Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01006901.1 Hibiscus syriacus cultivar Beakdansim tig00017626_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: 60531
ACGTcount: A:0.32, C:0.19, G:0.17, T:0.32
Found at i:2522 original size:21 final size:21
Alignment explanation
Indices: 2468--2522 Score: 76
Period size: 21 Copynumber: 2.6 Consensus size: 21
2458 ATACACGGTT
2468 CTTCGGGACATATATGTGATC
1 CTTCGGGACATATATGTGATC
2489 CTT-GGGAGCATATATGTGATC
1 CTTCGGGA-CATATATGTGATC
* *
2510 CTTCAGGATATAT
1 CTTCGGGACATAT
2523 GTTTGGTCAT
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
20 4 0.13
21 23 0.77
22 3 0.10
ACGTcount: A:0.25, C:0.16, G:0.24, T:0.35
Consensus pattern (21 bp):
CTTCGGGACATATATGTGATC
Found at i:2590 original size:22 final size:23
Alignment explanation
Indices: 2543--2602 Score: 72
Period size: 22 Copynumber: 2.7 Consensus size: 23
2533 TTAGAACATA
2543 TATGTGGTCCTAT-GGGATAATTC
1 TATGTGGTCCT-TCGGGATAATTC
*
2566 TATGTGGTCCTTCGGGA-CATTC
1 TATGTGGTCCTTCGGGATAATTC
2588 TATGTGG-CACTTCGG
1 TATGTGGTC-CTTCGG
2603 TGCATATTCT
Statistics
Matches: 34, Mismatches: 1, Indels: 5
0.85 0.03 0.12
Matches are distributed among these distances:
21 1 0.03
22 18 0.53
23 15 0.44
ACGTcount: A:0.17, C:0.18, G:0.28, T:0.37
Consensus pattern (23 bp):
TATGTGGTCCTTCGGGATAATTC
Found at i:3593 original size:54 final size:54
Alignment explanation
Indices: 3529--3636 Score: 207
Period size: 54 Copynumber: 2.0 Consensus size: 54
3519 GACTTGTATC
*
3529 CGGGTAGCGTACGGGTTGGGGTGTTACAATGGATTCTACTTGTGAACAATTTTA
1 CGGGTAGCGTACGGGTTGGGGTGTTACAATGGATTCCACTTGTGAACAATTTTA
3583 CGGGTAGCGTACGGGTTGGGGTGTTACAATGGATTCCACTTGTGAACAATTTTA
1 CGGGTAGCGTACGGGTTGGGGTGTTACAATGGATTCCACTTGTGAACAATTTTA
3637 ACATAAAGCT
Statistics
Matches: 53, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
54 53 1.00
ACGTcount: A:0.22, C:0.14, G:0.31, T:0.32
Consensus pattern (54 bp):
CGGGTAGCGTACGGGTTGGGGTGTTACAATGGATTCCACTTGTGAACAATTTTA
Found at i:6045 original size:23 final size:23
Alignment explanation
Indices: 5893--6070 Score: 71
Period size: 23 Copynumber: 8.0 Consensus size: 23
5883 CCAACCTTGT
5893 TTATAT-TGTATAT--TATTATA
1 TTATATATGTATATACTATTATA
* *
5913 TT-TATAT-TATATAGTA-TAAA
1 TTATATATGTATATACTATTATA
*
5933 CGTATTATATG-ACTATA-TATTTATA
1 -TTA-TATATGTA-TATACTA-TTATA
*
5958 TTATAT-TGTATAATA-TATTCTA
1 TTATATATGTAT-ATACTATTATA
* * *
5980 -TAGTATATATATAT-GTATTATG
1 TTA-TATATGTATATACTATTATA
* * *
6002 TTATTTAT-TTTGT-CTATTTATA
1 TTATATATGTATATACTA-TTATA
6024 TTATATA-GTATATACGTATTATA
1 TTATATATGTATATAC-TATTATA
* *
6047 TTATATATTTATATACTATAATA
1 TTATATATGTATATACTATTATA
6070 T
1 T
6071 ACTTATATTA
Statistics
Matches: 119, Mismatches: 18, Indels: 39
0.68 0.10 0.22
Matches are distributed among these distances:
19 8 0.07
20 6 0.05
21 10 0.08
22 34 0.29
23 43 0.36
24 15 0.13
25 3 0.03
ACGTcount: A:0.37, C:0.03, G:0.06, T:0.54
Consensus pattern (23 bp):
TTATATATGTATATACTATTATA
Found at i:6058 original size:8 final size:7
Alignment explanation
Indices: 5894--6172 Score: 70
Period size: 7 Copynumber: 37.1 Consensus size: 7
5884 CAACCTTGTT
*
5894 TATATTG
1 TATATTA
5901 TATATTA
1 TATATTA
5908 TTATATT-
1 -TATATTA
5915 TATATTA
1 TATATTA
5922 TATAGTATA
1 TATA-T-TA
*
5931 AACGTATTA
1 TA--TATTA
*
5940 TATGACTA
1 TAT-ATTA
5948 TATATT-
1 TATATTA
5954 TATATTA
1 TATATTA
*
5961 TATTGTATAA
1 TA---TATTA
*
5971 TATATTC
1 TATATTA
*
5978 TATAGTA
1 TATATTA
5985 TATATATA
1 TATAT-TA
*
5993 TGTATTA
1 TATATTA
*
6000 TGTTATT-
1 T-ATATTA
* *
6007 TATTTTG
1 TATATTA
*
6014 TCTATT-
1 TATATTA
6020 TATATTA
1 TATATTA
*
6027 TATAGTA
1 TATATTA
*
6034 TATACGTA
1 TATA-TTA
6042 TTATATTA
1 -TATATTA
6050 TATATTTA
1 TATA-TTA
*
6058 TATACTA
1 TATATTA
6065 TA-ATATA
1 TATAT-TA
6072 CTTATATTA
1 --TATATTA
*
6081 TATAGTGTG
1 TATA-T-TA
6090 TATA-TA
1 TATATTA
* *
6096 TGTCGTTA
1 TAT-ATTA
6104 TATATTCA
1 TATATT-A
*
6112 CGCATATTA
1 --TATATTA
6121 TAT-TTA
1 TATATTA
*
6127 TTATAGTA
1 -TATATTA
6135 TATA-TA
1 TATATTA
6141 TATATTTAGA
1 TATA-TT--A
*
6151 TGTATTA
1 TATATTA
*
6158 TTTATTA
1 TATATTA
6165 TATATTA
1 TATATTA
6172 T
1 T
6173 TTTATTGTAC
Statistics
Matches: 203, Mismatches: 34, Indels: 70
0.66 0.11 0.23
Matches are distributed among these distances:
6 33 0.16
7 84 0.41
8 44 0.22
9 22 0.11
10 18 0.09
11 2 0.01
ACGTcount: A:0.36, C:0.04, G:0.07, T:0.53
Consensus pattern (7 bp):
TATATTA
Found at i:6077 original size:49 final size:47
Alignment explanation
Indices: 5948--6084 Score: 115
Period size: 45 Copynumber: 2.9 Consensus size: 47
5938 TATATGACTA
* *
5948 TATATT-TATA-TTATATTGTATAATATATTCTATAGTATATATATATGTAT
1 TATATTATATATTTATA-TCTATAATATA--CT-TA-TATATATATACGTAT
* * * *
5998 TATGTTATTTATTT-TGTCTAT-TTATA-TTATATAGTATATACGTAT
1 TATATTATATATTTATATCTATAATATACTTATATA-TATATACGTAT
6043 TATATTATATATTTATATACTATAATATACTTATAT-TATATA
1 TATATTATATATTTATAT-CTATAATATACTTATATATATATA
6085 GTGTGTATAT
Statistics
Matches: 70, Mismatches: 10, Indels: 17
0.72 0.10 0.18
Matches are distributed among these distances:
44 4 0.06
45 24 0.34
46 3 0.04
47 10 0.14
48 4 0.06
49 10 0.14
50 9 0.13
51 4 0.06
52 2 0.03
ACGTcount: A:0.36, C:0.04, G:0.05, T:0.55
Consensus pattern (47 bp):
TATATTATATATTTATATCTATAATATACTTATATATATATACGTAT
Found at i:6084 original size:18 final size:18
Alignment explanation
Indices: 6019--6084 Score: 57
Period size: 18 Copynumber: 3.7 Consensus size: 18
6009 TTTTGTCTAT
6019 TTATATTATATAGTATATAC
1 TTATATTATATA--ATATAC
* * *
6039 --GTATTATATTATATAT
1 TTATATTATATAATATAC
6055 TTATA-TACTATAATATAC
1 TTATATTA-TATAATATAC
6073 TTATATTATATA
1 TTATATTATATA
6085 GTGTGTATAT
Statistics
Matches: 36, Mismatches: 6, Indels: 10
0.69 0.12 0.19
Matches are distributed among these distances:
16 5 0.14
17 2 0.06
18 27 0.75
19 2 0.06
ACGTcount: A:0.41, C:0.05, G:0.03, T:0.52
Consensus pattern (18 bp):
TTATATTATATAATATAC
Found at i:6125 original size:105 final size:102
Alignment explanation
Indices: 5906--6144 Score: 225
Period size: 105 Copynumber: 2.3 Consensus size: 102
5896 TATTGTATAT
* **
5906 TATTATATTTATATTATATAGTATAAACGTATTATATGACTATATATTTATATTATATTGTATAA
1 TATTATATTTATATTATATAGTATATACGTATTATAT-A-TATATATTTATATTATATAATATAA
* * * *
5971 TATATTCTATAGTATATATATATGTATTATGTTATTTAT
64 TATATTATATAGTATATATATATGTATTATGATATTCAA
* *
6010 TTTGTCTATTTATATTATATAGTATATACGTATTATAT-TATATATTTATA-TACTATAATATAC
1 TAT-TATATTTATATTATATAGTATATACGTATTATATATATATATTTATATTA-TATAATATA-
* * * *
6073 TTATATTATATAGTGTGTATATATGTCGTTAT-ATATTCACGCA
63 ATATATTATATAGTATATATATATGT-ATTATGATATTCA---A
6116 TATTATATTTATTATAGTATATA-TATATA
1 TATTATATTTA-TAT--TATATAGTATATA
6145 TTTAGATGTA
Statistics
Matches: 110, Mismatches: 15, Indels: 17
0.77 0.11 0.12
Matches are distributed among these distances:
101 2 0.02
102 19 0.17
103 27 0.25
104 6 0.05
105 39 0.35
106 5 0.05
107 6 0.05
108 6 0.05
ACGTcount: A:0.36, C:0.05, G:0.07, T:0.52
Consensus pattern (102 bp):
TATTATATTTATATTATATAGTATATACGTATTATATATATATATTTATATTATATAATATAATA
TATTATATAGTATATATATATGTATTATGATATTCAA
Found at i:17186 original size:56 final size:56
Alignment explanation
Indices: 17095--17202 Score: 171
Period size: 56 Copynumber: 1.9 Consensus size: 56
17085 AATTCATGTG
* *
17095 AAAACATCCTACTCGAAGGTCTCATGGATGGCCCGAAGGACTTATCATCTTGGTGC
1 AAAACATCCTACCCGAAGGTCTCATGGATGACCCGAAGGACTTATCATCTTGGTGC
* * *
17151 AAAACATCCTGCCCGAAGGTCTTATGGATGACCCGAAGGATTTATCATCTTG
1 AAAACATCCTACCCGAAGGTCTCATGGATGACCCGAAGGACTTATCATCTTG
17203 CTCAAGAGAC
Statistics
Matches: 47, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
56 47 1.00
ACGTcount: A:0.28, C:0.24, G:0.22, T:0.26
Consensus pattern (56 bp):
AAAACATCCTACCCGAAGGTCTCATGGATGACCCGAAGGACTTATCATCTTGGTGC
Found at i:17534 original size:215 final size:215
Alignment explanation
Indices: 17151--17557 Score: 640
Period size: 215 Copynumber: 1.9 Consensus size: 215
17141 ATCTTGGTGC
* * * *
17151 AAAACATCCTGCCCGAAGGTCTTATGGATGACCCGAAGGATTTATCATCTTGCTCAAGAGACTCA
1 AAAACATCCTACCCGAAGGTCTTATGGATGACCCGAAAGACTTATCATCTTACTCAAGAGACTCA
*
17216 CAAATGACCCGAAGGATTTTAAGCATAGTGCTCGAAAGACTTACTGATGGCCCGAAGGACTTATA
66 CAAATGACCCGAAGGATTTTAAGCATAGTGCTCGAAAGACTTACTAATGGCCCGAAGGACTTATA
17281 AATTGTGAAATTTTGAAAATCGCATTCTTCGTTTTCAAAAATTCCATCTTCTTAAAACATCATTT
131 AATTGTGAAATTTTGAAAATCGCATTCTTCGTTTTCAAAAATTCCATCTTCTT-AAACATCATTT
17346 TTTCATTTTCAAATTCATGTG
195 TTTCATTTTCAAATTCATGTG
* * * * *
17367 AAAATATCCTACCCGAAGGTTTTATGGATGGCCCGAAAGACTTATCATCTTACTCTAA-AGGCTT
1 AAAACATCCTACCCGAAGGTCTTATGGATGACCCGAAAGACTTATCATCTTACTC-AAGAGACTC
* * *
17431 ACAGATTACCCGAATGA-TTTAAGCATCA-TGCTCGAAAGACTTACTAATGGCCCGAAGGACTTA
