistics
Matches: 36, Mismatches: 1, Indels: 7
0.82 0.02 0.16
Matches are distributed among these distances:
18 12 0.33
19 1 0.03
20 6 0.17
21 5 0.14
22 12 0.33
ACGTcount: A:0.65, C:0.20, G:0.07, T:0.08
Consensus pattern (18 bp):
AAAAAACACCAAAATAGT
Found at i:303 original size:23 final size:24
Alignment explanation
Indices: 266--312 Score: 78
Period size: 23 Copynumber: 2.0 Consensus size: 24
256 CCAAAACAGC
*
266 AAAAAATAGCAACCAAAACAACAA
1 AAAAAACAGCAACCAAAACAACAA
290 AAAAAACAGC-ACCAAAACAACAA
1 AAAAAACAGCAACCAAAACAACAA
313 TATAATTTTT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
23 13 0.59
24 9 0.41
ACGTcount: A:0.70, C:0.23, G:0.04, T:0.02
Consensus pattern (24 bp):
AAAAAACAGCAACCAAAACAACAA
Found at i:8736 original size:19 final size:20
Alignment explanation
Indices: 8695--8736 Score: 52
Period size: 20 Copynumber: 2.1 Consensus size: 20
8685 TTAAAATACA
*
8695 TAAAAAAAAATATTCAAACT
1 TAAAAAAAAATATTCAAAAT
8715 TAAAAAAAAA-A-TCAATAAT
1 TAAAAAAAAATATTCAA-AAT
8734 TAA
1 TAA
8737 GCTTTTGATT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
18 4 0.20
19 6 0.30
20 10 0.50
ACGTcount: A:0.69, C:0.07, G:0.00, T:0.24
Consensus pattern (20 bp):
TAAAAAAAAATATTCAAAAT
Found at i:8869 original size:8 final size:9
Alignment explanation
Indices: 8855--8955 Score: 71
Period size: 10 Copynumber: 10.7 Consensus size: 9
8845 ATAAAAAACA
8855 ATAAAAATT
1 ATAAAAATT
8864 ATAAAAATT
1 ATAAAAATT
**
8873 ATTAAATTTT
1 A-TAAAAATT
8883 AATAAATAATT
1 -ATAAA-AATT
*
8894 ATAAAAAAT
1 ATAAAAATT
**
8903 -TAAATTTT
1 ATAAAAATT
8911 ATTAAAAATT
1 A-TAAAAATT
*
8921 AGAAAAAATT
1 A-TAAAAATT
8931 ATAAAAATCGT
1 ATAAAAAT--T
8942 A-AAAAATT
1 ATAAAAATT
8950 ATAAAA
1 ATAAAA
8956 TATGTGGAAA
Statistics
Matches: 71, Mismatches: 13, Indels: 16
0.71 0.13 0.16
Matches are distributed among these distances:
8 7 0.10
9 23 0.32
10 36 0.51
11 5 0.07
ACGTcount: A:0.62, C:0.01, G:0.02, T:0.35
Consensus pattern (9 bp):
ATAAAAATT
Found at i:8878 original size:19 final size:18
Alignment explanation
Indices: 8855--8955 Score: 71
Period size: 19 Copynumber: 5.3 Consensus size: 18
8845 ATAAAAAACA
8855 ATAAAAATTATAAAAATT
1 ATAAAAATTATAAAAATT
**
8873 ATTAAATTTTAATAAATAATT
1 A-TAAAAATT-ATAAA-AATT
* **
8894 ATAAAAAAT-TAAATTTT
1 ATAAAAATTATAAAAATT
*
8911 ATTAAAAATTAGAAAAAATT
1 A-TAAAAATTA-TAAAAATT
8931 ATAAAAATCGTA-AAAAATT
1 ATAAAAAT--TATAAAAATT
8950 ATAAAA
1 ATAAAA
8956 TATGTGGAAA
Statistics
Matches: 64, Mismatches: 11, Indels: 15
0.71 0.12 0.17
Matches are distributed among these distances:
17 3 0.05
18 12 0.19
19 26 0.41
20 16 0.25
21 7 0.11
ACGTcount: A:0.62, C:0.01, G:0.02, T:0.35
Consensus pattern (18 bp):
ATAAAAATTATAAAAATT
Found at i:8928 original size:27 final size:27
Alignment explanation
Indices: 8854--8931 Score: 111
Period size: 28 Copynumber: 2.8 Consensus size: 27
8844 AATAAAAAAC
8854 AATAAAAATTATAAAAATTATTAAATTTT
1 AATAAAAATTATAAAAA--ATTAAATTTT
8883 AATAAATAATTATAAAAAATTAAATTTT
1 AATAAA-AATTATAAAAAATTAAATTTT
* *
8911 ATTAAAAATTAGAAAAAATTA
1 AATAAAAATTATAAAAAATTA
8932 TAAAAATCGT
Statistics
Matches: 46, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
27 14 0.30
28 15 0.33
29 6 0.13
30 11 0.24
ACGTcount: A:0.62, C:0.00, G:0.01, T:0.37
Consensus pattern (27 bp):
AATAAAAATTATAAAAAATTAAATTTT
Found at i:9189 original size:18 final size:19
Alignment explanation
Indices: 9166--9229 Score: 71
Period size: 18 Copynumber: 3.4 Consensus size: 19
9156 ATTTTTTGCG
9166 ATTTTTATAAAAATTT-TA
1 ATTTTTATAAAAATTTATA
9184 ATTTTTA-ATAAAATTTATA
1 ATTTTTATA-AAAATTTATA
*
9203 A-TTTTATTAAAAATTAATA
1 ATTTTTA-TAAAAATTTATA
*
9222 AATTTTAT
1 ATTTTTAT
9230 TTATTTTTAT
Statistics
Matches: 40, Mismatches: 1, Indels: 9
0.80 0.02 0.18
Matches are distributed among these distances:
17 1 0.03
18 19 0.47
19 14 0.35
20 6 0.15
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (19 bp):
ATTTTTATAAAAATTTATA
Found at i:9189 original size:19 final size:20
Alignment explanation
Indices: 9167--9227 Score: 65
Period size: 19 Copynumber: 3.1 Consensus size: 20
9157 TTTTTTGCGA
9167 TTTTTATAAAAATTT-TAAT
1 TTTTTATAAAAATTTATAAT
*
9186 TTTTAAT-AAAATTTATAAT
1 TTTTTATAAAAATTTATAAT
* *
9205 TTTAT-TAAAAATTAATAAAT
1 TTTTTATAAAAATTTAT-AAT
9225 TTT
1 TTT
9228 ATTTATTTTT
Statistics
Matches: 35, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
18 8 0.23
19 21 0.60
20 6 0.17
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (20 bp):
TTTTTATAAAAATTTATAAT
Found at i:11037 original size:25 final size:25
Alignment explanation
Indices: 10992--11061 Score: 63
Period size: 25 Copynumber: 2.8 Consensus size: 25
10982 ATGTTATTTT
*
10992 TTTAA-AAATATTTATTTTATTTTAATA
1 TTTAATAAAT-TTTA-TATATTTT-ATA
*
11019 TTTAAT-AATTTTATATATTTTTTA
1 TTTAATAAATTTTATATATTTTATA
* *
11043 TTTATTAAATTTTTTATAT
1 TTTAATAAATTTTATATAT
11062 AGTCATCTTA
Statistics
Matches: 37, Mismatches: 4, Indels: 6
0.79 0.09 0.13
Matches are distributed among these distances:
24 7 0.19
25 18 0.49
26 4 0.11
27 8 0.22
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (25 bp):
TTTAATAAATTTTATATATTTTATA
Found at i:12049 original size:30 final size:30
Alignment explanation
Indices: 12013--12084 Score: 90
Period size: 31 Copynumber: 2.4 Consensus size: 30
12003 TCTATACATG
*
12013 AACTTTAATTTGGTACAATTATACACGTGA
1 AACTTTAATTTGGTACAAATATACACGTGA
* * * *
12043 AACTTTAATTGTGGTTCAAATGTATACTTGA
1 AACTTTAATT-TGGTACAAATATACACGTGA
12074 AACTTTAATTT
1 AACTTTAATTT
12085 TGATTTTATC
Statistics
Matches: 36, Mismatches: 5, Indels: 2
0.84 0.12 0.05
Matches are distributed among these distances:
30 11 0.31
31 25 0.69
ACGTcount: A:0.35, C:0.11, G:0.12, T:0.42
Consensus pattern (30 bp):
AACTTTAATTTGGTACAAATATACACGTGA
Found at i:12273 original size:29 final size:30
Alignment explanation
Indices: 12227--12285 Score: 84
Period size: 29 Copynumber: 2.0 Consensus size: 30
12217 GAATTGGATC
*
12227 AAATCAAAATTCTATGTATAAAATTGCACA
1 AAATCAAAATTCTATGTATAAAATTACACA
* *
12257 AAATCAAAGTTC-ATGTATACAATTACACA
1 AAATCAAAATTCTATGTATAAAATTACACA
12286 TTAAACCATA
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
29 15 0.58
30 11 0.42
ACGTcount: A:0.49, C:0.15, G:0.07, T:0.29
Consensus pattern (30 bp):
AAATCAAAATTCTATGTATAAAATTACACA
Found at i:14039 original size:21 final size:21
Alignment explanation
Indices: 13992--14051 Score: 66
Period size: 21 Copynumber: 2.9 Consensus size: 21
13982 ACAGTAGCAG
* * *
13992 ACTTCTACCGATACTATTGAT
1 ACTTCTACCGATACAAGTGAC
*
14013 AGTTCTACCGATACAAGTGAC
1 ACTTCTACCGATACAAGTGAC
* *
14034 ACTTCTATCGAAACAAGT
1 ACTTCTACCGATACAAGT
14052 CATGCTTTTA
Statistics
Matches: 32, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
21 32 1.00
ACGTcount: A:0.33, C:0.23, G:0.13, T:0.30
Consensus pattern (21 bp):
ACTTCTACCGATACAAGTGAC
Found at i:14860 original size:18 final size:18
Alignment explanation
Indices: 14768--14860 Score: 66
Period size: 18 Copynumber: 5.2 Consensus size: 18
14758 CGATCCGTTA
* *
14768 ATGCTCTTACGAGCCAGT
1 ATGCTCTAACGAGCCAAT
* *
14786 ATGCTC-ACACAAGCTAAT
1 ATGCTCTA-ACGAGCCAAT
*
14804 ATGCT-TAAATGAGCCAAT
1 ATGCTCT-AACGAGCCAAT
* * *
14822 ATGCTC-AAGCGATCTAGT
1 ATGCTCTAA-CGAGCCAAT
14840 ATGCTCTAACGAGCCAAT
1 ATGCTCTAACGAGCCAAT
14858 ATG
1 ATG
14861 TTACTCCTTG
Statistics
Matches: 55, Mismatches: 14, Indels: 12
0.68 0.17 0.15
Matches are distributed among these distances:
17 2 0.04
18 50 0.91
19 3 0.05
ACGTcount: A:0.32, C:0.24, G:0.18, T:0.26
Consensus pattern (18 bp):
ATGCTCTAACGAGCCAAT
Found at i:31842 original size:31 final size:30
Alignment explanation
Indices: 31798--31878 Score: 74
Period size: 30 Copynumber: 2.6 Consensus size: 30
31788 AATTAATAGC
*
31798 TTTAATCATTTAAATTATTA-GTAAGTTCACAT
1 TTTAGTCA-TTAAATTATTACG-AAGTT-ACAT
* *
31830 TTTAGTCATTAAACTATTACGAAGTTTCAT
1 TTTAGTCATTAAATTATTACGAAGTTACAT
* **
31860 TTAAGTCATTGGATTATTA
1 TTTAGTCATTAAATTATTA
31879 AGATTGCTGT
Statistics
Matches: 41, Mismatches: 7, Indels: 4
0.79 0.13 0.08
Matches are distributed among these distances:
30 18 0.44
31 15 0.37
32 8 0.20
ACGTcount: A:0.35, C:0.10, G:0.10, T:0.46
Consensus pattern (30 bp):
TTTAGTCATTAAATTATTACGAAGTTACAT
Found at i:34232 original size:16 final size:18
Alignment explanation
Indices: 34191--34235 Score: 58
Period size: 16 Copynumber: 2.6 Consensus size: 18
34181 TAAAATTATG
34191 AAAATTATAAAAGCTTATA
1 AAAATTATAAAAGC-TATA
*
34210 AATATTATAAAA-C-ATA
1 AAAATTATAAAAGCTATA
34226 AAAATTATAA
1 AAAATTATAA
34236 CAAATTAATA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
16 12 0.50
18 1 0.04
19 11 0.46
ACGTcount: A:0.62, C:0.04, G:0.02, T:0.31
Consensus pattern (18 bp):
AAAATTATAAAAGCTATA
Found at i:34268 original size:20 final size:21
Alignment explanation
Indices: 34223--34281 Score: 54
Period size: 20 Copynumber: 2.9 Consensus size: 21
34213 ATTATAAAAC
*
34223 ATAAAAAT-TA-TAACAAATTA
1 ATAAAAATGTATTAA-AATTTA
*
34243 ATAAAACT-TATTTAAAATTTA
1 ATAAAAATGTA-TTAAAATTTA
34264 A-AAAAATGTATTAAAATT
1 ATAAAAATGTATTAAAATT
34282 CTTAAAAATT
Statistics
Matches: 33, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
20 22 0.67
21 8 0.24
22 3 0.09
ACGTcount: A:0.59, C:0.03, G:0.02, T:0.36
Consensus pattern (21 bp):
ATAAAAATGTATTAAAATTTA
Found at i:34353 original size:10 final size:9
Alignment explanation
Indices: 34182--34337 Score: 82
Period size: 9 Copynumber: 16.4 Consensus size: 9
34172 TAAACCTATT
*
34182 AAAATTATG
1 AAAATTATA
34191 AAAATTATA
1 AAAATTATA
*
34200 AAAGCTTATA
1 AAA-ATTATA
*
34210 AATATTAT-
1 AAAATTATA
*
34218 AAAA-CATA
1 AAAATTATA
34226 AAAATTATA
1 AAAATTATA
34235 ACAAATTAATA
1 A-AAATT-ATA
*
34246 AAACTTATTTA
1 AAAATTA--TA
* *
34257 AAATTTAAA
1 AAAATTATA
*
34266 AAAATGTATT
1 AAAAT-TATA
*
34276 AAAATTCTTA
1 AAAATT-ATA
*
34286 AAAATTGTA
1 AAAATTATA
* *
34295 AAAATACATT
1 AAAAT-TATA
34305 AAAATTGATA
