Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01000972.1 Hibiscus syriacus cultivar Beakdansim tig00001941_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: 104210
ACGTcount: A:0.35, C:0.15, G:0.17, T:0.34
File 1 of 2
Found at i:2220 original size:2 final size:2
Alignment explanation
Indices: 2204--2254 Score: 56
Period size: 2 Copynumber: 27.5 Consensus size: 2
2194 TTAAACGTTT
* *
2204 TA TA TA CA TA CA TA TA T- TA TA TA -A TA TA T- 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
2243 -A TA TA TA TA TA T
1 TA TA TA TA TA TA T
2255 GTATTTGAAG
Statistics
Matches: 41, Mismatches: 4, Indels: 8
0.77 0.08 0.15
Matches are distributed among these distances:
1 4 0.10
2 37 0.90
ACGTcount: A:0.49, C:0.04, G:0.00, T:0.47
Consensus pattern (2 bp):
TA
Found at i:4686 original size:145 final size:144
Alignment explanation
Indices: 4138--4974 Score: 730
Period size: 145 Copynumber: 6.0 Consensus size: 144
4128 TACGTGTTCG
* * * *
4138 ATACTAGTTATGACAGTATCGATACTCTTT-TTCCAGTATGCTTTCTCAAACAATTTGCATG-AA
1 ATACTTGTTATGCCCGTGTCGATACT-TTTATTCCAGTATGC-TTCTCAAACAATTTGCATGAAA
* * * * * * * * * * *
4201 TTGTATCGATACATATAGATCAAGTATCGATATTTCTTATTTCGAAACAACATTTACAATATCTG
64 ATGTATCGATACACATATATAAAGTATCGATATATATAATTTCAAAACAAAATATGCAATATCTG
*
4266 AAATGTCAAAGTATCG
129 AAATGTCAAAGTATCA
* *** * * * *
4282 ATACTAGTTATGATTGTATCGATACTTTTATTCCACTATGCTTCTCATACAATTTGCATTCAAAA
1 ATACTTGTTATGCCCGTGTCGATACTTTTATTCCAGTATGCTTCTCAAACAATTTGCA-TGAAAA
* * * * * * *
4347 TGAATCGATACACATATATAAAATATCG--GTATATAATATCAAAACAAGATATGAAATATCTTA
65 TGTATCGATACACATATATAAAGTATCGATATATATAATTTCAAAACAAAATATGCAATATCTGA
*
4410 AATATCAAAGTATCA
130 AATGTCAAAGTATCA
*** * * * *
4425 ATACTTGTTATGCTTATGTTGAT--TTTTTTTTCAGTATGCTTCTCAAACAATTTGCATGAAACT
1 ATACTTGTTATGCCCGTGTCGATACTTTTATTCCAGTATGCTTCTCAAACAATTTGCATGAAAAT
* * *
4488 GTATCGATACACGTATATAAAGTATCAATATATATAATTTCAAAACAAGATATGCAATATCTGAA
66 GTATCGATACACATATATAAAGTATCGATATATATAATTTCAAAACAAAATATGCAATATCTGAA
*
4553 ATGTAAAAGTATCA
131 ATGTCAAAGTATCA
* *
4567 ATACTTGTTATGCCCGTGTCTATACTTTTATTCCAGTATGCTTCTCAAACAATTTTCATGCAAAA
1 ATACTTGTTATGCCCGTGTCGATACTTTTATTCCAGTATGCTTCTCAAACAATTTGCATG-AAAA
* * * * *
4632 TGTATCAATACACATATATAAAGTATCGATACATATAATTTTAAAACAATATATGTAATATCTGA
65 TGTATCGATACACATATATAAAGTATCGATATATATAATTTCAAAACAAAATATGCAATATCTGA
*
4697 AATGTCCAAGTATCA
130 AATGTCAAAGTATCA
* * * *
4712 A-ACTTTTTATACCCGTATCGATATTTTTATTCC---A-----CT---ACAATTTGCATGAAAAT
1 ATACTTGTTATGCCCGTGTCGATACTTTTATTCCAGTATGCTTCTCAAACAATTTGCATGAAAAT
* * ** * * *
4765 GTATCGATACAC--ATATAAAGTAGCGATATTTATAATTTTGAAACAAAATATGGAATACCGTCA
66 GTATCGATACACATATATAAAGTATCGATATATATAATTTCAAAACAAAATATGCAATATC-TGA
* *
4828 ACA--TCAAAATATCG
130 A-ATGTCAAAGTATCA
* * * *
4842 ATACTTG---T--CC-TGACAATA-TTTT-TTCCAG-ATACTTGTCAAACAATTTGCATGAAAAT
1 ATACTTGTTATGCCCGTGTCGATACTTTTATTCCAGTATGCTTCTCAAACAATTTGCATGAAAAT
* * * * * *
4898 GTATCAATACACATATATAAAGTATCAATATTTATAACTTC-AAACAAAATATACAATATCTAAA
66 GTATCGATACACATATATAAAGTATCGATATATATAATTTCAAAACAAAATATGCAATATCTGAA
4962 ATGTCAAAGTATC
131 ATGTCAAAGTATC
4975 CATATTTCTT
Statistics
Matches: 572, Mismatches: 96, Indels: 60
0.79 0.13 0.08
Matches are distributed among these distances:
123 4 0.01
124 4 0.01
125 6 0.01
126 2 0.00
128 1 0.00
130 50 0.09
131 7 0.01
132 18 0.03
133 42 0.07
134 25 0.04
135 23 0.04
136 2 0.00
140 28 0.05
141 30 0.05
142 62 0.11
143 74 0.13
144 94 0.16
145 100 0.17
ACGTcount: A:0.39, C:0.15, G:0.10, T:0.36
Consensus pattern (144 bp):
ATACTTGTTATGCCCGTGTCGATACTTTTATTCCAGTATGCTTCTCAAACAATTTGCATGAAAAT
GTATCGATACACATATATAAAGTATCGATATATATAATTTCAAAACAAAATATGCAATATCTGAA
ATGTCAAAGTATCA
Found at i:5002 original size:265 final size:274
Alignment explanation
Indices: 4303--4974 Score: 627
Period size: 285 Copynumber: 2.4 Consensus size: 274
4293 GATTGTATCG
* * * * * *
4303 ATACTTTTATTCCACTATGCTTCTCATACAATTTGCATTCAAAATGAATCGATACACATATATAA
1 ATACTTTTATTCCAGTATACTTCTCAAACAATTTGCATGCAAAATGTATCAATACACATATATAA
* ** * * * * *
4368 AATATCGGT--ATATAATATCAAAACAAGATATGA-AATATCTTAAATATCAAAGTATCAATACT
66 AGTATCAATACATATAATCTTAAAACAAAATAT-ACAATATCTAAAATGTCAAAGTATCAA-ACT
* * *** * * * * * * *
4430 TGTTATGCTTATGTTGATTTTTTTTTCAGTATGCTTCTCAAACAATTTGCATGAAACTGTATCGA
129 TTTTATACCCGTATCGA-TATTTGTT-A-T-T-C--CAC-TACAATTTGCATGAAAATGTATCGA
* * * * *
4495 TACACGTATATAAAGTATCAATATATATAATTTCAAAACAAGATATGCAATATCTGAAATGTAAA
186 TACACG-ATATAAAGTAGCAATATATATAATTTCAAAACAAAATATGCAATACCTCAAATGCAAA
* *
4560 AGTATCAATACTTGTTATGCCCGTGTCT
250 AGTATCAATACTTG-T-T-CCCGTGACA
* *
4588 ATACTTTTATTCCAGTATGCTTCTCAAACAATTTTCATGCAAAATGTATCAATACACATATATAA
1 ATACTTTTATTCCAGTATACTTCTCAAACAATTTGCATGCAAAATGTATCAATACACATATATAA
* * * ** * *
4653 AGTATCGATACATATAATTTTAAAACAATATATGTAATATCTGAAATGTCCAAGTATCAAACTTT
66 AGTATCAATACATATAATCTTAAAACAAAATATACAATATCTAAAATGTCAAAGTATCAAACTTT
4718 TTATACCCGTATCGATATTT-TTATTCCACTACAATTTGCATGAAAATGTATCGATACAC-ATAT
131 TTATACCCGTATCGATATTTGTTATTCCACTACAATTTGCATGAAAATGTATCGATACACGATAT
* * ** * *
4781 AAAGTAGCGATATTTATAATTTTGAAACAAAATATGGAATACCGTCAACAT-CAAAA-TATCGAT
196 AAAGTAGCAATATATATAATTTCAAAACAAAATATGCAATACC-TCAA-ATGCAAAAGTATCAAT
4844 ACTTG-T-CC-TGACA
259 ACTTGTTCCCGTGACA
*
4857 ATA-TTTT-TTCCAG-ATACTTGTCAAACAATTTGCATG-AAAATGTATCAATACACATATATAA
1 ATACTTTTATTCCAGTATACTTCTCAAACAATTTGCATGCAAAATGTATCAATACACATATATAA
** *
4918 AGTATCAATATTTATAA-CTTCAAACAAAATATACAATATCTAAAATGTCAAAGTATC
66 AGTATCAATACATATAATCTTAAAACAAAATATACAATATCTAAAATGTCAAAGTATC
4975 CATATTTCTT
Statistics
Matches: 330, Mismatches: 52, Indels: 31
0.80 0.13 0.08
Matches are distributed among these distances:
264 33 0.10
265 39 0.12
266 20 0.06
267 6 0.02
268 4 0.01
269 6 0.02
270 2 0.01
272 1 0.00
275 50 0.15
276 7 0.02
277 30 0.09
278 2 0.01
280 1 0.00
281 1 0.00
282 1 0.00
283 1 0.00
284 2 0.01
285 70 0.21
286 13 0.04
287 41 0.12
ACGTcount: A:0.40, C:0.15, G:0.10, T:0.35
Consensus pattern (274 bp):
ATACTTTTATTCCAGTATACTTCTCAAACAATTTGCATGCAAAATGTATCAATACACATATATAA
AGTATCAATACATATAATCTTAAAACAAAATATACAATATCTAAAATGTCAAAGTATCAAACTTT
TTATACCCGTATCGATATTTGTTATTCCACTACAATTTGCATGAAAATGTATCGATACACGATAT
AAAGTAGCAATATATATAATTTCAAAACAAAATATGCAATACCTCAAATGCAAAAGTATCAATAC
TTGTTCCCGTGACA
Found at i:5512 original size:231 final size:229
Alignment explanation
Indices: 5098--5549 Score: 563
Period size: 231 Copynumber: 2.0 Consensus size: 229
5088 TAATGGAAAT
* * *
5098 TAAAATAATTACAACTTAACCGGTTAAAAAACAATAGCCGCAACCTGTTACGTTAAAGTTTTCTA
1 TAAAATAAGTACAACTTAACCGGTTAAAAAACAATAGCCACAACCTGTTACGTTAAAGATTTCTA
* *
5163 CCGGTATAAAAAATGTAAACGGTCAAATATTTTCAACCTAACCAGTATAATCATAATGTAAATGG
66 CCAGTATAAAAAATGTAAACGGTCAAATATTTTCAACCTAACCAGTATAATCATAATGTAAACGG
* * * * * *
5228 TATAATATTGACAACCTTATCGGTTAAAACAATTCGAGCACAATCTATTACTTTAAACTTCTTAC
131 TACAATACTGACAACCTAACCGGTTAAAACAATTCGAG-ACAACCTATTACTTTAAACTTCCTAC
*
5293 CGGTTTGTTTATAGTTATATTAATAATGCGCACAA
195 CGGTTTGTTTATAGGTATATTAATAATGCGCACAA
* * *
5328 TAAAATACGTACAACTTAACCTGTTAAAAAACAATATG-CACAACCTGTTATGTTAAA-ATTTCT
1 TAAAATAAGTACAACTTAACCGGTTAAAAAACAATA-GCCACAACCTGTTACGTTAAAGATTTCT
* * * * * *
5391 ATCAGTTTAATGATAATGTAGATGGT--AATATTGTTTCAACCTAGCCAGTATAATCATAATGTA
65 ACCAGTATAA--AAAATGTAAACGGTCAAATA-T-TTTCAACCTAACCAGTATAATCATAATGTA
* * ** *
5454 AACGGTACAATACTGACGATCTAACCGGTTAAAGTAATTTACGTG-CAACCTATTACTTTAAACT
126 AACGGTACAATACTGACAACCTAACCGGTTAAAACAA-TT-CGAGACAACCTATTACTTTAAACT
5518 TCCTACCGGTTTGTTTATAGGTATATTAATAA
189 TCCTACCGGTTTGTTTATAGGTATATTAATAA
5550 GGTCAACCGT
Statistics
Matches: 189, Mismatches: 26, Indels: 13
0.83 0.11 0.06
Matches are distributed among these distances:
229 16 0.08
230 51 0.27
231 117 0.62
232 2 0.01
233 3 0.02
ACGTcount: A:0.38, C:0.16, G:0.12, T:0.33
Consensus pattern (229 bp):
TAAAATAAGTACAACTTAACCGGTTAAAAAACAATAGCCACAACCTGTTACGTTAAAGATTTCTA
CCAGTATAAAAAATGTAAACGGTCAAATATTTTCAACCTAACCAGTATAATCATAATGTAAACGG
TACAATACTGACAACCTAACCGGTTAAAACAATTCGAGACAACCTATTACTTTAAACTTCCTACC
GGTTTGTTTATAGGTATATTAATAATGCGCACAA
Found at i:6311 original size:83 final size:84
Alignment explanation
Indices: 6170--6339 Score: 288
Period size: 83 Copynumber: 2.0 Consensus size: 84
6160 ATACTTTCAC
*
6170 TAAAAGTATCGATACTTGAACATTCAACAAAATGGATGGTGTGTTTTGAAATTGTAAATATTAAT
1 TAAAAGTATCGATACTTGAACATTCAACAAAATGGATGGTGTGTTTTGAAATTATAAATATTAAT
6235 ACTTCATATA-TGTATCGA
66 ACTTCATATAGTGTATCGA
* *
6253 TAAAAGTATCGATTCTTGAACATTCAACAAAATGGATGGTGTGTTTTGAAATTATAAATATTGAT
1 TAAAAGTATCGATACTTGAACATTCAACAAAATGGATGGTGTGTTTTGAAATTATAAATATTAAT
*
6318 ACTTTATATATGTGTATCGA
66 ACTTCATATA-GTGTATCGA
6338 TA
1 TA
6340 CGTTTTCATG
Statistics
Matches: 81, Mismatches: 4, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
83 71 0.88
85 10 0.12
ACGTcount: A:0.38, C:0.09, G:0.16, T:0.38
Consensus pattern (84 bp):
TAAAAGTATCGATACTTGAACATTCAACAAAATGGATGGTGTGTTTTGAAATTATAAATATTAAT
ACTTCATATAGTGTATCGA
Found at i:7074 original size:98 final size:99
Alignment explanation
Indices: 6855--7079 Score: 265
Period size: 98 Copynumber: 2.3 Consensus size: 99
6845 GTTAGGTTGC
* * * *
6855 AAATATTTTACCGTTTACATTATTATTAACTCTATACACAAATTGGTAGCAATTTTAAAGTAATA
1 AAATATTTTACCGTTTACATTATTATTAACCCTATACACAAACTGGAAGCAAGTTTAAAGTAATA
* * * ** **
6920 GATTGCCCCTATTTTTTTTAAATAGTTAGTTTGT
66 GATTGCCCCTAATTGTTTTAAACAGTTAGCATCA
* *
6954 AAATATTTTACCTTTTACATTATTATTAACCCTATA-A-AAACTGGAAGCAGGTTTAAAGTAATA
1 AAATATTTTACCGTTTACATTATTATTAACCCTATACACAAACTGGAAGCAAGTTTAAAGTAATA
* ** *
7017 GGTTGTGCCTAAATTGTTTTAACCAGTTAGCATCA
66 GATTGCCCCT-AATTGTTTTAAACAGTTAGCATCA
*
7052 AAATATTTTACCGTTTATATTATTATTA
1 AAATATTTTACCGTTTACATTATTATTA
7080 TACCGGTATA
Statistics
Matches: 106, Mismatches: 19, Indels: 3
0.83 0.15 0.02
Matches are distributed among these distances:
97 29 0.27
98 43 0.41
99 34 0.32
ACGTcount: A:0.35, C:0.12, G:0.11, T:0.42
Consensus pattern (99 bp):
AAATATTTTACCGTTTACATTATTATTAACCCTATACACAAACTGGAAGCAAGTTTAAAGTAATA
GATTGCCCCTAATTGTTTTAAACAGTTAGCATCA
Found at i:7525 original size:18 final size:17
Alignment explanation
Indices: 7502--7544 Score: 50
Period size: 18 Copynumber: 2.4 Consensus size: 17
7492 TGAGACGCAG
7502 TTCTTCTAACGCAAAATC
1 TTCTTCTAAC-CAAAATC
**
7520 TTCTTCCTAACCAATGTC
1 TTCTT-CTAACCAAAATC
7538 TTCTTCT
1 TTCTTCT
7545 CAAGTAAGGT
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
17 2 0.09
18 15 0.68
19 5 0.23
ACGTcount: A:0.23, C:0.30, G:0.05, T:0.42
Consensus pattern (17 bp):
TTCTTCTAACCAAAATC
Found at i:12411 original size:20 final size:19
Alignment explanation
Indices: 12360--12411 Score: 61
Period size: 20 Copynumber: 2.6 Consensus size: 19
12350 TTATGGATTT
12360 TTTTTTAAA-TATCAATAC
1 TTTTTTAAAGTATCAATAC
*
12378 TGGTTATTAAAGTATCAATAC
1 T--TTTTTAAAGTATCAATAC
12399 TTTTTTGAAAGTA
1 TTTTTT-AAAGTA
12412 AGCTATGTCC
Statistics
Matches: 28, Mismatches: 2, Indels: 6
0.78 0.06 0.17
Matches are distributed among these distances:
18 1 0.04
19 4 0.14
20 13 0.46
21 10 0.36
ACGTcount: A:0.37, C:0.08, G:0.10, T:0.46
Consensus pattern (19 bp):
TTTTTTAAAGTATCAATAC
Found at i:12692 original size:103 final size:103
Alignment explanation
Indices: 12473--12765 Score: 337
Period size: 103 Copynumber: 2.9 Consensus size: 103
12463 ATCGATACCT
* * * * *
12473 ATATTTATAACTTAACCGGTTAAAATAAAATAGGCGCTACATATTTTTTTTTAAA-TTGCTA-TC
1 ATATTTACAACTTAACCGGTTAAAATAAAATAGGCGCTACCTA--TTATGTTAAACTAGCTACT-
* * *
12536 GATTTGTTTAAAAGTATAAT-AT--TAATGTAAATGGTCAA
63 GATTTGTTTAAAGGTATAATAATAATAATGTAAAGGGTAAA
* * * *
12574 ATATTTACAAATTAACCTGTTAAAATAAAATTGGCGCCTACCTATTACGTTAAACTAGCTACTGA
1 ATATTTACAACTTAACCGGTTAAAATAAAATAGGCG-CTACCTATTATGTTAAACTAGCTACTGA
12639 TTTGTTT-AAGGTATAATAATAATAATGTAAAGGGTAAA
65 TTTGTTTAAAGGTATAATAATAATAATGTAAAGGGTAAA
* * * * * *
12677 ATATTTACAACTTAACCGGTTAAAATAAAATAAGCACTATCTATTATGTTAAACTACCTACCGGT
1 ATATTTACAACTTAACCGGTTAAAATAAAATAGGCGCTACCTATTATGTTAAACTAGCTACTGAT
*
12742 TTGTTTAAAGGTATAATATTAATA
66 TTGTTTAAAGGTATAATAATAATA
12766 TTGTTGAACT
Statistics
Matches: 162, Mismatches: 23, Indels: 12
0.82 0.12 0.06
Matches are distributed among these distances:
100 16 0.10
101 48 0.30
102 37 0.23
103 61 0.38
ACGTcount: A:0.40, C:0.11, G:0.12, T:0.37
Consensus pattern (103 bp):
ATATTTACAACTTAACCGGTTAAAATAAAATAGGCGCTACCTATTATGTTAAACTAGCTACTGAT
TTGTTTAAAGGTATAATAATAATAATGTAAAGGGTAAA
Found at i:14809 original size:18 final size:18
Alignment explanation
Indices: 14786--14833 Score: 96
Period size: 18 Copynumber: 2.7 Consensus size: 18
14776 CAGCTTGGAG
14786 TGATGAAGATGACTGCAA
1 TGATGAAGATGACTGCAA
14804 TGATGAAGATGACTGCAA
1 TGATGAAGATGACTGCAA
14822 TGATGAAGATGA
1 TGATGAAGATGA
14834 AGTAGCCAAC
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 30 1.00
ACGTcount: A:0.40, C:0.08, G:0.29, T:0.23
Consensus pattern (18 bp):
TGATGAAGATGACTGCAA
Found at i:16370 original size:20 final size:20
Alignment explanation
Indices: 16345--16412 Score: 118
Period size: 20 Copynumber: 3.4 Consensus size: 20
16335 TGACAAGCAA
*
16345 TATCGATATTGTTCTTGCAG
1 TATCGATATTGTTCTTACAG
16365 TATCGATATTGTTCTTACAG
1 TATCGATATTGTTCTTACAG
*
16385 TATCAATATTGTTCTTACAG
1 TATCGATATTGTTCTTACAG
16405 TATCGATA
1 TATCGATA
16413 CCTCGTTAAC
Statistics
Matches: 45, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 45 1.00
ACGTcount: A:0.26, C:0.15, G:0.15, T:0.44
Consensus pattern (20 bp):
TATCGATATTGTTCTTACAG
Found at i:16434 original size:40 final size:42
Alignment explanation
Indices: 16342--16454 Score: 126
Period size: 40 Copynumber: 2.8 Consensus size: 42
16332 TTTTGACAAG
* * *
16342 CAATATCGATATTGTTCTTGCAGTATCGATA--TTGTTCTTA
1 CAATATCGATATTGTTCTTACAGTATCGATACCTCGTTCTAA
* *
16382 CAGTATCAATATTGTTCTTACAGTATCGATACCTCG-T-TAA
1 CAATATCGATATTGTTCTTACAGTATCGATACCTCGTTCTAA
* **
16422 CAATATCGATATTGTTCATATGGTATCGATACC
1 CAATATCGATATTGTTCTTACAGTATCGATACC
16455 AAAGGTAAGG
Statistics
Matches: 61, Mismatches: 10, Indels: 4
0.81 0.13 0.05
Matches are distributed among these distances:
40 58 0.95
41 1 0.02
42 2 0.03
ACGTcount: A:0.28, C:0.18, G:0.14, T:0.40
Consensus pattern (42 bp):
CAATATCGATATTGTTCTTACAGTATCGATACCTCGTTCTAA
Found at i:17371 original size:100 final size:100
Alignment explanation
Indices: 17251--17444 Score: 262
Period size: 100 Copynumber: 1.9 Consensus size: 100
17241 GTTCCTAACA
* * *
17251 AATGTAAACAGTAAAATATTTACAACTTAACCAGTTAAAATAAAATAGGCGCTACCTAATATGTT
1 AATGTAAACAGTAAAATATTTACAACATAACCAGTTAAAATAAAATAAGCGCTACCTAATACGTT
*
17316 AAACTACCTACCGGTTTGTTTATAGGTATAATATT
66 AAACTACCTACCGGTTTGTTTAAAGGTATAATATT
** ** ** * *
17351 AATGTAAATGGTAAAATATTTACAACATAACTGGTTAAAATAAAATAAGTTCTACTTATTACGTT
1 AATGTAAACAGTAAAATATTTACAACATAACCAGTTAAAATAAAATAAGCGCTACCTAATACGTT
**
17416 AAACTACCTATTGGTTTGTTTAAAGGTAT
66 AAACTACCTACCGGTTTGTTTAAAGGTAT