65 ACAAATGACCCGAAGGATTTTAAGCAT-AGTGCTCGAAAGACTTACTAATGGCCCGAAGGACTTA
*
17494 TAAATTGTGAAATTTTGAAAATCGCATTCTTCGTTTTCAAAAATTTCATCTTCTTAAACATCAT
129 TAAATTGTGAAATTTTGAAAATCGCATTCTTCGTTTTCAAAAATTCCATCTTCTTAAACATCAT
17558 ACCCGAAGGT
Statistics
Matches: 175, Mismatches: 14, Indels: 6
0.90 0.07 0.03
Matches are distributed among these distances:
214 9 0.05
215 97 0.55
216 67 0.38
217 2 0.01
ACGTcount: A:0.33, C:0.20, G:0.15, T:0.32
Consensus pattern (215 bp):
AAAACATCCTACCCGAAGGTCTTATGGATGACCCGAAAGACTTATCATCTTACTCAAGAGACTCA
CAAATGACCCGAAGGATTTTAAGCATAGTGCTCGAAAGACTTACTAATGGCCCGAAGGACTTATA
AATTGTGAAATTTTGAAAATCGCATTCTTCGTTTTCAAAAATTCCATCTTCTTAAACATCATTTT
TTCATTTTCAAATTCATGTG
Found at i:17668 original size:42 final size:41
Alignment explanation
Indices: 17578--17674 Score: 104
Period size: 42 Copynumber: 2.3 Consensus size: 41
17568 TTTATGAATT
* * * **
17578 GCCCGAAGGACTTATCATCTTGCTCTAAAGGCTTACAGATG
1 GCCCGAAGGACTTAGCATCATGCTCGAAAGAATTACAGATG
* * * *
17619 ACACGAAGGATTTAAGCATCATGCTCGAAAGAATTACTGATG
1 GCCCGAAGGACTT-AGCATCATGCTCGAAAGAATTACAGATG
17661 GCCCGAAGGACTTA
1 GCCCGAAGGACTTA
17675 TAAACTGTGA
Statistics
Matches: 43, Mismatches: 12, Indels: 2
0.75 0.21 0.04
Matches are distributed among these distances:
41 11 0.26
42 32 0.74
ACGTcount: A:0.32, C:0.22, G:0.23, T:0.24
Consensus pattern (41 bp):
GCCCGAAGGACTTAGCATCATGCTCGAAAGAATTACAGATG
Found at i:17686 original size:181 final size:182
Alignment explanation
Indices: 17367--17738 Score: 584
Period size: 181 Copynumber: 2.0 Consensus size: 182
17357 AATTCATGTG
* * *
17367 AAAATATCCTACCCGAAGGTTTTATGGATGGCCCGAAAGACTTATCATCTTACTCTAAAGGCTTA
1 AAAACATCATACCCGAAGGTTTTATGAATGGCCCGAAAGACTTATCATCTTACTCTAAAGGCTTA
* * * *
17432 CAGATTACCCGAATGATTTAAGCATCATGCTCGAAAGACTTACTAATGGCCCGAAGGACTTATAA
66 CAGATGACACGAAGGATTTAAGCATCATGCTCGAAAGAATTACTAATGGCCCGAAGGACTTATAA
* * * *
17497 ATTGTGAAATTTTGAAAATCGCATTCTTCGTTTTCAAAAATTTCATCTTCTT
131 ACTGTGAAATTTTGAAAATCACATTCTTCGTTTTCAAAAATTCCATATTCTT
* * *
17549 -AAACATCATACCCGAAGGTTTTATGAATTGCCCGAAGGACTTATCATCTTGCTCTAAAGGCTTA
1 AAAACATCATACCCGAAGGTTTTATGAATGGCCCGAAAGACTTATCATCTTACTCTAAAGGCTTA
*
17613 CAGATGACACGAAGGATTTAAGCATCATGCTCGAAAGAATTACTGATGGCCCGAAGGACTTATAA
66 CAGATGACACGAAGGATTTAAGCATCATGCTCGAAAGAATTACTAATGGCCCGAAGGACTTATAA
* *
17678 ACTGTGAAATTTTGAAAATCACATTCTTCTTTTTCAAAACTTCCATATTCTT
131 ACTGTGAAATTTTGAAAATCACATTCTTCGTTTTCAAAAATTCCATATTCTT
17730 AAAACATCA
1 AAAACATCA
17739 CTTTTCATTT
Statistics
Matches: 172, Mismatches: 17, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
181 164 0.95
182 8 0.05
ACGTcount: A:0.34, C:0.20, G:0.15, T:0.31
Consensus pattern (182 bp):
AAAACATCATACCCGAAGGTTTTATGAATGGCCCGAAAGACTTATCATCTTACTCTAAAGGCTTA
CAGATGACACGAAGGATTTAAGCATCATGCTCGAAAGAATTACTAATGGCCCGAAGGACTTATAA
ACTGTGAAATTTTGAAAATCACATTCTTCGTTTTCAAAAATTCCATATTCTT
Found at i:17919 original size:214 final size:215
Alignment explanation
Indices: 17549--18635 Score: 1572
Period size: 211 Copynumber: 5.1 Consensus size: 215
17539 TCATCTTCTT
* * *
17549 AAACAT-CATACCCGAAGGTTTTATGAATTGCCCGAAGGACTTATCATCTTGCTCTAAAGGCTTA
1 AAACATCCCTACCCGAAGGTTTTATGGATGGCCCGAAGGACTTATCATCTTGCTCTAAAGGCTTA
* *
17613 CAGATGACACGAAGGATTTAAGCATCATGCTCGAAAGAATTACTGATGGCCCGAAGGACTTATAA
66 CAGATGACCCGAAGGATTTAAGCATCATGCTCGAAAGACTTACTGATGGCCCGAAGGACTTATAA
* * * * * *
17678 ACTGTGAAATTTTGAAAATCACATTCTTCTTTTTCAAAACTTCCATATTCTTAAAACATCACTTT
131 ATTGTGAAATTTTGAAAATCGCATTCTTCGTTTTCAAAAATTCCATCTTCTTAAAACATCATTTT
17743 TCATTTTCAAATTCATTTGA
196 TCATTTTCAAATTCATTTGA
*
17763 AAACATCCCT-CCCGAAGGTTTTATGGATGACCCGAAGGACTTATCATCTTGCTCTAAAGGCTTA
1 AAACATCCCTACCCGAAGGTTTTATGGATGGCCCGAAGGACTTATCATCTTGCTCTAAAGGCTTA
* * * * * *
17827 AAAATGACCAGAAGGATTTAAGCATCATGCTCGAAAGACTTATTGATGGCCTGAGGGACTTATAA
66 CAGATGACCCGAAGGATTTAAGCATCATGCTCGAAAGACTTACTGATGGCCCGAAGGACTTATAA
17892 ATTGTGAAATTTTGAAAATCGCATTCTTCGTTTTCAAAAAATT-CATCTTCTTAAAACATCACTT
131 ATTGTGAAATTTTGAAAATCGCATTCTTCGTTTTC-AAAAATTCCATCTTCTTAAAACATCA-TT
17956 TTTCATTTTCAAATTCATTTGA
194 TTTCATTTTCAAATTCATTTGA
* * *
17978 AAACATCCCT-CCCGAAGGTCTTATGGATGGCCCAAAGGACTTATCATCTTGCTCTAAAGACTTA
1 AAACATCCCTACCCGAAGGTTTTATGGATGGCCCGAAGGACTTATCATCTTGCTCTAAAGGCTTA
* * *
18042 CAGATGACCCGAAGGATTTAAACATCATGCTCGAAAGACTTATTGATGGCCCGAGGGAC-T-T--
66 CAGATGACCCGAAGGATTTAAGCATCATGCTCGAAAGACTTACTGATGGCCCGAAGGACTTATAA
*
18103 ATTATGAAATTTTGAAAATCGCATTCTTCGTTTTCAAAAATTCCATCTTCTTAAAACATCATTTT
131 ATTGTGAAATTTTGAAAATCGCATTCTTCGTTTTCAAAAATTCCATCTTCTTAAAACATCA-TTT
18168 TTCATTTTCAAATTCATTTGA
195 TTCATTTTCAAATTCATTTGA
* * * * *
18189 AAACAT-CCTACCCGAAGGTCTTATGGATGGCCTGAAGGATTTATCATCTTGTTCTAAAGACTTA
1 AAACATCCCTACCCGAAGGTTTTATGGATGGCCCGAAGGACTTATCATCTTGCTCTAAAGGCTTA
* *
18253 CAGATGACCCGAAGGATTTAAGCATCATGCTCAAAAGACTTACAGATGGCCCGAAGGACTTATAA
66 CAGATGACCCGAAGGATTTAAGCATCATGCTCGAAAGACTTACTGATGGCCCGAAGGACTTATAA
*
18318 ATTGTGAAAATTTTGAAAATCGCATTCTTCGTTTTCAAAAATTCCA---TC----ATCAT--TTT
131 ATTGTG-AAATTTTGAAAATCGCATTCTTCGTTTTCAAAAATTCCATCTTCTTAAAACATCATTT
* *
18374 TTCATTTTCAATTTCATGTGA
195 TTCATTTTCAAATTCATTTGA
* *
18395 AAACAT-CCTACCCGAAGGTTTCATGGATGGCCCGAAGGACTTATCATCTTGCTCTAAAGGGTTA
1 AAACATCCCTACCCGAAGGTTTTATGGATGGCCCGAAGGACTTATCATCTTGCTCTAAAGGCTTA
* *
18459 CAGATGACCCGAAGGATTTAAGCATCATGCTCGAAAGACTTACTGAT---CCAAAAGACTTATAA
66 CAGATGACCCGAAGGATTTAAGCATCATGCTCGAAAGACTTACTGATGGCCCGAAGGACTTATAA
* *
18521 ATTGTGAAATTTTGAAAATCGCATTCTTCGTTTTCAAAAGTTTCATCTTCTTAAAACATCATTTT
131 ATTGTGAAATTTTGAAAATCGCATTCTTCGTTTTCAAAAATTCCATCTTCTTAAAACATCATTTT
*
18586 TCATTTTCAAATTCATGTGA
196 TCATTTTCAAATTCATTTGA
* * *
18606 AAACAT-CCTACCTGAAAGTCTTATGGATGG
1 AAACATCCCTACCCGAAGGTTTTATGGATGG
18636 ATTTACTTCA
Statistics
Matches: 793, Mismatches: 61, Indels: 41
0.89 0.07 0.05
Matches are distributed among these distances:
202 37 0.05
203 19 0.02
205 2 0.00
206 124 0.16
209 8 0.01
210 10 0.01
211 235 0.30
212 1 0.00
213 4 0.01
214 164 0.21
215 150 0.19
216 39 0.05
ACGTcount: A:0.32, C:0.20, G:0.15, T:0.33
Consensus pattern (215 bp):
AAACATCCCTACCCGAAGGTTTTATGGATGGCCCGAAGGACTTATCATCTTGCTCTAAAGGCTTA
CAGATGACCCGAAGGATTTAAGCATCATGCTCGAAAGACTTACTGATGGCCCGAAGGACTTATAA
ATTGTGAAATTTTGAAAATCGCATTCTTCGTTTTCAAAAATTCCATCTTCTTAAAACATCATTTT
TCATTTTCAAATTCATTTGA
Found at i:18095 original size:42 final size:41
Alignment explanation
Indices: 17997--18103 Score: 115
Period size: 42 Copynumber: 2.6 Consensus size: 41
17987 TCCCGAAGGT
* * * * *
17997 CTTATGGATGGCCCAAAGGACTTATCATCTTGCTCTAAAGA
1 CTTATAGATGGCCCGAAGGACTTAACATCATGCTCGAAAGA
* * *
18038 CTTACAGATGACCCGAAGGATTTAAACATCATGCTCGAAAGA
1 CTTATAGATGGCCCGAAGGACTT-AACATCATGCTCGAAAGA
* *
18080 CTTATTGATGGCCCGAGGGACTTA
1 CTTATAGATGGCCCGAAGGACTTA
18104 TTATGAAATT
Statistics
Matches: 52, Mismatches: 13, Indels: 2
0.78 0.19 0.03
Matches are distributed among these distances:
41 19 0.37
42 33 0.63
ACGTcount: A:0.31, C:0.21, G:0.21, T:0.26
Consensus pattern (41 bp):
CTTATAGATGGCCCGAAGGACTTAACATCATGCTCGAAAGA
Found at i:18295 original size:42 final size:41
Alignment explanation
Indices: 18222--18310 Score: 124
Period size: 42 Copynumber: 2.1 Consensus size: 41
18212 TGGATGGCCT
* * * *
18222 GAAGGATTTATCATCTTGTTCTAAAGACTTACAGATGACCC
1 GAAGGATTTAGCATCATGCTCAAAAGACTTACAGATGACCC
*
18263 GAAGGATTTAAGCATCATGCTCAAAAGACTTACAGATGGCCC
1 GAAGGATTT-AGCATCATGCTCAAAAGACTTACAGATGACCC
18305 GAAGGA
1 GAAGGA
18311 CTTATAAATT
Statistics
Matches: 42, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
41 9 0.21
42 33 0.79
ACGTcount: A:0.35, C:0.19, G:0.21, T:0.25
Consensus pattern (41 bp):
GAAGGATTTAGCATCATGCTCAAAAGACTTACAGATGACCC
Found at i:18599 original size:417 final size:421
Alignment explanation
Indices: 17549--18635 Score: 1559
Period size: 417 Copynumber: 2.6 Consensus size: 421
17539 TCATCTTCTT
* * *
17549 AAACATCATACCCGAAGGTTTTATGAATTGCCCGAAGGACTTATCATCTTGCTCTAAAGGCTTAC
1 AAACATCCTACCCGAAGG-TTTATGGATGGCCCGAAGGACTTATCATCTTGCTCTAAAGGCTTAC
* *
17614 AGATGACACGAAGGATTTAAGCATCATGCTCGAAAGAATTACTGATGGCCCGAAGGACTTATAAA
65 AGATGACCCGAAGGATTTAAGCATCATGCTCGAAAGACTTACTGAT-G-CCGAAGGACTTATAAA
* * * * * *
17679 CTGTGAAATTTTGAAAATCACATTCTTCTTTTTCAAAACTTCCATATTCTTAAAACATCACTTTT
128 TTGTGAAATTTTGAAAATCGCATTCTTCGTTTTCAAAAATTCCATCTTCTTAAAACATCATTTTT
* *
17744 CATTTTCAAATTCATTTGAAAACATCCCT-CCCGAAGGTTTTATGGATGACCCGAAGGACTTATC
193 CATTTTCAAATTCATTTGAAAACAT-CCTACCCGAAGGTCTTATGGATGGCCCGAAGGACTTATC
* * **
17808 ATCTTGCTCTAAAGGCTTAAAAATGACCAGAAGGATTTAAGCATCATGCTCGAAAGACTTATTGA
257 ATCTTGCTCTAAAGACTTAAAAATGACCAGAAGGATTTAAGCATCATGCTCAAAAGACTTACAGA
* *
