Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01005499.1 Hibiscus syriacus cultivar Beakdansim tig00012653_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: 102674
ACGTcount: A:0.33, C:0.16, G:0.18, T:0.33
Found at i:728 original size:22 final size:22
Alignment explanation
Indices: 702--756 Score: 85
Period size: 22 Copynumber: 2.5 Consensus size: 22
692 CTGTTAAACA
702 GGGGGAATCGGTACCCCCTTGG
1 GGGGGAATCGGTACCCCCTTGG
* *
724 GGGGGAATCGATACCTCCTTGG
1 GGGGGAATCGGTACCCCCTTGG
746 GGGGG-ATCGGT
1 GGGGGAATCGGT
757 TCCCTCCGAG
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
21 5 0.17
22 25 0.83
ACGTcount: A:0.15, C:0.22, G:0.44, T:0.20
Consensus pattern (22 bp):
GGGGGAATCGGTACCCCCTTGG
Found at i:762 original size:22 final size:22
Alignment explanation
Indices: 702--763 Score: 65
Period size: 22 Copynumber: 2.9 Consensus size: 22
692 CTGTTAAACA
* *
702 GGGGGAATCGGTACCC-CCTTG
1 GGGGGGATCGGTTCCCTCCTTG
* *
723 GGGGGGAATC-GATACCTCCTTG
1 GGGGGG-ATCGGTTCCCTCCTTG
745 GGGGGGATCGGTTCCCTCC
1 GGGGGGATCGGTTCCCTCC
764 GAGTATTCTG
Statistics
Matches: 32, Mismatches: 6, Indels: 5
0.74 0.14 0.12
Matches are distributed among these distances:
21 11 0.34
22 21 0.66
ACGTcount: A:0.13, C:0.27, G:0.39, T:0.21
Consensus pattern (22 bp):
GGGGGGATCGGTTCCCTCCTTG
Found at i:823 original size:21 final size:21
Alignment explanation
Indices: 798--839 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
788 AAACCATTCA
798 GGGGAATCGATACCCCCTGAG
1 GGGGAATCGATACCCCCTGAG
* *
819 GGGGAATCGATTCCCTCTGAG
1 GGGGAATCGATACCCCCTGAG
840 CAATCTAGAA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.21, C:0.26, G:0.33, T:0.19
Consensus pattern (21 bp):
GGGGAATCGATACCCCCTGAG
Found at i:2650 original size:2 final size:2
Alignment explanation
Indices: 2609--2636 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
2599 ATATTGAAAT
2609 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
2637 ATAATTGATA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:5192 original size:26 final size:27
Alignment explanation
Indices: 5163--5216 Score: 101
Period size: 26 Copynumber: 2.0 Consensus size: 27
5153 CCAAACTCCT
5163 GTTTATAAGTCTCCA-CTCCTCCACCA
1 GTTTATAAGTCTCCACCTCCTCCACCA
5189 GTTTATAAGTCTCCACCTCCTCCACCA
1 GTTTATAAGTCTCCACCTCCTCCACCA
5216 G
1 G
5217 GTCATTATCA
Statistics
Matches: 27, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
26 15 0.56
27 12 0.44
ACGTcount: A:0.22, C:0.39, G:0.09, T:0.30
Consensus pattern (27 bp):
GTTTATAAGTCTCCACCTCCTCCACCA
Found at i:5454 original size:45 final size:45
Alignment explanation
Indices: 5401--5589 Score: 274
Period size: 45 Copynumber: 4.2 Consensus size: 45
5391 TATAAGTCCC
*
5401 CCACCGCCATCATCACCACCCAAGCACCCTCACAAGTACAAGTCT
1 CCACCGCCACCATCACCACCCAAGCACCCTCACAAGTACAAGTCT
5446 CCACCGCCACCATCACCACCCAAGCACCCTCACAAGTACAAGTCT
1 CCACCGCCACCATCACCACCCAAGCACCCTCACAAGTACAAGTCT
*
5491 CCACCACCACCATCACCACCCAAGCACCCAT-ACAAGTACAAGTCT
1 CCACCGCCACCATCACCACCCAAGCACCC-TCACAAGTACAAGTCT
* * * * * *
5536 CCACCTCCACCATCACCGCCCAAGCACCATTATAAATACAAGTC-
1 CCACCGCCACCATCACCACCCAAGCACCCTCACAAGTACAAGTCT
*
5580 CCACCCCCAC
1 CCACCGCCAC
5590 TACCACCAGT
Statistics
Matches: 134, Mismatches: 8, Indels: 5
0.91 0.05 0.03
Matches are distributed among these distances:
44 10 0.07
45 123 0.92
46 1 0.01
ACGTcount: A:0.32, C:0.48, G:0.07, T:0.12
Consensus pattern (45 bp):
CCACCGCCACCATCACCACCCAAGCACCCTCACAAGTACAAGTCT
Found at i:17026 original size:13 final size:14
Alignment explanation
Indices: 17003--17031 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
16993 TACCTAAATC
17003 TATTTATTAAAAAA
1 TATTTATTAAAAAA
17017 TATTTA-TAAAAAA
1 TATTTATTAAAAAA
17030 TA
1 TA
17032 CATTATAATT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 9 0.60
14 6 0.40
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (14 bp):
TATTTATTAAAAAA
Found at i:19015 original size:20 final size:20
Alignment explanation
Indices: 18990--19032 Score: 61
Period size: 20 Copynumber: 2.1 Consensus size: 20
18980 ATTCCTTAAG
18990 AAAATTAGTGAATA-ATTTTT
1 AAAATT-GTGAATATATTTTT
*
19010 AAAATTTTGAATATATTTTT
1 AAAATTGTGAATATATTTTT
19030 AAA
1 AAA
19033 TTTAATATTT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 6 0.29
20 15 0.71
ACGTcount: A:0.47, C:0.00, G:0.07, T:0.47
Consensus pattern (20 bp):
AAAATTGTGAATATATTTTT
Found at i:19376 original size:20 final size:20
Alignment explanation
Indices: 19353--19404 Score: 95
Period size: 20 Copynumber: 2.6 Consensus size: 20
19343 AACGCGATCC
19353 CCAGAATCGCAAATCAGTTT
1 CCAGAATCGCAAATCAGTTT
19373 CCAGAATCGCAAATCAGTTT
1 CCAGAATCGCAAATCAGTTT
*
19393 CCAAAATCGCAA
1 CCAGAATCGCAA
19405 CGCGATTCTT
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.38, C:0.27, G:0.13, T:0.21
Consensus pattern (20 bp):
CCAGAATCGCAAATCAGTTT
Found at i:19485 original size:20 final size:20
Alignment explanation
Indices: 19460--19653 Score: 76
Period size: 20 Copynumber: 9.7 Consensus size: 20
19450 GATTTTCCAT
* *
19460 AATCGCAACGCGAATATGA-A
1 AATCGCAACGCGAACA-CATA
19480 AATCGCAACGCGAACACATA
1 AATCGCAACGCGAACACATA
* *
19500 AATCGCAACGCGTATC-CGTA
1 AATCGCAACGCG-AACACATA
* * *
19520 AATCGCAACGTGTATC-CGTA
1 AATCGCAACGCG-AACACATA
* ****
19540 AATCGCAACGCGTATGGGTA
1 AATCGCAACGCGAACACATA
* * *
19560 AATCGCAATGCGTATC-CGTA
1 AATCGCAACGCG-AACACATA
* * *
19580 TATCGCAACGCGTATC-CGTA
1 AATCGCAACGCG-AACACATA
** *
19600 AATCGCAACGATAATACATAA
1 AATCGCAACGCGAACACAT-A
* *
19621 AATCGCAACGCGTATC-CGTA
1 AATCGCAACGCG-AACACATA
19641 AATCGCAACGCGA
1 AATCGCAACGCGA
19654 TATTTAAAGC
Statistics
Matches: 139, Mismatches: 28, Indels: 15
0.76 0.15 0.08
Matches are distributed among these distances:
19 3 0.02
20 120 0.86
21 15 0.11
22 1 0.01
ACGTcount: A:0.36, C:0.26, G:0.20, T:0.19
Consensus pattern (20 bp):
AATCGCAACGCGAACACATA
Found at i:19505 original size:40 final size:39
Alignment explanation
Indices: 19456--19653 Score: 200
Period size: 40 Copynumber: 5.0 Consensus size: 39
19446 TTGCGATTTT
* ** *
19456 CCAT-AATCGCAACGCGAATATGAAAATCGCAACGCGAA
1 CCATAAATCGCAACGCGTATCCGTAAATCGCAACGCGAA
* *
19494 CACATAAATCGCAACGCGTATCCGTAAATCGCAACGTGTAT
1 C-CATAAATCGCAACGCGTATCCGTAAATCGCAACGCG-AA
* ** * *
19535 CCGTAAATCGCAACGCGTATGGGTAAATCGCAATGCGTAT
1 CCATAAATCGCAACGCGTATCCGTAAATCGCAACGCG-AA
* * **
19575 CCGTATATCGCAACGCGTATCCGTAAATCGCAACGATAA
1 CCATAAATCGCAACGCGTATCCGTAAATCGCAACGCGAA
*
19614 TACATAAAATCGCAACGCGTATCCGTAAATCGCAACGCGA
1 -CCAT-AAATCGCAACGCGTATCCGTAAATCGCAACGCGA
19654 TATTTAAAGC
Statistics
Matches: 132, Mismatches: 23, Indels: 7
0.81 0.14 0.04
Matches are distributed among these distances:
38 1 0.01
39 4 0.03
40 94 0.71
41 33 0.25
ACGTcount: A:0.35, C:0.26, G:0.19, T:0.19
Consensus pattern (39 bp):
CCATAAATCGCAACGCGTATCCGTAAATCGCAACGCGAA
Found at i:19543 original size:60 final size:60
Alignment explanation
Indices: 19460--19652 Score: 251
Period size: 60 Copynumber: 3.2 Consensus size: 60
19450 GATTTTCCAT
* ** * *
19460 AATCGCAACGCGAATATGAAAATCGCAACGCGAACACATAAATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTAAATCGCAACGCGAATACATAAATCGCAACGCGTATCCGTA
* * *** *
19520 AATCGCAACGTGTATCCGTAAATCGCAACGCGTATGGGTAAATCGCAATGCGTATCCGTA
1 AATCGCAACGCGTATCCGTAAATCGCAACGCGAATACATAAATCGCAACGCGTATCCGTA
* **
19580 TATCGCAACGCGTATCCGTAAATCGCAACGATAATACATAAAATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTAAATCGCAACGCGAATACAT-AAATCGCAACGCGTATCCGTA
19641 AATCGCAACGCG
1 AATCGCAACGCG
19653 ATATTTAAAG
Statistics
Matches: 111, Mismatches: 21, Indels: 1
0.83 0.16 0.01
Matches are distributed among these distances:
60 80 0.72
61 31 0.28
ACGTcount: A:0.35, C:0.26, G:0.20, T:0.19
Consensus pattern (60 bp):
AATCGCAACGCGTATCCGTAAATCGCAACGCGAATACATAAATCGCAACGCGTATCCGTA
Found at i:20072 original size:33 final size:33
Alignment explanation
Indices: 20033--20103 Score: 115
Period size: 33 Copynumber: 2.2 Consensus size: 33
20023 TTCACTTAGA
*
20033 TTTCATTTCGCGTTACGATTCTGTCGTTGCGAT
1 TTTCATTTCGCGTTACGATTCTCTCGTTGCGAT
* *