17445 TTTTTTATTA
Statistics
Matches: 80, Mismatches: 14, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
100 80 1.00
ACGTcount: A:0.41, C:0.12, G:0.12, T:0.35
Consensus pattern (100 bp):
AATGTAAACAGTAAAATATTTACAACATAACCAGTTAAAATAAAATAAGCGCTACCTAATACGTT
AAACTACCTACCGGTTTGTTTAAAGGTATAATATT
Found at i:17727 original size:25 final size:25
Alignment explanation
Indices: 17697--17744 Score: 87
Period size: 25 Copynumber: 1.9 Consensus size: 25
17687 TATGGAGTAA
*
17697 TCAACCAACAACTCATCGAAAAATC
1 TCAACCAACAACTCATCAAAAAATC
17722 TCAACCAACAACTCATCAAAAAA
1 TCAACCAACAACTCATCAAAAAA
17745 ACTCGAGCAA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.52, C:0.31, G:0.02, T:0.15
Consensus pattern (25 bp):
TCAACCAACAACTCATCAAAAAATC
Found at i:18828 original size:100 final size:99
Alignment explanation
Indices: 18654--19014 Score: 501
Period size: 100 Copynumber: 3.6 Consensus size: 99
18644 TTAGTTAACA
* * *
18654 TTAAAATAAAATAAGTGCTACCTATTACGTTAAACTAGCTACGAGTTTGTTTAAAGGTGTAATAT
1 TTAAAATAAAATAAGTGCTACCTATTACGTTAAACTACCTACCAGTTTGTTTAAAGGTATAATAT
* *
18719 CAATGTAAATGATAAACTATTTACAACTTAATCGG
66 CAATATAAATGGTAAACTATTTACAACTTAA-CGG
*
18754 TTAAAATAAAATAAGTGCTACCCATTACGTTAAACTACCTACCAGTTTGTTTAAAGGTATAATAT
1 TTAAAATAAAATAAGTGCTACCTATTACGTTAAACTACCTACCAGTTTGTTTAAAGGTATAATAT
18819 CAATATAAATGGTAAACTATTTACAACTTAACCGG
66 CAATATAAATGGTAAACTATTTACAACTTAA-CGG
18854 TTAAAATAAAAT-AGATGCTACCTATTACGTTAAACTACCTACC-GATTTGTTTAAAGGTATAAT
1 TTAAAATAAAATAAG-TGCTACCTATTACGTTAAACTACCTACCAG-TTTGTTTAAAGGTATAAT
* * * * *
18917 ATTAATAGAAACGGTAAAATATTTACAACTTAACATG
64 ATCAATATAAATGGTAAACTATTTACAACTTAAC-GG
* * * ** * *
18954 TTAAAATAAAATAGGTGCCACCTATTACGTTAAGCTAGTTACCGGTTTGTTTAATGGTATA
1 TTAAAATAAAATAAGTGCTACCTATTACGTTAAACTACCTACCAGTTTGTTTAAAGGTATA
19015 TTAATAATGT
Statistics
Matches: 237, Mismatches: 19, Indels: 10
0.89 0.07 0.04
Matches are distributed among these distances:
99 4 0.02
100 231 0.97
101 2 0.01
ACGTcount: A:0.40, C:0.14, G:0.13, T:0.34
Consensus pattern (99 bp):
TTAAAATAAAATAAGTGCTACCTATTACGTTAAACTACCTACCAGTTTGTTTAAAGGTATAATAT
CAATATAAATGGTAAACTATTTACAACTTAACGG
Found at i:19096 original size:76 final size:76
Alignment explanation
Indices: 18955--19113 Score: 192
Period size: 76 Copynumber: 2.1 Consensus size: 76
18945 CTTAACATGT
** * ** * * * *
18955 TAAAATAAAATAGGTGCCACCTATTACGTTAAGCTAGTTACCGGTTTGTTTAATGGTATATTAAT
1 TAAAATAAAATAGACGCCACCTATTACGTTAAACTACCTACCGATTTGTTAAAAGGTATAATAAT
19020 AATGTAAACAG
66 AATGTAAACAG
* * *
19031 TAAAATAAAATATACGCTACCTATTACGTTAAACTACCTACCGATTTGTTAAAAGGTGTAATAAT
1 TAAAATAAAATAGACGCCACCTATTACGTTAAACTACCTACCGATTTGTTAAAAGGTATAATAAT
**
19096 AATGTAAATGG
66 AATGTAAACAG
19107 TAAAATA
1 TAAAATA
19114 TTTACAACTT
Statistics
Matches: 69, Mismatches: 14, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
76 69 1.00
ACGTcount: A:0.41, C:0.12, G:0.14, T:0.33
Consensus pattern (76 bp):
TAAAATAAAATAGACGCCACCTATTACGTTAAACTACCTACCGATTTGTTAAAAGGTATAATAAT
AATGTAAACAG
Found at i:19695 original size:13 final size:13
Alignment explanation
Indices: 19677--19731 Score: 55
Period size: 13 Copynumber: 4.5 Consensus size: 13
19667 GTTTTTGAAA
19677 AAAATAGAAAAAT
1 AAAATAGAAAAAT
*
19690 AAAATAGAGAAA-
1 AAAATAGAAAAAT
19702 AAAAT---AAAAT
1 AAAATAGAAAAAT
*
19712 AAAATTGAAAAAT
1 AAAATAGAAAAAT
19725 AAGAATA
1 AA-AATA
19732 AGGATGAGGA
Statistics
Matches: 34, Mismatches: 3, Indels: 9
0.74 0.07 0.20
Matches are distributed among these distances:
9 3 0.09
10 5 0.15
12 5 0.15
13 18 0.53
14 3 0.09
ACGTcount: A:0.75, C:0.00, G:0.09, T:0.16
Consensus pattern (13 bp):
AAAATAGAAAAAT
Found at i:20735 original size:12 final size:12
Alignment explanation
Indices: 20718--20748 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
20708 GTAAATATGT
*
20718 TATTATTATTAG
1 TATTATTATTAC
20730 TATTATTATTAC
1 TATTATTATTAC
20742 TATTATT
1 TATTATT
20749 TTTATAAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.32, C:0.03, G:0.03, T:0.61
Consensus pattern (12 bp):
TATTATTATTAC
Found at i:22739 original size:105 final size:107
Alignment explanation
Indices: 22553--22914 Score: 392
Period size: 108 Copynumber: 3.4 Consensus size: 107
22543 GTTAATATTT
* * * * * * * * *
22553 ATATTTATAACAAAATAAGTATATAAACGTATTTTGTTGTCATGGGATTTCGATGGCCACATCAG
1 ATATTAATAACAAAATAAGTA-ATTAACCTATTTTGTTATCGTCGGATTTCTAAGGCCCCATCAG
* *
22618 CTTCAAA-TTTGGTAACATTTTAGGCGCTACCTAATATG-T-TA
65 -TTTAAACTTTGATAACATTTTAGGCGCTACCTAATATGTTATA
*
22659 ATATTAATAACAAATTAAGTAATTAACCTATTTTGTTATCGTCGGATTTCTAAGGCCCCGA-CAG
1 ATATTAATAACAAAATAAGTAATTAACCTATTTTGTTATCGTCGGATTTCTAAGGCCCC-ATCAG
*
22723 TTTAAACTTTGATAACATTTTATGCGCTACCTAATATGTTGATA
65 TTTAAACTTTGATAACATTTTAGGCGCTACCTAATATGTT-ATA
* * * * ** ** **
22767 ATATTAATAAAAAAACAAATAATTAACCTATTTTATTATCGTCAAATTTCTAAGGTTCCATCAAC
1 ATATTAATAACAAAATAAGTAATTAACCTATTTTGTTATCGTCGGATTTCTAAGGCCCCATCAGT
* *
22832 TTAAACTTT-AGTAACATTTTAGTCACTACCTAATATGTTGATA
66 TTAAACTTTGA-TAACATTTTAGGCGCTACCTAATATGTT-ATA
* *
22875 ATATTAATAACAAATTAAGTAATTCACCTATTTTGTTATC
1 ATATTAATAACAAAATAAGTAATTAACCTATTTTGTTATC
22915 ATTTAATTTC
Statistics
Matches: 216, Mismatches: 33, Indels: 12
0.83 0.13 0.05
Matches are distributed among these distances:
104 5 0.02
105 62 0.29
106 21 0.10
107 2 0.01
108 126 0.58
ACGTcount: A:0.36, C:0.15, G:0.11, T:0.38
Consensus pattern (107 bp):
ATATTAATAACAAAATAAGTAATTAACCTATTTTGTTATCGTCGGATTTCTAAGGCCCCATCAGT
TTAAACTTTGATAACATTTTAGGCGCTACCTAATATGTTATA
Found at i:23277 original size:3 final size:3
Alignment explanation
Indices: 23262--23317 Score: 103
Period size: 3 Copynumber: 18.7 Consensus size: 3
23252 TGTAGTACAA
*
23262 AAT AAT GAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
23310 AAT AAT AA
1 AAT AAT AA
23318 AATGGGAGGA
Statistics
Matches: 51, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
3 51 1.00
ACGTcount: A:0.66, C:0.00, G:0.02, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:24683 original size:19 final size:19
Alignment explanation
Indices: 24659--24698 Score: 80
Period size: 19 Copynumber: 2.1 Consensus size: 19
24649 TTGTATGAGA
24659 TTGATAATTTAGTTCAACT
1 TTGATAATTTAGTTCAACT
24678 TTGATAATTTAGTTCAACT
1 TTGATAATTTAGTTCAACT
24697 TT
1 TT
24699 TTTTTTTGTT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.30, C:0.10, G:0.10, T:0.50
Consensus pattern (19 bp):
TTGATAATTTAGTTCAACT
Found at i:31205 original size:18 final size:18
Alignment explanation
Indices: 31182--31261 Score: 85
Period size: 18 Copynumber: 4.4 Consensus size: 18
31172 CGGTCACAAA
31182 CCGACCCGACCCGTTGAC
1 CCGACCCGACCCGTTGAC
31200 CCGACCCGACCC---GAC
1 CCGACCCGACCCGTTGAC
* *
31215 CCGTTTACACGACCCGTTTAC
1 CCG---ACCCGACCCGTTGAC
*
31236 CCGACCCGACCTGTTGAC
1 CCGACCCGACCCGTTGAC
31254 CCGACCCG
1 CCGACCCG
31262 TTGGCCGTTG
Statistics
Matches: 51, Mismatches: 5, Indels: 12
0.75 0.07 0.18
Matches are distributed among these distances:
15 6 0.12
18 40 0.78
21 5 0.10
ACGTcount: A:0.17, C:0.49, G:0.20, T:0.14
Consensus pattern (18 bp):
CCGACCCGACCCGTTGAC
Found at i:31208 original size:23 final size:23
Alignment explanation
Indices: 31182--31230 Score: 80
Period size: 23 Copynumber: 2.1 Consensus size: 23
31172 CGGTCACAAA
*
31182 CCGACCCGACCCGTTGACCCGAC
1 CCGACCCGACCCGTTGACACGAC
*
31205 CCGACCCGACCCGTTTACACGAC
1 CCGACCCGACCCGTTGACACGAC
31228 CCG
1 CCG
31231 TTTACCCGAC
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.18, C:0.51, G:0.20, T:0.10
Consensus pattern (23 bp):
CCGACCCGACCCGTTGACACGAC
Found at i:31241 original size:31 final size:31
Alignment explanation
Indices: 31203--31263 Score: 95
Period size: 31 Copynumber: 2.0 Consensus size: 31
31193 CGTTGACCCG
*
31203 ACCCGACCCGACCCGTTTACACGACCCGTTT
1 ACCCGACCCGACCCGTTGACACGACCCGTTT
* *
31234 ACCCGACCCGACCTGTTGACCCGACCCGTT
1 ACCCGACCCGACCCGTTGACACGACCCGTT
31264 GGCCGTTGAC
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 27 1.00
ACGTcount: A:0.18, C:0.46, G:0.18, T:0.18
Consensus pattern (31 bp):
ACCCGACCCGACCCGTTGACACGACCCGTTT
Found at i:31264 original size:13 final size:13
Alignment explanation
Indices: 31184--31243 Score: 72
Period size: 13 Copynumber: 4.8 Consensus size: 13
31174 GTCACAAACC
31184 GACCCGACCCGTT
1 GACCCGACCCGTT
31197 GACCCGACCC---
1 GACCCGACCCGTT
31207 GACCCGACCCGTT
1 GACCCGACCCGTT
* *
31220 TACACGACCCGTT
1 GACCCGACCCGTT
*
31233 TACCCGACCCG
1 GACCCGACCCG
31244 ACCTGTTGAC
Statistics
Matches: 41, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
10 10 0.24
13 31 0.76
ACGTcount: A:0.18, C:0.48, G:0.20, T:0.13
Consensus pattern (13 bp):
GACCCGACCCGTT
Found at i:32618 original size:18 final size:18
Alignment explanation
Indices: 32592--32627 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
32582 TCGAAAGAAC
*
32592 TGAAGTAAATGATAAGAT
1 TGAAGTAAATAATAAGAT
*
32610 TGAATTAAATAATAAGAT
1 TGAAGTAAATAATAAGAT
32628 CGGATGGAAG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.53, C:0.00, G:0.17, T:0.31
Consensus pattern (18 bp):
TGAAGTAAATAATAAGAT
Found at i:33769 original size:48 final size:48
Alignment explanation
Indices: 33717--33846 Score: 149
Period size: 48 Copynumber: 2.8 Consensus size: 48
33707 AATATTTTAC
* *
33717 CTGATTTTTGATTTGATTTCTGATCTGATACTTGACATGGATTCTGAT
1 CTGATTTCTGAATTGATTTCTGATCTGATACTTGACATGGATTCTGAT
* * *
33765 CTGATATCTGACATGGATTT-TGATCTGATACTTGACTTGGATTCTGAT
1 CTGATTTCTGA-ATTGATTTCTGATCTGATACTTGACATGGATTCTGAT
* ** *
33813 CTG--TACTGACCTGATTTCTGATATGATACTTGAC
1 CTGATTTCTGAATTGATTTCTGATCTGATACTTGAC
33847 CTGATTTATG
Statistics
Matches: 69, Mismatches: 11, Indels: 6
0.80 0.13 0.07
Matches are distributed among these distances:
45 5 0.07
46 19 0.28
48 39 0.57
49 6 0.09
ACGTcount: A:0.22, C:0.15, G:0.19, T:0.43
Consensus pattern (48 bp):
CTGATTTCTGAATTGATTTCTGATCTGATACTTGACATGGATTCTGAT
Found at i:33853 original size:24 final size:25
Alignment explanation
Indices: 33731--33846 Score: 147
Period size: 24 Copynumber: 4.9 Consensus size: 25
33721 TTTTTGATTT
33731 GATTTCTGATCTGATACTTGACATG
1 GATTTCTGATCTGATACTTGACATG
33756 GA-TTCTGATCTGATA-TCTGACATG
1 GATTTCTGATCTGATACT-TGACATG
*
33780 GATTT-TGATCTGATACTTGACTTG
1 GATTTCTGATCTGATACTTGACATG
*
33804 GA-TTCTGATCTG-TAC-TGACCT-
1 GATTTCTGATCTGATACTTGACATG
*
33825 GATTTCTGATATGATACTTGAC
1 GATTTCTGATCTGATACTTGAC
33847 CTGATTTATG
Statistics
Matches: 81, Mismatches: 3, Indels: 15
0.82 0.03 0.15
Matches are distributed among these distances:
21 2 0.02
22 14 0.17
23 9 0.11
24 51 0.63
25 5 0.06
ACGTcount: A:0.23, C:0.16, G:0.20, T:0.41
Consensus pattern (25 bp):
GATTTCTGATCTGATACTTGACATG
Found at i:36088 original size:31 final size:31
Alignment explanation
Indices: 36050--36110 Score: 95
Period size: 31 Copynumber: 2.0 Consensus size: 31
36040 CCGTGACCCG
*
36050 ACCCGACCCGACCCGTTTACACGACCCGTTT
1 ACCCGACCCGACCCGTTGACACGACCCGTTT
* *
36081 ACCCGACCCGACCTGTTGACCCGACCCGTT
1 ACCCGACCCGACCCGTTGACACGACCCGTT
36111 GGCCGTTGAC
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 27 1.00
ACGTcount: A:0.18, C:0.46, G:0.18, T:0.18
Consensus pattern (31 bp):
ACCCGACCCGACCCGTTGACACGACCCGTTT
Found at i:36092 original size:18 final size:18
Alignment explanation
Indices: 36050--36108 Score: 65
Period size: 18 Copynumber: 3.6 Consensus size: 18
36040 CCGTGACCCG
36050 ACCCGACCCGACCCGTTT
1 ACCCGACCCGACCCGTTT
36068 A--C-A--CGACCCGTTT
1 ACCCGACCCGACCCGTTT
* *
36081 ACCCGACCCGACCTGTTG
1 ACCCGACCCGACCCGTTT
36099 ACCCGACCCG
1 ACCCGACCCG
36109 TTGGCCGTTG
Statistics
Matches: 34, Mismatches: 2, Indels: 10
0.74 0.04 0.22
Matches are distributed among these distances:
13 11 0.32
15 2 0.06
16 2 0.06
18 19 0.56
ACGTcount: A:0.19, C:0.47, G:0.19, T:0.15
Consensus pattern (18 bp):
ACCCGACCCGACCCGTTT
Found at i:36101 original size:13 final size:13
Alignment explanation
Indices: 36035--36131 Score: 58
Period size: 13 Copynumber: 7.2 Consensus size: 13
36025 CACAAACCGA
36035 CCGACCCG-TGAC
1 CCGACCCGTTGAC
36047 CCGACCC---GAC
1 CCGACCCGTTGAC
*
36057 CCGACCCGTTTAC
1 CCGACCCGTTGAC
*
36070 ACGACCCGTTTACCCGAC
1 CCGACCCG-TT----GAC
*
36088 CCGACCTGTTGAC
1 CCGACCCGTTGAC
*
36101 CCGACCCGTTGGC
1 CCGACCCGTTGAC
*
36114 CGTTGACCCGTTGAC
1 C--CGACCCGTTGAC
36129 CCG
1 CCG
36132 TTGACCGGAG
Statistics
Matches: 65, Mismatches: 10, Indels: 19
0.69 0.11 0.20
Matches are distributed among these distances:
10 10 0.15
12 7 0.11
13 25 0.38
14 2 0.03
15 11 0.17
17 2 0.03
18 8 0.12
ACGTcount: A:0.15, C:0.45, G:0.23, T:0.16
Consensus pattern (13 bp):
CCGACCCGTTGAC
Found at i:36123 original size:15 final size:16
Alignment explanation
Indices: 36103--36137 Score: 54
Period size: 15 Copynumber: 2.2 Consensus size: 16
36093 CTGTTGACCC
*
36103 GACCCGTTG-GCCGTT
1 GACCCGTTGACCCGTT
36118 GACCCGTTGACCCGTT
1 GACCCGTTGACCCGTT
36134 GACC
1 GACC
36138 GGAGTTGACC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 9 0.50
16 9 0.50
ACGTcount: A:0.11, C:0.37, G:0.29, T:0.23
Consensus pattern (16 bp):
GACCCGTTGACCCGTT
Found at i:36126 original size:8 final size:8
Alignment explanation
Indices: 36103--36137 Score: 54
Period size: 8 Copynumber: 4.5 Consensus size: 8
36093 CTGTTGACCC
36103 GACCCGTT
1 GACCCGTT
*
36111 G-GCCGTT
1 GACCCGTT
36118 GACCCGTT
1 GACCCGTT
36126 GACCCGTT
1 GACCCGTT
36134 GACC
1 GACC
36138 GGAGTTGACC
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
7 6 0.25
8 18 0.75
ACGTcount: A:0.11, C:0.37, G:0.29, T:0.23
Consensus pattern (8 bp):
GACCCGTT
Found at i:37474 original size:18 final size:18
Alignment explanation
Indices: 37448--37483 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
37438 TCGAAAGAAC
*
37448 TGAAGTAAATGATAAGAT
1 TGAAGTAAATAATAAGAT
*
37466 TGAATTAAATAATAAGAT
1 TGAAGTAAATAATAAGAT
37484 CGGATGGAAG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.53, C:0.00, G:0.17, T:0.31
Consensus pattern (18 bp):
TGAAGTAAATAATAAGAT
Found at i:38629 original size:48 final size:48
Alignment explanation
Indices: 38577--38708 Score: 151
Period size: 48 Copynumber: 2.8 Consensus size: 48
38567 AATATTTTAC
*
38577 CTGATTTTTGATTTGATTTCTGATCTGATACTTGACATGGATTCTGAT
1 CTGATTTTTGAATTGATTTCTGATCTGATACTTGACATGGATTCTGAT
* * * *
38625 CTGATATCTGACATGGATTT-TGATCTGATACTTGACTTGGATTCTGAT
1 CTGATTTTTGA-ATTGATTTCTGATCTGATACTTGACATGGATTCTGAT
* ** *
38673 CTG-TTACTTGACCTGATTTCTGATATGATACTTGAC
1 CTGATT-TTTGAATTGATTTCTGATCTGATACTTGAC
38709 CTGATTTATG
Statistics
Matches: 69, Mismatches: 12, Indels: 6
0.79 0.14 0.07
Matches are distributed among these distances:
47 6 0.09
48 57 0.83
49 6 0.09
ACGTcount: A:0.22, C:0.15, G:0.19, T:0.44
Consensus pattern (48 bp):
CTGATTTTTGAATTGATTTCTGATCTGATACTTGACATGGATTCTGAT
Found at i:38715 original size:24 final size:25
Alignment explanation
Indices: 38591--38708 Score: 156
