Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01005853.1 Hibiscus syriacus cultivar Beakdansim tig00013738_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: 876857
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 1 of 5
Found at i:7308 original size:24 final size:24
Alignment explanation
Indices: 7251--7308 Score: 72
Period size: 19 Copynumber: 2.6 Consensus size: 24
7241 TTTTAAACGG
7251 GTGCATCGATGCACTCCTTATGCA
1 GTGCATCGATGCACTCCTTATGCA
*
7275 -T---T-GATACACTCCTTATGCA
1 GTGCATCGATGCACTCCTTATGCA
7294 GTGCATCGATGCACT
1 GTGCATCGATGCACT
7309 ATTGGCATTC
Statistics
Matches: 27, Mismatches: 2, Indels: 10
0.69 0.05 0.26
Matches are distributed among these distances:
19 16 0.59
20 2 0.07
23 2 0.07
24 7 0.26
ACGTcount: A:0.22, C:0.28, G:0.19, T:0.31
Consensus pattern (24 bp):
GTGCATCGATGCACTCCTTATGCA
Found at i:10674 original size:23 final size:23
Alignment explanation
Indices: 10654--10698 Score: 81
Period size: 23 Copynumber: 2.0 Consensus size: 23
10644 ACCTAAGTTC
10654 CACGTAGAATTGCACCGAAGTGT
1 CACGTAGAATTGCACCGAAGTGT
*
10677 CGCGTAGAATTGCACCGAAGTG
1 CACGTAGAATTGCACCGAAGTG
10699 CCATATAAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.29, C:0.22, G:0.29, T:0.20
Consensus pattern (23 bp):
CACGTAGAATTGCACCGAAGTGT
Found at i:13199 original size:65 final size:65
Alignment explanation
Indices: 13109--13242 Score: 207
Period size: 65 Copynumber: 2.1 Consensus size: 65
13099 ACACTAATTA
13109 CATTCGATGTTTCAAAAGAGCCAAGAGTGCATCGATGCATAG-TATGTGCATCGGTACACAAAAG
1 CATTCGATGTTTCAAAAGAGCCAAGAGTGCATCGATGCATAGCT-TGTGCATCGGTACACAAAAG
13173 G
65 G
* ** * *
13174 CATTCGATGTTTCAAAATATTCAAGAGTGCATCGATGCATGGCTTGTGCATCGGTACACAAAATG
1 CATTCGATGTTTCAAAAGAGCCAAGAGTGCATCGATGCATAGCTTGTGCATCGGTACACAAAAGG
13239 CATT
1 CATT
13243 TGAAATGGGT
Statistics
Matches: 63, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
65 62 0.98
66 1 0.02
ACGTcount: A:0.32, C:0.19, G:0.22, T:0.27
Consensus pattern (65 bp):
CATTCGATGTTTCAAAAGAGCCAAGAGTGCATCGATGCATAGCTTGTGCATCGGTACACAAAAGG
Found at i:15921 original size:23 final size:21
Alignment explanation
Indices: 15893--15958 Score: 60
Period size: 21 Copynumber: 3.0 Consensus size: 21
15883 GCATAGCATA
15893 GTGCATCAATGCACATTCAAG
1 GTGCATCAATGCACATTCAAG
*** * *
15914 GAATGCATTGGTGCACTTTCATG
1 G--TGCATCAATGCACATTCAAG
*
15937 GTGTATCAATGCACATTCAAG
1 GTGCATCAATGCACATTCAAG
15958 G
1 G
15959 GATACATCGG
Statistics
Matches: 32, Mismatches: 11, Indels: 4
0.68 0.23 0.09
Matches are distributed among these distances:
21 16 0.50
23 16 0.50
ACGTcount: A:0.29, C:0.20, G:0.23, T:0.29
Consensus pattern (21 bp):
GTGCATCAATGCACATTCAAG
Found at i:23408 original size:65 final size:65
Alignment explanation
Indices: 23339--23495 Score: 174
Period size: 65 Copynumber: 2.4 Consensus size: 65
23329 TACACTAGGG
** * *
23339 GTGCATCGGTACATTAATTACATTTGATGTTTCAAAAGAGCC-AGAAGTGCATCAATGCATGG-T
1 GTGCATCGGTACACAAAATACATTCGATGTTTCAAAAGAGCCAAG-AGTGCATCAATGCATGGCT
23402 CT
65 -T
* * ** *
23404 GTGCATCGGTACACAAAATGCATTCGATGTTTCAAAATATTCAAGAGTGCATCGATGCATGGCTT
1 GTGCATCGGTACACAAAATACATTCGATGTTTCAAAAGAGCCAAGAGTGCATCAATGCATGGCTT
* * *
23469 ATGCATCGGTACTCAAAATGCATTCGA
1 GTGCATCGGTACACAAAATACATTCGA
23496 AATGGGTGTG
Statistics
Matches: 79, Mismatches: 11, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
65 76 0.96
66 3 0.04
ACGTcount: A:0.31, C:0.18, G:0.21, T:0.29
Consensus pattern (65 bp):
GTGCATCGGTACACAAAATACATTCGATGTTTCAAAAGAGCCAAGAGTGCATCAATGCATGGCTT
Found at i:26606 original size:35 final size:35
Alignment explanation
Indices: 26567--26642 Score: 116
Period size: 35 Copynumber: 2.2 Consensus size: 35
26557 AAAAAAGTCC
* *
26567 TCAATTTCATTATAAACCCCAATTTCCAAAGTAAT
1 TCAATTTCATTATAAACCCCAAATTCCAAAATAAT
* *
26602 TCAATTTCATTCTAAACCCTAAATTCCAAAATAAT
1 TCAATTTCATTATAAACCCCAAATTCCAAAATAAT
26637 TCAATT
1 TCAATT
26643 AAATTCAATT
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
35 37 1.00
ACGTcount: A:0.41, C:0.22, G:0.01, T:0.36
Consensus pattern (35 bp):
TCAATTTCATTATAAACCCCAAATTCCAAAATAAT
Found at i:27192 original size:130 final size:130
Alignment explanation
Indices: 27039--27286 Score: 415
Period size: 130 Copynumber: 1.9 Consensus size: 130
27029 TATTTATATA
* **
27039 ATCAATTTGGTCCTAAATTAAATAGAATTTAATAAATTAATCATTTAATTAGGATCTGACATGTG
1 ATCAATTTGGTCCTAAATTAAATAAAATTTAATAAATTAATCATTTAACCAGGATCTGACATGTG
* * *
27104 TTAGCACATGATCATGACACGTGTCATTGGTGACACATGTCACCATCTAATTATTTATATATGCT
66 TTAACACATGATCATGACACATGTCATTGGTGACACATGTCACCACCTAATTATTTATATATGCT
27169 ATCAATTTGGTCCTAAATTAAATAAAATTTAATAAATTAATCATTTAACCAGGATCTGACATGTG
1 ATCAATTTGGTCCTAAATTAAATAAAATTTAATAAATTAATCATTTAACCAGGATCTGACATGTG
* * *
27234 TTAACACATGATCATGATATATGTTATTGGTGACACATGTCACCACCTAATTA
66 TTAACACATGATCATGACACATGTCATTGGTGACACATGTCACCACCTAATTA
27287 GAAGAAAATT
Statistics
Matches: 109, Mismatches: 9, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
130 109 1.00
ACGTcount: A:0.36, C:0.15, G:0.13, T:0.36
Consensus pattern (130 bp):
ATCAATTTGGTCCTAAATTAAATAAAATTTAATAAATTAATCATTTAACCAGGATCTGACATGTG
TTAACACATGATCATGACACATGTCATTGGTGACACATGTCACCACCTAATTATTTATATATGCT
Found at i:27643 original size:28 final size:27
Alignment explanation
Indices: 27612--27674 Score: 72
Period size: 28 Copynumber: 2.3 Consensus size: 27
27602 AGTTGATACA
*
27612 ATATTTTAAAAGAATAAATTTAATATTT
1 ATATTTTAAAA-AATAAATTTAATAATT
** *
27640 ATATATTTTTAAACTAAATTTAATAATT
1 ATAT-TTTAAAAAATAAATTTAATAATT
27668 ATATTTT
1 ATATTTT
27675 TCATATTTAT
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
27 3 0.10
28 22 0.73
29 5 0.17
ACGTcount: A:0.46, C:0.02, G:0.02, T:0.51
Consensus pattern (27 bp):
ATATTTTAAAAAATAAATTTAATAATT
Found at i:27775 original size:16 final size:18
Alignment explanation
Indices: 27754--27787 Score: 54
Period size: 16 Copynumber: 2.0 Consensus size: 18
27744 ATTTCTTATT
27754 AAAAATA-AAAT-ATTCA
1 AAAAATATAAATGATTCA
27770 AAAAATATAAATGATTCA
1 AAAAATATAAATGATTCA
27788 TACATTAATA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 7 0.44
17 4 0.25
18 5 0.31
ACGTcount: A:0.65, C:0.06, G:0.03, T:0.26
Consensus pattern (18 bp):
AAAAATATAAATGATTCA
Found at i:28336 original size:12 final size:12
Alignment explanation
Indices: 28319--28343 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
28309 CCATCTTCCA
28319 TTCTTCCTTAGC
1 TTCTTCCTTAGC
28331 TTCTTCCTTAGC
1 TTCTTCCTTAGC
28343 T
1 T
28344 GTAACTCCAT
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:0.08, C:0.32, G:0.08, T:0.52
Consensus pattern (12 bp):
TTCTTCCTTAGC
Found at i:29311 original size:20 final size:21
Alignment explanation
Indices: 29276--29314 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
29266 ATTAAAGCAG
29276 ACTAAAACTAATAATTTAGAC
1 ACTAAAACTAATAATTTAGAC
*
29297 ACTAAAAGT-ATAATTTAG
1 ACTAAAACTAATAATTTAG
29315 CCAAATAATT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 9 0.53
21 8 0.47
ACGTcount: A:0.51, C:0.10, G:0.08, T:0.31
Consensus pattern (21 bp):
ACTAAAACTAATAATTTAGAC
Found at i:32103 original size:18 final size:17
Alignment explanation
Indices: 32055--32104 Score: 55
Period size: 20 Copynumber: 2.7 Consensus size: 17
32045 TATCTATTGT
*
32055 GTTTATTTATATTTGTTC
1 GTTTATTTAT-TTCGTTC
32073 GTTTATATTTATTTACGTTC
1 G-TT-TATTTATTT-CGTTC
32093 GTTTATTTATTT
1 GTTTATTTATTT
32105 TTCAGATCAA
Statistics
Matches: 28, Mismatches: 1, Indels: 6
0.80 0.03 0.17
Matches are distributed among these distances:
18 10 0.36
19 6 0.21
20 12 0.43
ACGTcount: A:0.18, C:0.06, G:0.10, T:0.66
Consensus pattern (17 bp):
GTTTATTTATTTCGTTC
Found at i:34911 original size:15 final size:15
Alignment explanation
Indices: 34878--34911 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
34868 ACGAGCTACC
* *
34878 ACTGTGTTAGTCGCT
1 ACTGTGTTAGCCGCA
34893 ACTGTGTTAGCCGCA
1 ACTGTGTTAGCCGCA
34908 ACTG
1 ACTG
34912 ATTGACGTCG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.18, C:0.24, G:0.26, T:0.32
Consensus pattern (15 bp):
ACTGTGTTAGCCGCA
Found at i:35433 original size:18 final size:18
Alignment explanation
Indices: 35410--35459 Score: 91
Period size: 18 Copynumber: 2.8 Consensus size: 18
35400 TTTACTCGTA
*
35410 ATTTCACTTAGATTAGCC
1 ATTTCACTTAGATTAACC
35428 ATTTCACTTAGATTAACC
1 ATTTCACTTAGATTAACC
35446 ATTTCACTTAGATT
1 ATTTCACTTAGATT
35460 GCTTAGTAAA
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
18 31 1.00
ACGTcount: A:0.30, C:0.20, G:0.08, T:0.42
Consensus pattern (18 bp):
ATTTCACTTAGATTAACC
Found at i:35636 original size:20 final size:20
Alignment explanation
Indices: 35611--35674 Score: 92
Period size: 20 Copynumber: 3.2 Consensus size: 20
35601 TTACTTTCAT
35611 AACGCGAAAATGACTATCGC
1 AACGCGAAAATGACTATCGC
* *
35631 AACGCGAAAATGAGTATCAC
1 AACGCGAAAATGACTATCGC
**
35651 AACGCGAATTTGACTATCGC
1 AACGCGAAAATGACTATCGC
35671 AACG
1 AACG
35675 AAAGAATCGC
Statistics
Matches: 38, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 38 1.00
ACGTcount: A:0.39, C:0.23, G:0.20, T:0.17
Consensus pattern (20 bp):
AACGCGAAAATGACTATCGC
Found at i:35742 original size:20 final size:19
Alignment explanation
Indices: 35717--35783 Score: 91
Period size: 20 Copynumber: 3.5 Consensus size: 19
35707 GCGATTGTCT
35717 CGTTGCGATAGTCAAATTCG
1 CGTTGCGATAGTC-AATTCG
*
35737 CGTTGCGATAGTCATTTTCG
1 CGTTGCGATAGTCA-ATTCG
35757 CGTTGCGATAGTC-ATTCG
1 CGTTGCGATAGTCAATTCG
*
35775 TGTTGCGAT
1 CGTTGCGAT
35784 TTTAAGTTTC
Statistics
Matches: 43, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
18 12 0.28
19 1 0.02
20 30 0.70
ACGTcount: A:0.18, C:0.19, G:0.27, T:0.36
Consensus pattern (19 bp):
CGTTGCGATAGTCAATTCG
Found at i:36358 original size:21 final size:21
Alignment explanation
Indices: 36267--36365 Score: 92
Period size: 21 Copynumber: 4.7 Consensus size: 21
36257 GACTCACCTG
*
36267 TCATCGTTCAAGAGGCCTCCCC
1 TCATCGTTCAAGAGGCC-CCTC
*
36289 T-ATCGTTCAAGAGGCCCCTA
1 TCATCGTTCAAGAGGCCCCTC
** *
36309 TCATCCCTCAAGAGTCCCCTC
1 TCATCGTTCAAGAGGCCCCTC
* * * *
36330 CCACCGTTCAAGAGGCCACTG
1 TCATCGTTCAAGAGGCCCCTC
*
36351 TCATCGTTGAAGAGG
1 TCATCGTTCAAGAGG
36366 TCTCTCCCAA
Statistics
Matches: 60, Mismatches: 16, Indels: 3
0.76 0.20 0.04
Matches are distributed among these distances:
20 3 0.05
21 56 0.93
22 1 0.02
ACGTcount: A:0.22, C:0.35, G:0.20, T:0.22
Consensus pattern (21 bp):
TCATCGTTCAAGAGGCCCCTC
Found at i:36364 original size:42 final size:42
Alignment explanation
Indices: 36264--36374 Score: 116
Period size: 42 Copynumber: 2.6 Consensus size: 42
36254 CTCGACTCAC
* * *
36264 CTGTCATCGTTCAAGAGGCCTCCCCTATCGTTCAAGAGGCCC
1 CTGTCATCGTTCAAGAGGCCTCCCCCACCGTTCAAGAGGCCA
* ** *
36306 CTATCATCCCTCAAGAGTCC-CCTCCCACCGTTCAAGAGGCCA
1 CTGTCATCGTTCAAGAGGCCTCC-CCCACCGTTCAAGAGGCCA
* * *
36348 CTGTCATCGTTGAAGAGGTCTCTCCCA
1 CTGTCATCGTTCAAGAGGCCTCCCCCA
36375 ATATTCTAGA
Statistics
Matches: 53, Mismatches: 14, Indels: 4
0.75 0.20 0.06
Matches are distributed among these distances:
41 2 0.04
42 50 0.94
43 1 0.02
ACGTcount: A:0.21, C:0.37, G:0.19, T:0.23
Consensus pattern (42 bp):
CTGTCATCGTTCAAGAGGCCTCCCCCACCGTTCAAGAGGCCA
Found at i:37190 original size:20 final size:20
Alignment explanation
Indices: 37165--37264 Score: 137
Period size: 20 Copynumber: 5.0 Consensus size: 20
37155 GTGGTTCGAC
37165 AGTCAGAATCGCGTTGCGAT
1 AGTCAGAATCGCGTTGCGAT
*
37185 AGTCAGAATCTCGTTGCGAT
1 AGTCAGAATCGCGTTGCGAT
* * *
37205 AATCAAAATCGCGTTGCAAT
1 AGTCAGAATCGCGTTGCGAT
*
37225 AGTCAGAATCGCATTGCGAT
1 AGTCAGAATCGCGTTGCGAT
* *
37245 AGTCATAATCGCATTGCGAT
1 AGTCAGAATCGCGTTGCGAT
37265 TTACATATTC
Statistics
Matches: 70, Mismatches: 10, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 70 1.00
ACGTcount: A:0.30, C:0.20, G:0.23, T:0.27
Consensus pattern (20 bp):
AGTCAGAATCGCGTTGCGAT
Found at i:37271 original size:20 final size:20
Alignment explanation
Indices: 37165--37283 Score: 114
Period size: 20 Copynumber: 6.0 Consensus size: 20
37155 GTGGTTCGAC
* *
37165 AGTCAGAATCGCGTTGCGAT
1 AGTCATAATCGCATTGCGAT
* * *
37185 AGTCAGAATCTCGTTGCGAT
1 AGTCATAATCGCATTGCGAT
* * * *
37205 AATCAAAATCGCGTTGCAAT
1 AGTCATAATCGCATTGCGAT
*
37225 AGTCAGAATCGCATTGCGAT
1 AGTCATAATCGCATTGCGAT
37245 AGTCATAATCGCATTGCGAT
1 AGTCATAATCGCATTGCGAT
* *
37265 -TTACATATTCGCATTGCGA
1 AGT-CATAATCGCATTGCGA
37284 ATTCGAAAAA
Statistics
Matches: 86, Mismatches: 12, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
19 1 0.01
20 85 0.99
ACGTcount: A:0.29, C:0.20, G:0.22, T:0.29
Consensus pattern (20 bp):
AGTCATAATCGCATTGCGAT
Found at i:37304 original size:21 final size:21
Alignment explanation
Indices: 37280--37326 Score: 67
Period size: 21 Copynumber: 2.2 Consensus size: 21
37270 TATTCGCATT
37280 GCGAATTCGAAAAATCGCAAC
1 GCGAATTCGAAAAATCGCAAC
* * *
37301 GCGAATTTGGAAAATCGCAAT
1 GCGAATTCGAAAAATCGCAAC
37322 GCGAA
1 GCGAA
37327 AGTCAGAATC
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.40, C:0.19, G:0.23, T:0.17
Consensus pattern (21 bp):
GCGAATTCGAAAAATCGCAAC
Found at i:37880 original size:3 final size:3
Alignment explanation
Indices: 37872--37931 Score: 120
Period size: 3 Copynumber: 20.0 Consensus size: 3
37862 AAAATATGTA
37872 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
37920 AAT AAT AAT AAT
1 AAT AAT AAT AAT
37932 TAAATAAGAC
Statistics
Matches: 57, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 57 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:43975 original size:6 final size:6
Alignment explanation
Indices: 43964--43988 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
43954 TGAGGGGGAT
43964 GGAGAG GGAGAG GGAGAG GGAGAG G
1 GGAGAG GGAGAG GGAGAG GGAGAG G
43989 CCCCATAAAC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.32, C:0.00, G:0.68, T:0.00
Consensus pattern (6 bp):
GGAGAG
Found at i:51513 original size:21 final size:21
Alignment explanation
Indices: 51457--51513 Score: 60
Period size: 21 Copynumber: 2.7 Consensus size: 21
51447 GATCCCTTAC
*
51457 AAAAAAGAATCGATCCCTTTG
1 AAAAAAGAATCGATCCCCTTG
** * *
51478 ACTAATGAATAGATCCCCTTG
1 AAAAAAGAATCGATCCCCTTG
*
51499 AAAAAAGGATCGATC
1 AAAAAAGAATCGATC
51514 TCTTGGATTC
Statistics
Matches: 26, Mismatches: 10, Indels: 0
0.72 0.28 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.42, C:0.19, G:0.16, T:0.23
Consensus pattern (21 bp):
AAAAAAGAATCGATCCCCTTG
Found at i:51581 original size:21 final size:21
Alignment explanation
Indices: 51535--51607 Score: 64
Period size: 21 Copynumber: 3.5 Consensus size: 21
51525 AGTAGGTTTG
51535 GGATCGATCCCTTTACAAAAAT
1 GGATCGATCCCTTTAC-AAAAT
*
51557 -GATCGATCCCTTTGAC-CAAT
1 GGATCGATCCCTTT-ACAAAAT
*
51577 GGATCGATCTCCTTGA-AAAAT
1 GGATCGATC-CCTTTACAAAAT
*
51598 -GATTGATCCC
1 GGATCGATCCC
51608 ATAGATTCCA
Statistics
Matches: 43, Mismatches: 4, Indels: 11
0.74 0.07 0.19
Matches are distributed among these distances:
19 2 0.05
20 10 0.23
21 25 0.58
22 6 0.14
ACGTcount: A:0.30, C:0.25, G:0.16, T:0.29
Consensus pattern (21 bp):
GGATCGATCCCTTTACAAAAT
Found at i:51640 original size:92 final size:92
Alignment explanation
Indices: 51442--51658 Score: 276
Period size: 92 Copynumber: 2.3 Consensus size: 92
51432 CTGGCTCAAA
* *
51442 GGATTGATCCC-TTACAAAAAAGAATCGATCCCTTTGACTAATGAATAGATCCCCTTGAAAAAAG
1 GGATCGATCCCTTTAC-AAAAAG-ATCGATCCCTTTGACCAATGAATAGATCCCCTTGAAAAAAG
* * * * *
51506 GATCGATCTCTTGGATTCTAGTAGGTTTG
64 GATCGATCCCATAGATTCCAATAGGTTTG
* * * *
51535 GGATCGATCCCTTTACAAAAATGATCGATCCCTTTGACCAATGGATCGATCTCCTTG-AAAAATG
1 GGATCGATCCCTTTACAAAAA-GATCGATCCCTTTGACCAATGAATAGATCCCCTTGAAAAAAGG
*
51599 ATTGATCCCATAGATTCCAATAGGTTTG
65 ATCGATCCCATAGATTCCAATAGGTTTG
*
51627 GGATCGATCCCTTTACAAAAAGATCTATCCCT
1 GGATCGATCCCTTTACAAAAAGATCGATCCCT
51659 CGAGTAAAAT
Statistics
Matches: 109, Mismatches: 13, Indels: 6
0.85 0.10 0.05
Matches are distributed among these distances:
91 10 0.09
92 49 0.45
93 45 0.41
94 5 0.05
ACGTcount: A:0.31, C:0.21, G:0.18, T:0.30
Consensus pattern (92 bp):
GGATCGATCCCTTTACAAAAAGATCGATCCCTTTGACCAATGAATAGATCCCCTTGAAAAAAGGA
TCGATCCCATAGATTCCAATAGGTTTG
Found at i:52821 original size:20 final size:21
Alignment explanation
Indices: 52772--52818 Score: 94
Period size: 21 Copynumber: 2.2 Consensus size: 21
52762 CCGTTAAACA
52772 GGGGGGAATCGGTACCCCCTT
1 GGGGGGAATCGGTACCCCCTT
52793 GGGGGGAATCGGTACCCCCTT
1 GGGGGGAATCGGTACCCCCTT
52814 GGGGG
1 GGGGG
52819 AATTGGTTCC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.13, C:0.26, G:0.45, T:0.17
Consensus pattern (21 bp):
GGGGGGAATCGGTACCCCCTT
Found at i:53569 original size:17 final size:17
Alignment explanation
Indices: 53516--53581 Score: 59
Period size: 16 Copynumber: 4.1 Consensus size: 17
53506 GAAATATAAG
*
53516 TTCAAAC-ATCCATAAA
1 TTCAAACAATCCACAAA
*
53532 TTCAAACAAAT--TCAAA
1 TTCAAAC-AATCCACAAA
*
53548 GTCAAACAATCCACAAA
1 TTCAAACAATCCACAAA
*
53565 TTCAAACATTCCA-AAA
1 TTCAAACAATCCACAAA
53581 T
1 T
53582 ATCCAAAATG
Statistics
Matches: 40, Mismatches: 6, Indels: 8
0.74 0.11 0.15
Matches are distributed among these distances:
15 3 0.08
16 20 0.50
17 15 0.38
18 2 0.05
ACGTcount: A:0.52, C:0.24, G:0.02, T:0.23
Consensus pattern (17 bp):
TTCAAACAATCCACAAA
Found at i:55488 original size:21 final size:22
Alignment explanation
Indices: 55458--55516 Score: 84
Period size: 21 Copynumber: 2.7 Consensus size: 22
55448 AGAACCTCAG
55458 GGGGGTATCGATTCCCCTAC-A
1 GGGGGTATCGATTCCCCTACAA
* * *
55479 GGGGGAATCGGTTCCCCTTCAA
1 GGGGGTATCGATTCCCCTACAA
55501 GGGGGTATCGATTCCC
1 GGGGGTATCGATTCCC
55517 TCTGCACTAA
Statistics
Matches: 32, Mismatches: 5, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
21 17 0.53
22 15 0.47
ACGTcount: A:0.17, C:0.27, G:0.32, T:0.24
Consensus pattern (22 bp):
GGGGGTATCGATTCCCCTACAA
Found at i:59229 original size:22 final size:21
Alignment explanation
Indices: 59187--59226 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
59177 GAGTTTATTT
*
59187 TCATTTTTCAATTTTGAAACA
1 TCATTTTTCAATTTTAAAACA
59208 TCATTTTT-ATATTTTAAAA
1 TCATTTTTCA-ATTTTAAAA
59227 ACAATTTCTC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 1 0.06
21 16 0.94
ACGTcount: A:0.35, C:0.10, G:0.03, T:0.53
Consensus pattern (21 bp):
TCATTTTTCAATTTTAAAACA
Found at i:61103 original size:20 final size:20
Alignment explanation
Indices: 61078--61152 Score: 132
Period size: 20 Copynumber: 3.8 Consensus size: 20
61068 TGGAGCGTGG
*
61078 GGGGAATCGGTACCCCTCAT
1 GGGGAATCGGTTCCCCTCAT
61098 GGGGAATCGGTTCCCCTCAT
1 GGGGAATCGGTTCCCCTCAT
61118 GGGGAATCGGTTCCCCTCAT
1 GGGGAATCGGTTCCCCTCAT
*
61138 AGGGAATCGGTTCCC
1 GGGGAATCGGTTCCC
61153 TAAGTGTAAA
Statistics
Matches: 53, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 53 1.00
ACGTcount: A:0.17, C:0.29, G:0.31, T:0.23
Consensus pattern (20 bp):
GGGGAATCGGTTCCCCTCAT
Found at i:62368 original size:19 final size:18
Alignment explanation
Indices: 62344--62390 Score: 60
Period size: 18 Copynumber: 2.6 Consensus size: 18
62334 AATGATTTTC
*
62344 TTTTGAAAGCAAAAAT-AGA
1 TTTTGAAA--AAAAATGAAA
62363 TTTTGAAAAAAAATGAAA
1 TTTTGAAAAAAAATGAAA
62381 TTTTGAAAAA
1 TTTTGAAAAA
62391 TGATTTTGAT
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
17 6 0.23
18 12 0.46
19 8 0.31
ACGTcount: A:0.55, C:0.02, G:0.13, T:0.30
Consensus pattern (18 bp):
TTTTGAAAAAAAATGAAA
Found at i:63369 original size:22 final size:22
Alignment explanation
Indices: 63330--63371 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
63320 CAATTTTCTA
*
63330 AAAAAAGGATCGGCCCCTTTGC
1 AAAAAAGGATCGACCCCTTTGC
*
63352 AAAAAAGGATCGATCCCTTT
1 AAAAAAGGATCGACCCCTTT
63372 AGGCCAAAAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.36, C:0.24, G:0.19, T:0.21
Consensus pattern (22 bp):
AAAAAAGGATCGACCCCTTTGC
Found at i:64970 original size:10 final size:10
Alignment explanation
Indices: 64955--64979 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
64945 GCTCGTATGA
64955 TCGAGGAGGT
1 TCGAGGAGGT
64965 TCGAGGAGGT
1 TCGAGGAGGT
64975 TCGAG
1 TCGAG
64980 CAATTCAACG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.20, C:0.12, G:0.48, T:0.20
Consensus pattern (10 bp):
TCGAGGAGGT
Found at i:67182 original size:2 final size:2
Alignment explanation
Indices: 67175--67202 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
67165 TCAGTCTAAC
67175 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
67203 TCATTTTATT
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):
AT
Found at i:67562 original size:23 final size:20
Alignment explanation
Indices: 67518--67568 Score: 68
Period size: 20 Copynumber: 2.5 Consensus size: 20
67508 GTTTTATATT
67518 TTTATTT-TTATTATTATAA
1 TTTATTTATTATTATTATAA
67537 TTTATTTATTATTATTAATAA
1 TTTATTTATTATTATT-ATAA
*
67558 TATTTTTTATT
1 T-TTATTTATT
67569 TTTTTTGCAG
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
19 7 0.25
20 8 0.29
21 5 0.18
22 8 0.29
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (20 bp):
TTTATTTATTATTATTATAA
Found at i:73051 original size:106 final size:106
Alignment explanation
Indices: 72886--74372 Score: 2359
Period size: 106 Copynumber: 14.0 Consensus size: 106
72876 TCCAATTTCA
* * * * *
72886 TTCAGAGTCTATTTCAACTTCGCAGCGAAGAAAATTGGACTCCAGACAACGCAAGTTCAACTTCA
1 TTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCA
* * * *
72951 CGACGAAGGGACCGCTGGTTGTCAATAAACAA-TTTTCCAC
66 CGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCTCAAT
* * *
72991 TTCTAGAGCCAATTTCAACTTCACAGCGAAGGATAGTGGACTCCAGACAACACAACTTCAACTTC
1 TTC-AGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTC
73056 ACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCTCAAT
65 ACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCTCAAT
* * **
73098 TTCAGATCCAATTTCAACTTCACAACGAACTATATTGGACTCCAGACAACGCAAGTTCAACTTCA
1 TTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCA
* * *
73163 CGACGAAGGGACCGCTGGTTGTCAATAAATAACTTCCCAAT
66 CGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCTCAAT
*