20066 TTTCATTTCGCGTTGCTATTCTCTCGTTGCGAT
1 TTTCATTTCGCGTTACGATTCTCTCGTTGCGAT
20099 TTTCA
1 TTTCA
20104 AGTTAGTATT
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
33 35 1.00
ACGTcount: A:0.11, C:0.23, G:0.18, T:0.48
Consensus pattern (33 bp):
TTTCATTTCGCGTTACGATTCTCTCGTTGCGAT
Found at i:20243 original size:14 final size:14
Alignment explanation
Indices: 20224--20278 Score: 56
Period size: 14 Copynumber: 3.6 Consensus size: 14
20214 AGAATGACTG
20224 TCGCAACGAGAGAA
1 TCGCAACGAGAGAA
*
20238 TCGCAACGCGAAATGAAAA
1 TCGCAA--CG--A-GAGAA
20257 TCGCAACGAGAGAA
1 TCGCAACGAGAGAA
20271 TCGCAACG
1 TCGCAACG
20279 CGAAACCAAA
Statistics
Matches: 34, Mismatches: 2, Indels: 10
0.74 0.04 0.22
Matches are distributed among these distances:
14 18 0.53
15 1 0.03
16 2 0.06
17 2 0.06
18 1 0.03
19 10 0.29
ACGTcount: A:0.42, C:0.24, G:0.25, T:0.09
Consensus pattern (14 bp):
TCGCAACGAGAGAA
Found at i:20261 original size:33 final size:33
Alignment explanation
Indices: 20224--20294 Score: 124
Period size: 33 Copynumber: 2.2 Consensus size: 33
20214 AGAATGACTG
**
20224 TCGCAACGAGAGAATCGCAACGCGAAATGAAAA
1 TCGCAACGAGAGAATCGCAACGCGAAACCAAAA
20257 TCGCAACGAGAGAATCGCAACGCGAAACCAAAA
1 TCGCAACGAGAGAATCGCAACGCGAAACCAAAA
20290 TCGCA
1 TCGCA
20295 TTGCGATTTT
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 36 1.00
ACGTcount: A:0.44, C:0.25, G:0.23, T:0.08
Consensus pattern (33 bp):
TCGCAACGAGAGAATCGCAACGCGAAACCAAAA
Found at i:20312 original size:19 final size:19
Alignment explanation
Indices: 20290--20387 Score: 81
Period size: 19 Copynumber: 5.7 Consensus size: 19
20280 GAAACCAAAA
*
20290 TCGCATTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
20309 TCGCGTTGCGA--TTC---
1 TCGCGTTGCGATTTTCATT
*
20323 TCTCGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
20342 TCGCGTTGCGA--TTC---
1 TCGCGTTGCGATTTTCATT
* * *
20356 TCTCGTTGCGATTGTCATC
1 TCGCGTTGCGATTTTCATT
20375 TCGCGTTGCGATT
1 TCGCGTTGCGATT
20388 CTCTCGTTGC
Statistics
Matches: 63, Mismatches: 6, Indels: 20
0.71 0.07 0.22
Matches are distributed among these distances:
14 20 0.32
16 5 0.08
17 6 0.10
19 32 0.51
ACGTcount: A:0.10, C:0.24, G:0.22, T:0.43
Consensus pattern (19 bp):
TCGCGTTGCGATTTTCATT
Found at i:20331 original size:14 final size:14
Alignment explanation
Indices: 20312--20401 Score: 81
Period size: 14 Copynumber: 5.7 Consensus size: 14
20302 TTTCATTTCG
20312 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
*
20326 CGTTGCGATTTTCATTTCG
1 CGTTGCGA--TTC---TCT
20345 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
20359 CGTTGCGATTGTCATCT
1 CGTTGCGA-T-TC-TCT
20376 CGCGTTGCGATTCTCT
1 --CGTTGCGATTCTCT
20392 CGTTGCGATT
1 CGTTGCGATT
20402 TTCATTTCAA
Statistics
Matches: 64, Mismatches: 2, Indels: 20
0.74 0.02 0.23
Matches are distributed among these distances:
14 28 0.44
15 1 0.02
16 8 0.12
17 8 0.12
18 1 0.02
19 18 0.28
ACGTcount: A:0.09, C:0.26, G:0.23, T:0.42
Consensus pattern (14 bp):
CGTTGCGATTCTCT
Found at i:20337 original size:33 final size:33
Alignment explanation
Indices: 20295--20409 Score: 212
Period size: 33 Copynumber: 3.5 Consensus size: 33
20285 CAAAATCGCA
20295 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
20328 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
* *
20361 TTGCGATTGTCATCTCGCGTTGCGATTCTCTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
20394 TTGCGATTTTCATTTC
1 TTGCGATTTTCATTTC
20410 AACCAAAAGA
Statistics
Matches: 78, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 78 1.00
ACGTcount: A:0.10, C:0.24, G:0.21, T:0.45
Consensus pattern (33 bp):
TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
Found at i:22277 original size:91 final size:93
Alignment explanation
Indices: 22099--22563 Score: 877
Period size: 91 Copynumber: 5.1 Consensus size: 93
22089 ATTGCTTAGT
*
22099 AATTTATTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTATTTG
1 AATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTATTTG
22164 TCTTTGTTTTGTC-TTTGGTTGAAAGTA
66 TCTTTGTTTTGTCTTTTGGTTGAAAGTA
*
22191 AATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTATATTCTTTAACACTGTGAAATA-TATTTG
1 AATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTATTTG
22255 TCTTTGTTTTGTC-TTTGGTTGAAAGTA
66 TCTTTGTTTTGTCTTTTGGTTGAAAGTA
22282 AATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTATTTG
1 AATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTATTTG
22347 TCTTTGTTTTGTCTTTTGGTTGAAAGTA
66 TCTTTGTTTTGTCTTTTGGTTGAAAGTA
22375 AATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTC-TTAACACTGTGAAATA-TATTTG
1 AATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTATTTG
22438 TCTTTGTTTTGTCTTTTGGTTGAAAGTA
66 TCTTTGTTTTGTCTTTTGGTTGAAAGTA
22466 AATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTATTTG
1 AATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTATTTG
22531 TCTTTGTTTTGTCTTTTGGTTGAAAGTA
66 TCTTTGTTTTGTCTTTTGGTTGAAAGTA
22559 AATTT
1 AATTT
22564 ATCCATTCAA
Statistics
Matches: 366, Mismatches: 3, Indels: 7
0.97 0.01 0.02
Matches are distributed among these distances:
91 165 0.45
92 107 0.29
93 94 0.26
ACGTcount: A:0.22, C:0.13, G:0.18, T:0.46
Consensus pattern (93 bp):
AATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTATTTG
TCTTTGTTTTGTCTTTTGGTTGAAAGTA
Found at i:22422 original size:183 final size:185
Alignment explanation
Indices: 22099--22563 Score: 891
Period size: 184 Copynumber: 2.5 Consensus size: 185
22089 ATTGCTTAGT
*
22099 AATTTATTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTATTTG
1 AATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTATTTG
22164 TCTTTGTTTTGTC-TTTGGTTGAAAGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTAT
66 TCTTTGTTTTGTCTTTTGGTTGAAAGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTAT
22228 ATTCTTTAACACTGTGAAATATATTTGTCTTTGTTTTGTC-TTTGGTTGAAAGTA
131 ATTCTTTAACACTGTGAAATATATTTGTCTTTGTTTTGTCTTTTGGTTGAAAGTA
22282 AATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTATTTG
1 AATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTATTTG
*
22347 TCTTTGTTTTGTCTTTTGGTTGAAAGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGT
66 TCTTTGTTTTGTCTTTTGGTTGAAAGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTAT
22412 ATTC-TTAACACTGTGAAATATATTTGTCTTTGTTTTGTCTTTTGGTTGAAAGTA
131 ATTCTTTAACACTGTGAAATATATTTGTCTTTGTTTTGTCTTTTGGTTGAAAGTA
22466 AATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTATTTG
1 AATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTATTTG
22531 TCTTTGTTTTGTCTTTTGGTTGAAAGTAAATTT
66 TCTTTGTTTTGTCTTTTGGTTGAAAGTAAATTT
22564 ATCCATTCAA
Statistics
Matches: 278, Mismatches: 2, Indels: 3
0.98 0.01 0.01
Matches are distributed among these distances:
183 112 0.40
184 166 0.60
ACGTcount: A:0.22, C:0.13, G:0.18, T:0.46
Consensus pattern (185 bp):
AATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTATTTG
TCTTTGTTTTGTCTTTTGGTTGAAAGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTAT
ATTCTTTAACACTGTGAAATATATTTGTCTTTGTTTTGTCTTTTGGTTGAAAGTA
Found at i:22647 original size:19 final size:19
Alignment explanation
Indices: 22607--22734 Score: 116
Period size: 19 Copynumber: 7.3 Consensus size: 19
22597 TAGTTTACTT
* *
22607 TCGCAACACGAAACTTAAAA
1 TCGCAACGCGAAAC-CAAAA
22627 TCGCAACGCGAAACCAAAA
1 TCGCAACGCGAAACCAAAA
**
22646 TCGCAACGCGAAA-TGAAA
1 TCGCAACGCGAAACCAAAA
*
22664 TCGCAA--CG--A-CAGAA
1 TCGCAACGCGAAACCAAAA
22678 TCGCAACGCGAAACCAAAA
1 TCGCAACGCGAAACCAAAA
*
22697 TCGCAA--CG--A-CAAGA
1 TCGCAACGCGAAACCAAAA
22711 TCGCAACGCGAAACCAAAA
1 TCGCAACGCGAAACCAAAA
22730 TCGCA
1 TCGCA
22735 TTGCGATTTT
Statistics
Matches: 88, Mismatches: 10, Indels: 21
0.74 0.08 0.18
Matches are distributed among these distances:
14 19 0.22
15 1 0.01
16 6 0.07
17 2 0.02
18 11 0.12
19 36 0.41
20 13 0.15
ACGTcount: A:0.45, C:0.29, G:0.17, T:0.09
Consensus pattern (19 bp):
TCGCAACGCGAAACCAAAA
Found at i:22703 original size:33 final size:32
Alignment explanation
Indices: 22643--22734 Score: 141
Period size: 33 Copynumber: 2.8 Consensus size: 32
22633 CGCGAAACCA