Period size: 24 Copynumber: 4.9 Consensus size: 25
38581 TTTTTGATTT
38591 GATTTCTGATCTGATACTTGACATG
1 GATTTCTGATCTGATACTTGACATG
38616 GA-TTCTGATCTGATA-TCTGACATG
1 GATTTCTGATCTGATACT-TGACATG
*
38640 GATTT-TGATCTGATACTTGACTTG
1 GATTTCTGATCTGATACTTGACATG
* *
38664 GA-TTCTGATCTGTTACTTGACCT-
1 GATTTCTGATCTGATACTTGACATG
*
38687 GATTTCTGATATGATACTTGAC
1 GATTTCTGATCTGATACTTGAC
38709 CTGATTTATG
Statistics
Matches: 83, Mismatches: 5, Indels: 11
0.84 0.05 0.11
Matches are distributed among these distances:
23 5 0.06
24 73 0.88
25 5 0.06
ACGTcount: A:0.23, C:0.16, G:0.19, T:0.42
Consensus pattern (25 bp):
GATTTCTGATCTGATACTTGACATG
Found at i:40029 original size:3 final size:3
Alignment explanation
Indices: 40023--40051 Score: 51
Period size: 3 Copynumber: 10.0 Consensus size: 3
40013 AAAAAAAATG
40023 TAA TAA TAA TAA TAA TAA TAA TAA -AA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
40052 CGATAAAAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
2 2 0.08
3 23 0.92
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
TAA
Found at i:40395 original size:43 final size:43
Alignment explanation
Indices: 40244--40505 Score: 126
Period size: 40 Copynumber: 6.1 Consensus size: 43
40234 GTTCTGGTCG
* * * * *
40244 TCTAAGGGTGACATGGTTCCTACGTGATGAGGAAATCTGG---
1 TCTAAGGTTGACACGGCTCCTACGTGATGAGGAGAGCTGGTTA
* * * * * ** **
40284 TCGAGGGTTGACACTGCTCATACGTGATGAAGAGTTCTTGGCCA
1 TCTAAGGTTGACACGGCTCCTACGTGATGAGGAGAGC-TGGTTA
* *
40328 TCTTAAGGTGATAACACGGTTCCTACGTGATGAGGACG-GCTGGTTA
1 TC-TAAGGT--TGACACGGCTCCTACGTGATGAGGA-GAGCTGGTTA
* *
40374 TCTATGGTTGACACGGCTCCTACGTGATGAGGAGATCTGG---
1 TCTAAGGTTGACACGGCTCCTACGTGATGAGGAGAGCTGGTTA
** * * * ** **
40414 TCTGGGGATGACACGGCTCATACGTGATGAAGAGTTCTGGCCA
1 TCTAAGGTTGACACGGCTCCTACGTGATGAGGAGAGCTGGTTA
* *
40457 TCTAAAGGTGATAACACGGTTCCTACGTGATGAGGACG-GCTGGTTA
1 TCT-AAGGT--TGACACGGCTCCTACGTGATGAGGA-GAGCTGGTTA
40503 TCT
1 TCT
40506 CTAGGGATAA
Statistics
Matches: 166, Mismatches: 40, Indels: 26
0.72 0.17 0.11
Matches are distributed among these distances:
40 61 0.37
41 3 0.02
42 1 0.01
43 30 0.18
44 4 0.02
45 9 0.05
46 35 0.21
47 22 0.13
48 1 0.01
ACGTcount: A:0.23, C:0.19, G:0.31, T:0.27
Consensus pattern (43 bp):
TCTAAGGTTGACACGGCTCCTACGTGATGAGGAGAGCTGGTTA
Found at i:40864 original size:15 final size:15
Alignment explanation
Indices: 40840--40883 Score: 70
Period size: 15 Copynumber: 2.9 Consensus size: 15
40830 AAGATGATCT
*
40840 TGTTTTAAGAGAAAA
1 TGTTTCAAGAGAAAA
40855 TGTTTCAAGAGAAAA
1 TGTTTCAAGAGAAAA
*
40870 TGTTTCAAGTGAAA
1 TGTTTCAAGAGAAA
40884 CGACTCAAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 27 1.00
ACGTcount: A:0.43, C:0.05, G:0.20, T:0.32
Consensus pattern (15 bp):
TGTTTCAAGAGAAAA
Found at i:40936 original size:31 final size:30
Alignment explanation
Indices: 40872--40946 Score: 80
Period size: 31 Copynumber: 2.4 Consensus size: 30
40862 AGAGAAAATG
*
40872 TTTCAAGTGAAACGACTCAAAAATGGTTTTA
1 TTTCAAGTGAAACAACTCAAAAAT-GTTTTA
*
40903 TTTCAAGTGAAACAAGCTCAAAGAT-TTTGTA
1 TTTCAAGTGAAACAA-CTCAAAAATGTTT-TA
* *
40934 TTTCTAGAGAAAC
1 TTTCAAGTGAAAC
40947 TGCCTCAAGG
Statistics
Matches: 38, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
30 3 0.08
31 27 0.71
32 8 0.21
ACGTcount: A:0.39, C:0.13, G:0.16, T:0.32
Consensus pattern (30 bp):
TTTCAAGTGAAACAACTCAAAAATGTTTTA
Found at i:41067 original size:28 final size:29
Alignment explanation
Indices: 41026--41090 Score: 91
Period size: 28 Copynumber: 2.3 Consensus size: 29
41016 TCTCGAGAGA
41026 CAAA-ATTTTGTTTC-AAAGGAAACAAACT
1 CAAAGATTTTGTTTCAAAAGG-AACAAACT
*
41054 CAAAGATTTT-TTTCAAAAGGAACAGACT
1 CAAAGATTTTGTTTCAAAAGGAACAAACT
41082 CAAAGATTT
1 CAAAGATTT
41091 ATCTCAAGAG
Statistics
Matches: 34, Mismatches: 1, Indels: 4
0.87 0.03 0.10
Matches are distributed among these distances:
28 24 0.71
29 10 0.29
ACGTcount: A:0.45, C:0.14, G:0.12, T:0.29
Consensus pattern (29 bp):
CAAAGATTTTGTTTCAAAAGGAACAAACT
Found at i:41097 original size:28 final size:29
Alignment explanation
Indices: 41040--41097 Score: 82
Period size: 28 Copynumber: 2.0 Consensus size: 29
41030 ATTTTGTTTC
* *
41040 AAAGGAAACAAACTCAAAGATTTTTTTCA
1 AAAGGAAACAAACTCAAAGATTTATCTCA
*
41069 AAAGG-AACAGACTCAAAGATTTATCTCA
1 AAAGGAAACAAACTCAAAGATTTATCTCA
41097 A
1 A
41098 GAGAAACTGT
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
28 21 0.81
29 5 0.19
ACGTcount: A:0.48, C:0.16, G:0.12, T:0.24
Consensus pattern (29 bp):
AAAGGAAACAAACTCAAAGATTTATCTCA
Found at i:41775 original size:4 final size:4
Alignment explanation
Indices: 41759--41804 Score: 62
Period size: 4 Copynumber: 12.2 Consensus size: 4
41749 ATGCAAATTT
*
41759 TATG TAT- TATG TATG TATG --TG TATA TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
41804 T
1 T
41805 TTTCTCGATC
Statistics
Matches: 37, Mismatches: 2, Indels: 6
0.82 0.04 0.13
Matches are distributed among these distances:
2 2 0.05
3 3 0.08
4 32 0.86
ACGTcount: A:0.26, C:0.00, G:0.22, T:0.52
Consensus pattern (4 bp):
TATG
Found at i:41789 original size:18 final size:17
Alignment explanation
Indices: 41761--41796 Score: 63
Period size: 18 Copynumber: 2.1 Consensus size: 17
41751 GCAAATTTTA
41761 TGTATTATGTATGTATG
1 TGTATTATGTATGTATG
41778 TGTATATATGTATGTATG
1 TGTAT-TATGTATGTATG
41796 T
1 T
41797 ATGTATGTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
17 5 0.28
18 13 0.72
ACGTcount: A:0.25, C:0.00, G:0.22, T:0.53
Consensus pattern (17 bp):
TGTATTATGTATGTATG
Found at i:49387 original size:3 final size:3
Alignment explanation
Indices: 49381--49422 Score: 63
Period size: 3 Copynumber: 15.0 Consensus size: 3
49371 AAAAAAAATG
49381 TAA TAA TAA TAA TAA -AA -AA TAA TAA TAA TAA TAA TAA -AA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
49423 CGATAAAAAA
Statistics
Matches: 37, Mismatches: 0, Indels: 4
0.90 0.00 0.10
Matches are distributed among these distances:
2 6 0.16
3 31 0.84
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (3 bp):
TAA
Found at i:49406 original size:22 final size:21
Alignment explanation
Indices: 49373--49419 Score: 76
Period size: 22 Copynumber: 2.2 Consensus size: 21
49363 TGCAAAAAAA
*
49373 AAAAAATGTAATAATAATAAT
1 AAAAAATATAATAATAATAAT
49394 AAAAAATAATAATAATAATAAT
1 AAAAAAT-ATAATAATAATAAT
49416 AAAA
1 AAAA
49420 TAACGATAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
21 7 0.29
22 17 0.71
ACGTcount: A:0.72, C:0.00, G:0.02, T:0.26
Consensus pattern (21 bp):
AAAAAATATAATAATAATAAT
Found at i:52103 original size:16 final size:17
Alignment explanation
Indices: 52084--52136 Score: 58
Period size: 16 Copynumber: 3.2 Consensus size: 17
52074 ATTTAAGGTA
52084 AAATAT-ATTAAATAAT
1 AAATATAATTAAATAAT
*
52100 AAATATAATTATAT-AT
1 AAATATAATTAAATAAT
*
52116 AACTATAATTTAAA-AAT
1 AAATATAA-TTAAATAAT
52133 AAAT
1 AAAT
52137 TTGGGGCTAA
Statistics
Matches: 30, Mismatches: 4, Indels: 5
0.77 0.10 0.13
Matches are distributed among these distances:
16 15 0.50
17 15 0.50
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.38
Consensus pattern (17 bp):
AAATATAATTAAATAAT
Found at i:52601 original size:10 final size:10
Alignment explanation
Indices: 52582--52615 Score: 59
Period size: 10 Copynumber: 3.4 Consensus size: 10
52572 AATTGGAGGT
52582 TTTTTTCCGG
1 TTTTTTCCGG
*
52592 TTTTTCCCGG
1 TTTTTTCCGG
52602 TTTTTTCCGG
1 TTTTTTCCGG
52612 TTTT
1 TTTT
52616 CAGCCGGTCT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
10 22 1.00
ACGTcount: A:0.00, C:0.21, G:0.18, T:0.62
Consensus pattern (10 bp):
TTTTTTCCGG
Found at i:52974 original size:41 final size:42
Alignment explanation
Indices: 52905--53040 Score: 195
Period size: 41 Copynumber: 3.3 Consensus size: 42
52895 TATTGTAGTG
* * * *
52905 TTTGTATAAAAACGCCACTAAAGTACTACTTTGTCATGGCGT
1 TTTGTATAAAAACACCGCTAAAGTACTACTCTGTCGTGGCGT
*
52947 TTTGTATAAAAA-ACCGCTAAAGTACTACTCTGTCGTGACG-
1 TTTGTATAAAAACACCGCTAAAGTACTACTCTGTCGTGGCGT
* *
52987 TTTGTATAAAAACACCGCTAAAATACTACTCTATCGTGGCGT
1 TTTGTATAAAAACACCGCTAAAGTACTACTCTGTCGTGGCGT
53029 TTTGTATAAAAA
1 TTTGTATAAAAA
53041 TATCGTTAAA
Statistics
Matches: 84, Mismatches: 8, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
40 12 0.14
41 48 0.57
42 24 0.29
ACGTcount: A:0.34, C:0.18, G:0.15, T:0.32
Consensus pattern (42 bp):
TTTGTATAAAAACACCGCTAAAGTACTACTCTGTCGTGGCGT
Found at i:56905 original size:95 final size:95
Alignment explanation
Indices: 56764--56968 Score: 263
Period size: 95 Copynumber: 2.2 Consensus size: 95
56754 ATTCAATCAA
56764 TATCGATACCGA-AG-A-GGTAGTATCGATACCATGATAAGGGTATCGATACCAAGCAACATCGA
1 TATCGATACC-ATAGTATGGTAGTATCGATACCATGATAAGGGTATCGATACCAAGCAACATCGA
* * * **
56826 ATCTAAAATGGGTATCGTTACTGGAAGGGGG
65 ACCTAAAATGAGTATCGATACCAGAAGGGGG
* * * * *
56857 TATCGGTACCATAGTATGGTAGTATTGATACCATTATAAGGGTATCGATACTAGGCAACATCGAA
1 TATCGATACCATAGTATGGTAGTATCGATACCATGATAAGGGTATCGATACCAAGCAACATCGAA
* *
56922 CCTAAAATTAGTATCGATACCAGAATGGGG
66 CCTAAAATGAGTATCGATACCAGAAGGGGG
*
56952 TATCGATGCCATAGTAT
1 TATCGATACCATAGTAT
56969 AAAAGTATCG
Statistics
Matches: 95, Mismatches: 14, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
92 1 0.01
93 11 0.12
94 1 0.01
95 82 0.86
ACGTcount: A:0.34, C:0.16, G:0.24, T:0.26
Consensus pattern (95 bp):
TATCGATACCATAGTATGGTAGTATCGATACCATGATAAGGGTATCGATACCAAGCAACATCGAA
CCTAAAATGAGTATCGATACCAGAAGGGGG
Found at i:57386 original size:59 final size:59
Alignment explanation
Indices: 57331--57819 Score: 773
Period size: 59 Copynumber: 8.3 Consensus size: 59
57321 ATGGCACTAA
* *
57331 GTGTGCTAAAATGTTAAGGAATTCATACTAAGAGTATGAATTTCCGTATAGGGCACTTA
1 GTGTGCTAAAATGTTAAGGAATTCATACTAAGTGTATGAATTTCCGTATAGGGCACTTC
* *
57390 GTGTGCTAAAATGTTAAGGAATTCATACTAAGTGTATGAATTTCCATATAGGGCACTTT
1 GTGTGCTAAAATGTTAAGGAATTCATACTAAGTGTATGAATTTCCGTATAGGGCACTTC
* *
57449 GTGTGCTAAAATGTTAAGGAATTCATACTAAGTGTATGAATTTTCGTATAGGGCA-GTC
1 GTGTGCTAAAATGTTAAGGAATTCATACTAAGTGTATGAATTTCCGTATAGGGCACTTC
*
57507 GTGTGCTAAAATGTTAAGAAATTCATACTAAGTGTATGAATTTCCGTATAGGGCACTTC
1 GTGTGCTAAAATGTTAAGGAATTCATACTAAGTGTATGAATTTCCGTATAGGGCACTTC
* * *
57566 GTGTGCTAAAATGTTAAGGAATTCATACTAAGTGTATAAATTTCCATATAGGGCACTTA
1 GTGTGCTAAAATGTTAAGGAATTCATACTAAGTGTATGAATTTCCGTATAGGGCACTTC
* * ** *
57625 GTGTGCTAAAATGTTAAGGAATTCATACTAAGTGTATGAATTTTCGTATAAGTTACTTT
1 GTGTGCTAAAATGTTAAGGAATTCATACTAAGTGTATGAATTTCCGTATAGGGCACTTC
* * * * *
57684 GTGTGCTAAAATGTTAAGGAATTCACACTAAGTGTATGAATTTTCGTAAAGGGCAATAC
1 GTGTGCTAAAATGTTAAGGAATTCATACTAAGTGTATGAATTTCCGTATAGGGCACTTC
*
57743 GTGTTCTAAAATGTTAAGGAATTCATACTAAGTGTATGAATTTCCGTATAGGGCACTTC
1 GTGTGCTAAAATGTTAAGGAATTCATACTAAGTGTATGAATTTCCGTATAGGGCACTTC
*
57802 GTGTGCAAAAATGTTAAG
1 GTGTGCTAAAATGTTAAG
57820 AAATGGTTGA
Statistics
Matches: 392, Mismatches: 37, Indels: 2
0.91 0.09 0.00
Matches are distributed among these distances:
58 54 0.14
59 338 0.86
ACGTcount: A:0.33, C:0.11, G:0.21, T:0.34
Consensus pattern (59 bp):
GTGTGCTAAAATGTTAAGGAATTCATACTAAGTGTATGAATTTCCGTATAGGGCACTTC
Found at i:57631 original size:176 final size:177
Alignment explanation
Indices: 57331--57819 Score: 800
Period size: 176 Copynumber: 2.8 Consensus size: 177
57321 ATGGCACTAA
* *
57331 GTGTGCTAAAATGTTAAGGAATTCATACTAAGAGTATGAATTTCCGTATAGGGCACTTAGTGTGC
1 GTGTGCTAAAATGTTAAGGAATTCATACTAAGTGTATGAATTTCCGTATAGGGCACTTCGTGTGC
*
57396 TAAAATGTTAAGGAATTCATACTAAGTGTATGAATTTCCATATAGGGCACTTTGTGTGCTAAAAT
66 TAAAATGTTAAGGAATTCATACTAAGTGTATGAATTTCCATATAGGGCACTTAGTGTGCTAAAAT
*
57461 GTTAAGGAATTCATACTAAGTGTATGAATTTTCGTATAGGGCA-GTC
131 GTTAAGGAATTCATACTAAGTGTATGAATTTTCGTATAAGGCACGTC
*
57507 GTGTGCTAAAATGTTAAGAAATTCATACTAAGTGTATGAATTTCCGTATAGGGCACTTCGTGTGC
1 GTGTGCTAAAATGTTAAGGAATTCATACTAAGTGTATGAATTTCCGTATAGGGCACTTCGTGTGC
*
57572 TAAAATGTTAAGGAATTCATACTAAGTGTATAAATTTCCATATAGGGCACTTAGTGTGCTAAAAT
66 TAAAATGTTAAGGAATTCATACTAAGTGTATGAATTTCCATATAGGGCACTTAGTGTGCTAAAAT
** * *
57637 GTTAAGGAATTCATACTAAGTGTATGAATTTTCGTATAAGTTACTTT
131 GTTAAGGAATTCATACTAAGTGTATGAATTTTCGTATAAGGCACGTC
* * * * * *
57684 GTGTGCTAAAATGTTAAGGAATTCACACTAAGTGTATGAATTTTCGTAAAGGGCAATACGTGTTC
1 GTGTGCTAAAATGTTAAGGAATTCATACTAAGTGTATGAATTTCCGTATAGGGCACTTCGTGTGC
* * *
57749 TAAAATGTTAAGGAATTCATACTAAGTGTATGAATTTCCGTATAGGGCACTTCGTGTGCAAAAAT
66 TAAAATGTTAAGGAATTCATACTAAGTGTATGAATTTCCATATAGGGCACTTAGTGTGCTAAAAT
57814 GTTAAG
131 GTTAAG
57820 AAATGGTTGA
Statistics
Matches: 291, Mismatches: 21, Indels: 1
0.93 0.07 0.00
Matches are distributed among these distances:
176 165 0.57
177 126 0.43
ACGTcount: A:0.33, C:0.11, G:0.21, T:0.34
Consensus pattern (177 bp):
GTGTGCTAAAATGTTAAGGAATTCATACTAAGTGTATGAATTTCCGTATAGGGCACTTCGTGTGC
TAAAATGTTAAGGAATTCATACTAAGTGTATGAATTTCCATATAGGGCACTTAGTGTGCTAAAAT
GTTAAGGAATTCATACTAAGTGTATGAATTTTCGTATAAGGCACGTC
Found at i:58167 original size:59 final size:59
Alignment explanation
Indices: 58093--58397 Score: 448
Period size: 59 Copynumber: 5.2 Consensus size: 59
58083 AATGGTTGAG
*
58093 AAATGTTAAGAAATTCATACTAAGTGTATGAATTTCCGTATAGGGCACTTCGTGTGCTA
1 AAATGTTAAGGAATTCATACTAAGTGTATGAATTTCCGTATAGGGCACTTCGTGTGCTA
* * * * *
58152 AAATGTTAAGGAATTCATACCAAGTGTATAAATTTCCATATAGGACACTTAGTGTGCTA
1 AAATGTTAAGGAATTCATACTAAGTGTATGAATTTCCGTATAGGGCACTTCGTGTGCTA
* * ** *
58211 AAATGTTAAGGAATTCATACTAAGTGTATGAATTTTCGTATAAGTTACTTTGTGTGCTA
1 AAATGTTAAGGAATTCATACTAAGTGTATGAATTTCCGTATAGGGCACTTCGTGTGCTA
* * * * *
58270 AAATGTTAAGGAATTCACACTAAGTGTATGATTTTTCGTAAAGGGCAATTCGTGTGCTA
1 AAATGTTAAGGAATTCATACTAAGTGTATGAATTTCCGTATAGGGCACTTCGTGTGCTA
* *
58329 AAATGTTAAGGAATTCATACTAAGTGTATGAATTTCCATATAGGGCACTTCGTGTGCAA
1 AAATGTTAAGGAATTCATACTAAGTGTATGAATTTCCGTATAGGGCACTTCGTGTGCTA
58388 AAATGTTAAG
1 AAATGTTAAG
58398 AAATGGTTGA
Statistics
Matches: 217, Mismatches: 29, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
59 217 1.00
ACGTcount: A:0.34, C:0.12, G:0.20, T:0.34
Consensus pattern (59 bp):
AAATGTTAAGGAATTCATACTAAGTGTATGAATTTCCGTATAGGGCACTTCGTGTGCTA
Found at i:58610 original size:578 final size:578
Alignment explanation
Indices: 57515--58652 Score: 2159
Period size: 578 Copynumber: 2.0 Consensus size: 578
57505 TCGTGTGCTA
57515 AAATGTTAAGAAATTCATACTAAGTGTATGAATTTCCGTATAGGGCACTTCGTGTGCTAAAATGT
1 AAATGTTAAGAAATTCATACTAAGTGTATGAATTTCCGTATAGGGCACTTCGTGTGCTAAAATGT
* *
57580 TAAGGAATTCATACTAAGTGTATAAATTTCCATATAGGGCACTTAGTGTGCTAAAATGTTAAGGA
66 TAAGGAATTCATACCAAGTGTATAAATTTCCATATAGGACACTTAGTGTGCTAAAATGTTAAGGA
57645 ATTCATACTAAGTGTATGAATTTTCGTATAAGTTACTTTGTGTGCTAAAATGTTAAGGAATTCAC
131 ATTCATACTAAGTGTATGAATTTTCGTATAAGTTACTTTGTGTGCTAAAATGTTAAGGAATTCAC
*
57710 ACTAAGTGTATGAATTTTCGTAAAGGGCAATACGTGTTCTAAAATGTTAAGGAATTCATACTAAG
196 ACTAAGTGTATGAATTTTCGTAAAGGGCAATACGTGTGCTAAAATGTTAAGGAATTCATACTAAG
*
57775 TGTATGAATTTCCGTATAGGGCACTTCGTGTGCAAAAATGTTAAGAAATGGTTGAGAAATGACGG