73204 TTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCATGTTCAACTTCA
1 TTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCA
* *
73269 CGACGAAGGGACCGCTGGTTGTCAACAAATAACATCTCAAT
66 CGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCTCAAT
* *
73310 TTCAGAGCCAATTTCAACTTCATAGCGAAGGATATTGGACTCTAGACAACGCAAGTTCAACTTCA
1 TTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCA
*
73375 TGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCTCAAT
66 CGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCTCAAT
* * *
73416 TTCAGAGCCAATTTCAACTTCACAACGAAAGATATTAGACTCCAGACAACGCAAGTTCAACTTCA
1 TTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCA
*
73481 CGACGAAGGGACCGCTGGTTGGCAACAAACAACTTCTCAAT
66 CGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCTCAAT
* *
73522 TTCAGAGCCAATTTCAACTTCACAACGAATGATATTGGACTCCAGACAACGCAAGTTCAACTTCA
1 TTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCA
* * * *
73587 CGACGAAGGGACCGCTGGTTGTCAATAAACAA-TTTTCCAC
66 CGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCTCAAT
* * *
73627 TTCTAGAGCCAATTTCAACTTCACAGCGAAGGATAGTGGACTCCAGACAACACAACTTCAACTTC
1 TTC-AGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTC
73692 ACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCTCAAT
65 ACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCTCAAT
* * **
73734 TTCAGATCCAATTTCAACTTCACAACGAACTATATTGGACTCCAGACAACGCAAGTTCAACTTCA
1 TTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCA
* * *
73799 CGACGAAGGGACCGCTGGTTGTCAATAAATAACTTCCCAAT
66 CGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCTCAAT
*
73840 TTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCATGTTCAACTTCA
1 TTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCA
* *
73905 CGACGAAGGGACCGCTGGTTGTCAACAAATAACATCTCAAT
66 CGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCTCAAT
* *
73946 TTCAGAGCCAATTTCAACTTCACAGCGAAAGATATTGGACTCTAGACAACGCAAGTTCAACTTCA
1 TTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCA
*
74011 TGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCTCAAT
66 CGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCTCAAT
* * *
74052 TTCAGAGCCAATTTCAACTTCACAACGAAAGATATTAGACTCCAGACAACGCAAGTTCAACTTCA
1 TTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCA
74117 CGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCTCAAT
66 CGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCTCAAT
* *
74158 TTCAGAGCCAATTTCAACTTCACAACGAATGATATTGGACTCCAGACAACGCAAGTTCAACTTCA
1 TTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCA
* * *
74223 CGACGAAGGGACCGCTGGTTGTCAATAAACAATTTCCCAAT
66 CGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCTCAAT
* *
74264 TTCAGAGTCAATTTCAACTTCACAGCGAAGGATATTGGACTCAAGACAACGCAAGTTCAACTTCA
1 TTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCA
* * *
74329 CGACGAAGGGACCGCTGATTGTCAATAAACAACTT-TCAAC
66 CGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCTCAAT
74369 TTCA
1 TTCA
74373 CGATGGAGGA
Statistics
Matches: 1278, Mismatches: 100, Indels: 8
0.92 0.07 0.01
Matches are distributed among these distances:
105 18 0.01
106 1244 0.97
107 16 0.01
ACGTcount: A:0.34, C:0.26, G:0.17, T:0.23
Consensus pattern (106 bp):
TTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCA
CGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCTCAAT
Found at i:74676 original size:84 final size:85
Alignment explanation
Indices: 74531--74697 Score: 228
Period size: 84 Copynumber: 2.0 Consensus size: 85
74521 AAAGACCCCC
* * * * * *
74531 GAGTTCGATTACACTCAGCTTCGAGGGCACATCATTTACAGCATAACTCAAGGCTAGAAGGGTTA
1 GAGTTCGACTACACTCAGCTTCCAAGGCACATCATTTACAACATAACTCAAGGCAAGAAGGGCTA
74596 TCTGCCAACCAAAGACCTTT
66 TCTGCCAACCAAAGACCTTT
* * * *
74616 GAGTTCGACTACGCTCAGC-TCCAAGGTACATCATTTGCAACATAGCTCAAGGCAAGAAGGGCTA
1 GAGTTCGACTACACTCAGCTTCCAAGGCACATCATTTACAACATAACTCAAGGCAAGAAGGGCTA
*
74680 TTTGCCAACCAAAGACCT
66 TCTGCCAACCAAAGACCT
74698 GACGAGTTCG
Statistics
Matches: 71, Mismatches: 11, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
84 54 0.76
85 17 0.24
ACGTcount: A:0.31, C:0.26, G:0.20, T:0.23
Consensus pattern (85 bp):
GAGTTCGACTACACTCAGCTTCCAAGGCACATCATTTACAACATAACTCAAGGCAAGAAGGGCTA
TCTGCCAACCAAAGACCTTT
Found at i:74964 original size:23 final size:22
Alignment explanation
Indices: 74928--74981 Score: 65
Period size: 23 Copynumber: 2.4 Consensus size: 22
74918 TTTGATCGGG
* *
74928 TTTTATATTTTTATTAAT-ATAA
1 TTTTTTATTATTATTAATAAT-A
74950 TTTATTTATTATTATTAATAATA
1 TTT-TTTATTATTATTAATAATA
74973 TTTTTTATT
1 TTTTTTATT
74982 TTTTTTGCAG
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
22 9 0.32
23 17 0.61
24 2 0.07
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (22 bp):
TTTTTTATTATTATTAATAATA
Found at i:74971 original size:26 final size:25
Alignment explanation
Indices: 74929--74982 Score: 63
Period size: 26 Copynumber: 2.1 Consensus size: 25
74919 TTGATCGGGT
* *
74929 TTTATATTTTTATTAATATAATTTA
1 TTTATATTATTAATAATATAATTTA
**
74954 TTTATTATTATTAATAATATTTTTTA
1 TTTA-TATTATTAATAATATAATTTA
74980 TTT
1 TTT
74983 TTTTTGCAGG
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
25 4 0.17
26 20 0.83
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (25 bp):
TTTATATTATTAATAATATAATTTA
Found at i:78667 original size:21 final size:21
Alignment explanation
Indices: 78643--78688 Score: 83
Period size: 21 Copynumber: 2.2 Consensus size: 21
78633 GAATTTAAAC
78643 GGGATCCCCGTCGGATAATCG
1 GGGATCCCCGTCGGATAATCG
*
78664 GGGATCCCCGTCGGGTAATCG
1 GGGATCCCCGTCGGATAATCG
78685 GGGA
1 GGGA
78689 AAACCGCAGG
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.17, C:0.26, G:0.39, T:0.17
Consensus pattern (21 bp):
GGGATCCCCGTCGGATAATCG
Found at i:78753 original size:12 final size:12
Alignment explanation
Indices: 78738--78790 Score: 79
Period size: 12 Copynumber: 4.4 Consensus size: 12
78728 GTTATTTAAA
78738 CGGGTATTGGGC
1 CGGGTATTGGGC
*
78750 CGGGTATTGGGT
1 CGGGTATTGGGC
78762 CGGGTATTGGGC
1 CGGGTATTGGGC
* *
78774 CGGGAATCGGGC
1 CGGGTATTGGGC
78786 CGGGT
1 CGGGT
78791 GTATATATAT
Statistics
Matches: 36, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
12 36 1.00
ACGTcount: A:0.09, C:0.17, G:0.51, T:0.23
Consensus pattern (12 bp):
CGGGTATTGGGC
Found at i:78919 original size:12 final size:12
Alignment explanation
Indices: 78893--78930 Score: 58
Period size: 13 Copynumber: 3.0 Consensus size: 12
78883 TTTTAATATT
78893 TATCGGGGTCGGG
1 TATCGGGG-CGGG
78906 TATCGGGGCGGG
1 TATCGGGGCGGG
78918 TAATCGGGGCGGG
1 T-ATCGGGGCGGG
78931 GATTACCAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
12 5 0.21
13 19 0.79
ACGTcount: A:0.11, C:0.16, G:0.55, T:0.18
Consensus pattern (12 bp):
TATCGGGGCGGG
Found at i:79328 original size:21 final size:21
Alignment explanation
Indices: 79287--79339 Score: 56
Period size: 21 Copynumber: 2.6 Consensus size: 21
79277 ATCTAAAAAT
*
79287 TCGGATATCCGAAATTTCGGA
1 TCGGATATCCGAAATTCCGGA
*
79308 TCGGATAT-CTAAATATCCGGA
1 TCGGATATCCGAAAT-TCCGGA
*
79329 TCCGA-ATCCGA
1 TCGGATATCCGA
79340 TTTTAATCCT
Statistics
Matches: 26, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
20 7 0.27
21 19 0.73
ACGTcount: A:0.30, C:0.23, G:0.21, T:0.26
Consensus pattern (21 bp):
TCGGATATCCGAAATTCCGGA
Found at i:81336 original size:226 final size:221
Alignment explanation
Indices: 80860--81345 Score: 798
Period size: 220 Copynumber: 2.2 Consensus size: 221
80850 GTTATATTGT
* * * *
80860 AAATTATCTATCCTTTTTATAAAAGTGTCCATATTTATTTCACTGTGAAAATATATTTATTATTA
1 AAATTATATATCATTTTTATAAAAGTGTCCATACTTATTTCACTGTGAAAACATATTTATTATTA
80925 TCTTTAGTTAATATTGTTAAATTTAAAATCTAAATAATATTTTATAAAATATCAAAACAATCAAA
66 -CTTTAGTTAATATTGTTAAATTTAAAATCTAAATAATATTTTATAAAATATCAAAACAATCAAA
80990 TAATTTTTGTGTAAATGAAATTATTAAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAT
130 TAATTTTTGTGTAAATGAAATTATTAAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAT
81055 TGAAACATAAATTACATAACTTTCAAA
195 TGAAACATAAATTACATAACTTTCAAA
*
81082 AAAGTATATATCATTTTTATAAAAGTGTCCATACTTATTTCACTGTTGAAAACATA-TTATTATT
1 AAATTATATATCATTTTTATAAAAGTGTCCATACTTATTTCACTG-TGAAAACATATTTATTATT
* *
81146 A-TTTGGTTAATATTGTTAAATTTAAATTCTAAATAATATTTTATAAAATATCAAAACAATCAAA
65 ACTTTAGTTAATATTGTTAAATTTAAAATCTAAATAATATTTTATAAAATATCAAAACAATCAAA
*
81210 TAATATTTTGTGTAAATTAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAA
130 TAAT-TTTTGTGTAAATGAAATTATT--A--AATATTGTAGGTGGAAAACATGAAACACTATT-A
81275 AAAAATTGAAACATAAATTACATAACTTT-AAA
189 AAAAATTGAAACATAAATTACATAACTTTCAAA
81307 AAATATATATATCATTTTTATAAAAGTGTCCATACTTAT
1 AAAT-TATATATCATTTTTATAAAAGTGTCCATACTTAT
81346 AAAAGTATGT
Statistics
Matches: 247, Mismatches: 9, Indels: 12
0.92 0.03 0.04
Matches are distributed among these distances:
220 65 0.26
221 20 0.08
222 50 0.20
223 10 0.04
225 38 0.15
226 64 0.26
ACGTcount: A:0.45, C:0.08, G:0.07, T:0.40
Consensus pattern (221 bp):
AAATTATATATCATTTTTATAAAAGTGTCCATACTTATTTCACTGTGAAAACATATTTATTATTA
CTTTAGTTAATATTGTTAAATTTAAAATCTAAATAATATTTTATAAAATATCAAAACAATCAAAT
AATTTTTGTGTAAATGAAATTATTAAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAATT
GAAACATAAATTACATAACTTTCAAA
Found at i:81646 original size:20 final size:19
Alignment explanation
Indices: 81623--81669 Score: 67
Period size: 20 Copynumber: 2.4 Consensus size: 19
81613 CGATATACCA
81623 GGTAAAAATATGATAAAACC
1 GGTAAAAA-ATGATAAAACC
81643 GGTAACAAAATGATAAAACC
1 GGTAA-AAAATGATAAAACC
*
81663 AGTAAAA
1 GGTAAAA
81670 CGTTACCGGA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
19 2 0.08
20 20 0.80
21 3 0.12
ACGTcount: A:0.57, C:0.11, G:0.15, T:0.17
Consensus pattern (19 bp):
GGTAAAAAATGATAAAACC
Found at i:81787 original size:181 final size:181
Alignment explanation
Indices: 81421--81883 Score: 669
Period size: 181 Copynumber: 2.6 Consensus size: 181
81411 TAAAAATGTG
* * *
81421 TCGATCCAAAACGATATAACAGGTAAAACTATGACAAAACCGGTATA-GAAATGATAAAACCGGT
1 TCGATCCAAAACGATATAACAGGTAAAAATATGATAAAACCGGTA-ACAAAATGATAAAACCGGT
* * * * * *
81485 CAAGCGCTACCGGATACATTTAAAGTGTCGGTACTTTAATATAAGGATCGACACTTCGTGAATTT
65 AAAACGATACCGGATATATTAAAAGTGTCGATACTTTAATATAAGGATCGACACTTCGTGAATTT
* * * **
81550 AAAAGAGAAGCAGTTTTAAATCCTATAAAGTGTCGATACTTTTAAAAATGTA
130 AAAAGAGAAGCAGTTATAAAGCCTATAAAGTGTCGATACTTTAAAAAAAATA
* *
81602 TCGATCCAAAACGATATACCAGGTAAAAATATGATAAAACCGGTAACAAAATGATAAAACCAGTA
1 TCGATCCAAAACGATATAACAGGTAAAAATATGATAAAACCGGTAACAAAATGATAAAACCGGTA
* *
81667 AAACGTTACCGGATATATTAAAAGTGTCGATACTTT-ATATAAGGATCGACACTTTGTGAATTTA
66 AAACGATACCGGATATATTAAAAGTGTCGATACTTTAATATAAGGATCGACACTTCGTGAATTTA
** *
81731 AAAGAGAAGCAGTTATAGCGCCTATAATGTGTCGATACTTTAAAAAAAAATA
131 AAAGAGAAGCAGTTATAAAGCCTATAAAGTGTCGATACTTT-AAAAAAAATA
* *
81783 TCGATCCACAACGATATAACAGGTAAAAATATGATAAAACCGGTATCAAAATGATAAAACCGGTA
1 TCGATCCAAAACGATATAACAGGTAAAAATATGATAAAACCGGTAACAAAATGATAAAACCGGTA
* *
81848 AAATGATACCGGATATATTGAAAGTGTCGATACTTT
66 AAACGATACCGGATATATTAAAAGTGTCGATACTTT
81884 CGTAAGTACG
Statistics
