Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01002348.1 Hibiscus syriacus cultivar Beakdansim tig00004790_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: 82412
ACGTcount: A:0.32, C:0.18, G:0.17, T:0.33
Found at i:3289 original size:2 final size:2
Alignment explanation
Indices: 3271--3357 Score: 117
Period size: 2 Copynumber: 43.5 Consensus size: 2
3261 TTCTCGACTT
3271 TA TA TGA TA TA TA -A TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA T-A TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
*
3313 TA TA TA TA TA TA TA TA TA TA TA -A GTA TGA -A AA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA -TA T-A TA TA TA TA TA TA TA
3355 TA T
1 TA T
3358 GAAACAAGGG
Statistics
Matches: 78, Mismatches: 1, Indels: 12
0.86 0.01 0.13
Matches are distributed among these distances:
1 3 0.04
2 71 0.91
3 4 0.05
ACGTcount: A:0.51, C:0.00, G:0.03, T:0.46
Consensus pattern (2 bp):
TA
Found at i:4520 original size:37 final size:37
Alignment explanation
Indices: 4479--4582 Score: 145
Period size: 37 Copynumber: 2.8 Consensus size: 37
4469 GTGCTTGTGG
* * * *
4479 ATCATATATTTAGGAGTTTAAATCATAGTATAACTCT
1 ATCATATTTTTAGGAGTTTGAATCCTAGTAAAACTCT
* *
4516 ATCATATTTTTAGGAGTTTGAATCCTAGCAAAATTCT
1 ATCATATTTTTAGGAGTTTGAATCCTAGTAAAACTCT
*
4553 ATCATATTTTTATGAGTTTGAATCCTAGTA
1 ATCATATTTTTAGGAGTTTGAATCCTAGTA
4583 GGACTAAAAG
Statistics
Matches: 59, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
37 59 1.00
ACGTcount: A:0.34, C:0.12, G:0.12, T:0.42
Consensus pattern (37 bp):
ATCATATTTTTAGGAGTTTGAATCCTAGTAAAACTCT
Found at i:5615 original size:106 final size:106
Alignment explanation
Indices: 5314--6793 Score: 2126
Period size: 106 Copynumber: 14.0 Consensus size: 106
5304 GCATTGTTCC
* * * * *
5314 GAGTCCAATATCCTCCG-TCGTGAAGTTGAAATTGGCTTTGGAATCGGGAAATTGTTTGTTGACA
1 GAGTCCAATATCCTTCGCT-GTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACA
* * *
5378 ACCAGTC-GTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCTT
65 ACCAG-CGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* *
5420 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGACTCTG-AA-T--GAA-AT-TTTGTTGACAA
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACAA
* * **
5479 TCAGCCG-CCCTTTCGTCGTGAAGTTGAGTTTGCGTTGTCTTG
66 CCAGCGGTCCC-TTCGTCGTGAAGTTGAACTTGCGTTGTC-TG
* * * * * *
5521 G-GTCGAAGATCCTTCGCTGAGAAGTTAAAATTAGCTCTGAAATTGGGAAGTTGTTTATTGACAA
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACAA
* * **
5585 TCAGCCG-CCCTTTCGTCGTGAAGTTGAGTTTGCGTTGTCTTG
66 CCAGCGGTCCC-TTCGTCGTGAAGTTGAACTTGCGTTGTC-TG
* * * * *
5627 G-GTCCAAGATCCTTCGCTGAGAAGTTGAAATTAGCTCTGAAATTGGGAAGTTGGTTATTGACAA
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACAA
* * *
5691 CCAGCGGTACCTTCGTTGTGAAGTTGAACTTGCGTTGTCTT
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* * *
5732 GAGTCCAATATCCTACGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTATTGACAA
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACAA
5797 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* * *
5838 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTAAAATTGAGAAGTTGTTTGTTGACAA
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACAA
*
5903 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTT
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* *
5944 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTAGCTCTGAAATTGGGAAATTGTTTGTTGACAA
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACAA
* *
6009 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGTGTTTTCTG
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* **
6050 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTTAGAAGTTGTTTGTTGACAA
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACAA
*
6115 CCAGCAGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* *
6156 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAG-AGTTGTTTGTTGACAA
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACAA
*
6220 CCAGCGGTCCCTTCGTTGTGAAGTTGAACTTGCGTTGTCTG
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
*
6261 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTATTGACAA
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACAA
* *
6326 CCAAG-GGTCCCTTCGTTGTGAAGTTGAACTTGCGTTGTTTG
66 CC-AGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* *
6367 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAA
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACAA
6432 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* * *
6473 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTAAAATTGGAAAGTTGTTTATTGACAA
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACAA
* * *
6538 CCAACGGTCCCTTCGTCGTGAAGTTGAACTTGTGTTATCTG
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* * *
6579 GAGTCCAATATCTTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTATTGACAA
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACAA
6644 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* * * * *
6685 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCCGAAATTGGAAAATT-ATTGTTGTCAA
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACAA
* * * * *
6749 CCAGCCGTCCCTTCGTTGTAAAGTTGAACTTGTGTTGTCTT
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
6790 GAGT
1 GAGT
6794 GGCACGATAT
Statistics
Matches: 1260, Mismatches: 99, Indels: 31
0.91 0.07 0.02
Matches are distributed among these distances:
99 4 0.00
100 71 0.06
101 5 0.00
102 4 0.00
104 3 0.00
105 156 0.12
106 1012 0.80
107 5 0.00
ACGTcount: A:0.23, C:0.18, G:0.25, T:0.34
Consensus pattern (106 bp):
GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACAA
CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
Found at i:7647 original size:22 final size:22
Alignment explanation
Indices: 7621--7675 Score: 101
Period size: 22 Copynumber: 2.5 Consensus size: 22
7611 TTGTGTTCGG
7621 TCAAAGGTTTGGCATTTGATGC
1 TCAAAGGTTTGGCATTTGATGC
*
7643 TCAAAGGTTTAGCATTTGATGC
1 TCAAAGGTTTGGCATTTGATGC
7665 TCAAAGGTTTG
1 TCAAAGGTTTG
7676 ATGTGGTAGC
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
22 31 1.00
ACGTcount: A:0.25, C:0.13, G:0.25, T:0.36
Consensus pattern (22 bp):
TCAAAGGTTTGGCATTTGATGC
Found at i:8309 original size:13 final size:13
Alignment explanation
Indices: 8293--8339 Score: 60
Period size: 13 Copynumber: 3.7 Consensus size: 13
8283 TTCTTTTTGA
*
8293 TTTTTGTTTTT-T
1 TTTTTTTTTTTCT
*
8305 TTTTTTTTCTTCT
1 TTTTTTTTTTTCT
*
8318 TTTTTTCTTTTCT
1 TTTTTTTTTTTCT
8331 TTTTTTTTT
1 TTTTTTTTT
8340 GCCCTTTTTG
Statistics
Matches: 29, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
12 9 0.31
13 20 0.69
ACGTcount: A:0.00, C:0.09, G:0.02, T:0.89
Consensus pattern (13 bp):
TTTTTTTTTTTCT
Found at i:8346 original size:27 final size:26
Alignment explanation
Indices: 8293--8353 Score: 70
Period size: 27 Copynumber: 2.3 Consensus size: 26
8283 TTCTTTTTGA
* *
8293 TTTTTGTTTTTTTTTTTTTTCTTCTT
1 TTTTTCTTTTTTTTTTTTTTCTCCTT
8319 TTTTTCTTTTCTTTTTTTTTTGC-CCTT
1 TTTTTCTTTT-TTTTTTTTTT-CTCCTT
8346 TTTGTTCT
1 TTT-TTCT
8354 GATTGAATCT
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
26 9 0.30
27 16 0.53
28 5 0.17