261 TGTATGAATTTCCATATAGGGCACTTCGTGTGCAAAAATGTTAAGAAATGGTTGAGAAATGACGG
*
57840 TATAGGCACTACACATTCATCTTAATAAATAAACGGGAATAAAAAGTTGGTAAATTACCATGTGA
326 TATAGGCACTACACATTCATCTTAATAAATAAACGGGAATAAAAAGTTGGTAAACTACCATGTGA
57905 GCACTAAGGGTACAAATATATAAGGGTTATAATAAATTAAAAGAGATTTAATTAATATTGAAAGT
391 GCACTAAGGGTACAAATATATAAGGGTTATAATAAATTAAAAGAGATTTAATTAATATTGAAAGT
*
57970 AAGTATTAGAGTAGAAACTATTCCAAAATAAAAGCTTTAAGGCATAACTGTGCAATTGACAGAAA
456 AAGGATTAGAGTAGAAACTATTCCAAAATAAAAGCTTTAAGGCATAACTGTGCAATTGACAGAAA
58035 AGTGTCATTTATGCCAGTTATATGAAAGGCTAAGTGCCTTAATAAATAAATGGTTGAG
521 AGTGTCATTTATGCCAGTTATATGAAAGGCTAAGTGCCTTAATAAATAAATGGTTGAG
58093 AAATGTTAAGAAATTCATACTAAGTGTATGAATTTCCGTATAGGGCACTTCGTGTGCTAAAATGT
1 AAATGTTAAGAAATTCATACTAAGTGTATGAATTTCCGTATAGGGCACTTCGTGTGCTAAAATGT
58158 TAAGGAATTCATACCAAGTGTATAAATTTCCATATAGGACACTTAGTGTGCTAAAATGTTAAGGA
66 TAAGGAATTCATACCAAGTGTATAAATTTCCATATAGGACACTTAGTGTGCTAAAATGTTAAGGA
58223 ATTCATACTAAGTGTATGAATTTTCGTATAAGTTACTTTGTGTGCTAAAATGTTAAGGAATTCAC
131 ATTCATACTAAGTGTATGAATTTTCGTATAAGTTACTTTGTGTGCTAAAATGTTAAGGAATTCAC
* *
58288 ACTAAGTGTATGATTTTTCGTAAAGGGCAATTCGTGTGCTAAAATGTTAAGGAATTCATACTAAG
196 ACTAAGTGTATGAATTTTCGTAAAGGGCAATACGTGTGCTAAAATGTTAAGGAATTCATACTAAG
*
58353 TGTATGAATTTCCATATAGGGCACTTCGTGTGCAAAAATGTTAAGAAATGGTTGAGAAATGATGG
261 TGTATGAATTTCCATATAGGGCACTTCGTGTGCAAAAATGTTAAGAAATGGTTGAGAAATGACGG
**
58418 TATAGGCACTACATGTTCATCTTAATAAATAAACGGGAATAAAAAGTTGGTAAACTACCATGTGA
326 TATAGGCACTACACATTCATCTTAATAAATAAACGGGAATAAAAAGTTGGTAAACTACCATGTGA
*
58483 GCACTAAGGGTGCAAATATATAAGGGTTATAATAAATTAAAAGAGATTTAATTAATATTGAAAGT
391 GCACTAAGGGTACAAATATATAAGGGTTATAATAAATTAAAAGAGATTTAATTAATATTGAAAGT
*
58548 AAGGATTAGAGTAGAAACTATTCCAAAATAAAAGCTTTAAGGCCTAACTGTGCAATTGACAGAAA
456 AAGGATTAGAGTAGAAACTATTCCAAAATAAAAGCTTTAAGGCATAACTGTGCAATTGACAGAAA
58613 AGTGTCATTTATGCCAGTTATATGAAAGGCTAAGTGCCTT
521 AGTGTCATTTATGCCAGTTATATGAAAGGCTAAGTGCCTT
58653 TGAGGCCTAA
Statistics
Matches: 547, Mismatches: 13, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
578 547 1.00
ACGTcount: A:0.38, C:0.11, G:0.20, T:0.32
Consensus pattern (578 bp):
AAATGTTAAGAAATTCATACTAAGTGTATGAATTTCCGTATAGGGCACTTCGTGTGCTAAAATGT
TAAGGAATTCATACCAAGTGTATAAATTTCCATATAGGACACTTAGTGTGCTAAAATGTTAAGGA
ATTCATACTAAGTGTATGAATTTTCGTATAAGTTACTTTGTGTGCTAAAATGTTAAGGAATTCAC
ACTAAGTGTATGAATTTTCGTAAAGGGCAATACGTGTGCTAAAATGTTAAGGAATTCATACTAAG
TGTATGAATTTCCATATAGGGCACTTCGTGTGCAAAAATGTTAAGAAATGGTTGAGAAATGACGG
TATAGGCACTACACATTCATCTTAATAAATAAACGGGAATAAAAAGTTGGTAAACTACCATGTGA
GCACTAAGGGTACAAATATATAAGGGTTATAATAAATTAAAAGAGATTTAATTAATATTGAAAGT
AAGGATTAGAGTAGAAACTATTCCAAAATAAAAGCTTTAAGGCATAACTGTGCAATTGACAGAAA
AGTGTCATTTATGCCAGTTATATGAAAGGCTAAGTGCCTTAATAAATAAATGGTTGAG
Found at i:58793 original size:81 final size:81
Alignment explanation
Indices: 58656--59003 Score: 570
Period size: 81 Copynumber: 4.3 Consensus size: 81
58646 GTGCCTTTGA
* **
58656 GGCCTAACTATGCAATTGATAGAAATGTGTCAATTATGCCAGTTAGATGAACGGTTAAATATTGT
1 GGCCTAACTGTGCAATTGATAGAAATGTGTCAATTATGCCAGTTAGATGAACGGTTAAATACCGT
* * *
58721 CGAGTAAACGAATAAC
66 TGAGTAAAAGAATAAT
* * *
58737 GGCCTAACTGTGCAATTGACAGAAATGTGTCAATTATGCCAGTTAGATGAATGGTTAAATACTGT
1 GGCCTAACTGTGCAATTGATAGAAATGTGTCAATTATGCCAGTTAGATGAACGGTTAAATACCGT
58802 TGAGTAAAAGAATAAT
66 TGAGTAAAAGAATAAT
* *
58818 GGCCTAATTGTGCAATTGACAGAAATGTGTCAATTATGCCAGTTAGATGAACGGTTAAATACCGT
1 GGCCTAACTGTGCAATTGATAGAAATGTGTCAATTATGCCAGTTAGATGAACGGTTAAATACCGT
58883 TGAGTAAAAGAATAAT
66 TGAGTAAAAGAATAAT
* *
58899 GGCCTAACTGTGCAATTGATAGAAAGGTGTCAATTATGCCAGTTAGATGAACGCTTAAATACCGT
1 GGCCTAACTGTGCAATTGATAGAAATGTGTCAATTATGCCAGTTAGATGAACGGTTAAATACCGT
*
58964 TGAGTAAAGGAATAAT
66 TGAGTAAAAGAATAAT
58980 GGCCTAACTGTGCAATTGATAGAA
1 GGCCTAACTGTGCAATTGATAGAA
59004 TTTTCGTGGC
Statistics
Matches: 252, Mismatches: 15, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
81 252 1.00
ACGTcount: A:0.36, C:0.13, G:0.22, T:0.28
Consensus pattern (81 bp):
GGCCTAACTGTGCAATTGATAGAAATGTGTCAATTATGCCAGTTAGATGAACGGTTAAATACCGT
TGAGTAAAAGAATAAT
Found at i:59092 original size:59 final size:59
Alignment explanation
Indices: 59017--59393 Score: 565
Period size: 59 Copynumber: 6.4 Consensus size: 59
59007 TCGTGGCCTA
* *
59017 ACTTTGTGTGCTAAAATGTTAAGGAATTCATACTAAGTGTATGAATTTTCGTATAGGGC
1 ACTTCGTGTGCTAAAATGTTAAGGAATTCATACTAAGTGTATGAATTTCCGTATAGGGC
* * *
59076 AGTTCGTGTGCTAAAATGTTAAGAAATTTATACTAAGTGTATGAATTTCCGTATAGGGC
1 ACTTCGTGTGCTAAAATGTTAAGGAATTCATACTAAGTGTATGAATTTCCGTATAGGGC
* * * *
59135 ATTTCGTGTGCTAAAATGTTAAGGAATTAATACTAAGTGTATAAATTTCCATATAGGGC
1 ACTTCGTGTGCTAAAATGTTAAGGAATTCATACTAAGTGTATGAATTTCCGTATAGGGC
* * * **
59194 ACTTAGTGTGCTAAAATGTTAAGGAATTCATACTAAGTGTATGAATTTTCGTATAAGTT
1 ACTTCGTGTGCTAAAATGTTAAGGAATTCATACTAAGTGTATGAATTTCCGTATAGGGC
* * * *
59253 ACTTTGTGTGCTAAAATGTTAAGGAATTCACACTAAGTGTATGAATTTTCGTAAAGGGC
1 ACTTCGTGTGCTAAAATGTTAAGGAATTCATACTAAGTGTATGAATTTCCGTATAGGGC
* *
59312 AATTCGTGTGCTAAAATGTTAAGGAATTCATACTAAGTGTATGAATTTCCATATAGGGC
1 ACTTCGTGTGCTAAAATGTTAAGGAATTCATACTAAGTGTATGAATTTCCGTATAGGGC
*
59371 ACTTCGTGTGCAAAAATGTTAAG
1 ACTTCGTGTGCTAAAATGTTAAG
59394 AAATGGTTGA
Statistics
Matches: 285, Mismatches: 33, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
59 285 1.00
ACGTcount: A:0.33, C:0.11, G:0.21, T:0.36
Consensus pattern (59 bp):
ACTTCGTGTGCTAAAATGTTAAGGAATTCATACTAAGTGTATGAATTTCCGTATAGGGC
Found at i:59791 original size:81 final size:81
Alignment explanation
Indices: 59652--60028 Score: 583
Period size: 81 Copynumber: 4.7 Consensus size: 81
59642 GTGCCTTTGA
*
59652 GGCCTAACTATGCAATTGATAGAAATGTGTCAATTATGCCAGTTAGATGAACGATTAAATACCGT
1 GGCCTAACTGTGCAATTGATAGAAATGTGTCAATTATGCCAGTTAGATGAACGATTAAATACCGT
* *
59717 CGAGTAAACGAATAAT
66 TGAGTAAAAGAATAAT
* * * * *
59733 GGCCTAACTGTGCAATTGACAAAAATGTGTCAATTATGCCAGTTAGATGAATGGTTAAATACTGT
1 GGCCTAACTGTGCAATTGATAGAAATGTGTCAATTATGCCAGTTAGATGAACGATTAAATACCGT
59798 TGAGTAAAAGAATAAT
66 TGAGTAAAAGAATAAT
* *
59814 GGCCTAATTGTGCAATTGACAGAAATGTGTCAATTATGCCAGTTAGATGAACGATTAAATACCGT
1 GGCCTAACTGTGCAATTGATAGAAATGTGTCAATTATGCCAGTTAGATGAACGATTAAATACCGT
59879 TGAGTAAAAGAATAAT
66 TGAGTAAAAGAATAAT
* * * *
59895 GACCTAACTGTTCAATTGATAGAAAGGTGTCAATTATGCCAGTTAGATGAACGGTTAAATACCGT
1 GGCCTAACTGTGCAATTGATAGAAATGTGTCAATTATGCCAGTTAGATGAACGATTAAATACCGT
**
59960 TGAGTAATGGAATAAT
66 TGAGTAAAAGAATAAT
* * *
59976 GGCCTAACTGTGCAATTGATAGAAAAGTGTCAATTATGCTAGTTAGATCAACG
1 GGCCTAACTGTGCAATTGATAGAAATGTGTCAATTATGCCAGTTAGATGAACG
60029 GTTTTACGAT
Statistics
Matches: 270, Mismatches: 26, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
81 270 1.00
ACGTcount: A:0.37, C:0.13, G:0.21, T:0.29
Consensus pattern (81 bp):
GGCCTAACTGTGCAATTGATAGAAATGTGTCAATTATGCCAGTTAGATGAACGATTAAATACCGT
TGAGTAAAAGAATAAT
Found at i:60029 original size:81 final size:81
Alignment explanation
Indices: 59652--60094 Score: 577
Period size: 81 Copynumber: 5.5 Consensus size: 81
59642 GTGCCTTTGA
* * *
59652 GGCCTAACTATGCAATTGATAGAAATGTGTCAATTATGCCAGTTAGATGAACGATTAAATACCGT
1 GGCCTAACTGTGCAATTGATAGAAAAGTGTCAATTATGCCAGTTAGATGAACGGTTAAATACCGT
* *
59717 CGAGTAAACGAATAAT
66 TGAGTAAAAGAATAAT
* * *
59733 GGCCTAACTGTGCAATTGACA-AAAATGTGTCAATTATGCCAGTTAGATGAATGGTTAAATACTG
1 GGCCTAACTGTGCAATTGATAGAAAA-GTGTCAATTATGCCAGTTAGATGAACGGTTAAATACCG
59797 TTGAGTAAAAGAATAAT
65 TTGAGTAAAAGAATAAT
* * * *
59814 GGCCTAATTGTGCAATTGACAGAAATGTGTCAATTATGCCAGTTAGATGAACGATTAAATACCGT
1 GGCCTAACTGTGCAATTGATAGAAAAGTGTCAATTATGCCAGTTAGATGAACGGTTAAATACCGT
59879 TGAGTAAAAGAATAAT
66 TGAGTAAAAGAATAAT
* * *
59895 GACCTAACTGTTCAATTGATAGAAAGGTGTCAATTATGCCAGTTAGATGAACGGTTAAATACCGT
1 GGCCTAACTGTGCAATTGATAGAAAAGTGTCAATTATGCCAGTTAGATGAACGGTTAAATACCGT
**
59960 TGAGTAATGGAATAAT
66 TGAGTAAAAGAATAAT
* * * *
59976 GGCCTAACTGTGCAATTGATAGAAAAGTGTCAATTATGCTAGTTAGATCAACGGTT--TTACGAT
1 GGCCTAACTGTGCAATTGATAGAAAAGTGTCAATTATGCCAGTTAGATGAACGGTTAAATAC--C
60039 GTTGAGTAAAAGAATAAT
64 GTTGAGTAAAAGAATAAT
* ** * * * * *
60057 AGATTAGCTATGCATTTGATAGGAAAGTGTCAACTATG
1 GGCCTAACTGTGCAATTGATAGAAAAGTGTCAATTATG
60095 TAAGTTAAAA
Statistics
Matches: 320, Mismatches: 38, Indels: 8
0.87 0.10 0.02
Matches are distributed among these distances:
79 3 0.01
80 3 0.01
81 311 0.97
82 3 0.01
ACGTcount: A:0.37, C:0.12, G:0.21, T:0.29
Consensus pattern (81 bp):
GGCCTAACTGTGCAATTGATAGAAAAGTGTCAATTATGCCAGTTAGATGAACGGTTAAATACCGT
TGAGTAAAAGAATAAT
Found at i:61959 original size:2 final size:2
Alignment explanation
Indices: 61952--62024 Score: 146
Period size: 2 Copynumber: 36.5 Consensus size: 2
61942 CGATTAGGAC
61952 AT AT 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 AT AT
61994 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
62025 GCTTTTATGG
Statistics
Matches: 71, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 71 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:64007 original size:95 final size:94
Alignment explanation
Indices: 63862--64044 Score: 251
Period size: 95 Copynumber: 1.9 Consensus size: 94
63852 ACCGAAAAGT
* *
63862 TAGTATCGATACATGATAAGGGTATCGATACCAAGCAACATCGAATCTAAAATGGGTATCGATA-
1 TAGTATCGATACATGATAAGGGTATCGATACCAAGCAACATCAAACCTAAAATGGGTATCGATAT
** *
63926 CTGGTAGGGGGTATCGGTACCATAGTATGG
66 C-GAAAGGGGGTATCGATACCATAGTATGG
* ** * *
63956 TAGTATCGATACCATGGTAAGGGTATCGATAGTAGGCAACATCAAACCTAAAATTGGTATCGATA
1 TAGTATCGATA-CATGATAAGGGTATCGATACCAAGCAACATCAAACCTAAAATGGGTATCGATA
64021 TCGAAAGGGGGTATCGATACCATA
65 TCGAAAGGGGGTATCGATACCATA
64045 ATATAGAAGT
Statistics
Matches: 77, Mismatches: 10, Indels: 3
0.86 0.11 0.03
Matches are distributed among these distances:
94 11 0.14
95 65 0.84
96 1 0.01
ACGTcount: A:0.34, C:0.15, G:0.25, T:0.25
Consensus pattern (94 bp):
TAGTATCGATACATGATAAGGGTATCGATACCAAGCAACATCAAACCTAAAATGGGTATCGATAT
CGAAAGGGGGTATCGATACCATAGTATGG
Found at i:64064 original size:95 final size:95
Alignment explanation
Indices: 63863--64086 Score: 231
Period size: 95 Copynumber: 2.4 Consensus size: 95
63853 CCGAAAAGTT
* * ** * * *
63863 AGTATCGATA-CATGATAAGGGTATCGATACCAAGCAACATCGAATCTAAAATGGGTATCGATAC
1 AGTATAGATACCATGGTAAGGGTATCGATAATAGGCAACATCAAACCTAAAATGGGTATCGATAC
** * * * *
63927 TGGTAGGGGGTATCGGTACCATAGTATGGT
66 TGAAAGGGGGTATCGATACCATAATATAGA
* * *
63957 AGTATCGATACCATGGTAAGGGTATCGATAGTAGGCAACATCAAACCTAAAATTGGTATCGATA-
1 AGTATAGATACCATGGTAAGGGTATCGATAATAGGCAACATCAAACCTAAAATGGGTATCGATAC
64021 TCGAAAGGGGGTATCGATACCATAATATAGA
66 T-GAAAGGGGGTATCGATACCATAATATAGA
* *
64052 AGTATTAG-TACCAGGGT-AGTAGTATCGATAATAGG
1 AGTA-TAGATACCATGGTAAG-GGTATCGATAATAGG
64087 GAGCTATAAA
Statistics
Matches: 109, Mismatches: 17, Indels: 7
0.82 0.13 0.05
Matches are distributed among these distances:
94 13 0.12
95 94 0.86
96 2 0.02
ACGTcount: A:0.35, C:0.14, G:0.25, T:0.25
Consensus pattern (95 bp):
AGTATAGATACCATGGTAAGGGTATCGATAATAGGCAACATCAAACCTAAAATGGGTATCGATAC
TGAAAGGGGGTATCGATACCATAATATAGA
Found at i:64477 original size:59 final size:59
Alignment explanation
Indices: 64412--64839 Score: 646
Period size: 59 Copynumber: 7.3 Consensus size: 59
64402 ATGGAACTAA
*
64412 GTGTGCTAAAATGTTAAGGAATTCATACTAAGTGTATGAATTTCCGTATAGGGCACTTA
1 GTGTGCTAAAATGTTAAGGAATTCATACTAAGTGTATGAATTTCCGTATAGGGCACTTC
64471 GTGTGCTAAAATGTTAAGGAATTCATACTAAGTGTATGAATTTCCGTATAGGGCACTTC
1 GTGTGCTAAAATGTTAAGGAATTCATACTAAGTGTATGAATTTCCGTATAGGGCACTTC
* * * * *
64530 GTGTGCTAAAATGTTAAGGAATTCATACTAAGTGTATGAATTTTCATTTAGGACACTTA
1 GTGTGCTAAAATGTTAAGGAATTCATACTAAGTGTATGAATTTCCGTATAGGGCACTTC
* * * ** **
64589 GTGCGCTAAAATGTTAAGGAATTCATACTAAGTGTACGATTTTTTGTATAGGTTACTTC
1 GTGTGCTAAAATGTTAAGGAATTCATACTAAGTGTATGAATTTCCGTATAGGGCACTTC
* * * *
64648 GTGTGCTAAAATGTTAAGGAATTCACACTAAGTGTATGAATTTTCGTAAAGGGCAATTC
1 GTGTGCTAAAATGTTAAGGAATTCATACTAAGTGTATGAATTTCCGTATAGGGCACTTC
*
64707 GCGTGCTAAAATGTTAAGGAATTCATACTAAGTGTATGAATTTCCGTATAGGGCACTTC
1 GTGTGCTAAAATGTTAAGGAATTCATACTAAGTGTATGAATTTCCGTATAGGGCACTTC
* * *
64766 GTGTGCAAAAATGTTAAGGAATTCATACTAAGTGTATGAATTTCTGTAT-GGG--CTTT
1 GTGTGCTAAAATGTTAAGGAATTCATACTAAGTGTATGAATTTCCGTATAGGGCACTTC
64822 GTGTGCTAAAATGTTAAG
1 GTGTGCTAAAATGTTAAG
64840 AAATGGTTGA
Statistics
Matches: 335, Mismatches: 34, Indels: 3
0.90 0.09 0.01
Matches are distributed among these distances:
56 20 0.06
58 3 0.01
59 312 0.93
ACGTcount: A:0.32, C:0.12, G:0.22, T:0.35
Consensus pattern (59 bp):
GTGTGCTAAAATGTTAAGGAATTCATACTAAGTGTATGAATTTCCGTATAGGGCACTTC
Found at i:65166 original size:68 final size:68
Alignment explanation
Indices: 65029--65166 Score: 204
Period size: 68 Copynumber: 2.0 Consensus size: 68
65019 AAAAACTTTA
* * * * *
65029 AGGCCTAACTGTGCAATTGATAGAAAGGTGTCATTTATGCCAGTTAGATGAAAGGCTAAGTGCCT
1 AGGCCTAACTGTGCAATTGATAGAAAGGTGTCAATTATGCCAATTAGATGAAAGGCTAAATACCG
65094 TTG
66 TTG
* * *
65097 AGGCCTAACTGTTCAATTGATAGAAAGGTGTCAATTATGCCAATTAGATGAATGGTTAAATACCG
1 AGGCCTAACTGTGCAATTGATAGAAAGGTGTCAATTATGCCAATTAGATGAAAGGCTAAATACCG
65162 TTG
66 TTG
65165 AG
1 AG
65167 TAAAAGAATA
Statistics
Matches: 62, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
68 62 1.00
ACGTcount: A:0.32, C:0.14, G:0.25, T:0.30
Consensus pattern (68 bp):
AGGCCTAACTGTGCAATTGATAGAAAGGTGTCAATTATGCCAATTAGATGAAAGGCTAAATACCG
TTG
Found at i:65535 original size:81 final size:81
Alignment explanation
Indices: 65098--65504 Score: 627
Period size: 81 Copynumber: 5.0 Consensus size: 81
65088 GTGCCTTTGA
* * * *
65098 GGCCTAACTGTTCAATTGATAGAAAGGTGTCAATTATGCCAATTAGATGAATGGTTAAATACCGT
1 GGCCTAACTGTGCAATTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAATGGTTAAATACTGT
65163 TGAGTAAAAGAATAAT
66 TGAGTAAAAGAATAAT
* * * *
65179 GGCCTAACTGTGCAATTGACAGAAAGGTGTCAATTATGACAGTTAAATGAACGGTTAAAT-TTCG
1 GGCCTAACTGTGCAATTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAATGGTTAAATACT-G
*
65243 TTGAGTAAAATAATAAT
65 TTGAGTAAAAGAATAAT
* * *
65260 GACCTAACTGTGTAATTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAATGGGTAAATACTGT
1 GGCCTAACTGTGCAATTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAATGGTTAAATACTGT
65325 TGAGTAAAAGAATAAT
66 TGAGTAAAAGAATAAT
*
65341 GGCCTAACTGTGCAATTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAACGGTTAAATACTGT
1 GGCCTAACTGTGCAATTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAATGGTTAAATACTGT
*
65406 TAAGTAAAAGAATAAT
66 TGAGTAAAAGAATAAT
* * * * *
65422 GTCCTAATTGTGCAATTGACAGAAAGATGTCAATTATGCCAGTTAGATGAATGATTAAACACTGT
1 GGCCTAACTGTGCAATTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAATGGTTAAATACTGT
65487 TGAGTAAAAGAATAAT
66 TGAGTAAAAGAATAAT
65503 GG
1 GG
65505 ATTAGTTATG
Statistics
Matches: 294, Mismatches: 30, Indels: 4
0.90 0.09 0.01
Matches are distributed among these distances:
81 293 1.00
82 1 0.00
ACGTcount: A:0.38, C:0.11, G:0.22, T:0.29
Consensus pattern (81 bp):
GGCCTAACTGTGCAATTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAATGGTTAAATACTGT
TGAGTAAAAGAATAAT
Found at i:68247 original size:2 final size:2
Alignment explanation
Indices: 68236--68278 Score: 54
Period size: 2 Copynumber: 22.5 Consensus size: 2
68226 GTTATTATCC
* *
68236 AT AT -T AT AT AT AC AT AT AC AT AT AT AT AT AT AT AT AT AT -T
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
68276 AT A
1 AT A
68279 ATTATTTTAA
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
1 2 0.06
2 33 0.94
ACGTcount: A:0.49, C:0.05, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:68574 original size:24 final size:24
Alignment explanation
Indices: 68545--68590 Score: 67
Period size: 24 Copynumber: 1.9 Consensus size: 24
68535 TTTTGTCCAT
68545 TTTTAT-ATTAATATCAACTTCACA
1 TTTTATAATTAAT-TCAACTTCACA
*
68569 TTTTATAATTAATTCAATTTCA
1 TTTTATAATTAATTCAACTTCA
68591 TCCCTCATCA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
24 14 0.70
25 6 0.30
ACGTcount: A:0.37, C:0.13, G:0.00, T:0.50
Consensus pattern (24 bp):
TTTTATAATTAATTCAACTTCACA
Found at i:68747 original size:22 final size:21
Alignment explanation
Indices: 68723--68910 Score: 104
Period size: 22 Copynumber: 8.7 Consensus size: 21
68713 TATAGTAGTA
*
68723 TAAAGTATATAATATACAATAA
1 TAAAGTATATAATATA-AATAT
* * * *
68745 TAAATTATTTGGATATAAGTAT
1 TAAAGTATAT-AATATAAATAT
*
68767 TAAAGTATATAAATATAAGTAT
1 TAAAGTATAT-AATATAAATAT
*
68789 TAAA-TATA-AAGTATATAAGTACC
1 TAAAGTATATAA-TATA-AA-TA-T
68812 T-AAGTATATAATATAAAGTAT
1 TAAAGTATATAATATAAA-TAT
* *
68833 TAAACTATATAATATAAGTAT
1 TAAAGTATATAATATAAATAT
68854 TAAA-TATA-AAGTATTAAAGTAT
1 TAAAGTATATAA-TA-TAAA-TAT
*
68876 ATAAA-TATA-AGTATTAAATA-
1 -TAAAGTATATAATA-TAAATAT
68896 TAAAGTATATTAATA
1 TAAAGTATA-TAATA
68911 ATCATAATTA
Statistics
Matches: 134, Mismatches: 17, Indels: 30
0.74 0.09 0.17
Matches are distributed among these distances:
19 8 0.06
20 14 0.10
21 18 0.13
22 69 0.51
23 23 0.17
24 2 0.01
ACGTcount: A:0.53, C:0.02, G:0.08, T:0.37
Consensus pattern (21 bp):
TAAAGTATATAATATAAATAT
Found at i:68793 original size:44 final size:42
Alignment explanation
Indices: 68719--68910 Score: 137
Period size: 44 Copynumber: 4.5 Consensus size: 42
68709 TATATATAGT
* * * *
68719 AGTA-TAAAGTATATAATATACAATAATAAATTATTTGGATATA
1 AGTATTAAAGTATATAATATA-AGTATTAAA-TATATGAATATA
* *
68762 AGTATTAAAGTATATAAATATAAGTATTAAATATAAAGTATATA
1 AGTATTAAAGTATAT-AATATAAGTATTAAATAT-ATGAATATA
*
68806 AGTACCT-AAGTATATAATATAAAGTATTAAACTATAT-AATATA
1 AGTA-TTAAAGTATATAATAT-AAGTATTAAA-TATATGAATATA
* *
68849 AGTATTAAA-TATA-AAGTATTAAAGTATATAAATATAAGTAT-TA
1 AGTATTAAAGTATATAA-TA-T-AAGTAT-TAAATATATGAATATA
*
68892 AATA-TAAAGTATATTAATA
1 AGTATTAAAGTATA-TAATA
68911 ATCATAATTA
Statistics
Matches: 123, Mismatches: 12, Indels: 27
0.76 0.07 0.17
Matches are distributed among these distances:
41 2 0.02
42 11 0.09
43 44 0.36
44 54 0.44
45 12 0.10
ACGTcount: A:0.53, C:0.02, G:0.08, T:0.36
Consensus pattern (42 bp):
AGTATTAAAGTATATAATATAAGTATTAAATATATGAATATA
Found at i:68797 original size:35 final size:37
Alignment explanation
Indices: 68758--68903 Score: 101
Period size: 36 Copynumber: 3.9 Consensus size: 37
68748 ATTATTTGGA
68758 TATAAGTATTAAAGTATATAAATAT-AAGTATTAAA-
1 TATAAGTATTAAAGTATATAAATATAAAGTATTAAAC
*
68793 TATAAAGTATATAAGTACCTAAGTATATAATATAAAGTATTAAAC
1 TAT-AAGTAT-TAA--A-GT-A-TATA-AATATAAAGTATTAAAC
* *
68838 TAT-A-TAATATAAGTAT-TAAATATAAAGTATTAAAG
1 TATAAGTATTA-AAGTATATAAATATAAAGTATTAAAC
*
68873 TAT-A-TAAATATAAGTAT-TAAATATAAAGTAT
1 TATAAGT-ATTA-AAGTATATAAATATAAAGTAT
68904 ATTAATAATC
Statistics
Matches: 95, Mismatches: 4, Indels: 23
0.78 0.03 0.19
Matches are distributed among these distances:
35 24 0.25
36 33 0.35
37 4 0.04
38 1 0.01
39 2 0.02
40 2 0.02
41 3 0.03
42 7 0.07
43 6 0.06
44 10 0.11
45 3 0.03
ACGTcount: A:0.53, C:0.02, G:0.08, T:0.36
Consensus pattern (37 bp):
TATAAGTATTAAAGTATATAAATATAAAGTATTAAAC
Found at i:68818 original size:30 final size:28
Alignment explanation
Indices: 68725--68910 Score: 113
Period size: 28 Copynumber: 6.4 Consensus size: 28
68715 TAGTAGTATA
68725 AAGTATATAATATACAA-TA-ATAAATTAT
1 AAGTATATAATATA-AAGTATATAAA-TAT
** *
68753 TTGGATATAAGTATTAAAGTATATAAATAT
1 AAGTATATAA-TA-TAAAGTATATAAATAT
*
68783 AAGTAT-TAAATATAAAGTATATAAGTACCT
1 AAGTATAT-AATATAAAGTATATAAATA--T
68813 AAGTATATAATATAAAGTAT-TAAACTAT
1 AAGTATATAATATAAAGTATATAAA-TAT
*
68841 -A-TAATATAAGTATTAAA-TATA-AAGTATT
1 AAGT-ATATAA-TA-TAAAGTATATAAATA-T
68869 AAAGTATATAA-ATATAAGTAT-TAAATAT
1 -AAGTATATAATATA-AAGTATATAAATAT
68897 AAAGTATATTAATA
1 -AAGTATA-TAATA
68911 ATCATAATTA
Statistics
Matches: 126, Mismatches: 10, Indels: 42
0.71 0.06 0.24
Matches are distributed among these distances:
26 1 0.01
27 11 0.09
28 42 0.33
29 24 0.19
30 41 0.33
31 7 0.06
ACGTcount: A:0.53, C:0.02, G:0.08, T:0.37
Consensus pattern (28 bp):
AAGTATATAATATAAAGTATATAAATAT
Found at i:68911 original size:13 final size:13
Alignment explanation
Indices: 68767--68911 Score: 59
Period size: 14 Copynumber: 10.2 Consensus size: 13
68757 ATATAAGTAT
68767 TAAAGTATATAAA
1 TAAAGTATATAAA
68780 TATAAGTAT-TAAATA
1 TA-AAGTATAT-AA-A
*
68795 TAAAGTATATAAG
1 TAAAGTATATAAA
68808 TACCTAAGTATATAATA
1 TA---AAGTATATAA-A
68825 TAAAGTAT-TAAA
1 TAAAGTATATAAA
*
68837 CTATA-TAATATAAGTA
1 -TAAAGT-ATATAA--A
68853 TTAAA-TATA-AAGTA
1 -TAAAGTATATAA--A
68867 TTAAAGTATATAAA
1 -TAAAGTATATAAA
68881 TATAAGTAT-TAAATA
1 TA-AAGTATAT-AA-A
*
68896 TAAAGTATATTAA
1 TAAAGTATATAAA
68909 TAA
1 TAA
68912 TCATAATTAC
Statistics
Matches: 107, Mismatches: 6, Indels: 38
0.71 0.04 0.25
Matches are distributed among these distances:
12 2 0.02
13 20 0.19
14 51 0.48
15 15 0.14
16 17 0.16
17 2 0.02
ACGTcount: A:0.54, C:0.02, G:0.08, T:0.36
Consensus pattern (13 bp):
TAAAGTATATAAA
Found at i:69668 original size:38 final size:39
Alignment explanation
Indices: 69508--69697 Score: 220
Period size: 39 Copynumber: 4.9 Consensus size: 39
69498 ATACACCCAA
* * * *
69508 TAAGGGCTTACCCTGTGCACAAAGCAGAGGAGCCTACAG
1 TAAGGACTTACCCTGAGCACAAAGCCGAGGAGCCTGCAG
* * * * * *
69547 TAAGGTCTTATCATGTGCACAAAGCAGAGGAGTCTGCAG
1 TAAGGACTTACCCTGAGCACAAAGCCGAGGAGCCTGCAG
* * * *
69586 TAAGGTCTTACCCTGAGCACAAAGCTGAGGAACCTGCGG
1 TAAGGACTTACCCTGAGCACAAAGCCGAGGAGCCTGCAG
* *
69625 TAAGGACTTACCCTGAGCTCAAA-CCGAGGAGCCTGTAG
1 TAAGGACTTACCCTGAGCACAAAGCCGAGGAGCCTGCAG
*
69663 AAAGGACTTACCCTGAGCACAAAGCCGAGGAGCCT
1 TAAGGACTTACCCTGAGCACAAAGCCGAGGAGCCT
69698 ACGAAAAACG
Statistics
Matches: 130, Mismatches: 20, Indels: 2
0.86 0.13 0.01
Matches are distributed among these distances:
38 32 0.25
39 98 0.75
ACGTcount: A:0.31, C:0.25, G:0.27, T:0.17
Consensus pattern (39 bp):
TAAGGACTTACCCTGAGCACAAAGCCGAGGAGCCTGCAG
Found at i:70471 original size:16 final size:16
Alignment explanation
Indices: 70440--70469 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
70430 TGAAAAACAT
70440 AAAATATGACTTTTTG
1 AAAATATGACTTTTTG
70456 AAAAT-TGACTTTTT
1 AAAATATGACTTTTT
70470 TGTCAAAGTC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 9 0.64
16 5 0.36
ACGTcount: A:0.37, C:0.07, G:0.10, T:0.47
Consensus pattern (16 bp):
AAAATATGACTTTTTG
Found at i:71140 original size:16 final size:16
Alignment explanation
Indices: 71103--71146 Score: 54
Period size: 15 Copynumber: 2.8 Consensus size: 16
71093 CCATTTACAA
71103 GTCAGGTTAAAAACAT
1 GTCAGGTTAAAAACAT
* *
71119 -TCAGGTTCATAACAT
1 GTCAGGTTAAAAACAT
71134 GTCAGGTTGAAAA
1 GTCAGGTT-AAAA
71147 TAGGTCAGAT
Statistics
Matches: 22, Mismatches: 4, Indels: 3
0.76 0.14 0.10
Matches are distributed among these distances:
15 13 0.59
16 7 0.32
17 2 0.09
ACGTcount: A:0.39, C:0.14, G:0.20, T:0.27
Consensus pattern (16 bp):
GTCAGGTTAAAAACAT
Found at i:72034 original size:182 final size:182
Alignment explanation
Indices: 71721--72112 Score: 660
Period size: 182 Copynumber: 2.2 Consensus size: 182
71711 GCACTACTGG
*
71721 ATATATTGAAAGTGTCGATACTTTAATATAAGTATCGACACTTTGTGAATTTAAAAGAGAAGCAG
1 ATATATTGAAAGTGTCGATACTTTAATATAAGTATCGACACTTTGTGAATTTAAAAAAGAAGCAG
* *
71786 TTTTAGCGCCTATAAAGTATCGATACTTTATAATAATGTATCGATCCACAACGATATAACAGGTA
66 TTTTAGCGACTATAAAGTATCGATACTTTATAAAAATGTATCGATCCACAACGATATAACAGGTA
*
71851 AAAATATGACAAAACCAGTCTCTAAAGGAAAAAAACCGGTATAGAGCGACCGA
131 AAAATATGACAAAACCAGTCTCTAAAGG-AAAAAACCGGTAAAGAGCGACCGA
71904 ATATATTGAAAGTGTCG-TACTTTAATATAAGTATCGACACTTTGTGAATTTAAAAAAGAAGCAG
1 ATATATTGAAAGTGTCGATACTTTAATATAAGTATCGACACTTTGTGAATTTAAAAAAGAAGCAG
* *
71968 TTTTAGCGACTATAAAGTGTCGATACTTTATAAAAATGTATCGATCCACAACGATATAATAGGTA
66 TTTTAGCGACTATAAAGTATCGATACTTTATAAAAATGTATCGATCCACAACGATATAACAGGTA
* * * * * *
72033 AAAATATGACAAAATCGGTCTCTAAAGGACAAAACCGGTAAAGCGCTACCGG
131 AAAATATGACAAAACCAGTCTCTAAAGGAAAAAACCGGTAAAGAGCGACCGA
72085 ATATATTGAAAGTGTCGATACTTTAATA
1 ATATATTGAAAGTGTCGATACTTTAATA
72113 AGTACACATA
Statistics
Matches: 196, Mismatches: 12, Indels: 3
0.93 0.06 0.01
Matches are distributed among these distances:
181 36 0.18
182 143 0.73
183 17 0.09
ACGTcount: A:0.41, C:0.14, G:0.17, T:0.28
Consensus pattern (182 bp):
ATATATTGAAAGTGTCGATACTTTAATATAAGTATCGACACTTTGTGAATTTAAAAAAGAAGCAG
TTTTAGCGACTATAAAGTATCGATACTTTATAAAAATGTATCGATCCACAACGATATAACAGGTA
AAAATATGACAAAACCAGTCTCTAAAGGAAAAAACCGGTAAAGAGCGACCGA
Found at i:74614 original size:33 final size:33
Alignment explanation
Indices: 74577--74643 Score: 100
Period size: 33 Copynumber: 2.0 Consensus size: 33
74567 AAATAGATTG
74577 AGTGGTAAAAGAAATTGAGGTGTTG-AGTGGTGA
1 AGTGGTAAAAGAAATTGAGGTGTTGAAG-GGTGA
* *
74610 AGTGGTGAAAGAAGTTGAGGTGTTGAAGGGTGA
1 AGTGGTAAAAGAAATTGAGGTGTTGAAGGGTGA
74643 A
1 A
74644 CTTAAGATGG
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
33 29 0.94
34 2 0.06
ACGTcount: A:0.33, C:0.00, G:0.42, T:0.25
Consensus pattern (33 bp):
AGTGGTAAAAGAAATTGAGGTGTTGAAGGGTGA
Found at i:74848 original size:18 final size:18
Alignment explanation
Indices: 74825--74863 Score: 78
Period size: 18 Copynumber: 2.2 Consensus size: 18
74815 GAAAAAATAT
74825 GAAGAAGAAAAGATGGAG
1 GAAGAAGAAAAGATGGAG
74843 GAAGAAGAAAAGATGGAG
1 GAAGAAGAAAAGATGGAG
74861 GAA
1 GAA
74864 ATGAGGAGGA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.56, C:0.00, G:0.38, T:0.05
Consensus pattern (18 bp):
GAAGAAGAAAAGATGGAG
Found at i:76442 original size:19 final size:19
Alignment explanation
Indices: 76418--76466 Score: 89
Period size: 19 Copynumber: 2.6 Consensus size: 19
76408 AATGTAGGGT
76418 TAATTTTGTATAAGATTTA
1 TAATTTTGTATAAGATTTA
*
76437 TAATTTTGTATACGATTTA
1 TAATTTTGTATAAGATTTA
76456 TAATTTTGTAT
1 TAATTTTGTAT
76467 GTGAATGTAA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
19 29 1.00
ACGTcount: A:0.33, C:0.02, G:0.10, T:0.55
Consensus pattern (19 bp):
TAATTTTGTATAAGATTTA
Found at i:76798 original size:15 final size:15
Alignment explanation
Indices: 76778--76816 Score: 60
Period size: 15 Copynumber: 2.6 Consensus size: 15
76768 GTCCAGTATG
*
76778 GTTCCCAAATGTAAA
1 GTTCCCAAACGTAAA
76793 GTTCCCAAACGTAAA
1 GTTCCCAAACGTAAA
*
76808 GTTTCCAAA
1 GTTCCCAAA
76817 AAATAGGTAA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
15 22 1.00
ACGTcount: A:0.38, C:0.23, G:0.13, T:0.26
Consensus pattern (15 bp):
GTTCCCAAACGTAAA
Found at i:77203 original size:199 final size:200
Alignment explanation
Indices: 76836--78000 Score: 1586
Period size: 199 Copynumber: 5.8 Consensus size: 200
76826 AGCAGATGTA
* * *
76836 TCGATACATTTATAAAAAGTATCGATCCCAAAAAAATCAAAACCCATAATTATAATGTAATAGGT
1 TCGATACATTTATAAAAAGTATCGATCCCAGAAACATCGAAACCCATAATTATAATGTAATAGGT
** * * * * * *
76901 AATTTTGTAATAAAATCGATATAAATATATCAGTTTTATGTGAGAAAAGATCTACATAATGTATC
66 AATTTTGTAATGTAACCGGTATAAATATACCGGTTTTATGTGAGAATAGGTCTACATAATGTATC
* * * * * *
76966 GACACTTTTGAAATTTGTTTTGATACTTTTTATCCAGAATGAATGCCCGAAATGGTGAACGCATA
131 GACACTTTTGAAATTTGTGTCGATACATTTTGTCCAGAATGAATGCCCAAAATGGTGCACGCATA
77031 AAGTG
196 AAGTG
* * * *
77036 TCGATACATTTATAAAAAGTTTCGATCTCAGAGACATCG-AACCCATAATTATAGTGTAATAGGT
1 TCGATACATTTATAAAAAGTATCGATCCCAGAAACATCGAAACCCATAATTATAATGTAATAGGT
77100 AATTTTGTAATGTAACCGGTATAAATATACCGGTTTTATGTGAGAATAGGTCTACATAATGTATC
66 AATTTTGTAATGTAACCGGTATAAATATACCGGTTTTATGTGAGAATAGGTCTACATAATGTATC
* * *
77165 GACACTTTTTAATTTTGTGTCAATACATTTTGTCCAGAATGAATGCCCAAAAAAATGGTGCACGC
131 GACACTTTTGAAATTTGTGTCGATACATTTTGTCCAGAATGAATGCCC---AAAATGGTGCACGC
77230 ATAAAGTG
193 ATAAAGTG
*
77238 TCGATACATTTATAAAAAGTATCGATCCCAGAAACATCGAAACCCATGATTATAATGTAATAGGT
1 TCGATACATTTATAAAAAGTATCGATCCCAGAAACATCGAAACCCATAATTATAATGTAATAGGT
**
77303 AATTTT-TCAATGTAACCGGTATAAATATACATGTTTTATGTGAGAATAGGTCTACATAATGTAT
66 AATTTTGT-AATGTAACCGGTATAAATATACCGGTTTTATGTGAGAATAGGTCTACATAATGTAT
* * * * * *
77367 CGACACATTTGAAATTGGTGTTGATACTTTTTGTCCAGAATGAATGCCCAAAATAGTGAACGCAT
130 CGACACTTTTGAAATTTGTGTCGATACATTTTGTCCAGAATGAATGCCCAAAATGGTGCACGCAT
77432 AAAGTG
195 AAAGTG
* * * *
77438 TCGATACATTTTTAAAAAATGTCGATCCCAGAGACATCG-AACCCATAATTATAATGTAATAGGT
1 TCGATACATTTATAAAAAGTATCGATCCCAGAAACATCGAAACCCATAATTATAATGTAATAGGT
77502 AATTTTGTAATGTAACCGGTATAAATATACCGGTTTTATGTGAGAATAGGTCTACATAATGTATC
66 AATTTTGTAATGTAACCGGTATAAATATACCGGTTTTATGTGAGAATAGGTCTACATAATGTATC
* * *
77567 GACACTTTTTAATTTTGTGTCGATACATTTTTTCCAGAATGAATGCCCAAAAAAATGGTGCACGC
131 GACACTTTTGAAATTTGTGTCGATACATTTTGTCCAGAATGAATGCCC---AAAATGGTGCACGC
77632 ATAAAGTG
193 ATAAAGTG
*
77640 TCGATACATTTATAAAAAGTATCGATCCCAGAAACATCGAAACCCATGATTATAATGTAATAGGT
1 TCGATACATTTATAAAAAGTATCGATCCCAGAAACATCGAAACCCATAATTATAATGTAATAGGT
* * * * *
77705 AATATTT-CAATGTAACCGGTAAAAATATACCGGTTTTATGCGAGAATAGGTCTAGAAAATGTAT
66 AAT-TTTGTAATGTAACCGGTATAAATATACCGGTTTTATGTGAGAATAGGTCTACATAATGTAT
* * * * * *
77769 CGACACTTATGGAATTTGTGTCGATACTTTTTGTCCAGAAGGAATG-CCAAAAGGGTGCACCCAT
130 CGACACTTTTGAAATTTGTGTCGATACATTTTGTCCAGAATGAATGCCCAAAATGGTGCACGCAT
*
77833 TAAGTG
195 AAAGTG
* * * *
77839 TCGATACATTTTTAAAAAGTGTCGATCCCAAAAACATCGAAACCGATAATTATAATGTAATAGGT
1 TCGATACATTTATAAAAAGTATCGATCCCAGAAACATCGAAACCCATAATTATAATGTAATAGGT
* ** * * * * * * *
77904 AAATTTCCAATGTAACCAGTATAAATATATCAGTTTTATGAGAAAATAGGTCAACATAAAGTATC
66 AATTTTGTAATGTAACCGGTATAAATATACCGGTTTTATGTGAGAATAGGTCTACATAATGTATC
*
77969 GACAATTGTT-AAATTTGTGTCGATATCATTTT
131 GACACTT-TTGAAATTTGTGTCGATA-CATTTT
78001 AAAAATCGCG
Statistics
Matches: 855, Mismatches: 96, Indels: 28
0.87 0.10 0.03
Matches are distributed among these distances:
198 3 0.00
199 397 0.46
200 95 0.11
202 114 0.13
203 243 0.28
204 3 0.00
ACGTcount: A:0.37, C:0.14, G:0.16, T:0.32
Consensus pattern (200 bp):
TCGATACATTTATAAAAAGTATCGATCCCAGAAACATCGAAACCCATAATTATAATGTAATAGGT
AATTTTGTAATGTAACCGGTATAAATATACCGGTTTTATGTGAGAATAGGTCTACATAATGTATC
GACACTTTTGAAATTTGTGTCGATACATTTTGTCCAGAATGAATGCCCAAAATGGTGCACGCATA
AAGTG
Found at i:77580 original size:402 final size:400
Alignment explanation