1 AAAATT-ATA
**
34315 TAAACCTATA
1 -AAAATTATA
34325 AAAATTATA
1 AAAATTATA
34334 AAAA
1 AAAA
34338 AAAATTCATA
Statistics
Matches: 110, Mismatches: 25, Indels: 24
0.69 0.16 0.15
Matches are distributed among these distances:
7 2 0.02
8 7 0.06
9 44 0.40
10 41 0.37
11 16 0.15
ACGTcount: A:0.59, C:0.05, G:0.03, T:0.33
Consensus pattern (9 bp):
AAAATTATA
Found at i:39195 original size:2 final size:2
Alignment explanation
Indices: 39141--39183 Score: 86
Period size: 2 Copynumber: 21.5 Consensus size: 2
39131 GTGAGTATGT
39141 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
39183 G
1 G
39184 TGTGTGAGAG
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 41 1.00
ACGTcount: A:0.49, C:0.00, G:0.51, T:0.00
Consensus pattern (2 bp):
GA
Found at i:40392 original size:30 final size:30
Alignment explanation
Indices: 40355--40422 Score: 82
Period size: 30 Copynumber: 2.3 Consensus size: 30
40345 TGTTCACATG
* **
40355 AGCTGACAATATATCAGGGTTGCTCACACA
1 AGCTGACAATATAACAAAGTTGCTCACACA
* * *
40385 AGTTGACAGTTTAACAAAGTTGCTCACACA
1 AGCTGACAATATAACAAAGTTGCTCACACA
40415 AGCTGACA
1 AGCTGACA
40423 TTTTATCAAG
Statistics
Matches: 31, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.35, C:0.22, G:0.19, T:0.24
Consensus pattern (30 bp):
AGCTGACAATATAACAAAGTTGCTCACACA
Found at i:41606 original size:17 final size:17
Alignment explanation
Indices: 41584--41617 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
41574 TAATCATGAC
*
41584 TTATTATACTAATTTAT
1 TTATTAGACTAATTTAT
*
41601 TTATTAGATTAATTTAT
1 TTATTAGACTAATTTAT
41618 GTAATGACAT
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:0.35, C:0.03, G:0.03, T:0.59
Consensus pattern (17 bp):
TTATTAGACTAATTTAT
Found at i:44731 original size:2 final size:2
Alignment explanation
Indices: 44724--44761 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
44714 CTTGTCTCAA
44724 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
44762 TAATTTGTTA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:46615 original size:13 final size:13
Alignment explanation
Indices: 46597--46622 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
46587 ACAAAAGTGC
46597 ACAATAGTAAATT
1 ACAATAGTAAATT
46610 ACAATAGTAAATT
1 ACAATAGTAAATT
46623 TAAGGAGATA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.54, C:0.08, G:0.08, T:0.31
Consensus pattern (13 bp):
ACAATAGTAAATT
Found at i:48805 original size:30 final size:29
Alignment explanation
Indices: 48748--48805 Score: 73
Period size: 29 Copynumber: 2.0 Consensus size: 29
48738 CTTATATTTG
**
48748 GAATTTAGTCTCTTCATTTTTATTTCAAT
1 GAATTTAGTCTCTTCATTTAGATTTCAAT
48777 GAATTTAGTCTCTCTACA-TTAGATTTCAA
1 GAATTTAGTCTCT-T-CATTTAGATTTCAA
48806 AATACAAGTT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
29 13 0.52
30 10 0.40
31 2 0.08
ACGTcount: A:0.28, C:0.16, G:0.09, T:0.48
Consensus pattern (29 bp):
GAATTTAGTCTCTTCATTTAGATTTCAAT
Found at i:51275 original size:31 final size:31
Alignment explanation
Indices: 51240--51298 Score: 118
Period size: 31 Copynumber: 1.9 Consensus size: 31
51230 CATTCTTTAC
51240 ATAGCTTTCAACATACTTTATTCACCTATGA
1 ATAGCTTTCAACATACTTTATTCACCTATGA
51271 ATAGCTTTCAACATACTTTATTCACCTA
1 ATAGCTTTCAACATACTTTATTCACCTA
51299 CAATCATATT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 28 1.00
ACGTcount: A:0.32, C:0.24, G:0.05, T:0.39
Consensus pattern (31 bp):
ATAGCTTTCAACATACTTTATTCACCTATGA
Found at i:51673 original size:3 final size:3
Alignment explanation
Indices: 51665--51693 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
51655 AAATATTCAC
51665 ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
51694 CACAATATAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
ATT
Found at i:52152 original size:16 final size:17
Alignment explanation
Indices: 52128--52161 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
52118 TCTTAGATCA
52128 AAACCTTAAAC-CTAGT
1 AAACCTTAAACTCTAGT
*
52144 AAACTTTAAACTCTAGT
1 AAACCTTAAACTCTAGT
52161 A
1 A
52162 TCTCGGTCTA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 10 0.62
17 6 0.38
ACGTcount: A:0.44, C:0.21, G:0.06, T:0.29
Consensus pattern (17 bp):
AAACCTTAAACTCTAGT
Found at i:54272 original size:2 final size:2
Alignment explanation
Indices: 54265--54295 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
54255 ATTATCATGG
54265 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
54296 ATTAAAAGAA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:56906 original size:15 final size:16
Alignment explanation
Indices: 56876--56908 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
56866 AAAGGGGCTT
56876 AAAAAATGTAGCGGAA
1 AAAAAATGTAGCGGAA
*
56892 AAAAAATTTAG-GGAA
1 AAAAAATGTAGCGGAA
56907 AA
1 AA
56909 CAGAGTTTTA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 6 0.38
16 10 0.62
ACGTcount: A:0.61, C:0.03, G:0.21, T:0.15
Consensus pattern (16 bp):
AAAAAATGTAGCGGAA
Found at i:57374 original size:59 final size:57
Alignment explanation
Indices: 57303--57494 Score: 172
Period size: 59 Copynumber: 3.2 Consensus size: 57
57293 ATCACTTTAA
* * *
57303 TATTAAATTAATATAATATTTATTAAGATAAATATTAGATTAAATTTAATCTTAAATCT
1 TATTAAAATAATATAATATTTATTAAGATAAACATTAGATTAAATTTAATATTAAA--T
* * * *
57362 TATTAAAATAATAGAATGTTTATTTACAATATAAACATTAAATTAAATTTAATATTAAGAT
1 TATTAAAATAATATAATATTTA-TT--AAGATAAACATTAGATTAAATTTAATATTAA-AT
* * ** * *
57423 AATCAATTTAATATTAA-ATACTATTAAGATAAGCATT-GAATTAAATTTAATATTAAAT
1 TATTAAAATAATA-TAATAT-TTATTAAGATAAACATTAG-ATTAAATTTAATATTAAAT
57481 TATTAAAATAATAT
1 TATTAAAATAATAT
57495 TATTTTTGGA
Statistics
Matches: 105, Mismatches: 21, Indels: 16
0.74 0.15 0.11
Matches are distributed among these distances:
57 1 0.01
58 11 0.10
59 46 0.44
60 2 0.02
61 13 0.12
62 31 0.30
63 1 0.01
ACGTcount: A:0.50, C:0.04, G:0.04, T:0.42
Consensus pattern (57 bp):
TATTAAAATAATATAATATTTATTAAGATAAACATTAGATTAAATTTAATATTAAAT
Found at i:67907 original size:22 final size:23
Alignment explanation
Indices: 67880--67930 Score: 77
Period size: 22 Copynumber: 2.3 Consensus size: 23
67870 AAACTTTCAA
*
67880 ATTTATTTTATTTAATTACAA-T
1 ATTTATTTTATTTAATTAAAACT
*
67902 ATTTATTTTATTTTATTAAAACT
1 ATTTATTTTATTTAATTAAAACT
67925 ATTTAT
1 ATTTAT
67931 AATTTTTTAC
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
22 19 0.73
23 7 0.27
ACGTcount: A:0.35, C:0.04, G:0.00, T:0.61
Consensus pattern (23 bp):
ATTTATTTTATTTAATTAAAACT
Found at i:71109 original size:26 final size:25
Alignment explanation
Indices: 71052--71111 Score: 66
Period size: 26 Copynumber: 2.4 Consensus size: 25
71042 AGTGGAAAAT
* * *
71052 TAAAAATTATTTAAATTATGCGATA
1 TAAAAATAATTTAAATAATGAGATA
**
71077 TTTAAATAATTTAATATAATGAGATA
1 TAAAAATAATTTAA-ATAATGAGATA
71103 TAAAAATAA
1 TAAAAATAA
71112 ATTCTATATA
Statistics
Matches: 27, Mismatches: 7, Indels: 1
0.77 0.20 0.03
Matches are distributed among these distances:
25 11 0.41
26 16 0.59
ACGTcount: A:0.53, C:0.02, G:0.07, T:0.38
Consensus pattern (25 bp):
TAAAAATAATTTAAATAATGAGATA
Found at i:77935 original size:15 final size:15
Alignment explanation
Indices: 77915--77967 Score: 56
Period size: 15 Copynumber: 3.7 Consensus size: 15
77905 TACTCATTTG
*
77915 TAATTCTTTCTTTTC
1 TAATTCTTTCTTTTA
*
77930 TAATTCTTT-TATTA
1 TAATTCTTTCTTTTA
* *
77944 T-TTTCTTTCTTTTT
1 TAATTCTTTCTTTTA
77958 TAATTCTTTC
1 TAATTCTTTC
77968 ATCATTTTCT
Statistics
Matches: 30, Mismatches: 6, Indels: 4
0.75 0.15 0.10
Matches are distributed among these distances:
13 6 0.20
14 8 0.27
15 16 0.53
ACGTcount: A:0.15, C:0.15, G:0.00, T:0.70
Consensus pattern (15 bp):
TAATTCTTTCTTTTA
Found at i:77985 original size:28 final size:28
Alignment explanation
Indices: 77918--77986 Score: 111
Period size: 28 Copynumber: 2.5 Consensus size: 28
77908 TCATTTGTAA
* * *
77918 TTCTTTCTTTTCTAATTCTTTTATTATT
1 TTCTTTCTTTTTTAATTCTTTCATCATT
77946 TTCTTTCTTTTTTAATTCTTTCATCATT
1 TTCTTTCTTTTTTAATTCTTTCATCATT
77974 TTCTTTCTTTTTT
1 TTCTTTCTTTTTT
77987 TTTTTTTACA
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
28 38 1.00
ACGTcount: A:0.12, C:0.16, G:0.00, T:0.72
Consensus pattern (28 bp):
TTCTTTCTTTTTTAATTCTTTCATCATT
Found at i:81584 original size:17 final size:17
Alignment explanation
Indices: 81558--81596 Score: 51
Period size: 17 Copynumber: 2.3 Consensus size: 17
81548 GATAATGTAG
*
81558 ATGCAGTGACAATAAAA
1 ATGCAATGACAATAAAA
* *
81575 ATGCAATGACATTAATA
1 ATGCAATGACAATAAAA
81592 ATGCA
1 ATGCA
81597 TGAATAATTA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.49, C:0.13, G:0.15, T:0.23
Consensus pattern (17 bp):
ATGCAATGACAATAAAA
Found at i:85309 original size:30 final size:29
Alignment explanation
Indices: 85273--85700 Score: 165
Period size: 29 Copynumber: 14.7 Consensus size: 29
85263 AAACTATCAA
*
85273 AAAAATTACATTTTGACCACTAAACTTTTT
1 AAAAATTACATTTTGACC-CTAAACTTTTC
* *
85303 AAAAATTATATTTTGA-CCTCAAACTTTCC
1 AAAAATTACATTTTGACCCT-AAACTTTTC
*
85332 AAAAATTACATTTTAACCCTAAACTTTTC
1 AAAAATTACATTTTGACCCTAAACTTTTC
* *
85361 AAAAATCACATTTTTG-CCCTTGAACTTTTC
1 AAAAATTACA-TTTTGACCC-TAAACTTTTC
* * ** *
85391 AAAAATCATATTTTTTCCCTCGAAC--TTC
1 AAAAATTACATTTTGACCCT-AAACTTTTC
* ** ** *
85419 AAAAAATTCCATTTTTCCCCCGAAC-TTCC
1 -AAAAATTACATTTTGACCCTAAACTTTTC
* * *
85448 AAAAATTATATTTT-ACCCCCAAAC-TTCC
1 AAAAATTACATTTTGA-CCCTAAACTTTTC
* *
85476 CAAAATTACATTTTTGACCTTAAAC-TTTC
1 AAAAATTACA-TTTTGACCCTAAACTTTTC
** * *
85505 TAAAAATTACCATTTT-ACCCCCGAAC-GTCC
1 -AAAAATTA-CATTTTGA-CCCTAAACTTTTC
* * *
85535 AAAAAATATCATTTT--CCCTCGAA-TGTTC
1 AAAAATTA-CATTTTGACCCT-AAACTTTTC
*
85563 AAAAATTACATTTTTGA-CCTCGAAC-TTTC
1 AAAAATTACA-TTTTGACCCT-AAACTTTTC
* * * * *
85592 TAAAAATTACCTTTTTACCCCCAAAC-ATCC
1 -AAAAATTACATTTTGA-CCCTAAACTTTTC
* * * *
85622 AAAAATTACCATTTT-ACCATCGAA-TGTCC
1 AAAAATTA-CATTTTGACCCT-AAACTTTTC
* *
85651 AAAAATTACAATTTTGACCCCAAACTTTCC