ACGTcount: A:0.00, C:0.13, G:0.05, T:0.82
Consensus pattern (26 bp):
TTTTTCTTTTTTTTTTTTTTCTCCTT
Found at i:11585 original size:20 final size:19
Alignment explanation
Indices: 11549--11586 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 19
11539 TGCAGATGAT
*
11549 GGAAATAAAATAAAAGAGA
1 GGAAAAAAAATAAAAGAGA
11568 GGAAAAAAAATAAAA-AGA
1 GGAAAAAAAATAAAAGAGA
11586 G
1 G
11587 TTAGTAAGGT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 4 0.22
19 14 0.78
ACGTcount: A:0.71, C:0.00, G:0.21, T:0.08
Consensus pattern (19 bp):
GGAAAAAAAATAAAAGAGA
Found at i:12738 original size:37 final size:37
Alignment explanation
Indices: 12697--12793 Score: 131
Period size: 37 Copynumber: 2.6 Consensus size: 37
12687 GGATCCTATC
* *
12697 TTTAGGAGTTTAAATCATAGTAGAACTCTATCATATT
1 TTTAGGAGTTTGAATCCTAGTAGAACTCTATCATATT
* * * *
12734 TTTAGGAGTTTGAATCCTAGCAAAATTCTATCCTATT
1 TTTAGGAGTTTGAATCCTAGTAGAACTCTATCATATT
*
12771 TTTATGAGTTTGAATCCTAGTAG
1 TTTAGGAGTTTGAATCCTAGTAG
12794 GACAAAAAGA
Statistics
Matches: 51, Mismatches: 9, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
37 51 1.00
ACGTcount: A:0.31, C:0.12, G:0.15, T:0.41
Consensus pattern (37 bp):
TTTAGGAGTTTGAATCCTAGTAGAACTCTATCATATT
Found at i:15593 original size:222 final size:222
Alignment explanation
Indices: 15200--15641 Score: 742
Period size: 222 Copynumber: 2.0 Consensus size: 222
15190 TTGTTTCTAG
* * * *
15200 GATAGATTTACGAATGACATATCTCTTATAACATCATAGTATTGTTCCATGCCATCTTGCATAGG
1 GATAGATTTACGAATGACATATCTCGTAAAACATCATAATATCGTTCCATGCCATCTTGCATAGG
15265 CGCTTTTGACTTGTACATGTTATAGAACTTCAAAATCTCTCTTTATGATGTACATCCATAGCTCA
66 CGCTTTTGACTTGTACATGTTATAGAACTTCAAAATCTCTCTTTATGATGTACATCCATAGCTCA
15330 CATATCCACACCTGCATTTTGGGAATTGGTTACCGCTTGTTTTACTGATTTTCTTCAAATATTTA
131 CATATCCACACCTGCATTTTGGGAATTGGTTACCGCTTGTTTTACTGATTTTCTTCAAATATTTA
* **
15395 AAATGTATAGACATCCGTGGTTGCTCA
196 AAACGTATAGACATCCACGGTTGCTCA
* *
15422 GATAGTTTTACGAATGACATATCTCGTAAAACATCATAATATCGTTCCATGTCATCTTGCATAGG
1 GATAGATTTACGAATGACATATCTCGTAAAACATCATAATATCGTTCCATGCCATCTTGCATAGG
* *
15487 CGCTTTTGATTTGTACATGTTATA-AACCTTCAACATCTCTCTTTATGATGTACATCCATAGCTC
66 CGCTTTTGACTTGTACATGTTATAGAA-CTTCAAAATCTCTCTTTATGATGTACATCCATAGCTC
** *
15551 ACATATCCACACCTGCATTTTGGGAATTGGTTACTTCTTGTTTTACTGATTTTCTTCAAGTATTT
130 ACATATCCACACCTGCATTTTGGGAATTGGTTACCGCTTGTTTTACTGATTTTCTTCAAATATTT
15616 AAAACGTATAGACATCCACGGTTGCT
195 AAAACGTATAGACATCCACGGTTGCT
15642 AAAGCTTTTG
Statistics
Matches: 205, Mismatches: 14, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
221 2 0.01
222 203 0.99
ACGTcount: A:0.27, C:0.20, G:0.14, T:0.38
Consensus pattern (222 bp):
GATAGATTTACGAATGACATATCTCGTAAAACATCATAATATCGTTCCATGCCATCTTGCATAGG
CGCTTTTGACTTGTACATGTTATAGAACTTCAAAATCTCTCTTTATGATGTACATCCATAGCTCA
CATATCCACACCTGCATTTTGGGAATTGGTTACCGCTTGTTTTACTGATTTTCTTCAAATATTTA
AAACGTATAGACATCCACGGTTGCTCA
Found at i:17506 original size:25 final size:26
Alignment explanation
Indices: 17478--17526 Score: 64
Period size: 25 Copynumber: 1.9 Consensus size: 26
17468 TTTTACTCCT
* *
17478 AATTAATTCGATAGAC-AATTCAATA
1 AATTAAATCCATAGACAAATTCAATA
*
17503 AATTAAATCCATATACAAATTCAA
1 AATTAAATCCATAGACAAATTCAA
17527 ATAATAATCT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
25 13 0.65
26 7 0.35
ACGTcount: A:0.51, C:0.14, G:0.04, T:0.31
Consensus pattern (26 bp):
AATTAAATCCATAGACAAATTCAATA
Found at i:17992 original size:2 final size:2
Alignment explanation
Indices: 17985--18021 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
17975 CAAAATCTAA
17985 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
18022 GTATCTCCAT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.00, C:0.49, G:0.00, T:0.51
Consensus pattern (2 bp):
TC
Found at i:22420 original size:81 final size:81
Alignment explanation
Indices: 22285--22448 Score: 274
Period size: 81 Copynumber: 2.0 Consensus size: 81
22275 AGTTGCCGTC
* * *
22285 GCACCTTGTGAAGCCATGGCCTTCATTGATTGGCTATGTTGATCCATTCCATCGAGCATCAATAA
1 GCACCTTGTGAAGCCATGACCTTCATTGATTGGCCACGTTGATCCATTCCATCGAGCATCAATAA
* **
22350 TCCGCCTTCGAGATTT
66 TCCACCGCCGAGATTT
22366 GCACCTTGTGAAGCCATGACCTTCATTGATTGGCCACGTTGATCCATTCCATCGAGCATCAATAA
1 GCACCTTGTGAAGCCATGACCTTCATTGATTGGCCACGTTGATCCATTCCATCGAGCATCAATAA
22431 TCCACCGCCGAGATTT
66 TCCACCGCCGAGATTT
22447 GC
1 GC
22449 TTTCTGATGG
Statistics
Matches: 77, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
81 77 1.00
ACGTcount: A:0.23, C:0.28, G:0.20, T:0.29
Consensus pattern (81 bp):
GCACCTTGTGAAGCCATGACCTTCATTGATTGGCCACGTTGATCCATTCCATCGAGCATCAATAA
TCCACCGCCGAGATTT
Found at i:28931 original size:27 final size:28
Alignment explanation
Indices: 28866--28931 Score: 82
Period size: 27 Copynumber: 2.4 Consensus size: 28
28856 CCTAAACCCG
* *
28866 AACCCAACCC-AAAATCACACTTTAAAA
1 AACCCGACCCGAATATCACACTTTAAAA
28893 AACCCGACCCGAATATCACAC-TTAAAA
1 AACCCGACCCGAATATCACACTTTAAAA
* *
28920 AACTCGATCCGA
1 AACCCGACCCGA
28932 CCTGATTTTT
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
27 25 0.74
28 9 0.26
ACGTcount: A:0.45, C:0.33, G:0.06, T:0.15
Consensus pattern (28 bp):
AACCCGACCCGAATATCACACTTTAAAA
Found at i:28970 original size:30 final size:30
Alignment explanation
Indices: 28916--29012 Score: 97
Period size: 30 Copynumber: 3.2 Consensus size: 30
28906 TATCACACTT
* * *
28916 AAAAAACTCGATCCGACCTG-ATTTTTTAA
1 AAAAAACCCGACCCGACCCGAATTTTTTAA
* *
28945 AAAAAACCCTACCCGACCCGAATTTTTTTA
1 AAAAAACCCGACCCGACCCGAATTTTTTAA
* * *
28975 AAAAAATCCGACCCGATCTCGATTTTTTTTAA
1 AAAAAACCCGACCCGA-CCCGA-ATTTTTTAA
29007 AAAAAA
1 AAAAAA
29013 TCTAACCCGA
Statistics
Matches: 55, Mismatches: 10, Indels: 3
0.81 0.15 0.04
Matches are distributed among these distances:
29 16 0.29
30 22 0.40
31 4 0.07
32 13 0.24
ACGTcount: A:0.40, C:0.23, G:0.08, T:0.29
Consensus pattern (30 bp):
AAAAAACCCGACCCGACCCGAATTTTTTAA
Found at i:28975 original size:31 final size:32
Alignment explanation
Indices: 28937--29012 Score: 102
Period size: 31 Copynumber: 2.4 Consensus size: 32
28927 TCCGACCTGA
*
28937 TTTTTTAAAAAAAACCCTACCCGA-CCCGAAT
1 TTTTTTAAAAAAAACCCGACCCGATCCCGAAT
* * *
28968 TTTTTT-AAAAAAATCCGACCCGATCTCGATT
1 TTTTTTAAAAAAAACCCGACCCGATCCCGAAT
28999 TTTTTTAAAAAAAA
1 TTTTTTAAAAAAAA
29013 TCTAACCCGA
Statistics
Matches: 39, Mismatches: 4, Indels: 3
0.85 0.09 0.07
Matches are distributed among these distances:
30 15 0.38
31 17 0.44
32 7 0.18
ACGTcount: A:0.39, C:0.21, G:0.07, T:0.33
Consensus pattern (32 bp):
TTTTTTAAAAAAAACCCGACCCGATCCCGAAT
Found at i:31209 original size:12 final size:13
Alignment explanation
Indices: 31192--31221 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
31182 TATTTTTAAA
31192 TAAAATAT-TATT
1 TAAAATATATATT
31204 TAAAATATATATT
1 TAAAATATATATT
31217 TAAAA
1 TAAAA
31222 AAAAATCTAA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 8 0.47
13 9 0.53
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (13 bp):
TAAAATATATATT
Found at i:33064 original size:23 final size:23
Alignment explanation
Indices: 33034--33092 Score: 82
Period size: 23 Copynumber: 2.6 Consensus size: 23
33024 TACAACTACC
*
33034 TATTACATTATATAAACGATACT
1 TATTACATTATATAAACGATACA
* *
33057 TATTACATTATATAAGCGCTACA