Indices: 76836--78000 Score: 1776
Period size: 402 Copynumber: 2.9 Consensus size: 400
76826 AGCAGATGTA
* * * *
76836 TCGATACATTTATAAAAAGTATCGATCCCAAAAAAATCAAAACCCATAATTATAATGTAATAGGT
1 TCGATACATTTATAAAAAGTATCGATCCCAGAAACATCGAAACCCATGATTATAATGTAATAGGT
** * * * *
76901 AATTTTGT-AATAAAATCGATATAAATATATCAGTTTTATGTGAGAAAAGATCTACATAATGTAT
66 AATTTT-TCAATGTAACCGGTATAAATATA-CAGTTTTATGTGAGAATAGGTCTACATAATGTAT
* * *
76965 CGACACTTTTGAAATTTGTTTTGATACTTTTTATCCAGAATGAATGCCCGAAATGGTGAACGCAT
129 CGACAC-TTTGAAATTTGTGTTGATACTTTTTGTCCAGAATGAATGCCCAAAATGGTGAACGCAT
* * * *
77030 AAAGTGTCGATACATTTATAAAAAGTTTCGATCTCAGAGACATCGAACCCATAATTATAGTGTAA
193 AAAGTGTCGATACATTTTTAAAAAGTGTCGATCCCAGAGACATCGAACCCATAATTATAATGTAA
77095 TAGGTAATTTTGTAATGTAACCGGTATAAATATACCGGTTTTATGTGAGAATAGGTCTACATAAT
258 TAGGTAATTTTGTAATGTAACCGGTATAAATATACCGGTTTTATGTGAGAATAGGTCTACATAAT
*
77160 GTATCGACACTTTTTAATTTTGTGTCAATACATTTTGTCCAGAATGAATGCCCAAAAAAATGGTG
323 GTATCGACACTTTTTAATTTTGTGTCGATACATTTTGTCCAGAATGAATGCCCAAAAAAATGGTG
77225 CACGCATAAAGTG
388 CACGCATAAAGTG
77238 TCGATACATTTATAAAAAGTATCGATCCCAGAAACATCGAAACCCATGATTATAATGTAATAGGT
1 TCGATACATTTATAAAAAGTATCGATCCCAGAAACATCGAAACCCATGATTATAATGTAATAGGT
77303 AATTTTTCAATGTAACCGGTATAAATATACATGTTTTATGTGAGAATAGGTCTACATAATGTATC
66 AATTTTTCAATGTAACCGGTATAAATATACA-GTTTTATGTGAGAATAGGTCTACATAATGTATC
* *
77368 GACACATTTGAAATTGGTGTTGATACTTTTTGTCCAGAATGAATGCCCAAAATAGTGAACGCATA
130 GACAC-TTTGAAATTTGTGTTGATACTTTTTGTCCAGAATGAATGCCCAAAATGGTGAACGCATA
*
77433 AAGTGTCGATACATTTTTAAAAAATGTCGATCCCAGAGACATCGAACCCATAATTATAATGTAAT
194 AAGTGTCGATACATTTTTAAAAAGTGTCGATCCCAGAGACATCGAACCCATAATTATAATGTAAT
77498 AGGTAATTTTGTAATGTAACCGGTATAAATATACCGGTTTTATGTGAGAATAGGTCTACATAATG
259 AGGTAATTTTGTAATGTAACCGGTATAAATATACCGGTTTTATGTGAGAATAGGTCTACATAATG
*
77563 TATCGACACTTTTTAATTTTGTGTCGATACATTTTTTCCAGAATGAATGCCCAAAAAAATGGTGC
324 TATCGACACTTTTTAATTTTGTGTCGATACATTTTGTCCAGAATGAATGCCCAAAAAAATGGTGC
77628 ACGCATAAAGTG
389 ACGCATAAAGTG
77640 TCGATACATTTATAAAAAGTATCGATCCCAGAAACATCGAAACCCATGATTATAATGTAATAGGT
1 TCGATACATTTATAAAAAGTATCGATCCCAGAAACATCGAAACCCATGATTATAATGTAATAGGT
* * * * * *
77705 AATATTTCAATGTAACCGGTAAAAATATACCGGTTTTATGCGAGAATAGGTCTAGAAAATGTATC
66 AATTTTTCAATGTAACCGGTATAAATATA-CAGTTTTATGTGAGAATAGGTCTACATAATGTATC
* * * * * * *
77770 GACACTTATGGAATTTGTGTCGATACTTTTTGTCCAGAAGGAATG-CCAAAAGGGTGCACCCATT
130 GACACTT-TGAAATTTGTGTTGATACTTTTTGTCCAGAATGAATGCCCAAAATGGTGAACGCATA
* * *
77834 AAGTGTCGATACATTTTTAAAAAGTGTCGATCCCAAAAACATCGAAACCGATAATTATAATGTAA
194 AAGTGTCGATACATTTTTAAAAAGTGTCGATCCCAGAGACATCG-AACCCATAATTATAATGTAA
* ** * * * * * * *
77899 TAGGTAAATTTCCAATGTAACCAGTATAAATATATCAGTTTTATGAGAAAATAGGTCAACATAAA
258 TAGGTAATTTTGTAATGTAACCGGTATAAATATACCGGTTTTATGTGAGAATAGGTCTACATAAT
* * *
77964 GTATCGACAATTGTTAAATTTGTGTCGATATCATTTT
323 GTATCGACACTTTTTAATTTTGTGTCGATA-CATTTT
78001 AAAAATCGCG
Statistics
Matches: 702, Mismatches: 55, Indels: 11
0.91 0.07 0.01
Matches are distributed among these distances:
401 60 0.09
402 635 0.90
403 7 0.01
ACGTcount: A:0.37, C:0.14, G:0.16, T:0.32
Consensus pattern (400 bp):
TCGATACATTTATAAAAAGTATCGATCCCAGAAACATCGAAACCCATGATTATAATGTAATAGGT
AATTTTTCAATGTAACCGGTATAAATATACAGTTTTATGTGAGAATAGGTCTACATAATGTATCG
ACACTTTGAAATTTGTGTTGATACTTTTTGTCCAGAATGAATGCCCAAAATGGTGAACGCATAAA
GTGTCGATACATTTTTAAAAAGTGTCGATCCCAGAGACATCGAACCCATAATTATAATGTAATAG
GTAATTTTGTAATGTAACCGGTATAAATATACCGGTTTTATGTGAGAATAGGTCTACATAATGTA
TCGACACTTTTTAATTTTGTGTCGATACATTTTGTCCAGAATGAATGCCCAAAAAAATGGTGCAC
GCATAAAGTG
Found at i:80752 original size:18 final size:18
Alignment explanation
Indices: 80731--80767 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
80721 GTAATTGGAG
80731 TTTGAATTTAAATTTCAA
1 TTTGAATTTAAATTTCAA
* *
80749 TTTGAGTTTGAATTTCAA
1 TTTGAATTTAAATTTCAA
80767 T
1 T
80768 ATAAATTTTG
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:0.32, C:0.05, G:0.11, T:0.51
Consensus pattern (18 bp):
TTTGAATTTAAATTTCAA
Found at i:80774 original size:24 final size:24
Alignment explanation
Indices: 80723--80775 Score: 70
Period size: 24 Copynumber: 2.2 Consensus size: 24
80713 TTTCATATGT
* * *
80723 AATTGGAGTTTGAATTTAAATTTC
1 AATTTGAGTTTGAATTTAAATATA
*
80747 AATTTGAGTTTGAATTTCAATATA
1 AATTTGAGTTTGAATTTAAATATA
80771 AATTT
1 AATTT
80776 TGGCTCCACT
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.36, C:0.04, G:0.13, T:0.47
Consensus pattern (24 bp):
AATTTGAGTTTGAATTTAAATATA
Found at i:81516 original size:200 final size:198
Alignment explanation
Indices: 81003--81764 Score: 928
Period size: 200 Copynumber: 3.8 Consensus size: 198
80993 TAAAGTTTCC
* *
81003 CATAAAGTGTCGATACATTTATAAAATGTATCGATCCAAAAAATATCGAAACCGAAAATTATAAT
1 CATAAAGTGTCGATACATTTATAAAAAGTATCGATCCAAAAAACATCGAAACCGAAAATTATAAT
* * * * *
81068 GTAATAGGTAAATTTATAATGTTA-TCGGTATAAATATACCGATTTTATGAGCAAATAGGCCAGC
66 GTAATAGGTAAATTTACAATGTAACT-GGTATAAATATACCGATTTTATGAGAAAATAGG-TAAC
* * * ** * *
81132 ATAAAGTATCGACAACTTATAAATTTGTGTCGATACTTTTTGTCCGAGCCT--TTGCTC-AACGA
129 ATAATGTATCGAC-ACTTTTAAATTTGTGTCGATACATTTTGTCC-AGAATGAATGC-CAAACGG
* * *
81194 GCTTCACA
191 GGTGCACG
**
81202 CATAAAAGTGTCGATACATTTA-AAATTGTATCGATCCAAAAAACATCGAAACCGAAAATTATAA
1 CAT-AAAGTGTCGATACATTTATAAAAAGTATCGATCCAAAAAACATCGAAACCGAAAATTATAA
* * ** *
81266 TGTAATAGGTATATATACAATGTAACCAGTATAAATATATC-AGTTTTATGAGAAAATAGGTATA
65 TGTAATAGGTAAATTTACAATGTAACTGGTATAAATATACCGA-TTTTATGAGAAAATAGGTA-A
* *
81330 CATAATGTATCGACACTGTTTAAATTTGTGTCAATACATTTTGTCCATAATGAATGCCAAACGGG
128 CATAATGTATCGACACT-TTTAAATTTGTGTCGATACATTTTGTCCAGAATGAATGCCAAACGGG
81395 GTGCACG
192 GTGCACG
* *
81402 CATAAAGTGTCGATACATTTTTAAAAAGTATCGATCTC-AAAAACATCGAAACCGATAATTATAA
1 CATAAAGTGTCGATACATTTATAAAAAGTATCGATC-CAAAAAACATCGAAACCGAAAATTATAA
* * * ** *
81466 TATAATACGCAAATTTACAATGTAACTGGTATAAGCATACCGATTTTATGAGAAAATAGGTGAGC
65 TGTAATAGGTAAATTTACAATGTAACTGGTATAAATATACCGATTTTATGAGAAAATAGGT-AAC
* * *
81531 ATAATGTATCGACACTTTTTAGATTTGTATCGATACATTTTTTCCAGAATGAATG-CAAAGCGGG
129 ATAATGTATCGACAC-TTTTAAATTTGTGTCGATACATTTTGTCCAGAATGAATGCCAAA-CGGG
81595 GTGCACG
192 GTGCACG
* * *
81602 CATAAAGTGTCGATACATTAATAAAAAGTATCGATCTAAAAAACATCGAAACCGAAAAGTATAAT
1 CATAAAGTGTCGATACATTTATAAAAAGTATCGATCCAAAAAACATCGAAACCGAAAATTATAAT
* * *
81667 GTAATAGGTAAATTTATAATGTAACTGGTATAAATATACCGGTTTTATGAGAAAATAGGTTAATA
66 GTAATAGGTAAATTTACAATGTAACTGGTATAAATATACCGATTTTATGAGAAAATAGG-TAACA
* * *
81732 TAGTGTATCGACACTTTTACATTTATGTCGATA
130 TAATGTATCGACACTTTTAAATTTGTGTCGATA
81765 TGTTTTTAAA
Statistics
Matches: 485, Mismatches: 62, Indels: 32
0.84 0.11 0.06
Matches are distributed among these distances:
198 7 0.01
199 168 0.35
200 305 0.63
201 5 0.01
ACGTcount: A:0.40, C:0.14, G:0.16, T:0.31
Consensus pattern (198 bp):
CATAAAGTGTCGATACATTTATAAAAAGTATCGATCCAAAAAACATCGAAACCGAAAATTATAAT
GTAATAGGTAAATTTACAATGTAACTGGTATAAATATACCGATTTTATGAGAAAATAGGTAACAT
AATGTATCGACACTTTTAAATTTGTGTCGATACATTTTGTCCAGAATGAATGCCAAACGGGGTGC
ACG
Found at i:85795 original size:200 final size:198
Alignment explanation
Indices: 85438--85961 Score: 664
Period size: 200 Copynumber: 2.6 Consensus size: 198
85428 TGTTAAGAAT
* *
85438 ATAAAGTGTCGATACATTTATTAAAAGTATTGATCCCAATAACATCGAAACCAATAATTATAATG
1 ATAAAGTGTCGATACATTTATTAAAAGTATCGATCCCAA-AACATCGAAACCGATAATTATAATG
* *
85503 TAATAGGTAAATTTACAATGTAACTGGTATAAATATATCATTTTTATAAGAAAATATGTCAGCAT
65 TAATAGGTAAATTTACAATGTAACTGGTATAAATATATCAGTTTTATAAGAAAATATGTCAGAAT
* * * *
85568 AAAGTATAGACACTATTTAAATTTGTGTCGATACTTTTTGTCTATAATGAATGTCAAACGGGGTG
130 AAAGTATAGACACTATTTAAATTTGTGTCGATACTTTTT-TCCAGAATGAATGGCAAACGAGGTG
85633 CACAC
194 CACAC
* *
85638 ATAAAATGTCGATACATTTATTAAAAGTATCGATCCCACAAACATCGAAACCGATAATTACAATG
1 ATAAAGTGTCGATACATTTATTAAAAGTATCGATCCCA-AAACATCGAAACCGATAATTATAATG
* * *
85703 TGATAGGTAAATTTACAATGT-AC-GCGATATAAATATATCGGTTTTATGAGAAAATATGTCTA-
65 TAATAGGTAAATTTACAATGTAACTG-G-TATAAATATATCAGTTTTATAAGAAAATATGTC-AG
* * * * *
85765 AATAATGTATCGACACTTTTTAAGTTTGTGTCGATACTTTTTTCCAGAATGAATGGCCAACGAGG
127 AATAAAGTATAGACACTATTTAAATTTGTGTCGATACTTTTTTCCAGAATGAATGGCAAACGAGG
**
85830 TGCATGC
192 TGCACAC
* **
85837 ATAAAGTGTCGATACATTTA--AAATTGTATCGATCTAAAAAACATCGAAACCGATAATTATAAT
1 ATAAAGTGTCGATACATTTATTAAA-AGTATCGATC-CCAAAACATCGAAACCGATAATTATAAT
* * * * * *
85900 GTAATAGGTAAATTTGCAATTTTACTAGTATAAATATATCAG-TTTACTTAGAAAATAGGTCA
64 GTAATAGGTAAATTTACAATGTAACTGGTATAAATATATCAGTTTTA-TAAGAAAATATGTCA
85962 ATATAAATGC
Statistics
Matches: 283, Mismatches: 32, Indels: 21
0.84 0.10 0.06
Matches are distributed among these distances:
197 8 0.03
198 78 0.28
199 49 0.17
200 146 0.52
201 2 0.01
ACGTcount: A:0.40, C:0.13, G:0.15, T:0.33
Consensus pattern (198 bp):
ATAAAGTGTCGATACATTTATTAAAAGTATCGATCCCAAAACATCGAAACCGATAATTATAATGT
AATAGGTAAATTTACAATGTAACTGGTATAAATATATCAGTTTTATAAGAAAATATGTCAGAATA
AAGTATAGACACTATTTAAATTTGTGTCGATACTTTTTTCCAGAATGAATGGCAAACGAGGTGCA
CAC
Found at i:86064 original size:86 final size:86
Alignment explanation
Indices: 85962--86172 Score: 377
Period size: 86 Copynumber: 2.5 Consensus size: 86
85952 AAATAGGTCA
*
85962 ATATAAATGCTACCTATTACATTATATAAGCGCTACCTAATATGTTATTGTACTTGATAATATTT
1 ATATAAGTGCTACCTATTACATTATATAAGCGCTACCTAATATGTTATTGTACTTGATAATATTT
**
86027 TCGGTTAAATGTTATTTTATT
66 TCGGTTAAATACTATTTTATT
86048 ATATAAGTGCTACCTATTACATTATATAAGCGCTACCTAATATGTTATTGTACTTGATAATATTT
1 ATATAAGTGCTACCTATTACATTATATAAGCGCTACCTAATATGTTATTGTACTTGATAATATTT
86113 TCGGTTAAATACTATTTTATT
66 TCGGTTAAATACTATTTTATT
* *
86134 ATATAAGCGCTACCTATTACATTATATAAACGCTACCTA
1 ATATAAGTGCTACCTATTACATTATATAAGCGCTACCTA
86173 TTACATTATA
Statistics
Matches: 120, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
86 120 1.00
ACGTcount: A:0.34, C:0.14, G:0.10, T:0.42
Consensus pattern (86 bp):
ATATAAGTGCTACCTATTACATTATATAAGCGCTACCTAATATGTTATTGTACTTGATAATATTT
TCGGTTAAATACTATTTTATT
Found at i:86095 original size:23 final size:23
Alignment explanation
Indices: 86045--86089 Score: 72
Period size: 23 Copynumber: 2.0 Consensus size: 23
86035 ATGTTATTTT
* *
86045 ATTATATAAGTGCTACCTATTAC
1 ATTATATAAGCGCTACCTAATAC
86068 ATTATATAAGCGCTACCTAATA
1 ATTATATAAGCGCTACCTAATA
86090 TGTTATTGTA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.38, C:0.18, G:0.09, T:0.36
Consensus pattern (23 bp):
ATTATATAAGCGCTACCTAATAC
Found at i:86204 original size:23 final size:23
Alignment explanation
Indices: 86131--86193 Score: 117
Period size: 23 Copynumber: 2.7 Consensus size: 23
86121 ATACTATTTT
86131 ATTATATAAGCGCTACCTATTAC
1 ATTATATAAGCGCTACCTATTAC
*
86154 ATTATATAAACGCTACCTATTAC
1 ATTATATAAGCGCTACCTATTAC
86177 ATTATATAAGCGCTACC
1 ATTATATAAGCGCTACC
86194 AAATATGTTA
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 38 1.00
ACGTcount: A:0.37, C:0.22, G:0.08, T:0.33
Consensus pattern (23 bp):
ATTATATAAGCGCTACCTATTAC
Found at i:86887 original size:198 final size:196
Alignment explanation
Indices: 86545--86944 Score: 515
Period size: 198 Copynumber: 2.0 Consensus size: 196
86535 CTGATAAAGT
* *
86545 ATAAAGTATCGACACTATTTAAATTTGTGTCGATACTTTTTGTCCATAATGAATGCCAAACGGGT
1 ATAAAGTATCGACACTATTTAAATTTGTGTCGATACTTTTTGTCCAGAATGAATGCCAAACGGAT
* *
86610 GCACATAAAATGTCGATACATTTATTAAAAGTATCGATCCCACAAACATCGAAACCGATAATTAC
66 GCACATAAAATGTCGATACATTTA-TAAAAGTATCGATCCAAAAAACATCGAAACCGATAATTAC
*
86675 AATGTGATAGGTAAATTTACAA-TGTACCT-GATATAAATATACCGGTTTTA-TGAGAAAATATG
130 AATGTAATAGGTAAATTTACAATTGTA-CTAG-TATAAATATACCGG-TTTACTGAGAAAATATG
86737 TCTAA
192 TCTAA
* * * *
86742 ATAATGTATCGACACTTTTTAAGTTTGTGTCGATACTTTTT-TCCAGAATGAATGGCAAACGAGA
1 ATAAAGTATCGACACTATTTAAATTTGTGTCGATACTTTTTGTCCAGAATGAATGCCAAACG-GA
* * * *
86806 TGCATACATAAAGTGTCGATACATTTA-AAATTGTATCGATCTAAAAAATATCGAAACCGATAAT
65 TGC--ACATAAAATGTCGATACATTTATAAA-AGTATCGATCCAAAAAACATCGAAACCGATAAT
* * * * *
86870 TATAATGTAATAGGTAAATTTATAATTTTACTAGTATAAATATATCGGTTTACTTAGAAAATATG
127 TACAATGTAATAGGTAAATTTACAATTGTACTAGTATAAATATACCGGTTTACTGAGAAAATATG
86935 TC-AA
192 TCTAA
86939 TATAAA
1 -ATAAA
86945 TATTACCTAT
Statistics
Matches: 176, Mismatches: 19, Indels: 15
0.84 0.09 0.07
Matches are distributed among these distances:
196 18 0.10
197 51 0.29
198 82 0.47
199 25 0.14
ACGTcount: A:0.39, C:0.13, G:0.14, T:0.34
Consensus pattern (196 bp):
ATAAAGTATCGACACTATTTAAATTTGTGTCGATACTTTTTGTCCAGAATGAATGCCAAACGGAT
GCACATAAAATGTCGATACATTTATAAAAGTATCGATCCAAAAAACATCGAAACCGATAATTACA
ATGTAATAGGTAAATTTACAATTGTACTAGTATAAATATACCGGTTTACTGAGAAAATATGTCTA
A
Found at i:87042 original size:86 final size:86
Alignment explanation
Indices: 86948--87148 Score: 305
Period size: 86 Copynumber: 2.3 Consensus size: 86
86938 ATATAAATAT
* *
86948 TACCTATTATATTATATAAGCGCTACCTAATATGTTATTGTACTTGATAATATTTTTTG-TTAAA
1 TACCTATTATATTATATAAGCGCTACCTAATATGTTATTATACTTGATAATA-TTTTCGATTAAA
* *
87012 TATTATTTTATTATATAAGTGC
65 TACTATTTTATTATATAAGCGC
* * *
87034 TACCTATTACATTAAATAAGCGCTATCTAATATGTTATTATACTTGATAATATTTTCGATTAAAT
1 TACCTATTATATTATATAAGCGCTACCTAATATGTTATTATACTTGATAATATTTTCGATTAAAT
*
87099 GCTATTTTATTATATAAGCGC
66 ACTATTTTATTATATAAGCGC
*
87120 TACCTATTATATTATATAAACGCTACCTA
1 TACCTATTATATTATATAAGCGCTACCTA
87149 TTACATTATA
Statistics
Matches: 102, Mismatches: 12, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
85 5 0.05
86 97 0.95
ACGTcount: A:0.34, C:0.12, G:0.08, T:0.45
Consensus pattern (86 bp):
TACCTATTATATTATATAAGCGCTACCTAATATGTTATTATACTTGATAATATTTTCGATTAAAT
ACTATTTTATTATATAAGCGC
Found at i:87126 original size:23 final size:23
Alignment explanation
Indices: 87100--87180 Score: 117
Period size: 23 Copynumber: 3.5 Consensus size: 23
87090 CGATTAAATG
*
87100 CTATTTTATTATATAAGCGCTAC
1 CTATTATATTATATAAGCGCTAC
*
87123 CTATTATATTATATAAACGCTAC
1 CTATTATATTATATAAGCGCTAC
*
87146 CTATTACATTATATAAGCGCTAC
1 CTATTATATTATATAAGCGCTAC
* *
87169 CTAATATGTTAT
1 CTATTATATTAT
87181 TGTACTTAAT
Statistics
Matches: 51, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 51 1.00
ACGTcount: A:0.35, C:0.17, G:0.07, T:0.41
Consensus pattern (23 bp):
CTATTATATTATATAAGCGCTAC
Found at i:94329 original size:2 final size:2
Alignment explanation
Indices: 94322--94353 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
94312 TTAAAACAAT
94322 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
94354 ATGTTATGAT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:94548 original size:22 final size:21
Alignment explanation
Indices: 94527--94578 Score: 63
Period size: 21 Copynumber: 2.5 Consensus size: 21
94517 TACATATATA
94527 ATAA-TATA-AAGTATTATGT
1 ATAAGTATATAAGTATTATGT
**
94546 ATAAGTATATAAGTATTAAAT
1 ATAAGTATATAAGTATTATGT
94567 ATAAAGTATATA
1 AT-AAGTATATA
94579 TATATATACA
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
19 4 0.14
20 4 0.14
21 11 0.39
22 9 0.32
ACGTcount: A:0.52, C:0.00, G:0.10, T:0.38