17873 TGGCCTGAGGGACTTATAAATTGTGAAATTTTGAAAATCGCATTCTTCGTTTTCAAAAAATTCAT
322 TGGCCCGAAGGACTTATAAATTGTGAAATTTTGAAAATCGCATTCTTCGTTTTCAAAAAATT-AT
*
17938 CTTCTTAAAACATCACTTTTTCATTTTCAAATTCATTTGA
386 C-TC---AAACATCACTTTTTCATTTTCAAATTCATGTGA
* *
17978 AAACATCCCT-CCCGAAGGTCTTATGGATGGCCCAAAGGACTTATCATCTTGCTCTAAAGACTTA
1 AAACAT-CCTACCCGAAGGT-TTATGGATGGCCCGAAGGACTTATCATCTTGCTCTAAAGGCTTA
* * *
18042 CAGATGACCCGAAGGATTTAAACATCATGCTCGAAAGACTTATTGATGGCCCGAGGGAC-T-T--
64 CAGATGACCCGAAGGATTTAAGCATCATGCTCGAAAGACTTACTGAT-G-CCGAAGGACTTATAA
*
18103 ATTATGAAATTTTGAAAATCGCATTCTTCGTTTTCAAAAATTCCATCTTCTTAAAACATCATTTT
127 ATTGTGAAATTTTGAAAATCGCATTCTTCGTTTTCAAAAATTCCATCTTCTTAAAACATCA-TTT
* *
18168 TTCATTTTCAAATTCATTTGAAAACATCCTACCCGAAGGTCTTATGGATGGCCTGAAGGATTTAT
191 TTCATTTTCAAATTCATTTGAAAACATCCTACCCGAAGGTCTTATGGATGGCCCGAAGGACTTAT
* * * *
18233 CATCTTGTTCTAAAGACTTACAGATGACCCGAAGGATTTAAGCATCATGCTCAAAAGACTTACAG
256 CATCTTGCTCTAAAGACTTAAAAATGACCAGAAGGATTTAAGCATCATGCTCAAAAGACTTACAG
18298 ATGGCCCGAAGGACTTATAAATTGTGAAAATTTTGAAAATCGCATTCTTCGTTTTC-AAAAA-T-
321 ATGGCCCGAAGGACTTATAAATTGTG-AAATTTTGAAAATCGCATTCTTCGTTTTCAAAAAATTA
* * *
18360 TC-C-ATCATCATTTTTTCATTTTCAATTTCATGTGA
385 TCTCAAACATCACTTTTTCATTTTCAAATTCATGTGA
*
18395 AAACATCCTACCCGAAGGTTTCATGGATGGCCCGAAGGACTTATCATCTTGCTCTAAAGGGTTAC
1 AAACATCCTACCCGAAGGTTT-ATGGATGGCCCGAAGGACTTATCATCTTGCTCTAAAGGCTTAC
* *
18460 AGATGACCCGAAGGATTTAAGCATCATGCTCGAAAGACTTACTGAT-CCAAAAGACTTATAAATT
65 AGATGACCCGAAGGATTTAAGCATCATGCTCGAAAGACTTACTGATGCCGAAGGACTTATAAATT
* *
18524 GTGAAATTTTGAAAATCGCATTCTTCGTTTTCAAAAGTTTCATCTTCTTAAAACATCATTTTTCA
130 GTGAAATTTTGAAAATCGCATTCTTCGTTTTCAAAAATTCCATCTTCTTAAAACATCATTTTTCA
* * *
18589 TTTTCAAATTCATGTGAAAACATCCTACCTGAAAGTCTTATGGATGG
195 TTTTCAAATTCATTTGAAAACATCCTACCCGAAGGTCTTATGGATGG
18636 ATTTACTTCA
Statistics
Matches: 598, Mismatches: 49, Indels: 34
0.88 0.07 0.05
Matches are distributed among these distances:
414 6 0.01
415 1 0.00
416 6 0.01
417 178 0.30
418 58 0.10
421 1 0.00
423 2 0.00
425 59 0.10
426 145 0.24
427 30 0.05
428 2 0.00
429 108 0.18
430 2 0.00
ACGTcount: A:0.32, C:0.20, G:0.15, T:0.33
Consensus pattern (421 bp):
AAACATCCTACCCGAAGGTTTATGGATGGCCCGAAGGACTTATCATCTTGCTCTAAAGGCTTACA
GATGACCCGAAGGATTTAAGCATCATGCTCGAAAGACTTACTGATGCCGAAGGACTTATAAATTG
TGAAATTTTGAAAATCGCATTCTTCGTTTTCAAAAATTCCATCTTCTTAAAACATCATTTTTCAT
TTTCAAATTCATTTGAAAACATCCTACCCGAAGGTCTTATGGATGGCCCGAAGGACTTATCATCT
TGCTCTAAAGACTTAAAAATGACCAGAAGGATTTAAGCATCATGCTCAAAAGACTTACAGATGGC
CCGAAGGACTTATAAATTGTGAAATTTTGAAAATCGCATTCTTCGTTTTCAAAAAATTATCTCAA
ACATCACTTTTTCATTTTCAAATTCATGTGA
Found at i:18679 original size:34 final size:34
Alignment explanation
Indices: 18641--19017 Score: 477
Period size: 34 Copynumber: 10.9 Consensus size: 34
18631 GATGGATTTA
*
18641 CTTCACTACTCTTCGGTGAAGGCTTAAGATGGTG
1 CTTCACTACTCTTCTGTGAAGGCTTAAGATGGTG
* *
18675 CTTCACTACTCCTCTGTGAAAGCTTAAGATGGTG
1 CTTCACTACTCTTCTGTGAAGGCTTAAGATGGTG
* **
18709 CTTCATTACTCCCCTGTGAAGGCTTAAGATGGTG
1 CTTCACTACTCTTCTGTGAAGGCTTAAGATGGTG
*
18743 CTTCACTACTCTTCTGTGAAGGCTTAAGATGATTG
1 CTTCACTACTCTTCTGTGAAGGCTTAAGATG-GTG
* * * *
18778 TTTCACTACTCTCCGGTGAAGGATTAAGATGGTTTG
1 CTTCACTACTCTTCTGTGAAGGCTTAAGATGG--TG
*
18814 CTTCACTACTCCTCTGTGAAGGCTTAAGATGGTG
1 CTTCACTACTCTTCTGTGAAGGCTTAAGATGGTG
* * *
18848 CTTTACTACTCTTATGTGAAGGCTTAAGATGATTG
1 CTTCACTACTCTTCTGTGAAGGCTTAAGATG-GTG
* *
18883 CTTCACTACTCTCCGGTGAAGGCTTAAGATGGTTTG
1 CTTCACTACTCTTCTGTGAAGGCTTAAGATGG--TG
18919 CTTCACTACT-TCTCTGTGAAGGCTTAAGATGGTG
1 CTTCACTACTCT-TCTGTGAAGGCTTAAGATGGTG
* * *
18953 CTTCACTACACTTCTGTGAAGGCTTAATATGATTG
1 CTTCACTACTCTTCTGTGAAGGCTTAAGATG-GTG
* *
18988 CTTCACTACTCTCCGGTGAAGGCTTAAGAT
1 CTTCACTACTCTTCTGTGAAGGCTTAAGAT
19018 CGACTTTGCT
Statistics
Matches: 296, Mismatches: 38, Indels: 17
0.84 0.11 0.05
Matches are distributed among these distances:
34 149 0.50
35 88 0.30
36 59 0.20
ACGTcount: A:0.22, C:0.21, G:0.22, T:0.34
Consensus pattern (34 bp):
CTTCACTACTCTTCTGTGAAGGCTTAAGATGGTG
Found at i:18838 original size:105 final size:105
Alignment explanation
Indices: 18641--19017 Score: 600
Period size: 105 Copynumber: 3.6 Consensus size: 105
18631 GATGGATTTA
* * * *
18641 CTTCACTACTCTTCGGTGAAGGCTTAAGATG-GTGCTTCACTACTC-CTCTGTGAAAGCTTAAGA
1 CTTCACTACTCTTCTGTGAAGGCTTAAGATGATTGCTTCACTACTCTC-CGGTGAAGGCTTAAGA
* *
18704 TGG--TGCTTCATTACTCCCCTGTGAAGGCTTAAGATGGTG
65 TGGTTTGCTTCACTACTCCTCTGTGAAGGCTTAAGATGGTG
* *
18743 CTTCACTACTCTTCTGTGAAGGCTTAAGATGATTGTTTCACTACTCTCCGGTGAAGGATTAAGAT
1 CTTCACTACTCTTCTGTGAAGGCTTAAGATGATTGCTTCACTACTCTCCGGTGAAGGCTTAAGAT
18808 GGTTTGCTTCACTACTCCTCTGTGAAGGCTTAAGATGGTG
66 GGTTTGCTTCACTACTCCTCTGTGAAGGCTTAAGATGGTG
* *
18848 CTTTACTACTCTTATGTGAAGGCTTAAGATGATTGCTTCACTACTCTCCGGTGAAGGCTTAAGAT
1 CTTCACTACTCTTCTGTGAAGGCTTAAGATGATTGCTTCACTACTCTCCGGTGAAGGCTTAAGAT
*
18913 GGTTTGCTTCACTACTTCTCTGTGAAGGCTTAAGATGGTG
66 GGTTTGCTTCACTACTCCTCTGTGAAGGCTTAAGATGGTG
* *
18953 CTTCACTACACTTCTGTGAAGGCTTAATATGATTGCTTCACTACTCTCCGGTGAAGGCTTAAGAT
1 CTTCACTACTCTTCTGTGAAGGCTTAAGATGATTGCTTCACTACTCTCCGGTGAAGGCTTAAGAT
19018 CGACTTTGCT
Statistics
Matches: 254, Mismatches: 17, Indels: 5
0.92 0.06 0.02
Matches are distributed among these distances:
102 30 0.12
103 28 0.11
104 1 0.00
105 195 0.77
ACGTcount: A:0.22, C:0.21, G:0.22, T:0.34
Consensus pattern (105 bp):
CTTCACTACTCTTCTGTGAAGGCTTAAGATGATTGCTTCACTACTCTCCGGTGAAGGCTTAAGAT
GGTTTGCTTCACTACTCCTCTGTGAAGGCTTAAGATGGTG
Found at i:23209 original size:13 final size:13
Alignment explanation
Indices: 23191--23228 Score: 51
Period size: 13 Copynumber: 2.9 Consensus size: 13
23181 AAACAAATAC
23191 ATGCAAATGCAAA
1 ATGCAAATGCAAA
*
23204 ATGCAAAT-CCAA
1 ATGCAAATGCAAA
23216 ATGCTAAATGCAA
1 ATGC-AAATGCAA
23229 GCACAAAAGG
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
12 7 0.33
13 12 0.57
14 2 0.10
ACGTcount: A:0.50, C:0.18, G:0.13, T:0.18
Consensus pattern (13 bp):
ATGCAAATGCAAA
Found at i:30130 original size:56 final size:56
Alignment explanation
Indices: 30039--30146 Score: 171
Period size: 56 Copynumber: 1.9 Consensus size: 56
30029 AATTCATGTG
* *
30039 AAAACATCCTACTCGAAGGTCTCATGGATGGCCCGAAGGACTTATCATCTTGGTGC
1 AAAACATCCTACCCGAAGGTCTCATGGATGACCCGAAGGACTTATCATCTTGGTGC
* * *
30095 AAAACATCCTGCCCGAAGGTCTTATGGATGACCCGAAGGATTTATCATCTTG
1 AAAACATCCTACCCGAAGGTCTCATGGATGACCCGAAGGACTTATCATCTTG
30147 CTCAAGAGAC
Statistics
Matches: 47, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
56 47 1.00
ACGTcount: A:0.28, C:0.24, G:0.22, T:0.26
Consensus pattern (56 bp):
AAAACATCCTACCCGAAGGTCTCATGGATGACCCGAAGGACTTATCATCTTGGTGC
Found at i:30478 original size:215 final size:215
Alignment explanation
Indices: 30095--30501 Score: 640
Period size: 215 Copynumber: 1.9 Consensus size: 215
30085 ATCTTGGTGC
* * * *
30095 AAAACATCCTGCCCGAAGGTCTTATGGATGACCCGAAGGATTTATCATCTTGCTCAAGAGACTCA
1 AAAACATCCTACCCGAAGGTCTTATGGATGACCCGAAAGACTTATCATCTTACTCAAGAGACTCA
*
30160 CAAATGACCCGAAGGATTTTAAGCATAGTGCTCGAAAGACTTACTGATGGCCCGAAGGACTTATA
66 CAAATGACCCGAAGGATTTTAAGCATAGTGCTCGAAAGACTTACTAATGGCCCGAAGGACTTATA
30225 AATTGTGAAATTTTGAAAATCGCATTCTTCGTTTTCAAAAATTCCATCTTCTTAAAACATCATTT
131 AATTGTGAAATTTTGAAAATCGCATTCTTCGTTTTCAAAAATTCCATCTTCTT-AAACATCATTT
30290 TTTCATTTTCAAATTCATGTG
195 TTTCATTTTCAAATTCATGTG
* * * * *
30311 AAAATATCCTACCCGAAGGTTTTATGGATGGCCCGAAAGACTTATCATCTTACTCTAA-AGGCTT
1 AAAACATCCTACCCGAAGGTCTTATGGATGACCCGAAAGACTTATCATCTTACTC-AAGAGACTC
* * *
30375 ACAGATTACCCGAATGA-TTTAAGCATCA-TGCTCGAAAGACTTACTAATGGCCCGAAGGACTTA
65 ACAAATGACCCGAAGGATTTTAAGCAT-AGTGCTCGAAAGACTTACTAATGGCCCGAAGGACTTA
*
30438 TAAATTGTGAAATTTTGAAAATCGCATTCTTCGTTTTCAAAAATTTCATCTTCTTAAACATCAT
129 TAAATTGTGAAATTTTGAAAATCGCATTCTTCGTTTTCAAAAATTCCATCTTCTTAAACATCAT
30502 ACCCGAAGGT
Statistics
Matches: 175, Mismatches: 14, Indels: 6
0.90 0.07 0.03
Matches are distributed among these distances:
214 9 0.05
215 97 0.55
216 67 0.38
217 2 0.01
ACGTcount: A:0.33, C:0.20, G:0.15, T:0.32
Consensus pattern (215 bp):
AAAACATCCTACCCGAAGGTCTTATGGATGACCCGAAAGACTTATCATCTTACTCAAGAGACTCA
CAAATGACCCGAAGGATTTTAAGCATAGTGCTCGAAAGACTTACTAATGGCCCGAAGGACTTATA
AATTGTGAAATTTTGAAAATCGCATTCTTCGTTTTCAAAAATTCCATCTTCTTAAACATCATTTT
TTCATTTTCAAATTCATGTG
Found at i:30612 original size:42 final size:41
Alignment explanation
Indices: 30522--30618 Score: 104
Period size: 42 Copynumber: 2.3 Consensus size: 41
30512 TTTATGAATT
* * * **
30522 GCCCGAAGGACTTATCATCTTGCTCTAAAGGCTTACAGATG
1 GCCCGAAGGACTTAGCATCATGCTCGAAAGAATTACAGATG
* * * *
30563 ACACGAAGGATTTAAGCATCATGCTCGAAAGAATTACTGATG
1 GCCCGAAGGACTT-AGCATCATGCTCGAAAGAATTACAGATG
30605 GCCCGAAGGACTTA
1 GCCCGAAGGACTTA
30619 TAAACTGTGA