1 TATTACATTATATAAACGATACA
*
33080 TATTACATCATAT
1 TATTACATTATAT
33093 TTTTACCTAT
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 32 1.00
ACGTcount: A:0.41, C:0.15, G:0.05, T:0.39
Consensus pattern (23 bp):
TATTACATTATATAAACGATACA
Found at i:33537 original size:23 final size:23
Alignment explanation
Indices: 33507--33569 Score: 90
Period size: 23 Copynumber: 2.7 Consensus size: 23
33497 ACTTTACAAC
33507 TACCTATTACATTATATAAATGA
1 TACCTATTACATTATATAAATGA
* *
33530 TACCTATTACATTATATAAGTGC
1 TACCTATTACATTATATAAATGA
* *
33553 TACATATTACATCATAT
1 TACCTATTACATTATAT
33570 TTTTACCTAT
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 36 1.00
ACGTcount: A:0.40, C:0.16, G:0.05, T:0.40
Consensus pattern (23 bp):
TACCTATTACATTATATAAATGA
Found at i:34017 original size:23 final size:23
Alignment explanation
Indices: 33987--34049 Score: 99
Period size: 23 Copynumber: 2.7 Consensus size: 23
33977 ACTTTACAAC
33987 TACCTATTACATTATATAAATGA
1 TACCTATTACATTATATAAATGA
* *
34010 TACCTATTACATTATATAAGTGC
1 TACCTATTACATTATATAAATGA
*
34033 TACCTATTACATCATAT
1 TACCTATTACATTATAT
34050 TTTTACCTAT
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
23 37 1.00
ACGTcount: A:0.38, C:0.17, G:0.05, T:0.40
Consensus pattern (23 bp):
TACCTATTACATTATATAAATGA
Found at i:34498 original size:23 final size:23
Alignment explanation
Indices: 34468--34530 Score: 99
Period size: 23 Copynumber: 2.7 Consensus size: 23
34458 ACTTTACAAC
34468 TACCTATTACATTATATAAACGA
1 TACCTATTACATTATATAAACGA
* *
34491 TACCTATTACATTATATAAGCGC
1 TACCTATTACATTATATAAACGA
*
34514 TACCTATTACATCATAT
1 TACCTATTACATTATAT
34531 TTTTACCTAT
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
23 37 1.00
ACGTcount: A:0.38, C:0.21, G:0.05, T:0.37
Consensus pattern (23 bp):
TACCTATTACATTATATAAACGA
Found at i:34862 original size:482 final size:482
Alignment explanation
Indices: 32629--36676 Score: 7450
Period size: 482 Copynumber: 8.5 Consensus size: 482
32619 TTATAATATG
* *
32629 TTGAAAGTGTCCATACTTTTTATAAAAATGATCGATAATTTTTTTAAAGTTATGTAATTTATGTT
1 TTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTTTTTTAAAGTTATGTAATTTATGTT
* *
32694 TCAATTTTTTTTAATAGTGTTTCATGTTTTTCACCTACAATATTAATTTAATAATTTCATTTGCA
66 TCAATTTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTACA
32759 CAAAAAATTATTTGATTGTTTTGATATTTTATAAAATAATATTTAGAATTTAAATTTAACAATAT
131 CAAAAAATTATTTGATTGTTTTGATATTTTATAAAATAATATTTAGAATTTAAATTTAACAATAT
* *
32824 TAACCAAAGATAATAATAAATATGTAATATATATTTTTATTATTTTTAATTTAATAATAATATAT
196 TAACCAAAGATAATAATAAATATGTAATATATATGTTTATTGTTTTTAATTTAATAATAATATAT
32889 ATCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATCTTAAAACTCACT
261 ATCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATCTTAAAACTCACT
32954 CAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATGGACAC---T-TAAAAAGGA
326 CAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATGGACACTTTTATAAAAAGGA
* *
33015 TAGATACTTTACAACTACCTATTACATTATATAAACGATACTTATTACATTATATAAGCGCTACA
391 TAGATACTTTACAACTACCTATTACATTATATAAACGATACCTATTACATTATATAAGCGCTACC
33080 TATTACATCATATTTTTACCTATTATA
456 TATTACATCATATTTTTACCTATTATA
*
33107 TTGAAAGTGTCCATACTTTTTATAAAAAGGATCGACACTTTTTTTAAAGTTATGTAATTTATGTT
1 TTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTTTTTTAAAGTTATGTAATTTATGTT
*
33172 TCAA-TTTTTTTAATAGTGTTTTATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTACA
66 TCAATTTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTACA
33236 CAAAAAATTATTTGATTGTTTTGATATTTTATAAAATAATATTTAGAATTTAAATTTAACAATAT
131 CAAAAAATTATTTGATTGTTTTGATATTTTATAAAATAATATTTAGAATTTAAATTTAACAATAT
33301 TAACCAAAGATAATAATAAATATGT-A-ATATATGTTTATTGTTTTTAATTTAATAAT-A-ATAT
196 TAACCAAAGATAATAATAAATATGTAATATATATGTTTATTGTTTTTAATTTAATAATAATATAT
*
33362 ATCGTAATGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATCTTAAAACTCACT
261 ATCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATCTTAAAACTCACT
33427 CAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATGGACACTTTTATAAAAAGGA
326 CAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATGGACACTTTTATAAAAAGGA
* * *
33492 TAGATACTTTACAACTACCTATTACATTATATAAATGATACCTATTACATTATATAAGTGCTACA
391 TAGATACTTTACAACTACCTATTACATTATATAAACGATACCTATTACATTATATAAGCGCTACC
33557 TATTACATCATATTTTTACCTATTATA
456 TATTACATCATATTTTTACCTATTATA
33584 TTGAAAGTGTCCATAC-TTTTATAAAAAGGATCGATAC-TTTTTTAAAGTTATGTAATTTATGTT
1 TTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTTTTTTAAAGTTATGTAATTTATGTT
33647 TCAATTTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTACA
66 TCAATTTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTACA
33712 CAAAAAATTATTTGATTGTTTTGATATTTTATAAAATAATATTTAGAATTTAAATTTAACAATAT
131 CAAAAAATTATTTGATTGTTTTGATATTTTATAAAATAATATTTAGAATTTAAATTTAACAATAT
33777 TAACCAAAGATAATAATAAATATGTAATATATATGTTTATTGTTTTTAATTTAATAATAATATAT
196 TAACCAAAGATAATAATAAATATGTAATATATATGTTTATTGTTTTTAATTTAATAATAATATAT
* *
33842 ATCGTAATGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATCTTAAAATTCACT
261 ATCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATCTTAAAACTCACT
*
33907 CAAAAGATAACCTTAAATTAATGTTTTCCACAGTAAAAAAAGTATGGACACTTTTATAAAAAGGA
326 CAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATGGACACTTTTATAAAAAGGA
* *
33972 TAGATACTTTACAACTACCTATTACATTATATAAATGATACCTATTACATTATATAAGTGCTACC
391 TAGATACTTTACAACTACCTATTACATTATATAAACGATACCTATTACATTATATAAGCGCTACC
34037 TATTACATCATATTTTTACCTATTATA
456 TATTACATCATATTTTTACCTATTATA
34064 TTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTTTTTTAAAGTTATGTAATTTATGTT
1 TTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTTTTTTAAAGTTATGTAATTTATGTT
34129 TCAA-TTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTACA
66 TCAATTTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTACA
*
34193 CAAAAAATTATTTGATTGTTTTGATATTTTATAAAATAATATTTAGAATTTAAATTTAACAGTAT
131 CAAAAAATTATTTGATTGTTTTGATATTTTATAAAATAATATTTAGAATTTAAATTTAACAATAT
34258 TAACCAAAGATAATAATAAATATGTAATATATATGTTTATTGTTTTTAATTTAATAATAATATAT
196 TAACCAAAGATAATAATAAATATGTAATATATATGTTTATTGTTTTTAATTTAATAATAATATAT
*
34323 ATCGTAACGTAAAAAATAAATCATTAGACGTCTATAATTACTAAATTAATATCTTAAAACTCACT
261 ATCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATCTTAAAACTCACT
* *
34388 CAAAAGATAACCTTAAATTAATTTTTTCCACAATGAAAAAAGTATGGACACTTTTATAAAAAGGA
326 CAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATGGACACTTTTATAAAAAGGA
34453 TAGATACTTTACAACTACCTATTACATTATATAAACGATACCTATTACATTATATAAGCGCTACC
391 TAGATACTTTACAACTACCTATTACATTATATAAACGATACCTATTACATTATATAAGCGCTACC
34518 TATTACATCATATTTTTACCTATTATA
456 TATTACATCATATTTTTACCTATTATA
*
34545 TTGAAAGTGTCCATACTTTTTATAAAAAGGATCGACACTTTTTTTAAAGTTATGTAATTTATGTT
1 TTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTTTTTTAAAGTTATGTAATTTATGTT
* *
34610 TCAATTTTTTTTAATAGTGTTTTATGTTTTCCACCTACAATATTAATTTTATAATTTCATTTACA
66 TCAATTTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTACA
34675 CAAAAAATTATTTGATTGTTTTGATATTTTATAAAATAATATTTAGAATTTAAATTTAACAATAT
131 CAAAAAATTATTTGATTGTTTTGATATTTTATAAAATAATATTTAGAATTTAAATTTAACAATAT
34740 TAACCAAAGATAATAATAAATATGTAATATATATGTTTATTGTTTTTAATTTAATAATAATATAT