**
22643 AAATCGCAACGCGAAA-TGAAATCGCAACGAC
1 AAATCGCAACGCGAAACCAAAATCGCAACGAC
22674 AGAATCGCAACGCGAAACCAAAATCGCAACGAC
1 A-AATCGCAACGCGAAACCAAAATCGCAACGAC
22707 AAGATCGCAACGCGAAACCAAAATCGCA
1 AA-ATCGCAACGCGAAACCAAAATCGCA
22735 TTGCGATTTT
Statistics
Matches: 56, Mismatches: 2, Indels: 4
0.90 0.03 0.06
Matches are distributed among these distances:
31 1 0.02
32 16 0.29
33 39 0.70
ACGTcount: A:0.46, C:0.28, G:0.18, T:0.08
Consensus pattern (32 bp):
AAATCGCAACGCGAAACCAAAATCGCAACGAC
Found at i:22752 original size:19 final size:19
Alignment explanation
Indices: 22730--22864 Score: 128
Period size: 19 Copynumber: 7.6 Consensus size: 19
22720 GAAACCAAAA
*
22730 TCGCATTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
22749 TCGCGTTGCGA--TTC-TT
1 TCGCGTTGCGATTTTCATT
22765 T--CGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
* *
22782 TCGCATTGCGA--TTC-TG
1 TCGCGTTGCGATTTTCATT
22798 T--CGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
**
22815 TCGCGTTGCGATTTTGGTT
1 TCGCGTTGCGATTTTCATT
*
22834 TCGCGTTGCGATTTTAAGTT
1 TCGCGTTGCGATTTTCA-TT
*
22854 TCGTGTTGCGA
1 TCGCGTTGCGA
22865 AAGTAAACTA
Statistics
Matches: 95, Mismatches: 10, Indels: 21
0.75 0.08 0.17
Matches are distributed among these distances:
14 15 0.16
16 11 0.12
17 11 0.12
19 46 0.48
20 12 0.13
ACGTcount: A:0.11, C:0.19, G:0.24, T:0.46
Consensus pattern (19 bp):
TCGCGTTGCGATTTTCATT
Found at i:22771 original size:14 final size:14
Alignment explanation
Indices: 22752--22808 Score: 60
Period size: 14 Copynumber: 3.7 Consensus size: 14
22742 TTTCATTTCG
22752 CGTTGCGATTCTTT
1 CGTTGCGATTCTTT
22766 CGTTGCGATTTTCATTT
1 CGTTGCGA--TTC-TTT
*
22783 CGCATTGCGATTCTGT
1 CG--TTGCGATTCTTT
22799 CGTTGCGATT
1 CGTTGCGATT
22809 TTCATTTCGC
Statistics
Matches: 37, Mismatches: 1, Indels: 10
0.77 0.02 0.21
Matches are distributed among these distances:
14 16 0.43
16 7 0.19
17 8 0.22
19 6 0.16
ACGTcount: A:0.11, C:0.21, G:0.23, T:0.46
Consensus pattern (14 bp):
CGTTGCGATTCTTT
Found at i:22777 original size:33 final size:33
Alignment explanation
Indices: 22735--22827 Score: 168
Period size: 33 Copynumber: 2.8 Consensus size: 33
22725 CAAAATCGCA
*
22735 TTGCGATTTTCATTTCGCGTTGCGATTCTTTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTGTCG
*
22768 TTGCGATTTTCATTTCGCATTGCGATTCTGTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTGTCG
22801 TTGCGATTTTCATTTCGCGTTGCGATT
1 TTGCGATTTTCATTTCGCGTTGCGATT
22828 TTGGTTTCGC
Statistics
Matches: 57, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 57 1.00
ACGTcount: A:0.11, C:0.20, G:0.22, T:0.47
Consensus pattern (33 bp):
TTGCGATTTTCATTTCGCGTTGCGATTCTGTCG
Found at i:24783 original size:14 final size:14
Alignment explanation
Indices: 24764--24799 Score: 63
Period size: 14 Copynumber: 2.6 Consensus size: 14
24754 ATTGTTTAAT
24764 TGATTTGTAAAAGA
1 TGATTTGTAAAAGA
*
24778 TGATTTGTAAAAGT
1 TGATTTGTAAAAGA
24792 TGATTTGT
1 TGATTTGT
24800 GTAATTGATG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.33, C:0.00, G:0.22, T:0.44
Consensus pattern (14 bp):
TGATTTGTAAAAGA
Found at i:24922 original size:19 final size:19
Alignment explanation
Indices: 24906--25007 Score: 151
Period size: 19 Copynumber: 5.6 Consensus size: 19
24896 AAAAATGACT
24906 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
24925 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
*
24944 ATCGCAA--CG--A-GAGA
1 ATCGCAATGCGAAATGAAA
24958 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
24977 ATCGCAATGCGGAAATGAAA
1 ATCGCAATGC-GAAATGAAA
24997 ATCGCAATGCG
1 ATCGCAATGCG
25008 TTTAATTTCG
Statistics
Matches: 75, Mismatches: 2, Indels: 12
0.84 0.02 0.13
Matches are distributed among these distances:
14 10 0.13
15 1 0.01
16 2 0.03
17 2 0.03
18 1 0.01
19 40 0.53
20 19 0.25
ACGTcount: A:0.44, C:0.18, G:0.24, T:0.15
Consensus pattern (19 bp):
ATCGCAATGCGAAATGAAA
Found at i:25058 original size:19 final size:19
Alignment explanation
Indices: 25034--25286 Score: 298
Period size: 19 Copynumber: 14.4 Consensus size: 19
25024 GATTATCTCG
25034 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
25053 TTGCGA-TTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
25071 TTGCGA--TTC-TTTCG--
1 TTGCGATTTTCATTTCGCA
25085 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
25104 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
25123 TTGCGATTTTCA-TTCGCA
1 TTGCGATTTTCATTTCGCA
*
25141 TTGCGATTTTAATTTCGCA
1 TTGCGATTTTCATTTCGCA
*
25160 TTGCGA--TTC-TGTCG--
1 TTGCGATTTTCATTTCGCA
25174 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
25193 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
*
25212 TTGCGA--TTC-TCTCG--
1 TTGCGATTTTCATTTCGCA
25226 TTGCGATTTTCATTTCCGCA
1 TTGCGATTTTCATTT-CGCA
25246 TTGCGATTTTCA--T-G--
1 TTGCGATTTTCATTTCGCA
* *
25260 TTGGGATTTTCATTTCGCG
1 TTGCGATTTTCATTTCGCA
25279 TTGCGATT
1 TTGCGATT
25287 GTATTTTCCG
Statistics
Matches: 204, Mismatches: 8, Indels: 44
0.80 0.03 0.17
Matches are distributed among these distances:
14 29 0.14
16 24 0.12
17 20 0.10
18 38 0.19
19 81 0.40
20 12 0.06
ACGTcount: A:0.14, C:0.21, G:0.19, T:0.47
Consensus pattern (19 bp):
TTGCGATTTTCATTTCGCA
Found at i:25108 original size:70 final size:71
Alignment explanation
Indices: 25034--25286 Score: 323
Period size: 70 Copynumber: 3.6 Consensus size: 71
25024 GATTATCTCG
25034 TTGCGATTTTCATTTCGCATTGCGA-TTTCATTTCGCATTGCGATTCTTTCGTTGCGATTTTCAT
1 TTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGCGATTCTTTCGTTGCGATTTTCAT
25098 TTCGCA
66 TTCGCA
*
25104 TTGCGATTTTCATTTCGCATTGCGATTTTCA-TTCGCATTGCGATTTTAATTTCGCATTGCGA--
1 TTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGCGA--TT-CTTTCG--TTGCGATT
*
25166 TTC-TGTCG--
61 TTCATTTCGCA
*
25174 TTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGCGATTCTCTCGTTGCGATTTTCAT
1 TTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGCGATTCTTTCGTTGCGATTTTCAT
25239 TTCCGCA
66 TT-CGCA
* *
25246 TTGCGATTTTCA--T-G--TTGGGATTTTCATTTCGCGTTGCGATT
1 TTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGCGATT
25287 GTATTTTCCG
Statistics
Matches: 163, Mismatches: 7, Indels: 29
0.82 0.04 0.15
Matches are distributed among these distances:
66 6 0.04
67 25 0.15
68 7 0.04
69 5 0.03
70 71 0.44
71 17 0.10
72 18 0.11
73 8 0.05
75 6 0.04
ACGTcount: A:0.14, C:0.21, G:0.19, T:0.47
Consensus pattern (71 bp):
TTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGCGATTCTTTCGTTGCGATTTTCAT
TTCGCA
Found at i:25128 original size:89 final size:90
Alignment explanation
Indices: 25012--25286 Score: 371
Period size: 89 Copynumber: 3.2 Consensus size: 90
25002 AATGCGTTTA
*
25012 ATTTCGCATTGCGA--TT-ATCTCG--TTGCGATTTTCATTTCGCATTGCGA-TTTCATTTCGCA
1 ATTTCGCATTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCA
25071 TTGCGATTCTTTCGTTGCGATTTTC
66 TTGCGATTCTTTCGTTGCGATTTTC
*
25096 ATTTCGCATTGCGATTTTCATTTCGCATTGCGATTTTCA-TTCGCATTGCGATTTTAATTTCGCA
1 ATTTCGCATTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCA
*
25160 TTGCGATTCTGTCGTTGCGATTTTC
66 TTGCGATTCTTTCGTTGCGATTTTC
*
25185 ATTTCGCATTGCGATTTTCATTTCGCATTGCGA--TTC-TCTCG--TTGCGATTTTCATTTCCGC
1 ATTTCGCATTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGCGATTTTCATTT-CGC
*
25245 ATTGCGA-T-TTTCATGTTGGGATTTTC
65 ATTGCGATTCTTTC--GTTGCGATTTTC
*
25271 ATTTCGCGTTGCGATT
1 ATTTCGCATTGCGATT
25287 GTATTTTCCG
Statistics
Matches: 173, Mismatches: 8, Indels: 18
0.87 0.04 0.09
Matches are distributed among these distances:
84 17 0.10
85 15 0.09
86 38 0.22
87 11 0.06
88 12 0.07
89 80 0.46
ACGTcount: A:0.15, C:0.21, G:0.19, T:0.46
Consensus pattern (90 bp):
ATTTCGCATTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCA
TTGCGATTCTTTCGTTGCGATTTTC
Found at i:25296 original size:53 final size:53
Alignment explanation
Indices: 25034--25258 Score: 254
Period size: 52 Copynumber: 4.2 Consensus size: 53
25024 GATTATCTCG
*
25034 TTGCGATTTTCATTTCGCATTGCGATTTCATTTCGCATTGCGA--TTC-TTT-CG--
1 TTGCGATTTTCATTTCGCATTGCGA-TTC---TCGCGTTGCGATTTTCATTTCCGCA
*