Consensus pattern (21 bp):
ATAAGTATATAAGTATTATGT
Found at i:94696 original size:15 final size:14
Alignment explanation
Indices: 94664--94976 Score: 87
Period size: 14 Copynumber: 22.4 Consensus size: 14
94654 AGACTAAAGT
94664 ATATAAA-TATATA
1 ATATAAAGTATATA
94677 ATATAAAGTATATA
1 ATATAAAGTATATA
* *
94691 TCTATAAAGTACA-A
1 -ATATAAAGTATATA
* *
94705 GTATATA-TATATA
1 ATATAAAGTATATA
* *
94718 CTTTATAAGTATA-A
1 ATATA-AAGTATATA
* *
94732 GTATATTA-TATATA
1 ATATA-AAGTATATA
94746 A-A-AAAGTATA-A
1 ATATAAAGTATATA
94757 ATATAAAG-ACTA-A
1 ATATAAAGTA-TATA
*
94770 AGTATATAAGTACATAA
1 A-TATA-AAGTATAT-A
94787 ATATAAAGTATATA
1 ATATAAAGTATATA
94801 AGTATATAA-TATA-A
1 A-TATA-AAGTATATA
* *
94815 AGTATACACGCAT-TA
1 A-TATA-AAGTATATA
94830 A-ATAAAGTATATAA
1 ATATAAAGTATAT-A
94844 ATATAAA-TATATA
1 ATATAAAGTATATA
*
94857 AGTATATATA-CATAATA
1 A-TATA-A-AGTAT-ATA
94874 ATAATATAAGTATA-A
1 AT-ATA-AAGTATATA
*
94889 CTATATAA-TA-ATA
1 ATATA-AAGTATATA
94902 ATATAAAGTATATA
1 ATATAAAGTATATA
* *
94916 TAGATATAG-ATAT-
1 -ATATAAAGTATATA
*
94929 ATATATA-TATATA
1 ATATAAAGTATATA
* *
94942 TATATATATTATATA
1 -ATATAAAGTATATA
*
94957 TATATATA-TATATA
1 -ATATAAAGTATATA
94971 TATATA
1 -ATATA
94977 CTTAATACTT
Statistics
Matches: 237, Mismatches: 27, Indels: 71
0.71 0.08 0.21
Matches are distributed among these distances:
11 3 0.01
12 27 0.11
13 44 0.19
14 72 0.30
15 65 0.27
16 13 0.05
17 13 0.05
ACGTcount: A:0.54, C:0.03, G:0.06, T:0.37
Consensus pattern (14 bp):
ATATAAAGTATATA
Found at i:94786 original size:8 final size:8
Alignment explanation
Indices: 94769--94915 Score: 76
Period size: 8 Copynumber: 20.1 Consensus size: 8
94759 ATAAAGACTA
94769 AAGTATAT
1 AAGTATAT
*
94777 AAGTACAT
1 AAGTATAT
*
94785 AAATATA-
1 AAGTATAT
94792 AAGTATAT
1 AAGTATAT
94800 AAGTATAT
1 AAGTATAT
94808 AA-TATA-
1 AAGTATAT
*
94814 AAGTATAC
1 AAGTATAT
* *
94822 ACGCAT-T
1 AAGTATAT
94829 AA--ATA-
1 AAGTATAT
94834 AAGTATAT
1 AAGTATAT
94842 AA--ATAT
1 AAGTATAT
*
94848 AAATATAT
1 AAGTATAT
94856 AAGTATAT
1 AAGTATAT
*
94864 ATA-CATAAT
1 A-AGTAT-AT
94873 AA-TAATAT
1 AAGT-ATAT
94881 AAG--TAT
1 AAGTATAT
*
94887 AACTATAT
1 AAGTATAT
94895 AA-TA-AT
1 AAGTATAT
94901 AA-TATA-
1 AAGTATAT
94907 AAGTATAT
1 AAGTATAT
94915 A
1 A
94916 TAGATATAGA
Statistics
Matches: 109, Mismatches: 12, Indels: 36
0.69 0.08 0.23
Matches are distributed among these distances:
5 4 0.04
6 21 0.19
7 25 0.23
8 53 0.49
9 6 0.06
ACGTcount: A:0.56, C:0.04, G:0.07, T:0.33
Consensus pattern (8 bp):
AAGTATAT
Found at i:94993 original size:2 final size:2
Alignment explanation
Indices: 94837--94976 Score: 120
Period size: 2 Copynumber: 73.0 Consensus size: 2
94827 TTAAATAAAG
* * *
94837 TA TA TA AA TA TA AA TA TA TA -A GTA TA TA TA CA TA -A TA -A TA
1 TA TA TA TA TA TA TA TA TA TA TA -TA TA TA TA TA TA TA TA TA TA
*
94877 -A TA TA -A GTA TA -A CTA TA TA -A TA -A TA -A TA TA AA GTA TA
1 TA TA TA TA -TA TA TA -TA TA TA TA TA TA TA TA TA TA TA -TA TA
* *
94914 TA TA GA TA TA GA TA TA TA TA TA TA TA TA TA TA TA TA T- TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
94955 TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA
94977 CTTAATACTT
Statistics
Matches: 112, Mismatches: 12, Indels: 28
0.74 0.08 0.18
Matches are distributed among these distances:
1 10 0.09
2 98 0.88
3 4 0.04
ACGTcount: A:0.54, C:0.01, G:0.04, T:0.41
Consensus pattern (2 bp):
TA
Found at i:95107 original size:40 final size:39
Alignment explanation
Indices: 95013--95152 Score: 95
Period size: 40 Copynumber: 3.5 Consensus size: 39
95003 TATCTTTATA
* * ** *
95013 ATTATACTTTATATTTAATACTTATATACTTTATATTA-T
1 ATTATATTTTATATAT-ATACACATACACTTTATATTAGT
*
95052 ATTCATATATATATATATATACACATACACTTTATATTAGT
1 ATT-ATAT-TTTATATATATACACATACACTTTATATTAGT
* ** * * *
95093 ACTTATATTTTATAT-TATGCTTATATACTTTACTCTTTGT
1 A-TTATATTTTATATATATACACATACACTTTA-TATTAGT
*
95133 AATTATACTTTATATATATA
1 -ATTATATTTTATATATATA
95153 ATATTTATAC
Statistics
Matches: 79, Mismatches: 15, Indels: 12
0.75 0.14 0.11
Matches are distributed among these distances:
39 16 0.20
40 44 0.56
41 17 0.22
42 2 0.03
ACGTcount: A:0.36, C:0.10, G:0.02, T:0.52
Consensus pattern (39 bp):
ATTATATTTTATATATATACACATACACTTTATATTAGT
Found at i:95117 original size:18 final size:19
Alignment explanation
Indices: 95082--95118 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
95072 ACACATACAC
95082 TTTATATTAGTACTTATAT
1 TTTATATTAGTACTTATAT
*
95101 TTTATATTA-TGCTTATAT
1 TTTATATTAGTACTTATAT
95119 ACTTTACTCT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 8 0.47
19 9 0.53
ACGTcount: A:0.30, C:0.05, G:0.05, T:0.59
Consensus pattern (19 bp):
TTTATATTAGTACTTATAT
Found at i:95160 original size:22 final size:21
Alignment explanation
Indices: 95135--95189 Score: 60
Period size: 21 Copynumber: 2.6 Consensus size: 21
95125 CTCTTTGTAA
95135 TTATACTTTATATATATAATAT-
1 TTATACTTTATAT-TAT-ATATG
*
95157 TTATAC-TTATATTATATGTG
1 TTATACTTTATATTATATATG
95177 TATATACTTTATA
1 T-TATACTTTATA
95190 CTAAAACTAT
Statistics
Matches: 29, Mismatches: 1, Indels: 6
0.81 0.03 0.17
Matches are distributed among these distances:
19 3 0.10
20 4 0.14
21 11 0.38
22 11 0.38
ACGTcount: A:0.36, C:0.05, G:0.04, T:0.55
Consensus pattern (21 bp):
TTATACTTTATATTATATATG
Found at i:95272 original size:2 final size:2
Alignment explanation
Indices: 95265--95345 Score: 110
Period size: 2 Copynumber: 40.0 Consensus size: 2
95255 AATTATACTT
95265 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
* * *
95307 CTT TA TA T- TA TA TA TG TA TA TA TA CTT 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
95346 CTTTATATTT
Statistics
Matches: 70, Mismatches: 6, Indels: 6
0.85 0.07 0.07
Matches are distributed among these distances:
1 1 0.01
2 67 0.96
3 2 0.03
ACGTcount: A:0.44, C:0.02, G:0.01, T:0.52
Consensus pattern (2 bp):
TA
Found at i:95353 original size:24 final size:23
Alignment explanation
Indices: 95258--95345 Score: 142
Period size: 24 Copynumber: 3.8 Consensus size: 23
95248 AGTTTGTAAT
95258 TATACTTTATATATATATATATA
1 TATACTTTATATATATATATATA
*
95281 TATA-TATATATATATATATATA
1 TATACTTTATATATATATATATA
*
95303 TATACTTTATATTATATATGTATA
1 TATACTTTATA-TATATATATATA
95327 TATACTTTATATATATATA
1 TATACTTTATATATATATA
95346 CTTTATATTT
Statistics
Matches: 59, Mismatches: 4, Indels: 4
0.88 0.06 0.06
Matches are distributed among these distances:
22 21 0.36
23 16 0.27
24 22 0.37
ACGTcount: A:0.43, C:0.03, G:0.01, T:0.52
Consensus pattern (23 bp):
TATACTTTATATATATATATATA
Found at i:95456 original size:20 final size:20
Alignment explanation
Indices: 95368--95460 Score: 75
Period size: 20 Copynumber: 4.7 Consensus size: 20
95358 CCTATATAAT
95368 TATATAATTTATACACA-ATA
1 TATATAATTTATACA-ATATA
* *
95388 TATATAATTTAT--AGTTTA
1 TATATAATTTATACAATATA
* * *
95406 TATATAGTTTATATTAATAAAA
1 TATATAATTTATA-CAAT-ATA
* *
95428 TAGATAATTTATACAATGTA
1 TATATAATTTATACAATATA
95448 TATATAATTTATA
1 TATATAATTTATA
95461 ATTATACATA
Statistics
Matches: 56, Mismatches: 12, Indels: 10
0.72 0.15 0.13
Matches are distributed among these distances:
18 14 0.25
20 25 0.45
21 5 0.09
22 12 0.21
ACGTcount: A:0.46, C:0.03, G:0.04, T:0.46
Consensus pattern (20 bp):
TATATAATTTATACAATATA
Found at i:95471 original size:17 final size:17
Alignment explanation
Indices: 95431--95483 Score: 52
Period size: 17 Copynumber: 2.9 Consensus size: 17
95421 AATAAAATAG
*
95431 ATAATTTATACAATGTATAT
1 ATAATTTAT--AAT-TATAC
95451 ATAATTTATAATTATAC
1 ATAATTTATAATTATAC
* *
95468 ATAATATATAAATATA
1 ATAATTTATAATTATA
95484 AGTTGTATGT
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
17 18 0.60
18 3 0.10
20 9 0.30
ACGTcount: A:0.51, C:0.04, G:0.02, T:0.43
Consensus pattern (17 bp):
ATAATTTATAATTATAC
Found at i:95613 original size:2 final size:2
Alignment explanation
Indices: 95606--95672 Score: 57
Period size: 2 Copynumber: 33.0 Consensus size: 2
95596 TTATACATTG
* * * *
95606 TA TA TA TA GTC TA TA CA TA -A TA TA TA TA TA GTT TT TA TA TA GTA
1 TA TA TA TA -TA TA TA TA TA TA TA TA TA TA TA -TA TA TA TA TA -TA
95650 TA -A TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA
95673 CACACACACA
Statistics
Matches: 54, Mismatches: 6, Indels: 10
0.77 0.09 0.14
Matches are distributed among these distances:
1 2 0.04
2 48 0.89
3 4 0.07
ACGTcount: A:0.45, C:0.03, G:0.04, T:0.48
Consensus pattern (2 bp):
TA
Found at i:95613 original size:20 final size:21
Alignment explanation
Indices: 95590--95672 Score: 73
Period size: 20 Copynumber: 4.0 Consensus size: 21
95580 ATATAAACTC
*
95590 TATAGTTTATACAT-TGTATA
1 TATAGTTTATACATATATATA
*
95610 TATAGTCTATACATAATATATA
1 TATAGTTTATACAT-ATATATA
* *
95632 TATAGTTTTTATATAGTATA-A
1 TATAGTTTATACATA-TATATA
* *
95653 TATA-TATATATATATATATA
1 TATAGTTTATACATATATATA
95673 CACACACACA
Statistics
Matches: 52, Mismatches: 7, Indels: 8
0.78 0.10 0.12
Matches are distributed among these distances:
19 4 0.08
20 22 0.42
21 6 0.12
22 20 0.38
ACGTcount: A:0.42, C:0.04, G:0.06, T:0.48
Consensus pattern (21 bp):
TATAGTTTATACATATATATA
Found at i:95786 original size:6 final size:6
Alignment explanation
Indices: 95767--96234 Score: 96
Period size: 6 Copynumber: 69.0 Consensus size: 6
95757 TATTATATAC
*
95767 ATATAT ATAGTTT ATATTT AATACTTAT ATATTTT ATATTAT ATACTTAT
1 ATATTT ATA-TTT ATATTT -ATA-TT-T ATA-TTT ATATT-T ATA-TT-T
** * *
95817 ATACTTT ATATTT ATGCTT ATTACTTT AGTCTTT ATAATTTT ACTTTTT
1 ATA-TTT ATATTT ATATTT A-TA-TTT A-TATTT AT-A-TTT A-TATTT
* * * * *
95866 ATATAT ATACTT ATATTT ATATTAT ATATGTAT ATACTTT ATACTA AAACTTT
1 ATATTT ATATTT ATATTT ATATT-T ATAT-T-T ATA-TTT ATATTT ATA-TTT
* * * * *
95919 ATATATAT ATATAT ATATAT ATATAT ATATAT ATATTT ATTATATT GTAGTTAT
1 ATAT-T-T ATATTT ATATTT ATATTT ATATTT ATATTT A-TAT-TT ATA-TT-T
*
95973 ATATTT ATATTTAT ATACTTT ATATATT ATATATT ATATAT ACT-TTT
1 ATATTT ATA-TT-T ATA-TTT ATAT-TT ATAT-TT ATATTT A-TATTT
* *
96020 ATTATTAT ATATAT ATACTTT ATTTTT AATACTTAT ATATTT ATATTAT
1 A-TATT-T ATATTT ATA-TTT ATATTT -ATA-TT-T ATATTT ATATT-T
* *
96069 ATACTTAT ATACATT ATATTAT ATGCTTAT ATACTTT A-ATGTGT ATAATTAT
1 ATA-TT-T ATA-TTT ATATT-T AT-ATT-T ATA-TTT ATAT-T-T AT-ATT-T
* * * * * *
96121 ACTTTTT ATATAAT ATACTT ATATTTT ATATTAT ATATAT GTATAT ATACTTT
1 A-TATTT ATAT-TT ATATTT ATA-TTT ATATT-T ATATTT ATATTT ATA-TTT
* * * * * * * *
96174 ATACTA AAACTTT ATATAT ATATAT ATATAT ATATAT AT-TATT ATATAT
1 ATATTT ATA-TTT ATATTT ATATTT ATATTT ATATTT ATAT-TT ATATTT
96223 ATATTT ATATTT
1 ATATTT ATATTT
96235 GTGTTATATA
Statistics
Matches: 356, Mismatches: 58, Indels: 96
0.70 0.11 0.19
Matches are distributed among these distances:
5 2 0.01
6 146 0.41
7 123 0.35
8 78 0.22
9 7 0.02
ACGTcount: A:0.37, C:0.05, G:0.02, T:0.55
Consensus pattern (6 bp):
ATATTT
Found at i:95795 original size:22 final size:22
Alignment explanation
Indices: 95697--96106 Score: 200
Period size: 22 Copynumber: 18.4 Consensus size: 22
95687 CATACATACT
95697 TATACTTTATATGTATATATACTTTA
1 TATACTTTATAT-T-TA-ATAC-TTA
* *
95723 TATACTTTTTATTTAATATTTA
1 TATACTTTATATTTAATACTTA
*
95745 TAGACTTTATATTATTATATACATATA
1 TATACTTTATA-T-TTA-ATAC-T-TA
*
95772 TATAGTTTATATTTAATACTTA
1 TATACTTTATATTTAATACTTA
*
95794 TATATTTTATA-TTATATACTTA
1 TATACTTTATATTTA-ATACTTA
*
95816 TATACTTTATATTT-ATGCTTA
1 TATACTTTATATTTAATACTTA
* *
95837 T-TACTTTAGTCTTT-ATAATT-
1 TATACTTTA-TATTTAATACTTA
* *
95857 T-TACTTTTTATATATATAC-T-
1 TATACTTTATATTTA-ATACTTA
95877 TATA-TTTATA-TTATATA-TGTA
1 TATACTTTATATTTA-ATACT-TA
* *
95898 TATACTTTATA-CTAAAACTTTA
1 TATACTTTATATTTAATAC-TTA
*
95920 TATA-TATATATATATATATA-TATA
1 TATACT-T-TATATTTA-ATACT-TA
* *
95944 TATA-TATATATTTATTA--TA
1 TATACTTTATATTTAATACTTA
* * *
95963 TTGTAGTTATATATTT-ATATTTA
1 -TATACTT-TATATTTAATACTTA
*
95986 TATACTTTATATATTATATATTATA
1 TATACTTTATAT-TTA-ATACT-TA
*
96011 TATACTTT-TATTATTATA-TATA
1 TATACTTTATATT-TAATACT-TA
*
96033 TATACTTTATTTTTAATACTTA
1 TATACTTTATATTTAATACTTA
96055 TATA-TTTATA-TTATATACTTA
1 TATACTTTATATTTA-ATACTTA
* *
96076 TATACATTATA-TTATATGCTTA
1 TATACTTTATATTTA-ATACTTA
96098 TATACTTTA
1 TATACTTTA
96107 ATGTGTATAA
Statistics
Matches: 310, Mismatches: 38, Indels: 76
0.73 0.09 0.18
Matches are distributed among these distances:
19 11 0.04
20 28 0.09
21 56 0.18
22 122 0.39
23 23 0.07
24 27 0.09
25 19 0.06
26 13 0.04
27 11 0.04
ACGTcount: A:0.36, C:0.06, G:0.02, T:0.56
Consensus pattern (22 bp):
TATACTTTATATTTAATACTTA
Found at i:95872 original size:2 final size:2
Alignment explanation
Indices: 95865--96923 Score: 177
Period size: 2 Copynumber: 538.0 Consensus size: 2
95855 TTTTACTTTT
* * *
95865 TA TA TA TA TA CT- TA TA TT TA TA T- TA TA TA TG TA TA TA CTT TA
1 TA TA TA TA TA -TA TA TA TA TA TA TA TA TA TA TA TA TA TA -TA TA
* *
95907 TA CTA -A AA CTT 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
* * * *
95950 TA TA TT TA T- TA TA T- TG TA GT- TA TA TA TT TA TA TT 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
* *
95990 CTT TA TA TA T- TA TA TA T- TA TA TA TA CT- TT TA T- TA T- TA TA
1 -TA TA TA TA TA TA TA TA TA TA TA TA TA -TA TA TA TA TA TA TA TA
* * * *
96029 TA TA TA TA CTT TA TT TT TA -A TA CT- TA TA TA TT TA TA T- TA TA
1 TA TA TA TA -TA TA TA TA TA TA TA -TA TA TA TA TA TA TA TA TA TA
* * *
96070 TA CT- TA TA TA CA T- TA TA T- TA TA TGC T- TA TA TA CTT TA -A
1 TA -TA TA TA TA TA TA TA TA TA TA TA T-A TA TA TA TA -TA TA TA
* * * * *
96108 TG TG TA TA -A T- TA TA CTT TT TA TA TA -A TA TA CT- TA TA T- TT
1 TA TA TA TA TA TA TA TA -TA TA TA TA TA TA TA TA -TA TA TA TA TA
* * * *
96147 TA TA T- TA TA TA TA TG TA TA TA TA CTT TA TA CTA -A AA CTT TA
1 TA TA TA TA TA TA TA TA TA TA TA TA -TA TA TA -TA TA TA -TA TA
*
96188 TA TA TA TA TA TA TA TA TA TA TA TA T- TA T- TA TA TA TA TA TT
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
* * * * * *
96228 TA TA TT TG TG T- TA TA TA TA TA CT- TT TA CTT TA TA TA TA CA TA
1 TA TA TA TA TA TA TA TA TA TA TA -TA TA TA -TA TA TA TA TA TA TA
* * * * * *
96270 CT- TA TA CTT TA TA TG TA TA TA TA CTT TA TA TA CT- TA CA TGC TT
1 -TA TA TA -TA TA TA TA TA TA TA TA -TA TA TA TA -TA TA TA T-A TA
* * *
96313 TA GTC TT TA TA -A T- TA TA CTT TA TA TA TA TA TA TA TA TA TA -A
1 TA -TA TA TA TA TA TA TA TA -TA TA TA TA TA TA TA TA TA TA TA TA
* *
96354 TA TA CTT TA TA T- TA TA TA T- TA TA TA TA TA TA TA -A TT TA T-
1 TA TA -TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
* * * *
96393 TG TT TA TA TA TA TA CT- TA -A GTA CT- TA TA TT TA AA CTA TA TA
1 TA TA TA TA TA TA TA -TA TA TA -TA -TA TA TA TA TA TA -TA TA TA
* * * *
96434 AA CTA TA TA -A T- TA TA CA TA GTG TA TA -A TT TA TA -A T- TA TA
1 TA -TA TA TA TA TA TA TA TA TA -TA TA TA TA TA TA TA TA TA TA TA