196 TAACCAAAGATAATAATAAATATGTAATATATATGTTTATTGTTTTTAATTTAATAATAATATAT
34805 ATCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATCTTAAAACTCACT
261 ATCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATCTTAAAACTCACT
* *
34870 CAAAAGATAACTTTAAATTAATGTTTTCTACAGTGAAAAAAGTATGGACACTTTTATAAAAAGGA
326 CAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATGGACACTTTTATAAAAAGGA
*
34935 TAGATACTTTACAACTACCTATTACATTATATAAACGATACCTATTACATTATATAATCGCTACC
391 TAGATACTTTACAACTACCTATTACATTATATAAACGATACCTATTACATTATATAAGCGCTACC
* *
35000 TATTAGATAATATTTTTACCTATTATA
456 TATTACATCATATTTTTACCTATTATA
*
35027 TTGAAAGTGTCCATACTTTTTATAAAAATGATCGATACTTTTTTTAAAGTTATGTAATTTATGTT
1 TTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTTTTTTAAAGTTATGTAATTTATGTT
* *
35092 TCAATTTTTTTTAATAGTGTTTTATGTTTTCCACCTACAATATTAATTTTATAATTTCATTTACA
66 TCAATTTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTACA
35157 CAAAAAATTATTTGATTGTTTTGATATTTTATAAAATAATATTTAGAATTTAAATTTAAC-ATAT
131 CAAAAAATTATTTGATTGTTTTGATATTTTATAAAATAATATTTAGAATTTAAATTTAACAATAT
*
35221 TAACCAAAGATAATAATAAATATGTAATATATATG-TTATTTTTTTTAATTTAATAATAATATAT
196 TAACCAAAGATAATAATAAATATGTAATATATATGTTTATTGTTTTTAATTTAATAATAATATAT
35285 ATCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATCTTAAAACTCACT
261 ATCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATCTTAAAACTCACT
* *
35350 CAAAAGATAACCTTAAATTAATGTTTTCTACAGTGAAAAAAGTATGAACACTTTTATAAAAAGGA
326 CAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATGGACACTTTTATAAAAAGGA
*
35415 TAGATACTTTACAACTACCTATTACATTATATAAACGATACCTATTACATTATATAATCGCTACC
391 TAGATACTTTACAACTACCTATTACATTATATAAACGATACCTATTACATTATATAAGCGCTACC
* *
35480 TATTAGATAATATTTTTACCTATTATA
456 TATTACATCATATTTTTACCTATTATA
* *
35507 TTGAAAGTGTCCATACTTTTTATAAAAATGATCGATAATTTTTTTAAAGTTATGTAATTTATGTT
1 TTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTTTTTTAAAGTTATGTAATTTATGTT
35572 TCAATTTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTACA
66 TCAATTTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTACA
35637 CAAAAAATTATTTGATTGTTTTGATATTTTATAAAATAATATTTAGAATTTAAATTTAACAATAT
131 CAAAAAATTATTTGATTGTTTTGATATTTTATAAAATAATATTTAGAATTTAAATTTAACAATAT
35702 TAACCAAAGATAATAATAAATATGTAATATATATGTTTATTGTTTTTAATTTAATAATAATATAT
196 TAACCAAAGATAATAATAAATATGTAATATATATGTTTATTGTTTTTAATTTAATAATAATATAT
35767 ATCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATCTTAAAACTCACT
261 ATCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATCTTAAAACTCACT
35832 CAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATGGACACTTTTATAAAAAGGA
326 CAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATGGACACTTTTATAAAAAGGA
* *
35897 TAGATACTTTACAACTACCTATTACATTATATAAATGATACCTATTATATTATATAAGCGCTACC
391 TAGATACTTTACAACTACCTATTACATTATATAAACGATACCTATTACATTATATAAGCGCTACC
35962 TATTACATCATATTTTTACCTATTATA
456 TATTACATCATATTTTTACCTATTATA
35989 TTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTTTTTTAAAGTTATGTAATTTATGTT
1 TTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTTTTTTAAAGTTATGTAATTTATGTT
*
36054 TCAA-TTTTTTTAATAGTGTTTTATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTACA
66 TCAATTTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTACA
*
36118 CAAAAAATTATTTGATTGTTTTGATATTTTATAAAATAATATTTAGAATTTAAATTTAACAATGT
131 CAAAAAATTATTTGATTGTTTTGATATTTTATAAAATAATATTTAGAATTTAAATTTAACAATAT
*
36183 TAACCAAAGATAATAATAAATATGTAATATATATGTTTATTGTTTTTAATATAATAAT-A-ATAT
196 TAACCAAAGATAATAATAAATATGTAATATATATGTTTATTGTTTTTAATTTAATAATAATATAT
36246 ATCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATCTTAAAACTCACT
261 ATCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATCTTAAAACTCACT
*
36311 C-AAAGATAACCTTAAATTAATGTTTTCCACAATGAAAAAAGTATGGACACTTTTAT-AAAAGGA
326 CAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATGGACACTTTTATAAAAAGGA
36374 TAGATACTTTACAACTACCTATTACATTATATAAACGATACCTATTACATTATATAAGCGCTACC
391 TAGATACTTTACAACTACCTATTACATTATATAAACGATACCTATTACATTATATAAGCGCTACC
36439 TATTACATCATATTTTTACCTATTATA
456 TATTACATCATATTTTTACCTATTATA
*
36466 TTGAAAGTGTCCATACTTTTTATAAAAAGAATCGATACTTTTTTTAAAGTTATGTAATTTATGTT
1 TTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTTTTTTAAAGTTATGTAATTTATGTT
36531 TCAATTTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTACA
66 TCAATTTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTACA
*
36596 C-AAAAA--A-TT-A----TTTGATATTTTATAAAATATTATTTAGAATTTAAATTTAACAATAT
131 CAAAAAATTATTTGATTGTTTTGATATTTTATAAAATAATATTTAGAATTTAAATTTAACAATAT
36652 TAACCAAAGATAATAATAAATATGT
196 TAACCAAAGATAATAATAAATATGT
36677 TTTCCACAGT
Statistics
Matches: 3489, Mismatches: 66, Indels: 39
0.97 0.02 0.01
Matches are distributed among these distances:
469 69 0.02
473 120 0.03
474 3 0.00
475 59 0.02
476 171 0.05
477 432 0.12
478 210 0.06
479 71 0.02
480 675 0.19
481 750 0.21
482 929 0.27
ACGTcount: A:0.40, C:0.11, G:0.07, T:0.41
Consensus pattern (482 bp):
TTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTTTTTTAAAGTTATGTAATTTATGTT
TCAATTTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTACA
CAAAAAATTATTTGATTGTTTTGATATTTTATAAAATAATATTTAGAATTTAAATTTAACAATAT
TAACCAAAGATAATAATAAATATGTAATATATATGTTTATTGTTTTTAATTTAATAATAATATAT
ATCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATCTTAAAACTCACT
CAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATGGACACTTTTATAAAAAGGA
TAGATACTTTACAACTACCTATTACATTATATAAACGATACCTATTACATTATATAAGCGCTACC
TATTACATCATATTTTTACCTATTATA
Found at i:35012 original size:23 final size:23
Alignment explanation
Indices: 34949--35004 Score: 94
Period size: 23 Copynumber: 2.4 Consensus size: 23
34939 TACTTTACAA
34949 CTACCTATTACATTATATAAACG
1 CTACCTATTACATTATATAAACG
* *
34972 ATACCTATTACATTATATAATCG
1 CTACCTATTACATTATATAAACG
34995 CTACCTATTA
1 CTACCTATTA
35005 GATAATATTT
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 30 1.00
ACGTcount: A:0.38, C:0.21, G:0.04, T:0.38
Consensus pattern (23 bp):
CTACCTATTACATTATATAAACG
Found at i:35492 original size:23 final size:23
Alignment explanation
Indices: 35429--35484 Score: 94
Period size: 23 Copynumber: 2.4 Consensus size: 23
35419 TACTTTACAA
35429 CTACCTATTACATTATATAAACG
1 CTACCTATTACATTATATAAACG
* *
35452 ATACCTATTACATTATATAATCG
1 CTACCTATTACATTATATAAACG
35475 CTACCTATTA
1 CTACCTATTA
35485 GATAATATTT
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 30 1.00
ACGTcount: A:0.38, C:0.21, G:0.04, T:0.38
Consensus pattern (23 bp):
CTACCTATTACATTATATAAACG
Found at i:35763 original size:962 final size:961
Alignment explanation
Indices: 32629--36676 Score: 7463
Period size: 962 Copynumber: 4.2 Consensus size: 961
32619 TTATAATATG
*
32629 TTGAAAGTGTCCATACTTTTTATAAAAATGATCGATAATTTTTTTAAAGTTATGTAATTTATGTT
1 TTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATAATTTTTTTAAAGTTATGTAATTTATGTT
* *
32694 TCAATTTTTTTTAATAGTGTTTCATGTTTTTCACCTACAATATTAATTTAATAATTTCATTTGCA
66 TCAATTTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTACA
32759 CAAAAAATTATTTGATTGTTTTGATATTTTATAAAATAATATTTAGAATTTAAATTTAACAATAT
131 CAAAAAATTATTTGATTGTTTTGATATTTTATAAAATAATATTTAGAATTTAAATTTAACAATAT
* *