25085 TTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGCGATTTTCA-TT-CGCA
1 TTGCGATTTTCATTTCGCATTGCGA--TTC---TCGCGTTGCGATTTTCATTTCCGCA
*
25141 TTGCGATTTTAATTTCGCATTGCGATTCT-GTCGTTGCGATTTTCATTT-CGCA
1 TTGCGATTTTCATTTCGCATTGCGATTCTCG-CGTTGCGATTTTCATTTCCGCA
*
25193 TTGCGATTTTCATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCCGCA
1 TTGCGATTTTCATTTCGCATTGCGATTCTCGCGTTGCGATTTTCATTTCCGCA
25246 TTGCGATTTTCAT
1 TTGCGATTTTCAT
25259 GTTGGGATTT
Statistics
Matches: 160, Mismatches: 4, Indels: 18
0.88 0.02 0.10
Matches are distributed among these distances:
50 1 0.01
51 39 0.24
52 69 0.43
53 17 0.11
54 10 0.06
56 24 0.15
ACGTcount: A:0.15, C:0.21, G:0.17, T:0.47
Consensus pattern (53 bp):
TTGCGATTTTCATTTCGCATTGCGATTCTCGCGTTGCGATTTTCATTTCCGCA
Found at i:27580 original size:12 final size:12
Alignment explanation
Indices: 27563--27587 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
27553 TCTTCGGGGA
27563 CTTTTTCTTCTT
1 CTTTTTCTTCTT
27575 CTTTTTCTTCTT
1 CTTTTTCTTCTT
27587 C
1 C
27588 AGGATTATAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.00, C:0.28, G:0.00, T:0.72
Consensus pattern (12 bp):
CTTTTTCTTCTT
Found at i:27796 original size:24 final size:24
Alignment explanation
Indices: 27762--27808 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
27752 CTGAAACATC
27762 ATCAAAATCCGTG-TATTGACCAAT
1 ATCAAAATCCG-GATATTGACCAAT
*
27786 ATCAAAGTCCGGATATTGACCAA
1 ATCAAAATCCGGATATTGACCAA
27809 GACCAAATTT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 1 0.05
24 20 0.95
ACGTcount: A:0.38, C:0.21, G:0.15, T:0.26
Consensus pattern (24 bp):
ATCAAAATCCGGATATTGACCAAT
Found at i:28518 original size:20 final size:20
Alignment explanation
Indices: 28490--28858 Score: 451
Period size: 20 Copynumber: 18.4 Consensus size: 20
28480 AAATTTAAGT
* * * *
28490 GTTGTGATTTACAGATTCTC
1 GTTGCGATTTACGGATACGC
*
28510 GTTGCGATTTACGGATTA-TC
1 GTTGCGATTTACGGA-TACGC
* * *
28530 GTTGCGATTTACAGATTCTC
1 GTTGCGATTTACGGATACGC
*
28550 GTTGCGATTTACGGATTA-TC
1 GTTGCGATTTACGGA-TACGC
28570 GTTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATACGC
*
28590 GTTGCGATTTACGGATTA-TC
1 GTTGCGATTTACGGA-TACGC
28610 GTTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATACGC
28630 GTTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATACGC
*
28650 ATTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATACGC
*
28670 GTTGCGATTTACGGATACAC
1 GTTGCGATTTACGGATACGC
28690 GTTGC-AGTTTACGGATACGC
1 GTTGCGA-TTTACGGATACGC
28710 GTTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATACGC
*
28730 GTTGCGATATACGGATACGC
1 GTTGCGATTTACGGATACGC
* **
28750 ATTGCGATTTACCCATACGC
1 GTTGCGATTTACGGATACGC
*
28770 GTTGCGATTTACGGATACAC
1 GTTGCGATTTACGGATACGC
28790 GTTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATACGC
* *
28810 GTTGCGATTTATGTG-TTCGC
1 GTTGCGATTTACG-GATACGC
* ** *
28830 GTTGCGATTTTCATATTCGC
1 GTTGCGATTTACGGATACGC
28850 GTTGCGATT
1 GTTGCGATT
28859 ATGGAAAATC
Statistics
Matches: 309, Mismatches: 30, Indels: 20
0.86 0.08 0.06
Matches are distributed among these distances:
19 6 0.02
20 297 0.96
21 6 0.02
ACGTcount: A:0.20, C:0.19, G:0.26, T:0.35
Consensus pattern (20 bp):
GTTGCGATTTACGGATACGC
Found at i:32440 original size:18 final size:18
Alignment explanation
Indices: 32392--32442 Score: 54
Period size: 18 Copynumber: 2.9 Consensus size: 18
32382 GAAGCTAATT
*
32392 TTTTATTATATTATAATTA
1 TTTTATTATATT-TTATTA
*
32411 -TTTA--ATAGTTTATTA
1 TTTTATTATATTTTATTA
32426 TTTTATTATATTTTATT
1 TTTTATTATATTTTATT
32443 GTACTAATTT
Statistics
Matches: 26, Mismatches: 3, Indels: 7
0.72 0.08 0.19
Matches are distributed among these distances:
15 5 0.19
16 8 0.31
18 13 0.50
ACGTcount: A:0.31, C:0.00, G:0.02, T:0.67
Consensus pattern (18 bp):
TTTTATTATATTTTATTA
Found at i:35155 original size:24 final size:24
Alignment explanation
Indices: 35119--35190 Score: 76
Period size: 24 Copynumber: 3.0 Consensus size: 24
35109 ATTTAAATTT
35119 AAACTAATATTTAATATATTATCA-
1 AAAC-AATATTTAATATATTATCAG
** *
35143 AAACAATATTTTAATATCACAAACAG
1 AAACAATA-TTTAATAT-ATTATCAG
35169 AAACAATATTTAA-ATATTATCA
1 AAACAATATTTAATATATTATCA
35191 TGTTATAAGC
Statistics
Matches: 39, Mismatches: 6, Indels: 7
0.75 0.12 0.13
Matches are distributed among these distances:
23 8 0.21
24 14 0.36
25 9 0.23
26 8 0.21
ACGTcount: A:0.53, C:0.11, G:0.01, T:0.35
Consensus pattern (24 bp):
AAACAATATTTAATATATTATCAG
Found at i:41509 original size:67 final size:65
Alignment explanation
Indices: 41423--41569 Score: 149
Period size: 67 Copynumber: 2.2 Consensus size: 65
41413 AGTCATCAAT
* ** * *
41423 TTTAAATTTATAAAGATTGAGG-TCTAATTTATTTAACTT-TGAAATTTATAAGA-ATTTAAAAA
1 TTTAAATTTAAAAAGATTGAGGCT-TAATTTAACTAA-TTGTAAAATTTAT-AGACACTTAAAAA
41485 ATA
63 ATA
* *
41488 TTTAAATTTGAAAAAGAATTGATGCTTAATTTAACTAATTGTAAAATTTATAGACACTTAAGAAA
1 TTTAAATTT-AAAAAG-ATTGAGGCTTAATTTAACTAATTGTAAAATTTATAGACACTTAAAAAA
41553 TA
64 TA
*
41555 TTTAAA-TAAAAAAGA
1 TTTAAATTTAAAAAGA
41570 AAGGGCAAAG
Statistics
Matches: 69, Mismatches: 8, Indels: 11
0.78 0.09 0.12
Matches are distributed among these distances:
64 1 0.01
65 15 0.22
66 11 0.16
67 41 0.59
68 1 0.01
ACGTcount: A:0.48, C:0.04, G:0.10, T:0.39
Consensus pattern (65 bp):
TTTAAATTTAAAAAGATTGAGGCTTAATTTAACTAATTGTAAAATTTATAGACACTTAAAAAATA
Found at i:42321 original size:19 final size:19
Alignment explanation
Indices: 42278--42376 Score: 58
Period size: 19 Copynumber: 5.1 Consensus size: 19
42268 ATATTTACAA
*
42278 AATATAATTAAATTAAAAT
1 AATATAATAAAATTAAAAT
* * *
42297 ATTATAATAAAATTGATAT
1 AATATAATAAAATTAAAAT
* *
42316 AATATACATGAAAACTAACATT
1 AATATA-AT-AAAATTAA-AAT
*
42338 AAGATAATATAAATATAAAAT
1 AATATAATA-AAAT-TAAAAT
* *
42359 CATGT--TAAAATTAAAAT
1 AATATAATAAAATTAAAAT
42376 A
1 A
42377 TTAATATTTA
Statistics
Matches: 59, Mismatches: 16, Indels: 12
0.68 0.18 0.14
Matches are distributed among these distances:
17 6 0.10
18 4 0.07
19 22 0.37
20 3 0.05
21 15 0.25
22 9 0.15
ACGTcount: A:0.59, C:0.04, G:0.04, T:0.33
Consensus pattern (19 bp):
AATATAATAAAATTAAAAT
Found at i:49242 original size:23 final size:22
Alignment explanation
Indices: 49214--49256 Score: 68
Period size: 23 Copynumber: 1.9 Consensus size: 22
49204 TTAGTGCTGT
49214 AAACAAGATAAAAAATAAGATTA
1 AAACAAGATAAAAAA-AAGATTA
*
49237 AAACAAGATAAAGAAAAGAT
1 AAACAAGATAAAAAAAAGAT
49257 AAAGGAATTG
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
22 5 0.26
23 14 0.74
ACGTcount: A:0.70, C:0.05, G:0.12, T:0.14
Consensus pattern (22 bp):
AAACAAGATAAAAAAAAGATTA
Found at i:49244 original size:11 final size:12
Alignment explanation
Indices: 49214--49259 Score: 51
Period size: 11 Copynumber: 4.0 Consensus size: 12
49204 TTAGTGCTGT
49214 AAACAAGATAAA
1 AAACAAGATAAA
* *
49226 AAATAAGAT-TA
1 AAACAAGATAAA
49237 AAACAAGATAAA
1 AAACAAGATAAA
*
49249 GAA-AAGATAAA
1 AAACAAGATAAA
49260 GGAATTGCAA
Statistics
Matches: 28, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
11 17 0.61
12 11 0.39
ACGTcount: A:0.72, C:0.04, G:0.11, T:0.13
Consensus pattern (12 bp):
AAACAAGATAAA
Found at i:50964 original size:66 final size:66
Alignment explanation
Indices: 50880--51027 Score: 253
Period size: 66 Copynumber: 2.3 Consensus size: 66
50870 ACCCATTCAA
*
50880 GGGGAACCGATA-CCCCTCAACGAATATGATTTCCAGAATGCTAGAGGGGAATCGATACCCCCAG
1 GGGGAACCGATACCCCCTCAACGAATATGAATTCCAGAATGCTAGAGGGGAATCGATACCCCCAG
50944 G
66 G
* *
50945 GGGGAACCGATACCCCCTCAACGAATATGAATTCCAGAATGCTAGTGGGGAATCGATACCCCTAG
1 GGGGAACCGATACCCCCTCAACGAATATGAATTCCAGAATGCTAGAGGGGAATCGATACCCCCAG
51010 G
66 G
*
51011 GGGGAACCGATTCCCCC
1 GGGGAACCGATACCCCC
51028 ATGAGAAAAA
Statistics
Matches: 78, Mismatches: 4, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
65 12 0.15
66 66 0.85
ACGTcount: A:0.29, C:0.28, G:0.26, T:0.17
Consensus pattern (66 bp):
GGGGAACCGATACCCCCTCAACGAATATGAATTCCAGAATGCTAGAGGGGAATCGATACCCCCAG
G
Found at i:51014 original size:20 final size:20
Alignment explanation
Indices: 50986--51026 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
50976 TTCCAGAATG
* *