Matches: 253, Mismatches: 27, Indels: 4
0.89 0.10 0.01
Matches are distributed among these distances:
180 64 0.25
181 189 0.75
ACGTcount: A:0.43, C:0.15, G:0.17, T:0.26
Consensus pattern (181 bp):
TCGATCCAAAACGATATAACAGGTAAAAATATGATAAAACCGGTAACAAAATGATAAAACCGGTA
AAACGATACCGGATATATTAAAAGTGTCGATACTTTAATATAAGGATCGACACTTCGTGAATTTA
AAAGAGAAGCAGTTATAAAGCCTATAAAGTGTCGATACTTTAAAAAAAATA
Found at i:81827 original size:20 final size:19
Alignment explanation
Indices: 81804--81850 Score: 67
Period size: 20 Copynumber: 2.4 Consensus size: 19
81794 CGATATAACA
81804 GGTAAAAATATGATAAAACC
1 GGTAAAAA-ATGATAAAACC
*
81824 GGTATCAAAATGATAAAACC
1 GGTA-AAAAATGATAAAACC
81844 GGTAAAA
1 GGTAAAA
81851 TGATACCGGA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
19 2 0.08
20 19 0.79
21 3 0.12
ACGTcount: A:0.53, C:0.11, G:0.17, T:0.19
Consensus pattern (19 bp):
GGTAAAAAATGATAAAACC
Found at i:81852 original size:17 final size:19
Alignment explanation
Indices: 81813--81855 Score: 63
Period size: 20 Copynumber: 2.3 Consensus size: 19
81803 AGGTAAAAAT
81813 ATGATAAAACCGGTATCAAA
1 ATGATAAAACCGG-ATCAAA
81833 ATGATAAAACCGG-T-AAA
1 ATGATAAAACCGGATCAAA
81850 ATGATA
1 ATGATA
81856 CCGGATATAT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
17 9 0.39
18 1 0.04
20 13 0.57
ACGTcount: A:0.51, C:0.12, G:0.16, T:0.21
Consensus pattern (19 bp):
ATGATAAAACCGGATCAAA
Found at i:84095 original size:21 final size:21
Alignment explanation
Indices: 84068--84132 Score: 76
Period size: 21 Copynumber: 3.1 Consensus size: 21
84058 AAGACAATCA
*
84068 AGAGTCGAAGAGAAACTTGAT
1 AGAGTCGAAGAGAAACTTGAG
* * *
84089 CGAGTCGTAGAGAAACTCGAG
1 AGAGTCGAAGAGAAACTTGAG
* *
84110 AGAGTCGAAGATACACTTGAG
1 AGAGTCGAAGAGAAACTTGAG
84131 AG
1 AG
84133 GCATAAGGGG
Statistics
Matches: 35, Mismatches: 9, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
21 35 1.00
ACGTcount: A:0.38, C:0.14, G:0.31, T:0.17
Consensus pattern (21 bp):
AGAGTCGAAGAGAAACTTGAG
Found at i:84207 original size:33 final size:33
Alignment explanation
Indices: 84165--84230 Score: 105
Period size: 33 Copynumber: 2.0 Consensus size: 33
84155 AAATAGATGG
*
84165 AGTGGTGAAAGAAGTAGAGGTGTTGAGGGGTGA
1 AGTGGTGAAAGAAGTAGAGGTGTTAAGGGGTGA
* *
84198 AGTGGTGAAAGAAGTTGGGGTGTTAAGGGGTGA
1 AGTGGTGAAAGAAGTAGAGGTGTTAAGGGGTGA
84231 TATTAAGATG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.29, C:0.00, G:0.48, T:0.23
Consensus pattern (33 bp):
AGTGGTGAAAGAAGTAGAGGTGTTAAGGGGTGA
Found at i:86040 original size:19 final size:19
Alignment explanation
Indices: 86016--86064 Score: 80
Period size: 19 Copynumber: 2.6 Consensus size: 19
86006 AATGTAGGGT
86016 TAATTTTGTATAAGATTTA
1 TAATTTTGTATAAGATTTA
*
86035 TAATTTTGTATACGATTTA
1 TAATTTTGTATAAGATTTA
*
86054 TATTTTTGTAT
1 TAATTTTGTAT
86065 GTGAATATAA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
19 28 1.00
ACGTcount: A:0.31, C:0.02, G:0.10, T:0.57
Consensus pattern (19 bp):
TAATTTTGTATAAGATTTA
Found at i:86725 original size:195 final size:199
Alignment explanation
Indices: 86181--87721 Score: 2710
Period size: 195 Copynumber: 7.9 Consensus size: 199
86171 TAATATGGCC
* * *
86181 AACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCAATCCCAAAAACATCGAAAA
1 AACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCG-AAC
* *
86246 CCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTCTACCGGTTTTATGAGA
65 CCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGA
86311 GAATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAA
130 GAATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAA
86376 TGGAA
195 TGGAA
86381 AACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAA-C
1 AACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACC
*
86445 CAAAAGTATAATGTAATATGTAA-TTTTCAATCTAACC-GTACAATTATA-CGGTTTTATGAGAT
66 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAG
*
86507 AATATGTATAAATAATGTGTCGACACT-ATATAGTTTGTGTCGATA-TTTTTTTCCAGAATGAAT
131 AATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAAT
86570 GGAA
196 GGAA
86574 AACAGGGTGCACCCATAAAGTGTCGATCCATATAT-AAAAGTGTCGATCCCAAAATCATCGAACC
1 AACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACC
86638 CAAAAGTATAATGTAATATGTAA-TTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAG
66 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAG
86702 AATATGTCTAAATAATGTGTCGACACTAAT-TAGTTTGTGTCGATATTTTTTTTCCAGAATGAAT
131 AATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAAT
86766 GGAA
196 GGAA
86770 AACAGGGTGCACCCA-AAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACC
1 AACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACC
*
86834 CAAAAG--TAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAT
66 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAG
*
86897 AATATGTATAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAAT
131 AATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAAT
86962 GGAA
196 GGAA
*
86966 AACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCAAACC
1 AACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACC
87031 CAAAAGTATAA--TAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGG-TTTATGAGAG
66 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAG
87093 AATATGTCTAAATAATGTGTCGACACTAATATAG-TTGTGTCGATATTTTTTTTCCAGAATGAAT
131 AATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAAT
87157 GGAA
196 GGAA
87161 AACAGGGTGCACCCAT-AAGTGTCGATCCATATAT-AAAAGTGTCGATCCCAAAATCATCGAACC
1 AACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACC
*
87224 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAAACGGTACAATTATACCGGTTTTATGAGAG
66 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAG
*
87289 AATATGTTTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAAT
131 AATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAAT
87354 GGAA
196 GGAA
*
87358 AACAGGGTGCACCC-TAAAGTGTCGATCCATATAT-AAAAGTGTTGATCCCAAAATCATCGAACC
1 AACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACC
87421 C-AAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATA-CGGTTTTATGAGAG
66 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAG
87484 AATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATA-TTTTTTTCCAGAATGAAT
131 AATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAAT
87548 GGAA
196 GGAA
*
87552 AACAGGGTGCACCCATAAAGTGTCGATCTATATAT-AAAAGTGTCGATCCCAAAATCATCGAACC
1 AACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACC
* *
87616 CAAAAGTATAATGTAATATGTAATTTTTC-ATCTAACCGGTACAAGTATACCGGGTTTATGAGAG
66 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAG
87680 -A-ATGTCTAAATAATGTGTCGACACGT--TATAG-TTGTGTCGATA
131 AATATGTCTAAATAATGTGTCGACAC-TAATATAGTTTGTGTCGATA
87722 CTAATTTAAA
Statistics
Matches: 1298, Mismatches: 23, Indels: 48
0.95 0.02 0.04
Matches are distributed among these distances:
192 38 0.03
193 139 0.11
194 121 0.09
195 399 0.31
196 309 0.24
197 204 0.16
198 24 0.02
199 5 0.00
200 59 0.05
ACGTcount: A:0.36, C:0.15, G:0.17, T:0.31
Consensus pattern (199 bp):
AACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACC
CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAG
AATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAAT
GGAA
Found at i:87145 original size:392 final size:393
Alignment explanation
Indices: 86181--87721 Score: 2658
Period size: 392 Copynumber: 3.9 Consensus size: 393
86171 TAATATGGCC
* * *
86181 AACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCAATCCCAAAAACATCGAAAA
1 AACAGGGTGCACCCATAAAGTGTCGATCCATATAT-AAAAGTGTCGATCCCAAAATCATC-AAAC
* *
86246 CCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTCTACCGGTTTTATGAGA
64 CCAAAAGTATAA-GTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGA
86311 GAATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAA
128 GAATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAA
86376 TGGAAAACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATC
193 TGGAAAACAGGGTGCACCCATAAAGTGTCGATCCATATAT-AAAAGTGTCGATCCCAAAATCATC
86441 GAA-CCAAAAGTATAATGTAATATGTAA-TTTTCAATCTAACC-GTACAATTATA-CGGTTTTAT
257 GAACCCAAAAG-ATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTAT
86502 GAGATAATATGTATAAATAATGTGTCGACACTATATAGTTTGTGTCGATA-TTTTTTTCCAGAAT
321 GAGATAATATGTATAAATAATGTGTCGACACTATATAGTTTGTGTCGATATTTTTTTTCCAGAAT
86566 GAATGGAA
386 GAATGGAA
*
86574 AACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAGTGTCGATCCCAAAATCATCGAACCC
1 AACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAGTGTCGATCCCAAAATCATCAAACCC
86639 AAAAGTATAATGTAATATGTAA-TTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAGA
66 AAAAGTATAA-GTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAGA
86703 ATATGTCTAAATAATGTGTCGACACTAAT-TAGTTTGTGTCGATATTTTTTTTCCAGAATGAATG
130 ATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAATG
86767 GAAAACAGGGTGCACCCA-AAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGA
195 GAAAACAGGGTGCACCCATAAAGTGTCGATCCATATAT-AAAAGTGTCGATCCCAAAATCATCGA
86831 ACCCAAAAG-TAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAG
259 ACCCAAAAGATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAG
86895 ATAATATGTATAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGA
324 ATAATATGTATAAATAATGTGTCGACACT-ATATAGTTTGTGTCGATATTTTTTTTCCAGAATGA
86960 ATGGAA
388 ATGGAA
86966 AACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCAAACC
1 AACAGGGTGCACCCATAAAGTGTCGATCCATATAT-AAAAGTGTCGATCCCAAAATCATCAAACC
87031 CAAAAGTATAA-TAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGG-TTTATGAGAGA
65 CAAAAGTATAAGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAGA
87094 ATATGTCTAAATAATGTGTCGACACTAATATAG-TTGTGTCGATATTTTTTTTCCAGAATGAATG
130 ATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAATG
87158 GAAAACAGGGTGCACCCAT-AAGTGTCGATCCATATATAAAAGTGTCGATCCCAAAATCATCGAA
195 GAAAACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAGTGTCGATCCCAAAATCATCGAA
*
87222 CCCAAAAGTATAATGTAATATGTAATTTTTCAATCTAAACGGTACAATTATACCGGTTTTATGAG
260 CCCAAAAG-ATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAG
* *
87287 AGAATATGTTTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGA
324 ATAATATGTATAAATAATGTGTCGACACT-ATATAGTTTGTGTCGATATTTTTTTTCCAGAATGA
87352 ATGGAA
388 ATGGAA
* *
87358 AACAGGGTGCACCC-TAAAGTGTCGATCCATATATAAAAGTGTTGATCCCAAAATCATCGAACCC
1 AACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAGTGTCGATCCCAAAATCATCAAACCC
87422 -AAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATA-CGGTTTTATGAGAGA
66 AAAAGTATAA-GTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAGA
87485 ATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATA-TTTTTTTCCAGAATGAATG
130 ATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAATG
*
87549 GAAAACAGGGTGCACCCATAAAGTGTCGATCTATATATAAAAGTGTCGATCCCAAAATCATCGAA
195 GAAAACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAGTGTCGATCCCAAAATCATCGAA
* *
87614 CCCAAAAGTATAATGTAATATGTAATTTTTC-ATCTAACCGGTACAAGTATACCGGGTTTATGAG