32824 TAACCAAAGATAATAATAAATATGTAATATATATTTTTATTATTTTTAATTTAATAATAATATAT
196 TAACCAAAGATAATAATAAATATGTAATATATATGTTTATTGTTTTTAATTTAATAATAATATAT
32889 ATCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATCTTAAAACTCACT
261 ATCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATCTTAAAACTCACT
32954 CAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATGGACAC---T-TAAAAAGGA
326 CAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATGGACACTTTTATAAAAAGGA
* *
33015 TAGATACTTTACAACTACCTATTACATTATATAAACGATACTTATTACATTATATAAGCGCTACA
391 TAGATACTTTACAACTACCTATTACATTATATAAACGATACCTATTACATTATATAAGCGCTACC
*
33080 TATTACATCATATTTTTACCTATTATATTGAAAGTGTCCATACTTTTTATAAAAAGGATCGACAC
456 TATTACATCATATTTTTACCTATTATATTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATAC
33145 TTTTTTTAAAGTTATGTAATTTATGTTTCAATTTTTTTAATAGTGTTTTATGTTTTCCACCTACA
521 TTTTTTTAAAGTTATGTAATTTATGTTTCAATTTTTTTAATAGTGTTTTATGTTTTCCACCTACA
33210 ATATTAATTTAATAATTTCATTTACACAAAAAATTATTTGATTGTTTTGATATTTTATAAAATAA
586 ATATTAATTTAATAATTTCATTTACACAAAAAATTATTTGATTGTTTTGATATTTTATAAAATAA
33275 TATTTAGAATTTAAATTTAACAATATTAACCAAAGATAATAATAAATATGT-A-ATATATGTTTA
651 TATTTAGAATTTAAATTTAACAATATTAACCAAAGATAATAATAAATATGTAATATATATGTTTA
*
33338 TTGTTTTTAATTTAATAATAATATATCGTAATGTAAAAAATAAATCATTAGACGCCTATAATTAC
716 TTGTTTTTAATTTAATAATAATATATCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTAC
*
33403 TAAATTAATATCTTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAA
781 TAAATTAATATCTTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACAATGAAAAAA
*
33468 GTATGGACACTTTTATAAAAAGGATAGATACTTTACAACTACCTATTACATTATATAAATGATAC
846 GTATGGACACTTTTATAAAAAGGATAGATACTTTACAACTACCTATTACATTATATAAACGATAC
* *
33533 CTATTACATTATATAAGTGCTACATATTACATCATATTTTTACCTATTATA
911 CTATTACATTATATAAGCGCTACCTATTACATCATATTTTTACCTATTATA
*
33584 TTGAAAGTGTCCATAC-TTTTATAAAAAGGATCGAT-ACTTTTTTAAAGTTATGTAATTTATGTT
1 TTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATAATTTTTTTAAAGTTATGTAATTTATGTT
33647 TCAATTTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTACA
66 TCAATTTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTACA
33712 CAAAAAATTATTTGATTGTTTTGATATTTTATAAAATAATATTTAGAATTTAAATTTAACAATAT
131 CAAAAAATTATTTGATTGTTTTGATATTTTATAAAATAATATTTAGAATTTAAATTTAACAATAT
33777 TAACCAAAGATAATAATAAATATGTAATATATATGTTTATTGTTTTTAATTTAATAATAATATAT
196 TAACCAAAGATAATAATAAATATGTAATATATATGTTTATTGTTTTTAATTTAATAATAATATAT
* *
33842 ATCGTAATGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATCTTAAAATTCACT
261 ATCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATCTTAAAACTCACT
*
33907 CAAAAGATAACCTTAAATTAATGTTTTCCACAGTAAAAAAAGTATGGACACTTTTATAAAAAGGA
326 CAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATGGACACTTTTATAAAAAGGA
* *
33972 TAGATACTTTACAACTACCTATTACATTATATAAATGATACCTATTACATTATATAAGTGCTACC
391 TAGATACTTTACAACTACCTATTACATTATATAAACGATACCTATTACATTATATAAGCGCTACC
34037 TATTACATCATATTTTTACCTATTATATTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATAC
456 TATTACATCATATTTTTACCTATTATATTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATAC
*
34102 TTTTTTTAAAGTTATGTAATTTATGTTTCAATTTTTTTAATAGTGTTTCATGTTTTCCACCTACA
521 TTTTTTTAAAGTTATGTAATTTATGTTTCAATTTTTTTAATAGTGTTTTATGTTTTCCACCTACA
34167 ATATTAATTTAATAATTTCATTTACACAAAAAATTATTTGATTGTTTTGATATTTTATAAAATAA
586 ATATTAATTTAATAATTTCATTTACACAAAAAATTATTTGATTGTTTTGATATTTTATAAAATAA
*
34232 TATTTAGAATTTAAATTTAACAGTATTAACCAAAGATAATAATAAATATGTAATATATATGTTTA
651 TATTTAGAATTTAAATTTAACAATATTAACCAAAGATAATAATAAATATGTAATATATATGTTTA
*
34297 TTGTTTTTAATTTAATAATAATATATATCGTAACGTAAAAAATAAATCATTAGACGTCTATAATT
716 TTGTTTTTAATTTAATAAT-A-ATATATCGTAACGTAAAAAATAAATCATTAGACGCCTATAATT
*
34362 ACTAAATTAATATCTTAAAACTCACTCAAAAGATAACCTTAAATTAATTTTTTCCACAATGAAAA
779 ACTAAATTAATATCTTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACAATGAAAA
34427 AAGTATGGACACTTTTATAAAAAGGATAGATACTTTACAACTACCTATTACATTATATAAACGAT
844 AAGTATGGACACTTTTATAAAAAGGATAGATACTTTACAACTACCTATTACATTATATAAACGAT
34492 ACCTATTACATTATATAAGCGCTACCTATTACATCATATTTTTACCTATTATA
909 ACCTATTACATTATATAAGCGCTACCTATTACATCATATTTTTACCTATTATA
* *
34545 TTGAAAGTGTCCATACTTTTTATAAAAAGGATCGACACTTTTTTTAAAGTTATGTAATTTATGTT
1 TTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATAATTTTTTTAAAGTTATGTAATTTATGTT
* *
34610 TCAATTTTTTTTAATAGTGTTTTATGTTTTCCACCTACAATATTAATTTTATAATTTCATTTACA
66 TCAATTTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTACA
34675 CAAAAAATTATTTGATTGTTTTGATATTTTATAAAATAATATTTAGAATTTAAATTTAACAATAT
131 CAAAAAATTATTTGATTGTTTTGATATTTTATAAAATAATATTTAGAATTTAAATTTAACAATAT
34740 TAACCAAAGATAATAATAAATATGTAATATATATGTTTATTGTTTTTAATTTAATAATAATATAT
196 TAACCAAAGATAATAATAAATATGTAATATATATGTTTATTGTTTTTAATTTAATAATAATATAT
34805 ATCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATCTTAAAACTCACT
261 ATCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATCTTAAAACTCACT
* *
34870 CAAAAGATAACTTTAAATTAATGTTTTCTACAGTGAAAAAAGTATGGACACTTTTATAAAAAGGA
326 CAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATGGACACTTTTATAAAAAGGA
*
34935 TAGATACTTTACAACTACCTATTACATTATATAAACGATACCTATTACATTATATAATCGCTACC
391 TAGATACTTTACAACTACCTATTACATTATATAAACGATACCTATTACATTATATAAGCGCTACC
* * *
35000 TATTAGATAATATTTTTACCTATTATATTGAAAGTGTCCATACTTTTTATAAAAATGATCGATAC
456 TATTACATCATATTTTTACCTATTATATTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATAC
35065 TTTTTTTAAAGTTATGTAATTTATGTTTCAATTTTTTTTAATAGTGTTTTATGTTTTCCACCTAC
521 TTTTTTTAAAGTTATGTAATTTATGTTTCAA-TTTTTTTAATAGTGTTTTATGTTTTCCACCTAC
*
35130 AATATTAATTTTATAATTTCATTTACACAAAAAATTATTTGATTGTTTTGATATTTTATAAAATA
585 AATATTAATTTAATAATTTCATTTACACAAAAAATTATTTGATTGTTTTGATATTTTATAAAATA
35195 ATATTTAGAATTTAAATTTAAC-ATATTAACCAAAGATAATAATAAATATGTAATATATATG-TT
650 ATATTTAGAATTTAAATTTAACAATATTAACCAAAGATAATAATAAATATGTAATATATATGTTT
*
35258 ATTTTTTTTAATTTAATAATAATATATATCGTAACGTAAAAAATAAATCATTAGACGCCTATAAT
715 ATTGTTTTTAATTTAATAAT-A-ATATATCGTAACGTAAAAAATAAATCATTAGACGCCTATAAT
* *
35323 TACTAAATTAATATCTTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCTACAGTGAAA
778 TACTAAATTAATATCTTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACAATGAAA
*
35388 AAAGTATGAACACTTTTATAAAAAGGATAGATACTTTACAACTACCTATTACATTATATAAACGA
843 AAAGTATGGACACTTTTATAAAAAGGATAGATACTTTACAACTACCTATTACATTATATAAACGA
* * *
35453 TACCTATTACATTATATAATCGCTACCTATTAGATAATATTTTTACCTATTATA
908 TACCTATTACATTATATAAGCGCTACCTATTACATCATATTTTTACCTATTATA
*
35507 TTGAAAGTGTCCATACTTTTTATAAAAATGATCGATAATTTTTTTAAAGTTATGTAATTTATGTT
1 TTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATAATTTTTTTAAAGTTATGTAATTTATGTT
35572 TCAATTTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTACA
66 TCAATTTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTACA
35637 CAAAAAATTATTTGATTGTTTTGATATTTTATAAAATAATATTTAGAATTTAAATTTAACAATAT
131 CAAAAAATTATTTGATTGTTTTGATATTTTATAAAATAATATTTAGAATTTAAATTTAACAATAT
35702 TAACCAAAGATAATAATAAATATGTAATATATATGTTTATTGTTTTTAATTTAATAATAATATAT
196 TAACCAAAGATAATAATAAATATGTAATATATATGTTTATTGTTTTTAATTTAATAATAATATAT
35767 ATCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATCTTAAAACTCACT
261 ATCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATCTTAAAACTCACT
35832 CAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATGGACACTTTTATAAAAAGGA
326 CAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATGGACACTTTTATAAAAAGGA
* *
35897 TAGATACTTTACAACTACCTATTACATTATATAAATGATACCTATTATATTATATAAGCGCTACC
391 TAGATACTTTACAACTACCTATTACATTATATAAACGATACCTATTACATTATATAAGCGCTACC
35962 TATTACATCATATTTTTACCTATTATATTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATAC
456 TATTACATCATATTTTTACCTATTATATTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATAC
36027 TTTTTTTAAAGTTATGTAATTTATGTTTCAATTTTTTTAATAGTGTTTTATGTTTTCCACCTACA
521 TTTTTTTAAAGTTATGTAATTTATGTTTCAATTTTTTTAATAGTGTTTTATGTTTTCCACCTACA
36092 ATATTAATTTAATAATTTCATTTACACAAAAAATTATTTGATTGTTTTGATATTTTATAAAATAA
586 ATATTAATTTAATAATTTCATTTACACAAAAAATTATTTGATTGTTTTGATATTTTATAAAATAA
*
36157 TATTTAGAATTTAAATTTAACAATGTTAACCAAAGATAATAATAAATATGTAATATATATGTTTA
651 TATTTAGAATTTAAATTTAACAATATTAACCAAAGATAATAATAAATATGTAATATATATGTTTA
*
36222 TTGTTTTTAATATAATAATAATATATCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTAC
716 TTGTTTTTAATTTAATAATAATATATCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTAC
36287 TAAATTAATATCTTAAAACTCACTC-AAAGATAACCTTAAATTAATGTTTTCCACAATGAAAAAA
781 TAAATTAATATCTTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACAATGAAAAAA
36351 GTATGGACACTTTTAT-AAAAGGATAGATACTTTACAACTACCTATTACATTATATAAACGATAC
846 GTATGGACACTTTTATAAAAAGGATAGATACTTTACAACTACCTATTACATTATATAAACGATAC
36415 CTATTACATTATATAAGCGCTACCTATTACATCATATTTTTACCTATTATA
911 CTATTACATTATATAAGCGCTACCTATTACATCATATTTTTACCTATTATA
* *
36466 TTGAAAGTGTCCATACTTTTTATAAAAAGAATCGATACTTTTTTTAAAGTTATGTAATTTATGTT
1 TTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATAATTTTTTTAAAGTTATGTAATTTATGTT
36531 TCAATTTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTACA
66 TCAATTTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTACA
*
36596 C-AAAAA--A-TT-A----TTTGATATTTTATAAAATATTATTTAGAATTTAAATTTAACAATAT
131 CAAAAAATTATTTGATTGTTTTGATATTTTATAAAATAATATTTAGAATTTAAATTTAACAATAT
36652 TAACCAAAGATAATAATAAATATGT
196 TAACCAAAGATAATAATAAATATGT
36677 TTTCCACAGT
Statistics
Matches: 3002, Mismatches: 78, Indels: 31
0.96 0.03 0.01
Matches are distributed among these distances:
950 70 0.02
953 331 0.11
954 19 0.01
955 18 0.01
956 2 0.00
957 313 0.10
958 6 0.00
959 254 0.08
960 53 0.02
961 424 0.14
962 837 0.28
963 557 0.19
964 118 0.04
ACGTcount: A:0.40, C:0.11, G:0.07, T:0.41
Consensus pattern (961 bp):
TTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATAATTTTTTTAAAGTTATGTAATTTATGTT
TCAATTTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTACA
CAAAAAATTATTTGATTGTTTTGATATTTTATAAAATAATATTTAGAATTTAAATTTAACAATAT
TAACCAAAGATAATAATAAATATGTAATATATATGTTTATTGTTTTTAATTTAATAATAATATAT
ATCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATCTTAAAACTCACT
CAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATGGACACTTTTATAAAAAGGA
TAGATACTTTACAACTACCTATTACATTATATAAACGATACCTATTACATTATATAAGCGCTACC
TATTACATCATATTTTTACCTATTATATTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATAC
TTTTTTTAAAGTTATGTAATTTATGTTTCAATTTTTTTAATAGTGTTTTATGTTTTCCACCTACA
ATATTAATTTAATAATTTCATTTACACAAAAAATTATTTGATTGTTTTGATATTTTATAAAATAA
TATTTAGAATTTAAATTTAACAATATTAACCAAAGATAATAATAAATATGTAATATATATGTTTA
TTGTTTTTAATTTAATAATAATATATCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTAC
TAAATTAATATCTTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACAATGAAAAAA
GTATGGACACTTTTATAAAAAGGATAGATACTTTACAACTACCTATTACATTATATAAACGATAC
CTATTACATTATATAAGCGCTACCTATTACATCATATTTTTACCTATTATA
Found at i:35942 original size:23 final size:23
Alignment explanation
Indices: 35912--35974 Score: 81
Period size: 23 Copynumber: 2.7 Consensus size: 23
35902 ACTTTACAAC
*
35912 TACCTATTACATTATATAAATGA
1 TACCTATTACATTATATAAACGA
* * *
35935 TACCTATTATATTATATAAGCGC
1 TACCTATTACATTATATAAACGA
*
35958 TACCTATTACATCATAT
1 TACCTATTACATTATAT
35975 TTTTACCTAT
Statistics
Matches: 34, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
23 34 1.00
ACGTcount: A:0.38, C:0.17, G:0.05, T:0.40
Consensus pattern (23 bp):
TACCTATTACATTATATAAACGA
Found at i:36419 original size:23 final size:23
Alignment explanation
Indices: 36389--36451 Score: 99
Period size: 23 Copynumber: 2.7 Consensus size: 23
36379 ACTTTACAAC
36389 TACCTATTACATTATATAAACGA
1 TACCTATTACATTATATAAACGA
* *
36412 TACCTATTACATTATATAAGCGC
1 TACCTATTACATTATATAAACGA
*
36435 TACCTATTACATCATAT
1 TACCTATTACATTATAT
36452 TTTTACCTAT
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
23 37 1.00
ACGTcount: A:0.38, C:0.21, G:0.05, T:0.37
Consensus pattern (23 bp):
TACCTATTACATTATATAAACGA
Found at i:36904 original size:228 final size:227
Alignment explanation
Indices: 36483--37183 Score: 1208
Period size: 228 Copynumber: 3.1 Consensus size: 227
36473 TGTCCATACT
36483 TTTTATAAAAA-GA-ATCGATACTTTTTTTAAAGTTATGTAATTTATGTTTCAATTTTTTTTAAT
1 TTTTATAAAAATGATAT--ATACTTTTTTTAAAGTTATGTAATTTATGTTTCAA-TTTTTTTAAT
36546 AGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTACAC-AAAA--A----AT
63 AGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTACACAAAAATTATTTGAT
36604 TATTTGATATTTTATAAAATATTATTTAGAATTTAAATTTAACAATATTAACCAAAGATAATAAT
128 TATTTGATATTTTATAAAATATTATTTAGAATTTAAATTTAACAATATTAACCAAAGATAATAAT
36669 AAATATGTTTTCCACAGTGAAATAAGTATGAACAC
193 AAATATGTTTTCCACAGTGAAATAAGTATGAACAC
*
36704 TTTTATAAAAATGATATATACTTTTTTTAAAGTTATGTAATTTATGTTTCAAATTTTTTAATAGT
1 TTTTATAAAAATGATATATACTTTTTTTAAAGTTATGTAATTTATGTTTCAATTTTTTTAATAGT
36769 GTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTACACAAAAAATTATTTGATTA
66 GTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTACAC-AAAAATTATTTGATTA
36834 TTTGATATTTTATAAAATATTATTTAGAATTTAAATTTAACAATATTAACCAAAGATAATAATAA
130 TTTGATATTTTATAAAATATTATTTAGAATTTAAATTTAACAATATTAACCAAAGATAATAATAA
36899 ATATGTTTTCCACAGTGAAATAAGTAT-AGACAC
195 ATATGTTTTCCACAGTGAAATAAGTATGA-ACAC
36932 TTTTATAAAAATGATATATACTTTTTTTAAAGTTATGTAATTTATGTTTCAATTTTTTTAATAGT
1 TTTTATAAAAATGATATATACTTTTTTTAAAGTTATGTAATTTATGTTTCAATTTTTTTAATAGT
36997 GTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTACACACAAAATTATTTGATTG
66 GTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTACACA-AAAATTATTTGATT-
*
37062 TTTTGATATTTTATAAAATATTATTTAGAATTTAAATTTAACAATATTAACCAAAGATAATAATA
129 ATTTGATATTTTATAAAATATTATTTAGAATTTAAATTTAACAATATTAACCAAAGATAATAATA
* *
37127 AATATATTTT-CACAGTGAAATAAGTATGGACAC
194 AATATGTTTTCCACAGTGAAATAAGTATGAACAC
* *
37160 TTTTATAAAAAGGATAGATACTTT
1 TTTTATAAAAATGATATATACTTT
37184 ACAATATAAC
Statistics
Matches: 459, Mismatches: 7, Indels: 21
0.94 0.01 0.04
Matches are distributed among these distances:
220 60 0.13
221 46 0.10
222 6 0.01
223 2 0.00
224 1 0.00
227 2 0.00
228 269 0.59
229 73 0.16
ACGTcount: A:0.40, C:0.08, G:0.07, T:0.44
Consensus pattern (227 bp):
TTTTATAAAAATGATATATACTTTTTTTAAAGTTATGTAATTTATGTTTCAATTTTTTTAATAGT
GTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTACACAAAAATTATTTGATTAT
TTGATATTTTATAAAATATTATTTAGAATTTAAATTTAACAATATTAACCAAAGATAATAATAAA
TATGTTTTCCACAGTGAAATAAGTATGAACAC
Found at i:39445 original size:167 final size:166
Alignment explanation