Statistics
Matches: 43, Mismatches: 12, Indels: 2
0.75 0.21 0.04
Matches are distributed among these distances:
41 11 0.26
42 32 0.74
ACGTcount: A:0.32, C:0.22, G:0.23, T:0.24
Consensus pattern (41 bp):
GCCCGAAGGACTTAGCATCATGCTCGAAAGAATTACAGATG
Found at i:30630 original size:181 final size:182
Alignment explanation
Indices: 30311--30682 Score: 584
Period size: 181 Copynumber: 2.0 Consensus size: 182
30301 AATTCATGTG
* * *
30311 AAAATATCCTACCCGAAGGTTTTATGGATGGCCCGAAAGACTTATCATCTTACTCTAAAGGCTTA
1 AAAACATCATACCCGAAGGTTTTATGAATGGCCCGAAAGACTTATCATCTTACTCTAAAGGCTTA
* * * *
30376 CAGATTACCCGAATGATTTAAGCATCATGCTCGAAAGACTTACTAATGGCCCGAAGGACTTATAA
66 CAGATGACACGAAGGATTTAAGCATCATGCTCGAAAGAATTACTAATGGCCCGAAGGACTTATAA
* * * *
30441 ATTGTGAAATTTTGAAAATCGCATTCTTCGTTTTCAAAAATTTCATCTTCTT
131 ACTGTGAAATTTTGAAAATCACATTCTTCGTTTTCAAAAATTCCATATTCTT
* * *
30493 -AAACATCATACCCGAAGGTTTTATGAATTGCCCGAAGGACTTATCATCTTGCTCTAAAGGCTTA
1 AAAACATCATACCCGAAGGTTTTATGAATGGCCCGAAAGACTTATCATCTTACTCTAAAGGCTTA
*
30557 CAGATGACACGAAGGATTTAAGCATCATGCTCGAAAGAATTACTGATGGCCCGAAGGACTTATAA
66 CAGATGACACGAAGGATTTAAGCATCATGCTCGAAAGAATTACTAATGGCCCGAAGGACTTATAA
* *
30622 ACTGTGAAATTTTGAAAATCACATTCTTCTTTTTCAAAACTTCCATATTCTT
131 ACTGTGAAATTTTGAAAATCACATTCTTCGTTTTCAAAAATTCCATATTCTT
30674 AAAACATCA
1 AAAACATCA
30683 CTTTTCATTT
Statistics
Matches: 172, Mismatches: 17, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
181 164 0.95
182 8 0.05
ACGTcount: A:0.34, C:0.20, G:0.15, T:0.31
Consensus pattern (182 bp):
AAAACATCATACCCGAAGGTTTTATGAATGGCCCGAAAGACTTATCATCTTACTCTAAAGGCTTA
CAGATGACACGAAGGATTTAAGCATCATGCTCGAAAGAATTACTAATGGCCCGAAGGACTTATAA
ACTGTGAAATTTTGAAAATCACATTCTTCGTTTTCAAAAATTCCATATTCTT
Found at i:30863 original size:214 final size:215
Alignment explanation
Indices: 30493--31579 Score: 1572
Period size: 211 Copynumber: 5.1 Consensus size: 215
30483 TCATCTTCTT
* * *
30493 AAACAT-CATACCCGAAGGTTTTATGAATTGCCCGAAGGACTTATCATCTTGCTCTAAAGGCTTA
1 AAACATCCCTACCCGAAGGTTTTATGGATGGCCCGAAGGACTTATCATCTTGCTCTAAAGGCTTA
* *
30557 CAGATGACACGAAGGATTTAAGCATCATGCTCGAAAGAATTACTGATGGCCCGAAGGACTTATAA
66 CAGATGACCCGAAGGATTTAAGCATCATGCTCGAAAGACTTACTGATGGCCCGAAGGACTTATAA
* * * * * *
30622 ACTGTGAAATTTTGAAAATCACATTCTTCTTTTTCAAAACTTCCATATTCTTAAAACATCACTTT
131 ATTGTGAAATTTTGAAAATCGCATTCTTCGTTTTCAAAAATTCCATCTTCTTAAAACATCATTTT
30687 TCATTTTCAAATTCATTTGA
196 TCATTTTCAAATTCATTTGA
*
30707 AAACATCCCT-CCCGAAGGTTTTATGGATGACCCGAAGGACTTATCATCTTGCTCTAAAGGCTTA
1 AAACATCCCTACCCGAAGGTTTTATGGATGGCCCGAAGGACTTATCATCTTGCTCTAAAGGCTTA
* * * * * *
30771 AAAATGACCAGAAGGATTTAAGCATCATGCTCGAAAGACTTATTGATGGCCTGAGGGACTTATAA
66 CAGATGACCCGAAGGATTTAAGCATCATGCTCGAAAGACTTACTGATGGCCCGAAGGACTTATAA
30836 ATTGTGAAATTTTGAAAATCGCATTCTTCGTTTTCAAAAAATT-CATCTTCTTAAAACATCACTT
131 ATTGTGAAATTTTGAAAATCGCATTCTTCGTTTTC-AAAAATTCCATCTTCTTAAAACATCA-TT
30900 TTTCATTTTCAAATTCATTTGA
194 TTTCATTTTCAAATTCATTTGA
* * *
30922 AAACATCCCT-CCCGAAGGTCTTATGGATGGCCCAAAGGACTTATCATCTTGCTCTAAAGACTTA
1 AAACATCCCTACCCGAAGGTTTTATGGATGGCCCGAAGGACTTATCATCTTGCTCTAAAGGCTTA
* * *
30986 CAGATGACCCGAAGGATTTAAACATCATGCTCGAAAGACTTATTGATGGCCCGAGGGAC-T-T--
66 CAGATGACCCGAAGGATTTAAGCATCATGCTCGAAAGACTTACTGATGGCCCGAAGGACTTATAA
*
31047 ATTATGAAATTTTGAAAATCGCATTCTTCGTTTTCAAAAATTCCATCTTCTTAAAACATCATTTT
131 ATTGTGAAATTTTGAAAATCGCATTCTTCGTTTTCAAAAATTCCATCTTCTTAAAACATCA-TTT
31112 TTCATTTTCAAATTCATTTGA
195 TTCATTTTCAAATTCATTTGA
* * * * *
31133 AAACAT-CCTACCCGAAGGTCTTATGGATGGCCTGAAGGATTTATCATCTTGTTCTAAAGACTTA
1 AAACATCCCTACCCGAAGGTTTTATGGATGGCCCGAAGGACTTATCATCTTGCTCTAAAGGCTTA
* *
31197 CAGATGACCCGAAGGATTTAAGCATCATGCTCAAAAGACTTACAGATGGCCCGAAGGACTTATAA
66 CAGATGACCCGAAGGATTTAAGCATCATGCTCGAAAGACTTACTGATGGCCCGAAGGACTTATAA
*
31262 ATTGTGAAAATTTTGAAAATCGCATTCTTCGTTTTCAAAAATTCCA---TC----ATCAT--TTT
131 ATTGTG-AAATTTTGAAAATCGCATTCTTCGTTTTCAAAAATTCCATCTTCTTAAAACATCATTT
* *
31318 TTCATTTTCAATTTCATGTGA
195 TTCATTTTCAAATTCATTTGA
* *
31339 AAACAT-CCTACCCGAAGGTTTCATGGATGGCCCGAAGGACTTATCATCTTGCTCTAAAGGGTTA
1 AAACATCCCTACCCGAAGGTTTTATGGATGGCCCGAAGGACTTATCATCTTGCTCTAAAGGCTTA
* *
31403 CAGATGACCCGAAGGATTTAAGCATCATGCTCGAAAGACTTACTGAT---CCAAAAGACTTATAA
66 CAGATGACCCGAAGGATTTAAGCATCATGCTCGAAAGACTTACTGATGGCCCGAAGGACTTATAA
* *
31465 ATTGTGAAATTTTGAAAATCGCATTCTTCGTTTTCAAAAGTTTCATCTTCTTAAAACATCATTTT
131 ATTGTGAAATTTTGAAAATCGCATTCTTCGTTTTCAAAAATTCCATCTTCTTAAAACATCATTTT
*
31530 TCATTTTCAAATTCATGTGA
196 TCATTTTCAAATTCATTTGA
* * *
31550 AAACAT-CCTACCTGAAAGTCTTATGGATGG
1 AAACATCCCTACCCGAAGGTTTTATGGATGG
31580 ATTTACTTCA
Statistics
Matches: 793, Mismatches: 61, Indels: 41
0.89 0.07 0.05
Matches are distributed among these distances:
202 37 0.05
203 19 0.02
205 2 0.00
206 124 0.16
209 8 0.01
210 10 0.01
211 235 0.30
212 1 0.00
213 4 0.01
214 164 0.21
215 150 0.19
216 39 0.05
ACGTcount: A:0.32, C:0.20, G:0.15, T:0.33
Consensus pattern (215 bp):
AAACATCCCTACCCGAAGGTTTTATGGATGGCCCGAAGGACTTATCATCTTGCTCTAAAGGCTTA
CAGATGACCCGAAGGATTTAAGCATCATGCTCGAAAGACTTACTGATGGCCCGAAGGACTTATAA
ATTGTGAAATTTTGAAAATCGCATTCTTCGTTTTCAAAAATTCCATCTTCTTAAAACATCATTTT
TCATTTTCAAATTCATTTGA
Found at i:31039 original size:42 final size:41
Alignment explanation
Indices: 30941--31047 Score: 115
Period size: 42 Copynumber: 2.6 Consensus size: 41
30931 TCCCGAAGGT
* * * * *
30941 CTTATGGATGGCCCAAAGGACTTATCATCTTGCTCTAAAGA
1 CTTATAGATGGCCCGAAGGACTTAACATCATGCTCGAAAGA
* * *
30982 CTTACAGATGACCCGAAGGATTTAAACATCATGCTCGAAAGA
1 CTTATAGATGGCCCGAAGGACTT-AACATCATGCTCGAAAGA
* *
31024 CTTATTGATGGCCCGAGGGACTTA
1 CTTATAGATGGCCCGAAGGACTTA
31048 TTATGAAATT
Statistics
Matches: 52, Mismatches: 13, Indels: 2
0.78 0.19 0.03
Matches are distributed among these distances:
41 19 0.37
42 33 0.63
ACGTcount: A:0.31, C:0.21, G:0.21, T:0.26
Consensus pattern (41 bp):
CTTATAGATGGCCCGAAGGACTTAACATCATGCTCGAAAGA
Found at i:31239 original size:42 final size:41
Alignment explanation
Indices: 31166--31254 Score: 124
Period size: 42 Copynumber: 2.1 Consensus size: 41
31156 TGGATGGCCT
* * * *
31166 GAAGGATTTATCATCTTGTTCTAAAGACTTACAGATGACCC
1 GAAGGATTTAGCATCATGCTCAAAAGACTTACAGATGACCC
*
31207 GAAGGATTTAAGCATCATGCTCAAAAGACTTACAGATGGCCC
1 GAAGGATTT-AGCATCATGCTCAAAAGACTTACAGATGACCC
31249 GAAGGA
1 GAAGGA
31255 CTTATAAATT
Statistics
Matches: 42, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
41 9 0.21
42 33 0.79
ACGTcount: A:0.35, C:0.19, G:0.21, T:0.25
Consensus pattern (41 bp):
GAAGGATTTAGCATCATGCTCAAAAGACTTACAGATGACCC
Found at i:31543 original size:417 final size:421
Alignment explanation
Indices: 30493--31579 Score: 1559
Period size: 417 Copynumber: 2.6 Consensus size: 421
30483 TCATCTTCTT
* * *
30493 AAACATCATACCCGAAGGTTTTATGAATTGCCCGAAGGACTTATCATCTTGCTCTAAAGGCTTAC
1 AAACATCCTACCCGAAGG-TTTATGGATGGCCCGAAGGACTTATCATCTTGCTCTAAAGGCTTAC
* *
30558 AGATGACACGAAGGATTTAAGCATCATGCTCGAAAGAATTACTGATGGCCCGAAGGACTTATAAA
65 AGATGACCCGAAGGATTTAAGCATCATGCTCGAAAGACTTACTGAT-G-CCGAAGGACTTATAAA
* * * * * *
30623 CTGTGAAATTTTGAAAATCACATTCTTCTTTTTCAAAACTTCCATATTCTTAAAACATCACTTTT
128 TTGTGAAATTTTGAAAATCGCATTCTTCGTTTTCAAAAATTCCATCTTCTTAAAACATCATTTTT
* *
30688 CATTTTCAAATTCATTTGAAAACATCCCT-CCCGAAGGTTTTATGGATGACCCGAAGGACTTATC
193 CATTTTCAAATTCATTTGAAAACAT-CCTACCCGAAGGTCTTATGGATGGCCCGAAGGACTTATC
* * **
30752 ATCTTGCTCTAAAGGCTTAAAAATGACCAGAAGGATTTAAGCATCATGCTCGAAAGACTTATTGA
257 ATCTTGCTCTAAAGACTTAAAAATGACCAGAAGGATTTAAGCATCATGCTCAAAAGACTTACAGA
* *
30817 TGGCCTGAGGGACTTATAAATTGTGAAATTTTGAAAATCGCATTCTTCGTTTTCAAAAAATTCAT
322 TGGCCCGAAGGACTTATAAATTGTGAAATTTTGAAAATCGCATTCTTCGTTTTCAAAAAATT-AT
*
30882 CTTCTTAAAACATCACTTTTTCATTTTCAAATTCATTTGA
386 C-TC---AAACATCACTTTTTCATTTTCAAATTCATGTGA
* *
30922 AAACATCCCT-CCCGAAGGTCTTATGGATGGCCCAAAGGACTTATCATCTTGCTCTAAAGACTTA
1 AAACAT-CCTACCCGAAGGT-TTATGGATGGCCCGAAGGACTTATCATCTTGCTCTAAAGGCTTA
* * *
30986 CAGATGACCCGAAGGATTTAAACATCATGCTCGAAAGACTTATTGATGGCCCGAGGGAC-T-T--
64 CAGATGACCCGAAGGATTTAAGCATCATGCTCGAAAGACTTACTGAT-G-CCGAAGGACTTATAA
*
31047 ATTATGAAATTTTGAAAATCGCATTCTTCGTTTTCAAAAATTCCATCTTCTTAAAACATCATTTT
127 ATTGTGAAATTTTGAAAATCGCATTCTTCGTTTTCAAAAATTCCATCTTCTTAAAACATCA-TTT
* *
31112 TTCATTTTCAAATTCATTTGAAAACATCCTACCCGAAGGTCTTATGGATGGCCTGAAGGATTTAT
191 TTCATTTTCAAATTCATTTGAAAACATCCTACCCGAAGGTCTTATGGATGGCCCGAAGGACTTAT
* * * *
31177 CATCTTGTTCTAAAGACTTACAGATGACCCGAAGGATTTAAGCATCATGCTCAAAAGACTTACAG
256 CATCTTGCTCTAAAGACTTAAAAATGACCAGAAGGATTTAAGCATCATGCTCAAAAGACTTACAG
31242 ATGGCCCGAAGGACTTATAAATTGTGAAAATTTTGAAAATCGCATTCTTCGTTTTC-AAAAA-T-
321 ATGGCCCGAAGGACTTATAAATTGTG-AAATTTTGAAAATCGCATTCTTCGTTTTCAAAAAATTA
* * *
31304 TC-C-ATCATCATTTTTTCATTTTCAATTTCATGTGA