260 CCCAAAAG-ATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAG
* *
87678 A-GA-ATGTCTAAATAATGTGTCGACACGT-TATAG-TTGTGTCGATA
324 ATAATATGTATAAATAATGTGTCGACAC-TATATAGTTTGTGTCGATA
87722 CTAATTTAAA
Statistics
Matches: 1112, Mismatches: 18, Indels: 42
0.95 0.02 0.04
Matches are distributed among these distances:
387 26 0.02
388 66 0.06
389 102 0.09
390 178 0.16
391 331 0.30
392 335 0.30
393 74 0.07
ACGTcount: A:0.36, C:0.15, G:0.17, T:0.31
Consensus pattern (393 bp):
AACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAGTGTCGATCCCAAAATCATCAAACCC
AAAAGTATAAGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAA
TATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAATGG
AAAACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAGTGTCGATCCCAAAATCATCGAAC
CCAAAAGATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAT
AATATGTATAAATAATGTGTCGACACTATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAATG
GAA
Found at i:89197 original size:6 final size:6
Alignment explanation
Indices: 89175--89264 Score: 58
Period size: 6 Copynumber: 15.3 Consensus size: 6
89165 AGCGGTCGCA
* * * * *
89175 GAAGAT GAAG-- GACGAT GAAGAT GACGAT GATGAT GACGAT GAAGCT
1 GAAGAT GAAGAT GAAGAT GAAGAT GAAGAT GAAGAT GAAGAT GAAGAT
** * * * * *
89221 GGTGAT GAAGAT GATGAC GATGAT GATGAT GATGAT GAAGAT GA
1 GAAGAT GAAGAT GAAGAT GAAGAT GAAGAT GAAGAT GAAGAT GA
89265 TGATCCAAAC
Statistics
Matches: 66, Mismatches: 16, Indels: 4
0.77 0.19 0.05
Matches are distributed among these distances:
4 3 0.05
6 63 0.95
ACGTcount: A:0.38, C:0.06, G:0.36, T:0.21
Consensus pattern (6 bp):
GAAGAT
Found at i:89208 original size:3 final size:3
Alignment explanation
Indices: 89188--89268 Score: 81
Period size: 3 Copynumber: 27.0 Consensus size: 3
89178 GATGAAGGAC
* * * * * * *
89188 GAT GAA GAT GAC GAT GAT GAT GAC GAT GAA GCT GGT GAT GAA GAT GAT
1 GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT
* *
89236 GAC GAT GAT GAT GAT GAT GAT GAA GAT GAT GAT
1 GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT
89269 CCAAACAAGT
Statistics
Matches: 61, Mismatches: 17, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
3 61 1.00
ACGTcount: A:0.36, C:0.05, G:0.35, T:0.25
Consensus pattern (3 bp):
GAT
Found at i:91074 original size:183 final size:181
Alignment explanation
Indices: 90761--91249 Score: 834
Period size: 183 Copynumber: 2.7 Consensus size: 181
90751 GCAATGCTAT
* *
90761 CGGTATAAATATACCGGTTTTATGCGCGAATAGGTCTACAACCTATATCGACACTTTTTAATCTT
1 CGGTATAAATATACCGGTTTTATG-ACGAATAGGTCTACAACCTATATCGACACTTTTTAATATT
* *
90826 GTGTCGGTACTTTATGTCCAGATTGGAAGAAAAATGTGTCGATACATTGTTAAAAAGTGTCGACA
65 GTGTCGGTACTTTATGTCCAGATTGGAAGAAAAATGTGTCGATACATT-TAAAAAAGTATCGACA
*
90891 TTTACACATCGGAACCCATAATTATAATGTAATAGATAATTTTGTAATATAAC
129 TTTACACATCGGAACCCAGAATTATAATGTAATAGATAATTTTGTAATATAAC
90944 CGGTATAAATATACCGGTTTTATGTACGAATAGGTCTACAACCTATATCGACACTTTTTAATATT
1 CGGTATAAATATACCGGTTTTATG-ACGAATAGGTCTACAACCTATATCGACACTTTTTAATATT
*
91009 GTGTCGGTACTTTATGTCCATATTGGAAGAAAAATGTGTCGATACGATTTAAAAAAGTATCGACA
65 GTGTCGGTACTTTATGTCCAGATTGGAAGAAAAATGTGTCGATAC-ATTTAAAAAAGTATCGACA
*
91074 TTTACACATCGGAACCCAGATTTATAATGTAATAGATAATTTTGTAATATAAC
129 TTTACACATCGGAACCCAGAATTATAATGTAATAGATAATTTTGTAATATAAC
* * *
91127 CGGTATAAATATACTGATTTTATGAGCGAATAGGTCTACAACCTATATCGACACTTTATAATATT
1 CGGTATAAATATACCGGTTTTATGA-CGAATAGGTCTACAACCTATATCGACACTTTTTAATATT
91192 GTGTCGGTACTTTATGTCCAGATTGGAAGAAAAATGTGTCGATACCATTTAAAAAAGT
65 GTGTCGGTACTTTATGTCCAGATTGGAAGAAAAATGTGTCGATA-CATTTAAAAAAGT
91250 GTCGGTAATT
Statistics
Matches: 291, Mismatches: 12, Indels: 6
0.94 0.04 0.02
Matches are distributed among these distances:
182 1 0.00
183 286 0.98
184 4 0.01
ACGTcount: A:0.35, C:0.15, G:0.17, T:0.34
Consensus pattern (181 bp):
CGGTATAAATATACCGGTTTTATGACGAATAGGTCTACAACCTATATCGACACTTTTTAATATTG
TGTCGGTACTTTATGTCCAGATTGGAAGAAAAATGTGTCGATACATTTAAAAAAGTATCGACATT
TACACATCGGAACCCAGAATTATAATGTAATAGATAATTTTGTAATATAAC
Found at i:93751 original size:25 final size:25
Alignment explanation
Indices: 93723--93787 Score: 85
Period size: 25 Copynumber: 2.6 Consensus size: 25
93713 TTATCATTAA
93723 ATTTAGGTATGTACAATAACTACAT
1 ATTTAGGTATGTACAATAACTACAT
****
93748 ATTTAGGTATGTTTGTTAACTACAT
1 ATTTAGGTATGTACAATAACTACAT
*
93773 ATTTAGGTATATACA
1 ATTTAGGTATGTACA
93788 TCTTTTGAGT
Statistics
Matches: 32, Mismatches: 8, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
25 32 1.00
ACGTcount: A:0.35, C:0.09, G:0.14, T:0.42
Consensus pattern (25 bp):
ATTTAGGTATGTACAATAACTACAT
Found at i:94159 original size:23 final size:23
Alignment explanation
Indices: 94128--94191 Score: 92
Period size: 23 Copynumber: 2.8 Consensus size: 23
94118 ATAGGTAAAC
*
94128 ATATGATGTAATAGGTAGCGCTT
1 ATATAATGTAATAGGTAGCGCTT
* * *
94151 ATATAATGTAATAGATATCGTTT
1 ATATAATGTAATAGGTAGCGCTT
94174 ATATAATGTAATAGGTAG
1 ATATAATGTAATAGGTAG
94192 TTGTTATATT
Statistics
Matches: 35, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
23 35 1.00
ACGTcount: A:0.38, C:0.05, G:0.20, T:0.38
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGCGCTT
Found at i:94198 original size:23 final size:24
Alignment explanation
Indices: 94128--94200 Score: 89
Period size: 23 Copynumber: 3.2 Consensus size: 24
94118 ATAGGTAAAC
*
94128 ATATGATGTAATAGGTAG-CGCTT
1 ATATAATGTAATAGGTAGTCGCTT
* *
94151 ATATAATGTAATAGATA-TCGTTT
1 ATATAATGTAATAGGTAGTCGCTT
*
94174 ATATAATGTAATAGGTAGTTG-TT
1 ATATAATGTAATAGGTAGTCGCTT
94197 ATAT
1 ATAT
94201 TGTAAAATAT
Statistics
Matches: 43, Mismatches: 5, Indels: 4
0.83 0.10 0.08
Matches are distributed among these distances:
23 41 0.95
24 2 0.05
ACGTcount: A:0.36, C:0.04, G:0.19, T:0.41
Consensus pattern (24 bp):
ATATAATGTAATAGGTAGTCGCTT
Found at i:94646 original size:18 final size:18
Alignment explanation
Indices: 94625--94661 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
94615 GTAATTGGAG
94625 TTTGAATTTAAATTTCAA
1 TTTGAATTTAAATTTCAA
* *
94643 TTTGAGTTTGAATTTCAA
1 TTTGAATTTAAATTTCAA
94661 T
1 T
94662 ATATATTTCG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.32, C:0.05, G:0.11, T:0.51
Consensus pattern (18 bp):
TTTGAATTTAAATTTCAA
Found at i:94669 original size:24 final size:24
Alignment explanation
Indices: 94617--94663 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 24
94607 ATTCATATGT
* *
94617 AATTGGAGTTTGAATTTAAATTTC
1 AATTTGAGTTTGAATTTAAATATC
*
94641 AATTTGAGTTTGAATTTCAATAT
1 AATTTGAGTTTGAATTTAAATAT
94664 ATATTTCGGC
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.34, C:0.04, G:0.15, T:0.47
Consensus pattern (24 bp):
AATTTGAGTTTGAATTTAAATATC
Found at i:94961 original size:38 final size:39
Alignment explanation
Indices: 94919--95003 Score: 129
Period size: 37 Copynumber: 2.2 Consensus size: 39
94909 TCCGATGCTC
*
94919 ATCAAAATCCAAAGCTCATATGGTGCCAAGC-AAAGGAA
1 ATCAAAATCCAAAGCTCATATGATGCCAAGCAAAAGGAA
* *
94957 ATC-AAATTCAAATCTCATATGATGCCAAGCAAAAGGAA
1 ATCAAAATCCAAAGCTCATATGATGCCAAGCAAAAGGAA
94995 ATCAAAATC
1 ATCAAAATC
95004 TATAACTTGA
Statistics
Matches: 41, Mismatches: 4, Indels: 3
0.85 0.08 0.06
Matches are distributed among these distances:
37 24 0.59
38 13 0.32
39 4 0.10
ACGTcount: A:0.47, C:0.20, G:0.14, T:0.19
Consensus pattern (39 bp):
ATCAAAATCCAAAGCTCATATGATGCCAAGCAAAAGGAA
Found at i:96812 original size:30 final size:29
Alignment explanation
Indices: 96754--96812 Score: 73
Period size: 30 Copynumber: 2.0 Consensus size: 29
96744 CTACAGTGAC
* *
96754 CATCATAGATCTTTAGGAACACATGACGA
1 CATCATAGATCTTCAGGAACACACGACGA
* *
96783 CATCTATAGGTCTTCAGGAGCACACGACGA
1 CATC-ATAGATCTTCAGGAACACACGACGA
96813 TCTATGGAGT
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
29 4 0.16
30 21 0.84
ACGTcount: A:0.34, C:0.24, G:0.20, T:0.22
Consensus pattern (29 bp):
CATCATAGATCTTCAGGAACACACGACGA
Found at i:99148 original size:19 final size:20
Alignment explanation
Indices: 99120--99158 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
99110 TTTGGGAAAA
*
99120 ATCGG-TTTTTTTTAACCGG
1 ATCGGATTTTTTTAAACCGG
99139 ATCGGATTTTTTTAAACCGG
1 ATCGGATTTTTTTAAACCGG
99159 TTATTTTAAC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 5 0.28
20 13 0.72
ACGTcount: A:0.21, C:0.15, G:0.21, T:0.44
Consensus pattern (20 bp):
ATCGGATTTTTTTAAACCGG
Found at i:99218 original size:12 final size:12
Alignment explanation
Indices: 99203--99248 Score: 56
Period size: 12 Copynumber: 3.6 Consensus size: 12
99193 CGGTTTTTTT
*
99203 ACCGGATAAAAA
1 ACCGGTTAAAAA
99215 ACCGGTTTGAAAAAA
1 ACCGG-TT--AAAAA
99230 ACCGGTTAAAAA
1 ACCGGTTAAAAA
99242 ACCGGTT
1 ACCGGTT
99249 TTTATCCGGA
Statistics
Matches: 30, Mismatches: 1, Indels: 6
0.81 0.03 0.16
Matches are distributed among these distances:
12 17 0.57
13 1 0.03
14 2 0.07
15 10 0.33
ACGTcount: A:0.46, C:0.17, G:0.20, T:0.17
Consensus pattern (12 bp):
ACCGGTTAAAAA
Found at i:99230 original size:15 final size:13
Alignment explanation
Indices: 99209--99249 Score: 57
Period size: 12 Copynumber: 3.1 Consensus size: 13
99199 TTTTACCGGA
99209 TAAAAAACCGGTT
1 TAAAAAACCGGTT
99222 TGAAAAAAACCGG-T
1 T--AAAAAACCGGTT
99236 TAAAAAACCGGTT
1 TAAAAAACCGGTT
99249 T
1 T
99250 TTATCCGGAA
Statistics
Matches: 25, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
12 10 0.40
13 3 0.12
14 2 0.08
15 10 0.40
ACGTcount: A:0.46, C:0.15, G:0.17, T:0.22
Consensus pattern (13 bp):
TAAAAAACCGGTT
Found at i:101875 original size:25 final size:25
Alignment explanation
Indices: 101841--101905 Score: 85
Period size: 25 Copynumber: 2.6 Consensus size: 25
101831 TATTTATTAA
101841 ATTTAGGTATGTACAATAACTACAT
1 ATTTAGGTATGTACAATAACTACAT
****
101866 ATTTAGGTATGTTTGTTAACTACAT
1 ATTTAGGTATGTACAATAACTACAT
*
101891 ATTTAGGTATATACA
1 ATTTAGGTATGTACA
101906 TCTTTTGAGT
Statistics
Matches: 32, Mismatches: 8, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
25 32 1.00
ACGTcount: A:0.35, C:0.09, G:0.14, T:0.42
Consensus pattern (25 bp):
ATTTAGGTATGTACAATAACTACAT
Found at i:102283 original size:23 final size:23
Alignment explanation
Indices: 102252--102315 Score: 92
Period size: 23 Copynumber: 2.8 Consensus size: 23
102242 ATAGGTAAAC
*
102252 ATATGATGTAATAGGTAGCGCTT
1 ATATAATGTAATAGGTAGCGCTT
* * *
102275 ATATAATGTAATAGATATCGTTT
1 ATATAATGTAATAGGTAGCGCTT
102298 ATATAATGTAATAGGTAG
1 ATATAATGTAATAGGTAG
102316 TTGTTATATT
Statistics
Matches: 35, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
23 35 1.00
ACGTcount: A:0.38, C:0.05, G:0.20, T:0.38
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGCGCTT
Found at i:102322 original size:23 final size:24
Alignment explanation
Indices: 102252--102324 Score: 89
Period size: 23 Copynumber: 3.2 Consensus size: 24
102242 ATAGGTAAAC
*
102252 ATATGATGTAATAGGTAG-CGCTT
1 ATATAATGTAATAGGTAGTCGCTT
* *
102275 ATATAATGTAATAGATA-TCGTTT
1 ATATAATGTAATAGGTAGTCGCTT
*
102298 ATATAATGTAATAGGTAGTTG-TT
1 ATATAATGTAATAGGTAGTCGCTT
102321 ATAT
1 ATAT
102325 TGTAAAATAT