1 AAAAATTAC-ATTTTGACCCTAAACTTTTC
85681 AAAAATTATCATTTT-ACCCT
1 AAAAATTA-CATTTTGACCCT
85701 CGGGTGTCTA
Statistics
Matches: 314, Mismatches: 54, Indels: 61
0.73 0.13 0.14
Matches are distributed among these distances:
27 5 0.02
28 60 0.19
29 139 0.44
30 105 0.33
31 5 0.02
ACGTcount: A:0.36, C:0.25, G:0.04, T:0.35
Consensus pattern (29 bp):
AAAAATTACATTTTGACCCTAAACTTTTC
Found at i:85433 original size:28 final size:28
Alignment explanation
Indices: 85319--85761 Score: 152
Period size: 29 Copynumber: 15.2 Consensus size: 28
85309 TATATTTTGA
* * *
85319 CCTCAAACTTTCCAAAAATTACATTTTAAC
1 CCTCGAAC-TTCCAAAAATTCCATTTT-TC
* *
85349 CCT-AAACTTTTCAAAAA-TCACATTTTTGC
1 CCTCGAAC-TTCCAAAAATTC-CATTTTT-C
* * *
85378 CCTTGAACTTTTCAAAAA-TCATATTTTTTC
1 CCTCGAAC-TTCCAAAAATTC-CA-TTTTTC
*
85408 CCTCGAACTTCAAAAAATTCCATTTTTC
1 CCTCGAACTTCCAAAAATTCCATTTTTC
* ** *
85436 CCCCGAACTTCCAAAAATTATATTTTAC
1 CCTCGAACTTCCAAAAATTCCATTTTTC
* * * * *
85464 CCCCAAACTTCCCAAAATTACATTTTTGA
1 CCTCGAACTTCCAAAAATTCCATTTTT-C
** * *
85493 CCTTAAACTTTCTAAAAATTACCATTTTAC
1 CCTCGAAC-TTCCAAAAATT-CCATTTTTC
* *
85523 CCCCGAACGTCCAAAAAATAT-CA-TTTTC
1 CCTCGAACTTCC-AAAAAT-TCCATTTTTC
* * *
85551 CCTCGAA-TGTTCAAAAATTACATTTTTGA
1 CCTCGAACT-TCCAAAAATTCCATTTTT-C
*
85580 CCTCGAACTTTCTAAAAATTACC-TTTTTAC
1 CCTCGAAC-TTCCAAAAATT-CCATTTTT-C
* * * *
85610 CCCCAAACATCCAAAAATTACCATTTTAC
1 CCTCGAACTTCCAAAAATT-CCATTTTTC
* * *
85639 CATCGAA-TGTCCAAAAATTACAATTTTGAC
1 CCTCGAACT-TCCAAAAATT-CCATTTT-TC
* * *
85669 CC-CAAACTTTCCAAAAATTATCATTTTAC
1 CCTCGAAC-TTCCAAAAATT-CCATTTTTC
** * *
85698 CCTCG-GGTGTCTAAAAATTAC-TGTTTTAC
1 CCTCGAACT-TCCAAAAATTCCAT-TTTT-C
* * *
85727 CCTCGAGCATCCAAAAATTACCATTTTGC
1 CCTCGAACTTCCAAAAATT-CCATTTTTC
85756 CCTCGA
1 CCTCGA
85762 TATCTAAAAA
Statistics
Matches: 318, Mismatches: 66, Indels: 59
0.72 0.15 0.13
Matches are distributed among these distances:
26 1 0.00
27 9 0.03
28 74 0.23
29 120 0.38
30 98 0.31
31 16 0.05
ACGTcount: A:0.34, C:0.26, G:0.05, T:0.34
Consensus pattern (28 bp):
CCTCGAACTTCCAAAAATTCCATTTTTC
Found at i:85518 original size:87 final size:87
Alignment explanation
Indices: 85303--85695 Score: 341
Period size: 87 Copynumber: 4.5 Consensus size: 87
85293 TAAACTTTTT
* * ** ** * *
85303 AAAAATTATA-TTTTGACCTCAAACTTTCCAAAAATTA-CATTTTAACCCTAAACTTTTCAAAAA
1 AAAAATTACATTTTTGACCTCAAACTTTCTAAAAATTACCATTTTTCCCCCGAAC-ATCCAAAAA
* * * * * *
85366 TCACATTTTTGCCCTTGAACTTTTC
65 TTATA-TTTTACCCTCGAA-TGTCC
* * ** * * *
85391 AAAAATCATATTTTTTCCCTCGAAC-TTCAAAAAATT-CCATTTTTCCCCCGAACTTCCAAAAAT
1 AAAAATTACATTTTTGACCTCAAACTTTCTAAAAATTACCATTTTTCCCCCGAACATCCAAAAAT
* *
85454 TATATTTTACCCCCAAACT-TCC
66 TATATTTTACCCTCGAA-TGTCC
* * * * *
85476 CAAAATTACATTTTTGACCTTAAACTTTCTAAAAATTACCATTTTACCCCCGAACGTCCAAAAAA
1 AAAAATTACATTTTTGACCTCAAACTTTCTAAAAATTACCATTTTTCCCCCGAACATCCAAAAAT
*
85541 TATCATTTT-CCCTCGAATGTTC
66 TAT-ATTTTACCCTCGAATGTCC
* *
85563 AAAAATTACATTTTTGACCTCGAACTTTCTAAAAATTACC-TTTTTACCCCCAAACATCCAAAAA
1 AAAAATTACATTTTTGACCTCAAACTTTCTAAAAATTACCATTTTT-CCCCCGAACATCCAAAAA
* *
85627 TTACCATTTTACCATCGAATGTCC
65 TTA-TATTTTACCCTCGAATGTCC
* * * *
85651 AAAAATTACAATTTTGACCCCAAACTTTCCAAAAATTATCATTTT
1 AAAAATTACATTTTTGACCTCAAACTTTCTAAAAATTACCATTTT
85696 ACCCTCGGGT
Statistics
Matches: 249, Mismatches: 46, Indels: 19
0.79 0.15 0.06
Matches are distributed among these distances:
85 20 0.08
86 26 0.10
87 106 0.43
88 82 0.33
89 15 0.06
ACGTcount: A:0.36, C:0.25, G:0.04, T:0.35
Consensus pattern (87 bp):
AAAAATTACATTTTTGACCTCAAACTTTCTAAAAATTACCATTTTTCCCCCGAACATCCAAAAAT
TATATTTTACCCTCGAATGTCC
Found at i:85645 original size:59 final size:57
Alignment explanation
Indices: 85562--85772 Score: 196
Period size: 59 Copynumber: 3.6 Consensus size: 57
85552 CTCGAATGTT
*
85562 CAAAAATTA-CATTTTTGACCTCGAACTTTCTAAAAATTACCTTTTTACCCCCAAACATC
1 CAAAAATTACCA-TTTT-ACCTCGAA-TGTCTAAAAATTACCTTTTTACCCCCAAACATC
* * * *
85621 CAAAAATTACCATTTTACCATCGAATGTCCAAAAATTACAATTTTGA-CCCCAAACTTTC
1 CAAAAATTACCATTTTACC-TCGAATGTCTAAAAATTAC-CTTTTTACCCCCAAAC-ATC
* ** * * *
85680 CAAAAATTATCATTTTACCCTCGGGTGTCTAAAAATTA-CTGTTTTACCCTCGAGCATC
1 CAAAAATTACCATTTTA-CCTCGAATGTCTAAAAATTACCT-TTTTACCCCCAAACATC
* *
85738 CAAAAATTACCATTTTGCCCTCG-ATATCTAAAAAT
1 CAAAAATTACCATTTT-ACCTCGAATGTCTAAAAAT
85773 CGTATTTTTA
Statistics
Matches: 125, Mismatches: 19, Indels: 18
0.77 0.12 0.11
Matches are distributed among these distances:
57 11 0.09
58 49 0.39
59 61 0.49
60 4 0.03
ACGTcount: A:0.36, C:0.25, G:0.07, T:0.33
Consensus pattern (57 bp):
CAAAAATTACCATTTTACCTCGAATGTCTAAAAATTACCTTTTTACCCCCAAACATC
Found at i:85714 original size:88 final size:88
Alignment explanation
Indices: 85303--85759 Score: 363
Period size: 88 Copynumber: 5.2 Consensus size: 88
85293 TAAACTTTTT
* * * ** * *
85303 AAAAATTA-TATTTTGACCTCAAACTTTCCAAAAATTA-CATTTTAACCCTAAACTTTTCAAAAA
1 AAAAATTACAATTTTGACCTCAAACTTTCTAAAAATTACCATTTTACCCCCGAAC-GTCCAAAAA
* * * * *
85366 TCA-CATTTTTGCCCTTGAACTTTTC
65 TTACCA-TTTTACCCTCGAA-TGTCC
* * * ** * * * *
85391 AAAAATCATATTTTTTCCCTCGAAC-TTCAAAAAATT-CCATTTTTCCCCCGAACTTCCAAAAAT
1 AAAAATTACAATTTTGACCTCAAACTTTCTAAAAATTACCATTTTACCCCCGAACGTCCAAAAAT
* * *
85454 TA-TATTTTACCCCCAAACT-TCC
66 TACCATTTTACCCTCGAA-TGTCC
* * * *
85476 CAAAATTACATTTTTGACCTTAAACTTTCTAAAAATTACCATTTTACCCCCGAACGTCCAAAAAA
1 AAAAATTACAATTTTGACCTCAAACTTTCTAAAAATTACCATTTTACCCCCGAACGTCCAAAAAT
* *
85541 TATCATTTT-CCCTCGAATGTTC
66 TACCATTTTACCCTCGAATGTCC
* * * * *
85563 AAAAATTACATTTTTGACCTCGAACTTTCTAAAAATTACCTTTTTACCCCCAAACATCCAAAAAT
1 AAAAATTACAATTTTGACCTCAAACTTTCTAAAAATTACCATTTTACCCCCGAACGTCCAAAAAT
*
85628 TACCATTTTACCATCGAATGTCC
66 TACCATTTTACCCTCGAATGTCC
* * * * *** *
85651 AAAAATTACAATTTTGACCCCAAACTTTCCAAAAATTATCATTTTACCCTCGGGTGTCTAAAAAT
1 AAAAATTACAATTTTGACCTCAAACTTTCTAAAAATTACCATTTTACCCCCGAACGTCCAAAAAT
** ***
85716 TACTGTTTTACCCTCGAGCATCC
66 TACCATTTTACCCTCGAATGTCC
* *
85739 AAAAATTACCATTTTGCCCTC
1 AAAAATTACAATTTTGACCTC
85760 GATATCTAAA
Statistics
Matches: 296, Mismatches: 66, Indels: 14
0.79 0.18 0.04
Matches are distributed among these distances:
85 20 0.07
86 22 0.07
87 111 0.38
88 132 0.45
89 11 0.04
ACGTcount: A:0.35, C:0.26, G:0.05, T:0.35
Consensus pattern (88 bp):
AAAAATTACAATTTTGACCTCAAACTTTCTAAAAATTACCATTTTACCCCCGAACGTCCAAAAAT
TACCATTTTACCCTCGAATGTCC
Found at i:86134 original size:24 final size:24
Alignment explanation
Indices: 86102--86150 Score: 98
Period size: 24 Copynumber: 2.0 Consensus size: 24
86092 TTTAACTTCG
86102 AGATTCCGAGAATATCGTGTCCTA
1 AGATTCCGAGAATATCGTGTCCTA
86126 AGATTCCGAGAATATCGTGTCCTA
1 AGATTCCGAGAATATCGTGTCCTA
86150 A
1 A
86151 CGTGTTGGTA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.31, C:0.20, G:0.20, T:0.29
Consensus pattern (24 bp):
AGATTCCGAGAATATCGTGTCCTA
Found at i:92775 original size:391 final size:389
Alignment explanation
Indices: 92050--93050 Score: 1317
Period size: 391 Copynumber: 2.6 Consensus size: 389
92040 CAGGTCTCAA
* *
92050 TACCACGAAGATATGGAGGGAAAGATTTAAGTCGCAACGGCGAACCTTGTACCTTAGAAAAATGA
1 TACCACGAAGATATGGAGGGAAAGGTTTAAGTCGCAACGGCGAACCTTGTACCTTAGAAACATGA
* * *
92115 AGGGAAAGATTTAAGCTGCAACGGCGAATCCAGTACCACAAGGACATGGAGGGAATGGTTTAA-T
66 AGGGAAAGATTTAAGCCGCAACGGAGAATCCAGTACCACAAGGACATAGAGGGAATGGTTTAAGT
* * * * * *
92179 CGTAATGGTGAACCTTGTACCTCAGAAAAATGAAGGGAAAGATTTAAGCCGCAACGACAAATCTA
131 CGCAA-CGTGAACCTTGTACCTTAGAAGAATGAAGGGAAAGATTTAAGCCGCAACGGCAAATCCA
* * * * * ** *
92244 ATATCATGAGGACATGGAGGGAATGGTTTAAGTCACAACGGCGAACCTTGTACCTCAGAAAAATG
195 ATACCACGAAGA-TTTGAGGGAA-AATTTAAGTCACAACGACGAACCTTGTACCTCAGAAAAATG
* * *
92309 AAGGGAAAGGTTTAAGCCACAACGGCGAATCCAGTACCACGAAGATATAGAGGGAATGGTTTAAG
258 AAGGGAAAGATTTAAGCCACAACGGCGAATCCAGTACCACGAAGATATAAAGGGAAAGGTTTAAG
*
92374 TCGCAACGGTGAACATTGTACCTCAGAAAAATGAAGGGAAAGATTTAAACCGCAACGGCAAATCC
323 TCGCAACGGTGAACATTGTACCTCAGAAAAATGAAGGGAAAGATTTAAACCACAACGGCAAATCC
92439 AG
388 AG
* * *
92441 TACCACGAAGACATGGAGGGAATGGTTTAAGTCGCAACGGCGAACCTTGTACCTCAGAAACATGA
1 TACCACGAAGATATGGAGGGAAAGGTTTAAGTCGCAACGGCGAACCTTGTACCTTAGAAACATGA
*
92506 AGGGAAAGATTTAAGCCGCAACGGTGAATCCAGTACCACGAA-GACATAGAGGGAATGGTTTAAG
66 AGGGAAAGATTTAAGCCGCAACGGAGAATCCAGTACCAC-AAGGACATAGAGGGAATGGTTTAAG
* * *
92570 TCGCAACAGTGAACATTGTACCTTAGAAGCATGAAGGGAAAGATTTAAGCCGCAACGGCGAATCC
130 TCGCAAC-GTGAACCTTGTACCTTAGAAGAATGAAGGGAAAGATTTAAGCCGCAACGGCAAATCC
* ** * *
92635 AGTACCACGAAGATTTGACGGGAAAATTTAAGTTGCAATGACGAACCTTGTACCTCAGAAATATG
194 AATACCACGAAGATTTGA-GGGAAAATTTAAGTCACAACGACGAACCTTGTACCTCAGAAAAATG
* *
92700 AAGGGAAAGATTTAAGCCGCAACGGCGAATCTAGTACCAC-AAGGATATAAAGGGAAAGGTTTAA
258 AAGGGAAAGATTTAAGCCACAACGGCGAATCCAGTACCACGAA-GATATAAAGGGAAAGGTTTAA
* * * ** ** *
92764 GTCGTAACGGTGAACCTTGTACCTTAGAAGCATGAAGGGAAAGATTTAAGTCACAACGGCGAATC
322 GTCGCAACGGTGAACATTGTACCTCAGAAAAATGAAGGGAAAGATTTAAACCACAACGGCAAATC
92829 CAG
387 CAG
** * * *
92832 TACCAC-AAGGATATAAAGGGAAAGGTTTAAGTCGTAACGACGAACCTTGTACCTTAGAAGCATG
1 TACCACGAA-GATATGGAGGGAAAGGTTTAAGTCGCAACGGCGAACCTTGTACCTTAGAAACATG
* * * * * *
92896 AAGGGAAAGATTTAAGCCGCAACGAAAAATCCAATACCACAAGGATATAAAGGGAAAGGTTTAAG
65 AAGGGAAAGATTTAAGCCGCAACGGAGAATCCAGTACCACAAGGACATAGAGGGAATGGTTTAAG
* * * * *
92961 TCGCAACGCCGAACCTTGTACCTTGGAAGTATGAAGGGAAAGATTTAAACCGTAACGGCAAATCC
130 TCGCAACG-TGAACCTTGTACCTTAGAAGAATGAAGGGAAAGATTTAAGCCGCAACGGCAAATCC
* *
93026 AATACCACAAAGATATGAAGGGAAA
194 AATACCACGAAGATTTG-AGGGAAA
93051 TGTTACAACT
Statistics
Matches: 532, Mismatches: 69, Indels: 18
0.86 0.11 0.03
Matches are distributed among these distances:
390 7 0.01
391 453 0.85
392 72 0.14
ACGTcount: A:0.38, C:0.18, G:0.25, T:0.19
Consensus pattern (389 bp):
TACCACGAAGATATGGAGGGAAAGGTTTAAGTCGCAACGGCGAACCTTGTACCTTAGAAACATGA
AGGGAAAGATTTAAGCCGCAACGGAGAATCCAGTACCACAAGGACATAGAGGGAATGGTTTAAGT
CGCAACGTGAACCTTGTACCTTAGAAGAATGAAGGGAAAGATTTAAGCCGCAACGGCAAATCCAA
TACCACGAAGATTTGAGGGAAAATTTAAGTCACAACGACGAACCTTGTACCTCAGAAAAATGAAG