Indices: 39269--39572 Score: 599
Period size: 167 Copynumber: 1.8 Consensus size: 166
39259 TTTTATGATT
39269 TTTTTAATTTTAATTTTATAATAAATAATACGTTCTAATTTGATTAAATATATTTTAACAAAAAT
1 TTTTTAATTTTAATTTTATAATAAATAATACGTTCTAATTTGATTAAATATATTTTAACAAAAAT
39334 GTATCAAATAATATATAAATAAATAAATATACAGTGGAAAAATGAAAAATATAGTAAACTACAAA
66 GTATCAAATAATATATAAATAAATAAATATACAGTGG-AAAATGAAAAATATAGTAAACTACAAA
39399 GATGATGAAAAATATTTATATTTTTTATTTGTTTTAC
130 GATGATGAAAAATATTTATATTTTTTATTTGTTTTAC
39436 TTTTTAATTTTAATTTTATAATAAATAATACGTTCTAATTTGATTAAATATATTTTAACAAAAAT
1 TTTTTAATTTTAATTTTATAATAAATAATACGTTCTAATTTGATTAAATATATTTTAACAAAAAT
39501 GTATCAAATAATATATAAATAAATAAATATACAGTGGAAAATGAAAAATATAGTAAACTACAAAG
66 GTATCAAATAATATATAAATAAATAAATATACAGTGGAAAATGAAAAATATAGTAAACTACAAAG
39566 ATGATGA
131 ATGATGA
39573 CATATTAAGC
Statistics
Matches: 137, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
166 35 0.26
167 102 0.74
ACGTcount: A:0.49, C:0.05, G:0.08, T:0.39
Consensus pattern (166 bp):
TTTTTAATTTTAATTTTATAATAAATAATACGTTCTAATTTGATTAAATATATTTTAACAAAAAT
GTATCAAATAATATATAAATAAATAAATATACAGTGGAAAATGAAAAATATAGTAAACTACAAAG
ATGATGAAAAATATTTATATTTTTTATTTGTTTTAC
Found at i:41465 original size:20 final size:20
Alignment explanation
Indices: 41442--41496 Score: 92
Period size: 20 Copynumber: 2.8 Consensus size: 20
41432 ACTGAGTTGG
41442 TATTATCGATACCATGGGTA
1 TATTATCGATACCATGGGTA
*
41462 TATTATCGATACCATGTGTA
1 TATTATCGATACCATGGGTA
*
41482 TAGTATCGATACCAT
1 TATTATCGATACCAT
41497 TTTCAAGATA
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 33 1.00
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.36
Consensus pattern (20 bp):
TATTATCGATACCATGGGTA
Found at i:43666 original size:18 final size:18
Alignment explanation
Indices: 43637--43690 Score: 90
Period size: 18 Copynumber: 3.0 Consensus size: 18
43627 ACGTAGAATT
*
43637 TGTCCCGTAGGACCACTG
1 TGTCCCGAAGGACCACTG
*
43655 TGTCTCGAAGGACCACTG
1 TGTCCCGAAGGACCACTG
43673 TGTCCCGAAGGACCACTG
1 TGTCCCGAAGGACCACTG
43691 ATAATCCCTC
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
18 33 1.00
ACGTcount: A:0.20, C:0.31, G:0.28, T:0.20
Consensus pattern (18 bp):
TGTCCCGAAGGACCACTG
Found at i:45882 original size:19 final size:19
Alignment explanation
Indices: 45855--45901 Score: 67
Period size: 19 Copynumber: 2.5 Consensus size: 19
45845 CTACGACCTC
*
45855 TACCTCTATTTATTTGAGA
1 TACCGCTATTTATTTGAGA
*
45874 TACCGCTATTTCTTTGAGA
1 TACCGCTATTTATTTGAGA
*
45893 TATCGCTAT
1 TACCGCTAT
45902 AGATATTTCT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 25 1.00
ACGTcount: A:0.23, C:0.19, G:0.13, T:0.45
Consensus pattern (19 bp):
TACCGCTATTTATTTGAGA
Found at i:47919 original size:18 final size:18
Alignment explanation
Indices: 47888--47958 Score: 115
Period size: 18 Copynumber: 3.9 Consensus size: 18
47878 GCATAGAATT
*
47888 TGTCCCGTAGGACCACTA
1 TGTCCCGAAGGACCACTA
* *
47906 TGTTCCGAAGGACCACTG
1 TGTCCCGAAGGACCACTA
47924 TGTCCCGAAGGACCACTA
1 TGTCCCGAAGGACCACTA
47942 TGTCCCGAAGGACCACT
1 TGTCCCGAAGGACCACT
47959 GATAATCCCT
Statistics
Matches: 48, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 48 1.00
ACGTcount: A:0.24, C:0.32, G:0.24, T:0.20
Consensus pattern (18 bp):
TGTCCCGAAGGACCACTA
Found at i:51089 original size:35 final size:35
Alignment explanation
Indices: 51048--51122 Score: 105
Period size: 35 Copynumber: 2.1 Consensus size: 35
51038 TTCATGTTCA
51048 AAATTCCAAAACACTTCAATTACATTCTAAACCCC
1 AAATTCCAAAACACTTCAATTACATTCTAAACCCC
* * * * *
51083 AAATTCCAAAATATTTTAATTGCATTCTAAACCCT
1 AAATTCCAAAACACTTCAATTACATTCTAAACCCC
51118 AAATT
1 AAATT
51123 AAAGTATTTT
Statistics
Matches: 35, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
35 35 1.00
ACGTcount: A:0.43, C:0.24, G:0.01, T:0.32
Consensus pattern (35 bp):
AAATTCCAAAACACTTCAATTACATTCTAAACCCC
Found at i:51213 original size:34 final size:35
Alignment explanation
Indices: 51119--51220 Score: 170
Period size: 35 Copynumber: 2.9 Consensus size: 35
51109 CTAAACCCTA
* * *
51119 AATTAAAGTATTTTAGAAATTAGGGTTTAAAATGT
1 AATTAAATTATTTTAGAATTTGGGGTTTAAAATGT
51154 AATTAAATTATTTTAGAATTTGGGGTTTAAAATGT
1 AATTAAATTATTTTAGAATTTGGGGTTTAAAATGT
51189 AATTAAATTATTTTA-AATTTGGGGTTTAAAAT
1 AATTAAATTATTTTAGAATTTGGGGTTTAAAAT
51221 AAAATTGAGG
Statistics
Matches: 64, Mismatches: 3, Indels: 1
0.94 0.04 0.01
Matches are distributed among these distances:
34 17 0.27
35 47 0.73
ACGTcount: A:0.40, C:0.00, G:0.16, T:0.44
Consensus pattern (35 bp):
AATTAAATTATTTTAGAATTTGGGGTTTAAAATGT
Found at i:57602 original size:29 final size:29
Alignment explanation
Indices: 57567--57623 Score: 96
Period size: 29 Copynumber: 2.0 Consensus size: 29
57557 CCCAACCCAT
* *
57567 AGGTCGCCATGCACTCCGGGCGACCAAGG
1 AGGTCGCCATGCACGCCCGGCGACCAAGG
57596 AGGTCGCCATGCACGCCCGGCGACCAAG
1 AGGTCGCCATGCACGCCCGGCGACCAAG
57624 CTTTTAACCC
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 26 1.00
ACGTcount: A:0.21, C:0.37, G:0.33, T:0.09
Consensus pattern (29 bp):
AGGTCGCCATGCACGCCCGGCGACCAAGG
Found at i:69931 original size:42 final size:42
Alignment explanation
Indices: 69841--69977 Score: 242
Period size: 42 Copynumber: 3.3 Consensus size: 42
69831 TCCAAGTTCG
*
69841 CGTTGCAATAGTCGAAGTTCGCGTTGCGA-TT-TTCCAAATT
1 CGTTGCGATAGTCGAAGTTCGCGTTGCGATTTATTCCAAATT
*
69881 CGTTGCGATAGTCGAAGTTCGCGTTGCGATTTATTCCAAGTT
1 CGTTGCGATAGTCGAAGTTCGCGTTGCGATTTATTCCAAATT
69923 CGTTGCGATAGTCGAAGTTCGCGTTGCGATTTATTCCAAATT
1 CGTTGCGATAGTCGAAGTTCGCGTTGCGATTTATTCCAAATT
69965 CGTTGCGATAGTC
1 CGTTGCGATAGTC
69978 CAAAATCACA
Statistics
Matches: 92, Mismatches: 3, Indels: 2
0.95 0.03 0.02
Matches are distributed among these distances:
40 28 0.30
41 2 0.02
42 62 0.67
ACGTcount: A:0.20, C:0.20, G:0.25, T:0.35
Consensus pattern (42 bp):
CGTTGCGATAGTCGAAGTTCGCGTTGCGATTTATTCCAAATT
Found at i:69950 original size:21 final size:21
Alignment explanation
Indices: 69816--69980 Score: 144
Period size: 21 Copynumber: 8.0 Consensus size: 21
69806 GATTTACATA
* *
69816 TTCGCATTGCAATAGTCCAAG
1 TTCGCGTTGCGATAGTCCAAG
* *
69837 TTCGCGTTGCAATAGTCGAAG
1 TTCGCGTTGCGATAGTCCAAG
** *
69858 TTCGCGTTGCGATTTTCCAAA
1 TTCGCGTTGCGATAGTCCAAG
*
69879 TT--CGTTGCGATAGTCGAAG
1 TTCGCGTTGCGATAGTCCAAG
*
69898 TTCGCGTTGCGATTTATTCCAAG
1 TTCGCGTTGCGA--TAGTCCAAG
*
69921 TT--CGTTGCGATAGTCGAAG
1 TTCGCGTTGCGATAGTCCAAG
* *
69940 TTCGCGTTGCGATTTATTCCAAA
1 TTCGCGTTGCGA--TAGTCCAAG
69963 TT--CGTTGCGATAGTCCAA
1 TTCGCGTTGCGATAGTCCAA
69981 AATCACAACG
Statistics
Matches: 117, Mismatches: 19, Indels: 18
0.76 0.12 0.12
Matches are distributed among these distances:
19 31 0.26
21 69 0.59
23 17 0.15
ACGTcount: A:0.22, C:0.21, G:0.24, T:0.34
Consensus pattern (21 bp):
TTCGCGTTGCGATAGTCCAAG
Found at i:70243 original size:21 final size:21
Alignment explanation
Indices: 70217--70436 Score: 168
Period size: 21 Copynumber: 10.6 Consensus size: 21
70207 TTTGGAATAA
70217 ATCGCAACGCGAACTTGGACT
1 ATCGCAACGCGAACTTGGACT
* *
70238 ATCGCAA--CGAATTTGGAAT
1 ATCGCAACGCGAACTTGGACT
* *
70257 AAATCGCAACGCGAACTTCGATT
1 --ATCGCAACGCGAACTTGGACT
* *
70280 ATCGCAA--CGAATTTGGAAT
1 ATCGCAACGCGAACTTGGACT
* *
70299 AAATCGCAACGCGGACTTCGACT
1 --ATCGCAACGCGAACTTGGACT
* * *