Statistics
Matches: 43, Mismatches: 5, Indels: 4
0.83 0.10 0.08
Matches are distributed among these distances:
23 41 0.95
24 2 0.05
ACGTcount: A:0.36, C:0.04, G:0.19, T:0.41
Consensus pattern (24 bp):
ATATAATGTAATAGGTAGTCGCTT
Found at i:102773 original size:18 final size:18
Alignment explanation
Indices: 102752--102788 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
102742 GTAATTGGAG
102752 TTTGAATTTAAATTTCAA
1 TTTGAATTTAAATTTCAA
* *
102770 TTTGAGTTTGAATTTCAA
1 TTTGAATTTAAATTTCAA
102788 T
1 T
102789 ATATATTTCG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.32, C:0.05, G:0.11, T:0.51
Consensus pattern (18 bp):
TTTGAATTTAAATTTCAA
Found at i:102796 original size:24 final size:24
Alignment explanation
Indices: 102744--102790 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 24
102734 TTTCATATGT
* *
102744 AATTGGAGTTTGAATTTAAATTTC
1 AATTTGAGTTTGAATTTAAATATC
*
102768 AATTTGAGTTTGAATTTCAATAT
1 AATTTGAGTTTGAATTTAAATAT
102791 ATATTTCGGC
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.34, C:0.04, G:0.15, T:0.47
Consensus pattern (24 bp):
AATTTGAGTTTGAATTTAAATATC
Found at i:103089 original size:39 final size:39
Alignment explanation
Indices: 103046--103132 Score: 147
Period size: 39 Copynumber: 2.2 Consensus size: 39
103036 TCCGATGCTC
*
103046 ATCAAAATCCAAAGCTCATATGGTGCCAAGCAAAAGGAA
1 ATCAAAATCCAAAGCTCATATGATGCCAAGCAAAAGGAA
* *
103085 ATCAAAATTCAAATCTCATATGATGCCAAGCAAAAGGAA
1 ATCAAAATCCAAAGCTCATATGATGCCAAGCAAAAGGAA
103124 ATCAAAATC
1 ATCAAAATC
103133 TATAACTTGA
Statistics
Matches: 44, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
39 44 1.00
ACGTcount: A:0.48, C:0.20, G:0.14, T:0.18
Consensus pattern (39 bp):
ATCAAAATCCAAAGCTCATATGATGCCAAGCAAAAGGAA
Found at i:103584 original size:23 final size:23
Alignment explanation
Indices: 103553--103625 Score: 101
Period size: 23 Copynumber: 3.2 Consensus size: 23
103543 ATAGGTAAAA
*
103553 ATATGATGTAATAGGTAGCGCTT
1 ATATAATGTAATAGGTAGCGCTT
* *
103576 ATATAATGTAATAGGTATCGTTT
1 ATATAATGTAATAGGTAGCGCTT
* *
103599 ATATAATGTAATAGGTAGTGGTT
1 ATATAATGTAATAGGTAGCGCTT
103622 ATAT
1 ATAT
103626 TGTAAAGTGT
Statistics
Matches: 44, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 44 1.00
ACGTcount: A:0.34, C:0.04, G:0.22, T:0.40
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGCGCTT
Found at i:103814 original size:29 final size:29
Alignment explanation
Indices: 103771--103836 Score: 73
Period size: 29 Copynumber: 2.2 Consensus size: 29
103761 GTTACGATAT
*
103771 ATATTATTATTAAAT-T-AAAAATTCTAAATA
1 ATATT-TTATAAAATATCAAAAA-TC-AAATA
103801 ATATTTTATAAAATATCAAAAATCAAATA
1 ATATTTTATAAAATATCAAAAATCAAATA
*
103830 ATTTTTT
1 ATATTTT
103837 GTGCAAATGA
Statistics
Matches: 32, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
29 19 0.59
30 8 0.25
31 5 0.16
ACGTcount: A:0.52, C:0.05, G:0.00, T:0.44
Consensus pattern (29 bp):
ATATTTTATAAAATATCAAAAATCAAATA
Found at i:105370 original size:30 final size:29
Alignment explanation
Indices: 105312--105370 Score: 73
Period size: 30 Copynumber: 2.0 Consensus size: 29
105302 CTACAGTGAC
* *
105312 CATCATAGATCTTTAGGAACACATGACGA
1 CATCATAGATCTTCAGGAACACACGACGA
* *
105341 CATCTATAGGTCTTCAGGAGCACACGACGA
1 CATC-ATAGATCTTCAGGAACACACGACGA
105371 TCTATGGAGT
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
29 4 0.16
30 21 0.84
ACGTcount: A:0.34, C:0.24, G:0.20, T:0.22
Consensus pattern (29 bp):
CATCATAGATCTTCAGGAACACACGACGA
Found at i:116812 original size:27 final size:25
Alignment explanation
Indices: 116755--116823 Score: 70
Period size: 26 Copynumber: 2.7 Consensus size: 25
116745 GCTAGAAACT
*
116755 AAATTAAAATAATTAAAAACAACAA
1 AAATAAAAATAATTAAAAACAACAA
116780 ATAATAAAAAT-ATTAAAAAACAACCAA
1 A-AATAAAAATAATT-AAAAACAA-CAA
*
116807 CAAAT-AAAATAAGTAAA
1 -AAATAAAAATAATTAAA
116824 CAAAAATTAA
Statistics
Matches: 37, Mismatches: 2, Indels: 9
0.77 0.04 0.19
Matches are distributed among these distances:
25 4 0.11
26 24 0.65
27 8 0.22
28 1 0.03
ACGTcount: A:0.71, C:0.09, G:0.01, T:0.19
Consensus pattern (25 bp):
AAATAAAAATAATTAAAAACAACAA
Found at i:117361 original size:19 final size:18
Alignment explanation
Indices: 117335--117371 Score: 65
Period size: 19 Copynumber: 2.0 Consensus size: 18
117325 AAAAGAAAAA
117335 TAATATAATAATAAATAT
1 TAATATAATAATAAATAT
117353 TAATAATAATAATAAATAT
1 TAAT-ATAATAATAAATAT
117372 AAAAGGGGGA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 4 0.22
19 14 0.78
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (18 bp):
TAATATAATAATAAATAT
Found at i:117443 original size:22 final size:23
Alignment explanation
Indices: 117402--117450 Score: 73
Period size: 22 Copynumber: 2.2 Consensus size: 23
117392 AAGTTGTGGT
*
117402 TAAAATAAAAAATAAGAATTAAA
1 TAAAAGAAAAAATAAGAATTAAA
*
117425 TAAAAGAAAAAA-AATAATTAAA
1 TAAAAGAAAAAATAAGAATTAAA
117447 TAAA
1 TAAA
117451 CAAATTAAAG
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
22 13 0.54
23 11 0.46
ACGTcount: A:0.76, C:0.00, G:0.04, T:0.20
Consensus pattern (23 bp):
TAAAAGAAAAAATAAGAATTAAA
Found at i:118133 original size:19 final size:19
Alignment explanation
Indices: 118077--118139 Score: 54
Period size: 19 Copynumber: 3.2 Consensus size: 19
118067 CTATTTAAAC
**
118077 TAAAATACATAAAAAATAAT
1 TAAAATAC-TAAAACCTAAT
* * *
118097 ATAATATTCTAAATCCTAAT
1 -TAAAATACTAAAACCTAAT
*
118117 TAAAATACTAAAACCTATT
1 TAAAATACTAAAACCTAAT
118136 TAAA
1 TAAA
118140 CTAAAATACA
Statistics
Matches: 33, Mismatches: 9, Indels: 2
0.75 0.20 0.05
Matches are distributed among these distances:
19 19 0.58
20 8 0.24
21 6 0.18
ACGTcount: A:0.57, C:0.11, G:0.00, T:0.32
Consensus pattern (19 bp):
TAAAATACTAAAACCTAAT
Found at i:118164 original size:19 final size:18
Alignment explanation
Indices: 118136--118175 Score: 62
Period size: 19 Copynumber: 2.2 Consensus size: 18
118126 AAAACCTATT
118136 TAAACTAAAATACAAAAA
1 TAAACTAAAATACAAAAA
*
118154 TAAAGCTAAAATATAAAAA
1 TAAA-CTAAAATACAAAAA
118173 TAA
1 TAA
118176 TATCCTAAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
18 4 0.20
19 16 0.80
ACGTcount: A:0.70, C:0.07, G:0.03, T:0.20
Consensus pattern (18 bp):
TAAACTAAAATACAAAAA
Found at i:118167 original size:64 final size:65
Alignment explanation
Indices: 118021--118167 Score: 196
Period size: 64 Copynumber: 2.3 Consensus size: 65
118011 TTCAAAATCC
118021 TAAAAACAAGCTAAAATA-TCTTAAATCCTAATTAAAACACTTAAAACTATTTAAACTAAAATAC
1 TAAAAA-AAGCTAAAATATTCTTAAATCCTAATTAAAACACTTAAAACTATTTAAACTAAAATAC
118085 A
65 A
* * *
118086 TAAAAAATA-ATATAATATTC-TAAATCCTAATTAAAATAC-TAAAACCTATTTAAACTAAAATA
1 TAAAAAA-AGCTAAAATATTCTTAAATCCTAATTAAAACACTTAAAA-CTATTTAAACTAAAATA
118148 CA
64 CA
118150 -AAAATAAAGCTAAAATAT
1 TAAAA-AAAGCTAAAATAT
118168 AAAAATAATA
Statistics
Matches: 72, Mismatches: 5, Indels: 11
0.82 0.06 0.12
Matches are distributed among these distances:
63 10 0.14
64 53 0.74
65 9 0.12
ACGTcount: A:0.57, C:0.13, G:0.01, T:0.29
Consensus pattern (65 bp):
TAAAAAAAGCTAAAATATTCTTAAATCCTAATTAAAACACTTAAAACTATTTAAACTAAAATACA
Found at i:118185 original size:21 final size:19
Alignment explanation
Indices: 118136--118185 Score: 57
Period size: 19 Copynumber: 2.6 Consensus size: 19
118126 AAAACCTATT
118136 TAAA-CTAAAATACAAAAA
1 TAAACCTAAAATACAAAAA
* *
118154 TAAAGCTAAAATATAAAAA
1 TAAACCTAAAATACAAAAA
118173 TAATATCCTAAAA
1 TAA-A-CCTAAAA
118186 CTTAATTAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
18 4 0.15
19 16 0.59
20 1 0.04
21 6 0.22
ACGTcount: A:0.66, C:0.10, G:0.02, T:0.22
Consensus pattern (19 bp):
TAAACCTAAAATACAAAAA
Found at i:119905 original size:15 final size:16
Alignment explanation
Indices: 119878--119910 Score: 59
Period size: 15 Copynumber: 2.1 Consensus size: 16
119868 CGAACCAAAT
119878 CTGTTTTTATTCTGCA
1 CTGTTTTTATTCTGCA
119894 CTGTTTTT-TTCTGCA
1 CTGTTTTTATTCTGCA
119909 CT
1 CT
119911 ACATTGTTTG
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 9 0.53
16 8 0.47
ACGTcount: A:0.09, C:0.21, G:0.12, T:0.58
Consensus pattern (16 bp):
CTGTTTTTATTCTGCA
Found at i:120081 original size:9 final size:9
Alignment explanation
Indices: 120067--120115 Score: 71
Period size: 9 Copynumber: 5.1 Consensus size: 9
120057 AAAGTTCGCT
120067 AAAAAAATA
1 AAAAAAATA
120076 AAAAAAATA
1 AAAAAAATA
120085 AAACGAAAATA
1 AAA--AAAATA
120096 AAAAAAATA
1 AAAAAAATA
120105 AAAAAATATA
1 AAAAAA-ATA
120115 A
1 A
120116 CGAAATGAGT
Statistics
Matches: 37, Mismatches: 0, Indels: 5
0.88 0.00 0.12
Matches are distributed among these distances:
9 24 0.65
10 4 0.11
11 9 0.24
ACGTcount: A:0.84, C:0.02, G:0.02, T:0.12
Consensus pattern (9 bp):
AAAAAAATA
Found at i:120095 original size:20 final size:20
Alignment explanation
Indices: 120070--120107 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
120060 GTTCGCTAAA
120070 AAAATAAAAAAAATAAAACG
1 AAAATAAAAAAAATAAAACG
120090 AAAATAAAAAAAATAAAA
1 AAAATAAAAAAAATAAAA
120108 AAATATAACG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.84, C:0.03, G:0.03, T:0.11
Consensus pattern (20 bp):
AAAATAAAAAAAATAAAACG
Found at i:130341 original size:37 final size:36
Alignment explanation
Indices: 130285--130572 Score: 342
Period size: 37 Copynumber: 7.9 Consensus size: 36
130275 GATAGATTTA
* *
130285 CTTCACTACTATTCAGTGAAGGCTTAAGATGGCTTTG
1 CTTCACTACTCTTCGGTGAAGGCTTAAGATGG-TTTG
* * *
130322 TTTCACTACTCTTCGGTGAAGGCTTAAGATTGATTTA
1 CTTCACTACTCTTCGGTGAAGGCTTAAGA-TGGTTTG
* *
130359 CTTCACTACTCTTCGGTGAAGGCTTAAGATTGATTG
1 CTTCACTACTCTTCGGTGAAGGCTTAAGATGGTTTG
* * * * *
130395 TTTCACTTCTCTCCGGTGAAGGCTTAAGATTGATTG
1 CTTCACTACTCTTCGGTGAAGGCTTAAGATGGTTTG
* * * *
130431 CTTCACTACTCTTTGGTGAAGGCATAATATGAATTTG
1 CTTCACTACTCTTCGGTGAAGGCTTAAGATG-GTTTG
* * * *
130468 CTTCACTACTATTCGGTAAAGGCTTAAGATTGATTG
1 CTTCACTACTCTTCGGTGAAGGCTTAAGATGGTTTG
* *
130504 CTTCACTACTCTTCGGTGAAGGCATAAGATGGATTTA
1 CTTCACTACTCTTCGGTGAAGGCTTAAGATGG-TTTG
130541 CTTCACTACTCTTCGGTGAAGGCTTAAGATGG
1 CTTCACTACTCTTCGGTGAAGGCTTAAGATGG
130573 CCCGGAGGAC
Statistics
Matches: 211, Mismatches: 37, Indels: 6
0.83 0.15 0.02
Matches are distributed among these distances:
36 91 0.43
37 118 0.56
38 2 0.01
ACGTcount: A:0.24, C:0.18, G:0.21, T:0.36
Consensus pattern (36 bp):
CTTCACTACTCTTCGGTGAAGGCTTAAGATGGTTTG
Found at i:130428 original size:73 final size:73
Alignment explanation
Indices: 130282--130570 Score: 375
Period size: 73 Copynumber: 4.0 Consensus size: 73
130272 CGAGATAGAT
* * * **
130282 TTACTTCACTACTATTCAGTGAAGGCTTAAGATGGCTTTGTTTCACTACTCTTCGGTGAAGGCTT
1 TTACTTCACTACTCTTCGGTGAAGGCATAAGATGGAATTGTTTCACTACTCTTCGGTGAAGGCTT
130347 AAGATTGA
66 AAGATTGA
* * * *
130355 TTTACTTCACTACTCTTCGGTGAAGGCTTAAGATTG-ATTGTTTCACTTCTCTCCGGTGAAGGCT
1 -TTACTTCACTACTCTTCGGTGAAGGCATAAGATGGAATTGTTTCACTACTCTTCGGTGAAGGCT
130419 TAAGATTGA
65 TAAGATTGA
* * * * * *
130428 TTGCTTCACTACTCTTTGGTGAAGGCATAATAT-GAATTTGCTTCACTACTATTCGGTAAAGGCT
1 TTACTTCACTACTCTTCGGTGAAGGCATAAGATGGAA-TTGTTTCACTACTCTTCGGTGAAGGCT