50986 CTAGTGGGGAATCGATACCC
1 CTAGGGGGGAACCGATACCC
*
51006 CTAGGGGGGAACCGATTCCC
1 CTAGGGGGGAACCGATACCC
51026 C
1 C
51027 CATGAGAAAA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.22, C:0.29, G:0.32, T:0.17
Consensus pattern (20 bp):
CTAGGGGGGAACCGATACCC
Found at i:51669 original size:22 final size:23
Alignment explanation
Indices: 51619--51677 Score: 102
Period size: 23 Copynumber: 2.6 Consensus size: 23
51609 ATCATTATAT
*
51619 GGCACTACGGTGCAATTCTACGG
1 GGCACTTCGGTGCAATTCTACGG
51642 GGCACTTCGGTGCAATTCTAC-G
1 GGCACTTCGGTGCAATTCTACGG
51664 GGCACTTCGGTGCA
1 GGCACTTCGGTGCA
51678 TTTATACGAG
Statistics
Matches: 35, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
22 15 0.43
23 20 0.57
ACGTcount: A:0.19, C:0.27, G:0.31, T:0.24
Consensus pattern (23 bp):
GGCACTTCGGTGCAATTCTACGG
Found at i:57758 original size:21 final size:21
Alignment explanation
Indices: 57716--57758 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
57706 TTTTCGGGCT
* * *
57716 AGGGGAATCGGTACCCATTCA
1 AGGGGAACCGATACCCACTCA
*
57737 AGGGGAACCGATACCCCCTCA
1 AGGGGAACCGATACCCACTCA
57758 A
1 A
57759 CGAATATGAT
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.30, C:0.30, G:0.26, T:0.14
Consensus pattern (21 bp):
AGGGGAACCGATACCCACTCA
Found at i:57818 original size:66 final size:67
Alignment explanation
Indices: 57738--57887 Score: 257
Period size: 66 Copynumber: 2.3 Consensus size: 67
57728 ACCCATTCAA
*
57738 GGGGAACCGATACCCCCTCAACGAATATGATTTCCAGAATACTAGAGGGGAATCGATACCCCCA-
1 GGGGAACCGATACCCCCTCAACGAATATGAATTCCAGAATACTAGAGGGGAATCGATACCCCCAG
57802 GG
66 GG
* *
57804 GGGGAACCGATACCCCCTCAACGAATATGAATTCCAGAATGCTAGTGGGGAATCGATACCCCCAG
1 GGGGAACCGATACCCCCTCAACGAATATGAATTCCAGAATACTAGAGGGGAATCGATACCCCCAG
57869 GG
66 GG
*
57871 GGGGAACCGATTCCCCC
1 GGGGAACCGATACCCCC
57888 ATGAGAAAAA
Statistics
Matches: 79, Mismatches: 4, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
66 61 0.77
67 18 0.23
ACGTcount: A:0.29, C:0.29, G:0.26, T:0.16
Consensus pattern (67 bp):
GGGGAACCGATACCCCCTCAACGAATATGAATTCCAGAATACTAGAGGGGAATCGATACCCCCAG
GG
Found at i:58529 original size:22 final size:23
Alignment explanation
Indices: 58479--58537 Score: 102
Period size: 23 Copynumber: 2.6 Consensus size: 23
58469 ATCATTATAT
*
58479 GGCACTACGGTGCAATTCTACGG
1 GGCACTTCGGTGCAATTCTACGG
58502 GGCACTTCGGTGCAATTCTAC-G
1 GGCACTTCGGTGCAATTCTACGG
58524 GGCACTTCGGTGCA
1 GGCACTTCGGTGCA
58538 TTTATACGAG
Statistics
Matches: 35, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
22 15 0.43
23 20 0.57
ACGTcount: A:0.19, C:0.27, G:0.31, T:0.24
Consensus pattern (23 bp):
GGCACTTCGGTGCAATTCTACGG
Found at i:67690 original size:53 final size:53
Alignment explanation
Indices: 67624--67724 Score: 177
Period size: 53 Copynumber: 1.9 Consensus size: 53
67614 TAACTAGATA
*
67624 TTTTATTCTGTTAGTTATTAGATAAG-ATCAGTTTTAATTAGATAGAATTAATT
1 TTTTATTCGGTTAGTTATTAGAT-AGTATCAGTTTTAATTAGATAGAATTAATT
67677 TTTTATTCGGTTAGTTATTAGATAGTATCAGTTTTAATTAGATAGAAT
1 TTTTATTCGGTTAGTTATTAGATAGTATCAGTTTTAATTAGATAGAAT
67725 CAGTTTTATT
Statistics
Matches: 46, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
52 2 0.04
53 44 0.96
ACGTcount: A:0.33, C:0.04, G:0.15, T:0.49
Consensus pattern (53 bp):
TTTTATTCGGTTAGTTATTAGATAGTATCAGTTTTAATTAGATAGAATTAATT
Found at i:67718 original size:20 final size:20
Alignment explanation
Indices: 67693--67732 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
67683 TCGGTTAGTT
*
67693 ATTAGATAGTATCAGTTTTA
1 ATTAGATAGAATCAGTTTTA
67713 ATTAGATAGAATCAGTTTTA
1 ATTAGATAGAATCAGTTTTA
67733 TTCTGTTGCT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.38, C:0.05, G:0.15, T:0.42
Consensus pattern (20 bp):
ATTAGATAGAATCAGTTTTA
Found at i:70832 original size:2 final size:2
Alignment explanation
Indices: 70827--70877 Score: 102
Period size: 2 Copynumber: 25.5 Consensus size: 2
70817 ATATATATAC
70827 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
70869 AG AG AG AG A
1 AG AG AG AG A
70878 CCTATGTTCG
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 49 1.00
ACGTcount: A:0.51, C:0.00, G:0.49, T:0.00
Consensus pattern (2 bp):
AG
Found at i:71409 original size:19 final size:19
Alignment explanation
Indices: 71371--71409 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
71361 CAGTGTATGG
* * *
71371 TTTTTAAATTACATTTAAA
1 TTTTTAAATAAAATTGAAA
71390 TTTTTAAATAAAATTGAAA
1 TTTTTAAATAAAATTGAAA
71409 T
1 T
71410 GCTTAAATCA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.46, C:0.03, G:0.03, T:0.49
Consensus pattern (19 bp):
TTTTTAAATAAAATTGAAA
Found at i:77513 original size:20 final size:20
Alignment explanation
Indices: 77484--77542 Score: 100
Period size: 20 Copynumber: 3.0 Consensus size: 20
77474 GAAATGTAAG
77484 ATTACCAGTGGGAATAAAAT
1 ATTACCAGTGGGAATAAAAT
* *
77504 ATTACAAGTGAGAATAAAAT
1 ATTACCAGTGGGAATAAAAT
77524 ATTACCAGTGGGAATAAAA
1 ATTACCAGTGGGAATAAAA
77543 GATACCAGGG
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 35 1.00
ACGTcount: A:0.49, C:0.08, G:0.19, T:0.24
Consensus pattern (20 bp):
ATTACCAGTGGGAATAAAAT
Found at i:77550 original size:19 final size:20
Alignment explanation
Indices: 77481--77550 Score: 97
Period size: 20 Copynumber: 3.5 Consensus size: 20
77471 CACGAAATGT
77481 AAGATTACCAGTGGGAATAA
1 AAGATTACCAGTGGGAATAA
* * *
77501 AATATTACAAGTGAGAATAA
1 AAGATTACCAGTGGGAATAA
*
77521 AATATTACCAGTGGGAATAA
1 AAGATTACCAGTGGGAATAA
77541 AAGA-TACCAG
1 AAGATTACCAG
77551 GGAATACGAT
Statistics
Matches: 44, Mismatches: 6, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
19 6 0.14
20 38 0.86
ACGTcount: A:0.49, C:0.10, G:0.20, T:0.21
Consensus pattern (20 bp):
AAGATTACCAGTGGGAATAA
Found at i:78549 original size:17 final size:17
Alignment explanation
Indices: 78524--78565 Score: 52
Period size: 15 Copynumber: 2.6 Consensus size: 17
78514 ATCACTTTAA
* *
78524 ATTTTAATTTTTCAGAT
1 ATTTAAATTTTTCACAT
78541 ATTTAAA--TTTCACAT
1 ATTTAAATTTTTCACAT
78556 ATTTAAATTT
1 ATTTAAATTT
78566 GAATTAAAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 4
0.78 0.07 0.15
Matches are distributed among these distances:
15 14 0.67
17 7 0.33
ACGTcount: A:0.36, C:0.07, G:0.02, T:0.55
Consensus pattern (17 bp):
ATTTAAATTTTTCACAT
Found at i:78557 original size:15 final size:15
Alignment explanation
Indices: 78533--78565 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
78523 AATTTTAATT
*
78533 TTTCAGATATTTAAA
1 TTTCACATATTTAAA
78548 TTTCACATATTTAAA
1 TTTCACATATTTAAA
78563 TTT
1 TTT
78566 GAATTAAAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.36, C:0.09, G:0.03, T:0.52
Consensus pattern (15 bp):
TTTCACATATTTAAA
Found at i:78966 original size:51 final size:50
Alignment explanation
Indices: 78911--79037 Score: 148
Period size: 51 Copynumber: 2.5 Consensus size: 50
78901 GATAAATTTT
* * * * *
78911 AATAAAAACTTATATTTTATTGAAACTCGTCATCTCGATGTGACTAGTTTC
1 AATAAAAA-TTATATTTTATTGAAACTCGTCACCTCAAGGTGACGAGTTTA
* * *
78962 AATAAATATATATATTTTATTTAAACTCGTCACCTTAAGGTGACGAGTTTA
1 AATAAAAAT-TATATTTTATTGAAACTCGTCACCTCAAGGTGACGAGTTTA
*
79013 AATAAAAA-TATTTTTTATTGAAACT
1 AATAAAAATTATATTTTATTGAAACT
79038 TATCATGTCA
Statistics
Matches: 64, Mismatches: 11, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
49 15 0.23
50 1 0.02
51 48 0.75
ACGTcount: A:0.38, C:0.12, G:0.10, T:0.40
Consensus pattern (50 bp):
AATAAAAATTATATTTTATTGAAACTCGTCACCTCAAGGTGACGAGTTTA
Found at i:79322 original size:2 final size:2
Alignment explanation
Indices: 79315--79341 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
79305 CACATACAAT
79315 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
79342 TAATATCCAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:81169 original size:56 final size:56
Alignment explanation
Indices: 81083--81195 Score: 172
Period size: 56 Copynumber: 2.0 Consensus size: 56
81073 GATGTGTGCT
* *
81083 TGGTGTGCTGGTTGGAGATAAATGTACACATAGTTGACAGCGCACGCATATATATA
1 TGGTGAGCTGGTGGGAGATAAATGTACACATAGTTGACAGCGCACGCATATATATA
* * **
81139 TGGTGAGCTGGTGGGAGATAAATGTACACATGGTTGACAGCGCGCGTGTATATATA