385 TCTCAAACATCACTTTTTCATTTTCAAATTCATGTGA
*
31339 AAACATCCTACCCGAAGGTTTCATGGATGGCCCGAAGGACTTATCATCTTGCTCTAAAGGGTTAC
1 AAACATCCTACCCGAAGGTTT-ATGGATGGCCCGAAGGACTTATCATCTTGCTCTAAAGGCTTAC
* *
31404 AGATGACCCGAAGGATTTAAGCATCATGCTCGAAAGACTTACTGAT-CCAAAAGACTTATAAATT
65 AGATGACCCGAAGGATTTAAGCATCATGCTCGAAAGACTTACTGATGCCGAAGGACTTATAAATT
* *
31468 GTGAAATTTTGAAAATCGCATTCTTCGTTTTCAAAAGTTTCATCTTCTTAAAACATCATTTTTCA
130 GTGAAATTTTGAAAATCGCATTCTTCGTTTTCAAAAATTCCATCTTCTTAAAACATCATTTTTCA
* * *
31533 TTTTCAAATTCATGTGAAAACATCCTACCTGAAAGTCTTATGGATGG
195 TTTTCAAATTCATTTGAAAACATCCTACCCGAAGGTCTTATGGATGG
31580 ATTTACTTCA
Statistics
Matches: 598, Mismatches: 49, Indels: 34
0.88 0.07 0.05
Matches are distributed among these distances:
414 6 0.01
415 1 0.00
416 6 0.01
417 178 0.30
418 58 0.10
421 1 0.00
423 2 0.00
425 59 0.10
426 145 0.24
427 30 0.05
428 2 0.00
429 108 0.18
430 2 0.00
ACGTcount: A:0.32, C:0.20, G:0.15, T:0.33
Consensus pattern (421 bp):
AAACATCCTACCCGAAGGTTTATGGATGGCCCGAAGGACTTATCATCTTGCTCTAAAGGCTTACA
GATGACCCGAAGGATTTAAGCATCATGCTCGAAAGACTTACTGATGCCGAAGGACTTATAAATTG
TGAAATTTTGAAAATCGCATTCTTCGTTTTCAAAAATTCCATCTTCTTAAAACATCATTTTTCAT
TTTCAAATTCATTTGAAAACATCCTACCCGAAGGTCTTATGGATGGCCCGAAGGACTTATCATCT
TGCTCTAAAGACTTAAAAATGACCAGAAGGATTTAAGCATCATGCTCAAAAGACTTACAGATGGC
CCGAAGGACTTATAAATTGTGAAATTTTGAAAATCGCATTCTTCGTTTTCAAAAAATTATCTCAA
ACATCACTTTTTCATTTTCAAATTCATGTGA
Found at i:31623 original size:34 final size:34
Alignment explanation
Indices: 31585--31961 Score: 477
Period size: 34 Copynumber: 10.9 Consensus size: 34
31575 GATGGATTTA
*
31585 CTTCACTACTCTTCGGTGAAGGCTTAAGATGGTG
1 CTTCACTACTCTTCTGTGAAGGCTTAAGATGGTG
* *
31619 CTTCACTACTCCTCTGTGAAAGCTTAAGATGGTG
1 CTTCACTACTCTTCTGTGAAGGCTTAAGATGGTG
* **
31653 CTTCATTACTCCCCTGTGAAGGCTTAAGATGGTG
1 CTTCACTACTCTTCTGTGAAGGCTTAAGATGGTG
*
31687 CTTCACTACTCTTCTGTGAAGGCTTAAGATGATTG
1 CTTCACTACTCTTCTGTGAAGGCTTAAGATG-GTG
* * * *
31722 TTTCACTACTCTCCGGTGAAGGATTAAGATGGTTTG
1 CTTCACTACTCTTCTGTGAAGGCTTAAGATGG--TG
*
31758 CTTCACTACTCCTCTGTGAAGGCTTAAGATGGTG
1 CTTCACTACTCTTCTGTGAAGGCTTAAGATGGTG
* * *
31792 CTTTACTACTCTTATGTGAAGGCTTAAGATGATTG
1 CTTCACTACTCTTCTGTGAAGGCTTAAGATG-GTG
* *
31827 CTTCACTACTCTCCGGTGAAGGCTTAAGATGGTTTG
1 CTTCACTACTCTTCTGTGAAGGCTTAAGATGG--TG
31863 CTTCACTACT-TCTCTGTGAAGGCTTAAGATGGTG
1 CTTCACTACTCT-TCTGTGAAGGCTTAAGATGGTG
* * *
31897 CTTCACTACACTTCTGTGAAGGCTTAATATGATTG
1 CTTCACTACTCTTCTGTGAAGGCTTAAGATG-GTG
* *
31932 CTTCACTACTCTCCGGTGAAGGCTTAAGAT
1 CTTCACTACTCTTCTGTGAAGGCTTAAGAT
31962 CGACTTTGCT
Statistics
Matches: 296, Mismatches: 38, Indels: 17
0.84 0.11 0.05
Matches are distributed among these distances:
34 149 0.50
35 88 0.30
36 59 0.20
ACGTcount: A:0.22, C:0.21, G:0.22, T:0.34
Consensus pattern (34 bp):
CTTCACTACTCTTCTGTGAAGGCTTAAGATGGTG
Found at i:31782 original size:105 final size:105
Alignment explanation
Indices: 31585--31961 Score: 600
Period size: 105 Copynumber: 3.6 Consensus size: 105
31575 GATGGATTTA
* * * *
31585 CTTCACTACTCTTCGGTGAAGGCTTAAGATG-GTGCTTCACTACTC-CTCTGTGAAAGCTTAAGA
1 CTTCACTACTCTTCTGTGAAGGCTTAAGATGATTGCTTCACTACTCTC-CGGTGAAGGCTTAAGA
* *
31648 TGG--TGCTTCATTACTCCCCTGTGAAGGCTTAAGATGGTG
65 TGGTTTGCTTCACTACTCCTCTGTGAAGGCTTAAGATGGTG
* *
31687 CTTCACTACTCTTCTGTGAAGGCTTAAGATGATTGTTTCACTACTCTCCGGTGAAGGATTAAGAT
1 CTTCACTACTCTTCTGTGAAGGCTTAAGATGATTGCTTCACTACTCTCCGGTGAAGGCTTAAGAT
31752 GGTTTGCTTCACTACTCCTCTGTGAAGGCTTAAGATGGTG
66 GGTTTGCTTCACTACTCCTCTGTGAAGGCTTAAGATGGTG
* *
31792 CTTTACTACTCTTATGTGAAGGCTTAAGATGATTGCTTCACTACTCTCCGGTGAAGGCTTAAGAT
1 CTTCACTACTCTTCTGTGAAGGCTTAAGATGATTGCTTCACTACTCTCCGGTGAAGGCTTAAGAT
*
31857 GGTTTGCTTCACTACTTCTCTGTGAAGGCTTAAGATGGTG
66 GGTTTGCTTCACTACTCCTCTGTGAAGGCTTAAGATGGTG
* *
31897 CTTCACTACACTTCTGTGAAGGCTTAATATGATTGCTTCACTACTCTCCGGTGAAGGCTTAAGAT
1 CTTCACTACTCTTCTGTGAAGGCTTAAGATGATTGCTTCACTACTCTCCGGTGAAGGCTTAAGAT
31962 CGACTTTGCT
Statistics
Matches: 254, Mismatches: 17, Indels: 5
0.92 0.06 0.02
Matches are distributed among these distances:
102 30 0.12
103 28 0.11
104 1 0.00
105 195 0.77
ACGTcount: A:0.22, C:0.21, G:0.22, T:0.34
Consensus pattern (105 bp):
CTTCACTACTCTTCTGTGAAGGCTTAAGATGATTGCTTCACTACTCTCCGGTGAAGGCTTAAGAT
GGTTTGCTTCACTACTCCTCTGTGAAGGCTTAAGATGGTG
Found at i:36152 original size:13 final size:13
Alignment explanation
Indices: 36134--36171 Score: 51
Period size: 13 Copynumber: 2.9 Consensus size: 13
36124 AAACAAATAC
36134 ATGCAAATGCAAA
1 ATGCAAATGCAAA
*
36147 ATGCAAAT-CCAA
1 ATGCAAATGCAAA
36159 ATGCTAAATGCAA
1 ATGC-AAATGCAA
36172 GCACAAAAGG
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
12 7 0.33
13 12 0.57
14 2 0.10
ACGTcount: A:0.50, C:0.18, G:0.13, T:0.18
Consensus pattern (13 bp):
ATGCAAATGCAAA
Found at i:42656 original size:1 final size:1
Alignment explanation
Indices: 42652--42702 Score: 66
Period size: 1 Copynumber: 51.0 Consensus size: 1
42642 CTTTTTTGGC
*** *
42652 TTTTTTTTTTTTTTTTTTTTTTTTTTTTGCCTTTTTTTTGTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
42703 GAAAAAATAG
Statistics
Matches: 45, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
1 45 1.00
ACGTcount: A:0.00, C:0.04, G:0.04, T:0.92
Consensus pattern (1 bp):
T
Found at i:42659 original size:11 final size:10
Alignment explanation
Indices: 42643--42699 Score: 53
Period size: 10 Copynumber: 5.7 Consensus size: 10
42633 AAATTTTAGC
*
42643 TTTTTTGGCT
1 TTTTTTTGCT
**
42653 TTTTTTTTTT
1 TTTTTTTGCT
**
42663 TTTTTTTTTT
1 TTTTTTTGCT
42673 TTTTTTTGCCT
1 TTTTTTTG-CT
42684 TTTTTTTG-T
1 TTTTTTTGCT
42693 TTTTTTT
1 TTTTTTT
42700 TTTGAAAAAA
Statistics
Matches: 41, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
9 8 0.20
10 24 0.59
11 9 0.22
ACGTcount: A:0.00, C:0.05, G:0.07, T:0.88
Consensus pattern (10 bp):
TTTTTTTGCT
Found at i:42677 original size:30 final size:30
Alignment explanation
Indices: 42643--42702 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
42633 AAATTTTAGC
* *
42643 TTTTTTGGCTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTGGCCTTTTTTTTGTTTTTTTTTTT
*
42673 TTTTTTTGCCTTTTTTTTGTTTTTTTTTTT
1 TTTTTTGGCCTTTTTTTTGTTTTTTTTTTT
42703 GAAAAAATAG
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.00, C:0.05, G:0.07, T:0.88
Consensus pattern (30 bp):
TTTTTTGGCCTTTTTTTTGTTTTTTTTTTT
Found at i:42678 original size:31 final size:31
Alignment explanation
Indices: 42643--42702 Score: 102
Period size: 31 Copynumber: 1.9 Consensus size: 31
42633 AAATTTTAGC
* *
42643 TTTTTTGGCTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTGCCTTTTTTTTGTTTTTTTTTTTTT
42674 TTTTTTGCCTTTTTTTTGTTTTTTTTTTT
1 TTTTTTGCCTTTTTTTTGTTTTTTTTTTT
42703 GAAAAAATAG
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 27 1.00
ACGTcount: A:0.00, C:0.05, G:0.07, T:0.88
Consensus pattern (31 bp):
TTTTTTGCCTTTTTTTTGTTTTTTTTTTTTT
Found at i:42703 original size:23 final size:23
Alignment explanation
Indices: 42660--42703 Score: 79
Period size: 23 Copynumber: 1.9 Consensus size: 23
42650 GCTTTTTTTT
*
42660 TTTTTTTTTTTTTTTTTTTTGCC
1 TTTTTTTTGTTTTTTTTTTTGCC
42683 TTTTTTTTGTTTTTTTTTTTG
1 TTTTTTTTGTTTTTTTTTTTG
42704 AAAAAATAGC
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.00, C:0.05, G:0.07, T:0.89
Consensus pattern (23 bp):
TTTTTTTTGTTTTTTTTTTTGCC
Found at i:44844 original size:15 final size:15
Alignment explanation
Indices: 44824--44860 Score: 74
Period size: 15 Copynumber: 2.5 Consensus size: 15
44814 TTAACGGGTA
44824 AGAAGAAAGAAAGGG
1 AGAAGAAAGAAAGGG
44839 AGAAGAAAGAAAGGG
1 AGAAGAAAGAAAGGG
44854 AGAAGAA
1 AGAAGAA
44861 GAGATCGTGT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 22 1.00
ACGTcount: A:0.62, C:0.00, G:0.38, T:0.00
Consensus pattern (15 bp):
AGAAGAAAGAAAGGG
Found at i:44957 original size:44 final size:43
Alignment explanation
Indices: 44907--45066 Score: 203
Period size: 44 Copynumber: 3.4 Consensus size: 43
44897 TTAATGTTTA
44907 AATTAGTTTGTTAGTTTAAGTTATATTATATAAAAAATCTAGTT
1 AATTAGTTTGTTAGTTTAAGTTATATTATATAAAAAAT-TAGTT
44951 AATTAGTTTGTTAGTTTAAGTTATATTATATATAAAAATTAGTTAATT
1 AATTAGTTTGTTAGTTTAAGTTATATTATATA-AAAAATTAG----TT
44999 AATTTGTTAGTTTGTTAGTTTAAGTTATATTATATATAAAAAAATTAGTT
1 AA----TTAGTTTGTTAGTTTAAGTTATA-T-TATAT-AAAAAATTAGTT
45049 AATTAGTTTGTTAGTTTA
1 AATTAGTTTGTTAGTTTA
45067 TTAGTTTAAG
Statistics
Matches: 104, Mismatches: 0, Indels: 22
0.83 0.00 0.17
Matches are distributed among these distances:
44 35 0.34
45 6 0.06
46 16 0.15
48 4 0.04
50 4 0.04
52 23 0.22
53 1 0.01
54 14 0.13
55 1 0.01
ACGTcount: A:0.38, C:0.01, G:0.12, T:0.50
Consensus pattern (43 bp):
AATTAGTTTGTTAGTTTAAGTTATATTATATAAAAAATTAGTT