GGAAAGATTTAAGCCACAACGGCGAATCCAGTACCACGAAGATATAAAGGGAAAGGTTTAAGTCG
CAACGGTGAACATTGTACCTCAGAAAAATGAAGGGAAAGATTTAAACCACAACGGCAAATCCAG
Found at i:93034 original size:98 final size:97
Alignment explanation
Indices: 92050--93079 Score: 1186
Period size: 98 Copynumber: 10.5 Consensus size: 97
92040 CAGGTCTCAA
* *
92050 TACCACGAAGATATGGAGGGAAAGATTTAAGTCGCAACGGCGAACCTTGTACCTTAGAAAAATGA
1 TACCAC-AAGATATGGAGGGAAAGGTTTAAGTCGCAACGGCGAACCTTGTACCTCAGAAAAATGA
*
92115 AGGGAAAGATTTAAGCTGCAACGGCGAATCCAG
65 AGGGAAAGATTTAAGCCGCAACGGCGAATCCAG
* * * * *
92148 TACCACAAGGACATGGAGGGAATGGTTTAA-TCGTAATGGTGAACCTTGTACCTCAGAAAAATGA
1 TACCACAA-GATATGGAGGGAAAGGTTTAAGTCGCAACGGCGAACCTTGTACCTCAGAAAAATGA
* * * *
92212 AGGGAAAGATTTAAGCCGCAACGACAAATCTAA
65 AGGGAAAGATTTAAGCCGCAACGGCGAATCCAG
* * * * * *
92245 TATCATGAGGACATGGAGGGAATGGTTTAAGTCACAACGGCGAACCTTGTACCTCAGAAAAATGA
1 TACCA-CAAGATATGGAGGGAAAGGTTTAAGTCGCAACGGCGAACCTTGTACCTCAGAAAAATGA
* *
92310 AGGGAAAGGTTTAAGCCACAACGGCGAATCCAG
65 AGGGAAAGATTTAAGCCGCAACGGCGAATCCAG
* * * *
92343 TACCACGAAGATATAGAGGGAATGGTTTAAGTCGCAACGGTGAACATTGTACCTCAGAAAAATGA
1 TACCAC-AAGATATGGAGGGAAAGGTTTAAGTCGCAACGGCGAACCTTGTACCTCAGAAAAATGA
* *
92408 AGGGAAAGATTTAAACCGCAACGGCAAATCCAG
65 AGGGAAAGATTTAAGCCGCAACGGCGAATCCAG
* * *
92441 TACCACGAAGACATGGAGGGAATGGTTTAAGTCGCAACGGCGAACCTTGTACCTCAGAAACATGA
1 TACCAC-AAGATATGGAGGGAAAGGTTTAAGTCGCAACGGCGAACCTTGTACCTCAGAAAAATGA
*
92506 AGGGAAAGATTTAAGCCGCAACGGTGAATCCAG
65 AGGGAAAGATTTAAGCCGCAACGGCGAATCCAG
* * * * * * * **
92539 TACCACGAAGACATAGAGGGAATGGTTTAAGTCGCAACAGTGAACATTGTACCTTAGAAGCATGA
1 TACCAC-AAGATATGGAGGGAAAGGTTTAAGTCGCAACGGCGAACCTTGTACCTCAGAAAAATGA
92604 AGGGAAAGATTTAAGCCGCAACGGCGAATCCAG
65 AGGGAAAGATTTAAGCCGCAACGGCGAATCCAG
* * * * * *
92637 TACCACGAAGAT-TTGACGGGAAA-ATTTAAGTTGCAATGACGAACCTTGTACCTCAGAAATATG
1 TACCAC-AAGATATGGA-GGGAAAGGTTTAAGTCGCAACGGCGAACCTTGTACCTCAGAAAAATG
*
92700 AAGGGAAAGATTTAAGCCGCAACGGCGAATCTAG
64 AAGGGAAAGATTTAAGCCGCAACGGCGAATCCAG
** * * * **
92734 TACCACAAGGATATAAAGGGAAAGGTTTAAGTCGTAACGGTGAACCTTGTACCTTAGAAGCATGA
1 TACCACAA-GATATGGAGGGAAAGGTTTAAGTCGCAACGGCGAACCTTGTACCTCAGAAAAATGA
* *
92799 AGGGAAAGATTTAAGTCACAACGGCGAATCCAG
65 AGGGAAAGATTTAAGCCGCAACGGCGAATCCAG
** * * * **
92832 TACCACAAGGATATAAAGGGAAAGGTTTAAGTCGTAACGACGAACCTTGTACCTTAGAAGCATGA
1 TACCACAA-GATATGGAGGGAAAGGTTTAAGTCGCAACGGCGAACCTTGTACCTCAGAAAAATGA
*** *
92897 AGGGAAAGATTTAAGCCGCAACGAAAAATCCAA
65 AGGGAAAGATTTAAGCCGCAACGGCGAATCCAG
** * ** **
92930 TACCACAAGGATATAAAGGGAAAGGTTTAAGTCGCAACGCCGAACCTTGTACCTTGGAAGTATGA
1 TACCACAA-GATATGGAGGGAAAGGTTTAAGTCGCAACGGCGAACCTTGTACCTCAGAAAAATGA
* * * *
92995 AGGGAAAGATTTAAACCGTAACGGCAAATCCAA
65 AGGGAAAGATTTAAGCCGCAACGGCGAATCCAG
* * * *
93028 TACCACAAAGATATGAAGGGAAATGTTACAACT-GCAACGGCGAACCTTGTAC
1 TACCAC-AAGATATGGAGGGAAAGGTT-TAAGTCGCAACGGCGAACCTTGTAC
93080 TTAGAAACAT
Statistics
Matches: 821, Mismatches: 101, Indels: 20
0.87 0.11 0.02
Matches are distributed among these distances:
96 2 0.00
97 166 0.20
98 648 0.79
99 5 0.01
ACGTcount: A:0.38, C:0.18, G:0.25, T:0.19
Consensus pattern (97 bp):
TACCACAAGATATGGAGGGAAAGGTTTAAGTCGCAACGGCGAACCTTGTACCTCAGAAAAATGAA
GGGAAAGATTTAAGCCGCAACGGCGAATCCAG
Found at i:93043 original size:49 final size:49
Alignment explanation
Indices: 92050--93050 Score: 573
Period size: 49 Copynumber: 20.5 Consensus size: 49
92040 CAGGTCTCAA
* * *
92050 TACCACGAAGATATGGAGGGAAAGATTTAAGTCGCAACGGCGAA-CCTTG
1 TACCACAAAGATATGAAGGGAAAGATTTAAGTCGCAACGGCGAATCC-AG
*
92099 TACCTTAGAAA-A-ATGAAGGGAAAGATTTAAG-CTGCAACGGCGAATCCAG
1 TACC--ACAAAGATATGAAGGGAAAGATTTAAGTC-GCAACGGCGAATCCAG
* * * * * * * * *
92148 TACCACAAGGACATGGAGGGAATGGTTTAA-TCGTAATGGTGAA-CCTTG
1 TACCACAAAGATATGAAGGGAAAGATTTAAGTCGCAACGGCGAATCC-AG
* * * * * * *
92196 TACCTCAGAA-AAATGAAGGGAAAGATTTAAGCCGCAACGACAAATCTAA
1 TACCACA-AAGATATGAAGGGAAAGATTTAAGTCGCAACGGCGAATCCAG
* ** * * * * * * *
92245 TATCATGAGGACATGGAGGGAATGGTTTAAGTCACAACGGCGAA-CCTTG
1 TACCACAAAGATATGAAGGGAAAGATTTAAGTCGCAACGGCGAATCC-AG
* * * * *
92294 TACCTCAGAA-AAATGAAGGGAAAGGTTTAAGCCACAACGGCGAATCCAG
1 TACCACA-AAGATATGAAGGGAAAGATTTAAGTCGCAACGGCGAATCCAG
* * * *
92343 TACCACGAAGATAT-AGAGGGAATGGTTTAAGTCGCAACGGTGAA--CATTG
1 TACCACAAAGATATGA-AGGGAAAGATTTAAGTCGCAACGGCGAATCCA--G
* * ** *
92392 TACCTCAGAA-AAATGAAGGGAAAGATTTAAACCGCAACGGCAAATCCAG
1 TACCACA-AAGATATGAAGGGAAAGATTTAAGTCGCAACGGCGAATCCAG
* * * * * *
92441 TACCACGAAGACATGGAGGGAATGGTTTAAGTCGCAACGGCGAA-CCTTG
1 TACCACAAAGATATGAAGGGAAAGATTTAAGTCGCAACGGCGAATCC-AG
* * * *
92490 TACCTCAGAA-ACATGAAGGGAAAGATTTAAGCCGCAACGGTGAATCCAG
1 TACCACA-AAGATATGAAGGGAAAGATTTAAGTCGCAACGGCGAATCCAG
* * * * * *
92539 TACCACGAAGACAT-AGAGGGAATGGTTTAAGTCGCAACAGTGAA--CATTG
1 TACCACAAAGATATGA-AGGGAAAGATTTAAGTCGCAACGGCGAATCCA--G
** * *
92588 TACCTTAGAAG-CATGAAGGGAAAGATTTAAGCCGCAACGGCGAATCCAG
1 TACCACA-AAGATATGAAGGGAAAGATTTAAGTCGCAACGGCGAATCCAG
* * * * * * *
92637 TACCACGAAGATTTGACGGGAAA-ATTTAAGTTGCAATGACGAA-CCTTG
1 TACCACAAAGATATGAAGGGAAAGATTTAAGTCGCAACGGCGAATCC-AG
* * *
92685 TACCTCAGAA-ATATGAAGGGAAAGATTTAAGCCGCAACGGCGAATCTAG
1 TACCACA-AAGATATGAAGGGAAAGATTTAAGTCGCAACGGCGAATCCAG
* * * * * *
92734 TACCACAAGGATATAAAGGGAAAGGTTTAAGTCGTAACGGTGAA-CCTTG
1 TACCACAAAGATATGAAGGGAAAGATTTAAGTCGCAACGGCGAATCC-AG
** * *
92783 TACCTTAGAAG-CATGAAGGGAAAGATTTAAGTCACAACGGCGAATCCAG
1 TACCACA-AAGATATGAAGGGAAAGATTTAAGTCGCAACGGCGAATCCAG
* * * * * *
92832 TACCACAAGGATATAAAGGGAAAGGTTTAAGTCGTAACGACGAA-CCTTG
1 TACCACAAAGATATGAAGGGAAAGATTTAAGTCGCAACGGCGAATCC-AG
** * * *** *
92881 TACCTTAGAAG-CATGAAGGGAAAGATTTAAGCCGCAACGAAAAATCCAA
1 TACCACA-AAGATATGAAGGGAAAGATTTAAGTCGCAACGGCGAATCCAG
* * * * *
92930 TACCACAAGGATATAAAGGGAAAGGTTTAAGTCGCAACGCCGAA-CCTTG
1 TACCACAAAGATATGAAGGGAAAGATTTAAGTCGCAACGGCGAATCC-AG
*** ** * * *
92979 TACCTTGGAAG-TATGAAGGGAAAGATTTAAACCGTAACGGCAAATCCAA
1 TACC-ACAAAGATATGAAGGGAAAGATTTAAGTCGCAACGGCGAATCCAG
93028 TACCACAAAGATATGAAGGGAAA
1 TACCACAAAGATATGAAGGGAAA
93051 TGTTACAACT
Statistics
Matches: 707, Mismatches: 192, Indels: 106
0.70 0.19 0.11
Matches are distributed among these distances:
47 11 0.02
48 94 0.13
49 564 0.80
50 31 0.04
51 7 0.01
ACGTcount: A:0.38, C:0.18, G:0.25, T:0.19
Consensus pattern (49 bp):
TACCACAAAGATATGAAGGGAAAGATTTAAGTCGCAACGGCGAATCCAG
Found at i:93373 original size:39 final size:39
Alignment explanation
Indices: 93327--93775 Score: 156
Period size: 39 Copynumber: 11.5 Consensus size: 39
93317 CACCATCAAC
* * *
93327 CAATCTCTTGCCCCGAGCTTGGGGTAGGTTACAACCATT
1 CAATCTCTTACCCCGAGCCTGGGGTAGATTACAACCATT
* * * * * **
93366 CAATCTCTTACCCCAAGCCTAGGGTAGATCACCATCAGC
1 CAATCTCTTACCCCGAGCCTGGGGTAGATTACAACCATT
* *
93405 CAATCTTTTACCCCGAGCCTGGGGCAGATTACAACCATT
1 CAATCTCTTACCCCGAGCCTGGGGTAGATTACAACCATT
** * * * * * ** ** **
93444 TGATCTTTTACCTCGAGCTTGGGGCAGATCATTATTAAC
1 CAATCTCTTACCCCGAGCCTGGGGTAGATTACAACCATT
* * * * *
93483 CAATCTCTTAACCCGAGCCTAGGGCAGATTGCAGCCATT
1 CAATCTCTTACCCCGAGCCTGGGGTAGATTACAACCATT
* * * * * ** * **
93522 CGATCTTTTATCCCC-AGCTTTGGGCAGAGCATC-ATCAAC
1 CAATCTCTTA-CCCCGAGCCTGGGGTAGATTA-CAACCATT
* * * * *
93561 CAATCTCTTA-CCCAAGCCTAGGGTAGATTGCAGCCGTT
1 CAATCTCTTACCCCGAGCCTGGGGTAGATTACAACCATT
* * * *
93599 CAATCTCTTACCCTGAGCCTGGGGCAGA-T-C-ATCATCGG
1 CAATCTCTTACCCCGAGCCTGGGGTAGATTACAACCAT--T
* *
93637 CAAATCTCTTACCCCGAGCCTGAGGCAGATTGA-AACCATT
1 C-AATCTCTTACCCCGAGCCTGGGGTAGATT-ACAACCATT
* *** ** * * * * **
93677 TAATCTCTTACCTTAAGCCTGAAGAAGATCACTATCAGC
1 CAATCTCTTACCCCGAGCCTGGGGTAGATTACAACCATT
* * * **
93716 CAATCTCTTACCCCAAGCCTGGGGCAGATTGCAGTCATT
1 CAATCTCTTACCCCGAGCCTGGGGTAGATTACAACCATT
* * *
93755 CGATCTCTTACCTCAAGCCTG
1 CAATCTCTTACCCCGAGCCTG
93776 AGGCAGATCA
Statistics
Matches: 289, Mismatches: 108, Indels: 26
0.68 0.26 0.06
Matches are distributed among these distances:
36 2 0.01
37 5 0.02
38 24 0.08
39 249 0.86
40 5 0.02
42 4 0.01
ACGTcount: A:0.25, C:0.30, G:0.19, T:0.26
Consensus pattern (39 bp):
CAATCTCTTACCCCGAGCCTGGGGTAGATTACAACCATT
Found at i:93455 original size:78 final size:77
Alignment explanation
Indices: 93315--93805 Score: 423
Period size: 78 Copynumber: 6.3 Consensus size: 77
93305 GTGAAGTTAC
* * * * * *
93315 ATCACCATCAACCAATCTCTTGCCCCGAGCTTGGGGTAGGTTACAACCATTCAATCTCTTACCCC
1 ATCATCATCAGCCAATCTCTTACCCCGAGCCTGGGGCAGATTACAACCATTCAATCTCTTACCCC
*
93380 AAGCCTAGGGTAG
66 AAGCCT-GGGCAG
* * ** * *
93393 ATCACCATCAGCCAATCTTTTACCCCGAGCCTGGGGCAGATTACAACCATTTGATCTTTTACCTC
1 ATCATCATCAGCCAATCTCTTACCCCGAGCCTGGGGCAGATTACAACCATTCAATCTCTTACCCC
* *
93458 GAGCTTGGGGCAG
66 AAGCCT-GGGCAG
* * * * * * * * *
93471 ATCATTATTAACCAATCTCTTAACCCGAGCCTAGGGCAGATTGCAGCCATTCGATCTTTTATCCC
1 ATCATCATCAGCCAATCTCTTACCCCGAGCCTGGGGCAGATTACAACCATTCAATCTCTTA-CCC
*
93536 C-AGCTTTGGGCAG
65 CAAGC-CTGGGCAG
* * * * * * * * *
93549 AGCATCATCAACCAATCTCTTA-CCCAAGCCTAGGGTAGATTGCAGCCGTTCAATCTCTTACCCT
1 ATCATCATCAGCCAATCTCTTACCCCGAGCCTGGGGCAGATTACAACCATTCAATCTCTTACCCC
*
93613 GAGCCTGGGGCAG
66 AAGCCT-GGGCAG
* * * * *
93626 ATCATCATCGGCAAATCTCTTACCCCGAGCCTGAGGCAGATTGA-AACCATTTAATCTCTTACCT
1 ATCATCATCAGCCAATCTCTTACCCCGAGCCTGGGGCAGATT-ACAACCATTCAATCTCTTACCC
* * *
93690 TAAGCCTGAAGAAG
65 CAAGCCTG-GGCAG
* * ** * *
93704 ATCA-CTATCAGCCAATCTCTTACCCCAAGCCTGGGGCAGATTGCAGTCATTCGATCTCTTACCT
1 ATCATC-ATCAGCCAATCTCTTACCCCGAGCCTGGGGCAGATTACAACCATTCAATCTCTTACCC
93768 CAAGCCTGAGGCAG
65 CAAGCCTG-GGCAG
*
93782 ATCATCATCAGCTAATCTCTTACC
1 ATCATCATCAGCCAATCTCTTACC
93806 TGATCATGGG
Statistics
Matches: 339, Mismatches: 64, Indels: 20
0.80 0.15 0.05
Matches are distributed among these distances:
76 4 0.01
77 62 0.18
78 267 0.79
79 6 0.02
ACGTcount: A:0.26, C:0.30, G:0.18, T:0.26
Consensus pattern (77 bp):
ATCATCATCAGCCAATCTCTTACCCCGAGCCTGGGGCAGATTACAACCATTCAATCTCTTACCCC
AAGCCTGGGCAG
Found at i:93790 original size:233 final size:233
Alignment explanation
Indices: 93315--93805 Score: 574