1 TGGTGAGCTGGTGGGAGATAAATGTACACATAGTTGACAGCGCACGCATATATATA
81195 T
1 T
81196 ATATGACGTT
Statistics
Matches: 51, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
56 51 1.00
ACGTcount: A:0.28, C:0.13, G:0.30, T:0.28
Consensus pattern (56 bp):
TGGTGAGCTGGTGGGAGATAAATGTACACATAGTTGACAGCGCACGCATATATATA
Found at i:83051 original size:16 final size:17
Alignment explanation
Indices: 83030--83066 Score: 58
Period size: 16 Copynumber: 2.2 Consensus size: 17
83020 TTTTATCTCA
*
83030 AAATAAATAATAATAT-
1 AAATAAATAAAAATATC
83046 AAATAAATAAAAATATC
1 AAATAAATAAAAATATC
83063 AAAT
1 AAAT
83067 CAATTTTTGG
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 15 0.79
17 4 0.21
ACGTcount: A:0.70, C:0.03, G:0.00, T:0.27
Consensus pattern (17 bp):
AAATAAATAAAAATATC
Found at i:91120 original size:24 final size:23
Alignment explanation
Indices: 91071--91121 Score: 57
Period size: 24 Copynumber: 2.2 Consensus size: 23
91061 TTGTTTTTTT
**
91071 AATATTTTATATTTAAAATTTAA
1 AATATTTTATATTTAAAAAATAA
* *
91094 AATATTTGTATTTTTAAAAAATCA
1 AATATTT-TATATTTAAAAAATAA
91118 AATA
1 AATA
91122 AGTCTTTGAA
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
23 7 0.30
24 16 0.70
ACGTcount: A:0.49, C:0.02, G:0.02, T:0.47
Consensus pattern (23 bp):
AATATTTTATATTTAAAAAATAA
Found at i:91720 original size:31 final size:33
Alignment explanation
Indices: 91655--91720 Score: 84
Period size: 35 Copynumber: 2.0 Consensus size: 33
91645 AAATCCATAC
*
91655 TTGTTTATTTATAATATTGCTAAGTTGTAATTTT
1 TTGTTTATTTATAATATT-CTAAGTTATAATTTT
91689 TTGTTATATTTATAATA-T-TAA-TTATAATTTT
1 TTGTT-TATTTATAATATTCTAAGTTATAATTTT
91720 T
1 T
91721 AATATTTATA
Statistics
Matches: 30, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
31 10 0.33
32 3 0.10
34 6 0.20
35 11 0.37
ACGTcount: A:0.30, C:0.02, G:0.08, T:0.61
Consensus pattern (33 bp):
TTGTTTATTTATAATATTCTAAGTTATAATTTT
Found at i:91741 original size:16 final size:15
Alignment explanation
Indices: 91692--91742 Score: 54
Period size: 16 Copynumber: 3.5 Consensus size: 15
91682 TAATTTTTTG
91692 TTATATTTATAA-TA
1 TTATATTTATAATTA
*
91706 TTA-A-TTATAATTT
1 TTATATTTATAATTA
91719 TTAATATTTATAAATTA
1 TT-ATATTTAT-AATTA
91736 TTATATT
1 TTATATT
91743 GATTTTAAAA
Statistics
Matches: 30, Mismatches: 2, Indels: 8
0.75 0.05 0.20
Matches are distributed among these distances:
12 6 0.20
13 4 0.13
14 4 0.13
15 1 0.03
16 9 0.30
17 6 0.20
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (15 bp):
TTATATTTATAATTA
Found at i:92023 original size:30 final size:31
Alignment explanation
Indices: 91989--92048 Score: 95
Period size: 31 Copynumber: 2.0 Consensus size: 31
91979 TTCAATAACC
* *
91989 AAAATGTAA-CAATCTATAATGTAAGTGACA
1 AAAATGTAATAAATCGATAATGTAAGTGACA
92019 AAAATGTAATAAATCGATAATGTAAGTGAC
1 AAAATGTAATAAATCGATAATGTAAGTGAC
92049 TGGATTATAT
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
30 9 0.33
31 18 0.67
ACGTcount: A:0.50, C:0.08, G:0.15, T:0.27
Consensus pattern (31 bp):
AAAATGTAATAAATCGATAATGTAAGTGACA
Found at i:95407 original size:40 final size:41
Alignment explanation
Indices: 95325--95571 Score: 285
Period size: 40 Copynumber: 6.2 Consensus size: 41
95315 TTTACAGAAC
* * * *
95325 CGCAACGCGAATATG-AAAATCGCAACGCG-ATTC-TGATTAT
1 CGCAACGAGAATACGTAAAATCGCAACGCGTATCCGT-A-AAT
* * * *
95365 CGCAACGAGTATCCGTAAAATTGTAACGCGTATCCGT-AAT
1 CGCAACGAGAATACGTAAAATCGCAACGCGTATCCGTAAAT
* *
95405 CGCAATGACAATACGTAAAATCGCAACGCGTATCCGTAAAT
1 CGCAACGAGAATACGTAAAATCGCAACGCGTATCCGTAAAT
* * *
95446 CGCAACGAGAATACGT-AAATCTCAACGTGTATCTGTAAAT
1 CGCAACGAGAATACGTAAAATCGCAACGCGTATCCGTAAAT
*
95486 CGCAACGAGAATACGT-AAA-CGCAATGCGTATCCGTAAAT
1 CGCAACGAGAATACGTAAAATCGCAACGCGTATCCGTAAAT
*
95525 CGCAACGACAATACGTAAAATCGCAACGCGTATCCGT-AAT
1 CGCAACGAGAATACGTAAAATCGCAACGCGTATCCGTAAAT
95565 CGCAACG
1 CGCAACG
95572 CGATTTTTAA
Statistics
Matches: 176, Mismatches: 25, Indels: 12
0.83 0.12 0.06
Matches are distributed among these distances:
39 31 0.18
40 97 0.55
41 44 0.25
42 3 0.02
43 1 0.01
ACGTcount: A:0.36, C:0.24, G:0.19, T:0.21
Consensus pattern (41 bp):
CGCAACGAGAATACGTAAAATCGCAACGCGTATCCGTAAAT
Found at i:95447 original size:20 final size:20
Alignment explanation
Indices: 95363--95573 Score: 180
Period size: 20 Copynumber: 10.6 Consensus size: 20
95353 GATTCTGATT
*
95363 ATCGCAACGAGTATCCGTAAA
1 ATCGCAACGCGTATCCGT-AA
* *
95384 ATTGTAACGCGTATCCGT-A
1 ATCGCAACGCGTATCCGTAA
* * *
95403 ATCGCAATGAC-AATACGTAAA
1 ATCGCAACG-CGTATCCGT-AA
95424 ATCGCAACGCGTATCCGTAA
1 ATCGCAACGCGTATCCGTAA
* * *
95444 ATCGCAACGAGAATACGTAA
1 ATCGCAACGCGTATCCGTAA
* * *
95464 ATCTCAACGTGTATCTGTAA
1 ATCGCAACGCGTATCCGTAA
* * *
95484 ATCGCAACGAGAATACGTAA
1 ATCGCAACGCGTATCCGTAA
*
95504 A-CGCAATGCGTATCCGTAA
1 ATCGCAACGCGTATCCGTAA
* *
95523 ATCGCAACGAC-AATACGTAAA
1 ATCGCAACG-CGTATCCGT-AA
95544 ATCGCAACGCGTATCCGT-A
1 ATCGCAACGCGTATCCGTAA
95563 ATCGCAACGCG
1 ATCGCAACGCG
95574 ATTTTTAAAG
Statistics
Matches: 149, Mismatches: 33, Indels: 18
0.75 0.17 0.09
Matches are distributed among these distances:
19 39 0.26
20 64 0.43
21 46 0.31
ACGTcount: A:0.36, C:0.24, G:0.19, T:0.20
Consensus pattern (20 bp):
ATCGCAACGCGTATCCGTAA
Found at i:95538 original size:79 final size:81
Alignment explanation
Indices: 95363--95571 Score: 280
Period size: 79 Copynumber: 2.6 Consensus size: 81
95353 GATTCTGATT
** * * * *
95363 ATCGCAACGAGTATCCGTAAAATTGTAACGCGTATCCGTAATCGCAATGACAATACGTAAAATCG
1 ATCGCAACGACAATACGTAAAATCGCAACGCGTATCCGTAATCGCAACGACAATACGTAAAATCG
95428 CAACGCGTATCCGTAA
66 CAACGCGTATCCGTAA
* * * * *
95444 ATCGCAACGAGAATACGT-AAATCTCAACGTGTATCTGTAAATCGCAACGAGAATACGT-AAA-C
1 ATCGCAACGACAATACGTAAAATCGCAACGCGTATCCGT-AATCGCAACGACAATACGTAAAATC
*
95506 GCAATGCGTATCCGTAA
65 GCAACGCGTATCCGTAA
95523 ATCGCAACGACAATACGTAAAATCGCAACGCGTATCCGTAATCGCAACG
1 ATCGCAACGACAATACGTAAAATCGCAACGCGTATCCGTAATCGCAACG
95572 CGATTTTTAA
Statistics
Matches: 112, Mismatches: 14, Indels: 6
0.85 0.11 0.05
Matches are distributed among these distances:
79 44 0.39
80 35 0.31
81 33 0.29
ACGTcount: A:0.37, C:0.24, G:0.19, T:0.21
Consensus pattern (81 bp):
ATCGCAACGACAATACGTAAAATCGCAACGCGTATCCGTAATCGCAACGACAATACGTAAAATCG
CAACGCGTATCCGTAA
Found at i:95563 original size:60 final size:61
Alignment explanation
Indices: 95363--95573 Score: 234
Period size: 60 Copynumber: 3.5 Consensus size: 61
95353 GATTCTGATT
* * *
95363 ATCGCAACGAGTATCCGTAAAATTGTAACGCGTATCCGT-AATCGCAATGACAATACGTAAA
1 ATCGCAACGAGTATCCGT-AAATCGCAACGCGTATCCGTAAATCGCAACGACAATACGTAAA
* * * * * ***
95424 ATCGCAACGCGTATCCGTAAATCGCAACGAGAATACGTAAATCTCAACGTGTAT-CTGT-AA
1 ATCGCAACGAGTATCCGTAAATCGCAACGCGTATCCGTAAATCGCAACGACAATAC-GTAAA
* * *
95484 ATCGCAACGAGAATACGTAAA-CGCAATGCGTATCCGTAAATCGCAACGACAATACGTAAA
1 ATCGCAACGAGTATCCGTAAATCGCAACGCGTATCCGTAAATCGCAACGACAATACGTAAA
*
95544 ATCGCAACGCGTATCCGT-AATCGCAACGCG
1 ATCGCAACGAGTATCCGTAAATCGCAACGCG
95574 ATTTTTAAAG
Statistics
Matches: 119, Mismatches: 26, Indels: 11
0.76 0.17 0.07
Matches are distributed among these distances:
59 28 0.24
60 62 0.52
61 29 0.24
ACGTcount: A:0.36, C:0.24, G:0.19, T:0.20
Consensus pattern (61 bp):
ATCGCAACGAGTATCCGTAAATCGCAACGCGTATCCGTAAATCGCAACGACAATACGTAAA
Found at i:96189 original size:21 final size:21
Alignment explanation
Indices: 96128--96206 Score: 94
Period size: 20 Copynumber: 3.9 Consensus size: 21
96118 TTCTAAACTT
96128 AAAATCGCAAC-ATGA-AAATG
1 AAAATCGCAACGA-GATAAATG
96148 AAAATCGCAAC-ACGA-AAATG
1 AAAATCGCAACGA-GATAAATG
**
96168 ACTATCGCAACGAGATAAATG
1 AAAATCGCAACGAGATAAATG
96189 AAAATCGCAACGAGATAA
1 AAAATCGCAACGAGATAA
96207 TCGCAACGCG
Statistics
Matches: 52, Mismatches: 5, Indels: 3
0.87 0.08 0.05
Matches are distributed among these distances:
20 30 0.58
21 22 0.42
ACGTcount: A:0.52, C:0.18, G:0.16, T:0.14
Consensus pattern (21 bp):
AAAATCGCAACGAGATAAATG
Found at i:96275 original size:20 final size:19
Alignment explanation
Indices: 96226--96282 Score: 78
Period size: 19 Copynumber: 2.9 Consensus size: 19
96216 GAAACCAAAA
**
96226 TCGCATTGCGATTTTCATT