Found at i:45059 original size:54 final size:52
Alignment explanation
Indices: 44953--45081 Score: 222
Period size: 54 Copynumber: 2.4 Consensus size: 52
44943 ATCTAGTTAA
44953 TTAGTTTGTTAGTTTAAGTTATATTATATATAAAAATTAGTTAATTAATTTG
1 TTAGTTTGTTAGTTTAAGTTATATTATATATAAAAATTAGTTAATTAATTTG
*
45005 TTAGTTTGTTAGTTTAAGTTATATTATATATAAAAAAATTAGTTAATTAGTTTG
1 TTAGTTTGTTAGTTTAAGTTATATTATATAT--AAAAATTAGTTAATTAATTTG
*
45059 TTAGTTTATTAGTTTAAGTTATA
1 TTAGTTTGTTAGTTTAAGTTATA
45082 ATAGTTTGTT
Statistics
Matches: 73, Mismatches: 2, Indels: 2
0.95 0.03 0.03
Matches are distributed among these distances:
52 31 0.42
54 42 0.58
ACGTcount: A:0.36, C:0.00, G:0.12, T:0.52
Consensus pattern (52 bp):
TTAGTTTGTTAGTTTAAGTTATATTATATATAAAAATTAGTTAATTAATTTG
Found at i:45064 original size:16 final size:16
Alignment explanation
Indices: 45043--45073 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
45033 TATAAAAAAA
45043 TTAGTTAATTAGTTTG
1 TTAGTTAATTAGTTTG
*
45059 TTAGTTTATTAGTTT
1 TTAGTTAATTAGTTT
45074 AAGTTATAAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.23, C:0.00, G:0.16, T:0.61
Consensus pattern (16 bp):
TTAGTTAATTAGTTTG
Found at i:45096 original size:23 final size:23
Alignment explanation
Indices: 45060--45104 Score: 72
Period size: 23 Copynumber: 2.0 Consensus size: 23
45050 ATTAGTTTGT
45060 TAGTTTATTAGTTTAAGTTATAA
1 TAGTTTATTAGTTTAAGTTATAA
* *
45083 TAGTTTGTTTGTTTAAGTTATA
1 TAGTTTATTAGTTTAAGTTATA
45105 TTATATAAAA
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:0.29, C:0.00, G:0.16, T:0.56
Consensus pattern (23 bp):
TAGTTTATTAGTTTAAGTTATAA
Found at i:45131 original size:67 final size:66
Alignment explanation
Indices: 45059--45288 Score: 259
Period size: 67 Copynumber: 3.3 Consensus size: 66
45049 AATTAGTTTG
*
45059 TTAGTTTATTAGTTTAAGTTATAATAGTTTGTTTGTTTAAGTTATATTATATAAAAAAAGTAGTT
1 TTAGTTTATTAGTTTAAGTTATAATAGTTTGTTAGTTTAAGTTATATTATATAAAAAAA-TAGTT
45124 AA
65 AA
* * * *
45126 TTAGTTTGTTAGTTTAAGTTATATTAGTTTGTTAGTTTATGTTATATTATATAAAAAAATTAATT
1 TTAGTTTATTAGTTTAAGTTATAATAGTTTGTTAGTTTAAGTTATATTATATAAAAAAA-TAGTT
45191 AA
65 AA
*
45193 TTAGTTTGTTAGTTTGTTAGTTTAAGTTATATTATAG-TTGTTAG-TTAAGTTATATTATAT-GA
1 TTAG--T-TTA-----TTAGTTTAAGTTATA--ATAGTTTGTTAGTTTAAGTTATATTATATAAA
45255 AAAATAGTTAA
56 AAAATAGTTAA
* *
45266 TTAATTTGTTAGTTTAAGTTATA
1 TTAGTTTATTAGTTTAAGTTATA
45289 TTATATATAA
Statistics
Matches: 140, Mismatches: 13, Indels: 22
0.80 0.07 0.13
Matches are distributed among these distances:
65 15 0.11
67 65 0.46
69 1 0.01
70 4 0.03
71 1 0.01
73 9 0.06
74 5 0.04
75 30 0.21
76 7 0.05
77 3 0.02
ACGTcount: A:0.35, C:0.00, G:0.14, T:0.51
Consensus pattern (66 bp):
TTAGTTTATTAGTTTAAGTTATAATAGTTTGTTAGTTTAAGTTATATTATATAAAAAAATAGTTA
A
Found at i:45139 original size:75 final size:75
Alignment explanation
Indices: 45006--45497 Score: 426
Period size: 75 Copynumber: 6.7 Consensus size: 75
44996 ATTAATTTGT
45006 TAGTTTGTTAGTTTAAGTTATATTATATATAAAAAAATTAGTTAATTAGTTTGTTAGTTTATTAG
1 TAGTTTGTTAGTTTAAGTTATA-T-TATATAAAAAAATTAGTTAATTAGTTTGTTAGTTTATTAG
45071 TTTAAGTTATAA
64 TTTAAGTTATAA
* *
45083 TAGTTTGTTTGTTTAAGTTATATTATATAAAAAAAGTAGTTAATTAGTTTGTTAGTTTA--AG-T
1 TAGTTTGTTAGTTTAAGTTATATTATATAAAAAAATTAGTTAATTAGTTTGTTAGTTTATTAGTT
45145 T-A--TAT--
66 TAAGTTATAA
* * *
45150 TAGTTTGTTAGTTTATGTTATATTATATAAAAAAATTAATTAATTAGTTTGTTAGTTTGTTAGTT
1 TAGTTTGTTAGTTTAAGTTATATTATATAAAAAAATTAGTTAATTAGTTTGTTAGTTTATTAGTT
45215 TAAGTTATATTA
66 TAAGTTATA--A
* * * *
45227 TAG-TTGTTAG-TTAAGTTATATTATATGAAAAATAGTTAATTAATTTGTTAGTTTAAGTTATAT
1 TAGTTTGTTAGTTTAAGTTATATTATAT-AAAAA-AATTAGTTAATTAGTTTG-TT-AGTT-TAT
*** *
45290 TA-TATATAAAAAAATTAGT
61 TAGT-T-T-AAGTTA-TA-A
*
45309 TAATTAGTTTGTTAGTTTAAGTTATATTATATATACAAAATTAGTTAATTA-TTTGTTAGTTTAT
1 T----AGTTTGTTAGTTTAAGTTATATTATATA-AAAAAATTAGTTAATTAGTTTGTTAGTTTAT
* * *
45373 TTGATTAAGTTATAT
61 TAGTTTAAGTTATAA
** *
45388 TAGTTTGTTTCTTTAAG-T-TA-TATAT---AAAATTAGTTAATTCGTTTGTTAGTTTA--AG-T
1 TAGTTTGTTAGTTTAAGTTATATTATATAAAAAAATTAGTTAATTAGTTTGTTAGTTTATTAGTT
45444 T-A--TAT--
66 TAAGTTATAA
* *
45449 TAGTTTGTTAGTTTAAGTTATATTATATTAAAAAA-TAGTTTATTAGTTT
1 TAGTTTGTTAGTTTAAGTTATATTATATAAAAAAATTAGTTAATTAGTTT
45498 AAATTATATT
Statistics
Matches: 346, Mismatches: 35, Indels: 79
0.75 0.08 0.17
Matches are distributed among these distances:
61 15 0.04
62 1 0.00
63 5 0.01
64 5 0.01
65 1 0.00
66 14 0.04
67 59 0.17
68 14 0.04
69 17 0.05
70 2 0.01
71 2 0.01
72 7 0.02
73 7 0.02
74 1 0.00
75 64 0.18
76 13 0.04
77 39 0.11
78 2 0.01
79 7 0.02
80 7 0.02
81 4 0.01
82 5 0.01
83 7 0.02
84 4 0.01
85 2 0.01
86 5 0.01
87 18 0.05
88 19 0.05
ACGTcount: A:0.35, C:0.01, G:0.13, T:0.51
Consensus pattern (75 bp):
TAGTTTGTTAGTTTAAGTTATATTATATAAAAAAATTAGTTAATTAGTTTGTTAGTTTATTAGTT
TAAGTTATAA
Found at i:45141 original size:44 final size:44
Alignment explanation
Indices: 44907--45151 Score: 198
Period size: 44 Copynumber: 5.6 Consensus size: 44
44897 TTAATGTTTA
*
44907 AATTAGTTTGTTAGTTTAAGTTATATTATATAAAAAATCTAGTT
1 AATTAGTTTGTTAGTTTAAGTTATATTATATAAAAAAACTAGTT
* *
44951 AATTAGTTTGTTAGTTTAAGTTATATTATATATAAAAATTAGTTAATT
1 AATTAGTTTGTTAGTTTAAGTTATATTATATA-AAAAA--A-CTAGTT
*
44999 AATTTGTTAGTTTGTTAGTTTAAGTTATATTATATATAAAAAAATTAGTT
1 AA----TTAGTTTGTTAGTTTAAGTTATA-T-TATATAAAAAAACTAGTT
* *
45049 AATTAGTTTGTTAGTTT-A-TTAGT-TTA-AGT--TATAA-TAG-T
1 AATTAGTTTGTTAGTTTAAGTTA-TATTATA-TAAAAAAACTAGTT
*
45087 --TT-GTTTGTTTA-----AGTTATATTATATAAAAAAAGTAGTT
1 AATTAGTTTG-TTAGTTTAAGTTATATTATATAAAAAAACTAGTT
45124 AATTAGTTTGTTAGTTTAAGTTATATTA
1 AATTAGTTTGTTAGTTTAAGTTATATTA
45152 GTTTGTTAGT
Statistics
Matches: 165, Mismatches: 8, Indels: 56
0.72 0.03 0.24
Matches are distributed among these distances:
32 2 0.01
33 7 0.04
34 1 0.01
35 8 0.05
36 8 0.05
37 1 0.01
38 1 0.01
39 8 0.05
40 8 0.05
41 1 0.01
42 3 0.02
43 1 0.01
44 45 0.27
45 7 0.04
46 15 0.09
48 6 0.04
50 7 0.04
51 1 0.01
52 23 0.14
53 6 0.04
54 6 0.04
ACGTcount: A:0.37, C:0.00, G:0.13, T:0.50
Consensus pattern (44 bp):
AATTAGTTTGTTAGTTTAAGTTATATTATATAAAAAAACTAGTT
Found at i:45152 original size:23 final size:23
Alignment explanation
Indices: 45120--45174 Score: 94
Period size: 23 Copynumber: 2.4 Consensus size: 23
45110 TAAAAAAAGT
45120 AGTTA-ATTAGTTTGTTAGTTTA
1 AGTTATATTAGTTTGTTAGTTTA
45142 AGTTATATTAGTTTGTTAGTTTA
1 AGTTATATTAGTTTGTTAGTTTA
*
45165 TGTTATATTA
1 AGTTATATTA
45175 TATAAAAAAA
Statistics
Matches: 31, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
22 5 0.16
23 26 0.84
ACGTcount: A:0.27, C:0.00, G:0.16, T:0.56
Consensus pattern (23 bp):
AGTTATATTAGTTTGTTAGTTTA
Found at i:45183 original size:142 final size:141
Alignment explanation
Indices: 45005--45291 Score: 454
Period size: 142 Copynumber: 2.0 Consensus size: 141
44995 AATTAATTTG
*
45005 TTAGTTTGTTAGTTTAAGTTATATTATATATAAAAAAATTAGTTAATTAGTTTGTTAGTTTATTA
1 TTAGTTTGTTAGTTTAAGTTATATTATATATAAAAAAATTAATTAATTAGTTTGTTAGTTTATTA
* *
45070 GTTTAAGTTATA-ATAGTTTGTTTGTTTAAGTTATATTATATAAAAAAAGTAGTTAATTAGTTTG
66 GTTTAAGTTATATATAG-TTGTTAG-TTAAGTTATATTATAT-AAAAAA-TAGTTAATTAATTTG
45134 TTAGTTTAAGTTATA
127 TTAGTTTAAGTTATA
* *
45149 TTAGTTTGTTAGTTTATGTTATA-T-TATATAAAAAAATTAATTAATTAGTTTGTTAGTTTGTTA
1 TTAGTTTGTTAGTTTAAGTTATATTATATATAAAAAAATTAATTAATTAGTTTGTTAGTTTATTA
*
45212 GTTTAAGTTATATTATAGTTGTTAGTTAAGTTATATTATATGAAAAATAGTTAATTAATTTGTTA
66 GTTTAAGTTATA-TATAGTTGTTAGTTAAGTTATATTATATAAAAAATAGTTAATTAATTTGTTA
45277 GTTTAAGTTATA
130 GTTTAAGTTATA
45289 TTA
1 TTA
45292 TATATAAAAA
Statistics
Matches: 135, Mismatches: 6, Indels: 8
0.91 0.04 0.05
Matches are distributed among these distances:
140 32 0.24
141 5 0.04
142 65 0.48
143 7 0.05
144 26 0.19
ACGTcount: A:0.35, C:0.00, G:0.14, T:0.51
Consensus pattern (141 bp):
TTAGTTTGTTAGTTTAAGTTATATTATATATAAAAAAATTAATTAATTAGTTTGTTAGTTTATTA
GTTTAAGTTATATATAGTTGTTAGTTAAGTTATATTATATAAAAAATAGTTAATTAATTTGTTAG
TTTAAGTTATA
Found at i:45227 original size:52 final size:53
Alignment explanation
Indices: 45142--45389 Score: 181
Period size: 52 Copynumber: 4.6 Consensus size: 53
45132 TGTTAGTTTA
*
45142 AGTTATATTAGTTTGTTAGTTTATGTTATATTATATA-AAAAAATTAATTAATT
1 AGTTA-ATTAGTTTGTTAGTTTAAGTTATATTATATATAAAAAATTAATTAATT
** * * * *
45195 AGTTTGTTAGTTTGTTAGTTTAAGTTATATTATAGTTGTTAGTTAAGTTATATTATATGAAAAAT
1 AGTTAATTAGTTTGTTAGTTTAAGTTATATTATA-----TA--TAA--AAAATTA-AT--TAATT
*
45260 AGTTAATTAATTTGTTAGTTTAAGTTATATTATATAT---AAA--AA--AATT
1 AGTTAATTAGTTTGTTAGTTTAAGTTATATTATATATAAAAAATTAATTAATT
* *
45306 AGTTAATTAGTTTGTTAGTTTAAGTTATATTATATATACAAAATTAGTTAATT
1 AGTTAATTAGTTTGTTAGTTTAAGTTATATTATATATAAAAAATTAATTAATT
** * * *
45359 A-TTTGTTAGTTTATTTGATTAAGTTATATTA
1 AGTTAATTAGTTTGTTAGTTTAAGTTATATTA