Period size: 233 Copynumber: 2.1 Consensus size: 233
93305 GTGAAGTTAC
* * * * * *
93315 ATCACCATCAACCAATCTCTTGCCCCGAGCTTGGGGTAGGTTACAACCATTCAATCTCTTACCCC
1 ATCATCATCAACCAATCTCTT-ACCCAAGCCTAGGGTAGATTACAACCATTCAATCTCTTACCCC
* * * *
93380 AAGCCTAGGGTAGATCACCATCAGCCAATCTTTTACCCCGAGCCTGGGGCAGATTACAACCATTT
65 AAGCCTAGGGCAGATCACCATCAGCAAATCTCTTACCCCGAGCCTGAGGCAGATTACAACCATTT
* * * * ** * * * *
93445 GATCTTTTACCTCGAGCTTGGGGCAGATCATTATTAACCAATCTCTTAACCCGAGCCTAGGGCAG
130 AATCTCTTACCTCAAGCCTGAAGAAGATCACTATCAACCAATCTCTTAACCCAAGCCTAGGGCAG
* * *
93510 ATTGCAGCCATTCGATCTTTTATCCCCAGCTTTGGGCAG
195 ATTGCAGCCATTCGATCTCTTATCCCAAGCTCTGGGCAG
* * * * **
93549 AGCATCATCAACCAATCTCTTACCCAAGCCTAGGGTAGATTGCAGCCGTTCAATCTCTTACCCTG
1 ATCATCATCAACCAATCTCTTACCCAAGCCTAGGGTAGATTACAACCATTCAATCTCTTACCCCA
* * *
93614 AGCCTGGGGCAGATCATCATCGGCAAATCTCTTACCCCGAGCCTGAGGCAGATTGA-AACCATTT
66 AGCCTAGGGCAGATCACCATCAGCAAATCTCTTACCCCGAGCCTGAGGCAGATT-ACAACCATTT
* * * *
93678 AATCTCTTACCTTAAGCCTGAAGAAGATCACTATCAGCCAATCTCTTACCCCAAGCCTGGGGCAG
130 AATCTCTTACCTCAAGCCTGAAGAAGATCACTATCAACCAATCTCTTAACCCAAGCCTAGGGCAG
*
93743 ATTGCAGTCATTCGATCTCTTA-CCTCAAGC-CTGAGGCAG
195 ATTGCAGCCATTCGATCTCTTATCC-CAAGCTCTG-GGCAG
* *
93782 ATCATCATCAGCTAATCTCTTACC
1 ATCATCATCAACCAATCTCTTACC
93806 TGATCATGGG
Statistics
Matches: 214, Mismatches: 40, Indels: 7
0.82 0.15 0.03
Matches are distributed among these distances:
232 4 0.02
233 190 0.89
234 20 0.09
ACGTcount: A:0.26, C:0.30, G:0.18, T:0.26
Consensus pattern (233 bp):
ATCATCATCAACCAATCTCTTACCCAAGCCTAGGGTAGATTACAACCATTCAATCTCTTACCCCA
AGCCTAGGGCAGATCACCATCAGCAAATCTCTTACCCCGAGCCTGAGGCAGATTACAACCATTTA
ATCTCTTACCTCAAGCCTGAAGAAGATCACTATCAACCAATCTCTTAACCCAAGCCTAGGGCAGA
TTGCAGCCATTCGATCTCTTATCCCAAGCTCTGGGCAG
Found at i:93800 original size:39 final size:39
Alignment explanation
Indices: 93600--93806 Score: 149
Period size: 39 Copynumber: 5.3 Consensus size: 39
93590 GCAGCCGTTC
* * * *
93600 AATCTCTTACC-CTGAGCCTGGGGCAGATCATCATCGGCA
1 AATCTCTTACCTC-AAGCCTGAGGCAGATCATCATCAGCT
* * * * * **
93639 AATCTCTTACCCCGAGCCTGAGGCAGATTGA-AACCATTT
1 AATCTCTTACCTCAAGCCTGAGGCAGA-TCATCATCAGCT
* * * *
93678 AATCTCTTACCTTAAGCCTGAAGAAGATCA-CTATCAGCC
1 AATCTCTTACCTCAAGCCTGAGGCAGATCATC-ATCAGCT
* *
93717 AATCTCTTACCCCAAGCCTGGGGCAGATTGCAGTCATTC-G--
1 AATCTCTTACCTCAAGCCTGAGGCAGA-T-CA-TCA-TCAGCT
93757 -ATCTCTTACCTCAAGCCTGAGGCAGATCATCATCAGCT
1 AATCTCTTACCTCAAGCCTGAGGCAGATCATCATCAGCT
93795 AATCTCTTACCT
1 AATCTCTTACCT
93807 GATCATGGGG
Statistics
Matches: 130, Mismatches: 26, Indels: 24
0.72 0.14 0.13
Matches are distributed among these distances:
35 2 0.02
36 4 0.03
37 2 0.02
38 3 0.02
39 108 0.83
40 4 0.03
41 2 0.02
42 2 0.02
43 3 0.02
ACGTcount: A:0.27, C:0.30, G:0.17, T:0.26
Consensus pattern (39 bp):
AATCTCTTACCTCAAGCCTGAGGCAGATCATCATCAGCT
Found at i:95853 original size:29 final size:29
Alignment explanation
Indices: 95811--96154 Score: 155
Period size: 29 Copynumber: 12.0 Consensus size: 29
95801 AGAAGGTCCC
95811 TAAACTATT-CAAAAATTACATTTTGACCT
1 TAAACT-TTCCAAAAATTACATTTTGACCT
* *
95840 TAAACTTTCCAAAAATTATATTTTGACCC
1 TAAACTTTCCAAAAATTACATTTTGACCT
* * *
95869 TAAACTTTTCAAAAATTACATTTTAACCCC
1 TAAACTTTCCAAAAATTACATTTTGA-CCT
* * **
95899 TAAACTTTTCAAAAATCACATTTTTTCCCT
1 TAAACTTTCCAAAAATTACA-TTTTGACCT
* * * * *
95929 CAAACTTTTCAAAAATCATATTTTTGCCCT
1 TAAACTTTCCAAAAATTACA-TTTTGACCT
** * ** *
95959 CGAAC-TTCCAAAAATTCCATTTTTCCCC
1 TAAACTTTCCAAAAATTACATTTTGACCT
* * * *
95987 TAAAC-TTCTAAAAATCACATTTTTGCCCC
1 TAAACTTTCCAAAAATTACA-TTTTGACCT
* *
96016 CAAAC-TTCTAAAAATTACA--TT---C-
1 TAAACTTTCCAAAAATTACATTTTGACCT
96038 -AAACTTTCCAAAAATTACCATTTT-ACCCT
1 TAAACTTTCCAAAAATTA-CATTTTGA-CCT
** * * *
96067 CGAAC-ATCTAAAAATAACCATTTT-ACCCT
1 TAAACTTTCCAAAAATTA-CATTTTGA-CCT
***
96096 CCGA-TGTT-CAAAAATTACATTTTTGACCT
1 TAAACT-TTCCAAAAATTACA-TTTTGACCT
96125 TAAACTTTCCAAAAATTACCATTTT-ACCT
1 TAAACTTTCCAAAAATTA-CATTTTGACCT
96154 T
1 T
96155 CAGGTGTATG
Statistics
Matches: 255, Mismatches: 40, Indels: 40
0.76 0.12 0.12
Matches are distributed among these distances:
21 4 0.02
22 11 0.04
23 3 0.01
25 2 0.01
26 2 0.01
28 26 0.10
29 127 0.50
30 74 0.29
31 6 0.02
ACGTcount: A:0.37, C:0.24, G:0.03, T:0.36
Consensus pattern (29 bp):
TAAACTTTCCAAAAATTACATTTTGACCT
Found at i:95902 original size:30 final size:29
Alignment explanation
Indices: 95808--96036 Score: 189
Period size: 29 Copynumber: 7.9 Consensus size: 29
95798 CCCAGAAGGT
*
95808 CCCTAAACTATTCAAAAATTACATTTTGA-
1 CCCTAAACTTTTCAAAAATTACATTTT-AC
* * *
95837 CCTTAAACTTTCCAAAAATTATATTTTGA-
1 CCCTAAACTTTTCAAAAATTACATTTT-AC
95866 CCCTAAACTTTTCAAAAATTACATTTTAAC
1 CCCTAAACTTTTCAAAAATTACATTTT-AC
* **
95896 CCCTAAACTTTTCAAAAATCACATTTTTT
1 CCCTAAACTTTTCAAAAATTACATTTTAC
* * **
95925 CCCTCAAACTTTTCAAAAATCATATTTTTG
1 CCCT-AAACTTTTCAAAAATTACATTTTAC
* * * *
95955 CCCTCGAAC-TTCCAAAAATTCCATTTTTC
1 CCCT-AAACTTTTCAAAAATTACATTTTAC
* * *
95984 CCCTAAACTTCT-AAAAATCACATTTTTGC
1 CCCTAAACTTTTCAAAAATTACA-TTTTAC
* *
96013 CCCCAAACTTCT-AAAAATTACATT
1 CCCTAAACTTTTCAAAAATTACATT
96037 CAAACTTTCC
Statistics
Matches: 169, Mismatches: 27, Indels: 9
0.82 0.13 0.04
Matches are distributed among these distances:
28 13 0.08
29 99 0.59
30 57 0.34
ACGTcount: A:0.36, C:0.25, G:0.02, T:0.37
Consensus pattern (29 bp):
CCCTAAACTTTTCAAAAATTACATTTTAC
Found at i:118755 original size:17 final size:16
Alignment explanation
Indices: 118729--118791 Score: 69
Period size: 17 Copynumber: 3.9 Consensus size: 16
118719 AACTAAAAAA
118729 CAAGACAAAAAATGAAT
1 CAAGA-AAAAAATGAAT
118746 CAAGGAAAAAAA--AA-
1 CAA-GAAAAAAATGAAT
118760 CAAGACAAAAAATGAAT
1 CAAGA-AAAAAATGAAT
118777 CAAGAAAACAAATGA
1 CAAGAAAA-AAATGA
118792 TTAACAACCA
Statistics
Matches: 40, Mismatches: 0, Indels: 12
0.77 0.00 0.23
Matches are distributed among these distances:
13 2 0.05
14 9 0.22
15 2 0.05
16 5 0.12
17 20 0.50
18 2 0.05
ACGTcount: A:0.68, C:0.11, G:0.13, T:0.08
Consensus pattern (16 bp):
CAAGAAAAAAATGAAT
Found at i:118761 original size:31 final size:30
Alignment explanation
Indices: 118723--118784 Score: 115
Period size: 31 Copynumber: 2.0 Consensus size: 30
118713 AAAATTAACT
118723 AAAAAACAAGACAAAAAATGAATCAAGGAAA
1 AAAAAACAAGACAAAAAATGAATCAA-GAAA
118754 AAAAAACAAGACAAAAAATGAATCAAGAAA
1 AAAAAACAAGACAAAAAATGAATCAAGAAA
118784 A
1 A
118785 CAAATGATTA
Statistics
Matches: 31, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
30 5 0.16
31 26 0.84
ACGTcount: A:0.73, C:0.10, G:0.11, T:0.06
Consensus pattern (30 bp):
AAAAAACAAGACAAAAAATGAATCAAGAAA
Found at i:118763 original size:14 final size:15
Alignment explanation
Indices: 118723--118771 Score: 50
Period size: 14 Copynumber: 3.3 Consensus size: 15
118713 AAAATTAACT
118723 AAAAAACAA-GACAA
1 AAAAAACAAGGACAA
118737 AAAATGAATCAAGGA-AA
1 AAAA--AA-CAAGGACAA
118754 AAAAAACAA-GACAA
1 AAAAAACAAGGACAA
118768 AAAA
1 AAAA
118772 TGAATCAAGA
Statistics
Matches: 30, Mismatches: 0, Indels: 10
0.75 0.00 0.25
Matches are distributed among these distances:
13 2 0.07
14 13 0.43
15 2 0.07
16 2 0.07
17 9 0.30
18 2 0.07
ACGTcount: A:0.76, C:0.10, G:0.10, T:0.04
Consensus pattern (15 bp):
AAAAAACAAGGACAA
Found at i:119509 original size:14 final size:14
Alignment explanation
Indices: 119490--119516 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
119480 GATTTCCACA
119490 GATTTGGCACACGG
1 GATTTGGCACACGG
119504 GATTTGGCACACG
1 GATTTGGCACACG
119517 CCTTTGTGCT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.22, C:0.22, G:0.33, T:0.22
Consensus pattern (14 bp):
GATTTGGCACACGG
Found at i:121955 original size:16 final size:16
Alignment explanation
Indices: 121936--121969 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
121926 TCAATAACTA
121936 TTAAATTTTGCATCTT
1 TTAAATTTTGCATCTT
*
121952 TTAAATTTTGCGTCTT
1 TTAAATTTTGCATCTT
121968 TT
1 TT
121970 TCAAATTAGT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.21, C:0.12, G:0.09, T:0.59
Consensus pattern (16 bp):
TTAAATTTTGCATCTT
Found at i:122818 original size:31 final size:30
Alignment explanation
Indices: 122778--122967 Score: 106
Period size: 31 Copynumber: 6.3 Consensus size: 30
122768 GGCAAATTAG
* * *
122778 GTACTAAATTAGGAAAAAGAGTCAAGTTCAG
1 GTACCAAATTAGGAAAAA-AGTCAAGTTTAA
*
122809 GTACCAAATT-GGACCACAAAA---AAGATTAA
1 GTACCAAATTAGGA--A-AAAAGTCAAGTTTAA
* * *
122838 GTACCAACTTAAGAAAAAGTGTCAAGTTTAA
1 GTACCAAATTAGGAAAAA-AGTCAAGTTTAA
* ** *
122869 GCACCAAATTAGGAAATAGTGTCAAGTTTAG
1 GTACCAAATTAGGAAA-AAAGTCAAGTTTAA
** *
122900 GTATAAAATT-GGACAAAAA--AAAGTTTAA
1 GTACCAAATTAGGA-AAAAAGTCAAGTTTAA
* *
122928 GTATCAAATTAGGAAAAAATGTCAAGTTCAA
1 GTACCAAATTAGGAAAAAA-GTCAAGTTTAA
*
122959 GTATCAAAT
1 GTACCAAAT
122968 ATTATATTAA
Statistics
Matches: 122, Mismatches: 23, Indels: 28
0.71 0.13 0.16
Matches are distributed among these distances:
27 3 0.02
28 22 0.18
29 17 0.14
30 9 0.07
31 65 0.53
32 3 0.02
33 3 0.02
ACGTcount: A:0.47, C:0.11, G:0.17, T:0.24
Consensus pattern (30 bp):
GTACCAAATTAGGAAAAAAGTCAAGTTTAA
Found at i:122931 original size:28 final size:28
Alignment explanation
Indices: 122892--122946 Score: 76
Period size: 28 Copynumber: 2.0 Consensus size: 28
122882 AAATAGTGTC
*
122892 AAGTTTAGGTATAAAATT-GGACAAAAAA
1 AAGTTTAAGTATAAAATTAGGA-AAAAAA
*
122920 AAGTTTAAGTATCAAATTAGGAAAAAA
1 AAGTTTAAGTATAAAATTAGGAAAAAA
122947 TGTCAAGTTC
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
28 21 0.88
29 3 0.12
ACGTcount: A:0.55, C:0.04, G:0.16, T:0.25
Consensus pattern (28 bp):
AAGTTTAAGTATAAAATTAGGAAAAAAA
Found at i:122946 original size:91 final size:90
Alignment explanation
Indices: 122783--122955 Score: 231
Period size: 91 Copynumber: 1.9 Consensus size: 90
122773 ATTAGGTACT
* * *
122783 AAATTAGGAAAAAGAGTCAAGTTCAGGTACCAAATTGGACCACAAAAAAGATTAAGTACCAACTT
1 AAATTAGGAAAAAGAGTCAAGTTCAGGTACAAAATTGGACCAAAAAAAAGATTAAGTACCAAATT