1 TCGCATTGCGATAGTCATT
*
96245 TCGCGTTGCGATAGTCATT
1 TCGCATTGCGATAGTCATT
96264 TCCGCATTGCGATAGTCAT
1 T-CGCATTGCGATAGTCAT
96283 CTCTCGTTGC
Statistics
Matches: 33, Mismatches: 4, Indels: 1
0.87 0.11 0.03
Matches are distributed among these distances:
19 17 0.52
20 16 0.48
ACGTcount: A:0.18, C:0.23, G:0.21, T:0.39
Consensus pattern (19 bp):
TCGCATTGCGATAGTCATT
Found at i:96291 original size:39 final size:39
Alignment explanation
Indices: 96227--96304 Score: 102
Period size: 39 Copynumber: 2.0 Consensus size: 39
96217 AAACCAAAAT
** *
96227 CGCATTGCGATTTTCATTTCGCGTTGCGATAGTCATTTC
1 CGCATTGCGATAGTCATCTCGCGTTGCGATAGTCATTTC
* **
96266 CGCATTGCGATAGTCATCTCTCGTTGCGATTTTCATTTC
1 CGCATTGCGATAGTCATCTCGCGTTGCGATAGTCATTTC
96305 AACCAAAAGA
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
39 33 1.00
ACGTcount: A:0.15, C:0.24, G:0.19, T:0.41
Consensus pattern (39 bp):
CGCATTGCGATAGTCATCTCGCGTTGCGATAGTCATTTC
Found at i:96301 original size:19 final size:18
Alignment explanation
Indices: 96240--96295 Score: 67
Period size: 20 Copynumber: 2.9 Consensus size: 18
96230 ATTGCGATTT
96240 TCATTTCGCGTTGCGATAG
1 TCATTTC-CGTTGCGATAG
96259 TCATTTCCGCATTGCGATAG
1 TCATTTCCG--TTGCGATAG
*
96279 TCATCTCTCGTTGCGAT
1 TCATTTC-CGTTGCGAT
96296 TTTCATTTCA
Statistics
Matches: 33, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
18 2 0.06
19 14 0.42
20 15 0.45
21 2 0.06
ACGTcount: A:0.16, C:0.25, G:0.21, T:0.38
Consensus pattern (18 bp):
TCATTTCCGTTGCGATAG
Found at i:98242 original size:95 final size:93
Alignment explanation
Indices: 97985--98363 Score: 636
Period size: 95 Copynumber: 4.1 Consensus size: 93
97975 TAGATTGCTT
* * *
97985 AGTAAATTTATTCGGTTACTGCCAATACTGCTAAACTGTTTATTCTTTAACA-TGTGAAGTTAGT
1 AGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAGTTAGT
*
98049 ATTTGTATTTTGTTTTGTCTTTTGGTTGA
66 ATTTGT-CTTTGTTTTGTCTTTTGGTTGA
98078 AGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAGTTAGT
1 AGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAGTTAGT
98143 ATTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 ATTTGTCTTTGTTTTGTCTTTTGGTTG-A
*
98172 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAAACTGTGTATTCTTTAACACTGTGAAGTTAG
1 AGTAAATTTATTCGGTTGCTGCCAATTCTGCT-AAACTGTGTATTCTTTAACACTGTGAAGTTAG
98237 TATTTGTCTTTGTTTTGTCTTTTGGTTGAA
65 TATTTGTCTTTGTTTTGTCTTTTGGTTG-A
* * *
98267 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAATACTCTGAAGTTAGT
1 AGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAGTTAGT
98332 ATTTGTCTTTG-TTTGTCTTTTGGTTGA
66 ATTTGTCTTTGTTTTGTCTTTTGGTTGA
98359 AGTAA
1 AGTAA
98364 TGCAATCCAT
Statistics
Matches: 276, Mismatches: 7, Indels: 7
0.95 0.02 0.02
Matches are distributed among these distances:
92 6 0.02
93 84 0.30
94 92 0.33
95 94 0.34
ACGTcount: A:0.22, C:0.12, G:0.19, T:0.47
Consensus pattern (93 bp):
AGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAGTTAGT
ATTTGTCTTTGTTTTGTCTTTTGGTTGA
Found at i:98303 original size:189 final size:185
Alignment explanation
Indices: 97985--98363 Score: 634
Period size: 189 Copynumber: 2.0 Consensus size: 185
97975 TAGATTGCTT
*
97985 AGTAAATTTATTCGGTTACTGCCAATACTGCTAAACTGTTTATTCTTTAACATGTGAAGTTAGTA
1 AGTAAATTTATTCGGTTACTGCCAATACTGCTAAACTGTGTATTCTTTAACATGTGAAGTTAGTA
*
98050 TTTGTATTTTGTTTTGTCTTTTGGTTGAAGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAACT
66 TTTGTACTTTGTTTTGTCTTTTGGTTGAAGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAACT
*
98115 GTGTATTCTTTAACACTGTGAAGTTAGTATTTGTCTTTGTTTTGTCTTTTGGTTGAA
131 GTGTATTCTTTAACACTCTGAAGTTAGTATTTGTCTTTG-TTTGTCTTTTGGTTG-A
* * *
98172 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAAACTGTGTATTCTTTAACACTGTGAAGTTAG
1 AGTAAATTTATTCGGTTACTGCCAATACTGCT-AAACTGTGTATTCTTTAACA-TGTGAAGTTAG
*
98237 TATTTGT-CTTTGTTTTGTCTTTTGGTTGAAAGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAA
64 TATTTGTACTTTGTTTTGTCTTTTGGTTG-AAGTAAATTTATTCGGTTGCTGCCAATTCTGCTAA
*
98301 ACTGTGTATTCTTTAATACTCTGAAGTTAGTATTTGTCTTTGTTTGTCTTTTGGTTGA
128 ACTGTGTATTCTTTAACACTCTGAAGTTAGTATTTGTCTTTGTTTGTCTTTTGGTTGA
98359 AGTAA
1 AGTAA
98364 TGCAATCCAT
Statistics
Matches: 181, Mismatches: 8, Indels: 6
0.93 0.04 0.03
Matches are distributed among these distances:
187 35 0.19
188 54 0.30
189 92 0.51
ACGTcount: A:0.22, C:0.12, G:0.19, T:0.47
Consensus pattern (185 bp):
AGTAAATTTATTCGGTTACTGCCAATACTGCTAAACTGTGTATTCTTTAACATGTGAAGTTAGTA
TTTGTACTTTGTTTTGTCTTTTGGTTGAAGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAACT
GTGTATTCTTTAACACTCTGAAGTTAGTATTTGTCTTTGTTTGTCTTTTGGTTGA
Found at i:98483 original size:12 final size:12
Alignment explanation
Indices: 98466--98490 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
98456 ACGCGAAATG
98466 ATCGCAACGAGA
1 ATCGCAACGAGA
98478 ATCGCAACGAGA
1 ATCGCAACGAGA
98490 A
1 A
98491 ATGAAAATCG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.44, C:0.24, G:0.24, T:0.08
Consensus pattern (12 bp):
ATCGCAACGAGA
Found at i:98533 original size:18 final size:18
Alignment explanation
Indices: 98510--98569 Score: 67
Period size: 17 Copynumber: 3.6 Consensus size: 18
98500 GTAACGAGAG
98510 AATCGCAACGCGAACCAA
1 AATCGCAACGCGAACCAA
98528 AATCGCAA--CG-A-CAA
1 AATCGCAACGCGAACCAA
* *
98542 AATCACAATGCGAACC-A
1 AATCGCAACGCGAACCAA
98559 AATCGCAACGC
1 AATCGCAACGC
98570 AAAACTATAT
Statistics
Matches: 35, Mismatches: 3, Indels: 9
0.74 0.06 0.19
Matches are distributed among these distances:
14 10 0.29
15 1 0.03
16 4 0.11
17 11 0.31
18 9 0.26
ACGTcount: A:0.45, C:0.32, G:0.15, T:0.08
Consensus pattern (18 bp):
AATCGCAACGCGAACCAA
Found at i:98538 original size:32 final size:32
Alignment explanation
Indices: 98450--98568 Score: 104
Period size: 32 Copynumber: 3.8 Consensus size: 32
98440 AAAAATGACT
**
98450 ATCGCAACGCGAA--ATGATCGCAAC--GAGA
1 ATCGCAACGCGAACCAAAATCGCAACGAGAGA
* ** *
98478 ATCGCAACGAGAAATGAAAATCGTAACGAGAGA
1 ATCGCAACGCG-AACCAAAATCGCAACGAGAGA
* *
98511 ATCGCAACGCGAACCAAAATCGCAACGACAAA
1 ATCGCAACGCGAACCAAAATCGCAACGAGAGA
* *
98543 ATCACAATGCGAACC-AAATCGCAACG
1 ATCGCAACGCGAACCAAAATCGCAACG
98569 CAAAACTATA
Statistics
Matches: 74, Mismatches: 12, Indels: 7
0.80 0.13 0.08
Matches are distributed among these distances:
28 10 0.14
29 2 0.03
31 19 0.26
32 29 0.39
33 14 0.19
ACGTcount: A:0.45, C:0.25, G:0.20, T:0.10
Consensus pattern (32 bp):
ATCGCAACGCGAACCAAAATCGCAACGAGAGA
Found at i:98606 original size:19 final size:19
Alignment explanation
Indices: 98579--98662 Score: 61
Period size: 19 Copynumber: 4.6 Consensus size: 19
98569 CAAAACTATA
* *
98579 TCGCGTTGCGATTTTCATT
1 TCGCATTGCGATATTCATT
*
98598 TCGCATTGCG--ATTC-TC
1 TCGCATTGCGATATTCATT
* *
98614 TCG--TTGCGATAGTCAAAT
1 TCGCATTGCGATATTC-ATT
*
98632 TCGCATTGCGATAGTCATT
1 TCGCATTGCGATATTCATT
*
98651 TCGCGTTGCGAT
1 TCGCATTGCGAT
98663 TTTAAGTTTC
Statistics
Matches: 51, Mismatches: 8, Indels: 12
0.72 0.11 0.17
Matches are distributed among these distances:
14 5 0.10
16 7 0.14
17 3 0.06
18 3 0.06
19 22 0.43
20 11 0.22
ACGTcount: A:0.17, C:0.23, G:0.23, T:0.38
Consensus pattern (19 bp):
TCGCATTGCGATATTCATT
Found at i:98642 original size:20 final size:19
Alignment explanation
Indices: 98617--98662 Score: 65
Period size: 19 Copynumber: 2.4 Consensus size: 19
98607 GATTCTCTCG
98617 TTGCGATAGTCAAATTCGCA
1 TTGCGATAGTC-AATTCGCA
* *
98637 TTGCGATAGTCATTTCGCG
1 TTGCGATAGTCAATTCGCA
98656 TTGCGAT
1 TTGCGAT
98663 TTTAAGTTTC
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
19 13 0.54
20 11 0.46
ACGTcount: A:0.22, C:0.20, G:0.24, T:0.35
Consensus pattern (19 bp):
TTGCGATAGTCAATTCGCA
Found at i:99226 original size:21 final size:21
Alignment explanation
Indices: 99135--99233 Score: 76
Period size: 21 Copynumber: 4.7 Consensus size: 21
99125 GACTCACCTG
99135 TCATCGTTCAAGAGG-CA-TCC
1 TCATCGTTCAAGAGGCCACT-C
* * *
99155 CCTATCGTTCAAGAGGCCCCTA
1 TC-ATCGTTCAAGAGGCCACTC
** * *
99177 TCATCCCTCAAGAGTCCCCTC
1 TCATCGTTCAAGAGGCCACTC
* *
99198 TCACCGTTCAAGAGGCCACTG
1 TCATCGTTCAAGAGGCCACTC
*
99219 TCATCGTTGAAGAGG
1 TCATCGTTCAAGAGG