45390 GTTTGTTTCT
Statistics
Matches: 156, Mismatches: 19, Indels: 41
0.72 0.09 0.19
Matches are distributed among these distances:
46 39 0.25
49 3 0.02
50 1 0.01
51 2 0.01
52 52 0.33
53 11 0.07
57 2 0.01
58 1 0.01
60 4 0.03
62 5 0.03
63 2 0.01
65 34 0.22
ACGTcount: A:0.37, C:0.00, G:0.12, T:0.51
Consensus pattern (53 bp):
AGTTAATTAGTTTGTTAGTTTAAGTTATATTATATATAAAAAATTAATTAATT
Found at i:45228 original size:119 final size:111
Alignment explanation
Indices: 45083--45450 Score: 286
Period size: 113 Copynumber: 3.2 Consensus size: 111
45073 TAAGTTATAA
*
45083 TAGTTTGTTTGTTTAAGTTATATTATATAAAAAAAGTAGTTAATTAGTTTGTTAGTTTAAGTTAT
1 TAGTTTGTTAGTTTAAGTTATATTATATAAAAAAAGTAGTTAATTA-TTTGTTAGTTTAAGTTA-
* * *
45148 ATTAGTTTGTTAGTTTATGTTATATTATAT--AAAAAAATTAATTAAT
64 ATTAATTTGTTAGTTTAAGTTATATTATATAAAAAAAAATTAGTTAAT
* * * *** * **
45194 TAGTTTGTTAGTTTGTTAGTT-TAAGTTATATTATAGTTGTTAGTTAAGTTATATT-ATATGAAA
1 TAGTTTGTTAG-TT-TAAGTTAT-A-TTATATAAAAAAAG-TAGTTAA-TTAT-TTGTTA-G-TT
* *
45257 AATAGTTAATTAATTTGTTAGTTTAAGTTATATTATATATAAAAAAATTAGTTAAT
57 TA-AGTTAATTAATTTGTTAGTTTAAGTTATATTATATAAAAAAAAATTAGTTAAT
* * * *
45313 TAGTTTGTTAGTTTAAGTTATATTATATATACAAAATTAGTTAATTATTTGTTAGTTT-ATTTGA
1 TAGTTTGTTAGTTTAAGTTATATTATATA-AAAAAAGTAGTTAATTATTTGTTAGTTTAAGTTAA
* * * *
45377 TTAAGTTATATTAGTTT--GTT-TCTT-TAAGTTATATATAAAATTAGTTAAT
65 TTAA-TT-TGTTAGTTTAAGTTATATTAT-A--TA-AAAAAAAATTAGTTAAT
*
45426 TCGTTTGTTAGTTTAAGTTATATTA
1 TAGTTTGTTAGTTTAAGTTATATTA
45451 GTTTGTTAGT
Statistics
Matches: 203, Mismatches: 33, Indels: 40
0.74 0.12 0.14
Matches are distributed among these distances:
109 1 0.00
110 4 0.02
111 21 0.10
112 7 0.03
113 52 0.26
114 12 0.06
115 16 0.08
116 19 0.09
117 37 0.18
118 8 0.04
119 26 0.13
ACGTcount: A:0.35, C:0.01, G:0.13, T:0.51
Consensus pattern (111 bp):
TAGTTTGTTAGTTTAAGTTATATTATATAAAAAAAGTAGTTAATTATTTGTTAGTTTAAGTTAAT
TAATTTGTTAGTTTAAGTTATATTATATAAAAAAAAATTAGTTAAT
Found at i:45244 original size:23 final size:24
Alignment explanation
Indices: 45206--45251 Score: 85
Period size: 23 Copynumber: 2.0 Consensus size: 24
45196 GTTTGTTAGT
45206 TTGTTAGTTTAAGTTATATTATAG
1 TTGTTAGTTTAAGTTATATTATAG
45230 TTGTTAG-TTAAGTTATATTATA
1 TTGTTAGTTTAAGTTATATTATA
45252 TGAAAAATAG
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
23 15 0.68
24 7 0.32
ACGTcount: A:0.30, C:0.00, G:0.15, T:0.54
Consensus pattern (24 bp):
TTGTTAGTTTAAGTTATATTATAG
Found at i:45324 original size:163 final size:160
Alignment explanation
Indices: 45142--45450 Score: 428
Period size: 163 Copynumber: 1.9 Consensus size: 160
45132 TGTTAGTTTA
*
45142 AGTTATATTAGTTTGTTAGTTTATGTTATATTATATA-AAAAAATTAATTAATTAGTTTGTTAGT
1 AGTTATATTAGTTTGTTAGTTTAAGTTATATTATATATAAAAAATTAATTAATTA-TTTGTTAGT
* *
45206 TTGTTAGTTTAAGTTATATTA-TAGTTG-TTAGTTAAGTTATATTATATGAAAAATAGTTAATTA
65 TTATTAGATTAAGTTATATTAGT--TTGTTTAGTTAAG-T-TA-TATAT-AAAAATAGTTAATTA
45269 ATTTGTTAGTTTAAGTTATATTATATATAAAAAAATT
124 ATTTGTTAGTTTAAGTTATATTATATATAAAAAAATT
* *
45306 AGTTA-ATTAGTTTGTTAGTTTAAGTTATATTATATATACAAAATTAGTTAATTATTTGTTAGTT
1 AGTTATATTAGTTTGTTAGTTTAAGTTATATTATATATAAAAAATTAATTAATTATTTGTTAGTT
* ** * **
45370 TATTTGATTAAGTTATATTAGTTTGTTTCTTTAAGTTATATATAAAATTAGTTAATTCGTTTGTT
66 TATTAGATTAAGTTATATTAGTTTGTTTAGTTAAGTTATATATAAAAATAGTTAATTAATTTGTT
45435 AGTTTAAGTTATATTA
131 AGTTTAAGTTATATTA
45451 GTTTGTTAGT
Statistics
Matches: 131, Mismatches: 11, Indels: 11
0.86 0.07 0.07
Matches are distributed among these distances:
159 35 0.27
160 5 0.04
161 2 0.02
162 4 0.03
163 64 0.49
164 21 0.16
ACGTcount: A:0.35, C:0.01, G:0.12, T:0.51
Consensus pattern (160 bp):
AGTTATATTAGTTTGTTAGTTTAAGTTATATTATATATAAAAAATTAATTAATTATTTGTTAGTT
TATTAGATTAAGTTATATTAGTTTGTTTAGTTAAGTTATATATAAAAATAGTTAATTAATTTGTT
AGTTTAAGTTATATTATATATAAAAAAATT
Found at i:45326 original size:46 final size:44
Alignment explanation
Indices: 45230--45371 Score: 211
Period size: 46 Copynumber: 3.2 Consensus size: 44
45220 TATATTATAG
*
45230 TTGTTAG-TTAAGTTATA-T-TATATGAAAAA-TAGTTAATTAAT
1 TTGTTAGTTTAAGTTATATTATATATAAAAAATTAGTTAATT-AT
45271 TTGTTAGTTTAAGTTATATTATATATAAAAAAATTAGTTAATTAGT
1 TTGTTAGTTTAAGTTATATTATATAT-AAAAAATTAGTTAATTA-T
*
45317 TTGTTAGTTTAAGTTATATTATATATACAAAATTAGTTAATTAT
1 TTGTTAGTTTAAGTTATATTATATATAAAAAATTAGTTAATTAT
45361 TTGTTAGTTTA
1 TTGTTAGTTTA
45372 TTTGATTAAG
Statistics
Matches: 93, Mismatches: 2, Indels: 9
0.89 0.02 0.09
Matches are distributed among these distances:
41 7 0.08
42 10 0.11
43 1 0.01
44 17 0.18
45 22 0.24
46 36 0.39
ACGTcount: A:0.39, C:0.01, G:0.11, T:0.49
Consensus pattern (44 bp):
TTGTTAGTTTAAGTTATATTATATATAAAAAATTAGTTAATTAT
Found at i:45355 original size:111 final size:116
Alignment explanation
Indices: 45083--45360 Score: 277
Period size: 111 Copynumber: 2.4 Consensus size: 116
45073 TAAGTTATAA
* * * * ***
45083 TAGTTTGTTTGTTTAAGTTATATTATATA-AAAAAAGTAGTTAATTAGTTTGTTAGTTTAAGTTA
1 TAGTTTGTTAGTTTAAGTTATATTATATATAAAAAATTAGTTAATTA-TATGTAAAAATAAGTTA
* * **
45147 TATTAGTTTGTTAGTTTATGTTATATTATATAAAAAAATTAATTAATTAGTTTGT
65 TATTAATTTGTTAGTTTAAGTTATATTATAT-AAAAAA-TAA-TAATTAGTTAAT
*** *
45202 TAGTTTGTTAGTTTAAGTTATATTATAGT-T-GTTAGTTAAGTTATATTATATG-AAAAAT-AGT
1 TAGTTTGTTAGTTTAAGTTATATTATA-TATAAAAAATT-AGTTA-ATTATATGTAAAAATAAGT
*
45263 TA-ATTAATTTGTTAGTTTAAGTTATATTATAT-ATAAA-AA-AATTAGTTAAT
63 TATATTAATTTGTTAGTTTAAGTTATATTATATAAAAAATAATAATTAGTTAAT
*
45313 TAGTTTGTTAGTTTAAGTTATATTATATATACAAAATTAGTTAATTAT
1 TAGTTTGTTAGTTTAAGTTATATTATATATAAAAAATTAGTTAATTAT
45361 TTGTTAGTTT
Statistics
Matches: 133, Mismatches: 20, Indels: 21
0.76 0.11 0.12
Matches are distributed among these distances:
110 6 0.05
111 42 0.32
112 3 0.02
113 2 0.02
115 4 0.03
117 28 0.21
118 5 0.04
119 30 0.23
120 9 0.07
121 4 0.03
ACGTcount: A:0.37, C:0.00, G:0.13, T:0.50
Consensus pattern (116 bp):
TAGTTTGTTAGTTTAAGTTATATTATATATAAAAAATTAGTTAATTATATGTAAAAATAAGTTAT
ATTAATTTGTTAGTTTAAGTTATATTATATAAAAAATAATAATTAGTTAAT
Found at i:45390 original size:23 final size:23
Alignment explanation
Indices: 45364--45410 Score: 67
Period size: 23 Copynumber: 2.0 Consensus size: 23
45354 TAATTATTTG
*
45364 TTAGTTTATTTGATTAAGTTATA
1 TTAGTTTATTTCATTAAGTTATA
* *
45387 TTAGTTTGTTTCTTTAAGTTATA
1 TTAGTTTATTTCATTAAGTTATA
45410 T
1 T
45411 ATAAAATTAG
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.26, C:0.02, G:0.13, T:0.60
Consensus pattern (23 bp):
TTAGTTTATTTCATTAAGTTATA
Found at i:45455 original size:23 final size:23
Alignment explanation
Indices: 45419--45473 Score: 94
Period size: 23 Copynumber: 2.4 Consensus size: 23
45409 ATATAAAATT
*
45419 AGTTA-ATTCGTTTGTTAGTTTA
1 AGTTATATTAGTTTGTTAGTTTA
45441 AGTTATATTAGTTTGTTAGTTTA
1 AGTTATATTAGTTTGTTAGTTTA
45464 AGTTATATTA
1 AGTTATATTA
45474 TATTAAAAAA
Statistics
Matches: 31, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
22 5 0.16
23 26 0.84
ACGTcount: A:0.27, C:0.02, G:0.16, T:0.55
Consensus pattern (23 bp):
AGTTATATTAGTTTGTTAGTTTA
Found at i:45489 original size:35 final size:35
Alignment explanation
Indices: 45449--45558 Score: 105
Period size: 29 Copynumber: 3.4 Consensus size: 35
45439 TAAGTTATAT
45449 TAGTTTGTTAGTTTAAGTTATATTATATTAAAAAA
1 TAGTTTGTTAGTTTAAGTTATATTATATTAAAAAA
*
45484 TAGTTTATTAGTTT-A---A-ATTATATT-AAAAA
1 TAGTTTGTTAGTTTAAGTTATATTATATTAAAAAA
* * *
45513 CAG-TTGATTAATTTAAGTTATATT-TA--AAAAAT
1 TAGTTTG-TTAGTTTAAGTTATATTATATTAAAAAA
45545 TAGTTTGTTAGTTT
1 TAGTTTGTTAGTTT
45559 GATAAATTTT
Statistics
Matches: 60, Mismatches: 7, Indels: 19
0.70 0.08 0.22
Matches are distributed among these distances:
28 2 0.03
29 13 0.22
30 9 0.15
31 1 0.02
32 12 0.20
33 6 0.10
34 4 0.07
35 13 0.22
ACGTcount: A:0.39, C:0.01, G:0.11, T:0.49
Consensus pattern (35 bp):
TAGTTTGTTAGTTTAAGTTATATTATATTAAAAAA
Found at i:45512 original size:29 final size:30
Alignment explanation
Indices: 45470--45558 Score: 108
Period size: 29 Copynumber: 2.9 Consensus size: 30
45460 TTTAAGTTAT
45470 ATTATATTAAAAAATAGTTTATTAGTTTAA
1 ATTATATTAAAAAATAGTTTATTAGTTTAA
* * *
45500 ATTATATT-AAAAACAGTTGATTAATTTAA
1 ATTATATTAAAAAATAGTTTATTAGTTTAA
* *
45529 GTTATATTTAAAAAATTAGTTTGTTAGTTT
1 ATTATA-TTAAAAAA-TAGTTTATTAGTTT
45559 GATAAATTTT
Statistics
Matches: 48, Mismatches: 8, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
29 23 0.48
30 10 0.21
31 5 0.10
32 10 0.21
ACGTcount: A:0.43, C:0.01, G:0.09, T:0.47
Consensus pattern (30 bp):
ATTATATTAAAAAATAGTTTATTAGTTTAA
Found at i:53350 original size:20 final size:21
Alignment explanation
Indices: 53327--53406 Score: 83
Period size: 20 Copynumber: 3.8 Consensus size: 21
53317 TTAGTGCAGA
53327 GGGAATCGATACCCCCATGA-