130492 TAAGATTGA
65 TAAGATTGA
* * **
130501 TTGCTTCACTACTCTTCGGTGAAGGCATAAGATGGATTTACTTCACTACTCTTCGGTGAAGGCTT
1 TTACTTCACTACTCTTCGGTGAAGGCATAAGATGGAATTGTTTCACTACTCTTCGGTGAAGGCTT
130566 AAGAT
66 AAGAT
130571 GGCCCGGAGG
Statistics
Matches: 191, Mismatches: 21, Indels: 7
0.87 0.10 0.03
Matches are distributed among these distances:
71 1 0.01
72 30 0.16
73 126 0.66
74 34 0.18
ACGTcount: A:0.25, C:0.18, G:0.20, T:0.37
Consensus pattern (73 bp):
TTACTTCACTACTCTTCGGTGAAGGCATAAGATGGAATTGTTTCACTACTCTTCGGTGAAGGCTT
AAGATTGA
Found at i:130483 original size:109 final size:109
Alignment explanation
Indices: 130285--130570 Score: 376
Period size: 109 Copynumber: 2.6 Consensus size: 109
130275 GATAGATTTA
* * * * * *
130285 CTTCACTACTATTCAGTGAAGGCTTAAGATGGCTTTGTTTCACTACTCTTCGGTGAAGGCTTAAG
1 CTTCACTACTCTCCGGTGAAGGCTTAAGATGG-ATTGCTTCACTACTCTTCGGTGAAGGCATAAG
* *
130350 ATTGATTTACTTCACTACTCTTCGGTGAAGGCTTAAGATTGATTG
65 ATTGATTTACTTCACTACTATTCGGTAAAGGCTTAAGATTGATTG
* * * * *
130395 TTTCACTTCTCTCCGGTGAAGGCTTAAGATTGATTGCTTCACTACTCTTTGGTGAAGGCATAATA
1 CTTCACTACTCTCCGGTGAAGGCTTAAGATGGATTGCTTCACTACTCTTCGGTGAAGGCATAAGA
*
130460 -TGAATTTGCTTCACTACTATTCGGTAAAGGCTTAAGATTGATTG
66 TTG-ATTTACTTCACTACTATTCGGTAAAGGCTTAAGATTGATTG
* * * *
130504 CTTCACTACTCTTCGGTGAAGGCATAAGATGGATTTACTTCACTACTCTTCGGTGAAGGCTTAAG
1 CTTCACTACTCTCCGGTGAAGGCTTAAGATGGA-TTGCTTCACTACTCTTCGGTGAAGGCATAAG
130569 AT
65 AT
130571 GGCCCGGAGG
Statistics
Matches: 150, Mismatches: 23, Indels: 5
0.84 0.13 0.03
Matches are distributed among these distances:
108 2 0.01
109 94 0.63
110 54 0.36
ACGTcount: A:0.24, C:0.19, G:0.21, T:0.36
Consensus pattern (109 bp):
CTTCACTACTCTCCGGTGAAGGCTTAAGATGGATTGCTTCACTACTCTTCGGTGAAGGCATAAGA
TTGATTTACTTCACTACTATTCGGTAAAGGCTTAAGATTGATTG
Found at i:130690 original size:42 final size:42
Alignment explanation
Indices: 130621--130806 Score: 182
Period size: 42 Copynumber: 4.5 Consensus size: 42
130611 CCCGAAGGTA
* * * * *
130621 TTATGGATGGCCCGAAGGACTT-ATCATCTTGCTCAAAAGGC
1 TTATAGATGACCCGAAGGATTTAATCATCATGCTCGAAAGGC
* * *
130662 TTATAGATGACCCGAATGATTTAATCATCATGCTTGAAAGAC
1 TTATAGATGACCCGAAGGATTTAATCATCATGCTCGAAAGGC
* * *
130704 TTACT-GATGTCCCGAAGGATTTAATCATCATGCCCGAAATGC
1 TTA-TAGATGACCCGAAGGATTTAATCATCATGCTCGAAAGGC
** *
130746 TTATAGATGACCTAAATGATTTAATCATCATGCTCGAAAGAG-
1 TTATAGATGACCCGAAGGATTTAATCATCATGCTCGAAAG-GC
*
130788 TTACT-GATGGCCCGAAGGA
1 TTA-TAGATGACCCGAAGGA
130807 CTTACTAAGT
Statistics
Matches: 116, Mismatches: 24, Indels: 9
0.78 0.16 0.06
Matches are distributed among these distances:
41 19 0.16
42 94 0.81
43 3 0.03
ACGTcount: A:0.32, C:0.19, G:0.20, T:0.28
Consensus pattern (42 bp):
TTATAGATGACCCGAAGGATTTAATCATCATGCTCGAAAGGC
Found at i:130752 original size:84 final size:83
Alignment explanation
Indices: 130626--130810 Score: 271
Period size: 84 Copynumber: 2.2 Consensus size: 83
130616 AGGTATTATG
* * *
130626 GATGGCCCGAAGGACTTATCATCTTGCTCAAAAGGCTTATAGATGACCCGAATGATTTAATCATC
1 GATGGCCCGAAGGACTTATCATCATGCCCAAAAGGCTTATAGATGACCCAAATGATTTAATCATC
*
130691 ATGCTTGAAAGACTTACT
66 ATGCTCGAAAGACTTACT
* * * * *
130709 GATGTCCCGAAGGATTTAATCATCATGCCCGAAATGCTTATAGATGACCTAAATGATTTAATCAT
1 GATGGCCCGAAGGACTT-ATCATCATGCCCAAAAGGCTTATAGATGACCCAAATGATTTAATCAT
*
130774 CATGCTCGAAAGAGTTACT
65 CATGCTCGAAAGACTTACT
130793 GATGGCCCGAAGGACTTA
1 GATGGCCCGAAGGACTTA
130811 CTAAGTGCGA
Statistics
Matches: 89, Mismatches: 12, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
83 16 0.18
84 73 0.82
ACGTcount: A:0.32, C:0.20, G:0.20, T:0.28
Consensus pattern (83 bp):
GATGGCCCGAAGGACTTATCATCATGCCCAAAAGGCTTATAGATGACCCAAATGATTTAATCATC
ATGCTCGAAAGACTTACT
Found at i:140633 original size:3 final size:3
Alignment explanation
Indices: 140625--140662 Score: 76
Period size: 3 Copynumber: 12.7 Consensus size: 3
140615 GCAAAAGTTG
140625 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
140663 TTATTATTAT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:140667 original size:3 final size:3
Alignment explanation
Indices: 140661--140705 Score: 81
Period size: 3 Copynumber: 15.0 Consensus size: 3
140651 ATAATAATAA
*
140661 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAC TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
140706 ATTTTAATAT
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 40 1.00
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.64
Consensus pattern (3 bp):
TAT
Found at i:157857 original size:50 final size:51
Alignment explanation
Indices: 157701--157861 Score: 209
Period size: 51 Copynumber: 3.2 Consensus size: 51
157691 TTCATACTAC
* * * * *
157701 AAAAAAATATATCACTTAAAATATACTTACATCGGTGTAAGTGAATAAAAT
1 AAAAAAGTATAACACTTAACACATACTTACACCGGTGTAAGTGAATAAAAT
* *
157752 AAACAAA-TATAACACTTAACACATACTTACACCGGTGTAAGTGAATAGAAC
1 AAA-AAAGTATAACACTTAACACATACTTACACCGGTGTAAGTGAATAAAAT
* * *
157803 AAAAAAGTGTAGCACTTAACACATAC-TACACTGGTGTAAGTGAATAAAAT
1 AAAAAAGTATAACACTTAACACATACTTACACCGGTGTAAGTGAATAAAAT
157853 AAAAAAGTA
1 AAAAAAGTA
157862 AAATAAAAAA
Statistics
Matches: 96, Mismatches: 12, Indels: 5
0.85 0.11 0.04
Matches are distributed among these distances:
50 32 0.33
51 61 0.64
52 3 0.03
ACGTcount: A:0.50, C:0.14, G:0.12, T:0.24
Consensus pattern (51 bp):
AAAAAAGTATAACACTTAACACATACTTACACCGGTGTAAGTGAATAAAAT
Found at i:157865 original size:13 final size:13
Alignment explanation
Indices: 157847--157871 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
157837 TGTAAGTGAA
157847 TAAAATAAAAAAG
1 TAAAATAAAAAAG
157860 TAAAATAAAAAA
1 TAAAATAAAAAA
157872 ATGTAGCACT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.80, C:0.00, G:0.04, T:0.16
Consensus pattern (13 bp):
TAAAATAAAAAAG
Found at i:157877 original size:63 final size:64
Alignment explanation
Indices: 157803--157924 Score: 194
Period size: 64 Copynumber: 1.9 Consensus size: 64
157793 TGAATAGAAC
* *
157803 AAAAAAGTGTAGCACTTAACACATAC-TAC-ACTGGTGTAAGTGAATAAAATAAAAAAGTAAAAT
1 AAAAAAATGTAGCACTTAACACATACTTACAAC-GGTGTAAGTAAATAAAATAAAAAAGTAAAAT
*
157866 AAAAAAATGTAGCACTTAACACATACTTACAACGGTGTAAGTAAATTAAATAAAAAAGT
1 AAAAAAATGTAGCACTTAACACATACTTACAACGGTGTAAGTAAATAAAATAAAAAAGT
157925 GTAACACTTA
Statistics
Matches: 54, Mismatches: 3, Indels: 3
0.90 0.05 0.05
Matches are distributed among these distances:
63 25 0.46
64 27 0.50
65 2 0.04
ACGTcount: A:0.52, C:0.11, G:0.13, T:0.23
Consensus pattern (64 bp):
AAAAAAATGTAGCACTTAACACATACTTACAACGGTGTAAGTAAATAAAATAAAAAAGTAAAAT
Found at i:157933 original size:51 final size:51
Alignment explanation
Indices: 157862--157959 Score: 142
Period size: 51 Copynumber: 1.9 Consensus size: 51
157852 TAAAAAAGTA
* *
157862 AAATAAAAAAATGTAGCACTTAACACATACTTACAACGGTGTAAGTAAATT
1 AAATAAAAAAATGTAACACTTAACACATACTTACAACGATGTAAGTAAATT
* * * *
157913 AAATAAAAAAGTGTAACACTTAACATATATTTACACCGATGTAAGTA
1 AAATAAAAAAATGTAACACTTAACACATACTTACAACGATGTAAGTA
157960 TGTACATATC
Statistics
Matches: 41, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
51 41 1.00
ACGTcount: A:0.49, C:0.13, G:0.11, T:0.27
Consensus pattern (51 bp):
AAATAAAAAAATGTAACACTTAACACATACTTACAACGATGTAAGTAAATT
Found at i:158110 original size:2 final size:2
Alignment explanation
Indices: 158103--158170 Score: 120
Period size: 2 Copynumber: 34.5 Consensus size: 2
158093 AATTTTATTT
158103 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
*
158145 TA TA TA AA TA TA TA TA TA TA T- TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
158171 TTAAAATATA
Statistics
Matches: 63, Mismatches: 2, Indels: 2
0.94 0.03 0.03
Matches are distributed among these distances:
1 1 0.02
2 62 0.98
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:158184 original size:19 final size:19
Alignment explanation
Indices: 158132--158207 Score: 71
Period size: 22 Copynumber: 3.7 Consensus size: 19
158122 ATATATATAT
*
158132 ATATATATATATATATATAAA
1 ATATA-ATATAT-TAAATAAA
*
158153 TATATATATATATTATATTTAAA
1 -ATATA-ATATATTA-A-ATAAA
158176 ATATAATATATTAAATAAA
1 ATATAATATATTAAATAAA
*
158195 ATATAATAAATTA
1 ATATAATATATTA
158208 GAAATATAAT
Statistics
Matches: 48, Mismatches: 4, Indels: 7
0.81 0.07 0.12
Matches are distributed among these distances:
19 16 0.33
20 1 0.02
21 10 0.21
22 17 0.35
23 4 0.08
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (19 bp):
ATATAATATATTAAATAAA
Found at i:158214 original size:16 final size:14
Alignment explanation
Indices: 158174--158217 Score: 52
Period size: 14 Copynumber: 3.0 Consensus size: 14
158164 ATTATATTTA
* *
158174 AAATATAATATATT
1 AAATAAAATATAAT
158188 AAATAAAATATAAT
1 AAATAAAATATAAT
158202 AAATTAGAAATATAAT
1 AAA-TA-AAATATAAT
158218 TATACATTTA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
14 15 0.58
15 2 0.08
16 9 0.35
ACGTcount: A:0.64, C:0.00, G:0.02, T:0.34
Consensus pattern (14 bp):
AAATAAAATATAAT
Found at i:159419 original size:42 final size:42
Alignment explanation
Indices: 159372--159464 Score: 123
Period size: 42 Copynumber: 2.2 Consensus size: 42
159362 GGTGATAATA
** * * *
159372 TAGAGATAGTGCTGGAAATGAATTGTTATTTCATCTTTAGAT
1 TAGAGATAGTGCAAGAAATAAATTATTATTTCATCTTTAGAG
* *
159414 TAGAGATAATGCAAGAAATAAATTATTGTTTCATCTTTAGAG
1 TAGAGATAGTGCAAGAAATAAATTATTATTTCATCTTTAGAG
159456 TAGAGATAG
1 TAGAGATAG
159465 AGATATTGTA
Statistics
Matches: 43, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
42 43 1.00
ACGTcount: A:0.37, C:0.06, G:0.20, T:0.37
Consensus pattern (42 bp):
TAGAGATAGTGCAAGAAATAAATTATTATTTCATCTTTAGAG
Found at i:160203 original size:20 final size:20
Alignment explanation
Indices: 160178--160215 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
160168 GGGAATTTTA
160178 TTTTATTTTATTTA-ATAATT
1 TTTTA-TTTATTTATATAATT
160198 TTTTATTTATTTATATAA
1 TTTTATTTATTTATATAA
160216 AAAATAAATA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
19 8 0.47
20 9 0.53
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (20 bp):
TTTTATTTATTTATATAATT
Found at i:163624 original size:20 final size:20
Alignment explanation
Indices: 163590--163629 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
163580 AATTTAAAAG
*
163590 TTAGAATGTTGAATTTGATT
1 TTAGAATGTTGAATTGGATT
163610 TTAGAATG-TGAAATTGGATT
1 TTAGAATGTTG-AATTGGATT
163630 GATTTGGAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 2 0.11
20 16 0.89
ACGTcount: A:0.33, C:0.00, G:0.23, T:0.45
Consensus pattern (20 bp):
TTAGAATGTTGAATTGGATT
Found at i:164702 original size:29 final size:29
Alignment explanation
Indices: 164660--164715 Score: 78
Period size: 29 Copynumber: 1.9 Consensus size: 29
164650 CAAACTTTGG
*
164660 TTAGTGGCCAAAATGTAAA-ATTTGAAAGC
1 TTAGTGGCCAAAATATAAAGA-TTGAAAGC
*
164689 TTAGTGGCTAAAATATAAAGATTGAAA
1 TTAGTGGCCAAAATATAAAGATTGAAA
164716 AAGTTTAGGG
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
29 23 0.96
30 1 0.04
ACGTcount: A:0.45, C:0.07, G:0.20, T:0.29
Consensus pattern (29 bp):
TTAGTGGCCAAAATATAAAGATTGAAAGC
Found at i:165990 original size:19 final size:20