99234 TCCCTCCCAA
Statistics
Matches: 60, Mismatches: 16, Indels: 5
0.74 0.20 0.06
Matches are distributed among these distances:
20 1 0.02
21 56 0.93
22 2 0.03
23 1 0.02
ACGTcount: A:0.23, C:0.33, G:0.20, T:0.23
Consensus pattern (21 bp):
TCATCGTTCAAGAGGCCACTC
Found at i:99239 original size:42 final size:41
Alignment explanation
Indices: 99132--99239 Score: 112
Period size: 42 Copynumber: 2.6 Consensus size: 41
99122 CCCGACTCAC
* *
99132 CTGTCATCGTTCAAGAGGCATCCC-CTATCGTTCAAGAGGCCC
1 CTGTCATCGTTCAAGAGG--TCCCTCTACCGTTCAAGAGGCCA
* **
99174 CTATCATCCCTCAAGA-GTCCCCTCTCACCGTTCAAGAGGCCA
1 CTGTCATCGTTCAAGAGGT-CCCTCT-ACCGTTCAAGAGGCCA
*
99216 CTGTCATCGTTGAAGAGGTCCCTC
1 CTGTCATCGTTCAAGAGGTCCCTC
99240 CCAACATTCT
Statistics
Matches: 53, Mismatches: 9, Indels: 8
0.76 0.13 0.11
Matches are distributed among these distances:
39 1 0.02
40 3 0.06
41 3 0.06
42 44 0.83
43 2 0.04
ACGTcount: A:0.21, C:0.35, G:0.19, T:0.24
Consensus pattern (41 bp):
CTGTCATCGTTCAAGAGGTCCCTCTACCGTTCAAGAGGCCA
Found at i:100788 original size:34 final size:33
Alignment explanation
Indices: 100700--100795 Score: 138
Period size: 33 Copynumber: 2.8 Consensus size: 33
100690 AAAACATATT
* **
100700 ATCGCAACGCGGAAATGACTATCGCAACGAGAGA
1 ATCGCAATGC-GAAATGAAAATCGCAACGAGAGA
*
100734 ATCGCAATGCGAAATGAAAATCGCAACGAGTGA
1 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
100767 ATCGCAATGCGAAAATGAAAATCGCAACG
1 ATCGCAATGCG-AAATGAAAATCGCAACG
100796 CGAAACTAAT
Statistics
Matches: 57, Mismatches: 4, Indels: 2
0.90 0.06 0.03
Matches are distributed among these distances:
33 31 0.54
34 26 0.46
ACGTcount: A:0.42, C:0.21, G:0.24, T:0.14
Consensus pattern (33 bp):
ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
Found at i:100791 original size:20 final size:19
Alignment explanation
Indices: 100733--100800 Score: 74
Period size: 19 Copynumber: 3.8 Consensus size: 19
100723 GCAACGAGAG
100733 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
*
100752 AATCGCAA--CG-AGTG--
1 AATCGCAATGCGAAATGAA
100766 AATCGCAATGCGAAAATGAA
1 AATCGCAATGCG-AAATGAA
*
100786 AATCGCAACGCGAAA
1 AATCGCAATGCGAAA
100801 CTAATTTCGC
Statistics
Matches: 40, Mismatches: 3, Indels: 12
0.73 0.05 0.22
Matches are distributed among these distances:
14 8 0.20
16 5 0.12
17 2 0.05
18 3 0.08
19 11 0.28
20 11 0.28
ACGTcount: A:0.46, C:0.19, G:0.22, T:0.13
Consensus pattern (19 bp):
AATCGCAATGCGAAATGAA
Found at i:100866 original size:32 final size:34
Alignment explanation
Indices: 100810--100886 Score: 122
Period size: 33 Copynumber: 2.3 Consensus size: 34
100800 ACTAATTTCG
100810 CGTTGCGATTTTCATTTTCGCATTGCGA-TCACT
1 CGTTGCGATTTTCATTTTCGCATTGCGATTCACT
*
100843 CGTTGCGATTTTCA-TTTCGCATTGCGATTCTCT
1 CGTTGCGATTTTCATTTTCGCATTGCGATTCACT
*
100876 CATTGCGATTT
1 CGTTGCGATTT
100887 ATACAGTTAA
Statistics
Matches: 41, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
32 13 0.32
33 28 0.68
ACGTcount: A:0.14, C:0.23, G:0.18, T:0.44
Consensus pattern (34 bp):
CGTTGCGATTTTCATTTTCGCATTGCGATTCACT
Found at i:102078 original size:22 final size:21
Alignment explanation
Indices: 102044--102084 Score: 55
Period size: 22 Copynumber: 1.9 Consensus size: 21
102034 TTATTATTAT
102044 AATATATAAAAATTATAATTCA
1 AATATATAAAAA-TATAATTCA
**
102066 AATATATTTAAATATAATT
1 AATATATAAAAATATAATT
102085 ATTTTATAAT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 7 0.41
22 10 0.59
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.41
Consensus pattern (21 bp):
AATATATAAAAATATAATTCA
Found at i:102441 original size:20 final size:20
Alignment explanation
Indices: 102411--102620 Score: 150
Period size: 20 Copynumber: 10.7 Consensus size: 20
102401 GAAACCAAAA
*
102411 TCGCATTGCGATTTACGTAT
1 TCGCGTTGCGATTTACGTAT
*
102431 TCTCGTTGCGATTTACAG-AT
1 TCGCGTTGCGATTTAC-GTAT
*
102451 ACGCGTTGCGATTTACGTAT
1 TCGCGTTGCGATTTACGTAT
* *
102471 TCTCGTTGCGATTTACGGAT
1 TCGCGTTGCGATTTACGTAT
*
102491 ACGCGTTGCGATTTTACGTAT
1 TCGCGTTGCGA-TTTACGTAT
*
102512 T-GTGTTGCGATTTA-G-AT
1 TCGCGTTGCGATTTACGTAT
* *
102529 ACGCGTTGCGATTTTACGGAT
1 TCGCGTTGCGA-TTTACGTAT
* * * * *
102550 ACTCATTGCGATAGT-CAG-AA
1 TCGCGTTGCGAT-TTAC-GTAT
102570 TCGCGTTGCGATTTA--TAT
1 TCGCGTTGCGATTTACGTAT
* * *
102588 GT-TCGTTGCGATTTTCATAT
1 -TCGCGTTGCGATTTACGTAT
102608 TCGCGTTGCGATT
1 TCGCGTTGCGATT
102621 CTGAAAAATC
Statistics
Matches: 149, Mismatches: 26, Indels: 30
0.73 0.13 0.15
Matches are distributed among these distances:
17 2 0.01
18 21 0.14
19 12 0.08
20 92 0.62
21 22 0.15
ACGTcount: A:0.19, C:0.18, G:0.24, T:0.39
Consensus pattern (20 bp):
TCGCGTTGCGATTTACGTAT
Found at i:102460 original size:40 final size:39
Alignment explanation
Indices: 102416--102620 Score: 224
Period size: 40 Copynumber: 5.2 Consensus size: 39
102406 CAAAATCGCA
102416 TTGCGATTTACGTATTCTCGTTGCGATTTACAGATACGCG
1 TTGCGATTTACGTATTCTCGTTGCGATTT-CAGATACGCG
*
102456 TTGCGATTTACGTATTCTCGTTGCGATTTACGGATACGCG
1 TTGCGATTTACGTATTCTCGTTGCGATTT-CAGATACGCG
*
102496 TTGCGATTTTACGTATTGT-GTTGCGATTT-AGATACGCG
1 TTGCGA-TTTACGTATTCTCGTTGCGATTTCAGATACGCG
* * * *
102534 TTGCGATTTTACGGATACTCATTGCGATAGTCAGA-ATCGCG
1 TTGCGA-TTTACGTATTCTCGTTGCGAT-TTCAGATA-CGCG
* *
102575 TTGCGATTTA--TATGT-TCGTTGCGATTTTCATATTCGCG
1 TTGCGATTTACGTAT-TCTCGTTGCGA-TTTCAGATACGCG
102613 TTGCGATT
1 TTGCGATT
102621 CTGAAAAATC
Statistics
Matches: 143, Mismatches: 14, Indels: 18
0.82 0.08 0.10
Matches are distributed among these distances:
38 50 0.35
39 8 0.06
40 61 0.43
41 24 0.17
ACGTcount: A:0.19, C:0.18, G:0.24, T:0.40
Consensus pattern (39 bp):
TTGCGATTTACGTATTCTCGTTGCGATTTCAGATACGCG
Found at i:102578 original size:59 final size:59
Alignment explanation
Indices: 102452--102602 Score: 153
Period size: 59 Copynumber: 2.5 Consensus size: 59
102442 TTTACAGATA
* * * * *
102452 CGCGTTGCGATTTACGTATTCTCGTTGCGA-TTTACGGATACGCGTTGCGATTTTACGTAT
1 CGCGTTGCGATTTA-G-ATACTCGTTGCGATTTTACGGATACGCATTGCGATGTCACGAAT
* * * *
102512 TGTGTTGCGATTTAGATACGCGTTGCGATTTTACGGATACTCATTGCGATAGTCA-GAAT
1 CGCGTTGCGATTTAGATACTCGTTGCGATTTTACGGATACGCATTGCGAT-GTCACGAAT
* **
102571 CGCGTTGCGATTTATATGTTCGTTGCGATTTT
1 CGCGTTGCGATTTAGATACTCGTTGCGATTTT
102603 CATATTCGCG
Statistics
Matches: 74, Mismatches: 15, Indels: 5
0.79 0.16 0.05
Matches are distributed among these distances:
58 11 0.15
59 49 0.66
60 14 0.19
ACGTcount: A:0.19, C:0.17, G:0.25, T:0.39
Consensus pattern (59 bp):
CGCGTTGCGATTTAGATACTCGTTGCGATTTTACGGATACGCATTGCGATGTCACGAAT
Found at i:102610 original size:18 final size:19
Alignment explanation
Indices: 102573--102620 Score: 55
Period size: 18 Copynumber: 2.5 Consensus size: 19
102563 GTCAGAATCG
*
102573 CGTTGCGATTTATATGTT-
1 CGTTGCGATTTATATATTC
102591 CGTTGCGATTT-TCATATTC
1 CGTTGCGATTTAT-ATATTC
102610 GCGTTGCGATT
1 -CGTTGCGATT
102621 CTGAAAAATC
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
17 1 0.04
18 15 0.58
20 10 0.38
ACGTcount: A:0.15, C:0.17, G:0.23, T:0.46
Consensus pattern (19 bp):
CGTTGCGATTTATATATTC
Found at i:102613 original size:79 final size:79
Alignment explanation
Indices: 102409--102620 Score: 222
Period size: 79 Copynumber: 2.7 Consensus size: 79
102399 GCGAAACCAA
* * * *
102409 AATCGCATTGCGATTTACGTATTCTCGTTGCGATTTACAGATACGCGTTGCGA-TTTACGTATTC
1 AATCGCGTTGCGATTTAC-TATTCTCGTTGCGATTTTCAGATACGCGTTGCGATTTTACGGATAC
* *
102473 TCGTTGCGATTTACG
65 TCATTGCGATTCACG
* *
102488 GATACGCGTTGCGATTTTACGTATTGT-GTTGCGA-TTT-AGATACGCGTTGCGATTTTACGGAT
1 AAT-CGCGTTGCGA-TTTAC-TATTCTCGTTGCGATTTTCAGATACGCGTTGCGATTTTACGGAT
102550 ACTCATTGCGATAGTCA-G
63 ACTCATTGCGAT--TCACG
* *
102568 AATCGCGTTGCGATTTA-TATGT-TCGTTGCGATTTTCATATTCGCGTTGCGATT
1 AATCGCGTTGCGATTTACTAT-TCTCGTTGCGATTTTCAGATACGCGTTGCGATT
102621 CTGAAAAATC
Statistics
Matches: 113, Mismatches: 11, Indels: 18
0.80 0.08 0.13
Matches are distributed among these distances:
76 4 0.04
77 8 0.07
78 22 0.19
79 47 0.42
80 19 0.17
81 13 0.12
ACGTcount: A:0.20, C:0.18, G:0.24, T:0.39
Consensus pattern (79 bp):
AATCGCGTTGCGATTTACTATTCTCGTTGCGATTTTCAGATACGCGTTGCGATTTTACGGATACT
CATTGCGATTCACG
Done.