70322 ATTGCAA--CGAATTTGGAAT
1 ATCGCAACGCGAACTTGGACT
*
70341 AAATCGCAACGCGAACTTCGACT
1 --ATCGCAACGCGAACTTGGACT
* **
70364 ATCGCAA--CGAATTTGGAAA
1 ATCGCAACGCGAACTTGGACT
*
70383 ATCGCAACGCGAACTTCGACT
1 ATCGCAACGCGAACTTGGACT
*
70404 ATTGCAACGCGAACTTGGACT
1 ATCGCAACGCGAACTTGGACT
*
70425 ATCGCAATGCGA
1 ATCGCAACGCGA
70437 TTATGCGAAT
Statistics
Matches: 152, Mismatches: 33, Indels: 28
0.71 0.15 0.13
Matches are distributed among these distances:
19 42 0.28
21 84 0.55
23 26 0.17
ACGTcount: A:0.34, C:0.24, G:0.21, T:0.22
Consensus pattern (21 bp):
ATCGCAACGCGAACTTGGACT
Found at i:70422 original size:42 final size:42
Alignment explanation
Indices: 70203--70412 Score: 361
Period size: 42 Copynumber: 5.0 Consensus size: 42
70193 CCAGTCGTTG
*
70203 CGAATTTGGAATAAATCGCAACGCGAACTTGGACTATCGCAA
1 CGAATTTGGAATAAATCGCAACGCGAACTTCGACTATCGCAA
*
70245 CGAATTTGGAATAAATCGCAACGCGAACTTCGATTATCGCAA
1 CGAATTTGGAATAAATCGCAACGCGAACTTCGACTATCGCAA
* *
70287 CGAATTTGGAATAAATCGCAACGCGGACTTCGACTATTGCAA
1 CGAATTTGGAATAAATCGCAACGCGAACTTCGACTATCGCAA
70329 CGAATTTGGAATAAATCGCAACGCGAACTTCGACTATCGCAA
1 CGAATTTGGAATAAATCGCAACGCGAACTTCGACTATCGCAA
*
70371 CGAATTTGG-A-AAATCGCAACGCGAACTTCGACTATTGCAA
1 CGAATTTGGAATAAATCGCAACGCGAACTTCGACTATCGCAA
70411 CG
1 CG
70413 CGAACTTGGA
Statistics
Matches: 160, Mismatches: 8, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
40 31 0.19
41 1 0.01
42 128 0.80
ACGTcount: A:0.35, C:0.22, G:0.20, T:0.22
Consensus pattern (42 bp):
CGAATTTGGAATAAATCGCAACGCGAACTTCGACTATCGCAA
Found at i:70483 original size:21 final size:21
Alignment explanation
Indices: 70454--70506 Score: 79
Period size: 21 Copynumber: 2.5 Consensus size: 21
70444 AATATGTAAA
*
70454 TCGCATTGCGATAGTCCAAGT
1 TCGCGTTGCGATAGTCCAAGT
*
70475 TCGCGTTGCGATAGTCGAAGT
1 TCGCGTTGCGATAGTCCAAGT
*
70496 TCGTGTTGCGA
1 TCGCGTTGCGA
70507 ATCTGGAAAC
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 29 1.00
ACGTcount: A:0.19, C:0.21, G:0.30, T:0.30
Consensus pattern (21 bp):
TCGCGTTGCGATAGTCCAAGT
Found at i:76152 original size:20 final size:20
Alignment explanation
Indices: 76129--76190 Score: 97
Period size: 20 Copynumber: 3.1 Consensus size: 20
76119 GAATATATAA
*
76129 ATCGCAACGTGATTCTGACT
1 ATCGCAACGCGATTCTGACT
* *
76149 ATCGCTACGCGATTCTAACT
1 ATCGCAACGCGATTCTGACT
76169 ATCGCAACGCGATTCTGACT
1 ATCGCAACGCGATTCTGACT
76189 AT
1 AT
76191 AGCGTTACGA
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 37 1.00
ACGTcount: A:0.26, C:0.27, G:0.18, T:0.29
Consensus pattern (20 bp):
ATCGCAACGCGATTCTGACT
Found at i:76388 original size:22 final size:22
Alignment explanation
Indices: 76363--76419 Score: 87
Period size: 22 Copynumber: 2.6 Consensus size: 22
76353 ACTCTCTACA
*
76363 ACGACATCCGTCTCCATCTCCG
1 ACGAAATCCGTCTCCATCTCCG
*
76385 ACGAAATCCGTCCCCATCTCCG
1 ACGAAATCCGTCTCCATCTCCG
*
76407 GCGAAATCCGTCT
1 ACGAAATCCGTCT
76420 ATCTCCATCT
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
22 31 1.00
ACGTcount: A:0.21, C:0.42, G:0.16, T:0.21
Consensus pattern (22 bp):
ACGAAATCCGTCTCCATCTCCG
Found at i:76791 original size:19 final size:19
Alignment explanation
Indices: 76767--76813 Score: 94
Period size: 19 Copynumber: 2.5 Consensus size: 19
76757 GAAACTGAGG
76767 ATCGCAACGCGAAATGAAA
1 ATCGCAACGCGAAATGAAA
76786 ATCGCAACGCGAAATGAAA
1 ATCGCAACGCGAAATGAAA
76805 ATCGCAACG
1 ATCGCAACG
76814 ACAAAATCGC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 28 1.00
ACGTcount: A:0.45, C:0.23, G:0.21, T:0.11
Consensus pattern (19 bp):
ATCGCAACGCGAAATGAAA
Found at i:76880 original size:20 final size:19
Alignment explanation
Indices: 76827--76880 Score: 54
Period size: 20 Copynumber: 2.7 Consensus size: 19
76817 AAATCGCAAC
76827 GCGATTTTAGTTTCGCGTT
1 GCGATTTTAGTTTCGCGTT
* * * *
76846 GCGATAGTCATTTTCGTGTT
1 GCGAT-TTTAGTTTCGCGTT
76866 GCGATTTTAAGTTTC
1 GCGATTTT-AGTTTC
76881 AGAAACTATT
Statistics
Matches: 26, Mismatches: 7, Indels: 3
0.72 0.19 0.08
Matches are distributed among these distances:
19 6 0.23
20 20 0.77
ACGTcount: A:0.15, C:0.15, G:0.24, T:0.46
Consensus pattern (19 bp):
GCGATTTTAGTTTCGCGTT
Found at i:77049 original size:20 final size:20
Alignment explanation
Indices: 77024--77076 Score: 97
Period size: 20 Copynumber: 2.6 Consensus size: 20
77014 ATTATGAATT
*
77024 ATCGCGTTACGATAGTCAGA
1 ATCGCGTTGCGATAGTCAGA
77044 ATCGCGTTGCGATAGTCAGA
1 ATCGCGTTGCGATAGTCAGA
77064 ATCGCGTTGCGAT
1 ATCGCGTTGCGAT
77077 TTACATATTC
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 32 1.00
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (20 bp):
ATCGCGTTGCGATAGTCAGA
Found at i:78139 original size:34 final size:35
Alignment explanation
Indices: 78036--78351 Score: 359
Period size: 35 Copynumber: 9.1 Consensus size: 35
78026 AAAGATGAAC
* *** **
78036 ACTTGAATTGAAAGTATAATGCTTCCTTCTATTCG
1 ACTTGAATCGAAAGTGCGATGCTTCCTTCCGTTCG
* * *
78071 ACTTGAATCGAAAGTGTGATACTTCCTTCCGTTCT
1 ACTTGAATCGAAAGTGCGATGCTTCCTTCCGTTCG
* *
78106 ACTTGAATTGAAAGTGCGATGCTT-CTTCCGTTCT
1 ACTTGAATCGAAAGTGCGATGCTTCCTTCCGTTCG
* *
78140 ACTTGAATCGAAAGTGCGATGCTTTCTTCCGTTCT
1 ACTTGAATCGAAAGTGCGATGCTTCCTTCCGTTCG
* * * * * *
78175 ACTTGAATTGAACGTGTGATACTTCCTTCTGCTCG
1 ACTTGAATCGAAAGTGCGATGCTTCCTTCCGTTCG
* * * *
78210 ACTTGAATCGAAAGTGTGATACTTCCTTCTGCTCG
1 ACTTGAATCGAAAGTGCGATGCTTCCTTCCGTTCG
* *
78245 ACTTGAATCGAAAGTGCGATGATTCTTTCCGTTCG
1 ACTTGAATCGAAAGTGCGATGCTTCCTTCCGTTCG
* *
78280 AC-TGAATCGAAAGTGCGATGATTCTTTCCGTTCG
1 ACTTGAATCGAAAGTGCGATGCTTCCTTCCGTTCG
*
78314 AC-TGAATCGAAAGTGCGATGCTTCCTTCCGTTCT
1 ACTTGAATCGAAAGTGCGATGCTTCCTTCCGTTCG
78348 ACTT
1 ACTT
78352 TATTCACCTT
Statistics
Matches: 249, Mismatches: 30, Indels: 4
0.88 0.11 0.01
Matches are distributed among these distances:
34 98 0.39
35 151 0.61
ACGTcount: A:0.22, C:0.22, G:0.20, T:0.36
Consensus pattern (35 bp):
ACTTGAATCGAAAGTGCGATGCTTCCTTCCGTTCG
Found at i:78286 original size:139 final size:139
Alignment explanation
Indices: 78036--78341 Score: 429
Period size: 139 Copynumber: 2.2 Consensus size: 139
78026 AAAGATGAAC
* * *
78036 ACTTGAATTGAAAGTATAATGCTTCCTTCTATTCGACTTGAATCGAAAGTGTGATACTTCCTTCC
1 ACTTGAATTGAAAGTGTGATGCTTCCTTCTACTCGACTTGAATCGAAAGTGTGATACTTCCTTCC
* * * * * *
78101 GTTCTACTTGAATTGAAAGTGCGATGCTTCTTCCGTTCTACTTGAATCGAAAGTGCGATGCTT-T
66 GCTCGACTTGAATCGAAAGTGCGATGATTCTTCCGTTCGACTTGAATCGAAAGTGCGATGATTCT
*
78165 CTTCCGTTCT
131 -TTCCGTTCG
* * * *
78175 ACTTGAATTGAACGTGTGATACTTCCTTCTGCTCGACTTGAATCGAAAGTGTGATACTTCCTTCT
1 ACTTGAATTGAAAGTGTGATGCTTCCTTCTACTCGACTTGAATCGAAAGTGTGATACTTCCTTCC
78240 GCTCGACTTGAATCGAAAGTGCGATGATTCTTTCCGTTCGAC-TGAATCGAAAGTGCGATGATTC
66 GCTCGACTTGAATCGAAAGTGCGATGATTC-TTCCGTTCGACTTGAATCGAAAGTGCGATGATTC
78304 TTTCCGTTCG
130 TTTCCGTTCG
* *
78314 AC-TGAATCGAAAGTGCGATGCTTCCTTC
1 ACTTGAATTGAAAGTGTGATGCTTCCTTC
78342 CGTTCTACTT
Statistics
Matches: 147, Mismatches: 18, Indels: 5
0.86 0.11 0.03
Matches are distributed among these distances:
138 22 0.15
139 114 0.78
140 11 0.07
ACGTcount: A:0.23, C:0.22, G:0.20, T:0.36
Consensus pattern (139 bp):
ACTTGAATTGAAAGTGTGATGCTTCCTTCTACTCGACTTGAATCGAAAGTGTGATACTTCCTTCC
GCTCGACTTGAATCGAAAGTGCGATGATTCTTCCGTTCGACTTGAATCGAAAGTGCGATGATTCT
TTCCGTTCG
Done.