Alignment explanation
Indices: 165947--165992 Score: 76
Period size: 20 Copynumber: 2.4 Consensus size: 20
165937 TACTATGCTG
*
165947 GAAATTTATGTTAGAATGTT
1 GAAATTGATGTTAGAATGTT
165967 GAAATTGATGTTAGAATG-T
1 GAAATTGATGTTAGAATGTT
165986 GAAATTG
1 GAAATTG
165993 GGTCATATTG
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
19 8 0.32
20 17 0.68
ACGTcount: A:0.37, C:0.00, G:0.24, T:0.39
Consensus pattern (20 bp):
GAAATTGATGTTAGAATGTT
Found at i:169314 original size:86 final size:86
Alignment explanation
Indices: 169169--169338 Score: 313
Period size: 86 Copynumber: 2.0 Consensus size: 86
169159 AAAAACAAAG
*
169169 ATGGATTTATGCAATAATATATGGATTATCATCAATTAAATAATGTAGAAGGGAGGAATAAGTAT
1 ATGGATCTATGCAATAATATATGGATTATCATCAATTAAATAATGTAGAAGGGAGGAATAAGTAT
169234 CATCTTCCAAGGATTGATGAT
66 CATCTTCCAAGGATTGATGAT
*
169255 ATGGATCTATGCAATAATATATGGATTATCATCAATTAAATAATGTAGTAGGGAGGAATAAGTAT
1 ATGGATCTATGCAATAATATATGGATTATCATCAATTAAATAATGTAGAAGGGAGGAATAAGTAT
*
169320 TATCTTCCAAGGATTGATG
66 CATCTTCCAAGGATTGATG
169339 GTATTTTGAT
Statistics
Matches: 81, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
86 81 1.00
ACGTcount: A:0.39, C:0.08, G:0.20, T:0.33
Consensus pattern (86 bp):
ATGGATCTATGCAATAATATATGGATTATCATCAATTAAATAATGTAGAAGGGAGGAATAAGTAT
CATCTTCCAAGGATTGATGAT
Found at i:171599 original size:13 final size:13
Alignment explanation
Indices: 171581--171605 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
171571 AAATGAATTT
171581 TAAATTAACATGA
1 TAAATTAACATGA
171594 TAAATTAACATG
1 TAAATTAACATG
171606 CAATTAAGGA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.52, C:0.08, G:0.08, T:0.32
Consensus pattern (13 bp):
TAAATTAACATGA
Found at i:172255 original size:19 final size:20
Alignment explanation
Indices: 172212--172257 Score: 67
Period size: 20 Copynumber: 2.4 Consensus size: 20
172202 TACTATGCTG
* *
172212 GAAATTTATGTTAGAGTGTT
1 GAAATTGATGTTAGAATGTT
172232 GAAATTGATGTTAGAATG-T
1 GAAATTGATGTTAGAATGTT
172251 GAAATTG
1 GAAATTG
172258 GGTCATTTTG
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
19 8 0.33
20 16 0.67
ACGTcount: A:0.35, C:0.00, G:0.26, T:0.39
Consensus pattern (20 bp):
GAAATTGATGTTAGAATGTT
Found at i:174739 original size:17 final size:17
Alignment explanation
Indices: 174637--174776 Score: 97
Period size: 17 Copynumber: 8.2 Consensus size: 17
174627 ACATGAGCTA
* *
174637 AAAAGAAATAGTATAGT
1 AAAAGAAATAATACAGT
*
174654 AAAAGTAGA-AATACAGT
1 AAAAG-AAATAATACAGT
* *
174671 AAAAGTAACAATACAGT
1 AAAAGAAATAATACAGT
* * *
174688 AAATGAAA-AGGTACAAT
1 AAAAGAAATA-ATACAGT
* *
174705 AAAAG-AATCAGTATAGT
1 AAAAGAAAT-AATACAGT
174722 AAAAGAAATAATACAGT
1 AAAAGAAATAATACAGT
* * *
174739 AAGAGAAATAATATAAT
1 AAAAGAAATAATACAGT
*
174756 AAAAGAAATAAGTACAAT
1 AAAAGAAATAA-TACAGT
174774 AAA
1 AAA
174777 GGAACAATAC
Statistics
Matches: 97, Mismatches: 19, Indels: 13
0.75 0.15 0.10
Matches are distributed among these distances:
16 4 0.04
17 79 0.81
18 14 0.14
ACGTcount: A:0.61, C:0.05, G:0.14, T:0.19
Consensus pattern (17 bp):
AAAAGAAATAATACAGT
Found at i:174777 original size:17 final size:16
Alignment explanation
Indices: 174723--174788 Score: 69
Period size: 17 Copynumber: 3.9 Consensus size: 16
174713 CAGTATAGTA
*
174723 AAAGAAATAATACAGT
1 AAAGAAATAATACAAT
*
174739 AAGAGAAATAATATAAT
1 AA-AGAAATAATACAAT
174756 AAAAGAAATAAGTACAAT
1 -AAAGAAATAA-TACAAT
* *
174774 AAAGGAACAATACAA
1 AAAGAAATAATACAA
174789 AAAACAGGAA
Statistics
Matches: 42, Mismatches: 5, Indels: 6
0.79 0.09 0.11
Matches are distributed among these distances:
16 7 0.17
17 28 0.67
18 7 0.17
ACGTcount: A:0.65, C:0.06, G:0.12, T:0.17
Consensus pattern (16 bp):
AAAGAAATAATACAAT
Found at i:176744 original size:23 final size:23
Alignment explanation
Indices: 176683--176793 Score: 104
Period size: 23 Copynumber: 4.9 Consensus size: 23
176673 CAGCTCGTAA
*
176683 TTTGCACCGAAGTGCCACATAA-
1 TTTGCAACGAAGTGCCACATAAG
*
176705 -TTGTC-TCGAAG-GACCACATAAG
1 TTTG-CAACGAAGTG-CCACATAAG
**
176727 TTTGCATTGAAGTGCCACATAAG
1 TTTGCAACGAAGTGCCACATAAG
* *
176750 TTTACAACGAAGTGCCACATAGG
1 TTTGCAACGAAGTGCCACATAAG
* *
176773 TTTGCACCGAAGTTCCACATA
1 TTTGCAACGAAGTGCCACATA
176794 TTTGTCCCGA
Statistics
Matches: 74, Mismatches: 9, Indels: 11
0.79 0.10 0.12
Matches are distributed among these distances:
20 1 0.01
21 16 0.22
22 2 0.03
23 54 0.73
24 1 0.01
ACGTcount: A:0.32, C:0.23, G:0.20, T:0.25
Consensus pattern (23 bp):
TTTGCAACGAAGTGCCACATAAG
Found at i:176803 original size:21 final size:21
Alignment explanation
Indices: 176757--176835 Score: 72
Period size: 21 Copynumber: 3.7 Consensus size: 21
176747 AAGTTTACAA
*
176757 CGAAGTGCCACATAGGTTTG-CAC
1 CGAAGTACCACATA--TTTGTC-C
*
176780 CGAAGTTCCACATATTTGTCC
1 CGAAGTACCACATATTTGTCC
*
176801 CGAA-TGACCACATATTTATCC
1 CGAAGT-ACCACATATTTGTCC
*
176822 CGAAGGACCACATA
1 CGAAGTACCACATA
176836 AGACCCTCGA
Statistics
Matches: 49, Mismatches: 4, Indels: 8
0.80 0.07 0.13
Matches are distributed among these distances:
20 1 0.02
21 34 0.69
22 1 0.02
23 13 0.27
ACGTcount: A:0.30, C:0.28, G:0.18, T:0.24
Consensus pattern (21 bp):
CGAAGTACCACATATTTGTCC
Found at i:177865 original size:21 final size:21
Alignment explanation
Indices: 177841--177880 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
177831 ATGTTTAATG
177841 AAAAAGATACCAATTGTTAAC
1 AAAAAGATACCAATTGTTAAC
* *
177862 AAAATGATATCAATTGTTA
1 AAAAAGATACCAATTGTTA
177881 CCAATTGTTT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.50, C:0.10, G:0.10, T:0.30
Consensus pattern (21 bp):
AAAAAGATACCAATTGTTAAC
Found at i:179033 original size:19 final size:20
Alignment explanation
Indices: 178990--179037 Score: 62
Period size: 19 Copynumber: 2.5 Consensus size: 20
178980 TCTAAATCCT
*
178990 TTTTCAAAATTTCATTTTGG
1 TTTTCAAAATCTCATTTTGG
* *
179010 CTTTCAAAATCT-ATTTTTG
1 TTTTCAAAATCTCATTTTGG
179029 TTTTCAAAA
1 TTTTCAAAA
179038 GAAAATCGTT
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
19 14 0.58
20 10 0.42
ACGTcount: A:0.29, C:0.12, G:0.06, T:0.52
Consensus pattern (20 bp):
TTTTCAAAATCTCATTTTGG
Found at i:180769 original size:21 final size:20
Alignment explanation
Indices: 180722--180760 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 20
180712 CGTATTCACT
180722 TATTCAAAGTTCAAATTTAC
1 TATTCAAAGTTCAAATTTAC
*
180742 TGATTCAAAGTTCACATTT
1 T-ATTCAAAGTTCAAATTT
180761 CCATATTCAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 1 0.06
21 16 0.94
ACGTcount: A:0.36, C:0.15, G:0.08, T:0.41
Consensus pattern (20 bp):
TATTCAAAGTTCAAATTTAC
Found at i:181217 original size:53 final size:54
Alignment explanation
Indices: 181154--181272 Score: 179
Period size: 53 Copynumber: 2.2 Consensus size: 54
181144 GATACTTCCC
*
181154 TTCAAGGGTATCAATACCTCCTCATGGTACCGATACCGAA-ATAGCATTCGATG-
1 TTCAAGGGTATCAATACCTCCTCAAGGTACCGATACC-AATATAGCATTCGATGT
* * *
181207 TTCAAGGGTATCGATACCTCCTCAAGGTACCGATACCAATCTGGCATTCGATGT
1 TTCAAGGGTATCAATACCTCCTCAAGGTACCGATACCAATATAGCATTCGATGT
181261 TTCAAGGGTATC
1 TTCAAGGGTATC
181273 GATATCATCC
Statistics
Matches: 60, Mismatches: 4, Indels: 3
0.90 0.06 0.04
Matches are distributed among these distances:
52 2 0.03
53 46 0.77
54 12 0.20
ACGTcount: A:0.28, C:0.24, G:0.20, T:0.28
Consensus pattern (54 bp):
TTCAAGGGTATCAATACCTCCTCAAGGTACCGATACCAATATAGCATTCGATGT
Found at i:182851 original size:2 final size:2
Alignment explanation
Indices: 182844--182869 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
182834 TTTTAATGCA
182844 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
182870 TCAATTCGGT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:185464 original size:40 final size:41
Alignment explanation
Indices: 185371--185515 Score: 111
Period size: 40 Copynumber: 3.6 Consensus size: 41
185361 TAGCAGTATT
* * *
185371 TTTTTGAACAAACGCCGGTAAATACTCGTACTTTAATGGCG
1 TTTTTGTACAAACGCCGATAAATACTCGTAATTTAATGGCG
** * * *
185412 TTTTCATTCAAACGCCTATAAATTA-T-GTAATTTAGTGGCG
1 TTTTTGTACAAACGCCGATAAA-TACTCGTAATTTAATGGCG
* * *
185452 TTTTTGTACAAACGCCG-TGAAAGACTCGT-ATTTAGTGGTG
1 TTTTTGTACAAACGCCGAT-AAATACTCGTAATTTAATGGCG
* *
185492 -TTTTGATATAAACGCCGCTAAATA
1 TTTTTG-TACAAACGCCGATAAATA
185516 TTATACTTTA
Statistics
Matches: 82, Mismatches: 16, Indels: 13
0.74 0.14 0.12
Matches are distributed among these distances:
39 7 0.09
40 53 0.65
41 20 0.24
42 2 0.02
ACGTcount: A:0.30, C:0.17, G:0.19, T:0.35
Consensus pattern (41 bp):
TTTTTGTACAAACGCCGATAAATACTCGTAATTTAATGGCG
Found at i:185555 original size:41 final size:40
Alignment explanation
Indices: 185510--185618 Score: 96
Period size: 42 Copynumber: 2.7 Consensus size: 40
185500 TAAACGCCGC
*
185510 TAAATATTATACTTTAGTGGCATTTTTGGA-ACAA-ATGTCGG
1 TAAATATTATACTTTAGTGGCATTTTTAGATA-AACAT-T-GG
** * * * *
185551 TAAATACTCGTTCTTTAGAGGCATTTTTATATAAACATTGT
1 TAAATA-TTATACTTTAGTGGCATTTTTAGATAAACATTGG
*
185592 TAAATATTATACTTTAGTGGCGTTTTT
1 TAAATATTATACTTTAGTGGCATTTTT
185619 TTTACAAACG
Statistics
Matches: 53, Mismatches: 12, Indels: 7
0.74 0.17 0.10
Matches are distributed among these distances:
40 16 0.30
41 13 0.25
42 21 0.40
43 3 0.06
ACGTcount: A:0.30, C:0.10, G:0.16, T:0.44
Consensus pattern (40 bp):
TAAATATTATACTTTAGTGGCATTTTTAGATAAACATTGG
Found at i:185596 original size:82 final size:80
Alignment explanation
Indices: 185370--185827 Score: 347
Period size: 82 Copynumber: 5.6 Consensus size: 80
185360 TTAGCAGTAT
* * * * * *
185370 TTTTTTGAACAAACGCCGGTAAATACTCGTACTTTAATGGCGTTTTCAT-TCAAACGCCT-ATAA
1 TTTTTT-AACAAACGTCGGTAAATACTCGTATTTTAGTGGCGTTTTTATAT-AAACG-TTGCTAA
* *
185433 ATTAT-GTAATTTAGTGGC
63 A-TATCATACTTTAGTGGC
* * * * **
185451 GTTTTTGT-ACAAACG-CCGTGAAAGACTCGTA-TTTAGTGGTGTTTTGATATAAACGCCGCTAA
1 -TTTTT-TAACAAACGTCGGT-AAATACTCGTATTTTAGTGGCGTTTTTATATAAACGTTGCTAA
*
185513 ATATTATACTTTAGTGGC
63 ATATCATACTTTAGTGGC
* * * * * *
185531 ATTTTTGGAACAAATGTCGGTAAATACTCGT-TCTTTAGAGGCATTTTTATATAAACATTGTTAA
1 -TTTTT-TAACAAACGTCGGTAAATACTCGTAT-TTTAGTGGCGTTTTTATATAAACGTTGCTAA
*
185595 ATATTATACTTTAGTGGC
63 ATATCATACTTTAGTGGC
* * * * * **
185613 GTTTTTTTTACAAACG-CTGCTAAACAATCGTATTTTAGTGGCGTTTTTATATTAACGCCGCTAA
1 --TTTTTTAACAAACGTC-GGTAAATACTCGTATTTTAGTGGCGTTTTTATATAAACGTTGCTAA
* * *
185677 ATATCGTACTTTAATGAC
63 ATATCATACTTTAGTGGC
* * *
185695 TTTTTTTAAAAAAAATGTTGGTAAATACTCGTATTTTAGTGGCGTTTTTATATAAACGTTGCTAA
1 -TTTTTT--AACAAACGTCGGTAAATACTCGTATTTTAGTGGCGTTTTTATATAAACGTTGCTAA
*
185760 ATACTCATACTTTAGGGGC
63 ATA-TCATACTTTAGTGGC
* * * *
185779 TTTTTTAACAAACATCGGTAAATACTCATACTTTAGTGGCGTTTGTATA
1 TTTTTTAACAAACGTCGGTAAATACTCGTATTTTAGTGGCGTTTTTATA
185828 CAAGCGCCGC
Statistics
Matches: 299, Mismatches: 61, Indels: 33
0.76 0.16 0.08
Matches are distributed among these distances:
79 4 0.01
80 43 0.14
81 77 0.26
82 103 0.34
83 61 0.20
84 11 0.04
ACGTcount: A:0.30, C:0.14, G:0.17, T:0.40
Consensus pattern (80 bp):
TTTTTTAACAAACGTCGGTAAATACTCGTATTTTAGTGGCGTTTTTATATAAACGTTGCTAAATA
TCATACTTTAGTGGC
Done.