122848 AAGAAAAAGTGTCAAGTTTAAGCACC
66 AAGAAAAA-TGTCAAGTTTAAGCACC
* * * * * *
122874 AAATTAGGAAATAGTGTCAAGTTTAGGTATAAAATTGGA-CAAAAAAAAGTTTAAGTATCAAATT
1 AAATTAGGAAAAAGAGTCAAGTTCAGGTACAAAATTGGACCAAAAAAAAGATTAAGTACCAAATT
*
122938 AGGAAAAAATGTCAAGTT
66 AAG-AAAAATGTCAAGTT
122956 CAAGTATCAA
Statistics
Matches: 71, Mismatches: 10, Indels: 3
0.85 0.12 0.04
Matches are distributed among these distances:
90 32 0.45
91 39 0.55
ACGTcount: A:0.48, C:0.10, G:0.18, T:0.24
Consensus pattern (90 bp):
AAATTAGGAAAAAGAGTCAAGTTCAGGTACAAAATTGGACCAAAAAAAAGATTAAGTACCAAATT
AAGAAAAATGTCAAGTTTAAGCACC
Found at i:128644 original size:16 final size:16
Alignment explanation
Indices: 128623--128659 Score: 74
Period size: 16 Copynumber: 2.3 Consensus size: 16
128613 CTTTGGCAAT
128623 ATCTTGATGTCATGCC
1 ATCTTGATGTCATGCC
128639 ATCTTGATGTCATGCC
1 ATCTTGATGTCATGCC
128655 ATCTT
1 ATCTT
128660 TTCGTTTTCT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.19, C:0.24, G:0.16, T:0.41
Consensus pattern (16 bp):
ATCTTGATGTCATGCC
Found at i:142001 original size:26 final size:26
Alignment explanation
Indices: 141990--142058 Score: 102
Period size: 26 Copynumber: 2.7 Consensus size: 26
141980 TAGTTATTAA
*
141990 ATCGCTCTTACGAGCCAGTACAGTAT
1 ATCGCTCTTACGAGCCAGTACAATAT
* *
142016 ATCACTCTTACGAGCCAGTGCAATAT
1 ATCGCTCTTACGAGCCAGTACAATAT
*
142042 ATTGCTCTTACGAGCCA
1 ATCGCTCTTACGAGCCA
142059 ATATCGCAAT
Statistics
Matches: 38, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 38 1.00
ACGTcount: A:0.28, C:0.28, G:0.17, T:0.28
Consensus pattern (26 bp):
ATCGCTCTTACGAGCCAGTACAATAT
Found at i:144291 original size:24 final size:23
Alignment explanation
Indices: 144257--144354 Score: 76
Period size: 24 Copynumber: 4.3 Consensus size: 23
144247 ATTATTAAAT
* *
144257 ATAATTAAATAAAAATGATAATAA
1 ATAATTTAATAAAAATAATAAT-A
* **
144281 ATAATTTAAT-AATATTTTAAT-
1 ATAATTTAATAAAAATAATAATA
*
144302 ATAATTTAATAAAAATAATCATA
1 ATAATTTAATAAAAATAATAATA
* * *
144325 TATAATTTAATAACATTATTAAT-
1 -ATAATTTAATAAAAATAATAATA
144348 ATAATTT
1 ATAATTT
144355 TTTTATATTA
Statistics
Matches: 59, Mismatches: 12, Indels: 8
0.75 0.15 0.10
Matches are distributed among these distances:
21 10 0.17
22 14 0.24
23 8 0.14
24 27 0.46
ACGTcount: A:0.55, C:0.02, G:0.01, T:0.42
Consensus pattern (23 bp):
ATAATTTAATAAAAATAATAATA
Found at i:144299 original size:11 final size:11
Alignment explanation
Indices: 144275--144337 Score: 56
Period size: 11 Copynumber: 5.5 Consensus size: 11
144265 ATAAAAATGA
144275 TAATAAATAATT
1 TAAT-AATAATT
*
144287 TAATAATATTT
1 TAATAATAATT
144298 TAAT-ATAATT
1 TAATAATAATT
* *
144308 TAATAAAAATAA
1 TAATAATAAT-T
*
144320 TCATATATAATT
1 TAATA-ATAATT
144332 TAATAA
1 TAATAA
144338 CATTATTAAT
Statistics
Matches: 40, Mismatches: 8, Indels: 7
0.73 0.15 0.13
Matches are distributed among these distances:
10 9 0.22
11 15 0.38
12 12 0.30
13 4 0.10
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.43
Consensus pattern (11 bp):
TAATAATAATT
Found at i:144303 original size:45 final size:46
Alignment explanation
Indices: 144247--144353 Score: 153
Period size: 45 Copynumber: 2.3 Consensus size: 46
144237 TAATAGAATT
* *
144247 ATTATTAAATATAATTAAATAAAAATGATAATAAATAATTTAATAAT
1 ATTATT-AATATAATTAAATAAAAATAATAATAAATAATTTAATAAC
* * *
144294 ATT-TTAATATAATTTAATAAAAATAATCATATATAATTTAATAAC
1 ATTATTAATATAATTAAATAAAAATAATAATAAATAATTTAATAAC
144339 ATTATTAATATAATT
1 ATTATTAATATAATT
144354 TTTTTATATT
Statistics
Matches: 54, Mismatches: 5, Indels: 3
0.87 0.08 0.05
Matches are distributed among these distances:
45 38 0.70
46 13 0.24
47 3 0.06
ACGTcount: A:0.55, C:0.02, G:0.01, T:0.42
Consensus pattern (46 bp):
ATTATTAATATAATTAAATAAAAATAATAATAAATAATTTAATAAC
Found at i:144385 original size:15 final size:15
Alignment explanation
Indices: 144367--144429 Score: 65
Period size: 15 Copynumber: 4.1 Consensus size: 15
144357 TTATATTAAA
144367 TTATATTAAAATATT
1 TTATATTAAAATATT
*
144382 TTATTTTAAATTATATT
1 TTATATTAAA--ATATT
*
144399 TTGA-AATAAAATATT
1 TT-ATATTAAAATATT
*
144414 CTATATTAAAATATT
1 TTATATTAAAATATT
144429 T
1 T
144430 CAAATATTTT
Statistics
Matches: 38, Mismatches: 6, Indels: 8
0.73 0.12 0.15
Matches are distributed among these distances:
14 1 0.03
15 25 0.66
17 11 0.29
18 1 0.03
ACGTcount: A:0.44, C:0.02, G:0.02, T:0.52
Consensus pattern (15 bp):
TTATATTAAAATATT
Found at i:149854 original size:2 final size:2
Alignment explanation
Indices: 149849--149877 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
149839 ACATATTTAT
149849 AC AC AC AC AC AC AC AC AC AC AC AC AC AC A
1 AC AC AC AC AC AC AC AC AC AC AC AC AC AC A
149878 GAGTGTGTGT
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:0.52, C:0.48, G:0.00, T:0.00
Consensus pattern (2 bp):
AC
Found at i:152517 original size:14 final size:13
Alignment explanation
Indices: 152478--152519 Score: 50
Period size: 13 Copynumber: 3.2 Consensus size: 13
152468 AAATCAAGTA
*
152478 AATATTTAAACAT
1 AATATTTAAATAT
152491 AAT-TTTCAAATAT
1 AATATTT-AAATAT
152504 ATATATTTAAATAT
1 A-ATATTTAAATAT
152518 AA
1 AA
152520 AATATTTTTT
Statistics
Matches: 25, Mismatches: 1, Indels: 6
0.78 0.03 0.19
Matches are distributed among these distances:
12 3 0.12
13 10 0.40
14 9 0.36
15 3 0.12
ACGTcount: A:0.52, C:0.05, G:0.00, T:0.43
Consensus pattern (13 bp):
AATATTTAAATAT
Found at i:157763 original size:17 final size:17
Alignment explanation
Indices: 157743--157776 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
157733 TTAGAATTGG
157743 ATTGAGAAAATAATTTA
1 ATTGAGAAAATAATTTA
*
157760 ATTGAGAAATTAATTTA
1 ATTGAGAAAATAATTTA
157777 GTTAGTCAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.50, C:0.00, G:0.12, T:0.38
Consensus pattern (17 bp):
ATTGAGAAAATAATTTA
Found at i:163018 original size:39 final size:38
Alignment explanation
Indices: 162944--163031 Score: 113
Period size: 39 Copynumber: 2.3 Consensus size: 38
162934 TATCAAAATC
162944 TAAAATATTTTGAAAATGGGGGAAATTGTCAGAACATTT
1 TAAAATA-TTTGAAAATGGGGGAAATTGTCAGAACATTT
* * * **
162983 TCAAATATTTGAAAATGGGGGCAGATTTTTGGAACATTT
1 TAAAATATTTGAAAATGGGGG-AAATTGTCAGAACATTT
163022 TAAAATATTT
1 TAAAATATTT
163032 ATAGTGTTCC
Statistics
Matches: 42, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
38 14 0.33
39 28 0.67
ACGTcount: A:0.39, C:0.06, G:0.19, T:0.36
Consensus pattern (38 bp):
TAAAATATTTGAAAATGGGGGAAATTGTCAGAACATTT
Found at i:166506 original size:21 final size:21
Alignment explanation
Indices: 166473--166523 Score: 66
Period size: 21 Copynumber: 2.4 Consensus size: 21
166463 ACATGCCTAC
* * * *
166473 TCACAAGACTGTGTCCTTCAG
1 TCACACGAGTGTGTCCCTCAA
166494 TCACACGAGTGTGTCCCTCAA
1 TCACACGAGTGTGTCCCTCAA
166515 TCACACGAG
1 TCACACGAG
166524 CATGTGCAGC
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.25, C:0.31, G:0.20, T:0.24
Consensus pattern (21 bp):
TCACACGAGTGTGTCCCTCAA
Found at i:168157 original size:18 final size:20
Alignment explanation
Indices: 168134--168172 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 20
168124 ATACGAATTC
168134 AAAAACA-T-AGAAATCACT
1 AAAAACAGTGAGAAATCACT
168152 AAAAACAGGTGAGAAATCACT
1 AAAAACA-GTGAGAAATCACT
168173 CATCTAATAA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
18 7 0.39
20 1 0.06
21 10 0.56
ACGTcount: A:0.56, C:0.15, G:0.13, T:0.15
Consensus pattern (20 bp):
AAAAACAGTGAGAAATCACT
Found at i:183563 original size:27 final size:27
Alignment explanation
Indices: 183529--183581 Score: 81
Period size: 27 Copynumber: 2.0 Consensus size: 27
183519 GAAAGCTACC
183529 TGACAGGC-ACCACCAATGGTGCCCATA
1 TGACAGGCGA-CACCAATGGTGCCCATA
*
183556 TGACAGGCGACACCTATGGTGCCCAT
1 TGACAGGCGACACCAATGGTGCCCAT
183582 TTGGTAGGTA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
27 23 0.96
28 1 0.04
ACGTcount: A:0.26, C:0.32, G:0.25, T:0.17
Consensus pattern (27 bp):
TGACAGGCGACACCAATGGTGCCCATA
Found at i:185389 original size:23 final size:23
Alignment explanation
Indices: 185359--185416 Score: 80
Period size: 23 Copynumber: 2.5 Consensus size: 23
185349 CTGACGTGAC
*
185359 ATCCAGTCAGCAGCTTCTAGAAG
1 ATCCAGTCAGCAGCTTCTAAAAG
*
185382 ATCCAGTCAGCATCTTCTAAAAG
1 ATCCAGTCAGCAGCTTCTAAAAG
* *
185405 GTCTAGTCAGCA
1 ATCCAGTCAGCA
185417 AGGATGGACG
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 31 1.00
ACGTcount: A:0.31, C:0.26, G:0.19, T:0.24
Consensus pattern (23 bp):
ATCCAGTCAGCAGCTTCTAAAAG
Found at i:190144 original size:17 final size:17
Alignment explanation
Indices: 190122--190154 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
190112 CCATTGTAAA
190122 TATTTT-AATAAAATTAT
1 TATTTTCAA-AAAATTAT
190139 TATTTTCAAAAAATTA
1 TATTTTCAAAAAATTA
190155 AAAAATCATT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
17 13 0.87
18 2 0.13
ACGTcount: A:0.48, C:0.03, G:0.00, T:0.48
Consensus pattern (17 bp):
TATTTTCAAAAAATTAT
Found at i:190165 original size:25 final size:27
Alignment explanation
Indices: 190126--190176 Score: 70
Period size: 25 Copynumber: 2.0 Consensus size: 27
190116 TGTAAATATT
*
190126 TTAATAAAATTATTATT-TTCAAAAAA
1 TTAATAAAATCATTATTATTCAAAAAA
*
190152 TTAA-AAAATCATTATTATTTAAAAA
1 TTAATAAAATCATTATTATTCAAAAA
190177 TACATTGTAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
25 11 0.50
26 11 0.50
ACGTcount: A:0.55, C:0.04, G:0.00, T:0.41
Consensus pattern (27 bp):
TTAATAAAATCATTATTATTCAAAAAA
Found at i:190537 original size:19 final size:19
Alignment explanation
Indices: 190515--190551 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
190505 TAAAATCAAC
* *
190515 AAAATATAAGATTTATATA
1 AAAAAATAAAATTTATATA
190534 AAAAAATAAAATTTATAT
1 AAAAAATAAAATTTATAT
190552 TTTAACAAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.62, C:0.00, G:0.03, T:0.35
Consensus pattern (19 bp):
AAAAAATAAAATTTATATA
Found at i:192159 original size:67 final size:67