1 GGGAATCGATACCCCCATGAG
* *
53347 GGGAATCGATTCCCCCTTTGAAG
1 GGGAATCGATACCCCC-ATG-AG
* *
53370 GGGAACCGATTCCCCCCAT-AG
1 GGGAATCGA-TACCCCCATGAG
53391 GGGAATCGATACCCCC
1 GGGAATCGATACCCCC
53407 TGGGGTTCTG
Statistics
Matches: 49, Mismatches: 7, Indels: 8
0.77 0.11 0.12
Matches are distributed among these distances:
20 21 0.43
21 12 0.24
22 1 0.02
23 9 0.18
24 6 0.12
ACGTcount: A:0.25, C:0.33, G:0.25, T:0.17
Consensus pattern (21 bp):
GGGAATCGATACCCCCATGAG
Found at i:55564 original size:17 final size:17
Alignment explanation
Indices: 55539--55574 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
55529 GAAAGTGTTA
*
55539 AAGTTTTAAAGAGGAGT
1 AAGTGTTAAAGAGGAGT
*
55556 AAGTGTTAAAGGGGAGT
1 AAGTGTTAAAGAGGAGT
55573 AA
1 AA
55575 TTTTCAAAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.42, C:0.00, G:0.33, T:0.25
Consensus pattern (17 bp):
AAGTGTTAAAGAGGAGT
Found at i:59643 original size:249 final size:244
Alignment explanation
Indices: 59134--59839 Score: 683
Period size: 249 Copynumber: 2.8 Consensus size: 244
59124 AAGCATATAC
* * * * *
59134 CAACAAAGACCTTTGAG-TCGGTTACACTCATCTTAGAGGCATACCAAATTTACAGCATAGCTCA
1 CAACAAAGACC-TTGAGTTCGATTACACTCAGCTCAGAGGCAAATC-AATTTACAGCATAGCTCA
* * * *
59198 AGGTGAGAAGGGTTATCTGTC-ACGAGGACCTTCGAGTTC-ATTACACCAGCTCAGAGGCAAATC
64 AGGTGAGAAGGG-TATCTGTCAACAAAGACCTTCGAGTTCGATTACATCAGCTCAAAGGCAAATC
* * * * *
59261 AAATTTACAGCATAGCTGAAGGAGAGAAGGGCTATCTGTCAACAAAGACCTTTGAGTTCGATTAC
128 AAA-TTACAACA-A-CTCAAGGGGA-AAAGGCTATCTGTCAACAAAGACCTTCGAGTTCGATTAC
* * * *
59326 ATTCAGCTTAAAGACATATCCAGTACAACATAACTCAAGGTGAGAAGGGTTATCTGT
189 ACTCAGCTTAAAGACATATCAAGTACAACATAACTCAA-GCGAGAAGGGTTATATGT
* * *
59383 CAACCAAGACCTTGAGTTCGATTACACTCAGCTCAGAGACAAATCAAGTTTATAGCATAGCTCAA
1 CAACAAAGACCTTGAGTTCGATTACACTCAGCTCAGAGGCAAATCAA-TTTACAGCATAGCTCAA
* * * *
59448 GGTGAAAAGGGCTATCTGTCAACAAAAGTCCTTCGAGTTCGATTACATTCAACTCAAAGGCATAT
65 GGTGAGAAGGG-TATCTGTCAAC-AAAGACCTTCGAGTTCGATTACA-TCAGCTCAAAGGCAAAT
* *
59513 CTAA-TACAACAACTCAAGGGGAAAAGGTTATCTGTCAACCAAA-ACCTTCGAGTTCGATTACAC
127 CAAATTACAACAACTCAAGGGGAAAAGGCTATCTGTCAA-CAAAGACCTTCGAGTTCGATTACAC
* * * *
59576 TCAGTTTAAAGGCATATCAAATTTACAACATAGCTC-A-CGAGAAGGGGTTATATGT
191 TCAGCTTAAAGACATATC-AA-GTACAACATAACTCAAGCGAGAA-GGGTTATATGT
* * * * * *
59631 CATCAAAAGACCTTCGAGTTTGATTACAATCAGCTCA-AGGCACATCCAATTTACAGCATAACTT
1 CAAC-AAAGACCTT-GAGTTCGATTACACTCAGCTCAGAGGCAAAT-CAATTTACAGCATAGCTC
* * * *
59695 AAGGCGAGAAGGGTGATATGTCAACCAAGACCTTCGAGTTCGATTACACTCAGCTCAAAGGCACA
63 AAGGTGAGAAGGGT-ATCTGTCAACAAAGACCTTCGAGTTCGATTACA-TCAGCTCAAAGGCAAA
* * * * *
59760 TCCAATTTACAGTATAACTCAA-GGAAATAAGGGCTATCTATCAACAAAGACCTTCGAGTTTGAT
126 T-CAAATTACA--ACAACTCAAGGGGAA-AA-GGCTATCTGTCAACAAAGACCTTCGAGTTCGAT
* *
59824 TATACTCAGCTCAAAG
186 TACACTCAGCTTAAAG
59840 CCCCAATTTA
Statistics
Matches: 377, Mismatches: 59, Indels: 38
0.80 0.12 0.08
Matches are distributed among these distances:
247 5 0.01
248 105 0.28
249 128 0.34
250 42 0.11
251 23 0.06
252 20 0.05
253 54 0.14
ACGTcount: A:0.35, C:0.21, G:0.19, T:0.25
Consensus pattern (244 bp):
CAACAAAGACCTTGAGTTCGATTACACTCAGCTCAGAGGCAAATCAATTTACAGCATAGCTCAAG
GTGAGAAGGGTATCTGTCAACAAAGACCTTCGAGTTCGATTACATCAGCTCAAAGGCAAATCAAA
TTACAACAACTCAAGGGGAAAAGGCTATCTGTCAACAAAGACCTTCGAGTTCGATTACACTCAGC
TTAAAGACATATCAAGTACAACATAACTCAAGCGAGAAGGGTTATATGT
Found at i:59740 original size:168 final size:169
Alignment explanation
Indices: 59134--59919 Score: 789
Period size: 167 Copynumber: 4.7 Consensus size: 169
59124 AAGCATATAC
* * * * * * *
59134 CAACAAAGACCTTTGAG-TCGGTTACACTCATCTTAGAGGCATA-CCAAATTTACAGCATAGCTC
1 CAACAAAGACCTTCGAGTTCGATTACATTCAGCTCA-AGGCACATCC-AATTTACAGCATAACTC
* * *
59197 AAGGTGAGAAGGGTTATCTGTC-ACGAGGACCTTCGAGTTC-ATTACAC-CAGCTCAGAGGCAAA
64 AAGGTGAGAAGGGTTATCTGTCAACCAAGACCTTCGAGTTCGATTACACTCAGCTCAAAGGCAAA
*
59259 TCAAATTTACAGCATAGCTGAAGGAGAGAAGGGCTATCTGT
129 TCAAATTTACAGCATAGCTCAAGGAGAGAAGGGCTATCTGT
* * * * * *
59300 CAACAAAGACCTTTGAGTTCGATTACATTCAGCTTAAAGACATATCC-A-GTACAACATAACTCA
1 CAACAAAGACCTTCGAGTTCGATTACATTCAGC-TCAAGGCACATCCAATTTACAGCATAACTCA
* *
59363 AGGTGAGAAGGGTTATCTGTCAACCAAGACCTT-GAGTTCGATTACACTCAGCTCAGAGACAAAT
65 AGGTGAGAAGGGTTATCTGTCAACCAAGACCTTCGAGTTCGATTACACTCAGCTCAAAGGCAAAT
* * * *
59427 CAAGTTTATAGCATAGCTCAAGGTGAAAAGGGCTATCTGT
130 CAAATTTACAGCATAGCTCAAGGAGAGAAGGGCTATCTGT
* * * * *
59467 CAACAAAAGTCCTTCGAGTTCGATTACATTCAACTCAAAGGCATATCTAA--TACA--ACAACTC
1 CAAC-AAAGACCTTCGAGTTCGATTACATTCAGCTC-AAGGCACATCCAATTTACAGCATAACTC
* * * * * *
59528 AAGGGGA-AAAGGTTATCTGTCAACCAAAACCTTCGAGTTCGATTACACTCAGTTTAAAGGCATA
64 AAGGTGAGAAGGGTTATCTGTCAACCAAGACCTTCGAGTTCGATTACACTCAGCTCAAAGGCAAA
* * * * *
59592 TCAAATTTACAACATAGCTC-ACGAGA-AGGGGTTATATGT
129 TCAAATTTACAGCATAGCTCAAGGAGAGAAGGGCTATCTGT
* * * *
59631 CATCAAAAGACCTTCGAGTTTGATTACAATCAGCTCAAGGCACATCCAATTTACAGCATAACTTA
1 CAAC-AAAGACCTTCGAGTTCGATTACATTCAGCTCAAGGCACATCCAATTTACAGCATAACTCA
* * * *
59696 AGGCGAGAAGGGTGATATGTCAACCAAGACCTTCGAGTTCGATTACACTCAGCTCAAAGGCACAT
65 AGGTGAGAAGGGTTATCTGTCAACCAAGACCTTCGAGTTCGATTACACTCAGCTCAAAGGCAAAT
* * * * * *
59761 CCAATTTACAGTATAACTCAAGGAAATAAGGGCTATCTAT
130 CAAATTTACAGCATAGCTCAAGGAGAGAAGGGCTATCTGT
* * * * *
59801 CAACAAAGACCTTCGAGTTTGATTATACTCAGCTCAAAGC-C--CCAATTTACAGCATAGCTCAA
1 CAACAAAGACCTTCGAGTTCGATTACATTCAGCTCAAGGCACATCCAATTTACAGCATAACTCAA
* ** * * * * *
59863 GGTAAGAAGGGCCCATATGTCAACAAAGACCTTCGAGTTCCATTACATTCAGTTCAA
66 GGTGAGAAGGG-TTATCTGTCAACCAAGACCTTCGAGTTCGATTACACTCAGCTCAA
59920 GGGGCAAGTA
Statistics
Matches: 522, Mismatches: 80, Indels: 35
0.82 0.13 0.05
Matches are distributed among these distances:
163 11 0.02
164 41 0.08
165 71 0.14
166 116 0.22
167 123 0.24
168 110 0.21
169 38 0.07
170 12 0.02
ACGTcount: A:0.35, C:0.22, G:0.19, T:0.25
Consensus pattern (169 bp):
CAACAAAGACCTTCGAGTTCGATTACATTCAGCTCAAGGCACATCCAATTTACAGCATAACTCAA
GGTGAGAAGGGTTATCTGTCAACCAAGACCTTCGAGTTCGATTACACTCAGCTCAAAGGCAAATC
AAATTTACAGCATAGCTCAAGGAGAGAAGGGCTATCTGT
Found at i:59864 original size:333 final size:330
Alignment explanation
Indices: 59180--59919 Score: 793
Period size: 333 Copynumber: 2.2 Consensus size: 330
59170 AGGCATACCA
* * * **
59180 AATTTACAGCATAGCTCAAGGTGAGAAGGGTTATCTGTC-ACGAGGACCTTCGAGTTCATTACAC
1 AATTTACAGCATAGCTCAAGGGGA-AAAGGTTATCTGTCAACCAAAACCTTCGAGTTCATTACAC
* * * * *
59244 -CAGCTCAGAGGCAAATCAAATTTACAGCATAGCTGAAGGAGAGAAGGGCTATCTGTCAACAAAG
65 TCAGTTCAAAGGCAAATCAAATTTACAACATAGCTGAACGAGAGAAGGGCTATATGTCAACAAAG
* * * *
59308 ACCTTTGAGTTCGATTACATTCAGCTTAAAGACATATCCAGTACAACATAACTCAAGGTGAGAAG
130 ACCTTCGAGTTCGATTACAATCAGCTTAAAGACACATCCAGTACAACATAACTCAAGGCGAGAAG
* * * *
59373 GGTTATCTGTCAACCAAGACCTTGAGTTCGATTACACTCAGCTCAGAGACAAATCAAGTTTATAG
195 GGTGATATGTCAACCAAGACCTTGAGTTCGATTACACTCAGCTCAAAGACAAATCAAGTTTACAG
* * * * *
59438 CATAGCTCAAGGTGAAAAGGGCTATCTGTCAACAAAAGTCCTTCGAGTTCGATTACATTCAACTC
260 CATAACTCAAGGTAAAAAGGGCTATCTATCAACAAAAGACCTTCGAGTTCGATTACACTCAACTC
*
59503 AAAGGC
325 AAAGCC
*
59509 ATATCTAATACAACA-A-CTCAAGGGGAAAAGGTTATCTGTCAACCAAAACCTTCGAGTTCGATT
1 A-AT-T--TACAGCATAGCTCAAGGGGAAAAGGTTATCTGTCAACCAAAACCTTCGAGTTC-ATT
* * * * * *
59572 ACACTCAGTTTAAAGGCATATCAAATTTACAACATAGCT-CACGAGA-AGGGGTTATATGTCATC
61 ACACTCAGTTCAAAGGCAAATCAAATTTACAACATAGCTGAACGAGAGAAGGGCTATATGTCAAC
* * * * * *
59635 AAAAGACCTTCGAGTTTGATTACAATCAGC-TCAAGGCACATCCAATTTACAGCATAACTTAAGG
126 -AAAGACCTTCGAGTTCGATTACAATCAGCTTAAAGACACATCC-A-GTACAACATAACTCAAGG
* *
59699 CGAGAAGGGTGATATGTCAACCAAGACCTTCGAGTTCGATTACACTCAGCTCAAAGGCACATCCA
188 CGAGAAGGGTGATATGTCAACCAAGACCTT-GAGTTCGATTACACTCAGCTCAAAGACAAAT-CA
* *
59764 A-TTTACAGTATAACTCAAGG-AAATAAGGGCTATCTATCAAC-AAAGACCTTCGAGTTTGATTA
251 AGTTTACAGCATAACTCAAGGTAAA-AAGGGCTATCTATCAACAAAAGACCTTCGAGTTCGATTA
* *
59826 TACTCAGCTCAAAGCCCC
315 CACTCAACTCAAAG--CC
* ** *
59844 AATTTACAGCATAGCTCAA-GGTAAGAAGGGCCCATATGTCAA-CAAAGACCTTCGAGTTCCATT
1 AATTTACAGCATAGCTCAAGGGGAA-AA-GG-TTATCTGTCAACCAAA-ACCTTCGAGTT-CATT
*
59907 ACATTCAGTTCAA
61 ACACTCAGTTCAA
59920 GGGGCAAGTA
Statistics
Matches: 339, Mismatches: 50, Indels: 38
0.79 0.12 0.09
Matches are distributed among these distances:
329 1 0.00
330 15 0.04
331 54 0.16
332 45 0.13
333 117 0.35
334 68 0.20
335 38 0.11
336 1 0.00
ACGTcount: A:0.35, C:0.21, G:0.19, T:0.25
Consensus pattern (330 bp):
AATTTACAGCATAGCTCAAGGGGAAAAGGTTATCTGTCAACCAAAACCTTCGAGTTCATTACACT
CAGTTCAAAGGCAAATCAAATTTACAACATAGCTGAACGAGAGAAGGGCTATATGTCAACAAAGA
CCTTCGAGTTCGATTACAATCAGCTTAAAGACACATCCAGTACAACATAACTCAAGGCGAGAAGG
GTGATATGTCAACCAAGACCTTGAGTTCGATTACACTCAGCTCAAAGACAAATCAAGTTTACAGC
ATAACTCAAGGTAAAAAGGGCTATCTATCAACAAAAGACCTTCGAGTTCGATTACACTCAACTCA
AAGCC
Done.