* * * * *
96473 CA TA -A TA TA TA AA TA TA -A GT- TG TA TA TA TT TA AA TA TA T-
1 TA TA TA TA TA TA TA TA TA TA -TA TA TA TA TA TA TA TA TA TA TA
* * *
96512 TCA TA TA TA -A TT TA TA TA AA CTA TA TA -A TT TA TA T- TA -A TA
1 T-A TA TA TA TA TA TA TA TA TA -TA TA TA TA TA TA TA TA TA TA TA
* * *
96552 AA CTA TA TA GTT TA TA TA TA GT- TCA -A TA GT- TCA TA TA TA AA
1 TA -TA TA TA -TA TA TA TA TA -TA T-A TA TA -TA T-A TA TA TA TA
* * * * * *
96593 CTC TA TA GTT TA TA TA TG GA -A TA TA TA GTT TA TA CA TA -A TA
1 -TA TA TA -TA TA TA TA TA TA TA TA TA TA -TA TA TA TA TA TA TA
* * *
96634 TA TA TA T- TT TA TA TA TA GTA TA TA -A TA -A TA TA AA TA TA AA
1 TA TA TA TA TA TA TA TA TA -TA TA TA TA TA TA TA TA TA TA TA TA
* * *
96674 CTA TA TA GTT TA TA TA TA TA -A TA TA TA TA CTT TA TA TA TA CA
1 -TA TA TA -TA TA TA TA TA TA TA TA TA TA TA -TA TA TA TA TA TA
* * *
96716 CTA TA TA -A TT TA TA -A TA TA GTT TA TA TCA -A TA AA CTA TA TA
1 -TA TA TA TA TA TA TA TA TA TA -TA TA TA T-A TA TA TA -TA TA TA
* * * *
96757 GTT TA TA CA TA -A TA TC TA TA GTT TA TA TA TA T- TA TA TA -A TA
1 -TA TA TA TA TA TA TA TA TA TA -TA TA TA TA TA TA TA TA TA TA TA
* * * *
96798 -A TA TA AA TA TA AA CTA TA TA GT- TT TA -A TA TA TA -A CA TA TA
1 TA TA TA TA TA TA TA -TA TA TA -TA TA TA TA TA TA TA TA TA TA TA
* * * * * *
96838 TA CTT TA TA TG TG CA CTA TA TA GTT TA TA -A TA -A TA TA AA TA
1 TA -TA TA TA TA TA TA -TA TA TA -TA TA TA TA TA TA TA TA TA TA
*
96879 TA AA CTA TA -A TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T-
1 TA TA -TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
96920 TA TA
1 TA TA
96924 ATTGTTTCAA
Statistics
Matches: 758, Mismatches: 161, Indels: 276
0.63 0.13 0.23
Matches are distributed among these distances:
1 78 0.10
2 621 0.82
3 59 0.08
ACGTcount: A:0.42, C:0.05, G:0.03, T:0.49
Consensus pattern (2 bp):
TA
Found at i:95908 original size:7 final size:7
Alignment explanation
Indices: 95772--95910 Score: 57
Period size: 7 Copynumber: 19.9 Consensus size: 7
95762 TATACATATA
*
95772 TATAGTT
1 TATACTT
95779 TATA-TT
1 TATACTT
95785 TAATACTT
1 T-ATACTT
*
95793 ATATATTT
1 -TATACTT
95801 TATA-TT
1 TATACTT
95807 ATATACTT
1 -TATACTT
95815 ATATACTT
1 -TATACTT
95823 TATA-TT
1 TATACTT
*
95829 TATGC-T
1 TATACTT
95835 TATTACTT
1 TA-TACTT
95843 TAGT-CTT
1 TA-TACTT
*
95850 TATAATT
1 TATACTT
95857 T-TACTTTT
1 TATAC--TT
*
95865 TATA-TA
1 TATACTT
95871 TATAC-T
1 TATACTT
95877 TATA-TT
1 TATACTT
95883 TATA-TT
1 TATACTT
95889 ATATA-TGT
1 -TATACT-T
95897 ATATACTT
1 -TATACTT
95905 TATACT
1 TATACT
95911 AAAACTTTAT
Statistics
Matches: 107, Mismatches: 8, Indels: 34
0.72 0.05 0.23
Matches are distributed among these distances:
6 32 0.30
7 40 0.37
8 31 0.29
9 4 0.04
ACGTcount: A:0.32, C:0.07, G:0.03, T:0.58
Consensus pattern (7 bp):
TATACTT
Found at i:96263 original size:21 final size:21
Alignment explanation
Indices: 96239--96296 Score: 80
Period size: 21 Copynumber: 2.7 Consensus size: 21
96229 ATATTTGTGT
96239 TATATATATACTTTTACTTTA
1 TATATATATACTTTTACTTTA
* *
96260 TATATACATACTTATACTTTA
1 TATATATATACTTTTACTTTA
96281 TATGTATATATACTTT
1 TA--TATATATACTTT
96297 ATATACTTAC
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
21 21 0.68
23 10 0.32
ACGTcount: A:0.34, C:0.10, G:0.02, T:0.53
Consensus pattern (21 bp):
TATATATATACTTTTACTTTA
Found at i:96640 original size:81 final size:81
Alignment explanation
Indices: 96515--96736 Score: 199
Period size: 81 Copynumber: 2.7 Consensus size: 81
96505 AATATATTCA
* * *
96515 TATATAATTTATATA-A-ACTATATAATTTATATTAATAAACTATATAGTTTATATATAGT-T-C
1 TATATAGTTTATATATAGAATATATAATTTATAATAATAAACTATAT--TTTATATATAGTATAC
* *
96576 AATAGT-TCATATATAAAC
64 AATAATAT-AAATATAAAC
* * * * *
96594 TCTATAGTTTATATATGGAATATATAGTTTATACATAATATA-TATATTTTATATATAGTATATA
1 TATATAGTTTATATATAGAATATATAATTTATA-ATAATAAACTATATTTTATATATAGTATACA
96658 ATAATATAAATATAAAC
65 ATAATATAAATATAAAC
* *
96675 TATATAGTTTATATATATAATATATATACTTTAT-AT-ATACACTATATAATTTATAATATAGT
1 TATATAGTTTATATATAGAATATATA-A-TTTATAATAATAAACTATAT--TTTAT-ATATAGT
96737 TTATATCAAT
Statistics
Matches: 116, Mismatches: 15, Indels: 19
0.77 0.10 0.13
Matches are distributed among these distances:
79 25 0.22
80 5 0.04
81 62 0.53
82 7 0.06
83 10 0.09
84 7 0.06
ACGTcount: A:0.45, C:0.05, G:0.05, T:0.45
Consensus pattern (81 bp):
TATATAGTTTATATATAGAATATATAATTTATAATAATAAACTATATTTTATATATAGTATACAA
TAATATAAATATAAAC
Found at i:96655 original size:7 final size:7
Alignment explanation
Indices: 96628--96923 Score: 79
Period size: 7 Copynumber: 42.1 Consensus size: 7
96618 TAGTTTATAC
96628 ATAATAT
1 ATAATAT
96635 AT-ATAT
1 ATAATAT
* *
96641 TTTATAT
1 ATAATAT
*
96648 ATAGTAT
1 ATAATAT
96655 ATAATAAT
1 ATAAT-AT
96663 ATAA-AT
1 ATAATAT
96669 ATAAACTAT
1 AT-AA-TAT
* *
96678 ATAGTTT
1 ATAATAT
96685 AT-ATAT
1 ATAATAT
96691 ATAATAT
1 ATAATAT
96698 AT-ATACT
1 ATAATA-T
*
96705 -TTATAT
1 ATAATAT
96711 ATACACTAT
1 ATA-A-TAT
*
96720 ATAATTT
1 ATAATAT
96727 ATAATAT
1 ATAATAT
*
96734 AGT-TTAT
1 A-TAATAT
96741 ATCAATA-
1 AT-AATAT
*
96748 A-ACTAT
1 ATAATAT
* *
96754 ATAGTTT
1 ATAATAT
96761 ATACATA-
1 ATA-ATAT
*
96768 AT-ATCT
1 ATAATAT
* *
96774 ATAGTTT
1 ATAATAT
96781 AT-ATAT
1 ATAATAT
*
96787 ATTATAT
1 ATAATAT
96794 AATAATAT
1 -ATAATAT
96802 A-AATAT
1 ATAATAT
96808 A-AACTAT
1 ATAA-TAT
*
96815 ATAGT-T
1 ATAATAT
*
96821 TTAATAT
1 ATAATAT
*
96828 ATAACAT
1 ATAATAT
96835 AT-ATACT
1 ATAATA-T
*
96842 -TTATAT
1 ATAATAT
* *
96848 GTGCACTAT
1 AT--AATAT
* *
96857 ATAGTTT
1 ATAATAT
96864 ATAATAAT
1 ATAAT-AT
96872 ATAA-AT
1 ATAATAT
96878 ATAA-ACT
1 ATAATA-T
96885 ATAATAT
1 ATAATAT
96892 ATATATAT
1 ATA-ATAT
96900 ATATATAT
1 ATA-ATAT
96908 ATATATAT
1 ATA-ATAT
*
96916 ATATTAT
1 ATAATAT
96923 A
1 A
96924 ATTGTTTCAA
Statistics
Matches: 217, Mismatches: 39, Indels: 66
0.67 0.12 0.20
Matches are distributed among these distances:
5 5 0.02
6 49 0.23
7 100 0.46
8 49 0.23
9 14 0.06
ACGTcount: A:0.47, C:0.05, G:0.03, T:0.45
Consensus pattern (7 bp):
ATAATAT
Found at i:96657 original size:11 final size:11
Alignment explanation
Indices: 96596--96713 Score: 56
Period size: 11 Copynumber: 11.4 Consensus size: 11
96586 ATATAAACTC
*
96596 TATAGTTTATA
1 TATAGTATATA
*
96607 TAT-GGA-ATA
1 TATAGTATATA
*
96616 TATAGTTTATA
1 TATAGTATATA
*
96627 CATA--ATATA
1 TATAGTATATA
* *
96636 TATATTTTATA
1 TATAGTATATA
96647 TATAGTATATA
1 TATAGTATATA
96658 -ATA--ATATA
1 TATAGTATATA
* *
96666 AATA-TAAACTA
1 TATAGTATA-TA
*
96677 TATAGTTTATA
1 TATAGTATATA
96688 TATA-TAATATA
1 TATAGT-ATATA
* *
96699 TATACTTTATA
1 TATAGTATATA
96710 TATA
1 TATA
96714 CACTATATAA
Statistics
Matches: 81, Mismatches: 16, Indels: 20
0.69 0.14 0.17
Matches are distributed among these distances:
8 5 0.06
9 16 0.20
10 8 0.10
11 49 0.60
12 3 0.04
ACGTcount: A:0.46, C:0.03, G:0.05, T:0.47
Consensus pattern (11 bp):
TATAGTATATA
Found at i:96679 original size:72 final size:70
Alignment explanation
Indices: 96603--96920 Score: 232
Period size: 72 Copynumber: 4.5 Consensus size: 70
96593 CTCTATAGTT
*
96603 TATATATGGAATATATAGTTTATACATAATATATATATTTTATATATAGTATATAATAATATAAA
1 TATATAT-GAATATATA-TATATACATAATATATATATTTTATATATAGTATATAATAATATAAA
96668 TATAAAC
64 TATAAAC
* * *
96675 TATATA-G--T-T-TATATAT--ATAATATATATACTTTATATATA-CACTAT-ATAATTTATAA
1 TATATATGAATATATATATATACATAATATATATATTTTATATATAGTA-TATAATAATATA-AA
***
96731 TATAGTT
64 TATAAAC
* * * * *
96738 TATATCAATAAACTATATAGTTTATACATAATATCTATAGTTTATATATATTATATAATAATATA
1 TATAT--ATGAA-TATATA-TATATACATAATATATATATTTTATATATAGTATATAATAATATA
96803 AATATAAAC
62 AATATAAAC
* * * ** *
96812 TATATA-G-TTTTA-ATATATAACATATATACTTTATATGTGCACTATATAGTTTATAATAATAT
1 TATATATGAATATATATATAT-ACATA-ATA-TATATAT-TTTA-TATATAGTATATAATAATAT
96874 AAATATAAAC
61 AAATATAAAC
*
96884 TATA-AT-ATATATATATATATATATATATATATATATT
1 TATATATGA-ATATATATATATACATA-ATATATATATT
96921 ATAATTGTTT
Statistics
Matches: 192, Mismatches: 30, Indels: 49
0.71 0.11 0.18
Matches are distributed among these distances:
62 8 0.04
63 36 0.19
65 5 0.03
66 2 0.01
67 5 0.03
68 7 0.04
69 7 0.04
70 7 0.04
71 6 0.03
72 49 0.26
73 11 0.06
74 41 0.21
75 8 0.04
ACGTcount: A:0.47, C:0.05, G:0.04, T:0.45
Consensus pattern (70 bp):
TATATATGAATATATATATATACATAATATATATATTTTATATATAGTATATAATAATATAAATA
TAAAC
Found at i:96714 original size:11 final size:10
Alignment explanation
Indices: 96613--96794 Score: 54
Period size: 11 Copynumber: 17.5 Consensus size: 10
96603 TATATATGGA
96613 ATATATAGTTT
1 ATATATA-TTT
* *
96624 ATACATA-AT
1 ATATATATTT
96633 ATATATATTT
1 ATATATATTT
*
96643 -TATATATAGT
1 ATATATAT-TT
*
96653 ATATA-ATAAT
1 ATATATAT-TT
* **
96663 ATAAATATAA
1 ATATATATTT
96673 ACTATATAGTTT
1 A-TATATA-TTT
*
96685 ATATATATAAT
1 ATATATAT-TT
96696 ATATATACTTT
1 ATATATA-TTT
**
96707 ATATATACACT
1 ATATATA-TTT
96718 ATATA-ATTT
1 ATATATATTT
96727 ATAATATAGTTT
1 AT-ATATA-TTT
**
96739 ATATCA-ATAA
1 ATAT-ATATTT
96749 ACTATATAGTTT
1 A-TATATA-TTT
* *
96761 ATACATA-AT
1 ATATATATTT
*
96770 ATCTATAGTTT
1 ATATATA-TTT
96781 ATATATA-TT
1 ATATATATTT
96790 ATATA
1 ATATA
96795 ATAATATAAA
Statistics
Matches: 127, Mismatches: 27, Indels: 36
0.67 0.14 0.19
Matches are distributed among these distances:
9 30 0.24
10 20 0.16
11 66 0.52
12 11 0.09
ACGTcount: A:0.46, C:0.05, G:0.03, T:0.46
Consensus pattern (10 bp):
ATATATATTT
Found at i:96785 original size:137 final size:137
Alignment explanation
Indices: 96614--96869 Score: 433
Period size: 137 Copynumber: 1.9 Consensus size: 137
96604 ATATATGGAA
*
96614 TATATAGTTTATACATAATATATATATTTTATATATAGTATATAATAATATAAATATAAACTATA
1 TATATAGTTTATACATAATATATATAGTTTATATATAGTATATAATAATATAAATATAAACTATA
*
96679 TAG-TTTATATATATAATATATATACTTTATATATACACTATATAATTTATAATATAGTTTATAT
66 TAGTTTTA-ATATATAACATATATACTTTATATATACACTATATAATTTATAATATAGTTTATAT
96743 CAATAAAC
130 CAATAAAC
* *
96751 TATATAGTTTATACATAATATCTATAGTTTATATATATTATATAATAATATAAATATAAACTATA
1 TATATAGTTTATACATAATATATATAGTTTATATATAGTATATAATAATATAAATATAAACTATA
* * *
96816 TAGTTTTAATATATAACATATATACTTTATATGTGCACTATATAGTTTATAATA
66 TAGTTTTAATATATAACATATATACTTTATATATACACTATATAATTTATAATA
96870 ATATAAATAT
Statistics
Matches: 111, Mismatches: 7, Indels: 2
0.93 0.06 0.02
Matches are distributed among these distances:
137 107 0.96
138 4 0.04
ACGTcount: A:0.45, C:0.05, G:0.04, T:0.45
Consensus pattern (137 bp):
TATATAGTTTATACATAATATATATAGTTTATATATAGTATATAATAATATAAATATAAACTATA
TAGTTTTAATATATAACATATATACTTTATATATACACTATATAATTTATAATATAGTTTATATC
AATAAAC
Found at i:99590 original size:132 final size:131
Alignment explanation
Indices: 99437--99775 Score: 443
Period size: 132 Copynumber: 2.6 Consensus size: 131
99427 ATTATTTTTG
99437 ATCGAGAATAAATGACCTCTCATGCCTTAAAGAAGTCATTTATTACTCCAATTGAAATGAAGAGA
1 ATCGAGAATAAATGACCTCTCATGCCTTAAAGAAGTCATTTATTACTCCAATTGAAATGAAGAGA
* * * * * *
99502 TTTCACTATTTCGTCTTAAAATTCAATATTAATTCGAGTGAAAAACGATAATATCTAATGATTTC
66 TTTCACTATTCCATCTTAAAAGTCAATATTAATTCAAGAG-AAAACGATAATATATAATGATTTC
99567 CA
130 CA
* * *
99569 ATCGAGAATAAATGACATCTCATGCCTTAAAGCAGTCATTTATTACTCCAATCGAAATGAAGAGA
1 ATCGAGAATAAATGACCTCTCATGCCTTAAAGAAGTCATTTATTACTCCAATTGAAATGAAGAGA
* * * *
99634 TATCA-TGATTCCATCTTAAAAGTCAATATTGATTCAAGAGAAAACGGTAATATATAATTATTTC
66 TTTCACT-ATTCCATCTTAAAAGTCAATATTAATTCAAGAGAAAACGATAATATATAATGATTTC
99698 CA
130 CA
* * * * *
99700 ATCGAGAATAAATGACCTCTCACGCCTTAAAACAATGT--TTCATTACTCCAACTGAAATGAAAA
1 ATCGAGAATAAATGACCTCTCATGCCTT-AAAGAA-GTCATTTATTACTCCAATTGAAATGAAGA
99763 GATATT-ACTATTC
64 GAT-TTCACTATTC
99776 TCAATATCGA
Statistics
Matches: 180, Mismatches: 22, Indels: 11
0.85 0.10 0.05
Matches are distributed among these distances:
131 79 0.44
132 99 0.55
133 2 0.01
ACGTcount: A:0.40, C:0.17, G:0.12, T:0.31
Consensus pattern (131 bp):
ATCGAGAATAAATGACCTCTCATGCCTTAAAGAAGTCATTTATTACTCCAATTGAAATGAAGAGA
TTTCACTATTCCATCTTAAAAGTCAATATTAATTCAAGAGAAAACGATAATATATAATGATTTCC
A
Found at i:101733 original size:3 final size:3
Alignment explanation
Indices: 101725--101773 Score: 89
Period size: 3 Copynumber: 16.3 Consensus size: 3
101715 TGGCCTGCAA
*
101725 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT GAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
101773 A
1 A
101774 GTGGGATAAA
Statistics
Matches: 44, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
3 44 1.00
ACGTcount: A:0.65, C:0.00, G:0.02, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:102271 original size:136 final size:134
Alignment explanation
Indices: 101959--102410 Score: 581
Period size: 136 Copynumber: 3.4 Consensus size: 134
101949 GTCTGAAAAG
*
101959 AGATCT-GAAAATGTTGATTCATTCCGCTGTTCTTCAGGGAAGATTGAATCGAGGCAGACTTGTT
1 AGATCTAG-AAATGTTGATTCATTCCACTGTTCTTCAGGGAAGATTGAATCGAGGCAGACTTGTT
* * *
102023 CCATTGTTACTCAGGGAAGATCAAATCTGGAAAAAAGAGGGATCTG-T-TCTGCTGC-TGAGGGA
65 CCATTGTTCCTCAGGGAAGATCAAATCTGGAAAAAAGAGGGATATGTTCTCTGCTTCTTGAGGGA
102085 AAATC
130 AAATC
* * * * * * *
102090 AAATATAGAAATGTTGATTCGTTCCACTGTTCTTCAGGAAAGATTGGATCGAGGTAGAATTGTTC
1 AGATCTAGAAATGTTGATTCATTCCACTGTTCTTCAGGGAAGATTGAATCGAGGCAGACTTGTTC
** * * *
102155 CATTGTTCCTTGGGGAAGATCAAATATGGAAAAAAAGAGAGATATGTTCCTCTGCTTCTTGTGGG
66 CATTGTTCCTCAGGGAAGATCAAATCTGG-AAAAAAGAGGGATATGTT-CTCTGCTTCTTGAGGG
102220 AAAATC
129 AAAATC
* * * *
102226 AGATCTGGAAATGTTGATTCATTCCATTGTTCTTTAGGGAAGATTGAATCGAGGCAGACTTATTC
1 AGATCTAGAAATGTTGATTCATTCCACTGTTCTTCAGGGAAGATTGAATCGAGGCAGACTTGTTC
*** * *
102291 CACCATTCCTCAGAGAAGATCAAATCTGGAAAAAAGAGGGA-ACTGTTCTGCTGCTTATTGAGGG
66 CATTGTTCCTCAGGGAAGATCAAATCTGGAAAAAAGAGGGATA-TGTTCT-CTGCTTCTTGAGGG
102355 AAAATC
129 AAAATC
* *
102361 AGATCTAGAAATGTTGATTCATTCTACTGTTCTTCAGGTAAGATTGAATC
1 AGATCTAGAAATGTTGATTCATTCCACTGTTCTTCAGGGAAGATTGAATC
102411 AAGTTTGATT
Statistics
Matches: 271, Mismatches: 42, Indels: 12
0.83 0.13 0.04
Matches are distributed among these distances:
131 80 0.30
132 15 0.06
133 1 0.00
134 3 0.01
135 85 0.31
136 87 0.32
ACGTcount: A:0.31, C:0.15, G:0.23, T:0.31
Consensus pattern (134 bp):
AGATCTAGAAATGTTGATTCATTCCACTGTTCTTCAGGGAAGATTGAATCGAGGCAGACTTGTTC
CATTGTTCCTCAGGGAAGATCAAATCTGGAAAAAAGAGGGATATGTTCTCTGCTTCTTGAGGGAA
AATC
Found at i:103602 original size:8 final size:9
Alignment explanation
Indices: 103578--103625 Score: 55
Period size: 9 Copynumber: 5.4 Consensus size: 9
103568 ATTTTCTCTT
103578 TTATTTTTC
1 TTATTTTTC
103587 TTATTTTTC
1 TTATTTTTC
*
103596 TTATTTTCCC
1 TTATTTT-TC
*
103606 CTATTTTTC
1 TTATTTTTC
103615 -TATTTTT-
1 TTATTTTTC
103622 TTAT
1 TTAT
103626 CAAATTCTTT
Statistics
Matches: 34, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
8 10 0.29
9 17 0.50
10 7 0.21
ACGTcount: A:0.12, C:0.15, G:0.00, T:0.73
Consensus pattern (9 bp):
TTATTTTTC
Done.