Alignment explanation
Indices: 192076--192228 Score: 270
Period size: 67 Copynumber: 2.3 Consensus size: 67
192066 ATTTATTTAT
* *
192076 ATAATAAATAAATAAATAATAAAACAAAATTAATATTATTTTACATTTATTTATTTATATTTATA
1 ATAATAAATAAATAAATAATAAAACAAAATTAATATTATTTTACATTTACTTATTTATATTGATA
*
192141 CA
66 AA
*
192143 ATAATAAATAAATAAATAATAAAACAAAATTAATATTATTTTATATTTACTTATTTATATTGATA
1 ATAATAAATAAATAAATAATAAAACAAAATTAATATTATTTTACATTTACTTATTTATATTGATA
192208 AA
66 AA
192210 ATAATAAATAAATAAATAA
1 ATAATAAATAAATAAATAA
192229 AAATAATAAG
Statistics
Matches: 82, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
67 82 1.00
ACGTcount: A:0.56, C:0.03, G:0.01, T:0.41
Consensus pattern (67 bp):
ATAATAAATAAATAAATAATAAAACAAAATTAATATTATTTTACATTTACTTATTTATATTGATA
AA
Found at i:192881 original size:79 final size:78
Alignment explanation
Indices: 192745--193210 Score: 592
Period size: 79 Copynumber: 5.9 Consensus size: 78
192735 ATAGTTTTAG
* * * *
192745 GGGTAAAAGATTGGATTGTTTTAATCTGCCTCATGGTCGGGGTAAGAGAT-TAGATGGTCTTCAA
1 GGGTAAAAGATTGGATTGCTTCAATCTGCCCCATGGTCGGGGTAAGAGATCGA-ATGGTCTTCAA
* *
192809 GTTGCCCCCTGGTTA
65 -TTGCCCTCTAGTTA
* * * * *
192824 GGGTAAAAGATTAGATTGCTTCAATCTACCCCATGGTCGAGGTAAGAGATTGAATGGTCTTTAAT
1 GGGTAAAAGATTGGATTGCTTCAATCTGCCCCATGGTCGGGGTAAGAGATCGAATGGTCTTCAAT
*
192889 CTGCCCTCTGGTTA
66 -TGCCCTCTAGTTA
* * *
192903 GGGTAAAAGATTGGATTACTTCAATCTGCCCCATGATCGGGGTAAGAGATCGGATGGTCTTCAAC
1 GGGTAAAAGATTGGATTGCTTCAATCTGCCCCATGGTCGGGGTAAGAGATCGAATGGTCTTCAA-
*
192968 CTGCCCTCTAGTTA
65 TTGCCCTCTAGTTA
* * * * * *
192982 GGGTAAAAGATTGGGTTGCTTCAATTTGCCCCATGGTTGAGGTAAGAGATCGAATGATTTTCAAT
1 GGGTAAAAGATTGGATTGCTTCAATCTGCCCCATGGTCGGGGTAAGAGATCGAATGGTCTTCAAT
*
193047 CTGCCTTCTAGTTA
66 -TGCCCTCTAGTTA
* * *
193061 GGGTAAAAGATTGGATTGCTTCAATCTGCCTCATGGTCGGGGTAAAAGATCGGATGGTCTTCAAT
1 GGGTAAAAGATTGGATTGCTTCAATCTGCCCCATGGTCGGGGTAAGAGATCGAATGGTCTTCAA-
193126 TTGCCCTCTAGTTA
65 TTGCCCTCTAGTTA
* * * *
193140 GGGTAAAAGATTGGATTGCTTCAATCTGCCTCATGGTTGGGGTAAGAGATCGGATGGTTTTCAAT
1 GGGTAAAAGATTGGATTGCTTCAATCTGCCCCATGGTCGGGGTAAGAGATCGAATGGTCTTCAAT
193205 CTGCCC
66 -TGCCC
193211 ATTTCAGCTT
Statistics
Matches: 338, Mismatches: 43, Indels: 12
0.86 0.11 0.03
Matches are distributed among these distances:
78 2 0.01
79 334 0.99
80 2 0.01
ACGTcount: A:0.24, C:0.17, G:0.27, T:0.32
Consensus pattern (78 bp):
GGGTAAAAGATTGGATTGCTTCAATCTGCCCCATGGTCGGGGTAAGAGATCGAATGGTCTTCAAT
TGCCCTCTAGTTA
Found at i:193037 original size:158 final size:158
Alignment explanation
Indices: 192745--193210 Score: 691
Period size: 158 Copynumber: 2.9 Consensus size: 158
192735 ATAGTTTTAG
* * ** *
192745 GGGTAAAAGATTGGATTGTTTTAATCTGCCTCATGGTCGGGGTAAGAGATTAGATGGTCTTCAAG
1 GGGTAAAAGATTGGATTGCTTCAATCTGCCTCATGGTCGGGGTAAGAGATCGGATGGTCTTCAAC
* * * * * *
192810 TTGCCCCCTGGTTAGGGTAAAAGATTAGATTGCTTCAATCTACCCCATGGTCGAGGTAAGAGATT
66 TTGCCCTCTAGTTAGGGTAAAAGATTGGATTGCTTCAATCTGCCCCATGGTTGAGGTAAGAGATC
*
192875 GAATGGTCTTT-AATCTGCCCTCTGGTTA
131 GAATGGT-TTTCAATCTGCCCTCTAGTTA
* * *
192903 GGGTAAAAGATTGGATTACTTCAATCTGCCCCATGATCGGGGTAAGAGATCGGATGGTCTTCAAC
1 GGGTAAAAGATTGGATTGCTTCAATCTGCCTCATGGTCGGGGTAAGAGATCGGATGGTCTTCAAC
* * *
192968 CTGCCCTCTAGTTAGGGTAAAAGATTGGGTTGCTTCAATTTGCCCCATGGTTGAGGTAAGAGATC
66 TTGCCCTCTAGTTAGGGTAAAAGATTGGATTGCTTCAATCTGCCCCATGGTTGAGGTAAGAGATC
* *
193033 GAATGATTTTCAATCTGCCTTCTAGTTA
131 GAATGGTTTTCAATCTGCCCTCTAGTTA
* *
193061 GGGTAAAAGATTGGATTGCTTCAATCTGCCTCATGGTCGGGGTAAAAGATCGGATGGTCTTCAAT
1 GGGTAAAAGATTGGATTGCTTCAATCTGCCTCATGGTCGGGGTAAGAGATCGGATGGTCTTCAAC
* *
193126 TTGCCCTCTAGTTAGGGTAAAAGATTGGATTGCTTCAATCTGCCTCATGGTTGGGGTAAGAGATC
66 TTGCCCTCTAGTTAGGGTAAAAGATTGGATTGCTTCAATCTGCCCCATGGTTGAGGTAAGAGATC
*
193191 GGATGGTTTTCAATCTGCCC
131 GAATGGTTTTCAATCTGCCC
193211 ATTTCAGCTT
Statistics
Matches: 274, Mismatches: 33, Indels: 2
0.89 0.11 0.01
Matches are distributed among these distances:
157 3 0.01
158 271 0.99
ACGTcount: A:0.24, C:0.17, G:0.27, T:0.32
Consensus pattern (158 bp):
GGGTAAAAGATTGGATTGCTTCAATCTGCCTCATGGTCGGGGTAAGAGATCGGATGGTCTTCAAC
TTGCCCTCTAGTTAGGGTAAAAGATTGGATTGCTTCAATCTGCCCCATGGTTGAGGTAAGAGATC
GAATGGTTTTCAATCTGCCCTCTAGTTA
Found at i:197018 original size:19 final size:19
Alignment explanation
Indices: 196994--197031 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
196984 CCCTACACGG
196994 TGATAAATGTAGTTTTATC
1 TGATAAATGTAGTTTTATC
197013 TGATAAATGTAGTTTTATC
1 TGATAAATGTAGTTTTATC
197032 CATATCTTCA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.32, C:0.05, G:0.16, T:0.47
Consensus pattern (19 bp):
TGATAAATGTAGTTTTATC
Found at i:198051 original size:328 final size:329
Alignment explanation
Indices: 197453--198113 Score: 1121
Period size: 328 Copynumber: 2.0 Consensus size: 329
197443 GTACACCCGT
* * *
197453 ATTTTAATTTCGAGTTTATACCATACTTGTAAAAAATGAGTGCTGCCTATCTGATAGGCACCATT
1 ATTTTAATTTCGAGTTTATACCATACCTGTAAAAAATGAGTGCTGCCTATCTGACAAGCACCATT
*
197518 AAATATTTTATTTTTTTAATTTTTTAATATAAAAATATAATAAATAAAAAATTTTGGTCAGAGAA
66 AAATATTTTATTTTTTTAATTTTTTAATATAAAAATATAATAAATAAAAAATTTTGGTCAAAGAA
* * *
197583 ACACAATGGTATTGCCTATCTGACAGGTACCACCAACCCATCTATTAAAAAAATAATAAAATATC
131 ACACAATGATATCGCCTATCTGACAGGCACCACCAACCCATCTATTAAAAAAATAATAAAATATC
*
197648 GAATTAATTATAATATATAATTTAATCAATATAATTTATAGTGGAAAAAAATGGATAAATTTTAT
196 GAATTAATTATAATATATAATTTAACCAATATAATTTATAGTGGAAAAAAATGGATAAATTTTAT
* * * * * *
197713 AAAAGATAAAAGAAGAAGATTTACACATCGCAATTATAAATTTTAAGACTCTGAGCTTGAACTTT
261 AAAAGATAAAAGAAGAAAATTCACAAATCACAATTATAAATTCTAAGACTCTGAACTTGAACTTT
197778 CAAG
326 CAAG
*
197782 ATTTTAATTTCGAGTTTATACCATACCTGTAAAAAATGAGTG-TCGTCTATCTGACAAGCACCAT
1 ATTTTAATTTCGAGTTTATACCATACCTGTAAAAAATGAGTGCT-GCCTATCTGACAAGCACCAT
197846 TAAATATTTTA-TTTTTTAATTTTTTTAATATAAAAATATAATAAATAAAAAA-TTTGGTCAAAG
65 TAAATATTTTATTTTTTTAA-TTTTTTAATATAAAAATATAATAAATAAAAAATTTTGGTCAAAG
* *
197909 AAACACAATGATATCGCCTATCTGATAGGCACCACCAACCCATCTATTACAAAAATAATAAAATA
129 AAACACAATGATATCGCCTATCTGACAGGCACCACCAACCCATCTATTAAAAAAATAATAAAATA
197974 TCGAATTAATTATAATATATAATTTAACCAATATAATTTATAGTGGAAAAAAATGGATAAATTTT
194 TCGAATTAATTATAATATATAATTTAACCAATATAATTTATAGTGGAAAAAAATGGATAAATTTT
*
198039 ATAAAAGATAAAAGAAGAAAATTCGCAAATCACAATTATAAATTCTAAGACTCTGAACTTGAACT
259 ATAAAAGATAAAAGAAGAAAATTCACAAATCACAATTATAAATTCTAAGACTCTGAACTTGAACT
198104 TTCAAG
324 TTCAAG
198110 ATTT
1 ATTT
198114 GAGATATTTA
Statistics
Matches: 312, Mismatches: 18, Indels: 5
0.93 0.05 0.01
Matches are distributed among these distances:
328 211 0.68
329 101 0.32
ACGTcount: A:0.44, C:0.12, G:0.10, T:0.34
Consensus pattern (329 bp):
ATTTTAATTTCGAGTTTATACCATACCTGTAAAAAATGAGTGCTGCCTATCTGACAAGCACCATT
AAATATTTTATTTTTTTAATTTTTTAATATAAAAATATAATAAATAAAAAATTTTGGTCAAAGAA
ACACAATGATATCGCCTATCTGACAGGCACCACCAACCCATCTATTAAAAAAATAATAAAATATC
GAATTAATTATAATATATAATTTAACCAATATAATTTATAGTGGAAAAAAATGGATAAATTTTAT
AAAAGATAAAAGAAGAAAATTCACAAATCACAATTATAAATTCTAAGACTCTGAACTTGAACTTT
CAAG
Found at i:198871 original size:15 final size:15
Alignment explanation
Indices: 198838--198899 Score: 52
Period size: 15 Copynumber: 3.9 Consensus size: 15
198828 AGATGATTAT
*
198838 ATAAAAAATTTCAATAA
1 ATAAAAAATAT-AA-AA
198855 ATAAAAAATATAAAA
1 ATAAAAAATATAAAA
** *
198870 ATATTAAATATTAAA
1 ATAAAAAATATAAAA
*
198885 ATAATATAATATAAA
1 ATAA-AAAATATAAA
198900 TATTATTAAA
Statistics
Matches: 36, Mismatches: 8, Indels: 3
0.77 0.17 0.06
Matches are distributed among these distances:
15 17 0.47
16 9 0.25
17 10 0.28
ACGTcount: A:0.68, C:0.02, G:0.00, T:0.31
Consensus pattern (15 bp):
ATAAAAAATATAAAA
Found at i:198879 original size:26 final size:26
Alignment explanation
Indices: 198836--198893 Score: 66
Period size: 26 Copynumber: 2.2 Consensus size: 26
198826 TAAGATGATT
*
198836 ATATAAAAAATTTCAATAAATAAAA-A
1 ATATAAAAAATTTAAAT-AATAAAATA
*
198862 ATAT-AAAAATATTAAATATTAAAATA
1 ATATAAAAAAT-TTAAATAATAAAATA
198888 ATATAA
1 ATATAA
198894 TATAAATATT
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
25 12 0.44
26 14 0.52
27 1 0.04
ACGTcount: A:0.67, C:0.02, G:0.00, T:0.31
Consensus pattern (26 bp):
ATATAAAAAATTTAAATAATAAAATA
Found at i:198895 original size:16 final size:15
Alignment explanation
Indices: 198853--198899 Score: 58
Period size: 15 Copynumber: 3.1 Consensus size: 15
198843 AAATTTCAAT
*
198853 AAATAAAAAATATAA
1 AAATAATAAATATAA
* *
198868 AAATATTAAATATTA
1 AAATAATAAATATAA
198883 AAATAATATAATATAA
1 AAATAATA-AATATAA
198899 A
1 A
198900 TATTATTAAA
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
15 19 0.73
16 7 0.27
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (15 bp):
AAATAATAAATATAA
Found at i:200342 original size:15 final size:16
Alignment explanation
Indices: 200324--200354 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
200314 TTTTTCTAAA
200324 TTTATT-TTTTGAATT
1 TTTATTGTTTTGAATT
200339 TTTATTGTTTTGAATT
1 TTTATTGTTTTGAATT
200355 ATCTGTGATT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 6 0.40
16 9 0.60
ACGTcount: A:0.19, C:0.00, G:0.10, T:0.71
Consensus pattern (16 bp):
TTTATTGTTTTGAATT
Found at i:202045 original size:14 final size:14
Alignment explanation
Indices: 202028--202056 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
202018 AATGAAAACA
202028 AAGAAAGTAAAGAG
1 AAGAAAGTAAAGAG
202042 AAGAAAGTAAAGAG
1 AAGAAAGTAAAGAG
202056 A
1 A
202057 GATATGCAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.66, C:0.00, G:0.28, T:0.07
Consensus pattern (14 bp):
AAGAAAGTAAAGAG
Found at i:205847 original size:23 final size:23
Alignment explanation
Indices: 205821--206223 Score: 500
Period size: 23 Copynumber: 17.3 Consensus size: 23
205811 CTTATATCTA
205821 TGCTTAAATATTAATGTGATTTG
1 TGCTTAAATATTAATGTGATTTG
* *
205844 TGCTTAAAAATTAATGTGATTTA
1 TGCTTAAATATTAATGTGATTTG
* * *
205867 TGATTAAATATTAATGTGAGTTA
1 TGCTTAAATATTAATGTGATTTG
* * * *
205890 AGCTTAAGTGTTAATGTGATTTA
1 TGCTTAAATATTAATGTGATTTG
**
205913 TGCTTAAATATTAACATGATTTG
1 TGCTTAAATATTAATGTGATTTG
* *
205936 TGCTCAAATATTAATGTAATTTG
1 TGCTTAAATATTAATGTGATTTG
* *
205959 TGCTTAAATATTAATATAATTTG
1 TGCTTAAATATTAATGTGATTTG
*
205982 TGCTTAAATATTAATGTGATTTA
1 TGCTTAAATATTAATGTGATTTG
**
206005 TATTTAAATATTAATGTGATTTG
1 TGCTTAAATATTAATGTGATTTG
206028 TGCTTAAATATTAATGTGATTTG
1 TGCTTAAATATTAATGTGATTTG
*
206051 TGCTAAAATATTAATGTGATTTG
1 TGCTTAAATATTAATGTGATTTG
* *
206074 TGTTTAAATATTAATATGATTTG
1 TGCTTAAATATTAATGTGATTTG
*
206097 TGCTCAAATATTAATATGATTGATTTG
1 TGCTTAAATATT-A-ATG--TGATTTG
*
206124 TGCTTAAATATTAATATGATTTG
1 TGCTTAAATATTAATGTGATTTG
*
206147 TGCTTAAATATTAATATGATTTG
1 TGCTTAAATATTAATGTGATTTG
* * *
206170 TGCTTAAATATTAATATTATTTA
1 TGCTTAAATATTAATGTGATTTG
* *
206193 TGATTAAATAGTAATGTGATTTG
1 TGCTTAAATATTAATGTGATTTG
*
206216 TTCTTAAA
1 TGCTTAAA
206224 GAATTAAGAT
Statistics
Matches: 328, Mismatches: 48, Indels: 8
0.85 0.12 0.02
Matches are distributed among these distances:
23 304 0.93
24 1 0.00
25 4 0.01
26 1 0.00
27 18 0.05
ACGTcount: A:0.35, C:0.04, G:0.14, T:0.47
Consensus pattern (23 bp):
TGCTTAAATATTAATGTGATTTG
Found at i:206407 original size:36 final size:37
Alignment explanation
Indices: 206303--206407 Score: 122
Period size: 36 Copynumber: 2.9 Consensus size: 37
206293 TGTAAAAGTG
*
206303 AATATGTGAGTATGTTTTTCATGCCATGTGGCAAAAA
1 AATATGTGAGTATGTTTTTCATGCCATGTGACAAAAA
* * * *
206340 AATATGTGAGTATGATCTTCATGTCATGTGAC-AGAA
1 AATATGTGAGTATGTTTTTCATGCCATGTGACAAAAA
* * * *
206376 AATATGTGTGTACGTTTTTTATGCCAAGTGAC
1 AATATGTGAGTATGTTTTTCATGCCATGTGAC
206408 TGATTATATT
Statistics
Matches: 56, Mismatches: 12, Indels: 1
0.81 0.17 0.01
Matches are distributed among these distances:
36 28 0.50
37 28 0.50
ACGTcount: A:0.30, C:0.11, G:0.22, T:0.36
Consensus pattern (37 bp):
AATATGTGAGTATGTTTTTCATGCCATGTGACAAAAA
Found at i:209363 original size:183 final size:183
Alignment explanation
Indices: 209055--209420 Score: 714
Period size: 183 Copynumber: 2.0 Consensus size: 183
209045 CCAACATGCT
209055 CAACATCTATGCAACCAAAAAAGATCCATCCAAAATTTTTAATAAATAAAATAAAATCTACTATG
1 CAACATCTATGCAACCAAAAAAGATCCATCCAAAATTTTTAATAAATAAAATAAAATCTACTATG
*
209120 ATGTTTCACCCTATGATAAAGGACAGATGCAAGAAAATAAAATCATAAATGAAAATTTTGTAGAT
66 ATGTTTCACCCTATGATAAAAGACAGATGCAAGAAAATAAAATCATAAATGAAAATTTTGTAGAT
209185 CCAGTTAAAGTATATTACAAACCTGCAAAAACAGGAGTGATCTGAATGGCAGA
131 CCAGTTAAAGTATATTACAAACCTGCAAAAACAGGAGTGATCTGAATGGCAGA
*
209238 CAACATCTATGCAACCAAAAAAGATCCATCCAAATTTTTTAATAAATAAAATAAAATCTACTATG
1 CAACATCTATGCAACCAAAAAAGATCCATCCAAAATTTTTAATAAATAAAATAAAATCTACTATG
209303 ATGTTTCACCCTATGATAAAAGACAGATGCAAGAAAATAAAATCATAAATGAAAATTTTGTAGAT
66 ATGTTTCACCCTATGATAAAAGACAGATGCAAGAAAATAAAATCATAAATGAAAATTTTGTAGAT
209368 CCAGTTAAAGTATATTACAAACCTGCAAAAACAGGAGTGATCTGAATGGCAGA
131 CCAGTTAAAGTATATTACAAACCTGCAAAAACAGGAGTGATCTGAATGGCAGA
209421 AACTGAGATT
Statistics
Matches: 181, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
183 181 1.00
ACGTcount: A:0.46, C:0.15, G:0.13, T:0.25
Consensus pattern (183 bp):
CAACATCTATGCAACCAAAAAAGATCCATCCAAAATTTTTAATAAATAAAATAAAATCTACTATG
ATGTTTCACCCTATGATAAAAGACAGATGCAAGAAAATAAAATCATAAATGAAAATTTTGTAGAT
CCAGTTAAAGTATATTACAAACCTGCAAAAACAGGAGTGATCTGAATGGCAGA
Found at i:211255 original size:21 final size:22
Alignment explanation
Indices: 211222--211265 Score: 72
Period size: 21 Copynumber: 2.0 Consensus size: 22
211212 TTCACATTAG
211222 AAAAAATAATTAAAATATATTTT
1 AAAAAAT-ATTAAAATATATTTT
211245 AAAAAAT-TTAAAATATATTTT
1 AAAAAATATTAAAATATATTTT
211266 TACAAAACAT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
21 14 0.67
23 7 0.33
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (22 bp):
AAAAAATATTAAAATATATTTT
Found at i:211541 original size:69 final size:64
Alignment explanation
Indices: 211442--211587 Score: 168
Period size: 69 Copynumber: 2.2 Consensus size: 64
211432 TAAATTTTTT
*
211442 TAAAATATATACAAATTTCAAATGTTTAAAAAATAAAAAAAAATTAATTTATTATTTATTAATAA
1 TAAAATATATATAAATTTCAAATGTTTAAAAAAT---AAAAAA-TAATTTATTATTTATTAA-AA
211507 AATC
61 AATC
* * * * *
211511 TAAAATATATATAAATTTTAAAT-TTGTAAAAACTCAAAAATAATTTATTATTTATTAAAAATTG
1 TAAAATATATATAAATTTCAAATGTT-TAAAAAATAAAAAATAATTTATTATTTATTAAAAAATC
*
211575 TAATATATATATA
1 TAAAATATATATA
211588 TATATATATA
Statistics
Matches: 69, Mismatches: 7, Indels: 7
0.83 0.08 0.08
Matches are distributed among these distances:
64 16 0.23
65 18 0.26
66 5 0.07
68 2 0.03
69 28 0.41
ACGTcount: A:0.54, C:0.03, G:0.02, T:0.40
Consensus pattern (64 bp):
TAAAATATATATAAATTTCAAATGTTTAAAAAATAAAAAATAATTTATTATTTATTAAAAAATC
Found at i:211584 original size:2 final size:2
Alignment explanation
Indices: 211577--211609 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
211567 AAAAATTGTA
211577 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
211610 AATAAATAGT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:212359 original size:22 final size:24
Alignment explanation
Indices: 212334--212378 Score: 58
Period size: 22 Copynumber: 2.0 Consensus size: 24
212324 TCTTCCCAAC
212334 TTTCATCCTTC-TC-TCCCTTATA
1 TTTCATCCTTCTTCGTCCCTTATA
* *
212356 TTTCCTTCTTCTTCGTCCCTTAT
1 TTTCATCCTTCTTCGTCCCTTAT
212379 TCACCTTACT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
22 9 0.47
23 2 0.11
24 8 0.42
ACGTcount: A:0.09, C:0.36, G:0.02, T:0.53
Consensus pattern (24 bp):
TTTCATCCTTCTTCGTCCCTTATA
Found at i:218007 original size:3 final size:3
Alignment explanation
Indices: 217999--218023 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
217989 ATTTAAATCC
217999 ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA A
218024 AACAAAGAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:223784 original size:13 final size:13
Alignment explanation
Indices: 223766--223792 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
223756 GAGGATGCTG
223766 TGTGTGAGTAAGC
1 TGTGTGAGTAAGC
223779 TGTGTGAGTAAGC
1 TGTGTGAGTAAGC
223792 T
1 T
223793 CAAAAGGTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.22, C:0.07, G:0.37, T:0.33
Consensus pattern (13 bp):
TGTGTGAGTAAGC
Found at i:238254 original size:20 final size:20
Alignment explanation
Indices: 238229--238268 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
238219 TCAATCATTT
238229 AGGGCTTGAAACGTACTTGG
1 AGGGCTTGAAACGTACTTGG
238249 AGGGCTTGAAACGTACTTGG
1 AGGGCTTGAAACGTACTTGG
238269 TTCAGCCACT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.25, C:0.15, G:0.35, T:0.25
Consensus pattern (20 bp):
AGGGCTTGAAACGTACTTGG
Found at i:241944 original size:28 final size:27
Alignment explanation
Indices: 241921--242079 Score: 149
Period size: 28 Copynumber: 5.8 Consensus size: 27
241911 CTTTTTTGTG
* *
241921 AAGAATCCTTTGTGGTGATCTTTTTTA
1 AAGAAGCCTTTGTGGCGATCTTTTTTA
*
241948 AAGAAAGCCTTTGTGACGATC-TTTTTA
1 AAG-AAGCCTTTGTGGCGATCTTTTTTA
*
241975 AAGATAGCCTTTGTGGTGATCTTTTTTA
1 AAGA-AGCCTTTGTGGCGATCTTTTTTA
* * *
242003 AAGAAGCATTTGTGGCGATCTCTGTTA
1 AAGAAGCCTTTGTGGCGATCTTTTTTA
* * * * *
242030 AAGAAAGCATTTGTGGTGATCTCTGTGA
1 AAG-AAGCCTTTGTGGCGATCTTTTTTA
* *
242058 AAGAACGTCTTTGTGGCTATCT
1 AAGAA-GCCTTTGTGGCGATCT
242080 CTAGAAAAGA
Statistics
Matches: 112, Mismatches: 15, Indels: 9
0.82 0.11 0.07
Matches are distributed among these distances:
26 1 0.01
27 50 0.45
28 61 0.54
ACGTcount: A:0.25, C:0.13, G:0.23, T:0.39
Consensus pattern (27 bp):
AAGAAGCCTTTGTGGCGATCTTTTTTA
Found at i:241952 original size:27 final size:27
Alignment explanation
Indices: 241921--242051 Score: 156
Period size: 27 Copynumber: 4.8 Consensus size: 27
241911 CTTTTTTGTG
*
241921 AAGAATCCTTTGTGGTGATCTTTTTTA
1 AAGAAGCCTTTGTGGTGATCTTTTTTA
**
241948 AAGAAAGCCTTTGTGACGATC-TTTTTA
1 AAG-AAGCCTTTGTGGTGATCTTTTTTA
241975 AAGATAGCCTTTGTGGTGATCTTTTTTA
1 AAGA-AGCCTTTGTGGTGATCTTTTTTA
* * * *
242003 AAGAAGCATTTGTGGCGATCTCTGTTA
1 AAGAAGCCTTTGTGGTGATCTTTTTTA
*
242030 AAGAAAGCATTTGTGGTGATCT
1 AAG-AAGCCTTTGTGGTGATCT
242052 CTGTGAAAGA
Statistics
Matches: 90, Mismatches: 10, Indels: 7
0.84 0.09 0.07
Matches are distributed among these distances:
26 1 0.01
27 48 0.53
28 41 0.46
ACGTcount: A:0.26, C:0.12, G:0.22, T:0.40
Consensus pattern (27 bp):
AAGAAGCCTTTGTGGTGATCTTTTTTA
Found at i:241988 original size:55 final size:55
Alignment explanation
Indices: 241927--242051 Score: 189
Period size: 55 Copynumber: 2.3 Consensus size: 55
241917 TGTGAAGAAT
* * *
241927 CCTTTGTGGTGATCTTTTTTAAAGAAAGCCTTTGTGACGATCT-TTTTAAAGATAG
1 CCTTTGTGGTGATCTTTTTTAAAG-AAGCATTTGTGACGATCTCTGTTAAAGAAAG
*
241982 CCTTTGTGGTGATCTTTTTTAAAGAAGCATTTGTGGCGATCTCTGTTAAAGAAAG
1 CCTTTGTGGTGATCTTTTTTAAAGAAGCATTTGTGACGATCTCTGTTAAAGAAAG
*
242037 CATTTGTGGTGATCT
1 CCTTTGTGGTGATCT
242052 CTGTGAAAGA
Statistics
Matches: 64, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
54 16 0.25
55 48 0.75
ACGTcount: A:0.24, C:0.13, G:0.22, T:0.41
Consensus pattern (55 bp):
CCTTTGTGGTGATCTTTTTTAAAGAAGCATTTGTGACGATCTCTGTTAAAGAAAG
Found at i:242061 original size:55 final size:54
Alignment explanation
Indices: 241929--242081 Score: 182
Period size: 55 Copynumber: 2.8 Consensus size: 54
241919 TGAAGAATCC
* * * *
241929 TTTGTGGTGATCTTTTTTAAAGAAAGCCTTTGTGACGATCT-TTTTAAAGATAGCC
1 TTTGTGGTGATCTTTTTTAAAG-AAG-CTTTGTGGCGATCTCTGTTAAAGAAAGCA
241984 TTTGTGGTGATCTTTTTTAAAGAAGCATTTGTGGCGATCTCTGTTAAAGAAAGCA
1 TTTGTGGTGATCTTTTTTAAAGAAGC-TTTGTGGCGATCTCTGTTAAAGAAAGCA
* * * *
242039 TTTGTGGTGATCTCTGTGAAAGAACGTCTTTGTGGCTATCTCT
1 TTTGTGGTGATCTTTTTTAAAGAA-G-CTTTGTGGCGATCTCT
242082 AGAAAAGAAC
Statistics
Matches: 86, Mismatches: 8, Indels: 7
0.85 0.08 0.07
Matches are distributed among these distances:
53 1 0.01
54 15 0.17
55 54 0.63
56 15 0.17
57 1 0.01
ACGTcount: A:0.24, C:0.13, G:0.23, T:0.41
Consensus pattern (54 bp):
TTTGTGGTGATCTTTTTTAAAGAAGCTTTGTGGCGATCTCTGTTAAAGAAAGCA
Done.